Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167993.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_25, 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: 17943224
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 94000 characters in sequence are not A, C, G, or T
File 76 of 100
Found at i:13701559 original size:19 final size:21
Alignment explanation
Indices: 13701491--13701566 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 21
13701481 TGTAGATTTT
13701491 TTTTTTCATTTTATTTTTA--
1 TTTTTTCATTTTATTTTTAGC
*
13701510 TTTTTTGATTTTATTTTTTTAAGC
1 TTTTTTCATTTTA--TTTTT-AGC
13701534 TTATTTT-ATTTTATTTTTAG-
1 TT-TTTTCATTTTATTTTTAGC
*
13701554 TTTTTTTATTTTA
1 TTTTTTCATTTTA
13701567 CTAATTTTAT
Statistics
Matches: 49, Mismatches: 1, Indels: 13
0.78 0.02 0.21
Matches are distributed among these distances:
19 16 0.33
20 8 0.16
21 7 0.14
22 6 0.12
24 8 0.16
25 4 0.08
ACGTcount: A:0.17, C:0.03, G:0.04, T:0.76
Consensus pattern (21 bp):
TTTTTTCATTTTATTTTTAGC
Found at i:13701581 original size:20 final size:20
Alignment explanation
Indices: 13701556--13701597 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
13701546 ATTTTTAGTT
*
13701556 TTTTTATTTTACT-AATTTTA
1 TTTTTATTTGA-TAAATTTTA
13701576 TTTTTATTTGATAAATTTTA
1 TTTTTATTTGATAAATTTTA
13701596 TT
1 TT
13701598 ATTTTGTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 1 0.05
20 19 0.95
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTTTATTTGATAAATTTTA
Found at i:13701887 original size:11 final size:12
Alignment explanation
Indices: 13701868--13701892 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13701858 TAAAATTTTC
13701868 AATTTTTTTACA
1 AATTTTTTTACA
13701880 AATTTTTTTACA
1 AATTTTTTTACA
13701892 A
1 A
13701893 TAAAATCTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (12 bp):
AATTTTTTTACA
Found at i:13706372 original size:10 final size:10
Alignment explanation
Indices: 13706359--13706400 Score: 57
Period size: 10 Copynumber: 4.2 Consensus size: 10
13706349 AGAGAGAAGC
13706359 AAAAAGAAAA
1 AAAAAGAAAA
*
13706369 AAAAAGACAA
1 AAAAAGAAAA
*
13706379 AAAAAGACAA
1 AAAAAGAAAA
*
13706389 AAAAGGAAAA
1 AAAAAGAAAA
13706399 AA
1 AA
13706401 GAATACGTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 29 1.00
ACGTcount: A:0.83, C:0.05, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:13707265 original size:60 final size:60
Alignment explanation
Indices: 13707130--13707316 Score: 146
Period size: 60 Copynumber: 3.1 Consensus size: 60
13707120 TAACTCATGA
* ***
13707130 CATCATC-CTGATCATTCATCTATAACCTCGACTTGGTCTTGGTCGCTTTCAAACTCACAG
1 CATCATCTC-GATCATTCATATATAACCTCGACTCAATCTTGGTCGCTTTCAAACTCACAG
* * * * * * *
13707190 CATCGTCTTGGTCATTCATATATAATCTCGACTCAATCTTGGTCAG-TTTTAGACTCGCAG
1 CATCATCTCGATCATTCATATATAACCTCGACTCAATCTTGGTC-GCTTTCAAACTCACAG
* * ** * * * * *
13707250 CATCATCTCGATCATTTATCTACGACCTTGACTCAGTCTTGGTTGTTTTCAGACTCA-AGG
1 CATCATCTCGATCATTCATATATAACCTCGACTCAATCTTGGTCGCTTTCAAACTCACA-G
13707310 CATCATC
1 CATCATC
13707317 CTAGTCATCT
Statistics
Matches: 99, Mismatches: 24, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
59 2 0.02
60 96 0.97
61 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.35
Consensus pattern (60 bp):
CATCATCTCGATCATTCATATATAACCTCGACTCAATCTTGGTCGCTTTCAAACTCACAG
Found at i:13707801 original size:18 final size:17
Alignment explanation
Indices: 13707775--13707842 Score: 66
Period size: 17 Copynumber: 3.9 Consensus size: 17
13707765 TTCTTTTTTG
*
13707775 TGAATCTGAAAGTCTTTA
1 TGAACCTGAAA-TCTTTA
*
13707793 TGAACCTGAAATCTTTG
1 TGAACCTGAAATCTTTA
*
13707810 TGAACCT-AGAATCTTTG
1 TGAACCTGA-AATCTTTA
*
13707827 TGAAACTTGAAATCTT
1 TG-AACCTGAAATCTT
13707843 GCAAATCTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
16 1 0.02
17 22 0.50
18 20 0.45
19 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (17 bp):
TGAACCTGAAATCTTTA
Found at i:13707813 original size:17 final size:17
Alignment explanation
Indices: 13707771--13707842 Score: 83
Period size: 18 Copynumber: 4.1 Consensus size: 17
13707761 ATCTTTCTTT
*
13707771 TTTGTGAATCTGAAAGTC
1 TTTGTGAACCTGAAA-TC
*
13707789 TTTATGAACCTGAAATC
1 TTTGTGAACCTGAAATC
13707806 TTTGTGAACCT-AGAATC
1 TTTGTGAACCTGA-AATC
*
13707823 TTTGTGAAACTTGAAATC
1 TTTGTG-AACCTGAAATC
13707841 TT
1 TT
13707843 GCAAATCTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
16 1 0.02
17 22 0.47
18 23 0.49
19 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.39
Consensus pattern (17 bp):
TTTGTGAACCTGAAATC
Found at i:13707850 original size:86 final size:86
Alignment explanation
Indices: 13707759--13707926 Score: 221
Period size: 86 Copynumber: 2.0 Consensus size: 86
13707749 AAAACCTTTT
* * * * * * *
13707759 AAATCTTTCTTTTTTGTGAATCTGAAAGT-CTTTATGAACCTGAAATCTTTGTGAACCTAGAATC
1 AAATCTTTCTTTCTTGTGAATCTAAAAATACTTT-CGAACCTGAAATCTTTGCGAACCTAAAACC
**
13707823 TTTGTGAAACTTGAAATCTTGC
65 TTTGCCAAACTTGAAATCTTGC
* *
13707845 AAATCTTTCTTTCTTGTGAATCTAAAAATACTTTCGAGCCTGAAATCTTTGCGAATCTAAAACCT
1 AAATCTTTCTTTCTTGTGAATCTAAAAATACTTTCGAACCTGAAATCTTTGCGAACCTAAAACCT
13707910 TTGCCAAACTTGAAATC
66 TTGCCAAACTTGAAATC
13707927 CTGTTCATCC
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
86 66 0.94
87 4 0.06
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (86 bp):
AAATCTTTCTTTCTTGTGAATCTAAAAATACTTTCGAACCTGAAATCTTTGCGAACCTAAAACCT
TTGCCAAACTTGAAATCTTGC
Found at i:13708487 original size:88 final size:88
Alignment explanation
Indices: 13708338--13708502 Score: 271
Period size: 88 Copynumber: 1.9 Consensus size: 88
13708328 ATAACACCGC
* *
13708338 AATTTATACTAACCTGATAATTACTGATGAAACCTGAACAAACCTTGTGAGAAACAAATAGAAAG
1 AATTTATACTAACCTAATAATTACTGATGAAACCTGAACAAACCTTGTGAAAAACAAATAGAAAG
13708403 TATCAATATAAAAAAACTACCAT
66 TATCAATATAAAAAAACTACCAT
13708426 AATTTATACTAACCTAATAATTA-TCGATGAAACCTGAACAAA-CTCTGTGAAAAACAAATAGAA
1 AATTTATACTAACCTAATAATTACT-GATGAAACCTGAACAAACCT-TGTGAAAAACAAATAGAA
*
13708489 AGTATCAATGTAAA
64 AGTATCAATATAAA
13708503 TATTAAATTA
Statistics
Matches: 72, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
87 3 0.04
88 69 0.96
ACGTcount: A:0.49, C:0.15, G:0.10, T:0.25
Consensus pattern (88 bp):
AATTTATACTAACCTAATAATTACTGATGAAACCTGAACAAACCTTGTGAAAAACAAATAGAAAG
TATCAATATAAAAAAACTACCAT
Found at i:13708983 original size:11 final size:13
Alignment explanation
Indices: 13708947--13708987 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 13
13708937 TTAAAACCCC
*
13708947 AAAAATAAAAAT-
1 AAAAATAACAATA
13708959 AAAAATAACAATA
1 AAAAATAACAATA
13708972 AAAAAT-AC-ATA
1 AAAAATAACAATA
13708983 AAAAA
1 AAAAA
13708988 GATAAACAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 8 0.30
12 13 0.48
13 6 0.22
ACGTcount: A:0.80, C:0.05, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAATAACAATA
Found at i:13709859 original size:22 final size:21
Alignment explanation
Indices: 13709821--13709869 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
13709811 TAAATTTTGG
13709821 TTAAA-TAAAGTTCGAGTCTTT
1 TTAAATTAAAGTTCGAGT-TTT
* *
13709842 TTAAATTAAATTTTGAGTTTT
1 TTAAATTAAAGTTCGAGTTTT
*
13709863 TTCAATT
1 TTAAATT
13709870 TTCAAATCGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.33, C:0.06, G:0.10, T:0.51
Consensus pattern (21 bp):
TTAAATTAAAGTTCGAGTTTT
Found at i:13713089 original size:29 final size:27
Alignment explanation
Indices: 13713045--13713114 Score: 88
Period size: 29 Copynumber: 2.5 Consensus size: 27
13713035 TCAATTTAAT
*
13713045 ATTATTAT-TTTATAATTTAAAATTTTT
1 ATTATTATATTT-TAATTTAAAATTTTA
*
13713072 ATTATATATAATTTTAATTTAATATTTTA
1 ATTAT-TAT-ATTTTAATTTAAAATTTTA
13713101 ATTATTATATTTTA
1 ATTATTATATTTTA
13713115 TTATAATTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
27 11 0.29
28 6 0.16
29 18 0.47
30 3 0.08
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (27 bp):
ATTATTATATTTTAATTTAAAATTTTA
Found at i:13713100 original size:13 final size:14
Alignment explanation
Indices: 13713057--13713121 Score: 64
Period size: 13 Copynumber: 4.7 Consensus size: 14
13713047 TATTATTTTA
*
13713057 TAATT-TAAAATTT
1 TAATTATAATATTT
*
13713070 TTATTATATATAATTT
1 TAATTATA-AT-ATTT
13713086 TAATT-TAATATTT
1 TAATTATAATATTT
*
13713099 TAATTATTATATTT
1 TAATTATAATATTT
13713113 T-ATTATAAT
1 TAATTATAAT
13713122 TTAATTTATT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
13 20 0.47
14 12 0.28
15 3 0.07
16 8 0.19
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TAATTATAATATTT
Found at i:13713122 original size:32 final size:32
Alignment explanation
Indices: 13713037--13713126 Score: 102
Period size: 32 Copynumber: 3.0 Consensus size: 32
13713027 TTTTTTTATC
13713037 AATTTAA-TATTAT-TATT-TTATAATTTAA-
1 AATTTAATTATTATATATTATTATAATTTAAT
* *
13713065 AATTT--TTATTATATATAATTTTAATTTAAT
1 AATTTAATTATTATATATTATTATAATTTAAT
* *
13713095 ATTTTAATTATTATATTTTATTATAATTTAAT
1 AATTTAATTATTATATATTATTATAATTTAAT
13713127 TTATTATCAC
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
27 6 0.12
28 8 0.16
29 10 0.20
30 4 0.08
32 22 0.44
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (32 bp):
AATTTAATTATTATATATTATTATAATTTAAT
Found at i:13713864 original size:21 final size:22
Alignment explanation
Indices: 13713837--13713890 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
13713827 ACTAGACAAA
13713837 AATAAAAT-TATGTAATATTTT
1 AATAAAATATATGTAATATTTT
* *
13713858 ATTAAAATCATATTTAATATTTT
1 AATAAAAT-ATATGTAATATTTT
13713881 AAT-AAATATA
1 AATAAAATATA
13713891 ATAAATAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 10 0.36
22 4 0.14
23 14 0.50
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (22 bp):
AATAAAATATATGTAATATTTT
Found at i:13713908 original size:14 final size:14
Alignment explanation
Indices: 13713889--13713926 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
13713879 TTAATAAATA
13713889 TAATAAATAATAAC
1 TAATAAATAATAAC
*
13713903 TAATAAATAATTAC
1 TAATAAATAATAAC
*
13713917 AAAT-AATAAT
1 TAATAAATAAT
13713927 TATTATTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 6 0.27
14 16 0.73
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (14 bp):
TAATAAATAATAAC
Found at i:13715392 original size:18 final size:19
Alignment explanation
Indices: 13715355--13715397 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
13715345 TTTATTAATA
*
13715355 TTATTTAATAAATTATA-T
1 TTATTTAATAAATTAAATT
13715373 TTATTTAAT-AATATAAATT
1 TTATTTAATAAAT-TAAATT
13715392 TTATTT
1 TTATTT
13715398 TAGATTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 3 0.14
18 12 0.55
19 7 0.32
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTATTTAATAAATTAAATT
Found at i:13717641 original size:13 final size:13
Alignment explanation
Indices: 13717623--13717648 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13717613 GTTTAGAGTA
13717623 CGAGCAATAGAAC
1 CGAGCAATAGAAC
13717636 CGAGCAATAGAAC
1 CGAGCAATAGAAC
13717649 TAATGTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.23, T:0.08
Consensus pattern (13 bp):
CGAGCAATAGAAC
Found at i:13718195 original size:30 final size:30
Alignment explanation
Indices: 13718167--13718226 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
13718157 TGTTTTTAAG
*
13718167 TTAATATTTGAAAATTTGTTATTATTTAATGA
1 TTAA-ATTTAAAAATTTGTTA-TATTTAATGA
* *
13718199 TTTAATTTAAAAATTTTTTATATTTAAT
1 TTAAATTTAAAAATTTGTTATATTTAAT
13718227 TATTTTGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 8 0.32
31 14 0.56
32 3 0.12
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (30 bp):
TTAAATTTAAAAATTTGTTATATTTAATGA
Found at i:13720886 original size:23 final size:23
Alignment explanation
Indices: 13720858--13720908 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
13720848 ACTTTTTGGA
13720858 CTTTG-ACAGATCTCTCAAACTCT
1 CTTTGAAC-GATCTCTCAAACTCT
* **
13720881 TTTTGAACTTTCTCTCAAACTCT
1 CTTTGAACGATCTCTCAAACTCT
13720904 CTTTG
1 CTTTG
13720909 CAATCCTCTC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
23 21 0.91
24 2 0.09
ACGTcount: A:0.22, C:0.27, G:0.08, T:0.43
Consensus pattern (23 bp):
CTTTGAACGATCTCTCAAACTCT
Found at i:13726353 original size:28 final size:29
Alignment explanation
Indices: 13726299--13726361 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 29
13726289 TGATAAGAAG
13726299 AAAATTTTCTCTCACGCACTTCATTCCTA
1 AAAATTTTCTCTCACGCACTTCATTCCTA
*
13726328 AAAATTTTCTCTCATGCACTT-ATTCCTA
1 AAAATTTTCTCTCACGCACTTCATTCCTA
13726356 AAAATT
1 AAAATT
13726362 ATCTTTTCCT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 13 0.39
29 20 0.61
ACGTcount: A:0.32, C:0.25, G:0.03, T:0.40
Consensus pattern (29 bp):
AAAATTTTCTCTCACGCACTTCATTCCTA
Found at i:13726930 original size:35 final size:34
Alignment explanation
Indices: 13726850--13726930 Score: 83
Period size: 35 Copynumber: 2.3 Consensus size: 34
13726840 TATTTTTTAG
* * *
13726850 GAAAACACTTTTTACTTATTTCTCTTTTTTTTTT
1 GAAAACACTTTGTACTTATTTCTCTTTCTTTCTT
* *
13726884 AAAGAATACTTTAGTACTTA-TTCTCTATTCTTTCTT
1 GAA-AACACTTT-GTACTTATTTCTCT-TTCTTTCTT
13726920 GAAAACACTTT
1 GAAAACACTTT
13726931 CCACTACTTA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
34 2 0.05
35 20 0.54
36 15 0.41
ACGTcount: A:0.27, C:0.16, G:0.05, T:0.52
Consensus pattern (34 bp):
GAAAACACTTTGTACTTATTTCTCTTTCTTTCTT
Found at i:13727432 original size:41 final size:41
Alignment explanation
Indices: 13727375--13727452 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
13727365 AAGCATGTGT
*
13727375 TAAGACTATTTTAGTGAAGGTTATTTTAT-GAAATAGGTGA
1 TAAGACTATTTCAGTGAAGGTTATTTTATGGAAATAGGTGA
13727415 TAAGACCTATTTCAGTGAAGGTTATTTTATGGAAATAG
1 TAAGA-CTATTTCAGTGAAGGTTATTTTATGGAAATAG
13727453 CTATTCATGG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
40 5 0.14
41 23 0.66
42 7 0.20
ACGTcount: A:0.35, C:0.05, G:0.22, T:0.38
Consensus pattern (41 bp):
TAAGACTATTTCAGTGAAGGTTATTTTATGGAAATAGGTGA
Found at i:13729403 original size:22 final size:23
Alignment explanation
Indices: 13729366--13729410 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
13729356 TGCAAAGTTA
13729366 TAAAAGAATTTTTTAAAAACTAT
1 TAAAAGAATTTTTTAAAAACTAT
*
13729389 TAAAAGAA-TTTTTAAAATCTAT
1 TAAAAGAATTTTTTAAAAACTAT
13729411 CCCTGTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.40
Consensus pattern (23 bp):
TAAAAGAATTTTTTAAAAACTAT
Found at i:13738596 original size:13 final size:13
Alignment explanation
Indices: 13738578--13738604 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13738568 TTCTCAATAT
13738578 GCATTACATCAAG
1 GCATTACATCAAG
13738591 GCATTACATCAAG
1 GCATTACATCAAG
13738604 G
1 G
13738605 TTATGACATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (13 bp):
GCATTACATCAAG
Found at i:13739505 original size:10 final size:10
Alignment explanation
Indices: 13739490--13739534 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
13739480 TGCCCCAAGG
*
13739490 TCAAACTTGA
1 TCAAACTTAA
13739500 TCAAACTTAA
1 TCAAACTTAA
*
13739510 TCAAA-TAAA
1 TCAAACTTAA
13739519 GTCAAACTTAA
1 -TCAAACTTAA
13739530 TCAAA
1 TCAAA
13739535 ACTTTTCCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 3 0.10
10 24 0.80
11 3 0.10
ACGTcount: A:0.51, C:0.18, G:0.04, T:0.27
Consensus pattern (10 bp):
TCAAACTTAA
Found at i:13749400 original size:25 final size:25
Alignment explanation
Indices: 13749372--13749434 Score: 108
Period size: 25 Copynumber: 2.5 Consensus size: 25
13749362 ATTTGTATTG
*
13749372 AACTCATAAATTGTGGTACATTTTA
1 AACTCATAGATTGTGGTACATTTTA
*
13749397 AACTCATAGATTGTGGTGCATTTTA
1 AACTCATAGATTGTGGTACATTTTA
13749422 AACTCATAGATTG
1 AACTCATAGATTG
13749435 ATTATTAATG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (25 bp):
AACTCATAGATTGTGGTACATTTTA
Found at i:13753474 original size:11 final size:13
Alignment explanation
Indices: 13753438--13753478 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 13
13753428 TTAAAACCCC
*
13753438 AAAAATAAAAAT-
1 AAAAATAACAATA
13753450 AAAAATAACAATA
1 AAAAATAACAATA
13753463 AAAAAT-AC-ATA
1 AAAAATAACAATA
13753474 AAAAA
1 AAAAA
13753479 GATAAACAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 8 0.30
12 13 0.48
13 6 0.22
ACGTcount: A:0.80, C:0.05, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAATAACAATA
Found at i:13754350 original size:22 final size:21
Alignment explanation
Indices: 13754312--13754360 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
13754302 AAATTTTTGG
13754312 TTAAA-TAAAGTTGGAGTCTTT
1 TTAAATTAAAGTTGGAGT-TTT
* *
13754333 TTAAATTAAATTTTGAGTTTT
1 TTAAATTAAAGTTGGAGTTTT
*
13754354 TTCAATT
1 TTAAATT
13754361 TTCAAATCGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.33, C:0.04, G:0.12, T:0.51
Consensus pattern (21 bp):
TTAAATTAAAGTTGGAGTTTT
Found at i:13754995 original size:16 final size:18
Alignment explanation
Indices: 13754974--13755010 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
13754964 ATTATCTTTT
13754974 TTTAAAGT-TT-ATATAA
1 TTTAAAGTATTGATATAA
*
13754990 TTTAAATTATTGATATAA
1 TTTAAAGTATTGATATAA
13755008 TTT
1 TTT
13755011 TTAAAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 2 0.11
18 9 0.50
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (18 bp):
TTTAAAGTATTGATATAA
Found at i:13757574 original size:29 final size:27
Alignment explanation
Indices: 13757530--13757599 Score: 88
Period size: 29 Copynumber: 2.5 Consensus size: 27
13757520 TCAATTTAAT
*
13757530 ATTATTAT-TTTATAATTTAAAATTTTT
1 ATTATTATATTT-TAATTTAAAATTTTA
*
13757557 ATTATATATAATTTTAATTTAATATTTTA
1 ATTAT-TAT-ATTTTAATTTAAAATTTTA
13757586 ATTATTATATTTTA
1 ATTATTATATTTTA
13757600 TTATAATTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
27 11 0.29
28 6 0.16
29 18 0.47
30 3 0.08
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (27 bp):
ATTATTATATTTTAATTTAAAATTTTA
Found at i:13757585 original size:13 final size:14
Alignment explanation
Indices: 13757542--13757606 Score: 64
Period size: 13 Copynumber: 4.7 Consensus size: 14
13757532 TATTATTTTA
*
13757542 TAATT-TAAAATTT
1 TAATTATAATATTT
*
13757555 TTATTATATATAATTT
1 TAATTATA-AT-ATTT
13757571 TAATT-TAATATTT
1 TAATTATAATATTT
*
13757584 TAATTATTATATTT
1 TAATTATAATATTT
13757598 T-ATTATAAT
1 TAATTATAAT
13757607 TTAATTTATT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
13 20 0.47
14 12 0.28
15 3 0.07
16 8 0.19
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TAATTATAATATTT
Found at i:13757607 original size:32 final size:32
Alignment explanation
Indices: 13757522--13757611 Score: 102
Period size: 32 Copynumber: 3.0 Consensus size: 32
13757512 ATTTTTTATC
13757522 AATTTAA-TATTAT-TATT-TTATAATTTAA-
1 AATTTAATTATTATATATTATTATAATTTAAT
* *
13757550 AATTT--TTATTATATATAATTTTAATTTAAT
1 AATTTAATTATTATATATTATTATAATTTAAT
* *
13757580 ATTTTAATTATTATATTTTATTATAATTTAAT
1 AATTTAATTATTATATATTATTATAATTTAAT
13757612 TTATTATCAC
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
27 6 0.12
28 8 0.16
29 10 0.20
30 4 0.08
32 22 0.44
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (32 bp):
AATTTAATTATTATATATTATTATAATTTAAT
Found at i:13758348 original size:21 final size:22
Alignment explanation
Indices: 13758320--13758373 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
13758310 ACTAGACAAA
13758320 AATAAAAT-TATGTAATATTTT
1 AATAAAATATATGTAATATTTT
* *
13758341 ATTAAAATCATATTTAATATTTT
1 AATAAAAT-ATATGTAATATTTT
13758364 AAT-AAATATA
1 AATAAAATATA
13758374 ATAAATAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 10 0.36
22 4 0.14
23 14 0.50
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (22 bp):
AATAAAATATATGTAATATTTT
Found at i:13758391 original size:14 final size:14
Alignment explanation
Indices: 13758372--13758409 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
13758362 TTAATAAATA
13758372 TAATAAATAATAAC
1 TAATAAATAATAAC
*
13758386 TAATAAATAATTAC
1 TAATAAATAATAAC
*
13758400 AAAT-AATAAT
1 TAATAAATAAT
13758410 TATTATTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 6 0.27
14 16 0.73
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (14 bp):
TAATAAATAATAAC
Found at i:13759875 original size:19 final size:19
Alignment explanation
Indices: 13759827--13759873 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
13759817 TTATTTATTT
*
13759827 ATATCTATTTAATAAATTA
1 ATATTTATTTAATAAATTA
13759846 ATATTTATTTAAT-AATATA
1 ATATTTATTTAATAAAT-TA
13759865 A-ATTTATTT
1 ATATTTATTT
13759874 TAGATTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
ATATTTATTTAATAAATTA
Found at i:13762099 original size:13 final size:13
Alignment explanation
Indices: 13762081--13762106 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13762071 GTTTAGAGTA
13762081 CGAGCAATAGAAC
1 CGAGCAATAGAAC
13762094 CGAGCAATAGAAC
1 CGAGCAATAGAAC
13762107 TAATGTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.23, T:0.08
Consensus pattern (13 bp):
CGAGCAATAGAAC
Found at i:13762651 original size:30 final size:30
Alignment explanation
Indices: 13762623--13762682 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
13762613 TGTTTTTAAG
*
13762623 TTAATATTTGAAAATTTGTTATTATTTAATGA
1 TTAA-ATTTAAAAATTTGTTA-TATTTAATGA
* *
13762655 TTTAATTTAAAAATTTTTTATATTTAAT
1 TTAAATTTAAAAATTTGTTATATTTAAT
13762683 TATTTTGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 8 0.32
31 14 0.56
32 3 0.12
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (30 bp):
TTAAATTTAAAAATTTGTTATATTTAATGA
Found at i:13763773 original size:9 final size:10
Alignment explanation
Indices: 13763754--13763778 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
13763744 AAAATCAATG
13763754 AAAAACAAAA
1 AAAAACAAAA
13763764 AAAAACAAAA
1 AAAAACAAAA
13763774 AAAAA
1 AAAAA
13763779 GGACATAGAA
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:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAACAAAA
Found at i:13765346 original size:23 final size:23
Alignment explanation
Indices: 13765318--13765368 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
13765308 ACTTTTTGGA
13765318 CTTTG-ACAGATCTCTCAAACTCT
1 CTTTGAAC-GATCTCTCAAACTCT
* **
13765341 TTTTGAACTTTCTCTCAAACTCT
1 CTTTGAACGATCTCTCAAACTCT
13765364 CTTTG
1 CTTTG
13765369 CAATCCTCTC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
23 21 0.91
24 2 0.09
ACGTcount: A:0.22, C:0.27, G:0.08, T:0.43
Consensus pattern (23 bp):
CTTTGAACGATCTCTCAAACTCT
Found at i:13767162 original size:230 final size:230
Alignment explanation
Indices: 13766736--13767167 Score: 609
Period size: 230 Copynumber: 1.9 Consensus size: 230
13766726 CAATAGATAG
13766736 AGTGAAAGCACTACTTCAATAATGGATTAAAGATGAAAATGTGAATCTACCTTATGTTCACAACC
1 AGTGAAAGCACTACTTCAATAATGGATTAAAGATGAAAATGTGAATCTACCTTATGTTCACAACC
* * *
13766801 ACCAATAGTAAAAAAAAAGTCCAACCCAAGGTATTGTGACTATTACCAAATTGTTGGTTATCCAC
66 ACCAATAGTAAAAAAAAAGTCCAACCCAAGGTATTGTAACTATCACCAAATTGTTGGTCATCCAC
* * * * *
13766866 TTGCTGAATGTAGAAATCTTCATTGAATATTCCATCAAAAAGTGCAAGTAGGAGAAATATTTATT
131 TTGCTGAATGTAAAAATCTTCATAGAATATTCCATCAAAAAGTACAAATAGGAGAAATACTTATT
13766931 GGAAATAACCCACCATTTTTAGTTCTAATGGACAA
196 GGAAATAACCCACCATTTTTAGTTCTAATGGACAA
* *
13766966 AGTGAAAGCACTACTTCAATAATGGATTAAATATGAAAATGTGAATCTACCTTATGTTCATAACC
1 AGTGAAAGCACTACTTCAATAATGGATTAAAGATGAAAATGTGAATCTACCTTATGTTCACAACC
* * * * ***
13767031 ACTAATAGTAGAAGAAAAGTCCAACCCAAGTTATTGTAACTATCACTGGA-TGATTGGTCATCCA
66 ACCAATAGTAAAAAAAAAGTCCAACCCAAGGTATTGTAACTATCACCAAATTG-TTGGTCATCCA
* * * * * *
13767095 TTTGTTGAATGTAAAAATTTTCATAGAATATTCCATC-GAAAGTTACAAATATGA-AAAGTGCTT
130 CTTGCTGAATGTAAAAATCTTCATAGAATATTCCATCAAAAAG-TACAAATAGGAGAAA-TACTT
13767158 ATTGGAAATA
193 ATTGGAAATA
13767168 TTGGAATTCA
Statistics
Matches: 176, Mismatches: 23, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
229 9 0.05
230 167 0.95
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (230 bp):
AGTGAAAGCACTACTTCAATAATGGATTAAAGATGAAAATGTGAATCTACCTTATGTTCACAACC
ACCAATAGTAAAAAAAAAGTCCAACCCAAGGTATTGTAACTATCACCAAATTGTTGGTCATCCAC
TTGCTGAATGTAAAAATCTTCATAGAATATTCCATCAAAAAGTACAAATAGGAGAAATACTTATT
GGAAATAACCCACCATTTTTAGTTCTAATGGACAA
Found at i:13770806 original size:28 final size:28
Alignment explanation
Indices: 13770773--13770834 Score: 115
Period size: 28 Copynumber: 2.2 Consensus size: 28
13770763 TGATAAGAAG
13770773 AAAATTTTCTCTCACGCACTTATTCCTA
1 AAAATTTTCTCTCACGCACTTATTCCTA
*
13770801 AAAATTTTCTCTCATGCACTTATTCCTA
1 AAAATTTTCTCTCACGCACTTATTCCTA
13770829 AAAATT
1 AAAATT
13770835 ATCTTTTCCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.32, C:0.24, G:0.03, T:0.40
Consensus pattern (28 bp):
AAAATTTTCTCTCACGCACTTATTCCTA
Found at i:13771299 original size:50 final size:51
Alignment explanation
Indices: 13771197--13771320 Score: 139
Period size: 50 Copynumber: 2.5 Consensus size: 51
13771187 GAATAAAGAA
* *
13771197 CCTTTTAATAATTTTC-T-TTTTTTTTAGGGAAGCATTCCCATTACCTATT
1 CCTTTTAATAATTTTCTTATTTTTTTTAGGGAAACATTCCCATTAACTATT
* * *
13771246 CCTTTTAATAATTTTCTTATTTTTTTTATGGAAACACTT-TC-TTAATTATT
1 CCTTTTAATAATTTTCTTATTTTTTTTAGGGAAACA-TTCCCATTAACTATT
* **
13771296 CCTTTTAATAGTTCACTTATTTTTT
1 CCTTTTAATAATTTTCTTATTTTTT
13771321 AGGAAAACAC
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
49 16 0.25
50 30 0.47
51 16 0.25
52 2 0.03
ACGTcount: A:0.23, C:0.15, G:0.06, T:0.56
Consensus pattern (51 bp):
CCTTTTAATAATTTTCTTATTTTTTTTAGGGAAACATTCCCATTAACTATT
Found at i:13771903 original size:40 final size:40
Alignment explanation
Indices: 13771847--13771922 Score: 143
Period size: 40 Copynumber: 1.9 Consensus size: 40
13771837 AAGCATGTGT
*
13771847 TAAGACTATTTTAGTGAAGGTTATTTTATGAAATAGGTGA
1 TAAGACTATTTCAGTGAAGGTTATTTTATGAAATAGGTGA
13771887 TAAGACTATTTCAGTGAAGGTTATTTTATGAAATAG
1 TAAGACTATTTCAGTGAAGGTTATTTTATGAAATAG
13771923 CTATTCATGG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.39
Consensus pattern (40 bp):
TAAGACTATTTCAGTGAAGGTTATTTTATGAAATAGGTGA
Found at i:13772005 original size:46 final size:46
Alignment explanation
Indices: 13771917--13772005 Score: 106
Period size: 46 Copynumber: 1.9 Consensus size: 46
13771907 TTATTTTATG
* * **
13771917 AAATAGCTATTCATGGAACAACTTTTTTACAAAAAAAATATTTACA
1 AAATAACTATTCAAGGAACAACTCCTTTACAAAAAAAATATTTACA
* * * *
13771963 AAATAACTATTCAAGGAATAACTCCTTTATAAAACAACTATTT
1 AAATAACTATTCAAGGAACAACTCCTTTACAAAAAAAATATTT
13772006 TTGGAACAAC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
46 35 1.00
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.33
Consensus pattern (46 bp):
AAATAACTATTCAAGGAACAACTCCTTTACAAAAAAAATATTTACA
Found at i:13780372 original size:133 final size:134
Alignment explanation
Indices: 13780117--13780382 Score: 498
Period size: 133 Copynumber: 2.0 Consensus size: 134
13780107 TGAGTAAAAA
*
13780117 TTAGTTTCTTTAGAAGAAAAAACTATTTGTAACTAAGCTTCGATTGTGCAATAAAAGAAGGCTTT
1 TTAGTTTCTTTAGAAGAAAAAACTATTTGTAACTAAGCTTCGATTATGCAATAAAAGAAGGCTTT
*
13780182 TTTTTTTTTTTTCAAACAAAGAAACTTCATTGAGATCAAAAGACATCAGGTTTACAAAATAAATT
66 TTTTTTTTTTTTCAAACAAAGAAACTTCATTGAGATAAAAAGACATCAGGTTTACAAAATAAATT
13780247 GGGT
131 GGGT
*
13780251 TTAGTTTCTTTAGAAGAAAAAACTATTTTTAACTAAGCTTCGATTATGCAATAAAAGAAGGC-TT
1 TTAGTTTCTTTAGAAGAAAAAACTATTTGTAACTAAGCTTCGATTATGCAATAAAAGAAGGCTTT
13780315 TTTTTTTTTTTTCAAACAAAGAAACTTCATTGAGATAAAAAGACATCAGGTTTACAAAATAAATT
66 TTTTTTTTTTTTCAAACAAAGAAACTTCATTGAGATAAAAAGACATCAGGTTTACAAAATAAATT
13780380 GGG
131 GGG
13780383 AAGAGATCCC
Statistics
Matches: 129, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
133 69 0.53
134 60 0.47
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (134 bp):
TTAGTTTCTTTAGAAGAAAAAACTATTTGTAACTAAGCTTCGATTATGCAATAAAAGAAGGCTTT
TTTTTTTTTTTTCAAACAAAGAAACTTCATTGAGATAAAAAGACATCAGGTTTACAAAATAAATT
GGGT
Found at i:13783173 original size:4 final size:4
Alignment explanation
Indices: 13783164--13783188 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
13783154 CGTCAAACTG
13783164 AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA A
13783189 GGTTTGCGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:13785196 original size:21 final size:20
Alignment explanation
Indices: 13785171--13785241 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 20
13785161 AATCTTTCAT
13785171 TAAATAAATTTATTTGATAAA
1 TAAATAAATTTATTT-ATAAA
* * *
13785192 TAAATAAATTAAAATTT-TCAT
1 TAAATAAATT--TATTTATAAA
*
13785213 TAAATAAATTTATTTTATAGA
1 TAAATAAATTTA-TTTATAAA
13785234 TAAATAAA
1 TAAATAAA
13785242 ATGATAACAG
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
19 1 0.03
20 3 0.08
21 31 0.79
23 4 0.10
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (20 bp):
TAAATAAATTTATTTATAAA
Found at i:13785216 original size:42 final size:43
Alignment explanation
Indices: 13785159--13785241 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 43
13785149 AATTCTATAA
13785159 AAAATCTTTCATTAAATAAATTTATTTGATAAATAAATAAATT
1 AAAATCTTTCATTAAATAAATTTATTTGATAAATAAATAAATT
* *
13785202 AAAAT-TTTCATTAAATAAATTTATTTTATAGATAAATAAA
1 AAAATCTTTCATTAAATAAATTTATTTGATAAATAAATAAA
13785242 ATGATAACAG
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 33 0.87
43 5 0.13
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (43 bp):
AAAATCTTTCATTAAATAAATTTATTTGATAAATAAATAAATT
Found at i:13785413 original size:20 final size:20
Alignment explanation
Indices: 13785385--13785450 Score: 123
Period size: 20 Copynumber: 3.3 Consensus size: 20
13785375 ATCTGTAAGG
*
13785385 GAAGATGTAGTGCGAGAACT
1 GAAGGTGTAGTGCGAGAACT
13785405 GAAGGTGTAGTGCGAGAACT
1 GAAGGTGTAGTGCGAGAACT
13785425 GAAGGTGTAGTGCGAGAACT
1 GAAGGTGTAGTGCGAGAACT
13785445 GAAGGT
1 GAAGGT
13785451 AGATAACTTC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.32, C:0.09, G:0.39, T:0.20
Consensus pattern (20 bp):
GAAGGTGTAGTGCGAGAACT
Found at i:13794057 original size:17 final size:17
Alignment explanation
Indices: 13794025--13794063 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
13794015 GCTATAATTT
* *
13794025 TTTTTATTTTGGGTTTG
1 TTTTTATTTTGAGTTTA
*
13794042 TTTTTATTTTTAGTTTA
1 TTTTTATTTTGAGTTTA
13794059 TTTTT
1 TTTTT
13794064 GAATAAAAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.10, C:0.00, G:0.13, T:0.77
Consensus pattern (17 bp):
TTTTTATTTTGAGTTTA
Found at i:13794405 original size:52 final size:52
Alignment explanation
Indices: 13794296--13794453 Score: 208
Period size: 52 Copynumber: 3.0 Consensus size: 52
13794286 TGGACAAGAA
** *
13794296 GACTTGCAAAAGAAGAATTCTAATGGAGAAAGAGGATTCTTAATAGGTAAGTTT
1 GACTTGCAAAAGAAGAATTCTAAAAG-GAAAGA-GATTCTTAATAGGCAAGTTT
* *
13794350 GACTTGTAAAAGAAGAATTCTAAAAGGAAAGAGATTCTTAATAGACAAGTTT
1 GACTTGCAAAAGAAGAATTCTAAAAGGAAAGAGATTCTTAATAGGCAAGTTT
* * * * *
13794402 GACTTACAATAGAAGAATTCTAAGAGGAGAGAGATTCTTAATGGGCAAGTTT
1 GACTTGCAAAAGAAGAATTCTAAAAGGAAAGAGATTCTTAATAGGCAAGTTT
13794454 ATATGGTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
52 63 0.68
53 6 0.07
54 23 0.25
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (52 bp):
GACTTGCAAAAGAAGAATTCTAAAAGGAAAGAGATTCTTAATAGGCAAGTTT
Found at i:13795048 original size:25 final size:25
Alignment explanation
Indices: 13795020--13795078 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
13795010 ATTCAAGATG
* *
13795020 TGAAAAGAGCCGAAGGTTCGAGACA
1 TGAAAAGAGCCAAAAGTTCGAGACA
* *
13795045 TG-AAAGAGCTAAAAGTTCGAGATA
1 TGAAAAGAGCCAAAAGTTCGAGACA
*
13795069 TGAGAAGAGC
1 TGAAAAGAGC
13795079 TAAAGGTTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
24 20 0.71
25 8 0.29
ACGTcount: A:0.42, C:0.12, G:0.31, T:0.15
Consensus pattern (25 bp):
TGAAAAGAGCCAAAAGTTCGAGACA
Found at i:13795062 original size:24 final size:25
Alignment explanation
Indices: 13795035--13795082 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
13795025 AGAGCCGAAG
13795035 GTTCGAGACATGA-AAGAGCTAAAA
1 GTTCGAGACATGAGAAGAGCTAAAA
*
13795059 GTTCGAGATATGAGAAGAGCTAAA
1 GTTCGAGACATGAGAAGAGCTAAA
13795083 GGTTTGGGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.44, C:0.10, G:0.27, T:0.19
Consensus pattern (25 bp):
GTTCGAGACATGAGAAGAGCTAAAA
Found at i:13795349 original size:11 final size:11
Alignment explanation
Indices: 13795333--13795357 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
13795323 AAATCCCATA
13795333 AGAGATTTGTT
1 AGAGATTTGTT
13795344 AGAGATTTGTT
1 AGAGATTTGTT
13795355 AGA
1 AGA
13795358 TATTGCTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.28, T:0.40
Consensus pattern (11 bp):
AGAGATTTGTT
Found at i:13795440 original size:52 final size:52
Alignment explanation
Indices: 13795378--13795517 Score: 183
Period size: 51 Copynumber: 2.7 Consensus size: 52
13795368 TAGACAAGAA
13795378 GACTTGTAAAAGAAGAATTTTAAGAGAAAAAAGATTCATAATAGGTAAGTTT
1 GACTTGTAAAAGAAGAATTTTAAGAGAAAAAAGATTCATAATAGGTAAGTTT
* * * *
13795430 GACTTGTAAAAGAAGAATTCTAA-AAAAAAAAAATTCTTAATAGGTAAGTTT
1 GACTTGTAAAAGAAGAATTTTAAGAGAAAAAAGATTCATAATAGGTAAGTTT
** ** * *
13795481 GACTTACAGTAGAAGAATTTTAAGAGGAAAGAGATTC
1 GACTTGTAAAAGAAGAATTTTAAGAGAAAAAAGATTC
13795518 TTAAAGGGCA
Statistics
Matches: 74, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
51 43 0.58
52 31 0.42
ACGTcount: A:0.48, C:0.06, G:0.19, T:0.28
Consensus pattern (52 bp):
GACTTGTAAAAGAAGAATTTTAAGAGAAAAAAGATTCATAATAGGTAAGTTT
Found at i:13796117 original size:25 final size:25
Alignment explanation
Indices: 13796089--13796167 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
13796079 AAAATGTAAG
*
13796089 AAGAGTAGAAAATTCAAGATGTGGA
1 AAGAGTAGAAAGTTCAAGATGTGGA
** * * *
13796114 AAGAGCCGAAGGTTCGAGACGT-GA
1 AAGAGTAGAAAGTTCAAGATGTGGA
*
13796138 AAGAGCTA-AAAGTTTAAGATGTGGA
1 AAGAG-TAGAAAGTTCAAGATGTGGA
13796163 AAGAG
1 AAGAG
13796168 CTAAAGGTTT
Statistics
Matches: 40, Mismatches: 12, Indels: 4
0.71 0.21 0.07
Matches are distributed among these distances:
24 17 0.43
25 23 0.57
ACGTcount: A:0.43, C:0.08, G:0.32, T:0.18
Consensus pattern (25 bp):
AAGAGTAGAAAGTTCAAGATGTGGA
Found at i:13796170 original size:25 final size:25
Alignment explanation
Indices: 13796104--13796177 Score: 87
Period size: 25 Copynumber: 3.0 Consensus size: 25
13796094 TAGAAAATTC
** *
13796104 AAGATGTGGAAAGAGCCGAAGGTTC
1 AAGATGTGGAAAGAGCTAAAGGTTT
* * *
13796129 GAGACGT-GAAAGAGCTAAAAGTTT
1 AAGATGTGGAAAGAGCTAAAGGTTT
13796153 AAGATGTGGAAAGAGCTAAAGGTTT
1 AAGATGTGGAAAGAGCTAAAGGTTT
13796178 GGGAAGTGCA
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
24 18 0.46
25 21 0.54
ACGTcount: A:0.39, C:0.08, G:0.32, T:0.20
Consensus pattern (25 bp):
AAGATGTGGAAAGAGCTAAAGGTTT
Found at i:13796457 original size:11 final size:11
Alignment explanation
Indices: 13796424--13796459 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
13796414 AAATCTCATA
13796424 AGAGATTTGTTT
1 AGAGATTTG-TT
13796436 AG-GATTTGTT
1 AGAGATTTGTT
13796446 AGAGATTTGTT
1 AGAGATTTGTT
13796457 AGA
1 AGA
13796460 TATTGCTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 4 0.17
11 17 0.74
12 2 0.09
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.44
Consensus pattern (11 bp):
AGAGATTTGTT
Found at i:13796565 original size:51 final size:52
Alignment explanation
Indices: 13796481--13796587 Score: 153
Period size: 51 Copynumber: 2.1 Consensus size: 52
13796471 GGACAAGAAA
* * * * * *
13796481 ACTTGTAAAAGAAGAATTCTAAGAGAAAGAAGATTTTTAATAGGTAAGTTTG
1 ACTTGTAAAAAAAAAATTCTAAAAGAAAAAAGATTCTTAATAGGCAAGTTTG
13796533 ACTTGTAAAAAAAAAATT-TAAAAGAAAAAAGATTCTTAATAGGCAAGTTTG
1 ACTTGTAAAAAAAAAATTCTAAAAGAAAAAAGATTCTTAATAGGCAAGTTTG
13796584 ACTT
1 ACTT
13796588 ACAGTAAAAG
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
51 33 0.67
52 16 0.33
ACGTcount: A:0.48, C:0.06, G:0.17, T:0.30
Consensus pattern (52 bp):
ACTTGTAAAAAAAAAATTCTAAAAGAAAAAAGATTCTTAATAGGCAAGTTTG
Found at i:13796633 original size:52 final size:51
Alignment explanation
Indices: 13796487--13796634 Score: 145
Period size: 51 Copynumber: 2.9 Consensus size: 51
13796477 GAAAACTTGT
* * **
13796487 AAAAGAAGAATTCTAAGAGAAAGAAGATTTTTAATAGGTAAGTTTGACTTGT
1 AAAAAAAGAATTCTAAGAGAAAG-AGATTTTTAATAGGAAAGTTTGACTTAC
* * * * *
13796539 AAAAAAAAAATT-TAAAAGAAAAAAGATTCTTAATAGGCAAGTTTGACTTAC
1 AAAAAAAGAATTCTAAGAG-AAAGAGATTTTTAATAGGAAAGTTTGACTTAC
** * *
13796590 AGTAAAAGAATTCTAAGATGAGAGAGATTTTTAATGGGAAAGTTT
1 AAAAAAAGAATTCTAAGA-GAAAGAGATTTTTAATAGGAAAGTTT
13796635 ATATGGTTAT
Statistics
Matches: 76, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
51 38 0.50
52 37 0.49
53 1 0.01
ACGTcount: A:0.47, C:0.05, G:0.19, T:0.29
Consensus pattern (51 bp):
AAAAAAAGAATTCTAAGAGAAAGAGATTTTTAATAGGAAAGTTTGACTTAC
Found at i:13797200 original size:25 final size:25
Alignment explanation
Indices: 13797166--13797282 Score: 105
Period size: 25 Copynumber: 4.7 Consensus size: 25
13797156 AAGTGGTATT
13797166 AGAGCTAAAGGTTTGAAATGTGAGA
1 AGAGCTAAAGGTTTGAAATGTGAGA
* * *
13797191 AGAGTTAAA-GATTCAAGATGTG-GAA
1 AGAGCTAAAGGTTTGAA-ATGTGAG-A
* * *
13797216 AGAGCCAAAGGTTCGAGATGTGA-A
1 AGAGCTAAAGGTTTGAAATGTGAGA
* * *
13797240 AGAGCTAAAAGTTTGAGATGTGGGA
1 AGAGCTAAAGGTTTGAAATGTGAGA
*
13797265 AGAGTTAAAGGTTTGAAA
1 AGAGCTAAAGGTTTGAAA
13797283 AGTGCATAGT
Statistics
Matches: 71, Mismatches: 16, Indels: 10
0.73 0.16 0.10
Matches are distributed among these distances:
24 26 0.37
25 42 0.59
26 3 0.04
ACGTcount: A:0.40, C:0.05, G:0.32, T:0.23
Consensus pattern (25 bp):
AGAGCTAAAGGTTTGAAATGTGAGA
Found at i:13797268 original size:49 final size:50
Alignment explanation
Indices: 13797166--13797282 Score: 130
Period size: 49 Copynumber: 2.4 Consensus size: 50
13797156 AAGTGGTATT
* *
13797166 AGAGCTAAAGGTTTGAAATGTGAGAAGAGTTAAAGATTCAAGATGTGGAA
1 AGAGCTAAAGGTTCGAAATGTGAGAAGAGTAAAAGATTCAAGATGTGGAA
* * ** *
13797216 AGAGCCAAAGGTTCGAGATGTGA-AAGAGCTAAAAG-TTTGAGATGTGGGA
1 AGAGCTAAAGGTTCGAAATGTGAGAAGAG-TAAAAGATTCAAGATGTGGAA
* *
13797265 AGAGTTAAAGGTTTGAAA
1 AGAGCTAAAGGTTCGAAA
13797283 AGTGCATAGT
Statistics
Matches: 55, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
49 30 0.55
50 25 0.45
ACGTcount: A:0.40, C:0.05, G:0.32, T:0.23
Consensus pattern (50 bp):
AGAGCTAAAGGTTCGAAATGTGAGAAGAGTAAAAGATTCAAGATGTGGAA
Found at i:13797657 original size:52 final size:52
Alignment explanation
Indices: 13797569--13797723 Score: 195
Period size: 52 Copynumber: 3.0 Consensus size: 52
13797559 GGATAAAAAA
*
13797569 ACTTACAAAAGAAGAATTCTAAGAG-AAAGAAGATTCTTAATAGGTAAGTTTG
1 ACTTGCAAAAGAAGAATTCTAAGAGAAAAG-AGATTCTTAATAGGTAAGTTTG
* * *
13797621 ACTTGTAAAAGAAGAATTCTAAAAGAAAAGATATTCTTAATAGGTAAGTTTG
1 ACTTGCAAAAGAAGAATTCTAAGAGAAAAGAGATTCTTAATAGGTAAGTTTG
** * * * * *
13797673 ACTTGCAGTAGAATAATTCTAAGAGAAGAGAGATTTTTAATGGGCAAGTTT
1 ACTTGCAAAAGAAGAATTCTAAGAGAAAAGAGATTCTTAATAGGTAAGTTT
13797724 ATATGGTTAT
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
52 84 0.95
53 4 0.05
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (52 bp):
ACTTGCAAAAGAAGAATTCTAAGAGAAAAGAGATTCTTAATAGGTAAGTTTG
Found at i:13798318 original size:25 final size:25
Alignment explanation
Indices: 13798290--13798365 Score: 75
Period size: 24 Copynumber: 3.1 Consensus size: 25
13798280 GAGTTGATGA
*
13798290 TTCAAGATGTGGAAAGAGCCAAAGG
1 TTCAAGATGTGGAAAGAGCTAAAGG
* * *
13798315 TTCAAAACGT-GAAAGAGCTAAAAG
1 TTCAAGATGTGGAAAGAGCTAAAGG
**
13798339 TTTGAGATGTGGGAAA-AGCTAAAGG
1 TTCAAGATGT-GGAAAGAGCTAAAGG
13798364 TT
1 TT
13798366 TGGGAAGTAC
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
24 18 0.45
25 18 0.45
26 4 0.10
ACGTcount: A:0.41, C:0.09, G:0.29, T:0.21
Consensus pattern (25 bp):
TTCAAGATGTGGAAAGAGCTAAAGG
Found at i:13798737 original size:52 final size:52
Alignment explanation
Indices: 13798675--13798823 Score: 194
Period size: 52 Copynumber: 2.9 Consensus size: 52
13798665 GAAGATTTAC
* *
13798675 AAAAGAAGAATTATAAGA-GAAAGAAGATTTTTAATAGGTAAGTTTGACTTGT
1 AAAAGAAGAATTATAAAAGGAAAG-AGATTCTTAATAGGTAAGTTTGACTTGT
* *
13798727 AAAAGAAGAATTCTAAAAGGAAAGAGATTCTTAATAGGTAAGTTTGACTTAT
1 AAAAGAAGAATTATAAAAGGAAAGAGATTCTTAATAGGTAAGTTTGACTTGT
* * * *
13798779 AGTAA-AAGAATTCTAAAAGGAGAGAGATTCTTAATGGGTAAGTTT
1 A-AAAGAAGAATTATAAAAGGAAAGAGATTCTTAATAGGTAAGTTT
13798824 ATATAGTTAT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
52 81 0.92
53 7 0.08
ACGTcount: A:0.45, C:0.04, G:0.21, T:0.30
Consensus pattern (52 bp):
AAAAGAAGAATTATAAAAGGAAAGAGATTCTTAATAGGTAAGTTTGACTTGT
Found at i:13799421 original size:25 final size:25
Alignment explanation
Indices: 13799357--13799434 Score: 97
Period size: 25 Copynumber: 3.2 Consensus size: 25
13799347 GTGGTATCAA
*
13799357 AGCTGAAGGTTCAAAATGTGAGAAG
1 AGCTGAAGGTTCAAGATGTGAGAAG
* *
13799382 AGTTGAAGATTCAAGATGTG-GATAG
1 AGCTGAAGGTTCAAGATGTGAGA-AG
*
13799407 AGCTGAAGGTTCAAGACGTGA-AAG
1 AGCTGAAGGTTCAAGATGTGAGAAG
13799431 AGCT
1 AGCT
13799435 AAAAGTTTGA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
24 8 0.18
25 37 0.82
ACGTcount: A:0.37, C:0.09, G:0.32, T:0.22
Consensus pattern (25 bp):
AGCTGAAGGTTCAAGATGTGAGAAG
Found at i:13799745 original size:11 final size:11
Alignment explanation
Indices: 13799728--13799761 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
13799718 ATCCCATAAA
*
13799728 AGATTTGTTTG
1 AGATTTGTTAG
*
13799739 GGATTTGTTAG
1 AGATTTGTTAG
13799750 AGATTTGTTAG
1 AGATTTGTTAG
13799761 A
1 A
13799762 TATTGCTTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (11 bp):
AGATTTGTTAG
Found at i:13799845 original size:52 final size:52
Alignment explanation
Indices: 13799782--13799937 Score: 190
Period size: 52 Copynumber: 3.0 Consensus size: 52
13799772 TGGATAAGAA
*
13799782 GACTTGCAAAAGAAGAATTCTAAGAGAAAGAAGATTTTTAATAGGTAAGTTT
1 GACTTGCAAAAGAAGAATTCTAAGAGAAAGAAGATTCTTAATAGGTAAGTTT
* * * *
13799834 GACTTGTAAAAGAAGAATTCTAA-AAACAAAAAAATTCTTAATAGGTAAGTTT
1 GACTTGCAAAAGAAGAATTCTAAGAGA-AAGAAGATTCTTAATAGGTAAGTTT
* ** * *
13799886 GACTTACAGTAGAAGAATTCTAAGAGGAAAG-AGATTCTTAATGGGCAAGTTT
1 GACTTGCAAAAGAAGAATTCTAAGA-GAAAGAAGATTCTTAATAGGTAAGTTT
13799938 ATATGGTTAT
Statistics
Matches: 87, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
51 2 0.02
52 81 0.93
53 3 0.03
54 1 0.01
ACGTcount: A:0.44, C:0.08, G:0.20, T:0.28
Consensus pattern (52 bp):
GACTTGCAAAAGAAGAATTCTAAGAGAAAGAAGATTCTTAATAGGTAAGTTT
Found at i:13800386 original size:12 final size:12
Alignment explanation
Indices: 13800365--13800398 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
13800355 GTCTCTTGTC
*
13800365 TGTTTGATTTAT
1 TGTTTAATTTAT
13800377 TGTTTAATTTAT
1 TGTTTAATTTAT
13800389 TGTTTAATTT
1 TGTTTAATTT
13800399 TGCTTCCGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.68
Consensus pattern (12 bp):
TGTTTAATTTAT
Found at i:13800573 original size:24 final size:25
Alignment explanation
Indices: 13800526--13800595 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 25
13800516 GATTCAAGAT
** * *
13800526 GTGGAAAGAGCCGAAGGTTCGAGAC
1 GTGGAAAGAGCTAAAAGTTTGAGAC
*
13800551 GT-GAAAGAGCTAAAAGTTTGAGAT
1 GTGGAAAGAGCTAAAAGTTTGAGAC
* *
13800575 GTGGGAAGAGCTAAAGGTTTG
1 GTGGAAAGAGCTAAAAGTTTG
13800596 GAAAGTGCAT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
24 19 0.51
25 18 0.49
ACGTcount: A:0.34, C:0.09, G:0.37, T:0.20
Consensus pattern (25 bp):
GTGGAAAGAGCTAAAAGTTTGAGAC
Found at i:13800592 original size:49 final size:50
Alignment explanation
Indices: 13800482--13800593 Score: 120
Period size: 49 Copynumber: 2.3 Consensus size: 50
13800472 AAGTGGTATC
* * *
13800482 AGAGTTAAAGGTTCGAAATGTGAGAAGAGTTAAAGATTCAAGATGTGGAA
1 AGAGCTAAAGGTTCGAAACGTGAGAAGAGTAAAAGATTCAAGATGTGGAA
** * ** *
13800532 AGAGCCGAAGGTTCGAGACGTGA-AAGAGCTAAAAG-TTTGAGATGTGGGA
1 AGAGCTAAAGGTTCGAAACGTGAGAAGAG-TAAAAGATTCAAGATGTGGAA
13800581 AGAGCTAAAGGTT
1 AGAGCTAAAGGTT
13800594 TGGAAAGTGC
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
49 27 0.54
50 23 0.46
ACGTcount: A:0.38, C:0.07, G:0.33, T:0.21
Consensus pattern (50 bp):
AGAGCTAAAGGTTCGAAACGTGAGAAGAGTAAAAGATTCAAGATGTGGAA
Found at i:13800595 original size:25 final size:25
Alignment explanation
Indices: 13800482--13800593 Score: 102
Period size: 25 Copynumber: 4.5 Consensus size: 25
13800472 AAGTGGTATC
* *
13800482 AGAGTTAAAGGTTCGAAATGT-GAGA
1 AGAGCTAAAGGTTCGAGATGTGGA-A
* * *
13800507 AGAGTTAAAGATTCAAGATGTGGAA
1 AGAGCTAAAGGTTCGAGATGTGGAA
** *
13800532 AGAGCCGAAGGTTCGAGACGT-GAA
1 AGAGCTAAAGGTTCGAGATGTGGAA
* * *
13800556 AGAGCTAAAAGTTTGAGATGTGGGA
1 AGAGCTAAAGGTTCGAGATGTGGAA
13800581 AGAGCTAAAGGTT
1 AGAGCTAAAGGTT
13800594 TGGAAAGTGC
Statistics
Matches: 69, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
24 19 0.28
25 48 0.70
26 2 0.03
ACGTcount: A:0.38, C:0.07, G:0.33, T:0.21
Consensus pattern (25 bp):
AGAGCTAAAGGTTCGAGATGTGGAA
Found at i:13801022 original size:52 final size:52
Alignment explanation
Indices: 13800897--13801005 Score: 157
Period size: 52 Copynumber: 2.1 Consensus size: 52
13800887 TGGATAAGAA
* * * * *
13800897 GACTTGCAAAAGAAGAATTATAAGAGAAAGAAGATTCTTAATAGGTAAGTTT
1 GACTTGTAAAAGAAGAATTCTAAAAGAAAGAAGATTCTTAATAGGCAAATTT
13800949 GACTTGTAAAAGAAGAATTCTAAAAGAAA-AGAGATTCTTAATAGGCAAATTT
1 GACTTGTAAAAGAAGAATTCTAAAAGAAAGA-AGATTCTTAATAGGCAAATTT
13801001 GACTT
1 GACTT
13801006 ACAGTGAAAG
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
51 1 0.02
52 50 0.98
ACGTcount: A:0.46, C:0.07, G:0.19, T:0.28
Consensus pattern (52 bp):
GACTTGTAAAAGAAGAATTCTAAAAGAAAGAAGATTCTTAATAGGCAAATTT
Found at i:13801674 original size:24 final size:25
Alignment explanation
Indices: 13801627--13801696 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 25
13801617 GATTCAAAAT
** * *
13801627 GTGGAAAGAGCCGAAGGTTCGAGAC
1 GTGGAAAGAGCTAAAAGTTTGAGAC
*
13801652 GT-GAAAGAGCTAAAAGTTTGAGAT
1 GTGGAAAGAGCTAAAAGTTTGAGAC
* *
13801676 GTGGGAAGAGCTAAAGGTTTG
1 GTGGAAAGAGCTAAAAGTTTG
13801697 GGAAGTGCAT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
24 19 0.51
25 18 0.49
ACGTcount: A:0.34, C:0.09, G:0.37, T:0.20
Consensus pattern (25 bp):
GTGGAAAGAGCTAAAAGTTTGAGAC
Found at i:13811555 original size:18 final size:20
Alignment explanation
Indices: 13811532--13811583 Score: 65
Period size: 18 Copynumber: 2.7 Consensus size: 20
13811522 ACAAGTTTTC
13811532 TTTATTTTTTATTTTT-A-T
1 TTTATTTTTTATTTTTAAGT
13811550 TTTATTTTTT-TTATTTAAGT
1 TTTATTTTTTATT-TTTAAGT
*
13811570 TTAATTTTTTATTT
1 TTTATTTTTTATTT
13811584 AAACATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
17 2 0.07
18 13 0.45
19 1 0.03
20 11 0.38
21 2 0.07
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (20 bp):
TTTATTTTTTATTTTTAAGT
Found at i:13811702 original size:30 final size:28
Alignment explanation
Indices: 13811666--13811753 Score: 88
Period size: 30 Copynumber: 3.0 Consensus size: 28
13811656 TAACACCTCA
13811666 AACATTTATTTTCATCTAATTAAAACTTT
1 AACATTTATTTTCATC-AATTAAAACTTT
*
13811695 AATCATTTATTTTCATGCAATTGAAA-TCTT
1 AA-CATTTATTTTCAT-CAATTAAAACT-TT
* * *
13811725 AACATATATTTTCACCAAATTAAATCTTT
1 AACATTTATTTTCATC-AATTAAAACTTT
13811754 TATTAGGCAA
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
28 1 0.02
29 22 0.45
30 25 0.51
31 1 0.02
ACGTcount: A:0.38, C:0.15, G:0.02, T:0.45
Consensus pattern (28 bp):
AACATTTATTTTCATCAATTAAAACTTT
Found at i:13815903 original size:25 final size:25
Alignment explanation
Indices: 13815861--13815916 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
13815851 AGGCCACTGT
*
13815861 TTAGGTCAAAAGAAGGGCATCCAGG
1 TTAGGTCAAAAGAAGGGCACCCAGG
* * *
13815886 TTAGGTCGAGAGAGGGGCACCCAGG
1 TTAGGTCAAAAGAAGGGCACCCAGG
13815911 TTAGGT
1 TTAGGT
13815917 TTGACTGGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.29, C:0.16, G:0.38, T:0.18
Consensus pattern (25 bp):
TTAGGTCAAAAGAAGGGCACCCAGG
Found at i:13820058 original size:21 final size:20
Alignment explanation
Indices: 13820014--13820058 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
13820004 AATAAATTTT
*
13820014 TTGAAAAAGAAAATTTTGAT
1 TTGAAAAAGAAAATTTTGAA
13820034 TTGAAAAAG-AAATTTGATGAA
1 TTGAAAAAGAAAATTT--TGAA
13820055 TTGA
1 TTGA
13820059 TGAATGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 6 0.27
20 9 0.41
21 7 0.32
ACGTcount: A:0.49, C:0.00, G:0.18, T:0.33
Consensus pattern (20 bp):
TTGAAAAAGAAAATTTTGAA
Found at i:13823760 original size:16 final size:16
Alignment explanation
Indices: 13823741--13823775 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
13823731 TGTAATAACA
*
13823741 TATCTTTAACAATTGG
1 TATCCTTAACAATTGG
*
13823757 TATCCTTAACATTTGG
1 TATCCTTAACAATTGG
13823773 TAT
1 TAT
13823776 GAGCTTGCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (16 bp):
TATCCTTAACAATTGG
Found at i:13826525 original size:13 final size:13
Alignment explanation
Indices: 13826507--13826537 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
13826497 TCTTGATATG
13826507 AAATCATAGACAT
1 AAATCATAGACAT
13826520 AAATCATAGACAT
1 AAATCATAGACAT
13826533 AAATC
1 AAATC
13826538 TCCGAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.55, C:0.16, G:0.06, T:0.23
Consensus pattern (13 bp):
AAATCATAGACAT
Found at i:13836491 original size:59 final size:58
Alignment explanation
Indices: 13836336--13836495 Score: 180
Period size: 59 Copynumber: 2.7 Consensus size: 58
13836326 TTTATTATAA
* * * * *
13836336 ATTTATTGAAATTTACTTGGGTTTTGGTTATCAATGTGTTGAGTTTTTGTTAGTTAATT
1 ATTTTTTGAAATTTATTTGGGTTTTGGTTATCAATTTGTTAAGTTTTTCTTAGTT-ATT
* * *
13836395 ATTTTTTAAAATTTATTTGGGTTTTGGTTACCAATTTGTTAAGTTTTTCTTGGTT-TT
1 ATTTTTTGAAATTTATTTGGGTTTTGGTTATCAATTTGTTAAGTTTTTCTTAGTTATT
* *
13836452 ATTTTTGTTGAAATTTGTTTAGGTTTTGGTTAT-ACATTTGTTAA
1 A-TTTT-TTGAAATTTATTTGGGTTTTGGTTATCA-ATTTGTTAA
13836496 AATTTATTGG
Statistics
Matches: 86, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
57 3 0.03
58 5 0.06
59 78 0.91
ACGTcount: A:0.21, C:0.04, G:0.18, T:0.57
Consensus pattern (58 bp):
ATTTTTTGAAATTTATTTGGGTTTTGGTTATCAATTTGTTAAGTTTTTCTTAGTTATT
Found at i:13836867 original size:37 final size:38
Alignment explanation
Indices: 13836824--13836912 Score: 108
Period size: 37 Copynumber: 2.4 Consensus size: 38
13836814 ATTTGAGGTT
*
13836824 ATAATTTATATATTACTAATAGTTAT-CTCATTTTGAA
1 ATAATTTATATATTACTAAGAGTTATACTCATTTTGAA
* * * * **
13836861 GTAATTTATATATTATTAAGATTTATATTTGTTTTGAA
1 ATAATTTATATATTACTAAGAGTTATACTCATTTTGAA
13836899 ATAATTTATATATT
1 ATAATTTATATATT
13836913 TGATAATTAA
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
37 22 0.51
38 21 0.49
ACGTcount: A:0.37, C:0.03, G:0.07, T:0.53
Consensus pattern (38 bp):
ATAATTTATATATTACTAAGAGTTATACTCATTTTGAA
Found at i:13840980 original size:29 final size:31
Alignment explanation
Indices: 13840913--13841006 Score: 104
Period size: 29 Copynumber: 3.1 Consensus size: 31
13840903 GATAAAGGTT
* *
13840913 AATATTATAA-ATGATCTCTAAATTATTATAA
1 AATATT-TAATATGATATCTGAATTATTATAA
13840944 AATATTTAATATGATATCTGAATT-TTA-AA
1 AATATTTAATATGATATCTGAATTATTATAA
* * *
13840973 AATTTTTAATGTGATATTTGAATTATATATAA
1 AATATTTAATATGATATCTGAATTAT-TATAA
13841005 AA
1 AA
13841007 CTGTTAACTA
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
29 23 0.43
30 7 0.13
31 20 0.37
32 4 0.07
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (31 bp):
AATATTTAATATGATATCTGAATTATTATAA
Found at i:13841788 original size:58 final size:59
Alignment explanation
Indices: 13841661--13842053 Score: 482
Period size: 58 Copynumber: 6.7 Consensus size: 59
13841651 TTGTATAGGA
* *
13841661 AAAATTGATACTTTCAACTTTTTCC-C-AAAATATGTTTTTTAGAAA-CTTTAATTTCGAA-G
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATAT-ATTTTTAGAAAGC-TTATTTTC-AAGG
* ** *
13841720 AAAATTGATACTTTCAACTTTTCCTCAAAAAT-TCACTTTT-GAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATAT-ATTTTTAGAAAGCTTATTTTCAAGG
* * ** * *
13841778 AAAATTGATACTTTTAACTTTTTCTCAAAAATCCATTTTT-GAAA-CTTATTTTTAAGC
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTAGAAAGCTTATTTTCAAGG
* *
13841835 AAAATTGATACTTTCAACTTTTTCC-CAAAAATATTTTTTTTGGAAAGCTTATTTTCAAGG
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATA-TATTTTTAGAAAGCTTATTTTCAAGG
* * *
13841895 AAAATTGATACTTTCAACATTTCTCTCAAAAATATTTTTTTAGAAAGCTTATTTTCAAAG
1 AAAATTGATACTTTCAACTTTTC-CTCAAAAATATATTTTTAGAAAGCTTATTTTCAAGG
13841955 AAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTAGAAAGCTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTAGAAAGCTTATTTTCAAGG
*
13842013 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTA
13842054 AAATTTATTT
Statistics
Matches: 298, Mismatches: 24, Indels: 24
0.86 0.07 0.07
Matches are distributed among these distances:
57 37 0.12
58 123 0.41
59 49 0.16
60 81 0.27
61 8 0.03
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTAGAAAGCTTATTTTCAAGG
Found at i:13841808 original size:27 final size:27
Alignment explanation
Indices: 13841778--13841866 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
13841768 ATTTTTAAGG
13841778 AAAATTGATACTTTTAACTTTTTCTCA
1 AAAATTGATACTTTTAACTTTTTCTCA
** * *
13841805 AAAATCCAT--TTTTGAAACTTATTTTTAA
1 AAAATTGATACTTTT--AACTT-TTTCTCA
* *
13841833 GCAAAATTGATACTTTCAACTTTTTCCCA
1 --AAAATTGATACTTTTAACTTTTTCTCA
13841862 AAAAT
1 AAAAT
13841867 ATTTTTTTTG
Statistics
Matches: 45, Mismatches: 10, Indels: 14
0.65 0.14 0.20
Matches are distributed among these distances:
25 4 0.09
27 17 0.38
28 5 0.11
29 4 0.09
30 12 0.27
32 3 0.07
ACGTcount: A:0.37, C:0.16, G:0.04, T:0.43
Consensus pattern (27 bp):
AAAATTGATACTTTTAACTTTTTCTCA
Found at i:13841983 original size:30 final size:30
Alignment explanation
Indices: 13841949--13842041 Score: 72
Period size: 29 Copynumber: 3.2 Consensus size: 30
13841939 AAGCTTATTT
13841949 TCAAAGAAAATTGATACTTTCAACTTTTCC
1 TCAAAGAAAATTGATACTTTCAACTTTTCC
* * *
13841979 TCAAA-AATATT--T--TTTAGAAAGCTTATT-T
1 TCAAAGAAAATTGATACTTT--CAA-CTT-TTCC
*
13842007 TCAAGGAAAATTGATACTTTCAACTTTTCC
1 TCAAAGAAAATTGATACTTTCAACTTTTCC
13842037 TCAAA
1 TCAAA
13842042 AATATTTTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 20
0.62 0.11 0.27
Matches are distributed among these distances:
25 3 0.07
27 3 0.07
28 7 0.16
29 14 0.31
30 12 0.27
31 3 0.07
33 3 0.07
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.39
Consensus pattern (30 bp):
TCAAAGAAAATTGATACTTTCAACTTTTCC
Found at i:13842093 original size:4 final size:5
Alignment explanation
Indices: 13842068--13842096 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
13842058 TTATTTAAAG
13842068 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
13842097 TAAACAATCC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:13842100 original size:15 final size:15
Alignment explanation
Indices: 13842068--13842096 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
13842058 TTATTTAAAG
13842068 AAAATAAAATAAAAT
1 AAAATAAAATAAAAT
13842083 AAAAT-AAATAAAAT
1 AAAATAAAATAAAAT
13842097 TAAACAATCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAATAAAATAAAAT
Found at i:13842999 original size:20 final size:20
Alignment explanation
Indices: 13842971--13843100 Score: 134
Period size: 20 Copynumber: 6.2 Consensus size: 20
13842961 AAATCAAATC
*
13842971 AAATAAAAAATATTAATAGAT
1 AAAT-AAAAATAATAATAGAT
* *
13842992 AATTAAAAGAAAATAATCAGAT
1 AAATAAAA-ATAATAAT-AGAT
* *
13843014 AAATAAAAATATTAACAGAT
1 AAATAAAAATAATAATAGAT
*
13843034 AAGTAAAAATAATAATAGAT
1 AAATAAAAATAATAATAGAT
* *
13843054 AAATTATAATAATAATAGAT
1 AAATAAAAATAATAATAGAT
*
13843074 AAATAATAATATATAAATAGAT
1 AAATAAAAATA-AT-AATAGAT
13843096 AAATA
1 AAATA
13843101 TAATAAGTAC
Statistics
Matches: 91, Mismatches: 14, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
20 52 0.57
21 16 0.18
22 23 0.25
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.28
Consensus pattern (20 bp):
AAATAAAAATAATAATAGAT
Found at i:13843121 original size:41 final size:41
Alignment explanation
Indices: 13843047--13843134 Score: 126
Period size: 41 Copynumber: 2.1 Consensus size: 41
13843037 TAAAAATAAT
13843047 AATAGATAAATTATAATAATAATAGATAAATAATAATATATA
1 AATAGATAAATTATAATAATAATA-ATAAATAATAATATATA
*
13843089 AATAGATAAA-TATAATAAGTACAT-ATATATAATAATATATA
1 AATAGATAAATTATAATAA-TA-ATAATAAATAATAATATATA
13843130 AATAG
1 AATAG
13843135 CTAAGTTAAC
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
41 29 0.67
42 12 0.28
43 2 0.05
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (41 bp):
AATAGATAAATTATAATAATAATAATAAATAATAATATATA
Found at i:13843128 original size:14 final size:13
Alignment explanation
Indices: 13843041--13843130 Score: 80
Period size: 14 Copynumber: 6.7 Consensus size: 13
13843031 GATAAGTAAA
13843041 AATA-ATAATAGAT
1 AATATATAATA-AT
13843054 AA-ATTATAATAAT
1 AATA-TATAATAAT
*
13843067 AATAGATAAATAAT
1 AATATAT-AATAAT
13843081 AATATATAAATAGAT
1 AATATAT-AATA-AT
13843096 AA-ATATAATAAGT
1 AATATATAATAA-T
13843109 ACATATAT-ATAAT
1 A-ATATATAATAAT
13843122 AATATATAA
1 AATATATAA
13843131 ATAGCTAAGT
Statistics
Matches: 66, Mismatches: 2, Indels: 18
0.77 0.02 0.21
Matches are distributed among these distances:
12 8 0.12
13 17 0.26
14 33 0.50
15 8 0.12
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.33
Consensus pattern (13 bp):
AATATATAATAAT
Found at i:13843567 original size:37 final size:35
Alignment explanation
Indices: 13843492--13843587 Score: 117
Period size: 35 Copynumber: 2.7 Consensus size: 35
13843482 TAAAATAAAA
* *
13843492 AAATAATAAT-AAGGATAATATATTAATTAATAGAT
1 AAATAATAATAAAGTAT-ATATATTAATTAACAGAT
13843527 AAATAATAATAAAGTATATATATGTATATTAACAGAT
1 AAATAATAATAAAGTATATATAT-TA-ATTAACAGAT
*
13843564 AAATACTAA-AAA-TATATATATTAA
1 AAATAATAATAAAGTATATATATTAA
13843588 AAATAGTAAC
Statistics
Matches: 55, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
33 1 0.02
34 2 0.04
35 25 0.45
36 10 0.18
37 17 0.31
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.34
Consensus pattern (35 bp):
AAATAATAATAAAGTATATATATTAATTAACAGAT
Found at i:13843929 original size:42 final size:41
Alignment explanation
Indices: 13843824--13844159 Score: 331
Period size: 42 Copynumber: 7.9 Consensus size: 41
13843814 AAAATCTGAT
* * *
13843824 TAAAACTCCTCTAAGCAGAGGCTCAACGAATTTGAAAAATATAAA
1 TAAAGCTCCTCTAATCAGAGGCTCAACGACTTTG---AA-ATAAA
* *
13843869 CAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAGAATGAA
1 TAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGA-AATAAA
13843911 TAAAGCTCCTCTAATCAGAGGCTCAACGACTTTG-AA-AAA
1 TAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAATAAA
*
13843950 TAAAACGGCTCCTCTAATCAGAGGCTCTACGACTTTGAAAGATAAA
1 T-AAA--GCTCCTCTAATCAGAGGCTCAACGACTTTG-AA-ATAAA
* * *
13843996 CAAAGCTCCTCTAATCAGAGGCTCTACAACTTTGAAAGATAAA
1 TAAAGCTCCTCTAATCAGAGGCTCAACGACTTTG-AA-ATAAA
* * * *
13844039 CAAAGCTCATCTAATCAAAGGCTCAACAACTTTTG-AA-AAA
1 TAAAGCTCCTCTAATCAGAGGCTCAACGAC-TTTGAAATAAA
* *
13844079 TAAATGGCTCCTCTAATCTGAGGCTTAACGACTTTGAAATTAAA
1 TAAA--GCTCCTCTAATCAGAGGCTCAACGACTTTGAAA-TAAA
* *
13844123 TAAAGCTCCTCTAAACAGAGGCATC-ACAACTTTGAAA
1 TAAAGCTCCTCTAATCAGAGGC-TCAACGACTTTGAAA
13844160 AACAAATTGC
Statistics
Matches: 253, Mismatches: 23, Indels: 33
0.82 0.07 0.11
Matches are distributed among these distances:
39 3 0.01
40 11 0.04
41 5 0.02
42 118 0.47
43 67 0.26
44 12 0.05
45 34 0.13
46 3 0.01
ACGTcount: A:0.40, C:0.22, G:0.15, T:0.24
Consensus pattern (41 bp):
TAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAATAAA
Found at i:13844028 original size:127 final size:126
Alignment explanation
Indices: 13843829--13844159 Score: 425
Period size: 127 Copynumber: 2.6 Consensus size: 126
13843819 CTGATTAAAA
* * *
13843829 CTCCTCTAAGCAGAGGCTCAACGAATTTGAAAAATATAAACAAAGCTCCTCTAATCAGAGGCTCA
1 CTCCTCTAATCAGAGGCTCTACGACTTTG--AAA-ATAAACAAAGCTCCTCTAATCAGAGGCTC-
* * * * * * *
13843894 ACGACTTTGAGA-ATGAATAAAGCTCCTCTAATCAGAGGCTCAACGAC-TTTGAAAAATAAAACG
62 ACAACTTTGAAAGATAAACAAAGCTCATCTAATCAAAGGCTCAACAACTTTTGAAAAAT-AAACG
13843957 G
126 G
13843958 CTCCTCTAATCAGAGGCTCTACGACTTTGAAAGATAAACAAAGCTCCTCTAATCAGAGGCTCTAC
1 CTCCTCTAATCAGAGGCTCTACGACTTTGAAA-ATAAACAAAGCTCCTCTAATCAGAGGCTC-AC
*
13844023 AACTTTGAAAGATAAACAAAGCTCATCTAATCAAAGGCTCAACAACTTTTGAAAAATAAATGG
64 AACTTTGAAAGATAAACAAAGCTCATCTAATCAAAGGCTCAACAACTTTTGAAAAATAAACGG
* * * *
13844086 CTCCTCTAATCTGAGGCT-TAACGACTTTGAAATTAAATAAAGCTCCTCTAAACAGAGGCATCAC
1 CTCCTCTAATCAGAGGCTCT-ACGACTTTGAAAATAAACAAAGCTCCTCTAATCAGAGGC-TCAC
13844150 AACTTTGAAA
64 AACTTTGAAA
13844160 AACAAATTGC
Statistics
Matches: 181, Mismatches: 17, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
127 79 0.44
128 66 0.36
129 36 0.20
ACGTcount: A:0.39, C:0.22, G:0.15, T:0.24
Consensus pattern (126 bp):
CTCCTCTAATCAGAGGCTCTACGACTTTGAAAATAAACAAAGCTCCTCTAATCAGAGGCTCACAA
CTTTGAAAGATAAACAAAGCTCATCTAATCAAAGGCTCAACAACTTTTGAAAAATAAACGG
Found at i:13844113 original size:170 final size:170
Alignment explanation
Indices: 13843829--13844159 Score: 431
Period size: 170 Copynumber: 1.9 Consensus size: 170
13843819 CTGATTAAAA
* * *
13843829 CTCCTCTAAGCAGAGGCTCAACGAATTTGAAAAATATAAACAAAGCTCCTCTAATCAGAGGCTCA
1 CTCCTCTAAGCAGAGGCTCAACGAATTTG-AAAAGATAAACAAAGCTCATCTAATCAAAGGCTCA
* **
13843894 ACGACTTTGAGAATGAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAA-ACGG
65 ACAACTTTGAGAA-GAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTG-AAAATAAATAAAG
* *
13843958 CTCCTCTAATCAGAGGC-TCTACGACTTTGAAAGATAAACAAAG
128 CTCCTCTAAACAGAGGCATC-ACAACTTTGAAAGATAAACAAAG
* *
13844001 CTCCTCTAATCAGAGGCTCTAC-AACTTTG-AAAGATAAACAAAGCTCATCTAATCAAAGGCTCA
1 CTCCTCTAAGCAGAGGCTCAACGAA-TTTGAAAAGATAAACAAAGCTCATCTAATCAAAGGCTCA
* * *
13844064 ACAACTTTTGA-AA-AATAAATGGCTCCTCTAATCTGAGGCTTAACGACTTTGAAATTAAATAAA
65 ACAAC-TTTGAGAAGAATAAA--GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAATAAA
13844127 GCTCCTCTAAACAGAGGCATCACAACTTTGAAA
127 GCTCCTCTAAACAGAGGCATCACAACTTTGAAA
13844160 AACAAATTGC
Statistics
Matches: 140, Mismatches: 13, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
168 6 0.04
169 7 0.05
170 94 0.67
171 9 0.06
172 24 0.17
ACGTcount: A:0.39, C:0.22, G:0.15, T:0.24
Consensus pattern (170 bp):
CTCCTCTAAGCAGAGGCTCAACGAATTTGAAAAGATAAACAAAGCTCATCTAATCAAAGGCTCAA
CAACTTTGAGAAGAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAATAAAGCTC
CTCTAAACAGAGGCATCACAACTTTGAAAGATAAACAAAG
Found at i:13845021 original size:58 final size:59
Alignment explanation
Indices: 13844676--13845022 Score: 470
Period size: 59 Copynumber: 5.9 Consensus size: 59
13844666 TTGTATAGAA
* * *
13844676 AAAATTGATACTTTCAACTTTTCC-CCAAAATATGTTTTTTAGAAA-CTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTTAGAAAGC-TTATTTTCAAGG
* *** * * *
13844735 AAAATTGATACTTTCAACTCTTCCTCAAAAATCCATTTTT-GAAAACTTATTTTTAAAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAGCTTATTTTCAAGG
* * *
13844793 AAAATTGATACTTTCAACTTTT-CTCCAAAAATATTTTTTTTGAAAAGCTTGTTTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTTTAG-AAAGCTTATTTTCAAGG
* *
13844853 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAGCTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAGCTTATTTTCAAGG
*
13844912 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAGAAAGCTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAGCTTATTTTCAAGG
*
13844971 AAAATTTATACTTTCAACTTTTCCTCAAAAATA-TTTTTTAGAAAGCTTATTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAGCTTATTT
13845023 AAATAAAATA
Statistics
Matches: 254, Mismatches: 28, Indels: 13
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.01
58 64 0.25
59 130 0.51
60 56 0.22
61 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.43
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAGCTTATTTTCAAGG
Found at i:13845040 original size:13 final size:13
Alignment explanation
Indices: 13845024--13845070 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
13845014 AGCTTATTTA
13845024 AATAAAATAAAAT
1 AATAAAATAAAAT
13845037 AATAAAAT-AAA-
1 AATAAAATAAAAT
13845048 AATAAAAATAAAAAT
1 AAT-AAAAT-AAAAT
13845063 AA-AAAATA
1 AATAAAATA
13845071 TTAAACAATC
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
11 3 0.10
12 9 0.30
13 13 0.43
14 3 0.10
15 2 0.07
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (13 bp):
AATAAAATAAAAT
Found at i:13845051 original size:6 final size:6
Alignment explanation
Indices: 13845023--13845067 Score: 58
Period size: 6 Copynumber: 7.5 Consensus size: 6
13845013 AAGCTTATTT
13845023 AAAT-A AAAT-A AAATAATA AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAAT-A-A AAATAA AAATAA AAATAA AAATAA AAA
13845068 ATATTAAACA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
5 9 0.24
6 22 0.59
7 1 0.03
8 5 0.14
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:13845109 original size:14 final size:14
Alignment explanation
Indices: 13845022--13845128 Score: 53
Period size: 14 Copynumber: 7.5 Consensus size: 14
13845012 AAAGCTTATT
13845022 TAAATAA-AATAAAA
1 TAAATAATAAT-AAA
*
13845036 TAATAAAATAA-AAA
1 TAA-ATAATAATAAA
13845050 TAAA-AATAA-AAA
1 TAAATAATAATAAA
* *
13845062 TAAAAAATATTAAA
1 TAAATAATAATAAA
* * *
13845076 CAATCCTAATCTAATTAA
1 TAA--ATAA--TAATAAA
13845094 TAAATAATAATAAA
1 TAAATAATAATAAA
13845108 TAAATAAATAA-AAA
1 TAAAT-AATAATAAA
*
13845122 AAAATAA
1 TAAATAA
13845129 AAAAACTTGG
Statistics
Matches: 73, Mismatches: 11, Indels: 19
0.71 0.11 0.18
Matches are distributed among these distances:
12 12 0.16
13 7 0.10
14 32 0.44
15 8 0.11
16 7 0.10
18 7 0.10
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAATAATAATAAA
Found at i:13845115 original size:18 final size:18
Alignment explanation
Indices: 13845092--13845129 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
13845082 TAATCTAATT
* *
13845092 AATAAATAATAATAAATA
1 AATAAATAAAAAAAAATA
13845110 AATAAATAAAAAAAAATA
1 AATAAATAAAAAAAAATA
13845128 AA
1 AA
13845130 AAAACTTGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (18 bp):
AATAAATAAAAAAAAATA
Found at i:13845952 original size:19 final size:18
Alignment explanation
Indices: 13845928--13845990 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 18
13845918 CAGAAAAAAG
13845928 AAAAAAAATCAAATCAAAT
1 AAAAAAAATCAAAT-AAAT
* *
13845947 AAAAAATATTAATATAAAATT
1 AAAAAAAATCAA-AT-AAA-T
* *
13845968 AAAAATAATCAGATAAAT
1 AAAAAAAATCAAATAAAT
13845986 AAAAA
1 AAAAA
13845991 TATTAACAGA
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
18 6 0.17
19 13 0.37
20 7 0.20
21 9 0.26
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (18 bp):
AAAAAAAATCAAATAAAT
Found at i:13845966 original size:20 final size:20
Alignment explanation
Indices: 13845943--13846010 Score: 59
Period size: 20 Copynumber: 3.5 Consensus size: 20
13845933 AAATCAAATC
*
13845943 AAATAAAAAATATTAATATA
1 AAATAAAAAATATTAACATA
* * * *
13845963 AAATTAAAAATAATCAGAT-
1 AAATAAAAAATATTAACATA
*
13845982 AAAT-AAAAATATTAACAGA
1 AAATAAAAAATATTAACATA
13846001 TAAATAAAAA
1 -AAATAAAAA
13846011 TAATAATAGA
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
18 10 0.27
19 4 0.11
20 19 0.51
21 4 0.11
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (20 bp):
AAATAAAAAATATTAACATA
Found at i:13846004 original size:40 final size:38
Alignment explanation
Indices: 13845928--13846014 Score: 97
Period size: 38 Copynumber: 2.2 Consensus size: 38
13845918 CAGAAAAAAG
* *
13845928 AAAAAAAATCAAATCAAATAAAAAATATTAATATAAAATT
1 AAAAATAATCAAATCAAATAAAAAATATTAAGAT-AAA-T
*
13845968 AAAAATAATCAGAT-AAAT-AAAAATATTAACAGATAAAT
1 AAAAATAATCAAATCAAATAAAAAATATT-A-AGATAAAT
13846006 AAAAATAAT
1 AAAAATAAT
13846015 AATAGATAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
38 19 0.45
39 8 0.19
40 15 0.36
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (38 bp):
AAAAATAATCAAATCAAATAAAAAATATTAAGATAAAT
Found at i:13846011 original size:20 final size:20
Alignment explanation
Indices: 13845971--13846132 Score: 139
Period size: 20 Copynumber: 7.8 Consensus size: 20
13845961 TAAAATTAAA
13845971 AATAATCAGATAAATAAAAAT
1 AATAAT-AGATAAATAAAAAT
* *
13845992 ATTAACAGATAAATAAAAAT
1 AATAATAGATAAATAAAAAT
* *
13846012 AATAATAGATAAATTATAAT
1 AATAATAGATAAATAAAAAT
*
13846032 AATAATAGATAAATAATAAT
1 AATAATAGATAAATAAAAAT
13846052 AATAATA-ATAATAATAGATAAAT
1 AATAATAGAT-A-AATA-A-AAAT
* *
13846075 AATAGTATATAAATAGATAAAT
1 AATAATAGATAAATA-A-AAAT
* * *
13846097 AATAATA-AGTACATATATAT
1 AATAATAGA-TAAATAAAAAT
*
13846117 AATAATATATAAATAA
1 AATAATAGATAAATAA
13846133 CTAAGTAATA
Statistics
Matches: 119, Mismatches: 15, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
19 2 0.02
20 72 0.61
21 10 0.08
22 23 0.19
23 10 0.08
24 2 0.02
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (20 bp):
AATAATAGATAAATAAAAAT
Found at i:13846017 original size:3 final size:3
Alignment explanation
Indices: 13846003--13846185 Score: 118
Period size: 3 Copynumber: 54.7 Consensus size: 3
13845993 TTAACAGATA
* *
13846003 AAT AAA AAT AAT AAT AGAT AAAT TAT AAT AAT AAT AGAT AAAT AAT AAT
1 AAT AAT AAT AAT AAT A-AT -AAT AAT AAT AAT AAT A-AT -AAT AAT AAT
*
13846052 AAT AAT AAT AAT AAT AGAT AAAT AAT AGT ATAT AAAT AGAT AAAT AAT
1 AAT AAT AAT AAT AAT A-AT -AAT AAT AAT A-AT -AAT A-AT -AAT AAT
13846100 AAT AAGT ACAT -AT ATAT AAT AAT ATAT AAAT AACT AAGT AAT AAT AAAT
1 AAT AA-T A-AT AAT A-AT AAT AAT A-AT -AAT AA-T AA-T AAT AAT -AAT
* *
13846149 ATAT ATT AAC ATAT AAAT AAT AAT AAT AAT AA- AAT AA
1 A-AT AAT AAT A-AT -AAT AAT AAT AAT AAT AAT AAT AA
13846186 ATAAATAAAT
Statistics
Matches: 147, Mismatches: 11, Indels: 44
0.73 0.05 0.22
Matches are distributed among these distances:
2 4 0.03
3 91 0.62
4 44 0.30
5 8 0.05
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:13846025 original size:14 final size:13
Alignment explanation
Indices: 13846003--13846189 Score: 122
Period size: 14 Copynumber: 13.9 Consensus size: 13
13845993 TTAACAGATA
13846003 AATAA-AAATAAT
1 AATAATAAATAAT
*
13846015 AATAGATAAATTAT
1 AATA-ATAAATAAT
13846029 AATAAT-AATAGAT
1 AATAATAAATA-AT
13846042 -A-AAT-AATAAT
1 AATAATAAATAAT
13846052 AATAAT-AATAAT
1 AATAATAAATAAT
13846064 AATAGATAAATAAT
1 AATA-ATAAATAAT
*
13846078 AGTATATAAATAGAT
1 AATA-ATAAATA-AT
13846093 AAATAAT-AATAAGT
1 -AATAATAAATAA-T
13846107 ACATATATATAATAAT
1 A-ATA-ATA-AATAAT
*
13846123 ATATAAATAACTAAGT
1 A-AT-AATAAATAA-T
13846139 AATAATAAATATAT
1 AATAATAAATA-AT
* * *
13846153 ATTAACATATAAAT
1 AATAATAAAT-AAT
13846167 AATAAT-AATAAT
1 AATAATAAATAAT
13846179 AA-AATAAATAA
1 AATAATAAATAA
13846190 ATAAATAAAT
Statistics
Matches: 142, Mismatches: 14, Indels: 38
0.73 0.07 0.20
Matches are distributed among these distances:
10 2 0.01
11 11 0.08
12 31 0.22
13 11 0.08
14 55 0.39
15 14 0.10
16 12 0.08
17 6 0.04
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.32
Consensus pattern (13 bp):
AATAATAAATAAT
Found at i:13846167 original size:25 final size:22
Alignment explanation
Indices: 13846027--13846254 Score: 100
Period size: 22 Copynumber: 10.9 Consensus size: 22
13846017 TAGATAAATT
13846027 ATAATAATAATAGATAAATAAT-A
1 ATAATAATAA-A-ATAAATAATAA
13846050 ATAATAATAATAAT-AATAGATAA
1 ATAATAATAA-AATAAATA-ATAA
* *
13846073 ATAATAGT-ATATAAATAGATAA
1 ATAATAATAAAATAAATA-ATAA
* * *
13846095 ATAATAAT-AAGTACAT-ATAT
1 ATAATAATAAAATAAATAATAA
*
13846115 ATAATAAT-ATATAAATAACTAA
1 ATAATAATAAAATAAATAA-TAA
* * *
13846137 GTAATAAT-AAATATATATTAA
1 ATAATAATAAAATAAATAATAA
*
13846158 CAT-ATAA-ATAAT-AATAAT-A
1 -ATAATAATAAAATAAATAATAA
13846177 ATAA-AAT-AAATAAATAAATAA
1 ATAATAATAAAATAAAT-AATAA
* *
13846198 AT-ACAA-AAAATACA-AA-AA
1 ATAATAATAAAATAAATAATAA
*
13846216 A-AAT-ATAAAAATAAAAAATAA
1 ATAATAAT-AAAATAAATAATAA
* *
13846237 A-AATAAAAAAAAAAATAA
1 ATAATAATAAAATAAATAA
13846255 AATGGACCTA
Statistics
Matches: 159, Mismatches: 26, Indels: 42
0.70 0.11 0.19
Matches are distributed among these distances:
17 1 0.01
18 11 0.07
19 14 0.09
20 26 0.16
21 43 0.27
22 44 0.28
23 20 0.13
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (22 bp):
ATAATAATAAAATAAATAATAA
Found at i:13846214 original size:8 final size:7
Alignment explanation
Indices: 13846163--13846256 Score: 72
Period size: 8 Copynumber: 13.1 Consensus size: 7
13846153 ATTAACATAT
13846163 AAATAATA
1 AAATAA-A
13846171 ATAATAATA
1 A-AATAA-A
13846180 AAATAAA
1 AAATAAA
13846187 TAAATAAA
1 -AAATAAA
13846195 TAAATACAA
1 -AAATA-AA
*
13846204 AAA-ATA
1 AAATAAA
*
13846210 CAA-AAA
1 AAATAAA
13846216 AAATATAA
1 AAATA-AA
13846224 AAATAAA
1 AAATAAA
13846231 AAAT-AA
1 AAATAAA
13846237 AAAT-AA
1 AAATAAA
13846243 AAA-AAA
1 AAATAAA
13846249 AAATAAA
1 AAATAAA
13846256 A
1 A
13846257 TGGACCTACC
Statistics
Matches: 75, Mismatches: 4, Indels: 15
0.80 0.04 0.16
Matches are distributed among these distances:
6 23 0.31
7 13 0.17
8 29 0.39
9 10 0.13
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (7 bp):
AAATAAA
Found at i:13846227 original size:19 final size:19
Alignment explanation
Indices: 13846184--13846256 Score: 80
Period size: 18 Copynumber: 3.8 Consensus size: 19
13846174 ATAATAAAAT
13846184 AAATAAATAAATAAATACA-AA
1 AAATAAA-AAATAAA-A-ATAA
*
13846205 AAATACAAAAA-AAATATAA
1 AAATA-AAAAATAAAAATAA
13846224 AAATAAAAAATAAAAATAA
1 AAATAAAAAATAAAAATAA
13846243 AAA-AAAAAATAAAA
1 AAATAAAAAATAAAA
13846257 TGGACCTACC
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
18 17 0.36
19 17 0.36
20 3 0.06
21 8 0.17
22 2 0.04
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (19 bp):
AAATAAAAAATAAAAATAA
Found at i:13846228 original size:32 final size:31
Alignment explanation
Indices: 13846161--13846256 Score: 97
Period size: 32 Copynumber: 3.0 Consensus size: 31
13846151 ATATTAACAT
* *
13846161 ATAAATAATAATAATAATAAAATAAATA-AATAA
1 ATAAAAAATAAAAATAA-AAAA-AAATATAA-AA
*
13846194 ATAAATACA-AAAAATACAAAAAAAATATAAAA
1 ATAAA-AAATAAAAATA-AAAAAAAATATAAAA
*
13846226 ATAAAAAATAAAAATAAAAAAAAAAATAAAA
1 ATAAAAAATAAAAATAAAAAAAAATATAAAA
13846257 TGGACCTACC
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
31 16 0.30
32 19 0.35
33 17 0.31
34 2 0.04
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (31 bp):
ATAAAAAATAAAAATAAAAAAAAATATAAAA
Found at i:13847414 original size:21 final size:21
Alignment explanation
Indices: 13847390--13847444 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
13847380 TCGTATACGT
*
13847390 AAATATCTCCTAGATTACAGA
1 AAATACCTCCTAGATTACAGA
*
13847411 AAATACCTCCTAGATTTCAGA
1 AAATACCTCCTAGATTACAGA
13847432 AAATACCT-CTAGA
1 AAATACCTCCTAGA
13847445 CATAGGCAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 5 0.16
21 27 0.84
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.27
Consensus pattern (21 bp):
AAATACCTCCTAGATTACAGA
Found at i:13848231 original size:15 final size:15
Alignment explanation
Indices: 13848211--13848241 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13848201 ATAATTATAA
13848211 AATTATAACTAAAAT
1 AATTATAACTAAAAT
*
13848226 AATTATAACTAGAAT
1 AATTATAACTAAAAT
13848241 A
1 A
13848242 TCAATTGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.32
Consensus pattern (15 bp):
AATTATAACTAAAAT
Found at i:13849272 original size:24 final size:22
Alignment explanation
Indices: 13849230--13849276 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 22
13849220 AGTATCTTTC
13849230 TATATTTTATTTTTATTTATTT
1 TATATTTTATTTTTATTTATTT
*
13849252 TATATTTTGAGTTTTTCTTTATTT
1 TATATTTT-A-TTTTTATTTATTT
13849276 T
1 T
13849277 TTTCAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 8 0.36
23 1 0.05
24 13 0.59
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.74
Consensus pattern (22 bp):
TATATTTTATTTTTATTTATTT
Found at i:13849345 original size:31 final size:32
Alignment explanation
Indices: 13849283--13849352 Score: 83
Period size: 31 Copynumber: 2.2 Consensus size: 32
13849273 TTTTTTTCAA
*
13849283 TTTT-TTAGTTTATTTATTTTATTTTACTAAT
1 TTTTATTAGTTTATTTATTTTATTTGACTAAT
*
13849314 TTTTATTA-TTTATTTACTTTTA-TTGAGTAAT
1 TTTTATTAGTTTATTTA-TTTTATTTGACTAAT
13849345 TTATTATT
1 TT-TTATT
13849353 TGTTAAATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
31 21 0.62
32 13 0.38
ACGTcount: A:0.24, C:0.03, G:0.04, T:0.69
Consensus pattern (32 bp):
TTTTATTAGTTTATTTATTTTATTTGACTAAT
Found at i:13853466 original size:13 final size:13
Alignment explanation
Indices: 13853450--13853488 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
13853440 GTGTGAAAAA
13853450 AAAAGAAAATTAC
1 AAAAGAAAATTAC
13853463 AAAA-AAAA-T--
1 AAAAGAAAATTAC
13853472 AAAAGAAAATTAC
1 AAAAGAAAATTAC
13853485 AAAA
1 AAAA
13853489 AAATTGAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 8
0.73 0.00 0.27
Matches are distributed among these distances:
9 4 0.18
10 4 0.18
11 2 0.09
12 4 0.18
13 8 0.36
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.13
Consensus pattern (13 bp):
AAAAGAAAATTAC
Found at i:13853469 original size:11 final size:11
Alignment explanation
Indices: 13853455--13853493 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
13853445 AAAAAAAAAG
13853455 AAAATTACAAA
1 AAAATTACAAA
*
13853466 AAAAATA-AAA
1 AAAATTACAAA
13853476 GAAAATTACAAA
1 -AAAATTACAAA
13853488 AAAATT
1 AAAATT
13853494 GAAAGAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
10 3 0.12
11 18 0.75
12 3 0.12
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.18
Consensus pattern (11 bp):
AAAATTACAAA
Found at i:13853498 original size:22 final size:22
Alignment explanation
Indices: 13853445--13853502 Score: 91
Period size: 22 Copynumber: 2.7 Consensus size: 22
13853435 AAAAAGTGTG
13853445 AAAAA-AAAAGAAAATTACAAA
1 AAAAATAAAAGAAAATTACAAA
13853466 AAAAATAAAAGAAAATTACAAA
1 AAAAATAAAAGAAAATTACAAA
* *
13853488 AAAATTGAAAGAAAA
1 AAAAATAAAAGAAAA
13853503 ATGGAGGAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
21 5 0.15
22 29 0.85
ACGTcount: A:0.78, C:0.03, G:0.07, T:0.12
Consensus pattern (22 bp):
AAAAATAAAAGAAAATTACAAA
Found at i:13855153 original size:46 final size:46
Alignment explanation
Indices: 13855086--13855175 Score: 121
Period size: 46 Copynumber: 2.0 Consensus size: 46
13855076 TGAAAAAACA
* *
13855086 TTGAAGATTTTATAGTAAATTTTAGTGCTTGATTTATGCAATTACG
1 TTGAAGATTTTATAGTAAATTTCAGTGCTTAATTTATGCAATTACG
*
13855132 TTGAAGATTTTGCA-AG-AAATTTCGGTGCTTAATTTATGCAATTA
1 TTGAAGATTTT--ATAGTAAATTTCAGTGCTTAATTTATGCAATTA
13855176 ATTCACATTC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
46 36 0.92
47 2 0.05
48 1 0.03
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (46 bp):
TTGAAGATTTTATAGTAAATTTCAGTGCTTAATTTATGCAATTACG
Found at i:13855710 original size:28 final size:28
Alignment explanation
Indices: 13855677--13855760 Score: 84
Period size: 28 Copynumber: 3.0 Consensus size: 28
13855667 TTTTACAGGT
13855677 ATTTTTTATTTTATTTTTATTTATTTT-
1 ATTTTTTATTTTATTTTTATTTATTTTA
* *
13855704 ATATTTTGAGTTTT-CTTTTATTTATTTTCA
1 AT-TTTTTA-TTTTATTTTTATTTATTTT-A
* *
13855734 ATTTTTTATTTCATTTAT-TTTATTTTA
1 ATTTTTTATTTTATTTTTATTTATTTTA
13855761 CAGATTTTTA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
27 3 0.07
28 29 0.63
29 12 0.26
30 2 0.04
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.74
Consensus pattern (28 bp):
ATTTTTTATTTTATTTTTATTTATTTTA
Done.