Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 174 of 230
Found at i:52056924 original size:207 final size:206
Alignment explanation
Indices: 52056551--52056943 Score: 522
Period size: 207 Copynumber: 1.9 Consensus size: 206
52056541 TGTACAACAT
* * * * *
52056551 TAGTCGAATAATCCACAATGTTTTGCACCCAGCGCTTGTCGGATAAATCGACGAATAATGTTCCC
1 TAGTCGAATAATCAACAATGTTTTGCACCCAGCACTAGTCGAATAAATCGACGAATAATGTGCCC
* * * * *
52056616 CATATTAGTCGAATAGTCGATAATGTTTTGCGCTAGGTGCTAGTCAGATAAATCGAGGAGTAGTG
66 CACACTAGTCGAATAATCGATAATGTTTTGCGCCA-GTGCTAGTCAGATAAATCGAGGAATAGTG
* *
52056681 TGCCCAGCACTAGTCGAATAATCGATAATGTTTTACGCCCAACGCTAGTCTGATAAACTGAGTAG
130 TGCCCAGCACTAGTCGAATAATCGAAAATGTTTTACGCCCAACGCTAGTCAGATAAACTGAGTAG
52056746 TGTGTCCAGCAC
195 TGTGTCCAGCAC
* * *
52056758 TAGTCGTATAATTAACAATGTTTTGCACCCAGCACTAGTCGAATAAA-CTGACGAATAGTGTGCC
1 TAGTCGAATAATCAACAATGTTTTGCACCCAGCACTAGTCGAATAAATC-GACGAATAATGTGCC
* * * *
52056822 CCGCACTAGTTGAATAATTGATAATGTTTTGCGCCCA-TCGCTAGTCAGATAAATCGATGAATAG
65 CCACACTAGTCGAATAATCGATAATGTTTTGCG-CCAGT-GCTAGTCAGATAAATCGAGGAATAG
* * *
52056886 TGT-CCCTAGCACTAGTCGAATAATCGAAAATTTTTTACGCCCAGCGCTATTCAGATAA
128 TGTGCCC-AGCACTAGTCGAATAATCGAAAATGTTTTACGCCCAACGCTAGTCAGATAA
52056944 CCGAAAATAT
Statistics
Matches: 160, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
206 5 0.03
207 153 0.96
208 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.28
Consensus pattern (206 bp):
TAGTCGAATAATCAACAATGTTTTGCACCCAGCACTAGTCGAATAAATCGACGAATAATGTGCCC
CACACTAGTCGAATAATCGATAATGTTTTGCGCCAGTGCTAGTCAGATAAATCGAGGAATAGTGT
GCCCAGCACTAGTCGAATAATCGAAAATGTTTTACGCCCAACGCTAGTCAGATAAACTGAGTAGT
GTGTCCAGCAC
Found at i:52057002 original size:20 final size:20
Alignment explanation
Indices: 52056977--52057019 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
52056967 CCAAATCCAT
52056977 AATATCACATTTCATAACTC
1 AATATCACATTTCATAACTC
* *
52056997 AATATCATATTTCATAATTC
1 AATATCACATTTCATAACTC
52057017 AAT
1 AAT
52057020 GTAACATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.40
Consensus pattern (20 bp):
AATATCACATTTCATAACTC
Found at i:52057028 original size:20 final size:20
Alignment explanation
Indices: 52056977--52057028 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
52056967 CCAAATCCAT
*
52056977 AATATCACATTTCATAACTC
1 AATATAACATTTCATAACTC
* * *
52056997 AATATCATATTTCATAATTC
1 AATATAACATTTCATAACTC
*
52057017 AATGTAACATTT
1 AATATAACATTT
52057029 ACTTCAATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.40
Consensus pattern (20 bp):
AATATAACATTTCATAACTC
Found at i:52060382 original size:40 final size:40
Alignment explanation
Indices: 52060319--52060618 Score: 211
Period size: 40 Copynumber: 7.5 Consensus size: 40
52060309 GAGTCTAAAC
** * *
52060319 AAGGGCACGTAACTGC-ATTAAGGGGATCGAAGTACAAAT
1 AAGGGCACGTATGTGCAATCAAGGGTATCGAAGTACAAAT
* * * * *
52060358 AGGGGCATGTATGTGCAATCAAGGGTACCGACGTACAAAC
1 AAGGGCACGTATGTGCAATCAAGGGTATCGAAGTACAAAT
* * * *
52060398 AAGGGCACATATGTGCAAT-TA-GGCATACCATAGTACAAAT
1 AAGGGCACGTATGTGCAATCAAGGGTAT-CGA-AGTACAAAT
* *
52060438 AAGGGTACGTATGTGCAATCAAGGGTATC-AACGTACAAAC
1 AAGGGCACGTATGTGCAATCAAGGGTATCGAA-GTACAAAT
* * * *
52060478 AGGGGCACGTATGTGCAATC-A-GGCATACCATAGTATAAAT
1 AAGGGCACGTATGTGCAATCAAGGGTAT-CGA-AGTACAAAT
* ** ** * *
52060518 AAGGGCATGCCTGCACAA-CCAGAGGTA-CTGAAGTACAAAC
1 AAGGGCACGTATGTGCAATCAAG-GGTATC-GAAGTACAAAT
* * *
52060558 AAGGGCACATATGTGCAATCAAGGGTACCGAAGTAAAAAT
1 AAGGGCACGTATGTGCAATCAAGGGTATCGAAGTACAAAT
*
52060598 AGGGGCACGTATGTGCAATCA
1 AAGGGCACGTATGTGCAATCA
52060619 TCAATAATTA
Statistics
Matches: 197, Mismatches: 49, Indels: 29
0.72 0.18 0.11
Matches are distributed among these distances:
38 7 0.04
39 19 0.10
40 156 0.79
41 8 0.04
42 7 0.04
ACGTcount: A:0.37, C:0.18, G:0.26, T:0.19
Consensus pattern (40 bp):
AAGGGCACGTATGTGCAATCAAGGGTATCGAAGTACAAAT
Found at i:52060450 original size:80 final size:80
Alignment explanation
Indices: 52060349--52060618 Score: 303
Period size: 80 Copynumber: 3.4 Consensus size: 80
52060339 AGGGGATCGA
* *
52060349 AGTACAAATAGGGGCATGTATGTGCAATCAAGGGTACCGACGTACAAACAAGGGCACATATGTGC
1 AGTACAAATAAGGGCACGTATGTGCAATCAAGGGTACCGACGTACAAACAAGGGCACATATGTGC
*
52060414 AATTAGGCATACCAT
66 AATAAGGCATACCAT
* * * * *
52060429 AGTACAAATAAGGGTACGTATGTGCAATCAAGGGTATCAACGTACAAACAGGGGCACGTATGTGC
1 AGTACAAATAAGGGCACGTATGTGCAATCAAGGGTACCGACGTACAAACAAGGGCACATATGTGC
*
52060494 AATCAGGCATACCAT
66 AATAAGGCATACCAT
* * ** ** * * *
52060509 AGTATAAATAAGGGCATGCCTGCACAA-CCAGAGGTACTGAAGTACAAACAAGGGCACATATGTG
1 AGTACAAATAAGGGCACGTATGTGCAATCAAG-GGTACCGACGTACAAACAAGGGCACATATGTG
*
52060573 CAATCAAGG-GTACCGA-
65 CAAT-AAGGCATACC-AT
* *
52060589 AGTAAAAATAGGGGCACGTATGTGCAATCA
1 AGTACAAATAAGGGCACGTATGTGCAATCA
52060619 TCAATAATTA
Statistics
Matches: 154, Mismatches: 32, Indels: 7
0.80 0.17 0.04
Matches are distributed among these distances:
79 3 0.02
80 146 0.95
81 5 0.03
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (80 bp):
AGTACAAATAAGGGCACGTATGTGCAATCAAGGGTACCGACGTACAAACAAGGGCACATATGTGC
AATAAGGCATACCAT
Found at i:52062758 original size:29 final size:29
Alignment explanation
Indices: 52062695--52062763 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
52062685 TAATCAACCG
52062695 CGCACACTTACTGCCATGCACTTTAAACT
1 CGCACACTTACTGCCATGCACTTTAAACT
* * **
52062724 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTACTGCCATGCACTTT-AAACT
52062753 CGCACACTTAC
1 CGCACACTTAC
52062764 ATTTTCCGCT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.33, G:0.12, T:0.28
Consensus pattern (29 bp):
CGCACACTTACTGCCATGCACTTTAAACT
Found at i:52062932 original size:29 final size:29
Alignment explanation
Indices: 52062869--52062936 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
52062859 TAATCAACCG
52062869 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
52062898 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
52062927 CGCACACTTA
1 CGCACACTTA
52062937 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:52063077 original size:29 final size:30
Alignment explanation
Indices: 52063038--52063116 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
52063028 CTTAATAATC
52063038 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
52063068 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
52063097 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
52063117 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:52063110 original size:174 final size:174
Alignment explanation
Indices: 52062584--52063085 Score: 950
Period size: 174 Copynumber: 2.9 Consensus size: 174
52062574 AACTCAAGGT
* *
52062584 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
52062649 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTACTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
52062714 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
52062758 ACTTACATTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
52062823 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
52062888 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
52062932 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
52062997 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
52063062 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
52063086 TGTACAATTT
Statistics
Matches: 321, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 321 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:52066655 original size:9 final size:9
Alignment explanation
Indices: 52066641--52066667 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
52066631 GCAACTGAGA
52066641 TTTTAACTC
1 TTTTAACTC
52066650 TTTTAACTC
1 TTTTAACTC
52066659 TTTTAACTC
1 TTTTAACTC
52066668 GGTTGGTGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.22, G:0.00, T:0.56
Consensus pattern (9 bp):
TTTTAACTC
Found at i:52070309 original size:29 final size:29
Alignment explanation
Indices: 52070246--52070313 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
52070236 TAATCAACCG
*
52070246 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
52070275 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
52070304 CGCACACTTA
1 CGCACACTTA
52070314 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:52070483 original size:29 final size:29
Alignment explanation
Indices: 52070420--52070487 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
52070410 TAATCAACCG
52070420 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
52070449 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
52070478 CGCACACTTA
1 CGCACACTTA
52070488 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:52070628 original size:29 final size:30
Alignment explanation
Indices: 52070589--52070667 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
52070579 CTTAATAATC
52070589 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
52070619 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
52070648 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
52070668 ATCTCATGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:52070661 original size:174 final size:174
Alignment explanation
Indices: 52070135--52070636 Score: 932
Period size: 174 Copynumber: 2.9 Consensus size: 174
52070125 AACTCAAGGT
* * *
52070135 ACTTATCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
52070200 GAAAATATATATTGGGTTCTCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
52070265 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
52070309 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCACACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
52070374 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
52070439 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
52070483 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCAACCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
52070548 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
*
52070613 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
52070637 TGTACAATTT
Statistics
Matches: 318, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 318 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:52079650 original size:40 final size:40
Alignment explanation
Indices: 52079568--52079717 Score: 158
Period size: 40 Copynumber: 3.8 Consensus size: 40
52079558 AGGGTTACAG
* * ** **
52079568 AGTATAAACAAGGGCACGTAAGTGC-ATTTAGAGGTATTGA
1 AGTACAAACAAGGGCACGTATGTGCAATCAAG-GGTACCGA
* *
52079608 AGTACAAACAAGAGCATGTATGTGCAATCAAGGGTACCGA
1 AGTACAAACAAGGGCACGTATGTGCAATCAAGGGTACCGA
* * * *
52079648 AGTACAAATAGGGGCACGTATGTGCAATCAGGGGTACCAA
1 AGTACAAACAAGGGCACGTATGTGCAATCAAGGGTACCGA
* *
52079688 AGTACAAACAAGGGAACGTATGTACAATCA
1 AGTACAAACAAGGGCACGTATGTGCAATCA
52079718 TCAATAATTA
Statistics
Matches: 91, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
40 87 0.96
41 4 0.04
ACGTcount: A:0.39, C:0.15, G:0.26, T:0.19
Consensus pattern (40 bp):
AGTACAAACAAGGGCACGTATGTGCAATCAAGGGTACCGA
Found at i:52083044 original size:24 final size:25
Alignment explanation
Indices: 52083007--52083053 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
52082997 ACTGGTCATA
*
52083007 GAGAGAATTAAGGA-AGGATATTCG
1 GAGAGAATTAAGGAGAGAATATTCG
* *
52083031 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTAAGGAGAGAATATT
52083054 GGGATTTGGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.40, C:0.02, G:0.34, T:0.23
Consensus pattern (25 bp):
GAGAGAATTAAGGAGAGAATATTCG
Found at i:52083715 original size:26 final size:27
Alignment explanation
Indices: 52083685--52083745 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
52083675 GAGAGGTCAA
*
52083685 AAAAAGACCAAATTACCCCCGAAGGGT
1 AAAATGACCAAATTACCCCCGAAGGGT
** *
52083712 AAAATGACTGAATTACCCCCTAAGGGT
1 AAAATGACCAAATTACCCCCGAAGGGT
52083739 AAAATGA
1 AAAATGA
52083746 TTGAATTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.44, C:0.21, G:0.18, T:0.16
Consensus pattern (27 bp):
AAAATGACCAAATTACCCCCGAAGGGT
Found at i:52083743 original size:27 final size:27
Alignment explanation
Indices: 52083695--52083805 Score: 119
Period size: 27 Copynumber: 4.3 Consensus size: 27
52083685 AAAAAGACCA
*
52083695 AATTACCCCCGAAGGGTAAAATGACTG
1 AATTACCCCCTAAGGGTAAAATGACTG
*
52083722 AATTACCCCCTAAGGGTAAAATGATTG
1 AATTACCCCCTAAGGGTAAAATGACTG
52083749 AATT------TAAGGGTAAAAATGA-TCG
1 AATTACCCCCTAAGGGT-AAAATGACT-G
* *
52083771 AATTACCCCCAAAGGATAAAATGACTG
1 AATTACCCCCTAAGGGTAAAATGACTG
52083798 AATTACCC
1 AATTACCC
52083806 TTGAAAGGTG
Statistics
Matches: 71, Mismatches: 4, Indels: 18
0.76 0.04 0.19
Matches are distributed among these distances:
21 8 0.11
22 12 0.17
27 45 0.63
28 6 0.08
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.23
Consensus pattern (27 bp):
AATTACCCCCTAAGGGTAAAATGACTG
Found at i:52083758 original size:21 final size:22
Alignment explanation
Indices: 52083732--52083774 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
52083722 AATTACCCCC
*
52083732 TAAGGGT-AAAATGATTGAATT
1 TAAGGGTAAAAATGATCGAATT
52083753 TAAGGGTAAAAATGATCGAATT
1 TAAGGGTAAAAATGATCGAATT
52083775 ACCCCCAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.44, C:0.02, G:0.23, T:0.30
Consensus pattern (22 bp):
TAAGGGTAAAAATGATCGAATT
Found at i:52083777 original size:49 final size:48
Alignment explanation
Indices: 52083706--52083801 Score: 140
Period size: 49 Copynumber: 2.0 Consensus size: 48
52083696 ATTACCCCCG
* * *
52083706 AAGGGTAAAATGACTGAATTACCCCCTAAGGGTAAAATGATTGAATTT
1 AAGGGTAAAATGACTGAATTACCCCCAAAGGATAAAATGACTGAATTT
52083754 AAGGGTAAAAATGA-TCGAATTACCCCCAAAGGATAAAATGACTGAATT
1 AAGGGT-AAAATGACT-GAATTACCCCCAAAGGATAAAATGACTGAATT
52083802 ACCCTTGAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
48 7 0.16
49 36 0.84
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.24
Consensus pattern (48 bp):
AAGGGTAAAATGACTGAATTACCCCCAAAGGATAAAATGACTGAATTT
Found at i:52084051 original size:26 final size:26
Alignment explanation
Indices: 52084010--52084093 Score: 96
Period size: 26 Copynumber: 3.2 Consensus size: 26
52084000 GTACTTGTGG
* *
52084010 CTTTGCCACATATACTGTTACTGGTAA
1 CTTTGCTACA-ATACTGTTACTGGCAA
* * *
52084037 CTTTGCTGCATTACTGTTACTTGCAA
1 CTTTGCTACAATACTGTTACTGGCAA
* *
52084063 CTTTGCTACAATACTATTACTGGCAG
1 CTTTGCTACAATACTGTTACTGGCAA
52084089 CTTTG
1 CTTTG
52084094 TTGCAATATT
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
26 39 0.83
27 8 0.17
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (26 bp):
CTTTGCTACAATACTGTTACTGGCAA
Found at i:52084100 original size:26 final size:26
Alignment explanation
Indices: 52084021--52084101 Score: 99
Period size: 26 Copynumber: 3.1 Consensus size: 26
52084011 TTTGCCACAT
*
52084021 ATACTGTTACTGGTAACTTTGCTGCA
1 ATACTGTTACTGGCAACTTTGCTGCA
* * *
52084047 TTACTGTTACTTGCAACTTTGCTACA
1 ATACTGTTACTGGCAACTTTGCTGCA
* * *
52084073 ATACTATTACTGGCAGCTTTGTTGCA
1 ATACTGTTACTGGCAACTTTGCTGCA
52084099 ATA
1 ATA
52084102 TTAGTGTGTT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.40
Consensus pattern (26 bp):
ATACTGTTACTGGCAACTTTGCTGCA
Found at i:52084248 original size:28 final size:28
Alignment explanation
Indices: 52084208--52084297 Score: 103
Period size: 28 Copynumber: 3.2 Consensus size: 28
52084198 AATTGTATTA
* * *
52084208 TTACTGTTTTGGGCTAGGGCCCACACTAT
1 TTACTGTATTGGGCTAAGGCCCACACT-G
52084237 TTA-TGTATTGGGCTAAGGCCCACACTG
1 TTACTGTATTGGGCTAAGGCCCACACTG
* * *
52084264 TTACTGTATCGGCCTAAGGCCCACATTG
1 TTACTGTATTGGGCTAAGGCCCACACTG
52084292 -TACTGT
1 TTACTGT
52084298 TACTGAATAG
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
27 9 0.17
28 42 0.78
29 3 0.06
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (28 bp):
TTACTGTATTGGGCTAAGGCCCACACTG
Found at i:52086502 original size:27 final size:27
Alignment explanation
Indices: 52086438--52086606 Score: 198
Period size: 27 Copynumber: 6.3 Consensus size: 27
52086428 GAGAGGTCAA
** *
52086438 AAAATGATTGAATTACCCCTGAAAGGGT
1 AAAATGACCGAATTACCCCCGAAA-GGT
52086466 AAAATGACCGAATTACCCCCGAAAGGT
1 AAAATGACCGAATTACCCCCGAAAGGT
*
52086493 AAAATAACCGAATTACCCCC-AAAGGTT
1 AAAATGACCGAATTACCCCCGAAAGG-T
*
52086520 AAAATGACCGAATTA-CCCCGAAGGGT
1 AAAATGACCGAATTACCCCCGAAAGGT
** *
52086546 AAAATGATGGAATTACCCCCGAAGGGT
1 AAAATGACCGAATTACCCCCGAAAGGT
* ** *
52086573 AAAATGACTGAATTACCCTTGAAGGGT
1 AAAATGACCGAATTACCCCCGAAAGGT
52086600 AAAATGA
1 AAAATGA
52086607 TTGTTATACC
Statistics
Matches: 126, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
26 23 0.18
27 82 0.65
28 21 0.17
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.20
Consensus pattern (27 bp):
AAAATGACCGAATTACCCCCGAAAGGT
Found at i:52086618 original size:54 final size:53
Alignment explanation
Indices: 52086438--52086609 Score: 227
Period size: 53 Copynumber: 3.2 Consensus size: 53
52086428 GAGAGGTCAA
* *
52086438 AAAATGATTGAATTACCCCTGAAAGGGTAAAATGACCGAATTACCCCCGAAAGGT
1 AAAATGATTGAATTACCCCCG-AAGGGTAAAATGACCGAATTA-CCCCGAAGGGT
* ** * *
52086493 AAAATAACCGAATTACCCCCAAAGGTTAAAATGACCGAATTACCCCGAAGGGT
1 AAAATGATTGAATTACCCCCGAAGGGTAAAATGACCGAATTACCCCGAAGGGT
* * *
52086546 AAAATGATGGAATTACCCCCGAAGGGTAAAATGACTGAATTACCCTTGAAGGGT
1 AAAATGATTGAATTACCCCCGAAGGGTAAAATGACCGAATTACCC-CGAAGGGT
52086600 AAAATGATTG
1 AAAATGATTG
52086610 TTATACCCCT
Statistics
Matches: 101, Mismatches: 15, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
53 49 0.49
54 36 0.36
55 16 0.16
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.20
Consensus pattern (53 bp):
AAAATGATTGAATTACCCCCGAAGGGTAAAATGACCGAATTACCCCGAAGGGT
Found at i:52086618 original size:80 final size:82
Alignment explanation
Indices: 52086438--52086609 Score: 231
Period size: 80 Copynumber: 2.1 Consensus size: 82
52086428 GAGAGGTCAA
52086438 AAAATGATTGAATTACCCCTGAAAGGGTAAAATGACCGAATTACCCCCGAAAGGTAAAATAACCG
1 AAAATGATTGAATTACCCCTGAAAGGGTAAAATGACCGAATTACCCCCGAAAGGTAAAATAACCG
*
52086503 AATTACCCCCAAAGGTT
66 AATTACCCCCAAAGGGT
** ** * * *
52086520 AAAATGACCGAATTACCCC-G-AAGGGTAAAATGATGGAATTACCCCCGAAGGGTAAAATGACTG
1 AAAATGATTGAATTACCCCTGAAAGGGTAAAATGACCGAATTACCCCCGAAAGGTAAAATAACCG
***
52086583 AATTACCCTTGAAGGGT
66 AATTACCCCCAAAGGGT
52086600 AAAATGATTG
1 AAAATGATTG
52086610 TTATACCCCT
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
80 59 0.77
81 1 0.01
82 17 0.22
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.20
Consensus pattern (82 bp):
AAAATGATTGAATTACCCCTGAAAGGGTAAAATGACCGAATTACCCCCGAAAGGTAAAATAACCG
AATTACCCCCAAAGGGT
Found at i:52086990 original size:28 final size:28
Alignment explanation
Indices: 52086938--52087031 Score: 120
Period size: 28 Copynumber: 3.4 Consensus size: 28
52086928 ACTGCATTGT
* *
52086938 ACTGTTACTGTTTTGGGCTAGGGCCCAC
1 ACTGTTACTGTATTGGGCTAAGGCCCAC
* *
52086966 ACTATTTA-TGTATTGGGCTAAGGCCTAC
1 ACT-GTTACTGTATTGGGCTAAGGCCCAC
*
52086994 ACTGTTACTGTATCGGGCTAAGGCCCAC
1 ACTGTTACTGTATTGGGCTAAGGCCCAC
52087022 ACTG-TACTGT
1 ACTGTTACTGT
52087032 TACTGAATAG
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
27 9 0.16
28 45 0.79
29 3 0.05
ACGTcount: A:0.20, C:0.23, G:0.24, T:0.32
Consensus pattern (28 bp):
ACTGTTACTGTATTGGGCTAAGGCCCAC
Found at i:52087059 original size:33 final size:34
Alignment explanation
Indices: 52086994--52087064 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 34
52086984 TAAGGCCTAC
* *
52086994 ACTGTTACTGTATCGGGCTAAGGCCCACACTG-T
1 ACTGTTACTGAATAGGGCTAAGGCCCACACTGTT
* * *
52087027 ACTGTTACTGAATAGGGCTCAGGCCTAGACTGTT
1 ACTGTTACTGAATAGGGCTAAGGCCCACACTGTT
52087061 ACTG
1 ACTG
52087065 CATGTTGTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 27 0.84
34 5 0.16
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (34 bp):
ACTGTTACTGAATAGGGCTAAGGCCCACACTGTT
Found at i:52087060 original size:61 final size:56
Alignment explanation
Indices: 52086938--52087064 Score: 146
Period size: 56 Copynumber: 2.2 Consensus size: 56
52086928 ACTGCATTGT
* * * * *
52086938 ACTGTTACTGTTTTGGGCTAGGGCCCACACTATTTATGTATTGGGCTAAGGCCTAC
1 ACTGTTACTGTATCGGGCTAAGGCCCACACTATTTATGAATAGGGCTAAGGCCTAC
* *
52086994 ACTGTTACTGTATCGGGCTAAGGCCCACACTGTACTGTTACTGAATAGGGCTCAGGCCTAG
1 ACTGTTACTGTATCGGGCTAAGGCCCACAC--TA-T-TTA-TGAATAGGGCTAAGGCCTAC
52087055 ACTGTTACTG
1 ACTGTTACTG
52087065 CATGTTGTAT
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
56 27 0.46
58 2 0.03
59 1 0.02
60 3 0.05
61 26 0.44
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.31
Consensus pattern (56 bp):
ACTGTTACTGTATCGGGCTAAGGCCCACACTATTTATGAATAGGGCTAAGGCCTAC
Found at i:52098838 original size:28 final size:28
Alignment explanation
Indices: 52098806--52098894 Score: 90
Period size: 28 Copynumber: 3.1 Consensus size: 28
52098796 ATGACCATGC
*
52098806 ACCACCATTTTAAAGATTTTACAATTTT
1 ACCACTATTTTAAAGATTTTACAATTTT
* * *
52098834 ACCACTGTATTTTTAA-ATTTTACAGTTCT
1 ACCAC--TATTTTAAAGATTTTACAATTTT
* **
52098863 GCCACTATTTTCTAGATTTTACAATTTT
1 ACCACTATTTTAAAGATTTTACAATTTT
52098891 ACCA
1 ACCA
52098895 TTGGTTTTCC
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
27 7 0.15
28 19 0.40
29 15 0.31
30 7 0.15
ACGTcount: A:0.30, C:0.19, G:0.06, T:0.45
Consensus pattern (28 bp):
ACCACTATTTTAAAGATTTTACAATTTT
Found at i:52098911 original size:57 final size:57
Alignment explanation
Indices: 52098819--52098928 Score: 141
Period size: 57 Copynumber: 1.9 Consensus size: 57
52098809 ACCATTTTAA
**
52098819 AGATTTTACAATTTTACCACTGTATTTTTAAATTTTACAGTTCTGCCACTATTTTCT
1 AGATTTTACAATTTTACCACTGTATTTCCAAATTTTACAGTTCTGCCACTATTTTCT
* * * * *
52098876 AGATTTTACAATTTTACCATTGGT-TTTCCAGATTTTATAGTTTTGCCATTATT
1 AGATTTTACAATTTTACCACT-GTATTTCCAAATTTTACAGTTCTGCCACTATT
52098929 CAGTCCCTGA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
57 43 0.96
58 2 0.04
ACGTcount: A:0.25, C:0.15, G:0.09, T:0.50
Consensus pattern (57 bp):
AGATTTTACAATTTTACCACTGTATTTCCAAATTTTACAGTTCTGCCACTATTTTCT
Found at i:52099855 original size:36 final size:36
Alignment explanation
Indices: 52099812--52099884 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
52099802 TTGAAGTAGC
52099812 AAACCCATTTTATCGTATTGAAATAATTGATATGCG
1 AAACCCATTTTATCGTATTGAAATAATTGATATGCG
*
52099848 AAACCCATTTTATCGTATTGAAATGATTGATATGCG
1 AAACCCATTTTATCGTATTGAAATAATTGATATGCG
52099884 A
1 A
52099885 GACTGTTTGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.36
Consensus pattern (36 bp):
AAACCCATTTTATCGTATTGAAATAATTGATATGCG
Found at i:52106311 original size:50 final size:51
Alignment explanation
Indices: 52106200--52106446 Score: 182
Period size: 50 Copynumber: 4.8 Consensus size: 51
52106190 ATTTGGGTAA
* * *
52106200 AGAGATCCCATGTAAGACCATGTTTAGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--T-ACA-TATG
* * *
52106256 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTA-AGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTACATATG
* ** * * *
52106306 AGAGGTCCCCCGTAAGACCATGTCTAGGACAAGGCATCGGCAC--CGATATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTAC-ATATG
* ** * ** *
52106356 AGA-ACTCCCTTGTAAGACCATACCTGGGATATGAAATTGGCAGTACA-A-G
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTACATATG
* * * *
52106405 AAACATCCCATGTAAGACCATGTCTGGGATATGGCTTTGGCA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
52106447 TGTTATTATC
Statistics
Matches: 154, Mismatches: 31, Indels: 19
0.75 0.15 0.09
Matches are distributed among these distances:
49 34 0.22
50 76 0.49
51 2 0.01
52 2 0.01
53 1 0.01
55 1 0.01
56 38 0.25
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (51 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTACATATG
Found at i:52118889 original size:26 final size:27
Alignment explanation
Indices: 52118819--52118890 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
52118809 TCCAAACTGA
52118819 TATAAAATGACTGTTATGCCCCCACGT
1 TATAAAATGACTGTTATGCCCCCACGT
** * *
52118846 GGTAAAATGACTGTTATGCCCCTATGT
1 TATAAAATGACTGTTATGCCCCCACGT
*
52118873 TATAAAATGATTG-TATGC
1 TATAAAATGACTGTTATGC
52118891 TCTATGCATG
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 5 0.13
27 33 0.87
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (27 bp):
TATAAAATGACTGTTATGCCCCCACGT
Found at i:52121155 original size:31 final size:32
Alignment explanation
Indices: 52121109--52121230 Score: 93
Period size: 31 Copynumber: 3.6 Consensus size: 32
52121099 ATTATTTTTA
* *
52121109 AAATATAATTTAAATATAAAATATA-AAATTT
1 AAATATTATTAAAATATAAAATATATAAATTT
* * *
52121140 GAATATTATTAAAATATAACATTTATAAATTT
1 AAATATTATTAAAATATAAAATATATAAATTT
* * *
52121172 AAATATATATTTAAAATAATTTAATTATATACTTAATAT
1 AAATAT-TA-TTAAAAT-A--TAA-AATATA-TAAATTT
52121211 AAATATTATATAAAATATAA
1 AAATATTAT-TAAAATATAA
52121231 TTTATAAAAT
Statistics
Matches: 72, Mismatches: 10, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
31 20 0.28
32 11 0.15
33 2 0.03
34 7 0.10
35 4 0.06
37 5 0.07
38 12 0.17
39 11 0.15
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.42
Consensus pattern (32 bp):
AAATATTATTAAAATATAAAATATATAAATTT
Found at i:52121192 original size:22 final size:22
Alignment explanation
Indices: 52121167--52121212 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
52121157 AACATTTATA
*
52121167 AATTTAAATATATATTTAAAAT
1 AATTTAAATATATACTTAAAAT
* *
52121189 AATTTAATTATATACTTAATAT
1 AATTTAAATATATACTTAAAAT
52121211 AA
1 AA
52121213 ATATTATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
AATTTAAATATATACTTAAAAT
Found at i:52121195 original size:10 final size:11
Alignment explanation
Indices: 52121109--52121200 Score: 54
Period size: 11 Copynumber: 8.6 Consensus size: 11
52121099 ATTATTTTTA
52121109 AAATATAATTT
1 AAATATAATTT
52121120 AAATATAA---
1 AAATATAATTT
*
52121128 AATATAAAATTT
1 AA-ATATAATTT
* * *
52121140 GAATATTATTA
1 AAATATAATTT
52121151 AAATATAACATTT
1 AAATAT-A-ATTT
52121164 --ATA-AATTT
1 AAATATAATTT
52121172 AAATATATATTT
1 AAATATA-ATTT
52121184 AAA-ATAATTT
1 AAATATAATTT
*
52121194 AATTATA
1 AAATATA
52121201 TACTTAATAT
Statistics
Matches: 61, Mismatches: 9, Indels: 22
0.66 0.10 0.24
Matches are distributed among these distances:
8 6 0.10
9 6 0.10
10 9 0.15
11 29 0.48
12 8 0.13
13 3 0.05
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (11 bp):
AAATATAATTT
Found at i:52123983 original size:21 final size:21
Alignment explanation
Indices: 52123945--52123985 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
52123935 GTAGGAGTTA
*
52123945 ATTTAATTTCTTTGAATTAAT
1 ATTTAATTTATTTGAATTAAT
52123966 ATTTAATTTA-TTGTAATTAA
1 ATTTAATTTATTTG-AATTAA
52123986 ATAAATGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (21 bp):
ATTTAATTTATTTGAATTAAT
Found at i:52124344 original size:9 final size:9
Alignment explanation
Indices: 52124328--52124369 Score: 66
Period size: 9 Copynumber: 4.7 Consensus size: 9
52124318 AAGTTAAACG
52124328 AATCGAGTT
1 AATCGAGTT
*
52124337 ATTCGAGTT
1 AATCGAGTT
52124346 AATCGAGTT
1 AATCGAGTT
52124355 AATCGAGTT
1 AATCGAGTT
*
52124364 ATTCGA
1 AATCGA
52124370 ATCAACTCGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.36
Consensus pattern (9 bp):
AATCGAGTT
Found at i:52127484 original size:30 final size:28
Alignment explanation
Indices: 52127444--52127499 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 28
52127434 TAAAGTAATT
52127444 AAATAAAAGAAAATA-AAAGAAATCAAACG
1 AAATAAAAGAAAA-AGAAAGAAA-CAAACG
52127473 AAATAAAAAGAAAAAGAAAGAAACAAA
1 AAAT-AAAAGAAAAAGAAAGAAACAAA
52127500 ACAGAAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
29 9 0.36
30 16 0.64
ACGTcount: A:0.77, C:0.05, G:0.11, T:0.07
Consensus pattern (28 bp):
AAATAAAAGAAAAAGAAAGAAACAAACG
Found at i:52128218 original size:3 final size:3
Alignment explanation
Indices: 52128198--52128242 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
52128188 GTGAGGTAAG
* *
52128198 TAT TAA TAT TAG TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
52128243 GAGTGAGAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:52142794 original size:30 final size:28
Alignment explanation
Indices: 52142754--52142809 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 28
52142744 TAAAGTAATT
52142754 AAATAAAAGAAAATA-AAAGAAATCAAACC
1 AAATAAAAGAAAA-AGAAAGAAA-CAAACC
52142783 AAATAAAAAGAAAAAGAAAGAAACAAA
1 AAAT-AAAAGAAAAAGAAAGAAACAAA
52142810 ACAGAAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
29 9 0.36
30 16 0.64
ACGTcount: A:0.77, C:0.07, G:0.09, T:0.07
Consensus pattern (28 bp):
AAATAAAAGAAAAAGAAAGAAACAAACC
Found at i:52143528 original size:3 final size:3
Alignment explanation
Indices: 52143508--52143561 Score: 90
Period size: 3 Copynumber: 18.0 Consensus size: 3
52143498 GTGAGGTAAG
* *
52143508 TAT TAA TAT TAG TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
52143556 TAT TAT
1 TAT TAT
52143562 GAGTGAGAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:52143976 original size:37 final size:39
Alignment explanation
Indices: 52143917--52144012 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
52143907 CGGATATATT
* * * *
52143917 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
52143954 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
52143993 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
52144013 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:52143996 original size:39 final size:38
Alignment explanation
Indices: 52143876--52144009 Score: 103
Period size: 39 Copynumber: 3.4 Consensus size: 38
52143866 GACCTCGAGT
* * *
52143876 CGATGAGACATTGGGTGTCACAATATTTCTTCGGATA-TATT
1 CGATGAGACACTGGGTGTCA-ACTA-TTCTTC-GA-ACTATC
** ** * *
52143917 CGATGAGGTACTGGGTACCAACT-TTCTTCG-GCTTTGC
1 CGATGAGACACTGGGTGTCAACTATTCTTCGAACTAT-C
52143954 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGACACTGGGTGTCAACTATT-CTTCGAACTATC
*
52143993 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
52144010 CCATTCTGGT
Statistics
Matches: 72, Mismatches: 16, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
36 2 0.03
37 20 0.28
38 8 0.11
39 22 0.31
40 5 0.07
41 15 0.21
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (38 bp):
CGATGAGACACTGGGTGTCAACTATTCTTCGAACTATC
Found at i:52152301 original size:30 final size:30
Alignment explanation
Indices: 52152267--52152323 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
52152257 CACGGCTGAG
* * *
52152267 ACACACGGCCGTGTCACCTGCCCGTGTGTC
1 ACACACGGCCGGGACACATGCCCGTGTGTC
*
52152297 ACACACGGCTGGGACACATGCCCGTGT
1 ACACACGGCCGGGACACATGCCCGTGT
52152324 CTCTACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.18, C:0.37, G:0.28, T:0.18
Consensus pattern (30 bp):
ACACACGGCCGGGACACATGCCCGTGTGTC
Found at i:52152307 original size:43 final size:42
Alignment explanation
Indices: 52152224--52152324 Score: 141
Period size: 43 Copynumber: 2.4 Consensus size: 42
52152214 AGTATCAGGG
52152224 GACACATGGCCGTGTCACCTAGCGTGTGTAACACACGGCTGA
1 GACACATGGCCGTGTCACCTAGCGTGTGTAACACACGGCTGA
* * *
52152266 GACACACGGCCGTGTCACCT-GCCCGTGTGTCACACACGGCTGG
1 GACACATGGCCGTGTCACCTAG--CGTGTGTAACACACGGCTGA
*
52152309 GACACATGCCCGTGTC
1 GACACATGGCCGTGTC
52152325 TCTACTCATG
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
41 1 0.02
42 19 0.37
43 32 0.62
ACGTcount: A:0.20, C:0.34, G:0.29, T:0.18
Consensus pattern (42 bp):
GACACATGGCCGTGTCACCTAGCGTGTGTAACACACGGCTGA
Found at i:52154829 original size:17 final size:17
Alignment explanation
Indices: 52154807--52154840 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
52154797 TATACATGCT
52154807 TAACAAAAATTTGAGGC
1 TAACAAAAATTTGAGGC
*
52154824 TAACAAAAATTTTAGGC
1 TAACAAAAATTTGAGGC
52154841 AAATATAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.47, C:0.12, G:0.15, T:0.26
Consensus pattern (17 bp):
TAACAAAAATTTGAGGC
Found at i:52159975 original size:15 final size:13
Alignment explanation
Indices: 52159944--52159974 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
52159934 TGAAATTAAA
52159944 ATATAAAAAATAT
1 ATATAAAAAATAT
*
52159957 ATATAAAAAATGT
1 ATATAAAAAATAT
52159970 ATATA
1 ATATA
52159975 TTTATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (13 bp):
ATATAAAAAATAT
Found at i:52163104 original size:22 final size:23
Alignment explanation
Indices: 52163073--52163148 Score: 81
Period size: 22 Copynumber: 3.4 Consensus size: 23
52163063 AACTAATCCT
52163073 TTCTCAAATTTCCTCTCAATTTC
1 TTCTCAAATTTCCTCTCAATTTC
52163096 TTCT-AAATTTCCTCTCAATTTGC
1 TTCTCAAATTTCCTCTCAATTT-C
*
52163119 -TCTTAAA-TTCCT-TCAAAATTTC
1 TTCTCAAATTTCCTCTC--AATTTC
52163141 -TCTCAAAT
1 TTCTCAAAT
52163149 CCATATTTAT
Statistics
Matches: 47, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
21 2 0.04
22 32 0.68
23 13 0.28
ACGTcount: A:0.26, C:0.26, G:0.01, T:0.46
Consensus pattern (23 bp):
TTCTCAAATTTCCTCTCAATTTC
Found at i:52163148 original size:11 final size:12
Alignment explanation
Indices: 52163074--52163148 Score: 72
Period size: 11 Copynumber: 6.7 Consensus size: 12
52163064 ACTAATCCTT
52163074 TCTCAAATTTCC
1 TCTCAAATTTCC
*
52163086 TCTC-AATTTCT
1 TCTCAAATTTCC
52163097 TCT-AAATTTCC
1 TCTCAAATTTCC
*
52163108 TCTC-AATTTGC
1 TCTCAAATTTCC
*
52163119 TCTTAAA-TTCC
1 TCTCAAATTTCC
52163130 T-TCAAAATTT-C
1 TCTC-AAATTTCC
52163141 TCTCAAAT
1 TCTCAAAT
52163149 CCATATTTAT
Statistics
Matches: 51, Mismatches: 6, Indels: 13
0.73 0.09 0.19
Matches are distributed among these distances:
10 1 0.02
11 40 0.78
12 10 0.20
ACGTcount: A:0.27, C:0.27, G:0.01, T:0.45
Consensus pattern (12 bp):
TCTCAAATTTCC
Found at i:52163172 original size:51 final size:51
Alignment explanation
Indices: 52163110--52163207 Score: 126
Period size: 51 Copynumber: 1.9 Consensus size: 51
52163100 AAATTTCCTC
*
52163110 TCAATTTGCTCTTAAATTCCT-TCAAAATTTCTCTCAAATCCATATTTATTT
1 TCAATTTGCTCTCAAATTCCTCT-AAAATTTCTCTCAAATCCATATTTATTT
* * * * *
52163161 TCAATTTGCTCTCAAGTTCCTCTTATATTTCTCTTAAATCCCTATTT
1 TCAATTTGCTCTCAAATTCCTCTAAAATTTCTCTCAAATCCATATTT
52163208 TTAAATAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
51 39 0.98
52 1 0.03
ACGTcount: A:0.26, C:0.23, G:0.03, T:0.48
Consensus pattern (51 bp):
TCAATTTGCTCTCAAATTCCTCTAAAATTTCTCTCAAATCCATATTTATTT
Found at i:52164363 original size:7 final size:7
Alignment explanation
Indices: 52164351--52164383 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
52164341 TAGTCGATTG
52164351 GTATTTA
1 GTATTTA
52164358 GTATTTA
1 GTATTTA
52164365 GTATTTA
1 GTATTTA
52164372 GTATTTA
1 GTATTTA
52164379 GTATT
1 GTATT
52164384 ATGTATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:52165031 original size:18 final size:18
Alignment explanation
Indices: 52165004--52165043 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
52164994 CAGGTGCGTT
* *
52165004 TCCTAGCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
*
52165022 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTA
52165040 TCCT
1 TCCT
52165044 TTTTCGAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.45
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:52165612 original size:22 final size:22
Alignment explanation
Indices: 52165587--52166312 Score: 686
Period size: 21 Copynumber: 33.0 Consensus size: 22
52165577 TTTAATTGAC
* *
52165587 AAACCTTAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAA
52165609 AAACCCT-AACCCTTAACTT-A
1 AAACCCTAAACCCTTAACTTAA
*
52165629 AAACCACTAAACCCTTAACCTAA
1 AAACC-CTAAACCCTTAACTTAA
*
52165652 AAACCATAACCCTAACCCTTAACTTAA
1 AAACCCT-A----AACCCTTAACTTAA
* * *
52165679 AACCCCTAACCCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAA
* *
52165701 AAACCAT-AACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
52165722 AAA-CCTAAACCCTTAA-TCTAA
1 AAACCCTAAACCCTTAACT-TAA
52165743 AAACCCTAATCCTAAACCCTTAACCTT-A
1 AAA--C----CCTAAACCCTTAA-CTTAA
**
52165771 AAACCCT-AACGATTAACATT-A
1 AAACCCTAAACCCTTAAC-TTAA
* * *
52165792 AAACCCT-AACCATTTACCTAA
1 AAACCCTAAACCCTTAACTTAA
* *
52165813 AAACCCT-AACTCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
* *
52165834 AAATCCTAAACCCTTAACCTAAA
1 AAACCCTAAACCCTTAA-CTTAA
* *
52165857 AAACTCTAAACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
* *
52165879 AAACACT-AACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
** *
52165900 AAACCCTAAA-CAGTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
*
52165921 AAACCCTTAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
52165943 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* * *
52165965 AAACCCT-AAGCCTAAACCCTAA
1 AAACCCTAAACCCTTAA-CTTAA
* ** *
52165987 CCCTAAAACCCTAACCCTTAACCT-A
1 ----AAACCCTAAACCCTTAACTTAA
* * *
52166012 AAACCCTAAA-GCTTAAATTTA
1 AAACCCTAAACCCTTAACTTAA
52166033 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
52166055 AAACCCT-AACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
*
52166076 AAACCCTAAACCCTTAACTTGA
1 AAACCCTAAACCCTTAACTTAA
*
52166098 AAACCCT-AACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAA
52166119 AAACCCTAAA-CCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
52166140 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
52166162 AAACCCT-AACACTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
*
52166183 AAACCCTAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAA
* *
52166205 AAACCCT-AACCCTTAACCTGA
1 AAACCCTAAACCCTTAACTTAA
* *
52166226 AAACCTTAAA-CCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
*
52166247 AAACCCTAGACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
52166269 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
52166291 AAACCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
52166312 A
1 A
52166313 TATAATTTGA
Statistics
Matches: 585, Mismatches: 80, Indels: 79
0.79 0.11 0.11
Matches are distributed among these distances:
20 17 0.03
21 279 0.48
22 209 0.36
23 25 0.04
25 1 0.00
26 10 0.02
27 25 0.04
28 17 0.03
29 1 0.00
30 1 0.00
ACGTcount: A:0.44, C:0.31, G:0.01, T:0.23
Consensus pattern (22 bp):
AAACCCTAAACCCTTAACTTAA
Found at i:52165647 original size:43 final size:42
Alignment explanation
Indices: 52165587--52166312 Score: 630
Period size: 43 Copynumber: 16.5 Consensus size: 42
52165577 TTTAATTGAC
* *
52165587 AAACCTTAAACCCTTAACCTAAAAACCCTAACCCTTAACTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTA
*
52165629 AAACCACTAAACCCTTAACCTAAAAACCATAACCCTAACCCTTAACTTA
1 AAACC-CTAAACCCTTAA-CT--TAA--A-AACCCTAACCCTTAACTTA
* * *
52165678 AAACCCCTAACCCCTTAACCTAAAAACCATAACCCTTAACTTTA
1 AAA-CCCTAAACCCTTAACTTAAAAACCCTAACCCTTAAC-TTA
52165722 AAA-CCTAAACCCTTAA-TCTAAAAACCCTAATCCTAAACCCTTAACCTTA
1 AAACCCTAAACCCTTAACT-TAAAAA--C----CCT-AACCCTTAA-CTTA
** * * *
52165771 AAACCCT-AACGATTAACATT-AAAACCCTAACCATTTACCTAA
1 AAACCCTAAACCCTTAAC-TTAAAAACCCTAACC-CTTAACTTA
* * * *
52165813 AAACCCT-AACTCTTAACTTTAAAATCCTAAACCCTTAACCTAAA
1 AAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAA-CT-TA
* * * *
52165857 AAACTCTAAACCCTTAAATTAAAAACACTAACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTT-A
** *
52165900 AAACCCTAAA-CAGTAACTTTAAAACCCTTAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCC-TAACCCTTAACTT-A
* *
52165943 AAACCCTAAACCCTTAACTTAAAAACCCTAAGCCTAAACCCTAACCCTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAA--C----CCTTAA-CTTA
* ** *
52165992 AAACCCT-AACCCTTAACCT-AAAACCCTAAAGCTTAAATTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTT-AACTTA
*
52166033 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTT-A
* *
52166076 AAACCCTAAACCCTTAACTTGAAAACCCTAACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAA-CTTA
52166119 AAACCCTAAA-CCTTAACTTAAAAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTT-A
* * *
52166162 AAACCCT-AACACTTAAATTAAAAACCCTAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAA-CTTA
* * * *
52166205 AAACCCT-AACCCTTAACCTGAAAACCTTAAACCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAAC-TTA
*
52166247 AAACCCTAGACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTT-A
52166291 AAACCCT-AACCCTTAACTTAAA
1 AAACCCTAAACCCTTAACTTAAA
52166313 TATAATTTGA
Statistics
Matches: 563, Mismatches: 71, Indels: 99
0.77 0.10 0.14
Matches are distributed among these distances:
41 14 0.02
42 122 0.22
43 238 0.42
44 60 0.11
45 17 0.03
46 4 0.01
47 11 0.02
48 15 0.03
49 72 0.13
50 9 0.02
51 1 0.00
ACGTcount: A:0.44, C:0.31, G:0.01, T:0.23
Consensus pattern (42 bp):
AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTA
Found at i:52165673 original size:27 final size:27
Alignment explanation
Indices: 52165638--52165713 Score: 92
Period size: 27 Copynumber: 3.0 Consensus size: 27
52165628 AAAACCACTA
52165638 AACCCTTAACCTAAAAACCATAACCCT
1 AACCCTTAACCTAAAAACCATAACCCT
*
52165665 AACCCTTAA-CTTAAAA-C----CCCT
1 AACCCTTAACCTAAAAACCATAACCCT
52165686 AACCCCTTAACCTAAAAACCATAACCCT
1 AA-CCCTTAACCTAAAAACCATAACCCT
52165714 TAACTTTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 13
0.73 0.04 0.24
Matches are distributed among these distances:
21 6 0.15
22 7 0.17
23 6 0.15
24 1 0.03
25 1 0.03
26 6 0.15
27 9 0.22
28 4 0.10
ACGTcount: A:0.42, C:0.38, G:0.00, T:0.20
Consensus pattern (27 bp):
AACCCTTAACCTAAAAACCATAACCCT
Found at i:52165765 original size:28 final size:28
Alignment explanation
Indices: 52165725--52165779 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
52165715 AACTTTAAAA
*
52165725 CCTAAACCCTTAATCTAAAAACCCTAAT
1 CCTAAACCCTTAACCTAAAAACCCTAAT
*
52165753 CCTAAACCCTTAACCTTAAAACCCTAA
1 CCTAAACCCTTAACCTAAAAACCCTAA
52165780 CGATTAACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.42, C:0.35, G:0.00, T:0.24
Consensus pattern (28 bp):
CCTAAACCCTTAACCTAAAAACCCTAAT
Found at i:52165780 original size:14 final size:15
Alignment explanation
Indices: 52165728--52165777 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
52165718 TTTAAAACCT
* *
52165728 AAACCCTTAATCTAA
1 AAACCCTTAACCTTA
52165743 AAACCC-TAATCC-T-
1 AAACCCTTAA-CCTTA
52165756 AAACCCTTAACCTTA
1 AAACCCTTAACCTTA
52165771 AAACCCT
1 AAACCCT
52165778 AACGATTAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
13 8 0.28
14 7 0.24
15 14 0.48
ACGTcount: A:0.42, C:0.34, G:0.00, T:0.24
Consensus pattern (15 bp):
AAACCCTTAACCTTA
Found at i:52165953 original size:7 final size:7
Alignment explanation
Indices: 52165943--52166021 Score: 51
Period size: 6 Copynumber: 11.4 Consensus size: 7
52165933 CTTAACTTAA
52165943 AAACCCT
1 AAACCCT
52165950 AAACCCT
1 AAACCCT
* *
52165957 TAA-CTT
1 AAACCCT
52165963 AAAAACCCT
1 --AAACCCT
*
52165972 -AAGCCT
1 AAACCCT
52165978 AAACCCT
1 AAACCCT
52165985 -AACCCT
1 AAACCCT
52165991 AAAACCCT
1 -AAACCCT
52165999 -AACCCT
1 AAACCCT
*
52166005 TAA-CCT
1 AAACCCT
52166011 AAAACCCT
1 -AAACCCT
52166019 AAA
1 AAA
52166022 GCTTAAATTT
Statistics
Matches: 56, Mismatches: 7, Indels: 18
0.69 0.09 0.22
Matches are distributed among these distances:
6 22 0.39
7 21 0.38
8 11 0.20
9 2 0.04
ACGTcount: A:0.44, C:0.37, G:0.01, T:0.18
Consensus pattern (7 bp):
AAACCCT
Found at i:52165987 original size:27 final size:28
Alignment explanation
Indices: 52165944--52166009 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 28
52165934 TTAACTTAAA
*
52165944 AACCCTAAACCCTTAA-CTTAAAAACCCT
1 AACCCTAAACCCTTAACCCT-AAAACCCT
*
52165972 AAGCCTAAACCC-TAACCCTAAAACCCT
1 AACCCTAAACCCTTAACCCTAAAACCCT
*
52165999 AACCCTTAACC
1 AACCCTAAACC
52166010 TAAAACCCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 20 0.61
28 13 0.39
ACGTcount: A:0.41, C:0.39, G:0.02, T:0.18
Consensus pattern (28 bp):
AACCCTAAACCCTTAACCCTAAAACCCT
Found at i:52166009 original size:13 final size:13
Alignment explanation
Indices: 52165965--52166009 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
52165955 CTTAACTTAA
*
52165965 AAACCCTAAGCCT
1 AAACCCTAACCCT
52165978 AAACCCTAACCCT
1 AAACCCTAACCCT
52165991 AAAACCCTAACCCT
1 -AAACCCTAACCCT
*
52166005 TAACC
1 AAACC
52166010 TAAAACCCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 16 0.55
14 13 0.45
ACGTcount: A:0.40, C:0.42, G:0.02, T:0.16
Consensus pattern (13 bp):
AAACCCTAACCCT
Found at i:52166018 original size:14 final size:14
Alignment explanation
Indices: 52165964--52166004 Score: 66
Period size: 14 Copynumber: 3.0 Consensus size: 14
52165954 CCTTAACTTA
*
52165964 AAAACCCTAAGCCT
1 AAAACCCTAACCCT
52165978 -AAACCCTAACCCT
1 AAAACCCTAACCCT
52165991 AAAACCCTAACCCT
1 AAAACCCTAACCCT
52166005 TAACCTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 12 0.48
14 13 0.52
ACGTcount: A:0.41, C:0.41, G:0.02, T:0.15
Consensus pattern (14 bp):
AAAACCCTAACCCT
Found at i:52167681 original size:22 final size:22
Alignment explanation
Indices: 52167653--52167704 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
52167643 AGGTCTGTGA
52167653 TGGCACTTAGGACGTATCTCTC
1 TGGCACTTAGGACGTATCTCTC
52167675 TGGCACTTAGGACGTATCTCTC
1 TGGCACTTAGGACGTATCTCTC
*
52167697 TAGCACTT
1 TGGCACTT
52167705 GACACCACTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.19, C:0.27, G:0.21, T:0.33
Consensus pattern (22 bp):
TGGCACTTAGGACGTATCTCTC
Found at i:52169497 original size:126 final size:125
Alignment explanation
Indices: 52169239--52169805 Score: 742
Period size: 126 Copynumber: 4.5 Consensus size: 125
52169229 CCAAACATGT
* *
52169239 TACTATAGCAAAAGCGCATCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCT
* * * * * *
52169304 AGAAGCG-ATTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTCTAGGACC
66 TGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAGGACC
* * * *
52169363 AACTGTAGCAAAAGCGTGTCCACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAGCATGCTGC
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTGC
* * *
52169427 TTGCAGCGTTGTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGACC
65 TTGAAGCGTT-TTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAGGACC
* * * * *
52169489 TACTGTAGCAAAAGTGCATCCACGTGGGCCCGACTTCACAAATTCTTCTTATAAAGCATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCT
* *
52169554 TGAAGCGTTTTTTAAACTATTTGCTCAAAAACGTCAACTCGAAATTATTTCTTCCAGGACC
66 TGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTT-TTCCAGGACC
* * * * *
52169615 AACTGTAGTAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTTTTCTCACAAAGCATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCT
* * * *
52169680 TGAAGCATTTTTTAAACTATTTGCTAAGAAACGTTAAGTCAAAATTATTTTTCCAGGACC
66 TGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAGGACC
* * * * * * * *
52169740 TATTGTAGCAAAAGCGCGTACACGTGGGCGCGACTTCAAAAATCCTTCTGATAAATCATCCAGCT
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCT
52169805 T
66 T
52169806 TGATTTTATC
Statistics
Matches: 382, Mismatches: 56, Indels: 9
0.85 0.13 0.02
Matches are distributed among these distances:
123 2 0.01
124 61 0.16
125 101 0.26
126 216 0.57
127 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (125 bp):
TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCT
TGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAGGACC
Found at i:52169724 original size:251 final size:250
Alignment explanation
Indices: 52169239--52169805 Score: 823
Period size: 251 Copynumber: 2.3 Consensus size: 250
52169229 CCAAACATGT
* *
52169239 TACTATAGCAAAAGCGCATCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCT
1 TACTGTAGCAAAAGCGCATCCACGTGGGCGCGACTTCACAAATTCTTCTCATAAAGCATCCTGCT
* * * * *
52169304 AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTCTAGGACCAACTGT
66 TGAAGCGATTTTAAACTATTTGCTCAAAAACGTCAACTCGAAATTATTTTTCCAGGACCAACTGT
* * *
52169369 AGCAAAAGCGTGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATGCTGCTTGCAGC
131 AGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTTGAAGC
* * * *
52169434 GTTGTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGACC
196 ATTGTTTTAAACTATTTGCTAAGAAACGTCAACTCAAAATTATTTTTCCAGGACC
* * *
52169489 TACTGTAGCAAAAGTGCATCCACGTGGGCCCGACTTCACAAATTCTTCTTATAAAGCATCCTGCT
1 TACTGTAGCAAAAGCGCATCCACGTGGGCGCGACTTCACAAATTCTTCTCATAAAGCATCCTGCT
*
52169554 TGAAGCGTTTTTTAAACTATTTGCTCAAAAACGTCAACTCGAAATTATTTCTTCCAGGACCAACT
66 TGAAGCG-ATTTTAAACTATTTGCTCAAAAACGTCAACTCGAAATTATTT-TTCCAGGACCAACT
* *
52169619 GTAGTAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTTTTCTCACAA-AGCATCCTGCTTGA
129 GTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAGCATCCTGCTTGA
* *
52169683 AGCATT-TTTTAAACTATTTGCTAAGAAACGTTAAGTCAAAATTATTTTTCCAGGACC
193 AGCATTGTTTTAAACTATTTGCTAAGAAACGTCAACTCAAAATTATTTTTCCAGGACC
* * * * * * * *
52169740 TATTGTAGCAAAAGCGCGTACACGTGGGCGCGACTTCAAAAATCCTTCTGATAAATCATCCAGCT
1 TACTGTAGCAAAAGCGCATCCACGTGGGCGCGACTTCACAAATTCTTCTCATAAAGCATCCTGCT
52169805 T
66 T
52169806 TGATTTTATC
Statistics
Matches: 282, Mismatches: 32, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
250 66 0.23
251 140 0.50
252 74 0.26
253 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (250 bp):
TACTGTAGCAAAAGCGCATCCACGTGGGCGCGACTTCACAAATTCTTCTCATAAAGCATCCTGCT
TGAAGCGATTTTAAACTATTTGCTCAAAAACGTCAACTCGAAATTATTTTTCCAGGACCAACTGT
AGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTTGAAGC
ATTGTTTTAAACTATTTGCTAAGAAACGTCAACTCAAAATTATTTTTCCAGGACC
Found at i:52171887 original size:17 final size:17
Alignment explanation
Indices: 52171867--52171899 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
52171857 ATTATATACT
52171867 TTATATTATAATATTTG
1 TTATATTATAATATTTG
52171884 TTATATTATAATATTT
1 TTATATTATAATATTT
52171900 AGTAACTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
TTATATTATAATATTTG
Found at i:52172719 original size:21 final size:21
Alignment explanation
Indices: 52172693--52172734 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
52172683 CAAAAGTATA
52172693 ATACTAATTTTTTAAAAAATT
1 ATACTAATTTTTTAAAAAATT
52172714 ATACTAATTTTTTAAAAAATT
1 ATACTAATTTTTTAAAAAATT
52172735 TAAGGATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (21 bp):
ATACTAATTTTTTAAAAAATT
Found at i:52177196 original size:22 final size:21
Alignment explanation
Indices: 52177161--52177237 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 21
52177151 AAAAGGTATC
* *
52177161 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
52177182 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* * *
52177205 TGCATATCATA--TCTAATAT
1 TACAAATCATATCTCTAAGAT
*
52177224 TACATATCATATCT
1 TACAAATCATATCT
52177238 AAGATTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
19 17 0.37
21 4 0.09
22 15 0.33
23 10 0.22
ACGTcount: A:0.42, C:0.17, G:0.04, T:0.38
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:52177204 original size:23 final size:22
Alignment explanation
Indices: 52177161--52177218 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
52177151 AAAAGGTATC
* *
52177161 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
52177182 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
52177205 TGCATATCATATCT
1 TACAAATCATATCT
52177219 AATATTACAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:52177229 original size:19 final size:19
Alignment explanation
Indices: 52177197--52177250 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
52177187 AATCATATCT
52177197 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
52177216 TCTAATATTACATATCATA
1 TCTAAGATTGCATATCATA
52177235 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
52177251 CTTGAAGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:52177487 original size:22 final size:22
Alignment explanation
Indices: 52177459--52177502 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
52177449 TTTTGATGTT
52177459 AAACTTGTAAATTTAAAATTCA
1 AAACTTGTAAATTTAAAATTCA
52177481 AAACTTGTAAATTTAAAATTCA
1 AAACTTGTAAATTTAAAATTCA
52177503 GGATAATGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.09, G:0.05, T:0.36
Consensus pattern (22 bp):
AAACTTGTAAATTTAAAATTCA
Found at i:52185957 original size:25 final size:26
Alignment explanation
Indices: 52185915--52185983 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 26
52185905 ATGCTCATAC
*
52185915 GAGCTGCA-AACAGTAAGCTCT-TCA
1 GAGCTGAATAACAGTAAGCTCTCTCA
*
52185939 GAGCTGAATAACAGTAAGCT-TCTCC
1 GAGCTGAATAACAGTAAGCTCTCTCA
*
52185964 GAGCTGAATAA-TGTAAGCTC
1 GAGCTGAATAACAGTAAGCTC
52185984 ATACGAGCTG
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
24 15 0.38
25 24 0.62
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (26 bp):
GAGCTGAATAACAGTAAGCTCTCTCA
Found at i:52185990 original size:24 final size:24
Alignment explanation
Indices: 52185901--52186020 Score: 79
Period size: 25 Copynumber: 4.9 Consensus size: 24
52185891 ATTCATGTAC
*
52185901 ATGTATGCTCATACGAGCTGCAA-A
1 ATGTAAGCTCATACGAGCTG-AATA
*
52185925 CA-GTAAGCTC-TTCAGAGCTGAATA
1 -ATGTAAGCTCATAC-GAGCTGAATA
* *
52185949 ACAGTAAGCTTC-TCCGAGCTGAATA
1 A-TGTAAGC-TCATACGAGCTGAATA
*
52185974 ATGTAAGCTCATACGAGCTGAGT-
1 ATGTAAGCTCATACGAGCTGAATA
* *
52185997 ATCGGTAAGCTCATAAGAGTTGAA
1 AT--GTAAGCTCATACGAGCTGAA
52186021 ATTGGTAACC
Statistics
Matches: 78, Mismatches: 9, Indels: 16
0.76 0.09 0.16
Matches are distributed among these distances:
23 9 0.12
24 30 0.38
25 35 0.45
26 4 0.05
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (24 bp):
ATGTAAGCTCATACGAGCTGAATA
Found at i:52195628 original size:20 final size:19
Alignment explanation
Indices: 52195599--52195643 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
52195589 ATTACAATTT
*
52195599 AAAAATTAAATTAAAAACA
1 AAAAATTAAAATAAAAACA
*
52195618 AAAATATTAAAATAAAAATA
1 AAAA-ATTAAAATAAAAACA
52195638 AAAAAT
1 AAAAAT
52195644 AACTAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAAATTAAAATAAAAACA
Found at i:52196509 original size:51 final size:51
Alignment explanation
Indices: 52196433--52196534 Score: 186
Period size: 51 Copynumber: 2.0 Consensus size: 51
52196423 AACCGAAAGA
52196433 AATAAAGAAACTCGTGATAAATTTCTAAGAATTCAATTGGAAATCTTCAAT
1 AATAAAGAAACTCGTGATAAATTTCTAAGAATTCAATTGGAAATCTTCAAT
* *
52196484 AATAAAGAAACTCGTGATAACTTTCTTAGAATTCAATTGGAAATCTTCAAT
1 AATAAAGAAACTCGTGATAAATTTCTAAGAATTCAATTGGAAATCTTCAAT
52196535 CTTGACGGAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.32
Consensus pattern (51 bp):
AATAAAGAAACTCGTGATAAATTTCTAAGAATTCAATTGGAAATCTTCAAT
Found at i:52197433 original size:9 final size:9
Alignment explanation
Indices: 52197396--52197459 Score: 58
Period size: 9 Copynumber: 6.8 Consensus size: 9
52197386 ATTAAAAAAT
52197396 ATTTTTATA
1 ATTTTTATA
*
52197405 CTTTTT-TA
1 ATTTTTATA
*
52197413 TTTTTTAAATA
1 ATTTTT--ATA
52197424 ATTTTTATAAA
1 ATTTTTAT--A
*
52197435 ATTTTTTTA
1 ATTTTTATA
52197444 ATTTTTATA
1 ATTTTTATA
52197453 ATTTTTA
1 ATTTTTA
52197460 AATATTAATT
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
8 7 0.16
9 23 0.51
11 15 0.33
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (9 bp):
ATTTTTATA
Found at i:52199226 original size:7 final size:7
Alignment explanation
Indices: 52199204--52199245 Score: 61
Period size: 7 Copynumber: 6.3 Consensus size: 7
52199194 GGGAATGTAA
52199204 AATA-AT
1 AATACAT
52199210 AATA-AT
1 AATACAT
52199216 AATACAT
1 AATACAT
52199223 AATACAT
1 AATACAT
52199230 AATACAT
1 AATACAT
*
52199237 AATAGAT
1 AATACAT
52199244 AA
1 AA
52199246 GTAAATACAA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
6 10 0.29
7 24 0.71
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (7 bp):
AATACAT
Found at i:52199724 original size:3 final size:3
Alignment explanation
Indices: 52199716--52199759 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
52199706 AAATTAGTTA
52199716 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
52199760 AAGGATATAT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:52202830 original size:24 final size:24
Alignment explanation
Indices: 52202803--52202848 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
52202793 CTTGAAACCA
*
52202803 TTTCCGCAGCTCCTCTCTTCACCC
1 TTTCCACAGCTCCTCTCTTCACCC
*
52202827 TTTCCACAGCTCCTCTTTTCAC
1 TTTCCACAGCTCCTCTCTTCAC
52202849 TCTCTTCACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.11, C:0.46, G:0.07, T:0.37
Consensus pattern (24 bp):
TTTCCACAGCTCCTCTCTTCACCC
Found at i:52202890 original size:14 final size:14
Alignment explanation
Indices: 52202871--52202900 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
52202861 ACCGATTGCA
52202871 GCCTCATCATCTCT
1 GCCTCATCATCTCT
*
52202885 GCCTCATCTTCTCT
1 GCCTCATCATCTCT
52202899 GC
1 GC
52202901 TAGTTCACCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.43, G:0.10, T:0.37
Consensus pattern (14 bp):
GCCTCATCATCTCT
Found at i:52204454 original size:23 final size:25
Alignment explanation
Indices: 52204421--52204466 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
52204411 ACAAAAGTTA
52204421 AATACATAAATACATTA-AATTAAC
1 AATACATAAATACATTACAATTAAC
*
52204445 AATAC-TAAATGCATTACAATTA
1 AATACATAAATACATTACAATTA
52204467 TTTATCATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.54, C:0.13, G:0.02, T:0.30
Consensus pattern (25 bp):
AATACATAAATACATTACAATTAAC
Found at i:52205503 original size:19 final size:19
Alignment explanation
Indices: 52205481--52205519 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
52205471 CGTCTTTTGA
52205481 AACTT-TTAGTGATTTTAGG
1 AACTTATTAGT-ATTTTAGG
*
52205500 AACTTATTAGTTTTTTAGG
1 AACTTATTAGTATTTTAGG
52205519 A
1 A
52205520 TTGTATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.28, C:0.05, G:0.18, T:0.49
Consensus pattern (19 bp):
AACTTATTAGTATTTTAGG
Found at i:52207838 original size:15 final size:15
Alignment explanation
Indices: 52207818--52207848 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
52207808 GAAGCGCTTA
*
52207818 ATAAATTTAAAGTTT
1 ATAAATCTAAAGTTT
52207833 ATAAATCTAAAGTTT
1 ATAAATCTAAAGTTT
52207848 A
1 A
52207849 ACGTCAGTGT
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:0.48, C:0.03, G:0.06, T:0.42
Consensus pattern (15 bp):
ATAAATCTAAAGTTT
Found at i:52214219 original size:16 final size:16
Alignment explanation
Indices: 52214198--52214251 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
52214188 GAGTTTTGGG
52214198 GCAAAAGTGTAAATGT
1 GCAAAAGTGTAAATGT
* * *
52214214 GCAAAAGT-T-TAGGG
1 GCAAAAGTGTAAATGT
*
52214228 GTAAAAGTGTAAATGT
1 GCAAAAGTGTAAATGT
52214244 GCAAAAGT
1 GCAAAAGT
52214252 TTGAGTCAAG
Statistics
Matches: 28, Mismatches: 8, Indels: 4
0.70 0.20 0.10
Matches are distributed among these distances:
14 9 0.32
15 2 0.07
16 17 0.61
ACGTcount: A:0.43, C:0.06, G:0.28, T:0.24
Consensus pattern (16 bp):
GCAAAAGTGTAAATGT
Found at i:52214234 original size:30 final size:30
Alignment explanation
Indices: 52214189--52214253 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
52214179 TTAATTTCCG
*
52214189 AGTTTTGGGGCAAAAGTGTAAATGTGCAAA
1 AGTTTAGGGGCAAAAGTGTAAATGTGCAAA
*
52214219 AGTTTAGGGGTAAAAGTGTAAATGTGCAAA
1 AGTTTAGGGGCAAAAGTGTAAATGTGCAAA
52214249 AGTTT
1 AGTTT
52214254 GAGTCAAGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.37, C:0.05, G:0.29, T:0.29
Consensus pattern (30 bp):
AGTTTAGGGGCAAAAGTGTAAATGTGCAAA
Found at i:52214941 original size:50 final size:50
Alignment explanation
Indices: 52214717--52215053 Score: 381
Period size: 50 Copynumber: 6.7 Consensus size: 50
52214707 TATCGATGAA
* * * * *
52214717 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATA-ATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGAT
* * * * * * * *
52214768 CACATGTGTAGTACTAAGTGAATGCTACAATGTGTACCG-AGAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTA-AAAC-TTGAT
* * * * *** *
52214819 CACATGTGTAGTATTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGAT
* *
52214870 CACGTGTGTAGTACTAAGTGAAGGCTACTACGTGAACCGTAAAACTAGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
*
52214920 CACGTATGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
* *
52214970 CACATGTGAAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
52215020 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
52215054 TATCGAATGA
Statistics
Matches: 243, Mismatches: 38, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
49 1 0.00
50 134 0.55
51 105 0.43
52 2 0.01
53 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.28
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
Found at i:52215006 original size:100 final size:100
Alignment explanation
Indices: 52214717--52215059 Score: 438
Period size: 100 Copynumber: 3.4 Consensus size: 100
52214707 TATCGATGAA
* *
52214717 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAA-AATGGTCACATGTGTAGTAC
* * * * * *
52214782 TAAGTGAATGCTACAATGTGTACCG-AGAAGCTTTGGT
65 TAAGTGAAGGCTACTACGTGAACCGTA-AAAC-TTGAT
* * * * *
52214819 CACATGTGTAGTATTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACGTGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAA-AATGGTCACATGTGTAGTAC
*
52214884 TAAGTGAAGGCTACTACGTGAACCGTAAAACTAGAT
65 TAAGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
* * * * *
52214920 CACGTATGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGATCACATGTGAAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAAA-ATGGTCACATGTGTAGTAC
*
52214984 TATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
65 TAAGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
*
52215020 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
52215060 ATGATAAAAG
Statistics
Matches: 211, Mismatches: 27, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
100 89 0.42
101 37 0.18
102 84 0.40
103 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (100 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAAAATGGTCACATGTGTAGTACT
AAGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
Found at i:52222211 original size:25 final size:26
Alignment explanation
Indices: 52222179--52222233 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
52222169 TTATTAAATT
*
52222179 ATATATTTTAATTATAA-TATATTTA
1 ATATATTTTAATAATAATTATATTTA
*
52222204 ATATA-TTTAATAATAATTATGTTTA
1 ATATATTTTAATAATAATTATATTTA
52222229 A-ATAT
1 ATATAT
52222234 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATATTTTAATAATAATTATATTTA
Found at i:52222420 original size:44 final size:45
Alignment explanation
Indices: 52222371--52222465 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
52222361 TTACACCTCT
* *
52222371 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
52222415 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
52222460 ATTACA
1 ATTACA
52222466 CCTCGAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:52222465 original size:16 final size:16
Alignment explanation
Indices: 52222446--52222497 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
52222436 GATTTGCTAT
* *
52222446 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
*
52222462 TACACCTCGAATCCAA
1 TACACCTCTAATCCAA
52222478 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
52222494 TACA
1 TACA
52222498 GCGAACCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.35, C:0.37, G:0.02, T:0.27
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:52223216 original size:9 final size:9
Alignment explanation
Indices: 52223204--52223324 Score: 53
Period size: 9 Copynumber: 13.8 Consensus size: 9
52223194 AAAAGATTTT
*
52223204 TTTAATATA
1 TTTAAAATA
52223213 TTTAAAAT-
1 TTTAAAATA
*
52223221 TTTAAAAAA
1 TTTAAAATA
*
52223230 TTTAAAAAA
1 TTTAAAATA
52223239 TTT-AAATA
1 TTTAAAATA
*
52223247 TATTAAAAAA
1 T-TTAAAATA
* *
52223257 GGTT-AAGTA
1 -TTTAAAATA
52223266 --TAACCAAT-
1 TTTAA--AATA
52223274 TTTAAAAT-
1 TTTAAAATA
52223282 TTTAAAATA
1 TTTAAAATA
*
52223291 TTTAATATA
1 TTTAAAATA
52223300 TTTTAAAA-A
1 -TTTAAAATA
*
52223309 ATT-AAATA
1 TTTAAAATA
52223317 TATTAAAA
1 T-TTAAAA
52223325 AAATGTTAAG
Statistics
Matches: 86, Mismatches: 12, Indels: 27
0.69 0.10 0.22
Matches are distributed among these distances:
6 1 0.01
7 4 0.05
8 26 0.30
9 37 0.43
10 18 0.21
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (9 bp):
TTTAAAATA
Found at i:52223225 original size:17 final size:16
Alignment explanation
Indices: 52223203--52223254 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 16
52223193 AAAAAGATTT
52223203 TTTTAATATATTTAAAA
1 TTTTAA-ATATTTAAAA
*
52223220 TTTTAAAAAATTTAAAAA
1 TTTT-AAATATTT-AAAA
*
52223238 ATTTAAATATATTAAAA
1 TTTTAAATAT-TTAAAA
52223255 AAGGTTAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 18 0.62
18 11 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TTTTAAATATTTAAAA
Found at i:52223255 original size:19 final size:19
Alignment explanation
Indices: 52223207--52223343 Score: 58
Period size: 19 Copynumber: 7.5 Consensus size: 19
52223197 AGATTTTTTT
* *
52223207 AATATATT-TAAAATTTTA
1 AATATATTAAAAAAATTTA
* *
52223225 AA-AAATTTAAAAAATTTA
1 AATATATTAAAAAAATTTA
**
52223243 AATATATTAAAAAAGGTT-
1 AATATATTAAAAAAATTTA
* ** *
52223261 AA-GTA-TAACCAATTTTA
1 AATATATTAAAAAAATTTA
* *
52223278 AA-AT-TTTAAAATATTT-
1 AATATATTAAAAAAATTTA
*
52223294 AATATATTTTAAAAAA-TTA
1 AATATA-TTAAAAAAATTTA
52223313 AATATATTAAAAAAATGTTA
1 AATATATTAAAAAAAT-TTA
*
52223333 AGTATAATTAA
1 AATAT-ATTAA
52223344 TTTTAAAATT
Statistics
Matches: 87, Mismatches: 21, Indels: 19
0.69 0.17 0.15
Matches are distributed among these distances:
16 9 0.10
17 17 0.20
18 24 0.28
19 25 0.29
20 7 0.08
21 5 0.06
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.39
Consensus pattern (19 bp):
AATATATTAAAAAAATTTA
Found at i:52223346 original size:71 final size:71
Alignment explanation
Indices: 52223203--52223375 Score: 226
Period size: 71 Copynumber: 2.4 Consensus size: 71
52223193 AAAAAGATTT
* * *
52223203 TTTTAATATATTTAAAAT-TTTAA-AAAATTTAAAAAATTTAAATATATTAAAAAAGGTTAAGTA
1 TTTTAAAAT-TTTAAAATATTTAATATATTTTAAAAAATTTAAATATATTAAAAAAGGTTAAGTA
52223266 TAACCAA
65 TAACCAA
*
52223273 TTTTAAAATTTTAAAATATTTAATATATTTTAAAAAA-TTAAATATATTAAAAAAATGTTAAGTA
1 TTTTAAAATTTTAAAATATTTAATATATTTTAAAAAATTTAAATATATT-AAAAAAGGTTAAGTA
**
52223337 TAATTAA
65 TAACCAA
* *
52223344 TTTTAAAATTTTAATATATTCAATATAGTTTT
1 TTTTAAAATTTTAAAATATTTAATATA-TTTT
52223376 TTAAAATATA
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
69 8 0.09
70 24 0.26
71 55 0.60
72 4 0.04
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (71 bp):
TTTTAAAATTTTAAAATATTTAATATATTTTAAAAAATTTAAATATATTAAAAAAGGTTAAGTAT
AACCAA
Found at i:52223417 original size:20 final size:20
Alignment explanation
Indices: 52223352--52223421 Score: 65
Period size: 20 Copynumber: 3.4 Consensus size: 20
52223342 AATTTTAAAA
*
52223352 TTTTAATATATTCAATATAGTT
1 TTTTAATATATTTAATATA--T
52223374 TTTTAAAATATATTTTAA-A-A-
1 TTTT--AATATA-TTTAATATAT
52223394 TTTTAATATATTTAATATAT
1 TTTTAATATATTTAATATAT
52223414 TTTTAATA
1 TTTTAATA
52223422 GGTAAAGAGA
Statistics
Matches: 41, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
17 5 0.12
18 7 0.17
19 1 0.02
20 12 0.29
22 4 0.10
23 1 0.02
24 7 0.17
25 4 0.10
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (20 bp):
TTTTAATATATTTAATATAT
Found at i:52223532 original size:90 final size:90
Alignment explanation
Indices: 52223441--52223631 Score: 228
Period size: 90 Copynumber: 2.1 Consensus size: 90
52223431 AAAAAATATT
* * *
52223441 TTTTAATATATTTAAAAT-TTTA-AAAAATTAAAAAAATTTTAA-ATTTTAAATATGTTAAAGAA
1 TTTTAATATATTTAAAATATTTAGAAAAATT-AAAAAATATTAACATTTTAAACATATTAAA-AA
*
52223503 AATGTTGAGTA-TAACCAATTTTAAAA
64 AATGTTAAGTATTAACCAATTTTAAAA
* * * * * * *
52223529 TTTTAATATACTTAATATATTTAGATATATTAAAATATATTAACATTTTGAACCTATTAAAAAAA
1 TTTTAATATATTTAAAATATTTAGAAAAATTAAAAAATATTAACATTTTAAACATATTAAAAAAA
*
52223594 TTTTAAGTATTAACCAATTTTAAAA
66 TGTTAAGTATTAACCAATTTTAAAA
52223619 TTTTAATATATTT
1 TTTTAATATATTT
52223632 TTTAATAGGT
Statistics
Matches: 86, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
88 16 0.19
89 25 0.29
90 45 0.52
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (90 bp):
TTTTAATATATTTAAAATATTTAGAAAAATTAAAAAATATTAACATTTTAAACATATTAAAAAAA
TGTTAAGTATTAACCAATTTTAAAA
Found at i:52223561 original size:18 final size:18
Alignment explanation
Indices: 52223523--52223571 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
52223513 ATAACCAATT
52223523 TTAAAAT-TTTAATATAC
1 TTAAAATATTTAATATAC
*
52223540 TTAATATATTTAGATATA-
1 TTAAAATATTTA-ATATAC
52223558 TTAAAATATATTAA
1 TTAAAATAT-TTAA
52223572 CATTTTGAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 6 0.22
18 13 0.48
19 8 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (18 bp):
TTAAAATATTTAATATAC
Found at i:52263410 original size:45 final size:45
Alignment explanation
Indices: 52263355--52263441 Score: 131
Period size: 45 Copynumber: 1.9 Consensus size: 45
52263345 ACAATGAATA
*
52263355 GAAATAGAGAAATGGAAA-AATTTAGAAATGATTATGGTTTTCTTT
1 GAAATAGAGAAAT-GAAATAATTTAGAAATGAATATGGTTTTCTTT
* *
52263400 GAAATTGAGAAATGAAATAATTTAGAAATGAATGTGGTTTTC
1 GAAATAGAGAAATGAAATAATTTAGAAATGAATATGGTTTTC
52263442 ACAAAATGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 4 0.11
45 34 0.89
ACGTcount: A:0.43, C:0.02, G:0.21, T:0.34
Consensus pattern (45 bp):
GAAATAGAGAAATGAAATAATTTAGAAATGAATATGGTTTTCTTT
Found at i:52263455 original size:6 final size:6
Alignment explanation
Indices: 52263444--52263487 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
52263434 TGGTTTTCAC
* * *
52263444 AAAATG AAAATG GAAATG GAAATG GAAATG AAAATG AGAAATG A
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG A-AAATG A
52263488 TTTATGTGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
6 29 0.83
7 6 0.17
ACGTcount: A:0.59, C:0.00, G:0.25, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:52263466 original size:12 final size:12
Alignment explanation
Indices: 52263445--52263487 Score: 68
Period size: 12 Copynumber: 3.5 Consensus size: 12
52263435 GGTTTTCACA
52263445 AAATGAAAATGG
1 AAATGAAAATGG
*
52263457 AAATGGAAATGG
1 AAATGAAAATGG
52263469 AAATGAAAATGAG
1 AAATGAAAATG-G
52263482 AAATGA
1 AAATGA
52263488 TTTATGTGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
12 21 0.75
13 7 0.25
ACGTcount: A:0.58, C:0.00, G:0.26, T:0.16
Consensus pattern (12 bp):
AAATGAAAATGG
Found at i:52263472 original size:18 final size:19
Alignment explanation
Indices: 52263445--52263487 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
52263435 GGTTTTCACA
*
52263445 AAATGAAAATGGAAATG-G
1 AAATGAAAATGAAAATGAG
*
52263463 AAATGGAAATGAAAATGAG
1 AAATGAAAATGAAAATGAG
52263482 AAATGA
1 AAATGA
52263488 TTTATGTGCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.58, C:0.00, G:0.26, T:0.16
Consensus pattern (19 bp):
AAATGAAAATGAAAATGAG
Found at i:52275693 original size:15 final size:15
Alignment explanation
Indices: 52275656--52275701 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
52275646 AGTTGTAATG
52275656 ATCCAAACTCGAAAAA
1 ATCCAAACTC-AAAAA
52275672 ATCCAAACTCAAAAA
1 ATCCAAACTCAAAAA
* * *
52275687 CTTCAAACTTAAAAA
1 ATCCAAACTCAAAAA
52275702 GCTTGAACTC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 17 0.63
16 10 0.37
ACGTcount: A:0.57, C:0.24, G:0.02, T:0.17
Consensus pattern (15 bp):
ATCCAAACTCAAAAA
Found at i:52292120 original size:44 final size:44
Alignment explanation
Indices: 52292024--52292363 Score: 239
Period size: 44 Copynumber: 7.8 Consensus size: 44
52292014 ACTAGATGCG
* * ** * *
52292024 ATCTGCTCTACTGGAACTTCAAAGAGATAAGATCTATTA-CTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TCTTAGCTTCA
* * * *
52292068 ATCCGCTCCACTACAACTTCAGGGAGATAGGATTCTTGGCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCTTAGCTTCA
* * * *
52292112 ATCTGCTCCACTGTAACTTCAGGGAGATAATATT-TTCCATCTTCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCTT--AGCTTCA
* * *
52292157 ATCTGCCCCACTGCAACTTCAGGGGGATAAGACCTGCTTA-C-TCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA--TTCTTAGCTTCA
* * * * *
52292201 GTCTGCTCCGCTGCAACTTCAGGGAGATAAGA--CTTA-ATGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCTTAGCTTCA
* * * * *
52292242 AT-TCACTCTACTGCAACTTCAGAGAGATAAGATCTATTA-CTTTA
1 ATCT-GCTCCACTGCAACTTCAGGGAGATAAGAT-TCTTAGCTTCA
* * * * * * * *
52292286 ATCCGCTCCACTACAACTTTAAGAAGATAGGATTATTAGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCTTAGCTTCA
52292330 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
52292364 TGCCCTTTTC
Statistics
Matches: 227, Mismatches: 56, Indels: 26
0.73 0.18 0.08
Matches are distributed among these distances:
40 5 0.02
41 26 0.11
43 10 0.04
44 149 0.66
45 33 0.15
46 1 0.00
47 1 0.00
48 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.30
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCTTAGCTTCA
Found at i:52292513 original size:131 final size:130
Alignment explanation
Indices: 52292350--52292586 Score: 357
Period size: 131 Copynumber: 1.8 Consensus size: 130
52292340 CTGCAACTTC
* * * * **
52292350 AGGGAGATAAGATTTGCCCTTTTCGATATGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATT
1 AGGGAGATAAGATTCGCCATCTTCGATATGCTCCACTACTGCTTAGGGAGACAAGATCTACAATT
*
52292415 TCCAACCTATGCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCT
66 TCCAACCTATGCCACTACTGGTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCT
* * *
52292480 AGGGAAGATAAGATTCGCCATCTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTACAAT
1 AGGG-AGATAAGATTCGCCATCTTCGATATGCTCCACTACTGCTTAGGGAGACAAGATCTACAAT
* *
52292545 TTCCAACCTATTCCACTACTGGTCGGGGACATAGGACTTGTG
65 TTCCAACCTATGCCACTACTGGTCAGGGACATAGGACTTGTG
52292587 ATTTCACTGA
Statistics
Matches: 94, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
130 4 0.04
131 90 0.96
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (130 bp):
AGGGAGATAAGATTCGCCATCTTCGATATGCTCCACTACTGCTTAGGGAGACAAGATCTACAATT
TCCAACCTATGCCACTACTGGTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCT
Found at i:52294736 original size:29 final size:28
Alignment explanation
Indices: 52294678--52294745 Score: 82
Period size: 29 Copynumber: 2.4 Consensus size: 28
52294668 GCTTTTCATA
*
52294678 TTTTTATTTTGACTTTGATGGATTTCTT
1 TTTTTATTTTGACTTTGATGGATTTATT
***
52294706 TTTTTACTTTTGACTTTGATTTTTTTATT
1 TTTTTA-TTTTGACTTTGATGGATTTATT
*
52294735 TTTTCATTTTG
1 TTTTTATTTTG
52294746 TTATTGATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 11 0.32
29 23 0.68
ACGTcount: A:0.13, C:0.07, G:0.10, T:0.69
Consensus pattern (28 bp):
TTTTTATTTTGACTTTGATGGATTTATT
Found at i:52294745 original size:28 final size:27
Alignment explanation
Indices: 52294678--52294745 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 27
52294668 GCTTTTCATA
*
52294678 TTTTTATTTTGACTTTGATGGATTTCTT
1 TTTTTATTTTGACTTTGATGGATTT-AT
***
52294706 TTTTTACTTTTGACTTTGATTTTTTTAT
1 TTTTTA-TTTTGACTTTGATGGATTTAT
52294734 TTTTTCATTTTG
1 TTTTT-ATTTTG
52294746 TTATTGATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
28 17 0.50
29 17 0.50
ACGTcount: A:0.13, C:0.07, G:0.10, T:0.69
Consensus pattern (27 bp):
TTTTTATTTTGACTTTGATGGATTTAT
Found at i:52298848 original size:10 final size:10
Alignment explanation
Indices: 52298833--52298862 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
52298823 TAAAATAATT
52298833 CATTTCAAAA
1 CATTTCAAAA
52298843 CATTTCAAAA
1 CATTTCAAAA
52298853 CATTTCAAAA
1 CATTTCAAAA
52298863 ATCATAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (10 bp):
CATTTCAAAA
Found at i:52298980 original size:21 final size:21
Alignment explanation
Indices: 52298956--52298995 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
52298946 GGACTATATT
52298956 GAAAACACTT-GAAAAATTTAG
1 GAAAA-ACTTAGAAAAATTTAG
*
52298977 GAAAAATTTAGAAAAATTT
1 GAAAAACTTAGAAAAATTT
52298996 TAATTGCAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.55, C:0.05, G:0.12, T:0.28
Consensus pattern (21 bp):
GAAAAACTTAGAAAAATTTAG
Found at i:52298997 original size:11 final size:11
Alignment explanation
Indices: 52298966--52298995 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
52298956 GAAAACACTT
52298966 GAAAAATTTAG
1 GAAAAATTTAG
52298977 GAAAAATTTA-
1 GAAAAATTTAG
52298987 GAAAAATTT
1 GAAAAATTT
52298996 TAATTGCAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.57, C:0.00, G:0.13, T:0.30
Consensus pattern (11 bp):
GAAAAATTTAG
Found at i:52302501 original size:16 final size:16
Alignment explanation
Indices: 52302480--52302512 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
52302470 CGCTGTATTG
52302480 GAATAGAGGCGTAATA
1 GAATAGAGGCGTAATA
52302496 GAATAGAGGCGTAATA
1 GAATAGAGGCGTAATA
52302512 G
1 G
52302513 CAAATCAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.33, T:0.18
Consensus pattern (16 bp):
GAATAGAGGCGTAATA
Found at i:52302764 original size:18 final size:17
Alignment explanation
Indices: 52302736--52302777 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
52302726 AACATAATTA
52302736 TTAAT-AAATATAT--T
1 TTAATAAAATATATAAT
52302750 TTAATTAAAATATATAAT
1 TTAA-TAAAATATATAAT
52302768 TTAATAAAAT
1 TTAATAAAAT
52302778 TCTTAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 4 0.17
15 1 0.04
16 8 0.33
17 6 0.25
18 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TTAATAAAATATATAAT
Found at i:52302871 original size:120 final size:120
Alignment explanation
Indices: 52302723--52303333 Score: 949
Period size: 120 Copynumber: 5.1 Consensus size: 120
52302713 TTAATCATAT
* * *
52302723 TTTAACATAATTATTAATAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATATT
* * *
52302788 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * * * *
52302843 TTTAACATAATTATAATTAAATACATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
1 TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATATT
* * *
52302908 CAATATTCTTATATGAATTTACTAAAATTATAATATATGATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
** *
52302963 TTCGAAATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATATT
* *
52303028 AAATATTCTTATATGAATTTACTAAAATTATAATATATAATAGTAT-AAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * *
52303082 TTTAAAATAATAATTATTAAATATAATTTAA-TAAAAAATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATATT
52303146 AAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 -AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * *
52303202 TCTAAAATAATTATTATTAAATATA-ATTAAATATAAATATATAATTTAATAAAATTCTTAATAT
1 TTTAAAATAATTATTATTAAATATATTTTAATTA-AAATATATAATTTAATAAAATTCTTAATAT
52303266 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
65 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
52303322 TCTAAAATAATT
1 TTTAAAATAATT
52303334 GATTTTGTGG
Statistics
Matches: 460, Mismatches: 27, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
118 31 0.07
119 83 0.18
120 316 0.69
121 30 0.07
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (120 bp):
TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATATT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:52302886 original size:59 final size:57
Alignment explanation
Indices: 52302819--52303224 Score: 179
Period size: 61 Copynumber: 6.8 Consensus size: 57
52302809 CTCAAATCAT
*
52302819 AATATATGATACTATAAAATATAATTTAACATAATTATAATTAAATACATTTTAATTAA
1 AATATATGATACTATAAAATATAATTTAA-ATAATTATTATTAAATA-ATTTTAATTAA
* * * * * *
52302878 AATATATGAT-TTAATAAAAT-T-CTTAATAATCAA-TATTCTTATATGAATTTACTAAAATTAT
1 AATATATGATACT-ATAAAATATAATTTA-AAT-AATTATTATTAAAT-AATTT--T--AATTAA
*
52302939 AATATATGATACTATAAAATATAATTCGAAATAATTATTATTAAATATATTTTAATTAA
1 AATATATGATACTATAAAATATAATT-TAAATAATTATTATTAAATA-ATTTTAATTAA
* * * * * * ** *
52302998 AATATATGAT-TTAATAAAATTCTTAATATTAAAT-ATTCTTATATGAATTTACTAAAATTAT
1 AATATATGATACT-ATAAAA-T-ATAAT-TTAAATAATTATTAT-T-AAATAATTTTAATTAA
* * * *
52303059 AATATATAATAGTAT-AAATATAATTTAAAATAATAATTATTAAATATAATTTAA-TAA
1 AATATATGATACTATAAAATATAATTT-AAATAATTATTATTAAATA-ATTTTAATTAA
* * * * * * *
52303116 AAAATATAAT-TTAATAAAATTCTTAATATT-AA-AA-TATTCTTATATGAATTTACTAAAATCA
1 AATATATGATACT-ATAAAA-T-ATAAT-TTAAATAATTATTATTAAAT-AATTT--T--AATTA
*
52303177 T
57 A
* *
52303178 AATATATAATACTATAAAATATAATCTAAAATAATTATTATTAAATA
1 AATATATGATACTATAAAATATAAT-TTAAATAATTATTATTAAATA
52303225 TAATTAAATA
Statistics
Matches: 258, Mismatches: 50, Indels: 75
0.67 0.13 0.20
Matches are distributed among these distances:
56 1 0.00
57 46 0.18
58 26 0.10
59 50 0.19
60 20 0.08
61 57 0.22
62 29 0.11
63 28 0.11
64 1 0.00
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.42
Consensus pattern (57 bp):
AATATATGATACTATAAAATATAATTTAAATAATTATTATTAAATAATTTTAATTAA
Found at i:52303004 original size:18 final size:17
Alignment explanation
Indices: 52302981--52303017 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
52302971 AATTATTATT
52302981 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
52302997 AAATATATGATTTAATA
1 AAATATATGATTTAATA
52303014 AAAT
1 AAAT
52303018 TCTTAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:52303093 original size:31 final size:30
Alignment explanation
Indices: 52303057--52303250 Score: 81
Period size: 26 Copynumber: 6.6 Consensus size: 30
52303047 TACTAAAATT
52303057 ATAATATATAATAGTATAAATATAATTTAA-A
1 ATAATATATAATA-T-TAAATATAATTTAATA
52303088 ATAATA-AT--TATTAAATATAATTTAATA
1 ATAATATATAATATTAAATATAATTTAATA
* *
52303115 A-AAAATATAAT-TT-AATAAAATTCTTAATA
1 ATAATATATAATATTAAATATAA-T-TTAATA
* * ** * * * ** *
52303144 TTAAAATATTCTTATATGAATTTACTAAAATC
1 ATAATATA-TAATAT-TAAATATAATTTAATA
*
52303176 ATAATATATAATACTATAAAATATAATCTAA-A
1 ATAATATATAATA-T-T-AAATATAATTTAATA
*
52303208 ATAAT-TAT--TATTAAATATAATTAAAT-
1 ATAATATATAATATTAAATATAATTTAATA
52303234 ATAAATATATAAT-TTAA
1 AT-AATATATAATATTAA
52303251 TAAAATTCTT
Statistics
Matches: 122, Mismatches: 23, Indels: 38
0.67 0.13 0.21
Matches are distributed among these distances:
26 30 0.25
27 15 0.12
28 9 0.07
29 13 0.11
30 9 0.07
31 14 0.11
32 18 0.15
33 10 0.08
34 4 0.03
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (30 bp):
ATAATATATAATATTAAATATAATTTAATA
Found at i:52303096 original size:13 final size:12
Alignment explanation
Indices: 52303074--52303112 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
52303064 ATAATAGTAT
52303074 AAATATAATTTA
1 AAATATAATTTA
*
52303086 AAATAATAATTATT
1 AAAT-ATAATT-TA
52303100 AAATATAATTTA
1 AAATATAATTTA
52303112 A
1 A
52303113 TAAAAAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 6 0.26
13 12 0.52
14 5 0.22
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
AAATATAATTTA
Found at i:52303122 original size:17 final size:17
Alignment explanation
Indices: 52303100--52303134 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
52303090 AATAATTATT
52303100 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
52303117 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
52303134 A
1 A
52303135 TTCTTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:52303218 original size:239 final size:240
Alignment explanation
Indices: 52302729--52303332 Score: 946
Period size: 239 Copynumber: 2.5 Consensus size: 240
52302719 ATATTTTAAC
* * *
52302729 ATAATTATTAATAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATATTAAATAT
* * * *
52302794 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTTAACATAATTATAA
66 TCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATAATAA
* * * *
52302859 TTAAATACATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATATTCTTATATGA
131 TTAAATACAATTTAATTAAAAAATATAATTTAATAAAATTCTTAATAATAAATATTCTTATATGA
* * *
52302924 ATTTACTAAAATTATAATATATGATACTATAAAATATAATTCGAA
196 ATTTACTAAAATCATAATATATAATACTATAAAATATAATTCAAA
*
52302969 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATATTAAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATATTAAATAT
* * *
52303034 TCTTATATGAATTTACTAAAATTATAATATATAATAGTAT-AAATATAATTTAAAATAATAATTA
66 TCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATAATAA
* *
52303098 TTAAATATAATTTAA-TAAAAAATATAATTTAATAAAATTCTTAATATTAAAATATTCTTATATG
131 TTAAATACAATTTAATTAAAAAATATAATTTAATAAAATTCTTAATAAT-AAATATTCTTATATG
52303162 AATTTACTAAAATCATAATATATAATACTATAAAATATAA-TCTAAA
195 AATTTACTAAAATCATAATATATAATACTATAAAATATAATTC-AAA
* *
52303208 ATAATTATTATTAAATATA-ATTAAATATAAATATATAATTTAATAAAATTCTTAATATTAAATA
1 ATAATTATTATTAAATATATTTTAATTA-AAATATATAATTTAATAAAATTCTTAATATTAAATA
*
52303272 TTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAATAAT
65 TTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAAT
52303333 TGATTTTGTG
Statistics
Matches: 334, Mismatches: 26, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
238 38 0.11
239 181 0.54
240 115 0.34
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (240 bp):
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATATTAAATAT
TCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATAATAA
TTAAATACAATTTAATTAAAAAATATAATTTAATAAAATTCTTAATAATAAATATTCTTATATGA
ATTTACTAAAATCATAATATATAATACTATAAAATATAATTCAAA
Found at i:52303245 original size:18 final size:17
Alignment explanation
Indices: 52303222--52303256 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
52303212 TTATTATTAA
52303222 ATATAATTAAATATAAAT
1 ATATAATTAAATA-AAAT
*
52303240 ATATAATTTAATAAAAT
1 ATATAATTAAATAAAAT
52303257 TCTTAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATTAAATAAAAT
Done.