Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 181 of 290
Found at i:61898904 original size:33 final size:33
Alignment explanation
Indices: 61898862--61898926 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
61898852 AATTCACCCG
61898862 GGGAGTACGAAAATGTACAACGATTTGAAACGA
1 GGGAGTACGAAAATGTACAACGATTTGAAACGA
*
61898895 GGGAGTACGAAAATGTACAATGATTTGAAACG
1 GGGAGTACGAAAATGTACAACGATTTGAAACG
61898927 TCAATTTTGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.42, C:0.11, G:0.28, T:0.20
Consensus pattern (33 bp):
GGGAGTACGAAAATGTACAACGATTTGAAACGA
Found at i:61918637 original size:40 final size:39
Alignment explanation
Indices: 61918606--61918815 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
61918596 GGACTAAGAT
* *
61918606 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
61918646 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
61918686 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
61918726 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
61918766 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
61918805 CCGAAGGCATT
1 CCGAAGGCATT
61918816 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:61918769 original size:120 final size:120
Alignment explanation
Indices: 61918553--61918815 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
61918543 TTGAATGCTG
* *
61918553 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
61918617 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
61918673 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
61918736 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
61918792 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
61918816 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:61918835 original size:79 final size:80
Alignment explanation
Indices: 61918554--61918850 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
61918544 TGAATGCTGT
* ** * * * **
61918554 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
61918617 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
61918634 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
61918698 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
61918714 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
61918778 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
61918793 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
61918851 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:61924505 original size:27 final size:27
Alignment explanation
Indices: 61924412--61924713 Score: 244
Period size: 27 Copynumber: 11.3 Consensus size: 27
61924402 AATTACTGAC
* *
61924412 ATACCCCCAG-TTGTAAAATTACGAAA
1 ATACCCTCAGTTTGTAAAATTACCAAA
* * * * *
61924438 GTAACCTCGGTTTATAAAATTACCCAA
1 ATACCCTCAGTTTGTAAAATTACCAAA
* * *
61924465 ATATCATC-GATTTGTAAAATTACCGAA
1 ATACCCTCAG-TTTGTAAAATTACCAAA
* **
61924492 ATACCCTCAGTTTGCAAAATTACTGAA
1 ATACCCTCAGTTTGTAAAATTACCAAA
61924519 ATACCC-CAG-TTGTAAAATTACCAAA
1 ATACCCTCAGTTTGTAAAATTACCAAA
* * *
61924544 ATACCC-CTGGTTTGTAAAAATACTAAA
1 ATACCCTC-AGTTTGTAAAATTACCAAA
* * *
61924571 ATACCCTTAGTTTATAAAATTTCCAAA
1 ATACCCTCAGTTTGTAAAATTACCAAA
*
61924598 ATACCC-CTGGTTTGTAAAATTACCAAA
1 ATACCCTC-AGTTTGTAAAATTACCAAA
*
61924625 ATACCC-CTAGTTTGCAAAATTACCAAA
1 ATACCCTC-AGTTTGTAAAATTACCAAA
* * *
61924652 ATACCC-CTAATTTGTGAAATTACTAAA
1 ATACCCTC-AGTTTGTAAAATTACCAAA
* *
61924679 ATACTCTC-GACTTGTAAAATTACCAAA
1 ATACCCTCAG-TTTGTAAAATTACCAAA
*
61924706 GTACCCTC
1 ATACCCTC
61924714 GATTTACAGA
Statistics
Matches: 222, Mismatches: 45, Indels: 17
0.78 0.16 0.06
Matches are distributed among these distances:
25 20 0.09
26 11 0.05
27 189 0.85
28 2 0.01
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.29
Consensus pattern (27 bp):
ATACCCTCAGTTTGTAAAATTACCAAA
Found at i:61924653 original size:81 final size:80
Alignment explanation
Indices: 61924475--61924711 Score: 271
Period size: 81 Copynumber: 3.0 Consensus size: 80
61924465 ATATCATCGA
* * * * *
61924475 TTTGTAAAATTACCGAAATACCCTCAGTTTGCAAAATTACTGAAATACCCC-AGTTGTAAAATTA
1 TTTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACTAAAATACCCCTGGTTGTAAAATTA
*
61924539 CCAAAATACCCCTGG
66 CCAAAATACCCCTAG
* * * * *
61924554 TTTGTAAAAATACTAAAATACCCTTAGTTTATAAAATTTCCAAAATACCCCTGGTTTGTAAAATT
1 TTTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACTAAAATACCCCTGG-TTGTAAAATT
61924619 ACCAAAATACCCCTAG
65 ACCAAAATACCCCTAG
* * * * * *
61924635 TTTGCAAAATTACCAAAATACCCCTAATTTGTGAAATTACTAAAATA-CTCTCGACTTGTAAAAT
1 TTTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACTAAAATACCCCT-G-GTTGTAAAAT
*
61924699 TACCAAAGTACCC
64 TACCAAAATACCC
61924712 TCGATTTACA
Statistics
Matches: 131, Mismatches: 23, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
79 42 0.32
80 4 0.03
81 85 0.65
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.30
Consensus pattern (80 bp):
TTTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACTAAAATACCCCTGGTTGTAAAATTA
CCAAAATACCCCTAG
Found at i:61924764 original size:27 final size:27
Alignment explanation
Indices: 61924426--61924766 Score: 91
Period size: 27 Copynumber: 12.7 Consensus size: 27
61924416 CCCCAGTTGT
* * * *
61924426 AAAATTA-CGAAAGTAACCTCGGTTTAT
1 AAAATTACCGAAA-TACCCTCGATTGAC
* * * *
61924453 AAAATTACCCAAATATCATCGATTTG-T
1 AAAATTACCGAAATACCCTCGA-TTGAC
*
61924480 AAAATTACCGAAATACCCTCAGTTTG-C
1 AAAATTACCGAAATACCCTC-GATTGAC
* *
61924507 AAAATTACTGAAATACCC-C-AGTTG-T
1 AAAATTACCGAAATACCCTCGA-TTGAC
* * *
61924532 AAAATTACCAAAATACCCCTGGTTTGTA-
1 AAAATTACCGAAATA-CCCTCGATTG-AC
** * * *
61924560 AAAA-TACTAAAATACCCT-TAGTTTAT
1 AAAATTACCGAAATACCCTCGA-TTGAC
* * * * *
61924586 AAAATTTCCAAAATACCCCTGGTTTG-T
1 AAAATTACCGAAATA-CCCTCGATTGAC
* * *
61924613 AAAATTACCAAAATACCCCTAGTTTG-C
1 AAAATTACCGAAATA-CCCTCGATTGAC
* * *
61924640 AAAATTACCAAAATACCC-CTAATTTG-T
1 AAAATTACCGAAATACCCTC-GA-TTGAC
* ** * *
61924667 GAAATTACTAAAATACTCTCGACTTG-T
1 AAAATTACCGAAATACCCTCGA-TTGAC
*
61924694 AAAATTACC-AAAGTACCCTCGATTTAC
1 AAAATTACCGAAA-TACCCTCGATTGAC
* ***
61924721 AGAATTACCGTTTTACCCTCGATTGAC
1 AAAATTACCGAAATACCCTCGATTGAC
*
61924748 AAAATTACCGGAATACCCT
1 AAAATTACCGAAATACCCT
61924767 TGTAGGGTAG
Statistics
Matches: 242, Mismatches: 52, Indels: 40
0.72 0.16 0.12
Matches are distributed among these distances:
25 17 0.07
26 22 0.09
27 185 0.76
28 18 0.07
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.30
Consensus pattern (27 bp):
AAAATTACCGAAATACCCTCGATTGAC
Found at i:61924846 original size:27 final size:27
Alignment explanation
Indices: 61924753--61924839 Score: 102
Period size: 27 Copynumber: 3.2 Consensus size: 27
61924743 TTGACAAAAT
* *
61924753 TACCGGAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
* *
61924780 TACCAAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAA
** * *
61924807 TATTGAAATACCCCTGTAGGGTAGGAC
1 TACCGAAATACCCCTGTAGGGTAGAAA
61924834 TACCGA
1 TACCGA
61924840 TTTACCCTTG
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (27 bp):
TACCGAAATACCCCTGTAGGGTAGAAA
Found at i:61925601 original size:71 final size:66
Alignment explanation
Indices: 61925462--61925602 Score: 183
Period size: 71 Copynumber: 2.1 Consensus size: 66
61925452 GAGGAAGCAT
* * *
61925462 TCTGGCAGCCTCACTGCAATCTGATGGCTCGCCACATATATCTGTTCTGGTGACTTTGTCACAAT
1 TCTGGCAGCCTCACTGCAATCTGATGGCTCGCCACATATATCTGTTCTGGTGACCTAGCCACAAT
61925527 A
66 A
* * *
61925528 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATATATCTGTTCTGGTGGCCTAGCC
1 TCTGGCAGCCTCACTGCAATCTGATGGC-TCGCCAC----ATATATCTGTTCTGGTGACCTAGCC
61925593 ACAATA
61 ACAATA
61925599 TCTG
1 TCTG
61925603 TATCTGGTGA
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
66 26 0.41
67 7 0.11
71 31 0.48
ACGTcount: A:0.20, C:0.28, G:0.21, T:0.31
Consensus pattern (66 bp):
TCTGGCAGCCTCACTGCAATCTGATGGCTCGCCACATATATCTGTTCTGGTGACCTAGCCACAAT
A
Found at i:61925622 original size:27 final size:26
Alignment explanation
Indices: 61925570--61925628 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
61925560 CCACATATAT
*
61925570 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
61925596 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
61925623 ATATCT
1 ATATCT
61925629 AGCATCCTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.36
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:61948348 original size:46 final size:43
Alignment explanation
Indices: 61948287--61948440 Score: 152
Period size: 46 Copynumber: 3.4 Consensus size: 43
61948277 CGATGTCGTA
*
61948287 TCCCAGACA-GATCTTACACTGACACATGTAACCGTGCCGATGCATG
1 TCCCAGACATG-TCTTACACTGACACATCT---CGTGCCGATGCATG
* *
61948333 TCCCAAACATGTCTTACACT-AGCACATCTCGTAGCCGACGCATG
1 TCCCAGACATGTCTTACACTGA-CACATCTCGT-GCCGATGCATG
* *
61948377 TCCCAGACATGT-TTGACACTGGCTAACATCTCGAGGCCGATGCATG
1 TCCCAGACATGTCTT-ACACTGAC--ACATCTCG-TGCCGATGCATG
61948423 TCCCAGACATGTCTTACA
1 TCCCAGACATGTCTTACA
61948441 TTGGCTCTCA
Statistics
Matches: 92, Mismatches: 7, Indels: 18
0.79 0.06 0.15
Matches are distributed among these distances:
43 5 0.05
44 27 0.29
45 1 0.01
46 56 0.61
47 3 0.03
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (43 bp):
TCCCAGACATGTCTTACACTGACACATCTCGTGCCGATGCATG
Found at i:61948446 original size:46 final size:45
Alignment explanation
Indices: 61948322--61948542 Score: 184
Period size: 46 Copynumber: 4.8 Consensus size: 45
61948312 ATGTAACCGT
* *
61948322 GCCGATGCATGTCCCAAACATGTCTTACACTAGC-ACATCTCGTA-
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTACATCTCG-AG
*
61948366 GCCGACGCATGTCCCAGACATGT-TTGACACTGGCTAACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTT-ACACTGGCT-ACATCTCGAG
* * *
61948412 GCCGATGCATGTCCCAGACATGTCTTACATTGGCTCTCATACT-GTG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCT-ACAT-CTCGAG
* * ** * * * *
61948458 GCTGATGCATTTCCTGGACATGTCTTACACTAGCCCT-CGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACT-G-GCTACATCTCGAG
*
61948504 GCCGATGCTATTTCCCAGACATGATCTTACACTGG-TACA
1 GCCGATGC-ATGTCCCAGACATG-TCTTACACTGGCTACA
61948543 CAAATCTCAT
Statistics
Matches: 142, Mismatches: 23, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
43 2 0.01
44 28 0.20
45 4 0.03
46 79 0.56
47 18 0.13
48 11 0.08
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTACATCTCGAG
Found at i:61951349 original size:30 final size:30
Alignment explanation
Indices: 61951313--61951369 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
61951303 TAAAAATCAT
*
61951313 ACTTTTACAAATTTTCA-TTTTGACCCCTAA
1 ACTTTTACAAATTTGCACTTTTG-CCCCTAA
*
61951343 ACTTTTACATATTTGCACTTTTGCCCC
1 ACTTTTACAAATTTGCACTTTTGCCCC
61951370 AATACTTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.25, C:0.26, G:0.05, T:0.44
Consensus pattern (30 bp):
ACTTTTACAAATTTGCACTTTTGCCCCTAA
Found at i:61952705 original size:43 final size:43
Alignment explanation
Indices: 61952657--61952785 Score: 170
Period size: 44 Copynumber: 3.0 Consensus size: 43
61952647 AGCTCATACA
*
61952657 ATGCCAATGTCCCAAACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCACATATCG
* ** * *
61952700 ATGCCAATGTCCCAGACATGGTCTTACACATAAATCAAAAATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACATGT-AATCACATATCG
* *
61952744 ATGCCAATGTACCAGACGTGGTATTACATG-AATCACATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCACATATCG
61952786 GAATCCTATG
Statistics
Matches: 72, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
42 10 0.14
43 27 0.38
44 35 0.49
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCACATATCG
Found at i:61953861 original size:13 final size:13
Alignment explanation
Indices: 61953843--61953867 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61953833 AACAAACGAT
61953843 AAAATTTTCACAC
1 AAAATTTTCACAC
61953856 AAAATTTTCACA
1 AAAATTTTCACA
61953868 AATATAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:61960896 original size:43 final size:43
Alignment explanation
Indices: 61960845--61960954 Score: 143
Period size: 44 Copynumber: 2.6 Consensus size: 43
61960835 TCCCAGACGT
61960845 GGTCTTACATGTAATCACATATCGATGCC-ACTATCCCAAACAA
1 GGTCTTACATGTAATCACATATCGATGCCAAC-ATCCCAAACAA
* * * **
61960888 GGTCTTACACGTAAATCACAAATCGATGCCAACATCCCAGACGT
1 GGTCTTACATGT-AATCACATATCGATGCCAACATCCCAAACAA
61960932 GGTCTTACATG-AATCACATATCG
1 GGTCTTACATGTAATCACATATCG
61960955 GAATCCTATG
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
42 11 0.19
43 11 0.19
44 34 0.59
45 2 0.03
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.25
Consensus pattern (43 bp):
GGTCTTACATGTAATCACATATCGATGCCAACATCCCAAACAA
Found at i:61962293 original size:29 final size:30
Alignment explanation
Indices: 61962260--61962326 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 30
61962250 ATGAAATTGC
61962260 AAATTATGGGGTTAAAT-TGAGAAA-AATGA
1 AAATTATGGGG-TAAATGTGAGAAATAATGA
* *
61962289 AAATTATGTGGTAAATGTGTGAAATAATGA
1 AAATTATGGGGTAAATGTGAGAAATAATGA
*
61962319 AAAATATG
1 AAATTATG
61962327 AGCTGGTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 5 0.15
29 16 0.48
30 12 0.36
ACGTcount: A:0.48, C:0.00, G:0.22, T:0.30
Consensus pattern (30 bp):
AAATTATGGGGTAAATGTGAGAAATAATGA
Found at i:61966703 original size:10 final size:10
Alignment explanation
Indices: 61966688--61966712 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
61966678 AATTACTTTC
61966688 AAATGATTTG
1 AAATGATTTG
61966698 AAATGATTTG
1 AAATGATTTG
61966708 AAATG
1 AAATG
61966713 TTTTATTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.36
Consensus pattern (10 bp):
AAATGATTTG
Found at i:61967781 original size:27 final size:27
Alignment explanation
Indices: 61967751--61967810 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
61967741 GAGCATAATC
61967751 GTCATTCTACCATACAGGGGTATTACG
1 GTCATTCTACCATACAGGGGTATTACG
* *
61967778 GTCATTCTGCCCTACAGGGGTATTACG
1 GTCATTCTACCATACAGGGGTATTACG
*
61967805 ATCATT
1 GTCATT
61967811 TTCCAAACTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (27 bp):
GTCATTCTACCATACAGGGGTATTACG
Found at i:61974137 original size:14 final size:14
Alignment explanation
Indices: 61974118--61974148 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
61974108 ATTTCCTTTC
*
61974118 TTAAGTATTTATTT
1 TTAAGTATTTATAT
61974132 TTAAGTATTTATAT
1 TTAAGTATTTATAT
61974146 TTA
1 TTA
61974149 TCTTCTTAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.61
Consensus pattern (14 bp):
TTAAGTATTTATAT
Found at i:61980572 original size:47 final size:47
Alignment explanation
Indices: 61980501--61980766 Score: 259
Period size: 46 Copynumber: 5.7 Consensus size: 47
61980491 GTTATTGTGG
* * * * *
61980501 GCTAGTGTATGACGTGTCTAGGACATGCATCGGCCA-C-ATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATCGA-GACGAGA
* *
61980547 GCTTA-TGTAAGACCATGTCTGGGACATGGCATCAG-CATCGAGACGAGT
1 GC-TAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCATCGAGACGAGA
* *
61980595 GCTAGTGTAAGACATGT-TCGGGACATGCATCGGCCA-C-ATTATGAGA
1 GCTAGTGTAAGACATGTCT-GGGACATGCATCGGCCATCGA-GACGAGA
61980641 GCCT-GTGTAAGACCATGTCTGGGACATGGCATCGG-CATCGAGACGAGTA
1 G-CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCATCGAGACGAG-A
61980690 -CTAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGAGACGTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATCGAGACG-AGA
*
61980735 GCCAGTGTAAGACATGTCTGGGACATGCATCG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCG
61980767 ACTACGAGAT
Statistics
Matches: 186, Mismatches: 14, Indels: 40
0.77 0.06 0.17
Matches are distributed among these distances:
45 2 0.01
46 74 0.40
47 66 0.35
48 41 0.22
49 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATCGAGACGAGA
Found at i:61980662 original size:94 final size:94
Alignment explanation
Indices: 61980502--61980765 Score: 367
Period size: 94 Copynumber: 2.8 Consensus size: 94
61980492 TTATTGTGGG
* * * * *
61980502 CTAGTGTATGACGTGTCTAGGACATGCATCGGCCACATTATGAGAGCTTATGTAAGACCATGTCT
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCTGTGTAAGACCATGTCT
*
61980567 GGGACATGGCATCAGCATCGAGACGAGTG
66 GGGACATGGCATCAGCATCGAGACGAGTA
61980596 CTAGTGTAAGACATGT-TCGGGACATGCATCGGCCACATTATGAGAGCCTGTGTAAGACCATGTC
1 CTAGTGTAAGACATGTCT-GGGACATGCATCGGCCACATTATGAGAGCCTGTGTAAGACCATGTC
*
61980660 TGGGACATGGCATCGGCATCGAGACGAGTA
65 TGGGACATGGCATCAGCATCGAGACGAGTA
* * * *
61980690 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGTA-AGCCAGTGTAAGA-CATGT
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATG-AGAGCCTGTGTAAGACCATGT
61980752 CTGGGACAT-GCATC
64 CTGGGACATGGCATC
61980766 GACTACGAGA
Statistics
Matches: 155, Mismatches: 11, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
92 5 0.03
93 15 0.10
94 132 0.85
95 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (94 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCTGTGTAAGACCATGTCT
GGGACATGGCATCAGCATCGAGACGAGTA
Found at i:61980775 original size:46 final size:45
Alignment explanation
Indices: 61980552--61980817 Score: 202
Period size: 46 Copynumber: 5.7 Consensus size: 45
61980542 TGAGAGCTTA
* *
61980552 TGTAAGACCATGTCTGGGACATGGCATC-AGCATCGAGACGAGTGCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGA-CA-CGAGACGAGAGCCAG
* * * *
61980600 TGTAAGACATGT-TCGGGACATGCATCGGCCAC-ATTATGAGAGCCTG
1 TGTAAGACATGTCT-GGGACATGCATC-GACACGA-GACGAGAGCCAG
* *
61980646 TGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGACGAGTA-CTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGACA-CGAGACGAG-AGCCAG
* *
61980694 TGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA-AGCCAG
1 TGTAAGACATGTCTGGGACATGCATC-GACACGAGACG-AGAGCCAG
* * *
61980740 TGTAAGACATGTCTGGGACATGCATCGACTACGAGATGATAGTCAG
1 TGTAAGACATGTCTGGGACATGCATCGAC-ACGAGACGAGAGCCAG
* * *
61980786 TGTAA-ACCATATTTGGGATATGGCATCGACAC
1 TGTAAGA-CATGTCTGGGACAT-GCATCGACAC
61980818 CCTACCCCAT
Statistics
Matches: 180, Mismatches: 21, Indels: 36
0.76 0.09 0.15
Matches are distributed among these distances:
45 6 0.03
46 91 0.51
47 54 0.30
48 27 0.15
49 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.23
Consensus pattern (45 bp):
TGTAAGACATGTCTGGGACATGCATCGACACGAGACGAGAGCCAG
Found at i:61980789 original size:140 final size:141
Alignment explanation
Indices: 61980552--61980813 Score: 336
Period size: 140 Copynumber: 1.9 Consensus size: 141
61980542 TGAGAGCTTA
* *
61980552 TGTAAGACCATGTCTGGGACATGGCATCAGCATCGAGACGAGTGCTAGTGTAAGACATGTTCGGG
1 TGTAAGACCATGTCTGGGACATGGCATCAGCATCGAGACGAGAGCCAGTGTAAGACATGTTCGGG
* * * *
61980617 ACATGCATCGGCCACATTATGAGAGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGA
66 ACATGCATCGACCACATGATGAGAGCCAGTGTAA-ACCATATCTGGGACATGGCATCGGCATCGA
61980682 GACGAGTACTAG
130 GACGAGTACTAG
* *
61980694 TGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGTA-AGCCAGTGTAAGACATG-TCTG
1 TGTAAGACCATGTCTGGGACATGGCATCAGCATCGAGACG-AGAGCCAGTGTAAGACATGTTC-G
* * * * *
61980755 GGACATGCATCGACTACGA-GATGATAGTCAGTGTAAACCATATTTGGGATATGGCATCG
64 GGACATGCATCGACCAC-ATGATGAGAGCCAGTGTAAACCATATCTGGGACATGGCATCG
61980814 ACACCCTACC
Statistics
Matches: 104, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
139 22 0.21
140 59 0.57
141 16 0.15
142 7 0.07
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.23
Consensus pattern (141 bp):
TGTAAGACCATGTCTGGGACATGGCATCAGCATCGAGACGAGAGCCAGTGTAAGACATGTTCGGG
ACATGCATCGACCACATGATGAGAGCCAGTGTAAACCATATCTGGGACATGGCATCGGCATCGAG
ACGAGTACTAG
Found at i:61992439 original size:47 final size:48
Alignment explanation
Indices: 61992300--61992449 Score: 165
Period size: 47 Copynumber: 3.3 Consensus size: 48
61992290 ACGGGGTATT
* * *
61992300 ACAT-GCATAGGCCACATTATGAGAGCTTTTGTAAGACCATGTCTGGG
1 ACATGGCATCGGCCACATTATGAGAGCCTGTGTAAGACCATGTCTGGG
* **
61992347 ACATGGCAT--G----AGTATCGAGACGAGTGTGTAAGA-CATGTCTGGG
1 ACATGGCATCGGCCACATTAT-GAGA-GCCTGTGTAAGACCATGTCTGGG
61992390 ACAT-GCATCGGCCACATTATGAGAGCCTGTGTAAGACCATGTCTGGG
1 ACATGGCATCGGCCACATTATGAGAGCCTGTGTAAGACCATGTCTGGG
61992437 ACATGGCATCGGC
1 ACATGGCATCGGC
61992450 ATCGAGACAA
Statistics
Matches: 85, Mismatches: 7, Indels: 21
0.75 0.06 0.19
Matches are distributed among these distances:
42 8 0.09
43 18 0.21
44 10 0.12
46 11 0.13
47 22 0.26
48 16 0.19
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (48 bp):
ACATGGCATCGGCCACATTATGAGAGCCTGTGTAAGACCATGTCTGGG
Found at i:61992454 original size:90 final size:93
Alignment explanation
Indices: 61992300--61992493 Score: 288
Period size: 90 Copynumber: 2.1 Consensus size: 93
61992290 ACGGGGTATT
* * * *
61992300 ACATGCATAGGCCACATTATGAGAGCTTTTGTAAGACCATGTCTGGGACATGGCATGAGTATCGA
1 ACATGCATCGGCCACATTATGAGAGCCTGTGTAAGACCATGTCTGGGACATGGCATGAGCATCGA
61992365 GAC-GAG-T-GTGTAAGACATGTCTGGG
66 GACAGAGCTAGTGTAAGACATGTCTGGG
61992390 ACATGCATCGGCCACATTATGAGAGCCTGTGTAAGACCATGTCTGGGACATGGCATCG-GCATCG
1 ACATGCATCGGCCACATTATGAGAGCCTGTGTAAGACCATGTCTGGGACATGGCAT-GAGCATCG
* *
61992454 AGACAAGTGCTAGTGTAAGACATGTTTGGG
65 AGAC-AGAGCTAGTGTAAGACATGTCTGGG
61992484 ACATGCATCG
1 ACATGCATCG
61992494 ACCTTGAGAC
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
90 62 0.67
91 1 0.01
92 2 0.02
93 1 0.01
94 27 0.29
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (93 bp):
ACATGCATCGGCCACATTATGAGAGCCTGTGTAAGACCATGTCTGGGACATGGCATGAGCATCGA
GACAGAGCTAGTGTAAGACATGTCTGGG
Found at i:61992478 original size:47 final size:45
Alignment explanation
Indices: 61992329--61992493 Score: 155
Period size: 47 Copynumber: 3.6 Consensus size: 45
61992319 TGAGAGCTTT
*
61992329 TGTAAGACCATGTCTGGGACATGGCAT-GAGTATCGAGAC-GAG-TG
1 TGTAAGACCATGTCTGGGACAT-GCATCG-GCATCGAGACAGAGCTG
* *
61992373 TGTAAGA-CATGTCTGGGACATGCATCGGCCA-C-ATTATGAGAGCCTG
1 TGTAAGACCATGTCTGGGACATGCATCGG-CATCGA-GA-CAGAG-CTG
*
61992419 TGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGACAAGTGCTAG
1 TGTAAGACCATGTCTGGGACAT-GCATCGGCATCGAGAC-AGAGCT-G
*
61992467 TGTAAGA-CATGTTTGGGACATGCATCG
1 TGTAAGACCATGTCTGGGACATGCATCG
61992494 ACCTTGAGAC
Statistics
Matches: 101, Mismatches: 7, Indels: 24
0.77 0.05 0.18
Matches are distributed among these distances:
41 1 0.01
42 7 0.07
43 16 0.16
44 10 0.10
46 15 0.15
47 31 0.31
48 20 0.20
49 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.24
Consensus pattern (45 bp):
TGTAAGACCATGTCTGGGACATGCATCGGCATCGAGACAGAGCTG
Found at i:61995756 original size:40 final size:40
Alignment explanation
Indices: 61995695--61995828 Score: 160
Period size: 40 Copynumber: 3.4 Consensus size: 40
61995685 TGATATCTTA
* *
61995695 CACACTAAGTGCCGTACATAGCCGAAGCTATCTCAAATCG
1 CACACTAAGTGCCATATATAGCCGAAGCTATCTCAAATCG
* * * *
61995735 CACACTAAGTTCCATATATAGCCAAAGCTATGTCGAATCG
1 CACACTAAGTGCCATATATAGCCGAAGCTATCTCAAATCG
* * ** *
61995775 CACACTAAGTGCCATATATAGCTGAAGCTATGTCGTATTG
1 CACACTAAGTGCCATATATAGCCGAAGCTATCTCAAATCG
*
61995815 CATACTAAGTGCCA
1 CACACTAAGTGCCA
61995829 CAAATAACTA
Statistics
Matches: 82, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 82 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (40 bp):
CACACTAAGTGCCATATATAGCCGAAGCTATCTCAAATCG
Found at i:62000275 original size:46 final size:46
Alignment explanation
Indices: 62000217--62000334 Score: 218
Period size: 46 Copynumber: 2.6 Consensus size: 46
62000207 TACATTTCAC
62000217 GAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGT
*
62000263 GAACTCGGACTCAACTCAACGAGTTCAGATGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGT
*
62000309 GAACTTGGACTCAACTCAACGAGTTC
1 GAACTCGGACTCAACTCAACGAGTTC
62000335 GAATGCCCAA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGT
Found at i:62009344 original size:27 final size:26
Alignment explanation
Indices: 62009313--62009490 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 26
62009303 TAAATTGTAC
62009313 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
62009340 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
62009366 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
62009394 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
62009422 GGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
62009449 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
62009476 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
62009491 GACTCGATAT
Statistics
Matches: 131, Mismatches: 15, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.01
27 104 0.79
28 26 0.20
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:62009429 original size:82 final size:81
Alignment explanation
Indices: 62009314--62009469 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
62009304 AAATTGTACA
*
62009314 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
62009378 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
62009395 GCACTAAGTGTGCGAGTTTGACTATGTGGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
62009460 TGCGAGTTGA
65 TGCGAATTGA
62009470 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:62009481 original size:82 final size:81
Alignment explanation
Indices: 62009310--62009490 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
62009300 GATTAAATTG
*
62009310 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGATGCACTAA
62009375 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
62009391 TGCGGCACTAAGTGTGCGAGTTTGACTATGTGGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
62009455 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
62009473 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
62009491 GACTCGATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:62010960 original size:21 final size:21
Alignment explanation
Indices: 62010936--62010978 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
62010926 TTAGCTCCGT
62010936 GTTTGCGGATCTTGTCAGCAG
1 GTTTGCGGATCTTGTCAGCAG
*
62010957 GTTTGCGGATCTTGTCTGCAG
1 GTTTGCGGATCTTGTCAGCAG
62010978 G
1 G
62010979 AAATTTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.12, C:0.19, G:0.35, T:0.35
Consensus pattern (21 bp):
GTTTGCGGATCTTGTCAGCAG
Found at i:62013540 original size:42 final size:43
Alignment explanation
Indices: 62013494--62013606 Score: 149
Period size: 42 Copynumber: 2.7 Consensus size: 43
62013484 GTGATTACGT
*
62013494 GTAAGACCATAGCTGGGCTATGACATCGA-TATATGAATATGC
1 GTAAGACCATAGCTGGGCTATGACATCGATTATATGAAGATGC
* * *
62013536 GTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGATGT
1 GTAAGACCATAGCTGGGCTATGACATCGATTATATGAAGATGC
* **
62013578 GTAAGACCATAGTTGAACTATGACATCGA
1 GTAAGACCATAGCTGGGCTATGACATCGA
62013607 GAAAACGAAG
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
41 1 0.02
42 59 0.97
43 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.27
Consensus pattern (43 bp):
GTAAGACCATAGCTGGGCTATGACATCGATTATATGAAGATGC
Found at i:62014332 original size:22 final size:26
Alignment explanation
Indices: 62014288--62014339 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
62014278 AAATTGATTC
62014288 ATAAATGTATTAAAATGTTGGTG-GAA
1 ATAAATGTATTAAAATG-TGGTGAGAA
62014314 ATAAATG-ATT-AAATG-GGTGAGAA
1 ATAAATGTATTAAAATGTGGTGAGAA
62014337 ATA
1 ATA
62014340 TGGCTTGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
22 4 0.16
23 6 0.24
24 5 0.20
25 3 0.12
26 7 0.28
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (26 bp):
ATAAATGTATTAAAATGTGGTGAGAA
Found at i:62016286 original size:39 final size:40
Alignment explanation
Indices: 62016215--62016349 Score: 146
Period size: 40 Copynumber: 3.4 Consensus size: 40
62016205 CTCAATGTCT
* *
62016215 CGCAGACTAAGTGCCATACATAGCTGAAGCTATCTCAAAC
1 CGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAAC
* * * *
62016255 CTCACACTAAGTGCCATA-ATAGCCGAAGCTATGTCGAAT
1 CGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAAC
* * * ** *
62016294 CGCACACTAAGTGCCATATATAGCCAAAGCTATGTCGTAT
1 CGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAAC
*
62016334 CGTACACTAAGTGCCA
1 CGCACACTAAGTGCCA
62016350 CAAATAACTG
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
39 34 0.40
40 50 0.60
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (40 bp):
CGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAAC
Found at i:62019395 original size:51 final size:51
Alignment explanation
Indices: 62019319--62019447 Score: 213
Period size: 51 Copynumber: 2.5 Consensus size: 51
62019309 ATGTTAAATA
*
62019319 GACACGGGCGTGTGGTCTACTTGTGTAAGTCGTGCTCGATTCTACTAAAAG
1 GACACGGGCGTGTGGTCTACCTGTGTAAGTCGTGCTCGATTCTACTAAAAG
62019370 GACACGGGCGTGTGGTCTACCTGTGTAAGTCGTGCTCGATTCTACTAAAAG
1 GACACGGGCGTGTGGTCTACCTGTGTAAGTCGTGCTCGATTCTACTAAAAG
* * * *
62019421 GACACAGACGTGTGGTCTGCCCGTGTA
1 GACACGGGCGTGTGGTCTACCTGTGTA
62019448 CGGAAGTCCA
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 73 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (51 bp):
GACACGGGCGTGTGGTCTACCTGTGTAAGTCGTGCTCGATTCTACTAAAAG
Found at i:62027194 original size:29 final size:29
Alignment explanation
Indices: 62027152--62027239 Score: 151
Period size: 29 Copynumber: 3.1 Consensus size: 29
62027142 GTGACCACGA
*
62027152 ATAT-AATGTGATTTGGGCCTAAAGGTCC
1 ATATAAATGTGATTTGGGCCTAAAGGGCC
62027180 ATATAAATGTGATTTGGGCCTAAAGGGCC
1 ATATAAATGTGATTTGGGCCTAAAGGGCC
*
62027209 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAAAGGGCC
62027238 AT
1 AT
62027240 GTGAATATAA
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
28 4 0.07
29 53 0.93
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.31
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAAAGGGCC
Found at i:62034216 original size:29 final size:28
Alignment explanation
Indices: 62034180--62034252 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 28
62034170 TCATGAGATT
* *
62034180 GGCACTAAGTGTGTGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGAGTTTAAA--GTACA
62034210 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGAGTTTAAAGTACA
62034237 TGGCACTAAGTGTGCG
1 -GGCACTAAGTGTGCG
62034253 TGGTTGATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
27 5 0.13
29 34 0.87
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGAGTTTAAAGTACA
Found at i:62034475 original size:174 final size:174
Alignment explanation
Indices: 62034210--62034571 Score: 688
Period size: 174 Copynumber: 2.1 Consensus size: 174
62034200 AAATTGTACA
62034210 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
62034275 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
*
62034340 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TCTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
62034384 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGTGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
*
62034449 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTATCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
62034514 TCTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TCTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
62034558 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
62034572 CGGTTGATTA
Statistics
Matches: 183, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 183 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
TCTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:62034655 original size:145 final size:145
Alignment explanation
Indices: 62034409--62034682 Score: 476
Period size: 145 Copynumber: 1.9 Consensus size: 145
62034399 GTTTAAAGTA
* * *
62034409 CATGGCACTAAGTGTGTGTGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
1 CATGGCACTAAGTGTGCGCGGTTGATTACTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
* * *
62034474 ATAAATTATTTACATTAAGGGTGCGACCTTATCGAGTCGATCTTGGACAGCGGAAAAGGTAAGTG
66 ATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAATCTTGGACAGCGGAAAAGGTAAGTG
62034539 TGCGAACTTGAAATG
131 TGCGAACTTGAAATG
62034554 CATGGCACTAAGTGTGCGCGGTTGATTACTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
1 CATGGCACTAAGTGTGCGCGGTTGATTACTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
* *
62034619 ATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGT
66 ATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAATCTTGGACAGCGGAAAAGGTAAGT
62034683 ACCTTGAGTT
Statistics
Matches: 121, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
145 121 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (145 bp):
CATGGCACTAAGTGTGCGCGGTTGATTACTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
ATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAATCTTGGACAGCGGAAAAGGTAAGTG
TGCGAACTTGAAATG
Found at i:62042140 original size:13 final size:14
Alignment explanation
Indices: 62042122--62042154 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
62042112 AATCAAAAAC
*
62042122 AAACATATCAATA-
1 AAACATATAAATAT
62042135 AAACATATAAATAT
1 AAACATATAAATAT
62042149 AAACAT
1 AAACAT
62042155 GGTCGAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (14 bp):
AAACATATAAATAT
Found at i:62046554 original size:47 final size:47
Alignment explanation
Indices: 62046491--62046775 Score: 410
Period size: 47 Copynumber: 6.1 Consensus size: 47
62046481 GAAATGATAG
* *
62046491 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
62046538 TAAGGCCAAATGGCCGATATGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
62046585 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
62046632 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
62046679 TAAGGCCTAATGGCCGATGTG-TGAATGTGGAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
62046725 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
62046772 TAAG
1 TAAG
62046776 TCCCGAAGGG
Statistics
Matches: 214, Mismatches: 23, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
46 39 0.18
47 175 0.82
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:62046950 original size:37 final size:37
Alignment explanation
Indices: 62046894--62046972 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
62046884 CCGAGCTCTA
* * *
62046894 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
62046931 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
62046968 AAGAC
1 AAGAC
62046973 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:62049234 original size:56 final size:56
Alignment explanation
Indices: 62049172--62049359 Score: 281
Period size: 56 Copynumber: 3.4 Consensus size: 56
62049162 TCCCAGATAG
* * *
62049172 GGTCTTACTCGTAAACACATATCGGAATCACATATCGATGCCAACGCACTAAACGT
1 GGTCTTACTCGTACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGT
* *
62049228 GATCTTACTC--ACACACATATCAGAATCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGTACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGT
* * * *
62049282 GGTCTTACTTGCACACACATATCGGAATCACATATCGATGTCAACGTATTAAACAT
1 GGTCTTACTCGTACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGT
62049338 GGTCTTACTCGTACACACATAT
1 GGTCTTACTCGTACACACATAT
62049360 TGTACAATGC
Statistics
Matches: 118, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
54 48 0.41
56 70 0.59
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.27
Consensus pattern (56 bp):
GGTCTTACTCGTACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGT
Found at i:62049420 original size:43 final size:41
Alignment explanation
Indices: 62049366--62049454 Score: 124
Period size: 43 Copynumber: 2.1 Consensus size: 41
62049356 ATATTGTACA
* *
62049366 ATGCCAATGTCCCAGACGTGGTATTACATGTAATCATATATCG
1 ATGCCAATGTCCCAGACATGGTATTACATG-AATCAAATA-CG
* *
62049409 ATGCCACTGTCCCAGACATGGTCTTACATGAATCAAATACG
1 ATGCCAATGTCCCAGACATGGTATTACATGAATCAAATACG
62049450 ATGCC
1 ATGCC
62049455 GATATACCAG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 7 0.17
42 8 0.19
43 27 0.64
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (41 bp):
ATGCCAATGTCCCAGACATGGTATTACATGAATCAAATACG
Found at i:62049465 original size:41 final size:43
Alignment explanation
Indices: 62049377--62049491 Score: 119
Period size: 41 Copynumber: 2.7 Consensus size: 43
62049367 TGCCAATGTC
* * * * *
62049377 CCAGACGTGGTATTACATGTAATCATATATCGATGCCACTGTC
1 CCAGACATGGTCTTACATGTAATCAAATATCGATGCCACTATA
62049420 CCAGACATGGTCTTACATG-AATCAAATA-CGATGCCGA-TATA
1 CCAGACATGGTCTTACATGTAATCAAATATCGATGCC-ACTATA
* * * *
62049461 CCAGATATGGCCTTACACGTAATCACATATC
1 CCAGACATGGTCTTACATGTAATCAAATATC
62049492 AGAAATCCTA
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
41 25 0.42
42 17 0.28
43 18 0.30
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (43 bp):
CCAGACATGGTCTTACATGTAATCAAATATCGATGCCACTATA
Found at i:62050639 original size:14 final size:15
Alignment explanation
Indices: 62050607--62050653 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
62050597 CCAAACAATA
* * *
62050607 AAATTAAAACACAAA
1 AAATTAACACATAAT
62050622 AAATTAACACAT-AT
1 AAATTAACACATAAT
*
62050636 AAATTCACACATAAT
1 AAATTAACACATAAT
62050651 AAA
1 AAA
62050654 CACAAAATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 12 0.44
15 15 0.56
ACGTcount: A:0.64, C:0.15, G:0.00, T:0.21
Consensus pattern (15 bp):
AAATTAACACATAAT
Found at i:62058172 original size:34 final size:34
Alignment explanation
Indices: 62058124--62058190 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
62058114 CCTAAGCCCC
62058124 ACTGATATTGTTACTAAAATGGGCTCT-GGCCCAG
1 ACTGATATTGTTACTAAAATGGGCT-TAGGCCCAG
* *
62058158 ACTGCTATTGTTACTGAAATGGGCTTAGGCCCA
1 ACTGATATTGTTACTAAAATGGGCTTAGGCCCA
62058191 AATTGTGTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 1 0.03
34 29 0.97
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (34 bp):
ACTGATATTGTTACTAAAATGGGCTTAGGCCCAG
Found at i:62058420 original size:18 final size:17
Alignment explanation
Indices: 62058397--62058440 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
62058387 AGGCCTCTCG
62058397 GGTATTTATTTTTAATTT
1 GGTATTTATTTTTAA-TT
*
62058415 GGTATTTTATTTTTCATT
1 GGTA-TTTATTTTTAATT
62058433 GG-ATTTAT
1 GGTATTTAT
62058441 ATCTGCTAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 5 0.21
17 1 0.04
18 8 0.33
19 10 0.42
ACGTcount: A:0.20, C:0.02, G:0.14, T:0.64
Consensus pattern (17 bp):
GGTATTTATTTTTAATT
Found at i:62065213 original size:48 final size:48
Alignment explanation
Indices: 62065142--62065259 Score: 209
Period size: 48 Copynumber: 2.5 Consensus size: 48
62065132 CGCTTAAGAA
*
62065142 TAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGG
1 TAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGC
*
62065190 TAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGTCGAATGGC
1 TAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGC
*
62065238 TAGTGTGAAATATGTAGGAGAT
1 TAGTGTGAAATATGTATGAGAT
62065260 GTGTGTATAT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 67 1.00
ACGTcount: A:0.34, C:0.03, G:0.31, T:0.32
Consensus pattern (48 bp):
TAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGC
Found at i:62065450 original size:37 final size:37
Alignment explanation
Indices: 62065400--62065502 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
62065390 GGAAATATAT
62065400 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
62065437 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
62065474 TCTGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
62065503 GGACTATTCG
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:62071515 original size:40 final size:40
Alignment explanation
Indices: 62071479--62071673 Score: 300
Period size: 40 Copynumber: 4.9 Consensus size: 40
62071469 AGCCCGGATG
* *
62071479 TAACAACCAGCACAAATGCCTTTGGGACTTAACCCGGAAA
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAA
* * *
62071519 TAGCAACCAGCATGAATGCCTTCGGGATTTAACCCGGAAA
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAA
* *
62071559 TAACAACCAGCACGAATGCCTTCAGGACTTAACCCGGGAA
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAA
62071599 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAA
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAA
* * *
62071639 TAACAACCAACATGAATGCTTTCGGGACTTAACCC
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCC
62071674 AGATATAATC
Statistics
Matches: 140, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 140 1.00
ACGTcount: A:0.35, C:0.28, G:0.19, T:0.18
Consensus pattern (40 bp):
TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAA
Found at i:62071590 original size:80 final size:80
Alignment explanation
Indices: 62071457--62071673 Score: 308
Period size: 80 Copynumber: 2.7 Consensus size: 80
62071447 AACCCAATTA
* * ** * * *
62071457 CCTTCGAGATTTAGCCCGGATGTAACAACCAGCACAAATGCCTTTGGGACTTAACCCGGAAATAG
1 CCTTCGGGATTTAACCCGGAAATAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAATAA
*
62071522 CAACCAGCATGAATG
66 CAACCAGCACGAATG
* *
62071537 CCTTCGGGATTTAACCCGGAAATAACAACCAGCACGAATGCCTTCAGGACTTAACCCGGGAATAA
1 CCTTCGGGATTTAACCCGGAAATAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAATAA
62071602 CAACCAGCACGAATG
66 CAACCAGCACGAATG
* * * *
62071617 CCTTCGGGACTTAACCCGGAAATAACAACCAACATGAATGCTTTCGGGACTTAACCC
1 CCTTCGGGATTTAACCCGGAAATAACAACCAGCACGAATGCCTTCGGGACTTAACCC
62071674 AGATATAATC
Statistics
Matches: 122, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
80 122 1.00
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.19
Consensus pattern (80 bp):
CCTTCGGGATTTAACCCGGAAATAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAATAA
CAACCAGCACGAATG
Found at i:62075541 original size:26 final size:26
Alignment explanation
Indices: 62075512--62075575 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 26
62075502 AAATCAATTT
62075512 CTTTCAAAAACCAAGGTTT-AGAAAAA
1 CTTTCAAAAACCAA-GTTTGAGAAAAA
* *
62075538 CTTTTAAAAACCCAATTTTGAGAAAAA
1 CTTTCAAAAA-CCAAGTTTGAGAAAAA
62075565 -TTTCCAAAAAC
1 CTTT-CAAAAAC
62075576 TCATTCCATA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
26 16 0.50
27 16 0.50
ACGTcount: A:0.48, C:0.17, G:0.08, T:0.27
Consensus pattern (26 bp):
CTTTCAAAAACCAAGTTTGAGAAAAA
Found at i:62076268 original size:33 final size:33
Alignment explanation
Indices: 62076182--62076268 Score: 120
Period size: 33 Copynumber: 2.6 Consensus size: 33
62076172 TCTGAGCCGT
* * * *
62076182 AGCCTTATTCAATAACAGAGAAGTCTAGGCTTT
1 AGCCCTATACAATAACAGAGTAGTCTAGGCTTG
*
62076215 AGCCCTATACAATAACAGAGTAGTCTGGGCTTG
1 AGCCCTATACAATAACAGAGTAGTCTAGGCTTG
*
62076248 AGCCCTATACAGTAACAGAGT
1 AGCCCTATACAATAACAGAGT
62076269 GGGCCCAAGC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (33 bp):
AGCCCTATACAATAACAGAGTAGTCTAGGCTTG
Found at i:62080450 original size:27 final size:27
Alignment explanation
Indices: 62080409--62080462 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
62080399 TGCTATGTGA
* *
62080409 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
62080436 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
62080463 GGTTGTACTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:62080809 original size:50 final size:48
Alignment explanation
Indices: 62080696--62080882 Score: 173
Period size: 49 Copynumber: 3.8 Consensus size: 48
62080686 TGAGGTCACG
* * * * * *
62080696 TGTGCAGTAGTAAGTGTAGGCTACTA-CATGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGA-GTACCAGATAATTAG-CGCA
* * **
62080745 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAG-GTCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGAGTACCAGATAATTAGCG-CA
* *
62080793 TGTGTGTAGTACTAAGTGCAGGCTACTACGAGTACCGGATAATTAGCCGCA
1 --TGTGTAGTACTAAGTGCAGGCTACTATGAGTACCAGATAATTAG-CGCA
*
62080844 TGTGTAGTACTAAGTGCAGGCTATTATGCA-TACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATG-AGTACCAGATA
62080883 GCCTTGTCTA
Statistics
Matches: 112, Mismatches: 19, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
47 1 0.01
48 2 0.02
49 67 0.60
50 39 0.35
51 2 0.02
52 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (48 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGAGTACCAGATAATTAGCGCA
Found at i:62080859 original size:99 final size:99
Alignment explanation
Indices: 62080688--62080871 Score: 289
Period size: 99 Copynumber: 1.9 Consensus size: 99
62080678 ATCTATTGTG
* * * *
62080688 AGGTCACGTGTGCAGTAGTAAGTGTAGGCTACTACATGTACCGGATAATTGGTCGCATGTGTAGT
1 AGGTCACGTGTGCAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTAGCCGCATGTGTAGT
62080753 ACTAAGTGCAGGCTACTATGTGTATCAGATGGTT
66 ACTAAGTGCAGGCTACTATGTGTATCAGATGGTT
* *
62080787 AGGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGA-GTACCGGATAATTAGCCGCATGTGTAG
1 AGGTCACGTGTGCAGTACTAAGTGCAGGCTACTAC-ATGTACCGGATAATTAGCCGCATGTGTAG
*
62080851 TACTAAGTGCAGGCTATTATG
65 TACTAAGTGCAGGCTACTATG
62080872 CATACCAGAT
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
99 76 0.99
100 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (99 bp):
AGGTCACGTGTGCAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTAGCCGCATGTGTAGT
ACTAAGTGCAGGCTACTATGTGTATCAGATGGTT
Found at i:62084896 original size:21 final size:21
Alignment explanation
Indices: 62084841--62084898 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
62084831 CACTATTGTT
* *
62084841 AAGAAGGAAGTTGCTGCTGTAG
1 AAGAA-GAAGTTGTTGCTGAAG
*
62084863 AAGAGGAAGTTGTTGCTGAAG
1 AAGAAGAAGTTGTTGCTGAAG
62084884 AAGAAGAAGTTGTTG
1 AAGAAGAAGTTGTTG
62084899 AATTTGAGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 28 0.88
22 4 0.12
ACGTcount: A:0.34, C:0.05, G:0.36, T:0.24
Consensus pattern (21 bp):
AAGAAGAAGTTGTTGCTGAAG
Found at i:62088275 original size:16 final size:15
Alignment explanation
Indices: 62088243--62088281 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
62088233 TGATAATAAC
62088243 TAATATATAATTATAT
1 TAAT-TATAATTATAT
*
62088259 TTATTATAATGTATAT
1 TAATTATAAT-TATAT
62088275 TAATTAT
1 TAATTAT
62088282 TATCAACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
TAATTATAATTATAT
Found at i:62101335 original size:40 final size:40
Alignment explanation
Indices: 62101305--62101474 Score: 218
Period size: 40 Copynumber: 4.3 Consensus size: 40
62101295 GGACTAAGAT
* *
62101305 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* **
62101345 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* *
62101385 CCGAAGGCATTCGTGCGA-ATTGCTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGA-TACTAAATCCGGGTTAAGTC
* * * *
62101425 CCGAAGGCATT-GTGTGAGTTACTAAATCCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
62101464 CCGAAGGCATT
1 CCGAAGGCATT
62101475 TGAACGAGGA
Statistics
Matches: 116, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
39 34 0.29
40 82 0.71
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:62101389 original size:80 final size:79
Alignment explanation
Indices: 62101252--62101476 Score: 247
Period size: 80 Copynumber: 2.8 Consensus size: 79
62101242 TTGAATGCTG
* * * ** * * * *
62101252 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGCGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCATT
62101316 TGTGCGAGA-TACTAAA
64 TGTGCGA-ATTACTAAA
** * *
62101332 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
*
62101397 GTGCGAATTGCTAAA
65 GTGCGAATTACTAAA
* * *
62101412 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
62101477 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
79 37 0.30
80 81 0.66
81 4 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAATTACTAAA
Found at i:62101494 original size:79 final size:80
Alignment explanation
Indices: 62101327--62101509 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
62101317 GTGCGAGATA
** *
62101327 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
** **
62101392 CATTCGTGCGAATTG
66 CATTCGAACGAAGAG
* * *
62101407 CTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
* *
62101471 CATTTGAACGAGGAG
66 CATTCGAACGAAGAG
* *
62101486 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
62101510 TACGTGATTT
Statistics
Matches: 88, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.52
80 28 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
CATTCGAACGAAGAG
Found at i:62103791 original size:44 final size:44
Alignment explanation
Indices: 62103662--62103858 Score: 217
Period size: 44 Copynumber: 4.5 Consensus size: 44
62103652 GTACAATGGA
* * *
62103662 AACATCCCAGACGTGGTCTTACATGT-AATCA-AATATCGGTGCC
1 AACATCCCAGACGTGGTCTTACACGTAAATCATAA-GTCGATGCC
* ** * *
62103705 -ACTGTCCCAGATATGGTTTTACACG-AAATCA-AA-TATGATGCC
1 AAC-ATCCCAGACGTGGTCTTACACGTAAATCATAAGT-CGATGCC
* * *
62103747 AACGTCCGAGGCGTGGTCTTACACGTAAATCATAAGTCGATGCC
1 AACATCCCAGACGTGGTCTTACACGTAAATCATAAGTCGATGCC
62103791 AACATCCCAGACGTGGTCTTACACGTAAATCATAAGTCGATGCC
1 AACATCCCAGACGTGGTCTTACACGTAAATCATAAGTCGATGCC
*
62103835 AACATCCCAAACGTGGTCTTACAC
1 AACATCCCAGACGTGGTCTTACAC
62103859 TAGAATGCAT
Statistics
Matches: 130, Mismatches: 17, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
41 1 0.01
42 24 0.18
43 32 0.25
44 72 0.55
45 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (44 bp):
AACATCCCAGACGTGGTCTTACACGTAAATCATAAGTCGATGCC
Found at i:62111795 original size:41 final size:41
Alignment explanation
Indices: 62111738--62111883 Score: 204
Period size: 41 Copynumber: 3.6 Consensus size: 41
62111728 GGTTTAAATT
62111738 CGAGCCTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATC
1 CGAGCCTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATC
*
62111779 CGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAA-C
1 CGAGCCTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATC
* * * * * * *
62111819 CGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCATAATC
1 CGAGCCTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATC
*
62111860 CGAGCTTGGTCTCGAAGGGCTTTT
1 CGAGCCTGGTCTCGAAGGGCTTTT
62111884 TGAGTCAGCG
Statistics
Matches: 89, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
40 32 0.36
41 57 0.64
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (41 bp):
CGAGCCTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATC
Found at i:62113757 original size:42 final size:43
Alignment explanation
Indices: 62113697--62113805 Score: 134
Period size: 43 Copynumber: 2.6 Consensus size: 43
62113687 ACTTATGATG
* *
62113697 TACGTGTAAGACCATGTCTGGGACA-TCAGCATC-ATATTTGAT
1 TACGTGTAAGACCCTGTCTGGGACAGT-AGCATCGATATTTAAT
* *
62113739 TTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTAAT
1 TACGTGTAAGACCCTGTCTGGGACAGTAGCATCGATATTTAAT
*
62113782 TACATGTAAGACCAC-GTCTGGGAC
1 TACGTGTAAGACC-CTGTCTGGGAC
62113806 GTTGGCATTG
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
42 28 0.48
43 29 0.50
44 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (43 bp):
TACGTGTAAGACCCTGTCTGGGACAGTAGCATCGATATTTAAT
Found at i:62114781 original size:28 final size:28
Alignment explanation
Indices: 62114741--62114808 Score: 102
Period size: 28 Copynumber: 2.4 Consensus size: 28
62114731 ATGAAAATTT
*
62114741 CACTAAGCGTGCGAGTTT-AGTTAACGAG
1 CACTAAGTGTGCGAGTTTGA-TTAACGAG
*
62114769 CACTAAGTGTGCGAGTTTGATTATCGAG
1 CACTAAGTGTGCGAGTTTGATTAACGAG
62114797 CACTAAGTGTGC
1 CACTAAGTGTGC
62114809 AAAGGAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 36 0.97
29 1 0.03
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTGATTAACGAG
Found at i:62117001 original size:66 final size:66
Alignment explanation
Indices: 62116926--62117054 Score: 152
Period size: 66 Copynumber: 2.0 Consensus size: 66
62116916 GTAAAGACAG
* * * * * * * *
62116926 AATATAGATAGTACATCTG-GATAGTAAACATAGAATAGAGAAATTTCATTAGGACAATAAACAT
1 AATAGAGATAGTACA-CCGAGACAGTAAACACAGAACAAAGAAAGTACATTAGGACAATAAACAT
62116990 GA
65 GA
* *
62116992 AATAGAGATAGTCCACCGAGACAGTAAACACAGAACAAAGAAAGTACATTAGGACAGTAAACA
1 AATAGAGATAGTACACCGAGACAGTAAACACAGAACAAAGAAAGTACATTAGGACAATAAACA
62117055 CGAGGTAAGT
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
65 2 0.04
66 50 0.96
ACGTcount: A:0.50, C:0.13, G:0.18, T:0.19
Consensus pattern (66 bp):
AATAGAGATAGTACACCGAGACAGTAAACACAGAACAAAGAAAGTACATTAGGACAATAAACATG
A
Found at i:62126404 original size:29 final size:29
Alignment explanation
Indices: 62126370--62126443 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
62126360 TAATCAACCG
*
62126370 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
62126399 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
62126428 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
62126444 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:62129236 original size:26 final size:27
Alignment explanation
Indices: 62129181--62129238 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
62129171 TTTTTATTTT
*
62129181 TATTTTTTAAAAATATTTAAAATATTA
1 TATTTTTTAAAAATATTTAAAATATCA
* *
62129208 TATTTTTTAATATTA-TTAAACATA-CA
1 TATTTTTTAAAAATATTTAAA-ATATCA
62129234 TATTT
1 TATTT
62129239 AATTATTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 11 0.41
27 16 0.59
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (27 bp):
TATTTTTTAAAAATATTTAAAATATCA
Found at i:62133246 original size:18 final size:18
Alignment explanation
Indices: 62133223--62133266 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
62133213 CTTTTCGTAT
62133223 AACTTGAGAAGTTACAAG
1 AACTTGAGAAGTTACAAG
*
62133241 AACTTGAGAAGTTACAGG
1 AACTTGAGAAGTTACAAG
62133259 AACTTGAG
1 AACTTGAG
62133267 GGGGTGGAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.41, C:0.11, G:0.25, T:0.23
Consensus pattern (18 bp):
AACTTGAGAAGTTACAAG
Found at i:62136879 original size:43 final size:43
Alignment explanation
Indices: 62136827--62137022 Score: 211
Period size: 43 Copynumber: 4.6 Consensus size: 43
62136817 CATCCCAAAT
* *
62136827 GTGGTCTTACA-ACTAATCACATATCGATGTCACTATCCCAGAC
1 GTGGTCTTACACA-TAATCACATATCGATGCCACTGTCCCAGAC
**
62136870 AG-GGTCTTACATGTAATCACATATCGATGCCAAC-GTCCCAGAC
1 -GTGGTCTTACACATAATCACATATCGATGCC-ACTGTCCCAGAC
* * * *
62136913 GTGGTCTTACACGTAATCACATATCGATGCCAATGTCCAAAAC
1 GTGGTCTTACACATAATCACATATCGATGCCACTGTCCCAGAC
* *
62136956 GTGGTCTTACACATAATCACATATCGATGCCAAC-GTCCCAAAT
1 GTGGTCTTACACATAATCACATATCGATGCC-ACTGTCCCAGAC
* * *
62136999 GAGGTCTTACACGTAACCACATAT
1 GTGGTCTTACACATAATCACATAT
62137023 GTTTTTAACC
Statistics
Matches: 133, Mismatches: 14, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
42 2 0.02
43 127 0.95
44 4 0.03
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.26
Consensus pattern (43 bp):
GTGGTCTTACACATAATCACATATCGATGCCACTGTCCCAGAC
Found at i:62136964 original size:86 final size:86
Alignment explanation
Indices: 62136819--62137022 Score: 268
Period size: 86 Copynumber: 2.4 Consensus size: 86
62136809 AGGTGTTACA
* * * * * **
62136819 TCCCAAATGTGGTCTTACAAC-TAATCACATATCGATGTCACTATCCCAGACAGGGTCTTACATG
1 TCCCAAACGTGGTCTTAC-ACGTAATCACATATCGATGCCAATATCCAAAACAGGGTCTTACACA
62136883 TAATCACATATCGATGCCAACG
65 TAATCACATATCGATGCCAACG
* *
62136905 TCCCAGACGTGGTCTTACACGTAATCACATATCGATGCCAATGTCCAAAAC-GTGGTCTTACACA
1 TCCCAAACGTGGTCTTACACGTAATCACATATCGATGCCAATATCCAAAACAG-GGTCTTACACA
62136969 TAATCACATATCGATGCCAACG
65 TAATCACATATCGATGCCAACG
* * *
62136991 TCCCAAATGAGGTCTTACACGTAACCACATAT
1 TCCCAAACGTGGTCTTACACGTAATCACATAT
62137023 GTTTTTAACC
Statistics
Matches: 103, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
85 3 0.03
86 100 0.97
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.25
Consensus pattern (86 bp):
TCCCAAACGTGGTCTTACACGTAATCACATATCGATGCCAATATCCAAAACAGGGTCTTACACAT
AATCACATATCGATGCCAACG
Found at i:62140521 original size:24 final size:24
Alignment explanation
Indices: 62140483--62140614 Score: 86
Period size: 23 Copynumber: 5.8 Consensus size: 24
62140473 CCGATATATT
* *
62140483 AGCTC-TAAGAGCTTACTATTTTT
1 AGCTCATATGAGCTTACTATTTTC
*
62140506 AGCTCAT-TGGAGCTTACT-GTTTC
1 AGCTCATAT-GAGCTTACTATTTTC
*
62140529 AGCTCGTATGAGCTTACTA--TTC
1 AGCTCATATGAGCTTACTATTTTC
* *
62140551 AGCTCGATA-GCGCTTACCA-TTTC
1 AGCTC-ATATGAGCTTACTATTTTC
* *
62140574 AGCT-AAATAGAGCTTACCATTTT-
1 AGCTCATAT-GAGCTTACTATTTTC
62140597 AGCTCA-ATAGAGCTTACT
1 AGCTCATAT-GAGCTTACT
62140615 GTTCATCAGC
Statistics
Matches: 89, Mismatches: 10, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
21 2 0.02
22 16 0.18
23 56 0.63
24 15 0.17
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.36
Consensus pattern (24 bp):
AGCTCATATGAGCTTACTATTTTC
Found at i:62140638 original size:26 final size:25
Alignment explanation
Indices: 62140597--62140646 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
62140587 TTACCATTTT
* *
62140597 AGCTCAATAGAGCTTACTGTTCATC
1 AGCTCAAGAGAGCTTACTGATCATC
62140622 AGCTCAAGAGGAGCTTACTGATCAT
1 AGCTCAAGA-GAGCTTACTGATCAT
62140647 GACTAGAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (25 bp):
AGCTCAAGAGAGCTTACTGATCATC
Found at i:62140838 original size:20 final size:20
Alignment explanation
Indices: 62140787--62140845 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
62140777 AAGATGTGTG
* *
62140787 TTTATATGGATGAATTACTA
1 TTTATATAGATGAACTACTA
62140807 -TTAT-TACTGATGAACTACTA
1 TTTATATA--GATGAACTACTA
*
62140827 TTTATATAGATGTACTACT
1 TTTATATAGATGAACTACT
62140846 GGTTATATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
18 1 0.03
19 4 0.12
20 21 0.66
21 4 0.12
22 2 0.06
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.44
Consensus pattern (20 bp):
TTTATATAGATGAACTACTA
Found at i:62144429 original size:20 final size:20
Alignment explanation
Indices: 62144404--62144442 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
62144394 AGGGACTAAA
* *
62144404 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
62144424 ATGAAAAATTCTAAAATTT
1 ATGAAAAATTCTAAAATTT
62144443 ATGGATACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:62145702 original size:16 final size:16
Alignment explanation
Indices: 62145681--62145715 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
62145671 AACGCCCCAA
* *
62145681 AAAAATCCTGAAACCT
1 AAAAATCCCGAAAACT
62145697 AAAAATCCCGAAAACT
1 AAAAATCCCGAAAACT
62145713 AAA
1 AAA
62145716 TTTTCTTAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.57, C:0.23, G:0.06, T:0.14
Consensus pattern (16 bp):
AAAAATCCCGAAAACT
Found at i:62151360 original size:18 final size:19
Alignment explanation
Indices: 62151320--62151361 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
62151310 GTTGTGATTT
**
62151320 GGCTAAATGGGCTGGAGTA
1 GGCTAAATGGGCCCGAGTA
62151339 GGCTAAATGGGCCCGA-TA
1 GGCTAAATGGGCCCGAGTA
62151357 GGCTA
1 GGCTA
62151362 TTGGGCCCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.26, C:0.17, G:0.38, T:0.19
Consensus pattern (19 bp):
GGCTAAATGGGCCCGAGTA
Found at i:62151483 original size:29 final size:28
Alignment explanation
Indices: 62151443--62151513 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 28
62151433 ATTGTGACTA
* *
62151443 GGCCTAACGGGCCATAT-ACAGGTGATTTG
1 GGCCTAATGGGCCATATGA-AGATGA-TTG
*
62151472 GGCCTAATGGGCCATATGAATATGATTG
1 GGCCTAATGGGCCATATGAAGATGATTG
*
62151500 GGCTTAATGGGCCA
1 GGCCTAATGGGCCA
62151514 GTTATAGGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
28 16 0.43
29 20 0.54
30 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.25
Consensus pattern (28 bp):
GGCCTAATGGGCCATATGAAGATGATTG
Found at i:62160554 original size:31 final size:31
Alignment explanation
Indices: 62160506--62160591 Score: 129
Period size: 31 Copynumber: 2.8 Consensus size: 31
62160496 TCAATCTCAG
*
62160506 CATAT-ACTGGGCTGAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
* *
62160536 CATGTCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
*
62160567 CATATCATTGGGCCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
62160592 TATAAACGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
30 4 0.08
31 45 0.92
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:62160838 original size:25 final size:25
Alignment explanation
Indices: 62160809--62160878 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
62160799 CTCTTTTAAT
*
62160809 AACTGGGGCAAAGACCTTTTCGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
62160834 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
62160859 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
62160879 GCACTTCCTC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:62160942 original size:11 final size:11
Alignment explanation
Indices: 62160926--62160974 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
62160916 TATATGAATT
62160926 TATCATGTGCA
1 TATCATGTGCA
*
62160937 TATCA--TACA
1 TATCATGTGCA
62160946 TATCATGTGCA
1 TATCATGTGCA
*
62160957 TATCCTGT-CA
1 TATCATGTGCA
*
62160967 AATCATGT
1 TATCATGT
62160975 ATATCAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
9 8 0.26
10 8 0.26
11 15 0.48
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (11 bp):
TATCATGTGCA
Found at i:62162975 original size:24 final size:24
Alignment explanation
Indices: 62162943--62163049 Score: 178
Period size: 24 Copynumber: 4.4 Consensus size: 24
62162933 AAAGTGAAAG
62162943 GCTGATAAGGGAGAGGATTTAGGA
1 GCTGATAAGGGAGAGGATTTAGGA
62162967 GCTGATAAGGGAGAGGATTTAGGA
1 GCTGATAAGGGAGAGGATTTAGGA
*
62162991 GCTGATAAGGGAAAGGATTTAGGA
1 GCTGATAAGGGAGAGGATTTAGGA
* *
62163015 GCTGATAAAGGAGAAGATTTAGGA
1 GCTGATAAGGGAGAGGATTTAGGA
62163039 GCTGATCAAGG
1 GCTGAT-AAGG
62163050 AGTAGGAGTT
Statistics
Matches: 77, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
24 74 0.96
25 3 0.04
ACGTcount: A:0.36, C:0.06, G:0.38, T:0.21
Consensus pattern (24 bp):
GCTGATAAGGGAGAGGATTTAGGA
Found at i:62164700 original size:33 final size:34
Alignment explanation
Indices: 62164623--62164703 Score: 94
Period size: 33 Copynumber: 2.4 Consensus size: 34
62164613 TATGGGCCAT
*
62164623 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
* * **
62164657 AATGTAATCTGAA-AA-GGGCTCTGGCCCAGTATC
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGT-TC
62164690 ACTGTTATCTGAAT
1 ACTGTTATCTGAAT
62164704 GGGCTTAGGC
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
32 13 0.34
33 14 0.37
34 11 0.29
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (34 bp):
ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
Found at i:62164708 original size:32 final size:30
Alignment explanation
Indices: 62164623--62164716 Score: 71
Period size: 32 Copynumber: 2.9 Consensus size: 30
62164613 TATGGGCCAT
* *
62164623 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTGAAT---GGGCT-TGGCCCAGTTC
* * *
62164657 AATGTAATCTGAAAAGGGCTCTGGCCCAGTATC
1 ACTGTTATCTG-AATGGGCT-TGGCCCAGT-TC
62164690 ACTGTTATCTGAATGGGCTTAGGCCCA
1 ACTGTTATCTGAATGGGCTT-GGCCCA
62164717 ATGGGCTTGA
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
31 1 0.02
32 26 0.54
33 10 0.21
34 9 0.19
35 2 0.04
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.28
Consensus pattern (30 bp):
ACTGTTATCTGAATGGGCTTGGCCCAGTTC
Found at i:62166798 original size:79 final size:81
Alignment explanation
Indices: 62166695--62166878 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
62166685 GCTCCTCGTT
* *
62166695 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
*
62166757 CGGAT-TTAGTAAC-TCGCA
63 CGGATATT-GTAACTTAGCA
**
62166775 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
*
62166839 ATATTGTCACTTAGCA
66 ATATTGTAACTTAGCA
62166855 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
62166879 CATCATTCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 14 0.15
79 56 0.61
80 22 0.24
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATTGTAACTTAGCA
Found at i:62166812 original size:39 final size:41
Alignment explanation
Indices: 62166695--62166878 Score: 199
Period size: 40 Copynumber: 4.6 Consensus size: 41
62166685 GCTCCTCGTT
* *
62166695 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
* *
62166735 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAA-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
62166775 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* * *
62166814 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCA
62166855 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
62166879 CATCATTCAA
Statistics
Matches: 128, Mismatches: 7, Indels: 19
0.83 0.05 0.12
Matches are distributed among these distances:
38 3 0.02
39 48 0.38
40 66 0.52
41 11 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:62169072 original size:3 final size:3
Alignment explanation
Indices: 62169064--62169091 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
62169054 ATTTAATTAC
62169064 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
62169092 TTCATAAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:62173883 original size:29 final size:29
Alignment explanation
Indices: 62173820--62173887 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
62173810 TAATCAACCG
*
62173820 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
62173849 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
62173878 CGCACACTTA
1 CGCACACTTA
62173888 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:62173999 original size:174 final size:174
Alignment explanation
Indices: 62173709--62174036 Score: 611
Period size: 174 Copynumber: 1.9 Consensus size: 174
62173699 AACTCAAGGT
* *
62173709 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
62173774 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGAGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
62173839 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
62173883 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
62173948 GAAAATATATATTGGGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGAGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
62174013 ACTTTAAACTCACACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
62174037 TGTACAATTT
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 149 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGAGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:62174030 original size:29 final size:29
Alignment explanation
Indices: 62173996--62174067 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 29
62173986 ATCAACCGCG
* * *
62173996 CACACTTAGTGCCATGCACTTTAAACTCA
1 CACACTTAGTGCCATACAATTTAAACCCA
** *
62174025 CACACTTAGTGCTGTACAATTTAAACCCG
1 CACACTTAGTGCCATACAATTTAAACCCA
62174054 CACACTTAGTGCCA
1 CACACTTAGTGCCA
62174068 ATCTCATGAC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.26
Consensus pattern (29 bp):
CACACTTAGTGCCATACAATTTAAACCCA
Found at i:62179315 original size:31 final size:33
Alignment explanation
Indices: 62179260--62179322 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
62179250 AGGGTCACAG
* *
62179260 CCAATAACAGAATCAATTGGGCCT-AGCCCAAA
1 CCAATAACAGAAACAAGTGGGCCTAAGCCCAAA
62179292 CCAATAACA-AAACAAGTGGGCCTAAGCCCAA
1 CCAATAACAGAAACAAGTGGGCCTAAGCCCAA
62179323 TACAGTGACA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 12 0.43
32 16 0.57
ACGTcount: A:0.43, C:0.29, G:0.16, T:0.13
Consensus pattern (33 bp):
CCAATAACAGAAACAAGTGGGCCTAAGCCCAAA
Found at i:62180135 original size:27 final size:27
Alignment explanation
Indices: 62180105--62180231 Score: 132
Period size: 27 Copynumber: 4.7 Consensus size: 27
62180095 ACAATCATTT
*
62180105 TACCCTACAAGGGTATTTCGGTAATCC
1 TACCCCACAAGGGTATTTCGGTAATCC
* **
62180132 TACCCCACAGGGGTATTTAAGTAATCC
1 TACCCCACAAGGGTATTTCGGTAATCC
* * * * *
62180159 TACTCTATAGGGGTATTTCGGTAA-CAT
1 TACCCCACAAGGGTATTTCGGTAATC-C
*
62180186 TGCCCCAC-AGGGTATTTCGGTAATCC
1 TACCCCACAAGGGTATTTCGGTAATCC
*
62180212 TACCCCATAAGGGTATTTCG
1 TACCCCACAAGGGTATTTCG
62180232 ATAGTTTCAC
Statistics
Matches: 79, Mismatches: 18, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
26 21 0.27
27 58 0.73
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.30
Consensus pattern (27 bp):
TACCCCACAAGGGTATTTCGGTAATCC
Found at i:62180226 original size:53 final size:54
Alignment explanation
Indices: 62180113--62180231 Score: 152
Period size: 53 Copynumber: 2.2 Consensus size: 54
62180103 TTTACCCTAC
* *
62180113 AAGGGTATTTCGGTAATCCTACCCCACAGGGGTATTTAAGTAATCCTACTCTAT
1 AAGGGTATTTCGGTAATCCTACCCCACAGGGGTATTTAAGTAATCCTACCCCAT
* * * **
62180167 AGGGGTATTTCGGTAA-CATTGCCCCACA-GGGTATTTCGGTAATCCTACCCCAT
1 AAGGGTATTTCGGTAATC-CTACCCCACAGGGGTATTTAAGTAATCCTACCCCAT
62180220 AAGGGTATTTCG
1 AAGGGTATTTCG
62180232 ATAGTTTCAC
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
53 33 0.59
54 23 0.41
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (54 bp):
AAGGGTATTTCGGTAATCCTACCCCACAGGGGTATTTAAGTAATCCTACCCCAT
Found at i:62180251 original size:27 final size:27
Alignment explanation
Indices: 62180221--62180324 Score: 120
Period size: 27 Copynumber: 3.9 Consensus size: 27
62180211 CTACCCCATA
* *
62180221 AGGGTATTTCGATAGTTTCACAAATTG
1 AGGGTATTTCGATAATTTCACAAATCG
62180248 AGGGTATTTC-AGTAATTTCACAAATCG
1 AGGGTATTTCGA-TAATTTCACAAATCG
* * * *
62180275 AGGGTATTTTGGTAATTTCATAAATCA
1 AGGGTATTTCGATAATTTCACAAATCG
* *
62180302 AGGGTATTTCAATAATTTTACAA
1 AGGGTATTTCGATAATTTCACAA
62180325 CCATTTTAGT
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
26 1 0.02
27 63 0.98
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTCACAAATCG
Found at i:62180279 original size:54 final size:54
Alignment explanation
Indices: 62180221--62180324 Score: 136
Period size: 54 Copynumber: 1.9 Consensus size: 54
62180211 CTACCCCATA
* ** *
62180221 AGGGTATTTCGATAGTTTCACAAATTGAGGGTATTTCAGTAATTTCACAAATCG
1 AGGGTATTTCGATAATTTCACAAATCAAGGGTATTTCAATAATTTCACAAATCG
* * * *
62180275 AGGGTATTTTGGTAATTTCATAAATCAAGGGTATTTCAATAATTTTACAA
1 AGGGTATTTCGATAATTTCACAAATCAAGGGTATTTCAATAATTTCACAA
62180325 CCATTTTAGT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 42 1.00
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.38
Consensus pattern (54 bp):
AGGGTATTTCGATAATTTCACAAATCAAGGGTATTTCAATAATTTCACAAATCG
Found at i:62182088 original size:61 final size:61
Alignment explanation
Indices: 62181993--62182115 Score: 228
Period size: 61 Copynumber: 2.0 Consensus size: 61
62181983 AACACTAATT
*
62181993 ATTATAAGTCCTATAAGCTAACATCCAGGTTCACTTAAGAACCCAAAAATTAAAATTTTGC
1 ATTATAAGTCCTATAAGCTAACATCCAAGTTCACTTAAGAACCCAAAAATTAAAATTTTGC
*
62182054 ATTATAAGTCCTATAAGCTAACATCCAAGTTCACTTAAGAGCCCAAAAATTAAAATTTTGC
1 ATTATAAGTCCTATAAGCTAACATCCAAGTTCACTTAAGAACCCAAAAATTAAAATTTTGC
62182115 A
1 A
62182116 AACACCCAGA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (61 bp):
ATTATAAGTCCTATAAGCTAACATCCAAGTTCACTTAAGAACCCAAAAATTAAAATTTTGC
Found at i:62184230 original size:25 final size:26
Alignment explanation
Indices: 62184201--62184265 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
62184191 TAGCCCAAGT
62184201 CAGTCA-TTTACCCATAAGGGCAAAA
1 CAGTCATTTTACCCATAAGGGCAAAA
* * * *
62184226 TAGTCATTTTACTCTTTAGGGCAAAA
1 CAGTCATTTTACCCATAAGGGCAAAA
62184252 CAGTCATTTTACCC
1 CAGTCATTTTACCC
62184266 TACAAGGGTA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 5 0.15
26 28 0.85
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (26 bp):
CAGTCATTTTACCCATAAGGGCAAAA
Found at i:62184299 original size:26 final size:26
Alignment explanation
Indices: 62184270--62184359 Score: 83
Period size: 27 Copynumber: 3.4 Consensus size: 26
62184260 TTACCCTACA
*
62184270 AGGGTATTTCGATAATCCTACTCCAT
1 AGGGTATTTCGATAATCCTACCCCAT
* * *
62184296 AGGGGTATTTCAATAATCCTGCCCCACA
1 A-GGGTATTTCGATAATCCTACCCCA-T
* * *
62184324 AGGGTTTTTAGGTAAT-CTACCCCAT
1 AGGGTATTTCGATAATCCTACCCCAT
62184349 AGGTGTATTTC
1 AGG-GTATTTC
62184360 AGTAATTTCA
Statistics
Matches: 49, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
25 3 0.06
26 13 0.27
27 32 0.65
28 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (26 bp):
AGGGTATTTCGATAATCCTACCCCAT
Found at i:62184328 original size:27 final size:27
Alignment explanation
Indices: 62184261--62184328 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
62184251 ACAGTCATTT
* *
62184261 TACCCTACAAGGGTATTTCGATAATCC
1 TACCCCACAAGGGTATTTCAATAATCC
* * *
62184288 TACTCCATAGGGGTATTTCAATAATCC
1 TACCCCACAAGGGTATTTCAATAATCC
*
62184315 TGCCCCACAAGGGT
1 TACCCCACAAGGGT
62184329 TTTTAGGTAA
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (27 bp):
TACCCCACAAGGGTATTTCAATAATCC
Found at i:62184463 original size:54 final size:54
Alignment explanation
Indices: 62184353--62184482 Score: 147
Period size: 54 Copynumber: 2.4 Consensus size: 54
62184343 CCCCATAGGT
* *
62184353 GTATTTCAGTAATTTCATAAATAAGAGGTATTTCGATAATTTCACAAATCGAGG
1 GTATTTCAGTAATTTCACAAATAAGAGGTATTTCAATAATTTCACAAATCGAGG
* * * * *
62184407 GTATTTCGGTAATTTCACAAATTAG-GGATATTTCAATAATTTTAC-AACCTGGGG
1 GTATTTCAGTAATTTCACAAATAAGAGG-TATTTCAATAATTTCACAAATC-GAGG
* *
62184461 GTATTTCAATAATTTTACAAAT
1 GTATTTCAGTAATTTCACAAAT
62184483 CGGGGTCTTA
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
53 5 0.08
54 59 0.92
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (54 bp):
GTATTTCAGTAATTTCACAAATAAGAGGTATTTCAATAATTTCACAAATCGAGG
Found at i:62184487 original size:27 final size:27
Alignment explanation
Indices: 62184353--62184487 Score: 119
Period size: 27 Copynumber: 5.0 Consensus size: 27
62184343 CCCCATAGGT
* * ** *
62184353 GTATTTCAGTAATTTCATAAATAAGAG
1 GTATTTCAATAATTTCACAAATCGGGG
* *
62184380 GTATTTCGATAATTTCACAAATCGAGG
1 GTATTTCAATAATTTCACAAATCGGGG
** **
62184407 GTATTTCGGTAATTTCACAAATTAGGG
1 GTATTTCAATAATTTCACAAATCGGGG
* * *
62184434 ATATTTCAATAATTTTAC-AACCTGGGG
1 GTATTTCAATAATTTCACAAATC-GGGG
*
62184461 GTATTTCAATAATTTTACAAATCGGGG
1 GTATTTCAATAATTTCACAAATCGGGG
62184488 TCTTAACGAC
Statistics
Matches: 86, Mismatches: 20, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
26 2 0.02
27 81 0.94
28 3 0.03
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (27 bp):
GTATTTCAATAATTTCACAAATCGGGG
Found at i:62192434 original size:14 final size:14
Alignment explanation
Indices: 62192415--62192445 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
62192405 GAATTACACT
62192415 TTTGCCCCTAATAG
1 TTTGCCCCTAATAG
62192429 TTTGCCCCTAATAG
1 TTTGCCCCTAATAG
62192443 TTT
1 TTT
62192446 AACATCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.26, G:0.13, T:0.42
Consensus pattern (14 bp):
TTTGCCCCTAATAG
Found at i:62194657 original size:205 final size:205
Alignment explanation
Indices: 62194300--62194711 Score: 772
Period size: 205 Copynumber: 2.0 Consensus size: 205
62194290 AAGAACACAT
62194300 ATTTATGCATCATAGATCATCACATGCCAAGGAATTCTCATAGGCTTAGTGTACATACCTACACA
1 ATTTATGCATCATAGATCATCACATGCCAAGGAATTCTCATAGGCTTAGTGTACATACCTACACA
*
62194365 ACTCGTAACATAACTCAAGTGCATACTCACCAATGCCTTACCTCATTGGGACCATCATCAACTCT
66 ACTCGTAACATAACTCAAGTGCATACTCACCAATGCCTTACCTCATTGGGACCACCATCAACTCT
*
62194430 TTCCTTGGATTACCCATTGAACACTTGGAATACTAATTGGATACTCAGAAAAACCTTTGCACATA
131 TTCCTTGGATTACCCATTGAACACTTGAAATACTAATTGGATACTCAGAAAAACCTTTGCACATA
62194495 AGTG-CTTCAA
196 AGTGTC-TCAA
*
62194505 ATTTATGCATCATAGATCATCACATGCCAAGGAATTCTCATAGTCTTAGTGTACATACCTACACA
1 ATTTATGCATCATAGATCATCACATGCCAAGGAATTCTCATAGGCTTAGTGTACATACCTACACA
62194570 ACTCGTAACATAACTCAAGTGCATACTCACCAATGCCTTACCTCATTGGGACCACCATCAACTCT
66 ACTCGTAACATAACTCAAGTGCATACTCACCAATGCCTTACCTCATTGGGACCACCATCAACTCT
*
62194635 TTCCTTGGATTACCCGTTGAACACTTGAAATACTAATTGGATACTCAGAAAAACCTTTGCACATA
131 TTCCTTGGATTACCCATTGAACACTTGAAATACTAATTGGATACTCAGAAAAACCTTTGCACATA
62194700 AGTGTCTCAA
196 AGTGTCTCAA
62194710 AT
1 AT
62194712 GTAGCTAAAG
Statistics
Matches: 202, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
205 201 1.00
206 1 0.00
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (205 bp):
ATTTATGCATCATAGATCATCACATGCCAAGGAATTCTCATAGGCTTAGTGTACATACCTACACA
ACTCGTAACATAACTCAAGTGCATACTCACCAATGCCTTACCTCATTGGGACCACCATCAACTCT
TTCCTTGGATTACCCATTGAACACTTGAAATACTAATTGGATACTCAGAAAAACCTTTGCACATA
AGTGTCTCAA
Found at i:62198576 original size:50 final size:50
Alignment explanation
Indices: 62198510--62198695 Score: 201
Period size: 50 Copynumber: 3.7 Consensus size: 50
62198500 AAAATGGTTG
* **
62198510 TAGGTCACGTGTGTAGTACTAAGTTTAGGCTACTACGTGTACTAGATTGT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGT
* * * * *
62198560 TAGGTCACACGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCGATAGCT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTG-T
* * * * * * * *
62198611 TCGATCACATGTGTATTACTAACTGCAAGCTACTACATGTACCAGACTGT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGT
**
62198661 TAGGTTGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
62198696 TGCGTACCAG
Statistics
Matches: 107, Mismatches: 28, Indels: 2
0.78 0.20 0.01
Matches are distributed among these distances:
50 70 0.65
51 37 0.35
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (50 bp):
TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGT
Found at i:62201677 original size:25 final size:25
Alignment explanation
Indices: 62201639--62201722 Score: 134
Period size: 25 Copynumber: 3.4 Consensus size: 25
62201629 AGTTAAGCTT
62201639 GTTAAA-TTGTTCTTAATAATTCCG
1 GTTAAATTTGTTCTTAATAATTCCG
62201663 GTTAAATTTGTTCTTAATAATTCCG
1 GTTAAATTTGTTCTTAATAATTCCG
* * *
62201688 GTTAAATTTGCTCTTAATATTTCCA
1 GTTAAATTTGTTCTTAATAATTCCG
62201713 GTTAAATTTG
1 GTTAAATTTG
62201723 CCCTTATTAT
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
24 6 0.11
25 50 0.89
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.48
Consensus pattern (25 bp):
GTTAAATTTGTTCTTAATAATTCCG
Found at i:62201723 original size:25 final size:25
Alignment explanation
Indices: 62201639--62201737 Score: 119
Period size: 25 Copynumber: 4.0 Consensus size: 25
62201629 AGTTAAGCTT
* *
62201639 GTTAAA-TTGTTCTTAATAATTCCG
1 GTTAAATTTGCTCTTAATAATTCCA
* *
62201663 GTTAAATTTGTTCTTAATAATTCCG
1 GTTAAATTTGCTCTTAATAATTCCA
*
62201688 GTTAAATTTGCTCTTAATATTTCCA
1 GTTAAATTTGCTCTTAATAATTCCA
* * *
62201713 GTTAAATTTGCCCTTATTATTTCCA
1 GTTAAATTTGCTCTTAATAATTCCA
62201738 AATAAGTTAC
Statistics
Matches: 69, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
24 6 0.09
25 63 0.91
ACGTcount: A:0.27, C:0.15, G:0.10, T:0.47
Consensus pattern (25 bp):
GTTAAATTTGCTCTTAATAATTCCA
Found at i:62202633 original size:45 final size:45
Alignment explanation
Indices: 62202565--62202739 Score: 225
Period size: 45 Copynumber: 4.0 Consensus size: 45
62202555 TATCGTACAG
62202565 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGATA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGATA
* * *
62202610 TACTATTCGGTCCTTTGACCCTAGCAGGCTATAATGCCGATGATA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGATA
* *
62202655 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGAGT-
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA-TA
* * *
62202700 TGA-TA-TCGGG-CTTCGAGCCTAGCAGGCGA-AATGTCGGTGA
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
62202740 ATGAATCCGG
Statistics
Matches: 117, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
42 9 0.08
43 18 0.15
44 5 0.04
45 83 0.71
46 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGATA
Found at i:62203368 original size:300 final size:300
Alignment explanation
Indices: 62202826--62203428 Score: 1188
Period size: 300 Copynumber: 2.0 Consensus size: 300
62202816 AGAATGACAA
62202826 ATGAATACGTCCAATACGATAAGTTGGCCAGGTACGTATTATGTACTTATATGTGAGTATGATTT
1 ATGAATACGTCCAATACGATAAGTTGGCCAGGTACGTATTATGTACTTATATGTGAGTATGATTT
62202891 GAATTGAATCATAAGTGCATAATGTGATACATATGTGAATAAATGTTATATCTATATTTATGATC
66 GAATTGAATCATAAGTGCATAATGTGATACATATGTGAATAAATGTTATATCTATATTTATGATC
62202956 ATGATATATTCGATCAAGGTGTGAAAGTATGCGAAGATATTCGATTTATTTATGCTATATGAATT
131 ATGATATATTCGATCAAGGTGTGAAAGTATGCGAAGATATTCGATTTATTTATGCTATATGAATT
*
62203021 CAGATTAAGTGAAATTAGAATGCTAATTGTGCATTATGTGCTTGTGTATATTCGGCCAAATGGTA
196 CAGATTAAGTGAAATTAGAATGCTAACTGTGCATTATGTGCTTGTGTATATTCGGCCAAATGGTA
*
62203086 ATATATCTAGAAAATTACCTCTTGAGAAATTGAACAATTG
261 ATATATCTAGAAAATGACCTCTTGAGAAATTGAACAATTG
62203126 ATGAATACGTCCAATACGATAAGTTGGCCAGGTACGTATTATGTACTTATATGTGAGTATGATTT
1 ATGAATACGTCCAATACGATAAGTTGGCCAGGTACGTATTATGTACTTATATGTGAGTATGATTT
62203191 GAATTGAATCATAAGTGCATAATGTGATACATATGTGAATAAATGTTATATCTATATTTATGATC
66 GAATTGAATCATAAGTGCATAATGTGATACATATGTGAATAAATGTTATATCTATATTTATGATC
62203256 ATGATATATTCGATCAAGGTGTGAAAGTATGCGAAGATATTCGATTTATTTATGCTATATGAATT
131 ATGATATATTCGATCAAGGTGTGAAAGTATGCGAAGATATTCGATTTATTTATGCTATATGAATT
62203321 CAGATTAAGTGAAATTAGAATGCTAACTGTGCATTATGTGCTTGTGTATATTCGGCCAAATGGTA
196 CAGATTAAGTGAAATTAGAATGCTAACTGTGCATTATGTGCTTGTGTATATTCGGCCAAATGGTA
62203386 ATATATCTAGAAAATGACCTCTTGAGAAATTGAACAATTG
261 ATATATCTAGAAAATGACCTCTTGAGAAATTGAACAATTG
62203426 ATG
1 ATG
62203429 TATAATTGAG
Statistics
Matches: 301, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
300 301 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.36
Consensus pattern (300 bp):
ATGAATACGTCCAATACGATAAGTTGGCCAGGTACGTATTATGTACTTATATGTGAGTATGATTT
GAATTGAATCATAAGTGCATAATGTGATACATATGTGAATAAATGTTATATCTATATTTATGATC
ATGATATATTCGATCAAGGTGTGAAAGTATGCGAAGATATTCGATTTATTTATGCTATATGAATT
CAGATTAAGTGAAATTAGAATGCTAACTGTGCATTATGTGCTTGTGTATATTCGGCCAAATGGTA
ATATATCTAGAAAATGACCTCTTGAGAAATTGAACAATTG
Found at i:62209559 original size:25 final size:25
Alignment explanation
Indices: 62209521--62209678 Score: 237
Period size: 25 Copynumber: 6.4 Consensus size: 25
62209511 AGTTAAGCTT
62209521 GTTAAA-TTGTTCTTAATAATTCCG
1 GTTAAATTTGTTCTTAATAATTCCG
*
62209545 ATTAAATTTGTTCTTAATAATTCCG
1 GTTAAATTTGTTCTTAATAATTCCG
* *
62209570 GTTAAATTTGCTCTTAATAATTCTG
1 GTTAAATTTGTTCTTAATAATTCCG
** *
62209595 GTTAAATTCATTCTTAATAATTCCA
1 GTTAAATTTGTTCTTAATAATTCCG
62209620 GTTAAATTTGTTCTTAATAATTCCG
1 GTTAAATTTGTTCTTAATAATTCCG
* *
62209645 GTTAAATTTGCTCTTAATATTTCCG
1 GTTAAATTTGTTCTTAATAATTCCG
62209670 GTTAAATTT
1 GTTAAATTT
62209679 TCCCTTATTA
Statistics
Matches: 119, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
24 5 0.04
25 114 0.96
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.47
Consensus pattern (25 bp):
GTTAAATTTGTTCTTAATAATTCCG
Found at i:62209615 original size:75 final size:74
Alignment explanation
Indices: 62209521--62209677 Score: 262
Period size: 75 Copynumber: 2.1 Consensus size: 74
62209511 AGTTAAGCTT
*
62209521 GTTAAATTGTTCTTAATAATTCC-GATTAAATTTGTTCTTAATAATTCCGGTTAAATTTGCTCTT
1 GTTAAATTATTCTTAATAATTCCAG-TTAAATTTGTTCTTAATAATTCCGGTTAAATTTGCTCTT
*
62209585 AATAATTCTG
65 AATAATTCCG
62209595 GTTAAATTCATTCTTAATAATTCCAGTTAAATTTGTTCTTAATAATTCCGGTTAAATTTGCTCTT
1 GTTAAATT-ATTCTTAATAATTCCAGTTAAATTTGTTCTTAATAATTCCGGTTAAATTTGCTCTT
*
62209660 AATATTTCCG
65 AATAATTCCG
62209670 GTTAAATT
1 GTTAAATT
62209678 TTCCCTTATT
Statistics
Matches: 78, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
74 8 0.10
75 69 0.88
76 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.47
Consensus pattern (74 bp):
GTTAAATTATTCTTAATAATTCCAGTTAAATTTGTTCTTAATAATTCCGGTTAAATTTGCTCTTA
ATAATTCCG
Found at i:62210586 original size:45 final size:45
Alignment explanation
Indices: 62210517--62210649 Score: 203
Period size: 45 Copynumber: 3.0 Consensus size: 45
62210507 TATCGTACAG
* *
62210517 TACTATTTGGGCCTTTGAGTCTAGCAGGCTATAATGCCGGTGATA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGATA
* * *
62210562 TACTATTCGGGCTTTTGAGCCTAGCAAGCTATAATGCTGGTGATA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGATA
* *
62210607 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
62210650 ATTGATATCG
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 78 1.00
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGATA
Found at i:62210677 original size:43 final size:44
Alignment explanation
Indices: 62210517--62210677 Score: 184
Period size: 45 Copynumber: 3.6 Consensus size: 44
62210507 TATCGTACAG
* * *
62210517 TACTATTTGGGCCTTTGAGTCTAGCAGGCTATAATGCCGGTGATA
1 TACTATTCGGG-CTTCGAGCCTAGCAGGCTATAATGCCGGTGATA
* * *
62210562 TACTATTCGGGCTTTTGAGCCTAGCAAGCTATAATGCTGGTGATA
1 TACTATTCGGGC-TTCGAGCCTAGCAGGCTATAATGCCGGTGATA
*
62210607 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGA-A
1 TACTATTCGGG-CTTCGAGCCTAGCAGGCTATAATGCCGGTGATA
*
62210651 T--TGATATCGGGCTTCGATCCTAGCAGG
1 TACT-AT-TCGGGCTTCGAGCCTAGCAGG
62210678 TGAAATGTCG
Statistics
Matches: 103, Mismatches: 9, Indels: 10
0.84 0.07 0.08
Matches are distributed among these distances:
42 1 0.01
43 17 0.17
44 8 0.08
45 76 0.74
46 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.30
Consensus pattern (44 bp):
TACTATTCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGATA
Found at i:62231328 original size:17 final size:17
Alignment explanation
Indices: 62231306--62231338 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
62231296 ACTTCCTTTC
62231306 TCATCTTTTCTTTTCTT
1 TCATCTTTTCTTTTCTT
62231323 TCATCTTTTCTTTTCT
1 TCATCTTTTCTTTTCT
62231339 CTATAGCTGA
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:0.06, C:0.24, G:0.00, T:0.70
Consensus pattern (17 bp):
TCATCTTTTCTTTTCTT
Found at i:62232461 original size:28 final size:28
Alignment explanation
Indices: 62232419--62232506 Score: 117
Period size: 28 Copynumber: 3.2 Consensus size: 28
62232409 GGAGGAAGCG
62232419 TTCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* *
62232447 TTCTGGTGGCCCTGCCACAATTATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* * *
62232475 ATCTGGTGACTCTGTCAC-AATATCTG-
1 TTCTGGTGGCTCTGCCACAAATATCTGT
62232501 TTCTGG
1 TTCTGG
62232507 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
26 5 0.10
27 7 0.13
28 40 0.77
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.36
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAAATATCTGT
Found at i:62239241 original size:17 final size:17
Alignment explanation
Indices: 62239219--62239251 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
62239209 ACTTCCCTTC
62239219 TCATCTTTTCTTTTCTT
1 TCATCTTTTCTTTTCTT
62239236 TCATCTTTTCTTTTCT
1 TCATCTTTTCTTTTCT
62239252 CCATAGCCGA
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:0.06, C:0.24, G:0.00, T:0.70
Consensus pattern (17 bp):
TCATCTTTTCTTTTCTT
Found at i:62240199 original size:27 final size:27
Alignment explanation
Indices: 62240169--62240226 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
62240159 TACTAAAATA
* *
62240169 CCCTAAGTATG-AAAATTACCATTATGC
1 CCCTAAG-ATGCAAAATGACCATTATAC
*
62240196 CCCT-AGGTGCAAAATGACCATTATAC
1 CCCTAAGATGCAAAATGACCATTATAC
62240222 CCCTA
1 CCCTA
62240227 GGGTTGATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 2 0.08
26 20 0.77
27 4 0.15
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (27 bp):
CCCTAAGATGCAAAATGACCATTATAC
Found at i:62245873 original size:14 final size:14
Alignment explanation
Indices: 62245854--62245890 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
62245844 GAGTTTACAA
*
62245854 GAAGCTTTGAGATT
1 GAAGCTTAGAGATT
*
62245868 GAAGCTTAGGGATT
1 GAAGCTTAGAGATT
62245882 GAAGCTTAG
1 GAAGCTTAG
62245891 TTTTAGTAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.30, C:0.08, G:0.32, T:0.30
Consensus pattern (14 bp):
GAAGCTTAGAGATT
Done.