Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold19
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: 2266706
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 17655 characters in sequence are not A, C, G, or T
File 11 of 15
Found at i:1452654 original size:31 final size:31
Alignment explanation
Indices: 1452327--1452857 Score: 351
Period size: 31 Copynumber: 16.7 Consensus size: 31
1452317 CTTATAAGGG
* * **
1452327 TGCCACAGAGTTATGGACTTAAAAGAAAAAAGA
1 TGCCACTGAGTTGTGGACTTTGAAG--AAAAGA
* * * *
1452360 TGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGG
1 TGCCACTGAGTTGTGGACTTT--GAAG-AAAAGA
* * **
1452394 TGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGA
1 TGCCACTGAGTTGTGGACTTTGAA-G-AAAAGA
** * *
1452427 GTGCCA-TGGAGTTGTGGGTTTTAAAAAGAAAAAGGG
1 -TGCCACT-GAGTTGTGGACTTT--GAAG-AAAA-GA
* * *
1452463 TGCCACGGAGTTGTGGAC-TT--A-AAAGGG
1 TGCCACTGAGTTGTGGACTTTGAAGAAAAGA
* * *
1452490 TGCCACAGAGTGGTGGACTTTGAAAAGAAAAGG
1 TGCCACTGAGTTGTGGACTTTG--AAGAAAAGA
* * * *
1452523 TGCCACAGAGTTGTGGACTTAAGAGGAACAAGGG
1 TGCCACTGAGTTGTGGACTT-TGAAGAA-AA-GA
* * * *
1452557 CGCCACGGAGTCGTGGACTTGGAAGAAAAGA
1 TGCCACTGAGTTGTGGACTTTGAAGAAAAGA
* * *
1452588 GTGCCACTGAGTCGTGGACTTAGAA-AAGAGA
1 -TGCCACTGAGTTGTGGACTTTGAAGAAAAGA
1452619 TGCCACTGAGTTGTGGACTTTGAAGAAAAGA
1 TGCCACTGAGTTGTGGACTTTGAAGAAAAGA
*
1452650 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
1 TGCCACTGAGTTGTGGACTTTGAAGAAAAGA
** * **
1452681 TGCCACTGAGTCATGGACTTTG-GGAAGGGA
1 TGCCACTGAGTTGTGGACTTTGAAGAAAAGA
*
1452711 TGCCACTGAGTTGTGGACTTTGAAGAAAAAA
1 TGCCACTGAGTTGTGGACTTTGAAGAAAAGA
*
1452742 TGCCA-TAGAGTCGTGGACTTTGAAGAAAAGA
1 TGCCACT-GAGTTGTGGACTTTGAAGAAAAGA
* *
1452773 TGCCACGGAGTCGTGGACTTTGAAGAAAAGGA
1 TGCCACTGAGTTGTGGACTTTGAAGAAAA-GA
* * * * *
1452805 TGCCACTAAGTCGTGGACATAGAA-AAGAGA
1 TGCCACTGAGTTGTGGACTTTGAAGAAAAGA
* * *
1452835 TGCCATTGAGTTATAGACTTTGA
1 TGCCACTGAGTTGTGGACTTTGA
1452858 GAAGAGAGAT
Statistics
Matches: 414, Mismatches: 60, Indels: 51
0.79 0.11 0.10
Matches are distributed among these distances:
27 18 0.04
28 5 0.01
30 67 0.16
31 123 0.30
32 53 0.13
33 56 0.14
34 64 0.15
35 24 0.06
36 4 0.01
ACGTcount: A:0.34, C:0.14, G:0.31, T:0.21
Consensus pattern (31 bp):
TGCCACTGAGTTGTGGACTTTGAAGAAAAGA
Found at i:1452717 original size:92 final size:92
Alignment explanation
Indices: 1452558--1452845 Score: 382
Period size: 92 Copynumber: 3.1 Consensus size: 92
1452548 GAACAAGGGC
* * * * *
1452558 GCCACGGAGTCGTGGACTTGGAAGAAAAGAGTGCCACTGAGTCGTGGACTTAGAAAAGAGATGCC
1 GCCACTGAGTCGTGGACTTTGAAGAAAAGA-TGCCACTGAGTCGTGGACTTTGGAAAGGGATGCC
1452623 ACTGAGTTGTGGACTTTGAAGAAAAGAT
65 ACTGAGTTGTGGACTTTGAAGAAAAGAT
* *
1452651 GCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCATGGACTTTGGGAAGGGATGCCA
1 GCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGGAAAGGGATGCCA
*
1452716 CTGAGTTGTGGACTTTGAAGAAAAAAT
66 CTGAGTTGTGGACTTTGAAGAAAAGAT
* *
1452743 GCCA-TAGAGTCGTGGACTTTGAAGAAAAGATGCCACGGAGTCGTGGACTTTGAAGAAAAGGATG
1 GCCACT-GAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTG--GAAAGGGATG
* * * * *
1452807 CCACTAAGTCGTGGACATAGAA-AAGAGAT
63 CCACTGAGTTGTGGACTTTGAAGAAAAGAT
*
1452836 GCCATTGAGT
1 GCCACTGAGT
1452846 TATAGACTTT
Statistics
Matches: 173, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
91 1 0.01
92 104 0.60
93 41 0.24
94 27 0.16
ACGTcount: A:0.32, C:0.15, G:0.31, T:0.22
Consensus pattern (92 bp):
GCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGGAAAGGGATGCCA
CTGAGTTGTGGACTTTGAAGAAAAGAT
Found at i:1459519 original size:70 final size:70
Alignment explanation
Indices: 1459430--1459561 Score: 219
Period size: 70 Copynumber: 1.9 Consensus size: 70
1459420 TTAACTAAAT
* *
1459430 GTATCGATACGTTAAAAAATGTATCCATACATTTGGGTAAAAAATAGAATGTATCGATACATTCA
1 GTATCGATACATTAAAAAATGTATCCATACATTTGGGTAAAAAATAGAATGTATCGAGACATTCA
1459495 TACAC
66 TACAC
* * *
1459500 GTATCGATACATTGAAAAATGTATCGATATATTTGGGTAAAAAATAGAATGTATCGAGACAT
1 GTATCGATACATTAAAAAATGTATCCATACATTTGGGTAAAAAATAGAATGTATCGAGACAT
1459562 GTACTATTCA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 57 1.00
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.30
Consensus pattern (70 bp):
GTATCGATACATTAAAAAATGTATCCATACATTTGGGTAAAAAATAGAATGTATCGAGACATTCA
TACAC
Found at i:1459523 original size:20 final size:20
Alignment explanation
Indices: 1459477--1459528 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
1459467 TAAAAAATAG
*
1459477 AATGTATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* * *
1459497 CACGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
1459517 AATGTATCGATA
1 AATGTATCGATA
1459529 TATTTGGGTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.31
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:1460678 original size:28 final size:28
Alignment explanation
Indices: 1460598--1461231 Score: 395
Period size: 28 Copynumber: 22.1 Consensus size: 28
1460588 AAGGCCAGAG
* *
1460598 AAGGTTGCCACCAACTTGTATGGGCTTTAGA
1 AAGGATGCCACTAACTTG--TGGGCTTTA-A
* * * *
1460629 AGGGTTGGCACTAACTTATGGGCTTTAA
1 AAGGATGCCACTAACTTGTGGGCTTTAA
* *
1460657 AAGGATGCCACTAATTTGTGGGCTTTGA
1 AAGGATGCCACTAACTTGTGGGCTTTAA
* *
1460685 AAGGTTGCCACTAACTTTTGGGCTTTGAA
1 AAGGATGCCACTAACTTGTGGGCTTT-AA
* * * **
1460714 AA-GTTGCTACTGACTTGTGGGCTTCGA
1 AAGGATGCCACTAACTTGTGGGCTTTAA
* * * *
1460741 AAGGGTGCCATTAACTTGTGGGTTTTGA
1 AAGGATGCCACTAACTTGTGGGCTTTAA
* * *
1460769 AAGGGTGCCACTGACTTGTGGGCTTTGA
1 AAGGATGCCACTAACTTGTGGGCTTTAA
* * *
1460797 AAGGGTGCAACTGAA-TTGTGCGCTTTGAGA
1 AAGGATGCCACT-AACTTGTGGGCTTT-A-A
* * **
1460827 GAGGTTGCCACCGACTTGTGTGGGCTTT-A
1 AAGGATGCCACTAAC-T-TGTGGGCTTTAA
* * * * *
1460856 AGGGGTGCCACTGACTTATGAGCTTTGAGA
1 AAGGATGCCACTAACTTGTGGGCTTT-A-A
* * *
1460886 GAGGTTGCCA-TCGACTTGTGTGGGCTTT-A
1 AAGGATGCCACT-AAC-T-TGTGGGCTTTAA
* * * * *
1460915 AGGGGTGCTACTGACTTGTGGACTTTAA
1 AAGGATGCCACTAACTTGTGGGCTTTAA
* **
1460943 GAGAGATTGCCACCGACTTGTGGGCTTTAA
1 AAG-GA-TGCCACTAACTTGTGGGCTTTAA
* * * *
1460973 GAAAGATGCTACTGACTTATGGGCTTTGAA
1 -AAGGATGCCACTAACTTGTGGGCTTT-AA
* *
1461003 AAGG-TGCCACTTACTTATGGG-TTTCGAA
1 AAGGATGCCACTAACTTGTGGGCTTT--AA
* * **
1461031 AA-GATGCCACTAACATGTGGACTTCGA
1 AAGGATGCCACTAACTTGTGGGCTTTAA
* * *
1461058 AAGGGTGCCACTGACTTGTGGGCTTTGA
1 AAGGATGCCACTAACTTGTGGGCTTTAA
* * * * *
1461086 AAGGATGCGATTGACATGTGGGCTTTGA
1 AAGGATGCCACTAACTTGTGGGCTTTAA
*
1461114 AAGGATGCCACTGACTTGTGGGCTTTGAA
1 AAGGATGCCACTAACTTGTGGGCTTT-AA
* *
1461143 AAAGATGCCACTAACTTGTGGGCTTTGA
1 AAGGATGCCACTAACTTGTGGGCTTTAA
*
1461171 AAGGATGCCACTGACTTGTGGGCTTTGAA
1 AAGGATGCCACTAACTTGTGGGCTTT-AA
1461200 AAGG-TGCCACTAACTTGTGGGCTTTGAA
1 AAGGATGCCACTAACTTGTGGGCTTT-AA
1461228 AAGG
1 AAGG
1461232 GTCGTATTGA
Statistics
Matches: 483, Mismatches: 94, Indels: 55
0.76 0.15 0.09
Matches are distributed among these distances:
27 27 0.06
28 286 0.59
29 91 0.19
30 45 0.09
31 17 0.04
32 17 0.04
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
AAGGATGCCACTAACTTGTGGGCTTTAA
Found at i:1460697 original size:56 final size:56
Alignment explanation
Indices: 1460618--1461231 Score: 490
Period size: 56 Copynumber: 10.8 Consensus size: 56
1460608 CCAACTTGTA
* * * * * *
1460618 TGGGCTTTAGAAGGGTTGGCACTAACTTATGGGCTTTAAAAGGATGCCACTAATTTG
1 TGGGCTTT-GAAAGGATGCCACTAACTTGTGGGCTTTAAAAGGATGCCACTGACTTG
* * * *
1460675 TGGGCTTTGAAAGGTTGCCACTAACTTTTGGGCTTTGAAAA-GTTGCTACTGACTTG
1 TGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTT-AAAAGGATGCCACTGACTTG
* * * * * *
1460731 TGGGCTTCGAAAGGGTGCCATTAACTTGTGGGTTTTGAAAGGGTGCCACTGACTTG
1 TGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTAAAAGGATGCCACTGACTTG
* * * * * *
1460787 TGGGCTTTGAAAGGGTGCAACTGAA-TTGTGCGCTTTGAGAGAGGTTGCCACCGACTTGTG
1 TGGGCTTTGAAAGGATGCCACT-AACTTGTGGGCTTT-A-AAAGGATGCCACTGAC-T-TG
* * * * * * *
1460847 TGGGCTTT-AAGGGGTGCCACTGACTTATGAGCTTTGAGAGAGGTTGCCA-TCGACTTGTG
1 TGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTT-A-AAAGGATGCCACT-GAC-T-TG
* * * * * * *
1460906 TGGGCTTT-AAGGGGTGCTACTGACTTGTGGACTTTAAGAGAGATTGCCACCGACTTG
1 TGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTAAAAG-GA-TGCCACTGACTTG
* * * * *
1460963 TGGGCTTTAAGAAA-GATGCTACTGACTTATGGGCTTTGAAAAGG-TGCCACTTACTTA
1 TGGGCTTT--GAAAGGATGCCACTAACTTGTGGGCTTT-AAAAGGATGCCACTGACTTG
* * * ** *
1461020 TGGG-TTTCGAAAAGATGCCACTAACATGTGGACTTCGAAAGGGTGCCACTGACTTG
1 TGGGCTTT-GAAAGGATGCCACTAACTTGTGGGCTTTAAAAGGATGCCACTGACTTG
* * * * *
1461076 TGGGCTTTGAAAGGATGCGATTGACATGTGGGCTTTGAAAGGATGCCACTGACTTG
1 TGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTAAAAGGATGCCACTGACTTG
* *
1461132 TGGGCTTTGAAAAAGATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTG
1 TGGGCTTTG-AAAGGATGCCACTAACTTGTGGGCTTTAAAAGGATGCCACTGACTTG
1461189 TGGGCTTTGAAAAGG-TGCCACTAACTTGTGGGCTTTGAAAAGG
1 TGGGCTTTG-AAAGGATGCCACTAACTTGTGGGCTTT-AAAAGG
1461232 GTCGTATTGA
Statistics
Matches: 468, Mismatches: 68, Indels: 42
0.81 0.12 0.07
Matches are distributed among these distances:
55 12 0.03
56 214 0.46
57 106 0.23
58 17 0.04
59 103 0.22
60 16 0.03
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.30
Consensus pattern (56 bp):
TGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTAAAAGGATGCCACTGACTTG
Found at i:1460750 original size:84 final size:84
Alignment explanation
Indices: 1460598--1461230 Score: 506
Period size: 84 Copynumber: 7.4 Consensus size: 84
1460588 AAGGCCAGAG
* ** * * * *
1460598 AAGGTTGCCACCAACTTGTATGGGCTTTAGAAGGGTTGGCACTAACTTATGGGCTTTAAAAGGAT
1 AAGGTTGCCACTAACTTG--TGGGCTTT-GAAAAGTTGCCACTGACTTGTGGGCTTTGAAAGGAT
*
1460663 GCCACTAATTTGTGGGCTTTGA
63 GCCACTAACTTGTGGGCTTTGA
* * * *
1460685 AAGGTTGCCACTAACTTTTGGGCTTTGAAAAGTTGCTACTGACTTGTGGGCTTCGAAAGGGTGCC
1 AAGGTTGCCACTAACTTGTGGGCTTTGAAAAGTTGCCACTGACTTGTGGGCTTTGAAAGGATGCC
* *
1460750 ATTAACTTGTGGGTTTTGA
66 ACTAACTTGTGGGCTTTGA
* * * * * * * *
1460769 AAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCAACTGAATTGTGCGCTTTGAGAGAGGTTG
1 AAGGTTGCCACTAACTTGTGGGCTTTGAAAAGTTGCCACTGACTTGTGGGCTTTGA-A-AGGATG
**
1460834 CCACCGACTTGTGTGGGCTTT-A
64 CCACTAAC-T-TGTGGGCTTTGA
* * * * * * *
1460856 AGGGGTGCCACTGACTTATGAGCTTTGAGAGAGGTTGCCA-TCGACTTGTGTGGGCTTT-AAGGG
1 AAGGTTGCCACTAACTTGTGGGCTTTGA-A-AAGTTGCCACT-GAC-T-TGTGGGCTTTGAAAGG
* * * *
1460919 GTGCTACTGACTTGTGGACTTT-A
61 ATGCCACTAACTTGTGGGCTTTGA
** * * * *
1460942 AGAGAGATTGCCACCGACTTGTGGGCTTTAAGAAAGATGCTACTGACTTATGGGCTTTGAAAAGG
1 A-AG-G-TTGCCACTAACTTGTGGGCTTTGA-AAAGTTGCCACTGACTTGTGGGCTTTG-AAAGG
* *
1461007 -TGCCACTTACTTATGGG-TTTCGA
61 ATGCCACTAACTTGTGGGCTTT-GA
* * * * * * * *
1461030 AAAGATGCCACTAACATGTGGACTTCGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCG
1 AAGGTTGCCACTAACTTGTGGGCTTTGAAAAGTTGCCACTGACTTGTGGGCTTTGAAAGGATGCC
* * *
1461095 ATTGACATGTGGGCTTTGA
66 ACTAACTTGTGGGCTTTGA
* * * *
1461114 AAGGATGCCACTGACTTGTGGGCTTTGAAAAAGATGCCACTAACTTGTGGGCTTTGAAAGGATGC
1 AAGGTTGCCACTAACTTGTGGGCTTTG-AAAAGTTGCCACTGACTTGTGGGCTTTGAAAGGATGC
*
1461179 CACTGACTTGTGGGCTTTGAA
65 CACTAACTTGTGGGCTTTG-A
1461200 AAGG-TGCCACTAACTTGTGGGCTTTGAAAAG
1 AAGGTTGCCACTAACTTGTGGGCTTTGAAAAG
1461231 GGTCGTATTG
Statistics
Matches: 441, Mismatches: 84, Indels: 45
0.77 0.15 0.08
Matches are distributed among these distances:
83 5 0.01
84 157 0.36
85 100 0.23
86 39 0.09
87 60 0.14
88 37 0.08
89 32 0.07
90 2 0.00
91 9 0.02
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (84 bp):
AAGGTTGCCACTAACTTGTGGGCTTTGAAAAGTTGCCACTGACTTGTGGGCTTTGAAAGGATGCC
ACTAACTTGTGGGCTTTGA
Found at i:1460946 original size:118 final size:118
Alignment explanation
Indices: 1460785--1461001 Score: 296
Period size: 118 Copynumber: 1.8 Consensus size: 118
1460775 GCCACTGACT
* *
1460785 TGTGGGCTTTGAAAGGGTGCAACTGAATTGTGCGCTTTGAGAGAGGTTGCCACCGACTTGTGTGG
1 TGTGGGCTTTGAAAGGGTGCAACTGAATTGTGCGCTTTAAGAGAGATTGCCACCGAC-T-TGTGG
* *
1460850 GCTTTAAG-GGGTGCCACTGACTTATGAGCTTTGAGAGAGGTTGCCATCGACTTG
64 GCTTTAAGAAGATGCCACTGACTTATGAGCTTTGAGAGAGGTTGCCATCGACTTG
* * *
1460904 TGTGGGCTTT-AAGGGGTGCTACTGACTTGTG-GACTTTAAGAGAGATTGCCACCGACTTGTGGG
1 TGTGGGCTTTGAAAGGGTGCAACTGAATTGTGCG-CTTTAAGAGAGATTGCCACCGACTTGTGGG
* *
1460967 CTTTAAGAAAGATGCTACTGACTTATGGGCTTTGA
65 CTTTAAG-AAGATGCCACTGACTTATGAGCTTTGA
1461002 AAAGGTGCCA
Statistics
Matches: 86, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
116 13 0.15
117 2 0.02
118 61 0.71
119 10 0.12
ACGTcount: A:0.21, C:0.16, G:0.33, T:0.30
Consensus pattern (118 bp):
TGTGGGCTTTGAAAGGGTGCAACTGAATTGTGCGCTTTAAGAGAGATTGCCACCGACTTGTGGGC
TTTAAGAAGATGCCACTGACTTATGAGCTTTGAGAGAGGTTGCCATCGACTTG
Found at i:1461082 original size:113 final size:114
Alignment explanation
Indices: 1460618--1461231 Score: 391
Period size: 113 Copynumber: 5.4 Consensus size: 114
1460608 CCAACTTGTA
* * * * * * * *
1460618 TGGGCTTTAGAAGGGTTGGCACTAACTTATGGGCTTT-AAAAGGATGCCACTAATTTGTGGGCTT
1 TGGGCTTTAGAA-AGATGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTATGGGCTT
* * * * * * * * *
1460682 TG-AAAGGTTGCCACTAACTTTTGGGCTTTGAAAAGTTGCTACTGACTTG
65 TGAAAAAGATGCCACTAACATGTGGACTTCGAAAGGATGCCACTGACTTG
* * * * * * *
1460731 TGGGC-TTCGAAAGGGTGCCATTAACTTGTGGGTTTTG-AAAGGGTGCCACTGACTTGTGGGCTT
1 TGGGCTTTAGAAA-GATGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTATGGGCTT
* * * * * * *
1460794 TG-AAAGGGTGCAACTGAA-TTGTGCG-CTTTGAGAGAGGTTGCCACCGACTTGTG
65 TGAAAAAGATGCCACT-AACATGTG-GACTTCGA-A-AGGATGCCACTGAC-T-TG
** * * * * * *
1460847 TGGGCTTTA-AGGGGTGCCACTGACTTATGAGCTTTGAGAGAGGTTGCCA-TCGACTTGTGTGGG
1 TGGGCTTTAGAAAGATGCCACTGACTTGTGGGCTTTGA-AAAGGATGCCACT-GAC-T-TATGGG
** * * * * * *
1460910 CTTT--AAGGGGTGCTACTGACTTGTGGACTT-TAAGAGAGATTGCCACCGACTTG
62 CTTTGAAAAAGATGCCACTAACATGTGGACTTCGAA-AG-GA-TGCCACTGACTTG
* * *
1460963 TGGGCTTTAAGAAAGATGCTACTGACTTATGGGCTTTGAAAAGG-TGCCACTTACTTATGGG-TT
1 TGGGCTTT-AGAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTATGGGCTT
*
1461026 TCG-AAAAGATGCCACTAACATGTGGACTTCGAAAGGGTGCCACTGACTTG
65 T-GAAAAAGATGCCACTAACATGTGGACTTCGAAAGGATGCCACTGACTTG
* * * *
1461076 TGGGCTTT-GAAAGGATGCGATTGACATGTGGGCTTTG-AAAGGATGCCACTGACTTGTGGGCTT
1 TGGGCTTTAGAAA-GATGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTATGGGCTT
* * *
1461139 TGAAAAAGATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTG
65 TGAAAAAGATGCCACTAACATGTGGACTTCGAAAGGATGCCACTGACTTG
* *
1461189 TGGGCTTT-GAAAAGGTGCCACTAACTTGTGGGCTTTGAAAAGG
1 TGGGCTTTAG-AAAGATGCCACTGACTTGTGGGCTTTGAAAAGG
1461232 GTCGTATTGA
Statistics
Matches: 408, Mismatches: 63, Indels: 59
0.77 0.12 0.11
Matches are distributed among these distances:
111 9 0.02
112 105 0.26
113 106 0.26
114 25 0.06
115 43 0.11
116 32 0.08
117 25 0.06
118 53 0.13
119 10 0.02
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.30
Consensus pattern (114 bp):
TGGGCTTTAGAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTATGGGCTTT
GAAAAAGATGCCACTAACATGTGGACTTCGAAAGGATGCCACTGACTTG
Found at i:1462902 original size:19 final size:18
Alignment explanation
Indices: 1462878--1462938 Score: 69
Period size: 19 Copynumber: 3.6 Consensus size: 18
1462868 CACTTAACTA
1462878 TATCGATACATAAGTGTTG
1 TATCGATACATAAGT-TTG
1462897 TATCGATAC--AA---TG
1 TATCGATACATAAGTTTG
1462910 TATCGATACATAAGTTTTG
1 TATCGATACATAAG-TTTG
1462929 TATCGATACA
1 TATCGATACA
1462939 ATGTATCGCT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.31
15 2 0.06
17 2 0.06
19 21 0.58
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.36
Consensus pattern (18 bp):
TATCGATACATAAGTTTG
Found at i:1462913 original size:13 final size:13
Alignment explanation
Indices: 1462895--1462919 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1462885 ACATAAGTGT
1462895 TGTATCGATACAA
1 TGTATCGATACAA
1462908 TGTATCGATACA
1 TGTATCGATACA
1462920 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1462919 original size:32 final size:32
Alignment explanation
Indices: 1462878--1462946 Score: 129
Period size: 32 Copynumber: 2.2 Consensus size: 32
1462868 CACTTAACTA
1462878 TATCGATACATAAGTGTTGTATCGATACAATG
1 TATCGATACATAAGTGTTGTATCGATACAATG
*
1462910 TATCGATACATAAGTTTTGTATCGATACAATG
1 TATCGATACATAAGTGTTGTATCGATACAATG
1462942 TATCG
1 TATCG
1462947 CTACGAAGCT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.36
Consensus pattern (32 bp):
TATCGATACATAAGTGTTGTATCGATACAATG
Found at i:1465317 original size:51 final size:51
Alignment explanation
Indices: 1465259--1465442 Score: 242
Period size: 51 Copynumber: 3.6 Consensus size: 51
1465249 TTAAGTTTCT
* *
1465259 CAATTTTCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCGAAACAC
1 CAATTTTCCACAATCGGGGATACTCCAACTCCGATATTATTTTCAAAACAC
* * * *
1465310 CAATTTTCTACAATCGGGGATACTCCAACCCCGGTCTTATTTTCAAAACAC
1 CAATTTTCCACAATCGGGGATACTCCAACTCCGATATTATTTTCAAAACAC
** * *
1465361 CAATTTTCCTTTAATCGGGGATACTCCAACTCCGATATTATTTCCAAAAATAC
1 CAATTTTCC-ACAATCGGGGATACTCCAACTCCGATATTATTTTC-AAAACAC
* *
1465414 CAATTTTTCACAATCGAGGATACTCCAAC
1 CAATTTTCCACAATCGGGGATACTCCAAC
1465443 CCCGTTAATC
Statistics
Matches: 114, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
51 54 0.47
52 46 0.40
53 14 0.12
ACGTcount: A:0.31, C:0.27, G:0.11, T:0.31
Consensus pattern (51 bp):
CAATTTTCCACAATCGGGGATACTCCAACTCCGATATTATTTTCAAAACAC
Found at i:1465496 original size:28 final size:27
Alignment explanation
Indices: 1465426--1465501 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
1465416 ATTTTTCACA
*
1465426 ATCGAGGATACTCCAACCCCGTTAATC
1 ATCGGGGATACTCCAACCCCGTTAATC
*
1465453 ATCGGGGATACTCCAACCCCGTT-ATT
1 ATCGGGGATACTCCAACCCCGTTAATC
*
1465479 TTCGAGGGGATACTCCAACCCCG
1 ATC--GGGGATACTCCAACCCCG
1465502 ACTTTATTCA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 4 0.09
27 22 0.50
28 18 0.41
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.22
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTAATC
Found at i:1477114 original size:13 final size:13
Alignment explanation
Indices: 1477096--1477120 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1477086 ACATTATGCT
1477096 TTGTATCGATACC
1 TTGTATCGATACC
1477109 TTGTATCGATAC
1 TTGTATCGATAC
1477121 ATGATCATTG
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:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACC
Found at i:1477119 original size:33 final size:32
Alignment explanation
Indices: 1477077--1477139 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 32
1477067 CACATCTAGA
* *
1477077 TGTATCGATACATTATGCTTTGTATCGATACCT
1 TGTATCGATACATGAT-CATTGTATCGATACCT
1477110 TGTATCGATACATGATCATTGTATCGATAC
1 TGTATCGATACATGATCATTGTATCGATAC
1477140 TTACACAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATGATCATTGTATCGATACCT
Found at i:1477133 original size:19 final size:21
Alignment explanation
Indices: 1477109--1477163 Score: 71
Period size: 19 Copynumber: 2.8 Consensus size: 21
1477099 TATCGATACC
*
1477109 TTGTATCGATACATGA-TC-A
1 TTGTATCGATACATGACACAA
*
1477128 TTGTATCGATAC-TTACACAA
1 TTGTATCGATACATGACACAA
1477148 TTGTATCGATACATGA
1 TTGTATCGATACATGA
1477164 AACTGGCAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 2 0.07
19 13 0.43
20 13 0.43
21 2 0.07
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (21 bp):
TTGTATCGATACATGACACAA
Found at i:1477229 original size:33 final size:32
Alignment explanation
Indices: 1477192--1477256 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
1477182 TACCACTATT
1477192 TGTATCGATACATG-GCACATTGTATCGATACAA
1 TGTATCGATACATGAG-A-ATTGTATCGATACAA
1477225 TGTATCGATACATGAAGAATTGTATCGATACA
1 TGTATCGATACATG-AGAATTGTATCGATACA
1477257 TTGTCTCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 28 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.31
Consensus pattern (32 bp):
TGTATCGATACATGAGAATTGTATCGATACAA
Found at i:1477230 original size:13 final size:13
Alignment explanation
Indices: 1477212--1477236 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1477202 CATGGCACAT
1477212 TGTATCGATACAA
1 TGTATCGATACAA
1477225 TGTATCGATACA
1 TGTATCGATACA
1477237 TGAAGAATTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1478872 original size:15 final size:15
Alignment explanation
Indices: 1478852--1478886 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
1478842 AACCATCAAA
1478852 GATGATGAAGATAAT
1 GATGATGAAGATAAT
*
1478867 GATGATGATGATAAT
1 GATGATGAAGATAAT
1478882 GATGA
1 GATGA
1478887 AGTTGACTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (15 bp):
GATGATGAAGATAAT
Found at i:1479354 original size:15 final size:16
Alignment explanation
Indices: 1479314--1479355 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
1479304 AAATAAATCA
1479314 AAATTTGTTGAAAATG
1 AAATTTGTTGAAAATG
* *
1479330 AAA-TTCTTGATAA-G
1 AAATTTGTTGAAAATG
1479344 AAATTTGTTGAA
1 AAATTTGTTGAA
1479356 CTAGAAAGGG
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
14 4 0.19
15 14 0.67
16 3 0.14
ACGTcount: A:0.43, C:0.02, G:0.17, T:0.38
Consensus pattern (16 bp):
AAATTTGTTGAAAATG
Found at i:1483912 original size:79 final size:79
Alignment explanation
Indices: 1483752--1484813 Score: 1570
Period size: 79 Copynumber: 13.4 Consensus size: 79
1483742 AAAAAAAAAT
* ** * ** *
1483752 CGGGGTTAGAGTATCCCCGATTACAAAAAAATTGATGCTTTAGAAATAAGGGCCGGGCTTGGAGT
1 CGGGGTTGGAGTATCCCCGATTA-TGAAAAATTGATGTTTTAGAAATAA-AACCGGGGTTGGAGT
*
1483817 ATCCCCGT-GAAAATAA
64 ATCCCC-TCGGAAATAA
* * *
1483833 CGGGGTTGGAGTATCCCCGATTGTGAGAAATTGATGTTTTAGAAATAAAACCGGGGTTGAAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1483898 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
* * * *
1483912 CGGGGTTGGAGTATCCTCGATTATGAAAAATTGAAGTTTTAAAAATAAAACCGGGATTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
1483977 CCCCTCGAAAATAA
66 CCCCTCGGAAATAA
* * *
1483991 CGAGGTTGGAGTATCCACGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1484056 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
*
1484070 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
1484135 CGCCTCGGAAATAA
66 CCCCTCGGAAATAA
* *
1484149 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGAAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1484214 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
* * * ** *
1484228 CGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAATTGGGGTTAGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
1484293 CCTCTCGGAAATAA
66 CCCCTCGGAAATAA
**
1484307 TAGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1484372 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
* * *
1484386 CGGGGTTGGAGTATCCCCGATTATAAAAAATTGATGTTTTAGAGATCAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
* *
1484451 CTCCTCGAAAATAA
66 CCCCTCGGAAATAA
* ** * * *
1484465 CGGGGTTAGAGTATCCCTAATTATAAAAAATTGATGTTTTAGAGATAAAACCGGGGTTTGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
**
1484530 CCCCTCAAAAATAA
66 CCCCTCGGAAATAA
* * * *
1484544 CGGGGTTAGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAACCGGTGTTAGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
1484609 CCCCTTGGAAATAA
66 CCCCTCGGAAATAA
* *
1484623 TGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
1484688 CCCCTCGAAAATAA
66 CCCCTCGGAAATAA
*
1484702 CGGGGTTGGAGTATCCCCAATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1484767 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
* * *
1484781 C-GGGTTGGAGTATACCCGATTGTGAAAATTTGA
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGA
1484814 GAAAATTAAA
Statistics
Matches: 887, Mismatches: 93, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
78 29 0.03
79 816 0.92
80 21 0.02
81 21 0.02
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCGGAAATAA
Found at i:1485221 original size:35 final size:35
Alignment explanation
Indices: 1485175--1485372 Score: 351
Period size: 35 Copynumber: 5.7 Consensus size: 35
1485165 CACCCCGGAC
1485175 TCATTCCATGCCTTCATTTTTATATTCCATGCCCA
1 TCATTCCATGCCTTCATTTTTATATTCCATGCCCA
* *
1485210 TCATTCCATGCCTCCATTTTTATATTCCAGGCCCA
1 TCATTCCATGCCTTCATTTTTATATTCCATGCCCA
*
1485245 TCATTCCATGCCTTTATTTTTATATTCCATGCCCA
1 TCATTCCATGCCTTCATTTTTATATTCCATGCCCA
*
1485280 TCATTCCATGCCTTCATTTTTATATTCCATGCCCT
1 TCATTCCATGCCTTCATTTTTATATTCCATGCCCA
*
1485315 TCATTTCATGCCTTCATTTTTATATTCCATGCCCA
1 TCATTCCATGCCTTCATTTTTATATTCCATGCCCA
1485350 TCATTCCATGCCTTCATTTTTAT
1 TCATTCCATGCCTTCATTTTTAT
1485373 TATTTTTTTT
Statistics
Matches: 153, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 153 1.00
ACGTcount: A:0.19, C:0.30, G:0.06, T:0.44
Consensus pattern (35 bp):
TCATTCCATGCCTTCATTTTTATATTCCATGCCCA
Found at i:1485399 original size:12 final size:13
Alignment explanation
Indices: 1485379--1485407 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
1485369 TTATTATTTT
1485379 TTTTGAATTTTAA
1 TTTTGAATTTTAA
1485392 TTTT-AATTTTAA
1 TTTTGAATTTTAA
1485404 TTTT
1 TTTT
1485408 TGATTTTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (13 bp):
TTTTGAATTTTAA
Found at i:1485884 original size:40 final size:42
Alignment explanation
Indices: 1485838--1485941 Score: 115
Period size: 42 Copynumber: 2.5 Consensus size: 42
1485828 TCCCACTTTT
** *
1485838 TTGAGGACAAAGAAAAAGAGAATGAA-ATAG-GTCCTGCTCC
1 TTGAGGACAAAGAAAAAGAGAAAAAAGAAAGTGTCCTGCTCC
* *
1485878 TTGAGGACAAAGGAAAAGA-AAAAAAGGAAAGTGTCCTGCTTC
1 TTGAGGACAAAGAAAAAGAGAAAAAA-GAAAGTGTCCTGCTCC
1485920 TTGAGGACAAAGTGAAAAAGAG
1 TTGAGGACAAA--GAAAAAGAG
1485942 TACGTCCTGT
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
39 4 0.08
40 18 0.35
41 3 0.06
42 20 0.38
44 7 0.13
ACGTcount: A:0.45, C:0.12, G:0.27, T:0.16
Consensus pattern (42 bp):
TTGAGGACAAAGAAAAAGAGAAAAAAGAAAGTGTCCTGCTCC
Found at i:1486170 original size:61 final size:61
Alignment explanation
Indices: 1486075--1486278 Score: 263
Period size: 61 Copynumber: 3.3 Consensus size: 61
1486065 AAGAAGTGTG
* *
1486075 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGTCTTTGAAAAGAAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTAGTGTGGGCTTTGAAAAGAAAAGGCA
* * * *
1486136 TCCTGTTCTTTGAGGACAG-GAAGATGCCACCAACTAGTGTGGGATTTGCAAAA-AGAAA-GCA
1 TCCTGCTCTTTGAGGACTGAAAAG-TGCCACCAACTAGTGTGGGCTTTG-AAAAGA-AAAGGCA
* * *
1486197 TCATGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTAGTGTGGGCTTTGAAAA-GAAAAGGCA
1486258 TCCTGCTCTTTGAGGACTGAA
1 TCCTGCTCTTTGAGGACTGAA
1486279 GGTGAAAGGA
Statistics
Matches: 122, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
59 4 0.03
60 6 0.05
61 102 0.84
62 10 0.08
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (61 bp):
TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTAGTGTGGGCTTTGAAAAGAAAAGGCA
Found at i:1486473 original size:6 final size:6
Alignment explanation
Indices: 1486464--1486490 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1486454 TAAAAATCAA
1486464 AAATTC AAATTC AAATTC AAATTC AAA
1 AAATTC AAATTC AAATTC AAATTC AAA
1486491 AAAAAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (6 bp):
AAATTC
Found at i:1486536 original size:35 final size:35
Alignment explanation
Indices: 1486496--1486770 Score: 496
Period size: 35 Copynumber: 7.9 Consensus size: 35
1486486 TCAAAAAAAA
* *
1486496 ATAAAAATGAAGGCATGAAATGATGAGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
1486531 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
1486566 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
*
1486601 ATAAAAATGGAGGCATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
*
1486636 ATAAAAATGGAGGCATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
*
1486671 ATAAAAATGGAGGCATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
*
1486706 ATAAAAATGGAGGCATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
1486741 ATAAAAATGAAGGCATGGAATGATGGGCAT
1 ATAAAAATGAAGGCATGGAATGATGGGCAT
1486771 AAAAAAATGA
Statistics
Matches: 236, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 236 1.00
ACGTcount: A:0.42, C:0.06, G:0.32, T:0.20
Consensus pattern (35 bp):
ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
Found at i:1488305 original size:79 final size:79
Alignment explanation
Indices: 1488174--1488393 Score: 361
Period size: 79 Copynumber: 2.8 Consensus size: 79
1488164 TTTAATTTTC
* *
1488174 TCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCC-AGT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGA-T
*
1488238 TTTATTTCTAAAACA
65 TTTATCTCTAAAACA
* *
1488253 TCAATTTTTTATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCTCGATT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATT
1488318 TTATCTCTAAAACA
66 TTATCTCTAAAACA
* *
1488332 TCAATTTTTCATAATCGAGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCG
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCG
1488394 TTATTTTCGA
Statistics
Matches: 131, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
79 130 0.99
80 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (79 bp):
TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATT
TTATCTCTAAAACA
Found at i:1488397 original size:107 final size:107
Alignment explanation
Indices: 1488269--1488498 Score: 424
Period size: 107 Copynumber: 2.1 Consensus size: 107
1488259 TTTTATAATC
*
1488269 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCTCGATTTTATCTCTAAAACATC
1 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATCTCTAAAACATC
1488334 AATTTTTCATAATCGAGGATACTCCAACCCCATTATTTCCGA
66 AATTTTTCATAATCGAGGATACTCCAACCCCATTATTTCCGA
*
1488376 GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATCTCTAAAACATC
1 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATCTCTAAAACATC
* *
1488441 AATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGA
66 AATTTTTCATAATCGAGGATACTCCAACCCCATTATTTCCGA
1488483 GGGGATACTCCAACCC
1 GGGGATACTCCAACCC
1488499 TGGATTAATT
Statistics
Matches: 119, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
107 119 1.00
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATCTCTAAAACATC
AATTTTTCATAATCGAGGATACTCCAACCCCATTATTTCCGA
Found at i:1488421 original size:28 final size:28
Alignment explanation
Indices: 1488350--1488421 Score: 126
Period size: 28 Copynumber: 2.6 Consensus size: 28
1488340 TCATAATCGA
*
1488350 GGATACTCCAACCCCATTATTTCCGAGG
1 GGATACTCCAACCCCGTTATTTCCGAGG
*
1488378 GGATACTCCAACCCCGTTATTTTCGAGG
1 GGATACTCCAACCCCGTTATTTCCGAGG
1488406 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
1488422 ATTTTATCTC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTATTTCCGAGG
Found at i:1488459 original size:79 final size:79
Alignment explanation
Indices: 1488376--1488711 Score: 460
Period size: 79 Copynumber: 4.2 Consensus size: 79
1488366 TTATTTCCGA
*
1488376 GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATCTCTAAAACATC
1 GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACATC
1488441 AATTTTTCATAATC
66 AATTTTTCATAATC
* * *
1488455 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCTGGA-TTAATTTCTAAAACAT
1 GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCC-CGATTTTATTTCTAAAACAT
1488519 CAATTTTTCATAATC
65 CAATTTTTCATAATC
* *
1488534 GGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGGTTTTATTTCTAAAACATC
1 GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACATC
* *
1488599 AATTTCTCACAATC
66 AATTTTTCATAATC
* * * *** *
1488613 GGGGATACTCCAACCTCATTATTTTC-ACGGGGATACTTCAACCCCGGCCCTTATTTCTAAAGCA
1 GGGGATACTCCAACCCCGTTATTTTCGA-GGGGATACTCCAACCCC-GATTTTATTTCTAAAACA
*
1488677 TCAATTTTTTTATAATC
64 TCAA-TTTTTCATAATC
* *
1488694 GAGGATACTCTAACCCCG
1 GGGGATACTCCAACCCCG
1488712 ATTTTATTTT
Statistics
Matches: 226, Mismatches: 26, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
78 2 0.01
79 181 0.80
80 20 0.09
81 23 0.10
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.31
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACATC
AATTTTTCATAATC
Found at i:1488515 original size:186 final size:186
Alignment explanation
Indices: 1488190--1488579 Score: 667
Period size: 186 Copynumber: 2.1 Consensus size: 186
1488180 TTTCACAATC
*
1488190 GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAGTTTTATTTCTAAAACATC
1 GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAGTTTTATCTCTAAAACATC
* *
1488255 AATTTTTTATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCTCGATTTT
66 AATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCTCGATTTA
1488320 ATCTCTAAAACATCAATTTTTCATAATCGAGGATACTCCAACCCCATTATTTCCGA
131 ATCTCTAAAACATCAATTTTTCATAATCGAGGATACTCCAACCCCATTATTTCCGA
1488376 GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCC-GATTTTATCTCTAAAACAT
1 GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAG-TTTTATCTCTAAAACAT
*
1488440 CAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCTGGA-T
65 CAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAA-CCTCGATT
* * * *
1488504 TAATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGA
129 TAATCTCTAAAACATCAATTTTTCATAATCGAGGATACTCCAACCCCATTATTTCCGA
*
1488562 AGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
1488580 GTTTTATTTC
Statistics
Matches: 193, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
185 1 0.01
186 187 0.97
187 5 0.03
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (186 bp):
GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAGTTTTATCTCTAAAACATC
AATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCTCGATTTA
ATCTCTAAAACATCAATTTTTCATAATCGAGGATACTCCAACCCCATTATTTCCGA
Found at i:1488647 original size:265 final size:265
Alignment explanation
Indices: 1488174--1488658 Score: 792
Period size: 265 Copynumber: 1.8 Consensus size: 265
1488164 TTTAATTTTC
* *
1488174 TCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAGTT
1 TCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAGAT
* * *
1488239 TTATTTCTAAAACATCAATTTTTTATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATA
66 TAATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAAGGGATA
* * *
1488304 CTCCAACCTCGATTTTATCTCTAAAACATCAATTTTTCATAATCGAGGATACTCCAACCCCATTA
131 CTCCAACCCCGATTTTATCTCTAAAACATCAATTTCTCACAATCGAGGATACTCCAACCCCATTA
1488369 TTTCCGAGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATCTCTA
196 TTTCCGAGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATCTCTA
1488434 AAACA
261 AAACA
* **
1488439 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCTGGAT
1 TCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAGAT
*
1488504 TAATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAAGGGATA
66 TAATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAAGGGATA
* * * *
1488569 CTCCAACCCCGGTTTTATTTCTAAAACATCAATTTCTCACAATCGGGGATACTCCAACCTCATTA
131 CTCCAACCCCGATTTTATCTCTAAAACATCAATTTCTCACAATCGAGGATACTCCAACCCCATTA
* *
1488634 TTTTC-ACGGGGATACTTCAACCCCG
196 TTTCCGA-GGGGATACTCCAACCCCG
1488659 GCCCTTATTT
Statistics
Matches: 201, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
264 1 0.00
265 200 1.00
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (265 bp):
TCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAGAT
TAATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAAGGGATA
CTCCAACCCCGATTTTATCTCTAAAACATCAATTTCTCACAATCGAGGATACTCCAACCCCATTA
TTTCCGAGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATCTCTA
AAACA
Found at i:1490846 original size:4 final size:4
Alignment explanation
Indices: 1490837--1490873 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
1490827 TGTTTTGAGG
* *
1490837 TATT TATT TATT TATT TATT TATT TATC GATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT T
1490874 GTTTTGTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.70
Consensus pattern (4 bp):
TATT
Found at i:1501941 original size:61 final size:60
Alignment explanation
Indices: 1501840--1502217 Score: 427
Period size: 55 Copynumber: 6.5 Consensus size: 60
1501830 TCTTCCACTT
* *
1501840 TTCT-AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA-T
1 TTCTCAGTCCTCAAAGAGCAGGACG-C-TCTCCTTTCAAAGCCCACACAAGTTGGTGGCACC
* *
1501900 TTCTCAGTCCTCAAAGAGCAGGACGCTTTCTCCTTTTAAAGCCCACACAAGTTGGTGGC-GC
1 TTCTCAGTCCTCAAAGAGCAGGACGC--TCTCCTTTCAAAGCCCACACAAGTTGGTGGCACC
*
1501961 TTC-CTAGTCCTCAAAGAGCAGGACGC-CT--TTT-AAAGCCCACACAAGTTGGTGGCACT
1 TTCTC-AGTCCTCAAAGAGCAGGACGCTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACC
* * * *
1502017 TTTTTAGTCCTCAAAGAGCAGGACGCCTTCGCCTTTCAAAGCCCACAAAAGTTGGTGGCACC
1 TTCTCAGTCCTCAAAGAGCAGGACG-C-TCTCCTTTCAAAGCCCACACAAGTTGGTGGCACC
* *
1502079 TT-TCAGTCTTCAAAGAGCAGGACG----CCTTTCAAAGCTCACACAAGTTGGTGGCACC
1 TTCTCAGTCCTCAAAGAGCAGGACGCTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACC
* *
1502134 TT-TCAGTCCTCAAAGAGCAGGA----CTCCTTTTAAAGCCCACACAAGTTGGTGG-AAC
1 TTCTCAGTCCTCAAAGAGCAGGACGCTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACC
1502188 TTC-CTAGTCCTCAAAGAGCAGGACGCTCTC
1 TTCTC-AGTCCTCAAAGAGCAGGACGCTCTC
1502218 TCCTTTCACC
Statistics
Matches: 280, Mismatches: 18, Indels: 41
0.83 0.05 0.12
Matches are distributed among these distances:
54 5 0.02
55 115 0.41
56 25 0.09
57 1 0.00
58 2 0.01
59 4 0.01
60 6 0.02
61 97 0.35
62 25 0.09
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.25
Consensus pattern (60 bp):
TTCTCAGTCCTCAAAGAGCAGGACGCTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACC
Found at i:1502058 original size:117 final size:116
Alignment explanation
Indices: 1501842--1502213 Score: 499
Period size: 117 Copynumber: 3.2 Consensus size: 116
1501832 TTCCACTTTT
*
1501842 CTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTCTCA
1 CTAGTCCTCAAAGAGCAGGACGCC---T--TTT-AAAGCCCACACAAGTTGGTGGCACTTTTTCA
* *
1501906 GTCCTCAAAGAGCAGGACGCTTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCGCTTC
60 GTCCTCAAAGAGCAGGACGCCTTC-CCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
*
1501964 CTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTTTAGTCCTC
1 CTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTTCAGTCCTC
* * *
1502029 AAAGAGCAGGACGCCTTCGCCTTTCAAAGCCCACAAAAGTTGGTGGCACCTTT
66 AAAGAGCAGGACGCCTTC-CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTC
* * * *
1502082 C-AGTCTTCAAAGAGCAGGACGCCTTTCAAAGCTCACACAAGTTGGTGGCAC-CTTTCAGTCCTC
1 CTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTTCAGTCCTC
*
1502145 AAAGAGCAGGA---C-T-CCTTTTAAAGCCCACACAAGTTGGTGGAACTTC
66 AAAGAGCAGGACGCCTTCCCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
1502191 CTAGTCCTCAAAGAGCAGGACGC
1 CTAGTCCTCAAAGAGCAGGACGC
1502214 TCTCTCCTTT
Statistics
Matches: 229, Mismatches: 18, Indels: 18
0.86 0.07 0.07
Matches are distributed among these distances:
109 4 0.02
110 46 0.20
112 1 0.00
113 1 0.00
116 44 0.19
117 104 0.45
118 4 0.02
119 1 0.00
122 24 0.10
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (116 bp):
CTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTTCAGTCCTC
AAAGAGCAGGACGCCTTCCCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
Found at i:1502300 original size:99 final size:94
Alignment explanation
Indices: 1502130--1502309 Score: 256
Period size: 99 Copynumber: 1.9 Consensus size: 94
1502120 AAGTTGGTGG
1502130 CACCTTTCAGTCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGAACTTCCTAG
1 CACCTTTCAGTCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGAACTTCCTAG
1502195 TCCTCAAAGAGCAGGACGCTCTCTCCTTT
66 TCCTCAAAGAGCAGGACGCTCTCTCCTTT
* *
1502224 CACC-TTCAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCCCACAAGTTGGTGGCACT
1 CACCTTTCAGTCCTCAAAGAGCAGG--A-C---TCCTTTTAAAGCCCACACAAGTTGGTGGAACT
*
1502288 T-TTCAGTCCTCAAAGAGCAGGA
60 TCCT-AGTCCTCAAAGAGCAGGA
1502310 TGTTTTCTTT
Statistics
Matches: 76, Mismatches: 3, Indels: 9
0.86 0.03 0.10
Matches are distributed among these distances:
93 20 0.26
94 4 0.05
95 1 0.01
96 1 0.01
98 1 0.01
99 49 0.64
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (94 bp):
CACCTTTCAGTCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGAACTTCCTAG
TCCTCAAAGAGCAGGACGCTCTCTCCTTT
Found at i:1502340 original size:61 final size:59
Alignment explanation
Indices: 1502228--1502432 Score: 252
Period size: 61 Copynumber: 3.4 Consensus size: 59
1502218 TCCTTTCACC
* *
1502228 TTCAGTCCTCAAAGAGCAGGACACCTTTTCCTTTT-AAAGCCCCCACAAGTTGGTGGCACTT
1 TTCAGTCCTCAAAGAGCAGG--ACGTTTT-CTTTTCAAAGCCCACACAAGTTGGTGGCACTT
* * *
1502289 TTCAGTCCTCAAAGAGCAGGATGTTTTCTTTTTGCAAATCCCACACTAGTTGGTGGCA-TCT
1 TTCAGTCCTCAAAGAGCAGGACGTTTTC-TTTT-CAAAGCCCACACAAGTTGGTGGCACT-T
* *
1502350 TTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGACCACACGAGTTGGTGGCACTT
1 TTCAGTCCTCAAAGAGCAGGACG--TTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTT
*
1502411 TTCAGTCCTCAAAGAACAGGAC
1 TTCAGTCCTCAAAGAGCAGGAC
1502433 ACACTTCTTT
Statistics
Matches: 127, Mismatches: 10, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
58 1 0.01
59 9 0.07
60 1 0.01
61 106 0.83
62 5 0.04
63 5 0.04
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (59 bp):
TTCAGTCCTCAAAGAGCAGGACGTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTT
Found at i:1502625 original size:42 final size:40
Alignment explanation
Indices: 1502567--1502666 Score: 103
Period size: 42 Copynumber: 2.4 Consensus size: 40
1502557 GACGTACTCT
* *
1502567 TTTTCACTTTATCCTCAAGAAGCAAGACACT-TTCCTTTTCTTC
1 TTTTC-CTTTGTCCTCAAGAAGCAAGAC-CTATTCC-ATTC-TC
* * *
1502610 TTTTCCTTTGTCCTCAAGGAGCAGGACCTATTTCATTCTC
1 TTTTCCTTTGTCCTCAAGAAGCAAGACCTATTCCATTCTC
*
1502650 TTTTTCTTTGTCCTCAA
1 TTTTCCTTTGTCCTCAA
1502667 AAAAGTGGGA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
40 18 0.36
41 5 0.10
42 22 0.44
43 5 0.10
ACGTcount: A:0.19, C:0.27, G:0.10, T:0.44
Consensus pattern (40 bp):
TTTTCCTTTGTCCTCAAGAAGCAAGACCTATTCCATTCTC
Found at i:1503107 original size:6 final size:6
Alignment explanation
Indices: 1503098--1503124 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1503088 TAAAAATAAA
1503098 AAATTC AAATTC AAATTC AAATTC AAA
1 AAATTC AAATTC AAATTC AAATTC AAA
1503125 AAAAAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (6 bp):
AAATTC
Found at i:1503173 original size:35 final size:35
Alignment explanation
Indices: 1503133--1503372 Score: 453
Period size: 35 Copynumber: 6.9 Consensus size: 35
1503123 AAAAAAAATA
1503133 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
*
1503168 ATAAAAATGAAGGCATGGAATAATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
1503203 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
1503238 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
*
1503273 ATAAAAATGGAGGCATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
*
1503308 ATAAAAATGGAGGCATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
1503343 ATAAAAATGAAGGCATGGAATGATGGGCAT
1 ATAAAAATGAAGGCATGGAATGATGGGCAT
1503373 AAAAAAATGA
Statistics
Matches: 201, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 201 1.00
ACGTcount: A:0.42, C:0.06, G:0.32, T:0.20
Consensus pattern (35 bp):
ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
Found at i:1504906 original size:79 final size:79
Alignment explanation
Indices: 1504775--1505203 Score: 619
Period size: 79 Copynumber: 5.4 Consensus size: 79
1504765 TTTAATTTTC
* *
1504775 TCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAACCCCGGTT
*
1504840 TTATCTCTAAAACA
66 TTATTTCTAAAACA
1504854 TCAATTTTTCATAATCGGGGATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAACCCCGGTT
1504919 TTATTTCTAAAACA
66 TTATTTCTAAAACA
* * * * **
1504933 TCAATTTTTCATAATCGTGGATACTCCAACCCCGTTATTTCCAAGGAGATACTTTAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAACCCCGGTT
1504998 TTATTTCTAAAACA
66 TTATTTCTAAAACA
* *
1505012 TCAATTTTTCATAATCGGGGATACTCCAACCCTGTTATTTTCGAAGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAACCCCGGTT
1505077 TTATTTCTAAAACA
66 TTATTTCTAAAACA
* * * * *
1505091 TCAATTTCTCACAATCAGGGATGCTCTAACCCTGTTATTT-C-ACGGGGATACTCCAACCCCGGC
1 TCAATTTTTCATAATCGGGGATACTCCAACCCTGTTATTTCCGA-GGGGATACTCCAACCCCGG-
** *
1505154 CCTTATTTCTAAAAGA
64 TTTTATTTCTAAAACA
* *
1505170 TCAATTTTTTTTATAATCGGGGATACTCTAACCC
1 TCAA--TTTTTCATAATCGGGGATACTCCAACCC
1505204 CGATTTTATT
Statistics
Matches: 315, Mismatches: 31, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
77 1 0.00
78 19 0.06
79 272 0.86
81 23 0.07
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (79 bp):
TCAATTTTTCATAATCGGGGATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAACCCCGGTT
TTATTTCTAAAACA
Found at i:1506359 original size:62 final size:57
Alignment explanation
Indices: 1506227--1506391 Score: 237
Period size: 62 Copynumber: 2.9 Consensus size: 57
1506217 CGTTGCGACA
* *
1506227 CCACCAACTTGTGTGGGCTTTG-AAAGGCGTCCTGCTCTTTGAAGACT-GAAAGGTG
1 CCACCAACTTGTGTGGGCTTTGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTG
1506282 CCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTG
1 CCACCAACTTGTGTGGGCTTTG-AA----AAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTG
*
1506344 CCACCAACTTGTGTGGGCTTT-AAAAGGTGTCCTGCTCTTTGAGGACTA
1 CCACCAACTTGTGTGGGCTTTGAAAAGGCGTCCTGCTCTTTGAGGACTA
1506392 AGGGCGAAAG
Statistics
Matches: 100, Mismatches: 3, Indels: 13
0.86 0.03 0.11
Matches are distributed among these distances:
55 22 0.22
56 24 0.24
57 1 0.01
60 2 0.02
61 23 0.23
62 28 0.28
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (57 bp):
CCACCAACTTGTGTGGGCTTTGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTG
Found at i:1506556 original size:61 final size:61
Alignment explanation
Indices: 1506408--1506556 Score: 226
Period size: 61 Copynumber: 2.4 Consensus size: 61
1506398 AAAGGAGGGA
** * *
1506408 GCATCCTGCTCTTTGAGGACTAGGAAGCGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
1 GCATCCTGCTCTTTGAGGACTAAAAAACGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* * *
1506469 GCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
1 GCATCCTGCTCTTTGAGGACTAAAAAACGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
*
1506530 GCGTCCTGCTCTTTGAGGACTAAAAAA
1 GCATCCTGCTCTTTGAGGACTAAAAAA
1506557 GTGGAAGAAG
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
61 79 1.00
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (61 bp):
GCATCCTGCTCTTTGAGGACTAAAAAACGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
Found at i:1507733 original size:26 final size:26
Alignment explanation
Indices: 1507711--1507763 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
1507701 TTTAATATTT
*
1507711 TTTAACTTAAAT-TTATGTAAATATTAA
1 TTTAA-TTAAATATT-TATAAATATTAA
1507738 TTTAATTAAATATTTATAAATATTAA
1 TTTAATTAAATATTTATAAATATTAA
1507764 AAATTTTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (26 bp):
TTTAATTAAATATTTATAAATATTAA
Found at i:1508110 original size:23 final size:23
Alignment explanation
Indices: 1508082--1508125 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
1508072 TTCTTATTTT
*
1508082 TATATTAT-TTTGATATTATATTA
1 TATATTATATTT-ATATAATATTA
1508105 TATATTATATTTATATAATAT
1 TATATTATATTTATATAATAT
1508126 GATGTAATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (23 bp):
TATATTATATTTATATAATATTA
Found at i:1508125 original size:11 final size:11
Alignment explanation
Indices: 1508075--1508125 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
1508065 TAACTCATTC
*
1508075 TTATTTTTATA
1 TTATATTTATA
1508086 TTAT-TTTGATA
1 TTATATTT-ATA
1508097 TTATATTATATA
1 TTATATT-TATA
1508109 TTATATTTATA
1 TTATATTTATA
*
1508120 TAATAT
1 TTATAT
1508126 GATGTAATGG
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
10 3 0.08
11 20 0.56
12 12 0.33
13 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (11 bp):
TTATATTTATA
Found at i:1508720 original size:14 final size:14
Alignment explanation
Indices: 1508675--1508725 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
1508665 ATAAGAAAAA
*
1508675 TATTTTAATCTT-TA
1 TATTTTAAT-TTATG
1508689 TATTATTGAATTTA-G
1 TATT-TT-AATTTATG
1508704 TATTTTAATTTATG
1 TATTTTAATTTATG
1508718 TATTTTAA
1 TATTTTAA
1508726 AATTATTGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
13 6 0.19
14 15 0.47
15 8 0.25
16 3 0.09
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (14 bp):
TATTTTAATTTATG
Found at i:1508971 original size:15 final size:15
Alignment explanation
Indices: 1508953--1508988 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
1508943 TTTTATAATT
1508953 TTAAAAATATAAAAA
1 TTAAAAATATAAAAA
*
1508968 TTAATAATATAAAAA
1 TTAAAAATATAAAAA
1508983 TTAAAA
1 TTAAAA
1508989 TAAAATAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
TTAAAAATATAAAAA
Found at i:1509297 original size:13 final size:13
Alignment explanation
Indices: 1509281--1509305 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1509271 TATATTTTTA
1509281 ATATATATATTAT
1 ATATATATATTAT
1509294 ATATATATATTA
1 ATATATATATTA
1509306 AAAATTTATT
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:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATATATATATTAT
Found at i:1509920 original size:2 final size:2
Alignment explanation
Indices: 1509913--1509963 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
1509903 TTAATATAAG
1509913 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1509955 TA TA TA TA T
1 TA TA TA TA T
1509964 GGAGATTCAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1511160 original size:2 final size:2
Alignment explanation
Indices: 1511153--1511180 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1511143 TTAAAATTTC
1511153 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1511181 TTTAATTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1511538 original size:30 final size:31
Alignment explanation
Indices: 1511504--1511562 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
1511494 TAAAAATATT
1511504 ATTTT-ATTATATAAATAATA-ATTTAAATCG
1 ATTTTGATTATA-AAATAATATATTTAAATCG
*
1511534 ATTTTGATTATAAAATATTATATTTAAAT
1 ATTTTGATTATAAAATAATATATTTAAAT
1511563 ATTTAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 12 0.46
31 14 0.54
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (31 bp):
ATTTTGATTATAAAATAATATATTTAAATCG
Found at i:1514045 original size:6 final size:6
Alignment explanation
Indices: 1514034--1514058 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1514024 GGCCTTCAAT
1514034 GTAGGA GTAGGA GTAGGA GTAGGA G
1 GTAGGA GTAGGA GTAGGA GTAGGA G
1514059 AAGTACAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.52, T:0.16
Consensus pattern (6 bp):
GTAGGA
Found at i:1515081 original size:13 final size:14
Alignment explanation
Indices: 1515044--1515085 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
1515034 AATTATCCCT
*
1515044 ATATTATATATTTTA
1 ATATAATAT-TTTTA
1515059 ATATAATATTTTTA
1 ATATAATATTTTTA
*
1515073 ATA-ATTATTTTTA
1 ATATAATATTTTTA
1515086 TTTTTCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 9 0.36
14 8 0.32
15 8 0.32
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
ATATAATATTTTTA
Found at i:1528423 original size:22 final size:22
Alignment explanation
Indices: 1528372--1528425 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
1528362 AAACTATTAT
* * * *
1528372 TTTTTAAAATATTTTTATTTTA
1 TTTTTAAATTAATTTAATTTAA
*
1528394 -TTTAAAATTAATTTAATTTAA
1 TTTTTAAATTAATTTAATTTAA
1528415 TTTTTAAATTA
1 TTTTTAAATTA
1528426 TAAAAAAATA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTTTAAATTAATTTAATTTAA
Found at i:1529986 original size:27 final size:26
Alignment explanation
Indices: 1529956--1530009 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 26
1529946 TTTTGATATA
1529956 TTTA-TATATTTATATTTTATTTTATTT
1 TTTATTATA-TTATATTTTATTTT-TTT
1529983 TTTATTATATTATATTTTATTTTTTT
1 TTTATTATATTATATTTTATTTTTTT
1530009 T
1 T
1530010 CACATCGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 4 0.15
27 18 0.69
28 4 0.15
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (26 bp):
TTTATTATATTATATTTTATTTTTTT
Found at i:1529993 original size:22 final size:22
Alignment explanation
Indices: 1529965--1530007 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1529955 ATTTATATAT
*
1529965 TTATATTTTATTTTATTTTTTA
1 TTATATTATATTTTATTTTTTA
1529987 TTATATTATATTTTATTTTTT
1 TTATATTATATTTTATTTTTT
1530008 TTCACATCGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (22 bp):
TTATATTATATTTTATTTTTTA
Found at i:1530363 original size:24 final size:26
Alignment explanation
Indices: 1530336--1530384 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
1530326 TCACATTTTT
*
1530336 ATTTTTATATAATTT-TT-ATTTAAA
1 ATTTTTAAATAATTTATTCATTTAAA
*
1530360 ATTTTTAAATTATTTATTCATTTAA
1 ATTTTTAAATAATTTATTCATTTAA
1530385 TACAATGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 13 0.62
25 2 0.10
26 6 0.29
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (26 bp):
ATTTTTAAATAATTTATTCATTTAAA
Found at i:1530525 original size:25 final size:25
Alignment explanation
Indices: 1530497--1530547 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
1530487 ATATAGATAA
* **
1530497 TTTATCTATATATTTTTACTTATTG
1 TTTATCTATACAACTTTACTTATTG
1530522 TTTATCTATACAACTTTACTTATTG
1 TTTATCTATACAACTTTACTTATTG
1530547 T
1 T
1530548 CTTTAATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.25, C:0.12, G:0.04, T:0.59
Consensus pattern (25 bp):
TTTATCTATACAACTTTACTTATTG
Found at i:1534393 original size:23 final size:24
Alignment explanation
Indices: 1534367--1534415 Score: 82
Period size: 23 Copynumber: 2.1 Consensus size: 24
1534357 AAAAGTATAA
1534367 TTAAATATATTTATA-TAATTTAT
1 TTAAATATATTTATATTAATTTAT
*
1534390 TTAAATATATTTATATTATTTTAT
1 TTAAATATATTTATATTAATTTAT
1534414 TT
1 TT
1534416 TATTTTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 15 0.62
24 9 0.38
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
TTAAATATATTTATATTAATTTAT
Found at i:1534832 original size:21 final size:20
Alignment explanation
Indices: 1534789--1534841 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
1534779 AAGTGGATTG
* *
1534789 TAAATTTAATTATTTTTAAT
1 TAAATATAAATATTTTTAAT
1534809 T-AATAATAAATATTTTTAATT
1 TAAAT-ATAAATATTTTTAA-T
1534830 TAAATATAAATA
1 TAAATATAAATA
1534842 ATTAAATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 3 0.11
20 13 0.46
21 9 0.32
22 3 0.11
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TAAATATAAATATTTTTAAT
Found at i:1534892 original size:18 final size:18
Alignment explanation
Indices: 1534869--1534911 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
1534859 ATTTATTTTT
**
1534869 ATTAAATAAATAAATTTA
1 ATTAAATAAATAAAGGTA
* *
1534887 ATTAAACAAATTAAGGTA
1 ATTAAATAAATAAAGGTA
1534905 ATTAAAT
1 ATTAAAT
1534912 TTTTATTTTA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (18 bp):
ATTAAATAAATAAAGGTA
Found at i:1534976 original size:66 final size:65
Alignment explanation
Indices: 1534863--1534991 Score: 158
Period size: 66 Copynumber: 2.0 Consensus size: 65
1534853 AATTAAATTT
* *
1534863 ATTTTTATTAAATAAATAAATTTAATTAAACAAATTAAGGTAATTAAATTTT-TATTTTAAATCA
1 ATTTTTATTAAATAAATAAATTTAATTAAACAAATTAAGATAATTAAATTTTAAATTTTAAATCA
*
1534927 ATTTTATATTATAAT-AATAAAATTTAATTAAATTCAAATTAA-AT-TTTAAATTTTAAATTTTA
1 ATTTT-TATTA-AATAAAT-AAATTTAATTAAA--CAAATTAAGATAATTAAATTTTAAATTTTA
1534989 AAT
61 AAT
1534992 TTTACATTAC
Statistics
Matches: 56, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
64 5 0.09
65 8 0.14
66 25 0.45
67 10 0.18
68 8 0.14
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (65 bp):
ATTTTTATTAAATAAATAAATTTAATTAAACAAATTAAGATAATTAAATTTTAAATTTTAAATCA
Found at i:1534977 original size:7 final size:7
Alignment explanation
Indices: 1534965--1534995 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
1534955 TAAATTCAAA
1534965 TTAAATT
1 TTAAATT
1534972 TTAAATT
1 TTAAATT
1534979 TTAAATT
1 TTAAATT
1534986 TTAAATT
1 TTAAATT
1534993 TTA
1 TTA
1534996 CATTACCTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TTAAATT
Found at i:1535338 original size:16 final size:16
Alignment explanation
Indices: 1535314--1535347 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1535304 AAATAAATTT
*
1535314 ATAAATTATAACATAA
1 ATAAATTATAAAATAA
*
1535330 ATAATTTATAAAATAA
1 ATAAATTATAAAATAA
1535346 AT
1 AT
1535348 TATGAAACTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (16 bp):
ATAAATTATAAAATAA
Found at i:1539674 original size:52 final size:52
Alignment explanation
Indices: 1539583--1539681 Score: 146
Period size: 52 Copynumber: 1.9 Consensus size: 52
1539573 CCCGAAATAT
**
1539583 GAAAATTTGCCTGCATGTATCGATACATTTCATAATGTATCGATACATCTGA
1 GAAAATTTGCCTGCATGTATCGATACATAACATAATGTATCGATACATCTGA
* *
1539635 GAAAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 GAAAATTTGCCTGCATGTATCGATACATAACAT-AATGTATCGATACA
1539682 ATGTATCAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.05
52 40 0.95
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (52 bp):
GAAAATTTGCCTGCATGTATCGATACATAACATAATGTATCGATACATCTGA
Found at i:1543451 original size:10 final size:11
Alignment explanation
Indices: 1543429--1543457 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
1543419 GACGTTTTTA
1543429 TAAAAAATGTT
1 TAAAAAATGTT
1543440 TAAAAAAT-TT
1 TAAAAAATGTT
1543450 TAAAAAAT
1 TAAAAAAT
1543458 CATTTACTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (11 bp):
TAAAAAATGTT
Found at i:1544635 original size:23 final size:22
Alignment explanation
Indices: 1544605--1544673 Score: 69
Period size: 21 Copynumber: 3.3 Consensus size: 22
1544595 CTAGCCTTAT
1544605 TTTTTTCTACTTCTTTGT-TTT-TA
1 TTTTTTCT-C-TCTTT-TCTTTCTA
1544628 TTTTTTCTCTCTTTTCTTTCTA
1 TTTTTTCTCTCTTTTCTTTCTA
1544650 TTTTTT-TCT-TTTT-TTTCT-
1 TTTTTTCTCTCTTTTCTTTCTA
1544668 TTTTTT
1 TTTTTT
1544674 ATAAAACCTT
Statistics
Matches: 44, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
18 6 0.14
19 5 0.11
20 5 0.11
21 11 0.25
22 9 0.20
23 8 0.18
ACGTcount: A:0.04, C:0.14, G:0.01, T:0.80
Consensus pattern (22 bp):
TTTTTTCTCTCTTTTCTTTCTA
Found at i:1544661 original size:19 final size:18
Alignment explanation
Indices: 1544637--1544673 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
1544627 ATTTTTTCTC
1544637 TCTTTTCTTTCTATTTTTT
1 TCTTTTCTTTCT-TTTTTT
*
1544656 TCTTTTTTTTCTTTTTTT
1 TCTTTTCTTTCTTTTTTT
1544674 ATAAAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.84
Consensus pattern (18 bp):
TCTTTTCTTTCTTTTTTT
Found at i:1544663 original size:8 final size:9
Alignment explanation
Indices: 1544615--1544673 Score: 64
Period size: 9 Copynumber: 6.1 Consensus size: 9
1544605 TTTTTTCTAC
1544615 TTCTTTGTTT
1 TTCTTT-TTT
*
1544625 TTATTTTTT
1 TTCTTTTTT
*
1544634 CTCTCTTTTCT
1 -T-TCTTTTTT
1544645 TTCTATTTTT
1 TTCT-TTTTT
1544655 TTCTTTTTT
1 TTCTTTTTT
1544664 TTCTTTTTT
1 TTCTTTTTT
1544673 T
1 T
1544674 ATAAAACCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
9 21 0.50
10 15 0.36
11 6 0.14
ACGTcount: A:0.03, C:0.14, G:0.02, T:0.81
Consensus pattern (9 bp):
TTCTTTTTT
Found at i:1544663 original size:21 final size:21
Alignment explanation
Indices: 1544602--1544663 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 21
1544592 AAGCTAGCCT
* *
1544602 TATTTTTTTCTACTTCTTTGTTTT
1 TATTTTTTTCT--TT-TTTCTTTC
*
1544626 TATTTTTTCTCTCTTTTCTTTC
1 TATTTTTT-TCTTTTTTCTTTC
1544648 TATTTTTTTCTTTTTT
1 TATTTTTTTCTTTTTT
1544664 TTCTTTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
21 7 0.21
22 14 0.42
23 1 0.03
24 8 0.24
25 3 0.09
ACGTcount: A:0.06, C:0.15, G:0.02, T:0.77
Consensus pattern (21 bp):
TATTTTTTTCTTTTTTCTTTC
Found at i:1550084 original size:92 final size:91
Alignment explanation
Indices: 1549915--1550095 Score: 240
Period size: 92 Copynumber: 2.0 Consensus size: 91
1549905 CTTTCTTTTT
* * *
1549915 CCCTTATTTTTAGTAACTAAAACCTTTAACTATGAATGGGATATATGCTGAGTTCTTTTTCATTT
1 CCCTTATTTTTAGTAACTAAAACCTTTAACTATGAATGAGATATAT-CTAAGTTCTTTTTCATTC
**
1549980 AAAATTTTCTAGTTTTACATAATCTAA
65 AAAATTAGCTAGTTTTACATAATCTAA
*
1550007 CCCTTATTTTTAGTAACTAAAACCTTTAACTATGAATGAGATACCTAT-TAAGTTTTTTTTTCAT
1 CCCTTATTTTTAGTAACTAAAACCTTTAACTATGAATGAGATA--TATCTAAG-TTCTTTTTCAT
* *
1550071 TCAAGA-TAGCTAGTTTTACGTAATC
63 TCAAAATTAGCTAGTTTTACATAATC
1550096 CAAAGTCACA
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
92 61 0.78
93 14 0.18
94 3 0.04
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (91 bp):
CCCTTATTTTTAGTAACTAAAACCTTTAACTATGAATGAGATATATCTAAGTTCTTTTTCATTCA
AAATTAGCTAGTTTTACATAATCTAA
Found at i:1553669 original size:10 final size:11
Alignment explanation
Indices: 1553647--1553675 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
1553637 TGACGTTTTA
1553647 TAAAAAATGTT
1 TAAAAAATGTT
1553658 TAAAAAAT-TT
1 TAAAAAATGTT
1553668 TAAAAAAT
1 TAAAAAAT
1553676 CATTTACTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (11 bp):
TAAAAAATGTT
Found at i:1554827 original size:24 final size:21
Alignment explanation
Indices: 1554795--1554865 Score: 69
Period size: 21 Copynumber: 3.4 Consensus size: 21
1554785 AAAGCTAGCC
1554795 TTATTTTTTTCTACTTCTTTGTTT
1 TTATTTTTTTCT-C-TCTTT-TTT
1554819 TTA-TTTTTTCTCTCTTTTTT
1 TTATTTTTTTCTCTCTTTTTT
* *
1554839 CTATTTTTTTCT-T-TTTTTC
1 TTATTTTTTTCTCTCTTTTTT
1554858 TT-TTTTTT
1 TTATTTTTT
1554866 ATAAAACCTT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
18 6 0.14
19 6 0.14
20 6 0.14
21 13 0.30
22 1 0.02
23 8 0.19
24 3 0.07
ACGTcount: A:0.06, C:0.13, G:0.01, T:0.80
Consensus pattern (21 bp):
TTATTTTTTTCTCTCTTTTTT
Found at i:1554853 original size:8 final size:8
Alignment explanation
Indices: 1554816--1554864 Score: 53
Period size: 8 Copynumber: 5.6 Consensus size: 8
1554806 TACTTCTTTG
*
1554816 TTTTTATT
1 TTTTTCTT
1554824 TTTTCTCTCT
1 TTTT-TCT-T
1554834 TTTTTCTATT
1 TTTTTC--TT
1554844 TTTTTCTT
1 TTTTTCTT
1554852 TTTTTCTT
1 TTTTTCTT
1554860 TTTTT
1 TTTTT
1554865 TATAAAACCT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
8 19 0.53
9 4 0.11
10 12 0.33
11 1 0.03
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTCTT
Found at i:1554865 original size:9 final size:9
Alignment explanation
Indices: 1554809--1554865 Score: 62
Period size: 9 Copynumber: 6.2 Consensus size: 9
1554799 TTTTTTCTAC
1554809 TTCTTTGTTT
1 TTCTTT-TTT
*
1554819 TTATTTTTT
1 TTCTTTTTT
* *
1554828 CTCTCTTTT
1 TTCTTTTTT
1554837 TTCTATTTTT
1 TTCT-TTTTT
1554847 TTC-TTTTT
1 TTCTTTTTT
1554855 TTCTTTTTT
1 TTCTTTTTT
1554864 TT
1 TT
1554866 ATAAAACCTT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
8 8 0.21
9 19 0.49
10 12 0.31
ACGTcount: A:0.04, C:0.12, G:0.02, T:0.82
Consensus pattern (9 bp):
TTCTTTTTT
Found at i:1559466 original size:13 final size:13
Alignment explanation
Indices: 1559448--1559475 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1559438 ATACAAAGAT
1559448 CAATGTATCGATA
1 CAATGTATCGATA
1559461 CAATGTATCGATA
1 CAATGTATCGATA
1559474 CA
1 CA
1559476 TTGAATAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1559744 original size:13 final size:13
Alignment explanation
Indices: 1559726--1559751 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1559716 GGGAAATGGA
1559726 TTCTAACTTTTTC
1 TTCTAACTTTTTC
1559739 TTCTAACTTTTTC
1 TTCTAACTTTTTC
1559752 GTCCCCACGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.00, T:0.62
Consensus pattern (13 bp):
TTCTAACTTTTTC
Found at i:1561949 original size:31 final size:30
Alignment explanation
Indices: 1561912--1562168 Score: 230
Period size: 32 Copynumber: 8.1 Consensus size: 30
1561902 AATTCTTCAA
* *
1561912 ATCTCTTCTCAAAGCCCACGACTCAGTGGC
1 ATCTTTTCTCAAAGTCCACGACTCAGTGGC
*
1561942 AATCTCTTCTCAAAGTCCACGACTCAGTGGC
1 -ATCTTTTCTCAAAGTCCACGACTCAGTGGC
1561973 ATCCTTTTCTTCAAAGTCCACGACTCAGTGGC
1 AT-CTTTTC-TCAAAGTCCACGACTCAGTGGC
1562005 AT-TTTGTCTCAAAGTCCACGACTCAGTGGC
1 ATCTTT-TCTCAAAGTCCACGACTCAGTGGC
* * *
1562035 ATCCTTTTCTTCAAAGCCCACAACTCCGTGGC
1 AT-CTTTTC-TCAAAGTCCACGACTCAGTGGC
* * * * *
1562067 ACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGC
1 ATC-TTTTC---TCAAAGTCCACGACTCAGTGGC
**
1562101 ACTCTTTGTTCCTTTTAAGTCCACGACAT-AGTGGC
1 A-TC-TT-TT-C-TCAAAGTCCACGAC-TCAGTGGC
*
1562136 ATCTTGTCTCAAAGTCCACGACTCAGTGGC
1 ATCTTTTCTCAAAGTCCACGACTCAGTGGC
1562166 ATC
1 ATC
1562169 AAAGTCCACA
Statistics
Matches: 197, Mismatches: 15, Indels: 29
0.82 0.06 0.12
Matches are distributed among these distances:
29 1 0.01
30 50 0.25
31 40 0.20
32 53 0.27
33 2 0.01
34 25 0.13
35 22 0.11
36 3 0.02
37 1 0.01
ACGTcount: A:0.23, C:0.32, G:0.16, T:0.30
Consensus pattern (30 bp):
ATCTTTTCTCAAAGTCCACGACTCAGTGGC
Found at i:1562032 original size:62 final size:61
Alignment explanation
Indices: 1561920--1562168 Score: 257
Period size: 62 Copynumber: 3.9 Consensus size: 61
1561910 AAATCTCTTC
*
1561920 TCAAAGCCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATCCTTTTCT
1 TCAAAGCCCACGACTCAGTGGC-AT-TTTTCTCAAAGTCCACGACTCAGTGGCATCCTTTTCT
*
1561983 TCAAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCCTTTTCT
1 TCAAAGCCCACGACTCAGTGGCATTTT-TCTCAAAGTCCACGACTCAGTGGCATCCTTTTCT
* * * * * * *
1562045 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTGT
1 TCAAAGCCCACGACTCAGTGGCA--TTTTTC---TCAAAGTCCACGACTCAGTGGCA-TCCTT-T
1562110 TCCT
59 T-CT
** * *
1562114 TTTAAGTCCACGACAT-AGTGGCATCTTGTCTCAAAGTCCACGACTCAGTGGCATC
1 TCAAAGCCCACGAC-TCAGTGGCAT-TTTTCTCAAAGTCCACGACTCAGTGGCATC
1562169 AAAGTCCACA
Statistics
Matches: 155, Mismatches: 20, Indels: 21
0.79 0.10 0.11
Matches are distributed among these distances:
61 2 0.01
62 56 0.36
63 23 0.15
64 6 0.04
65 19 0.12
66 19 0.12
67 5 0.03
68 6 0.04
69 18 0.12
70 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.29
Consensus pattern (61 bp):
TCAAAGCCCACGACTCAGTGGCATTTTTCTCAAAGTCCACGACTCAGTGGCATCCTTTTCT
Found at i:1562090 original size:34 final size:34
Alignment explanation
Indices: 1562015--1562851 Score: 550
Period size: 34 Copynumber: 25.8 Consensus size: 34
1562005 ATTTTGTCTC
* * *
1562015 AAAGTCCACGACTCAGTGGCATCC-TTTTC--TTC
1 AAAGTCCACAACTCCGTGGCA-CCTTTTTCTTTTT
*
1562047 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
* *
1562081 AAAGCCCACAACTCCGTGGCACTCTTTGTTCCTTTT
1 AAAGTCCACAACTCCGTGGCAC-CTTT-TTCTTTTT
* * * * *
1562117 -AAGTCCACGACAT-AGTGGCATC-TTGTC---TC
1 AAAGTCCACAAC-TCCGTGGCACCTTTTTCTTTTT
* *
1562146 AAAGTCCACGACTCAGTGGCA------TC-----
1 AAAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
*
1562169 AAAGTCCACAACTCCGTGGCACTCTTTTTCCTTCTT
1 AAAGTCCACAACTCCGTGGCAC-CTTTTT-CTTTTT
* * *
1562205 AAAGTCCACGACTCCGTGACACC---TTCTTTTC
1 AAAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
* * *
1562236 AAAG-CCTACAACTCCCTGGCACTTTTTTTCCCTTTT
1 AAAGTCC-ACAACTCCGTGGCAC-CTTTTT-CTTTTT
* *
1562272 AAAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
** *
1562306 -AAGTCCATGACTCCGTGGCACC---TTCTTTTC
1 AAAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
*
1562336 AAAGCCCACAACTCCGTGGCACCTTTTTCTTATTT
1 AAAGTCCACAACTCCGTGGCACCTTTTTCTT-TTT
*
1562371 -AAGTCCACAACTCCGTGGCACCTTTTTCTTTTC
1 AAAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
* *
1562404 AAAGCCCACAACTCCGTGGCACTCTTTGTTCCTTTT
1 AAAGTCCACAACTCCGTGGCAC-CTTT-TTCTTTTT
** * * * *
1562440 -AAGTCCATGACAT-AGTGGCATC-TTGTC---TC
1 AAAGTCCACAAC-TCCGTGGCACCTTTTTCTTTTT
* *
1562469 AAAGTCCACGACTCAGTGGCA------TC-----
1 AAAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
*
1562492 AAAGTCCACAACTCCGTGGCACTCTTTTTCCTTCTT
1 AAAGTCCACAACTCCGTGGCAC-CTTTTT-CTTTTT
* * *
1562528 AAAGTCCACAACTCCGTGACA-C--ATTCTTTTC
1 AAAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
* *
1562559 AAAG-CCTACAACTCCCTGGCACTCTTTTTCCCTTTT
1 AAAGTCC-ACAACTCCGTGGCAC-CTTTTT-CTTTTT
* *
1562595 AAAGTCCACAACTCCGTGGCACCTTGTTC-ATTT
1 AAAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
* *
1562628 -AAGTCCATAACTCCGTGGCACC---TTCTTTTC
1 AAAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
* *
1562658 AAAGCCCACAACTCCATGGCACCTTTTTCTTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
*
1562692 TAAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
* * *
1562726 AAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTT
1 AAAGTCCACAACTCCGTGGCAC-CTTTTT-CTTTTT
* * *
1562762 AAAGTCCACGACTTCGTGGCACC---TTCTTTTC
1 AAAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
*
1562793 AAAGTCCACAACTCCGTGGCACCTTATTCTTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
* *
1562827 -AAGTCCACAACTTCGTGGCATCTTT
1 AAAGTCCACAACTCCGTGGCACCTTT
1562852 CACCCTTTCT
Statistics
Matches: 649, Mismatches: 87, Indels: 137
0.74 0.10 0.16
Matches are distributed among these distances:
23 38 0.06
25 4 0.01
29 7 0.01
30 49 0.08
31 107 0.16
32 54 0.08
33 52 0.08
34 152 0.23
35 60 0.09
36 122 0.19
37 4 0.01
ACGTcount: A:0.22, C:0.32, G:0.14, T:0.33
Consensus pattern (34 bp):
AAAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
Found at i:1562174 original size:23 final size:23
Alignment explanation
Indices: 1562144--1562189 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
1562134 GCATCTTGTC
*
1562144 TCAAAGTCCACGACTCAGTGGCA
1 TCAAAGTCCACAACTCAGTGGCA
*
1562167 TCAAAGTCCACAACTCCGTGGCA
1 TCAAAGTCCACAACTCAGTGGCA
1562190 CTCTTTTTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.30, C:0.33, G:0.20, T:0.17
Consensus pattern (23 bp):
TCAAAGTCCACAACTCAGTGGCA
Found at i:1562275 original size:67 final size:67
Alignment explanation
Indices: 1562167--1562739 Score: 309
Period size: 67 Copynumber: 8.8 Consensus size: 67
1562157 CTCAGTGGCA
* *
1562167 TCAAAGTCCACAACTCCGTGGCACTCTTTTTCCTTCTTAAAGTCCACGACTCCGTGACACCTTCT
1 TCAAAGTCCACAACTCCCTGGCACTCTTTTTCCTTCTTAAAGTCCACAACTCCGTGACACCTTCT
1562232 TT
66 TT
* *
1562234 TCAAAG-CCTACAACTCCCTGGCACTTTTTTTCCCTT-TTAAAGTCCACAACTCCGTGGCACCTT
1 TCAAAGTCC-ACAACTCCCTGGCACTCTTTTT-CCTTCTTAAAGTCCACAACTCCGTGACACCTT
*
1562297 GTTCCT
64 CTT--T
** ** * * * *
1562303 TTTAAGTCCATGACTCCGTGGCAC-CTTCTT--TTC--AAAGCCCACAACTCCGTGGCACCTTTT
1 TCAAAGTCCACAACTCCCTGGCACTCTTTTTCCTTCTTAAAGTCCACAACTCCGTGACACC---T
1562363 TCTTAT
63 TCTT-T
* * * *
1562369 T-TAAGTCCACAACTCCGTGGCAC-CTTTTT-CTT-TTCAAAGCCCACAACTCCGTGGCACTCTT
1 TCAAAGTCCACAACTCCCTGGCACTCTTTTTCCTTCTT-AAAGTCCACAACTCCGTGACAC-C-T
*
1562430 TGTTCCT
63 TCTT--T
** ** ** * * * *
1562437 TTTAAGTCCATGACAT-AGTGGCA-TC-TTGT-C-TC--AAAGTCCACGACTCAGTGGCA-----
1 TCAAAGTCCACAAC-TCCCTGGCACTCTTTTTCCTTCTTAAAGTCCACAACTCCGTGACACCTTC
1562490 ---
65 TTT
* *
1562490 TCAAAGTCCACAACTCCGTGGCACTCTTTTTCCTTCTTAAAGTCCACAACTCCGTGACACATTCT
1 TCAAAGTCCACAACTCCCTGGCACTCTTTTTCCTTCTTAAAGTCCACAACTCCGTGACACCTTCT
1562555 TT
66 TT
*
1562557 TCAAAG-CCTACAACTCCCTGGCACTCTTTTTCCCTT-TTAAAGTCCACAACTCCGTGGCACCTT
1 TCAAAGTCC-ACAACTCCCTGGCACTCTTTTT-CCTTCTTAAAGTCCACAACTCCGTGACACCTT
*
1562620 GTTCAT
64 CTT--T
* * * * * * *
1562626 T-TAAGTCCATAACTCCGTGGCAC-CTTCTT--TTC--AAAGCCCACAACTCCATGGCACCTTTT
1 TCAAAGTCCACAACTCCCTGGCACTCTTTTTCCTTCTTAAAGTCCACAACTCCGTGACACC---T
1562685 TCTTT
63 TCTTT
** * * *
1562690 TTTAAGTCCACAACTCCGTGGCAC-CTTTTT-CTTTTTAAAGCCCACAACTC
1 TCAAAGTCCACAACTCCCTGGCACTCTTTTTCCTTCTTAAAGTCCACAACTC
1562740 TGTGGCACTC
Statistics
Matches: 409, Mismatches: 50, Indels: 93
0.74 0.09 0.17
Matches are distributed among these distances:
52 1 0.00
53 16 0.04
54 2 0.00
55 3 0.01
56 1 0.00
57 2 0.00
59 18 0.04
63 21 0.05
64 26 0.06
65 71 0.17
66 14 0.03
67 122 0.30
68 70 0.17
69 39 0.10
70 3 0.01
ACGTcount: A:0.22, C:0.33, G:0.13, T:0.33
Consensus pattern (67 bp):
TCAAAGTCCACAACTCCCTGGCACTCTTTTTCCTTCTTAAAGTCCACAACTCCGTGACACCTTCT
TT
Found at i:1562488 original size:99 final size:98
Alignment explanation
Indices: 1562167--1562851 Score: 430
Period size: 99 Copynumber: 7.0 Consensus size: 98
1562157 CTCAGTGGCA
* * * *
1562167 TCAAAGTCCACAACTCCGTGGCACTCTTTTTCCTTCTT-AAAGTCCACGACTCCGTGACACCTTC
1 TCAAAGTCCACAACTCAGTGGCAC-CTTTTT-CTT-TTCAAAGTCCACAACTCCGTGGCACCTTT
** * *
1562231 TT--TTCAAAG-CCTACAACTCCCTGGCACTTTTTTTCCC
63 TTCCTTTTAAGTCC-ACAACTCCGTGGCAC-TCTTTT--C
* * * ** *
1562268 TTTTAAAGTCCACAACTCCGTGGCACCTTGTTCCTTTT--AAGTCCATGACTCCGTGGCACCTTC
1 --TCAAAGTCCACAACTCAGTGGCACCTT-TTTCTTTTCAAAGTCCACAACTCCGTGGCACCTTT
** *
1562331 TT--TTCAAAGCCCACAACTCCGTGGCAC-CTTTTTC
63 TTCCTTTTAAGTCCACAACTCCGTGGCACTC-TTTTC
* * *
1562365 TTATTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTT
1 TCA---AAGTCCACAACTCAGTGGCACCTTTTTCTTTTCAAAGTCCACAACTCCGTGGCAC-CTT
** * *
1562430 TGTTCCTTTTAAGTCCATGACAT-AGTGGCA-TCTTGTC
62 T-TTCCTTTTAAGTCCACAAC-TCCGTGGCACTCTTTTC
*
1562467 TCAAAGTCCACGACTCAGTGGCA-----------TCAAAGTCCACAACTCCGTGGCACTCTTTTT
1 TCAAAGTCCACAACTCAGTGGCACCTTTTTCTTTTCAAAGTCCACAACTCCGTGGCAC-CTTTTT
*
1562521 CCTTCTTAAAGTCCACAACTCCGTGACACAT-TCTTT-
65 CCTT-TT-AAGTCCACAACTCCGTGGCAC-TCT-TTTC
**
1562557 TCAAAG-CCTACAACTCCCTGGCACTCTTTTTCCCTTTT-AAAGTCCACAACTCCGTGGCACCTT
1 TCAAAGTCC-ACAACTCAGTGGCAC-CTTTTT--CTTTTCAAAGTCCACAACTCCGTGGCACCTT
* * * *
1562620 GTT-CATTTAAGTCCATAACTCCGTGGCAC-CTTCTTT
62 TTTCCTTTTAAGTCCACAACTCCGTGGCACTCTT-TTC
* **
1562656 TCAAAGCCCACAACTCCA-TGGCACCTTTTTCTTTTTTAAGTCCACAACTCCGTGGCACCTTTTT
1 TCAAAGTCCACAACT-CAGTGGCACCTTTTTCTTTTCAAAGTCCACAACTCCGTGGCACCTTTTT
* * *
1562720 CTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCC
65 CCTTTT-AAGTCCACAACTCCGTGGCACTC-TTTT--C
* * *
1562758 TTTTAAAGTCCACGACTTC-GTGGCACC---TTCTTTTCAAAGTCCACAACTCCGTGGCACCTTA
1 --TCAAAGTCCACAAC-TCAGTGGCACCTTTTTCTTTTCAAAGTCCACAACTCCGTGGCACCTTT
* *
1562819 TTCTTTTTAAGTCCACAACTTCGTGGCA-TCTTT
63 TTCCTTTTAAGTCCACAACTCCGTGGCACTCTTT
1562852 CACCCTTTCT
Statistics
Matches: 479, Mismatches: 52, Indels: 107
0.75 0.08 0.17
Matches are distributed among these distances:
87 6 0.01
88 31 0.06
89 16 0.03
90 18 0.04
91 3 0.01
95 3 0.01
96 5 0.01
97 35 0.07
98 39 0.08
99 97 0.20
100 74 0.15
101 49 0.10
102 17 0.04
103 64 0.13
104 21 0.04
105 1 0.00
ACGTcount: A:0.21, C:0.32, G:0.13, T:0.34
Consensus pattern (98 bp):
TCAAAGTCCACAACTCAGTGGCACCTTTTTCTTTTCAAAGTCCACAACTCCGTGGCACCTTTTTC
CTTTTAAGTCCACAACTCCGTGGCACTCTTTTC
Found at i:1562497 original size:23 final size:23
Alignment explanation
Indices: 1562467--1562512 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
1562457 GCATCTTGTC
*
1562467 TCAAAGTCCACGACTCAGTGGCA
1 TCAAAGTCCACAACTCAGTGGCA
*
1562490 TCAAAGTCCACAACTCCGTGGCA
1 TCAAAGTCCACAACTCAGTGGCA
1562513 CTCTTTTTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.30, C:0.33, G:0.20, T:0.17
Consensus pattern (23 bp):
TCAAAGTCCACAACTCAGTGGCA
Found at i:1562767 original size:135 final size:131
Alignment explanation
Indices: 1562493--1562883 Score: 405
Period size: 135 Copynumber: 2.9 Consensus size: 131
1562483 AGTGGCATCA
* * * *
1562493 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTCTTAAAGTCCACAACTCCGTGACA-C--ATTCT
1 AAGTCCACAACTCCGTGGCAC-CTTCTT--TTC--AAAGCCCACAACTCCATGGCACCTTATTCT
* * *
1562555 TTTCAAAG-CCTACAACTCCCTGGCACTCTTTTTCCCTTTTAAAGTCCACAACTCCGTGGCACCT
61 TTT-TAAGTCC-ACAACTCCGTGGCAC-CTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACCT
1562619 TGTTCATTT
123 TGTTCATTT
* *
1562628 AAGTCCATAACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCATGGCACCTTTTTCTTTTTT
1 AAGTCCACAACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCATGGCACCTTATTC-TTTTT
* * *
1562693 AAGTCCACAACTCCGTGGCACCTTTTT-CTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCC
65 AAGTCCACAACTCCGTGGCACCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCAC-CTTGTT--
*
1562757 CTTTT
127 CATTT
* * * *
1562762 AAAGTCCACGACTTCGTGGCACCTTCTTTTCAAAGTCCACAACTCCGTGGCACCTTATTCTTTTT
1 -AAGTCCACAACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCATGGCACCTTATTCTTTTT
* * ** * *
1562827 AAGTCCACAACTTCGTGGCATCTTTCACCCTTTCTAAAGCCACACAAGTCGGTGGCA
65 AAGTCCACAACTCCGTGGCACCTTTTTCCCTTT-TAAAGCC-CACAACTCCGTGGCA
1562884 AACCTTCTCT
Statistics
Matches: 218, Mismatches: 26, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
130 18 0.08
131 26 0.12
132 14 0.06
133 20 0.09
134 43 0.20
135 77 0.35
136 7 0.03
137 13 0.06
ACGTcount: A:0.22, C:0.32, G:0.13, T:0.33
Consensus pattern (131 bp):
AAGTCCACAACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCATGGCACCTTATTCTTTTTA
AGTCCACAACTCCGTGGCACCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACCTTGTTCATT
T
Found at i:1562769 original size:323 final size:323
Alignment explanation
Indices: 1562052--1562813 Score: 1330
Period size: 323 Copynumber: 2.4 Consensus size: 323
1562042 TCTTCAAAGC
1562052 CCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTGTTCCTTTT
1 CCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTGTTCCTTTT
1562117 AAGTCCACGACATAGTGGCATCTTGTCTCAAAGTCCACGACTCAGTGGCATCAAAGTCCACAACT
66 AAGTCCACGACATAGTGGCATCTTGTCTCAAAGTCCACGACTCAGTGGCATCAAAGTCCACAACT
* *
1562182 CCGTGGCACTCTTTTTCCTTCTTAAAGTCCACGACTCCGTGACACCTTCTTTTCAAAGCCTACAA
131 CCGTGGCACTCTTTTTCCTTCTTAAAGTCCACAACTCCGTGACACATTCTTTTCAAAGCCTACAA
* *
1562247 CTCCCTGGCACTTTTTTTCCCTTTTAAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCC
196 CTCCCTGGCACTCTTTTTCCCTTTTAAAGTCCACAACTCCGTGGCACCTTGTTCCATTTAAGTCC
* *
1562312 ATGACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTATTTAAGT
261 ATAACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCATGGCACCTTTTTCTTATTTAAGT
*
1562375 CCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTGTTCCTTTT
1 CCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTGTTCCTTTT
*
1562440 AAGTCCATGACATAGTGGCATCTTGTCTCAAAGTCCACGACTCAGTGGCATCAAAGTCCACAACT
66 AAGTCCACGACATAGTGGCATCTTGTCTCAAAGTCCACGACTCAGTGGCATCAAAGTCCACAACT
1562505 CCGTGGCACTCTTTTTCCTTCTTAAAGTCCACAACTCCGTGACACATTCTTTTCAAAGCCTACAA
131 CCGTGGCACTCTTTTTCCTTCTTAAAGTCCACAACTCCGTGACACATTCTTTTCAAAGCCTACAA
1562570 CTCCCTGGCACTCTTTTTCCCTTTTAAAGTCCACAACTCCGTGGCACCTTGTT-CATTTAAGTCC
196 CTCCCTGGCACTCTTTTTCCCTTTTAAAGTCCACAACTCCGTGGCACCTTGTTCCATTTAAGTCC
*
1562634 ATAACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCATGGCACCTTTTTCTTTTTTAAGT
261 ATAACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCATGGCACCTTTTTCTTATTTAAGT
*
1562697 CCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTT-TTCCCTTT
1 CCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTGTT-CCTTT
* * * * * * *
1562761 TAAAGTCCACGACTTCGTGGCACCTTCTTTTCAAAGTCCACAACTCCGTGGCA
65 T-AAGTCCACGACATAGTGGCATCTT-GTCTCAAAGTCCACGACTCAGTGGCA
1562814 CCTTATTCTT
Statistics
Matches: 417, Mismatches: 19, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
321 2 0.00
322 130 0.31
323 263 0.63
324 22 0.05
ACGTcount: A:0.22, C:0.32, G:0.14, T:0.33
Consensus pattern (323 bp):
CCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTGTTCCTTTT
AAGTCCACGACATAGTGGCATCTTGTCTCAAAGTCCACGACTCAGTGGCATCAAAGTCCACAACT
CCGTGGCACTCTTTTTCCTTCTTAAAGTCCACAACTCCGTGACACATTCTTTTCAAAGCCTACAA
CTCCCTGGCACTCTTTTTCCCTTTTAAAGTCCACAACTCCGTGGCACCTTGTTCCATTTAAGTCC
ATAACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCATGGCACCTTTTTCTTATTTAAGT
Found at i:1562903 original size:101 final size:101
Alignment explanation
Indices: 1562697--1562903 Score: 239
Period size: 101 Copynumber: 2.0 Consensus size: 101
1562687 TTTTTTAAGT
* **
1562697 CCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTT
1 CCACAACTCCGTGGCACCTTATTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTCACCCTTTT
* * *
1562762 AAAGTCCACGACTTCGTGGCACCTTCTTTTCAAAGT
66 AAAGTCCACGACGTCGTGGCACCTTCTTCTCAAAGC
*
1562798 CCACAACTCCGTGGCACCTTATTCTTTTT-AAGTCCACAACT-TCGTGGCA-TCTTTCACCCTTT
1 CCACAACTCCGTGGCACCTTATTCTTTTTAAAGCCCACAACTCT-GTGGCACTCTTTCACCCTTT
1562860 CTAAAG-CCAC-ACAAGTCGGTGGCAAACCTTC-TCT-AAAGC
65 -TAAAGTCCACGAC--GTC-GTGGC--ACCTTCTTCTCAAAGC
1562899 CCACA
1 CCACA
1562904 CAAGTCGGTG
Statistics
Matches: 92, Mismatches: 7, Indels: 14
0.81 0.06 0.12
Matches are distributed among these distances:
98 2 0.02
99 16 0.17
100 24 0.26
101 42 0.46
102 2 0.02
103 6 0.07
ACGTcount: A:0.23, C:0.33, G:0.13, T:0.31
Consensus pattern (101 bp):
CCACAACTCCGTGGCACCTTATTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTCACCCTTTT
AAAGTCCACGACGTCGTGGCACCTTCTTCTCAAAGC
Found at i:1562908 original size:33 final size:32
Alignment explanation
Indices: 1562855--1563097 Score: 359
Period size: 33 Copynumber: 7.5 Consensus size: 32
1562845 CATCTTTCAC
1562855 CCTT-TCTAAAG-CCACACAAGTCGGTGGCAAA
1 CCTTCTCTAAAGCCCACACAAGTCGGTGGC-AA
1562886 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
1 CCTTCTCTAAAGCCCACACAAGTCGGTGGC-AA
1562919 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
1 -CCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
*
1562952 CCTTCTTCTAAAGCCCGCACAAGTCGGTGGCAA
1 CCTTC-TCTAAAGCCCACACAAGTCGGTGGCAA
*
1562985 CCTTCTTCCAAAGCCCACACAAGTCGGTGGCAA
1 CCTTC-TCTAAAGCCCACACAAGTCGGTGGCAA
*
1563018 CCTTCTTTCAAAGCCCACACAAGTCGGTGGCAA
1 CCTTCTCT-AAAGCCCACACAAGTCGGTGGCAA
1563051 CCATTCTCTAAAGCCCACACAAGTCGGTGGCAA
1 CC-TTCTCTAAAGCCCACACAAGTCGGTGGCAA
*
1563084 CCCT-TCT-AAGCCCA
1 CCTTCTCTAAAGCCCA
1563098 ATGTAGCTGG
Statistics
Matches: 199, Mismatches: 7, Indels: 13
0.91 0.03 0.06
Matches are distributed among these distances:
30 7 0.04
31 7 0.04
32 14 0.07
33 136 0.68
34 35 0.18
ACGTcount: A:0.28, C:0.35, G:0.18, T:0.19
Consensus pattern (32 bp):
CCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
Found at i:1563153 original size:43 final size:43
Alignment explanation
Indices: 1563085--1563409 Score: 299
Period size: 49 Copynumber: 7.1 Consensus size: 43
1563075 CGGTGGCAAC
* * * *
1563085 CCTTCTAAGCCCAATGTAGCTGGCCTTGAATCATCACATTGGCA
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
* * *
1563129 CCTTTAAGTCTAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG------CA
* *
1563178 CCTTTAAGTCCAATATCGCCGGCCTTGAATCAGCATATTGGCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
* * *
1563221 TCTTCATCTTTGAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
1 ----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
*
1563270 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
* * * *
1563313 TCTTCATCTTTAAGACCAATGTAGCTGGCCTTGAATTAGCACATTGGCA
1 ----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
* * *
1563362 CCTTTGAGTCCAATATAGCTGGCTTTGAATCAGTATATTGGCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
1563405 CCTTT
1 CCTTT
1563410 TCCATCTTTA
Statistics
Matches: 232, Mismatches: 31, Indels: 37
0.77 0.10 0.12
Matches are distributed among these distances:
43 110 0.47
44 4 0.02
45 2 0.01
47 2 0.01
49 114 0.49
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (43 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
Found at i:1563184 original size:49 final size:49
Alignment explanation
Indices: 1563127--1563511 Score: 310
Period size: 49 Copynumber: 7.9 Consensus size: 49
1563117 ATCACATTGG
* *
1563127 CACCTTTAAGTCTAATATCGTTGGCCTTGAATCAGCATATTGGCACCTT
1 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
* *
1563176 CACCTTTAAGTCCAATATCGCCGGCCTTGAATCAGCATATTGGCATCTT
1 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * * * *
1563225 CATCTTTGAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG------
1 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
*
1563268 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTT
1 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * * * * *
1563317 CATCTTTAAGACCAATGTAGCTGGCCTTGAATTAGCACATTGG------
1 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * * *
1563360 CACCTTTGAGTCCAATATAGCTGGCTTTGAATCAGTATATTGGCACCTTTT
1 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--TT
* * * * **
1563411 CCATCTTTAAGTTCAA-AGTAGCTGGCCTTGAATCAGCACATTAACATCCTTTTTCT
1 -CACCTTTAAGTCCAATA-TCGCTGGCCTTGAATCAGCATATTGGCA-CC----T-T
* * * * *
1563467 CATCTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCA
1 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1563512 TCTTTATCAC
Statistics
Matches: 269, Mismatches: 46, Indels: 36
0.77 0.13 0.10
Matches are distributed among these distances:
43 73 0.27
49 119 0.44
51 1 0.00
52 35 0.13
53 2 0.01
55 37 0.14
56 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (49 bp):
CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
Found at i:1563272 original size:92 final size:92
Alignment explanation
Indices: 1563176--1563452 Score: 428
Period size: 92 Copynumber: 3.0 Consensus size: 92
1563166 TTGGCACCTT
* *
1563176 CACCTTTAAGTCCAATATCGCCGGCCTTGAATCAGCATATTGGCATCTTCATCTTTGAGTCCAAT
1 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAAT
1563241 GTAGCTGGCCTTGAATCAGCACATTGG
66 GTAGCTGGCCTTGAATCAGCACATTGG
*
1563268 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGACCAAT
1 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAAT
*
1563333 GTAGCTGGCCTTGAATTAGCACATTGG
66 GTAGCTGGCCTTGAATCAGCACATTGG
* * * * * *
1563360 CACCTTTGAGTCCAATATAGCTGGCTTTGAATCAGTATATTGGCACCTTTTCCATCTTTAAGTTC
1 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCC
*
1563425 AAAGTAGCTGGCCTTGAATCAGCACATT
63 AATGTAGCTGGCCTTGAATCAGCACATT
1563453 AACATCCTTT
Statistics
Matches: 169, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
92 129 0.76
94 3 0.02
95 37 0.22
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.32
Consensus pattern (92 bp):
CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAAT
GTAGCTGGCCTTGAATCAGCACATTGG
Found at i:1563359 original size:141 final size:135
Alignment explanation
Indices: 1563095--1563409 Score: 441
Period size: 141 Copynumber: 2.3 Consensus size: 135
1563085 CCTTCTAAGC
* * *
1563095 CCAATGTAGCTGGCCTTGAATCATCACATTGGCACCTTTAAGTCTAATATCGTTGGCCTTGAATC
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATC
* * *
1563160 AGCATATTGGCACCTTCACCTTTAAGTCCAATATCGCCGGCCTTGAATCAGCATATTGGCATCTT
66 AGCATATTGGCACCTTCACCTTTAAGACCAATATAGCCGGCCTTGAATCAGCACATTGGCA----
1563225 CATCTTTGAGT
127 C--CTTTGAGT
1563236 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATC
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATC
* * * * *
1563301 AGCATATTGGCATCTTCATCTTTAAGACCAATGTAGCTGGCCTTGAATTAGCACATTGGCACCTT
66 AGCATATTGGCACCTTCACCTTTAAGACCAATATAGCCGGCCTTGAATCAGCACATTGGCACCTT
1563366 TGAGT
131 TGAGT
* * * *
1563371 CCAATATAGCTGGCTTTGAATCAGTATATTGGCACCTTT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTT
1563410 TCCATCTTTA
Statistics
Matches: 159, Mismatches: 15, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
135 43 0.27
137 1 0.01
141 115 0.72
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (135 bp):
CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATC
AGCATATTGGCACCTTCACCTTTAAGACCAATATAGCCGGCCTTGAATCAGCACATTGGCACCTT
TGAGT
Found at i:1564413 original size:13 final size:13
Alignment explanation
Indices: 1564395--1564419 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1564385 CATAAAGTGT
1564395 TGTATCGATACAA
1 TGTATCGATACAA
1564408 TGTATCGATACA
1 TGTATCGATACA
1564420 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1564413 original size:33 final size:33
Alignment explanation
Indices: 1564375--1564441 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1564365 TTCAACAATT
1564375 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
1564408 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
1564441 T
1 T
1564442 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:1564500 original size:13 final size:13
Alignment explanation
Indices: 1564482--1564506 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1564472 ATTACTCAAA
1564482 TGTATCGATACAT
1 TGTATCGATACAT
1564495 TGTATCGATACA
1 TGTATCGATACA
1564507 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1564571 original size:52 final size:52
Alignment explanation
Indices: 1564515--1564635 Score: 206
Period size: 52 Copynumber: 2.3 Consensus size: 52
1564505 CACTGATCTT
*
1564515 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* * *
1564567 TGTATCGATATATGCAGGCAAATTTGCCTAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1564619 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
1564636 ATTTCGGGAC
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 64 1.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.31
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1568045 original size:49 final size:49
Alignment explanation
Indices: 1567957--1568765 Score: 426
Period size: 39 Copynumber: 17.5 Consensus size: 49
1567947 TGTGCGGAGA
* * * *
1567957 CAAGGCCAGCGACATTGGGCTTAGGAATGTTAAAGATGCCAATATGCTGATT
1 CAAGGCCAGCGATATTGGACTTA--AA-GATGAAGATGCCAATATGCTGATT
* * * *
1568009 CAAGGCCAACAATATCGGACTTAAAGATGAAGATGCCAATGTGCTGATT
1 CAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATATGCTGATT
* * * * * *
1568058 CAAGGCCAGTGACATTGGTCTTAGAGATGACGAAGGTGCCAATATGTTGATT
1 CAAGGCCAGCGATATTGGACTTA-A-A-GATGAAGATGCCAATATGCTGATT
* *
1568110 CAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATT
1 CAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATATGCTGATT
* * * * *
1568159 CAAGGCCGGCAACATTGGACTTAAAGATGATAAAGACGCCAATATGTTGATT
1 CAAGGCCAGCGATATTGGACTTAAAGATG---AAGATGCCAATATGCTGATT
* * *
1568211 CAAGGCCAACGATATTAGAC-T-----T---G-TGCCAATGTGCTGATT
1 CAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATATGCTGATT
* ** * * *
1568250 CAAGGCCAGCGACATTGTTCTTAAGGA-CAAGGTGCCAATATGCTGATT
1 CAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATATGCTGATT
* * *
1568298 CAAGGCTAGCGATATTGGGCTT---G-T---G-T--CAATGTGCTGATT
1 CAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATATGCTGATT
* * * * *
1568337 CAAGGCCAGCGACATTGGTCTTAGAGA-CAAGGTGCCAATATGCTGATT
1 CAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATATGCTGATT
* * * * *
1568385 TAAGGCCGGCGATATTGG-GTT-----T---G-TGCCAATGTGTTGATT
1 CAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATATGCTGATT
* * * * *
1568424 CAAGGCCAGCGACATTGGTCTTAGAGA-CAAGGTGCCAATATGCTGATT
1 CAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATATGCTGATT
* * * * *
1568472 TAAGGCCAACGATATTGG-GTT-----T---G-CGCCAATGTGCTGATT
1 CAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATATGCTGATT
* * * *
1568511 CAAGGCCAGCAACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGATT
1 CAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATATGCTGATT
* *
1568560 CAAGGCCAGCGATATTGGGC-T-----T---G-TGCCAATGTGCTGATT
1 CAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATATGCTGATT
* *
1568599 CAAGGCTAGCGATATTGGACTT-AA-A-G--G-TGCCAATGTGCTGATT
1 CAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATATGCTGATT
* * * *
1568642 CAAGGCCAGCGATATTGGTCTTAAAGA-CAAGGTGCCAATATGTTGATT
1 CAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATATGCTGATT
* * ** * *
1568690 CAAGGCTAGCGATATTGG-GTTCTAGATGGTAAAGGTGCCAATATGCTAATT
1 CAAGGCCAGCGATATTGGACTTAAAGAT-G--AAGATGCCAATATGCTGATT
* *
1568741 TAAGGCCAACGATATTGGACTTAAA
1 CAAGGCCAGCGATATTGGACTTAAA
1568766 TGTGCCACGG
Statistics
Matches: 590, Mismatches: 103, Indels: 128
0.72 0.13 0.16
Matches are distributed among these distances:
39 149 0.25
40 10 0.02
41 1 0.00
42 2 0.00
43 38 0.06
44 2 0.00
45 4 0.01
46 2 0.00
47 12 0.02
48 122 0.21
49 116 0.20
50 4 0.01
51 36 0.06
52 92 0.16
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (49 bp):
CAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATATGCTGATT
Found at i:1568081 original size:101 final size:101
Alignment explanation
Indices: 1567913--1568765 Score: 397
Period size: 87 Copynumber: 9.2 Consensus size: 101
1567903 GCTGATTCGT
* ** * * * ** *
1567913 GGCCAACGACATTAGACTTAAAGAAG-A-ATGCTAATGTGCGGAGACAAGGCCAGCGACATTGGG
1 GGCCAACGATATCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGA
* *
1567976 CTTAG-GAATGTTAAAGATGCCAATATGCTGATTCAA
66 CTTAGAG-ATGATAAAGATGCCAATATGTTGATTCAA
* * *
1568012 GGCCAACAATATCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGTGACATTGGT
1 GGCCAACGATATCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGA
** *
1568077 CTTAGAGATGACGAAGGTGCCAATATGTTGATTCAA
66 CTTAGAGATGATAAAGATGCCAATATGTTGATTCAA
* * * * *
1568113 GGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCGGCAACATTGGA
1 GGCCAACGATATCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGA
* *
1568178 CTTAAAGATGATAAAGACGCCAATATGTTGATTCAA
66 CTTAGAGATGATAAAGATGCCAATATGTTGATTCAA
** **
1568214 GGCCAACGATATTAGAC-T-----T---G-TGCCAATGTGCTGATTCAAGGCCAGCGACATTGTT
1 GGCCAACGATATCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGA
* * *
1568269 CTTA-AG--GA-CAAGGTGCCAATATGCTGATTCAA
66 CTTAGAGATGATAAAGATGCCAATATGTTGATTCAA
* * * * *
1568301 GGCTAGCGATATTGGGCTT---G-T---G-T--CAATGTGCTGATTCAAGGCCAGCGACATTGGT
1 GGCCAACGATATCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGA
* * * *
1568356 CTT--AGA-GA-CAAGGTGCCAATATGCTGATTTAA
66 CTTAGAGATGATAAAGATGCCAATATGTTGATTCAA
** * * * *
1568388 GGCCGGCGATATTGG-GTT-----T---G-TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGT
1 GGCCAACGATATCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGA
* * * *
1568443 CTT--AGA-GA-CAAGGTGCCAATATGCTGATTTAA
66 CTTAGAGATGATAAAGATGCCAATATGTTGATTCAA
* * * * *
1568475 GGCCAACGATATTGG-GTT-----T---G-CGCCAATGTGCTGATTCAAGGCCAGCAACATTGGT
1 GGCCAACGATATCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGA
* * *
1568530 CTTA-A-A-GATGAAGGTGCCAATATGCTGATTCAA
66 CTTAGAGATGATAAAGATGCCAATATGTTGATTCAA
* * * * *
1568563 GGCCAGCGATATTGGGC-T-----T---G-TGCCAATGTGCTGATTCAAGGCTAGCGATATTGGA
1 GGCCAACGATATCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGA
* *
1568618 CTTA-A-A-G-----G-TGCCAATGTGCTGATTCAA
66 CTTAGAGATGATAAAGATGCCAATATGTTGATTCAA
* * * * * * * * *
1568645 GGCCAGCGATATTGGTCTTAAAGA-CAAGGTGCCAATATGTTGATTCAAGGCTAGCGATATTGG-
1 GGCCAACGATATCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGA
* ** * * * * *
1568708 GTTCTAGATGGTAAAGGTGCCAATATGCTAATTTAA
66 CTTAGAGATGATAAAGATGCCAATATGTTGATTCAA
*
1568744 GGCCAACGATATTGGACTTAAA
1 GGCCAACGATATCGGACTTAAA
1568766 TGTGCCACGG
Statistics
Matches: 650, Mismatches: 74, Indels: 60
0.83 0.09 0.08
Matches are distributed among these distances:
82 34 0.05
83 2 0.00
85 3 0.00
86 4 0.01
87 224 0.34
88 80 0.12
89 3 0.00
90 5 0.01
91 68 0.10
92 2 0.00
93 1 0.00
95 1 0.00
98 1 0.00
99 57 0.09
100 2 0.00
101 162 0.25
102 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (101 bp):
GGCCAACGATATCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGA
CTTAGAGATGATAAAGATGCCAATATGTTGATTCAA
Found at i:1568328 original size:87 final size:87
Alignment explanation
Indices: 1568142--1568659 Score: 688
Period size: 87 Copynumber: 6.0 Consensus size: 87
1568132 AAAGATGAAG
* * * * ** *
1568142 GTGCCAATGTGCTGATTCAAGGCCGGCAACATTGGACTTAAAGATGATAAAGACGCCAATATGTT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT--AGA-GA-CAAGGTGCCAATATGCT
* * *
1568207 GATTCAAGGCCAACGATATTAGACTT
62 GATTCAAGGCCAGCGATATTGGGCTT
*
1568233 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGTTCTTA-AGGACAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGA-GACAAGGTGCCAATATGCTGAT
*
1568297 TCAAGGCTAGCGATATTGGGCTT
65 TCAAGGCCAGCGATATTGGGCTT
*
1568320 GTGTCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATT
* * *
1568385 TAAGGCCGGCGATATTGGGTTT
66 CAAGGCCAGCGATATTGGGCTT
*
1568407 GTGCCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATT
* * *
1568472 TAAGGCCAACGATATTGGGTTT
66 CAAGGCCAGCGATATTGGGCTT
* * * *
1568494 GCGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGA-CAAGGTGCCAATATGCTGAT
1568559 TCAAGGCCAGCGATATTGGGCTT
65 TCAAGGCCAGCGATATTGGGCTT
* * * *
1568582 GTGCCAATGTGCTGATTCAAGGCTAGCGATATTGGACTT----A-AAGGTGCCAATGTGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATT
1568642 CAAGGCCAGCGATATTGG
66 CAAGGCCAGCGATATTGG
1568660 TCTTAAAGAC
Statistics
Matches: 388, Mismatches: 37, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
82 37 0.10
84 1 0.00
87 237 0.61
88 77 0.20
89 1 0.00
91 35 0.09
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (87 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATT
CAAGGCCAGCGATATTGGGCTT
Found at i:1568746 original size:51 final size:49
Alignment explanation
Indices: 1568582--1568758 Score: 165
Period size: 43 Copynumber: 3.7 Consensus size: 49
1568572 TATTGGGCTT
* * *
1568582 GTGCCAATGTGCTGATTCAAGGCTAGCGATATT-GGAC-T----TAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGTCTTAAAGTAAAG
*
1568625 GTGCCAATGTGCTGATTCAAGGCCAGCGATATT-GGTCTTAAAG-ACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGTCTTAAAGTA-AAG
* * *
1568673 GTGCCAATATGTTGATTCAAGGCTAGCGATATTGGGT-TCTAGATGGTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGTCT-TA-A-AGTAAAG
* * *
1568724 GTGCCAATATGCTAATTTAAGGCCAACGATATTGG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGG
1568759 ACTTAAATGT
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 35 0.31
44 1 0.01
47 1 0.01
48 34 0.30
49 5 0.04
50 1 0.01
51 34 0.30
52 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (49 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGTCTTAAAGTAAAG
Found at i:1568839 original size:34 final size:34
Alignment explanation
Indices: 1568768--1569744 Score: 406
Period size: 34 Copynumber: 30.7 Consensus size: 34
1568758 GACTTAAATG
* ** *
1568768 TGCCACGGAGTTGTGGCCTTCCAA-GAAAAAGGTA
1 TGCCACGGAGTTGTGGACTTAAAAGGGAAAAGG-A
* * * *
1568802 TGCCACGGAGGTCTGGGCTTAAAAGGGAGAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGGAAAAGGA
* * *
1568836 TGCCACGAAGTTGTGGATTTAAAA-GGAAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGGAAAAGGA
1568869 TGCCACGGAGTTGTGGACTTAAAA--G----GG-
1 TGCCACGGAGTTGTGGACTTAAAAGGGAAAAGGA
** *
1568896 TGCCATAGAGTGGTGGACTTTGAAAA--GAAAAGG-
1 TGCCACGGAGTTGTGGAC-TT-AAAAGGGAAAAGGA
* * *
1568929 TGCCACAGAGTTGTGGACTTAAGA-GGAACAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGGAA-AAGGA
* *
1568963 TGCCACGGAGTCGTGGACTTAAAA-AGAAAAGG-
1 TGCCACGGAGTTGTGGACTTAAAAGGGAAAAGGA
* *
1568995 TGCCACGGAGTTGAGGACTTATAA--G----GG-
1 TGCCACGGAGTTGTGGACTTAAAAGGGAAAAGGA
* * *
1569022 TGCCACAGAGTTATGGACTTAAAA-GGAAAAGTA
1 TGCCACGGAGTTGTGGACTTAAAAGGGAAAAGGA
* * * *
1569055 TGCCATGTG-GTTGTGGGCTTTAAAAAGAAAAAGG-
1 TGCCACG-GAGTTGTGGAC-TTAAAAGGGAAAAGGA
* *
1569089 TGCCATGGAGTTGTGGACTT---A---CAAAGG-
1 TGCCACGGAGTTGTGGACTTAAAAGGGAAAAGGA
* * *
1569116 TGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGAA
1 TGCCACGGAGTTGTGGACTTAAAAGGGAAAAGGA
* * *
1569150 TGCCACGGAGTTGTAGG-CTTTAAAAAGAAAAAGGG
1 TGCCACGGAGTTGT-GGAC-TTAAAAGGGAAAAGGA
1569185 TGCCACGGAGTTGTGGACTTAAAA--G----GG-
1 TGCCACGGAGTTGTGGACTTAAAAGGGAAAAGGA
**
1569212 TGCCATAGAG-TGATGGACTTTGAAAA--GAAAAGG-
1 TGCCACGGAGTTG-TGGAC-TT-AAAAGGGAAAAGGA
* * * *
1569245 TGCCACAGAGTTGTGGACTTAAGA-GAAACAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGGAA-AAGGA
* * *
1569279 TGCCACGGAGTCGTGGACTTAAAA-AGACAAGG-
1 TGCCACGGAGTTGTGGACTTAAAAGGGAAAAGGA
* * *
1569311 TGCCACGAAGTTGTGGACTT---A-TG---AGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGGAAAAGGA
* * *
1569338 TGCCACAGAGTTATGGACTTAAAA-GGAAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGGAAAAGGA
* * * *
1569371 TGCCACAGAATTGTGGGCTTTTAAAA-GAAAAAGG-
1 TGCCACGGAGTTGTGGAC--TTAAAAGGGAAAAGGA
*
1569405 TGCCACAGAGTTGTGGACTTAAAA--G----GG-
1 TGCCACGGAGTTGTGGACTTAAAAGGGAAAAGGA
*
1569432 TGCCACGGAGTGGTGGACTTTGAAAA--GAAAAGG-
1 TGCCACGGAGTTGTGGAC-TT-AAAAGGGAAAAGGA
* *
1569465 TGCCACAGAGTTGTGGACTTAAGA-GGAACAACGG-
1 TGCCACGGAGTTGTGGACTTAAAAGGGAA-AA-GGA
* * * *
1569499 TGCCACAGAATCGTGGACTTAAAA-AGAAAAGG-
1 TGCCACGGAGTTGTGGACTTAAAAGGGAAAAGGA
* *
1569531 TGCCACGGAGTTATGGACTTATAA--G----GG-
1 TGCCACGGAGTTGTGGACTTAAAAGGGAAAAGGA
* * *
1569558 TGCCACCGAGTTATGGACTTAAAA-GGAAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGGAAAAGGA
* * *
1569591 TGCCACAGAGTTGTAGG-CTTTAAAAAGAAAAAGG-
1 TGCCACGGAGTTGT-GGAC-TTAAAAGGGAAAAGGA
* *
1569625 TGCCACAGAGTTGTGGACTT---A---TAAAGG-
1 TGCCACGGAGTTGTGGACTTAAAAGGGAAAAGGA
* *
1569652 TGCCACGGAGTTGTGGGCTTAAAA-GGAAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGGAAAAGGA
* * * *
1569685 GTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAATGG-
1 -TGCCACGGAGTTGTGGAC-TTAAAAGGGAAAA-GGA
1569721 TGCCACGGAGTTGTGGACTTAAAA
1 TGCCACGGAGTTGTGGACTTAAAA
1569745 AGGTCCCATA
Statistics
Matches: 754, Mismatches: 110, Indels: 158
0.74 0.11 0.15
Matches are distributed among these distances:
26 5 0.01
27 155 0.21
28 11 0.01
29 17 0.02
30 6 0.01
31 11 0.01
32 87 0.12
33 154 0.20
34 220 0.29
35 82 0.11
36 5 0.01
37 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.31, T:0.20
Consensus pattern (34 bp):
TGCCACGGAGTTGTGGACTTAAAAGGGAAAAGGA
Found at i:1569059 original size:126 final size:127
Alignment explanation
Indices: 1568767--1569059 Score: 322
Period size: 126 Copynumber: 2.3 Consensus size: 127
1568757 GGACTTAAAT
* * ** * * * * *
1568767 GTGCCACGGAGTTGTGGCCTTCCAAGAAAAAGGTATGCCACGGAGGTCTGGGCTTAAAAGGGAGA
1 GTGCCACAGAGTTGTGGACTTAAAAGGAAAA-GTATGCCACAGAGGTCTGGACTTAAAAGGAACA
* * * *
1568832 AGGATGCCACGAAGTTGTGGATTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGG
65 AGGATGCCACGAAGTCGTGGACTTAAAAAGAAAAAGATGCCACGGAGTTGAGGACTTAAAAGG
* * * * * *
1568895 GTGCCATAGAGTGGTGGACTTTGAAAA-GAAAAG-GTGCCACAGAGTTGTGGACTTAAGAGGAAC
1 GTGCCACAGAGTTGTGGAC-TT-AAAAGGAAAAGTATGCCACAGAGGTCTGGACTTAAAAGGAAC
* * * *
1568958 AAGGGTGCCACGGAGTCGTGGACTTAAAAAG-AAAAGGTGCCACGGAGTTGAGGACTTATAAGG
64 AAGGATGCCACGAAGTCGTGGACTTAAAAAGAAAAAGATGCCACGGAGTTGAGGACTTAAAAGG
*
1569021 GTGCCACAGAGTTATGGACTTAAAAGGAAAAGTATGCCA
1 GTGCCACAGAGTTGTGGACTTAAAAGGAAAAGTATGCCA
1569060 TGTGGTTGTG
Statistics
Matches: 134, Mismatches: 27, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
124 4 0.03
125 8 0.06
126 50 0.37
127 48 0.36
128 16 0.12
129 6 0.04
130 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.33, T:0.19
Consensus pattern (127 bp):
GTGCCACAGAGTTGTGGACTTAAAAGGAAAAGTATGCCACAGAGGTCTGGACTTAAAAGGAACAA
GGATGCCACGAAGTCGTGGACTTAAAAAGAAAAAGATGCCACGGAGTTGAGGACTTAAAAGG
Found at i:1569068 original size:126 final size:127
Alignment explanation
Indices: 1568831--1569746 Score: 370
Period size: 126 Copynumber: 7.2 Consensus size: 127
1568821 TAAAAGGGAG
* * * * *
1568831 AAGGATGCCACGAAGTTGTGGATTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGG
1 AAGGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGATGCCACGGAGTTGAGGACTTAAAAGGG
* * * * *
1568896 TGCCATAGAGTGGTGGACTTTGAAAAGAAAAGGTGCCACAGAGTTGTGGAC-TTAAGAGGAA
66 TGCCACAGAGTGATGGACTTTGAAAAGAAAAGATGCCACAGAGTTGTGGACTTTAAAAAGAA
* * *
1568957 CAAGGGTGCCACGGAGTCGTGGACTTAAAAAG-AAAAGGTGCCACGGAGTTGAGGACTTATAAGG
1 -AAGGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGATGCCACGGAGTTGAGGACTTAAAAGG
* * * *
1569021 GTGCCACAGAGTTATGGAC-TT-AAAAGGAAAAGTATGCCA-TGTGGTTGTGGGCTTTAAAAAGA
65 GTGCCACAGAGTGATGGACTTTGAAAA-GAAAAG-ATGCCACAG-AGTTGTGGACTTTAAAAAGA
1569083 A
127 A
* * * * *
1569084 AAAGGTGCCATGGAGTTGTGGACTTACAAAG-----G-TGCCACGGAGTTGTGGGCTTAAAAGGA
1 AAGGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGATGCCACGGAGTTGAGGACTTAAAAGG-
* * * *
1569143 AAAAGAATGCCACGGAGTTG-TAGG-CTTTAAAAAGAAAAAGGGTGCCACGGAGTTGTGGAC-TT
65 ----G--TGCCACAGAG-TGAT-GGACTTTGAAAAG-AAAA-GATGCCACAGAGTTGTGGACTTT
1569205 ------AA
120 AAAAAGAA
** * * * *
1569207 AAGGGTGCCATAGAG-TGATGGACTTTGAAAAG-AAAAGGTGCCACAGAGTTGTGGACTTAAGAG
1 AAGGGTGCCACGGAGTTG-TGGAC-TTAAAAAGAAAAAGATGCCACGGAGTTGAGGACTT-----
* * * *
1569270 AAACAAGGGTGCCACGGAGTCG-TGGAC-TTAAAAAGACAAGGTGCCAC-GAAGTTGTGGAC-TT
59 -AA-AAGGGTGCCACAGAGT-GATGGACTTTGAAAAGAAAAGATGCCACAG-AGTTGTGGACTTT
*
1569331 ---ATG--
120 AAAAAGAA
* * * * * * *
1569334 -AGGGTGCCACAGAGTTATGGACTTAAAAGGAAAAAGATGCCACAGAATTGTGGGCTTTTAAAAG
1 AAGGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGATGCCACGGAGTTGAGGAC--TTAAAAG
* * * *
1569398 AAAAAGGTGCCACAGAGTTG-TGGAC-TT-AAAAG----GGTGCCACGGAGTGGTGGACTTTGAA
64 -----GGTGCCACAGAG-TGATGGACTTTGAAAAGAAAAGATGCCACAGAGTTGTGGACTTTAAA
1569456 AAGAA
123 AAGAA
* * * * * * * * *
1569461 AA-GGTGCCACAGAGTTGTGGACTTAAGAGGAACAACGGTGCCACAGAATCGTGGACTTAAAAAG
1 AAGGGTGCCACGGAGTTGTGGACTTAAAAAGAA-AAAGATGCCACGGAGTTGAGGACTT-AAAAG
* * * * * * *
1569525 AAAAGGTGCCACGGAGTTATGGAC-TT-ATAAG----GGTGCCACCGAGTTATGGAC-TTAAAAG
64 ----GGTGCCACAGAGTGATGGACTTTGAAAAGAAAAGATGCCACAGAGTTGTGGACTTTAAAAA
1569583 GAA
125 GAA
* * * * * *
1569586 AAAGATGCCACAGAGTTGTAGG-CTTTAAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTATAAA
1 AAGGGTGCCACGGAGTTGT-GGAC-TTAAAAAGAAAAAGATGCCACGGAGTTGAGGACTTA-AAA
* * *
1569650 -GGTGCCACGGAGTTG-TGGGC-TT-AAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAA
63 GGGTGCCACAGAG-TGATGGACTTTGAAAA-G-AAAAGA-TGCCACAGAGTTGTGGACTTTAAAA
1569711 AGAAA
124 AG-AA
*
1569716 AATGGTGCCACGGAGTTGTGGACTTAAAAAG
1 AAGGGTGCCACGGAGTTGTGGACTTAAAAAG
1569747 GTCCCATAGA
Statistics
Matches: 637, Mismatches: 78, Indels: 146
0.74 0.09 0.17
Matches are distributed among these distances:
121 64 0.10
122 10 0.02
123 20 0.03
124 10 0.02
125 35 0.05
126 250 0.39
127 83 0.13
128 60 0.09
129 56 0.09
130 40 0.06
131 3 0.00
135 2 0.00
136 4 0.01
ACGTcount: A:0.35, C:0.13, G:0.31, T:0.21
Consensus pattern (127 bp):
AAGGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGATGCCACGGAGTTGAGGACTTAAAAGGG
TGCCACAGAGTGATGGACTTTGAAAAGAAAAGATGCCACAGAGTTGTGGACTTTAAAAAGAA
Found at i:1569180 original size:35 final size:34
Alignment explanation
Indices: 1569116--1569208 Score: 125
Period size: 35 Copynumber: 2.7 Consensus size: 34
1569106 CTTACAAAGG
* *
1569116 TGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGAA
1 TGCCACGGAGTTGTAGGCTTAAAAAGAAAAAGAA
**
1569150 TGCCACGGAGTTGTAGGCTTTAAAAAGAAAAAGGG
1 TGCCACGGAGTTGTAGGC-TTAAAAAGAAAAAGAA
1569185 TGCCACGGAGTTGT-GGACTTAAAA
1 TGCCACGGAGTTGTAGG-CTTAAAA
1569209 GGGTGCCATA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
34 25 0.47
35 28 0.53
ACGTcount: A:0.35, C:0.13, G:0.31, T:0.20
Consensus pattern (34 bp):
TGCCACGGAGTTGTAGGCTTAAAAAGAAAAAGAA
Found at i:1569260 original size:190 final size:187
Alignment explanation
Indices: 1568923--1569304 Score: 470
Period size: 190 Copynumber: 2.0 Consensus size: 187
1568913 CTTTGAAAAG
* * **
1568923 AAAAGGTGCCACAGAGTTGTGGACTTAAGAGGAACAAGGGTGCCACGGAGTCGTGGACTTAAAAA
1 AAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAATGCCACGGAGTCGTGGACTTAAAAA
* *
1568988 GAAAAGGTGCCACGGAGTTGAGGACTTATAAGGGTGCCACAGAGTTATGGACTTAAAAGGAAAAG
66 GAAAAGGTGCCACGGAGTTGAGGACTTAAAAGGGTGCCACAGAGTGATGGACTTAAAAGGAAAAG
* * * * *
1569053 TATGCCATGTGGTTGTGGGCTTTAAAAAGAAA-AA-GGTGCCATGGAGTTGTGGACTTA
131 TATGCCAAGTAGTTGTGGAC-TT-AAAAGAAACAAGGGTGCCACGGAGTCGTGGACTTA
* * * *
1569110 CAAAGGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGAATGCCACGGAGTTGTAGG-CTTTAAA
1 AAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAATGCCACGGAGTCGT-GGAC-TTAAA
* *
1569174 AAGAAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCATAGAGTGATGGACTTTGAAAA-
64 AAG-AAAA-GGTGCCACGGAGTTGAGGACTTAAAAGGGTGCCACAGAGTGATGGAC-TT-AAAAG
* *
1569238 GAAAAG-GTGCCACAG-AGTTGTGGACTTAAGAGAAACAAGGGTGCCACGGAGTCGTGGACTTA
125 GAAAAGTATGCCA-AGTAGTTGTGGACTTAAAAGAAACAAGGGTGCCACGGAGTCGTGGACTTA
1569300 AAAAG
1 AAAAG
1569305 ACAAGGTGCC
Statistics
Matches: 166, Mismatches: 20, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
187 47 0.28
188 17 0.10
189 8 0.05
190 81 0.49
191 9 0.05
192 4 0.02
ACGTcount: A:0.35, C:0.13, G:0.32, T:0.20
Consensus pattern (187 bp):
AAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAATGCCACGGAGTCGTGGACTTAAAAA
GAAAAGGTGCCACGGAGTTGAGGACTTAAAAGGGTGCCACAGAGTGATGGACTTAAAAGGAAAAG
TATGCCAAGTAGTTGTGGACTTAAAAGAAACAAGGGTGCCACGGAGTCGTGGACTTA
Found at i:1569442 original size:316 final size:311
Alignment explanation
Indices: 1568802--1569835 Score: 1191
Period size: 316 Copynumber: 3.3 Consensus size: 311
1568792 GAAAAAGGTA
* * * * *
1568802 TGCCACGGAGGTCTGGGCTTAAAAGGGAGAAGGATGCCACGAAGTTGTGGATTTAAAAGGAAAAA
1 TGCCACGGAGTTGTGGGCTTAAAA-GGA-AAAGATGCCACGGAGTTGTGGCTTTAAAAGGAAAAA
* *
1568867 GATGCCACGGAGTTGTGGACTTAAAAGGGTGCCATAGAGTGGTGGACTTTGAAAAGAAAAGGTGC
64 GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCATAGAGTGATGGACTTTGAAAAGAAAAGGTGC
*
1568932 CACAGAGTTGTGGACTTAAGAGGAACAAGGGTGCCACGGAGTCGTGGACTTAAAAAGAAAAGGTG
129 CACAGAGTTGTGGACTTAAGAGAAACAAGGGTGCCACGGAGTCGTGGACTTAAAAAGAAAAGGTG
* *
1568997 CCACGGAGTTGAGGACTTATAAGGGTGCCACAGAGTTATGGACTTAAAAGG-AAAAGTATGCCA-
194 CCACGAAGTTGTGGACTTATAAGGGTGCCACAGAGTTATGGACTTAAAAGGAAAAAG-ATGCCAC
* * *
1569060 TGTGGTTGTGGGCTTTAAAAAGAAAAAGGTGCCATGGAGTTGTGGACTTACAAAGG
258 AG-AGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTA-AAAGG
*
1569116 TGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGAATGCCACGGAGTTGTAGGCTTTAAAAAGAAAA
1 TGCCACGGAGTTGTGGGCTTAAAAGG-AAAAG-ATGCCACGGAGTTGT-GGCTTTAAAAGGAAAA
1569181 AGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCATAGAGTGATGGACTTTGAAAAGAAAAGGT
63 A-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCATAGAGTGATGGACTTTGAAAAGAAAAGGT
*
1569246 GCCACAGAGTTGTGGACTTAAGAGAAACAAGGGTGCCACGGAGTCGTGGACTTAAAAAGACAAGG
127 GCCACAGAGTTGTGGACTTAAGAGAAACAAGGGTGCCACGGAGTCGTGGACTTAAAAAGAAAAGG
*
1569311 TGCCACGAAGTTGTGGACTTATGAGGGTGCCACAGAGTTATGGACTTAAAAGGAAAAAGATGCCA
192 TGCCACGAAGTTGTGGACTTATAAGGGTGCCACAGAGTTATGGACTTAAAAGGAAAAAGATGCCA
* * *
1569376 CAGAATTGTGGGCTTTTAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGG
257 CAGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAA-GG
* * * * *
1569432 TGCCACGGAGTGGTGGACTTTGAAAA-GAAAAGGTGCCACAGAGTTGTGGAC-TTAAGAGGAACA
1 TGCCACGGAGTTGTGGGC-TT-AAAAGGAAAAGATGCCACGGAGTTGTGG-CTTTAAAAGGAA-A
* * * * ** * *
1569495 ACGGTGCCACAGAATCGTGGACTTAAAAAGAAAAGGTGCCACGGAGTTATGGAC-TT-ATAAG--
62 AAGGTGCCACGGAGTTGTGGACTT-AAAAG----GGTGCCATAGAGTGATGGACTTTGAAAAGAA
* * * * * *
1569556 --GGTGCCACCGAGTTATGGACTTAAAAGGAAA-AA-GATGCCACAGAGTTGTAGG-CTTTAAAA
122 AAGGTGCCACAGAGTTGTGGACTTAAGA-GAAACAAGGGTGCCACGGAGTCGT-GGAC-TTAAAA
* * * *
1569616 AGAAAAAGGTGCCAC-AGAGTTGTGGACTTATAAAGGTGCCACGGAGTTGTGGGCTTAAAAGGAA
184 AG-AAAAGGTGCCACGA-AGTTGTGGACTTATAAGGGTGCCACAGAGTTATGGACTTAAAAGGAA
1569680 AAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAATGGTGCCACGGAGTTGTGGACTTAAAA
247 AAAGA-TGCCACAGAGTTGTGGGCTTTAAAAAGAAAAA-GGTGCCACGGAGTTGTGGACTT-AAA
1569745 AGG
309 AGG
* ** * * * ** *
1569748 TCCCATAGAGTGGTGGACTTTGAAAA-GAAAAGGTGCCATAGAGTTGTGGAC-TTAAGAGGAACA
1 TGCCACGGAGTTGTGGGC-TT-AAAAGGAAAAGATGCCACGGAGTTGTGG-CTTTAAAAGGAA-A
* * *
1569811 AGGGTGCCATGGAGTTGTGAACTTA
62 AAGGTGCCACGGAGTTGTGGACTTA
1569836 GAAGAAAATG
Statistics
Matches: 638, Mismatches: 58, Indels: 47
0.86 0.08 0.06
Matches are distributed among these distances:
312 14 0.02
313 41 0.06
314 128 0.20
315 70 0.11
316 345 0.54
317 17 0.03
318 6 0.01
319 17 0.03
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (311 bp):
TGCCACGGAGTTGTGGGCTTAAAAGGAAAAGATGCCACGGAGTTGTGGCTTTAAAAGGAAAAAGG
TGCCACGGAGTTGTGGACTTAAAAGGGTGCCATAGAGTGATGGACTTTGAAAAGAAAAGGTGCCA
CAGAGTTGTGGACTTAAGAGAAACAAGGGTGCCACGGAGTCGTGGACTTAAAAAGAAAAGGTGCC
ACGAAGTTGTGGACTTATAAGGGTGCCACAGAGTTATGGACTTAAAAGGAAAAAGATGCCACAGA
GTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
Found at i:1569464 original size:220 final size:218
Alignment explanation
Indices: 1568767--1569746 Score: 1030
Period size: 220 Copynumber: 4.4 Consensus size: 218
1568757 GGACTTAAAT
* * ** * * * * * *
1568767 GTGCCACGGAGTTGTGGCCTTCCAAGAAAAAGGTATGCCACGGAGGTCTGGGCTTAAAAGGGAGA
1 GTGCCACGGAGTGGTGGACTTAAAAG-AAAAGG--TGCCACAGAGTTGTGGACTTAAAA-GAAAA
* * * * * *
1568832 AGGATGCCACGAAGTTGTGGATTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGT
62 AGGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTATAAGGGT
* ** * * *
1568897 GCCATAGAGTGGTGGACTTTGAAAA-G-AAAAGGTGCCACAGAGTTGT-GGAC-TTAAGAGGAAC
127 GCCACAGAGTTATGGAC-TT-AAAAGGAAAAAGATGCCACAGAGTTGTAGG-CTTTAAAAAGAA-
* * *
1568958 AAGGGTGCCACGGAGTCGTGGACTTAAAAAGAAAAG
188 AAAGGTGCCACAGAGTTGTGGACTT-AAAAG----G
* * * * * **
1568994 GTGCCACGGAGTTGAGGACTTATAAG----GGTGCCACAGAGTTATGGACTTAAAAGGAAAAGTA
1 GTGCCACGGAGTGGTGGACTTAAAAGAAAAGGTGCCACAGAGTTGTGGACTTAAAAGAAAAAGGG
* * * * *
1569055 TGCCATGTG-GTTGTGGGCTTTAAAAAGAAAAAGGTGCCATGGAGTTGTGGACTTACAAAGGTGC
66 TGCCACG-GAGTTGTGGAC-TTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTATAAGGGTGC
* * * *
1569119 CACGGAGTTGTGGGCTTAAAAGGAAAAAGAATGCCACGGAGTTGTAGGCTTTAAAAAGAAAAAGG
129 CACAGAGTTATGGACTTAAAAGGAAAAAG-ATGCCACAGAGTTGTAGGCTTTAAAAAGAAAAA-G
*
1569184 GTGCCACGGAGTTGTGGACTTAAAAGG
192 GTGCCACAGAGTTGTGGACTTAAAAGG
** * *
1569211 GTGCCATAGAGTGATGGACTTTGAAAAGAAAAGGTGCCACAGAGTTGTGGACTTAAGAGAAACAA
1 GTGCCACGGAGTGGTGGAC-TT-AAAAGAAAAGGTGCCACAGAGTTGTGGACTTAAAAGAAA-AA
* * * *
1569276 GGGTGCCACGGAGTCGTGGACTTAAAAAG-ACAAGGTGCCACGAAGTTGTGGACTTATGAGGGTG
63 GGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTATAAGGGTG
* * *
1569340 CCACAGAGTTATGGACTTAAAAGGAAAAAGATGCCACAGAATTGTGGGCTTTTAAAAGAAAAAGG
128 CCACAGAGTTATGGACTTAAAAGGAAAAAGATGCCACAGAGTTGTAGGCTTTAAAAAGAAAAAGG
1569405 TGCCACAGAGTTGTGGACTTAAAAGG
193 TGCCACAGAGTTGTGGACTTAAAAGG
* *
1569431 GTGCCACGGAGTGGTGGACTTTGAAAAGAAAAGGTGCCACAGAGTTGTGGACTTAAGAGGAACAA
1 GTGCCACGGAGTGGTGGAC-TT-AAAAGAAAAGGTGCCACAGAGTTGTGGACTTAA-AAGAAAAA
* * * * *
1569496 CGGTGCCACAGAATCGTGGACTTAAAAAG-AAAAGGTGCCACGGAGTTATGGACTTATAAGGGTG
63 GGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTATAAGGGTG
*
1569560 CCACCGAGTTATGGACTTAAAAGGAAAAAGATGCCACAGAGTTGTAGGCTTTAAAAAGAAAAAGG
128 CCACAGAGTTATGGACTTAAAAGGAAAAAGATGCCACAGAGTTGTAGGCTTTAAAAAGAAAAAGG
1569625 TGCCACAGAGTTGTGGACTTATAAA-G
193 TGCCACAGAGTTGTGGACTTA-AAAGG
* * *
1569651 GTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAAA
1 GTGCCACGGAGTGGTGGACTTAAAA-G-AAAAG-GTGCCACAGAGTTGTGGAC-TT-AAAAGAAA
*
1569716 AATGGTGCCACGGAGTTGTGGACTTAAAAAG
61 AAGGGTGCCACGGAGTTGTGGACTTAAAAAG
1569747 GTCCCATAGA
Statistics
Matches: 647, Mismatches: 83, Indels: 51
0.83 0.11 0.07
Matches are distributed among these distances:
217 15 0.02
218 10 0.02
219 30 0.05
220 320 0.49
221 74 0.11
222 122 0.19
223 38 0.06
224 16 0.02
227 22 0.03
ACGTcount: A:0.34, C:0.14, G:0.32, T:0.20
Consensus pattern (218 bp):
GTGCCACGGAGTGGTGGACTTAAAAGAAAAGGTGCCACAGAGTTGTGGACTTAAAAGAAAAAGGG
TGCCACGGAGTTGTGGACTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTATAAGGGTGCCA
CAGAGTTATGGACTTAAAAGGAAAAAGATGCCACAGAGTTGTAGGCTTTAAAAAGAAAAAGGTGC
CACAGAGTTGTGGACTTAAAAGG
Found at i:1569716 original size:35 final size:33
Alignment explanation
Indices: 1568918--1569746 Score: 457
Period size: 34 Copynumber: 26.2 Consensus size: 33
1568908 GTGGACTTTG
* *
1568918 AAAAG-AAAAGGTGCCACAGAGTTGTGGACTTA
1 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTA
* * * * *
1568950 AGAGGAACAAGGGTGCCACGGAGTCGTGGACTTA
1 AAAAGAA-AAAGGTGCCACGGAGTTGTGGGCTTA
* *
1568984 AAAAG-AAAAGGTGCCACGGAGTTGAGGACTT-
1 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTA
* * * *
1569015 ATAAG-----GGTGCCACAGAGTTATGGACTT-
1 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTA
* * *
1569042 AAAAGGAAAAGTATGCCATGTG-GTTGTGGGCTTTA
1 AAAAGAAAAAG-GTGCCACG-GAGTTGTGGGC-TTA
* *
1569077 AAAAGAAAAAGGTGCCATGGAGTTGTGGACTT-
1 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTA
*
1569109 -----ACAAAGGTGCCACGGAGTTGTGGGCTTA
1 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTA
* * *
1569137 AAAGGAAAAAGAATGCCACGGAGTTGTAGGCTTTA
1 AAAAGAAAAAG-GTGCCACGGAGTTGTGGGC-TTA
*
1569172 AAAAGAAAAAGGGTGCCACGGAGTTGTGGACTT-
1 AAAAGAAAAA-GGTGCCACGGAGTTGTGGGCTTA
** * *
1569205 AAAAG-----GGTGCCATAGAG-TGATGGACTTTG
1 AAAAGAAAAAGGTGCCACGGAGTTG-TGGGC-TTA
* *
1569234 AAAAG-AAAAGGTGCCACAGAGTTGTGGACTT-
1 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTA
* * *
1569265 AAGAGAAACAAGGGTGCCACGGAGTCGTGGACTTA
1 AAAAGAAA-AA-GGTGCCACGGAGTTGTGGGCTTA
* * *
1569300 AAAAG-ACAAGGTGCCACGAAGTTGTGGACTT-
1 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTA
* * * * *
1569331 --ATG---AGGGTGCCACAGAGTTATGGACTTA
1 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTA
* * * * *
1569359 AAAGGAAAAAGATGCCACAGAATTGTGGGCTTTT
1 AAAAGAAAAAGGTGCCACGGAGTTGTGGGC-TTA
* *
1569393 AAAAGAAAAAGGTGCCACAGAGTTGTGGACTT-
1 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTA
* * *
1569425 AAAAG-----GGTGCCACGGAGTGGTGGACTTTG
1 AAAAGAAAAAGGTGCCACGGAGTTGTGGGC-TTA
* *
1569454 AAAAG-AAAAGGTGCCACAGAGTTGTGGACTTA
1 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTA
* * * * * * *
1569486 AGAGGAACAACGGTGCCACAGAATCGTGGACTTA
1 AAAAGAA-AAAGGTGCCACGGAGTTGTGGGCTTA
* *
1569520 AAAAG-AAAAGGTGCCACGGAGTTATGGACTT-
1 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTA
* * * *
1569551 ATAAG-----GGTGCCACCGAGTTATGGACTTA
1 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTA
* * * *
1569579 AAAGGAAAAAGATGCCACAGAGTTGTAGGCTTTA
1 AAAAGAAAAAGGTGCCACGGAGTTGTGGGC-TTA
* *
1569613 AAAAGAAAAAGGTGCCACAGAGTTGTGGACTT-
1 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTA
*
1569645 -----ATAAAGGTGCCACGGAGTTGTGGGCTTA
1 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTA
* *
1569673 AAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTA
1 AAAAGAAAAAG-GTGCCACGGAGTTGTGGGC-TTA
*
1569708 AAAAGAAAAATGGTGCCACGGAGTTGTGGACTTA
1 AAAAGAAAAA-GGTGCCACGGAGTTGTGGGCTTA
1569742 AAAAG
1 AAAAG
1569747 GTCCCATAGA
Statistics
Matches: 636, Mismatches: 97, Indels: 126
0.74 0.11 0.15
Matches are distributed among these distances:
26 2 0.00
27 145 0.23
28 7 0.01
29 12 0.02
30 2 0.00
31 12 0.02
32 80 0.13
33 108 0.17
34 195 0.31
35 71 0.11
36 2 0.00
ACGTcount: A:0.35, C:0.13, G:0.31, T:0.20
Consensus pattern (33 bp):
AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTA
Found at i:1569758 original size:27 final size:27
Alignment explanation
Indices: 1569728--1569802 Score: 78
Period size: 33 Copynumber: 2.6 Consensus size: 27
1569718 TGGTGCCACG
1569728 GAGTTGTGGACTTAAAAAGGTCCCATA
1 GAGTTGTGGACTTAAAAAGGTCCCATA
* *
1569755 GAGTGGTGGACTTTGAAAAGAAAAGGTGCCATA
1 GAGTTGTGGAC-TT----A-AAAAGGTCCCATA
1569788 GAGTTGTGGACTTAA
1 GAGTTGTGGACTTAA
1569803 GAGGAACAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
27 11 0.28
28 3 0.08
32 3 0.08
33 22 0.56
ACGTcount: A:0.33, C:0.11, G:0.31, T:0.25
Consensus pattern (27 bp):
GAGTTGTGGACTTAAAAAGGTCCCATA
Found at i:1569768 original size:536 final size:536
Alignment explanation
Indices: 1568819--1569835 Score: 1677
Period size: 536 Copynumber: 1.9 Consensus size: 536
1568809 GAGGTCTGGG
* * *
1568819 CTTAAAAGGGAGAAGGATGCCACGAAGTTGTGGATTTAAAAGGAAAAAGATGCCACGGAGTTGTG
1 CTTAAAAGGGAAAAAGATGCCACGAAGTTGTGGATTTAAAAGGAAAAAGATGCCACAGAGTTGTG
*
1568884 GACTTAAAAGGGTGCCATAGAGTGGTGGACTTTGAAAAGAAAAGGTGCCACAGAGTTGTGGACTT
66 GACTTAAAAGGGTGCCACAGAGTGGTGGACTTTGAAAAGAAAAGGTGCCACAGAGTTGTGGACTT
* * *
1568949 AAGAGGAACAAGGGTGCCACGGAGTCGTGGACTTAAAAAGAAAAGGTGCCACGGAGTTGAGGACT
131 AAGAGGAACAACGGTGCCACAGAATCGTGGACTTAAAAAGAAAAGGTGCCACGGAGTTGAGGACT
* * *
1569014 TATAAGGGTGCCACAGAGTTATGGACTTAAAAGGAAAAGTATGCCATGTGGTTGTGGGCTTTAAA
196 TATAAGGGTGCCACAGAGTTATGGACTTAAAAGGAAAAGTATGCCAAGTAGTTGTAGGCTTTAAA
**
1569079 AAGAAAAAGGTGCCATGGAGTTGTGGACTTACAAAGGTGCCACGGAGTTGTGGGCTTAAAAGGAA
261 AAGAAAAAGGTGCCACAGAGTTGTGGACTTACAAAGGTGCCACGGAGTTGTGGGCTTAAAAGGAA
*
1569144 AAAGAATGCCACGGAGTTGTAGGCTTTAAAAAGAAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
326 AAAGAATGCCACAGAGTTGTAGGCTTTAAAAAGAAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
1569209 GGGTGCCATAGAGTGATGGACTTTGAAAAGAAAAGGTGCCACAGAGTTGTGGACTTAAGAGAAAC
391 AGGTCCCATAGAGTGATGGACTTTGAAAAGAAAAGGTGCCACAGAGTTGTGGACTTAAGAGAAAC
*
1569274 AAGGGTGCCACGGAGTCGTGGACTTAAAAAGACAAGGTGCCACGAAGTTGTGGACTTATGAGGGT
456 AAGGGTGCCACGGAGTCGTGAACTTAAAAAGACAAGGTGCCACGAAGTTGTGGACTTATGAGGGT
1569339 GCCACAGAGTTATGGA
521 GCCACAGAGTTATGGA
* *
1569355 CTTAAAA-GGAAAAAGATGCCACAGAA-TTGTGGGCTTTTAAAA-GAAAAAGGTGCCACAGAGTT
1 CTTAAAAGGGAAAAAGATGCCAC-GAAGTTGT-GG-ATTTAAAAGGAAAAAGATGCCACAGAGTT
*
1569417 GTGGACTTAAAAGGGTGCCACGGAGTGGTGGACTTTGAAAAGAAAAGGTGCCACAGAGTTGTGGA
63 GTGGACTTAAAAGGGTGCCACAGAGTGGTGGACTTTGAAAAGAAAAGGTGCCACAGAGTTGTGGA
1569482 CTTAAGAGGAACAACGGTGCCACAGAATCGTGGACTTAAAAAGAAAAGGTGCCACGGAGTT-ATG
128 CTTAAGAGGAACAACGGTGCCACAGAATCGTGGACTTAAAAAGAAAAGGTGCCACGGAGTTGA-G
*
1569546 GACTTATAAGGGTGCCACCGAGTTATGGACTTAAAAGGAAAAAG-ATGCCACAG-AGTTGTAGGC
192 GACTTATAAGGGTGCCACAGAGTTATGGACTTAAAAGG-AAAAGTATGCCA-AGTAGTTGTAGGC
*
1569609 TTTAAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTATAAAGGTGCCACGGAGTTGTGGGCTTAA
255 TTTAAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTACAAAGGTGCCACGGAGTTGTGGGCTTAA
* * *
1569674 AAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAATGGTGCCACGGAGTTGTGGAC
320 AAGGAAAAAGAATGCCACAGAGTTGTAGGCTTTAAAAAGAAAAAGGGTGCCACGGAGTTGTGGAC
* *
1569739 TTAAAAAGGTCCCATAGAGTGGTGGACTTTGAAAAGAAAAGGTGCCATAGAGTTGTGGACTTAAG
385 TTAAAAAGGTCCCATAGAGTGATGGACTTTGAAAAGAAAAGGTGCCACAGAGTTGTGGACTTAAG
* * *
1569804 AGGAACAAGGGTGCCATGGAGTTGTGAACTTA
450 AGAAACAAGGGTGCCACGGAGTCGTGAACTTA
1569836 GAAGAAAATG
Statistics
Matches: 446, Mismatches: 29, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
535 18 0.04
536 415 0.93
537 13 0.03
ACGTcount: A:0.35, C:0.13, G:0.31, T:0.21
Consensus pattern (536 bp):
CTTAAAAGGGAAAAAGATGCCACGAAGTTGTGGATTTAAAAGGAAAAAGATGCCACAGAGTTGTG
GACTTAAAAGGGTGCCACAGAGTGGTGGACTTTGAAAAGAAAAGGTGCCACAGAGTTGTGGACTT
AAGAGGAACAACGGTGCCACAGAATCGTGGACTTAAAAAGAAAAGGTGCCACGGAGTTGAGGACT
TATAAGGGTGCCACAGAGTTATGGACTTAAAAGGAAAAGTATGCCAAGTAGTTGTAGGCTTTAAA
AAGAAAAAGGTGCCACAGAGTTGTGGACTTACAAAGGTGCCACGGAGTTGTGGGCTTAAAAGGAA
AAAGAATGCCACAGAGTTGTAGGCTTTAAAAAGAAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
AGGTCCCATAGAGTGATGGACTTTGAAAAGAAAAGGTGCCACAGAGTTGTGGACTTAAGAGAAAC
AAGGGTGCCACGGAGTCGTGAACTTAAAAAGACAAGGTGCCACGAAGTTGTGGACTTATGAGGGT
GCCACAGAGTTATGGA
Found at i:1569819 original size:190 final size:187
Alignment explanation
Indices: 1569460--1569835 Score: 438
Period size: 190 Copynumber: 2.0 Consensus size: 187
1569450 TTTGAAAAGA
* *
1569460 AAAGGTGCCACAGAGTTGTGGACTTAAGAGGAACAACGGTGCCACAGAATCGTGGACTTAAAAAG
1 AAAGGTGCCACAGAGTTGTGGACTTAAAAGGAACAAAGGTGCCACAGAATCGTGGACTTAAAAAG
* * * * *
1569525 AAAAGGTGCCACGGAGTTATGGACTTATAAGGGTGCCACCGAGTTATGGACTTAAAAGGAAAAAG
66 AAAAGGTGCCACGGAGTTATGGACTTAAAAAGGTCCCACAGAGTGATGGACTTAAAAGGAAAAAG
*
1569590 ATGCCACAGAGTTGTAGGCTTTAAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTAT
131 ATGCCACAGAGTTGTAGGCTTTAAAAAGAAAAAGGTGCCACAGAGTTGTGAACTTAT
* * * * *
1569647 AAAGGTGCCACGGAGTTGTGGGCTTAAAAGGAA-AAAGAGTGCCACAGAGTTGTGGGCTTTAAAA
1 AAAGGTGCCACAGAGTTGTGGACTTAAAAGGAACAAAG-GTGCCACAGAATCGTGGAC-TTAAAA
* * *
1569711 AGAAAAATGGTGCCACGGAGTTGTGGACTTAAAAAGGTCCCATAGAGTGGTGGACTTTGAAAA-G
64 AG-AAAA-GGTGCCACGGAGTTATGGACTTAAAAAGGTCCCACAGAGTGATGGAC-TT-AAAAGG
* * * * * **
1569775 -AAAAGGTGCCATAGAGTTGT-GGAC-TTAAGAGGAACAAGGGTGCCATGGAGTTGTGAACTTA
125 AAAAAGATGCCACAGAGTTGTAGG-CTTTAAAAAGAA-AAAGGTGCCACAGAGTTGTGAACTTA
1569836 GAAGAAAATG
Statistics
Matches: 158, Mismatches: 23, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
186 3 0.02
187 46 0.29
188 8 0.05
189 14 0.09
190 80 0.51
191 3 0.02
192 4 0.03
ACGTcount: A:0.35, C:0.14, G:0.30, T:0.21
Consensus pattern (187 bp):
AAAGGTGCCACAGAGTTGTGGACTTAAAAGGAACAAAGGTGCCACAGAATCGTGGACTTAAAAAG
AAAAGGTGCCACGGAGTTATGGACTTAAAAAGGTCCCACAGAGTGATGGACTTAAAAGGAAAAAG
ATGCCACAGAGTTGTAGGCTTTAAAAAGAAAAAGGTGCCACAGAGTTGTGAACTTAT
Found at i:1569865 original size:536 final size:536
Alignment explanation
Indices: 1568819--1570019 Score: 1655
Period size: 536 Copynumber: 2.2 Consensus size: 536
1568809 GAGGTCTGGG
* * *
1568819 CTTAAAAGGGAGAAGGATGCCACGAAGTTGTGGATTTAAAAGGAAAAAGATGCCACGGAGTTGTG
1 CTTAAAAGGGAAAAAGATGCCACGAAGTTGTGGATTTAAAAGGAAAAAGATGCCACAGAGTTGTG
*
1568884 GACTTAAAAGGGTGCCATAGAGTGGTGGACTTTGAAAAGAAAAGGTGCCACAGAGTTGTGGACTT
66 GACTTAAAAGGGTGCCACAGAGTGGTGGACTTTGAAAAGAAAAGGTGCCACAGAGTTGTGGACTT
* * *
1568949 AAGAGGAACAAGGGTGCCACGGAGTCGTGGACTTAAAAAGAAAAGGTGCCACGGAGTTGAGGACT
131 AAGAGGAACAACGGTGCCACAGAATCGTGGACTTAAAAAGAAAAGGTGCCACGGAGTTGAGGACT
* * *
1569014 TATAAGGGTGCCACAGAGTTATGGACTTAAAAGGAAAAGTATGCCATGTGGTTGTGGGCTTTAAA
196 TATAAGGGTGCCACAGAGTTATGGACTTAAAAGGAAAAGTATGCCAAGTAGTTGTAGGCTTTAAA
**
1569079 AAGAAAAAGGTGCCATGGAGTTGTGGACTTACAAAGGTGCCACGGAGTTGTGGGCTTAAAAGGAA
261 AAGAAAAAGGTGCCACAGAGTTGTGGACTTACAAAGGTGCCACGGAGTTGTGGGCTTAAAAGGAA
*
1569144 AAAGAATGCCACGGAGTTGTAGGCTTTAAAAAGAAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
326 AAAGAATGCCACAGAGTTGTAGGCTTTAAAAAGAAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
1569209 GGGTGCCATAGAGTGATGGACTTTGAAAAGAAAAGGTGCCACAGAGTTGTGGACTTAAGAGAAAC
391 AGGTCCCATAGAGTGATGGACTTTGAAAAGAAAAGGTGCCACAGAGTTGTGGACTTAAGAGAAAC
* * * * *
1569274 AAGGGTGCCACGGAGTCGTGGACTTAAAAAGACAAGGTGCCACGAAGTTGTGGACTTATGAGGGT
456 AAGGGTGCCACGGAGTCGTGAACTTAAAAAGAAAAGATCCCACGAAGTCGTGGACTTATGAGGGT
1569339 GCCACAGAGTTATGGA
521 GCCACAGAGTTATGGA
* *
1569355 CTTAAAA-GGAAAAAGATGCCACAGAA-TTGTGGGCTTTTAAAA-GAAAAAGGTGCCACAGAGTT
1 CTTAAAAGGGAAAAAGATGCCAC-GAAGTTGT-GG-ATTTAAAAGGAAAAAGATGCCACAGAGTT
*
1569417 GTGGACTTAAAAGGGTGCCACGGAGTGGTGGACTTTGAAAAGAAAAGGTGCCACAGAGTTGTGGA
63 GTGGACTTAAAAGGGTGCCACAGAGTGGTGGACTTTGAAAAGAAAAGGTGCCACAGAGTTGTGGA
1569482 CTTAAGAGGAACAACGGTGCCACAGAATCGTGGACTTAAAAAGAAAAGGTGCCACGGAGTT-ATG
128 CTTAAGAGGAACAACGGTGCCACAGAATCGTGGACTTAAAAAGAAAAGGTGCCACGGAGTTGA-G
*
1569546 GACTTATAAGGGTGCCACCGAGTTATGGACTTAAAAGGAAAAAG-ATGCCACAG-AGTTGTAGGC
192 GACTTATAAGGGTGCCACAGAGTTATGGACTTAAAAGG-AAAAGTATGCCA-AGTAGTTGTAGGC
*
1569609 TTTAAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTATAAAGGTGCCACGGAGTTGTGGGCTTAA
255 TTTAAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTACAAAGGTGCCACGGAGTTGTGGGCTTAA
* * *
1569674 AAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAATGGTGCCACGGAGTTGTGGAC
320 AAGGAAAAAGAATGCCACAGAGTTGTAGGCTTTAAAAAGAAAAAGGGTGCCACGGAGTTGTGGAC
* *
1569739 TTAAAAAGGTCCCATAGAGTGGTGGACTTTGAAAAGAAAAGGTGCCATAGAGTTGTGGACTTAAG
385 TTAAAAAGGTCCCATAGAGTGATGGACTTTGAAAAGAAAAGGTGCCACAGAGTTGTGGACTTAAG
* * * * *
1569804 AGGAACAAGGGTGCCATGGAGTTGTGAACTT-AGAAGAAAATGATCCCATTG-AGTCGTGGACTT
450 AGAAACAAGGGTGCCACGGAGTCGTGAACTTAAAAAGAAAA-GATCCCA-CGAAGTCGTGGACTT
* * *
1569867 A-GAAAAGAGATACCACTGAGTTATGGA
513 ATG---AG-GGTGCCACAGAGTTATGGA
** * * * * *
1569894 CTTTGAA--G-AAAAGATGCCATTG-AGTCGTGGACTTT-GAA-G-AAAAGATGCCACTGAGTCG
1 CTTAAAAGGGAAAAAGATGCCA-CGAAGTTGTGGA-TTTAAAAGGAAAAAGATGCCACAGAGTTG
* * * * * *
1569952 TGGACTTTTAGAAGGGATGCCACTGAGTCGTGGACTTTG--AAGAAAAGATGCCACTGAGTCGTG
64 TGGAC--TTAAAAGGG-TGCCACAGAGTGGTGGACTTTGAAAAGAAAAGGTGCCACAGAGTTGTG
*
1570015 AACTT
126 GACTT
1570020 TCGGAAGGGA
Statistics
Matches: 593, Mismatches: 54, Indels: 37
0.87 0.08 0.05
Matches are distributed among these distances:
534 21 0.04
535 54 0.09
536 445 0.75
537 49 0.08
538 3 0.01
539 21 0.04
ACGTcount: A:0.34, C:0.13, G:0.31, T:0.21
Consensus pattern (536 bp):
CTTAAAAGGGAAAAAGATGCCACGAAGTTGTGGATTTAAAAGGAAAAAGATGCCACAGAGTTGTG
GACTTAAAAGGGTGCCACAGAGTGGTGGACTTTGAAAAGAAAAGGTGCCACAGAGTTGTGGACTT
AAGAGGAACAACGGTGCCACAGAATCGTGGACTTAAAAAGAAAAGGTGCCACGGAGTTGAGGACT
TATAAGGGTGCCACAGAGTTATGGACTTAAAAGGAAAAGTATGCCAAGTAGTTGTAGGCTTTAAA
AAGAAAAAGGTGCCACAGAGTTGTGGACTTACAAAGGTGCCACGGAGTTGTGGGCTTAAAAGGAA
AAAGAATGCCACAGAGTTGTAGGCTTTAAAAAGAAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
AGGTCCCATAGAGTGATGGACTTTGAAAAGAAAAGGTGCCACAGAGTTGTGGACTTAAGAGAAAC
AAGGGTGCCACGGAGTCGTGAACTTAAAAAGAAAAGATCCCACGAAGTCGTGGACTTATGAGGGT
GCCACAGAGTTATGGA
Found at i:1569922 original size:61 final size:62
Alignment explanation
Indices: 1569755--1570176 Score: 399
Period size: 61 Copynumber: 6.8 Consensus size: 62
1569745 AGGTCCCATA
* * * * * *
1569755 GAGTGGTGGACTTTGAAAAGAAAAGGTGCCA-TAGAGTTGTGGACTTAAGAGGAACAAGGGTGCC
1 GAGTCGTGGACTTTG--AAGAAAAGATGCCACT-GAGTCGTGGACTT-TGAAGAA-AA-GATGCC
1569819 A-T
60 ACT
* * * * * * * *
1569821 GGAGTTGTGAACTTAGAAGAAAATGATCCCATTGAGTCGTGGACTTAGAA-AAGAGATACCACT
1 -GAGTCGTGGACTTTGAAGAAAA-GATGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACT
** *
1569884 GAGTTATGGACTTTGAAGAAAAGATGCCATTGAGTCGTGGACTTTGAAGAAAAGATGCCACT
1 GAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACT
* **
1569946 GAGTCGTGGACTTT-TAGAAGGGATGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACT
1 GAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACT
* ** * * *
1570007 GAGTCGTGAACTTTCG--GAAGGGATGCCACTAAGTCGTGGACTTTGAAGAAAAAATGCCACA
1 GAGTCGTGGACTTT-GAAGAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACT
* * * *
1570068 GAGTCATGGACTTTGAAGAAAAGATGCCACGGAGTTGTGGACTTTGAAGAAAAGGATGCCATT
1 GAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAA-GATGCCACT
* * * *
1570131 GAGTCGTGGACTTAGAA-AAGAGATGCCATTGAGTTGTGGACTTTGA
1 GAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGA
1570177 GAAGAGAGAC
Statistics
Matches: 304, Mismatches: 42, Indels: 23
0.82 0.11 0.06
Matches are distributed among these distances:
60 1 0.00
61 134 0.44
62 104 0.34
63 23 0.08
64 2 0.01
65 10 0.03
66 17 0.06
67 13 0.04
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.24
Consensus pattern (62 bp):
GAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACT
Found at i:1569925 original size:31 final size:31
Alignment explanation
Indices: 1569755--1570176 Score: 399
Period size: 31 Copynumber: 13.5 Consensus size: 31
1569745 AGGTCCCATA
* *
1569755 GAGTGGTGGACTTTGAAAAGAAAAGGTGCCA-T
1 GAGTCGTGGACTTTG--AAGAAAAGATGCCACT
* * * *
1569787 AGAGTTGTGGACTTAAGAGGAACAAGGGTGCCA-T
1 -GAGTCGTGGACTT-TGAAGAA-AA-GATGCCACT
* * * * *
1569821 GGAGTTGTGAACTTAGAAGAAAATGATCCCATT
1 -GAGTCGTGGACTTTGAAGAAAA-GATGCCACT
* * *
1569854 GAGTCGTGGACTTAGAA-AAGAGATACCACT
1 GAGTCGTGGACTTTGAAGAAAAGATGCCACT
** *
1569884 GAGTTATGGACTTTGAAGAAAAGATGCCATT
1 GAGTCGTGGACTTTGAAGAAAAGATGCCACT
1569915 GAGTCGTGGACTTTGAAGAAAAGATGCCACT
1 GAGTCGTGGACTTTGAAGAAAAGATGCCACT
* **
1569946 GAGTCGTGGACTTT-TAGAAGGGATGCCACT
1 GAGTCGTGGACTTTGAAGAAAAGATGCCACT
1569976 GAGTCGTGGACTTTGAAGAAAAGATGCCACT
1 GAGTCGTGGACTTTGAAGAAAAGATGCCACT
* **
1570007 GAGTCGTGAACTTTCG--GAAGGGATGCCACT
1 GAGTCGTGGACTTT-GAAGAAAAGATGCCACT
* * *
1570037 AAGTCGTGGACTTTGAAGAAAAAATGCCACA
1 GAGTCGTGGACTTTGAAGAAAAGATGCCACT
* *
1570068 GAGTCATGGACTTTGAAGAAAAGATGCCACG
1 GAGTCGTGGACTTTGAAGAAAAGATGCCACT
* *
1570099 GAGTTGTGGACTTTGAAGAAAAGGATGCCATT
1 GAGTCGTGGACTTTGAAGAAAA-GATGCCACT
* * *
1570131 GAGTCGTGGACTTAGAA-AAGAGATGCCATT
1 GAGTCGTGGACTTTGAAGAAAAGATGCCACT
*
1570161 GAGTTGTGGACTTTGA
1 GAGTCGTGGACTTTGA
1570177 GAAGAGAGAC
Statistics
Matches: 328, Mismatches: 51, Indels: 23
0.82 0.13 0.06
Matches are distributed among these distances:
29 1 0.00
30 95 0.29
31 141 0.43
32 49 0.15
33 21 0.06
34 21 0.06
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.24
Consensus pattern (31 bp):
GAGTCGTGGACTTTGAAGAAAAGATGCCACT
Found at i:1569958 original size:92 final size:93
Alignment explanation
Indices: 1569815--1570176 Score: 417
Period size: 92 Copynumber: 3.9 Consensus size: 93
1569805 GGAACAAGGG
* * * * * * *
1569815 TGCCATGGAGTTGTGAACTTAGAAGAAAATGATCCCATTGAGTCGTGGACTTAGAAAAGAGATAC
1 TGCCACGGAGTCGTGAACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTAGAAAAGAGATGC
*
1569880 CACTGAGTTATGGACTTTGAAGAAAAGA
66 CACTGAGTCATGGACTTTGAAGAAAAGA
** * ** * *
1569908 TGCCATTGAGTCGTGGACTTTGAAGAAAA-GATGCCACTGAGTCGTGGACTTTTAGAAGGGATGC
1 TGCCACGGAGTCGTGAACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTAGAAAAGAGATGC
*
1569972 CACTGAGTCGTGGACTTTGAAGAAAAGA
66 CACTGAGTCATGGACTTTGAAGAAAAGA
* * * * * *
1570000 TGCCACTGAGTCGTGAACTTTCG--G-AAGGGATGCCACTAAGTCGTGGACTTTGAAGAAAAAAT
1 TGCCACGGAGTCGTGAACTTT-GAAGAAAAGGATGCCACTGAGTCGTGGACTTAGAA-AAGAGAT
*
1570062 GCCACAGAGTCATGGACTTTGAAGAAAAGA
64 GCCACTGAGTCATGGACTTTGAAGAAAAGA
* * *
1570092 TGCCACGGAGTTGTGGACTTTGAAGAAAAGGATGCCATTGAGTCGTGGACTTAGAAAAGAGATGC
1 TGCCACGGAGTCGTGAACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTAGAAAAGAGATGC
* **
1570157 CATTGAGTTGTGGACTTTGA
66 CACTGAGTCATGGACTTTGA
1570177 GAAGAGAGAC
Statistics
Matches: 226, Mismatches: 37, Indels: 12
0.82 0.13 0.04
Matches are distributed among these distances:
90 2 0.01
91 25 0.11
92 123 0.54
93 50 0.22
94 26 0.12
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.25
Consensus pattern (93 bp):
TGCCACGGAGTCGTGAACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTAGAAAAGAGATGC
CACTGAGTCATGGACTTTGAAGAAAAGA
Found at i:1575041 original size:70 final size:70
Alignment explanation
Indices: 1574928--1575059 Score: 167
Period size: 70 Copynumber: 1.9 Consensus size: 70
1574918 TTAACTAGAT
* * *
1574928 GTATCAATACGTTAAAAAATGTATCCATACATCTGGGTAAAAAACAGAATATATCAATACATTCA
1 GTATCAATACATTAAAAAATGTATCCATAAATCTAGGTAAAAAACAGAATATATCAATACATTCA
1574993 TACAC
66 TACAC
* * * * * *
1574998 GTATCGATACATTGAAAAATGTATCGATATAAT-TAGGTAAAAAATAGAATGTATCGATACAT
1 GTATCAATACATTAAAAAATGTATCCATA-AATCTAGGTAAAAAACAGAATATATCAATACAT
1575060 GTACTATTCA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
70 50 0.96
71 2 0.04
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (70 bp):
GTATCAATACATTAAAAAATGTATCCATAAATCTAGGTAAAAAACAGAATATATCAATACATTCA
TACAC
Found at i:1576182 original size:28 final size:28
Alignment explanation
Indices: 1576135--1576729 Score: 525
Period size: 28 Copynumber: 20.9 Consensus size: 28
1576125 TTAGAAGGGT
* * * *
1576135 TGCCACTAACTTATGTGCTTTAAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * * *
1576163 TGCCACTGATTTGTGAGCTTCGAAAGGT
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
1576191 TGCCACTAACTTTTGGGCTTGGAAAAGG-
1 TGCCACTGACTTGTGGGCTTTG-AAAGGA
* *
1576219 TGCTACTGACTTGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* ** *
1576247 TGCCACTAACTTGTGGATTTTGAAAGAA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* *
1576275 TGCCACTAACTTGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
1576303 TGCAACTGAATTGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
1576331 TGCAACTGAATTGTGGGCTTTGAGAGAGGT
1 TGCCACTGACTTGTGGGCTTTGA-A-AGGA
* * *
1576361 TGCCACCGACTTGTGTGAGCTTT-AAGGGG
1 TGCCACTGACTTGTG-G-GCTTTGAAAGGA
* * * *
1576390 TGCCACTAACTTATGGGCTTTAAGAGAGGT
1 TGCCACTGACTTGTGGGCTTT--GAAAGGA
* *
1576420 TGCCA-TCGACTTGTGTGGGCTTT-AAGGGG
1 TGCCACT-GAC-T-TGTGGGCTTTGAAAGGA
* *
1576449 TGCCACTGACTTGTGGACTTTGAGAGAGA
1 TGCCACTGACTTGTGGGCTTTGAAAG-GA
* *
1576478 TTGCCACCGACTTGTGGGCTTTAAGAAGGA
1 -TGCCACTGACTTGTGGGCTTTGA-AAGGA
* *
1576508 TGCTACTGACTTATGGGCTTTGAAAAGG-
1 TGCCACTGACTTGTGGGCTTTG-AAAGGA
* * *
1576536 TGTCAATGACTTATGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * * *
1576564 TGCCACTAACATGTGGGCTTCGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
*
1576592 TACCACTGACTTGTGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
*
1576620 TGCCACTGACTTGTGGGCTTTGAAAAAGA
1 TGCCACTGACTTGTGGGCTTTG-AAAGGA
*
1576649 TGCCACTAACTTGTGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
1576677 TGCCACTAACTCGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
**
1576705 TGCCACCAACTTGTGGGCTTTGAAA
1 TGCCACTGACTTGTGGGCTTTGAAA
1576730 AGGGTCGTAT
Statistics
Matches: 466, Mismatches: 81, Indels: 40
0.79 0.14 0.07
Matches are distributed among these distances:
27 24 0.05
28 292 0.63
29 81 0.17
30 50 0.11
31 5 0.01
32 14 0.03
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (28 bp):
TGCCACTGACTTGTGGGCTTTGAAAGGA
Done.