Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold591
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1432801
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.29
Warning! 160147 characters in sequence are not A, C, G, or T
File 4 of 4
Found at i:733326 original size:72 final size:72
Alignment explanation
Indices: 733170--733372 Score: 220
Period size: 72 Copynumber: 2.8 Consensus size: 72
733160 ACAAACTTAC
* * * * *
733170 AGTCTCATTCTTTGCACTAATAAAACACCCACTTACAGAGTCTCATTTTTTACACTAATACAAAG
1 AGTCTCATTCTTTACACTAATACAACGCACACTTACGGAG--TC--TTTTTACACTAATACAAAG
*
733235 CACACTTACTG
62 CACACTTACAG
733246 AG--TC--TCTTTACACTAATACAACGCACACTTACGGAGTCTTTTTACACTAATA-AAA-CACC
1 AGTCTCATTCTTTACACTAATACAACGCACACTTACGGAGTCTTTTTACACTAATACAAAGCA--
733305 CACTTACAG
64 CACTTACAG
* * * *
733314 AGTCTCATTCTTTACACTAATACAACGCAAACTTATGGAGTCTCTTTACATTAATACAA
1 AGTCTCATTCTTTACACTAATACAACGCACACTTACGGAGTCTTTTTACACTAATACAA
733373 TGAGCACTTA
Statistics
Matches: 110, Mismatches: 10, Indels: 17
0.80 0.07 0.12
Matches are distributed among these distances:
66 2 0.02
67 3 0.03
68 24 0.22
70 4 0.04
72 71 0.65
73 2 0.02
74 2 0.02
76 2 0.02
ACGTcount: A:0.35, C:0.26, G:0.08, T:0.31
Consensus pattern (72 bp):
AGTCTCATTCTTTACACTAATACAACGCACACTTACGGAGTCTTTTTACACTAATACAAAGCACA
CTTACAG
Found at i:733428 original size:78 final size:78
Alignment explanation
Indices: 733324--733487 Score: 222
Period size: 78 Copynumber: 2.1 Consensus size: 78
733314 AGTCTCATTC
* * * *
733324 TTTACACTAATACAACGCAAACTTATGGAGTCTCTTTACATTAATACAATGAGCACTTACGTATC
1 TTTACACTAATACAACGCAAACTTATGGAGTCTCTTAACACTAATACAACGAGCACTTACGCA-C
*
733389 -CTTATGGACTCTA
65 ACTTACGGACTCTA
* * ** *
733402 TTTACACTAATTCAATGCGCACTTATGGAGTTTCTTAACACTAATACAACGAGCACTTACGCACA
1 TTTACACTAATACAACGCAAACTTATGGAGTCTCTTAACACTAATACAACGAGCACTTACGCACA
733467 CTTACGGACTCTA
66 CTTACGGACTCTA
733480 TTTACACT
1 TTTACACT
733488 TTTTCATCAC
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
77 1 0.01
78 74 0.99
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (78 bp):
TTTACACTAATACAACGCAAACTTATGGAGTCTCTTAACACTAATACAACGAGCACTTACGCACA
CTTACGGACTCTA
Found at i:733504 original size:78 final size:80
Alignment explanation
Indices: 733324--733515 Score: 209
Period size: 78 Copynumber: 2.5 Consensus size: 80
733314 AGTCTCATTC
* * * * * *
733324 TTTACACTAATACAA--CGCAAACTTATGGAGTCTCTTTACATTAATACAATGAGCACTTACGTA
1 TTTACACTAATTCAATGCACAAACTTATGGAGTCTCTTAACACTAATACAACGAGCACTTACGCA
*
733387 TCCTTATGGACTCTA
66 TCCTTACGGACTCTA
* *
733402 TTTACACTAATTCAATGCGC--ACTTATGGAGTTTCTTAACACTAATACAACGAGCACTTACGCA
1 TTTACACTAATTCAATGCACAAACTTATGGAGTCTCTTAACACTAATACAACGAGCACTTACGCA
733465 -CACTTACGGACTCTA
66 TC-CTTACGGACTCTA
** * *
733480 TTTACACTTTTTC-AT-CACAAACTTACGGTGTCTCTT
1 TTTACACTAATTCAATGCACAAACTTATGGAGTCTCTT
733516 TACATCGTCC
Statistics
Matches: 96, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
76 2 0.02
77 3 0.03
78 88 0.92
80 3 0.03
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.34
Consensus pattern (80 bp):
TTTACACTAATTCAATGCACAAACTTATGGAGTCTCTTAACACTAATACAACGAGCACTTACGCA
TCCTTACGGACTCTA
Found at i:734681 original size:18 final size:19
Alignment explanation
Indices: 734658--734699 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
734648 ATTCCATTAA
734658 TTAAATTA-GCTTTAAAAT
1 TTAAATTATGCTTTAAAAT
**
734676 TTAAA-TATTTTTTAAAAT
1 TTAAATTATGCTTTAAAAT
734694 TTAAAT
1 TTAAAT
734700 ATTTTCCTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (19 bp):
TTAAATTATGCTTTAAAAT
Found at i:734700 original size:18 final size:18
Alignment explanation
Indices: 734668--734704 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
734658 TTAAATTAGC
734668 TTTAAAATTTAAATATTT
1 TTTAAAATTTAAATATTT
734686 TTTAAAATTTAAATATTT
1 TTTAAAATTTAAATATTT
734704 T
1 T
734705 CCTATATCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTAAAATTTAAATATTT
Found at i:736286 original size:1 final size:1
Alignment explanation
Indices: 736280--736312 Score: 66
Period size: 1 Copynumber: 33.0 Consensus size: 1
736270 TTAGAATAGC
736280 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
736313 GCACAGATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:736678 original size:2 final size:2
Alignment explanation
Indices: 736671--736716 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
736661 AATCCAGTGA
736671 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
736713 TC TC
1 TC TC
736717 CCCCCTAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:737000 original size:10 final size:9
Alignment explanation
Indices: 736960--737011 Score: 50
Period size: 9 Copynumber: 5.3 Consensus size: 9
736950 AACAGTGAAT
736960 ATACTGTAA
1 ATACTGTAA
*
736969 AGACTGATTGAA
1 ATACTG--T-AA
736981 ATACTGTAA
1 ATACTGTAA
*
736990 ATATGTGTAA
1 ATA-CTGTAA
737000 ATACTGTAA
1 ATACTGTAA
737009 ATA
1 ATA
737012 AACGACTGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
9 18 0.51
10 9 0.26
11 1 0.03
12 7 0.20
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (9 bp):
ATACTGTAA
Found at i:738423 original size:2 final size:2
Alignment explanation
Indices: 738370--738403 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
738360 CAAAAGATAC
738370 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
738404 GTGTGGAGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:745998 original size:2 final size:2
Alignment explanation
Indices: 745991--746040 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
745981 CTACAATATT
*
745991 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GG GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
746033 GA GA GA GA
1 GA GA GA GA
746041 NNNNNNNNNN
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:754802 original size:20 final size:20
Alignment explanation
Indices: 754777--754826 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
754767 AATTAATTGC
* *
754777 GACCTACCATCATGTCATGT
1 GACCTACCATCAAGTCACGT
754797 GACCTACCATCAAGTCACGT
1 GACCTACCATCAAGTCACGT
754817 GACCTACCAT
1 GACCTACCAT
754827 TGATTCTACC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.28, C:0.34, G:0.14, T:0.24
Consensus pattern (20 bp):
GACCTACCATCAAGTCACGT
Found at i:763209 original size:14 final size:14
Alignment explanation
Indices: 763190--763216 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
763180 TAGAAATTTC
763190 TTGAATATTTCATA
1 TTGAATATTTCATA
763204 TTGAATATTTCAT
1 TTGAATATTTCAT
763217 GTGTGTGCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.52
Consensus pattern (14 bp):
TTGAATATTTCATA
Found at i:768068 original size:28 final size:28
Alignment explanation
Indices: 768036--768290 Score: 312
Period size: 28 Copynumber: 9.1 Consensus size: 28
768026 ATCTCGGTCT
768036 TTAAGATAATCACGCATTACCTGTGACA
1 TTAAGATAATCACGCATTACCTGTGACA
* *
768064 TTAAGGTAATCACGAATTACCTGTGACA
1 TTAAGATAATCACGCATTACCTGTGACA
768092 TTAAGATAATCACGCATTACCTGTGACA
1 TTAAGATAATCACGCATTACCTGTGACA
* *
768120 TTAAGAAAATCATGCATTACCTGTGACA
1 TTAAGATAATCACGCATTACCTGTGACA
* * * *
768148 CTAAGGTAATCAAGCATTACCTGTCACA
1 TTAAGATAATCACGCATTACCTGTGACA
* * *
768176 TTAACATAATCAAGCATTACCTGTCACA
1 TTAAGATAATCACGCATTACCTGTGACA
* *
768204 TTAACATAATCACCCATTACCTGTGACA
1 TTAAGATAATCACGCATTACCTGTGACA
* * * *
768232 TAAAGGTAATCACACATTACCTGTCACA
1 TTAAGATAATCACGCATTACCTGTGACA
* * ** *
768260 TTGAGATAATCATGCACAATCTGTGACA
1 TTAAGATAATCACGCATTACCTGTGACA
768288 TTA
1 TTA
768291 GGATGGTATA
Statistics
Matches: 195, Mismatches: 32, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 195 1.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (28 bp):
TTAAGATAATCACGCATTACCTGTGACA
Found at i:770501 original size:33 final size:31
Alignment explanation
Indices: 770461--770927 Score: 627
Period size: 31 Copynumber: 14.7 Consensus size: 31
770451 CCTGGATAAT
770461 ACACACACCTGGTCAACAAGGATGTGATACCACAC
1 ACACACACCTGGTCAACAAGGATGTGAT---AC-C
* *
770496 ACACACACCTGATCATCAAGGATGTGATACC
1 ACACACACCTGGTCAACAAGGATGTGATACC
770527 ACACACACCTGGTCAACAAGGATGTGATACC
1 ACACACACCTGGTCAACAAGGATGTGATACC
* *
770558 ATACACACACCTGATCATCAAGGATGTGATACC
1 --ACACACACCTGGTCAACAAGGATGTGATACC
*
770591 ACACACACTTGGTCAACAAGGATGTGATACC
1 ACACACACCTGGTCAACAAGGATGTGATACC
770622 ATACACACACCTGGTCAACAAGGATGTGATACC
1 --ACACACACCTGGTCAACAAGGATGTGATACC
* *
770655 ACATACACCTGATCAACAAGGATGTGATACCAC
1 ACACACACCTGGTCAACAAGGATGTGATA-C-C
*
770688 ACACAAACACCTGATCAACAAGGATGTGATACC
1 ACAC--ACACCTGGTCAACAAGGATGTGATACC
* * * *
770721 ACATACACCTGATCATCAAGGATGTGTTACC
1 ACACACACCTGGTCAACAAGGATGTGATACC
770752 ACACACACCTGGTCAACAAGGATGTGATA-C
1 ACACACACCTGGTCAACAAGGATGTGATACC
*
770782 -CACACACTTGGTCAACAAGGATGTGATACC
1 ACACACACCTGGTCAACAAGGATGTGATACC
*
770812 ACACACA--TGGTCAACAAGGATGTGATACA
1 ACACACACCTGGTCAACAAGGATGTGATACC
*
770841 ACACACACTTGGTCAACAAGGATGTGATACCCC
1 ACACACACCTGGTCAACAAGGATGTGATA--CC
*
770874 ACACACACTTGGTCAACAAGGATGTGATACC
1 ACACACACCTGGTCAACAAGGATGTGATACC
*
770905 ACACACACCTGATCAACAAGGAT
1 ACACACACCTGGTCAACAAGGAT
770928 ATATACTGAA
Statistics
Matches: 393, Mismatches: 25, Indels: 32
0.87 0.06 0.07
Matches are distributed among these distances:
29 55 0.14
30 2 0.01
31 184 0.47
32 3 0.01
33 97 0.25
34 1 0.00
35 51 0.13
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (31 bp):
ACACACACCTGGTCAACAAGGATGTGATACC
Found at i:770530 original size:64 final size:63
Alignment explanation
Indices: 770462--770927 Score: 576
Period size: 64 Copynumber: 7.3 Consensus size: 63
770452 CTGGATAATA
* *
770462 CACACACCTGGTCAACAAGGATGTGATACCACACACACACACCTGATCATCAAGGATGTGATACC
1 CACACACCTGGTCAACAAGGATGTGATA-CACACACACACACCTGGTCAACAAGGATGTGATA-C
* * *
770527 ACACACACCTGGTCAACAAGGATGTGATAC-CATACACACACCTGATCATCAAGGATGTGATAC
1 -CACACACCTGGTCAACAAGGATGTGATACACACACACACACCTGGTCAACAAGGATGTGATAC
*
770590 CACACACACTTGGTCAACAAGGATGTGATAC-CATACACACACCTGGTCAACAAGGATGTGATAC
1 CACACAC-C-TGGTCAACAAGGATGTGATACACACACACACACCTGGTCAACAAGGATGTGATAC
* * *
770654 CACATACACCTGATCAACAAGGATGTGATACCACACACAAACACCTGATCAACAAGGATGTGATA
1 CAC--ACACCTGGTCAACAAGGATGTGATA-CACACACACACACCTGGTCAACAAGGATGTGATA
770719 C
63 C
* * *
770720 CACATACACCTGATCATCAAGGATGTG-T-TAC-CACACACACCTGGTCAACAAGGATGTGATAC
1 CAC--ACACCTGGTCAACAAGGATGTGATACACACACACACACCTGGTCAACAAGGATGTGATAC
*
770782 CACACACTTGGTCAACAAGGATGTGAT--AC-CACACACA--TGGTCAACAAGGATGTGATAC
1 CACACACCTGGTCAACAAGGATGTGATACACACACACACACCTGGTCAACAAGGATGTGATAC
* * *
770840 AACACACACTTGGTCAACAAGGATGTGATAC-CCCACACACACTTGGTCAACAAGGATGTGATAC
1 --CACACACCTGGTCAACAAGGATGTGATACACACACACACACCTGGTCAACAAGGATGTGATA-
770904 C
63 C
*
770905 ACACACACCTGATCAACAAGGAT
1 -CACACACCTGGTCAACAAGGAT
770928 ATATACTGAA
Statistics
Matches: 369, Mismatches: 16, Indels: 32
0.88 0.04 0.08
Matches are distributed among these distances:
58 21 0.06
60 56 0.15
61 2 0.01
62 47 0.13
63 4 0.01
64 146 0.40
65 5 0.01
66 88 0.24
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (63 bp):
CACACACCTGGTCAACAAGGATGTGATACACACACACACACCTGGTCAACAAGGATGTGATAC
Found at i:792036 original size:15 final size:16
Alignment explanation
Indices: 792013--792042 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
792003 AAGTTGAATT
792013 ATTTAAATTTTTAAAG
1 ATTTAAATTTTTAAAG
792029 ATTT-AATTTTTAAA
1 ATTTAAATTTTTAAA
792043 CTATGATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
ATTTAAATTTTTAAAG
Found at i:792714 original size:2 final size:2
Alignment explanation
Indices: 792707--792743 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
792697 ATTTATCCTG
792707 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
792744 ATGAACCTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:797341 original size:2 final size:2
Alignment explanation
Indices: 797334--797379 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
797324 TAAAGTCAAT
*
797334 TC TC TC TC TC TC TC T- TT TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
797375 TC TC T
1 TC TC T
797380 GAGGTGGGAG
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (2 bp):
TC
Found at i:798789 original size:18 final size:18
Alignment explanation
Indices: 798766--798800 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
798756 ATGAAGATTT
* *
798766 TACATATAATATTCAATG
1 TACATAAAACATTCAATG
798784 TACATAAAACATTCAAT
1 TACATAAAACATTCAAT
798801 ATGAATATGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.14, G:0.03, T:0.34
Consensus pattern (18 bp):
TACATAAAACATTCAATG
Found at i:800613 original size:2 final size:2
Alignment explanation
Indices: 800606--800650 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
800596 TACAATATAA
800606 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
800648 TC T
1 TC T
800651 TAATGTTTCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:800698 original size:12 final size:12
Alignment explanation
Indices: 800681--800708 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
800671 GAAGGAATAT
800681 AATTTGTGATAA
1 AATTTGTGATAA
800693 AATTTGTGATAA
1 AATTTGTGATAA
800705 AATT
1 AATT
800709 GCTATATGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (12 bp):
AATTTGTGATAA
Found at i:805532 original size:1 final size:1
Alignment explanation
Indices: 805526--805558 Score: 66
Period size: 1 Copynumber: 33.0 Consensus size: 1
805516 CCACTTCATA
805526 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
805559 TCCTTCCACC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:805917 original size:2 final size:2
Alignment explanation
Indices: 805910--805966 Score: 105
Period size: 2 Copynumber: 28.5 Consensus size: 2
805900 NNNNNNNNNN
*
805910 CT CT CT CT CT CT CT CT CT CT CT CT CC CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
805952 CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT C
805967 CATGCAGATG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
CT
Found at i:813388 original size:2 final size:2
Alignment explanation
Indices: 813371--813436 Score: 114
Period size: 2 Copynumber: 33.0 Consensus size: 2
813361 GATTAAGTAA
* *
813371 AG AG AA AG AT AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
813413 AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG
813437 CGCACTCGCG
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.52, C:0.00, G:0.47, T:0.02
Consensus pattern (2 bp):
AG
Found at i:813894 original size:4 final size:4
Alignment explanation
Indices: 813885--813921 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
813875 AGACAACATT
813885 TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC T
1 TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC T
813922 CTCTCTCTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.00, C:0.24, G:0.24, T:0.51
Consensus pattern (4 bp):
TGTC
Found at i:813926 original size:2 final size:2
Alignment explanation
Indices: 813919--813946 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
813909 TGTCTGTCTG
813919 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
813947 AGTTTCAATG
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:823002 original size:172 final size:172
Alignment explanation
Indices: 822716--823070 Score: 710
Period size: 172 Copynumber: 2.1 Consensus size: 172
822706 ATTATATTTA
822716 TATTTTATATTTCCAATTATATTGTGGAATAAACACAAATGTCCTGAAATATAAACTATATTTGG
1 TATTTTATATTTCCAATTATATTGTGGAATAAACACAAATGTCCTGAAATATAAACTATATTTGG
822781 GCTCGGGTCGAAAACGAGAAGAGGGTTCAGCAAGCCTAACTCTCTGTCATGTTTTCTTAGCCCGC
66 GCTCGGGTCGAAAACGAGAAGAGGGTTCAGCAAGCCTAACTCTCTGTCATGTTTTCTTAGCCCGC
822846 CTAATTATAGCTTAACTCATATATTTTAAGACAGTAACCATG
131 CTAATTATAGCTTAACTCATATATTTTAAGACAGTAACCATG
822888 TATTTTATATTTCCAATTATATTGTGGAATAAACACAAATGTCCTGAAATATAAACTATATTTGG
1 TATTTTATATTTCCAATTATATTGTGGAATAAACACAAATGTCCTGAAATATAAACTATATTTGG
822953 GCTCGGGTCGAAAACGAGAAGAGGGTTCAGCAAGCCTAACTCTCTGTCATGTTTTCTTAGCCCGC
66 GCTCGGGTCGAAAACGAGAAGAGGGTTCAGCAAGCCTAACTCTCTGTCATGTTTTCTTAGCCCGC
823018 CTAATTATAGCTTAACTCATATATTTTAAGACAGTAACCATG
131 CTAATTATAGCTTAACTCATATATTTTAAGACAGTAACCATG
823060 TATTTTATATT
1 TATTTTATATT
823071 AATGACCCTT
Statistics
Matches: 183, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
172 183 1.00
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.34
Consensus pattern (172 bp):
TATTTTATATTTCCAATTATATTGTGGAATAAACACAAATGTCCTGAAATATAAACTATATTTGG
GCTCGGGTCGAAAACGAGAAGAGGGTTCAGCAAGCCTAACTCTCTGTCATGTTTTCTTAGCCCGC
CTAATTATAGCTTAACTCATATATTTTAAGACAGTAACCATG
Found at i:830302 original size:8 final size:8
Alignment explanation
Indices: 830289--830318 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
830279 CAAATAAGGT
830289 TTTTATGA
1 TTTTATGA
830297 TTTTATGA
1 TTTTATGA
830305 TTTTATAGA
1 TTTTAT-GA
830314 TTTTA
1 TTTTA
830319 ATACTTTGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 14 0.67
9 7 0.33
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (8 bp):
TTTTATGA
Found at i:831189 original size:5 final size:5
Alignment explanation
Indices: 831170--831288 Score: 147
Period size: 5 Copynumber: 24.0 Consensus size: 5
831160 CTGTAAAGTG
831170 CGAAA CGAAA TCGAAA CGAAA CGAAA CGAAA CGAAA TCG-AA CGAAA CGAAA
1 CGAAA CGAAA -CGAAA CGAAA CGAAA CGAAA CGAAA -CGAAA CGAAA CGAAA
* * * *
831221 CGAAA CCAAT CGAAA CGAAA CGAAA TC-AAA CGAAA CGAAA CCAAA --AAT
1 CGAAA CGAAA CGAAA CGAAA CGAAA -CGAAA CGAAA CGAAA CGAAA CGAAA
831269 CGAAA CGAAA CGAAA CGAAA
1 CGAAA CGAAA CGAAA CGAAA
831289 TTTAAACAAA
Statistics
Matches: 100, Mismatches: 7, Indels: 14
0.83 0.06 0.12
Matches are distributed among these distances:
3 2 0.02
4 3 0.03
5 87 0.87
6 8 0.08
ACGTcount: A:0.58, C:0.21, G:0.17, T:0.04
Consensus pattern (5 bp):
CGAAA
Found at i:831548 original size:2 final size:2
Alignment explanation
Indices: 831536--831592 Score: 107
Period size: 2 Copynumber: 29.0 Consensus size: 2
831526 TAGACGCTTT
831536 GA GA GA G- GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
831577 GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA
831593 TGCCTTAAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 53 0.98
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:832276 original size:30 final size:30
Alignment explanation
Indices: 832240--832303 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
832230 GGGGAAAGAG
*
832240 GGTATCATGTTTGATTTAAGGTTAAAAACA
1 GGTATCAAGTTTGATTTAAGGTTAAAAACA
832270 GGTATCAAGTTTGATTTAAGGTTAAAAACA
1 GGTATCAAGTTTGATTTAAGGTTAAAAACA
832300 GGTA
1 GGTA
832304 AAAACATCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.38, C:0.06, G:0.22, T:0.34
Consensus pattern (30 bp):
GGTATCAAGTTTGATTTAAGGTTAAAAACA
Found at i:832596 original size:2 final size:2
Alignment explanation
Indices: 832589--832635 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
832579 TTTTAAGGCA
832589 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
832631 TC TC T
1 TC TC T
832636 AAACGTCTGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:832878 original size:5 final size:5
Alignment explanation
Indices: 832870--833005 Score: 159
Period size: 5 Copynumber: 26.4 Consensus size: 5
832860 GTTTAAATTC
*
832870 CGTTT CGTTT CGTTT CGATTTT TGATTT CGTTT CGTTT -GATTT CGTTT
1 CGTTT CGTTT CGTTT CG--TTT CG-TTT CGTTT CGTTT CG-TTT CGTTT
* * * *
832918 CGTTT CGATT GGTTT CGTTT CGTTT CGATT GGTTT CGTTT CGTTT CG-TT
1 CGTTT CGTTT CGTTT CGTTT CGTTT CGTTT CGTTT CGTTT CGTTT CGTTT
832967 CGATTT CGTTT CGTTT CGTTT CGTTT CGATTT CGTTT CG
1 CG-TTT CGTTT CGTTT CGTTT CGTTT CG-TTT CGTTT CG
833006 CACTTTACAG
Statistics
Matches: 113, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
4 5 0.04
5 90 0.80
6 14 0.12
7 4 0.04
ACGTcount: A:0.05, C:0.17, G:0.21, T:0.57
Consensus pattern (5 bp):
CGTTT
Found at i:834848 original size:17 final size:18
Alignment explanation
Indices: 834826--834859 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
834816 ATACATTAGA
*
834826 TAGATA-ATTTAAAAAGT
1 TAGATACATGTAAAAAGT
834843 TAGATACATGTAAAAAG
1 TAGATACATGTAAAAAG
834860 CTCGATCTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.53, C:0.03, G:0.15, T:0.29
Consensus pattern (18 bp):
TAGATACATGTAAAAAGT
Found at i:838069 original size:1 final size:1
Alignment explanation
Indices: 838063--838091 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
838053 NNNNNNNNNN
838063 CCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCC
838092 GATGCTACGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:843242 original size:30 final size:30
Alignment explanation
Indices: 843203--843379 Score: 142
Period size: 30 Copynumber: 5.9 Consensus size: 30
843193 CCCCTTCTCC
* **
843203 CCAC-CCTGGATCTACACCCCTCAGAAAAT
1 CCACTCCTGGATCTACACCACTGGGAAAAT
* * * * *
843232 CCACTTCTGGATTTACTCC-CGTCGGAAAGT
1 CCACTCCTGGATCTACACCAC-TGGGAAAAT
* * *
843262 CCACCCCTGGATCTACGCCACTGGGGAAAT
1 CCACTCCTGGATCTACACCACTGGGAAAAT
* * * * *
843292 CGACTCCTGGATTTACTCCAGTGGGAAAGT
1 CCACTCCTGGATCTACACCACTGGGAAAAT
* *
843322 CCACTTCTGGATCTACGCCACTGGGAAAAT
1 CCACTCCTGGATCTACACCACTGGGAAAAT
* * *
843352 CCACTCCTGGATCGACACCCCTAGGAAA
1 CCACTCCTGGATCTACACCACTGGGAAA
843380 GACCTTTACT
Statistics
Matches: 115, Mismatches: 30, Indels: 5
0.77 0.20 0.03
Matches are distributed among these distances:
29 5 0.04
30 109 0.95
31 1 0.01
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.21
Consensus pattern (30 bp):
CCACTCCTGGATCTACACCACTGGGAAAAT
Found at i:843272 original size:60 final size:60
Alignment explanation
Indices: 843206--843363 Score: 217
Period size: 60 Copynumber: 2.6 Consensus size: 60
843196 CTTCTCCCCA
* * ** * *
843206 CCCTGGATCTACACCCCTCAGAAAATCCACTTCTGGATTTACTCCCGTCGGAAAGTCCAC
1 CCCTGGATCTACGCCACTGGGAAAATCCACTCCTGGATTTACTCCAGTCGGAAAGTCCAC
* * *
843266 CCCTGGATCTACGCCACTGGGGAAATCGACTCCTGGATTTACTCCAGTGGGAAAGTCCAC
1 CCCTGGATCTACGCCACTGGGAAAATCCACTCCTGGATTTACTCCAGTCGGAAAGTCCAC
**
843326 TTCTGGATCTACGCCACTGGGAAAATCCACTCCTGGAT
1 CCCTGGATCTACGCCACTGGGAAAATCCACTCCTGGAT
843364 CGACACCCCT
Statistics
Matches: 85, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 85 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.23
Consensus pattern (60 bp):
CCCTGGATCTACGCCACTGGGAAAATCCACTCCTGGATTTACTCCAGTCGGAAAGTCCAC
Found at i:855874 original size:18 final size:18
Alignment explanation
Indices: 855838--855889 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
855828 ATTTTTCTGC
* * *
855838 TTTCAAACAGTAGAGATG
1 TTTCAAACACTTGACATG
* *
855856 TTTCATACATTTGACATG
1 TTTCAAACACTTGACATG
855874 TTTCAAACACTTGACA
1 TTTCAAACACTTGACA
855890 ATCAGCCCTG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (18 bp):
TTTCAAACACTTGACATG
Found at i:859097 original size:14 final size:14
Alignment explanation
Indices: 859078--859108 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
859068 GACTCGCTGG
859078 TAAGTTTGACATCA
1 TAAGTTTGACATCA
859092 TAAGTTTGACATCA
1 TAAGTTTGACATCA
859106 TAA
1 TAA
859109 CTGTGGATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (14 bp):
TAAGTTTGACATCA
Found at i:870498 original size:21 final size:21
Alignment explanation
Indices: 870472--870514 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
870462 ACTTCAAGAA
**
870472 CTGCAATATATTTCTTTTTGT
1 CTGCAATATATGCCTTTTTGT
870493 CTGCAATATATGCCTTTTTGT
1 CTGCAATATATGCCTTTTTGT
870514 C
1 C
870515 CATTTGTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.19, C:0.19, G:0.12, T:0.51
Consensus pattern (21 bp):
CTGCAATATATGCCTTTTTGT
Found at i:882531 original size:2 final size:2
Alignment explanation
Indices: 882526--882564 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
882516 GCAAGATAGA
882526 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
882565 ATGGTCTACC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:886518 original size:55 final size:55
Alignment explanation
Indices: 886426--886555 Score: 179
Period size: 55 Copynumber: 2.3 Consensus size: 55
886416 TGTTTGTCAT
* * * * *
886426 AGTCCAGGCTCTGTTGAGATCTCGTTGGTATACTATTACTTGTACATGGATTGCCAG
1 AGTCCAAGCTCTG-TG-GATCTCGATGGTATAATATTACTTGTACATAGATTGCCAC
*
886483 AGTCCAAGCTCTGTGGATCTTGATGGTATAATATTACTTGTACATAGATTGCCAC
1 AGTCCAAGCTCTGTGGATCTCGATGGTATAATATTACTTGTACATAGATTGCCAC
*
886538 AATCCAAGCTCTGTGGAT
1 AGTCCAAGCTCTGTGGAT
886556 ATCAGTTGTA
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 52 0.79
56 2 0.03
57 12 0.18
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (55 bp):
AGTCCAAGCTCTGTGGATCTCGATGGTATAATATTACTTGTACATAGATTGCCAC
Found at i:887475 original size:15 final size:15
Alignment explanation
Indices: 887455--887484 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
887445 GTAAACTGAA
*
887455 GCGTCCGGTTATCTG
1 GCGTCCGGATATCTG
887470 GCGTCCGGATATCTG
1 GCGTCCGGATATCTG
887485 AGGCCCCACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.27, G:0.33, T:0.30
Consensus pattern (15 bp):
GCGTCCGGATATCTG
Found at i:889096 original size:15 final size:15
Alignment explanation
Indices: 889076--889105 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
889066 GTAAACTGAA
*
889076 GCGTCCGGTTATCTG
1 GCGTCCGGATATCTG
889091 GCGTCCGGATATCTG
1 GCGTCCGGATATCTG
889106 AGGCCCCACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.27, G:0.33, T:0.30
Consensus pattern (15 bp):
GCGTCCGGATATCTG
Found at i:889194 original size:2 final size:2
Alignment explanation
Indices: 889187--889250 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
889177 CGTTTAAAAT
889187 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
889229 GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA
889251 ATAAATAAAC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:889956 original size:58 final size:57
Alignment explanation
Indices: 889840--889959 Score: 143
Period size: 58 Copynumber: 2.1 Consensus size: 57
889830 TGGTTAATTC
* ** * *
889840 TTCTGTAAATAAATTACGAGAGTATTGTTTTGTTTCTTTTCCATAGAGTTTAAAGGA
1 TTCTGTAAATAAATTACGAGAGCATTGTTTTGTTTCAGTTCCATAAAATTTAAAGGA
* * *
889897 TTCTGTAAATAAATTTA-GAGAGCCTTATTTTTGTTTCAGTTCCGTAAAATTTAAAGGA
1 TTCTGTAAATAAA-TTACGAGAGCATT-GTTTTGTTTCAGTTCCATAAAATTTAAAGGA
889955 TTCTG
1 TTCTG
889960 CACTAAATGA
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
57 20 0.38
58 33 0.62
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.43
Consensus pattern (57 bp):
TTCTGTAAATAAATTACGAGAGCATTGTTTTGTTTCAGTTCCATAAAATTTAAAGGA
Found at i:892459 original size:33 final size:33
Alignment explanation
Indices: 892422--892541 Score: 213
Period size: 33 Copynumber: 3.6 Consensus size: 33
892412 AAACATCCAT
892422 CCAATCACAGCCCATCTCATCACAGAGACTTAG
1 CCAATCACAGCCCATCTCATCACAGAGACTTAG
*
892455 CCAATCACAGCCCATCTCATCACAGAGACCTAG
1 CCAATCACAGCCCATCTCATCACAGAGACTTAG
*
892488 CCAACCACAGCCCATCTCATCACAGAGACTTAG
1 CCAATCACAGCCCATCTCATCACAGAGACTTAG
*
892521 CCAATCGCAGCCCATCTCATC
1 CCAATCACAGCCCATCTCATC
892542 CAGCCAATCA
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 82 1.00
ACGTcount: A:0.32, C:0.40, G:0.12, T:0.17
Consensus pattern (33 bp):
CCAATCACAGCCCATCTCATCACAGAGACTTAG
Found at i:900290 original size:25 final size:25
Alignment explanation
Indices: 900256--900305 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
900246 ACGTTAACAG
*
900256 GTAGCGACCAGGTGTAAAAATGTGT
1 GTAGCGACCAGGTGCAAAAATGTGT
900281 GTAGCGACCAGGTGCAAAAATGTGT
1 GTAGCGACCAGGTGCAAAAATGTGT
900306 CGGGTTTTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.32, C:0.14, G:0.32, T:0.22
Consensus pattern (25 bp):
GTAGCGACCAGGTGCAAAAATGTGT
Found at i:911355 original size:23 final size:25
Alignment explanation
Indices: 911325--911371 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 25
911315 CCCCCCTCCC
911325 CATGATCAATTC-AAA-TTGATCAA
1 CATGATCAATTCAAAACTTGATCAA
911348 CATGATCAATTCAAAACTTGATCA
1 CATGATCAATTCAAAACTTGATCA
911372 TGTTGGGGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 12 0.55
24 3 0.14
25 7 0.32
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.30
Consensus pattern (25 bp):
CATGATCAATTCAAAACTTGATCAA
Found at i:913874 original size:15 final size:15
Alignment explanation
Indices: 913856--913948 Score: 60
Period size: 15 Copynumber: 5.4 Consensus size: 15
913846 CATCCATACC
913856 TCCCATACCCATGGA
1 TCCCATACCCATGGA
*
913871 TCCCATGCCGCCATCGGAAGA
1 TCCCAT-AC-CCAT--G--GA
913892 TCCCATACCCATGGA
1 TCCCATACCCATGGA
*
913907 TCCCATGCCGCCATCGAAAGA
1 TCCCAT-AC-CCAT-G---GA
913928 TCCCATACCCATGGA
1 TCCCATACCCATGGA
913943 TCCCAT
1 TCCCAT
913949 GCCGGTATCG
Statistics
Matches: 62, Mismatches: 4, Indels: 24
0.69 0.04 0.27
Matches are distributed among these distances:
15 22 0.35
16 2 0.03
17 9 0.15
18 2 0.03
19 9 0.15
20 2 0.03
21 16 0.26
ACGTcount: A:0.26, C:0.40, G:0.16, T:0.18
Consensus pattern (15 bp):
TCCCATACCCATGGA
Found at i:913895 original size:21 final size:21
Alignment explanation
Indices: 913869--913933 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
913859 CATACCCATG
913869 GATCCCATGCCGCCATCGGAA
1 GATCCCATGCCGCCATCGGAA
*
913890 GATCCCAT-AC-CCAT--G--
1 GATCCCATGCCGCCATCGGAA
*
913905 GATCCCATGCCGCCATCGAAA
1 GATCCCATGCCGCCATCGGAA
913926 GATCCCAT
1 GATCCCAT
913934 ACCCATGGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 12
0.70 0.06 0.24
Matches are distributed among these distances:
15 8 0.23
16 1 0.03
17 5 0.14
19 4 0.11
20 1 0.03
21 16 0.46
ACGTcount: A:0.26, C:0.38, G:0.18, T:0.17
Consensus pattern (21 bp):
GATCCCATGCCGCCATCGGAA
Found at i:914031 original size:36 final size:36
Alignment explanation
Indices: 913856--914040 Score: 291
Period size: 36 Copynumber: 5.1 Consensus size: 36
913846 CATCCATACC
*
913856 TCCCATACCCATGGATCCCATGCCGCCATCGGA-AGA
1 TCCCATACCCATGGATCCCATGCCGCTATC-GACAGA
* *
913892 TCCCATACCCATGGATCCCATGCCGCCATCGAAAGA
1 TCCCATACCCATGGATCCCATGCCGCTATCGACAGA
*
913928 TCCCATACCCATGGATCCCATGCCGGTATCGACAGA
1 TCCCATACCCATGGATCCCATGCCGCTATCGACAGA
913964 TCCCATACCCATGGATCCCATGCCGCTATCGACAGA
1 TCCCATACCCATGGATCCCATGCCGCTATCGACAGA
* **
914000 TCTCATACCCATGGATCCCATGCCGCTATCGATGGA
1 TCCCATACCCATGGATCCCATGCCGCTATCGACAGA
914036 TCCCA
1 TCCCA
914041 GACTTCCAAA
Statistics
Matches: 140, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
35 2 0.01
36 138 0.99
ACGTcount: A:0.25, C:0.38, G:0.18, T:0.19
Consensus pattern (36 bp):
TCCCATACCCATGGATCCCATGCCGCTATCGACAGA
Found at i:916343 original size:15 final size:15
Alignment explanation
Indices: 916325--916417 Score: 60
Period size: 15 Copynumber: 5.4 Consensus size: 15
916315 CATCCATACC
916325 TCCCATACCCATGGA
1 TCCCATACCCATGGA
*
916340 TCCCATGCCGCCATCGGAAGA
1 TCCCAT-AC-CCAT--G--GA
916361 TCCCATACCCATGGA
1 TCCCATACCCATGGA
*
916376 TCCCATGCCGCCATCGAAAGA
1 TCCCAT-AC-CCAT-G---GA
916397 TCCCATACCCATGGA
1 TCCCATACCCATGGA
916412 TCCCAT
1 TCCCAT
916418 GCCGGTATCG
Statistics
Matches: 62, Mismatches: 4, Indels: 24
0.69 0.04 0.27
Matches are distributed among these distances:
15 22 0.35
16 2 0.03
17 9 0.15
18 2 0.03
19 9 0.15
20 2 0.03
21 16 0.26
ACGTcount: A:0.26, C:0.40, G:0.16, T:0.18
Consensus pattern (15 bp):
TCCCATACCCATGGA
Found at i:916364 original size:21 final size:21
Alignment explanation
Indices: 916338--916402 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
916328 CATACCCATG
916338 GATCCCATGCCGCCATCGGAA
1 GATCCCATGCCGCCATCGGAA
*
916359 GATCCCAT-AC-CCAT--G--
1 GATCCCATGCCGCCATCGGAA
*
916374 GATCCCATGCCGCCATCGAAA
1 GATCCCATGCCGCCATCGGAA
916395 GATCCCAT
1 GATCCCAT
916403 ACCCATGGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 12
0.70 0.06 0.24
Matches are distributed among these distances:
15 8 0.23
16 1 0.03
17 5 0.14
19 4 0.11
20 1 0.03
21 16 0.46
ACGTcount: A:0.26, C:0.38, G:0.18, T:0.17
Consensus pattern (21 bp):
GATCCCATGCCGCCATCGGAA
Found at i:916436 original size:21 final size:20
Alignment explanation
Indices: 916410--916474 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 20
916400 CATACCCATG
916410 GATCCCATGCCGGTATCGAAA
1 GATCCCATGCCGGTATCG-AA
* *
916431 GATCCCATACC--CAT-G--
1 GATCCCATGCCGGTATCGAA
916446 GATCCCATGCCGGTATCGACA
1 GATCCCATGCCGGTATCGA-A
916467 GATCCCAT
1 GATCCCAT
916475 ACCCATGGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
15 10 0.29
17 2 0.06
18 2 0.06
19 2 0.06
21 18 0.53
ACGTcount: A:0.26, C:0.34, G:0.20, T:0.20
Consensus pattern (20 bp):
GATCCCATGCCGGTATCGAA
Found at i:916536 original size:36 final size:36
Alignment explanation
Indices: 916325--916545 Score: 352
Period size: 36 Copynumber: 6.1 Consensus size: 36
916315 CATCCATACC
* *
916325 TCCCATACCCATGGATCCCATGCCGCCATCGGAAGA
1 TCCCATACCCATGGATCCCATGCCGCTATCGAAAGA
*
916361 TCCCATACCCATGGATCCCATGCCGCCATCGAAAGA
1 TCCCATACCCATGGATCCCATGCCGCTATCGAAAGA
*
916397 TCCCATACCCATGGATCCCATGCCGGTATCGAAAGA
1 TCCCATACCCATGGATCCCATGCCGCTATCGAAAGA
* *
916433 TCCCATACCCATGGATCCCATGCCGGTATCGACAGA
1 TCCCATACCCATGGATCCCATGCCGCTATCGAAAGA
*
916469 TCCCATACCCATGGATCCCATGCCGCTATCGACAGA
1 TCCCATACCCATGGATCCCATGCCGCTATCGAAAGA
* **
916505 TCTCATACCCATGGATCCCATGCCGCTATCGATGGA
1 TCCCATACCCATGGATCCCATGCCGCTATCGAAAGA
916541 TCCCA
1 TCCCA
916546 GACTTCCAAA
Statistics
Matches: 176, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 176 1.00
ACGTcount: A:0.25, C:0.37, G:0.18, T:0.19
Consensus pattern (36 bp):
TCCCATACCCATGGATCCCATGCCGCTATCGAAAGA
Found at i:921544 original size:11 final size:11
Alignment explanation
Indices: 921528--921564 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
921518 ATATTGTGTA
921528 TTTTCAATTAC
1 TTTTCAATTAC
921539 TTTTCAATTAC
1 TTTTCAATTAC
*
921550 ATTTCAATTAC
1 TTTTCAATTAC
921561 TTTT
1 TTTT
921565 TTTCCAAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.27, C:0.16, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTCAATTAC
Found at i:922169 original size:32 final size:33
Alignment explanation
Indices: 922118--922179 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
922108 AAATAAAACT
*
922118 AAAGTATTTGAAATGTAATTAATTACATTTATC
1 AAAGTAATTGAAATGTAATTAATTACATTTATC
*
922151 AAAGTAATTGAGA-GTAATTAATTACATTT
1 AAAGTAATTGAAATGTAATTAATTACATTT
922180 TAAAAAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 16 0.59
33 11 0.41
ACGTcount: A:0.44, C:0.05, G:0.11, T:0.40
Consensus pattern (33 bp):
AAAGTAATTGAAATGTAATTAATTACATTTATC
Found at i:923183 original size:166 final size:166
Alignment explanation
Indices: 922909--924234 Score: 1404
Period size: 166 Copynumber: 8.1 Consensus size: 166
922899 GGTATTTTTC
* * ** * *
922909 AAAAATCTTCTTCTCAAAAACTATTCA-GCCGGAAAAGCTTAAACTT-GTGTGGAGGCATTCTCA
1 AAAAATCTTCTTCTCAAAAACTATT-AGGCCAGAAAAGCTCAAA-TTAAAGTGGAAGCATCCTCA
* **
922972 GGTAGTGTAGATTCACGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAAGAGGGG
64 GGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATTGGGG
923037 GATCAAGTTTTACATAGGAATATATAGAGAAAATCTTT
129 GATCAAGTTTTACATAGGAATATATAGAGAAAATCTTT
* * * *
923075 AAAAATCTTCTTCTCAAAAACTATCAGGCCAGAAAAGCTCAAATTAAAATGGGAGTATCCTCAGG
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAGTGGAAGCATCCTCAGG
* * *
923140 TAGTGTAGATTTAAGTCTGTTCAAATCATGGTCCCCGGGGGTAGGATGGGGCCACAATTGGGGGA
66 TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATTGGGGGA
923205 TCAAGTTTTACATAGGAATATATAGAGAAAATCTTT
131 TCAAGTTTTACATAGGAATATATAGAGAAAATCTTT
* * * **
923241 AAAAATCTTCTTCTCAAAAACTATTAGGCTAGGAAAGCTCAACTTTGAGTGGAAGCATCCTCAGG
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAGTGGAAGCATCCTCAGG
* * *
923306 TAGTGTAGATTCAAGTTTCTTTAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATAGGGGGA
66 TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATTGGGGGA
*** * *
923371 TTGTGTTTTAAATAGGAATATATAGAGAAAATTTTT
131 TCAAGTTTTACATAGGAATATATAGAGAAAATCTTT
* * * *
923407 TAAAATCCTCTTCTCAAAAACTATTTGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGG
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAGTGGAAGCATCCTCAGG
* * * *
923472 TAGTGTAGATTTAAGTCTGTTCAAATCATGATCCCTGGGGGTAGGGTGGGGCCACAATTGGGGGA
66 TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATTGGGGGA
*
923537 TCAAGTTTTACAAAGGAATATATATAGAGAAAATCTTT
131 TCAAGTTTTACATAGG-A-ATATATAGAGAAAATCTTT
* * * *
923575 AAAAATCTTATTCTCAAAATCTATTAGGCCAGATAAGCTCAAATTAAAATGGAAGCATCCTCAGG
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAGTGGAAGCATCCTCAGG
* * * *
923640 TAGTGTAGATTCACGTTTCTTCAAATCATAGTCCCCAGGGGTAGGGTGGGGCCACAATTGGGGGA
66 TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATTGGGGGA
* * *
923705 TCAATTTTTACATAAGAGTATATAGAGAAAATCTTTT
131 TCAAGTTTTACATAGGAATATATAGAGAAAATC-TTT
* * * * *** * *
923742 AAAAAT-TTCTT-TTAAAAACTTTTGGGCCA-AGAAATCTCAAATTGGCGTGTAACCATCCTCAG
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGA-AAAGCTCAAATTAAAGTGGAAGCATCCTCAG
* * * *
923804 ATAATGTAGATTCAAGTTTGTTCAAATCATGGTCCCTGGGGGTAGGGCGGGGCCACAA-TGGGGG
65 GTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATTGGGGG
923868 AT-ACA-TTTT---T----ATATATAGAGAAAATCTTT
130 ATCA-AGTTTTACATAGGAATATATAGAGAAAATCTTT
* * * * ** * * *
923897 AAAAGTCTTCTTCTC-AAAAGTATTAGGCCAGGAAAGCCCAAATTTGAGTGGAGGCATCCCCAGA
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAGTGGAAGCATCCTCAGG
* * * * * *
923961 TCA-TATAGATTCAAGTTTGTTTAAATAATAGT--CCAGGGGTAGGGTGAGGCCACAA-TGGGGG
66 T-AGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATTGGGGG
* * * *
924022 ATGAAATTTTACTTAGGAATATATAGAAAAAATCTTT
130 ATCAAGTTTTACATAGGAATATATAGAGAAAATCTTT
* * * * * * * ** * * *
924059 CAAAATCTTCTTTTTAAAGACTATTTGGCCAGAAAAGCTTTAACTT-GTGTAGAGGCATCCTCGG
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGC-TCAAATTAAAGTGGAAGCATCCTCAG
* ** ** * * * ***
924123 GTAGTGTAAATTCAAGTTTG--CAAAATCACAGTCCCTAGTGGTAGGGCGGGACCGTGA-TGGCG
65 GTAGTGTAGATTCAAGTTTGTTC-AAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATTGG-G
** * *
924185 GTTTGAATTTTTACATAGGAATATATAGAGAAAATCTTT
128 GGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTT
*
924224 AAAAATATTCT
1 AAAAATCTTCT
924235 GGGAAAGTTT
Statistics
Matches: 976, Mismatches: 157, Indels: 55
0.82 0.13 0.05
Matches are distributed among these distances:
154 28 0.03
155 13 0.01
156 82 0.08
157 2 0.00
158 1 0.00
160 1 0.00
162 38 0.04
163 52 0.05
164 32 0.03
165 134 0.14
166 435 0.45
167 11 0.01
168 147 0.15
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (166 bp):
AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAGTGGAAGCATCCTCAGG
TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATTGGGGGA
TCAAGTTTTACATAGGAATATATAGAGAAAATCTTT
Found at i:927714 original size:21 final size:21
Alignment explanation
Indices: 927690--927731 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
927680 TTCCACTTTG
*
927690 AATTCATGATCTGTTGTTTTT
1 AATTCATGATCCGTTGTTTTT
927711 AATTCATGATCCGTTGTTTTT
1 AATTCATGATCCGTTGTTTTT
927732 CTTTGAGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.19, C:0.12, G:0.14, T:0.55
Consensus pattern (21 bp):
AATTCATGATCCGTTGTTTTT
Found at i:929996 original size:22 final size:22
Alignment explanation
Indices: 929971--930028 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
929961 AAGCAATTCT
929971 CGAGTAAACCCAAAGTAAACCC
1 CGAGTAAACCCAAAGTAAACCC
929993 CGAGTAAACCCAAAGTAAACCC
1 CGAGTAAACCCAAAGTAAACCC
* **
930015 AGAGTGGACCCAAA
1 CGAGTAAACCCAAA
930029 TTTTCAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.45, C:0.29, G:0.17, T:0.09
Consensus pattern (22 bp):
CGAGTAAACCCAAAGTAAACCC
Found at i:930063 original size:13 final size:11
Alignment explanation
Indices: 929973--930069 Score: 79
Period size: 11 Copynumber: 8.7 Consensus size: 11
929963 GCAATTCTCG
929973 AGTAAACCCAA
1 AGTAAACCCAA
**
929984 AGTAAACCCCG
1 AGTAAACCCAA
929995 AGTAAACCCAA
1 AGTAAACCCAA
*
930006 AGTAAACCCAG
1 AGTAAACCCAA
**
930017 AGTGGACCCAA
1 AGTAAACCCAA
*** **
930028 A-TTTTCAAAA
1 AGTAAACCCAA
930038 AGTAAACCCAA
1 AGTAAACCCAA
930049 AGTAAACCCAGAA
1 AGTAAACCC--AA
930062 AGTAAACC
1 AGTAAACC
930070 TGGGGTTTAG
Statistics
Matches: 65, Mismatches: 18, Indels: 4
0.75 0.21 0.05
Matches are distributed among these distances:
10 5 0.08
11 50 0.77
13 10 0.15
ACGTcount: A:0.48, C:0.26, G:0.13, T:0.12
Consensus pattern (11 bp):
AGTAAACCCAA
Found at i:947165 original size:4 final size:4
Alignment explanation
Indices: 947151--947181 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
947141 GAGACATCGG
*
947151 ATTT TTTT ATTT ATTT ATTT ATTT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATT
947182 AGAGAGAGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
ATTT
Found at i:947189 original size:2 final size:2
Alignment explanation
Indices: 947182--947242 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
947172 TTTATTTATT
947182 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
947224 AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG A
947243 NNNNNNNNNN
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:953129 original size:2 final size:2
Alignment explanation
Indices: 953122--953182 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
953112 NNNATTTATT
953122 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
953164 AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG A
953183 TTTTGCCAGT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:955696 original size:166 final size:166
Alignment explanation
Indices: 955457--955881 Score: 733
Period size: 166 Copynumber: 2.6 Consensus size: 166
955447 TAAACTTGTG
* *
955457 TGGAGGCATCATCAGGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGG
1 TGGAAGCATCCTCAGGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGG
*
955522 GGCCACAATTGGGGGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTTAAAAATTTTCTTC
66 GGCCACAATTGGGGGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTTAAAAAATTTCTTC
* * * *
955587 TCAAAAACTATTAGGCCAGAAAGATTCAAATTAAAA
131 TCAAAAACTATTAGGACAGAAAAACTCAAATGAAAA
* *
955623 TGGGAGCATCCTCATGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGG
1 TGGAAGCATCCTCAGGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGG
955688 GGCCACAATTGGGGGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTTAAAAAATTTCTTC
66 GGCCACAATTGGGGGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTTAAAAAATTTCTTC
955753 TCAAAAACTATTAGGACAGAAAAACTCAAATGAAAA
131 TCAAAAACTATTAGGACAGAAAAACTCAAATGAAAA
* * * *
955789 TGGAAGCATCCTCAGGAAGTGTTGATTCAAGTTTGTTCAAATCATGGTCCCTGGGGGTAGGGTGA
1 TGGAAGCATCCTCAGGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGG
955854 GGCCACAATTGGGGGATCAAGTTTTACA
66 GGCCACAATTGGGGGATCAAGTTTTACA
955882 ATCCTTAAAA
Statistics
Matches: 244, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
166 244 1.00
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.28
Consensus pattern (166 bp):
TGGAAGCATCCTCAGGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGG
GGCCACAATTGGGGGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTTAAAAAATTTCTTC
TCAAAAACTATTAGGACAGAAAAACTCAAATGAAAA
Found at i:957709 original size:30 final size:30
Alignment explanation
Indices: 957675--957733 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
957665 ACGTCCTCTG
* *
957675 AGATATTAGTCTTTTTTGGAAAAATAGTTA
1 AGATATTAGTCTTTTTTGAAAAAAAAGTTA
957705 AGATATTAGTCTTTTTTGAAAAAAAAGTT
1 AGATATTAGTCTTTTTTGAAAAAAAAGTT
957734 GTGTTCATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.42
Consensus pattern (30 bp):
AGATATTAGTCTTTTTTGAAAAAAAAGTTA
Found at i:967495 original size:30 final size:30
Alignment explanation
Indices: 967461--967547 Score: 102
Period size: 30 Copynumber: 2.8 Consensus size: 30
967451 GTACTGTGTT
*
967461 AGAACTGACCGGTGTCTTCGGTCTTTGAAC
1 AGAACTGACCGGTGTCTTAGGTCTTTGAAC
*
967491 AGAACTGACCGGTGTTTTAGGTCTTTGAACC
1 AGAACTGACCGGTGTCTTAGGTCTTTGAA-C
* * *
967522 GAAGAACTTACAGGTGTTTTAGGTCT
1 --AGAACTGACCGGTGTCTTAGGTCT
967548 AGACACAGAA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
30 27 0.54
31 1 0.02
33 22 0.44
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.32
Consensus pattern (30 bp):
AGAACTGACCGGTGTCTTAGGTCTTTGAAC
Found at i:967538 original size:33 final size:30
Alignment explanation
Indices: 967461--967580 Score: 116
Period size: 33 Copynumber: 3.8 Consensus size: 30
967451 GTACTGTGTT
* *
967461 AGAACTGACCGGTGTCTTCGGTCTTTGAAC
1 AGAACTGACCGGTGTTTTAGGTCTTTGAAC
967491 AGAACTGACCGGTGTTTTAGGTCTTTGAACC
1 AGAACTGACCGGTGTTTTAGGTCTTTGAA-C
* * *
967522 GAAGAACTTACAGGTGTTTTAGGTC-TAGACAC
1 --AGAACTGACCGGTGTTTTAGGTCTTTGA-AC
*
967554 AGAATTTGACACTGGTGTTTTAGGTCT
1 AGAA-CTGAC-C-GGTGTTTTAGGTCT
967581 CGATACTGTT
Statistics
Matches: 74, Mismatches: 8, Indels: 12
0.79 0.09 0.13
Matches are distributed among these distances:
30 31 0.42
31 4 0.05
32 4 0.05
33 35 0.47
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (30 bp):
AGAACTGACCGGTGTTTTAGGTCTTTGAAC
Found at i:994738 original size:52 final size:52
Alignment explanation
Indices: 994676--994779 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
994666 CAAATATCAG
994676 TATGTATTCAACAGGTACTGCAAATATTGATTCATAACCACAGTAAAACATT
1 TATGTATTCAACAGGTACTGCAAATATTGATTCATAACCACAGTAAAACATT
*
994728 TATGTATTCAACAGGTACTGCAAATATTGATTCATAGCCACAGTAAAACATT
1 TATGTATTCAACAGGTACTGCAAATATTGATTCATAACCACAGTAAAACATT
994780 AATGCCAAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.31
Consensus pattern (52 bp):
TATGTATTCAACAGGTACTGCAAATATTGATTCATAACCACAGTAAAACATT
Found at i:1000680 original size:51 final size:51
Alignment explanation
Indices: 1000605--1000710 Score: 203
Period size: 51 Copynumber: 2.1 Consensus size: 51
1000595 GTTGATAAAA
*
1000605 AAATATTGATATGTGAGAAGACACCATAAAACAAATATTACATGGAATCAT
1 AAATATTGATATGTGAGAACACACCATAAAACAAATATTACATGGAATCAT
1000656 AAATATTGATATGTGAGAACACACCATAAAACAAATATTACATGGAATCAT
1 AAATATTGATATGTGAGAACACACCATAAAACAAATATTACATGGAATCAT
1000707 AAAT
1 AAAT
1000711 TTTCGTAGGG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.25
Consensus pattern (51 bp):
AAATATTGATATGTGAGAACACACCATAAAACAAATATTACATGGAATCAT
Found at i:1001214 original size:20 final size:20
Alignment explanation
Indices: 1001167--1001206 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1001157 GTCTCAATCA
*
1001167 AATTAATATCCAATTGTGTG
1 AATTAATAACCAATTGTGTG
*
1001187 AATTAATAACCAGTTGTGTG
1 AATTAATAACCAATTGTGTG
1001207 CCTTAATAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (20 bp):
AATTAATAACCAATTGTGTG
Found at i:1001487 original size:2 final size:2
Alignment explanation
Indices: 1001480--1001549 Score: 133
Period size: 2 Copynumber: 35.5 Consensus size: 2
1001470 GTGTAGTTTG
1001480 GA GA GA GA GA GA GA G- GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1001521 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1001550 TCAATTCTCT
Statistics
Matches: 67, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 66 0.99
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1010102 original size:2 final size:2
Alignment explanation
Indices: 1010095--1010159 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
1010085 TCATTGCAAA
1010095 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1010137 CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT C
1010160 CAATCTTATA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:1020666 original size:2 final size:2
Alignment explanation
Indices: 1020659--1020744 Score: 165
Period size: 2 Copynumber: 43.5 Consensus size: 2
1020649 TCACTGTCTC
1020659 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1020701 AG AG AG AG AG -G AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1020742 AG A
1 AG A
1020745 ACAAACAATT
Statistics
Matches: 83, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 82 0.99
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1023649 original size:13 final size:13
Alignment explanation
Indices: 1023631--1023657 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1023621 TTTTATCGTT
1023631 AAAAAAAAAACCA
1 AAAAAAAAAACCA
1023644 AAAAAAAAAACCA
1 AAAAAAAAAACCA
1023657 A
1 A
1023658 CTAATTCTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAACCA
Found at i:1025000 original size:21 final size:21
Alignment explanation
Indices: 1024974--1025054 Score: 101
Period size: 21 Copynumber: 3.9 Consensus size: 21
1024964 TTTCTATCAA
1024974 ATATGTCGACATGCAAGATAG
1 ATATGTCGACATGCAAGATAG
*
1024995 ATATGTTGACATGCAAGATAG
1 ATATGTCGACATGCAAGATAG
* * *
1025016 TTATGTCAACATGCAACATA-
1 ATATGTCGACATGCAAGATAG
*
1025036 ACTATGTTGACATGCAAGA
1 A-TATGTCGACATGCAAGA
1025055 AAATTACAAT
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (21 bp):
ATATGTCGACATGCAAGATAG
Found at i:1025042 original size:42 final size:42
Alignment explanation
Indices: 1024975--1025054 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
1024965 TTCTATCAAA
* *
1024975 TATGTCGACATGCAAGATAGATATGTTGACATGCAAGATAGT
1 TATGTCAACATGCAACATAGATATGTTGACATGCAAGATAGT
1025017 TATGTCAACATGCAACATA-ACTATGTTGACATGCAAGA
1 TATGTCAACATGCAACATAGA-TATGTTGACATGCAAGA
1025055 AAATTACAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 1 0.03
42 34 0.97
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.28
Consensus pattern (42 bp):
TATGTCAACATGCAACATAGATATGTTGACATGCAAGATAGT
Found at i:1025162 original size:21 final size:21
Alignment explanation
Indices: 1025133--1025273 Score: 151
Period size: 21 Copynumber: 6.7 Consensus size: 21
1025123 AAGATGCTAG
*
1025133 ATGCTACTTATTTATGTCGAC
1 ATGCAACTTATTTATGTCGAC
*
1025154 ATGCAACTTATTTATGTTGAC
1 ATGCAACTTATTTATGTCGAC
** ** *
1025175 ATGCAAGATAAATATGTTGAC
1 ATGCAACTTATTTATGTCGAC
*
1025196 ATGCAACTTATTTATGTCAAC
1 ATGCAACTTATTTATGTCGAC
1025217 ATGCAACTT-TGTTATGTTC-AC
1 ATGCAACTTAT-TTATG-TCGAC
* *
1025238 ATGCTACTTATTTATGTTGAC
1 ATGCAACTTATTTATGTCGAC
*
1025259 ATGCAACTTAGTTAT
1 ATGCAACTTATTTAT
1025274 NTAATATCGT
Statistics
Matches: 100, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
20 2 0.02
21 95 0.95
22 3 0.03
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (21 bp):
ATGCAACTTATTTATGTCGAC
Found at i:1025219 original size:63 final size:63
Alignment explanation
Indices: 1025133--1025273 Score: 185
Period size: 63 Copynumber: 2.2 Consensus size: 63
1025123 AAGATGCTAG
* * * *
1025133 ATGCTACTTATTTATGTCGACATGCAACTTAT-TTATGTTGACATGCAAGATAAATATGTTGAC
1 ATGCAACTTATTTATGTCAACATGCAACTT-TGTTATGTTCACATGCAACATAAATATGTTGAC
* * **
1025196 ATGCAACTTATTTATGTCAACATGCAACTTTGTTATGTTCACATGCTACTTATTTATGTTGAC
1 ATGCAACTTATTTATGTCAACATGCAACTTTGTTATGTTCACATGCAACATAAATATGTTGAC
*
1025259 ATGCAACTTAGTTAT
1 ATGCAACTTATTTAT
1025274 NTAATATCGT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
62 1 0.01
63 67 0.99
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (63 bp):
ATGCAACTTATTTATGTCAACATGCAACTTTGTTATGTTCACATGCAACATAAATATGTTGAC
Found at i:1025266 original size:42 final size:42
Alignment explanation
Indices: 1025133--1025273 Score: 167
Period size: 42 Copynumber: 3.4 Consensus size: 42
1025123 AAGATGCTAG
* *
1025133 ATGCTACTTATTTATG-TCGACATGCAACTTATTTATGTTGAC
1 ATGCAACTTAGTTATGTTC-ACATGCAACTTATTTATGTTGAC
** ** * **
1025175 ATGCAAGATAAATATGTTGACATGCAACTTATTTATGTCAAC
1 ATGCAACTTAGTTATGTTCACATGCAACTTATTTATGTTGAC
* *
1025217 ATGCAACTTTGTTATGTTCACATGCTACTTATTTATGTTGAC
1 ATGCAACTTAGTTATGTTCACATGCAACTTATTTATGTTGAC
1025259 ATGCAACTTAGTTAT
1 ATGCAACTTAGTTAT
1025274 NTAATATCGT
Statistics
Matches: 80, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
42 79 0.99
43 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (42 bp):
ATGCAACTTAGTTATGTTCACATGCAACTTATTTATGTTGAC
Found at i:1029688 original size:21 final size:21
Alignment explanation
Indices: 1029662--1029742 Score: 92
Period size: 21 Copynumber: 3.9 Consensus size: 21
1029652 TTTCTATCCA
*
1029662 ATATGTCGACATGCAAGATAG
1 ATATGTCAACATGCAAGATAG
**
1029683 ATATGTTGACATGCAAGATAG
1 ATATGTCAACATGCAAGATAG
* *
1029704 TTATGTCAACATGCAACATA-
1 ATATGTCAACATGCAAGATAG
*
1029724 ACTATGTTAACATGCAAGA
1 A-TATGTCAACATGCAAGA
1029743 AAATTACAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.27
Consensus pattern (21 bp):
ATATGTCAACATGCAAGATAG
Found at i:1029730 original size:42 final size:42
Alignment explanation
Indices: 1029663--1029742 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
1029653 TTCTATCCAA
* * *
1029663 TATGTCGACATGCAAGATAGATATGTTGACATGCAAGATAGT
1 TATGTCAACATGCAACATAGATATGTTAACATGCAAGATAGT
1029705 TATGTCAACATGCAACATA-ACTATGTTAACATGCAAGA
1 TATGTCAACATGCAACATAGA-TATGTTAACATGCAAGA
1029743 AAATTACAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 1 0.03
42 33 0.97
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.28
Consensus pattern (42 bp):
TATGTCAACATGCAACATAGATATGTTAACATGCAAGATAGT
Found at i:1030270 original size:21 final size:21
Alignment explanation
Indices: 1029821--1030257 Score: 399
Period size: 21 Copynumber: 20.8 Consensus size: 21
1029811 AAGATGCTAG
* *
1029821 ATGCTACTTATTTATGTCGAC
1 ATGCAACTTATTTATGTTGAC
1029842 ATGCAACTTATTTATGTTGAC
1 ATGCAACTTATTTATGTTGAC
** **
1029863 ATGCAAGATAAATATGTTGAC
1 ATGCAACTTATTTATGTTGAC
* **
1029884 ATTCAACTTATTTATGTCAAC
1 ATGCAACTTATTTATGTTGAC
*
1029905 ATGCAACTT-TGTTATGTTCAC
1 ATGCAACTTAT-TTATGTTGAC
*
1029926 ATGCTACTTATTTATGTTGAC
1 ATGCAACTTATTTATGTTGAC
* *
1029947 ATGCAACTTAGTTATGATGAC
1 ATGCAACTTATTTATGTTGAC
* ** **
1029968 ATGCGAGATAAATATGTTGAC
1 ATGCAACTTATTTATGTTGAC
*
1029989 ATGCAACTTAGTTATGTTGAC
1 ATGCAACTTATTTATGTTGAC
* *
1030010 ATGCTACTTATTTATGTCGAC
1 ATGCAACTTATTTATGTTGAC
* *
1030031 ATGCAACTTAATTATGTTAAC
1 ATGCAACTTATTTATGTTGAC
* * *** *
1030052 ATGCGACCTCCGTATGTCGAC
1 ATGCAACTTATTTATGTTGAC
*
1030073 ATGCAACTTATTTATGTCGAC
1 ATGCAACTTATTTATGTTGAC
* *
1030094 ATGCAACTTAGTTATGTTAAC
1 ATGCAACTTATTTATGTTGAC
** ** *
1030115 ATGCAAGATAAATATGTTAAC
1 ATGCAACTTATTTATGTTGAC
** ** *
1030136 ATGCAAGATAAATATGTCGAC
1 ATGCAACTTATTTATGTTGAC
** **
1030157 ATGCAAGATAAATATGTTGAC
1 ATGCAACTTATTTATGTTGAC
* * **
1030178 ATGCAACATACTTATGTCAAC
1 ATGCAACTTATTTATGTTGAC
*
1030199 ATGCAACTTAGTTATGTTGAC
1 ATGCAACTTATTTATGTTGAC
1030220 ATGCAACTTATTTATGTTGAC
1 ATGCAACTTATTTATGTTGAC
1030241 ATGCAACTTATTTATGT
1 ATGCAACTTATTTATGT
1030258 CAATATGCAA
Statistics
Matches: 343, Mismatches: 71, Indels: 4
0.82 0.17 0.01
Matches are distributed among these distances:
20 1 0.00
21 341 0.99
22 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (21 bp):
ATGCAACTTATTTATGTTGAC
Found at i:1046388 original size:21 final size:21
Alignment explanation
Indices: 1046364--1046871 Score: 428
Period size: 21 Copynumber: 24.2 Consensus size: 21
1046354 TATTTATCGC
*
1046364 GCATGTCTACATAAATAAGTT
1 GCATGTCAACATAAATAAGTT
* ** ** *
1046385 GCATGTAAACATATTTATCTC
1 GCATGTCAACATAAATAAGTT
* *
1046406 GCATGTTAACATAAATAAGTA
1 GCATGTCAACATAAATAAGTT
*
1046427 GCATGTTAACATAACA-AAGTT
1 GCATGTCAACATAA-ATAAGTT
**
1046448 GCATGTTGACATAAATAAGTT
1 GCATGTCAACATAAATAAGTT
** **
1046469 GCATGTCAACATATTTATCTT
1 GCATGTCAACATAAATAAGTT
*
1046490 GCATGTCAACATAACTAAGTT
1 GCATGTCAACATAAATAAGTT
*
1046511 GCATGTCAACATAACTAAGTT
1 GCATGTCAACATAAATAAGTT
* ** **
1046532 GCATGTCAGCATATTTATCTT
1 GCATGTCAACATAAATAAGTT
* *
1046553 GCATGTCTACATAACA-AAGCT
1 GCATGTCAACATAA-ATAAGTT
**
1046574 GCATGTTGACATAAATAAGTT
1 GCATGTCAACATAAATAAGTT
** ** *
1046595 GCATGTCAACATATTTATCTC
1 GCATGTCAACATAAATAAGTT
*
1046616 GCATGTCAACATAACTAAGTT
1 GCATGTCAACATAAATAAGTT
** ** ** *
1046637 GCATGTTGACATATTTATCTC
1 GCATGTCAACATAAATAAGTT
* *
1046658 GCATGTCAATATAACTAAGTT
1 GCATGTCAACATAAATAAGTT
**
1046679 GCATGTTGACATAAATAAGTT
1 GCATGTCAACATAAATAAGTT
*
1046700 GCATGTCAACATAAACAAGTT
1 GCATGTCAACATAAATAAGTT
** **
1046721 GCATGTCAACATATTTATCTT
1 GCATGTCAACATAAATAAGTT
* *
1046742 GCATGTCAACATAAATAAATA
1 GCATGTCAACATAAATAAGTT
*
1046763 GCATGTTAACATAACA-AAGTT
1 GCATGTCAACATAA-ATAAGTT
*
1046784 GCATGTCGACATAAATAAGTT
1 GCATGTCAACATAAATAAGTT
** **
1046805 GCATGTCAACATATTTATCTT
1 GCATGTCAACATAAATAAGTT
*
1046826 GCATGTCAACATATATAAGTT
1 GCATGTCAACATAAATAAGTT
* *
1046847 GCATGTCGACATAAATAAGTA
1 GCATGTCAACATAAATAAGTT
1046868 GCAT
1 GCAT
1046872 CTAGCATCTT
Statistics
Matches: 381, Mismatches: 100, Indels: 12
0.77 0.20 0.02
Matches are distributed among these distances:
20 3 0.01
21 376 0.99
22 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (21 bp):
GCATGTCAACATAAATAAGTT
Found at i:1047030 original size:21 final size:21
Alignment explanation
Indices: 1046946--1047032 Score: 113
Period size: 21 Copynumber: 4.2 Consensus size: 21
1046936 TTTGATTGTA
1046946 ATTT-TCTTGCATGTCAACAT
1 ATTTATCTTGCATGTCAACAT
* * **
1046966 AGTTATGTTGCATGTTGACAT
1 ATTTATCTTGCATGTCAACAT
**
1046987 AACTATCTTGCATGTCAACAT
1 ATTTATCTTGCATGTCAACAT
1047008 ATTTATCTTGCATGTCAACAT
1 ATTTATCTTGCATGTCAACAT
1047029 ATTT
1 ATTT
1047033 GAAAGAAATA
Statistics
Matches: 55, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
20 3 0.05
21 52 0.95
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.43
Consensus pattern (21 bp):
ATTTATCTTGCATGTCAACAT
Found at i:1051236 original size:2 final size:2
Alignment explanation
Indices: 1051229--1051255 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1051219 TTTTAAGGCA
1051229 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1051256 AAACATCTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1051513 original size:5 final size:5
Alignment explanation
Indices: 1051505--1051544 Score: 53
Period size: 5 Copynumber: 8.0 Consensus size: 5
1051495 CGTTTGGATT
* * *
1051505 TTTGG TTTGG TTTGG TTTCG TTTCG ATTGG TTTGG TTTGG
1 TTTGG TTTGG TTTGG TTTGG TTTGG TTTGG TTTGG TTTGG
1051545 CTTCGTTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.03, C:0.05, G:0.35, T:0.57
Consensus pattern (5 bp):
TTTGG
Found at i:1051549 original size:20 final size:20
Alignment explanation
Indices: 1051511--1051549 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1051501 GATTTTTGGT
*
1051511 TTGGTTTGGTTTCGTTTCGA
1 TTGGTTTGGTTTCGCTTCGA
*
1051531 TTGGTTTGGTTTGGCTTCG
1 TTGGTTTGGTTTCGCTTCG
1051550 TTTTCGTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.03, C:0.10, G:0.33, T:0.54
Consensus pattern (20 bp):
TTGGTTTGGTTTCGCTTCGA
Found at i:1052837 original size:168 final size:168
Alignment explanation
Indices: 1052615--1053523 Score: 1150
Period size: 169 Copynumber: 5.4 Consensus size: 168
1052605 CATAGTGATG
* * * *
1052615 ATGTCAATGAAACCCTCTACCAAAATTGTGAAATTCATGGCCCCTGGGTCAGGGGTTCTGGCTCT
1 ATGTCCATGAAGCCCTCTACCAAAATTGTGAAATTCATGACCCCTGGGTCAGGGGTTCAGGCTCT
1052680 AGGGTGGGGCCAATATGGCCATATAGTAAAAATGTATTAAATCTTAGAAAATCTTCTTCTCTACT
66 AGGGTGGGGCCAATATGGCCATATAGTAAAAATGTATTAAATCTTAGAAAATCTTCTTCTCTACT
*
1052745 CCCATATATATTTGTTAAAAACTAAATAAATGATTATG
131 CCCATATATATTTGTTAAAAACTAAATAAATGATTATA
*
1052783 ATGTCCAT-AAGGCCCTCTACCAAAATTGTGAAATTCATGACCCCTGGGTCAGGGGTTCAGGCTT
1 ATGTCCATGAA-GCCCTCTACCAAAATTGTGAAATTCATGACCCCTGGGTCAGGGGTTCAGGCTC
**
1052847 TAGGGTGGGGCCAATATGGCCATATAGTAAAAAATAAATTAAATCTTAGAAAATCTTCTTCTCTA
65 TAGGGTGGGGCCAATATGGCCATATAGT-AAAAATGTATTAAATCTTAGAAAATCTTCTTCTCTA
*
1052912 CTCCCATATATATTTGTTAAAAACTAAATAAATGATTATG
129 CTCCCATATATATTTGTTAAAAACTAAATAAATGATTATA
* *
1052952 ATGTCCACT-AA-CTGCTCTACCAAAATTTTGAAATTCATGACCCCTGGGTCAGGGGTTCAGGCT
1 ATGTCCA-TGAAGC-CCTCTACCAAAATTGTGAAATTCATGACCCCTGGGTCAGGGGTTCAGGCT
* *
1053015 TTAAGGTGGGGCCAATATGGCCATATAGTAAAAATGTATTAAATCTTAGAAAATCTTC-T-T-TA
64 CTAGGGTGGGGCCAATATGGCCATATAGTAAAAATGTATTAAATCTTAGAAAATCTTCTTCTCTA
* **
1053077 CTACCATATATATTTGTTAAAAACTAAATGCATGATTATA
129 CTCCCATATATATTTGTTAAAAACTAAATAAATGATTATA
* * * *
1053117 ATGTCCATGAAGCCCTCTTCTAAAATTGTGAAATTTATGACCCCAGGGTCAGGGGTTCAGGCTCT
1 ATGTCCATGAAGCCCTCTACCAAAATTGTGAAATTCATGACCCCTGGGTCAGGGGTTCAGGCTCT
* *
1053182 AGGGTGGGGCCAATATGGCCATATAGTAAATATGTATCAAATCTTAGAAAATCTTCTTCTCTACT
66 AGGGTGGGGCCAATATGGCCATATAGTAAAAATGTATTAAATCTTAGAAAATCTTCTTCTCTACT
* * *** *
1053247 TCCATATATATTTGTTAAAAACCAAATGCCTGGTTATA
131 CCCATATATATTTGTTAAAAACTAAATAAATGATTATA
* * *** * *
1053285 ATGTCTATGAAGCCCTCTACCAAAATTGT-AAATTTCTTGACCCCTTTCTTAGGGGGTACAGGCT
1 ATGTCCATGAAGCCCTCTACCAAAATTGTGAAA-TTCATGACCCCTGGGTCA-GGGGTTCAGGCT
* * * *
1053349 CTAGGGTGGGGCCAATATTGCCATATTGTAAAAATGTTTTAAATCTTA-AACAATCTTCTTCTTT
64 CTAGGGTGGGGCCAATATGGCCATATAGTAAAAATGTATTAAATCTTAGAA-AATCTTCTTCTCT
* * * ** ** * * *
1053413 ACTCCCACACATGTGGGCAAAAAAACTGAATAAATGGTTATG
128 ACTCCCATATATATTTG-TTAAAAACTAAATAAATGATTATA
* * *
1053455 ATGTGATCATGTCCACTAACTCCTCTACCTAAATTGTGAAATTCATGACCCCTGGGTCAGGGGTT
1 ATGT--CCATG---A--AGC-CCTCTACCAAAATTGTGAAATTCATGACCCCTGGGTCAGGGGTT
1053520 CAGG
58 CAGG
1053524 ACATGAGGTT
Statistics
Matches: 648, Mismatches: 71, Indels: 35
0.86 0.09 0.05
Matches are distributed among these distances:
164 1 0.00
165 145 0.22
166 3 0.00
167 7 0.01
168 189 0.29
169 234 0.36
170 23 0.04
172 3 0.00
175 1 0.00
177 11 0.02
178 28 0.04
179 3 0.00
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Consensus pattern (168 bp):
ATGTCCATGAAGCCCTCTACCAAAATTGTGAAATTCATGACCCCTGGGTCAGGGGTTCAGGCTCT
AGGGTGGGGCCAATATGGCCATATAGTAAAAATGTATTAAATCTTAGAAAATCTTCTTCTCTACT
CCCATATATATTTGTTAAAAACTAAATAAATGATTATA
Found at i:1053359 original size:334 final size:334
Alignment explanation
Indices: 1052615--1053410 Score: 1127
Period size: 334 Copynumber: 2.4 Consensus size: 334
1052605 CATAGTGATG
* *
1052615 ATGTCAATGAAACCCTCTACCAAAATTGTGAAATTCATGGCCCCTGGGTCAGGGGTTCTGGCTCT
1 ATGTCAATG-AACCCTCTACCAAAATTGTGAAATTCATGACCCCTGGGTCAGGGGTTCAGGCTCT
1052680 AGGGTGGGGCCAATATGGCCATATAGTAAAAATGTATTAAATCTTAGAAAATCTTCTTCTCTACT
65 AGGGTGGGGCCAATATGGCCATATAGTAAAAATGTATTAAATCTTAGAAAATCTTC-T-TCTACT
* *
1052745 CCCATATATATTTGTTAAAAACTAAATAAATGATTATGATGTCCATAAGGCCCTCTACCAAAATT
128 ACCATATATATTTGTTAAAAACTAAATAAATGATTATAATGTCCATAAGGCCCTCTACCAAAATT
* *
1052810 GTGAAATTCATGACCCCTGGGTCAGGGGTTCAGGCTTTAGGGTGGGGCCAATATGGCCATATAGT
193 GTGAAATTCATGACCCCAGGGTCAGGGGTTCAGGCTCTAGGGTGGGGCCAATATGGCCATATAGT
* *
1052875 AAAAAATAAATTAAATCTTAGAAAATCTTCTTCTCTACTCCCATATATATTTGTTAAAAACTAAA
258 AAAAAATAAATCAAATCTTAGAAAATCTTCTTCTCTACTCCCATATATATTTGTTAAAAACCAAA
*
1052940 TAAATGATTATG
323 TAAATGATTATA
* * * *
1052952 ATGTCCACT-AACTGCTCTACCAAAATTTTGAAATTCATGACCCCTGGGTCAGGGGTTCAGGCTT
1 ATGT-CAATGAAC-CCTCTACCAAAATTGTGAAATTCATGACCCCTGGGTCAGGGGTTCAGGCTC
*
1053016 TAAGGTGGGGCCAATATGGCCATATAGTAAAAATGTATTAAATCTTAGAAAATCTTCTT-TACTA
64 TAGGGTGGGGCCAATATGGCCATATAGTAAAAATGTATTAAATCTTAGAAAATCTTCTTCTACTA
** * *
1053080 CCATATATATTTGTTAAAAACTAAATGCATGATTATAATGTCCATGAA-GCCCTCTTCTAAAATT
129 CCATATATATTTGTTAAAAACTAAATAAATGATTATAATGTCCAT-AAGGCCCTCTACCAAAATT
*
1053144 GTGAAATTTATGACCCCAGGGTCAGGGGTTCAGGCTCTAGGGTGGGGCCAATATGGCCATATAGT
193 GTGAAATTCATGACCCCAGGGTCAGGGGTTCAGGCTCTAGGGTGGGGCCAATATGGCCATATAGT
* ** *
1053209 -AAATATGTATCAAATCTTAGAAAATCTTCTTCTCTACTTCCATATATATTTGTTAAAAACCAAA
258 AAAAAATAAATCAAATCTTAGAAAATCTTCTTCTCTACTCCCATATATATTTGTTAAAAACCAAA
*** *
1053273 TGCCTGGTTATA
323 TAAATGATTATA
* * *** * *
1053285 ATGTCTATGAAGCCCTCTACCAAAATTGT-AAATTTCTTGACCCCTTTCTTAGGGGGTACAGGCT
1 ATGTCAATGAA-CCCTCTACCAAAATTGTGAAA-TTCATGACCCCTGGGTCA-GGGGTTCAGGCT
* * *
1053349 CTAGGGTGGGGCCAATATTGCCATATTGTAAAAATGTTTTAAATCTTA-AACAATCTTCTTCT
63 CTAGGGTGGGGCCAATATGGCCATATAGTAAAAATGTATTAAATCTTAGAA-AATCTTCTTCT
1053411 TTACTCCCAC
Statistics
Matches: 408, Mismatches: 42, Indels: 20
0.87 0.09 0.04
Matches are distributed among these distances:
332 5 0.01
333 100 0.25
334 186 0.46
335 4 0.01
336 4 0.01
337 106 0.26
338 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Consensus pattern (334 bp):
ATGTCAATGAACCCTCTACCAAAATTGTGAAATTCATGACCCCTGGGTCAGGGGTTCAGGCTCTA
GGGTGGGGCCAATATGGCCATATAGTAAAAATGTATTAAATCTTAGAAAATCTTCTTCTACTACC
ATATATATTTGTTAAAAACTAAATAAATGATTATAATGTCCATAAGGCCCTCTACCAAAATTGTG
AAATTCATGACCCCAGGGTCAGGGGTTCAGGCTCTAGGGTGGGGCCAATATGGCCATATAGTAAA
AAATAAATCAAATCTTAGAAAATCTTCTTCTCTACTCCCATATATATTTGTTAAAAACCAAATAA
ATGATTATA
Found at i:1057957 original size:20 final size:20
Alignment explanation
Indices: 1057915--1057970 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
1057905 ATTTATTATT
* *
1057915 AAAAGGGCATGGCGTTTAGA
1 AAAAGGGCATGGCGCTGAGA
*
1057935 AAAAGGGCATGGCGCTGATA
1 AAAAGGGCATGGCGCTGAGA
*
1057955 AAATGGGGCATGGCGC
1 AAA-AGGGCATGGCGC
1057971 CGCGCCACGC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 20 0.65
21 11 0.35
ACGTcount: A:0.32, C:0.14, G:0.38, T:0.16
Consensus pattern (20 bp):
AAAAGGGCATGGCGCTGAGA
Found at i:1058523 original size:166 final size:167
Alignment explanation
Indices: 1058004--1058618 Score: 826
Period size: 166 Copynumber: 3.6 Consensus size: 167
1057994 ATTTAACACT
* *
1058004 ATACTTGTGTGGAAGCATCCTCAGATAGTGTAGATTCAAGTTTGTTAAAATCATGGTCCCTGGGG
1 ATACTTGTGTGAAAGCATCCTCAGATAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCTGGGG
* *
1058069 GTAAGGTGGGGCCACAATGGGTGGGGGGGGGGTTAAAGTTTTACATAGAAGTATATAGAG-TAAA
66 GTAAGGTGGGGCCACAA----T---GGGGGGGTCAAAGTTTTACATAGGAGTATATAGAGTTAAA
*
1058133 TCTTTAAAAATCTTCT-TCTCAAAAACCATTTGGCCAGAAAAGCTG
124 -CTTTAAAAAT-TTATATCTCAAAAACCATTTGGCCAGAAAAGCTG
* * * * * *
1058178 CTACTTGTGTGGAAGCATCCTCAGATAGTGTAGGTTCAAATTTGTTTAAATCATGGTCCCCGGGG
1 ATACTTGTGTGAAAGCATCCTCAGATAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCTGGGG
*
1058243 GTAAGGTGGGGCCACAATGGGGGGGGTCAAAGTTTTACATAGGAGTATATAGAGTTAATCTTTAA
66 GTAAGGTGGGGCCACAAT-GGGGGGGTCAAAGTTTTACATAGGAGTATATAGAGTTAAACTTTAA
* **
1058308 AAATATATATCTCAAAATTCATTTGGCCAGAAAAGCTG
130 AAATTTATATCTCAAAAACCATTTGGCCAGAAAAGCTG
* ** *
1058346 ATATTTGTGTGAAAGCATTATCAGATAGTGTAGATTCAAGTTTGTTCGAATCATGGTCCCTGGGG
1 ATACTTGTGTGAAAGCATCCTCAGATAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCTGGGG
* * * *
1058411 ATAAGGTGGGGCCACAAT-GGGGGGTCATATTTTTACATAGGAGTATATAGAGTTAAACTTTCAA
66 GTAAGGTGGGGCCACAATGGGGGGGTCAAAGTTTTACATAGGAGTATATAGAGTTAAACTTTAAA
**
1058475 AATTTATATCTCAAAAACCATAAGGCCA-AATAAGCTG
131 AATTTATATCTCAAAAACCATTTGGCCAGAA-AAGCTG
* * *
1058512 TTACTTGTGTGAAAGCATCCTCAGATGGTGTAGATTTAAGTTTGTTCAAATCATGGTCCCTGGGG
1 ATACTTGTGTGAAAGCATCCTCAGATAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCTGGGG
* *
1058577 GTAAGGTTGGGCCACAAT-GGGGGGTCAAATTTTTACATAGGA
66 GTAAGGTGGGGCCACAATGGGGGGGTCAAAGTTTTACATAGGA
1058619 ATAAAAAGAG
Statistics
Matches: 396, Mismatches: 42, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
165 2 0.01
166 168 0.42
167 2 0.01
168 143 0.36
169 3 0.01
170 1 0.00
174 77 0.19
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (167 bp):
ATACTTGTGTGAAAGCATCCTCAGATAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCTGGGG
GTAAGGTGGGGCCACAATGGGGGGGTCAAAGTTTTACATAGGAGTATATAGAGTTAAACTTTAAA
AATTTATATCTCAAAAACCATTTGGCCAGAAAAGCTG
Found at i:1058692 original size:334 final size:335
Alignment explanation
Indices: 1058004--1058636 Score: 832
Period size: 334 Copynumber: 1.9 Consensus size: 335
1057994 ATTTAACACT
* *
1058004 ATACTTGTGTGGAAGCATCCTCAGATAGTGTAGATTCAAGTTTGTTAAAATCATGGTCCCTGGGG
1 ATACTTGTGTGAAAGCATCATCAGATAGTGTAGATTCAAGTTTGTTAAAATCATGGTCCCTGGGG
* *
1058069 GTAAGGTGGGGCCACAATGGGTGGGGGGGGGGTTAAAGTTTTACATAGAAGTATATAGAGTAAAT
66 ATAAGGTGGGGCCACAA---GT---GGGGGGGTCAAAGTTTTACATAGAAGTATATAGAGTAAAT
* ** *
1058134 CTTTAAAAATCTTCTTCTCAAAAACCATTTGGCCAGAAAAGCTGCTACTTGTGTGGAAGCATCCT
125 CTTTAAAAATCTTATTCTCAAAAACCATAAGGCCAGAAAAGCTGCTACTTGTGTGAAAGCATCCT
* *
1058199 CAGATAGTGTAGGTTCAAATTTGTTTAAATCATGGTCCCCGGGGGTAAGGTGGGGCCACAATGGG
190 CAGATAGTGTAGATTCAAATTTGTTCAAATCATGGTCCCCGGGGGTAAGGTGGGGCCACAAT-GG
* * * * *
1058264 GGGGGTCAAAGTTTTACATAGGAGTATATAGAGTTAATCTTTAAAAATATATATCTCAAAATTCA
254 GGGGGTCAAAGTTTTACATAGGAATAAAAAGAGTAAATCTTTAAAAATAAATATCTCAAAATTCA
**
1058329 TTTGGCCAGAAAAGCTG
319 ACTGGCCAGAAAAGCTG
* * **
1058346 ATATTTGTGTGAAAGCATTATCAGATAGTGTAGATTCAAGTTTGTTCGAATCATGGTCCCTGGGG
1 ATACTTGTGTGAAAGCATCATCAGATAGTGTAGATTCAAGTTTGTTAAAATCATGGTCCCTGGGG
* * * *
1058411 ATAAGGTGGGGCCACAA-T-GGGGGGTCATATTTTTACATAGGAGTATATAGAGTTAAA-CTTTC
66 ATAAGGTGGGGCCACAAGTGGGGGGGTCAAAGTTTTACATAGAAGTATATAGAG-TAAATCTTTA
*
1058473 AAAAT-TTATATCTCAAAAACCATAAGGCCA-AATAAGCTGTTACTTGTGTGAAAGCATCCTCAG
130 AAAATCTTAT-TCTCAAAAACCATAAGGCCAGAA-AAGCTGCTACTTGTGTGAAAGCATCCTCAG
* * * * *
1058536 ATGGTGTAGATTTAAGTTTGTTCAAATCATGGTCCCTGGGGGTAAGGTTGGGCCACAAT-GGGGG
193 ATAGTGTAGATTCAAATTTGTTCAAATCATGGTCCCCGGGGGTAAGGTGGGGCCACAATGGGGGG
*
1058600 GTCAAATTTTTACATAGGAATAAAAAGAG-AAAT-TTTA
258 GTCAAAGTTTTACATAGGAATAAAAAGAGTAAATCTTTA
1058637 TTTTTAAATC
Statistics
Matches: 259, Mismatches: 29, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
330 4 0.02
331 3 0.01
332 30 0.12
333 5 0.02
334 137 0.53
335 4 0.02
338 1 0.00
342 75 0.29
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.30
Consensus pattern (335 bp):
ATACTTGTGTGAAAGCATCATCAGATAGTGTAGATTCAAGTTTGTTAAAATCATGGTCCCTGGGG
ATAAGGTGGGGCCACAAGTGGGGGGGTCAAAGTTTTACATAGAAGTATATAGAGTAAATCTTTAA
AAATCTTATTCTCAAAAACCATAAGGCCAGAAAAGCTGCTACTTGTGTGAAAGCATCCTCAGATA
GTGTAGATTCAAATTTGTTCAAATCATGGTCCCCGGGGGTAAGGTGGGGCCACAATGGGGGGGTC
AAAGTTTTACATAGGAATAAAAAGAGTAAATCTTTAAAAATAAATATCTCAAAATTCAACTGGCC
AGAAAAGCTG
Found at i:1062051 original size:20 final size:20
Alignment explanation
Indices: 1062026--1062064 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
1062016 ATCCAAAATA
1062026 ATATACGGTAAATAAATATC
1 ATATACGGTAAATAAATATC
1062046 ATATACGGTAAATAAATAT
1 ATATACGGTAAATAAATAT
1062065 GCATGAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (20 bp):
ATATACGGTAAATAAATATC
Found at i:1062695 original size:19 final size:19
Alignment explanation
Indices: 1062673--1062712 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
1062663 ACTGGAGGAA
*
1062673 GTTAAGGTTTTTGGAGCAG
1 GTTAAAGTTTTTGGAGCAG
*
1062692 GTTAAAGTTTTTGGTGCAG
1 GTTAAAGTTTTTGGAGCAG
1062711 GT
1 GT
1062713 GCCCTTTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.20, C:0.05, G:0.35, T:0.40
Consensus pattern (19 bp):
GTTAAAGTTTTTGGAGCAG
Found at i:1062853 original size:174 final size:175
Alignment explanation
Indices: 1062659--1063042 Score: 477
Period size: 175 Copynumber: 2.2 Consensus size: 175
1062649 CATGAATTTC
* * * *
1062659 AGATACTGGAGGAAGTTAAGGTTTTTGGAGCAGGTTAAAGTTTTTGGTGCAGGTGCCCTTTGATA
1 AGATGCTGGAGGAGGTTAAGGTTTTTGGAGCAGGTTAAAGATTTTGGAGCAGGTGCCCTTTGATA
* * * * * *
1062724 GCAATATCTAAGTAACTGCTGG-CTTAACTTTACCATACTTGCATGGATGGTGTCTTAT-GATAC
66 GCAATATCTAAGTAACTACTGGTCCTAACTTCACCAAACTTGCATGAATGGTGTCTTATAAAT-C
* *
1062787 TGATGCACC-AGACAGGCTTAAATGCTGAATCTGAGCCATAGGTTTA
130 GGATGCACCTA-ACAGGCATAAATGCTGAATCTGAGCCATAGGTTTA
** * *
1062833 ATCTGCTGGAGGAGGTTAAGGTTTTTAGAGCAGGTTAAAGATTTTGGAGCAGGTGCCCTTTGATT
1 AGATGCTGGAGGAGGTTAAGGTTTTTGGAGCAGGTTAAAGATTTTGGAGCAGGTGCCCTTTGATA
** * * *
1062898 GTTATATCTTAGTTATTACTGGTCCTAACTTCACCAAACTTGCATGAATGGTGTCTTATAAATCG
66 GCAATATCTAAGTAACTACTGGTCCTAACTTCACCAAACTTGCATGAATGGTGTCTTATAAATCG
* * *
1062963 GATTCACCTAACAGGCATGAATGCTGAATCTGAGCCATAGGTTTC
131 GATGCACCTAACAGGCATAAATGCTGAATCTGAGCCATAGGTTTA
* * * *
1063008 GGATGCTGGATGAGGTTAAGTTTTTTGGAACAGGT
1 AGATGCTGGAGGAGGTTAAGGTTTTTGGAGCAGGT
1063043 CACATGTTTA
Statistics
Matches: 176, Mismatches: 31, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
174 73 0.41
175 100 0.57
176 3 0.02
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (175 bp):
AGATGCTGGAGGAGGTTAAGGTTTTTGGAGCAGGTTAAAGATTTTGGAGCAGGTGCCCTTTGATA
GCAATATCTAAGTAACTACTGGTCCTAACTTCACCAAACTTGCATGAATGGTGTCTTATAAATCG
GATGCACCTAACAGGCATAAATGCTGAATCTGAGCCATAGGTTTA
Found at i:1062867 original size:19 final size:19
Alignment explanation
Indices: 1062845--1062886 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
1062835 CTGCTGGAGG
* *
1062845 AGGTTAAGGTTTTTAGAGC
1 AGGTTAAAGATTTTAGAGC
*
1062864 AGGTTAAAGATTTTGGAGC
1 AGGTTAAAGATTTTAGAGC
1062883 AGGT
1 AGGT
1062887 GCCCTTTGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.29, C:0.05, G:0.33, T:0.33
Consensus pattern (19 bp):
AGGTTAAAGATTTTAGAGC
Found at i:1063947 original size:16 final size:16
Alignment explanation
Indices: 1063922--1063956 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
1063912 TCAGAGAAAA
1063922 ATTATCAGATTAACCG
1 ATTATCAGATTAACCG
*
1063938 ATTATTAGATTAACCG
1 ATTATCAGATTAACCG
1063954 ATT
1 ATT
1063957 TAGCGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (16 bp):
ATTATCAGATTAACCG
Found at i:1065412 original size:44 final size:44
Alignment explanation
Indices: 1065364--1065582 Score: 147
Period size: 44 Copynumber: 5.1 Consensus size: 44
1065354 CTGGGGAAAG
1065364 AAATCTTCATATTCCCTGACCATTAAGATTTATTTCTCCGAGAA
1 AAATCTTCATATTCCCTGACCATTAAGATTTATTTCTCCGAGAA
* * *** * * * *
1065408 AAATCAT-AT-TTACC-GA--GGGAAG-TTTGTTTTTCTGGTGAAA
1 AAATCTTCATATTCCCTGACCATTAAGATTTATTTCTC-CGAG-AA
1065448 GAAATCTTCATATTCCCTGACCATTAAGATTTATTTCTCCGAGAA
1 -AAATCTTCATATTCCCTGACCATTAAGATTTATTTCTCCGAGAA
* * *** * * *
1065493 AAATCAT-AT-TTACC-GA--GGGAAG-TTTGTTTCTCTGGGGAAA
1 AAATCTTCATATTCCCTGACCATTAAGATTTATTTCTC-CGAG-AA
1065533 GAAATCTTCATATTCCCTGACCATTAAGATTTATTTCTCCGAGAA
1 -AAATCTTCATATTCCCTGACCATTAAGATTTATTTCTCCGAGAA
1065578 AAATC
1 AAATC
1065583 ATATTTACCG
Statistics
Matches: 123, Mismatches: 34, Indels: 36
0.64 0.18 0.19
Matches are distributed among these distances:
38 17 0.14
39 10 0.08
40 4 0.03
41 16 0.13
42 12 0.10
43 12 0.10
44 21 0.17
45 4 0.03
46 10 0.08
47 17 0.14
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (44 bp):
AAATCTTCATATTCCCTGACCATTAAGATTTATTTCTCCGAGAA
Found at i:1065448 original size:85 final size:85
Alignment explanation
Indices: 1065303--1065644 Score: 648
Period size: 85 Copynumber: 4.0 Consensus size: 85
1065293 GGGAAATATA
* *
1065303 AAGATTTATTTCTTCGAGAAAAATCATATTAACCGAGGGAAGTTTGTTTTTCTGGGGAAAGAAAT
1 AAGATTTATTTCTCCGAGAAAAATCATATTTACCGAGGGAAGTTTGTTTTTCTGGGGAAAGAAAT
1065368 CTTCATATTCCCTGACCATT
66 CTTCATATTCCCTGACCATT
*
1065388 AAGATTTATTTCTCCGAGAAAAATCATATTTACCGAGGGAAGTTTGTTTTTCTGGTGAAAGAAAT
1 AAGATTTATTTCTCCGAGAAAAATCATATTTACCGAGGGAAGTTTGTTTTTCTGGGGAAAGAAAT
1065453 CTTCATATTCCCTGACCATT
66 CTTCATATTCCCTGACCATT
*
1065473 AAGATTTATTTCTCCGAGAAAAATCATATTTACCGAGGGAAGTTTGTTTCTCTGGGGAAAGAAAT
1 AAGATTTATTTCTCCGAGAAAAATCATATTTACCGAGGGAAGTTTGTTTTTCTGGGGAAAGAAAT
1065538 CTTCATATTCCCTGACCATT
66 CTTCATATTCCCTGACCATT
1065558 AAGATTTATTTCTCCGAGAAAAATCATATTTACCGAGGGAAGTTTGTTTTTCTGGGGAAAGAAAT
1 AAGATTTATTTCTCCGAGAAAAATCATATTTACCGAGGGAAGTTTGTTTTTCTGGGGAAAGAAAT
1065623 CTTCATATTCCCTGACCATT
66 CTTCATATTCCCTGACCATT
1065643 AA
1 AA
1065645 TACAATAAAT
Statistics
Matches: 251, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 251 1.00
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.35
Consensus pattern (85 bp):
AAGATTTATTTCTCCGAGAAAAATCATATTTACCGAGGGAAGTTTGTTTTTCTGGGGAAAGAAAT
CTTCATATTCCCTGACCATT
Found at i:1065453 original size:41 final size:41
Alignment explanation
Indices: 1065323--1065623 Score: 107
Period size: 41 Copynumber: 7.1 Consensus size: 41
1065313 TCTTCGAGAA
* *
1065323 AAATCATATTAACCGAGGGAAGTTTGTTTTTCTGGGGAAAG
1 AAATCATATTTACCGAGGGAAGTTTGTTTTTCTGGCGAAAG
* * *** * * *
1065364 AAATCTTCATATTCCCTGACCATTAAGATT-TATTTCT-CCGAGAA-
1 AAATCAT-AT-TTACC-GA--GGGAAGTTTGTTTTTCTGGCGA-AAG
*
1065408 AAATCATATTTACCGAGGGAAGTTTGTTTTTCTGGTGAAAG
1 AAATCATATTTACCGAGGGAAGTTTGTTTTTCTGGCGAAAG
* * *** * * *
1065449 AAATCTTCATATTCCCTGACCATTAAGATT-TATTTCT-CCGAGAA-
1 AAATCAT-AT-TTACC-GA--GGGAAGTTTGTTTTTCTGGCGA-AAG
* *
1065493 AAATCATATTTACCGAGGGAAGTTTGTTTCTCTGGGGAAAG
1 AAATCATATTTACCGAGGGAAGTTTGTTTTTCTGGCGAAAG
* * *** * * *
1065534 AAATCTTCATATTCCCTGACCATTAAGATT-TATTTCT-CCGAGAA-
1 AAATCAT-AT-TTACC-GA--GGGAAGTTTGTTTTTCTGGCGA-AAG
*
1065578 AAATCATATTTACCGAGGGAAGTTTGTTTTTCTGGGGAAAG
1 AAATCATATTTACCGAGGGAAGTTTGTTTTTCTGGCGAAAG
1065619 AAATC
1 AAATC
1065624 TTCATATTCC
Statistics
Matches: 176, Mismatches: 57, Indels: 54
0.61 0.20 0.19
Matches are distributed among these distances:
39 15 0.09
40 23 0.13
41 35 0.20
42 18 0.10
43 17 0.10
44 30 0.17
45 23 0.13
46 15 0.09
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (41 bp):
AAATCATATTTACCGAGGGAAGTTTGTTTTTCTGGCGAAAG
Found at i:1073975 original size:167 final size:167
Alignment explanation
Indices: 1073526--1074711 Score: 1981
Period size: 167 Copynumber: 7.1 Consensus size: 167
1073516 AACATTACAT
* * * *
1073526 TTCTTGAGAAGAA-AATTTTTAAACATTTTTC-ATATGTAGTTCTATGTTAAACTTTAAACCCCG
1 TTCTTGAGAAGAAGATTTTTTAAACATTTTCCTA-ATGTATTTCTATGTTAAACTTTGAACCCCG
* *
1073589 CCTGGGGCCCCAGTTTTGGTCCGAGGGTCACTATTTTTACAATTTAGAATCTTCACTATATATAA
65 CCTGGGGCCCCAGTTTTGGTCCGAGGGTCACGATTTTTACAATTTAGAATCTTCACTATATATAC
1073654 AAGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGG
130 AAGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGG
*
1073692 TTCTTGAGAAAAAGATTTTTTAAACATTTTCCT-ATGTATTTCTATGTTAAACTTTGAACCCCGC
1 TTCTTGAGAAGAAGATTTTTTAAACATTTTCCTAATGTATTTCTATGTTAAACTTTGAACCCCGC
* * * *
1073756 CTGGGGCCCCAGGTTTGGTCCGAGGGTCACGATTTCTACAATTTAGAATCTTCATTATACATACA
66 CTGGGGCCCCAGTTTTGGTCCGAGGGTCACGATTTTTACAATTTAGAATCTTCACTATATATACA
* *
1073821 AGCTTTTGTGTTAATATTGGGATTTCTGGTGCAGTGG
131 AGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGG
* *
1073858 TTCTTGAGAAGAAGATTTTTTAAACATTTTCCTAAGGTATTTCTATGCTAAACTTTGAACCCCGC
1 TTCTTGAGAAGAAGATTTTTTAAACATTTTCCTAATGTATTTCTATGTTAAACTTTGAACCCCGC
* *
1073923 ATGGGGCCACAGTTTTGGTCCGAGGGTCACGATTTTTACAATTTAGAATCTTCACTATATATACA
66 CTGGGGCCCCAGTTTTGGTCCGAGGGTCACGATTTTTACAATTTAGAATCTTCACTATATATACA
1073988 AGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGG
131 AGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGG
* *
1074025 TTCTTGAGAAGAAGATTTTTTAAACATTTTCCTAATGTATTTCTATGCTAAACTGTGAACCCCGC
1 TTCTTGAGAAGAAGATTTTTTAAACATTTTCCTAATGTATTTCTATGTTAAACTTTGAACCCCGC
* *
1074090 ATGGGGCCCCAGTTTTGGTCCGAGGGTCACGATTTTTACAATTTAGAATCTTCACTATGTATACA
66 CTGGGGCCCCAGTTTTGGTCCGAGGGTCACGATTTTTACAATTTAGAATCTTCACTATATATACA
1074155 AGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGG
131 AGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGG
* * *
1074192 TT-TTCGAGAAGAAGATTTTTTAAACATTTTCCT-TTGTATTTCTATGGTAAAATTTGAACCCCG
1 TTCTT-GAGAAGAAGATTTTTTAAACATTTTCCTAATGTATTTCTATGTTAAACTTTGAACCCCG
*
1074255 CCTGGGGCCCCAGTTTTGGTCCGAGGGTCACGATTTTTACAATTTAGAATCTTCACTATGTATAC
65 CCTGGGGCCCCAGTTTTGGTCCGAGGGTCACGATTTTTACAATTTAGAATCTTCACTATATATAC
1074320 AAGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGG
130 AAGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGG
* *
1074358 TTCTTGAGAAAAAGATTTTTTAAACATTTTCC-ATATGTAGTTCTATGTTAAACTTTGAACCCCG
1 TTCTTGAGAAGAAGATTTTTTAAACATTTTCCTA-ATGTATTTCTATGTTAAACTTTGAACCCCG
* * *
1074422 CCTGGGGCCCCAGTTTTTGTCCGAGGGTCACAATTTTTACAATTTAGAATCTTCACTATATATAA
65 CCTGGGGCCCCAGTTTTGGTCCGAGGGTCACGATTTTTACAATTTAGAATCTTCACTATATATAC
* *
1074487 AAGCTTTTTTGTAAATTTTGGCATTTCTGGTGCAGTGG
130 AAGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGG
*
1074525 TTCTTGAGAAGAAGATTTTTTAAACATTTTCC-ATATGTAGTTCTATGTTAAACTTTGAACCCCG
1 TTCTTGAGAAGAAGATTTTTTAAACATTTTCCTA-ATGTATTTCTATGTTAAACTTTGAACCCCG
*
1074589 CCTGAGGCCCCAGTTTTGGTCCGAGGGTCACGATTTTTACAATTTAGAATCTTCACTATATATAC
65 CCTGGGGCCCCAGTTTTGGTCCGAGGGTCACGATTTTTACAATTTAGAATCTTCACTATATATAC
1074654 AAGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGG
130 AAGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGG
1074692 TTCTTGAGAAGAAGATTTTT
1 TTCTTGAGAAGAAGATTTTT
1074712 AAAAACATGC
Statistics
Matches: 962, Mismatches: 51, Indels: 13
0.94 0.05 0.01
Matches are distributed among these distances:
166 325 0.34
167 637 0.66
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (167 bp):
TTCTTGAGAAGAAGATTTTTTAAACATTTTCCTAATGTATTTCTATGTTAAACTTTGAACCCCGC
CTGGGGCCCCAGTTTTGGTCCGAGGGTCACGATTTTTACAATTTAGAATCTTCACTATATATACA
AGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGG
Found at i:1074482 original size:500 final size:500
Alignment explanation
Indices: 1073526--1074711 Score: 2020
Period size: 500 Copynumber: 2.4 Consensus size: 500
1073516 AACATTACAT
* * *
1073526 TTCTTGAGAAGAA-AATTTTTAAACATTTTTCATATGTAGTTCTATGTTAAACTTTAAACCCCGC
1 TTCTTGAGAAGAAGATTTTTTAAACATTTTCCATATGTAGTTCTATGTTAAACTTTGAACCCCGC
* *
1073590 CTGGGGCCCCAGTTTTGGTCCGAGGGTCACTATTTTTACAATTTAGAATCTTCACTATATATAAA
66 CTGGGGCCCCAGTTTTGGTCCGAGGGTCACGATTTTTACAATTTAGAATCTTCACTATATATACA
*
1073655 AGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCTTGAGAAAAAGATTTTTTAAACATT
131 AGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCTTGAGAAGAAGATTTTTTAAACATT
* *
1073720 TTCCTATGTATTTCTATGTTAAACTTTGAACCCCGCCTGGGGCCCCAGGTTTGGTCCGAGGGTCA
196 TTCCTATGTATTTCTATGGTAAAATTTGAACCCCGCCTGGGGCCCCAGGTTTGGTCCGAGGGTCA
* * *
1073785 CGATTTCTACAATTTAGAATCTTCATTATACATACAAGCTTTTGTGTTAATATTGGGATTTCTGG
261 CGATTTCTACAATTTAGAATCTTCACTATACATACAAGCTTTTGTGTAAATATTGGCATTTCTGG
* *
1073850 TGCAGTGGTTCTTGAGAAGAAGATTTTTTAAACATTTTCCTAAGGTATTTCTATGCTAAACTTTG
326 TGCAGTGGTTCTTGAGAAAAAGATTTTTTAAACATTTTCCTAAGGTAGTTCTATGCTAAACTTTG
*
1073915 AACCCCGCATGGGGCCACAGTTTTGGTCCGAGGGTCACGATTTTTACAATTTAGAATCTTCACTA
391 AACCCCGCATGGGGCCACAGTTTTGGTCCGAGGGTCACAATTTTTACAATTTAGAATCTTCACTA
*
1073980 TATATACAAGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGG
456 TATATAAAAGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGG
* * *
1074025 TTCTTGAGAAGAAGATTTTTTAAACATTTTCC-TAATGTATTTCTATGCTAAACTGTGAACCCCG
1 TTCTTGAGAAGAAGATTTTTTAAACATTTTCCAT-ATGTAGTTCTATGTTAAACTTTGAACCCCG
* *
1074089 CATGGGGCCCCAGTTTTGGTCCGAGGGTCACGATTTTTACAATTTAGAATCTTCACTATGTATAC
65 CCTGGGGCCCCAGTTTTGGTCCGAGGGTCACGATTTTTACAATTTAGAATCTTCACTATATATAC
1074154 AAGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTT-TTCGAGAAGAAGATTTTTTAAACA
130 AAGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCTT-GAGAAGAAGATTTTTTAAACA
* *
1074218 TTTTCCTTTGTATTTCTATGGTAAAATTTGAACCCCGCCTGGGGCCCCAGTTTTGGTCCGAGGGT
194 TTTTCCTATGTATTTCTATGGTAAAATTTGAACCCCGCCTGGGGCCCCAGGTTTGGTCCGAGGGT
* **
1074283 CACGATTTTTACAATTTAGAATCTTCACTATGTATACAAGCTTTTGTGTAAATATTGGCATTTCT
259 CACGATTTCTACAATTTAGAATCTTCACTATACATACAAGCTTTTGTGTAAATATTGGCATTTCT
* *
1074348 GGTGCAGTGGTTCTTGAGAAAAAGATTTTTTAAACATTTTCC-ATATGTAGTTCTATGTTAAACT
324 GGTGCAGTGGTTCTTGAGAAAAAGATTTTTTAAACATTTTCCTA-AGGTAGTTCTATGCTAAACT
* * *
1074412 TTGAACCCCGCCTGGGGCCCCAGTTTTTGTCCGAGGGTCACAATTTTTACAATTTAGAATCTTCA
388 TTGAACCCCGCATGGGGCCACAGTTTTGGTCCGAGGGTCACAATTTTTACAATTTAGAATCTTCA
* *
1074477 CTATATATAAAAGCTTTTTTGTAAATTTTGGCATTTCTGGTGCAGTGG
453 CTATATATAAAAGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGG
1074525 TTCTTGAGAAGAAGATTTTTTAAACATTTTCCATATGTAGTTCTATGTTAAACTTTGAACCCCGC
1 TTCTTGAGAAGAAGATTTTTTAAACATTTTCCATATGTAGTTCTATGTTAAACTTTGAACCCCGC
*
1074590 CTGAGGCCCCAGTTTTGGTCCGAGGGTCACGATTTTTACAATTTAGAATCTTCACTATATATACA
66 CTGGGGCCCCAGTTTTGGTCCGAGGGTCACGATTTTTACAATTTAGAATCTTCACTATATATACA
1074655 AGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCTTGAGAAGAAGATTTTT
131 AGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCTTGAGAAGAAGATTTTT
1074712 AAAAACATGC
Statistics
Matches: 643, Mismatches: 38, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
499 17 0.03
500 623 0.97
501 3 0.00
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (500 bp):
TTCTTGAGAAGAAGATTTTTTAAACATTTTCCATATGTAGTTCTATGTTAAACTTTGAACCCCGC
CTGGGGCCCCAGTTTTGGTCCGAGGGTCACGATTTTTACAATTTAGAATCTTCACTATATATACA
AGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCTTGAGAAGAAGATTTTTTAAACATT
TTCCTATGTATTTCTATGGTAAAATTTGAACCCCGCCTGGGGCCCCAGGTTTGGTCCGAGGGTCA
CGATTTCTACAATTTAGAATCTTCACTATACATACAAGCTTTTGTGTAAATATTGGCATTTCTGG
TGCAGTGGTTCTTGAGAAAAAGATTTTTTAAACATTTTCCTAAGGTAGTTCTATGCTAAACTTTG
AACCCCGCATGGGGCCACAGTTTTGGTCCGAGGGTCACAATTTTTACAATTTAGAATCTTCACTA
TATATAAAAGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGG
Found at i:1074714 original size:333 final size:332
Alignment explanation
Indices: 1073526--1074711 Score: 1998
Period size: 333 Copynumber: 3.6 Consensus size: 332
1073516 AACATTACAT
* * *
1073526 TTCTTGAGAAGAA-AATTTTTAAACATTTTTCATATGTAGTTCTATGTTAAACTTTAAACCCCGC
1 TTCTTGAGAAGAAGATTTTTTAAACA-TTTTCCTATGTAGTTCTATGTTAAACTTTGAACCCCGC
* *
1073590 CTGGGGCCCCAGTTTTGGTCCGAGGGTCACTATTTTTACAATTTAGAATCTTCACTATATATAAA
65 CTGGGGCCCCAGTTTTGGTCCGAGGGTCACGATTTTTACAATTTAGAATCTTCACTATATATACA
1073655 AGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCTTGAGAAAAAGATTTTTTAAACATT
130 AGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCTTGAGAAAAAGATTTTTTAAACATT
*
1073720 TTCCTATGTATTTCTATGTTAAACTTTGAACCCCGCCTGGGGCCCCAGGTTTGGTCCGAGGGTCA
195 TTCCTATGTATTTCTATGTTAAACTTTGAACCCCGCCTGGGGCCCCAGTTTTGGTCCGAGGGTCA
* * * * *
1073785 CGATTTCTACAATTTAGAATCTTCATTATACATACAAGCTTTTGTGTTAATATTGGGATTTCTGG
260 CGATTTTTACAATTTAGAATCTTCACTATATATACAAGCTTTTGTGTAAATATTGGCATTTCTGG
1073850 TGCAGTGG
325 TGCAGTGG
* * *
1073858 TTCTTGAGAAGAAGATTTTTTAAACATTTTCCTAAGGTATTTCTATGCTAAACTTTGAACCCCGC
1 TTCTTGAGAAGAAGATTTTTTAAACATTTTCCT-ATGTAGTTCTATGTTAAACTTTGAACCCCGC
* *
1073923 ATGGGGCCACAGTTTTGGTCCGAGGGTCACGATTTTTACAATTTAGAATCTTCACTATATATACA
65 CTGGGGCCCCAGTTTTGGTCCGAGGGTCACGATTTTTACAATTTAGAATCTTCACTATATATACA
*
1073988 AGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCTTGAGAAGAAGATTTTTTAAACATT
130 AGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCTTGAGAAAAAGATTTTTTAAACATT
* * *
1074053 TTCCTAATGTATTTCTATGCTAAACTGTGAACCCCGCATGGGGCCCCAGTTTTGGTCCGAGGGTC
195 TTCCT-ATGTATTTCTATGTTAAACTTTGAACCCCGCCTGGGGCCCCAGTTTTGGTCCGAGGGTC
*
1074118 ACGATTTTTACAATTTAGAATCTTCACTATGTATACAAGCTTTTGTGTAAATATTGGCATTTCTG
259 ACGATTTTTACAATTTAGAATCTTCACTATATATACAAGCTTTTGTGTAAATATTGGCATTTCTG
1074183 GTGCAGTGG
324 GTGCAGTGG
* * * *
1074192 TT-TTCGAGAAGAAGATTTTTTAAACATTTTCCTTTGTATTTCTATGGTAAAATTTGAACCCCGC
1 TTCTT-GAGAAGAAGATTTTTTAAACATTTTCCTATGTAGTTCTATGTTAAACTTTGAACCCCGC
*
1074256 CTGGGGCCCCAGTTTTGGTCCGAGGGTCACGATTTTTACAATTTAGAATCTTCACTATGTATACA
65 CTGGGGCCCCAGTTTTGGTCCGAGGGTCACGATTTTTACAATTTAGAATCTTCACTATATATACA
1074321 AGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCTTGAGAAAAAGATTTTTTAAACATT
130 AGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCTTGAGAAAAAGATTTTTTAAACATT
* *
1074386 TTCCATATGTAGTTCTATGTTAAACTTTGAACCCCGCCTGGGGCCCCAGTTTTTGTCCGAGGGTC
195 TTCC-TATGTATTTCTATGTTAAACTTTGAACCCCGCCTGGGGCCCCAGTTTTGGTCCGAGGGTC
* * * *
1074451 ACAATTTTTACAATTTAGAATCTTCACTATATATAAAAGCTTTTTTGTAAATTTTGGCATTTCTG
259 ACGATTTTTACAATTTAGAATCTTCACTATATATACAAGCTTTTGTGTAAATATTGGCATTTCTG
1074516 GTGCAGTGG
324 GTGCAGTGG
1074525 TTCTTGAGAAGAAGATTTTTTAAACATTTTCCATATGTAGTTCTATGTTAAACTTTGAACCCCGC
1 TTCTTGAGAAGAAGATTTTTTAAACATTTTCC-TATGTAGTTCTATGTTAAACTTTGAACCCCGC
*
1074590 CTGAGGCCCCAGTTTTGGTCCGAGGGTCACGATTTTTACAATTTAGAATCTTCACTATATATACA
65 CTGGGGCCCCAGTTTTGGTCCGAGGGTCACGATTTTTACAATTTAGAATCTTCACTATATATACA
*
1074655 AGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCTTGAGAAGAAGATTTTT
130 AGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCTTGAGAAAAAGATTTTT
1074712 AAAAACATGC
Statistics
Matches: 801, Mismatches: 46, Indels: 12
0.93 0.05 0.01
Matches are distributed among these distances:
332 19 0.02
333 479 0.60
334 303 0.38
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (332 bp):
TTCTTGAGAAGAAGATTTTTTAAACATTTTCCTATGTAGTTCTATGTTAAACTTTGAACCCCGCC
TGGGGCCCCAGTTTTGGTCCGAGGGTCACGATTTTTACAATTTAGAATCTTCACTATATATACAA
GCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCTTGAGAAAAAGATTTTTTAAACATTT
TCCTATGTATTTCTATGTTAAACTTTGAACCCCGCCTGGGGCCCCAGTTTTGGTCCGAGGGTCAC
GATTTTTACAATTTAGAATCTTCACTATATATACAAGCTTTTGTGTAAATATTGGCATTTCTGGT
GCAGTGG
Found at i:1074893 original size:4 final size:4
Alignment explanation
Indices: 1074884--1074917 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
1074874 AAAGTTTACA
*
1074884 GACG GACG GACA GACG GACG GACG GAC- GACG GAC
1 GACG GACG GACG GACG GACG GACG GACG GACG GAC
1074918 AACGGGTGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.29, C:0.26, G:0.44, T:0.00
Consensus pattern (4 bp):
GACG
Found at i:1074898 original size:12 final size:12
Alignment explanation
Indices: 1074881--1074922 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
1074871 TGAAAAGTTT
1074881 ACAGACGGACGG
1 ACAGACGGACGG
1074893 ACAGACGGACGG
1 ACAGACGGACGG
*
1074905 ACGGAC-GACGG
1 ACAGACGGACGG
1074916 ACA-ACGG
1 ACAGACGG
1074923 GTGATCAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
10 2 0.07
11 8 0.30
12 17 0.63
ACGTcount: A:0.33, C:0.26, G:0.40, T:0.00
Consensus pattern (12 bp):
ACAGACGGACGG
Found at i:1101015 original size:26 final size:26
Alignment explanation
Indices: 1100979--1101030 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
1100969 TTCCTGTGTA
1100979 TATATAGTTTGTAATAATTACAAAAT
1 TATATAGTTTGTAATAATTACAAAAT
1101005 TATATAGTTTGTAATAATTACAAAAT
1 TATATAGTTTGTAATAATTACAAAAT
1101031 AAATAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (26 bp):
TATATAGTTTGTAATAATTACAAAAT
Found at i:1101593 original size:11 final size:11
Alignment explanation
Indices: 1101577--1101603 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
1101567 CATAAAATAT
1101577 ATACTTACCCA
1 ATACTTACCCA
1101588 ATACTTACCCA
1 ATACTTACCCA
1101599 ATACT
1 ATACT
1101604 CTGTAGGCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.33, G:0.00, T:0.30
Consensus pattern (11 bp):
ATACTTACCCA
Found at i:1104220 original size:32 final size:32
Alignment explanation
Indices: 1104175--1104267 Score: 141
Period size: 33 Copynumber: 2.9 Consensus size: 32
1104165 AATATATGTC
*
1104175 TATTAACTATTTAAGGGTATGGAGAATAGGTA
1 TATTAACTTTTTAAGGGTATGGAGAATAGGTA
*
1104207 TATTAACTTTTTAAACGGTATGGAGAATAGGTA
1 TATTAACTTTTT-AAGGGTATGGAGAATAGGTA
* *
1104240 TATTAACTTTTTAAGGGTGTGAAGAATA
1 TATTAACTTTTTAAGGGTATGGAGAATA
1104268 CCAATAAGTA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
32 24 0.44
33 31 0.56
ACGTcount: A:0.37, C:0.04, G:0.23, T:0.37
Consensus pattern (32 bp):
TATTAACTTTTTAAGGGTATGGAGAATAGGTA
Found at i:1109890 original size:129 final size:129
Alignment explanation
Indices: 1109730--1109988 Score: 518
Period size: 129 Copynumber: 2.0 Consensus size: 129
1109720 TTTGATGCTG
1109730 AGGATATTTTGGAAATGAACTTTGCACAAATTTGAATTCGTGAATTCTTTGTTAAGCTGAGAAAA
1 AGGATATTTTGGAAATGAACTTTGCACAAATTTGAATTCGTGAATTCTTTGTTAAGCTGAGAAAA
1109795 TTACGGCGATCTGTTTTCAATTACTTTCTTAAATTTTGGTTTGTTTCTTCATATAACAAAACAA
66 TTACGGCGATCTGTTTTCAATTACTTTCTTAAATTTTGGTTTGTTTCTTCATATAACAAAACAA
1109859 AGGATATTTTGGAAATGAACTTTGCACAAATTTGAATTCGTGAATTCTTTGTTAAGCTGAGAAAA
1 AGGATATTTTGGAAATGAACTTTGCACAAATTTGAATTCGTGAATTCTTTGTTAAGCTGAGAAAA
1109924 TTACGGCGATCTGTTTTCAATTACTTTCTTAAATTTTGGTTTGTTTCTTCATATAACAAAACAA
66 TTACGGCGATCTGTTTTCAATTACTTTCTTAAATTTTGGTTTGTTTCTTCATATAACAAAACAA
1109988 A
1 A
1109989 TGTTGACTGT
Statistics
Matches: 130, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
129 130 1.00
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.40
Consensus pattern (129 bp):
AGGATATTTTGGAAATGAACTTTGCACAAATTTGAATTCGTGAATTCTTTGTTAAGCTGAGAAAA
TTACGGCGATCTGTTTTCAATTACTTTCTTAAATTTTGGTTTGTTTCTTCATATAACAAAACAA
Found at i:1112961 original size:2 final size:2
Alignment explanation
Indices: 1112954--1112992 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1112944 AACAAATTTT
1112954 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1112993 TATGTAAGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1125540 original size:2 final size:2
Alignment explanation
Indices: 1125533--1125605 Score: 146
Period size: 2 Copynumber: 36.5 Consensus size: 2
1125523 ACCAGATATT
1125533 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1125575 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1125606 GTATGATGAT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1125679 original size:15 final size:15
Alignment explanation
Indices: 1125656--1125699 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
1125646 TCGCCCCTAA
* *
1125656 AGACCTTTCGCGCTG
1 AGACGTTTCGCGCCG
*
1125671 AGACGTTTCGCCCCG
1 AGACGTTTCGCGCCG
*
1125686 AGATGTTTCGCGCC
1 AGACGTTTCGCGCC
1125700 TATTAATTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.14, C:0.34, G:0.27, T:0.25
Consensus pattern (15 bp):
AGACGTTTCGCGCCG
Found at i:1125881 original size:15 final size:15
Alignment explanation
Indices: 1125858--1125901 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
1125848 TCGCCCCTTA
* *
1125858 AGACCTTTCGCGCTG
1 AGACGTTTCGCGCCG
*
1125873 AGACGTTTCGCCCCG
1 AGACGTTTCGCGCCG
*
1125888 AGATGTTTCGCGCC
1 AGACGTTTCGCGCC
1125902 TATTAATTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.14, C:0.34, G:0.27, T:0.25
Consensus pattern (15 bp):
AGACGTTTCGCGCCG
Found at i:1127483 original size:19 final size:19
Alignment explanation
Indices: 1127459--1127502 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
1127449 ACTGTGATAA
1127459 GACCCCTGACCTGAATCAT
1 GACCCCTGACCTGAATCAT
1127478 GACCCCTGACCTGAATCAT
1 GACCCCTGACCTGAATCAT
1127497 GACCCC
1 GACCCC
1127503 AATGACCGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.25, C:0.41, G:0.16, T:0.18
Consensus pattern (19 bp):
GACCCCTGACCTGAATCAT
Found at i:1138780 original size:31 final size:31
Alignment explanation
Indices: 1138745--1138809 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
1138735 TGACTATATC
1138745 TAACATCGACCTAAGTGGTCCTTGTCTTCAG
1 TAACATCGACCTAAGTGGTCCTTGTCTTCAG
*
1138776 TAACATCGACCTAAGTGTTCCTTGTCTTCAG
1 TAACATCGACCTAAGTGGTCCTTGTCTTCAG
1138807 TAA
1 TAA
1138810 ACAACCCTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.34
Consensus pattern (31 bp):
TAACATCGACCTAAGTGGTCCTTGTCTTCAG
Found at i:1139785 original size:36 final size:36
Alignment explanation
Indices: 1139738--1140166 Score: 675
Period size: 36 Copynumber: 12.0 Consensus size: 36
1139728 TACATGATAC
*
1139738 ATCATGTTCACATGATTTACAGCTATAGTGCCAACA
1 ATCATGTTCACATGATTTACAGCTATAGTGTCAACA
*
1139774 ATCATGTTCACATGATTTGCAGCTATAGTGTCAACA
1 ATCATGTTCACATGATTTACAGCTATAGTGTCAACA
* *
1139810 ATCATGTTCACATGATTTGCAGCTATAGTGGC-A-A
1 ATCATGTTCACATGATTTACAGCTATAGTGTCAACA
1139844 A-CATGTTCACATGATTTACAGCTATAGTGTCAACA
1 ATCATGTTCACATGATTTACAGCTATAGTGTCAACA
* *
1139879 ATCATGTTCACATGATTTGCAGCTATAGTGTCAGCA
1 ATCATGTTCACATGATTTACAGCTATAGTGTCAACA
*
1139915 ATCATGTTCACATGATTTACAGCTATAGTGGCAACA
1 ATCATGTTCACATGATTTACAGCTATAGTGTCAACA
* *
1139951 ATCGTGTTCACATGATTTACAGCTATAGTGTCAGCA
1 ATCATGTTCACATGATTTACAGCTATAGTGTCAACA
*
1139987 ATCATGTTCACATGATTTACAGCTAAAGTGTCAACA
1 ATCATGTTCACATGATTTACAGCTATAGTGTCAACA
* * **
1140023 ATCATGTTCACATGGTTTACAGCTAGAGTGTCAGTA
1 ATCATGTTCACATGATTTACAGCTATAGTGTCAACA
* *
1140059 CTCATGTTCACATGATTAACAGCTATAGTGTCAACA
1 ATCATGTTCACATGATTTACAGCTATAGTGTCAACA
* *
1140095 ATCATGTTTACATGAGTTACAGCTATAGTGTCAACA
1 ATCATGTTCACATGATTTACAGCTATAGTGTCAACA
1140131 ATCATGTTCACATGATTTACAGCTATAGTGTCAACA
1 ATCATGTTCACATGATTTACAGCTATAGTGTCAACA
1140167 TGGGAATTTC
Statistics
Matches: 358, Mismatches: 32, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
33 28 0.08
34 3 0.01
35 3 0.01
36 324 0.91
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (36 bp):
ATCATGTTCACATGATTTACAGCTATAGTGTCAACA
Found at i:1140633 original size:84 final size:89
Alignment explanation
Indices: 1140495--1140705 Score: 273
Period size: 84 Copynumber: 2.4 Consensus size: 89
1140485 GTCGGTATGT
* *
1140495 TAGATGTTTACATTCAGCTGAATTTCTGTTTT--A--CAGTGTGTACGACGAATACTG-TAGAGA
1 TAGATGTTTACAGTCAGCTGTATTTCTGTTTTACAGTCAGTGTGTACGACGAATACTGTTA-AGA
1140555 CGAGCGGGACT-C-CT-T-TATCTG
65 CGAGCGGGACTGCTCTATCTATCTG
* *
1140576 TAGATGTTTACAGTCAACT-TATTTCTGTTTTACAGTCAGTGTGTACG-CTGAGTACTGTTAAGA
1 TAGATGTTTACAGTCAGCTGTATTTCTGTTTTACAGTCAGTGTGTACGAC-GAATACTGTTAAGA
1140639 CGAGCGGGACTGCTCTATCACTATCTG
65 CGAGCGGGACTGCTCTAT--CTATCTG
1140666 TAGATGTTTACAGTCAGCTGTATTTCTGTTTTACAGTCAG
1 TAGATGTTTACAGTCAGCTGTATTTCTGTTTTACAGTCAG
1140706 CTGTATTTCA
Statistics
Matches: 112, Mismatches: 5, Indels: 16
0.84 0.04 0.12
Matches are distributed among these distances:
80 11 0.10
81 17 0.15
82 1 0.01
83 1 0.01
84 32 0.29
85 3 0.03
86 2 0.02
87 1 0.01
90 24 0.21
91 20 0.18
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (89 bp):
TAGATGTTTACAGTCAGCTGTATTTCTGTTTTACAGTCAGTGTGTACGACGAATACTGTTAAGAC
GAGCGGGACTGCTCTATCTATCTG
Found at i:1140699 original size:23 final size:23
Alignment explanation
Indices: 1140672--1140728 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
1140662 TCTGTAGATG
**
1140672 TTTACAGTCAGCTGTATTTCTGT
1 TTTACAGTCAGCTGTATTTCACT
1140695 TTTACAGTCAGCTGTATTTCACT
1 TTTACAGTCAGCTGTATTTCACT
1140718 TTTACAGTCAG
1 TTTACAGTCAG
1140729 TGTGTACGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.21, C:0.19, G:0.16, T:0.44
Consensus pattern (23 bp):
TTTACAGTCAGCTGTATTTCACT
Done.