Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold462
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1234098
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 5 of 8
Found at i:646515 original size:21 final size:21
Alignment explanation
Indices: 646474--646517 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
646464 CTCTCCTTTA
* *
646474 TCTCCCCCATTTATTAATAAT
1 TCTCCCCCATTAATCAATAAT
646495 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCATTAATCAA-TAAT
646516 TC
1 TC
646518 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.27, C:0.32, G:0.02, T:0.39
Consensus pattern (21 bp):
TCTCCCCCATTAATCAATAAT
Found at i:648328 original size:13 final size:13
Alignment explanation
Indices: 648310--648348 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
648300 ATAATCACCC
*
648310 TGTATCGCTACAA
1 TGTATCGATACAA
648323 TGTATCGATACAA
1 TGTATCGATACAA
*
648336 TTTATCGATACAA
1 TGTATCGATACAA
648349 AGAAAAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:650447 original size:15 final size:15
Alignment explanation
Indices: 650427--650457 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
650417 ATTTCGTTTG
*
650427 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
650442 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
650457 G
1 G
650458 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:652503 original size:13 final size:13
Alignment explanation
Indices: 652485--652511 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
652475 ATACAGCAAG
652485 AATGTATCGATAC
1 AATGTATCGATAC
652498 AATGTATCGATAC
1 AATGTATCGATAC
652511 A
1 A
652512 CAAAAAATTG
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:652509 original size:32 final size:33
Alignment explanation
Indices: 652468--652531 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
652458 TAGCCAAACT
*
652468 TGTATCGATACAGC-AAGAA-TGTATCGATACAA
1 TGTATCGATACA-CAAAAAATTGTATCGATACAA
652500 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
652532 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 1 0.03
32 16 0.55
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.27
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:654772 original size:21 final size:21
Alignment explanation
Indices: 654739--654783 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
654729 TTGCAAGTTG
*
654739 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
654761 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
654781 AAA
1 AAA
654784 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:656603 original size:15 final size:15
Alignment explanation
Indices: 656583--656613 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
656573 TAAAAATGTC
*
656583 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
656598 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
656613 C
1 C
656614 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:658697 original size:20 final size:20
Alignment explanation
Indices: 658618--658697 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
658608 AATGTCCAAA
*
658618 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
658638 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
658663 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
658683 TTGTATCGATACATT
1 ATGTATCGATACATT
658698 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:658701 original size:13 final size:13
Alignment explanation
Indices: 658683--658721 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
658673 ACATTTTTCT
658683 TTGTATCGATACA
1 TTGTATCGATACA
658696 TTGTATCGATACA
1 TTGTATCGATACA
* *
658709 CTGTATTGATACA
1 TTGTATCGATACA
658722 GGATGATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:658866 original size:21 final size:21
Alignment explanation
Indices: 658842--658888 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
658832 AAATCTTTTG
658842 CAAAAT-ACTT-GTTTTTCACTT
1 CAAAATAACTTCGTTTTTCA--T
658863 C-AAATAACTTCGTTTTTCAT
1 CAAAATAACTTCGTTTTTCAT
658883 CAAAAT
1 CAAAAT
658889 CAGCATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (21 bp):
CAAAATAACTTCGTTTTTCAT
Found at i:658885 original size:20 final size:19
Alignment explanation
Indices: 658844--658886 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
658834 ATCTTTTGCA
658844 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
658864 AAATAACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
658884 AAA
1 AAA
658887 ATCAGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:661224 original size:13 final size:13
Alignment explanation
Indices: 661206--661232 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
661196 ATACAACAAG
661206 AATGTATCGATAC
1 AATGTATCGATAC
661219 AATGTATCGATAC
1 AATGTATCGATAC
661232 A
1 A
661233 CAAAAAATTG
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:661230 original size:32 final size:33
Alignment explanation
Indices: 661189--661252 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
661179 TAGCCAAACT
*
661189 TGTATCGATACA-ACAAGAA-TGTATCGATACAA
1 TGTATCGATACACA-AAAAATTGTATCGATACAA
661221 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
661253 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 16 0.55
33 13 0.45
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.27
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:664287 original size:21 final size:20
Alignment explanation
Indices: 664263--664309 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
664253 AAATCTTTTG
664263 CAAAATACTT-ATTTTTCACTT
1 CAAAATACTTCATTTTTCA--T
* *
664284 CAAATTACTTCGTTTTTCAT
1 CAAAATACTTCATTTTTCAT
664304 CAAAAT
1 CAAAAT
664310 CAGCTTCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 6 0.27
21 9 0.41
22 7 0.32
ACGTcount: A:0.34, C:0.19, G:0.02, T:0.45
Consensus pattern (20 bp):
CAAAATACTTCATTTTTCAT
Found at i:666715 original size:13 final size:13
Alignment explanation
Indices: 666697--666722 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
666687 TACACCAAAT
666697 ATGTATCGATACA
1 ATGTATCGATACA
666710 ATGTATCGATACA
1 ATGTATCGATACA
666723 TCAGAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:666741 original size:34 final size:32
Alignment explanation
Indices: 666679--666743 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
666669 TAGCTAAACT
*
666679 TGTATCGATACACCAAATATGTATCGATACAA
1 TGTATCGATACACCAAAAATGTATCGATACAA
*
666711 TGTATCGATACATCAGAAAATTGTATCGATACA
1 TGTATCGATACACCA-AAAA-TGTATCGATACA
666744 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 14 0.48
33 3 0.10
34 12 0.41
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (32 bp):
TGTATCGATACACCAAAAATGTATCGATACAA
Found at i:666806 original size:20 final size:21
Alignment explanation
Indices: 666777--666815 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
666767 GCTATATTTT
666777 AAAATATGTATCAATACATCA
1 AAAATATGTATCAATACATCA
*
666798 AAAAT-TGTATCGATACAT
1 AAAATATGTATCAATACAT
666816 TCACACGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.49, C:0.13, G:0.08, T:0.31
Consensus pattern (21 bp):
AAAATATGTATCAATACATCA
Found at i:669091 original size:32 final size:33
Alignment explanation
Indices: 669027--669094 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
669017 TGTTACAAGC
* *
669027 CAATGTATCGATACATTTTGGGATGTATCGATA
1 CAATGTATCGATACATATTGAGATGTATCGATA
*
669060 CAATGTATGGATACATATTGAG-TGTATCGATA
1 CAATGTATCGATACATATTGAGATGTATCGATA
669092 CAA
1 CAA
669095 ACAGTTAAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.34
Consensus pattern (33 bp):
CAATGTATCGATACATATTGAGATGTATCGATA
Found at i:671748 original size:20 final size:21
Alignment explanation
Indices: 671723--671762 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
671713 AGTTTTCCAG
671723 ATGTATCGATACATT-TGAAC
1 ATGTATCGATACATTCTGAAC
671743 ATGTATCGATACATTCTGAA
1 ATGTATCGATACATTCTGAA
671763 ATTTTTCCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (21 bp):
ATGTATCGATACATTCTGAAC
Found at i:677868 original size:19 final size:19
Alignment explanation
Indices: 677806--677874 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
677796 TACAAGCCAA
* *
677806 TGTATCGATACATTTTGGG
1 TGTATCGATACATATTGTG
* *
677825 ATGTATTGATACA-A-TGTAT
1 -TGTATCGATACATATTGT-G
677844 TGTATCGATACATATTGTG
1 TGTATCGATACATATTGTG
677863 TGTATCGATACA
1 TGTATCGATACA
677875 AACAGTTAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
18 13 0.32
19 13 0.32
20 14 0.35
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (19 bp):
TGTATCGATACATATTGTG
Found at i:677974 original size:13 final size:13
Alignment explanation
Indices: 677956--677980 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
677946 ATATTTGGTC
677956 ATGTATCGATACA
1 ATGTATCGATACA
677969 ATGTATCGATAC
1 ATGTATCGATAC
677981 TGTGCATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:681489 original size:13 final size:13
Alignment explanation
Indices: 681471--681498 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
681461 CGTTACAAGC
681471 CAATGTATCGATA
1 CAATGTATCGATA
681484 CAATGTATCGATA
1 CAATGTATCGATA
681497 CA
1 CA
681499 TCTTGTATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:685113 original size:13 final size:13
Alignment explanation
Indices: 685073--685125 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
685063 CCATTACAAG
685073 CAATGTATCGATA
1 CAATGTATCGATA
685086 C-AT-T-TC-AT-
1 CAATGTATCGATA
685094 C-ATGTATCGATA
1 CAATGTATCGATA
685106 CAATGTATCGATA
1 CAATGTATCGATA
*
685119 CATTGTA
1 CAATGTA
685126 CCATGTATCG
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
8 3 0.09
9 3 0.09
10 4 0.12
11 3 0.09
12 3 0.09
13 18 0.53
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:685113 original size:33 final size:33
Alignment explanation
Indices: 685073--685141 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
685063 CCATTACAAG
*
685073 CAATGTATCGATACATT-TCATCATGTATCGATA
1 CAATGTATCGATACATTGT-ACCATGTATCGATA
685106 CAATGTATCGATACATTGTACCATGTATCGATA
1 CAATGTATCGATACATTGTACCATGTATCGATA
685139 CAA
1 CAA
685142 ATAGTGATAG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 33 0.97
34 1 0.03
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (33 bp):
CAATGTATCGATACATTGTACCATGTATCGATA
Found at i:685882 original size:22 final size:22
Alignment explanation
Indices: 685850--685911 Score: 78
Period size: 20 Copynumber: 3.0 Consensus size: 22
685840 TAATCGGTTA
*
685850 TCTCCCTCTATATAAAAGATTT
1 TCTCCCCCTATATAAAAGATTT
685872 TCTCCCCC--TATAAAAGATTT
1 TCTCCCCCTATATAAAAGATTT
*
685892 TCT-CCCGTATATAAAA-ATTT
1 TCTCCCCCTATATAAAAGATTT
685912 GTTTTCAACA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
19 3 0.08
20 19 0.53
21 7 0.19
22 7 0.19
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (22 bp):
TCTCCCCCTATATAAAAGATTT
Found at i:687338 original size:20 final size:22
Alignment explanation
Indices: 687296--687340 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
687286 GCAGTAGGTG
* *
687296 TGGGAGCTGCCCGATTGCGACC
1 TGGGAGCTGCCCGATCGCAACC
687318 TGGGAG-TG-CCGATCGCAACC
1 TGGGAGCTGCCCGATCGCAACC
687338 TGG
1 TGG
687341 AAATGGTTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.62
21 2 0.10
22 6 0.29
ACGTcount: A:0.16, C:0.29, G:0.38, T:0.18
Consensus pattern (22 bp):
TGGGAGCTGCCCGATCGCAACC
Found at i:694053 original size:19 final size:19
Alignment explanation
Indices: 694009--694064 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
693999 CTGCTAGTTT
**
694009 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
694029 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
694048 CATGTATCGATACAATG
1 CATGTATCGATACAATG
694065 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:694067 original size:13 final size:13
Alignment explanation
Indices: 694049--694075 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
694039 TACAATGAAC
694049 ATGTATCGATACA
1 ATGTATCGATACA
694062 ATGTATCGATACA
1 ATGTATCGATACA
694075 A
1 A
694076 AGCATAATAT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:695351 original size:13 final size:13
Alignment explanation
Indices: 695317--695353 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
695307 ACATTCCTTA
* *
695317 TATCGATAAATTT
1 TATCGATACATTG
695330 TATCGATACATTG
1 TATCGATACATTG
695343 TATCGATACAT
1 TATCGATACAT
695354 GGGTTACTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.41
Consensus pattern (13 bp):
TATCGATACATTG
Found at i:701138 original size:49 final size:49
Alignment explanation
Indices: 700954--701550 Score: 347
Period size: 49 Copynumber: 12.8 Consensus size: 49
700944 CGAAGAATGG
* * * *
700954 CAATGTGCTGATTCATGGCCAGCGACATTAGACTTGAAA-AAGAA--TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT-AAAGATGAAGGTGC
** * * * *
701001 CAATGTGCTGAGACAAGGCCAGCGACATTGGGCTTAGGAATGTTAAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA--AA-GATGAAGGTGC
* * * * * *
701053 CAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAAATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGC
* * * *
701102 TAATGTGCTGATTCAAGGCTAGCGGCATTGGTCTTAAAGACG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGC
* * * * *
701150 CAATATGCTGATTTAAGGCTAGTGATATTGAG-C-T-----T--A--TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTG-GTCTTAAAGATGAAGGTGC
* * * *
701189 CAATGTGCTGATTCAAGGCTAGCGACATTAGTCTTAGAGA-CAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGC
* * *
701237 CAATATGCTGATTCAAGGCTAGCGATATTAGG-C-T-----T----GTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATT-GGTCTTAAAGATGAAGGTGC
*
701276 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGC
* * * * *
701325 CAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAGGATG-AGGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGG-TGC
* *
701374 CAATGTGCTGATTCAAGGCC-GACGACATTGGTCTTAAAGGTAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAG-CGACATTGGTCTTAAAGATGAAGGTGC
* * * * ** *
701423 CAATATGCTAATTCAAGGCCAGCG--A-T-ATC--AGACTTGCA----C
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGC
* * *
701462 CAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAGAGA-CAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGC
* * * *
701510 CAATATGCTGATTCAAGGCCAGTGATATTGGACTTAGAAGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA-AAGA
701551 AGATGCCACC
Statistics
Matches: 422, Mismatches: 82, Indels: 90
0.71 0.14 0.15
Matches are distributed among these distances:
38 3 0.01
39 82 0.19
40 2 0.00
41 2 0.00
42 1 0.00
43 6 0.01
44 1 0.00
45 6 0.01
46 3 0.01
47 33 0.08
48 100 0.24
49 143 0.34
50 8 0.02
52 32 0.08
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGC
Found at i:701249 original size:87 final size:88
Alignment explanation
Indices: 701103--701545 Score: 513
Period size: 87 Copynumber: 5.0 Consensus size: 88
701093 TGAAGGTGCT
* * * *
701103 AATGTGCTGATTCAAGGCTAGCGGCATTGGTCTTAAAGACGAGGTGCCAATATGCTGATTTAAGG
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAAGG
* *
701168 CTAGTGATATTGAG-CTTATGCC
66 CCAGCGATATTGAGACTTATGCC
* * *
701190 AATGTGCTGATTCAAGGCTAGCGACATTAGTCTTAGAGACAAGGTGCCAATATGCTGATTCAAGG
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAAGG
* * *
701255 CTAGCGATATT-AGGCTTGTGCC
66 CCAGCGATATTGAGACTTATGCC
*
701277 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAG
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATTCAAG
*
701342 GCCAGCGATATCG-GACTTAAGGATGAGGATGCC
65 GCCAGCGATATTGAGAC-T-----T----ATGCC
*
701375 AATGTGCTGATTCAAGGCC-GACGACATTGGTCTTAAAGGTA-AAGGTGCCAATATGCTAATTCA
1 AATGTGCTGATTCAAGGCCAG-CGACATTGGTCTTAAA-G-ACAAGGTGCCAATATGCTGATTCA
* ***
701438 AGGCCAGCGATA-TCAGACTTGCACC
63 AGGCCAGCGATATTGAGACTTATGCC
* *
701463 AATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTCAAGG
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAAGG
*
701528 CCAGTGATATTG-GACTTA
66 CCAGCGATATTGAGACTTA
701546 GAAGAAGATG
Statistics
Matches: 309, Mismatches: 27, Indels: 40
0.82 0.07 0.11
Matches are distributed among these distances:
86 3 0.01
87 151 0.49
88 72 0.23
89 2 0.01
92 1 0.00
94 1 0.00
97 2 0.01
98 75 0.24
99 1 0.00
100 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (88 bp):
AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAAGG
CCAGCGATATTGAGACTTATGCC
Found at i:701287 original size:39 final size:40
Alignment explanation
Indices: 701146--701300 Score: 152
Period size: 39 Copynumber: 3.7 Consensus size: 40
701136 TAAAGACGAG
* *
701146 GTGCCAATATGCTGATTTAAGGCTAGTGATATT-GAGCTT
1 GTGCCAATATGCTGATTCAAGGCTAGCGATATTAGAGCTT
* * **
701185 ATGCCAATGTGCTGATTCAAGGCTAGCGACATTAGTCTTAGAGACAAG
1 GTGCCAATATGCTGATTCAAGGCTAGCG--A-TA---TTAGAG-C-TT
701233 GTGCCAATATGCTGATTCAAGGCTAGCGATATTAG-GCTT
1 GTGCCAATATGCTGATTCAAGGCTAGCGATATTAGAGCTT
* *
701272 GTGCCAATGTGCTGATTCAAGGCCAGCGA
1 GTGCCAATATGCTGATTCAAGGCTAGCGA
701301 CATTGGTCTT
Statistics
Matches: 95, Mismatches: 12, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
39 51 0.54
40 1 0.01
41 2 0.02
42 6 0.06
45 4 0.04
46 4 0.04
47 1 0.01
48 26 0.27
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.28
Consensus pattern (40 bp):
GTGCCAATATGCTGATTCAAGGCTAGCGATATTAGAGCTT
Found at i:701442 original size:98 final size:92
Alignment explanation
Indices: 700997--701545 Score: 510
Period size: 87 Copynumber: 6.0 Consensus size: 92
700987 TTGAAAAAGA
** * * *
700997 ATGCCAATGTGCTGAGACAAGGCCAGCGACATTGGGCTTAGGAATGTTAAAGATGCCAATATGCT
1 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA--AA-GGTAAAGGTGCCAATATGCT
* *
701062 GATTCAAGGCCAACGATATCGGACTTAAAAATGA
63 GATTCAAGGCCAGCGATATCGGACTT----ATGC
* * * *
701096 AGGTGCTAATGTGCTGATTCAAGGCTAGCGGCATTGGTCTTAAA-G-ACGAGGTGCCAATATGCT
1 A--TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGGTA-AAGGTGCCAATATGCT
* * * *
701159 GATTTAAGGCTAGTGATAT-TGAGC-T-T--
63 GATTCAAGGCCAGCGATATCGGA-CTTATGC
* * *
701185 ATGCCAATGTGCTGATTCAAGGCTAGCGACATTAGTCTTAGA-G-ACAAGGTGCCAATATGCTGA
1 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGGTA-AAGGTGCCAATATGCTGA
* *
701248 TTCAAGGCTAGCGATATTAGG-C-T-TG-
65 TTCAAGGCCAGCGATA-TCGGACTTATGC
*
701273 -TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
1 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGGTAAAGGTGCCAATATGCTGAT
*
701337 TCAAGGCCAGCGATATCGGACTTAAGGATGAGG
66 TCAAGGCCAGCGATATCGGACTT----AT--GC
*
701370 ATGCCAATGTGCTGATTCAAGGCC-GACGACATTGGTCTTAAAGGTAAAGGTGCCAATATGCTAA
1 ATGCCAATGTGCTGATTCAAGGCCAG-CGACATTGGTCTTAAAGGTAAAGGTGCCAATATGCTGA
*
701434 TTCAAGGCCAGCGATATCAGAC-T-TGC
65 TTCAAGGCCAGCGATATCGGACTTATGC
* *
701460 A--CCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAGA-G-ACAAGGTGCCAATATGCTGA
1 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGGTA-AAGGTGCCAATATGCTGA
* *
701521 TTCAAGGCCAGTGATATTGGACTTA
65 TTCAAGGCCAGCGATATCGGACTTA
701546 GAAGAAGATG
Statistics
Matches: 387, Mismatches: 38, Indels: 60
0.80 0.08 0.12
Matches are distributed among these distances:
86 1 0.00
87 152 0.39
88 71 0.18
89 5 0.01
90 2 0.01
91 1 0.00
92 1 0.00
94 1 0.00
96 5 0.01
97 32 0.08
98 80 0.21
99 3 0.01
101 33 0.09
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (92 bp):
ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGGTAAAGGTGCCAATATGCTGAT
TCAAGGCCAGCGATATCGGACTTATGC
Found at i:701527 original size:273 final size:274
Alignment explanation
Indices: 700998--701538 Score: 761
Period size: 273 Copynumber: 2.0 Consensus size: 274
700988 TGAAAAAGAA
*
700998 TGCCAATGTGCTGAGACAAGGCCAGCGACATTGGGCTTAGGAATGTTAAAGATGCCAATATGCTG
1 TGCCAATGTGCTGAGACAAGGCCAGCGACATTGGGCTTA-GAATGATAAAGATGCCAATATGCTG
* * *
701063 ATTCAAGGCCAACGATATCGGACTTAAAAATGAAGGTGCTAATGTGCTGATTCAAGGCTAGCGGC
65 ATTCAAGGCCAACGATATCGGACTTAAAAATGAAGGTGCCAATGTGCTGATTCAAGGCGAGCGAC
* * * * * * **
701128 ATTGGTCTTAAAGACGAGGTGCCAATATGCTGATTTAAGGCTAGTGATATTGAGCTTATGCCAAT
130 ATTGGTCTTAAAGACAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATAGAGCTTACACCAAT
* * *
701193 GTGCTGATTCAAGGCTAGCGACATTAGTCTTAGAGACAAGGTGCCAATATGCTGATTCAAGGCTA
195 GTGCTGATTCAAGGCCAGCAACATTAGTCTTAGAGACAAGGTGCCAATATGCTGATTCAAGGCCA
701258 GCGATATTAGGCTTG
260 GCGATATTAGGCTTG
** * *
701273 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA-AA-GATAAAGGTGCCAATATGCTGA
1 TGCCAATGTGCTGAGACAAGGCCAGCGACATTGGGCTTAGAATGATAAAGATGCCAATATGCTGA
* **
701336 TTCAAGGCCAGCGATATCGGACTTAAGGATG-AGGATGCCAATGTGCTGATTCAAGGCCGA-CGA
66 TTCAAGGCCAACGATATCGGACTTAAAAATGAAGG-TGCCAATGTGCTGATTCAAGG-CGAGCGA
*
701399 CATTGGTCTTAAAGGTA-AAGGTGCCAATATGCTAATTCAAGGCCAGCGATATCAGA-CTTGCAC
129 CATTGGTCTTAAA-G-ACAAGGTGCCAATATGCTAATTCAAGGCCAGCGATAT-AGAGCTTACAC
*
701462 CAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTCAAG
191 CAATGTGCTGATTCAAGGCCAGCAACATTAGTCTTAGAGACAAGGTGCCAATATGCTGATTCAAG
*
701527 GCCAGTGATATT
256 GCCAGCGATATT
701539 GGACTTAGAA
Statistics
Matches: 236, Mismatches: 25, Indels: 12
0.86 0.09 0.04
Matches are distributed among these distances:
271 3 0.01
272 83 0.35
273 111 0.47
274 3 0.01
275 36 0.15
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (274 bp):
TGCCAATGTGCTGAGACAAGGCCAGCGACATTGGGCTTAGAATGATAAAGATGCCAATATGCTGA
TTCAAGGCCAACGATATCGGACTTAAAAATGAAGGTGCCAATGTGCTGATTCAAGGCGAGCGACA
TTGGTCTTAAAGACAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATAGAGCTTACACCAATG
TGCTGATTCAAGGCCAGCAACATTAGTCTTAGAGACAAGGTGCCAATATGCTGATTCAAGGCCAG
CGATATTAGGCTTG
Found at i:701595 original size:31 final size:30
Alignment explanation
Indices: 701554--701665 Score: 129
Period size: 29 Copynumber: 3.7 Consensus size: 30
701544 TAGAAGAAGA
*
701554 TGCCACCAACTTGTGTGGGCTTTTGAAAGGGT
1 TGCCACCAAC-T-TGTGGGCTTTTGAAAGGGG
*
701586 TG-CACCAACTTGTGGGC-TATGAAAGGGG
1 TGCCACCAACTTGTGGGCTTTTGAAAGGGG
*
701614 TGCCACCAACTTGTGGGCTTTTAAAAAGGGG
1 TGCCACCAACTTGTGGGCTTTT-GAAAGGGG
**
701645 ATGCCACTGACTTGTGGGCTT
1 -TGCCACCAACTTGTGGGCTT
701666 AAAAGGAGAA
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
28 11 0.16
29 22 0.31
30 3 0.04
31 14 0.20
32 20 0.29
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.28
Consensus pattern (30 bp):
TGCCACCAACTTGTGGGCTTTTGAAAGGGG
Found at i:701671 original size:60 final size:60
Alignment explanation
Indices: 701554--701671 Score: 143
Period size: 60 Copynumber: 2.0 Consensus size: 60
701544 TAGAAGAAGA
* * *
701554 TGCCACCAACTTGTGTGGGCTTTTGAAAGGGTTGCACCAACTTGTGGGCTATGAAAGGGG
1 TGCCACCAACTTGTGTGGGCTTTTAAAAGGGATGCACCAACTTGTGGGCTATAAAAGGGG
**
701614 TGCCACCAAC-T-TGTGGGCTTTTAAAAAGGGGATGCCACTGACTTGTGGGCT-TAAAAGG
1 TGCCACCAACTTGTGTGGGCTTTT-AAAA-GGGATG-CACCAACTTGTGGGCTATAAAAGG
701672 AGAAAGAAGC
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
58 11 0.22
59 4 0.08
60 21 0.42
61 14 0.28
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (60 bp):
TGCCACCAACTTGTGTGGGCTTTTAAAAGGGATGCACCAACTTGTGGGCTATAAAAGGGG
Found at i:701700 original size:33 final size:33
Alignment explanation
Indices: 701644--702548 Score: 811
Period size: 33 Copynumber: 27.8 Consensus size: 33
701634 TTAAAAAGGG
* * * *
701644 GATGCCACTGACTTGTGGGCTTAAAAGGAGAAA
1 GATGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* *
701677 GAAGCTACGGAGTTGTGGACTTAAAAGG-----
1 GATGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* * *
701705 G-TGCAACAGAGTTGCGGACTTAAAAGG-----
1 GATGCCACGGAGTTGTGGACTTAAAAGGAAAAA
*
701732 G-TGCCACAGAGTTGTGGACTTAAAAGGAAAAA
1 GATGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* **
701764 GAGTGCCATGGAGTTGTGGGGTTTAAAAGGAAAAA
1 GA-TGCCACGGAGTTGT-GGACTTAAAAGGAAAAA
* * * * *
701799 GTGTGTCACGAAGTTGTGGGCTTTAAAAAGAAAAA
1 G-ATGCCACGGAGTTGTGGAC-TTAAAAGGAAAAA
*
701834 TG-TGCCACGGAGTTGTAGACTTAAAAGGAAAAA
1 -GATGCCACGGAGTTGTGGACTTAAAAGGAAAAA
*
701867 GATGCCACGGAGTTGTGGACTTAAAATGAAAAA
1 GATGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* *
701900 GTTACCACGGAGTTGTGGACTTAAAAGGAAAAA
1 GATGCCACGGAGTTGTGGACTTAAAAGGAAAAA
**
701933 GAGTGCCATTGAGTTGT-GAGCTTAAAAGGAAAAA
1 GA-TGCCACGGAGTTGTGGA-CTTAAAAGGAAAAA
* * *
701967 GAGTGACACGGAGTTGTGGGCTTTAAAAAGAAAAA
1 GA-TGCCACGGAGTTGTGGAC-TTAAAAGGAAAAA
* *
702002 TG-TGCCACAGAGTTGTGGACTTAAAAAGAAAAA
1 -GATGCCACGGAGTTGTGGACTTAAAAGGAAAAA
702035 GATGCCACGGAGTTGTGGACTTAAAAGGAAAAA
1 GATGCCACGGAGTTGTGGACTTAAAAGGAAAAA
*
702068 GATGCCACGGAGTTGTAGACTTAAAAGG-----
1 GATGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* * *
702096 G-TGCCATGGAGTTATGGACTTAAAAGGAACAA
1 GATGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* *
702128 GAGTGCCACGAATTTGTAGG-CTTTAGAAA-GAAAAA
1 GA-TGCCACGGAGTTGT-GGAC-TTA-AAAGGAAAAA
*
702163 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
1 GATGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* *
702196 GAGTGCCACGAAGTTGTGGGCTTAAAAGGAAAAA
1 GA-TGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* * *
702230 GGGTGCCATGGAGTCGTGGACTTAAAAGG-----
1 -GATGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* **
702259 G-TGCCATGGAGTCATGGACTTAAAAGGAAAAA
1 GATGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* *
702291 GATGCCACAGAGTTATGGACTTAAAAGGAAAAA
1 GATGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* * *
702324 GAGTGCTATGGAGTTGT-GAGTTTAAAAGGAAAAA
1 GA-TGCCACGGAGTTGTGGA-CTTAAAAGGAAAAA
* * *
702358 GAGTGTCACGGAGTTGTGGGCTTTAAAAAGAAAAA
1 GA-TGCCACGGAGTTGTGGAC-TTAAAAGGAAAAA
* *
702393 GGTGCCACGGAGTTGTGGACTTAAAAAGAAAAA
1 GATGCCACGGAGTTGTGGACTTAAAAGGAAAAA
702426 GATGCCACGGAGTTGTGGACTTAAAAGG-----
1 GATGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* *
702454 G-TGCCACGGAGTTGTAGACTTAAAAGGAACAA
1 GATGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* *
702486 GAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA
1 GA-TGCCACGGAGTTGTGGAC-TTAAAAGGAAAAA
* * *
702521 GGTACCACGGAGTTGTAGACTTAAAAGG
1 GATGCCACGGAGTTGTGGACTTAAAAGG
702549 GTGCCACATA
Statistics
Matches: 727, Mismatches: 95, Indels: 100
0.79 0.10 0.11
Matches are distributed among these distances:
27 120 0.17
28 4 0.01
32 9 0.01
33 256 0.35
34 243 0.33
35 90 0.12
36 5 0.01
ACGTcount: A:0.37, C:0.11, G:0.30, T:0.21
Consensus pattern (33 bp):
GATGCCACGGAGTTGTGGACTTAAAAGGAAAAA
Found at i:701716 original size:27 final size:27
Alignment explanation
Indices: 701686--701758 Score: 128
Period size: 27 Copynumber: 2.7 Consensus size: 27
701676 AGAAGCTACG
701686 GAGTTGTGGACTTAAAAGGGTGCAACA
1 GAGTTGTGGACTTAAAAGGGTGCAACA
* *
701713 GAGTTGCGGACTTAAAAGGGTGCCACA
1 GAGTTGTGGACTTAAAAGGGTGCAACA
701740 GAGTTGTGGACTTAAAAGG
1 GAGTTGTGGACTTAAAAGG
701759 AAAAAGAGTG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.32, C:0.12, G:0.34, T:0.22
Consensus pattern (27 bp):
GAGTTGTGGACTTAAAAGGGTGCAACA
Found at i:701770 original size:34 final size:34
Alignment explanation
Indices: 701726--702548 Score: 836
Period size: 34 Copynumber: 25.0 Consensus size: 34
701716 TTGCGGACTT
* *
701726 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
* **
701760 AAAAGAGTGCCATGGAGTTGTGGGGTTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGT-GGACTTAAAAGGA
* * * * *
701795 AAAAGTGTGTCACGAAGTTGTGGGCTTTAAAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAGGA
* *
701830 AAAA-TGTGCCACGGAGTTGTAGACTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
*
701863 AAAAGA-TGCCACGGAGTTGTGGACTTAAAATGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
* *
701896 AAAAG-TTACCACGGAGTTGTGGACTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
**
701929 AAAAGAGTGCCATTGAGTTGT-GAGCTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGA-CTTAAAAGGA
* * *
701963 AAAAGAGTGACACGGAGTTGTGGGCTTTAAAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAGGA
* * *
701998 AAAA-TGTGCCACAGAGTTGTGGACTTAAAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
702031 AAAAGA-TGCCACGGAGTTGTGGACTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
*
702064 AAAAGA-TGCCACGGAGTTGTAGACTTAAAA-G-
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
* *
702095 ----G-GTGCCATGGAGTTATGGACTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
* * *
702124 ACAAGAGTGCCACGAATTTGTAGG-CTTTAGAAA-GA
1 AAAAGAGTGCCACGGAGTTGT-GGAC-TTA-AAAGGA
702159 AAAAG-GTGCCACGGAGTTGTGGACTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
* *
702192 AAAAGAGTGCCACGAAGTTGTGGGCTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
* * *
702226 AAAAGGGTGCCATGGAGTCGTGGACTTAAAA-G-
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
* **
702258 ----G-GTGCCATGGAGTCATGGACTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
* *
702287 AAAAGA-TGCCACAGAGTTATGGACTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
* * *
702320 AAAAGAGTGCTATGGAGTTGT-GAGTTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGA-CTTAAAAGGA
* * *
702354 AAAAGAGTGTCACGGAGTTGTGGGCTTTAAAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAGGA
*
702389 AAAAG-GTGCCACGGAGTTGTGGACTTAAAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
702422 AAAAGA-TGCCACGGAGTTGTGGACTTAAAA-G-
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
*
702453 ----G-GTGCCACGGAGTTGTAGACTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
* * *
702482 ACAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAGGA
* *
702517 AAAAG-GTACCACGGAGTTGTAGACTTAAAAGG
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGG
702549 GTGCCACATA
Statistics
Matches: 664, Mismatches: 81, Indels: 89
0.80 0.10 0.11
Matches are distributed among these distances:
27 70 0.11
28 4 0.01
32 5 0.01
33 234 0.35
34 258 0.39
35 90 0.14
36 3 0.00
ACGTcount: A:0.38, C:0.11, G:0.30, T:0.21
Consensus pattern (34 bp):
AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
Found at i:702101 original size:27 final size:27
Alignment explanation
Indices: 702070--702122 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
702060 AGGAAAAAGA
*
702070 TGCCACGGAGTTGTAGACTTAAAAGGG
1 TGCCACGGAGTTATAGACTTAAAAGGG
* *
702097 TGCCATGGAGTTATGGACTTAAAAGG
1 TGCCACGGAGTTATAGACTTAAAAGG
702123 AACAAGAGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.30, C:0.13, G:0.32, T:0.25
Consensus pattern (27 bp):
TGCCACGGAGTTATAGACTTAAAAGGG
Found at i:702184 original size:95 final size:93
Alignment explanation
Indices: 702011--702548 Score: 287
Period size: 94 Copynumber: 5.6 Consensus size: 93
702001 ATGTGCCACA
* *
702011 GAGTTGTGGACTTAAAAAGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCAC
1 GAGTTATGGACTTAAAAAGAAAAAGATGCCACGAAGTTGTGGACTTAAAAGGAAAAAGATGCCAC
702076 GGAGTTGTAGACTTAAAAGGGTGCCATG
66 GGAGTTGTAGACTTAAAAGGGTGCCATG
* * * *
702104 GAGTTATGGACTTAAAAGGAACAAGAGTGCCACGAATTTGTAGG-CTTTAGAAA-GAAAAAGGTG
1 GAGTTATGGACTTAAAAAGAAAAAGA-TGCCACGAAGTTGT-GGAC-TTA-AAAGGAAAAAGATG
* *
702167 CCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACG
62 CCACGGAGTTGTAGACTTAAAA-G-----G-GTGCCATG
* * * * * * * *
702206 AAGTTGTGGGCTTAAAAGGAAAAAGGGTGCCATGGAGTCGTGGACTTAAAAGG-----G-TGCCA
1 GAGTTATGGACTTAAAAAGAAAAA-GATGCCACGAAGTTGTGGACTTAAAAGGAAAAAGATGCCA
* ** * **
702265 TGGAGTCATGGACTTAAAAGGAAAAAGATGCCACA
65 CGGAGTTGTAGACTTAAAAGG-----G-TGCCATG
* * * * * *
702300 GAGTTATGGACTTAAAAGGAAAAAGAGTGCTATGGAGTTGT-GAGTTTAAAAGGAAAAAGAGTGT
1 GAGTTATGGACTTAAAAAGAAAAAGA-TGCCACGAAGTTGTGGA-CTTAAAAGGAAAAAGA-TGC
* * *
702364 CACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACG
63 CACGGAGTTGTAGAC-TT-AAAAG-----GGTGCCATG
* *
702402 GAGTTGTGGACTTAAAAAGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGG-----G-TGCCAC
1 GAGTTATGGACTTAAAAAGAAAAAGATGCCACGAAGTTGTGGACTTAAAAGGAAAAAGATGCCAC
*
702461 GGAGTTGTAGACTTAAAAGGAACAAGAGTGCCACG
66 GGAGTTGTAGACTTAAAA-G-----G-GTGCCATG
* * * * * *
702496 GAGTTGTGGGCTTTAAAAAGAAAAAGGTACCACGGAGTTGTAGACTTAAAAGG
1 GAGTTATGGAC-TTAAAAAGAAAAAGATGCCACGAAGTTGTGGACTTAAAAGG
702549 GTGCCACATA
Statistics
Matches: 359, Mismatches: 47, Indels: 76
0.74 0.10 0.16
Matches are distributed among these distances:
89 1 0.00
92 4 0.01
93 36 0.10
94 94 0.26
95 94 0.26
96 6 0.02
99 1 0.00
100 3 0.01
101 40 0.11
102 72 0.20
103 7 0.02
108 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.31, T:0.20
Consensus pattern (93 bp):
GAGTTATGGACTTAAAAAGAAAAAGATGCCACGAAGTTGTGGACTTAAAAGGAAAAAGATGCCAC
GGAGTTGTAGACTTAAAAGGGTGCCATG
Found at i:702264 original size:27 final size:27
Alignment explanation
Indices: 702226--702285 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
702216 CTTAAAAGGA
*
702226 AAAAGGGTGCCATGGAGTCGTGGACTT
1 AAAAGGGTGCCATGGAGTCATGGACTT
702253 AAAAGGGTGCCATGGAGTCATGGACTT
1 AAAAGGGTGCCATGGAGTCATGGACTT
702280 AAAAGG
1 AAAAGG
702286 AAAAAGATGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.20
Consensus pattern (27 bp):
AAAAGGGTGCCATGGAGTCATGGACTT
Found at i:702459 original size:27 final size:28
Alignment explanation
Indices: 702388--702569 Score: 127
Period size: 27 Copynumber: 6.0 Consensus size: 28
702378 CTTTAAAAAG
702388 AAAA-AGGTGCCACGGAGTTGTGGACTT
1 AAAAGAGGTGCCACGGAGTTGTGGACTT
*
702415 AAAAAGAAAAAGATGCCACGGAGTTGTGGACTT
1 -AAAAG----AGGTGCCACGGAGTTGTGGACTT
*
702448 AAAAG-GGTGCCACGGAGTTGTAGACTT
1 AAAAGAGGTGCCACGGAGTTGTGGACTT
*
702475 AAAAGGAACAAGAGTGCCACGGAGTTGTGGGCTTT
1 AAAA-G----AG-GTGCCACGGAGTTGTGGAC-TT
* *
702510 AAAAAGAAAAAGGTACCACGGAGTTGTAGACTT
1 -AAAAG----AGGTGCCACGGAGTTGTGGACTT
**
702543 AAAAG-GGTGCCACATAGTTGTGGACTT
1 AAAAGAGGTGCCACGGAGTTGTGGACTT
702570 TGAAAAGAAA
Statistics
Matches: 127, Mismatches: 13, Indels: 29
0.75 0.08 0.17
Matches are distributed among these distances:
27 42 0.33
28 5 0.04
32 10 0.08
33 25 0.20
34 33 0.26
35 8 0.06
36 4 0.03
ACGTcount: A:0.35, C:0.14, G:0.30, T:0.21
Consensus pattern (28 bp):
AAAAGAGGTGCCACGGAGTTGTGGACTT
Found at i:702627 original size:30 final size:30
Alignment explanation
Indices: 702579--702850 Score: 258
Period size: 30 Copynumber: 8.8 Consensus size: 30
702569 TTGAAAAGAA
* ** * *
702579 AAAAGGTGCCACAAAGTCATGGACTTTGGG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAG
* *
702609 AAGAGATGCCACTGAGTCATGGACTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTG-AG
* * *
702640 AAAAAAATGCCACTGAGTCGTGGACTTGGAAA
1 -AAAAGATGCCACTGAGTCGTGGACTTTG-AG
* *
702672 AAAAGGATGCCACTGAGTCATGGACTTAGA-
1 AAAA-GATGCCACTGAGTCGTGGACTTTGAG
* *
702702 AAAGAGATGCCACTGAGTTGTGGATTTTGAAG
1 AAA-AGATGCCACTGAGTCGTGGACTTTG-AG
* * *
702734 AAAATATGCCACTAAGTCGTGGACTTTGGG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAG
* *
702764 ACAAGATGCCACTGAGTCGTAGACTTTGAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAG
*
702794 AAGAGATTGCCACTGAGTCGTGGACTTTGAAG
1 AAAAGA-TGCCACTGAGTCGTGGACTTTG-AG
* *
702826 AAAAGAATGCCATTGAGTCATGGAC
1 AAAAG-ATGCCACTGAGTCGTGGAC
702851 GTAGAAAAGA
Statistics
Matches: 200, Mismatches: 33, Indels: 16
0.80 0.13 0.06
Matches are distributed among these distances:
30 77 0.38
31 50 0.25
32 72 0.36
33 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (30 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGAG
Found at i:702655 original size:32 final size:32
Alignment explanation
Indices: 702562--702850 Score: 229
Period size: 32 Copynumber: 9.2 Consensus size: 32
702552 CCACATAGTT
* **
702562 GTGGACTTTGAAAAGAAAAAAGGTGCCACAAAGTC
1 GTGGACTTTG--AAGAAAAAA-ATGCCACTGAGTC
* * * *
702597 ATGGACTTTG--GGAAGAGATGCCACTGAGTC
1 GTGGACTTTGAAGAAAAAAATGCCACTGAGTC
*
702627 ATGGACTTTGAAGAAAAAAATGCCACTGAGTC
1 GTGGACTTTGAAGAAAAAAATGCCACTGAGTC
* *
702659 GTGGACTTGGAA-AAAAAGGATGCCACTGAGTC
1 GTGGACTTTGAAGAAAAA-AATGCCACTGAGTC
* * *
702691 ATGGAC-TT--AGAAAAGAGATGCCACTGAGTT
1 GTGGACTTTGAAGAAAA-AAATGCCACTGAGTC
* * *
702721 GTGGATTTTGAAG-AAAATATGCCACTAAGTC
1 GTGGACTTTGAAGAAAAAAATGCCACTGAGTC
* * *
702752 GTGGACTTTG--GGACAAGATGCCACTGAGTC
1 GTGGACTTTGAAGAAAAAAATGCCACTGAGTC
* * * *
702782 GTAGACTTTG-AGAAGAGATTGCCACTGAGTC
1 GTGGACTTTGAAGAAAAAAATGCCACTGAGTC
* *
702813 GTGGACTTTGAAGAAAAGAATGCCATTGAGTC
1 GTGGACTTTGAAGAAAAAAATGCCACTGAGTC
*
702845 ATGGAC
1 GTGGAC
702851 GTAGAAAAGA
Statistics
Matches: 207, Mismatches: 36, Indels: 25
0.77 0.13 0.09
Matches are distributed among these distances:
29 2 0.01
30 65 0.31
31 58 0.28
32 71 0.34
33 2 0.01
35 9 0.04
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.23
Consensus pattern (32 bp):
GTGGACTTTGAAGAAAAAAATGCCACTGAGTC
Found at i:702758 original size:61 final size:62
Alignment explanation
Indices: 702578--702850 Score: 236
Period size: 61 Copynumber: 4.4 Consensus size: 62
702568 TTTGAAAAGA
* ** * * * *
702578 AAAAAGGTGCCACAAAGTCATGGACTTTG-GGAAGAGATGCCACTGAGTCATGGACTTTGAAG
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAATATGCCACTGAGTCATGGACTTT-AAG
* * * *
702640 AAAAAAATGCCACTGAGTCGTGGACTTGGAAAAAAAGGATGCCACTGAGTCATGGAC-TT-AG
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAA-TATGCCACTGAGTCATGGACTTTAAG
* * * * *
702701 AAAAGAGATGCCACTGAGTTGTGGATTTTGAAGAAAATATGCCACTAAGTCGTGGACTTT-GG
1 AAAA-AGATGCCACTGAGTCGTGGACTTTGAAGAAAATATGCCACTGAGTCATGGACTTTAAG
* * * *
702763 GACAAGATGCCACTGAGTCGTAGACTTTG-AGAAGAGAT-TGCCACTGAGTCGTGGACTTTGAAG
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAGAA-A-ATATGCCACTGAGTCATGGACTTT-AAG
* *
702826 -AAAAGAATGCCATTGAGTCATGGAC
1 AAAAAG-ATGCCACTGAGTCGTGGAC
702851 GTAGAAAAGA
Statistics
Matches: 173, Mismatches: 29, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
60 4 0.02
61 66 0.38
62 61 0.35
63 22 0.13
64 20 0.12
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.23
Consensus pattern (62 bp):
AAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAATATGCCACTGAGTCATGGACTTTAAG
Found at i:704158 original size:11 final size:11
Alignment explanation
Indices: 704142--704194 Score: 56
Period size: 12 Copynumber: 4.8 Consensus size: 11
704132 CTTTGCACTC
704142 TTTTTTTTTG-
1 TTTTTTTTTGT
704152 -TTTTTTTTGT
1 TTTTTTTTTGT
**
704162 TTTGGTTTTGT
1 TTTTTTTTTGT
704173 TTTTGTTTTTGT
1 TTTT-TTTTTGT
704185 TTGTTTTTTT
1 TT-TTTTTTT
704195 ATTGTGTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
9 9 0.26
11 11 0.31
12 13 0.37
13 2 0.06
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (11 bp):
TTTTTTTTTGT
Found at i:704159 original size:12 final size:12
Alignment explanation
Indices: 704142--704205 Score: 51
Period size: 13 Copynumber: 5.2 Consensus size: 12
704132 CTTTGCACTC
704142 TTTTTTTTTGTTT
1 TTTTTTTTTG-TT
*
704155 TTTTTGTTTTGGT
1 TTTTT-TTTTGTT
*
704168 TTTGTTTTTG--
1 TTTTTTTTTGTT
*
704178 TTTTTGTTTGTT
1 TTTTTTTTTGTT
*
704190 TTTTTATTGTGTT
1 TTTTT-TTTTGTT
704203 TTT
1 TTT
704206 ACTTTTAACT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
10 8 0.20
12 10 0.24
13 18 0.44
14 5 0.12
ACGTcount: A:0.02, C:0.00, G:0.16, T:0.83
Consensus pattern (12 bp):
TTTTTTTTTGTT
Found at i:704199 original size:11 final size:10
Alignment explanation
Indices: 704142--704193 Score: 52
Period size: 11 Copynumber: 4.9 Consensus size: 10
704132 CTTTGCACTC
704142 TTTTTTTTTG
1 TTTTTTTTTG
704152 -TTTTTTTTG
1 TTTTTTTTTG
*
704161 TTTTGGTTTTG
1 TTTT-TTTTTG
704172 TTTTTGTTTTTG
1 -TTTT-TTTTTG
704184 TTTGTTTTTT
1 TTT-TTTTTT
704194 TATTGTGTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
9 9 0.25
10 3 0.08
11 13 0.36
12 11 0.31
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:704392 original size:13 final size:13
Alignment explanation
Indices: 704374--704401 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
704364 TCAGGGTTTC
704374 AAAACACAGCCTT
1 AAAACACAGCCTT
704387 AAAACACAGCCTT
1 AAAACACAGCCTT
704400 AA
1 AA
704402 TCAGGCCCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.29, G:0.07, T:0.14
Consensus pattern (13 bp):
AAAACACAGCCTT
Found at i:710052 original size:22 final size:22
Alignment explanation
Indices: 710024--710073 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
710014 AGGCACAAAT
710024 ATTTTAAGGATGATGGAAGGCC
1 ATTTTAAGGATGATGGAAGGCC
710046 ATTTTAAGGATGATGGAAGGCC
1 ATTTTAAGGATGATGGAAGGCC
710068 ATTTTA
1 ATTTTA
710074 GTCTAAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (22 bp):
ATTTTAAGGATGATGGAAGGCC
Found at i:711634 original size:19 final size:19
Alignment explanation
Indices: 711610--711712 Score: 128
Period size: 19 Copynumber: 5.7 Consensus size: 19
711600 TCGATACAAC
711610 GTATCGATACATGTTCATT
1 GTATCGATACATGTTCATT
711629 GTATCGATACATGTTCATT
1 GTATCGATACATGTTCATT
711648 GTATCGATACA-----A-T
1 GTATCGATACATGTTCATT
711661 GTATCGATACATGTTCATT
1 GTATCGATACATGTTCATT
* **
711680 GTATTGATACATGGACAATT
1 GTATCGATACATGTTC-ATT
711700 GTATCGATACATG
1 GTATCGATACATG
711713 AAATTGGCAG
Statistics
Matches: 73, Mismatches: 4, Indels: 13
0.81 0.04 0.14
Matches are distributed among these distances:
13 12 0.16
14 1 0.01
18 1 0.01
19 44 0.60
20 15 0.21
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (19 bp):
GTATCGATACATGTTCATT
Found at i:711636 original size:32 final size:33
Alignment explanation
Indices: 711577--711639 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 33
711567 ACACCCAGTT
*
711577 GTATCGATACATTATGCTTTGTATCGATACAAC
1 GTATCGATACATTATGCATTGTATCGATACAAC
711610 GTATCGATACATGT-T-CATTGTATCGATACA
1 GTATCGATACAT-TATGCATTGTATCGATACA
711640 TGTTCATTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.50
33 13 0.46
34 1 0.04
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (33 bp):
GTATCGATACATTATGCATTGTATCGATACAAC
Found at i:711659 original size:51 final size:51
Alignment explanation
Indices: 711575--711710 Score: 193
Period size: 51 Copynumber: 2.6 Consensus size: 51
711565 ACACACCCAG
*
711575 TTGTATCGATACAT-TATGCTTTGTATCGATACAACGTATCGATACATGTTCA
1 TTGTATCGATACATGT-T-CATTGTATCGATACAACGTATCGATACATGTTCA
*
711627 TTGTATCGATACATGTTCATTGTATCGATACAATGTATCGATACATGTTCA
1 TTGTATCGATACATGTTCATTGTATCGATACAACGTATCGATACATGTTCA
* **
711678 TTGTATTGATACATGGACAATTGTATCGATACA
1 TTGTATCGATACATGTTC-ATTGTATCGATACA
711711 TGAAATTGGC
Statistics
Matches: 77, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
51 47 0.61
52 29 0.38
53 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.38
Consensus pattern (51 bp):
TTGTATCGATACATGTTCATTGTATCGATACAACGTATCGATACATGTTCA
Found at i:711664 original size:32 final size:32
Alignment explanation
Indices: 711628--711690 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
711618 ACATGTTCAT
711628 TGTATCGATACATGTTCATTGTATCGATACAA
1 TGTATCGATACATGTTCATTGTATCGATACAA
*
711660 TGTATCGATACATGTTCATTGTATTGATACA
1 TGTATCGATACATGTTCATTGTATCGATACA
711691 TGGACAATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATGTTCATTGTATCGATACAA
Found at i:711665 original size:13 final size:13
Alignment explanation
Indices: 711647--711671 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
711637 ACATGTTCAT
711647 TGTATCGATACAA
1 TGTATCGATACAA
711660 TGTATCGATACA
1 TGTATCGATACA
711672 TGTTCATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:712652 original size:13 final size:13
Alignment explanation
Indices: 712634--712658 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
712624 AGATTGCACA
712634 GTATCGATACATT
1 GTATCGATACATT
712647 GTATCGATACAT
1 GTATCGATACAT
712659 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:712671 original size:20 final size:21
Alignment explanation
Indices: 712646--712698 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
712636 ATCGATACAT
**
712646 TGTATCGATACATGACCA-AA
1 TGTATCGATACATGAAAAGAA
*
712666 TGTATCGATACTTGAAAAGAA
1 TGTATCGATACATGAAAAGAA
712687 TGTATCGATACA
1 TGTATCGATACA
712699 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGAAAAGAA
Found at i:712768 original size:13 final size:13
Alignment explanation
Indices: 712750--712808 Score: 58
Period size: 13 Copynumber: 5.0 Consensus size: 13
712740 TACACGCATT
712750 ATGTATCGATACA
1 ATGTATCGATACA
712763 ATGTATCGATAC-
1 ATGTATCGATACA
* *
712775 A--T-CCCA-A-A
1 ATGTATCGATACA
712783 ATGTATCGATACA
1 ATGTATCGATACA
712796 ATGTATCGATACA
1 ATGTATCGATACA
712809 TCCCAAAATG
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
8 2 0.06
9 2 0.06
10 2 0.06
11 2 0.06
12 2 0.06
13 26 0.72
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.29
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:712787 original size:20 final size:20
Alignment explanation
Indices: 712762--712829 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
712752 GTATCGATAC
712762 AATGTATCGATACATCCCAA
1 AATGTATCGATACATCCCAA
712782 AATGTATCGAT--A---C--
1 AATGTATCGATACATCCCAA
712795 AATGTATCGATACATCCCAA
1 AATGTATCGATACATCCCAA
712815 AATGTATCGATACAT
1 AATGTATCGATACAT
712830 TGGCTTGTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.27
15 2 0.05
18 2 0.05
20 26 0.63
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACATCCCAA
Found at i:712792 original size:33 final size:33
Alignment explanation
Indices: 712732--712828 Score: 160
Period size: 33 Copynumber: 3.0 Consensus size: 33
712722 TAGCCAAATT
* **
712732 TGTATCGATACA-CGCATTATGTATCGATACAA
1 TGTATCGATACATCCCAAAATGTATCGATACAA
712764 TGTATCGATACATCCCAAAATGTATCGATACAA
1 TGTATCGATACATCCCAAAATGTATCGATACAA
712797 TGTATCGATACATCCCAAAATGTATCGATACA
1 TGTATCGATACATCCCAAAATGTATCGATACA
712829 TTGGCTTGTA
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 12 0.20
33 49 0.80
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (33 bp):
TGTATCGATACATCCCAAAATGTATCGATACAA
Found at i:718991 original size:13 final size:13
Alignment explanation
Indices: 718961--718999 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
718951 CAGCATTCTC
*
718961 TGTATCGATATTAT
1 TGTATCGATA-CAT
718975 TGTATCGATACAT
1 TGTATCGATACAT
718988 TGTATCGATACA
1 TGTATCGATACA
719000 AAGGGTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 14 0.58
14 10 0.42
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:719465 original size:20 final size:21
Alignment explanation
Indices: 719433--719484 Score: 70
Period size: 20 Copynumber: 2.4 Consensus size: 21
719423 CCCCTAGGCA
*
719433 GCACCCACCAGGTCGCGACC-G
1 GCACCC-CCAGGTCGCAACCGG
719454 GCACCCCCAGGTCGCAACCGG
1 GCACCCCCAGGTCGCAACCGG
719475 GCAGCCCCCA
1 GCA-CCCCCA
719485 CACTAGCACC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 12 0.43
21 10 0.36
22 6 0.21
ACGTcount: A:0.19, C:0.50, G:0.27, T:0.04
Consensus pattern (21 bp):
GCACCCCCAGGTCGCAACCGG
Found at i:720883 original size:22 final size:22
Alignment explanation
Indices: 720857--720901 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
720847 CGAAAGTGTT
720857 AAATTATTTT-ACTAAGGGGGAG
1 AAATT-TTTTGACTAAGGGGGAG
*
720879 AAATTTTTTGATTAAGGGGGAG
1 AAATTTTTTGACTAAGGGGGAG
720901 A
1 A
720902 GAAAAGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.36, C:0.02, G:0.29, T:0.33
Consensus pattern (22 bp):
AAATTTTTTGACTAAGGGGGAG
Found at i:721475 original size:13 final size:13
Alignment explanation
Indices: 721457--721481 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
721447 AGATTGCACA
721457 GTATCGATACATT
1 GTATCGATACATT
721470 GTATCGATACAT
1 GTATCGATACAT
721482 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:721494 original size:20 final size:21
Alignment explanation
Indices: 721469--721521 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
721459 ATCGATACAT
**
721469 TGTATCGATACATG-ACCAAA
1 TGTATCGATACATGAAAAAAA
*
721489 TGTATCGATACTTGAAAAAAA
1 TGTATCGATACATGAAAAAAA
721510 TGTATCGATACA
1 TGTATCGATACA
721522 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGAAAAAAA
Found at i:721591 original size:13 final size:13
Alignment explanation
Indices: 721573--721598 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
721563 TACACACATT
721573 ATGTATCGATACA
1 ATGTATCGATACA
721586 ATGTATCGATACA
1 ATGTATCGATACA
721599 TCCCAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:721615 original size:33 final size:32
Alignment explanation
Indices: 721555--721618 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
721545 TAGCCAAATT
**
721555 TGTATCGATACACACATTATGTATCGATACAA
1 TGTATCGATACACACAAAATGTATCGATACAA
*
721587 TGTATCGATACATCCCAAAATGTATCGATACA
1 TGTATCGATACA-CACAAAATGTATCGATACA
721619 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (32 bp):
TGTATCGATACACACAAAATGTATCGATACAA
Found at i:723407 original size:12 final size:12
Alignment explanation
Indices: 723390--723422 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
723380 GCATTTCCTT
723390 TTATAACATCTC
1 TTATAACATCTC
723402 TTATAACATCTC
1 TTATAACATCTC
723414 TTATAACAT
1 TTATAACAT
723423 AACATAACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.42
Consensus pattern (12 bp):
TTATAACATCTC
Found at i:724627 original size:13 final size:13
Alignment explanation
Indices: 724609--724646 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
724599 ACACACAGTA
*
724609 TGTATCGATATAT
1 TGTATCGATACAT
724622 TGTATCGATACAT
1 TGTATCGATACAT
724635 TGTATCGATACA
1 TGTATCGATACA
724647 CCATAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:725494 original size:13 final size:13
Alignment explanation
Indices: 725476--725500 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
725466 CATAAAGTGT
725476 TGTATCGATACAA
1 TGTATCGATACAA
725489 TGTATCGATACA
1 TGTATCGATACA
725501 TATTTTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:736894 original size:33 final size:32
Alignment explanation
Indices: 736833--736900 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 32
736823 GTAGCCAAAC
** *
736833 TTGTATCGATACACACAGTATGTATCGATGCA
1 TTGTATCGATACACACACAATGTATCGATACA
*
736865 TTGTATCGATACACCATACAATGTATCGATACA
1 TTGTATCGATACA-CACACAATGTATCGATACA
736898 TTG
1 TTG
736901 GCTTGTAACG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 13 0.42
33 18 0.58
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACACACACAATGTATCGATACA
Found at i:741229 original size:13 final size:13
Alignment explanation
Indices: 741211--741237 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
741201 ACAAAGATCA
741211 AATGTATCGATAC
1 AATGTATCGATAC
741224 AATGTATCGATAC
1 AATGTATCGATAC
741237 A
1 A
741238 TTGAGTAATG
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:741315 original size:19 final size:18
Alignment explanation
Indices: 741291--741351 Score: 60
Period size: 19 Copynumber: 3.6 Consensus size: 18
741281 CGATACATTA
741291 TATCGATACAAAACTTATG
1 TATCGATAC-AAACTTATG
741310 TATCGATAC--A--T-TG
1 TATCGATACAAACTTATG
741323 TATCGATACAACACTTATG
1 TATCGATACAA-ACTTATG
*
741342 CATCGATACA
1 TATCGATACA
741352 TTGTATCGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.31
14 1 0.03
16 2 0.06
18 1 0.03
19 20 0.57
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (18 bp):
TATCGATACAAACTTATG
Found at i:741327 original size:32 final size:32
Alignment explanation
Indices: 741281--741366 Score: 145
Period size: 32 Copynumber: 2.7 Consensus size: 32
741271 AGCTTCGTAG
* *
741281 CGATACATTATATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGCAT
*
741313 CGATACATTGTATCGATACAACACTTATGCAT
1 CGATACATTGTATCGATACAAAACTTATGCAT
741345 CGATACATTGTATCGATACAAA
1 CGATACATTGTATCGATACAAA
741367 TTGTTGAAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGCAT
Found at i:742030 original size:55 final size:52
Alignment explanation
Indices: 741969--742360 Score: 171
Period size: 49 Copynumber: 7.6 Consensus size: 52
741959 ACCAATACGT
* *
741969 TGATTCACGACCAACGATATTGGGTTTAAAGATGAGAAAAAAGATGTCAATGTGC
1 TGATTCACGGCCAACGATATTGGGTTTAAAGATGAG--AAAA-ATGCCAATGTGC
* * * ** * *
742024 TGATTCACGGTCAGCGATATTTAGACTTGAAGATGAGAAGAATGCCAATGTGC
1 TGATTCACGGCCAACGATA-TTGGGTTTAAAGATGAGAAAAATGCCAATGTGC
* * ** *
742077 TGATTCAAGGCCAACGACATTGGGTTTTAAAGATGACGAAGGCA--CCAATATGC
1 TGATTCACGGCCAACGATATTGGG-TTTAAAGATGA-GAA-AAATGCCAATGTGC
* ** * ** *
742130 TGATTCAAGGCCAGTGATACT-GGTCTTAAAGAT--G-AAGGTGCCAATATGC
1 TGATTCACGGCCAACGATATTGGGT-TTAAAGATGAGAAAAATGCCAATGTGC
* * ** **
742179 TGATTCAAGGCCAGCGATATTGGACTTAAAGAT--G-AAGGTGCCAATGTGC
1 TGATTCACGGCCAACGATATTGGGTTTAAAGATGAGAAAAATGCCAATGTGC
* * * * ** * **** *
742228 TGATTCAAGGCCAGCGACATTCGACTTAAAGATGACAAAGGCACCAATATGC
1 TGATTCACGGCCAACGATATTGGGTTTAAAGATGAGAAAAATGCCAATGTGC
* * ** **
742280 TGATTCAAGGCCAGCGATATTGGACTTAAAGAT--G-AAGGTGCCAATGTGC
1 TGATTCACGGCCAACGATATTGGGTTTAAAGATGAGAAAAATGCCAATGTGC
* * * *
742329 TAATTCAAGGCCAGCGACATT-GGTCTTAAAGA
1 TGATTCACGGCCAACGATATTGGGT-TTAAAGA
742361 CAAAATATGC
Statistics
Matches: 278, Mismatches: 47, Indels: 30
0.78 0.13 0.08
Matches are distributed among these distances:
48 2 0.01
49 121 0.44
50 1 0.00
51 1 0.00
52 56 0.20
53 60 0.22
54 6 0.02
55 18 0.06
56 13 0.05
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.24
Consensus pattern (52 bp):
TGATTCACGGCCAACGATATTGGGTTTAAAGATGAGAAAAATGCCAATGTGC
Found at i:742180 original size:49 final size:49
Alignment explanation
Indices: 742016--742494 Score: 437
Period size: 49 Copynumber: 9.8 Consensus size: 49
742006 AAAAAGATGT
* * * * * *
742016 CAATGTGCTGATTCACGGTCAGCGATATTTAGACTTGAAGATGAGAAGAATGC
1 CAATATGCTGATTCAAGGCCAGCGATA-TTGGACTTAAAGAT--GAAG-GTGC
* * * ** **
742069 CAATGTGCTGATTCAAGGCCAACGACATTGGGTTTTAAAGATGACGAAGGCAC
1 CAATATGCTGATTCAAGGCCAGCGATATT-GGACTTAAAGAT---GAAGGTGC
* * *
742122 CAATATGCTGATTCAAGGCCAGTGATACTGGTCTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
742171 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * * **
742220 CAATGTGCTGATTCAAGGCCAGCGACATTCGACTTAAAGATGACAAAGGCAC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG---AAGGTGC
742272 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * * * *
742321 CAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAA-----
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
742364 -AATATGCTGATTCAAGGCCAGCGATATTGGAC-T----A--AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
*** * * *
742405 CAATGCACTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG---AAGGTGC
*
742457 CAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
742495 AGAAGACGCC
Statistics
Matches: 351, Mismatches: 54, Indels: 43
0.78 0.12 0.10
Matches are distributed among these distances:
36 2 0.01
37 1 0.00
41 1 0.00
42 55 0.16
43 1 0.00
47 1 0.00
48 2 0.01
49 132 0.38
52 96 0.27
53 56 0.16
54 4 0.01
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.24
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
Found at i:742298 original size:101 final size:100
Alignment explanation
Indices: 742068--742494 Score: 494
Period size: 101 Copynumber: 4.4 Consensus size: 100
742058 GAGAAGAATG
* * * ** ** *
742068 CCAATGTGCTGATTCAAGGCCAACGACATTGGGTTTTAAAGATGACGAAGGCACCAATATGCTGA
1 CCAATATGCTGATTCAAGGCCAGCGATATT-GGACTTAAAGAT---GAAGGTGCCAATGTGCTGA
* * * **
742133 TTCAAGGCCAGTGATACTGGTCTTAAAGATG--AAGGTG
62 TTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAGGCA
742170 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCA
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCA
* *
742235 AGGCCAGCGACATTCGACTTAAAGATGACAAAGGCA
66 AGGCCAGCGACATTGGTCTTAAAGATGAC-AAGGCA
*
742271 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTAATTCA
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCA
742336 AGGCCAGCGACATTGGTCTT-AA-A-GAC-A---A
66 AGGCCAGCGACATTGGTCTTAAAGATGACAAGGCA
**
742364 --AATATGCTGATTCAAGGCCAGCGATATTGGAC-T----A--AAGGTGCCAATGCACTGATTCA
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCA
*
742420 AGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCG
66 AGGCCAGCGACATTGGTCTTAAAGATGAC-AAGGCA
*
742456 CCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAA
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
742495 AGAAGACGCC
Statistics
Matches: 285, Mismatches: 23, Indels: 38
0.82 0.07 0.11
Matches are distributed among these distances:
84 39 0.14
85 2 0.01
86 2 0.01
87 3 0.01
89 1 0.00
90 1 0.00
91 32 0.11
93 1 0.00
94 31 0.11
95 1 0.00
96 1 0.00
98 45 0.16
99 1 0.00
100 2 0.01
101 96 0.34
102 27 0.09
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (100 bp):
CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCA
AGGCCAGCGACATTGGTCTTAAAGATGACAAGGCA
Found at i:742308 original size:150 final size:149
Alignment explanation
Indices: 742016--742494 Score: 522
Period size: 150 Copynumber: 3.3 Consensus size: 149
742006 AAAAAGATGT
* * * * *
742016 CAATGTGCTGATTCACGGTCAGCGATATTTAGACTTGAAGATGAGAAGAATGCCAATGTGCTGAT
1 CAATATGCTGATTCAAGGCCAGCGATA-TTGGACTTAAAGAT--GAAG--TGCCAATGTGCTGAT
* ** * *
742081 TCAAGGCCAACGACATTGGGTTTTAAAGATGACGAAGGCACCAATATGCTGATTCAAGGCCAGTG
61 TCAAGGCCAGCGACATT-GGACTTAAAGATGACAAAGGCACCAATATGCTGATTCAAGGCCAGCG
*
742146 ATACTGGTCTTAAAGATGAAGGTGC
125 ATATTGGTCTTAAAGATGAAGGTGC
742171 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAA-GTGCCAATGTGCTGATTCAA
*
742236 GGCCAGCGACATTCGACTTAAAGATGACAAAGGCACCAATATGCTGATTCAAGGCCAGCGATATT
65 GGCCAGCGACATTGGACTTAAAGATGACAAAGGCACCAATATGCTGATTCAAGGCCAGCGATATT
*
742301 GGACTTAAAGATGAAGGTGC
130 GGTCTTAAAGATGAAGGTGC
* * * * * *
742321 CAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAA-----AATATGCTGATTCAAG
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGTGCCAATGTGCTGATTCAAG
* * * * *
742380 GCCAGCGATATTGGAC-TAAAGGTG-CCAATG---C---A--CTGATTCAAGGCCAGCGACATTG
66 GCCAGCGACATTGGACTTAAAGATGACAAAGGCACCAATATGCTGATTCAAGGCCAGCGATATTG
*
742435 GTCTTAAAGATGACAAAGGCGC
131 GTCTTAAAGATG---AAGGTGC
*
742457 CAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
742495 AGAAGACGCC
Statistics
Matches: 289, Mismatches: 31, Indels: 27
0.83 0.09 0.08
Matches are distributed among these distances:
133 33 0.11
135 1 0.00
136 40 0.14
138 1 0.00
141 4 0.01
142 7 0.02
143 29 0.10
149 2 0.01
150 101 0.35
151 31 0.11
152 3 0.01
153 1 0.00
154 12 0.04
155 24 0.08
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.24
Consensus pattern (149 bp):
CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGTGCCAATGTGCTGATTCAAG
GCCAGCGACATTGGACTTAAAGATGACAAAGGCACCAATATGCTGATTCAAGGCCAGCGATATTG
GTCTTAAAGATGAAGGTGC
Found at i:742393 original size:42 final size:43
Alignment explanation
Indices: 742273--742494 Score: 137
Period size: 42 Copynumber: 4.9 Consensus size: 43
742263 CAAAGGCACC
* * *
742273 AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGA-AGGTGCC
1 AATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAG--GACA-----A
* *
742322 AATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAA-GACAA
1 AATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGGACAA
* * * *
742364 AATATGCTGATTCAAGGCCAGCGATATTGGAC-TAAAGGTGC-C
1 AATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGG-ACAA
***
742406 AATGCACTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAA
1 AATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAG--GAC-AA
* *
742452 GGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAA
1 ------AATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAA
742495 AGAAGACGCC
Statistics
Matches: 136, Mismatches: 23, Indels: 25
0.74 0.12 0.14
Matches are distributed among these distances:
41 4 0.03
42 56 0.41
43 6 0.04
44 1 0.01
45 1 0.01
46 2 0.01
47 1 0.01
49 33 0.24
52 32 0.24
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (43 bp):
AATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGGACAA
Found at i:742571 original size:28 final size:29
Alignment explanation
Indices: 742539--742605 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 29
742529 GGGTTGTACC
* *
742539 AACTTGTGTGCTTTT-AAAGATTGCCACT
1 AACTTGTGGGCTTTTAAAAGAGTGCCACT
* * *
742567 AACTTATGGGTTTTTGAAAAGGGTGCCACT
1 AACTTGTGGGCTTTT-AAAAGAGTGCCACT
742597 AACTTGTGG
1 AACTTGTGG
742606 ACTTAACAGG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
28 12 0.39
30 19 0.61
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (29 bp):
AACTTGTGGGCTTTTAAAAGAGTGCCACT
Found at i:742757 original size:35 final size:35
Alignment explanation
Indices: 742600--743125 Score: 625
Period size: 35 Copynumber: 15.4 Consensus size: 35
742590 TGCCACTAAC
*
742600 TTGTGGACTT-AACAGGAGA-AA-GATGCCACGGAG
1 TTGTGGACTTAAAAAGGA-ACAAGGATGCCACGGAG
* *
742633 TTGTGGACTT-AAAAGGAACAAGGGTGCCATGGAG
1 TTGTGGACTTAAAAAGGAACAAGGATGCCACGGAG
* *
742667 TTGTGGACTT-AAAAGGAACAAGGATGCTATGGAG
1 TTGTGGACTTAAAAAGGAACAAGGATGCCACGGAG
*
742701 TTGTGGACTT-AAAAGGAACAAGAATGCCACGGAG
1 TTGTGGACTTAAAAAGGAACAAGGATGCCACGGAG
*
742735 TTGTGGACTTAAAAAGGAACAAGGATGCCACAGAG
1 TTGTGGACTTAAAAAGGAACAAGGATGCCACGGAG
* *
742770 TTGTAGACTTAAAAAGGAACAAGGATGCCACGAAG
1 TTGTGGACTTAAAAAGGAACAAGGATGCCACGGAG
* *
742805 TTGTGGACTTAAAAAGGAACAAGGATGCCTCAGAG
1 TTGTGGACTTAAAAAGGAACAAGGATGCCACGGAG
*
742840 TTGTGGACTTAAAAAGGAACCAGGATGCCACGGAG
1 TTGTGGACTTAAAAAGGAACAAGGATGCCACGGAG
742875 TTGTGGACTTAAAAAGGAACAAGGATGCCACGGAG
1 TTGTGGACTTAAAAAGGAACAAGGATGCCACGGAG
* * *
742910 GTGTGGGCTT-AAAAGGAACCAGG-TGCCACGGAGG
1 TTGTGGACTTAAAAAGGAACAAGGATGCCACGGA-G
* * * *
742944 TT-TGGGCTTAAAAGGGAAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAAGGAACAAGGATGCCACGGAG
**
742978 TCATGGACTT-AAAAGGAA-AAGG-TGCCACGGAG
1 TTGTGGACTTAAAAAGGAACAAGGATGCCACGGAG
* ** *
743010 TTGTGGACTTTAAAAGGAA-AAAAATGCCACAGAG
1 TTGTGGACTTAAAAAGGAACAAGGATGCCACGGAG
*
743044 TTGTGGACTT-AAAAGAAACAAGG-TGCCACGGAG
1 TTGTGGACTTAAAAAGGAACAAGGATGCCACGGAG
* * * * *
743077 GTGTGGGCTTAAAAAAGAA-AAAGAGTGCCACAGAG
1 TTGTGGACTTAAAAAGGAACAAGGA-TGCCACGGAG
*
743112 TTATGGACTTAAAA
1 TTGTGGACTTAAAA
743126 GGGTGCCACG
Statistics
Matches: 431, Mismatches: 49, Indels: 24
0.86 0.10 0.05
Matches are distributed among these distances:
32 19 0.04
33 75 0.17
34 143 0.33
35 194 0.45
ACGTcount: A:0.37, C:0.14, G:0.31, T:0.18
Consensus pattern (35 bp):
TTGTGGACTTAAAAAGGAACAAGGATGCCACGGAG
Found at i:743161 original size:29 final size:29
Alignment explanation
Indices: 743128--743212 Score: 143
Period size: 29 Copynumber: 2.9 Consensus size: 29
743118 ACTTAAAAGG
743128 GTGCCACGGAGTTGTGGGCTTTAAAAAAT
1 GTGCCACGGAGTTGTGGGCTTTAAAAAAT
743157 GTGCCACGGAGTTGTGGGCTTTAAAAAAT
1 GTGCCACGGAGTTGTGGGCTTTAAAAAAT
* * *
743186 GTGCCACGGAGTCGTGGACTTTGAAAA
1 GTGCCACGGAGTTGTGGGCTTTAAAAA
743213 GAAAAAAGTG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (29 bp):
GTGCCACGGAGTTGTGGGCTTTAAAAAAT
Found at i:743224 original size:34 final size:33
Alignment explanation
Indices: 743150--743279 Score: 137
Period size: 34 Copynumber: 4.0 Consensus size: 33
743140 TGTGGGCTTT
* *
743150 AAAAAATGTGCCACGGAGTTGTGGGCTTT---A-
1 AAAAAA-GTGCCACGGAGTCGTGGACTTTGAAAG
*
743180 AAAAATGTGCCACGGAGTCGTGGACTTTGAAAAG
1 AAAAAAGTGCCACGGAGTCGTGGACTTTG-AAAG
*
743214 AAAAAAGTGCCATGGAGTCGTGGACTTTG-AAG
1 AAAAAAGTGCCACGGAGTCGTGGACTTTGAAAG
* *
743246 AAAAGA-TGCCACTGAGTCGTGGACTTTGGAAAG
1 AAAAAAGTGCCACGGAGTCGTGGACTTT-GAAAG
743279 A
1 A
743280 GATGCCACTG
Statistics
Matches: 85, Mismatches: 8, Indels: 11
0.82 0.08 0.11
Matches are distributed among these distances:
29 20 0.24
30 5 0.06
31 19 0.22
32 9 0.11
33 5 0.06
34 27 0.32
ACGTcount: A:0.34, C:0.14, G:0.30, T:0.22
Consensus pattern (33 bp):
AAAAAAGTGCCACGGAGTCGTGGACTTTGAAAG
Found at i:743263 original size:65 final size:65
Alignment explanation
Indices: 742993--743331 Score: 196
Period size: 65 Copynumber: 5.4 Consensus size: 65
742983 GACTTAAAAG
* * * * ** **
742993 GAAAAGGTGCCACGGAGTTGTGGACTTT-AAAAGGAAAAAAATGCCACAGAGTTGTGGACTTAAA
1 GAAAAGATGCCACTGAGTCGTGGACTTTGAAAA-GAAAAAAGTGCCATGGAGTTGTGGACTTTGA
743057 A
65 A
* * * ** ** *
743058 GAAACAAGGTGCCACGGAGGT-GTGGGCTTAAAAAAGAAAAAGAGTGCCACAGAGTTATGGAC-T
1 G-AA-AAGATGCCACTGA-GTCGTGGACTTTGAAAAGAAAAA-AGTGCCATGGAGTTGTGGACTT
743121 T--A
62 TGAA
* * * * * * * *
743123 -AAAGGGTGCCACGGAGTTGTGGGCTTT----A-AAAAATGTGCCACGGAGTTGTGGGCTTT-AA
1 GAAAAGATGCCACTGAGTCGTGGACTTTGAAAAGAAAAAAGTGCCATGGAGTTGTGGACTTTGAA
* *
743181 -AAAATG-TGCCACGGAGTCGTGGACTTTGAAAAGAAAAAAGTGCCATGGAGTCGTGGACTTTGA
1 GAAAA-GATGCCACTGAGTCGTGGACTTTGAAAAGAAAAAAGTGCCATGGAGTTGTGGACTTTGA
743244 A
65 A
* * *
743245 GAAAAGATGCCACTGAGTCGTGGACTTTGGAAAG---AGA-TGCCACT-GAATTGTGGACTTTG-
1 GAAAAGATGCCACTGAGTCGTGGACTTTGAAAAGAAAAAAGTGCCA-TGGAGTTGTGGACTTTGA
743304 A
65 A
* *
743305 GACAAGATGCCACTAAGTCGTGGACTT
1 GAAAAGATGCCACTGAGTCGTGGACTT
743332 AAAAAAGAGA
Statistics
Matches: 231, Mismatches: 25, Indels: 41
0.78 0.08 0.14
Matches are distributed among these distances:
56 16 0.07
57 7 0.03
58 24 0.10
59 1 0.00
60 26 0.11
61 20 0.09
62 24 0.10
63 26 0.11
64 3 0.01
65 31 0.13
66 2 0.01
67 27 0.12
68 24 0.10
ACGTcount: A:0.34, C:0.14, G:0.30, T:0.22
Consensus pattern (65 bp):
GAAAAGATGCCACTGAGTCGTGGACTTTGAAAAGAAAAAAGTGCCATGGAGTTGTGGACTTTGAA
Found at i:743285 original size:30 final size:30
Alignment explanation
Indices: 743187--743331 Score: 159
Period size: 30 Copynumber: 4.7 Consensus size: 30
743177 TTAAAAAATG
* *
743187 TGCCACGGAGTCGTGGACTTTGAAAAGAAAAAA
1 TGCCACTGAGTCGTGGACTTTG---AGAAAAGA
743220 GTGCCA-TGGAGTCGTGGACTTTGAAGAAAAGA
1 -TGCCACT-GAGTCGTGGACTTTG-AGAAAAGA
743252 TGCCACTGAGTCGTGGACTTTG-GAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAA-AGA
* * *
743282 TGCCACTGAATTGTGGACTTTGAGACAAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAAGA
*
743312 TGCCACTAAGTCGTGGACTT
1 TGCCACTGAGTCGTGGACTT
743332 AAAAAAGAGA
Statistics
Matches: 99, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
29 4 0.04
30 43 0.43
31 23 0.23
32 9 0.09
34 20 0.20
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (30 bp):
TGCCACTGAGTCGTGGACTTTGAGAAAAGA
Found at i:744365 original size:21 final size:21
Alignment explanation
Indices: 744340--744379 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
744330 CTCACAAAGA
744340 TTTTCTAT-TTTGTTTTTTTCT
1 TTTTCTATCTTT-TTTTTTTCT
*
744361 TTTTCTCTCTTTTTTTTTT
1 TTTTCTATCTTTTTTTTTT
744380 GTTTGGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.03, C:0.12, G:0.03, T:0.82
Consensus pattern (21 bp):
TTTTCTATCTTTTTTTTTTCT
Found at i:745049 original size:22 final size:21
Alignment explanation
Indices: 745007--745056 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
744997 ATCAAATCTT
* * *
745007 CTTCAAATTTCTTATTTTTCA
1 CTTCAAAATACTTATTCTTCA
745028 CTTCAAAATACTTCATTCTTCA
1 CTTCAAAATACTT-ATTCTTCA
745050 --TCAAAAT
1 CTTCAAAAT
745057 CATCAACAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 7 0.28
21 11 0.44
22 7 0.28
ACGTcount: A:0.32, C:0.22, G:0.00, T:0.46
Consensus pattern (21 bp):
CTTCAAAATACTTATTCTTCA
Found at i:747498 original size:13 final size:13
Alignment explanation
Indices: 747477--747506 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
747467 CAATACATGG
*
747477 TACATTGTATCGA
1 TACAATGTATCGA
747490 TACAATGTATCGA
1 TACAATGTATCGA
747503 TACA
1 TACA
747507 TGATGAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
TACAATGTATCGA
Found at i:747506 original size:33 final size:33
Alignment explanation
Indices: 747462--747526 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
747452 TACCACTGTT
*
747462 TGTATCAATACATGGT-ACATTGTATCGATACAA
1 TGTATCAATACATGATGA-ATTGTATCGATACAA
*
747495 TGTATCGATACATGATGAATTGTATCGATACA
1 TGTATCAATACATGATGAATTGTATCGATACA
747527 TTGCTTCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (33 bp):
TGTATCAATACATGATGAATTGTATCGATACAA
Found at i:753708 original size:2 final size:2
Alignment explanation
Indices: 753701--753729 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
753691 CAAAATCTGG
753701 TC 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 TC T
753730 ACTACACACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:754908 original size:2 final size:2
Alignment explanation
Indices: 754897--754935 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
754887 AGGTTTATGC
*
754897 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
754936 TAGTATTTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:763722 original size:90 final size:90
Alignment explanation
Indices: 763569--763742 Score: 251
Period size: 90 Copynumber: 1.9 Consensus size: 90
763559 TGGTAGGTCA
* * * * * *
763569 TGCTCAAAATTATGAGGTTTAGATTGCGGTATAGACATGAAATTTGGTTTAAGATTTGTTACCTC
1 TGCTCAAAATTATGAGGCTCAGATTGCAGCATAGACATGAAATTTGGTTCAAGAGTTGTTACCTC
763634 A-TTTCCAGGACTCGGTTCAATGGAT
66 ACTTT-CAGGACTCGGTTCAATGGAT
* * *
763659 TGCTCAGAATTATGAGGCTCAGATTGTAGCATAGACATGGAATTTGGTTCAAGAGTTGTTACCTC
1 TGCTCAAAATTATGAGGCTCAGATTGCAGCATAGACATGAAATTTGGTTCAAGAGTTGTTACCTC
763724 ACTTTCAGGACTCGGTTCA
66 ACTTTCAGGACTCGGTTCA
763743 GTGGTTTGTT
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
90 71 0.96
91 3 0.04
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (90 bp):
TGCTCAAAATTATGAGGCTCAGATTGCAGCATAGACATGAAATTTGGTTCAAGAGTTGTTACCTC
ACTTTCAGGACTCGGTTCAATGGAT
Found at i:766110 original size:24 final size:24
Alignment explanation
Indices: 766049--766111 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 24
766039 CATGAAAAAT
*
766049 AAAT-GGAAAAATCAAAGAAGAGAG
1 AAATAGGAAAAAT-AAAGAAGAGAA
766073 AAATA--AATAAATAAA-AAGAGATA
1 AAATAGGAA-AAATAAAGAAGAGA-A
766096 AAATAGGAAAAATAAA
1 AAATAGGAAAAATAAA
766112 CAAAAAAACG
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
22 6 0.18
23 10 0.30
24 15 0.45
25 2 0.06
ACGTcount: A:0.70, C:0.02, G:0.16, T:0.13
Consensus pattern (24 bp):
AAATAGGAAAAATAAAGAAGAGAA
Found at i:767851 original size:14 final size:14
Alignment explanation
Indices: 767832--767870 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
767822 GTAGCATCAA
767832 TTTTTTTTTT--CT
1 TTTTTTTTTTCCCT
767844 TTTTTTTTTTCCCT
1 TTTTTTTTTTCCCT
*
767858 TTTTTTTCTTCCC
1 TTTTTTTTTTCCC
767871 GGGAATTGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 10 0.42
14 14 0.58
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTTTTTTTCCCT
Found at i:768487 original size:22 final size:22
Alignment explanation
Indices: 768443--768491 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
768433 TGAATGTTGA
* *
768443 GAGAGAAAGAAGATGAGGGGAG
1 GAGAGAAAGAAGATGACGAGAG
768465 GAGAGATAAGAAGAT-ACGAGAG
1 GAGAGA-AAGAAGATGACGAGAG
768487 GAGAG
1 GAGAG
768492 GGGGGGGGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 16 0.67
23 8 0.33
ACGTcount: A:0.47, C:0.02, G:0.45, T:0.06
Consensus pattern (22 bp):
GAGAGAAAGAAGATGACGAGAG
Found at i:770820 original size:17 final size:16
Alignment explanation
Indices: 770779--770820 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
770769 TGAAAGGGAC
*
770779 AAGAATTAAAAAAAGA
1 AAGAATGAAAAAAAGA
*
770795 AA-AAGGAAAAAAAGA
1 AAGAATGAAAAAAAGA
770810 GAAGAATGAAA
1 -AAGAATGAAA
770821 GGAGAGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
15 11 0.52
16 4 0.19
17 6 0.29
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.07
Consensus pattern (16 bp):
AAGAATGAAAAAAAGA
Found at i:776634 original size:20 final size:20
Alignment explanation
Indices: 776605--776656 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
776595 GCTAACTAGA
776605 TGTATCGATACATTGTACA-T
1 TGTATCGATACATT-TACACT
* *
776625 TGTGTCGATACATTTTCACT
1 TGTATCGATACATTTACACT
776645 TGTATCGATACA
1 TGTATCGATACA
776657 AATGAGGATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 3 0.11
20 25 0.89
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.40
Consensus pattern (20 bp):
TGTATCGATACATTTACACT
Found at i:777155 original size:13 final size:13
Alignment explanation
Indices: 777137--777163 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
777127 ACATTATGCT
777137 TTGTATCGATACA
1 TTGTATCGATACA
777150 TTGTATCGATACA
1 TTGTATCGATACA
777163 T
1 T
777164 GTTCATTGTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:777160 original size:33 final size:32
Alignment explanation
Indices: 777118--777179 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
777108 CACACCCAGA
*
777118 TGTATCGATACAT-TATGCTTTGTATCGATACAT
1 TGTATCGATACATGT-T-CATTGTATCGATACAT
777151 TGTATCGATACATGTTCATTGTATCGATA
1 TGTATCGATACATGTTCATTGTATCGATA
777180 TATGGACAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 12 0.44
33 14 0.52
34 1 0.04
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (32 bp):
TGTATCGATACATGTTCATTGTATCGATACAT
Found at i:777193 original size:20 final size:19
Alignment explanation
Indices: 777147--777203 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
777137 TTGTATCGAT
*
777147 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
* *
777166 TCATTGTATCGATATATGG
1 ACATTGTATCGATACATGG
777185 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
777204 AAACTGACAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.37
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:777266 original size:13 final size:13
Alignment explanation
Indices: 777248--777278 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
777238 CAATACATGG
*
777248 TACATTGTATCGA
1 TACATTGTATCAA
777261 TACATTGTATCAA
1 TACATTGTATCAA
777274 TACAT
1 TACAT
777279 CATGAATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (13 bp):
TACATTGTATCAA
Found at i:777274 original size:33 final size:33
Alignment explanation
Indices: 777232--777300 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
777222 CTACCACTGT
**
777232 TTGTATCAATACATGGT-ACATTGTATCGATACA
1 TTGTATCAATACATCATGA-ATTGTATCGATACA
777265 TTGTATCAATACATCATGAATTGTATCGATACA
1 TTGTATCAATACATCATGAATTGTATCGATACA
777298 TTG
1 TTG
777301 CTTCTAACGG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.38
Consensus pattern (33 bp):
TTGTATCAATACATCATGAATTGTATCGATACA
Found at i:781403 original size:20 final size:21
Alignment explanation
Indices: 781356--781408 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
781346 ACCAATGACC
**
781356 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
*
781377 AGTATCGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
781397 TGTATCGATACA
1 TGTATCGATACA
781409 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:781426 original size:13 final size:13
Alignment explanation
Indices: 781396--781420 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
781386 ACATTTGGTC
781396 ATGTATCGATACA
1 ATGTATCGATACA
781409 ATGTATCGATAC
1 ATGTATCGATAC
781421 TGTGTAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:781435 original size:20 final size:21
Alignment explanation
Indices: 781410--781461 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
781400 ATCGATACAA
* *
781410 TGTATCGATACTGTGT-AATT
1 TGTATCGATACTATGTAAATG
*
781430 TGTATCGATA-TATTTAAATG
1 TGTATCGATACTATGTAAATG
781450 TGTATCGATACT
1 TGTATCGATACT
781462 TTTCAGGGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 3 0.11
20 23 0.85
21 1 0.04
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (21 bp):
TGTATCGATACTATGTAAATG
Found at i:788751 original size:13 final size:13
Alignment explanation
Indices: 788733--788758 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
788723 ACATTTTGGG
788733 ATGTATCGATACA
1 ATGTATCGATACA
788746 ATGTATCGATACA
1 ATGTATCGATACA
788759 TAATGTGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:788753 original size:33 final size:32
Alignment explanation
Indices: 788711--788778 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
788701 CGTTACAAGC
**
788711 CAATGTATCGATACATTTTGGGATGTATCGATA
1 CAATGTATCGATACATAATGGG-TGTATCGATA
*
788744 CAATGTATCGATACATAATGTGTGTATCGATA
1 CAATGTATCGATACATAATGGGTGTATCGATA
788776 CAA
1 CAA
788779 ATTTGGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (32 bp):
CAATGTATCGATACATAATGGGTGTATCGATA
Found at i:788869 original size:13 final size:13
Alignment explanation
Indices: 788851--788875 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
788841 ACATTTGGTC
788851 ATGTATCGATACA
1 ATGTATCGATACA
788864 ATGTATCGATAC
1 ATGTATCGATAC
788876 TGTGCAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:792061 original size:13 final size:13
Alignment explanation
Indices: 792043--792067 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
792033 ATTTTTCAGA
792043 ATGTATCGATACT
1 ATGTATCGATACT
792056 ATGTATCGATAC
1 ATGTATCGATAC
792068 ATCTGGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
ATGTATCGATACT
Found at i:792125 original size:13 final size:13
Alignment explanation
Indices: 792107--792146 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
792097 ACAATATTCC
*
792107 TTGTATCGATACG
1 TTGTATCGATACA
792120 TTGTATCGATACA
1 TTGTATCGATACA
792133 TTGTATCGATACA
1 TTGTATCGATACA
792146 T
1 T
792147 GGGTTACTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:794625 original size:13 final size:13
Alignment explanation
Indices: 794607--794681 Score: 95
Period size: 13 Copynumber: 6.1 Consensus size: 13
794597 ATATTATGCT
794607 TTGTATCGATACA
1 TTGTATCGATACA
794620 TTGTATCGATACA
1 TTGTATCGATACA
* *
794633 --ATATCAATACA
1 TTGTATCGATACA
794644 TTGTATCGATACA
1 TTGTATCGATACA
*
794657 --ATATCGATACA
1 TTGTATCGATACA
794668 TTGTATCGATACA
1 TTGTATCGATACA
794681 T
1 T
794682 GGACAATTGT
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
11 19 0.37
13 33 0.63
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:794642 original size:11 final size:11
Alignment explanation
Indices: 794623--794667 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
794613 CGATACATTG
794623 TATCGATACAA
1 TATCGATACAA
* *
794634 TATCAATACATTG
1 TATCGATACA--A
794647 TATCGATACAA
1 TATCGATACAA
794658 TATCGATACA
1 TATCGATACA
794668 TTGTATCGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
11 19 0.68
13 9 0.32
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (11 bp):
TATCGATACAA
Found at i:794642 original size:24 final size:24
Alignment explanation
Indices: 794610--794680 Score: 133
Period size: 24 Copynumber: 3.0 Consensus size: 24
794600 TTATGCTTTG
794610 TATCGATACATTGTATCGATACAA
1 TATCGATACATTGTATCGATACAA
*
794634 TATCAATACATTGTATCGATACAA
1 TATCGATACATTGTATCGATACAA
794658 TATCGATACATTGTATCGATACA
1 TATCGATACATTGTATCGATACA
794681 TGGACAATTG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (24 bp):
TATCGATACATTGTATCGATACAA
Found at i:796077 original size:6 final size:6
Alignment explanation
Indices: 796066--796090 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
796056 AATTATTAAA
796066 TAAAAT TAAAAT TAAAAT TAAAAT T
1 TAAAAT TAAAAT TAAAAT TAAAAT T
796091 TTAATTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
TAAAAT
Found at i:796797 original size:42 final size:42
Alignment explanation
Indices: 796721--796838 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
796711 TAGCCCTCAA
* *
796721 AGAGAAAGAAGAGAGAGGA-GGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
796762 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
796804 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
796839 GAGAGAAGAA
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
41 16 0.23
42 54 0.77
ACGTcount: A:0.43, C:0.03, G:0.46, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:806294 original size:9 final size:9
Alignment explanation
Indices: 806282--806330 Score: 53
Period size: 9 Copynumber: 5.1 Consensus size: 9
806272 CTCTCTCTAT
806282 TATCTCTCC
1 TATCTCTCC
806291 TATCTCTCCTCC
1 TA--TCT-CTCC
*
806303 TATCTCTAC
1 TATCTCTCC
806312 TATCTCTCC
1 TATCTCTCC
*
806321 TGTCTCTCC
1 TATCTCTCC
806330 T
1 T
806331 CCTATCATCC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 22 0.65
10 3 0.09
11 3 0.09
12 6 0.18
ACGTcount: A:0.10, C:0.43, G:0.02, T:0.45
Consensus pattern (9 bp):
TATCTCTCC
Found at i:806302 original size:12 final size:12
Alignment explanation
Indices: 806287--806351 Score: 54
Period size: 12 Copynumber: 5.9 Consensus size: 12
806277 TCTATTATCT
806287 CTCCTATCTCTC
1 CTCCTATCTCTC
806299 CTCCTA--TCT-
1 CTCCTATCTCTC
*
806308 CTACTA--TCT-
1 CTCCTATCTCTC
*
806317 CTCCTGTCTCTC
1 CTCCTATCTCTC
806329 CTCCTATCATC-C
1 CTCCTATC-TCTC
806341 CTCCTATCTCT
1 CTCCTATCTCT
806352 TCTTTCTCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
9 12 0.27
10 3 0.07
11 5 0.11
12 22 0.50
13 2 0.05
ACGTcount: A:0.11, C:0.46, G:0.02, T:0.42
Consensus pattern (12 bp):
CTCCTATCTCTC
Found at i:806302 original size:30 final size:30
Alignment explanation
Indices: 806268--806336 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
806258 TCCTGTCATC
* *
806268 CCTCCTCTCTCTATTATCTCTCCTATCTCT
1 CCTCCTATCTCTACTATCTCTCCTATCTCT
*
806298 CCTCCTATCTCTACTATCTCTCCTGTCTCT
1 CCTCCTATCTCTACTATCTCTCCTATCTCT
806328 CCTCCTATC
1 CCTCCTATC
806337 ATCCCTCCTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.10, C:0.45, G:0.01, T:0.43
Consensus pattern (30 bp):
CCTCCTATCTCTACTATCTCTCCTATCTCT
Found at i:807494 original size:20 final size:21
Alignment explanation
Indices: 807447--807499 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
807437 GCCAATCACC
*
807447 TGTATCGATACATTCTTTGTA
1 TGTATCGATACATTCTTGGTA
*
807468 AGTATCGATACA-T-TTGGTCA
1 TGTATCGATACATTCTTGGT-A
807488 TGTATCGATACA
1 TGTATCGATACA
807500 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 4 0.14
20 13 0.46
21 11 0.39
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTTGGTA
Done.