Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000520.1 Hibiscus syriacus cultivar Beakdansim tig00000991_pilon, whole genome shotgun sequence
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: 1956684
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 11
Found at i:558737 original size:48 final size:48
Alignment explanation
Indices: 558679--558792 Score: 219
Period size: 48 Copynumber: 2.4 Consensus size: 48
558669 TACTTTATTG
*
558679 AGTCCTTTGACTATTAAAGGGTCCCCCGACTATAAGACGTTGTTTTTA
1 AGTCCCTTGACTATTAAAGGGTCCCCCGACTATAAGACGTTGTTTTTA
558727 AGTCCCTTGACTATTAAAGGGTCCCCCGACTATAAGACGTTGTTTTTA
1 AGTCCCTTGACTATTAAAGGGTCCCCCGACTATAAGACGTTGTTTTTA
558775 AGTCCCTTGACTATTAAA
1 AGTCCCTTGACTATTAAA
558793 AGTTACAAAA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 65 1.00
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (48 bp):
AGTCCCTTGACTATTAAAGGGTCCCCCGACTATAAGACGTTGTTTTTA
Found at i:559912 original size:13 final size:13
Alignment explanation
Indices: 559896--559922 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
559886 AATATTTTTT
559896 TAAAATTACAATA
1 TAAAATTACAATA
559909 TAAAATTACAATA
1 TAAAATTACAATA
559922 T
1 T
559923 TTAAATTAAA
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:0.59, C:0.07, G:0.00, T:0.33
Consensus pattern (13 bp):
TAAAATTACAATA
Found at i:561025 original size:24 final size:25
Alignment explanation
Indices: 560983--561041 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
560973 GCAACGTAAT
* * *
560983 TTTTTAACTTCATTTATTTAACTA-
1 TTTTTAATTTGATTAATTTAACTAG
*
561007 TTTTTAATTTGATTAATTTAATTAG
1 TTTTTAATTTGATTAATTTAACTAG
561032 TTTTT-ATTTG
1 TTTTTAATTTG
561042 TTTATAATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 25 0.83
25 5 0.17
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.63
Consensus pattern (25 bp):
TTTTTAATTTGATTAATTTAACTAG
Found at i:561858 original size:12 final size:13
Alignment explanation
Indices: 561809--561857 Score: 73
Period size: 13 Copynumber: 3.8 Consensus size: 13
561799 TTTGGTAATC
561809 CCCGCCCCGATTA
1 CCCGCCCCGATTA
*
561822 CCCGCCTCGATTA
1 CCCGCCCCGATTA
561835 CCCGCCCCGA-TA
1 CCCGCCCCGATTA
*
561847 CCCGACCCGAT
1 CCCGCCCCGAT
561858 AAATATTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
12 11 0.34
13 21 0.66
ACGTcount: A:0.16, C:0.53, G:0.16, T:0.14
Consensus pattern (13 bp):
CCCGCCCCGATTA
Found at i:561914 original size:24 final size:24
Alignment explanation
Indices: 561900--561957 Score: 116
Period size: 24 Copynumber: 2.4 Consensus size: 24
561890 ATATTAATAA
561900 ATTTAATTTAAATAAAAAATATAT
1 ATTTAATTTAAATAAAAAATATAT
561924 ATTTAATTTAAATAAAAAATATAT
1 ATTTAATTTAAATAAAAAATATAT
561948 ATTTAATTTA
1 ATTTAATTTA
561958 TATATATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
ATTTAATTTAAATAAAAAATATAT
Found at i:561947 original size:2 final size:2
Alignment explanation
Indices: 561942--561985 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
561932 TAAATAAAAA
* *
561942 AT AT AT AT TT A- AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
561983 AT A
1 AT A
561986 CCCGGCCCGA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:562001 original size:12 final size:12
Alignment explanation
Indices: 561983--562037 Score: 74
Period size: 12 Copynumber: 4.6 Consensus size: 12
561973 ATATATATAT
* *
561983 ATACCCGGCCCG
1 ATACCCGACCCA
*
561995 ATTCCCGACCCA
1 ATACCCGACCCA
562007 ATACCCGACCCA
1 ATACCCGACCCA
*
562019 ATACCCGGCCCA
1 ATACCCGACCCA
562031 ATACCCG
1 ATACCCG
562038 TTTAAATAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.25, C:0.49, G:0.15, T:0.11
Consensus pattern (12 bp):
ATACCCGACCCA
Found at i:567929 original size:23 final size:23
Alignment explanation
Indices: 567863--567923 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
567853 AGCTAGTTAG
* *
567863 CGTAATAGGTAGTGTTAATTTAA
1 CGTAATAGGTAGCGCTAATTTAA
* *
567886 TGTAATATGTAGCGCTAATTTAA
1 CGTAATAGGTAGCGCTAATTTAA
567909 CGTAATAGGTAGCGC
1 CGTAATAGGTAGCGC
567924 CTATTTTATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.34
Consensus pattern (23 bp):
CGTAATAGGTAGCGCTAATTTAA
Found at i:568032 original size:75 final size:75
Alignment explanation
Indices: 567904--568161 Score: 349
Period size: 75 Copynumber: 3.4 Consensus size: 75
567894 GTAGCGCTAA
** *
567904 TTTAACGTAATAGGTAGCGCCTATTTTATTTTACCATTTACATTATTATTAACATTTAAACAAAC
1 TTTAACGTAATAGGTAGCGCCTATTTTATTTTACTGTTTACATTATTAGTAACATTTAAACAAAC
*
567969 CGGTAGTTAG
66 CGATAGTTAG
* * *
567979 TTTAATGTAATAGGTAACGCCTATTTTATTTTACTGTTTACATTATTAGTAACATTTAAGCAAAC
1 TTTAACGTAATAGGTAGCGCCTATTTTATTTTACTGTTTACATTATTAGTAACATTTAAACAAAC
* *
568044 CAATA-TGCAG
66 CGATAGT-TAG
* *
568054 TTTAACGTAATAGGTAGTGCCTATTTTATTTTA-TCGTTTACATTATTAGTAACCTTTAAACAAA
1 TTTAACGTAATAGGTAGCGCCTATTTTATTTTACT-GTTTACATTATTAGTAACATTTAAACAAA
* *
568118 CCGATAGATAT
65 CCGATAGTTAG
* *
568129 TTTAACTTAATAGATAGCGCCTATTTTATTTTA
1 TTTAACGTAATAGGTAGCGCCTATTTTATTTTA
568162 ACCTTCAAAC
Statistics
Matches: 159, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
74 2 0.01
75 157 0.99
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (75 bp):
TTTAACGTAATAGGTAGCGCCTATTTTATTTTACTGTTTACATTATTAGTAACATTTAAACAAAC
CGATAGTTAG
Found at i:568191 original size:57 final size:57
Alignment explanation
Indices: 568103--568221 Score: 175
Period size: 57 Copynumber: 2.1 Consensus size: 57
568093 ACATTATTAG
* * *
568103 TAACCTTTAAACAAACCGATAGATATTTTAACTTAATAGATAGCGCCTATTTTATTT
1 TAACCTTCAAACAAACCGATAGATAGTTTAACATAATAGATAGCGCCTATTTTATTT
* * * *
568160 TAACCTTCAAACAAACCGCTAGGTAGTTTAACATAATAGGTAGCGTCTATTTTATTT
1 TAACCTTCAAACAAACCGATAGATAGTTTAACATAATAGATAGCGCCTATTTTATTT
568217 TAACC
1 TAACC
568222 AGTTAAGTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (57 bp):
TAACCTTCAAACAAACCGATAGATAGTTTAACATAATAGATAGCGCCTATTTTATTT
Found at i:569184 original size:6 final size:6
Alignment explanation
Indices: 569167--569197 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
569157 CCTTTTCTGC
*
569167 CAACTG CCACTG CAACTG CAACTG CAACTG C
1 CAACTG CAACTG CAACTG CAACTG CAACTG C
569198 GAGCTCCTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.29, C:0.39, G:0.16, T:0.16
Consensus pattern (6 bp):
CAACTG
Found at i:569614 original size:26 final size:26
Alignment explanation
Indices: 569580--569643 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 26
569570 ATTTGATCGA
*
569580 TTATTTATTTTTAAAAATATTTATAT
1 TTATTTATTTATAAAAATATTTATAT
* *
569606 TTATTTATTTATGAAGATATTTATAT
1 TTATTTATTTATAAAAATATTTATAT
* *
569632 TCATTCATTTAT
1 TTATTTATTTAT
569644 TTAGTATATG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (26 bp):
TTATTTATTTATAAAAATATTTATAT
Found at i:569703 original size:23 final size:23
Alignment explanation
Indices: 569672--569738 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
569662 TTTGTTTAAC
* *
569672 ATTTGTTTAATATTCATAAATAT
1 ATTTATTTAATATTCATAAACAT
* *
569695 ATTTATTTAATGTTTATAAACAT
1 ATTTATTTAATATTCATAAACAT
* *
569718 ATTAATTTAATATTCACAAAC
1 ATTTATTTAATATTCATAAAC
569739 TAACACTCTC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.48
Consensus pattern (23 bp):
ATTTATTTAATATTCATAAACAT
Found at i:579064 original size:2 final size:2
Alignment explanation
Indices: 579057--579094 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
579047 AGATTGCTCA
579057 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
579095 CACGTTTAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:579670 original size:27 final size:23
Alignment explanation
Indices: 579617--579700 Score: 105
Period size: 23 Copynumber: 3.7 Consensus size: 23
579607 TGATTCAGTG
* * * *
579617 CTGATTAATTAAGTAAAACAGTG
1 CTGATTGATTCAGTAAAATAGTA
*
579640 TTGATTGATTCAGTAAAATAGTA
1 CTGATTGATTCAGTAAAATAGTA
579663 CTGATTGATTCAGTAAAATAGTA
1 CTGATTGATTCAGTAAAATAGTA
* *
579686 GTGAGTGATTCAGTA
1 CTGATTGATTCAGTA
579701 CAGAAGTATA
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 53 1.00
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (23 bp):
CTGATTGATTCAGTAAAATAGTA
Found at i:579721 original size:27 final size:27
Alignment explanation
Indices: 579691--579752 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
579681 TAGTAGTGAG
* *
579691 TGATTCAGTACAGAAGTATATTCTGAA
1 TGATTCAGCACAGAAGTATATTCTAAA
579718 TGATTCAGCACAGAAGTATATTCTAAA
1 TGATTCAGCACAGAAGTATATTCTAAA
*
579745 TAATTCAG
1 TGATTCAG
579753 AGTCATTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (27 bp):
TGATTCAGCACAGAAGTATATTCTAAA
Found at i:579799 original size:35 final size:35
Alignment explanation
Indices: 579755--579828 Score: 112
Period size: 35 Copynumber: 2.1 Consensus size: 35
579745 TAATTCAGAG
* * *
579755 TCATTATTAAACAGTATGTTACACTTAGAGTTAAT
1 TCATCATTAAACAGTATGCTACACTTAAAGTTAAT
*
579790 TCATCATTAAATAGTATGCTACACTTAAAGTTAAT
1 TCATCATTAAACAGTATGCTACACTTAAAGTTAAT
579825 TCAT
1 TCAT
579829 ACAAAATCTC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (35 bp):
TCATCATTAAACAGTATGCTACACTTAAAGTTAAT
Found at i:580700 original size:33 final size:33
Alignment explanation
Indices: 580622--580702 Score: 117
Period size: 33 Copynumber: 2.5 Consensus size: 33
580612 ATAATTATTT
580622 ATATATATATATATATTAATAAATTTAATTTAA
1 ATATATATATATATATTAATAAATTTAATTTAA
* * * * *
580655 ATAAAAAAATATATATTTATATATTTAATTTAA
1 ATATATATATATATATTAATAAATTTAATTTAA
580688 ATATATATATATATA
1 ATATATATATATATA
580703 CTCGGCCCGA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (33 bp):
ATATATATATATATATTAATAAATTTAATTTAA
Found at i:581365 original size:23 final size:21
Alignment explanation
Indices: 581317--581372 Score: 58
Period size: 23 Copynumber: 2.6 Consensus size: 21
581307 GAAATAAAAA
*
581317 CATATTAATATATATTTCTTT
1 CATATTAATATATATATCTTT
* *
581338 TATATTAATTAATATATATGTTT
1 CATATTAA-T-ATATATATCTTT
*
581361 CATATTAGTATA
1 CATATTAATATA
581373 ATTATAATCT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
21 10 0.36
22 2 0.07
23 16 0.57
ACGTcount: A:0.38, C:0.05, G:0.04, T:0.54
Consensus pattern (21 bp):
CATATTAATATATATATCTTT
Found at i:583509 original size:64 final size:64
Alignment explanation
Indices: 583441--583661 Score: 259
Period size: 64 Copynumber: 3.5 Consensus size: 64
583431 TTGAAGGTGT
** **
583441 ATCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAATACATCGAATGCAATTTGTG
1 ATCGATGCATAAGTAGTGCATCGATGCATC-CCATTAATAATAAA-ACATCGAATGCAATTTGTG
583504 C
64 C
** *
583505 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAAGGAAACATCGAATGCAATTAGTGC
1 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTTGTGC
* * * * * *
583569 ATCGATGCATAAGGCA-TGCATCGATGCATCCCAATAATAATACAACATCGAATACATTTTATGC
1 ATCGATGCATAA-GTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTTGTGC
* *
583633 ACCGATGCATCAGTAGTGCATCGATGCAT
1 ATCGATGCATAAGTAGTGCATCGATGCAT
583662 ACCTTCATTA
Statistics
Matches: 134, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
63 2 0.01
64 125 0.93
65 7 0.05
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.28
Consensus pattern (64 bp):
ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTTGTGC
Found at i:584639 original size:103 final size:103
Alignment explanation
Indices: 584414--584631 Score: 382
Period size: 103 Copynumber: 2.1 Consensus size: 103
584404 GTCGAGGGTC
*
584414 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTCGAACATGTGTGAAGTCTGGTGAGACACATAC
* * *
584479 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATACGATTCTTAAGGAATGA
584517 TATGTGGTCCTTCGGGACATATATGTATTCTTTCGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTCGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
584582 TTGATCCCTAGTATATGTATACGATTCTTAAGGAATTA
66 TTGATCCCTAGCATATGTATACGATTCTTAAGGAATGA
584620 TATGTGGTCCTT
1 TATGTGGTCCTT
584632 ATGGACATTA
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 109 1.00
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTCGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATACGATTCTTAAGGAATGA
Found at i:584681 original size:23 final size:23
Alignment explanation
Indices: 584648--584710 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
584638 ATTATTATAT
584648 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
584671 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
* *
584694 GGCACTTCGATGCAATT
1 GGCACTACGGTGCAATT
584711 ATATGAGCTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.21, C:0.29, G:0.25, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:589349 original size:64 final size:64
Alignment explanation
Indices: 589281--589501 Score: 234
Period size: 64 Copynumber: 3.5 Consensus size: 64
589271 TTGAAGGTAT
** ** * *
589281 ATCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAATACATCGAATGCAATTTGTG
1 ATCGATGCATAAGTAGTGCATCGATGCATC-CCATTAATAAGAAA-ACATCGAATGCAATTAGTG
589344 C
64 C
*
589345 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAAGGAAACATCGAATGCAATTAGTGC
1 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAAGAAAACATCGAATGCAATTAGTGC
* * * * * * *
589409 ATCGATGCATAAGGCA-TGAATCGATGCATCCCAGTAATAATACAACATCGAATACATTTTA-TG
1 ATCGATGCATAA-GTAGTGCATCGATGCATCCCATTAATAAGAAAACATCGAATGCA-ATTAGTG
589472 C
64 C
* *
589473 ACCGATGCATCAGTAGTGCATCGATGCAT
1 ATCGATGCATAAGTAGTGCATCGATGCAT
589502 ACCTTCATTA
Statistics
Matches: 133, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
63 2 0.02
64 121 0.91
65 10 0.08
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (64 bp):
ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAAGAAAACATCGAATGCAATTAGTGC
Found at i:590487 original size:103 final size:103
Alignment explanation
Indices: 590254--590471 Score: 391
Period size: 103 Copynumber: 2.1 Consensus size: 103
590244 GTCGAGGGTC
* *
590254 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATATATTCTTTCGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
590319 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
590357 TATGTGGTCCTTCGGGACATATATATATTCTTTCGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATATATTCTTTCGAACATGTGTGAAGTCTGGTGAGACACATAC
*
590422 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
590460 TATGTGGTCCTT
1 TATGTGGTCCTT
590472 ATGGACATTA
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 110 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATATATTCTTTCGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:598480 original size:14 final size:15
Alignment explanation
Indices: 598457--598494 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
598447 AAAAATATTG
598457 TTATTATAATATCAT
1 TTATTATAATATCAT
*
598472 TTATT-TAATATTAT
1 TTATTATAATATCAT
598486 TT-TTATAAT
1 TTATTATAAT
598495 TATATTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 2 0.10
14 14 0.67
15 5 0.24
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (15 bp):
TTATTATAATATCAT
Found at i:598513 original size:14 final size:14
Alignment explanation
Indices: 598478--598516 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 14
598468 TCATTTATTT
598478 AATATTATTTTTATA
1 AATATTA-TTTTATA
598493 ATTATATTATTTTATA
1 A--ATATTATTTTATA
598509 AATATTAT
1 AATATTAT
598517 ATATAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 7 0.32
15 1 0.05
16 8 0.36
17 6 0.27
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
AATATTATTTTATA
Found at i:598992 original size:12 final size:13
Alignment explanation
Indices: 598977--599097 Score: 59
Period size: 13 Copynumber: 8.5 Consensus size: 13
598967 ATTTTTAAAG
598977 AATAA-AATTATA
1 AATAATAATTATA
*
598989 AATAATATTTATAA
1 AATAATAATTAT-A
599003 AATAAT-ATTAAATA
1 AATAATAATT--ATA
*
599017 AATGATATCATTTATA
1 AAT-A-AT-AATTATA
*
599033 AATAATATTTATA
1 AATAATAATTATA
599046 AACTAAT-ATTAAATA
1 AA-TAATAATT--ATA
*
599061 AATGATATCATTTATA
1 AAT-A-AT-AATTATA
*
599077 AATAATATTTATA
1 AATAATAATTATA
599090 AACTAATA
1 AA-TAATA
599098 TAATCATAAA
Statistics
Matches: 88, Mismatches: 5, Indels: 30
0.72 0.04 0.24
Matches are distributed among these distances:
12 5 0.06
13 27 0.31
14 25 0.28
15 11 0.12
16 16 0.18
18 4 0.05
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (13 bp):
AATAATAATTATA
Found at i:599034 original size:44 final size:44
Alignment explanation
Indices: 598984--599098 Score: 221
Period size: 44 Copynumber: 2.6 Consensus size: 44
598974 AAGAATAAAA
*
598984 TTATAAATAATATTTATAAAATAATATTAAATAAATGATATCAT
1 TTATAAATAATATTTATAAACTAATATTAAATAAATGATATCAT
599028 TTATAAATAATATTTATAAACTAATATTAAATAAATGATATCAT
1 TTATAAATAATATTTATAAACTAATATTAAATAAATGATATCAT
599072 TTATAAATAATATTTATAAACTAATAT
1 TTATAAATAATATTTATAAACTAATAT
599099 AATCATAAAA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
44 70 1.00
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (44 bp):
TTATAAATAATATTTATAAACTAATATTAAATAAATGATATCAT
Found at i:599035 original size:16 final size:13
Alignment explanation
Indices: 598984--599098 Score: 113
Period size: 14 Copynumber: 8.0 Consensus size: 13
598974 AAGAATAAAA
598984 TTATAAATAATAT
1 TTATAAATAATAT
598997 TTATAAAATAATAT
1 TTAT-AAATAATAT
*
599011 TAAATAAATGATATCAT
1 T-TATAAAT-A-AT-AT
599028 TTATAAATAATAT
1 TTATAAATAATAT
599041 TTATAAACTAATAT
1 TTATAAA-TAATAT
*
599055 TAAATAAATGATATCAT
1 T-TATAAAT-A-AT-AT
599072 TTATAAATAATAT
1 TTATAAATAATAT
599085 TTATAAACTAATAT
1 TTATAAA-TAATAT
599099 AATCATAAAA
Statistics
Matches: 87, Mismatches: 4, Indels: 21
0.78 0.04 0.19
Matches are distributed among these distances:
13 22 0.25
14 32 0.37
15 11 0.13
16 16 0.18
17 6 0.07
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (13 bp):
TTATAAATAATAT
Found at i:599036 original size:20 final size:20
Alignment explanation
Indices: 599011--599081 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
599001 AAAATAATAT
599011 TAAATAAATGATATCATTTA
1 TAAATAAATGATATCATTTA
* * *
599031 TAAATAATAT-TTATAAACTAATA
1 TAAATAA-ATGATAT-CA-T-TTA
599054 TTAAATAAATGATATCATTTA
1 -TAAATAAATGATATCATTTA
599075 TAAATAA
1 TAAATAA
599082 TATTTATAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
20 17 0.44
21 5 0.13
22 2 0.05
23 5 0.13
24 10 0.26
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.39
Consensus pattern (20 bp):
TAAATAAATGATATCATTTA
Found at i:600455 original size:21 final size:21
Alignment explanation
Indices: 600429--600478 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
600419 AATTCTATTT
600429 TATCATCACCAGTGAGAATAA
1 TATCATCACCAGTGAGAATAA
600450 TATCATCACCAGTGAGAATAA
1 TATCATCACCAGTGAGAATAA
600471 TATCATCA
1 TATCATCA
600479 ACATAAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (21 bp):
TATCATCACCAGTGAGAATAA
Found at i:604758 original size:2 final size:2
Alignment explanation
Indices: 604746--604778 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
604736 TAATCCTTAT
*
604746 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
604779 TTAATTATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:605373 original size:28 final size:27
Alignment explanation
Indices: 605342--605456 Score: 90
Period size: 28 Copynumber: 4.1 Consensus size: 27
605332 TTCATTAACA
*
605342 TTATTTTCTTTTCATTT-TTCTCTTCATT
1 TTATTTT-TTTTCATTTATTCTATT-ATT
*
605370 TTATTTTATTTTTATTTATTCTATTATT
1 TTATTTT-TTTTCATTTATTCTATTATT
* * *
605398 TTGTTTTATTTCA-TTATTATATTTATT
1 TTATTTTTTTTCATTTATTCTA-TTATT
* * * *
605425 TTAATTTGTTTTCTTTTATTATTTTATT
1 TT-ATTTTTTTTCATTTATTCTATTATT
605453 TTAT
1 TTAT
605457 GTCTTAGCCA
Statistics
Matches: 71, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
26 7 0.10
27 13 0.18
28 38 0.54
29 13 0.18
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.73
Consensus pattern (27 bp):
TTATTTTTTTTCATTTATTCTATTATT
Found at i:605377 original size:5 final size:5
Alignment explanation
Indices: 605367--605456 Score: 64
Period size: 5 Copynumber: 18.4 Consensus size: 5
605357 TTTTCTCTTC
* * *
605367 ATTTT ATTTT ATTTT -TATTT ATTCT A--TT ATTTT GTTTT ATTTC ATTATT
1 ATTTT ATTTT ATTTT AT-TTT ATTTT ATTTT ATTTT ATTTT ATTTT ATT-TT
* * *
605416 ATATTT ATTTT AATTT GTTTT CTTTT A--TT ATTTT ATTTT AT
1 AT-TTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT AT
605457 GTCTTAGCCA
Statistics
Matches: 66, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
3 5 0.08
4 1 0.02
5 51 0.77
6 8 0.12
7 1 0.02
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.73
Consensus pattern (5 bp):
ATTTT
Found at i:605396 original size:23 final size:22
Alignment explanation
Indices: 605350--605431 Score: 71
Period size: 22 Copynumber: 3.6 Consensus size: 22
605340 CATTATTTTC
*
605350 TTTTCATTTTTCTCTTCATT-TTA
1 TTTT-ATTTTTAT-TTCATTATTA
605373 TTTTATTTTTATTT-ATTCTATTA
1 TTTTATTTTTATTTCA-T-TATTA
*
605396 TTTT-GTTTTATTTCATTATTA
1 TTTTATTTTTATTTCATTATTA
*
605417 TATTTATTTTAATTT
1 T-TTTATTTTTATTT
605432 GTTTTCTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 1 0.02
21 9 0.18
22 20 0.41
23 19 0.39
ACGTcount: A:0.20, C:0.07, G:0.01, T:0.72
Consensus pattern (22 bp):
TTTTATTTTTATTTCATTATTA
Found at i:605398 original size:18 final size:18
Alignment explanation
Indices: 605375--605425 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
605365 TCATTTTATT
605375 TTATTTTTATTTA-TTCTA
1 TTATTTTTATTTATTTC-A
605393 TTATTTTGT-TTTATTTCA
1 TTATTTT-TATTTATTTCA
*
605411 TTA-TTATATTTATTT
1 TTATTTTTATTTATTT
605426 TAATTTGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 1 0.03
17 9 0.31
18 15 0.52
19 4 0.14
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.73
Consensus pattern (18 bp):
TTATTTTTATTTATTTCA
Found at i:608260 original size:83 final size:82
Alignment explanation
Indices: 608134--608299 Score: 305
Period size: 83 Copynumber: 2.0 Consensus size: 82
608124 AGGGGTATCA
* *
608134 AGATAGAGTCAAGATAACTCCAAGTTGAAAGTAACCTCTGAATACTGGAAAGACGAAGCTCACAG
1 AGATACAGTCAAGATAACTCCAAGTTAAAAGTAACCTCTGAATACTGGAAAGACGAAGCTCACAG
608199 TCTGAAAAGGAAGTTCG
66 TCTGAAAAGGAAGTTCG
608216 AGATACAGTCAAGGATAACTCCAAGTTAAAAGTAACCTCTGAATACTGGAAAGACGAAGCTCACA
1 AGATACAGTCAA-GATAACTCCAAGTTAAAAGTAACCTCTGAATACTGGAAAGACGAAGCTCACA
608281 GTCTGAAAAGGAAGTTCG
65 GTCTGAAAAGGAAGTTCG
608299 A
1 A
608300 AGGACTTAAT
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
82 11 0.14
83 70 0.86
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.19
Consensus pattern (82 bp):
AGATACAGTCAAGATAACTCCAAGTTAAAAGTAACCTCTGAATACTGGAAAGACGAAGCTCACAG
TCTGAAAAGGAAGTTCG
Found at i:618246 original size:5 final size:5
Alignment explanation
Indices: 618238--618320 Score: 57
Period size: 5 Copynumber: 17.0 Consensus size: 5
618228 CATTTTTCCC
* ** *
618238 TTTAT TTTAT TTTAT TCTA- -TTAT TTCGT TTTAA TTTAT TATTAT ATTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT T-TTAT -TTTAT
* * *
618288 TTTAA TTTGT TTT-C TTT-T TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
618321 GTCTTATCCA
Statistics
Matches: 60, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
3 2 0.03
4 6 0.10
5 43 0.72
6 8 0.13
7 1 0.02
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.73
Consensus pattern (5 bp):
TTTAT
Found at i:618260 original size:18 final size:18
Alignment explanation
Indices: 618239--618285 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
618229 ATTTTTCCCT
618239 TTATTTTATTTT-ATTCTA
1 TTATTTTATTTTAATT-TA
**
618257 TTATTTCGTTTTAATTTA
1 TTATTTTATTTTAATTTA
*
618275 TTATTATATTT
1 TTATTTTATTT
618286 ATTTTAATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
18 20 0.87
19 3 0.13
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.70
Consensus pattern (18 bp):
TTATTTTATTTTAATTTA
Found at i:620823 original size:21 final size:21
Alignment explanation
Indices: 620785--620843 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
620775 CCAGAACCCC
620785 CAGGGTGGTATCGATTCCCCTA
1 CAGGG-GGTATCGATTCCCCTA
* * *
620807 CAGGGGGAATCGGTTCCCCTT
1 CAGGGGGTATCGATTCCCCTA
620828 CAAGGGGGTATCGATT
1 C-AGGGGGTATCGATT
620844 TCCTCTGCAC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 14 0.45
22 17 0.55
ACGTcount: A:0.19, C:0.24, G:0.32, T:0.25
Consensus pattern (21 bp):
CAGGGGGTATCGATTCCCCTA
Found at i:625876 original size:21 final size:21
Alignment explanation
Indices: 625850--625889 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
625840 TAGAACCCCA
*
625850 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
625871 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
625890 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:625918 original size:20 final size:21
Alignment explanation
Indices: 625872--625932 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
625862 TTCCCCTGTG
625872 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
625895 GGGGGAATCGGTTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
* *
625915 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
625933 TGTACCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 18 0.50
21 2 0.06
22 3 0.08
23 13 0.36
ACGTcount: A:0.18, C:0.26, G:0.34, T:0.21
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:632846 original size:22 final size:21
Alignment explanation
Indices: 632804--632843 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
632794 GAGATTCTTT
*
632804 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTAAAATA
632825 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
632844 ATAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAATA
Found at i:637047 original size:19 final size:20
Alignment explanation
Indices: 637007--637060 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
636997 ATACACTTTA
637007 TTTTATTAATATGGGCATTT
1 TTTTATTAATATGGGCATTT
637027 TTTTATTAATATGGGCA-TT
1 TTTTATTAATATGGGCATTT
*
637046 TTTTATTAATCTGGG
1 TTTTATTAATATGGG
637061 ATAAATATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.24, C:0.06, G:0.17, T:0.54
Consensus pattern (20 bp):
TTTTATTAATATGGGCATTT
Found at i:638554 original size:22 final size:22
Alignment explanation
Indices: 638526--638571 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
638516 ATACTCACCT
638526 ATTACCCACTAAACTTATACCC
1 ATTACCCACTAAACTTATACCC
*
638548 ATTACCCACTAAATTTATACCC
1 ATTACCCACTAAACTTATACCC
638570 AT
1 AT
638572 CCCCGCTCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.37, C:0.33, G:0.00, T:0.30
Consensus pattern (22 bp):
ATTACCCACTAAACTTATACCC
Found at i:639884 original size:15 final size:17
Alignment explanation
Indices: 639864--639897 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
639854 AAATTGATTC
639864 AAAATC-AAATA-ACCT
1 AAAATCGAAATAGACCT
639879 AAAATCGAAATAGACCT
1 AAAATCGAAATAGACCT
639896 AA
1 AA
639898 GCTGAGATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 5 0.29
17 6 0.35
ACGTcount: A:0.59, C:0.18, G:0.06, T:0.18
Consensus pattern (17 bp):
AAAATCGAAATAGACCT
Found at i:644227 original size:306 final size:292
Alignment explanation
Indices: 643659--644256 Score: 1061
Period size: 306 Copynumber: 2.0 Consensus size: 292
643649 GAAACAGAAC
643659 TAGATCTCTAATGGTCTTTTATAGGTCAAGGCTAATTACTCTATTGACAATAACAGAAATCTTGT
1 TAGATCTCTAATGGTCTTTTATAGGTCAAGGCTAATTACTCTATTGACAATAACAGAAATCTTGT
643724 TAGACTCGGAACGGAAACATTTCTTGGTGCATTAAATAAAAATCCAAGGGTCTAAGATACGTAAC
66 TAGACTCGGAACGGAAACATTTCTTGGTGCATTAAATAAAAATCCAAGGGTCTAAGATACGTAAC
643789 ACAATAGAAAAAGCGTTGTTAGAATGCATGGTTAGTAACAAAAATAACATAAATATAATTGCAGA
131 ACAATAGAAAAAGCGTTGTTAGAATGCATGGTTAGTAACAAAAATAACATAAATATAATTGCAGA
643854 GTCTCTGGCTCAACTCGATCACTACAACATCGGGTAGCATAGACAAGGGCAGATTGTCTAGCCTC
196 GTCTCTGGCTCAACTCGATCACTACAACATCGGGTAGCATAGACAAGGGCAGATTGTCTAGCCTC
643919 AAAAGCAATTGGCCATCTACTCTGTGATCGAG
261 AAAAGCAATTGGCCATCTACTCTGTGATCGAG
643951 TAGATCTCTAATGGTTCTTTTATAGGTCAAAGGCTAATTACTCTATTGACAATAACAGAAAATCT
1 TAGATCTCTAATGG-TCTTTTATAGGTC-AAGGCTAATTACTCTATTGACAATAACAG-AAATCT
644016 TGTTAGACTCGGAACGGAAACATTTATCTTGGTGCATTAAATAAAAAATCCAAGGGTCTTAAGAT
63 TGTTAGACTCGGAACGGAAACA-TT-TCTTGGTGCATTAAAT-AAAAATCCAAGGGTC-TAAGAT
*
644081 ACGTAACACAAGTATAGAAAAAGCGTTGTTAGAAATGCATGGTTAAGTAACATAAATAACAATAA
124 ACGTAACAC-A--ATAGAAAAAGCGTTGTTAG-AATGCATGGTT-AGTAACAAAAATAAC-ATAA
644146 ATATAATTGCAGAAGTCTCTGGCTCAACTCGATCACTACAACATCGGGTAGCATAGACAAGGGCA
183 ATATAATTGCAG-AGTCTCTGGCTCAACTCGATCACTACAACATCGGGTAGCATAGACAAGGGCA
644211 GATTGTCTAGCCTCAAAAGCAATTGGCCATCTACTCTGTGATCGAG
247 GATTGTCTAGCCTCAAAAGCAATTGGCCATCTACTCTGTGATCGAG
644257 CTCTACTGTC
Statistics
Matches: 291, Mismatches: 1, Indels: 14
0.95 0.00 0.05
Matches are distributed among these distances:
292 14 0.05
293 13 0.04
294 29 0.10
295 28 0.10
296 2 0.01
297 16 0.05
298 15 0.05
299 15 0.05
300 1 0.00
302 19 0.07
303 11 0.04
304 14 0.05
305 16 0.05
306 98 0.34
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.27
Consensus pattern (292 bp):
TAGATCTCTAATGGTCTTTTATAGGTCAAGGCTAATTACTCTATTGACAATAACAGAAATCTTGT
TAGACTCGGAACGGAAACATTTCTTGGTGCATTAAATAAAAATCCAAGGGTCTAAGATACGTAAC
ACAATAGAAAAAGCGTTGTTAGAATGCATGGTTAGTAACAAAAATAACATAAATATAATTGCAGA
GTCTCTGGCTCAACTCGATCACTACAACATCGGGTAGCATAGACAAGGGCAGATTGTCTAGCCTC
AAAAGCAATTGGCCATCTACTCTGTGATCGAG
Found at i:646873 original size:115 final size:114
Alignment explanation
Indices: 646651--646879 Score: 449
Period size: 115 Copynumber: 2.0 Consensus size: 114
646641 TCTGACTACT
646651 TCCAAGAACCAAATACAACTCACAACAAACCATTAATCAACCAAAACCACGATAATCAACCGAAA
1 TCCAAGAACCAAATACAACTCACAACAAACCATTAATCAACCAAAACCACGATAATCAACCGAAA
646716 ATCGTTCGAGACTTACCTCAATGACGGATGACGAGAACGACGATGGTGG
66 ATCGTTCGAGACTTACCTCAATGACGGATGACGAGAACGACGATGGTGG
646765 TCCAAGAACCAAATACAACTCACAACAAACCATTAATCAACCAAAACCACGATAAATCAACCGAA
1 TCCAAGAACCAAATACAACTCACAACAAACCATTAATCAACCAAAACCACGAT-AATCAACCGAA
646830 AATCGTTCGAGACTTACCTCAATGACGGATGACGAGAACGACGATGGTGG
65 AATCGTTCGAGACTTACCTCAATGACGGATGACGAGAACGACGATGGTGG
646880 ATGATGAACT
Statistics
Matches: 114, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
114 53 0.46
115 61 0.54
ACGTcount: A:0.42, C:0.26, G:0.16, T:0.16
Consensus pattern (114 bp):
TCCAAGAACCAAATACAACTCACAACAAACCATTAATCAACCAAAACCACGATAATCAACCGAAA
ATCGTTCGAGACTTACCTCAATGACGGATGACGAGAACGACGATGGTGG
Found at i:648698 original size:503 final size:508
Alignment explanation
Indices: 647626--649142 Score: 2672
Period size: 503 Copynumber: 3.0 Consensus size: 508
647616 GGTGGATGAT
* *
647626 GAACTCAGTCGGGTTATGAGTAGATAACAGTGGGGAGGTGAACGACGTAGGTGGTGAGGTAAGAT
1 GAACTCGGTCGGGTTATGAGCAGATAACAGTGGGGAGGTGAACGACGTAGGTGGTGAGGTAAGAT
647691 GATGACTAAATCGGCGACAATCGTTAAGAACAACGACATTAACACAAAAGTTTCCTCCTTCGATT
66 GATGACTAAATCGGCGACAATCGTTAAGAACAACGACATTAACACAAAAGTTTCCTCCTTCGATT
* * * *
647756 ATCGATGCTCGGCGACCGATTAGAGTCGTTGACGGCTGGGGACGGGTCGTCGAAGGACGTCGGTT
131 ATCGATGCTCAGCGACCGATTGGAGTCGTTGACGGCTAGGGACGGGTCGTCGAAGGACGTCAGTT
* * *
647821 CAACTGGTTGGGTTGGAACACTGCAATGGTGACCAGAGCGGGGCGAATTATGGAGGGGTGCGGTG
196 CAACTGGTTGGGTCGGAACACTGCAATGGCGACCAGAGCGGGGCGAATTGTGGAGGGGTGCGGTG
647886 GCTAGGGTTAGGGAAGAAAGAGTTTGGGTTTGAGGTTGAAACACGAACACAGGGGTTCTGGTTTT
261 GCTAGGGTTAGGGAAGAAAGAGTTTGGGTTTGAGGTTGAAACAC-AACACAGGGGTTCTGGTTTT
647951 GGGTATTTTAACCCAAGCCTAAGCATTTAAAATTAATTTTTATTATTATATTACAACATAGTGGC
325 GGGTATTTTAACCCAAGCCTAAGCATTTAAAA-TAATTTTTATTATTATATTACAACATAGTGGC
648016 CTAGCCTAGATGCTAAGGCATGGGACACCCTTACCCTAGTCATAATTTCAAACCACCCTAATCTC
389 CTAGCCTAGATGCTAAGGCATGGGACACCCTTACCCTAGTCATAATTTCAAACCACCCTAATCTC
648081 TTTTATTTTTCTTTTTTGTTCTCTGTAGGTAGAGAATGAGTAAATCTCAGGTAGA
454 TTTTATTTTTCTTTTTTGTTCTCTGTAGGTAGAGAATGAGTAAATCTCAGGTAGA
* *
648136 GAACTCGGTCGGGTTATGAGCAGATAACAGTGGGGAGGTGAACGTCGTAGGTAGTGAGGTAAGAT
1 GAACTCGGTCGGGTTATGAGCAGATAACAGTGGGGAGGTGAACGACGTAGGTGGTGAGGTAAGAT
648201 GATGACTAAATCGGCGACAATCGTTAAGAACAACGACATTAACACAAAAGTTTCCTCCTTCGATT
66 GATGACTAAATCGGCGACAATCGTTAAGAACAACGACATTAACACAAAAGTTTCCTCCTTCGATT
**
648266 ATCGATGCTCAGCGACCGATTGGAGTCGTTGACGGCTAGGGACGATTCGTCGAAGGACGTCAGTT
131 ATCGATGCTCAGCGACCGATTGGAGTCGTTGACGGCTAGGGACGGGTCGTCGAAGGACGTCAGTT
* *
648331 CAACTGGTTGGGTCGGAACACTACAATGGCGACCAGAGCGGGGTGAATTGTGGAGGGGTGCGGTG
196 CAACTGGTTGGGTCGGAACACTGCAATGGCGACCAGAGCGGGGCGAATTGTGGAGGGGTGCGGTG
648396 GCTAGGGTTAGGGAAG-AAGAGTTTGGGTTTGAGGTTG-AA-AC-ACACAGGGGTTCTGGTTTTG
261 GCTAGGGTTAGGGAAGAAAGAGTTTGGGTTTGAGGTTGAAACACAACACAGGGGTTCTGGTTTTG
648457 GGTATTTTAACCCAAGCCTAAGCATTTAAAA-AATTTTTATTATTATATTACAACATAGTGGCCT
326 GGTATTTTAACCCAAGCCTAAGCATTTAAAATAATTTTTATTATTATATTACAACATAGTGGCCT
648521 AGCCTAGATGCTAAGGCATGGGACACCCTTACCCTAGTCATAATTTCAAACCACCCTAATCTCTT
391 AGCCTAGATGCTAAGGCATGGGACACCCTTACCCTAGTCATAATTTCAAACCACCCTAATCTCTT
*
648586 TTATTTTTCTTTTTTGTTCTCTGTAGGTATAGAATGAGTAAATCTCAGGTAGA
456 TTATTTTTCTTTTTTGTTCTCTGTAGGTAGAGAATGAGTAAATCTCAGGTAGA
*
648639 GAACTCGGTCGGGTTATGAGCAGATAACAGTGGGGAGGTGAACGGCGTAGGTGGTGAGGTAAGAT
1 GAACTCGGTCGGGTTATGAGCAGATAACAGTGGGGAGGTGAACGACGTAGGTGGTGAGGTAAGAT
* * * *
648704 AATGACTAAATCGACGACAATCGTTAAGAATAACGACATTAACATAAAAGTTTCCTCCTTCGATT
66 GATGACTAAATCGGCGACAATCGTTAAGAACAACGACATTAACACAAAAGTTTCCTCCTTCGATT
*
648769 ATCGATGCTCATCGACCGATTGGAGTCGTTGACGGCTAGGGACGGGTCGTCGAAGGACGTCAGTT
131 ATCGATGCTCAGCGACCGATTGGAGTCGTTGACGGCTAGGGACGGGTCGTCGAAGGACGTCAGTT
* * *
648834 CAACTGGTTGGGTCGAAACACTGCAATGACGACCAGAGCGGGGCGAATTGTGCA-GGGTGCGGTG
196 CAACTGGTTGGGTCGGAACACTGCAATGGCGACCAGAGCGGGGCGAATTGTGGAGGGGTGCGGTG
*
648898 GCTAGGGTTAGGGAAGAAAGAGTTTAGGTTTGAGGTTGAAACACGAACACAGGGGTTCTGGTTTT
261 GCTAGGGTTAGGGAAGAAAGAGTTTGGGTTTGAGGTTGAAACAC-AACACAGGGGTTCTGGTTTT
*
648963 GGGTATTTTAACCCAAGGCTAAGCATTTAAAATTAATTTTTATTATTATATTACAACATAGTGGC
325 GGGTATTTTAACCCAAGCCTAAGCATTTAAAA-TAATTTTTATTATTATATTACAACATAGTGGC
* * *
649028 CTAGCCTAGGTGCTAAAGCATGGGACACTCTTACCCTAGTCATAATTTCAAACCA-CCTAATCTC
389 CTAGCCTAGATGCTAAGGCATGGGACACCCTTACCCTAGTCATAATTTCAAACCACCCTAATCTC
649092 TTTTATTTTTC-TTTTTGTTCTCTGTAGGTAGAGAATGAGTAAATCTCAGGT
454 TTTTATTTTTCTTTTTTGTTCTCTGTAGGTAGAGAATGAGTAAATCTCAGGT
649143 TGGGTCCCTA
Statistics
Matches: 964, Mismatches: 36, Indels: 17
0.95 0.04 0.02
Matches are distributed among these distances:
502 26 0.03
503 405 0.42
504 2 0.00
505 53 0.05
507 91 0.09
508 22 0.02
509 104 0.11
510 261 0.27
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (508 bp):
GAACTCGGTCGGGTTATGAGCAGATAACAGTGGGGAGGTGAACGACGTAGGTGGTGAGGTAAGAT
GATGACTAAATCGGCGACAATCGTTAAGAACAACGACATTAACACAAAAGTTTCCTCCTTCGATT
ATCGATGCTCAGCGACCGATTGGAGTCGTTGACGGCTAGGGACGGGTCGTCGAAGGACGTCAGTT
CAACTGGTTGGGTCGGAACACTGCAATGGCGACCAGAGCGGGGCGAATTGTGGAGGGGTGCGGTG
GCTAGGGTTAGGGAAGAAAGAGTTTGGGTTTGAGGTTGAAACACAACACAGGGGTTCTGGTTTTG
GGTATTTTAACCCAAGCCTAAGCATTTAAAATAATTTTTATTATTATATTACAACATAGTGGCCT
AGCCTAGATGCTAAGGCATGGGACACCCTTACCCTAGTCATAATTTCAAACCACCCTAATCTCTT
TTATTTTTCTTTTTTGTTCTCTGTAGGTAGAGAATGAGTAAATCTCAGGTAGA
Found at i:650140 original size:75 final size:75
Alignment explanation
Indices: 650017--650165 Score: 181
Period size: 75 Copynumber: 2.0 Consensus size: 75
650007 CTGACTAACC
* * * * *
650017 TGGTTGTTATTCCAAGAGATATCGACTTTGAACATTACATCTGTAGGGGTATTTGAGAGTTGTTA
1 TGGTTGTTATTCCAAGAGATATCGACTTTGAACATGACATCCGCAGGGGTATCTGAGAGTTATTA
650082 TCAAATGATA
66 TCAAATGATA
** * * * * * *
650092 TGGTTGTTATTCCTTGAGATGTTGAGTTTGAACATGACGTCCGCAGGGGTATCTGAGTGTTATTT
1 TGGTTGTTATTCCAAGAGATATCGACTTTGAACATGACATCCGCAGGGGTATCTGAGAGTTATTA
650157 TCAAATGAT
66 TCAAATGAT
650166 TGAGAGTCTT
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
75 61 1.00
ACGTcount: A:0.26, C:0.11, G:0.25, T:0.38
Consensus pattern (75 bp):
TGGTTGTTATTCCAAGAGATATCGACTTTGAACATGACATCCGCAGGGGTATCTGAGAGTTATTA
TCAAATGATA
Found at i:652927 original size:37 final size:37
Alignment explanation
Indices: 652872--652963 Score: 130
Period size: 37 Copynumber: 2.5 Consensus size: 37
652862 AACATAACGT
* * *
652872 TAGAATTTTATTATGATTCAAACTCCTAAAAATATGA
1 TAGAGTTTTACTATGATTCAAACTCCTAAAAATAGGA
* *
652909 TAGAGTTTTACTAGGATTCAAACTCTTAAAAATAGGA
1 TAGAGTTTTACTATGATTCAAACTCCTAAAAATAGGA
*
652946 TAGAGTTCTACTATGATT
1 TAGAGTTTTACTATGATT
652964 TAACCCTAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (37 bp):
TAGAGTTTTACTATGATTCAAACTCCTAAAAATAGGA
Found at i:653439 original size:21 final size:21
Alignment explanation
Indices: 653393--653439 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
653383 TTTTCATGTA
653393 TATTTTACATTATGTATTTTC
1 TATTTTACATTATGTATTTTC
* *
653414 T-TTTTACTTTA-GTATATTTT
1 TATTTTACATTATGTAT-TTTC
653434 TATTTT
1 TATTTT
653440 TTAGATTACA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 4 0.18
20 13 0.59
21 5 0.23
ACGTcount: A:0.21, C:0.06, G:0.04, T:0.68
Consensus pattern (21 bp):
TATTTTACATTATGTATTTTC
Found at i:653556 original size:36 final size:36
Alignment explanation
Indices: 653428--653560 Score: 126
Period size: 36 Copynumber: 3.6 Consensus size: 36
653418 TACTTTAGTA
* * *
653428 TATTTTTATT-TTTTAGATTACATATATATAATATAT
1 TATTTTTATTATTTTA-TTTATATATATATAATATTT
* * *
653464 TATTTTTATTATTTTTTATTAATTTATATATACATATATA
1 TATTTTTATTA--TTTTATTTATATATATATA-ATAT-TT
* *
653504 TATTTTCTGTTA-TTTATTTATATATATATTATATTT
1 TATTTT-TATTATTTTATTTATATATATATAATATTT
653540 TATTTTTATTATTTTATTTAT
1 TATTTTTATTATTTTATTTAT
653561 TTGTTTTTAT
Statistics
Matches: 78, Mismatches: 12, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
35 4 0.05
36 26 0.33
37 4 0.05
38 25 0.32
39 9 0.12
40 6 0.08
41 4 0.05
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (36 bp):
TATTTTTATTATTTTATTTATATATATATAATATTT
Found at i:653869 original size:45 final size:45
Alignment explanation
Indices: 653818--653907 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
653808 AATTACAATT
653818 TTCTTAATTTAAGACAATTGGAAATTGTGTAGTACCGAAAGGACA
1 TTCTTAATTTAAGACAATTGGAAATTGTGTAGTACCGAAAGGACA
653863 TTCTTAATTTAAGACAATTGGAAATTGTGTAGTACCGAAAGGACA
1 TTCTTAATTTAAGACAATTGGAAATTGTGTAGTACCGAAAGGACA
653908 GTTCAAGGGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (45 bp):
TTCTTAATTTAAGACAATTGGAAATTGTGTAGTACCGAAAGGACA
Found at i:657867 original size:84 final size:83
Alignment explanation
Indices: 657621--658920 Score: 1064
Period size: 84 Copynumber: 15.7 Consensus size: 83
657611 TTTAAATAAA
* * *
657621 CATTTGCAGCATAGCTTAAATCGAGAAGGGTTATCTGCCATCCAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCA-CCAAAGACCTTCGAGTTCGACTAC
*
657686 GCTCAGCTCCAAGACACAT
65 GCTCAGCTCCAAGGCACAT
* * * * **
657705 CATTTACAGCATAACTCAAGGCTAGAAGGGTTAT-TGTCACCAAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCACC-AAAGACCTTCGAGTTCGACTAC
*
657769 GCTCAGCTCCAAGGCATAT
65 GCTCAGCTCCAAGGCACAT
* *
657788 CATTTACAACATAACTTAAGTCGAGAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACC-ACCAAAGACCTTCGAGTTCGACTAC
* *
657853 GCTCAGTTCTAAGGCACAT
65 GCTCAGCTCCAAGGCACAT
* * * * * *
657872 CATTTGCAGCATAACTTAAATCGAGAAGGGTTATCT---GCCAAAGACCCTCAAGTTCGATTACA
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCACCAAAGACCTTCGAGTTCGACTACG
** * *
657934 CTCA-CTTTGAGGGTACAT
66 CTCAGC-TCCAAGGCACAT
* * * * * * * * * * ** * *
657952 TATCTACAGTATAACTCAAGGCTATAAGGATTATATGTCTCCAAAATACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCACC-AAAGACCTTCGAGTTCGACTAC
658017 GCTCAGCTCCAAGGCACAT
65 GCTCAGCTCCAAGGCACAT
* * * * * * * *
658036 CATTTGCAGCATAGCTTAAGTCGAGAATGATTAT-T---GCCAAAGACCCTCAAGTTCGATTACA
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCACCAAAGACCTTCGAGTTCGACTACG
* * * *
658097 CTCAGTTTCGAGGGAACAT
66 CTCAG-CTCCAAGGCACAT
* * * * * * *
658116 CATTTACAGCATAACTCAAGGCTAGAGAGGTTTATCTATCTCCAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGA-AGGGTTATCTACCACCAAAGACCTTCGAGTTCGACTAC
658181 GCTCAGCTCCAAGGCACAT
65 GCTCAGCTCCAAGGCACAT
* * * * * * * *
658200 CATTTGTAGCATAGCTTAAGTCTAGAAGGGCTATCT---ACCAAAGACCCTCAAGTTCGATTACA
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCACCAAAGACCTTCGAGTTCGACTACG
* * * *
658262 CTCAGTTTCGAGGGTACAT
66 CTCAG-CTCCAAGGCACAT
* * * * * *
658281 CATTT--A-CATAACTCAAGGCTG-GAGGGGTTATCTATCTCCAAAAGACCTTCGAGTTTGACTA
1 CATTTGCAGCATAACTTAAGTC-GAGAAGGGTTATCTACCACC-AAAGACCTTCGAGTTCGACTA
** *
658342 CGCTCAGCTTTAAGGCATAT
64 CGCTCAGCTCCAAGGCACAT
* * *
658362 CATTTGCAGCATAACTTAAGTCGAGTAGGGTTATCTGCCAACCAAATACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACC-ACCAAAGACCTTCGAGTTCGACTAC
*
658427 GCTAAGCTCCAAGGCACAT
65 GCTCAGCTCCAAGGCACAT
* * * ** *
658446 CATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCT---ACCAAAGACCCTCAAGTTCGGTTACA
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCACCAAAGACCTTCGAGTTCGACTACG
* * *
658508 CTCAGATTCGAGGGCACAT
66 CTCAG-CTCCAAGGCACAT
* * * * ** * * * **
658527 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCTCTAAAAGACCTTCGAGGTAAACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCAC-CAAAGACCTTCGAGTTCGACTAC
*
658592 GCTCAGCTCCAAGGCATAT
65 GCTCAGCTCCAAGGCACAT
* * * * *
658611 CATTTGCAGCATAACTTAAGTTGAGAAGGGTTATCTACCAACGAAAGACCTTCGAGTTGGATTAT
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACC-ACCAAAGACCTTCGAGTTCGACTAC
658676 GCTCAGCTCCAAGGCACAT
65 GCTCAGCTCCAAGGCACAT
* * * **** * * * *
658695 CATATGCAGCATAGCTTAAGTTGAGAAAAACTATCT---GCCAAAGACCCTCGAGTTCGATTACA
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCACCAAAGACCTTCGAGTTCGACTACG
* *
658757 CTCAGCTTCGAGGGCACAT
66 CTCAGC-TCCAAGGCACAT
* * * * *
658776 TATTTACAGCATAACTCAAAG--GTAGAAGGGTTATCTATCACCAAAAGACCTTTGAGTTCGACT
1 CATTTGCAGCATAACT-TAAGTCG-AGAAGGGTTATCTACCACC-AAAGACCTTCGAGTTCGACT
*
658839 TCGCTCAGCTCCAAGGCACAT
63 ACGCTCAGCTCCAAGGCACAT
* * ** *
658860 CATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCGGAGACCTTCAAGTTCGA
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACC-ACCAAAGACCTTCGAGTTCGA
658921 TTACATTCAG
Statistics
Matches: 952, Mismatches: 222, Indels: 84
0.76 0.18 0.07
Matches are distributed among these distances:
78 20 0.02
79 24 0.03
80 167 0.18
81 106 0.11
82 29 0.03
83 89 0.09
84 436 0.46
85 81 0.09
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (83 bp):
CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCACCAAAGACCTTCGAGTTCGACTACG
CTCAGCTCCAAGGCACAT
Found at i:658163 original size:248 final size:244
Alignment explanation
Indices: 657709--658185 Score: 589
Period size: 248 Copynumber: 1.9 Consensus size: 244
657699 ACACATCATT
*
657709 TACAGCATAACTCAAGGCTAGAAGGGTTATTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCA
1 TACAGCATAACTCAAGGCTAGAAGGATTATTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCA
* * *
657774 GCTCCAAGGCATATCATTTACAACATAACTTAAGTCGAGAAGGGTTATCTACCAACCAAAGACCT
66 GCTCCAAGGCACATCATTTACAACATAACTTAAGTCGAGAAGGATTATCT---AACCAAAGACCC
* * * * * * *
657839 TCGAGTTCGACTACGCTCAGTTCTAAGGCACATCATTTGCAGCATAACTTAAATCGAGAAGGGTT
128 TCAAGTTCGACTACACTCAGTTCGAAGGAACATCATTTACAGCATAACTCAAAGCGAGAAGGGTT
*
657904 ATCTGCCAAAGACCCTCAAGTTCGATTACACTCACTTTGAGGGTACATTATC
193 ATCTGCCAAAGACCCTCAAGTTCGACTACACTCACTTTGAGGGTACATTATC
* * * *
657956 TACAGTATAACTCAAGGCTATAAGGATTATATGTCTCCAAAATACCTTCGAGTTCGACTACGCTC
1 TACAGCATAACTCAAGGCTAGAAGGATTAT-TGTCACCAAAAGACCTTCGAGTTCGACTACGCTC
* * * * *
658021 AGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAATGATTAT-T-GCCAAAGACCCTC
65 AGCTCCAAGGCACATCATTTACAACATAACTTAAGTCGAGAAGGATTATCTAACCAAAGACCCTC
* * * * *
658084 AAGTTCGATTACACTCAGTTTCGAGGGAACATCATTTACAGCATAACTCAAGGCTAGAGAGGTTT
130 AAGTTCGACTACACTCAG-TTCGAAGGAACATCATTTACAGCATAACTCAAAGCGAGA-AGGGTT
* * * *
658149 ATCTATCTCCAAAGACCTTCGAGTTCGACTACGCTCA
193 ATC--T-GCCAAAGACCCTCAAGTTCGACTACACTCA
658186 GCTCCAAGGC
Statistics
Matches: 194, Mismatches: 30, Indels: 11
0.83 0.13 0.05
Matches are distributed among these distances:
243 26 0.13
244 31 0.16
245 8 0.04
247 29 0.15
248 100 0.52
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (244 bp):
TACAGCATAACTCAAGGCTAGAAGGATTATTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCA
GCTCCAAGGCACATCATTTACAACATAACTTAAGTCGAGAAGGATTATCTAACCAAAGACCCTCA
AGTTCGACTACACTCAGTTCGAAGGAACATCATTTACAGCATAACTCAAAGCGAGAAGGGTTATC
TGCCAAAGACCCTCAAGTTCGACTACACTCACTTTGAGGGTACATTATC
Found at i:658272 original size:165 final size:163
Alignment explanation
Indices: 657644--658981 Score: 1222
Period size: 165 Copynumber: 8.1 Consensus size: 163
657634 GCTTAAATCG
** *
657644 AGAAGGGTTATCTGCCATCCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGACACATCATT
1 AGAAGGGTTATCTATC-TCCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* * * * * * * *
657709 TACAGCATAACTCAAGGCTAGAAGGGTTAT-TGTCACCAAAAGACCTTCGAGTTCGACTACGCTC
65 TGCAGCATAACTTAAGTCGAGAAGGGTTATCTG---CC-AAAGACCCTCAAGTTCGATTACACTC
* * * * * * * *
657773 AGCTCCAAGGCATATCATTTACAACATAACTTAAGTCG
126 AGTTCGAGGGCACATCATTTACAGCATAACTCAAGGCT
* * * *
657811 AGAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCGACTACGCTCAGTTCTAAGGCACATCATT
1 AGAAGGGTTATCTATC-TCCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* *
657876 TGCAGCATAACTTAAATCGAGAAGGGTTATCTGCCAAAGACCCTCAAGTTCGATTACACTCACTT
65 TGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGTT
* * * * *
657941 TGAGGGTACATTATCTACAGTATAACTCAAGGCT
130 CGAGGGCACATCATTTACAGCATAACTCAAGGCT
* * * * *
657975 ATAAGGATTATATGTCTCCAAAATACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
1 AGAAGGGTTATCTATCTCC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* * *
658040 TGCAGCATAGCTTAAGTCGAGAATGATTAT-TGCCAAAGACCCTCAAGTTCGATTACACTCAGTT
65 TGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAG-T
*
658104 TCGAGGGAACATCATTTACAGCATAACTCAAGGCT
129 TCGAGGGCACATCATTTACAGCATAACTCAAGGCT
*
658139 AGAGAGGTTTATCTATCTCCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
1 AGA-AGGGTTATCTATCTCCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* * * * *
658204 TGTAGCATAGCTTAAGTCTAGAAGGGCTATCTACCAAAGACCCTCAAGTTCGATTACACTCAGTT
65 TGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAG-T
*
658269 TCGAGGGTACATCATTT--A-CATAACTCAAGGCT
129 TCGAGGGCACATCATTTACAGCATAACTCAAGGCT
* * * ** *
658301 GGAGGGGTTATCTATCTCCAAAAGACCTTCGAGTTTGACTACGCTCAGCTTTAAGGCATATCATT
1 AGAAGGGTTATCTATCTCC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* * * * * * *
658366 TGCAGCATAACTTAAGTCGAGTAGGGTTATCTGCCAACCAAATACCTTCGAGTTCGACTACGCTA
65 TGCAGCATAACTTAAGTCGAGAAGGGTTATCTG----CCAAAGACCCTCAAGTTCGATTACACTC
* * * * * * * *
658431 AGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
126 AGTTCGAGGGCACATCATTTACAGCATAACTCAAGGCT
* * ** * * * *
658469 AGAAGGGTTATCTA---CCAAAGACCCTCAAGTTCGGTTACACTCAGATTCGAGGGCACATCATT
1 AGAAGGGTTATCTATCTCCAAAGACCTTCGAGTTCGACTACGCTCAG-CTCCAAGGCACATCATT
* * * * * * * ** * *
658531 TACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCTCTAAAAGACCTTCGAGGTAAACTACGCTC
65 TGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-C-C--AAAGACCCTCAAGTTCGATTACACTC
* * * * * * *
658596 AGCTCCAAGGCATATCATTTGCAGCATAACTTAA-GTT
126 AGTTCGAGGGCACATCATTTACAGCATAACTCAAGGCT
* * * * * *
658633 GAGAAGGGTTATCTACCAACGAAAGACCTTCGAGTTGGATTATGCTCAGCTCCAAGGCACATCAT
1 -AGAAGGGTTATCTATC-TCCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCAT
* * * **** *
658698 ATGCAGCATAGCTTAAGTTGAGAAAAACTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGC
64 TTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAG-
*
658763 TTCGAGGGCACATTATTTACAGCATAACTCAAAGG-T
128 TTCGAGGGCACATCATTTACAGCATAACTC-AAGGCT
* * *
658799 AGAAGGGTTATCTATCACCAAAAGACCTTTGAGTTCGACTTCGCTCAGCTCCAAGGCACATCATT
1 AGAAGGGTTATCTATCTCC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* * *
658864 TGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCGGAGACCTTCAAGTTCGATTACATTC
65 TGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAA----AGACCCTCAAGTTCGATTACACTC
* ** * * *
658929 AGCTC-AGAGGCAAACAAAATTTAAAGAATAACTCAAGGCA
126 AGTTCGAG-GGC--ACATCATTTACAGCATAACTCAAGGCT
*
658969 AGAAAGGTTATCT
1 AGAAGGGTTATCT
658982 GTCAATATAT
Statistics
Matches: 965, Mismatches: 172, Indels: 65
0.80 0.14 0.05
Matches are distributed among these distances:
161 14 0.01
162 85 0.09
163 35 0.04
164 273 0.28
165 296 0.31
166 28 0.03
167 90 0.09
168 65 0.07
169 50 0.05
170 29 0.03
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (163 bp):
AGAAGGGTTATCTATCTCCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
GCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGTTC
GAGGGCACATCATTTACAGCATAACTCAAGGCT
Found at i:658933 original size:249 final size:247
Alignment explanation
Indices: 657621--658920 Score: 1241
Period size: 249 Copynumber: 5.2 Consensus size: 247
657611 TTTAAATAAA
* * *
657621 CATTTGCAGCATAGCTTAAATCGAGAAGGGTTATCTGCCATCCAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
* * * * * * *
657686 GCTCAGCTCCAAGACACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATTGTCACCAAAAG
66 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAA-GTTAGAAGGGCTA-TCT-ACC-AAAG
* * * * * * * *
657751 ACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCATATCATTTACAACATAACTTAA-GTCGAGA
127 ACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGT--AGA
* * *
657814 AGGGTTATCTACCAACC-AAAGACCTTCGAGTTCGACTACGCTCAGTTCTAAGGCACAT
190 AGGGTTATCTATC-ACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
* * * *
657872 CATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTG----CCAAAGACCCTCAAGTTCGATTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
* ** * * * * * * * * * * **
657933 ACTCA-CTTTGAGGGTACATTATCTACAGTATAACTCAAGGCTATAAGGATTATATGTCT-CCAA
66 GCTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAA-GTTAGAAGG--GCTA--TCTACC-A
* * * * * * * * * *
657996 AATACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAA-GTCG
124 AAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGTAG
** * ** * * * * * * * *
658059 -AGAATGAT-TATTGCC-AAAGACCCTCAAGTTCGATTACACTCAGTTTCGAGGGAACAT
189 AAGGGTTATCTATCACCAAAAGACCTTCGAGTTCGACTACGCTCAG-CTCCAAGGCACAT
* * * * * ** *
658116 CATTTACAGCATAACTCAAGGCTAGAGAGGTTTATCTATC-TCCAAAGACCTTCGAGTTCGACTA
1 CATTTGCAGCATAACTTAAGTCGAGA-AGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTA
*
658180 CGCTCAGCTCCAAGGCACATCATTTGTAGCATAGCTTAAGTCTAGAAGGGCTATCTACCAAAGAC
65 CGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGT-TAGAAGGGCTATCTACCAAAGAC
* * * * *
658245 CCTCAAGTTCGATTACACTCAGTTTCGAGGGTACATCATTT--A-CATAACTCAAGGCTGGAGGG
129 CCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGG-TAGAAGG
* * ** *
658307 GTTATCTATCTCCAAAAGACCTTCGAGTTTGACTACGCTCAGCTTTAAGGCATAT
193 GTTATCTATCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
* *
658362 CATTTGCAGCATAACTTAAGTCGAGTAGGGTTATCTGCCAACCAAATACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
* * *
658427 GCTAAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTACCAAAGACC
66 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGT-TAGAAGGGCTATCTACCAAAGACC
* * *
658492 CTCAAGTTCGGTTACACTCAGATTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGG
130 CTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGG-TAGAAGGG
* * * * ** *
658557 TTATCTGTCTCTAAAAGACCTTCGAGGTAAACTACGCTCAGCTCCAAGGCATAT
194 TTATCTATCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
* * * * * *
658611 CATTTGCAGCATAACTTAAGTTGAGAAGGGTTATCTACCAACGAAAGACCTTCGAGTTGGATTAT
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
* *** *
658676 GCTCAGCTCCAAGGCACATCATATGCAGCATAGCTTAAGTTGAGAAAAACTATCTGCCAAAGACC
66 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTT-AGAAGGGCTATCTACCAAAGACC
*
658741 CTCGAGTTCGATTACACTCAGCTTCGAGGGCACATTATTTACAGCATAACTCAAAGGTAGAAGGG
130 CTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTC-AAGGTAGAAGGG
* *
658806 TTATCTATCACCAAAAGACCTTTGAGTTCGACTTCGCTCAGCTCCAAGGCACAT
194 TTATCTATCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
* ** *
658860 CATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCGGAGACCTTCAAGTTCGA
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGA
658921 TTACATTCAG
Statistics
Matches: 870, Mismatches: 155, Indels: 50
0.81 0.14 0.05
Matches are distributed among these distances:
242 8 0.01
243 28 0.03
244 61 0.07
245 44 0.05
246 158 0.18
247 81 0.09
248 112 0.13
249 336 0.39
250 6 0.01
251 36 0.04
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (247 bp):
CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTTAGAAGGGCTATCTACCAAAGACCC
TCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGTAGAAGGGTT
ATCTATCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
Found at i:659529 original size:37 final size:37
Alignment explanation
Indices: 659483--659590 Score: 189
Period size: 37 Copynumber: 2.9 Consensus size: 37
659473 AACATAACGT
*
659483 TAGAATTTTACTAGGATTCAAACTCCTAAAAATATGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATATGA
659520 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATATGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATATGA
* *
659557 TAGAGTTCTACTATGATTCAAACTCCTAAAAATA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATA
659591 GGATCCACAA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (37 bp):
TAGAGTTTTACTAGGATTCAAACTCCTAAAAATATGA
Found at i:660155 original size:2 final size:2
Alignment explanation
Indices: 660148--660187 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
660138 TTTAGATTAC
660148 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
660188 TTTATTTTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:660218 original size:35 final size:35
Alignment explanation
Indices: 660177--660257 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 35
660167 TATATATATA
660177 TATATATATATTT-TATTTTTATATCTATTTATTAAT
1 TATATATATATTTATATTTTTATAT-T-TTTATTAAT
* *
660213 T-TATATATATTTACTATTTTTATGTTTTTATTTAT
1 TATATATATATTTA-TATTTTTATATTTTTATTAAT
660248 TATATATATA
1 TATATATATA
660258 CATATATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
35 20 0.50
36 10 0.25
37 10 0.25
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.64
Consensus pattern (35 bp):
TATATATATATTTATATTTTTATATTTTTATTAAT
Found at i:670586 original size:30 final size:30
Alignment explanation
Indices: 670550--670609 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
670540 TACAGTGACA
* *
670550 CCATAGGTCTCCATGAGCACATGGCGACCT
1 CCATAGGTCTCCAGGAGCACACGGCGACCT
670580 CCATAGGTCTCCAGGAGCACACGGCGACCT
1 CCATAGGTCTCCAGGAGCACACGGCGACCT
670610 ATGGAGCACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.23, C:0.35, G:0.25, T:0.17
Consensus pattern (30 bp):
CCATAGGTCTCCAGGAGCACACGGCGACCT
Found at i:670705 original size:30 final size:30
Alignment explanation
Indices: 670664--670728 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
670654 TTGCTACAGT
* * *
670664 GACCACCATAGGTCTCCATGAGCACATGGC
1 GACCTCCATAGGTCTCCAGGAGCACACGGC
670694 GACCTCCATAGGTCTCCAGGAGCACACGGC
1 GACCTCCATAGGTCTCCAGGAGCACACGGC
670724 GACCT
1 GACCT
670729 ATGGAGCACT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.25, C:0.35, G:0.25, T:0.15
Consensus pattern (30 bp):
GACCTCCATAGGTCTCCAGGAGCACACGGC
Found at i:670715 original size:119 final size:118
Alignment explanation
Indices: 670505--670741 Score: 465
Period size: 119 Copynumber: 2.0 Consensus size: 118
670495 CACATAGTGC
670505 AGTCGAACAATTATTTGCTTAAATATGATGATTGCTACAGTGACACCATAGGTCTCCATGAGCAC
1 AGTCGAACAATTATTTGCTTAAATATGATGATTGCTACAGTGACACCATAGGTCTCCATGAGCAC
670570 ATGGCGACCTCCATAGGTCTCCAGGAGCACACGGCGACCTATGGAGCACTTGG
66 ATGGCGACCTCCATAGGTCTCCAGGAGCACACGGCGACCTATGGAGCACTTGG
670623 AGTCGAACAATTATTTGCTTAAATATGATGATTGCTACAGTGACCACCATAGGTCTCCATGAGCA
1 AGTCGAACAATTATTTGCTTAAATATGATGATTGCTACAGTGA-CACCATAGGTCTCCATGAGCA
670688 CATGGCGACCTCCATAGGTCTCCAGGAGCACACGGCGACCTATGGAGCACTTGG
65 CATGGCGACCTCCATAGGTCTCCAGGAGCACACGGCGACCTATGGAGCACTTGG
670742 TGACCTATGG
Statistics
Matches: 118, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
118 43 0.36
119 75 0.64
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.24
Consensus pattern (118 bp):
AGTCGAACAATTATTTGCTTAAATATGATGATTGCTACAGTGACACCATAGGTCTCCATGAGCAC
ATGGCGACCTCCATAGGTCTCCAGGAGCACACGGCGACCTATGGAGCACTTGG
Found at i:670736 original size:19 final size:19
Alignment explanation
Indices: 670712--670754 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
670702 TAGGTCTCCA
670712 GGAGCACACGGCGACCTAT
1 GGAGCACACGGCGACCTAT
** *
670731 GGAGCACTTGGTGACCTAT
1 GGAGCACACGGCGACCTAT
670750 GGAGC
1 GGAGC
670755 TGCAACAGTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.23, C:0.26, G:0.35, T:0.16
Consensus pattern (19 bp):
GGAGCACACGGCGACCTAT
Found at i:680704 original size:6 final size:6
Alignment explanation
Indices: 680693--680719 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
680683 GAAAGAGCCA
680693 GAAGAT GAAGAT GAAGAT GAAGAT GAA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAA
680720 TACCCATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.33, T:0.15
Consensus pattern (6 bp):
GAAGAT
Found at i:681097 original size:31 final size:30
Alignment explanation
Indices: 681062--681128 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 30
681052 TCGCAAATGT
*
681062 TAGATAACAA-AACAAATAAATAAATATTTAA
1 TAGATAACAAGAACAAATAAA-AAATA-ATAA
*
681093 TAGAT-CCAAGAACAAATAAAAAATAATAA
1 TAGATAACAAGAACAAATAAAAAATAATAA
681122 TAGATAA
1 TAGATAA
681129 ATAAAATACT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
29 8 0.26
30 8 0.26
31 15 0.48
ACGTcount: A:0.64, C:0.07, G:0.06, T:0.22
Consensus pattern (30 bp):
TAGATAACAAGAACAAATAAAAAATAATAA
Found at i:681323 original size:19 final size:20
Alignment explanation
Indices: 681281--681323 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
681271 AATGATAATG
* **
681281 AAAATAAAGTAAAAAAATCC
1 AAAATAAAGAAAAAAAATAA
681301 AAAAT-AAGAAAAAAAATAA
1 AAAATAAAGAAAAAAAATAA
681320 AAAA
1 AAAA
681324 AAATGGGTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.79, C:0.05, G:0.05, T:0.12
Consensus pattern (20 bp):
AAAATAAAGAAAAAAAATAA
Found at i:681874 original size:20 final size:21
Alignment explanation
Indices: 681832--681875 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
681822 CTAGAAAGGC
* *
681832 GAGACCTTTACCGTTCTTTGGT
1 GAGACCTTTA-CGGTCTTCGGT
681854 GAGACCTTT-CGGTCTTCGGT
1 GAGACCTTTACGGTCTTCGGT
681874 GA
1 GA
681876 CTTTCCTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 11 0.55
22 9 0.45
ACGTcount: A:0.14, C:0.23, G:0.27, T:0.36
Consensus pattern (21 bp):
GAGACCTTTACGGTCTTCGGT
Found at i:682698 original size:18 final size:17
Alignment explanation
Indices: 682671--682723 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 17
682661 AAACGGGAAA
682671 AAATAAAATAAAATAAGT
1 AAATAAAATAAAATAA-T
682689 -AATCAAAATAATAATAAT
1 AAAT-AAAATAA-AATAAT
682707 AAATAAAATAAATATAA
1 AAATAAAATAAA-ATAA
682724 AAACTATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 4 0.13
18 19 0.61
19 8 0.26
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (17 bp):
AAATAAAATAAAATAAT
Found at i:682846 original size:31 final size:31
Alignment explanation
Indices: 682779--682874 Score: 120
Period size: 31 Copynumber: 3.0 Consensus size: 31
682769 CTATATACTA
682779 TATATAAATTTTCAAAAATGCAATTTTTAAAAAAC
1 TATAT-AATTTTCAAAAATG---TTTTTAAAAAAC
** *
682814 TATATAATTTTCAAAAATGTTTTTTTATAAC
1 TATATAATTTTCAAAAATGTTTTTAAAAAAC
*
682845 TATATAATTTTTAAAAATGTTTTTAAAAAA
1 TATATAATTTTCAAAAATGTTTTTAAAAAA
682875 AAATTATATA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
31 35 0.65
34 14 0.26
35 5 0.09
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (31 bp):
TATATAATTTTCAAAAATGTTTTTAAAAAAC
Found at i:682900 original size:75 final size:75
Alignment explanation
Indices: 682821--682985 Score: 273
Period size: 75 Copynumber: 2.2 Consensus size: 75
682811 AACTATATAA
682821 TTTTCAAAAATGT-TTTTTTATAACTATATAATTTTTAAAAATGTTTTTAAAAAAAAATTATATA
1 TTTTCAAAAATGTCTTTTTTATAACTATATAATTTTTAAAAATGTTTTT-AAAAAAAATTATATA
682885 TTATATATTGG
65 TTATATATTGG
***
682896 TTTTCAAAAAT-TCTTTTTTATAACTATATAATTTTTAAAAATGTTTTTTTTAAAAATTATATAT
1 TTTTCAAAAATGTCTTTTTTATAACTATATAATTTTTAAAAATGTTTTTAAAAAAAATTATATAT
682960 TATATATTGG
66 TATATATTGG
682970 TTTTCAAAAATG-CTTT
1 TTTTCAAAAATGTCTTT
682986 AAAAATTATA
Statistics
Matches: 85, Mismatches: 3, Indels: 5
0.91 0.03 0.05
Matches are distributed among these distances:
74 39 0.46
75 46 0.54
ACGTcount: A:0.39, C:0.04, G:0.05, T:0.52
Consensus pattern (75 bp):
TTTTCAAAAATGTCTTTTTTATAACTATATAATTTTTAAAAATGTTTTTAAAAAAAATTATATAT
TATATATTGG
Found at i:682987 original size:39 final size:38
Alignment explanation
Indices: 682873--683082 Score: 152
Period size: 39 Copynumber: 5.5 Consensus size: 38
682863 GTTTTTAAAA
*
682873 AAAAATTATATATTATATATTGGTTTTCAAAAATTCTTT
1 AAAAATTATATATTATATATT-GTTTTCAAAAATGCTTT
* * * *
682912 ----TTTATA-ACTATATAAT-TTTT-AAAAATGTTTTTTTT
1 AAAAATTATATATTATATATTGTTTTCAAAAATG----CTTT
682947 AAAAATTATATATTATATATTGGTTTTCAAAAATGCTTT
1 AAAAATTATATATTATATATT-GTTTTCAAAAATGCTTT
* *
682986 AAAAATTATATATTATATA-TGTTTT-TAAAATGTATTT
1 AAAAATTATATATTATATATTGTTTTCAAAAATG-CTTT
* * *
683023 CAAAAATTATATATTATATACTTATTTTC-AAAACGTTTT
1 -AAAAATTATATATTATATA-TTGTTTTCAAAAATGCTTT
* *
683062 AAAAAACTATATAATATATAT
1 -AAAAATTATATATTATATAT
683083 ATATATATAT
Statistics
Matches: 137, Mismatches: 17, Indels: 35
0.72 0.09 0.19
Matches are distributed among these distances:
31 6 0.04
32 4 0.03
34 8 0.06
35 8 0.06
36 6 0.04
37 8 0.06
38 21 0.15
39 47 0.34
40 18 0.13
42 4 0.03
43 7 0.05
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.49
Consensus pattern (38 bp):
AAAAATTATATATTATATATTGTTTTCAAAAATGCTTT
Found at i:682998 original size:74 final size:76
Alignment explanation
Indices: 682842--683055 Score: 226
Period size: 74 Copynumber: 2.8 Consensus size: 76
682832 GTTTTTTTAT
**
682842 AACTATATAATTTTTAAAAATGTTTTTAAAAAAAAATTATATATTATATATTGGTTTTCAAAAAT
1 AACTATATAATTTTTAAAAATGTTTTT-TTAAAAAATTATATATTATATATTGGTTTTCAAAAAT
* *
682907 TCTTT---TTTA
65 GCTTTAAAATTA
*
682916 TAACTATATAATTTTTAAAAATGTTTTTTTTAAAAATTATATATTATATATTGGTTTTCAAAAAT
1 -AACTATATAATTTTTAAAAATGTTTTTTTAAAAAATTATATATTATATATTGGTTTTCAAAAAT
682981 GCTTTAAAAATTA
65 GCTTT-AAAATTA
* * * * *
682994 TA-TATTATATATGTTTTTAAAATG--TATTTCAAAAATTATATATTATATACTT-ATTTTCAAA
1 AACTA-TATA-AT-TTTTAAAAATGTTTTTTTAAAAAATTATATATTATATA-TTGGTTTTCAAA
683055 A
62 A
683056 CGTTTTAAAA
Statistics
Matches: 121, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
74 38 0.31
75 27 0.22
76 2 0.02
77 37 0.31
78 7 0.06
79 10 0.08
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (76 bp):
AACTATATAATTTTTAAAAATGTTTTTTTAAAAAATTATATATTATATATTGGTTTTCAAAAATG
CTTTAAAATTA
Found at i:683010 original size:37 final size:38
Alignment explanation
Indices: 682920--683166 Score: 191
Period size: 37 Copynumber: 6.2 Consensus size: 38
682910 TTTTTATAAC
* *
682920 TATATA-ATTTTTAAAAATGTTTTTTTTAAAAATTATATAT
1 TATATATATTTTCAAAAATG---TTTTCAAAAATTATATAT
* *
682960 TATATATTGGTTTTCAAAAATGCTTT-AAAAATTATATAT
1 TATATA-T-ATTTTCAAAAATGTTTTCAAAAATTATATAT
* *
682999 TATATATGTTTT-TAAAATGTATTTCAAAAATTATATAT
1 TATATATATTTTCAAAAATGT-TTTCAAAAATTATATAT
* *
683037 TATATACTTATTTTC-AAAACGTTTTAAAAAACTATATAATAT
1 TATATA--TATTTTCAAAAATGTTTTCAAAAA-T-TAT-ATAT
* * *
683079 ATATATATATATATACAAGAAACCGTTTTC-AAACTTATATAT
1 -TATATATAT-T-TTCAA-AAA-TGTTTTCAAAAATTATATAT
* *
683121 TATATATATTTT-AAAAATGTTTTCAAAAACTATATAA
1 TATATATATTTTCAAAAATGTTTTCAAAAATTATATAT
683158 TATATATAT
1 TATATATAT
683167 AGTTTCGAAC
Statistics
Matches: 173, Mismatches: 16, Indels: 39
0.76 0.07 0.17
Matches are distributed among these distances:
36 12 0.07
37 29 0.17
38 22 0.13
39 28 0.16
40 22 0.13
41 15 0.09
42 9 0.05
43 22 0.13
44 2 0.01
45 6 0.03
46 6 0.03
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (38 bp):
TATATATATTTTCAAAAATGTTTTCAAAAATTATATAT
Found at i:683054 original size:77 final size:77
Alignment explanation
Indices: 682839--683082 Score: 229
Period size: 77 Copynumber: 3.2 Consensus size: 77
682829 AATGTTTTTT
*
682839 TATAACTATATAATTTTTAAAAATGTT-TTTAAAAAAAAATTATATATTATATATTGGTTTTCAA
1 TATAA-TATAT-ATTTTTAAAAATGTTATTT---CAAAAATTATATATTATATATTGGTTTTCAA
*
682903 AAATTCTTT-----TT-
61 AAATGCTTTAAAAATTA
* *
682914 TATAACTATATAATTTTTAAAAATGTTTTTTTTAAAAATTATATATTATATATTGGTTTTCAAAA
1 TATAA-TATAT-ATTTTTAAAAATG-TTATTTCAAAAATTATATATTATATATTGGTTTTCAAAA
682979 ATGCTTTAAAAATTA
63 ATGCTTTAAAAATTA
* * *
682994 TATATTATATATGTTTTTAAAATG-TATTTCAAAAATTATATATTATATACTT-ATTTTC-AAAA
1 TATAATATATAT-TTTTAAAAATGTTATTTCAAAAATTATATATTATATA-TTGGTTTTCAAAAA
* * *
683056 CGTTTTAAAAAACTA
64 TGCTTT-AAAAATTA
683071 TATAATATATAT
1 TATAATATATAT
683083 ATATATATAT
Statistics
Matches: 147, Mismatches: 11, Indels: 20
0.83 0.06 0.11
Matches are distributed among these distances:
74 38 0.26
75 25 0.17
76 10 0.07
77 49 0.33
78 4 0.03
79 17 0.12
80 4 0.03
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.48
Consensus pattern (77 bp):
TATAATATATATTTTTAAAAATGTTATTTCAAAAATTATATATTATATATTGGTTTTCAAAAATG
CTTTAAAAATTA
Found at i:683164 original size:39 final size:39
Alignment explanation
Indices: 682914--683167 Score: 161
Period size: 39 Copynumber: 6.4 Consensus size: 39
682904 AATTCTTTTT
* *
682914 TATAACTATATA-AT-TTTTAAAAATGTTTTTTTTAAAAATTA
1 TATAA-TATATATATATTTTAAAAATG---TTTTCAAAAACTA
* * * *
682955 TATATTATATAT-TGGTTTTCAAAAATGCTTT-AAAAATTA
1 TATAATATATATAT-ATTTT-AAAAATGTTTTCAAAAACTA
* * *
682994 TAT-AT-TATATATGTTTTTAAAATGTATTTCAAAAATTA
1 TATAATATATATATATTTTAAAAATGT-TTTCAAAAACTA
* * * *
683032 TATATTATATACT-TATTTTCAAAACGTTTTAAAAAACTA
1 TATAATATATA-TATATTTTAAAAATGTTTTCAAAAACTA
*
683071 TATAATATATATATATATATATACAAGAAACCGTTTTC--AAACT-
1 TATAATATATATATAT-T-T-T--AA-AAA-TGTTTTCAAAAACTA
683114 TAT-ATATTATATATATTTTAAAAATGTTTTCAAAAACTA
1 TATAATA-TATATATATTTTAAAAATGTTTTCAAAAACTA
683153 TATAATATATATATA
1 TATAATATATATATA
683168 GTTTCGAACA
Statistics
Matches: 175, Mismatches: 15, Indels: 48
0.74 0.06 0.20
Matches are distributed among these distances:
36 12 0.07
37 16 0.09
38 21 0.12
39 46 0.26
40 30 0.17
41 7 0.04
42 9 0.05
43 19 0.11
44 6 0.03
45 3 0.02
46 6 0.03
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (39 bp):
TATAATATATATATATTTTAAAAATGTTTTCAAAAACTA
Found at i:684256 original size:84 final size:83
Alignment explanation
Indices: 683793--684783 Score: 850
Period size: 84 Copynumber: 11.9 Consensus size: 83
683783 GAACTCATGA
* * * * *
683793 CAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGGTTTGCCTCTG-AGCTGAGTGTAATC
1 CAGATAACCCTTCTCGACTTGAGCTATGCTGCAAA--TGATGTGCCT-TGAAGCTGAGTGTAATC
*
683857 GAACTCGAAGG--TAT-TTGG
63 GAACTCGAAGGTCTTTGTTGG
* * * * * * *
683875 CAGATAGCCCTTCTAGCCTTGAGCTATACCGTAAATGATATGCCGTTG-AGCTGAGTGTAATCGA
1 CAGATAACCCTTCTCGACTTGAGCTATGCTGCAAATGATGTGCC-TTGAAGCTGAGTGTAATCGA
*
683939 ACTCAAAGGTCTTTGTTGG
65 ACTCGAAGGTCTTTGTTGG
* * * * *
683958 CAGATAACCCTTCTAGCCTTGAGTTATGCTACAAATGATGTGTCCTCGAAGCTGAGTGTAATCGA
1 CAGATAACCCTTCTCGACTTGAGCTATGCTGCAAATGATGTG-CCTTGAAGCTGAGTGTAATCGA
*
684023 A--CGAGGGTC--T-TTGG
65 ACTCGAAGGTCTTTGTTGG
* * * * * * *
684037 CAGATAGCCCTTCTAGCCTTGAGCTATACCGCAAATGACGTGCCGTTG-AGCTAAGTGTAATCGA
1 CAGATAACCCTTCTCGACTTGAGCTATGCTGCAAATGATGTGCC-TTGAAGCTGAGTGTAATCGA
*
684101 ACTCAAAGGTCTTTGTTGG
65 ACTCGAAGGTCTTTGTTGG
* * * * * ** *
684120 CAGACAACCCTTCTAGCCTTGAGTTATGCTGAAAATGATGTGCCCTCAAAGCTGAGTGTAATCAA
1 CAGATAACCCTTCTCGACTTGAGCTATGCTGCAAATGATGTG-CCTTGAAGCTGAGTGTAATCGA
*
684185 ACTCGAATGTCTTTGGTTGG
65 ACTCGAAGGTCTTT-GTTGG
* * * * * * *
684205 CAGATAGCCCTTTTCGACTTAAGCTATACTGCAAATGATGTGCCTTTAAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTCGACTTGAGCTATGCTGCAAATGATGTGCCTTGAAGCTGAGTGTAATCGAA
*
684270 CTCGAAGGTCTTT-TAATGA
66 CTCGAAGGTCTTTGT--TGG
* * * * *
684289 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCTCTCGAAGCTGAGTGTAATCGA
1 CAGATAACCCTTCTCGACTTGAGCTATGCTGCAAATGATGTGC-CTTGAAGCTGAGTGTAATCGA
* * *
684354 ACTCGAGGGTGGGTCT-TTGG
65 ACTCGAAGGT--CTTTGTTGG
* * * ** *
684374 TAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAACGTAGTCGAA
1 CAGATAACCCTTCTCGACTTGAGCTATGCTGCAAATGATGTGCCTTGAAGCTGAGTGTAATCGAA
*
684439 CTCGAAGGTATTTGGTTGG
66 CTCGAAGGTCTTT-GTTGG
* * * * *
684458 CAGATAACCCTTCTCGACTTAAGTTATGTTGCAAATGATATGCCCTCGAAGCTGAGTGTAATCGA
1 CAGATAACCCTTCTCGACTTGAGCTATGCTGCAAATGATGTG-CCTTGAAGCTGAGTGTAATCGA
* *
684523 ACTTGAGGGTC--T-TTGG
65 ACTCGAAGGTCTTTGTTGG
* * * * *
684539 CAGATAGCCCTTCTCGACTTAAACTATGCTGCAAATGATGTGCCTT-ACAGCTGAGCGTAGTCGA
1 CAGATAACCCTTCTCGACTTGAGCTATGCTGCAAATGATGTGCCTTGA-AGCTGAGTGTAATCGA
*
684603 ACTCGAAGGTATTTGGTTGG
65 ACTCGAAGGTCTTT-GTTGG
** * * * * * * * *
684623 CAGATAACTATTCTCGACTTAAGTTATGCTACAAATGATATGCCTTGGAGCTGAGCGTAGTCAAA
1 CAGATAACCCTTCTCGACTTGAGCTATGCTGCAAATGATGTGCCTTGAAGCTGAGTGTAATCGAA
*
684688 CTTGAAGGTCTTT-TAGTGG
66 CTCGAAGGTCTTTGT--TGG
** * * * *
684707 CAGATAACCCTT-TTAACCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGTTGAGCGTAGTCGA
1 CAGATAACCCTTCTCGA-CTTGAGCTATGCTGCAAATGATGTGCCTTGAAGCTGAGTGTAATCGA
*
684771 AATCGAAGGTCTT
65 ACTCGAAGGTCTT
684784 GGCTGACTGA
Statistics
Matches: 745, Mismatches: 132, Indels: 62
0.79 0.14 0.07
Matches are distributed among these distances:
78 18 0.02
79 43 0.06
80 65 0.09
81 42 0.06
82 46 0.06
83 84 0.11
84 316 0.42
85 128 0.17
87 3 0.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.30
Consensus pattern (83 bp):
CAGATAACCCTTCTCGACTTGAGCTATGCTGCAAATGATGTGCCTTGAAGCTGAGTGTAATCGAA
CTCGAAGGTCTTTGTTGG
Found at i:684348 original size:169 final size:163
Alignment explanation
Indices: 683793--684783 Score: 997
Period size: 169 Copynumber: 6.0 Consensus size: 163
683783 GAACTCATGA
* * * * * *
683793 CAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGGTTTGCCTCTG-AGCTGAGTGTAATC
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAA--TGATGTGCCTC-GAAGCTGAGTGTAATC
* * * * * * * *
683857 GAACTCGAAGGT-ATTTGGCAGATAGCCCTTCTAGCCTTGAGCTATACCGTAAATGATATGCCGT
63 GAACTCGAAGGTCTTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTT
* * *
683921 TGAGCTGAGTGTAATCGAACTCAAAGGTCTTTGTTGG
128 TGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-TTGG
*
683958 CAGATAACCCTTCTAGCCTTGAGTTATGCTACAAATGATGTGTCCTCGAAGCTGAGTGTAATCGA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTG-CCTCGAAGCTGAGTGTAATCGA
* * * * * * *
684023 A--CGAGGGTC-TTTGGCAGATAGCCCTTCTAGCCTTGAGCTATACCGCAAATGACGTGCCGTTG
65 ACTCGAAGGTCTTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTTG
* * * *
684085 AGCTAAGTGTAATCGAACTCAAAGGTCTTTGTTGG
130 AGCTGAGCGTAGTCGAACTCGAAGGTCTTT-TTGG
* * * *
684120 CAGACAACCCTTCTAGCCTTGAGTTATGCTGAAAATGATGTGCCCTCAAAGCTGAGTGTAATCAA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTG-CCTCGAAGCTGAGTGTAATCGA
* *
684185 ACTCGAATGTCTTTGGTTGGCAGATAGCCCTTTTCGACTTAAGCTATACTGCAAATGATGTGCCT
65 ACTCGAAGGTC-TT--TTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCT
* *
684250 TTAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTAATGA
127 TTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTT--TGG
*
684289 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCTCTCGAAGCTGAGTGTAATCGA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGC-CTCGAAGCTGAGTGTAATCGA
* * * * *
684354 ACTCGAGGGTGGGTCTTTGGTAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCT
65 ACTCGAAGGT--CT-TTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCT
* * *
684419 TGGAGCTGAACGTAGTCGAACTCGAAGGTATTTGGTTGG
127 TTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT--TTGG
* * * * *
684458 CAGATAACCCTTCTCGACTTAAGTTATGTTGCAAATGATATGCCCTCGAAGCTGAGTGTAATCGA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTG-CCTCGAAGCTGAGTGTAATCGA
* * * * **
684523 ACTTGAGGGTC-TTTGGCAGATAGCCCTTCTCGACTTAAACTATGCTGCAAATGATGTGCCTTAC
65 ACTCGAAGGTCTTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTTG
*
684587 AGCTGAGCGTAGTCGAACTCGAAGGTATTTGGTTGG
130 AGCTGAGCGTAGTCGAACTCGAAGGTCTTT--TTGG
** * * * * * * * * * *
684623 CAGATAACTATTCTCGACTTAAGTTATGCTACAAATGATATGCCTTGGAGCTGAGCGTAGTCAAA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTCGAAGCTGAGTGTAATCGAA
* * ** * *
684688 CTTGAAGGTCTTTTAGTGGCAGATAACCCTT-TTAACCTTGAGCTATGCTGCAAATGATGTGCCT
66 CTCGAAGGTC-TTT--TGGCAGATAGCCCTTCTCGA-CTTAAGCTATACTGCAAATGATGTGCCT
* * *
684752 TGGAGTTGAGCGTAGTCGAAATCGAAGGTCTT
127 TTGAGCTGAGCGTAGTCGAACTCGAAGGTCTT
684784 GGCTGACTGA
Statistics
Matches: 720, Mismatches: 83, Indels: 43
0.85 0.10 0.05
Matches are distributed among these distances:
162 150 0.21
163 6 0.01
164 54 0.08
165 151 0.21
166 3 0.00
167 3 0.00
168 138 0.19
169 211 0.29
170 2 0.00
171 2 0.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.30
Consensus pattern (163 bp):
CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTCGAAGCTGAGTGTAATCGAA
CTCGAAGGTCTTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTTGA
GCTGAGCGTAGTCGAACTCGAAGGTCTTTTTGG
Found at i:688268 original size:8 final size:8
Alignment explanation
Indices: 688243--688302 Score: 59
Period size: 8 Copynumber: 7.1 Consensus size: 8
688233 AAAAGAATTG
688243 AATAA-AA
1 AATAATAA
**
688250 AATAAGGA
1 AATAATAA
688258 AATAATAA
1 AATAATAA
688266 AATAATAA
1 AATAATAA
688274 AATAAATAAA
1 AAT-AAT-AA
688284 TAATAATAA
1 -AATAATAA
688293 AATAAATAA
1 AAT-AATAA
688302 A
1 A
688303 CCGAGATAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
7 5 0.11
8 21 0.47
9 11 0.24
10 5 0.11
11 3 0.07
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (8 bp):
AATAATAA
Found at i:688284 original size:24 final size:25
Alignment explanation
Indices: 688152--688302 Score: 75
Period size: 26 Copynumber: 6.0 Consensus size: 25
688142 GAACAAATAA
*
688152 AAATAATAATAATAAATAAAATACTA-
1 AAATAATAATAAT-AATAAAATA-AAG
* *
688178 AAATAATACATGAAAAAT-AAATAAATCA
1 AAATAATA-AT-AATAATAAAATAAA--G
* * *
688206 AAATAA-AGTAGAAAATCAAAAGAAAG
1 AAATAATAATA-ATAAT-AAAATAAAG
* *
688232 AAA-AAGAATTGAATAA-AAAATAAGG
1 AAATAATAA-T-AATAATAAAATAAAG
*
688257 AAATAATAA-AATAATAAAATAAAT
1 AAATAATAATAATAATAAAATAAAG
688281 AAATAATAATAA-AAT-AAATAAA
1 AAATAATAATAATAATAAAATAAA
688303 CCGAGATAAA
Statistics
Matches: 99, Mismatches: 12, Indels: 31
0.70 0.08 0.22
Matches are distributed among these distances:
23 12 0.12
24 19 0.19
25 16 0.16
26 27 0.27
27 10 0.10
28 15 0.15
ACGTcount: A:0.71, C:0.03, G:0.06, T:0.21
Consensus pattern (25 bp):
AAATAATAATAATAATAAAATAAAG
Found at i:688288 original size:19 final size:19
Alignment explanation
Indices: 688266--688302 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
688256 GAAATAATAA
688266 AATAATAAAATAAATAAAT
1 AATAATAAAATAAATAAAT
688285 AATAATAAAATAAATAAA
1 AATAATAAAATAAATAAA
688303 CCGAGATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (19 bp):
AATAATAAAATAAATAAAT
Found at i:689787 original size:3 final size:3
Alignment explanation
Indices: 689779--689836 Score: 107
Period size: 3 Copynumber: 19.0 Consensus size: 3
689769 AATAAAAAAG
689779 TAA TAA TAA TAA TAA TAA TAA TAAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
689825 TAA TAA TAA TAA
1 TAA TAA TAA TAA
689837 ATATAAAAAC
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 51 0.94
4 3 0.06
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:689939 original size:44 final size:44
Alignment explanation
Indices: 689841--689939 Score: 107
Period size: 44 Copynumber: 2.2 Consensus size: 44
689831 TAATAAATAT
* *
689841 AAAAACTATA-TAATATACATGTTTAAAACTGTTTCTTTTTTTAA
1 AAAAACTATATTAATATAAATGTTTAAAAATG-TTCTTTTTTTAA
*
689885 AAATTA-TATATTATATATAAAT-TTTCAAAAATG-TCTTTTTTTAA
1 AAA-AACTATATTA-ATATAAATGTTT-AAAAATGTTCTTTTTTTAA
689929 AAAAACTATAT
1 AAAAACTATAT
689940 AATTTTCAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
43 1 0.02
44 26 0.57
45 6 0.13
46 13 0.28
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.45
Consensus pattern (44 bp):
AAAAACTATATTAATATAAATGTTTAAAAATGTTCTTTTTTTAA
Found at i:690037 original size:39 final size:38
Alignment explanation
Indices: 689988--690207 Score: 191
Period size: 39 Copynumber: 5.6 Consensus size: 38
689978 AAAAATGTTT
*
689988 TTTTAAAAATTATATATTATATATTGGTTTTCAAAAATG
1 TTTTAAAAATTATATATTATATATT-ATTTTCAAAAATG
*
690027 CTTTAAAAATTATATATTATATATGT-TTTT--AAAATG
1 TTTTAAAAATTATATATTATATAT-TATTTTCAAAAATG
690063 TTTTTCAAAAATTATATATTATATACTTATTTTC-AAAATG
1 -TTTT-AAAAATTATATATTATATA-TTATTTTCAAAAATG
* * *
690103 TTTTAAAAAACTATAATATATATATATATATTTCCAAGAAACCG
1 TTTT-AAAAATTAT-ATAT-TATATAT-TATTTTCAA-AAA-TG
* * *
690147 TTTTTAAAATTATATATTATATA-TATTTT-AAAATTA
1 TTTTAAAAATTATATATTATATATTATTTTCAAAAATG
* * *
690183 TTTTCAAAAACTATAAAATATATAT
1 TTTT-AAAAATTATATATTATATAT
690208 AGTTTCGAAA
Statistics
Matches: 151, Mismatches: 16, Indels: 29
0.77 0.08 0.15
Matches are distributed among these distances:
36 10 0.07
37 20 0.13
38 26 0.17
39 45 0.30
40 12 0.08
41 18 0.12
42 5 0.03
43 10 0.07
44 5 0.03
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (38 bp):
TTTTAAAAATTATATATTATATATTATTTTCAAAAATG
Found at i:690078 original size:77 final size:80
Alignment explanation
Indices: 689979--690246 Score: 220
Period size: 77 Copynumber: 3.4 Consensus size: 80
689969 AATTTTTAAA
* * *
689979 AAAATGTTTTTTTAAAAATTATATATTATATA-TTGGTTTTCAAAAATGCTTT-AAAAATTAT-A
1 AAAATGTTTTTTCAAAAATTATATATTATATACTT-ATTTTC-AAAATGCTTTAAAAAACTATAA
690041 TAT-TATATATGTTTTT
64 TATATATATATGTTTTT
*
690057 AAAATG-TTTTTCAAAAATTATATATTATATACTTATTTTCAAAATGTTTTAAAAAACTATAATA
1 AAAATGTTTTTTCAAAAATTATATATTATATACTTATTTTCAAAATGCTTTAAAAAACTATAATA
* *
690121 TATATATATATATTTCCA
66 TATATATATGT-TTT--T
* ** *
690139 AGAAACCG-TTTTT--AAAATTATATATTATATA--TATTTT-AAAATTATTTTCAAAAACTATA
1 A-AAA-TGTTTTTTCAAAAATTATATATTATATACTTATTTTCAAAA-TGCTTTAAAAAACTATA
* **
690198 AAATATATATA-GTTTCG
63 ATATATATATATGTTTTT
* * *
690215 AAAACCGTTTTTT-GAAAATTATACATTATATA
1 AAAA-TGTTTTTTCAAAAATTATATATTATATA
690247 ATTTCAAAAG
Statistics
Matches: 164, Mismatches: 14, Indels: 25
0.81 0.07 0.12
Matches are distributed among these distances:
75 6 0.04
76 15 0.09
77 54 0.33
78 14 0.09
79 13 0.08
80 34 0.21
82 19 0.12
83 3 0.02
84 6 0.04
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (80 bp):
AAAATGTTTTTTCAAAAATTATATATTATATACTTATTTTCAAAATGCTTTAAAAAACTATAATA
TATATATATGTTTTT
Found at i:690195 original size:80 final size:76
Alignment explanation
Indices: 690070--690255 Score: 216
Period size: 80 Copynumber: 2.4 Consensus size: 76
690060 ATGTTTTTCA
*
690070 AAAATTATATATTATATACTTATTTTCAAAATGTTTTAAAAAACTATAATATATATATATATATT
1 AAAATTATATATTATATA--TATTTT-AAAATATTTTAAAAAACTATAA-A-ATATATATA-ATT
690135 TCCAAGAAACCG-TTTTT-
60 T-CAA-AAACCGTTTTTTG
* * *
690152 AAAATTATATATTATATATATTTTAAAATTATTTTCAAAAACTATAAAATATATATAGTTTCGAA
1 AAAATTATATATTATATATATTTTAAAA-TATTTTAAAAAACTATAAAATATATATAATTTCAAA
690217 AACCGTTTTTTG
65 AACCGTTTTTTG
* *
690229 AAAATTATACATTATATA-ATTTCAAAA
1 AAAATTATATATTATATATATTTTAAAA
690256 GCATTTAAAA
Statistics
Matches: 95, Mismatches: 6, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
75 6 0.06
76 15 0.16
77 20 0.21
78 9 0.09
79 5 0.05
80 22 0.23
82 18 0.19
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.43
Consensus pattern (76 bp):
AAAATTATATATTATATATATTTTAAAATATTTTAAAAAACTATAAAATATATATAATTTCAAAA
ACCGTTTTTTG
Found at i:690267 original size:75 final size:80
Alignment explanation
Indices: 690070--690267 Score: 207
Period size: 77 Copynumber: 2.5 Consensus size: 80
690060 ATGTTTTTCA
*
690070 AAAATTATATATTATATACTTATTTTCAAAATG--TTTTAAAAAACTATAATATATATATATATA
1 AAAATTATACATTATATA--TA-TTTCAAAA-GCATTTTAAAAAACTATAATATATATATATATA
690133 TTTCCAAGAAACCGTTTTT
62 TTTCCAAGAAACCGTTTTT
* * ** * *
690152 AAAATTATATATTATATATATTTTAAAATTATTTTCAAAAACTATAA-A-ATATATATA-GTTT-
1 AAAATTATACATTATATATATTTCAAAAGCATTTTAAAAAACTATAATATATATATATATATTTC
*
690213 CGA-AAACCGTTTTTT
66 CAAGAAACCG-TTTTT
690228 GAAAATTATACATTATATA-ATTTCAAAAGCA-TTTAAAAAA
1 -AAAATTATACATTATATATATTTCAAAAGCATTTTAAAAAA
690268 TAAATAAAAA
Statistics
Matches: 102, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
75 14 0.14
76 16 0.16
77 20 0.20
78 9 0.09
79 8 0.08
80 17 0.17
82 18 0.18
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (80 bp):
AAAATTATACATTATATATATTTCAAAAGCATTTTAAAAAACTATAATATATATATATATATTTC
CAAGAAACCGTTTTT
Found at i:692821 original size:29 final size:29
Alignment explanation
Indices: 692779--692867 Score: 124
Period size: 29 Copynumber: 3.1 Consensus size: 29
692769 TACCGGGGGT
*
692779 AGGTCGCCATGCACGCCCGGCGACCTACC
1 AGGTCGCCATGCACGCCCAGCGACCTACC
***
692808 AGGTCGCCATGCACGCCCAGCGACCTGGT
1 AGGTCGCCATGCACGCCCAGCGACCTACC
* *
692837 AGGTCGCCATGCATGCCCTGCGACCTACC
1 AGGTCGCCATGCACGCCCAGCGACCTACC
692866 AG
1 AG
692868 CCAACGACCT
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.18, C:0.40, G:0.28, T:0.13
Consensus pattern (29 bp):
AGGTCGCCATGCACGCCCAGCGACCTACC
Found at i:692897 original size:10 final size:10
Alignment explanation
Indices: 692882--692907 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
692872 CGACCTCCAT
692882 GCCCATGCAC
1 GCCCATGCAC
692892 GCCCATGCAC
1 GCCCATGCAC
692902 GCCCAT
1 GCCCAT
692908 CTCGCCAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.19, C:0.50, G:0.19, T:0.12
Consensus pattern (10 bp):
GCCCATGCAC
Found at i:692945 original size:33 final size:33
Alignment explanation
Indices: 692896--692961 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
692886 ATGCACGCCC
*
692896 ATGCACGCCCATCTCGCCAAAGGTCACCATGCA
1 ATGCACGCCCAGCTCGCCAAAGGTCACCATGCA
*
692929 ATGCACGTCCAGCTCGCCAAAGGTCACCATGCA
1 ATGCACGCCCAGCTCGCCAAAGGTCACCATGCA
692962 GTCCATGCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.27, C:0.38, G:0.20, T:0.15
Consensus pattern (33 bp):
ATGCACGCCCAGCTCGCCAAAGGTCACCATGCA
Found at i:693170 original size:12 final size:11
Alignment explanation
Indices: 693150--693185 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
693140 GAAATCAACT
693150 GCATTATTGCA
1 GCATTATTGCA
*
693161 GCACTTATTGCT
1 GCA-TTATTGCA
693173 GCATTATTGCA
1 GCATTATTGCA
693184 GC
1 GC
693186 CCCGTGAACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.36
Consensus pattern (11 bp):
GCATTATTGCA
Found at i:693528 original size:27 final size:26
Alignment explanation
Indices: 693477--693533 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
693467 ATTAAAAAAA
*
693477 TTAATTAGTGTTAGTTAGTCTAATAT
1 TTAATTAGTGTTAGTTAGTCTAATAG
*
693503 TTAATTAGTTTGTAGTTAGT-TAAATAG
1 TTAATTAGTGT-TAGTTAGTCT-AATAG
693530 TTAA
1 TTAA
693534 GTTATATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 11 0.41
27 16 0.59
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (26 bp):
TTAATTAGTGTTAGTTAGTCTAATAG
Found at i:693752 original size:21 final size:21
Alignment explanation
Indices: 693727--693766 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
693717 GTTAATTAGT
693727 TTGTTAGTTTAAGTTATATTA
1 TTGTTAGTTTAAGTTATATTA
693748 TTGTTAGTTTAAGTTATAT
1 TTGTTAGTTTAAGTTATAT
693767 CATATAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (21 bp):
TTGTTAGTTTAAGTTATATTA
Found at i:696331 original size:14 final size:14
Alignment explanation
Indices: 696312--696359 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
696302 TTCAAGTCGT
696312 AAATCATTACTATC
1 AAATCATTACTATC
696326 AAATCATTAC-A--
1 AAATCATTACTATC
*
696337 AAATCATTAATATC
1 AAATCATTACTATC
696351 AAATCATTA
1 AAATCATTA
696360 AATATTAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 9 0.30
12 1 0.03
13 1 0.03
14 19 0.63
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (14 bp):
AAATCATTACTATC
Found at i:696340 original size:25 final size:25
Alignment explanation
Indices: 696312--696359 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
696302 TTCAAGTCGT
*
696312 AAATCATTACTATCAAATCATTACA
1 AAATCATTAATATCAAATCATTACA
696337 AAATCATTAATATCAAATCATTA
1 AAATCATTAATATCAAATCATTA
696360 AATATTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (25 bp):
AAATCATTAATATCAAATCATTACA
Found at i:696342 original size:11 final size:13
Alignment explanation
Indices: 696312--696412 Score: 57
Period size: 14 Copynumber: 7.7 Consensus size: 13
696302 TTCAAGTCGT
696312 AAATCATTACTATC
1 AAATCATTACTA-C
696326 AAATCATTAC-A-
1 AAATCATTACTAC
*
696337 AAATCATTAATATC
1 AAATCATTACTA-C
* *
696351 AAATCATTAAATAT
1 AAATCATT-ACTAC
* * *
696365 TAATAAATTATTAC
1 AAAT-CATTACTAC
*
696379 TAATCATTACT--
1 AAATCATTACTAC
*
696390 AAATCATTACGATC
1 AAATCATTACTA-C
696404 AAATCATTA
1 AAATCATTA
696413 AAATTAATAA
Statistics
Matches: 69, Mismatches: 10, Indels: 16
0.73 0.11 0.17
Matches are distributed among these distances:
11 18 0.26
12 1 0.01
13 6 0.09
14 37 0.54
15 7 0.10
ACGTcount: A:0.49, C:0.15, G:0.01, T:0.36
Consensus pattern (13 bp):
AAATCATTACTAC
Found at i:696387 original size:10 final size:11
Alignment explanation
Indices: 696358--696572 Score: 55
Period size: 11 Copynumber: 18.2 Consensus size: 11
696348 ATCAAATCAT
*
696358 TAAAT-ATTAA
1 TAAATCATTAC
*
696368 TAAATTATTAC
1 TAAATCATTAC
696379 T-AATCATTAC
1 TAAATCATTAC
696389 TAAATCATTAC
1 TAAATCATTAC
696400 GATCAAATCATTA-
1 --T-AAATCATTAC
* * *
696413 -AAATTAATAA
1 TAAATCATTAC
* *
696423 TAATTCATTAT
1 TAAATCATTAC
696434 TACTAATCA-TAC
1 TA--AATCATTAC
*
696446 TAAGTCATTAC
1 TAAATCATTAC
*
696457 TATCAAATCATAATAA
1 --T-AAATCAT--TAC
*
696473 TAATAATTCATTAT
1 T-A-AA-TCATTAC
696487 TACTAATCATTAC
1 TA--AATCATTAC
696500 TAAATCATTAC
1 TAAATCATTAC
696511 TATCAAATCATTA-
1 --T-AAATCATTAC
* * * *
696524 AAAATTAATAA
1 TAAATCATTAC
* *
696535 TAATTTCATTAT
1 TAA-ATCATTAC
696547 TACTAATCATTAC
1 TA--AATCATTAC
696560 TAAATCATTAC
1 TAAATCATTAC
696571 TA
1 TA
696573 TCAAATCATA
Statistics
Matches: 154, Mismatches: 26, Indels: 49
0.67 0.11 0.21
Matches are distributed among these distances:
9 7 0.05
10 25 0.16
11 47 0.31
12 10 0.06
13 24 0.16
14 33 0.21
15 2 0.01
16 6 0.04
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.39
Consensus pattern (11 bp):
TAAATCATTAC
Found at i:696511 original size:21 final size:21
Alignment explanation
Indices: 696485--696572 Score: 60
Period size: 21 Copynumber: 4.3 Consensus size: 21
696475 ATAATTCATT
696485 ATTACTAATCATTACTAAATC
1 ATTACTAATCATTACTAAATC
* * *
696506 ATTACT-ATCAAATCATTAAA-A
1 ATTACTAATC--ATTACTAAATC
* * * *
696527 ATTAATAATAATT--T-CATT
1 ATTACTAATCATTACTAAATC
696545 ATTACTAATCATTACTAAATC
1 ATTACTAATCATTACTAAATC
696566 ATTACTA
1 ATTACTA
696573 TCAAATCATA
Statistics
Matches: 48, Mismatches: 12, Indels: 14
0.65 0.16 0.19
Matches are distributed among these distances:
17 1 0.02
18 12 0.25
20 6 0.12
21 20 0.42
22 9 0.19
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40
Consensus pattern (21 bp):
ATTACTAATCATTACTAAATC
Found at i:696520 original size:14 final size:14
Alignment explanation
Indices: 696450--696523 Score: 50
Period size: 14 Copynumber: 5.4 Consensus size: 14
696440 TCATACTAAG
696450 TCATTACTATCAAA
1 TCATTACTATCAAA
* *
696464 TCATAATAATAAT-AAT
1 TCAT--TACT-ATCAAA
* *
696480 TCATTATTA-CTAA
1 TCATTACTATCAAA
696493 TCATTAC--T-AAA
1 TCATTACTATCAAA
696504 TCATTACTATCAAA
1 TCATTACTATCAAA
696518 TCATTA
1 TCATTA
696524 AAAATTAATA
Statistics
Matches: 45, Mismatches: 7, Indels: 16
0.66 0.10 0.24
Matches are distributed among these distances:
11 9 0.20
13 9 0.20
14 16 0.36
16 9 0.20
17 2 0.04
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (14 bp):
TCATTACTATCAAA
Found at i:696551 original size:60 final size:60
Alignment explanation
Indices: 696371--696685 Score: 465
Period size: 60 Copynumber: 5.4 Consensus size: 60
696361 ATATTAATAA
*
696371 ATTATTACTAATCATTACTAAATCATTACGATCAAATCATT-AAAATTAATAATAA-TTC
1 ATTATTACTAATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTC
*
696429 ATTATTACTAATCA-TACTAAGTCATTACTATCAAATCA-T---AA-TAATAATAA-TTC
1 ATTATTACTAATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTC
696482 ATTATTACTAATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTC
1 ATTATTACTAATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTC
*
696542 ATTATTACTAATCATTACTAAATCATTACTATCAAATCA-TACATAATTAATAATAATTTC
1 ATTATTACTAATCATTACTAAATCATTACTATCAAATCATTA-AAAATTAATAATAATTTC
* *
696602 ATTATTACTAATCATTACT--ATCAAATTACTATTAAATCATTAAATATTAATAATAATTTC
1 ATTATTACTAATCATTACTAAATC--ATTACTATCAAATCATTAAAAATTAATAATAATTTC
*
696662 ATCATTACTAATCATTACTAAATC
1 ATTATTACTAATCATTACTAAATC
696686 TTATAAATAC
Statistics
Matches: 236, Mismatches: 8, Indels: 22
0.89 0.03 0.08
Matches are distributed among these distances:
53 26 0.11
54 25 0.11
55 1 0.00
56 1 0.00
57 22 0.09
58 19 0.08
59 11 0.05
60 126 0.53
61 2 0.01
62 3 0.01
ACGTcount: A:0.45, C:0.14, G:0.01, T:0.40
Consensus pattern (60 bp):
ATTATTACTAATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTC
Found at i:696630 original size:120 final size:116
Alignment explanation
Indices: 696327--696685 Score: 497
Period size: 120 Copynumber: 3.1 Consensus size: 116
696317 ATTACTATCA
* * * *
696327 AATCATTACAAAATCATTAATATCAAATCATTA-AATATTAATAA---ATTATTACTAATCATTA
1 AATCATTACTAAATCATTACTATCAAATCATCATAATAATAATAATTCATTATTACTAATCATTA
*
696388 CTAAATCATTACGATCAAATCATT-AAAATTAATAATAA-TTCATTATTACT
66 CTAAA-CATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
*
696438 AATCA-TACTAAGTCATTACTATC-AA--ATCATAATAATAATAATTCATTATTACTAATCATTA
1 AATCATTACTAAATCATTACTATCAAATCATCATAATAATAATAATTCATTATTACTAATCATTA
696499 CTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
66 CTAAA-CATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
696551 AATCATTACTAAATCATTACTATCAAATCATACATAATTAATAATAATTTCATTATTACTAATCA
1 AATCATTACTAAATCATTACTATCAAATCAT-CATAA-TAATAATAA-TTCATTATTACTAATCA
* * *
696616 TTACTATCAA-ATTACTATTAAATCATTAAATATTAATAATAATTTCATCATTACT
63 TTACTA--AACATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
696671 AATCATTACTAAATC
1 AATCATTACTAAATC
696686 TTATAAATAC
Statistics
Matches: 223, Mismatches: 10, Indels: 21
0.88 0.04 0.08
Matches are distributed among these distances:
107 3 0.01
108 10 0.04
109 2 0.01
110 15 0.07
111 45 0.20
112 14 0.06
113 17 0.08
114 17 0.08
115 2 0.01
117 2 0.01
118 5 0.02
119 9 0.04
120 80 0.36
122 2 0.01
ACGTcount: A:0.47, C:0.14, G:0.01, T:0.39
Consensus pattern (116 bp):
AATCATTACTAAATCATTACTATCAAATCATCATAATAATAATAATTCATTATTACTAATCATTA
CTAAACATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
Found at i:698487 original size:30 final size:30
Alignment explanation
Indices: 698447--698600 Score: 211
Period size: 30 Copynumber: 5.1 Consensus size: 30
698437 TTTGGTGAGC
698447 TGGGCGTGCATGGAGGTCGTTGGGCGTGCA
1 TGGGCGTGCATGGAGGTCGTTGGGCGTGCA
* * *
698477 TGGCCGTGCATGGAGGTCGTTGGACGTGCC
1 TGGGCGTGCATGGAGGTCGTTGGGCGTGCA
* *
698507 TGGGCATGCATGGAGGTCGTTGGGCGTTCA
1 TGGGCGTGCATGGAGGTCGTTGGGCGTGCA
698537 TGGGCGTGCATGGAGGTCGTTGGGCGTGCA
1 TGGGCGTGCATGGAGGTCGTTGGGCGTGCA
** *
698567 TGGGCGTTGC-TGGTAGGTCGCAGGGCATGCA
1 TGGGCG-TGCATGG-AGGTCGTTGGGCGTGCA
698598 TGG
1 TGG
698601 CGACCTACCA
Statistics
Matches: 109, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
30 89 0.82
31 20 0.18
ACGTcount: A:0.11, C:0.18, G:0.47, T:0.24
Consensus pattern (30 bp):
TGGGCGTGCATGGAGGTCGTTGGGCGTGCA
Found at i:698621 original size:29 final size:29
Alignment explanation
Indices: 698581--698667 Score: 120
Period size: 29 Copynumber: 3.0 Consensus size: 29
698571 CGTTGCTGGT
*
698581 AGGTCGCAGGGCATGCATGGCGACCTACC
1 AGGTCGCAGGGCGTGCATGGCGACCTACC
* ***
698610 AGGTCGCTGGGCGTGCATGGCGACCTGGT
1 AGGTCGCAGGGCGTGCATGGCGACCTACC
*
698639 AGGTCGCCGGGCGTGCATGGCGACCTACC
1 AGGTCGCAGGGCGTGCATGGCGACCTACC
698668 CCCGGTACTG
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.15, C:0.30, G:0.39, T:0.16
Consensus pattern (29 bp):
AGGTCGCAGGGCGTGCATGGCGACCTACC
Found at i:698658 original size:58 final size:60
Alignment explanation
Indices: 698550--698667 Score: 177
Period size: 58 Copynumber: 2.0 Consensus size: 60
698540 GCGTGCATGG
* **
698550 AGGTCGTTGGGCGTGCATGGGCGTTGCTGGTAGGTCGCAGGGCATGCATGGCGACCTACC
1 AGGTCGCTGGGCGTGCATGGGCGTACCTGGTAGGTCGCAGGGCATGCATGGCGACCTACC
* *
698610 AGGTCGCTGGGCGTGCAT-GGCG-ACCTGGTAGGTCGCCGGGCGTGCATGGCGACCTACC
1 AGGTCGCTGGGCGTGCATGGGCGTACCTGGTAGGTCGCAGGGCATGCATGGCGACCTACC
698668 CCCGGTACTG
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
58 32 0.60
59 4 0.08
60 17 0.32
ACGTcount: A:0.13, C:0.26, G:0.42, T:0.19
Consensus pattern (60 bp):
AGGTCGCTGGGCGTGCATGGGCGTACCTGGTAGGTCGCAGGGCATGCATGGCGACCTACC
Found at i:705538 original size:31 final size:31
Alignment explanation
Indices: 705497--705567 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
705487 GTCAATGACA
* * *
705497 ATATTACAAACGGACTAAATGTTGAGGGACC
1 ATATTGCAAACGAACTAAATATTGAGGGACC
* **
705528 ATATTGCAAACGAACTAAATATTGGGGGATT
1 ATATTGCAAACGAACTAAATATTGAGGGACC
705559 ATATTGCAA
1 ATATTGCAA
705568 GTTTTAAAAG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (31 bp):
ATATTGCAAACGAACTAAATATTGAGGGACC
Found at i:707523 original size:175 final size:177
Alignment explanation
Indices: 707232--707583 Score: 690
Period size: 175 Copynumber: 2.0 Consensus size: 177
707222 TTTTACGAGT
707232 CAAATATCTATAGTTTTTTTTTTCCATTTGAATCTGAATTTATAAAGGGATAAGATCTTGTTACA
1 CAAATATCTATAGTTTTTTTTTTCCATTTGAATCTGAATTTATAAAGGGATAAGATCTTGTTACA
707297 CAGTGTAAAATTCTTTTAGTTTTATATAGATTTTCACTCATCAAACGATCCTAAATATGTA-AAA
66 CAGTGTAAAATTCTTTTAGTTTTATATAGATTTTCACTCATCAAACGATCCTAAATATGTATAAA
707361 A-TAAAGAGTTTTACATTGTGTAAGTAGATCCTAACCCATTTATAAA
131 ACTAAAGAGTTTTACATTGTGTAAGTAGATCCTAACCCATTTATAAA
707407 CAAATATCTATAGTTTTTTTTTTCCATTTGAATCTGAATTTATAAAGGGATAAGATCTTGTTACA
1 CAAATATCTATAGTTTTTTTTTTCCATTTGAATCTGAATTTATAAAGGGATAAGATCTTGTTACA
707472 CAGTGTAAAATTCTTTTAGTTTTATATAGATTTTCACTCATCAAACGATCCTAAATATGTATAAA
66 CAGTGTAAAATTCTTTTAGTTTTATATAGATTTTCACTCATCAAACGATCCTAAATATGTATAAA
707537 ACTAAAGAGTTTTACATTGTGTAAGTAGATCCTAACCCATTTATAAA
131 ACTAAAGAGTTTTACATTGTGTAAGTAGATCCTAACCCATTTATAAA
707584 TTTATTTTTA
Statistics
Matches: 175, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
175 126 0.72
176 4 0.02
177 45 0.26
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (177 bp):
CAAATATCTATAGTTTTTTTTTTCCATTTGAATCTGAATTTATAAAGGGATAAGATCTTGTTACA
CAGTGTAAAATTCTTTTAGTTTTATATAGATTTTCACTCATCAAACGATCCTAAATATGTATAAA
ACTAAAGAGTTTTACATTGTGTAAGTAGATCCTAACCCATTTATAAA
Found at i:707729 original size:31 final size:31
Alignment explanation
Indices: 707694--707758 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
707684 TAAAACTTGT
707694 AATATAATCCCCCAACATTTAGT-CTGTTTGC
1 AATATAATCCCCCAACATTTAGTAC-GTTTGC
** *
707725 AATATGGTCCCTCAACATTTAGTACGTTTGC
1 AATATAATCCCCCAACATTTAGTACGTTTGC
707756 AAT
1 AAT
707759 GTGGTCCCCG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 29 0.97
32 1 0.03
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.35
Consensus pattern (31 bp):
AATATAATCCCCCAACATTTAGTACGTTTGC
Found at i:707764 original size:31 final size:31
Alignment explanation
Indices: 707701--707767 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
707691 TGTAATATAA
707701 TCCCCCAACATTTAGTCTGTTTGCAATATGG
1 TCCCCCAACATTTAGTCTGTTTGCAATATGG
* *
707732 TCCCTCAACATTTAGTAC-GTTTGCAATGTGG
1 TCCCCCAACATTTAGT-CTGTTTGCAATATGG
707763 TCCCC
1 TCCCC
707768 GACGTAACTG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
31 31 0.97
32 1 0.03
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.34
Consensus pattern (31 bp):
TCCCCCAACATTTAGTCTGTTTGCAATATGG
Found at i:718817 original size:297 final size:297
Alignment explanation
Indices: 718283--718871 Score: 1097
Period size: 297 Copynumber: 2.0 Consensus size: 297
718273 CGGCATGGTA
*
718283 GGTGGTGGCTTGAGCAACACGTAGTCAAGATCAAGTTGCCCGAAGAATATCAGGATTCTTTGAGA
1 GGTGGTGGCTTGAGCAACACATAGTCAAGATCAAGTTGCCCGAAGAATATCAGGATTCTTTGAGA
718348 CCACCTTCTATAATTCTTTCCATCAAGTGCATCGAGCTTGGAAAGATCGGGTATCAGTTTGCTCA
66 CCACCTTCTATAATTCTTTCCATCAAGTGCATCGAGCTTGGAAAGATCGGGTATCAGTTTGCTCA
*
718413 AAGGTGTTGACATGATTGTAGTATATAGAATTCGTTTCTAAATTGTTGGTAAAATAGACTGCAAA
131 AAGGTGTTGACATGATTGCAGTATATAGAATTCGTTTCTAAATTGTTGGTAAAATAGACTGCAAA
*
718478 ACTACACCGTTAGTACTAACTGGAAAGATAAACAATAATTAAAAGGAACAAATTTGTAAATCGTG
196 ACTACACCGTTAGTACTAACTGGAAAGATAAACAATAATTAAAAGGAACAAATTTGTAAACCGTG
718543 TCGTGGTATAACCACTGCCTTAGAAACGAATTCGCCC
261 TCGTGGTATAACCACTGCCTTAGAAACGAATTCGCCC
* * *
718580 GGTGGTGGCTTGAGCAACACATAGTCAAGATCAAGTTTCTCGAAGAATATCAGGATTCTTTGGGA
1 GGTGGTGGCTTGAGCAACACATAGTCAAGATCAAGTTGCCCGAAGAATATCAGGATTCTTTGAGA
718645 CCACCTTCTATAATTCTTTCCATCAAGTGCATCGAGCTTGGAAAGATCGGGTATCAGTTTGCTCA
66 CCACCTTCTATAATTCTTTCCATCAAGTGCATCGAGCTTGGAAAGATCGGGTATCAGTTTGCTCA
718710 AAGGTGTTGACATGATTGCAGTATATAGAATTCGTTTCTAAATTGTTGGTAAAATAGACTGCAAA
131 AAGGTGTTGACATGATTGCAGTATATAGAATTCGTTTCTAAATTGTTGGTAAAATAGACTGCAAA
* * *
718775 ACTACACCGTTAGTACTGACTGGAAAGATAAACAATAATTAAAAGGAACAGATTTTTAAACCGTG
196 ACTACACCGTTAGTACTAACTGGAAAGATAAACAATAATTAAAAGGAACAAATTTGTAAACCGTG
718840 TCGTGGTATAACCACTGCCTTAGAAACGAATT
261 TCGTGGTATAACCACTGCCTTAGAAACGAATT
718872 TGCCTCGATG
Statistics
Matches: 283, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
297 283 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (297 bp):
GGTGGTGGCTTGAGCAACACATAGTCAAGATCAAGTTGCCCGAAGAATATCAGGATTCTTTGAGA
CCACCTTCTATAATTCTTTCCATCAAGTGCATCGAGCTTGGAAAGATCGGGTATCAGTTTGCTCA
AAGGTGTTGACATGATTGCAGTATATAGAATTCGTTTCTAAATTGTTGGTAAAATAGACTGCAAA
ACTACACCGTTAGTACTAACTGGAAAGATAAACAATAATTAAAAGGAACAAATTTGTAAACCGTG
TCGTGGTATAACCACTGCCTTAGAAACGAATTCGCCC
Found at i:719553 original size:6 final size:6
Alignment explanation
Indices: 719542--719566 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
719532 GACACGTATT
719542 ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG A
719567 GCCGAGCCGT
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:0.36, C:0.48, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:721601 original size:30 final size:30
Alignment explanation
Indices: 721560--721621 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
721550 CCATTTTGCA
721560 TTGATTAATTTATTGTTTTATCATAAGATC
1 TTGATTAATTTATTGTTTTATCATAAGATC
* *
721590 TTGATTGATTTATTGTTTTATCGTAAGATC
1 TTGATTAATTTATTGTTTTATCATAAGATC
721620 TT
1 TT
721622 TTATGATGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.26, C:0.06, G:0.13, T:0.55
Consensus pattern (30 bp):
TTGATTAATTTATTGTTTTATCATAAGATC
Found at i:730179 original size:3 final size:3
Alignment explanation
Indices: 730171--730247 Score: 102
Period size: 3 Copynumber: 25.3 Consensus size: 3
730161 CATTTAAATT
* * *
730171 TTA TTA TTA TTA TTA TTA -AA TTTA TTA TTA CTAA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA -TTA TTA TTA TTA TTA
730217 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
730248 ATATATATAT
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
2 1 0.02
3 61 0.94
4 3 0.05
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:732303 original size:28 final size:29
Alignment explanation
Indices: 732232--732304 Score: 71
Period size: 29 Copynumber: 2.6 Consensus size: 29
732222 AAATTAAAAG
* *
732232 TTCAT-ATATTTAATTTTTAATTATTTCTT
1 TTCATAATATTT-ATATTTAATTATTTATT
* *
732261 TTCAAAAT-TTGTATATTTACTTA-TTATT
1 TTCATAATATT-TATATTTAATTATTTATT
732289 TTCATAATATTTATAT
1 TTCATAATATTTATAT
732305 GTTTCATTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
28 16 0.44
29 17 0.47
30 3 0.08
ACGTcount: A:0.32, C:0.07, G:0.01, T:0.60
Consensus pattern (29 bp):
TTCATAATATTTATATTTAATTATTTATT
Found at i:739285 original size:83 final size:83
Alignment explanation
Indices: 739146--739659 Score: 904
Period size: 83 Copynumber: 6.2 Consensus size: 83
739136 AATGGAACAA
* *
739146 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
1 ATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
739211 AATCATTGAATTTAGAAG
66 AATCATTGAATTTAGAAG
739229 ATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
1 ATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
739294 AATCATTGAATTTAGAAG
66 AATCATTGAATTTAGAAG
*
739312 ATGAATTTGTTCATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
1 ATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
*
739377 AATCATTGAATTTGGAAG
66 AATCATTGAATTTAGAAG
* * *
739395 ATTAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
1 ATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
739460 AATCATTGAATTTAGAAG
66 AATCATTGAATTTAGAAG
739478 ATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
1 ATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
739543 AATCATTGAATTTAGAAG
66 AATCATTGAATTTAGAAG
* *
739561 ATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGG-TTGGACAGAAC
1 ATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAAAAC
* *
739625 CAGTCATTGAATTTGGAAG
65 CAATCATTGAATTTAGAAG
*
739644 ATGAATTTGCTCATAG
1 ATGAATTTGTTCATAG
739660 TAGAAATAAG
Statistics
Matches: 413, Mismatches: 17, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
82 4 0.01
83 409 0.99
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.38
Consensus pattern (83 bp):
ATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
AATCATTGAATTTAGAAG
Found at i:742849 original size:76 final size:76
Alignment explanation
Indices: 742750--743391 Score: 1205
Period size: 76 Copynumber: 8.5 Consensus size: 76
742740 CTATTTCCCA
*
742750 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
742815 AGCCTTCGGGT
66 AGCCTTCGGGT
*
742826 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
742891 AGCCTTCGGGT
66 AGCCTTCGGGT
742902 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
742967 AGCCTTCGGGT
66 AGCCTTCGGGT
742978 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
743043 AGCCTTCGGGT
66 AGCCTTCGGGT
743054 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
743119 AGCCTTCGGGT
66 AGCCTTCGGGT
*
743130 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
743195 AGCCTTCGGGT
66 AGCCTTCGGGT
*
743206 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGTTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
743271 AGCCTTCGGGT
66 AGCCTTCGGGT
*
743282 CATTTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
743347 AGCCTTCGGGT
66 AGCCTTCGGGT
* * *
743358 CATCTATAAGCCCTTC-GTGCATGATGTTTTCAAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAA
743392 CATTTCCATC
Statistics
Matches: 556, Mismatches: 10, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
75 17 0.03
76 539 0.97
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGT
Found at i:743526 original size:3 final size:3
Alignment explanation
Indices: 743518--743591 Score: 96
Period size: 3 Copynumber: 24.3 Consensus size: 3
743508 CATTTAAATT
* * *
743518 TTA TTA TTA TTA TTA TTA -AA TTTA TTA TTA CTAA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA -TTA TTA TTA TTA TTA
743564 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
743592 ATATATATAT
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
2 1 0.02
3 58 0.94
4 3 0.05
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:747904 original size:3 final size:3
Alignment explanation
Indices: 747896--747971 Score: 98
Period size: 3 Copynumber: 25.0 Consensus size: 3
747886 TTTCATATAG
* ** *
747896 TTA TTA TTA TTA TTA TGA TTA TTA AAA TTA TTA TTA TTA TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
747944 TATA TTA TTA TTA TTA ATA TTA TTA TTA
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA
747972 AAAAATAATA
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
3 59 0.95
4 3 0.05
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:763784 original size:34 final size:34
Alignment explanation
Indices: 763739--763805 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 34
763729 AATAGGAATT
*
763739 ACAACTTCTCTC-GATCTAACAAGGAGAAAACAATA
1 ACAACTTCTCTCTGA--TAAAAAGGAGAAAACAATA
763774 ACAA-TTCTCTCTTGATAAAAAGGAGAAAACAA
1 ACAACTTCTCTC-TGATAAAAAGGAGAAAACAA
763806 CTCTCAAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 23 0.79
35 4 0.14
36 2 0.07
ACGTcount: A:0.48, C:0.19, G:0.12, T:0.21
Consensus pattern (34 bp):
ACAACTTCTCTCTGATAAAAAGGAGAAAACAATA
Found at i:764013 original size:32 final size:32
Alignment explanation
Indices: 763965--764052 Score: 115
Period size: 32 Copynumber: 2.7 Consensus size: 32
763955 CCTACCCAAT
*
763965 TTCAACAAAAATCAGCTACCTATCATTC-GATGC
1 TTCAAC-AAAATCAGCTACCTACCATTCAG-TGC
*
763998 TTCAACAAAATCAGCTTCCTACCATTCAGTGC
1 TTCAACAAAATCAGCTACCTACCATTCAGTGC
* *
764030 TTCAACAAAATCAACTGCCTACC
1 TTCAACAAAATCAGCTACCTACC
764053 CACCAAATGG
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
32 43 0.86
33 7 0.14
ACGTcount: A:0.35, C:0.31, G:0.08, T:0.26
Consensus pattern (32 bp):
TTCAACAAAATCAGCTACCTACCATTCAGTGC
Done.