Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008478.1 Hibiscus syriacus cultivar Beakdansim tig00111309_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: 1476524
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 7
Found at i:569881 original size:31 final size:31
Alignment explanation
Indices: 569858--569967 Score: 193
Period size: 31 Copynumber: 3.5 Consensus size: 31
569848 CATAGATTCT
* *
569858 GAAGAACCTAGGTAATCAGTCCATATGTCCC
1 GAAGAACATAGGTAAACAGTCCATATGTCCC
*
569889 GAAGGACATAGGTAAACAGTCCATATGTCCC
1 GAAGAACATAGGTAAACAGTCCATATGTCCC
569920 GAAGAACATAGGTAAACAGTCCATATGTCCC
1 GAAGAACATAGGTAAACAGTCCATATGTCCC
569951 GAAGAACATAGGTAAAC
1 GAAGAACATAGGTAAAC
569968 CCTCGACCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 75 1.00
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (31 bp):
GAAGAACATAGGTAAACAGTCCATATGTCCC
Found at i:570788 original size:21 final size:21
Alignment explanation
Indices: 570764--570808 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
570754 TGTTGTTCGT
* *
570764 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
570785 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
570806 TTG
1 TTG
570809 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:573626 original size:31 final size:31
Alignment explanation
Indices: 573588--573710 Score: 146
Period size: 31 Copynumber: 4.0 Consensus size: 31
573578 CCCGAAGGAC
* * * *
573588 CAGTCCATAGATTCTGAAGAACCTAGGTAAT
1 CAGTCCATAGATCCCGAAGAACATAGGTAAA
*
573619 CAGTCCATATG-TCCCGAAGGACATAGGTAAA
1 CAGTCCATA-GATCCCGAAGAACATAGGTAAA
*
573650 CAGTCCATATATCCCGAAGAACATAGGTAAA
1 CAGTCCATAGATCCCGAAGAACATAGGTAAA
573681 CAGTCCATATG-TCCC--AGAACATAGGTAAA
1 CAGTCCATA-GATCCCGAAGAACATAGGTAAA
573710 C
1 C
573711 CCTCGACCCT
Statistics
Matches: 81, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
29 15 0.19
31 65 0.80
32 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (31 bp):
CAGTCCATAGATCCCGAAGAACATAGGTAAA
Found at i:573685 original size:62 final size:60
Alignment explanation
Indices: 573588--573710 Score: 174
Period size: 62 Copynumber: 2.0 Consensus size: 60
573578 CCCGAAGGAC
* * * * *
573588 CAGTCCATAGATTCTGAAGAACCTAGGTAATCAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATAGATCCCGAAGAACATAGGTAAACAGTCCATATGTCCC--AGAACATAGGTAAA
*
573650 CAGTCCATATATCCCGAAGAACATAGGTAAACAGTCCATATGTCCCAGAACATAGGTAAA
1 CAGTCCATAGATCCCGAAGAACATAGGTAAACAGTCCATATGTCCCAGAACATAGGTAAA
573710 C
1 C
573711 CCTCGACCCT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
60 14 0.25
62 41 0.75
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (60 bp):
CAGTCCATAGATCCCGAAGAACATAGGTAAACAGTCCATATGTCCCAGAACATAGGTAAA
Found at i:573700 original size:29 final size:30
Alignment explanation
Indices: 573604--573710 Score: 153
Period size: 31 Copynumber: 3.5 Consensus size: 30
573594 ATAGATTCTG
* *
573604 AAGAACCTAGGTAATCAGTCCATATGTCCC
1 AAGAACATAGGTAAACAGTCCATATGTCCC
* *
573634 GAAGGACATAGGTAAACAGTCCATATATCCC
1 -AAGAACATAGGTAAACAGTCCATATGTCCC
573665 GAAGAACATAGGTAAACAGTCCATATGTCCC
1 -AAGAACATAGGTAAACAGTCCATATGTCCC
573696 -AGAACATAGGTAAAC
1 AAGAACATAGGTAAAC
573711 CCTCGACCCT
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
29 15 0.21
31 55 0.79
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.20
Consensus pattern (30 bp):
AAGAACATAGGTAAACAGTCCATATGTCCC
Found at i:574538 original size:21 final size:21
Alignment explanation
Indices: 574514--574558 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
574504 TGTTGTTCGT
* *
574514 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
574535 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
574556 TTG
1 TTG
574559 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:577336 original size:24 final size:23
Alignment explanation
Indices: 577302--577384 Score: 94
Period size: 24 Copynumber: 3.5 Consensus size: 23
577292 AATTTTGTTA
* *
577302 TGATACATGACATAGATTCTAATC
1 TGATACTTGACAT-GATTCTGATC
*
577326 TGATACTTGACCTGGATTCTGATC
1 TGATACTTGACAT-GATTCTGATC
* *
577350 CGATACTTGACATGAATTCTGATA
1 TGATACTTGACATG-ATTCTGATC
577374 TGATACTTGAC
1 TGATACTTGAC
577385 CTAAATTATG
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
23 1 0.02
24 49 0.98
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (23 bp):
TGATACTTGACATGATTCTGATC
Found at i:578808 original size:37 final size:37
Alignment explanation
Indices: 578767--578837 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
578757 GGCAAAAATG
578767 ACCTAAGCATTTGACAAATCTTTTATTCTTTTTTCCC
1 ACCTAAGCATTTGACAAATCTTTTATTCTTTTTTCCC
578804 ACCTAAGCATTTGACAAATCTTTTATTCTTTTTT
1 ACCTAAGCATTTGACAAATCTTTTATTCTTTTTT
578838 TCCTAGGGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.25, C:0.21, G:0.06, T:0.48
Consensus pattern (37 bp):
ACCTAAGCATTTGACAAATCTTTTATTCTTTTTTCCC
Found at i:579416 original size:111 final size:112
Alignment explanation
Indices: 579188--579417 Score: 372
Period size: 117 Copynumber: 2.0 Consensus size: 112
579178 AATCACAAAT
*
579188 GTCATGATATCATGACTTATTTTATTTATATTTGAGTCACTTAAACATTAATTGATATTTTATTA
1 GTCATGATATCATGACTTATTTTATTTATATTTAAGTCACTTAAACATTAATTGATATTTTATTA
* * *
579253 ATATTTTTTTTATTTTTTTGTTGAATTAAGCTCTTCGTTGATCACTCATTTC
66 ATA-----TTTATTTTTTTATTAAATTAAGCTCGTCGTTGATCACTCATTTC
579305 GTCATGATATCATGACTTATTTTATTTATATTTAAGTCACTTAAACATTAATTGATATTTTATTA
1 GTCATGATATCATGACTTATTTTATTTATATTTAAGTCACTTAAACATTAATTGATATTTTATTA
579370 ATA-TTATTTTTTTATTAAATTAAGCTCGTCGTTGATCACTCATTTC
66 ATATTTATTTTTTTATTAAATTAAGCTCGTCGTTGATCACTCATTTC
579416 GT
1 GT
579418 TGCTTATGTG
Statistics
Matches: 109, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
111 42 0.39
117 67 0.61
ACGTcount: A:0.28, C:0.11, G:0.09, T:0.51
Consensus pattern (112 bp):
GTCATGATATCATGACTTATTTTATTTATATTTAAGTCACTTAAACATTAATTGATATTTTATTA
ATATTTATTTTTTTATTAAATTAAGCTCGTCGTTGATCACTCATTTC
Found at i:595092 original size:18 final size:18
Alignment explanation
Indices: 595069--595105 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
595059 AGGATAGTAC
595069 CCTCAGCTCTGAAATGAA
1 CCTCAGCTCTGAAATGAA
595087 CCTCAGCTCTGAAATGAA
1 CCTCAGCTCTGAAATGAA
595105 C
1 C
595106 TAGTAACCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (18 bp):
CCTCAGCTCTGAAATGAA
Found at i:595762 original size:12 final size:12
Alignment explanation
Indices: 595720--595762 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
595710 TGTTTTATCC
595720 GATTTCTGTTCT
1 GATTTCTGTTCT
* *
595732 GATTTATGCTCT
1 GATTTCTGTTCT
* *
595744 GAATTCTGTTCA
1 GATTTCTGTTCT
595756 GATTTCT
1 GATTTCT
595763 TATATCTCAG
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.51
Consensus pattern (12 bp):
GATTTCTGTTCT
Found at i:598752 original size:27 final size:27
Alignment explanation
Indices: 598718--598775 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
598708 ATCCTTTATA
* *
598718 AATTATTTTATTAATTTAA-AATATATT
1 AATTATTTGA-TAAATTAATAATATATT
*
598745 AATTATTTGATAAATTAATAATTTATT
1 AATTATTTGATAAATTAATAATATATT
598772 AATT
1 AATT
598776 TAAATATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 7 0.26
27 20 0.74
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (27 bp):
AATTATTTGATAAATTAATAATATATT
Found at i:600270 original size:36 final size:37
Alignment explanation
Indices: 600223--600298 Score: 145
Period size: 36 Copynumber: 2.1 Consensus size: 37
600213 AGATTCTTCT
600223 CAATGCAAATCAAGCCTTCAC-AAAAGAGTAGTGAAG
1 CAATGCAAATCAAGCCTTCACAAAAAGAGTAGTGAAG
600259 CAATGCAAATCAAGCCTTCACAAAAAGAGTAGTGAAG
1 CAATGCAAATCAAGCCTTCACAAAAAGAGTAGTGAAG
600296 CAA
1 CAA
600299 GATCAGATCA
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
36 21 0.54
37 18 0.46
ACGTcount: A:0.46, C:0.20, G:0.18, T:0.16
Consensus pattern (37 bp):
CAATGCAAATCAAGCCTTCACAAAAAGAGTAGTGAAG
Found at i:600488 original size:12 final size:12
Alignment explanation
Indices: 600471--600508 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
600461 GTGACGTTTA
600471 TATATTTATTAT
1 TATATTTATTAT
600483 TATATTTA-TAT
1 TATATTTATTAT
600494 TAT-TATTATTAT
1 TATAT-TTATTAT
600506 TAT
1 TAT
600509 TATGTACATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 1 0.04
11 9 0.38
12 14 0.58
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TATATTTATTAT
Found at i:600492 original size:20 final size:20
Alignment explanation
Indices: 600467--600505 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
600457 CCGAGTGACG
600467 TTTATA-TATTTATTATTATA
1 TTTATATTA-TTATTATTATA
600487 TTTATATTATTATTATTAT
1 TTTATATTATTATTATTAT
600506 TATTATGTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTATATTATTATTATTATA
Found at i:601091 original size:20 final size:20
Alignment explanation
Indices: 601055--601133 Score: 97
Period size: 20 Copynumber: 3.8 Consensus size: 20
601045 GGTGAACCTA
601055 CAAGAGAACCAAACAACGAAAG
1 CAAGAGAA-C-AACAACGAAAG
601077 CAAGAGAACAACAACGAAAG
1 CAAGAGAACAACAACGAAAG
*
601097 CAAGAGAACAACAAC-CAAG
1 CAAGAGAACAACAACGAAAG
601116 CAACAGAGACACAACAAC
1 C-A-AGAGA-ACAACAAC
601134 CAACCAACAG
Statistics
Matches: 53, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
19 4 0.08
20 27 0.51
21 6 0.11
22 16 0.30
ACGTcount: A:0.58, C:0.25, G:0.16, T:0.00
Consensus pattern (20 bp):
CAAGAGAACAACAACGAAAG
Found at i:601134 original size:22 final size:21
Alignment explanation
Indices: 601079--601146 Score: 86
Period size: 22 Copynumber: 3.2 Consensus size: 21
601069 AACGAAAGCA
*
601079 AGAGAACAACAACGAAAGC-A-
1 AGAGAACAACAAC-CAAGCAAC
601099 AGAGAACAACAACCAAGCAAC
1 AGAGAACAACAACCAAGCAAC
*
601120 AGAGACACAACAACCAACCAAC
1 AGAGA-ACAACAACCAAGCAAC
601142 AGAGA
1 AGAGA
601147 GAAATAGAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.09
20 14 0.33
21 5 0.12
22 20 0.47
ACGTcount: A:0.57, C:0.26, G:0.16, T:0.00
Consensus pattern (21 bp):
AGAGAACAACAACCAAGCAAC
Found at i:612848 original size:36 final size:36
Alignment explanation
Indices: 612800--612984 Score: 307
Period size: 36 Copynumber: 5.1 Consensus size: 36
612790 ATATTTTTCT
*
612800 CAATGCAAATCAAGCCTTCACAAAAGCGTAGTGAAG
1 CAATGCAAATCAAGCCTTCACAAAAGAGTAGTGAAG
* *
612836 CAATGCATATCAAGCCTTCACAAAAGAGTAGTAAAG
1 CAATGCAAATCAAGCCTTCACAAAAGAGTAGTGAAG
612872 CAATGCAAATCAAGCCTTCACAAAAGAGTAGTGAAG
1 CAATGCAAATCAAGCCTTCACAAAAGAGTAGTGAAG
*
612908 CAATGCAAATCAAGCCTTCACAAAACGAGTAGTGAAA
1 CAATGCAAATCAAGCCTTCACAAAA-GAGTAGTGAAG
*
612945 CAATGCAAATTAAGCCTTCACAAAAAGAGTAGTGAAG
1 CAATGCAAATCAAGCCTTCAC-AAAAGAGTAGTGAAG
612982 CAA
1 CAA
612985 GATCAGATCA
Statistics
Matches: 139, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
36 92 0.66
37 43 0.31
38 4 0.03
ACGTcount: A:0.45, C:0.20, G:0.18, T:0.17
Consensus pattern (36 bp):
CAATGCAAATCAAGCCTTCACAAAAGAGTAGTGAAG
Found at i:613754 original size:22 final size:21
Alignment explanation
Indices: 613729--613801 Score: 105
Period size: 20 Copynumber: 3.5 Consensus size: 21
613719 GGGCAAACCT
*
613729 GCAAGAGAACCAAACAAAGAAA
1 GCAAGAGAA-CAAACAACGAAA
613751 GCAAGAGAACAAA-AACGAAA
1 GCAAGAGAACAAACAACGAAA
613771 GCAAGAGAAC-AACAACGAAA
1 GCAAGAGAACAAACAACGAAA
*
613791 GTAAGAGAACA
1 GCAAGAGAACA
613802 TCAACCAAGC
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
19 2 0.04
20 32 0.68
21 4 0.09
22 9 0.19
ACGTcount: A:0.62, C:0.16, G:0.21, T:0.01
Consensus pattern (21 bp):
GCAAGAGAACAAACAACGAAA
Found at i:615770 original size:21 final size:21
Alignment explanation
Indices: 615745--615787 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
615735 TTGGATCTCT
615745 TCTCTCATGGCTTGAATTCAC
1 TCTCTCATGGCTTGAATTCAC
615766 TCTCTCATGGCTTGAATTCAC
1 TCTCTCATGGCTTGAATTCAC
615787 T
1 T
615788 GAGGATGCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.14, T:0.40
Consensus pattern (21 bp):
TCTCTCATGGCTTGAATTCAC
Found at i:621906 original size:18 final size:18
Alignment explanation
Indices: 621873--621907 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
621863 TTTTGTTTTA
*
621873 TTTTTTTACTTTTTTACT
1 TTTTTTTACTTCTTTACT
*
621891 TTTTTTTAGTTCTTTAC
1 TTTTTTTACTTCTTTAC
621908 CGTTTCTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.11, C:0.11, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTTTTTACTTCTTTACT
Found at i:623026 original size:14 final size:14
Alignment explanation
Indices: 623007--623033 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
622997 AGCCTTGCGC
623007 TCTACCAACTGAGT
1 TCTACCAACTGAGT
623021 TCTACCAACTGAG
1 TCTACCAACTGAG
623034 CTGAACGGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.26
Consensus pattern (14 bp):
TCTACCAACTGAGT
Found at i:623065 original size:33 final size:33
Alignment explanation
Indices: 623023--623089 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
623013 AACTGAGTTC
623023 TACCAACTGAGCTGAAC-GGACAATTTTAATTAA
1 TACCAACTGAGCTGAACAGG-CAATTTTAATTAA
* * *
623056 TACCAACTGAGTTGGACAGGTAATTTTAATTAA
1 TACCAACTGAGCTGAACAGGCAATTTTAATTAA
623089 T
1 T
623090 TAATGAATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.31
Consensus pattern (33 bp):
TACCAACTGAGCTGAACAGGCAATTTTAATTAA
Found at i:624364 original size:9 final size:9
Alignment explanation
Indices: 624350--624380 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
624340 CATTCCATTA
624350 TATGACAAT
1 TATGACAAT
624359 TATGACAAT
1 TATGACAAT
*
624368 TATGACAAA
1 TATGACAAT
624377 TATG
1 TATG
624381 TTCAAGTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.32
Consensus pattern (9 bp):
TATGACAAT
Found at i:624636 original size:20 final size:21
Alignment explanation
Indices: 624608--624658 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
624598 ACAGGTTCTA
624608 AAATT-GCAACGCGAA-AGTC
1 AAATTCGCAACGCGAATAGTC
*
624627 AAATTCGCAACGCGAATAGTT
1 AAATTCGCAACGCGAATAGTC
624648 AAA-TCGCAACG
1 AAATTCGCAACG
624659 ATAATATGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 5 0.17
20 18 0.62
21 6 0.21
ACGTcount: A:0.41, C:0.22, G:0.20, T:0.18
Consensus pattern (21 bp):
AAATTCGCAACGCGAATAGTC
Found at i:624664 original size:20 final size:20
Alignment explanation
Indices: 624631--624677 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
624621 AAAGTCAAAT
*
624631 TCGCAACGCGAATA-GTTAAA
1 TCGCAACGAGAATATG-TAAA
*
624651 TCGCAACGATAATATGTAAA
1 TCGCAACGAGAATATGTAAA
*
624671 TAGCAAC
1 TCGCAAC
624678 ACGAATTCTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (20 bp):
TCGCAACGAGAATATGTAAA
Found at i:624824 original size:63 final size:64
Alignment explanation
Indices: 624689--624830 Score: 182
Period size: 63 Copynumber: 2.2 Consensus size: 64
624679 CGAATTCTCC
* **
624689 AAATTCGTAACTCGAATTTCGCAACGCTAATTACCGACATAGGTAATTAGCGTTGCGAATTTTG
1 AAATTCGCAACTCGAATTTCGCAACGCTAATTACCGACATAGGTAATTAGCGTTGCGAATAATG
* ** *
624753 --TTTACGCAACTCGAATTTCGCAACGCTAATTACTTATATAGGTAATTAGCGTTGCGAA-AATG
1 AAATT-CGCAACTCGAATTTCGCAACGCTAATTACCGACATAGGTAATTAGCGTTGCGAATAATG
*
624815 AAATTCGCAACGCGAA
1 AAATTCGCAACTCGAA
624831 AGTCAAATTC
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
62 4 0.06
63 60 0.91
64 2 0.03
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (64 bp):
AAATTCGCAACTCGAATTTCGCAACGCTAATTACCGACATAGGTAATTAGCGTTGCGAATAATG
Found at i:624829 original size:20 final size:20
Alignment explanation
Indices: 624806--624850 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
624796 AATTAGCGTT
*
624806 GCGAAAATGAAATTCGCAAC
1 GCGAAAATCAAATTCGCAAC
*
624826 GCGAAAGTCAAATTCGCAAC
1 GCGAAAATCAAATTCGCAAC
624846 GCGAA
1 GCGAA
624851 TAGTTAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.42, C:0.22, G:0.22, T:0.13
Consensus pattern (20 bp):
GCGAAAATCAAATTCGCAAC
Found at i:625089 original size:40 final size:40
Alignment explanation
Indices: 625031--625126 Score: 138
Period size: 40 Copynumber: 2.4 Consensus size: 40
625021 AATTTGGAGA
* * *
625031 ATTCGTGTTGCGATTTACATAGTATCGTTGCGATTTACCT
1 ATTCGCGTTGCGAATTACATAGTATCGTTGCGATTTAACT
* *
625071 ATTCGCGTTGAGAATTACATATTATCGTTGCGATTTAACT
1 ATTCGCGTTGCGAATTACATAGTATCGTTGCGATTTAACT
*
625111 ATTCACGTTGCGAATT
1 ATTCGCGTTGCGAATT
625127 TGGAAAATCG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.41
Consensus pattern (40 bp):
ATTCGCGTTGCGAATTACATAGTATCGTTGCGATTTAACT
Found at i:625113 original size:20 final size:20
Alignment explanation
Indices: 625037--625107 Score: 88
Period size: 20 Copynumber: 3.5 Consensus size: 20
625027 GAGAATTCGT
*
625037 GTTGCGATTTACATAGTATC
1 GTTGCGATTTACATATTATC
* **
625057 GTTGCGATTTACCTATTCGC
1 GTTGCGATTTACATATTATC
* *
625077 GTTGAGAATTACATATTATC
1 GTTGCGATTTACATATTATC
625097 GTTGCGATTTA
1 GTTGCGATTTA
625108 ACTATTCACG
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (20 bp):
GTTGCGATTTACATATTATC
Found at i:625119 original size:20 final size:20
Alignment explanation
Indices: 625056--625123 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
625046 TACATAGTAT
* *
625056 CGTTGCGATTTACCTATTCG
1 CGTTGCGATTTAACTATTCA
* *
625076 CGTTGAGAATT-ACATATT-A
1 CGTTGCGATTTAAC-TATTCA
625095 TCGTTGCGATTTAACTATTCA
1 -CGTTGCGATTTAACTATTCA
625116 CGTTGCGA
1 CGTTGCGA
625124 ATTTGGAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
19 1 0.03
20 34 0.89
21 3 0.08
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (20 bp):
CGTTGCGATTTAACTATTCA
Found at i:625300 original size:40 final size:40
Alignment explanation
Indices: 625242--625331 Score: 144
Period size: 40 Copynumber: 2.2 Consensus size: 40
625232 AGGTTGGAGA
* * *
625242 ATTCGCGTTGCGATTTACATATTATCGTTGCGATTTACCT
1 ATTCGCGTTGAGAGTTACATATTATCGTTGCGATTTAACT
625282 ATTCGCGTTGAGAGTTACATATTATCGTTGCGATTTAACT
1 ATTCGCGTTGAGAGTTACATATTATCGTTGCGATTTAACT
*
625322 ATTTGCGTTG
1 ATTCGCGTTG
625332 CGAATTTGAC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.42
Consensus pattern (40 bp):
ATTCGCGTTGAGAGTTACATATTATCGTTGCGATTTAACT
Found at i:625324 original size:20 final size:20
Alignment explanation
Indices: 625247--625318 Score: 99
Period size: 20 Copynumber: 3.6 Consensus size: 20
625237 GGAGAATTCG
625247 CGTTGCGATTTACATATTAT
1 CGTTGCGATTTACATATTAT
* **
625267 CGTTGCGATTTACCTATTCG
1 CGTTGCGATTTACATATTAT
* *
625287 CGTTGAGAGTTACATATTAT
1 CGTTGCGATTTACATATTAT
625307 CGTTGCGATTTA
1 CGTTGCGATTTA
625319 ACTATTTGCG
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (20 bp):
CGTTGCGATTTACATATTAT
Found at i:625330 original size:20 final size:21
Alignment explanation
Indices: 625246--625334 Score: 98
Period size: 20 Copynumber: 4.4 Consensus size: 21
625236 TGGAGAATTC
625246 GCGTTGCGATTTACATATTAT
1 GCGTTGCGATTTACATATTAT
* *
625267 -CGTTGCGATTTACCTATT-C
1 GCGTTGCGATTTACATATTAT
* *
625286 GCGTTGAGAGTTACATATTAT
1 GCGTTGCGATTTACATATTAT
625307 -CGTTGCGATTTA-ACTATT-T
1 GCGTTGCGATTTACA-TATTAT
625326 GCGTTGCGA
1 GCGTTGCGA
625335 ATTTGACTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
19 2 0.04
20 54 0.96
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.40
Consensus pattern (21 bp):
GCGTTGCGATTTACATATTAT
Found at i:625674 original size:31 final size:31
Alignment explanation
Indices: 625636--625697 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
625626 ATTTATAAAT
625636 ATATATATTTTTACATTAGGTGAGGCAAAAA
1 ATATATATTTTTACATTAGGTGAGGCAAAAA
625667 ATATATATTTTTACATTAGGTGAGGCAAAAA
1 ATATATATTTTTACATTAGGTGAGGCAAAAA
625698 TATTTTACCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.35
Consensus pattern (31 bp):
ATATATATTTTTACATTAGGTGAGGCAAAAA
Found at i:627070 original size:3 final size:3
Alignment explanation
Indices: 627062--627096 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
627052 GTGTATGTAT
627062 TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
627097 CAAATAATAC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:627135 original size:20 final size:20
Alignment explanation
Indices: 627110--627147 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
627100 ATAATACAAT
627110 AAGTCTGGAGGCCCAATTAC
1 AAGTCTGGAGGCCCAATTAC
627130 AAGTCTGGAGGCCCAATT
1 AAGTCTGGAGGCCCAATT
627148 GATAACAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (20 bp):
AAGTCTGGAGGCCCAATTAC
Found at i:628896 original size:3 final size:3
Alignment explanation
Indices: 628888--628956 Score: 93
Period size: 3 Copynumber: 23.0 Consensus size: 3
628878 TTTGATTTAT
* * * *
628888 TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA GTA TTA TTA TTA TAA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
628936 TTA CTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA
628957 AATATATATA
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:630399 original size:24 final size:23
Alignment explanation
Indices: 630371--630419 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
630361 TAAATATATA
*
630371 TAATAAATAATAATTCATATTTTT
1 TAATAAATAAT-ATTAATATTTTT
* *
630395 TAATAAATTATTTTAATATTTTT
1 TAATAAATAATATTAATATTTTT
630418 TA
1 TA
630420 TCGAAGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (23 bp):
TAATAAATAATATTAATATTTTT
Found at i:641806 original size:9 final size:9
Alignment explanation
Indices: 641771--641841 Score: 64
Period size: 9 Copynumber: 8.3 Consensus size: 9
641761 ATTATGCTTG
641771 AAGAGAAAA
1 AAGAGAAAA
641780 AA-A-AAATA
1 AAGAGAAA-A
*
641788 AA-AAAAAA
1 AAGAGAAAA
*
641796 AAGAGAGAA
1 AAGAGAAAA
641805 AA-AG-AAA
1 AAGAGAAAA
641812 AA-AGAAAA
1 AAGAGAAAA
641820 AAGAGAAAA
1 AAGAGAAAA
641829 AAGAAGAAAA
1 AAG-AGAAAA
641839 AAG
1 AAG
641842 GGGGGTCAAG
Statistics
Matches: 53, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
7 9 0.17
8 15 0.28
9 20 0.38
10 9 0.17
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.01
Consensus pattern (9 bp):
AAGAGAAAA
Found at i:641812 original size:22 final size:22
Alignment explanation
Indices: 641778--641840 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 22
641768 TTGAAGAGAA
*
641778 AAAAAAAATAAAAAAAAAAAGAG
1 AAAAAAGA-AAAAAAAAAAAGAG
641801 AGAAAAAGAAAAAAGAAAAAAGAG
1 A-AAAAAGAAAAAA-AAAAAAGAG
*
641825 AAAAAAGAAGAAAAAA
1 AAAAAAGAAAAAAAAA
641841 GGGGGGTCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
22 3 0.08
23 17 0.47
24 16 0.44
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (22 bp):
AAAAAAGAAAAAAAAAAAAGAG
Found at i:641822 original size:7 final size:7
Alignment explanation
Indices: 641771--641841 Score: 60
Period size: 7 Copynumber: 10.4 Consensus size: 7
641761 ATTATGCTTG
*
641771 AAGAGAA
1 AAGAAAA
641778 AA-AAAA
1 AAGAAAA
*
641784 AATAAAA
1 AAGAAAA
641791 AA-AAAA
1 AAGAAAA
641797 AGAGAGAAA
1 A-AGA-AAA
641806 AAGAAAA
1 AAGAAAA
641813 AAGAAAA
1 AAGAAAA
*
641820 AAG-AGA
1 AAGAAAA
*
641826 AA-AAAG
1 AAGAAAA
641832 AAGAAAA
1 AAGAAAA
641839 AAG
1 AAG
641842 GGGGGTCAAG
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
6 17 0.32
7 28 0.53
8 4 0.08
9 4 0.08
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.01
Consensus pattern (7 bp):
AAGAAAA
Found at i:641841 original size:33 final size:33
Alignment explanation
Indices: 641774--641839 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
641764 ATGCTTGAAG
641774 AGAAAAAAAAAATAAAAAAAAAAAGAGAGAAAA
1 AGAAAAAAAAAATAAAAAAAAAAAGAGAGAAAA
* *
641807 AGAAAAAAGAAAA-AAGAGAAAAAAGA-AGAAAA
1 AGAAAAAA-AAAATAAAAAAAAAAAGAGAGAAAA
641839 A
1 A
641840 AGGGGGGTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
32 7 0.23
33 19 0.63
34 4 0.13
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (33 bp):
AGAAAAAAAAAATAAAAAAAAAAAGAGAGAAAA
Found at i:643128 original size:83 final size:83
Alignment explanation
Indices: 642990--643697 Score: 1364
Period size: 83 Copynumber: 8.5 Consensus size: 83
642980 AACAAATGTC
642990 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
643055 ATTGAATTTGGAAGAATA
66 ATTGAATTTGGAAGAATA
643073 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
643138 ATTGAATTTGGAAGAATA
66 ATTGAATTTGGAAGAATA
643156 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
643221 ATTGAATTTGGAAGAATA
66 ATTGAATTTGGAAGAATA
*
643239 ATGTGCTCATAGCATCTTTTGGAAGTGTTC-TTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
643303 ATTGAATTTGGAAGAATA
66 ATTGAATTTGGAAGAATA
643321 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
643386 ATTGAATTTGGAAGAATA
66 ATTGAATTTGGAAGAATA
*
643404 ATGTGCTCATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
643469 ATTGAATTTGGAAGAATA
66 ATTGAATTTGGAAGAATA
643487 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
643552 ATTGAATTTGGAAGAATA
66 ATTGAATTTGGAAGAATA
* * *
643570 ATGTGCTTATAGCATCTTCTGGAAGTGTTCTTTGAGTTATATGATCTGGTTTGATAAAACCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
643635 ATTGAATTTGGAAGAATA
66 ATTGAATTTGGAAGAATA
643653 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
643698 TTTGTTTAGT
Statistics
Matches: 615, Mismatches: 9, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
82 81 0.13
83 534 0.87
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (83 bp):
ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
ATTGAATTTGGAAGAATA
Found at i:643595 original size:331 final size:332
Alignment explanation
Indices: 642990--643697 Score: 1364
Period size: 331 Copynumber: 2.1 Consensus size: 332
642980 AACAAATGTC
642990 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
*
643055 ATTGAATTTGGAAGAATAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
66 ATTGAATTTGGAAGAATAATGTGCTCATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCT
643120 GGTTTGGTAAAACCAATCATTGAATTTGGAAGAATAATGTGCTCATAGCATCTTCTGGAAGTGTT
131 GGTTTGGTAAAACCAATCATTGAATTTGGAAGAATAATGTGCTCATAGCATCTTCTGGAAGTGTT
643185 CTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATTGAATTTGGAAGAATAATGTGCTCATA
196 CTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATTGAATTTGGAAGAATAATGTGCTCATA
* * *
643250 GCATCTTTTGGAAGTGTTC-TTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATTGAATTTGG
261 GCATCTTCTGGAAGTGTTCTTTGAGTTATATGATCTGGTTTGATAAAACCAATCATTGAATTTGG
643314 AAGAATA
326 AAGAATA
643321 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
643386 ATTGAATTTGGAAGAATAATGTGCTCATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCT
66 ATTGAATTTGGAAGAATAATGTGCTCATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCT
643451 GGTTTGGTAAAACCAATCATTGAATTTGGAAGAATAATGTGCTCATAGCATCTTCTGGAAGTGTT
131 GGTTTGGTAAAACCAATCATTGAATTTGGAAGAATAATGTGCTCATAGCATCTTCTGGAAGTGTT
*
643516 CTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATTGAATTTGGAAGAATAATGTGCTTATA
196 CTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATTGAATTTGGAAGAATAATGTGCTCATA
643581 GCATCTTCTGGAAGTGTTCTTTGAGTTATATGATCTGGTTTGATAAAACCAATCATTGAATTTGG
261 GCATCTTCTGGAAGTGTTCTTTGAGTTATATGATCTGGTTTGATAAAACCAATCATTGAATTTGG
643646 AAGAATA
326 AAGAATA
643653 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
643698 TTTGTTTAGT
Statistics
Matches: 371, Mismatches: 5, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
331 276 0.74
332 95 0.26
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (332 bp):
ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
ATTGAATTTGGAAGAATAATGTGCTCATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCT
GGTTTGGTAAAACCAATCATTGAATTTGGAAGAATAATGTGCTCATAGCATCTTCTGGAAGTGTT
CTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATTGAATTTGGAAGAATAATGTGCTCATA
GCATCTTCTGGAAGTGTTCTTTGAGTTATATGATCTGGTTTGATAAAACCAATCATTGAATTTGG
AAGAATA
Found at i:644647 original size:113 final size:113
Alignment explanation
Indices: 644452--644978 Score: 808
Period size: 113 Copynumber: 4.7 Consensus size: 113
644442 CATAACAATA
* *
644452 GATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATTTGAAGAAGGAAGAAGAAGTTCA
1 GATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
* * *
644517 TAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTCATCACTTGATA
66 TAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATTCATCAATTGATG
*
644565 GATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
1 GATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
644630 TAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATTCATCAATTGATG
66 TAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATTCATCAATTGATG
* *
644678 GATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATTTGAAGAAGGAAGAAGAAGTTCA
1 GATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
644743 TAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATTCATCAATTGATG
66 TAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATTCATCAATTGATG
* *
644791 GATCAGCCTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
1 GATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
* ** *
644856 TAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCAATTGATG
66 TAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATTCATCAATTGATG
* * * * * * * **
644904 GATTAACATTGCCAGATAGAGTTCATAATCAGAAGAACTCGTCAT-CTGAA-GAAGAAG-AGTTC
1 GATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATC-TGAAGAAGGAAGAAGAAGTTC
*
644966 ATAATTAGAAGAA
65 ATAATGAGAAGAA
644979 TTCATCATCT
Statistics
Matches: 388, Mismatches: 25, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
111 17 0.04
112 7 0.02
113 363 0.94
114 1 0.00
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.28
Consensus pattern (113 bp):
GATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
TAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATTCATCAATTGATG
Found at i:644963 original size:38 final size:39
Alignment explanation
Indices: 644921--645000 Score: 126
Period size: 38 Copynumber: 2.1 Consensus size: 39
644911 ATTGCCAGAT
*
644921 AGAGTTCATAATCAGAAGAACTCGTCATCTGAAGAA-GA
1 AGAGTTCATAATCAGAAGAACTCATCATCTGAAGAAGGA
* *
644959 AGAGTTCATAATTAGAAGAATTCATCATCTGAAGAAGGA
1 AGAGTTCATAATCAGAAGAACTCATCATCTGAAGAAGGA
644998 AGA
1 AGA
645001 ATAAGTTCAT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
38 33 0.87
39 5 0.13
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.23
Consensus pattern (39 bp):
AGAGTTCATAATCAGAAGAACTCATCATCTGAAGAAGGA
Found at i:645016 original size:154 final size:148
Alignment explanation
Indices: 644809--645182 Score: 576
Period size: 154 Copynumber: 2.5 Consensus size: 148
644799 TTTCCAGAAA
644809 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA-AAGTTCATAATGAGAAGAATTTGTT
644874 CAACCTTTTGTTTAAATTCATCAATTGATGGATTAACATTGCCAGATAGAGTTCATAATCAGAAG
65 CAACCTTTTGTTTAAATTCATCAATTGATGGATTAACATTGCCAGATAGAGTTCATAATCAGAAG
*
644939 AACTCGTCATCTGAAGAAGAAG
130 AA-T--TCATCTGAAGAAAAAG
*
644961 -AGTTCATAATTAGAAGAATTCATCATCTGAAGAAGGAAGAATAAGTTCATAATGAGAAGAATTT
1 AAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAA-AAGTTCATAATGAGAAGAATTT
* * *
645025 GTTCAACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAG
62 GTTCAACCTTTTGTTTAAATTCATCAATTGATGGATTAACATTGCCAGATAGAGTTCATAATCAG
645090 AAGAATTCATCTGAAGAAAAAG
127 AAGAATTCATCTGAAGAAAAAG
* **
645112 AAGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAG--AAGTTCACAATGAGAAGAGCTTGTTC
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAGTTCATAATGAGAAGAATTTGTTC
645174 AACCTTTTG
66 AACCTTTTG
645183 CATAATTCTA
Statistics
Matches: 208, Mismatches: 10, Indels: 15
0.89 0.04 0.06
Matches are distributed among these distances:
145 32 0.15
148 4 0.02
149 12 0.06
150 1 0.00
151 32 0.15
152 17 0.08
153 2 0.01
154 108 0.52
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.29
Consensus pattern (148 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAGTTCATAATGAGAAGAATTTGTTC
AACCTTTTGTTTAAATTCATCAATTGATGGATTAACATTGCCAGATAGAGTTCATAATCAGAAGA
ATTCATCTGAAGAAAAAG
Found at i:645117 original size:36 final size:36
Alignment explanation
Indices: 645077--645165 Score: 151
Period size: 36 Copynumber: 2.5 Consensus size: 36
645067 TGCCAGGTAG
*
645077 AGTTCATAATGAGAAGAATTCATCTGAAGAAAAAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAAAAGA
*
645113 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAAAAGA
*
645149 AGTTCACAATGAGAAGA
1 AGTTCATAATGAGAAGA
645166 GCTTGTTCAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.48, C:0.10, G:0.21, T:0.20
Consensus pattern (36 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAAAAGA
Found at i:645302 original size:84 final size:82
Alignment explanation
Indices: 645156--645331 Score: 210
Period size: 84 Copynumber: 2.1 Consensus size: 82
645146 AGAAGTTCAC
* * * * * *
645156 AATGAGAAGAGCTTGTTCAACCTTTTGCATAATTCTATCACAGAAGTAAATAGATTAGCATCAAC
1 AATGAGAAGAGCTTATTCAACCTTTTGAATAACTCTATCACAGAAGAAAATAGATCAACATCAAC
645221 CTTTCCAG-AGAAAGCTCAT
66 C---CCAGCAGAAAGCTCAT
* * * * *
645240 AATGAGAAGAGCTTATTTAATCTTTTGAATGACTCTATCACAGAAGAAAATAGGTCAACATCATC
1 AATGAGAAGAGCTTATTCAACCTTTTGAATAACTCTATCACAGAAGAAAATAGATCAACATCAAC
*
645305 CCCAGCAGAAAGTTCAT
66 CCCAGCAGAAAGCTCAT
645322 AATGAGAAGA
1 AATGAGAAGA
645332 ATTCATCTGA
Statistics
Matches: 79, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
81 4 0.05
82 20 0.25
84 55 0.70
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (82 bp):
AATGAGAAGAGCTTATTCAACCTTTTGAATAACTCTATCACAGAAGAAAATAGATCAACATCAAC
CCCAGCAGAAAGCTCAT
Found at i:645509 original size:3 final size:3
Alignment explanation
Indices: 645501--645562 Score: 79
Period size: 3 Copynumber: 20.3 Consensus size: 3
645491 TTTGATTTAT
* * *
645501 TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA GTA TTA TTA TTAA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA
*
645547 TTA CTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA T
645563 ATATATATAT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
3 48 0.96
4 2 0.04
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:645567 original size:2 final size:2
Alignment explanation
Indices: 645560--645634 Score: 150
Period size: 2 Copynumber: 37.5 Consensus size: 2
645550 CTATTATTAT
645560 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
645602 TA TA TA TA 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
645635 TAATAATTAC
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 73 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:647062 original size:24 final size:23
Alignment explanation
Indices: 647034--647081 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
647024 TAAATATAAA
*
647034 AATAAATAATAATTCATATTTTTT
1 AATAAATAAT-ATTAATATTTTTT
* *
647058 AATAAATTATTTTAATATTTTTT
1 AATAAATAATATTAATATTTTTT
647081 A
1 A
647082 TCGAAGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (23 bp):
AATAAATAATATTAATATTTTTT
Found at i:648560 original size:29 final size:28
Alignment explanation
Indices: 648493--648646 Score: 121
Period size: 29 Copynumber: 5.3 Consensus size: 28
648483 ACTTTCATTT
* * * *
648493 TAATTTGTAAAAATATTTTTCTTTTTATTT
1 TAATTTATAAAAATATTTATC--CTTATTA
* *
648523 TAAATTATAAAAATATTTATCCTTGATTG
1 TAATTTATAAAAATATTTATCCTT-ATTA
* *
648552 TAATTTAT-AAAATATTTTTTCTCCTATTA
1 TAATTTATAAAAATA-TTTATC-CTTATTA
*
648581 TAATTTATAAAAAGATTTATCCTATATTA
1 TAATTTATAAAAATATTTATCCT-TATTA
* * * *
648610 TAATTTACAAAAAGATTTATTCTCGATTA
1 TAATTTATAAAAATATTTATCCT-TATTA
648639 TAATTTAT
1 TAATTTAT
648647 TATTCTATAA
Statistics
Matches: 102, Mismatches: 17, Indels: 11
0.78 0.13 0.08
Matches are distributed among these distances:
28 9 0.09
29 68 0.67
30 25 0.25
ACGTcount: A:0.38, C:0.07, G:0.04, T:0.51
Consensus pattern (28 bp):
TAATTTATAAAAATATTTATCCTTATTA
Found at i:648591 original size:58 final size:58
Alignment explanation
Indices: 648518--648646 Score: 154
Period size: 58 Copynumber: 2.2 Consensus size: 58
648508 TTTTTCTTTT
* * * * * * *
648518 TATTTTAAATTATAAAAATATTTATCCT-TGATTGTAATTTA-TAAAATATTTTTTCTCC
1 TATTATAATTTATAAAAAGATTTATCCTAT-ATTATAATTTACAAAAAGATTTATTCT-C
648576 TATTATAATTTATAAAAAGATTTATCCTATATTATAATTTACAAAAAGATTTATTCTC
1 TATTATAATTTATAAAAAGATTTATCCTATATTATAATTTACAAAAAGATTTATTCTC
*
648634 GATTATAATTTAT
1 TATTATAATTTAT
648647 TATTCTATAA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
58 48 0.79
59 13 0.21
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.49
Consensus pattern (58 bp):
TATTATAATTTATAAAAAGATTTATCCTATATTATAATTTACAAAAAGATTTATTCTC
Found at i:652359 original size:14 final size:14
Alignment explanation
Indices: 652326--652352 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
652316 TACTGTAGCA
652326 GGTATTGTTCATAT
1 GGTATTGTTCATAT
652340 GGTATTGTTCATA
1 GGTATTGTTCATA
652353 CTGTATTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.22, T:0.48
Consensus pattern (14 bp):
GGTATTGTTCATAT
Found at i:655517 original size:18 final size:18
Alignment explanation
Indices: 655494--655535 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
655484 AATAAAGTAT
655494 GATATGGATCTGAATATG
1 GATATGGATCTGAATATG
655512 GATATGGATCTGAATATG
1 GATATGGATCTGAATATG
*
655530 GTTATG
1 GATATG
655536 TATTTGGATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.31, C:0.05, G:0.29, T:0.36
Consensus pattern (18 bp):
GATATGGATCTGAATATG
Found at i:656692 original size:11 final size:14
Alignment explanation
Indices: 656662--656697 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
656652 AAACATTTCA
656662 TCTTCTTCCTCCTT
1 TCTTCTTCCTCCTT
*
656676 TCTTCTTCCTCTTT
1 TCTTCTTCCTCCTT
656690 TCTTCTTC
1 TCTTCTTC
656698 TCCAACCGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (14 bp):
TCTTCTTCCTCCTT
Found at i:658296 original size:23 final size:23
Alignment explanation
Indices: 658270--658346 Score: 77
Period size: 23 Copynumber: 3.3 Consensus size: 23
658260 GGCACTACAA
*
658270 TGCAATTCTATGTGGCACTTCGG
1 TGCAATTCTACGTGGCACTTCGG
* *
658293 TGCATTTCTACGCGGTC-CTTCGG
1 TGCAATTCTACGTGG-CACTTCGG
*
658316 -GACAATTTCTACGTGGCACTTCAG
1 TG-CAA-TTCTACGTGGCACTTCGG
658340 TGCAATT
1 TGCAATT
658347 TATACGAGCT
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
22 1 0.02
23 23 0.53
24 18 0.42
25 1 0.02
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (23 bp):
TGCAATTCTACGTGGCACTTCGG
Found at i:658337 original size:24 final size:23
Alignment explanation
Indices: 658270--658352 Score: 71
Period size: 24 Copynumber: 3.5 Consensus size: 23
658260 GGCACTACAA
* *
658270 TGCAATTCTATGTGGCACTTCGG
1 TGCATTTCTACGTGGCACTTCGG
*
658293 TGCATTTCTACGCGGTC-CTTCGG
1 TGCATTTCTACGTGG-CACTTCGG
*
658316 -GACAATTTCTACGTGGCACTTCAG
1 TG-C-ATTTCTACGTGGCACTTCGG
*
658340 TGCAATTTATACG
1 TGC-ATTTCTACG
658353 AGCTGTGGTG
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
22 1 0.02
23 20 0.41
24 27 0.55
25 1 0.02
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (23 bp):
TGCATTTCTACGTGGCACTTCGG
Found at i:661314 original size:21 final size:21
Alignment explanation
Indices: 661288--661336 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
661278 AGATGAGCTA
661288 TGACTTTGCAATAAG-GTTG-CT
1 TGACTTTGCAA-AAGTG-TGCCT
661309 TGACTTTGCAAAAGTGTGCCT
1 TGACTTTGCAAAAGTGTGCCT
661330 TGACTTT
1 TGACTTT
661337 TAATTATTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.19
21 21 0.81
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.39
Consensus pattern (21 bp):
TGACTTTGCAAAAGTGTGCCT
Found at i:664038 original size:63 final size:65
Alignment explanation
Indices: 663969--664129 Score: 181
Period size: 63 Copynumber: 2.5 Consensus size: 65
663959 TCCCTTGACA
* * *
663969 GGTGCATCGATGCACTATC-TATGCATCGATGCA-TAAAT-CATATTCGATGTTTGTA-TTTAAG
1 GGTGCATCGATGCACTATCATGTGCATCGATACACTAAATGC--ATTCGATGTTTGTATTTTAAA
664030 GG
64 GG
* * * * *
664032 GGTGCATCGATGCACTA-CTTGTGTATCGATACACTGATTGCATTCGATGTTTTTATTTTAAAGG
1 GGTGCATCGATGCACTATCATGTGCATCGATACACTAAATGCATTCGATGTTTGTATTTTAAAGG
*
664096 AGTGCATCGATGCACT-TCATGTGCATCGATACAC
1 GGTGCATCGATGCACTATCATGTGCATCGATACAC
664130 CTTGAACCAT
Statistics
Matches: 83, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
62 1 0.01
63 41 0.49
64 40 0.48
65 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (65 bp):
GGTGCATCGATGCACTATCATGTGCATCGATACACTAAATGCATTCGATGTTTGTATTTTAAAGG
Found at i:664124 original size:64 final size:63
Alignment explanation
Indices: 664010--664129 Score: 177
Period size: 64 Copynumber: 1.9 Consensus size: 63
664000 CATAAATCAT
* * * *
664010 ATTCGATGTTTGTATTTAAGGGGGTGCATCGATGCACTACTTGTGTATCGATACACTGATTGC
1 ATTCGATGTTTGTATTTAAAGGAGTGCATCGATGCACTACATGTGCATCGATACACTGATTGC
* *
664073 ATTCGATGTTTTTATTTTAAAGGAGTGCATCGATGCACTTCATGTGCATCGATACAC
1 ATTCGATGTTTGTA-TTTAAAGGAGTGCATCGATGCACTACATGTGCATCGATACAC
664130 CTTGAACCAT
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
63 13 0.26
64 37 0.74
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.37
Consensus pattern (63 bp):
ATTCGATGTTTGTATTTAAAGGAGTGCATCGATGCACTACATGTGCATCGATACACTGATTGC
Found at i:665720 original size:21 final size:21
Alignment explanation
Indices: 665694--665738 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
665684 GATTTCTGGG
* *
665694 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
665715 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
665736 CAA
1 CAA
665739 ACGAACAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:666876 original size:31 final size:31
Alignment explanation
Indices: 666749--666876 Score: 150
Period size: 31 Copynumber: 4.1 Consensus size: 31
666739 AGAGTCGAAG
*
666749 GTTTACCTATGTTCTTCGGGACATATGGACA
1 GTTTACCTATGTTCTTCGGAACATATGGACA
* **
666780 GAATTACCTATG-TCTTTAGAGACATATGGACA
1 G-TTTACCTATGTTCTTCGGA-ACATATGGACA
* **
666812 GTATACCTATGTTCTAAGGAACATATGGACA
1 GTTTACCTATGTTCTTCGGAACATATGGACA
* *
666843 GTTTACCTAGGTTCTTCGGAACCTATGGACA
1 GTTTACCTATGTTCTTCGGAACATATGGACA
666874 GTT
1 GTT
666877 GCCGAGGATC
Statistics
Matches: 80, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
31 54 0.68
32 26 0.32
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGAACATATGGACA
Found at i:666914 original size:30 final size:30
Alignment explanation
Indices: 666863--666934 Score: 117
Period size: 30 Copynumber: 2.4 Consensus size: 30
666853 GTTCTTCGGA
* * *
666863 ACCTATGGACAGTTGCCGAGGATCTTTATG
1 ACCTCTGGATAGTTACCGAGGATCTTTATG
666893 ACCTCTGGATAGTTACCGAGGATCTTTATG
1 ACCTCTGGATAGTTACCGAGGATCTTTATG
666923 ACCTCTGGATAG
1 ACCTCTGGATAG
666935 GTCATTCGGG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.31
Consensus pattern (30 bp):
ACCTCTGGATAGTTACCGAGGATCTTTATG
Found at i:670696 original size:63 final size:64
Alignment explanation
Indices: 670628--670789 Score: 190
Period size: 63 Copynumber: 2.6 Consensus size: 64
670618 ATCCCTTGAC
* * * *
670628 GGGTGCATCGATGCACTATC-TATGCATCGATGCA-TAAATCCCATTCGATGTTTGTA-TTTAAT
1 GGGTGCATCGATGCACTATCATGTGCATCGATACACT-AATCACATTCGATGTTTGTATTTTAAA
* * * *
670690 GAGGTGCATCGATGCACTA-CTTGTGCATCGATACACTGATGACATTCGATGTTTTTATTTTAAA
1 G-GGTGCATCGATGCACTATCATGTGCATCGATACACTAATCACATTCGATGTTTGTATTTTAAA
670754 GGAGTGCATCGATGCACT-TCATGTGCATCGATACAC
1 GG-GTGCATCGATGCACTATCATGTGCATCGATACAC
670790 CTTGAACCAT
Statistics
Matches: 86, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
62 2 0.02
63 46 0.53
64 38 0.44
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (64 bp):
GGGTGCATCGATGCACTATCATGTGCATCGATACACTAATCACATTCGATGTTTGTATTTTAAA
Found at i:674233 original size:17 final size:17
Alignment explanation
Indices: 674208--674242 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
674198 GTAAATTTAT
* *
674208 TTTGGTTACATTAAATA
1 TTTGATTACAATAAATA
674225 TTTGATTACAATAAATA
1 TTTGATTACAATAAATA
674242 T
1 T
674243 GAGGGTAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.46
Consensus pattern (17 bp):
TTTGATTACAATAAATA
Found at i:677932 original size:138 final size:139
Alignment explanation
Indices: 677673--677924 Score: 359
Period size: 138 Copynumber: 1.8 Consensus size: 139
677663 TTCATTTTCT
*
677673 GCAAAAAATCACAACAAAAGTTCACACATTCTCACTGCTATTAACAAGAGAAATACCAAACCAAT
1 GCAAAAAATCACAACAAAAGTTCACACATTCTCACTGCTATTAACAAGAGAAACACCAAACCAAT
* * **
677738 GATGTTCATGTTTTTTCTATCAAAAAACAAGTTTTCTTTCTCGATCATTAACTTCTGCAACATCC
66 GACGTTCATGTTTTTTCTATCAAAAAACAAGTTTTCTTTCTCGAACACCAACTTCTGCAACATCC
677803 ATTGTTTGG
131 ATTGTTTGG
* * *
677812 GCAAAAAA-CACAACTAAAGTTCACACATTTTCACTGTTATTAACAAGAGAAAAACACCAAACCA
1 GCAAAAAATCACAACAAAAGTTCACACATTCTCACTGCTATTAACAAGAG--AAACACCAAACCA
* *
677876 ATGACGTTCATG-TTTTTCTATC-AAAACCCAGTTTTCTTTCT-GCAACACC
64 ATGACGTTCATGTTTTTTCTATCAAAAAACAAGTTTTCTTTCTCG-AACACC
677925 CATTTCTGGG
Statistics
Matches: 100, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
137 1 0.01
138 58 0.58
139 18 0.18
140 23 0.23
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.30
Consensus pattern (139 bp):
GCAAAAAATCACAACAAAAGTTCACACATTCTCACTGCTATTAACAAGAGAAACACCAAACCAAT
GACGTTCATGTTTTTTCTATCAAAAAACAAGTTTTCTTTCTCGAACACCAACTTCTGCAACATCC
ATTGTTTGG
Found at i:678401 original size:3 final size:3
Alignment explanation
Indices: 678393--678430 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
678383 AGGATCGAGG
678393 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
678431 GTTGTTTTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:680777 original size:21 final size:21
Alignment explanation
Indices: 680738--680777 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
680728 CAACTCATTA
*
680738 TTATTCAAATAGTAAAATATG
1 TTATTCAAATACTAAAATATG
680759 TTATTCAAAT-CTAATAATA
1 TTATTCAAATACTAA-AATA
680778 ATTATAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.40
Consensus pattern (21 bp):
TTATTCAAATACTAAAATATG
Found at i:681418 original size:16 final size:16
Alignment explanation
Indices: 681393--681423 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
681383 GACGAGCAGT
681393 GATGAACACTATTAAC
1 GATGAACACTATTAAC
*
681409 GATGAGCACTATTAA
1 GATGAACACTATTAA
681424 TTTAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (16 bp):
GATGAACACTATTAAC
Found at i:683097 original size:20 final size:20
Alignment explanation
Indices: 683054--683103 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
683044 GAACTGAGGT
* *
683054 AGTATCGATATTGACTTATC
1 AGTATCGATATTGACTCAGC
*
683074 AGTATCGATATTGACTCAGG
1 AGTATCGATATTGACTCAGC
*
683094 AGTATTGATA
1 AGTATCGATA
683104 CCTCCATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (20 bp):
AGTATCGATATTGACTCAGC
Found at i:684171 original size:2 final size:2
Alignment explanation
Indices: 684150--684192 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
684140 AATACCAAAC
* * *
684150 TA TA TG TA TG TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
684192 T
1 T
684193 TATTATTATT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (2 bp):
TA
Found at i:685960 original size:16 final size:16
Alignment explanation
Indices: 685939--685975 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
685929 AGAGAAAGCC
685939 TTAATCTACCCTTAGT
1 TTAATCTACCCTTAGT
685955 TTAATCTACCCTTAGT
1 TTAATCTACCCTTAGT
685971 TTAAT
1 TTAAT
685976 TAGGGTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.27, C:0.22, G:0.05, T:0.46
Consensus pattern (16 bp):
TTAATCTACCCTTAGT
Found at i:694539 original size:15 final size:15
Alignment explanation
Indices: 694519--694549 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
694509 AATACTAATT
694519 TTAGATTTCTTTACC
1 TTAGATTTCTTTACC
694534 TTAGATTTCTTTACC
1 TTAGATTTCTTTACC
694549 T
1 T
694550 CATCGGTACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.19, G:0.06, T:0.55
Consensus pattern (15 bp):
TTAGATTTCTTTACC
Found at i:703021 original size:2 final size:2
Alignment explanation
Indices: 703014--703056 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
703004 TGGATAATGT
703014 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
703056 T
1 T
703057 CCATTTAGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:704263 original size:26 final size:24
Alignment explanation
Indices: 704201--704251 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 24
704191 GAGAATTAAT
704201 TGATTTATTTTATGAATTAATTTA
1 TGATTTATTTTATGAATTAATTTA
*
704225 TGATTAAGTTTTTATGAATTCAATTTA
1 TGATTTA--TTTTATGAATT-AATTTA
704252 GAGTTTACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 6 0.26
26 11 0.48
27 6 0.26
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (24 bp):
TGATTTATTTTATGAATTAATTTA
Found at i:704263 original size:27 final size:26
Alignment explanation
Indices: 704208--704264 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
704198 AATTGATTTA
*
704208 TTTTATGAATTAATTTATGATTAAGT
1 TTTTATGAATTAATTTATGATTAACT
*
704234 TTTTATGAATTCAATTTA-GAGTTTACT
1 TTTTATGAATT-AATTTATGA-TTAACT
704261 TTTT
1 TTTT
704265 TCGATGTGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 13 0.48
27 14 0.52
ACGTcount: A:0.30, C:0.04, G:0.11, T:0.56
Consensus pattern (26 bp):
TTTTATGAATTAATTTATGATTAACT
Found at i:710578 original size:31 final size:31
Alignment explanation
Indices: 710510--710579 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
710500 ATATAAAACA
*
710510 TGGTCACTTTCGTTTTTATTTAATTAAGATG
1 TGGTCATTTTCGTTTTTATTTAATTAAGATG
*
710541 TAGTCATTTTCGTTTTTATTTAATTAAG-TCG
1 TGGTCATTTTCGTTTTTATTTAATTAAGAT-G
710572 TGGTCATT
1 TGGTCATT
710580 ACGGATTAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
30 1 0.03
31 34 0.97
ACGTcount: A:0.21, C:0.10, G:0.16, T:0.53
Consensus pattern (31 bp):
TGGTCATTTTCGTTTTTATTTAATTAAGATG
Found at i:712530 original size:14 final size:14
Alignment explanation
Indices: 712502--712534 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
712492 ATGCATAATT
712502 ACTAATAAAACTAA
1 ACTAATAAAACTAA
712516 ACTAAGTAAAA-TAA
1 ACTAA-TAAAACTAA
712530 ACTAA
1 ACTAA
712535 AATAGTTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.64, C:0.12, G:0.03, T:0.21
Consensus pattern (14 bp):
ACTAATAAAACTAA
Found at i:712828 original size:18 final size:17
Alignment explanation
Indices: 712795--712828 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
712785 GAATAATTAA
712795 ATAAAATATCAAAATAT
1 ATAAAATATCAAAATAT
*
712812 ATAAAATCATTAAAATA
1 ATAAAAT-ATCAAAATA
712829 AAACAGACTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAAAATATCAAAATAT
Found at i:720925 original size:18 final size:17
Alignment explanation
Indices: 720892--720925 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
720882 GAATAATTAA
720892 ATAAAATATCAAAATAT
1 ATAAAATATCAAAATAT
*
720909 ATAAAATCATTAAAATA
1 ATAAAAT-ATCAAAATA
720926 AAACAGACTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAAAATATCAAAATAT
Found at i:724738 original size:19 final size:20
Alignment explanation
Indices: 724702--724739 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
724692 TAACTTGATT
*
724702 GTTGACCAGACCTATTGACC
1 GTTGACCAGACCCATTGACC
*
724722 GTTGA-CAGACCCGTTGAC
1 GTTGACCAGACCCATTGAC
724740 TTTGACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.24
Consensus pattern (20 bp):
GTTGACCAGACCCATTGACC
Found at i:733655 original size:20 final size:20
Alignment explanation
Indices: 733626--733665 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
733616 TGGCTTCTCC
*
733626 TTAGTTCATTCTAAAATAGA
1 TTAGTACATTCTAAAATAGA
733646 TTAGTACATTCTAAAATAGA
1 TTAGTACATTCTAAAATAGA
733666 CACAACAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (20 bp):
TTAGTACATTCTAAAATAGA
Found at i:745288 original size:15 final size:16
Alignment explanation
Indices: 745258--745292 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
745248 TGTGCAAATC
745258 CGGGTACCCGGATTTT
1 CGGGTACCCGGATTTT
745274 CGGGTACCC-GATTTT
1 CGGGTACCCGGATTTT
745289 CGGG
1 CGGG
745293 AACTCGGAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.11, C:0.26, G:0.34, T:0.29
Consensus pattern (16 bp):
CGGGTACCCGGATTTT
Found at i:745374 original size:32 final size:32
Alignment explanation
Indices: 745338--745404 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
745328 GTGTCCCGAT
745338 CCGGATGTTACGGGTACCCGGTAATCAGATAC
1 CCGGATGTTACGGGTACCCGGTAATCAGATAC
* ** * *
745370 CCGGATTTTGTGGGTACCCGGTAATCGGGTAC
1 CCGGATGTTACGGGTACCCGGTAATCAGATAC
745402 CCG
1 CCG
745405 ATACCCGGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.19, C:0.25, G:0.31, T:0.24
Consensus pattern (32 bp):
CCGGATGTTACGGGTACCCGGTAATCAGATAC
Found at i:745401 original size:15 final size:15
Alignment explanation
Indices: 745348--745404 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
745338 CCGGATGTTA
745348 CGGGTACCCGGTAAT
1 CGGGTACCCGGTAAT
* * **
745363 CAGATACCCGGATTTT
1 CGGGTACCCGG-TAAT
*
745379 GTGGGTACCCGGTAAT
1 -CGGGTACCCGGTAAT
745395 CGGGTACCCG
1 CGGGTACCCG
745405 ATACCCGGTT
Statistics
Matches: 30, Mismatches: 10, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
15 18 0.60
16 4 0.13
17 8 0.27
ACGTcount: A:0.19, C:0.26, G:0.32, T:0.23
Consensus pattern (15 bp):
CGGGTACCCGGTAAT
Found at i:745941 original size:19 final size:19
Alignment explanation
Indices: 745904--745976 Score: 60
Period size: 18 Copynumber: 3.8 Consensus size: 19
745894 TTTGGGGTTC
* *
745904 TTTTGTAAATAAA-TTATT
1 TTTTATAAAAAAATTTATT
745922 TTTTATAAAAAAATTTATT
1 TTTTATAAAAAAATTTATT
*
745941 TTTCATTAAAAATAATATT-TT
1 TTTTA-TAAAAA-AAT-TTATT
* *
745962 TATTATTAAAAAATT
1 TTTTATAAAAAAATT
745977 AAAAAAATTA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
18 12 0.27
19 12 0.27
20 11 0.24
21 8 0.18
22 2 0.04
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (19 bp):
TTTTATAAAAAAATTTATT
Found at i:745981 original size:9 final size:9
Alignment explanation
Indices: 745969--745993 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
745959 TTTTATTATT
745969 AAAAAATTA
1 AAAAAATTA
745978 AAAAAATTA
1 AAAAAATTA
745987 AAAAAAT
1 AAAAAAT
745994 AACATTGAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (9 bp):
AAAAAATTA
Found at i:749463 original size:20 final size:18
Alignment explanation
Indices: 749436--749481 Score: 74
Period size: 20 Copynumber: 2.4 Consensus size: 18
749426 TAATTTAAAC
749436 ATATAAAATTAAAATATAA
1 ATATAAAATTAAAAT-TAA
749455 ATAATAAAATTAAAATTAA
1 AT-ATAAAATTAAAATTAA
749474 ATATAAAA
1 ATATAAAA
749482 AGTAATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.23
19 7 0.27
20 13 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
ATATAAAATTAAAATTAA
Found at i:750548 original size:3 final size:3
Alignment explanation
Indices: 750523--750567 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
750513 TTTGGGCCTG
750523 TAA T-A TAA TAA -AA TTAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA -TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
750568 ATAAAAAAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
2 4 0.11
3 29 0.76
4 5 0.13
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:751112 original size:113 final size:113
Alignment explanation
Indices: 750909--751903 Score: 1358
Period size: 113 Copynumber: 8.9 Consensus size: 113
750899 AGAGTTATGC
* * * * * *
750909 AAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTATT-TTTCTTCAGATAAGCTCTTCTTAT
1 AAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * * * *
750973 TATGAAC-CTTCTCTGGAAAAGTTGATCCATCGAGTGATGAATTCAAACA
65 TATGAACTCTAC-CTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
* * *
751022 AAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGACGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * * **
751087 ATGAACTCTACCTGGAAAAGCTGATCCATCGAGTGATGGATTTGAGC-
66 ATGAACTCTACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
* * *
751134 AAAAGGTTGAACAAGCTCTTTTCATTATGAA------CTT-ATTCTTCAGATGAGTTCTTCTCAT
1 AAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * *
751192 TATGAACTCTA-CTGGTAATGCTAATCCATTGAATGATGAATTCGAGCA
65 TATGAACTCTACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
*
751240 AAAAGTTGAATAAGTTCTTCTCATTATGAACTTCTTCTT-C-T-TT-AGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * *
751301 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTTAAGCG
66 ATGAACTCTACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
751349 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
751414 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCTACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
751462 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * *
751527 ATAAACT-TGATCTGGTAATGATGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCT-ACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
751575 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * *
751640 ATGAACTCGACATGGTAATGCTGATCCATCGAATGATGAATTCAAGTG
66 ATGAACTCTACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
*
751688 AAAAGCTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
751753 ATGAACTCGACCTGGTAATGTTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCTACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
* * *
751801 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTGCTTTCTTCAGATAAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* ** * *
751866 ATGAACT-TTCTCTGAAAAAGTTGATCCATCGAATGATG
66 ATGAACTCTAC-CTGGTAATGCTGATCCATCGAATGATG
751904 GATTTGAACT
Statistics
Matches: 800, Mismatches: 64, Indels: 36
0.89 0.07 0.04
Matches are distributed among these distances:
105 52 0.06
106 37 0.05
107 3 0.00
108 27 0.03
109 71 0.09
110 2 0.00
111 4 0.00
112 38 0.05
113 563 0.70
114 3 0.00
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.36
Consensus pattern (113 bp):
AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTCTACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
Found at i:752334 original size:22 final size:22
Alignment explanation
Indices: 752309--752363 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
752299 GATAAAGCTT
* *
752309 TCATCTTTGAAAAGAGAATTTG
1 TCATCTTTGAAAAGAGAATCTA
* *
752331 TCATCTTTAAAAAGGGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
752353 TCATCTTTGAA
1 TCATCTTTGAA
752364 GAGTGTAGAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:752810 original size:54 final size:54
Alignment explanation
Indices: 752728--752883 Score: 276
Period size: 54 Copynumber: 2.9 Consensus size: 54
752718 AGAATAGCAG
* *
752728 GTTCGTAAAACATTTGATAGCGCATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAGCACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
*
752782 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAGCACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
*
752836 GTTCATAAAACATTTGACAGCACATTCATCCTTTCCTGTGGCTTCTGC
1 GTTCGTAAAACATTTGACAGCACATTCATCCTTTCCTGTGGCTTCTGC
752884 CAAGATTTCT
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 97 1.00
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.36
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAGCACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
Found at i:755170 original size:114 final size:114
Alignment explanation
Indices: 754982--755433 Score: 778
Period size: 114 Copynumber: 4.0 Consensus size: 114
754972 TATCATGCAG
* * * * *
754982 TTCATCTTTCAATTCCAATGATTGGTTCTGGGGTTCCTATCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
* * * * *
755047 ATACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAGA
66 ACACTTCCAGAAGATGCTATTGGGGCTCCTTATTTCTACTACGAGCAAA
755096 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
*
755161 ACACTTCCAGAAGATGCTATTAGGGCTCCTTATTTCTACTACGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGGCTCCTTATTTCTACTACGAGCAAA
* *
755210 TTCATCTTTCAAATCTAATGATTGGTTTTGGGGTTTATACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
755275 ACACTTCCAGAAGATGCTATTGGGGCTCCTTATTTCTACTACGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGGCTCCTTATTTCTACTACGAGCAAA
755324 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
*
755389 ACACTTCCAGAAGATGCTATTGGGGCTTCTTATTTCTACTACGAG
66 ACACTTCCAGAAGATGCTATTGGGGCTCCTTATTTCTACTACGAG
755434 AACATGGCAC
Statistics
Matches: 321, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
114 321 1.00
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.32
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGGCTCCTTATTTCTACTACGAGCAAA
Found at i:757579 original size:10 final size:10
Alignment explanation
Indices: 757566--757670 Score: 83
Period size: 10 Copynumber: 10.2 Consensus size: 10
757556 AATTTTCCTC
757566 TTTTTTTTCT
1 TTTTTTTTCT
757576 TTTTTTTTCT
1 TTTTTTTTCT
757586 TTTTTTTT-T
1 TTTTTTTTCT
*
757595 TTTATTTT-T
1 TTTTTTTTCT
*
757604 TTTTCTTT-T
1 TTTTTTTTCT
*
757613 TTTTTTTCCT
1 TTTTTTTTCT
757623 TTTTAATCTTT-T
1 TTTT--T-TTTCT
757635 TTCTTTTTTCAT
1 TT-TTTTTTC-T
757647 CTTTTTTTTCT
1 -TTTTTTTTCT
*
757658 TTCTTCTTTCT
1 TT-TTTTTTCT
757669 TT
1 TT
757671 GCTGGATTTT
Statistics
Matches: 79, Mismatches: 7, Indels: 17
0.77 0.07 0.17
Matches are distributed among these distances:
9 22 0.28
10 28 0.35
11 11 0.14
12 12 0.15
13 6 0.08
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:757580 original size:7 final size:7
Alignment explanation
Indices: 757568--757692 Score: 82
Period size: 7 Copynumber: 17.4 Consensus size: 7
757558 TTTTCCTCTT
757568 TTTTTTC
1 TTTTTTC
757575 TTTTTT-
1 TTTTTTC
757581 TTTCTTT-
1 TTT-TTTC
757588 TTTTTT-
1 TTTTTTC
*
757594 TTTTATTT
1 TTTT-TTC
757602 TTTTTTC
1 TTTTTTC
757609 TTTTTT-
1 TTTTTTC
*
757615 TTTTTCC
1 TTTTTTC
757622 TTTTTAATC
1 TTTTT--TC
757631 TTTTTTC
1 TTTTTTC
757638 TTTTTTC
1 TTTTTTC
* *
757645 -ATCTT-
1 TTTTTTC
757650 TTTTTTC
1 TTTTTTC
*
757657 TTTCTTC
1 TTTTTTC
757664 TTTCTTTGC
1 TTT-TTT-C
757673 TGGATTTTTC
1 T---TTTTTC
757683 TTTTTTC
1 TTTTTTC
757690 TTT
1 TTT
757693 CTTTGTTGGA
Statistics
Matches: 96, Mismatches: 9, Indels: 26
0.73 0.07 0.20
Matches are distributed among these distances:
6 21 0.22
7 54 0.56
8 6 0.06
9 8 0.08
10 2 0.02
11 3 0.03
12 2 0.02
ACGTcount: A:0.04, C:0.13, G:0.02, T:0.81
Consensus pattern (7 bp):
TTTTTTC
Found at i:757636 original size:1 final size:1
Alignment explanation
Indices: 757566--757619 Score: 72
Period size: 1 Copynumber: 54.0 Consensus size: 1
757556 AATTTTCCTC
* * * *
757566 TTTTTTTTCTTTTTTTTTCTTTTTTTTTTTTTATTTTTTTTTCTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
757620 CCTTTTTAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.02, C:0.06, G:0.00, T:0.93
Consensus pattern (1 bp):
T
Found at i:757680 original size:26 final size:26
Alignment explanation
Indices: 757651--757703 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
757641 TTTCATCTTT
757651 TTTTTCTTTCTTCTTTCTTTGCTGGA
1 TTTTTCTTTCTTCTTTCTTTGCTGGA
* *
757677 TTTTTCTTTTTTCTTTCTTTGTTGGA
1 TTTTTCTTTCTTCTTTCTTTGCTGGA
757703 T
1 T
757704 GAGTATAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.04, C:0.15, G:0.11, T:0.70
Consensus pattern (26 bp):
TTTTTCTTTCTTCTTTCTTTGCTGGA
Found at i:759069 original size:11 final size:11
Alignment explanation
Indices: 759053--759083 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
759043 GATTTTTATC
759053 CATTTCTTGAT
1 CATTTCTTGAT
759064 CATTTCTTGAT
1 CATTTCTTGAT
759075 CATTTCTTG
1 CATTTCTTG
759084 TGTCAAGACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.16, C:0.19, G:0.10, T:0.55
Consensus pattern (11 bp):
CATTTCTTGAT
Found at i:761271 original size:14 final size:14
Alignment explanation
Indices: 761228--761291 Score: 65
Period size: 14 Copynumber: 4.5 Consensus size: 14
761218 AAAGCAAACA
*
761228 TAAAAATACAAATG
1 TAAAAATGCAAATG
* * *
761242 CAAAGATGTTAAATG
1 TAAAAATG-CAAATG
*
761257 TAAATATGCAAATG
1 TAAAAATGCAAATG
*
761271 TAAAAATGTAAATG
1 TAAAAATGCAAATG
761285 TAAAAAT
1 TAAAAAT
761292 AATACAAAAG
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
14 29 0.73
15 11 0.28
ACGTcount: A:0.56, C:0.05, G:0.12, T:0.27
Consensus pattern (14 bp):
TAAAAATGCAAATG
Found at i:763869 original size:20 final size:18
Alignment explanation
Indices: 763842--763887 Score: 74
Period size: 20 Copynumber: 2.4 Consensus size: 18
763832 TAATTTAAAC
763842 ATATAAAATTAAAATATAA
1 ATATAAAATTAAAAT-TAA
763861 ATAATAAAATTAAAATTAA
1 AT-ATAAAATTAAAATTAA
763880 ATATAAAA
1 ATATAAAA
763888 AGTAATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.23
19 7 0.27
20 13 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
ATATAAAATTAAAATTAA
Found at i:765196 original size:19 final size:19
Alignment explanation
Indices: 765158--765196 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
765148 GGCCTGTAAT
* * *
765158 ATAATAAAATTAATAAAAA
1 ATAAAAAAAATAAAAAAAA
765177 ATAAAAAAAATAAAAAAAA
1 ATAAAAAAAATAAAAAAAA
765196 A
1 A
765197 CCAAATGTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (19 bp):
ATAAAAAAAATAAAAAAAA
Found at i:781968 original size:22 final size:21
Alignment explanation
Indices: 781926--781965 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
781916 GAGTTTGTTT
*
781926 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
781947 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
781966 ACAATTTCTC
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:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:783955 original size:64 final size:63
Alignment explanation
Indices: 783887--784067 Score: 218
Period size: 64 Copynumber: 2.8 Consensus size: 63
783877 TTGGAACACT
* ***
783887 TGATGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCC
** * **
783951 TGATGCATCGATGCATGGCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCC
* * * *
784015 AGAGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 TGA-TGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTT
784068 CAATTAATTC
Statistics
Matches: 99, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
64 54 0.55
65 45 0.45
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (63 bp):
TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCC
Found at i:784039 original size:19 final size:19
Alignment explanation
Indices: 784015--784065 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
784005 GAAAATATTC
784015 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
784034 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
784053 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
784066 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:784041 original size:65 final size:65
Alignment explanation
Indices: 783908--784067 Score: 216
Period size: 65 Copynumber: 2.5 Consensus size: 65
783898 TGCACCAAGT
* ***
783908 GTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAATAGCCTGATGCATCGATGCATGGCTT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
* **
783972 GTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATGGAG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGA-TGCATCGATGCATGGAG
784036 A
65 A
* *
784037 GTGCATCGGTGCATGGAATGCATTCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
784068 CAATTAATTC
Statistics
Matches: 84, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
64 37 0.44
65 47 0.56
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
Found at i:784107 original size:65 final size:63
Alignment explanation
Indices: 783909--784116 Score: 210
Period size: 65 Copynumber: 3.2 Consensus size: 63
783899 GCACCAAGTG
* * *
783909 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTGATGCATCGATGCATGGCTTG-
1 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAAT-TCATGATGCATCGATGCATGAC-TGA
*
783973 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCA-GAGTGCATCGATGCATGGA--
1 TGCATCGATGCATGAAATGCATTCGATG-TTTGAAAA-ATTCATGA-TGCATCGATGCAT-GACT
784035 GA
62 GA
* * * *
784037 GTGCATCGGTGCATGGAATGCATTCGATG-TTCAATTAATTCATCGATGCATCGATGCATGTACT
1 -TGCATCGATGCATGAAATGCATTCGATGTTTGAA-AAATTCAT-GATGCATCGATGCATG-ACT
784101 GA
62 GA
*
784103 TGCATCGGTGCATG
1 TGCATCGATGCATG
784117 CCTTTGAATA
Statistics
Matches: 123, Mismatches: 9, Indels: 23
0.79 0.06 0.15
Matches are distributed among these distances:
63 11 0.09
64 44 0.36
65 63 0.51
66 5 0.04
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (63 bp):
TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATTCATGATGCATCGATGCATGACTGA
Found at i:784512 original size:31 final size:31
Alignment explanation
Indices: 784476--784535 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
784466 AACTTAAAAG
* *
784476 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
*
784507 AGTTTTACAATATTGAAATTTAAATAATT
1 AGTTTTACAATACTGAAATTTAAATAATT
784536 CATACAACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:785014 original size:19 final size:20
Alignment explanation
Indices: 784992--785044 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
784982 TATTTAAACT
784992 TAAATAAAAATAATTAA-AA
1 TAAATAAAAATAATTAATAA
*
785011 TAAATATAAAAT-TTTAATAA
1 TAAATA-AAAATAATTAATAA
*
785031 TATAT-AAAATAATT
1 TAAATAAAAATAATT
785045 TATATGATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 5 0.18
19 12 0.43
20 11 0.39
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAATAAAAATAATTAATAA
Found at i:785046 original size:20 final size:20
Alignment explanation
Indices: 784998--785059 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 20
784988 AACTTAAATA
*
784998 AAAATAATTAAAATAA-ATAT
1 AAAATAATT-TAATAATATAT
785018 AAAAT--TTTAATAATATAT
1 AAAATAATTTAATAATATAT
785036 AAAATAATTT-AT-ATGATAT
1 AAAATAATTTAATAAT-ATAT
785055 AAAAT
1 AAAAT
785060 TAAATATCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
17 5 0.14
18 13 0.35
19 11 0.30
20 8 0.22
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
AAAATAATTTAATAATATAT
Found at i:785130 original size:64 final size:64
Alignment explanation
Indices: 785054--785210 Score: 275
Period size: 64 Copynumber: 2.5 Consensus size: 64
785044 TTATATGATA
785054 TAAAATTAAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTAATAT
1 TAAAATT-AATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTAATAT
785119 TAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTAATAT
1 TAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTAATAT
*
785183 TAAAATTAAAATC-A-AATATAATA-TAAAA
1 TAAAATTAATATCTATAATATAATATTAAAA
785211 TTAAATATAA
Statistics
Matches: 91, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
61 5 0.05
62 9 0.10
63 1 0.01
64 69 0.76
65 7 0.08
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (64 bp):
TAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTAATAT
Found at i:785154 original size:40 final size:37
Alignment explanation
Indices: 785075--785159 Score: 109
Period size: 40 Copynumber: 2.2 Consensus size: 37
785065 ATCTATAATA
*
785075 TAATATTAAAAAATTAATATTTAATTTATTTAAAAAAT
1 TAATATT-AAAAATTAATATTTAATTAATTTAAAAAAT
785113 TAATATT-AAAATTAATATCTATAATATAATATTAAAAAAT
1 TAATATTAAAAATTAATAT-T-TAAT-TAAT-TTAAAAAAT
785153 TAATATT
1 TAATATT
785160 TAATTTATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
36 11 0.26
37 1 0.02
38 11 0.26
39 3 0.07
40 16 0.38
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (37 bp):
TAATATTAAAAATTAATATTTAATTAATTTAAAAAAT
Found at i:785163 original size:26 final size:26
Alignment explanation
Indices: 785110--785191 Score: 100
Period size: 24 Copynumber: 3.2 Consensus size: 26
785100 TTATTTAAAA
785110 AATTAATATT--AAAATTAATATCTAT
1 AATTAATATTAAAAAATTAATAT-TAT
785135 AATATAATATTAAAAAATTAATATT-T
1 AAT-TAATATTAAAAAATTAATATTAT
* *
785161 AATTTAT-TTAAAAAATTAATATTAA
1 AATTAATATTAAAAAATTAATATTAT
785186 AATTAA
1 AATTAA
785192 AATCAAATAT
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
24 16 0.32
25 11 0.22
26 11 0.22
27 1 0.02
28 11 0.22
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (26 bp):
AATTAATATTAAAAAATTAATATTAT
Found at i:785217 original size:12 final size:12
Alignment explanation
Indices: 785172--785222 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
785162 ATTTATTTAA
785172 AAAATT-AATATT
1 AAAATTAAATA-T
785184 AAAATTAAA-AT
1 AAAATTAAATAT
*
785195 CAAA-TATAATAT
1 AAAATTA-AATAT
785207 AAAATTAAATAT
1 AAAATTAAATAT
785219 AAAA
1 AAAA
785223 CCTCTTTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
10 2 0.06
11 6 0.18
12 21 0.64
13 4 0.12
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAATTAAATAT
Found at i:786200 original size:23 final size:23
Alignment explanation
Indices: 786159--786208 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
786149 TATGTTAATT
786159 ATTATTTATAAAAATAATT-TTGA
1 ATTATTTATAAAAATAATTATT-A
*
786182 ATTATTT-TAAAATTAAATTATTA
1 ATTATTTATAAAAAT-AATTATTA
786205 ATTA
1 ATTA
786209 GCTGAACTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 6 0.25
23 16 0.67
24 2 0.08
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
ATTATTTATAAAAATAATTATTA
Found at i:789854 original size:57 final size:58
Alignment explanation
Indices: 789766--789883 Score: 211
Period size: 57 Copynumber: 2.0 Consensus size: 58
789756 ATAAAAACAA
789766 CCCTATAGTTTAGTGACTACATGAGTACCTTTATTTTT-ATTGTTATGGCCCAAGCCT
1 CCCTATAGTTTAGTGACTACATGAGTACCTTTATTTTTGATTGTTATGGCCCAAGCCT
789823 CCCTATAGTTTAGTGACTACATGAGTACCTTTATTTTTGGGATTGTTATGGCCCAAGCCT
1 CCCTATAGTTTAGTGACTACATGAGTACCTTTATTTTT--GATTGTTATGGCCCAAGCCT
789883 C
1 C
789884 ATTTTCATCA
Statistics
Matches: 58, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
57 38 0.66
60 20 0.34
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.39
Consensus pattern (58 bp):
CCCTATAGTTTAGTGACTACATGAGTACCTTTATTTTTGATTGTTATGGCCCAAGCCT
Found at i:791902 original size:4 final size:4
Alignment explanation
Indices: 791893--791945 Score: 52
Period size: 4 Copynumber: 13.2 Consensus size: 4
791883 GTGTTGTAAT
* * * * * *
791893 TATA TATA TACA TACA TACA TACA TACA TACA TATA TATA TATA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
791941 TATA T
1 TATA T
791946 GTGTGTGTGT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 47 1.00
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (4 bp):
TATA
Found at i:800156 original size:25 final size:27
Alignment explanation
Indices: 800097--800157 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
800087 AGTGAAGGAG
*
800097 TTAGAAAGAAATCAGAGCTTCTCTCTC
1 TTAGAGAGAAATCAGAGCTTCTCTCTC
* *
800124 TTAAAGAGAAGTCAGAGC-T-TCTCTC
1 TTAGAGAGAAATCAGAGCTTCTCTCTC
800149 TTAGAGAGA
1 TTAGAGAGA
800158 GAAGCAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 14 0.47
26 1 0.03
27 15 0.50
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (27 bp):
TTAGAGAGAAATCAGAGCTTCTCTCTC
Done.