Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold15
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: 4011073
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 11440 characters in sequence are not A, C, G, or T
File 12 of 25
Found at i:1831508 original size:43 final size:42
Alignment explanation
Indices: 1831400--1831508 Score: 112
Period size: 42 Copynumber: 2.6 Consensus size: 42
1831390 GTAGATGATG
* * * *
1831400 GATGAAGAAGTCTCTTGAGTCTGAGCCAACGGGCAGACAAAA
1 GATGAAGAAGTCTCTTAAGACTAAGCCAACAGGCAGACAAAA
* * * * *
1831442 GATAAAGGAGTCTC-TAGGGACTAAGTCAACAGGCAGACTAAA
1 GATGAAGAAGTCTCTTA-AGACTAAGCCAACAGGCAGACAAAA
1831484 GATGAAGAAAGTCTCTTAAGACTAA
1 GATGAAG-AAGTCTCTTAAGACTAA
1831509 ATCGATAAGT
Statistics
Matches: 52, Mismatches: 12, Indels: 5
0.75 0.17 0.07
Matches are distributed among these distances:
41 1 0.02
42 37 0.71
43 12 0.23
44 2 0.04
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.18
Consensus pattern (42 bp):
GATGAAGAAGTCTCTTAAGACTAAGCCAACAGGCAGACAAAA
Found at i:1831583 original size:42 final size:42
Alignment explanation
Indices: 1831528--1831666 Score: 138
Period size: 42 Copynumber: 3.3 Consensus size: 42
1831518 TAGACGAAAT
* *
1831528 ATGAAGGAAGTCTTCCGGGACTGAGCTGACGAGTAGACAATGG
1 ATGAA-GAAGTCTTCCGAGACTGAGCTGACGAGTAGACGATGG
* * * * *
1831571 ATAAAGAAGTCTTCCAAGTCTGAG-TCGACGGGCAGACGATGG
1 ATGAAGAAGTCTTCCGAGACTGAGCT-GACGAGTAGACGATGG
* * * *
1831613 ATGAAGAAGTC-TCTCGAAATTGAGCTGACAAGTAGATGATGG
1 ATGAAGAAGTCTTC-CGAGACTGAGCTGACGAGTAGACGATGG
1831655 ATGAAGAAGTCT
1 ATGAAGAAGTCT
1831667 CCCTGGTTTG
Statistics
Matches: 76, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
41 3 0.04
42 68 0.89
43 5 0.07
ACGTcount: A:0.33, C:0.15, G:0.31, T:0.21
Consensus pattern (42 bp):
ATGAAGAAGTCTTCCGAGACTGAGCTGACGAGTAGACGATGG
Found at i:1831692 original size:42 final size:42
Alignment explanation
Indices: 1831601--1831837 Score: 137
Period size: 42 Copynumber: 5.6 Consensus size: 42
1831591 TGAGTCGACG
* * * * *
1831601 GGCAGACGATGGATGAAGAAGTCTCTC-GAAATTGAGCTGACA
1 GGCAGATGATGGATGAAGAAGTCTCCCTG-GATTGAGCCGATA
* * * *
1831643 AGTAGATGATGGATGAAGAAGTCTCCCTGGTTTGAGCCGATG
1 GGCAGATGATGGATGAAGAAGTCTCCCTGGATTGAGCCGATA
** * *
1831685 GGCAGATGAAAGTTGAA-AGAGTCT-CCTAGGATTGAGTCGATA
1 GGCAGATGATGGATGAAGA-AGTCTCCCT-GGATTGAGCCGATA
* * * * * * ** **
1831727 GGCAAACGATCGATGAA-AAGGTTTCCCAGG-TCTAAGTTGACG
1 GGCAGATGATGGATGAAGAA-GTCTCCCTGGAT-TGAGCCGATA
*
1831769 GGCAGATGATGGATGAAGGAGTCTCCC-GAGATTGAGCCGATA
1 GGCAGATGATGGATGAAGAAGTCTCCCTG-GATTGAGCCGATA
*
1831811 GGCAG-TCGATGGATGAAGAAGTTTCCC
1 GGCAGAT-GATGGATGAAGAAGTCTCCC
1831838 ACATCTGAGC
Statistics
Matches: 145, Mismatches: 40, Indels: 20
0.71 0.20 0.10
Matches are distributed among these distances:
41 8 0.06
42 132 0.91
43 5 0.03
ACGTcount: A:0.30, C:0.16, G:0.32, T:0.22
Consensus pattern (42 bp):
GGCAGATGATGGATGAAGAAGTCTCCCTGGATTGAGCCGATA
Found at i:1831708 original size:84 final size:84
Alignment explanation
Indices: 1831549--1831709 Score: 180
Period size: 84 Copynumber: 1.9 Consensus size: 84
1831539 CTTCCGGGAC
* * * **
1831549 TGAGCTGACGAGTAGACAATGGATAAAGAAGTCTTCCAAGTCTGAGTCGACGGGCAGACGATGGA
1 TGAGCTGACAAGTAGACAATGGATAAAGAAGTCTCCCAAGTCTGAGCCGACGGGCAGACGAAAGA
1831614 TGAAGAAGTCTCTCGAAAT
66 TGAAGAAGTCTCTCGAAAT
** * ** * * * *
1831633 TGAGCTGACAAGTAGATGATGGATGAAGAAGTCTCCCTGGTTTGAGCCGATGGGCAGATGAAAGT
1 TGAGCTGACAAGTAGACAATGGATAAAGAAGTCTCCCAAGTCTGAGCCGACGGGCAGACGAAAGA
1831698 TGAA-AGAGTCTC
66 TGAAGA-AGTCTC
1831710 CTAGGATTGA
Statistics
Matches: 62, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
83 1 0.02
84 61 0.98
ACGTcount: A:0.32, C:0.16, G:0.31, T:0.22
Consensus pattern (84 bp):
TGAGCTGACAAGTAGACAATGGATAAAGAAGTCTCCCAAGTCTGAGCCGACGGGCAGACGAAAGA
TGAAGAAGTCTCTCGAAAT
Found at i:1831742 original size:84 final size:84
Alignment explanation
Indices: 1831654--1831838 Score: 194
Period size: 84 Copynumber: 2.2 Consensus size: 84
1831644 GTAGATGATG
* * * * * *
1831654 GATGAAGAAGTCTCCCTGGTTTGAGCCGATGGGCAGATGAAAGTTGAAAGAGTCTCCTAG-GATT
1 GATGAAGAAGTTTCCCAGGTCTAAGCCGACGGGCAGATGAAAGATGAAAGAGTCTCC-AGAGATT
*
1831718 GAGTCGATAGGCAAACGATC
65 GAGCCGATAGGCAAACGATC
** ** * *
1831738 GATGAA-AAGGTTTCCCAGGTCTAAGTTGACGGGCAGATGATGGATGAAGGAGTCTCCCGAGATT
1 GATGAAGAA-GTTTCCCAGGTCTAAGCCGACGGGCAGATGAAAGATGAAAGAGTCTCCAGAGATT
** *
1831802 GAGCCGATAGGCAGTCGATG
65 GAGCCGATAGGCAAACGATC
1831822 GATGAAGAAGTTTCCCA
1 GATGAAGAAGTTTCCCA
1831839 CATCTGAGCT
Statistics
Matches: 82, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
83 3 0.04
84 77 0.94
85 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.32, T:0.22
Consensus pattern (84 bp):
GATGAAGAAGTTTCCCAGGTCTAAGCCGACGGGCAGATGAAAGATGAAAGAGTCTCCAGAGATTG
AGCCGATAGGCAAACGATC
Found at i:1831847 original size:42 final size:42
Alignment explanation
Indices: 1831776--1831856 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
1831766 ACGGGCAGAT
* * *
1831776 GATGGATGAAGGAGTCTCCCGAGATTGAGCCGATAGGCAGTC
1 GATGGATGAAGAAGTCTCCCGACATTGAGCCGACAGGCAGTC
* *
1831818 GATGGATGAAGAAGTTTCCC-ACATCTGAGCTGACAGGCA
1 GATGGATGAAGAAGTCTCCCGACAT-TGAGCCGACAGGCA
1831857 AACAAAAGAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
41 3 0.09
42 30 0.91
ACGTcount: A:0.28, C:0.20, G:0.32, T:0.20
Consensus pattern (42 bp):
GATGGATGAAGAAGTCTCCCGACATTGAGCCGACAGGCAGTC
Found at i:1832087 original size:44 final size:45
Alignment explanation
Indices: 1832039--1832230 Score: 146
Period size: 44 Copynumber: 4.4 Consensus size: 45
1832029 TTGATTAAAA
* *
1832039 TGGTAACCATACGTCAGATAGG-AACAAGACAGGTTTGACCAGGG
1 TGGTAACCATACGTCAGATAGGAAAAAAGACAGATTTGACCAGGG
* *
1832083 TGGTAACCATACGTCAGATAGGAAAAAAGGCAGATTTGACTAGGG
1 TGGTAACCATACGTCAGATAGGAAAAAAGACAGATTTGACCAGGG
* * * * * *
1832128 TAGTAATCAT-CGTCAAATCA-GAATGAAAAG--A-ATCTAACTAGGG
1 TGGTAACCATACGTCAGAT-AGGAA--AAAAGACAGATTTGACCAGGG
* * * * * * *
1832171 TGGTAACCATACATTAGACAGG-AAAAAGGCAGATTTAATCAGAG
1 TGGTAACCATACGTCAGATAGGAAAAAAGACAGATTTGACCAGGG
*
1832215 TGGCAACCATACGTCA
1 TGGTAACCATACGTCA
1832231 AATCAGAATA
Statistics
Matches: 117, Mismatches: 22, Indels: 18
0.75 0.14 0.11
Matches are distributed among these distances:
41 5 0.04
43 21 0.18
44 59 0.50
45 27 0.23
46 5 0.04
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.20
Consensus pattern (45 bp):
TGGTAACCATACGTCAGATAGGAAAAAAGACAGATTTGACCAGGG
Found at i:1832171 original size:88 final size:87
Alignment explanation
Indices: 1832079--1832439 Score: 354
Period size: 88 Copynumber: 4.1 Consensus size: 87
1832069 AGGTTTGACC
* * * *
1832079 AGGGTGGTAACCATACGTCAGATAGGAAAAAAGGCAGATTTGACTAGGGTAGTAATCAT-CGTCA
1 AGGGTGGTAACCATACGTCAGACAGG-AAAAAGGCAGATTTGACTAGGGTGGTAACCATACGCCA
1832143 AATC-AGAATGAAAAGAATCTAACT
65 AATCGA-AAT-AAAAGAATCTAACT
* * * * * *
1832167 AGGGTGGTAACCATACATTAGACAGGAAAAAGGCAGATTT-AATCAGAGTGGCAACCATACGTCA
1 AGGGTGGTAACCATACGTCAGACAGGAAAAAGGCAGATTTGACT-AGGGTGGTAACCATACGCCA
*
1832231 AATC-AGAATAAAAAGAATCTAATT
65 AATCGA-AAT-AAAAGAATCTAACT
** * * * ** * *
1832255 AGAATGGTAACCATACTTTAGACAGGAAAGAGGTGGATTTGACTAAGGTGGTAACCATATGCCAA
1 AGGGTGGTAACCATACGTCAGACAGGAAAAAGGCAGATTTGACTAGGGTGGTAACCATACGCCAA
* *
1832320 ATCGAAATAAAAGAATCTGACC
66 ATCGAAATAAAAGAATCTAACT
* * * * * *
1832342 AGGGTGGTAACCATATGTCAGACTA-GAGAGAGGCAAATTTGACTAGGGTGGTAACCTTATGCCA
1 AGGGTGGTAACCATACGTCAGAC-AGGAAAAAGGCAGATTTGACTAGGGTGGTAACCATACGCCA
*
1832406 AATCGAAATAAAATGAATCTGACT
65 AATCGAAATAAAA-GAATCTAACT
1832430 AGGGTGGTAA
1 AGGGTGGTAA
1832440 TGATATGTCA
Statistics
Matches: 230, Mismatches: 37, Indels: 12
0.82 0.13 0.04
Matches are distributed among these distances:
86 2 0.01
87 99 0.43
88 126 0.55
89 3 0.01
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (87 bp):
AGGGTGGTAACCATACGTCAGACAGGAAAAAGGCAGATTTGACTAGGGTGGTAACCATACGCCAA
ATCGAAATAAAAGAATCTAACT
Found at i:1832267 original size:44 final size:44
Alignment explanation
Indices: 1832130--1832270 Score: 126
Period size: 44 Copynumber: 3.2 Consensus size: 44
1832120 GACTAGGGTA
* * * *
1832130 GTAATCAT-CGTCAAATCAGAATGAAAAGAATCTAACTAGGGTG
1 GTAACCATACGTCAAATCAGAATAAAAAGAATCTAATTAGAGTG
* * * * * * *
1832173 GTAACCATACATTAGA-CAGGA-AAAAGGCAGATTTAATCAGAGTG
1 GTAACCATACGTCAAATCAGAATAAAAAG-A-ATCTAATTAGAGTG
* *
1832217 GCAACCATACGTCAAATCAGAATAAAAAGAATCTAATTAGAATG
1 GTAACCATACGTCAAATCAGAATAAAAAGAATCTAATTAGAGTG
1832261 GTAACCATAC
1 GTAACCATAC
1832271 TTTAGACAGG
Statistics
Matches: 72, Mismatches: 21, Indels: 9
0.71 0.21 0.09
Matches are distributed among these distances:
42 4 0.06
43 12 0.17
44 46 0.64
45 5 0.07
46 5 0.07
ACGTcount: A:0.45, C:0.16, G:0.18, T:0.21
Consensus pattern (44 bp):
GTAACCATACGTCAAATCAGAATAAAAAGAATCTAATTAGAGTG
Found at i:1832429 original size:44 final size:43
Alignment explanation
Indices: 1832294--1832620 Score: 184
Period size: 44 Copynumber: 7.5 Consensus size: 43
1832284 GAGGTGGATT
*
1832294 TGACTAAGGTGGTAACCATATGCCAAATCGAAATAAAAGAATC
1 TGACTAGGGTGGTAACCATATGCCAAATCGAAATAAAAGAATC
* * * * * * * * *
1832337 TGACCAGGGTGGTAACCATATGTCAGA-CTAGAGAGAGGCAAATT
1 TGACTAGGGTGGTAACCATATGCCAAATCGAAATAAAAG--AATC
*
1832381 TGACTAGGGTGGTAACCTTATGCCAAATCGAAATAAAATGAATC
1 TGACTAGGGTGGTAACCATATGCCAAATCGAAATAAAA-GAATC
** * * *
1832425 TGACTAGGGTGGTAATGATATGTCAAATAAGAAGGAT-ACAGAAT-
1 TGACTAGGGTGGTAACCATATGCCAAAT-CGAA--ATAAAAGAATC
* * *** *
1832469 TTACTAGGGTGGAAACCATACATCAAATCAAAATAAAAAGAATC
1 TGACTAGGGTGGTAACCATATGCCAAATCGAAAT-AAAAGAATC
* ** * * * *
1832513 TGAGC-ATGGTGACAACCATATGCCATA-CTAAAATAAGAAGAGTT
1 TGA-CTAGGGTGGTAACCATATGCCAAATC-GAAATAA-AAGAATC
* *
1832557 TGACTAGGGTGGTAACAATATGTCAAA-C-ATGAATGAAAAGAA-C
1 TGACTAGGGTGGTAACCATATGCCAAATCGA--AAT-AAAAGAATC
*
1832600 TTGACCAGGGTGGTAACCATA
1 -TGACTAGGGTGGTAACCATA
1832621 CTTTAAGTAG
Statistics
Matches: 211, Mismatches: 55, Indels: 35
0.70 0.18 0.12
Matches are distributed among these distances:
41 2 0.01
42 7 0.03
43 35 0.17
44 147 0.70
45 15 0.07
46 3 0.01
47 2 0.01
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.22
Consensus pattern (43 bp):
TGACTAGGGTGGTAACCATATGCCAAATCGAAATAAAAGAATC
Found at i:1832475 original size:88 final size:87
Alignment explanation
Indices: 1832291--1832620 Score: 282
Period size: 88 Copynumber: 3.8 Consensus size: 87
1832281 AAAGAGGTGG
*
1832291 ATTTGACTAAGGTGGTAACCATATGCCAAATCGAAATAAAAGAATCTGACCAGGGTGGTAACCAT
1 ATTTGACTAGGGTGGTAACCATATGCCAAATCGAAATAAAAGAATCTGACCAGGGTGGTAACCAT
*
1832356 ATGTCAGACTAGAGAGAGGCAA
66 ATGTCAGAATAGAGAGAGGCAA
* * **
1832378 ATTTGACTAGGGTGGTAACCTTATGCCAAATCGAAATAAAATGAATCTGACTAGGGTGGTAATGA
1 ATTTGACTAGGGTGGTAACCATATGCCAAATCGAAATAAAA-GAATCTGACCAGGGTGGTAACCA
1832443 TATGTCA-AATA-AGA-AGGATACAGA
65 TATGTCAGAATAGAGAGAGG---CA-A
* *** * * * **
1832467 ATTT-ACTAGGGTGGAAACCATACATCAAATCAAAATAAAAAGAATCTGAGCATGGTGACAACCA
1 ATTTGACTAGGGTGGTAACCATATGCCAAATCGAAAT-AAAAGAATCTGACCAGGGTGGTAACCA
* * * * * *
1832531 TATGCCATACTA-AAATAAG-AA
65 TATGTCAGAATAGAGAGAGGCAA
* *
1832552 GAGTTTGACTAGGGTGGTAACAATATGTCAAA-C-ATGAATGAAAAGAA-CTTGACCAGGGTGGT
1 -A-TTTGACTAGGGTGGTAACCATATGCCAAATCGA--AAT-AAAAGAATC-TGACCAGGGTGGT
1832614 AACCATA
60 AACCATA
1832621 CTTTAAGTAG
Statistics
Matches: 197, Mismatches: 32, Indels: 27
0.77 0.12 0.11
Matches are distributed among these distances:
85 4 0.02
86 6 0.03
87 47 0.24
88 124 0.63
89 14 0.07
90 2 0.01
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.23
Consensus pattern (87 bp):
ATTTGACTAGGGTGGTAACCATATGCCAAATCGAAATAAAAGAATCTGACCAGGGTGGTAACCAT
ATGTCAGAATAGAGAGAGGCAA
Found at i:1832726 original size:46 final size:46
Alignment explanation
Indices: 1832674--1832786 Score: 131
Period size: 46 Copynumber: 2.4 Consensus size: 46
1832664 CGTCAGGTTG
* *
1832674 AAATGAAAAGAGTTTGACCTTG-CCCTAACACTAATACAGTCAAAT
1 AAATGAAAAGAGTTTGACCTAGACCCTAACACCAATACAGTCAAAT
* *
1832719 CAAATGAAAAGAGTTTGA-CTAGACCCTAACACCATTATAGTCAAAT
1 -AAATGAAAAGAGTTTGACCTAGACCCTAACACCAATACAGTCAAAT
*
1832765 AAGGGATGAAAAAAGTTTGACC
1 AA---ATGAAAAGAGTTTGACC
1832787 AAATATAGCC
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
45 5 0.09
46 37 0.65
48 14 0.25
49 1 0.02
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.23
Consensus pattern (46 bp):
AAATGAAAAGAGTTTGACCTAGACCCTAACACCAATACAGTCAAAT
Found at i:1833774 original size:87 final size:88
Alignment explanation
Indices: 1833683--1833884 Score: 203
Period size: 88 Copynumber: 2.3 Consensus size: 88
1833673 GCAAATATAG
* * *
1833683 GCATCAGTAAAGTGGCAAATGCATAT-CTAATGATACAAATACCAATGTTATCT-AAATGCAAAT
1 GCATCAATAAAGTGGCAAATGCATATGC-AACGATACAAATACCAATGTCATCTAAAATGCAAAT
* *
1833746 GCATGTAAAATGATACAAATGCAA
65 GCAGGTAAAATAATACAAATGCAA
* * * * ** *
1833770 GCATCAACAAAGGGGCAAACGTATATGCAACGATGGAAATACCACTGTCATCTAAAATGCAAATG
1 GCATCAATAAAGTGGCAAATGCATATGCAACGATACAAATACCAATGTCATCTAAAATGCAAATG
* * * *
1833835 TAGGTGAGATAATGCAAATGCAA
66 CAGGTAAAATAATACAAATGCAA
* *
1833858 TCATCAATAGAA-TGACAAATGCATATG
1 GCATCAATA-AAGTGGCAAATGCATATG
1833885 AAAAGATGCA
Statistics
Matches: 90, Mismatches: 22, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
87 41 0.46
88 47 0.52
89 2 0.02
ACGTcount: A:0.44, C:0.16, G:0.18, T:0.23
Consensus pattern (88 bp):
GCATCAATAAAGTGGCAAATGCATATGCAACGATACAAATACCAATGTCATCTAAAATGCAAATG
CAGGTAAAATAATACAAATGCAA
Found at i:1834696 original size:13 final size:13
Alignment explanation
Indices: 1834678--1834704 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1834668 ACATTATGCT
1834678 TTGTATCGATACA
1 TTGTATCGATACA
1834691 TTGTATCGATACA
1 TTGTATCGATACA
1834704 T
1 T
1834705 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1834736 original size:20 final size:22
Alignment explanation
Indices: 1834711--1834766 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 22
1834701 ACATGTTCAT
*
1834711 TGTATCGATACATC-TGAG-TG
1 TGTATCGATACATCAAGAGTTG
*
1834731 TGTATCGATACATTCAAGGGTTG
1 TGTATCGATACA-TCAAGAGTTG
1834754 TGTATCGATACAT
1 TGTATCGATACAT
1834767 GGACAATTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.39
21 2 0.06
22 3 0.10
23 14 0.45
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (22 bp):
TGTATCGATACATCAAGAGTTG
Found at i:1834853 original size:13 final size:13
Alignment explanation
Indices: 1834832--1834862 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1834822 CGATACATGG
*
1834832 TACAATGTATCGA
1 TACATTGTATCGA
1834845 TACATTGTATCGA
1 TACATTGTATCGA
1834858 TACAT
1 TACAT
1834863 GATGAATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:1834874 original size:33 final size:33
Alignment explanation
Indices: 1834816--1834884 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
1834806 CTACCACTGT
* *
1834816 TTGTATCGATACATGGTACAATGTATCGATACA
1 TTGTATCGATACATGATACAATGTATAGATACA
*
1834849 TTGTATCGATACATGATGA-ATTGTATAGATACA
1 TTGTATCGATACATGAT-ACAATGTATAGATACA
1834882 TTG
1 TTG
1834885 CTTGTAACGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (33 bp):
TTGTATCGATACATGATACAATGTATAGATACA
Found at i:1842419 original size:15 final size:15
Alignment explanation
Indices: 1842399--1842429 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1842389 ATTTCGTTTG
*
1842399 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1842414 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1842429 G
1 G
1842430 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1844262 original size:21 final size:21
Alignment explanation
Indices: 1844233--1844277 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1844223 AAGTTTTCAT
*
1844233 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1844253 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1844275 TTT
1 TTT
1844278 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1846514 original size:13 final size:13
Alignment explanation
Indices: 1846496--1846521 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1846486 CAATTTTTTG
1846496 TGTATCGATACAT
1 TGTATCGATACAT
1846509 TGTATCGATACAT
1 TGTATCGATACAT
1846522 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1852934 original size:79 final size:79
Alignment explanation
Indices: 1852798--1853246 Score: 477
Period size: 79 Copynumber: 5.7 Consensus size: 79
1852788 GAGATAATAA
* ** * *
1852798 CGGGGTTGGAGTATCTCC-TCGAAAATAACGGGGTTGGAGTATCCCCTTTTGTGAAAAATCGATG
1 CGGGGTTGGAGTATC-CCTTAGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATG
1852862 ATTTAGAAATAAAAT
65 ATTTAGAAATAAAAT
* * * *
1852877 CGGGATTGGAGTATCTCCTTAG-AAATAACAGGGTTGGAATATCCCCGACTATGAAAAATTGATG
1 CGGGGTTGGAGTATC-CCTTAGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATG
* *
1852941 TTTTAGAAATAAAAC
65 ATTTAGAAATAAAAT
* * * *
1852956 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAAT-A
1 CGGGGTTGGAGTATCCCTTAGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGA
1853020 TTTTAGAAATAAAAT
66 -TTTAGAAATAAAAT
* * * * *
1853035 CGGGGTTAGAGTATCCCCTCA-AAAATAATGGGGTTGGAGTATCCCCGATTATGAGAAATTAAT-
1 CGGGGTTGGAGTAT-CCCTTAGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATG
**
1853098 ATTTTAGAAATAAAGC
65 A-TTTAGAAATAAAAT
* * * **
1853114 CAGGGTTGGGGTATCCCCTCA-AAAATAATAGGGTTGGAGTATCCCCG---ATGAAAAATTGATG
1 CGGGGTTGGAGTAT-CCCTTAGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATG
*
1853175 TTTTAGAAATAAAAT
65 ATTTAGAAATAAAAT
* * * *
1853190 CGAGGTTGGAGTGTCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGA-TAGTGAAAA
1 CGGGGTTGGAGTATCCCTTAGAAAATAACGGGGTTGGAGTATCCCCGATTA-TGAAAA
1853247 GTCAGTGTTT
Statistics
Matches: 315, Mismatches: 46, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
75 3 0.01
76 57 0.18
78 5 0.02
79 245 0.78
80 5 0.02
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCTTAGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGA
TTTAGAAATAAAAT
Found at i:1852968 original size:158 final size:153
Alignment explanation
Indices: 1852768--1853246 Score: 534
Period size: 158 Copynumber: 3.0 Consensus size: 153
1852758 ACATCTCCCG
* * * *
1852768 ATGAGAAATTTAATATTTTGGAGATAATAA-CGGGGTTGGAGTATCTCCTCGAAAATAACGGGGT
1 ATGA-AAAATTAATATTTTAGAAATAA-AACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGT
*
1852832 TGGAGTATCCCCTTTTGTGAAAAATCGATGATTTAGAAATAAAATCGGGATTGGAGTATCTCCTT
64 TGGAGTATCCCC--TTGTGAAAAATTGATGATTTAGAAATAAAATCGGG-TTGGAGTATC-CCTT
* *
1852897 AGAAATAACAGGGTTGGAATATCCCCGACT
125 AGAAATAACGGGGTTGGAGTATCCCCGA-T
* *
1852927 ATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTG
1 ATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTG
* * * * *
1852992 GAGTATCCCCGATTATGAGAAATTAAT-ATTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTCA
66 GAGTATCCCC--TTGTGAAAAATTGATGA-TTTAGAAATAAAATC-GGGTTGGAGTAT-CCCTTA
* *
1853056 AAAATAATGGGGTTGGAGTATCCCCGATT
126 GAAATAACGGGGTTGGAGTATCCCCGA-T
* * * * * **
1853085 ATGAGAAATTAATATTTTAGAAATAAAGCCAGGGTTGGGGTATCCCCTCAAAAATAATAGGGTTG
1 ATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTG
* * * *
1853150 GAGTATCCCC--GATGAAAAATTGATGTTTTAGAAATAAAATCGAGGTTGGAGTGTCCCCTCGAA
66 GAGTATCCCCTTG-TGAAAAATTGATGATTTAGAAATAAAATCG-GGTTGGAGTATCCCTTAG-A
1853213 AATAACGGGGTTGGAGTATCCCCGAT
128 AATAACGGGGTTGGAGTATCCCCGAT
1853239 AGTGAAAA
1 A-TGAAAA
1853247 GTCAGTGTTT
Statistics
Matches: 271, Mismatches: 40, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
154 6 0.02
155 64 0.24
157 3 0.01
158 190 0.70
159 8 0.03
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.28
Consensus pattern (153 bp):
ATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTG
GAGTATCCCCTTGTGAAAAATTGATGATTTAGAAATAAAATCGGGTTGGAGTATCCCTTAGAAAT
AACGGGGTTGGAGTATCCCCGAT
Found at i:1853267 original size:234 final size:235
Alignment explanation
Indices: 1852768--1853284 Score: 641
Period size: 237 Copynumber: 2.2 Consensus size: 235
1852758 ACATCTCCCG
* * * * *
1852768 ATGAGAAATTTAATATTTTGGAGATAATAA-CGGGGTTGGAGTATCTCCTCGAAAATAACGGGGT
1 ATGAGAAA-TCAATATTTTAGAAATAA-AATCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGT
** * * * * *
1852832 TGGAGTATCCCCTTTTGTGAAAAATCGATGATTTAGAAATAAAATCGGGATTGGAGTATCTCCTT
64 TGGAGTATCCCCGATTATGAAAAATCAATGATTTAGAAATAAAACCGGGATTGGAGTATCCCCTC
* *
1852897 AGAAATAACAGGGTTGGAATATCCCCGACTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGT
129 AAAAATAACAGGGTTGGAATATCCCCGA--ATGAAAAATTGATGTTTTAGAAATAAAACCGAGGT
1852962 TGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATT
192 TGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATT
* * *
1853006 ATGAGAAATTAATATTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTCAAAAATAATGGGGTTG
1 ATGAGAAATCAATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTG
* * * *
1853071 GAGTATCCCCGATTATGAGAAATTAAT-ATTTTAGAAATAAAGCCAGGG-TTGGGGTATCCCCTC
66 GAGTATCCCCGATTATGAAAAATCAATGA-TTTAGAAATAAAACC-GGGATTGGAGTATCCCCTC
* * *
1853134 AAAAATAATAGGGTTGGAGTATCCCCG-ATGAAAAATTGATGTTTTAGAAATAAAATCGAGGTTG
129 AAAAATAACAGGGTTGGAATATCCCCGAATGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTG
*
1853198 GAGTGTCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGA-T
194 GAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATT
* * * * * *
1853239 AGTGA-AAAGTCAGTGTTTTGGGAATAAAATTGGAGTTGGAGTATCC
1 A-TGAGAAA-TCAATATTTTAGAAATAAAATCGGGGTTGGAGTATCC
1853285 TCGATTATGG
Statistics
Matches: 243, Mismatches: 31, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
233 5 0.02
234 106 0.44
236 3 0.01
237 118 0.49
238 11 0.05
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (235 bp):
ATGAGAAATCAATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTG
GAGTATCCCCGATTATGAAAAATCAATGATTTAGAAATAAAACCGGGATTGGAGTATCCCCTCAA
AAATAACAGGGTTGGAATATCCCCGAATGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGA
GTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATT
Found at i:1853277 original size:51 final size:51
Alignment explanation
Indices: 1853222--1853389 Score: 139
Period size: 51 Copynumber: 3.3 Consensus size: 51
1853212 AAATAACGGG
* * *
1853222 GTTGGAGTATCCCCGA-TA-GTGAAAAGTCAGTGTTTTGGGAATAAAATTGGA
1 GTTGGAGTATCCCCGATTATG-GAAAA-TCAGTGTTTTAGAAATAAAATCGGA
* **
1853273 GTTGGAGTATCCTCGATTATGGAAAATGGGTGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGGAAAATCAGTGTTTTAGAAATAAAATCGGA
* * * * * * * *
1853324 GTTAGAGTAT-CCCGACTAAGAAAAAT-TGTTGTTTTGGAAATGAAACCGTGA
1 GTTGGAGTATCCCCGATTATGGAAAATCAG-TGTTTTAGAAATAAAATCG-GA
1853375 -TTGGAGTATCCCCGA
1 GTTGGAGTATCCCCGA
1853390 GATGAAAAAT
Statistics
Matches: 96, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
49 1 0.01
50 36 0.38
51 51 0.53
52 7 0.07
53 1 0.01
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGGAAAATCAGTGTTTTAGAAATAAAATCGGA
Found at i:1853382 original size:50 final size:50
Alignment explanation
Indices: 1853251--1853386 Score: 130
Period size: 50 Copynumber: 2.7 Consensus size: 50
1853241 TGAAAAGTCA
* * ** * * *
1853251 GTGTTTTGGGAATAAAATTGGAGTTGGAGTATCCTCGATTATGGAAAATGG
1 GTGTTTTAGAAATAAAACCGGAGTTGGAGTATCC-CGACTAAGAAAAATGG
* * *
1853302 GTGTTTTAGAAATAAAATCGGAGTTAGAGTATCCCGACTAAGAAAAATTG
1 GTGTTTTAGAAATAAAACCGGAGTTGGAGTATCCCGACTAAGAAAAATGG
* * *
1853352 TTGTTTTGGAAATGAAACCGTGA-TTGGAGTATCCC
1 GTGTTTTAGAAATAAAACCG-GAGTTGGAGTATCCC
1853387 CGAGATGAAA
Statistics
Matches: 71, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
50 39 0.55
51 32 0.45
ACGTcount: A:0.32, C:0.10, G:0.26, T:0.32
Consensus pattern (50 bp):
GTGTTTTAGAAATAAAACCGGAGTTGGAGTATCCCGACTAAGAAAAATGG
Found at i:1855686 original size:13 final size:13
Alignment explanation
Indices: 1855670--1855695 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1855660 GTACAATGAG
1855670 CAATGTATCGATA
1 CAATGTATCGATA
1855683 CAATGTATCGATA
1 CAATGTATCGATA
1855696 AATAAGCAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1855708 original size:32 final size:33
Alignment explanation
Indices: 1855651--1855719 Score: 113
Period size: 32 Copynumber: 2.1 Consensus size: 33
1855641 TACATTGTAA
* *
1855651 AATGTATCGGTACAATGAGCAATGTATCGATAC
1 AATGTATCGATACAATAAGCAATGTATCGATAC
1855684 AATGTATCGATA-AATAAGCAATGTATCGATAC
1 AATGTATCGATACAATAAGCAATGTATCGATAC
1855716 AATG
1 AATG
1855720 AGCAATGTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 23 0.68
33 11 0.32
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.28
Consensus pattern (33 bp):
AATGTATCGATACAATAAGCAATGTATCGATAC
Found at i:1855725 original size:20 final size:20
Alignment explanation
Indices: 1855631--1855757 Score: 128
Period size: 20 Copynumber: 6.8 Consensus size: 20
1855621 AAAATGTCTA
* *
1855631 AATGTATCGATACATTGTA-A
1 AATGTATCGATACAATG-AGC
*
1855651 AATGTATCGGTACAATGAGC
1 AATGTATCGATACAATGAGC
1855671 AATGTATCG-----AT-A-C
1 AATGTATCGATACAATGAGC
*
1855684 AATGTATCGATA-AATAAGC
1 AATGTATCGATACAATGAGC
1855703 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAGC
* *
1855723 AATGTTTCGATACAATGAAC
1 AATGTATCGATACAATGAGC
1855743 AATGTATCGATACAA
1 AATGTATCGATACAA
1855758 ATTGTGAAAA
Statistics
Matches: 92, Mismatches: 7, Indels: 16
0.80 0.06 0.14
Matches are distributed among these distances:
13 10 0.11
14 1 0.01
15 2 0.02
17 2 0.02
18 1 0.01
19 14 0.15
20 62 0.67
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACAATGAGC
Found at i:1856518 original size:42 final size:42
Alignment explanation
Indices: 1856471--1856550 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
1856461 AAAGGAAAAA
*
1856471 AGGAAAACGAAA-TGCGTCCTACTCTTTGAAGACAAAAGAAAG
1 AGGAAAAC-AAAGTGCATCCTACTCTTTGAAGACAAAAGAAAG
* *
1856513 AGGAAAACAAAGTGCATCCTGCTCTTTGAGGACAAAAG
1 AGGAAAACAAAGTGCATCCTACTCTTTGAAGACAAAAG
1856551 GGAAAATAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 3 0.09
42 31 0.91
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.17
Consensus pattern (42 bp):
AGGAAAACAAAGTGCATCCTACTCTTTGAAGACAAAAGAAAG
Found at i:1856680 original size:61 final size:61
Alignment explanation
Indices: 1856597--1856806 Score: 231
Period size: 61 Copynumber: 3.5 Consensus size: 61
1856587 GGACAAAGGA
* ** * *
1856597 GAAAAGGAAAAGGCATCTTGCTCTTTGAAAACTAAAAAGTGCCACCAACTCGTGTGGGCTTT
1 GAAAA-GAAAAGGCATCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT
* * *
1856659 GAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT
1 GAAAAGAAAAGGCATCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT
* *
1856720 GCAAAGAGAAA-GCATCCTGCT-TCTTGAGGA-TAGGAAGTGCCACCAACTTGTGTGGGCTTT
1 GAAAAGA-AAAGGCATCCTGCTCT-TTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT
*
1856780 ------AAAAGGCGTCCTGCTCTTTGAGGACTA
1 GAAAAGAAAAGGCATCCTGCTCTTTGAGGACTA
1856807 AAGGGCAAAA
Statistics
Matches: 129, Mismatches: 14, Indels: 17
0.81 0.09 0.11
Matches are distributed among these distances:
53 3 0.02
54 17 0.13
55 3 0.02
60 28 0.22
61 70 0.54
62 8 0.06
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (61 bp):
GAAAAGAAAAGGCATCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT
Found at i:1856921 original size:58 final size:57
Alignment explanation
Indices: 1856851--1857014 Score: 199
Period size: 58 Copynumber: 2.9 Consensus size: 57
1856841 GACTGGGAAG
* *
1856851 TGCCACCAACTTGTGTGGGCTTCGAAAGGCATCATGCACTTTGAGGACTAAAAAAAAA
1 TGCCACCAACTTGTGTGGGCTT-GAAAGGCATCCTGCTCTTTGAGGACTAAAAAAAAA
** * * ***
1856909 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGGTCTTTGAGGACT---GAAGGG
1 TGCCACCAACTTGTGTGGGC-TTGAAAGGCATCCTGCTCTTTGAGGACTAAAAAAAAA
*
1856964 TGCCACCAACTTGTGTGGGCTTTAAAGGCATCCTGCTCTTTGAGGACTAAA
1 TGCCACCAACTTGTGTGGGCTTGAAAGGCATCCTGCTCTTTGAGGACTAAA
1857015 GGGCAAAGGG
Statistics
Matches: 89, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
54 24 0.27
55 22 0.25
58 41 0.46
59 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (57 bp):
TGCCACCAACTTGTGTGGGCTTGAAAGGCATCCTGCTCTTTGAGGACTAAAAAAAAA
Found at i:1856955 original size:152 final size:152
Alignment explanation
Indices: 1856672--1856963 Score: 380
Period size: 152 Copynumber: 1.9 Consensus size: 152
1856662 AAGAAAAGGC
*
1856672 GTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCC
1 GTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGC--AGAGAAAGCATCA
* ** *
1856737 TGCTTCTTGAGGATAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAG
64 TGCCTCTTGAGGATAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAG
1856802 GACTAAAGGGCAAAAGGAGAGAGT
129 GACTAAAGGGCAAAAGGAGAGAGT
*
1856826 GTCCTGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGC-TT-C-GA-AAGGCATCAT
1 GTCCTGCTCTTTGAGGACT-GGAAGGTGCCACCAACTTGTGTGGGCTTTGCAGAGAAAGCATCAT
* * *
1856886 GCACT-TTGAGGACTAAAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGGTCTT
65 GC-CTCTTGAGGA-T---AAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
*
1856950 TGAGGACTGAAGGG
125 TGAGGACTAAAGGG
1856964 TGCCACCAAC
Statistics
Matches: 122, Mismatches: 10, Indels: 14
0.84 0.07 0.10
Matches are distributed among these distances:
148 17 0.14
149 4 0.03
152 55 0.45
153 2 0.02
154 40 0.33
155 4 0.03
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (152 bp):
GTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAGAGAAAGCATCATG
CCTCTTGAGGATAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGA
CTAAAGGGCAAAAGGAGAGAGT
Found at i:1857130 original size:56 final size:55
Alignment explanation
Indices: 1857030--1857218 Score: 211
Period size: 56 Copynumber: 3.4 Consensus size: 55
1857020 AAGGGAGAGA
* ** *
1857030 GCATCCTGTTCTTTGAGGACT-AGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCATCCTGCTCTTTGAGGACTAAAAAAATGCCACCAACTTGTGTGGGCTTT-AAAG
* *
1857085 GCATCCTACTTTTTGAGGACTAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCATCCTGCTCTTTGAGGACTAAAAAAATGCCACCAACTTGTGTGGGCTTT-AAAG
* * * * *** * *
1857141 ACGTCTTGCTCTTTGAGGACT-GAAGGGTGCCACCAATTTGTATGGGCTTTAAAG
1 GCATCCTGCTCTTTGAGGACTAAAAAAATGCCACCAACTTGTGTGGGCTTTAAAG
1857195 GCATCCTGCTCTTTGAGGACTAAA
1 GCATCCTGCTCTTTGAGGACTAAA
1857219 GGGTGAAAGG
Statistics
Matches: 110, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
54 22 0.20
55 42 0.38
56 46 0.42
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (55 bp):
GCATCCTGCTCTTTGAGGACTAAAAAAATGCCACCAACTTGTGTGGGCTTTAAAG
Found at i:1857385 original size:55 final size:55
Alignment explanation
Indices: 1857291--1857729 Score: 695
Period size: 55 Copynumber: 8.0 Consensus size: 55
1857281 TTTAAAAGGA
** *
1857291 GAAA-GCATCCTGCTCTTTGAGGACTAAAAAAATGCCACCAACTTGTGTGGGATTT
1 GAAAGGCATCCTGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTT
*
1857346 GAAAGGCATCTTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
*
1857401 GAAAGGCATCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
* * *
1857456 GAAAAGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTT
1 GAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
*
1857511 GAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
* *
1857566 -AAGAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGACTTT
1 GAA-AGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
* *
1857621 AAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
* *
1857676 -AAGAGGCATCCTGCTCTTTGAGGATTGGAAAATGCCATCAACTTGTGTGGGCTT
1 GAA-AGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTT
1857730 AAAAGGAAAA
Statistics
Matches: 363, Mismatches: 17, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
54 4 0.01
55 337 0.93
56 22 0.06
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.28
Consensus pattern (55 bp):
GAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
Found at i:1857471 original size:110 final size:110
Alignment explanation
Indices: 1857229--1857767 Score: 724
Period size: 110 Copynumber: 4.8 Consensus size: 110
1857219 GGGTGAAAGG
* *
1857229 AGAGAGCGTCCTGCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGTTTTAAAAGGAGA
1 AGAG-GCGTCCTGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTT-----GA-A
* * *
1857293 AAGCATCCTGCTCTTTGAGGACTAAAAAAATGCCACCAACTTGTGTGGGATTTGA
58 AGGCATCCTGCTCTTTGAGGACT-AGAAAATGCCACCAACTTGTGTGGGCTTT-A
* *
1857348 A-AGGCATCTTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCC
1 AGAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCC
1857412 TGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGA
66 TGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT-A
* * *
1857458 A-AAGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTTGAAAGGCGTCC
1 AGAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCC
*
1857522 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTA
66 TGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTA
* * *
1857567 AGAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGACTTTAAAAGGCGTCC
1 AGAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCC
*
1857632 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTA
66 TGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTA
* * * *
1857677 AGAGGCATCCTGCTCTTTGAGGATTGGAAAATGCCATCAACTTGTGTGGGCTTAAAAGGAAAAGG
1 AGAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTT----TG-AAAGG
* *
1857742 CATCCTACTTTTTGAGGACTAGAAAA
61 CATCCTGCTCTTTGAGGACTAGAAAA
1857768 GTGAAAGGAG
Statistics
Matches: 386, Mismatches: 27, Indels: 18
0.90 0.06 0.04
Matches are distributed among these distances:
109 2 0.01
110 284 0.74
111 23 0.06
112 2 0.01
115 27 0.07
116 2 0.01
117 43 0.11
118 2 0.01
119 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (110 bp):
AGAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCC
TGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTA
Found at i:1857528 original size:165 final size:165
Alignment explanation
Indices: 1857237--1857767 Score: 744
Period size: 165 Copynumber: 3.1 Consensus size: 165
1857227 GGAGAGAGCG
* * * *
1857237 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGTTTTAAAAGGAGAAAGCATCCT
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT-----GA-AAAGCGTCCT
** * *
1857302 GCTCTTTGAGGACTAAAAAAATGCCACCAACTTGTGTGGGATTTGAAAGGCATCTTGCTCTTTGA
60 GCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGA
1857367 GGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
124 GGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
1857409 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGCGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGCGTCCTGCTCTT
* *
1857474 TGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGG
66 TGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGG
*
1857539 AAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGCG
131 AAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGCA
* *
1857574 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGACTTT-AAAAGGCGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAA-GCGTCCTGCTCT
*
1857638 TTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGCATCCTGCTCTTTGAGGATT
65 TTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGCATCCTGCTCTTTGAGGACT
* *
1857702 GGAAAATGCCATCAACTTGTGTGGGCTTAAAAGGAAAAGGCA
129 GGAAAATGCCACCAACTTGTGTGGGCTT----TG-AAAGGCA
* *
1857744 TCCTACTTTTTGAGGACTAGAAAA
1 TCCTGCTCTTTGAGGACTAGAAAA
1857768 GTGAAAGGAG
Statistics
Matches: 328, Mismatches: 22, Indels: 20
0.89 0.06 0.05
Matches are distributed among these distances:
164 8 0.02
165 224 0.68
166 23 0.07
167 2 0.01
170 25 0.08
171 2 0.01
172 44 0.13
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (165 bp):
TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGCGTCCTGCTCTT
TGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGG
AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
Found at i:1858771 original size:16 final size:15
Alignment explanation
Indices: 1858738--1858814 Score: 82
Period size: 16 Copynumber: 4.9 Consensus size: 15
1858728 TAGGTTCTTC
* * *
1858738 TTTTTTTTTCTCTCT
1 TTTTTTTTTGTTTTT
*
1858753 TTTTTCTTTGTTTTGT
1 TTTTTTTTTGTTTT-T
1858769 TTTTTGTTTTGTTTTT
1 TTTTT-TTTTGTTTTT
*
1858785 TGTTTTTTTGTTTTT
1 TTTTTTTTTGTTTTT
1858800 TTGTTTTTTTGTTTT
1 TT-TTTTTTTGTTTT
1858815 GAAAAAGAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
15 21 0.40
16 23 0.44
17 8 0.15
ACGTcount: A:0.00, C:0.05, G:0.10, T:0.84
Consensus pattern (15 bp):
TTTTTTTTTGTTTTT
Found at i:1858771 original size:27 final size:27
Alignment explanation
Indices: 1858740--1858800 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
1858730 GGTTCTTCTT
*
1858740 TTTTTTTCTCTCTTTTTTCTTTGTTTTG
1 TTTTTTGCTCTCTTTTTTCTTT-TTTTG
* * * *
1858768 TTTTTTGTTTTGTTTTTTGTTTTTTTG
1 TTTTTTGCTCTCTTTTTTCTTTTTTTG
1858795 TTTTTT
1 TTTTTT
1858801 TGTTTTTTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 11 0.39
28 17 0.61
ACGTcount: A:0.00, C:0.07, G:0.10, T:0.84
Consensus pattern (27 bp):
TTTTTTGCTCTCTTTTTTCTTTTTTTG
Found at i:1858774 original size:12 final size:12
Alignment explanation
Indices: 1858759--1858815 Score: 82
Period size: 12 Copynumber: 4.8 Consensus size: 12
1858749 CTCTTTTTTC
1858759 TTTGTTTTGTTT
1 TTTGTTTTGTTT
1858771 TTTGTTTTGTTT
1 TTTGTTTTGTTT
1858783 TTTGTTTT-TTT
1 TTTGTTTTGTTT
1858794 GTTT-TTTTGTTTT
1 -TTTGTTTTG-TTT
1858807 TTTGTTTTG
1 TTTGTTTTG
1858816 AAAAAGAATG
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
11 7 0.17
12 26 0.63
13 8 0.20
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (12 bp):
TTTGTTTTGTTT
Found at i:1858793 original size:8 final size:8
Alignment explanation
Indices: 1858754--1858814 Score: 81
Period size: 8 Copynumber: 7.5 Consensus size: 8
1858744 TTTCTCTCTT
1858754 TTTTCTTTG
1 TTTT-TTTG
1858763 TTTTGTTT-
1 TTTT-TTTG
1858771 TTTGTTTTG
1 TTT-TTTTG
1858780 -TTTTTTG
1 TTTTTTTG
1858787 TTTTTTTG
1 TTTTTTTG
1858795 TTTTTTTG
1 TTTTTTTG
1858803 TTTTTTTG
1 TTTTTTTG
1858811 TTTT
1 TTTT
1858815 GAAAAAGAAT
Statistics
Matches: 48, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
7 5 0.10
8 35 0.73
9 8 0.17
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.85
Consensus pattern (8 bp):
TTTTTTTG
Found at i:1871366 original size:79 final size:79
Alignment explanation
Indices: 1871150--1871403 Score: 339
Period size: 79 Copynumber: 3.2 Consensus size: 79
1871140 GAGATAATAA
* *** * * *
1871150 CGGGGTTGGAGTATCTCCTCGAAAATAACGGGGTTGGAGTATCCCTTTTTGTGAAAAATCGATGA
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGT
1871215 TTTAGAAATAAAAT
66 TTTAGAAATAAAAT
* * * * * *
1871229 CAGGATTGGAGTAT-CCTTCGGAAATAACGGGGTTGGAGTATCCCCGACTATAAAAAATTGATGT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGT
1871293 TTTAGAAATAAAAT
66 TTTAGAAATAAAAT
* * * *
1871307 CGGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGT
*
1871372 TTTAAAAATAAAAT
66 TTTAGAAATAAAAT
1871386 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
1871404 GATTATGAGA
Statistics
Matches: 149, Mismatches: 25, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
78 64 0.43
79 85 0.57
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.28
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGT
TTTAGAAATAAAAT
Found at i:1871401 original size:51 final size:51
Alignment explanation
Indices: 1871335--1871453 Score: 193
Period size: 51 Copynumber: 2.3 Consensus size: 51
1871325 TCGAAAATAA
* *
1871335 CGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAAAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTATGAGAAATTAAAATTTTAAAAATAAAAC
* *
1871386 CGGGGTTGGAGTATCCCCGATTATGAGAAATTAAAATTTTAGAAATAAAGC
1 CGGGGTTGGAGTATCCCCGATTATGAGAAATTAAAATTTTAAAAATAAAAC
*
1871437 CGGGGTTGGGGTATCCC
1 CGGGGTTGGAGTATCCC
1871454 TTCGAAAATA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 63 1.00
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.29
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTATGAGAAATTAAAATTTTAAAAATAAAAC
Found at i:1871401 original size:130 final size:126
Alignment explanation
Indices: 1871256--1871522 Score: 345
Period size: 130 Copynumber: 2.1 Consensus size: 126
1871246 TCGGAAATAA
* ** *
1871256 CGGGGTTGGAGTATCCCCGACTATAAAAAATTGATGTTTTAGAAATAAAATCGGGGTTAGAGTAT
1 CGGGGTTGGAGTATCCCCGACTATAAAAAATTAAAATTTTAGAAATAAAACCGGGGTTAGAGTAT
* *
1871321 CCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAAAAATAAAAT
66 CCCCTCGAAAATAACGGGGTTGGAGTAT-CCCG---ATGAAAAATTAATATTTTAAAAATAAAAC
* * * * * *
1871386 CGGGGTTGGAGTATCCCCGATTATGAGAAATTAAAATTTTAGAAATAAAGCCGGGGTTGGGGTAT
1 CGGGGTTGGAGTATCCCCGACTATAAAAAATTAAAATTTTAGAAATAAAACCGGGGTTAGAGTAT
* * * *
1871451 CCCTTCGAAAATAACGGGGTTGGAGTATCCCGATGAAAAATTGATGTTTTAGAAATAAAAC
66 CCCCTCGAAAATAACGGGGTTGGAGTATCCCGATGAAAAATTAATATTTTAAAAATAAAAC
*
1871512 CAGGGTTGGAG
1 CGGGGTTGGAG
1871523 CGTCCCCTCA
Statistics
Matches: 120, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
126 34 0.28
129 4 0.03
130 82 0.68
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (126 bp):
CGGGGTTGGAGTATCCCCGACTATAAAAAATTAAAATTTTAGAAATAAAACCGGGGTTAGAGTAT
CCCCTCGAAAATAACGGGGTTGGAGTATCCCGATGAAAAATTAATATTTTAAAAATAAAAC
Found at i:1871604 original size:51 final size:50
Alignment explanation
Indices: 1871544--1871710 Score: 203
Period size: 51 Copynumber: 3.3 Consensus size: 50
1871534 AAATAATGGG
* * *
1871544 GTTGGAGTATCACCGATTGTGAAAAGTTGGTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCAATTATGAAAA-TTGGTGTTTTGGAAATAAAATCGGA
* *
1871595 GTTGGAGTATCCCCAATTATGGAAAATGGGTGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCAATTAT-GAAAATTGGTGTTTTGGAAATAAAATCGGA
* * *
1871646 GTTGGAGTATCCCCAATTAAGAAAAATTGATGTTTTGGAAAT-GAATCCGG-
1 GTTGGAGTATCCCCAATTATG-AAAATTGGTGTTTTGGAAATAAAAT-CGGA
1871696 GATTGGAGTATCCCC
1 G-TTGGAGTATCCCC
1871711 GAGATGAAAA
Statistics
Matches: 102, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
50 5 0.05
51 92 0.90
52 5 0.05
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.30
Consensus pattern (50 bp):
GTTGGAGTATCCCCAATTATGAAAATTGGTGTTTTGGAAATAAAATCGGA
Found at i:1871608 original size:79 final size:75
Alignment explanation
Indices: 1871386--1871608 Score: 225
Period size: 75 Copynumber: 2.9 Consensus size: 75
1871376 AAAATAAAAT
* ** * *
1871386 CGGGGTTGGAGTATCCCCGATTATGAGAAATTAAAATTTTAGAAATAAAGCCGGGGTTGGGGTAT
1 CGGGGTTGGAGTAT-CCCGATT-TGA-AAATTGATGTTTTAGAAATAAAACC-GGGTTGGAGTAT
* *
1871451 CCCTTCGAAAATAA
62 CCCCTCAAAAATAA
**
1871465 CGGGGTTGGAGTATCCCGA--TGAAAAATTGATGTTTTAGAAATAAAACCAGGGTTGGAGCGTCC
1 CGGGGTTGGAGTATCCCGATTTG-AAAATTGATGTTTTAGAAATAAAACC-GGGTTGGAGTATCC
1871528 CCTCAAAAATAA
64 CCTCAAAAATAA
* * * *
1871540 TGGGGTTGGAGTATCACCGATTGTGAAAAGTTGGTGTTTTGGAAATAAAATCGGAGTTGGAGTAT
1 CGGGGTTGGAGTATC-CCGATT-TGAAAA-TTGATGTTTTAGAAATAAAACCGG-GTTGGAGTAT
1871605 CCCC
62 CCCC
1871609 AATTATGGAA
Statistics
Matches: 121, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
75 58 0.48
76 5 0.04
78 11 0.09
79 47 0.39
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.27
Consensus pattern (75 bp):
CGGGGTTGGAGTATCCCGATTTGAAAATTGATGTTTTAGAAATAAAACCGGGTTGGAGTATCCCC
TCAAAAATAA
Found at i:1871633 original size:205 final size:207
Alignment explanation
Indices: 1871215--1871658 Score: 556
Period size: 205 Copynumber: 2.1 Consensus size: 207
1871205 AAATCGATGA
* * *
1871215 TTTAGAAATAAAATCAGGATTGGAGTAT-CCTTCGGAAATAACGGGGTTGGAGTATCCCCGACTA
1 TTTAGAAATAAAATCGGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGA--A
* * * *
1871279 TAAAAAATTGATGTTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGG
64 TAAAAAATTGATGTTTTAGAAATAAAACCAGGGTTAGAGCATCCCCTCAAAAATAACGGGGTTGG
* * *
1871344 AGTATCCCCGATTATGAGAAATTAATATTTTAAAAATAAAATCGGGGTTGGAGTATCCCCGATTA
129 AGTATCACCGATTATGAGAAATTAATATTTTAAAAATAAAATCGGAGTTGGAGTATCCCCAATTA
*
1871409 TGAGAAATTAAAAT
194 TGAGAAATGAAAAT
** * *
1871423 TTTAGAAATAAAGCCGGGGTTGGGGTATCCCTTCGAAAATAACGGGGTTGGAGTAT-CCCG-ATG
1 TTTAGAAATAAAATCGGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGAATA
* * *
1871486 AAAAATTGATGTTTTAGAAATAAAACCAGGGTTGGAGCGTCCCCTCAAAAATAATGGGGTTGGAG
66 AAAAATTGATGTTTTAGAAATAAAACCAGGGTTAGAGCATCCCCTCAAAAATAACGGGGTTGGAG
* ** * **
1871551 TATCACCGATTGTGA-AAAGTTGGTGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCAATTAT
131 TATCACCGATTATGAGAAA-TTAATATTTTAAAAATAAAATCGGAGTTGGAGTATCCCCAATTAT
****
1871615 G-GAAAATGGGTGT
195 GAG-AAATGAAAAT
*
1871628 TTTAGAAATAAAATCGGAGTTGGAGTATCCC
1 TTTAGAAATAAAATCGGGGTTGGAGTATCCC
1871659 CAATTAAGAA
Statistics
Matches: 201, Mismatches: 32, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
204 4 0.02
205 144 0.72
208 27 0.13
209 26 0.13
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (207 bp):
TTTAGAAATAAAATCGGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGAATA
AAAAATTGATGTTTTAGAAATAAAACCAGGGTTAGAGCATCCCCTCAAAAATAACGGGGTTGGAG
TATCACCGATTATGAGAAATTAATATTTTAAAAATAAAATCGGAGTTGGAGTATCCCCAATTATG
AGAAATGAAAAT
Found at i:1874042 original size:53 final size:53
Alignment explanation
Indices: 1873982--1874088 Score: 146
Period size: 53 Copynumber: 2.0 Consensus size: 53
1873972 AAAATGCCTA
* * *
1873982 AATGTATCGATACATTGTA-AAATGTATCGATACAATG-AGCAATGTATCGATAC
1 AATGTATCGATACAATG-AGAAATGTATCGATACAATGCA-AAATGTATCAATAC
*
1874035 AATGTATCGATACAATGAGCAATGTATCGATACAATGCAAAATGTATCAATAC
1 AATGTATCGATACAATGAGAAATGTATCGATACAATGCAAAATGTATCAATAC
1874088 A
1 A
1874089 TCTGGGTAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
52 1 0.02
53 46 0.96
54 1 0.02
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (53 bp):
AATGTATCGATACAATGAGAAATGTATCGATACAATGCAAAATGTATCAATAC
Found at i:1874044 original size:33 final size:33
Alignment explanation
Indices: 1874002--1874071 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
1873992 TACATTGTAA
1874002 AATGTATCGATACAATGAGCAATGTATCGATAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
1874035 AATGTATCGATACAATGAGCAATGTATCGATAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
1874068 AATG
1 AATG
1874072 CAAAATGTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (33 bp):
AATGTATCGATACAATGAGCAATGTATCGATAC
Found at i:1874057 original size:20 final size:19
Alignment explanation
Indices: 1873982--1874172 Score: 109
Period size: 20 Copynumber: 9.8 Consensus size: 19
1873972 AAAATGCCTA
* *
1873982 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AC
1874002 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-C
1874022 AATGTATCG-----AT-AC
1 AATGTATCGATACAATGAC
1874035 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-C
*
1874055 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AC
* *
1874075 AATGTATCAATACATCTGGGTAAACCC
1 AATGTATCGATACA-AT--G---A--C
1874102 AGAATGTATCGATACAAT---
1 --AATGTATCGATACAATGAC
1874120 --T-TATCGATACAATGAGC
1 AATGTATCGATACAATGA-C
1874137 AATGTATCGATACAATGAAC
1 AATGTATCGATACAATG-AC
1874157 AATGTATCGATACAAT
1 AATGTATCGATACAAT
1874173 TTGTGAAAAT
Statistics
Matches: 136, Mismatches: 9, Indels: 52
0.69 0.05 0.26
Matches are distributed among these distances:
13 22 0.16
14 2 0.01
15 2 0.01
18 2 0.01
19 3 0.02
20 86 0.63
21 3 0.02
23 1 0.01
25 1 0.01
28 1 0.01
29 13 0.10
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (19 bp):
AATGTATCGATACAATGAC
Found at i:1874070 original size:13 final size:13
Alignment explanation
Indices: 1874021--1874051 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
1874011 ATACAATGAG
1874021 CAATGTATCGATA
1 CAATGTATCGATA
1874034 CAATGTATCGATA
1 CAATGTATCGATA
1874047 CAATG
1 CAATG
1874052 AGCAATGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1874126 original size:13 final size:13
Alignment explanation
Indices: 1874108--1874132 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1874098 ACCCAGAATG
1874108 TATCGATACAATT
1 TATCGATACAATT
1874121 TATCGATACAAT
1 TATCGATACAAT
1874133 GAGCAATGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (13 bp):
TATCGATACAATT
Found at i:1876051 original size:13 final size:13
Alignment explanation
Indices: 1876033--1876059 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1876023 ACATTATGCT
1876033 TTGTATCGATACA
1 TTGTATCGATACA
1876046 TTGTATCGATACA
1 TTGTATCGATACA
1876059 T
1 T
1876060 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1876056 original size:33 final size:32
Alignment explanation
Indices: 1876014--1876077 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
1876004 CACATTCTGA
*
1876014 TGTATCGATACAT-TATGCTTTGTATCGATACAT
1 TGTATCGATACATGT-T-CATTGTATCGATACAT
1876047 TGTATCGATACATGTTCATTGTATCGATACA
1 TGTATCGATACATGTTCATTGTATCGATACA
1876078 AGGACAATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.48
33 14 0.48
34 1 0.03
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.41
Consensus pattern (32 bp):
TGTATCGATACATGTTCATTGTATCGATACAT
Found at i:1876068 original size:19 final size:19
Alignment explanation
Indices: 1876043--1876099 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
1876033 TTGTATCGAT
*
1876043 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
* *
1876062 TCATTGTATCGATACAAGG
1 ACATTGTATCGATACATGG
1876081 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
1876100 AGATTAGCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:1877465 original size:14 final size:14
Alignment explanation
Indices: 1877448--1877488 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
1877438 TTTCATGCTC
1877448 TTTTTTTATTTTTG
1 TTTTTTTATTTTTG
**
1877462 TTTTTTTGCTTTTG
1 TTTTTTTATTTTTG
*
1877476 TTTTTCTATTTTT
1 TTTTTTTATTTTT
1877489 ATTTCATTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.05, C:0.05, G:0.07, T:0.83
Consensus pattern (14 bp):
TTTTTTTATTTTTG
Found at i:1883512 original size:158 final size:162
Alignment explanation
Indices: 1883339--1883692 Score: 366
Period size: 167 Copynumber: 2.2 Consensus size: 162
1883329 ATCTAATAAC
*
1883339 AATA-TTAGATGAATTTTAAAAATTT-TAAACCA-AAACAAATC-CCCAAAAAAAAATTACAGAA
1 AATATTTA-ATGAATTTTAAAAATTTAAAAACCAGAAA-AAATCTCCC-AAAAAAAATTAC-GAA
* * ** * * *
1883400 -AAGAAAACTC-G-ATTTTTCGAAAAAAATG-AGTTTC-AATAGAAAAAACTTATGAAAATGAAT
62 GAAGAAAACACTGTA-TTCTAAAAAAAAAGGAAGTTTCAAAAAGAAAAAACTTATCAAAATGAAT
1883460 AAATTTTTCAAAAATAAATTAATATGAAATAAATGAT
126 AAATTTTTCAAAAATAAATTAATATGAAATAAATGAT
* * * * * *
1883497 AATATTTAATGAATTTTAAAAATTTAAAAACGAGAAAAATTCTCTCGAAAAAATTTACGAAGTAG
1 AATATTTAATGAATTTTAAAAATTTAAAAACCAGAAAAAATCTCCCAAAAAAAATTACGAAGAAG
*
1883562 AAAACACTGTATTCTAAAAAAAAAGGAAGTTTCAAGAAAAAAATAAAAAACTTATCAAAATGAAT
66 AAAACACTGTATTCTAAAAAAAAAGGAAGTTTC-----AAAAAGAAAAAACTTATCAAAATGAAT
* * *
1883627 AAATTTTTGAAAATTGAATTAATATGAAATAAATGAT
126 AAATTTTTCAAAAATAAATTAATATGAAATAAATGAT
* * *
1883664 ATTATTTGATGAATTTTAAAAATTGAAAA
1 AATATTTAATGAATTTTAAAAATTTAAAA
1883693 CTAAGAAAAA
Statistics
Matches: 161, Mismatches: 21, Indels: 19
0.80 0.10 0.09
Matches are distributed among these distances:
158 24 0.15
159 30 0.19
160 17 0.11
161 7 0.04
167 83 0.52
ACGTcount: A:0.54, C:0.07, G:0.09, T:0.29
Consensus pattern (162 bp):
AATATTTAATGAATTTTAAAAATTTAAAAACCAGAAAAAATCTCCCAAAAAAAATTACGAAGAAG
AAAACACTGTATTCTAAAAAAAAAGGAAGTTTCAAAAAGAAAAAACTTATCAAAATGAATAAATT
TTTCAAAAATAAATTAATATGAAATAAATGAT
Found at i:1883844 original size:164 final size:166
Alignment explanation
Indices: 1883439--1883844 Score: 423
Period size: 167 Copynumber: 2.5 Consensus size: 166
1883429 GTTTCAATAG
* * * * * *
1883439 AAAAAACTTATGAAAATGAATAAATTTTTCAAAAATAAATTAATATGAAATAAATGATAATATTT
1 AAAAAACTCATCAAAATAAATAAATTTTTGAAAATTCAATTAATATGAAATAAATGATAATATTT
* * * * *
1883504 -AATGAATTTTAAAAATTTAAAAACGAGAAAAATTCTCTCGAAAAAATTTACGAAGTAGAAAACA
66 GAA-GAATTTTAAAAATTTAAAAACAAGAAAAATCCCCTCGAAAAAATTTAAGAAGTACAAAACA
1883568 CTGTATTCTAAAAAAAAAGGAAGTTTCAAGAAAAAAAT
130 CTGTATTCTAAAAAAAAA-GAAGTTTCAAGAAAAAAAT
* * * *
1883606 AAAAAACTTATCAAAATGAATAAATTTTTGAAAATTGAATTAATATGAAATAAATGATATTATTT
1 AAAAAACTCATCAAAATAAATAAATTTTTGAAAATTCAATTAATATGAAATAAATGATAATATTT
* *
1883671 GATGAATTTTAAAAA-TTGAAAACTAAGAAAAATCCCCTCGAAAAAATTTATAG-AGTACAAAAC
66 GAAGAATTTTAAAAATTTAAAAAC-AAGAAAAATCCCCTCGAAAAAATTTA-AGAAGTACAAAAC
*** *
1883734 A-TCGTATT-TCGGAAAAAA-AA-TTTCAAAGAAAAAATT
129 ACT-GTATTCTAAAAAAAAAGAAGTTTC-AAGAAAAAAAT
* * * * * * * * *
1883770 CAAAAAGTCATGAAGATAAATTAATTTTTGAAAATTCATTTGATA-GCCATTAAATGATAATATT
1 AAAAAACTCATCAAAATAAATAAATTTTTGAAAATTCAATTAATATG-AAATAAATGATAATATT
1883834 TGAAGAATTTT
65 TGAAGAATTTT
1883845 GATGTTTGAA
Statistics
Matches: 203, Mismatches: 30, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
163 5 0.02
164 71 0.35
166 15 0.07
167 110 0.54
168 2 0.01
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (166 bp):
AAAAAACTCATCAAAATAAATAAATTTTTGAAAATTCAATTAATATGAAATAAATGATAATATTT
GAAGAATTTTAAAAATTTAAAAACAAGAAAAATCCCCTCGAAAAAATTTAAGAAGTACAAAACAC
TGTATTCTAAAAAAAAAGAAGTTTCAAGAAAAAAAT
Found at i:1884334 original size:13 final size:13
Alignment explanation
Indices: 1884316--1884366 Score: 50
Period size: 13 Copynumber: 4.0 Consensus size: 13
1884306 CCTTGATTTT
1884316 TCTTTTTTTTCTC
1 TCTTTTTTTTCTC
* *
1884329 TCTTTTTTTCCTT
1 TCTTTTTTTTCTC
** *
1884342 TCTTTTTCCTCTG
1 TCTTTTTTTTCTC
1884355 T-TTTTTTTTCTC
1 TCTTTTTTTTCTC
1884367 ACTTGTCAAA
Statistics
Matches: 29, Mismatches: 9, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
12 8 0.28
13 21 0.72
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.75
Consensus pattern (13 bp):
TCTTTTTTTTCTC
Found at i:1884342 original size:22 final size:23
Alignment explanation
Indices: 1884312--1884361 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
1884302 TTTACCTTGA
1884312 TTTTTCTTT-TTTTT-CTCTCTT
1 TTTTTCTTTCTTTTTCCTCTCTT
*
1884333 TTTTTCCTTTCTTTTTCCTCTGTT
1 TTTTT-CTTTCTTTTTCCTCTCTT
1884357 TTTTT
1 TTTTT
1884362 TTCTCACTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 5 0.20
22 4 0.16
23 5 0.20
24 11 0.44
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (23 bp):
TTTTTCTTTCTTTTTCCTCTCTT
Found at i:1887477 original size:19 final size:19
Alignment explanation
Indices: 1887434--1887501 Score: 82
Period size: 20 Copynumber: 3.5 Consensus size: 19
1887424 CATATCCAGA
* *
1887434 TGTATCAATACATCATGCTT
1 TGTATCGATACATCAT-CAT
*
1887454 TGTATCGATACATGATCAT
1 TGTATCGATACATCATCAT
*
1887473 TGTATCGATACATACATAAT
1 TGTATCGATACAT-CATCAT
1887493 TGTATCGAT
1 TGTATCGAT
1887502 GCATAAAACT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
19 15 0.36
20 27 0.64
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATCATCAT
Found at i:1890451 original size:15 final size:15
Alignment explanation
Indices: 1890431--1890479 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
1890421 ATCCTCAATT
1890431 ATTAAAAATTGAATA
1 ATTAAAAATTGAATA
1890446 ATTAAAAAGATTG--T-
1 ATT-AAAA-ATTGAATA
*
1890460 TTTAAAAATTGAATA
1 ATTAAAAATTGAATA
1890475 ATTAA
1 ATTAA
1890480 GGGGAGATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 10
0.69 0.05 0.26
Matches are distributed among these distances:
12 4 0.15
13 4 0.15
14 3 0.11
15 8 0.30
16 4 0.15
17 4 0.15
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (15 bp):
ATTAAAAATTGAATA
Found at i:1890474 original size:29 final size:30
Alignment explanation
Indices: 1890432--1890497 Score: 98
Period size: 29 Copynumber: 2.2 Consensus size: 30
1890422 TCCTCAATTA
1890432 TTAAAAATTGAATAATTAA-AAAGATTGTT
1 TTAAAAATTGAATAATTAAGAAAGATTGTT
**
1890461 TTAAAAATTGAATAATTAAGGGGAGATTGTT
1 TTAAAAATTGAATAATTAA-GAAAGATTGTT
1890492 TTAAAA
1 TTAAAA
1890498 TGAAAACAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 19 0.58
31 14 0.42
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (30 bp):
TTAAAAATTGAATAATTAAGAAAGATTGTT
Found at i:1899138 original size:20 final size:20
Alignment explanation
Indices: 1899113--1899152 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
1899103 GAATTTGATG
1899113 AATGATTCTGTGTTTTTATT
1 AATGATTCTGTGTTTTTATT
1899133 AATGATTCTGTGTTTTTATT
1 AATGATTCTGTGTTTTTATT
1899153 GTTTTGATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.05, G:0.15, T:0.60
Consensus pattern (20 bp):
AATGATTCTGTGTTTTTATT
Found at i:1899323 original size:13 final size:13
Alignment explanation
Indices: 1899305--1899340 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
1899295 TTTTTCTTTG
*
1899305 TATCGATACATTA
1 TATCGATACACTA
*
1899318 TATCGATACACTG
1 TATCGATACACTA
1899331 TATCGATACA
1 TATCGATACA
1899341 GGGGGATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.33
Consensus pattern (13 bp):
TATCGATACACTA
Found at i:1899504 original size:20 final size:20
Alignment explanation
Indices: 1899461--1899506 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1899451 AAATCTTTTG
1899461 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1899482 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1899502 CAAAA
1 CAAAA
1899507 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:1901939 original size:13 final size:13
Alignment explanation
Indices: 1901921--1901946 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1901911 ACACCAAAGT
1901921 ATGTATCGATACA
1 ATGTATCGATACA
1901934 ATGTATCGATACA
1 ATGTATCGATACA
1901947 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1901944 original size:33 final size:33
Alignment explanation
Indices: 1901902--1901966 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1901892 TAGCCAAACT
* *
1901902 TGTATCGATACAC-CAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAT-TGTATCGATACAA
1901935 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1901967 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1906127 original size:64 final size:64
Alignment explanation
Indices: 1906026--1906152 Score: 200
Period size: 64 Copynumber: 2.0 Consensus size: 64
1906016 AAAAAAGGAG
* * * *
1906026 AAATAGACACTTTTTAGAGATTCTTTCATTAAGGGAGTATATTCATTGGTACTAAATTGAAATC
1 AAATAGACACTTTTTAAAGATTCTTTCATTAAAGGAGTATATTCATTAGTACTAAATTAAAATC
* *
1906090 AAATAGAGATTTTTTAAAGATTCTTTCATTAAAGGAGTATATTCATTAGTACTAAATTAAAAT
1 AAATAGACACTTTTTAAAGATTCTTTCATTAAAGGAGTATATTCATTAGTACTAAATTAAAAT
1906153 GAAAAAGGGG
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (64 bp):
AAATAGACACTTTTTAAAGATTCTTTCATTAAAGGAGTATATTCATTAGTACTAAATTAAAATC
Found at i:1906619 original size:13 final size:13
Alignment explanation
Indices: 1906601--1906625 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1906591 GTTTTAATAT
1906601 ATCGATACAATGC
1 ATCGATACAATGC
1906614 ATCGATACAATG
1 ATCGATACAATG
1906626 TATCATGTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (13 bp):
ATCGATACAATGC
Found at i:1906718 original size:19 final size:19
Alignment explanation
Indices: 1906694--1906749 Score: 52
Period size: 19 Copynumber: 3.3 Consensus size: 19
1906684 CAATTCGTTG
1906694 TGTATCAATACCAAGATCA
1 TGTATCAATACCAAGATCA
*
1906713 TGTATCGATA-C-AG----
1 TGTATCAATACCAAGATCA
*
1906726 TGTATCAATACTAAGATCA
1 TGTATCAATACCAAGATCA
1906745 TGTAT
1 TGTAT
1906750 TGATACAGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 12
0.65 0.07 0.28
Matches are distributed among these distances:
13 9 0.32
15 2 0.07
17 2 0.07
18 1 0.04
19 14 0.50
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (19 bp):
TGTATCAATACCAAGATCA
Found at i:1906734 original size:32 final size:32
Alignment explanation
Indices: 1906693--1906788 Score: 131
Period size: 32 Copynumber: 3.0 Consensus size: 32
1906683 ACAATTCGTT
*
1906693 GTGTATCAATACCAAGATCATGTATCGATACA
1 GTGTATCAATACAAAGATCATGTATCGATACA
* *
1906725 GTGTATCAATACTAAGATCATGTATTGATACA
1 GTGTATCAATACAAAGATCATGTATCGATACA
*
1906757 GTGTATCGATACAAAGCAAT-ATGTATCGATAC
1 GTGTATCAATACAAAG--ATCATGTATCGATAC
1906789 TTTTAGGTCT
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
32 44 0.77
33 11 0.19
34 2 0.04
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.30
Consensus pattern (32 bp):
GTGTATCAATACAAAGATCATGTATCGATACA
Found at i:1913461 original size:15 final size:16
Alignment explanation
Indices: 1913437--1913478 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
1913427 CCTTTTCTAG
1913437 TTCAATAATTTTC-TT
1 TTCAATAATTTTCATT
*
1913452 TTCAAGAA-TTTCATT
1 TTCAATAATTTTCATT
1913467 TTCAATAATTTT
1 TTCAATAATTTT
1913479 TTATTTATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 4 0.17
15 16 0.70
16 3 0.13
ACGTcount: A:0.31, C:0.12, G:0.02, T:0.55
Consensus pattern (16 bp):
TTCAATAATTTTCATT
Found at i:1913912 original size:3 final size:3
Alignment explanation
Indices: 1913904--1913947 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
1913894 CGAGTCAACT
*
1913904 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCT TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1913948 TTTGATGGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.30, C:0.34, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:1917471 original size:13 final size:13
Alignment explanation
Indices: 1917448--1917511 Score: 50
Period size: 13 Copynumber: 5.4 Consensus size: 13
1917438 ACAATTCATC
1917448 ATGTATCGATACA
1 ATGTATCGATACA
* *
1917461 TTGTATGGATACA
1 ATGTATCGATACA
1917474 ATGTA-C----C-
1 ATGTATCGATACA
1917481 ATGTATCGATACA
1 ATGTATCGATACA
* *
1917494 TTGTATTGATACA
1 ATGTATCGATACA
1917507 ATGTA
1 ATGTA
1917512 CTATGTATCG
Statistics
Matches: 38, Mismatches: 7, Indels: 12
0.67 0.12 0.21
Matches are distributed among these distances:
7 5 0.13
8 2 0.05
12 1 0.03
13 30 0.79
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.36
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1917484 original size:33 final size:33
Alignment explanation
Indices: 1917447--1917526 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
1917437 TACAATTCAT
1917447 CATGTATCGATACATTGTATGGATACAATGTAC
1 CATGTATCGATACATTGTATGGATACAATGTAC
*
1917480 CATGTATCGATACATTGTATTGATACAATGTAC
1 CATGTATCGATACATTGTATGGATACAATGTAC
*
1917513 TATGTATCGATACA
1 CATGTATCGATACA
1917527 AACAGTGGTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (33 bp):
CATGTATCGATACATTGTATGGATACAATGTAC
Found at i:1917581 original size:20 final size:20
Alignment explanation
Indices: 1917556--1917669 Score: 178
Period size: 20 Copynumber: 5.8 Consensus size: 20
1917546 CTGCTAGTTT
1917556 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGTC
1917576 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGTC
**
1917596 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGTC
1917615 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGTC
**
1917635 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGTC
1917654 CATGTATCGATACAAT
1 CATGTATCGATACAAT
1917670 GTATCGATAC
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
19 34 0.40
20 52 0.60
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (20 bp):
CATGTATCGATACAATTGTC
Found at i:1917630 original size:39 final size:39
Alignment explanation
Indices: 1917556--1917669 Score: 201
Period size: 39 Copynumber: 2.9 Consensus size: 39
1917546 CTGCTAGTTT
**
1917556 CATGTATCGATACAATTGTCCATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAACATGTATCGATACAATTGTC
1917596 CATGTATCGATACAATGAACATGTATCGATACAATTGTC
1 CATGTATCGATACAATGAACATGTATCGATACAATTGTC
1917635 CATGTATCGATACAATGAACATGTATCGATACAAT
1 CATGTATCGATACAATGAACATGTATCGATACAAT
1917670 GTATCGATAC
Statistics
Matches: 72, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
39 57 0.79
40 15 0.21
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (39 bp):
CATGTATCGATACAATGAACATGTATCGATACAATTGTC
Found at i:1917634 original size:59 final size:58
Alignment explanation
Indices: 1917556--1917670 Score: 203
Period size: 59 Copynumber: 2.0 Consensus size: 58
1917546 CTGCTAGTTT
**
1917556 CATGTATCGATACAATTGTCCATGTATCGATACAATTGTCCATGTATCGATACAATGAA
1 CATGTATCGATACAATTGTCCATGTATCGATACAA-TGAACATGTATCGATACAATGAA
1917615 CATGTATCGATACAATTGTCCATGTATCGATACAATGAACATGTATCGATACAATG
1 CATGTATCGATACAATTGTCCATGTATCGATACAATGAACATGTATCGATACAATG
1917671 TATCGATACA
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
58 19 0.35
59 35 0.65
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (58 bp):
CATGTATCGATACAATTGTCCATGTATCGATACAATGAACATGTATCGATACAATGAA
Found at i:1917673 original size:13 final size:13
Alignment explanation
Indices: 1917655--1917681 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1917645 TACAATGAAC
1917655 ATGTATCGATACA
1 ATGTATCGATACA
1917668 ATGTATCGATACA
1 ATGTATCGATACA
1917681 A
1 A
1917682 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1923058 original size:34 final size:35
Alignment explanation
Indices: 1923015--1923083 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
1923005 AACCTTACAA
1923015 CCCTATCTTTT-CAAAGGCTAAGATAGAACCTCTT
1 CCCTATCTTTTACAAAGGCTAAGATAGAACCTCTT
*
1923049 CCCTATCTTTTACAAAGGTTAAGATAGAACCTCTT
1 CCCTATCTTTTACAAAGGCTAAGATAGAACCTCTT
1923084 AATCACTTGG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 11 0.33
35 22 0.67
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CCCTATCTTTTACAAAGGCTAAGATAGAACCTCTT
Found at i:1930814 original size:79 final size:78
Alignment explanation
Indices: 1930728--1930974 Score: 293
Period size: 79 Copynumber: 3.1 Consensus size: 78
1930718 AACGGGGCTC
* * ** *
1930728 GAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCTCGATTAT-AGAAAATTGGTGTTTT-GAA
1 GAGTATCCCCTCAGAAATAACGGGGTTAGAGTATCCTCGATTGTGAG-AAATCAGTATTTTAG-A
1930791 AATAAAATCGAGATTG
64 AATAAAATCG-GATTG
* ** *
1930807 GAGTATCCCCAC-GAAAATAACATGGTTAGAGTATCCCCGATTGTGAGAAATCAGTATTTTAGAA
1 GAGTATCCCCTCAG-AAATAACGGGGTTAGAGTATCCTCGATTGTGAGAAATCAGTATTTTAGAA
* *
1930871 ATAAAGTCGGGGTTG
65 ATAAAATC-GGATTG
* * *
1930886 GAGTATCCCCTCAGAAATAACGGAGTTAGAGTATCCTTGATTGTGAGAAATCAATATTTTAGAAA
1 GAGTATCCCCTCAGAAATAACGGGGTTAGAGTATCCTCGATTGTGAGAAATCAGTATTTTAGAAA
1930951 TAAAATCGGAGTTG
66 TAAAATCGGA-TTG
1930965 GAGTATCCCC
1 GAGTATCCCC
1930975 GATTGTAAAA
Statistics
Matches: 142, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
78 3 0.02
79 134 0.94
80 5 0.04
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (78 bp):
GAGTATCCCCTCAGAAATAACGGGGTTAGAGTATCCTCGATTGTGAGAAATCAGTATTTTAGAAA
TAAAATCGGATTG
Found at i:1930969 original size:51 final size:50
Alignment explanation
Indices: 1930904--1931025 Score: 145
Period size: 51 Copynumber: 2.4 Consensus size: 50
1930894 CCTCAGAAAT
* ** * *
1930904 AACGGAGTTAGAGTATCCTTGATTGTGAGAAATCAATATTTTAGAAATAA
1 AACGGAGTTGGAGTATCCCCGATTGTAAAAAATCAATATTTTAGAAATAA
** *
1930954 AATCGGAGTTGGAGTATCCCCGATTGTAAAAAATTGATGTTTTAGAAATAA
1 AA-CGGAGTTGGAGTATCCCCGATTGTAAAAAATCAATATTTTAGAAATAA
*
1931005 AACCGAGGTTGGAGTATCCCC
1 AACGGA-GTTGGAGTATCCCC
1931026 TTTGAAATAA
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
50 5 0.08
51 56 0.92
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (50 bp):
AACGGAGTTGGAGTATCCCCGATTGTAAAAAATCAATATTTTAGAAATAA
Found at i:1930973 original size:130 final size:130
Alignment explanation
Indices: 1930835--1931104 Score: 337
Period size: 130 Copynumber: 2.1 Consensus size: 130
1930825 AACATGGTTA
* * ** *
1930835 GAGTATCCCCGATTGTGAGAAATCAG-TATTTTAGAAATAAAGTCGGGGTTGGAGTATCCCCTCA
1 GAGTATCCCCGATTGTAAAAAAT-AGATATTTTAGAAATAAAACCGAGGTTGGAGTATCCCCTCA
* ** * * **
1930899 GAAATAACGGAGTTAGAGTATCCTTGATTGT-GAGAAATCAATATTTTAGAAATAAAATCGGAGT
65 GAAATAACAGAGTTAGAGTATCCCCGATGGTGGA-AAATCAATATTTTAGAAATAAAACCAAAGT
1930963 TG
129 TG
* * **
1930965 GAGTATCCCCGATTGTAAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTATCCCCTTTG
1 GAGTATCCCCGATTGTAAAAAATAGATATTTTAGAAATAAAACCGAGGTTGGAGTATCCCCTCAG
* * *
1931030 AAATAACAGAGTTAGAGTATCCCCGATGGTGGAAAATCGATGTTTTGGAAATAAAACCAAAGTTG
66 AAATAACAGAGTTAGAGTATCCCCGATGGTGGAAAATCAATATTTTAGAAATAAAACCAAAGTTG
1931095 GAGTATCCCC
1 GAGTATCCCC
1931105 TCAGAAATAA
Statistics
Matches: 119, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
129 1 0.01
130 116 0.97
131 2 0.02
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (130 bp):
GAGTATCCCCGATTGTAAAAAATAGATATTTTAGAAATAAAACCGAGGTTGGAGTATCCCCTCAG
AAATAACAGAGTTAGAGTATCCCCGATGGTGGAAAATCAATATTTTAGAAATAAAACCAAAGTTG
Found at i:1931042 original size:79 final size:79
Alignment explanation
Indices: 1930959--1931136 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 79
1930949 AATAAAATCG
* * * *
1930959 GAGTTGGAGTATCCCCGATTGTAAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTATCC
1 GAGTTGGAGTATCCCCGATGGTAAAAAATCGATGTTTTAGAAATAAAACCAAAGTTGGAGTATCC
**
1931024 CCTTTGAAATAACA
66 CCTCAGAAATAACA
* ** *
1931038 GAGTTAGAGTATCCCCGATGGTGGAAAATCGATGTTTTGGAAATAAAACCAAAGTTGGAGTATCC
1 GAGTTGGAGTATCCCCGATGGTAAAAAATCGATGTTTTAGAAATAAAACCAAAGTTGGAGTATCC
1931103 CCTCAGAAATAACA
66 CCTCAGAAATAACA
*
1931117 -AGATTGGAGTATCCCTGATG
1 GAG-TTGGAGTATCCCCGATG
1931137 ACGTAACGGG
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
78 2 0.02
79 84 0.98
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (79 bp):
GAGTTGGAGTATCCCCGATGGTAAAAAATCGATGTTTTAGAAATAAAACCAAAGTTGGAGTATCC
CCTCAGAAATAACA
Found at i:1931129 original size:209 final size:209
Alignment explanation
Indices: 1930752--1931135 Score: 501
Period size: 209 Copynumber: 1.8 Consensus size: 209
1930742 AAATAACGGG
* * * *
1930752 GTTGGAGTATCCTCGATTATAGAAAATTGGTGTTTTGAAAATAAAATCGAGATTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTATAAAAAATTGATGTTTTGAAAATAAAACCGAGATTGGAGTATCCCC
* ** ***
1930817 ACGAAAATAACATGGTTAGAGTATCCCCGATTGTGAGAAATCAGTATTTTAGAAATAAAGTCGGG
66 ACGAAAATAACATGGTTAGAGTATCCCCGATGGTGAGAAATCAGTATTTTAGAAATAAAACCAAA
* *
1930882 GTTGGAGTATCCCCTCAGAAATAACGGAGTTAGAGTATCCTTGATTGTGAGAAATCAATATTTTA
131 GTTGGAGTATCCCCTCAGAAATAACAGAGTTAGAGTATCCCTGATTGTGAGAAATCAATATTTTA
1930947 GAAATAAAATCGGA
196 GAAATAAAATCGGA
* *
1930961 GTTGGAGTATCCCCGATTGTAAAAAATTGATGTTTT-AGAAATAAAACCGAGGTTGGAGTATCCC
1 GTTGGAGTATCCCCGATTATAAAAAATTGATGTTTTGA-AAATAAAACCGAGATTGGAGTATCCC
** * *
1931025 CTTTG-AAATAACA-GAGTTAGAGTATCCCCGATGGTG-GAAAATC-GATGTTTTGGAAATAAAA
65 C-ACGAAAATAACATG-GTTAGAGTATCCCCGATGGTGAG-AAATCAG-TATTTTAGAAATAAAA
*
1931086 CCAAAGTTGGAGTATCCCCTCAGAAATAACA-AGATTGGAGTATCCCTGAT
126 CCAAAGTTGGAGTATCCCCTCAGAAATAACAGAG-TTAGAGTATCCCTGAT
1931136 GACGTAACGG
Statistics
Matches: 150, Mismatches: 19, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
208 6 0.04
209 143 0.95
210 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (209 bp):
GTTGGAGTATCCCCGATTATAAAAAATTGATGTTTTGAAAATAAAACCGAGATTGGAGTATCCCC
ACGAAAATAACATGGTTAGAGTATCCCCGATGGTGAGAAATCAGTATTTTAGAAATAAAACCAAA
GTTGGAGTATCCCCTCAGAAATAACAGAGTTAGAGTATCCCTGATTGTGAGAAATCAATATTTTA
GAAATAAAATCGGA
Found at i:1931320 original size:51 final size:51
Alignment explanation
Indices: 1931256--1931399 Score: 175
Period size: 51 Copynumber: 2.8 Consensus size: 51
1931246 AAATAACGGG
* *
1931256 GTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTGAAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGAAAATAAAATCAGA
* * * *
1931307 GTTGGAGTATCCCCGATTGCTG-TAAATCGATGCTTT-AGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTG-TGAAAAATTGATGTTTTGA-AAATAAAATCAGA
** *
1931358 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAAT
1 GTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGAAAAT
1931400 GGAACTGGGA
Statistics
Matches: 77, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
50 2 0.03
51 73 0.95
52 2 0.03
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGAAAATAAAATCAGA
Found at i:1933797 original size:13 final size:13
Alignment explanation
Indices: 1933779--1933841 Score: 84
Period size: 13 Copynumber: 5.3 Consensus size: 13
1933769 GTAAACCCAG
1933779 AATGTATCGATAC
1 AATGTATCGATAC
1933792 AATGTATCGATAC
1 AATGTATCGATAC
1933805 AA--T-T--A-AC
1 AATGTATCGATAC
1933812 AATGTATCGATAC
1 AATGTATCGATAC
1933825 AATGTATCGATAC
1 AATGTATCGATAC
1933838 AATG
1 AATG
1933842 AACAATGTAT
Statistics
Matches: 44, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
7 4 0.09
8 1 0.02
9 1 0.02
10 2 0.05
11 1 0.02
12 1 0.02
13 34 0.77
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:1933815 original size:20 final size:20
Alignment explanation
Indices: 1933790--1933827 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1933780 ATGTATCGAT
1933790 ACAATGTATCGATACAATTA
1 ACAATGTATCGATACAATTA
1933810 ACAATGTATCGATACAAT
1 ACAATGTATCGATACAAT
1933828 GTATCGATAC
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:0.45, C:0.16, G:0.11, T:0.29
Consensus pattern (20 bp):
ACAATGTATCGATACAATTA
Found at i:1933821 original size:33 final size:33
Alignment explanation
Indices: 1933779--1933858 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
1933769 GTAAACCCAG
*
1933779 AATGTATCGATACAATGTATCGATACAATTAAC
1 AATGTATCGATACAATGTATCGATACAATGAAC
1933812 AATGTATCGATACAATGTATCGATACAATGAAC
1 AATGTATCGATACAATGTATCGATACAATGAAC
*
1933845 AATGTATCAATACA
1 AATGTATCGATACA
1933859 TCTAGGTAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (33 bp):
AATGTATCGATACAATGTATCGATACAATGAAC
Found at i:1933846 original size:20 final size:19
Alignment explanation
Indices: 1933790--1933858 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 19
1933780 ATGTATCGAT
1933790 ACAATGTATCGATACAATTA
1 ACAATGTATCGATACAA-TA
1933810 ACAATGTATCG-----AT-
1 ACAATGTATCGATACAATA
1933823 ACAATGTATCGATACAATGA
1 ACAATGTATCGATACAAT-A
*
1933843 ACAATGTATCAATACA
1 ACAATGTATCGATACA
1933859 TCTAGGTAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.27
14 1 0.02
15 1 0.02
18 2 0.05
20 26 0.63
ACGTcount: A:0.45, C:0.16, G:0.12, T:0.28
Consensus pattern (19 bp):
ACAATGTATCGATACAATA
Found at i:1939883 original size:16 final size:16
Alignment explanation
Indices: 1939857--1939898 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
1939847 GGAAGAAAAT
1939857 AAATCAAAATTTCTTAA
1 AAAT-AAAATTTCTTAA
*
1939874 AAATAAAA-TTCTTGA
1 AAATAAAATTTCTTAA
*
1939889 AAAGAAAATT
1 AAATAAAATT
1939899 GTTGAACTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 13 0.59
16 5 0.23
17 4 0.18
ACGTcount: A:0.57, C:0.07, G:0.05, T:0.31
Consensus pattern (16 bp):
AAATAAAATTTCTTAA
Found at i:1939912 original size:16 final size:15
Alignment explanation
Indices: 1939862--1939904 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
1939852 AAAATAAATC
* *
1939862 AAAATTTCTTAAAAAT
1 AAAA-TTCTTGAAAAG
1939878 AAAATTCTTGAAAAG
1 AAAATTCTTGAAAAG
*
1939893 AAAATTGTTGAA
1 AAAATTCTTGAA
1939905 CTAGAAAAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 20 0.83
16 4 0.17
ACGTcount: A:0.53, C:0.05, G:0.09, T:0.33
Consensus pattern (15 bp):
AAAATTCTTGAAAAG
Found at i:1945911 original size:270 final size:270
Alignment explanation
Indices: 1945411--1945942 Score: 780
Period size: 270 Copynumber: 2.0 Consensus size: 270
1945401 ATTGTGGCAA
*
1945411 CTTCAATGTCAGCAATTCACTCCATTCTTTGAAAACCTTGGGCATTGGGACTTTGAATAAGGAAA
1 CTTCAATGTCAGCAATTCACTCCATTCTTTGAAAACCTTGGGCATTAGGACTTTGAATAAGGAAA
* * *
1945476 AGCCAATTACAAAGCAAAAGTCCAATCTGCTTTCCAAGCTCGGAAGAAAGTTCATTGCATGGAGC
66 AGCCAATTACAAAACAAAAGTCCAATATGATTTCCAAGCTCGGAAGAAAGTTCATTGCATGGAGC
* * *
1945541 GATATTGGAGAGGAAGTGCTAAGACTCTCGGGTATGAGGAATGGCGAATCCATCACATCAATAAC
131 AATATTGGAGAGGAAGTGCTAAGACTCTCGGGTATAAAGAATGGCGAATCCATCACATCAATAAC
* * * **
1945606 ACCTTGCTACTACTTAATTTCGAGACATTACAAATCCCGATGGAGGAGCCCCTTTCTGAAGCAGA
196 ACCTTACTACTACCTAATTTCGAGACATGACAAATCCCGATAAAGGAGCCCCTTTCTGAAGCAGA
1945671 ATTGTGCTAG
261 ATTGTGCTAG
* * *** *
1945681 CTTCAGTGTCAGCAATTCACTCCATTCTTTGAAAACCTTTGGCATTAGGACTTTGAATATTTAGA
1 CTTCAATGTCAGCAATTCACTCCATTCTTTGAAAACCTTGGGCATTAGGACTTTGAATAAGGAAA
* *
1945746 AGCCAATTACAAAACAAAAGTCCAATATGATTTCCGAGCTTGGAAGAAAGTTCATTGCATGGAGC
66 AGCCAATTACAAAACAAAAGTCCAATATGATTTCCAAGCTCGGAAGAAAGTTCATTGCATGGAGC
* * *
1945811 AATATTGGAGTGGAAGTGCTACGACTCTCGGGTATAAAGAATGGCGAATCCAT-AGCATCAATGA
131 AATATTGGAGAGGAAGTGCTAAGACTCTCGGGTATAAAGAATGGCGAATCCATCA-CATCAATAA
* * ** *
1945875 CACCTTACTATTACCCT-ATTTCGGGACATGACAAATCCCGATAAAGGAGCCTTTTTCTGAAGCT
195 CACCTTACTACTA-CCTAATTTCGAGACATGACAAATCCCGATAAAGGAGCCCCTTTCTGAAGCA
1945939 GAAT
259 GAAT
1945943 AGCTTAGATG
Statistics
Matches: 232, Mismatches: 28, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
269 1 0.00
270 229 0.99
271 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (270 bp):
CTTCAATGTCAGCAATTCACTCCATTCTTTGAAAACCTTGGGCATTAGGACTTTGAATAAGGAAA
AGCCAATTACAAAACAAAAGTCCAATATGATTTCCAAGCTCGGAAGAAAGTTCATTGCATGGAGC
AATATTGGAGAGGAAGTGCTAAGACTCTCGGGTATAAAGAATGGCGAATCCATCACATCAATAAC
ACCTTACTACTACCTAATTTCGAGACATGACAAATCCCGATAAAGGAGCCCCTTTCTGAAGCAGA
ATTGTGCTAG
Found at i:1954183 original size:15 final size:15
Alignment explanation
Indices: 1954163--1954197 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1954153 ACGTCCTTTT
1954163 AACAAAAAACAAAAA
1 AACAAAAAACAAAAA
* *
1954178 AACAAAAACCCAAAA
1 AACAAAAAACAAAAA
1954193 AACAA
1 AACAA
1954198 CACAAAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (15 bp):
AACAAAAAACAAAAA
Found at i:1955543 original size:28 final size:28
Alignment explanation
Indices: 1955511--1956204 Score: 747
Period size: 28 Copynumber: 24.6 Consensus size: 28
1955501 AATATGACCT
*
1955511 CTTTTCAAAGCCCACAAGTCAATGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
*
1955539 CTTTTCAAAGCCCACAAGTCAATGGCAACC
1 CTTTTCAAAGCCCACAAGTCAGTGGC-A-C
1955569 CTTTTCAAAGCCCACAAGTCAGTGGCAACC
1 CTTTTCAAAGCCCACAAGTCAGTGGC-A-C
** * *
1955599 CTTTTCAAAGCTTACAAATCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
*
1955627 CTTTTCAAAGCCCAAAAGTCAGTGGCAACC
1 CTTTTCAAAGCCCACAAGTCAGTGGC-A-C
* * * *
1955657 CTTTTCAAAGCCCATAAGTTAGCGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
*
1955685 CATTTCAAAGCCCACAAGTCAGTGGCATC
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-C
**
1955714 C-TTTCAAAGCCCACAAGTCAGTGGCTT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
*
1955741 CTTTTCAAAGCCCACAAGTTAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
1955769 CTTTTCAAAGCCCATAAGTCAATGGTAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
* *
1955797 CTTCTCAAAGCCCACAAGTCAATGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
1955825 CTTCTCAAAGCCCACAAGTCAATGACATC
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-C
* * * *
1955854 CTTCTCAAAGTCGACAAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
*
1955882 CTTTTCAAAGCCCGCAAGTCAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
*
1955910 CTTCTCAAAGCCCACAAGTCAGTGGCATC
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-C
*
1955939 C-TTTCAAAGCCCACAAGTTAGTGGCATC
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-C
* * *
1955967 CTTTT-AGAGCCTACAAGTCAGTGG-ATT
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-C
* *
1955994 TTTTTCAAAGCCCACAAGTTAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
** * * * **
1956022 CTTTTTGAAGACCGCAAGTCAGCGGCTT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
*
1956050 CTTTTCAAAGCCCACAAGTTAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
1956078 CTTTTCAAAGCCCACAAGTCAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
* * **
1956106 CTTCTCAAAGCCCACAAGTC-CTCCCATC
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-C
* * * *
1956134 C-TCTCAAATCCCATAAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
1956161 CTTTTCAAAGCCCACAAG-CTAGTGGCATC
1 CTTTTCAAAGCCCACAAGTC-AGTGGCA-C
1956190 C-TTTCAAAGCCCACA
1 CTTTTCAAAGCCCACA
1956205 CAAGTCGGTG
Statistics
Matches: 563, Mismatches: 87, Indels: 32
0.83 0.13 0.05
Matches are distributed among these distances:
27 28 0.05
28 423 0.75
29 36 0.06
30 76 0.13
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (28 bp):
CTTTTCAAAGCCCACAAGTCAGTGGCAC
Found at i:1957304 original size:30 final size:31
Alignment explanation
Indices: 1957268--1957327 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
1957258 TGAACAGTAC
1957268 ATGTATCAATACATTCT-GTTTTTTACCCAG
1 ATGTATCAATACATTCTAGTTTTTTACCCAG
* *
1957298 ATGTATCGATACATTCTATTTTTTTACCCA
1 ATGTATCAATACATTCTAGTTTTTTACCCA
1957328 TATATATTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 16 0.59
31 11 0.41
ACGTcount: A:0.27, C:0.20, G:0.08, T:0.45
Consensus pattern (31 bp):
ATGTATCAATACATTCTAGTTTTTTACCCAG
Found at i:1969653 original size:27 final size:27
Alignment explanation
Indices: 1969615--1969668 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
1969605 TAAGAAAGCT
1969615 TTTTTTAGAATTATCATAGCTTTATAG
1 TTTTTTAGAATTATCATAGCTTTATAG
1969642 TTTTTTAGAATTATCATAGCTTTATAG
1 TTTTTTAGAATTATCATAGCTTTATAG
1969669 CTCATTAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.07, G:0.11, T:0.52
Consensus pattern (27 bp):
TTTTTTAGAATTATCATAGCTTTATAG
Found at i:1969676 original size:27 final size:27
Alignment explanation
Indices: 1969619--1969676 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
1969609 AAAGCTTTTT
* **
1969619 TTAGAATTATCATAGCTTTATAGTTTT
1 TTAGAATTATCATAGCTTTATAGCTCA
1969646 TTAGAATTATCATAGCTTTATAGCTCA
1 TTAGAATTATCATAGCTTTATAGCTCA
1969673 TTAG
1 TTAG
1969677 GAGTTACATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (27 bp):
TTAGAATTATCATAGCTTTATAGCTCA
Found at i:1971632 original size:28 final size:27
Alignment explanation
Indices: 1971601--1971694 Score: 75
Period size: 30 Copynumber: 3.3 Consensus size: 27
1971591 TTTTATTTTA
1971601 TTAATTTATTTTTAATGTAAATATAATT
1 TTAATTTATTTTTAAT-TAAATATAATT
*
1971629 TTAA-TTATTATTTAACATAAATA-AATTTT
1 TTAATTTATT-TTTAA-TTAAATATAA--TT
*
1971658 TTAATTTATATTTTATTATTTAATATAATT
1 TTAATTTAT-TTTTA--ATTAAATATAATT
*
1971688 ATAATTT
1 TTAATTT
1971695 TTAATTATTT
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
27 7 0.13
28 15 0.28
29 6 0.11
30 16 0.30
31 6 0.11
32 3 0.06
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (27 bp):
TTAATTTATTTTTAATTAAATATAATT
Found at i:1971705 original size:40 final size:39
Alignment explanation
Indices: 1971633--1971749 Score: 116
Period size: 39 Copynumber: 3.0 Consensus size: 39
1971623 ATAATTTTAA
* *
1971633 TTATTATTTAACATAA-ATAAATTTTT--TAATTTA-TATT
1 TTATTATTTAATATAATAT-AATTTTTAATTATTTATTA-T
1971670 TTATTATTTAATATAATTATAATTTTTAATTATTTATTAT
1 TTATTATTTAATATAA-TATAATTTTTAATTATTTATTAT
* * ** *
1971710 ATATAATTTAATATAATATAATTAATAATTATTTTTTAT
1 TTATTATTTAATATAATATAATTTTTAATTATTTATTAT
1971749 T
1 T
1971750 CTCACTTTAC
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
37 15 0.22
38 7 0.10
39 22 0.33
40 21 0.31
41 2 0.03
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (39 bp):
TTATTATTTAATATAATATAATTTTTAATTATTTATTAT
Found at i:1971724 original size:14 final size:15
Alignment explanation
Indices: 1971675--1971736 Score: 57
Period size: 14 Copynumber: 4.5 Consensus size: 15
1971665 ATATTTTATT
1971675 ATTTAATATAATTATA
1 ATTTAATATAA-TATA
1971691 ATTT--T-TAAT-T-
1 ATTTAATATAATATA
*
1971701 ATTTATTAT-ATATA
1 ATTTAATATAATATA
1971715 ATTTAATATAATATA
1 ATTTAATATAATATA
1971730 A-TTAATA
1 ATTTAATA
1971737 ATTATTTTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
10 4 0.10
11 1 0.03
12 4 0.10
13 5 0.13
14 15 0.38
15 6 0.15
16 4 0.10
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTAATATAATATA
Found at i:1971812 original size:18 final size:19
Alignment explanation
Indices: 1971789--1971839 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 19
1971779 ATAAATATAT
*
1971789 ATTTTACTATTAAT-TTTA
1 ATTTTATTATTAATATTTA
1971807 ATTTTATTATTATAATATTTA
1 ATTTTATTA-T-TAATATTTA
1971828 ATTTTATTATTA
1 ATTTTATTATTA
1971840 TAATTACTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 8 0.28
19 3 0.10
20 5 0.17
21 13 0.45
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (19 bp):
ATTTTATTATTAATATTTA
Found at i:1971829 original size:21 final size:20
Alignment explanation
Indices: 1971799--1971844 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 20
1971789 ATTTTACTAT
1971799 TAATTTTAATTTTATTATTA
1 TAATTTTAATTTTATTATTA
1971819 TAATATTTAATTTTATTATTA
1 TAAT-TTTAATTTTATTATTA
1971840 TAATT
1 TAATT
1971845 ACTGATTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 5 0.20
21 20 0.80
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TAATTTTAATTTTATTATTA
Found at i:1972346 original size:12 final size:13
Alignment explanation
Indices: 1972329--1972360 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
1972319 TAAAAAATAA
1972329 AAATATA-AAATT
1 AAATATATAAATT
1972341 AAATATATAAATT
1 AAATATATAAATT
1972354 AAA-ATAT
1 AAATATAT
1972361 GATATTCGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
AAATATATAAATT
Found at i:1972358 original size:14 final size:13
Alignment explanation
Indices: 1972322--1972360 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
1972312 TTAATTTTAA
*
1972322 AAAATAAAAATAT
1 AAAATTAAAATAT
1972335 AAAATT-AAATAT
1 AAAATTAAAATAT
1972347 ATAAATTAAAATAT
1 A-AAATTAAAATAT
1972361 GATATTCGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 7 0.30
13 10 0.43
14 6 0.26
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAATTAAAATAT
Found at i:1977588 original size:15 final size:16
Alignment explanation
Indices: 1977560--1977589 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1977550 TACTTTTCAA
1977560 ATTGCTGTATATAATT
1 ATTGCTGTATATAATT
1977576 ATTGCTG-ATATAAT
1 ATTGCTGTATATAAT
1977590 ACGGTACTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (16 bp):
ATTGCTGTATATAATT
Found at i:1977716 original size:29 final size:30
Alignment explanation
Indices: 1977683--1977764 Score: 98
Period size: 29 Copynumber: 2.8 Consensus size: 30
1977673 TAGATGTAAA
*
1977683 TTAAAAAAATTTTAATTTTTAAT-T-TTATT
1 TTAAAAAAA-TTTAATATTTAATATATTATT
* *
1977712 TTAAAAATATTT-ATATTTAATATATTTTT
1 TTAAAAAAATTTAATATTTAATATATTATT
*
1977741 TTAAAAAAAATTAATATTTAATAT
1 TTAAAAAAATTTAATATTTAATAT
1977765 TAAAACAATT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
27 8 0.18
28 4 0.09
29 22 0.49
30 11 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (30 bp):
TTAAAAAAATTTAATATTTAATATATTATT
Found at i:1977758 original size:30 final size:29
Alignment explanation
Indices: 1977683--1977765 Score: 89
Period size: 30 Copynumber: 2.9 Consensus size: 29
1977673 TAGATGTAAA
* *
1977683 TTAAAAAAATTTTAATTTTTAAT-TTTATT
1 TTAAAAAAA-ATTAATATTTAATATTTATT
* * *
1977712 TT-AAAAATATTTATATTTAATATATTTTT
1 TTAAAAAAAATTAATATTTAATAT-TTATT
1977741 TTAAAAAAAATTAATATTTAATATT
1 TTAAAAAAAATTAATATTTAATATT
1977766 AAAACAATTT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
27 10 0.23
28 6 0.14
29 9 0.20
30 19 0.43
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (29 bp):
TTAAAAAAAATTAATATTTAATATTTATT
Found at i:1978694 original size:24 final size:24
Alignment explanation
Indices: 1978644--1978698 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
1978634 AAAATATTTT
1978644 TTAAATAT-TATTTAAGATAATTA
1 TTAAATATATATTTAAGATAATTA
*
1978667 -TAAATATATATTTAA-ATTTATTA
1 TTAAATATATATTTAAGA-TAATTA
1978690 TTAAATATA
1 TTAAATATA
1978699 AAATTTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 8 0.29
23 12 0.43
24 8 0.29
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (24 bp):
TTAAATATATATTTAAGATAATTA
Found at i:1978708 original size:18 final size:17
Alignment explanation
Indices: 1978680--1978730 Score: 54
Period size: 16 Copynumber: 3.0 Consensus size: 17
1978670 ATATATATTT
1978680 AAATTTATTATTAAATATA
1 AAATTT-TTATT-AATATA
1978699 AAATTTTTATT-AT-TA
1 AAATTTTTATTAATATA
1978714 AAATTATTTATT-ATATA
1 AAATT-TTTATTAATATA
1978731 TTTTATTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 7 0.23
16 10 0.33
17 2 0.07
18 5 0.17
19 6 0.20
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AAATTTTTATTAATATA
Found at i:1978717 original size:15 final size:16
Alignment explanation
Indices: 1978697--1978727 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1978687 TTATTAAATA
1978697 TAAAATT-TTTATTAT
1 TAAAATTATTTATTAT
1978712 TAAAATTATTTATTAT
1 TAAAATTATTTATTAT
1978728 ATATTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TAAAATTATTTATTAT
Found at i:1979090 original size:21 final size:21
Alignment explanation
Indices: 1979040--1979112 Score: 60
Period size: 21 Copynumber: 3.3 Consensus size: 21
1979030 ACGTATTGAT
*
1979040 TTAAATATT-TTATTAAATAATA
1 TTAAATATTATT-TTAAA-ATTA
*
1979062 TTTTAATATTATTTTAAAATTA
1 -TTAAATATTATTTTAAAATTA
*
1979084 TTAAATAATA-TTTAAAATATA
1 TTAAATATTATTTTAAAAT-TA
1979105 TTATAATA
1 TTA-AATA
1979113 ACTATTTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
20 8 0.19
21 13 0.30
22 7 0.16
23 13 0.30
24 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTAAATATTATTTTAAAATTA
Found at i:1979112 original size:19 final size:19
Alignment explanation
Indices: 1979064--1979112 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
1979054 AAATAATATT
*
1979064 TTAATATTATTTTAAAATTA
1 TTAATAATA-TTTAAAATTA
1979084 TTAAATAATATTTAAAATATA
1 TT-AATAATATTTAAAAT-TA
1979105 TT-ATAATA
1 TTAATAATA
1979113 ACTATTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 6 0.23
20 10 0.38
21 10 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTAATAATATTTAAAATTA
Found at i:1979245 original size:14 final size:15
Alignment explanation
Indices: 1979220--1979248 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1979210 AAATAATATA
1979220 ATATTATTATTTAAT
1 ATATTATTATTTAAT
1979235 ATATT-TTATTTAAT
1 ATATTATTATTTAAT
1979249 TAATTAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATATTATTATTTAAT
Found at i:1979447 original size:27 final size:27
Alignment explanation
Indices: 1979394--1979448 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
1979384 CATACTCGCA
* *
1979394 CGTTTGGTGAGGAAGCATTTACCCGCG
1 CGTTTGGTGAGGAAGCATTAACACGCG
*
1979421 CGTTTGGTGAGGAAGTATTAACACGCG
1 CGTTTGGTGAGGAAGCATTAACACGCG
1979448 C
1 C
1979449 TTTTAGGTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.25
Consensus pattern (27 bp):
CGTTTGGTGAGGAAGCATTAACACGCG
Found at i:1979706 original size:5 final size:5
Alignment explanation
Indices: 1979696--1979724 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
1979686 AAAATTTTAA
1979696 TTATT TTATT TTATT TTATT TTATT TTAT
1 TTATT TTATT TTATT TTATT TTATT TTAT
1979725 AATATAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:1979983 original size:24 final size:23
Alignment explanation
Indices: 1979956--1980008 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 23
1979946 TTAATAATTT
* * *
1979956 TAAATCTAATATAATAATATGATA
1 TAAATATAATATAAAAAT-TAATA
1979980 TAAATATAATATAAAAATTAATA
1 TAAATATAATATAAAAATTAATA
1980003 TAAATA
1 TAAATA
1980009 CGATATAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 10 0.38
24 16 0.62
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (23 bp):
TAAATATAATATAAAAATTAATA
Found at i:1979991 original size:11 final size:11
Alignment explanation
Indices: 1979956--1980008 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
1979946 TTAATAATTT
*
1979956 TAAATCTAATA
1 TAAATATAATA
*
1979967 TAATAATATGATA
1 T-A-AATATAATA
1979980 TAAATATAATA
1 TAAATATAATA
*
1979991 TAAAAATTAATA
1 TAAATA-TAATA
1980003 TAAATA
1 TAAATA
1980009 CGATATAGTA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
11 14 0.41
12 12 0.35
13 8 0.24
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (11 bp):
TAAATATAATA
Found at i:1984604 original size:52 final size:52
Alignment explanation
Indices: 1984456--1984584 Score: 206
Period size: 52 Copynumber: 2.5 Consensus size: 52
1984446 CGAAATATGA
* * *
1984456 AAATTTACCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTTCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
*
1984508 AAATTTGCCTGT-ATGTATCGATACATTTCATAGTGTGTCGATACATCTAGGC
1 AAATTTGCCT-TCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
1984560 AAATTTGCCTTCATGTATCGATACA
1 AAATTTGCCTTCATGTATCGATACA
1984585 AAGATCAGTG
Statistics
Matches: 71, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
51 1 0.01
52 70 0.99
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTTCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
Found at i:1984611 original size:13 final size:13
Alignment explanation
Indices: 1984593--1984617 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1984583 CAAAGATCAG
1984593 TGTATCGATACAA
1 TGTATCGATACAA
1984606 TGTATCGATACA
1 TGTATCGATACA
1984618 TTTCCTTGGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Done.