Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 256 of 333
Found at i:84384680 original size:15 final size:15
Alignment explanation
Indices: 84384660--84384691 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
84384650 CAGCACATGA
84384660 AATGATTTCCAAACT
1 AATGATTTCCAAACT
*
84384675 AATGATTTCCAAGCT
1 AATGATTTCCAAACT
84384690 AA
1 AA
84384692 GTTTGTAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (15 bp):
AATGATTTCCAAACT
Found at i:84397701 original size:16 final size:16
Alignment explanation
Indices: 84397680--84397713 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
84397670 ATTAAATATG
84397680 TAAAAATGAATTGAGT
1 TAAAAATGAATTGAGT
84397696 TAAAAATGAATTGAGT
1 TAAAAATGAATTGAGT
84397712 TA
1 TA
84397714 GCCAAGTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (16 bp):
TAAAAATGAATTGAGT
Found at i:84408602 original size:40 final size:40
Alignment explanation
Indices: 84408547--84408804 Score: 394
Period size: 40 Copynumber: 6.5 Consensus size: 40
84408537 CGGATGATAA
* *
84408547 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
84408587 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
84408627 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
84408667 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
**
84408707 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
84408747 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTAACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
84408787 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
84408805 TACTTGGTTT
Statistics
Matches: 203, Mismatches: 14, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
39 14 0.07
40 188 0.93
41 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:84410327 original size:41 final size:41
Alignment explanation
Indices: 84410200--84410385 Score: 252
Period size: 41 Copynumber: 4.6 Consensus size: 41
84410190 CTCGCACAAG
* * * * * *
84410200 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
*
84410240 GCCTTCGGGACTTAGCCCGGATATAGTCGC-TAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
* *
84410280 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGCTTAGCACAAAA
84410321 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
*
84410362 GCCTTCGGGACTTAGTCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
84410386 CATTCGAGTA
Statistics
Matches: 132, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
39 3 0.02
40 59 0.45
41 67 0.51
42 3 0.02
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (41 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
Found at i:84410334 original size:81 final size:82
Alignment explanation
Indices: 84410230--84410383 Score: 258
Period size: 81 Copynumber: 1.9 Consensus size: 82
84410220 ATATGGTCAC
* * *
84410230 TAGCATAAATGCCTTCGGGACTTAGCCCGGATATAGTCGC-TAGCACAAATGCCTTC-GGATCTT
1 TAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAAGCCTTCGGGA-CTT
84410293 AGTCCGGATGTAGTCGCT
65 AGTCCGGATGTAGTCGCT
84410311 TAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAAGCCTTCGGGACTTA
1 TAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAAGCCTTCGGGACTTA
84410376 GTCCGGAT
66 GTCCGGAT
84410384 ATCATTCGAG
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
81 38 0.56
82 27 0.40
83 3 0.04
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (82 bp):
TAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAAGCCTTCGGGACTTA
GTCCGGATGTAGTCGCT
Found at i:84419359 original size:40 final size:40
Alignment explanation
Indices: 84419304--84419561 Score: 394
Period size: 40 Copynumber: 6.5 Consensus size: 40
84419294 CGGATGATAA
* *
84419304 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
84419344 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
84419384 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
84419424 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
**
84419464 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
84419504 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTAACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
84419544 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
84419562 TACTTGGTTT
Statistics
Matches: 201, Mismatches: 16, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
39 14 0.07
40 186 0.93
41 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:84421593 original size:32 final size:32
Alignment explanation
Indices: 84421552--84421616 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
84421542 CTTGTGTGAG
84421552 ATTCATGAACTCACGCCTACGAGCATCCACAT
1 ATTCATGAACTCACGCCTACGAGCATCCACAT
* *
84421584 ATTCATGAACTCGCGCCTACGAGCATCTACAT
1 ATTCATGAACTCACGCCTACGAGCATCCACAT
84421616 A
1 A
84421617 ACTAACTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.31, C:0.32, G:0.14, T:0.23
Consensus pattern (32 bp):
ATTCATGAACTCACGCCTACGAGCATCCACAT
Found at i:84422096 original size:15 final size:15
Alignment explanation
Indices: 84422076--84422117 Score: 75
Period size: 15 Copynumber: 2.8 Consensus size: 15
84422066 CTATGGACTC
84422076 TACCACGGCCACGAG
1 TACCACGGCCACGAG
84422091 TACCACGGCCACGAG
1 TACCACGGCCACGAG
*
84422106 TACCACGTCCAC
1 TACCACGGCCAC
84422118 ATGTTCCATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.26, C:0.43, G:0.21, T:0.10
Consensus pattern (15 bp):
TACCACGGCCACGAG
Found at i:84426783 original size:48 final size:48
Alignment explanation
Indices: 84426545--84426783 Score: 325
Period size: 48 Copynumber: 5.0 Consensus size: 48
84426535 ATGACATTAG
* *
84426545 GAGTTACATTGATTTGGCTTCGGGCCATGATATTAGCACTTCGAGTGC
1 GAGTTACATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGC
* * * *
84426593 GAGTTACATTGATTTGGCTTTGGGCCATGATATTAGCACTTCGAGTGT
1 GAGTTACATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGC
** *
84426641 GAGTTATTTTGATTTGGCTTCGGGCCATGATGTTGGCACTTCGGGTGC
1 GAGTTACATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGC
* * *
84426689 GAGTTATATTAATTTGGCTTCGGGCCATGATTTTGGCACTTCGGGTGC
1 GAGTTACATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGC
** * * *
84426737 GAAATACATTGAGTTGGCTTCGGGCCATGATATTGGAACTTAGGGTG
1 GAGTTACATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTG
84426784 AAAGACTCCT
Statistics
Matches: 171, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 171 1.00
ACGTcount: A:0.19, C:0.16, G:0.30, T:0.35
Consensus pattern (48 bp):
GAGTTACATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGC
Found at i:84448016 original size:39 final size:40
Alignment explanation
Indices: 84447971--84448142 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
84447961 GCTCCTCGTT
* * *
84447971 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
84448011 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
84448050 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
84448090 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
84448130 CAAATGCCTTCGG
1 CAAATGCCTTCGG
84448143 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:84448071 original size:40 final size:39
Alignment explanation
Indices: 84447973--84448195 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
84447963 TCCTCGTTCA
* * * *
84447973 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
84448012 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
84448051 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
84448091 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
84448131 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
84448172 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
84448196 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:84448155 original size:80 final size:79
Alignment explanation
Indices: 84447971--84448195 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
84447961 GCTCCTCGTT
* * * * *
84447971 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
84448035 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
84448050 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
84448115 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
84448130 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
84448194 GA
63 GA
84448196 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:84448204 original size:41 final size:41
Alignment explanation
Indices: 84448127--84448204 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
84448117 TTTGTATCTC
* * *
84448127 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
84448168 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
84448205 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:84452472 original size:23 final size:23
Alignment explanation
Indices: 84452446--84452493 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
84452436 AGATGAGAAT
84452446 GTGTATGAGATTAGTACGAGATG
1 GTGTATGAGATTAGTACGAGATG
84452469 GTGTATGAGATTAGTACGAGATG
1 GTGTATGAGATTAGTACGAGATG
84452492 GT
1 GT
84452494 ATAGTAATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.04, G:0.35, T:0.31
Consensus pattern (23 bp):
GTGTATGAGATTAGTACGAGATG
Found at i:84457631 original size:44 final size:43
Alignment explanation
Indices: 84457581--84457739 Score: 207
Period size: 43 Copynumber: 3.7 Consensus size: 43
84457571 TATGTGTTAT
*
84457581 CGTGTAAGACCATGTCTGGGACTTTGGCATCG-ACTTATGATTTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGTA-TT-TGATTTA
* *
84457625 CGTGTAAGACTACGTCTGGGACATTGGCATCGTATTTGATTT-
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTTA
* * *
84457667 CGTGTAAGACCCTGTCTGGGATAGTGGCATCGGTATTTGA-TTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATC-GTATTTGATTTA
*
84457710 CATGTAAGACCATGTCTGGGACATTGGCAT
1 CGTGTAAGACCATGTCTGGGACATTGGCAT
84457740 TGTACGAGCT
Statistics
Matches: 100, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
42 28 0.28
43 40 0.40
44 31 0.31
45 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.33
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTTA
Found at i:84460549 original size:63 final size:63
Alignment explanation
Indices: 84460450--84460577 Score: 247
Period size: 63 Copynumber: 2.0 Consensus size: 63
84460440 CAAGAGATTA
*
84460450 TGCAAAATCCGAGGCCAAGTGGCAATGCATCTCGTGGTAGACCTCCCAGAAATATGGATATTG
1 TGCAAAATCCGAGGCCAAGTGGCAATGCATCTCGTGGTAGACCTCCCAGAAATATGGATAGTG
84460513 TGCAAAATCCGAGGCCAAGTGGCAATGCATCTCGTGGTAGACCTCCCAGAAATATGGATAGTG
1 TGCAAAATCCGAGGCCAAGTGGCAATGCATCTCGTGGTAGACCTCCCAGAAATATGGATAGTG
84460576 TG
1 TG
84460578 AGTGGCAGTC
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.22
Consensus pattern (63 bp):
TGCAAAATCCGAGGCCAAGTGGCAATGCATCTCGTGGTAGACCTCCCAGAAATATGGATAGTG
Found at i:84463581 original size:40 final size:40
Alignment explanation
Indices: 84463507--84463752 Score: 431
Period size: 40 Copynumber: 6.2 Consensus size: 40
84463497 AACCCAAGTA
* * *
84463507 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
84463546 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAGATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
84463586 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
84463626 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAGATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
84463666 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
84463706 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
84463746 CCTTCGG
1 CCTTCGG
84463753 ATCTTTGTCC
Statistics
Matches: 198, Mismatches: 8, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
39 13 0.07
40 185 0.93
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:84465146 original size:13 final size:13
Alignment explanation
Indices: 84465128--84465153 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
84465118 ATTTTTATTT
84465128 TTAACATAAAATA
1 TTAACATAAAATA
84465141 TTAACATAAAATA
1 TTAACATAAAATA
84465154 ATTATAATAT
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:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:84465588 original size:26 final size:27
Alignment explanation
Indices: 84465559--84465682 Score: 103
Period size: 27 Copynumber: 4.6 Consensus size: 27
84465549 TTAGTTTACC
*
84465559 AAATTACTGAAATACCCCCAG-TTGCA
1 AAATTACTCAAATACCCCCAGTTTGCA
* **
84465585 AAA-TAATCAAAGTACCCCCAGTTTATA
1 AAATTACTCAAA-TACCCCCAGTTTGCA
* * * *
84465612 AAATTACCCAAATATCCTC-GATTTGTA
1 AAATTACTCAAATACCCCCAG-TTTGCA
*
84465639 AAATTAC-CGAAATACCCTCAGTTTGCA
1 AAATTACTC-AAATACCCCCAGTTTGCA
*
84465666 AAATTACTAAAATACCC
1 AAATTACTCAAATACCC
84465683 TCGACATGTA
Statistics
Matches: 79, Mismatches: 12, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
25 6 0.08
26 14 0.18
27 52 0.66
28 7 0.09
ACGTcount: A:0.41, C:0.24, G:0.08, T:0.27
Consensus pattern (27 bp):
AAATTACTCAAATACCCCCAGTTTGCA
Found at i:84465640 original size:27 final size:27
Alignment explanation
Indices: 84465610--84465708 Score: 101
Period size: 27 Copynumber: 3.7 Consensus size: 27
84465600 CCCCAGTTTA
* *
84465610 TAAAATTACCCAAATATCCTCGATTTG
1 TAAAATTACCAAAATACCCTCGATTTG
*
84465637 TAAAATTACCGAAATACCCTC-AGTTTG
1 TAAAATTACCAAAATACCCTCGA-TTTG
* * **
84465664 CAAAATTACTAAAATACCCTCGACATG
1 TAAAATTACCAAAATACCCTCGATTTG
* *
84465691 TAAAATTATCAAAGTACC
1 TAAAATTACCAAAATACC
84465709 AGCAAATTAC
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
26 1 0.02
27 57 0.97
28 1 0.02
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.28
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCTCGATTTG
Found at i:84465735 original size:27 final size:27
Alignment explanation
Indices: 84465705--84465762 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
84465695 ATTATCAAAG
84465705 TACCAGCAAATTACAAAATTACTATTT
1 TACCAGCAAATTACAAAATTACTATTT
** * * *
84465732 TACCCTCGATTTACAGAATTACTATTT
1 TACCAGCAAATTACAAAATTACTATTT
84465759 TACC
1 TACC
84465763 CTCGATTTAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.36, C:0.22, G:0.05, T:0.36
Consensus pattern (27 bp):
TACCAGCAAATTACAAAATTACTATTT
Found at i:84465752 original size:54 final size:54
Alignment explanation
Indices: 84465701--84465808 Score: 126
Period size: 54 Copynumber: 2.0 Consensus size: 54
84465691 TAAAATTATC
*
84465701 AAAGTACCAGCAAATTACAAAATTACTATTTTACCCTCGATTTACAGAATTACT
1 AAAGTACCAGCAAATTACAAAATTACCATTTTACCCTCGATTTACAGAATTACT
*** ** * * * *
84465755 ATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACT
1 AAAGTACCAGCAAATTACAAAATTACCATTTTACCCTCGATTTACAGAATTACT
84465809 GTTTTACACT
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.35
Consensus pattern (54 bp):
AAAGTACCAGCAAATTACAAAATTACCATTTTACCCTCGATTTACAGAATTACT
Found at i:84465763 original size:27 final size:27
Alignment explanation
Indices: 84465715--84466088 Score: 480
Period size: 27 Copynumber: 13.9 Consensus size: 27
84465705 TACCAGCAAA
* *
84465715 TTACAAAATTACTATTTTACCCTCGAT
1 TTACAGAATTACTGTTTTACCCTCGAT
*
84465742 TTACAGAATTACTATTTTACCCTCGAT
1 TTACAGAATTACTGTTTTACCCTCGAT
*
84465769 TTACAGAATTACCGTTTTACCCTCGAT
1 TTACAGAATTACTGTTTTACCCTCGAT
*
84465796 TTACAGAATTACTGTTTTACACTCGAT
1 TTACAGAATTACTGTTTTACCCTCGAT
* * *
84465823 TTATAGAATTACGGTTTTACCCTTGAT
1 TTACAGAATTACTGTTTTACCCTCGAT
*
84465850 TTACAGAATTACTGTTTTACACTCGAT
1 TTACAGAATTACTGTTTTACCCTCGAT
*
84465877 TTACAGAATTA-TCGTTTTACCCTTGAT
1 TTACAGAATTACT-GTTTTACCCTCGAT
*
84465904 TTACAGAATTACCGTTTTACCCTCGAT
1 TTACAGAATTACTGTTTTACCCTCGAT
* *
84465931 TTATAGAATTACTGTTTTACCCTCAAT
1 TTACAGAATTACTGTTTTACCCTCGAT
* * *
84465958 TTACAAAATTACTATTTTACCATCGAT
1 TTACAGAATTACTGTTTTACCCTCGAT
* ** *
84465985 TTAAAGAATTACCATTTTAACCTCGAT
1 TTACAGAATTACTGTTTTACCCTCGAT
* *
84466012 TTACAAAATTACTATTTTACCCTCGAT
1 TTACAGAATTACTGTTTTACCCTCGAT
* *
84466039 TTACAAAATTACCGTTTTACCCTCGAT
1 TTACAGAATTACTGTTTTACCCTCGAT
* * **
84466066 TTATAAAATTACCATTTTACCCT
1 TTACAGAATTACTGTTTTACCCT
84466089 TAGGGTGTTA
Statistics
Matches: 307, Mismatches: 38, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
26 1 0.00
27 306 1.00
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.41
Consensus pattern (27 bp):
TTACAGAATTACTGTTTTACCCTCGAT
Found at i:84466367 original size:27 final size:26
Alignment explanation
Indices: 84466323--84466374 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
84466313 CTCGCTGCAA
*
84466323 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
84466350 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
84466375 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:84466631 original size:6 final size:6
Alignment explanation
Indices: 84466594--84466715 Score: 61
Period size: 6 Copynumber: 19.8 Consensus size: 6
84466584 TTGCATTCAC
* * * *
84466594 ATTCTA ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
84466643 -TCACCTA ATTCTG ATTCTG ATTTTG ATTCTA ATTCTG CCA-CCTG ATTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG --ATTCTG ATTCTG
* * *
84466693 ATTTTG ATTCTC ATTTTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCT
84466716 AGTTTTGATA
Statistics
Matches: 84, Mismatches: 23, Indels: 18
0.67 0.18 0.14
Matches are distributed among these distances:
5 4 0.05
6 69 0.82
7 8 0.10
8 3 0.04
ACGTcount: A:0.20, C:0.19, G:0.11, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:84466672 original size:31 final size:31
Alignment explanation
Indices: 84466594--84466672 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
84466584 TTGCATTCAC
* * *
84466594 ATTCTAATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTCACCTAATACTG
* * *
84466625 ATTCTGATTCTAATTCTGTCACCTAATTCTG
1 ATTCTGATTTTGATTCTGTCACCTAATACTG
84466656 ATTCTGATTTTGATTCT
1 ATTCTGATTTTGATTCT
84466673 AATTCTGCCA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.22, C:0.18, G:0.11, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTCACCTAATACTG
Found at i:84466702 original size:12 final size:11
Alignment explanation
Indices: 84466685--84466724 Score: 53
Period size: 12 Copynumber: 3.4 Consensus size: 11
84466675 TTCTGCCACC
84466685 TGATTCTGATTT
1 TGATTCT-ATTT
84466697 TGATTCTCATTT
1 TGATTCT-ATTT
84466709 TGATTCTAGTTT
1 TGATTCTA-TTT
84466721 TGAT
1 TGAT
84466725 AACGTTTCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 1 0.04
12 25 0.96
ACGTcount: A:0.17, C:0.10, G:0.15, T:0.57
Consensus pattern (11 bp):
TGATTCTATTT
Found at i:84466715 original size:37 final size:37
Alignment explanation
Indices: 84466616--84466703 Score: 131
Period size: 37 Copynumber: 2.4 Consensus size: 37
84466606 ATTCTGTTAC
* *
84466616 CTGATACTGATTCTGATTCTAATTCTGTCACCTAATT
1 CTGATTCTGATTCTGATTCTAATTCTGCCACCTAATT
* *
84466653 CTGATTCTGATTTTGATTCTAATTCTGCCACCTGATT
1 CTGATTCTGATTCTGATTCTAATTCTGCCACCTAATT
*
84466690 CTGATTTTGATTCT
1 CTGATTCTGATTCT
84466704 CATTTTGATT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.47
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTAATTCTGCCACCTAATT
Found at i:84471206 original size:29 final size:29
Alignment explanation
Indices: 84471171--84471226 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
84471161 TGAGACATCT
*
84471171 GAGAAAGTATCGACAAAGTTTTGACATTC
1 GAGAAAGTATCGACAAAGTTCTGACATTC
84471200 GAGAAAGTATCGACAAAGTTCTGACAT
1 GAGAAAGTATCGACAAAGTTCTGACAT
84471227 CCGTAAAGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.25
Consensus pattern (29 bp):
GAGAAAGTATCGACAAAGTTCTGACATTC
Found at i:84471457 original size:43 final size:43
Alignment explanation
Indices: 84471323--84471458 Score: 109
Period size: 43 Copynumber: 3.2 Consensus size: 43
84471313 ATCTGAGACA
* * * *
84471323 TTGGCATCGACT-TATGATTTACATGTAAGACAACGT-TTACGACG
1 TTGGCATCGA-TATTTGA-TTACATGTAAGACCATGTCTTGC-ACG
* * * * * * *
84471367 TTGACATCG-TATTTGATTTCGTGTACGACCCTGTCTGGGACAG
1 TTGGCATCGATATTTGATTACATGTAAGACCATGTCTTGCAC-G
84471410 -TGGCATCGATATTTGATTACATGTAAGACCATGTCTTGCACG
1 TTGGCATCGATATTTGATTACATGTAAGACCATGTCTTGCACG
84471452 TTGGCAT
1 TTGGCAT
84471459 TGTACAAGCT
Statistics
Matches: 69, Mismatches: 18, Indels: 11
0.70 0.18 0.11
Matches are distributed among these distances:
42 23 0.33
43 38 0.55
44 8 0.12
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (43 bp):
TTGGCATCGATATTTGATTACATGTAAGACCATGTCTTGCACG
Found at i:84476984 original size:43 final size:43
Alignment explanation
Indices: 84476796--84476976 Score: 233
Period size: 43 Copynumber: 4.2 Consensus size: 43
84476786 TGATTATGTA
* * *
84476796 TAAGACTATGCCTGGGACATTGGCATCATATTGCGATTACATG
1 TAAGACCATGTCTGGGACATTGGCATCATATTGTGATTACATG
*
84476839 TAAGACCATGTCTGGGACATTGGCATCATATTGTGATTACGTG
1 TAAGACCATGTCTGGGACATTGGCATCATATTGTGATTACATG
* * * * *
84476882 TAAGACAATGTCTGGGACATTGGCATCGTCA-TATGATTTCGTG
1 TAAGACCATGTCTGGGACATTGGCATCAT-ATTGTGATTACATG
84476925 TAAGACCATGTCTGGGACATTGGCATCGATA-TGTGA-TACCATG
1 TAAGACCATGTCTGGGACATTGGCATC-ATATTGTGATTA-CATG
84476968 TAAGACCAT
1 TAAGACCAT
84476977 ATTTGGGATA
Statistics
Matches: 122, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
42 1 0.01
43 119 0.98
44 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACATTGGCATCATATTGTGATTACATG
Found at i:84485594 original size:15 final size:16
Alignment explanation
Indices: 84485574--84485603 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
84485564 TCAAACCCAA
84485574 ATCATATA-TCATCAT
1 ATCATATATTCATCAT
84485589 ATCATATATTCATCA
1 ATCATATATTCATCA
84485604 ACCTATTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (16 bp):
ATCATATATTCATCAT
Found at i:84486435 original size:44 final size:43
Alignment explanation
Indices: 84486333--84486450 Score: 123
Period size: 44 Copynumber: 2.7 Consensus size: 43
84486323 AAAGCTCGTA
* * **
84486333 CAATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATAT
1 CAATGCCAACGTCCCAGACATGGTCTTACACATAATCAAATAT
*
84486376 CAATGCC-ACTGTCCCAGACATGGTCTTACACATAAATCATAA-GT
1 CAATGCCAAC-GTCCCAGACATGGTCTTACACAT-AATCA-AATAT
* * *
84486420 CAATGCCAACATCCCATACATGATCTTACAC
1 CAATGCCAACGTCCCAGACATGGTCTTACAC
84486451 GAAAACACAT
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
42 1 0.02
43 27 0.43
44 31 0.49
45 4 0.06
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACATGGTCTTACACATAATCAAATAT
Found at i:84499879 original size:20 final size:21
Alignment explanation
Indices: 84499854--84499892 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
84499844 TTCTGTGGAC
*
84499854 TTGGGCC-GTTATGGGCCATG
1 TTGGGCCGGCTATGGGCCATG
84499874 TTGGGCCGGCTATGGGCCA
1 TTGGGCCGGCTATGGGCCA
84499893 AATGGGCTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.10, C:0.23, G:0.41, T:0.26
Consensus pattern (21 bp):
TTGGGCCGGCTATGGGCCATG
Found at i:84501430 original size:48 final size:47
Alignment explanation
Indices: 84501364--84501696 Score: 292
Period size: 48 Copynumber: 6.9 Consensus size: 47
84501354 ATAATAGGGT
* * *
84501364 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCAGCATTTA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATC-GCATCTA
* * *
84501412 TATGAGAGCTAGTGTAAGACCATGTCTAGG-ACATGGCATCGACCTCGA
1 TATGAGAGCTAGTGTAAGACCATGT-TTGGAACATGGCATCG-CATCTA
* * * *
84501460 CATGTGGGCTAGTGTCAGACCATGTTTGGAACATGGCATCG-ATACAGATA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGCAT-C---TA
* * *
84501510 TATGAGAGCCAGTGTAAAACCATGTTTGGAACATGGCATCGACATTTA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCG-CATCTA
* * * *
84501558 TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATTGGCCTCGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCA-TCGCATCTA
* * * * *
84501606 CATGTGGGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGAACCGATA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATC-GCATC--TA
* ** * * *
84501656 TATGAGAACCGGTATAAGACCATGTCTGGGACATGGCATCG
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCG
84501697 GTATCTTACC
Statistics
Matches: 227, Mismatches: 45, Indels: 25
0.76 0.15 0.08
Matches are distributed among these distances:
46 1 0.00
47 6 0.03
48 144 0.63
49 6 0.03
50 68 0.30
52 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.26
Consensus pattern (47 bp):
TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGCATCTA
Found at i:84501633 original size:146 final size:147
Alignment explanation
Indices: 84501364--84501696 Score: 519
Period size: 146 Copynumber: 2.3 Consensus size: 147
84501354 ATAATAGGGT
*
84501364 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATC-AGCATTTATATGAGAGCTAGTGTA
1 TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGAGCATTTATATGAGAGCTAGTGTA
*
84501428 AGACCATGTCTAGGACATGGCATCGACCTCGACATGTGGGCTAGTGTCAGACCATGTTTGGAACA
66 AGACCATGTCTAGGACATGGCATCGACCTCGACATGTGGGCTAGTGTAAGACCATGTTTGGAACA
84501493 TGGCATC-GATACAGATA
131 TGGCATCGGA-ACAGATA
*
84501510 TATGAGAGCCAGTGTAAAACCATGTTTGGAACATGGCATCGA-CATTTATATGAGAGCTAGTGTA
1 TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGAGCATTTATATGAGAGCTAGTGTA
* * * *
84501574 AGACCATGTTTGGGACATGGCATTGGCCTCGACATGTGGGCTAGTGTAAGACCATGTTTGGAACA
66 AGACCATGTCTAGGACATGGCATCGACCTCGACATGTGGGCTAGTGTAAGACCATGTTTGGAACA
*
84501639 TGGCATCGGAACCGATA
131 TGGCATCGGAACAGATA
* * * * *
84501656 TATGAGAACCGGTATAAGACCATGTCTGGGACATGGCATCG
1 TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCG
84501697 GTATCTTACC
Statistics
Matches: 171, Mismatches: 14, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
146 168 0.98
147 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.26
Consensus pattern (147 bp):
TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGAGCATTTATATGAGAGCTAGTGTA
AGACCATGTCTAGGACATGGCATCGACCTCGACATGTGGGCTAGTGTAAGACCATGTTTGGAACA
TGGCATCGGAACAGATA
Found at i:84501658 original size:98 final size:97
Alignment explanation
Indices: 84501364--84501694 Score: 296
Period size: 98 Copynumber: 3.4 Consensus size: 97
84501354 ATAATAGGGT
* * ** * *
84501364 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCAGCATTTATATGAGAGCTAGTGTAA
1 TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATTAGCATCGATATGTGGGCTAGTGTAA
* * *
84501429 GACCATGTCTAGG-ACATGGCATCGACCTCGACA
66 GACCATGT-TTGGAACATGGCATCGAAC-CGATA
* * * * * *
84501462 TGTG-G-GCTAGTGTCAGACCATGTTTGGAACATGGCA-TCG-ATACAGATATATGAGAGCCAGT
1 TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATTAGCAT-C-GATATGTG-G-GCTAGT
* ***
84501523 GTAAAACCATGTTTGGAACATGGCATCG-ACATTTA
62 GTAAGACCATGTTTGGAACATGGCATCGAACCGATA
* * * * *
84501558 TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATTGGCCTCGACATGTGGGCTAGTGTAA
1 TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATTAGCATCGATATGTGGGCTAGTGTAA
84501623 GACCATGTTTGGAACATGGCATCGGAACCGATA
66 GACCATGTTTGGAACATGGCATC-GAACCGATA
* * * * *
84501656 TATGAGAACCGGTATAAGACCATGTCTGGGACATGGCAT
1 TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCAT
84501695 CGGTATCTTA
Statistics
Matches: 187, Mismatches: 35, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
94 2 0.01
95 1 0.01
96 69 0.37
97 8 0.04
98 103 0.55
99 3 0.02
100 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (97 bp):
TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATTAGCATCGATATGTGGGCTAGTGTAA
GACCATGTTTGGAACATGGCATCGAACCGATA
Found at i:84503925 original size:22 final size:21
Alignment explanation
Indices: 84503900--84503963 Score: 57
Period size: 22 Copynumber: 3.2 Consensus size: 21
84503890 CATATACAGC
84503900 CATACTTCAACATCACAATACT
1 CATAC-TCAACATCACAATACT
* *
84503922 CATA-T-ACCA-C-CAAT-CA
1 CATACTCAACATCACAATACT
84503938 CATACGTCAACATCACAATACT
1 CATAC-TCAACATCACAATACT
84503960 CATA
1 CATA
84503964 TACCACCAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 12
0.67 0.08 0.25
Matches are distributed among these distances:
16 5 0.16
17 4 0.12
18 2 0.06
19 6 0.19
20 2 0.06
21 4 0.12
22 9 0.28
ACGTcount: A:0.42, C:0.33, G:0.02, T:0.23
Consensus pattern (21 bp):
CATACTCAACATCACAATACT
Found at i:84503951 original size:38 final size:38
Alignment explanation
Indices: 84503900--84503980 Score: 153
Period size: 38 Copynumber: 2.1 Consensus size: 38
84503890 CATATACAGC
*
84503900 CATACTTCAACATCACAATACTCATATACCACCAATCA
1 CATACGTCAACATCACAATACTCATATACCACCAATCA
84503938 CATACGTCAACATCACAATACTCATATACCACCAATCA
1 CATACGTCAACATCACAATACTCATATACCACCAATCA
84503976 CATAC
1 CATAC
84503981 TTCATCTTAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.42, C:0.35, G:0.01, T:0.22
Consensus pattern (38 bp):
CATACGTCAACATCACAATACTCATATACCACCAATCA
Found at i:84505013 original size:18 final size:18
Alignment explanation
Indices: 84504958--84505013 Score: 85
Period size: 18 Copynumber: 3.1 Consensus size: 18
84504948 GGATGTTACA
84504958 CTATGTTATTATGCGAAC
1 CTATGTTATTATGCGAAC
* *
84504976 CCATGTTATTATACGAAC
1 CTATGTTATTATGCGAAC
*
84504994 CTATGTTATTGTGCGAAC
1 CTATGTTATTATGCGAAC
84505012 CT
1 CT
84505014 TAATATTAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.38
Consensus pattern (18 bp):
CTATGTTATTATGCGAAC
Found at i:84510282 original size:13 final size:13
Alignment explanation
Indices: 84510264--84510289 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
84510254 TGAGTTGGCA
84510264 TTGATATGTGATT
1 TTGATATGTGATT
84510277 TTGATATGTGATT
1 TTGATATGTGATT
84510290 ACGTGTAAGA
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:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (13 bp):
TTGATATGTGATT
Found at i:84510339 original size:43 final size:43
Alignment explanation
Indices: 84510277--84510498 Score: 315
Period size: 43 Copynumber: 5.2 Consensus size: 43
84510267 ATATGTGATT
84510277 TTGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
1 TTGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
* *
84510320 TTGATATGTGATTATGTGTAAGACCATGTCTGGGACGTTGGCA
1 TTGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
*
84510363 TTGATATGTGATTACGTGTAAGACCACGTCTGGGACATTGGCA
1 TTGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
* *
84510406 TCGATATGTGATTACGTGTAAGACC-CTGTCTGGGACAG-TGGTA
1 TTGATATGTGATTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCA
* * ** *
84510449 TCGATATGTGATTACATGTAAGACCATATCTGGGACATTGGCA
1 TTGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
84510492 TTG-TATG
1 TTGATATG
84510499 ATATATGCGA
Statistics
Matches: 161, Mismatches: 14, Indels: 9
0.88 0.08 0.05
Matches are distributed among these distances:
42 5 0.03
43 156 0.97
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (43 bp):
TTGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
Found at i:84525111 original size:16 final size:16
Alignment explanation
Indices: 84525090--84525123 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
84525080 GAATAAATTA
84525090 TTAACCCTAGCTTAGC
1 TTAACCCTAGCTTAGC
84525106 TTAACCCTAGCTTAGC
1 TTAACCCTAGCTTAGC
84525122 TT
1 TT
84525124 TCATAGATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.35
Consensus pattern (16 bp):
TTAACCCTAGCTTAGC
Found at i:84533982 original size:15 final size:16
Alignment explanation
Indices: 84533962--84533994 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
84533952 TACTTTATAG
84533962 ATTTTA-ATAATTATT
1 ATTTTACATAATTATT
*
84533977 ATTTTACATATTTATT
1 ATTTTACATAATTATT
84533993 AT
1 AT
84533995 ACATATATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTTTACATAATTATT
Found at i:84536626 original size:33 final size:33
Alignment explanation
Indices: 84536584--84536650 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
84536574 AATATAAATT
84536584 TGATTGACAAAATTAACGAATTAATTAAAAAAA
1 TGATTGACAAAATTAACGAATTAATTAAAAAAA
84536617 TGATTGACAAAATTAACGAATTAATTAAAAAAA
1 TGATTGACAAAATTAACGAATTAATTAAAAAAA
84536650 T
1 T
84536651 ATTTTTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.57, C:0.06, G:0.09, T:0.28
Consensus pattern (33 bp):
TGATTGACAAAATTAACGAATTAATTAAAAAAA
Found at i:84537222 original size:21 final size:21
Alignment explanation
Indices: 84537184--84537223 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
84537174 TCATTATTTG
*
84537184 TTATATGTCATTTTTATATGC
1 TTATATGTCATTTCTATATGC
84537205 TTATATGT-ATGTTCTATAT
1 TTATATGTCAT-TTCTATAT
84537224 ATGTTGCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.25, C:0.07, G:0.10, T:0.57
Consensus pattern (21 bp):
TTATATGTCATTTCTATATGC
Found at i:84537951 original size:20 final size:20
Alignment explanation
Indices: 84537926--84537969 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
84537916 AATTACTTGC
84537926 TTTATAAAACAGGTAAACTA
1 TTTATAAAACAGGTAAACTA
84537946 TTTATAAAACAGGTAAACTA
1 TTTATAAAACAGGTAAACTA
84537966 TTTA
1 TTTA
84537970 GTTGGTCACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.34
Consensus pattern (20 bp):
TTTATAAAACAGGTAAACTA
Found at i:84538528 original size:16 final size:17
Alignment explanation
Indices: 84538493--84538543 Score: 52
Period size: 16 Copynumber: 3.0 Consensus size: 17
84538483 AAAGGGAAAA
84538493 AAATTATTGCAATTAATT
1 AAATTATT-CAATTAATT
*
84538511 AAATTATT-AATTACTT
1 AAATTATTCAATTAATT
*
84538527 -AATTAATTAAATTAATT
1 AAATT-ATTCAATTAATT
84538544 GCTTGTTCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
15 4 0.14
16 10 0.34
17 7 0.24
18 8 0.28
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (17 bp):
AAATTATTCAATTAATT
Found at i:84540560 original size:62 final size:59
Alignment explanation
Indices: 84540445--84540561 Score: 144
Period size: 62 Copynumber: 1.9 Consensus size: 59
84540435 ATCACTTTAA
* * * * *
84540445 TATTAAATTAGTATAATACTTATAAAGATAAATATTAGATTAAATTTATTATTAAATCT
1 TATTAAATTAGTAGAATACTTATAAAGATAAACATTAAAATAAATTTAATATTAAATCT
* *
84540504 TATTAAATTAGTAGAATATTTATCTACAAGTTAAACATTAAAATAAATTTAATATTAA
1 TATTAAATTAGTAGAATACTTA--TA-AAGATAAACATTAAAATAAATTTAATATTAA
84540562 GATAATCTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 20 0.42
61 2 0.04
62 26 0.54
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.42
Consensus pattern (59 bp):
TATTAAATTAGTAGAATACTTATAAAGATAAACATTAAAATAAATTTAATATTAAATCT
Found at i:84541789 original size:11 final size:11
Alignment explanation
Indices: 84541770--84541801 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
84541760 TGATTGCATG
*
84541770 ATTTTGTGAAA
1 ATTTCGTGAAA
84541781 ATTTCGTGAAA
1 ATTTCGTGAAA
84541792 ATTTCGTGAA
1 ATTTCGTGAA
84541802 GAAATTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.41
Consensus pattern (11 bp):
ATTTCGTGAAA
Found at i:84543018 original size:46 final size:48
Alignment explanation
Indices: 84542959--84543089 Score: 164
Period size: 46 Copynumber: 2.8 Consensus size: 48
84542949 ATATTTGGGC
*
84542959 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA-ATG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACAGG
* * * *
84543006 -TCCGCACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAC-AGG
84543051 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
84543090 GCGGGTTACA
Statistics
Matches: 69, Mismatches: 8, Indels: 11
0.78 0.09 0.12
Matches are distributed among these distances:
43 6 0.09
45 4 0.06
46 28 0.41
47 28 0.41
48 2 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (48 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACAGG
Found at i:84544952 original size:48 final size:48
Alignment explanation
Indices: 84544878--84545191 Score: 230
Period size: 46 Copynumber: 6.7 Consensus size: 48
84544868 TAAGGTGCCA
84544878 ATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCTTCGAGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATC-TCGAGGCTG
* * *
84544927 ATGCCATGTCCCA-ACATGGTCTTACACTAGCTCTCA-CATAACCG-TGCAG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATC-T---CGAGGCTG
** * *
84544976 ATGCCATGTTTCAGACATGGTTTTACACT-GAC-A-CATCTCGCA-GCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAG-CTATCATCTCG-AGGCTG
* *
84545022 ATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACGTCTCGAGG-TCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTAT-CATCTCGAGGCT-G
* *
84545068 ATG-CATGTCCCAGACAT-GTCTTACACTAGC-ACTCGTCTCGATGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTA-TCATCTCGAGGCTG
* * * * * *** **
84545114 ATGCCATGTCCCAGATATGGTCTTA-ACTGGATCTCATATTTCGGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCTCGAGGCTG
84545161 ATG-CATGTCCCAGACAT-GTCTTACACTAGCT
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCT
84545192 TACACAAGTG
Statistics
Matches: 213, Mismatches: 31, Indels: 45
0.74 0.11 0.16
Matches are distributed among these distances:
44 10 0.05
45 22 0.10
46 74 0.35
47 30 0.14
48 31 0.15
49 29 0.14
50 17 0.08
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCTCGAGGCTG
Found at i:84545143 original size:93 final size:92
Alignment explanation
Indices: 84544882--84545190 Score: 278
Period size: 93 Copynumber: 3.3 Consensus size: 92
84544872 GTGCCAATGC
84544882 CATGTCCCAGACATGGTCTTACACTAGCTA-TCATCTTCGAGGCTGATGCCATGTCCCA-ACATG
1 CATGTCCCAGACATGGTCTTACACTAGC-ACTCATC-TCGA-GCTGATGCCATGTCCCAGACATG
* *
84544945 GTCTTACACTAGCTCTCACATAAC-CGTGCAGATG
63 GTCTTACACTGGCT-T-ACAT--CTCGGGC-GATG
** * * *
84544979 CCATGTTTCAGACATGGTTTTACACT-G-ACACATCTCGCAGCCGATG-CATGTCCCAGACAT-G
1 -CATGTCCCAGACATGGTCTTACACTAGCACTCATCTCG-AGCTGATGCCATGTCCCAGACATGG
*
84545040 TCTTACACTGGCTTACGTCTCGAGGTCGATG
64 TCTTACACTGGCTTACATCTCG-GG-CGATG
* *
84545071 CATGTCCCAGACAT-GTCTTACACTAGCACTCGTCTCGATGCTGATGCCATGTCCCAGATATGGT
1 CATGTCCCAGACATGGTCTTACACTAGCACTCATCTCGA-GCTGATGCCATGTCCCAGACATGGT
* * * * *
84545135 CTTA-ACTGGATCTCATATTTCGGCCAATG
65 CTTACACTGG--CTTACATCTCGGGCGATG
84545164 CATGTCCCAGACAT-GTCTTACACTAGC
1 CATGTCCCAGACATGGTCTTACACTAGC
84545191 TTACACAAGT
Statistics
Matches: 177, Mismatches: 21, Indels: 31
0.77 0.09 0.14
Matches are distributed among these distances:
90 10 0.06
91 16 0.09
92 22 0.12
93 51 0.29
94 29 0.16
95 21 0.12
96 5 0.03
97 1 0.01
98 22 0.12
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (92 bp):
CATGTCCCAGACATGGTCTTACACTAGCACTCATCTCGAGCTGATGCCATGTCCCAGACATGGTC
TTACACTGGCTTACATCTCGGGCGATG
Found at i:84545182 original size:139 final size:140
Alignment explanation
Indices: 84544874--84545195 Score: 354
Period size: 139 Copynumber: 2.3 Consensus size: 140
84544864 TGGGTAAGGT
84544874 GCCAATGCCATGTCCCAGACATGGTCTTACACTAGC-TATCATCTTCGAGGCTGATGCCATGTCC
1 GCCAATG-CATGTCCCAGACAT-GTCTTACACTAGCTTA-CATCTTCGAGGCTGATGCCATGTCC
* ** *
84544938 CAACATGGTCTTACACTAGCTCTCACATAACCGTGCAGATGCCATGTTTCAGACATGGTTTTACA
63 CAACATGGTCTTACACTAGCACTCACAT-A-CGTGCAGATGCCATGTCCCAGACATGGTCTTACA
*
84545003 CTGACACATCTCGCA
126 CTGACACATATCGCA
* * *
84545018 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTC-TCGAGG-TCGATG-CATGTCCCA
1 GCCAATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTTCGAGGCT-GATGCCATGTCCCA
* * *
84545080 GACAT-GTCTTACACTAGCACTCGTC-T-CGATGCTGATGCCATGTCCCAGATATGGTCTTA-AC
65 -ACATGGTCTTACACTAGCACTC-ACATACG-TGCAGATGCCATGTCCCAGACATGGTCTTACAC
* ** *
84545141 TGGATCTCATATTTCG
127 T-GA-CACATATCGCA
84545157 GCCAATGCATGTCCCAGACATGTCTTACACTAGCTTACA
1 GCCAATGCATGTCCCAGACATGTCTTACACTAGCTTACA
84545196 CAAGTGACCC
Statistics
Matches: 153, Mismatches: 18, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
137 5 0.03
138 27 0.18
139 42 0.27
140 27 0.18
141 15 0.10
142 15 0.10
143 16 0.10
144 6 0.04
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (140 bp):
GCCAATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTTCGAGGCTGATGCCATGTCCCAA
CATGGTCTTACACTAGCACTCACATACGTGCAGATGCCATGTCCCAGACATGGTCTTACACTGAC
ACATATCGCA
Found at i:84545553 original size:30 final size:30
Alignment explanation
Indices: 84545512--84545570 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
84545502 AAATTTACAC
* *
84545512 CTTTGGTAAAATGACCATTTTGTCCCTATA
1 CTTTGGCAAAATGACCATTTTGCCCCTATA
84545542 CTTTGGCAAAATGACCATTTTGCCCCTAT
1 CTTTGGCAAAATGACCATTTTGCCCCTAT
84545571 GCTCGAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (30 bp):
CTTTGGCAAAATGACCATTTTGCCCCTATA
Found at i:84546621 original size:18 final size:18
Alignment explanation
Indices: 84546588--84546622 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
84546578 TATCATATTA
*
84546588 AATTTAATTAATTTGATT
1 AATTTAATTAACTTGATT
*
84546606 AATTTAATTTACTTGAT
1 AATTTAATTAACTTGAT
84546623 CAAAATTAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (18 bp):
AATTTAATTAACTTGATT
Found at i:84547647 original size:31 final size:31
Alignment explanation
Indices: 84547611--84547672 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
84547601 ATTTGAATCA
* *
84547611 AATGCTTACTTTAATTCTTTTTCGAGATTAC
1 AATGCTCACTTTAATTCTTTTACGAGATTAC
*
84547642 AATGCTCACTTTAATTCTTTTACGGGATTAC
1 AATGCTCACTTTAATTCTTTTACGAGATTAC
84547673 TGACTCGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.26, C:0.18, G:0.11, T:0.45
Consensus pattern (31 bp):
AATGCTCACTTTAATTCTTTTACGAGATTAC
Found at i:84547871 original size:22 final size:22
Alignment explanation
Indices: 84547808--84547882 Score: 82
Period size: 22 Copynumber: 3.4 Consensus size: 22
84547798 GCTATGCATG
*
84547808 CAAAATATGAAAGACAGAAACA
1 CAAAATATGAAAGACAGAAATA
* * *
84547830 CAAAAGAT-ATA-ACAGTGAAATG
1 CAAAATATGAAAGACA--GAAATA
84547852 CAAAATATGAAAGACAGAAATA
1 CAAAATATGAAAGACAGAAATA
84547874 CAAAATATG
1 CAAAATATG
84547883 TCTTGTTACA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
20 3 0.07
21 2 0.05
22 32 0.76
23 2 0.05
24 3 0.07
ACGTcount: A:0.60, C:0.11, G:0.15, T:0.15
Consensus pattern (22 bp):
CAAAATATGAAAGACAGAAATA
Found at i:84556904 original size:40 final size:40
Alignment explanation
Indices: 84556860--84557010 Score: 248
Period size: 40 Copynumber: 3.8 Consensus size: 40
84556850 GGATATAGCT
* * ***
84556860 ACTCGCTCAAATGCCTTCGGGACTTAACCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGAAAATAGTA
*
84556900 ACTCGCACAATTGCCTTCGGGACTTAGCCCGAAAATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGAAAATAGTA
84556940 ACTCGCACAAATGCCTTCGGGACTTAGCCCGAAAATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGAAAATAGTA
84556980 ACTCGCACAAATGCCTTCGGGACTTAGCCCG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCG
84557011 GTTATCATCC
Statistics
Matches: 104, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 104 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGAAAATAGTA
Found at i:84567354 original size:47 final size:48
Alignment explanation
Indices: 84567287--84567510 Score: 214
Period size: 47 Copynumber: 4.8 Consensus size: 48
84567277 CCACAATATA
* * **
84567287 AGAGCCAGTGTAAGACCATGTCCGGGACATGGCATCGGCATTGAGATG
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAACATTGAGATG
* * * * *
84567335 AGAGCTAGTGTAAGA-CATGTCTGAGACAT-GCATCGACCTCGAGACG
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAACATTGAGATG
* * *
84567381 TA-AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCTACTG-GATG
1 -AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAAC-ATTGAGATG
* *
84567427 ATAG-TCAGTGTAAGACCATGTCTGGGACATGGCATTAAC-TTGAGAT-
1 AGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCAACATTGAGATG
*
84567473 ATGAGCTAGTATAAGACCATGTCTGGGACATGGCATCA
1 A-GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCA
84567511 GTACTTTACC
Statistics
Matches: 145, Mismatches: 22, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
45 1 0.01
46 61 0.42
47 62 0.43
48 21 0.14
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (48 bp):
AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAACATTGAGATG
Found at i:84567392 original size:46 final size:46
Alignment explanation
Indices: 84567242--84567509 Score: 163
Period size: 46 Copynumber: 5.7 Consensus size: 46
84567232 ATTTGTGTGT
* * * * * * **
84567242 GAGCTAGTGTAAGACATGTTTGGGACATGCCTCAGCCA-CAATATAA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATC-GACATCGAGACGA
* * * *
84567288 GAGCCAGTGTAAGACCATGTCCGGGACATGGCATCGGCATTGAGATGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACATCGAGACGA
* * *
84567336 GAGCTAGTGTAAGACATGTCTGAGACATGCATCGACCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGACATCGAGACG-A
*
84567383 -AGCCAGTGTAAGACATGTCTGGGACATGCATC-AGC-TACTG-GATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGA-CAT-C-GAGACGA
* * ** * *
84567428 TAGTCAGTGTAAGACCATGTCTGGGACATGGCATTAAC-TTGAGA-TA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACATCGAGACGA
* *
84567474 TGAGCTAGTATAAGACCATGTCTGGGACATGGCATC
1 -GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
84567510 AGTACTTTAC
Statistics
Matches: 181, Mismatches: 28, Indels: 25
0.77 0.12 0.11
Matches are distributed among these distances:
45 3 0.02
46 75 0.41
47 75 0.41
48 27 0.15
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGACATCGAGACGA
Found at i:84567503 original size:140 final size:141
Alignment explanation
Indices: 84567247--84567509 Score: 352
Period size: 140 Copynumber: 1.9 Consensus size: 141
84567237 TGTGTGAGCT
* * *
84567247 AGTGTAAGACATGTTTGGGACATGCCTCAGCCACAATATAAGAGCCAGTGTAAGACCATGTCCGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGATAAGAGCCAGTGTAAGACCATGTCCGG
** *
84567312 GACATGGCATCGGCATTGAGATGAGAGCTAGTGTAAGACATGTCTGAGACAT-GCATCGACCTCG
66 GACATGGCATCAACATTGAGATGAGAGCTAGTATAAGACATGTCTGAGACATGGCATCGACCTCG
84567376 AGACGTAAGCC
131 AGACGTAAGCC
* ** * * * *
84567387 AGTGTAAGACATGTCTGGGACATGCATCAGCTACTGGATGATAGTCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGATAAGAGCCAGTGTAAGACCATGTCCGG
* *
84567452 GACATGGCATTAAC-TTGAGAT-ATGAGCTAGTATAAGACCATGTCTGGGACATGGCATC
66 GACATGGCATCAACATTGAGATGA-GAGCTAGTATAAGA-CATGTCTGAGACATGGCATC
84567510 AGTACTTTAC
Statistics
Matches: 105, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
138 1 0.01
139 20 0.19
140 79 0.75
141 5 0.05
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (141 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGATAAGAGCCAGTGTAAGACCATGTCCGG
GACATGGCATCAACATTGAGATGAGAGCTAGTATAAGACATGTCTGAGACATGGCATCGACCTCG
AGACGTAAGCC
Found at i:84572571 original size:30 final size:30
Alignment explanation
Indices: 84572513--84572572 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
84572503 ATTTAATATG
*
84572513 AACTTTGGCAAAATCACATTTTTACCCCTA
1 AACTTTGGCAAAATCACACTTTTACCCCTA
* * * *
84572543 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATCACACTTTTACCCCTA
84572573 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATCACACTTTTACCCCTA
Found at i:84580796 original size:38 final size:37
Alignment explanation
Indices: 84580753--84580830 Score: 131
Period size: 38 Copynumber: 2.1 Consensus size: 37
84580743 GTTAGTTAAA
84580753 ACAAAACCTCTTTATTCTTAGGT-TAGATAATAAAAAAG
1 ACAAAACCTCTTTATTCTTA-GTCTAGATAAT-AAAAAG
84580791 ACAAAACCTCTTTATTCTTAGTCTAGATAATAAAAAG
1 ACAAAACCTCTTTATTCTTAGTCTAGATAATAAAAAG
84580828 ACA
1 ACA
84580831 GTCATTACTA
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
37 11 0.28
38 28 0.72
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (37 bp):
ACAAAACCTCTTTATTCTTAGTCTAGATAATAAAAAG
Found at i:84583298 original size:40 final size:40
Alignment explanation
Indices: 84583247--84583470 Score: 301
Period size: 40 Copynumber: 5.6 Consensus size: 40
84583237 AGCTACTGCT
* *
84583247 CAAATGCCTTCGGGACTTAGCTCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
84583287 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAAC-TCGCA
84583327 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * *
84583367 CAAATGCCTTCGAGACTTAGCCCAGATATAATAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * *
84583407 CAATTGCCTTCGGG-CTTAGCCC-GAAATTAGTCACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* *
84583446 CAGATGCCTTCGGGACTTAGGCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
84583471 TTATCATCCG
Statistics
Matches: 163, Mismatches: 16, Indels: 9
0.87 0.09 0.05
Matches are distributed among these distances:
38 3 0.02
39 30 0.18
40 127 0.78
41 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:84591478 original size:40 final size:40
Alignment explanation
Indices: 84591395--84591610 Score: 273
Period size: 40 Copynumber: 5.5 Consensus size: 40
84591385 CAACCAAGTA
** *
84591395 CCTTCGGGGTTTAG-CCGGATATAGCT-ACT-GCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
84591433 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
84591473 CCTTCGGGACTTAGCCCGGATATAGT-ACTCCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACT-CGCACAAATG
* *
84591513 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
84591553 CCTTCGGG-CTTAGCCCGGA-ATTAGTCACTTGCATAGATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
84591592 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
84591611 TTATCATCCG
Statistics
Matches: 158, Mismatches: 13, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
38 14 0.09
39 46 0.29
40 95 0.60
41 3 0.02
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:84595215 original size:20 final size:21
Alignment explanation
Indices: 84595182--84595220 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
84595172 GACTAAACCG
*
84595182 ACAACTTAGGAAACTTTTGGA
1 ACAACTTAGAAAACTTTTGGA
84595203 ACAA-TTAGAAAACTTTTG
1 ACAACTTAGAAAACTTTTG
84595221 CAAAATACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (21 bp):
ACAACTTAGAAAACTTTTGGA
Found at i:84606423 original size:28 final size:29
Alignment explanation
Indices: 84606390--84606488 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 29
84606380 ATAATAAGCC
* *
84606390 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTATATAATCAAACT
*
84606418 GGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTATATAATCAAACT
* ** *
84606446 CGCACACTTAGTGC-TATACAATTTGAACC
1 CGCACACTTAGTGCTTATATAA-TCAAACT
84606475 CGCACACTTAGTGC
1 CGCACACTTAGTGC
84606489 CAATCTCATG
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 2 0.03
28 41 0.67
29 18 0.30
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTATATAATCAAACT
Found at i:84614302 original size:39 final size:39
Alignment explanation
Indices: 84614259--84614379 Score: 188
Period size: 39 Copynumber: 3.1 Consensus size: 39
84614249 ATGCAAGATA
*
84614259 CTGGAAATGTATCCAGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
84614298 CTGGAAATGTATCTGGGCTAAAGTCCCGTAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
84614337 CAGGAAATGTATCCGGGCTAAAGTCCCACAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
84614376 CTGG
1 CTGG
84614380 TAATATAATT
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 73 1.00
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.25
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:84620342 original size:19 final size:19
Alignment explanation
Indices: 84620318--84620356 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
84620308 AATATGACAT
84620318 TACAAGTATATCAAAACAA
1 TACAAGTATATCAAAACAA
84620337 TACAAGTATATCAAAACAA
1 TACAAGTATATCAAAACAA
84620356 T
1 T
84620357 CATTACTAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.56, C:0.15, G:0.05, T:0.23
Consensus pattern (19 bp):
TACAAGTATATCAAAACAA
Found at i:84630307 original size:54 final size:54
Alignment explanation
Indices: 84630222--84630353 Score: 246
Period size: 54 Copynumber: 2.4 Consensus size: 54
84630212 GTCATTACAA
84630222 GGGATTTAGCCTGGACTGGTAATCCCAACATCACCTTATGAGTTCATAAAATGG
1 GGGATTTAGCCTGGACTGGTAATCCCAACATCACCTTATGAGTTCATAAAATGG
*
84630276 GGGATTTAGCCTGGACTGGTAATCCCGACATCACCTTATGAGTTCATAAAATGG
1 GGGATTTAGCCTGGACTGGTAATCCCAACATCACCTTATGAGTTCATAAAATGG
*
84630330 GGGATTTAGCTTGGACTGGTAATC
1 GGGATTTAGCCTGGACTGGTAATC
84630354 TTGCCATAAG
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 76 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (54 bp):
GGGATTTAGCCTGGACTGGTAATCCCAACATCACCTTATGAGTTCATAAAATGG
Found at i:84632704 original size:25 final size:25
Alignment explanation
Indices: 84632676--84632723 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
84632666 TTTTAACCGT
*
84632676 TTATTTTTCTTAC-AATTTAATTTTA
1 TTATTTTTATTACTAA-TTAATTTTA
84632701 TTATTTTTATTACTAATTAATTT
1 TTATTTTTATTACTAATTAATTT
84632724 ACTTTTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (25 bp):
TTATTTTTATTACTAATTAATTTTA
Found at i:84640977 original size:21 final size:21
Alignment explanation
Indices: 84640953--84641012 Score: 50
Period size: 25 Copynumber: 2.6 Consensus size: 21
84640943 TACTTTAGCC
84640953 ATTTATTTTTCTTAC-AATTTA
1 ATTTATTTTTCTTACTAA-TTA
*
84640974 ATTTTATTATTTTTATTACTAATTA
1 A---T-TTATTTTTCTTACTAATTA
84640999 ATTTACTTTTTCTT
1 ATTTA-TTTTTCTT
84641013 TCTCCTGGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 11
0.70 0.05 0.25
Matches are distributed among these distances:
21 4 0.13
22 8 0.26
24 1 0.03
25 16 0.52
26 2 0.06
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (21 bp):
ATTTATTTTTCTTACTAATTA
Found at i:84640992 original size:25 final size:25
Alignment explanation
Indices: 84640955--84641002 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
84640945 CTTTAGCCAT
*
84640955 TTATTTTTCTTAC-AATTTAATTTTA
1 TTATTTTTATTACTAA-TTAATTTTA
84640980 TTATTTTTATTACTAATTAATTT
1 TTATTTTTATTACTAATTAATTT
84641003 ACTTTTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (25 bp):
TTATTTTTATTACTAATTAATTTTA
Found at i:84651856 original size:16 final size:16
Alignment explanation
Indices: 84651837--84651867 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
84651827 CTTCTTCACT
84651837 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
84651853 TACTTACTTACTTAA
1 TACTCACTTACTTAA
84651868 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:84651873 original size:20 final size:20
Alignment explanation
Indices: 84651834--84651873 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
84651824 AAACTTCTTC
* *
84651834 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
84651854 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
84651874 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:84652178 original size:55 final size:53
Alignment explanation
Indices: 84651988--84652243 Score: 222
Period size: 55 Copynumber: 4.8 Consensus size: 53
84651978 CTCGTCTTAC
* * * * *
84651988 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* *
84652037 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
* * *
84652090 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AA
* ***
84652145 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* ** *
84652198 CCTTACCAATTACCATACCTT-AGCATGGTCTTACATGGTATCCTTG
1 -CTTACCAA-TGCCATGTCTTGA-CATGGTCTTACATGGGATCCTTG
84652244 AACCCTAATG
Statistics
Matches: 173, Mismatches: 22, Indels: 18
0.81 0.10 0.08
Matches are distributed among these distances:
49 38 0.22
50 1 0.01
52 2 0.01
53 49 0.28
54 11 0.06
55 70 0.40
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
Found at i:84652179 original size:108 final size:110
Alignment explanation
Indices: 84652035--84652235 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
84652025 ATCCTTTTGA
* *
84652035 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
* * *
84652098 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTACCATACCTTAGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
84652143 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
84652208 TACCATACCTTAGCATGGTCTTACATGG
66 TACCATACCTTAGCATGGTCTTACATGG
84652236 TATCCTTGAA
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.60
109 7 0.09
110 25 0.30
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TACCATACCTTAGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:84659367 original size:16 final size:16
Alignment explanation
Indices: 84659348--84659378 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
84659338 CTTCTTCACT
84659348 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
84659364 TACTTACTTACTTAA
1 TACTCACTTACTTAA
84659379 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:84659384 original size:20 final size:20
Alignment explanation
Indices: 84659345--84659384 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
84659335 AAACTTCTTC
* *
84659345 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
84659365 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
84659385 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:84659697 original size:53 final size:54
Alignment explanation
Indices: 84659570--84659825 Score: 233
Period size: 55 Copynumber: 4.8 Consensus size: 54
84659560 ACACGGGTAC
* * * * *
84659570 CTTACCATTGCCATGACTTGTCATGGTTTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * *
84659619 CTTACCATTGCCATGTCTTGACATGGCCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * *
84659672 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* * * *
84659727 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * *
84659780 CCTTACCAATTTCCATACCTT-AGCATGATCTTACATGGTATCCTTG
1 -CTTACCAA-TGCCATGCCTTGA-CATGGTCTTACATGGTATCCTTG
84659826 AACCCTAATG
Statistics
Matches: 169, Mismatches: 26, Indels: 18
0.79 0.12 0.08
Matches are distributed among these distances:
49 36 0.21
50 1 0.01
52 2 0.01
53 48 0.28
54 11 0.07
55 69 0.41
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:84659761 original size:108 final size:110
Alignment explanation
Indices: 84659617--84659817 Score: 282
Period size: 108 Copynumber: 1.8 Consensus size: 110
84659607 ATCCTTTTGA
* *
84659617 AACTTACCATTGCCATGTCTTGACATGGCCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGCCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
* * *
84659680 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATACCTTAGCATGATCTTACATGGGACCTTTGCCTTATAGT
* * * *
84659725 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGCCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
*
84659790 TTCCATACCTTAGCATGATCTTACATGG
66 TGCCATACCTTAGCATGATCTTACATGG
84659818 TATCCTTGAA
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.60
109 7 0.09
110 24 0.30
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGCCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATACCTTAGCATGATCTTACATGGGACCTTTGCCTTATAGT
Found at i:84664156 original size:74 final size:73
Alignment explanation
Indices: 84664035--84664198 Score: 256
Period size: 74 Copynumber: 2.2 Consensus size: 73
84664025 CACGGCCTCA
* * *
84664035 GGACACGAGCGTGTGTCTTGGCCGTGTGACTTGAATTTGTTCTTGGGTGACAAATAGAGAGTTAC
1 GGACACG-GCGTGTGTCTTGGCCATGTGACTTAAATTTGTTCTTGGGTGAAAAATAGAGAGTTAC
84664100 ACAGGTTAG
65 ACAGGTTAG
84664109 GGACACAGGCGTGTGTCTTGGCCATGTGACTTAAATTTGTTCTTGGGTGAAAAATAGAGAGTTAC
1 GGACAC-GGCGTGTGTCTTGGCCATGTGACTTAAATTTGTTCTTGGGTGAAAAATAGAGAGTTAC
*
84664174 ACGGGTTAG
65 ACAGGTTAG
*
84664183 GGACATGGGCGTGTGT
1 GGACA-CGGCGTGTGT
84664199 GACCACACGG
Statistics
Matches: 83, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
74 82 0.99
75 1 0.01
ACGTcount: A:0.23, C:0.14, G:0.34, T:0.29
Consensus pattern (73 bp):
GGACACGGCGTGTGTCTTGGCCATGTGACTTAAATTTGTTCTTGGGTGAAAAATAGAGAGTTACA
CAGGTTAG
Found at i:84673865 original size:26 final size:26
Alignment explanation
Indices: 84673790--84673885 Score: 133
Period size: 27 Copynumber: 3.7 Consensus size: 26
84673780 GAGGAAGTGC
84673790 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* *
84673816 AGAAAGGGCTTATGCCACAATTTATTG
1 A-AAAGGGCTTATGCCCCAGTTTATTG
**
84673843 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
84673869 -AAAGGGCTT-TGCCCCAG
1 AAAAGGGCTTATGCCCCAG
84673886 ATATTAAAGA
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
24 8 0.13
25 9 0.14
26 22 0.35
27 24 0.38
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:84678123 original size:49 final size:50
Alignment explanation
Indices: 84678050--84678224 Score: 235
Period size: 52 Copynumber: 3.5 Consensus size: 50
84678040 ACCAGTGACT
*
84678050 CAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAG-AGATAGCTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTGGTCA
* *
84678099 TAAGTGTCGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGC-TTGGTCA
* * * *
84678151 CAAGTGTGGTACTATGTGAAGGCCATTTTGTGAAGAAGGTAGCTTTGACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTGGTC-A
* *
84678202 CAAGGGTGGTACTATGTGTAGGC
1 CAAGTGTGGTACTATGTGAAGGC
84678225 TACTGGCTAT
Statistics
Matches: 111, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
49 32 0.29
50 4 0.04
51 36 0.32
52 39 0.35
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.29
Consensus pattern (50 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTGGTCA
Found at i:84678170 original size:52 final size:51
Alignment explanation
Indices: 84678050--84678224 Score: 239
Period size: 51 Copynumber: 3.5 Consensus size: 51
84678040 ACCAGTGACT
*
84678050 CAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAG-AGATAGC-TTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
* *
84678099 TAAGTGTCGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGCTTTGGTCA
* * *
84678151 CAAGTGTGGTACTATGTGAAGGCCATTTTGTGAAGAAGGTAGCTTT-GACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTC-A
* *
84678202 CAAGGGTGGTACTATGTGTAGGC
1 CAAGTGTGGTACTATGTGAAGGC
84678225 TACTGGCTAT
Statistics
Matches: 112, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
49 32 0.29
50 2 0.02
51 39 0.35
52 39 0.35
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.29
Consensus pattern (51 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
Found at i:84684111 original size:13 final size:13
Alignment explanation
Indices: 84684093--84684117 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
84684083 GAAGTAATTA
84684093 CACACGGGCATGT
1 CACACGGGCATGT
84684106 CACACGGGCATG
1 CACACGGGCATG
84684118 CCCCTGCCGA
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:0.24, C:0.32, G:0.32, T:0.12
Consensus pattern (13 bp):
CACACGGGCATGT
Found at i:84695725 original size:28 final size:29
Alignment explanation
Indices: 84695692--84695763 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 29
84695682 TATAGTAAGT
* *
84695692 CCGCACACTTAGTGTTATATAA-TCGAAC
1 CCGCACACTTAGTGCTATACAACTCGAAC
* *
84695720 TCGCACACTTAGTGCTATACAACTTGAAC
1 CCGCACACTTAGTGCTATACAACTCGAAC
84695749 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
84695764 CAATTTCATG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
28 19 0.50
29 19 0.50
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATACAACTCGAAC
Found at i:84703543 original size:29 final size:28
Alignment explanation
Indices: 84703480--84703577 Score: 142
Period size: 29 Copynumber: 3.4 Consensus size: 28
84703470 AGTAAGTCCA
* * * *
84703480 CACACTTAGTGTTATATAATCGAACTCG
1 CACACTTAGTGCTATACAATTGAACCCG
84703508 CACACTTAGTGCTATACAACTTGAACCCG
1 CACACTTAGTGCTATACAA-TTGAACCCG
84703537 CACACTTAGTGCTATACAATTTGAACCCG
1 CACACTTAGTGCTATACAA-TTGAACCCG
84703566 CACACTTAGTGC
1 CACACTTAGTGC
84703578 CAATTTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
28 17 0.27
29 47 0.73
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.28
Consensus pattern (28 bp):
CACACTTAGTGCTATACAATTGAACCCG
Found at i:84705225 original size:28 final size:28
Alignment explanation
Indices: 84705178--84705242 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
84705168 GAATTAACCC
*
84705178 TAGGGGTATAAAGGTCATTTTGCACACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
* * *
84705206 TAGGGGTATGATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
84705234 TAGGGGTAT
1 TAGGGGTAT
84705243 TCTAGTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.29, C:0.09, G:0.29, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCACACA
Found at i:84705505 original size:8 final size:8
Alignment explanation
Indices: 84705488--84705520 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
84705478 GCCCAAAATA
84705488 TCGGCTTT
1 TCGGCTTT
*
84705496 TCGGCATT
1 TCGGCTTT
84705504 TCGGCTTT
1 TCGGCTTT
84705512 TCGGCTTT
1 TCGGCTTT
84705520 T
1 T
84705521 GCCGATCTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.03, C:0.24, G:0.24, T:0.48
Consensus pattern (8 bp):
TCGGCTTT
Found at i:84709946 original size:47 final size:47
Alignment explanation
Indices: 84709889--84710145 Score: 331
Period size: 47 Copynumber: 5.4 Consensus size: 47
84709879 ATTGATGTAC
* *
84709889 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
84709936 AAGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTATATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
84709985 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
84710032 ACATGCATATATA--AGATAAGGCCGAATGGCCAATGTGATGAATGAGA
1 A-A-GTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
84710079 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGG
1 AAGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
84710126 AAGTGTATAAATGTGATAAG
1 AAGTATATATATGTGATAAG
84710146 TCCCGAAGGG
Statistics
Matches: 185, Mismatches: 18, Indels: 14
0.85 0.08 0.06
Matches are distributed among these distances:
45 7 0.04
46 1 0.01
47 132 0.71
49 44 0.24
50 1 0.01
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.26
Consensus pattern (47 bp):
AAGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:84712635 original size:38 final size:38
Alignment explanation
Indices: 84712571--84712644 Score: 105
Period size: 38 Copynumber: 1.9 Consensus size: 38
84712561 AATCCGAGTT
*
84712571 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
84712609 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCG
84712645 AATTAAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 31 0.97
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:84712758 original size:40 final size:40
Alignment explanation
Indices: 84712703--84713099 Score: 632
Period size: 40 Copynumber: 9.9 Consensus size: 40
84712693 CTCGAAAATG
*
84712703 ATCCGGGCTAAGTCCCAAAGAGCATTCATGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
84712743 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* *
84712783 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
84712823 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
*
84712863 ATCCGGGCTAAGTCCAGAAGAGCATTCATGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
*
84712903 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
*
84712943 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* *
84712983 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* ** ** * *
84713023 ATCCGTGCTAAACCCCGAAGAGCATTTGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* * *
84713063 ATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
84713100 CGTGTATTCG
Statistics
Matches: 331, Mismatches: 26, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 331 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
Found at i:84716550 original size:47 final size:47
Alignment explanation
Indices: 84716493--84716796 Score: 416
Period size: 47 Copynumber: 6.4 Consensus size: 47
84716483 ATTGATGTAC
* * *
84716493 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
84716540 AAGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
84716589 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
84716636 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
84716683 ACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGAGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
84716730 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGG
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
84716777 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
84716797 TCCCGAAGGG
Statistics
Matches: 237, Mismatches: 16, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
46 1 0.00
47 195 0.82
49 40 0.17
50 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:84716674 original size:22 final size:22
Alignment explanation
Indices: 84716647--84716768 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
84716637 CATGTGTATG
84716647 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
84716669 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
84716694 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
84716716 TGTGATGAATG-AGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
84716741 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
84716763 TGTGAT
1 TGTGAT
84716769 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:84719193 original size:14 final size:14
Alignment explanation
Indices: 84719171--84719200 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
84719161 GATAAATACT
*
84719171 TTATTTGTTCTTAA
1 TTATGTGTTCTTAA
84719185 TTATGTGTTCTTAA
1 TTATGTGTTCTTAA
84719199 TT
1 TT
84719201 CTTGCTTTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.10, T:0.63
Consensus pattern (14 bp):
TTATGTGTTCTTAA
Found at i:84719923 original size:16 final size:16
Alignment explanation
Indices: 84719904--84719939 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
84719894 TACTTTAGCC
*
84719904 ATTTATTTTTATTGCA
1 ATTTAATTTTATTGCA
*
84719920 ATTTAATTTTATTTCA
1 ATTTAATTTTATTGCA
84719936 ATTT
1 ATTT
84719940 TGTTTATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.64
Consensus pattern (16 bp):
ATTTAATTTTATTGCA
Found at i:84725963 original size:18 final size:18
Alignment explanation
Indices: 84725940--84725986 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
84725930 TCATCTTTTA
*
84725940 TTTATTTTTATTTTTATC
1 TTTATTTTTATTTTTAAC
* *
84725958 TTTATTTATCTTTTTAAC
1 TTTATTTTTATTTTTAAC
84725976 -TTACTTTTTAT
1 TTTA-TTTTTAT
84725987 CCTATTTCTC
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 3 0.13
18 20 0.87
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATTTTTATTTTTAAC
Found at i:84728151 original size:18 final size:17
Alignment explanation
Indices: 84728125--84728162 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
84728115 ATTGTAAAAG
*
84728125 GGACGGATTTTTTTGAGA
1 GGACCGATTTTTTT-AGA
84728143 GGACCGATTTTTTTAGA
1 GGACCGATTTTTTTAGA
84728160 GGA
1 GGA
84728163 TAAAATACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.24, C:0.08, G:0.32, T:0.37
Consensus pattern (17 bp):
GGACCGATTTTTTTAGA
Found at i:84728964 original size:14 final size:14
Alignment explanation
Indices: 84728945--84729006 Score: 60
Period size: 14 Copynumber: 4.7 Consensus size: 14
84728935 TATTTAATAA
84728945 TATATTATTTTACT
1 TATATTATTTTACT
84728959 TATATTA-TTT-CT
1 TATATTATTTTACT
* ** *
84728971 AATATT-TAATA-A
1 TATATTATTTTACT
84728983 TATATTATTTTACT
1 TATATTATTTTACT
84728997 TATATTATTT
1 TATATTATTT
84729007 GTAATATTAT
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
12 13 0.36
13 6 0.17
14 17 0.47
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (14 bp):
TATATTATTTTACT
Found at i:84728978 original size:38 final size:38
Alignment explanation
Indices: 84728934--84729014 Score: 153
Period size: 38 Copynumber: 2.1 Consensus size: 38
84728924 TATATGTGTT
84728934 ATATTTAATAATATATTATTTTACTTATATTATTTCTA
1 ATATTTAATAATATATTATTTTACTTATATTATTTCTA
*
84728972 ATATTTAATAATATATTATTTTACTTATATTATTTGTA
1 ATATTTAATAATATATTATTTTACTTATATTATTTCTA
84729010 ATATT
1 ATATT
84729015 ATATATGTTC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.58
Consensus pattern (38 bp):
ATATTTAATAATATATTATTTTACTTATATTATTTCTA
Found at i:84729235 original size:12 final size:12
Alignment explanation
Indices: 84729218--84729242 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
84729208 ATATATATTT
84729218 TTTTATTATATA
1 TTTTATTATATA
84729230 TTTTATTATATA
1 TTTTATTATATA
84729242 T
1 T
84729243 ATATCTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTATTATATA
Found at i:84734221 original size:46 final size:45
Alignment explanation
Indices: 84734154--84734328 Score: 181
Period size: 46 Copynumber: 3.8 Consensus size: 45
84734144 TGTAACCCGC
* *
84734154 CCATAAGTGAACTCGGACTCAACTCAACGAGATCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-TTAGCAT
* * * *
84734200 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--GCTTAGCAT
* *** * * *
84734246 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTTGGACATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGGC-TTAGCAT
84734293 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
84734329 ATGCCCAAAC
Statistics
Matches: 103, Mismatches: 21, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
45 1 0.01
46 68 0.66
47 32 0.31
48 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCTTAGCAT
Found at i:84734274 original size:93 final size:93
Alignment explanation
Indices: 84734162--84734333 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
84734152 GCCCATAAGT
* *
84734162 GAACTCGGACTCAACTCAACGAGATCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGATCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
84734227 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * * *
84734255 GAACTCGGACTCAACTCAACGAGTTTGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGATCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
84734320 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
84734334 CAAACATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGATCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:84744296 original size:87 final size:87
Alignment explanation
Indices: 84744184--84744680 Score: 297
Period size: 87 Copynumber: 5.7 Consensus size: 87
84744174 GAGAGCAGAC
* * * *
84744184 ACATAACAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
1 ACATAGCAGATCTGACTTTCAGATGTTTACACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
84744249 GTTTACAAGGAACAAATCGAAG
66 GTTTACAAGGAACAAATCGAAG
* ** ** * * *
84744271 ACATAGCAGATCTGATTTTTGGATGTTCTCACACCAAAACAGATTCAAGATAACAGATCTGGCA-
1 ACATAGCAGATCTGACTTTCAGATGTT-T-ACACTGAAGCAGATCCAAGAT----GATTTGGCAT
*** * *
84744335 TC-TCCATTT-CGACGGAGAGC--A--G-AC
60 TCTTGTGTTTAC-AAGGA-A-CAAATCGAAG
* * * * *
84744359 ACATAACAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTCGGCATTCTTGT
1 ACATAGCAGATCTGACTTTCAGATGTTTACACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
84744424 GTTTACAAGGAACAAATCGAAG
66 GTTTACAAGGAACAAATCGAAG
* * ** *
84744446 ACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAGCAGATCCAAGATAACAGATCTGGCA-
1 ACATAGCAGATCTGACTTTCAGATGTT-T-ACACTGAAGCAGATCCAAGAT----GATTTGGCAT
*** * * * * *
84744510 TC-TCCATTT-CGACGG-A-GAGTAG-AT
60 TCTTGTGTTTAC-AAGGAACAAATCGAAG
* * * *
84744534 ACATAGCAGATCTAACCTTCAGATGATTT-TACTGAAGCAGATCCAAGATGATTTGGCATCCTTG
1 ACATAGCAGATCTGACTTTCAGATG-TTTACACTGAAGCAGATCCAAGATGATTTGGCATTCTTG
* * *
84744598 TGTTCACAAGGAGCAAATCAAAG
65 TGTTTACAAGGAACAAATCGAAG
* * * * *
84744621 ACACAGCAGATTTGGCTTTCACG-TGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATT
1 ACATAGCAGATCTGACTTTCA-GATGTTTACACTGAAGCAGATCCAAGATGATTTGGCATT
84744681 TCTATATTTG
Statistics
Matches: 295, Mismatches: 82, Indels: 66
0.67 0.19 0.15
Matches are distributed among these distances:
82 16 0.05
83 4 0.01
84 15 0.05
85 2 0.01
86 39 0.13
87 91 0.31
88 48 0.16
89 40 0.14
90 3 0.01
91 16 0.05
92 5 0.02
93 16 0.05
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (87 bp):
ACATAGCAGATCTGACTTTCAGATGTTTACACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
GTTTACAAGGAACAAATCGAAG
Found at i:84744306 original size:175 final size:175
Alignment explanation
Indices: 84744086--84744631 Score: 923
Period size: 175 Copynumber: 3.1 Consensus size: 175
84744076 CGACGAGGTG
*
84744086 CAAATCAAAGACATAGCAGATCTGACTTTTGGATGTTTTCACACCAAAGCAGATCCAAGATAACA
1 CAAATCAAAGACATAGCAGATCTGACTTTTGGATGTTCTCACACCAAAGCAGATCCAAGATAACA
*
84744151 GATCTGACATCTCCATTTCGACGGAGAGCAGACACATAACAGATCTAACCTTCAGATGTTTATAC
66 GATCTGGCATCTCCATTTCGACGGAGAGCAGACACATAACAGATCTAACCTTCAGATGTTTATAC
84744216 TGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAA
131 TGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAA
* * * *
84744261 CAAATCGAAGACATAGCAGATCTGATTTTTGGATGTTCTCACACCAAAACAGATTCAAGATAACA
1 CAAATCAAAGACATAGCAGATCTGACTTTTGGATGTTCTCACACCAAAGCAGATCCAAGATAACA
84744326 GATCTGGCATCTCCATTTCGACGGAGAGCAGACACATAACAGATCTAACCTTCAGATGTTTATAC
66 GATCTGGCATCTCCATTTCGACGGAGAGCAGACACATAACAGATCTAACCTTCAGATGTTTATAC
*
84744391 TGAAGCAGATCCAAGATGATTCGGCATTCTTGTGTTTACAAGGAA
131 TGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAA
* * *
84744436 CAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAGCAGATCCAAGATAACA
1 CAAATCAAAGACATAGCAGATCTGACTTTTGGATGTTCTCACACCAAAGCAGATCCAAGATAACA
* * *
84744501 GATCTGGCATCTCCATTTCGACGGAGAGTAGATACATAGCAGATCTAACCTTCAGATGATTT-TA
66 GATCTGGCATCTCCATTTCGACGGAGAGCAGACACATAACAGATCTAACCTTCAGATG-TTTATA
* * *
84744565 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAGGAG
130 CTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAA
*
84744611 CAAATCAAAGACACAGCAGAT
1 CAAATCAAAGACATAGCAGAT
84744632 TTGGCTTTCA
Statistics
Matches: 349, Mismatches: 21, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
175 346 0.99
176 3 0.01
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (175 bp):
CAAATCAAAGACATAGCAGATCTGACTTTTGGATGTTCTCACACCAAAGCAGATCCAAGATAACA
GATCTGGCATCTCCATTTCGACGGAGAGCAGACACATAACAGATCTAACCTTCAGATGTTTATAC
TGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAA
Found at i:84746486 original size:12 final size:12
Alignment explanation
Indices: 84746469--84746499 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
84746459 ATCTTTCTTA
84746469 TATATATTTTAT
1 TATATATTTTAT
84746481 TATATATTTTAT
1 TATATATTTTAT
84746493 TATATAT
1 TATATAT
84746500 ATATTTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TATATATTTTAT
Found at i:84746516 original size:16 final size:16
Alignment explanation
Indices: 84746466--84746520 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
84746456 TTTATCTTTC
*
84746466 TTATATATATT-TTA-
1 TTATATATTTTATTAT
84746480 TTATATATTTTATTAT
1 TTATATATTTTATTAT
*
84746496 ATATATATTTTA-TAT
1 TTATATATTTTATTAT
84746511 GTTATATATT
1 -TTATATATT
84746521 ACATATTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
14 10 0.29
15 6 0.17
16 19 0.54
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (16 bp):
TTATATATTTTATTAT
Found at i:84750065 original size:40 final size:40
Alignment explanation
Indices: 84749973--84750128 Score: 163
Period size: 40 Copynumber: 3.9 Consensus size: 40
84749963 CTTTTGGATA
* * *
84749973 AAAAACGCCGCTATAAATTGAGCATTAGCAGCGCTTTTTG
1 AAAAATGCCGCTATAGATCGAGCATTAGCAGCGCTTTTTG
* * * *
84750013 AAAAAAGTCGCTATAGATCGAGCATTAGTAGCCCTTTTTG
1 AAAAATGCCGCTATAGATCGAGCATTAGCAGCGCTTTTTG
* * * *
84750053 AAACATGCCGCTATAGATC-AACTATTAGCGGTGC-TTTTG
1 AAAAATGCCGCTATAGATCGAGC-ATTAGCAGCGCTTTTTG
* * *
84750092 AAAAATGCCGCTATAGGTCGACCATTAGCGGCGCTTT
1 AAAAATGCCGCTATAGATCGAGCATTAGCAGCGCTTT
84750129 CTACAAAACG
Statistics
Matches: 95, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 34 0.36
40 61 0.64
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (40 bp):
AAAAATGCCGCTATAGATCGAGCATTAGCAGCGCTTTTTG
Found at i:84750251 original size:101 final size:101
Alignment explanation
Indices: 84750076--84750330 Score: 363
Period size: 101 Copynumber: 2.5 Consensus size: 101
84750066 TAGATCAACT
* *
84750076 ATTAGCGGTGCTTTTGAAAAATGCCGCTATAGGTCGACCATTAGCGGCGCTTTCTACAAAACGCT
1 ATTAGCGGTGCTTTTGAAAAACG-CGCTATAGGTCGACCATTAGCGGCGCTTTCTACAAAACGCC
*
84750141 GCAAAAAAATTAAGCATAATGTTGAGC-TTTAGTGGC
65 GCAAAAAAATTAAGCACAATGTTGAGCTTTTAGTGGC
*
84750177 ATTAGCGGTGCTTTTTGAAAAACGTCGCTATAGGTCGACCA-TAGCGGCGCTTTCTTA-AAAATG
1 ATTAGCGGTGC-TTTTGAAAAACG-CGCTATAGGTCGACCATTAGCGGCGCTTTC-TACAAAACG
84750240 CCGCAAAAAAATTAAGCACAATGTTGAGCTTTTAGTGGC
63 CCGCAAAAAAATTAAGCACAATGTTGAGCTTTTAGTGGC
* ** * * *
84750279 ATTAGTGACGCTTTTGAAAAACGCGCTATAGATCGAGCATTAGCGACGCTTT
1 ATTAGCGGTGCTTTTGAAAAACGCGCTATAGGTCGACCATTAGCGGCGCTTT
84750331 TTGTAAATTG
Statistics
Matches: 139, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
100 14 0.10
101 79 0.57
102 46 0.33
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (101 bp):
ATTAGCGGTGCTTTTGAAAAACGCGCTATAGGTCGACCATTAGCGGCGCTTTCTACAAAACGCCG
CAAAAAAATTAAGCACAATGTTGAGCTTTTAGTGGC
Found at i:84750349 original size:140 final size:139
Alignment explanation
Indices: 84750175--84750435 Score: 337
Period size: 140 Copynumber: 1.8 Consensus size: 139
84750165 AGCTTTAGTG
** * * * *
84750175 GCATTAGCGGTGCTTTTTGAAAAACGTCGCTATAGGTCGACCA-TAGCGGCGCTTTCTTAAAAAT
1 GCATTAGCGACGCTTTTTGAAAAACGTAGCTATAGGTCAACCATTAGCGGCGC-TTCTGAAAAAC
*
84750239 GCCGCAAAAAAATTAAGCACA-ATGTTGAGCTTTTAGTGGCATTAGTGACGCTTTTGAAAAACGC
65 GCCGC-AAAAAATTAAGCACATATGTTGAGC-TTTAGTGGCATTAGCGACGCTTTTGAAAAACGC
84750303 GCTATAGATCGA
128 GCTATAGATCGA
* ** *
84750315 GCATTAGCGACGCTTTTTGTAAATTGTAGCTATAGGTCAACTATTAGCGGCGCTTCTGAAAAACG
1 GCATTAGCGACGCTTTTTGAAAAACGTAGCTATAGGTCAACCATTAGCGGCGCTTCTGAAAAACG
* *
84750380 TCGCAAAAAATTAAGCACACTTTATGTTGAGCTTTAGTGGCATTAGCGGCGCTTTT
66 CCGCAAAAAATTAAGCACA---TATGTTGAGCTTTAGTGGCATTAGCGACGCTTTT
84750436 TGAATAATTC
Statistics
Matches: 103, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
139 15 0.15
140 48 0.47
141 9 0.09
142 22 0.21
143 9 0.09
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (139 bp):
GCATTAGCGACGCTTTTTGAAAAACGTAGCTATAGGTCAACCATTAGCGGCGCTTCTGAAAAACG
CCGCAAAAAATTAAGCACATATGTTGAGCTTTAGTGGCATTAGCGACGCTTTTGAAAAACGCGCT
ATAGATCGA
Found at i:84751275 original size:35 final size:35
Alignment explanation
Indices: 84751207--84751275 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
84751197 TAATTGTGTT
*
84751207 ATTAATTTATTATTTTAGATTCTAAATTTAAATTC
1 ATTAATTTATTATTTTAGATTCTAAATTAAAATTC
* * *
84751242 ATTAATTT-TTATATTTAGTTTTTAAGTTAAAATT
1 ATTAATTTATTAT-TTTAGATTCTAAATTAAAATT
84751276 TTAATATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 4 0.14
35 25 0.86
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.57
Consensus pattern (35 bp):
ATTAATTTATTATTTTAGATTCTAAATTAAAATTC
Found at i:84751528 original size:43 final size:43
Alignment explanation
Indices: 84751408--84751573 Score: 217
Period size: 43 Copynumber: 3.9 Consensus size: 43
84751398 AATATTTTTT
* * *
84751408 TAAAGGTCATGTTCTTTAGCAGTGTTTGTGGGAAAAGTGTCGC
1 TAAAGGTCATGTTCTTTAGCAGCGTTTGTGGGAAAAGCGCCGC
* * *
84751451 TAAAGGTC-TGTTCTATAACGGCGTTTGTGGGAAAAGCGCCGC
1 TAAAGGTCATGTTCTTTAGCAGCGTTTGTGGGAAAAGCGCCGC
* * *
84751493 TAAAGGCCATGATCTTTAGCAGCGTTTGTGGGAAAAGCGCCAC
1 TAAAGGTCATGTTCTTTAGCAGCGTTTGTGGGAAAAGCGCCGC
** *
84751536 TAAAGGTCATGTTCTTTAGTGGCGCTTGTGGGAAAAGC
1 TAAAGGTCATGTTCTTTAGCAGCGTTTGTGGGAAAAGC
84751574 AAATCCCCGA
Statistics
Matches: 105, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
42 35 0.33
43 70 0.67
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.29
Consensus pattern (43 bp):
TAAAGGTCATGTTCTTTAGCAGCGTTTGTGGGAAAAGCGCCGC
Found at i:84752725 original size:40 final size:39
Alignment explanation
Indices: 84752662--84752809 Score: 161
Period size: 40 Copynumber: 3.7 Consensus size: 39
84752652 CGTTTGGATA
* ** * * *
84752662 AAAAACGCCGCTATAAATTGAGCATTAGCGGCACATTTTG
1 AAAAACGCCACTATAGGTCGAGCATTAGCAGCGC-TTTTG
* * *
84752702 AAAAAGGCCATTATAGATCGAGCATTAGCAGCGCTTTTTG
1 AAAAACGCCACTATAGGTCGAGCATTAGCAGCGC-TTTTG
* *
84752742 AAAAACACCGCTATAGGTCGAGCATTAGCAGCGCTTCTTG
1 AAAAACGCCACTATAGGTCGAGCATTAGCAGCGCTT-TTG
*
84752782 AAAAACGCCACTATAGGTCGACCATTAG
1 AAAAACGCCACTATAGGTCGAGCATTAG
84752810 AAAGCGCCGC
Statistics
Matches: 91, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 2 0.02
40 89 0.98
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.24
Consensus pattern (39 bp):
AAAAACGCCACTATAGGTCGAGCATTAGCAGCGCTTTTG
Found at i:84752797 original size:80 final size:80
Alignment explanation
Indices: 84752662--84752809 Score: 190
Period size: 80 Copynumber: 1.9 Consensus size: 80
84752652 CGTTTGGATA
* * * * * *
84752662 AAAAACGCCGCTATAAATTGAGCATTAGCGGCACATTTTGAAAAAGGCCATTATAGATCGAGCAT
1 AAAAACACCGCTATAAATCGAGCATTAGCAGCACATTTTGAAAAACGCCACTATAGATCGACCAT
84752727 TAGCAGCGCTTTTTG
66 TAGCAGCGCTTTTTG
** * *
84752742 AAAAACACCGCTATAGGTCGAGCATTAGCAGCGC-TTCTTGAAAAACGCCACTATAGGTCGACCA
1 AAAAACACCGCTATAAATCGAGCATTAGCAGCACATT-TTGAAAAACGCCACTATAGATCGACCA
84752806 TTAG
65 TTAG
84752810 AAAGCGCCGC
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
79 2 0.04
80 55 0.96
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.24
Consensus pattern (80 bp):
AAAAACACCGCTATAAATCGAGCATTAGCAGCACATTTTGAAAAACGCCACTATAGATCGACCAT
TAGCAGCGCTTTTTG
Found at i:84753078 original size:141 final size:141
Alignment explanation
Indices: 84752816--84753200 Score: 481
Period size: 141 Copynumber: 2.7 Consensus size: 141
84752806 TTAGAAAGCG
** * * *
84752816 CCGCAAAAAATTAAGCATTATGTTGAG-TTTTAGTGGCATTAGCAGCACTTTTTGAAAAACACCG
1 CCGCAAAAAATTAAGCACAATGTTGAGCTTTTAGTGGCATTAGCGGCGCTTTTTGAAAAAC-GCG
** * * * ***
84752880 CTATAGATCAAGCACTAGCAGTGCTTCTTGAAAAATGTCGCTATAGGACGAACATTAGCGGCGCT
65 CTATAGATTGAGCGCTAGCGGTGCTTTTTGAAAAACACCGCTATAGGACGAACATTAGCGGCGCT
*
84752945 TTCTAAAAACCT
130 TTCTAAAAACCA
84752957 CCGCAAAAAAATTAAGCACAATGTTGAGCTTTTAGTGGCATTAGCGGCGC-TTTTGAAAAACGCG
1 CCGC-AAAAAATTAAGCACAATGTTGAGCTTTTAGTGGCATTAGCGGCGCTTTTTGAAAAACGCG
* *
84753021 CTATAGATTGAGCGTTAGCGGTGCTTTTTGAAAAACACCGCTATAGGTCG-ACTATTAGCGGCGC
65 CTATAGATTGAGCGCTAGCGGTGCTTTTTGAAAAACACCGCTATAGGACGAAC-ATTAGCGGCGC
84753085 TTTCTAAAAACCA
129 TTTCTAAAAACCA
*
84753098 CCGCAAAAAATTAAGCACACTTTATGTTGAGC-GTTAGTGGCATTAGCGGCGCTTTTTGAAAAAC
1 CCGCAAAAAATTAAGCACA----ATGTTGAGCTTTTAGTGGCATTAGCGGCGCTTTTTGAAAAAC
* * * *
84753162 GCCACTATAGGTTGACCGCTAGCGGCGCTTTTTGAAAAA
62 G-CGCTATAGATTGAGCGCTAGCGGTGCTTTTTGAAAAA
84753201 TGCCGCAAAA
Statistics
Matches: 213, Mismatches: 22, Indels: 14
0.86 0.09 0.06
Matches are distributed among these distances:
140 17 0.08
141 73 0.34
142 32 0.15
143 38 0.18
144 21 0.10
145 32 0.15
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (141 bp):
CCGCAAAAAATTAAGCACAATGTTGAGCTTTTAGTGGCATTAGCGGCGCTTTTTGAAAAACGCGC
TATAGATTGAGCGCTAGCGGTGCTTTTTGAAAAACACCGCTATAGGACGAACATTAGCGGCGCTT
TCTAAAAACCA
Found at i:84753079 original size:40 final size:40
Alignment explanation
Indices: 84752994--84753101 Score: 116
Period size: 40 Copynumber: 2.8 Consensus size: 40
84752984 GCTTTTAGTG
* *
84752994 GCATTAGCGGCGC-TTTTGAAAAAC-GCGCTATAGATTGA
1 GCATTAGCGGCGCTTTTTGAAAAACACCGCTATAGATCGA
* * *
84753032 GCGTTAGCGGTGCTTTTTGAAAAACACCGCTATAGGTCGA
1 GCATTAGCGGCGCTTTTTGAAAAACACCGCTATAGATCGA
*
84753072 -CTATTAGCGGCGCTTTCT-AAAAACCACCGC
1 GC-ATTAGCGGCGCTTTTTGAAAAA-CACCGC
84753102 AAAAAATTAA
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
38 11 0.19
39 17 0.29
40 30 0.52
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTGAAAAACACCGCTATAGATCGA
Found at i:84754039 original size:35 final size:35
Alignment explanation
Indices: 84753971--84754039 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
84753961 TAATTGTGTT
*
84753971 ATTAATTTATTATTTTAGATTGTAAATTTAAATTC
1 ATTAATTTATTATTTTAGATTGTAAATTAAAATTC
* * *
84754006 ATTAATTT-TTATATTTAGTTTTTAAGTTAAAATT
1 ATTAATTTATTAT-TTTAGATTGTAAATTAAAATT
84754040 TTAATATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 4 0.14
35 25 0.86
ACGTcount: A:0.36, C:0.01, G:0.06, T:0.57
Consensus pattern (35 bp):
ATTAATTTATTATTTTAGATTGTAAATTAAAATTC
Found at i:84754335 original size:44 final size:42
Alignment explanation
Indices: 84754172--84754332 Score: 189
Period size: 43 Copynumber: 3.7 Consensus size: 42
84754162 AATATTTTTT
*
84754172 TAAAGGTCATGTTCTTTAGCGGCATTTGTGGGAAAAGCGCCGC
1 TAAAGGT-ATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* * * * *
84754215 TAAAAGTCTATTCTATAGCGGCGTTAGTGGGAAAAAGC-CTCGC
1 TAAAGGTATGTTCTTTAGCGGCGTTTGTGGG-AAAAGCGC-CGC
* * *
84754258 TAAAGGCCATGATCTTTAGCGGCGTTTGTGGGAAAAGCGCAGC
1 TAAAGG-TATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
84754301 TAAAGGATATGTTCTTTAGCGGCGTTTGTGGG
1 TAAAGG-TATGTTCTTTAGCGGCGTTTGTGGG
84754333 GAATGCGGCG
Statistics
Matches: 97, Mismatches: 17, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
42 20 0.21
43 57 0.59
44 20 0.21
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (42 bp):
TAAAGGTATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
Done.