Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 88 of 210
Found at i:25781427 original size:27 final size:26
Alignment explanation
Indices: 25781388--25781558 Score: 90
Period size: 27 Copynumber: 6.4 Consensus size: 26
25781378 AAAATAGTCA
* * *
25781388 TTTACTCTCTAGGGGAATTACGTTCAT
1 TTTACCCTATAGGGGTATTACGTT-AT
* * *
25781415 TTTACCTTATAGGGGTATTTCGATCAT
1 TTTACCCTATAGGGGTATTACG-TTAT
* *
25781442 TTAACCCTATGGGGGTATTACGGTTAT
1 TTTACCCTATAGGGGTATTAC-GTTAT
* * * *
25781469 TGTACCCTACACGGGCATTACGATTAT
1 TTTACCCTATAGGGGTATTACG-TTAT
* ** * * *
25781496 TTTACCTTATTTGAGTTTTTCGATTAT
1 TTTACCCTATAGGGGTATTACG-TTAT
* * * * *
25781523 TTTACCCTACAGGAGCATTACGTCAA
1 TTTACCCTATAGGGGTATTACGTTAT
25781549 TTTACCCTAT
1 TTTACCCTAT
25781559 GAGGTTATTT
Statistics
Matches: 105, Mismatches: 36, Indels: 7
0.71 0.24 0.05
Matches are distributed among these distances:
26 12 0.11
27 91 0.87
28 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.40
Consensus pattern (26 bp):
TTTACCCTATAGGGGTATTACGTTAT
Found at i:25781574 original size:27 final size:26
Alignment explanation
Indices: 25781544--25781686 Score: 114
Period size: 27 Copynumber: 5.3 Consensus size: 26
25781534 GGAGCATTAC
* *
25781544 GTCAATTTACCCTATGAGGTTATTTCT
1 GTCAATTTACCC-ATGAGGCTATTTCG
*
25781571 GTCATTTTACCCATTGAGGCTATTTCG
1 GTCAATTTACCCA-TGAGGCTATTTCG
*
25781598 GT-AATTTTACCCATCGAGGGTATTTCG
1 GTCAA-TTTACCCAT-GAGGCTATTTCG
*
25781625 GTCATTTTACCCATCGAAGG-TATTTCG
1 GTCAATTTACCCAT-G-AGGCTATTTCG
* *
25781652 AT-AATTTTACCCATTGAGGGTATTTCG
1 GTCAA-TTTACCCA-TGAGGCTATTTCG
*
25781679 ATC-ATTTA
1 GTCAATTTA
25781687 ACAACCTTTT
Statistics
Matches: 99, Mismatches: 8, Indels: 19
0.79 0.06 0.15
Matches are distributed among these distances:
26 11 0.11
27 83 0.84
28 5 0.05
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.41
Consensus pattern (26 bp):
GTCAATTTACCCATGAGGCTATTTCG
Found at i:25781629 original size:54 final size:53
Alignment explanation
Indices: 25781549--25781685 Score: 186
Period size: 54 Copynumber: 2.5 Consensus size: 53
25781539 ATTACGTCAA
* * * *
25781549 TTTACCCTATGAGGTTATTTCTGTCATTTTACCCATTG-AGGCTATTTCGGTAAT
1 TTTACCC-ATGAGGGTATTTCGGTCATTTTACCCATCGAAGG-TATTTCGATAAT
25781603 TTTACCCATCGAGGGTATTTCGGTCATTTTACCCATCGAAGGTATTTCGATAAT
1 TTTACCCAT-GAGGGTATTTCGGTCATTTTACCCATCGAAGGTATTTCGATAAT
*
25781657 TTTACCCATTGAGGGTATTTCGATCATTT
1 TTTACCCA-TGAGGGTATTTCGGTCATTT
25781686 AACAACCTTT
Statistics
Matches: 75, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
53 2 0.03
54 69 0.92
55 4 0.05
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.42
Consensus pattern (53 bp):
TTTACCCATGAGGGTATTTCGGTCATTTTACCCATCGAAGGTATTTCGATAAT
Found at i:25783134 original size:22 final size:22
Alignment explanation
Indices: 25783082--25783155 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
25783072 CAGCAAAGCT
* *
25783082 GCCAGTAACCAGAACAGCTA-AGA
1 GCCA-TAAACAGAATAGCTATA-A
* * *
25783105 GCCGTAAACAGGATAGTTATAA
1 GCCATAAACAGAATAGCTATAA
* *
25783127 GCTATAAACAGAATGGCTATAA
1 GCCATAAACAGAATAGCTATAA
25783149 GCCATAA
1 GCCATAA
25783156 GTACAGTAAT
Statistics
Matches: 39, Mismatches: 11, Indels: 3
0.74 0.21 0.06
Matches are distributed among these distances:
22 35 0.90
23 4 0.10
ACGTcount: A:0.43, C:0.19, G:0.20, T:0.18
Consensus pattern (22 bp):
GCCATAAACAGAATAGCTATAA
Found at i:25783202 original size:32 final size:32
Alignment explanation
Indices: 25783147--25783285 Score: 181
Period size: 32 Copynumber: 4.4 Consensus size: 32
25783137 GAATGGCTAT
* *
25783147 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* *
25783178 AAGCCATCAGTAGCAGTGATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
25783210 TAGCCATCAGTAACAGTAATATGACCGGTACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* *
25783242 AAGCCATCAGTAACGGTCATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
*
25783274 AAGCCATTAGTA
1 AAGCCATCAGTA
25783286 GCATCGTAGC
Statistics
Matches: 92, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
31 10 0.11
32 82 0.89
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGATCGGCACA
Found at i:25783336 original size:27 final size:27
Alignment explanation
Indices: 25783306--25783362 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
25783296 GAAGCTGCCC
25783306 GTAATAGT-ATATGTGGCCA-AGCCACCA
1 GTAATAGTGAT-TGTGG-CAGAGCCACCA
*
25783333 GTAATAGTGATTGTGGCAGAGCCACTA
1 GTAATAGTGATTGTGGCAGAGCCACCA
25783360 GTA
1 GTA
25783363 CAGTACTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 2 0.07
27 23 0.85
28 2 0.07
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.25
Consensus pattern (27 bp):
GTAATAGTGATTGTGGCAGAGCCACCA
Found at i:25783462 original size:24 final size:24
Alignment explanation
Indices: 25783430--25783503 Score: 112
Period size: 24 Copynumber: 3.1 Consensus size: 24
25783420 CCATGCTTAG
25783430 AATCAGTCATACAAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
*
25783454 AATCAGTCATACCAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
* **
25783478 AGTCAGTCATTTAAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
25783502 AA
1 AA
25783504 ATAATCATTT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.47, C:0.24, G:0.09, T:0.19
Consensus pattern (24 bp):
AATCAGTCATACAAATCACAGACA
Found at i:25783511 original size:24 final size:24
Alignment explanation
Indices: 25783442--25783514 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
25783432 TCAGTCATAC
* **
25783442 AAATCACAGACAAATCAGTCATAC
1 AAATCACAGACAAATCAATCATTT
* * *
25783466 CAATCACAGACAAGTCAGTCATTT
1 AAATCACAGACAAATCAATCATTT
25783490 AAATCACAGACAAAAT-AATCATTT
1 AAATCACAGAC-AAATCAATCATTT
25783514 A
1 A
25783515 CACTCGAGGG
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
24 38 0.93
25 3 0.07
ACGTcount: A:0.48, C:0.22, G:0.08, T:0.22
Consensus pattern (24 bp):
AAATCACAGACAAATCAATCATTT
Found at i:25783552 original size:26 final size:26
Alignment explanation
Indices: 25783500--25783553 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
25783490 AAATCACAGA
* *
25783500 CAAAATAATCATTTACACTCGAGGGG
1 CAAAATAATCATTTACACTCCAAGGG
*
25783526 CAAAATAGTCATTTAC-CGTCCAAGGG
1 CAAAATAATCATTTACAC-TCCAAGGG
25783552 CA
1 CA
25783554 TTACAGTCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (26 bp):
CAAAATAATCATTTACACTCCAAGGG
Found at i:25783637 original size:27 final size:27
Alignment explanation
Indices: 25783607--25783786 Score: 123
Period size: 27 Copynumber: 6.7 Consensus size: 27
25783597 CTCTAAGGCT
*
25783607 ATTACGGTCATTATACCCTATAGGGGC
1 ATTACGGTCATTTTACCCTATAGGGGC
** *
25783634 ATTATAGTCATTTTACCTTATAGGGG-
1 ATTACGGTCATTTTACCCTATAGGGGC
* * * * * *
25783660 TTTGTCAGTCATTTTACCCTACAGGCGT
1 ATT-ACGGTCATTTTACCCTATAGGGGC
* *
25783688 ATTACGGTCATTTTACCTTATAGGGCC
1 ATTACGGTCATTTTACCCTATAGGGGC
* * **
25783715 ATTATGATCATTTTACCCTAT-GAGGAT
1 ATTACGGTCATTTTACCCTATAG-GGGC
* * * *
25783742 ATTTCGGTCGTTTTA-CCTATCAAGGGT
1 ATTACGGTCATTTTACCCTAT-AGGGGC
*
25783769 ATTTCGGTCATTTTACCC
1 ATTACGGTCATTTTACCC
25783787 ACCGAGGGTA
Statistics
Matches: 117, Mismatches: 30, Indels: 11
0.74 0.19 0.07
Matches are distributed among these distances:
26 8 0.07
27 105 0.90
28 4 0.03
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTATAGGGGC
Found at i:25783750 original size:54 final size:54
Alignment explanation
Indices: 25783640--25783786 Score: 140
Period size: 54 Copynumber: 2.7 Consensus size: 54
25783630 GGGCATTATA
** * *
25783640 GTCATTTTACCTTATAGGGGTTTGTCAGTCATTTTACCCTACAGGCGTATTACG
1 GTCATTTTACCTTATAGGGCATTATCAGTCATTTTACCCTACAGGCATATTACG
* * *
25783694 GTCATTTTACCTTATAGGGCCATTATGA-TCATTTTACCCTATGAGG-ATATTTCG
1 GTCATTTTACCTTATAGGG-CATTATCAGTCATTTTACCCTA-CAGGCATATTACG
* * *
25783748 GTCGTTTTACC-TATCAAGGGTATT-TCGGTCATTTTACCC
1 GTCATTTTACCTTAT--AGGGCATTATCAGTCATTTTACCC
25783787 ACCGAGGGTA
Statistics
Matches: 77, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
53 4 0.05
54 62 0.81
55 11 0.14
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.40
Consensus pattern (54 bp):
GTCATTTTACCTTATAGGGCATTATCAGTCATTTTACCCTACAGGCATATTACG
Found at i:25783756 original size:81 final size:82
Alignment explanation
Indices: 25783601--25783786 Score: 215
Period size: 81 Copynumber: 2.3 Consensus size: 82
25783591 TTAACCCTCT
* * * *
25783601 AAGGC-TATTACGGTCATTATACCCTATAGGGGCATTATAGTCATTTTACCTTATAGGGGTTTGT
1 AAGGCGTATTACGGTCATTTTACCCTATAGGGCCATTATAGTCATTTTACCCTATAGGGATTTGT
25783665 CAGTCATTTTACCCTA-C
66 CAGTCATTTTA-CCTATC
*
25783682 -AGGCGTATTACGGTCATTTTACCTTATAGGGCCATTAT-GATCATTTTACCCTAT-GAGGATAT
1 AAGGCGTATTACGGTCATTTTACCCTATAGGGCCATTATAG-TCATTTTACCCTATAG-GGAT-T
* *
25783744 T-TCGGTCGTTTTACCTATC
63 TGTCAGTCATTTTACCTATC
*
25783763 AAGG-GTATTTCGGTCATTTTACCC
1 AAGGCGTATTACGGTCATTTTACCC
25783787 ACCGAGGGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
80 10 0.11
81 75 0.83
82 5 0.06
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (82 bp):
AAGGCGTATTACGGTCATTTTACCCTATAGGGCCATTATAGTCATTTTACCCTATAGGGATTTGT
CAGTCATTTTACCTATC
Found at i:25783794 original size:27 final size:27
Alignment explanation
Indices: 25783722--25783916 Score: 221
Period size: 27 Copynumber: 7.2 Consensus size: 27
25783712 GCCATTATGA
*
25783722 TCATTTTACCCTAT-GAGGATATTTCGG
1 TCATTTTACCC-ATCGAGGGTATTTCGG
* * *
25783749 TCGTTTTACCTATCAAGGGTATTTCGG
1 TCATTTTACCCATCGAGGGTATTTCGG
* *
25783776 TCATTTTACCCACCGAGGGTATTTCGA
1 TCATTTTACCCATCGAGGGTATTTCGG
* * *
25783803 TCATTTTATCCATCAAGGGTATTTCGA
1 TCATTTTACCCATCGAGGGTATTTCGG
* * * **
25783830 TAATTTTACCCATCGAGAGCATTTTTG
1 TCATTTTACCCATCGAGGGTATTTCGG
*
25783857 TCATTTTACCCATCGAGGGTATTTCAG
1 TCATTTTACCCATCGAGGGTATTTCGG
* *
25783884 TAATTTTACCCATCGAGGGTATTTCAG
1 TCATTTTACCCATCGAGGGTATTTCGG
25783911 TCATTT
1 TCATTT
25783917 AACAACCTTG
Statistics
Matches: 140, Mismatches: 27, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 2 0.01
27 138 0.99
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.39
Consensus pattern (27 bp):
TCATTTTACCCATCGAGGGTATTTCGG
Found at i:25785413 original size:32 final size:32
Alignment explanation
Indices: 25785352--25785490 Score: 154
Period size: 32 Copynumber: 4.4 Consensus size: 32
25785342 GAATGGCTAC
* * *
25785352 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGACACA
* * * *
25785383 AAGCCATCAGTAGCAGTGATATGACCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGACACA
* * *
25785415 TAGCCATTAGTAACGGTAATATGATCGACACA
1 AAGCCATCAGTAACAGTAATATGATCGACACA
* *
25785447 AAGCCATCAGTAACGGTAATATGATCAACACA
1 AAGCCATCAGTAACAGTAATATGATCGACACA
*
25785479 AAGCCATTAGTA
1 AAGCCATCAGTA
25785491 GCATCGTAGC
Statistics
Matches: 91, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
31 10 0.11
32 81 0.89
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.21
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGATCGACACA
Found at i:25785469 original size:64 final size:64
Alignment explanation
Indices: 25785352--25785490 Score: 172
Period size: 64 Copynumber: 2.2 Consensus size: 64
25785342 GAATGGCTAC
* * * * * **
25785352 AAGCCATAAGT-ACAGTAATATGATTGGCACAAAGCCATCAGTAGCAGTGATATGACCGGCACA
1 AAGCCATTAGTAACAGTAATATGATCGACACAAAGCCATCAGTAACAGTAATATGACCAACACA
* * * *
25785415 TAGCCATTAGTAACGGTAATATGATCGACACAAAGCCATCAGTAACGGTAATATGATCAACACA
1 AAGCCATTAGTAACAGTAATATGATCGACACAAAGCCATCAGTAACAGTAATATGACCAACACA
25785479 AAGCCATTAGTA
1 AAGCCATTAGTA
25785491 GCATCGTAGC
Statistics
Matches: 63, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
63 9 0.14
64 54 0.86
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.21
Consensus pattern (64 bp):
AAGCCATTAGTAACAGTAATATGATCGACACAAAGCCATCAGTAACAGTAATATGACCAACACA
Found at i:25785621 original size:16 final size:16
Alignment explanation
Indices: 25785600--25785630 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25785590 TCCCAACCCC
*
25785600 ATGCAGTATGTCATGT
1 ATGCAGAATGTCATGT
25785616 ATGCAGAATGTCATG
1 ATGCAGAATGTCATG
25785631 CTTAGAATCA
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:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (16 bp):
ATGCAGAATGTCATGT
Found at i:25785662 original size:11 final size:11
Alignment explanation
Indices: 25785646--25785688 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
25785636 AATCAGTCAT
25785646 ACAAATCACAG
1 ACAAATCACAG
*
25785657 ACAAATCAGTCAT
1 ACAAATCA--CAG
*
25785670 ACCAATCACAG
1 ACAAATCACAG
25785681 ACAAATCA
1 ACAAATCA
25785689 GTCATTTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 17 0.65
13 9 0.35
ACGTcount: A:0.51, C:0.28, G:0.07, T:0.14
Consensus pattern (11 bp):
ACAAATCACAG
Found at i:25785668 original size:24 final size:24
Alignment explanation
Indices: 25785636--25785705 Score: 113
Period size: 24 Copynumber: 2.9 Consensus size: 24
25785626 TCATGCTTAG
25785636 AATCAGTCATACAAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
*
25785660 AATCAGTCATACCAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
**
25785684 AATCAGTCATTTAAATCACAGA
1 AATCAGTCATACAAATCACAGA
25785706 AAAAACAATC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.47, C:0.24, G:0.09, T:0.20
Consensus pattern (24 bp):
AATCAGTCATACAAATCACAGACA
Found at i:25785717 original size:24 final size:24
Alignment explanation
Indices: 25785673--25785720 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
25785663 CAGTCATACC
* * *
25785673 AATCACAGACAAATCAGTCATTTA
1 AATCACAGAAAAAACAATCATTTA
25785697 AATCACAGAAAAAACAATCATTTA
1 AATCACAGAAAAAACAATCATTTA
25785721 CACTCGAGGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.52, C:0.19, G:0.06, T:0.23
Consensus pattern (24 bp):
AATCACAGAAAAAACAATCATTTA
Found at i:25785838 original size:81 final size:81
Alignment explanation
Indices: 25785735--25786058 Score: 220
Period size: 81 Copynumber: 4.0 Consensus size: 81
25785725 CGAGGGGCAA
*
25785735 AATAGTCATTTACCCTCTAGGGGCATTACGATCATTTTACCTTATAGGAGTATTTT-GGTCATTT
1 AATAGTCATTTACCCTCTAGGGGCATTACGATCATTTTACCCTATAGGAGT-TTTTCGGTCATTT
25785799 AACCCTTTGAGGGTATT
65 AACCCTTTGAGGGTATT
* * *
25785816 AATA-TCACTTTACCCTAC-AGGGGCATTACGGTTATTTTACCCTATGGGAGTTTTTCGGTCATT
1 AATAGTCA-TTTACCCT-CTAGGGGCATTACGATCATTTTACCCTATAGGAGTTTTTCGGTCATT
* **
25785879 TTACCC-TACAGGGGTATT
64 TAACCCTTTGA-GGGTATT
* * * * * * * * *
25785897 -ACAGTCGTTTTACCTTATAGAGGCATTACGGTCATTTTATCCTATGAGG-GTATTTCGATCATT
1 AATAGTC-ATTTACCCTCTAGGGGCATTACGATCATTTTACCCTAT-AGGAGTTTTTCGGTCATT
* * *
25785960 TTACCCATCGAGGGTATT
64 TAACCCTTTGAGGGTATT
* * * * * *
25785978 --TCGGTCATTTTACCCAT-GAAGGGTATTTCGATCATTTTACCC-ATCAAGG-GTATTTCGGTC
1 AAT-AGTCA-TTTACCC-TCTAGGGGCATTACGATCATTTTACCCTAT--AGGAGTTTTTCGGTC
* * *
25786038 ATTTTACCGTTCGAGGGTATT
61 ATTTAACCCTTTGAGGGTATT
25786059 TCAGTAATTT
Statistics
Matches: 196, Mismatches: 34, Indels: 26
0.77 0.13 0.10
Matches are distributed among these distances:
80 13 0.07
81 177 0.90
82 6 0.03
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (81 bp):
AATAGTCATTTACCCTCTAGGGGCATTACGATCATTTTACCCTATAGGAGTTTTTCGGTCATTTA
ACCCTTTGAGGGTATT
Found at i:25786054 original size:27 final size:27
Alignment explanation
Indices: 25785766--25786095 Score: 192
Period size: 27 Copynumber: 12.2 Consensus size: 27
25785756 GGCATTACGA
** *
25785766 TCATTTTA-CCTTATAGGAGTATTTTGG
1 TCATTTTACCCTTCGAGG-GTATTTCGG
* * ****
25785793 TCATTTAACCCTTTGAGGGTATTAATA
1 TCATTTTACCCTTCGAGGGTATTTCGG
* * * *
25785820 TCACTTTACCCTAC-AGGGGCATTACGG
1 TCATTTTACCCTTCGA-GGGTATTTCGG
* *
25785847 TTATTTTACCCTAT-G-GGAGTTTTTCGG
1 TCATTTTACCCT-TCGAGG-GTATTTCGG
* * *
25785874 TCATTTTACCCTAC-AGGGGTATTACAG
1 TCATTTTACCCTTCGA-GGGTATTTCGG
* ** * *
25785901 TCGTTTTA-CCTTATAGAGGCATTACGG
1 TCATTTTACCCTTCGAG-GGTATTTCGG
* *
25785928 TCATTTTATCCTAT-GAGGGTATTTCGA
1 TCATTTTACCCT-TCGAGGGTATTTCGG
*
25785955 TCATTTTACCCATCGAGGGTATTTCGG
1 TCATTTTACCCTTCGAGGGTATTTCGG
* *
25785982 TCATTTTACCCAT-GAAGGGTATTTCGA
1 TCATTTTACCCTTCG-AGGGTATTTCGG
* *
25786009 TCATTTTACCCATCAAGGGTATTTCGG
1 TCATTTTACCCTTCGAGGGTATTTCGG
* *
25786036 TCATTTTACCGTTCGAGGGTATTTCAG
1 TCATTTTACCCTTCGAGGGTATTTCGG
* * * *
25786063 TAATTTTACCCAGT-GAGGGTCTTTCAG
1 TCATTTTACCC-TTCGAGGGTATTTCGG
25786090 TCATTT
1 TCATTT
25786096 AACAACCTTT
Statistics
Matches: 236, Mismatches: 51, Indels: 32
0.74 0.16 0.10
Matches are distributed among these distances:
26 9 0.04
27 211 0.89
28 15 0.06
29 1 0.00
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.39
Consensus pattern (27 bp):
TCATTTTACCCTTCGAGGGTATTTCGG
Found at i:25786059 original size:81 final size:81
Alignment explanation
Indices: 25785943--25786095 Score: 220
Period size: 81 Copynumber: 1.9 Consensus size: 81
25785933 TTATCCTATG
* *
25785943 AGGGTATTTCGATCATTTTACCCATCGAGGGTATTTCGGTCATTTTACCCA-TGAAGGGTATTTC
1 AGGGTATTTCGATCATTTTACCCATCGAGGGTATTTCAGTAATTTTACCCAGTG-AGGGTATTTC
25786007 -GATCATTTTACCCATCA
65 AG-TCATTTTACCCATCA
* ** *
25786024 AGGGTATTTCGGTCATTTTACCGTTCGAGGGTATTTCAGTAATTTTACCCAGTGAGGGTCTTTCA
1 AGGGTATTTCGATCATTTTACCCATCGAGGGTATTTCAGTAATTTTACCCAGTGAGGGTATTTCA
25786089 GTCATTT
66 GTCATTT
25786096 AACAACCTTT
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
81 61 0.95
82 3 0.05
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.39
Consensus pattern (81 bp):
AGGGTATTTCGATCATTTTACCCATCGAGGGTATTTCAGTAATTTTACCCAGTGAGGGTATTTCA
GTCATTTTACCCATCA
Found at i:25787202 original size:33 final size:33
Alignment explanation
Indices: 25787165--25787236 Score: 135
Period size: 33 Copynumber: 2.2 Consensus size: 33
25787155 AGAGAAAGAA
*
25787165 AAATGAGACCAAAAAGAAAGTTACCTATTCGGC
1 AAATGAGACCAAAAAGAAAGTTACCTATTCAGC
25787198 AAATGAGACCAAAAAGAAAGTTACCTATTCAGC
1 AAATGAGACCAAAAAGAAAGTTACCTATTCAGC
25787231 AAATGA
1 AAATGA
25787237 AGGAAGGAGG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.18
Consensus pattern (33 bp):
AAATGAGACCAAAAAGAAAGTTACCTATTCAGC
Found at i:25788077 original size:22 final size:22
Alignment explanation
Indices: 25788049--25788092 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
25788039 TGAGAAGAAG
*
25788049 GCAAGATGAGCATGATAGTTTT
1 GCAAGATGAACATGATAGTTTT
25788071 GCAAGATGAACATGATAGTTTT
1 GCAAGATGAACATGATAGTTTT
25788093 TGTTTTCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.09, G:0.25, T:0.32
Consensus pattern (22 bp):
GCAAGATGAACATGATAGTTTT
Found at i:25818594 original size:8 final size:8
Alignment explanation
Indices: 25818581--25818625 Score: 81
Period size: 8 Copynumber: 5.6 Consensus size: 8
25818571 ACTAATATCT
*
25818581 TTTTATAC
1 TTTTATAA
25818589 TTTTATAA
1 TTTTATAA
25818597 TTTTATAA
1 TTTTATAA
25818605 TTTTATAA
1 TTTTATAA
25818613 TTTTATAA
1 TTTTATAA
25818621 TTTTA
1 TTTTA
25818626 ATTTTAATCA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 36 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (8 bp):
TTTTATAA
Found at i:25818963 original size:18 final size:19
Alignment explanation
Indices: 25818942--25818984 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
25818932 TATGATATCA
*
25818942 TAATTAACT-TGTAAATAT
1 TAATTAACTAAGTAAATAT
25818960 TAATT-ACTAAGTAAATAT
1 TAATTAACTAAGTAAATAT
25818978 TAATTAA
1 TAATTAA
25818985 TAATATTTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 3 0.14
18 18 0.82
19 1 0.05
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.42
Consensus pattern (19 bp):
TAATTAACTAAGTAAATAT
Found at i:25819094 original size:16 final size:16
Alignment explanation
Indices: 25819075--25819122 Score: 96
Period size: 16 Copynumber: 3.0 Consensus size: 16
25819065 ATAGGTTTGG
25819075 CTATAATCCAAGACCC
1 CTATAATCCAAGACCC
25819091 CTATAATCCAAGACCC
1 CTATAATCCAAGACCC
25819107 CTATAATCCAAGACCC
1 CTATAATCCAAGACCC
25819123 ATAAAGGTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.38, C:0.38, G:0.06, T:0.19
Consensus pattern (16 bp):
CTATAATCCAAGACCC
Found at i:25823768 original size:51 final size:51
Alignment explanation
Indices: 25823695--25823794 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 51
25823685 TTAATTATTT
25823695 TCTCAATTTCCTCTCAAATTCCT-TCCAAAATTCTCTCAAATCCATATTTAA
1 TCTCAATTTCCTCTCAAATTCCTCT-CAAAATTCTCTCAAATCCATATTTAA
* * * * * *
25823746 TCTCAATTTGCTCTCAATTTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTTCCTCTCAAATTCCTCTCAAAATTCTCTCAAATCCATATTT
25823795 TTAAATAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
51 41 0.98
52 1 0.02
ACGTcount: A:0.27, C:0.28, G:0.01, T:0.44
Consensus pattern (51 bp):
TCTCAATTTCCTCTCAAATTCCTCTCAAAATTCTCTCAAATCCATATTTAA
Found at i:25824559 original size:7 final size:7
Alignment explanation
Indices: 25824547--25824579 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
25824537 TAGTCGATTG
25824547 GTATTTA
1 GTATTTA
25824554 GTATTTA
1 GTATTTA
25824561 GTATTTA
1 GTATTTA
25824568 GTATTTA
1 GTATTTA
25824575 GTATT
1 GTATT
25824580 ATGTATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:25825172 original size:18 final size:18
Alignment explanation
Indices: 25825145--25825179 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
25825135 CAGGTGCGTT
* *
25825145 TCCTAGCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
25825163 TCCTAACCCTTATATGT
1 TCCTAACCCTTATATGT
25825180 TTTCTTTTCC
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:0.20, C:0.29, G:0.09, T:0.43
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:25825750 original size:22 final size:23
Alignment explanation
Indices: 25825725--25825779 Score: 58
Period size: 27 Copynumber: 2.3 Consensus size: 23
25825715 TTTAATTGAC
25825725 AAACCCTAA-ACCCTTAACTTAA
1 AAACCCTAACACCCTTAACTTAA
*
25825747 AAACTCTAACCCTGACCCTTAACTTAA
1 AAACCCTAA--C--ACCCTTAACTTAA
25825774 AAACCC
1 AAACCC
25825780 CTTAACTCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 8 0.31
27 18 0.69
ACGTcount: A:0.42, C:0.35, G:0.02, T:0.22
Consensus pattern (23 bp):
AAACCCTAACACCCTTAACTTAA
Found at i:25825792 original size:15 final size:14
Alignment explanation
Indices: 25825778--25825854 Score: 56
Period size: 13 Copynumber: 5.6 Consensus size: 14
25825768 ACTTAAAAAC
*
25825778 CCCTTAACTCTAAA
1 CCCTTAACCCTAAA
25825792 CCCTTAACCCT-AA
1 CCCTTAACCCTAAA
25825805 -CCTTAAACCCTAAA
1 CCCTT-AACCCTAAA
* *
25825819 CTC-TAACCCTTAA
1 CCCTTAACCCTAAA
25825832 --CTTAAAAACCCTAAA
1 CCCTT---AACCCTAAA
25825847 CCCTTAAC
1 CCCTTAAC
25825855 TTAAAAACCC
Statistics
Matches: 50, Mismatches: 4, Indels: 18
0.69 0.06 0.25
Matches are distributed among these distances:
11 1 0.02
12 5 0.10
13 16 0.32
14 16 0.32
15 9 0.18
17 3 0.06
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (14 bp):
CCCTTAACCCTAAA
Found at i:25825811 original size:20 final size:21
Alignment explanation
Indices: 25825788--25825831 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
25825778 CCCTTAACTC
*
25825788 TAAACCCTTAACCCTAA-CCT
1 TAAACCCTAAACCCTAACCCT
*
25825808 TAAACCCTAAACTCTAACCCT
1 TAAACCCTAAACCCTAACCCT
25825829 TAA
1 TAA
25825832 CTTAAAAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (21 bp):
TAAACCCTAAACCCTAACCCT
Found at i:25825851 original size:22 final size:22
Alignment explanation
Indices: 25825823--25825915 Score: 161
Period size: 22 Copynumber: 4.3 Consensus size: 22
25825813 CCTAAACTCT
25825823 AACCCTTAACTTAAAAACCCTA
1 AACCCTTAACTTAAAAACCCTA
25825845 AACCCTTAACTTAAAAACCCTA
1 AACCCTTAACTTAAAAACCCTA
* *
25825867 AACCCTTAGCTTAAAAACTCTA
1 AACCCTTAACTTAAAAACCCTA
25825889 AACCCTTAACTTAAAAACCCT-
1 AACCCTTAACTTAAAAACCCTA
25825910 AACCCT
1 AACCCT
25825916 AACCCTAACC
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
21 6 0.09
22 61 0.91
ACGTcount: A:0.43, C:0.32, G:0.01, T:0.24
Consensus pattern (22 bp):
AACCCTTAACTTAAAAACCCTA
Found at i:25828143 original size:125 final size:124
Alignment explanation
Indices: 25827905--25828463 Score: 814
Period size: 125 Copynumber: 4.5 Consensus size: 124
25827895 AACATGCTAT
* * *
25827905 TGTAGCAAAAGCGCGTCCACGTGGGCGTGATATCACAAATTCTTCTGATAAAGCATCCTGCTTGA
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTGATAAAGCATCCTGCTTGA
* * *
25827970 AGCGTTTTTATACTATTTGCTCAAAAACGTCAACTAGAAATTATTTTTTTCAGGACCTAC
66 AGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTA-TTTTTGCAGGACCTAC
*
25828030 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGA
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTGATAAAGCATCCTGCTTGA
*
25828095 AGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTGCATGACCTAC
66 AGCG-TTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTGCAGGACCTAC
* * * *
25828155 TGTAGCAAAAGTGCGTACACGTGGGCGCAATTTCACAAATTCTTCTGATAAAGCATCCTGCTTGA
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTGATAAAGCATCCTGCTTGA
* *
25828220 AGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCCGGGACCTAC
66 AGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTA-TTTTTGCAGGACCTAC
* * ** * *
25828280 TGTAGCAAAAACACGTCCACGAGGGCAAGATTTCACAAATTCTTCTCATAAAACATCCTGCTTGA
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTGATAAAGCATCCTGCTTGA
*
25828345 AGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAATTTATTTTTGCAGGACCTAC
66 AGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTGCAGGACCTAC
* ** * ** * *
25828404 TGTAACAAAAGCTTGTACAC-ATGGGCGTTACTTCAGAAATTCTTCTGATAAAGCATCCTG
1 TGTAGCAAAAGCGCGTCCACGA-GGGCGCGATTTCACAAATTCTTCTGATAAAGCATCCTG
25828464 ATTTGATTTT
Statistics
Matches: 390, Mismatches: 41, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
123 1 0.00
124 99 0.25
125 253 0.65
126 37 0.09
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (124 bp):
TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTGATAAAGCATCCTGCTTGA
AGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTGCAGGACCTAC
Found at i:25831073 original size:23 final size:23
Alignment explanation
Indices: 25831043--25831086 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
25831033 ATTTTACATC
*
25831043 AATAAAATTACCACAAATTTTAA
1 AATAAAATTAACACAAATTTTAA
25831066 AATAAAATTAACACAAATTTT
1 AATAAAATTAACACAAATTTT
25831087 TTATGTCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (23 bp):
AATAAAATTAACACAAATTTTAA
Found at i:25832307 original size:26 final size:25
Alignment explanation
Indices: 25832277--25832326 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 25
25832267 TATACTTAGA
25832277 TTAGTT-TTAGTTTAATTTAATTAACC
1 TTAGTTATTAG-TTAA-TTAATTAACC
25832303 TTAGTTAGTTAGTTAATTAATTAA
1 TTAGTTA-TTAGTTAATTAATTAA
25832327 GGCATAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 14 0.64
27 4 0.18
28 4 0.18
ACGTcount: A:0.34, C:0.04, G:0.10, T:0.52
Consensus pattern (25 bp):
TTAGTTATTAGTTAATTAATTAACC
Found at i:25832412 original size:95 final size:93
Alignment explanation
Indices: 25832307--25832579 Score: 416
Period size: 95 Copynumber: 3.0 Consensus size: 93
25832297 TTAACCTTAG
25832307 TTAGTTAGTTAATTAATTAAGGCATAATTAAACTTATTTTAATTATAATTTAATCTAAGTGGGAC
1 TTAGTTAGTT-ATTAATTAAGGCATAATTAAACTTATTTTAATTATAATTTAATCTAAGTGGGAC
25832372 AATTGGTTTAATTACCATTTTGATATTAAC
65 AATTGGTTTAATTACCATTTTGATATT-AC
* * *
25832402 TTAGTTAGTTAGTTAATTAAGGCATACTAAAACTTATTTTAATTATAATTTAATTTAAGTGGGAC
1 TTAGTTAGTTA-TTAATTAAGGCATAATTAAACTTATTTTAATTATAATTTAATCTAAGTGGGAC
*
25832467 AATTGGTTTAATTGCCATTTTGATATTAC
65 AATTGGTTTAATTACCATTTTGATATTAC
* *
25832496 -T--TTAG---TTAACTAAGGTATAATTAAACTTA-TTTAATTATAATTTAATCTAAGTGGGACA
1 TTAGTTAGTTATTAATTAAGGCATAATTAAACTTATTTTAATTATAATTTAATCTAAGTGGGACA
25832554 ATTGGTTTAATTACCATTTTGATATT
66 ATTGGTTTAATTACCATTTTGATATT
25832580 TTGAATAATT
Statistics
Matches: 167, Mismatches: 10, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
86 53 0.32
87 20 0.12
91 4 0.02
93 1 0.01
94 3 0.02
95 86 0.51
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.45
Consensus pattern (93 bp):
TTAGTTAGTTATTAATTAAGGCATAATTAAACTTATTTTAATTATAATTTAATCTAAGTGGGACA
ATTGGTTTAATTACCATTTTGATATTAC
Found at i:25832556 original size:86 final size:87
Alignment explanation
Indices: 25832410--25832579 Score: 279
Period size: 86 Copynumber: 2.0 Consensus size: 87
25832400 ACTTAGTTAG
* * *
25832410 TTAGTTAATTAAGGCATACTAAAACTTATTTTAATTATAATTTAATTTAAGTGGGACAATTGGTT
1 TTAGTTAACTAAGGCATAATAAAACTTATTTTAATTATAATTTAATCTAAGTGGGACAATTGGTT
*
25832475 TAATTGCCATTTTGATATTACT
66 TAATTACCATTTTGATATTACT
* *
25832497 TTAGTTAACTAAGGTATAATTAAACTTA-TTTAATTATAATTTAATCTAAGTGGGACAATTGGTT
1 TTAGTTAACTAAGGCATAATAAAACTTATTTTAATTATAATTTAATCTAAGTGGGACAATTGGTT
25832561 TAATTACCATTTTGATATT
66 TAATTACCATTTTGATATT
25832580 TTGAATAATT
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
86 53 0.69
87 24 0.31
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.45
Consensus pattern (87 bp):
TTAGTTAACTAAGGCATAATAAAACTTATTTTAATTATAATTTAATCTAAGTGGGACAATTGGTT
TAATTACCATTTTGATATTACT
Found at i:25832821 original size:6 final size:6
Alignment explanation
Indices: 25832806--25832847 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
25832796 AGTACCATTG
* * *
25832806 ACATAT ACATAA ACATAC ACATAC ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
25832848 TTCAAACGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.26
Consensus pattern (6 bp):
ACATAT
Found at i:25837333 original size:30 final size:29
Alignment explanation
Indices: 25837297--25837362 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 29
25837287 ACAATTCAAC
*
25837297 CTAAATT-TTGAAATATGAAAAGTAT-AGAGA
1 CTAAATTCCTGAAA-AT-AAAAGTATAAG-GA
*
25837327 CTAAATTCCTGAAAATAGAAGTATAAGGA
1 CTAAATTCCTGAAAATAAAAGTATAAGGA
25837356 CTAAATT
1 CTAAATT
25837363 ACTAATTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 16 0.50
30 11 0.34
31 5 0.16
ACGTcount: A:0.48, C:0.08, G:0.15, T:0.29
Consensus pattern (29 bp):
CTAAATTCCTGAAAATAAAAGTATAAGGA
Found at i:25841855 original size:15 final size:15
Alignment explanation
Indices: 25841837--25841869 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
25841827 GTTTCTGTAC
25841837 TTTTATTTTCAAGAA
1 TTTTATTTTCAAGAA
25841852 TTTTATTTTCAAGAA
1 TTTTATTTTCAAGAA
25841867 TTT
1 TTT
25841870 AGTCCCTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (15 bp):
TTTTATTTTCAAGAA
Found at i:25842369 original size:8 final size:8
Alignment explanation
Indices: 25842356--25842400 Score: 54
Period size: 8 Copynumber: 5.4 Consensus size: 8
25842346 ATTAGTTGAA
25842356 TTAATATT
1 TTAATATT
25842364 TTAATATAT
1 TTAATAT-T
*
25842373 TTAATTTT
1 TTAATATT
25842381 TATAATATT
1 T-TAATATT
*
25842390 TTAATAAT
1 TTAATATT
25842398 TTA
1 TTA
25842401 TTCAATTGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
8 18 0.56
9 14 0.44
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TTAATATT
Found at i:25842388 original size:16 final size:17
Alignment explanation
Indices: 25842356--25842400 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
25842346 ATTAGTTGAA
25842356 TTAATATTTTAATATAT
1 TTAATATTTTAATATAT
*
25842373 TTAATTTTTATAATAT-T
1 TTAATATTT-TAATATAT
*
25842390 TTAATAATTTA
1 TTAATATTTTA
25842401 TTCAATTGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 2 0.08
17 16 0.67
18 6 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTAATATTTTAATATAT
Found at i:25851713 original size:16 final size:15
Alignment explanation
Indices: 25851673--25851713 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
25851663 ACAGCATGTT
25851673 AATTTATATGTGTGAA
1 AATTTAT-TGTGTGAA
25851689 AATTT-TTGTGTGAA
1 AATTTATTGTGTGAA
25851703 AATTTTATTGT
1 AA-TTTATTGT
25851714 TTGTGTGCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 10 0.43
15 4 0.17
16 9 0.39
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (15 bp):
AATTTATTGTGTGAA
Found at i:25854993 original size:150 final size:150
Alignment explanation
Indices: 25854771--25855071 Score: 557
Period size: 150 Copynumber: 2.0 Consensus size: 150
25854761 CAACTTATTG
25854771 TGGTGGTATATGCGTTTGGTATATGAAATGATACATACCTAGTTGTAACTTAAGAGATCGAATGT
1 TGGTGGTATATGCGTTTGGTATATGAAATGATACATACCTAGTTGTAACTTAAGAGATCGAATGT
*
25854836 CATATATTTGATAGCTGTATGGTTTAAATCTTGTAAATATGAGACATGTGTAAATTGGTTTTGTT
66 CATATATTTGATAGCTATATGGTTTAAATCTTGTAAATATGAGACATGTGTAAATTGGTTTTGTT
*
25854901 GTATAACAACTTAGTTCGAA
131 GTATAAAAACTTAGTTCGAA
*
25854921 TGGTGGTATATGCGTTTGGTATATGAAATGATACATACCTAGTTGTAATTTAAGAGATCGAATGT
1 TGGTGGTATATGCGTTTGGTATATGAAATGATACATACCTAGTTGTAACTTAAGAGATCGAATGT
*
25854986 CATATATTTGATAGCTATATGGTTTAAATTTTGTAAATATGAGACATGTGTAAATTGGTTTTGTT
66 CATATATTTGATAGCTATATGGTTTAAATCTTGTAAATATGAGACATGTGTAAATTGGTTTTGTT
*
25855051 GTATAAAAACTTAGTTTGAA
131 GTATAAAAACTTAGTTCGAA
25855071 T
1 T
25855072 ATTTGGAATA
Statistics
Matches: 146, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
150 146 1.00
ACGTcount: A:0.32, C:0.07, G:0.21, T:0.40
Consensus pattern (150 bp):
TGGTGGTATATGCGTTTGGTATATGAAATGATACATACCTAGTTGTAACTTAAGAGATCGAATGT
CATATATTTGATAGCTATATGGTTTAAATCTTGTAAATATGAGACATGTGTAAATTGGTTTTGTT
GTATAAAAACTTAGTTCGAA
Found at i:25858883 original size:21 final size:22
Alignment explanation
Indices: 25858854--25858900 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
25858844 CAGAAGGAGT
*
25858854 GAGTAGTACTTCGCAACAGGTG
1 GAGTAGTACTCCGCAACAGGTG
*
25858876 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAACAGGTG
25858897 GAGT
1 GAGT
25858901 TTGAGCAGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.23, C:0.19, G:0.36, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAACAGGTG
Found at i:25867446 original size:195 final size:185
Alignment explanation
Indices: 25867031--25867469 Score: 519
Period size: 195 Copynumber: 2.3 Consensus size: 185
25867021 TGAGTAAAGG
**
25867031 ATTTGATCTCGCTCATGATTCCACTATGTGGTGAAATTGAGTTG-GACCACCATTT-CAATGTAT
1 ATTTGATCTCGCTCACCATTCCACTATGTGGTGAAATTGAGTTGTG-CCACCATTTGCAATGTAT
* * *
25867094 GAATTTATTTAATTATGGTATTTATTTTTTTAAAATTTATTATATATAATGAATGTTTGATATTT
65 GAATTTATATAATTATGATATTTATTTTTTTAAAATTTATTATATATAATGAATATTTGATATTT
* * * * *
25867159 AATATGAATTTATCATGATTTTTTAATTATTATGGTATTTTATAGTGAGGGTGAAGG
130 AATATGAATTTATCATAATTTTTTAA-TATTATGATATTTTAAACTGAGGGTGAAGA
* * *
25867216 ATTTGATCTCTCTTATCATTCCACTATGTGGTGAAATTGAGTTGTGCCACCATTTGCAATGTATG
1 ATTTGATCTCGCTCACCATTCCACTATGTGGTGAAATTGAGTTGTGCCACCATTTGCAATGTATG
* *
25867281 ATATTT-TATAATTATGATATTTTATTTTTTTAACATTTATTACATATGATGAATATTTAATATT
66 A-ATTTATATAATTATGATA-TTTATTTTTTTAAAATTTATT--ATAT-AT--A-A-TGAATATT
*
25867345 TTATAAAATTTAATATGAATTTATCATAATTTTTTAA-ATTATGATATTTTAAACTGAGGGTGAA
122 TGAT---ATTTAATATGAATTTATCATAATTTTTTAATATTATGATATTTTAAACTGAGGGTGAA
25867409 GA
184 GA
* * * * *
25867411 ATTTGAT-TGCGCTCACCATTCTATTATGCGGTGAAATTGAGTTGTACCACAATTTGCAA
1 ATTTGATCT-CGCTCACCATTCCACTATGTGGTGAAATTGAGTTGTGCCACCATTTGCAA
25867470 GGTAAGACAT
Statistics
Matches: 217, Mismatches: 22, Indels: 20
0.84 0.08 0.08
Matches are distributed among these distances:
185 50 0.23
186 22 0.10
187 24 0.11
189 4 0.02
190 2 0.01
192 1 0.00
193 1 0.00
194 10 0.05
195 74 0.34
197 29 0.13
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (185 bp):
ATTTGATCTCGCTCACCATTCCACTATGTGGTGAAATTGAGTTGTGCCACCATTTGCAATGTATG
AATTTATATAATTATGATATTTATTTTTTTAAAATTTATTATATATAATGAATATTTGATATTTA
ATATGAATTTATCATAATTTTTTAATATTATGATATTTTAAACTGAGGGTGAAGA
Found at i:25867909 original size:27 final size:27
Alignment explanation
Indices: 25867878--25867962 Score: 66
Period size: 27 Copynumber: 3.2 Consensus size: 27
25867868 CCCATATTTT
25867878 TTACTGCTTATAAGATAAAGTAAAAAA
1 TTACTGCTTATAAGATAAAGTAAAAAA
* * * * * ****
25867905 TTACTAAC-AATAAAAT-GAGTTATGGT
1 TTACT-GCTTATAAGATAAAGTAAAAAA
25867931 TTACTGCTTATAAGATAAAGTAAAAAA
1 TTACTGCTTATAAGATAAAGTAAAAAA
25867958 TTACT
1 TTACT
25867963 AACAATAAAA
Statistics
Matches: 37, Mismatches: 18, Indels: 6
0.61 0.30 0.10
Matches are distributed among these distances:
25 1 0.03
26 15 0.41
27 20 0.54
28 1 0.03
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (27 bp):
TTACTGCTTATAAGATAAAGTAAAAAA
Found at i:25867957 original size:53 final size:53
Alignment explanation
Indices: 25867877--25867985 Score: 218
Period size: 53 Copynumber: 2.1 Consensus size: 53
25867867 TCCCATATTT
25867877 TTTACTGCTTATAAGATAAAGTAAAAAATTACTAACAATAAAATGAGTTATGG
1 TTTACTGCTTATAAGATAAAGTAAAAAATTACTAACAATAAAATGAGTTATGG
25867930 TTTACTGCTTATAAGATAAAGTAAAAAATTACTAACAATAAAATGAGTTATGG
1 TTTACTGCTTATAAGATAAAGTAAAAAATTACTAACAATAAAATGAGTTATGG
25867983 TTT
1 TTT
25867986 GTTATGTGGG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.46, C:0.07, G:0.13, T:0.34
Consensus pattern (53 bp):
TTTACTGCTTATAAGATAAAGTAAAAAATTACTAACAATAAAATGAGTTATGG
Found at i:25868198 original size:31 final size:32
Alignment explanation
Indices: 25868158--25868218 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 32
25868148 GGGGGCTTGG
25868158 CCTTCCAAAAA-TTTGAAAAATTATAATTAAAT
1 CCTTCCAAAAATTTTGAAAAATT-TAATTAAAT
25868190 CCTT-CAAAAATTTTGAAAAATTTAATTAA
1 CCTTCCAAAAATTTTGAAAAATTTAATTAA
25868219 GCTTCCTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
31 13 0.46
32 15 0.54
ACGTcount: A:0.49, C:0.11, G:0.03, T:0.36
Consensus pattern (32 bp):
CCTTCCAAAAATTTTGAAAAATTTAATTAAAT
Found at i:25868244 original size:30 final size:30
Alignment explanation
Indices: 25868196--25868292 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 30
25868186 AAATCCTTCA
** *
25868196 AAAATTTTGAAAAATTTAATTAAGCTTCCT
1 AAAATTTTTTAAAATTTAATTAAGCTTCCC
* *
25868226 AAAATTTTTTAAAGTTTAAATTAAAC-TCCC
1 AAAATTTTTTAAAATTT-AATTAAGCTTCCC
* *
25868256 AAATATTTTTTAAAAATTAATT-AGGTTCCC
1 AAA-ATTTTTTAAAATTTAATTAAGCTTCCC
25868286 AAAATTT
1 AAAATTT
25868293 AATGTCGAGA
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
29 5 0.09
30 31 0.56
31 19 0.35
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.41
Consensus pattern (30 bp):
AAAATTTTTTAAAATTTAATTAAGCTTCCC
Found at i:25874816 original size:27 final size:27
Alignment explanation
Indices: 25874724--25874817 Score: 116
Period size: 27 Copynumber: 3.5 Consensus size: 27
25874714 ATCTGCCACG
* * * *
25874724 AAGGCTTCTATTTCTTAGATCACTACA
1 AAGGCTTCCATCTCTTAGATCACCATA
* * *
25874751 AAGGCTTCCATATCTTGGATCGCCATA
1 AAGGCTTCCATCTCTTAGATCACCATA
*
25874778 AAGGCTTCCATCTCTTAGAACACCATA
1 AAGGCTTCCATCTCTTAGATCACCATA
25874805 AAGGCTTCCATCT
1 AAGGCTTCCATCT
25874818 TTGGCGTGTT
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.31
Consensus pattern (27 bp):
AAGGCTTCCATCTCTTAGATCACCATA
Found at i:25878761 original size:26 final size:26
Alignment explanation
Indices: 25878732--25878781 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
25878722 GCTTTTTACA
25878732 ATTTTACCCTTGATAAAATTTTGACG
1 ATTTTACCCTTGATAAAATTTTGACG
* *
25878758 ATTTTGCCCTTGGTAAAATTTTGA
1 ATTTTACCCTTGATAAAATTTTGA
25878782 GAAAATAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (26 bp):
ATTTTACCCTTGATAAAATTTTGACG
Found at i:25881155 original size:20 final size:20
Alignment explanation
Indices: 25881113--25881170 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
25881103 AACCCAATAG
**
25881113 GTATTGATATTTTTAGATGA
1 GTATTGATATTTTTAGAAAA
*
25881133 GTATTGATATTTTTATAAAA
1 GTATTGATATTTTTAGAAAA
* *
25881153 GTATGGATAATTTT-GAAA
1 GTATTGATATTTTTAGAAA
25881171 TGGTATCGAT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 3 0.09
20 29 0.91
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.47
Consensus pattern (20 bp):
GTATTGATATTTTTAGAAAA
Found at i:25887965 original size:16 final size:16
Alignment explanation
Indices: 25887944--25887986 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
25887934 TTATAGATTA
*
25887944 TTGGAAGCTTGATCAG
1 TTGGAAGCTCGATCAG
*
25887960 TTGGAAGCTCGATCGG
1 TTGGAAGCTCGATCAG
*
25887976 TTGGAATCTCG
1 TTGGAAGCTCG
25887987 TCGGAGACCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.21, C:0.16, G:0.33, T:0.30
Consensus pattern (16 bp):
TTGGAAGCTCGATCAG
Found at i:25888414 original size:21 final size:20
Alignment explanation
Indices: 25888389--25888429 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
25888379 TCGAAATGAC
*
25888389 ATGTTTATATGCATTTGAATG
1 ATGTTTAAAT-CATTTGAATG
*
25888410 ATGTTTAAATCCTTTGAATG
1 ATGTTTAAATCATTTGAATG
25888430 TGTACCCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.29, C:0.07, G:0.17, T:0.46
Consensus pattern (20 bp):
ATGTTTAAATCATTTGAATG
Found at i:25889666 original size:19 final size:19
Alignment explanation
Indices: 25889644--25889681 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
25889634 GACAGAAACA
25889644 GACTCACTTGACAAACTTT
1 GACTCACTTGACAAACTTT
*
25889663 GACTCACTTGACAGACTTT
1 GACTCACTTGACAAACTTT
25889682 CATGGATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (19 bp):
GACTCACTTGACAAACTTT
Found at i:25891891 original size:16 final size:16
Alignment explanation
Indices: 25891870--25891902 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25891860 AATGTTAGGG
25891870 GCAAAAT-TGTAATTTT
1 GCAAAATATG-AATTTT
25891886 GCAAAATATGAATTTT
1 GCAAAATATGAATTTT
25891902 G
1 G
25891903 AACTGAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.39
Consensus pattern (16 bp):
GCAAAATATGAATTTT
Found at i:25894828 original size:36 final size:36
Alignment explanation
Indices: 25894773--25894861 Score: 88
Period size: 36 Copynumber: 2.5 Consensus size: 36
25894763 ATATCATTGG
* ** * *
25894773 TTTATCCAACTAGAACTGGGTGCAAATCATTGTCTA
1 TTTATCCGACTAGTGCTGGGCGCAAATCATTGTCGA
* * * *
25894809 TTTATCCGGCTAGTGCTGGGCGTAACTCATTGTCGG
1 TTTATCCGACTAGTGCTGGGCGCAAATCATTGTCGA
*
25894845 TTTATCTGACTAGTGCT
1 TTTATCCGACTAGTGCT
25894862 AGGTACACAT
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.36
Consensus pattern (36 bp):
TTTATCCGACTAGTGCTGGGCGCAAATCATTGTCGA
Found at i:25899389 original size:6 final size:6
Alignment explanation
Indices: 25899198--25899388 Score: 357
Period size: 6 Copynumber: 32.0 Consensus size: 6
25899188 AAAACAATTC
25899198 GATTTT GATTTT GATTTT GATTTT GATTTT GATTTT GATTTT GATTTT
1 GATTTT GATTTT GATTTT GATTTT GATTTT GATTTT GATTTT GATTTT
25899246 GATTTT GATTTT GATTTT GATTTT GATTTT GATTTT GATTTT GATTTT
1 GATTTT GATTTT GATTTT GATTTT GATTTT GATTTT GATTTT GATTTT
25899294 GATTTT GATTTT GATTTT GATTTT GATTTT GATTTT GATTTT GATTTT
1 GATTTT GATTTT GATTTT GATTTT GATTTT GATTTT GATTTT GATTTT
* *
25899342 GATTTT GATTTT AATTTT GATTTT GATTTT AATTTT GATTTT G-TTTT
1 GATTTT GATTTT GATTTT GATTTT GATTTT GATTTT GATTTT GATTTT
25899389 TCTTAACCCA
Statistics
Matches: 181, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
5 4 0.02
6 177 0.98
ACGTcount: A:0.17, C:0.00, G:0.16, T:0.67
Consensus pattern (6 bp):
GATTTT
Found at i:25900084 original size:29 final size:29
Alignment explanation
Indices: 25900021--25900084 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
25900011 TGTACCAGAT
*
25900021 CGTGTGGTAGGCTATGTGTGACACACAAC
1 CGTGTGGTAAGCTATGTGTGACACACAAC
** * * *
25900050 TATGTGGTAAGCTGTGTGTGACACATAGC
1 CGTGTGGTAAGCTATGTGTGACACACAAC
25900079 CGTGTG
1 CGTGTG
25900085 ACAGTCTATG
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.33, T:0.28
Consensus pattern (29 bp):
CGTGTGGTAAGCTATGTGTGACACACAAC
Found at i:25905260 original size:21 final size:21
Alignment explanation
Indices: 25905234--25905274 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
25905224 TAAGATTCAG
25905234 ATTATATTTTGCCCCATTTAT
1 ATTATATTTTGCCCCATTTAT
*
25905255 ATTATATTTTTCCCCATTTA
1 ATTATATTTTGCCCCATTTA
25905275 CTCAAAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.20, G:0.02, T:0.54
Consensus pattern (21 bp):
ATTATATTTTGCCCCATTTAT
Found at i:25906737 original size:20 final size:20
Alignment explanation
Indices: 25906712--25906752 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
25906702 TCAGATTATT
*
25906712 TAATAATTATAAGATGGCAA
1 TAATAATTATAAGATGACAA
*
25906732 TAATAATTATAGGATGACAA
1 TAATAATTATAAGATGACAA
25906752 T
1 T
25906753 TAATTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.49, C:0.05, G:0.15, T:0.32
Consensus pattern (20 bp):
TAATAATTATAAGATGACAA
Found at i:25909990 original size:163 final size:162
Alignment explanation
Indices: 25909803--25910137 Score: 598
Period size: 163 Copynumber: 2.1 Consensus size: 162
25909793 AGAACAGTAC
* *
25909803 TTGAATAAGACAAAGATTACATGAAGACAACCTTAAAAATATGGTAAAATGTAAAATAGCGAGAA
1 TTGAATAAGACAAAGATTACATGAAAAAAACCTTAAAAATATGGTAAAATGTAAAATAGCGAGAA
25909868 GAGTTTATGGTCAAAATGGTTGTTCAACTAAGTATAGAAAATCGGTAAATGATGTGCAGAAGGTT
66 GAGTTTATGGTCAAAATGGTTGTTCAACTAAGTATAGAAAATCGGTAAATGATGTGCAGAAGGTT
25909933 TAGATATTTAGAATTTTGAAAGAGTTACACAG
131 TAGATATTTAGAATTTTGAAAGAGTTACACAG
* * *
25909965 TTGAATAAGACAAAAGATTACATGAAAAAAACCTTAAAAATATGGTCAAATGTAAGATAGTGAGA
1 TTGAATAAGAC-AAAGATTACATGAAAAAAACCTTAAAAATATGGTAAAATGTAAAATAGCGAGA
*
25910030 AGAGTTTATGGTCAAAATGGTTGTTCAACTCAGTATAGAAAATCGGTAAATGATGTGCAGAAGGT
65 AGAGTTTATGGTCAAAATGGTTGTTCAACTAAGTATAGAAAATCGGTAAATGATGTGCAGAAGGT
25910095 TTAGATATTTAGAATTTTGAAAGAGTTACACAG
130 TTAGATATTTAGAATTTTGAAAGAGTTACACAG
25910128 TTGAACTAAG
1 TTGAA-TAAG
25910138 TAAGATATAT
Statistics
Matches: 165, Mismatches: 6, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
162 11 0.07
163 150 0.91
164 4 0.02
ACGTcount: A:0.43, C:0.08, G:0.21, T:0.28
Consensus pattern (162 bp):
TTGAATAAGACAAAGATTACATGAAAAAAACCTTAAAAATATGGTAAAATGTAAAATAGCGAGAA
GAGTTTATGGTCAAAATGGTTGTTCAACTAAGTATAGAAAATCGGTAAATGATGTGCAGAAGGTT
TAGATATTTAGAATTTTGAAAGAGTTACACAG
Found at i:25912069 original size:101 final size:101
Alignment explanation
Indices: 25911937--25912124 Score: 272
Period size: 101 Copynumber: 1.9 Consensus size: 101
25911927 TTTGGTCTTA
* * * * *
25911937 GTTGAATATATGGCATTAGACCATTGAAAGAATTAT-GCATATCAGAA-TAAATGAGCACCTAAT
1 GTTGAATATATCGCATCAGACAACTGAAAGAATTATCG-ATATCA-AATTAAATGAGCACCTAAA
25912000 TCCCACTTATCCCAAGTTTTAGGGTGTCAGAAGCCTTG
64 TCCCACTTATCCCAAGTTTTAGGGTGTCAGAAGCCTTG
* * *
25912038 GTTGAATATATCGCATCAGAGAACTGAAAGAATTATCGGTATCAAATTAAATGAGCATCTAAATC
1 GTTGAATATATCGCATCAGACAACTGAAAGAATTATCGATATCAAATTAAATGAGCACCTAAATC
25912103 CCACTTATCCCAAGTTTTAGGG
66 CCACTTATCCCAAGTTTTAGGG
25912125 CTTCATAAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
100 2 0.03
101 74 0.96
102 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (101 bp):
GTTGAATATATCGCATCAGACAACTGAAAGAATTATCGATATCAAATTAAATGAGCACCTAAATC
CCACTTATCCCAAGTTTTAGGGTGTCAGAAGCCTTG
Found at i:25913531 original size:85 final size:83
Alignment explanation
Indices: 25913299--25913523 Score: 251
Period size: 85 Copynumber: 2.7 Consensus size: 83
25913289 GCCTATATAT
*
25913299 GAGCTTCGG-CACCATCGGCAACCTAGGACGTTGGATGT-ACGGGAGCCTCAAGCAGCATC-AGC
1 GAGCTTCGGACACCATCGGCAACCTAGGACGTTTGATGTGA-GGGAG-CTCAAGCAGCATCGA-C
*
25913361 ACCTTTGTGCTTCGATGTGCG
63 ACCTTTGTGCTTAGATGTGCG
* * * * * * *
25913382 GAAGCCTCGAACACCATCGGCAACTTAGAATG-TTGGTGGTGAGGGAGCATCGAGCAGCATCGAC
1 G-AGCTTCGGACACCATCGGCAACCTAGGACGTTTGAT-GTGAGGGAGC-TCAAGCAGCATCGAC
25913446 ACCTTTGTGCTTAGATGTGCG
63 ACCTTTGTGCTTAGATGTGCG
* *
25913467 AGAGCTTCGGACACCATCAGCAACCTAGGACGTTTGATGTGTGGGAGTCTCAAGCAG
1 -GAGCTTCGGACACCATCGGCAACCTAGGACGTTTGATGTGAGGGAG-CTCAAGCAG
25913524 GACCGACATC
Statistics
Matches: 115, Mismatches: 18, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
83 1 0.01
84 10 0.09
85 96 0.83
86 8 0.07
ACGTcount: A:0.24, C:0.24, G:0.30, T:0.22
Consensus pattern (83 bp):
GAGCTTCGGACACCATCGGCAACCTAGGACGTTTGATGTGAGGGAGCTCAAGCAGCATCGACACC
TTTGTGCTTAGATGTGCG
Found at i:25917781 original size:131 final size:131
Alignment explanation
Indices: 25917544--25917808 Score: 442
Period size: 131 Copynumber: 2.0 Consensus size: 131
25917534 CTCAAAAATT
*
25917544 GGATAAAAAATCTGATACAATGATGAAATTAAAGATAAATACTCTAATGTATTGAGGAAAAAGCT
1 GGATAAAAAATCTGATACAATGATGAAATTAAAGATAAATACTCTAATGTATTGAGGAAAAAACT
* * * *
25917609 CTCCCAAAGTATGTATTTCTTAGAAATATGTACAACTATATATACATGCAGCATTGAATTAATTA
66 CTCCCAAAGTATGTATTTCTTAGAAATATGTACAACAATATATACATGCAACATTGAATCAACTA
25917674 A
131 A
*
25917675 GGATAAAAAATCTGATATC-ATGATGAAATTAAAGATGAATACTCTAATGTATTGAGGAAAAAAC
1 GGATAAAAAATCTGATA-CAATGATGAAATTAAAGATAAATACTCTAATGTATTGAGGAAAAAAC
* *
25917739 TCTCTCAAAGTATGTATTTCTTAGAAATATGTACAACAATATATATATGCAACATTGAATCAACT
65 TCTCCCAAAGTATGTATTTCTTAGAAATATGTACAACAATATATACATGCAACATTGAATCAACT
25917804 AA
130 AA
25917806 GGA
1 GGA
25917809 AAGAATATCT
Statistics
Matches: 125, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
131 124 0.99
132 1 0.01
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.30
Consensus pattern (131 bp):
GGATAAAAAATCTGATACAATGATGAAATTAAAGATAAATACTCTAATGTATTGAGGAAAAAACT
CTCCCAAAGTATGTATTTCTTAGAAATATGTACAACAATATATACATGCAACATTGAATCAACTA
A
Found at i:25924153 original size:14 final size:14
Alignment explanation
Indices: 25924131--25924212 Score: 53
Period size: 14 Copynumber: 5.6 Consensus size: 14
25924121 TTTTATACTA
*
25924131 TAAAAATTTATTAT
1 TAAATATTTATTAT
*
25924145 TAAATATTTATAAATT
1 TAAATATTTAT-TA-T
25924161 GTAAAATAAATTTATTAT
1 -T-AAAT--ATTTATTAT
25924179 TAAATATTTA-TA-
1 TAAATATTTATTAT
*
25924191 TAAATATTT-TTAA
1 TAAATATTTATTAT
25924204 TAATATATT
1 TAA-ATATT
25924213 AAGAATATTA
Statistics
Matches: 56, Mismatches: 3, Indels: 18
0.73 0.04 0.23
Matches are distributed among these distances:
12 11 0.20
13 5 0.09
14 20 0.36
15 1 0.02
16 5 0.09
17 2 0.04
18 5 0.09
19 1 0.02
20 6 0.11
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (14 bp):
TAAATATTTATTAT
Found at i:25925361 original size:11 final size:11
Alignment explanation
Indices: 25925338--25925384 Score: 76
Period size: 11 Copynumber: 4.2 Consensus size: 11
25925328 AACAAATCCT
25925338 CTCTCATATTTC
1 CTCTCA-ATTTC
25925350 CTCTCAATTTC
1 CTCTCAATTTC
*
25925361 CTCTCAATTTT
1 CTCTCAATTTC
25925372 CTCTCAATTTC
1 CTCTCAATTTC
25925383 CT
1 CT
25925385 TCCAAAATTC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
11 27 0.82
12 6 0.18
ACGTcount: A:0.17, C:0.34, G:0.00, T:0.49
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:25925395 original size:22 final size:22
Alignment explanation
Indices: 25925350--25925396 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
25925340 CTCATATTTC
**
25925350 CTCTCAATTTCCTCTCAATTTT
1 CTCTCAATTTCCTCTCAAAATT
25925372 CTCTCAATTTCCT-TCCAAAATT
1 CTCTCAATTTCCTCT-CAAAATT
25925394 CTC
1 CTC
25925397 ATAAATCTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.21, C:0.34, G:0.00, T:0.45
Consensus pattern (22 bp):
CTCTCAATTTCCTCTCAAAATT
Found at i:25925421 original size:51 final size:51
Alignment explanation
Indices: 25925364--25925487 Score: 169
Period size: 51 Copynumber: 2.4 Consensus size: 51
25925354 CAATTTCCTC
* * * *
25925364 TCAATTTTCTCTCAATTTCCTTCCAAAATTCTCAT-AAATCTATATTTAATT
1 TCAATTTCCTCTCAATTTCCTTCCAAAAATCTC-TCAAACCCATATTTAATT
*
25925415 TCAATTTCCTCTCAATTTCATTCCAAAAATCTCTCAAACCCATATTTAATT
1 TCAATTTCCTCTCAATTTCCTTCCAAAAATCTCTCAAACCCATATTTAATT
* *
25925466 TTAATTTGCTCTCAATTTCCTT
1 TCAATTTCCTCTCAATTTCCTT
25925488 TTTAAAAATA
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 1 0.02
51 63 0.98
ACGTcount: A:0.30, C:0.24, G:0.01, T:0.45
Consensus pattern (51 bp):
TCAATTTCCTCTCAATTTCCTTCCAAAAATCTCTCAAACCCATATTTAATT
Found at i:25927304 original size:18 final size:18
Alignment explanation
Indices: 25927277--25927316 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
25927267 CAGGTGCGTT
*
25927277 TCCTATCCCTTACATGTA
1 TCCTAACCCTTACATGTA
*
25927295 TCCTAACCCTTATATGTA
1 TCCTAACCCTTACATGTA
25927313 TCCT
1 TCCT
25927317 TTTCCGAGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.33, G:0.05, T:0.40
Consensus pattern (18 bp):
TCCTAACCCTTACATGTA
Found at i:25927596 original size:21 final size:21
Alignment explanation
Indices: 25927572--25927620 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
25927562 AGATGCCGTA
* *
25927572 CCGGAAGAACCAGAATCC-CCG
1 CCGGAAGAACAACAA-CCACCG
*
25927593 CCGGAGGAACAACAACCACCG
1 CCGGAAGAACAACAACCACCG
25927614 CCGGAAG
1 CCGGAAG
25927621 CTAGAGAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.35, C:0.37, G:0.27, T:0.02
Consensus pattern (21 bp):
CCGGAAGAACAACAACCACCG
Found at i:25927770 original size:25 final size:25
Alignment explanation
Indices: 25927741--25927983 Score: 286
Period size: 25 Copynumber: 9.9 Consensus size: 25
25927731 TGAATATTTT
*
25927741 GAAGTTTGTTTGATGTAATAAAATA
1 GAAGTTTATTTGATGTAATAAAATA
* *
25927766 AAAGTTT-TATTGATGTAATAAAAATT
1 GAAGTTTAT-TTGATGTAAT-AAAATA
* ** *
25927792 GAA-TTTTTTTGA-GT--T-ATTTT
1 GAAGTTTATTTGATGTAATAAAATA
25927812 G-A-TATTATTTGATGTAATAAAATA
1 GAAGT-TTATTTGATGTAATAAAATA
*
25927836 GAAGTTTATTTGATGCAATAAAATA
1 GAAGTTTATTTGATGTAATAAAATA
*
25927861 CAAGTTTATTTGATGTAATAAAATA
1 GAAGTTTATTTGATGTAATAAAATA
*
25927886 GAAGTTTATTTGATGCAATAAAATA
1 GAAGTTTATTTGATGTAATAAAATA
*
25927911 CAAGTTTATTTGATGTAATAAAATA
1 GAAGTTTATTTGATGTAATAAAATA
*
25927936 GAAGTTTATATGATGTAATAAAATA
1 GAAGTTTATTTGATGTAATAAAATA
*
25927961 GAAGTTTATTTGATGTGATAAAA
1 GAAGTTTATTTGATGTAATAAAA
25927984 ATTAAAAACC
Statistics
Matches: 188, Mismatches: 20, Indels: 20
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.01
20 11 0.06
21 2 0.01
22 1 0.01
23 1 0.01
24 6 0.03
25 156 0.83
26 9 0.05
ACGTcount: A:0.42, C:0.02, G:0.15, T:0.41
Consensus pattern (25 bp):
GAAGTTTATTTGATGTAATAAAATA
Found at i:25928018 original size:23 final size:23
Alignment explanation
Indices: 25927988--25928089 Score: 147
Period size: 23 Copynumber: 4.5 Consensus size: 23
25927978 ATAAAAATTA
25927988 AAAACCCTAACCTAATTAAGTTG
1 AAAACCCTAACCTAATTAAGTTG
* *
25928011 AAAACCCTAACCCT-A--AACTTA
1 AAAACCCTAA-CCTAATTAAGTTG
*
25928032 AAAAACCTAACCTAATTAAGTTG
1 AAAACCCTAACCTAATTAAGTTG
25928055 AAAACCCTAACCTAATTAAGTTG
1 AAAACCCTAACCTAATTAAGTTG
25928078 AAAACCCTAACC
1 AAAACCCTAACC
25928090 CTAAACTTAA
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
20 3 0.04
21 14 0.20
23 49 0.71
24 3 0.04
ACGTcount: A:0.46, C:0.25, G:0.06, T:0.23
Consensus pattern (23 bp):
AAAACCCTAACCTAATTAAGTTG
Found at i:25928208 original size:25 final size:25
Alignment explanation
Indices: 25928161--25928208 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
25928151 GCTGGTTCTA
* *
25928161 ACAATTAATAATTTTATATAATTTG
1 ACAATTAATAAATTTATACAATTTG
25928186 ACAATTAATACAATTTAT-CAATT
1 ACAATTAATA-AATTTATACAATT
25928209 AATAATTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 14 0.70
26 6 0.30
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (25 bp):
ACAATTAATAAATTTATACAATTTG
Found at i:25931451 original size:124 final size:124
Alignment explanation
Indices: 25931241--25931586 Score: 520
Period size: 123 Copynumber: 2.8 Consensus size: 124
25931231 TAACAAAAGT
25931241 GCGTCC-CTGAGGGCGCGATTTTTACAAATTCTTCTCAAATAGCATCCTGCTAGAAGCGATTTTA
1 GCGTCCAC-GAGGGCGCGA-TTTTACAAATTCTTCTCAAATAGCATCCTGCTAGAAGCGATTTTA
* **
25931305 TACTATTTGCTCAGAAAGGTCAAAAAAAATTATTTCATCCATGCCCTACTGTAGCAATTCC
64 TACTATTTGCTCAGAAAGGTCAAAAAAAATTATTTCATCCATGACCTACTGTAGCAAGACC
* **
25931366 GCGTCCACGAGGGCGCGATTTTACAAATTATTCTCAAATAGCATCCTGCTAGAAGTAATTTTATA
1 GCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCCTGCTAGAAGCGATTTTATA
* * *
25931431 CTATTTGCTCAGAAACGTCAAAAAAAA-TATTTCATCCATGACCTACTGTTGCAAGAGC
66 CTATTTGCTCAGAAAGGTCAAAAAAAATTATTTCATCCATGACCTACTGTAGCAAGACC
* * * *
25931489 GCGTCCACGAGGGCACGATTTCA-AAATTTCTTCTCAAATAGCATCCTGCTATATGCGATTTTAT
1 GCGTCCACGAGGGCGCGATTTTACAAA-TTCTTCTCAAATAGCATCCTGCTAGAAGCGATTTTAT
25931553 ACTATTTGCTCAGAAAGGTC-AAAAAAATTATTTC
65 ACTATTTGCTCAGAAAGGTCAAAAAAAATTATTTC
25931587 TTCCTGAACC
Statistics
Matches: 201, Mismatches: 17, Indels: 8
0.89 0.08 0.04
Matches are distributed among these distances:
122 10 0.05
123 104 0.52
124 70 0.35
125 16 0.08
126 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.31
Consensus pattern (124 bp):
GCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCCTGCTAGAAGCGATTTTATA
CTATTTGCTCAGAAAGGTCAAAAAAAATTATTTCATCCATGACCTACTGTAGCAAGACC
Found at i:25932558 original size:75 final size:75
Alignment explanation
Indices: 25932467--25932996 Score: 569
Period size: 75 Copynumber: 7.1 Consensus size: 75
25932457 GATCGAGATA
* * *
25932467 TTAAATAAGCGGACCATAAAAATATCACCTGTGAACGTAGGTCAACGAGCTGTTAGAAAACCAAG
1 TTAAATCAGTGGACCATAAAAATATCAACTGTGAACGTAGGTCAACGAGCTGTTAGAAAACCAAG
25932532 GGTCGCGATC
66 GGTCGCGATC
* * * * *
25932542 TTAAATCAATGGACCATAAAAATATCAACTGTGAACATAGATCAGCGAGTTGTTAGAAAACCAAG
1 TTAAATCAGTGGACCATAAAAATATCAACTGTGAACGTAGGTCAACGAGCTGTTAGAAAACCAAG
*
25932607 GGTCGTGATC
66 GGTCGCGATC
** * * * * **
25932617 TTAAATCAGCAGACCGTAAAAATGTCAACTGTGAACATAGGTCAACGAGCTATTAGAAAACTGAG
1 TTAAATCAGTGGACCATAAAAATATCAACTGTGAACGTAGGTCAACGAGCTGTTAGAAAACCAAG
*
25932682 GGTCGTGATC
66 GGTCGCGATC
* * * * *
25932692 TTAAATCAGCGAACCATAAAAATATCAACTGTGAATGTAGGTCAATGAGTTGTTAGAAAACCAAG
1 TTAAATCAGTGGACCATAAAAATATCAACTGTGAACGTAGGTCAACGAGCTGTTAGAAAACCAAG
*
25932757 GGTCGCAATC
66 GGTCGCGATC
* * * * *
25932767 TTAAATTAGTGGACCATAAAAGTATCAACTGTGAATGTAGGTCAACGACCTGTTAGAAAATCGAA
1 TTAAATCAGTGGACCATAAAAATATCAACTGTGAACGTAGGTCAACGAGCTGTTAGAAAA-CCAA
* **
25932832 -GCTTACGATC
65 GGGTCGCGATC
* * * * * * * * **
25932842 TTAAATCAGTGAACCCTAAAAATATCAGCAGTGAACGTAGGTTAGCAAGCTATTAGAAAACTGAG
1 TTAAATCAGTGGACCATAAAAATATCAACTGTGAACGTAGGTCAACGAGCTGTTAGAAAACCAAG
25932907 GGTCGCGATC
66 GGTCGCGATC
* * * * * * * * *
25932917 TTAAATCAGTGGACCGTAAAAGTATCAGCTGGGAATGT-GGTCAGCGAGCTGTTAAAAAACCGAT
1 TTAAATCAGTGGACCATAAAAATATCAACTGTGAACGTAGGTCAACGAGCTGTTAGAAAACCAAG
*
25932981 GGTCGTGATC
66 GGTCGCGATC
25932991 TTAAAT
1 TTAAAT
25932997 TAACATACTG
Statistics
Matches: 378, Mismatches: 75, Indels: 5
0.83 0.16 0.01
Matches are distributed among these distances:
74 37 0.10
75 338 0.89
76 3 0.01
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (75 bp):
TTAAATCAGTGGACCATAAAAATATCAACTGTGAACGTAGGTCAACGAGCTGTTAGAAAACCAAG
GGTCGCGATC
Found at i:25932844 original size:225 final size:224
Alignment explanation
Indices: 25932445--25932999 Score: 659
Period size: 225 Copynumber: 2.5 Consensus size: 224
25932435 AGCAAATTGC
* * * * *
25932445 TAGAAAA-TCGAGGATCGAGATATTAAATAAGCGGACCATAAAAATATCACCTGTGAACGTAGGT
1 TAGAAAACT-GAGGGTCGAGATCTTAAATCAGCGGACCATAAAAATATCAACTGTGAATGTAGGT
*
25932509 CAACGAGCTGTTAGAAAACCAAGGGTCGCGATCTTAAATCAATGGACCATAAAAATATCAACTGT
65 CAACGAGCTGTTAGAAAACCAAGGGTCGCGATCTTAAATTAATGGACCATAAAAATATCAACTGT
* ** * *
25932574 GAACATAGATCAGCGAGTTGTTAGAAAACCAAGGGTCGTGATCTTAAATCAGCAG-ACCGTAAAA
130 GAACATAGATCAACGACCTGTTAGAAAACCAAGCGTCG-GATCTTAAATCAG-AGAACCCTAAAA
* * *
25932638 ATGTCAACTGTGAACATAGGTCAACGAGCTAT
193 ATATCAACAGTGAACATAGGTCAACAAGCTAT
* *
25932670 TAGAAAACTGAGGGTCGTGATCTTAAATCAGCGAACCATAAAAATATCAACTGTGAATGTAGGTC
1 TAGAAAACTGAGGGTCGAGATCTTAAATCAGCGGACCATAAAAATATCAACTGTGAATGTAGGTC
* * * * *
25932735 AATGAGTTGTTAGAAAACCAAGGGTCGCAATCTTAAATTAGTGGACCATAAAAGTATCAACTGTG
66 AACGAGCTGTTAGAAAACCAAGGGTCGCGATCTTAAATTAATGGACCATAAAAATATCAACTGTG
** * * * *
25932800 AATGTAGGTCAACGACCTGTTAGAAAATCGAAGCTTAC-GATCTTAAATCAGTGAACCCTAAAAA
131 AACATAGATCAACGACCTGTTAGAAAA-CCAAGCGT-CGGATCTTAAATCAGAGAACCCTAAAAA
* * * *
25932864 TATCAGCAGTGAACGTAGGTTAGCAAGCTAT
194 TATCAACAGTGAACATAGGTCAACAAGCTAT
* * * * * *
25932895 TAGAAAACTGAGGGTCGCGATCTTAAATCAGTGGACCGTAAAAGTATCAGCTGGGAATGT-GGTC
1 TAGAAAACTGAGGGTCGAGATCTTAAATCAGCGGACCATAAAAATATCAACTGTGAATGTAGGTC
* * * * *
25932959 AGCGAGCTGTTAAAAAACCGATGGTCGTGATCTTAAATTAA
66 AACGAGCTGTTAGAAAACCAAGGGTCGCGATCTTAAATTAA
25933000 CATACTGCAA
Statistics
Matches: 279, Mismatches: 47, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
224 37 0.13
225 235 0.84
226 6 0.02
227 1 0.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (224 bp):
TAGAAAACTGAGGGTCGAGATCTTAAATCAGCGGACCATAAAAATATCAACTGTGAATGTAGGTC
AACGAGCTGTTAGAAAACCAAGGGTCGCGATCTTAAATTAATGGACCATAAAAATATCAACTGTG
AACATAGATCAACGACCTGTTAGAAAACCAAGCGTCGGATCTTAAATCAGAGAACCCTAAAAATA
TCAACAGTGAACATAGGTCAACAAGCTAT
Found at i:25933149 original size:61 final size:61
Alignment explanation
Indices: 25932960--25933149 Score: 197
Period size: 61 Copynumber: 3.1 Consensus size: 61
25932950 AATGTGGTCA
* * * ** * * *
25932960 GCGAGCTGTTAAAAAACCGATGGTCGTGATCTTAAATTA-ACATACTGCAAAAATATCAACT
1 GCGAACTGTTAGAAAACCAATGGTCACGATCTTAAATCAGTCAGAC-GCAAAAATATCAACT
* * ** **
25933021 GCGAACTGTTAGAAAACCGATGGTCACGATTTTAAATCAGTGGGACGCAAAAATATCAGTT
1 GCGAACTGTTAGAAAACCAATGGTCACGATCTTAAATCAGTCAGACGCAAAAATATCAACT
25933082 GCGAACTGTTAGAAAACCAATGGTCACGATCTTAAATCAG-CAGAC-CATAAACATATCAACT
1 GCGAACTGTTAGAAAACCAATGGTCACGATCTTAAATCAGTCAGACGCA-AAA-ATATCAACT
*
25933143 GTGAACT
1 GCGAACT
25933150 TAGGTCAACG
Statistics
Matches: 107, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
59 2 0.02
60 6 0.06
61 97 0.91
62 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.24
Consensus pattern (61 bp):
GCGAACTGTTAGAAAACCAATGGTCACGATCTTAAATCAGTCAGACGCAAAAATATCAACT
Found at i:25958814 original size:37 final size:37
Alignment explanation
Indices: 25958754--25958839 Score: 113
Period size: 37 Copynumber: 2.3 Consensus size: 37
25958744 TATTCAAACT
*
25958754 AAAACACGCCAATCGCTCGTAAGAGCTAATCC-ACCTG
1 AAAACACGCCAATCGCTCATAAGAGCTAATCCAACC-G
* *
25958791 ATAACACGCCAGAT-GCTCATAAGAGCTAGTCCAACCG
1 AAAACACGCCA-ATCGCTCATAAGAGCTAATCCAACCG
25958828 AAAACACGCCAA
1 AAAACACGCCAA
25958840 AACAGGGAGT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
36 1 0.02
37 37 0.86
38 5 0.12
ACGTcount: A:0.38, C:0.31, G:0.16, T:0.14
Consensus pattern (37 bp):
AAAACACGCCAATCGCTCATAAGAGCTAATCCAACCG
Found at i:25961859 original size:21 final size:20
Alignment explanation
Indices: 25961833--25961879 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
25961823 ACATATATCC
* * *
25961833 TGATTTTATTTTATTCCAATT
1 TGATTTGATTTTAAT-CAAAT
25961854 TGATTTGATTTTAATCAAAT
1 TGATTTGATTTTAATCAAAT
25961874 TGATTT
1 TGATTT
25961880 AATTGCTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.28, C:0.06, G:0.09, T:0.57
Consensus pattern (20 bp):
TGATTTGATTTTAATCAAAT
Found at i:25962332 original size:30 final size:31
Alignment explanation
Indices: 25962298--25962359 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 31
25962288 CGTATCTAAT
25962298 ATTTAAATATAAAT-TATTTAATTTA-ATTTA
1 ATTTAAATATAAATAT-TTTAATTTATATTTA
* *
25962328 ATTTATATATAAATATTTTTATTTATATTTA
1 ATTTAAATATAAATATTTTAATTTATATTTA
25962359 A
1 A
25962360 ATATTTATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 21 0.75
31 7 0.25
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (31 bp):
ATTTAAATATAAATATTTTAATTTATATTTA
Found at i:25962353 original size:20 final size:20
Alignment explanation
Indices: 25962328--25962365 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
25962318 ATTTAATTTA
25962328 ATTTATATATAAATATTTTT
1 ATTTATATATAAATATTTTT
*
25962348 ATTTATATTTAAATATTT
1 ATTTATATATAAATATTT
25962366 ATTCGCTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTTATATATAAATATTTTT
Found at i:25964177 original size:15 final size:17
Alignment explanation
Indices: 25964136--25964172 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
25964126 TAAATTCTAA
25964136 TTTTAATTATCATAATT
1 TTTTAATTATCATAATT
25964153 TTTTAATTATCATAATT
1 TTTTAATTATCATAATT
25964170 TTT
1 TTT
25964173 CTTATATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTAATTATCATAATT
Found at i:25970888 original size:24 final size:24
Alignment explanation
Indices: 25970838--25970885 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
25970828 TATGGTGAAA
* * *
25970838 AAATATTTAATTAATAAATATATT
1 AAATATTTAATAAAAAAATAGATT
25970862 AAATATTTAGATAAAAAAATAGAT
1 AAATATTTA-ATAAAAAAATAGAT
25970886 AAAGCTTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATTTAATAAAAAAATAGATT
Found at i:25972742 original size:24 final size:24
Alignment explanation
Indices: 25972715--25972766 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
25972705 TTTCTAGAAG
* *
25972715 ATTTAGTATTTATGAATATAATAT
1 ATTTAGCATTTATGAACATAATAT
* *
25972739 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATGAACATAATAT
25972763 ATTT
1 ATTT
25972767 GAATTTGGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAACATAATAT
Found at i:25975274 original size:35 final size:35
Alignment explanation
Indices: 25975233--25975304 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
25975223 CTCTATCGCC
*
25975233 AAAAATAGATCTAGAAGAGAAATTAAACCTCCAAA
1 AAAAATAGAACTAGAAGAGAAATTAAACCTCCAAA
*
25975268 AAAAATAGAAGTAGAAGAGAAATTAAACCTCCAAA
1 AAAAATAGAACTAGAAGAGAAATTAAACCTCCAAA
25975303 AA
1 AA
25975305 GGTATGCCGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.60, C:0.12, G:0.12, T:0.15
Consensus pattern (35 bp):
AAAAATAGAACTAGAAGAGAAATTAAACCTCCAAA
Found at i:25978709 original size:43 final size:43
Alignment explanation
Indices: 25978661--25978807 Score: 167
Period size: 43 Copynumber: 3.5 Consensus size: 43
25978651 ATACCCAGAT
*
25978661 ATGGTCTTACATGTAATCTCATATCGATGCCAATAGCCTAGCC
1 ATGGTCTTACATGTAATCTCATATCGATGCCAATAGCCTAGAC
* * *
25978704 ATGGTCTTACATGAAATCACATATCGATGCCAAT-GTCCCAGAC
1 ATGGTCTTACATGTAATCTCATATCGATGCCAATAG-CCTAGAC
* * * * *
25978747 ATGGTCTTACACG-ATTCTCATATCGATGTC-ATA-TCTCAGAT
1 ATGGTCTTACATGTAATCTCATATCGATGCCAATAGCCT-AGAC
25978788 ATGGTCTTACATGTAATCTC
1 ATGGTCTTACATGTAATCTC
25978808 GGTAACCCTA
Statistics
Matches: 87, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
40 1 0.01
41 17 0.20
42 20 0.23
43 49 0.56
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.32
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCTCATATCGATGCCAATAGCCTAGAC
Found at i:25983696 original size:50 final size:50
Alignment explanation
Indices: 25983581--25983762 Score: 249
Period size: 50 Copynumber: 3.6 Consensus size: 50
25983571 GATAATAACA
* ** *
25983581 TGCCAAAGCCATGTCCCAGACATGGTCTTAC-ATGGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACGA-GGGA-CATCTCATCTCGG
* * *
25983632 TGCCCATGCCATGTCCTAGACATGGTCTTACGAGGGACATCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACGAGGGACATCTCATCTCGG
* *
25983682 TGCCAACGCCATGTCCCAGACATGGTCTTACGAAGGACATCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACGAGGGACATCTCATCTCGG
*
25983732 TGCCAACGCCATGTCCCAAACATGGTCTTAC
1 TGCCAACGCCATGTCCCAGACATGGTCTTAC
25983763 ATGGACCTCT
Statistics
Matches: 118, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
50 85 0.72
51 32 0.27
52 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACGAGGGACATCTCATCTCGG
Found at i:25994060 original size:58 final size:60
Alignment explanation
Indices: 25993998--25994197 Score: 172
Period size: 68 Copynumber: 3.2 Consensus size: 60
25993988 ATCACTTTAA
* * *
25993998 TATTAAATTAATATAATATTTA-T-CAAGATAAATATTAGATTAAATTTATTATTAAATC
1 TATTAAATTAATAGAATATTTACTACAAGATAAATATTAAATTAAATTTAATATTAAATC
* *
25994056 TATTAAATTAATAGAATATTTATCTACAATATAAATATTAAATTAAGTTTAATATTAAGATC
1 TATTAAATTAATAGAATATTTA-CTACAAGATAAATATTAAATTAAATTTAATATTAA-ATC
* ** * * *
25994118 ATCACTTTAATATTAA-ATTAATAAAATACTATAAAGATAAGTATTAAATTTAATTTAATATTAA
1 -T-A--TTAA-ATTAATA-GAAT-ATTTACTA-CAAGATAAATATTAAATTAAATTTAATATTAA
*
25994182 ATT
58 ATC
*
25994185 TATTAAAATAATA
1 TATTAAATTAATA
25994198 TTAATTTTGG
Statistics
Matches: 114, Mismatches: 15, Indels: 21
0.76 0.10 0.14
Matches are distributed among these distances:
58 21 0.18
60 1 0.01
61 28 0.25
62 7 0.06
63 6 0.05
64 1 0.01
65 1 0.01
66 6 0.05
67 13 0.11
68 30 0.26
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (60 bp):
TATTAAATTAATAGAATATTTACTACAAGATAAATATTAAATTAAATTTAATATTAAATC
Found at i:25994129 original size:61 final size:58
Alignment explanation
Indices: 25994002--25994121 Score: 143
Period size: 61 Copynumber: 2.0 Consensus size: 58
25993992 CTTTAATATT
* * * *
25994002 AAATTAATATAATATTTATCAAGATAAATATTAGATTAAATTTATTATTAAATCTATT
1 AAATTAATAGAATATTTATCAAGATAAATATTAAATTAAATTTAATATTAAATCTATC
* *
25994060 AAATTAATAGAATATTTATCTACAATATAAATATTAAATTAAGTTTAATATTAAGATC-ATC
1 AAATTAATAGAATATTTA--T-CAAGATAAATATTAAATTAAATTTAATATTAA-ATCTATC
25994121 A
1 A
25994122 CTTTAATATT
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
58 17 0.33
60 1 0.02
61 31 0.60
62 3 0.06
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (58 bp):
AAATTAATAGAATATTTATCAAGATAAATATTAAATTAAATTTAATATTAAATCTATC
Found at i:25994194 original size:17 final size:17
Alignment explanation
Indices: 25994159--25994191 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
25994149 TAAAGATAAG
*
25994159 TATTAAATTTAATTTAA
1 TATTAAATTTAATTAAA
25994176 TATTAAATTT-ATTAAA
1 TATTAAATTTAATTAAA
25994192 ATAATATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTAAATTTAATTAAA
Found at i:25994532 original size:19 final size:20
Alignment explanation
Indices: 25994491--25994537 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
25994481 ATCTCAATCT
* *
25994491 CAATTTTGGATTCTCGGGCC
1 CAATTTTCGATTCTCAGGCC
*
25994511 CAATTTTCGA-TCTCAGGTC
1 CAATTTTCGATTCTCAGGCC
25994530 CAATTTTC
1 CAATTTTC
25994538 AAGTTCAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.38
Consensus pattern (20 bp):
CAATTTTCGATTCTCAGGCC
Found at i:25997421 original size:73 final size:73
Alignment explanation
Indices: 25997302--25997458 Score: 278
Period size: 73 Copynumber: 2.2 Consensus size: 73
25997292 CATTTGAATA
*
25997302 CATCATCTCATGCAATGGCATGATTCATATCTTCGATCAATACTTGAATTCATTCAAGTTTCACA
1 CATCATCTCATGCAACGGCATGATTCATATCTTCGATCAATACTTGAATTCATTCAAGTTTCACA
25997367 TCTCAATT
66 TCTCAATT
* * *
25997375 CATCAACTCATGCAACGGTATGATTCATATCTTTGATCAATACTTGAATTCATTCAAGTTTCACA
1 CATCATCTCATGCAACGGCATGATTCATATCTTCGATCAATACTTGAATTCATTCAAGTTTCACA
25997440 TCTCAATT
66 TCTCAATT
25997448 CATCATCTCAT
1 CATCATCTCAT
25997459 ATCTTATTTC
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
73 79 1.00
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.37
Consensus pattern (73 bp):
CATCATCTCATGCAACGGCATGATTCATATCTTCGATCAATACTTGAATTCATTCAAGTTTCACA
TCTCAATT
Found at i:25998779 original size:15 final size:15
Alignment explanation
Indices: 25998759--25998791 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
25998749 TGTTTTCATT
*
25998759 TTATTATCTTTATTA
1 TTATTATCATTATTA
25998774 TTATTATCATTATTA
1 TTATTATCATTATTA
25998789 TTA
1 TTA
25998792 AAGTTACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (15 bp):
TTATTATCATTATTA
Found at i:26004720 original size:20 final size:21
Alignment explanation
Indices: 26004683--26004722 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
26004673 TGTTTAATTT
*
26004683 TTTTATTTTTAATTAATAAATA
1 TTTTATTTATAA-TAATAAATA
26004705 TTTTATTTATAA-AATAAA
1 TTTTATTTATAATAATAAA
26004723 ATAATAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
22 11 0.65
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTTATTTATAATAATAAATA
Found at i:26004898 original size:16 final size:18
Alignment explanation
Indices: 26004867--26004899 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
26004857 TGAAAATTAA
26004867 ATATTATACATAAAAATT
1 ATATTATACATAAAAATT
26004885 ATATT-TAC-TAAAAAT
1 ATATTATACATAAAAAT
26004900 AATGATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (18 bp):
ATATTATACATAAAAATT
Found at i:26007101 original size:25 final size:29
Alignment explanation
Indices: 26007072--26007130 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
26007062 CGTACATATA
26007072 TATTTT-TATATT-TTA-TAAT-TTTATT
1 TATTTTCTATATTGTTATTAATATTTATT
* *
26007097 TATTTTCTTTATTGTTATTATTATTTATT
1 TATTTTCTATATTGTTATTAATATTTATT
26007126 TATTT
1 TATTT
26007131 ATTTACGTGC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 6 0.21
26 5 0.18
27 3 0.11
28 3 0.11
29 11 0.39
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (29 bp):
TATTTTCTATATTGTTATTAATATTTATT
Found at i:26007761 original size:22 final size:22
Alignment explanation
Indices: 26007718--26007762 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
26007708 TCGTGGATCA
* *
26007718 AAATCATTGTTTTAATAAAACC
1 AAATCATTGTATTAAAAAAACC
26007740 AAATCATT-TATTAAAAACAACC
1 AAATCATTGTATTAAAAA-AACC
26007762 A
1 A
26007763 CTTTTTGAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.51, C:0.16, G:0.02, T:0.31
Consensus pattern (22 bp):
AAATCATTGTATTAAAAAAACC
Found at i:26009526 original size:44 final size:46
Alignment explanation
Indices: 26009472--26009562 Score: 132
Period size: 44 Copynumber: 2.0 Consensus size: 46
26009462 AAAATGGTTG
26009472 AACCAATTTATAAATTTTTAAAATAT-T-TTTTAAAAAAAGTATGC
1 AACCAATTTATAAATTTTTAAAATATATATTTTAAAAAAAGTATGC
* * **
26009516 AACCGATTTATACATTTTTAAAATATATATTTTTTAAAAAGTATGC
1 AACCAATTTATAAATTTTTAAAATATATATTTTAAAAAAAGTATGC
26009562 A
1 A
26009563 TTTTTATTTG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 24 0.59
45 1 0.02
46 16 0.39
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (46 bp):
AACCAATTTATAAATTTTTAAAATATATATTTTAAAAAAAGTATGC
Found at i:26013959 original size:3 final size:3
Alignment explanation
Indices: 26013953--26014049 Score: 53
Period size: 3 Copynumber: 32.0 Consensus size: 3
26013943 TCTTGTAAGC
*
26013953 TAA TAA TAA TAA -AA TAA TAA CTAA -ATC TAA TAA TAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA -TAA TA-A TAA TAA TAA TAA TAA TAA
* * *
26013997 TAAA TAA AAA TAA TGAA CCAA TTA -AA T-A TAA TAAA TATA TAA TAA
1 T-AA TAA TAA TAA T-AA -TAA TAA TAA TAA TAA T-AA TA-A TAA TAA
26014042 -AA TAA TAA
1 TAA TAA TAA
26014050 GAAAAAGAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 26
0.68 0.07 0.24
Matches are distributed among these distances:
2 10 0.14
3 46 0.63
4 17 0.23
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:26013970 original size:11 final size:11
Alignment explanation
Indices: 26013954--26014054 Score: 68
Period size: 11 Copynumber: 9.2 Consensus size: 11
26013944 CTTGTAAGCT
26013954 AATAATAATAA
1 AATAATAATAA
26013965 AATAATAACTAA
1 AATAATAA-TAA
*
26013977 ATCTAATAATAA
1 A-ATAATAATAA
*
26013989 TATAATAAT-A
1 AATAATAATAA
*
26013999 AATAA-AA-AT
1 AATAATAATAA
* *
26014008 AATGAACCAATTA
1 AAT-AA-TAATAA
26014021 AAT-ATAAT-A
1 AATAATAATAA
26014030 AATATATAATAA
1 AATA-ATAATAA
*
26014042 AATAATAAGAA
1 AATAATAATAA
26014053 AA
1 AA
26014055 AGAAATGGAA
Statistics
Matches: 71, Mismatches: 9, Indels: 20
0.71 0.09 0.20
Matches are distributed among these distances:
9 9 0.13
10 10 0.14
11 29 0.41
12 14 0.20
13 9 0.13
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (11 bp):
AATAATAATAA
Found at i:26014010 original size:27 final size:27
Alignment explanation
Indices: 26013953--26014049 Score: 88
Period size: 27 Copynumber: 3.4 Consensus size: 27
26013943 TCTTGTAAGC
* **
26013953 TAATAATAATAAAATAATAACTAAATC
1 TAATAATAATAAAATAATAAATAAAAA
*
26013980 TAATAATAATATAATAATAAATAAAAA
1 TAATAATAATAAAATAATAAATAAAAA
* *
26014007 TAATGAACCAATTAAATATAATAAATATATAA
1 TAAT-AA-TAA-TAAA-ATAATAAATA-AAAA
26014039 TAA-AATAATAA
1 TAATAATAATAA
26014050 GAAAAAGAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
27 27 0.47
28 5 0.09
29 4 0.07
30 5 0.09
31 10 0.18
32 6 0.11
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.30
Consensus pattern (27 bp):
TAATAATAATAAAATAATAAATAAAAA
Found at i:26015062 original size:23 final size:21
Alignment explanation
Indices: 26015028--26015077 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
26015018 GTATAGACCC
26015028 TTTTTT-AT-TTTTGCAAATTT
1 TTTTTTAATGTTTTGC-AATTT
*
26015048 TTTTCTTAATGTTTTTCAATTT
1 TTTT-TTAATGTTTTGCAATTT
26015070 TTTTTTAA
1 TTTTTTAA
26015078 ATAACATGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 4 0.15
21 6 0.23
22 11 0.42
23 5 0.19
ACGTcount: A:0.20, C:0.06, G:0.04, T:0.70
Consensus pattern (21 bp):
TTTTTTAATGTTTTGCAATTT
Found at i:26020571 original size:55 final size:55
Alignment explanation
Indices: 26020487--26020599 Score: 217
Period size: 55 Copynumber: 2.1 Consensus size: 55
26020477 TTCACAGTCA
26020487 TAGTAATCCTCCTGTCAACAAAGATTAAATCTAACTCTAGCATCTTGATTGCAAC
1 TAGTAATCCTCCTGTCAACAAAGATTAAATCTAACTCTAGCATCTTGATTGCAAC
*
26020542 TAGTAATCCTCCTGTCAACAGAGATTAAATCTAACTCTAGCATCTTGATTGCAAC
1 TAGTAATCCTCCTGTCAACAAAGATTAAATCTAACTCTAGCATCTTGATTGCAAC
26020597 TAG
1 TAG
26020600 GTGAGGAAAT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.34, C:0.23, G:0.12, T:0.31
Consensus pattern (55 bp):
TAGTAATCCTCCTGTCAACAAAGATTAAATCTAACTCTAGCATCTTGATTGCAAC
Found at i:26023111 original size:22 final size:22
Alignment explanation
Indices: 26023086--26023130 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
26023076 GCTTGTACGG
* *
26023086 GTTTAGCACTTCAGTGCTCTCT
1 GTTTAGAACTACAGTGCTCTCT
26023108 GTTTAGAACTACAGTGCTCTCT
1 GTTTAGAACTACAGTGCTCTCT
26023130 G
1 G
26023131 GTATGGTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (22 bp):
GTTTAGAACTACAGTGCTCTCT
Found at i:26024477 original size:19 final size:19
Alignment explanation
Indices: 26024429--26024477 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
26024419 TTTGTAAATG
26024429 TATCAAAATTAAAAGAAAC
1 TATCAAAATTAAAAGAAAC
* *
26024448 TTTAGAAAATTAAAAGAATA-
1 TAT-CAAAATTAAAAGAA-AC
26024468 TATCAAAATT
1 TATCAAAATT
26024478 TTGAAATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
19 8 0.33
20 15 0.62
21 1 0.04
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (19 bp):
TATCAAAATTAAAAGAAAC
Found at i:26026210 original size:53 final size:54
Alignment explanation
Indices: 26026153--26026261 Score: 166
Period size: 53 Copynumber: 2.0 Consensus size: 54
26026143 AAAAAAATAT
* *
26026153 TATTATTACTTATCAAAAAATAAATAGT-AAAAGACATGAAATTACCATTTAAA
1 TATTATTACTTATCAAAAAATAAACAGTAAAAAAACATGAAATTACCATTTAAA
* * *
26026206 TATTATTACTTATCAAAAAATGAACATTAAAAAAATATGAAATTACCATTTAAA
1 TATTATTACTTATCAAAAAATAAACAGTAAAAAAACATGAAATTACCATTTAAA
26026260 TA
1 TA
26026262 GTTAATTTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
53 25 0.50
54 25 0.50
ACGTcount: A:0.53, C:0.09, G:0.05, T:0.33
Consensus pattern (54 bp):
TATTATTACTTATCAAAAAATAAACAGTAAAAAAACATGAAATTACCATTTAAA
Found at i:26027609 original size:22 final size:21
Alignment explanation
Indices: 26027584--26027648 Score: 51
Period size: 22 Copynumber: 2.9 Consensus size: 21
26027574 ATTCAAGACA
26027584 AATTAGTTACATATGCAGAAAC
1 AATTAGTT-CATATGCAGAAAC
*
26027606 AATTTTAGTTTCATATACAG-AAC
1 AA--TTAG-TTCATATGCAGAAAC
*
26027629 AGATTAAATTCATATGCAGA
1 A-ATT-AGTTCATATGCAGA
26027649 TTTTCCTAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 11
0.71 0.06 0.23
Matches are distributed among these distances:
22 14 0.41
23 5 0.15
24 13 0.38
25 2 0.06
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.32
Consensus pattern (21 bp):
AATTAGTTCATATGCAGAAAC
Found at i:26028265 original size:63 final size:63
Alignment explanation
Indices: 26028194--26028328 Score: 171
Period size: 63 Copynumber: 2.1 Consensus size: 63
26028184 GGGCACGCTT
* * * *
26028194 CCATGTCCTCTGTCAATGTGGTTCTAAAACATAAATAGAAAGTTACACAGCTTGGGCACACAC
1 CCATGTCCTCTGCCAATGTGGTTCTAAAACATAAACAGAAAGTTACACAGCCTGGACACACAC
** * * * *
26028257 CCATGTCCTCTGCCTGTGTGGTTCTAAAACGTAAACAGAGAGTTACACGGCCTGGACACACGC
1 CCATGTCCTCTGCCAATGTGGTTCTAAAACATAAACAGAAAGTTACACAGCCTGGACACACAC
*
26028320 CCGTGTCCT
1 CCATGTCCT
26028329 TGCTCGAGTG
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (63 bp):
CCATGTCCTCTGCCAATGTGGTTCTAAAACATAAACAGAAAGTTACACAGCCTGGACACACAC
Found at i:26031265 original size:13 final size:14
Alignment explanation
Indices: 26031247--26031281 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
26031237 ACTTTTTGTA
26031247 TTTTTAAATAATGT
1 TTTTTAAATAATGT
26031261 TTTTATAAATAAT-T
1 TTTT-TAAATAATGT
26031275 TTTTTAA
1 TTTTTAA
26031282 TCATTATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 3 0.15
14 9 0.45
15 8 0.40
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (14 bp):
TTTTTAAATAATGT
Found at i:26031271 original size:15 final size:15
Alignment explanation
Indices: 26031247--26031280 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
26031237 ACTTTTTGTA
26031247 TTTT-TAAATAATGT
1 TTTTATAAATAATGT
*
26031261 TTTTATAAATAATTT
1 TTTTATAAATAATGT
26031276 TTTTA
1 TTTTA
26031281 ATCATTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
TTTTATAAATAATGT
Found at i:26032625 original size:98 final size:98
Alignment explanation
Indices: 26032451--26032641 Score: 346
Period size: 98 Copynumber: 1.9 Consensus size: 98
26032441 GTACAATAAA
* *
26032451 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAAAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
26032516 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
26032549 ACTTTAAAAAAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAAAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
26032614 CCTTTAAAATCCCAAACTCGGAATATTT
66 CCTCTAAAATCCCAAACTCGGAATATTT
26032642 NNNNNNNNNN
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 89 1.00
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.27
Consensus pattern (98 bp):
ACTTTAAAAAAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:26033369 original size:26 final size:24
Alignment explanation
Indices: 26033327--26033375 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
26033317 GAATAAATAT
*
26033327 GAAAATATTCTTTAAAAAATATAG
1 GAAAATATTCTTAAAAAAATATAG
26033351 GAAAATATTCGTTAAAAAAAATATA
1 GAAAATATTC-TT-AAAAAAATATA
26033376 CATGTACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.45
25 2 0.09
26 10 0.45
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.31
Consensus pattern (24 bp):
GAAAATATTCTTAAAAAAATATAG
Found at i:26034168 original size:19 final size:19
Alignment explanation
Indices: 26034144--26034237 Score: 134
Period size: 19 Copynumber: 4.8 Consensus size: 19
26034134 AATCATATAT
26034144 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
26034163 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
26034182 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
**
26034203 TCTTGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
26034222 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
26034238 CTCAAAAATT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
19 48 0.74
21 17 0.26
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:26034218 original size:40 final size:40
Alignment explanation
Indices: 26034121--26034236 Score: 137
Period size: 40 Copynumber: 2.9 Consensus size: 40
26034111 AAATTAAATC
*
26034121 TCTAAGATTACAAAATCATATATTCTAAGATTGC--ATATCATA
1 TCTAAGATTAC-ATATC--ATA-TCTAAGATTGCATATATCATA
*
26034163 TCTAAGATTATATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTACATATCATATCTAAGATTGCATATATCATA
** *
26034203 TCTTGGATTGCATATCATATCTAAGATTGCATAT
1 TCTAAGATTACATATCATATCTAAGATTGCATAT
26034237 CCTCAAAAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
38 11 0.17
39 3 0.05
40 38 0.58
41 4 0.06
42 10 0.15
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (40 bp):
TCTAAGATTACATATCATATCTAAGATTGCATATATCATA
Found at i:26038976 original size:21 final size:20
Alignment explanation
Indices: 26038946--26038994 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
26038936 TTCTAGATTC
* *
26038946 TATATATATTTGAATTTTATA
1 TATATTTATTTCAATTTT-TA
*
26038967 TATATTTATTTCTATTTTTA
1 TATATTTATTTCAATTTTTA
*
26038987 TATTTTTA
1 TATATTTA
26038995 ATGTATATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (20 bp):
TATATTTATTTCAATTTTTA
Found at i:26046546 original size:315 final size:315
Alignment explanation
Indices: 26045968--26046551 Score: 902
Period size: 315 Copynumber: 1.9 Consensus size: 315
26045958 TGATTTTTCT
* *
26045968 CAAAGGTTAGTTGATTTAAGATCACAACTTATTCATCTTTGAGTTAGCTGATTTAATATCGCAAC
1 CAAAGGTTAGTTGATTTAAGATCACAACCTATTCATCTTTGAGTTAGCTGATTTAAGATCGCAAC
* ** * * *
26046033 TTCTAAATTGCTCGATGACCTACGTTCACGGTCGAATTTACAAAGGTTAGATGATTTAAGATTGC
66 TCCTAAACAGCTCGATGACCCACGTTCACAGTCGAATTTACAAAGGTTAGATGATTTAAGATCGC
* * * * * *
26046098 AACCTATTCATCTTTGAGTTAGCTGATTTAAGATCGCAACTTCTAAACAACTCGATGACCTATGT
131 AACCTATCCATATTTGAGTTAGCTGATTTAAGATCACAACTCCTAAACAACTCGATAACCTACGT
* * * * *
26046163 TTACGGTTGATTTTACAAAGGTTAGTTGATTTAATATCGTAACATATTCATATTTGAGTTAGCTG
196 TCACGATTGATTTTACAAAGGTTAGTTGATTTAATATCGCAACATATCCATATTTGAGTTAACTG
26046228 ATTTAAGATCGCAAATCCTAAATAGCTCGACGACCTATGTTCACGGTTGATTTTA
261 ATTTAAGATCGCAAATCCTAAATAGCTCGACGACCTATGTTCACGGTTGATTTTA
* *
26046283 CAAAGGTTAGTTGATTTAAGATCGCAACCTATTCATCTTTGAGTTAGCTGATTTAAGATCGCAGC
1 CAAAGGTTAGTTGATTTAAGATCACAACCTATTCATCTTTGAGTTAGCTGATTTAAGATCGCAAC
* *
26046348 TCCTAAACAGCTCGATGACCCACGTTCACAG-CTAATCTTACAAAGGTTAGTTGATTTAAGATCG
66 TCCTAAACAGCTCGATGACCCACGTTCACAGTCGAAT-TTACAAAGGTTAGATGATTTAAGATCG
* *
26046412 CAACCTATCCATATTTGAGTTAGTTGATTTAAGATCACAGCTCCTAAACAACTCGATAACCTACG
130 CAACCTATCCATATTTGAGTTAGCTGATTTAAGATCACAACTCCTAAACAACTCGATAACCTACG
*
26046477 TTCACGATTGATTTTACAAAGGTTAGTTGATTTAATATCGCAACCTATCCAT-TTCTGAGTTAAC
195 TTCACGATTGATTTTACAAAGGTTAGTTGATTTAATATCGCAACATATCCATATT-TGAGTTAAC
26046541 TGATTTAAGAT
259 TGATTTAAGAT
26046552 TGCGACTTTT
Statistics
Matches: 241, Mismatches: 26, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
314 6 0.02
315 235 0.98
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (315 bp):
CAAAGGTTAGTTGATTTAAGATCACAACCTATTCATCTTTGAGTTAGCTGATTTAAGATCGCAAC
TCCTAAACAGCTCGATGACCCACGTTCACAGTCGAATTTACAAAGGTTAGATGATTTAAGATCGC
AACCTATCCATATTTGAGTTAGCTGATTTAAGATCACAACTCCTAAACAACTCGATAACCTACGT
TCACGATTGATTTTACAAAGGTTAGTTGATTTAATATCGCAACATATCCATATTTGAGTTAACTG
ATTTAAGATCGCAAATCCTAAATAGCTCGACGACCTATGTTCACGGTTGATTTTA
Done.