Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 24 of 120
Found at i:2704453 original size:26 final size:26
Alignment explanation
Indices: 2704417--2704469 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
2704407 GTTGACTTAG
*
2704417 GCATACAGAGTTCATTCTCAGTCTAA
1 GCATACAGAGTTCATTCCCAGTCTAA
*
2704443 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACAGAGTTCATTCCCAGTCTAA
2704469 G
1 G
2704470 ATCGAACCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (26 bp):
GCATACAGAGTTCATTCCCAGTCTAA
Found at i:2704993 original size:45 final size:45
Alignment explanation
Indices: 2704923--2705038 Score: 124
Period size: 45 Copynumber: 2.6 Consensus size: 45
2704913 ATGTGCTAAG
* * *
2704923 GGTGGTCGAGGCAACCACCCGCACCATGACCCAACATGTGCCGAT
1 GGTGGTCGAGGCAATCACCCACACCAGGACCCAACATGTGCCGAT
* * * ** * * *
2704968 GGTGTTCGATGCAATCGCCCACACCAGGGGCCATCTTGTGGCGAT
1 GGTGGTCGAGGCAATCACCCACACCAGGACCCAACATGTGCCGAT
*
2705013 GGTGGTCGAGGCAATCACCCGCACCA
1 GGTGGTCGAGGCAATCACCCACACCA
2705039 AGGGTTGGCA
Statistics
Matches: 56, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
45 56 1.00
ACGTcount: A:0.22, C:0.33, G:0.29, T:0.16
Consensus pattern (45 bp):
GGTGGTCGAGGCAATCACCCACACCAGGACCCAACATGTGCCGAT
Found at i:2705177 original size:13 final size:13
Alignment explanation
Indices: 2705159--2705183 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2705149 ATGGTCGATG
2705159 CATGTGCCATCAC
1 CATGTGCCATCAC
2705172 CATGTGCCATCA
1 CATGTGCCATCA
2705184 TGTGCCATTG
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:0.36, G:0.16, T:0.24
Consensus pattern (13 bp):
CATGTGCCATCAC
Found at i:2706463 original size:26 final size:26
Alignment explanation
Indices: 2706413--2706465 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
2706403 GTTGACTTAG
*
2706413 GCATACAGAGTTCATCCCTAGTCTAA
1 GCATACAGAGTTCATCCCTAATCTAA
2706439 GCATACAGAGTTCATTCCC-AATCTAA
1 GCATACAGAGTTCA-TCCCTAATCTAA
2706465 G
1 G
2706466 ATCAGACCGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (26 bp):
GCATACAGAGTTCATCCCTAATCTAA
Found at i:2706785 original size:144 final size:144
Alignment explanation
Indices: 2706524--2706788 Score: 363
Period size: 144 Copynumber: 1.8 Consensus size: 144
2706514 TAGCACGCAG
* * * * * *
2706524 GGGGGATCGGGCTGATCCTCGGCTTGTGCATTCTACCTCTCCGGTCGGTTGAGCGCCCGCACGCT
1 GGGGGATCGGGCTGATCCTCGGCTTGCGCATTATACCTCTCCAGCCGGCTCAGCGCCCGCACGCT
* * *
2706589 CCTTTCGTGGGTTGGCTTTGGCATACGGAGTTCATTCCATGTCTAAGCCCCAGTCAGACCGATGG
66 CCTTTCGTGGGTTGACTTAGACATACGGAGTTCATTCCATGTCTAAGCCCCAGTCAGACCGATGG
2706654 TTGTGGCATGCAAA
131 TTGTGGCATGCAAA
* * * *
2706668 GGGGGATCGGG-TCGATCCTCGGCTTGCGCATTATGCCTCTCCAGCCTGCTCAGTGCCCGTACGC
1 GGGGGATCGGGCT-GATCCTCGGCTTGCGCATTATACCTCTCCAGCCGGCTCAGCGCCCGCACGC
* *
2706732 TCGTTTCGTGGGTTGACTTAGACATACGGAGTTCATTCC-TGGTCTAAGGCCCAGTCA
65 TCCTTTCGTGGGTTGACTTAGACATACGGAGTTCATTCCAT-GTCTAAGCCCCAGTCA
2706789 AACTGAGGCA
Statistics
Matches: 104, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
143 2 0.02
144 102 0.98
ACGTcount: A:0.15, C:0.28, G:0.30, T:0.27
Consensus pattern (144 bp):
GGGGGATCGGGCTGATCCTCGGCTTGCGCATTATACCTCTCCAGCCGGCTCAGCGCCCGCACGCT
CCTTTCGTGGGTTGACTTAGACATACGGAGTTCATTCCATGTCTAAGCCCCAGTCAGACCGATGG
TTGTGGCATGCAAA
Found at i:2707212 original size:45 final size:45
Alignment explanation
Indices: 2707087--2707232 Score: 157
Period size: 45 Copynumber: 3.2 Consensus size: 45
2707077 GGGCTCGGCA
* * * * * *
2707087 TGTGCTGATGGTGGTCAAGGCAACCGCCCGCACCACGACCCAGCA
1 TGTGCCGATGGTGGTCGAGGCAACCGCCCGCACCAGGGCCCAACT
* * * * * *
2707132 TGTGTCGATGGTGTTCGATGCAACCGCCAGCACCAGGGGCCATCT
1 TGTGCCGATGGTGGTCGAGGCAACCGCCCGCACCAGGGCCCAACT
* *
2707177 TATGCCGATGGTGGTCGAGGCAACCGCCCTCACCAGGGCCCAACT
1 TGTGCCGATGGTGGTCGAGGCAACCGCCCGCACCAGGGCCCAACT
*
2707222 TGTGCCTATGG
1 TGTGCCGATGG
2707233 CAATCAACGT
Statistics
Matches: 80, Mismatches: 21, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
45 80 1.00
ACGTcount: A:0.19, C:0.32, G:0.30, T:0.18
Consensus pattern (45 bp):
TGTGCCGATGGTGGTCGAGGCAACCGCCCGCACCAGGGCCCAACT
Found at i:2708741 original size:45 final size:45
Alignment explanation
Indices: 2708668--2708812 Score: 148
Period size: 45 Copynumber: 3.2 Consensus size: 45
2708658 GACATATGCT
* * * ** * *
2708668 GATGGTGGTTGAGGCAACCTCCTGCACCATGGCCCAGCATGTGCC
1 GATGGTGGTCGAGACAACCACCAACACCAGGGCCCAGCTTGTGCC
* * * *
2708713 GATGGTGTTCGATG-CAACCGCCAACACCAGGGGCCATCTTGTGCC
1 GATGGTGGTCGA-GACAACCACCAACACCAGGGCCCAGCTTGTGCC
**
2708758 GATGGTGGTCGAGACAACCACCCTCACCAGGGCCCAGCTTGTGCC
1 GATGGTGGTCGAGACAACCACCAACACCAGGGCCCAGCTTGTGCC
*
2708803 AATGGTGGTC
1 GATGGTGGTC
2708813 AACACAAGTG
Statistics
Matches: 82, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
44 1 0.01
45 80 0.98
46 1 0.01
ACGTcount: A:0.19, C:0.31, G:0.30, T:0.19
Consensus pattern (45 bp):
GATGGTGGTCGAGACAACCACCAACACCAGGGCCCAGCTTGTGCC
Found at i:2710148 original size:26 final size:26
Alignment explanation
Indices: 2710112--2710164 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
2710102 GTTGACTTAG
2710112 GCATACAGAGTCCATTCCCAGTCTAA
1 GCATACAGAGTCCATTCCCAGTCTAA
* *
2710138 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACAGAGTCCATTCCCAGTCTAA
2710164 G
1 G
2710165 ATCAGACCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (26 bp):
GCATACAGAGTCCATTCCCAGTCTAA
Found at i:2710674 original size:45 final size:45
Alignment explanation
Indices: 2710602--2710689 Score: 115
Period size: 45 Copynumber: 2.0 Consensus size: 45
2710592 TCGGGGCTTC
*
2710602 GCATGTGCCGATGGTGGTCGAGACAACCGCCCGCACCACGGCCCA
1 GCATGTGCCAATGGTGGTCGAGACAACCGCCCGCACCACGGCCCA
* * * *
2710647 GCATGTGTCAATGGTGTTCGATG-CAACCTCCCGCACCAGGGCC
1 GCATGTGCCAATGGTGGTCGA-GACAACCGCCCGCACCACGGCC
2710690 TGGCTTGTGC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
45 36 0.97
46 1 0.03
ACGTcount: A:0.19, C:0.35, G:0.30, T:0.16
Consensus pattern (45 bp):
GCATGTGCCAATGGTGGTCGAGACAACCGCCCGCACCACGGCCCA
Found at i:2711684 original size:26 final size:26
Alignment explanation
Indices: 2711646--2711698 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
2711636 GTTGACTTAG
2711646 GCATACAGAGTTCATCCCCAATCTAA
1 GCATACAGAGTTCATCCCCAATCTAA
* * * *
2711672 GCATACGGGGTTCATTCCCAGTCTAA
1 GCATACAGAGTTCATCCCCAATCTAA
2711698 G
1 G
2711699 ATCGGACAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (26 bp):
GCATACAGAGTTCATCCCCAATCTAA
Found at i:2712033 original size:26 final size:26
Alignment explanation
Indices: 2711997--2712049 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
2711987 GTTGACTTAG
2711997 GCATACGAAGTTCATTCCCAATCTAA
1 GCATACGAAGTTCATTCCCAATCTAA
* *
2712023 GCATACGAAGTTCATTCCTAGTCTAA
1 GCATACGAAGTTCATTCCCAATCTAA
2712049 G
1 G
2712050 ATCAGATTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (26 bp):
GCATACGAAGTTCATTCCCAATCTAA
Found at i:2712500 original size:45 final size:45
Alignment explanation
Indices: 2712424--2712629 Score: 180
Period size: 45 Copynumber: 4.6 Consensus size: 45
2712414 CCGAGGCTCG
* *
2712424 ACATGTGCCAATGGTGGTCGAGGCAATCACCCGTACCATA-GCCCA
1 ACATGTGCCGATGGTGGTCGAGGCAACCACCCGTACCA-AGGCCCA
* * *
2712469 ACATGTGCCGATGGTGTTCGATGCAACCACCCGTACCAAGGGCCA
1 ACATGTGCCGATGGTGGTCGAGGCAACCACCCGTACCAAGGCCCA
* * ** * * * **
2712514 TCTTGTGCCGATGGTGGTCGAGGCAGTCGCCCGCACCAAGGGCTG
1 ACATGTGCCGATGGTGGTCGAGGCAACCACCCGTACCAAGGCCCA
* * * * * ** *
2712559 GCATGTGCCAATGGTGATTGAGGCAACTACCCACACCAGGGCCCA
1 ACATGTGCCGATGGTGGTCGAGGCAACCACCCGTACCAAGGCCCA
* *
2712604 GCTTGTGCCGATGGTGGTCGAGGCAA
1 ACATGTGCCGATGGTGGTCGAGGCAA
2712630 GTGCCCGTAC
Statistics
Matches: 127, Mismatches: 33, Indels: 2
0.78 0.20 0.01
Matches are distributed among these distances:
44 1 0.01
45 126 0.99
ACGTcount: A:0.22, C:0.29, G:0.31, T:0.18
Consensus pattern (45 bp):
ACATGTGCCGATGGTGGTCGAGGCAACCACCCGTACCAAGGCCCA
Found at i:2712658 original size:90 final size:91
Alignment explanation
Indices: 2712427--2712661 Score: 257
Period size: 90 Copynumber: 2.6 Consensus size: 91
2712417 AGGCTCGACA
* * * ** * * *
2712427 TGTGCCAATGGTGGTCGAGGCAA-TCACCCGTACCATAGCCCAACATGTGCCGATGGTGTTCGAT
1 TGTGCCGATGGTGGTCGAGGCAAGTCGCCCGTACCAAAGGGCAGCATGTGCCAATGGTGTTCGAG
** *
2712491 GCAACCACCCGTACCAAGGGCCATCT
66 GCAACCACCCACACCAAGGGCCAGCT
* *
2712517 TGTGCCGATGGTGGTCGAGGC-AGTCGCCCGCACC-AAGGGCTGGCATGTGCCAATGGTGATT-G
1 TGTGCCGATGGTGGTCGAGGCAAGTCGCCCGTACCAAAGGGC-AGCATGTGCCAATGGTG-TTCG
*
2712579 AGGCAACTACCCACACC-AGGGCCCAGCT
64 AGGCAACCACCCACACCAAGGG-CCAGCT
* *
2712607 TGTGCCGATGGTGGTCGAGGCAAGT-GCCCGTACCAAAGGGCAGCCTATGCCAATG
1 TGTGCCGATGGTGGTCGAGGCAAGTCGCCCGTACCAAAGGGCAGCATGTGCCAATG
2712662 ATGGCGATGC
Statistics
Matches: 121, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
89 8 0.07
90 102 0.84
91 11 0.09
ACGTcount: A:0.22, C:0.29, G:0.31, T:0.18
Consensus pattern (91 bp):
TGTGCCGATGGTGGTCGAGGCAAGTCGCCCGTACCAAAGGGCAGCATGTGCCAATGGTGTTCGAG
GCAACCACCCACACCAAGGGCCAGCT
Found at i:2713607 original size:26 final size:26
Alignment explanation
Indices: 2713570--2713622 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
2713560 GTTGACTTAG
*
2713570 GCATACGGAGTTCATACCCAGTCTAA
1 GCATACGAAGTTCATACCCAGTCTAA
*
2713596 GCATACGAAGTTCATTCCCAGTCTAA
1 GCATACGAAGTTCATACCCAGTCTAA
2713622 G
1 G
2713623 ATCGAATTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (26 bp):
GCATACGAAGTTCATACCCAGTCTAA
Found at i:2713945 original size:26 final size:26
Alignment explanation
Indices: 2713915--2713965 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
2713905 TTGACTTAGG
2713915 CATACAGAGTTCATT-CTCAGTCTAAA
1 CATACAGAGTTCATTCCT-AGTCTAAA
*
2713941 CATACGGAGTTCATTCCTAGTCTAA
1 CATACAGAGTTCATTCCTAGTCTAA
2713966 GATTGGATCG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 21 0.91
27 2 0.09
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (26 bp):
CATACAGAGTTCATTCCTAGTCTAAA
Found at i:2714565 original size:45 final size:45
Alignment explanation
Indices: 2714409--2714566 Score: 131
Period size: 45 Copynumber: 3.5 Consensus size: 45
2714399 AGGCTCGGTA
* * ** * *
2714409 TGTGCCGATGGTGGTTGAGGCAACC-GTTCGCACCACGGCCCAGCA
1 TGTGCCGATGGTGATCGAGGCAACCACCT-GCACCAGGGCCCAGCT
* * * * * **
2714454 TGTGCCGATGGTGTTCGATGTAACCGCCTGTACCAGAGG-CCTTCT
1 TGTGCCGATGGTGATCGAGGCAACCACCTGCACCAG-GGCCCAGCT
* * *
2714499 TGTGTCGATGGTGGTCAAGGCAACCACCTGCACCAGGGCCCAGCT
1 TGTGCCGATGGTGATCGAGGCAACCACCTGCACCAGGGCCCAGCT
*
2714544 TGTGCCGATGGCGATCGAGGCAA
1 TGTGCCGATGGTGATCGAGGCAA
2714567 GTGCCCGTAC
Statistics
Matches: 86, Mismatches: 24, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
44 2 0.02
45 81 0.94
46 3 0.03
ACGTcount: A:0.18, C:0.28, G:0.32, T:0.21
Consensus pattern (45 bp):
TGTGCCGATGGTGATCGAGGCAACCACCTGCACCAGGGCCCAGCT
Found at i:2715537 original size:26 final size:26
Alignment explanation
Indices: 2715501--2715553 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
2715491 GTTGACTTAG
*
2715501 GCATACGGAGTTTATCCCCAGTCTAA
1 GCATACGGAGTTCATCCCCAGTCTAA
*
2715527 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATCCCCAGTCTAA
2715553 G
1 G
2715554 ATCAGACCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (26 bp):
GCATACGGAGTTCATCCCCAGTCTAA
Found at i:2715892 original size:26 final size:26
Alignment explanation
Indices: 2715852--2715907 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
2715842 TGGGTTGACT
* *
2715852 TAAGCATACGGAGTTCATTCCTAGTC
1 TAAGCATACGAAGTTCATTCCCAGTC
2715878 TAAGCATACGAAGTTCATTCCCAGTC
1 TAAGCATACGAAGTTCATTCCCAGTC
2715904 TAAG
1 TAAG
2715908 ATCGGACTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (26 bp):
TAAGCATACGAAGTTCATTCCCAGTC
Found at i:2716420 original size:45 final size:45
Alignment explanation
Indices: 2716348--2716552 Score: 205
Period size: 45 Copynumber: 4.6 Consensus size: 45
2716338 CGAGGCTCGA
* * *
2716348 CATGTGCCGATGGTGGTCGAGGGAACCGCTCGCACCATGGCCCAG
1 CATGTGCCGATGGTGGTCGAGGCAACCGCTCACACCAGGGCCCAG
* * * * *
2716393 CATGTGCCGATGGTGTTTGATGCAACCGCTCACACCAGGGGCCAT
1 CATGTGCCGATGGTGGTCGAGGCAACCGCTCACACCAGGGCCCAG
* * * * **
2716438 CTTGTGCCGATGGTGGTCGAGGCAATCGCCCGCACCAAGGG-CTGG
1 CATGTGCCGATGGTGGTCGAGGCAACCGCTCACACC-AGGGCCCAG
* * *
2716483 CATGTGCCGATGGTGTTCGAGGCAACCGCACACACCAGGGCCTAG
1 CATGTGCCGATGGTGGTCGAGGCAACCGCTCACACCAGGGCCCAG
* * * *
2716528 CTTGTGCCAATGGCGGTCGATGCAA
1 CATGTGCCGATGGTGGTCGAGGCAA
2716553 GTGTCGTACC
Statistics
Matches: 129, Mismatches: 29, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
44 4 0.03
45 121 0.94
46 4 0.03
ACGTcount: A:0.19, C:0.29, G:0.33, T:0.19
Consensus pattern (45 bp):
CATGTGCCGATGGTGGTCGAGGCAACCGCTCACACCAGGGCCCAG
Found at i:2716508 original size:90 final size:90
Alignment explanation
Indices: 2716350--2716552 Score: 264
Period size: 90 Copynumber: 2.3 Consensus size: 90
2716340 AGGCTCGACA
* * * * *
2716350 TGTGCCGATGGTGGTCGAGGGAACCGCTCGCACCATGGCCCAGCATGTGCCGATGGTGTTTGATG
1 TGTGCCGATGGTGGTCGAGGCAACCGCCCGCACCAAGGCCCAGCATGTGCCGATGGTGTTCGAGG
* *
2716415 CAACCGCTCACACCAGGGGCC-ATCT
66 CAACCGCACACACCA-GGGCCTAGCT
* * **
2716440 TGTGCCGATGGTGGTCGAGGCAATCGCCCGCACCAAGGGCTGGCATGTGCCGATGGTGTTCGAGG
1 TGTGCCGATGGTGGTCGAGGCAACCGCCCGCACCAAGGCCCAGCATGTGCCGATGGTGTTCGAGG
2716505 CAACCGCACACACCAGGGCCTAGCT
66 CAACCGCACACACCAGGGCCTAGCT
* * *
2716530 TGTGCCAATGGCGGTCGATGCAA
1 TGTGCCGATGGTGGTCGAGGCAA
2716553 GTGTCGTACC
Statistics
Matches: 98, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
89 5 0.05
90 93 0.95
ACGTcount: A:0.19, C:0.29, G:0.33, T:0.19
Consensus pattern (90 bp):
TGTGCCGATGGTGGTCGAGGCAACCGCCCGCACCAAGGCCCAGCATGTGCCGATGGTGTTCGAGG
CAACCGCACACACCAGGGCCTAGCT
Found at i:2716704 original size:26 final size:26
Alignment explanation
Indices: 2716668--2716720 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
2716658 GTTGACTTAG
*
2716668 GCATACGGAGTACATTCCCAGTCTAA
1 GCATACGGAGTACACTCCCAGTCTAA
*
2716694 GCATACGGAGTTCACTCCCAGTCTAA
1 GCATACGGAGTACACTCCCAGTCTAA
2716720 G
1 G
2716721 ATCGGATCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (26 bp):
GCATACGGAGTACACTCCCAGTCTAA
Found at i:2717380 original size:45 final size:46
Alignment explanation
Indices: 2717284--2717386 Score: 120
Period size: 46 Copynumber: 2.3 Consensus size: 46
2717274 ACAACGGGAT
* * * * * *
2717284 CTTGTGCCGATGGTGTTCGATGCAATCGCCTCGCACCAGGAGCTAT
1 CTTGTGCCGATGATGGTCGAGGCAATCACCTCGCACCAGGAGCCAG
*
2717330 CTTGTGCCTATGATGGTCGAGGCAATCACCT-GCACCAAGG-GCCAG
1 CTTGTGCCGATGATGGTCGAGGCAATCACCTCGCACC-AGGAGCCAG
2717375 CTTGTGCCGATG
1 CTTGTGCCGATG
2717387 GTGATTGAGG
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
45 19 0.40
46 29 0.60
ACGTcount: A:0.18, C:0.28, G:0.29, T:0.24
Consensus pattern (46 bp):
CTTGTGCCGATGATGGTCGAGGCAATCACCTCGCACCAGGAGCCAG
Found at i:2717397 original size:45 final size:45
Alignment explanation
Indices: 2717284--2717399 Score: 119
Period size: 45 Copynumber: 2.5 Consensus size: 45
2717274 ACAACGGGAT
* * * *
2717284 CTTGTGCCGATGGTGTTCGATGCAATCGCCTCGCACCAGGAGCTAT
1 CTTGTGCCGATGGTGTT-GAGGCAATCACCTCGCACCAGGAGCCAG
* * *
2717330 CTTGTGCCTATGATGGTCGAGGCAATCACCT-GCACCAAGG-GCCAG
1 CTTGTGCCGATGGT-GTTGAGGCAATCACCTCGCACC-AGGAGCCAG
2717375 CTTGTGCCGATGGTGATTGAGGCAA
1 CTTGTGCCGATGGTG-TTGAGGCAA
2717400 GTGCACGTAC
Statistics
Matches: 57, Mismatches: 10, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
44 1 0.02
45 28 0.49
46 26 0.46
47 2 0.04
ACGTcount: A:0.20, C:0.26, G:0.30, T:0.24
Consensus pattern (45 bp):
CTTGTGCCGATGGTGTTGAGGCAATCACCTCGCACCAGGAGCCAG
Found at i:2720373 original size:45 final size:45
Alignment explanation
Indices: 2720173--2720373 Score: 208
Period size: 45 Copynumber: 4.5 Consensus size: 45
2720163 CGGGGCTCGA
* * *
2720173 CATGTGCCGATGGTGGTTGAGGCAACCGCCCGCACCACGGCCCAG
1 CATGTGCCGATGGTGGTCGAGGCAACCGCCCGCACCAAGGGCCAG
* * * * * *
2720218 CATGTGCCGATGGTGTTCGATGCAACTGGCTGCACCAAGGGCCAT
1 CATGTGCCGATGGTGGTCGAGGCAACCGCCCGCACCAAGGGCCAG
* * * *
2720263 CTTGTGTCGATGGTGGTCAAGGCAATCGCCCGCACCAAGGGCC-G
1 CATGTGCCGATGGTGGTCGAGGCAACCGCCCGCACCAAGGGCCAG
* * *
2720307 ACATGTGCCAATAGTGATCGAGGCAACCGCCCGCACC-AGGGCCTAG
1 -CATGTGCCGATGGTGGTCGAGGCAACCGCCCGCACCAAGGGCC-AG
* *
2720353 CTTGTGCCGATGGCGGTCGAG
1 CATGTGCCGATGGTGGTCGAG
2720374 ACAAGTGCCC
Statistics
Matches: 122, Mismatches: 31, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
44 6 0.05
45 115 0.94
46 1 0.01
ACGTcount: A:0.19, C:0.30, G:0.33, T:0.17
Consensus pattern (45 bp):
CATGTGCCGATGGTGGTCGAGGCAACCGCCCGCACCAAGGGCCAG
Found at i:2720415 original size:135 final size:136
Alignment explanation
Indices: 2720165--2720417 Score: 296
Period size: 135 Copynumber: 1.9 Consensus size: 136
2720155 GGGTCGATCG
* * * *
2720165 GGGCTCGACATGTGCCGATGGTGGTTGAGGCAACCGCCCGCACCACGGCCCAGCATGTGCCGATG
1 GGGCTCGACATGTGCCAATAGTGATCGAGGCAACCGCCCGCACCACGGCCCAGCATGTGCCGATG
* * * * * * * * * *
2720230 GTGTTCGATGCAACTGGCTGCACCAAGGGCCATCTTGTGTCGATGGTGGTCAAGGCAATCGCCCG
66 GCGGTCGATGCAACTGCCCGCACCAAGGGCCAGCCTATGCCAATGATGGTCAAGGCAATCGCCCG
2720295 CACCAA
131 CACCAA
* * *
2720301 GGGC-CGACATGTGCCAATAGTGATCGAGGCAACCGCCCGCACCAGGGCCTAGCTTGTGCCGATG
1 GGGCTCGACATGTGCCAATAGTGATCGAGGCAACCGCCCGCACCACGGCCCAGCATGTGCCGATG
* *
2720365 GCGGTCGA-GACAAGTGCCCGTACCAAAGGG-CAGCCTATGCCAATGATGGTCAA
66 GCGGTCGATG-CAACTGCCCGCACC-AAGGGCCAGCCTATGCCAATGATGGTCAA
2720418 TGCATGATGG
Statistics
Matches: 96, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
134 1 0.01
135 86 0.90
136 9 0.09
ACGTcount: A:0.21, C:0.30, G:0.32, T:0.17
Consensus pattern (136 bp):
GGGCTCGACATGTGCCAATAGTGATCGAGGCAACCGCCCGCACCACGGCCCAGCATGTGCCGATG
GCGGTCGATGCAACTGCCCGCACCAAGGGCCAGCCTATGCCAATGATGGTCAAGGCAATCGCCCG
CACCAA
Found at i:2720426 original size:14 final size:14
Alignment explanation
Indices: 2720407--2720437 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
2720397 GCCTATGCCA
2720407 ATGATGGTCAATGC
1 ATGATGGTCAATGC
*
2720421 ATGATGGTCGATGC
1 ATGATGGTCAATGC
2720435 ATG
1 ATG
2720438 TGCCGATGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.13, G:0.32, T:0.29
Consensus pattern (14 bp):
ATGATGGTCAATGC
Found at i:2720927 original size:26 final size:26
Alignment explanation
Indices: 2720891--2720943 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
2720881 GTTGACTTAC
2720891 GCATACGGAGTTCATCCCCAGTCTAA
1 GCATACGGAGTTCATCCCCAGTCTAA
* *
2720917 GCATACGGAGTTCATTCCTAGTCTAA
1 GCATACGGAGTTCATCCCCAGTCTAA
2720943 G
1 G
2720944 ATCAGATCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (26 bp):
GCATACGGAGTTCATCCCCAGTCTAA
Found at i:2721077 original size:196 final size:196
Alignment explanation
Indices: 2720776--2721142 Score: 495
Period size: 196 Copynumber: 1.9 Consensus size: 196
2720766 TTGTGGTAGT
* ** * * *
2720776 AGGACCCACAGTGGGATCGATAGCATGCAGAGGGGACCGGGTCGATCCCCGGCTTACGCGTCCTA
1 AGGACCCACAGTAGGATCGATAGCATGCAGAGGGGACCGGACCGATCCCCGACTTACACATCCTA
* * * * * *
2720841 CCTCTCTGGCCGGCTGAGCGCTCGCACGCTCATTTCGTGGGTTGACTTACGCATACGGAGTTCAT
66 CCTCTCCGGCCGGCTCAGCGCCCGAACGCTCATTTCGTGGGTTGACTTACGCATACAGAGCTCAT
*
2720906 CCCCAGTCTAAGCATACGGAGTTCATTC-CTAGTCTAAGATCAGATCGGACCGAGGGTTGCTCCA
131 CCCCAGTCTAAGCATACGAAGTTCATTCTC-AGTCTAAGATCAGATCGGACCGAGGGTTGCTCCA
2720970 GC
195 GC
* * * * *
2720972 AGGA-CCAGCAGTAGGATCGATAGCATGCAGGGGGGATCGGACCGATCCTCGACTTGCACATTCT
1 AGGACCCA-CAGTAGGATCGATAGCATGCAGAGGGGACCGGACCGATCCCCGACTTACACATCCT
* * *
2721036 GCCTCTCCGGCCTGCTCAGCGCCCGAACGCTCATTTCGTGGGTTGACTTAGGCATACAGAGCTCA
65 ACCTCTCCGGCCGGCTCAGCGCCCGAACGCTCATTTCGTGGGTTGACTTACGCATACAGAGCTCA
* *
2721101 TTCCCAGTCTAATCATACGAAGTTCATTCTCAGTCTAAGATC
130 TCCCCAGTCTAAGCATACGAAGTTCATTCTCAGTCTAAGATC
2721143 GGACTGGTAG
Statistics
Matches: 146, Mismatches: 23, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
195 3 0.02
196 142 0.97
197 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.27, T:0.23
Consensus pattern (196 bp):
AGGACCCACAGTAGGATCGATAGCATGCAGAGGGGACCGGACCGATCCCCGACTTACACATCCTA
CCTCTCCGGCCGGCTCAGCGCCCGAACGCTCATTTCGTGGGTTGACTTACGCATACAGAGCTCAT
CCCCAGTCTAAGCATACGAAGTTCATTCTCAGTCTAAGATCAGATCGGACCGAGGGTTGCTCCAG
C
Found at i:2721437 original size:26 final size:26
Alignment explanation
Indices: 2721408--2721460 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
2721398 GTTAACATAG
*
2721408 GCATACGGAGTTGATTCCCAATCTAA
1 GCATACGGAGTTCATTCCCAATCTAA
2721434 GCATACGGAGTTCATTCCCAATCTAA
1 GCATACGGAGTTCATTCCCAATCTAA
2721460 G
1 G
2721461 ATCGGACCGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAATCTAA
Found at i:2722026 original size:45 final size:45
Alignment explanation
Indices: 2721906--2722058 Score: 180
Period size: 45 Copynumber: 3.4 Consensus size: 45
2721896 CGACATGTAA
**
2721906 CGATGGTGGTCGAGGCAACCGCCCGCACCACAGCCCAGCATGTGC
1 CGATGGTGGTCGAGGCAACCGCCCGCACCAGGGCCCAGCATGTGC
* * * * * *
2721951 CGATGGTGTTCGATGCAACCGCCCGTACCAGGGGCCATCTTGTGC
1 CGATGGTGGTCGAGGCAACCGCCCGCACCAGGGCCCAGCATGTGC
* * *
2721996 CGATGGTGGTCGAGGCAACCGCCCGCACCAGGGCCTAGCTTATGC
1 CGATGGTGGTCGAGGCAACCGCCCGCACCAGGGCCCAGCATGTGC
* * *
2722041 CAATGGCGGTTGAGGCAA
1 CGATGGTGGTCGAGGCAA
2722059 GTGCCCATAC
Statistics
Matches: 90, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 90 1.00
ACGTcount: A:0.19, C:0.32, G:0.33, T:0.16
Consensus pattern (45 bp):
CGATGGTGGTCGAGGCAACCGCCCGCACCAGGGCCCAGCATGTGC
Found at i:2722070 original size:90 final size:90
Alignment explanation
Indices: 2721906--2722070 Score: 215
Period size: 90 Copynumber: 1.8 Consensus size: 90
2721896 CGACATGTAA
* * * *
2721906 CGATGGTGGTCGAGGCAACCGCCCGCACCACAGCCCAGCATGTGCCGATGGTGTTCGATGCAACC
1 CGATGGTGGTCGAGGCAACCGCCCGCACCACAGCCCAGCATATGCCAATGGGGTTCGAGGCAACC
*
2721971 GCCCGTACCAGGGGCCATCTTGTGC
66 GCCCATACCAGGGGCCATCTTGTGC
** * * *
2721996 CGATGGTGGTCGAGGCAACCGCCCGCACCAGGGCCTAGCTTATGCCAATGGCGGTT-GAGGCAAG
1 CGATGGTGGTCGAGGCAACCGCCCGCACCACAGCCCAGCATATGCCAATGG-GGTTCGAGGCAAC
*
2722060 TGCCCATACCA
65 CGCCCATACCA
2722071 AAAGGTAGCA
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
90 60 0.95
91 3 0.05
ACGTcount: A:0.19, C:0.33, G:0.32, T:0.16
Consensus pattern (90 bp):
CGATGGTGGTCGAGGCAACCGCCCGCACCACAGCCCAGCATATGCCAATGGGGTTCGAGGCAACC
GCCCATACCAGGGGCCATCTTGTGC
Found at i:2723027 original size:26 final size:26
Alignment explanation
Indices: 2722997--2723049 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
2722987 GTTGACTTAG
2722997 GCATATGGAGTTCATCCCCAGTCTAA
1 GCATATGGAGTTCATCCCCAGTCTAA
*
2723023 GCATATGGAGTTCATTCCCAGTCTAA
1 GCATATGGAGTTCATCCCCAGTCTAA
2723049 G
1 G
2723050 ATCGGATCAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (26 bp):
GCATATGGAGTTCATCCCCAGTCTAA
Found at i:2724770 original size:25 final size:28
Alignment explanation
Indices: 2724738--2724796 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
2724728 AAGTTTATTA
2724738 ATTTATAATAA-A-TAT-AATTATTAAT
1 ATTTATAATAATATTATAAATTATTAAT
*
2724763 ATTTATAATAATATTATAAATTATTTAT
1 ATTTATAATAATATTATAAATTATTAAT
*
2724791 AATTAT
1 ATTTAT
2724797 TATCCAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 11 0.38
26 1 0.03
27 3 0.10
28 14 0.48
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (28 bp):
ATTTATAATAATATTATAAATTATTAAT
Found at i:2724867 original size:27 final size:25
Alignment explanation
Indices: 2724837--2724896 Score: 61
Period size: 27 Copynumber: 2.4 Consensus size: 25
2724827 ATTATACTAT
*
2724837 TAATAATATT-TAATTATAAGTAATTTA
1 TAATAATATTATAAAT-TAA-TAA-TTA
*
2724864 TAATATTATTATAAATTAATAATTA
1 TAATAATATTATAAATTAATAATTA
2724889 TAA-AATAT
1 TAATAATAT
2724897 ATTTATTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
24 4 0.14
25 6 0.21
26 3 0.10
27 12 0.41
28 4 0.14
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (25 bp):
TAATAATATTATAAATTAATAATTA
Found at i:2726073 original size:17 final size:17
Alignment explanation
Indices: 2726039--2726076 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
2726029 ATATAGTATT
*
2726039 ATTATATTATTATTTAA
1 ATTATATTATTATATAA
2726056 ATTATATTATT-TGATAA
1 ATTATATTATTAT-ATAA
2726073 ATTA
1 ATTA
2726077 AATAATTGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 1 0.05
17 18 0.95
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
ATTATATTATTATATAA
Found at i:2727105 original size:23 final size:25
Alignment explanation
Indices: 2727039--2727105 Score: 77
Period size: 23 Copynumber: 2.8 Consensus size: 25
2727029 TCTTAATTAT
*
2727039 TTATC-AATAAATTTAATTTTTGAA
1 TTATCAAATAAATATAATTTTTGAA
* *
2727063 TTATCAAATAACTATTATTTTT-AA
1 TTATCAAATAAATATAATTTTTGAA
*
2727087 TT-TGAAATAAATATAATTT
1 TTATCAAATAAATATAATTT
2727106 AATATTTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
23 14 0.39
24 9 0.25
25 13 0.36
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.49
Consensus pattern (25 bp):
TTATCAAATAAATATAATTTTTGAA
Found at i:2727298 original size:14 final size:15
Alignment explanation
Indices: 2727271--2727309 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
2727261 ATATTATTGA
*
2727271 ATTATTTAATTAATT
1 ATTATTTAAGTAATT
2727286 ATTA-TTAAGTAATT
1 ATTATTTAAGTAATT
2727300 ATTGATTTAA
1 ATT-ATTTAA
2727310 AATTAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 12 0.57
15 5 0.24
16 4 0.19
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (15 bp):
ATTATTTAAGTAATT
Found at i:2727365 original size:22 final size:23
Alignment explanation
Indices: 2727323--2727385 Score: 76
Period size: 22 Copynumber: 2.7 Consensus size: 23
2727313 TAAATAAAAA
2727323 AATATTTAAATATTATTAAATTTATAT
1 AATATTT-AATATTA--AAATTTA-AT
2727350 AA-ATTTAAT-TTAAAATTTAAT
1 AATATTTAATATTAAAATTTAAT
2727371 AATATTTAATATTAA
1 AATATTTAATATTAA
2727386 TAATAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
21 4 0.12
22 14 0.41
23 4 0.12
24 3 0.09
25 3 0.09
26 4 0.12
27 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
AATATTTAATATTAAAATTTAAT
Found at i:2727387 original size:16 final size:16
Alignment explanation
Indices: 2727323--2727390 Score: 52
Period size: 16 Copynumber: 4.2 Consensus size: 16
2727313 TAAATAAAAA
*
2727323 AATATTTAAATATTATT
1 AATATTT-AATATTAAT
*
2727340 AA-ATTT-ATATAAAT
1 AATATTTAATATTAAT
* *
2727354 -TTAATTTAAAATTTAAT
1 AAT-ATTTAATA-TTAAT
2727371 AATATTTAATATTAAT
1 AATATTTAATATTAAT
2727387 AATA
1 AATA
2727391 AAAAATAGTT
Statistics
Matches: 39, Mismatches: 7, Indels: 11
0.68 0.12 0.19
Matches are distributed among these distances:
14 6 0.15
15 4 0.10
16 15 0.38
17 13 0.33
18 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AATATTTAATATTAAT
Found at i:2727983 original size:14 final size:14
Alignment explanation
Indices: 2727964--2727990 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2727954 TTACATTTAC
2727964 TAATTAATAAATGT
1 TAATTAATAAATGT
2727978 TAATTAATAAATG
1 TAATTAATAAATG
2727991 AACTAATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (14 bp):
TAATTAATAAATGT
Found at i:2728264 original size:23 final size:21
Alignment explanation
Indices: 2728236--2728284 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 21
2728226 AACATGATCT
*
2728236 ATTAAATAATATATATTATTATA
1 ATTAAATAA-ATATAATATT-TA
2728259 ATTAAATAAATATAATATTTA
1 ATTAAATAAATATAATATTTA
2728280 ATTAA
1 ATTAA
2728285 CAATTAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 7 0.28
22 9 0.36
23 9 0.36
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
ATTAAATAAATATAATATTTA
Found at i:2728323 original size:32 final size:31
Alignment explanation
Indices: 2728243--2728324 Score: 78
Period size: 32 Copynumber: 2.6 Consensus size: 31
2728233 TCTATTAAAT
*
2728243 AATATATATTATTA-TAATTAAATAAATATAA
1 AATATA-ATTAATATTAATTAAATAAATATAA
* * *
2728274 TATTTAATTAACAATTAATTAAATAAA-ACCTAA
1 AATATAATTAA-TATTAATTAAATAAATA--TAA
2728307 AATATAATTAATATTAAT
1 AATATAATTAATATTAAT
2728325 ATTAATAATA
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
30 4 0.10
31 6 0.15
32 18 0.45
33 12 0.30
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (31 bp):
AATATAATTAATATTAATTAAATAAATATAA
Found at i:2729050 original size:19 final size:19
Alignment explanation
Indices: 2729024--2729075 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
2729014 AAATATTAAA
2729024 ATATTATAATAAAATATTGT
1 ATATTATAATAAAATATT-T
* *
2729044 A-ATTATAAT-AATTGTTT
1 ATATTATAATAAAATATTT
2729061 ATATTATAATAAAAT
1 ATATTATAATAAAAT
2729076 TAACTAACAC
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
17 2 0.07
18 13 0.48
19 11 0.41
20 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (19 bp):
ATATTATAATAAAATATTT
Found at i:2729249 original size:18 final size:18
Alignment explanation
Indices: 2729225--2729280 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
2729215 TATGTTAATT
2729225 ATAAATAATATTAATA-A
1 ATAAATAATATTAATATA
* *
2729242 ATATAATATTATTTATATA
1 ATA-AATAATATTAATATA
*
2729261 ATAAATTATATTAATATA
1 ATAAATAATATTAATATA
2729279 AT
1 AT
2729281 GATATTAAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
17 3 0.09
18 25 0.78
19 4 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAAATAATATTAATATA
Found at i:2729328 original size:96 final size:98
Alignment explanation
Indices: 2729150--2729333 Score: 209
Period size: 98 Copynumber: 1.9 Consensus size: 98
2729140 ATTGATAAGT
* *
2729150 TATTATTTATATATTATAAATTATATAAATTAAAAAAATATTAACTCATTAATTATACATATATA
1 TATTATTTATATA-TATAAATTATATAAATTAAAAAAATATTAACTCATTAATTATAAAAATATA
**
2729215 TATGTTAATTATAAAT-AATATTAATAAATATAA
65 TATGTTAAGAATAAATAAATATTAATAAATATAA
* * **
2729248 TATTATTTATATA-ATAAATTATATTAA-TATAATGATATTAAACT-ATTTTAATATATAAAAAT
1 TATTATTTATATATATAAATTATATAAATTAAAAAAATATT-AACTCA--TTAAT-TATAAAAAT
2729310 ATATAT-TTAAGAAT-AATAAATATT
62 ATATATGTTAAGAATAAATAAATATT
2729334 TATATTGTTA
Statistics
Matches: 73, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
95 10 0.14
96 20 0.27
97 17 0.23
98 26 0.36
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (98 bp):
TATTATTTATATATATAAATTATATAAATTAAAAAAATATTAACTCATTAATTATAAAAATATAT
ATGTTAAGAATAAATAAATATTAATAAATATAA
Found at i:2729485 original size:35 final size:33
Alignment explanation
Indices: 2729437--2729519 Score: 96
Period size: 35 Copynumber: 2.4 Consensus size: 33
2729427 TAGTTACAAC
* *
2729437 TAATTATAATATAATTATTAATAACAACTATA-AA
1 TAATTATATTATAATAATTAAT-A-AACTATATAA
2729471 TTAATTATATTATAATAATTAATAAACTATATAA
1 -TAATTATATTATAATAATTAATAAACTATATAA
2729505 TAATTTACTATTATA
1 TAA-TTA-TATTATA
2729520 TTAAAAAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
33 10 0.23
34 6 0.14
35 27 0.63
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (33 bp):
TAATTATATTATAATAATTAATAAACTATATAA
Found at i:2730104 original size:29 final size:27
Alignment explanation
Indices: 2730042--2730106 Score: 69
Period size: 30 Copynumber: 2.3 Consensus size: 27
2730032 CCAATATTTG
2730042 AAAAT-ATTAATAACAATTATCTGAAT
1 AAAATAATTAATAACAATTATCTGAAT
* *
2730068 ACTGAATAATTAATTAACAATTATTTGAAAT
1 A--AAATAATTAA-TAACAATTATCTG-AAT
2730099 AAAATAAT
1 AAAATAAT
2730107 ACTAATTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
26 1 0.03
28 3 0.10
29 11 0.35
30 12 0.39
31 4 0.13
ACGTcount: A:0.54, C:0.06, G:0.05, T:0.35
Consensus pattern (27 bp):
AAAATAATTAATAACAATTATCTGAAT
Found at i:2730218 original size:50 final size:46
Alignment explanation
Indices: 2730148--2730239 Score: 107
Period size: 47 Copynumber: 1.9 Consensus size: 46
2730138 CTAAGAGATT
2730148 TAAAAAATAAATAATGATTAATTTAATTT-AATTATTAATAATATTTGAA
1 TAAAAAATAAATAATGATT-A---AATTTCAATTATTAATAATATTTGAA
*
2730197 TAAATAAATAATTGAAT-ATTAAATTTCAATTATTAATAATATT
1 TAAA-AAATAAAT-AATGATTAAATTTCAATTATTAATAATATT
2730240 AATAATTTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
46 5 0.13
47 16 0.41
49 5 0.13
50 10 0.26
51 3 0.08
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.43
Consensus pattern (46 bp):
TAAAAAATAAATAATGATTAAATTTCAATTATTAATAATATTTGAA
Found at i:2730656 original size:22 final size:22
Alignment explanation
Indices: 2730621--2730684 Score: 58
Period size: 22 Copynumber: 2.8 Consensus size: 22
2730611 ATTAATCTTA
* *
2730621 AATAACATATTTATTTATTCATT
1 AATAA-ATAATTATTTATTAATT
*
2730644 AATAAATAATTATTAATATAATT
1 AATAAATAATTATTTAT-TAATT
*
2730667 AAT-ATTAATTATTATATT
1 AATAAATAATTATT-TATT
2730685 TGTATTAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
22 20 0.59
23 14 0.41
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (22 bp):
AATAAATAATTATTTATTAATT
Found at i:2732103 original size:180 final size:179
Alignment explanation
Indices: 2731674--2732120 Score: 472
Period size: 180 Copynumber: 2.5 Consensus size: 179
2731664 AATCACTTAC
* * * * *
2731674 TAATTTTTGAAATATTAATAGATTCGTTTTACTTTATTCTGAATAAACTTATATGAACAAAACAT
1 TAATTTTTGAAATATTAATAGATTCATTTTATTTTATTTTGAATAAGCTTGTATGAACAAAA-AT
* ** *
2731739 --TTGTTTTATGATAAAACAAAAAGTAATAATGATTTGAAATATATAATTGTTCAAATAGTGTAA
65 AATTGTTTTATGACAAAAC-AAAAGTAATAACAATTTGAAATAGATAATTGTTCAAATAGTGTAA
* * ** * * *
2731802 TTTTTTGAATTGGTTAGGTAAACATAATTATTTTTTAAATCTCTTATTTTT
129 CTATTTGAATTGGTTAGAAAAACATAATTATTTTTTAAATCCCTTAGTTAT
* * * ** * ** *
2731853 TAATTTTTGAAATATTAACAAACTCATTTTATTTTATTTCAAATAAGCTAGTATGAATTGAGAA-
1 TAATTTTTGAAATATTAATAGATTCATTTTATTTTATTTTGAATAAGCTTGTATGAA-CAAAAAT
* * * * * * *
2731917 AATTGTTTTACGACAAGACAAAGGTCATAACAATTTGAATTAGATAATTGTTCATATAGTCTTAA
65 AATTGTTTTATGACAAAACAAAAGTAATAACAATTTGAAATAGATAATTGTTCAAATAGT-GTAA
*
2731982 CTATTTGAATTGGTTCGAAAAACA-AATTTATTTTTTAAATCCCTTAGTTAT
129 CTATTTGAATTGGTTAGAAAAACATAA-TTATTTTTTAAATCCCTTAGTTAT
* * * *
2732033 TAATTTTTTG-AATATTATTAGATTCATATTGTTTTATTTTGAATATGCTTGTATGAACAAAAAT
1 TAA-TTTTTGAAATATTAATAGATTCATTTTATTTTATTTTGAATAAGCTTGTATGAACAAAAAT
2732097 AATTGTTTTATGACAAAACAAAAG
65 AATTGTTTTATGACAAAACAAAAG
2732121 GTTATTATGA
Statistics
Matches: 212, Mismatches: 49, Indels: 13
0.77 0.18 0.05
Matches are distributed among these distances:
179 86 0.41
180 120 0.57
181 6 0.03
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (179 bp):
TAATTTTTGAAATATTAATAGATTCATTTTATTTTATTTTGAATAAGCTTGTATGAACAAAAATA
ATTGTTTTATGACAAAACAAAAGTAATAACAATTTGAAATAGATAATTGTTCAAATAGTGTAACT
ATTTGAATTGGTTAGAAAAACATAATTATTTTTTAAATCCCTTAGTTAT
Found at i:2733610 original size:181 final size:179
Alignment explanation
Indices: 2732416--2733978 Score: 1110
Period size: 180 Copynumber: 8.8 Consensus size: 179
2732406 AGTAATCTAA
* * * * * *
2732416 TAATATTCTAAAAATTAATAACTAAGAGATTTAAAAAATAAA-ATTATTTGCCGAACTAGTTCAA
1 TAATATT-TCAAAATTAATAAGTAAAAGATTTAAAAAATAAATA-TGTTTACCGAACAAGTTCAA
** * * *
2732480 ATAGTTAAAACTATATGAATAATTATCTATTTCAAATCATTATAGCCTTTTGTTTTGTCATAAAA
64 ATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTAT-GACTTTTGTTTTGTCATAAAA
* * * *
2732545 CAATAT-TTTCAATTCATACTAGCTTATTTAGAATAAAATAAAATAAAATTAT
128 CAAT-TGTTTCTATTCATACTAGCTTATTTGGAATAAAATAATATAAATTTAT
* * * * * * *
2732597 TAAAATTTCAAAAATT-ATAAGTAAGAGAATTAAAAAATAATTCTGTTTACCTAACCAGTTCAAA
1 TAATATTTC-AAAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCGAACAAGTTCAAA
* **
2732661 TAATTATGACTATTTGAACAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTGTCATAAAAC
65 TAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGA-CTTTTGTTTTGTCATAAAAC
* * * * * *
2732726 TAA-TGTTTTTGTTCATA-TAAGTTTGTTTGAAATAAAATAATACT-AATCTAT
129 -AATTGTTTCTATTCATACT-AGCTTATTTGGAATAAAATAATA-TAAATTTAT
* * * * *
2732777 TAATATTTCAAAAATTAAT-A--AAAA-TTTTAAAAAATAAATTTGTTTATCAAACTAGTTC-AA
1 TAATATTTC-AAAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCGAACAAGTTCAAA
* * * *
2732837 -A-TTAAGACTATTT-AAGCAATTATTTATTTCAAATCATTATGACTTTTTGTTCTT-TTATAAG
65 TAGTTATGACTATTTGAA-CAATTATCTATTTCAAATCATTATGAC-TTTTGTT-TTGTCATAAA
* * * * * *** *
2732898 ATAATAGTTTCTATTTATTCAAGCTTATTCATATTAAAATAATATAAATTTAT
127 ACAATTGTTTCTATTCATACTAGCTTATTTGGAATAAAATAATATAAATTTAT
* * * * ** * *
2732951 TAATATTTTGACAATTAATAAGTAAAAAATGTAAAAAATTAAATATGTTTACTAAACTAGATCAA
1 TAATA-TTTCAAAATTAATAAGTAAAAGATTTAAAAAA-TAAATATGTTTACCGAACAAGTTCAA
* * * * * * *
2733016 ACAGTCATGACTATTTGAATAGTTATCTATTTCAAATCGTTATGACATTTTCTTCTGTCATAAAA
64 ATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGAC-TTTTGTTTTGTCATAAAA
* * * * *
2733081 -AACTTATTTCAATTCATA-TAAGCTTATTTGAAATAAAATAATATTAAGTTAT
128 CAA-TTGTTTCTATTCATACT-AGCTTATTTGGAATAAAATAATATAAATTTAT
* * * * * * * * *
2733133 TAATATTTTGAAAATTAATAATTAAGAGATTTAAAAGATGAATTTATTTACTGAACAAGTTTAAA
1 TAATA-TTTCAAAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCGAACAAGTTCAAA
* * * * ** *** * * *
2733198 TAATTATAATTATTTGAACAATTATTTATTGAAAATTGCTATAACCTTTTGTTTTGTTATAAAAT
65 TAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGA-CTTTTGTTTTGTCATAAAAC
* * * * * * * *
2733263 GATTTTTTCTGTTCACACAAGCCTATTTTGAATAAAATAATACAAATTTAT
129 AATTGTTTCTATTCATACTAGCTTATTTGGAATAAAATAATATAAATTTAT
* * * * * *
2733314 TAA-A-TTAAGACAATTAACAAGTACAAGATTT-AAAAGTAAA-ATTGTTTACTGAATAAGTTCA
1 TAATATTTCA-A-AATTAATAAGTAAAAGATTTAAAAAATAAATA-TGTTTACCGAACAAGTTCA
* * * ** *
2733375 AATTGTTATGACTATTTGAACAATTATTTGTTTCAAATTGTTATCACTTTTTGTTTTGTCATAAA
63 AATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGAC-TTTTGTTTTGTCATAAA
* * *
2733440 ACAATTGTTTTTGTTCATACTAGCTTATTTGGAATAAAATAATATTAATTTAT
127 ACAATTGTTTCTATTCATACTAGCTTATTTGGAATAAAATAATATAAATTTAT
* * *
2733493 TAATATTTCAATGATTTATAAGTAAAAGATTTAAAAAATAAATATGTTTGCCGAACAAGTTCAAA
1 TAATATTTCAA-AATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCGAACAAGTTCAAA
* * ** *
2733558 TAGTCT-TGACTATTTGAATAATAATCTATTTCAAATCATCGTGAGCTTTTGTTTTGTAATAAAA
65 TAGT-TATGACTATTTGAACAATTATCTATTTCAAATCATTATGA-CTTTTGTTTTGTCATAAAA
* * *
2733622 TAATTGCTTC-AGTTCATA-TAAGCCTATTT-GAGAT---A-AA-AT-AA--TAT
128 CAATTGTTTCTA-TTCATACT-AGCTTATTTGGA-ATAAAATAATATAAATTTAT
* ** * * * * *
2733666 T-CTA----AAAATTAA-AGAGTAACGGAATTTAAAAAATGAAT-TTTCTTATCGATCAAGTTGA
1 TAATATTTCAAAATTAATA-AGTAAAAG-ATTTAAAAAATAAATATGT-TTACCGAACAAGTTCA
* * * * *
2733724 AATAGTTATGACTATCTAAAGAATTATCTATTTCAAAACATTATGACATTTTGTTTTATCATAAA
63 AATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGAC-TTTTGTTTTGTCATAAA
* * * *
2733789 AAAATTAG-TTCTATTCATACAAGCATATTTTGAATAAAATAATATAAATTTAT
127 ACAATT-GTTTCTATTCATACTAGCTTATTTGGAATAAAATAATATAAATTTAT
* * * *
2733842 TAATATTTCAAAAGTTAATAAGTATAA-TTTTAGAAAATAAAGCTAT-TTT-CTGAACACA-TTC
1 TAATATTTCAAAA-TTAATAAGTAAAAGATTTAAAAAATAAA--TATGTTTACCGAACA-AGTTC
* * *
2733903 AAATAGTTATGAATATTTGAACAATTATCTATTTCAAATCATTTTGACCATTTGTTTTGTCATAA
62 AAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGA-CTTTTGTTTTGTCATAA
*
2733968 ACCAATTGTTT
126 AACAATTGTTT
2733979 ATTCAAAATC
Statistics
Matches: 1078, Mismatches: 231, Indels: 147
0.74 0.16 0.10
Matches are distributed among these distances:
166 1 0.00
167 14 0.01
168 104 0.10
169 4 0.00
171 1 0.00
172 4 0.00
173 12 0.01
174 94 0.09
175 9 0.01
176 8 0.01
177 35 0.03
178 16 0.01
179 146 0.14
180 262 0.24
181 236 0.22
182 128 0.12
183 4 0.00
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (179 bp):
TAATATTTCAAAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCGAACAAGTTCAAAT
AGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACTTTTGTTTTGTCATAAAACAA
TTGTTTCTATTCATACTAGCTTATTTGGAATAAAATAATATAAATTTAT
Found at i:2734095 original size:4 final size:4
Alignment explanation
Indices: 2734086--2734148 Score: 51
Period size: 4 Copynumber: 16.2 Consensus size: 4
2734076 ATCAATATTC
* * *
2734086 ATTA ATTA ATT- ATTA ATTA AAT- ATTA ATT- ATTC ATTA AATA ATTA
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA
* *
2734131 ATGA TATTA AATA ATTA A
1 ATTA -ATTA ATTA ATTA A
2734149 AATATACAAT
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
3 8 0.17
4 35 0.76
5 3 0.07
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (4 bp):
ATTA
Found at i:2734102 original size:11 final size:11
Alignment explanation
Indices: 2734086--2734130 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
2734076 ATCAATATTC
2734086 ATTAATTAATT
1 ATTAATTAATT
*
2734097 ATTAATTAAAT
1 ATTAATTAATT
2734108 ATTAATT-ATT
1 ATTAATTAATT
*
2734118 CATTAAATAATT
1 -ATTAATTAATT
2734130 A
1 A
2734131 ATGATATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
10 2 0.07
11 24 0.83
12 3 0.10
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (11 bp):
ATTAATTAATT
Found at i:2734113 original size:18 final size:19
Alignment explanation
Indices: 2734088--2734148 Score: 83
Period size: 18 Copynumber: 3.4 Consensus size: 19
2734078 CAATATTCAT
2734088 TAATTAATTATTAATTAAA
1 TAATTAATTATTAATTAAA
*
2734107 T-ATTAATTATTCATTAAA
1 TAATTAATTATTAATTAAA
*
2734125 TAATTAATGA-T-ATTAAA
1 TAATTAATTATTAATTAAA
2734142 TAATTAA
1 TAATTAA
2734149 AATATACAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.33
18 18 0.46
19 8 0.21
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (19 bp):
TAATTAATTATTAATTAAA
Found at i:2734212 original size:12 final size:12
Alignment explanation
Indices: 2734197--2734222 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2734187 TTCTTATTAA
2734197 TAATTTATATAT
1 TAATTTATATAT
2734209 TAATTTATATAT
1 TAATTTATATAT
2734221 TA
1 TA
2734223 TATTATATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TAATTTATATAT
Found at i:2734675 original size:13 final size:15
Alignment explanation
Indices: 2734609--2734696 Score: 56
Period size: 16 Copynumber: 5.7 Consensus size: 15
2734599 TTAAATATAT
*
2734609 TATTAATAATCTAATA
1 TATTAATAATC-ATTA
*
2734625 TATTACTCAATGCATTA
1 TATTAAT-AAT-CATTA
*
2734642 TATCATAAT-ATAATTA
1 TAT--TAATAATCATTA
*
2734658 CATT-ATAAT-ATTA
1 TATTAATAATCATTA
2734671 TATTAATAATCATTA
1 TATTAATAATCATTA
*
2734686 TTAATAATAAT
1 -TATTAATAAT
2734697 AAGATATCTT
Statistics
Matches: 57, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
13 9 0.16
14 8 0.14
15 4 0.07
16 21 0.37
17 11 0.19
18 1 0.02
19 3 0.05
ACGTcount: A:0.47, C:0.08, G:0.01, T:0.44
Consensus pattern (15 bp):
TATTAATAATCATTA
Found at i:2734921 original size:17 final size:18
Alignment explanation
Indices: 2734888--2734927 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
2734878 ATATATGATT
*
2734888 ATAATTTTATTATAATAA
1 ATAATTTTATCATAATAA
*
2734906 ATAATTTT-TCATAATAT
1 ATAATTTTATCATAATAA
2734923 ATAAT
1 ATAAT
2734928 CTTAATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
ATAATTTTATCATAATAA
Found at i:2735034 original size:19 final size:20
Alignment explanation
Indices: 2735004--2735043 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
2734994 TATAATTGAC
2735004 TATTTAAAAATAATAA-ATAT
1 TATTTAAAAAT-ATAATATAT
2735024 TATTT-AAAATATAATATAT
1 TATTTAAAAATATAATATAT
2735043 T
1 T
2735044 TCACATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 10 0.53
20 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TATTTAAAAATATAATATAT
Found at i:2735037 original size:21 final size:21
Alignment explanation
Indices: 2734968--2735039 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
2734958 TAGCTTAATA
*
2734968 ATAATTAATATTAATTATAAATAT
1 ATAATAAATATT-ATT-TAAA-AT
* * *
2734992 ATTATAATTGACTATTTAAAA-
1 ATAATAAAT-ATTATTTAAAAT
2735013 ATAATAAATATTATTTAAAAT
1 ATAATAAATATTATTTAAAAT
2735034 ATAATA
1 ATAATA
2735040 TATTTCACAT
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
20 10 0.26
21 13 0.33
22 1 0.03
23 4 0.10
24 9 0.23
25 2 0.05
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (21 bp):
ATAATAAATATTATTTAAAAT
Found at i:2735061 original size:45 final size:46
Alignment explanation
Indices: 2734964--2735088 Score: 114
Period size: 45 Copynumber: 2.7 Consensus size: 46
2734954 ATAATAGCTT
* * * *
2734964 AATAATAATTAATATTAATTATAAATATATTATAATTGACTATTTA
1 AATAATAATAAATATTAATTATAAATATAATATAATTCACTATATA
* *
2735010 AA-AATAATAAATATTATTTA-AAATATAATATATTTCAC-ATATA
1 AATAATAATAAATATTAATTATAAATATAATATAATTCACTATATA
2735053 AATTAATAATTATAAT-TTATATCTATCAAATATAAT
1 AA-TAATAA-TA-AATATTA-AT-TAT-AAATATAAT
2735089 CATTATATAT
Statistics
Matches: 64, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
43 6 0.09
44 15 0.23
45 21 0.33
46 7 0.11
47 4 0.06
48 2 0.03
50 9 0.14
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (46 bp):
AATAATAATAAATATTAATTATAAATATAATATAATTCACTATATA
Found at i:2735515 original size:18 final size:17
Alignment explanation
Indices: 2735492--2735534 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
2735482 ATCATACTAA
2735492 TATATATTATTAGAATAT
1 TATATATTATT-GAATAT
2735510 TATATAATTATTGAATAT
1 TATAT-ATTATTGAATAT
2735528 TAT-TATT
1 TATATATT
2735535 TTTCATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 3 0.12
17 1 0.04
18 14 0.58
19 6 0.25
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (17 bp):
TATATATTATTGAATAT
Found at i:2735519 original size:16 final size:17
Alignment explanation
Indices: 2735490--2735530 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
2735480 ATATCATACT
*
2735490 AATA-TATATTATTA-G
1 AATATTATATAATTATG
2735505 AATATTATATAATTATTG
1 AATATTATATAATTA-TG
2735523 AATATTAT
1 AATATTAT
2735531 TATTTTTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 4 0.18
16 9 0.41
18 9 0.41
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (17 bp):
AATATTATATAATTATG
Found at i:2735805 original size:16 final size:16
Alignment explanation
Indices: 2735781--2735814 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
2735771 TTACTCATAA
*
2735781 AATATTATTTATAAAT
1 AATAATATTTATAAAT
2735797 AATAATATTTATAAAT
1 AATAATATTTATAAAT
2735813 AA
1 AA
2735815 CTATTATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATAATATTTATAAAT
Found at i:2735848 original size:15 final size:15
Alignment explanation
Indices: 2735830--2735901 Score: 51
Period size: 15 Copynumber: 4.7 Consensus size: 15
2735820 ATATAAGTTA
2735830 TTATTTTAATAATAG
1 TTATTTTAATAATAG
*
2735845 TTATATTAGATAACTA-
1 TTATTTTA-ATAA-TAG
2735861 TTATTTT-ATAAATAG
1 TTATTTTAAT-AATAG
* *
2735876 TTAATTT-ATATTAAG
1 TTATTTTAATAAT-AG
*
2735891 TTAATTTAATA
1 TTATTTTAATA
2735902 TATTAATTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
14 6 0.13
15 26 0.55
16 13 0.28
17 2 0.04
ACGTcount: A:0.42, C:0.01, G:0.06, T:0.51
Consensus pattern (15 bp):
TTATTTTAATAATAG
Found at i:2736344 original size:21 final size:21
Alignment explanation
Indices: 2736320--2736359 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2736310 TCATACTAGC
*
2736320 TTATTCGATATAAGTTATAAA
1 TTATTAGATATAAGTTATAAA
* *
2736341 TTATTATATATAATTTATA
1 TTATTAGATATAAGTTATA
2736360 TTTAATAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (21 bp):
TTATTAGATATAAGTTATAAA
Found at i:2736371 original size:13 final size:13
Alignment explanation
Indices: 2736350--2736386 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
2736340 ATTATTATAT
2736350 ATAATTTATATTTA
1 ATAA-TTATATTTA
2736364 ATAATTATATTTA
1 ATAATTATATTTA
*
2736377 ATAAGTATAT
1 ATAATTATAT
2736387 AATTAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 18 0.82
14 4 0.18
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (13 bp):
ATAATTATATTTA
Found at i:2736927 original size:15 final size:15
Alignment explanation
Indices: 2736903--2736938 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
2736893 TCTAGATAAA
2736903 ATAT-ATTATAATAC
1 ATATAATTATAATAC
2736917 ATATAATTATAATAC
1 ATATAATTATAATAC
*
2736932 ATGTAAT
1 ATATAAT
2736939 AACCTAAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.42
Consensus pattern (15 bp):
ATATAATTATAATAC
Found at i:2737042 original size:29 final size:28
Alignment explanation
Indices: 2736975--2737048 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 28
2736965 ATGAATTTCA
* *
2736975 AATTATAATTAAATATTATTTAGATAAT
1 AATTATAATTAAATATGAATTAGATAAT
*
2737003 AATAATAAATTAAATATGAATTA-ATATTAT
1 AATTAT-AATTAAATATGAATTAGATA--AT
*
2737033 CATTATAATTAAATAT
1 AATTATAATTAAATAT
2737049 TTCTATTTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
28 8 0.21
29 24 0.63
30 6 0.16
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (28 bp):
AATTATAATTAAATATGAATTAGATAAT
Found at i:2737151 original size:16 final size:16
Alignment explanation
Indices: 2737130--2737175 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
2737120 AAAATTTAAC
2737130 TATGTAATTATAATTA
1 TATGTAATTATAATTA
*
2737146 TATGTAATTATAA-CA
1 TATGTAATTATAATTA
*
2737161 -ATATAATTATAATTA
1 TATGTAATTATAATTA
2737176 CAATTTTCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 11 0.42
15 2 0.08
16 13 0.50
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (16 bp):
TATGTAATTATAATTA
Found at i:2738610 original size:29 final size:27
Alignment explanation
Indices: 2738578--2738643 Score: 64
Period size: 26 Copynumber: 2.4 Consensus size: 27
2738568 AGTAACTAAC
*
2738578 ATTATAATATTATATTTATAATAATTAAT
1 ATTATAATATT-TATTAAT-ATAATTAAT
* *
2738607 ATTA-ATTAATTATTAATATAATTAAT
1 ATTATAATATTTATTAATATAATTAAT
*
2738633 A-TATACTATTT
1 ATTATAATATTT
2738644 GAATTACTCT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
25 2 0.06
26 15 0.48
27 6 0.19
28 4 0.13
29 4 0.13
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (27 bp):
ATTATAATATTTATTAATATAATTAAT
Found at i:2738616 original size:17 final size:16
Alignment explanation
Indices: 2738596--2738633 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
2738586 ATTATATTTA
2738596 TAATAATTAATATTAAT
1 TAATAATTAATA-TAAT
*
2738613 TAATTATTAATATAAT
1 TAATAATTAATATAAT
2738629 TAATA
1 TAATA
2738634 TATACTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TAATAATTAATATAAT
Found at i:2738623 original size:21 final size:22
Alignment explanation
Indices: 2738580--2738628 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
2738570 TAACTAACAT
*
2738580 TATAATATTATATTTATAATAA
1 TATAATATTATATTAATAATAA
*
2738602 T-TAATATTA-ATTAATTATTAA
1 TATAATATTATATTAA-TAATAA
2738623 TATAAT
1 TATAAT
2738629 TAATATATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 4 0.17
21 14 0.61
22 5 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TATAATATTATATTAATAATAA
Found at i:2739404 original size:30 final size:30
Alignment explanation
Indices: 2739356--2739430 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 30
2739346 TATAATAAAT
2739356 TAATCTAATTAA-TATAATATAACTA-ATAA
1 TAAT-TAATTAATTATAATATAACTACATAA
* * *
2739385 TAATTCATATAATTATAATATAATTACTTAA
1 TAATTAAT-TAATTATAATATAACTACATAA
2739416 TAATTAATTAATTAT
1 TAATTAATTAATTAT
2739431 TATAACATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
28 3 0.08
29 7 0.18
30 19 0.49
31 10 0.26
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (30 bp):
TAATTAATTAATTATAATATAACTACATAA
Found at i:2739660 original size:23 final size:22
Alignment explanation
Indices: 2739595--2739662 Score: 70
Period size: 23 Copynumber: 3.1 Consensus size: 22
2739585 AATAAATTAC
*
2739595 TATT-AATAAATATAATAAT-ATC
1 TATTAAATAAAT-TAA-AATAATT
*
2739617 TATTAAATTAATT-AAATAATT
1 TATTAAATAAATTAAAATAATT
2739638 TATTAATATAAATTAAAATAATT
1 TATTAA-ATAAATTAAAATAATT
2739661 TA
1 TA
2739663 ATATTAATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
20 3 0.08
21 9 0.23
22 11 0.28
23 16 0.41
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (22 bp):
TATTAAATAAATTAAAATAATT
Found at i:2739699 original size:17 final size:17
Alignment explanation
Indices: 2739607--2739712 Score: 54
Period size: 17 Copynumber: 5.9 Consensus size: 17
2739597 TTAATAAATA
*
2739607 TAATAATATCTATTAAAT
1 TAATAATAT-TATTTAAT
*
2739625 TAATTAA-ATAATTT-AT
1 TAA-TAATATTATTTAAT
* **
2739641 TAATATAAATTAAAATAATT
1 TAATA-ATATT-ATTTAA-T
* *
2739661 TAATATTAATATTATAATT
1 TAATAATATTATT-TAA-T
* *
2739680 TAATTATATTGTTTAAT
1 TAATAATATTATTTAAT
2739697 TAATAATATTATTTAA
1 TAATAATATTATTTAA
2739713 ATTAGTTATT
Statistics
Matches: 65, Mismatches: 16, Indels: 15
0.68 0.17 0.16
Matches are distributed among these distances:
15 2 0.03
16 6 0.09
17 20 0.31
18 11 0.17
19 20 0.31
20 6 0.09
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (17 bp):
TAATAATATTATTTAAT
Found at i:2739728 original size:33 final size:30
Alignment explanation
Indices: 2739665--2739743 Score: 74
Period size: 30 Copynumber: 2.6 Consensus size: 30
2739655 ATAATTTAAT
* *
2739665 ATTAATATTATAATTT-AATTATATTGTTTA
1 ATTAATAATAT-ATTTAAATTATATTATTTA
2739695 ATTAATAATATTATTTAAATTAGTTATTATTTA
1 ATTAATAATA-TATTTAAATTA--TATTATTTA
*
2739728 AATAA-AATA-ATTTAAA
1 ATTAATAATATATTTAAA
2739744 CAATTGTTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
30 20 0.48
31 6 0.14
32 4 0.10
33 12 0.29
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.51
Consensus pattern (30 bp):
ATTAATAATATATTTAAATTATATTATTTA
Found at i:2740746 original size:28 final size:28
Alignment explanation
Indices: 2740715--2740799 Score: 77
Period size: 28 Copynumber: 3.1 Consensus size: 28
2740705 TAACAATTGC
2740715 AATAATTTAATATTAAATATTTATTATA
1 AATAATTTAATATTAAATATTTATTATA
* *
2740743 AAT-ATATAATCATTAAATACATTA-TATA
1 AATAATTTAAT-ATTAAATA-TTTATTATA
* * * *
2740771 ATTAATTGATTAGTAAATATTTATT-TA
1 AATAATTTAATATTAAATATTTATTATA
2740798 AA
1 AA
2740800 GTTATATATA
Statistics
Matches: 44, Mismatches: 9, Indels: 9
0.71 0.15 0.15
Matches are distributed among these distances:
27 12 0.27
28 25 0.57
29 7 0.16
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (28 bp):
AATAATTTAATATTAAATATTTATTATA
Found at i:2740915 original size:19 final size:16
Alignment explanation
Indices: 2740891--2740935 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 16
2740881 TATAATTTAG
2740891 ATATA-AATTAATTAATA
1 ATATATAATT-ATT-ATA
2740908 ATATATAATTATTATA
1 ATATATAATTATTATA
2740924 ATAT-TAATTATT
1 ATATATAATTATT
2740936 TAAATTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 8 0.30
16 7 0.26
17 8 0.30
18 4 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATATATAATTATTATA
Found at i:2740918 original size:14 final size:14
Alignment explanation
Indices: 2740891--2740971 Score: 62
Period size: 14 Copynumber: 5.7 Consensus size: 14
2740881 TATAATTTAG
2740891 ATATAA-ATTAATT
1 ATATAATATTAATT
2740904 A-ATAATATATAATT
1 ATATAATAT-TAATT
2740918 ATTATAATATTAATT
1 A-TATAATATTAATT
* *
2740933 ATTTAA-ATTTATACT
1 ATATAATA-TTA-ATT
*
2740948 ATATAAAATT-ATT
1 ATATAATATTAATT
2740961 ATTATAATATT
1 A-TATAATATT
2740972 TTAAATTATA
Statistics
Matches: 55, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
12 4 0.07
13 7 0.13
14 21 0.38
15 15 0.27
16 8 0.15
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (14 bp):
ATATAATATTAATT
Found at i:2740966 original size:21 final size:21
Alignment explanation
Indices: 2740941--2740988 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
2740931 TTATTTAAAT
* *
2740941 TTATACTATATAAAATTATTA
1 TTATAATATATAAAATTATAA
* *
2740962 TTATAATATTTTAAATTATAA
1 TTATAATATATAAAATTATAA
2740983 TTATAA
1 TTATAA
2740989 ACCTTTATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
TTATAATATATAAAATTATAA
Found at i:2741119 original size:27 final size:28
Alignment explanation
Indices: 2741088--2741145 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
2741078 ACATATTTAA
*
2741088 TTAATATTAAAT-TTATGAATATTGAT-T
1 TTAAT-TTAAATATTATAAATATTGATCT
*
2741115 TTAATTTAAATATTTTAAATATTGATCT
1 TTAATTTAAATATTATAAATATTGATCT
2741143 TTA
1 TTA
2741146 TTAATTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 6 0.22
27 17 0.63
28 4 0.15
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (28 bp):
TTAATTTAAATATTATAAATATTGATCT
Found at i:2741311 original size:23 final size:24
Alignment explanation
Indices: 2741259--2741312 Score: 76
Period size: 23 Copynumber: 2.2 Consensus size: 24
2741249 ACTTATAACA
2741259 ATTATATTAATAATATTATTAATT
1 ATTATATTAATAATATTATTAATT
2741283 ATTTATATTAAT-AT-TTATTAACTT
1 A-TTATATTAATAATATTATTAA-TT
2741307 ATTATA
1 ATTATA
2741313 GAGTTATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
23 12 0.43
24 6 0.21
25 10 0.36
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (24 bp):
ATTATATTAATAATATTATTAATT
Found at i:2741972 original size:31 final size:32
Alignment explanation
Indices: 2741917--2741976 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
2741907 AAATCTAGTT
*
2741917 ATTATTATAATTTATATTTAATTAATAATTAA
1 ATTATTATAATATATATTTAATTAATAATTAA
2741949 ATTATTATAA-ATATATATT-ATTAATAAT
1 ATTATTATAATATATAT-TTAATTAATAAT
2741977 ATTTTACTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 14 0.54
32 12 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (32 bp):
ATTATTATAATATATATTTAATTAATAATTAA
Found at i:2743642 original size:181 final size:180
Alignment explanation
Indices: 2743204--2743807 Score: 674
Period size: 181 Copynumber: 3.3 Consensus size: 180
2743194 TTTTTAAATA
* *
2743204 TTTATGACAAAACAAAAGGTCATAACGATTTGAAATAAATAATTATTCAAAT-GATCATAATTAT
1 TTTATGACAAAACAAAAGGTCATAACAATTTGAAATAAATAATTATTCAAATAG-TCATAACT-T
* ** * * *
2743268 TTTGAACATGTTCAAAAAACAAATTTATTTTATATAT-TTTTACTTATTAATCTTTGGAATATTA
64 TTTGAACTTGTTCAGTAAACAAATTTATTTTTTAAATCTTTTACTTATTAATTTTTGGAATATTA
* * * * *
2743332 GTAAATTTATATTATTTTATTTGAAATAAGCTTGTATGAACAAAAACAATTGT
129 ATAAA-TTATATTATTTTATTTCAAATAAGCCTATATGAACAAAAATAATTGT
* * * *
2743385 TTTATGGCTAAACAAAAAAAGGTCATAACAATTTGAAATAGATAATTGTTCAAATAGTCATAACT
1 TTTATGAC--AA-AACAAAAGGTCATAACAATTTGAAATAAATAATTATTCAAATAGTCATAACT
* ** * * * * * *
2743450 ATTTGAACTTGTTTTGTAAATAGATTCATTTTTTAAATCTCTTACTCATTAATTTTTGGAATAGT
63 TTTTGAACTTGTTCAGTAAACAAATTTATTTTTTAAATCTTTTACTTATTAATTTTTGGAATATT
* *** *
2743515 AATAAGTTAGTATTATTTTATTTCAAATAAGCCTATATGAATTGATATAATTGT
128 AATAAATTA-TATTATTTTATTTCAAATAAGCCTATATGAACAAAAATAATTGT
* * * * *
2743569 TTTATGACAAAATAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATAGTTATTACTTTT
1 TTTATGACAAAACAAAAGGTCATAACAATTTGAAATAAATAATTATTCAAATAGTCATAACTTTT
* * * * * *
2743634 TAAACTTGTTCGGTAAACATATTTATTTTTTAAATCTTTTGCTTATTAATTGTTGAAATATTAAT
66 TGAACTTGTTCAGTAAACAAATTTATTTTTTAAATCTTTTACTTATTAATTTTTGGAATATTAAT
* * *
2743699 AAATTAATATTATTTTAATCCGAATAAG-CTACTATGAACAAAAATAATTGT
131 AAATT-ATATTATTTTATTTCAAATAAGCCTA-TATGAACAAAAATAATTGT
* * *
2743750 TTTATGACAAAACAAAAGATCATAACAATTTGAAATAAATAATTGTTCTAATAGTCAT
1 TTTATGACAAAACAAAAGGTCATAACAATTTGAAATAAATAATTATTCAAATAGTCAT
2743808 CATTACTATT
Statistics
Matches: 350, Mismatches: 65, Indels: 16
0.81 0.15 0.04
Matches are distributed among these distances:
180 3 0.01
181 197 0.56
182 3 0.01
183 32 0.09
184 114 0.33
185 1 0.00
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (180 bp):
TTTATGACAAAACAAAAGGTCATAACAATTTGAAATAAATAATTATTCAAATAGTCATAACTTTT
TGAACTTGTTCAGTAAACAAATTTATTTTTTAAATCTTTTACTTATTAATTTTTGGAATATTAAT
AAATTATATTATTTTATTTCAAATAAGCCTATATGAACAAAAATAATTGT
Found at i:2743651 original size:466 final size:456
Alignment explanation
Indices: 2742748--2743668 Score: 995
Period size: 466 Copynumber: 2.0 Consensus size: 456
2742738 GAACAATTAT
* * * * * *
2742748 TTTATGGCTAAACAAACGGTCAAAATGATTTGAAATAGATAATTATTATAATAGTCTTAACTATT
1 TTTATGACAAAACAAAAGGTCAAAACGATTTGAAATAAATAATTATTATAATAGTCATAACTATT
* * * * * * *
2742813 TGAACTGGTTTAACAAATACATTTATTTTTTAAATCTCTTACTTATTAATTTTTAGAATATTATT
66 TGAACTGGTTCAAAAAACAAATTTATTTTATAAATCTCTTACTTATTAATCTTTAGAATATTATA
* * * * * * *
2742878 AGTTTAGTAATATTTTACTGCGAATAAGTTTGTATGGACAGAAATAATTGTTTTATGGCAAACAT
131 AATTTAGTAATATTTTACTGCAAATAAGCTTGTATGAACAAAAACAATTGTTTTATGGCAAACAA
* * *
2742943 AGATCATATCGATTTGAGATAGATAATTATTCAAATAGTCATAACTATTTGAATTGGTCGGATAA
196 AGATCATAACAATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAATTGGTCGGATAA
* *
2743008 ACAGATATAGTTTTAAATCTCTTATTAATTTTTAAAATATTAATAAATTAGTATTATTTTATTTT
261 ACAGATATAGTTTTAAATCTCTTATTAATTTTTAAAATAGTAATAAATTAGTATTATTTTATTTC
* *** * * *
2743073 GAATAATTTTGTATGAATAGAAACAATTGTTTTAGTACAAAACAAAGGATTATAACAATTTGAAG
326 AAATAAGCCTATATGAATAGAAACAATTGTTTTAGTACAAAAAAAAGGATCATAACAATTTGAAG
* * *
2743138 TTAATAATTATTTAAATAGTCATAATTATTTGAACTCACTTGGTAAACAAATTTATTTTTTAAAT
391 ATAATAATTATTCAAATAGTCATAATTATTTAAACTCACTTGGTAAACAAATTTATTTTTTAAAT
2743203 A
456 A
* *
2743204 TTTATGACAAAACAAAAGGTCATAACGATTTGAAATAAATAATTATTCA-AAT-GATCATAATTA
1 TTTATGACAAAACAAAAGGTCAAAACGATTTGAAATAAATAATTATT-ATAATAG-TCATAACTA
* * *
2743267 TTTTGAACAT-GTTCAAAAAACAAATTTATTTTATATAT-TTTTACTTATTAATCTTTGGAATAT
64 -TTTGAAC-TGGTTCAAAAAACAAATTTATTTTATAAATCTCTTACTTATTAATCTTTAGAATAT
* *
2743330 TAGTAAATTTA-TATTATTTTATTTG-AAATAAGCTTGTATGAACAAAAACAATTGTTTTATGGC
127 TA-TAAATTTAGTAATATTTTA-CTGCAAATAAGCTTGTATGAACAAAAACAATTGTTTTATGGC
* *
2743393 TAAACAAAAAAAGGTCATAACAATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAAC
190 -AAAC----AAAGATCATAACAATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAA-
* ** * * ** *
2743458 TTGTTTTG-TAAATAGAT-TCATTTTTTAAATCTCTTACTCATTAATTTTTGGAATAGTAATAAG
249 TTGGTCGGATAAACAGATAT-A-GTTTTAAATCTC-T--T-ATTAATTTTTAAAATAGTAATAAA
* * *
2743521 TTAGTATTATTTTATTTCAAATAAGCCTATATGAATTGATATAATTGTTTTA-TGACAAAATAAA
308 TTAGTATTATTTTATTTCAAATAAGCCTATATGAATAGAAACAATTGTTTTAGT-ACAAAA-AAA
* * * **
2743585 AGG-TCATAACGATTTGAA-ATAGATAATTATTCAAATAGTTATTACTT-TTTAAACT-TGTTCG
371 AGGATCATAACAATTTGAAGATA-ATAATTATTCAAATAGTCA-TAATTATTTAAACTCACTT-G
*
2743646 GTAAACATATTTATTTTTTAAAT
433 GTAAACAAATTTATTTTTTAAAT
2743669 CTTTTGCTTA
Statistics
Matches: 381, Mismatches: 61, Indels: 36
0.80 0.13 0.08
Matches are distributed among these distances:
455 1 0.00
456 117 0.31
457 42 0.11
458 1 0.00
460 1 0.00
461 58 0.15
462 16 0.04
463 1 0.00
465 6 0.02
466 129 0.34
467 9 0.02
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.42
Consensus pattern (456 bp):
TTTATGACAAAACAAAAGGTCAAAACGATTTGAAATAAATAATTATTATAATAGTCATAACTATT
TGAACTGGTTCAAAAAACAAATTTATTTTATAAATCTCTTACTTATTAATCTTTAGAATATTATA
AATTTAGTAATATTTTACTGCAAATAAGCTTGTATGAACAAAAACAATTGTTTTATGGCAAACAA
AGATCATAACAATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAATTGGTCGGATAA
ACAGATATAGTTTTAAATCTCTTATTAATTTTTAAAATAGTAATAAATTAGTATTATTTTATTTC
AAATAAGCCTATATGAATAGAAACAATTGTTTTAGTACAAAAAAAAGGATCATAACAATTTGAAG
ATAATAATTATTCAAATAGTCATAATTATTTAAACTCACTTGGTAAACAAATTTATTTTTTAAAT
A
Found at i:2744088 original size:304 final size:304
Alignment explanation
Indices: 2743563--2744111 Score: 764
Period size: 304 Copynumber: 1.8 Consensus size: 304
2743553 GAATTGATAT
* * * **
2743563 AATTGTTTTATGACAAAATAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATAGTTATT
1 AATTATTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTATTCAAATAGCCATT
* * * * **
2743628 ACTTTTTAAACTTGTTCGGTAAACATATTTATTTTTTAAATCTTTTGCTTATTAATTGTTGAAAT
66 AATTTTTAAACTCGTTCGGTAAACAGATTCATTTTTTAAATCTTTCACTTATTAATTGTTGAAAT
* *
2743693 ATTAATAAATTAATATTATTTTAATCCGAATAAGCTACTATGAACAAAAATAATTGTTTTATGAC
131 ATTAATAAATTAATATTATGTTAATCCGAATAAGCTACTATGAACAAAAACAATTGTTTTATGAC
* *
2743758 AAAACAAAAGATCATAACAATTTGAAATAAATAATTGTTCTAATAGTCATCATTACTATTCAAAA
196 AAAACAAAAGATCAAAACAATTTGAAATAAATAATTGTTCAAATAGTCATCATTACTATTCAAAA
2743823 TTATTCGGTAAATAGATTTGAAATAAGCTTGTAAGAATACAAAA
261 TTATTCGGTAAATAGATTTGAAATAAGCTTGTAAGAATACAAAA
* * * * *
2743867 AATTATTTTATGACAATACAAAAGGTTATAGCAATTTGAACTAGATAATTGTTCAAATAGCCA-T
1 AATTATTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTATTCAAATAGCCATT
* *
2743931 AATTATTTGAACTCGTTCGGTAAACAGATTCATTTTTTAAAT-TTCTCACTTATTAATTTTTGAA
66 AATT-TTTAAACTCGTTCGGTAAACAGATTCATTTTTTAAATCTT-TCACTTATTAATTGTTGAA
* * ** *
2743995 ATATTAATAAATTAGA-ATTATGTTATTCTGAATAAGCTTGTATGAACAAAAACAATTGTTTTGT
129 ATATTAATAAATTA-ATATTATGTTAATCCGAATAAGCTACTATGAACAAAAACAATTGTTTTAT
* * *
2744059 GAGAAAACAAAA-AGTCAAAACGATTTGAAATAGATAATTGTTCAAATAGTCAT
193 GACAAAACAAAAGA-TCAAAACAATTTGAAATAAATAATTGTTCAAATAGTCAT
2744112 AATTGTTTAC
Statistics
Matches: 211, Mismatches: 30, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
303 7 0.03
304 203 0.96
305 1 0.00
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (304 bp):
AATTATTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTATTCAAATAGCCATT
AATTTTTAAACTCGTTCGGTAAACAGATTCATTTTTTAAATCTTTCACTTATTAATTGTTGAAAT
ATTAATAAATTAATATTATGTTAATCCGAATAAGCTACTATGAACAAAAACAATTGTTTTATGAC
AAAACAAAAGATCAAAACAATTTGAAATAAATAATTGTTCAAATAGTCATCATTACTATTCAAAA
TTATTCGGTAAATAGATTTGAAATAAGCTTGTAAGAATACAAAA
Found at i:2744107 original size:16 final size:17
Alignment explanation
Indices: 2744086--2744118 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
2744076 AAACGATTTG
2744086 AAATAG-ATAATTGTTC
1 AAATAGCATAATTGTTC
2744102 AAATAGTCATAATTGTT
1 AAATAG-CATAATTGTT
2744119 TACATTGGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.39
Consensus pattern (17 bp):
AAATAGCATAATTGTTC
Found at i:2744165 original size:181 final size:180
Alignment explanation
Indices: 2743844--2744484 Score: 546
Period size: 181 Copynumber: 3.5 Consensus size: 180
2743834 ATAGATTTGA
* * * * * * * * * *
2743844 AATAAGCTTGTAAGAATACAAAA-AATTATTTTATGACAATACAAAAGGTTATAGCAATTTGAAC
1 AATAAGCTTATATGAACA-AAAACAATTGTTTTATGACAAAACAAAAGGTCAAAACGATTTGAAA
* * * * * ** ** * * * *
2743908 TAGATAATTGTTCAAATAGCCATAATTATTTGAACTCGTTCGGTAAACAGATTCATTTTTTAAAT
65 TAAATAATTGTTCAAATAGTCATAACTAATTGAACTGGTAAGCCAAACAAATACAATTTCTAAAT
* *
2743973 TTCTCACTTATTAATTTTTGAAATATTAATAAATTAGAATTATGTTATTCTG
130 CTCTTACTTATTAATTTTTGAAATATTAATAAATTAGAATTAT-TTATTCTG
* * * *
2744025 AATAAGCTTGTATGAACAAAAACAATTGTTTTGTGAGAAAACAAAAAGTCAAAACGATTTGAAAT
1 AATAAGCTTATATGAACAAAAACAATTGTTTTATGACAAAACAAAAGGTCAAAACGATTTGAAAT
* ** * * *
2744090 AGATAATTGTTCAAATAGTCATAA-TTGTTTACATTGGTCAAGCCAAA-AGATACAATTTCTAAA
66 AAATAATTGTTCAAATAGTCATAACTAATTGA-ACTGGT-AAGCCAAACAAATACAATTTCTAAA
** *
2744153 TC-CATTACTTATTAATTTTCAAAATATTAATAAATTAGCATTACTTTATT-TCG
129 TCTC-TTACTTATTAATTTTTGAAATATTAATAAATTAGAATTA-TTTATTCT-G
* * * * *
2744206 AATAAGATTATATGAACAGAAACAATTGTTTTATGATAAAA-AAAATGGTCATAATGATTTGAAA
1 AATAAGCTTATATGAACAAAAACAATTGTTTTATGACAAAACAAAA-GGTCAAAACGATTTGAAA
* * * * ** * *
2744270 TAAATATTTAG-TCAAATAGTTATAACTAATTGAACTGGTATGGCAAACAAATTTATTTTTTAAA
65 TAAATAATT-GTTCAAATAGTCATAACTAATTGAACTGGTAAGCCAAACAAATACAATTTCTAAA
**
2744334 TCTCTTA-TGTATTAATTTTTGAAATATTAATAAATTA-ATATTATTTTATTCCA
129 TCTCTTACT-TATTAATTTTTGAAATATTAATAAATTAGA-ATTA-TTTATTCTG
* * * * *
2744387 AACAAACTTATGTGAACAAAAACATTTGTTTTATGACAAAACAAAAGGT-AATAACAATTTGAAA
1 AATAAGCTTATATGAACAAAAACAATTGTTTTATGACAAAACAAAAGGTCAA-AACGATTTGAAA
* * *
2744451 TAAATAATTATTCAAATAGTCATAAGTATTTGAA
65 TAAATAATTGTTCAAATAGTCATAACTAATTGAA
2744485 ATAGTTTTGT
Statistics
Matches: 370, Mismatches: 73, Indels: 34
0.78 0.15 0.07
Matches are distributed among these distances:
180 22 0.06
181 333 0.90
182 15 0.04
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.37
Consensus pattern (180 bp):
AATAAGCTTATATGAACAAAAACAATTGTTTTATGACAAAACAAAAGGTCAAAACGATTTGAAAT
AAATAATTGTTCAAATAGTCATAACTAATTGAACTGGTAAGCCAAACAAATACAATTTCTAAATC
TCTTACTTATTAATTTTTGAAATATTAATAAATTAGAATTATTTATTCTG
Found at i:2744804 original size:127 final size:127
Alignment explanation
Indices: 2744657--2744911 Score: 483
Period size: 127 Copynumber: 2.0 Consensus size: 127
2744647 AATAGTCAAG
*
2744657 ACTATTTGAGTTGGTACGATAAACAGATATAGTTTTTAAATCTCTTATTAATTTTCAAAATATTA
1 ACTATTTGAATTGGTACGATAAACAGATATAGTTTTTAAATCTCTTATTAATTTTCAAAATATTA
*
2744722 ATAAATTAGTATTGTTTTATTTTGAATAATTTTGTATGAATAGAAACAATTGTTTTATTACA
66 ATAAATTAGTATTATTTTATTTTGAATAATTTTGTATGAATAGAAACAATTGTTTTATTACA
*
2744784 ACTATTTGAATTGGTACGATAAGCAGATATAGTTTTTAAATCTCTTATTAATTTTCAAAATATTA
1 ACTATTTGAATTGGTACGATAAACAGATATAGTTTTTAAATCTCTTATTAATTTTCAAAATATTA
2744849 ATAAATTAGTATTATTTTATTTTGAATAATTTTGTATGAATAGAAACAATTGTTTTATTACA
66 ATAAATTAGTATTATTTTATTTTGAATAATTTTGTATGAATAGAAACAATTGTTTTATTACA
2744911 A
1 A
2744912 AAGAAAGGAT
Statistics
Matches: 125, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
127 125 1.00
ACGTcount: A:0.38, C:0.06, G:0.11, T:0.45
Consensus pattern (127 bp):
ACTATTTGAATTGGTACGATAAACAGATATAGTTTTTAAATCTCTTATTAATTTTCAAAATATTA
ATAAATTAGTATTATTTTATTTTGAATAATTTTGTATGAATAGAAACAATTGTTTTATTACA
Found at i:2745610 original size:362 final size:362
Alignment explanation
Indices: 2744973--2745672 Score: 902
Period size: 362 Copynumber: 1.9 Consensus size: 362
2744963 AAACAAATTT
* * ** *
2744973 ATTTTTTAAATATTTTACTTATTAATTTTTGAAATTTTAATAAATTAGTATTATTTTATTTTGAA
1 ATTTTTTAAATATCTTACTCATTAATTTTTGAAATAGTAATAAATTAGTATTATTTTATTTCGAA
* * *
2745038 TAAGCTTTTATGAATAGAAACAATTGGTTTATAACAAAAAAAGAGGTCATAGTGATTTGAAATAG
66 TAAGCCTATATGAATAGAAACAATTGGTTTATAACAAAAAAAGAGGTCATAGCGATTTGAAATAG
* * * * *
2745103 ATAATTGTTCAAATGGTAATAATTATTTTGAACGTGTTCAAAAAATAAATTTATTTTATATATTT
131 ATAATTATTCAAATAGTAATAACTATTTTGAACGTGTTCAAAAAACAAATTTATTTTATAAATTT
* * * * ** **
2745168 TTACTTATTAATCTTTGGAATATTAGTAAATTTATATTATTTTATTTGAAATAAGCTTGTATGAA
196 TTACTTATTAATCTTTGAAATATTAATAAATTAATATTATTTTAATCCAAATAAGCTAATATGAA
** * * *
2745233 CAGCAACAATTGTTTTATGGCAAAACAAAAGGTCATAACAATTTGAAATAGATAATTGTTCAAAT
261 CAAAAACAATTGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAAATAATTATTCAAAT
*
2745298 TGTCATAACTATTTGAACTTGTTTGGTAAATAGATTC
326 AGTCATAACTATTTGAACTTGTTTGGTAAATAGATTC
* * *
2745335 ATTTTTTAAATCTCTTACTCATTAATTTTTGGAATAGTAATAAGTTAGTATTATTTTATTTCGAA
1 ATTTTTTAAATATCTTACTCATTAATTTTTGAAATAGTAATAAATTAGTATTATTTTATTTCGAA
* * * * * *** *
2745400 TAAGCCTATATTAATTGATATAATTGTTTTATGGTGAAACAAA-AGGTCATAGCGATTTGAAATA
66 TAAGCCTATATGAATAGAAACAATTGGTTTAT-AACAAAAAAAGAGGTCATAGCGATTTGAAATA
* * * *** * *
2745464 GATAATTATTCAAATAGTTATTACTA-TTTGAACTTGTTCGGTAAACATATTTATTTTTTAAATC
130 GATAATTATTCAAATAGTAATAACTATTTTGAACGTGTTCAAAAAACAAATTTATTTTATAAAT-
*
2745528 TTTTACTTATTAAT-TGTTGAAATATTAATAAATTAATATTATTTTAATCCAAATAGGCTAATAT
194 TTTTACTTATTAATCT-TTGAAATATTAATAAATTAATATTATTTTAATCCAAATAAGCTAATAT
* *
2745592 GAACAAAAATAATTGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAAATAATTATTCC
258 GAACAAAAACAATTGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAAATAATTATTCA
2745657 AATAGTCATAACTATT
323 AATAGTCATAACTATT
2745673 CAAAATTATT
Statistics
Matches: 285, Mismatches: 50, Indels: 6
0.84 0.15 0.02
Matches are distributed among these distances:
361 30 0.11
362 249 0.87
363 6 0.02
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.42
Consensus pattern (362 bp):
ATTTTTTAAATATCTTACTCATTAATTTTTGAAATAGTAATAAATTAGTATTATTTTATTTCGAA
TAAGCCTATATGAATAGAAACAATTGGTTTATAACAAAAAAAGAGGTCATAGCGATTTGAAATAG
ATAATTATTCAAATAGTAATAACTATTTTGAACGTGTTCAAAAAACAAATTTATTTTATAAATTT
TTACTTATTAATCTTTGAAATATTAATAAATTAATATTATTTTAATCCAAATAAGCTAATATGAA
CAAAAACAATTGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAAATAATTATTCAAAT
AGTCATAACTATTTGAACTTGTTTGGTAAATAGATTC
Found at i:2745687 original size:181 final size:181
Alignment explanation
Indices: 2744940--2745696 Score: 789
Period size: 181 Copynumber: 4.2 Consensus size: 181
2744930 TTTGAAATAA
* *** * *
2744940 ATAATTATTTGAACTCACTCGGCAAACAAATTTATTTTTTAAATATTTTACTTATTAATTTTTGA
1 ATAACTATTTGAACTTGTTCGGTAAACAAATTTATTTTTTAAATCTTTTACTTATTAATTTTTGA
* * ** * * *
2745005 AATTTTAATAAATTAGTATTATTTTATTTTGAATAAGCTTTTATGAATAGAAACAATTGGTTTAT
66 AATATTAATAAATTAATATTATTTTATTTCAAATAAGCTTATATGAACAGAAACAATTGTTTTAT
* *** * * *
2745070 AACAAAA-AAAGAGGTCATAGTGATTTGAAATAGATAATTGTTCAAATGGTA
131 GACAAAACAAA-AGGTCATAACAATTTGAAATAGATAATTATTCAAATAGTC
* * *** * * * *
2745121 ATAATTATTTTGAACGTGTTCAAAAAATAAATTTATTTTATATAT-TTTTACTTATTAATCTTTG
1 ATAACTA-TTTGAACTTGTTCGGTAAACAAATTTATTTTTTAAATCTTTTACTTATTAATTTTTG
* * * * * *
2745185 GAATATTAGTAAATTTATATTATTTTATTTGAAATAAGCTTGTATGAACAGCAACAATTGTTTTA
65 AAATATTAATAAATTAATATTATTTTATTTCAAATAAGCTTATATGAACAGAAACAATTGTTTTA
* * *
2745250 TGGCAAAACAAAAGGTCATAACAATTTGAAATAGATAATTGTTCAAATTGTC
130 TGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTATTCAAATAGTC
* * * * * * *
2745302 ATAACTATTTGAACTTGTTTGGTAAATAGATTCATTTTTTAAATCTCTTACTCATTAATTTTTGG
1 ATAACTATTTGAACTTGTTCGGTAAACAAATTTATTTTTTAAATCTTTTACTTATTAATTTTTGA
* * * * * * ** * *
2745367 AATAGTAATAAGTTAGTATTATTTTATTTCGAATAAGCCTATATTAATTGATATAATTGTTTTAT
66 AATATTAATAAATTAATATTATTTTATTTCAAATAAGCTTATATGAACAGAAACAATTGTTTTAT
*** * * *
2745432 GGTGAAACAAAAGGTCATAGCGATTTGAAATAGATAATTATTCAAATAGTT
131 GACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTATTCAAATAGTC
* * *
2745483 ATTACTATTTGAACTTGTTCGGTAAACATATTTATTTTTTAAATCTTTTACTTATTAATTGTTGA
1 ATAACTATTTGAACTTGTTCGGTAAACAAATTTATTTTTTAAATCTTTTACTTATTAATTTTTGA
* * * * * *
2745548 AATATTAATAAATTAATATTATTTTAATCCAAATAGGCTAATATGAACAAAAATAATTGTTTTAT
66 AATATTAATAAATTAATATTATTTTATTTCAAATAAGCTTATATGAACAGAAACAATTGTTTTAT
* *
2745613 GACAAAACAAAAGGTCATAACAATTTGAAATAAATAATTATTCCAATAGTC
131 GACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTATTCAAATAGTC
** * * *
2745664 ATAACTATTCAAAATTATTCGGTAAACAGATTT
1 ATAACTATTTGAACTTGTTCGGTAAACAAATTT
2745697 GAAATAAGCT
Statistics
Matches: 472, Mismatches: 101, Indels: 6
0.82 0.17 0.01
Matches are distributed among these distances:
180 28 0.06
181 414 0.88
182 30 0.06
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (181 bp):
ATAACTATTTGAACTTGTTCGGTAAACAAATTTATTTTTTAAATCTTTTACTTATTAATTTTTGA
AATATTAATAAATTAATATTATTTTATTTCAAATAAGCTTATATGAACAGAAACAATTGTTTTAT
GACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTATTCAAATAGTC
Found at i:2745804 original size:119 final size:121
Alignment explanation
Indices: 2745597--2745814 Score: 287
Period size: 119 Copynumber: 1.8 Consensus size: 121
2745587 AATATGAACA
* *
2745597 AAAATAATTGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAAATAATTATTCCAATAG
1 AAAATAATTATTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAAATAATTATTCAAATAG
* *
2745662 TCATAACTATTCAAAATTATTCGGTAAACAGATTTGAAATAAGCTTGAATGAATAG
66 CCATAACTATTCAAAATCATTCGGTAAACAGATTTGAAATAAGCTTGAATGAATAG
* * * * * *
2745718 AAAA-AATTATTTTATGACAATA-AAAAGGTTATAGCAATTTGAACTAGATAATTGTTCAAATAG
1 AAAATAATTATTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAAATAATTATTCAAATAG
* ** * *
2745781 CCATAATTATTTGAACTCGTTCGGTAAACAGATT
66 CCATAACTATTCAAAATCATTCGGTAAACAGATT
2745815 CATTTTTTAA
Statistics
Matches: 82, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
119 62 0.76
120 16 0.20
121 4 0.05
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (121 bp):
AAAATAATTATTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAAATAATTATTCAAATAG
CCATAACTATTCAAAATCATTCGGTAAACAGATTTGAAATAAGCTTGAATGAATAG
Found at i:2745957 original size:661 final size:661
Alignment explanation
Indices: 2745032--2746305 Score: 1566
Period size: 661 Copynumber: 1.9 Consensus size: 661
2745022 ATTATTTTAT
** * * **
2745032 TTTGAATAAGCTTTTATGAATAGAAACAATTGGTTTATAACAAAAAAAGAGGTCATAGTGATTTG
1 TTTGAATAAGCTTGAATGAATAGAAAAAATTAGTTTATAACAAAAAAAGAGGTCATAGCAATTTG
* * * *
2745097 AAATAGATAATTGTTCAAATGGTAATAATTATTTTGAACGTGTTCAAAAAATAAATTTATTTTAT
66 AAATAGATAATTGTTCAAATAGCAATAATTATTTTGAACGTGTTCAAAAAACAAATTCATTTTAT
* * * * * *
2745162 ATATTTTTACTTATTAATCTTTGGAATATTAGTAAATTTATATTATTTTATTTGAAATAAGCTTG
131 AAATTGTCACTTATTAATCTTTAGAATATTAATAAATTTAAATTATTTTA-TTGAAATAAGCTTG
**
2745227 TATGAACAGCAACAATTGTTTTATGGCAAAACAAAAGGTCATAACAATTTGAAATAGATAATTGT
195 TATGAACAAAAACAATTGTTTTATGGCAAAACAAAAGGTCATAACAATTTGAAATAGATAATTGT
* * ** ** * * *
2745292 TCAAATTGTCATAACTATTTGAACTTGT-TTGGTAAATAGATTCATTTTTTAAATCTC-TTACTC
260 TCAAATAGTCATAACTATTTGAACTGGTCAAGCCAAA-AAATACATTTTCTAAATC-CATTACTC
*** * * * * * *** *
2745355 ATTAATTTTTGGAATAGTAATAAGTTAGTATTATTTTATT-TCGAATAAGCCTATATTAATTGAT
323 ATTAATTTTCAAAATAGTAATAAATTAGCATTACTTTATTAT-GAATAAGACTATATGAACAAAA
* * * * * *
2745419 ATAATTGTTTTATGGTGAAACAAAAGGTCATAGCGATTTGAAATAGATAATT-ATTCAAATAGTT
387 ATAATTGTATTATGATAAAACAAAAGGTCATAACGACTTGAAATAAATAATTGA-TCAAATAGTT
* * * * * * *
2745483 ATTACTATTTGAACTTGT-TCGGTAAACATATTTATTTTTTAAATCTTTTACT-TATTAATTGTT
451 ATAACTAATTGAACTGGTAT-GGCAAACAGATTTATTTTCTAAATCTCTTA-TGTATTAATTGTT
* ** *
2745546 GAAATATTAATAAATTAATATTATTTTAATCCAAATAGGCTAATATGAACAAAAATAATTGTTTT
514 GAAATATTAATAAATTAATATTATTTTAATCCAAACAAACTAATATGAACAAAAACAATTGTTTT
*
2745611 ATGACAAAACAAAAGGTCATAACAATTTGAAATAAATAATTATTCCAATAGTCATAACTATTCAA
579 ATGACAAAACAAAAGGTAATAACAATTTGAAATAAATAATTATTCCAATAGTCATAACTATTCAA
2745676 AATTATTCGGTAAACAGA
644 AATTATTCGGTAAACAGA
* * * *
2745694 TTTGAAATAAGCTTGAATGAATAGAAAAAATTATTTTATGACAATAAAA-AGGTTATAGCAATTT
1 TTTG-AATAAGCTTGAATGAATAGAAAAAATTAGTTTATAACAAAAAAAGAGGTCATAGCAATTT
* * *** *
2745758 GAACTAGATAATTGTTCAAATAGCCATAATTA-TTTGAAC-TCGTTCGGTAAACAGATTCATTTT
65 GAAATAGATAATTGTTCAAATAGCAATAATTATTTTGAACGT-GTTCAAAAAACAAATTCATTTT
* *
2745821 TTAAATCTGTCACTTATTAATTTTTAGAATATTAATAAA-TTAGAATTATGCTTTA-TG-AATAA
129 ATAAAT-TGTCACTTATTAATCTTTAGAATATTAATAAATTTA-AATTAT--TTTATTGAAATAA
* *
2745883 GCTTGTATGAACAAAAACAATTTTTTTGTGAG-AAAACAAAAGGTCATAACAATTTGAAATAGAT
190 GCTTGTATGAACAAAAACAATTGTTTTATG-GCAAAACAAAAGGTCATAACAATTTGAAATAGAT
* * *
2745947 AATTGTTCAAATAGTCATAATTGTTTGCACTGGTCAAGCCAAAAAATACATTTTCTAAATCCATT
254 AATTGTTCAAATAGTCATAACTATTTGAACTGGTCAAGCCAAAAAATACATTTTCTAAATCCATT
* * *
2746012 ACTTATTAATTTTCAAAATATTAATAAATTAGCATTACTTTATTATGAATAAGATTATATGAACA
319 ACTCATTAATTTTCAAAATAGTAATAAATTAGCATTACTTTATTATGAATAAGACTATATGAACA
* *
2746077 AAAATAATTGTATTATGATAAAACAAATGGTCATAACGACTTGAAATAAATATTTGATCAAATAG
384 AAAATAATTGTATTATGATAAAACAAAAGGTCATAACGACTTGAAATAAATAATTGATCAAATAG
* *
2746142 TTATAACTAATTGAACTGGTATGGCAAATAGATTTATTTTCTAAATCTCTTATGTATTAATTTTT
449 TTATAACTAATTGAACTGGTATGGCAAACAGATTTATTTTCTAAATCTCTTATGTATTAATTGTT
* * * *
2746207 GAAATATTAATAAATTAATATTATTTTACTCTAAACAAACTTATATGAACAAAAACATTTGTTTT
514 GAAATATTAATAAATTAATATTATTTTAATCCAAACAAACTAATATGAACAAAAACAATTGTTTT
2746272 ATGACAAAACAAAAGGTAATAACAATTTGAAATA
579 ATGACAAAACAAAAGGTAATAACAATTTGAAATA
2746306 GTTTGGTAAA
Statistics
Matches: 514, Mismatches: 85, Indels: 27
0.82 0.14 0.04
Matches are distributed among these distances:
660 3 0.01
661 384 0.75
662 86 0.17
663 37 0.07
664 4 0.01
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (661 bp):
TTTGAATAAGCTTGAATGAATAGAAAAAATTAGTTTATAACAAAAAAAGAGGTCATAGCAATTTG
AAATAGATAATTGTTCAAATAGCAATAATTATTTTGAACGTGTTCAAAAAACAAATTCATTTTAT
AAATTGTCACTTATTAATCTTTAGAATATTAATAAATTTAAATTATTTTATTGAAATAAGCTTGT
ATGAACAAAAACAATTGTTTTATGGCAAAACAAAAGGTCATAACAATTTGAAATAGATAATTGTT
CAAATAGTCATAACTATTTGAACTGGTCAAGCCAAAAAATACATTTTCTAAATCCATTACTCATT
AATTTTCAAAATAGTAATAAATTAGCATTACTTTATTATGAATAAGACTATATGAACAAAAATAA
TTGTATTATGATAAAACAAAAGGTCATAACGACTTGAAATAAATAATTGATCAAATAGTTATAAC
TAATTGAACTGGTATGGCAAACAGATTTATTTTCTAAATCTCTTATGTATTAATTGTTGAAATAT
TAATAAATTAATATTATTTTAATCCAAACAAACTAATATGAACAAAAACAATTGTTTTATGACAA
AACAAAAGGTAATAACAATTTGAAATAAATAATTATTCCAATAGTCATAACTATTCAAAATTATT
CGGTAAACAGA
Found at i:2745960 original size:16 final size:17
Alignment explanation
Indices: 2745939--2745971 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
2745929 TAACAATTTG
2745939 AAATAG-ATAATTGTTC
1 AAATAGCATAATTGTTC
2745955 AAATAGTCATAATTGTT
1 AAATAG-CATAATTGTT
2745972 TGCACTGGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.39
Consensus pattern (17 bp):
AAATAGCATAATTGTTC
Found at i:2746042 original size:180 final size:177
Alignment explanation
Indices: 2745699--2746306 Score: 588
Period size: 181 Copynumber: 3.4 Consensus size: 177
2745689 ACAGATTTGA
* * * * *
2745699 AATAAGCTTGA-ATGAATAGAAAA-AATTATTTTATGACAATA-AAAAGGTTATAGCAATTTGAA
1 AATAAGCTT-ATATGAACA-AAAACAATTTTTTTATGACAAAACAAAAGGTCATAACAATTTGAA
* * * * *
2745761 CTAGATAATTGTTCAAATAGCCATAATTATTTGAACTCGTTC-GGTAAACAGATTCATTTTTTAA
64 ATAGATAATTGTTCAAATAGTCATAATTATTTGAACT-GGTCAGGCAAACAGATTCATTTTCTAA
*
2745825 AT-CTGTCACTTATTAATTTTTAGAATATTAATAAATTAGAATTATGCTTTATG
128 ATCCT-T-ACTTATTAATTTTTAAAATATTAATAAATTAGAATTAT--TTTATG
* * *
2745878 AATAAGCTTGTATGAACAAAAACAATTTTTTTGTGAGAAAACAAAAGGTCATAACAATTTGAAAT
1 AATAAGCTTATATGAACAAAAACAATTTTTTTATGACAAAACAAAAGGTCATAACAATTTGAAAT
* * * * *
2745943 AGATAATTGTTCAAATAGTCATAATTGTTTGCACTGGTCAAGCCAAA-AAATACATTTTCTAAAT
66 AGATAATTGTTCAAATAGTCATAATTATTTGAACTGGTC-AGGCAAACAGATTCATTTTCTAAAT
* *
2746007 CCATTACTTATTAATTTTCAAAATATTAATAAATTAGCATTACTTTATTATG
130 CC-TTACTTATTAATTTTTAAAATATTAATAAATTAGAATTA--TT-TTATG
* * * * * * * *
2746059 AATAAGATTATATGAACAAAAATAATTGTATTATGATAAAACAAATGGTCATAACGACTTGAAAT
1 AATAAGCTTATATGAACAAAAACAATTTTTTTATGACAAAACAAAAGGTCATAACAATTTGAAAT
* * * * * * * *
2746124 AAATATTTGATCAAATAGTTATAACTAATTGAACTGGT-ATGGCAAATAGATTTATTTTCTAAAT
66 AGATAATTGTTCAAATAGTCATAATTATTTGAACTGGTCA-GGCAAACAGATTCATTTTCTAAAT
* *
2746188 CTCTTA-TGTATTAATTTTTGAAATATTAATAAATTA-ATATTATTTTACTCTA
130 C-CTTACT-TATTAATTTTTAAAATATTAATAAATTAGA-ATTATTTTA---TG
* * *
2746240 AACAAACTTATATGAACAAAAAC-ATTTGTTTTATGACAAAACAAAAGGTAATAACAATTTGAAA
1 AATAAGCTTATATGAACAAAAACAATTT-TTTTATGACAAAACAAAAGGTCATAACAATTTGAAA
2746304 TAG
65 TAG
2746307 TTTGGTAAAC
Statistics
Matches: 351, Mismatches: 59, Indels: 36
0.79 0.13 0.08
Matches are distributed among these distances:
178 7 0.02
179 35 0.10
180 110 0.31
181 196 0.56
182 3 0.01
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.37
Consensus pattern (177 bp):
AATAAGCTTATATGAACAAAAACAATTTTTTTATGACAAAACAAAAGGTCATAACAATTTGAAAT
AGATAATTGTTCAAATAGTCATAATTATTTGAACTGGTCAGGCAAACAGATTCATTTTCTAAATC
CTTACTTATTAATTTTTAAAATATTAATAAATTAGAATTATTTTATG
Found at i:2746713 original size:182 final size:180
Alignment explanation
Indices: 2746368--2747818 Score: 1058
Period size: 181 Copynumber: 8.1 Consensus size: 180
2746358 TCTGTTCGTG
* * * *** * *
2746368 CAAGCTTATTCGAATTAAAATAATATTAATTTATTAATATTTTGACAATTAATAAGTGAAAGATT
1 CAAGCTTATTTGAAATAAAATAATACTAATTTATTAATATTCCAAAAATTAATAAGTAAAAGATT
* * *
2746433 TAAAAAATAAATATGTTTACCAAACAAGTTCAAATAGTCAAGACTATTTAAATAATTATCTATTT
66 TAAAAAATAAATCTGTTTACCAAACAAGTTCAAATAGTTATGACTATTTAAATAATTATCTATTT
* * * * * *
2746498 CAAATAATTGTGA-CCTTCTATTTTGTAATAAAATAATTGTTTTAGTTAACA
131 CAAATCATTATGATCATT-TGTTTTGTCATAAAATAATTGTTTTA-TTCACA
* * * *
2746549 TAAGCTTATTTGAAATAAAATAGCT-CTAATTTATTAATATACCAAAAATTAATGAGTAAAAGAA
1 CAAGCTTATTTGAAATAAAATA-ATACTAATTTATTAATATTCCAAAAATTAATAAGTAAAAG-A
* * * * * *
2746613 TTAAAAAAATGAACCTATTTACCGAACAAGTTCAAATAGTTATGACTATCTAAATAATTATCTAT
64 TTTAAAAAATAAATCTGTTTACCAAACAAGTTCAAATAGTTATGACTATTTAAATAATTATCTAT
* * * **
2746678 TTCAAAACATTATGATCATTTGTTTTGTCATAAAATAATTAGTTCTGTTCATG
129 TTCAAATCATTATGATCATTTGTTTTGTCATAAAATAATT-GTTTTATTCACA
* * *
2746731 CAAGCTTATTTTG-AATAAAATAATA-TAAATTTATTAAAACTCCAAAAATTAATAAATAAAA-A
1 CAAGCTTA-TTTGAAATAAAATAATACT-AATTTATTAATATTCCAAAAATTAATAAGTAAAAGA
* **** * * *
2746793 TTTAAAAAATAAATATGTTTTTTGAACACA-TTC-AATAGTTATGAATATTTGAACAATTATCTA
64 TTTAAAAAATAAATCTGTTTACCAAACA-AGTTCAAATAGTTATGACTATTTAAATAATTATCTA
** * ** * *
2746856 TTTCAAATCATTATGAAAATTTATTTTGTCATAAACCAATTATTTCTATTCATA
128 TTTCAAATCATTATGATCATTTGTTTTGTCATAAAATAATTGTTT-TATTCACA
* * * * *
2746910 CAAGCTTATTTGAAATAAAATAATATTAGTTTATTAATATTTCTAAAGTTAATAAGTAAAAGATT
1 CAAGCTTATTTGAAATAAAATAATACTAATTTATTAATATTCCAAAAATTAATAAGTAAAAGATT
* * * * * * *
2746975 TAAATAATAAATTTGTTTACCAAGCAAGTTCAAATAGTTATTACTATTTGAACAATTATATATTT
66 TAAAAAATAAATCTGTTTACCAAACAAGTTCAAATAGTTATGACTATTTAAATAATTATCTATTT
* * * *
2747040 CAAATCTTTATAATCTTTTGTTTTGTCATAAAACAATTGTTTTTATTCACA
131 CAAATCATTATGATCATTTGTTTTGTCATAAAATAATTG-TTTTATTCACA
* * * * * *
2747091 CAAGTTTATTTGGAATAAAATAATACTAATTTATTATTATTCTAAAAATTAATAAGTTAGAGATT
1 CAAGCTTATTTGAAATAAAATAATACTAATTTATTAATATTCCAAAAATTAATAAGTAAAAGATT
* * * * * * *
2747156 TAAAAAATAAATCTGTTTACTAAACAAGTTTAAATTGTCAT-ATCCATTTGAACT-ATTATTTAT
66 TAAAAAATAAATCTGTTTACCAAACAAGTTCAAATAGTTATGA-CTATTT-AAATAATTATCTAT
* * * *
2747219 TTCAAATCGTTATGAT-ATTTTGTTTTATTATAAAATAATTGTTTCTATTCATA
129 TTCAAATCATTATGATCA-TTTGTTTTGTCATAAAATAATTGTTT-TATTCACA
** ** * * *
2747272 CAAAATTATTCAAAATAAAATAATACCAATTTATTACTATTTCAAAAATTAATAAG-----GATT
1 CAAGCTTATTTGAAATAAAATAATACTAATTTATTAATATTCCAAAAATTAATAAGTAAAAGATT
* * * * *
2747332 T-AAAGATAAATGTGCTTT-CCGAAGCAA-TTCAAATAGTTAAGACTA-TTAGAACAATTATCTA
66 TAAAAAATAAATCTG-TTTACC-AAACAAGTTCAAATAGTTATGACTATTTA-AATAATTATCTA
* * * * * *
2747393 TTTCAAATTATTTTGAT-ATTTTGTTTAGTCAAAAAATAATTGTTTCAATTCATA
128 TTTCAAATCATTATGATCA-TTTGTTTTGTCATAAAATAATTGTTT-TATTCACA
* ** * * * *
2747447 CATGCTTATTCAAAATATAGTAATACTAATTTATTAAAATT-TAGAAAATTAATAAG---AA-AT
1 CAAGCTTATTTGAAATAAAATAATACTAATTTATTAATATTCCA-AAAATTAATAAGTAAAAGAT
* * * * * ** *
2747507 TT--TAAA-AAATCTATATACCGAATAAGTTCAAATAGTTATGACTATTTGCACAATTATCTATT
65 TTAAAAAATAAATCTGTTTACCAAACAAGTTCAAATAGTTATGACTATTTAAATAATTATCTATT
* * * * * * * * * * *
2747569 TAAAATCATTATGACCTTTTATTTTATCATAAAACAACTATTTCAGTACATA
130 TCAAATCATTATGATCATTTGTTTTGTCATAAAATAATTGTTTTA-TTCACA
* * * * ** ** * *** *
2747621 AAAG-TTTTTCTAAAATAAAATAATATTGCTTTATTAATATTTAAAAAATTAAGAAGTTGGAGTT
1 CAAGCTTATT-TGAAATAAAATAATACTAATTTATTAATATTCCAAAAATTAATAAGTAAAAGAT
* ** * * * ** *
2747685 TTAAAAAATAAAT-TAGTTTATCAAATTA-TTCAAATAATTATGGCCATTGGAATAATTATCAAT
65 TTAAAAAATAAATCT-GTTTACCAAACAAGTTCAAATAGTTATGACTATTTAAATAATTATCTAT
* * * *
2747748 TTCAAATCATTATGAACTTTTGTTTTGTCATAAAACAATTGCTTTTCA-TCATA
129 TTCAAATCATTATGATCATTTGTTTTGTCATAAAATAATTG-TTTT-ATTCACA
* *
2747801 CAAGCCTATTTGGAATAA
1 CAAGCTTATTTGAAATAA
2747819 GTTAATCTGT
Statistics
Matches: 1005, Mismatches: 220, Indels: 91
0.76 0.17 0.07
Matches are distributed among these distances:
173 11 0.01
174 113 0.11
175 126 0.13
176 18 0.02
177 1 0.00
178 9 0.01
179 115 0.11
180 134 0.13
181 326 0.32
182 141 0.14
183 11 0.01
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.40
Consensus pattern (180 bp):
CAAGCTTATTTGAAATAAAATAATACTAATTTATTAATATTCCAAAAATTAATAAGTAAAAGATT
TAAAAAATAAATCTGTTTACCAAACAAGTTCAAATAGTTATGACTATTTAAATAATTATCTATTT
CAAATCATTATGATCATTTGTTTTGTCATAAAATAATTGTTTTATTCACA
Found at i:2747998 original size:308 final size:309
Alignment explanation
Indices: 2747533--2748096 Score: 674
Period size: 308 Copynumber: 1.8 Consensus size: 309
2747523 ACCGAATAAG
* * * * *
2747533 TTCAAATAGTTATGACTATTTGCACAATTATCTATTTAAAATCATTATGACCTTTTATTTTATCA
1 TTCAAATAGTTATGACTATTTGAACAATTATATATTCAAAATCATTATAACCTTTTATTATATCA
* * * * ** * *
2747598 TAAAACAACTATTTCAGTACATAAAAGTTTTTCTAAAATAAAATAATATTGCTTTATTAATATTT
66 TAAAACAACTATTTCAGTACACAAAACTTTTTCTAAAAAAAAATAATACTAATATAATAATATTT
* ** * * *
2747663 AAAAAATTAAGAAGTTGGAGTTTTAAAAAATAAATTAGTTTA-TCAAATTA-TTCAAATAATTAT
131 AAAAAATTAAGAACTAAGAGATTTAAAAAATAAATTAGTTTACT-AAACTAGTTCAAATAATTAA
* *
2747726 GGCCAT-TGGAATAATTATCAATTTCAAATCATTATGAAC-TTTTGTTTTGTCATAAAACAATTG
195 GGCCATAT-GAACAATTATCAATTTCAAATCATTATG-ACTTTTTGTTCTGTCATAAAACAATTG
2747789 CTTTTCATCATACAAGCCTATTTGGAATAAGTTAATCTGTTTACTGAACCAA
258 CTTTTCATCATACAAGCCTATTTGGAATAAGTTAATCTGTTTACTGAACCAA
* ** * * *
2747841 TTCAAATAGTTATGACTATTTGAACAATTATATATTCCAAATTGTTATAACTTTTTGTTATCTCA
1 TTCAAATAGTTATGACTATTTGAACAATTATATATTCAAAATCATTATAACCTTTTATTATATCA
* * *
2747906 TAAAACAATTATTTCTA-TTCACACAACTTTATT-TAAAAAAAAATAATACTAATATAATAATAT
66 TAAAACAACTATTTC-AGTACACAAAACTTT-TTCTAAAAAAAAATAATACTAATATAATAATAT
* * * *
2747969 TCT-AAAAATTAATAACTAAGAGATTTAAAAAATAAATTTGTTTACTGAACTAGTTCAAATATTT
129 T-TAAAAAATTAAGAACTAAGAGATTTAAAAAATAAATTAGTTTACTAAACTAGTTCAAATAATT
* * ** *
2748033 AAGGCTATATGAACAATTCTTTATTTCAAATCATTATGACTTTTTGTTCTGTCGTAAAACAATT
193 AAGGCCATATGAACAATTATCAATTTCAAATCATTATGACTTTTTGTTCTGTCATAAAACAATT
2748097 TTTTTATTTC
Statistics
Matches: 210, Mismatches: 39, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
308 143 0.68
309 66 0.31
310 1 0.00
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.40
Consensus pattern (309 bp):
TTCAAATAGTTATGACTATTTGAACAATTATATATTCAAAATCATTATAACCTTTTATTATATCA
TAAAACAACTATTTCAGTACACAAAACTTTTTCTAAAAAAAAATAATACTAATATAATAATATTT
AAAAAATTAAGAACTAAGAGATTTAAAAAATAAATTAGTTTACTAAACTAGTTCAAATAATTAAG
GCCATATGAACAATTATCAATTTCAAATCATTATGACTTTTTGTTCTGTCATAAAACAATTGCTT
TTCATCATACAAGCCTATTTGGAATAAGTTAATCTGTTTACTGAACCAA
Found at i:2748681 original size:179 final size:177
Alignment explanation
Indices: 2748390--2748799 Score: 429
Period size: 176 Copynumber: 2.3 Consensus size: 177
2748380 TCAGTTCAAT
* * * * * ** *
2748390 TAGTTATAACTATTTGAA-AATTATTTATTTCAAATCATTGTGACCATTTGTATCCCCATAAAAT
1 TAGTTATGACTATTTGAATAATTATCTATTTCAAATCATTATGACCTTTTGTTTTACCACAAAAT
* * *
2748454 AATTATTTTTGTTCATACAGTCTTATTCGGAATAAAGTAATACTAATTTATCAATATTTTGAAAT
66 AATTATTTCTGTTCATACAGTCTTATTCGAAATAAAGTAATACTAATTTATCAATATTCT-AAA-
* * * **
2748519 TAA-TAAGTAATAGATTTAAAAAATGAATCAATTGGCCTG-ACTAGTGTAAA
129 -AACTAA-TAAGAGATTTAAAAAATGAATCAATTGACC-GAACAAGTACAAA
* *
2748569 TAGTTATGACTGTTTGAATAATTATCTATTTCAAATCATTATGACCTTTTGTTTTATCACAAAA-
1 TAGTTATGACTATTTGAATAATTATCTATTTCAAATCATTATGACCTTTTGTTTTACCACAAAAT
* * * *
2748633 AATTGTTTCTG-TCTATACTAG-CTTATTTGAAATAATA-TAATTCTAATTTATTAATATTCTAA
66 AATTATTTCTGTTC-ATAC-AGTCTTATTCGAAATAA-AGTAATACTAATTTATCAATATTCTAA
** * *
2748695 AAACTAATAAGAGATTTAAAAAATGAATCTGTTTATCGAACAAGTACAAA
128 AAACTAATAAGAGATTTAAAAAATGAATCAATTGACCGAACAAGTACAAA
* * * *
2748745 TAATTATGACTATTTGAATAATTATCTATTTCTAATCACTATAACCTTTTGTTTT
1 TAGTTATGACTATTTGAATAATTATCTATTTCAAATCATTATGACCTTTTGTTTT
2748800 NNNNNNNNNN
Statistics
Matches: 194, Mismatches: 31, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
175 1 0.01
176 84 0.43
177 3 0.02
178 5 0.03
179 61 0.31
180 40 0.21
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.42
Consensus pattern (177 bp):
TAGTTATGACTATTTGAATAATTATCTATTTCAAATCATTATGACCTTTTGTTTTACCACAAAAT
AATTATTTCTGTTCATACAGTCTTATTCGAAATAAAGTAATACTAATTTATCAATATTCTAAAAA
CTAATAAGAGATTTAAAAAATGAATCAATTGACCGAACAAGTACAAA
Found at i:2748754 original size:176 final size:177
Alignment explanation
Indices: 2747822--2748799 Score: 646
Period size: 181 Copynumber: 5.4 Consensus size: 177
2747812 GGAATAAGTT
* * * * **
2747822 AATCTGTTTACTGAACCAA-TTCAAATAGTTATGACTATTTGAACAATTATATATTCCAAATTGT
1 AATCTGTTTAC-GAA-CAAGTTCAAATAATTATGACTATTTGAATAATTATCTATTTCAAATCAT
* * * * * * * * *
2747886 TATAACTTTTTGTTATCTCATAAAACAATTATTTCTAT-TC-ACAC-AACTTTATTTAAAAAAAA
64 TATGACCTTTTGTTTTGTCATAAAACAATTGTTT-T-TGTCTATACTAGC-TTATTTGAAATAAA
* * * * * *
2747948 ATAATACTAATATAATAATATTCTAAAAATTAATAACTAAGAGATTTAAAAAATA
126 GTAATACTAATTTATTAATATT-TTAAAA--ACTAAGTAAGAGATTTAAAAAATA
* * * * * * * * *
2748003 AATTTGTTTACTGAACTAGTTCAAATATTTAAGGCTATATGAACAATTCTTTATTTCAAATCATT
1 AATCTGTTTAC-GAACAAGTTCAAATAATTATGACTATTTGAATAATTATCTATTTCAAATCATT
* * * * * * *
2748068 ATGACTTTTTGTTCTGTCGTAAAACAATTTTTTTATTTCT-TAATAACTTATTT-AGAATAAAGT
65 ATGACCTTTTGTTTTGTCATAAAACAATTGTTTT-TGTCTATACTAGCTTATTTGA-AATAAAGT
* * * * *
2748131 AAAACAAATTTATTAATATTTCAAAACTTAATAAGCAAGAGATTTAAAAAAT-
128 AATACTAATTTATTAATATTTTAAAA---ACTAAGTAAGAGATTTAAAAAATA
* * * * * *
2748183 AATTTAGTTTACCTAACCAGTTCAAATAATTATAATTATTTGAATAATTATCTATTTCAAATCGT
1 AATCT-GTTTA-CGAACAAGTTCAAATAATTATGACTATTTGAATAATTATCTATTTCAAATCAT
*** * * * * * *
2748248 TATGTTATTTTATTTTGTCATAAAACAAATGTTTTTGTAC-AT-TTAAGTTTGTTTGAAATAAAA
64 TATGACCTTTTGTTTTGTCATAAAACAATTGTTTTTGT-CTATACT-AGCTTATTTGAAATAAAG
* * * *
2748311 TAATATTAATTTATTAATATTTTAAAAATTAAGAAGTAAGAAATTTAAAAAGTAA
127 TAATACTAATTTATTAATATTTTAAAAACT---AAGTAAGAGATTTAAAAAAT-A
* * * * *
2748366 AAT-TGTTTACTAA-ATCAGTTCAATTAGTTATAACTATTTGAA-AATTATTTATTTCAAATCAT
1 AATCTGTTTACGAACA--AGTTCAAATAATTATGACTATTTGAATAATTATCTATTTCAAATCAT
* * * *** * * * *
2748428 TGTGACCATTTGTATCCCCATAAAATAATTATTTTTGT-TCATAC-AGTCTTATTCGGAATAAAG
64 TATGACCTTTTGTTTTGTCATAAAACAATTGTTTTTGTCT-ATACTAG-CTTATTTGAAATAAAG
* * *
2748491 TAATACTAATTTATCAATATTTTGAAATTAA-TAAGTAATAGATTTAAAAAATG
127 TAATACTAATTTATTAATATTTT-AAA--AACTAAGTAAGAGATTTAAAAAATA
** ** * * *
2748544 AATCAATTGGCCTG-ACTAGTGT-AAATAGTTATGACTGTTTGAATAATTATCTATTTCAAATCA
1 AATCTGTT-TAC-GAACAAGT-TCAAATAATTATGACTATTTGAATAATTATCTATTTCAAATCA
* * *
2748607 TTATGACCTTTTGTTTTATCACAAAA-AATTGTTTCTGTCTATACTAGCTTATTTGAAATAATA-
63 TTATGACCTTTTGTTTTGTCATAAAACAATTGTTTTTGTCTATACTAGCTTATTTGAAATAA-AG
* * *
2748670 TAATTCTAATTTATTAATATTCTAAAAACTAA-TAAGAGATTTAAAAAATG
127 TAATACTAATTTATTAATATTTTAAAAACTAAGTAAGAGATTTAAAAAATA
* * *
2748720 AATCTGTTTATCGAACAAGTACAAATAATTATGACTATTTGAATAATTATCTATTTCTAATCACT
1 AATCTGTTTA-CGAACAAGTTCAAATAATTATGACTATTTGAATAATTATCTATTTCAAATCATT
*
2748785 ATAACCTTTTGTTTT
65 ATGACCTTTTGTTTT
2748800 NNNNNNNNNN
Statistics
Matches: 630, Mismatches: 128, Indels: 83
0.75 0.15 0.10
Matches are distributed among these distances:
175 1 0.00
176 84 0.13
177 3 0.00
178 8 0.01
179 88 0.14
180 144 0.23
181 290 0.46
182 7 0.01
183 5 0.01
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.41
Consensus pattern (177 bp):
AATCTGTTTACGAACAAGTTCAAATAATTATGACTATTTGAATAATTATCTATTTCAAATCATTA
TGACCTTTTGTTTTGTCATAAAACAATTGTTTTTGTCTATACTAGCTTATTTGAAATAAAGTAAT
ACTAATTTATTAATATTTTAAAAACTAAGTAAGAGATTTAAAAAATA
Found at i:2748775 original size:16 final size:17
Alignment explanation
Indices: 2748743--2748775 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
2748733 AACAAGTACA
2748743 AATAATTATGACTATTTG
1 AATAATTAT-ACTATTTG
2748761 AATAATTAT-CTATTT
1 AATAATTATACTATTT
2748776 CTAATCACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (17 bp):
AATAATTATACTATTTG
Found at i:2750775 original size:45 final size:45
Alignment explanation
Indices: 2750722--2750906 Score: 169
Period size: 45 Copynumber: 4.1 Consensus size: 45
2750712 TAAAAGCTGG
* * *
2750722 GCCC-TGGTGCGGGCGGTTGCCTCGATCACCATTGGCACATGCCA
1 GCCCTTGGTGCGGGCGGTTGCCTCGACCACCATCGACACATGCCA
* * **
2750766 GCCCTTGGTGCGGGCGATTGCCTCGACCACCATCGGCAC--GAAAA
1 GCCCTTGGTGCGGGCGGTTGCCTCGACCACCATCGACACATG-CCA
* * * * *
2750810 GGCCCCTGGTGCAGGCGGTTGCATCGAACACCATCGACACATGCTA
1 -GCCCTTGGTGCGGGCGGTTGCCTCGACCACCATCGACACATGCCA
* * * * *
2750856 GGCCGTGGTGCGGGCAGTTGCCTCGACCACTATAGACACATGCCGA
1 GCCCTTGGTGCGGGCGGTTGCCTCGACCACCATCGACACATGCC-A
2750902 GCCCT
1 GCCCT
2750907 GGTCAGCCCC
Statistics
Matches: 111, Mismatches: 24, Indels: 10
0.77 0.17 0.07
Matches are distributed among these distances:
43 1 0.01
44 5 0.05
45 99 0.89
46 5 0.05
47 1 0.01
ACGTcount: A:0.18, C:0.34, G:0.30, T:0.18
Consensus pattern (45 bp):
GCCCTTGGTGCGGGCGGTTGCCTCGACCACCATCGACACATGCCA
Found at i:2750799 original size:90 final size:89
Alignment explanation
Indices: 2750688--2750885 Score: 229
Period size: 90 Copynumber: 2.2 Consensus size: 89
2750678 CCTTTAGTAC
* * * * * * * *
2750688 GGCACTTGCCTCGACCGCCATCGGTA-AAAGCTGGGCCCTGGTGCGGGCGGTTGCCTCGATCACC
1 GGCAGTTGCCTCGACCACCATCGGCACAAA--AGGCCCCTGGTGCAGGCGGTTGCATCGAACACC
* * *
2750752 ATTGGCACATGCCAGCCCTTGGTGCG
64 ATCGACACATGCCAGCCCGTGGTGCG
2750778 GGC-GATTGCCTCGACCACCATCGGCACGAAAAGGCCCCTGGTGCAGGCGGTTGCATCGAACACC
1 GGCAG-TTGCCTCGACCACCATCGGCAC-AAAAGGCCCCTGGTGCAGGCGGTTGCATCGAACACC
* *
2750842 ATCGACACATGCTAGGCCGTGGTGCG
64 ATCGACACATGCCAGCCCGTGGTGCG
2750868 GGCAGTTGCCTCGACCAC
1 GGCAGTTGCCTCGACCAC
2750886 TATAGACACA
Statistics
Matches: 91, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
90 87 0.96
91 1 0.01
92 3 0.03
ACGTcount: A:0.18, C:0.33, G:0.31, T:0.18
Consensus pattern (89 bp):
GGCAGTTGCCTCGACCACCATCGGCACAAAAGGCCCCTGGTGCAGGCGGTTGCATCGAACACCAT
CGACACATGCCAGCCCGTGGTGCG
Found at i:2751508 original size:159 final size:158
Alignment explanation
Indices: 2751213--2751508 Score: 357
Period size: 159 Copynumber: 1.9 Consensus size: 158
2751203 AACTCCATAT
* * * ** * *
2751213 GCTTAGACTAGGAATGAACTCCATATGCCTAAGTCGACCAACGAAATGAGCGTACGGGCGCTGAG
1 GCTTAGACTAGGAATGAACTCCATATGCCTAAGCCAACCAACAAAACAAGCGTAC-GGCGCTCAA
* * * * * *
2751278 CCGGCCGGAGAGGCATAATGCGCAAGTTGGGGATCGACCCAGTCCCCCTCTGCGTGCTGTCGGTC
65 CCGACCGGAGAGGCAGAATGCACAAGTTGGGAATCGACCCAGTCCCCCTCTGCATGCTGTCGATC
2751343 CCGCTGCCACAACCTTCGGTCCGGCTGGG
130 CCGCTGCCACAACCTTCGGTCCGGCTGGG
*
2751372 GCTTAGAC-ATGGAATGAACTCCGTATGCCTAAGCCAACCAACAAAACAAGCATGTA-GGCGCTC
1 GCTTAGACTA-GGAATGAACTCCATATGCCTAAGCCAACCAACAAAACAAGC--GTACGGCGCTC
* *
2751435 AACTGACCGGAGAGGTAGAATGCACAAGTTGGGAATCGACCC-GATCCCTCC-CTGCATGCTGTC
63 AACCGACCGGAGAGGCAGAATGCACAAGTTGGGAATCGACCCAG-TCCC-CCTCTGCATGCTGTC
*
2751498 GATCCTGCTGC
126 GATCCCGCTGC
2751509 TGGTCCTACT
Statistics
Matches: 115, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
158 2 0.02
159 108 0.94
160 2 0.02
161 3 0.03
ACGTcount: A:0.24, C:0.29, G:0.28, T:0.19
Consensus pattern (158 bp):
GCTTAGACTAGGAATGAACTCCATATGCCTAAGCCAACCAACAAAACAAGCGTACGGCGCTCAAC
CGACCGGAGAGGCAGAATGCACAAGTTGGGAATCGACCCAGTCCCCCTCTGCATGCTGTCGATCC
CGCTGCCACAACCTTCGGTCCGGCTGGG
Found at i:2751573 original size:26 final size:26
Alignment explanation
Indices: 2751544--2751596 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
2751534 CCGGTCTGAT
2751544 CTTAGACTAGGAATGAACTCCGTATG
1 CTTAGACTAGGAATGAACTCCGTATG
* *
2751570 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTAGGAATGAACTCCGTATG
2751596 C
1 C
2751597 CTAAGTCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (26 bp):
CTTAGACTAGGAATGAACTCCGTATG
Found at i:2757615 original size:45 final size:44
Alignment explanation
Indices: 2757566--2757722 Score: 197
Period size: 45 Copynumber: 3.5 Consensus size: 44
2757556 GTACAGGCAC
* *
2757566 TTGCCTCGACCGCCATCGGCACAAGCTGTGCCCTGGTGCGGGCGG
1 TTGCCTCGACCACCATCGGCACAAGCTG-GCCCTGGTGCGGGTGG
* * *
2757611 TTGCCCCGACCACCATCGACACAAGATGGCCCCTGGTGCGGGTGG
1 TTGCCTCGACCACCATCGGCACAAGCTGG-CCCTGGTGCGGGTGG
* * * * *
2757656 TTGCATCAAACACCATCGGCACATGCTGGGCCGTGGTGCGGGTGG
1 TTGCCTCGACCACCATCGGCACAAGCT-GGCCCTGGTGCGGGTGG
2757701 TTGCCTCGACCACCATCGGCAC
1 TTGCCTCGACCACCATCGGCAC
2757723 TTGTCGAGCC
Statistics
Matches: 94, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
44 1 0.01
45 91 0.97
46 2 0.02
ACGTcount: A:0.16, C:0.34, G:0.32, T:0.18
Consensus pattern (44 bp):
TTGCCTCGACCACCATCGGCACAAGCTGGCCCTGGTGCGGGTGG
Found at i:2758204 original size:26 final size:26
Alignment explanation
Indices: 2758165--2758217 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
2758155 CCAATCCAAT
* * *
2758165 CTTAGATTGGGAATGAACTCCGTATG
1 CTTAGACTGAGAATGAACTCCATATG
2758191 CTTAGACTGAGAATGAACTCCATATG
1 CTTAGACTGAGAATGAACTCCATATG
2758217 C
1 C
2758218 CTAAGTTAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (26 bp):
CTTAGACTGAGAATGAACTCCATATG
Found at i:2759662 original size:45 final size:45
Alignment explanation
Indices: 2759501--2759665 Score: 125
Period size: 45 Copynumber: 3.7 Consensus size: 45
2759491 GGCTGCCCTT
** * * * * *
2759501 TGGTACAGGCACTTGTCTCGACCGCCATCAGCATAAGCTGGGCCC-
1 TGGTACAGGCGGTTGCCTCGACCACCATCGGCACAAGAT-GGCCCA
* * *
2759546 TGGTGCAAGCGGTTGCCTCGACCACCATCGGCACAAGATGGCCCC
1 TGGTACAGGCGGTTGCCTCGACCACCATCGGCACAAGATGGCCCA
* * * * * * * * *
2759591 TGGTGCAGGCGATTGCATCAAACACCATTGGCACATGCTGGGCCA
1 TGGTACAGGCGGTTGCCTCGACCACCATCGGCACAAGATGGCCCA
* *
2759636 TGGTACGGGTGGTTGCCTCGACCACCATCG
1 TGGTACAGGCGGTTGCCTCGACCACCATCG
2759666 ATACTTGTCG
Statistics
Matches: 92, Mismatches: 27, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
44 5 0.05
45 87 0.95
ACGTcount: A:0.20, C:0.32, G:0.29, T:0.19
Consensus pattern (45 bp):
TGGTACAGGCGGTTGCCTCGACCACCATCGGCACAAGATGGCCCA
Found at i:2762413 original size:26 final size:26
Alignment explanation
Indices: 2762377--2762429 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
2762367 CCAATCTAAT
2762377 CTTAGACTGGGAATGAAC-TCTGTATG
1 CTTAGACTGGGAATGAACTTC-GTATG
*
2762403 CTTAGACTGGGGATGAACTTCGTATG
1 CTTAGACTGGGAATGAACTTCGTATG
2762429 C
1 C
2762430 CTAAGTCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 23 0.92
27 2 0.08
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTTCGTATG
Found at i:2762696 original size:170 final size:170
Alignment explanation
Indices: 2762405--2762792 Score: 392
Period size: 170 Copynumber: 2.3 Consensus size: 170
2762395 TCTGTATGCT
* ** *
2762405 TAGACTGGGGATGAACT-TCGTATGCCTAAGTCAACCCACGAAACAAGCGTGTGGGCGCTCAGCC
1 TAGACTGGGGATGAACTCT-GTATGCCTAAGTCAACCCACGAAACAAGCATGCAGGCGATCAGCC
* * * *
2762469 GGCCAGAGAGGCAGGATGCGTAAGCCAAGGATCGACCTGACCCCCTCAGCATGCTGTCAATCTCG
65 GGCCAGAGAGGCAGGATACGCAAGCCAAGGATCAACCTGACCCCCTCAGCATGCTGTCAATCCCG
* ** ** *
2762534 TTGTGGGTCTTACTATTGCAACCCTCAGTCTGGT-TCGATCC
130 CTACGGGTCTTACTACCGCAACCCTCAGTCCGGTCT-GATCC
* * * *
2762575 TAGACTGGGGATGAACTCTGTATGCCTAAGTCAACCCATGAAACGAGCATGCAGGTGATCAGCTG
1 TAGACTGGGGATGAACTCTGTATGCCTAAGTCAACCCACGAAACAAGCATGCAGGCGATCAGCCG
* * ** * * ** *
2762640 GCCAGAGAGGTAGGATATGCAAGCCGGGGATCAA-CTCGATCCCCTCTGTGTGCTGTCGATCCCG
66 GCCAGAGAGGCAGGATACGCAAGCCAAGGATCAACCT-GACCCCCTCAGCATGCTGTCAATCCCG
* * *
2762704 CTACGGGTCTTGCTGCCGCAACCCTCAGTCCGGTCTGATCT
130 CTACGGGTCTTACTACCGCAACCCTCAGTCCGGTCTGATCC
* *
2762745 TAGACT-GGGATTGCA-TGAC-GTATGCCTAAGTCAACCCACGAAATAAGC
1 TAGACTGGGGA-TGAACT--CTGTATGCCTAAGTCAACCCACGAAACAAGC
2762793 GTGCGGGTAC
Statistics
Matches: 178, Mismatches: 34, Indels: 12
0.79 0.15 0.05
Matches are distributed among these distances:
169 7 0.04
170 168 0.94
171 3 0.02
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (170 bp):
TAGACTGGGGATGAACTCTGTATGCCTAAGTCAACCCACGAAACAAGCATGCAGGCGATCAGCCG
GCCAGAGAGGCAGGATACGCAAGCCAAGGATCAACCTGACCCCCTCAGCATGCTGTCAATCCCGC
TACGGGTCTTACTACCGCAACCCTCAGTCCGGTCTGATCC
Found at i:2769329 original size:45 final size:44
Alignment explanation
Indices: 2769236--2769348 Score: 111
Period size: 45 Copynumber: 2.5 Consensus size: 44
2769226 GTACAGGTTC
* * * * * **
2769236 TTGCCTCGACGGCCATCGACACAAGTTAGGCCCTGGTGCGGGTGG
1 TTGCCTCGAC-ACCATCGGCACAAGATAGGCCCTAGTACGGGCAG
2769281 TTGCCTCGACTACCATCGGCACAAGAT-GGCCTCTAGTACGGGCAG
1 TTGCCTCGAC-ACCATCGGCACAAGATAGGCC-CTAGTACGGGCAG
*
2769326 TTGCATCGAACACCATCGGCACA
1 TTGCCTCG-ACACCATCGGCACA
2769349 TGCTGGGCTG
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
44 4 0.07
45 51 0.89
46 2 0.04
ACGTcount: A:0.21, C:0.31, G:0.28, T:0.19
Consensus pattern (44 bp):
TTGCCTCGACACCATCGGCACAAGATAGGCCCTAGTACGGGCAG
Found at i:2769368 original size:45 final size:45
Alignment explanation
Indices: 2769248--2769368 Score: 111
Period size: 45 Copynumber: 2.7 Consensus size: 45
2769238 GCCTCGACGG
* * ** *
2769248 CCATCGACACAAGTTAGGCC-CTGGTGCGGGTGGTTGCCTCGACTA
1 CCATCGGCACAAGAT-GGCCTCTGGTGCGGGCAGTTGCATCGACTA
* *
2769293 CCATCGGCACAAGATGGCCTCTAGTACGGGCAGTTGCATCGAAC-A
1 CCATCGGCACAAGATGGCCTCTGGTGCGGGCAGTTGCATCG-ACTA
* * * *
2769338 CCATCGGCACATGCTGGGCTGTGGTGCGGGC
1 CCATCGGCACAAGATGGCCTCTGGTGCGGGC
2769369 GATTGCCACA
Statistics
Matches: 61, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
44 4 0.07
45 55 0.90
46 2 0.03
ACGTcount: A:0.19, C:0.29, G:0.32, T:0.20
Consensus pattern (45 bp):
CCATCGGCACAAGATGGCCTCTGGTGCGGGCAGTTGCATCGACTA
Found at i:2770435 original size:26 final size:26
Alignment explanation
Indices: 2770392--2770443 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
2770382 TGGTCAGATA
*
2770392 TTAGACTGGGAATGAACTCCGTATGC
1 TTAGACTGGGAATAAACTCCGTATGC
* *
2770418 TTAGACTGGGGATAAACTCTGTATGC
1 TTAGACTGGGAATAAACTCCGTATGC
2770444 CCAAGTCAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (26 bp):
TTAGACTGGGAATAAACTCCGTATGC
Found at i:2771226 original size:159 final size:158
Alignment explanation
Indices: 2770992--2771286 Score: 369
Period size: 159 Copynumber: 1.9 Consensus size: 158
2770982 AGCTCTGTAA
* * * *
2770992 GCTTAGACTGGGAACGAACCCCATATGCCTGAGTCAACCCATGAAACGAGCGTGAGGGCGCTTAG
1 GCTTAGACTGGGAACGAACCCCATATGCCTAAGCCAACCCATGAAACGAGCGTGAGGGCGCTCAA
* * ** * * *
2771057 CCGACCGGAGAGGCATAATGTGTAAGCCGAGGATCGGCTCGGTCCCCCTCTACGTACTACCGGTC
66 CCGACAGGAGAGGCAGAATACGTAAGCCGAGGATCGACCCGGTCCCCCT-TACGTACTACCGATC
2771122 CCACTGCCACAACCGTTGGTCCGAATGGG
130 CCACTGCCACAACCGTTGGTCCGAATGGG
* * * *
2771151 GCTTAGACAT-GGAATGAACTCCATATGCCTAAGCCAACCCATGAAACGAGTGTGCA-GGTGCTC
1 GCTTAGAC-TGGGAACGAACCCCATATGCCTAAGCCAACCCATGAAACGAGCGTG-AGGGCGCTC
* * * *
2771214 AACCGGCAGGAGAGGCAGAATACGTAAGTCGGGGATCGACCCGGTCCCCCTTACGTGCTACCGAT
64 AACCGACAGGAGAGGCAGAATACGTAAGCCGAGGATCGACCCGGTCCCCCTTACGTACTACCGAT
*
2771279 CCTACTGC
129 CCCACTGC
2771287 TGGTCCTGCT
Statistics
Matches: 114, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
158 19 0.17
159 93 0.82
160 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.28, T:0.18
Consensus pattern (158 bp):
GCTTAGACTGGGAACGAACCCCATATGCCTAAGCCAACCCATGAAACGAGCGTGAGGGCGCTCAA
CCGACAGGAGAGGCAGAATACGTAAGCCGAGGATCGACCCGGTCCCCCTTACGTACTACCGATCC
CACTGCCACAACCGTTGGTCCGAATGGG
Found at i:2771636 original size:355 final size:355
Alignment explanation
Indices: 2770960--2771802 Score: 978
Period size: 355 Copynumber: 2.4 Consensus size: 355
2770950 GCTACTATCG
* * * * * * * *
2770960 GTCCGATCATAGACTGGGAATAAGCTCTGTAAGCTTAGACTGGGAACGAACCCCATATGCCTGAG
1 GTCCGATCTTAGACTGGGAATAAACTCTGTATGCTTAGACTGGGGATGAACTCCGTATGCCTAAG
* * *
2771025 TCAACCCATGAAACGAGCGTG-AGGGCGCTTAGCCGACCGGAGAGGCATAATGTGTAAGCCGAGG
66 TCAACCCACGAAACGAGCGTGCA-GGCGCTTAGCTGACCGGAGAGGCATAATGCGTAAGCCGAGG
* * * * * *
2771089 ATCGGCTCGGTCCCCCTCTACGTACTACCGGTCCCACTGCCACAACCGTTGGTCCGAATGGGGCT
130 ATCGGCCCGATCCCCCTCTACGTACTACCGATCCCACTACCACAACCGTTAGTCCGAATAGGGCT
* ** ** * **
2771154 TAGACATGGAATGAACTCCATATGCCTAAGCCAACCCATGAAACGAGTGTGCAGGTGCTCAACCG
195 TAGACATGGAATGAACTCCATATGCCAAAGCCAACCCACAAAACGAGCATACAGGCACTCAACCG
* * *
2771219 GCAGGAGAGGCAGAATACGTAAGTCGGGGATCGACCCGGTCCCCCTTACGTGCTACCGATCCTAC
260 GCAGGAGAGGCAGAATACGCAAGTCGGGGATCGACCCGATCCCCCCTACGTGCTACCGATCCTAC
* *
2771284 TGCTGGTCCTGCTG-CTGCAACCCTCGGTTCGA
325 TGCTAGTCCTACTGTC-GCAACCCTCGG-TCGA
* * ** *
2771316 -TCTGATCTTAGACTAGGAATAAACTCCATATGCTTAGATTGGGGATGAACTCCGTATGCCTAAG
1 GTCCGATCTTAGACTGGGAATAAACTCTGTATGCTTAGACTGGGGATGAACTCCGTATGCCTAAG
* * * *
2771380 TCAACCCACGAAACGAGTGTGCAGGCGCTGAGCTGGCCGGAGAGGCATAATGCGTAAGTCGAGGA
66 TCAACCCACGAAACGAGCGTGCAGGCGCTTAGCTGACCGGAGAGGCATAATGCGTAAGCCGAGGA
* ** *
2771445 TCGGCCCGATCCCCCTCTATGTGTTACCGATCCCACTACCACAACC-TTCAGTCCGACTAGGGCT
131 TCGGCCCGATCCCCCTCTACGTACTACCGATCCCACTACCACAACCGTT-AGTCCGAATAGGGCT
* * * * *
2771509 TAGACATGGAATTAACTTCGTATGCCAAAGCTAACCCACAAAACGAGCATACAGGCACTCAATCG
195 TAGACATGGAATGAACTCCATATGCCAAAGCCAACCCACAAAACGAGCATACAGGCACTCAACCG
* ** * * * **
2771574 GTCA-GAGAGGTAGAATGTGCAAG-CTGGGGATTGGCCCGATCCCCCCTGCGTGCTGTCGATCCT
260 G-CAGGAGAGGCAGAATACGCAAGTC-GGGGATCGACCCGATCCCCCCTACGTGCTACCGATCCT
*
2771637 ACTGCTAGTCCTACTGTCGCAACCCTCGGTCTA
323 ACTGCTAGTCCTACTGTCGCAACCCTCGGTCGA
* * * *
2771670 GTCCGATCTTATACTGGGAATGAACTCTGTATGCTTAGACTGGAGATGAACTTCGTATGCCTAAG
1 GTCCGATCTTAGACTGGGAATAAACTCTGTATGCTTAGACTGGGGATGAACTCCGTATGCCTAAG
* * * ** * *
2771735 TCAACCCACGAAACGAGCGTACAGGTGCTTAGCTGACCAGAGAGGCAGGATGTGTAAGCCGGGGA
66 TCAACCCACGAAACGAGCGTGCAGGCGCTTAGCTGACCGGAGAGGCATAATGCGTAAGCCGAGGA
2771800 TCG
131 TCG
2771803 ATCGAGTGGT
Statistics
Matches: 404, Mismatches: 77, Indels: 13
0.82 0.16 0.03
Matches are distributed among these distances:
354 6 0.01
355 394 0.98
356 4 0.01
ACGTcount: A:0.25, C:0.27, G:0.26, T:0.21
Consensus pattern (355 bp):
GTCCGATCTTAGACTGGGAATAAACTCTGTATGCTTAGACTGGGGATGAACTCCGTATGCCTAAG
TCAACCCACGAAACGAGCGTGCAGGCGCTTAGCTGACCGGAGAGGCATAATGCGTAAGCCGAGGA
TCGGCCCGATCCCCCTCTACGTACTACCGATCCCACTACCACAACCGTTAGTCCGAATAGGGCTT
AGACATGGAATGAACTCCATATGCCAAAGCCAACCCACAAAACGAGCATACAGGCACTCAACCGG
CAGGAGAGGCAGAATACGCAAGTCGGGGATCGACCCGATCCCCCCTACGTGCTACCGATCCTACT
GCTAGTCCTACTGTCGCAACCCTCGGTCGA
Found at i:2772307 original size:45 final size:45
Alignment explanation
Indices: 2772205--2772308 Score: 109
Period size: 45 Copynumber: 2.3 Consensus size: 45
2772195 CTGCCCTTTG
* * * * * *
2772205 GTATGGGCGCTTGCCTCGACCACCATCGACACAAGCTGGGCCCTG
1 GTATGGGCGGTTGCCTCAACCACCATCGACACAAGATAGCCCCTA
*** * *
2772250 GTGCAGGTGGTTGCCTCAACCACCATCGAGACAAGATAGCCCCTA
1 GTATGGGCGGTTGCCTCAACCACCATCGACACAAGATAGCCCCTA
2772295 GTATGGGCGGTTGC
1 GTATGGGCGGTTGC
2772309 ATCGAACAGC
Statistics
Matches: 44, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.20, C:0.31, G:0.30, T:0.19
Consensus pattern (45 bp):
GTATGGGCGGTTGCCTCAACCACCATCGACACAAGATAGCCCCTA
Found at i:2772709 original size:26 final size:26
Alignment explanation
Indices: 2772680--2772732 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
2772670 CTGGTCCGAT
*
2772680 CTTAGTTTGGGAATGAACTCCGTATG
1 CTTAGATTGGGAATGAACTCCGTATG
*
2772706 CTTAGATTGGGGATGAACTCCGTATG
1 CTTAGATTGGGAATGAACTCCGTATG
2772732 C
1 C
2772733 CTAAGTCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (26 bp):
CTTAGATTGGGAATGAACTCCGTATG
Found at i:2779559 original size:26 final size:26
Alignment explanation
Indices: 2779530--2779582 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
2779520 CCTCGACCAT
2779530 CTTAGACTGGGAATGAACTCCATATG
1 CTTAGACTGGGAATGAACTCCATATG
* *
2779556 CTTAGACTGGGAATGAATTCCGTATG
1 CTTAGACTGGGAATGAACTCCATATG
2779582 C
1 C
2779583 CTAAGTCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCATATG
Found at i:2780991 original size:45 final size:45
Alignment explanation
Indices: 2780842--2780999 Score: 135
Period size: 45 Copynumber: 3.5 Consensus size: 45
2780832 GTACAAGCAC
* * *
2780842 TTGCCTCGACCGCCATCGGCACAAACTGGGCTATGGTAC-AGGCGG
1 TTGCCTCGACCACCATCGGCACAAACTGGGCCATGGTGCGA-GCGG
* * * * *
2780887 TTGCCTCGACCACCATCAGCATAAGA-TGGCCCCTGGTATG-GA-CGA
1 TTGCCTCGACCACCATCGGCACAA-ACTGGGCCATGG--TGCGAGCGG
* * ** *
2780932 TTGCATCGAACACCATCGGCACATTCTGGGCCGTGGTGCGAGCGG
1 TTGCCTCGACCACCATCGGCACAAACTGGGCCATGGTGCGAGCGG
2780977 TTGCCTCGACCACCATCGGCACA
1 TTGCCTCGACCACCATCGGCACA
2781000 TGCGAGCACC
Statistics
Matches: 87, Mismatches: 19, Indels: 14
0.73 0.16 0.12
Matches are distributed among these distances:
43 2 0.02
44 2 0.02
45 80 0.92
46 1 0.01
47 2 0.02
ACGTcount: A:0.21, C:0.32, G:0.28, T:0.19
Consensus pattern (45 bp):
TTGCCTCGACCACCATCGGCACAAACTGGGCCATGGTGCGAGCGG
Found at i:2781450 original size:26 final size:26
Alignment explanation
Indices: 2781414--2781463 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
2781404 CTTCGATTTT
*
2781414 AGACTTGGAATGAACTCCGTATGCTA
1 AGACTAGGAATGAACTCCGTATGCTA
*
2781440 AGACTAGGAATGAACTTCGTATGC
1 AGACTAGGAATGAACTCCGTATGC
2781464 CTATGTCAAC
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:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (26 bp):
AGACTAGGAATGAACTCCGTATGCTA
Found at i:2781807 original size:26 final size:26
Alignment explanation
Indices: 2781771--2781825 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
2781761 TCTTCGATCT
*
2781771 TGCTTAGACTGGGGATGAACTCTGTA
1 TGCTTAGACTGGGGATGAACTCCGTA
2781797 TGCTTAGACTGGGGATGAACTCCGTA
1 TGCTTAGACTGGGGATGAACTCCGTA
2781823 TGC
1 TGC
2781826 CTAAGTGAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (26 bp):
TGCTTAGACTGGGGATGAACTCCGTA
Done.