Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 163 of 362
Found at i:53756206 original size:19 final size:19
Alignment explanation
Indices: 53756177--53756232 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
53756167 CCGCACATCG
* *
53756177 CTGTTGTTGCTGCTGCACA
1 CTGTCGTTGCTACTGCACA
*
53756196 -TCGTCGTTGCTATTGCACA
1 CT-GTCGTTGCTACTGCACA
*
53756215 CTGTCGTTGCCACTGCAC
1 CTGTCGTTGCTACTGCAC
53756233 CATCCTTGCT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.03
19 28 0.93
20 1 0.03
ACGTcount: A:0.12, C:0.30, G:0.23, T:0.34
Consensus pattern (19 bp):
CTGTCGTTGCTACTGCACA
Found at i:53759509 original size:46 final size:46
Alignment explanation
Indices: 53759459--53759634 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
53759449 TGGTTGAGCA
53759459 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
53759505 TCCGAACTCGTTGAGTTGAGTCCGAG-T---TTGTGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
*
53759550 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
53759598 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53759635 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 8, Indels: 22
0.79 0.06 0.16
Matches are distributed among these distances:
42 6 0.05
43 5 0.05
45 2 0.02
46 60 0.54
47 26 0.23
48 2 0.02
50 4 0.04
51 6 0.05
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:53759615 original size:93 final size:93
Alignment explanation
Indices: 53759456--53759625 Score: 313
Period size: 93 Copynumber: 1.8 Consensus size: 93
53759446 GGATGGTTGA
* *
53759456 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
53759521 TGAGTCCGAGTTTGTGAGATGTAACTAG
66 TGAGTCCGAGTTTGTGAGATGTAACTAG
*
53759549 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
53759614 TGAGTCCGAGTT
66 TGAGTCCGAGTT
53759626 CGCTTATGGG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTTGTGAGATGTAACTAG
Found at i:53764741 original size:27 final size:27
Alignment explanation
Indices: 53764674--53764744 Score: 106
Period size: 27 Copynumber: 2.6 Consensus size: 27
53764664 ATTAGCAAAG
* *
53764674 TACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
53764701 TACCCTTGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
53764728 TACCCTCGAGTTATAGA
1 TACCCTCGATTTATAGA
53764745 TTGATTTACA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCGTTT
Found at i:53764752 original size:66 final size:66
Alignment explanation
Indices: 53764681--53764810 Score: 190
Period size: 66 Copynumber: 2.0 Consensus size: 66
53764671 AAGTACCCTC
** * * *
53764681 GATTTACAGAATTA-TCGTTTTACCCTTGATTTATAGAATTACCGTTTTACCCTCGAGTTATAGA
1 GATTTACAGAATTACT-GTTTTACCCTCAATTTACAAAATTACCATTTTACCCTCGAGTTATAGA
53764745 TT
65 TT
*
53764747 GATTTACAGAATTACTGTTTTACCCTCAATTTACAAAATTACCATTTTACCCTCGATTTATAGA
1 GATTTACAGAATTACTGTTTTACCCTCAATTTACAAAATTACCATTTTACCCTCGAGTTATAGA
53764811 ATTACCGTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
66 56 0.98
67 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.41
Consensus pattern (66 bp):
GATTTACAGAATTACTGTTTTACCCTCAATTTACAAAATTACCATTTTACCCTCGAGTTATAGAT
T
Found at i:53764786 original size:27 final size:27
Alignment explanation
Indices: 53764747--53764842 Score: 129
Period size: 27 Copynumber: 3.6 Consensus size: 27
53764737 GTTATAGATT
* *
53764747 GATTTACAGAATTACTGTTTTACCCTC
1 GATTTACAAAATTACCGTTTTACCCTC
* *
53764774 AATTTACAAAATTACCATTTTACCCTC
1 GATTTACAAAATTACCGTTTTACCCTC
* *
53764801 GATTTATAGAATTACCGTTTTACCCTC
1 GATTTACAAAATTACCGTTTTACCCTC
*
53764828 GATTTACAACATTAC
1 GATTTACAAAATTAC
53764843 TAAAATACCA
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (27 bp):
GATTTACAAAATTACCGTTTTACCCTC
Found at i:53764851 original size:27 final size:27
Alignment explanation
Indices: 53764767--53764988 Score: 126
Period size: 27 Copynumber: 8.2 Consensus size: 27
53764757 ATTACTGTTT
* ***
53764767 TACCCTCAATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCAAAA
* * ****
53764794 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCAAAA
* *
53764821 TACCCTCGATTTACAACATTACTAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* * *
53764848 TACCATTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* **
53764875 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACCAAAA
* **** * *
53764902 TACCACT-GGTTCGTGAAATTATCGAAA
1 TACC-CTCGATTTACAAAATTACCAAAA
* **
53764929 TACCCTCAATTTTTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* *
53764956 TACCC-CTAATTTACAAAATTACGAAAA
1 TACCCTC-GATTTACAAAATTACCAAAA
53764983 TACCCT
1 TACCCT
53764989 TGACTTTCTA
Statistics
Matches: 150, Mismatches: 39, Indels: 11
0.75 0.19 0.05
Matches are distributed among these distances:
26 3 0.02
27 146 0.97
28 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.06, T:0.32
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCAAAA
Found at i:53764868 original size:54 final size:54
Alignment explanation
Indices: 53764744--53764870 Score: 146
Period size: 54 Copynumber: 2.4 Consensus size: 54
53764734 CGAGTTATAG
* ***
53764744 ATTGATTTACAGAATTACTGTTTTACCCTCAATTTACAAAATTACCATTTTACC
1 ATTGATTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTACCAAAATACC
* * * * * *
53764798 CTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAACATTACTAAAATACC
1 ATTGATTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTACCAAAATACC
* *
53764852 ATTGGTTTACAAAATTACC
1 ATTGATTTACAGAATTACC
53764871 AAAATACCCC
Statistics
Matches: 58, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
54 58 1.00
ACGTcount: A:0.34, C:0.21, G:0.07, T:0.38
Consensus pattern (54 bp):
ATTGATTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTACCAAAATACC
Found at i:53764879 original size:54 final size:54
Alignment explanation
Indices: 53764821--53765044 Score: 166
Period size: 54 Copynumber: 4.1 Consensus size: 54
53764811 ATTACCGTTT
* * *
53764821 TACCCTCGATTTACAACATTACTAAAATACCATTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAATACCACTGGTTTACAAAATTACCAAAA
* ** **** * *
53764875 TACCC-CTAGTTTGTAAAATTACCAAAATACCACTGGTTCGTGAAATTATCGAAA
1 TACCCTCGA-TTTACAAAATTACCAAAATACCACTGGTTTACAAAATTACCAAAA
* ** * ** *
53764929 TACCCTCAATTTTTAAAATTACCAAAATACCCCTAATTTACAAAATTACGAAAA
1 TACCCTCGATTTACAAAATTACCAAAATACCACTGGTTTACAAAATTACCAAAA
* * * **
53764983 TACCCTTGACTTT-CTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGA-TTTAC--AAAATTACCA-AAATACCACTGGTTTACAAAATTACCAAAA
53765039 TACCCT
1 TACCCT
53765045 TGGTTTGTAG
Statistics
Matches: 130, Mismatches: 34, Indels: 10
0.75 0.20 0.06
Matches are distributed among these distances:
53 2 0.02
54 85 0.65
55 6 0.05
56 37 0.28
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCAAAATACCACTGGTTTACAAAATTACCAAAA
Found at i:53764930 original size:81 final size:82
Alignment explanation
Indices: 53764845--53765073 Score: 221
Period size: 83 Copynumber: 2.8 Consensus size: 82
53764835 AACATTACTA
53764845 AAATACCATTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCAC-T
1 AAATACCATTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACC-CTT
* *
53764909 G-GTTCGT-GAAATTATCG
65 GAGTTC-TAAAAATTATAG
* *** ** * ** *
53764926 AAATACCCTCAATTTTTAAAATTACCAAAATACCCCTAATTTACAAAATTACGAAAATACCCTTG
1 AAATACCATTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTG
*
53764991 ACTTTCTAAAAATTATAG
66 A-GTTCTAAAAATTATAG
** * * * * * *
53765009 AAATACCATTGGTTTACAAAATTACTGAAATACCCTTGGTTTGTAGATTTATCAAAACACCCTTG
1 AAATACCATTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTG
53765074 TAGGATGAAA
Statistics
Matches: 113, Mismatches: 31, Indels: 6
0.75 0.21 0.04
Matches are distributed among these distances:
80 1 0.01
81 53 0.47
82 1 0.01
83 58 0.51
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (82 bp):
AAATACCATTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTG
AGTTCTAAAAATTATAG
Found at i:53765038 original size:27 final size:27
Alignment explanation
Indices: 53764821--53765050 Score: 126
Period size: 27 Copynumber: 8.4 Consensus size: 27
53764811 ATTACCGTTT
* * *
53764821 TACCCTCGATTTACAACATTACTAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
* *
53764848 TACCATTGGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
* * ** *
53764875 TACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
**** *
53764902 TACCAC-TGGTTCGTGAAATTA-TCGAAA
1 TACC-CTTGGTTTACAAAATTACT-AAAA
*** ** *
53764929 TACCCTCAATTTTTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
* ** *
53764956 TACCCCTAATTTACAAAATTACGAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
*
53764983 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTG-GTTTAC--AAAATTACTA-AAA
* *
53765012 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
53765039 TACCCTTGGTTT
1 TACCCTTGGTTT
53765051 GTAGATTTAT
Statistics
Matches: 157, Mismatches: 36, Indels: 20
0.74 0.17 0.09
Matches are distributed among these distances:
26 1 0.01
27 129 0.82
28 9 0.06
29 18 0.11
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACTAAAA
Found at i:53765142 original size:27 final size:27
Alignment explanation
Indices: 53765067--53765168 Score: 73
Period size: 27 Copynumber: 3.8 Consensus size: 27
53765057 TTATCAAAAC
* * * * *
53765067 ACCCTTGTAGGATGAAATGACTAAAAT
1 ACCCCTGTAGGGTAAAATGACCATAAT
* *
53765094 ACCCCTAATA-GGTAAAAAGACCATAA-
1 ACCCCT-GTAGGGTAAAATGACCATAAT
* *
53765120 AGCCCCTGTAGGGTAAAGTGACCGTAAT
1 A-CCCCTGTAGGGTAAAATGACCATAAT
* *
53765148 ACCCTTGTATGGTAAAATGAC
1 ACCCCTGTAGGGTAAAATGAC
53765169 GAATATGCCC
Statistics
Matches: 57, Mismatches: 14, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
26 3 0.05
27 51 0.89
28 3 0.05
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.23
Consensus pattern (27 bp):
ACCCCTGTAGGGTAAAATGACCATAAT
Found at i:53766013 original size:25 final size:25
Alignment explanation
Indices: 53765975--53766044 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
53765965 AGGAAGTGCT
*
53765975 AAAAGGGCTATGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCTAGTTTACCG
* *
53766000 AAAAGGGCTTTGCCCCAGTTTATCG
1 AAAAGGGCTTTGCCCTAGTTTACCG
53766025 AAAAGGGCTTTGCCCTAGTT
1 AAAAGGGCTTTGCCCTAGTT
53766045 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCTAGTTTACCG
Found at i:53766057 original size:24 final size:24
Alignment explanation
Indices: 53765975--53766057 Score: 96
Period size: 25 Copynumber: 3.4 Consensus size: 24
53765965 AGGAAGTGCT
* *
53765975 AAAAGGGCTATGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCTAGTTTA-TG
*
53766000 AAAAGGGCTTTGCCCCAGTTTATCG
1 AAAAGGGCTTTGCCCTAGTTTAT-G
*
53766025 AAAAGGGCTTTGCCCTAG-TTATT
1 AAAAGGGCTTTGCCCTAGTTTATG
53766048 AAAAGAGGCT
1 AAAAG-GGCT
53766058 AGGCCTCCAG
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 5 0.10
24 8 0.16
25 38 0.75
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCTAGTTTATG
Found at i:53766068 original size:50 final size:50
Alignment explanation
Indices: 53765975--53766069 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
53765965 AGGAAGTGCT
**
53765975 AAAAGGGCTATGCCCTAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCG
1 AAAAGGGCTATGCCCTAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCG
* **
53766025 AAAAGGGCTTTGCCCTAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTATGCCCTAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
53766070 ATATTTTAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 23 0.61
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.26
Consensus pattern (50 bp):
AAAAGGGCTATGCCCTAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCG
Found at i:53766299 original size:31 final size:31
Alignment explanation
Indices: 53766264--53766409 Score: 231
Period size: 31 Copynumber: 4.7 Consensus size: 31
53766254 TGTTTATAGT
*
53766264 AAAGGCTTCGTCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
53766295 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
53766326 AAAGGCTTCGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* ** *
53766357 AAAGGCTTCGGCCTAGTGATACAATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
53766388 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
53766410 TCAAGACTAA
Statistics
Matches: 107, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
30 3 0.03
31 104 0.97
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:53767700 original size:94 final size:94
Alignment explanation
Indices: 53767449--53767688 Score: 453
Period size: 94 Copynumber: 2.6 Consensus size: 94
53767439 ATTCAAATCT
53767449 GCACACATAGTGCCAATGTTAACTCATTATAATAAGGCAATTAACTTACTTCGAATAGCATATAA
1 GCACACATAGTGCCAATGTTAACTCATTATAATAAGGCAATTAACTTACTTCGAATAGCATATAA
53767514 AATCTGCACACAAAGTGACATTTAATTCC
66 AATCTGCACACAAAGTGACATTTAATTCC
* *
53767543 GCAGACATAGTGCCAATGCTAACTCATTATAATAAGGCAATTAACTTACTTCGAATAGCATATAA
1 GCACACATAGTGCCAATGTTAACTCATTATAATAAGGCAATTAACTTACTTCGAATAGCATATAA
53767608 AATCTGCACACAAAGTGACATTTAATTCC
66 AATCTGCACACAAAGTGACATTTAATTCC
*
53767637 GCACACATAGTGCCAATGTTAATTCATTATAATAAGGCAATTAACTTACTTC
1 GCACACATAGTGCCAATGTTAACTCATTATAATAAGGCAATTAACTTACTTC
53767689 AATTAATATA
Statistics
Matches: 141, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
94 141 1.00
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (94 bp):
GCACACATAGTGCCAATGTTAACTCATTATAATAAGGCAATTAACTTACTTCGAATAGCATATAA
AATCTGCACACAAAGTGACATTTAATTCC
Found at i:53782925 original size:24 final size:25
Alignment explanation
Indices: 53782897--53782960 Score: 87
Period size: 24 Copynumber: 2.6 Consensus size: 25
53782887 TAACCCGAAT
* * *
53782897 TCGCACACATAGTGCTA-ATTAAGC
1 TCGCACACATAGTGCCATACTAAAC
53782921 TCGCACACATAGTGCCATACTAAAC
1 TCGCACACATAGTGCCATACTAAAC
53782946 -CGCACACATAGTGCC
1 TCGCACACATAGTGCC
53782961 TAAAATTTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 31 0.86
25 5 0.14
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.20
Consensus pattern (25 bp):
TCGCACACATAGTGCCATACTAAAC
Found at i:53783246 original size:94 final size:94
Alignment explanation
Indices: 53782995--53783234 Score: 453
Period size: 94 Copynumber: 2.6 Consensus size: 94
53782985 ATTCAAATCT
53782995 GCACACATAGTGCCAATGTTAACTCATTATAATAAGGCAATTAACTTACTTCGAATAGCATATAA
1 GCACACATAGTGCCAATGTTAACTCATTATAATAAGGCAATTAACTTACTTCGAATAGCATATAA
53783060 AATCTGCACACAAAGTGACATTTAATTCC
66 AATCTGCACACAAAGTGACATTTAATTCC
*
53783089 GCACACATAGTGCCAATGCTAACTCATTATAATAAGGCAATTAACTTACTTCGAATAGCATATAA
1 GCACACATAGTGCCAATGTTAACTCATTATAATAAGGCAATTAACTTACTTCGAATAGCATATAA
53783154 AATCTGCACACAAAGTGACATTTAATTCC
66 AATCTGCACACAAAGTGACATTTAATTCC
* *
53783183 GCACACATAGTGCCAATGTTAATTCATTACAATAAGGCAATTAACTTACTTC
1 GCACACATAGTGCCAATGTTAACTCATTATAATAAGGCAATTAACTTACTTC
53783235 AATTAACATA
Statistics
Matches: 142, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
94 142 1.00
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.29
Consensus pattern (94 bp):
GCACACATAGTGCCAATGTTAACTCATTATAATAAGGCAATTAACTTACTTCGAATAGCATATAA
AATCTGCACACAAAGTGACATTTAATTCC
Found at i:53790786 original size:94 final size:94
Alignment explanation
Indices: 53790442--53790774 Score: 630
Period size: 94 Copynumber: 3.5 Consensus size: 94
53790432 TTCAAATCTT
*
53790442 CACACATAGTGCCAATGTTAACTCATTATAATAAGGCAATTAACTTACTTCGAATAGCATATAAA
1 CACACATAGTGCCAATGCTAACTCATTATAATAAGGCAATTAACTTACTTCGAATAGCATATAAA
53790507 ATCTGCACACAAAGTGACATTTAATTCCG
66 ATCTGCACACAAAGTGACATTTAATTCCG
53790536 CACACATAGTGCCAATGCTAACTCATTATAATAAGGCAATTAACTTACTTCGAATAGCATATAAA
1 CACACATAGTGCCAATGCTAACTCATTATAATAAGGCAATTAACTTACTTCGAATAGCATATAAA
53790601 ATCTGCACACAAAGTGACATTTAATTCCG
66 ATCTGCACACAAAGTGACATTTAATTCCG
53790630 CACACATAGTGCCAATGCTAACTCATTATAATAAGGCAATTAACTTACTTCGAATAGCATATAAA
1 CACACATAGTGCCAATGCTAACTCATTATAATAAGGCAATTAACTTACTTCGAATAGCATATAAA
53790695 ATCTGCACACAAAGTGACATTTAATTCCG
66 ATCTGCACACAAAGTGACATTTAATTCCG
* * *
53790724 CACACATAGTGCCAATGTTAATTCATTATAATAAGTCAATTAACTTACTTC
1 CACACATAGTGCCAATGCTAACTCATTATAATAAGGCAATTAACTTACTTC
53790775 AATTAACATA
Statistics
Matches: 235, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 235 1.00
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (94 bp):
CACACATAGTGCCAATGCTAACTCATTATAATAAGGCAATTAACTTACTTCGAATAGCATATAAA
ATCTGCACACAAAGTGACATTTAATTCCG
Found at i:53791808 original size:22 final size:21
Alignment explanation
Indices: 53791778--53791818 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
53791768 GGAGACTTTC
*
53791778 TCTTGCTTTCTTATTTTATTCA
1 TCTTCCTTT-TTATTTTATTCA
*
53791800 TCTTCCTTTTTTTTTTATT
1 TCTTCCTTTTTATTTTATT
53791819 TTATTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.10, C:0.17, G:0.02, T:0.71
Consensus pattern (21 bp):
TCTTCCTTTTTATTTTATTCA
Found at i:53794488 original size:27 final size:27
Alignment explanation
Indices: 53794456--53794775 Score: 162
Period size: 27 Copynumber: 11.8 Consensus size: 27
53794446 CTCAATTTGT
* *
53794456 AAAATTACCAAAGTACCCTCGATTTAC
1 AAAATTACCAAAATACCCTTGATTTAC
* **** *
53794483 AGAATTACCGTTTTACCCTTGATTTAT
1 AAAATTACCAAAATACCCTTGATTTAC
* ***** *
53794510 AGAATTACTGTTTTACCCTAGATTTAC
1 AAAATTACCAAAATACCCTTGATTTAC
* * *
53794537 AAAATTACTAAAATACCCTTGGTTTTC
1 AAAATTACCAAAATACCCTTGATTTAC
* **
53794564 AAAATTACCAAAATACCCCT-AGTTTGT
1 AAAATTACCAAAATACCCTTGA-TTTAC
* ***
53794591 AAAATTACCAAAATACTACTTG-TTCGT
1 AAAATTACCAAAATAC-CCTTGATTTAC
* * ** **
53794618 GAAATTACCGAAATACCCTCAATTTTT
1 AAAATTACCAAAATACCCTTGATTTAC
*
53794645 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACCAAAATACCCTTGATTTAC
**
53794672 AAAATTACGGAAATACCCTTGACTTT-C
1 AAAATTACCAAAATACCCTTGA-TTTAC
* * *
53794699 TAAAAGTTA-TAGAAATACCATTGGTTTAC
1 -AAAA-TTACCA-AAATACCCTTGATTTAC
* * **
53794728 AAAATTACTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTGATTTAC
* * *
53794755 AGATTTACCAAAACACCCTTG
1 AAAATTACCAAAATACCCTTG
53794776 TAGGATGAAA
Statistics
Matches: 229, Mismatches: 54, Indels: 20
0.76 0.18 0.07
Matches are distributed among these distances:
26 2 0.01
27 195 0.85
28 18 0.08
29 14 0.06
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGATTTAC
Found at i:53794870 original size:27 final size:27
Alignment explanation
Indices: 53794805--53794870 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
53794795 TACCCCTAAT
*
53794805 AGGTAAAAAGACCGTAAAGCCCCTGTA
1 AGGTAAAATGACCGTAAAGCCCCTGTA
* *
53794832 AGGTAAAGTGACCGTAATA-CCCTTGTA
1 AGGTAAAATGACCGTAA-AGCCCCTGTA
*
53794859 TGGTAAAATGAC
1 AGGTAAAATGAC
53794871 GAATATGCCC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.21
Consensus pattern (27 bp):
AGGTAAAATGACCGTAAAGCCCCTGTA
Found at i:53795714 original size:25 final size:25
Alignment explanation
Indices: 53795676--53795745 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
53795666 AGGAAGTGCT
* *
53795676 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
53795701 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
53795726 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
53795746 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:53795758 original size:24 final size:24
Alignment explanation
Indices: 53795675--53795775 Score: 96
Period size: 25 Copynumber: 4.0 Consensus size: 24
53795665 GAGGAAGTGC
*
53795675 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTATGCCCCAGTTTA-T
* *
53795700 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTATGCCCCAGTTTAT
* *
53795724 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTATGCCCCAGTTTAT
*
53795748 TAAAAGAGGCTAGGCCTCCAGTTATAT
1 TAAAAG-GGCTATGCC-CCAGTT-TAT
53795775 T
1 T
53795776 TTAAAGCAGC
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
23 5 0.08
24 11 0.17
25 43 0.67
26 1 0.02
27 4 0.06
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.27
Consensus pattern (24 bp):
TAAAAGGGCTATGCCCCAGTTTAT
Found at i:53795769 original size:50 final size:50
Alignment explanation
Indices: 53795676--53795770 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
53795666 AGGAAGTGCT
**
53795676 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
* **
53795726 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
53795771 ATATTTTAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 23 0.61
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.24
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:53796000 original size:31 final size:31
Alignment explanation
Indices: 53795965--53796079 Score: 162
Period size: 31 Copynumber: 3.7 Consensus size: 31
53795955 CGTTTACAGT
53795965 AAAGGCTTCGGCCAAGTGATATGATTTATGA
1 AAAGGCTTCGGCCAAGTGATATGATTTATGA
* * *
53795996 AAAGGATTCGGCCCAGTGATATGATTTATTA
1 AAAGGCTTCGGCCAAGTGATATGATTTATGA
*
53796027 AAAGGCTTCGGCCCAA-TGATATGATTTATGG
1 AAAGGCTTCGG-CCAAGTGATATGATTTATGA
*
53796058 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCAAGTGATATG
53796080 TCAAGACTAA
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
30 8 0.11
31 63 0.85
32 3 0.04
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCAAGTGATATGATTTATGA
Found at i:53799869 original size:21 final size:21
Alignment explanation
Indices: 53799816--53799870 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
53799806 TACAAGGCTC
*
53799816 ACACGCCCATGTGTTCTAGGG
1 ACACGCCCGTGTGTTCTAGGG
53799837 ACACGCCCGTGTGTTCTAGGG
1 ACACGCCCGTGTGTTCTAGGG
*
53799858 ACACGCCTGTGTG
1 ACACGCCCGTGTG
53799871 GTCAAGCCGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.16, C:0.29, G:0.31, T:0.24
Consensus pattern (21 bp):
ACACGCCCGTGTGTTCTAGGG
Found at i:53801956 original size:43 final size:42
Alignment explanation
Indices: 53801861--53801971 Score: 120
Period size: 43 Copynumber: 2.6 Consensus size: 42
53801851 CGTGATTGAT
* * *
53801861 GCCTCTGTCCCAGACAGGGTCTTACATGAAATCAGATACGAT
1 GCCTGTGTCCCAGACACGGTCTTACATGAAATCAGATACGAG
* *
53801903 G-CTGATGTCCCAGACATGGTCTTATATGTAAATCTCA-AT-CGAG
1 GCCTG-TGTCCCAGACACGGTCTTACATG-AAA--TCAGATACGAG
53801946 GCCTGTGTCCCAGACACGGTCTTACA
1 GCCTGTGTCCCAGACACGGTCTTACA
53801972 CGATATCTCA
Statistics
Matches: 58, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
41 2 0.03
42 22 0.38
43 26 0.45
44 5 0.09
45 3 0.05
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (42 bp):
GCCTGTGTCCCAGACACGGTCTTACATGAAATCAGATACGAG
Found at i:53803335 original size:34 final size:34
Alignment explanation
Indices: 53803296--53803368 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 34
53803286 AGTGACAGTC
53803296 CAGTATCAAT-TAGGGCCATAGCCCATTACAGTAA
1 CAGTATCAATGT-GGGCCATAGCCCATTACAGTAA
* * * *
53803330 TAGTATTAGTGTGGGCCTTAGCCCATTACAGTAA
1 CAGTATCAATGTGGGCCATAGCCCATTACAGTAA
53803364 CAGTA
1 CAGTA
53803369 ATGCAATCAG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
34 32 0.97
35 1 0.03
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (34 bp):
CAGTATCAATGTGGGCCATAGCCCATTACAGTAA
Found at i:53807105 original size:45 final size:44
Alignment explanation
Indices: 53807023--53807107 Score: 134
Period size: 45 Copynumber: 1.9 Consensus size: 44
53807013 ATGTAATCTA
*
53807023 AACTCATTGAGTTGTGTCTGAGTTCATGATATATATGACATCCG
1 AACTCATTGAGTTGTGTCTAAGTTCATGATATATATGACATCCG
* *
53807067 AACTCATTGAGTTGTGGTCTAAGTTCGTGATATGTATGACA
1 AACTCATTGAGTTGT-GTCTAAGTTCATGATATATATGACA
53807108 CATGTTTTGG
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
44 15 0.41
45 22 0.59
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.36
Consensus pattern (44 bp):
AACTCATTGAGTTGTGTCTAAGTTCATGATATATATGACATCCG
Found at i:53812013 original size:40 final size:40
Alignment explanation
Indices: 53811810--53812013 Score: 202
Period size: 40 Copynumber: 5.1 Consensus size: 40
53811800 CGGAATTTAA
** *
53811810 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
53811850 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
53811890 CCAGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
53811929 CCAGA-ATTAGTAACTCGCACAAATGGCTT-TGGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
53811969 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
53812009 CCGGA
1 CCGGA
53812014 CATCATTCGA
Statistics
Matches: 135, Mismatches: 22, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
38 2 0.01
39 31 0.23
40 90 0.67
41 12 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:53818230 original size:45 final size:44
Alignment explanation
Indices: 53818145--53818231 Score: 120
Period size: 45 Copynumber: 2.0 Consensus size: 44
53818135 TAGGTAATTT
* *
53818145 GAACTCATTGAGTTGTGTCTGAGTTCATGATACATGTGACACCC
1 GAACTCATTGAGTTGTGTCTAAGTTCATGATACATATGACACCC
* **
53818189 GAACTCATTGAGTTGTGGTCTAAGTTCGTGATATGTATGACAC
1 GAACTCATTGAGTTGT-GTCTAAGTTCATGATACATATGACAC
53818232 ATGTTTTTGC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 16 0.43
45 21 0.57
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.33
Consensus pattern (44 bp):
GAACTCATTGAGTTGTGTCTAAGTTCATGATACATATGACACCC
Found at i:53820535 original size:26 final size:26
Alignment explanation
Indices: 53820497--53820552 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
53820487 ATCCAATCAA
53820497 ACATGTTAATATCAAAGTTTACATAT
1 ACATGTTAATATCAAAGTTTACATAT
*
53820523 ACATGTTAGTATCAAAGTTTACATAT
1 ACATGTTAATATCAAAGTTTACATAT
53820549 ACAT
1 ACAT
53820553 CAAGTAAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (26 bp):
ACATGTTAATATCAAAGTTTACATAT
Found at i:53830822 original size:30 final size:30
Alignment explanation
Indices: 53830788--53830845 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
53830778 CCGAGCCTAG
53830788 GGGCAAAAGTGTAAATATGTAAAAGTTTAA
1 GGGCAAAAGTGTAAATATGTAAAAGTTTAA
* *
53830818 GGGCAAAATTGTAAATTTGTAAAAGTTT
1 GGGCAAAAGTGTAAATATGTAAAAGTTT
53830846 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.43, C:0.03, G:0.22, T:0.31
Consensus pattern (30 bp):
GGGCAAAAGTGTAAATATGTAAAAGTTTAA
Found at i:53832386 original size:42 final size:42
Alignment explanation
Indices: 53832340--53832467 Score: 229
Period size: 42 Copynumber: 3.0 Consensus size: 42
53832330 TTAGGCCTAC
* * *
53832340 TTCAATATCACATGTAATGTCAATGGATGTATGAAAGCCTAT
1 TTCAATATCACATGTAATGTCAATGAATGTATGCAAGCCCAT
53832382 TTCAATATCACATGTAATGTCAATGAATGTATGCAAGCCCAT
1 TTCAATATCACATGTAATGTCAATGAATGTATGCAAGCCCAT
53832424 TTCAATATCACATGTAATGTCAATGAATGTATGCAAGCCCAT
1 TTCAATATCACATGTAATGTCAATGAATGTATGCAAGCCCAT
53832466 TT
1 TT
53832468 AGGGAGACTA
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 83 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (42 bp):
TTCAATATCACATGTAATGTCAATGAATGTATGCAAGCCCAT
Found at i:53832813 original size:13 final size:13
Alignment explanation
Indices: 53832795--53832820 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
53832785 ATATTATAAT
53832795 TATTTTATGTTAA
1 TATTTTATGTTAA
53832808 TATTTTATGTTAA
1 TATTTTATGTTAA
53832821 AAAATAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:53834249 original size:40 final size:40
Alignment explanation
Indices: 53834203--53834406 Score: 311
Period size: 40 Copynumber: 5.1 Consensus size: 40
53834193 ACTAAGATCT
*
53834203 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCC
* *
53834243 GAAGGCATCTGTGCTAGTTACTATATCCAGGCTAAGTCCC
1 GAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCC
*
53834283 GAAGGCATCTGTGCTAGTTACTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCC
* * *
53834323 GAAGGCATTTTTTCGAGTTACTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCC
* * *
53834363 GAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATCCC
1 GAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCC
53834402 GAAGG
1 GAAGG
53834407 TACTTGGGTT
Statistics
Matches: 152, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 15 0.10
40 137 0.90
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (40 bp):
GAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCC
Found at i:53840934 original size:13 final size:13
Alignment explanation
Indices: 53840916--53840941 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
53840906 ATATTATAAT
53840916 TATTTTATGTTAA
1 TATTTTATGTTAA
53840929 TATTTTATGTTAA
1 TATTTTATGTTAA
53840942 AAATAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:53842448 original size:40 final size:39
Alignment explanation
Indices: 53842317--53842478 Score: 258
Period size: 39 Copynumber: 4.2 Consensus size: 39
53842307 GGACTAAGAT
53842317 CCGAAGGCATTGTGCTAGTTACTATAT-CGGGCTAAGTC
1 CCGAAGGCATTGTGCTAGTTACTATATCCGGGCTAAGTC
53842355 CCGAAGGCATTGTGCTAGTTACTATATCCGGGCTAAGT-
1 CCGAAGGCATTGTGCTAGTTACTATATCCGGGCTAAGTC
53842393 CCGAAGGCATCTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCAT-TGTGCTAGTTACTATATCCGGGCTAAGTC
* * *
53842433 CCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATC
1 CCGAAGGCA-TTGTGCTAGTTACTATATCCGGGCTAAGTC
53842472 CCGAAGG
1 CCGAAGG
53842479 TACTTGGGTT
Statistics
Matches: 117, Mismatches: 3, Indels: 7
0.92 0.02 0.06
Matches are distributed among these distances:
38 37 0.32
39 53 0.45
40 26 0.22
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (39 bp):
CCGAAGGCATTGTGCTAGTTACTATATCCGGGCTAAGTC
Found at i:53845005 original size:25 final size:25
Alignment explanation
Indices: 53844973--53845042 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
53844963 CTCTTTTAAT
53844973 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
*
53844998 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
53845023 AACTGGGGCAGAGCTCTTTT
1 AACTGGGGCAAAGCCCTTTT
53845043 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 37 0.90
26 4 0.10
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:53845884 original size:27 final size:27
Alignment explanation
Indices: 53845854--53845918 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
53845844 GGGCATATTC
53845854 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
53845881 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
53845908 GTCTTTTTACC
1 GTCATTTTACC
53845919 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:53846002 original size:27 final size:27
Alignment explanation
Indices: 53845949--53846241 Score: 245
Period size: 27 Copynumber: 10.8 Consensus size: 27
53845939 TTTCATCCTA
* * *
53845949 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
** *
53845976 CAAGGGTATTTCAGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
** * * *
53846003 CAATTGTATTTCT-ATAATTTTTAGAAAGT
1 CAAGGGTATTT-TGGTAA-TTTTACAAA-C
** *
53846032 CAAGGGTATTTCT-GTAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTACAAAC
* *
53846059 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
** * *
53846086 TGAGGATATTTTGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
53846113 C-AGTGGTATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTTGGTAATTTTACAAAC
* *
53846139 CTAGGGATATTTTGGTAATTTTATAAAC
1 CAAGGG-TATTTTGGTAATTTTACAAAC
* **
53846167 AAAGGGTATTTCAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
53846194 CAGGGGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
53846220 CTAGAGGTATTTTGGTAATTTT
1 CAAG-GGTATTTTGGTAATTTT
53846242 CTCCTACAGG
Statistics
Matches: 216, Mismatches: 41, Indels: 18
0.79 0.15 0.07
Matches are distributed among these distances:
26 8 0.04
27 175 0.81
28 19 0.09
29 14 0.06
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:53846152 original size:81 final size:80
Alignment explanation
Indices: 53846062--53846272 Score: 262
Period size: 81 Copynumber: 2.6 Consensus size: 80
53846052 TGTAAATCAG
*** ** *
53846062 GGGTATTTTGGTAATTTTACAAATTGAGGATATTTTGGTAATTTCACAAACCAGTGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACAAAGGATATTTCAGTAATTTCACAAACCAGGGGTATTTTGG
53846127 TAATTTTACAAACTA
66 TAATTTTACAAACTA
* * *
53846142 GGGATATTTTGGTAATTTTATAAACAAAGGGTATTTCAGTAATTTTACAAACCAGGGGTATTTTG
1 GGG-TATTTTGGTAATTTTACAAACAAAGGATATTTCAGTAATTTCACAAACCAGGGGTATTTTG
53846207 GTAATTTTACAAACTA
65 GTAATTTTACAAACTA
* ** * *
53846223 GAGGTATTTTGGTAATTTTCTCCTAC-AGGGGTATTTCAGTAATTTCACAA
1 G-GGTATTTTGGTAATTTT-ACAAACAAAGGATATTTCAGTAATTTCACAA
53846273 TCGAAGGTAA
Statistics
Matches: 113, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
80 3 0.03
81 106 0.94
82 4 0.04
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (80 bp):
GGGTATTTTGGTAATTTTACAAACAAAGGATATTTCAGTAATTTCACAAACCAGGGGTATTTTGG
TAATTTTACAAACTA
Found at i:53846252 original size:54 final size:52
Alignment explanation
Indices: 53846063--53846272 Score: 213
Period size: 54 Copynumber: 3.9 Consensus size: 52
53846053 GTAAATCAGG
** * *
53846063 GGTATTTTGGTAATTTTACAAATTGAGGATATTTTGGTAATTTCACAAACCAGT
1 GGTATTTTGGTAATTTTACAAACAG-GGGTATTTTGGTAATTTCACAAA-CAGA
* * * *
53846117 GGTATTTTGGTAATTTTACAAACTAGGGATATTTTGGTAATTTTATAAACAAA
1 GGTATTTTGGTAATTTTACAAAC-AGGGGTATTTTGGTAATTTCACAAACAGA
** *
53846170 GGGTATTTCAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACTAGA
1 -GGTATTTTGGTAATTTTACAAA-CAGGGGTATTTTGGTAATTTCACAAAC-AGA
* ** **
53846225 GGTATTTTGGTAATTTTCTCCTACAGGGGTATTTCAGTAATTTCACAA
1 GGTATTTTGGTAATTTT-ACAAACAGGGGTATTTTGGTAATTTCACAA
53846273 TCGAAGGTAA
Statistics
Matches: 132, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
53 2 0.02
54 124 0.94
55 6 0.05
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (52 bp):
GGTATTTTGGTAATTTTACAAACAGGGGTATTTTGGTAATTTCACAAACAGA
Found at i:53846311 original size:27 final size:27
Alignment explanation
Indices: 53846271--53846387 Score: 173
Period size: 27 Copynumber: 4.3 Consensus size: 27
53846261 GTAATTTCAC
*
53846271 AATCGAAGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
53846298 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
*
53846325 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
53846352 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
53846379 AATCGAGGG
1 AATCGAGGG
53846388 CATTTCAATA
Statistics
Matches: 83, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
26 1 0.01
27 81 0.98
28 1 0.01
ACGTcount: A:0.38, C:0.07, G:0.26, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:53848682 original size:31 final size:31
Alignment explanation
Indices: 53848639--53848784 Score: 258
Period size: 31 Copynumber: 4.7 Consensus size: 31
53848629 TTAGTCTTGA
*
53848639 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
53848669 CATATCACTGGGCCGAAGCCTTTTCATAAGT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
53848700 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
53848731 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
53848762 CATATCACTAGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
53848785 ACTGTAAACG
Statistics
Matches: 111, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
30 5 0.05
31 106 0.95
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:53848861 original size:42 final size:42
Alignment explanation
Indices: 53848814--53848941 Score: 202
Period size: 42 Copynumber: 3.0 Consensus size: 42
53848804 TTAGGCCTAC
* **
53848814 TTCAATATCACATGTAATGTCAATGGATGTATGCAAACTTAT
1 TTCAATATCACATGTAATGTCAATGAATGTATGCAAACCCAT
* *
53848856 TTCAATATCACCTGTAATGTCAATGAATGTATGCAAGCCCAT
1 TTCAATATCACATGTAATGTCAATGAATGTATGCAAACCCAT
*
53848898 TTCAATATCACATGTAATGTCAATGAATGTATGCAAGCCCAT
1 TTCAATATCACATGTAATGTCAATGAATGTATGCAAACCCAT
53848940 TT
1 TT
53848942 GGGGAGACTA
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 80 1.00
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (42 bp):
TTCAATATCACATGTAATGTCAATGAATGTATGCAAACCCAT
Found at i:53849117 original size:25 final size:25
Alignment explanation
Indices: 53849089--53849158 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
53849079 CTCTTTTAAT
53849089 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
*
53849114 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
53849139 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
53849159 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 38 0.90
26 4 0.10
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:53850117 original size:27 final size:27
Alignment explanation
Indices: 53850064--53850354 Score: 210
Period size: 27 Copynumber: 10.7 Consensus size: 27
53850054 TTTCATCCTA
* * * *
53850064 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* * *
53850091 CAAGGGTATTTCAGTAATTATATAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
** * *
53850118 CAATAGTATTTCTA-TAATTTTTAGAAAGT
1 CAAGGGTATTT-TAGTAA-TTTTACAAA-C
** *
53850147 CAAGGGTATTTCT-GTAATTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTACAAAC
* * *
53850174 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAC
** * *
53850201 TGAGGGTATTTCAGTAATTTCACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
*
53850228 C-AGAGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTTAGTAATTTTACAAAC
* * * * *
53850255 TAGGGGTGTTTTGGTAATTTTATAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
*
53850282 AAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* * *
53850309 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* * *
53850336 TAGGGGTATTTTGGTAATT
1 CAAGGGTATTTTAGTAATT
53850355 CTATCCTACA
Statistics
Matches: 215, Mismatches: 42, Indels: 14
0.79 0.15 0.05
Matches are distributed among these distances:
26 3 0.01
27 182 0.85
28 16 0.07
29 14 0.07
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTACAAAC
Found at i:53850236 original size:54 final size:53
Alignment explanation
Indices: 53850072--53850387 Score: 226
Period size: 54 Copynumber: 5.8 Consensus size: 53
53850062 TACAAGGGTG
* * * * * *
53850072 TTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTATATAAACCA-ATAGTA
1 TTTTGGTAATTTTACAAA-CTAGGGTATTTCAGTAATTTTACAAACCAGA-GGTA
* * * * ** * *
53850126 TTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATCAGGGGTA
1 TTT-TGGTAA-TTTTACAAA--CTAGGGTATTTCAGTAATTTTACAAACCAGAGGTA
* *
53850182 TTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAACCAGAGGTA
1 TTTTGGTAATTTTACAAACT-AGGGTATTTCAGTAATTTTACAAACCAGAGGTA
* ** * *
53850236 TTTTGGTAATTTTACAAACTAGGGGTGTTTTGGTAATTTTATAAA-CAAAGGGTA
1 TTTTGGTAATTTTACAAACTA-GGGTATTTCAGTAATTTTACAAACCAGA-GGTA
* ** * *
53850290 TTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTA
1 TTTTGGTAATTTTACAAACTA-GGGTATTTCAGTAATTTTACAAACCAGAGGTA
* ** *
53850344 TTTTGGTAATTCTATCCTAC-AGGGGTATTTCAGTAATTTCACAA
1 TTTTGGTAATTTTA-CAAACTA-GGGTATTTCAGTAATTTTACAA
53850388 TCGAGGGTAA
Statistics
Matches: 211, Mismatches: 41, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
53 4 0.02
54 153 0.73
55 20 0.09
56 34 0.16
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (53 bp):
TTTTGGTAATTTTACAAACTAGGGTATTTCAGTAATTTTACAAACCAGAGGTA
Found at i:53850267 original size:81 final size:81
Alignment explanation
Indices: 53850175--53850387 Score: 302
Period size: 81 Copynumber: 2.6 Consensus size: 81
53850165 TTTGTAAATC
**
53850175 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAACCAGAGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAACAGAGGGTATTTCAGTAATTTCACAAACCAGAGGTATTTT
53850240 GGTAATTTTACAAACT
66 GGTAATTTTACAAACT
* * * * * * *
53850256 AGGGGTGTTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAACAGAGGGTATTTCAGTAATTTCACAAACCAGAGGTATTTT
53850321 GGTAATTTTACAAACT
66 GGTAATTTTACAAACT
* **
53850337 AGGGGTATTTTGGTAATTCTATCCTACAG-GGGTATTTCAGTAATTTCACAA
1 AGGGGTATTTTGGTAATTTTA-CAAACAGAGGGTATTTCAGTAATTTCACAA
53850388 TCGAGGGTAA
Statistics
Matches: 114, Mismatches: 17, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
81 111 0.97
82 3 0.03
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAACAGAGGGTATTTCAGTAATTTCACAAACCAGAGGTATTTT
GGTAATTTTACAAACT
Found at i:53850373 original size:27 final size:27
Alignment explanation
Indices: 53850150--53850354 Score: 245
Period size: 27 Copynumber: 7.6 Consensus size: 27
53850140 AGAAAGTCAA
**
53850150 GGGTATTTCT-GTAATTTTGTAAA-TCAG
1 GGGTATTT-TGGTAATTTTACAAACT-AG
*
53850177 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
** * *
53850203 AGGGTATTTCAGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
*
53850231 AGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * * *
53850258 GGGTGTTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACTAG
*
53850285 GGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
53850312 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
53850339 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
53850355 CTATCCTACA
Statistics
Matches: 151, Mismatches: 24, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
26 2 0.01
27 148 0.98
28 1 0.01
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:53850420 original size:27 final size:27
Alignment explanation
Indices: 53850386--53850475 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
53850376 GTAATTTCAC
53850386 AATCGAGGGTAAAATGATAATTTTGTA
1 AATCGAGGGTAAAATGATAATTTTGTA
*
53850413 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGATAATTTTGTA
* * * *
53850440 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGATAATTTTGTA
53850467 AATCGAGGG
1 AATCGAGGG
53850476 CATTTCAATA
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
26 1 0.02
27 55 0.96
28 1 0.02
ACGTcount: A:0.39, C:0.07, G:0.26, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATGATAATTTTGTA
Found at i:53854065 original size:46 final size:45
Alignment explanation
Indices: 53854012--53854187 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 45
53854002 TATTTGGGTA
53854012 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* *** * *
53854058 TCCGAACTCGTTGAGTTGAGTCTGAGTTCGAGAGATGTAACTAGGCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GGAATG
* * *
53854105 TCTGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
53854151 CCCGAGCTCGTTAAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53854188 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 65 0.61
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:53859612 original size:41 final size:40
Alignment explanation
Indices: 53859559--53859728 Score: 152
Period size: 41 Copynumber: 4.2 Consensus size: 40
53859549 AGTCTGACTC
*
53859559 TTAG-CACCGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
* * *
53859598 TTAGACTACTGGCTCGAAGGCCCTTCG-GAACTAAG-TCCGG-
1 TTAGAC-ACTGGCTCAAAAGCCCTTCGAG-ACCAAGCT-CGGA
* * *
53859638 TTATGACACTGGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTTA
1 TTA-GACACTGGCTC--AAAAGCCCTTCGAGACCAAGCTCGG--A
*
53859683 TTAG-CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCAGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
53859722 TTTAGAC
1 -TTAGAC
53859729 CCCGATTAGC
Statistics
Matches: 106, Mismatches: 11, Indels: 26
0.74 0.08 0.18
Matches are distributed among these distances:
39 5 0.05
40 18 0.17
41 50 0.47
42 19 0.18
43 10 0.09
44 1 0.01
45 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
Found at i:53867930 original size:41 final size:40
Alignment explanation
Indices: 53867877--53868046 Score: 152
Period size: 41 Copynumber: 4.2 Consensus size: 40
53867867 AGTCTGACTC
*
53867877 TTAG-CACCGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
* * *
53867916 TTAGACTACTGGCTCGAAGGCCCTTCG-GAACTAAG-TCCGG-
1 TTAGAC-ACTGGCTCAAAAGCCCTTCGAG-ACCAAGCT-CGGA
* * *
53867956 TTATGACACTGGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTTA
1 TTA-GACACTGGCTC--AAAAGCCCTTCGAGACCAAGCTCGG--A
*
53868001 TTAG-CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCAGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
53868040 TTTAGAC
1 -TTAGAC
53868047 CCCGATTCAC
Statistics
Matches: 106, Mismatches: 11, Indels: 26
0.74 0.08 0.18
Matches are distributed among these distances:
39 5 0.05
40 18 0.17
41 50 0.47
42 19 0.18
43 10 0.09
44 1 0.01
45 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
Found at i:53870783 original size:64 final size:64
Alignment explanation
Indices: 53870617--53870788 Score: 177
Period size: 68 Copynumber: 2.6 Consensus size: 64
53870607 TGGATGATAC
* * * *
53870617 AGATAGTATGTAGCTAGGTCACATGTATGGTGCTAAGTGCACATCATGTGTACAAGAGAGCTACA
1 AGATA-TATGTAGCTAGGTCGCATGTGT-GTACTAAGTGCACACCATGTGTACAAGAGAGCTAC-
53870682 AG
63 AG
* * * *
53870684 ACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTCG-ACAAGAGAGCTA
1 AGA-TAT-ATGTAGCTAGGTCGCATGTGTG-TACTAAGTGCACACCATGT-GTACAAGAGAGCTA
53870748 C-G
62 CAG
*
53870750 AGATATATGTAGCTAGGTCGCATTTGTAGTACTAAGTGC
1 AGATATATGTAGCTAGGTCGCATGTGT-GTACTAAGTGC
53870789 GGGCTACTAT
Statistics
Matches: 87, Mismatches: 13, Indels: 13
0.77 0.12 0.12
Matches are distributed among these distances:
64 27 0.31
65 4 0.05
66 3 0.03
67 4 0.05
68 48 0.55
69 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (64 bp):
AGATATATGTAGCTAGGTCGCATGTGTGTACTAAGTGCACACCATGTGTACAAGAGAGCTACAG
Found at i:53870890 original size:50 final size:50
Alignment explanation
Indices: 53870774--53870914 Score: 194
Period size: 50 Copynumber: 2.8 Consensus size: 50
53870764 AGGTCGCATT
* * *
53870774 TGTAGTACTAAGTGCGGGCTACTATGCGTACCCA-ATAACTTCGATCACGTG
1 TGTAGTACTAAGTGCAGGCTACTATGCGTA-CCAGAT-AGTTAGATCACGTG
* * * *
53870825 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAGTTAGGTCACGTG
1 TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGTTAGATCACGTG
53870875 TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGTT
1 TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGTT
53870915 TGGCTACATA
Statistics
Matches: 79, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
50 50 0.63
51 29 0.37
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (50 bp):
TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGTTAGATCACGTG
Found at i:53884011 original size:43 final size:42
Alignment explanation
Indices: 53883899--53884049 Score: 137
Period size: 43 Copynumber: 3.5 Consensus size: 42
53883889 CAATGCCAAC
* * *
53883899 GTCCTAGACGTGGTCTTACATGT-AATCAAATATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGTAAATCAAATA-CGATGCCA-T
* * * *
53883942 ATCCCAGGCAGGGTCTTACATG-AAATCAAATACGATGCCGAT
1 GTCCCAGACATGGTCTTACACGTAAATCAAATACGATGCC-AT
* * *
53883984 GTCCCAGACATGTTCTTACACGTAAATCATAAGT-TGATGCCAAC
1 GTCCCAGACATGGTCTTACACGTAAATCA-AA-TACGATGCC-AT
53884028 GTCCCAGACATGGTCTTACACG
1 GTCCCAGACATGGTCTTACACG
53884050 AAAACACATA
Statistics
Matches: 89, Mismatches: 14, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
42 25 0.28
43 33 0.37
44 30 0.34
45 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGTAAATCAAATACGATGCCAT
Found at i:53885720 original size:12 final size:12
Alignment explanation
Indices: 53885703--53885733 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
53885693 TTCCACGGGG
53885703 ACACTTTCAAAA
1 ACACTTTCAAAA
53885715 ACACTTTCAAAA
1 ACACTTTCAAAA
53885727 ACACTTT
1 ACACTTT
53885734 ATTGCCAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (12 bp):
ACACTTTCAAAA
Found at i:53889386 original size:47 final size:46
Alignment explanation
Indices: 53889298--53889442 Score: 186
Period size: 47 Copynumber: 3.1 Consensus size: 46
53889288 CACAATTGGT
* * *
53889298 CATTCGGCCTTATCACA-TATTCACTTACACATAT-ATCACATTAAC
1 CATTCGGCCTTATCACATTATACACTTTCACAT-TCATCACATTGAC
* *
53889343 CATTCGGCCTTATCACATGTATGCACTTTCACATTCATCACATTGCC
1 CATTCGGCCTTATCACAT-TATACACTTTCACATTCATCACATTGAC
* *
53889390 CATTCGGCCTTATCACATATACACACTTTCACATTCATCACATTGGC
1 CATTCGGCCTTATCACAT-TATACACTTTCACATTCATCACATTGAC
53889437 CATTCG
1 CATTCG
53889443 ATCTTAAGCT
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
45 17 0.19
46 1 0.01
47 71 0.80
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (46 bp):
CATTCGGCCTTATCACATTATACACTTTCACATTCATCACATTGAC
Found at i:53893184 original size:40 final size:40
Alignment explanation
Indices: 53893129--53893441 Score: 450
Period size: 40 Copynumber: 7.8 Consensus size: 40
53893119 AAATACACAT
* * *
53893129 CACCAGCATGAATGCTCTTCGGGACCTAGACCGAATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGAATATAA
* *
53893169 CACCAGCACGAATGCTCTTCGGGACTTAACCCTAATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGAATATAA
* * *
53893209 CTCCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGAATATAA
*
53893249 CACCAGCACGAATGCTCTTTGGGACTTAGCCC-AGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGA-ATATAA
*
53893289 CACCAGCACGAATGCTCTTCGAGACTTAGCCC-AGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGA-ATATAA
* * *
53893329 CACCAGCAGGTATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGAATATAA
* *
53893369 CACCAGTACGTATGCTCTTCGGGACTTAGCCCGAATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGAATATAA
*
53893409 CTCCAGCACGAATGCTCTTCGGGACTTAGCCCG
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCG
53893442 GATCATCGGC
Statistics
Matches: 245, Mismatches: 26, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
40 245 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGAATATAA
Found at i:53896786 original size:47 final size:47
Alignment explanation
Indices: 53896263--53896750 Score: 868
Period size: 47 Copynumber: 10.4 Consensus size: 47
53896253 ATTCAGCCAA
*
53896263 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
* *
53896310 GAAAGTGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
* *
53896357 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATTTGATAAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
53896404 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
53896451 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
53896498 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
53896545 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
53896592 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
* * * *
53896639 GAAAGTGTATATATGTAATAAGGCCTAATGGCCAATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
* *
53896686 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
*
53896733 GAAAGTGTATATATGTGA
1 GAAAGTGTATATGTGTGA
53896751 CAGGGCCGAG
Statistics
Matches: 428, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 428 1.00
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.30
Consensus pattern (47 bp):
GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
Found at i:53900423 original size:22 final size:22
Alignment explanation
Indices: 53900395--53900471 Score: 66
Period size: 22 Copynumber: 3.4 Consensus size: 22
53900385 CTTACACATA
53900395 TATCACATTAACCATTCGACCT
1 TATCACATTAACCATTCGACCT
* *
53900417 TATCACATGTATACACTTTC-ACAT
1 TATCACAT-TA-AC-CATTCGACCT
** *
53900441 TCATCACATTGCCCATTCGGCCT
1 T-ATCACATTAACCATTCGACCT
53900464 TATCACAT
1 TATCACAT
53900472 ATACACACTT
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
22 19 0.44
23 6 0.14
24 7 0.16
25 11 0.26
ACGTcount: A:0.29, C:0.31, G:0.06, T:0.34
Consensus pattern (22 bp):
TATCACATTAACCATTCGACCT
Found at i:53900449 original size:47 final size:46
Alignment explanation
Indices: 53900362--53900512 Score: 180
Period size: 47 Copynumber: 3.3 Consensus size: 46
53900352 CACAATTGGT
* * * *
53900362 CATTCGGCCTTATCACA-TATTCACTTACACATAT-ATCACATTAAC
1 CATTCGACCTTATCACATTATACACTTTCACAT-TCATCACATTGAC
*
53900407 CATTCGACCTTATCACATGTATACACTTTCACATTCATCACATTGCC
1 CATTCGACCTTATCACAT-TATACACTTTCACATTCATCACATTGAC
* * *
53900454 CATTCGGCCTTATCACATATACACACTTTCACATTCATCACATTGGC
1 CATTCGACCTTATCACAT-TATACACTTTCACATTCATCACATTGAC
*
53900501 CATTCGATCTTA
1 CATTCGACCTTA
53900513 AGCTAGATAT
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
45 16 0.17
46 1 0.01
47 75 0.82
ACGTcount: A:0.29, C:0.30, G:0.07, T:0.34
Consensus pattern (46 bp):
CATTCGACCTTATCACATTATACACTTTCACATTCATCACATTGAC
Found at i:53907374 original size:43 final size:42
Alignment explanation
Indices: 53907327--53907421 Score: 120
Period size: 42 Copynumber: 2.2 Consensus size: 42
53907317 AAACGTAGTT
53907327 TTACATGTAATCAAATATCAATG-CCACTGTCCCAGACAGGGTC
1 TTACATGTAATCAAATA-CAATGTCCA-TGTCCCAGACAGGGTC
* * * * *
53907370 TTACACGAAATCAAATACGATGTCGATGTCCCAGACATGGTC
1 TTACATGTAATCAAATACAATGTCCATGTCCCAGACAGGGTC
53907412 TTACATGTAA
1 TTACATGTAA
53907422 ATCATAAGTC
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
42 27 0.61
43 17 0.39
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (42 bp):
TTACATGTAATCAAATACAATGTCCATGTCCCAGACAGGGTC
Found at i:53907412 original size:42 final size:43
Alignment explanation
Indices: 53907354--53907465 Score: 131
Period size: 44 Copynumber: 2.6 Consensus size: 43
53907344 TCAATGCCAC
* *
53907354 TGTCCCAGACAGGGTCTTACACGAAATCA-AA-TACGATG-TCGA
1 TGTCCCAGACATGGTCTTACACGAAATCATAAGT-CGATGCT-AA
*
53907396 TGTCCCAGACATGGTCTTACATGTAAATCATAAGTCGATGCTAA
1 TGTCCCAGACATGGTCTTACACG-AAATCATAAGTCGATGCTAA
**
53907440 CATCCCAGACATGGTCTTACACGAAA
1 TGTCCCAGACATGGTCTTACACGAAA
53907466 ACACATATTG
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
42 21 0.35
43 9 0.15
44 28 0.47
45 2 0.03
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (43 bp):
TGTCCCAGACATGGTCTTACACGAAATCATAAGTCGATGCTAA
Found at i:53911601 original size:29 final size:27
Alignment explanation
Indices: 53911559--53911613 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 27
53911549 TTTTTCATTT
*
53911559 ATTTCACATTTTAACTACTAACTTTACAA
1 ATTTCACAATTTAA-TACTAA-TTTACAA
*
53911588 ATTTCACAATTTAATCCTAATTTACA
1 ATTTCACAATTTAATACTAATTTACA
53911614 TTTTCACTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 6 0.25
28 5 0.21
29 13 0.54
ACGTcount: A:0.38, C:0.20, G:0.00, T:0.42
Consensus pattern (27 bp):
ATTTCACAATTTAATACTAATTTACAA
Found at i:53918082 original size:42 final size:41
Alignment explanation
Indices: 53917921--53918074 Score: 175
Period size: 42 Copynumber: 3.7 Consensus size: 41
53917911 ATGAGTTTAT
* * *
53917921 GTGTAAGACCATATCTGTGATATGGTATC-ATTATGAGATTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGA-TATGAGA-ATC
* *
53917963 GTGTAAGACCATGTCTGGGACATGGCATCGATATGAGAATC
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGAATC
* * *
53918004 GTGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGACTCC
1 GTGTAAGACCATATCTGGGATA-TGGCATCGATATGAGAAT-C
* *
53918047 ATGTAAGACCATATCTAGGATATGGCAT
1 GTGTAAGACCATATCTGGGATATGGCAT
53918075 TGGTATGATT
Statistics
Matches: 95, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
41 20 0.21
42 55 0.58
43 20 0.21
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (41 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATATGAGAATC
Found at i:53918082 original size:84 final size:83
Alignment explanation
Indices: 53917921--53918074 Score: 193
Period size: 84 Copynumber: 1.8 Consensus size: 83
53917911 ATGAGTTTAT
* * * * * * * *
53917921 GTGTAAGACCATATCTGTGATATGGTATCATTATGAGATTTCGTGTAAGACCATGTCTGGGACAT
1 GTGTAAGACCATAGCTGGGATATGGCATCATTATGAGACTCCATGTAAGACCATATCTAGGACAT
53917986 GGCATCGATATGAGAATC
66 GGCATCGATATGAGAATC
* *
53918004 GTGTAAGACCATAGCTGGGCTATTGGCATCGA-TATGAGACTCCATGTAAGACCATATCTAGGAT
1 GTGTAAGACCATAGCTGGGATA-TGGCATC-ATTATGAGACTCCATGTAAGACCATATCTAGGAC
53918068 ATGGCAT
64 ATGGCAT
53918075 TGGTATGATT
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
83 19 0.32
84 39 0.66
85 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (83 bp):
GTGTAAGACCATAGCTGGGATATGGCATCATTATGAGACTCCATGTAAGACCATATCTAGGACAT
GGCATCGATATGAGAATC
Found at i:53923445 original size:18 final size:18
Alignment explanation
Indices: 53923399--53923448 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
53923389 TTACTATAGA
* *
53923399 TTTTGTATCTAAAATTAT
1 TTTTATATCTGAAATTAT
53923417 TTTTATATCTGAAATTAT
1 TTTTATATCTGAAATTAT
*
53923435 TTTTATCTCTGAAA
1 TTTTATATCTGAAA
53923449 AGGAAAATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.32, C:0.08, G:0.06, T:0.54
Consensus pattern (18 bp):
TTTTATATCTGAAATTAT
Found at i:53925107 original size:42 final size:42
Alignment explanation
Indices: 53925049--53925213 Score: 167
Period size: 42 Copynumber: 3.9 Consensus size: 42
53925039 ACATTAGGGT
*
53925049 TATGAG-TTTACGTGTAAGACCATATCTGGGATATGGTATC-A
1 TATGAGATTT-CGTGTAAGACCATATCTGGGATATGGCATCGA
* * *
53925090 TTATGAGATTTCGTGTAAGACCATGTTTGGGACATGGCATCGA
1 -TATGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCGA
* * *
53925133 TATGAGA-ATCGTGTAAGAACATAGT-TGGGCTATTGGCATCGA
1 TATGAGATTTCGTGTAAGACCATA-TCTGGGATA-TGGCATCGA
* * * *
53925175 TATGAGACTCCATGTAAGACCATATCTAGGATATGGCAT
1 TATGAGATTTCGTGTAAGACCATATCTGGGATATGGCAT
53925214 TGGTTTGATT
Statistics
Matches: 102, Mismatches: 15, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
41 18 0.18
42 63 0.62
43 21 0.21
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (42 bp):
TATGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCGA
Found at i:53929799 original size:34 final size:33
Alignment explanation
Indices: 53929734--53929799 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 33
53929724 CTGTTATTGT
* *
53929734 TACTGAATTGGGCTAGGCCCACACTATTACTGA
1 TACTGAATTAGGCTAGGCCCACACTAATACTGA
*
53929767 TACTGTATTAGGCTAAGGCCCTA-ACTAATACTG
1 TACTGAATTAGGCT-AGGCCC-ACACTAATACTG
53929800 GACTATCACT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 12 0.43
34 15 0.54
35 1 0.04
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (33 bp):
TACTGAATTAGGCTAGGCCCACACTAATACTGA
Found at i:53935818 original size:34 final size:34
Alignment explanation
Indices: 53935770--53935834 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
53935760 TGGATGACAT
*
53935770 CTGTTACTGTTACTGAATTGGGCTAAGGCCCGCA
1 CTGTTACTGATACTGAATTGGGCTAAGGCCCGCA
*
53935804 CTGTTACTGATACTGTATTGGGCTAAGGCCC
1 CTGTTACTGATACTGAATTGGGCTAAGGCCC
53935835 TAACTGATAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.20, C:0.23, G:0.26, T:0.31
Consensus pattern (34 bp):
CTGTTACTGATACTGAATTGGGCTAAGGCCCGCA
Found at i:53938566 original size:28 final size:29
Alignment explanation
Indices: 53938532--53938592 Score: 99
Period size: 28 Copynumber: 2.1 Consensus size: 29
53938522 CACATACCTG
53938532 TATATGGCCCA-CTAGGCCCAA-TCACATT
1 TATATGGCCCATC-AGGCCCAATTCACATT
53938560 TATATGGCCCATCAGGCCCAATTCACATT
1 TATATGGCCCATCAGGCCCAATTCACATT
53938589 TATA
1 TATA
53938593 GTCATGCTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
28 19 0.61
29 12 0.39
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.28
Consensus pattern (29 bp):
TATATGGCCCATCAGGCCCAATTCACATT
Found at i:53938825 original size:16 final size:16
Alignment explanation
Indices: 53938804--53938838 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
53938794 GTAGTCAAAC
53938804 TTTTAGCTTTTCGGCA
1 TTTTAGCTTTTCGGCA
53938820 TTTTAGCTTTTCGGCA
1 TTTTAGCTTTTCGGCA
53938836 TTT
1 TTT
53938839 CGACTTTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.11, C:0.17, G:0.17, T:0.54
Consensus pattern (16 bp):
TTTTAGCTTTTCGGCA
Found at i:53940947 original size:26 final size:26
Alignment explanation
Indices: 53940917--53940977 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
53940907 ATGCTCGAAT
53940917 ACAGTCATACATA-TCATAGGGGTATA
1 ACAGTCATA-ATACTCATAGGGGTATA
* * *
53940943 TCAGTCATATTACCTCGTAGGGGTATA
1 ACAGTCATAATA-CTCATAGGGGTATA
53940970 ACAGTCAT
1 ACAGTCAT
53940978 TTCTTTAGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 2 0.07
26 8 0.28
27 19 0.66
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.30
Consensus pattern (26 bp):
ACAGTCATAATACTCATAGGGGTATA
Found at i:53945506 original size:40 final size:40
Alignment explanation
Indices: 53945308--53945492 Score: 291
Period size: 40 Copynumber: 4.6 Consensus size: 40
53945298 CGGATGATAA
53945308 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
53945348 CCGGGCTAAGTCCCGAAGGCATTTGTGCGTGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
53945388 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
53945428 CCGGGGTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AAT
* *
53945468 CCGGGCTATGTCCCAAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
53945493 AGCAAGTAGC
Statistics
Matches: 134, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 132 0.99
41 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:53947364 original size:12 final size:12
Alignment explanation
Indices: 53947347--53947373 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
53947337 TGTTGGCAAG
53947347 TCAGGCATTTAC
1 TCAGGCATTTAC
53947359 TCAGGCATTTAC
1 TCAGGCATTTAC
53947371 TCA
1 TCA
53947374 CAAAGTCGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (12 bp):
TCAGGCATTTAC
Found at i:53956146 original size:55 final size:53
Alignment explanation
Indices: 53956020--53956211 Score: 159
Period size: 55 Copynumber: 3.6 Consensus size: 53
53956010 AGGGTTTAAG
* * * * ** * * * *
53956020 GATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAG
1 GATACCATGTAAGACCATGTCAAGACATGGCAATAATAACTAC-ATAAGGCAAA
* * *
53956074 GAAATCATGTAAGACCATGTCAAGACATGGCATTAATAAACTACTATAAGGCAAA
1 GATACCATGTAAGACCATGTCAAGACATGGCAATAAT-AACTAC-ATAAGGCAAA
* * * ** * * *
53956129 GATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTCATAAGGCAAG
1 GATACCATGTAAGACCATGTCAAGACATGGCAATAATAACTACATAAGGCAAA
*
53956182 GATACCACGTAAGACCATGTCAAGACATGG
1 GATACCATGTAAGACCATGTCAAGACATGG
53956212 AAATGGTAAG
Statistics
Matches: 111, Mismatches: 26, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
53 35 0.32
54 34 0.31
55 42 0.38
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.19
Consensus pattern (53 bp):
GATACCATGTAAGACCATGTCAAGACATGGCAATAATAACTACATAAGGCAAA
Found at i:53956199 original size:53 final size:54
Alignment explanation
Indices: 53956017--53956223 Score: 236
Period size: 53 Copynumber: 3.8 Consensus size: 54
53956007 ATTAGGGTTT
* * * *
53956017 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
* * * * ** * *
53956071 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTAATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTCTATAAGGC
* * *
53956126 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
* * *
53956179 AAGGATACCACGTAAGACCATGTCAAGACATGGAAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
53956224 TAAAATGGAA
Statistics
Matches: 125, Mismatches: 27, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
53 46 0.37
54 37 0.30
55 42 0.34
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.20
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
Found at i:53960024 original size:29 final size:27
Alignment explanation
Indices: 53960006--53960075 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
53959996 ATATTAAGTC
53960006 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
53960033 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
53960061 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
53960076 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:53960069 original size:28 final size:28
Alignment explanation
Indices: 53960006--53960103 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
53959996 ATATTAAGTC
*
53960006 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
53960033 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
53960061 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
53960090 CGCACACTTAGTGC
1 CGCACACTTAGTGC
53960104 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:53968070 original size:29 final size:27
Alignment explanation
Indices: 53968052--53968121 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
53968042 ATATTAAGTC
53968052 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
53968079 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
53968107 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
53968122 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:53968115 original size:28 final size:28
Alignment explanation
Indices: 53968052--53968149 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
53968042 ATATTAAGTC
*
53968052 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
53968079 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
53968107 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
53968136 CGCACACTTAGTGC
1 CGCACACTTAGTGC
53968150 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:53971375 original size:38 final size:39
Alignment explanation
Indices: 53971262--53971452 Score: 199
Period size: 38 Copynumber: 4.9 Consensus size: 39
53971252 GAATCTAGTC
* * ** *
53971262 ACCAGCACAAAACCTGCGGGACTTTAAGTTCAGATATAAT
1 ACCAGCACGAAGCCTGCGGGACTTTAA-CCCGGATATAAT
* *
53971302 ACCAGCACTAGGCCTGCGGGACTTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGACTTTAACCCGGATATAAT
*
53971341 ACCAGCACGAAGCCTGCGGGA-TTTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGACTTTAACCCGGATATAAT
* * *
53971379 ACCAGCACGAAGCCTGCAGGA-TTTAACCCGAATATTAT
1 ACCAGCACGAAGCCTGCGGGACTTTAACCCGGATATAAT
* * * *
53971417 TCCAGCA-TATAGCTTGCGGGTCTTTAAGCCCGGATA
1 ACCAGCACGA-AGCCTGCGGGACTTTAA-CCCGGATA
53971453 CACATCAAAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
37 1 0.01
38 64 0.50
39 33 0.26
40 31 0.24
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (39 bp):
ACCAGCACGAAGCCTGCGGGACTTTAACCCGGATATAAT
Found at i:53971394 original size:77 final size:78
Alignment explanation
Indices: 53971230--53971452 Score: 200
Period size: 77 Copynumber: 2.8 Consensus size: 78
53971220 CATTGGCGTT
* * **
53971230 AAGCCTGCTAGG-TTTAAAACCCGAATCTAGTCACCAGCACAAAACCTGCGGGACTTTAAGTTCA
1 AAGCCTGC-AGGATTT--AACCCGAATATAAT-ACCAGCACAAAACCTGCGGGACTTTAAGCCCA
*
53971294 GATATAATACCAGCACT
62 GATATAATACCAGCACG
* * * * * *
53971311 AGGCCTGCGGGACTTTAACCCGGATATAATACCAGCACGAAGCCTGCGGGA-TTTAA-CCCGGAT
1 AAGCCTGCAGGA-TTTAACCCGAATATAATACCAGCACAAAACCTGCGGGACTTTAAGCCCAGAT
*
53971374 ATATTACCAGCACG
65 ATAATACCAGCACG
* * * * * * * *
53971388 AAGCCTGCAGGATTTAACCCGAATATTATTCCAGCATATAGCTTGCGGGTCTTTAAGCCCGGATA
1 AAGCCTGCAGGATTTAACCCGAATATAATACCAGCACAAAACCTGCGGGACTTTAAGCCCAGATA
53971453 CACATCAAAT
Statistics
Matches: 116, Mismatches: 22, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
76 30 0.26
77 31 0.27
78 13 0.11
79 19 0.16
80 13 0.11
81 7 0.06
82 3 0.03
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (78 bp):
AAGCCTGCAGGATTTAACCCGAATATAATACCAGCACAAAACCTGCGGGACTTTAAGCCCAGATA
TAATACCAGCACG
Found at i:53978250 original size:52 final size:52
Alignment explanation
Indices: 53978073--53978278 Score: 180
Period size: 52 Copynumber: 3.8 Consensus size: 52
53978063 ATTAGGGTTT
* * * *
53978073 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTC-TACGAGTC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAAT-GTAAGTTCATA--AGGC
* * * * * * * *
53978127 AAGGAAATCATGGAAGACCATGTCAAGAAATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATG-T-AAGTTC-ATAAGGC
* * * *
53978182 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGTAAGTTCATAAGGC
* *
53978234 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAAT-GTAAGTT
53978279 TAAAAAGGAA
Statistics
Matches: 119, Mismatches: 28, Indels: 11
0.75 0.18 0.07
Matches are distributed among these distances:
52 39 0.33
53 10 0.08
54 32 0.27
55 36 0.30
57 2 0.02
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.20
Consensus pattern (52 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGTAAGTTCATAAGGC
Found at i:53982588 original size:20 final size:20
Alignment explanation
Indices: 53982565--53982602 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
53982555 ATTCGAAGCA
53982565 TTACATTAGCCACTGAAGTG
1 TTACATTAGCCACTGAAGTG
53982585 TTACATTAGCCACTGAAG
1 TTACATTAGCCACTGAAG
53982603 CGACTTTCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (20 bp):
TTACATTAGCCACTGAAGTG
Found at i:53988057 original size:50 final size:50
Alignment explanation
Indices: 53987954--53988185 Score: 218
Period size: 49 Copynumber: 4.7 Consensus size: 50
53987944 CTAGTACGCA
* * * * *
53987954 TAGTAGCCTGCA-TTAATACTACACATGCGACC-AATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATAATCCGGTACACG
*** * *
53988002 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAGCCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATAATCCGGTACACG
* ** * * * *
53988052 TAGTAGCCTGCACTTAATACTACACACGTGATCGAAATTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCTAATAATCCGGTACACG
* * * **
53988103 AAATAGCCTGCACTTAGTACTACACATGCAACC-AATAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATAATCCGGTACACG
* *
53988152 TAGTAGCCTGCACTTAGTAGTACACATGTGACCT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
53988186 CACAATACAT
Statistics
Matches: 145, Mismatches: 35, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
48 12 0.08
49 57 0.39
50 41 0.28
51 35 0.24
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATAATCCGGTACACG
Found at i:53988113 original size:101 final size:98
Alignment explanation
Indices: 53987954--53988183 Score: 255
Period size: 100 Copynumber: 2.3 Consensus size: 98
53987944 CTAGTACGCA
* * ** *
53987954 TAGTAGCCTGCA-TTAATACTACACATGCGACCAATTATCCAGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAATACTACACATGTGACAAATTATCCAGTACACAAAATAGCCTGCACTTA
** * * *
53988018 GTACTACACACGTGACCTAGCCATCTGATACACG
66 GTACTACACACGCAACC-AACAATCCGATACACG
* ** *
53988052 TAGTAGCCTGCACTTAATACTACACACGTGATCGAAATTATCGGGTACGCAAAATAGCCTGCACT
1 TAGTAGCCTGCACTTAATACTACACATGTGA-C-AAATTATCCAGTACACAAAATAGCCTGCACT
* * *
53988117 TAGTACTACACATGCAACCAATAATCCGGTACACG
64 TAGTACTACACACGCAACCAACAATCCGATACACG
* *
53988152 TAGTAGCCTGCACTTAGTAGTACACATGTGAC
1 TAGTAGCCTGCACTTAATACTACACATGTGAC
53988184 CTCACAATAC
Statistics
Matches: 109, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
98 12 0.11
99 17 0.16
100 40 0.37
101 40 0.37
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAATACTACACATGTGACAAATTATCCAGTACACAAAATAGCCTGCACTTA
GTACTACACACGCAACCAACAATCCGATACACG
Found at i:53990240 original size:40 final size:40
Alignment explanation
Indices: 53990145--53990362 Score: 311
Period size: 40 Copynumber: 5.5 Consensus size: 40
53990135 TGGATGATAA
*
53990145 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
53990186 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
53990226 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
53990266 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
53990306 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
53990345 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
53990363 TACTTGGCTT
Statistics
Matches: 166, Mismatches: 8, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
38 15 0.09
39 16 0.10
40 107 0.64
41 24 0.14
42 4 0.02
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:53997322 original size:46 final size:46
Alignment explanation
Indices: 53997271--53997361 Score: 182
Period size: 46 Copynumber: 2.0 Consensus size: 46
53997261 TAAAACATCA
53997271 AAATAAACACATTTCACCTATGGGTATTTTTCCAAATATAAACCCG
1 AAATAAACACATTTCACCTATGGGTATTTTTCCAAATATAAACCCG
53997317 AAATAAACACATTTCACCTATGGGTATTTTTCCAAATATAAACCC
1 AAATAAACACATTTCACCTATGGGTATTTTTCCAAATATAAACCC
53997362 TAGGTTAAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.31
Consensus pattern (46 bp):
AAATAAACACATTTCACCTATGGGTATTTTTCCAAATATAAACCCG
Found at i:53999613 original size:18 final size:20
Alignment explanation
Indices: 53999583--53999620 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
53999573 TAAAATTAAT
53999583 TTTTCTAAAAATATT-TTTA
1 TTTTCTAAAAATATTATTTA
53999602 TTTTCT-AAAATATTATTTA
1 TTTTCTAAAAATATTATTTA
53999621 CCAATTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTCTAAAAATATTATTTA
Found at i:54002916 original size:40 final size:40
Alignment explanation
Indices: 54002832--54003015 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
54002822 TTGAATGCTG
* * * *
54002832 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
54002871 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
54002912 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
54002952 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
54002992 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
54003016 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:54002969 original size:80 final size:81
Alignment explanation
Indices: 54002832--54003012 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
54002822 TTGAATGCTG
* * *
54002832 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
54002896 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
54002912 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
54002973 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
54002992 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
54003013 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:54003036 original size:39 final size:38
Alignment explanation
Indices: 54002913--54003062 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
54002903 GTTATTAATT
* ** * *
54002913 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
54002953 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
54002992 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
54003032 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
54003063 GAGCTAAATC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:54004564 original size:59 final size:58
Alignment explanation
Indices: 54004498--54004621 Score: 139
Period size: 59 Copynumber: 2.1 Consensus size: 58
54004488 TGCCTTTTAC
* *
54004498 AATTTTCTATAACTTTTAAATAGTTTTTATATTTTTTGAA-AA-TTTT-AAATAACTTTAA-T
1 AATTTTCTAT-ACTTTTAAA-A-TTTTTAGAGTTTTT-AACAATTTTTAAAATAA-TTTAATT
*
54004557 AATTTTCTATATTTTTAAAATTTTTAGAGTTTTTAATCAATTTTTAAAATAATTTAATT
1 AATTTTCTATACTTTTAAAATTTTTAGAGTTTTTAA-CAATTTTTAAAATAATTTAATT
54004616 AATTTT
1 AATTTT
54004622 GAAAAAAAAG
Statistics
Matches: 57, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
55 2 0.04
56 12 0.21
57 3 0.05
58 17 0.30
59 23 0.40
ACGTcount: A:0.37, C:0.04, G:0.03, T:0.56
Consensus pattern (58 bp):
AATTTTCTATACTTTTAAAATTTTTAGAGTTTTTAACAATTTTTAAAATAATTTAATT
Found at i:54012656 original size:20 final size:19
Alignment explanation
Indices: 54012633--54012676 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
54012623 AAAAAATAAT
54012633 ATTTACAATTAAAAAAGTTA
1 ATTTACAATTAAAAAAG-TA
** *
54012653 ATTTATTATTAAACAAGTA
1 ATTTACAATTAAAAAAGTA
54012672 ATTTA
1 ATTTA
54012677 ATTAAATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.41
Consensus pattern (19 bp):
ATTTACAATTAAAAAAGTA
Found at i:54012680 original size:20 final size:20
Alignment explanation
Indices: 54012640--54012676 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
54012630 AATATTTACA
54012640 ATTAAAAAAGTTAATTTATT
1 ATTAAAAAAGTTAATTTATT
*
54012660 ATTAAACAAG-TAATTTA
1 ATTAAAAAAGTTAATTTA
54012677 ATTAAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (20 bp):
ATTAAAAAAGTTAATTTATT
Found at i:54012682 original size:17 final size:18
Alignment explanation
Indices: 54012639--54012682 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 18
54012629 TAATATTTAC
54012639 AATTAAAAAAGTTAATTT
1 AATTAAAAAAGTTAATTT
*
54012657 ATTATTAAACAAG-TAATTT
1 A--ATTAAAAAAGTTAATTT
54012676 AATTAAA
1 AATTAAA
54012683 TAATTTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
17 6 0.26
18 1 0.04
19 7 0.30
20 9 0.39
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (18 bp):
AATTAAAAAAGTTAATTT
Found at i:54015559 original size:43 final size:43
Alignment explanation
Indices: 54015511--54015623 Score: 115
Period size: 43 Copynumber: 2.6 Consensus size: 43
54015501 TATCGTACCA
* * *
54015511 ATGCCATGTCCTAGACATGGTATTACATGGAAATCTCATATCG
1 ATGCCATGTCCTAGACATGGTCTTACATCGAAACCTCATATCG
* ** *
54015554 ATGCCAATAG-CCCAG-CTATGGTCTTAC-TCGATGCCTCATGTCG
1 ATGCC-AT-GTCCTAGAC-ATGGTCTTACATCGAAACCTCATATCG
54015597 ATGCCATGTCCTAGACATGGTCTTACA
1 ATGCCATGTCCTAGACATGGTCTTACA
54015624 CTGGCTCACA
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
41 1 0.02
42 16 0.29
43 23 0.41
44 15 0.27
45 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (43 bp):
ATGCCATGTCCTAGACATGGTCTTACATCGAAACCTCATATCG
Found at i:54015662 original size:48 final size:48
Alignment explanation
Indices: 54015595--54015813 Score: 314
Period size: 48 Copynumber: 4.6 Consensus size: 48
54015585 TGCCTCATGT
* *
54015595 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATAACGATGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACGATGC
*
54015643 CGATGCCATGTCCCAGACATGGTCTTATACAT-GCTCACATAACGATGC
1 CGATGCCATGTCCCAGACATGGTCTTACAC-TGGCTCACATAACGATGC
* * *
54015691 CAATGCCATGTCTCAGACATGGTCTTACATTGGCTCACATAACGATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACGATGC
* * * *
54015739 CAATGCCATGTCCTAGACATGGTCTTACACTAGCTTACATAACGATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACGATGC
**
54015787 CGATGCCATACCCCAGACATGGTCTTA
1 CGATGCCATGTCCCAGACATGGTCTTA
54015814 TACGGGATCA
Statistics
Matches: 153, Mismatches: 16, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
47 1 0.01
48 151 0.99
49 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACGATGC
Found at i:54016257 original size:42 final size:42
Alignment explanation
Indices: 54016198--54016282 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
54016188 TTTATTCATC
*
54016198 ATGCTACCCAAATTAGCCCAATTTCACATTTTTTGTATAATT
1 ATGCTACCCAAATTAGCCCAATTGCACATTTTTTGTATAATT
54016240 ATGCTACCCAAATTAGCCCAATTGCACATTTTTTGTATAATT
1 ATGCTACCCAAATTAGCCCAATTGCACATTTTTTGTATAATT
54016282 A
1 A
54016283 CATTTTTACC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (42 bp):
ATGCTACCCAAATTAGCCCAATTGCACATTTTTTGTATAATT
Found at i:54016446 original size:20 final size:19
Alignment explanation
Indices: 54016404--54016447 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
54016394 GGCAACCCAC
* *
54016404 ATTTTCCATTATTTCACAC
1 ATTTTCCACTATTTCACAA
*
54016423 ATTTTCCACCTATTTTACAA
1 ATTTTCCA-CTATTTCACAA
54016443 ATTTT
1 ATTTT
54016448 ACAAAATGGC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.27, C:0.23, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTTTCCACTATTTCACAA
Found at i:54019497 original size:37 final size:36
Alignment explanation
Indices: 54019397--54019499 Score: 116
Period size: 36 Copynumber: 2.8 Consensus size: 36
54019387 GTCGTTTACT
*
54019397 TGATGCCATAGTCCAACTATGGTCTTACACAAAATCA
1 TGATGCCATAG-CCAACTATGGTCTTACATAAAATCA
** * *** *
54019434 CAATGCCATAGCCAGCTATGGTCTTACATGTCATTA
1 TGATGCCATAGCCAACTATGGTCTTACATAAAATCA
54019470 TGATGCCATAGCCCAACTATGGTCTTACAT
1 TGATGCCATAG-CCAACTATGGTCTTACAT
54019500 TCCATACTTT
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
36 28 0.52
37 26 0.48
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (36 bp):
TGATGCCATAGCCAACTATGGTCTTACATAAAATCA
Found at i:54019513 original size:36 final size:35
Alignment explanation
Indices: 54019399--54019532 Score: 110
Period size: 36 Copynumber: 3.7 Consensus size: 35
54019389 CGTTTACTTG
*** *
54019399 ATGCCATAGTCCAACTATGGTCTTACACAAAATCACA
1 ATGCCATAGTCCAACTATGGTCTTACA-TTCAT-ACT
*
54019436 ATGCCATAG-CCAGCTATGGTCTTACATGTCATTA-T
1 ATGCCATAGTCCAACTATGGTCTTACAT-TCA-TACT
*
54019471 GATGCCATAGCCCAACTATGGTCTTACATTCCATACT
1 -ATGCCATAGTCCAACTATGGTCTTACATT-CATACT
* * * *
54019508 TTGCCATGGTCTAACCATGGTCTTA
1 ATGCCATAGTCCAACTATGGTCTTA
54019533 TCCGTCAATT
Statistics
Matches: 80, Mismatches: 11, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
36 50 0.62
37 30 0.38
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (35 bp):
ATGCCATAGTCCAACTATGGTCTTACATTCATACT
Found at i:54021579 original size:10 final size:10
Alignment explanation
Indices: 54021553--54021583 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
54021543 TTATAACTCG
54021553 TAATTATTTT
1 TAATTATTTT
54021563 TATATTATTTT
1 TA-ATTATTTT
54021574 TAATTATTTT
1 TAATTATTTT
54021584 CAAAATTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TAATTATTTT
Found at i:54022543 original size:48 final size:48
Alignment explanation
Indices: 54022352--54022523 Score: 272
Period size: 48 Copynumber: 3.6 Consensus size: 48
54022342 ATGCCTCACA
* *
54022352 CCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCACATAACAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACGATG
* * *
54022400 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACGTAATGATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACGATG
* *
54022448 CCGATGCCATGTCCCAGGCATGGTCTTACACTGGCTCACACAACGATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACGATG
*
54022496 CCGATGCCATGTCTCAGACATGGTCTTA
1 CCGATGCCATGTCCCAGACATGGTCTTA
54022524 TACGGGATCA
Statistics
Matches: 112, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 112 1.00
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.24
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACGATG
Found at i:54023113 original size:20 final size:19
Alignment explanation
Indices: 54023071--54023114 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
54023061 GACAACCCAC
* *
54023071 ATTTTCCATTATTTCACAC
1 ATTTTCCACTATTTCACAA
*
54023090 ATTTTCCACCTATTTTACAA
1 ATTTTCCA-CTATTTCACAA
54023110 ATTTT
1 ATTTT
54023115 ACAAAATGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.27, C:0.23, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTTTCCACTATTTCACAA
Found at i:54025075 original size:56 final size:56
Alignment explanation
Indices: 54024995--54025170 Score: 266
Period size: 56 Copynumber: 3.2 Consensus size: 56
54024985 TTTGTGTACA
* * *
54024995 AGTAAGACCACGTTTAATACGTTGGCATTGATATGTGATTCCGATATATGTGTGCG
1 AGTAAGACCACGTTTAATATGTTGGCATCGATATGTGATTCCGATATATGTGTGAG
* *
54025051 AGTAAGACCACGTTTAATATGTTGGCATCGATATGTGATTCTGATATATGTGTGTG
1 AGTAAGACCACGTTTAATATGTTGGCATCGATATGTGATTCCGATATATGTGTGAG
* *
54025107 AGTAAGACTATGTTTAATATGTTGGCATCGATATGTGATTCC-ATTATATGTGT-AG
1 AGTAAGACCACGTTTAATATGTTGGCATCGATATGTGATTCCGA-TATATGTGTGAG
54025162 AGTAAGACC
1 AGTAAGACC
54025171 CTGTTTGAGA
Statistics
Matches: 110, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
55 10 0.09
56 100 0.91
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.36
Consensus pattern (56 bp):
AGTAAGACCACGTTTAATATGTTGGCATCGATATGTGATTCCGATATATGTGTGAG
Found at i:54035628 original size:22 final size:22
Alignment explanation
Indices: 54035600--54035642 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
54035590 TTTTTGGTTA
54035600 GACCGATTCTTACTATATCCCT
1 GACCGATTCTTACTATATCCCT
* *
54035622 GACCGATTCTTGCTATCTCCC
1 GACCGATTCTTACTATATCCC
54035643 CTTCTCTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.35, G:0.12, T:0.35
Consensus pattern (22 bp):
GACCGATTCTTACTATATCCCT
Found at i:54037175 original size:34 final size:35
Alignment explanation
Indices: 54037111--54037197 Score: 88
Period size: 34 Copynumber: 2.5 Consensus size: 35
54037101 TATACTGAAT
* * * *
54037111 TGGGCTAAGGTCCACACTGCTACTGTTACCG-TAA
1 TGGGCTAAGGCCCAAACTGATACTGCTACCGATAA
* *
54037145 TGGGCTAAGGCCCATACTGATATTGCTACCGATAA
1 TGGGCTAAGGCCCAAACTGATACTGCTACCGATAA
* *
54037180 -GGGTTTAGGCCCAAACTG
1 TGGGCTAAGGCCCAAACTG
54037198 TTTACACTGC
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
34 41 0.93
35 3 0.07
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.25
Consensus pattern (35 bp):
TGGGCTAAGGCCCAAACTGATACTGCTACCGATAA
Found at i:54038437 original size:35 final size:35
Alignment explanation
Indices: 54038398--54038507 Score: 86
Period size: 35 Copynumber: 3.1 Consensus size: 35
54038388 AAACGTACAT
54038398 ATACTACCACATTTCAAACATCAATTACCAATTCA
1 ATACTACCACATTTCAAACATCAATTACCAATTCA
* * ** * *
54038433 ATACTTACCA-A-ATCATACCAT-AGCTAGGTC-A-TAA
1 ATAC-TACCACATTTCA-AACATCAATTA--CCAATTCA
54038467 TATACTACCACATTTCAAACATCAATTACCAATTCA
1 -ATACTACCACATTTCAAACATCAATTACCAATTCA
54038503 ATACT
1 ATACT
54038508 TACAAAATCA
Statistics
Matches: 53, Mismatches: 12, Indels: 20
0.62 0.14 0.24
Matches are distributed among these distances:
34 14 0.26
35 25 0.47
36 14 0.26
ACGTcount: A:0.42, C:0.26, G:0.03, T:0.29
Consensus pattern (35 bp):
ATACTACCACATTTCAAACATCAATTACCAATTCA
Found at i:54038509 original size:70 final size:70
Alignment explanation
Indices: 54038396--54038537 Score: 266
Period size: 70 Copynumber: 2.0 Consensus size: 70
54038386 CTAAACGTAC
* *
54038396 ATATACTACCACATTTCAAACATCAATTACCAATTCAATACTTACCAAATCATACCATAGCTAGG
1 ATATACTACCACATTTCAAACATCAATTACCAATTCAATACTTACAAAATCATACCATAACTAGG
54038461 TCATA
66 TCATA
54038466 ATATACTACCACATTTCAAACATCAATTACCAATTCAATACTTACAAAATCATACCATAACTAGG
1 ATATACTACCACATTTCAAACATCAATTACCAATTCAATACTTACAAAATCATACCATAACTAGG
54038531 TCATA
66 TCATA
54038536 AT
1 AT
54038538 CATATTAATT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.43, C:0.25, G:0.04, T:0.29
Consensus pattern (70 bp):
ATATACTACCACATTTCAAACATCAATTACCAATTCAATACTTACAAAATCATACCATAACTAGG
TCATA
Found at i:54039037 original size:200 final size:199
Alignment explanation
Indices: 54038688--54039093 Score: 636
Period size: 200 Copynumber: 2.0 Consensus size: 199
54038678 TTCAACTAAA
* **
54038688 TACCATTACAAGTCCACCTGTACATGCTGTTATAACCTTGGCCAAAACATAAAAAACTACTGATA
1 TACCA-TACAAGTCCACCTATACATGCCATTATAACCTTGGCCAAAACATAAAAAACTACTGATA
* * * *
54038753 TATATATGTTGGATAGTGTGATAAATCTCCGATGAGATTCCAAAGTGGTCAAGCTTCCGATACTC
65 TATATATGCTGGATAGTGCGATAAATCTCCGACGAGATTCCAAAGTGGTCAAGCTTCCGATAATC
*
54038818 TATAAAACATAGGAAAGAAACTATGTAAAGAAAATAATGCTTAGTAAGTTCATAGAAAATAAAAC
130 TATAAAACATAGGAAAGAAACTACGT-AAGAAAATAATGCTTAGTAAGTTCATAGAAAATAAAAC
54038883 ATAACT
194 ATAACT
*
54038889 TACCATACAAGTCCACCTATACATGCCATTATAACCTTGGCCAAAACATATAAAACTA-TAGATA
1 TACCATACAAGTCCACCTATACATGCCATTATAACCTTGGCCAAAACATAAAAAACTACT-GATA
* * *
54038953 TATATATGCTGGATAGTGCGATAGATCTCTGACGAGATTCTAAA-TCGGTCAAGCTTCCGATAAT
65 TATATATGCTGGATAGTGCGATAAATCTCCGACGAGATTCCAAAGT-GGTCAAGCTTCCGATAAT
* *
54039017 CTATAAAACATAGGAAAGAAACTACGTAAGCAAATAATGCTTAGTAAGTTCGTAGAAAATAAAAC
129 CTATAAAACATAGGAAAGAAACTACGTAAGAAAATAATGCTTAGTAAGTTCATAGAAAATAAAAC
54039082 ATAACT
194 ATAACT
54039088 TACCAT
1 TACCAT
54039094 TTCATTTACA
Statistics
Matches: 189, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
199 50 0.26
200 134 0.71
201 5 0.03
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (199 bp):
TACCATACAAGTCCACCTATACATGCCATTATAACCTTGGCCAAAACATAAAAAACTACTGATAT
ATATATGCTGGATAGTGCGATAAATCTCCGACGAGATTCCAAAGTGGTCAAGCTTCCGATAATCT
ATAAAACATAGGAAAGAAACTACGTAAGAAAATAATGCTTAGTAAGTTCATAGAAAATAAAACAT
AACT
Found at i:54041264 original size:28 final size:28
Alignment explanation
Indices: 54041224--54041293 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
54041214 ATAGTAAGTC
*
54041224 CGCACACTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTAT-ACAATCAAACT
*
54041252 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
54041280 CGCACACTTAGTGC
1 CGCACACTTAGTGC
54041294 CAATCTCATA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:54041853 original size:101 final size:105
Alignment explanation
Indices: 54041677--54041971 Score: 499
Period size: 101 Copynumber: 2.8 Consensus size: 105
54041667 CTTCTTAAAC
* *
54041677 ATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAATATAATAAACAATTCAAGTCA
1 ATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACATAATAAATAATTCAAGTCA
54041742 TTAATCCATGCATATTGGTCAGCTACTTTCATC-T-TT-T
66 TTAATCCATGCATATTGGTCAGCTACTTTCATCTTATTAT
54041779 ATAATATATTAACATATATT-AAGTATACCATAATGCCATAAAACATAATAAATAATTCAAGTCA
1 ATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACATAATAAATAATTCAAGTCA
*
54041843 TTAATCCATGCATATTGGTCGGCTACTTTCATCTTTTATTAAAT
66 TTAATCCATGCATATTGGTCAGCTACTTTCATC--TTATT--AT
54041887 ATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACATAATAAATAATTCAAGTCA
1 ATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACATAATAAATAATTCAAGTCA
54041952 TTAATCCATGCATATTGGTC
66 TTAATCCATGCATATTGGTC
54041972 GGCCGTTAAT
Statistics
Matches: 182, Mismatches: 3, Indels: 9
0.94 0.02 0.05
Matches are distributed among these distances:
101 74 0.41
102 20 0.11
104 1 0.01
105 2 0.01
108 21 0.12
109 64 0.35
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.36
Consensus pattern (105 bp):
ATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACATAATAAATAATTCAAGTCA
TTAATCCATGCATATTGGTCAGCTACTTTCATCTTATTAT
Found at i:54041935 original size:109 final size:107
Alignment explanation
Indices: 54041656--54041974 Score: 515
Period size: 109 Copynumber: 3.0 Consensus size: 107
54041646 GAAAGATGAA
* *
54041656 TACTTTCCTCTCTTCTTAAACATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAA
1 TACTTTCATCT-TT-TTAAATATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAA
* * *
54041721 TATAATAAACAATTCAAGTCATTAATCCATGCATATTGGTCAGC
64 CATAATAAATAATTCAAGTCATTAATCCATGCATATTGGTCGGC
54041765 TACTTTCATC--TTT---TATAATATATTAACATATATT-AAGTATACCATAATGCCATAAAACA
1 TACTTTCATCTTTTTAAATATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACA
54041824 TAATAAATAATTCAAGTCATTAATCCATGCATATTGGTCGGC
66 TAATAAATAATTCAAGTCATTAATCCATGCATATTGGTCGGC
54041866 TACTTTCATCTTTTATTAAATATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAA
1 TACTTTCATC-TTT-TTAAATATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAA
54041931 CATAATAAATAATTCAAGTCATTAATCCATGCATATTGGTCGGC
64 CATAATAAATAATTCAAGTCATTAATCCATGCATATTGGTCGGC
54041975 CGTTAATTCC
Statistics
Matches: 197, Mismatches: 5, Indels: 16
0.90 0.02 0.07
Matches are distributed among these distances:
101 74 0.38
102 20 0.10
104 1 0.01
105 4 0.02
106 1 0.01
108 21 0.11
109 76 0.39
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.36
Consensus pattern (107 bp):
TACTTTCATCTTTTTAAATATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACA
TAATAAATAATTCAAGTCATTAATCCATGCATATTGGTCGGC
Done.