Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 210 of 290
Found at i:72518960 original size:6 final size:6
Alignment explanation
Indices: 72518951--72518980 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
72518941 GGAAAACTTA
72518951 AAACAT AAACAT AAACAT AAACAT AAACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT
72518981 GTGCTTGTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
AAACAT
Found at i:72521221 original size:46 final size:46
Alignment explanation
Indices: 72521154--72521290 Score: 202
Period size: 46 Copynumber: 3.0 Consensus size: 46
72521144 TATATATACA
* * *
72521154 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
* *
72521200 CATCTCATACACGTTTCACATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
* * *
72521246 TATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATAT
72521291 ATACATGTTC
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 81 1.00
ACGTcount: A:0.26, C:0.31, G:0.08, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
Found at i:72521410 original size:51 final size:49
Alignment explanation
Indices: 72521264--72521458 Score: 249
Period size: 47 Copynumber: 4.1 Consensus size: 49
72521254 ACACATTTCG
* * *
72521264 CATTAGCCATTCGGCCTTA-C-CACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCTCATATATACACATGTTCACATTCATCA
*
72521311 CATTGGCCATTCGGCCTTATCTC--ATATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCTCATATATACACATGTTCACATTCATCA
* * * *
72521358 CATTGGCCATTCGACCTTATCACGCATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTAT--CTCATATATACACATGTTCACATTCATCA
*
72521409 CATTTGCCATTCGGCCTTATCTCATATATACACA--TTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCTCATATATACACATGTTCACATTCATCA
72521456 CAT
1 CAT
72521459 AAAATCCTAA
Statistics
Matches: 130, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
47 75 0.58
48 1 0.01
49 15 0.12
51 39 0.30
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (49 bp):
CATTGGCCATTCGGCCTTATCTCATATATACACATGTTCACATTCATCA
Found at i:72526692 original size:12 final size:13
Alignment explanation
Indices: 72526670--72526698 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
72526660 TAATTAAATG
72526670 AATTAAAAAGCCA
1 AATTAAAAAGCCA
72526683 AATT-AAAAGCCA
1 AATTAAAAAGCCA
72526695 AATT
1 AATT
72526699 TTGTCCATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.59, C:0.14, G:0.07, T:0.21
Consensus pattern (13 bp):
AATTAAAAAGCCA
Found at i:72537920 original size:42 final size:42
Alignment explanation
Indices: 72537873--72538036 Score: 181
Period size: 42 Copynumber: 3.9 Consensus size: 42
72537863 TTAGGGTTAT
*
72537873 TGAGATTACGTGTAAGACCATATCTAGGATATGGCATCTATA
1 TGAGATTACATGTAAGACCATATCTAGGATATGGCATCTATA
* * *
72537915 TGAGATTTCATGTAAGACCATATCTGGGATATAGCAT-TGATA
1 TGAGATTACATGTAAGACCATATCTAGGATATGGCATCT-ATA
** * * *
72537957 TGAGACTT-TGTGTAAGACCATA-CTTGGGCTATTGGCATCGATA
1 TGAGA-TTACATGTAAGACCATATC-TAGGATA-TGGCATCTATA
*
72538000 TGAAATTACATGTAAGACCATATCTAGGATATGGCAT
1 TGAGATTACATGTAAGACCATATCTAGGATATGGCAT
72538037 TGGTACGGTA
Statistics
Matches: 101, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
41 2 0.02
42 67 0.66
43 31 0.31
44 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (42 bp):
TGAGATTACATGTAAGACCATATCTAGGATATGGCATCTATA
Found at i:72538015 original size:85 final size:84
Alignment explanation
Indices: 72537882--72538038 Score: 226
Period size: 85 Copynumber: 1.9 Consensus size: 84
72537872 TTGAGATTAC
* * * *
72537882 GTGTAAGACCATATCTAGGATATGGCATCTATATGAGATTTCATGTAAGACCATATCTGGGATAT
1 GTGTAAGACCATATCTAGGATATGGCATCGATATGAAATTACATGTAAGACCATATCTAGGATAT
72537947 AGCATTGATATGAGACTTT
66 AGCATTGATATGAGACTTT
* *
72537966 GTGTAAGACCATA-CTTGGGCTATTGGCATCGATATGAAATTACATGTAAGACCATATCTAGGAT
1 GTGTAAGACCATATC-TAGGATA-TGGCATCGATATGAAATTACATGTAAGACCATATCTAGGAT
*
72538030 ATGGCATTG
64 ATAGCATTG
72538039 GTACGGTACT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
83 1 0.02
84 18 0.28
85 45 0.70
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (84 bp):
GTGTAAGACCATATCTAGGATATGGCATCGATATGAAATTACATGTAAGACCATATCTAGGATAT
AGCATTGATATGAGACTTT
Found at i:72540889 original size:75 final size:73
Alignment explanation
Indices: 72540773--72540972 Score: 199
Period size: 75 Copynumber: 2.7 Consensus size: 73
72540763 TTATTGCTTT
** * * * * *
72540773 TTTGAGCACGTTCAATATATTTAGTAAATATTGGTCATTTGAGCCCATTTAGCA-TAATCAGTGG
1 TTTGAGCATATTCAATATA-ATAGTAGACATTGCTCATTTGAGCCCATTTAGCAGT-ATCAGTAG
72540837 ATATCACTCA
64 ATATCACTCA
* * * * *
72540847 TTTGAGCA-ACTTTCAATATAATCAGTAGACATTGCT-ATTTTGAGCACGTTCAGTAGTTTCAGT
1 TTTGAGCATA--TTCAATATAAT-AGTAGACATTGCTCA-TTTGAGCCCATTTAGCAGTATCAGT
**
72540910 AGATATTGCTCA
62 AGATATCACTCA
72540922 TTTGAGCATATTCAATATAATAGTAGACATTGCTCATTTGAGCCCATTTAG
1 TTTGAGCATATTCAATATAATAGTAGACATTGCTCATTTGAGCCCATTTAG
72540973 TATTCCATTT
Statistics
Matches: 103, Mismatches: 16, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
73 25 0.24
74 22 0.21
75 54 0.52
76 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (73 bp):
TTTGAGCATATTCAATATAATAGTAGACATTGCTCATTTGAGCCCATTTAGCAGTATCAGTAGAT
ATCACTCA
Found at i:72540942 original size:112 final size:113
Alignment explanation
Indices: 72540696--72540964 Score: 301
Period size: 112 Copynumber: 2.4 Consensus size: 113
72540686 GTATAGCTTG
* * * * * *
72540696 TTTGAGCCCATTCAGTATAATCAATGGATATCGTTCGTTTAAGCAACTTTTTCAGTATAATTAGT
1 TTTGAGCCCATTCAGTATAATCAGTGGATATCGCTCATTTGAGCAAC-TTTTCAATATAATCAGT
** * * *
72540761 AGTTATTGCTTTTTTGAGCACGTTCAATATATTTAGTAAATATTGGTCA
65 AGACATTGCTATTTTGAGCACGTTCAATATATTCAGTAAATATTGCTCA
* * *
72540810 TTTGAGCCCATTTAGCATAATCAGTGGATATCACTCATTTGAGCAAC-TTTCAATATAATCAGTA
1 TTTGAGCCCATTCAGTATAATCAGTGGATATCGCTCATTTGAGCAACTTTTCAATATAATCAGTA
* *
72540874 GACATTGCTATTTTGAGCACGTTCAGTAGT-TTCAGTAGATATTGCTCA
66 GACATTGCTATTTTGAGCACGTTCAATA-TATTCAGTAAATATTGCTCA
** * * * *
72540922 TTTGAGCATATTCAATATAAT-AGTAGACATTGCTCATTTGAGC
1 TTTGAGCCCATTCAGTATAATCAGTGGATATCGCTCATTTGAGC
72540965 CCATTTAGTA
Statistics
Matches: 129, Mismatches: 25, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
111 18 0.14
112 70 0.54
113 1 0.01
114 40 0.31
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (113 bp):
TTTGAGCCCATTCAGTATAATCAGTGGATATCGCTCATTTGAGCAACTTTTCAATATAATCAGTA
GACATTGCTATTTTGAGCACGTTCAATATATTCAGTAAATATTGCTCA
Found at i:72540954 original size:36 final size:36
Alignment explanation
Indices: 72540843--72540964 Score: 133
Period size: 37 Copynumber: 3.3 Consensus size: 36
72540833 GTGGATATCA
72540843 CTCATTTGAGCAACTTTCAATATAATCAGTAGACATTG
1 CTCATTTGAGCAA--TTCAATATAATCAGTAGACATTG
* * * *
72540881 CT-ATTTTGAGCACGTTCAGTAGT-TTCAGTAGATATTG
1 CTCA-TTTGAGCA-ATTCAATA-TAATCAGTAGACATTG
72540918 CTCATTTGAGCATATTCAATATAAT-AGTAGACATTG
1 CTCATTTGAGCA-ATTCAATATAATCAGTAGACATTG
72540954 CTCATTTGAGC
1 CTCATTTGAGC
72540965 CCATTTAGTA
Statistics
Matches: 70, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
36 22 0.31
37 36 0.51
38 12 0.17
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.37
Consensus pattern (36 bp):
CTCATTTGAGCAATTCAATATAATCAGTAGACATTG
Found at i:72543732 original size:29 final size:29
Alignment explanation
Indices: 72543690--72543746 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
72543680 TGGAAGCCAT
* *
72543690 AAATAATCCATAATATCAAAGGTTAACAG
1 AAATAAGCCATAATATCAAAGGTCAACAG
72543719 AAATAAGCCATAATATCAAAGGTCAACA
1 AAATAAGCCATAATATCAAAGGTCAACA
72543747 TAAAGCATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.53, C:0.16, G:0.11, T:0.21
Consensus pattern (29 bp):
AAATAAGCCATAATATCAAAGGTCAACAG
Found at i:72549648 original size:21 final size:21
Alignment explanation
Indices: 72549608--72549666 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
72549598 ATACCGTTGA
* *
72549608 AGATAGTTCAAGAAAGGGCTAT
1 AGATAGTT-GAGAAATGGCTAT
72549630 AGATAGTTGAGAAATGGCTAT
1 AGATAGTTGAGAAATGGCTAT
*
72549651 AAATAGTTGAGAAATG
1 AGATAGTTGAGAAATG
72549667 AACTCCTAGG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
21 26 0.76
22 8 0.24
ACGTcount: A:0.42, C:0.05, G:0.27, T:0.25
Consensus pattern (21 bp):
AGATAGTTGAGAAATGGCTAT
Found at i:72550705 original size:67 final size:67
Alignment explanation
Indices: 72550566--72550692 Score: 182
Period size: 67 Copynumber: 1.9 Consensus size: 67
72550556 GACAACACGG
* * * * *
72550566 AGAGTCTACCAGGACATTAAACATGAGGTATGATGTGTAATACCACAGTTCGACTATAGCAACAT
1 AGAGTCCACCAGGACATTAAACATGAGGTATGATGTATAAGACCACAGCTCGACTATAACAACAT
72550631 AA
66 AA
* * *
72550633 AGAGTCCACTAGGACATTAAACATGGGGTATGATGTATAAGACCATAGCTCGACTATAAC
1 AGAGTCCACCAGGACATTAAACATGAGGTATGATGTATAAGACCACAGCTCGACTATAAC
72550693 TGTATATAGA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
67 52 1.00
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (67 bp):
AGAGTCCACCAGGACATTAAACATGAGGTATGATGTATAAGACCACAGCTCGACTATAACAACAT
AA
Found at i:72550715 original size:67 final size:67
Alignment explanation
Indices: 72550566--72550720 Score: 175
Period size: 67 Copynumber: 2.3 Consensus size: 67
72550556 GACAACACGG
* * * * *
72550566 AGAGTCTACCAGGACATTAAACATGAGGTATGATGTGTAATACCACAGTTCGACTATAGCAACAT
1 AGAGTCAACCAGGACATTAAACATGAGGTATGATGTATAAGACCACAGCTCGACTATAACAACAT
72550631 AA
66 AA
* * * * ***
72550633 AGAGTCCACTAGGACATTAAACATGGGGTATGATGTATAAGACCATAGCTCGACTATAACTGTAT
1 AGAGTCAACCAGGACATTAAACATGAGGTATGATGTATAAGACCACAGCTCGACTATAACAACAT
*
72550698 AT
66 AA
* *
72550700 AGAGTCAACCGGGACAATAAA
1 AGAGTCAACCAGGACATTAAA
72550721 TTTGGTGTAG
Statistics
Matches: 72, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
67 72 1.00
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (67 bp):
AGAGTCAACCAGGACATTAAACATGAGGTATGATGTATAAGACCACAGCTCGACTATAACAACAT
AA
Found at i:72586345 original size:50 final size:50
Alignment explanation
Indices: 72586270--72586506 Score: 212
Period size: 50 Copynumber: 4.7 Consensus size: 50
72586260 TGAGTACACG
* * * * * *
72586270 TGTGTAGTACTAAATGCAGACTACTACGTTTATCATACTGTTAAGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGACTGTTGAGTCGCA
* ** * * *
72586320 TGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACT-TCGA-TCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TC-A-GACTGTTGAGTCGCA
* * *
72586371 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGACTGTTGA-GTCGCA
* * * *
72586421 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATTGTTG-GTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGACTGTTGAGTCGCA
* * *
72586470 TGTGTAGTACTAAATGCAGGCTACTATGCGTATCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA
72586507 TAGCTTTGGC
Statistics
Matches: 152, Mismatches: 28, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
47 1 0.01
48 4 0.03
49 36 0.24
50 68 0.45
51 37 0.24
52 3 0.02
53 3 0.02
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGACTGTTGAGTCGCA
Found at i:72590673 original size:18 final size:17
Alignment explanation
Indices: 72590641--72590674 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
72590631 CACATTGAAG
72590641 TGTTTTATCGAAAACCT
1 TGTTTTATCGAAAACCT
*
72590658 TGTTTATATTGAAAACC
1 TGTTT-TATCGAAAACC
72590675 CTTCTTTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (17 bp):
TGTTTTATCGAAAACCT
Found at i:72591952 original size:28 final size:29
Alignment explanation
Indices: 72591916--72591988 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 29
72591906 GGCCCCTTTA
*
72591916 GGCCCAATCTCATTCACATGG-CTCATC-G
1 GGCCCAATCACATTCACATGGCCT-ATCAG
* *
72591944 GGCCCAATCACATTTATATGGCCTATCAG
1 GGCCCAATCACATTCACATGGCCTATCAG
*
72591973 GCCCCAATCACATTCA
1 GGCCCAATCACATTCA
72591989 TAGTCATGCA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
28 21 0.55
29 17 0.45
ACGTcount: A:0.26, C:0.34, G:0.15, T:0.25
Consensus pattern (29 bp):
GGCCCAATCACATTCACATGGCCTATCAG
Found at i:72598473 original size:17 final size:18
Alignment explanation
Indices: 72598451--72598484 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
72598441 CACATTGAAG
72598451 TATTTT-ATCGAAAACCT
1 TATTTTCATCGAAAACCT
*
72598468 TATTTTCATTGAAAACC
1 TATTTTCATCGAAAACC
72598485 CTTCATTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (18 bp):
TATTTTCATCGAAAACCT
Found at i:72599777 original size:28 final size:28
Alignment explanation
Indices: 72599716--72599836 Score: 145
Period size: 28 Copynumber: 4.3 Consensus size: 28
72599706 GATCCATACT
* * *
72599716 TATTCATTTGGCCCCTTTAGGCCCAATC-
1 TATTCATATGG-CCCATCAGGCCCAATCA
72599744 TGATTCATATGGCCCATCAGGCCCAATCA
1 T-ATTCATATGGCCCATCAGGCCCAATCA
* *
72599773 CATTCATATGCCCCATCAGGCCCAATCA
1 TATTCATATGGCCCATCAGGCCCAATCA
* * *
72599801 TTTTCATATGGCTCGTCAGGCCCAATCA
1 TATTCATATGGCCCATCAGGCCCAATCA
72599829 TATTCATA
1 TATTCATA
72599837 GTCATGCAAT
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
28 71 0.89
29 9 0.11
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.30
Consensus pattern (28 bp):
TATTCATATGGCCCATCAGGCCCAATCA
Found at i:72600371 original size:20 final size:21
Alignment explanation
Indices: 72600343--72600381 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
72600333 ACCAAACAAA
*
72600343 AAGTGACTCGT-AATCATCTT
1 AAGTCACTCGTAAATCATCTT
*
72600363 AAGTCACTCTTAAATCATC
1 AAGTCACTCGTAAATCATC
72600382 CATGACCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (21 bp):
AAGTCACTCGTAAATCATCTT
Found at i:72601050 original size:55 final size:56
Alignment explanation
Indices: 72600976--72601089 Score: 194
Period size: 55 Copynumber: 2.1 Consensus size: 56
72600966 CCTTCAGAGT
*
72600976 TCACATCAAACGCCACTACTGGCCATTTATTGAGCAAAAATAAATCCTTC-CTTGA
1 TCACATCAAACACCACTACTGGCCATTTATTGAGCAAAAATAAATCCTTCTCTTGA
* *
72601031 TCACATCCAACACCACTACTGGCCATTTATTGAGCAAAAATAAATCCTTCTTTTGA
1 TCACATCAAACACCACTACTGGCCATTTATTGAGCAAAAATAAATCCTTCTCTTGA
72601087 TCA
1 TCA
72601090 AGGAGGGATT
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
55 48 0.87
56 7 0.13
ACGTcount: A:0.34, C:0.27, G:0.10, T:0.29
Consensus pattern (56 bp):
TCACATCAAACACCACTACTGGCCATTTATTGAGCAAAAATAAATCCTTCTCTTGA
Found at i:72611488 original size:85 final size:85
Alignment explanation
Indices: 72611345--72611514 Score: 331
Period size: 85 Copynumber: 2.0 Consensus size: 85
72611335 TGAGTTCCTG
*
72611345 ATTTAGTCCCGACTTATTTCTAATGTATAAATAGGACTTTAAGGGTCCATTTAAGGGACAACATG
1 ATTTAGTCCCGACTTATTTCTAATATATAAATAGGACTTTAAGGGTCCATTTAAGGGACAACATG
72611410 ATTGAATTATGATTTGACTC
66 ATTGAATTATGATTTGACTC
72611430 ATTTAGTCCCGACTTATTTCTAATATATAAATAGGACTTTAAGGGTCCATTTAAGGGACAACATG
1 ATTTAGTCCCGACTTATTTCTAATATATAAATAGGACTTTAAGGGTCCATTTAAGGGACAACATG
72611495 ATTGAATTATGATTTGACTC
66 ATTGAATTATGATTTGACTC
72611515 CGATATGAAT
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 84 1.00
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.36
Consensus pattern (85 bp):
ATTTAGTCCCGACTTATTTCTAATATATAAATAGGACTTTAAGGGTCCATTTAAGGGACAACATG
ATTGAATTATGATTTGACTC
Found at i:72612041 original size:14 final size:14
Alignment explanation
Indices: 72612016--72612055 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
72612006 TTAGTACTTT
72612016 AATTAA-TGATTAA
1 AATTAATTGATTAA
72612029 AATTAATTGATTAA
1 AATTAATTGATTAA
*
72612043 AATTAATTAATTA
1 AATTAATTGATTA
72612056 TGGATGAACG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
13 6 0.24
14 19 0.76
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (14 bp):
AATTAATTGATTAA
Found at i:72612972 original size:7 final size:7
Alignment explanation
Indices: 72612960--72612984 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
72612950 TTGGTTGTAA
72612960 TTGGACT
1 TTGGACT
72612967 TTGGACT
1 TTGGACT
72612974 TTGGACT
1 TTGGACT
72612981 TTGG
1 TTGG
72612985 GCATCTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.32, T:0.44
Consensus pattern (7 bp):
TTGGACT
Found at i:72625467 original size:2 final size:2
Alignment explanation
Indices: 72625462--72625516 Score: 74
Period size: 2 Copynumber: 27.5 Consensus size: 2
72625452 TATATATATA
* * * *
72625462 TG TG TG TG TG TG TG TG TG TG TC TA TG TG TT TG TG TA TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
72625504 TG TG TG TG TG TG T
1 TG TG TG TG TG TG T
72625517 ATAAGTGATG
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.04, C:0.02, G:0.42, T:0.53
Consensus pattern (2 bp):
TG
Found at i:72638730 original size:38 final size:38
Alignment explanation
Indices: 72638679--72638786 Score: 153
Period size: 38 Copynumber: 2.8 Consensus size: 38
72638669 NNNNNNAAGA
* *
72638679 CCCGCAGGCTTCGTGCTGGTAAAATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATAATATCCGGGATAAAT
*
72638717 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
1 CCCGCAGGCTTCGTGCTGGTATAATATCCGGGATAAAT
*** *
72638755 CCCGCAGGCCAAGTGCTGGTATAATATTCGGG
1 CCCGCAGGCTTCGTGCTGGTATAATATCCGGG
72638787 CCTTCGTGCC
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 62 1.00
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTATAATATCCGGGATAAAT
Found at i:72639462 original size:43 final size:43
Alignment explanation
Indices: 72638779--72639449 Score: 1180
Period size: 43 Copynumber: 15.6 Consensus size: 43
72638769 GCTGGTATAA
* * * *
72638779 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGAGGTG
1 TATTCTGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTTATGTG
*
72638822 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTTATGTG
1 TATTCTGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTTATGTG
72638865 TATTCTGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTTATGTG
1 TATTCTGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTTATGTG
72638908 TATTCTGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTTATGTG
1 TATTCTGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTTATGTG
72638951 TATTCTGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTTATGTG
1 TATTCTGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTTATGTG
72638994 TATTCTGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTTATGTG
1 TATTCTGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTTATGTG
72639037 TATTCTGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTTATGTG
1 TATTCTGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTTATGTG
72639080 TATTCTGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTTATGTG
1 TATTCTGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTTATGTG
72639123 TATTCTGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTTATGTG
1 TATTCTGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTTATGTG
72639166 TATTCTGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTTATGTG
1 TATTCTGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTTATGTG
72639209 TATTCTGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTTATGTG
1 TATTCTGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTTATGTG
*
72639252 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTTATGTG
1 TATTCTGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTTATGTG
* *
72639295 TATTCTGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCTGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTTATGTG
* * * *
72639338 TACTCGGGCCTTCTTGCCTAGCAGGCTTCGTGCCAGTGATGTG
1 TATTCTGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTTATGTG
* * * *
72639381 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATATG
1 TATTCTGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTTATGTG
* *
72639424 TATTATGGCCTTCATGCCTAGCAGGC
1 TATTCTGGCCTTCGTGCCTAGCAGGC
72639450 GTAATGTCGG
Statistics
Matches: 609, Mismatches: 19, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 609 1.00
ACGTcount: A:0.12, C:0.26, G:0.29, T:0.33
Consensus pattern (43 bp):
TATTCTGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTTATGTG
Found at i:72644745 original size:38 final size:38
Alignment explanation
Indices: 72644684--72644796 Score: 154
Period size: 38 Copynumber: 2.9 Consensus size: 38
72644674 ATTTGATGTG
*
72644684 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAAAA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAAAA
**
72644724 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
* * *
72644762 TATCCGGGATAAATCCCGCAGGCCTAGTGCTGGTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
72644797 TTATATTCGG
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
38 54 0.81
39 5 0.07
40 8 0.12
ACGTcount: A:0.22, C:0.25, G:0.27, T:0.26
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
Found at i:72644797 original size:38 final size:38
Alignment explanation
Indices: 72644700--72644807 Score: 162
Period size: 38 Copynumber: 2.8 Consensus size: 38
72644690 GGCTTAAAGA
** *
72644700 CCCGCAGGCTTCGTGCTGGTAAAATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
72644738 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
* * *
72644776 CCCGCAGGCCTAGTGCTGGTATTATATTCGGG
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGG
72644808 CCTTCGTGCC
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 64 1.00
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.28
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
Found at i:72644920 original size:43 final size:43
Alignment explanation
Indices: 72644800--72644911 Score: 206
Period size: 43 Copynumber: 2.6 Consensus size: 43
72644790 GCTGGTATTA
*
72644800 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGATGATGTG
*
72644843 TATTCGGGCCTTCGTGCCTAGCAGGTTTCGTGCCGATGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGATGATGTG
72644886 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
72644912 GTAATGCCGG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.11, C:0.26, G:0.33, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGATGATGTG
Found at i:72648343 original size:55 final size:53
Alignment explanation
Indices: 72648218--72648406 Score: 245
Period size: 55 Copynumber: 3.5 Consensus size: 53
72648208 AACTTACCAT
* * *
72648218 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAA
* *
72648271 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAA
* * * *
72648326 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAACTCATCAA
*
72648380 TGCCATGCCTTGGCATGGTCTTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
72648407 ATATCCTTAT
Statistics
Matches: 119, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
52 2 0.02
53 35 0.29
54 35 0.29
55 45 0.38
56 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCATCAA
Found at i:72648655 original size:44 final size:44
Alignment explanation
Indices: 72648604--72648690 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
72648594 GTATCCTTAA
* *
72648604 CCGTCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTT
1 CCGTCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGACTTTT
* *
72648648 CCGTCAATTCTTCCTTAATTGCCATGGTACAACCATGGACTTT
1 CCGTCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTT
72648691 GAGATATCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 2 0.05
44 36 0.95
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.36
Consensus pattern (44 bp):
CCGTCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTTT
Found at i:72654981 original size:55 final size:53
Alignment explanation
Indices: 72654856--72655044 Score: 245
Period size: 55 Copynumber: 3.5 Consensus size: 53
72654846 AACTTACCAT
* * *
72654856 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAA
* *
72654909 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAA
* * * *
72654964 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAACTCATCAA
*
72655018 TGCCATGCCTTGGCATGGTCTTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
72655045 ATATCCTTAT
Statistics
Matches: 119, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
52 2 0.02
53 35 0.29
54 35 0.29
55 45 0.38
56 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCATCAA
Found at i:72658310 original size:46 final size:46
Alignment explanation
Indices: 72658260--72658429 Score: 193
Period size: 46 Copynumber: 3.7 Consensus size: 46
72658250 TGGTTGAGCA
72658260 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
72658306 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* * *
72658351 CATCCGAACTCATTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
72658399 CCCGAGCTCGTTGAGTTGAGTTCGAGTTCAC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAC
72658430 ATAGGGGCGG
Statistics
Matches: 102, Mismatches: 15, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 55 0.54
47 28 0.27
48 4 0.04
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:72658416 original size:93 final size:93
Alignment explanation
Indices: 72658257--72658427 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
72658247 GGATGGTTGA
* *
72658257 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
72658322 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
72658350 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
*
72658415 TGAGTTCGAGTTC
66 TGAGTCCGAGTTC
72658428 ACATAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:72658694 original size:19 final size:20
Alignment explanation
Indices: 72658657--72658694 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
72658647 ATAAGGTGGT
72658657 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
72658677 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
72658695 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:72669669 original size:16 final size:18
Alignment explanation
Indices: 72669648--72669685 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
72669638 TAGTCTCTAG
*
72669648 CAGTTT-ACTATAG-TTT
1 CAGTTTAACTACAGTTTT
72669664 CAGTTTAACTACAGTTTT
1 CAGTTTAACTACAGTTTT
72669682 CAGT
1 CAGT
72669686 ATAAACAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 6 0.32
17 6 0.32
18 7 0.37
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (18 bp):
CAGTTTAACTACAGTTTT
Found at i:72671804 original size:23 final size:23
Alignment explanation
Indices: 72671777--72671834 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
72671767 ATGTTTACCG
*
72671777 CTATTAGCAGCTTTGCTGTGTTA
1 CTATTAGCAGCTTTGCTGCGTTA
*
72671800 CTATTAGTAGCTTTGCTGCGTTA
1 CTATTAGCAGCTTTGCTGCGTTA
*
72671823 TTATTAGCAGCT
1 CTATTAGCAGCT
72671835 ACGCTGCGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.43
Consensus pattern (23 bp):
CTATTAGCAGCTTTGCTGCGTTA
Found at i:72672024 original size:33 final size:34
Alignment explanation
Indices: 72671975--72672047 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 34
72671965 CATAGGCCCA
* * * *
72671975 TACTGTTACTGCATAGGGCTTAAGCCCAGACTG-
1 TACTGTTAATGAATAGGGCTCAAGCCCAGACCGT
*
72672008 TACTGTTAATGAATAGGGCTCAGGCCCAGACCGT
1 TACTGTTAATGAATAGGGCTCAAGCCCAGACCGT
72672042 TACTGT
1 TACTGT
72672048 ATACACTGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 28 0.82
34 6 0.18
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (34 bp):
TACTGTTAATGAATAGGGCTCAAGCCCAGACCGT
Found at i:72679095 original size:13 final size:13
Alignment explanation
Indices: 72679079--72679103 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
72679069 TTAAATTAGT
72679079 TAATTAGTTTAAA
1 TAATTAGTTTAAA
72679092 TAATTAGTTTAA
1 TAATTAGTTTAA
72679104 TAAACAAACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAATTAGTTTAAA
Found at i:72696435 original size:27 final size:27
Alignment explanation
Indices: 72696394--72696445 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
72696384 TTAACATCCT
*
72696394 GACCATTTAGATTATTATTAAGACCAG
1 GACCATTTAGATTATCATTAAGACCAG
* * *
72696421 GACCATTTGGGTTATCATTGAGACC
1 GACCATTTAGATTATCATTAAGACC
72696446 GGGATTATTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (27 bp):
GACCATTTAGATTATCATTAAGACCAG
Found at i:72700079 original size:26 final size:26
Alignment explanation
Indices: 72700049--72700122 Score: 107
Period size: 26 Copynumber: 2.9 Consensus size: 26
72700039 ACAAATTTTC
72700049 TCAAAATTTTACTAGGGGTAAAATCA
1 TCAAAATTTTACTAGGGGTAAAATCA
* *
72700075 TCAAAATTTTAC-CGGGAGTAAAATTA
1 TCAAAATTTTACTAGGG-GTAAAATCA
72700101 TCAAAATTTTACTA-GGGTAAAA
1 TCAAAATTTTACTAGGGGTAAAA
72700123 CTGGGGTGAG
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
25 9 0.21
26 34 0.79
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (26 bp):
TCAAAATTTTACTAGGGGTAAAATCA
Found at i:72703930 original size:34 final size:34
Alignment explanation
Indices: 72703882--72703950 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
72703872 TATTTAATTC
72703882 CATTCCTGCCATTTTTAGTGATTTTCCAAATCTA
1 CATTCCTGCCATTTTTAGTGATTTTCCAAATCTA
*
72703916 CATTCCTGCTATTTTTAGTGATTTTCCAAATCTA
1 CATTCCTGCCATTTTTAGTGATTTTCCAAATCTA
72703950 C
1 C
72703951 CTCACTGCTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (34 bp):
CATTCCTGCCATTTTTAGTGATTTTCCAAATCTA
Found at i:72703959 original size:34 final size:34
Alignment explanation
Indices: 72703885--72703959 Score: 116
Period size: 34 Copynumber: 2.2 Consensus size: 34
72703875 TTAATTCCAT
* *
72703885 TCCTGCCATTTTTAGTGATTTTCCAAATCTACAT
1 TCCTGCTATTTTTAGTGATTTTCCAAATCTACAC
72703919 TCCTGCTATTTTTAGTGATTTTCCAAATCTAC-C
1 TCCTGCTATTTTTAGTGATTTTCCAAATCTACAC
72703952 TCACTGCT
1 TC-CTGCT
72703960 GCTGTCAGCA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
33 2 0.05
34 36 0.95
ACGTcount: A:0.21, C:0.25, G:0.09, T:0.44
Consensus pattern (34 bp):
TCCTGCTATTTTTAGTGATTTTCCAAATCTACAC
Found at i:72704804 original size:39 final size:41
Alignment explanation
Indices: 72704690--72704873 Score: 190
Period size: 40 Copynumber: 4.6 Consensus size: 41
72704680 GCTCCTCGTT
* * *
72704690 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCACA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
* *
72704730 CAAATGCCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
72704770 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* * *
72704809 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCA
72704850 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
72704874 CATCATTCAA
Statistics
Matches: 128, Mismatches: 8, Indels: 17
0.84 0.05 0.11
Matches are distributed among these distances:
38 2 0.02
39 52 0.41
40 63 0.49
41 11 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:72704834 original size:79 final size:82
Alignment explanation
Indices: 72704690--72704873 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 82
72704680 GCTCCTCGTT
* *
72704690 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCACACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAATTCACACAAATGCCTTCGGGACTTAACCCG
*
72704754 GAT-TTAGT-A-TCTCGCA
66 GATATT-GTCACT-TAGCA
* **
72704770 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAAT-TCACACAAATGCCTTCGGGA-CTTAACC
72704831 CGGATATTGTCACTTAGCA
64 CGGATATTGTCACTTAGCA
72704850 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
72704874 CATCATTCAA
Statistics
Matches: 91, Mismatches: 6, Indels: 15
0.81 0.05 0.13
Matches are distributed among these distances:
78 14 0.15
79 53 0.58
80 23 0.25
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAATTCACACAAATGCCTTCGGGACTTAACCCG
GATATTGTCACTTAGCA
Found at i:72708897 original size:17 final size:17
Alignment explanation
Indices: 72708861--72708954 Score: 53
Period size: 19 Copynumber: 5.1 Consensus size: 17
72708851 TTTTCCAAAT
**
72708861 AATTATAAAAATTTCCAA
1 AATT-TAAAAATTTTAAA
72708879 AATTTAAAAATTTTAAA
1 AATTTAAAAATTTTAAA
* *
72708896 AATTATTAAGAATTATAATA
1 AA-T-TTAAAAATTTTAA-A
* *
72708916 AGTTATAAAAAGATTTAAA
1 AATT-TAAAAA-TTTTAAA
* *
72708935 AAATTAAACATTATTAAA
1 AATTTAAAAATT-TTAAA
72708953 AA
1 AA
72708955 CAACTGGAAT
Statistics
Matches: 58, Mismatches: 12, Indels: 12
0.71 0.15 0.15
Matches are distributed among these distances:
17 14 0.24
18 18 0.31
19 20 0.34
20 6 0.10
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (17 bp):
AATTTAAAAATTTTAAA
Found at i:72708904 original size:10 final size:10
Alignment explanation
Indices: 72708882--72708954 Score: 50
Period size: 10 Copynumber: 7.7 Consensus size: 10
72708872 TTTCCAAAAT
72708882 TTAAAAATT-
1 TTAAAAATTA
72708891 TTAAAAATTA
1 TTAAAAATTA
*
72708901 TTAAGAATTA
1 TTAAAAATTA
*
72708911 -TAATAAGTTA
1 TTAA-AAATTA
*
72708921 -TAAAAA-GA
1 TTAAAAATTA
72708929 TTTAAAAA--A
1 -TTAAAAATTA
*
72708938 TTAAACATTA
1 TTAAAAATTA
72708948 TTAAAAA
1 TTAAAAA
72708955 CAACTGGAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
8 7 0.14
9 15 0.29
10 29 0.57
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.36
Consensus pattern (10 bp):
TTAAAAATTA
Found at i:72709125 original size:18 final size:18
Alignment explanation
Indices: 72709099--72709135 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
72709089 AATAACTTTC
72709099 TATTAAGTTTTAGAAATT
1 TATTAAGTTTTAGAAATT
* *
72709117 TATTTAGTTTTAGGAATT
1 TATTAAGTTTTAGAAATT
72709135 T
1 T
72709136 TATATTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (18 bp):
TATTAAGTTTTAGAAATT
Found at i:72709471 original size:15 final size:16
Alignment explanation
Indices: 72709451--72709484 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
72709441 TATGTGATTG
72709451 TTTAAT-GGTGAATTT
1 TTTAATAGGTGAATTT
*
72709466 TTTAATAGGTGGATTT
1 TTTAATAGGTGAATTT
72709482 TTT
1 TTT
72709485 TTTAAGGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.56
Consensus pattern (16 bp):
TTTAATAGGTGAATTT
Found at i:72709481 original size:16 final size:15
Alignment explanation
Indices: 72709446--72709484 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
72709436 TATTTTATGT
*
72709446 GATTGTTTAATGGTG
1 GATTTTTTAATGGTG
*
72709461 AATTTTTTAATAGGTG
1 GATTTTTTAAT-GGTG
72709477 GATTTTTT
1 GATTTTTT
72709485 TTTAAGGTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (15 bp):
GATTTTTTAATGGTG
Found at i:72710272 original size:12 final size:12
Alignment explanation
Indices: 72710255--72710280 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
72710245 TCATGCAATC
72710255 AAGCAGTGAAGT
1 AAGCAGTGAAGT
72710267 AAGCAGTGAAGT
1 AAGCAGTGAAGT
72710279 AA
1 AA
72710281 CGATCGGAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.08, G:0.31, T:0.15
Consensus pattern (12 bp):
AAGCAGTGAAGT
Found at i:72717934 original size:18 final size:17
Alignment explanation
Indices: 72717901--72717939 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
72717891 TTGTATAAAT
72717901 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
72717919 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
72717936 TGTG
1 TGTG
72717940 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:72718192 original size:23 final size:23
Alignment explanation
Indices: 72718165--72718262 Score: 153
Period size: 23 Copynumber: 4.3 Consensus size: 23
72718155 AGTGTTATTG
*
72718165 ATCAGTGGTAACTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
72718188 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
72718211 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
72718233 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
72718256 ATCAGTG
1 ATCAGTG
72718263 TGGCACTTAT
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
22 20 0.29
23 48 0.71
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:72718231 original size:45 final size:45
Alignment explanation
Indices: 72718167--72718255 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
72718157 TGTTATTGAT
* *
72718167 CAGTGGTAACTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAACTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
*
72718212 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAACTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
72718256 ATCAGTGTGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.31
Consensus pattern (45 bp):
CAGTGGTAACTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:72725306 original size:18 final size:17
Alignment explanation
Indices: 72725273--72725311 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
72725263 TTGTATAAAT
72725273 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
72725291 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
72725308 TGTG
1 TGTG
72725312 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:72725564 original size:23 final size:23
Alignment explanation
Indices: 72725537--72725634 Score: 153
Period size: 23 Copynumber: 4.3 Consensus size: 23
72725527 AGTGTTATTG
*
72725537 ATCAGTGGTAACTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
72725560 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
72725583 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
72725605 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
72725628 ATCAGTG
1 ATCAGTG
72725635 TGGCACTTAT
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
22 20 0.29
23 48 0.71
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:72725603 original size:45 final size:45
Alignment explanation
Indices: 72725539--72725627 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
72725529 TGTTATTGAT
* *
72725539 CAGTGGTAACTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAACTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
*
72725584 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAACTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
72725628 ATCAGTGTGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.31
Consensus pattern (45 bp):
CAGTGGTAACTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:72727077 original size:55 final size:53
Alignment explanation
Indices: 72726936--72727137 Score: 192
Period size: 53 Copynumber: 3.8 Consensus size: 53
72726926 CTTTCCTTTT
* * * * **
72726936 TAAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTA
1 TAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGGATATTTGCCTTA
* * * * *
72726989 TGAACTCACCATTGCCTTGCCTTGGCATGGTCTTACATGGGATATTTGCCTTA
1 TAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGGATATTTGCCTTA
* * * * *
72727042 TAATAGTTTATCAATGCCATGTCTTGACATGGTCTTACAT--GATTTCCTTGCCTTG
1 TAA-A-CTTACCAATGCCATGCCTTGACATGGTCTTACATGGGATAT--TTGCCTTA
*
72727097 TAAAACTTACCAATGCCATGCCTTGGCATGGTCTTACATGG
1 T-AAACTTACCAATGCCATGCCTTGACATGGTCTTACATGG
72727138 TATCCTTAAA
Statistics
Matches: 119, Mismatches: 23, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
53 50 0.42
54 31 0.26
55 36 0.30
56 2 0.02
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (53 bp):
TAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGGATATTTGCCTTA
Found at i:72727144 original size:54 final size:54
Alignment explanation
Indices: 72726915--72727144 Score: 230
Period size: 54 Copynumber: 4.3 Consensus size: 54
72726905 ATACTAAGGA
* * * * *
72726915 TACATGGGTA-CCTTTCCTTTTTAAACTTACCATTGCCATGTCTTGACATGGTCT
1 TACAT-GGTATCCTTGCCTTATAAAACTTACCAATGCCATGCCTTGACATGGTCT
* * * * * *
72726969 TACGTGGTATCCTTGCCTTAT-GAACTCACCATTGCCTTGCCTTGGCATGGTCT
1 TACATGGTATCCTTGCCTTATAAAACTTACCAATGCCATGCCTTGACATGGTCT
* ** ** * *
72727022 TACATGGGATATTTGCCTTATAATAGTTTATCAATGCCATGTCTTGACATGGTCT
1 TACATGGTATCCTTGCCTTATAA-AACTTACCAATGCCATGCCTTGACATGGTCT
* * * *
72727077 TACATGATTTCCTTGCCTTGTAAAACTTACCAATGCCATGCCTTGGCATGGTCT
1 TACATGGTATCCTTGCCTTATAAAACTTACCAATGCCATGCCTTGACATGGTCT
72727131 TACATGGTATCCTT
1 TACATGGTATCCTT
72727145 AAACCCTAAT
Statistics
Matches: 139, Mismatches: 34, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
53 48 0.35
54 51 0.37
55 40 0.29
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (54 bp):
TACATGGTATCCTTGCCTTATAAAACTTACCAATGCCATGCCTTGACATGGTCT
Found at i:72729611 original size:10 final size:11
Alignment explanation
Indices: 72729588--72729613 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
72729578 CATATATTAT
72729588 AAATTTTAAAA
1 AAATTTTAAAA
72729599 AAATTTTAAAA
1 AAATTTTAAAA
72729610 AAAT
1 AAAT
72729614 CATAATATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AAATTTTAAAA
Found at i:72734887 original size:54 final size:54
Alignment explanation
Indices: 72734805--72734913 Score: 191
Period size: 54 Copynumber: 2.0 Consensus size: 54
72734795 ATTATGATTC
* * *
72734805 AATTCAACCCCCCCCCCCCTTTCCGCTTATAATTTTTTTTACTTTATTTCCTTA
1 AATTCAACCCCCCCCCCCCTTTACGCTTATAATTTATTTTAATTTATTTCCTTA
72734859 AATTCAACCCCCCCCCCCCTTTACGCTTATAATTTATTTTAATTTATTTCCTTA
1 AATTCAACCCCCCCCCCCCTTTACGCTTATAATTTATTTTAATTTATTTCCTTA
72734913 A
1 A
72734914 TGTTTGTCCA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.22, C:0.33, G:0.02, T:0.43
Consensus pattern (54 bp):
AATTCAACCCCCCCCCCCCTTTACGCTTATAATTTATTTTAATTTATTTCCTTA
Found at i:72739758 original size:20 final size:21
Alignment explanation
Indices: 72739720--72739758 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
72739710 TTTACATTTT
**
72739720 TATTCATTATATTTCTATTCC
1 TATTCATTATATTAATATTCC
72739741 TATTCA-TATATTAATATT
1 TATTCATTATATTAATATT
72739759 ATTTTCATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.31, C:0.13, G:0.00, T:0.56
Consensus pattern (21 bp):
TATTCATTATATTAATATTCC
Found at i:72752475 original size:45 final size:44
Alignment explanation
Indices: 72752358--72752891 Score: 287
Period size: 45 Copynumber: 11.9 Consensus size: 44
72752348 TTAACACATC
* * ** * *
72752358 ATAGCTAATCTTATCTCCTTGAAGTTGTAGTGGAAAAGATTGAAG
1 ATAGC-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG
* * * * *
72752403 CTA-TAAGTCTTATCTGCCTAAAATTGCAGTGGAGCAGACTAAAG
1 ATAGCAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG
* * * *
72752447 ATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGTTATAA
1 ATAGC-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT--A---A-AG
** * * *
72752498 ATAAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T---C
1 AT-AGCA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG
* * * * * * ** *
72752540 ATAGCAAACCTTATCTCTCTAAAGTTACAGTAGAGTAGGTTGAAG
1 ATAGC-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG
* *
72752585 -TAGCAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAG
1 ATAGCAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG
* * * *
72752629 ATAGCAAGTCTTATCTCCCTGAAGTTTCAGTGCAACAGGCTAAAG
1 ATAGCAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG
*
72752674 ATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TCGAAG
1 ATAGC-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAAG
** * * * * * *
72752719 CCA-TAATCCTTATCTCTCTAAAGTTGCAGTAGAGCAGGA-AAAAA
1 ATAGCAAT-CTTATCTCCCTGAAGTTGCAGTGGAGCA-GACTAAAG
* * * ** *
72752763 ATATACAATCTTTATCTCTCTGAAGTTACAGTGGAGCAGGTTGAA-
1 ATA-GCAATC-TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG
* *
72752808 ATAGCAAGTCTTACCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
1 ATAGCAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG
* * * * *
72752853 ACAACAGATCTTATCTCCCTGAAATTACATTGGAGCAGA
1 ATAGCA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
72752892 TCGAAGCATC
Statistics
Matches: 377, Mismatches: 83, Indels: 58
0.73 0.16 0.11
Matches are distributed among these distances:
41 28 0.07
42 4 0.01
43 7 0.02
44 125 0.33
45 143 0.38
46 34 0.09
47 1 0.00
50 1 0.00
51 5 0.01
52 29 0.08
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (44 bp):
ATAGCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG
Found at i:72752734 original size:134 final size:134
Alignment explanation
Indices: 72752593--72752846 Score: 334
Period size: 134 Copynumber: 1.9 Consensus size: 134
72752583 AGTAGCAAGT
* ** * *
72752593 CTTATCTCCCTAAAGTTGCAGTGGAGCA-GACTGAAGATA-GCAAGTC-TTATCTCCCTGAAGTT
1 CTTATCTCCCTAAAGTTGCAGTAGAGCAGGA-AAAAAATATACAA-TCTTTATCTCCCTGAAGTT
* *
72752655 TCAGTGCAACAGGCTAAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGC
64 ACAGTGCAACAGGCTAAA-ATAGCAAATCTTACCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGC
72752720 CATAATC
128 CATAATC
* *
72752727 CTTATCTCTCTAAAGTTGCAGTAGAGCAGGAAAAAAATATACAATCTTTATCTCTCTGAAGTTAC
1 CTTATCTCCCTAAAGTTGCAGTAGAGCAGGAAAAAAATATACAATCTTTATCTCCCTGAAGTTAC
* * * * *
72752792 AGTGGAGCAGGTTGAAATAGCAAGTCTTACCTCCCTGAAGTTGCAGTGGAGCAGA
66 AGTGCAACAGGCTAAAATAGCAAATCTTACCTCCCTGAAGTTGCAGTGGAGCAGA
72752847 CTGAAGACAA
Statistics
Matches: 103, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
134 70 0.68
135 33 0.32
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.26
Consensus pattern (134 bp):
CTTATCTCCCTAAAGTTGCAGTAGAGCAGGAAAAAAATATACAATCTTTATCTCCCTGAAGTTAC
AGTGCAACAGGCTAAAATAGCAAATCTTACCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCCAT
AATC
Found at i:72753745 original size:20 final size:21
Alignment explanation
Indices: 72753707--72753745 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
72753697 TTTACATTTT
**
72753707 TATTCATTATATTTCTATTCC
1 TATTCATTATATTAATATTCC
72753728 TATTCA-TATATTAATATT
1 TATTCATTATATTAATATT
72753746 ATTTTCATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.31, C:0.13, G:0.00, T:0.56
Consensus pattern (21 bp):
TATTCATTATATTAATATTCC
Found at i:72764051 original size:16 final size:16
Alignment explanation
Indices: 72764030--72764062 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
72764020 CCTCAGTCAA
72764030 TAATGCCTTTAGATTC
1 TAATGCCTTTAGATTC
*
72764046 TAATGCCTTTAGTTTC
1 TAATGCCTTTAGATTC
72764062 T
1 T
72764063 CAAAACTCTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.48
Consensus pattern (16 bp):
TAATGCCTTTAGATTC
Found at i:72781528 original size:21 final size:21
Alignment explanation
Indices: 72781502--72781541 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
72781492 GGCCGTGTGT
72781502 CACACACGGTCTAGACACACA
1 CACACACGGTCTAGACACACA
72781523 CACACACGGTCTAGACACA
1 CACACACGGTCTAGACACA
72781542 TGCTCGTGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.38, G:0.15, T:0.10
Consensus pattern (21 bp):
CACACACGGTCTAGACACACA
Found at i:72784058 original size:14 final size:14
Alignment explanation
Indices: 72784039--72784078 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
72784029 ATTTAGAACT
72784039 TAATGTCATTATGC
1 TAATGTCATTATGC
72784053 TAATGTCATTATGC
1 TAATGTCATTATGC
*
72784067 TAAGGTCATTAT
1 TAATGTCATTAT
72784079 AAATGGTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.42
Consensus pattern (14 bp):
TAATGTCATTATGC
Found at i:72788895 original size:44 final size:45
Alignment explanation
Indices: 72788688--72789091 Score: 300
Period size: 47 Copynumber: 8.7 Consensus size: 45
72788678 AGATTTCTTG
* * *
72788688 TGTGCCAATGTAAGACATGTCTGGGACATGCATCGGCC-ACATTA
1 TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTAGATGA
* * * *
72788732 TGAGTGCCAGTATAAGACCATTTCTGGGACATGGCATTGGCGTAGA-GA
1 T--GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTAGATGA
* *
72788780 TGAGTGCCAGTGTAAGACATGTCTGGTACATGCATCGGCCTCGATGA
1 T--GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTAGATGA
** * *
72788827 TGATAGCCAGTGTAAGATGTGTCTGGGACAAGCATCGG-CTAAGA-GT
1 TG-T-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-AGATGA
* *
72788873 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGA
1 TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTAGATGA
* * ** *
72788918 TGATAGCCAGTGTAAGACGTGTCTAGGACACACATCGG-CTAAGA-GT
1 TG-T-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-AGATGA
* * * *
72788964 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGTACGTATATACGA
1 TGTGCCAGTGTAAGACATGTCTGGGACATGCATC-G-GCCTAGAT--GA
* * * * *
72789013 -GAGCTAGTATAAGACCATGTCTGGGACATGGCATTGGCCTCGATGA
1 TGTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTAGATGA
*
72789059 TGCTAGCCAGTCTAAGACCATGTCTGGGACATG
1 TG-T-GCCAGTGTAAGA-CATGTCTGGGACATG
72789092 GCATAGGCAA
Statistics
Matches: 284, Mismatches: 51, Indels: 46
0.75 0.13 0.12
Matches are distributed among these distances:
44 58 0.20
45 9 0.03
46 38 0.13
47 91 0.32
48 41 0.14
49 43 0.15
50 4 0.01
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.25
Consensus pattern (45 bp):
TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTAGATGA
Found at i:72788902 original size:91 final size:92
Alignment explanation
Indices: 72788696--72788997 Score: 407
Period size: 91 Copynumber: 3.3 Consensus size: 92
72788686 TGTGTGCCAA
* * * * *
72788696 TGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGT-GCCAGTATAAGACCATTTCTGG
1 TGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATGA-TAGCCAGTGTAAGA-CGTGTCTGG
** * * *
72788759 GACATGGCATTGGCGT-AGAGATGAGTGCCAG
64 GACACAGCATCGGC-TAAGAG-T-TGTGCTAG
* *
72788790 TGTAAGACATGTCTGGTACATGCATCGGCCTCGATGATGATAGCCAGTGTAAGATGTGTCTGGGA
1 TGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATGATAGCCAGTGTAAGACGTGTCTGGGA
72788855 CA-AGCATCGGCTAAGAGTTGTGCTAG
66 CACAGCATCGGCTAAGAGTTGTGCTAG
*
72788881 TGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATGATAGCCAGTGTAAGACGTGTCTAGGA
1 TGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATGATAGCCAGTGTAAGACGTGTCTGGGA
72788946 CACA-CATCGGCTAAGAGTTGTGCTAG
66 CACAGCATCGGCTAAGAGTTGTGCTAG
72788972 TGTAAGACATGTCTGGGACATGCATC
1 TGTAAGACATGTCTGGGACATGCATC
72788998 AGTACGTATA
Statistics
Matches: 190, Mismatches: 14, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
91 118 0.62
92 3 0.02
93 11 0.06
94 41 0.22
95 17 0.09
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (92 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATGATAGCCAGTGTAAGACGTGTCTGGGA
CACAGCATCGGCTAAGAGTTGTGCTAG
Found at i:72791351 original size:64 final size:66
Alignment explanation
Indices: 72791270--72791392 Score: 160
Period size: 64 Copynumber: 1.9 Consensus size: 66
72791260 AGACATTATG
* * * *
72791270 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTA-G-ACCATGTAGACAAGAGAGCTATGGGATA
1 ATGTAGCTAGGTCGCATGCGTGATACCAGGTGAAGGAACCATGTAGACAAGAGAGCTATGGGATA
72791333 T
66 T
* * *
72791334 ATGTAGCTAGGTTGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTA
1 ATGTAGCTAGGTCGCATGCGTGATACCAGGTGAAGGA-ACCATGTAGACAAGAGAGCTA
72791393 CGAGATAAAC
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
64 27 0.55
65 1 0.02
67 21 0.43
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.24
Consensus pattern (66 bp):
ATGTAGCTAGGTCGCATGCGTGATACCAGGTGAAGGAACCATGTAGACAAGAGAGCTATGGGATA
T
Found at i:72794309 original size:26 final size:26
Alignment explanation
Indices: 72794273--72794324 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
72794263 TCCCAAGAGA
72794273 TAGAGTGTAACACCCCATATCCGACC
1 TAGAGTGTAACACCCCATATCCGACC
72794299 TAGAGTGTAACACCCCATATCCGACC
1 TAGAGTGTAACACCCCATATCCGACC
72794325 CGATCATTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.35, G:0.15, T:0.19
Consensus pattern (26 bp):
TAGAGTGTAACACCCCATATCCGACC
Found at i:72798214 original size:27 final size:27
Alignment explanation
Indices: 72798184--72798361 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
72798174 ATATTGAGTC
* * * *
72798184 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
72798211 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
72798238 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
72798266 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
72798293 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
72798320 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
72798347 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
72798362 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:72798323 original size:82 final size:81
Alignment explanation
Indices: 72798205--72798360 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
72798195 TGCTATATAA
* *
72798205 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
72798270 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
72798287 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
72798351 CACTTAGTGC
65 CACTTAGTGC
72798361 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:72806277 original size:27 final size:27
Alignment explanation
Indices: 72806247--72806424 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
72806237 ATATTGAGTC
* * * *
72806247 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
72806274 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
72806301 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
72806329 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
72806356 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
72806383 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
72806410 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
72806425 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:72806386 original size:82 final size:81
Alignment explanation
Indices: 72806268--72806423 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
72806258 TGCTATATAA
* *
72806268 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
72806333 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
72806350 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
72806414 CACTTAGTGC
65 CACTTAGTGC
72806424 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:72812725 original size:45 final size:43
Alignment explanation
Indices: 72812674--72812788 Score: 135
Period size: 45 Copynumber: 2.6 Consensus size: 43
72812664 TATGTGTTCT
* *
72812674 CGTGTAAGACCACGTCCGGGACGTTGGCATAGATATATATAGTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATAGATATAT-GA-TTA
* *
72812719 CGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGGTATATGATTA
1 CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATAGATATATGATTA
*
72812762 CATGTAAGACCACGTCTGGGACGTTGG
1 CGTGTAAGACCACGTCTGGGACGTTGG
72812789 GATTGTACGA
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
42 1 0.02
43 25 0.41
44 3 0.05
45 31 0.51
46 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATAGATATATGATTA
Found at i:72815994 original size:37 final size:37
Alignment explanation
Indices: 72815944--72816022 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
72815934 TTATTACGAA
* * *
72815944 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
72815981 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
72816018 GTCTT
1 GTCTT
72816023 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:72816228 original size:47 final size:47
Alignment explanation
Indices: 72816141--72816898 Score: 1102
Period size: 47 Copynumber: 16.1 Consensus size: 47
72816131 CCTTTCGGGA
* * * * * * * * *
72816141 CTTATCACATTTATGCACTTCCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
72816188 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
72816235 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
72816282 CTTATCACACACATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
72816329 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
72816376 CCTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
72816423 CTTATCACGTATATACCCTTTCCCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
72816470 CTTATCACGTATATACCCTTTCCCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
72816517 CTTATCACGTATATACCCTTTCCCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
72816564 CTTATCACGTATATACCCTTTCCCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
72816611 CTTATCACGTATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
72816658 CCTATCACGTATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
72816705 CCTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
72816752 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
72816799 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
72816846 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
72816895 CTTA
1 CTTA
72816899 CTATCATTTC
Statistics
Matches: 672, Mismatches: 37, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
47 631 0.94
49 41 0.06
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:72822675 original size:68 final size:65
Alignment explanation
Indices: 72822461--72822682 Score: 202
Period size: 67 Copynumber: 3.4 Consensus size: 65
72822451 CATAATTTTG
* *
72822461 GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGTGACCTAGCCACT--TTATCTCGTA
1 GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACTCATTATCTCGTA
* ** * * * * * * *
72822524 GCTCTTTTGTTTACATGGTGTCCTTAACCTGGAACCACACATGCAACCTAGCTA--CATCTATCT
1 GCTCTCTTGTACACATGGTGTAC---ACATAGTATCACCCATGCGACCTAGCTACTCAT-TATCT
72822587 CGTA
62 CGTA
* *
72822591 GCTCTCTTAT-CTACATGGTGTACACATAGTATCACCCATACGACCTAGCTACCTCATAATATCT
1 GCTCTCTTGTAC-ACATGGTGTACACATAGTATCACCCATGCGACCTAGCTA-CTCAT--TATCT
72822655 CGTA
62 CGTA
*
72822659 GCTCTCTTGTACACATGGTATACA
1 GCTCTCTTGTACACATGGTGTACA
72822683 TCCCGTATTA
Statistics
Matches: 121, Mismatches: 26, Indels: 19
0.73 0.16 0.11
Matches are distributed among these distances:
63 19 0.16
64 21 0.17
66 21 0.17
67 30 0.25
68 29 0.24
69 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.14, T:0.32
Consensus pattern (65 bp):
GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACTCATTATCTCGTA
Found at i:72826411 original size:131 final size:131
Alignment explanation
Indices: 72826177--72826438 Score: 524
Period size: 131 Copynumber: 2.0 Consensus size: 131
72826167 ACATTATATG
72826177 CATATAATCAAAATCATAGAGGTATCAATTGTATATTATCACATGCTTTAAACGGATTCACCGGC
1 CATATAATCAAAATCATAGAGGTATCAATTGTATATTATCACATGCTTTAAACGGATTCACCGGC
72826242 ATTTAGCCTGCTAGGTTTTAAAATCTGATTCAATACACCGGCTCTTAGCCTGCTAGACTTATAGT
66 ATTTAGCCTGCTAGGTTTTAAAATCTGATTCAATACACCGGCTCTTAGCCTGCTAGACTTATAGT
72826307 C
131 C
72826308 CATATAATCAAAATCATAGAGGTATCAATTGTATATTATCACATGCTTTAAACGGATTCACCGGC
1 CATATAATCAAAATCATAGAGGTATCAATTGTATATTATCACATGCTTTAAACGGATTCACCGGC
72826373 ATTTAGCCTGCTAGGTTTTAAAATCTGATTCAATACACCGGCTCTTAGCCTGCTAGACTTATAGT
66 ATTTAGCCTGCTAGGTTTTAAAATCTGATTCAATACACCGGCTCTTAGCCTGCTAGACTTATAGT
72826438 C
131 C
72826439 TGAAATGTGT
Statistics
Matches: 131, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
131 131 1.00
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (131 bp):
CATATAATCAAAATCATAGAGGTATCAATTGTATATTATCACATGCTTTAAACGGATTCACCGGC
ATTTAGCCTGCTAGGTTTTAAAATCTGATTCAATACACCGGCTCTTAGCCTGCTAGACTTATAGT
C
Found at i:72827415 original size:28 final size:28
Alignment explanation
Indices: 72827383--72827436 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
72827373 CACACATTGC
*
72827383 ATTTA-TTTCACATTTTAGTCCCTAAAAA
1 ATTTATTTTCACAATTTAG-CCCTAAAAA
72827411 ATTTATTTTCACAATTTAGCCCTAAA
1 ATTTATTTTCACAATTTAGCCCTAAA
72827437 TACTCAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.35, C:0.19, G:0.04, T:0.43
Consensus pattern (28 bp):
ATTTATTTTCACAATTTAGCCCTAAAAA
Found at i:72843387 original size:15 final size:15
Alignment explanation
Indices: 72843367--72843396 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
72843357 AATGTGATAG
72843367 CTTACTAAGCTATGA
1 CTTACTAAGCTATGA
72843382 CTTACTAAGCTATGA
1 CTTACTAAGCTATGA
72843397 TAGCTTACAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.33
Consensus pattern (15 bp):
CTTACTAAGCTATGA
Found at i:72846371 original size:45 final size:45
Alignment explanation
Indices: 72846275--72846397 Score: 137
Period size: 45 Copynumber: 2.8 Consensus size: 45
72846265 CTCAAATCAT
* * * *
72846275 CGGCATT-TCGCCTGTTAGGCTC-GAGGCCCG-ATATTAGTTCAC
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTAGTTCAC
72846317 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA-TCTCAC
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTAGT-TCAC
* ** *
72846362 CGGCGTTATAGTTTGCTAAGCTCAAAGGCCCGAATA
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
72846398 ATCAAGTCAA
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
42 7 0.10
43 13 0.19
44 8 0.12
45 41 0.59
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (45 bp):
CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTAGTTCAC
Found at i:72846775 original size:43 final size:43
Alignment explanation
Indices: 72846727--72846838 Score: 179
Period size: 43 Copynumber: 2.6 Consensus size: 43
72846717 CCGGCATTAT
72846727 GCCTGCTAGGCACGAAGGCCCGAATAAACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATAAACATCACCGGCACGAA
* *
72846770 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATAAACATCACCGGCACGAA
* * *
72846813 CCCTGCTAGGTACAAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
72846839 TAATACCAGT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.31, C:0.33, G:0.24, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATAAACATCACCGGCACGAA
Found at i:72846902 original size:38 final size:38
Alignment explanation
Indices: 72846831--72846914 Score: 105
Period size: 38 Copynumber: 2.2 Consensus size: 38
72846821 GGTACAAAGG
* * * ** *
72846831 CCCGAATATAATACCAGTACTAGGCCTGTGGGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTACGGGATTTAA
*
72846869 CCCGGATATAATACCAGCACGAAGCCTACGGGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTACGGGATTTAA
72846907 CCCGAATA
1 CCCGAATA
72846915 CACATCAAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTACGGGATTTAA
Found at i:72854641 original size:21 final size:22
Alignment explanation
Indices: 72854612--72854660 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
72854602 TTAAGATATT
* *
72854612 AATATAATATAATAAAACATAA-
1 AATA-AATAAAATAAAACAAAAG
72854634 AATAAATAAAATAAAACAAAAG
1 AATAAATAAAATAAAACAAAAG
72854656 AATAA
1 AATAA
72854661 GAACAGAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.20
Consensus pattern (22 bp):
AATAAATAAAATAAAACAAAAG
Found at i:72854689 original size:19 final size:20
Alignment explanation
Indices: 72854665--72854710 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
72854655 GAATAAGAAC
72854665 AGAGAAAGAAACAAA-AAAG
1 AGAGAAAGAAACAAAGAAAG
*
72854684 AGAGAAAGAAAGAAAGAAAG
1 AGAGAAAGAAACAAAGAAAG
72854704 AGA-AAAG
1 AGAGAAAG
72854711 GGAAATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.72, C:0.02, G:0.26, T:0.00
Consensus pattern (20 bp):
AGAGAAAGAAACAAAGAAAG
Found at i:72854693 original size:4 final size:4
Alignment explanation
Indices: 72854667--72854704 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
72854657 ATAAGAACAG
* *
72854667 AGAA AGAA ACAA A-AA AGAG AGAA AGAA AGAA AGAA AGA
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGA
72854705 GAAAAGGGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
3 3 0.10
4 27 0.90
ACGTcount: A:0.74, C:0.03, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:72859011 original size:40 final size:40
Alignment explanation
Indices: 72858941--72859038 Score: 155
Period size: 40 Copynumber: 2.5 Consensus size: 40
72858931 CAACGAAGTA
* *
72858941 CCTTCGGGATTTAG-CCGGACATAGCTACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGACATAGCTACTCGCACAAATG
72858980 CCTTCGGGACTTAGCCCGGACATAG-TAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGACATAGCT-ACTCGCACAAATG
72859020 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
72859039 TTATCATCCG
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
39 14 0.25
40 41 0.75
ACGTcount: A:0.22, C:0.31, G:0.24, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGACATAGCTACTCGCACAAATG
Found at i:72863205 original size:23 final size:22
Alignment explanation
Indices: 72863179--72863228 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
72863169 GGTTCTCCAA
** *
72863179 TTTTTCTTTTTTATTCTTCTGTC
1 TTTTTCTTTTCCAATCTTCT-TC
*
72863202 TTTTCCTTTTCCAATCTTCTTC
1 TTTTTCTTTTCCAATCTTCTTC
72863224 TTTTT
1 TTTTT
72863229 TTTCTTCTTG
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.06, C:0.22, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTTTCTTTTCCAATCTTCTTC
Found at i:72871575 original size:11 final size:11
Alignment explanation
Indices: 72871559--72871584 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
72871549 TAGAAGAGAC
72871559 GAAACAGGGGA
1 GAAACAGGGGA
72871570 GAAACAGGGGA
1 GAAACAGGGGA
72871581 GAAA
1 GAAA
72871585 GAAGAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.42, T:0.00
Consensus pattern (11 bp):
GAAACAGGGGA
Found at i:72872273 original size:3 final size:3
Alignment explanation
Indices: 72872247--72872297 Score: 75
Period size: 3 Copynumber: 17.0 Consensus size: 3
72872237 GTGAGGTAAG
* * *
72872247 TAT TAA TAT TAG TAT TAG TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
72872295 TAT
1 TAT
72872298 GAGTGGGAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:72873154 original size:26 final size:26
Alignment explanation
Indices: 72873123--72873175 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
72873113 TCAAAGGTCC
72873123 CGGTTCAGCATCCAGATTAATCCCGG
1 CGGTTCAGCATCCAGATTAATCCCGG
72873149 CGGTTCAGCATCCAGATTAATCCCGG
1 CGGTTCAGCATCCAGATTAATCCCGG
72873175 C
1 C
72873176 TTCGGCAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.23, C:0.32, G:0.23, T:0.23
Consensus pattern (26 bp):
CGGTTCAGCATCCAGATTAATCCCGG
Found at i:72876791 original size:64 final size:64
Alignment explanation
Indices: 72876596--72876912 Score: 275
Period size: 64 Copynumber: 4.9 Consensus size: 64
72876586 CATAATTTTG
* * * * * *
72876596 GCTCTCTTGTAC-ACATGGTG-AGCACTTAGTACCACCCATGTGACCTAGCCAC-TTTATCTCAT
1 GCTCTCTTGT-CTACATGGTGTA-CACATAGTATCACCCATGCGACCTAGCTACATATATCTCGT
72876658 A
64 A
* * * * * * * * * *
72876659 GCTCTCTTGTTTACATGGTGTCCTTCACCTGGAACCACACATGCAACCTAGTTACATTTATCTCG
1 GCTCTCTTGTCTACATGGTG---TACACATAGTATCACCCATGCGACCTAGCTACATATATCTCG
72876724 TA
63 TA
*
72876726 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATATATCCCGTA
1 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATATATCTCGTA
* *
72876790 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCCACCTAGCTACCTCATAATGTCTC
1 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTA---CAT-ATATCTC
72876855 GTA
62 GTA
* ** * * *
72876858 GCTCTCTTGTAC-ACATGGTATACATCCCA-TATTACACATGTGACCTAGCTACATA
1 GCTCTCTTGT-CTACATGGTGTACA-CATAGTATCACCCATGCGACCTAGCTACATA
72876913 CCATCTGTAT
Statistics
Matches: 210, Mismatches: 32, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
63 18 0.09
64 85 0.40
65 3 0.01
66 22 0.10
67 32 0.15
68 47 0.22
69 3 0.01
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATATATCTCGTA
Found at i:72876875 original size:132 final size:129
Alignment explanation
Indices: 72876596--72876912 Score: 311
Period size: 132 Copynumber: 2.4 Consensus size: 129
72876586 CATAATTTTG
* * * * *
72876596 GCTCTCTTGTACACATGGTG-AGCACTTAGTACCACCCATGTGACCTAGCCAC-TTTATCTCATA
1 GCTCTCTTGTACACATGGTGTA-CACATAGTATCACCCATGTGACCTAGCTACATATATCCCATA
* * * * * *
72876659 GCTCTCTTGTTTACATGGTGTCCTTCACCTGGAACCACACATGCAACCTAGTTACATTTATCTCG
65 GCTCTCTTGTCTACATGGTG--CTACACATAGAACCACACATGCAACCTAGCTACATATATCTCG
72876724 TA
128 TA
* *
72876726 GCTCTCTTGT-CTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATATATCCCGTA
1 GCTCTCTTGTAC-ACATGGTGTACACATAGTATCACCCATGTGACCTAGCTACATATATCCCATA
* * * * *
72876790 GCTCTCTTGTCTACATGGTG-TACACATAGTATCACCCATGCCACCTAGCTACCTCATAATGTCT
65 GCTCTCTTGTCTACATGGTGCTACACATAGAACCACACATGCAACCTAGCTA---CAT-ATATCT
72876854 CGTA
126 CGTA
* ** * *
72876858 GCTCTCTTGTACACATGGTATACATCCCA-TATTACACATGTGACCTAGCTACATA
1 GCTCTCTTGTACACATGGTGTACA-CATAGTATCACCCATGTGACCTAGCTACATA
72876913 CCATCTGTAT
Statistics
Matches: 154, Mismatches: 24, Indels: 16
0.79 0.12 0.08
Matches are distributed among these distances:
128 23 0.15
129 1 0.01
130 44 0.29
131 31 0.20
132 52 0.34
133 3 0.02
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (129 bp):
GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGTGACCTAGCTACATATATCCCATAG
CTCTCTTGTCTACATGGTGCTACACATAGAACCACACATGCAACCTAGCTACATATATCTCGTA
Found at i:72884777 original size:30 final size:30
Alignment explanation
Indices: 72884720--72884778 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
72884710 GCCTACTGGA
*
72884720 TTATTATTAATTAAATTCAAATTATATATT
1 TTATTATTAATTAAATTCAAATAATATATT
* *
72884750 TTATTATT-ATTATATTTAAATAAATATAT
1 TTATTATTAATTAAATTCAAAT-AATATAT
72884779 ATATTTCATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (30 bp):
TTATTATTAATTAAATTCAAATAATATATT
Found at i:72885959 original size:33 final size:33
Alignment explanation
Indices: 72885912--72885978 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
72885902 GAAGGGAGCA
*
72885912 AGGACAATGCGTCATTTGGCAAGTAACAGGTGG
1 AGGACAATGCGTCATTTGGCAAGTAACAGCTGG
*
72885945 AGGACAATGTGTCATTTGGCAAGTAACAGCTGG
1 AGGACAATGCGTCATTTGGCAAGTAACAGCTGG
72885978 A
1 A
72885979 CTAACTAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.22
Consensus pattern (33 bp):
AGGACAATGCGTCATTTGGCAAGTAACAGCTGG
Found at i:72897905 original size:30 final size:32
Alignment explanation
Indices: 72897846--72897905 Score: 79
Period size: 33 Copynumber: 1.9 Consensus size: 32
72897836 AAGATCCACT
* *
72897846 TTCAAAGTTTGCTATTAATAGATTTTAATTGGA
1 TTCAAAGTCTACTATTAATAGA-TTTAATTGGA
72897879 TTCAAAGTCTACTATTAA-AG-TTTAATT
1 TTCAAAGTCTACTATTAATAGATTTAATT
72897906 TGCTTACTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 7 0.28
32 2 0.08
33 16 0.64
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.45
Consensus pattern (32 bp):
TTCAAAGTCTACTATTAATAGATTTAATTGGA
Found at i:72904813 original size:14 final size:14
Alignment explanation
Indices: 72904794--72904825 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
72904784 AGAAGAAAAC
*
72904794 ATACGATTTATAGA
1 ATACGATTTACAGA
72904808 ATACGATTTACAGA
1 ATACGATTTACAGA
72904822 ATAC
1 ATAC
72904826 ACCATAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.31
Consensus pattern (14 bp):
ATACGATTTACAGA
Found at i:72914657 original size:13 final size:15
Alignment explanation
Indices: 72914633--72914664 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
72914623 ATCCTATATT
72914633 TATTATTAATTAA-A
1 TATTATTAATTAACA
72914647 TATTA-TAATTAACA
1 TATTATTAATTAACA
72914661 TATT
1 TATT
72914665 TTCACTTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTATTAATTAACA
Found at i:72916746 original size:14 final size:14
Alignment explanation
Indices: 72916722--72916755 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
72916712 AGTCGTAAAC
72916722 AAGTAATAAAGTAGT
1 AAGT-ATAAAGTAGT
72916737 AAGTATAAAGTAGT
1 AAGTATAAAGTAGT
72916751 AAGTA
1 AAGTA
72916756 AATCAACAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.53, C:0.00, G:0.21, T:0.26
Consensus pattern (14 bp):
AAGTATAAAGTAGT
Found at i:72918944 original size:49 final size:49
Alignment explanation
Indices: 72918879--72919019 Score: 174
Period size: 49 Copynumber: 2.9 Consensus size: 49
72918869 TACATGCCTG
*
72918879 TGTGACCCACATGACCCAAATAACCCAACCTGTGTGGTCCACATGCTCA
1 TGTGACCCACACGACCCAAATAACCCAACCTGTGTGGTCCACATGCTCA
* * * * *
72918928 TGTGACTCACACGACCCAGATAACCTAACCTGTGTGGTCTACATGCTCG
1 TGTGACCCACACGACCCAAATAACCCAACCTGTGTGGTCCACATGCTCA
* * * * * *
72918977 TGTGGCCCACACAACCTAAATAACCCAGCCTATGTGGCCCACA
1 TGTGACCCACACGACCCAAATAACCCAACCTGTGTGGTCCACA
72919020 CGACCTGGCA
Statistics
Matches: 76, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
49 76 1.00
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.21
Consensus pattern (49 bp):
TGTGACCCACACGACCCAAATAACCCAACCTGTGTGGTCCACATGCTCA
Found at i:72928295 original size:22 final size:22
Alignment explanation
Indices: 72928270--72928315 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
72928260 CCAAACTTGT
72928270 TCAAAATATACCAAATCAATCA
1 TCAAAATATACCAAATCAATCA
72928292 TCAAAATATACCAAATCAATCA
1 TCAAAATATACCAAATCAATCA
72928314 TC
1 TC
72928316 CTATATTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (22 bp):
TCAAAATATACCAAATCAATCA
Found at i:72932139 original size:17 final size:18
Alignment explanation
Indices: 72932117--72932151 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
72932107 ATTATGGGTT
72932117 GTGTGGGC-CACACGGGC
1 GTGTGGGCTCACACGGGC
*
72932134 GTGTGGGCTCACATGGGC
1 GTGTGGGCTCACACGGGC
72932152 CTCCAATATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.11, C:0.26, G:0.46, T:0.17
Consensus pattern (18 bp):
GTGTGGGCTCACACGGGC
Found at i:72945991 original size:66 final size:65
Alignment explanation
Indices: 72945885--72946017 Score: 230
Period size: 66 Copynumber: 2.0 Consensus size: 65
72945875 CGAGAGTGTG
* *
72945885 TTCTTTGATTAACTGCCTTATGGGTACTCTTGAATAAGAATTGGCAGGTAATTGAATCAGTACAC
1 TTCTTTGATTAAATGCCTTATGGGTACTCTTGAATAAGAATTGGCAGGTAATTGAATCA-CACAC
72945950 C
65 C
*
72945951 TTCTTTGATTAAATGCCTTATGGGTACTCTTGAATAAGAATTGGCGGGTAATTGAATCACACACC
1 TTCTTTGATTAAATGCCTTATGGGTACTCTTGAATAAGAATTGGCAGGTAATTGAATCACACACC
72946016 TT
1 TT
72946018 GCGTGTACTA
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
65 7 0.11
66 57 0.89
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.35
Consensus pattern (65 bp):
TTCTTTGATTAAATGCCTTATGGGTACTCTTGAATAAGAATTGGCAGGTAATTGAATCACACACC
Found at i:72949984 original size:26 final size:26
Alignment explanation
Indices: 72949951--72950001 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
72949941 AAAAGTCTAA
72949951 AAATATTTGATGTCACAGAAAGACTG
1 AAATATTTGATGTCACAGAAAGACTG
*
72949977 AAATATTTGATGTCATAGAAAGACT
1 AAATATTTGATGTCACAGAAAGACT
72950002 TGAATTTACG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.43, C:0.10, G:0.18, T:0.29
Consensus pattern (26 bp):
AAATATTTGATGTCACAGAAAGACTG
Found at i:72954282 original size:28 final size:27
Alignment explanation
Indices: 72954250--72954333 Score: 72
Period size: 28 Copynumber: 3.2 Consensus size: 27
72954240 AACTTCGATC
72954250 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGT-CAGGCTACT
* * *
72954278 ACGTGTATCAG-A-T-GGTTAGG-T-C-
1 ACGTGTGT-AGTACTAAGTCAGGCTACT
72954300 ACGTGTGTAGTACTAAGTACAGGCTACT
1 ACGTGTGTAGTACTAAGT-CAGGCTACT
72954328 ACGTGT
1 ACGTGT
72954334 ATCAGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.30
Consensus pattern (27 bp):
ACGTGTGTAGTACTAAGTCAGGCTACT
Found at i:72954323 original size:50 final size:50
Alignment explanation
Indices: 72954145--72954391 Score: 264
Period size: 49 Copynumber: 5.0 Consensus size: 50
72954135 ATCTATTGTG
* * *
72954145 AGGTCATGTGTGTAGTACTAAGTGCAGGCTAGTACGTGTACCGGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
72954195 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * **
72954245 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
72954295 AGGTCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTATCAGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * ** * * * *
72954345 -GGTCGCATGAGTAAAACTAAGTGCAAGCAACTATGCGTACCAGATAA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA
72954392 CTTTGGCTAC
Statistics
Matches: 165, Mismatches: 30, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
49 77 0.47
50 49 0.30
51 39 0.24
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.28
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:72954342 original size:101 final size:100
Alignment explanation
Indices: 72954152--72954342 Score: 274
Period size: 101 Copynumber: 1.9 Consensus size: 100
72954142 GTGAGGTCAT
* *
72954152 GTGTGTAGTACTAAGTGCAGGCTAGTACGTGTACCGGATAATTGGTCACATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACTAAGT
* * *
72954217 GCAGGCTACTATGCGTACCCGATAACTTCGATCAC
66 ACAGGCTACTACGCGTACCAGATAACTTCGATCAC
* ** *
72954252 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACATGTGTAGTACTAAG
* *
72954317 TACAGGCTACTACGTGTATCAGATAA
65 TACAGGCTACTACGCGTACCAGATAA
72954343 TTGGTCGCAT
Statistics
Matches: 79, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
100 38 0.48
101 41 0.52
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (100 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACTAAGT
ACAGGCTACTACGCGTACCAGATAACTTCGATCAC
Found at i:72959765 original size:43 final size:42
Alignment explanation
Indices: 72959660--72959776 Score: 119
Period size: 43 Copynumber: 2.8 Consensus size: 42
72959650 GAAGTCCAAA
* * * *
72959660 CTCGTTGAGTGGTCCATGTTC-GTAAGGTATGTAGCATCCGAG
1 CTCGTTGAGTGGTCCAAGTTCATTATGG-ATGGAGCATCCGAG
** * **
72959702 CTCGTTGAAAGATCTGAGTTCATTATGGATGCGAGCATCCGAG
1 CTCGTTGAGTGGTCCAAGTTCATTATGGATG-GAGCATCCGAG
*
72959745 CTCGTTGAGTGGTCCAAGTTCATGATGGATGG
1 CTCGTTGAGTGGTCCAAGTTCATTATGGATGG
72959777 GATTCATGTA
Statistics
Matches: 58, Mismatches: 15, Indels: 4
0.75 0.19 0.05
Matches are distributed among these distances:
42 19 0.33
43 39 0.67
ACGTcount: A:0.21, C:0.18, G:0.31, T:0.30
Consensus pattern (42 bp):
CTCGTTGAGTGGTCCAAGTTCATTATGGATGGAGCATCCGAG
Found at i:72968643 original size:70 final size:70
Alignment explanation
Indices: 72968360--72968634 Score: 550
Period size: 70 Copynumber: 3.9 Consensus size: 70
72968350 TCCCGAAAGT
72968360 AAATAACAAGAATGGAAATAAAGTCTAAACCCTAAAAGAAAAGAAAAACTAAAATCTAAAACTAA
1 AAATAACAAGAATGGAAATAAAGTCTAAACCCTAAAAGAAAAGAAAAACTAAAATCTAAAACTAA
72968425 TTTTA
66 TTTTA
72968430 AAATAACAAGAATGGAAATAAAGTCTAAACCCTAAAAGAAAAGAAAAACTAAAATCTAAAACTAA
1 AAATAACAAGAATGGAAATAAAGTCTAAACCCTAAAAGAAAAGAAAAACTAAAATCTAAAACTAA
72968495 TTTTA
66 TTTTA
72968500 AAATAACAAGAATGGAAATAAAGTCTAAACCCTAAAAGAAAAGAAAAACTAAAATCTAAAACTAA
1 AAATAACAAGAATGGAAATAAAGTCTAAACCCTAAAAGAAAAGAAAAACTAAAATCTAAAACTAA
72968565 TTTTA
66 TTTTA
72968570 AAATAACAAGAATGGAAATAAAGTCTAAACCCTAAAAGAAAAGAAAAACTAAAATCTAAAACTAA
1 AAATAACAAGAATGGAAATAAAGTCTAAACCCTAAAAGAAAAGAAAAACTAAAATCTAAAACTAA
72968635 AGAGAAAATT
Statistics
Matches: 205, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 205 1.00
ACGTcount: A:0.61, C:0.12, G:0.09, T:0.19
Consensus pattern (70 bp):
AAATAACAAGAATGGAAATAAAGTCTAAACCCTAAAAGAAAAGAAAAACTAAAATCTAAAACTAA
TTTTA
Found at i:72972876 original size:28 final size:27
Alignment explanation
Indices: 72972812--72972963 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
72972802 TTATTAAGTC
* *
72972812 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
72972839 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
72972867 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
72972894 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
72972922 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
72972949 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
72972964 GCACAATTTA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:72972896 original size:55 final size:55
Alignment explanation
Indices: 72972812--72972988 Score: 246
Period size: 55 Copynumber: 3.2 Consensus size: 55
72972802 TTATTAAGTC
* * *
72972812 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
72972867 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * * *
72972922 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAA-TCAAACT
72972978 CGCACACTTAG
1 CGCACACTTAG
72972989 CGCCAATCTC
Statistics
Matches: 109, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
55 93 0.85
56 16 0.15
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:72980873 original size:28 final size:27
Alignment explanation
Indices: 72980809--72980960 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
72980799 TTATTAAGTC
* *
72980809 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
72980836 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
72980864 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
72980891 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
72980919 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
72980946 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
72980961 GCACAATTTA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:72980893 original size:55 final size:55
Alignment explanation
Indices: 72980809--72980985 Score: 246
Period size: 55 Copynumber: 3.2 Consensus size: 55
72980799 TTATTAAGTC
* * *
72980809 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
72980864 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * * *
72980919 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAA-TCAAACT
72980975 CGCACACTTAG
1 CGCACACTTAG
72980986 CGCCAATCTC
Statistics
Matches: 109, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
55 93 0.85
56 16 0.15
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:72982774 original size:25 final size:25
Alignment explanation
Indices: 72982740--72982792 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
72982730 TGCTTAAGAG
72982740 ATTACAACTCAATTATACAAAATAT
1 ATTACAACTCAATTATACAAAATAT
72982765 ATTACAACTCAATTATACAAAATAT
1 ATTACAACTCAATTATACAAAATAT
72982790 ATT
1 ATT
72982793 TACATATCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (25 bp):
ATTACAACTCAATTATACAAAATAT
Found at i:72984674 original size:45 final size:43
Alignment explanation
Indices: 72984506--72984666 Score: 150
Period size: 45 Copynumber: 3.7 Consensus size: 43
72984496 ATATCAAACA
* * *
72984506 ATGCCAACGTCCCAGACGTGGTCTTACATGCTATCTCAT-ATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-AATCACATAATCG
** * *
72984549 ATGCCATTGTCCTAGACAG-GGTCTTACACGAATCAAAT-A-CG
1 ATGCCAACGTCCCAGAC-GTGGTCTTACACGAATCACATAATCG
* * * * *
72984590 ATGCCGATGTCCCAGACTTGGTCTTACATGTAACCACATACATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-AATCACATA-ATCG
72984635 ATGCCAACGTCCCAGACGTGGTCTTACACGAA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAA
72984667 AACACATATC
Statistics
Matches: 94, Mismatches: 18, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
41 26 0.28
42 12 0.13
43 24 0.26
44 4 0.04
45 28 0.30
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAATCACATAATCG
Found at i:72984862 original size:23 final size:24
Alignment explanation
Indices: 72984827--72984872 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
72984817 ATTATACATT
*
72984827 TCAACATATATAAC-TCGTATTTAA
1 TCAACATAAATAACATC-TATTTAA
72984851 TCAA-ATAAATAACATCTATTTA
1 TCAACATAAATAACATCTATTTA
72984873 CTTATAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.37
Consensus pattern (24 bp):
TCAACATAAATAACATCTATTTAA
Found at i:72985276 original size:15 final size:15
Alignment explanation
Indices: 72985253--72985283 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
72985243 TCAAAAATTC
72985253 CAATACAAAACATAT
1 CAATACAAAACATAT
*
72985268 CAATCCAAAACATAT
1 CAATACAAAACATAT
72985283 C
1 C
72985284 TTTCATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Done.