Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 155 of 325
Found at i:49625852 original size:48 final size:48
Alignment explanation
Indices: 49625737--49625900 Score: 183
Period size: 48 Copynumber: 3.5 Consensus size: 48
49625727 GATATGTGTA
* * *
49625737 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AG-CA-TGAGAG
1 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATTCA-AG
* * * *
49625783 CCAATGTAAGACATGTTTGGGACATGCATC-GTCCTCGAGATATTTAAG
1 CTAGTGTAAGACATGTCTGGGACATGCATCAG-CCTCGAGATATTCAAG
* *
49625831 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGTGATATACAAG
1 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATTCAAG
* *
49625879 CTAGTGTAAGACCTGTTTGGGA
1 CTAGTGTAAGACATGTCTGGGA
49625901 TATGGCGTTT
Statistics
Matches: 99, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
45 1 0.01
46 30 0.30
47 2 0.02
48 63 0.64
49 3 0.03
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.26
Consensus pattern (48 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATTCAAG
Found at i:49630858 original size:26 final size:26
Alignment explanation
Indices: 49630822--49630874 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
49630812 CACCACTGAA
* * *
49630822 TCGGTGAATCATCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
49630848 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
49630874 T
1 T
49630875 TTTCATTTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.34, G:0.19, T:0.19
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:49630948 original size:69 final size:70
Alignment explanation
Indices: 49630834--49630982 Score: 221
Period size: 69 Copynumber: 2.1 Consensus size: 70
49630824 GGTGAATCAT
* *
49630834 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAA-CCCCTTTTCATTTCAAATATACAATGGA
1 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATGGA
49630898 TATCG
66 TATCG
***
49630903 CACTTAGCAA-CCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTT-ACATTTCAAAGATACAATG
49630967 GATATCG
64 GATATCG
49630974 CACTTAGCA
1 CACTTAGCA
49630983 CCACCAATGA
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
68 5 0.07
69 30 0.42
70 7 0.10
71 30 0.42
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (70 bp):
CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATGGA
TATCG
Found at i:49631025 original size:26 final size:26
Alignment explanation
Indices: 49630995--49631045 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
49630985 ACCAATGAAC
*
49630995 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
49631021 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
49631046 CTTTCACATT
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:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:49631037 original size:103 final size:104
Alignment explanation
Indices: 49630902--49631123 Score: 360
Period size: 103 Copynumber: 2.2 Consensus size: 104
49630892 AATGGATATC
49630902 GCACTTAGCAA-CCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
49630966 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
49631005 GCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
49631069 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
49631108 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
49631124 TTTATATACA
Statistics
Matches: 111, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
103 105 0.95
104 6 0.05
ACGTcount: A:0.32, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:49631485 original size:29 final size:29
Alignment explanation
Indices: 49631452--49631515 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
49631442 TAATCCACCA
49631452 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
49631481 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
49631511 CCCAA
1 CCCAA
49631516 GCTCGAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:49631489 original size:30 final size:30
Alignment explanation
Indices: 49631459--49631515 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
49631449 CCACCCAACT
49631459 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
49631488 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
49631516 GCTCGAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:49632656 original size:19 final size:19
Alignment explanation
Indices: 49632632--49632681 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
49632622 CCATTTTACC
49632632 TTATTTTCAATTT-TAATTT
1 TTATTTTC-ATTTCTAATTT
*
49632651 TTATTTTCTTTTCTAATTT
1 TTATTTTCATTTCTAATTT
49632670 TT-TCTTTCATTT
1 TTAT-TTTCATTT
49632682 GCTCCTGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 4 0.15
19 23 0.85
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (19 bp):
TTATTTTCATTTCTAATTT
Found at i:49637078 original size:26 final size:26
Alignment explanation
Indices: 49637049--49637208 Score: 248
Period size: 26 Copynumber: 6.2 Consensus size: 26
49637039 TGGTACAAAT
49637049 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
49637075 TGATAATGGATTAGATAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
49637101 TGATAACGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
49637127 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
49637153 TGATAATGTGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
49637179 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
49637205 TGAT
1 TGAT
49637209 GGGCATTTCA
Statistics
Matches: 119, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 119 1.00
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:49637112 original size:52 final size:52
Alignment explanation
Indices: 49637049--49637208 Score: 275
Period size: 52 Copynumber: 3.1 Consensus size: 52
49637039 TGGTACAAAT
*
49637049 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGATAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
*
49637101 TGATAACGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* * *
49637153 TGATAATGTGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
49637205 TGAT
1 TGAT
49637209 GGGCATTTCA
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 102 1.00
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:49638857 original size:27 final size:27
Alignment explanation
Indices: 49638817--49638957 Score: 153
Period size: 27 Copynumber: 5.2 Consensus size: 27
49638807 AGGAAGCGTC
*
49638817 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
49638844 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
* *
49638871 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
* *
49638898 CTGGTGGCTCTGCCA-TATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
** *
49638925 CTGGTGGCTCTATCACAA-TATCTATAT
1 CTGGTGGCTCTGCCACAATTATCT-GAT
49638952 CTGGTG
1 CTGGTG
49638958 ACTTCATCAC
Statistics
Matches: 97, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
26 9 0.09
27 85 0.88
28 3 0.03
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:49638899 original size:54 final size:54
Alignment explanation
Indices: 49638817--49638933 Score: 216
Period size: 54 Copynumber: 2.2 Consensus size: 54
49638807 AGGAAGCGTC
49638817 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* *
49638871 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCATATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
49638925 CTGGTGGCT
1 CTGGTGGCT
49638934 CTATCACAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 61 1.00
ACGTcount: A:0.16, C:0.23, G:0.25, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:49638954 original size:54 final size:54
Alignment explanation
Indices: 49638817--49638957 Score: 187
Period size: 54 Copynumber: 2.6 Consensus size: 54
49638807 AGGAAGCGTC
*
49638817 CTGGTGGCTATGCCAC-AATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATACCACGAA-TATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* * *
49638871 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCATATATATCTGTT
1 CTGGTGGCTATACCACGAATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* * *
49638925 CTGGTGGCTCTATCAC-AATATCTATATCTGGTG
1 CTGGTGGCTATACCACGAATATCT-GATCTGGTG
49638958 ACTTCATCAC
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
53 6 0.08
54 71 0.91
55 1 0.01
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATACCACGAATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:49649599 original size:27 final size:27
Alignment explanation
Indices: 49649569--49649664 Score: 138
Period size: 27 Copynumber: 3.6 Consensus size: 27
49649559 GTAGGCTACT
* *
49649569 ATTACTTAAATACCCTTGTAGGGTAGA
1 ATTACTGAAATACCCCTGTAGGGTAGA
* *
49649596 ATTACTGAAATGCCCCTGTAGGATAGA
1 ATTACTGAAATACCCCTGTAGGGTAGA
*
49649623 ATTACTGAAATGCCCCTGTAGGGTAGA
1 ATTACTGAAATACCCCTGTAGGGTAGA
*
49649650 ATTACTAAAATACCC
1 ATTACTGAAATACCC
49649665 TTGGTTTACA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (27 bp):
ATTACTGAAATACCCCTGTAGGGTAGA
Found at i:49649679 original size:27 final size:27
Alignment explanation
Indices: 49649649--49649905 Score: 107
Period size: 27 Copynumber: 9.6 Consensus size: 27
49649639 TGTAGGGTAG
* *
49649649 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACTAAAATACCCCTGATTTACAA
**
49649676 AATTACT-AAATACCCCTGATTTGTAA
1 AATTACTAAAATACCCCTGATTTACAA
* ** ***
49649702 AATTACCAAAATACTGCTGATTTTTGA
1 AATTACTAAAATACCCCTGATTTACAA
* * * **
49649729 AATTAAC-GAAAT--CCCTCAACTTGTAA
1 AATT-ACTAAAATACCCCT-GATTTACAA
** * * * **
49649755 AATTACCGAAATACCCTTAACTTGTAA
1 AATTACTAAAATACCCCTGATTTACAA
**
49649782 AATTACTAAAATACCCTCT-ATTTGTAA
1 AATTACTAAAATACCC-CTGATTTACAA
* **
49649809 AATTACCAAAATACCCCTGATTTGGAA
1 AATTACTAAAATACCCCTGATTTACAA
* * **
49649836 AATTA-TCGAAATACCCTTGATTTGGAA
1 AATTACT-AAAATACCCCTGATTTACAA
* *
49649863 AATTA-TAGAAATACCCTTAATTTACAA
1 AATTACTA-AAATACCCCTGATTTACAA
49649890 AATTAC-AGAAATACCC
1 AATTACTA-AAATACCC
49649906 TTGACTTTGA
Statistics
Matches: 189, Mismatches: 30, Indels: 22
0.78 0.12 0.09
Matches are distributed among these distances:
25 4 0.02
26 37 0.20
27 142 0.75
28 6 0.03
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (27 bp):
AATTACTAAAATACCCCTGATTTACAA
Found at i:49649680 original size:54 final size:53
Alignment explanation
Indices: 49649569--49649693 Score: 135
Period size: 54 Copynumber: 2.3 Consensus size: 53
49649559 GTAGGCTACT
* * * * *
49649569 ATTACTTAAATACCCTTGTAGGGTAGAATTACTGAAATGCCCCTGTAGGATAGA
1 ATTAC-TAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGACAAA
* * **
49649623 ATTACTGAAATGCCCCTGTAGGGTAGAATTACTAAAATACCCTTGGT-TTACAAA
1 ATTACT-AAATACCCCTGTAGGGTAGAATTACTAAAATACCCCT-GTAGGACAAA
49649677 ATTACTAAATACCCCTG
1 ATTACTAAATACCCCTG
49649694 ATTTGTAAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
53 11 0.19
54 46 0.78
55 2 0.03
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (53 bp):
ATTACTAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGACAAA
Found at i:49649814 original size:54 final size:55
Alignment explanation
Indices: 49649649--49649914 Score: 196
Period size: 54 Copynumber: 4.9 Consensus size: 55
49649639 TGTAGGGTAG
* ** **
49649649 AATTACTAAAATACCCTTGGTTTACAAAATTACT-AAATACCC-CTGATTTGTAA
1 AATTACCAAAATACCCTTAATTTGTAAAATTACTAAAATACCCTCTGATTTGTAA
* * * * * * *
49649702 AATTACCAAAATACTGC-TGATTTTTGAAATTAAC-GAAAT-CCCTC-AACTTGTAA
1 AATTACCAAAATAC-CCTTAATTTGTAAAATT-ACTAAAATACCCTCTGATTTGTAA
* *
49649755 AATTACCGAAATACCCTTAACTTGTAAAATTACTAAAATACCCTCT-ATTTGTAA
1 AATTACCAAAATACCCTTAATTTGTAAAATTACTAAAATACCCTCTGATTTGTAA
* * * * *
49649809 AATTACCAAAATACCCCTGATTTGGAAAATTA-TCGAAATACCCT-TGATTTGGAA
1 AATTACCAAAATACCCTTAATTTGTAAAATTACT-AAAATACCCTCTGATTTGTAA
* **
49649863 AATTA-TAGAAATACCCTTAATTTACAAAATTAC-AGAAATACCCT-TGACTTTG
1 AATTACCA-AAATACCCTTAATTTGTAAAATTACTA-AAATACCCTCTGA-TTTG
49649915 AAATATTGCA
Statistics
Matches: 170, Mismatches: 29, Indels: 26
0.76 0.13 0.12
Matches are distributed among these distances:
52 3 0.02
53 63 0.37
54 100 0.59
55 4 0.02
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (55 bp):
AATTACCAAAATACCCTTAATTTGTAAAATTACTAAAATACCCTCTGATTTGTAA
Found at i:49649866 original size:81 final size:81
Alignment explanation
Indices: 49649649--49649914 Score: 215
Period size: 81 Copynumber: 3.3 Consensus size: 81
49649639 TGTAGGGTAG
* * * * * * *
49649649 AATTACTAAAATACCCTTGGTTTACAAAATTACTAAATACCCCTGATTTGTAAAATTACCAAAAT
1 AATTACCAAAATACCCCTGATTTGCAAAATTACGAAATACCCTTGATTTGTAAAATTACTAAAAT
* * *
49649714 A--CTGCTGATTTTTGA
66 ACCCT-CTAATTTATAA
* * * * * * *
49649729 AATTAACGAAAT--CCCTCAACTTGTAAAATTACCGAAATACCCTTAACTTGTAAAATTACTAAA
1 AATTACCAAAATACCCCT-GATTTGCAAAATTA-CGAAATACCCTTGATTTGTAAAATTACTAAA
*
49649792 ATACCCTCT-ATTTGTAA
64 ATACCCTCTAATTTATAA
* *
49649809 AATTACCAAAATACCCCTGATTTGGAAAATTATCGAAATACCCTTGATTTGGAAAATTA-TAGAA
1 AATTACCAAAATACCCCTGATTTGCAAAATTA-CGAAATACCCTTGATTTGTAAAATTACTA-AA
*
49649873 ATACCCT-TAATTTACAA
64 ATACCCTCTAATTTATAA
*
49649890 AATTA-CAGAAATACCCTTGACTTTG
1 AATTACCA-AAATACCCCTGA-TTTG
49649915 AAATATTGCA
Statistics
Matches: 148, Mismatches: 28, Indels: 18
0.76 0.14 0.09
Matches are distributed among these distances:
78 3 0.02
79 9 0.06
80 59 0.40
81 67 0.45
82 10 0.07
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (81 bp):
AATTACCAAAATACCCCTGATTTGCAAAATTACGAAATACCCTTGATTTGTAAAATTACTAAAAT
ACCCTCTAATTTATAA
Found at i:49649906 original size:27 final size:27
Alignment explanation
Indices: 49649728--49649907 Score: 156
Period size: 27 Copynumber: 6.7 Consensus size: 27
49649718 CTGATTTTTG
* * *
49649728 AAATTA-ACGAAAT-CCCTCAACTTGTA
1 AAATTACA-GAAATACCCTTAATTTGGA
* * *
49649754 AAATTACCGAAATACCCTTAACTTGTA
1 AAATTACAGAAATACCCTTAATTTGGA
*
49649781 AAATTACTA-AAATACCCTCT-ATTTGTA
1 AAATTAC-AGAAATACCCT-TAATTTGGA
* *
49649808 AAATTACCA-AAATACCCCTGATTTGGA
1 AAATTA-CAGAAATACCCTTAATTTGGA
*
49649835 AAATTATC-GAAATACCCTTGATTTGGA
1 AAATTA-CAGAAATACCCTTAATTTGGA
* **
49649862 AAATTATAGAAATACCCTTAATTTACA
1 AAATTACAGAAATACCCTTAATTTGGA
49649889 AAATTACAGAAATACCCTT
1 AAATTACAGAAATACCCTT
49649908 GACTTTGAAA
Statistics
Matches: 133, Mismatches: 13, Indels: 15
0.83 0.08 0.09
Matches are distributed among these distances:
26 12 0.09
27 119 0.89
28 2 0.02
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACAGAAATACCCTTAATTTGGA
Found at i:49649964 original size:27 final size:28
Alignment explanation
Indices: 49649807--49649964 Score: 100
Period size: 27 Copynumber: 5.8 Consensus size: 28
49649797 CTCTATTTGT
* * * **
49649807 AAAATTACCAAAATACCCCT-GATTTGG
1 AAAATTATCGAAATACCCTTGGATTTAC
**
49649834 AAAATTATCGAAATACCCTT-GATTTGG
1 AAAATTATCGAAATACCCTTGGATTTAC
* *
49649861 AAAATTATAGAAATACCCTT-AATTTAC
1 AAAATTATCGAAATACCCTTGGATTTAC
49649888 AAAATTA-CAGAAATACCCTT-GACTTTGA-
1 AAAATTATC-GAAATACCCTTGGA-TTT-AC
* * *
49649916 AATATTGCAT--AAATACCATTGGCTTT-C
1 AAAATT--ATCGAAATACCCTTGGATTTAC
49649943 AAAATTATCGAAATACCCTTGG
1 AAAATTATCGAAATACCCTTGG
49649965 TTTGTAGATT
Statistics
Matches: 107, Mismatches: 14, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
25 2 0.02
27 82 0.77
28 20 0.19
29 2 0.02
30 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.31
Consensus pattern (28 bp):
AAAATTATCGAAATACCCTTGGATTTAC
Found at i:49650272 original size:41 final size:41
Alignment explanation
Indices: 49650227--49650305 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 41
49650217 AGAGGAAGAA
*
49650227 ATTGAGGATCGCATGGTTGCTTGACAACCGTGGATCCATCG
1 ATTGAGGATCGCATGATTGCTTGACAACCGTGGATCCATCG
*
49650268 ATTGAGGATCGCATGATTGCTTGACGACCGTGGATCCA
1 ATTGAGGATCGCATGATTGCTTGACAACCGTGGATCCA
49650306 CTGGTGGCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.27
Consensus pattern (41 bp):
ATTGAGGATCGCATGATTGCTTGACAACCGTGGATCCATCG
Found at i:49650921 original size:27 final size:26
Alignment explanation
Indices: 49650876--49650934 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
49650866 GTTATTGGTT
* *
49650876 TGGGCTAAGCCCAATTGAT-TCTGTTA
1 TGGGCTAAGCCCAAATGATAT-TGTAA
*
49650902 TGGGCTACGACCCAAATGATATTGTAA
1 TGGGCTAAG-CCCAAATGATATTGTAA
49650929 TGGGCT
1 TGGGCT
49650935 TTGGCCCACG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 8 0.29
27 19 0.68
28 1 0.04
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (26 bp):
TGGGCTAAGCCCAAATGATATTGTAA
Found at i:49664143 original size:14 final size:16
Alignment explanation
Indices: 49664124--49664156 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
49664114 ATGCCATCTT
49664124 ATTTATA-TATG-TAC
1 ATTTATATTATGTTAC
49664138 ATTTATATTATGTTAC
1 ATTTATATTATGTTAC
49664154 ATT
1 ATT
49664157 GCATGGGGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 4 0.24
16 6 0.35
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (16 bp):
ATTTATATTATGTTAC
Found at i:49680255 original size:13 final size:13
Alignment explanation
Indices: 49680237--49680266 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
49680227 GCTCAGCAGG
49680237 GACACGCCCGTGT
1 GACACGCCCGTGT
*
49680250 GACACGGCCGTGT
1 GACACGCCCGTGT
49680263 GACA
1 GACA
49680267 TGATTGCCAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.20, C:0.33, G:0.33, T:0.13
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:49687386 original size:25 final size:25
Alignment explanation
Indices: 49687357--49687404 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
49687347 TAGTTAGCTA
*
49687357 GACTTCTTAGTTTCATGCTTCTTGC
1 GACTTCTTAGTTTCATACTTCTTGC
49687382 GACTTCTTAGTTTCATACTTCTT
1 GACTTCTTAGTTTCATACTTCTT
49687405 AGTTTCATGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.15, C:0.23, G:0.12, T:0.50
Consensus pattern (25 bp):
GACTTCTTAGTTTCATACTTCTTGC
Found at i:49687403 original size:15 final size:15
Alignment explanation
Indices: 49687383--49687412 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
49687373 GCTTCTTGCG
49687383 ACTTCTTAGTTTCAT
1 ACTTCTTAGTTTCAT
49687398 ACTTCTTAGTTTCAT
1 ACTTCTTAGTTTCAT
49687413 GCTTTTTGCT
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:0.20, C:0.20, G:0.07, T:0.53
Consensus pattern (15 bp):
ACTTCTTAGTTTCAT
Found at i:49692944 original size:43 final size:43
Alignment explanation
Indices: 49692896--49692996 Score: 148
Period size: 43 Copynumber: 2.3 Consensus size: 43
49692886 CCGTCCGGGC
* * * *
49692896 TAAATCCTTTCTACACTGAGATTAATAGATTATCCATCTGGGT
1 TAAATCCTTTCTACACTAAGATCAATAGATTACCCACCTGGGT
*
49692939 TAAATCCTTTCTACACTAAGATCAATAGATTACCCGCCTGGGT
1 TAAATCCTTTCTACACTAAGATCAATAGATTACCCACCTGGGT
*
49692982 TAAATCCTTTTTACA
1 TAAATCCTTTCTACA
49692997 AAACATGCAG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.36
Consensus pattern (43 bp):
TAAATCCTTTCTACACTAAGATCAATAGATTACCCACCTGGGT
Found at i:49701435 original size:30 final size:30
Alignment explanation
Indices: 49701401--49701461 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
49701391 TCCTTAACTC
49701401 AAACTTTAGAAAAATTACAATTTTGCCCCT
1 AAACTTTAGAAAAATTACAATTTTGCCCCT
* * * * *
49701431 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTAGAAAAATTACAATTTTGCCCCT
49701461 A
1 A
49701462 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTAGAAAAATTACAATTTTGCCCCT
Found at i:49703244 original size:59 final size:59
Alignment explanation
Indices: 49703168--49703339 Score: 254
Period size: 59 Copynumber: 2.9 Consensus size: 59
49703158 ATTGTTGCGA
* * * *
49703168 TATTTATGGCTTTGTGCCACTACTCATGGCTTTGTGCCACTATTCATGGCTTTGTGCCAT
1 TATTGATGGC-TTGTGCCACTAATGATGGCTTTGTGCCACTATTCATGGCTTTGTGCCAC
*
49703228 TATTGATGGCTTGTGCCACTAATGATGGCTTTGTGCCACTATTCATGGCTTTATGCCAC
1 TATTGATGGCTTGTGCCACTAATGATGGCTTTGTGCCACTATTCATGGCTTTGTGCCAC
* * * *
49703287 TACTGATGGCTTGTGCCACTATTGATGCCTTTGTGCCACTATTGATGGCTTTG
1 TATTGATGGCTTGTGCCACTAATGATGGCTTTGTGCCACTATTCATGGCTTTG
49703340 AGCCGCTACT
Statistics
Matches: 102, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
59 93 0.91
60 9 0.09
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.40
Consensus pattern (59 bp):
TATTGATGGCTTGTGCCACTAATGATGGCTTTGTGCCACTATTCATGGCTTTGTGCCAC
Found at i:49703256 original size:39 final size:40
Alignment explanation
Indices: 49703168--49703354 Score: 243
Period size: 39 Copynumber: 4.7 Consensus size: 40
49703158 ATTGTTGCGA
* *
49703168 TATTTATGGCTTTGTGCCACTACTCATGGCTTTGTGCCAC
1 TATTGATGGCTTTGTGCCACTATTCATGGCTTTGTGCCAC
* * *
49703208 TATTCATGGCTTTGTGCCATTATTGATGGC-TTGTGCCAC
1 TATTGATGGCTTTGTGCCACTATTCATGGCTTTGTGCCAC
* *
49703247 TAATGATGGCTTTGTGCCACTATTCATGGCTTTATGCCAC
1 TATTGATGGCTTTGTGCCACTATTCATGGCTTTGTGCCAC
* * *
49703287 TACTGATGGC-TTGTGCCACTATTGATGCCTTTGTGCCAC
1 TATTGATGGCTTTGTGCCACTATTCATGGCTTTGTGCCAC
* * *
49703326 TATTGATGGCTTTGAGCCGCTACTCATGG
1 TATTGATGGCTTTGTGCCACTATTCATGG
49703355 ATTTTTACCA
Statistics
Matches: 126, Mismatches: 19, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
39 70 0.56
40 56 0.44
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (40 bp):
TATTGATGGCTTTGTGCCACTATTCATGGCTTTGTGCCAC
Found at i:49703321 original size:79 final size:79
Alignment explanation
Indices: 49703173--49703354 Score: 267
Period size: 79 Copynumber: 2.3 Consensus size: 79
49703163 TGCGATATTT
* * * *
49703173 ATGGCTTTGTGCCACTACTCATGGCTTTGTGCCACTATTCATGGCTTTGTGCCATTATTGATGGC
1 ATGGCTTTGTGCCACTACTCATGGCTTTATGCCACTACTCATGGCTTTGTGCCACTATTGATGCC
49703238 TTGTGCCACTAATG
66 TTGTGCCACTAATG
* *
49703252 ATGGCTTTGTGCCACTATTCATGGCTTTATGCCACTACTGATGGC-TTGTGCCACTATTGATGCC
1 ATGGCTTTGTGCCACTACTCATGGCTTTATGCCACTACTCATGGCTTTGTGCCACTATTGATGCC
*
49703316 TTTGTGCCACTATTG
66 -TTGTGCCACTAATG
* *
49703331 ATGGCTTTGAGCCGCTACTCATGG
1 ATGGCTTTGTGCCACTACTCATGG
49703355 ATTTTTACCA
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
78 17 0.18
79 75 0.82
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (79 bp):
ATGGCTTTGTGCCACTACTCATGGCTTTATGCCACTACTCATGGCTTTGTGCCACTATTGATGCC
TTGTGCCACTAATG
Found at i:49703354 original size:20 final size:20
Alignment explanation
Indices: 49703168--49703339 Score: 240
Period size: 20 Copynumber: 8.7 Consensus size: 20
49703158 ATTGTTGCGA
*
49703168 TATTTATGGCTTTGTGCCAC
1 TATTGATGGCTTTGTGCCAC
* *
49703188 TACTCATGGCTTTGTGCCAC
1 TATTGATGGCTTTGTGCCAC
* *
49703208 TATTCATGGCTTTGTGCCAT
1 TATTGATGGCTTTGTGCCAC
49703228 TATTGATGGC-TTGTGCCAC
1 TATTGATGGCTTTGTGCCAC
*
49703247 TAATGATGGCTTTGTGCCAC
1 TATTGATGGCTTTGTGCCAC
* *
49703267 TATTCATGGCTTTATGCCAC
1 TATTGATGGCTTTGTGCCAC
*
49703287 TACTGATGGC-TTGTGCCAC
1 TATTGATGGCTTTGTGCCAC
*
49703306 TATTGATGCCTTTGTGCCAC
1 TATTGATGGCTTTGTGCCAC
49703326 TATTGATGGCTTTG
1 TATTGATGGCTTTG
49703340 AGCCGCTACT
Statistics
Matches: 134, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
19 33 0.25
20 101 0.75
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.40
Consensus pattern (20 bp):
TATTGATGGCTTTGTGCCAC
Found at i:49704052 original size:24 final size:24
Alignment explanation
Indices: 49704025--49704122 Score: 160
Period size: 24 Copynumber: 4.0 Consensus size: 24
49704015 AAGGCTGTTA
49704025 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
49704049 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
49704073 GGAGAGGATTTAGGAGCTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
*
49704097 GGAGAAGTTTTAGGAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
49704122 G
1 G
49704123 AGCAAAAGTT
Statistics
Matches: 68, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
24 65 0.96
25 3 0.04
ACGTcount: A:0.36, C:0.05, G:0.38, T:0.21
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:49705550 original size:27 final size:25
Alignment explanation
Indices: 49705511--49705613 Score: 107
Period size: 27 Copynumber: 3.9 Consensus size: 25
49705501 GGAAGCGTCC
*
49705511 TGGTGGCTATGCCACAATTATCTGATT
1 TGGTGGCTCTGCCAC-ATTATCTG-TT
*
49705538 TGGTGGCTCTGCCACATACATCTGTT
1 TGGTGGCTCTGCCACAT-TATCTGTT
*
49705564 CTAGTGGCTCTGCCACAATTATCTGTTT
1 -TGGTGGCTCTGCCAC-ATTATCTG-TT
* *
49705592 TGGTGACTCTGTCACATTATCT
1 TGGTGGCTCTGCCACATTATCT
49705614 ATTCTGGCAG
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
26 11 0.17
27 50 0.77
28 4 0.06
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.38
Consensus pattern (25 bp):
TGGTGGCTCTGCCACATTATCTGTT
Found at i:49711569 original size:24 final size:24
Alignment explanation
Indices: 49711542--49711615 Score: 121
Period size: 24 Copynumber: 3.0 Consensus size: 24
49711532 AAGGCTGTCA
49711542 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
49711566 GGAGAGGATTTAGGAGCTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
49711590 GGAGAAGATTTAGGAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
49711615 G
1 G
49711616 AGCAAGAGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
24 42 0.93
25 3 0.07
ACGTcount: A:0.36, C:0.05, G:0.38, T:0.20
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:49713013 original size:27 final size:27
Alignment explanation
Indices: 49712973--49713086 Score: 142
Period size: 27 Copynumber: 4.2 Consensus size: 27
49712963 AGGAAGTGTC
* * *
49712973 CTGGTGGCTATGCCACA-ATTATCTGAT
1 CTGGTGGCTTTGCCACATA-CATCTGTT
49713000 CTGGTGGCTTTGCCACATACATCTGTT
1 CTGGTGGCTTTGCCACATACATCTGTT
49713027 CTGGTGGCTTTGCCACATACATCTGTT
1 CTGGTGGCTTTGCCACATACATCTGTT
* * *
49713054 CTGGTGGCTCTACCACA-ATTATCTGTT
1 CTGGTGGCTTTGCCACATA-CATCTGTT
49713081 CTGGTG
1 CTGGTG
49713087 ACTCTATCAC
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
26 1 0.01
27 77 0.97
28 1 0.01
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTTTGCCACATACATCTGTT
Found at i:49713091 original size:27 final size:26
Alignment explanation
Indices: 49712973--49713106 Score: 133
Period size: 27 Copynumber: 5.0 Consensus size: 26
49712963 AGGAAGTGTC
* * *
49712973 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTACCAC-ATTATCTGTT
* * *
49713000 CTGGTGGCTTTGCCACATACATCTGTT
1 CTGGTGGCTCTACCACAT-TATCTGTT
* * *
49713027 CTGGTGGCTTTGCCACATACATCTGTT
1 CTGGTGGCTCTACCACAT-TATCTGTT
49713054 CTGGTGGCTCTACCACAATTATCTGTT
1 CTGGTGGCTCTACCAC-ATTATCTGTT
* *
49713081 CTGGTGACTCTATCACATTATCTGTT
1 CTGGTGGCTCTACCACATTATCTGTT
49713107 ATGGCAGCCA
Statistics
Matches: 97, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 12 0.12
27 83 0.86
28 2 0.02
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTACCACATTATCTGTT
Found at i:49717054 original size:16 final size:16
Alignment explanation
Indices: 49717033--49717069 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
49717023 GTAGATCGGC
49717033 AAAAGCC-AAAATGTCG
1 AAAAGCCGAAAA-GTCG
49717049 AAAAGCCGAAAAGTCG
1 AAAAGCCGAAAAGTCG
49717065 AAAAG
1 AAAAG
49717070 ATGGCCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.54, C:0.16, G:0.22, T:0.08
Consensus pattern (16 bp):
AAAAGCCGAAAAGTCG
Found at i:49717825 original size:20 final size:20
Alignment explanation
Indices: 49717788--49717965 Score: 180
Period size: 20 Copynumber: 8.9 Consensus size: 20
49717778 ATTACTGCGA
* *
49717788 TATTTATGGCTTTCTGCCAC
1 TATTGATGGCTTTGTGCCAC
* * * *
49717808 TACTCATGGATTTGTGCCAT
1 TATTGATGGCTTTGTGCCAC
*
49717828 TATTGATGGC-TTATGCCAC
1 TATTGATGGCTTTGTGCCAC
* * *
49717847 TATTCAAGGCTTTATGCCAC
1 TATTGATGGCTTTGTGCCAC
*
49717867 TATTGATGGC-TTGTGCTAC
1 TATTGATGGCTTTGTGCCAC
49717886 TATTGATGGCTTTGTGCCAC
1 TATTGATGGCTTTGTGCCAC
* *
49717906 TATTGGTGGCTTTGTGCCGC
1 TATTGATGGCTTTGTGCCAC
* *
49717926 TACTGAATGGCTTTGAGCCAC
1 TATTG-ATGGCTTTGTGCCAC
* *
49717947 TACTCATGGCTTTGTGCCA
1 TATTGATGGCTTTGTGCCA
49717966 TATACTGATA
Statistics
Matches: 130, Mismatches: 25, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
19 32 0.25
20 82 0.63
21 16 0.12
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
TATTGATGGCTTTGTGCCAC
Found at i:49717848 original size:39 final size:39
Alignment explanation
Indices: 49717788--49717958 Score: 153
Period size: 39 Copynumber: 4.3 Consensus size: 39
49717778 ATTACTGCGA
* * * * *
49717788 TATTTATGGCTTTCTGCCACTACTCATGGATTTGTGCCAT
1 TATTGATGGC-TTATGCCACTATTCATGGCTTTGTGCCAC
* *
49717828 TATTGATGGCTTATGCCACTATTCAAGGCTTTATGCCAC
1 TATTGATGGCTTATGCCACTATTCATGGCTTTGTGCCAC
* * *
49717867 TATTGATGGCTTGTGCTACTATTGATGGCTTTGTGCCAC
1 TATTGATGGCTTATGCCACTATTCATGGCTTTGTGCCAC
* * * ** *
49717906 TATTGGTGGCTTTGTGCCGCTACTGAATGGCTTTGAGCCAC
1 TATTGATGGC-TTATGCCACTA-TTCATGGCTTTGTGCCAC
* *
49717947 TACTCATGGCTT
1 TATTGATGGCTT
49717959 TGTGCCATAT
Statistics
Matches: 108, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
39 66 0.61
40 20 0.19
41 22 0.20
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.39
Consensus pattern (39 bp):
TATTGATGGCTTATGCCACTATTCATGGCTTTGTGCCAC
Found at i:49717904 original size:59 final size:59
Alignment explanation
Indices: 49717795--49717965 Score: 173
Period size: 59 Copynumber: 2.9 Consensus size: 59
49717785 CGATATTTAT
* * * * *
49717795 GGCTTTCTGCCACTACTCATGGATTTGTGCCATTATTGATGGC-TTATGCCACTATTCAA
1 GGCTTTATGCCACTACTGATGG-CTTGTGCCACTATTGATGGCTTTGTGCCACTATTCAA
* * ***
49717854 GGCTTTATGCCACTATTGATGGCTTGTGCTACTATTGATGGCTTTGTGCCACTATTGGT
1 GGCTTTATGCCACTACTGATGGCTTGTGCCACTATTGATGGCTTTGTGCCACTATTCAA
* * * * *
49717913 GGCTTTGTGCCGCTACTGAATGGCTTTGAGCCACTACTCATGGCTTTGTGCCA
1 GGCTTTATGCCACTACTG-ATGGC-TTGTGCCACTATTGATGGCTTTGTGCCA
49717966 TATACTGATA
Statistics
Matches: 92, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
58 17 0.18
59 46 0.50
60 5 0.05
61 24 0.26
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (59 bp):
GGCTTTATGCCACTACTGATGGCTTGTGCCACTATTGATGGCTTTGTGCCACTATTCAA
Found at i:49723400 original size:24 final size:24
Alignment explanation
Indices: 49723372--49723418 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
49723362 TACCGATTCT
*
49723372 CAGCTCGT-ATGAGCTTACCAATTG
1 CAGCTCGTGA-GACCTTACCAATTG
49723396 CAGCTCGTGAGACCTTACCAATT
1 CAGCTCGTGAGACCTTACCAATT
49723419 CTCAACTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (24 bp):
CAGCTCGTGAGACCTTACCAATTG
Found at i:49729572 original size:21 final size:20
Alignment explanation
Indices: 49729548--49729593 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
49729538 TGTAACTTGG
* * *
49729548 TCACACAGTCGTGTGCCTCTT
1 TCACACAGCCATGTGACTC-T
49729569 TCACACAGCCATGTGACTCT
1 TCACACAGCCATGTGACTCT
49729589 TCACA
1 TCACA
49729594 TGGCCTAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.22, C:0.35, G:0.15, T:0.28
Consensus pattern (20 bp):
TCACACAGCCATGTGACTCT
Found at i:49731857 original size:43 final size:42
Alignment explanation
Indices: 49731700--49731877 Score: 164
Period size: 43 Copynumber: 4.2 Consensus size: 42
49731690 GATTGACGAG
* * * * *
49731700 ATGAGATTACATCTAAAACCATGTTTGGGACATTGGCATTGT
1 ATGAGATTACATGTAAGACCATATCTGGGACATTGGCATCGT
* * * * *
49731742 ATTGTGATTACGTGTAAGACCATGTTTTGGACATTGGCATCGTT
1 A-TGAGATTACATGTAAGACCATATCTGGGACATTGGCATCG-T
*
49731786 AT-ATGATTTCATGTAAGACCATGA-CTGGGACATTGGCATCGAT
1 ATGA-GATTACATGTAAGACCAT-ATCTGGGACATTGGCATCG-T
* * *
49731829 ATGAGATAACATGTAAGACCATATCTGGGATA-TGGCATTGT
1 ATGAGATTACATGTAAGACCATATCTGGGACATTGGCATCGT
49731870 ATGAGATT
1 ATGAGATT
49731878 TATGTGATAT
Statistics
Matches: 112, Mismatches: 18, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
41 8 0.07
42 9 0.08
43 92 0.82
44 3 0.03
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.33
Consensus pattern (42 bp):
ATGAGATTACATGTAAGACCATATCTGGGACATTGGCATCGT
Found at i:49734816 original size:47 final size:47
Alignment explanation
Indices: 49734756--49735159 Score: 639
Period size: 47 Copynumber: 8.6 Consensus size: 47
49734746 GATAATTGTG
* * * *
49734756 ATGTGAATGTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
49734803 ATGTGAACA-TGCATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
49734850 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCCATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
49734897 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
49734946 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
49734993 ATGTGGAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
49735040 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
49735087 ATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
49735134 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
49735160 TCCCGAAGGG
Statistics
Matches: 335, Mismatches: 18, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 289 0.86
49 45 0.13
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:49734923 original size:143 final size:141
Alignment explanation
Indices: 49734756--49735159 Score: 639
Period size: 143 Copynumber: 2.9 Consensus size: 141
49734746 GATAATTGTG
* * * * *
49734756 ATGTGAATGTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGCATATA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA-AGTGTATATA
49734820 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGG
65 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGG
49734885 CCCATGTGATGA
130 CCCATGTGATGA
49734897 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
49734962 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATGTGATAAGGCCTAATG
64 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
*
49735027 GCCGATGTGATGA
129 GCCCATGTGATGA
49735040 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * * * *
49735105 GTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
49735160 TCCCGAAGGG
Statistics
Matches: 244, Mismatches: 16, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
141 111 0.45
142 1 0.00
143 132 0.54
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (141 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGC
CCATGTGATGA
Found at i:49735084 original size:190 final size:188
Alignment explanation
Indices: 49734756--49735159 Score: 639
Period size: 190 Copynumber: 2.1 Consensus size: 188
49734746 GATAATTGTG
* *
49734756 ATGTGAATGTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATAT
49734821 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGC
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGC
* * *
49734886 CCATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
131 CCATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAACGTGATGA
* * * *
49734946 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAA-GTGTATATA
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT-GAACATGCATATA
*
49735010 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
65 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGG
* * * *
49735075 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGG
130 CCCATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGA
*
49735134 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
49735160 TCCCGAAGGG
Statistics
Matches: 198, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
188 55 0.28
190 140 0.71
191 3 0.02
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (188 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATAT
GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGC
CCATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGA
Found at i:49736652 original size:40 final size:40
Alignment explanation
Indices: 49736595--49737017 Score: 616
Period size: 40 Copynumber: 10.6 Consensus size: 40
49736585 GAGTGAAATG
* *
49736595 TCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
*
49736635 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
* *
49736675 TCCGGACAAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
*
49736715 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
49736755 TCCGGGCTAAG-TCTCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTTC-CGAAGAGCATTCGTGCTAGTGATGTA
*
49736795 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
* *
49736835 TCCGGGCTAAGTCCCGAAGAGCATTCGAGCTAGTGATGTA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
*
49736875 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
* * *
49736915 TCCGGACTAAGTTCCGAAGACCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
* * *** * * *
49736955 TTCGTGCTAAACCCCGAAGAGCATTCATGCTAGTGTTATA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
*
49736995 TCCGGGCT-AGGTCTCGAAGAGCA
1 TCCGGGCTAAGTTC-CGAAGAGCA
49737018 ATCATGCTGG
Statistics
Matches: 353, Mismatches: 27, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
39 4 0.01
40 348 0.99
41 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
Found at i:49741022 original size:47 final size:47
Alignment explanation
Indices: 49740962--49741316 Score: 552
Period size: 47 Copynumber: 7.6 Consensus size: 47
49740952 GATAATTGTG
* * * *
49740962 ATGTGAATGTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
49741009 ATGTGAACA-TGCATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
49741056 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
49741103 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
49741150 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
49741197 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
49741244 ATGTGAAAGTCTATATATGTGATAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
49741291 ATGTGAAAGTGTATGA-ATGTGATAAG
1 ATGTGAAAGTGTAT-ATATGTGATAAG
49741317 TCCCGAAGGG
Statistics
Matches: 290, Mismatches: 15, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 288 0.99
48 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:49749653 original size:96 final size:96
Alignment explanation
Indices: 49749405--49749723 Score: 318
Period size: 96 Copynumber: 3.3 Consensus size: 96
49749395 GGTAAATTAT
* * ** *
49749405 CGATGCCATGTCCTAGACATGGT-TATACACTGGCTCACATGTCGA-GGTCGATGCCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCT-TACACTGGCTCTCATAAC-ATAGTCGATGCCATGTCCCA
* ** * * *
49749468 AACATGGTCTTACACTAACTCTTGTCTCAATGC
64 AACATGGTCTTACACTAGCTCTCATATCGACGC
* * ** * *
49749501 CGATGCCTTGTCCCAGACATGGTCTTACACTGGCTGTCATAATGTAGCCGACGCCATGTCCCAAA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACATAGTCGATGCCATGTCCCAAA
* * *
49749566 CATGGTCTTACACTAGCACACATATCGACGT
66 CATGGTCTTACACTAGCTCTCATATCGACGC
* * * * *
49749597 TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACATTGTCGATGCCATTTTCTAAA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACATAGTCGATGCCATGTCCCAAA
* * **
49749662 CATGGTCTTACGCTGGCTCTCATATCGTGGC
66 CATGGTCTTACACTAGCTCTCATATCGACGC
* * *
49749693 CAACGCCATGTCCCACACATGGTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
49749724 AGCACACATA
Statistics
Matches: 179, Mismatches: 42, Indels: 4
0.80 0.19 0.02
Matches are distributed among these distances:
96 178 0.99
97 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (96 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACATAGTCGATGCCATGTCCCAAA
CATGGTCTTACACTAGCTCTCATATCGACGC
Found at i:49749669 original size:144 final size:144
Alignment explanation
Indices: 49749409--49749735 Score: 390
Period size: 144 Copynumber: 2.3 Consensus size: 144
49749399 AATTATCGAT
* * * * * *
49749409 GCCATGTCCTAGACATGGT-TATACACTGGCTCACATGTCGAGGTCGATGCCATGTCCCAAACAT
1 GCCATGTCCCAAACATGGTCT-TACACTAGCACACATATCGACGTCGATGCCATGTCCCAAACAT
** ** * *
49749473 GGTCTTACACTAACTCTTGTCTCAATGCCGATGCCTTGTCCCAGACATGGTCTTACACTGGCTGT
65 GGTCTTACACTAACTCTCATAACAATGCCGATGCCTTGTCCCAAACATGGTCTTACACTGGCTCT
*
49749538 CATAAT-GTAGCCGAC
130 CAT-ATCGTAGCCAAC
* *
49749553 GCCATGTCCCAAACATGGTCTTACACTAGCACACATATCGACGTTGATGCCATGTCCCAGACATG
1 GCCATGTCCCAAACATGGTCTTACACTAGCACACATATCGACGTCGATGCCATGTCCCAAACATG
** * * * * *
49749618 GTCTTACACTGGCTCTCATAACATTGTCGATGCCATT-TTCTAAACATGGTCTTACGCTGGCTCT
66 GTCTTACACTAACTCTCATAACAATGCCGATGCC-TTGTCCCAAACATGGTCTTACACTGGCTCT
*
49749682 CATATCGTGGCCAAC
130 CATATCGTAGCCAAC
*
49749697 GCCATGTCCCACACATGGTCTTACACTAGCACACATATC
1 GCCATGTCCCAAACATGGTCTTACACTAGCACACATATC
49749736 ACCCAATGTC
Statistics
Matches: 156, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
143 2 0.01
144 151 0.97
145 3 0.02
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (144 bp):
GCCATGTCCCAAACATGGTCTTACACTAGCACACATATCGACGTCGATGCCATGTCCCAAACATG
GTCTTACACTAACTCTCATAACAATGCCGATGCCTTGTCCCAAACATGGTCTTACACTGGCTCTC
ATATCGTAGCCAAC
Found at i:49749735 original size:48 final size:48
Alignment explanation
Indices: 49749409--49749723 Score: 235
Period size: 48 Copynumber: 6.6 Consensus size: 48
49749399 AATTATCGAT
* * * * * *
49749409 GCCATGTCCTAGACATGGT-TATACACTGGCTCACATGTCG-AGGTCGAT
1 GCCATGTCCCAAACATGGTCT-TACACTGGCTCTCATATCGTA-GCCGAC
** ** * * *
49749457 GCCATGTCCCAAACATGGTCTTACACTAACTCTTGTCTC-AATGCCGAT
1 GCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCGTA-GCCGAC
* * *
49749505 GCCTTGTCCCAGACATGGTCTTACACTGGCTGTCATAAT-GTAGCCGAC
1 GCCATGTCCCAAACATGGTCTTACACTGGCTCTCAT-ATCGTAGCCGAC
* * * ** *
49749553 GCCATGTCCCAAACATGGTCTTACACTAGCACACATATCG-ACGTTGAT
1 GCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCGTA-GCCGAC
* * * * * *
49749601 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACATTGTCGAT
1 GCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCGTAGCCGAC
* * * * * *
49749649 GCCATTTTCTAAACATGGTCTTACGCTGGCTCTCATATCGTGGCCAAC
1 GCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCGTAGCCGAC
*
49749697 GCCATGTCCCACACATGGTCTTACACT
1 GCCATGTCCCAAACATGGTCTTACACT
49749724 AGCACACATA
Statistics
Matches: 207, Mismatches: 53, Indels: 14
0.76 0.19 0.05
Matches are distributed among these distances:
47 3 0.01
48 201 0.97
49 3 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (48 bp):
GCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCGTAGCCGAC
Found at i:49750512 original size:31 final size:31
Alignment explanation
Indices: 49750458--49750536 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
49750448 TCAGTACAAT
* *
49750458 CTGGGCCAAAGCCCTATTCATAAATCATATCA
1 CTGGGCCGAAG-CCTTTTCATAAATCATATCA
49750490 CTGGGCCGAAGCCTTTTCATAAATCATATCA
1 CTGGGCCGAAGCCTTTTCATAAATCATATCA
49750521 CTGGGCCGAAGCCTTT
1 CTGGGCCGAAGCCTTT
49750537 ACTGTAAACG
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
31 35 0.78
32 10 0.22
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.27
Consensus pattern (31 bp):
CTGGGCCGAAGCCTTTTCATAAATCATATCA
Found at i:49750826 original size:26 final size:26
Alignment explanation
Indices: 49750758--49750929 Score: 240
Period size: 26 Copynumber: 6.7 Consensus size: 26
49750748 TTTTAATAAT
**
49750758 TGGGGCA-AAGCCCTTTTCGGTAAAC
1 TGGGGCATAAGCCCTTTTCAATAAAC
49750783 TGGGGCA-AAGCCCTTTTCAATAAAC
1 TGGGGCATAAGCCCTTTTCAATAAAC
* * **
49750808 TGAGGCATAAGCTCTTTTCGGTAAAC
1 TGGGGCATAAGCCCTTTTCAATAAAC
*
49750834 CGGGGCATAAGCCCTTTTCAATAAAC
1 TGGGGCATAAGCCCTTTTCAATAAAC
* **
49750860 TTGGGCATAAGCCCTTTTCGGTAAAC
1 TGGGGCATAAGCCCTTTTCAATAAAC
49750886 TGGGGCATAAGCCCTTTTCAATAAAC
1 TGGGGCATAAGCCCTTTTCAATAAAC
49750912 TGGGGCATAAGCCCTTTT
1 TGGGGCATAAGCCCTTTT
49750930 GCACTTCCTC
Statistics
Matches: 128, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
25 29 0.23
26 99 0.77
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
TGGGGCATAAGCCCTTTTCAATAAAC
Found at i:49750860 original size:52 final size:51
Alignment explanation
Indices: 49750760--49750929 Score: 281
Period size: 52 Copynumber: 3.3 Consensus size: 51
49750750 TTAATAATTG
49750760 GGGCA-AAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCAATAAACT
1 GGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAACT
* *
49750809 GAGGCATAAGCTCTTTTCGGTAAACCGGGGCATAAGCCCTTTTCAATAAACTT
1 G-GGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAAC-T
49750862 GGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAACT
1 GGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAACT
49750913 GGGGCATAAGCCCTTTT
1 -GGGCATAAGCCCTTTT
49750930 GCACTTCCTC
Statistics
Matches: 112, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
49 1 0.01
50 4 0.04
51 24 0.21
52 81 0.72
53 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (51 bp):
GGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAACT
Found at i:49751751 original size:27 final size:27
Alignment explanation
Indices: 49751717--49751793 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
49751707 GGGCACATTC
*
49751717 GTCA-TTTACCATACAGTGGTATTACA
1 GTCACTTTACCATACAGGGGTATTACA
* *
49751743 GTCACTTTACCTTACAGGGGCT-TTACG
1 GTCACTTTACCATACAGGGG-TATTACA
* *
49751770 GTCTCTTTACCCTACAGGGGTATT
1 GTCACTTTACCATACAGGGGTATT
49751794 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
26 5 0.12
27 37 0.86
28 1 0.02
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.35
Consensus pattern (27 bp):
GTCACTTTACCATACAGGGGTATTACA
Found at i:49751938 original size:27 final size:25
Alignment explanation
Indices: 49751894--49752144 Score: 155
Period size: 27 Copynumber: 9.4 Consensus size: 25
49751884 TTTTAGAAAG
49751894 TCAAGGGTATTTCT-GTAACTTTGTAAA
1 TCAAGGGTATTT-TGGTAA-TTT-TAAA
49751921 TCAAGGGTATTTTGGTAATTTTACAAA
1 TCAAGGGTATTTTGGTAATTTT--AAA
* * *
49751948 TTGAA-GGTATTTCGGTAATTTGACAA
1 -TCAAGGGTATTTTGGTAATTTTA-AA
* *
49751974 ACTAGTGGTATTTTGGTAATTTTACAA
1 TCAAG-GGTATTTTGGTAATTTTA-AA
* *
49752001 ACTAGGGGTATTTTGGTAATTTTACAAA
1 TC-AAGGGTATTTTGGTAATTTT--AAA
** **
49752029 TTGAGGGTATTTCAGTAATTTTATAAA
1 TCAAGGGTATTTTGGTAA-TTT-TAAA
* * *
49752056 CCAAGGGTATTTTAGCAATTTTACAA
1 TCAAGGGTATTTTGGTAATTTTA-AA
* * *
49752082 ACTAGGGTATTTTGGTAATTTTACTGA
1 TCAAGGGTATTTTGGTAATTTTA--AA
*
49752109 TCGAGGGTATTTTGGTAATTTTGTAAA
1 TCAAGGGTATTTTGGTAA-TTT-TAAA
49752136 TCAAGGGTA
1 TCAAGGGTA
49752145 AAACAGTAAT
Statistics
Matches: 177, Mismatches: 31, Indels: 32
0.74 0.13 0.13
Matches are distributed among these distances:
25 5 0.03
26 30 0.17
27 126 0.71
28 12 0.07
29 4 0.02
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.41
Consensus pattern (25 bp):
TCAAGGGTATTTTGGTAATTTTAAA
Found at i:49751985 original size:54 final size:53
Alignment explanation
Indices: 49751924--49752130 Score: 229
Period size: 54 Copynumber: 3.9 Consensus size: 53
49751914 TTGTAAATCA
* * *
49751924 AGGGTATTTTGGTAATTTTACAAATTGAAGGTATTTCGGTAATTTGACAAACT
1 AGGGTATTTTGGTAATTTTACAAATCGAAGGTATTTTGGTAATTTTACAAACT
* * *
49751977 AGTGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAATT
1 AG-GGTATTTTGGTAATTTTACAAATCGA-AGGTATTTTGGTAATTTTACAAACT
** * * * *
49752031 GAGGGTATTTCAGTAATTTTATAAA-CCAAGGGTATTTTAGCAATTTTACAAACT
1 -AGGGTATTTTGGTAATTTTACAAATCGAA-GGTATTTTGGTAATTTTACAAACT
** *
49752085 AGGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTT
1 AGGGTATTTTGGTAATTTTACAAATCGAAGGTATTTTGGTAATTTT
49752131 GTAAATCAAG
Statistics
Matches: 126, Mismatches: 23, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
53 37 0.29
54 87 0.69
55 2 0.02
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (53 bp):
AGGGTATTTTGGTAATTTTACAAATCGAAGGTATTTTGGTAATTTTACAAACT
Found at i:49752016 original size:81 final size:80
Alignment explanation
Indices: 49751924--49752129 Score: 288
Period size: 81 Copynumber: 2.6 Consensus size: 80
49751914 TTGTAAATCA
* *
49751924 AGGGTATTTTGGTAATTTTACAAATTGAAGGTATTTCGGTAATTTGACAAA-CTAGTGGTATTTT
1 AGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTGACAAACCAAG-GGTATTTT
* *
49751988 GGTAATTTTACAAACT
65 AGCAATTTTACAAACT
* * *
49752004 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTTATAAACCAAGGGTATTTT
1 A-GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTGACAAACCAAGGGTATTTT
49752069 AGCAATTTTACAAACT
65 AGCAATTTTACAAACT
** * *
49752085 AGGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTT
1 AGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTT
49752130 TGTAAATCAA
Statistics
Matches: 112, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
80 40 0.36
81 69 0.62
82 3 0.03
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (80 bp):
AGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTGACAAACCAAGGGTATTTTA
GCAATTTTACAAACT
Found at i:49752166 original size:54 final size:55
Alignment explanation
Indices: 49752108--49752240 Score: 169
Period size: 54 Copynumber: 2.4 Consensus size: 55
49752098 AATTTTACTG
* * *
49752108 ATCGAGGGTATTTTGGTAATTTTGTAAATCAAGGGTAAAAC-AGTAATTCTATAA
1 ATCGAGGGTAATTTGGTAATTTTATAAATCAAGGGTAAAACAAGTAATTCAATAA
*** * *
49752162 ATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAAGTAATTCAATAA
1 ATCGAGGGTAATTTGGTAATTTTATAAATCAAGGGTAAAACAAGTAATTCAATAA
* *
49752217 ATCGAAGGTACTTTGGTAATTTTA
1 ATCGAGGGTAATTTGGTAATTTTA
49752241 CAATTTGAGG
Statistics
Matches: 64, Mismatches: 14, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
54 34 0.53
55 30 0.47
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.32
Consensus pattern (55 bp):
ATCGAGGGTAATTTGGTAATTTTATAAATCAAGGGTAAAACAAGTAATTCAATAA
Found at i:49752217 original size:28 final size:27
Alignment explanation
Indices: 49752123--49752226 Score: 145
Period size: 27 Copynumber: 3.8 Consensus size: 27
49752113 GGGTATTTTG
* * *
49752123 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACA
*
49752150 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACA
49752177 GTAATTCTATAAATCGAGGGTAAAACAA
1 GTAATTCTATAAATCGAGGGTAAAAC-A
* *
49752205 GTAATTCAATAAATCGAAGGTA
1 GTAATTCTATAAATCGAGGGTA
49752227 CTTTGGTAAT
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
27 49 0.71
28 20 0.29
ACGTcount: A:0.44, C:0.10, G:0.19, T:0.27
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACA
Found at i:49754536 original size:40 final size:40
Alignment explanation
Indices: 49754473--49754733 Score: 393
Period size: 40 Copynumber: 6.6 Consensus size: 40
49754463 ATTCGGATTG
*
49754473 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
49754512 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
49754552 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
49754592 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
49754632 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
49754672 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* **
49754712 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
49754734 TACTTGGTTT
Statistics
Matches: 207, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 29 0.14
40 178 0.86
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:49757340 original size:29 final size:29
Alignment explanation
Indices: 49757298--49757355 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
49757288 TAATGGCAGA
49757298 AAGTTTCAAGCTTCAAAGACCCCTTTCTT
1 AAGTTTCAAGCTTCAAAGACCCCTTTCTT
49757327 AAGTTTCAAGCTTCAAAGACCCCTTTCTT
1 AAGTTTCAAGCTTCAAAGACCCCTTTCTT
49757356 GCTAAAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.34
Consensus pattern (29 bp):
AAGTTTCAAGCTTCAAAGACCCCTTTCTT
Found at i:49758980 original size:13 final size:13
Alignment explanation
Indices: 49758962--49758986 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49758952 TATGGTCTAC
49758962 GATTTCATGAAAT
1 GATTTCATGAAAT
49758975 GATTTCATGAAA
1 GATTTCATGAAA
49758987 ATTTGGTTCG
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:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (13 bp):
GATTTCATGAAAT
Found at i:49764196 original size:193 final size:192
Alignment explanation
Indices: 49763867--49764251 Score: 707
Period size: 193 Copynumber: 2.0 Consensus size: 192
49763857 CAAGTTGGCA
49763867 CAAGTAAAGCTGGAAAATGACTGGGTAAATAGCTTTATTTTTGGCCACACAGGTAAAGACACGGC
1 CAAGTAAAGCTGGAAAATGACTGGGTAAATAGCTTTATTTTTGGCCACACAGGTAAAGACACGGC
49763932 CATGTGTCTCAGCCATGTGGACTTCACAGCCTCAGGCACGGGCGTGAGCCCAGGGCATCTGAAGT
66 CATGTGTCTCAGCCATGTGGACTTCACAGCCTCAGGCACGGGCGTGAGCCCAGGGCATCTGAAGT
*
49763997 CCACACCTATTTTATGAAAATCTTCAAAAATTAAATCACCCACATGGGCTAAGTCACACGGCC
131 CCACACCTATTTTATGAAAATCTTCAAAAATTAAATCACCCACATGGCCTAAG-CACACGGCC
* *
49764060 CAAGTAAAGGTGGAAAATGACTTGGTAAATAGCTTTATTTTTGGCCACACAGGTAAAGACACGGC
1 CAAGTAAAGCTGGAAAATGACTGGGTAAATAGCTTTATTTTTGGCCACACAGGTAAAGACACGGC
* *
49764125 CGTGTGTCTCAGCCATGTGGACTTCACAGCCTCAGGCACGGGCGTGAGCCCAGGGCATGTGAAGT
66 CATGTGTCTCAGCCATGTGGACTTCACAGCCTCAGGCACGGGCGTGAGCCCAGGGCATCTGAAGT
*
49764190 CCACACCTATTTTATGAAAATCTTCAAAAATTAAATCGCCCACATGGCCTAAGCACACGGCC
131 CCACACCTATTTTATGAAAATCTTCAAAAATTAAATCACCCACATGGCCTAAGCACACGGCC
49764252 GTGTGAGTTA
Statistics
Matches: 186, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
192 9 0.05
193 177 0.95
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (192 bp):
CAAGTAAAGCTGGAAAATGACTGGGTAAATAGCTTTATTTTTGGCCACACAGGTAAAGACACGGC
CATGTGTCTCAGCCATGTGGACTTCACAGCCTCAGGCACGGGCGTGAGCCCAGGGCATCTGAAGT
CCACACCTATTTTATGAAAATCTTCAAAAATTAAATCACCCACATGGCCTAAGCACACGGCC
Found at i:49768874 original size:45 final size:45
Alignment explanation
Indices: 49768811--49768908 Score: 146
Period size: 45 Copynumber: 2.2 Consensus size: 45
49768801 TAAATAGGAA
* *
49768811 ATATGTG--ATCTGAACTCATTGCGTTGTGGTCTGAGTTCATGAT
1 ATATGTGACATCTGAACTCATTGAGTTCTGGTCTGAGTTCATGAT
*
49768854 ATATGTGACATCTGAGCTCATTGAGTTCTGGTCTGAGTTCATGAT
1 ATATGTGACATCTGAACTCATTGAGTTCTGGTCTGAGTTCATGAT
*
49768899 GTATGTGACA
1 ATATGTGACA
49768909 CATATTTTGG
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
43 7 0.14
45 42 0.86
ACGTcount: A:0.22, C:0.14, G:0.26, T:0.38
Consensus pattern (45 bp):
ATATGTGACATCTGAACTCATTGAGTTCTGGTCTGAGTTCATGAT
Found at i:49775669 original size:21 final size:21
Alignment explanation
Indices: 49775630--49775670 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
49775620 GGTACAATGG
*
49775630 ATATTGTTTTCTTATGTTAAA
1 ATATTGTTTTATTATGTTAAA
49775651 ATATGTGTTTTATTA-GTTAA
1 ATAT-TGTTTTATTATGTTAA
49775671 TAAAAAATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.56
Consensus pattern (21 bp):
ATATTGTTTTATTATGTTAAA
Found at i:49781018 original size:21 final size:22
Alignment explanation
Indices: 49780992--49781032 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
49780982 TACTAGATAC
49780992 AGGGGC-ACATGCCCGTGTGGG
1 AGGGGCAACATGCCCGTGTGGG
49781013 AGGGGCAACATGCCCGTGTG
1 AGGGGCAACATGCCCGTGTG
49781033 ACCAATTCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.17, C:0.24, G:0.44, T:0.15
Consensus pattern (22 bp):
AGGGGCAACATGCCCGTGTGGG
Found at i:49782336 original size:46 final size:45
Alignment explanation
Indices: 49782247--49782405 Score: 182
Period size: 46 Copynumber: 3.5 Consensus size: 45
49782237 GCTAATTCCG
* *
49782247 TGTCCCAGACATGGTCTTACACTGAC-ACATCTCGTAGCCGATGCA
1 TGTCCCAGACATGGTCTTACATTGACTACGTCTCG-AGCCGATGCA
49782292 TGTCCCAGACAT-GTCTTACATTGACTTACGTCTCGAGGCCGATGCA
1 TGTCCCAGACATGGTCTTACATTGAC-TACGTCTCGA-GCCGATGCA
* *
49782338 TGTCCCAGACAT-GTCTTACACTAGCACT-CGTCTCAATGCCGATGCCA
1 TGTCCCAGACATGGTCTTACA-TTG-ACTACGTCTCGA-GCCGATG-CA
*
49782385 TGTCCTAGACATGGTCTTACA
1 TGTCCCAGACATGGTCTTACA
49782406 CTGGCTCTCA
Statistics
Matches: 101, Mismatches: 6, Indels: 11
0.86 0.05 0.09
Matches are distributed among these distances:
44 12 0.12
45 13 0.13
46 50 0.50
47 16 0.16
48 10 0.10
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.27
Consensus pattern (45 bp):
TGTCCCAGACATGGTCTTACATTGACTACGTCTCGAGCCGATGCA
Found at i:49790401 original size:19 final size:20
Alignment explanation
Indices: 49790377--49790417 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
49790367 ATGTTATTTG
49790377 ATATATGCA-TAATTTATAT
1 ATATATGCAGTAATTTATAT
* *
49790396 ATATATGGAGTATTTTATAT
1 ATATATGCAGTAATTTATAT
49790416 AT
1 AT
49790418 GCAAAATGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.39, C:0.02, G:0.10, T:0.49
Consensus pattern (20 bp):
ATATATGCAGTAATTTATAT
Found at i:49790510 original size:17 final size:18
Alignment explanation
Indices: 49790488--49790522 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
49790478 TGACATTGAA
49790488 GTGTTTT-AGTGAAAACC
1 GTGTTTTCAGTGAAAACC
*
49790505 GTGTTTTCATTGAAAACC
1 GTGTTTTCAGTGAAAACC
49790523 CTTCTTAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (18 bp):
GTGTTTTCAGTGAAAACC
Found at i:49791652 original size:29 final size:28
Alignment explanation
Indices: 49791595--49791691 Score: 126
Period size: 29 Copynumber: 3.4 Consensus size: 28
49791585 TACCTGTATC
*
49791595 TGGCCCATTAAGCCC-AATCA-TATTCATA
1 TGGCCCATTAGGCCCAAATCACT-TT-ATA
49791623 TGGCCCATTAGGCCCAAATCACTTGTATA
1 TGGCCCATTAGGCCCAAATCACTT-TATA
49791652 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCAC-TTTATA
*
49791681 TGGCCCGTTAG
1 TGGCCCATTAG
49791692 ACCTAGTCAC
Statistics
Matches: 63, Mismatches: 2, Indels: 7
0.88 0.03 0.10
Matches are distributed among these distances:
28 14 0.22
29 45 0.71
30 4 0.06
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAAATCACTTTATA
Found at i:49800108 original size:18 final size:17
Alignment explanation
Indices: 49800085--49800149 Score: 69
Period size: 18 Copynumber: 3.6 Consensus size: 17
49800075 TCTGCTACCC
49800085 CTTTTTCCTCACATGCAT
1 CTTTTTCCTCAC-TGCAT
49800103 CTTTTTCCTC-CTCGACAT
1 CTTTTTCCTCACT-G-CAT
*
49800121 CTTTTTCCTCACCTACAT
1 CTTTTTCCTCA-CTGCAT
*
49800139 CTTCTTCCTCA
1 CTTTTTCCTCA
49800150 TCTGTGCCTC
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
16 1 0.02
17 2 0.05
18 36 0.88
20 2 0.05
ACGTcount: A:0.14, C:0.38, G:0.03, T:0.45
Consensus pattern (17 bp):
CTTTTTCCTCACTGCAT
Found at i:49804700 original size:11 final size:11
Alignment explanation
Indices: 49804684--49804708 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
49804674 GATGGCATTA
49804684 ATATGTATGTT
1 ATATGTATGTT
49804695 ATATGTATGTT
1 ATATGTATGTT
49804706 ATA
1 ATA
49804709 ATATTAAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (11 bp):
ATATGTATGTT
Found at i:49805701 original size:27 final size:27
Alignment explanation
Indices: 49805671--49805724 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
49805661 TCATACAACC
* *
49805671 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
49805698 CATGTAACAATAATTTTCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
49805725 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.41
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:49806057 original size:31 final size:30
Alignment explanation
Indices: 49806022--49806079 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
49806012 AAAATCATAT
*
49806022 TTTGTAAAAAATTACAATTTTGCCCCTAAAC
1 TTTGT-AAAAATTACAATTTTACCCCTAAAC
* *
49806053 TTTGTCAAAATTACATTTTTACCCCTA
1 TTTGTAAAAATTACAATTTTACCCCTA
49806080 GGCTCGTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.34, C:0.21, G:0.05, T:0.40
Consensus pattern (30 bp):
TTTGTAAAAATTACAATTTTACCCCTAAAC
Found at i:49811529 original size:27 final size:27
Alignment explanation
Indices: 49811497--49811550 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
49811487 TTATACAACC
* *
49811497 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
49811524 CATGTAACAATAATTTTCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
49811551 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.41
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:49811882 original size:30 final size:30
Alignment explanation
Indices: 49811848--49811904 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
49811838 AAAATCATAT
49811848 TTTGTAAAAATTACAATTTTGCCCCTAAAC
1 TTTGTAAAAATTACAATTTTGCCCCTAAAC
* *
49811878 TTTGTCAAAATTACATTTTTGCCCCTA
1 TTTGTAAAAATTACAATTTTGCCCCTA
49811905 GGCTAGTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.40
Consensus pattern (30 bp):
TTTGTAAAAATTACAATTTTGCCCCTAAAC
Found at i:49816924 original size:51 final size:50
Alignment explanation
Indices: 49816845--49816992 Score: 174
Period size: 51 Copynumber: 3.0 Consensus size: 50
49816835 CACACTTGTA
* * * *
49816845 GACAAGGTTATCTGGCACGCATAGTAGCCTGCACTTAGTACTACACACAT
1 GACAAAGTTATCTGGTACGAATAGTAGCCTGCACTTAGTACTACACACAC
* * **
49816895 GATCAAAGTTATCGGGTACGAATAATAGCCTGCACTTAGTACTACACATGC
1 GA-CAAAGTTATCTGGTACGAATAGTAGCCTGCACTTAGTACTACACACAC
* *
49816946 GACCAA-TTATCTGGTAC-ACGTAGTAGCCTGCACTTAGTACTACACAC
1 GACAAAGTTATCTGGTACGA-ATAGTAGCCTGCACTTAGTACTACACAC
49816993 GTGACCTCAG
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
48 1 0.01
49 35 0.42
50 5 0.06
51 42 0.51
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (50 bp):
GACAAAGTTATCTGGTACGAATAGTAGCCTGCACTTAGTACTACACACAC
Found at i:49817275 original size:27 final size:27
Alignment explanation
Indices: 49817245--49817301 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
49817235 TCATACAACC
* *
49817245 CATGTAATAGTAATTTA-ACATTCAATT
1 CATGTAACAATAATTTACA-ATTCAATT
*
49817272 CATGTAACAATAATTTTCAATTCAATT
1 CATGTAACAATAATTTACAATTCAATT
49817299 CAT
1 CAT
49817302 CAACGGATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 25 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.40
Consensus pattern (27 bp):
CATGTAACAATAATTTACAATTCAATT
Found at i:49817686 original size:46 final size:47
Alignment explanation
Indices: 49817579--49817798 Score: 209
Period size: 46 Copynumber: 4.7 Consensus size: 47
49817569 CGGCCACATT
*
49817579 ATGAGAGCCAGTGTAAGACCATGTCTAGGACATAGCATCGGCATTGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTAGGACATAGCATC-GCCTTGAG
* * *
49817627 ATGAGGGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTTGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTAGGACATAGCATC-GCCTTGAG
* *
49817673 ATGTA-AGCCAGTGTAAGA-CATGTCTAGGACATA-CATCGGCTACGAG
1 ATG-AGAGCCAGTGTAAGACCATGTCTAGGACATAGCATCGCCT-TGAG
* * * * * * *
49817719 ATGATAGTCAATGTAAGACCATGTCTGGGACATGGCATCGACTCGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTAGGACATAGCATCGCCTTGAG
* * *
49817766 AT-ACGAACCAGTATAAGACCGTGTCTAGGACAT
1 ATGA-GAGCCAGTGTAAGACCATGTCTAGGACAT
49817799 GGAATAGGCA
Statistics
Matches: 143, Mismatches: 22, Indels: 15
0.79 0.12 0.08
Matches are distributed among these distances:
45 4 0.03
46 61 0.43
47 55 0.38
48 23 0.16
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (47 bp):
ATGAGAGCCAGTGTAAGACCATGTCTAGGACATAGCATCGCCTTGAG
Found at i:49817749 original size:93 final size:95
Alignment explanation
Indices: 49817584--49817798 Score: 257
Period size: 93 Copynumber: 2.3 Consensus size: 95
49817574 ACATTATGAG
* * *
49817584 AGCCAGTGTAAGACCATGTCTAGGACATAGCATCGGCATTGAGATGAGGGCTAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTAGGACATAGCATCGGCATCGAGATGAAGGCTAATGTAAGACATG
49817649 TCTGGGACAT-GCATCAGCCTTGAGATGTA
66 TCTGGGACATGGCATCAGCCTTGAGATGTA
*
49817678 AGCCAGTGTAAGA-CATGTCTAGGACATA-CATCGGC-TACGAGATGATAGTC-AATGTAAGACC
1 AGCCAGTGTAAGACCATGTCTAGGACATAGCATCGGCAT-CGAGATGA-AGGCTAATGTAAGA-C
* *
49817739 ATGTCTGGGACATGGCATC-GACTCGAGATACG-A
63 ATGTCTGGGACATGGCATCAGCCTTGAGAT--GTA
* *
49817772 A-CCAGTATAAGACCGTGTCTAGGACAT
1 AGCCAGTGTAAGACCATGTCTAGGACAT
49817799 GGAATAGGCA
Statistics
Matches: 106, Mismatches: 8, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
91 1 0.01
92 22 0.21
93 49 0.46
94 33 0.31
95 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (95 bp):
AGCCAGTGTAAGACCATGTCTAGGACATAGCATCGGCATCGAGATGAAGGCTAATGTAAGACATG
TCTGGGACATGGCATCAGCCTTGAGATGTA
Found at i:49821695 original size:78 final size:78
Alignment explanation
Indices: 49821566--49821748 Score: 321
Period size: 78 Copynumber: 2.3 Consensus size: 78
49821556 CATGGTATTT
* *
49821566 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGTTGGGAATATATCCGGACATGAGGTCCGC
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTAGGAATATATCCGGACATGAGGTCCGC
49821631 AGGCTATATGCTG
66 AGGCTATATGCTG
* *
49821644 GAAATATATCCAGACATGAAGTCTGCAGGCTATATGCTAGGAATATATCCGGACATGAGGTCCGC
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTAGGAATATATCCGGACATGAGGTCCGC
49821709 AGGCTATATGCTG
66 AGGCTATATGCTG
*
49821722 GAAATATATCCGGACTTGAAGTCCGCA
1 GAAATATATCCGGACATGAAGTCCGCA
49821749 AGCCACGTGC
Statistics
Matches: 98, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
78 98 1.00
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (78 bp):
GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTAGGAATATATCCGGACATGAGGTCCGC
AGGCTATATGCTG
Found at i:49821763 original size:39 final size:39
Alignment explanation
Indices: 49821566--49821748 Score: 287
Period size: 39 Copynumber: 4.7 Consensus size: 39
49821556 CATGGTATTT
*
49821566 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGTTG
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
* *
49821605 GGAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
* *
49821644 GAAATATATCCAGACATGAAGTCTGCAGGCTATATGCTAG
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCT-G
*
49821684 G-AATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
*
49821722 GAAATATATCCGGACTTGAAGTCCGCA
1 GAAATATATCCGGACATGAAGTCCGCA
49821749 AGCCACGTGC
Statistics
Matches: 130, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
38 2 0.02
39 126 0.97
40 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (39 bp):
GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
Found at i:49831488 original size:47 final size:47
Alignment explanation
Indices: 49831436--49831747 Score: 464
Period size: 47 Copynumber: 6.6 Consensus size: 47
49831426 GATAATTGTG
* *
49831436 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
49831483 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
49831530 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
49831579 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
49831628 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
49831675 ATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCGATGTGATGA
*
49831722 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
49831748 TCCCGAAGGG
Statistics
Matches: 246, Mismatches: 15, Indels: 7
0.92 0.06 0.03
Matches are distributed among these distances:
46 2 0.01
47 148 0.60
48 2 0.01
49 94 0.38
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:49831506 original size:96 final size:94
Alignment explanation
Indices: 49831436--49831747 Score: 439
Period size: 96 Copynumber: 3.3 Consensus size: 94
49831426 GATAATTGTG
49831436 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
49831501 GTGATAAGGCCG-AATGGCCAATGTGATGA
66 GTGATAAGG-CGTAATGGCCAATGTGATGA
49831530 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
* *
49831595 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
62 ATATGTGATAAGGCGTAATGGCCAATGTGATGA
* * *
49831628 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * *
49831693 GTGACAGAGCCG-AGTGGCCAACGTGATGG
66 GTGATA-AGGCGTAATGGCCAATGTGATGA
* * *
49831722 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAATGTATATATATGTGATAAG
49831748 TCCCGAAGGG
Statistics
Matches: 198, Mismatches: 14, Indels: 12
0.88 0.06 0.05
Matches are distributed among these distances:
94 54 0.27
95 5 0.03
96 99 0.50
97 3 0.02
98 37 0.19
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (94 bp):
ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCGTAATGGCCAATGTGATGA
Found at i:49834113 original size:78 final size:78
Alignment explanation
Indices: 49833918--49834103 Score: 327
Period size: 78 Copynumber: 2.4 Consensus size: 78
49833908 CTTGGTATTT
* * *
49833918 GAAATATATCCGGACATGAAGTCCGTAGGCTATATGTTGGGAATATATCCGGACATGAGGTCCGC
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTGGGAATATATCCAGACATGAGGTCCGC
49833983 AGGCTATATGCTG
66 AGGCTATATGCTG
*
49833996 GAAATATATCCGGACATGAATTCCGCAGGCTATATGCTGGGAATATATCCAGACATGAGGTCCGC
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTGGGAATATATCCAGACATGAGGTCCGC
49834061 AGGCTATATGCTG
66 AGGCTATATGCTG
*
49834074 GAAATATATCCGGACTTGAAGTCCGCAGGC
1 GAAATATATCCGGACATGAAGTCCGCAGGC
49834104 CACGTGCTGG
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
78 102 1.00
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (78 bp):
GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTGGGAATATATCCAGACATGAGGTCCGC
AGGCTATATGCTG
Found at i:49834115 original size:39 final size:39
Alignment explanation
Indices: 49833918--49834103 Score: 291
Period size: 39 Copynumber: 4.8 Consensus size: 39
49833908 CTTGGTATTT
* *
49833918 GAAATATATCCGGACATGAAGTCCGTAGGCTATATGTTG
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
* *
49833957 GGAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
*
49833996 GAAATATATCCGGACATGAATTCCGCAGGCTATATGCTG
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
* * *
49834035 GGAATATATCCAGACATGAGGTCCGCAGGCTATATGCTG
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
*
49834074 GAAATATATCCGGACTTGAAGTCCGCAGGC
1 GAAATATATCCGGACATGAAGTCCGCAGGC
49834104 CACGTGCTGG
Statistics
Matches: 132, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 132 1.00
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (39 bp):
GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
Found at i:49838750 original size:39 final size:39
Alignment explanation
Indices: 49838706--49838826 Score: 215
Period size: 39 Copynumber: 3.1 Consensus size: 39
49838696 AATTATGTTA
*
49838706 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
49838745 CCAGCATGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
49838784 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
49838823 CCAG
1 CCAG
49838827 TGTCTTGCTT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 78 1.00
ACGTcount: A:0.23, C:0.31, G:0.25, T:0.21
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:49840915 original size:39 final size:40
Alignment explanation
Indices: 49840714--49840931 Score: 230
Period size: 40 Copynumber: 5.5 Consensus size: 40
49840704 TGGATGATAA
* * *
49840714 CCGGGCTAAGTCCTGAAAGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
** * *
49840755 CCGAACTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
49840795 CTGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
49840835 CCGGGCTAAGTCCCGAAGGCAATGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
49840875 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
49840914 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
49840932 TACTTGGCTT
Statistics
Matches: 151, Mismatches: 23, Indels: 9
0.83 0.13 0.05
Matches are distributed among these distances:
38 15 0.10
39 15 0.10
40 97 0.64
41 20 0.13
42 4 0.03
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:49846705 original size:38 final size:38
Alignment explanation
Indices: 49846654--49846729 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
49846644 CTCTCAAAGC
*
49846654 AAACAAAGATTTTCTGCTTAGTGCATCTGTGACCACAT
1 AAACAAAGATTTTCTGCTTAGTGCATCTATGACCACAT
*
49846692 AAACAAGGATTTTCTGCTTAGTGCATCTATGACCACAT
1 AAACAAAGATTTTCTGCTTAGTGCATCTATGACCACAT
49846730 TCACCTTTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (38 bp):
AAACAAAGATTTTCTGCTTAGTGCATCTATGACCACAT
Found at i:49849027 original size:42 final size:43
Alignment explanation
Indices: 49848923--49849071 Score: 160
Period size: 42 Copynumber: 3.5 Consensus size: 43
49848913 TGAGATATCA
* *
49848923 TGTAAGACCGTGTCTGGGACATAGGCCTCGATTTGAGATTTACG
1 TGTAAGACCATGTCTGGGACATAGGCATCGATTT-AGATTTACG
*
49848967 TGTAAGACCATGTTTGGGACATAGGCATCGTATTT-GATTT-CG
1 TGTAAGACCATGTCTGGGACATAGGCATCG-ATTTAGATTTACG
* * * * *
49849009 TGTAAGACCCTGTCTGGGACAAAGGCATCGATACT-GAATTACA
1 TGTAAGACCATGTCTGGGACATAGGCATCGAT-TTAGATTTACG
* *
49849052 TGTAAGACCACGTCTAGGAC
1 TGTAAGACCATGTCTGGGAC
49849072 GTCAGCATTG
Statistics
Matches: 90, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
41 2 0.02
42 34 0.38
43 23 0.26
44 27 0.30
45 4 0.04
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATAGGCATCGATTTAGATTTACG
Found at i:49859932 original size:43 final size:43
Alignment explanation
Indices: 49859842--49859987 Score: 188
Period size: 43 Copynumber: 3.4 Consensus size: 43
49859832 TTGAATTTGA
* *
49859842 GGCACTAAGTGTGCGATA-AATGAAATAG-TTGCGGCTAATTAATT
1 GGCACTAAGTGTGCGATACAAT--TATAGCCT-CGGCTAATTAATT
*
49859886 GGCACTAAATGTGCGATACAATTATAGCCTCGGCTAATTAATT
1 GGCACTAAGTGTGCGATACAATTATAGCCTCGGCTAATTAATT
* * * *
49859929 GGCACTAAGTGTGCGATACAATTATAGCTTCAGCTAAGTAATC
1 GGCACTAAGTGTGCGATACAATTATAGCCTCGGCTAATTAATT
49859972 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
49859988 GTTCGTTGAA
Statistics
Matches: 92, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
43 71 0.77
44 18 0.20
45 3 0.03
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.28
Consensus pattern (43 bp):
GGCACTAAGTGTGCGATACAATTATAGCCTCGGCTAATTAATT
Found at i:49862945 original size:20 final size:21
Alignment explanation
Indices: 49862928--49862980 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
49862918 TTTTATAATT
49862928 AAATCA-TAAAAATTATAAAG
1 AAATCATTAAAAATTATAAAG
* *
49862948 AAATCATTAAAACTTTTTAAA-
1 AAATCATTAAAA-ATTATAAAG
49862969 AAATCATTAAAA
1 AAATCATTAAAA
49862981 GTTTAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 6 0.21
21 17 0.59
22 6 0.21
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.30
Consensus pattern (21 bp):
AAATCATTAAAAATTATAAAG
Found at i:49862990 original size:21 final size:21
Alignment explanation
Indices: 49862948--49862990 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
49862938 AATTATAAAG
**
49862948 AAATCATTAAAACTTTTTAAA
1 AAATCATTAAAACTTTAAAAA
*
49862969 AAATCATTAAAAGTTTAAAAA
1 AAATCATTAAAACTTTAAAAA
49862990 A
1 A
49862991 TATAAAAGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (21 bp):
AAATCATTAAAACTTTAAAAA
Found at i:49862996 original size:17 final size:17
Alignment explanation
Indices: 49862963--49863014 Score: 68
Period size: 17 Copynumber: 2.9 Consensus size: 17
49862953 ATTAAAACTT
49862963 TTTAAAAAATCATTAAAAG
1 TTTAAAAAAT-A-TAAAAG
49862982 TTTAAAAAATATAAAAG
1 TTTAAAAAATATAAAAG
**
49862999 TGCAAAAAATATAAAA
1 TTTAAAAAATATAAAA
49863015 AAATTATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
17 20 0.65
18 1 0.03
19 10 0.32
ACGTcount: A:0.63, C:0.04, G:0.06, T:0.27
Consensus pattern (17 bp):
TTTAAAAAATATAAAAG
Found at i:49863119 original size:42 final size:42
Alignment explanation
Indices: 49863072--49863176 Score: 115
Period size: 42 Copynumber: 2.5 Consensus size: 42
49863062 TTAAAAATAG
*
49863072 AAAAAAAATA-AAAAAAATTGAAATTTATTAAAA-TTATTAAA
1 AAAAAAAATATAAAAAAATAGAAA-TTATTAAAATTTATTAAA
* *
49863113 ATAAAAAAATATAGAAATATAGAAATTATTAAAATTTTATTAAA
1 A-AAAAAAATATAAAAAAATAGAAATTATTAAAA-TTTATTAAA
* *
49863157 AAATAAAATAGTACAAAAAT
1 AAAAAAAATA-TAAAAAAAT
49863177 CTAAATAATA
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
41 1 0.02
42 18 0.34
43 18 0.34
44 16 0.30
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.30
Consensus pattern (42 bp):
AAAAAAAATATAAAAAAATAGAAATTATTAAAATTTATTAAA
Found at i:49863120 original size:16 final size:17
Alignment explanation
Indices: 49863101--49863147 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
49863091 GAAATTTATT
49863101 AAAATTATTAAAATA-A
1 AAAATTATTAAAATATA
*
49863117 AAAAATA-TAGAAATATA
1 AAAATTATTA-AAATATA
*
49863134 GAAATTATTAAAAT
1 AAAATTATTAAAAT
49863148 TTTATTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 2 0.08
16 11 0.44
17 10 0.40
18 2 0.08
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (17 bp):
AAAATTATTAAAATATA
Found at i:49863139 original size:33 final size:33
Alignment explanation
Indices: 49863076--49863147 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 33
49863066 AAATAGAAAA
*
49863076 AAAATAAAAAAAATTGAAATTTATTAAAATTATT
1 AAAATAAAAAAAATAGAAA-TTATTAAAATTATT
49863110 AAAATAAAAAAATATAGAAA-TA-TAGAAATTATT
1 AAAATAAAAAAA-ATAGAAATTATTA-AAATTATT
49863143 AAAAT
1 AAAAT
49863148 TTTATTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
32 2 0.06
33 15 0.43
34 12 0.34
35 6 0.17
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (33 bp):
AAAATAAAAAAAATAGAAATTATTAAAATTATT
Found at i:49863836 original size:28 final size:28
Alignment explanation
Indices: 49863794--49863865 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
49863784 GATTTTTTAA
* * *
49863794 AAATATTGTTAATAAATTTCTATA-TTTT
1 AAATATTTTTCATAAATTT-TACACTTTT
*
49863822 AAATATTTTTCATAACTTTTACACTTTT
1 AAATATTTTTCATAAATTTTACACTTTT
49863850 -AATA-TTTTCATAAATT
1 AAATATTTTTCATAAATT
49863866 ATATAATGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
26 11 0.29
27 7 0.18
28 20 0.53
ACGTcount: A:0.38, C:0.08, G:0.01, T:0.53
Consensus pattern (28 bp):
AAATATTTTTCATAAATTTTACACTTTT
Found at i:49863886 original size:19 final size:20
Alignment explanation
Indices: 49863849--49863893 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
49863839 TTTACACTTT
49863849 TAATATTTTCATAAATTATA
1 TAATATTTTCATAAATTATA
* *
49863869 TAATGTTTT-ATAATTTATA
1 TAATATTTTCATAAATTATA
49863888 TAATAT
1 TAATAT
49863894 ATATAATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (20 bp):
TAATATTTTCATAAATTATA
Found at i:49863889 original size:9 final size:9
Alignment explanation
Indices: 49863859--49863906 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
49863849 TAATATTTTC
*
49863859 ATAAATTAT
1 ATAATTTAT
*
49863868 ATAATGTTTT
1 ATAAT-TTAT
49863878 ATAATTTAT
1 ATAATTTAT
*
49863887 ATAATATAT
1 ATAATTTAT
*
49863896 ATAATATAT
1 ATAATTTAT
49863905 AT
1 AT
49863907 TTTGTTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
9 26 0.76
10 8 0.24
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (9 bp):
ATAATTTAT
Found at i:49864071 original size:30 final size:30
Alignment explanation
Indices: 49864035--49864093 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
49864025 TTATGATTTT
49864035 AATCATAAAATACTAGATTTCGCTATATGA
1 AATCATAAAATACTAGATTTCGCTATATGA
49864065 AATCATAAAATACTAGATTTCGCTATATG
1 AATCATAAAATACTAGATTTCGCTATATG
49864094 GCACAATCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.34
Consensus pattern (30 bp):
AATCATAAAATACTAGATTTCGCTATATGA
Found at i:49870156 original size:77 final size:77
Alignment explanation
Indices: 49869958--49870252 Score: 256
Period size: 77 Copynumber: 3.7 Consensus size: 77
49869948 ATTCCGCTTG
* * * * * * * * *
49869958 TAAACAAAAAATCAACTAAACAATTCTATTTCAGGATCTTATTCCTGTCGTTTAACAGGATTTGT
1 TAAACAGAAAATC-ATTGAACAATTTTGTTTCAGGATTTTATTCATGTCGTTTAACAAGACTTG-
*
49870023 TTTTTCTTTTTTTTCGTTT
64 ---TTC-ATTTTTT-GTTT
* * * *
49870042 CAAACAAAAAATCATTGAACAATTCTGTTTTAGGATTTTATTCATG-CTGTTTAACAAGACTTGT
1 TAAACAGAAAATCATTGAACAATTTTGTTTCAGGATTTTATTCATGTC-GTTTAACAAGACTTGT
49870106 TC-TTTTTTGTTT
65 TCATTTTTTGTTT
** * * *
49870118 TAAATGGAAAATCTATTGAACAATTTTGTTTCAAGATTTTATTCCTGTCGTTTAACAAGATTTGT
1 TAAACAGAAAATC-ATTGAACAATTTTGTTTCAGGATTTTATTCATGTCGTTTAACAAGACTTGT
49870183 TCAATTTTTTGTTT
65 TC-ATTTTTTGTTT
* * *
49870197 TAAACAG-AAATCAATTGAATAATTTTGTTTCAGGATTCTT-TTCCTGTCGTTCAACA
1 TAAACAGAAAATC-ATTGAACAATTTTGTTTCAGGATT-TTATTCATGTCGTTTAACA
49870253 GAATTTATTC
Statistics
Matches: 181, Mismatches: 24, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
76 13 0.07
77 52 0.29
78 43 0.24
79 20 0.11
82 1 0.01
83 40 0.22
84 12 0.07
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.45
Consensus pattern (77 bp):
TAAACAGAAAATCATTGAACAATTTTGTTTCAGGATTTTATTCATGTCGTTTAACAAGACTTGTT
CATTTTTTGTTT
Found at i:49870227 original size:78 final size:77
Alignment explanation
Indices: 49869976--49870269 Score: 283
Period size: 78 Copynumber: 3.7 Consensus size: 77
49869966 AAATCAACTA
* * * * **
49869976 AACAATTCTATTTCAGGATCTTATTCCTGTCGTTTAACAGGATTTGTTTTTTCTTTTTTTTCGTT
1 AACAATTTTGTTTCAGGATTTTATTCCTGTCGTTTAACAAGATTTG----TTCAATTTTTT-GTT
* *
49870041 TCAAACAAAAAATCATTG
61 TTAAAC-AGAAATCATTG
* * * *
49870059 AACAATTCTGTTTTAGGATTTTATTCATG-CTGTTTAACAAGACTTGTTC--TTTTTTGTTTTAA
1 AACAATTTTGTTTCAGGATTTTATTCCTGTC-GTTTAACAAGATTTGTTCAATTTTTTGTTTTAA
**
49870121 ATGGAAAATCTATTG
65 ACAG-AAATC-ATTG
*
49870136 AACAATTTTGTTTCAAGATTTTATTCCTGTCGTTTAACAAGATTTGTTCAATTTTTTGTTTTAAA
1 AACAATTTTGTTTCAGGATTTTATTCCTGTCGTTTAACAAGATTTGTTCAATTTTTTGTTTTAAA
49870201 CAGAAATCAATTG
66 CAGAAATC-ATTG
* * *
49870214 AATAATTTTGTTTCAGGATTCTT-TTCCTGTCGTTCAAC-AGAATTTATTCAATTTTT
1 AACAATTTTGTTTCAGGATT-TTATTCCTGTCGTTTAACAAG-ATTTGTTCAATTTTT
49870270 GTTGTCAACA
Statistics
Matches: 181, Mismatches: 22, Indels: 21
0.81 0.10 0.09
Matches are distributed among these distances:
76 12 0.07
77 54 0.30
78 56 0.31
79 20 0.11
82 1 0.01
83 38 0.21
ACGTcount: A:0.28, C:0.13, G:0.12, T:0.48
Consensus pattern (77 bp):
AACAATTTTGTTTCAGGATTTTATTCCTGTCGTTTAACAAGATTTGTTCAATTTTTTGTTTTAAA
CAGAAATCATTG
Found at i:49875959 original size:15 final size:16
Alignment explanation
Indices: 49875929--49875959 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
49875919 ATGTTGTAAG
49875929 GGATTGAAGTGGAGAT
1 GGATTGAAGTGGAGAT
49875945 GGATTGAAG-GGAGAT
1 GGATTGAAGTGGAGAT
49875960 ATATATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.32, C:0.00, G:0.45, T:0.23
Consensus pattern (16 bp):
GGATTGAAGTGGAGAT
Found at i:49876066 original size:16 final size:16
Alignment explanation
Indices: 49876045--49876098 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
49876035 TTTCGGTTAG
49876045 ATTAGCTCTTATGAGC
1 ATTAGCTCTTATGAGC
*
49876061 ATTAGCGTGTTATGATAAG-
1 ATTAGC-TCTTATG---AGC
49876080 ATTAGCTCTTATGAGC
1 ATTAGCTCTTATGAGC
49876096 ATT
1 ATT
49876099 GGCGTGTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
15 2 0.06
16 9 0.29
17 6 0.19
18 6 0.19
19 6 0.19
20 2 0.06
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.39
Consensus pattern (16 bp):
ATTAGCTCTTATGAGC
Found at i:49876075 original size:17 final size:17
Alignment explanation
Indices: 49876053--49876109 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 17
49876043 AGATTAGCTC
49876053 TTATGAGCATTAGCGTG
1 TTATGAGCATTAGCGTG
*
49876070 TTATGATAAG-ATTAGC-TC
1 TTATG---AGCATTAGCGTG
*
49876088 TTATGAGCATTGGCGTG
1 TTATGAGCATTAGCGTG
49876105 TTATG
1 TTATG
49876110 GTTGGATTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
15 2 0.06
16 5 0.16
17 11 0.34
18 6 0.19
19 6 0.19
20 2 0.06
ACGTcount: A:0.25, C:0.11, G:0.26, T:0.39
Consensus pattern (17 bp):
TTATGAGCATTAGCGTG
Found at i:49876118 original size:35 final size:35
Alignment explanation
Indices: 49876028--49876185 Score: 156
Period size: 35 Copynumber: 4.5 Consensus size: 35
49876018 ACTCTCTGTC
*
49876028 TGGCGTGTT-TCGGTTAGATTAGCTCTTATGAGCAT
1 TGGCGTGTTAT-GGTTGGATTAGCTCTTATGAGCAT
* * **
49876063 TAGCGTGTTATGATAAGATTAGCTCTTATGAGCAT
1 TGGCGTGTTATGGTTGGATTAGCTCTTATGAGCAT
* * *
49876098 TGGCGTGTTATGGTTGGATTAGTTCTTATAAGCAC
1 TGGCGTGTTATGGTTGGATTAGCTCTTATGAGCAT
** * * * *
49876133 TGTTGTGTTTTGGTTGAATTAGATCTTAGGAGCAT
1 TGGCGTGTTATGGTTGGATTAGCTCTTATGAGCAT
* *
49876168 TAGCATGTTATGGTTGGA
1 TGGCGTGTTATGGTTGGA
49876186 CTGACGATGT
Statistics
Matches: 98, Mismatches: 24, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
35 97 0.99
36 1 0.01
ACGTcount: A:0.22, C:0.10, G:0.28, T:0.41
Consensus pattern (35 bp):
TGGCGTGTTATGGTTGGATTAGCTCTTATGAGCAT
Found at i:49885242 original size:19 final size:19
Alignment explanation
Indices: 49885220--49885268 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 19
49885210 GTTAGCCCCC
49885220 TTCTCAAAAAAATTAAAAA
1 TTCTCAAAAAAATTAAAAA
** *
49885239 TTCTCATTAAAACTTTGAAAA
1 TTCTCA--AAAAAATTAAAAA
49885260 TTCTCAAAA
1 TTCTCAAAA
49885269 TTTTTAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 9 0.36
21 16 0.64
ACGTcount: A:0.51, C:0.14, G:0.02, T:0.33
Consensus pattern (19 bp):
TTCTCAAAAAAATTAAAAA
Found at i:49886416 original size:20 final size:20
Alignment explanation
Indices: 49886391--49886429 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
49886381 AGGGACTAAA
*
49886391 ATGAAAAGTTTTAAAATTTG
1 ATGAAAAATTTTAAAATTTG
49886411 ATGAAAAATTTTAAAATTT
1 ATGAAAAATTTTAAAATTT
49886430 TATTAATACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (20 bp):
ATGAAAAATTTTAAAATTTG
Found at i:49887115 original size:57 final size:58
Alignment explanation
Indices: 49886976--49887125 Score: 153
Period size: 57 Copynumber: 2.6 Consensus size: 58
49886966 TATTGACCTT
* * * * * *
49886976 GTTATAGAAAGGATTTAGCCCGGACGGGTAATCCTGATATAATACCTCTCGAGCATTC
1 GTTATATAAAGGATTTAGCCTGGACTGGTAATCCTGATAGAATACCTCTCAAGCATAC
* * * * * *
49887034 GTTATGAT-TAGGGTTTAGCTTGGACTGGTAATCCTGATCGAGCT-CCT-TTAAGCATAC
1 GTTAT-ATAAAGGATTTAGCCTGGACTGGTAATCCTGATAGA-ATACCTCTCAAGCATAC
49887091 GTTATATAAAGGATTTAGCCTGGACTGGTAATCCT
1 GTTATATAAAGGATTTAGCCTGGACTGGTAATCCT
49887126 ATTATACGAT
Statistics
Matches: 74, Mismatches: 15, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
56 2 0.03
57 36 0.49
58 34 0.46
59 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (58 bp):
GTTATATAAAGGATTTAGCCTGGACTGGTAATCCTGATAGAATACCTCTCAAGCATAC
Found at i:49888671 original size:93 final size:93
Alignment explanation
Indices: 49888546--49888715 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 93
49888536 CCCATAAGCA
* *
49888546 AACTCGGAATCAACTCAATGAGCTCGGGCATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
1 AACTCGGAATCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
49888611 GAGCTCGGATGCCTAATTACATCTCTCG
66 GAGCTCGGATGCCTAATTACATCTCTCG
* * *
49888639 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGAATCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
*
49888704 GAGTTCGGATGC
66 GAGCTCGGATGC
49888716 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
AACTCGGAATCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
GAGCTCGGATGCCTAATTACATCTCTCG
Found at i:49888712 original size:46 final size:46
Alignment explanation
Indices: 49888537--49888712 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
49888527 TGTAACCCGC
** * * *
49888537 CCATAAGCAAACTCGGAATCAACTCAATGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
49888583 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGG--ATGC-CTAATT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC--A-T
* *** *
49888629 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
49888676 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
49888713 TGCTCAACCA
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:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:49888731 original size:46 final size:45
Alignment explanation
Indices: 49888588--49888731 Score: 127
Period size: 46 Copynumber: 3.1 Consensus size: 45
49888578 CGCATCCATA
* * *
49888588 AGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAATTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-AA--CCATC-CT
* *
49888637 --CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCA-AC-CATCC-T
49888680 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCATCCT
49888727 AGTGA
1 AGTGA
49888732 CATGTCACTT
Statistics
Matches: 78, Mismatches: 7, Indels: 23
0.72 0.06 0.21
Matches are distributed among these distances:
42 1 0.01
43 6 0.08
44 1 0.01
46 34 0.44
47 28 0.36
48 5 0.06
49 1 0.01
50 2 0.03
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCCT
Found at i:49894382 original size:22 final size:22
Alignment explanation
Indices: 49894354--49894399 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
49894344 TTGCATGTTT
49894354 TAGGCTCAGAGACTAAATTGAA
1 TAGGCTCAGAGACTAAATTGAA
49894376 TAGGCTCAGAGACTAAATTGAA
1 TAGGCTCAGAGACTAAATTGAA
49894398 TA
1 TA
49894400 AAAGTAAAAC
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:0.41, C:0.13, G:0.22, T:0.24
Consensus pattern (22 bp):
TAGGCTCAGAGACTAAATTGAA
Found at i:49917030 original size:46 final size:46
Alignment explanation
Indices: 49916980--49917155 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 46
49916970 TGGTTGAGCA
*
49916980 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* ** * * * * *
49917026 TCCGAACTCATTGAGTTGAGTCCGAGTT-TGTGAAATGTA-ACTAGACA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGA-ACG
49917073 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
49917119 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49917156 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
45 1 0.01
46 70 0.66
47 34 0.32
48 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:49917137 original size:93 final size:93
Alignment explanation
Indices: 49916978--49917146 Score: 302
Period size: 93 Copynumber: 1.8 Consensus size: 93
49916968 GATGGTTGAG
* *
49916978 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGTT
49917043 GAGTCCGAGTTTGTGAAATGTAACTAGA
66 GAGTCCGAGTTTGTGAAATGTAACTAGA
* *
49917071 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGTT
49917136 GAGTCCGAGTT
66 GAGTCCGAGTT
49917147 CACTTATGGG
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGTT
GAGTCCGAGTTTGTGAAATGTAACTAGA
Found at i:49921356 original size:47 final size:47
Alignment explanation
Indices: 49921297--49921812 Score: 879
Period size: 47 Copynumber: 10.9 Consensus size: 47
49921287 TAGTATGGCG
*
49921297 TAATGGCCGATGTGATGAATATGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
49921344 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
49921391 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
49921438 CAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTTATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
49921485 CAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
49921532 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
49921579 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
*
49921628 TAATGACCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
49921675 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
49921722 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * *
49921769 GAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
49921813 TCCCGAAGGG
Statistics
Matches: 448, Mismatches: 19, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 402 0.90
49 46 0.10
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:49921987 original size:37 final size:37
Alignment explanation
Indices: 49921931--49922009 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
49921921 CCGAGCTCTA
* * *
49921931 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
49921968 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
49922005 AAGAC
1 AAGAC
49922010 TTCGTAATAA
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:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Done.