Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 163 of 325
Found at i:50198475 original size:2 final size:2
Alignment explanation
Indices: 50198468--50198492 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
50198458 GAATGGAATG
50198468 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
50198493 CATGTATGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:50198673 original size:28 final size:28
Alignment explanation
Indices: 50198608--50198706 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
50198598 CATGAGATTG
* * *
50198608 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
50198637 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
50198665 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
50198693 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
50198707 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.71
29 17 0.27
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:50202656 original size:79 final size:80
Alignment explanation
Indices: 50202573--50202721 Score: 196
Period size: 79 Copynumber: 1.9 Consensus size: 80
50202563 GGTTATAGTG
* * * *
50202573 ACTCGCACGAATGCCTTTGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAAATGCCTTCGGG-C
1 ACTCGCACGAATGCC-TTCGGATCCTAACCCGGATATAGTAACTTAGCACAAA-GCCTTCGGGAC
50202635 TTAGCCCAGATTTATTA
64 TTAGCCCAGATTTATTA
** *
50202652 ACTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
50202717 AGCCC
66 AGCCC
50202722 GGACATCATT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
78 5 0.08
79 40 0.67
80 15 0.25
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
AGCCCAGATTTATTA
Found at i:50202724 original size:40 final size:39
Alignment explanation
Indices: 50202533--50202724 Score: 145
Period size: 40 Copynumber: 4.8 Consensus size: 39
50202523 GGATATAACG
* ** * *
50202533 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * * *
50202573 ACTCGCACGAATGCCTTTGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
50202613 ACTTGCACAAATGCCTTCGGG-CTTAGCCCAGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
50202652 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
50202692 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
50202725 CATCATTCGA
Statistics
Matches: 117, Mismatches: 28, Indels: 14
0.74 0.18 0.09
Matches are distributed among these distances:
38 2 0.02
39 29 0.25
40 76 0.65
41 10 0.09
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:50203883 original size:12 final size:12
Alignment explanation
Indices: 50203866--50203900 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
50203856 TATAGCCAAA
50203866 CCTCTTCCTAAT
1 CCTCTTCCTAAT
*
50203878 CCTCTTCC-AAA
1 CCTCTTCCTAAT
50203889 CCTCTTCCTAAT
1 CCTCTTCCTAAT
50203901 TCGAAACAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.20, C:0.43, G:0.00, T:0.37
Consensus pattern (12 bp):
CCTCTTCCTAAT
Found at i:50203894 original size:11 final size:11
Alignment explanation
Indices: 50203861--50203896 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
50203851 GCAAGTATAG
50203861 CCAAACCTCTT
1 CCAAACCTCTT
*
50203872 CCTAATCCTCTT
1 CC-AAACCTCTT
50203884 CCAAACCTCTT
1 CCAAACCTCTT
50203895 CC
1 CC
50203897 TAATTCGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.22, C:0.47, G:0.00, T:0.31
Consensus pattern (11 bp):
CCAAACCTCTT
Found at i:50205445 original size:28 final size:28
Alignment explanation
Indices: 50205407--50205480 Score: 105
Period size: 28 Copynumber: 2.6 Consensus size: 28
50205397 GTTCAAATTG
* * *
50205407 TATAGCACTAAGTGTGTGAGTTTGATTA
1 TATAGCACTAAGTGTGCGAGTTCGACTA
50205435 TATAGCACTAAGTGTGCGAGTTCGACTA
1 TATAGCACTAAGTGTGCGAGTTCGACTA
50205463 T-TAAGCACTAAGTGTGCG
1 TAT-AGCACTAAGTGTGCG
50205481 GGCTTATTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
27 1 0.02
28 41 0.98
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (28 bp):
TATAGCACTAAGTGTGCGAGTTCGACTA
Found at i:50209745 original size:32 final size:32
Alignment explanation
Indices: 50209716--50209780 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
50209706 CGAAAATTTC
*
50209716 ACACAAACATATTATCATGCTATGGAAATTAA
1 ACACAAACATATTATCATGCTATAGAAATTAA
*
50209748 ACACAAACATATTATCATGCTGTAGAAATTAA
1 ACACAAACATATTATCATGCTATAGAAATTAA
50209780 A
1 A
50209781 ATAATCATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.48, C:0.15, G:0.09, T:0.28
Consensus pattern (32 bp):
ACACAAACATATTATCATGCTATAGAAATTAA
Found at i:50216927 original size:21 final size:20
Alignment explanation
Indices: 50216898--50216938 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 20
50216888 ACAAAACTTG
50216898 TATAACTATCATCAAACATT
1 TATAACTATCATCAAACATT
50216918 TATAATCTATCATCAAACATT
1 TATAA-CTATCATCAAACATT
50216939 AAATATCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.37
Consensus pattern (20 bp):
TATAACTATCATCAAACATT
Found at i:50221009 original size:11 final size:10
Alignment explanation
Indices: 50220959--50221009 Score: 54
Period size: 10 Copynumber: 5.3 Consensus size: 10
50220949 TTTTATTATT
50220959 ATATGTAA-A
1 ATATGTAATA
*
50220968 A-AGGTAATA
1 ATATGTAATA
50220977 ATATGTAA-A
1 ATATGTAATA
*
50220986 TTATGTAATA
1 ATATGTAATA
50220996 ATATGTATATA
1 ATATGTA-ATA
50221007 ATA
1 ATA
50221010 AAACATATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
8 5 0.15
9 11 0.32
10 12 0.35
11 6 0.18
ACGTcount: A:0.51, C:0.00, G:0.12, T:0.37
Consensus pattern (10 bp):
ATATGTAATA
Found at i:50222004 original size:56 final size:56
Alignment explanation
Indices: 50221934--50222050 Score: 191
Period size: 56 Copynumber: 2.1 Consensus size: 56
50221924 TTTTTAAGAA
*
50221934 TAAGACCACGTTTTATACGTTGGCATCAATATGTGACT-TCGATATATGCGTGCGAG
1 TAAGACCACATTTTATACGTTGGCATCAATATGTGACTCT-GATATATGCGTGCGAG
* *
50221990 TAAGACCACATTTTATACGTTGGCATCGATATGTGACTCTGATATATGTGTGCGAG
1 TAAGACCACATTTTATACGTTGGCATCAATATGTGACTCTGATATATGCGTGCGAG
50222046 TAAGA
1 TAAGA
50222051 TCCTGTCTGG
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
56 56 0.98
57 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.32
Consensus pattern (56 bp):
TAAGACCACATTTTATACGTTGGCATCAATATGTGACTCTGATATATGCGTGCGAG
Found at i:50229660 original size:80 final size:81
Alignment explanation
Indices: 50229563--50229741 Score: 245
Period size: 80 Copynumber: 2.2 Consensus size: 81
50229553 GCTCGATTGT
* * *
50229563 CTTCGGGACATAGCCCGGTTATAGTAA-TTCGCACAATTGCCTTCGGGAATTAACCCGGATTTAG
1 CTTCGGGACTTAGCCCGGTTATAGTAACTT-GCACAAATGCCTTCGGGAATTAACCCGAATTTAG
* *
50229627 TAAC-TCGCACAAATGC
65 TAACTTAGCACAAAAGC
* * * *
50229643 CTTCGGGACTTAACCCGGTTTTGGTAACTTGCACAAATGCCTTCGGGAATTGACCCGAATTTAGT
1 CTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGAATTAACCCGAATTTAGT
*
50229708 CACTTAGCACAAAAGC
66 AACTTAGCACAAAAGC
50229724 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
50229742 ACATCATTCG
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
80 57 0.66
81 29 0.34
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (81 bp):
CTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGAATTAACCCGAATTTAGT
AACTTAGCACAAAAGC
Found at i:50229730 original size:41 final size:40
Alignment explanation
Indices: 50229563--50229742 Score: 195
Period size: 40 Copynumber: 4.5 Consensus size: 40
50229553 GCTCGATTGT
* *
50229563 CTTCGGGACA-TAGCCCGG-TTATAGTAA-TTCGCACAATTGC
1 CTTCGGGA-ATTAACCCGGATT-TAGTAACTT-GCACAAATGC
*
50229603 CTTCGGGAATTAACCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGAATTAACCCGGATTTAGTAACTTGCACAAATGC
* * *
50229643 CTTCGGGACTTAACCCGGTTTTGGTAACTTGCACAAATGC
1 CTTCGGGAATTAACCCGGATTTAGTAACTTGCACAAATGC
* * * *
50229683 CTTCGGGAATTGACCCGAATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGAATTAACCCGGATTTAGTAACTT-GCACAAATGC
* *
50229724 CTTCGGGACTTAGCCCGGA
1 CTTCGGGAATTAACCCGGA
50229743 CATCATTCGA
Statistics
Matches: 118, Mismatches: 18, Indels: 7
0.83 0.13 0.05
Matches are distributed among these distances:
39 1 0.01
40 90 0.76
41 27 0.23
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CTTCGGGAATTAACCCGGATTTAGTAACTTGCACAAATGC
Found at i:50232967 original size:42 final size:42
Alignment explanation
Indices: 50232859--50233018 Score: 126
Period size: 43 Copynumber: 3.7 Consensus size: 42
50232849 AACGAGTACA
* * ** * * * *
50232859 ATGCCGATGTCCCGGACGTGGTCTTACATGTAATTCAATATTG
1 ATGCCTATGTCCCAGACACGGTCTTACACGAAACTCAA-ATCG
* * * *
50232902 ATGCCTCTATCCCAGATAGGGTCTTACACGAAA-TCAAATACG
1 ATGCCTATGTCCCAGACACGGTCTTACACGAAACTCAAAT-CG
* * *
50232944 ATG-CTAGTGTCCTATACATGGTCTTACACGTAAATCTCAAATCG
1 ATGCCTA-TGTCCCAGACACGGTCTTACACG-AAA-CTCAAATCG
50232988 ATGCCTATGTCCCAGACACGGTCTTACACGA
1 ATGCCTATGTCCCAGACACGGTCTTACACGA
50233019 TATCTTAGAT
Statistics
Matches: 92, Mismatches: 19, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
41 4 0.04
42 26 0.28
43 28 0.30
44 25 0.27
45 9 0.10
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (42 bp):
ATGCCTATGTCCCAGACACGGTCTTACACGAAACTCAAATCG
Found at i:50232999 original size:44 final size:42
Alignment explanation
Indices: 50232911--50233018 Score: 121
Period size: 44 Copynumber: 2.5 Consensus size: 42
50232901 GATGCCTCTA
* *
50232911 TCCCAGATAGGGTCTTACACGAAATCAAATACGATGCTAGTG
1 TCCCAGACACGGTCTTACACGAAATCAAATACGATGCTAGTG
* * *
50232953 TCCTATACATGGTCTTACACGTAAATCTCAAAT-CGATGCCTA-TG
1 TCCCAGACACGGTCTTACACG-AAA--TCAAATACGATG-CTAGTG
50232997 TCCCAGACACGGTCTTACACGA
1 TCCCAGACACGGTCTTACACGA
50233019 TATCTTAGAT
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
42 17 0.31
43 4 0.07
44 25 0.45
45 9 0.16
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (42 bp):
TCCCAGACACGGTCTTACACGAAATCAAATACGATGCTAGTG
Found at i:50238884 original size:2 final size:2
Alignment explanation
Indices: 50238822--50238865 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
50238812 CGCACCATGC
50238822 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50238864 AT
1 AT
50238866 GTTGATTAGG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50239371 original size:16 final size:17
Alignment explanation
Indices: 50239350--50239382 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
50239340 GTTGTATTAG
50239350 TTTATGAAAT-AATTTT
1 TTTATGAAATAAATTTT
50239366 TTTATGAAATAAATTTT
1 TTTATGAAATAAATTTT
50239383 GATTAACTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
TTTATGAAATAAATTTT
Found at i:50243656 original size:40 final size:40
Alignment explanation
Indices: 50243607--50243798 Score: 278
Period size: 40 Copynumber: 4.7 Consensus size: 40
50243597 TAGCAACTCG
*
50243607 CAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCA
*
50243647 TAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCA
* * *
50243687 CAAATGCCTTCAGGACTTAGCCCGGGTATAG-CAACTACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCA
* *
50243730 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCA
50243770 CAAATGCCTTCGGGACTTAGCCCGGATAT
1 CAAATGCCTTCGGGACTTAGCCCGGATAT
50243799 CATCCGAATA
Statistics
Matches: 136, Mismatches: 11, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
39 1 0.01
40 101 0.74
43 34 0.25
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCA
Found at i:50243756 original size:83 final size:80
Alignment explanation
Indices: 50243577--50243798 Score: 281
Period size: 83 Copynumber: 2.8 Consensus size: 80
50243567 ACCCAAGTAT
* * * * *
50243577 CTTCGGGATTTAG-TCGGATATAGCAACT--CGCAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
* *
50243639 CACTAGCATAAATGC
66 CACTAACACAAATGC
* * *
50243654 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCAGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
50243718 CAACTACTCACACAAATGC
66 C-ACTA---ACACAAATGC
*
50243737 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
50243799 CATCCGAATA
Statistics
Matches: 124, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
77 12 0.10
78 12 0.10
79 1 0.01
80 33 0.27
83 66 0.53
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAACACAAATGC
Found at i:50249268 original size:17 final size:17
Alignment explanation
Indices: 50249242--50249280 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
50249232 TTGTATCTAC
50249242 GCACTCTTACATACCAT
1 GCACTCTTACATACCAT
*
50249259 GCACTTTTACATACCAT
1 GCACTCTTACATACCAT
50249276 GCACT
1 GCACT
50249281 GTGTCAGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.28, C:0.33, G:0.08, T:0.31
Consensus pattern (17 bp):
GCACTCTTACATACCAT
Found at i:50251800 original size:49 final size:49
Alignment explanation
Indices: 50251733--50251964 Score: 304
Period size: 49 Copynumber: 4.7 Consensus size: 49
50251723 TTGGTATGCC
*
50251733 TAGTAGCCTGCACATAGTACTACACATGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
50251782 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* ** * *
50251831 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATCCGGTACACG
* * * * *
50251881 TAGTAGCCTGCACTTAGTACTACACACGTG-CTCACAGTTTTCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGAC-CA-A-TTATCCGGTACACG
* *
50251932 TAGTGGCCTGCACTTAGTACTACACATGCGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
50251965 TCACAATAGA
Statistics
Matches: 162, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
49 82 0.51
50 44 0.27
51 35 0.22
52 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
Found at i:50251892 original size:99 final size:100
Alignment explanation
Indices: 50251733--50251957 Score: 303
Period size: 99 Copynumber: 2.3 Consensus size: 100
50251723 TTGGTATGCC
* * ** *
50251733 TAGTAGCCTGCACATAGTACTACACATGTGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGATACACGTAGTAGCCTGCACTTA
* * *
50251798 GTACTACACATGTGAC-CA-A-TTATCCGGTACACG
66 GTACTACACACGTG-CTCACAGTTATCAGGTACACA
*
50251831 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AACCATCCGATACACGTAGTAGCCTGCACTT
* *
50251896 AGTACTACACACGTGCTCACAGTTTTCAGGTACGCA
65 AGTACTACACACGTGCTCACAGTTATCAGGTACACA
*
50251932 TAGTGGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
50251958 TGCGACCTCA
Statistics
Matches: 111, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
98 32 0.29
99 43 0.39
100 1 0.01
101 35 0.32
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (100 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGATACACGTAGTAGCCTGCACTTA
GTACTACACACGTGCTCACAGTTATCAGGTACACA
Found at i:50258711 original size:33 final size:34
Alignment explanation
Indices: 50258674--50258765 Score: 89
Period size: 34 Copynumber: 2.8 Consensus size: 34
50258664 GATATGTTAT
* * *
50258674 TGGGCTTAGGCCC-CACTGTTATTGATACTGAAA
1 TGGGCTAAGGCCCACACTGCTACTGATACTGAAA
* * *
50258707 TGGGCTCAGGCCCATACTGCTACTGTTACTGAAA
1 TGGGCTAAGGCCCACACTGCTACTGATACTGAAA
* * *
50258741 TAGGCTAAGGCCTA-ACTGATACTGA
1 TGGGCTAAGGCCCACACTGCTACTGA
50258766 AAGGGCTTAG
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
33 21 0.44
34 27 0.56
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (34 bp):
TGGGCTAAGGCCCACACTGCTACTGATACTGAAA
Found at i:50259726 original size:23 final size:23
Alignment explanation
Indices: 50259680--50259728 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
50259670 AACTTTGCAA
* *
50259680 AATACGCCACAAATGCATTACAG
1 AATACGCCACAAAGGCATGACAG
*
50259703 AATACGCCACAAAGGCATGGCAG
1 AATACGCCACAAAGGCATGACAG
50259726 AAT
1 AAT
50259729 TGTAACAGCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.24, G:0.18, T:0.14
Consensus pattern (23 bp):
AATACGCCACAAAGGCATGACAG
Found at i:50262378 original size:27 final size:28
Alignment explanation
Indices: 50262321--50262390 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
50262311 AAACTTGTAC
*
50262321 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
50262349 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
50262376 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
50262391 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:50262401 original size:27 final size:27
Alignment explanation
Indices: 50262321--50262402 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
50262311 AAACTTGTAC
* * *
50262321 AGCACTAAGTGTGCGAGTTTGA-TCATGT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
50262349 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
50262376 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
50262403 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:50267355 original size:23 final size:23
Alignment explanation
Indices: 50267325--50267401 Score: 100
Period size: 23 Copynumber: 3.3 Consensus size: 23
50267315 GGCTGTTACA
50267325 AGAATACACCACAAAAGCATTGC
1 AGAATACACCACAAAAGCATTGC
* *
50267348 AGAATACACCATAAAAGCATTGT
1 AGAATACACCACAAAAGCATTGC
* * * *
50267371 AAAATACGCCACAAAGGCATTAC
1 AGAATACACCACAAAAGCATTGC
50267394 AGAATACA
1 AGAATACA
50267402 ACATAAAAAC
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.49, C:0.22, G:0.13, T:0.16
Consensus pattern (23 bp):
AGAATACACCACAAAAGCATTGC
Found at i:50272429 original size:40 final size:40
Alignment explanation
Indices: 50272367--50272551 Score: 171
Period size: 40 Copynumber: 4.6 Consensus size: 40
50272357 TACACATTCA
* *
50272367 AATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACG
1 AATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACG
* * *
50272407 AATGCCTTCGGGACTTAACCCGGATTTAGTAGCTCGCTCG
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACG
* *
50272447 AAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACG
1 AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACG
* * * ** * *
50272487 TATGCCGTC-GAATCTTATTCCGGATTTAGTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACG
*
50272527 AAAGCCTTCGGGACTTAGCCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAT
50272552 ATCATTCGAA
Statistics
Matches: 118, Mismatches: 23, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
39 3 0.03
40 106 0.90
41 9 0.08
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACG
Found at i:50276682 original size:40 final size:40
Alignment explanation
Indices: 50276623--50276764 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
50276613 AAATTGAATG
* * *
50276623 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
50276663 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
50276703 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
50276743 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
50276765 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:50276765 original size:40 final size:39
Alignment explanation
Indices: 50276662--50276790 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
50276652 TGCTGGAAAT
* * *
50276662 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
50276702 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
50276742 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
50276782 TATATCCGG
1 TATATCCGG
50276791 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:50284671 original size:40 final size:40
Alignment explanation
Indices: 50284605--50284771 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
50284595 AAATTGAATG
* * *
50284605 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
50284644 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
50284684 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
50284724 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
50284764 ATATCCGG
1 ATATCCGG
50284772 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:50295851 original size:40 final size:39
Alignment explanation
Indices: 50295686--50295869 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
50295676 AAATTGAATG
* * *
50295686 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
50295726 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
50295766 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
50295806 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
50295845 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
50295870 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:50295894 original size:80 final size:81
Alignment explanation
Indices: 50295726--50295914 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
50295716 GCTGGAAATT
* * * *
50295726 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
50295791 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
50295807 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
50295870 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
50295886 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
50295915 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:50303813 original size:40 final size:39
Alignment explanation
Indices: 50303648--50303831 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
50303638 AAATTGAATG
* * *
50303648 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
50303688 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
50303728 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
50303768 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
50303807 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
50303832 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:50303856 original size:80 final size:81
Alignment explanation
Indices: 50303688--50303876 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
50303678 GCTGGAAATT
* * * *
50303688 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
50303753 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
50303769 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
50303832 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
50303848 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
50303877 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:50331828 original size:40 final size:39
Alignment explanation
Indices: 50331722--50331850 Score: 143
Period size: 40 Copynumber: 3.2 Consensus size: 39
50331712 TGCTGGAAAT
* * * *
50331722 TATATCCGGGTTAAGACCCGAAGGCAAATGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
50331762 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
50331802 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
50331842 TATATCCGG
1 TATATCCGG
50331851 TTATATTCTG
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
39 3 0.04
40 72 0.94
41 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:50338915 original size:49 final size:49
Alignment explanation
Indices: 50338851--50339112 Score: 470
Period size: 49 Copynumber: 5.3 Consensus size: 49
50338841 TACATATATG
*
50338851 TGTGATGAGGCCTAATGGTCGATGTGGTGAACGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAACGTGAAAGTGTATGTATA
* *
50338900 TGTGATGAGGCCTAATGACCGATGTGATGAACGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAACGTGAAAGTGTATGTATA
50338949 TGTGATGAGGCCTAATGGCCGATGTGGTGAACGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAACGTGAAAGTGTATGTATA
* *
50338998 TGTGATGAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATGTATG
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAACGTGAAAGTGTATGTATA
*
50339047 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAACGTGAAAGTGTATGTATA
50339096 TGTGATGAGGCCTAATG
1 TGTGATGAGGCCTAATG
50339113 ACCAATGTAA
Statistics
Matches: 203, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 203 1.00
ACGTcount: A:0.27, C:0.10, G:0.34, T:0.29
Consensus pattern (49 bp):
TGTGATGAGGCCTAATGGCCGATGTGGTGAACGTGAAAGTGTATGTATA
Found at i:50339266 original size:37 final size:37
Alignment explanation
Indices: 50339223--50339374 Score: 277
Period size: 37 Copynumber: 4.1 Consensus size: 37
50339213 GTTCCGGGCG
50339223 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
*
50339260 AGACCCGATGACTACGTGTGGAGATTATTACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
*
50339297 AGACCCGATGACTACATGTGGAGATTATGACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
*
50339334 AGACCCGATGACTACGTGTTGAGATTATGACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
50339371 AGAC
1 AGAC
50339375 TTCTTTTATA
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 110 1.00
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.22
Consensus pattern (37 bp):
AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
Found at i:50349254 original size:43 final size:42
Alignment explanation
Indices: 50349119--50349287 Score: 144
Period size: 43 Copynumber: 4.0 Consensus size: 42
50349109 ATATCGTACA
* * * * * *
50349119 ATGCCAACGTCTCAGACGTGTTCTTACATGTAATGACATATCA
1 ATGCCAATGTCCCAGACGTGGTCTTACACG-AATCACATATCG
* * * * *
50349162 ATGCCACTGTCCCAAATAG-GGTCTTACACGAACCAAATA-CG
1 ATGCCAATGTCCCAGA-CGTGGTCTTACACGAATCACATATCG
* *
50349203 ATGCCAATGCCCCAGACCTGGTCTTACACGTAATCACATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACG-AATCACATATCG
* * *
50349246 ATGCCAATGTCCCAGATGTAGTGTTACACGAGATCACATATC
1 ATGCCAATGTCCCAGACGTGGTCTTACACGA-ATCACATATC
50349288 AGAAATCCTA
Statistics
Matches: 98, Mismatches: 23, Indels: 10
0.75 0.18 0.08
Matches are distributed among these distances:
41 25 0.26
42 14 0.14
43 58 0.59
44 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGAATCACATATCG
Found at i:50352727 original size:2 final size:2
Alignment explanation
Indices: 50352720--50352752 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
50352710 CATTTTAACT
50352720 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
50352753 CACAAATCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:50355677 original size:40 final size:39
Alignment explanation
Indices: 50355596--50355739 Score: 153
Period size: 40 Copynumber: 3.6 Consensus size: 39
50355586 CCGCACCAAG
* * * * * * *
50355596 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTAGCAC-AAT
* *
50355636 GCCTTCGGGTCTTAGCCCGGATTTAACAACTGGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTAGCAC-AAT
* *
50355676 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTAGCACAA-T
*
50355716 GCCTTCGGGTCTTAACCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
50355740 CATTTTCAGC
Statistics
Matches: 89, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 2 0.02
40 87 0.98
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTAGCACAAT
Found at i:50355756 original size:40 final size:41
Alignment explanation
Indices: 50355628--50355783 Score: 158
Period size: 40 Copynumber: 3.9 Consensus size: 41
50355618 ATCACGATTT
* * *** *
50355628 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-TTAACAACTG
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATCATTTACTA
**
50355668 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATAT-AGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATCATTTACTA
* *
50355708 GCACAATTGCCTTCGGGTCTTAACCCGGATATCATTTTC-A
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATCATTTACTA
* * *
50355748 GCATAATTGTCTTCGGGGCTTAGCCCGGATATCATT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATCATT
50355784 CAATTTCTCA
Statistics
Matches: 101, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 93 0.92
41 6 0.06
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.29
Consensus pattern (41 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATCATTTACTA
Found at i:50365235 original size:50 final size:49
Alignment explanation
Indices: 50365121--50365437 Score: 165
Period size: 46 Copynumber: 6.7 Consensus size: 49
50365111 GGTAAAGTGT
* * * *
50365121 CGATGCCATGTCCCAGATATGGTCTTACACTAGCTATTATCTTCGAGGC
1 CGATGCCATGTCCCAGACATAGTCTTACACTAGCTATCATCTCCGAGGC
* *
50365170 CGATGCCATGTCCCAGACATAGTCTTACACTAGCTCTCA-CATAACCG-TGC
1 CGATGCCATGTCCCAGACATAGTCTTACACTAGCTATCATC-T--CCGAGGC
* *
50365220 CGATGCCATGTCCCAGACATAGTCTAACACT-GAC-A-CATCT-TGTA-G-
1 CGATGCCATGTCCCAGACATAGTCTTACACTAG-CTATCATCTCCG-AGGC
* * * * *
50365265 TGATG-CATGTCCCAAACAT-GTCTTATACTGGCT-TACGTCT-CGAGG-
1 CGATGCCATGTCCCAGACATAGTCTTACACTAGCTAT-CATCTCCGAGGC
* * * * * *
50365310 CTAGTG-TATGTCCCAAACAT-GTCTTACATTAGC-ACTCATCT-CAATGC
1 CGA-TGCCATGTCCCAGACATAGTCTTACACTAGCTA-TCATCTCCGAGGC
* * * * *
50365357 CGATGCCATGTCCCAGACAT-GTTCTTGCACTGGCTCTCATAAT--GTGGC
1 CGATGCCATGTCCCAGACATAG-TCTTACACTAGCTATCAT-CTCCGAGGC
*
50365405 CGATG-CATGTCCTAGACAT-GTCTTACACTAGCT
1 CGATGCCATGTCCCAGACATAGTCTTACACTAGCT
50365438 CACACAAATG
Statistics
Matches: 210, Mismatches: 38, Indels: 43
0.72 0.13 0.15
Matches are distributed among these distances:
43 9 0.04
44 15 0.07
45 12 0.06
46 46 0.22
47 30 0.14
48 24 0.11
49 39 0.19
50 33 0.16
51 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACATAGTCTTACACTAGCTATCATCTCCGAGGC
Found at i:50370097 original size:39 final size:39
Alignment explanation
Indices: 50369998--50370188 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
50369988 CGAATGATGT
* * * * *
50369998 CCGGGCTAAGTCCTGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTACTA-AA
* * *
50370038 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 CCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
50370077 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAA
1 -CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
50370116 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTA-AA
** * *
50370157 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGT
50370189 CGTTATATCC
Statistics
Matches: 122, Mismatches: 23, Indels: 12
0.78 0.15 0.08
Matches are distributed among these distances:
39 34 0.28
40 79 0.65
41 9 0.07
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:50370140 original size:79 final size:82
Alignment explanation
Indices: 50369997--50370181 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
50369987 TCGAATGATG
* * * *
50369997 TCCGGGCTAAGTCCTGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
50370061 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
50370077 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
50370139 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
50370157 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
50370182 AGCGAGTCGT
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 55 0.61
80 34 0.38
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:50371842 original size:29 final size:29
Alignment explanation
Indices: 50371691--50371821 Score: 244
Period size: 29 Copynumber: 4.5 Consensus size: 29
50371681 GTGACGAGAT
50371691 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
50371720 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
50371749 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
50371778 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
50371807 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
50371822 GAGCTCGAAG
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 98 1.00
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:50371868 original size:87 final size:87
Alignment explanation
Indices: 50371691--50371879 Score: 229
Period size: 87 Copynumber: 2.2 Consensus size: 87
50371681 GTGACGAGAT
* *
50371691 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACT
1 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTCGAAAGATATGGCACT
* *
50371756 AAGTGTGCATGCTGGAAAAATA
66 AAGTGTGCAGGCTGGAAAAACA
* * *
50371778 TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGA-GCTCGAAGGGTATGGCAC
1 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGC-ATGCTCGAAAGATATGGCAC
** * * **
50371842 TGTGTGTGCGGGCT-TAAATCGCA
65 TAAGTGTGCAGGCTGGAAA-AACA
50371865 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
50371880 GAAACGAGTA
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
86 3 0.03
87 82 0.95
88 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (87 bp):
TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTCGAAAGATATGGCACT
AAGTGTGCAGGCTGGAAAAACA
Found at i:50378403 original size:40 final size:40
Alignment explanation
Indices: 50378324--50378481 Score: 151
Period size: 40 Copynumber: 4.0 Consensus size: 40
50378314 TTCGAATGAT
* * * *
50378324 ATCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGC-GAGTTACTAA
* *
50378364 ATCCGGACTAAGATCCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
50378404 ATCCGGACTAAGATCCGAAGGCTTTCGAGCAAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
** *
50378444 ATCCGGGTTGAG-TCCCGAAGGCATTCGTGCGAGTTACT
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACT
50378482 GTAACCGGGC
Statistics
Matches: 96, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 89 0.93
41 6 0.06
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:50378502 original size:80 final size:80
Alignment explanation
Indices: 50378324--50378511 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
50378314 TTCGAATGAT
* *
50378324 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
50378389 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* ** *
50378404 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-AAGCT-ACTAAATCCGGGTTGAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGACTAAGAT-CCGAAGG
* *
50378465 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
50378485 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
50378512 ATGTGTAGCC
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 2 0.02
80 79 0.87
81 10 0.11
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:50386470 original size:40 final size:40
Alignment explanation
Indices: 50386391--50386548 Score: 151
Period size: 40 Copynumber: 4.0 Consensus size: 40
50386381 TTCGAATGAT
* * * *
50386391 ATCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGC-GAGTTACTAA
* *
50386431 ATCCGGACTAAGATCCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
50386471 ATCCGGACTAAGATCCGAAGGCTTTCGAGCAAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
** *
50386511 ATCCGGGTTGAG-TCCCGAAGGCATTCGTGCGAGTTACT
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACT
50386549 GTAACCGGGC
Statistics
Matches: 96, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 89 0.93
41 6 0.06
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:50386569 original size:80 final size:80
Alignment explanation
Indices: 50386391--50386578 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
50386381 TTCGAATGAT
* *
50386391 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
50386456 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* ** *
50386471 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-AAGCT-ACTAAATCCGGGTTGAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGACTAAGAT-CCGAAGG
* *
50386532 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
50386552 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
50386579 ATGTGTAGCC
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 2 0.02
80 79 0.87
81 10 0.11
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:50393380 original size:39 final size:38
Alignment explanation
Indices: 50393333--50393470 Score: 150
Period size: 39 Copynumber: 3.5 Consensus size: 38
50393323 GGACTAGGAT
*
50393333 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAGC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-CCGGGCTAAGC
* * * *
50393372 CCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGT
1 CCGAAGGCATTCGTGCGAGTTACTAAA-CCGGGCTAAGC
* **
50393411 CCGAAGGCATTCGTGCGAGTCACTATAACCGGGCTTCGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACCGGGCTAAG-C
* *
50393451 CCGAAGGCATTTGAGCGAGT
1 CCGAAGGCATTCGTGCGAGT
50393471 CGTTATATCC
Statistics
Matches: 82, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
39 62 0.76
40 20 0.24
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.22
Consensus pattern (38 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCGGGCTAAGC
Found at i:50401388 original size:40 final size:40
Alignment explanation
Indices: 50401309--50401466 Score: 151
Period size: 40 Copynumber: 4.0 Consensus size: 40
50401299 TTCGAATGAT
* * * *
50401309 ATCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGC-GAGTTACTAA
* *
50401349 ATCCGGACTAAGATCCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
50401389 ATCCGGACTAAGATCCGAAGGCTTTCGAGCAAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
** *
50401429 ATCCGGGTTGAG-TCCCGAAGGCATTCGTGCGAGTTACT
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACT
50401467 GTAACCGGGC
Statistics
Matches: 96, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 89 0.93
41 6 0.06
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:50401487 original size:80 final size:80
Alignment explanation
Indices: 50401309--50401496 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
50401299 TTCGAATGAT
* *
50401309 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
50401374 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* ** *
50401389 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-AAGCT-ACTAAATCCGGGTTGAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGACTAAGAT-CCGAAGG
* *
50401450 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
50401470 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
50401497 ATGTGTAGCC
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 2 0.02
80 79 0.87
81 10 0.11
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:50408333 original size:39 final size:38
Alignment explanation
Indices: 50408286--50408423 Score: 150
Period size: 39 Copynumber: 3.5 Consensus size: 38
50408276 GGACTAGGAT
*
50408286 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAGC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-CCGGGCTAAGC
* * * *
50408325 CCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGT
1 CCGAAGGCATTCGTGCGAGTTACTAAA-CCGGGCTAAGC
* **
50408364 CCGAAGGCATTCGTGCGAGTCACTATAACCGGGCTTCGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACCGGGCTAAG-C
* *
50408404 CCGAAGGCATTTGAGCGAGT
1 CCGAAGGCATTCGTGCGAGT
50408424 CGTTATATCC
Statistics
Matches: 82, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
39 62 0.76
40 20 0.24
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.22
Consensus pattern (38 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCGGGCTAAGC
Found at i:50412144 original size:26 final size:26
Alignment explanation
Indices: 50412112--50412200 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 26
50412102 CCCAAAATAA
*
50412112 GTAAAATGATCGTAATGCCCTTTAAG
1 GTAAAATGATCGTAATGCCCTGTAAG
* * * *
50412138 GTAAAATAACCATAATGCCCCTGTAGG
1 GTAAAATGATCGTAATG-CCCTGTAAG
* * *
50412165 GTAAAATGATCGTAGTACCCCTGTATG
1 GTAAAATGATCGTAAT-GCCCTGTAAG
50412192 GTAAAATGA
1 GTAAAATGA
50412201 CGATTATGCC
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
26 14 0.28
27 36 0.72
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (26 bp):
GTAAAATGATCGTAATGCCCTGTAAG
Found at i:50412387 original size:27 final size:26
Alignment explanation
Indices: 50412337--50412453 Score: 110
Period size: 27 Copynumber: 4.4 Consensus size: 26
50412327 ATGGAGGAAG
* **
50412337 TACTG-TACTGGTGACTATATCACAT
1 TACTGTTACTGGTGGCTATGCCACAT
50412362 TCACTGTTACTGGTGGCTATGCCACAAT
1 T-ACTGTTACTGGTGGCTATGCCAC-AT
* * *
50412390 TACTGATACAGGTGGCTTTGCCACATT
1 TACTGTTACTGGTGGCTATGCCACA-T
* * *
50412417 TACTGTTTCTGGTAGCTATGCTACAT
1 TACTGTTACTGGTGGCTATGCCACAT
*
50412443 TACTATTACTG
1 TACTGTTACTG
50412454 ATAGTTTTGC
Statistics
Matches: 74, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
25 1 0.01
26 15 0.20
27 55 0.74
28 3 0.04
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (26 bp):
TACTGTTACTGGTGGCTATGCCACAT
Found at i:50424247 original size:29 final size:29
Alignment explanation
Indices: 50424185--50424286 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 29
50424175 GTGACGAGAT
* * *
50424185 TGGCACTGAGTGTGC-AGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
50424213 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * **
50424242 TGGCACTATGTGTGCGGGCTT-GAATCACG
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
50424271 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
50424287 TGATTGAGTA
Statistics
Matches: 60, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
28 17 0.28
29 43 0.72
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:50428075 original size:25 final size:25
Alignment explanation
Indices: 50428045--50428094 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
50428035 AGATGAAGGA
50428045 GACTGTCTGAGGTTCAGAAATAGAC
1 GACTGTCTGAGGTTCAGAAATAGAC
*
50428070 GACTGTCTGAGGTTTAGAAATAGAC
1 GACTGTCTGAGGTTCAGAAATAGAC
50428095 TTTATGTTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.26
Consensus pattern (25 bp):
GACTGTCTGAGGTTCAGAAATAGAC
Found at i:50430966 original size:37 final size:37
Alignment explanation
Indices: 50430925--50431010 Score: 118
Period size: 37 Copynumber: 2.3 Consensus size: 37
50430915 CAAAGTGTTT
**
50430925 AACCATATACTTATTCATTTTTGTACACATATCAAAC
1 AACCATATACTTATTCATTTCAGTACACATATCAAAC
* * *
50430962 AACCATATACTTATTCATTTCAGTTCACTTATCAAAT
1 AACCATATACTTATTCATTTCAGTACACATATCAAAC
*
50430999 AACCAAATACTT
1 AACCATATACTT
50431011 CTTATTTAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.38, C:0.22, G:0.02, T:0.37
Consensus pattern (37 bp):
AACCATATACTTATTCATTTCAGTACACATATCAAAC
Found at i:50446813 original size:28 final size:28
Alignment explanation
Indices: 50446781--50446879 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
50446771 GCCATAAGCC
*
50446781 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
50446809 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
50446837 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
50446866 CGCACACTTAGTGC
1 CGCACACTTAGTGC
50446880 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:50449781 original size:26 final size:26
Alignment explanation
Indices: 50449752--50449821 Score: 122
Period size: 26 Copynumber: 2.7 Consensus size: 26
50449742 TGATACAAAT
*
50449752 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
50449778 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
50449804 TGATAATGGGTTAGGTAA
1 TGATAATGGGTTAGGTAA
50449822 GGTAAATGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.34, C:0.06, G:0.26, T:0.34
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:50451349 original size:26 final size:26
Alignment explanation
Indices: 50451281--50451356 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 26
50451271 AAAAGAAGCT
* *
50451281 AAATTACT-ATAATACCCCTATGTATGGA
1 AAATTACTGA-AATACCCCTA-G-GTGCA
**
50451309 AAATTACTGTTATACCCCTAGGTGCA
1 AAATTACTGAAATACCCCTAGGTGCA
50451335 AAATTACTGAAATACCCCTAGG
1 AAATTACTGAAATACCCCTAGG
50451357 GTTAAATTGA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 23 0.56
27 1 0.02
28 17 0.41
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (26 bp):
AAATTACTGAAATACCCCTAGGTGCA
Found at i:50453588 original size:40 final size:40
Alignment explanation
Indices: 50453544--50453688 Score: 170
Period size: 40 Copynumber: 3.6 Consensus size: 40
50453534 GCTACTCGTT
*
50453544 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
* *
50453584 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCACA
* * * * *
50453624 CAAATGCCTTC-GGATCTTAGTCCAGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAACTCA-CA
50453665 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
50453689 ACATCATTCG
Statistics
Matches: 88, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
39 4 0.05
40 73 0.83
41 11 0.12
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
Found at i:50468773 original size:40 final size:40
Alignment explanation
Indices: 50468729--50468876 Score: 212
Period size: 40 Copynumber: 3.7 Consensus size: 40
50468719 GAAATTATAA
* * *
50468729 CCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGGC-TAC-AT
1 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGT--CATTCTAT
50468769 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCTAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCTAT
50468809 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCTAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCTAT
*
50468849 CCGGGCTAAGACCCGAAGGCATTTGTGC
1 CCGGGCTAAGACCCGAAGGCATTCGTGC
50468877 AAATCGTGAT
Statistics
Matches: 101, Mismatches: 4, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
38 1 0.01
39 5 0.05
40 95 0.94
ACGTcount: A:0.23, C:0.26, G:0.29, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCTAT
Found at i:50468890 original size:40 final size:39
Alignment explanation
Indices: 50468685--50468908 Score: 175
Period size: 40 Copynumber: 5.6 Consensus size: 39
50468675 AAATTGAATG
* * * *
50468685 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAGTCAT
* * * *
50468725 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGT--CAT
* * *
50468765 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCA-T
* * *
50468805 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCA-T
* * *
50468845 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCAT
* * *
50468884 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
50468909 CTTGGTGCGG
Statistics
Matches: 154, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
37 4 0.03
38 3 0.02
39 3 0.02
40 144 0.94
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCAT
Found at i:50468890 original size:80 final size:77
Alignment explanation
Indices: 50468686--50468917 Score: 209
Period size: 80 Copynumber: 2.9 Consensus size: 77
50468676 AATTGAATGA
* * * *
50468686 TATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT-TATAACCGGGTTAAGACCCGAAGGCA
1 TATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCTATATCCGGGTTAAGACCCGAAGGC-
*
50468750 ATTGTGCTAGTGGCTAC
62 ATTGTGCGAGT-GCTAC
* * * * *
50468767 -ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCTATCCGGGCTAAGACCCGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC--TATATCCGGGTTAAGACCCGAAGGCAT
*
50468831 TCGTGCGAGT-CATTC
64 T-GTGCGAGTGC-TAC
* * *
50468846 TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTGATATCCGGGTTAAGTCCCGTAGGCCT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-T-ATATCCGGGTTAAGACCCGAAGGCAT
50468911 TGGTGCG
64 T-GTGCG
50468918 GGTTACCATA
Statistics
Matches: 123, Mismatches: 21, Indels: 15
0.77 0.13 0.09
Matches are distributed among these distances:
77 4 0.03
78 2 0.02
79 9 0.07
80 108 0.88
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.23
Consensus pattern (77 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCTATATCCGGGTTAAGACCCGAAGGCATTG
TGCGAGTGCTAC
Found at i:50468933 original size:80 final size:80
Alignment explanation
Indices: 50468769--50468948 Score: 191
Period size: 80 Copynumber: 2.2 Consensus size: 80
50468759 GTGGCTACAT
* * **
50468769 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCTATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCATTCGTGCAAATCATGATATCCGGGCTAAGACCCGAAGGCATTCG
* *
50468834 TGCGAGTCATTCTAT
66 TGCGAGTCATCCTAA
* * * * * * *
50468849 CCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTGATATCCGGGTTAAGTCCCGTAGGCCTTGG
1 CCGGGCTAAGACCCGAAGGCATTCGTGCAAATCATGATATCCGGGCTAAGACCCGAAGGCATTCG
* *
50468914 TGCGGGTTA-CCATAA
66 TGCGAGTCATCC-TAA
* *
50468929 CCGGGCTATGTCCCGAAGGC
1 CCGGGCTAAGACCCGAAGGC
50468949 GATTGATCGA
Statistics
Matches: 82, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
79 1 0.01
80 81 0.99
ACGTcount: A:0.22, C:0.27, G:0.29, T:0.22
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCAAATCATGATATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTCATCCTAA
Found at i:50481719 original size:24 final size:24
Alignment explanation
Indices: 50481689--50481907 Score: 384
Period size: 24 Copynumber: 9.1 Consensus size: 24
50481679 GAATGTGACT
* *
50481689 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
50481713 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
50481737 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
50481761 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
50481785 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
50481809 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
50481833 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
50481857 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
50481881 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
50481905 ATA
1 ATA
50481908 TGGTCTTTGC
Statistics
Matches: 188, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 188 1.00
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:50489707 original size:48 final size:48
Alignment explanation
Indices: 50489589--50489854 Score: 367
Period size: 48 Copynumber: 5.6 Consensus size: 48
50489579 TAAAGTACCA
* * ** *
50489589 ATGCCATGTCCTAGACATGGTCTTACATGATTC-CATATATCATCGCCA
1 ATGCCATGTCCCAGACATGGTCTTACA-CAGGCACATATATCATCGCCG
* *
50489637 ATG-CATGTCCCAGACATGGTCTTATGA-TGGCACATATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTA-CACAGGCACATATATCATCGCCG
* **
50489684 ATGCCATGTCCCAGACATGGTCTTACACAAGCACATATATCATCGTTG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCG
*
50489732 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCCCCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCG
* *
50489780 ATGCCATGTCTCAGGCATGGTCTTACACAGGCACATATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCG
*
50489828 ATGCCATGTCCCAGGCATGGTCTTACA
1 ATGCCATGTCCCAGACATGGTCTTACA
50489855 TGGAATCTCA
Statistics
Matches: 195, Mismatches: 19, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
46 1 0.01
47 38 0.19
48 156 0.80
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCG
Found at i:50495851 original size:44 final size:44
Alignment explanation
Indices: 50495781--50495909 Score: 156
Period size: 42 Copynumber: 3.0 Consensus size: 44
50495771 GTTGACATTA
* * *
50495781 ATCTGAGATATCGTGTAAGACCATGTCTGGGATACAGGCCTCG-
1 ATCTGAGATTTCGTGTAAGACCATGTCTGGGACACAGGCATCGT
* * *
50495824 ATTTGAGATTTACGTGTAAGACTATGTCTGGGACATAGGCATCGT
1 ATCTGAGATTT-CGTGTAAGACCATGTCTGGGACACAGGCATCGT
* *
50495869 ATCT--GATTTCGTGTAAGACCCTGTCTGGGACAGAGGCATCG
1 ATCTGAGATTTCGTGTAAGACCATGTCTGGGACACAGGCATCG
50495910 ATACTAAATT
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
42 29 0.39
43 14 0.19
44 28 0.38
45 3 0.04
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.29
Consensus pattern (44 bp):
ATCTGAGATTTCGTGTAAGACCATGTCTGGGACACAGGCATCGT
Found at i:50500643 original size:40 final size:40
Alignment explanation
Indices: 50500598--50500764 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
50500588 CGGAATATAA
50500598 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
** * *
50500638 CCGGATA-AATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
50500677 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
50500717 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
50500757 CCGGATAT
1 CCGGATAT
50500765 CATTCAATTT
Statistics
Matches: 101, Mismatches: 23, Indels: 6
0.78 0.18 0.05
Matches are distributed among these distances:
38 1 0.01
39 33 0.33
40 66 0.65
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:50508657 original size:40 final size:40
Alignment explanation
Indices: 50508612--50508779 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
50508602 CGGAATATAA
50508612 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
50508652 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
50508692 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
50508732 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
50508772 CCGGATAT
1 CCGGATAT
50508780 CATTCAATTT
Statistics
Matches: 101, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
39 1 0.01
40 99 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:50514527 original size:42 final size:44
Alignment explanation
Indices: 50514424--50514543 Score: 129
Period size: 42 Copynumber: 2.8 Consensus size: 44
50514414 ATCTGAGATA
* * *
50514424 TCGTGTAAGACCGTGTCTGGGACACAGGCCTC-AATTTGAGATTG
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGAATCT-AGATTG
* * *
50514468 ACGTGTAAGACCATGTCTGGGACATAGGCATCGTATCT-GATT-
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGAATCTAGATTG
* * *
50514510 TCGTGTAAGACCCTGTCTGAGACAGAGGCATCGA
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGA
50514544 TACTAAATTA
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
42 29 0.45
43 4 0.06
44 28 0.44
45 3 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (44 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCATCGAATCTAGATTG
Found at i:50517121 original size:42 final size:42
Alignment explanation
Indices: 50517016--50517171 Score: 163
Period size: 42 Copynumber: 3.7 Consensus size: 42
50517006 TACCATACCA
* * * * *
50517016 ATGCCATATCTCAGATATGGTTTTACATGTAA-TCTCGTA-TCA
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCATACT-G
* * * *
50517058 ATGCTAATAGCCCAGTTATGGTCTTACACGAAGTCTCATATTG
1 ATGC-CATATCCCAGATATGGTCTTACACGAAGTCTCATACTG
* *
50517101 GTGCCATATCCCAGATATGGTCTTACACGAAGTTTCATACTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATACTG
*
50517143 ATGCCATATCCTAGATATGGTCTTACACG
1 ATGCCATATCCCAGATATGGTCTTACACG
50517172 TAGGCTTAGT
Statistics
Matches: 95, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
42 66 0.69
43 28 0.29
44 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATACTG
Found at i:50521986 original size:12 final size:11
Alignment explanation
Indices: 50521949--50521987 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
50521939 TTAAAAATAA
50521949 AAAAAAAATCT
1 AAAAAAAATCT
*
50521960 AAAAAAAACCCT
1 AAAAAAAA-TCT
50521972 AAAAAAAATCTT
1 AAAAAAAATC-T
50521984 AAAA
1 AAAA
50521988 CTTGAAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.72, C:0.13, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAAAAATCT
Found at i:50522830 original size:10 final size:10
Alignment explanation
Indices: 50522812--50522841 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
50522802 TAAAAACAAG
*
50522812 TTATGATTTT
1 TTATAATTTT
50522822 TTATAATTTT
1 TTATAATTTT
50522832 TTATAATTTT
1 TTATAATTTT
50522842 CTAATTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (10 bp):
TTATAATTTT
Found at i:50525609 original size:38 final size:40
Alignment explanation
Indices: 50525558--50525831 Score: 182
Period size: 48 Copynumber: 6.4 Consensus size: 40
50525548 TGAAAAAACA
50525558 TGGTGCTAAGTGGATATACCACGGTTATA-TG-TGTAACG
1 TGGTGCTAAGTGGATATACCACGGTTATATTGATGTAACG
* *
50525596 TGGTGCTAAGTGGATATACAACGATTACACATATTGATACATGTAACG
1 TGGTGCTAAGTGGATATACCACGGTT----ATATTG----ATGTAACG
* *
50525644 TGGTGCTAAGCGGATATACCACGATTACACATATTGATACATGTAACG
1 TGGTGCTAAGTGGATATACCACGGTT----ATATTG----ATGTAACG
**
50525692 TGGTGCTAAGTGGATATACCACGGTTA-A-ACATGTAACG
1 TGGTGCTAAGTGGATATACCACGGTTATATTGATGTAACG
* * *
50525730 TGGCGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACG
1 TGGTGCTAAGTGGATATACCACGG-T---TATATTGA-T--GTAACG
* ** *
50525777 TGGTGCTAAGTGGATATACCACAGTTA-A-ACATGTAATG
1 TGGTGCTAAGTGGATATACCACGGTTATATTGATGTAACG
50525815 TGGTGCTAAGTGGATAT
1 TGGTGCTAAGTGGATAT
50525832 GCTATGGTTA
Statistics
Matches: 197, Mismatches: 20, Indels: 38
0.77 0.08 0.15
Matches are distributed among these distances:
38 75 0.38
39 1 0.01
40 1 0.01
41 1 0.01
42 6 0.03
43 6 0.03
44 2 0.01
45 1 0.01
46 1 0.01
47 26 0.13
48 77 0.39
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (40 bp):
TGGTGCTAAGTGGATATACCACGGTTATATTGATGTAACG
Found at i:50525660 original size:48 final size:48
Alignment explanation
Indices: 50525589--50525798 Score: 271
Period size: 48 Copynumber: 4.6 Consensus size: 48
50525579 CGGTTATATG
*
50525589 TGTAACGTGGTGCTAAGTGGATATACAACGATTACACATATTGATACA
1 TGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACA
*
50525637 TGTAACGTGGTGCTAAGCGGATATACCACGATTACACATATTGATACA
1 TGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACA
*
50525685 TGTAACGTGGTGCTAAGTGGATATACCACG-GT-----TA---A-ACA
1 TGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACA
* * * * *
50525723 TGTAACGTGGCGCTAAGTGGATATGCCACGGTTACATATATTGATTCA
1 TGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACA
50525771 T-TAACGTGGTGCTAAGTGGATATACCAC
1 TGTAACGTGGTGCTAAGTGGATATACCAC
50525799 AGTTAAACAT
Statistics
Matches: 142, Mismatches: 10, Indels: 21
0.82 0.06 0.12
Matches are distributed among these distances:
38 31 0.22
39 2 0.01
42 2 0.01
44 2 0.01
47 27 0.19
48 78 0.55
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (48 bp):
TGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACA
Found at i:50525841 original size:85 final size:86
Alignment explanation
Indices: 50525634--50525833 Score: 321
Period size: 85 Copynumber: 2.3 Consensus size: 86
50525624 ACATATTGAT
* * *
50525634 ACATGTAACGTGGTGCTAAGCGGATATACCACGATTACACATATTGATACATGTAACGTGGTGCT
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACACATATTGATACATGTAACGTGGTGCT
*
50525699 AAGTGGATATACCACGGTTAA
66 AAGTGGATATACCACAGTTAA
* * *
50525720 ACATGTAACGTGGCGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT-TAACGTGGTGCT
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACACATATTGATACATGTAACGTGGTGCT
50525784 AAGTGGATATACCACAGTTAA
66 AAGTGGATATACCACAGTTAA
*
50525805 ACATGTAATGTGGTGCTAAGTGGATATGC
1 ACATGTAACGTGGTGCTAAGTGGATATGC
50525834 TATGGTTATA
Statistics
Matches: 105, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
85 59 0.56
86 46 0.44
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.28
Consensus pattern (86 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACACATATTGATACATGTAACGTGGTGCT
AAGTGGATATACCACAGTTAA
Found at i:50529119 original size:15 final size:15
Alignment explanation
Indices: 50529090--50529134 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
50529080 AGTGCTGTAA
50529090 ATGGAATTTCCTTATC
1 ATGG-ATTTCCTTATC
*
50529106 ATGGATTTCTTTATC
1 ATGGATTTCCTTATC
*
50529121 TTGGATTTCCTTAT
1 ATGGATTTCCTTAT
50529135 TCTGGGCTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 22 0.85
16 4 0.15
ACGTcount: A:0.20, C:0.16, G:0.13, T:0.51
Consensus pattern (15 bp):
ATGGATTTCCTTATC
Found at i:50531952 original size:48 final size:48
Alignment explanation
Indices: 50531876--50532061 Score: 250
Period size: 48 Copynumber: 3.9 Consensus size: 48
50531866 TACCACGGTT
* * * *
50531876 ATACGTGTAACGTGGTGCTAAGTGGATATACAATGATTAGAAATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACAAATATTG
* * *
50531924 ATACATGTAACGTGGTGCTAAGCGGATATACCACAATTACACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACAAATATTG
* * *
50531972 ATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACAAATATTG
* *
50532020 ATTCAT-TAACGTGGTGCTAAGTGGATATACCACGGTTA-AAAT
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACAAAT
50532062 GTAATGTGGT
Statistics
Matches: 123, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
46 3 0.02
47 31 0.25
48 89 0.72
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACAAATATTG
Found at i:50534439 original size:42 final size:42
Alignment explanation
Indices: 50534380--50534461 Score: 155
Period size: 42 Copynumber: 2.0 Consensus size: 42
50534370 CTGGTGGGTG
50534380 ACATCCATAAAGGGTTGTACCAAGTTGATACATCACCACAAC
1 ACATCCATAAAGGGTTGTACCAAGTTGATACATCACCACAAC
*
50534422 ACATCCATAAAGGGTTGTACCAATTTGATACATCACCACA
1 ACATCCATAAAGGGTTGTACCAAGTTGATACATCACCACA
50534462 GCAAAGAGGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.23
Consensus pattern (42 bp):
ACATCCATAAAGGGTTGTACCAAGTTGATACATCACCACAAC
Found at i:50543307 original size:44 final size:44
Alignment explanation
Indices: 50543243--50543415 Score: 198
Period size: 43 Copynumber: 4.0 Consensus size: 44
50543233 CATAGGATTT
* *
50543243 TCGATATGTGATAT-CGTGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATTTGATTTACGTGTAAGACCACGTCTGGGACGTTGGCA
* *
50543286 TCGAT-TTTGTATTTACGTGTAAGACCATGTCTGGGACATTGGCA
1 TCGATATTTG-ATTTACGTGTAAGACCACGTCTGGGACGTTGGCA
*
50543330 TCG-TATTTGATTT-CGTGTAAGACC-CTATCTGGGACAG-TGGCA
1 TCGATATTTGATTTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCA
* * *
50543372 TCGATATTTGA-TTACATGTAAGACCACGTCTAGGACGTTAGCA
1 TCGATATTTGATTTACGTGTAAGACCACGTCTGGGACGTTGGCA
50543415 T
1 T
50543416 TGTACGAGCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 33 0.30
43 42 0.38
44 35 0.32
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (44 bp):
TCGATATTTGATTTACGTGTAAGACCACGTCTGGGACGTTGGCA
Found at i:50543361 original size:42 final size:42
Alignment explanation
Indices: 50543251--50543396 Score: 170
Period size: 44 Copynumber: 3.4 Consensus size: 42
50543241 TTTCGATATG
* *
50543251 TGATATCGTGTAAGACCAC-GTCTGGGACGTTGGCATCG-ATTT
1 TGATTTCGTGTAAGACC-CTGTCTGGGACATTGGCATCGTA-TT
*
50543293 TGTATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATT
1 TG-ATTT-CGTGTAAGACCCTGTCTGGGACATTGGCATCGTATT
* *
50543337 TGATTTCGTGTAAGACCCTATCTGGGACAGTGGCATCGATATT
1 TGATTTCGTGTAAGACCCTGTCTGGGACATTGGCATCG-TATT
* *
50543380 TGATTACATGTAAGACC
1 TGATTTCGTGTAAGACC
50543397 ACGTCTAGGA
Statistics
Matches: 91, Mismatches: 8, Indels: 9
0.84 0.07 0.08
Matches are distributed among these distances:
42 31 0.34
43 26 0.29
44 33 0.36
45 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCCTGTCTGGGACATTGGCATCGTATT
Found at i:50543394 original size:43 final size:43
Alignment explanation
Indices: 50543243--50543397 Score: 174
Period size: 42 Copynumber: 3.6 Consensus size: 43
50543233 CATAGGATTT
* **
50543243 TCGATATGTGA-TATCGTGTAAGACCACGTCTGGGAC-GTTGGCA
1 TCGATATTTGATTA-CGTGTAAGACCATATCTGGGACAG-TGGCA
* *
50543286 TCGAT-TTTGTATTTACGTGTAAGACCATGTCTGGGACATTGGCA
1 TCGATATTTG-A-TTACGTGTAAGACCATATCTGGGACAGTGGCA
* *
50543330 TCG-TATTTGATTTCGTGTAAGACCCTATCTGGGACAGTGGCA
1 TCGATATTTGATTACGTGTAAGACCATATCTGGGACAGTGGCA
*
50543372 TCGATATTTGATTACATGTAAGACCA
1 TCGATATTTGATTACGTGTAAGACCA
50543398 CGTCTAGGAC
Statistics
Matches: 96, Mismatches: 10, Indels: 12
0.81 0.08 0.10
Matches are distributed among these distances:
42 34 0.35
43 27 0.28
44 33 0.34
45 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (43 bp):
TCGATATTTGATTACGTGTAAGACCATATCTGGGACAGTGGCA
Found at i:50557196 original size:40 final size:40
Alignment explanation
Indices: 50557152--50557335 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
50557142 GCTACTCATT
*
50557152 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
50557192 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
50557232 C-CATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
50557270 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
50557311 CAAA-GCCTTTGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
50557336 CATCATTCGA
Statistics
Matches: 124, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 25 0.20
39 19 0.15
40 67 0.54
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:50557273 original size:78 final size:81
Alignment explanation
Indices: 50557154--50557335 Score: 230
Period size: 78 Copynumber: 2.3 Consensus size: 81
50557144 TACTCATTCA
* *
50557154 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
*
50557217 ATTTAATAAC-TCGCAC
65 ATTTAATAACTTAGCAC
* **
50557233 CATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
50557296 TTTAGTCACTTAGCAC
66 TTTAATAACTTAGCAC
* *
50557312 AAAGCCTTTGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
50557336 CATCATTCGA
Statistics
Matches: 88, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
77 3 0.03
78 48 0.55
79 26 0.30
80 11 0.12
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TTTAATAACTTAGCAC
Found at i:50562609 original size:42 final size:43
Alignment explanation
Indices: 50562508--50562626 Score: 136
Period size: 43 Copynumber: 2.8 Consensus size: 43
50562498 AGCTCATACA
* *** *
50562508 ATGCCAACATCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACAAAATCAAAGATCG
*
50562551 ATGCC-ACTGCCCCAGACAG-GGTCTTACACAAAATCAAAGAT-G
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACAAAATCAAAGATCG
50562593 ATGCCAACGTCCCAGACGTGGTCTTACACTAAAA
1 ATGCCAACGTCCCAGACGTGGTCTTACAC-AAAA
50562627 CACATATCGG
Statistics
Matches: 64, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
41 1 0.02
42 26 0.41
43 36 0.56
44 1 0.02
ACGTcount: A:0.34, C:0.28, G:0.18, T:0.21
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACAAAATCAAAGATCG
Found at i:50566575 original size:40 final size:40
Alignment explanation
Indices: 50566516--50566723 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 40
50566506 CAATTGAATG
* * * *
50566516 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * ** *
50566556 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
50566596 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
50566636 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
50566676 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
50566716 ATATCCGG
1 ATATCCGG
50566724 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 28, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 140 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:50566654 original size:80 final size:80
Alignment explanation
Indices: 50566517--50566723 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
50566507 AATTGAATGA
* * ** * * *
50566517 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
50566582 TTGTGCTAG-CG-AC
66 TTGTGCAAGTCGTAC
* * *
50566595 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
50566660 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
50566677 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
50566724 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 104 0.95
81 2 0.02
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:50570972 original size:11 final size:11
Alignment explanation
Indices: 50570956--50570986 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
50570946 TAATAGCCAG
50570956 ATCTCAAATCT
1 ATCTCAAATCT
50570967 ATCTCAAATCT
1 ATCTCAAATCT
50570978 ATCTTCAAA
1 ATC-TCAAA
50570987 AACACTGTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.74
12 5 0.26
ACGTcount: A:0.39, C:0.26, G:0.00, T:0.35
Consensus pattern (11 bp):
ATCTCAAATCT
Found at i:50575269 original size:19 final size:19
Alignment explanation
Indices: 50575245--50575282 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
50575235 ACTCCAATAC
50575245 AAAACACATCTTTAATATT
1 AAAACACATCTTTAATATT
*
50575264 AAAACATATCTTTAATATT
1 AAAACACATCTTTAATATT
50575283 TCATCATCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAACACATCTTTAATATT
Found at i:50576494 original size:56 final size:56
Alignment explanation
Indices: 50576431--50576551 Score: 188
Period size: 56 Copynumber: 2.2 Consensus size: 56
50576421 CATGGCATCA
*
50576431 ATATATGTGTGCAAGTAAGACCACATTTAACACGTTGGCATTGATACGTGATTCCG
1 ATATATGTGTGCAAGTAAGACCACATTTAACACGTTGGCATCGATACGTGATTCCG
* * * * *
50576487 ATATATGTGTGCGAGTAAGACCACATTTAATATGTTGGCATCGATATGTGATTCTG
1 ATATATGTGTGCAAGTAAGACCACATTTAACACGTTGGCATCGATACGTGATTCCG
50576543 ATATATGTG
1 ATATATGTG
50576552 ATTACATGTA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (56 bp):
ATATATGTGTGCAAGTAAGACCACATTTAACACGTTGGCATCGATACGTGATTCCG
Found at i:50579018 original size:46 final size:46
Alignment explanation
Indices: 50578968--50579143 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
50578958 TGGTTGAGCA
50578968 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
50579014 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
50579059 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
50579107 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
50579144 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:50579124 original size:93 final size:93
Alignment explanation
Indices: 50578965--50579135 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
50578955 GGATGGTTGA
* *
50578965 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
50579030 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
50579058 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
50579123 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
50579136 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:50582112 original size:15 final size:15
Alignment explanation
Indices: 50582092--50582160 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
50582082 GTATCTTGGG
50582092 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
50582107 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
50582122 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
50582137 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
50582152 TTTCTTTAT
1 TTTCTTTAT
50582161 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:50582161 original size:30 final size:30
Alignment explanation
Indices: 50582083--50582170 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
50582073 CATAGTATCG
* * * *
50582083 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
50582113 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
50582143 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
50582171 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:50584583 original size:46 final size:46
Alignment explanation
Indices: 50584533--50584708 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
50584523 TGGTTGAGCA
50584533 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
50584579 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
50584624 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
50584672 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
50584709 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:50584689 original size:93 final size:93
Alignment explanation
Indices: 50584530--50584700 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
50584520 GGATGGTTGA
* *
50584530 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
50584595 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
50584623 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
50584688 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
50584701 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:50590987 original size:39 final size:38
Alignment explanation
Indices: 50590838--50590980 Score: 187
Period size: 39 Copynumber: 3.7 Consensus size: 38
50590828 AAGTGATTAT
* *
50590838 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA
1 ATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA
* * *
50590877 ATTCTGGGCTAAGCCCGAAGGCATTGGTGCGAGTCACTA
1 A-TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTA
50590916 ATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTA
1 ATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTA
* * *
50590954 TAACCGGGCTATGTCCGAAGGCATTTG
1 -ATCCGGGCTAAGCCCGAAGGCATTTG
50590981 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
38 34 0.37
39 48 0.53
40 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.24
Consensus pattern (38 bp):
ATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTA
Found at i:50590987 original size:77 final size:78
Alignment explanation
Indices: 50590838--50590987 Score: 196
Period size: 77 Copynumber: 1.9 Consensus size: 78
50590828 AAGTGATTAT
* * *
50590838 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTCTGGGCTAAGCCCGAAGGCATTG
1 ATCCGGACTAAGACCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTG
**
50590903 GTGCGAGTCACTA
66 GAACGAGTCACTA
* * *
50590916 ATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCGAAGGCATT
1 ATCCGGACTAAGACCCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAGCCCGAAGGCATT
*
50590979 TGAACGAGT
65 GGAACGAGT
50590988 AGCTATATCC
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
76 2 0.03
77 49 0.79
78 11 0.18
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (78 bp):
ATCCGGACTAAGACCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTG
GAACGAGTCACTA
Found at i:50598581 original size:29 final size:29
Alignment explanation
Indices: 50598548--50598679 Score: 165
Period size: 29 Copynumber: 4.6 Consensus size: 29
50598538 GTGACGAGAT
50598548 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
50598577 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
50598606 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
50598635 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
50598664 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
50598680 GGCTTAAATT
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 89 1.00
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:50606595 original size:29 final size:29
Alignment explanation
Indices: 50606562--50606693 Score: 165
Period size: 29 Copynumber: 4.6 Consensus size: 29
50606552 GTGACGAGAT
50606562 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
50606591 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
50606620 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
50606649 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
50606678 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
50606694 GGCTTAAATT
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 89 1.00
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:50609082 original size:27 final size:27
Alignment explanation
Indices: 50609022--50609075 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
50609012 GCATAGACTT
*
50609022 AAAAACATTAAATGTTACCTAAATGTT
1 AAAAACATTAAATGTTACCTAAATGTC
*
50609049 AAAAACATTAAATGTTACCTAATTGTC
1 AAAAACATTAAATGTTACCTAAATGTC
50609076 CTGAACACGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.33
Consensus pattern (27 bp):
AAAAACATTAAATGTTACCTAAATGTC
Found at i:50621850 original size:13 final size:13
Alignment explanation
Indices: 50621832--50621857 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50621822 TAGATTTTAG
50621832 CTAAGAAAATTAA
1 CTAAGAAAATTAA
50621845 CTAAGAAAATTAA
1 CTAAGAAAATTAA
50621858 AAAGGTAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (13 bp):
CTAAGAAAATTAA
Found at i:50628213 original size:23 final size:23
Alignment explanation
Indices: 50628187--50628238 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
50628177 GTCCCCGTCG
50628187 TAAAATAATAA-GTTTTTAGAAAA
1 TAAAATAATAATGTTTTTAG-AAA
*
50628210 TAAACA-AATAATGTTTTTAGTAA
1 TAAA-ATAATAATGTTTTTAGAAA
50628233 TAAAAT
1 TAAAAT
50628239 CAAACACGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
22 1 0.04
23 15 0.60
24 9 0.36
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.37
Consensus pattern (23 bp):
TAAAATAATAATGTTTTTAGAAA
Found at i:50628548 original size:25 final size:25
Alignment explanation
Indices: 50628520--50628568 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
50628510 TAAGGACACG
*
50628520 TTTAGGTTCGTCTACTAATATAATA
1 TTTAGGTTCATCTACTAATATAATA
50628545 TTTAGGTTCATCTACTAATATAAT
1 TTTAGGTTCATCTACTAATATAAT
50628569 GTCTGATTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (25 bp):
TTTAGGTTCATCTACTAATATAATA
Found at i:50631005 original size:15 final size:15
Alignment explanation
Indices: 50630985--50631023 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
50630975 TTAGGTTGAT
*
50630985 AAAATTATTTAATTA
1 AAAATTAATTAATTA
50631000 AAAATTAATTAATT-
1 AAAATTAATTAATTA
*
50631014 TAAATTAATT
1 AAAATTAATT
50631024 CAGTAAATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
AAAATTAATTAATTA
Found at i:50637828 original size:40 final size:40
Alignment explanation
Indices: 50637772--50637863 Score: 166
Period size: 40 Copynumber: 2.3 Consensus size: 40
50637762 GAGTCGTTTT
*
50637772 TCTTTGTCATTAATAACTTAATTACTATTTGATAGTAATTG
1 TCTTT-TCATGAATAACTTAATTACTATTTGATAGTAATTG
50637813 TCTTTTCATGAATAACTTAATTACTATTTGATAGTAATTG
1 TCTTTTCATGAATAACTTAATTACTATTTGATAGTAATTG
50637853 TCTTTTCATGA
1 TCTTTTCATGA
50637864 TTCTTTGTCA
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
40 45 0.90
41 5 0.10
ACGTcount: A:0.30, C:0.11, G:0.10, T:0.49
Consensus pattern (40 bp):
TCTTTTCATGAATAACTTAATTACTATTTGATAGTAATTG
Found at i:50638450 original size:30 final size:30
Alignment explanation
Indices: 50638416--50638478 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
50638406 ATTTATTTTA
50638416 TTGTTAATTTTCTTATTATTTT-AAAGACAT
1 TTGTTAATTTTCTTATTATTTTAAAAG-CAT
*
50638446 TTGTTAATTTTTTTATTATTTTAAAAGCAT
1 TTGTTAATTTTCTTATTATTTTAAAAGCAT
50638476 TTG
1 TTG
50638479 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 27 0.87
31 4 0.13
ACGTcount: A:0.29, C:0.05, G:0.08, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAAAAGCAT
Found at i:50644590 original size:32 final size:32
Alignment explanation
Indices: 50644549--50644612 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
50644539 CATCAGTTAG
50644549 AGCATTTCCAACCTGCATATTATGTACACATC
1 AGCATTTCCAACCTGCATATTATGTACACATC
50644581 AGCATTTCCAACCTGCATATTATGTACACATC
1 AGCATTTCCAACCTGCATATTATGTACACATC
50644613 CATGTTTCAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.28, G:0.09, T:0.31
Consensus pattern (32 bp):
AGCATTTCCAACCTGCATATTATGTACACATC
Found at i:50647286 original size:31 final size:31
Alignment explanation
Indices: 50647251--50647311 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
50647241 CTGCTTGCTT
*
50647251 GCTTGCTTTGTTGGTTTCTGTCATGCTGTTG
1 GCTTGCTTTGTTAGTTTCTGTCATGCTGTTG
50647282 GCTTGCTTTGTTAGTTTCTGTCATGCTGTT
1 GCTTGCTTTGTTAGTTTCTGTCATGCTGTT
50647312 TGTGCGAAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.05, C:0.16, G:0.26, T:0.52
Consensus pattern (31 bp):
GCTTGCTTTGTTAGTTTCTGTCATGCTGTTG
Found at i:50647587 original size:11 final size:11
Alignment explanation
Indices: 50647566--50647612 Score: 58
Period size: 11 Copynumber: 4.3 Consensus size: 11
50647556 CAACTGTTTC
*
50647566 GTTATTGTTTT
1 GTTATTATTTT
50647577 GTTATTATTTT
1 GTTATTATTTT
* *
50647588 ATTATTATATT
1 GTTATTATTTT
*
50647599 ATTATTATTTT
1 GTTATTATTTT
50647610 GTT
1 GTT
50647613 GTTACAGTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.70
Consensus pattern (11 bp):
GTTATTATTTT
Found at i:50648079 original size:24 final size:23
Alignment explanation
Indices: 50648052--50648096 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
50648042 ATTAAAAAAA
50648052 CTTTATAATATTAAAATTTTATAG
1 CTTTATAATA-TAAAATTTTATAG
* * *
50648076 CTTTTTATTATAAATTTTTAT
1 CTTTATAATATAAAATTTTAT
50648097 TTTTTTATGA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 10 0.56
24 8 0.44
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (23 bp):
CTTTATAATATAAAATTTTATAG
Found at i:50648782 original size:21 final size:21
Alignment explanation
Indices: 50648752--50648795 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
50648742 TAAAATATAT
* *
50648752 AAATATATAAATATAATTAAA
1 AAATAAATAAATATAAATAAA
*
50648773 AAATAAATAAATTTAAATAAA
1 AAATAAATAAATATAAATAAA
50648794 AA
1 AA
50648796 CTTTGTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
AAATAAATAAATATAAATAAA
Found at i:50653480 original size:28 final size:28
Alignment explanation
Indices: 50653428--50653481 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
50653418 TATTCACTAC
**
50653428 TCCCAAATTGGTACTCAAGGTTTTTTTG
1 TCCCAAATTGGTACTCAAGCATTTTTTG
50653456 TCCCAAATTGGTACTCGAA-CATTTTT
1 TCCCAAATTGGTACTC-AAGCATTTTT
50653482 CAGTAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 21 0.91
29 2 0.09
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (28 bp):
TCCCAAATTGGTACTCAAGCATTTTTTG
Found at i:50656879 original size:29 final size:29
Alignment explanation
Indices: 50656846--50657005 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
50656836 GTGACGAGAT
50656846 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
50656875 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
50656904 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
50656933 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
50656962 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
50656991 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
50657006 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:50664964 original size:29 final size:29
Alignment explanation
Indices: 50664931--50665090 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
50664921 GTGACGAGAT
50664931 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
50664960 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
50664989 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
50665018 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
50665047 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
50665076 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
50665091 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:50668500 original size:46 final size:46
Alignment explanation
Indices: 50668450--50668622 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
50668440 TGGTTGAGCA
*
50668450 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
50668496 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
50668543 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
50668589 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
50668623 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Done.