Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 70 of 250
Found at i:21630694 original size:47 final size:47
Alignment explanation
Indices: 21630633--21630762 Score: 172
Period size: 47 Copynumber: 2.8 Consensus size: 47
21630623 GTATGAATAA
* * *
21630633 TACCTTGATGTGGCTACAGGCCATGGTATAGGTATTCAT-AGAGGAGT
1 TACCTTGATTTGGCTACAGGCCATGGTATAGGTACT-ATGAGAGAAGT
* *
21630680 TACCTTGATTTGGCTACAGGCCATGGTATAGGTACTATGGGATAAGT
1 TACCTTGATTTGGCTACAGGCCATGGTATAGGTACTATGAGAGAAGT
* * *
21630727 TATCTTGATTTGGTTACGGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTACAGGCCATGGTATAGGTACT
21630763 TATCAATTGT
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
46 2 0.03
47 72 0.97
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (47 bp):
TACCTTGATTTGGCTACAGGCCATGGTATAGGTACTATGAGAGAAGT
Found at i:21633893 original size:10 final size:10
Alignment explanation
Indices: 21633878--21633902 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
21633868 AAGCTCGGAC
21633878 TCAGGGATTG
1 TCAGGGATTG
21633888 TCAGGGATTG
1 TCAGGGATTG
21633898 TCAGG
1 TCAGG
21633903 AACTTTCATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.12, G:0.40, T:0.28
Consensus pattern (10 bp):
TCAGGGATTG
Found at i:21641520 original size:71 final size:71
Alignment explanation
Indices: 21641404--21641616 Score: 243
Period size: 71 Copynumber: 3.0 Consensus size: 71
21641394 CGAACCTTAG
** * *
21641404 TTTTACATTTGGGAGCTTTGCTCTCGCTAACTGTGTTGGATGTCACGGCTCTTCGCCTAAGAACC
1 TTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGTCACGGCTCTTCGCCTACGAACC
21641469 TTAATT
66 TTAATT
* * * * * *
21641475 TTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTATTAGAGGTCACAGCTATTCACGTACGAA-C
1 TTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGTCACGGCTCTTCGCCTACGAACC
21641539 TTGAA--
66 TT-AATT
* * * ** * *
21641544 TTTTACCGCTAGGAGCTTTGCTCTCGCTAACTATGTTGGAGGTCGTGGCTCTTCGCTTGCGAACC
1 TTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGTCACGGCTCTTCGCCTACGAACC
21641609 TTAATT
66 TTAATT
21641615 TT
1 TT
21641617 ACAGGCGATA
Statistics
Matches: 116, Mismatches: 22, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
69 53 0.46
70 6 0.05
71 57 0.49
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (71 bp):
TTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGTCACGGCTCTTCGCCTACGAACC
TTAATT
Found at i:21641607 original size:69 final size:69
Alignment explanation
Indices: 21641394--21641620 Score: 249
Period size: 69 Copynumber: 3.3 Consensus size: 69
21641384 CTTTTACATG
* ** * *
21641394 CGAACCTTAGTTTTACATTTGGGAGCTTTGCTCTCGCTAACTGTGTTGGATGTCACGGCTCTTCG
1 CGAACCTTAATTTTACAGCTAGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGTCACGGCTCTTCG
21641459 CCTA
66 CCTA
* * * * * *
21641463 AGAACCTTAATTTTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTATTAGAGGTCACAGCTATT
1 CGAACCTTAA--TTTTACAGCTAGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGTCACGGCTCTT
* *
21641528 CACGTA
64 CGCCTA
* * **
21641534 CGAA-CTTGAATTTTACCGCTAGGAGCTTTGCTCTCGCTAACTATGTTGGAGGTCGTGGCTCTTC
1 CGAACCTT-AATTTTACAGCTAGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGTCACGGCTCTTC
* *
21641598 GCTTG
65 GCCTA
21641603 CGAACCTTAATTTTACAG
1 CGAACCTTAATTTTACAG
21641621 GCGATATTTT
Statistics
Matches: 129, Mismatches: 25, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
69 68 0.53
70 6 0.05
71 55 0.43
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (69 bp):
CGAACCTTAATTTTACAGCTAGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGTCACGGCTCTTCG
CCTA
Found at i:21650839 original size:30 final size:31
Alignment explanation
Indices: 21650781--21650840 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
21650771 ATAGTAAAAG
* *
21650781 AAACGAGCTGGAAATAAGCTAAATTGAGCTC
1 AAACGAGCTGGAAACAAGCTAAAGTGAGCTC
*
21650812 AAACGAGCT-GAAACAAGCTCAAGTGAGCT
1 AAACGAGCTGGAAACAAGCTAAAGTGAGCT
21650841 GATTGGAGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.42, C:0.18, G:0.23, T:0.17
Consensus pattern (31 bp):
AAACGAGCTGGAAACAAGCTAAAGTGAGCTC
Found at i:21657594 original size:12 final size:12
Alignment explanation
Indices: 21657577--21657608 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
21657567 GAAAAAGGGG
21657577 GAAAGAAAAAGA
1 GAAAGAAAAAGA
21657589 GAAAGAAAAAGA
1 GAAAGAAAAAGA
*
21657601 AAAAGAAA
1 GAAAGAAA
21657609 GGGAAATTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (12 bp):
GAAAGAAAAAGA
Found at i:21658343 original size:22 final size:22
Alignment explanation
Indices: 21658302--21658343 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
21658292 ATATTTGAGC
*
21658302 ATTGGTATTGAATTTAAATTGA
1 ATTGGTATTGAATCTAAATTGA
* *
21658324 ATTGGTATTTAATCTGAATT
1 ATTGGTATTGAATCTAAATT
21658344 TTAATTATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (22 bp):
ATTGGTATTGAATCTAAATTGA
Found at i:21658558 original size:23 final size:23
Alignment explanation
Indices: 21658519--21658562 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
21658509 GAAATTAATA
21658519 TGAATATGTGATTATTGTAAAATT
1 TGAATATGTGATTATTG-AAAATT
*
21658543 TGAATAT-TTATTATTGAAAA
1 TGAATATGTGATTATTGAAAA
21658563 GTAAAGTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 8 0.42
24 7 0.37
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (23 bp):
TGAATATGTGATTATTGAAAATT
Found at i:21658761 original size:44 final size:44
Alignment explanation
Indices: 21658712--21658803 Score: 139
Period size: 44 Copynumber: 2.1 Consensus size: 44
21658702 TGTTCAGGGA
* *
21658712 TACTTTGACCTTGAGTCGATGAGGCACTATAAGTGTCGTACTGT
1 TACTTTGACCTTGAGTCGATGAGGCACCATAAGTGTCGTACTGC
* **
21658756 TACTTTGACTTTGAGTCGATGAGGCACCATGTGTGTCGTACTGC
1 TACTTTGACCTTGAGTCGATGAGGCACCATAAGTGTCGTACTGC
21658800 TACT
1 TACT
21658804 GTTACTTCGG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.35
Consensus pattern (44 bp):
TACTTTGACCTTGAGTCGATGAGGCACCATAAGTGTCGTACTGC
Found at i:21659865 original size:19 final size:19
Alignment explanation
Indices: 21659841--21659877 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
21659831 TCAAAGAGTT
21659841 ACACGGGCTCTCAACACGG
1 ACACGGGCTCTCAACACGG
21659860 ACACGGGCTCTCAACACG
1 ACACGGGCTCTCAACACG
21659878 ATGACCTAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.38, G:0.24, T:0.11
Consensus pattern (19 bp):
ACACGGGCTCTCAACACGG
Found at i:21659912 original size:21 final size:21
Alignment explanation
Indices: 21659883--21659923 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
21659873 ACACGATGAC
* *
21659883 CTAGCGACATGGCCGTGTGAT
1 CTAGAGACACGGCCGTGTGAT
*
21659904 CTAGAGACACGGCTGTGTGA
1 CTAGAGACACGGCCGTGTGA
21659924 GTCACACGGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.22, G:0.34, T:0.22
Consensus pattern (21 bp):
CTAGAGACACGGCCGTGTGAT
Found at i:21660297 original size:21 final size:19
Alignment explanation
Indices: 21660271--21660319 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
21660261 CTTCCTTTTC
21660271 TTCTTTTCTTCTCTTCACCTT
1 TTCTTTTCTTCTC-TC-CCTT
* *
21660292 TTCTTTTATTTTCTCCCTT
1 TTCTTTTCTTCTCTCCCTT
*
21660311 TTCCTTTCT
1 TTCTTTTCT
21660320 CTTCCTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 11 0.46
20 2 0.08
21 11 0.46
ACGTcount: A:0.04, C:0.31, G:0.00, T:0.65
Consensus pattern (19 bp):
TTCTTTTCTTCTCTCCCTT
Found at i:21661125 original size:17 final size:17
Alignment explanation
Indices: 21661099--21661133 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
21661089 GTTATCACAA
*
21661099 TTGTTCTATGTTAAATT
1 TTGTTATATGTTAAATT
21661116 TTGTTATATGTTAAATT
1 TTGTTATATGTTAAATT
21661133 T
1 T
21661134 GAAATTACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.03, G:0.11, T:0.60
Consensus pattern (17 bp):
TTGTTATATGTTAAATT
Found at i:21663884 original size:55 final size:55
Alignment explanation
Indices: 21663815--21664003 Score: 243
Period size: 55 Copynumber: 3.4 Consensus size: 55
21663805 GTGCCCTTAG
* * * * * *
21663815 CCCGTGTGCAACACTGACTTAAAAACACGGCCATGACACATGCTCGTGTGGCCTA
1 CCCGTGTACGACACTGACTTTAAAACACGGCCTTGACACACGCCCGTGTGGCCTA
* *
21663870 CCCGTGTACGACACTGACTTTAAAACACGGCCTTGACACACGCCCGTGTAGCCTG
1 CCCGTGTACGACACTGACTTTAAAACACGGCCTTGACACACGCCCGTGTGGCCTA
* * *
21663925 CCCGTGTACGACACTGACTTTAAAACACGGCCTTGATACACGCCCGTGTGGCTTG
1 CCCGTGTACGACACTGACTTTAAAACACGGCCTTGACACACGCCCGTGTGGCCTA
* * * *
21663980 CTCGTGTTCAACACTAACTTTAAA
1 CCCGTGTACGACACTGACTTTAAA
21664004 TTTTAAGTAC
Statistics
Matches: 119, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 119 1.00
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.23
Consensus pattern (55 bp):
CCCGTGTACGACACTGACTTTAAAACACGGCCTTGACACACGCCCGTGTGGCCTA
Found at i:21664987 original size:48 final size:48
Alignment explanation
Indices: 21664780--21665031 Score: 202
Period size: 44 Copynumber: 5.4 Consensus size: 48
21664770 TGCCATGTTT
* *
21664780 CAGACTTGGTCTTACACTAGCTATCATCATCGAGGCTGATGCCATGTCC
1 CAGACATGGTCTTACACTAGCTATCATCATTGAGGCTGATG-CATGTCC
* * * ** * *
21664829 TAGACAGGGTCTTATACTAGCCCTCTTCTATATG-TGCTGATGCATGTCC
1 CAGACATGGTCTTACACTAGCTATCATC-AT-TGAGGCTGATGCATGTCC
* * *
21664878 CAAACAT-GTCTTACACTAGC-A-CAACTC-TT-A-GCCGATGCGTGTCC
1 CAGACATGGTCTTACACTAGCTATC-A-TCATTGAGGCTGATGCATGTCC
* * * *
21664922 CAAACA-CGTCTTACACTGGCTATCATCATTGAGGCTGATACATGTCC
1 CAGACATGGTCTTACACTAGCTATCATCATTGAGGCTGATGCATGTCC
* * * *
21664969 CAGACATGGTCTTACACTGGCTA-CAT-ATTGTGGCCGATGCATGTCT
1 CAGACATGGTCTTACACTAGCTATCATCATTGAGGCTGATGCATGTCC
21665015 CAGACAT-GTCTTACACT
1 CAGACATGGTCTTACACT
21665032 GGCACACAAG
Statistics
Matches: 164, Mismatches: 27, Indels: 28
0.75 0.12 0.13
Matches are distributed among these distances:
44 32 0.20
45 15 0.09
46 27 0.16
47 19 0.12
48 29 0.18
49 32 0.20
50 9 0.05
51 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (48 bp):
CAGACATGGTCTTACACTAGCTATCATCATTGAGGCTGATGCATGTCC
Found at i:21665033 original size:93 final size:91
Alignment explanation
Indices: 21664864--21665034 Score: 220
Period size: 93 Copynumber: 1.9 Consensus size: 91
21664854 TTCTATATGT
* *
21664864 GCTGATGCATGTCCCAAACATGTCTTACACTAGCACAACTCTTAGCCGATGCGTGTCCCAAACAC
1 GCTGATACATGTCCCAAACATGTCTTACACTAGCACAACTCTTAGCCGATGCATGTCCCAAACAC
21664929 GTCTTACACTGGCTATCATCATTGAG
66 GTCTTACACTGGCTATCATCATTGAG
* * * * *
21664955 GCTGATACATGTCCCAGACATGGTCTTACACTGGCTACATA-T-TGTGGCCGATGCATGTCTCAG
1 GCTGATACATGTCCCAAACAT-GTCTTACACTAGC-ACA-ACTCT-TAGCCGATGCATGTCCCAA
*
21665018 ACATGTCTTACACTGGC
62 ACACGTCTTACACTGGC
21665035 ACACAAGTAA
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
91 19 0.28
92 13 0.19
93 35 0.51
94 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (91 bp):
GCTGATACATGTCCCAAACATGTCTTACACTAGCACAACTCTTAGCCGATGCATGTCCCAAACAC
GTCTTACACTGGCTATCATCATTGAG
Found at i:21665416 original size:30 final size:30
Alignment explanation
Indices: 21665376--21665432 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
21665366 AATTCACATA
* *
21665376 TTTGGTAAAATGACCATTTTGCCCCTAGAC
1 TTTGGCAAAATGACCATTTTACCCCTAGAC
21665406 TTTGGCAAAATGACCATTTTACCCCTA
1 TTTGGCAAAATGACCATTTTACCCCTA
21665433 TGCTAGAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (30 bp):
TTTGGCAAAATGACCATTTTACCCCTAGAC
Found at i:21667820 original size:18 final size:20
Alignment explanation
Indices: 21667797--21667839 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
21667787 TAAAATTGGA
*
21667797 AATTTTATAAA-TA-TTTTG
1 AATTTTAAAAACTATTTTTG
21667815 AATTTTAAAAACTATTTTTG
1 AATTTTAAAAACTATTTTTG
21667835 AATTT
1 AATTT
21667840 CTTTTTGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.45
19 2 0.09
20 10 0.45
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (20 bp):
AATTTTAAAAACTATTTTTG
Found at i:21680011 original size:31 final size:31
Alignment explanation
Indices: 21679976--21680040 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
21679966 GGCCGATAAA
21679976 GTCTGTAAGAATTGTCCTTTGACGATTCGGG
1 GTCTGTAAGAATTGTCCTTTGACGATTCGGG
21680007 GTCTGTAAGAATTGTCCTTTGACGATTCGGG
1 GTCTGTAAGAATTGTCCTTTGACGATTCGGG
21680038 GTC
1 GTC
21680041 ATTGCTTTCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.18, C:0.17, G:0.29, T:0.35
Consensus pattern (31 bp):
GTCTGTAAGAATTGTCCTTTGACGATTCGGG
Found at i:21687087 original size:43 final size:43
Alignment explanation
Indices: 21687024--21687109 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
21687014 TTTGTGATTC
* *
21687024 CGATATGTGTTTACGAGTAAGACC-CTGTCTGGGACAATGGCAT
1 CGATATGTGGTTACGAGTAAGACCAC-GTCTAGGACAATGGCAT
* *
21687067 CGATATGTGGTTAC-ATGTAAGGCCACGTCTAGGACATTGGCAT
1 CGATATGTGGTTACGA-GTAAGACCACGTCTAGGACAATGGCAT
21687110 TGTATGATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
42 1 0.03
43 35 0.95
44 1 0.03
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (43 bp):
CGATATGTGGTTACGAGTAAGACCACGTCTAGGACAATGGCAT
Found at i:21703446 original size:30 final size:30
Alignment explanation
Indices: 21703412--21703469 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
21703402 TTTTCGGGCA
* * *
21703412 TAGGGGTAAAATGGTCATTTTGCCAAAGTC
1 TAGGGGCAAAATAGTCATTTTACCAAAGTC
21703442 TAGGGGCAAAATAGTCATTTTACCAAAG
1 TAGGGGCAAAATAGTCATTTTACCAAAG
21703470 ATGTAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATAGTCATTTTACCAAAGTC
Found at i:21703882 original size:47 final size:46
Alignment explanation
Indices: 21703809--21704031 Score: 177
Period size: 47 Copynumber: 4.8 Consensus size: 46
21703799 TGATTTGTGC
* * *
21703809 GCCAATGTAAGACATGCCTGGGACATGCTTCGGCCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGA
*
21703855 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-G--ACATCTA-GACAAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACAT-TATG---AGA
* ** * * *
21703903 GCTAGTGTAAGACATGTCTGGGACATGCATCAACCATACTATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGA
* * ** *
21703949 GCCAGTGTAAGACCATGTCTGGGACATTTCATTGG-CACAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACA-TGCATCGGCCACA-TTATGAGA
* *
21703997 GCTAGTGTAAGACATGTCTGGGACATACATCGGCC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCC
21704032 TCGACAGAGA
Statistics
Matches: 140, Mismatches: 23, Indels: 27
0.74 0.12 0.14
Matches are distributed among these distances:
45 5 0.04
46 36 0.26
47 58 0.41
48 38 0.27
49 3 0.02
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGA
Found at i:21703975 original size:94 final size:93
Alignment explanation
Indices: 21703814--21704169 Score: 305
Period size: 94 Copynumber: 3.8 Consensus size: 93
21703804 TGTGCGCCAA
* * ** * *
21703814 TGTAAGACATGCCTGGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGA
1 TGTAAGACATGTCTGGGACATGCATCAACCATACTATGAGAGCCAGTGTAAGACCATGTCTGGGA
* *
21703879 CATGGCATCGACATCTAGACAAGGGCTAG
66 CATGGCATCGACATC-AGAGAAGTGCTAG
*
21703908 TGTAAGACATGTCTGGGACATGCATCAACCATACTATGATAGCCAGTGTAAGACCATGTCTGGGA
1 TGTAAGACATGTCTGGGACATGCATCAACCATACTATGAGAGCCAGTGTAAGACCATGTCTGGGA
** * *
21703973 CATTTCATTGGCA-CAGAGATGAGTGCTAG
66 CATGGCATCGACATCAGAGA--AGTGCTAG
* ** * **
21704002 TGTAAGACATGTCTGGGACATACATCGGCC-TCGAC-A-GAGATAGCTAGTGTAAGA-TGTGTCT
1 TGTAAGACATGTCTGGGACATGCATCAACCAT--ACTATGAG--AGCCAGTGTAAGACCATGTCT
* * * **
21704063 GGGATA-CGCATCGAC-TAAGAGTTGTGCTAG
62 GGGACATGGCATCGACATCAGAGAAGTGCTAG
* * * * *
21704093 TGTAAGACATGTCTAGGACATGCATCAACACGCGTA-TATGAGAGCTAGTGTAAGACCATATCTA
1 TGTAAGACATGTCTGGGACATGCATC-A-AC-CATACTATGAGAGCCAGTGTAAGACCATGTCTG
21704157 GGACATGGCATCG
63 GGACATGGCATCG
21704170 GTAATATATC
Statistics
Matches: 209, Mismatches: 38, Indels: 30
0.75 0.14 0.11
Matches are distributed among these distances:
91 31 0.15
92 17 0.08
93 24 0.11
94 122 0.58
95 15 0.07
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (93 bp):
TGTAAGACATGTCTGGGACATGCATCAACCATACTATGAGAGCCAGTGTAAGACCATGTCTGGGA
CATGGCATCGACATCAGAGAAGTGCTAG
Found at i:21704118 original size:44 final size:47
Alignment explanation
Indices: 21703814--21704118 Score: 172
Period size: 47 Copynumber: 6.6 Consensus size: 47
21703804 TGTGCGCCAA
* * * * *
21703814 TGTAAGACATGCCTGGGACATGCTTCGG-C-CACATTATGA-GAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGACTCACA-GA-GATGTGCTAG
* * * *
21703860 TGTAAGACCATGTCTGGGACATGGCATC-GACATC-TAGACAAGGGCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGAC-TCACAGAGATGTGCTAG
* * * * *
21703908 TGTAAGACATGTCTGGGACATGCATC-AAC-CATACTATGAT-AGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGACTCACA-GA-GATGTGCTAG
* *
21703954 TGTAAGACCATGTCTGGGACATTTCATTGG---CACAGAGATGAGTGCTAG
1 TGTAAGA-CATGTCTGGGACA-TGCATCGGACTCACAGAGAT--GTGCTAG
* * *
21704002 TGTAAGACATGTCTGGGACATACATCGGCCTCGACAGAGAT-AGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGGACTC-ACAGAGATGTGCTAG
** * * *
21704049 TGTAAGATGTGTCTGGGATACGCATC-GACT-A-AGAGTTGTGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGGACTCACAGAGATGTGCTAG
*
21704093 TGTAAGACATGTCTAGGACATGCATC
1 TGTAAGACATGTCTGGGACATGCATC
21704119 AACACGCGTA
Statistics
Matches: 203, Mismatches: 36, Indels: 42
0.72 0.13 0.15
Matches are distributed among these distances:
43 5 0.02
44 28 0.14
45 5 0.02
46 36 0.18
47 85 0.42
48 33 0.16
49 2 0.01
50 9 0.04
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (47 bp):
TGTAAGACATGTCTGGGACATGCATCGGACTCACAGAGATGTGCTAG
Found at i:21707408 original size:30 final size:30
Alignment explanation
Indices: 21707372--21707432 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
21707362 TCCTTAACTC
21707372 AAACTTTTTCAAAATTACAATTTTACCCCT
1 AAACTTTTTCAAAATTACAATTTTACCCCT
* * * *
21707402 AAACTTTTTCATATTTACACTTTTGCCCCT
1 AAACTTTTTCAAAATTACAATTTTACCCCT
21707432 A
1 A
21707433 GGCTTGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.25, G:0.02, T:0.43
Consensus pattern (30 bp):
AAACTTTTTCAAAATTACAATTTTACCCCT
Found at i:21709856 original size:13 final size:13
Alignment explanation
Indices: 21709840--21709872 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
21709830 TTTAATTAAA
*
21709840 TTAGTTAATTAGT
1 TTAGATAATTAGT
21709853 TTAGATAATTAGT
1 TTAGATAATTAGT
21709866 TTA-ATAA
1 TTAGATAA
21709873 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:21717864 original size:17 final size:16
Alignment explanation
Indices: 21717842--21717923 Score: 68
Period size: 17 Copynumber: 5.4 Consensus size: 16
21717832 TTGAATCATC
21717842 TTATTTGATTTTTATTT
1 TTATTT-ATTTTTATTT
21717859 TTATTTA--TTTA--T
1 TTATTTATTTTTATTT
21717871 TTATTTA-TTTTATTT
1 TTATTTATTTTTATTT
* *
21717886 AT-TTTATTCTTATTT
1 TTATTTATTTTTATTT
*
21717901 TTCTTTGATTTTTATTT
1 TTATTT-ATTTTTATTT
*
21717918 TCATTT
1 TTATTT
21717924 CAATTTTCTT
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
12 8 0.15
13 4 0.08
14 8 0.15
15 10 0.19
16 4 0.08
17 19 0.36
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (16 bp):
TTATTTATTTTTATTT
Found at i:21717867 original size:4 final size:4
Alignment explanation
Indices: 21717858--21717889 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
21717848 GATTTTTATT
21717858 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTT
21717890 TATTCTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:21717868 original size:21 final size:20
Alignment explanation
Indices: 21717842--21717902 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 20
21717832 TTGAATCATC
21717842 TTATTTGATTTTTATTTTTAT
1 TTATTT-ATTTTTATTTTTAT
21717863 TTATTTATTTATT-TATTTTAT
1 TTATTTATTT-TTAT-TTTTAT
*
21717884 TTATTTTATTCTTATTTTT
1 TTA-TTTATTTTTATTTTT
21717903 CTTTGATTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
20 5 0.14
21 23 0.66
22 7 0.20
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.77
Consensus pattern (20 bp):
TTATTTATTTTTATTTTTAT
Found at i:21717884 original size:9 final size:9
Alignment explanation
Indices: 21717851--21717893 Score: 61
Period size: 9 Copynumber: 4.8 Consensus size: 9
21717841 CTTATTTGAT
*
21717851 TTTTATTTT
1 TTTTATTTA
21717860 TATTTATTTA
1 T-TTTATTTA
21717870 -TTTATTTA
1 TTTTATTTA
21717878 TTTTATTTA
1 TTTTATTTA
21717887 TTTTATT
1 TTTTATT
21717894 CTTATTTTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
8 8 0.26
9 16 0.52
10 7 0.23
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTATTTA
Found at i:21720843 original size:13 final size:13
Alignment explanation
Indices: 21720827--21720859 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
21720817 TTCAATTAAA
*
21720827 TTAGTTAATTAGT
1 TTAGATAATTAGT
21720840 TTAGATAATTAGT
1 TTAGATAATTAGT
21720853 TTA-ATAA
1 TTAGATAA
21720860 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:21725136 original size:18 final size:18
Alignment explanation
Indices: 21725113--21725177 Score: 94
Period size: 18 Copynumber: 3.6 Consensus size: 18
21725103 TGGCCCATTA
*
21725113 CAGTAACAATAATCAGTG
1 CAGTAACAGTAATCAGTG
* *
21725131 CAGTAACAGTAATCGGTA
1 CAGTAACAGTAATCAGTG
*
21725149 CAGTAACAGTAATTAGTG
1 CAGTAACAGTAATCAGTG
21725167 CAGTAACAGTA
1 CAGTAACAGTA
21725178 TACAAGTCCT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.42, C:0.15, G:0.20, T:0.23
Consensus pattern (18 bp):
CAGTAACAGTAATCAGTG
Found at i:21733396 original size:40 final size:40
Alignment explanation
Indices: 21733335--21733449 Score: 160
Period size: 40 Copynumber: 2.9 Consensus size: 40
21733325 ATTCGGATTG
*
21733335 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
** *
21733374 ATATTCAGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATAACCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
21733414 ATAACCGGGCCAAGTCCCGAAAGGCATTTGTGCGAG
1 ATAACCAGGCTAAGTCCCG-AAGGCATTTGTGCGAG
21733450 CCAAGTCCCG
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
39 11 0.17
40 39 0.60
41 15 0.23
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATAACCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:21733470 original size:26 final size:27
Alignment explanation
Indices: 21733422--21733475 Score: 92
Period size: 26 Copynumber: 2.0 Consensus size: 27
21733412 CTATAACCGG
*
21733422 GCCAAGTCCCGAAAGGCATTTGTGCGA
1 GCCAAGTCCCGAAAGGCAATTGTGCGA
21733449 GCCAAGTCCCG-AAGGCAATTGTGCGA
1 GCCAAGTCCCGAAAGGCAATTGTGCGA
21733475 G
1 G
21733476 TTACTATAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.26, C:0.26, G:0.31, T:0.17
Consensus pattern (27 bp):
GCCAAGTCCCGAAAGGCAATTGTGCGA
Found at i:21733497 original size:67 final size:66
Alignment explanation
Indices: 21733385--21733515 Score: 208
Period size: 67 Copynumber: 2.0 Consensus size: 66
21733375 TATTCAGGCT
* *
21733385 AAGTCCCGAAGGCATTTGTGCAAGTTACTATAACCGGGCCAAGTCCCGAAAGGCATTTGTGCGAG
1 AAGTCCCGAAGGCAATTGTGCAAGTTACTATAACCGGGCCAAGTCCCG-AAGGCATTTGAGCGAG
21733450 CC
65 CC
* **
21733452 AAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTTAGTCCCGAAGGCATTTGAGCGAG
1 AAGTCCCGAAGGCAATTGTGCAAGTTACTATAACCGGGCCAAGTCCCGAAGGCATTTGAGCGAG
21733516 TAGCTATATC
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
66 15 0.25
67 44 0.75
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (66 bp):
AAGTCCCGAAGGCAATTGTGCAAGTTACTATAACCGGGCCAAGTCCCGAAGGCATTTGAGCGAGC
C
Found at i:21741483 original size:38 final size:40
Alignment explanation
Indices: 21741398--21741509 Score: 185
Period size: 39 Copynumber: 2.9 Consensus size: 40
21741388 ATTCGGATTG
21741398 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
21741437 ATATCCGGGCTAAGTCCCGAA-GCATTTGTGC-AGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
21741475 ATAACCGGGCCAAGTCCCGAAGGCATTTGTGCGAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
21741510 CCAAGTCCCG
Statistics
Matches: 67, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
38 26 0.39
39 33 0.49
40 8 0.12
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:21741519 original size:26 final size:26
Alignment explanation
Indices: 21741483--21741535 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
21741473 CTATAACCGG
*
21741483 GCCAAGTCCCGAAGGCATTTGTGCGA
1 GCCAAGTCCCGAAGGCAATTGTGCGA
21741509 GCCAAGTCCCGAAGGCAATTGTGCGA
1 GCCAAGTCCCGAAGGCAATTGTGCGA
21741535 G
1 G
21741536 TTACTATAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.25, C:0.26, G:0.32, T:0.17
Consensus pattern (26 bp):
GCCAAGTCCCGAAGGCAATTGTGCGA
Found at i:21741556 original size:66 final size:64
Alignment explanation
Indices: 21741448--21741575 Score: 211
Period size: 66 Copynumber: 2.0 Consensus size: 64
21741438 TATCCGGGCT
* *
21741448 AAGTCCCGAAGCATTTGTGCAGTTACTATAACCGGGCCAAGTCCCGAAGGCATTTGTGCGAGCC
1 AAGTCCCGAAGCAATTGTGCAGTTACTATAACCGGGCCAAGTCCCGAAGGCATTTGAGCGAGCC
*
21741512 AAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG
1 AAGTCCCGAA-GCAATTGTGC-AGTTACTATAACCGGGCCAAGTCCCGAAGGCATTTGAGCGAG
21741576 TAGCTATATC
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
64 10 0.17
65 9 0.15
66 40 0.68
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (64 bp):
AAGTCCCGAAGCAATTGTGCAGTTACTATAACCGGGCCAAGTCCCGAAGGCATTTGAGCGAGCC
Found at i:21741575 original size:40 final size:39
Alignment explanation
Indices: 21741512--21741602 Score: 112
Period size: 40 Copynumber: 2.3 Consensus size: 39
21741502 TGTGCGAGCC
*
21741512 AAGTCCCGAAGGCAATTGTGCGAGTTA-CTATAACCGGGCT
1 AAGTCCCGAAGGCAATTGAGCGAG-TAGCTATAACC-GGCT
* *
21741552 AAGTCCCGAAGGCATTTGAGCGAGTAGCTATATCCGGCT
1 AAGTCCCGAAGGCAATTGAGCGAGTAGCTATAACCGGCT
**
21741591 AAACCCCGAAGG
1 AAGTCCCGAAGG
21741603 TACTTGGTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
39 16 0.36
40 29 0.64
ACGTcount: A:0.29, C:0.24, G:0.27, T:0.20
Consensus pattern (39 bp):
AAGTCCCGAAGGCAATTGAGCGAGTAGCTATAACCGGCT
Found at i:22044715 original size:40 final size:40
Alignment explanation
Indices: 22044625--22044809 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
22044615 TCGAATGATG
* *
22044625 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
22044664 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
22044705 TTCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
22044744 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
22044783 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
22044810 AACGAGTTGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:22044840 original size:79 final size:80
Alignment explanation
Indices: 22044626--22044842 Score: 230
Period size: 79 Copynumber: 2.7 Consensus size: 80
22044616 CGAATGATGT
* *
22044626 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGACTATATCCGGACTAAGA-TCCGAAGGCAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTG-CTATATCCGGATTAA-ATTCCGAAGGCAT
* *
22044688 TTGTGCGAGTTACTAATT
63 TCGTGCGAGTTACTAATA
* * * * * * *
22044706 TCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGATTAAATTCCGAAGGCATTCG
22044770 TGCGAGTTACT-ATAA
66 TGCGAGTTACTAAT-A
* **
22044785 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTTGCTATATCC-GATTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGATTAAATTCCGAAGG
22044843 TACGTGATTC
Statistics
Matches: 111, Mismatches: 21, Indels: 11
0.78 0.15 0.08
Matches are distributed among these distances:
78 2 0.02
79 67 0.60
80 42 0.38
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGATTAAATTCCGAAGGCATTCG
TGCGAGTTACTAATA
Found at i:22046733 original size:49 final size:47
Alignment explanation
Indices: 22046620--22046740 Score: 154
Period size: 47 Copynumber: 2.5 Consensus size: 47
22046610 TAATTCCGAT
* * * *
22046620 GCCATGTCCCAGACATGGTCTTACACTGGCTCATCCAACAAGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTCATCAAACAAGGCGAG
* *
22046667 GCCATGTCCCAGGCATGGTCTTACACTGACT-ATCGAAATCGAGGCAGAG
1 GCCATGTCCCAGACATGGTCTTACACTGACTCATC-AAA-CAAGGC-GAG
22046716 GCCATGTCCCAGACATGGTCTTACA
1 GCCATGTCCCAGACATGGTCTTACA
22046741 TTGGCTCTTA
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
46 3 0.05
47 31 0.48
48 4 0.06
49 26 0.41
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (47 bp):
GCCATGTCCCAGACATGGTCTTACACTGACTCATCAAACAAGGCGAG
Found at i:22046794 original size:99 final size:96
Alignment explanation
Indices: 22046620--22046795 Score: 246
Period size: 96 Copynumber: 1.8 Consensus size: 96
22046610 TAATTCCGAT
* *
22046620 GCCATGTCCCAGACATGGTCTTACACTGGCTCATCCAACAAGTCGATGCCATGTCCCAGGCATGG
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCATACAACAAGTCGATGCCATGTCCCAGACATGG
22046685 TCTTACACTGACTATCGAAATCGAGGCAGAG
66 TCTTACACTGACTATCGAAATCGAGGCAGAG
* * * *
22046716 GCCATGTCCCAGACATGGTCTTACATTGGCTCTTACATTTC-TGTGCCGATGCCATGTCCCAGAC
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCATACA--ACAAGT--CGATGCCATGTCCCAGAC
*
22046780 ATGGTCTTAGACTGAC
62 ATGGTCTTACACTGAC
22046796 ACATCTCATA
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
96 34 0.49
97 2 0.03
98 1 0.01
99 32 0.46
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (96 bp):
GCCATGTCCCAGACATGGTCTTACACTGGCTCATACAACAAGTCGATGCCATGTCCCAGACATGG
TCTTACACTGACTATCGAAATCGAGGCAGAG
Found at i:22046866 original size:46 final size:48
Alignment explanation
Indices: 22046617--22046976 Score: 216
Period size: 46 Copynumber: 7.6 Consensus size: 48
22046607 GTGTAATTCC
*** *
22046617 GATGCCATGTCCCAGACATGGTCTTACACTGGC-T-CATCCAACAAGTC-
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTACAT--ATTGAGGCT
* * * * *
22046664 GATGCCATGTCCCAGGCATGGTCTTACACTGAC-TATCGAAATCGAGGCA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTA-C-ATATTGAGGCT
* * * * *
22046713 GAGGCCATGTCCCAGACATGGTCTTACATTGGCTCTTACATTTCTG-TGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGG--CTTACATAT-TGAGGCT
* * *
22046763 GATGCCATGTCCCAGACATGGTCTTAGACTGAC--ACATCTCAT-A-GCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATAT--TGAGGCT
22046809 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATATTGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATATTGAGGCT
* * * ** * *
22046855 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCT-CGTCTCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCT-TACATATTGAGGCT
* * * * * *
22046901 GTTGCCACGTCCTAGACATGGTCTTACACTAGCTCT-CATAATGTGG-T
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCT-TACATATTGAGGCT
22046948 CGATG-CATGTCCCAGACAT-GTCTTACACT
1 -GATGCCATGTCCCAGACATGGTCTTACACT
22046977 AGCGCACCAA
Statistics
Matches: 249, Mismatches: 46, Indels: 37
0.75 0.14 0.11
Matches are distributed among these distances:
44 12 0.05
45 15 0.06
46 69 0.28
47 58 0.23
48 28 0.11
49 29 0.12
50 33 0.13
51 3 0.01
52 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATATTGAGGCT
Found at i:22052991 original size:28 final size:28
Alignment explanation
Indices: 22052951--22053019 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
22052941 TAGTAAGTTT
*
22052951 GCACACTTAGTGCT-TAATAATCAAACTC
1 GCACACTTAGTGCTAT-ACAATCAAACTC
*
22052979 GCACACTTAGTGCTATACAATTAAACTC
1 GCACACTTAGTGCTATACAATCAAACTC
*
22053007 ACACACTTAGTGC
1 GCACACTTAGTGC
22053020 CAATCTCATA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 36 0.97
29 1 0.03
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.28
Consensus pattern (28 bp):
GCACACTTAGTGCTATACAATCAAACTC
Found at i:22057847 original size:21 final size:20
Alignment explanation
Indices: 22057814--22057852 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
22057804 ACGCCTACGA
22057814 AAAGATCGCTTGGATTTAAG
1 AAAGATCGCTTGGATTTAAG
*
22057834 AAAGAGTCGTTTGGATTTA
1 AAAGA-TCGCTTGGATTTA
22057853 TCCATGGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.33, C:0.08, G:0.26, T:0.33
Consensus pattern (20 bp):
AAAGATCGCTTGGATTTAAG
Found at i:22060604 original size:12 final size:12
Alignment explanation
Indices: 22060589--22060617 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
22060579 GCTGTCCCTT
22060589 GCGCTGGAGCAA
1 GCGCTGGAGCAA
22060601 GCGCTGGAGCAA
1 GCGCTGGAGCAA
22060613 GCGCT
1 GCGCT
22060618 ACACTCTCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.21, C:0.28, G:0.41, T:0.10
Consensus pattern (12 bp):
GCGCTGGAGCAA
Found at i:22062412 original size:28 final size:28
Alignment explanation
Indices: 22062372--22062442 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
22062362 TATAGTAAGT
*
22062372 TTGCACACTTAGTGCT-TAATAATCAAAC
1 TTGCACACTTAGTGCTAT-ACAATCAAAC
*
22062400 TTGCACACTTAGTGCTATACAATTAAAC
1 TTGCACACTTAGTGCTATACAATCAAAC
*
22062428 TCGCACACTTAGTGC
1 TTGCACACTTAGTGC
22062443 CAATATCATA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (28 bp):
TTGCACACTTAGTGCTATACAATCAAAC
Found at i:22066427 original size:50 final size:48
Alignment explanation
Indices: 22066350--22066567 Score: 148
Period size: 46 Copynumber: 4.6 Consensus size: 48
22066340 AAAATCGAAA
* * * *
22066350 CCGACGCCATATCCCAAACATGGTCTTACACTGATTCTTACATCTCCATG
1 CCGATGCCATGTCCCAGACAT-GTCTTACACTGA-ACTTACATCTCCATG
22066400 CCGATGCCATGTCCCAGACATGTTCTTACACT-AAC--ACATCT-CATAG
1 CCGATGCCATGTCCCAGACATG-TCTTACACTGAACTTACATCTCCAT-G
* * * * * * *
22066446 CCGAT-ACAGGTCCCAGACATGTCTGACACTG-GCTTCCATCTCGAGG
1 CCGATGCCATGTCCCAGACATGTCTTACACTGAACTTACATCTCCATG
** * * *
22066492 CTTATG-CATGTCCCAGACATGTCTTACACT-AGCTCT-CGTCTCAATG
1 CCGATGCCATGTCCCAGACATGTCTTACACTGAACT-TACATCTCCATG
* * *
22066538 TCGTTGCCATGTCCTAGACATGGTCTTACA
1 CCGATGCCATGTCCCAGACAT-GTCTTACA
22066568 ATGGCTCTTA
Statistics
Matches: 134, Mismatches: 23, Indels: 24
0.74 0.13 0.13
Matches are distributed among these distances:
44 9 0.07
45 17 0.13
46 55 0.41
47 15 0.11
48 9 0.07
49 2 0.01
50 27 0.20
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.28
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGTCTTACACTGAACTTACATCTCCATG
Found at i:22069785 original size:10 final size:10
Alignment explanation
Indices: 22069772--22069838 Score: 52
Period size: 10 Copynumber: 6.9 Consensus size: 10
22069762 GAAAATTTAA
22069772 ATATTTTTTT
1 ATATTTTTTT
22069782 ATA--TTTTT
1 ATATTTTTTT
*
22069790 ATA-ATTTTT
1 ATATTTTTTT
22069799 ATATTTTTTT
1 ATATTTTTTT
* * *
22069809 AAAATTTTAT
1 ATATTTTTTT
22069819 AGTATTATTTTT
1 A-TATT-TTTTT
22069831 -TATTTTTT
1 ATATTTTTT
22069839 ATTAAGTTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
8 8 0.17
9 12 0.26
10 20 0.43
11 2 0.04
12 4 0.09
ACGTcount: A:0.27, C:0.00, G:0.01, T:0.72
Consensus pattern (10 bp):
ATATTTTTTT
Found at i:22069788 original size:8 final size:8
Alignment explanation
Indices: 22069777--22069806 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
22069767 TTTAAATATT
22069777 TTTTTATA
1 TTTTTATA
22069785 TTTTTATAA
1 TTTTTAT-A
22069794 TTTTTATA
1 TTTTTATA
22069802 TTTTT
1 TTTTT
22069807 TTAAAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTATA
Found at i:22069796 original size:19 final size:19
Alignment explanation
Indices: 22069767--22069830 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 19
22069757 TTTTAGAAAA
*
22069767 TTTAAATATTTTTTTATATT
1 TTTAAA-ATTTTTATATATT
* *
22069787 TTTATAATTTTTATATTTT
1 TTTAAAATTTTTATATATT
22069806 TTTAAAATTTTATAGTATTATT
1 TTTAAAATTTT-TA-TA-TATT
22069828 TTT
1 TTT
22069831 TATTTTTTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 21 0.58
20 7 0.19
21 2 0.06
22 6 0.17
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (19 bp):
TTTAAAATTTTTATATATT
Found at i:22069799 original size:17 final size:17
Alignment explanation
Indices: 22069777--22069850 Score: 64
Period size: 17 Copynumber: 4.4 Consensus size: 17
22069767 TTTAAATATT
22069777 TTTTTATATTTTTATAA
1 TTTTTATATTTTTATAA
*
22069794 TTTTTATATTTTTTTAAA
1 TTTTTATATTTTTAT-AA
* * *
22069812 ATTTTATAGTATTAT--
1 TTTTTATATTTTTATAA
22069827 TTTTTAT-TTTTTATTAA
1 TTTTTATATTTTTA-TAA
*
22069844 GTTTTAT
1 TTTTTAT
22069851 TAATTTTCGC
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
14 4 0.09
15 7 0.16
17 20 0.45
18 13 0.30
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (17 bp):
TTTTTATATTTTTATAA
Found at i:22074467 original size:52 final size:52
Alignment explanation
Indices: 22074389--22074493 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
22074379 CAATGAGTCA
22074389 AGTGAACATGACATGTCATTTATTAAATTAATGCTATATCATTTAATTAAGT
1 AGTGAACATGACATGTCATTTATTAAATTAATGCTATATCATTTAATTAAGT
22074441 AGTGAACATGACATGTCATTTATTAAATTAATGCTATATCATTTAATTAAGT
1 AGTGAACATGACATGTCATTTATTAAATTAATGCTATATCATTTAATTAAGT
22074493 A
1 A
22074494 CATATTATAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.39, C:0.10, G:0.11, T:0.40
Consensus pattern (52 bp):
AGTGAACATGACATGTCATTTATTAAATTAATGCTATATCATTTAATTAAGT
Found at i:22076923 original size:13 final size:13
Alignment explanation
Indices: 22076905--22076929 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22076895 ACACAACCCA
22076905 ACCCAACCCAATT
1 ACCCAACCCAATT
22076918 ACCCAACCCAAT
1 ACCCAACCCAAT
22076930 CATAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:22076967 original size:5 final size:6
Alignment explanation
Indices: 22076954--22077006 Score: 70
Period size: 6 Copynumber: 8.5 Consensus size: 6
22076944 ATAATTTAAT
* *
22076954 AAATAA AAATAA AAATCTAA AACTAA AACTAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAATAA AAATAA
22077004 AAA
1 AAA
22077007 ACATATAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
6 38 0.88
8 5 0.12
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:22077044 original size:9 final size:9
Alignment explanation
Indices: 22077026--22077102 Score: 100
Period size: 9 Copynumber: 8.6 Consensus size: 9
22077016 TTTATACAAA
22077026 TAATTCGGT
1 TAATTCGGT
*
22077035 TAATTAGGT
1 TAATTCGGT
22077044 TAATTCGGT
1 TAATTCGGT
* *
22077053 TAATTTGGG
1 TAATTCGGT
* *
22077062 TAATTTGGG
1 TAATTCGGT
22077071 TAATTCGGT
1 TAATTCGGT
*
22077080 TAATTCGAT
1 TAATTCGGT
22077089 TAATTCGGT
1 TAATTCGGT
22077098 TAATT
1 TAATT
22077103 TTATACTTAT
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 60 1.00
ACGTcount: A:0.26, C:0.06, G:0.22, T:0.45
Consensus pattern (9 bp):
TAATTCGGT
Found at i:22078025 original size:13 final size:13
Alignment explanation
Indices: 22078007--22078043 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
22077997 ACAGAGAAGG
*
22078007 AAGAAAGGAAAGA
1 AAGAAAAGAAAGA
22078020 AAGAAAAGAAAGA
1 AAGAAAAGAAAGA
22078033 AA-AAAA-AAAGA
1 AAGAAAAGAAAGA
22078044 GAAAATTGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 5 0.22
12 4 0.17
13 14 0.61
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (13 bp):
AAGAAAAGAAAGA
Found at i:22078032 original size:9 final size:9
Alignment explanation
Indices: 22078007--22078047 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
22077997 ACAGAGAAGG
*
22078007 AAGAAAGGA
1 AAGAAAGAA
22078016 AAGAAAGAA
1 AAGAAAGAA
22078025 AAGAAAGAA
1 AAGAAAGAA
22078034 AA-AAA-AA
1 AAGAAAGAA
22078041 AGAGAAA
1 A-AGAAA
22078048 ATTGAGGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
7 3 0.10
8 4 0.14
9 22 0.76
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (9 bp):
AAGAAAGAA
Found at i:22079478 original size:18 final size:18
Alignment explanation
Indices: 22079424--22079480 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 18
22079414 TGATCGTTAT
22079424 TGAATAACTGATTGCTAC
1 TGAATAACTGATTGCTAC
** * **
22079442 TGAGCAAATGATTATTAC
1 TGAATAACTGATTGCTAC
*
22079460 TGAATAACTAATTGCTAC
1 TGAATAACTGATTGCTAC
22079478 TGA
1 TGA
22079481 CACTACAGCA
Statistics
Matches: 28, Mismatches: 11, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (18 bp):
TGAATAACTGATTGCTAC
Found at i:22079648 original size:31 final size:31
Alignment explanation
Indices: 22079522--22079637 Score: 196
Period size: 31 Copynumber: 3.7 Consensus size: 31
22079512 TTTTTAGGCC
*
22079522 TTAAGCGCCGCTAAAACCATTTGTCACACTT
1 TTAAGCGCCGCTAAAACCATTTGTCGCACTT
* *
22079553 TTAAGCGCCGCTAAAACTATTTGTGGCACTT
1 TTAAGCGCCGCTAAAACCATTTGTCGCACTT
22079584 TTAAGCGCCGCTAAAACCATTTGTCGCACTT
1 TTAAGCGCCGCTAAAACCATTTGTCGCACTT
*
22079615 TTAAGCGCCGCTAAAACTATTTG
1 TTAAGCGCCGCTAAAACCATTTG
22079638 AGGCGTTTTT
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 79 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (31 bp):
TTAAGCGCCGCTAAAACCATTTGTCGCACTT
Found at i:22079648 original size:62 final size:62
Alignment explanation
Indices: 22079522--22079641 Score: 222
Period size: 62 Copynumber: 1.9 Consensus size: 62
22079512 TTTTTAGGCC
*
22079522 TTAAGCGCCGCTAAAACCATTTGTCACACTTTTAAGCGCCGCTAAAACTATTTGTGGCACTT
1 TTAAGCGCCGCTAAAACCATTTGTCACACTTTTAAGCGCCGCTAAAACTATTTGAGGCACTT
*
22079584 TTAAGCGCCGCTAAAACCATTTGTCGCACTTTTAAGCGCCGCTAAAACTATTTGAGGC
1 TTAAGCGCCGCTAAAACCATTTGTCACACTTTTAAGCGCCGCTAAAACTATTTGAGGC
22079642 GTTTTTACAA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 56 1.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (62 bp):
TTAAGCGCCGCTAAAACCATTTGTCACACTTTTAAGCGCCGCTAAAACTATTTGAGGCACTT
Found at i:22083802 original size:23 final size:22
Alignment explanation
Indices: 22083750--22083802 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
22083740 TCCACGTCTT
*
22083750 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
22083772 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
22083795 TTTCTTTT
1 TTTCTTTT
22083803 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:22086686 original size:8 final size:8
Alignment explanation
Indices: 22086669--22086701 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
22086659 TCTTGAAATG
22086669 TCGGCTTT
1 TCGGCTTT
*
22086677 TCGGCATT
1 TCGGCTTT
22086685 TCGGCTTT
1 TCGGCTTT
22086693 TCGGCTTT
1 TCGGCTTT
22086701 T
1 T
22086702 ACCGATCTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.03, C:0.24, G:0.24, T:0.48
Consensus pattern (8 bp):
TCGGCTTT
Found at i:22088759 original size:157 final size:157
Alignment explanation
Indices: 22088473--22088788 Score: 623
Period size: 157 Copynumber: 2.0 Consensus size: 157
22088463 AATATTTTTA
22088473 GGCCCGAAAATCGGGGCGTTACATAACATGTTTATTTCATCATGCTTTGAACAACAATAAACAAC
1 GGCCCGAAAATCGGGGCGTTACATAACATGTTTATTTCATCATGCTTTGAACAACAATAAACAAC
*
22088538 CATTGTCCTATTAAGATACAGGGGCCTTTAATGAAAAACAAGAAAAACCTTTATGCATGACCAAG
66 CATTATCCTATTAAGATACAGGGGCCTTTAATGAAAAACAAGAAAAACCTTTATGCATGACCAAG
22088603 TCCCAAGATAATGAAGATGATGCTATT
131 TCCCAAGATAATGAAGATGATGCTATT
22088630 GGCCCGAAAATCGGGGCGTTACATAACATGTTTATTTCATCATGCTTTGAACAACAATAAACAAC
1 GGCCCGAAAATCGGGGCGTTACATAACATGTTTATTTCATCATGCTTTGAACAACAATAAACAAC
22088695 CATTATCCTATTAAGATACAGGGGCCTTTAATGAAAAACAAGAAAAACCTTTATGCATGACCAAG
66 CATTATCCTATTAAGATACAGGGGCCTTTAATGAAAAACAAGAAAAACCTTTATGCATGACCAAG
22088760 TCCCAAGATAATGAAGATGATGCTATT
131 TCCCAAGATAATGAAGATGATGCTATT
22088787 GG
1 GG
22088789 ATCTTTCCAC
Statistics
Matches: 158, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
157 158 1.00
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (157 bp):
GGCCCGAAAATCGGGGCGTTACATAACATGTTTATTTCATCATGCTTTGAACAACAATAAACAAC
CATTATCCTATTAAGATACAGGGGCCTTTAATGAAAAACAAGAAAAACCTTTATGCATGACCAAG
TCCCAAGATAATGAAGATGATGCTATT
Found at i:22089739 original size:143 final size:143
Alignment explanation
Indices: 22089473--22089731 Score: 308
Period size: 143 Copynumber: 1.8 Consensus size: 143
22089463 TACTTTTTTT
*
22089473 AAATTATTAAAATATGTGAATTTATAAATTCATTTAATAAAATATTAAAATGTATCTTCCAATAT
1 AAATAATTAAAATATGTGAATTTATAAATTCATTTAATAAAATATTAAAATGTATCTTCCAATAT
* * * ** * * * * * **
22089538 TTTATTATAAATATTTTAATGAATTATATAATCAATTTAAATTATTTATTAGATAAAATGATAAT
66 TTTACTATAAATATGTAAAAAAATTACATAATCAAATCAAAATAATTAAAAGATAAAATGATAAT
22089603 TATTTTTAAATCA
131 TATTTTTAAATCA
* *
22089616 AAATAATTAAAAATATGTGAATTTATAAATTCATTTAAT-AAATATTAAAATGTATCTTTCGATA
1 AAATAATT-AAAATATGTGAATTTATAAATTCATTTAATAAAATATTAAAATGTATCTTCCAATA
** *
22089680 TTTTACTATATAA-A-GTAAAAAAATTAACATTTTTAAATCAAAATAATTAAAA
65 TTTTACTATA-AATATGTAAAAAAATT-ACATAATCAAATCAAAATAATTAAAA
22089732 TTTAAAATAA
Statistics
Matches: 95, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
142 7 0.07
143 56 0.59
144 32 0.34
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (143 bp):
AAATAATTAAAATATGTGAATTTATAAATTCATTTAATAAAATATTAAAATGTATCTTCCAATAT
TTTACTATAAATATGTAAAAAAATTACATAATCAAATCAAAATAATTAAAAGATAAAATGATAAT
TATTTTTAAATCA
Found at i:22095702 original size:15 final size:16
Alignment explanation
Indices: 22095676--22095721 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 16
22095666 CATGGTCATT
22095676 AAACCTTAAACCATAA
1 AAACCTTAAACCATAA
22095692 AAACC-TAAACCAT--
1 AAACCTTAAACCATAA
*
22095705 AAACCTTAAACCTTAA
1 AAACCTTAAACCATAA
22095721 A
1 A
22095722 TATTAAACCC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 5 0.19
14 7 0.27
15 8 0.31
16 6 0.23
ACGTcount: A:0.54, C:0.26, G:0.00, T:0.20
Consensus pattern (16 bp):
AAACCTTAAACCATAA
Found at i:22095716 original size:14 final size:14
Alignment explanation
Indices: 22095675--22095737 Score: 65
Period size: 14 Copynumber: 4.4 Consensus size: 14
22095665 CCATGGTCAT
22095675 TAAACCTTAAACCA
1 TAAACCTTAAACCA
22095689 TAAAAACC-TAAACCA
1 T--AAACCTTAAACCA
*
22095704 TAAACCTTAAACCT
1 TAAACCTTAAACCA
** *
22095718 TAAATATTAAACCC
1 TAAACCTTAAACCA
22095732 TAAACC
1 TAAACC
22095738 CAAAAATAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
13 5 0.12
14 22 0.55
15 8 0.20
16 5 0.12
ACGTcount: A:0.51, C:0.27, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:22095738 original size:7 final size:7
Alignment explanation
Indices: 22095674--22095737 Score: 58
Period size: 7 Copynumber: 9.0 Consensus size: 7
22095664 CCCATGGTCA
22095674 TTAAACC
1 TTAAACC
22095681 TTAAACC
1 TTAAACC
*
22095688 ATAAAAACC
1 -T-TAAACC
22095697 -TAAACC
1 TTAAACC
*
22095703 ATAAACC
1 TTAAACC
22095710 TTAAACC
1 TTAAACC
**
22095717 TTAAATA
1 TTAAACC
22095724 TTAAACC
1 TTAAACC
*
22095731 CTAAACC
1 TTAAACC
22095738 CAAAAATAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
6 5 0.11
7 35 0.76
8 1 0.02
9 5 0.11
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (7 bp):
TTAAACC
Found at i:22095866 original size:16 final size:16
Alignment explanation
Indices: 22095841--22095906 Score: 52
Period size: 16 Copynumber: 4.2 Consensus size: 16
22095831 TCCATATGAT
*
22095841 GTTTTTAGGGTTTAGG
1 GTTTTAAGGGTTTAGG
22095857 GTTTTAAGGGTTATA--
1 GTTTTAAGGGTT-TAGG
22095872 G-TTT-AGGGTTTAGAG
1 GTTTTAAGGGTTTAG-G
*
22095887 TTTTTAA-GGTTTAAGG
1 GTTTTAAGGGTTT-AGG
22095903 GTTT
1 GTTT
22095907 AGTGTTTTAG
Statistics
Matches: 40, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
12 2 0.05
13 6 0.15
14 3 0.08
15 1 0.03
16 23 0.57
17 5 0.12
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.48
Consensus pattern (16 bp):
GTTTTAAGGGTTTAGG
Found at i:22096033 original size:41 final size:41
Alignment explanation
Indices: 22095976--22096189 Score: 220
Period size: 41 Copynumber: 5.2 Consensus size: 41
22095966 GTTATATGAC
* * *
22095976 TTTTAGCGGAGTTTTATCGAAAGCGCCACTAATGGTCTAGT
1 TTTTAGCGGCGTTTTATCGAAAGCGCCGCTAATGCTCTAGT
* *
22096017 TTTTAGTGGCGTTTTATCGAAAGCGCTGCTAATGCTCT-GAT
1 TTTTAGCGGCGTTTTATCGAAAGCGCCGCTAATGCTCTAG-T
* *
22096058 TTTTAGCGGCGTTTTA-CTGAAAGCGCCGCTAATGCT-TTGG
1 TTTTAGCGGCGTTTTATC-GAAAGCGCCGCTAATGCTCTAGT
* * * * * *
22096098 TTTTAGTGGCATTTTACCGAAAGCACCCCTATTGCTCTA-T
1 TTTTAGCGGCGTTTTATCGAAAGCGCCGCTAATGCTCTAGT
* * * *
22096138 TTTTAGCGGCGTTTTAGCGAAAAACGTCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTATCG-AAAGCGCCGCTAATGCTCTAGT
22096180 TTTTAGCGGC
1 TTTTAGCGGC
22096190 TATTGCTCTG
Statistics
Matches: 142, Mismatches: 24, Indels: 13
0.79 0.13 0.07
Matches are distributed among these distances:
40 48 0.34
41 83 0.58
42 11 0.08
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.36
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTATCGAAAGCGCCGCTAATGCTCTAGT
Found at i:22096169 original size:81 final size:81
Alignment explanation
Indices: 22095976--22096182 Score: 231
Period size: 81 Copynumber: 2.5 Consensus size: 81
22095966 GTTATATGAC
* * * * * * *
22095976 TTTTAGCGGAGTTTTA-TCGAAAGCGCCACTAATGGTCTAGTTTTTAGTGGCGTTTTATCGAAAG
1 TTTTAGCGGCGTTTTACT-GAAAACGCCGCTAATGCTCT-GGTTTTAGTGGCATTTTACCGAAAG
* **
22096040 CGCTGCTAATGCTCTGAT
64 CACCCCTAATGCTCTGAT
* *
22096058 TTTTAGCGGCGTTTTACTGAAAGCGCCGCTAATGCTTTGGTTTTAGTGGCATTTTACCGAAAGCA
1 TTTTAGCGGCGTTTTACTGAAAACGCCGCTAATGCTCTGGTTTTAGTGGCATTTTACCGAAAGCA
*
22096123 CCCCTATTGCTCT-AT
66 CCCCTAATGCTCTGAT
*
22096138 TTTTAGCGGCGTTTTAGC-GAAAAACGTCGCTAATGCTCTGGTTTT
1 TTTTAGCGGCGTTTTA-CTG-AAAACGCCGCTAATGCTCTGGTTTT
22096183 TAGCGGCTAT
Statistics
Matches: 108, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
80 19 0.18
81 56 0.52
82 32 0.30
83 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (81 bp):
TTTTAGCGGCGTTTTACTGAAAACGCCGCTAATGCTCTGGTTTTAGTGGCATTTTACCGAAAGCA
CCCCTAATGCTCTGAT
Found at i:22098982 original size:20 final size:20
Alignment explanation
Indices: 22098959--22098997 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
22098949 AATCCCGTCA
*
22098959 TATTTTTATTAATAATCATT
1 TATTATTATTAATAATCATT
*
22098979 TATTATTATTATTAATCAT
1 TATTATTATTAATAATCAT
22098998 GTTAACGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (20 bp):
TATTATTATTAATAATCATT
Found at i:22100729 original size:15 final size:15
Alignment explanation
Indices: 22100641--22101029 Score: 101
Period size: 15 Copynumber: 25.4 Consensus size: 15
22100631 ATTTAATATA
22100641 ATTATTACTATTATT
1 ATTATTACTATTATT
* *
22100656 ATCTAATA-TATTTTT
1 AT-TATTACTATTATT
* * *
22100671 ATTATCACGATTTTT
1 ATTATTACTATTATT
*
22100686 ATTATTTAACTATTATA
1 ATTA-TT-ACTATTATT
* *
22100703 ACTTAACGTATTATTATT
1 A-TT-A-TTACTATTATT
* * *
22100721 ACTATTATTTTTATT
1 ATTATTACTATTATT
* *
22100736 TTTATTACCATTATT
1 ATTATTACTATTATT
22100751 ATTA-TACT-TGTATT
1 ATTATTACTAT-TATT
22100765 -TATATT--TATT-TT
1 AT-TATTACTATTATT
* *
22100777 ATTGTAATACCATTATT
1 A-T-TATTACTATTATT
*
22100794 ATTACTACTTCCATTATTT
1 ATTATTAC-T--ATTA-TT
*
22100813 TTTATTTCTAACTATTATT
1 ATTA--T-TA-CTATTATT
*
22100832 ATTTTTA-TATATATT
1 ATTATTACTAT-TATT
**
22100847 ATTATTTGTATTATT
1 ATTATTACTATTATT
* * *
22100862 GTTATTATTACTATT
1 ATTATTACTATTATT
22100877 ATTA--AC-A-TACTT
1 ATTATTACTATTA-TT
**
22100889 ATTATTGTTATTATT
1 ATTATTACTATTATT
22100904 ATTATTACTATT-TT
1 ATTATTACTATTATT
* *
22100918 ATCTTTTACTTTTATT
1 AT-TATTACTATTATT
22100934 ATTATTGA-TATTATT
1 ATTATT-ACTATTATT
* *
22100949 ATTATCA-TCTTATT
1 ATTATTACTATTATT
* *
22100963 -TTATTACTTTTATC
1 ATTATTACTATTATT
* * *
22100977 ATTGTT-GTAATTACT
1 ATTATTACT-ATTATT
* *
22100992 ATTACTAGTATTATT
1 ATTATTACTATTATT
*
22101007 ATTTTTTAACTATTATT
1 A-TTATT-ACTATTATT
22101024 ATTATT
1 ATTATT
22101030 GGTAGTAGTA
Statistics
Matches: 270, Mismatches: 65, Indels: 77
0.66 0.16 0.19
Matches are distributed among these distances:
11 2 0.01
12 9 0.03
13 10 0.04
14 37 0.14
15 127 0.47
16 31 0.11
17 21 0.08
18 14 0.05
19 11 0.04
20 4 0.01
22 3 0.01
23 1 0.00
ACGTcount: A:0.30, C:0.08, G:0.03, T:0.59
Consensus pattern (15 bp):
ATTATTACTATTATT
Found at i:22100735 original size:21 final size:21
Alignment explanation
Indices: 22100711--22100755 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
22100701 TAACTTAACG
* *
22100711 TATTATTATTACTATTATTTT
1 TATTATTATTACCATTATTAT
*
22100732 TATTTTTATTACCATTATTAT
1 TATTATTATTACCATTATTAT
22100753 TAT
1 TAT
22100756 ACTTGTATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (21 bp):
TATTATTATTACCATTATTAT
Found at i:22100833 original size:3 final size:3
Alignment explanation
Indices: 22100825--22101029 Score: 99
Period size: 3 Copynumber: 69.3 Consensus size: 3
22100815 TATTTCTAAC
* *
22100825 TAT TAT TAT TTT TA- TAT ATAT TAT TAT T-T GTAT TAT TGT TAT TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT -TAT TAT TAT TAT TAT
* * * * *
22100870 TAC TAT TAT TAA CA- TACT TAT TAT TGT TAT TAT TAT TAT TAC TAT
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
22100915 T-T TAT CTTT TACT T-T TAT TAT TAT TGA- TAT TAT TAT TAT CA- TCT
1 TAT TAT -TAT TA-T TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
* * * * * * *
22100959 TAT T-T TAT TACT T-T TAT CAT TGT TGT AAT TAC TAT TAC TAG TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
22101003 TAT TAT T-T T-T TAAC TAT TAT TAT TAT T
1 TAT TAT TAT TAT T-AT TAT TAT TAT TAT T
22101030 GGTAGTAGTA
Statistics
Matches: 152, Mismatches: 32, Indels: 36
0.69 0.15 0.16
Matches are distributed among these distances:
2 17 0.11
3 121 0.80
4 14 0.09
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:22106202 original size:21 final size:20
Alignment explanation
Indices: 22106178--22106246 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 20
22106168 AAGAAAAAAA
**
22106178 GAAACAAAAGAAAAAGAGTTT
1 GAAA-AAAAGAAAAAGAGAAT
*
22106199 GAAAGAAAGTAAAAAGAGAAT
1 GAAAAAAAG-AAAAAGAGAAT
*
22106220 GAGAAAAAGAAAAATGA-AAT
1 GAAAAAAAGAAAAA-GAGAAT
*
22106240 TAAAAAA
1 GAAAAAA
22106247 TAAAGTGAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
20 17 0.44
21 22 0.56
ACGTcount: A:0.68, C:0.01, G:0.19, T:0.12
Consensus pattern (20 bp):
GAAAAAAAGAAAAAGAGAAT
Found at i:22110189 original size:15 final size:16
Alignment explanation
Indices: 22110162--22110191 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22110152 AGAGTAAGAG
22110162 ATATGAGAATGTATAT
1 ATATGAGAATGTATAT
22110178 ATATGA-AATGTATA
1 ATATGAGAATGTATA
22110192 ATCTTTACAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.37
Consensus pattern (16 bp):
ATATGAGAATGTATAT
Found at i:22117401 original size:15 final size:16
Alignment explanation
Indices: 22117374--22117403 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22117364 AGAGTAAGAG
22117374 ATATGAGAATGTATAT
1 ATATGAGAATGTATAT
22117390 ATATGA-AATGTATA
1 ATATGAGAATGTATA
22117404 ATCTTTACAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.37
Consensus pattern (16 bp):
ATATGAGAATGTATAT
Found at i:22120892 original size:26 final size:26
Alignment explanation
Indices: 22120863--22120914 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
22120853 CCAGTTTAAC
* **
22120863 CTCAAGGGTCATCTGACCAACTCAAA
1 CTCAAGGGACATCCAACCAACTCAAA
*
22120889 CTCAAGGGACCTCCAACCAACTCAAA
1 CTCAAGGGACATCCAACCAACTCAAA
22120915 TAGGAGGATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.37, C:0.35, G:0.13, T:0.15
Consensus pattern (26 bp):
CTCAAGGGACATCCAACCAACTCAAA
Found at i:22123449 original size:27 final size:29
Alignment explanation
Indices: 22123418--22123474 Score: 73
Period size: 27 Copynumber: 2.0 Consensus size: 29
22123408 CTTATTTAAT
* *
22123418 AATCCATTTATTG-GTTA-ATTTTAAAAA
1 AATCCATTTAATGAATTATATTTTAAAAA
*
22123445 AATCCTTTTAATGAATTATATTTTAAAAA
1 AATCCATTTAATGAATTATATTTTAAAAA
22123474 A
1 A
22123475 TTTCTCTATC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 11 0.44
28 3 0.12
29 11 0.44
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (29 bp):
AATCCATTTAATGAATTATATTTTAAAAA
Found at i:22124517 original size:14 final size:15
Alignment explanation
Indices: 22124481--22124519 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
22124471 TTCATAAAAC
22124481 TTTAT-TTATAAATG
1 TTTATATTATAAATG
22124495 TTATATATTATAAAT-
1 TT-TATATTATAAATG
22124510 TTTATATTAT
1 TTTATATTAT
22124520 TTTTTACTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 10 0.43
15 5 0.22
16 8 0.35
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (15 bp):
TTTATATTATAAATG
Found at i:22127910 original size:88 final size:87
Alignment explanation
Indices: 22127761--22127940 Score: 324
Period size: 88 Copynumber: 2.1 Consensus size: 87
22127751 TTTTCCTACC
*
22127761 AGGGAACACAACAAATGTTGAGAACCAAGTGATCTGAACTCTAGAGAGATAATACGTGTTTAAGT
1 AGGGAACACAACAAAAGTTGAGAACCAAGTGATCTGAACTCTAGAGAGATAATACGTGTTTAAGT
22127826 TTGGAATATCAATCAATTTGCGA
66 TTGGAATATCAAT-AATTTGCGA
*
22127849 AGGGAACACAACAAAAGTTGAGAACCAAGTGATTTGAACTCTAGAGAGATAATACGTGTTTAAGT
1 AGGGAACACAACAAAAGTTGAGAACCAAGTGATCTGAACTCTAGAGAGATAATACGTGTTTAAGT
22127914 TTGGAATATCAATAATTTGCGA
66 TTGGAATATCAATAATTTGCGA
*
22127936 CGGGA
1 AGGGA
22127941 TTTTGGATGT
Statistics
Matches: 89, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
87 13 0.15
88 76 0.85
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.26
Consensus pattern (87 bp):
AGGGAACACAACAAAAGTTGAGAACCAAGTGATCTGAACTCTAGAGAGATAATACGTGTTTAAGT
TTGGAATATCAATAATTTGCGA
Found at i:22128063 original size:96 final size:96
Alignment explanation
Indices: 22127959--22128152 Score: 379
Period size: 96 Copynumber: 2.0 Consensus size: 96
22127949 GTTGTCCTTT
22127959 ATTTTTTTCATTACGCATTTTGAAATGTATCAATTTAAGTGCAAAAAATTATGACCATTTTAGTA
1 ATTTTTTTCATTACGCATTTTGAAATGTATCAATTTAAGTGCAAAAAATTATGACCATTTTAGTA
22128024 GAAATTGTGTAAACAGAAATTACCAGACGGG
66 GAAATTGTGTAAACAGAAATTACCAGACGGG
*
22128055 ATTTTTTTCATTACGCATTTTGAAATGTATCAATTTGAGTGCAAAAAATTATGACCATTTTAGTA
1 ATTTTTTTCATTACGCATTTTGAAATGTATCAATTTAAGTGCAAAAAATTATGACCATTTTAGTA
22128120 GAAATTGTGTAAACAGAAATTACCAGACGGG
66 GAAATTGTGTAAACAGAAATTACCAGACGGG
22128151 AT
1 AT
22128153 CAATACATTC
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 97 1.00
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (96 bp):
ATTTTTTTCATTACGCATTTTGAAATGTATCAATTTAAGTGCAAAAAATTATGACCATTTTAGTA
GAAATTGTGTAAACAGAAATTACCAGACGGG
Found at i:22129725 original size:10 final size:11
Alignment explanation
Indices: 22129710--22129734 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
22129700 ATAAACATTC
22129710 AAAAAACAAAA
1 AAAAAACAAAA
22129721 AAAAAACAAAA
1 AAAAAACAAAA
22129732 AAA
1 AAA
22129735 CCAAAATTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAACAAAA
Found at i:22130123 original size:16 final size:16
Alignment explanation
Indices: 22130102--22130135 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
22130092 TATACTATAG
22130102 CAAGCATCTTAAGAAC
1 CAAGCATCTTAAGAAC
22130118 CAAGCATCTTAAGAAC
1 CAAGCATCTTAAGAAC
22130134 CA
1 CA
22130136 GAACAATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.26, G:0.12, T:0.18
Consensus pattern (16 bp):
CAAGCATCTTAAGAAC
Found at i:22132040 original size:24 final size:24
Alignment explanation
Indices: 22131991--22132049 Score: 59
Period size: 25 Copynumber: 2.5 Consensus size: 24
22131981 GAATAATGAA
*
22131991 ATTATATATT-TATGTTTTAAATTG
1 ATTA-ATATTATATGATTTAAATTG
*
22132015 ATTTAATATTATATGATTTATA-TG
1 A-TTAATATTATATGATTTAAATTG
*
22132039 ATTGATATTAT
1 ATTAATATTAT
22132050 GTGTAACAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 9 0.30
24 9 0.30
25 12 0.40
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (24 bp):
ATTAATATTATATGATTTAAATTG
Found at i:22133378 original size:43 final size:43
Alignment explanation
Indices: 22133284--22133399 Score: 119
Period size: 43 Copynumber: 2.7 Consensus size: 43
22133274 TGTGATTACA
* * *
22133284 TGTAAGACCATGTTTGGGACATTGGCATTGTATTGAGATTATG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTAATGAGATTATG
* *
22133327 TGTCAGACCATGTCTGGGACATTGGCATCGTTAAT-CGATT-TCG
1 TGTAAGACCATGTCTGGGACATTGGCATCG-TAATGAGATTAT-G
* * * *
22133370 TGTAAGACCCTGTCTAGAACAGTGGCATCG
1 TGTAAGACCATGTCTGGGACATTGGCATCG
22133400 ATATGTGATA
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
42 1 0.02
43 57 0.93
44 3 0.05
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTAATGAGATTATG
Found at i:22136067 original size:28 final size:28
Alignment explanation
Indices: 22136011--22136080 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 28
22136001 ATAGTAAGTC
*
22136011 CGCACACTTAGTGCTTAATAGTCAGACT
1 CGCACACTTAGTGCTTAATAGTCAAACT
*
22136039 CGCACACTTAGTGCTATACA-A-TTAAACT
1 CGCACACTTAGTGCT-TA-ATAGTCAAACT
*
22136067 CGCATACTTAGTGC
1 CGCACACTTAGTGC
22136081 CAATCTCATT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 33 0.89
29 3 0.08
30 1 0.03
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAGTCAAACT
Found at i:22141646 original size:13 final size:13
Alignment explanation
Indices: 22141628--22141652 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22141618 GATAGAATGA
22141628 CTATGGATTTTGG
1 CTATGGATTTTGG
22141641 CTATGGATTTTG
1 CTATGGATTTTG
22141653 TATCAGGATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.08, G:0.28, T:0.48
Consensus pattern (13 bp):
CTATGGATTTTGG
Found at i:22144040 original size:43 final size:43
Alignment explanation
Indices: 22143947--22144107 Score: 139
Period size: 43 Copynumber: 3.8 Consensus size: 43
22143937 AGAGATGTGT
* * *
22143947 TTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGAGA
1 TTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAATGAGA
* * *
22143990 TTACGTGTAGGACCATGTTTGGGACATTGGCATCGTTAAT-CGA
1 TTACGTGTAAGACCATGTCTGGGACATTGGCATCG-TAATGAGA
* * * * * *
22144033 TTTCGTGTAAGACCCTATCTAGGACAGTGGCATCG-ATATGTGA
1 TTACGTGTAAGACCATGTCTGGGACATTGGCATCGTA-ATGAGA
* * * *
22144076 TAACATGTAAGACCATATCTGGGATA-TGGCAT
1 TTACGTGTAAGACCATGTCTGGGACATTGGCAT
22144108 TGTACGAGCT
Statistics
Matches: 95, Mismatches: 20, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
41 1 0.01
42 8 0.08
43 83 0.87
44 3 0.03
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.31
Consensus pattern (43 bp):
TTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAATGAGA
Found at i:22145779 original size:42 final size:42
Alignment explanation
Indices: 22145711--22145793 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
22145701 GGGTAATGTG
* * *
22145711 TGATTTAGTGTAAGACAATATCTGGGATATGGGATCGATATA
1 TGATTTAGTGTAAGACAATATCTGGGACATGGAATCAATATA
* * * *
22145753 TGATTTTGTGTAAGACCATGTTTGGGACATGGAATCAATAT
1 TGATTTAGTGTAAGACAATATCTGGGACATGGAATCAATAT
22145794 GAGACATCGT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.35
Consensus pattern (42 bp):
TGATTTAGTGTAAGACAATATCTGGGACATGGAATCAATATA
Found at i:22148289 original size:49 final size:49
Alignment explanation
Indices: 22148212--22148456 Score: 292
Period size: 49 Copynumber: 4.9 Consensus size: 49
22148202 TAGCCGAAGC
* * *
22148212 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * * *
22148261 TATCCGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * * *
22148311 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * ** * *
22148362 TTTCAGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* *
22148411 TATCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
22148457 TCACAATAGC
Statistics
Matches: 162, Mismatches: 31, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
49 79 0.49
50 47 0.29
51 36 0.22
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:22150348 original size:17 final size:17
Alignment explanation
Indices: 22150328--22150362 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
22150318 ATACTTAGGG
22150328 GTTAAAATTCTTAATGA
1 GTTAAAATTCTTAATGA
*
22150345 GTTAATATTCTTAATGA
1 GTTAAAATTCTTAATGA
22150362 G
1 G
22150363 CCTATTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (17 bp):
GTTAAAATTCTTAATGA
Found at i:22155913 original size:21 final size:21
Alignment explanation
Indices: 22155887--22155933 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
22155877 AAGATATGAC
22155887 TATGTTACGAGTTCGTACAGG
1 TATGTTACGAGTTCGTACAGG
22155908 TATGTTACGAGTTCGTACAGG
1 TATGTTACGAGTTCGTACAGG
22155929 TATGT
1 TATGT
22155934 ACGTAAAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.23, C:0.13, G:0.28, T:0.36
Consensus pattern (21 bp):
TATGTTACGAGTTCGTACAGG
Found at i:22161343 original size:8 final size:8
Alignment explanation
Indices: 22161322--22161354 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
22161312 CACTAGGGTC
22161322 ATTATGTG
1 ATTATGTG
22161330 -TTATGTG
1 ATTATGTG
22161337 ATTATGTG
1 ATTATGTG
22161345 ATTATGTG
1 ATTATGTG
22161353 AT
1 AT
22161355 CTGGGTGCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (8 bp):
ATTATGTG
Found at i:22162300 original size:15 final size:17
Alignment explanation
Indices: 22162270--22162301 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
22162260 TTGATACTTG
22162270 TGAATGTGAGTTTGGTA
1 TGAATGTGAGTTTGGTA
22162287 TGAAT-TGA-TTTGGTA
1 TGAATGTGAGTTTGGTA
22162302 AAATATGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TGAATGTGAGTTTGGTA
Found at i:22164513 original size:17 final size:18
Alignment explanation
Indices: 22164479--22164513 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
22164469 AATCTAAAAC
22164479 AAAACAAAAAATATGGGA
1 AAAACAAAAAATATGGGA
*
22164497 AAAACTAAAAATA-GGGA
1 AAAACAAAAAATATGGGA
22164514 TTGCATGGCG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.66, C:0.06, G:0.17, T:0.11
Consensus pattern (18 bp):
AAAACAAAAAATATGGGA
Found at i:22168571 original size:46 final size:46
Alignment explanation
Indices: 22168504--22168678 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 46
22168494 TGTAACCCGC
* *
22168504 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
* *
22168550 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-ATTTGCAT
* * * * *
22168600 --TTCA-TGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
22168643 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
22168679 ATGCTCAACC
Statistics
Matches: 108, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 2 0.02
46 63 0.58
47 28 0.26
48 3 0.03
49 1 0.01
50 5 0.05
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
Found at i:22168624 original size:93 final size:93
Alignment explanation
Indices: 22168511--22168682 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
22168501 CGCCCATAAG
* * *
22168511 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
22168576 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
* *
22168604 TGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
22168669 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
22168683 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.24
Consensus pattern (93 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:22179306 original size:46 final size:46
Alignment explanation
Indices: 22179256--22179456 Score: 150
Period size: 46 Copynumber: 4.7 Consensus size: 46
22179246 TGGTTGAGCA
22179256 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
22179302 TCCGAACTCGTTGAGTTGAGTCC-AGTT--C--GTGAATGTAACTAG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAT-G
* * * * *
22179344 -GC-ATC-CGTTGAGTTGAGTTCGTG-TAAC-TA--G--GC--A--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* *
22179377 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* *
22179423 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
22179457 GGGGCGGGTT
Statistics
Matches: 118, Mismatches: 19, Indels: 36
0.68 0.11 0.21
Matches are distributed among these distances:
34 1 0.01
35 2 0.02
36 16 0.14
37 3 0.03
38 3 0.03
39 15 0.13
40 4 0.03
41 10 0.08
42 3 0.03
43 1 0.01
44 1 0.01
45 4 0.03
46 55 0.47
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:22179354 original size:34 final size:30
Alignment explanation
Indices: 22179316--22179380 Score: 76
Period size: 30 Copynumber: 2.0 Consensus size: 30
22179306 AACTCGTTGA
22179316 GTTGAGTCCAGTTCGTGAATGTAACTAGGCATCC
1 GTTGAGTCCAGTTC--G--TGTAACTAGGCATCC
**
22179350 GTTGAGTTGAGTTCGTGTAACTAGGCATCC
1 GTTGAGTCCAGTTCGTGTAACTAGGCATCC
22179380 G
1 G
22179381 AACTCGTTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 16 0.55
32 1 0.03
34 12 0.41
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (30 bp):
GTTGAGTCCAGTTCGTGTAACTAGGCATCC
Found at i:22186905 original size:46 final size:46
Alignment explanation
Indices: 22186849--22187021 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
22186839 TGGTTGAGCA
*
22186849 TCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * * *
22186895 TCTGAACTCGTTGAGTTTAGTCCGAGTTC-GTGA--AATGTAACTAGGCA
1 TCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
22186942 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACG
1 TCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
22186988 CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
22187022 GGGGCGGGTT
Statistics
Matches: 100, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
43 5 0.05
45 3 0.03
46 59 0.59
47 26 0.26
48 3 0.03
50 4 0.04
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (46 bp):
TCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:22187010 original size:93 final size:93
Alignment explanation
Indices: 22186846--22187016 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
22186836 GGATGGTTGA
* * * *
22186846 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGCCTGAACTCGTTGAGT
*
22186911 TTAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
22186939 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCTGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGCCTGAACTCGTTGAGT
22187004 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
22187017 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGCCTGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:22196664 original size:49 final size:49
Alignment explanation
Indices: 22196607--22196782 Score: 187
Period size: 49 Copynumber: 3.5 Consensus size: 49
22196597 CTGATACGCA
*
22196607 TAGTAGCCTGCACTTAGTACTACACATGTGACCAACAATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAACAATACGGTACATG
* * * *
22196656 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCATTGC-GTACGCAT-
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA--CAATACGGTA--CATG
* * * * *
22196708 T-GTAGCCTGCACTTAGTACTACACATGCGACTTAACAGTATGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGAC-CAACAATACGGTACATG
22196757 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
22196783 CGTGTAGTCA
Statistics
Matches: 107, Mismatches: 11, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
48 2 0.02
49 34 0.32
50 31 0.29
51 32 0.30
52 5 0.05
53 3 0.03
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAACAATACGGTACATG
Found at i:22196782 original size:101 final size:100
Alignment explanation
Indices: 22196601--22196786 Score: 300
Period size: 101 Copynumber: 1.9 Consensus size: 100
22196591 AGCTATCTGA
* * *
22196601 TACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAACAATCCGGTACATGTAGTAGCCTG
1 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATACGGTACACGTAGTAGCCTG
22196666 CACTTAGTACTACACACGTGATCGAAGTCATTGCG
66 CACTTAGTACTACACACGTGATCGAAGTCATTGCG
* * * *
22196701 TACGCATTGTAGCCTGCACTTAGTACTACACATGCGACTTAACAGTATGGTACACGTAGTAGCCT
1 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGAC-CAACAATACGGTACACGTAGTAGCCT
22196766 GCACTTAGTACTACACACGTG
65 GCACTTAGTACTACACACGTG
22196787 TAGTCACAAT
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
100 36 0.46
101 42 0.54
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (100 bp):
TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATACGGTACACGTAGTAGCCTG
CACTTAGTACTACACACGTGATCGAAGTCATTGCG
Found at i:22204181 original size:50 final size:49
Alignment explanation
Indices: 22204063--22204292 Score: 214
Period size: 50 Copynumber: 4.6 Consensus size: 49
22204053 CTAATACGCA
* * * *
22204063 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCTG-TACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCAT-CTGATACACG
* *
22204112 TAGTAGCTTGCACTTAGTACTACACACGTGACCCCACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAACCATCTGATACACG
* * * * *
22204162 TAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTCAT-TGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-CCATCTGA-TACACG
* * * * * *
22204213 TAGTAGCCTGCACTTAGTACTACACATGCGACTTAA-TAGTATGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGAC-CAACCA-TCTGATACACG
*
22204263 TAGTAGCCTACACTTAGTACTACACACGTG
1 TAGTAGCCTGCACTTAGTACTACACACGTG
22204293 TATTCACAAT
Statistics
Matches: 149, Mismatches: 25, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
49 32 0.21
50 78 0.52
51 39 0.26
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCTGATACACG
Found at i:22209025 original size:55 final size:54
Alignment explanation
Indices: 22208919--22209106 Score: 175
Period size: 55 Copynumber: 3.5 Consensus size: 54
22208909 TTACCATTGT
* * * * * *
22208919 CATGTCTTGACATGGTCTTACGTG-GTATCCTTGCTTTAT-GAACTCACCAATGC
1 CATGCCTTGGCATGGTCTTACATGAGGA-CCTTGCCTTATAGAACTCATCAATGC
*
22208972 CATGCCTTGGCATGGTCTTACATG-GGACCTTTTCCTTATAGTAACTCATCAATGC
1 CATGCCTTGGCATGGTCTTACATGAGGACC-TTGCCTTATAG-AACTCATCAATGC
* * * * *** *
22209027 CATGTCTTGACATTTGTCTCACATGATTTCCTTGCCTTATAGAACTTATCAATGC
1 CATGCCTTGGCA-TGGTCTTACATGAGGACCTTGCCTTATAGAACTCATCAATGC
*
22209082 CATGCCTTGGCATGTTCTTACATGA
1 CATGCCTTGGCATGGTCTTACATGA
22209107 TATCCTTATC
Statistics
Matches: 109, Mismatches: 21, Indels: 9
0.78 0.15 0.06
Matches are distributed among these distances:
52 2 0.02
53 30 0.28
54 11 0.10
55 44 0.40
56 20 0.18
57 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (54 bp):
CATGCCTTGGCATGGTCTTACATGAGGACCTTGCCTTATAGAACTCATCAATGC
Found at i:22209152 original size:47 final size:47
Alignment explanation
Indices: 22209092--22209213 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
22209082 CATGCCTTGG
* * *
22209092 CATGTTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
22209139 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
22209186 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
22209214 GTGCCAATGC
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.37
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:22220009 original size:16 final size:16
Alignment explanation
Indices: 22219990--22220024 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
22219980 GAAATGCCAA
*
22219990 AAATGCCGAAAAGCTG
1 AAATGCCAAAAAGCTG
22220006 AAATGCCAAAAAGCTG
1 AAATGCCAAAAAGCTG
22220022 AAA
1 AAA
22220025 GTTTGGCTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.51, C:0.17, G:0.20, T:0.11
Consensus pattern (16 bp):
AAATGCCAAAAAGCTG
Found at i:22220273 original size:29 final size:29
Alignment explanation
Indices: 22220217--22220306 Score: 110
Period size: 29 Copynumber: 3.1 Consensus size: 29
22220207 GTGAGCATGA
* * *
22220217 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
*
22220245 ATATAAATGTGATTTGGGCCTAATTGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* * *
22220274 ATATACAGGTTATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
22220303 ATAT
1 ATAT
22220307 GAGTATGATT
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
28 11 0.21
29 42 0.79
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:22245236 original size:46 final size:46
Alignment explanation
Indices: 22245186--22245311 Score: 207
Period size: 46 Copynumber: 2.7 Consensus size: 46
22245176 TGGTTGAGCA
*
22245186 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
22245232 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
22245278 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
22245312 GGGGCGGGTT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:22248007 original size:40 final size:40
Alignment explanation
Indices: 22247959--22248055 Score: 167
Period size: 40 Copynumber: 2.4 Consensus size: 40
22247949 AATGGTATTT
*
22247959 GGCACTAAGTGTGTGATTCAAAATAGCTTCAGCTATTTGA
1 GGCACTAAGTGTGTGATTCAAAATAGCTTCAGCTATCTGA
* *
22247999 GGCACTAAGTGTGCGATTCAAAATAGCTTCGGCTATCTGA
1 GGCACTAAGTGTGTGATTCAAAATAGCTTCAGCTATCTGA
22248039 GGCACTAAGTGTGTGAT
1 GGCACTAAGTGTGTGAT
22248056 ACCGAGATAG
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (40 bp):
GGCACTAAGTGTGTGATTCAAAATAGCTTCAGCTATCTGA
Found at i:22252082 original size:12 final size:12
Alignment explanation
Indices: 22252065--22252092 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
22252055 AAAAGAGCTT
22252065 AGTTTGATTCAG
1 AGTTTGATTCAG
22252077 AGTTTGATTCAG
1 AGTTTGATTCAG
22252089 AGTT
1 AGTT
22252093 CAGAGTTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.43
Consensus pattern (12 bp):
AGTTTGATTCAG
Found at i:22258922 original size:34 final size:34
Alignment explanation
Indices: 22258879--22258945 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
22258869 TAATATTAGT
*
22258879 TGGGCCTTAGCCCA-TCACAGTACCAGTATCAGTG
1 TGGGCCTTAGCCCAGT-ACAGTAACAGTATCAGTG
*
22258913 TGGGCCTTAGCCCAGTTCAGTAACAGTATCAGT
1 TGGGCCTTAGCCCAGTACAGTAACAGTATCAGT
22258946 ATCAGTGCAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 29 0.97
35 1 0.03
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (34 bp):
TGGGCCTTAGCCCAGTACAGTAACAGTATCAGTG
Found at i:22263029 original size:17 final size:17
Alignment explanation
Indices: 22263007--22263040 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
22262997 AAGAAAAAAG
*
22263007 AAAATGTAATGACAATA
1 AAAATGCAATGACAATA
22263024 AAAATGCAATGACAATA
1 AAAATGCAATGACAATA
22263041 TATGCTTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (17 bp):
AAAATGCAATGACAATA
Found at i:22278412 original size:30 final size:30
Alignment explanation
Indices: 22278378--22278465 Score: 88
Period size: 30 Copynumber: 2.9 Consensus size: 30
22278368 CTAGCCCATA
*
22278378 TTCAGCTCACGAGCTAAACCTTAGCTCAAC
1 TTCAGCTTACGAGCTAAACCTTAGCTCAAC
** * * *
22278408 TTCAGCTTGGGAGTTTAATCC-CAGCTCAAC
1 TTCAGCTTACGAG-CTAAACCTTAGCTCAAC
* *
22278438 TTTAGCTTACGAGCTAAAGCTTAGCTCA
1 TTCAGCTTACGAGCTAAACCTTAGCTCA
22278466 TTTTAGTTTA
Statistics
Matches: 43, Mismatches: 13, Indels: 4
0.72 0.22 0.07
Matches are distributed among these distances:
29 4 0.09
30 34 0.79
31 5 0.12
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.28
Consensus pattern (30 bp):
TTCAGCTTACGAGCTAAACCTTAGCTCAAC
Found at i:22278967 original size:13 final size:13
Alignment explanation
Indices: 22278949--22278986 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
22278939 GTACTGATCA
*
22278949 TGTGTTCACACTT
1 TGTGTTCACACCT
22278962 TGTGTTCACACCT
1 TGTGTTCACACCT
22278975 TGTGTTCACACC
1 TGTGTTCACACC
22278987 ATGATGACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.16, C:0.29, G:0.16, T:0.39
Consensus pattern (13 bp):
TGTGTTCACACCT
Found at i:22280287 original size:11 final size:11
Alignment explanation
Indices: 22280271--22280300 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
22280261 TATACAAGTT
22280271 AAAAAAAATTC
1 AAAAAAAATTC
22280282 AAAAAAAATTC
1 AAAAAAAATTC
22280293 AAAAAAAA
1 AAAAAAAA
22280301 ATCTGAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.13
Consensus pattern (11 bp):
AAAAAAAATTC
Found at i:22280288 original size:12 final size:12
Alignment explanation
Indices: 22280271--22280312 Score: 59
Period size: 11 Copynumber: 3.5 Consensus size: 12
22280261 TATACAAGTT
22280271 AAAAAAAATTC-
1 AAAAAAAATTCA
22280282 AAAAAAAATTCA
1 AAAAAAAATTCA
*
22280294 AAAAAAAATCTGA
1 AAAAAAAAT-TCA
22280307 AAAAAA
1 AAAAAA
22280313 TGTGTTTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
11 11 0.39
12 9 0.32
13 8 0.29
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.14
Consensus pattern (12 bp):
AAAAAAAATTCA
Done.