Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 83 of 410
Found at i:24000028 original size:49 final size:49
Alignment explanation
Indices: 23999937--24000065 Score: 138
Period size: 49 Copynumber: 2.6 Consensus size: 49
23999927 ATCAAAGTTG
* * * *
23999937 ATGCCATGTCCCAGACAGGTCTTACGCTGACTTTTATATATCGAG-G-CTG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCG-GTGTC-A
** *
23999986 ATGCTGTGTCCCAGACAGGTCTTACACT-AGCTCTCATCTATCGGTGTCA
1 ATGCCATGTCCCAGACAGGTCTTACACTGA-CTCTCATATATCGGTGTCA
*
24000035 ATGCCATGTCCCAGATAGGTCTTACACTGAC
1 ATGCCATGTCCCAGACAGGTCTTACACTGAC
24000066 ACACAACAAG
Statistics
Matches: 66, Mismatches: 10, Indels: 8
0.79 0.12 0.10
Matches are distributed among these distances:
48 2 0.03
49 62 0.94
50 2 0.03
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.29
Consensus pattern (49 bp):
ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGTGTCA
Found at i:24008729 original size:42 final size:42
Alignment explanation
Indices: 24008683--24008844 Score: 207
Period size: 42 Copynumber: 3.8 Consensus size: 42
24008673 CCTCCACGTT
* * * *
24008683 GGCCTAGACACACGCTCGTGTCTTTGCCTATGCGTCACACAC
1 GGCCTAGACACACGCCCGTGTCTCTGCCTGTGTGTCACACAC
**
24008725 GGCCTAGACACATACCCGTGTCTCTGCCTGTGTGTCACACAC
1 GGCCTAGACACACGCCCGTGTCTCTGCCTGTGTGTCACACAC
* * * *
24008767 AGCCTAGACACATGCCCATGTCTCTGCCCGTGTGTCACACAC
1 GGCCTAGACACACGCCCGTGTCTCTGCCTGTGTGTCACACAC
*
24008809 GGCCTAGACACACGCCCGTGTGTCTCTACCTGTGTG
1 GGCCTAGACACACGCCC--GTGTCTCTGCCTGTGTG
24008845 GACAATATAA
Statistics
Matches: 103, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 89 0.86
44 14 0.14
ACGTcount: A:0.19, C:0.36, G:0.22, T:0.23
Consensus pattern (42 bp):
GGCCTAGACACACGCCCGTGTCTCTGCCTGTGTGTCACACAC
Found at i:24009879 original size:46 final size:45
Alignment explanation
Indices: 24009766--24009883 Score: 154
Period size: 45 Copynumber: 2.6 Consensus size: 45
24009756 GTGCCGATCC
* *
24009766 CATGTCCCAGACATGGTCTTACACT-GAC-ACATCTCGTAGCCGATG
1 CATGTCCAAGACAT-GTCTTACACTAG-CTACATCGCGTAGCCGATG
24009811 CATGT-CAAGACATGTCTTACACTAGCTTACATCGCG-AGGCCGATG
1 CATGTCCAAGACATGTCTTACACTAGC-TACATCGCGTA-GCCGATG
24009856 CATGTCCAAGACATGTCTTACACTAGCT
1 CATGTCCAAGACATGTCTTACACTAGCT
24009884 CTTGTCTCAA
Statistics
Matches: 66, Mismatches: 2, Indels: 10
0.85 0.03 0.13
Matches are distributed among these distances:
43 11 0.17
44 9 0.14
45 25 0.38
46 21 0.32
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.25
Consensus pattern (45 bp):
CATGTCCAAGACATGTCTTACACTAGCTACATCGCGTAGCCGATG
Found at i:24015163 original size:29 final size:29
Alignment explanation
Indices: 24015131--24015208 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
24015121 ATACCCTCCG
** *
24015131 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
* *
24015160 AGCTTGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
*
24015189 AGCACGCACACTTAGTGCCG
1 AGCTCGCACACTTAGTGCCG
24015209 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCGTATATTTCC
Found at i:24022992 original size:29 final size:29
Alignment explanation
Indices: 24022964--24023065 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
24022954 CCTCCGAGCT
** * * *
24022964 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
24022993 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
24023022 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
24023051 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
24023066 GATCTCGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:24035859 original size:6 final size:6
Alignment explanation
Indices: 24035840--24035878 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
24035830 TGTTAATGAA
*
24035840 TTCATT TCTCATT TTCATT TTCATT TTCATT TCCATT TT
1 TTCATT T-TCATT TTCATT TTCATT TTCATT TTCATT TT
24035879 GAGTAAACCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.15, C:0.21, G:0.00, T:0.64
Consensus pattern (6 bp):
TTCATT
Found at i:24035924 original size:57 final size:59
Alignment explanation
Indices: 24035861--24035981 Score: 158
Period size: 57 Copynumber: 2.1 Consensus size: 59
24035851 TTTTCATTTT
* *
24035861 CATTTTCATTTCCATTTT-GAGTAAACCACATTAATTT-TCAAATG-ATTCCATTTTCTC
1 CATTTTCATTTCCATTTTGGAGAAAACCACAATAATTTCTCAAATGTATTCCA-TTTCTC
* * * *
24035918 CATTTTCATTTTCATTTTGGAGAAAACCATAATAATTTCTTAAATGTTTTCCATTTCTC
1 CATTTTCATTTCCATTTTGGAGAAAACCACAATAATTTCTCAAATGTATTCCATTTCTC
24035977 CATTT
1 CATTT
24035982 CTATTCATTA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
57 17 0.31
58 16 0.29
59 17 0.31
60 5 0.09
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (59 bp):
CATTTTCATTTCCATTTTGGAGAAAACCACAATAATTTCTCAAATGTATTCCATTTCTC
Found at i:24037521 original size:16 final size:16
Alignment explanation
Indices: 24037500--24037535 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
24037490 TGAGATCATG
24037500 TAGCCCACGTTCATCA
1 TAGCCCACGTTCATCA
24037516 TAGCCCACGTTCATCA
1 TAGCCCACGTTCATCA
24037532 TAGC
1 TAGC
24037536 AAATGTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.36, G:0.14, T:0.25
Consensus pattern (16 bp):
TAGCCCACGTTCATCA
Found at i:24038767 original size:27 final size:27
Alignment explanation
Indices: 24038737--24038790 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
24038727 GCATGTAGAG
24038737 AACCAAGCATTGTAGAACTCTCTCTCT
1 AACCAAGCATTGTAGAACTCTCTCTCT
*
24038764 AACCAAGTATTGTAGAACTCTCTCTCT
1 AACCAAGCATTGTAGAACTCTCTCTCT
24038791 TTCTCTTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.28, G:0.11, T:0.31
Consensus pattern (27 bp):
AACCAAGCATTGTAGAACTCTCTCTCT
Found at i:24041943 original size:24 final size:24
Alignment explanation
Indices: 24041911--24041959 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
24041901 AAAGTAATAG
24041911 CCAGTCCCCATTCCCATGGTCGGC
1 CCAGTCCCCATTCCCATGGTCGGC
24041935 CCAGTCCCCATTCCCATGGTCGGC
1 CCAGTCCCCATTCCCATGGTCGGC
24041959 C
1 C
24041960 ATGCTTGGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.12, C:0.47, G:0.20, T:0.20
Consensus pattern (24 bp):
CCAGTCCCCATTCCCATGGTCGGC
Found at i:24044802 original size:57 final size:58
Alignment explanation
Indices: 24044702--24044839 Score: 140
Period size: 57 Copynumber: 2.4 Consensus size: 58
24044692 ATATCACATT
* * * * * *
24044702 TCAGGATTACCAGTTCAGGATAAATCCTTTATGTAACGTATGCTC-AGAAAGGCTCA-A
1 TCAGGATTACCAGTCCAGGCTAAACCCTATATGTAACATATGCTCGAG-AAGGATCATA
* * * *
24044759 TTAGGATTACCAGTCCAGGCTAAACCCTA-ATTGTAGCATATGCTCGAGAGGGATTATA
1 TCAGGATTACCAGTCCAGGCTAAACCCTATA-TGTAACATATGCTCGAGAAGGATCATA
24044817 TCAGGATTACCA-TCCAGGCTAAA
1 TCAGGATTACCAGTCCAGGCTAAA
24044840 TCCTTTCTAT
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
56 1 0.01
57 52 0.78
58 14 0.21
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (58 bp):
TCAGGATTACCAGTCCAGGCTAAACCCTATATGTAACATATGCTCGAGAAGGATCATA
Found at i:24056421 original size:39 final size:39
Alignment explanation
Indices: 24056362--24056446 Score: 127
Period size: 39 Copynumber: 2.2 Consensus size: 39
24056352 ATGATAGGGG
*
24056362 CCTTCACGTGTCTAACGCCACACACTACACTTTTTTCAT
1 CCTTCATGTGTCTAACGCCACACACTACACTTTTTTCAT
*
24056401 CCTTCATGTGTCT-ACTGCCACACATTACACTTTTTTCAT
1 CCTTCATGTGTCTAAC-GCCACACACTACACTTTTTTCAT
*
24056440 TCTTCAT
1 CCTTCAT
24056447 TGTATTAACC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
38 2 0.05
39 40 0.95
ACGTcount: A:0.21, C:0.33, G:0.07, T:0.39
Consensus pattern (39 bp):
CCTTCATGTGTCTAACGCCACACACTACACTTTTTTCAT
Found at i:24056594 original size:15 final size:15
Alignment explanation
Indices: 24056574--24056605 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
24056564 CAAATTTGAA
24056574 AACCTCGTGAAATCG
1 AACCTCGTGAAATCG
24056589 AACCTCGTGAAATCG
1 AACCTCGTGAAATCG
24056604 AA
1 AA
24056606 TCGTCTTCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.19
Consensus pattern (15 bp):
AACCTCGTGAAATCG
Found at i:24065285 original size:26 final size:26
Alignment explanation
Indices: 24065256--24065363 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
24065246 TGGTACAAAT
24065256 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
24065282 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
24065308 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
24065334 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
24065360 TGAT
1 TGAT
24065364 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:24066815 original size:27 final size:28
Alignment explanation
Indices: 24066785--24066837 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
24066775 GGAATATGCA
24066785 TGAAAAACC-TTAAAA-TAGATAAATTAC
1 TGAAAAACCTTTAAAAGTAGA-AAATTAC
*
24066812 TGAAATACCTTTAAAAGTAGAAAATT
1 TGAAAAACCTTTAAAAGTAGAAAATT
24066838 TACAGTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 8 0.35
28 11 0.48
29 4 0.17
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.28
Consensus pattern (28 bp):
TGAAAAACCTTTAAAAGTAGAAAATTAC
Found at i:24070488 original size:13 final size:13
Alignment explanation
Indices: 24070470--24070508 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
24070460 AAGCCACCTT
24070470 ACACGGGCGTGTC
1 ACACGGGCGTGTC
24070483 ACACGGGCGTGTC
1 ACACGGGCGTGTC
24070496 ACACGGGCGTGTC
1 ACACGGGCGTGTC
24070509 CCTGTCAAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:24072035 original size:40 final size:40
Alignment explanation
Indices: 24071965--24072142 Score: 288
Period size: 40 Copynumber: 4.5 Consensus size: 40
24071955 AAACCAAGTA
* * *
24071965 CCTTTGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
24072004 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
24072044 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
24072084 CCTTCGGGATTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
24072124 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
24072143 TTATCATCCG
Statistics
Matches: 130, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 13 0.10
40 117 0.90
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:24084823 original size:15 final size:12
Alignment explanation
Indices: 24084790--24084830 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
24084780 GCGCTTTTGC
24084790 AAACGCCGCAAA
1 AAACGCCGCAAA
24084802 AAACGCCGCTATAA
1 AAACGCCGC-A-AA
24084816 ATAACGCCGCAAA
1 A-AACGCCGCAAA
24084829 AA
1 AA
24084831 TTTACGGCGT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 10 0.38
13 4 0.15
14 4 0.15
15 8 0.31
ACGTcount: A:0.49, C:0.29, G:0.15, T:0.07
Consensus pattern (12 bp):
AAACGCCGCAAA
Found at i:24084899 original size:43 final size:43
Alignment explanation
Indices: 24084851--24084997 Score: 244
Period size: 43 Copynumber: 3.4 Consensus size: 43
24084841 TTATCTAAAA
24084851 AAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTTCCCCAC
1 AAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTTCCCCAC
*
24084894 AAACGCCGCTAAAGGTCATGACCTATAGCGGCGCTTTCCCCAC
1 AAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTTCCCCAC
*
24084937 AAACGCTGCTATAA-GTCATGACCTTTAGCGGCGC-TTCCCCAC
1 AAACGCCGCTA-AAGGTCATGACCTTTAGCGGCGCTTTCCCCAC
*
24084979 AAACGCCGCTAAAAGTCAT
1 AAACGCCGCTAAAGGTCAT
24084998 AAAATTTTAA
Statistics
Matches: 98, Mismatches: 4, Indels: 5
0.92 0.04 0.05
Matches are distributed among these distances:
41 2 0.02
42 23 0.23
43 71 0.72
44 2 0.02
ACGTcount: A:0.27, C:0.33, G:0.20, T:0.20
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTTCCCCAC
Found at i:24087761 original size:21 final size:21
Alignment explanation
Indices: 24087722--24087812 Score: 65
Period size: 21 Copynumber: 4.3 Consensus size: 21
24087712 CAATTGCACA
*
24087722 CTAAATCCTAAACCCTAAACC
1 CTAAATCATAAACCCTAAACC
** **
24087743 CTAAATCATAAACTTTAAAATA
1 CTAAATCATAAACCCT-AAACC
* * *
24087765 GTAACTCATAAACCTTAAACC
1 CTAAATCATAAACCCTAAACC
* * *
24087786 CTTAACCATATACCCTAAACC
1 CTAAATCATAAACCCTAAACC
*
24087807 GTAAAT
1 CTAAAT
24087813 GCTAAACTGT
Statistics
Matches: 50, Mismatches: 19, Indels: 2
0.70 0.27 0.03
Matches are distributed among these distances:
21 34 0.68
22 16 0.32
ACGTcount: A:0.45, C:0.27, G:0.02, T:0.25
Consensus pattern (21 bp):
CTAAATCATAAACCCTAAACC
Found at i:24087929 original size:7 final size:7
Alignment explanation
Indices: 24087917--24087942 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
24087907 CACTAATTAA
24087917 TCTAATC
1 TCTAATC
24087924 TCTAATC
1 TCTAATC
24087931 TCTAATC
1 TCTAATC
24087938 TCTAA
1 TCTAA
24087943 ACCCTAAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.27, G:0.00, T:0.42
Consensus pattern (7 bp):
TCTAATC
Found at i:24087949 original size:7 final size:7
Alignment explanation
Indices: 24087939--24088074 Score: 53
Period size: 7 Copynumber: 19.1 Consensus size: 7
24087929 TCTCTAATCT
24087939 CTAAACC
1 CTAAACC
24087946 CTAAACC
1 CTAAACC
*
24087953 CTAAAAC
1 CTAAACC
*
24087960 ATAAACC
1 CTAAACC
* * *
24087967 ATTAACT
1 CTAAACC
*
24087974 TTAAACCC
1 CTAAA-CC
24087982 CT-AACC
1 CTAAACC
*
24087988 CTTAACCC
1 C-TAAACC
24087996 CT-AACC
1 CTAAACC
24088002 CTTAAACC
1 C-TAAACC
*
24088010 ATAAACC
1 CTAAACC
*
24088017 ACTAAAGC
1 -CTAAACC
*
24088025 TTAAACC
1 CTAAACC
*
24088032 CT-GACC
1 CTAAACC
*
24088038 CTTAAACT
1 C-TAAACC
*
24088046 ATAAACC
1 CTAAACC
* *
24088053 ATAAAAC
1 CTAAACC
* *
24088060 ATAATCC
1 CTAAACC
24088067 CTAAACC
1 CTAAACC
24088074 C
1 C
24088075 ATAATCCATA
Statistics
Matches: 94, Mismatches: 27, Indels: 16
0.69 0.20 0.12
Matches are distributed among these distances:
6 11 0.12
7 66 0.70
8 17 0.18
ACGTcount: A:0.43, C:0.35, G:0.01, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:24088009 original size:15 final size:15
Alignment explanation
Indices: 24087974--24088009 Score: 65
Period size: 14 Copynumber: 2.5 Consensus size: 15
24087964 ACCATTAACT
24087974 TTAAACCCCTAACCC
1 TTAAACCCCTAACCC
24087989 TT-AACCCCTAACCC
1 TTAAACCCCTAACCC
24088003 TTAAACC
1 TTAAACC
24088010 ATAAACCACT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.33, C:0.44, G:0.00, T:0.22
Consensus pattern (15 bp):
TTAAACCCCTAACCC
Found at i:24088015 original size:36 final size:36
Alignment explanation
Indices: 24087975--24088087 Score: 111
Period size: 36 Copynumber: 3.1 Consensus size: 36
24087965 CCATTAACTT
* * *
24087975 TAAACCCCTAACCCTTAACCCCTAACCCTTAAACCA
1 TAAACCACTAAACCTTAAACCCTAACCCTTAAACCA
* * *
24088011 TAAACCACTAAAGCTTAAACCCTGACCCTTAAACTA
1 TAAACCACTAAACCTTAAACCCTAACCCTTAAACCA
* * * * *
24088047 TAAACCA-TAAAACATAATCCCTAAACCCATAATCCA
1 TAAACCACTAAACCTTAAACCCT-AACCCTTAAACCA
24088083 TAAAC
1 TAAAC
24088088 TTTAAAATAG
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
35 12 0.19
36 51 0.81
ACGTcount: A:0.43, C:0.35, G:0.02, T:0.20
Consensus pattern (36 bp):
TAAACCACTAAACCTTAAACCCTAACCCTTAAACCA
Found at i:24088022 original size:8 final size:7
Alignment explanation
Indices: 24088004--24088087 Score: 51
Period size: 7 Copynumber: 11.7 Consensus size: 7
24087994 CCCTAACCCT
24088004 TAAACCA
1 TAAACCA
24088011 TAAACCA
1 TAAACCA
* *
24088018 CTAAAGCT
1 -TAAACCA
*
24088026 TAAACCC
1 TAAACCA
* * *
24088033 TGACCCT
1 TAAACCA
*
24088040 TAAACTA
1 TAAACCA
24088047 TAAACCA
1 TAAACCA
*
24088054 TAAAACA
1 TAAACCA
* *
24088061 TAATCCC
1 TAAACCA
24088068 TAAACCCA
1 TAAA-CCA
*
24088076 TAATCCA
1 TAAACCA
24088083 TAAAC
1 TAAAC
24088088 TTTAAAATAG
Statistics
Matches: 55, Mismatches: 20, Indels: 4
0.70 0.25 0.05
Matches are distributed among these distances:
7 45 0.82
8 10 0.18
ACGTcount: A:0.48, C:0.30, G:0.02, T:0.20
Consensus pattern (7 bp):
TAAACCA
Found at i:24088643 original size:40 final size:39
Alignment explanation
Indices: 24088599--24088704 Score: 122
Period size: 40 Copynumber: 2.6 Consensus size: 39
24088589 GACCTATAGA
*
24088599 GGCGTTTTTTAAAAAGCGCCGCTAATGCTTGATCTTCAGC
1 GGCGTTTTTTAAAAA-CGCCGCTAATGCTCGATCTTCAGC
** * *
24088639 GGCGTTTTGCAAAAAACGCCTCTAATGCTCGATCTTTAGC
1 GGCGTTTT-TTAAAAACGCCGCTAATGCTCGATCTTCAGC
*
24088679 GGCGTTTTTCATTAAAACGCCGCTAA
1 GGCGTTTTT--TAAAAACGCCGCTAA
24088705 AAACCTGTTT
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
40 37 0.69
41 17 0.31
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.31
Consensus pattern (39 bp):
GGCGTTTTTTAAAAACGCCGCTAATGCTCGATCTTCAGC
Found at i:24089258 original size:2 final size:2
Alignment explanation
Indices: 24089251--24089278 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
24089241 TACACTTATC
24089251 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
24089279 TCTAAATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24096201 original size:13 final size:14
Alignment explanation
Indices: 24096177--24096206 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
24096167 TAAAGGGGAC
24096177 AGAAAAACAAAAAG
1 AGAAAAACAAAAAG
24096191 AGAAAAA-AAAAAG
1 AGAAAAACAAAAAG
24096204 AGA
1 AGA
24096207 TCTTTAGGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (14 bp):
AGAAAAACAAAAAG
Found at i:24099568 original size:43 final size:43
Alignment explanation
Indices: 24099518--24099710 Score: 237
Period size: 43 Copynumber: 4.5 Consensus size: 43
24099508 TATCCTATAT
* * * *
24099518 ATGGTCTTACATGTTATCA-AATATCGATGCCACTGTCCCAGAC
1 ATGGTCTTACACGTAATCACAATA-CAATGCCAATGTCCCAGAC
* * ** * * *
24099561 AAGGTCTTATACAAAATCA-TATAGCGATGCCAATGTCTCAGAC
1 ATGGTCTTACACGTAATCACAATA-CAATGCCAATGTCCCAGAC
24099604 ATGGTCTTACACGTAATCACAATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACAATACAATGCCAATGTCCCAGAC
*
24099647 ATGGTCTTACACGTAATCACAATAAAATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACAATACAATGCCAATGTCCCAGAC
*
24099690 ATGGTCTTACATGTAATCACA
1 ATGGTCTTACACGTAATCACA
24099711 TCTAGGTAAT
Statistics
Matches: 130, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
43 127 0.98
44 3 0.02
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.26
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCACAATACAATGCCAATGTCCCAGAC
Found at i:24101775 original size:38 final size:38
Alignment explanation
Indices: 24101724--24101800 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
24101714 CGAGAATAAG
24101724 AGAAACAATGGAAGGAATAGTGCAAGGCCATCACTCTC
1 AGAAACAATGGAAGGAATAGTGCAAGGCCATCACTCTC
24101762 AGAAACAATGGAAGGAATAGTGCAAGGCCATCACTCTC
1 AGAAACAATGGAAGGAATAGTGCAAGGCCATCACTCTC
24101800 A
1 A
24101801 AAAGTGAGAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.40, C:0.21, G:0.23, T:0.16
Consensus pattern (38 bp):
AGAAACAATGGAAGGAATAGTGCAAGGCCATCACTCTC
Found at i:24102861 original size:36 final size:36
Alignment explanation
Indices: 24102814--24102905 Score: 139
Period size: 36 Copynumber: 2.6 Consensus size: 36
24102804 GAATCTTTGG
* * * *
24102814 ATTTAAAATATGCATATTTGAAACCTTTACTGTAAT
1 ATTTAAAATATGCATATTTGAAACATTTACCGCAAC
*
24102850 ATTTAAAATATGCATATTTGAAACATTTGCCGCAAC
1 ATTTAAAATATGCATATTTGAAACATTTACCGCAAC
24102886 ATTTAAAATATGCATATTTG
1 ATTTAAAATATGCATATTTG
24102906 GGAGACAACA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 51 1.00
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (36 bp):
ATTTAAAATATGCATATTTGAAACATTTACCGCAAC
Found at i:24117883 original size:55 final size:55
Alignment explanation
Indices: 24117824--24117928 Score: 138
Period size: 55 Copynumber: 1.9 Consensus size: 55
24117814 GGCGTGCAAC
* * *
24117824 ACGCCCGTGTTCTGAAACCGTGGGCAAACCTATCAATTTAGTACGGGTGTGTCTT
1 ACGCCCGTGTTCTAAAACCGTAGGCAAACCTATCAATTTAGCACGGGTGTGTCTT
* ** * *
24117879 ACGCCCGTGTTTTAAAATTGTAGGCTAACCTGTCAATTTAGCACGGGTGT
1 ACGCCCGTGTTCTAAAACCGTAGGCAAACCTATCAATTTAGCACGGGTGT
24117929 TTGACACGTC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 42 1.00
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (55 bp):
ACGCCCGTGTTCTAAAACCGTAGGCAAACCTATCAATTTAGCACGGGTGTGTCTT
Found at i:24121008 original size:30 final size:30
Alignment explanation
Indices: 24120972--24121028 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
24120962 CCGAGCCTAG
24120972 GGGCAAAAGTGTAATTATGCAAAAGTTTAA
1 GGGCAAAAGTGTAATTATGCAAAAGTTTAA
* *
24121002 GGGCAAAAGTGTAATTTTTCAAAAGTT
1 GGGCAAAAGTGTAATTATGCAAAAGTT
24121029 CGTATTAAAT
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:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (30 bp):
GGGCAAAAGTGTAATTATGCAAAAGTTTAA
Found at i:24121501 original size:46 final size:46
Alignment explanation
Indices: 24121451--24121623 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
24121441 TGGTTGAGCA
24121451 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
24121497 TCCGAACTCGTTAAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
24121542 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
24121590 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
24121624 GGGCGGGTTA
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 59 0.57
47 27 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:24121607 original size:93 final size:93
Alignment explanation
Indices: 24121448--24121618 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
24121438 GGATGGTTGA
* * *
24121448 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTAAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTAAGT
24121513 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
24121541 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTAAGT
24121606 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
24121619 ACTTAGGGCG
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTAAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:24128997 original size:46 final size:45
Alignment explanation
Indices: 24128947--24129118 Score: 215
Period size: 46 Copynumber: 3.8 Consensus size: 45
24128937 TGGTTGAGCA
24128947 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
24128993 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATG-GA-T-GCGAAG
24129039 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
24129085 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
24129119 GGGCGGGTTA
Statistics
Matches: 108, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 96 0.89
47 2 0.02
48 3 0.03
49 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:24129101 original size:92 final size:92
Alignment explanation
Indices: 24128944--24129113 Score: 313
Period size: 92 Copynumber: 1.8 Consensus size: 92
24128934 GGATGGTTGA
* *
24128944 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
24129009 TGAGTCCGAGTTCGTGAATGTAACTAG
66 TGAGTCCGAGTTCGTGAATGTAACTAG
*
24129036 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
24129101 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
24129114 ACTTAGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAATGTAACTAG
Found at i:24133281 original size:39 final size:40
Alignment explanation
Indices: 24133158--24133285 Score: 109
Period size: 40 Copynumber: 3.2 Consensus size: 40
24133148 GACTCGCTCA
* * *
24133158 AATGCCTTCGGGAC-GAAGCCC-GGTTATAGTGACTCGTACG
1 AATGCCTTCGGGACTTAA-CCCAGATT-TAGTAACTCGTACG
* ** * * * *
24133198 AATGCCTTTGGGACTTAACCTGGGTTTAGTAACTTGCACA
1 AATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGTACG
* *
24133238 AATGCCTTCGGG-CTTAGCCCAGATTTATTAACTCGTACG
1 AATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGTACG
24133277 AATGCCTTC
1 AATGCCTTC
24133286 AGATCCTAGT
Statistics
Matches: 70, Mismatches: 16, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
39 28 0.40
40 36 0.51
41 6 0.09
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.29
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGTACG
Found at i:24154225 original size:13 final size:15
Alignment explanation
Indices: 24154196--24154227 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
24154186 CCTAAAGCGG
24154196 GAGAAAAAACAACAA
1 GAGAAAAAACAACAA
24154211 GAGAAAAAA-AA-AA
1 GAGAAAAAACAACAA
24154224 GAGA
1 GAGA
24154228 TCCTTAGGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 2 0.12
15 9 0.53
ACGTcount: A:0.75, C:0.06, G:0.19, T:0.00
Consensus pattern (15 bp):
GAGAAAAAACAACAA
Found at i:24161832 original size:39 final size:39
Alignment explanation
Indices: 24161781--24161887 Score: 126
Period size: 39 Copynumber: 2.8 Consensus size: 39
24161771 ATGTTGTATG
* *
24161781 ATTA-ATGAGTATTGTGATATGTGCTTGAACGTTACGTA
1 ATTATATGAGTATTGTGATATATGCTTAAACGTTACGTA
* * * *
24161819 ATTATATGAGTATTGTGATATATTCTTAAATGTTATGTG
1 ATTATATGAGTATTGTGATATATGCTTAAACGTTACGTA
* * *
24161858 ATTATATGTGTAATGTGGTATATGCTTAAA
1 ATTATATGAGTATTGTGATATATGCTTAAA
24161888 AGTGAATATG
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
38 4 0.07
39 54 0.93
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.44
Consensus pattern (39 bp):
ATTATATGAGTATTGTGATATATGCTTAAACGTTACGTA
Found at i:24164153 original size:17 final size:17
Alignment explanation
Indices: 24164133--24164191 Score: 73
Period size: 17 Copynumber: 3.4 Consensus size: 17
24164123 CATTCAAATA
24164133 AATCCAAAATTAATAAT
1 AATCCAAAATTAATAAT
** *
24164150 AATCCATCATTAATATGAA
1 AATCCAAAATTAATA--AT
24164169 AATCCAAAATTAATAAT
1 AATCCAAAATTAATAAT
24164186 AATCCA
1 AATCCA
24164192 TCATTAATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
17 20 0.59
19 14 0.41
ACGTcount: A:0.54, C:0.15, G:0.02, T:0.29
Consensus pattern (17 bp):
AATCCAAAATTAATAAT
Found at i:24164174 original size:19 final size:19
Alignment explanation
Indices: 24164150--24164207 Score: 75
Period size: 19 Copynumber: 3.2 Consensus size: 19
24164140 AATTAATAAT
24164150 AATCCATCATTAATATGAA
1 AATCCATCATTAATATGAA
** *
24164169 AATCCAAAATTAATA--AT
1 AATCCATCATTAATATGAA
24164186 AATCCATCATTAATATGAA
1 AATCCATCATTAATATGAA
24164205 AAT
1 AAT
24164208 TTAAGGATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
17 14 0.45
19 17 0.55
ACGTcount: A:0.52, C:0.14, G:0.03, T:0.31
Consensus pattern (19 bp):
AATCCATCATTAATATGAA
Found at i:24164178 original size:36 final size:36
Alignment explanation
Indices: 24164132--24164207 Score: 152
Period size: 36 Copynumber: 2.1 Consensus size: 36
24164122 TCATTCAAAT
24164132 AAATCCAAAATTAATAATAATCCATCATTAATATGA
1 AAATCCAAAATTAATAATAATCCATCATTAATATGA
24164168 AAATCCAAAATTAATAATAATCCATCATTAATATGA
1 AAATCCAAAATTAATAATAATCCATCATTAATATGA
24164204 AAAT
1 AAAT
24164208 TTAAGGATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.54, C:0.13, G:0.03, T:0.30
Consensus pattern (36 bp):
AAATCCAAAATTAATAATAATCCATCATTAATATGA
Found at i:24164197 original size:17 final size:17
Alignment explanation
Indices: 24164141--24164200 Score: 75
Period size: 17 Copynumber: 3.4 Consensus size: 17
24164131 TAAATCCAAA
24164141 ATTAATAATAATCCATC
1 ATTAATAATAATCCATC
* **
24164158 ATTAATATGAAAATCCAAA
1 ATTAATA--ATAATCCATC
24164177 ATTAATAATAATCCATC
1 ATTAATAATAATCCATC
24164194 ATTAATA
1 ATTAATA
24164201 TGAAAATTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
17 21 0.60
19 14 0.40
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (17 bp):
ATTAATAATAATCCATC
Found at i:24169831 original size:27 final size:27
Alignment explanation
Indices: 24169774--24169835 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
24169764 ATAATATTTG
** *
24169774 TGTTTAATGTCCCGATGGACTACCCCC
1 TGTTTAACATCCCGATGGACTACCCCA
* * *
24169801 TGTTTAACATCCCGTTGGACTATCCTA
1 TGTTTAACATCCCGATGGACTACCCCA
24169828 TGTTTAAC
1 TGTTTAAC
24169836 GTCTTGCTAG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.21, C:0.27, G:0.16, T:0.35
Consensus pattern (27 bp):
TGTTTAACATCCCGATGGACTACCCCA
Found at i:24172519 original size:52 final size:50
Alignment explanation
Indices: 24172446--24172573 Score: 139
Period size: 52 Copynumber: 2.5 Consensus size: 50
24172436 TGAGAACACG
* * * *
24172446 TGTAGTATTATGTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGTCACGTA
1 TGTAGTACTAAGTGCAGGCTACTATGTGTGTAAAATGG--TTAGGTCACATA
* * * ** *
24172498 TGTAGTACTAAGTGCAAGCTACTACGTGTGTCAAATGGTTAGGTTGCATG
1 TGTAGTACTAAGTGCAGGCTACTATGTGTGTAAAATGGTTAGGTCACATA
*
24172548 TGTAATACTAAGTGCAGGCTACTATG
1 TGTAGTACTAAGTGCAGGCTACTATG
24172574 CGTACCGATA
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
50 31 0.49
52 32 0.51
ACGTcount: A:0.27, C:0.12, G:0.26, T:0.35
Consensus pattern (50 bp):
TGTAGTACTAAGTGCAGGCTACTATGTGTGTAAAATGGTTAGGTCACATA
Found at i:24174369 original size:40 final size:39
Alignment explanation
Indices: 24174325--24174506 Score: 197
Period size: 40 Copynumber: 4.5 Consensus size: 39
24174315 GCTACTCGTT
*
24174325 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATT-TAGTAACTCGCA
* *
24174365 CAAATGCCTTCAGGACATAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATTTAGTAACTCGCA
*
24174405 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
24174445 CGAATGCCTTCAGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
24174486 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTC-GGACTTAGCC
24174507 GGACATCATT
Statistics
Matches: 125, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.02
40 111 0.89
41 11 0.09
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:24174470 original size:80 final size:81
Alignment explanation
Indices: 24174325--24174509 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 81
24174315 GCTACTCGTT
*
24174325 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCAGGACATAACCCG
1 CAAATGCCTTCGGGACTTAG-CCGGATTATAGTAACTCGCACAAATGCCTTCAGGACATAACCCG
* *
24174389 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* * **
24174405 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCACGAATGCCTTCA-GATCTTAGTC
1 CAAATGCCTTCGGGA-CTTAG-CCGGATTATAGTAACTCGCACAAATGCCTTCAGGA-CATAACC
*
24174467 CGGATATAGTCACTTAGCA
63 CGGATATAGTAACTTAGCA
24174486 CAAA-GCCTTCGGGACTTAGCCGGA
1 CAAATGCCTTCGGGACTTAGCCGGA
24174510 CATCATTCGA
Statistics
Matches: 91, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
79 10 0.11
80 68 0.75
81 13 0.14
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCGGATTATAGTAACTCGCACAAATGCCTTCAGGACATAACCCGG
ATATAGTAACTTAGCA
Found at i:24177999 original size:13 final size:13
Alignment explanation
Indices: 24177981--24178008 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
24177971 CCATTTAAGT
24177981 GCACACGCCCAAG
1 GCACACGCCCAAG
24177994 GCACACGCCCAAG
1 GCACACGCCCAAG
24178007 GC
1 GC
24178009 CCGAGGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.46, G:0.25, T:0.00
Consensus pattern (13 bp):
GCACACGCCCAAG
Found at i:24180085 original size:27 final size:27
Alignment explanation
Indices: 24180045--24180098 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
24180035 TCATACAACC
* *
24180045 CATGTAATATTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
24180072 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
24180099 TCACATAACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.41
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:24189903 original size:19 final size:18
Alignment explanation
Indices: 24189870--24189907 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
24189860 TAATATTAGT
*
24189870 TAAACATGTTTAATTAAA
1 TAAACATGATTAATTAAA
24189888 TAAACTATGATTAATTAAA
1 TAAAC-ATGATTAATTAAA
24189907 T
1 T
24189908 TTTTTAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.39
Consensus pattern (18 bp):
TAAACATGATTAATTAAA
Found at i:24192616 original size:24 final size:24
Alignment explanation
Indices: 24192584--24192631 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
24192574 TGCTTAAGGG
24192584 TTGGATTGTATAAGTTTCAAAAGT
1 TTGGATTGTATAAGTTTCAAAAGT
24192608 TTGGATTGTATAAGTTTCAAAAGT
1 TTGGATTGTATAAGTTTCAAAAGT
24192632 GATCATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.04, G:0.21, T:0.42
Consensus pattern (24 bp):
TTGGATTGTATAAGTTTCAAAAGT
Found at i:24200154 original size:6 final size:6
Alignment explanation
Indices: 24200143--24200171 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
24200133 TGTGTATGGT
24200143 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
24200172 TGCTTCTGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:24204936 original size:2 final size:2
Alignment explanation
Indices: 24204929--24204953 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24204919 ACCTAAAAAG
24204929 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
24204954 CTGCAGGAAT
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:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:24207302 original size:29 final size:29
Alignment explanation
Indices: 24207247--24207313 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
24207237 TTCAGAAAAT
* *
24207247 TTAAAAATTCTAATTAAGCCTTTAATTTG
1 TTAAAAATTCTAATTAAACCTTAAATTTG
* *
24207276 TTAAAAATTTTAATTAAAACC-TAAATTTT
1 TTAAAAATTCTAATT-AAACCTTAAATTTG
*
24207305 TTTAAAATT
1 TTAAAAATT
24207314 AATTTAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 28 0.88
30 4 0.12
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.46
Consensus pattern (29 bp):
TTAAAAATTCTAATTAAACCTTAAATTTG
Found at i:24212436 original size:26 final size:26
Alignment explanation
Indices: 24212407--24212540 Score: 241
Period size: 26 Copynumber: 5.2 Consensus size: 26
24212397 TGATACAAAT
24212407 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
24212433 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
24212459 TGATAATGAGTCAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
24212485 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
24212511 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
24212537 TGAT
1 TGAT
24212541 GGGAATTTTA
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 102 1.00
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:24215762 original size:12 final size:12
Alignment explanation
Indices: 24215741--24215807 Score: 125
Period size: 12 Copynumber: 5.6 Consensus size: 12
24215731 ACTCGGGGAA
*
24215741 GAGGCTGTGGTC
1 GAGGCCGTGGTC
24215753 GAGGCCGTGGTC
1 GAGGCCGTGGTC
24215765 GAGGCCGTGGTC
1 GAGGCCGTGGTC
24215777 GAGGCCGTGGTC
1 GAGGCCGTGGTC
24215789 GAGGCCGTGGTC
1 GAGGCCGTGGTC
24215801 GAGGCCG
1 GAGGCCG
24215808 AGGTAGTACT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
12 54 1.00
ACGTcount: A:0.09, C:0.24, G:0.51, T:0.16
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:24220743 original size:26 final size:26
Alignment explanation
Indices: 24220684--24220764 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
24220674 TGATACAAAT
24220684 TGATAATGGGTTAGGTAAATGTT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
24220709 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
24220735 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
24220761 TGAT
1 TGAT
24220765 GGGAATTTCA
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
25 23 0.42
26 32 0.58
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:24224826 original size:29 final size:29
Alignment explanation
Indices: 24224793--24224849 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
24224783 TCAACATAAT
* *
24224793 TATTG-ATATAACATTATTTTATATTTATA
1 TATTGTATATAAAATTA-ATTATATTTATA
24224822 TATTGTATATAAAATTAATTATATTTAT
1 TATTGTATATAAAATTAATTATATTTAT
24224850 TCAATATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (29 bp):
TATTGTATATAAAATTAATTATATTTATA
Found at i:24227479 original size:15 final size:15
Alignment explanation
Indices: 24227459--24227489 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
24227449 TCAAATAAAC
24227459 TGTAAAATATGAAAT
1 TGTAAAATATGAAAT
24227474 TGTAAAATATGAAAT
1 TGTAAAATATGAAAT
24227489 T
1 T
24227490 TGGTCGTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.13, T:0.35
Consensus pattern (15 bp):
TGTAAAATATGAAAT
Found at i:24227852 original size:14 final size:14
Alignment explanation
Indices: 24227833--24227870 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
24227823 GGATGGTCGG
* *
24227833 AGATGGTGTGTAGC
1 AGATGGGGTATAGC
24227847 AGATGGGGTATAGC
1 AGATGGGGTATAGC
24227861 AGATGGGGTA
1 AGATGGGGTA
24227871 GGAAATATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.26, C:0.05, G:0.45, T:0.24
Consensus pattern (14 bp):
AGATGGGGTATAGC
Found at i:24230035 original size:42 final size:42
Alignment explanation
Indices: 24229964--24230078 Score: 133
Period size: 42 Copynumber: 2.7 Consensus size: 42
24229954 ATCTCATATT
* * * *
24229964 GATGCCAATAGCCCA-ACTATGGTCTTACACAAAATTTCGTATC
1 GATGCC-ATATCCCAGAC-ATGGTCTTACACAAAATATCATACC
* **
24230007 GATGCCATGTCCCAGACATGGTCTTACACGTAATATCATACC
1 GATGCCATATCCCAGACATGGTCTTACACAAAATATCATACC
*
24230049 GATGCCATATCCCAGATATGGTCTTACACA
1 GATGCCATATCCCAGACATGGTCTTACACA
24230079 TATTCTCATC
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
42 53 0.87
43 8 0.13
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (42 bp):
GATGCCATATCCCAGACATGGTCTTACACAAAATATCATACC
Found at i:24244303 original size:310 final size:308
Alignment explanation
Indices: 24243707--24244426 Score: 694
Period size: 310 Copynumber: 2.4 Consensus size: 308
24243697 TTTTATTTTG
* * * *
24243707 CACATTTTAATCTATT-TTTTTTATTTTAACACCATATATATTTTATGTGTTATTATTAATTAGT
1 CACAATTTAATCTATTATTTTTTATTTTAACAACATACATATTTCATGTGTTATTATTAATTAGT
* * * *
24243771 TTCAAACCATACATTTAATTATTTATTGTATGTTATTTTTAACCACAAATTTATATTCTAAATAC
66 TTCAAACAATACATTTAATTATTTATTGTATATTATTTTTAAACACAAATTTACATTCTAAATAC
* * * * * * * *
24243836 GTGGTTTTCATACGCGTATGCGTTTATAGAGTTTCTAGTATTAATAATATTGTTAATTGAATTGG
131 GTGGTTTTCACACACATATACATTGATAGAATTTCTA-TATAAATAATATTGTTAATTGAATTGG
* * * * * * * * *
24243901 TGTAATAAATTAACTCGACACCAACTCATGGTTGATGACAACACCATAATCAATAAATGTATTCA
195 TGTAATAAATTAACTCAAAACAAACTAAAGATTGATGACAACACCATAATAAACAAATATATTCA
* * * *
24243966 TTTAATATTTTTAATTTGATATATTTATGTGCTTAAAATTCATTTTACT
260 TTTAATATTTTAAATCTAATATATTTATATGCTTAAAATTCATTTTACT
* * * *
24244015 CGCAATTTAATCTATTATTTTTTCATTTTAACAGCATACATATTTCACGTGCTATTATTAATTAG
1 CACAATTTAATCTATTATTTTTT-ATTTTAACAACATACATATTTCATGTGTTATTATTAATTAG
* * * * *
24244080 TTTCAAACTATA-AGTTTCATTATTTATTGTATTTTATTTTTAAACACATATTTGCATTCTAAAT
65 TTTCAAACAATACA-TTTAATTATTTATTGTATATTATTTTTAAACACAAATTTACATTCTAAAT
* * *
24244144 ATGTGG-TTTC-CACACATATACAAAATTGATAGAAATTTCT-TATAAATAATGTTGTTGATTGA
129 ACGTGGTTTTCACACACATATAC---ATTGATAG-AATTTCTATATAAATAATATTGTTAATTGA
* ** * *** * *
24244206 GTTGGTGTCGTAAATTAACTTAAAACAAACTAAAGATTGATGACAACATTGTGATAAACAATTAT
190 ATTGGTGTAATAAATTAACTCAAAACAAACTAAAGATTGATGACAACACCATAATAAACAAATAT
* * * ** * *
24244271 ATTTA-TTAGGTATTTTAAATCTAATGTATTTATATTTTTAAATTTCGTTTTACT
255 ATTCATTTA-ATATTTTAAATCTAATATATTTATATGCTTAAAATTCATTTTACT
* *
24244325 CACAATTT-A---A-TA--TTTTATTTTAATAACTTACATATTTCATGTGTTATTATTAATTA-T
1 CACAATTTAATCTATTATTTTTTATTTTAACAACATACATATTTCATGTGTTATTATTAATTAGT
* * * * *
24244382 TTCAACCAATATATTTTATTATTTATTATATATTATTTTTGAACA
66 TTCAAACAATACATTTAATTATTTATTGTATATTATTTTTAAACA
24244427 TATTTCTATA
Statistics
Matches: 337, Mismatches: 66, Indels: 25
0.79 0.15 0.06
Matches are distributed among these distances:
301 38 0.11
302 36 0.11
303 4 0.01
305 2 0.01
306 1 0.00
308 21 0.06
309 15 0.04
310 208 0.62
311 6 0.02
312 6 0.02
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.46
Consensus pattern (308 bp):
CACAATTTAATCTATTATTTTTTATTTTAACAACATACATATTTCATGTGTTATTATTAATTAGT
TTCAAACAATACATTTAATTATTTATTGTATATTATTTTTAAACACAAATTTACATTCTAAATAC
GTGGTTTTCACACACATATACATTGATAGAATTTCTATATAAATAATATTGTTAATTGAATTGGT
GTAATAAATTAACTCAAAACAAACTAAAGATTGATGACAACACCATAATAAACAAATATATTCAT
TTAATATTTTAAATCTAATATATTTATATGCTTAAAATTCATTTTACT
Found at i:24245538 original size:21 final size:21
Alignment explanation
Indices: 24245512--24245560 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
24245502 TCTGCAGTGA
24245512 CCACAATAGCATCCGTTATGT
1 CCACAATAGCATCCGTTATGT
24245533 CCACAATAGCATCCGTTATGT
1 CCACAATAGCATCCGTTATGT
*
24245554 CCGCAAT
1 CCACAAT
24245561 CGCGATAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.27
Consensus pattern (21 bp):
CCACAATAGCATCCGTTATGT
Found at i:24246867 original size:39 final size:39
Alignment explanation
Indices: 24246824--24246946 Score: 228
Period size: 39 Copynumber: 3.2 Consensus size: 39
24246814 CAAAATCTAG
*
24246824 CTGAAGCATATAAGTGCTAAACGGAAGCCCGAAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTAA
*
24246863 CTGAAGCACATAAGTGCTAAACGGAAGCCCGGAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTAA
24246902 CTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTAA
24246941 CTGAAG
1 CTGAAG
24246947 TTCATCAGAG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 81 1.00
ACGTcount: A:0.37, C:0.22, G:0.27, T:0.14
Consensus pattern (39 bp):
CTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTAA
Found at i:24254791 original size:94 final size:94
Alignment explanation
Indices: 24254683--24254890 Score: 245
Period size: 94 Copynumber: 2.2 Consensus size: 94
24254673 AATATCAGCC
* ** * * * *
24254683 GTGATTGTAAATCAATGAGCTGTTTGGAGTTGTGATCGTCAACCAACTAACTCAGAAGAAATTTT
1 GTGATTGTAAATCAATGAGCTGTTTGAAGTTACGATCGTAAACCAACTAACTCAGAAAAAAATGT
* *
24254748 TCATGATCATAAATCAATGAACTTAGGTT
66 TCATAATCATAAATCAATGAACTTAGGCT
** * * * * *
24254777 GTGATTGTAAATCAACAAGTTGTTTGAATTTACGATCGTAAATCAGCTAACTTAGAAAAAAATGT
1 GTGATTGTAAATCAATGAGCTGTTTGAAGTTACGATCGTAAACCAACTAACTCAGAAAAAAATGT
*
24254842 TCATAATCGTAAATCAATGAACTTAGGCT
66 TCATAATCATAAATCAATGAACTTAGGCT
* *
24254871 GTGATCGTAAATCAGTGAGC
1 GTGATTGTAAATCAATGAGC
24254891 CTTAAAAATA
Statistics
Matches: 92, Mismatches: 22, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
94 92 1.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (94 bp):
GTGATTGTAAATCAATGAGCTGTTTGAAGTTACGATCGTAAACCAACTAACTCAGAAAAAAATGT
TCATAATCATAAATCAATGAACTTAGGCT
Found at i:24255011 original size:63 final size:62
Alignment explanation
Indices: 24254810--24255016 Score: 159
Period size: 63 Copynumber: 3.2 Consensus size: 62
24254800 TTGAATTTAC
* * * *
24254810 GATCGTAAATCAGCTAACTTAGAAAAAAATGTTCATAATCGTAAATCAATGAACTTAGGCTGT
1 GATCGTAAATCAGCTAACTTAG-AAAAATTATTCATGATCGTAAATCAATGAACTTAAGCTGT
* * * * * * * *
24254873 GATCGTAAATCAG-TGAGCCTTA-AAAATATCATAT-GTGATCATATATCAGTGAGTTGCTTGGA
1 GATCGTAAATCAGCT-A-ACTTAGAAAA-ATTAT-TCATGATCGTAAATCAATGA---ACTT-AA
**
24254935 TTTGT
58 GCTGT
* *
24254940 GATTGTAAATTAGCTAACTTAGAAGAAATTATTCATGATCGTAAATCAATGAACTTAAGCTGT
1 GATCGTAAATCAGCTAACTTAGAA-AAATTATTCATGATCGTAAATCAATGAACTTAAGCTGT
24255003 GATCGTAAATCAGC
1 GATCGTAAATCAGC
24255017 GAGCCTTAAT
Statistics
Matches: 104, Mismatches: 28, Indels: 24
0.67 0.18 0.15
Matches are distributed among these distances:
62 5 0.05
63 45 0.43
64 8 0.08
66 8 0.08
67 35 0.34
68 3 0.03
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (62 bp):
GATCGTAAATCAGCTAACTTAGAAAAATTATTCATGATCGTAAATCAATGAACTTAAGCTGT
Found at i:24267093 original size:43 final size:43
Alignment explanation
Indices: 24267038--24267167 Score: 131
Period size: 43 Copynumber: 3.0 Consensus size: 43
24267028 ATATCGTACA
* * ** *
24267038 ATGCCAACGTCCCTGACGTGGTCTTATATGTAATCACATATTG
1 ATGCCAACGTCCCAGACGTGGTCTTACACATAATCACATATCG
* *
24267081 ATGCC-ACTGTCCCAGGCAG-GGTCTTACACATAATCACTTATCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACATAATCACATATCG
* *
24267124 ATGCCAACGTCCCGGACGTGGTCTTACACA-AGAACACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACATA-ATCACATATCG
24267167 A
1 A
24267168 AAATCCTATG
Statistics
Matches: 71, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
42 4 0.06
43 64 0.90
44 3 0.04
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACATAATCACATATCG
Found at i:24270499 original size:42 final size:43
Alignment explanation
Indices: 24270398--24270542 Score: 156
Period size: 43 Copynumber: 3.4 Consensus size: 43
24270388 AGCTCGTACA
* * *
24270398 ATGCCAACGTCCTAGAC-GTGGTCTTACATGTAAA-CAAATATTG
1 ATGCCAACGTCCCAGACAG-GGTCTTACACGTAAATCAAATA-CG
*
24270441 ATGCC-ACAATCCCAGACAGGGTCTTACACG-AAATCAAATACG
1 ATGCCAAC-GTCCCAGACAGGGTCTTACACGTAAATCAAATACG
* *
24270483 ATGCCAACGTCCCAGACATGGTCTTACAGGTAAATCATAAGT-CG
1 ATGCCAACGTCCCAGACAGGGTCTTACACGTAAATCA-AA-TACG
24270527 ATGCCAACGTCCCAGA
1 ATGCCAACGTCCCAGA
24270543 TGTAGTCTTA
Statistics
Matches: 88, Mismatches: 7, Indels: 13
0.81 0.06 0.12
Matches are distributed among these distances:
42 30 0.34
43 36 0.41
44 21 0.24
45 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACAGGGTCTTACACGTAAATCAAATACG
Found at i:24276332 original size:17 final size:17
Alignment explanation
Indices: 24276277--24276332 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
24276267 CAAAAATGGA
*
24276277 ATGTAATCTTTGAAGAT
1 ATGTAATCTTAGAAGAT
* * *
24276294 TTGCAATATTAGATATGAT
1 ATGTAATCTTAGA-A-GAT
24276313 ATGTAATCTTAGAAGAT
1 ATGTAATCTTAGAAGAT
24276330 ATG
1 ATG
24276333 ACTCTAAAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
17 15 0.50
18 2 0.07
19 13 0.43
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.39
Consensus pattern (17 bp):
ATGTAATCTTAGAAGAT
Found at i:24284826 original size:3 final size:3
Alignment explanation
Indices: 24284812--24284986 Score: 103
Period size: 3 Copynumber: 59.0 Consensus size: 3
24284802 AAATTGAATC
* * *
24284812 TAA TAC TAA TAA TAA TAAA TAA TAA TAA GAA TAA TAA -AA T-A CAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* ** * * * **
24284856 TAA -AA TAA TAG TAA TCC TAA -AA -AA TAC TAA GAA TAC TAA TGT TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
24284901 TAA TAA AAA GAA TAA TAA TAA TAA CAA TAA TAA TAGA TAA TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
* * *
24284946 TTAA AAA AAA T-A TAA TAA TAAA TGA TAA TAA TAAA TAA TAA
1 -TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA T-AA TAA TAA
24284987 ATGAAAAAAA
Statistics
Matches: 130, Mismatches: 31, Indels: 22
0.71 0.17 0.12
Matches are distributed among these distances:
2 13 0.10
3 103 0.79
4 14 0.11
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (3 bp):
TAA
Found at i:24284974 original size:43 final size:42
Alignment explanation
Indices: 24284904--24284996 Score: 118
Period size: 43 Copynumber: 2.2 Consensus size: 42
24284894 ATGTTAATAA
* *
24284904 TAAAAAGAATAATAATAATAACAATAATAATAGATAATAAAAT
1 TAAAAAAAATAATAATAATAACAATAATAATAAATAAT-AAAT
24284947 TAAAAAAAAT-ATAATAATAA-ATGATAATAATAAATAATAAAT
1 TAAAAAAAATAATAATAATAACA--ATAATAATAAATAATAAAT
*
24284989 GAAAAAAA
1 TAAAAAAA
24284997 GAGGCAAACG
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
41 1 0.02
42 21 0.47
43 23 0.51
ACGTcount: A:0.70, C:0.01, G:0.04, T:0.25
Consensus pattern (42 bp):
TAAAAAAAATAATAATAATAACAATAATAATAAATAATAAAT
Found at i:24290145 original size:42 final size:42
Alignment explanation
Indices: 24290086--24290171 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
24290076 AGACAACTCC
24290086 TTCTTATTCCTCAATGTAACTACCTTAATATGCTCTTTTGGA
1 TTCTTATTCCTCAATGTAACTACCTTAATATGCTCTTTTGGA
24290128 TTCTTATTCCTCAATGTAACTACCTTAATATGCTCTTTTGGA
1 TTCTTATTCCTCAATGTAACTACCTTAATATGCTCTTTTGGA
24290170 TT
1 TT
24290172 GGGCTTAGTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.23, C:0.21, G:0.09, T:0.47
Consensus pattern (42 bp):
TTCTTATTCCTCAATGTAACTACCTTAATATGCTCTTTTGGA
Found at i:24299187 original size:35 final size:34
Alignment explanation
Indices: 24299116--24299197 Score: 94
Period size: 35 Copynumber: 2.4 Consensus size: 34
24299106 ATTTGTTTTA
* *
24299116 ATTATATAATTAATGATATTTAAATATAATTTAT
1 ATTATATAATTAATGATAATTAAATATAATTGAT
* *
24299150 ATTATATGAATTTATGATAATTAAATTTTAA-TGAT
1 ATTATAT-AATTAATGATAATTAAA-TATAATTGAT
*
24299185 ATTATATTATTAA
1 ATTATATAATTAA
24299198 ATAAATCAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
34 11 0.28
35 25 0.62
36 4 0.10
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (34 bp):
ATTATATAATTAATGATAATTAAATATAATTGAT
Found at i:24300613 original size:45 final size:45
Alignment explanation
Indices: 24300542--24300635 Score: 125
Period size: 45 Copynumber: 2.1 Consensus size: 45
24300532 GCCGACTACT
* * *
24300542 GTTATTGTTACCGATTCGACATTTTGTGTGTCGAATACTGTTACC
1 GTTATTGTTACAGATTCAACACTTTGTGTGTCGAATACTGTTACC
* * * *
24300587 GTTATTGTTATAGATTCAACACTTTGTGTGTTGAATATTGTTACT
1 GTTATTGTTACAGATTCAACACTTTGTGTGTCGAATACTGTTACC
24300632 GTTA
1 GTTA
24300636 CTGCTACCGT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (45 bp):
GTTATTGTTACAGATTCAACACTTTGTGTGTCGAATACTGTTACC
Found at i:24313095 original size:23 final size:23
Alignment explanation
Indices: 24313068--24313127 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
24313058 TGTCCCAAAG
*
24313068 CACACGAGCGTGTGCATTCCTTC
1 CACACGAGCGTGTGCATTCCGTC
* * *
24313091 CACACGGGCGTGTGTATTGCGTC
1 CACACGAGCGTGTGCATTCCGTC
* *
24313114 CACATGAGTGTGTG
1 CACACGAGCGTGTG
24313128 AGGCTTAACC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.17, C:0.27, G:0.30, T:0.27
Consensus pattern (23 bp):
CACACGAGCGTGTGCATTCCGTC
Found at i:24317731 original size:40 final size:40
Alignment explanation
Indices: 24317676--24317885 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
24317666 AACATTGGAA
24317676 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
24317716 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
24317756 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
24317796 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
24317835 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
24317876 CTATATCCGG
1 ATATATCCGG
24317886 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:24325866 original size:40 final size:40
Alignment explanation
Indices: 24325811--24326020 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
24325801 AACATTGGAA
24325811 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
24325851 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
24325891 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
24325931 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
24325970 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
24326011 CTATATCCGG
1 ATATATCCGG
24326021 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:24330128 original size:17 final size:18
Alignment explanation
Indices: 24330098--24330132 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
24330088 CCTAGCCCCG
*
24330098 TTTTTAATGTTCTTTGTA
1 TTTTTAATGATCTTTGTA
24330116 TTTTTAA-GATCTTTGTA
1 TTTTTAATGATCTTTGTA
24330133 ACATGTTCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.20, C:0.06, G:0.11, T:0.63
Consensus pattern (18 bp):
TTTTTAATGATCTTTGTA
Found at i:24338832 original size:40 final size:40
Alignment explanation
Indices: 24338777--24338984 Score: 249
Period size: 40 Copynumber: 5.2 Consensus size: 40
24338767 TGAATGATAC
* *
24338777 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
24338817 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * *
24338857 CCAGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
24338897 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
24338937 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
24338977 CC-GGCTAA
1 CCGGGCTAA
24338985 ATTCCGAAGA
Statistics
Matches: 144, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 6 0.04
40 136 0.94
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:24348134 original size:30 final size:30
Alignment explanation
Indices: 24348100--24348265 Score: 83
Period size: 29 Copynumber: 5.2 Consensus size: 30
24348090 GACCTGAATG
*
24348100 CATGTTTGACTGTTACTATTTACTGCATGC
1 CATGTTTGACTATTACTATTTACTGCATGC
* *
24348130 CATG-TT-ATTATTATCTGATAAGGTTGACCTGAATG-
1 CATGTTTGACTATTA-CT-AT----TT-A-CTGCATGC
24348165 CATGTTTGACTATTACTATTTACTGCATGC
1 CATGTTTGACTATTACTATTTACTGCATGC
* *
24348195 CATG-TT-ATTATTATCTGATAAGGTTGACCTGAATG-
1 CATGTTTGACTATTA-CT-AT----TT-A-CTGCATGC
*
24348230 CATGTTTGACTGTTACTATTTACTGCATGC
1 CATGTTTGACTATTACTATTTACTGCATGC
*
24348260 TATGTT
1 CATGTT
24348266 ATTATTATTT
Statistics
Matches: 103, Mismatches: 11, Indels: 44
0.65 0.07 0.28
Matches are distributed among these distances:
28 11 0.11
29 20 0.19
30 19 0.18
31 4 0.04
34 4 0.04
35 14 0.14
36 20 0.19
37 11 0.11
ACGTcount: A:0.24, C:0.16, G:0.17, T:0.43
Consensus pattern (30 bp):
CATGTTTGACTATTACTATTTACTGCATGC
Found at i:24348187 original size:65 final size:65
Alignment explanation
Indices: 24348083--24348278 Score: 365
Period size: 65 Copynumber: 3.0 Consensus size: 65
24348073 CCCCTAGGGT
24348083 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
*
24348148 TAAGGTTGACCTGAATGCATGTTTGACTATTACTATTTACTGCATGCCATGTTATTATTATCTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
* *
24348213 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCTATGTTATTATTATTTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
24348278 T
1 T
24348279 GCGTGGGATT
Statistics
Matches: 127, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 127 1.00
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (65 bp):
TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
Found at i:24349686 original size:34 final size:35
Alignment explanation
Indices: 24349635--24349706 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 35
24349625 ATTCTGTAGT
*
24349635 TAGGGTAATACTGAAACTGTAGAA-ACTGAGACAG
1 TAGGGTAAAACTGAAACTGTAGAAGACTGAGACAG
* *
24349669 TAGGG-AAAACTGAAAACTTTAGAAGACTGAGACTG
1 TAGGGTAAAACTG-AAACTGTAGAAGACTGAGACAG
24349704 TAG
1 TAG
24349707 CTAGGATAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 6 0.18
34 15 0.45
35 12 0.36
ACGTcount: A:0.42, C:0.11, G:0.26, T:0.21
Consensus pattern (35 bp):
TAGGGTAAAACTGAAACTGTAGAAGACTGAGACAG
Found at i:24350451 original size:42 final size:42
Alignment explanation
Indices: 24350392--24350474 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
24350382 TAAGGGGAGT
*
24350392 AGAGTTGTAATGCCCCAATTTTTGGGCTTGGAAGTATTGGGA
1 AGAGTTGCAATGCCCCAATTTTTGGGCTTGGAAGTATTGGGA
24350434 AGAGTTGCAATGCCCCAATTTTTGGGCTTGGAAGTATTGGG
1 AGAGTTGCAATGCCCCAATTTTTGGGCTTGGAAGTATTGGG
24350475 CCTTGAGTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.23, C:0.13, G:0.31, T:0.33
Consensus pattern (42 bp):
AGAGTTGCAATGCCCCAATTTTTGGGCTTGGAAGTATTGGGA
Found at i:24352424 original size:30 final size:30
Alignment explanation
Indices: 24352390--24352490 Score: 82
Period size: 30 Copynumber: 3.2 Consensus size: 30
24352380 GACCTGAATG
*
24352390 CATGTTTGACTGTTACTATTTACTGCATGC
1 CATGTTTGACTATTACTATTTACTGCATGC
* *
24352420 CATG-TT-ATTATTATCTGATAAGGTTGACCTGAATG-
1 CATGTTTGACTATTA-CT-AT----TT-A-CTGCATGC
24352455 CATGTTTGACTATTACTATTTACTGCATGC
1 CATGTTTGACTATTACTATTTACTGCATGC
24352485 CATGTT
1 CATGTT
24352491 ATTATTATTT
Statistics
Matches: 55, Mismatches: 5, Indels: 22
0.67 0.06 0.27
Matches are distributed among these distances:
28 5 0.09
29 10 0.18
30 13 0.24
31 2 0.04
34 2 0.04
35 7 0.13
36 10 0.18
37 6 0.11
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.43
Consensus pattern (30 bp):
CATGTTTGACTATTACTATTTACTGCATGC
Found at i:24352477 original size:65 final size:65
Alignment explanation
Indices: 24352373--24352503 Score: 244
Period size: 65 Copynumber: 2.0 Consensus size: 65
24352363 CCCCTAGGGT
*
24352373 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTATTACTATTTACTGCATGCCATGTTATTATTATCTGA
*
24352438 TAAGGTTGACCTGAATGCATGTTTGACTATTACTATTTACTGCATGCCATGTTATTATTATTTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTATTACTATTTACTGCATGCCATGTTATTATTATCTGA
24352503 T
1 T
24352504 GCATGAGACT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.43
Consensus pattern (65 bp):
TAAGGTTGACCTGAATGCATGTTTGACTATTACTATTTACTGCATGCCATGTTATTATTATCTGA
Found at i:24353898 original size:27 final size:27
Alignment explanation
Indices: 24353856--24353916 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
24353846 GGGCATAATT
24353856 GTCA-TTTACCCTACAGGGGCATTAC-
1 GTCATTTTACCCTACAGGGGCATTACA
24353881 GATCATTTTACCCTACAGGGGCATTACA
1 G-TCATTTTACCCTACAGGGGCATTACA
24353909 GTCATTTT
1 GTCATTTT
24353917 TCACTACAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
25 1 0.03
26 3 0.09
27 28 0.85
28 1 0.03
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.33
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACA
Found at i:24353923 original size:27 final size:27
Alignment explanation
Indices: 24353860--24353924 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
24353850 ATAATTGTCA
*
24353860 TTTACCCTACAGGGGCATTACGATCAT
1 TTTACACTACAGGGGCATTACGATCAT
*
24353887 TTTACCCTACAGGGGCATTAC-AGTCAT
1 TTTACACTACAGGGGCATTACGA-TCAT
*
24353914 TTTTCACTACA
1 TTTACACTACA
24353925 AGGGTATTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 1 0.03
27 34 0.97
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.32
Consensus pattern (27 bp):
TTTACACTACAGGGGCATTACGATCAT
Found at i:24353956 original size:27 final size:27
Alignment explanation
Indices: 24353923--24354002 Score: 115
Period size: 27 Copynumber: 3.0 Consensus size: 27
24353913 TTTTTCACTA
24353923 CAAGGGTATTTCGGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
** **
24353950 CGGGGGTATTTTAGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
*
24353977 CAAGGGTACTTCGGTAATTTTACAAA
1 CAAGGGTATTTCGGTAATTTTACAAA
24354003 CTGGGGTCTT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTACAAAT
Found at i:24359526 original size:20 final size:20
Alignment explanation
Indices: 24359483--24359527 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
24359473 TTGAATTGGA
* *
24359483 TGTTGTATTTGTATGGATTG
1 TGTTTTATTTGTATGGAATG
24359503 TGTTTTATTTGTATGTGAAT-
1 TGTTTTATTTGTATG-GAATG
24359523 TGTTT
1 TGTTT
24359528 GGATGTTACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 19 0.86
21 3 0.14
ACGTcount: A:0.16, C:0.00, G:0.24, T:0.60
Consensus pattern (20 bp):
TGTTTTATTTGTATGGAATG
Found at i:24360987 original size:21 final size:22
Alignment explanation
Indices: 24360961--24361014 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
24360951 CGGTCTGCTG
**
24360961 CACGGGCGTGT-CCTAGGGTCA
1 CACGGGCGTGTCCCTAGGACCA
* *
24360982 CACGGGCATGTCCCTTGGACCA
1 CACGGGCGTGTCCCTAGGACCA
24361004 CACGGGCGTGT
1 CACGGGCGTGT
24361015 GAGCCCTGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.15, C:0.31, G:0.35, T:0.19
Consensus pattern (22 bp):
CACGGGCGTGTCCCTAGGACCA
Found at i:24364867 original size:47 final size:47
Alignment explanation
Indices: 24364813--24365037 Score: 353
Period size: 47 Copynumber: 4.7 Consensus size: 47
24364803 GATTTTACGC
24364813 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT
* * *
24364860 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT
24364907 GATGAATGTGAAAGTGTGTATATATGTGATAA-GCCTAATGGCCGATGT
1 GATGAATGTG-AA-TGTGTATATATGTGATAAGGCCTAATGGCCGATGT
* *
24364955 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCAGATGT
1 GATGAATGTG-AA-TGTGTATATATGTGATAAGGCCTAATGGCCGATGT
*
24365004 GATGAATGTGAAGGTGTATATATGTGATAAGGCC
1 GATGAATGTGAATGTGTATATATGTGATAAGGCC
24365038 GATGAATGTG
Statistics
Matches: 165, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
47 74 0.45
48 49 0.30
49 42 0.25
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT
Found at i:24365028 original size:16 final size:16
Alignment explanation
Indices: 24365009--24365064 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
24364999 GATGTGATGA
24365009 ATGTGAAGGTGTATAT
1 ATGTGAAGGTGTATAT
*
24365025 ATGTGATAAGGCCG-ATGA-
1 ATGTG--AAGG-TGTAT-AT
24365043 ATGTGAAGGTGTATAT
1 ATGTGAAGGTGTATAT
24365059 ATGTGA
1 ATGTGA
24365065 TAGGGCCGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
15 2 0.06
16 17 0.53
18 11 0.34
19 2 0.06
ACGTcount: A:0.32, C:0.04, G:0.32, T:0.32
Consensus pattern (16 bp):
ATGTGAAGGTGTATAT
Found at i:24365043 original size:34 final size:34
Alignment explanation
Indices: 24365004--24365073 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
24364994 TGGCAGATGT
24365004 GATGAATGTGAAGGTGTATATATGTGATAAGGCC
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCC
*
24365038 GATGAATGTGAAGGTGTATATATGTGATAGGGCC
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCC
24365072 GA
1 GA
24365074 GTGGCCAACG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.31, C:0.06, G:0.34, T:0.29
Consensus pattern (34 bp):
GATGAATGTGAAGGTGTATATATGTGATAAGGCC
Found at i:24365094 original size:81 final size:83
Alignment explanation
Indices: 24364955--24365115 Score: 220
Period size: 81 Copynumber: 2.0 Consensus size: 83
24364945 TGGCCGATGT
* * *
24364955 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAAGGTG
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCAGACGTGATGAATGTGAAAGTG
*
24365020 TATATATGTGATAAGGCC
66 TATAAATGTGATAAGGCC
* * * *
24365038 GATGAATGTG-AAG-GTGTATATATGTGATAGGGCCGAGTGGCCA-ACGTGATGGATGTGAAAGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGG-CAGACGTGATGAATGTGAAAGT
24365100 GTATAAATGTGATAAG
65 GTATAAATGTGATAAG
24365116 TCCCGAAGGG
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
81 54 0.78
82 5 0.07
83 10 0.14
ACGTcount: A:0.33, C:0.06, G:0.32, T:0.29
Consensus pattern (83 bp):
GATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCAGACGTGATGAATGTGAAAGTG
TATAAATGTGATAAGGCC
Found at i:24367116 original size:42 final size:41
Alignment explanation
Indices: 24367052--24367263 Score: 214
Period size: 40 Copynumber: 5.2 Consensus size: 41
24367042 CTCGACGATG
* * *
24367052 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGCGATATAT
1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTG-TATAT
* * * * *
24367094 ATCCGGGTTAAGTCCCGTAGAGCATTCGTGCTGGTGT-TAC
1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTGTATAT
*
24367134 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTAGTG-ATAT
1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTGTATAT
* *
24367174 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTAGTG-ATGT
1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTGTATAT
* * ** * * *
24367214 ATCCGGACCAGGTTCCGAAGAGCAGTCATGCTGGTGATATGT
1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTG-TATAT
*
24367256 ATTCGGGC
1 ATCCGGGC
24367264 CTTCGTGCCT
Statistics
Matches: 147, Mismatches: 20, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
40 103 0.70
41 1 0.01
42 43 0.29
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTGTATAT
Found at i:24367347 original size:85 final size:86
Alignment explanation
Indices: 24367246--24367592 Score: 601
Period size: 85 Copynumber: 4.1 Consensus size: 86
24367236 CAGTCATGCT
24367246 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC-GTGATATGTATTCGGGCCTTC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCCGGTGATATGTATTCGGGCCTTC
*
24367310 GTGCCTAGCAGGCTTTGTGCC
66 GAGCCTAGCAGGCTTTGTGCC
24367331 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCCGGTGATATGTATTC-GGCCTTC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCCGGTGATATGTATTCGGGCCTTC
24367395 GAGCCTAGCAGGCTTTGTGCC
66 GAGCCTAGCAGGCTTTGTGCC
*
24367416 GGTGATATGTATT-GGGCCTTCGTGCCTAGCAGGCTTTGTGCCGGTGATATGTATTCGGGTCTTC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCCGGTGATATGTATTCGGGCCTTC
24367480 GAGCCTAGCAGGCTTTGTGCC
66 GAGCCTAGCAGGCTTTGTGCC
* *
24367501 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCCGGTGATATGTATTCGGGTCTTC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCCGGTGATATGTATTCGGGCCTTC
* * **
24367566 GTGCTTAGCAGGCTTAATGCC
66 GAGCCTAGCAGGCTTTGTGCC
24367587 GGTGAT
1 GGTGAT
24367593 TCGAGCAAGG
Statistics
Matches: 252, Mismatches: 7, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
84 43 0.17
85 123 0.49
86 86 0.34
ACGTcount: A:0.13, C:0.22, G:0.32, T:0.33
Consensus pattern (86 bp):
GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCCGGTGATATGTATTCGGGCCTTC
GAGCCTAGCAGGCTTTGTGCC
Found at i:24367350 original size:43 final size:43
Alignment explanation
Indices: 24367246--24367592 Score: 601
Period size: 43 Copynumber: 8.1 Consensus size: 43
24367236 CAGTCATGCT
24367246 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
24367289 -GTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
24367331 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
*
24367374 GGTGATATGTATTC-GGCCTTCGAGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
24367416 GGTGATATGTATT-GGGCCTTCGTGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
* *
24367458 GGTGATATGTATTCGGGTCTTCGAGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
*
24367501 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
* * **
24367544 GGTGATATGTATTCGGGTCTTCGTGCTTAGCAGGCTTAATGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
24367587 GGTGAT
1 GGTGAT
24367593 TCGAGCAAGG
Statistics
Matches: 291, Mismatches: 10, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
42 122 0.42
43 169 0.58
ACGTcount: A:0.13, C:0.22, G:0.32, T:0.33
Consensus pattern (43 bp):
GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
Found at i:24371564 original size:80 final size:80
Alignment explanation
Indices: 24371480--24371628 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
24371470 TATGGTAACC
* * * *
24371480 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
24371544 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
24371560 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
24371625 CCGG
66 CCGG
24371629 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:24371570 original size:40 final size:38
Alignment explanation
Indices: 24371521--24371628 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
24371511 ATCACGATTT
*
24371521 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
24371561 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
24371601 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
24371629 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:24379676 original size:80 final size:80
Alignment explanation
Indices: 24379592--24379740 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
24379582 TATGGTAACC
* * * *
24379592 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
24379656 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
24379672 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
24379737 CCGG
66 CCGG
24379741 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:24379682 original size:40 final size:38
Alignment explanation
Indices: 24379633--24379740 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
24379623 ATCACGATTT
*
24379633 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
24379673 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
24379713 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
24379741 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:24391590 original size:46 final size:44
Alignment explanation
Indices: 24391419--24391593 Score: 172
Period size: 46 Copynumber: 3.8 Consensus size: 44
24391409 ATGTAACCCG
* * * *
24391419 TCCATAAGTGAAATCGGACTCAACTCAATGAGCTTGGGCGTTCGCA
1 TCCATAAGTGAACTCGGACTCAACTCAACGAG-TT-CGCATTCGCA
* * *
24391465 TCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTA
1 TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGCATTCGC-A
* ***
24391509 GTTACATCTCTCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCA
1 --TCCATAAGT-GAACTCGGACTCAACTCAACGAGTTC-G-CATTCGCA
24391558 TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
24391594 AATGCCCAAA
Statistics
Matches: 104, Mismatches: 18, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 2 0.02
46 61 0.59
47 30 0.29
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (44 bp):
TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGCATTCGCA
Found at i:24391614 original size:46 final size:44
Alignment explanation
Indices: 24391471--24391614 Score: 107
Period size: 46 Copynumber: 3.1 Consensus size: 44
24391461 CGCATCCATA
* * *
24391471 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGAATGCCCA---A-ATC-CT
* * *
24391520 --CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GA-ATGCCCAAATCC-T
24391563 AAGTGAACTCGGACTCAACTCAACGAGTTCGAATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGAATGCCC-AA-ATCCT
24391610 AGTGA
1 AGTGA
24391615 TATGTCACTT
Statistics
Matches: 76, Mismatches: 9, Indels: 23
0.70 0.08 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 4 0.05
45 2 0.03
46 31 0.41
47 26 0.34
48 5 0.07
49 3 0.04
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGAATGCCCAAATCCT
Found at i:24395101 original size:48 final size:48
Alignment explanation
Indices: 24395040--24395190 Score: 212
Period size: 52 Copynumber: 3.0 Consensus size: 48
24395030 AAATTGATGC
* *
24395040 ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGT
1 ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATAT
*
24395088 ATGAGATATGTATATGTGGTAAAGCCAAATGGCTAATGCGAAATATATATAT
1 ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGCG--A-A-ATATAT
* *
24395140 ATGAGATATGTATATGTGGTAAAGCTGAATGGTTAATGCGAAAATATAT
1 ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGCG-AAATATAT
24395189 AT
1 AT
24395191 ATATATATAT
Statistics
Matches: 93, Mismatches: 6, Indels: 7
0.88 0.06 0.07
Matches are distributed among these distances:
48 38 0.41
49 8 0.09
50 2 0.02
51 3 0.03
52 42 0.45
ACGTcount: A:0.38, C:0.06, G:0.24, T:0.32
Consensus pattern (48 bp):
ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATAT
Found at i:24395458 original size:50 final size:50
Alignment explanation
Indices: 24395249--24395598 Score: 534
Period size: 48 Copynumber: 7.1 Consensus size: 50
24395239 AAATATATAT
24395249 ATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-A
1 ATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
24395298 A-ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-A
1 ATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
24395346 A-ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAA
1 ATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA
* *
24395396 TATATATATATGAGATATGTATATGTGGTAAAGCTGAATGGTTAATGTGAA
1 -ATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
24395447 ATATATATATGAGATATGTATCTGTGGTAAAGCCGAATGGCTAATGTG-A
1 ATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
24395496 A-ATATGTATGAGATATGCATATGTGGTAAAGCCGAATGG-TCAATGTGAA
1 ATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTGAA
* *
24395545 ATATATATATGAGATATGTATATGTGATAAAGCCGAATGGCTAGTGTGAA
1 ATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
24395595 ATAT
1 ATAT
24395599 GTAGGCGATG
Statistics
Matches: 277, Mismatches: 16, Indels: 15
0.90 0.05 0.05
Matches are distributed among these distances:
47 1 0.00
48 133 0.48
49 5 0.02
50 92 0.33
51 4 0.01
52 42 0.15
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.32
Consensus pattern (50 bp):
ATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
Found at i:24395500 original size:150 final size:149
Alignment explanation
Indices: 24395193--24395598 Score: 613
Period size: 148 Copynumber: 2.7 Consensus size: 149
24395183 ATATATATAT
* *
24395193 ATATATATGAGATATGTATATGTGGTAAAGCTGAATGGTTAATGTGAAATATATATATATATATA
1 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGG-TAATGTG----A-A-ATATATATATA
*
24395258 TGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAGATATGTATATG
59 TGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATATG
24395321 TGGTAAAGCCGAATGGCTAATGTGAA
124 TGGTAAAGCCGAATGGCTAATGTGAA
*
24395347 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATATATATGAGAT
1 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGG-TAATGTGAAATATATATATATGAGAT
* * *
24395412 ATGTATATGTGGTAAAGCTGAATGGTTAATGTGAAATATATATATGAGATATGTATCTGTGGTAA
65 ATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATATGTGGTAA
24395477 AGCCGAATGGCTAATGTGAA
130 AGCCGAATGGCTAATGTGAA
*
24395497 ATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTG-AA-ATATATATATGAGAT
1 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGT-AATGTGAAATATATATATATGAGAT
* *
24395560 ATGTATATGTGATAAAGCCGAATGGCTAGTGTGAAATAT
65 ATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
24395599 GTAGGCGATG
Statistics
Matches: 235, Mismatches: 14, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
148 98 0.42
149 6 0.03
150 89 0.38
154 42 0.18
ACGTcount: A:0.37, C:0.06, G:0.24, T:0.33
Consensus pattern (149 bp):
ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGTAATGTGAAATATATATATATGAGATA
TGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATATGTGGTAAA
GCCGAATGGCTAATGTGAA
Found at i:24395856 original size:37 final size:37
Alignment explanation
Indices: 24395748--24395856 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
24395738 GGAAATATAT
* *
24395748 TCCGGGTAAGACCCGATGACTACATGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
24395785 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
24395822 TCTGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
24395857 CATCTGAGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:24397692 original size:39 final size:40
Alignment explanation
Indices: 24397643--24397784 Score: 119
Period size: 40 Copynumber: 3.6 Consensus size: 40
24397633 TAAGTCGATA
* *
24397643 TCGCAGACTTAGTGCC-TTACATAGCTGAA-CTATTCCAAC
1 TCGCACACTTAGTGCCATT-CATAGCCGAAGCTATTCCAAC
* ** *
24397682 TTGCACACTTAGTGCCATTTGTAGCCGAAGCTATTCTAAC
1 TCGCACACTTAGTGCCATTCATAGCCGAAGCTATTCCAAC
* ** * **
24397722 TCGCACATTTAGTGCCATTTGTAGCCAAAGCTATATTAAAC
1 TCGCACACTTAGTGCCATTCATAGCCGAAGCTAT-TCCAAC
* *
24397763 -CGGACACTTAGTGCCAATCATA
1 TCGCACACTTAGTGCCATTCATA
24397785 ATCGAATATC
Statistics
Matches: 84, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
39 21 0.25
40 59 0.70
41 4 0.05
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (40 bp):
TCGCACACTTAGTGCCATTCATAGCCGAAGCTATTCCAAC
Found at i:24397728 original size:40 final size:40
Alignment explanation
Indices: 24397664--24397778 Score: 137
Period size: 40 Copynumber: 2.9 Consensus size: 40
24397654 GTGCCTTACA
* * *
24397664 TAGCTGAA-CTATTCCAACTTGCACACTTAGTGCCATTTG
1 TAGCCGAAGCTATTCTAACTCGCACACTTAGTGCCATTTG
*
24397703 TAGCCGAAGCTATTCTAACTCGCACATTTAGTGCCATTTG
1 TAGCCGAAGCTATTCTAACTCGCACACTTAGTGCCATTTG
* *
24397743 TAGCCAAAGCTATAT-TAAAC-CGGACACTTAGTGCCA
1 TAGCCGAAGCTAT-TCT-AACTCGCACACTTAGTGCCA
24397779 ATCATAATCG
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
39 7 0.11
40 55 0.83
41 4 0.06
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.30
Consensus pattern (40 bp):
TAGCCGAAGCTATTCTAACTCGCACACTTAGTGCCATTTG
Found at i:24398951 original size:21 final size:22
Alignment explanation
Indices: 24398910--24398958 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 22
24398900 GGCTCATACA
*
24398910 CCCGTGTGGTCCAAGGGACACG
1 CCCGTGTGGCCCAAGGGACACG
*
24398932 CCCGTGTGGCCCTA-GGACACG
1 CCCGTGTGGCCCAAGGGACACG
24398953 CCCGTG
1 CCCGTG
24398959 CTGCAGGCCG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.14, C:0.37, G:0.35, T:0.14
Consensus pattern (22 bp):
CCCGTGTGGCCCAAGGGACACG
Found at i:24414165 original size:16 final size:16
Alignment explanation
Indices: 24414144--24414199 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
24414134 CTCGGCCCTA
24414144 TCACATATATACACCT
1 TCACATATATACACCT
*
24414160 TCACAT-TCAT-CGGCCTT
1 TCACATAT-ATAC-ACC-T
24414177 ATCACATATATACACCT
1 -TCACATATATACACCT
24414194 TCACAT
1 TCACAT
24414200 TCATCACATC
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
15 2 0.06
16 16 0.50
17 2 0.06
18 10 0.31
19 2 0.06
ACGTcount: A:0.32, C:0.32, G:0.04, T:0.32
Consensus pattern (16 bp):
TCACATATATACACCT
Found at i:24414174 original size:34 final size:34
Alignment explanation
Indices: 24414135--24414204 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
24414125 CGTTGGCCAC
24414135 TCGGCCCTATCACATATATACACCTTCACATTCA
1 TCGGCCCTATCACATATATACACCTTCACATTCA
*
24414169 TCGGCCTTATCACATATATACACCTTCACATTCA
1 TCGGCCCTATCACATATATACACCTTCACATTCA
24414203 TC
1 TC
24414205 ACATCTGCCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.29, C:0.34, G:0.06, T:0.31
Consensus pattern (34 bp):
TCGGCCCTATCACATATATACACCTTCACATTCA
Found at i:24414194 original size:18 final size:18
Alignment explanation
Indices: 24414142--24414194 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
24414132 CACTCGGCCC
24414142 TATCACATATATACACC-
1 TATCACATATATACACCT
*
24414159 T-TCACAT-TCAT-CGGCCT
1 TATCACATAT-ATAC-ACCT
24414176 TATCACATATATACACCT
1 TATCACATATATACACCT
24414194 T
1 T
24414195 CACATTCATC
Statistics
Matches: 28, Mismatches: 2, Indels: 11
0.68 0.05 0.27
Matches are distributed among these distances:
15 2 0.07
16 10 0.36
17 2 0.07
18 12 0.43
19 2 0.07
ACGTcount: A:0.32, C:0.30, G:0.04, T:0.34
Consensus pattern (18 bp):
TATCACATATATACACCT
Found at i:24414249 original size:49 final size:47
Alignment explanation
Indices: 24414171--24414396 Score: 362
Period size: 49 Copynumber: 4.7 Consensus size: 47
24414161 CACATTCATC
*
24414171 GGCCTTATCACATATATACACCTTCACATTCATCACATCTGCCATTA
1 GGCCTTATCACATATATACACCTTCACATTCATCACATCGGCCATTA
*
24414218 GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTA
* * *
24414267 GGTCTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCACATATATACAC-C-TTCACATTCATCACATCGGCCATTA
24414316 GGCCTTATCACATATATACACCTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCACATATATACACCTTCACATTCATCACATCGGCCATTA
*
24414363 GGCCTTATCACATATATACACATTCACATTCATC
1 GGCCTTATCACATATATACACCTTCACATTCATC
24414397 GCGTAAAATC
Statistics
Matches: 165, Mismatches: 10, Indels: 8
0.90 0.05 0.04
Matches are distributed among these distances:
47 77 0.47
48 1 0.01
49 87 0.53
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
GGCCTTATCACATATATACACCTTCACATTCATCACATCGGCCATTA
Found at i:24414282 original size:96 final size:94
Alignment explanation
Indices: 24414171--24414396 Score: 364
Period size: 96 Copynumber: 2.4 Consensus size: 94
24414161 CACATTCATC
24414171 GGCCTTATCACATATATACACCTTCACATTCATCACATCT-GCCATTAGGCCTTATCACATATAT
1 GGCCTTATCACATATATACACCTTCACATTCATCACAT-TGGCCATTAGGCCTTATCAC--ATAT
*
24414235 ATACACTTTCACATTCATCACATCGGCCATTA
63 ATACACCTTCACATTCATCACATCGGCCATTA
* *
24414267 GGTCTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATA
1 GGCCTTATCACATATATACAC-C-TTCACATTCATCACATTGGCCATTAGGCCTTATCACATATA
24414332 TACACCTTCACATTCATCACATCGGCCATTA
64 TACACCTTCACATTCATCACATCGGCCATTA
*
24414363 GGCCTTATCACATATATACACATTCACATTCATC
1 GGCCTTATCACATATATACACCTTCACATTCATC
24414397 GCGTAAAATC
Statistics
Matches: 122, Mismatches: 5, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
94 12 0.10
96 75 0.61
97 2 0.02
98 33 0.27
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (94 bp):
GGCCTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
CACCTTCACATTCATCACATCGGCCATTA
Found at i:24418193 original size:43 final size:43
Alignment explanation
Indices: 24418132--24418395 Score: 456
Period size: 43 Copynumber: 6.1 Consensus size: 43
24418122 CCTTGCTCGA
** * *
24418132 ATCACCGGCATTAAGCCTGCTAAGCACGAAGACCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
*
24418175 ATCACCGGCACAAAGCCTGCTAGGCTCGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
* *
24418218 ATCACCGGCACAAAGCCTGCTAGGCTCGAAGACCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
24418261 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
24418304 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
*
24418347 ATCACTGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
24418390 ATCACC
1 ATCACC
24418396 AGCATGACTG
Statistics
Matches: 211, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 211 1.00
ACGTcount: A:0.33, C:0.32, G:0.22, T:0.14
Consensus pattern (43 bp):
ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
Found at i:24418569 original size:42 final size:42
Alignment explanation
Indices: 24418378--24418589 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 42
24418368 AGGCACGAAG
* * * * * * *
24418378 GCCCGAATACATATCACCAGCATGACTGCTCTTCGGAACCTG
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* * * * *
24418420 GTCCGG--ATACATCACTAGCATGAATGCTCTTCGGGATTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* * *
24418460 GCCCGG--ATATATCACTAGCATGAATGCTCTTCGGGATTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* *
24418500 GCCCGGATGTA-A-CACCAGCACGAATGCTCTACGGGACTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* *
24418540 ACCCGGATATATATCGCCAGCACGAATGCTCTTCGGGACTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
24418582 GCCCGGAT
1 GCCCGGAT
24418590 CATCGTCGAG
Statistics
Matches: 144, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
40 103 0.72
41 2 0.01
42 39 0.27
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (42 bp):
GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
Found at i:24420592 original size:16 final size:16
Alignment explanation
Indices: 24420571--24420626 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
24420561 CTCGGCCCTA
24420571 TCACATATATACACCT
1 TCACATATATACACCT
*
24420587 TCACAT-TCAT-CGGCCTT
1 TCACATAT-ATAC-ACC-T
24420604 ATCACATATATACACCT
1 -TCACATATATACACCT
24420621 TCACAT
1 TCACAT
24420627 TCATCACATC
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
15 2 0.06
16 16 0.50
17 2 0.06
18 10 0.31
19 2 0.06
ACGTcount: A:0.32, C:0.32, G:0.04, T:0.32
Consensus pattern (16 bp):
TCACATATATACACCT
Found at i:24420601 original size:34 final size:34
Alignment explanation
Indices: 24420562--24420631 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
24420552 CGTTGGCCAC
24420562 TCGGCCCTATCACATATATACACCTTCACATTCA
1 TCGGCCCTATCACATATATACACCTTCACATTCA
*
24420596 TCGGCCTTATCACATATATACACCTTCACATTCA
1 TCGGCCCTATCACATATATACACCTTCACATTCA
24420630 TC
1 TC
24420632 ACATCTGCCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.29, C:0.34, G:0.06, T:0.31
Consensus pattern (34 bp):
TCGGCCCTATCACATATATACACCTTCACATTCA
Done.