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 66 of 250
Found at i:20210873 original size:31 final size:31
Alignment explanation
Indices: 20210796--20210874 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
20210786 TGTTTACAGT
*
20210796 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
20210827 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
20210858 AAAGGATTCAGCCCAGT
1 AAAGGCTTCGGCCCAGT
20210875 AACCGTTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:20213219 original size:27 final size:27
Alignment explanation
Indices: 20213123--20213372 Score: 125
Period size: 27 Copynumber: 9.3 Consensus size: 27
20213113 TTAGTTTACC
* * * *
20213123 AAATTACTAAAATGCCCTCAAATTGTA
1 AAATTACCAAAATACCCTCAATTTATA
* *
20213150 AAATTACCAAAGTACCCCCAATTTATA
1 AAATTACCAAAATACCCTCAATTTATA
* **** *
20213177 GAATTACCGTTTTACCCTCAATTTACA
1 AAATTACCAAAATACCCTCAATTTATA
* ** *
20213204 AAATTACTAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-AATTTATA
** * *
20213231 AAATTACTGAAATACCCTTAATTTGTA
1 AAATTACCAAAATACCCTCAATTTATA
** *
20213258 AAATTACCAAAATACCC-CTTGTTTTTA
1 AAATTACCAAAATACCCTC-AATTTATA
** * *
20213285 AAATTACCAAAATACCACT-GGTTTGTG
1 AAATTACCAAAATACC-CTCAATTTATA
* * *
20213312 AAATTACCGAAATACCCTTC-ACTTGTA
1 AAATTACCAAAATACCC-TCAATTTATA
*
20213339 AAATTATCAAAATACCC-CTAATTTA-A
1 AAATTACCAAAATACCCTC-AATTTATA
20213365 AAAGTTAC
1 AAA-TTAC
20213373 AGAAATGCCC
Statistics
Matches: 168, Mismatches: 45, Indels: 20
0.72 0.19 0.09
Matches are distributed among these distances:
25 1 0.01
26 6 0.04
27 160 0.95
28 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCAATTTATA
Found at i:20213254 original size:81 final size:80
Alignment explanation
Indices: 20213145--20213372 Score: 217
Period size: 81 Copynumber: 2.8 Consensus size: 80
20213135 TGCCCTCAAA
* ** * ****
20213145 TTGTAAAATTACCAAAGTACCCCCAATTTATAGAATTACCGTTTTA-CCCTCAATTTACAAAATT
1 TTGTAAAATTACGAAA-TACCCTTAATTTATAAAATTACCAAAATACCCCT-AATTTACAAAATT
* *
20213209 ACTAAAATACCCCTGGT
64 ACCAAAATACCACTGGT
* ** **
20213226 TTGTAAAATTACTGAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTTGTTTTTAAAATTA
1 TTGTAAAATTAC-GAAATACCCTTAATTTATAAAATTACCAAAATACCCCTAATTTACAAAATTA
20213291 CCAAAATACCACTGGT
65 CCAAAATACCACTGGT
* * * * *
20213307 TTGTGAAATTACCGAAATACCCTTCACTTGTAAAATTATCAAAATACCCCTAATTTA-AAAAGTT
1 TTGTAAAATTA-CGAAATACCCTTAATTTATAAAATTACCAAAATACCCCTAATTTACAAAA-TT
20213371 AC
64 AC
20213373 AGAAATGCCC
Statistics
Matches: 121, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
80 4 0.03
81 109 0.90
82 8 0.07
ACGTcount: A:0.39, C:0.21, G:0.07, T:0.33
Consensus pattern (80 bp):
TTGTAAAATTACGAAATACCCTTAATTTATAAAATTACCAAAATACCCCTAATTTACAAAATTAC
CAAAATACCACTGGT
Found at i:20213310 original size:54 final size:54
Alignment explanation
Indices: 20213123--20213362 Score: 178
Period size: 54 Copynumber: 4.4 Consensus size: 54
20213113 TTAGTTTACC
* * * * * *** *
20213123 AAATTACTAAAATGCCCTCAAATTGTAAAATTACCAAAGTACCCCCAATTTATA
1 AAATTACCAAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTTGTTTGTA
* **** * ** * *
20213177 GAATTACCGTTTTACCCTCAATTTACAAAATTACTAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTTGTTTGTA
** *
20213231 AAATTACTGAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTTGTTTTTA
1 AAATTACCAAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTTGTTTGTA
** * * **
20213285 AAATTACCAAAATACCAC-TGGTTTGTGAAATTACCGAAATA-CCCTTCACTTGTA
1 AAATTACCAAAATACC-CTTAATTTGTAAAATTACCAAAATACCCCTT-GTTTGTA
* *
20213339 AAATTATCAAAATACCCCTAATTT
1 AAATTACCAAAATACCCTTAATTT
20213363 AAAAAGTTAC
Statistics
Matches: 144, Mismatches: 39, Indels: 6
0.76 0.21 0.03
Matches are distributed among these distances:
53 6 0.04
54 137 0.95
55 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.07, T:0.33
Consensus pattern (54 bp):
AAATTACCAAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTTGTTTGTA
Found at i:20213445 original size:27 final size:27
Alignment explanation
Indices: 20213394--20213445 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
20213384 TGACTTTCTA
*
20213394 AAAATTATGGAAATACCATTGGTTTAC
1 AAAATTATGGAAATACCATTAGTTTAC
* *
20213421 AAAATTATTGAAATACCCTTAGTTT
1 AAAATTATGGAAATACCATTAGTTT
20213446 GTAGATTTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (27 bp):
AAAATTATGGAAATACCATTAGTTTAC
Found at i:20213564 original size:27 final size:27
Alignment explanation
Indices: 20213499--20213590 Score: 98
Period size: 27 Copynumber: 3.4 Consensus size: 27
20213489 ACCTCTATTA
*
20213499 GGTAAAACGACCGTAAAGCCCTTGTAG
1 GGTAAAATGACCGTAAAGCCCTTGTAG
* * *
20213526 GGGAAACA-GACCATAAAGCCCCTGTAG
1 GGTAAA-ATGACCGTAAAGCCCTTGTAG
* *
20213553 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCTTGTAG
20213580 GGTAAAATGAC
1 GGTAAAATGAC
20213591 GAATATGCCC
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
27 51 0.96
28 2 0.04
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCTTGTAG
Found at i:20214490 original size:25 final size:26
Alignment explanation
Indices: 20214391--20214513 Score: 178
Period size: 26 Copynumber: 4.8 Consensus size: 26
20214381 GAGGAAGTGC
* *
20214391 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
20214417 AAAAGGGCTTATGCCCCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
* *
20214443 AAAAGGGCTTATGCCCCAATTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
20214469 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
20214494 AAAAGGGCTT-TGCCCTAGTT
1 AAAAGGGCTTATGCCCCAGTT
20214514 ATTAAAGAGG
Statistics
Matches: 89, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
25 31 0.35
26 58 0.65
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATCG
Found at i:20214717 original size:42 final size:42
Alignment explanation
Indices: 20214658--20214749 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
20214648 TAGTCTCCCC
* ** *
20214658 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
20214700 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
20214742 AAATGGGC
1 AAATGGGC
20214750 CTAAAGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:20214850 original size:31 final size:31
Alignment explanation
Indices: 20214773--20214851 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
20214763 CGTTTACAGT
*
20214773 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
20214804 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
20214835 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
20214852 AACCGTTAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:20217523 original size:9 final size:11
Alignment explanation
Indices: 20217493--20217525 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
20217483 CTTTTGGGGT
20217493 TATTTTCTCTC
1 TATTTTCTCTC
20217504 TATTTTCTCTC
1 TATTTTCTCTC
20217515 TATTTTCTCTC
1 TATTTTCTCTC
20217526 GGGTTTGTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.09, C:0.27, G:0.00, T:0.64
Consensus pattern (11 bp):
TATTTTCTCTC
Found at i:20225176 original size:27 final size:27
Alignment explanation
Indices: 20225009--20225186 Score: 119
Period size: 27 Copynumber: 6.6 Consensus size: 27
20224999 TAAATTGTAC
*
20225009 AGCACTAAGTGTGCGA-TTCTACTT-TGT
1 AGCACTAAGTGTGCGAGTT-GA-TTATGT
* ** *
20225036 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAGTTGATTATGT
* * ** **
20225062 ATGCACTAAGAGTGCGAATTGACCATAC
1 A-GCACTAAGTGTGCGAGTTGATTATGT
* * *
20225090 GGCACTAAGTGTGCGAGTCTAACTATGT
1 AGCACTAAGTGTGCGAGT-TGATTATGT
* *
20225118 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
* * *
20225145 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATGT
*
20225172 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
20225187 GGCTCAATAT
Statistics
Matches: 116, Mismatches: 30, Indels: 10
0.74 0.19 0.06
Matches are distributed among these distances:
26 1 0.01
27 93 0.80
28 22 0.19
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATGT
Found at i:20225177 original size:82 final size:81
Alignment explanation
Indices: 20225006--20225186 Score: 204
Period size: 82 Copynumber: 2.2 Consensus size: 81
20224996 GATTAAATTG
* * * *
20225006 TACAGCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
20225071 GAGTGCGAATTGACCA
66 GAGTGCGAATTGACCA
* ** *
20225087 TACGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
20225151 AA-ATGTGCGAGTTGATTA
64 AAGA-GTGCGAATTGACCA
* *
20225169 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
20225187 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
81 23 0.28
82 60 0.72
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GAGTGCGAATTGACCA
Found at i:20255977 original size:40 final size:39
Alignment explanation
Indices: 20255925--20256108 Score: 165
Period size: 40 Copynumber: 4.6 Consensus size: 39
20255915 TAACTCATTC
*
20255925 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-TTTAAAACTCGCACA
*** *
20255965 AATGCCTTCGGGACTTAACCCGGAATTGGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGG-ATTTAAAACTCGCACA
* *
20256005 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAA-AACTCGCACA
* ** * ** *
20256045 AATACCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-AAAC-TCGCACA
*
20256086 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
20256109 CAGCATTCAA
Statistics
Matches: 116, Mismatches: 22, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
39 5 0.04
40 99 0.85
41 12 0.10
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAAAACTCGCACA
Found at i:20255987 original size:79 final size:80
Alignment explanation
Indices: 20255888--20256108 Score: 193
Period size: 80 Copynumber: 2.8 Consensus size: 80
20255878 CTCGTTCAAG
* * ** * *
20255888 TGCCTTCGGGACATAGCCCGGTCA-TAGTAACTCATTC-AATGCCTTCGGGACTTAACCCGGATT
1 TGCCTTCGGGACATAACCCGG-AATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGA-A
*
20255951 TTAA-AACTCGCACGAA
64 TTAATAACTCGCACAAA
* * * *
20255967 TGCCTTCGGGACTTAACCCGGAATTGGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATT
1 TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
20256032 AATAACTCGCACAAA
66 AATAACTCGCACAAA
* * ** * * *
20256047 TACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CATAACCCGGAAT-TAGTAACTCA-CACAAAGGCCTTCGGGACTTAACCCGGA
20256109 CAGCATTCAA
Statistics
Matches: 116, Mismatches: 20, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
78 1 0.01
79 36 0.31
80 73 0.63
81 6 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
AATAACTCGCACAAA
Found at i:20256068 original size:80 final size:80
Alignment explanation
Indices: 20255928--20256108 Score: 210
Period size: 80 Copynumber: 2.3 Consensus size: 80
20255918 CTCATTCAAT
* * *
20255928 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGACTTAACCCGGA-ATT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGGACTTAACCCGGATA-T
* *
20255992 GGT-A-TCTCGCACAAA
65 AGTCACT-TAGCACAAA
**
20256007 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTC-GGATCTTAGTCCGGAT
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGGA-CTTAACCCGGAT
20256070 ATAGTCACTTAGCACAAA
63 ATAGTCACTTAGCACAAA
*
20256088 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
20256109 CAGCATTCAA
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
79 7 0.08
80 70 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGGACTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:20257134 original size:13 final size:13
Alignment explanation
Indices: 20257116--20257140 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20257106 GGATGAGCAT
20257116 TTTTTTTTCTTTG
1 TTTTTTTTCTTTG
20257129 TTTTTTTTCTTT
1 TTTTTTTTCTTT
20257141 CTAGTTTCGG
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:0.00, C:0.08, G:0.04, T:0.88
Consensus pattern (13 bp):
TTTTTTTTCTTTG
Found at i:20259514 original size:41 final size:41
Alignment explanation
Indices: 20259392--20259536 Score: 134
Period size: 41 Copynumber: 3.5 Consensus size: 41
20259382 CAGATATATA
* * *
20259392 TATGGCACTTAGTGTGC--GATTCGAAATAGCTTCGGCTATA
1 TATGGCACTTAATGTGCGAGATTAG-AATAGCTTCGGCTATG
* * ***
20259432 CATGGCACTTAATGTGCGAGA-TAGAGATAGCGTCAAATATG
1 TATGGCACTTAATGTGCGAGATTAGA-ATAGCTTCGGCTATG
* * *
20259473 TAAGGCACTTAATGTACGAGATTATAATAGCTTCGGCTATG
1 TATGGCACTTAATGTGCGAGATTAGAATAGCTTCGGCTATG
*
20259514 TATTGGCACTTACTGTGCGAGAT
1 TA-TGGCACTTAATGTGCGAGAT
20259537 ATCAAGTATT
Statistics
Matches: 81, Mismatches: 19, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
40 16 0.20
41 43 0.53
42 22 0.27
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (41 bp):
TATGGCACTTAATGTGCGAGATTAGAATAGCTTCGGCTATG
Found at i:20261538 original size:43 final size:43
Alignment explanation
Indices: 20261467--20261550 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 43
20261457 TACATGAATC
**
20261467 GCATCCATCATGAACTTGAACCAATCAACGAGCTCAGATGCTT
1 GCATCCAGAATGAACTTGAACCAATCAACGAGCTCAGATGCTT
* **
20261510 GCATCCAGAATGAACTTGGACCTCTCAACGAGCTCAGATGC
1 GCATCCAGAATGAACTTGAACCAATCAACGAGCTCAGATGC
20261551 CACATATCTC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (43 bp):
GCATCCAGAATGAACTTGAACCAATCAACGAGCTCAGATGCTT
Found at i:20262021 original size:30 final size:30
Alignment explanation
Indices: 20261987--20262045 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
20261977 CATAAATCAT
* *
20261987 ACTTTTACAAATTTAC-ATTTTGACCCTTAA
1 ACTTTCACAAATTTACGA-TTTAACCCTTAA
*
20262017 ACTTTCACATATTTACGATTTAACCCTTA
1 ACTTTCACAAATTTACGATTTAACCCTTA
20262046 GGCTCGTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.32, C:0.22, G:0.03, T:0.42
Consensus pattern (30 bp):
ACTTTCACAAATTTACGATTTAACCCTTAA
Found at i:20270127 original size:6 final size:6
Alignment explanation
Indices: 20270112--20270175 Score: 60
Period size: 6 Copynumber: 10.3 Consensus size: 6
20270102 CAATCTGTTG
* *
20270112 AAAAGC AAAAGA AAAAGA AAAA-A AGAATGA AAAAGA AAAAG- AAAAGAA
1 AAAAGA AAAAGA AAAAGA AAAAGA A-AAAGA AAAAGA AAAAGA AAAAG-A
20270160 AATAGAGA AAAAGA AA
1 AA-A-AGA AAAAGA AA
20270176 GGAAAAAGTG
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
5 7 0.14
6 31 0.63
7 5 0.10
8 4 0.08
9 2 0.04
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.03
Consensus pattern (6 bp):
AAAAGA
Found at i:20270143 original size:18 final size:17
Alignment explanation
Indices: 20270120--20270174 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 17
20270110 TGAAAAGCAA
20270120 AAGAAAAAGAAAAAAAG
1 AAGAAAAAGAAAAAAAG
20270137 AATGAAAAAGAAAAAGAA-
1 AA-GAAAAAGAAAAA-AAG
*
20270155 AAGAAAATAGAGAAAAAG
1 AAGAAAA-AGAAAAAAAG
20270173 AA
1 AA
20270175 AGGAAAAAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
17 9 0.27
18 22 0.67
19 2 0.06
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (17 bp):
AAGAAAAAGAAAAAAAG
Found at i:20270146 original size:10 final size:9
Alignment explanation
Indices: 20270120--20270174 Score: 55
Period size: 8 Copynumber: 6.2 Consensus size: 9
20270110 TGAAAAGCAA
20270120 AAGAAAAAG
1 AAGAAAAAG
20270129 AA-AAAAAG
1 AAGAAAAAG
20270137 AATGAAAAAG
1 AA-GAAAAAG
20270147 AA-AAAGAA-
1 AAGAAA-AAG
20270155 AAGAAAATAG
1 AAGAAAA-AG
20270165 -AGAAAAAG
1 AAGAAAAAG
20270173 AA
1 AA
20270175 AGGAAAAAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
8 16 0.41
9 15 0.38
10 8 0.21
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (9 bp):
AAGAAAAAG
Found at i:20270152 original size:36 final size:37
Alignment explanation
Indices: 20270112--20270183 Score: 103
Period size: 36 Copynumber: 2.0 Consensus size: 37
20270102 CAATCTGTTG
*
20270112 AAAAGCAAAAGAAAA-AGAAAAAAAGA-ATGAAAAAGA
1 AAAAG-AAAAGAAAATAGAAAAAAAGAAAGGAAAAAGA
*
20270148 AAAAGAAAAGAAAATAGAGAAAAAGAAAGGAAAAAG
1 AAAAGAAAAGAAAATAGAAAAAAAGAAAGGAAAAAG
20270184 TGAGAAAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
35 9 0.28
36 15 0.47
37 8 0.25
ACGTcount: A:0.76, C:0.01, G:0.19, T:0.03
Consensus pattern (37 bp):
AAAAGAAAAGAAAATAGAAAAAAAGAAAGGAAAAAGA
Found at i:20270176 original size:24 final size:21
Alignment explanation
Indices: 20270121--20270191 Score: 58
Period size: 21 Copynumber: 3.3 Consensus size: 21
20270111 GAAAAGCAAA
20270121 AGAAAAAGAAA-AAAAGAATG
1 AGAAAAAGAAAGAAAAGAATG
*
20270141 A-AAAAGAAAAAGAAAAGAAAATAG
1 AGAAAA-AGAAAGAAAAG--AAT-G
*
20270165 AGAAAAAGAAAGGAAAA-AGTG
1 AGAAAAAGAAA-GAAAAGAATG
20270186 AGAAAA
1 AGAAAA
20270192 GTGAGGCAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 13
0.72 0.05 0.23
Matches are distributed among these distances:
19 4 0.10
20 5 0.12
21 12 0.29
22 2 0.05
23 3 0.07
24 6 0.15
25 9 0.22
ACGTcount: A:0.75, C:0.00, G:0.21, T:0.04
Consensus pattern (21 bp):
AGAAAAAGAAAGAAAAGAATG
Found at i:20270182 original size:21 final size:20
Alignment explanation
Indices: 20270145--20270191 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
20270135 AGAATGAAAA
20270145 AGAAAAAGAAAAGAAAA-TAG
1 AGAAAAAGAAAAGAAAAGT-G
*
20270165 AGAAAAAGAAAGGAAAAAGTG
1 AGAAAAAGAAAAG-AAAAGTG
20270186 AGAAAA
1 AGAAAA
20270192 GTGAGGCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 12 0.50
21 11 0.46
22 1 0.04
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.04
Consensus pattern (20 bp):
AGAAAAAGAAAAGAAAAGTG
Found at i:20270192 original size:20 final size:20
Alignment explanation
Indices: 20270112--20270181 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 20
20270102 CAATCTGTTG
*
20270112 AAAAGCAAAAGAAAA-AGAAA
1 AAAAG-AAAAGAAAATAGAGA
*
20270132 AAAAG-AATG-AAA-A-AGA
1 AAAAGAAAAGAAAATAGAGA
20270148 AAAAGAAAAGAAAATAGAGA
1 AAAAGAAAAGAAAATAGAGA
*
20270168 AAAAGAAAGGAAAA
1 AAAAGAAAAGAAAA
20270182 AGTGAGAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
16 7 0.17
17 7 0.17
18 6 0.14
19 1 0.02
20 21 0.50
ACGTcount: A:0.77, C:0.01, G:0.19, T:0.03
Consensus pattern (20 bp):
AAAAGAAAAGAAAATAGAGA
Found at i:20273359 original size:19 final size:19
Alignment explanation
Indices: 20273320--20273356 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
20273310 AGTTATGGCC
20273320 ATTTAATTTGTCTTGAGTT
1 ATTTAATTTGTCTTGAGTT
20273339 ATTTAATTTGTCTT-AGTT
1 ATTTAATTTGTCTTGAGTT
20273357 TATACAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.22, C:0.05, G:0.14, T:0.59
Consensus pattern (19 bp):
ATTTAATTTGTCTTGAGTT
Found at i:20273393 original size:28 final size:27
Alignment explanation
Indices: 20273338--20273393 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
20273328 TGTCTTGAGT
** * *
20273338 TATTTAATTTGTCTTAGTTTATACAAC
1 TATTTAAAGTGTCTTAGTTTAGAAAAC
20273365 TATTTAAAGTGTCTTAAGTTTAGAAAAC
1 TATTTAAAGTGTCTT-AGTTTAGAAAAC
20273393 T
1 T
20273394 TAATTGCATC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 13 0.54
28 11 0.46
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.46
Consensus pattern (27 bp):
TATTTAAAGTGTCTTAGTTTAGAAAAC
Found at i:20278565 original size:30 final size:30
Alignment explanation
Indices: 20278499--20278660 Score: 147
Period size: 30 Copynumber: 5.5 Consensus size: 30
20278489 ACTATCGAAC
* *
20278499 TATGAAAAGGGATGGTGACGACCA-T-CAA
1 TATGAAAAGGGATAGTGACGACCATTGAAA
*
20278527 TAATGAAAAGGGATAGTGATGACCATTGAAA
1 T-ATGAAAAGGGATAGTGACGACCATTGAAA
** * * *
20278558 TATGAAAAGGGATAGCT-TTGGCTATTGAAT
1 TATGAAAAGGGATAG-TGACGACCATTGAAA
*
20278588 TATGAAAAGGGAT-GTGACGACCA-TCAACA
1 TATGAAAAGGGATAGTGACGACCATTGAA-A
* * *
20278617 -ATGAAAAGGGATGGTGACGACCATCGAAT
1 TATGAAAAGGGATAGTGACGACCATTGAAA
20278646 TATGAAAAGGGATAG
1 TATGAAAAGGGATAG
20278661 CTTCAGCTAT
Statistics
Matches: 108, Mismatches: 17, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
28 17 0.16
29 35 0.32
30 52 0.48
31 4 0.04
ACGTcount: A:0.40, C:0.10, G:0.28, T:0.22
Consensus pattern (30 bp):
TATGAAAAGGGATAGTGACGACCATTGAAA
Found at i:20278620 original size:88 final size:89
Alignment explanation
Indices: 20278471--20278700 Score: 320
Period size: 88 Copynumber: 2.6 Consensus size: 89
20278461 TCATCGACCA
* * * * *
20278471 ATGAAAAAGG-TAGCATCAACTATCGAACTATGAAAAGGGATGGTGACGACCATCAATAATGAAA
1 ATGAAAAGGGATAGCTTCAGCTATTGAACTATGAAAAGGGATGGTGACGACCATCAACAATGAAA
* *
20278535 AGGGATAGTGATGACCATTGAAAT
66 AGGGATAGTGACGACCATCGAAAT
** *
20278559 ATGAAAAGGGATAGCTTTGGCTATTGAATTATGAAAAGGGAT-GTGACGACCATCAACAATGAAA
1 ATGAAAAGGGATAGCTTCAGCTATTGAACTATGAAAAGGGATGGTGACGACCATCAACAATGAAA
* *
20278623 AGGGATGGTGACGACCATCGAATT
66 AGGGATAGTGACGACCATCGAAAT
* *
20278647 ATGAAAAGGGATAGCTTCAGCTATTGAACTATGCAAAGGGATGGTGACAACCAT
1 ATGAAAAGGGATAGCTTCAGCTATTGAACTATGAAAAGGGATGGTGACGACCAT
20278701 TGTGATTCCA
Statistics
Matches: 123, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
88 88 0.72
89 35 0.28
ACGTcount: A:0.40, C:0.13, G:0.26, T:0.22
Consensus pattern (89 bp):
ATGAAAAGGGATAGCTTCAGCTATTGAACTATGAAAAGGGATGGTGACGACCATCAACAATGAAA
AGGGATAGTGACGACCATCGAAAT
Found at i:20286631 original size:104 final size:105
Alignment explanation
Indices: 20286385--20286652 Score: 450
Period size: 104 Copynumber: 2.6 Consensus size: 105
20286375 TTGTATATAA
* *
20286385 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTATGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
20286449 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
20286490 AGGGGTTGCTATGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTATGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
20286555 TGAAATGTG-AAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* ** *
20286594 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTATGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
20286653 ATAACGGTTA
Statistics
Matches: 154, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
104 84 0.55
105 69 0.45
106 1 0.01
ACGTcount: A:0.18, C:0.21, G:0.31, T:0.30
Consensus pattern (105 bp):
AGGGGTTGCTATGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:20289694 original size:27 final size:27
Alignment explanation
Indices: 20289664--20289861 Score: 198
Period size: 27 Copynumber: 7.3 Consensus size: 27
20289654 TACTGAAATG
* *
20289664 CCCTCGAGTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
** *
20289691 CCCTCGATTTATAGAATTACTGTTTCA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
20289718 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * * *
20289745 CCCTCAATTTGTAGAATTACCAATTTG
1 CCCTCGATTTATAGAATTACCATTTTA
* ** *
20289772 CCCTTGATTTATAGAATTACTGTTTCA
1 CCCTCGATTTATAGAATTACCATTTTA
* * * *
20289799 CCCTCAATTTAGAAAAATACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
20289826 CCCTCAATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
20289853 CCCTCGATT
1 CCCTCGATT
20289862 GTGAAATTAC
Statistics
Matches: 136, Mismatches: 35, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 136 1.00
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:20289757 original size:81 final size:81
Alignment explanation
Indices: 20289672--20289861 Score: 299
Period size: 81 Copynumber: 2.3 Consensus size: 81
20289662 TGCCCTCGAG
* *
20289672 TTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTCACCCTCGATTTACAAAATTA
1 TTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTCACCCTCAATTTACAAAAATA
20289737 CCATTTTACCCTCAAT
66 CCATTTTACCCTCAAT
* * * *
20289753 TTGTAGAATTACCAATTTGCCCTTGATTTATAGAATTACTGTTTCACCCTCAATTTAGAAAAATA
1 TTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTCACCCTCAATTTACAAAAATA
20289818 CCATTTTACCCTCAAT
66 CCATTTTACCCTCAAT
** *
20289834 TTACAAAATTACCATTTTACCCTCGATT
1 TTGTAGAATTACCATTTTACCCTCGATT
20289862 GTGAAATTAC
Statistics
Matches: 97, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 97 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (81 bp):
TTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTCACCCTCAATTTACAAAAATA
CCATTTTACCCTCAAT
Found at i:20289904 original size:27 final size:27
Alignment explanation
Indices: 20289865--20290016 Score: 110
Period size: 27 Copynumber: 5.6 Consensus size: 27
20289855 CTCGATTGTG
** *
20289865 AAATTACTTAAATAGCCCTA-TAGGATA
1 AAATTACCAAAATACCCCTAGTAGG-TA
* **
20289892 GAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTAGGTA
**
20289919 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTAGGTA
* * * ** *
20289946 AAATTACCGAAATACCACTGGTTTGTG
1 AAATTACCAAAATACCCCTAGTAGGTA
* * **
20289973 AAATTACCGAAATA-CCCTCAATTTGTA
1 AAATTACCAAAATACCCCT-AGTAGGTA
20290000 AAATTACCAAAATACCC
1 AAATTACCAAAATACCC
20290017 TTGATTTACA
Statistics
Matches: 106, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
26 3 0.03
27 99 0.93
28 4 0.04
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTAGGTA
Found at i:20289938 original size:54 final size:53
Alignment explanation
Indices: 20289893--20290043 Score: 178
Period size: 54 Copynumber: 2.8 Consensus size: 53
20289883 TATAGGATAG
20289893 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTA-TTTGTAA
* * * * * *
20289947 AATTACCGAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCC-CTATTTGTAA
* ** *
20290001 AATTACCAAAATA-CCCTTGATTTACAAAATTACAAAAATACCC
1 AATTACCAAAATACCCCTAG-TTTGTAAAATTACCAAAATACCC
20290044 TTGACTTTCT
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
53 4 0.05
54 75 0.93
55 2 0.02
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (53 bp):
AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTATTTGTAA
Found at i:20290017 original size:27 final size:27
Alignment explanation
Indices: 20289893--20290044 Score: 159
Period size: 27 Copynumber: 5.6 Consensus size: 27
20289883 TATAGGATAG
20289893 AATTACCAAAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCCTC-AGTTTGTAA
20289920 AATTACCAAAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCCTC-AGTTTGTAA
* * *
20289947 AATTACCGAAATACCACT-GGTTTGTGA
1 AATTACCAAAATACC-CTCAGTTTGTAA
* *
20289974 AATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCTCAGTTTGTAA
* **
20290001 AATTACCAAAATACCCT-TGATTTACAA
1 AATTACCAAAATACCCTCAG-TTTGTAA
*
20290028 AATTACAAAAATACCCT
1 AATTACCAAAATACCCT
20290045 TGACTTTCTA
Statistics
Matches: 109, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
26 2 0.02
27 106 0.97
28 1 0.01
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCTCAGTTTGTAA
Found at i:20290030 original size:81 final size:81
Alignment explanation
Indices: 20289893--20290042 Score: 205
Period size: 81 Copynumber: 1.9 Consensus size: 81
20289883 TATAGGATAG
* ** **
20289893 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAA
1 AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTACAAAAA
20289958 TACCACTGGTTTGTGA
66 TACCACTGGTTTGTGA
* *
20289974 AATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATA-CCCTTGATTTACAAAATTACAAA
1 AATTACCAAAATACCCCT-AATTTGTAAAATTACCAAAATACCCCTAG-TTTACAAAATTACAAA
20290037 AATACC
64 AATACC
20290043 CTTGACTTTC
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
80 9 0.15
81 51 0.85
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (81 bp):
AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTACAAAAA
TACCACTGGTTTGTGA
Found at i:20290044 original size:54 final size:54
Alignment explanation
Indices: 20289893--20290100 Score: 172
Period size: 54 Copynumber: 3.8 Consensus size: 54
20289883 TATAGGATAG
* ** *
20289893 AATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCCTTGA-TTTACAAAATTACCAAAATACCCTC-AATTTGTAA
* * *** *
20289947 AATTACCGAAATACCAC-TGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACC-CTTGATTTACAAAATTACCAAAATACCCTCAATTTGTAA
* * * *
20290001 AATTACCAAAATACCCTTGATTTACAAAATTACAAAAATACCCTTGACTTTCTAAA
1 AATTACCAAAATACCCTTGATTTACAAAATTACCAAAATACCC-TCAATTTGT-AA
* * * *
20290057 AATTA-TAGAAATACCATTGGTTTACAAAATTACTAAAATACCCT
1 AATTACCA-AAATACCCTTGATTTACAAAATTACCAAAATACCCT
20290101 TGGTTTGTAG
Statistics
Matches: 128, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
53 1 0.01
54 78 0.61
55 10 0.08
56 39 0.30
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (54 bp):
AATTACCAAAATACCCTTGATTTACAAAATTACCAAAATACCCTCAATTTGTAA
Found at i:20290103 original size:27 final size:27
Alignment explanation
Indices: 20289999--20290129 Score: 122
Period size: 27 Copynumber: 4.8 Consensus size: 27
20289989 CTCAATTTGT
* *
20289999 AAAATTACCAAAATACCCTTGATTTAC
1 AAAATTACTAAAATACCCTTGGTTTAC
* *
20290026 AAAATTACAAAAATACCCTTGACTTT-C
1 AAAATTACTAAAATACCCTTG-GTTTAC
*
20290053 TAAAAATTA-TAGAAATACCATTGGTTTAC
1 --AAAATTACTA-AAATACCCTTGGTTTAC
**
20290082 AAAATTACTAAAATACCCTTGGTTTGT
1 AAAATTACTAAAATACCCTTGGTTTAC
* * *
20290109 AGATTTACTAAAACACCCTTG
1 AAAATTACTAAAATACCCTTG
20290130 TAGGATGAAA
Statistics
Matches: 87, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
27 60 0.69
28 9 0.10
29 18 0.21
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (27 bp):
AAAATTACTAAAATACCCTTGGTTTAC
Found at i:20290986 original size:43 final size:43
Alignment explanation
Indices: 20290939--20291026 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
20290929 GATATGAATG
20290939 ACTTGACTGTGATTGTTTGATTCAAATATGGGCATGACATTCT
1 ACTTGACTGTGATTGTTTGATTCAAATATGGGCATGACATTCT
20290982 ACTTGACTGTGATTGTTTGATTCAAATATGGGCATGACATTCT
1 ACTTGACTGTGATTGTTTGATTCAAATATGGGCATGACATTCT
20291025 AC
1 AC
20291027 ATACATGACA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (43 bp):
ACTTGACTGTGATTGTTTGATTCAAATATGGGCATGACATTCT
Found at i:20291118 original size:25 final size:24
Alignment explanation
Indices: 20291077--20291159 Score: 96
Period size: 25 Copynumber: 3.4 Consensus size: 24
20291067 AGGAAGTGCT
* *
20291077 AAAAGGGCTCTGGCCCAGTTTATC
1 AAAAGGGCTTTGCCCCAGTTTATC
20291101 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTATC
* *
20291126 AGAAAGGGCTTTGCCCTAG-TTATT
1 A-AAAGGGCTTTGCCCCAGTTTATC
20291150 AAAAGAGGCT
1 AAAAG-GGCT
20291160 AGGCCTCTAG
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
23 4 0.08
24 10 0.19
25 38 0.73
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:20291159 original size:24 final size:23
Alignment explanation
Indices: 20291077--20291173 Score: 79
Period size: 25 Copynumber: 4.0 Consensus size: 23
20291067 AGGAAGTGCT
*
20291077 AAAAGGGCTCTGGCCC-AGTTTATC
1 AAAAGGGCT-TTGCCCTAG-TTATC
*
20291101 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCTAG-TTATC
*
20291126 AGAAAGGGCTTTGCCCTAGTTATT
1 A-AAAGGGCTTTGCCCTAGTTATC
**
20291150 AAAAGAGGCTAGGCCTCTAGTTAT
1 AAAAG-GGCTTTGCC-CTAGTTAT
20291174 ATGATAAAGC
Statistics
Matches: 63, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
23 4 0.06
24 18 0.29
25 41 0.65
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTTGCCCTAGTTATC
Found at i:20291421 original size:31 final size:30
Alignment explanation
Indices: 20291366--20291448 Score: 103
Period size: 31 Copynumber: 2.7 Consensus size: 30
20291356 CGCTTACAGT
* * *
20291366 AAAGGCTTCGGCCAATTATATGATTTATGA
1 AAAGGCTTCGGCCCAGTATATGATTGATGA
20291396 AAAGGCTTCGGCCCAGTGATATGATTGATGA
1 AAAGGCTTCGGCCCAGT-ATATGATTGATGA
* * *
20291427 AAAGTCTTCAGCCTAGTATATG
1 AAAGGCTTCGGCCCAGTATATG
20291449 TCGAGACTGA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 20 0.43
31 26 0.57
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (30 bp):
AAAGGCTTCGGCCCAGTATATGATTGATGA
Found at i:20294412 original size:19 final size:19
Alignment explanation
Indices: 20294373--20294409 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
20294363 AGTTATGGCC
20294373 ATTTAATTTGTCTTGAGTT
1 ATTTAATTTGTCTTGAGTT
20294392 ATTTAATTTGTCTT-AGTT
1 ATTTAATTTGTCTTGAGTT
20294410 TATACAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.22, C:0.05, G:0.14, T:0.59
Consensus pattern (19 bp):
ATTTAATTTGTCTTGAGTT
Found at i:20294421 original size:27 final size:28
Alignment explanation
Indices: 20294391--20294446 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
20294381 TGTCTTGAGT
** *
20294391 TATTTAATTTGTCTT-AGTTTATACAAC
1 TATTTAAAGTGTCTTAAGTTTAGACAAC
20294418 TATTTAAAGTGTCTTAAGTTTAGACAAC
1 TATTTAAAGTGTCTTAAGTTTAGACAAC
20294446 T
1 T
20294447 TAATTGCATC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 13 0.52
28 12 0.48
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (28 bp):
TATTTAAAGTGTCTTAAGTTTAGACAAC
Found at i:20299542 original size:29 final size:29
Alignment explanation
Indices: 20299497--20299658 Score: 116
Period size: 30 Copynumber: 5.5 Consensus size: 29
20299487 ATATCGAACT
*
20299497 ATGAAAAGGGATGGTGATGACCATCAATA
1 ATGAAAAGGGATAGTGATGACCATCAATA
*
20299526 ATGAAAAGGGATAGTGATGACCATTGAA-A
1 ATGAAAAGGGATAGTGATGACCA-TCAATA
* * * *
20299555 TACGAAAAGGGATAGCT--TCGGCTATCGAATT
1 -ATGAAAAGGGATAG-TGAT-GACCATC-AATA
* ** * *
20299586 ATGAAAAGGGATGGTGACAACCATGAACA
1 ATGAAAAGGGATAGTGATGACCATCAATA
* *
20299615 ATGAAAAGGGAT-GCTGACGACCATCGAATT
1 ATGAAAAGGGATAG-TGATGACCATC-AATA
20299645 ATGAAAAGGGATAG
1 ATGAAAAGGGATAG
20299659 CTCCAGCTAT
Statistics
Matches: 102, Mismatches: 20, Indels: 20
0.72 0.14 0.14
Matches are distributed among these distances:
28 1 0.01
29 49 0.48
30 50 0.49
31 2 0.02
ACGTcount: A:0.41, C:0.12, G:0.28, T:0.20
Consensus pattern (29 bp):
ATGAAAAGGGATAGTGATGACCATCAATA
Found at i:20299564 original size:30 final size:29
Alignment explanation
Indices: 20299499--20299569 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
20299489 ATCGAACTAT
* * *
20299499 GAAAAGGGATGGTGATGACCATCAATAAT
1 GAAAAGGGATAGTGATGACCATAAATAAC
20299528 GAAAAGGGATAGTGATGACCATTGAAAT-AC
1 GAAAAGGGATAGTGATGACCA-T-AAATAAC
20299558 GAAAAGGGATAG
1 GAAAAGGGATAG
20299570 CTTCGGCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 20 0.54
30 14 0.38
31 3 0.08
ACGTcount: A:0.44, C:0.08, G:0.30, T:0.18
Consensus pattern (29 bp):
GAAAAGGGATAGTGATGACCATAAATAAC
Found at i:20299592 original size:30 final size:30
Alignment explanation
Indices: 20299578--20299656 Score: 115
Period size: 29 Copynumber: 2.7 Consensus size: 30
20299568 AGCTTCGGCT
*
20299578 ATCGAATTATGAAAAGGGATGGTGACAACC
1 ATCGAATTATGAAAAGGGATGCTGACAACC
** *
20299608 AT-GAACAATGAAAAGGGATGCTGACGACC
1 ATCGAATTATGAAAAGGGATGCTGACAACC
20299637 ATCGAATTATGAAAAGGGAT
1 ATCGAATTATGAAAAGGGAT
20299657 AGCTCCAGCT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 25 0.60
30 17 0.40
ACGTcount: A:0.42, C:0.13, G:0.27, T:0.19
Consensus pattern (30 bp):
ATCGAATTATGAAAAGGGATGCTGACAACC
Found at i:20299623 original size:59 final size:60
Alignment explanation
Indices: 20299499--20299658 Score: 184
Period size: 59 Copynumber: 2.7 Consensus size: 60
20299489 ATCGAACTAT
* * * **
20299499 GAAAAGGGATGGTGATGACCATC-AATAATGAAAAGGGATAGTGATGACCATTGAAATAC
1 GAAAAGGGATGCTGACGACCATCGAATTATGAAAAGGGATAGTGACAACCATTGAAATAC
* * * * *
20299558 GAAAAGGGATAGCT-TCGGCTATCGAATTATGAAAAGGGATGGTGACAACCA-TGAACA-AT
1 GAAAAGGGAT-GCTGACGACCATCGAATTATGAAAAGGGATAGTGACAACCATTGAA-ATAC
20299617 GAAAAGGGATGCTGACGACCATCGAATTATGAAAAGGGATAG
1 GAAAAGGGATGCTGACGACCATCGAATTATGAAAAGGGATAG
20299659 CTCCAGCTAT
Statistics
Matches: 83, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
58 3 0.04
59 54 0.65
60 26 0.31
ACGTcount: A:0.41, C:0.12, G:0.28, T:0.19
Consensus pattern (60 bp):
GAAAAGGGATGCTGACGACCATCGAATTATGAAAAGGGATAGTGACAACCATTGAAATAC
Found at i:20299651 original size:89 final size:89
Alignment explanation
Indices: 20299488--20299698 Score: 271
Period size: 89 Copynumber: 2.4 Consensus size: 89
20299478 TGAAAAAGGA
* ** * * *
20299488 TATCGAACTATGAAAAGGGATGGTGATGACCATCAATAATGAAAAGGGATAGTGATGACCATTGA
1 TATCGAATTATGAAAAGGGATGGTGACAACCATCAACAATGAAAAGGGATAGTGACGACCATCGA
* *
20299553 AATACGAAAAGGGATAGCTTCGGC
66 AATACGAAAAGGGATAGCTCCAGC
*
20299577 TATCGAATTATGAAAAGGGATGGTGACAACCATGAACAATGAAAAGGGAT-GCTGACGACCATCG
1 TATCGAATTATGAAAAGGGATGGTGACAACCATCAACAATGAAAAGGGATAG-TGACGACCATCG
* *
20299641 AATTATGAAAAGGGATAGCTCCAGC
65 AAATACGAAAAGGGATAGCTCCAGC
** * *
20299666 TATTAAATTATGCAAAGGGATGGTGGCAACCAT
1 TATCGAATTATGAAAAGGGATGGTGACAACCAT
20299699 TGTGATTCCA
Statistics
Matches: 106, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
88 1 0.01
89 105 0.99
ACGTcount: A:0.39, C:0.14, G:0.26, T:0.21
Consensus pattern (89 bp):
TATCGAATTATGAAAAGGGATGGTGACAACCATCAACAATGAAAAGGGATAGTGACGACCATCGA
AATACGAAAAGGGATAGCTCCAGC
Found at i:20301271 original size:3 final size:3
Alignment explanation
Indices: 20301254--20301295 Score: 50
Period size: 3 Copynumber: 13.7 Consensus size: 3
20301244 TTCTTGCAAT
*
20301254 TTA TTT TTA -TA TTA TTA TTA TTA TTA TTA TTA CTTA CTTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA -TTA TT
20301296 TACTTTTTCC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 26 0.74
4 7 0.20
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:20304332 original size:55 final size:55
Alignment explanation
Indices: 20304240--20304362 Score: 149
Period size: 55 Copynumber: 2.2 Consensus size: 55
20304230 CGATATGGCT
* * * * *
20304240 GTGGTCGAGCCTGCCAAAACAACACGGGCGTGTGACACGCTCGTGTGGAAGAATC
1 GTGGTCGAGCCTGCCAAAACAACACGGGCATGTGACACGCCCGTATGGAACAACC
* * *
20304295 GTGGTCGAGCCTGCCAAAATAGCACGGGCAT-TCGACACGCCCGTATGGAACACCC
1 GTGGTCGAGCCTGCCAAAACAACACGGGCATGT-GACACGCCCGTATGGAACAACC
*
20304350 GTGGTCGAACCTG
1 GTGGTCGAGCCTG
20304363 TTAAATTAAC
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 1 0.02
55 57 0.98
ACGTcount: A:0.24, C:0.28, G:0.31, T:0.16
Consensus pattern (55 bp):
GTGGTCGAGCCTGCCAAAACAACACGGGCATGTGACACGCCCGTATGGAACAACC
Found at i:20309982 original size:40 final size:39
Alignment explanation
Indices: 20309898--20310082 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
20309888 TTGAATGATG
* * * *
20309898 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
20309938 TCCGGACTAAGATCCGCAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
20309978 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
20310017 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
20310058 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
20310083 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
39 34 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:20310038 original size:79 final size:81
Alignment explanation
Indices: 20309898--20310080 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
20309888 TTGAATGATG
* * *
20309898 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGCAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
*
20309962 TGTGCGAGTTACTA-A
66 TGTACGAGTTACTATA
* * * **
20309977 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
20310039 TTTGTACGAGTTACTATA
64 TTTGTACGAGTTACTATA
* *
20310057 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
20310081 TGAACGAGTA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.65
80 30 0.34
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTACGAGTTACTATA
Found at i:20310104 original size:79 final size:79
Alignment explanation
Indices: 20309955--20310115 Score: 193
Period size: 79 Copynumber: 2.0 Consensus size: 79
20309945 TAAGATCCGC
* * **
20309955 AGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCC
1 AGGCATTTGTACGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATCC
*
20310020 GGGTTAAGTCCCGA
66 GGGTTAAATCCCGA
* * *
20310034 AGGCATTTGTACGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 AGGCATTTGTACGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
*
20310097 TCC-GGTTAAATTCCGA
63 TCCGGGTTAAATCCCGA
20310113 AGG
1 AGG
20310116 TACGTGATTC
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 44 0.63
80 24 0.34
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (79 bp):
AGGCATTTGTACGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATCC
GGGTTAAATCCCGA
Found at i:20316721 original size:40 final size:40
Alignment explanation
Indices: 20316647--20316827 Score: 269
Period size: 40 Copynumber: 4.6 Consensus size: 40
20316637 AACCCAAGTA
* *
20316647 CCTTCGGGAATTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* * *
20316686 CCTTCGGGTCTTGGCCCGAATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
20316726 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
20316766 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAGG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
20316806 CCTTCGGGACTTAG-CCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
20316828 CATCCGAATA
Statistics
Matches: 129, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
39 19 0.15
40 109 0.84
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:20323441 original size:24 final size:24
Alignment explanation
Indices: 20323391--20323444 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
20323381 AATCGAATTT
*
20323391 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
20323415 GCACACATAGTGCCATAG-CACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
20323439 GCACAC
1 GCACAC
20323445 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 6 0.22
26 2 0.07
ACGTcount: A:0.30, C:0.39, G:0.17, T:0.15
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:20331150 original size:24 final size:24
Alignment explanation
Indices: 20331100--20331153 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
20331090 AATCGAATTT
*
20331100 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
20331124 GCACACATAGTGCCATAG-CACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
20331148 GCACAC
1 GCACAC
20331154 CCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 6 0.22
26 2 0.07
ACGTcount: A:0.30, C:0.39, G:0.17, T:0.15
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:20335547 original size:40 final size:40
Alignment explanation
Indices: 20335408--20335549 Score: 189
Period size: 40 Copynumber: 3.6 Consensus size: 40
20335398 AATCCAAGTA
* *
20335408 CCTTCGGGAATTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* * * *
20335447 CCTTCGGGTCTTGGCCCGAATATAGTCACTAGCACAAATA
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
20335487 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAGG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
20335527 CCTTCGGGACTTAGCTCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
20335550 CATCCGAATA
Statistics
Matches: 89, Mismatches: 12, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
39 11 0.12
40 77 0.87
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:20349089 original size:119 final size:120
Alignment explanation
Indices: 20348883--20349105 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
20348873 TCCTCGTTCA
*
20348883 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* * *
20348948 TTAGTAACTCGCACAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
20349003 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
20349065 ATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
64 ATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAACCCGGA
20349106 CATCATTCAA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.04
119 65 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:20349105 original size:40 final size:40
Alignment explanation
Indices: 20348881--20349105 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
20348871 GCTCCTCGTT
* *
20348881 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
20348921 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
20348961 CAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
20349001 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
20349040 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
20349081 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
20349106 CATCATTCAA
Statistics
Matches: 162, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 117 0.72
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:20352943 original size:43 final size:43
Alignment explanation
Indices: 20352879--20353049 Score: 227
Period size: 43 Copynumber: 4.0 Consensus size: 43
20352869 TCTGAATTCA
* **
20352879 TTCACCGGCATT-TCGCCTGCTAGGCTTGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCAGAAGCCCGATATCAT
** * *
20352921 TTCATTGGCATTATAGCCTGCTAGGCCAGAGGCCCGATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCCAGAAGCCCGATATCAT
* *
20352964 CTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCAGAAGCCCGATATCAT
* *
20353007 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGTCCGTATATCA
1 TTCACCGGCATTATAGCCTGCTAGGCCAGAAGCCCG-ATATCA
20353050 CATTTCGATA
Statistics
Matches: 112, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
42 10 0.09
43 96 0.86
44 6 0.05
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCCAGAAGCCCGATATCAT
Found at i:20357148 original size:21 final size:21
Alignment explanation
Indices: 20357122--20357163 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
20357112 TCTTTACGAA
20357122 ACTTTTACATAATAATTCTAT
1 ACTTTTACATAATAATTCTAT
20357143 ACTTTTACATAATAATTCTAT
1 ACTTTTACATAATAATTCTAT
20357164 CATGTTGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.48
Consensus pattern (21 bp):
ACTTTTACATAATAATTCTAT
Found at i:20361084 original size:40 final size:40
Alignment explanation
Indices: 20361047--20361271 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
20361037 GCTACTCGTT
* *
20361047 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
20361087 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
20361127 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
20361167 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
20361206 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
20361247 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
20361272 CATCATTCAA
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.19
40 118 0.72
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:20361231 original size:119 final size:120
Alignment explanation
Indices: 20361049--20361271 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
20361039 TACTCGTTCA
*
20361049 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
20361114 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
20361169 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
20361231 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
20361272 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:20363196 original size:42 final size:43
Alignment explanation
Indices: 20363137--20363243 Score: 119
Period size: 44 Copynumber: 2.5 Consensus size: 43
20363127 GGCTGTCACA
* * **
20363137 CAGACAGGGTCTTACACGAAATC--AAATACGATGCCAATGTCC
1 CAGACATGGTCTTACACGAAATCATAAAT-CAATGCCAACATCC
20363179 CAGACATGGTCTTACACGCAAATCATAAATCAATGCCAACATCC
1 CAGACATGGTCTTACACG-AAATCATAAATCAATGCCAACATCC
* **
20363223 TAGATGTGGTCTTACACGAAA
1 CAGACATGGTCTTACACGAAA
20363244 ACACATATCA
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
42 17 0.31
43 8 0.15
44 26 0.47
45 4 0.07
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.21
Consensus pattern (43 bp):
CAGACATGGTCTTACACGAAATCATAAATCAATGCCAACATCC
Found at i:20370842 original size:43 final size:43
Alignment explanation
Indices: 20370781--20370923 Score: 130
Period size: 43 Copynumber: 3.3 Consensus size: 43
20370771 GTCTTGGAGT
* * * *
20370781 GGTCTTACATGTAATCAAATATCGATGACACTGTCCCAAATAG
1 GGTCTTACACGAAATCAAATATCGATGACAATGTCCCAAACAG
** * * *
20370824 GGTCTTACACGAAATCAAATAT-GATGTTAATTTCCCAGACAT
1 GGTCTTACACGAAATCAAATATCGATGACAATGTCCCAAACAG
* *
20370866 GGTCTTACACGTAAATCATAA-GTCGATGACAATGTCCCAGAC-G
1 GGTCTTACACG-AAATCA-AATATCGATGACAATGTCCCAAACAG
*
20370909 TGGTCTTACAAGAAA
1 -GGTCTTACACGAAA
20370924 AAACATATTG
Statistics
Matches: 81, Mismatches: 15, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
42 24 0.30
43 30 0.37
44 27 0.33
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.27
Consensus pattern (43 bp):
GGTCTTACACGAAATCAAATATCGATGACAATGTCCCAAACAG
Found at i:20370913 original size:44 final size:42
Alignment explanation
Indices: 20370779--20370918 Score: 124
Period size: 44 Copynumber: 3.3 Consensus size: 42
20370769 ACGTCTTGGA
* * * *
20370779 GTGGTCTTACATGT-AATCAAATATCGATGACACTGTCCCAAATA
1 GTGGTCTTACACGTAAATC-AA-ATCGATGACAATGTCCCAGA-C
* ** *
20370823 G-GGTCTTACACG-AAATCAAATATGATGTTAATTTCCCAGAC
1 GTGGTCTTACACGTAAATCAAAT-CGATGACAATGTCCCAGAC
*
20370864 ATGGTCTTACACGTAAATCATAAGTCGATGACAATGTCCCAGAC
1 GTGGTCTTACACGTAAATCA-AA-TCGATGACAATGTCCCAGAC
20370908 GTGGTCTTACA
1 GTGGTCTTACA
20370919 AGAAAAAACA
Statistics
Matches: 76, Mismatches: 14, Indels: 12
0.75 0.14 0.12
Matches are distributed among these distances:
41 2 0.03
42 25 0.33
43 20 0.26
44 28 0.37
45 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.29
Consensus pattern (42 bp):
GTGGTCTTACACGTAAATCAAATCGATGACAATGTCCCAGAC
Found at i:20371247 original size:16 final size:15
Alignment explanation
Indices: 20371207--20371254 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
20371197 TTCTTGATCT
* *
20371207 AAATTAATTCAAATT
1 AAATTCATTCAAATC
* *
20371222 TAATTTATTCAAACTC
1 AAATTCATTCAAA-TC
20371238 AAATTCATTCAAATC
1 AAATTCATTCAAATC
20371253 AA
1 AA
20371255 TCCAAAAACA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 15 0.56
16 12 0.44
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.38
Consensus pattern (15 bp):
AAATTCATTCAAATC
Found at i:20393478 original size:51 final size:51
Alignment explanation
Indices: 20393423--20393522 Score: 121
Period size: 51 Copynumber: 2.0 Consensus size: 51
20393413 CTAGCACATA
** *
20393423 ACATGTAA-CACATCCATAATGAACTCAGACCTTTCAATGAGCTCGGATGTT
1 ACATG-AATCACATCCATAATGAACTCAGACCACTCAACGAGCTCGGATGTT
* * * *
20393474 ACATGAATCATATCTATCATGAACTCGGACCACTCAACGAGCTCGGATG
1 ACATGAATCACATCCATAATGAACTCAGACCACTCAACGAGCTCGGATG
20393523 CTTGCATCCA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
50 2 0.05
51 39 0.95
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (51 bp):
ACATGAATCACATCCATAATGAACTCAGACCACTCAACGAGCTCGGATGTT
Found at i:20395908 original size:33 final size:33
Alignment explanation
Indices: 20395830--20395915 Score: 84
Period size: 33 Copynumber: 2.6 Consensus size: 33
20395820 ATGATACTGT
* * *
20395830 ACTGAGATGGGCTACGGCCCACACTGATATTAAT
1 ACTGATATGGGCTAAGG-CCACACTGATATTAAG
* **
20395864 ATTG-TATTGGGCTAAGGCCACACTGATATTGCG
1 ACTGATA-TGGGCTAAGGCCACACTGATATTAAG
*
20395897 ACTGATATGGGCTTAGGCC
1 ACTGATATGGGCTAAGGCC
20395916 CAATTGTGTA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
33 28 0.67
34 14 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (33 bp):
ACTGATATGGGCTAAGGCCACACTGATATTAAG
Found at i:20407977 original size:25 final size:25
Alignment explanation
Indices: 20407943--20407994 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
20407933 CACTACCCAT
20407943 ACGGCATCTTTCTTTCTCGGTGTTA
1 ACGGCATCTTTCTTTCTCGGTGTTA
20407968 ACGGCATCTTTCTTTCTCGGTGTTA
1 ACGGCATCTTTCTTTCTCGGTGTTA
20407993 AC
1 AC
20407995 AGCAAACCTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.13, C:0.25, G:0.19, T:0.42
Consensus pattern (25 bp):
ACGGCATCTTTCTTTCTCGGTGTTA
Found at i:20411930 original size:40 final size:39
Alignment explanation
Indices: 20411846--20412028 Score: 190
Period size: 40 Copynumber: 4.6 Consensus size: 39
20411836 TCGAATGATG
* * * *
20411846 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
20411886 TCCGGACTAAGATCCAAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
20411926 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
20411965 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
20412006 -CCGGGCTATGTACCGAAGGCATT
1 TCCGGGCTAAGT-CCGAAGGCATT
20412029 AGAACGAGTA
Statistics
Matches: 119, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 33 0.28
40 76 0.64
41 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:20412052 original size:79 final size:79
Alignment explanation
Indices: 20411902--20412063 Score: 186
Period size: 79 Copynumber: 2.1 Consensus size: 79
20411892 CTAAGATCCA
* * * **
20411902 AAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATC
1 AAGGCATTTGTGCGAGATACTAATACCGGGCTAAGACCGAAGGCATTAGAACGAGTTACTAAATC
*
20411967 CGGGTTAAGTCCCG
66 CGGGTTAAATCCCG
* * *
20411981 AAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTACCGAAGGCATTAGAACGAG-TAGCTAT
1 AAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-ACCGAAGGCATTAGAACGAGTTA-CTAA
*
20412044 ATCC-GGTTAAATTCCG
63 ATCCGGGTTAAATCCCG
20412060 AAGG
1 AAGG
20412064 TACGTGATTC
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 45 0.64
80 23 0.33
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (79 bp):
AAGGCATTTGTGCGAGATACTAATACCGGGCTAAGACCGAAGGCATTAGAACGAGTTACTAAATC
CGGGTTAAATCCCG
Found at i:20427144 original size:49 final size:49
Alignment explanation
Indices: 20427069--20427194 Score: 164
Period size: 49 Copynumber: 2.6 Consensus size: 49
20427059 AAGATGCAAC
*
20427069 GCCATGTCCCAGACATGGTCTTACACTGGCTTTCATATAGCGAG-GCCGAT
1 GCCATGTCCCAGACA-GGTCTTACACTGGCTCTCATATAGCG-GTGCCGAT
* * ** **
20427119 GCCATGTCCCAAACAGGTCTTACACTGGCTCTCATCTATTGGTGTTGAT
1 GCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATAGCGGTGCCGAT
20427168 GCCATGTCCCAGACAGGTCTTACACTG
1 GCCATGTCCCAGACAGGTCTTACACTG
20427195 ACACACAACA
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
48 1 0.01
49 52 0.78
50 14 0.21
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (49 bp):
GCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATAGCGGTGCCGAT
Found at i:20428043 original size:23 final size:23
Alignment explanation
Indices: 20427995--20428045 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
20427985 AAGTACAAAA
*
20427995 ATCA-TCAAGAAAAACCATTAAC
1 ATCACTCAAGAAAAACCATCAAC
* *
20428017 ATCACTCAAGAAAAACCATCCAG
1 ATCACTCAAGAAAAACCATCAAC
20428040 ATCACT
1 ATCACT
20428046 TACTTGTGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 4 0.16
23 21 0.84
ACGTcount: A:0.49, C:0.27, G:0.06, T:0.18
Consensus pattern (23 bp):
ATCACTCAAGAAAAACCATCAAC
Found at i:20430380 original size:32 final size:32
Alignment explanation
Indices: 20430339--20430403 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
20430329 GTCATAGAAC
20430339 TAAGTCCCTATACATGCCACTCACTTGATATT
1 TAAGTCCCTATACATGCCACTCACTTGATATT
20430371 TAAGTCCCTATACATGCCACTCACTTGATATT
1 TAAGTCCCTATACATGCCACTCACTTGATATT
20430403 T
1 T
20430404 CTAACATATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.28, C:0.28, G:0.09, T:0.35
Consensus pattern (32 bp):
TAAGTCCCTATACATGCCACTCACTTGATATT
Found at i:20431517 original size:50 final size:50
Alignment explanation
Indices: 20431396--20431746 Score: 355
Period size: 50 Copynumber: 7.0 Consensus size: 50
20431386 GTAACCGAAG
* * *
20431396 CTATCTAGTACGCATAGTAGCCTACACTTAGTACTACACATGTGACC-AA
1 CTATCTGGTACACGTAGTAGCCTACACTTAGTACTACACATGTGACCTAA
* ** *
20431445 CAATCTGGTACACGTAGTAGCCTATGCTTAGTATTACACATGTGACCTAA
1 CTATCTGGTACACGTAGTAGCCTACACTTAGTACTACACATGTGACCTAA
* * * * * *
20431495 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAA
1 CTATCTGGTACACGTAGTAGCCTACACTTAGTACTACACATGTGACCTAA
* * * * * * * *
20431545 GTTGTCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGATCTAA
1 -CTATCTGGTACACGTAGTAGCCTACACTTAGTACTACACATGTGACCTAA
* * * * *
20431596 CTATATGGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGA-TTGAA
1 CTATCTGGTACACGTAGTAGCCTACACTTAGTACTACACATGTGACCT-AA
* * * * * *
20431646 GTTGTCGGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCTAA
1 -CTATCTGGTACACGTAGTAGCCTACACTTAGTACTACACATGTGACCTAA
* *
20431697 CCATCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAA
1 CTATCTGGTACACGTAGTAGCCTACACTTAGTACTACACATGTGACCTAA
20431747 AATCATTTTA
Statistics
Matches: 242, Mismatches: 55, Indels: 9
0.79 0.18 0.03
Matches are distributed among these distances:
49 41 0.17
50 123 0.51
51 77 0.32
52 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.27
Consensus pattern (50 bp):
CTATCTGGTACACGTAGTAGCCTACACTTAGTACTACACATGTGACCTAA
Found at i:20431584 original size:101 final size:101
Alignment explanation
Indices: 20431410--20431741 Score: 452
Period size: 101 Copynumber: 3.3 Consensus size: 101
20431400 CTAGTACGCA
* * *** * * * **
20431410 TAGTAGCCTACACTTAGTACTACACATGTGA-CCAA-CAATCTGGTACACGTAGTAGCCTATGCT
1 TAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTGTCAGGTACGCATAGTAGCCTACACT
* * *
20431473 TAGTATTACACATGTGACCTAACCATCTGATACACG
66 TAGTACTACACATGCGACCTAACCATCTGGTACACG
* *
20431509 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTGTCAGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTGTCAGGTACGCATAGTAGCCTACACT
* * *
20431574 TAGTACTACACATGCGATCTAACTATATGGTACACG
66 TAGTACTACACATGCGACCTAACCATCTGGTACACG
* * * *
20431610 TAGTAGCTTGCACTTAGTACTACACACGTGATTGAAGTTGTCGGGTACGCATAGTAGCCTACACT
1 TAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTGTCAGGTACGCATAGTAGCCTACACT
20431675 TAGTACTACACATGCGACCTAACCATCTGGTACACG
66 TAGTACTACACATGCGACCTAACCATCTGGTACACG
20431711 TAGTAGCCTACACTTAGTACTACACACGTGA
1 TAGTAGCCTACACTTAGTACTACACACGTGA
20431742 CCTAAAATCA
Statistics
Matches: 204, Mismatches: 27, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
99 29 0.14
100 3 0.01
101 172 0.84
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.27
Consensus pattern (101 bp):
TAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTGTCAGGTACGCATAGTAGCCTACACT
TAGTACTACACATGCGACCTAACCATCTGGTACACG
Found at i:20431786 original size:52 final size:50
Alignment explanation
Indices: 20431398--20431787 Score: 300
Period size: 50 Copynumber: 7.7 Consensus size: 50
20431388 AACCGAAGCT
* * * *
20431398 ATCTAGTACGCATAGTAGCCTACACTTAGTACTACACATGTGACC-AACA
1 ATCTGGTACACATAGTAGCCTACACTTAGTACTACACACGCGACCTAACA
* ** * * * *
20431447 ATCTGGTACACGTAGTAGCCTATGCTTAGTATTACACATGTGACCTAACC
1 ATCTGGTACACATAGTAGCCTACACTTAGTACTACACACGCGACCTAACA
* * * * * * **
20431497 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTT
1 ATCTGGTACACATAGTAGCCTACACTTAGTACTACACACGCGACCTAA-CA
* * * * * * *
20431548 GTCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGATCTAACT
1 ATCTGGTACACATAGTAGCCTACACTTAGTACTACACACGCGACCTAACA
* * * * * * **
20431598 ATATGGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGA-TTGAAGTT
1 ATCTGGTACACATAGTAGCCTACACTTAGTACTACACACGCGACCT-AA-CA
* * * * *
20431649 GTCGGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCTAACC
1 ATCTGGTACACATAGTAGCCTACACTTAGTACTACACACGCGACCTAACA
* *
20431699 ATCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAA-A
1 ATCTGGTACACATAGTAGCCTACACTTAGTACTACACACGCGACCTAACA
** * *
20431748 ATCATTTTAAGCACATAGTAGCCTGCACATAGTACTACAC
1 ATC-TGGT-A-CACATAGTAGCCTACACTTAGTACTACAC
20431788 GTGTTCTCAC
Statistics
Matches: 273, Mismatches: 60, Indels: 13
0.79 0.17 0.04
Matches are distributed among these distances:
49 43 0.16
50 125 0.46
51 78 0.29
52 27 0.10
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.27
Consensus pattern (50 bp):
ATCTGGTACACATAGTAGCCTACACTTAGTACTACACACGCGACCTAACA
Found at i:20437264 original size:30 final size:30
Alignment explanation
Indices: 20437228--20437288 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
20437218 TCCTTAACTC
20437228 AAACTTTGGAAAATTTACAATTTTGCCCCT
1 AAACTTTGGAAAATTTACAATTTTGCCCCT
* * * *
20437258 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAATTTACAATTTTGCCCCT
20437288 A
1 A
20437289 GGCTCGGGAA
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:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (30 bp):
AAACTTTGGAAAATTTACAATTTTGCCCCT
Found at i:20439006 original size:21 final size:20
Alignment explanation
Indices: 20438982--20439021 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
20438972 TGAAATGTGT
20438982 GAATAT-ATATAAGCTATGGCC
1 GAATATGAT-TAAGCT-TGGCC
20439003 GAATATGATTAAGCTTGGC
1 GAATATGATTAAGCTTGGC
20439022 TATTATACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 12 0.67
22 2 0.11
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (20 bp):
GAATATGATTAAGCTTGGCC
Found at i:20448421 original size:12 final size:12
Alignment explanation
Indices: 20448406--20448456 Score: 68
Period size: 12 Copynumber: 4.2 Consensus size: 12
20448396 AATCCCAAAC
* *
20448406 AATTAAATACAT
1 AATTATATATAT
20448418 AATTATATATAT
1 AATTATATATAT
20448430 AATTATATATAT
1 AATTATATATAT
20448442 AATTAT-TCATAT
1 AATTATAT-ATAT
20448454 AAT
1 AAT
20448457 CAAGTCTCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
11 1 0.03
12 35 0.97
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (12 bp):
AATTATATATAT
Found at i:20474214 original size:39 final size:40
Alignment explanation
Indices: 20474137--20474243 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 40
20474127 TAGCTCCTCG
* * *
20474137 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATAGTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
* *
20474177 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
**
20474216 CACGAATGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
20474244 ATTAGTATCT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
39 25 0.43
40 33 0.57
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
Found at i:20474256 original size:40 final size:40
Alignment explanation
Indices: 20474180--20474323 Score: 125
Period size: 40 Copynumber: 3.6 Consensus size: 40
20474170 TAACTCATTC
* *
20474180 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACA
* *
20474220 AATGCCTTCGGGACTTAACCCGGA-ATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATATTA-AAACTCGCACA
* ** ** *
20474260 AAGGCCTTC-GGATCTTAGTCCGGATA-TAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGATATTA-AAAC-TCGCACA
*
20474301 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
20474324 CAGCATTCAA
Statistics
Matches: 88, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
39 6 0.07
40 70 0.80
41 12 0.14
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACA
Found at i:20482173 original size:39 final size:43
Alignment explanation
Indices: 20482096--20482204 Score: 122
Period size: 42 Copynumber: 2.6 Consensus size: 43
20482086 TAGCTCCTCG
* * *
20482096 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATAGTAACT-C-A-
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATAGAAACTCCGAC
*
20482136 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCGCGAC
1 TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTC-CGAC
20482179 TT-AATGCCTTCGGGACTTAACCCGGA
1 TTCAATGCCTTCGGGACTTAACCCGGA
20482205 ATTGTATCTC
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
39 23 0.38
40 9 0.15
41 1 0.02
42 25 0.42
43 2 0.03
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.28
Consensus pattern (43 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCCGAC
Found at i:20485923 original size:25 final size:25
Alignment explanation
Indices: 20485889--20485958 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
20485879 CTCTTTTAAT
*
20485889 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
20485914 AACTGGGGCAAAGCCCTTTTCGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
20485939 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
20485959 AGCACTTCCT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:20486883 original size:27 final size:27
Alignment explanation
Indices: 20486853--20486904 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
20486843 GTAAATCTAC
20486853 AAACCAAGGGTATTT-TAGTAATTTTGT
1 AAACCAAGGGTATTTCTA-TAATTTTGT
*
20486880 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAGGGTATTTCTATAATTTT
20486905 TAGAAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.42
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:20486966 original size:27 final size:27
Alignment explanation
Indices: 20486921--20487099 Score: 184
Period size: 27 Copynumber: 6.6 Consensus size: 27
20486911 TTTAACGGCC
* *
20486921 TTTCTGTAATTTT-CTAAATTAGGGGTA
1 TTTCGGTAATTTTAC-AAACTAGGGGTA
* *
20486948 TTTTGGTAATTTTACAAA-TTGAGGGTA
1 TTTCGGTAATTTTACAAACTAG-GGGTA
* *
20486975 TTTCGGTAATTTCACAAACTAGTGGTA
1 TTTCGGTAATTTTACAAACTAGGGGTA
20487002 TTTCGGTAATTTTACAAACTAGGGGTA
1 TTTCGGTAATTTTACAAACTAGGGGTA
* * *
20487029 TTTTGATAATTTTACACACTAGGGGTA
1 TTTCGGTAATTTTACAAACTAGGGGTA
* * *
20487056 TTTTGGTAATTCTATCATA-TAGGGGTA
1 TTTCGGTAATTTTA-CAAACTAGGGGTA
* *
20487083 TTTCAGTAATTTCACAA
1 TTTCGGTAATTTTACAA
20487100 TCGAGGGTAA
Statistics
Matches: 128, Mismatches: 20, Indels: 9
0.82 0.13 0.06
Matches are distributed among these distances:
26 4 0.03
27 118 0.92
28 6 0.05
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (27 bp):
TTTCGGTAATTTTACAAACTAGGGGTA
Found at i:20487083 original size:81 final size:81
Alignment explanation
Indices: 20486921--20487099 Score: 204
Period size: 81 Copynumber: 2.2 Consensus size: 81
20486911 TTTAACGGCC
* * * *
20486921 TTTCTGTAATTTT-CTAAATTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAAT
1 TTTCAGTAATTTTAC-AAACTAGGGGTATTTTGATAATTTTACAAATAGAGGGTATTTCGGTAAT
*
20486985 TTCACAAACTAGTGGTA
65 TTCACAAACTAGGGGTA
* * *
20487002 TTTCGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACACACTAG-GGGTATTTTGGTAA-
1 TTTCAGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACA-AATAGAGGGTATTTCGGTAAT
*
20487065 TTCTATCATA-TAGGGGTA
65 TTC-A-CAAACTAGGGGTA
*
20487083 TTTCAGTAATTTCACAA
1 TTTCAGTAATTTTACAA
20487100 TCGAGGGTAA
Statistics
Matches: 84, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
80 3 0.04
81 74 0.88
82 7 0.08
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (81 bp):
TTTCAGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAATAGAGGGTATTTCGGTAATT
TCACAAACTAGGGGTA
Found at i:20487132 original size:27 final size:27
Alignment explanation
Indices: 20487098--20487295 Score: 245
Period size: 27 Copynumber: 7.3 Consensus size: 27
20487088 GTAATTTCAC
*
20487098 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
20487125 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
20487152 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * * *
20487179 AATTGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
20487206 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * * * *
20487233 AATCGATGGTGAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * **
20487260 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTTTGTA
20487287 AATCGAGGG
1 AATCGAGGG
20487296 CATTTCAGTA
Statistics
Matches: 148, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 146 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:20487215 original size:81 final size:81
Alignment explanation
Indices: 20487098--20487295 Score: 272
Period size: 81 Copynumber: 2.4 Consensus size: 81
20487088 GTAATTTCAC
** * * *
20487098 AATCGAGGGTAAAACAGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGT
1 AATCGAGGGTAAAATGGTAATTCTATAAATC-GAGGGTAAAACGGTAATTTTGTAAATCGAGGGT
* * *
20487162 AAAACGGTAATTTTGTA
65 AAAACAGTAATTCTATA
* * *
20487179 AATTGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGATGGTG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTA
20487244 AAACAGTAATTCTATA
66 AAACAGTAATTCTATA
*
20487260 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGG
20487296 CATTTCAGTA
Statistics
Matches: 103, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
81 102 0.99
82 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTA
AAACAGTAATTCTATA
Found at i:20487307 original size:81 final size:81
Alignment explanation
Indices: 20487141--20487315 Score: 233
Period size: 81 Copynumber: 2.2 Consensus size: 81
20487131 GGGTAAAATG
* * * * *
20487141 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATTGAGGGTAAAATGGTAATTCTATA
1 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACA
* *
20487206 AATCGAGGGTAAAACG
66 AATCGAGGGCAAAACA
* *
20487222 GTAATTTTGTAAATCGATGGTGAAACAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACA
1 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACA
***
20487287 AATCGAGGGCATTTCA
66 AATCGAGGGCAAAACA
*
20487303 GTAATTTGGTAAA
1 GTAATTTTGTAAA
20487316 CTAAAGTATT
Statistics
Matches: 81, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (81 bp):
GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACA
AATCGAGGGCAAAACA
Found at i:20507914 original size:40 final size:40
Alignment explanation
Indices: 20507859--20508036 Score: 270
Period size: 40 Copynumber: 4.5 Consensus size: 40
20507849 CGGATGATAA
*
20507859 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
20507899 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
20507939 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
20507979 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
**
20508019 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
20508037 TACTTGGTTG
Statistics
Matches: 129, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 16 0.12
40 113 0.88
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:20516184 original size:39 final size:40
Alignment explanation
Indices: 20516007--20516174 Score: 277
Period size: 40 Copynumber: 4.2 Consensus size: 40
20515997 CAGATGATAA
*
20516007 CCGGGCTAAGTCCCGAAGGCATTTGTGCGATTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
*
20516047 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
20516087 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* *
20516127 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATTT
20516167 CC-GGCTAA
1 CCGGGCTAA
20516175 ACCCTGAAGG
Statistics
Matches: 122, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 8 0.07
40 114 0.93
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
Found at i:20531320 original size:24 final size:24
Alignment explanation
Indices: 20531269--20531329 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
20531259 AATATCCAAT
* * *
20531269 GCACTATGTGTGCGGTTTACTATG
1 GCACTATGTGTGCGGTGTAATATA
20531293 GCACTATGTGTGCGAGTGTAAT-TA
1 GCACTATGTGTGCG-GTGTAATATA
*
20531317 GCACTACGTGTGC
1 GCACTATGTGTGC
20531330 AGATTCGGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 27 0.84
25 5 0.16
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.33
Consensus pattern (24 bp):
GCACTATGTGTGCGGTGTAATATA
Found at i:20533169 original size:40 final size:40
Alignment explanation
Indices: 20533114--20533344 Score: 317
Period size: 40 Copynumber: 5.8 Consensus size: 40
20533104 CGGATGATAA
* * *
20533114 CGAAGGCATTTGTGCTAATGACTA-ATTCCAGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTGACTATA-TCCGGGCTAAGTCC
*
20533154 CGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTGACTATA-TCCGGGCTAAGTCC
* *
20533194 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAGGTCC
1 CGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCC
* *
20533234 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCAAAGTCC
1 CGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCC
20533274 CGAAGGCATTTGTGCGAGCT-ACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAG-TGACTATATCCGGGCTAAGTCC
*
20533314 CGAAGGCATTTGAGCGAGT-AGCTATATCCGG
1 CGAAGGCATTTGTGCGAGTGA-CTATATCCGG
20533345 TTAAATCCCA
Statistics
Matches: 179, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
39 2 0.01
40 175 0.98
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCC
Found at i:20541137 original size:47 final size:47
Alignment explanation
Indices: 20541083--20541276 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
20541073 TTAGGATTTT
** * *
20541083 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
20541130 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
20541177 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
20541224 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
20541271 ATGTGA
1 ATGTGA
20541277 AATATGTATG
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:20541183 original size:22 final size:22
Alignment explanation
Indices: 20541112--20541183 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
20541102 GTATATATGA
20541112 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
20541134 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
20541159 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
20541181 GAT
1 GAT
20541184 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:20541232 original size:25 final size:25
Alignment explanation
Indices: 20541157--20541232 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
20541147 ATGCATATAT
20541157 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
20541182 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
20541204 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
20541229 GTGA
1 GTGA
20541233 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:20541586 original size:37 final size:37
Alignment explanation
Indices: 20541478--20541586 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
20541468 GGAAATATAT
*
20541478 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
20541515 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
20541552 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
20541587 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:20543067 original size:119 final size:120
Alignment explanation
Indices: 20542856--20543126 Score: 472
Period size: 119 Copynumber: 2.3 Consensus size: 120
20542846 GAGAATTGAG
20542856 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
*
20542921 AAGAGCATTCGTGCTAGTGATATATCC-GGCTAAGTCCCGAAGAGGATTCGTGCT
66 AAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
20542975 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
* *
20543040 AAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
66 AAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
20543095 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
20543127 ATCATGCTGG
Statistics
Matches: 143, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
119 90 0.63
120 53 0.37
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (120 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
AAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:20543138 original size:40 final size:40
Alignment explanation
Indices: 20542856--20543126 Score: 472
Period size: 40 Copynumber: 6.8 Consensus size: 40
20542846 GAGAATTGAG
20542856 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
20542896 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
20542936 AGTGATATATCC-GGCTAAGTCCCGAAGAGGATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
20542975 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
20543015 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
20543055 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
20543095 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
20543127 ATCATGCTGG
Statistics
Matches: 219, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
39 37 0.17
40 182 0.83
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:20547193 original size:47 final size:47
Alignment explanation
Indices: 20547139--20547332 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
20547129 TTAGGATTTT
** * *
20547139 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
20547186 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
20547233 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
20547280 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
20547327 ATGTGA
1 ATGTGA
20547333 AATATGTATG
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:20547239 original size:22 final size:22
Alignment explanation
Indices: 20547168--20547239 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
20547158 GTATATATGA
20547168 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
20547190 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
20547215 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
20547237 GAT
1 GAT
20547240 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:20547288 original size:25 final size:25
Alignment explanation
Indices: 20547213--20547288 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
20547203 ATGCATATAT
20547213 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
20547238 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
20547260 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
20547285 GTGA
1 GTGA
20547289 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:20547642 original size:37 final size:37
Alignment explanation
Indices: 20547534--20547642 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
20547524 GGAAATATAT
*
20547534 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
20547571 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
20547608 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
20547643 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:20549305 original size:53 final size:53
Alignment explanation
Indices: 20549126--20549329 Score: 192
Period size: 53 Copynumber: 3.8 Consensus size: 53
20549116 AGGGTTTAAG
* * * * * *
20549126 GATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGCAAA
* * ** * ** * * *
20549180 GAAATCATGTAAGACCATGTTAAGACATGGCATTTATAAACTATGATAAGGGAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGT-TCATAAGGCAAA
* * * *
20549235 GATCCCATGTAAGACCATGTCAAGGCATGGCAATGGTGAGTTCATAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAA
*
20549288 GATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
20549330 TAAAAAGTAA
Statistics
Matches: 118, Mismatches: 30, Indels: 5
0.77 0.20 0.03
Matches are distributed among these distances:
53 47 0.40
54 32 0.27
55 39 0.33
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (53 bp):
GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAA
Found at i:20553955 original size:18 final size:18
Alignment explanation
Indices: 20553932--20553995 Score: 67
Period size: 18 Copynumber: 3.5 Consensus size: 18
20553922 TGTAACTTAG
20553932 AAAAATTTTCATGTTTTC
1 AAAAATTTTCATGTTTTC
* **
20553950 AAAAA-TTTCAATCGGTTAG
1 AAAAATTTTC-AT-GTTTTC
20553969 AAAAATTTTCATGTTTTC
1 AAAAATTTTCATGTTTTC
*
20553987 GAAAATTTT
1 AAAAATTTT
20553996 GATTGGTTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
17 4 0.11
18 18 0.50
19 10 0.28
20 4 0.11
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (18 bp):
AAAAATTTTCATGTTTTC
Found at i:20565954 original size:40 final size:40
Alignment explanation
Indices: 20565882--20566066 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
20565872 GCAACTCGTT
* *
20565882 CAAATGCCTTCGGGACATAGCCCAG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
20565922 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
20565962 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
20566001 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
20566042 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
20566067 CATCATTCGA
Statistics
Matches: 127, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.26
40 79 0.62
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:20565993 original size:79 final size:81
Alignment explanation
Indices: 20565884--20566066 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
20565874 AACTCGTTCA
* * *
20565884 AATGCCTTCGGGACATAGCCCAG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
20565947 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
20565964 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
20566027 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
20566043 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
20566067 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:20568074 original size:40 final size:40
Alignment explanation
Indices: 20568024--20568214 Score: 176
Period size: 40 Copynumber: 4.8 Consensus size: 40
20568014 TAACCACAAG
* * *
20568024 CACAATTGCCTTCGGGTCTTAACCTGGGTATAGT-AACTCA
1 CACAAATGCCTTCGGGTCTTAACCCGGATATA-TCAACTCA
* *
20568064 CACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
1 CACAAATGCCTTCGGGTCTTAACCCGGATATATCAACTCA
* *
20568104 CACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACT-A
1 CACAAATGCCTTCGGGTCTTAACCCGGAT-ATATCAACTCA
* * * *
20568143 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACT-A
1 -CACAAATGCCTTCGGGTCTTAACCCGGAT-ATATCAACTCA
* * *
20568183 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 -CACAAATGCCTTCGGGTCTTAACCCGGATAT
20568215 CATTCAAATG
Statistics
Matches: 138, Mismatches: 10, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
39 2 0.01
40 132 0.96
41 4 0.03
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
CACAAATGCCTTCGGGTCTTAACCCGGATATATCAACTCA
Found at i:20568151 original size:80 final size:80
Alignment explanation
Indices: 20568022--20568213 Score: 235
Period size: 80 Copynumber: 2.4 Consensus size: 80
20568012 TATAACCACA
* * * * * * *
20568022 AGCACAATTGCCTTCGGGTCTTAACCTGGGTATAGTAACTCACACAAATGCCTTCGGGTCTTAGC
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACTCACACAAATGCCTTCGGGACTTAGC
*
20568087 CCGGAT-ATATCAACT
66 CCGGATAAAATC-ACT
* * *
20568102 CGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT-AGCATAAATGCCTTCGGGACTTAG
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACTCA-CACAAATGCCTTCGGGACTTAG
20568166 CCCGGATAAAATCACT
65 CCCGGATAAAATCACT
* *
20568182 AGCATAAATGCCTTCGGGACTTAGCCCGGATA
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATA
20568214 TCATTCAAAT
Statistics
Matches: 96, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
79 1 0.01
80 91 0.95
81 4 0.04
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACTCACACAAATGCCTTCGGGACTTAGC
CCGGATAAAATCACT
Found at i:20577479 original size:79 final size:81
Alignment explanation
Indices: 20577370--20577552 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
20577360 TACTCGTTCA
* *
20577370 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
20577433 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
20577450 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
20577513 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
20577529 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
20577553 CATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 60 0.66
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:20577552 original size:40 final size:40
Alignment explanation
Indices: 20577349--20577552 Score: 247
Period size: 40 Copynumber: 5.1 Consensus size: 40
20577339 CGGAATTTAA
** *
20577349 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
20577389 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
20577429 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
20577468 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
20577508 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
20577548 CCGGA
1 CCGGA
20577553 CATCATTCGA
Statistics
Matches: 142, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 95 0.67
41 12 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:20582664 original size:29 final size:29
Alignment explanation
Indices: 20582632--20582687 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
20582622 AAATGGGCCC
*
20582632 TCTTCTCACAATGTTGAAGTTGCAAAGGT
1 TCTTCCCACAATGTTGAAGTTGCAAAGGT
* *
20582661 TCTTCCCACCATGTTGATGTTGCAAAG
1 TCTTCCCACAATGTTGAAGTTGCAAAG
20582688 TTCAAACTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (29 bp):
TCTTCCCACAATGTTGAAGTTGCAAAGGT
Found at i:20586163 original size:21 final size:22
Alignment explanation
Indices: 20586134--20586180 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
20586124 CAGAAGGAGT
*
20586134 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
20586156 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
20586177 GAGT
1 GAGT
20586181 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:20587857 original size:7 final size:7
Alignment explanation
Indices: 20587847--20587874 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
20587837 TTAATAAGAC
20587847 ATAAATA
1 ATAAATA
20587854 ATAAATA
1 ATAAATA
20587861 ATAAATA
1 ATAAATA
20587868 ATAAATA
1 ATAAATA
20587875 GGGCCAAGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
ATAAATA
Found at i:20589533 original size:34 final size:35
Alignment explanation
Indices: 20589488--20589563 Score: 127
Period size: 34 Copynumber: 2.2 Consensus size: 35
20589478 CTAATAATTT
*
20589488 TTTTTACATATTTACTTTAAATCG-AAAAAAAATA
1 TTTTTAAATATTTACTTTAAATCGAAAAAAAAATA
20589522 TTTTTAAATATTTACTTTAAATCGAAAAAAAAATA
1 TTTTTAAATATTTACTTTAAATCGAAAAAAAAATA
*
20589557 TGTTTAA
1 TTTTTAA
20589564 CGCATTTCAA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
34 23 0.59
35 16 0.41
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (35 bp):
TTTTTAAATATTTACTTTAAATCGAAAAAAAAATA
Found at i:20591106 original size:27 final size:27
Alignment explanation
Indices: 20591068--20591124 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
20591058 AAGATAGACA
20591068 AAGATGCACTAACTGATTTTTCTGTCT
1 AAGATGCACTAACTGATTTTTCTGTCT
20591095 AAGATGCACTAACTGATTTTTCTGTCT
1 AAGATGCACTAACTGATTTTTCTGTCT
20591122 AAG
1 AAG
20591125 TACTCAAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.39
Consensus pattern (27 bp):
AAGATGCACTAACTGATTTTTCTGTCT
Done.