Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 145 of 325
Found at i:44297935 original size:26 final size:26
Alignment explanation
Indices: 44297904--44297963 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
44297894 ATTTAGTAAA
** *
44297904 ATACCCCTAAGTATGAAATTACTATT
1 ATACCCCTAAGTACAAAATTACCATT
* *
44297930 ATA-CCCTAGGTGCAAAATTACCATT
1 ATACCCCTAAGTACAAAATTACCATT
44297955 ATACCCCTA
1 ATACCCCTA
44297964 GGGTTAATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
25 20 0.71
26 8 0.29
ACGTcount: A:0.37, C:0.25, G:0.08, T:0.30
Consensus pattern (26 bp):
ATACCCCTAAGTACAAAATTACCATT
Found at i:44298103 original size:27 final size:26
Alignment explanation
Indices: 44298065--44298151 Score: 120
Period size: 27 Copynumber: 3.3 Consensus size: 26
44298055 TGGAGGAAGC
44298065 GTTCTGGTGGCTCTGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
*
44298092 GTTCTAGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
44298118 GTATCTGGTGACTTTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
44298145 GTTCTGG
1 GTTCTGG
44298152 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
26 14 0.26
27 40 0.74
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:44313092 original size:40 final size:41
Alignment explanation
Indices: 44313040--44313149 Score: 136
Period size: 40 Copynumber: 2.7 Consensus size: 41
44313030 ACAATAACTC
* * *
44313040 GCACGAATGCCTTCGGGACTCAACCCGGATTTAGTAGCTT-
1 GCACGAAAGCCTTCGGGACTTAGCCCGGATTTAGTAGCTTA
* * *
44313080 GCTCGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTCGCTTA
1 GCACGAAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAGCTTA
44313121 GCAC-AAAGCCTTCGGGACTTAGCCCGGAT
1 GCACGAAAGCCTTCGGGACTTAGCCCGGAT
44313150 ATCATTCGAA
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
39 3 0.05
40 50 0.85
41 6 0.10
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.25
Consensus pattern (41 bp):
GCACGAAAGCCTTCGGGACTTAGCCCGGATTTAGTAGCTTA
Found at i:44316142 original size:40 final size:40
Alignment explanation
Indices: 44316087--44316296 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
44316077 AACATTGGAA
44316087 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
44316127 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
44316167 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
44316207 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
44316246 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
44316287 CTATATCCGG
1 ATATATCCGG
44316297 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:44323061 original size:40 final size:40
Alignment explanation
Indices: 44322991--44323168 Score: 200
Period size: 40 Copynumber: 4.5 Consensus size: 40
44322981 CCGCACCAAG
* * * *
44322991 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATCACGACTTGCACAAAT
44323031 GCCTTCGGGTCTTAGCCCGGATATCACGA-TTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATCACGACTTGCACAAAT
** * * *
44323070 GCCTTC-GGTCTTAGCCCGGATAGAATGACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATCACGACTTGCACAAAT
* * * *
44323109 GCCTTCGGGTCTTAGCCCGGATGT-AGCCACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATCA-CGACTTGCACAAAT
*
44323149 GCCTTCGGGTCTTAACCCGG
1 GCCTTCGGGTCTTAGCCCGG
44323169 TTATAATTTC
Statistics
Matches: 119, Mismatches: 16, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
38 19 0.16
39 31 0.26
40 69 0.58
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.24
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATCACGACTTGCACAAAT
Found at i:44331256 original size:40 final size:38
Alignment explanation
Indices: 44331198--44331303 Score: 133
Period size: 40 Copynumber: 2.7 Consensus size: 38
44331188 CCCGGATTGT
*
44331198 CACAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTCG
1 CACAATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTAG
*
44331237 CACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAG
1 CAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTAG
*
44331277 CACAATTGCCTTCGGGTCTTAACCCGG
1 CACAA-TGCCTTCGGGTCTTAGCCCGG
44331304 TTATAATTTC
Statistics
Matches: 60, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
38 1 0.02
39 7 0.12
40 52 0.87
ACGTcount: A:0.21, C:0.30, G:0.25, T:0.24
Consensus pattern (38 bp):
CACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTAG
Found at i:44333548 original size:40 final size:40
Alignment explanation
Indices: 44333440--44333649 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
44333430 CGGGATTTAA
* * * * *
44333440 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
44333480 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
44333520 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
44333560 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
44333600 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
44333640 CCGGATATAT
1 CCGGATATAT
44333650 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:44337549 original size:40 final size:40
Alignment explanation
Indices: 44337483--44337633 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
44337473 AAATTGAATG
* * *
44337483 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
44337522 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
44337562 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
44337602 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
44337634 ACGTGTTATA
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:44345514 original size:122 final size:120
Alignment explanation
Indices: 44345298--44345515 Score: 287
Period size: 122 Copynumber: 1.8 Consensus size: 120
44345288 AATTATGTGG
* * * *
44345298 AATGAAATATGGATGTATTGATTATTGATTTATGTGTGTATGAGTATTCGAATATACCCGGGCTA
1 AATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATATACCCGGGCTA
* * **
44345363 AGTCCCGAAGGCGATTATGCTAGTGATTATAATGTGTTTGAGCCTTAGTAACGAA
66 AGTCCCGAAGACAATTATGCTAGAAATTATAATGTGTTTGAGCCTTAGTAACGAA
* *
44345418 AATGAAATATGTATGTCCAATGATTATTGATGTATGTGTGCATGAGAAATT-GAATGATATCCGG
1 AATGAAATATGGATGT--AATGATTATTGATGTATGTGTGCATGAG-AATTCGAAT-ATACCCGG
*
44345482 GCTAAG-CCCGAAGACAATTATGCTGGAAATTATA
62 GCTAAGTCCCGAAGACAATTATGCTAGAAATTATA
44345516 TCCGGGTTAA
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
120 15 0.18
122 52 0.63
123 16 0.19
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (120 bp):
AATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATATACCCGGGCTA
AGTCCCGAAGACAATTATGCTAGAAATTATAATGTGTTTGAGCCTTAGTAACGAA
Found at i:44345540 original size:40 final size:40
Alignment explanation
Indices: 44345474--44345624 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
44345464 AAATTGAATG
* *
44345474 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* * ****
44345513 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* *
44345553 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
44345593 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
44345625 ACGTGGTTAT
Statistics
Matches: 90, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
39 16 0.18
40 72 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:44345638 original size:40 final size:40
Alignment explanation
Indices: 44345511--44345640 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
44345501 ATGCTGGAAA
* * *
44345511 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
44345551 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
44345591 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
44345631 TTATATCCGG
1 TTATATCCGG
44345641 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:44345639 original size:80 final size:79
Alignment explanation
Indices: 44345474--44345640 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
44345464 AAATTGAATG
*
44345474 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
44345539 TTGTGCTAGTGGCT
66 TTGTGCTAGTGGCT
* * * * *
44345553 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAG-CCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
44345616 CATTTGTGC-ACGTGGTT
63 CAATTGTGCTA-GTGGCT
44345633 ATATCCGG
1 ATATCCGG
44345641 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
79 18 0.24
80 57 0.76
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (79 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCTAGTGGCT
Found at i:44353140 original size:16 final size:16
Alignment explanation
Indices: 44353082--44353152 Score: 70
Period size: 16 Copynumber: 4.4 Consensus size: 16
44353072 GTAGATCGGC
*
44353082 AAAACCCAAAATGCCG
1 AAAAGCCAAAATGCCG
* ** *
44353098 AAGAGCTGAAATACCG
1 AAAAGCCAAAATGCCG
**
44353114 AAAAGTAAAAATGCCG
1 AAAAGCCAAAATGCCG
*
44353130 AAAAGCCAAAACGCCG
1 AAAAGCCAAAATGCCG
44353146 AAAAGCC
1 AAAAGCC
44353153 GAAAGTCTGG
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
16 42 1.00
ACGTcount: A:0.51, C:0.24, G:0.18, T:0.07
Consensus pattern (16 bp):
AAAAGCCAAAATGCCG
Found at i:44353410 original size:29 final size:29
Alignment explanation
Indices: 44353367--44353467 Score: 114
Period size: 29 Copynumber: 3.5 Consensus size: 29
44353357 GAATGCATGT
*
44353367 ATATGAATGTTATTTGAGT-CTAATGGGCC
1 ATATGAATGTGATTTG-GTCCTAATGGGCC
*
44353396 GTATGAATGTGATTTGGTCCTAATGGGCC
1 ATATGAATGTGATTTGGTCCTAATGGGCC
* * * *
44353425 ATACGAATATGATTTGGCCCTAATAGGCC
1 ATATGAATGTGATTTGGTCCTAATGGGCC
* *
44353454 ATGTGAATGAGATT
1 ATATGAATGTGATT
44353468 AGGCCTCGTG
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
28 2 0.03
29 58 0.97
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.34
Consensus pattern (29 bp):
ATATGAATGTGATTTGGTCCTAATGGGCC
Found at i:44358035 original size:29 final size:29
Alignment explanation
Indices: 44357969--44358059 Score: 112
Period size: 29 Copynumber: 3.2 Consensus size: 29
44357959 GAAAGCATGT
* *
44357969 ATATGAATGTGATTTGGGCCTAATGGGTC
1 ATATGAATATGATTTGGGCCTAATGGGCC
** *
44357998 ATACAAATATGATTTGGGCCAAATGGGCC
1 ATATGAATATGATTTGGGCCTAATGGGCC
* *
44358027 ATATGAATAAGA-TTGGGCCTAGTGGGCC
1 ATATGAATATGATTTGGGCCTAATGGGCC
44358055 ATATG
1 ATATG
44358060 CATGTATGTG
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
28 19 0.37
29 33 0.63
ACGTcount: A:0.30, C:0.13, G:0.29, T:0.29
Consensus pattern (29 bp):
ATATGAATATGATTTGGGCCTAATGGGCC
Found at i:44363405 original size:40 final size:40
Alignment explanation
Indices: 44363346--44363514 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
44363336 CGGGACTTTA
* * *
44363346 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
44363386 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
44363426 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
44363466 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
44363506 CCCGGATAT
1 CCCGGATAT
44363515 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:44365808 original size:93 final size:93
Alignment explanation
Indices: 44365696--44365867 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
44365686 CGCCCATAAG
* *
44365696 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
44365761 ACGAGCTCGGATGCCTAGTTACATTTCA
66 ACGAGCTCGGATGCCTAGTTACATTTCA
* *
44365789 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
44365854 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
44365868 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATTTCA
Found at i:44365864 original size:46 final size:46
Alignment explanation
Indices: 44365689--44365864 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
44365679 TGTAACCCGC
* *
44365689 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
44365735 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* * *
44365785 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
44365828 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
44365865 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 63 0.59
47 27 0.25
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:44366319 original size:30 final size:30
Alignment explanation
Indices: 44366285--44366344 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
44366275 ATTTAATACG
*
44366285 AACTTTGGAAAAATTACACTTTTTCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
44366315 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
44366345 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:44367310 original size:23 final size:22
Alignment explanation
Indices: 44367234--44367319 Score: 84
Period size: 23 Copynumber: 3.7 Consensus size: 22
44367224 GATATATGAA
*
44367234 TCATAAGAGCTTTCTGTTCTCAGC
1 TCAT-AGAGCTTACTGTT-TCAGC
*
44367258 TCATATGAGCTTACTG-TTCATC
1 TCATA-GAGCTTACTGTTTCAGC
* *
44367280 TCGTTAGAGCTTACCGTTTCAGC
1 TC-ATAGAGCTTACTGTTTCAGC
44367303 TCAATAGAGCTTACTGT
1 TC-ATAGAGCTTACTGT
44367320 CCATCAGTTC
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
22 15 0.29
23 23 0.45
24 13 0.25
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.37
Consensus pattern (22 bp):
TCATAGAGCTTACTGTTTCAGC
Found at i:44370749 original size:46 final size:46
Alignment explanation
Indices: 44370699--44370874 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
44370689 TATTTGGGCA
44370699 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
44370745 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
44370792 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
44370838 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44370875 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:44370854 original size:93 final size:93
Alignment explanation
Indices: 44370695--44370866 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
44370685 TGGATATTTG
* *
44370695 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
44370760 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
44370788 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
44370853 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
44370867 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:44373845 original size:15 final size:15
Alignment explanation
Indices: 44373825--44373893 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
44373815 GTATCTTGGG
44373825 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
44373840 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
44373855 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
44373870 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
44373885 TTTCTTTAT
1 TTTCTTTAT
44373894 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:44373894 original size:30 final size:30
Alignment explanation
Indices: 44373816--44373903 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
44373806 CATAGTATCG
* * * *
44373816 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
44373846 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
44373876 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
44373904 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:44376340 original size:46 final size:46
Alignment explanation
Indices: 44376287--44376462 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
44376277 TATTTGGGCA
44376287 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
44376333 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
44376380 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
44376426 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44376463 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:44376442 original size:93 final size:93
Alignment explanation
Indices: 44376283--44376454 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
44376273 GGGATATTTG
* *
44376283 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
44376348 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
44376376 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
44376441 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
44376455 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:44385456 original size:18 final size:17
Alignment explanation
Indices: 44385433--44385467 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
44385423 ATTGGGTCGA
44385433 AATGGGCCATGTGGGCCC
1 AATGGG-CATGTGGGCCC
*
44385451 AATGGGCTTGTGGGCCC
1 AATGGGCATGTGGGCCC
44385468 CACACAGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.14, C:0.26, G:0.40, T:0.20
Consensus pattern (17 bp):
AATGGGCATGTGGGCCC
Found at i:44385725 original size:27 final size:27
Alignment explanation
Indices: 44385686--44385757 Score: 108
Period size: 27 Copynumber: 2.7 Consensus size: 27
44385676 CTGAACTGAA
*
44385686 ACCCCTATAGGGTAAAATGATCGTAAT
1 ACCCCTATAGGGTAAAATGACCGTAAT
*
44385713 GCCCCTATAGGGTAAAATGACCGTAAT
1 ACCCCTATAGGGTAAAATGACCGTAAT
* *
44385740 ATCCCTATATGGTAAAAT
1 ACCCCTATAGGGTAAAAT
44385758 AACGATTATG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.26
Consensus pattern (27 bp):
ACCCCTATAGGGTAAAATGACCGTAAT
Found at i:44385974 original size:54 final size:53
Alignment explanation
Indices: 44385893--44385996 Score: 129
Period size: 54 Copynumber: 1.9 Consensus size: 53
44385883 GATATAGAGG
* **
44385893 AATTACTGTACTGGTGACTATGTCACATTCACTGTTACTGGTGGCTATGCCAC
1 AATTACTGTACTGGTGACTATGCCACATTCACTGTTACTGGCAGCTATGCCAC
* * *
44385946 AATTACTGATACTGGT-AGCTTTGCCACATTTACTGTTTCTGGCAGCTATGC
1 AATTACTG-TACTGGTGA-CTATGCCACATTCACTGTTACTGGCAGCTATGC
44385997 TGCATTATTA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
53 9 0.21
54 34 0.79
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (53 bp):
AATTACTGTACTGGTGACTATGCCACATTCACTGTTACTGGCAGCTATGCCAC
Found at i:44385992 original size:27 final size:27
Alignment explanation
Indices: 44385895--44385996 Score: 109
Period size: 27 Copynumber: 3.8 Consensus size: 27
44385885 TATAGAGGAA
*
44385895 TTACTG-TACTGGT-GACTATGTCACAT
1 TTACTGTTACTGGTAG-CTATGCCACAT
* * *
44385921 TCACTGTTACTGGTGGCTATGCCACAA
1 TTACTGTTACTGGTAGCTATGCCACAT
* *
44385948 TTACTGATACTGGTAGCTTTGCCACAT
1 TTACTGTTACTGGTAGCTATGCCACAT
* *
44385975 TTACTGTTTCTGGCAGCTATGC
1 TTACTGTTACTGGTAGCTATGC
44385997 TGCATTATTA
Statistics
Matches: 62, Mismatches: 12, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
26 5 0.08
27 56 0.90
28 1 0.02
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (27 bp):
TTACTGTTACTGGTAGCTATGCCACAT
Found at i:44390086 original size:28 final size:28
Alignment explanation
Indices: 44390021--44390121 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
44390011 ATAGTGAATC
*
44390021 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
44390050 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
44390078 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
44390108 CGCACACTTAGTGC
1 CGCACACTTAGTGC
44390122 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:44391990 original size:39 final size:36
Alignment explanation
Indices: 44391932--44392027 Score: 106
Period size: 34 Copynumber: 2.6 Consensus size: 36
44391922 AAATGGTTTG
* * *
44391932 GGCCTAAGCCCGTTTCAATAACAGTCTAGTATCAGTGTA
1 GGCCTTAGCCCATTACAATAACA--C-AGTATCAGTGTA
*
44391971 GGCCTTAGCCCATTACAAT-A-ACAGTATCAGTGTG
1 GGCCTTAGCCCATTACAATAACACAGTATCAGTGTA
*
44392005 GGCCTTAGCCCATTACAGTAACA
1 GGCCTTAGCCCATTACAATAACA
44392028 ATAACAGAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
34 29 0.58
35 2 0.04
36 1 0.02
37 1 0.02
38 1 0.02
39 16 0.32
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (36 bp):
GGCCTTAGCCCATTACAATAACACAGTATCAGTGTA
Found at i:44392002 original size:34 final size:34
Alignment explanation
Indices: 44391959--44392027 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
44391949 ATAACAGTCT
44391959 AGTATCAGTGTAGGCCTTAGCCCATTACAATAAC
1 AGTATCAGTGTAGGCCTTAGCCCATTACAATAAC
* *
44391993 AGTATCAGTGTGGGCCTTAGCCCATTACAGTAAC
1 AGTATCAGTGTAGGCCTTAGCCCATTACAATAAC
44392027 A
1 A
44392028 ATAACAGAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.26
Consensus pattern (34 bp):
AGTATCAGTGTAGGCCTTAGCCCATTACAATAAC
Found at i:44399075 original size:27 final size:27
Alignment explanation
Indices: 44399045--44399098 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
44399035 ATGACCAAAA
*
44399045 TACCCCTATAGGGTAAAATGACT-ATTT
1 TACCCCTAGAGGGT-AAATGACTGATTT
*
44399072 TACCCCTCGAGGGTAAATGACTGATTT
1 TACCCCTAGAGGGTAAATGACTGATTT
44399099 GTGCTATGAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (27 bp):
TACCCCTAGAGGGTAAATGACTGATTT
Found at i:44401384 original size:17 final size:17
Alignment explanation
Indices: 44401357--44401394 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
44401347 CTGGTGCTCA
44401357 TTATCGTATT-ACACTT
1 TTATCGTATTAACACTT
*
44401373 TTATCTGTATTAACAGTT
1 TTATC-GTATTAACACTT
44401391 TTAT
1 TTAT
44401395 GCATCAGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 5 0.26
17 5 0.26
18 9 0.47
ACGTcount: A:0.26, C:0.13, G:0.08, T:0.53
Consensus pattern (17 bp):
TTATCGTATTAACACTT
Found at i:44402367 original size:39 final size:36
Alignment explanation
Indices: 44402307--44402404 Score: 101
Period size: 34 Copynumber: 2.7 Consensus size: 36
44402297 AAAAATGGTT
* * *
44402307 TGGGCCTAAGCCCGTTTCAGTAACAGTCCAGTATCAATG
1 TGGGCCTTAGCCCATTACAGTAACA-T--AGTATCAATG
**
44402346 TGGGCCTTAGCCCATTACAGT-A-ATAGTATCCGTG
1 TGGGCCTTAGCCCATTACAGTAACATAGTATCAATG
*
44402380 TGGGCCTTAGCACATTACAGTAACA
1 TGGGCCTTAGCCCATTACAGTAACA
44402405 ATAACAGAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
34 28 0.55
35 1 0.02
36 2 0.04
37 1 0.02
38 1 0.02
39 18 0.35
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (36 bp):
TGGGCCTTAGCCCATTACAGTAACATAGTATCAATG
Found at i:44402374 original size:34 final size:34
Alignment explanation
Indices: 44402336--44402402 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
44402326 GTAACAGTCC
*
44402336 AGTATCAATGTGGGCCTTAGCCCATTACAGTAAT
1 AGTATCAATGTGGGCCTTAGCACATTACAGTAAT
**
44402370 AGTATCCGTGTGGGCCTTAGCACATTACAGTAA
1 AGTATCAATGTGGGCCTTAGCACATTACAGTAA
44402403 CAATAACAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (34 bp):
AGTATCAATGTGGGCCTTAGCACATTACAGTAAT
Found at i:44409125 original size:12 final size:13
Alignment explanation
Indices: 44409108--44409135 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
44409098 TATGGAATGA
44409108 TTTTTTGAAAATT
1 TTTTTTGAAAATT
44409121 TTTTTTGAAAATT
1 TTTTTTGAAAATT
44409134 TT
1 TT
44409136 GACATTTGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (13 bp):
TTTTTTGAAAATT
Found at i:44411598 original size:45 final size:45
Alignment explanation
Indices: 44411542--44411629 Score: 131
Period size: 45 Copynumber: 2.0 Consensus size: 45
44411532 GAACTATGTT
* *
44411542 ATCTAAACTCATTAAGTTGTGGTCTGAGTTCATGATATATGTGAC
1 ATCTAAACTCATTAAGTTGTGGCCTGAGTTCATAATATATGTGAC
* * *
44411587 ATCTGAACTCATTGAGTTGTGGCCTGAGTTCATAATGTATGTG
1 ATCTAAACTCATTAAGTTGTGGCCTGAGTTCATAATATATGTG
44411630 GCACATGTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.38
Consensus pattern (45 bp):
ATCTAAACTCATTAAGTTGTGGCCTGAGTTCATAATATATGTGAC
Found at i:44413505 original size:42 final size:42
Alignment explanation
Indices: 44413394--44413505 Score: 163
Period size: 42 Copynumber: 2.7 Consensus size: 42
44413384 GATGTTACAT
* * *
44413394 TGAGA-TTATGTGTAAGACTATATCTGGAATATGGCATCTATA
1 TGAGACTTA-GTGTAAGACCATATCTGGGATATGGCATCGATA
44413436 TGAGACTTAGTGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGACTTAGTGTAAGACCATATCTGGGATATGGCATCGATA
* *
44413478 TGAGACTTCGTGTAAGACCATAGCTGGG
1 TGAGACTTAGTGTAAGACCATATCTGGG
44413506 CTATTGGTGT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
42 61 0.95
43 3 0.05
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.30
Consensus pattern (42 bp):
TGAGACTTAGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:44416559 original size:37 final size:37
Alignment explanation
Indices: 44416501--44416574 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
44416491 TGTATGTTAG
*
44416501 TTTACGTTTAAGCCTGATAATGCCTTGAACCCTGTCC
1 TTTACGTTTAAGCCTGATAATGCCTCGAACCCTGTCC
* *
44416538 TTTACGTTTAAGCTTGGTAATGCCTCGAACCCTGTCC
1 TTTACGTTTAAGCCTGATAATGCCTCGAACCCTGTCC
44416575 CAGCGTCGGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (37 bp):
TTTACGTTTAAGCCTGATAATGCCTCGAACCCTGTCC
Found at i:44418751 original size:57 final size:57
Alignment explanation
Indices: 44418651--44418814 Score: 249
Period size: 57 Copynumber: 2.9 Consensus size: 57
44418641 CGATATAATA
* **
44418651 CCTCTGGAGCATACATTATGAT-TAGGATTTAGATTGGACTGGTAATCCTAATCGAGCT
1 CCTCT-GAGCATACATTAT-ATAAAGGATTTAGCCTGGACTGGTAATCCTAATCGAGCT
* * *
44418709 CCTCTGAGCATACATTATATAAAGGAGTTAGCCTGGATTGGTAATTCTAATCGAGCT
1 CCTCTGAGCATACATTATATAAAGGATTTAGCCTGGACTGGTAATCCTAATCGAGCT
44418766 CCTCTGAGCATACATTATATAAAGGATTTAGCCTGGACTGGTAATCCTA
1 CCTCTGAGCATACATTATATAAAGGATTTAGCCTGGACTGGTAATCCTA
44418815 TTATACGATA
Statistics
Matches: 96, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
56 2 0.02
57 89 0.93
58 5 0.05
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (57 bp):
CCTCTGAGCATACATTATATAAAGGATTTAGCCTGGACTGGTAATCCTAATCGAGCT
Found at i:44426054 original size:20 final size:21
Alignment explanation
Indices: 44426029--44426067 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
44426019 TCCTTAAAAC
44426029 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
44426049 AGGGCAACACGCCCGTGTG
1 AGGGCAACACGCCCGTGTG
44426068 ACCAACTCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.21, C:0.31, G:0.38, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:44427253 original size:47 final size:47
Alignment explanation
Indices: 44427182--44427444 Score: 234
Period size: 47 Copynumber: 5.6 Consensus size: 47
44427172 GTAAGGTTCT
*
44427182 GATGCCATGTCCCAGACATAGTCTTACACTGGCTCAT-ATCTC-AAGTC
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCT-ATCATCTCGAAGCC
* * *
44427229 GATGCCATGTCCTAGACATGGTCTTACACTGACTATCATCTCGTAGCC
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCTATCATCTCGAAGCC
* * *
44427277 GGTG-CATGTCCCAGACATGTCTTACACTGGCT-TACGTCTCGAGGCC
1 GATGCCATGTCCCAGACATGTCTTACACTGGCTAT-CATCTCGAAGCC
* * * * *
44427323 GATG-CATGTCCTAGACATGTCTTACACTAGCTTTCGTCTC-AATGTC
1 GATGCCATGTCCCAGACATGTCTTACACTGGCTATCATCTCGAA-GCC
* * * * ** ** *
44427369 GATGCCTTGTCCCAGACATGGCCTTACATTGGCTCTCATAACGTGGCT
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCTATCATCTCGAAGCC
44427417 GATG-CATGTCCCAGACATGTCTTACACT
1 GATGCCATGTCCCAGACATGTCTTACACT
44427445 AGCCAAATAA
Statistics
Matches: 176, Mismatches: 32, Indels: 17
0.78 0.14 0.08
Matches are distributed among these distances:
45 2 0.01
46 73 0.41
47 75 0.43
48 26 0.15
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGTCTTACACTGGCTATCATCTCGAAGCC
Found at i:44427439 original size:140 final size:141
Alignment explanation
Indices: 44427182--44427444 Score: 352
Period size: 140 Copynumber: 1.9 Consensus size: 141
44427172 GTAAGGTTCT
* *
44427182 GATGCCATGTCCCAGACATAGTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTCCTAGACA
1 GATGCCATGTCCCAGACATAGTCTTACACTAGCTCATATCTCAAGTCGATGCCATGTCCCAGACA
* ** *
44427247 TGGTCTTACACTGACTATCATCTCGTAGCCGGTGCATGTCCCAGACATGTCTTACACTGGCTTAC
66 TGGCCTTACACTGACTATCATAACGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTAC
44427312 GTCTCGAGGCC
131 GTCTCGAGGCC
* * * *
44427323 GATG-CATGTCCTAGACAT-GTCTTACACTAGCT-TTCGTCTCAATGTCGATGCCTTGTCCCAGA
1 GATGCCATGTCCCAGACATAGTCTTACACTAGCTCAT-ATCTCAA-GTCGATGCCATGTCCCAGA
* * * * *
44427385 CATGGCCTTACATTGGCTCTCATAACGTGGCTGATGCATGTCCCAGACATGTCTTACACT
64 CATGGCCTTACACTGACTATCATAACGTAGCCGATGCATGTCCCAGACATGTCTTACACT
44427445 AGCCAAATAA
Statistics
Matches: 105, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
138 1 0.01
139 19 0.18
140 81 0.77
141 4 0.04
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (141 bp):
GATGCCATGTCCCAGACATAGTCTTACACTAGCTCATATCTCAAGTCGATGCCATGTCCCAGACA
TGGCCTTACACTGACTATCATAACGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTAC
GTCTCGAGGCC
Found at i:44430037 original size:32 final size:30
Alignment explanation
Indices: 44429969--44430053 Score: 91
Period size: 30 Copynumber: 2.8 Consensus size: 30
44429959 TCACATGTGT
44429969 ATACCCTGTAATTATCCATATTTACATATC
1 ATACCCTGTAATTATCCATATTTACATATC
* * *
44429999 ACACCCTATAATTGATCACATATTT-CATTTCC
1 ATACCCTGTAATT-ATC-CATATTTACATAT-C
* *
44430031 ATACCCTGTAATCATTCATATTT
1 ATACCCTGTAATTATCCATATTT
44430054 TCACATTTGT
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
30 18 0.40
31 9 0.20
32 18 0.40
ACGTcount: A:0.32, C:0.25, G:0.04, T:0.40
Consensus pattern (30 bp):
ATACCCTGTAATTATCCATATTTACATATC
Found at i:44432622 original size:15 final size:15
Alignment explanation
Indices: 44432602--44432632 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
44432592 ATAAGCTCAA
44432602 AAAATTTACTATCAT
1 AAAATTTACTATCAT
44432617 AAAATTTACTATCAT
1 AAAATTTACTATCAT
44432632 A
1 A
44432633 TCCAAAAGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (15 bp):
AAAATTTACTATCAT
Found at i:44439264 original size:46 final size:46
Alignment explanation
Indices: 44439197--44439288 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
44439187 CTATTATTTT
44439197 CTTATTCATTACTTAATCGAGTCGAAATCCTAACAATGGGGTTCAA
1 CTTATTCATTACTTAATCGAGTCGAAATCCTAACAATGGGGTTCAA
*
44439243 CTTATTCGTTACTTAATCGAGTCGAAATCCTAACAATGGGGTTCAA
1 CTTATTCATTACTTAATCGAGTCGAAATCCTAACAATGGGGTTCAA
44439289 GAATATTTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.33
Consensus pattern (46 bp):
CTTATTCATTACTTAATCGAGTCGAAATCCTAACAATGGGGTTCAA
Found at i:44445402 original size:31 final size:31
Alignment explanation
Indices: 44445364--44445429 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
44445354 GAACTCTTTG
44445364 GAAAAGTTATTATGGAAGTAAAAGAATGGGT
1 GAAAAGTTATTATGGAAGTAAAAGAATGGGT
44445395 GAAAAGTTATTATGGAAGTAAAAGAATGGGT
1 GAAAAGTTATTATGGAAGTAAAAGAATGGGT
44445426 GAAA
1 GAAA
44445430 TGGAAGTAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.47, C:0.00, G:0.29, T:0.24
Consensus pattern (31 bp):
GAAAAGTTATTATGGAAGTAAAAGAATGGGT
Found at i:44450800 original size:40 final size:39
Alignment explanation
Indices: 44450632--44450802 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
44450622 AGAAATTGAA
* *
44450632 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
44450672 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
44450712 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
44450752 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
44450792 TGATATCCGGG
1 TGATATCCGGG
44450803 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:44458570 original size:40 final size:39
Alignment explanation
Indices: 44458402--44458572 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
44458392 AGAAATTGAA
* *
44458402 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
44458442 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
44458482 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
44458522 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
44458562 TGATATCCGGG
1 TGATATCCGGG
44458573 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:44463900 original size:62 final size:62
Alignment explanation
Indices: 44463823--44463949 Score: 200
Period size: 62 Copynumber: 2.0 Consensus size: 62
44463813 ATCACCAGCG
* * *
44463823 TTTAGAAGAGAAAAATAAAAGAAACAAGTGAAAAATACTATTCCTAGACAACTTGGCTTGAA
1 TTTAGAAAAGAAAAATAAAAGAAACAAGTGAAAAATACTATTCCTAGACAACTCGACTTGAA
* * *
44463885 TTTAGAAAAGAAAAATAAAAGAAACAAGTGGAAAATACTATTCTTAGACATCTCGACTTGAA
1 TTTAGAAAAGAAAAATAAAAGAAACAAGTGAAAAATACTATTCCTAGACAACTCGACTTGAA
44463947 TTT
1 TTT
44463950 GTCTATTCCT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.49, C:0.11, G:0.15, T:0.25
Consensus pattern (62 bp):
TTTAGAAAAGAAAAATAAAAGAAACAAGTGAAAAATACTATTCCTAGACAACTCGACTTGAA
Found at i:44467194 original size:22 final size:22
Alignment explanation
Indices: 44467169--44467211 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
44467159 AAATATTAAC
*
44467169 TAATGAATTTTAAATAATTTTA
1 TAATAAATTTTAAATAATTTTA
* *
44467191 TAATAAATTTTGATTAATTTT
1 TAATAAATTTTAAATAATTTT
44467212 GATTATTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (22 bp):
TAATAAATTTTAAATAATTTTA
Found at i:44467371 original size:22 final size:22
Alignment explanation
Indices: 44467345--44467389 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
44467335 ATTATGTGTA
44467345 TTAATTCATAATATAA-TTAATT
1 TTAATT-ATAATATAATTTAATT
* *
44467367 TTAATTTTCATATAATTTAATT
1 TTAATTATAATATAATTTAATT
44467389 T
1 T
44467390 GGGTTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTATAATATAATTTAATT
Found at i:44470992 original size:30 final size:30
Alignment explanation
Indices: 44470956--44471013 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
44470946 CTTTACGAGC
44470956 TTAGGGG-AAAAAGTGTAATTTTGACAAAGT
1 TTAGGGGTAAAAA-TGTAATTTTGACAAAGT
*
44470986 TTAGGGGTAAAAATGTAATTTTGCCAAA
1 TTAGGGGTAAAAATGTAATTTTGACAAA
44471014 ATGTGATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.40, C:0.05, G:0.24, T:0.31
Consensus pattern (30 bp):
TTAGGGGTAAAAATGTAATTTTGACAAAGT
Found at i:44472788 original size:93 final size:91
Alignment explanation
Indices: 44472624--44472792 Score: 302
Period size: 93 Copynumber: 1.8 Consensus size: 91
44472614 GCCCCTAAGT
*
44472624 GAACTCGACTCAACTCAACGAGCTCGGGCATTGCATCCATAAGTGAACTCGGACTCAACTCAACG
1 GAACTCGACTCAACTCAACGAGCTCGGACATTGCATCCATAAGTGAACTCGGACTCAACTCAACG
44472689 AGTTCGGATGCCTAGTTACATTTCAC
66 AGTTCGGATGCCTAGTTACATTTCAC
*
44472715 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTC-GACTCAACTCAACGAGCTCGGACATT-GCATCCATAAGTGAACTCGGACTCAACTCAA
44472780 CGAGTTCGGATGC
64 CGAGTTCGGATGC
44472793 TCAACCATCC
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
91 6 0.08
92 24 0.32
93 44 0.59
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (91 bp):
GAACTCGACTCAACTCAACGAGCTCGGACATTGCATCCATAAGTGAACTCGGACTCAACTCAACG
AGTTCGGATGCCTAGTTACATTTCAC
Found at i:44472808 original size:46 final size:43
Alignment explanation
Indices: 44472621--44472800 Score: 152
Period size: 46 Copynumber: 4.0 Consensus size: 43
44472611 CCCGCCCCTA
* * *
44472621 AGTGAACTC-GACTCAACTCAACGAGCTCGGGCATTG-CATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GG-A-TGCCAACCATT
44472665 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATTT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCA-TT
* * * *
44472712 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATA
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATT
44472758 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT
44472801 CCTAGTGACA
Statistics
Matches: 112, Mismatches: 11, Indels: 26
0.75 0.07 0.17
Matches are distributed among these distances:
42 2 0.02
43 2 0.02
44 21 0.19
45 19 0.17
46 31 0.28
47 31 0.28
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (43 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATT
Found at i:44473246 original size:30 final size:30
Alignment explanation
Indices: 44473212--44473271 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
44473202 ATTTAATACG
44473212 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
44473242 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
44473272 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:44484215 original size:50 final size:48
Alignment explanation
Indices: 44484040--44484215 Score: 199
Period size: 51 Copynumber: 3.5 Consensus size: 48
44484030 CTGATACGCA
* * * * *
44484040 TAGTAGCATGCATTTAGTACTACACATGCGACCAACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGATCAA-AGTATGGTACACG
* * * * *
44484089 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCATTGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGATCAAAGT-A-TG-GTACACG
*
44484140 TAGTAGCCTGCACTTAGTACTACACATGCGATTTAATAGTATGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-TCAA-AGTATGGTACACG
44484190 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
44484216 CGTGTACTCA
Statistics
Matches: 106, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
48 2 0.02
49 29 0.27
50 33 0.31
51 36 0.34
52 3 0.03
53 3 0.03
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (48 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGATCAAAGTATGGTACACG
Found at i:44484216 original size:101 final size:100
Alignment explanation
Indices: 44484034--44484219 Score: 300
Period size: 101 Copynumber: 1.9 Consensus size: 100
44484024 AGCTATCTGA
* *
44484034 TACGCATAGTAGCATGCATTTAGTACTACACATGCGACCAACAATCTGGTACACGTAGTAGCCTG
1 TACGCATAGTAGCATGCACTTAGTACTACACATGCGACCAACAATATGGTACACGTAGTAGCCTG
44484099 CACTTAGTACTACACACGTGATCGAAGTCATTGAG
66 CACTTAGTACTACACACGTGATCGAAGTCATTGAG
* ** * *
44484134 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGATTTAATAGTATGGTACACGTAGTAGCCT
1 TACGCATAGTAGCATGCACTTAGTACTACACATGCGA-CCAACAATATGGTACACGTAGTAGCCT
44484199 GCACTTAGTACTACACACGTG
65 GCACTTAGTACTACACACGTG
44484220 TACTCACAAT
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
100 35 0.45
101 43 0.55
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (100 bp):
TACGCATAGTAGCATGCACTTAGTACTACACATGCGACCAACAATATGGTACACGTAGTAGCCTG
CACTTAGTACTACACACGTGATCGAAGTCATTGAG
Found at i:44486979 original size:42 final size:43
Alignment explanation
Indices: 44486867--44487028 Score: 156
Period size: 43 Copynumber: 3.8 Consensus size: 43
44486857 AGAAAGCTCG
* * ***
44486867 TACAATGCCAAC-GTCCTAGACATGGTCTTACATGTAATCAAA
1 TACAATGCCAACTGTCCCAGACGTGGTCTTACACAAAATCAAA
*
44486909 TATAGATGCC-ACTGTCCCAGACAG-GGTCTTACACAAAATCAAA
1 TACA-ATGCCAACTGTCCCAGAC-GTGGTCTTACACAAAATCAAA
44486952 TACAATGCCAACT-TCCCAGACGTGGTCTTACACATAAATCATAA
1 TACAATGCCAACTGTCCCAGACGTGGTCTTACACA-AAATCA-AA
* * *
44486996 GT-CGATGCCAA-TGTCCCAGATGTGGTTTTACAC
1 -TACAATGCCAACTGTCCCAGACGTGGTCTTACAC
44487029 GATAACACAT
Statistics
Matches: 101, Mismatches: 10, Indels: 16
0.80 0.08 0.13
Matches are distributed among these distances:
41 1 0.01
42 29 0.29
43 42 0.42
44 28 0.28
45 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.25
Consensus pattern (43 bp):
TACAATGCCAACTGTCCCAGACGTGGTCTTACACAAAATCAAA
Found at i:44493621 original size:39 final size:39
Alignment explanation
Indices: 44493567--44493719 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
44493557 GAATGTTCGA
*
44493567 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
44493606 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
44493645 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
44493684 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
44493720 GGTTACCATA
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:44493735 original size:40 final size:39
Alignment explanation
Indices: 44493568--44493749 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
44493558 AATGTTCGAG
* *
44493568 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
44493607 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
44493646 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
44493685 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
44493725 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
44493750 TGTTTTGAAC
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.69
40 40 0.31
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:44501707 original size:39 final size:39
Alignment explanation
Indices: 44501653--44501805 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
44501643 GAATGTTCGA
*
44501653 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
44501692 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
44501731 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
44501770 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
44501806 GGTTACCATA
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:44501821 original size:40 final size:39
Alignment explanation
Indices: 44501654--44501835 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
44501644 AATGTTCGAG
* *
44501654 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
44501693 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
44501732 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
44501771 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
44501811 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
44501836 TGTTTTGAAC
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.69
40 40 0.31
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:44504572 original size:28 final size:28
Alignment explanation
Indices: 44504532--44504596 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
44504522 TTTTCATTTA
* * *
44504532 TTTCACAATTTAACCCCTCATTTGCACT
1 TTTCTCAATTTAACCCCTAATATGCACT
* *
44504560 TTTCTCAATTTAATCCCTAATATGCATT
1 TTTCTCAATTTAACCCCTAATATGCACT
44504588 TTTACTCAA
1 TTT-CTCAA
44504597 AATTACTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
28 26 0.84
29 5 0.16
ACGTcount: A:0.28, C:0.26, G:0.03, T:0.43
Consensus pattern (28 bp):
TTTCTCAATTTAACCCCTAATATGCACT
Found at i:44509859 original size:30 final size:30
Alignment explanation
Indices: 44509825--44509921 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
44509815 TAAACTAAAA
44509825 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
44509855 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
44509885 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
44509915 TGAGCTA
1 TGAGCTA
44509922 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:44510969 original size:49 final size:49
Alignment explanation
Indices: 44510875--44510971 Score: 117
Period size: 49 Copynumber: 2.0 Consensus size: 49
44510865 TAGAATACCG
* * * *
44510875 AGCATGGCATATTATGCAATGCAACATAATAATTAGATCAGATACAGAT
1 AGCATGACATATCATGCAATGCAACATAATAATTAGAACAAATACAGAT
*
44510924 AGCATGACATATCATGCGATGCAACACT--TAATATAGAACAAATACAGA
1 AGCATGACATATCATGCAATGCAACA-TAATAAT-TAGAACAAATACAGA
44510972 CCCTAACCCC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
48 4 0.10
49 36 0.88
50 1 0.02
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.24
Consensus pattern (49 bp):
AGCATGACATATCATGCAATGCAACATAATAATTAGAACAAATACAGAT
Found at i:44516291 original size:25 final size:26
Alignment explanation
Indices: 44516240--44516295 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
44516230 CGCTCTTTCA
*
44516240 AGCT-ATGAACAGTAAGCTCCTGCTG
1 AGCTGATGAACAGTAAGCTCCTACTG
* *
44516265 AGCTGATGGACAGTAAGCT-CTATTG
1 AGCTGATGAACAGTAAGCTCCTACTG
44516290 AGCTGA
1 AGCTGA
44516296 AACGGTAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 14 0.52
26 13 0.48
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.25
Consensus pattern (26 bp):
AGCTGATGAACAGTAAGCTCCTACTG
Found at i:44516309 original size:23 final size:23
Alignment explanation
Indices: 44516277--44516340 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
44516267 CTGATGGACA
**
44516277 GTAAGCTCTATTGAGCTGAAACG
1 GTAAGCTCTAACGAGCTGAAACG
* *
44516300 GTAAGTTCTAACGAGCTGAAACA
1 GTAAGCTCTAACGAGCTGAAACG
*
44516323 GTGAGCTC-ATACGAGCTG
1 GTAAGCTCTA-ACGAGCTG
44516341 GGAACAGCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 1 0.03
23 33 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (23 bp):
GTAAGCTCTAACGAGCTGAAACG
Found at i:44518639 original size:27 final size:24
Alignment explanation
Indices: 44518608--44518656 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 24
44518598 TGTAAAATGT
44518608 AAGATAAAAATTACTAATGAATTATGG
1 AAGAT-AAAATTA-T-ATGAATTATGG
*
44518635 AAGATACAATTATATGAATTAT
1 AAGATAAAATTATATGAATTAT
44518657 TGTTACAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 9 0.43
25 1 0.05
26 6 0.29
27 5 0.24
ACGTcount: A:0.51, C:0.04, G:0.12, T:0.33
Consensus pattern (24 bp):
AAGATAAAATTATATGAATTATGG
Found at i:44520100 original size:47 final size:47
Alignment explanation
Indices: 44519946--44520211 Score: 217
Period size: 47 Copynumber: 5.7 Consensus size: 47
44519936 GGGATAAATT
* * *
44519946 GCCGATGCCATGTCCCAAACATGGTGTTACACTGGC-TCTCATATACGCG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCATCTCATAT-CGAG
* * * **
44519995 TGCTGATGCATGTCCCAGACATGTCTTACACTAGCA-C-AACT-TTTA-
1 -GCCGATGCATGTCCCAGACATGTCTTACACTGGCATCTCA-TATCGAG
* * * *
44520040 GCCGATGCGTGTCCCAAACACGTCTTACACTGGCTATCTC-TGTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-ATCTCATATCGAG
* * * * *
44520087 GCCGATGCATGTCCCAGACATGTCTTACTCTAGCA-CTCATCTCTAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCATCTCATATCGAG
*
44520133 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCATCTCAT-ATCGAG
*
44520181 GCCGAAGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
44520212 AGCACACAAA
Statistics
Matches: 173, Mismatches: 31, Indels: 28
0.75 0.13 0.12
Matches are distributed among these distances:
44 29 0.17
45 5 0.03
46 25 0.14
47 59 0.34
48 35 0.20
49 14 0.08
50 6 0.03
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCATCTCATATCGAG
Found at i:44520214 original size:94 final size:92
Alignment explanation
Indices: 44519945--44520216 Score: 320
Period size: 94 Copynumber: 2.9 Consensus size: 92
44519935 TGGGATAAAT
* * * *
44519945 TGCCGATGCCATGTCCCAAACATGGTGTTACACTGGCTCTCATATACGCGTGCTGATGCATGTCC
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATA-ATGAG-GCCGATGCATGTCC
*
44520010 CAGACATGTCTTACACTAGCA-CAACTTT
64 CAGACATGTCTTACACTAGCACCAACTTA
* * *
44520038 TAGCCGATG-CGTGTCCCAAACA-CGTCTTACACTGGCTATCTC-T-GTCGAGGCCGATGCATGT
1 T-GCCGATGCCATGTCCCAAACATGGTCTTACACTGGC--TCTCATAAT-GAGGCCGATGCATGT
* *
44520099 CCCAGACATGTCTTACTCTAGCACTCATCTCTA
62 CCCAGACATGTCTTACACTAGCAC-CAACT-TA
* * *
44520132 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGAAGCATGTCCCA
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGAGGCCGATGCATGTCCCA
44520197 GACATGTCTTACACTAGCAC
66 GACATGTCTTACACTAGCAC
44520217 ACAAATCACC
Statistics
Matches: 151, Mismatches: 17, Indels: 21
0.80 0.09 0.11
Matches are distributed among these distances:
91 33 0.22
92 14 0.09
93 29 0.19
94 61 0.40
95 14 0.09
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.27
Consensus pattern (92 bp):
TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGAGGCCGATGCATGTCCCA
GACATGTCTTACACTAGCACCAACTTA
Found at i:44520608 original size:5 final size:6
Alignment explanation
Indices: 44520590--44520614 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
44520580 AGCTCTTTAC
44520590 TTCTTT TTCTTT TTCTTT TTCTTT T
1 TTCTTT TTCTTT TTCTTT TTCTTT T
44520615 ATTAAAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTCTTT
Found at i:44527130 original size:44 final size:46
Alignment explanation
Indices: 44527078--44527192 Score: 137
Period size: 44 Copynumber: 2.5 Consensus size: 46
44527068 ATGCATGCTA
44527078 ATGCATGTCCCAGACATGTCTTACACTAGCACAACTCT-T-A-GCCG
1 ATGCATGTCCCAGACATGTCTTACACTAGC-CAACTCTGTCAGGCCG
* * * * * *
44527122 ATGCATGTCCCAAACACGTCTTACACTGGCTATCTCTGTCGAGGTCG
1 ATGCATGTCCCAGACATGTCTTACACTAGCCAACTCTGTC-AGGCCG
44527169 ATGCATGTCCCAGACATGTCTTAC
1 ATGCATGTCCCAGACATGTCTTAC
44527193 TTTGGCACTC
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
43 5 0.08
44 28 0.47
46 1 0.02
47 25 0.42
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (46 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCCAACTCTGTCAGGCCG
Found at i:44527276 original size:47 final size:46
Alignment explanation
Indices: 44527172--44527292 Score: 136
Period size: 47 Copynumber: 2.6 Consensus size: 46
44527162 GAGGTCGATG
** * * *
44527172 CATGTCCCAGACATGTCTTACTTTGGCACTCATCTCTGTGCCGATA
1 CATGTCCCAGACATGTCTTACACTGGCACTCATATCTGTGCCAAAA
* * *
44527218 CTATGTGCCAGACATGGTCTTACACTGGCTCTCATA-ATGTGGCCAAAA
1 C-ATGTCCCAGACAT-GTCTTACACTGGCACTCATATCTGT-GCCAAAA
44527266 CATGTCCCAGACATGTCTTACACTGGC
1 CATGTCCCAGACATGTCTTACACTGGC
44527293 GCACAAATCA
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
46 14 0.22
47 27 0.43
48 22 0.35
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCACTCATATCTGTGCCAAAA
Found at i:44528023 original size:24 final size:24
Alignment explanation
Indices: 44527996--44528041 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
44527986 TTTAACTTCA
44527996 AATTTGTGGTCTCGAGACCACTCG
1 AATTTGTGGTCTCGAGACCACTCG
44528020 AATTTGTGGTCTCGAGACCACT
1 AATTTGTGGTCTCGAGACCACT
44528042 GTTCCGACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (24 bp):
AATTTGTGGTCTCGAGACCACTCG
Found at i:44534662 original size:43 final size:43
Alignment explanation
Indices: 44534601--44534689 Score: 178
Period size: 43 Copynumber: 2.1 Consensus size: 43
44534591 CACCTGGTTA
44534601 CCTAAAAATCGAAAACCAACATGGTGATATTTGCACAAAACTG
1 CCTAAAAATCGAAAACCAACATGGTGATATTTGCACAAAACTG
44534644 CCTAAAAATCGAAAACCAACATGGTGATATTTGCACAAAACTG
1 CCTAAAAATCGAAAACCAACATGGTGATATTTGCACAAAACTG
44534687 CCT
1 CCT
44534690 TACTGGAATC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.43, C:0.22, G:0.13, T:0.21
Consensus pattern (43 bp):
CCTAAAAATCGAAAACCAACATGGTGATATTTGCACAAAACTG
Found at i:44544755 original size:7 final size:7
Alignment explanation
Indices: 44544745--44544783 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
44544735 TCCCTTTTTT
44544745 TTTTTAA
1 TTTTTAA
44544752 TTTTTAA
1 TTTTTAA
44544759 TTTTTAA
1 TTTTTAA
44544766 TTTTTAA
1 TTTTTAA
44544773 TTTTTAA
1 TTTTTAA
44544780 TTTT
1 TTTT
44544784 GTGTCTCCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTTAA
Found at i:44545823 original size:23 final size:22
Alignment explanation
Indices: 44545791--44545836 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
44545781 TTTTTAATTA
44545791 TTTAAATAAAGAAATAATTTTAT
1 TTTAAATAAA-AAATAATTTTAT
* * *
44545814 TTTAATTAAATAATATTTTTAT
1 TTTAAATAAAAAATAATTTTAT
44545836 T
1 T
44545837 ATCTCAATAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
TTTAAATAAAAAATAATTTTAT
Found at i:44549301 original size:47 final size:44
Alignment explanation
Indices: 44549199--44549322 Score: 133
Period size: 47 Copynumber: 2.8 Consensus size: 44
44549189 TATGCGTGCT
* *
44549199 GATGCATGTCCCAAACATGTCTTACACTAGCACAACTCTTAGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACAACTCTTAGCC
** * * *
44549243 GATGTGTGTCCCAGGCATGTCTTACACTGGCTATC-TCTGTTGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-A-CAACTCTT-A-GCC
*
44549290 GATGCATGTCCCAGACATGTCTTACTCTGGCAC
1 GATGCATGTCCCAGACATGTCTTACACTGGCAC
44549323 TCATAATATG
Statistics
Matches: 65, Mismatches: 11, Indels: 7
0.78 0.13 0.08
Matches are distributed among these distances:
44 26 0.40
45 6 0.09
46 3 0.05
47 30 0.46
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCACAACTCTTAGCC
Found at i:44549361 original size:18 final size:18
Alignment explanation
Indices: 44549338--44549373 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
44549328 ATATGGCTGA
*
44549338 AGCATGCCCCAGACATGT
1 AGCATGCCCCAAACATGT
*
44549356 AGCATGTCCCAAACATGT
1 AGCATGCCCCAAACATGT
44549374 CTTACACTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (18 bp):
AGCATGCCCCAAACATGT
Found at i:44549606 original size:15 final size:17
Alignment explanation
Indices: 44549588--44549619 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
44549578 TATAACTTAA
44549588 CAATTC-AT-ACAATAT
1 CAATTCAATGACAATAT
44549603 CAATTCAATGACAATAT
1 CAATTCAATGACAATAT
44549620 GAATACAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 2 0.13
17 7 0.47
ACGTcount: A:0.47, C:0.19, G:0.03, T:0.31
Consensus pattern (17 bp):
CAATTCAATGACAATAT
Found at i:44549858 original size:30 final size:30
Alignment explanation
Indices: 44549817--44549873 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
44549807 AAATTCACAA
*
44549817 CTTTGGTAAAATGACCATTTTACCCCTCGG
1 CTTTGGCAAAATGACCATTTTACCCCTCGG
44549847 CTTTGGCAAAATGACCATTTTACCCCT
1 CTTTGGCAAAATGACCATTTTACCCCT
44549874 ATGCCCGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.25, C:0.28, G:0.14, T:0.33
Consensus pattern (30 bp):
CTTTGGCAAAATGACCATTTTACCCCTCGG
Found at i:44554116 original size:29 final size:29
Alignment explanation
Indices: 44554083--44554147 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
44554073 GTGACGAGAT
44554083 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
44554112 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
44554141 CGGCACT
1 TGGCACT
44554148 GGGTGTGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:44562148 original size:29 final size:29
Alignment explanation
Indices: 44562115--44562179 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
44562105 GTGACGAGAT
44562115 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
44562144 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
44562173 CGGCACT
1 TGGCACT
44562180 GGGTGTGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:44574012 original size:40 final size:40
Alignment explanation
Indices: 44573921--44574095 Score: 270
Period size: 40 Copynumber: 4.5 Consensus size: 40
44573911 CGGATGATAA
44573921 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC--TAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
44573959 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
44573999 CCGGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
44574039 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
44574079 CC-GGCTAAAT-CCGAAGG
1 CCGGGCTAAGTCCCGAAGG
44574096 TACTTGGTTT
Statistics
Matches: 128, Mismatches: 6, Indels: 6
0.91 0.04 0.04
Matches are distributed among these distances:
38 42 0.33
39 9 0.07
40 77 0.60
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:44574093 original size:78 final size:78
Alignment explanation
Indices: 44573921--44574095 Score: 275
Period size: 78 Copynumber: 2.2 Consensus size: 78
44573911 CGGATGATAA
*
44573921 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATCCGGGCTAAGTCCCGAAGGCATTTGTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATCCGGGCTAAGTCCCGAAGGCATTTGAG
44573986 CGAGTTACTATAT
66 CGAGTTACTATAT
*
44573999 CCGGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT--CCGGGCTAAGTCCCGAAGGCATTTG
44574064 AGCGAG-TAGCTATAT
64 AGCGAGTTA-CTATAT
*
44574079 CC-GGCTAAAT-CCGAAGG
1 CCGGGCTAAGTCCCGAAGG
44574096 TACTTGGTTT
Statistics
Matches: 90, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
78 44 0.49
79 8 0.09
80 38 0.42
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.24
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATCCGGGCTAAGTCCCGAAGGCATTTGAG
CGAGTTACTATAT
Found at i:44576142 original size:43 final size:41
Alignment explanation
Indices: 44576088--44576215 Score: 141
Period size: 43 Copynumber: 3.0 Consensus size: 41
44576078 ATATCGTACA
*
44576088 ATGCCAATGTCCCAGACGTGGTCTTTCATGTAATCACATATCG
1 ATGCC-ATGTCCCAGACGTGGTCTTACATG-AATCACATATCG
*
44576131 ATGCCATTGTCCCAGATAG-GGTCTTACATGAATCACATATACG
1 ATGCCA-TGTCCCAGA-CGTGGTCTTACATGAATCACATAT-CG
* * *
44576174 ATGCCGATGTCCCAGACATGGTATTACACGCAATCACATATC
1 ATGCC-ATGTCCCAGACGTGGTCTTACATG-AATCACATATC
44576216 ATAAATCCTA
Statistics
Matches: 73, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
42 11 0.15
43 50 0.68
44 12 0.16
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (41 bp):
ATGCCATGTCCCAGACGTGGTCTTACATGAATCACATATCG
Found at i:44577400 original size:13 final size:13
Alignment explanation
Indices: 44577382--44577406 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44577372 TGTAAACACC
44577382 AAAAATATTTTTA
1 AAAAATATTTTTA
44577395 AAAAATATTTTT
1 AAAAATATTTTT
44577407 CTAACTCTAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AAAAATATTTTTA
Found at i:44584100 original size:86 final size:85
Alignment explanation
Indices: 44583951--44584112 Score: 213
Period size: 86 Copynumber: 1.9 Consensus size: 85
44583941 CAATGCCAAC
* * *
44583951 GTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAGGGTCGTACACA
1 GTCCCAAACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGACAGGGTCGTACACA
44584016 AAATCAAATATGATGTTGAT
66 AAATCAAATATGATGTTGAT
* *
44584036 GTCCCAAACATGGTCTTACACGTAAATCTCAA-ATCGATGCCAAC-GTCCCAGAC-GTGGTCTTA
1 GTCCCAAACATGGTCTTACACGT-AATC-AAATATCGATGCC-ACTGTCCCAGACAG-GGTCGTA
*
44584098 CACAAAATCACATAT
62 CACAAAATCAAATAT
44584113 TAGAAATCCT
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
85 21 0.31
86 42 0.63
87 4 0.06
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (85 bp):
GTCCCAAACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGACAGGGTCGTACACA
AAATCAAATATGATGTTGAT
Found at i:44586854 original size:92 final size:93
Alignment explanation
Indices: 44586743--44586912 Score: 297
Period size: 92 Copynumber: 1.8 Consensus size: 93
44586733 GCCCCTAAGT
* *
44586743 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
44586808 CGAGTT-GGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
44586835 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
44586900 CGAGTTCGGATGC
66 CGAGTTCGGATGC
44586913 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 67 0.92
93 6 0.08
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:44586909 original size:46 final size:46
Alignment explanation
Indices: 44586738--44586909 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
44586728 AACCCGCCCC
* * * *
44586738 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
44586784 TAAGTGAACTCGGACTCAACTCAACGAGTT-GGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
44586831 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
44586876 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
44586910 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 4 0.04
46 83 0.80
47 5 0.05
48 1 0.01
49 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:44587365 original size:30 final size:30
Alignment explanation
Indices: 44587331--44587390 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
44587321 ATTTAATACG
*
44587331 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTACCCCTA
* * *
44587361 AACTTTTGCATAATTACACTTTTACCCCTA
1 AACTTTGGAAAAATTACACTTTTACCCCTA
44587391 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTACCCCTA
Found at i:44600962 original size:40 final size:39
Alignment explanation
Indices: 44600918--44601043 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
44600908 GGGACTCAAC
*
44600918 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
44600958 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
44600998 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
44601038 CCGGAT
1 CCGGAT
44601044 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:44601002 original size:80 final size:80
Alignment explanation
Indices: 44600857--44601043 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
44600847 GCTACACATT
* * *
44600857 CAAATGCCTTCGGGACATAGCCC-GATTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCCG
*
44600921 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * **
44600937 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCAACCC
44601000 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
44601018 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
44601044 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 70 0.78
81 14 0.16
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:44605362 original size:37 final size:37
Alignment explanation
Indices: 44605312--44605382 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
44605302 CGAAGTCTTA
44605312 CCCGGACATAATCTCCACACGTAGTCATCGGGTCGTG
1 CCCGGACATAATCTCCACACGTAGTCATCGGGTCGTG
44605349 CCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 CCCGGACATAATCTCCACACGTAGTCATCGGGTC
44605383 TCACCCGGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.23, C:0.34, G:0.23, T:0.21
Consensus pattern (37 bp):
CCCGGACATAATCTCCACACGTAGTCATCGGGTCGTG
Found at i:44605390 original size:37 final size:36
Alignment explanation
Indices: 44605310--44605396 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
44605300 TACGAAGTCT
44605310 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
*
44605346 GTGCCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
44605383 TCACCCGGAACATA
1 T-ACCCGG-ACATA
44605397 TTTCCAAGTT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
36 1 0.02
37 40 0.87
38 5 0.11
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:44605537 original size:49 final size:49
Alignment explanation
Indices: 44605465--44605686 Score: 338
Period size: 49 Copynumber: 4.4 Consensus size: 49
44605455 TTTACCACAT
*
44605465 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
44605514 ATATATATACATTTTCACATTCATCACATCGGCCATGAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
44605563 ATATATATAC-CTTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAAC
1 ATATATATACAC-TTTCACATTCATCACATCGGCCATTAGGCCTTAT--C-----AC
44605619 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
44605668 ATATATATACACTTTCACA
1 ATATATATACACTTTCACA
44605687 AATTTTGATA
Statistics
Matches: 159, Mismatches: 5, Indels: 18
0.87 0.03 0.10
Matches are distributed among these distances:
49 110 0.69
51 1 0.01
54 1 0.01
56 46 0.29
57 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.08, T:0.33
Consensus pattern (49 bp):
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:44605622 original size:56 final size:56
Alignment explanation
Indices: 44605561--44605672 Score: 208
Period size: 56 Copynumber: 2.0 Consensus size: 56
44605551 AGGCCTTATC
44605561 ACATATATATAC-CTTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 ACATATATATACAC-TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
44605617 ACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 ACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
44605673 TATACACTTT
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
56 54 0.98
57 1 0.02
ACGTcount: A:0.33, C:0.27, G:0.07, T:0.33
Consensus pattern (56 bp):
ACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
Found at i:44605669 original size:105 final size:98
Alignment explanation
Indices: 44605465--44605686 Score: 338
Period size: 105 Copynumber: 2.2 Consensus size: 98
44605455 TTTACCACAT
* *
44605465 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATACATTTTC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTC
44605530 ACATTCATCACATCGGCCATGAGGCCTTATCAC
66 ACATTCATCACATCGGCCATGAGGCCTTATCAC
44605563 ATATATATAC-CTTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAACATATATAT
1 ATATATATACAC-TTTCACATTCATCACATCGGCCATTAGGCCTTAT--C-----ACATATATAT
*
44605627 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
58 ACACTTTCACATTCATCACATCGGCCATGAGGCCTTATCAC
44605668 ATATATATACACTTTCACA
1 ATATATATACACTTTCACA
44605687 AATTTTGATA
Statistics
Matches: 112, Mismatches: 3, Indels: 11
0.89 0.02 0.09
Matches are distributed among these distances:
97 1 0.01
98 43 0.38
100 1 0.01
105 66 0.59
106 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.08, T:0.33
Consensus pattern (98 bp):
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTC
ACATTCATCACATCGGCCATGAGGCCTTATCAC
Found at i:44610578 original size:47 final size:47
Alignment explanation
Indices: 44610370--44610675 Score: 170
Period size: 47 Copynumber: 6.6 Consensus size: 47
44610360 GATTTGTGCC
* * ** * *
44610370 CCAGTGTAAGACATGTCTAGGACATGC-TTCGGCCGCACTATGAGAG
1 CCAGTGTAAGACATGTCTGGGACATGCATTCAGCCATAATATGAGTG
* * * * * ** *
44610416 CCAATATAAGACCATGTCTGGGACATGCCA-TC-GGCATCCAGACAAGGG
1 CCAGTGTAAGA-CATGTCTGGGACATG-CATTCAGCCAT-AATATGAGTG
* *
44610464 CTAGTGTAAGACATGTCTGGGACATGC-TTCAGCCATATTATGAGTG
1 CCAGTGTAAGACATGTCTGGGACATGCATTCAGCCATAATATGAGTG
* *
44610510 CCAGAGTAAGACATGTCTGGGACATGCATT-GGCC-TCAATA-GAGATAG
1 CCAGTGTAAGACATGTCTGGGACATGCATTCAGCCAT-AATATGAG-T-G
* * * * *
44610557 CCAGTGTAAGACGTGTCTGGGACACGCA-TC-GGC-TAAGA-GTTGTG
1 CCAGTGTAAGACATGTCTGGGACATGCATTCAGCCATAATATG-AGTG
* * * *
44610601 CTACTATAAGACATGTCTGGGACATGCA-TCAGCACGCAT-ATATGAGAG
1 CCAGTGTAAGACATGTCTGGGACATGCATTCAG--C-CATAATATGAGTG
*
44610649 CCAGTATAAGACCATGTCTGGGACATG
1 CCAGTGTAAGA-CATGTCTGGGACATG
44610676 GCATCGGTAA
Statistics
Matches: 198, Mismatches: 43, Indels: 35
0.72 0.16 0.13
Matches are distributed among these distances:
44 26 0.13
45 10 0.05
46 53 0.27
47 63 0.32
48 29 0.15
49 17 0.09
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.23
Consensus pattern (47 bp):
CCAGTGTAAGACATGTCTGGGACATGCATTCAGCCATAATATGAGTG
Found at i:44614042 original size:50 final size:50
Alignment explanation
Indices: 44613922--44614118 Score: 243
Period size: 50 Copynumber: 3.9 Consensus size: 50
44613912 ATCTATTGTG
* * * * *
44613922 AGGTCACGTGTGTAGTACTGAGTGTAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * **
44613973 TGATCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
44614023 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
44614073 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
44614119 GCTTTGGCTA
Statistics
Matches: 125, Mismatches: 21, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
49 42 0.34
50 46 0.37
51 37 0.30
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:44614098 original size:49 final size:49
Alignment explanation
Indices: 44613923--44614118 Score: 239
Period size: 49 Copynumber: 3.9 Consensus size: 49
44613913 TCTATTGTGA
* * * *
44613923 GGTCACGTGTGTAGTACTGAGTGTAGGCTACTATGCGTACCCGATAACTTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA--TT
* * * * **
44613974 GATCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
*
44614023 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* * *
44614073 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
44614119 GCTTTGGCTA
Statistics
Matches: 125, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 44 0.35
50 44 0.35
51 37 0.30
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
Found at i:44619087 original size:29 final size:29
Alignment explanation
Indices: 44619055--44619127 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
44619045 CTTCGAGCTC
*
44619055 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
44619084 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
44619113 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
44619128 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:44627097 original size:29 final size:29
Alignment explanation
Indices: 44627065--44627137 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
44627055 CTTCGAGCTC
*
44627065 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
44627094 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
44627123 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
44627138 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:44642998 original size:44 final size:43
Alignment explanation
Indices: 44642930--44643092 Score: 147
Period size: 43 Copynumber: 3.8 Consensus size: 43
44642920 CCGATATGTG
* *
44642930 TTATCGTGTAAAACCACATCTGGGACATTGGCATCG-ACTTATGAT
1 TTAT-GTGTAAGACCACGTCTGGGACATTGGCATCGTA-TT-TGAT
*
44642975 TTATGTGTAAGACCACGTCTGGGA-AGTTGGCATTGTATTTGAT
1 TTATGTGTAAGACCACGTCTGGGACA-TTGGCATCGTATTTGAT
* *
44643018 TT-TGTGTAAGACC-CTGTCTGGGACAGTGGCATCTATATTTGA-
1 TTATGTGTAAGACCAC-GTCTGGGACATTGGCATC-GTATTTGAT
** * * *
44643060 TTACATGTAAGACCATGTCTAGGACGTTGGCAT
1 TTATGTGTAAGACCACGTCTGGGACATTGGCAT
44643093 TGTACGAGCT
Statistics
Matches: 99, Mismatches: 12, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
41 1 0.01
42 27 0.27
43 38 0.38
44 28 0.28
45 5 0.05
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.34
Consensus pattern (43 bp):
TTATGTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGAT
Found at i:44645883 original size:51 final size:49
Alignment explanation
Indices: 44645757--44645938 Score: 174
Period size: 51 Copynumber: 3.7 Consensus size: 49
44645747 TGAGTACACG
* * *
44645757 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-AT-ACTATTAAATCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAATGAC--TT-GATCACA
* *
44645807 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTAC-CAATGACTT-GATCACA
* * * *
44645858 TGTGTAGTACTAAGTGCATGCTACTACGTGTACCAGATTG--TTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCA-A-TGACTTGATCACA
* *
44645907 TGTGTAGTACTAAGTGCAAGCTACTATGCGTA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTA
44645939 TCAGATAGCT
Statistics
Matches: 112, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
49 33 0.29
50 35 0.31
51 38 0.34
52 4 0.04
53 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAATGACTTGATCACA
Found at i:44645951 original size:100 final size:101
Alignment explanation
Indices: 44645753--44645938 Score: 302
Period size: 101 Copynumber: 1.9 Consensus size: 101
44645743 ATTGTGAGTA
*
44645753 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTATTAAATCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTATTAAATCGCATGTGTAGTACT
*
44645818 AAGTGCAGGCTACTATGCGTACTCAATGACTTCGAT
66 AAGTGCAAGCTACTATGCGTACTCAATGACTTCGAT
* * * **
44645854 CACGTGTGTAGTACTAAGTGCATGCTACTACGTGTACCAGATTGTT-GGTCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTATTAAATCGCATGTGTAGTACT
44645918 AAGTGCAAGCTACTATGCGTA
66 AAGTGCAAGCTACTATGCGTA
44645939 TCAGATAGCT
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
100 36 0.46
101 42 0.54
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (101 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTATTAAATCGCATGTGTAGTACT
AAGTGCAAGCTACTATGCGTACTCAATGACTTCGAT
Found at i:44656358 original size:43 final size:42
Alignment explanation
Indices: 44656278--44656389 Score: 161
Period size: 43 Copynumber: 2.6 Consensus size: 42
44656268 TGAGATTATG
* **
44656278 TGTAAGACCATATCTAGGATATGGCATCGATATGAGATTTCA
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATCCCA
*
44656320 TGTAAGACCATATCTGGGCTAATGGCATCGATATGAGATCCCA
1 TGTAAGACCATATCTGGGAT-ATGGCATCGATATGAGATCCCA
* *
44656363 TGTAAAATCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
44656390 TGGTATGATA
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 25 0.40
43 37 0.60
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGATCCCA
Found at i:44663941 original size:43 final size:42
Alignment explanation
Indices: 44663878--44663975 Score: 115
Period size: 43 Copynumber: 2.3 Consensus size: 42
44663868 AGGCCATATT
* * ** *
44663878 TGGGATATGGCATTGGTATGAGATTTCATGTAAGACCATAGC
1 TGGGATATGGCATCGATATGAGATCCCATGTAAAACCATAGC
* * *
44663920 TGGGCTAATGGCATCGATATGAGATCCCATGTAAAATCATATC
1 TGGGAT-ATGGCATCGATATGAGATCCCATGTAAAACCATAGC
44663963 TGGGATATGGCAT
1 TGGGATATGGCAT
44663976 TGGTATGATA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
42 12 0.26
43 34 0.74
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (42 bp):
TGGGATATGGCATCGATATGAGATCCCATGTAAAACCATAGC
Found at i:44668211 original size:40 final size:39
Alignment explanation
Indices: 44668026--44668211 Score: 162
Period size: 40 Copynumber: 4.6 Consensus size: 39
44668016 GCTACACATT
* *
44668026 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCA
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* * * *
44668066 CGAATGCCTTCGGGACTTAACCCGGATTTAGTAGCTCGCT
1 C-AAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
44668106 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * ** * *
44668146 CATATGCCGTC-GGATCTTATTCCGGATTTAGTCACTTAGCA
1 CA-AAGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
44668187 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
44668212 CATCATTCGA
Statistics
Matches: 120, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
39 4 0.03
40 103 0.86
41 13 0.11
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:44671305 original size:29 final size:29
Alignment explanation
Indices: 44671265--44671367 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
44671255 GTTGAGAGAT
*
44671265 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
44671294 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* **
44671323 TGGCACTAAGTGTGCGAG-TTTAAAGTATA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
44671352 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
44671368 CGGCTGATTA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 5 0.07
29 64 0.93
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:44695183 original size:39 final size:40
Alignment explanation
Indices: 44695129--44695344 Score: 298
Period size: 39 Copynumber: 5.5 Consensus size: 40
44695119 AAACCAAGTA
* *
44695129 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
44695168 CCTTCGGGACTTAGCCC-GTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* **
44695207 CCTTCGGGACCTAGCCCGGATATAGTAACTATCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
44695247 CCTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
44695287 CCTTC-GGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
44695326 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
44695345 TTATCATCCG
Statistics
Matches: 160, Mismatches: 12, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
38 2 0.01
39 83 0.52
40 75 0.47
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:44695259 original size:79 final size:79
Alignment explanation
Indices: 44695162--44695348 Score: 297
Period size: 79 Copynumber: 2.4 Consensus size: 79
44695152 GCTACTCGCT
44695162 CAAATGCCTTCGGGACTTAGCCC-GTTATAGTAACTCGCACAAATGCCTTCGGGACCTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTC-GGACCTAGCCCGG
*
44695226 -ATATAGTAACTATCA
65 AAT-TAGTAACTAGCA
* * *
44695241 CAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGCCTTCGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGACCTAGCCCGGA
*
44695306 ATTAGTCACTAGCA
66 ATTAGTAACTAGCA
44695320 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
44695349 CATCCGGATA
Statistics
Matches: 100, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
79 73 0.73
80 27 0.27
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGACCTAGCCCGGA
ATTAGTAACTAGCA
Found at i:44697448 original size:29 final size:29
Alignment explanation
Indices: 44697408--44697510 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
44697398 GTTGAGAGAT
*
44697408 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
44697437 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* **
44697466 TGGCACTAAGTGTGCGAG-TTTAAAGTATA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
44697495 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
44697511 CGGCTGATTA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 5 0.07
29 64 0.93
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:44705524 original size:29 final size:29
Alignment explanation
Indices: 44705484--44705586 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
44705474 GTTGAGAGAT
*
44705484 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
44705513 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* **
44705542 TGGCACTAAGTGTGCGAG-TTTAAAGTATA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
44705571 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
44705587 CGGCTGATTA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 5 0.07
29 64 0.93
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:44709339 original size:2 final size:2
Alignment explanation
Indices: 44709327--44709363 Score: 65
Period size: 2 Copynumber: 18.0 Consensus size: 2
44709317 ACATATTTGG
44709327 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44709364 GAATGATGCA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:44711063 original size:27 final size:26
Alignment explanation
Indices: 44711028--44711136 Score: 119
Period size: 27 Copynumber: 4.0 Consensus size: 26
44711018 AGCATGGCTG
* *
44711028 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
44711054 CCAGATACAGATAATCATGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
* *
44711082 CCAGAACAGAAATATGTGGCAAAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
44711109 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
44711136 C
1 C
44711137 TAGGACGCTT
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
26 6 0.09
27 48 0.69
28 16 0.23
ACGTcount: A:0.39, C:0.23, G:0.22, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:44711088 original size:54 final size:54
Alignment explanation
Indices: 44711028--44711136 Score: 139
Period size: 54 Copynumber: 2.0 Consensus size: 54
44711018 AGCATGGCTG
* * *
44711028 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCATGGCAGAGCCA
1 CCAGAACAGAAATATGTGACAAAGCCACCAGAT-CAGATAATCATGGCAGAGCCA
* ** *
44711082 CCAGAACAGAAATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAATATGTGACAAAGCCACCAGATCAGATAATCATGGCAGAGCCA
44711136 C
1 C
44711137 TAGGACGCTT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 30 0.64
55 17 0.36
ACGTcount: A:0.39, C:0.23, G:0.22, T:0.16
Consensus pattern (54 bp):
CCAGAACAGAAATATGTGACAAAGCCACCAGATCAGATAATCATGGCAGAGCCA
Done.