Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 171 of 438
Found at i:52476144 original size:80 final size:79
Alignment explanation
Indices: 52476010--52476160 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
52476000 TTAATCACGT
*
52476010 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
52476075 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
52476090 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
52476153 CCGGATAT
64 CCGGATAT
52476161 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:52478147 original size:27 final size:28
Alignment explanation
Indices: 52478092--52478160 Score: 104
Period size: 27 Copynumber: 2.5 Consensus size: 28
52478082 TACATGTACG
52478092 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* * *
52478120 GCAGTAGGTGTGCGAG-TTGATTTTATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
52478147 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
52478161 GACTCACTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.25, C:0.12, G:0.30, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:52485014 original size:31 final size:31
Alignment explanation
Indices: 52484956--52485015 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
52484946 TTATCCTTAT
* * *
52484956 TTAATTAAAATAATAAATTAACTCTATTTAA
1 TTAAGTAAAATAATAAACTAACCCTATTTAA
52484987 TTAAGTAAAAT-ATCAAACTAACCCTATTT
1 TTAAGTAAAATAAT-AAACTAACCCTATTT
52485016 CCATCCCTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 2 0.08
31 23 0.92
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.38
Consensus pattern (31 bp):
TTAAGTAAAATAATAAACTAACCCTATTTAA
Found at i:52493511 original size:37 final size:36
Alignment explanation
Indices: 52493461--52493547 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
52493451 TACGAAGTCT
52493461 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
52493497 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
52493534 TCACCCGGAACATA
1 T-ACCCGG-ACATA
52493548 TTTCTAAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:52493683 original size:49 final size:49
Alignment explanation
Indices: 52493616--52493915 Score: 537
Period size: 49 Copynumber: 6.1 Consensus size: 49
52493606 TTTACCACAT
*
52493616 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
52493665 ATATATATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
52493714 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
52493763 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
52493812 ATATATATACACTTTCACATTCATCACATCGGCCATTAGACCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
52493861 ATCTATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
52493910 ATATAT
1 ATATAT
52493916 TATTATGTAC
Statistics
Matches: 243, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 243 1.00
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (49 bp):
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:52497437 original size:40 final size:40
Alignment explanation
Indices: 52497388--52497818 Score: 657
Period size: 40 Copynumber: 10.8 Consensus size: 40
52497378 CCAGCATGAT
* ** * *
52497388 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAATTTAGCCCGGATATATCATTAGCACGAA
* * * * *
52497428 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGAATTTAGCCCGGATATATCATTAGCACGAA
*
52497468 TGCTCTTCGGAATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAATTTAGCCCGGATATATCATTAGCACGAA
52497508 TGCTCTTCGGAATTTAGCCCGGATATATCATTAGCACGAA
1 TGCTCTTCGGAATTTAGCCCGGATATATCATTAGCACGAA
52497548 TGCTCTTCGGAATTTAGCCCGGATATATCATTAGCACGAA
1 TGCTCTTCGGAATTTAGCCCGGATATATCATTAGCACGAA
*
52497588 TGCTCTTCGGAATTTAGCCCGGATATATCATTAGCAAGAA
1 TGCTCTTCGGAATTTAGCCCGGATATATCATTAGCACGAA
* * *
52497628 TGCTCTTC-GAACTTAGTCCGGATACATCATTAGCACGAA
1 TGCTCTTCGGAATTTAGCCCGGATATATCATTAGCACGAA
* * *
52497667 TGCTCTTCGGAACTTAGTCCGGATACATCATTAGCACGAA
1 TGCTCTTCGGAATTTAGCCCGGATATATCATTAGCACGAA
52497707 TGCTCTTCGGAATTTAGCCCGGATATATCATTAGCACGAA
1 TGCTCTTCGGAATTTAGCCCGGATATATCATTAGCACGAA
*
52497747 TGCTTTTCGGAATTTAGCCCGGATATATCATTAGCACGAA
1 TGCTCTTCGGAATTTAGCCCGGATATATCATTAGCACGAA
* * *
52497787 TGCTCTTCGGAACTTAGTCCGGATACATCATT
1 TGCTCTTCGGAATTTAGCCCGGATATATCATT
52497819 CTCAATTCTC
Statistics
Matches: 368, Mismatches: 22, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
39 35 0.10
40 333 0.90
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (40 bp):
TGCTCTTCGGAATTTAGCCCGGATATATCATTAGCACGAA
Found at i:52497729 original size:199 final size:200
Alignment explanation
Indices: 52497388--52497818 Score: 729
Period size: 199 Copynumber: 2.2 Consensus size: 200
52497378 CCAGCATGAT
* * * *
52497388 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTCGGAACTTAGCCCGGATACATCATTAGCAAGAATGCTCTTCGGAACTTAGTCCGGATA
* * *
52497453 CATCACTAGCATGAATGCTCTTCGGAATTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGG
66 CATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGG
52497518 AATTTAGCCCGGATATATCATTAGCACGAATGCTCTTCGGAATTTAGCCCGGATATATCATTAGC
131 AATTTAGCCCGGATATATCATTAGCACGAATGCTCTTCGGAATTTAGCCCGGATATATCATTAGC
52497583 ACGAA
196 ACGAA
* *
52497588 TGCTCTTCGGAATTTAGCCCGGATATATCATTAGCAAGAATGCTCTTC-GAACTTAGTCCGGATA
1 TGCTCTTCGGAACTTAGCCCGGATACATCATTAGCAAGAATGCTCTTCGGAACTTAGTCCGGATA
* * *
52497652 CATCATTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCATTAGCACGAATGCTCTTCGG
66 CATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGG
*
52497717 AATTTAGCCCGGATATATCATTAGCACGAATGCTTTTCGGAATTTAGCCCGGATATATCATTAGC
131 AATTTAGCCCGGATATATCATTAGCACGAATGCTCTTCGGAATTTAGCCCGGATATATCATTAGC
52497782 ACGAA
196 ACGAA
*
52497787 TGCTCTTCGGAACTTAGTCCGGATACATCATT
1 TGCTCTTCGGAACTTAGCCCGGATACATCATT
52497819 CTCAATTCTC
Statistics
Matches: 215, Mismatches: 16, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
199 173 0.80
200 42 0.20
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (200 bp):
TGCTCTTCGGAACTTAGCCCGGATACATCATTAGCAAGAATGCTCTTCGGAACTTAGTCCGGATA
CATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGG
AATTTAGCCCGGATATATCATTAGCACGAATGCTCTTCGGAATTTAGCCCGGATATATCATTAGC
ACGAA
Found at i:52499751 original size:37 final size:36
Alignment explanation
Indices: 52499701--52499787 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
52499691 TACGAAGTCT
52499701 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
52499737 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
52499774 TCACCCGGAACATA
1 T-ACCCGG-ACATA
52499788 TTTCTAAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:52499923 original size:49 final size:49
Alignment explanation
Indices: 52499856--52500400 Score: 1027
Period size: 49 Copynumber: 11.1 Consensus size: 49
52499846 TTTACCACAT
*
52499856 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
52499905 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
52499954 ATATCTATACACTTTCACATTCATCATATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
52500003 ATATATATACACTTTCACATTCATCACATCGGCCATGAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
52500052 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
52500101 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
52500150 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
52500199 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
52500248 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
52500297 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
52500346 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
52500395 ATATAT
1 ATATAT
52500401 TATTATGTAC
Statistics
Matches: 484, Mismatches: 12, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 484 1.00
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.33
Consensus pattern (49 bp):
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:52507564 original size:23 final size:23
Alignment explanation
Indices: 52507520--52507564 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
52507510 ATTTTTCATA
*
52507520 AATTATTTCACAATGAATAACAC
1 AATTATTTCACAATGAAGAACAC
*
52507543 AATTATATT-ACAATTAAGAACA
1 AATTAT-TTCACAATGAAGAACA
52507565 TACATTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.31
Consensus pattern (23 bp):
AATTATTTCACAATGAAGAACAC
Found at i:52515457 original size:19 final size:20
Alignment explanation
Indices: 52515433--52515473 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
52515423 AATGTTGAAA
*
52515433 ACCCTAGCTATGG-GAACAT
1 ACCCTAGCTACGGAGAACAT
52515452 ACCCTAGCTACGGAGAACAT
1 ACCCTAGCTACGGAGAACAT
52515472 AC
1 AC
52515474 AAATTTCGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.34, C:0.29, G:0.20, T:0.17
Consensus pattern (20 bp):
ACCCTAGCTACGGAGAACAT
Found at i:52522721 original size:20 final size:20
Alignment explanation
Indices: 52522696--52522737 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
52522686 AATGTTGAAA
* *
52522696 ACCCTAGCTATGGGGAACAT
1 ACCCTAGCTACGGAGAACAT
52522716 ACCCTAGCTACGGAGAACAT
1 ACCCTAGCTACGGAGAACAT
52522736 AC
1 AC
52522738 AAATTTCGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.29, G:0.21, T:0.17
Consensus pattern (20 bp):
ACCCTAGCTACGGAGAACAT
Found at i:52537221 original size:44 final size:43
Alignment explanation
Indices: 52537148--52537274 Score: 148
Period size: 44 Copynumber: 3.0 Consensus size: 43
52537138 CATAGAATTC
*
52537148 CGATATGTGATT-CATGGAAGACCACGTTTGGGACATTGGCAT
1 CGATATGTGATTACATGTAAGACCACGTTTGGGACATTGGCAT
* * * * * * *
52537190 TGATTTTTGATTTGCATGTATGACCATGTTTGGGACAGTGGCAT
1 CGATATGTGA-TTACATGTAAGACCACGTTTGGGACATTGGCAT
* *
52537234 CGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGC
1 CGATATGTGATTACATGTAAGACCACGTTTGGGACATTGGC
52537275 GTTGTACGAG
Statistics
Matches: 67, Mismatches: 16, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
42 7 0.10
43 27 0.40
44 33 0.49
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (43 bp):
CGATATGTGATTACATGTAAGACCACGTTTGGGACATTGGCAT
Found at i:52539170 original size:54 final size:54
Alignment explanation
Indices: 52539099--52539275 Score: 183
Period size: 54 Copynumber: 3.3 Consensus size: 54
52539089 AATACTTTAG
* * * *
52539099 TTTACCAAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGG
1 TTTACAAAATTACCAAAATACTCCTGGTTTGTAAAATTACCAAAATACCCTTGA
* ***
52539153 TTTACAAAATTACCAAAATACTCCTTGTTTGTAAAATTATTGAAATACCCTTGA
1 TTTACAAAATTACCAAAATACTCCTGGTTTGTAAAATTACCAAAATACCCTTGA
** ** * ** **
52539207 TTTGTAAAATTACTGAAATACTCTTGACTTGTAAAATTACCAAAGGACCCTTGA
1 TTTACAAAATTACCAAAATACTCCTGGTTTGTAAAATTACCAAAATACCCTTGA
* *
52539261 TTTATAGAATTACCA
1 TTTACAAAATTACCA
52539276 TTTTACCCTC
Statistics
Matches: 98, Mismatches: 25, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
54 98 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (54 bp):
TTTACAAAATTACCAAAATACTCCTGGTTTGTAAAATTACCAAAATACCCTTGA
Found at i:52539259 original size:27 final size:26
Alignment explanation
Indices: 52539105--52539337 Score: 148
Period size: 27 Copynumber: 8.6 Consensus size: 26
52539095 TTAGTTTACC
* * *
52539105 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACC-AAATACCCTTGATTTGTA
* **
52539132 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACC-AAATACCCTTGATTTGTA
52539159 AAATTACCAAAATACTCCTTG-TTTGTA
1 AAATTACC-AAATAC-CCTTGATTTGTA
**
52539186 AAATTATTGAAATACCCTTGATTTGTA
1 AAATTA-CCAAATACCCTTGATTTGTA
* * *
52539213 AAATTACTGAAATACTCTTGACTTGTA
1 AAATTAC-CAAATACCCTTGATTTGTA
* *
52539240 AAATTACCAAAGGACCCTTGATTTATA
1 AAATTACCAAA-TACCCTTGATTTGTA
* ** * *
52539267 GAATTACCATTTTACCCTCGA-TTGAAA
1 AAATTACCA-AATACCCTTGATTTG-TA
* **
52539294 AAATTACTAAAATACCCTTG-TAGGGTA
1 AAATTAC-CAAATACCCTTGAT-TTGTA
52539321 AAATTACCGAAATACCC
1 AAATTACC-AAATACCC
52539338 CTATAGGGTA
Statistics
Matches: 163, Mismatches: 32, Indels: 22
0.75 0.15 0.10
Matches are distributed among these distances:
26 10 0.06
27 146 0.90
28 7 0.04
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (26 bp):
AAATTACCAAATACCCTTGATTTGTA
Found at i:52539272 original size:81 final size:81
Alignment explanation
Indices: 52539114--52539272 Score: 185
Period size: 81 Copynumber: 2.0 Consensus size: 81
52539104 CAAATCACCA
* ** *
52539114 AAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACTCCTT
1 AAATACCCCTGATTTGTAAAATTACCAAAATACCCTTGACTTACAAAATTACCAAAAGACTCCTT
*
52539179 GTTTGTAAAATTATTG
66 GTTTATAAAATTATTG
* ** * ** *
52539195 AAATACCCTTGATTTGTAAAATTACTGAAATACTCTTGACTTGTAAAATTACCAAAGGAC-CCTT
1 AAATACCCCTGATTTGTAAAATTACCAAAATACCCTTGACTTACAAAATTACCAAAAGACTCCTT
*
52539259 GATTTATAGAATTA
66 G-TTTATAAAATTA
52539273 CCATTTTACC
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
80 5 0.08
81 59 0.92
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.35
Consensus pattern (81 bp):
AAATACCCCTGATTTGTAAAATTACCAAAATACCCTTGACTTACAAAATTACCAAAAGACTCCTT
GTTTATAAAATTATTG
Found at i:52539344 original size:27 final size:27
Alignment explanation
Indices: 52539293--52539432 Score: 138
Period size: 27 Copynumber: 5.2 Consensus size: 27
52539283 CTCGATTGAA
* *
52539293 AAAATTACTAAAATACCCTTGTAGGGT
1 AAAATTACTGAAATACCCCTGTAGGGT
* *
52539320 AAAATTACCGAAATACCCCTATAGGGT
1 AAAATTACTGAAATACCCCTGTAGGGT
* * * *
52539347 AGAATTACCGAATTACCCCTGTTGGGT
1 AAAATTACTGAAATACCCCTGTAGGGT
* *
52539374 AGAATTATTGAAATACCCCTGTAGGGT
1 AAAATTACTGAAATACCCCTGTAGGGT
* * **
52539401 AAGACTACTGATTTACCCCTAG-AGGGT
1 AAAATTACTGAAATACCCCT-GTAGGGT
52539428 AAAAT
1 AAAAT
52539433 GACTATTTTT
Statistics
Matches: 92, Mismatches: 20, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
27 91 0.99
28 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (27 bp):
AAAATTACTGAAATACCCCTGTAGGGT
Found at i:52540203 original size:27 final size:26
Alignment explanation
Indices: 52540151--52540209 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
52540141 CCACATATAT
*
52540151 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
52540177 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
52540204 ATATCT
1 ATATCT
52540210 AGCAGCCTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.36
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:52547068 original size:27 final size:27
Alignment explanation
Indices: 52546915--52547084 Score: 171
Period size: 27 Copynumber: 6.3 Consensus size: 27
52546905 TTAGTTTACC
* * * *
52546915 AAATCACCAAAATAACCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * **
52546942 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
*
52546969 AAATTACCAAAATATCCCTAG-TTTGTA
1 AAATTACCAAAATA-CCCTCGATTTGTA
**
52546996 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
52547023 AAATTACTAAAACACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
52547050 AAATTACCAAAGTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
*
52547077 GAATTACC
1 AAATTACC
52547085 GTTTTACCCT
Statistics
Matches: 122, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
26 5 0.04
27 112 0.92
28 5 0.04
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:52547136 original size:27 final size:27
Alignment explanation
Indices: 52547106--52547237 Score: 147
Period size: 27 Copynumber: 4.9 Consensus size: 27
52547096 GATTGAAAAT
* *
52547106 TTACTGAATTACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
* *
52547133 TTACCGAAATACCCCTATAGGGTAAAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
52547160 TTACCGAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
** * * *
52547187 TTATTGTAATACCCCTGTAAGGTAGGA
1 TTACCGAAATACCCCTGTAGGGTAGAA
* ** *
52547214 CTACCGATTTACCCCTGGAGGGTA
1 TTACCGAAATACCCCTGTAGGGTA
52547238 AAATGACTAT
Statistics
Matches: 86, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 86 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (27 bp):
TTACCGAAATACCCCTGTAGGGTAGAA
Found at i:52547910 original size:27 final size:26
Alignment explanation
Indices: 52547866--52547917 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
52547856 CTCGCTGCAA
*
52547866 TCTGGTGGCCTCGCCACATATATTTGT
1 TCTGGTGACCTCGCCACA-ATATTTGT
* *
52547893 TCTGGTGACTTCGTCACAATATTTG
1 TCTGGTGACCTCGCCACAATATTTG
52547918 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.38
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATTTGT
Found at i:52547957 original size:2 final size:2
Alignment explanation
Indices: 52547950--52548005 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
52547940 GCTTCGCCAC
52547950 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
52547992 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
52548006 CTTTTTTGGT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:52549639 original size:14 final size:12
Alignment explanation
Indices: 52549619--52549667 Score: 53
Period size: 14 Copynumber: 3.8 Consensus size: 12
52549609 TTGGTATCGA
52549619 TTTTTTCTTCCT
1 TTTTTTCTTCCT
*
52549631 CTCTTTTTCCTCCAT
1 -T-TTTTTCTTCC-T
52549646 TTTCTTTCTTCCT
1 TTT-TTTCTTCCT
52549659 TTTTTTCTT
1 TTTTTTCTT
52549668 TTTCTTCGAG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
12 6 0.19
13 7 0.23
14 17 0.55
15 1 0.03
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTTTTCTTCCT
Found at i:52555717 original size:81 final size:81
Alignment explanation
Indices: 52555580--52555733 Score: 299
Period size: 81 Copynumber: 1.9 Consensus size: 81
52555570 ACTTATTTTT
52555580 TGTAACACCCCAAACCCGTGACCGTCACCGGATTTGACCACGTGGTGTTACCGGGCTTACTTCCC
1 TGTAACACCCCAAACCCGTGACCGTCACCGGATTTGACCACGTGGTGTTACCGGGCTTACTTCCC
52555645 TTATTTCTTAATAAAA
66 TTATTTCTTAATAAAA
*
52555661 TGTAACACCCCAAACCCGTGACCGTCACCGGATTTGACCACGTGGTGTTACTGGGCTTACTTCCC
1 TGTAACACCCCAAACCCGTGACCGTCACCGGATTTGACCACGTGGTGTTACCGGGCTTACTTCCC
52555726 TTATTTCT
66 TTATTTCT
52555734 CTCTTGGAAA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 72 1.00
ACGTcount: A:0.22, C:0.31, G:0.18, T:0.29
Consensus pattern (81 bp):
TGTAACACCCCAAACCCGTGACCGTCACCGGATTTGACCACGTGGTGTTACCGGGCTTACTTCCC
TTATTTCTTAATAAAA
Found at i:52557086 original size:31 final size:31
Alignment explanation
Indices: 52557062--52557135 Score: 102
Period size: 28 Copynumber: 2.5 Consensus size: 31
52557052 ATATTGAGTC
52557062 CGCACACTTAGTGCTATATATATATTCAGCT
1 CGCACACTTAGTGCTATATATATATTCAGCT
*
52557093 CGCACACTTAGTGC--TATATA-A-TCAAACT
1 CGCACACTTAGTGCTATATATATATTC-AGCT
52557121 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
52557136 GTACAAATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
27 2 0.05
28 18 0.45
29 6 0.15
31 14 0.35
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.31
Consensus pattern (31 bp):
CGCACACTTAGTGCTATATATATATTCAGCT
Found at i:52557131 original size:28 final size:29
Alignment explanation
Indices: 52557062--52557135 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 29
52557052 ATATTGAGTC
*
52557062 CGCACACTTAGTGCTATATATATATTCAGCT
1 CGCACACTTAGTGCTATATATATA-T-AACT
52557093 CGCACACTTAGTGCTATATA-ATCA-AACT
1 CGCACACTTAGTGCTATATATAT-ATAACT
52557121 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
52557136 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
28 18 0.44
30 2 0.05
31 21 0.51
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATATATAACT
Found at i:52557621 original size:2 final size:2
Alignment explanation
Indices: 52557614--52557639 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
52557604 CATACTCATG
52557614 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
52557640 CACACATAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:52563716 original size:81 final size:81
Alignment explanation
Indices: 52563581--52563741 Score: 313
Period size: 81 Copynumber: 2.0 Consensus size: 81
52563571 CTCTGATACC
52563581 AATAAAATGTAACACCCCAAACCCGTGACCGTCACCGGATTTGACCACGTGGTGTTACCGGGCTT
1 AATAAAATGTAACACCCCAAACCCGTGACCGTCACCGGATTTGACCACGTGGTGTTACCGGGCTT
52563646 ACTTCCCTTATTTCTT
66 ACTTCCCTTATTTCTT
*
52563662 AATAAAATGTAACACCCCAAACCCGTGACCGTCACCGGATTTGACCACGTGGTGTTACTGGGCTT
1 AATAAAATGTAACACCCCAAACCCGTGACCGTCACCGGATTTGACCACGTGGTGTTACCGGGCTT
52563727 ACTTCCCTTATTTCT
66 ACTTCCCTTATTTCT
52563742 CTCTTGGAAA
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (81 bp):
AATAAAATGTAACACCCCAAACCCGTGACCGTCACCGGATTTGACCACGTGGTGTTACCGGGCTT
ACTTCCCTTATTTCTT
Found at i:52565095 original size:31 final size:31
Alignment explanation
Indices: 52565071--52565144 Score: 102
Period size: 28 Copynumber: 2.5 Consensus size: 31
52565061 ATATTGAGTC
52565071 CGCACACTTAGTGCTATATATATATTCAGCT
1 CGCACACTTAGTGCTATATATATATTCAGCT
*
52565102 CGCACACTTAGTGC--TATATA-A-TCAAACT
1 CGCACACTTAGTGCTATATATATATTC-AGCT
52565130 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
52565145 GTACAAATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
27 2 0.05
28 18 0.45
29 6 0.15
31 14 0.35
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.31
Consensus pattern (31 bp):
CGCACACTTAGTGCTATATATATATTCAGCT
Found at i:52565140 original size:28 final size:29
Alignment explanation
Indices: 52565071--52565144 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 29
52565061 ATATTGAGTC
*
52565071 CGCACACTTAGTGCTATATATATATTCAGCT
1 CGCACACTTAGTGCTATATATATA-T-AACT
52565102 CGCACACTTAGTGCTATATA-ATCA-AACT
1 CGCACACTTAGTGCTATATATAT-ATAACT
52565130 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
52565145 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
28 18 0.44
30 2 0.05
31 21 0.51
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATATATAACT
Found at i:52565630 original size:2 final size:2
Alignment explanation
Indices: 52565623--52565650 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
52565613 CATACTCATG
52565623 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
52565651 CACACATAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:52569197 original size:40 final size:40
Alignment explanation
Indices: 52569145--52569364 Score: 242
Period size: 40 Copynumber: 5.5 Consensus size: 40
52569135 TATAAATATG
* * *
52569145 TGTGGCACTTAGTGTGCGATTCGAGCTAGCTTCAGTTATA
1 TGTGGCACTTAGTGTGCGATTCGAGATAGCTTCGGCTATA
* * **
52569185 TGTGGCACTTAGTGTGCGATTCAAGATAGATTCGATTATA
1 TGTGGCACTTAGTGTGCGATTCGAGATAGCTTCGGCTATA
* * *
52569225 TATGGCACTTAATGTGCGATTTGAGATAGCTTCGGCTATA
1 TGTGGCACTTAGTGTGCGATTCGAGATAGCTTCGGCTATA
* *
52569265 TGTGGCATTTAGTGTGCGATTCGAAATAGCTTCGGCTATA
1 TGTGGCACTTAGTGTGCGATTCGAGATAGCTTCGGCTATA
* * * * * * *
52569305 TATGGTACTTAGTGTACGAGATCAAGATAACTTCGGCTATG
1 TGTGGCACTTAGTGTGCGA-TTCGAGATAGCTTCGGCTATA
**
52569346 TAAGGCACTTAGTGTGCGA
1 TGTGGCACTTAGTGTGCGA
52569365 GATTATAATA
Statistics
Matches: 150, Mismatches: 29, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
40 118 0.79
41 32 0.21
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (40 bp):
TGTGGCACTTAGTGTGCGATTCGAGATAGCTTCGGCTATA
Found at i:52569387 original size:120 final size:119
Alignment explanation
Indices: 52569145--52569364 Score: 271
Period size: 120 Copynumber: 1.8 Consensus size: 119
52569135 TATAAATATG
** * * * *
52569145 TGTGGCACTTAGTGTGCGATTCGAGCTAGCTTCAGTTATATGTGGCACTTAGTGTGCGATTCAAG
1 TGTGGCACTTAGTGTGCGATTCGAAATAGCTTCAGCTATATATGGCACTTAGTGTACGAATCAAG
* * *
52569210 ATAGATTCGATTATATATGGCACTTAATGTGCGATTTGAGATAGCTTCGGCTATA
66 ATAGATTCGACTATATAAGGCACTTAATGTGCGATTTGAGATAGCTTCGAC-ATA
* * *
52569265 TGTGGCATTTAGTGTGCGATTCGAAATAGCTTCGGCTATATATGGTACTTAGTGTACGAGATCAA
1 TGTGGCACTTAGTGTGCGATTCGAAATAGCTTCAGCTATATATGGCACTTAGTGTACGA-ATCAA
* * *
52569330 GATA-ACTTCGGCTATGTAAGGCACTTAGTGTGCGA
65 GATAGA-TTCGACTATATAAGGCACTTAATGTGCGA
52569365 GATTATAATA
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
120 52 0.62
121 32 0.38
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (119 bp):
TGTGGCACTTAGTGTGCGATTCGAAATAGCTTCAGCTATATATGGCACTTAGTGTACGAATCAAG
ATAGATTCGACTATATAAGGCACTTAATGTGCGATTTGAGATAGCTTCGACATA
Found at i:52573166 original size:28 final size:29
Alignment explanation
Indices: 52573125--52573180 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
52573115 CCAGGTTTTT
*
52573125 GGACACGGGTGTGT-CTAGGCCATGTGAG
1 GGACACGGGCGTGTGCTAGGCCATGTGAG
* *
52573153 GGACACGGGCGTGTGCTTGGCCGTGTGA
1 GGACACGGGCGTGTGCTAGGCCATGTGA
52573181 TAACCCCTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 13 0.54
29 11 0.46
ACGTcount: A:0.14, C:0.20, G:0.45, T:0.21
Consensus pattern (29 bp):
GGACACGGGCGTGTGCTAGGCCATGTGAG
Found at i:52575127 original size:32 final size:32
Alignment explanation
Indices: 52575086--52575181 Score: 192
Period size: 32 Copynumber: 3.0 Consensus size: 32
52575076 GGAATTTGTG
52575086 ATTAAGGTGTCAAACCCTCTAGGCAAGTCAGT
1 ATTAAGGTGTCAAACCCTCTAGGCAAGTCAGT
52575118 ATTAAGGTGTCAAACCCTCTAGGCAAGTCAGT
1 ATTAAGGTGTCAAACCCTCTAGGCAAGTCAGT
52575150 ATTAAGGTGTCAAACCCTCTAGGCAAGTCAGT
1 ATTAAGGTGTCAAACCCTCTAGGCAAGTCAGT
52575182 CCTAGTTGGT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 64 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (32 bp):
ATTAAGGTGTCAAACCCTCTAGGCAAGTCAGT
Found at i:52580505 original size:28 final size:29
Alignment explanation
Indices: 52580473--52580528 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
52580463 TTCGAGTTTT
* *
52580473 GGACATGGGCGTGT-CTAGGCCATGTGAG
1 GGACACGGACGTGTGCTAGGCCATGTGAG
* *
52580501 GGACACGGACGTGTGCTTGGCCCTGTGA
1 GGACACGGACGTGTGCTAGGCCATGTGA
52580529 TAACCCCTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 12 0.52
29 11 0.48
ACGTcount: A:0.16, C:0.21, G:0.41, T:0.21
Consensus pattern (29 bp):
GGACACGGACGTGTGCTAGGCCATGTGAG
Found at i:52582918 original size:42 final size:44
Alignment explanation
Indices: 52582817--52582976 Score: 120
Period size: 43 Copynumber: 3.7 Consensus size: 44
52582807 AGCTCGTACA
* * * * *
52582817 ATGCGAACGTCCCAGA-CGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGATAGTGGTCTTAAACGAAATCAAATATCG
*
52582860 ATGCC-ACTGTCCCAGATAG-GGTCTTAAACGAAATGAAATAT-G
1 ATGCCAAC-GTCCCAGATAGTGGTCTTAAACGAAATCAAATATCG
* * * * *
52582902 ATGCCAACGTCCCAGAT-GTGGTCCTACACATAAATCATAA-GTCA
1 ATGCCAACGTCCCAGATAGTGGTCTTAAAC-GAAATCA-AATATCG
*
52582946 ATGCCAACGTCCCA-A-ACGTGGTCTTACACGA
1 ATGCCAACGTCCCAGATA-GTGGTCTTAAACGA
52582977 TAACACATAT
Statistics
Matches: 94, Mismatches: 14, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
41 1 0.01
42 25 0.27
43 40 0.43
44 28 0.30
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (44 bp):
ATGCCAACGTCCCAGATAGTGGTCTTAAACGAAATCAAATATCG
Found at i:52590545 original size:44 final size:42
Alignment explanation
Indices: 52590403--52590561 Score: 200
Period size: 43 Copynumber: 3.7 Consensus size: 42
52590393 AGCTCGTACA
* *
52590403 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AATCAAATATCG
1 ATGCCAACGTCCCAGATGTGGTCTTACACGTAAATC-AA-ATCG
52590446 ATGCC-ACTGTCCCAGATAG-GGTCTTACACG-AAATCAAATACG
1 ATGCCAAC-GTCCCAGAT-GTGGTCTTACACGTAAATCAAAT-CG
*
52590488 ATGCCAACGTCCCAGATGTGGTCTTATACGTAAATCATAAGTCG
1 ATGCCAACGTCCCAGATGTGGTCTTACACGTAAATCA-AA-TCG
52590532 ATGCCAACGTCCCAGATGTGGTCTTACACG
1 ATGCCAACGTCCCAGATGTGGTCTTACACG
52590562 ATAACACATA
Statistics
Matches: 103, Mismatches: 4, Indels: 17
0.83 0.03 0.14
Matches are distributed among these distances:
41 3 0.03
42 30 0.29
43 35 0.34
44 34 0.33
45 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGATGTGGTCTTACACGTAAATCAAATCG
Found at i:52590555 original size:86 final size:85
Alignment explanation
Indices: 52590403--52590562 Score: 227
Period size: 86 Copynumber: 1.9 Consensus size: 85
52590393 AGCTCGTACA
*
52590403 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGATAGGGT
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGATAGGGT
52590468 CTTACACGAAATCAAATACG
66 CTTACACGAAATCAAATACG
* * *
52590488 ATGCCAACGTCCCAGATGTGGTCTTATACGTAAATCATAA-GTCGATGCCAAC-GTCCCAGAT-G
1 ATGCCAACGTCCCAGACGTGGTCTTACACGT-AATCA-AATATCGATGCC-ACTGTCCCAGATAG
52590550 TGGTCTTACACGA
63 -GGTCTTACACGA
52590563 TAACACATAT
Statistics
Matches: 67, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
85 29 0.43
86 34 0.51
87 4 0.06
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (85 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGATAGGGT
CTTACACGAAATCAAATACG
Found at i:52593850 original size:43 final size:42
Alignment explanation
Indices: 52593788--52593936 Score: 174
Period size: 43 Copynumber: 3.5 Consensus size: 42
52593778 CATACCAATG
* * *
52593788 CATATCCCAAATATAGTCTTACATGTAATCTAATATCAATAC
1 CATATCCCAAATATGGTCTTACATGAAATCTCATATCAATAC
* * * *
52593830 CAATAGCCCAACTATGGTCTTATATGAAATCTCATATCAACAC
1 C-ATATCCCAAATATGGTCTTACATGAAATCTCATATCAATAC
** * * *
52593873 CATATCTGAGATATGGTCTTACATGAAATCTCATAT-GATGC
1 CATATCCCAAATATGGTCTTACATGAAATCTCATATCAATAC
52593914 CATATCCCAAATATGGTCTTACA
1 CATATCCCAAATATGGTCTTACA
52593937 CGTAGTCTTA
Statistics
Matches: 87, Mismatches: 19, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
41 22 0.25
42 30 0.34
43 35 0.40
ACGTcount: A:0.36, C:0.22, G:0.10, T:0.32
Consensus pattern (42 bp):
CATATCCCAAATATGGTCTTACATGAAATCTCATATCAATAC
Found at i:52593899 original size:42 final size:42
Alignment explanation
Indices: 52593797--52593908 Score: 127
Period size: 42 Copynumber: 2.6 Consensus size: 42
52593787 GCATATCCCA
* * * *
52593797 AATATAGTCTTACATGTAATCTAATATCAATACCAATAGCCC
1 AATATGGTCTTACATGAAATCTCATATCAACACCAATAGCCC
* * **
52593839 AACTATGGTCTTATATGAAATCTCATATCAACACC-ATATCTG
1 AA-TATGGTCTTACATGAAATCTCATATCAACACCAATAGCCC
52593881 AGATATGGTCTTACATGAAATCTCATAT
1 A-ATATGGTCTTACATGAAATCTCATAT
52593909 GATGCCATAT
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
42 31 0.53
43 28 0.47
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.33
Consensus pattern (42 bp):
AATATGGTCTTACATGAAATCTCATATCAACACCAATAGCCC
Found at i:52597288 original size:17 final size:18
Alignment explanation
Indices: 52597264--52597308 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
52597254 GTGGGGAGGG
52597264 ATAA-TTTATAA-ATTAA
1 ATAATTTTATAATATTAA
*
52597280 ATAATTTTA-AATTTTAA
1 ATAATTTTATAATATTAA
52597297 ATAATCTTTATA
1 ATAAT-TTTATA
52597309 CCCTTTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 6 0.25
17 13 0.54
18 4 0.17
19 1 0.04
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (18 bp):
ATAATTTTATAATATTAA
Found at i:52597557 original size:6 final size:6
Alignment explanation
Indices: 52597541--52597571 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
52597531 CACTTTCTCT
*
52597541 CCACCC TCACCC CCACCC CCACCC CCACCC C
1 CCACCC CCACCC CCACCC CCACCC CCACCC C
52597572 AACTCCCACG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.16, C:0.81, G:0.00, T:0.03
Consensus pattern (6 bp):
CCACCC
Found at i:52597579 original size:18 final size:18
Alignment explanation
Indices: 52597541--52597580 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
52597531 CACTTTCTCT
* *
52597541 CCACCCTCACCCCCACCC
1 CCACCCCCACCCCAACCC
*
52597559 CCACCCCCACCCCAACTC
1 CCACCCCCACCCCAACCC
52597577 CCAC
1 CCAC
52597581 GTTCTCTCCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.20, C:0.75, G:0.00, T:0.05
Consensus pattern (18 bp):
CCACCCCCACCCCAACCC
Found at i:52599790 original size:27 final size:28
Alignment explanation
Indices: 52599752--52599804 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
52599742 TTTGACAATT
52599752 TTAAATATCAAATT-GAAAAAAAAAAAC
1 TTAAATATCAAATTAGAAAAAAAAAAAC
* *
52599779 TTAAGTATCAAATTAGCAAAAAAAAA
1 TTAAATATCAAATTAGAAAAAAAAAA
52599805 TTCTAAATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.64, C:0.08, G:0.06, T:0.23
Consensus pattern (28 bp):
TTAAATATCAAATTAGAAAAAAAAAAAC
Found at i:52601876 original size:13 final size:13
Alignment explanation
Indices: 52601858--52601886 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
52601848 GGATGAAAAA
52601858 TATTTCTATATTT
1 TATTTCTATATTT
52601871 TATTTCTATATTT
1 TATTTCTATATTT
52601884 TAT
1 TAT
52601887 AAAAATTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (13 bp):
TATTTCTATATTT
Found at i:52603355 original size:3 final size:3
Alignment explanation
Indices: 52603349--52603395 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
52603339 TTAATCCTCC
52603349 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
52603396 CTTTTTTAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:52603543 original size:7 final size:7
Alignment explanation
Indices: 52603531--52603567 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
52603521 TAATTCTTCT
52603531 TTTTTTA
1 TTTTTTA
52603538 TTTTTTA
1 TTTTTTA
52603545 TTTTTTA
1 TTTTTTA
52603552 --TTTTA
1 TTTTTTA
52603557 -TTTTTA
1 TTTTTTA
52603563 TTTTT
1 TTTTT
52603568 GTTGTTACCC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 5 0.18
6 5 0.18
7 18 0.64
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTTA
Found at i:52612140 original size:28 final size:28
Alignment explanation
Indices: 52612041--52612142 Score: 118
Period size: 28 Copynumber: 3.6 Consensus size: 28
52612031 TCGATAAGGC
* * * *
52612041 CGCACACTTAGAGCATGTATAAT-AAGCC
1 CGCACACTTAGTGC-TATATAATCAAACT
*
52612069 CGCACACTTAGTGCT-TAATAGTCAAACT
1 CGCACACTTAGTGCTAT-ATAATCAAACT
*
52612097 CTCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
52612125 CGCACACTTAGTGCTATA
1 CGCACACTTAGTGCTATA
52612143 CAATTTGAAT
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
26 1 0.02
27 5 0.08
28 57 0.89
29 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:52613696 original size:44 final size:44
Alignment explanation
Indices: 52613648--52613874 Score: 145
Period size: 44 Copynumber: 5.2 Consensus size: 44
52613638 GCGGAGTAGA
* *
52613648 TCGAAGCTACAAATTTCTTCTCCTTGAAATGGCACTAGAGCGGC
1 TCGAAGCTACAAATTTCTTCTCCTTGAAATGGCACTGGAGCAGC
* * * ** * * *
52613692 TCGAAGCTAC-AATTCGCATCTCCTTGAAGTTTCAGTGGAGTAGA
1 TCGAAGCTACAAATT-TCTTCTCCTTGAAATGGCACTGGAGCAGC
* * * *
52613736 TCGAAGCTACAAATCTCTTCTCCCTGAAATGGCACTAGAGCTGC
1 TCGAAGCTACAAATTTCTTCTCCTTGAAATGGCACTGGAGCAGC
* * * * * ** * *
52613780 TTGAAGCCAC-AGTTCCTATCTCCTTGAAGTTCCAAC-GGAGTAGA
1 TCGAAGCTACAAATTTCT-TCTCCTTGAAATGGC-ACTGGAGCAGC
* * * * * *
52613824 TCGAGGCTACAAATCTCTTCTCCCTAAAATGGCATTGGAGCGGC
1 TCGAAGCTACAAATTTCTTCTCCTTGAAATGGCACTGGAGCAGC
52613868 TCGAAGC
1 TCGAAGC
52613875 CACAGTTCGT
Statistics
Matches: 126, Mismatches: 51, Indels: 12
0.67 0.27 0.06
Matches are distributed among these distances:
43 9 0.07
44 108 0.86
45 9 0.07
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (44 bp):
TCGAAGCTACAAATTTCTTCTCCTTGAAATGGCACTGGAGCAGC
Found at i:52614754 original size:88 final size:88
Alignment explanation
Indices: 52613620--52614733 Score: 1573
Period size: 88 Copynumber: 12.7 Consensus size: 88
52613610 CAATAATTCT
* * * * * * *
52613620 TATCTCCTTAAAGTTTCAGCGGAGTAGATCGAAGCTACAAATTTCTTCTCCTTGAAATGGCACTA
1 TATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTG
* *
52613685 GAGCGGCTCGAAGCTACAATTCG
66 GAGCGGCTCGAAGCCACAGTTCG
* * * * * *
52613708 CATCTCCTTGAAGTTTCAGTGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGGCACTA
1 TATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTG
* * *
52613773 GAGCTGCTTGAAGCCACAGTTCC
66 GAGCGGCTCGAAGCCACAGTTCG
* *
52613796 TATCTCCTTGAAGTTCCAACGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTAAAATGGCATTG
1 TATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTG
52613861 GAGCGGCTCGAAGCCACAGTTCG
66 GAGCGGCTCGAAGCCACAGTTCG
* **
52613884 TATTTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGATATTG
1 TATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTG
* *
52613949 GAGCGGCTCAAAGCGACAGTTCG
66 GAGCGGCTCGAAGCCACAGTTCG
* * *
52613972 TATCTTCTTGAAGATCCAGCGGAGTAGATTGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTG
1 TATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTG
*
52614037 GAGCGGCTCGAAGCCACAGTTTG
66 GAGCGGCTCGAAGCCACAGTTCG
* * *
52614060 TATCTCCTTGAAGTTCCAGCAGAGTAGATCGAGGCCATAAATCTCTTCTCCCTGAAATGGCATTG
1 TATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTG
** * * *
52614125 GAGTAGTTCGAAGCCACAATTCA
66 GAGCGGCTCGAAGCCACAGTTCG
* * * * * *
52614148 TATCTCCTTAAAGTTCCAACGGAGAAGATCGAGGCTAAAAATCTTTTCTCCCTAAAATGGCATTG
1 TATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTG
*
52614213 GAGCGGCTTGAAGCCACAGTTCG
66 GAGCGGCTCGAAGCCACAGTTCG
* * *
52614236 TATCTCCTTGAAGTTCTAGCGGAGTAGATCAAGGCTACAAATCTCTTCTCCCGGAAATGGCATTG
1 TATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTG
* * *
52614301 GAGTGGCTCGAAGCCATATTTCG
66 GAGCGGCTCGAAGCCACAGTTCG
*
52614324 TATCTCCTTGAAGTTCCAGCGGAGTAGATCTAGGCTACAAATCTCTTCTCCCTGAAATGGCATTG
1 TATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTG
52614389 GAGCGGCTCGAAGCCACAGTTCG
66 GAGCGGCTCGAAGCCACAGTTCG
* * * * *
52614412 TATCTCCTTGAAGTTCCAGCGGAGTAGATCTAGGTTACAAATCTCTTCTCCGTAAAATGACATTG
1 TATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTG
*
52614477 GAGCAGCTCGAAGCCACAGTTCG
66 GAGCGGCTCGAAGCCACAGTTCG
* * * *
52614500 TATCTCCTTGAAGTTCCAGCGGAGAAGATTGAGGCTACAAATATCTTCTCCCTGAAATAGCATTG
1 TATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTG
*
52614565 GAGCGGCTCAAAGCCACAGTTCG
66 GAGCGGCTCGAAGCCACAGTTCG
* *
52614588 TATCTCCTTGAAGTTCCAACGGAATAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTA
1 TATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATT-
* * * *
52614653 GAAG-GACTCGAAGCCTCAATTCG
65 GGAGCGGCTCGAAGCCACAGTTCG
* * *
52614676 TATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTTTTCCTGAAAT
1 TATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAAT
52614734 TACAATGGAA
Statistics
Matches: 911, Mismatches: 114, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
88 908 1.00
89 3 0.00
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (88 bp):
TATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTG
GAGCGGCTCGAAGCCACAGTTCG
Found at i:52614909 original size:45 final size:45
Alignment explanation
Indices: 52614802--52615349 Score: 346
Period size: 44 Copynumber: 11.9 Consensus size: 45
52614792 AGAGCAGATC
* ** * ** **
52614802 ATAGCAAACCTTATCTCCCCAAAGTAGCAGTGTAGCAGGTTGAAG
1 ATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGGGCAGACTGAAG
* *
52614847 TTA-CAAGTCTTATCTCCCTGAAGTTGCAGTGGGGCAGACTGAAG
1 ATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGGGCAGACTGAAG
* * **
52614891 GTAGCGAATCTTATCTCCCTGAAGTTGCAGTGGGGCAGGTTGAAG
1 ATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGGGCAGACTGAAG
* * **
52614936 CTACAAATCA-CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAG
1 ------AT-AGCAAATCTTATCTCCCTGAAGTTGCAGTGGGGCAGACTGAAG
* * *
52614987 -TTGCAAGTCTTATCTCCCTGAAGTTGCAATGGGGCAGACTGAAG
1 ATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGGGCAGACTGAAG
* * * *
52615031 ATAGCGAATCTTATCTCCCTGAAGTTGCAATGGGGCAAATTGAAG
1 ATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGGGCAGACTGAAG
* * * *
52615076 CTACAAATCA-CAAACCTTATCTCTCTGAAGTTGCAGTCGAGCAGGA-TGAAG
1 ------AT-AGCAAATCTTATCTCCCTGAAGTTGCAGTGGGGCA-GACTGAAG
* * * * ** *
52615127 TTA-CAAGTCTTATCTCCCTAAAGTTACAGTGCAGCAAACTGAAG
1 ATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGGGCAGACTGAAG
* *
52615171 ATAGCAAAT-TTGATCTCCCTAAAGTTGCAATGGGGCAGA-TCGAAG
1 ATAGCAAATCTT-ATCTCCCTGAAGTTGCAGTGGGGCAGACT-GAAG
* *
52615216 CTA-CAAATCACAAACTTTATCTCCCTGAAGTTGCAGTGGGGCA-AGTTGAAG
1 ATAGCAAAT------C-TTATCTCCCTGAAGTTGCAGTGGGGCAGA-CTGAAG
* * * *
52615267 TTA--AAAGTCTTATCTTCCTGAAGTTGTAGTGGAGCAGACTGAAG
1 ATAGCAAA-TCTTATCTCCCTGAAGTTGCAGTGGGGCAGACTGAAG
* * * *
52615311 ATAGCAGATCTTATCTCCTTGAAGTTGCAATGGAGCAGA
1 ATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGGGCAGA
52615350 TCAAGCTACA
Statistics
Matches: 399, Mismatches: 68, Indels: 72
0.74 0.13 0.13
Matches are distributed among these distances:
43 1 0.00
44 143 0.36
45 140 0.35
46 2 0.01
50 4 0.01
51 103 0.26
52 6 0.02
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (45 bp):
ATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGGGCAGACTGAAG
Found at i:52615065 original size:140 final size:140
Alignment explanation
Indices: 52614806--52615360 Score: 774
Period size: 140 Copynumber: 4.0 Consensus size: 140
52614796 CAGATCATAG
* * *
52614806 CAAACCTTATCTCCCCAAAGTAGCAGTGTAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGT
1 CAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGT
* * * *
52614871 TGCAGTGGGGCAGACTGAAGGTAGCGAATCTTATCTCCCTGAAGTTGCAGTGGGGCAGGTTGAAG
66 TGCAGTGGAGCAGACTGAAGATAGCGAATCTTATCTCCCTGAAGTTGCAATGGGGCAGATTGAAG
52614936 CTACAAATCA
131 CTACAAATCA
* *
52614946 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTGCAAGTCTTATCTCCCTGAAGT
1 CAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGT
* * *
52615011 TGCAATGGGGCAGACTGAAGATAGCGAATCTTATCTCCCTGAAGTTGCAATGGGGCAAATTGAAG
66 TGCAGTGGAGCAGACTGAAGATAGCGAATCTTATCTCCCTGAAGTTGCAATGGGGCAGATTGAAG
52615076 CTACAAATCA
131 CTACAAATCA
* * * * *
52615086 CAAACCTTATCTCTCTGAAGTTGCAGTCGAGCAGGATGAAGTTACAAGTCTTATCTCCCTAAAGT
1 CAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGT
* * * * * *
52615151 TACAGTGCAGCAAACTGAAGATAGCAAAT-TTGATCTCCCTAAAGTTGCAATGGGGCAGATCGAA
66 TGCAGTGGAGCAGACTGAAGATAGCGAATCTT-ATCTCCCTGAAGTTGCAATGGGGCAGATTGAA
52615215 GCTACAAATCA
130 GCTACAAATCA
* * * * * *
52615226 CAAACTTTATCTCCCTGAAGTTGCAGTGGGGCAAGTTGAAGTTAAAAGTCTTATCTTCCTGAAGT
1 CAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGT
* * * *
52615291 TGTAGTGGAGCAGACTGAAGATAGC-AGATCTTATCTCCTTGAAGTTGCAATGGAGCAGA-TCAA
66 TGCAGTGGAGCAGACTGAAGATAGCGA-ATCTTATCTCCCTGAAGTTGCAATGGGGCAGATTGAA
52615354 GCTACAA
130 GCTACAA
52615361 TTGCAGAAGA
Statistics
Matches: 368, Mismatches: 44, Indels: 7
0.88 0.11 0.02
Matches are distributed among these distances:
139 12 0.03
140 354 0.96
141 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.26
Consensus pattern (140 bp):
CAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGT
TGCAGTGGAGCAGACTGAAGATAGCGAATCTTATCTCCCTGAAGTTGCAATGGGGCAGATTGAAG
CTACAAATCA
Found at i:52616074 original size:15 final size:15
Alignment explanation
Indices: 52616048--52616085 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
52616038 AAAAAGGTGA
52616048 TTTT-TTTTTCTTC-
1 TTTTCTTTTTCTTCG
52616061 TTTTCTTTTATCTTCG
1 TTTTCTTTT-TCTTCG
52616077 TTTTCTTTT
1 TTTTCTTTT
52616086 CCTAAATCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.18
14 4 0.18
15 5 0.23
16 9 0.41
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.79
Consensus pattern (15 bp):
TTTTCTTTTTCTTCG
Found at i:52617047 original size:16 final size:16
Alignment explanation
Indices: 52617023--52617053 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
52617013 TAATTCTTCT
*
52617023 TTTTTTTTTTATTTTA
1 TTTTCTTTTTATTTTA
52617039 TTTTCTTTTTATTTT
1 TTTTCTTTTTATTTT
52617054 TGCTGTTACC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.03, G:0.00, T:0.87
Consensus pattern (16 bp):
TTTTCTTTTTATTTTA
Found at i:52621774 original size:23 final size:24
Alignment explanation
Indices: 52621738--52621791 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
52621728 CCTACTAAGG
*
52621738 AAAAATAGATGGAA-AAAAGAAGAA
1 AAAAATAGAAGGAATAAAAGAA-AA
52621762 AAAAAT-GAAGGAATGTAAAAGAAAA
1 AAAAATAGAAGGAA--TAAAAGAAAA
52621787 AAAAA
1 AAAAA
52621792 CAATAAGGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 6 0.23
24 6 0.23
25 7 0.27
26 7 0.27
ACGTcount: A:0.72, C:0.00, G:0.19, T:0.09
Consensus pattern (24 bp):
AAAAATAGAAGGAATAAAAGAAAA
Found at i:52628090 original size:56 final size:56
Alignment explanation
Indices: 52628004--52628115 Score: 197
Period size: 56 Copynumber: 2.0 Consensus size: 56
52627994 ACTCATAAAG
* *
52628004 ATTGGAAGACAGTTGGAGAGTCAACATACTATCAGCTAGTCCAGCTTTGGTATATA
1 ATTGGAAGACAGTTGGAGAGTCAACATACTATCAACTAGTCCAGCTTTGGCATATA
*
52628060 ATTGGAAGACGGTTGGAGAGTCAACATACTATCAACTAGTCCAGCTTTGGCATATA
1 ATTGGAAGACAGTTGGAGAGTCAACATACTATCAACTAGTCCAGCTTTGGCATATA
52628116 GGCACTTTTA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (56 bp):
ATTGGAAGACAGTTGGAGAGTCAACATACTATCAACTAGTCCAGCTTTGGCATATA
Found at i:52632482 original size:53 final size:53
Alignment explanation
Indices: 52632421--52632525 Score: 129
Period size: 53 Copynumber: 2.0 Consensus size: 53
52632411 ATAAACTACT
* * * * *
52632421 ATAAGGCAAAGATCCCATGCAAGAACATGCCAAGGCATGGCAATGGTGAGTTC
1 ATAAGGCAAAGATACCACGCAAGAACATGCCAAGACATGGAAATGGTAAGTTC
* * * *
52632474 ATAAGGCAAGGATACCACGTAAGACCATGTCAAGACATGGAAATGGTAAGTT
1 ATAAGGCAAAGATACCACGCAAGAACATGCCAAGACATGGAAATGGTAAGTT
52632526 TAAAAAGGAA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.18
Consensus pattern (53 bp):
ATAAGGCAAAGATACCACGCAAGAACATGCCAAGACATGGAAATGGTAAGTTC
Found at i:52633163 original size:85 final size:85
Alignment explanation
Indices: 52633020--52633275 Score: 494
Period size: 85 Copynumber: 3.0 Consensus size: 85
52633010 TGGAACAATT
*
52633020 AGGAAACAACAACAGTGATGTGGTTTTGAAAAATCACTAAAAATTGTAGAAATGGAATTAAATGG
1 AGGAAACAACAGCAGTGATGTGGTTTTGAAAAATCACTAAAAATTGTAGAAATGGAATTAAATGG
52633085 TGAATGAGATATAGAATTAA
66 TGAATGAGATATAGAATTAA
52633105 AGGAAACAACAGCAGTGATGTGGTTTTGAAAAATCACTAAAAATTGTAGAAATGGAATTAAATGG
1 AGGAAACAACAGCAGTGATGTGGTTTTGAAAAATCACTAAAAATTGTAGAAATGGAATTAAATGG
52633170 TGAATGAGATATAGAATTAA
66 TGAATGAGATATAGAATTAA
*
52633190 AGGAAACAACAGCAGTGATGTGGTTTTGAAAAATCACTAAAAATTGTAGAAATAGAATTAAATGG
1 AGGAAACAACAGCAGTGATGTGGTTTTGAAAAATCACTAAAAATTGTAGAAATGGAATTAAATGG
52633255 TGAATGAGATATAGAATTAA
66 TGAATGAGATATAGAATTAA
52633275 A
1 A
52633276 TATTATTGAG
Statistics
Matches: 169, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 169 1.00
ACGTcount: A:0.47, C:0.06, G:0.21, T:0.26
Consensus pattern (85 bp):
AGGAAACAACAGCAGTGATGTGGTTTTGAAAAATCACTAAAAATTGTAGAAATGGAATTAAATGG
TGAATGAGATATAGAATTAA
Found at i:52634683 original size:21 final size:20
Alignment explanation
Indices: 52634654--52634693 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
52634644 CTTTGACACA
52634654 GGGCACACGCCCATGTGGAT
1 GGGCACACGCCCATGTGGAT
52634674 GGGCAACACGCCCATGTGGA
1 GGGC-ACACGCCCATGTGGA
52634694 GATTGAACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.23, C:0.30, G:0.35, T:0.12
Consensus pattern (20 bp):
GGGCACACGCCCATGTGGAT
Found at i:52639190 original size:46 final size:45
Alignment explanation
Indices: 52639082--52639196 Score: 149
Period size: 46 Copynumber: 2.5 Consensus size: 45
52639072 TGGTGCCATG
* *
52639082 GTGTCTTTCAACCATGGTCTTATTTATTCTCAACTTGATGTCATA
1 GTGTCTTTCAACCATGGTCTTATTCATTCTCAACATGATGTCATA
* * * *
52639127 GTGCCTTTCAACCATGGTCTTATTCATTTTTCATCATGTTGTCATA
1 GTGTCTTTCAACCATGGTCTTATTCA-TTCTCAACATGATGTCATA
* *
52639173 GTTTCTTTCAACTATGGTCTTATT
1 GTGTCTTTCAACCATGGTCTTATT
52639197 TGTTTGATTC
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
45 24 0.40
46 36 0.60
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (45 bp):
GTGTCTTTCAACCATGGTCTTATTCATTCTCAACATGATGTCATA
Found at i:52639233 original size:45 final size:45
Alignment explanation
Indices: 52639176--52639292 Score: 128
Period size: 45 Copynumber: 2.6 Consensus size: 45
52639166 TGTCATAGTT
* * *
52639176 TCTTTCAACTATGGTCTTATTTGTTTGATTCGTGATGCCATAACA
1 TCTTTCATCTATGGTCTTACTTGTTTGAATCGTGATGCCATAACA
* * * * **
52639221 TCTTTCATCTATGGTCTTACTCGATAGAATCGTGATGCTATAATT
1 TCTTTCATCTATGGTCTTACTTGTTTGAATCGTGATGCCATAACA
52639266 TCTTTCAAT-TATTGGTCTTACTTGTTT
1 TCTTTC-ATCTA-TGGTCTTACTTGTTT
52639293 TTGGTATGGT
Statistics
Matches: 58, Mismatches: 12, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
45 44 0.76
46 14 0.24
ACGTcount: A:0.21, C:0.17, G:0.15, T:0.47
Consensus pattern (45 bp):
TCTTTCATCTATGGTCTTACTTGTTTGAATCGTGATGCCATAACA
Found at i:52645332 original size:16 final size:15
Alignment explanation
Indices: 52645308--52645375 Score: 57
Period size: 16 Copynumber: 4.3 Consensus size: 15
52645298 AACATCTAAA
*
52645308 GTTTGGAATAACTCTT
1 GTTTAGAATAA-TCTT
52645324 GTTTAGAATAAT-TGT
1 GTTTAGAATAATCT-T
*
52645339 GTTTCAAGAATAATTTT
1 GTTT--AGAATAATCTT
*
52645356 GTTTAGAACAACTCTT
1 GTTTAGAATAA-TCTT
52645372 GTTT
1 GTTT
52645376 GTAATAATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
14 1 0.02
15 12 0.27
16 17 0.39
17 13 0.30
18 1 0.02
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.46
Consensus pattern (15 bp):
GTTTAGAATAATCTT
Found at i:52647626 original size:14 final size:15
Alignment explanation
Indices: 52647607--52647636 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
52647597 ATATATACAC
52647607 AATATAAT-AATAAT
1 AATATAATAAATAAT
52647621 AATATAATAAATAAT
1 AATATAATAAATAAT
52647636 A
1 A
52647637 CGAATTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AATATAATAAATAAT
Found at i:52647661 original size:26 final size:26
Alignment explanation
Indices: 52647621--52647676 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
52647611 TAATAATAAT
*
52647621 AATATAATAAATAATACGAATTTAAA
1 AATATAATAAATAATAAGAATTTAAA
** * *
52647647 AATATAATACTTAATAATAATTTCAA
1 AATATAATAAATAATAAGAATTTAAA
52647673 AATA
1 AATA
52647677 GCATTTACTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (26 bp):
AATATAATAAATAATAAGAATTTAAA
Found at i:52650214 original size:29 final size:28
Alignment explanation
Indices: 52650182--52650284 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
52650172 GGGACGAGAT
* *
52650182 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
52650211 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
52650240 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
52650269 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
52650285 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:52652963 original size:220 final size:220
Alignment explanation
Indices: 52652670--52653655 Score: 1506
Period size: 220 Copynumber: 4.5 Consensus size: 220
52652660 TGACAATACA
** * ** * * * *
52652670 GAGATGCCAAATCTGCAATCTTCGATCTACTCTCTGACAATATAGAGACGCCAAATTATCTTAGA
1 GAGATGCCAAATCTG-TTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTGGA
* * * * * * * * *
52652735 TTTGCTTCAACATAAAC-GCGTGAAAGCCAAATCTGCTATGTCTTTGATTTGCTCCTTGTAAACA
65 TCTGCTTCAGCATAAACATC-TGAAGGTCAGATCTGCTATGCCTTCGATTTGTTCCTTGTAAACA
* * *
52652799 CGAGGATGCCAAATTATCTTGGATCTGCTTTGATGTGAAAACATCCAAAGGTTAGATCTGCTATG
129 CAAAGATGCCAAATCATCTTGGATCTGCTTTGATGTGAAAACATCCAAAGGTTAGATCTGCTATG
52652864 TCTTCGATCTGCTCTCCGTCGAATATG
194 TCTTCGATCTGCTCTCCGTCGAATATG
52652891 GAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTGGAT
1 GAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTGGAT
*
52652956 CTGCTTCAGCATAAACATCTGAAGGTCAGATCTGCTATGCCTTCGATTTGTTCCTTGTAAACGCA
66 CTGCTTCAGCATAAACATCTGAAGGTCAGATCTGCTATGCCTTCGATTTGTTCCTTGTAAACACA
* * *
52653021 AAGATGCCAAATCATCTTGTATCCGCTTTGATGTGAAAACATCCAAAGGTTAGATCTACTATGTC
131 AAGATGCCAAATCATCTTGGATCTGCTTTGATGTGAAAACATCCAAAGGTTAGATCTGCTATGTC
*
52653086 TTTGATCTGCTCTCCGTCGAATATG
196 TTCGATCTGCTCTCCGTCGAATATG
*
52653111 GAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGATAATACAGAGATGCCAAATCATCTTGGAT
1 GAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTGGAT
** *
52653176 CTGCTTCAGTGTAAACATTTGAAGGTCAGATCTGCTATGCCTTCGATTTGTTCCTTGTAAACACA
66 CTGCTTCAGCATAAACATCTGAAGGTCAGATCTGCTATGCCTTCGATTTGTTCCTTGTAAACACA
* *
52653241 TAGATTCCAAATCATCTTGGATCTGCTTTGATGTGAAAACATCCAAAGGTTAGATCTGCTATGTC
131 AAGATGCCAAATCATCTTGGATCTGCTTTGATGTGAAAACATCCAAAGGTTAGATCTGCTATGTC
*
52653306 TTCAATCTGCTCTCCGTCGAATATG
196 TTCGATCTGCTCTCCGTCGAATATG
* * *
52653331 GAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAATATAGAGATGTCAAATCATCTTGAAT
1 GAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTGGAT
** * *
52653396 CTGCTTCAGTGTAAACATCTGAAGGTCAGATCTGCTATGCCTTCAATTTGTTCCTTCTAAACACA
66 CTGCTTCAGCATAAACATCTGAAGGTCAGATCTGCTATGCCTTCGATTTGTTCCTTGTAAACACA
*
52653461 AAGATGCCAAATCATCTTAGATCTGCTTTGATGTGAAAACATCCAAAGGTTAGATCTGCTATGTC
131 AAGATGCCAAATCATCTTGGATCTGCTTTGATGTGAAAACATCCAAAGGTTAGATCTGCTATGTC
* **
52653526 TTCGATCTGCTTTCTATCGAATATG
196 TTCGATCTGCTCTCCGTCGAATATG
*
52653551 GAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCAACTCATCTTGGAT
1 GAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTGGAT
* ** *
52653616 TTGCTTCAGTGTAAACATCTGAAGGCCAGATCTGCTATGC
66 CTGCTTCAGCATAAACATCTGAAGGTCAGATCTGCTATGC
52653656 TTTAGCCTGT
Statistics
Matches: 706, Mismatches: 58, Indels: 3
0.92 0.08 0.00
Matches are distributed among these distances:
220 690 0.98
221 16 0.02
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (220 bp):
GAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTGGAT
CTGCTTCAGCATAAACATCTGAAGGTCAGATCTGCTATGCCTTCGATTTGTTCCTTGTAAACACA
AAGATGCCAAATCATCTTGGATCTGCTTTGATGTGAAAACATCCAAAGGTTAGATCTGCTATGTC
TTCGATCTGCTCTCCGTCGAATATG
Found at i:52677829 original size:48 final size:47
Alignment explanation
Indices: 52677771--52677940 Score: 196
Period size: 48 Copynumber: 3.5 Consensus size: 47
52677761 TATGTCTCAA
* * * * *
52677771 ACATGGTCTTACACGAAATCACATATCGATGCCAATGTCATATCCCAG
1 ACATGGTCTTACA-GAGATCTCATATCGATGCCAATGCCATGTCCTAG
* * * *
52677819 ATATGGTCTTACATGGGATCTCATATCAATGCCAATGCCATGTCCTGG
1 ACATGGTCTTACA-GAGATCTCATATCGATGCCAATGCCATGTCCTAG
* *
52677867 ACATGATCTTACATAGGATCTCATATCGATGCCAATGCCATGTCCTAG
1 ACATGGTCTTACAGA-GATCTCATATCGATGCCAATGCCATGTCCTAG
*
52677915 ACATGGTCTTACATGGGATCTCATAT
1 ACATGGTCTTACA-GAGATCTCATAT
52677941 AACCCTAATG
Statistics
Matches: 101, Mismatches: 19, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
48 101 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (47 bp):
ACATGGTCTTACAGAGATCTCATATCGATGCCAATGCCATGTCCTAG
Found at i:52679713 original size:30 final size:30
Alignment explanation
Indices: 52679677--52679737 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
52679667 TACAATACAC
52679677 AGTGAGTTTTAATTTTGTGCATCAAAATTT
1 AGTGAGTTTTAATTTTGTGCATCAAAATTT
*
52679707 AGTGAGTTTTAATTTTGTGCATGAAAATTT
1 AGTGAGTTTTAATTTTGTGCATCAAAATTT
52679737 A
1 A
52679738 CTTCTTCCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.31, C:0.05, G:0.18, T:0.46
Consensus pattern (30 bp):
AGTGAGTTTTAATTTTGTGCATCAAAATTT
Found at i:52681261 original size:122 final size:123
Alignment explanation
Indices: 52681128--52681374 Score: 424
Period size: 123 Copynumber: 2.0 Consensus size: 123
52681118 GAAATGCATA
52681128 GAAAAAAGGAAAATTTGTAGCCAGGACTGTTGTGATTTACTGATTAAACCTCCATGAATCCA-TT
1 GAAAAAAGGAAAATTTGTAGCCAGGACTGTTGTGATTTACTGATTAAACCTCCATGAATCCATTT
*
52681192 TTTTTTGTTCTTTTATTCCATGTAAAACTTCCTTGACATATCAACTATTGTAGGGCAG
66 TTTTTTGTTCTTTTATTCCATGTAAAACTTCCTTGACATATCAACTACTGTAGGGCAG
* ***
52681250 GAAAAAAGGAAAATTTGTGGTTGGGACTGTTGTGATTTACTGATTAAACCTCCATGAATCCATTT
1 GAAAAAAGGAAAATTTGTAGCCAGGACTGTTGTGATTTACTGATTAAACCTCCATGAATCCATTT
**
52681315 TTTTTTGTTCTTTTATTCCATGTAAAACTTCCTTGATGTATCAACTACTGTAGGGCAG
66 TTTTTTGTTCTTTTATTCCATGTAAAACTTCCTTGACATATCAACTACTGTAGGGCAG
52681373 GA
1 GA
52681375 GGAGTTCTTT
Statistics
Matches: 117, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
122 58 0.50
123 59 0.50
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (123 bp):
GAAAAAAGGAAAATTTGTAGCCAGGACTGTTGTGATTTACTGATTAAACCTCCATGAATCCATTT
TTTTTTGTTCTTTTATTCCATGTAAAACTTCCTTGACATATCAACTACTGTAGGGCAG
Found at i:52683083 original size:31 final size:32
Alignment explanation
Indices: 52683013--52683074 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 32
52683003 TTTAATTACT
**
52683013 AAATTATTCGAAAGTTTTTTATTTAAGTTATC
1 AAATTATTTAAAAGTTTTTTATTTAAGTTATC
52683045 AAATTATTTAAAAG-TTTTTATTTAAGTTAT
1 AAATTATTTAAAAGTTTTTTATTTAAGTTAT
52683075 TGAGTTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 16 0.57
32 12 0.43
ACGTcount: A:0.37, C:0.03, G:0.08, T:0.52
Consensus pattern (32 bp):
AAATTATTTAAAAGTTTTTTATTTAAGTTATC
Found at i:52683650 original size:2 final size:2
Alignment explanation
Indices: 52683643--52683673 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
52683633 ATTCTCTGAA
52683643 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
52683674 AAAGCAGTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:52687601 original size:3 final size:3
Alignment explanation
Indices: 52687593--52687645 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
52687583 AATATGGGTT
52687593 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
52687641 TTA TT
1 TTA TT
52687646 GAGAAATGTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:52688732 original size:2 final size:2
Alignment explanation
Indices: 52688725--52688749 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
52688715 GAGAAGAAAT
52688725 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
52688750 AAACACAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:52690935 original size:15 final size:15
Alignment explanation
Indices: 52690911--52690944 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
52690901 TTAATGACTT
*
52690911 CTTAGGGTTGTTAGG
1 CTTAGAGTTGTTAGG
52690926 CTTAGAGTTGTTAGG
1 CTTAGAGTTGTTAGG
52690941 CTTA
1 CTTA
52690945 AGGTTTAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.09, G:0.32, T:0.41
Consensus pattern (15 bp):
CTTAGAGTTGTTAGG
Found at i:52696701 original size:93 final size:93
Alignment explanation
Indices: 52696573--52696743 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
52696563 GCCCCTAAGT
* * * *
52696573 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCGTAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
52696638 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
52696666 GAACTTGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
52696731 CGAGTTCGGATGC
66 CGAGTTCGGATGC
52696744 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:52696733 original size:46 final size:45
Alignment explanation
Indices: 52696566--52696740 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 45
52696556 GTAACCCGCC
* * * *
52696566 CCTAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
52696611 CCGTAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
52696661 -CTCA-CGAACTTGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
52696704 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
52696741 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 14, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 58 0.55
47 27 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:52704681 original size:40 final size:39
Alignment explanation
Indices: 52704516--52704699 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
52704506 AAATTGAATG
* * *
52704516 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
52704556 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
52704596 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
52704636 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
52704675 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
52704700 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:52704724 original size:80 final size:81
Alignment explanation
Indices: 52704556--52704744 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
52704546 GCTGGAAATT
* * * *
52704556 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
52704621 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
52704637 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
52704700 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
52704716 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
52704745 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:52712797 original size:40 final size:39
Alignment explanation
Indices: 52712632--52712815 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
52712622 AAATTGAATG
* * *
52712632 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
52712672 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
52712712 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
52712752 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
52712791 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
52712816 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:52712840 original size:80 final size:81
Alignment explanation
Indices: 52712672--52712860 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
52712662 GCTGGAAATT
* * * *
52712672 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
52712737 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
52712753 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
52712816 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
52712832 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
52712861 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:52714513 original size:55 final size:55
Alignment explanation
Indices: 52714431--52714539 Score: 132
Period size: 55 Copynumber: 2.0 Consensus size: 55
52714421 TTGAGCAAAA
52714431 AAAAGAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGG-CGAATGTACTAAGGAAG
1 AAAAGAAAAAAAAATGTTCATCCTTCT-CATAGGCTTGGCCGAAT-TACTAAGGAAG
** * ***
52714487 AAAAG-AAAAAATTTGTTCATCTTTCTCATCTTCTTGGCCGAATTACTAAGGAA
1 AAAAGAAAAAAAAATGTTCATCCTTCTCATAGGCTTGGCCGAATTACTAAGGAA
52714540 AAGGGGAGGA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
54 18 0.39
55 23 0.50
56 5 0.11
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.28
Consensus pattern (55 bp):
AAAAGAAAAAAAAATGTTCATCCTTCTCATAGGCTTGGCCGAATTACTAAGGAAG
Found at i:52714994 original size:39 final size:39
Alignment explanation
Indices: 52714914--52715074 Score: 132
Period size: 39 Copynumber: 4.1 Consensus size: 39
52714904 AAATTGAATG
* * ** *
52714914 ATATCCGGGCTAAG-CCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCGAAGGCAATTGTGC-GAGTGACT
* * *
52714952 ATATCCGGGTTAAGACCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCGAAGGCAATTGTGCGAGTGACT
* * *
52714991 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAA-GACCGAAGGCAATT-GTGCGAGTGACT
* * *
52715031 CTATCCGGGCTAAGACCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCGAAGGCAATTGTGCGA-GTGACT
52715070 ATATC
1 ATATC
52715075 GGTTATATTC
Statistics
Matches: 98, Mismatches: 19, Indels: 11
0.77 0.15 0.09
Matches are distributed among these distances:
38 14 0.14
39 53 0.54
40 31 0.32
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCGAAGGCAATTGTGCGAGTGACT
Found at i:52722118 original size:40 final size:40
Alignment explanation
Indices: 52722052--52722218 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
52722042 AAATTGAATG
* * *
52722052 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
52722091 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
52722131 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
52722171 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
52722211 ATATCCGG
1 ATATCCGG
52722219 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:52726621 original size:79 final size:80
Alignment explanation
Indices: 52726491--52726722 Score: 353
Period size: 79 Copynumber: 2.9 Consensus size: 80
52726481 ATTCGGATTG
* *
52726491 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGT-CCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
52726554 TTTGTGCGAGTTACT
66 TTTGTGCGAGTTACT
* * * *
52726569 ATAACCGGGCCAAGTCCTGAAGGCAATTGTGCAAGTTACTATAACCGGGCTAAGTCCCAAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
* *
52726634 ATTGTGCTAGTTACT
66 TTTGTGCGAGTTACT
*
52726649 ATAACCGGGCTAAGTCCCGAAGGTAATTGTGCGAGTT-CTATAACCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
*
52726713 TTTGAGCGAG
66 TTTGTGCGAG
52726723 AAGCTATATC
Statistics
Matches: 136, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
78 13 0.10
79 69 0.51
80 54 0.40
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
TTTGTGCGAGTTACT
Found at i:52726739 original size:39 final size:40
Alignment explanation
Indices: 52726491--52726722 Score: 344
Period size: 40 Copynumber: 5.9 Consensus size: 40
52726481 ATTCGGATTG
*
52726491 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
52726530 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* * *
52726569 ATAACCGGGCCAAGTCCTGAAGGCAATTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
52726609 ATAACCGGGCTAAGTCCCAAAGGCAATTGTGCTAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
*
52726649 ATAACCGGGCTAAGTCCCGAAGGTAATTGTGCGAGTT-CT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
52726688 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAG
52726723 AAGCTATATC
Statistics
Matches: 175, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 84 0.48
40 91 0.52
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
Found at i:52734117 original size:23 final size:22
Alignment explanation
Indices: 52734061--52734149 Score: 99
Period size: 22 Copynumber: 4.0 Consensus size: 22
52734051 ATCTTACTGT
* *
52734061 TTCATCTCATTAGAGCTTACCG
1 TTCAGCTCAATAGAGCTTACCG
52734083 TTCAGCTCAATAGAGCTTACCG
1 TTCAGCTCAATAGAGCTTACCG
* * *
52734105 TTTTAGCTGAATAGAGCTTACTG
1 -TTCAGCTCAATAGAGCTTACCG
*
52734128 TTCAGCTCGAA-GGAGCTTACCG
1 TTCAGCTC-AATAGAGCTTACCG
52734150 ACCATGACTC
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
22 35 0.62
23 21 0.38
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (22 bp):
TTCAGCTCAATAGAGCTTACCG
Found at i:52735075 original size:13 final size:13
Alignment explanation
Indices: 52735057--52735081 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52735047 CATGTGTGAC
52735057 ACACGGTCATGTT
1 ACACGGTCATGTT
52735070 ACACGGTCATGT
1 ACACGGTCATGT
52735082 GTCCCCTGTC
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:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (13 bp):
ACACGGTCATGTT
Found at i:52740874 original size:17 final size:17
Alignment explanation
Indices: 52740852--52740884 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
52740842 AAGTAGAACA
52740852 AATGAATCTTAAAAACG
1 AATGAATCTTAAAAACG
52740869 AATGAATCTTAAAAAC
1 AATGAATCTTAAAAAC
52740885 TTAATAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.55, C:0.12, G:0.09, T:0.24
Consensus pattern (17 bp):
AATGAATCTTAAAAACG
Found at i:52744387 original size:29 final size:29
Alignment explanation
Indices: 52744354--52744485 Score: 156
Period size: 29 Copynumber: 4.6 Consensus size: 29
52744344 GTGACGAGAT
52744354 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
52744383 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * *
52744412 TGGCACTAAATGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
52744441 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
52744470 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
52744486 GGCTTAAATT
Statistics
Matches: 87, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 87 1.00
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:52751976 original size:29 final size:29
Alignment explanation
Indices: 52751875--52751968 Score: 152
Period size: 29 Copynumber: 3.2 Consensus size: 29
52751865 GTGACGAGAT
*
52751875 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
52751904 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* *
52751933 TGGCACTAAATGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
52751962 CGGCACT
1 TGGCACT
52751969 GGGTGTGCGA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 61 1.00
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:52757716 original size:21 final size:21
Alignment explanation
Indices: 52757670--52757720 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
52757660 GTGTTTTGAA
* **
52757670 GTTTCTTAATAGATTATGAGT
1 GTTTGTTAATAGATTACAAGT
52757691 GTTTGTTAATAGATATACAAGT
1 GTTTGTTAATAGAT-TACAAGT
52757713 -TTTGTTAA
1 GTTTGTTAA
52757721 GTGATTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 21 0.81
22 5 0.19
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.47
Consensus pattern (21 bp):
GTTTGTTAATAGATTACAAGT
Found at i:52762614 original size:40 final size:40
Alignment explanation
Indices: 52762451--52762616 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
52762441 AAATTGAATG
* * **
52762451 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTGATT
* * **
52762490 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTA-TGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATT
* *
52762529 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGATT
* *
52762569 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGATT
52762609 ATATCCGG
1 ATATCCGG
52762617 TTATATTCCG
Statistics
Matches: 102, Mismatches: 19, Indels: 11
0.77 0.14 0.08
Matches are distributed among these distances:
38 3 0.03
39 42 0.41
40 55 0.54
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATT
Found at i:52764054 original size:40 final size:40
Alignment explanation
Indices: 52764009--52764212 Score: 214
Period size: 40 Copynumber: 5.1 Consensus size: 40
52763999 AATACAACCA
*
52764009 GATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCG
1 GATATAACCACTTGCACGAATGCCTTCGGGTCTTAGCCCG
* * *
52764049 GATATAACGACTTGCACAAATGCCTTCGGGTATTAGCCCG
1 GATATAACCACTTGCACGAATGCCTTCGGGTCTTAGCCCG
* * *
52764089 GATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCA
1 GATATAACCACTTGCACGAATGCCTTCGGGTCTTAGCCCG
* ** * *
52764129 GATGTAGTCACTAGCAC-AATTGCCTTCGGGTCTTAACCCG
1 GATATAACCACTTGCACGAA-TGCCTTCGGGTCTTAGCCCG
** * ** * *
52764169 GATATAATTACTAGCATAAATGTCTTC-GGACTTAGCCCG
1 GATATAACCACTTGCACGAATGCCTTCGGGTCTTAGCCCG
52764208 GATAT
1 GATAT
52764213 CATTCAATTG
Statistics
Matches: 139, Mismatches: 23, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 17 0.12
40 120 0.86
41 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.27
Consensus pattern (40 bp):
GATATAACCACTTGCACGAATGCCTTCGGGTCTTAGCCCG
Found at i:52772057 original size:40 final size:39
Alignment explanation
Indices: 52772012--52772219 Score: 227
Period size: 40 Copynumber: 5.2 Consensus size: 39
52772002 CGGAATACAA
*
52772012 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *
52772052 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
52772092 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
52772132 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
52772172 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
52772212 CCGGATAT
1 CCGGATAT
52772220 CATTCAATTG
Statistics
Matches: 144, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
39 1 0.01
40 143 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:52772152 original size:80 final size:80
Alignment explanation
Indices: 52772012--52772219 Score: 256
Period size: 80 Copynumber: 2.6 Consensus size: 80
52772002 CGGAATACAA
* * *
52772012 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
52772077 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * * *
52772092 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATA-ACGACTAGCACAAAT
*
52772156 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
52772172 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAT
52772220 CATTCAATTG
Statistics
Matches: 109, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
80 108 0.99
81 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:52782968 original size:40 final size:40
Alignment explanation
Indices: 52782903--52783149 Score: 347
Period size: 40 Copynumber: 6.2 Consensus size: 40
52782893 TCTTCGGAAT
* ** *
52782903 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
52782942 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
52782982 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
*
52783022 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
*
52783062 TTAGCCCGGATATAACAACTCGCACAAATGTCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * * *
52783102 TTAGCTCGGATATAATC-ACTAGCATAAATGCCTTC-GGAC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
52783141 TTAGCCCGG
1 TTAGCCCGG
52783150 GTATCATTCA
Statistics
Matches: 187, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 14 0.07
40 172 0.92
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:52784565 original size:40 final size:40
Alignment explanation
Indices: 52784520--52784685 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
52784510 CGGAATATAA
52784520 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
52784560 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
52784600 CCGGATAT-ACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
52784639 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
52784678 CCGGATAT
1 CCGGATAT
52784686 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 46 0.44
40 59 0.56
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:52784642 original size:39 final size:38
Alignment explanation
Indices: 52784536--52784647 Score: 134
Period size: 39 Copynumber: 2.8 Consensus size: 38
52784526 ATAATCACGT
* * *
52784536 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATA-TACAACTA
* *
52784576 GCACGAATGCCTTCGGGCCTTAGCCCGGATATACCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATACAACTA
*
52784615 GCACAATTGCCTTCGGGTCTTAACCCGGATATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATA
52784648 ATTTCCAGCA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
38 2 0.03
39 32 0.51
40 29 0.46
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATACAACTA
Found at i:52784669 original size:79 final size:78
Alignment explanation
Indices: 52784536--52784685 Score: 196
Period size: 79 Copynumber: 1.9 Consensus size: 78
52784526 ATAATCACGT
*
52784536 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
52784601 CGGATATACCACTA
65 CGGATATACCACTA
* * ** * *
52784615 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
52784678 CCGGATAT
64 CCGGATAT
52784686 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
78 17 0.27
79 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (78 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATACCACTA
Found at i:52785534 original size:17 final size:19
Alignment explanation
Indices: 52785511--52785556 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
52785501 AAGAAGCATG
52785511 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
52785529 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
52785547 AATCATGCTC
1 AATCATGCTC
52785557 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:52792566 original size:40 final size:40
Alignment explanation
Indices: 52792521--52792687 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
52792511 CGGAATATAA
52792521 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
52792561 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
52792601 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
52792641 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
52792680 CCGGATAT
1 CCGGATAT
52792688 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:52792671 original size:80 final size:79
Alignment explanation
Indices: 52792521--52792687 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
52792511 CGGAATATAA
* *
52792521 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
52792586 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
52792601 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
52792663 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
52792680 CCGGATAT
1 CCGGATAT
52792688 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:52793536 original size:17 final size:19
Alignment explanation
Indices: 52793513--52793558 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
52793503 AAGAAGCATG
52793513 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
52793531 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
52793549 AATCATGCTC
1 AATCATGCTC
52793559 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:52807390 original size:10 final size:11
Alignment explanation
Indices: 52807349--52807388 Score: 73
Period size: 11 Copynumber: 3.7 Consensus size: 11
52807339 AAGGCCGTAA
52807349 TGACCGAAGAG
1 TGACCGAAGAG
52807360 TGACCGAAGAG
1 TGACCGAAGAG
52807371 TGACCGAA-AG
1 TGACCGAAGAG
52807381 TGACCGAA
1 TGACCGAA
52807389 AGGTCGGCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
10 10 0.34
11 19 0.66
ACGTcount: A:0.38, C:0.20, G:0.33, T:0.10
Consensus pattern (11 bp):
TGACCGAAGAG
Found at i:52808051 original size:27 final size:26
Alignment explanation
Indices: 52808010--52808069 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
52808000 ATATATATAT
* *
52808010 ATATCTGCTCTGGTGGCCTAGCCACA
1 ATATCTGATCTGGTGACCTAGCCACA
* * *
52808036 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTG-ATCTGGTGACCTAGCCACA
52808063 ATATCTG
1 ATATCTG
52808070 GCAGGCTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (26 bp):
ATATCTGATCTGGTGACCTAGCCACA
Found at i:52816091 original size:29 final size:27
Alignment explanation
Indices: 52816055--52816117 Score: 90
Period size: 29 Copynumber: 2.3 Consensus size: 27
52816045 GACGAAAGGT
*
52816055 TTAAAGGAACAATGAAAATGAAAAACTAA
1 TTAAAGGAACAATG-AAAGGAAAAA-TAA
52816084 TTAAAGGAACAATGAAAGGAAAAATAA
1 TTAAAGGAACAATGAAAGGAAAAATAA
*
52816111 ATAAAGG
1 TTAAAGG
52816118 GGACGAGTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 9 0.28
28 9 0.28
29 14 0.44
ACGTcount: A:0.62, C:0.05, G:0.17, T:0.16
Consensus pattern (27 bp):
TTAAAGGAACAATGAAAGGAAAAATAA
Found at i:52818628 original size:25 final size:25
Alignment explanation
Indices: 52818600--52818654 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
52818590 TGACTCACAT
52818600 GGCCAGATGACATGCCCATGTCTCA
1 GGCCAGATGACATGCCCATGTCTCA
52818625 GGCCAGATGACATGCCCATGTCTCA
1 GGCCAGATGACATGCCCATGTCTCA
52818650 GGCCA
1 GGCCA
52818655 TGTGGGCATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.24, C:0.33, G:0.25, T:0.18
Consensus pattern (25 bp):
GGCCAGATGACATGCCCATGTCTCA
Found at i:52821202 original size:14 final size:14
Alignment explanation
Indices: 52821183--52821210 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
52821173 CATCCAATAA
52821183 GTACAGTTTATTCT
1 GTACAGTTTATTCT
52821197 GTACAGTTTATTCT
1 GTACAGTTTATTCT
52821211 TTAAATTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.50
Consensus pattern (14 bp):
GTACAGTTTATTCT
Found at i:52821636 original size:15 final size:16
Alignment explanation
Indices: 52821618--52821647 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
52821608 AATTGTTTTA
52821618 TTACA-AATTTCACTC
1 TTACATAATTTCACTC
52821633 TTACATAATTTCACT
1 TTACATAATTTCACT
52821648 TACTTCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (16 bp):
TTACATAATTTCACTC
Found at i:52822084 original size:50 final size:50
Alignment explanation
Indices: 52821844--52822085 Score: 206
Period size: 50 Copynumber: 4.8 Consensus size: 50
52821834 GTAACTGAAG
* * *
52821844 CTATCTGGTACGCATAGTAGCCTGAACTTAGTACTACACATGCAAC-CAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACTTAA
* ** * * * * * ** *
52821893 CAATCCAGTATACGTAATAGCCTACACTTAGTACTACACACGTGACCTAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACTTAA
* * *
52821943 CCATCTGATACACATAGTAGCCTACACTTAGTACTACACA--CATGA-TTAAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCA--ACTT-AA
* * *
52821993 GT-TGTTGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACTTAA
1 CTAT-CT-GGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACTTAA
* *
52822044 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTGCACATG
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATG
52822086 TAGTAGCCTG
Statistics
Matches: 149, Mismatches: 34, Indels: 19
0.74 0.17 0.09
Matches are distributed among these distances:
49 36 0.24
50 72 0.48
51 36 0.24
52 3 0.02
53 2 0.01
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (50 bp):
CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACTTAA
Found at i:52822089 original size:28 final size:28
Alignment explanation
Indices: 52822057--52822114 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
52822047 TCTGGTACAC
* *
52822057 GTAGTAGCCTGCACTTAGTACTGCACAT
1 GTAGTAGCCTGCACATAGTACTACACAT
52822085 GTAGTAGCCTGCACATAGTACTACACAT
1 GTAGTAGCCTGCACATAGTACTACACAT
52822113 GT
1 GT
52822115 GTTCTCACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (28 bp):
GTAGTAGCCTGCACATAGTACTACACAT
Found at i:52822098 original size:16 final size:16
Alignment explanation
Indices: 52822057--52822100 Score: 60
Period size: 14 Copynumber: 3.0 Consensus size: 16
52822047 TCTGGTACAC
52822057 GTAGTAGCCTGCAC-T
1 GTAGTAGCCTGCACAT
52822072 -TAGTA--CTGCACAT
1 GTAGTAGCCTGCACAT
52822085 GTAGTAGCCTGCACAT
1 GTAGTAGCCTGCACAT
52822101 AGTACTACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
12 6 0.24
13 1 0.04
14 10 0.40
16 8 0.32
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (16 bp):
GTAGTAGCCTGCACAT
Found at i:52841683 original size:21 final size:21
Alignment explanation
Indices: 52841659--52841701 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
52841649 TAATTCTACT
*
52841659 TAGATTTTTCTAATATACCAA
1 TAGATTTTTCTAACATACCAA
52841680 TAGATTTTTCTAACATACCAA
1 TAGATTTTTCTAACATACCAA
52841701 T
1 T
52841702 GAGCCATACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.16, G:0.05, T:0.42
Consensus pattern (21 bp):
TAGATTTTTCTAACATACCAA
Found at i:52845558 original size:39 final size:39
Alignment explanation
Indices: 52845504--52845633 Score: 197
Period size: 39 Copynumber: 3.3 Consensus size: 39
52845494 TATGAGACTA
*
52845504 GAAATATATCCGGACATGAGGTCTGCAGGCTATATGCTG
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
*
52845543 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTA
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
* * **
52845582 GAAATATATTCGGACTTGAGGTCCGCAGGCTACGTGCTG
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
*
52845621 GAAAAATATCCGG
1 GAAATATATCCGG
52845634 GTTAAAGACC
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 82 1.00
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (39 bp):
GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
Found at i:52845647 original size:78 final size:77
Alignment explanation
Indices: 52845501--52845669 Score: 196
Period size: 78 Copynumber: 2.2 Consensus size: 77
52845491 ATGTATGAGA
* * * * * **
52845501 CTAGAAATATATCCGGACATGAGGTCTGCAGGCTATATGCTGGAAATATATCCGGACATGAGGTC
1 CTAGAAATATATTCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACATAAGACC
52845566 CGCAGGCTATATG
66 CGCAGGCT-TATG
* * **
52845579 CTAGAAATATATTCGGACTTGAGGTCCGCAGGCTACGTGCTGGAAAAATATCCGG-GTTAAAGAC
1 CTAGAAATATATTCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACAT-AAGAC
52845643 CCGCAGGCTTATG
65 CCGCAGGCTTATG
* *
52845656 CTAGTAATGTATTC
1 CTAGAAATATATTC
52845670 CAAGCTCTAA
Statistics
Matches: 77, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
77 17 0.22
78 60 0.78
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (77 bp):
CTAGAAATATATTCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACATAAGACC
CGCAGGCTTATG
Found at i:52852165 original size:24 final size:24
Alignment explanation
Indices: 52852138--52852200 Score: 108
Period size: 24 Copynumber: 2.6 Consensus size: 24
52852128 CTTATTATGT
52852138 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
52852162 TCGCACACATAGTGGCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
52852186 TAGCACACATAGTGC
1 TCGCACACATAGTGC
52852201 ATTTGAGATT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:52854038 original size:30 final size:29
Alignment explanation
Indices: 52853944--52854045 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
52853934 TATAGTGAAT
* * *
52853944 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
52853973 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
52854001 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
52854031 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
52854046 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:52878964 original size:96 final size:97
Alignment explanation
Indices: 52878799--52879032 Score: 291
Period size: 96 Copynumber: 2.4 Consensus size: 97
52878789 GGTAAATTGC
* * * * *
52878799 CGATGCTATGTCCCAGACATGGTCTTACATTGGCT-TACAT-GTCGAGGCCGATGCCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATACTCGAGGCCAATGCCATGGCCCA
* * *
52878862 GACATGGTCTTACACTAGCT-CGCATTTCAATG-
65 GACATGGTCTTACACTAG-TGCACATATCAACGT
*
52878894 CTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACT-GTGGCCAATGCCATGGCCCA
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACTCGAGGCCAATGCCATGGCCCA
52878958 GACATGGTCTTACACTAGTGCACATATCAACGT
65 GACATGGTCTTACACTAGTGCACATATCAACGT
* *
52878991 CGAAGCCATGTCCCA-AGCATGGTCTTACACTGGATCTCATAC
1 CGATGCCATGTCCCAGA-CATGGTCTTACACTGGCTCTCATAC
52879033 CATTGTCGAC
Statistics
Matches: 122, Mismatches: 11, Indels: 11
0.85 0.08 0.08
Matches are distributed among these distances:
95 3 0.02
96 116 0.95
97 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (97 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACTCGAGGCCAATGCCATGGCCCAG
ACATGGTCTTACACTAGTGCACATATCAACGT
Found at i:52879041 original size:48 final size:48
Alignment explanation
Indices: 52878806--52879082 Score: 222
Period size: 48 Copynumber: 5.8 Consensus size: 48
52878796 TGCCGATGCT
* * * * * * *
52878806 ATGTCCCAGACATGGTCTTACATTGGCT-TACATGTCGAGGCCGATGCC
1 ATGTCCCAGACATGGTCTTACACTAGCTCT-CATATCAATGTCGAAGCC
* * *
52878854 ATGTCCCAGACATGGTCTTACACTAGCTCGCATTTCAATG-CTGATGCC
1 ATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGTC-GAAGCC
* ** * *
52878902 ATGTCCCAGACATGGTCTTACACTGGCTCTCATA-CTGTGGCCAATGCC
1 ATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGTCGAA-GCC
* * *
52878950 ATGGCCCAGACATGGTCTTACACTAG-TGCACATATCAACGTCGAAGCC
1 ATGTCCCAGACATGGTCTTACACTAGCT-CTCATATCAATGTCGAAGCC
* * * * **
52878998 ATGTCCCA-AGCATGGTCTTACACTGGATCTCATACCATTGTCGACTCC
1 ATGTCCCAGA-CATGGTCTTACACTAGCTCTCATATCAATGTCGAAGCC
* * * *
52879046 ATGTTCCAGGCATGGTCTTACACTAGCACACATATCA
1 ATGTCCCAGACATGGTCTTACACTAGCTCTCATATCA
52879083 CTCAAATGTC
Statistics
Matches: 184, Mismatches: 36, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
47 7 0.04
48 171 0.93
49 6 0.03
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (48 bp):
ATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGTCGAAGCC
Done.