Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 7 of 150
Found at i:1996394 original size:24 final size:24
Alignment explanation
Indices: 1996358--1996407 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
1996348 TTCTTCTTTT
1996358 TCTTCTTCGTCCTCCTCCTCATCC
1 TCTTCTTCGTCCTCCTCCTCATCC
** *
1996382 TCTTCTTTTTCCTCCTCCTCCTCC
1 TCTTCTTCGTCCTCCTCCTCATCC
1996406 TC
1 TC
1996408 AGCCCAGCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.02, C:0.50, G:0.02, T:0.46
Consensus pattern (24 bp):
TCTTCTTCGTCCTCCTCCTCATCC
Found at i:1996822 original size:17 final size:19
Alignment explanation
Indices: 1996793--1996834 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
1996783 AAGATGCATT
1996793 TAATTTTTGTTATTTAATA
1 TAATTTTTGTTATTTAATA
1996812 -AATTTTT-TTATTTAATA
1 TAATTTTTGTTATTTAATA
1996829 TAATTT
1 TAATTT
1996835 ATGTAAGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
TAATTTTTGTTATTTAATA
Found at i:2001178 original size:19 final size:20
Alignment explanation
Indices: 2001136--2001178 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
2001126 TCATGCTTTC
*
2001136 TATTCACATTTTCATATTCA
1 TATTCACATTTTCAAATTCA
2001156 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
2001174 TATTC
1 TATTC
2001179 TACAATCATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:2001453 original size:69 final size:69
Alignment explanation
Indices: 2001366--2001498 Score: 203
Period size: 69 Copynumber: 1.9 Consensus size: 69
2001356 TAAGTGTCTG
* * * * * *
2001366 ATACGACACACGAGGTGCCTGAAATATGACACATAAAGTTTCTGATATACGACACATAAAGTGCT
1 ATACGACACACAAAGTGCCTGAAATACGACACATAAAGTTCCTAAAATACGACACATAAAGTGCT
2001431 TGAA
66 TGAA
*
2001435 ATACGACACATAAAGTGCCTGAAATACGACACATAAAGTTCCTAAAATACGACACATAAAGTGC
1 ATACGACACACAAAGTGCCTGAAATACGACACATAAAGTTCCTAAAATACGACACATAAAGTGC
2001499 CTAATCGGCA
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
69 57 1.00
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.21
Consensus pattern (69 bp):
ATACGACACACAAAGTGCCTGAAATACGACACATAAAGTTCCTAAAATACGACACATAAAGTGCT
TGAA
Found at i:2001502 original size:23 final size:23
Alignment explanation
Indices: 2001350--2001500 Score: 182
Period size: 23 Copynumber: 6.7 Consensus size: 23
2001340 ATCAGTATAG
*
2001350 GACACAT-AAGTGTCTG--ATAC
1 GACACATAAAGTGCCTGAAATAC
** * *
2001370 GACACACGAGGTGCCTGAAATAT
1 GACACATAAAGTGCCTGAAATAC
** *
2001393 GACACATAAAGTTTCTGATATAC
1 GACACATAAAGTGCCTGAAATAC
*
2001416 GACACATAAAGTGCTTGAAATAC
1 GACACATAAAGTGCCTGAAATAC
2001439 GACACATAAAGTGCCTGAAATAC
1 GACACATAAAGTGCCTGAAATAC
* *
2001462 GACACATAAAGTTCCTAAAATAC
1 GACACATAAAGTGCCTGAAATAC
2001485 GACACATAAAGTGCCT
1 GACACATAAAGTGCCT
2001501 AATCGGCATA
Statistics
Matches: 109, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
20 6 0.06
21 7 0.06
23 96 0.88
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.22
Consensus pattern (23 bp):
GACACATAAAGTGCCTGAAATAC
Found at i:2005331 original size:13 final size:14
Alignment explanation
Indices: 2005301--2005347 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
2005291 TGAAATGGTC
2005301 TAAAATATTAAATA
1 TAAAATATTAAATA
* *
2005315 TAAAA-ATTAACTT
1 TAAAATATTAAATA
2005328 TAAAATAGTTAAAATA
1 TAAAATA-TT-AAATA
2005344 TAAA
1 TAAA
2005348 TAAAATAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 11 0.42
14 6 0.23
15 2 0.08
16 7 0.27
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (14 bp):
TAAAATATTAAATA
Found at i:2006375 original size:13 final size:13
Alignment explanation
Indices: 2006354--2006383 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2006344 CACAAATATA
2006354 TTTTATTTTTCTT
1 TTTTATTTTTCTT
*
2006367 TTTTCTTTTTCTT
1 TTTTATTTTTCTT
2006380 TTTT
1 TTTT
2006384 TTTCCTCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (13 bp):
TTTTATTTTTCTT
Found at i:2006386 original size:16 final size:18
Alignment explanation
Indices: 2006365--2006401 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
2006355 TTTATTTTTC
*
2006365 TTTTTT-CTTTTTC-TTT
1 TTTTTTCCTCTTTCATTT
2006381 TTTTTTCCTCTTTCATTT
1 TTTTTTCCTCTTTCATTT
2006399 TTT
1 TTT
2006402 CCAATTGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 6 0.33
17 6 0.33
18 6 0.33
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTTTCCTCTTTCATTT
Found at i:2011589 original size:15 final size:15
Alignment explanation
Indices: 2011569--2011599 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
2011559 CTTGCCTAAG
2011569 CATCAAGCAAGAATA
1 CATCAAGCAAGAATA
2011584 CATCAAGCAAGAATA
1 CATCAAGCAAGAATA
2011599 C
1 C
2011600 TAGATAGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.52, C:0.23, G:0.13, T:0.13
Consensus pattern (15 bp):
CATCAAGCAAGAATA
Found at i:2012170 original size:66 final size:67
Alignment explanation
Indices: 2012049--2012177 Score: 197
Period size: 66 Copynumber: 1.9 Consensus size: 67
2012039 TCCAATTCAA
* * *
2012049 AGAGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTGCA
1 AGAGCACACTCCCGCGAACCTCATTCCATACAGCGGGATTACCAGTCCAGCCTAAATCCCCTGCA
2012114 AG
66 AG
* * *
2012116 AGAGCACACTCCTGCGAACCTCA-TCCATACAGCGGGATTGCTAGTCCAGCCTAAATCCCCTG
1 AGAGCACACTCCCGCGAACCTCATTCCATACAGCGGGATTACCAGTCCAGCCTAAATCCCCTG
2012178 TAATGTAAAC
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
66 34 0.61
67 22 0.39
ACGTcount: A:0.26, C:0.35, G:0.19, T:0.19
Consensus pattern (67 bp):
AGAGCACACTCCCGCGAACCTCATTCCATACAGCGGGATTACCAGTCCAGCCTAAATCCCCTGCA
AG
Found at i:2012392 original size:57 final size:60
Alignment explanation
Indices: 2012299--2012446 Score: 214
Period size: 57 Copynumber: 2.5 Consensus size: 60
2012289 ACCCTAATTC
* * *
2012299 GGATTACCCGTCCGGGCTAAATCCATTTTCCACATATTCTTCGGGAGGGCTATATC-A-A
1 GGATCACCCGTCCGGGCTAGATCCTTTTTCCACATATTCTTCGGGAGGGCTATATCGATA
2012357 -GATCACCCGTCCGGGCTAGAT-CTTTTTCACACATATTCTTCGGGAGGGCTATATCAGGATA
1 GGATCACCCGTCCGGGCTAGATCCTTTTTC-CACATATTCTTCGGGAGGGCTATATC--GATA
2012418 GGATCACCCGTCCGGGCTAGATCCTTTTT
1 GGATCACCCGTCCGGGCTAGATCCTTTTT
2012447 ACCGTCAATT
Statistics
Matches: 80, Mismatches: 3, Indels: 9
0.87 0.03 0.10
Matches are distributed among these distances:
56 6 0.08
57 45 0.56
60 1 0.01
61 1 0.01
62 21 0.26
63 6 0.08
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (60 bp):
GGATCACCCGTCCGGGCTAGATCCTTTTTCCACATATTCTTCGGGAGGGCTATATCGATA
Found at i:2016789 original size:100 final size:100
Alignment explanation
Indices: 2016610--2017320 Score: 1080
Period size: 100 Copynumber: 7.1 Consensus size: 100
2016600 AACTTTTGGA
* * * * * * *
2016610 AAGTAAGATTCGTTGTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCG
1 AAGTAAGATTCATTGCTGTAGCTTTAATCTTTTTAACCGCAATGTCAGGGAGGCAAGATTCACCG
* *
2016675 TTGTGGCTTTAATCTGTTCCGCTACACCGCCTGGG
66 TTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGG
* * * *
2016710 AGGTACGATTCGTTGCTGTAGCTTTAATCTTTTTAACCGCAATGTCAGGGAGGCAAGGTTCACCG
1 AAGTAAGATTCATTGCTGTAGCTTTAATCTTTTTAACCGCAATGTCAGGGAGGCAAGATTCACCG
2016775 TTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGG
66 TTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGG
* * *
2016810 AAGTAAGATTCACTGCTGTAGCTTTAATCTTTTTAACCCCAATGTCAAGGAGGCAAGATTCACCG
1 AAGTAAGATTCATTGCTGTAGCTTTAATCTTTTTAACCGCAATGTCAGGGAGGCAAGATTCACCG
*
2016875 TTGTGGCTTTAATCTGTTCCACTACACCGCCTGGG
66 TTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGG
* * * *
2016910 AAGTAAGATTCACTACTGTAGCTTTAATCTTTTTAACCCCAATGTCAAGGAGGCAAGATTCACCG
1 AAGTAAGATTCATTGCTGTAGCTTTAATCTTTTTAACCGCAATGTCAGGGAGGCAAGATTCACCG
2016975 TTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGG
66 TTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGG
* * * *
2017010 AGGTAAGATTCACTGCTGTAGCTTTAATCTTTTTAACTGCAATGTCAGGGAGGCAAGATTCTCCG
1 AAGTAAGATTCATTGCTGTAGCTTTAATCTTTTTAACCGCAATGTCAGGGAGGCAAGATTCACCG
2017075 TTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGG
66 TTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGG
* *
2017110 AGGTAAGATTCATTGTTGTAGCTTTAATCTTTTTAACCGCAATGTCAGGGAGGCAAGATTCACCG
1 AAGTAAGATTCATTGCTGTAGCTTTAATCTTTTTAACCGCAATGTCAGGGAGGCAAGATTCACCG
**
2017175 TTGTGGCTTTAATCTGTTCCACTGCACCGCCTAAG
66 TTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGG
* * * * *
2017210 AAGTAAGATTCGTTGCTGTAGCTTTAATCTTTTTAACCGTAGTGTCGGGGAAGCAAGATTCACCG
1 AAGTAAGATTCATTGCTGTAGCTTTAATCTTTTTAACCGCAATGTCAGGGAGGCAAGATTCACCG
* * *
2017275 TTGTGGCTTTAATCTGCTCCACTGCACTGCTTGGG
66 TTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGG
2017310 AGAGTAAGATT
1 A-AGTAAGATT
2017321 TCAAATTTTC
Statistics
Matches: 565, Mismatches: 45, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
100 556 0.98
101 9 0.02
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (100 bp):
AAGTAAGATTCATTGCTGTAGCTTTAATCTTTTTAACCGCAATGTCAGGGAGGCAAGATTCACCG
TTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGG
Found at i:2020098 original size:14 final size:14
Alignment explanation
Indices: 2020079--2020106 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2020069 CAGAGGTTTC
2020079 ATTCCTAAAATCTT
1 ATTCCTAAAATCTT
2020093 ATTCCTAAAATCTT
1 ATTCCTAAAATCTT
2020107 GAACTGTTTG
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:0.36, C:0.21, G:0.00, T:0.43
Consensus pattern (14 bp):
ATTCCTAAAATCTT
Found at i:2020661 original size:21 final size:21
Alignment explanation
Indices: 2020620--2020662 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
2020610 AATAAAGTAG
*
2020620 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
2020641 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
2020662 A
1 A
2020663 AATTCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:2020825 original size:51 final size:54
Alignment explanation
Indices: 2020709--2020833 Score: 134
Period size: 54 Copynumber: 2.4 Consensus size: 54
2020699 ATTTTATTAA
*
2020709 ATTATATATT-TTTATTAAATTATATTTAATAATAATTATGTTAAAATATGATT
1 ATTATATATTATTTATTATATTATATTTAATAATAATTATGTTAAAATATGATT
* * * *
2020762 AAATTATTTATTATTTATTATA-TATA-TTAATAATAATTATTTTAGATTAT-ATT
1 --ATTATATATTATTTATTATATTATATTTAATAATAATTATGTTAAAATATGATT
*
2020815 -TTATAGTATTATATATTAT
1 ATTATA-TATTATTTATTAT
2020834 GATTTTAGTA
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
50 4 0.07
51 12 0.20
53 3 0.05
54 21 0.34
55 13 0.21
56 8 0.13
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (54 bp):
ATTATATATTATTTATTATATTATATTTAATAATAATTATGTTAAAATATGATT
Found at i:2020951 original size:181 final size:174
Alignment explanation
Indices: 2020627--2020953 Score: 559
Period size: 174 Copynumber: 1.8 Consensus size: 174
2020617 TAGATTATAT
2020627 ATTATTTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTTAAT
1 ATTATTTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAG------TAATATTTAAT
2020692 ATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAATA
60 ATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAATA
2020757 TGATTAAATTATTTATTATTTATTATATATATTAATAATAATTATTTTAG
125 TGATTAAATTATTTATTATTTATTATATATATTAATAATAATTATTTTAG
2020807 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAG-AATATTTAATATTAA
1 ATTAT-TTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGTAATATTTAATATTAA
*
2020871 GAATTTTATTAAATTATATATATTTT-TTAAATTATATTTAATAATTATTATGTTAAAATATGAT
65 GAATTTTATTAAATTATATAT-TTTTATTAAATTATATTTAATAATAATTATGTTAAAATATGAT
2020935 TAAATTATTTATTATTTAT
129 TAAATTATTTATTATTTAT
2020954 ATTAATAATC
Statistics
Matches: 144, Mismatches: 1, Indels: 10
0.93 0.01 0.06
Matches are distributed among these distances:
174 92 0.64
175 4 0.03
180 5 0.03
181 43 0.30
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.53
Consensus pattern (174 bp):
ATTATTTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGTAATATTTAATATTAAG
AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAATATGATTA
AATTATTTATTATTTATTATATATATTAATAATAATTATTTTAG
Found at i:2021173 original size:16 final size:16
Alignment explanation
Indices: 2021151--2021196 Score: 83
Period size: 16 Copynumber: 2.9 Consensus size: 16
2021141 TACTATCACG
2021151 CCTCTATTCCATTACA
1 CCTCTATTCCATTACA
*
2021167 GCTCTATTCCATTACA
1 CCTCTATTCCATTACA
2021183 CCTCTATTCCATTA
1 CCTCTATTCCATTA
2021197 TAGCGAATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.24, C:0.35, G:0.02, T:0.39
Consensus pattern (16 bp):
CCTCTATTCCATTACA
Found at i:2022046 original size:7 final size:7
Alignment explanation
Indices: 2022034--2022084 Score: 68
Period size: 7 Copynumber: 7.3 Consensus size: 7
2022024 ACTAGTTAAT
2022034 CTAAACC
1 CTAAACC
2022041 CTAAACC
1 CTAAACC
*
2022048 ATAAA-C
1 CTAAACC
2022054 CTAAACC
1 CTAAACC
2022061 CTAAAACC
1 CT-AAACC
*
2022069 TTAAACC
1 CTAAACC
2022076 CTAAACC
1 CTAAACC
2022083 CT
1 CT
2022085 TAACACATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
6 5 0.13
7 27 0.71
8 6 0.16
ACGTcount: A:0.45, C:0.37, G:0.00, T:0.18
Consensus pattern (7 bp):
CTAAACC
Found at i:2022054 original size:14 final size:14
Alignment explanation
Indices: 2022035--2022231 Score: 89
Period size: 14 Copynumber: 13.9 Consensus size: 14
2022025 CTAGTTAATC
2022035 TAAACCCTAAACCA
1 TAAACCCTAAACCA
*
2022049 TAAA-CCTAAACCC
1 TAAACCCTAAACCA
* *
2022062 TAAAACCTTAAACCC
1 T-AAACCCTAAACCA
*
2022077 TAAACCCTTAACACA
1 TAAACCCTAAAC-CA
* *
2022092 T-AACATCTAAACCT
1 TAAAC-CCTAAACCA
* * *
2022106 TAAACCC-CATCCTT
1 TAAACCCTAAACC-A
*
2022120 TAAACCATAAACCA
1 TAAACCCTAAACCA
* * * *
2022134 TAAATCATAATCCC
1 TAAACCCTAAACCA
*
2022148 TAAACCCTTAATCCA
1 TAAACCC-TAAACCA
*
2022163 TAAACCTTAAA--A
1 TAAACCCTAAACCA
*
2022175 TAATAACTCCTAAACCT
1 T-A-AAC-CCTAAACCA
*
2022192 TAAACTCTAAACCA
1 TAAACCCTAAACCA
* *
2022206 TATACCCCAAACCA
1 TAAACCCTAAACCA
* *
2022220 AAAACCTTAAAC
1 TAAACCCTAAAC
2022232 TATAGTGATA
Statistics
Matches: 136, Mismatches: 34, Indels: 26
0.69 0.17 0.13
Matches are distributed among these distances:
12 2 0.01
13 13 0.10
14 77 0.57
15 42 0.31
16 1 0.01
17 1 0.01
ACGTcount: A:0.46, C:0.32, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:2022075 original size:15 final size:15
Alignment explanation
Indices: 2022036--2022087 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 15
2022026 TAGTTAATCT
* *
2022036 AAACCCTAAACCAT-
1 AAACCTTAAACCCTA
2022050 AAACC-TAAACCCTA
1 AAACCTTAAACCCTA
2022064 AAACCTTAAACCCTA
1 AAACCTTAAACCCTA
*
2022079 AACCCTTAA
1 AAACCTTAA
2022088 CACATAACAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
13 7 0.21
14 10 0.29
15 17 0.50
ACGTcount: A:0.48, C:0.35, G:0.00, T:0.17
Consensus pattern (15 bp):
AAACCTTAAACCCTA
Found at i:2022756 original size:39 final size:39
Alignment explanation
Indices: 2022713--2022819 Score: 124
Period size: 40 Copynumber: 2.7 Consensus size: 39
2022703 TGGAAAACGT
*
2022713 CGCTAATGCTCATTTTTAGCGGCGTTTTCCAAAAAGCGC
1 CGCTAATGCTCATTTTTAGCGGAGTTTTCCAAAAAGCGC
* * **
2022752 CGCTAATACTCGATCTTTAGCGGAGTTTTTTAAAAAGCGC
1 CGCTAATGCTC-ATTTTTAGCGGAGTTTTCCAAAAAGCGC
* * * *
2022792 CGGTAAAGCTTATTTTTAGCGGTGTTTT
1 CGCTAATGCTCATTTTTAGCGGAGTTTT
2022820 TTTTATCCAA
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
39 25 0.45
40 31 0.55
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (39 bp):
CGCTAATGCTCATTTTTAGCGGAGTTTTCCAAAAAGCGC
Found at i:2024695 original size:18 final size:19
Alignment explanation
Indices: 2024674--2024716 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
2024664 TATAATTTAA
*
2024674 AATTTTATAAA-TATTTTG
1 AATTTTAAAAATTATTTTG
2024692 AATTTTAAAAATTATTTTG
1 AATTTTAAAAATTATTTTG
*
2024711 TATTTT
1 AATTTT
2024717 TTGTTGAGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (19 bp):
AATTTTAAAAATTATTTTG
Found at i:2032189 original size:2 final size:2
Alignment explanation
Indices: 2032182--2032252 Score: 142
Period size: 2 Copynumber: 35.5 Consensus size: 2
2032172 NNNNNNNTAG
2032182 TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA
2032224 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2032253 GTAAATTGAG
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2033701 original size:2 final size:2
Alignment explanation
Indices: 2033694--2033730 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
2033684 TTCACTTTAT
*
2033694 TA TA TA TA TA TA TA TA TA TA TA TA TC TA -A TA -A TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2033731 TCAAAAAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2033806 original size:23 final size:24
Alignment explanation
Indices: 2033772--2033821 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
2033762 AGTTTTTCGA
2033772 TTTTGTATTTCGATTGC-CTTTTT
1 TTTTGTATTTCGATTGCTCTTTTT
*
2033795 TTTTCGTA-TTCGATTTCTCTTTTT
1 TTTT-GTATTTCGATTGCTCTTTTT
2033819 TTT
1 TTT
2033822 AAAAAGGACC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.08, C:0.14, G:0.10, T:0.68
Consensus pattern (24 bp):
TTTTGTATTTCGATTGCTCTTTTT
Found at i:2034130 original size:18 final size:19
Alignment explanation
Indices: 2034109--2034149 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
2034099 TTTTTATTGG
*
2034109 ATTTTAATATT-TTGTTTT
1 ATTTTAATATTATTATTTT
*
2034127 A-TTTATTATTATTATTTT
1 ATTTTAATATTATTATTTT
2034145 ATTTT
1 ATTTT
2034150 GGCCAGAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 8 0.42
18 8 0.42
19 3 0.16
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (19 bp):
ATTTTAATATTATTATTTT
Found at i:2037640 original size:26 final size:28
Alignment explanation
Indices: 2037603--2037660 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
2037593 TTCAAAAAAG
*
2037603 TAAAAAA-ATATATTATATAGATAATTT
1 TAAAAAATATATATCATATAGATAATTT
*
2037630 TAAAAAATATATATCATATATATAATTT
1 TAAAAAATATATATCATATAGATAATTT
2037658 TAA
1 TAA
2037661 TTTAATTGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
27 7 0.25
28 21 0.75
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (28 bp):
TAAAAAATATATATCATATAGATAATTT
Found at i:2043528 original size:43 final size:42
Alignment explanation
Indices: 2043416--2043529 Score: 108
Period size: 43 Copynumber: 2.6 Consensus size: 42
2043406 TGTGTTTTCG
* ** *
2043416 TGTAAGACCACGTCTAGAATGTTGGCATCGACTTGTGTTTTCA
1 TGTAAGACCACGTCTAG-ACGTTGGCATCGACTTGTAATTACA
*
2043459 TGTAAGACC-CTATCTAGGACAG-TGGCATCGA-TCTGTAATTACA
1 TGTAAGACCAC-GTCTA-GAC-GTTGGCATCGACT-TGTAATTACA
2043502 TGTAAGACCACGTCTGAGACGTTGGCAT
1 TGTAAGACCACGTCT-AGACGTTGGCAT
2043530 TGTACAAGCT
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
42 3 0.05
43 51 0.88
44 4 0.07
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (42 bp):
TGTAAGACCACGTCTAGACGTTGGCATCGACTTGTAATTACA
Found at i:2047625 original size:2 final size:2
Alignment explanation
Indices: 2047618--2047653 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
2047608 GATATTTGTT
2047618 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2047654 GGATTGGTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2053542 original size:4 final size:4
Alignment explanation
Indices: 2053533--2053570 Score: 67
Period size: 4 Copynumber: 9.5 Consensus size: 4
2053523 GGAATCAATG
*
2053533 AATA AATA AATA AATA AATA CATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AA
2053571 AACTTTCATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:2059232 original size:24 final size:24
Alignment explanation
Indices: 2059199--2059262 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 24
2059189 TTAATTTTTT
*
2059199 TAATTTTAGAAATAAAGATCTATA
1 TAATTATAGAAATAAAGATCTATA
* * *
2059223 TAATTATAGAAAT-AATATGTATC
1 TAATTATAGAAATAAAGATCTATA
*
2059246 TTATTATA-AAATAAAGA
1 TAATTATAGAAATAAAGA
2059263 GAGATGGAGA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
22 4 0.12
23 17 0.52
24 12 0.36
ACGTcount: A:0.52, C:0.03, G:0.08, T:0.38
Consensus pattern (24 bp):
TAATTATAGAAATAAAGATCTATA
Found at i:2065788 original size:15 final size:15
Alignment explanation
Indices: 2065768--2065808 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
2065758 ATGAAAAATA
*
2065768 AATAATAACAGTAAT
1 AATAATAACAATAAT
* *
2065783 AATAATGAGAATAAT
1 AATAATAACAATAAT
2065798 AATAATAACAA
1 AATAATAACAA
2065809 AATGTGCAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.63, C:0.05, G:0.07, T:0.24
Consensus pattern (15 bp):
AATAATAACAATAAT
Found at i:2065883 original size:4 final size:4
Alignment explanation
Indices: 2065874--2065907 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
2065864 AAAGAATCAT
* *
2065874 TAAA TAAA TAAG TACA TAAA TAAA TAAA TAAA TA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TA
2065908 TTTCATGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:2067497 original size:19 final size:19
Alignment explanation
Indices: 2067469--2067519 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
2067459 CATGCTTTCT
2067469 ATTCACATTTTCATATTCA
1 ATTCACATTTTCATATTCA
*
2067488 ATTCATATTTTCATATTCA
1 ATTCACATTTTCATATTCA
*
2067507 AATCACATTTTCA
1 ATTCACATTTTCA
2067520 AATTATGTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.20, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTCACATTTTCATATTCA
Found at i:2067836 original size:69 final size:69
Alignment explanation
Indices: 2067708--2067900 Score: 219
Period size: 69 Copynumber: 2.8 Consensus size: 69
2067698 TACGATACAT
* ** * * *
2067708 AAGTGCCTG--ATACGACACACGAGGTGTCTGAAATACGACACACGAGGTGTCTGAAATATGACA
1 AAGTGCCTGAAATACGACACACGAGGTGCCTGAAATACGACACATAAAGTGCCTGATATATGACA
* *
2067771 CACG
66 AACA
* * * * *
2067775 AGGTGTCTGAAATATGACACACGAGGTGCCTAAAATATGACACATAAAGTGCCTGATATATGACA
1 AAGTGCCTGAAATACGACACACGAGGTGCCTGAAATACGACACATAAAGTGCCTGATATATGACA
*
2067840 AATA
66 AACA
** *
2067844 AAGTGCCTGAAATACGACACATAAAGTGCCTGAAATACGACACATAAAGTGCCTGAT
1 AAGTGCCTGAAATACGACACACGAGGTGCCTGAAATACGACACATAAAGTGCCTGAT
2067901 CGGCATAGCC
Statistics
Matches: 102, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
67 7 0.07
69 95 0.93
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (69 bp):
AAGTGCCTGAAATACGACACACGAGGTGCCTGAAATACGACACATAAAGTGCCTGATATATGACA
AACA
Found at i:2067888 original size:23 final size:23
Alignment explanation
Indices: 2067697--2067899 Score: 178
Period size: 23 Copynumber: 9.0 Consensus size: 23
2067687 CCTGATCAGT
*
2067697 ATACGATACAT-AAGTGCCTG--
1 ATACGACACATAAAGTGCCTGAA
** * *
2067717 ATACGACACACGAGGTGTCTGAA
1 ATACGACACATAAAGTGCCTGAA
** * *
2067740 ATACGACACACGAGGTGTCTGAA
1 ATACGACACATAAAGTGCCTGAA
* ** * *
2067763 ATATGACACACGAGGTGTCTGAA
1 ATACGACACATAAAGTGCCTGAA
* ** * *
2067786 ATATGACACACGAGGTGCCTAAA
1 ATACGACACATAAAGTGCCTGAA
* *
2067809 ATATGACACATAAAGTGCCTGAT
1 ATACGACACATAAAGTGCCTGAA
* *
2067832 ATATGACAAATAAAGTGCCTGAA
1 ATACGACACATAAAGTGCCTGAA
2067855 ATACGACACATAAAGTGCCTGAA
1 ATACGACACATAAAGTGCCTGAA
2067878 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
2067900 TCGGCATAGC
Statistics
Matches: 164, Mismatches: 16, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
20 9 0.05
21 7 0.04
23 148 0.90
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.20
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAA
Found at i:2075239 original size:56 final size:56
Alignment explanation
Indices: 2075164--2075335 Score: 263
Period size: 65 Copynumber: 2.9 Consensus size: 56
2075154 TCCTTTATTA
2075164 GTAAACAATTTGTATTACTCTTCTTCCAGACTATATACATTAAACTTCCTAGAGTT
1 GTAAACAATTTGTATTACTCTTCTTCCAGACTATATACATTAAACTTCCTAGAGTT
2075220 GTAAACAATTTGTATTACTCTTCTTCCTCTTCTTCCAGACTATATACATTAAACTTCCTAGAGTT
1 GTAAACAATTTGTATTA---------CTCTTCTTCCAGACTATATACATTAAACTTCCTAGAGTT
2075285 GTAAACAATTTGTATTACTCTTCTTCCAGACTATATACATTAAACTTCCTA
1 GTAAACAATTTGTATTACTCTTCTTCCAGACTATATACATTAAACTTCCTA
2075336 TATTGAGGTA
Statistics
Matches: 107, Mismatches: 0, Indels: 18
0.86 0.00 0.14
Matches are distributed among these distances:
56 51 0.48
65 56 0.52
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.40
Consensus pattern (56 bp):
GTAAACAATTTGTATTACTCTTCTTCCAGACTATATACATTAAACTTCCTAGAGTT
Found at i:2075775 original size:20 final size:20
Alignment explanation
Indices: 2075750--2075805 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
2075740 ATTTTAAATG
2075750 ATTTTTAGAATTAAATTTTT
1 ATTTTTAGAATTAAATTTTT
2075770 ATTTTT----TT-AATTTTT
1 ATTTTTAGAATTAAATTTTT
* *
2075785 AATTTTAGAAATAAATTTTT
1 ATTTTTAGAATTAAATTTTT
2075805 A
1 A
2075806 AATTATTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
15 12 0.41
16 2 0.07
19 1 0.03
20 14 0.48
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.61
Consensus pattern (20 bp):
ATTTTTAGAATTAAATTTTT
Found at i:2075818 original size:35 final size:35
Alignment explanation
Indices: 2075752--2075818 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
2075742 TTTAAATGAT
* * *
2075752 TTTTAGAATTAAATTTTTATTTTTTTAATTTTTAA
1 TTTTAGAAATAAATTTTTAATTATTTAATTTTTAA
2075787 TTTTAGAAATAAATTTTTAAATTATTT-ATTTT
1 TTTTAGAAATAAATTTTT-AATTATTTAATTTT
2075819 GAAACAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 22 0.79
36 6 0.21
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (35 bp):
TTTTAGAAATAAATTTTTAATTATTTAATTTTTAA
Found at i:2075828 original size:28 final size:28
Alignment explanation
Indices: 2075772--2075828 Score: 64
Period size: 28 Copynumber: 2.0 Consensus size: 28
2075762 AAATTTTTAT
* *
2075772 TTTTTTAATTTTTAATTTTAGAAATAAA
1 TTTTTAAATTTTTAATTTTAGAAAAAAA
2075800 TTTTTAAATTATTT-ATTTT-GAAACAAAA
1 TTTTTAAATT-TTTAATTTTAGAAA-AAAA
2075828 T
1 T
2075829 AAAGTAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
27 4 0.16
28 18 0.72
29 3 0.12
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (28 bp):
TTTTTAAATTTTTAATTTTAGAAAAAAA
Found at i:2084424 original size:18 final size:16
Alignment explanation
Indices: 2084382--2084424 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 16
2084372 TGTCGTTCTT
2084382 TTTCAAAATATTATTCA
1 TTTC-AAATATTATTCA
2084399 TTTACAAATCATTATTCAA
1 TTT-CAAAT-ATTATTC-A
2084418 TTTCAAA
1 TTTCAAA
2084425 ACGTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 7 0.30
18 12 0.52
19 4 0.17
ACGTcount: A:0.42, C:0.14, G:0.00, T:0.44
Consensus pattern (16 bp):
TTTCAAATATTATTCA
Found at i:2087726 original size:30 final size:31
Alignment explanation
Indices: 2087691--2087754 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
2087681 ATTCGTCATC
*
2087691 ATTGGAAA-ATTAAATAA-AGAAA-ATGATTAA
1 ATTGGAAAGATGAAATAATA-AAATATGA-TAA
2087721 ATTGGAAAGATGAAATAATAAAATATGATAA
1 ATTGGAAAGATGAAATAATAAAATATGATAA
2087752 ATT
1 ATT
2087755 AATTAAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 8 0.27
31 17 0.57
32 5 0.17
ACGTcount: A:0.58, C:0.00, G:0.14, T:0.28
Consensus pattern (31 bp):
ATTGGAAAGATGAAATAATAAAATATGATAA
Found at i:2088695 original size:25 final size:24
Alignment explanation
Indices: 2088637--2088700 Score: 101
Period size: 24 Copynumber: 2.6 Consensus size: 24
2088627 CCGTTAATAT
*
2088637 CTCTCTTGAGCATCCTGATATTGG
1 CTCTCTTGAGCTTCCTGATATTGG
2088661 CTCTCTTGAGCTTCCTGATATATGG
1 CTCTCTTGAGCTTCCTGATAT-TGG
*
2088686 CTCTCATGAGCTTCC
1 CTCTCTTGAGCTTCC
2088701 CGTTAATAGC
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
24 20 0.54
25 17 0.46
ACGTcount: A:0.16, C:0.28, G:0.19, T:0.38
Consensus pattern (24 bp):
CTCTCTTGAGCTTCCTGATATTGG
Found at i:2089879 original size:13 final size:12
Alignment explanation
Indices: 2089860--2089889 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
2089850 TGCCAGCAAC
2089860 TATGAATTTATT
1 TATGAATTTATT
2089872 TCATGAATTTATT
1 T-ATGAATTTATT
2089885 TATGA
1 TATGA
2089890 TGATCCAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.53
Consensus pattern (12 bp):
TATGAATTTATT
Found at i:2091212 original size:20 final size:20
Alignment explanation
Indices: 2091184--2091221 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2091174 AAATTGATTG
2091184 CAAAGTGGCCTGCAACTTTA
1 CAAAGTGGCCTGCAACTTTA
*
2091204 CAAATTGGCCTGCAACTT
1 CAAAGTGGCCTGCAACTT
2091222 AAAGGGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (20 bp):
CAAAGTGGCCTGCAACTTTA
Found at i:2095805 original size:29 final size:30
Alignment explanation
Indices: 2095743--2095889 Score: 194
Period size: 30 Copynumber: 5.0 Consensus size: 30
2095733 TAATTTTTTG
2095743 CATTTTGACCCCTAAACTTT-TCTAAAATTA
1 CATTTTGACCCCTAAACTTTCT-TAAAATTA
*
2095773 CATTTTGACCCC-AAAATTTCTTAAAATTA
1 CATTTTGACCCCTAAACTTTCTTAAAATTA
* * * *
2095802 CA-TTTCAACCCTAAAATTT-TTGAAATTA
1 CATTTTGACCCCTAAACTTTCTTAAAATTA
*
2095830 CATTTTGACCCCTAAACTTTCTTGAAATTA
1 CATTTTGACCCCTAAACTTTCTTAAAATTA
*
2095860 CATTTTGACCCCTAAACTTTCTCAAAATTA
1 CATTTTGACCCCTAAACTTTCTTAAAATTA
2095890 TGTTTCAACC
Statistics
Matches: 104, Mismatches: 9, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
28 17 0.16
29 37 0.36
30 50 0.48
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.39
Consensus pattern (30 bp):
CATTTTGACCCCTAAACTTTCTTAAAATTA
Found at i:2095858 original size:58 final size:58
Alignment explanation
Indices: 2095752--2095864 Score: 174
Period size: 58 Copynumber: 1.9 Consensus size: 58
2095742 GCATTTTGAC
*
2095752 CCCTAAACTTTTCTAAAATTACATTTTGACCCCAAAATTTCTTAAAATTACATTTCAA
1 CCCTAAAATTTTCTAAAATTACATTTTGACCCCAAAATTTCTTAAAATTACATTTCAA
* * *
2095810 CCCTAAAATTTT-TGAAATTACATTTTGACCCCTAAACTTTCTTGAAATTACATTT
1 CCCTAAAATTTTCTAAAATTACATTTTGACCCC-AAAATTTCTTAAAATTACATTT
2095865 TGACCCCTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
57 19 0.38
58 31 0.62
ACGTcount: A:0.35, C:0.21, G:0.04, T:0.40
Consensus pattern (58 bp):
CCCTAAAATTTTCTAAAATTACATTTTGACCCCAAAATTTCTTAAAATTACATTTCAA
Found at i:2096213 original size:3 final size:3
Alignment explanation
Indices: 2096205--2096276 Score: 56
Period size: 3 Copynumber: 22.0 Consensus size: 3
2096195 GCTAGACTTT
2096205 GAA GAA GAA GAA GAA GGAA GAA GAAA GAA GAAA GAA GAAA GAAA GAA
1 GAA GAA GAA GAA GAA -GAA GAA G-AA GAA G-AA GAA G-AA G-AA GAA
* *
2096252 AAA AAA G-A GAAA GAA GAA GGAA GAA
1 GAA GAA GAA G-AA GAA GAA -GAA GAA
2096277 AAAAAGAAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 14
0.79 0.03 0.18
Matches are distributed among these distances:
2 2 0.03
3 37 0.62
4 21 0.35
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:2096226 original size:7 final size:7
Alignment explanation
Indices: 2096208--2096276 Score: 50
Period size: 7 Copynumber: 9.9 Consensus size: 7
2096198 AGACTTTGAA
2096208 GAAGAA-
1 GAAGAAG
2096214 GAAGAAG
1 GAAGAAG
2096221 GAAGAAG
1 GAAGAAG
*
2096228 AAAGAAG
1 GAAGAAG
*
2096235 AAAGAAG
1 GAAGAAG
* *
2096242 AAAGAAA
1 GAAGAAG
* *
2096249 GAAAAAA
1 GAAGAAG
* *
2096256 AAGAGAAA
1 GA-AGAAG
2096264 GAAGAAG
1 GAAGAAG
2096271 GAAGAA
1 GAAGAA
2096277 AAAAAGAAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
6 6 0.11
7 42 0.79
8 5 0.09
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (7 bp):
GAAGAAG
Found at i:2096232 original size:4 final size:4
Alignment explanation
Indices: 2096225--2096292 Score: 60
Period size: 4 Copynumber: 18.5 Consensus size: 4
2096215 AAGAAGGAAG
2096225 AAGA AAG- AAGA AAG- AAGA AAGA AAGA AA-A AA-A AGAGA AAG- AAG-
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA A-AGA AAGA AAGA
* *
2096268 AAGG AAGA AAAA AAGA AA-A AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AA
2096293 TTTTTTTTTT
Statistics
Matches: 55, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
3 20 0.36
4 33 0.60
5 2 0.04
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:2096263 original size:33 final size:33
Alignment explanation
Indices: 2096226--2096288 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
2096216 AGAAGGAAGA
*
2096226 AGAAAGAAGAAAGAAGAAAGAAAGAAAAAAAAG
1 AGAAAGAAGAAAGAAGAAAAAAAGAAAAAAAAG
*
2096259 AGAAAGAAGAAGGAAGAAAAAAAGAAAAAA
1 AGAAAGAAGAAAGAAGAAAAAAAGAAAAAA
2096289 GAAATTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (33 bp):
AGAAAGAAGAAAGAAGAAAAAAAGAAAAAAAAG
Found at i:2096286 original size:7 final size:7
Alignment explanation
Indices: 2096222--2096292 Score: 54
Period size: 7 Copynumber: 9.9 Consensus size: 7
2096212 AAGAAGAAGG
*
2096222 AAGAAGA
1 AAGAAAA
*
2096229 AAGAAGA
1 AAGAAAA
*
2096236 AAGAAGA
1 AAGAAAA
2096243 AAGAAAGA
1 AAGAAA-A
2096251 AA-AAAA
1 AAGAAAA
*
2096257 AGAGAAAG
1 A-AGAAAA
**
2096265 AAGAAGG
1 AAGAAAA
2096272 AAGAAAAA
1 AAG-AAAA
2096280 AAGAAAA
1 AAGAAAA
2096287 AAGAAA
1 AAGAAA
2096293 TTTTTTTTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
6 2 0.04
7 41 0.75
8 12 0.22
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:2096418 original size:18 final size:17
Alignment explanation
Indices: 2096395--2096433 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 17
2096385 AGCAGCCCCC
2096395 AAAAAAAACAAAGCAGCA
1 AAAAAAAACAAAGCAG-A
2096413 AAAAAAAACAAAGCAGA
1 AAAAAAAACAAAGCAGA
2096430 AAAA
1 AAAA
2096434 TATAAAATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.77, C:0.13, G:0.10, T:0.00
Consensus pattern (17 bp):
AAAAAAAACAAAGCAGA
Found at i:2097179 original size:18 final size:19
Alignment explanation
Indices: 2097124--2097189 Score: 57
Period size: 18 Copynumber: 3.6 Consensus size: 19
2097114 TTTAAAATTT
* *
2097124 GTGTTTTGAAAAAATTCTC
1 GTGTTTTAAAAAAAATCTC
* * *
2097143 GTG-TTT-CAAAAACTGTC
1 GTGTTTTAAAAAAAATCTC
2097160 GTGTTTTAAAAAAAAT-TC
1 GTGTTTTAAAAAAAATCTC
2097178 GTGTTTCTAAAA
1 GTGTTT-TAAAA
2097190 TTTTCGTGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
17 11 0.28
18 14 0.36
19 14 0.36
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (19 bp):
GTGTTTTAAAAAAAATCTC
Found at i:2097212 original size:33 final size:34
Alignment explanation
Indices: 2097102--2097206 Score: 115
Period size: 35 Copynumber: 3.0 Consensus size: 34
2097092 CGTGTTTCAC
*
2097102 AAATGTTCGTGTTT-TAAAATTT-GTGTTTTGAAA
1 AAAT-TTCGTGTTTCTAAAATTTCGTGTTTTAAAA
* *
2097135 AAATTCTCGTGTTTCAAAAACTGTCGTGTTTTAAAA
1 AAATT-TCGTGTTTCTAAAA-TTTCGTGTTTTAAAA
* *
2097171 AAAATTCGTGTTTCTAAAATTTTCGTGTTTCAAAA
1 AAATTTCGTGTTTCTAAAA-TTTCGTGTTTTAAAA
2097206 A
1 A
2097207 TTTCGTTTTT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
32 1 0.02
33 12 0.20
34 4 0.07
35 29 0.48
36 14 0.23
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (34 bp):
AAATTTCGTGTTTCTAAAATTTCGTGTTTTAAAA
Found at i:2097218 original size:17 final size:16
Alignment explanation
Indices: 2097092--2097212 Score: 93
Period size: 17 Copynumber: 7.2 Consensus size: 16
2097082 AAAAAATTCC
*
2097092 CGTGTTTCACAAATGTT
1 CGTGTTTCAAAAAT-TT
*
2097109 CGTGTTT-TAAAATTT
1 CGTGTTTCAAAAATTT
*
2097124 -GTGTTTTGAAAAAATTCT
1 CGTG-TTT-CAAAAATT-T
*
2097142 CGTGTTTCAAAAACTGT
1 CGTGTTTCAAAAA-TTT
* *
2097159 CGTGTTTTAAAAAAAATT
1 CGTG-TTT-CAAAAATTT
*
2097177 CGTGTTTCTAAAATTTT
1 CGTGTTTC-AAAAATTT
2097194 CGTGTTTCAAAAATTT
1 CGTGTTTCAAAAATTT
2097210 CGT
1 CGT
2097213 TTTTTCTTTT
Statistics
Matches: 83, Mismatches: 12, Indels: 19
0.73 0.11 0.17
Matches are distributed among these distances:
14 3 0.04
15 5 0.06
16 14 0.17
17 40 0.48
18 13 0.16
19 8 0.10
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.44
Consensus pattern (16 bp):
CGTGTTTCAAAAATTT
Found at i:2099224 original size:133 final size:133
Alignment explanation
Indices: 2098986--2099252 Score: 525
Period size: 133 Copynumber: 2.0 Consensus size: 133
2098976 GCTTCGCATC
2098986 GATAATGTGCAACTCAACAAGATATATGTGAAGGAGCCTAAACCAATGACCTTCAAGAAAAAGCT
1 GATAATGTGCAACTCAACAAGATATATGTGAAGGAGCCTAAACCAATGACCTTCAAGAAAAAGCT
2099051 AATGAAGTTGACGGGGATGACTGATACATGGGCTGAAAAATAGATAAAGAAGAAGAATGAAGTCA
66 AATGAAGTTGACGGGGATGACTGATACATGGGCTGAAAAATAGATAAAGAAGAAGAATGAAGTCA
2099116 GTT
131 GTT
*
2099119 GATAATGTGCAACTCAACAAGATATATGTGAAGGAGCCTAAACCAATGACCTTCAAGAAAAAGGT
1 GATAATGTGCAACTCAACAAGATATATGTGAAGGAGCCTAAACCAATGACCTTCAAGAAAAAGCT
2099184 AATGAAGTTGACGGGGATGACTGATACATGGGCTGAAAAATAGATAAAGAAGAAGAATGAAGTCA
66 AATGAAGTTGACGGGGATGACTGATACATGGGCTGAAAAATAGATAAAGAAGAAGAATGAAGTCA
2099249 GTT
131 GTT
2099252 G
1 G
2099253 TGTTCCATAG
Statistics
Matches: 133, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
133 133 1.00
ACGTcount: A:0.43, C:0.12, G:0.25, T:0.20
Consensus pattern (133 bp):
GATAATGTGCAACTCAACAAGATATATGTGAAGGAGCCTAAACCAATGACCTTCAAGAAAAAGCT
AATGAAGTTGACGGGGATGACTGATACATGGGCTGAAAAATAGATAAAGAAGAAGAATGAAGTCA
GTT
Found at i:2106035 original size:27 final size:27
Alignment explanation
Indices: 2106001--2106057 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
2105991 TAAACTCGAA
2106001 TTTTAGAATCGATATTGTAGGGAGAAT
1 TTTTAGAATCGATATTGTAGGGAGAAT
2106028 TTTTAGAATCGATATTGTAGGGAGAAT
1 TTTTAGAATCGATATTGTAGGGAGAAT
2106055 TTT
1 TTT
2106058 ACTTGAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.32, C:0.04, G:0.25, T:0.40
Consensus pattern (27 bp):
TTTTAGAATCGATATTGTAGGGAGAAT
Found at i:2106589 original size:17 final size:18
Alignment explanation
Indices: 2106550--2106591 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
2106540 GCACAAATAT
*
2106550 ATTTTATTTATTCTTTTTC
1 ATTTT-TTTATTCTCTTTC
2106569 -TTTTTTTA-TCTCTTTC
1 ATTTTTTTATTCTCTTTC
2106585 ATTTTTT
1 ATTTTTT
2106592 CCAATTGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 7 0.33
17 10 0.48
18 4 0.19
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (18 bp):
ATTTTTTTATTCTCTTTC
Found at i:2107509 original size:73 final size:73
Alignment explanation
Indices: 2107429--2107573 Score: 263
Period size: 73 Copynumber: 2.0 Consensus size: 73
2107419 ATATAGACTT
*
2107429 AATGTTTAATTGAAATATTCTTGATTTATGGCATGAAATTCTTGAGTAGGTAATCATATGACATA
1 AATGTTTAATTGAAATATTCTTGATTTATGGCATGAAATTCTTGAGTAGCTAATCATATGACATA
2107494 CTAGATTC
66 CTAGATTC
* *
2107502 AATGTTTAATTGAAATATTCTTGATTTATGGCTTGAAATTCTTGATTAGCTAATCATATGACATA
1 AATGTTTAATTGAAATATTCTTGATTTATGGCATGAAATTCTTGAGTAGCTAATCATATGACATA
2107567 CTAGATT
66 CTAGATT
2107574 TATAATTGCG
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 69 1.00
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (73 bp):
AATGTTTAATTGAAATATTCTTGATTTATGGCATGAAATTCTTGAGTAGCTAATCATATGACATA
CTAGATTC
Found at i:2109389 original size:18 final size:19
Alignment explanation
Indices: 2109357--2109405 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
2109347 AAACATATAA
*
2109357 ATTTTGAAATGTTTATAAA-T
1 ATTTTG-AAT-TTTAAAAATT
2109377 ATTTTGAATTTTAAAAATT
1 ATTTTGAATTTTAAAAATT
2109396 ATTTTGAATT
1 ATTTTGAATT
2109406 ATTTTGTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 7 0.26
19 14 0.52
20 6 0.22
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (19 bp):
ATTTTGAATTTTAAAAATT
Found at i:2113257 original size:20 final size:20
Alignment explanation
Indices: 2113229--2113266 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2113219 AAATTGATTG
2113229 CAAAGTGGCCTGCAACTTTA
1 CAAAGTGGCCTGCAACTTTA
*
2113249 CAAATTGGCCTGCAACTT
1 CAAAGTGGCCTGCAACTT
2113267 AAAGGGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (20 bp):
CAAAGTGGCCTGCAACTTTA
Found at i:2124220 original size:16 final size:16
Alignment explanation
Indices: 2124199--2124257 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
2124189 TAAAAAATAC
2124199 AAAATAATTTAATAAT
1 AAAATAATTTAATAAT
2124215 AAAATAA-TTAA-AAT
1 AAAATAATTTAATAAT
* * *
2124229 AGTAATTAATGTAATTAT
1 A--AAATAATTTAATAAT
2124247 AAAAT-ATTTAA
1 AAAATAATTTAA
2124258 AAAATTATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 9
0.71 0.10 0.19
Matches are distributed among these distances:
14 4 0.12
15 9 0.26
16 15 0.44
17 3 0.09
18 3 0.09
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.37
Consensus pattern (16 bp):
AAAATAATTTAATAAT
Found at i:2124706 original size:113 final size:113
Alignment explanation
Indices: 2124412--2124995 Score: 551
Period size: 114 Copynumber: 5.1 Consensus size: 113
2124402 TAAAACCTGA
* * *
2124412 AGAACTAGTGGCGTTTCTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTA-TTGTAAGC
1 AGAATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACAT-ATTAGTGGCGTTTATTTGGAAGC
** *
2124476 GCCGCAAAATACCTTAACCAAAACGCAGCG-TTGGT-TCAATTGTATATT
65 GCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTCTTGA-GGTATATT
* ** * * *****
2124524 AGAATTCGTGGCGTTTTTTATAAAAAACGCCGCGAAAGAATAGTATTAGCGGCGTTTAACAAAAA
1 AGAATTAGTGGCG-TTTTTA-AAAAAACGCCGTAAAAGAACA-TATTAGTGGCGTTTATTTGGAA
* ** * ** *
2124589 GCGCCGC-AAATATCTTAAGGAAAACGCACCGTTTTATCTTGAGGTAGATT
63 GCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATT
* *
2124639 A-ATATTAGTGGCGTTTTTAAAAAAACACCGTAAAAGAACATAATTAGTGGCGTTTATTTGGATG
1 AGA-ATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACAT-ATTAGTGGCGTTTATTTGGAAG
** *
2124703 CGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGT-TCAATTGTATATT
64 CGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTCTTGA-GGTATATT
* * * * *
2124753 AGACATT-GTGGCGTTTTCT-ATAAAACGCCGCAAAAGAATAGTATTAGCGGCG-TT-TTCGGTA
1 AGA-ATTAGTGGCGTTTT-TAAAAAAACGCCGTAAAAGAACA-TATTAGTGGCGTTTATTTGG--
* ** * * *
2124814 AAGCGCCGC-AAATATCTTAATGAAAACGCACCGTTTCGTCTTGAGGTAGATT
61 AAGCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATT
* * * ** *
2124866 AGTATTAGTGGCGTTTTTAGAAAAACGCCGTAAAAGAACATGATTAGTGGCATTTATTTTTATGC
1 AGAATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACAT-ATTAGTGGCGTTTATTTGGAAGC
*
2124931 GCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATT
65 GCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATT
2124980 AGAATTAGTGGCGTTT
1 AGAATTAGTGGCGTTT
2124996 ACGATAAAAC
Statistics
Matches: 371, Mismatches: 79, Indels: 42
0.75 0.16 0.09
Matches are distributed among these distances:
112 21 0.06
113 123 0.33
114 188 0.51
115 37 0.10
116 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.29
Consensus pattern (113 bp):
AGAATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATATTAGTGGCGTTTATTTGGAAGCG
CCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATT
Found at i:2124819 original size:227 final size:227
Alignment explanation
Indices: 2124417--2125013 Score: 898
Period size: 227 Copynumber: 2.6 Consensus size: 227
2124407 CCTGAAGAAC
* *
2124417 TAGTGGCGTTTCTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTA-TTGTAAGCGCCGC
1 TAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGTATGCGCCGC
* *
2124481 AAAATACCTTAACCAAAACGCAGCG-TTGGTTCAATTGTATATTAGAATTCGTGGCGTTTTTTAT
66 AAAATACCTTAACCAAAACGCAGCGTTTGGTTCAATTGTATATTAGAATTAGTGGCGTTTTCTAT
*
2124545 AAAAAACGCCGCGAAAGAATAGTATTAGCGGCGTTTAACAAAAAGCGCCGCAAATATCTTAAGGA
131 --AAAACGCCGCAAAAGAATAGTATTAGCGGCGTTTAACAAAAAGCGCCGCAAATATCTTAAGGA
*
2124610 AAACGCACCGTTTTATCTTGAGGTAGATTAATAT
194 AAACGCACCGTTTCATCTTGAGGTAGATTAATAT
* *
2124644 TAGTGGCGTTTTTAAAAAAACACCGTAAAAGAACATAATTAGTGGCGTTTATTTGGATGCGCCGC
1 TAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGTATGCGCCGC
2124709 AAAATACCTTAACCAAAACGCAGCGTTTGGTTCAATTGTATATTAGACATT-GTGGCGTTTTCTA
66 AAAATACCTTAACCAAAACGCAGCGTTTGGTTCAATTGTATATTAGA-ATTAGTGGCGTTTTCTA
* ** *
2124773 TAAAACGCCGCAAAAGAATAGTATTAGCGGCGTTT-TCGGTAAAGCGCCGCAAATATCTTAATGA
130 TAAAACGCCGCAAAAGAATAGTATTAGCGGCGTTTAAC-AAAAAGCGCCGCAAATATCTTAAGGA
* *
2124837 AAACGCACCGTTTCGTCTTGAGGTAGATTAGTAT
194 AAACGCACCGTTTCATCTTGAGGTAGATTAATAT
* * * *
2124871 TAGTGGCGTTTTTAGAAAAACGCCGTAAAAGAACATGATTAGTGGCATTTATTTTTATGCGCCGC
1 TAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGTATGCGCCGC
** * * *
2124936 AAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGA-GGTATATTAGAATTAGTGGCGTTTACGA
66 AAAATACCTTAACCAAAACGCAGCGTTTGG-TTCAATTGTATATTAGAATTAGTGGCGTTTTCTA
*
2125000 TAAAACGCTGCAAA
130 TAAAACGCCGCAAA
2125014 TATCTTAACG
Statistics
Matches: 339, Mismatches: 25, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
226 4 0.01
227 259 0.76
228 39 0.12
229 34 0.10
230 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (227 bp):
TAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGTATGCGCCGC
AAAATACCTTAACCAAAACGCAGCGTTTGGTTCAATTGTATATTAGAATTAGTGGCGTTTTCTAT
AAAACGCCGCAAAAGAATAGTATTAGCGGCGTTTAACAAAAAGCGCCGCAAATATCTTAAGGAAA
ACGCACCGTTTCATCTTGAGGTAGATTAATAT
Found at i:2125045 original size:188 final size:188
Alignment explanation
Indices: 2124795--2125198 Score: 646
Period size: 188 Copynumber: 2.1 Consensus size: 188
2124785 AAAGAATAGT
* * * * *
2124795 ATTAGCGGCGTTTTCGGTAAAGCGCCGCAAATATCTTAATGAAAACGCACCGTTTCGTCTTGAGG
1 ATTAGTGGCGTTTACGGTAAAACGCTGCAAATATCTTAACGAAAACGCACCGTTTCGTCTTGAGG
* * *
2124860 TAGATTAGTATTAGTGGCGTTTTTAGAAAAACGCCGTAAAAGAACATGATTAGTGGCATTTATTT
66 TAGATTAATATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCATTTATTT
** *
2124925 TTATGCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGA
131 GGAAGCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGA
* *
2124983 ATTAGTGGCGTTTACGATAAAACGCTGCAAATATCTTAACGAAAACGCACCGTTTGGTCTTGAGG
1 ATTAGTGGCGTTTACGGTAAAACGCTGCAAATATCTTAACGAAAACGCACCGTTTCGTCTTGAGG
*
2125048 TAGATTAATATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTT
66 TAGATTAATATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCATTTATTT
* * *
2125113 GGAAGCGCCGCAAAATGCCTTAACCAAAACGCAGTGTTTGGTTTTGATGTATATTAGA
131 GGAAGCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGA
*
2125171 ATTAGTGGCGTTTATGGTAAAACGCTGC
1 ATTAGTGGCGTTTACGGTAAAACGCTGC
2125199 TAAAGAATAG
Statistics
Matches: 197, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
188 197 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.31
Consensus pattern (188 bp):
ATTAGTGGCGTTTACGGTAAAACGCTGCAAATATCTTAACGAAAACGCACCGTTTCGTCTTGAGG
TAGATTAATATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCATTTATTT
GGAAGCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGA
Found at i:2125079 original size:74 final size:74
Alignment explanation
Indices: 2124937--2125081 Score: 193
Period size: 74 Copynumber: 2.0 Consensus size: 74
2124927 ATGCGCCGCA
* * * * *
2124937 AAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGAATTAGTGGCGTTTACGATA
1 AAATACCTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTAGAATTAGTGGCGTTTACAAAA
2125002 AAACGCTGC
66 AAACGCTGC
* * **
2125011 AAATATCTTAACGAAAACGCACCGTTTGGTCTTGAGGTAGATTA-ATATTAGTGGCGTTTTTAAA
1 AAATACCTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTAGA-ATTAGTGGCGTTTACAAA
2125075 AAAACGC
65 AAAACGC
2125082 CGTAAAAGAA
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
73 1 0.02
74 60 0.98
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (74 bp):
AAATACCTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTAGAATTAGTGGCGTTTACAAAA
AAACGCTGC
Found at i:2125204 original size:114 final size:114
Alignment explanation
Indices: 2125017--2125222 Score: 247
Period size: 114 Copynumber: 1.8 Consensus size: 114
2125007 CTGCAAATAT
* *
2125017 CTTAACGAAAACGCACCGTTTGGTCTTGAGGTAGATTAATATTAGTGGCGTTTTTAAAAAAACGC
1 CTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTAATATTAGTGGCGTTTATAAAAAAACGC
*
2125082 CGTAAAAGAACA-TAATTAGTGGCGTTTATTTGGAAGCGCCGCAAAATGC
66 CGTAAAAGAACAGT-ATTAGCGGCGTTTATTTGGAAGCGCCGCAAAATGC
** * * * ***
2125131 CTTAACCAAAACGCAGTGTTTGGTTTTGATGTATATTAGA-ATTAGTGGCGTTTATGGTAAAACG
1 CTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTA-ATATTAGTGGCGTTTATAAAAAAACG
* *
2125195 CTGCT-AAAGAATAGTATTAGCGGCGTTT
65 CCG-TAAAAGAACAGTATTAGCGGCGTTT
2125223 TCGGTAAAGC
Statistics
Matches: 76, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
114 73 0.96
115 3 0.04
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (114 bp):
CTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTAATATTAGTGGCGTTTATAAAAAAACGC
CGTAAAAGAACAGTATTAGCGGCGTTTATTTGGAAGCGCCGCAAAATGC
Found at i:2125621 original size:7 final size:7
Alignment explanation
Indices: 2125611--2125654 Score: 65
Period size: 7 Copynumber: 6.6 Consensus size: 7
2125601 GGTTTATGGA
2125611 TTAGGGG
1 TTAGGGG
2125618 TTAGGGG
1 TTAGGGG
*
2125625 TTATGGG
1 TTAGGGG
2125632 TTAGGGG
1 TTAGGGG
2125639 TTA--GG
1 TTAGGGG
2125644 TTAGGGG
1 TTAGGGG
2125651 TTAG
1 TTAG
2125655 ATGTTAAGAG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 5 0.15
7 28 0.85
ACGTcount: A:0.16, C:0.00, G:0.50, T:0.34
Consensus pattern (7 bp):
TTAGGGG
Found at i:2125630 original size:21 final size:21
Alignment explanation
Indices: 2125604--2125643 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2125594 GATTTAAGGT
2125604 TTATGGATTAGGGGTTAGGGG
1 TTATGGATTAGGGGTTAGGGG
*
2125625 TTATGGGTTAGGGGTTAGG
1 TTATGGATTAGGGGTTAGG
2125644 TTAGGGGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.00, G:0.47, T:0.35
Consensus pattern (21 bp):
TTATGGATTAGGGGTTAGGGG
Found at i:2125660 original size:14 final size:12
Alignment explanation
Indices: 2125616--2125654 Score: 60
Period size: 12 Copynumber: 3.1 Consensus size: 12
2125606 ATGGATTAGG
2125616 GGTTAGGGGTTA
1 GGTTAGGGGTTA
2125628 TGGGTTAGGGGTTA
1 --GGTTAGGGGTTA
2125642 GGTTAGGGGTTA
1 GGTTAGGGGTTA
2125654 G
1 G
2125655 ATGTTAAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 13 0.52
14 12 0.48
ACGTcount: A:0.15, C:0.00, G:0.51, T:0.33
Consensus pattern (12 bp):
GGTTAGGGGTTA
Found at i:2125667 original size:26 final size:26
Alignment explanation
Indices: 2125616--2125668 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
2125606 ATGGATTAGG
* *
2125616 GGTTAGGGGTTATGGGTTAGGGGTTA
1 GGTTAGGGGTTATGGGTTAAGAGTTA
*
2125642 GGTTAGGGGTTA-GATGTTAAGAGTTA
1 GGTTAGGGGTTATG-GGTTAAGAGTTA
2125668 G
1 G
2125669 AGTTTAGGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 1 0.04
26 22 0.96
ACGTcount: A:0.21, C:0.00, G:0.45, T:0.34
Consensus pattern (26 bp):
GGTTAGGGGTTATGGGTTAAGAGTTA
Found at i:2125765 original size:7 final size:7
Alignment explanation
Indices: 2125753--2125835 Score: 87
Period size: 7 Copynumber: 11.9 Consensus size: 7
2125743 TAAATAAGTT
2125753 TTAGGGG
1 TTAGGGG
2125760 TTAGGGG
1 TTAGGGG
*
2125767 TTAGAGG
1 TTAGGGG
* *
2125774 TCATGGG
1 TTAGGGG
*
2125781 TTAAGGGT
1 TT-AGGGG
2125789 TTA-GGG
1 TTAGGGG
*
2125795 TTAAGGG
1 TTAGGGG
2125802 TTAGGGG
1 TTAGGGG
*
2125809 TTAAGGG
1 TTAGGGG
2125816 TTAGGGG
1 TTAGGGG
*
2125823 TTAGGGT
1 TTAGGGG
2125830 TTAGGG
1 TTAGGG
2125836 ATTGGGTTAT
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
6 5 0.08
7 52 0.84
8 5 0.08
ACGTcount: A:0.19, C:0.01, G:0.48, T:0.31
Consensus pattern (7 bp):
TTAGGGG
Found at i:2125842 original size:13 final size:14
Alignment explanation
Indices: 2125784--2125843 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
2125774 TCATGGGTTA
2125784 AGGGTTTAGGG-TT
1 AGGGTTTAGGGATT
*
2125797 AAGGG-TTAGGGGTT
1 -AGGGTTTAGGGATT
*
2125811 AAGGG-TTAGGGGTT
1 -AGGGTTTAGGGATT
2125825 AGGGTTTAGGGATT
1 AGGGTTTAGGGATT
2125839 -GGGTT
1 AGGGTT
2125844 ATGATTTAAG
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
13 15 0.35
14 28 0.65
ACGTcount: A:0.18, C:0.00, G:0.48, T:0.33
Consensus pattern (14 bp):
AGGGTTTAGGGATT
Found at i:2125905 original size:31 final size:31
Alignment explanation
Indices: 2125870--2125932 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
2125860 ATTAATTAGT
2125870 GTTTTTTATTTTATATATTAAATAAAGTTTA
1 GTTTTTTATTTTATATATTAAATAAAGTTTA
2125901 GTTTTTTATTTTATATATTAAATAAAGTTTA
1 GTTTTTTATTTTATATATTAAATAAAGTTTA
2125932 G
1 G
2125933 GGGTTAGTGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (31 bp):
GTTTTTTATTTTATATATTAAATAAAGTTTA
Found at i:2126111 original size:14 final size:14
Alignment explanation
Indices: 2126092--2126118 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2126082 GATATGCAAT
2126092 ATATAATAATTTGA
1 ATATAATAATTTGA
2126106 ATATAATAATTTG
1 ATATAATAATTTG
2126119 GAATTGTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.44
Consensus pattern (14 bp):
ATATAATAATTTGA
Found at i:2126158 original size:20 final size:20
Alignment explanation
Indices: 2126120--2126160 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2126110 AATAATTTGG
**
2126120 AATTGTAAAAATTGTAAAAA
1 AATTGTAAAAATTACAAAAA
*
2126140 AATTGTCAAAATTACAAAAA
1 AATTGTAAAAATTACAAAAA
2126160 A
1 A
2126161 TAAAATGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (20 bp):
AATTGTAAAAATTACAAAAA
Found at i:2126226 original size:47 final size:47
Alignment explanation
Indices: 2126174--2126265 Score: 121
Period size: 47 Copynumber: 2.0 Consensus size: 47
2126164 AATGAAAATA
** *
2126174 AAAAAACTAAAATTTTTATTTTTACCTAATTTTTATAAATATTACTT
1 AAAAAACTAAAATTGATAATTTTACCTAATTTTTATAAATATTACTT
* * * *
2126221 AAAAAACTGAGATTGATAATTTTATCTAATTTTTTTAAATATTAC
1 AAAAAACTAAAATTGATAATTTTACCTAATTTTTATAAATATTAC
2126266 CGAAATTAAC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 38 1.00
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (47 bp):
AAAAAACTAAAATTGATAATTTTACCTAATTTTTATAAATATTACTT
Found at i:2127578 original size:10 final size:10
Alignment explanation
Indices: 2127563--2127587 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2127553 TCGAAAATTG
2127563 CAAAATTGTT
1 CAAAATTGTT
2127573 CAAAATTGTT
1 CAAAATTGTT
2127583 CAAAA
1 CAAAA
2127588 CCATGTCGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (10 bp):
CAAAATTGTT
Found at i:2128367 original size:18 final size:19
Alignment explanation
Indices: 2128344--2128387 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
2128334 CAGAAATTTC
*
2128344 TGTTTCTCTAGCA-TGTTA
1 TGTTTCTCTACCATTGTTA
* *
2128362 TGTTTCTGTACCATTTTTA
1 TGTTTCTCTACCATTGTTA
2128381 TGTTTCT
1 TGTTTCT
2128388 TTATTTTCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.14, C:0.16, G:0.14, T:0.57
Consensus pattern (19 bp):
TGTTTCTCTACCATTGTTA
Found at i:2128399 original size:15 final size:14
Alignment explanation
Indices: 2128376--2128464 Score: 88
Period size: 14 Copynumber: 6.3 Consensus size: 14
2128366 TCTGTACCAT
* *
2128376 TTTTATGTTTCTTTA
1 TTTTCTGTTT-TTTG
2128391 TTTTCTGTTTTTTG
1 TTTTCTGTTTTTTG
2128405 TTTTCTGTTTTTTG
1 TTTTCTGTTTTTTG
** *
2128419 TTTTCTGCATTCTG
1 TTTTCTGTTTTTTG
* *
2128433 TTTTCTGTTTTCTA
1 TTTTCTGTTTTTTG
* *
2128447 TTTTTTGTTTTCTG
1 TTTTCTGTTTTTTG
2128461 TTTT
1 TTTT
2128465 GCTATTTTCT
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
14 55 0.86
15 9 0.14
ACGTcount: A:0.04, C:0.10, G:0.11, T:0.74
Consensus pattern (14 bp):
TTTTCTGTTTTTTG
Found at i:2128406 original size:7 final size:7
Alignment explanation
Indices: 2128391--2128477 Score: 102
Period size: 7 Copynumber: 12.3 Consensus size: 7
2128381 TGTTTCTTTA
2128391 TTTTCTG
1 TTTTCTG
*
2128398 TTTTTTG
1 TTTTCTG
2128405 TTTTCTG
1 TTTTCTG
*
2128412 TTTTTTG
1 TTTTCTG
2128419 TTTTCTG
1 TTTTCTG
**
2128426 CATTCTG
1 TTTTCTG
2128433 TTTTCTG
1 TTTTCTG
*
2128440 TTTTCTA
1 TTTTCTG
*
2128447 TTTTTTG
1 TTTTCTG
2128454 TTTTCTG
1 TTTTCTG
*
2128461 TTTTGCTA
1 TTTT-CTG
2128469 TTTTCTG
1 TTTTCTG
2128476 TT
1 TT
2128478 GAATGAAGTG
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
7 59 0.91
8 6 0.09
ACGTcount: A:0.03, C:0.11, G:0.13, T:0.72
Consensus pattern (7 bp):
TTTTCTG
Found at i:2128442 original size:35 final size:35
Alignment explanation
Indices: 2128393--2128460 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
2128383 TTTCTTTATT
* *
2128393 TTCTGTTTTTTGTTTTCTGTTTTTTGTTTTCTGCA
1 TTCTGTTTTCTGTTTTCTATTTTTTGTTTTCTGCA
2128428 TTCTGTTTTCTGTTTTCTATTTTTTGTTTTCTG
1 TTCTGTTTTCTGTTTTCTATTTTTTGTTTTCTG
2128461 TTTTGCTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.03, C:0.12, G:0.13, T:0.72
Consensus pattern (35 bp):
TTCTGTTTTCTGTTTTCTATTTTTTGTTTTCTGCA
Found at i:2137647 original size:66 final size:65
Alignment explanation
Indices: 2137539--2137710 Score: 202
Period size: 66 Copynumber: 2.6 Consensus size: 65
2137529 TGAGCAAATT
* * * *
2137539 ACACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCC
1 ACACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCC
2137603 A
65 A
* * *
2137604 GCTACAACTGAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCC
1 AC-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCC
2137669 A
65 A
* * ** *
2137670 ACAGCAGCTTAAAGCAGATGCGGCAGTAAGAGAAGCAGAGG
1 ACA-CAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGG
2137711 CGGCAGCTAG
Statistics
Matches: 90, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
65 2 0.02
66 84 0.93
67 4 0.04
ACGTcount: A:0.41, C:0.19, G:0.27, T:0.13
Consensus pattern (65 bp):
ACACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCA
Found at i:2137705 original size:21 final size:21
Alignment explanation
Indices: 2137681--2137753 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
2137671 CAGCAGCTTA
*
2137681 AAGCAGATGCGGCAG-TAAGAG
1 AAGCAGAGGCGGCAGCT-AGAG
2137702 AAGCAGAGGCGGCAGCTAGAG
1 AAGCAGAGGCGGCAGCTAGAG
* * * * *
2137723 AAGTACAGGCTGCAGCGAGGG
1 AAGCAGAGGCGGCAGCTAGAG
2137744 AAGCAGAGGC
1 AAGCAGAGGC
2137754 TAAAGCGAGG
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
21 42 0.98
22 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.41, T:0.07
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCTAGAG
Found at i:2137754 original size:21 final size:21
Alignment explanation
Indices: 2137701--2137793 Score: 105
Period size: 21 Copynumber: 4.4 Consensus size: 21
2137691 GGCAGTAAGA
* * *
2137701 GAAGCAGAGGCGGCAGCTAGA
1 GAAGCAGAGGCTGCAGCGAGG
* *
2137722 GAAGTACAGGCTGCAGCGAGG
1 GAAGCAGAGGCTGCAGCGAGG
**
2137743 GAAGCAGAGGCTAAAGCGAGG
1 GAAGCAGAGGCTGCAGCGAGG
* *
2137764 GAAGCAAAGGCTGCAGTGAGG
1 GAAGCAGAGGCTGCAGCGAGG
2137785 GAAGCAGAG
1 GAAGCAGAG
2137794 CAGCGTCAAA
Statistics
Matches: 58, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 58 1.00
ACGTcount: A:0.34, C:0.16, G:0.43, T:0.06
Consensus pattern (21 bp):
GAAGCAGAGGCTGCAGCGAGG
Found at i:2138319 original size:87 final size:86
Alignment explanation
Indices: 2138148--2138409 Score: 366
Period size: 86 Copynumber: 3.0 Consensus size: 86
2138138 TTTAGTGGCT
** * * **
2138148 TTTTTGGTCAAAGCGCCGCTAAAGATAAGAG-TCTTTAGCGGCGTTTGTGGAAAAAGCGCCACTA
1 TTTTTGGGGAAAGCGCCGCTAAAGATTAG-GTTCTTTAGTGGCGTTTGTGGTCAAAGCGCCACTA
* *
2138212 AAGATCATGGTCT-TTAGCGGCG
65 TAGATCAGGGTCTATT-GCGGCG
* *
2138234 TTTTTGGGGAAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTTGTGGTCGAAGCGCCGCTA
1 TTTTTGGGGAAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCG-TTTGTGGTCAAAGCGCCACTA
2138299 TAGATCAGGGTCTATTGCGGCG
65 TAGATCAGGGTCTATTGCGGCG
* *
2138321 TTTTAGGGGAAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTAGTCAAAGCGCCACTAT
1 TTTTTGGGGAAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCAAAGCGCCACTAT
*
2138386 AGATCAGGGTCTATTCCGGCG
66 AGATCAGGGTCTATTGCGGCG
2138407 TTT
1 TTT
2138410 GAGAAAAAAA
Statistics
Matches: 158, Mismatches: 15, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
85 1 0.01
86 79 0.50
87 76 0.48
88 2 0.01
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.30
Consensus pattern (86 bp):
TTTTTGGGGAAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCAAAGCGCCACTAT
AGATCAGGGTCTATTGCGGCG
Found at i:2138407 original size:43 final size:43
Alignment explanation
Indices: 2138137--2138489 Score: 264
Period size: 43 Copynumber: 8.2 Consensus size: 43
2138127 AGGTGTTGGC
* * * * *
2138137 CTTTAGTGGCTTTTTTGGTCAAAGCGCCGCTAAAGATAAGAGT
1 CTTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
** * *
2138180 CTTTAGCGGCGTTTGTGGAAAAAGCGCCACTAAAGATCATGGT
1 CTTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
* ** * *
2138223 CTTTAGCGGCGTTTTTGGGGAAAGCGCCGCTAAAGATTAGGTT
1 CTTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
* * *
2138266 CTTTAGTGGCGTTTTGTGGTCGAAGCGCCGCTATAGATCAGGGT
1 CTTTAGCGGCG-TTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
** * *
2138310 CTATT-GCGGCGTTT-TAGGGGAAAGCGCCGCTAAAGATTAGGTT
1 CT-TTAGCGGCGTTTGT-GGTCAAAGCGCCGCTAAAGATCAGGGT
* * * *
2138353 CTTTAGTGGCGTTTGTAGTCAAAGCGCCACTATAGATCAGGGT
1 CTTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
* * *** * * * ** *
2138396 CTATT-CCGGCGTTTGAGAAAAAAACGCCTCTAAAGACCCTGAT
1 CT-TTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
* * * * *
2138439 CTATAGCGGCGCTTCTAG-CACAAACGCCGCTAAAGATCAGGGT
1 CTTTAGCGGCGTTTGTGGTCA-AAGCGCCGCTAAAGATCAGGGT
2138482 CTTTAGCG
1 CTTTAGCG
2138490 ACGCTTCCAC
Statistics
Matches: 235, Mismatches: 67, Indels: 16
0.74 0.21 0.05
Matches are distributed among these distances:
42 5 0.02
43 193 0.82
44 35 0.15
45 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
Found at i:2138407 original size:130 final size:130
Alignment explanation
Indices: 2138147--2138409 Score: 282
Period size: 130 Copynumber: 2.0 Consensus size: 130
2138137 CTTTAGTGGC
*
2138147 TTTTTTGGTCAAAGCGCCGCTAAAGATAAGAGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCACTA
1 TTTTGTGGTCAAAGCGCCGCTAAAGATAAGAGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCACTA
* * * * * * **
2138212 AAGATCATGGTCTTTAGCGGCGTTTTTGGGGAAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCG
66 AAGATCATGGTCTTTAGCGGCGTTTGTAGGCAAAGCGCCACTAAAGATCAGGGTCTTTACCGGCG
* * * * ** *
2138277 TTTTGTGGTCGAAGCGCCGCTATAGATCAGGGTCTATT-GCGGCGTTT-TAGGGGAAAGCGCCGC
1 TTTTGTGGTCAAAGCGCCGCTAAAGATAAGAGTCT-TTAGCGGCGTTTGT-GGAAAAAGCGCCAC
* * * *
2138340 TAAAGATTA-GGTTCTTTAGTGGCGTTTGTAGTCAAAGCGCCACTATAGATCAGGGTCTATT-CC
64 TAAAGATCATGG-TCTTTAGCGGCGTTTGTAGGCAAAGCGCCACTAAAGATCAGGGTCT-TTACC
2138403 GGCG
127 GGCG
2138407 TTT
1 TTT
2138410 GAGAAAAAAA
Statistics
Matches: 109, Mismatches: 20, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
129 3 0.03
130 102 0.94
131 4 0.04
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (130 bp):
TTTTGTGGTCAAAGCGCCGCTAAAGATAAGAGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCACTA
AAGATCATGGTCTTTAGCGGCGTTTGTAGGCAAAGCGCCACTAAAGATCAGGGTCTTTACCGGCG
Found at i:2138431 original size:86 final size:86
Alignment explanation
Indices: 2138157--2138409 Score: 366
Period size: 87 Copynumber: 2.9 Consensus size: 86
2138147 TTTTTTGGTC
* * ** * *
2138157 AAAGCGCCGCTAAAGATAAGAG-TCTTTAGCGGCGTTTGTGGAAAAAGCGCCACTAAAGATCATG
1 AAAGCGCCGCTAAAGATTAG-GTTCTTTAGTGGCGTTTGTGGTCAAAGCGCCACTATAGATCAGG
*
2138221 GTCT-TTAGCGGCGTTTTTGGGG
65 GTCTATT-GCGGCGTTTTAGGGG
* *
2138243 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTTGTGGTCGAAGCGCCGCTATAGATCAGG
1 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCG-TTTGTGGTCAAAGCGCCACTATAGATCAGG
2138308 GTCTATTGCGGCGTTTTAGGGG
65 GTCTATTGCGGCGTTTTAGGGG
*
2138330 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTAGTCAAAGCGCCACTATAGATCAGGG
1 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCAAAGCGCCACTATAGATCAGGG
*
2138395 TCTATTCCGGCGTTT
66 TCTATTGCGGCGTTT
2138410 GAGAAAAAAA
Statistics
Matches: 151, Mismatches: 13, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
85 1 0.01
86 72 0.48
87 76 0.50
88 2 0.01
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.28
Consensus pattern (86 bp):
AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCAAAGCGCCACTATAGATCAGGG
TCTATTGCGGCGTTTTAGGGG
Found at i:2138702 original size:22 final size:22
Alignment explanation
Indices: 2138674--2138716 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2138664 CTGCGGCGCT
*
2138674 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
2138696 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
2138717 GTTATGGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.28, G:0.21, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:2141591 original size:114 final size:114
Alignment explanation
Indices: 2141392--2141684 Score: 507
Period size: 114 Copynumber: 2.6 Consensus size: 114
2141382 CGCAACCGAT
*
2141392 TGAGTATTAGCGGCGTTTCTATAAAAACGCCGCAAAAACT-AAACCCAGACGACGTCGTTTGGAG
1 TGAGTATTAGCGGCGTTTCTATAAAAATGCCGCAAAAACTAAAACCCAGACGACGTCGTTTGGAG
2141456 AAACTTCGGTGACATTAGTGGCGTTTTTAAAATAGCGCCGCTAATAATA
66 AAACTTCGGTGACATTAGTGGCGTTTTTAAAATAGCGCCGCTAATAATA
*
2141505 TGAGTATTAGCGGCGTTTCTGTAAAAATGCCGCAAAAACTAAAACCCAGACGACGTCGTTTGGAG
1 TGAGTATTAGCGGCGTTTCTATAAAAATGCCGCAAAAACTAAAACCCAGACGACGTCGTTTGGAG
* ** *
2141570 ACACTTCGGTGACATTAGTGGCGTTTTTTGAATAGTGCCGCTAATAATA
66 AAACTTCGGTGACATTAGTGGCGTTTTTAAAATAGCGCCGCTAATAATA
* *
2141619 TGAGTATTAGCGGCGTTTTTATAAAAATGCCGCAAAAACTAAACCCCAGACGACGTCGTTTGGAG
1 TGAGTATTAGCGGCGTTTCTATAAAAATGCCGCAAAAACTAAAACCCAGACGACGTCGTTTGGAG
2141684 A
66 A
2141685 NNNNNNNNNN
Statistics
Matches: 170, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
113 38 0.22
114 132 0.78
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (114 bp):
TGAGTATTAGCGGCGTTTCTATAAAAATGCCGCAAAAACTAAAACCCAGACGACGTCGTTTGGAG
AAACTTCGGTGACATTAGTGGCGTTTTTAAAATAGCGCCGCTAATAATA
Found at i:2142033 original size:114 final size:114
Alignment explanation
Indices: 2141832--2142093 Score: 391
Period size: 114 Copynumber: 2.3 Consensus size: 114
2141822 NNNNNNNNNN
* *
2141832 GCGCCGCTAATAATATGAGTATTAGAGGCGTTTTGTATAAAAACACCGCAAAAACTAAAACCCAG
1 GCGCCGCTAATAATATGAGTATTAGCGGCG-TTTCTATAAAAACACCGCAAAAACTAAAACCCAG
*
2141897 ACGACGTCGTCTGGAGACACTTCGGTGACATTAGTGGCGTTTTTTGAATA
65 ACGACGTCGTCTGGAGACACTTCGGTGACATTAGTGGCGTTTTTAGAATA
* ** *
2141947 GCGCCGCTAATAATGTGAGTATTAGCGGCGTTTCTATAAAAATGCCGCAAAAACTAAACCCCAGA
1 GCGCCGCTAATAATATGAGTATTAGCGGCGTTTCTATAAAAACACCGCAAAAACTAAAACCCAGA
* * *
2142012 CGACGTCGTTTGGAGACACTTCGGTGACTTTAGTGGCGTTTTTAGATTA
66 CGACGTCGTCTGGAGACACTTCGGTGACATTAGTGGCGTTTTTAGAATA
* *
2142061 GCGCCGCGAATAATAT-AGGTTTTAGCGGCGTTT
1 GCGCCGCTAATAATATGA-GTATTAGCGGCGTTT
2142094 TTGTTAAAGC
Statistics
Matches: 133, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
113 1 0.01
114 104 0.78
115 28 0.21
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (114 bp):
GCGCCGCTAATAATATGAGTATTAGCGGCGTTTCTATAAAAACACCGCAAAAACTAAAACCCAGA
CGACGTCGTCTGGAGACACTTCGGTGACATTAGTGGCGTTTTTAGAATA
Found at i:2142105 original size:41 final size:41
Alignment explanation
Indices: 2142060--2142149 Score: 101
Period size: 41 Copynumber: 2.2 Consensus size: 41
2142050 TTTTTAGATT
* *
2142060 AGCGCCGCGAATAATATAGGTTTTAGCGGCGTTTTTG-TTAA
1 AGCGCCGCAAATAATATAGGTTTTAGCGGCGTTTCTGCTT-A
** * * *
2142101 AGCGCCGCAAATGTTCTGGGTTTTCGCGGCGTTTCTGCTTA
1 AGCGCCGCAAATAATATAGGTTTTAGCGGCGTTTCTGCTTA
2142142 AGCGCCGC
1 AGCGCCGC
2142150 TAAAAACTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 39 0.95
42 2 0.05
ACGTcount: A:0.18, C:0.22, G:0.29, T:0.31
Consensus pattern (41 bp):
AGCGCCGCAAATAATATAGGTTTTAGCGGCGTTTCTGCTTA
Found at i:2143866 original size:83 final size:82
Alignment explanation
Indices: 2143651--2143927 Score: 315
Period size: 83 Copynumber: 3.3 Consensus size: 82
2143641 AATTTTATCA
* * * ** *
2143651 TTTTTGTAAACAAAACGGTGTCATTTTGCCTGGCATATTAACGGCATTAGTGGCATTACGCCG-A
1 TTTTT-TAAACAAAACGGTGTCGTTTTACCTGGCACATTAACGGCATTAGTGGCGCTATG--GTA
* *
2143715 AAACGCCGCAAATTGTCGGGG
63 AAACGCCGCAAGTTTTC-GGG
* ** * * *
2143736 TTTTTTTAATGAAACGGTGTCGTTTTAACTAGCACATTAAGGGCATTAGTGGCGCTATGGTAAAA
1 TTTTTTAAACAAAACGGTGTCGTTTTACCTGGCACATTAACGGCATTAGTGGCGCTATGGTAAAA
2143801 GCGCCGCAAGTTTTCGGG
66 -CGCCGCAAGTTTTCGGG
* * *
2143819 TTTTTTAAACCAAACGGTGTCGTTTTCCCTGGCACATTAACGACATTAGTGGCGCTATGGTGAAA
1 TTTTTTAAACAAAACGGTGTCGTTTTACCTGGCACATTAACGGCATTAGTGGCGCTATGGT-AAA
*
2143884 ACGCCGCAAAG-TTTCCGG
65 ACGCCGC-AAGTTTTCGGG
2143902 TTTTTTAAACAAAACGGTGTCGTTTT
1 TTTTTTAAACAAAACGGTGTCGTTTT
2143928 GCCTTTACGG
Statistics
Matches: 164, Mismatches: 24, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
82 1 0.01
83 97 0.59
84 61 0.37
85 5 0.03
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (82 bp):
TTTTTTAAACAAAACGGTGTCGTTTTACCTGGCACATTAACGGCATTAGTGGCGCTATGGTAAAA
CGCCGCAAGTTTTCGGG
Found at i:2145464 original size:14 final size:14
Alignment explanation
Indices: 2145445--2145471 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2145435 CACGATTTCT
2145445 TACATGTCTGTTCC
1 TACATGTCTGTTCC
2145459 TACATGTCTGTTC
1 TACATGTCTGTTC
2145472 TGCTTTGTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.26, G:0.15, T:0.44
Consensus pattern (14 bp):
TACATGTCTGTTCC
Found at i:2146420 original size:9 final size:9
Alignment explanation
Indices: 2146406--2146813 Score: 72
Period size: 9 Copynumber: 41.8 Consensus size: 9
2146396 TTAATTAATA
2146406 TACATAAAT
1 TACATAAAT
*
2146415 TACATAAGT
1 TACATAAAT
2146424 TACATTAATATT
1 TACA-TAA-A-T
2146436 ATACATAAAT
1 -TACATAAAT
*
2146446 TACATAACT
1 TACATAAAT
*
2146455 TA-ATTAAT
1 TACATAAAT
*
2146463 TA-AT-ATT
1 TACATAAAT
*
2146470 ATACATAACT
1 -TACATAAAT
*
2146480 TGCATTAATATT
1 TACA-TAA-A-T
2146492 ATACATAAAT
1 -TACATAAAT
*
2146502 TACATAACT
1 TACATAAAT
*
2146511 TA-ATTAAT
1 TACATAAAT
*
2146519 TA-AT-ATT
1 TACATAAAT
*
2146526 ATACATAACT
1 -TACATAAAT
*
2146536 TACATTAGTATT
1 TACA-TA--AAT
2146548 ATACATAAAT
1 -TACATAAAT
*
2146558 TACATAACT
1 TACATAAAT
2146567 TA-ATTAATTAT
1 TACA-TAA--AT
2146578 TACACATAAAT
1 T--ACATAAAT
***
2146589 TACATTGCT
1 TACATAAAT
2146598 TACAGTAATATT
1 TACA-TAA-A-T
2146610 ATACATAAAT
1 -TACATAAAT
*
2146620 TACATAACT
1 TACATAAAT
*
2146629 TA-ATTAAT
1 TACATAAAT
*
2146637 TA-AT-ATT
1 TACATAAAT
*
2146644 ATACATAACT
1 -TACATAAAT
*
2146654 TACATAACT
1 TACATAAAT
2146663 TACAACTTACAACT
1 TAC-A--TA-AA-T
*
2146677 TACATAACT
1 TACATAAAT
2146686 TACATTTTTATAAT
1 TACA----TA-AAT
2146700 TATTCATAAAT
1 TA--CATAAAT
*
2146711 TACATAACT
1 TACATAAAT
2146720 TACATTAATATT
1 TACA-TAA-A-T
2146732 ATACATAAAT
1 -TACATAAAT
*
2146742 TACATAACT
1 TACATAAAT
*
2146751 TA-ATTAAT
1 TACATAAAT
2146759 TA-AT--A-
1 TACATAAAT
2146764 TACATAAAT
1 TACATAAAT
2146773 TACATAACTAAT
1 TACAT-A--AAT
2146785 TACATTAATATT
1 TACA-TAA-A-T
2146797 ATACATAAAT
1 -TACATAAAT
2146807 TACATAA
1 TACATAA
2146814 CTTTGTTAAT
Statistics
Matches: 303, Mismatches: 38, Indels: 116
0.66 0.08 0.25
Matches are distributed among these distances:
5 2 0.01
6 3 0.01
7 6 0.02
8 40 0.13
9 126 0.42
10 29 0.10
11 18 0.06
12 36 0.12
13 32 0.11
14 9 0.03
16 2 0.01
ACGTcount: A:0.47, C:0.12, G:0.01, T:0.39
Consensus pattern (9 bp):
TACATAAAT
Found at i:2146486 original size:56 final size:56
Alignment explanation
Indices: 2146415--2146901 Score: 555
Period size: 56 Copynumber: 8.2 Consensus size: 56
2146405 ATACATAAAT
*
2146415 TACATAAGTTACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTA
1 TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTA
*
2146471 TACATAACTTGCATTAATATTATACATAAATTACATAACTTAATTAATTAATATTA
1 TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTA
* * *
2146527 TACATAACTTACATTAGTATTATACATAAATTACATAACTTAATTAATTATTACACATAAA
1 TACATAACTTACATTAATATTATACATAAATTACATAACTTAATT-A--ATTA-ATAT-TA
** *
2146588 TTACATTGCTTACAGTAATATTATACATAAATTACATAACTTAATTAATTAATATTA
1 -TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTA
* * * *
2146645 TACATAACTTACA-TAA-CTTACAACTTACAACTTACATAACTTACATTTTTATAATTATTCATA
1 TACATAACTTACATTAATATTA-TACATA-AA-TTACATAACTTA-A----T-TAATTAAT-AT-
*
2146708 AA
55 TA
2146710 TTACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAATTAATATACATAAA
1 -TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAATTAATAT---T--A
**
2146772 TTACATAACTAATTACATTAATATTATACATAAATTACATAACTTTGTTAATTAATATTA
1 -TACATAAC---TTACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTA
* * *
2146832 TACATAACTTACATTAATATTATACTTAAATTACATAAGTTAGTTAATTAATATTA
1 TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTA
2146888 TACATAACTTACAT
1 TACATAACTTACAT
2146902 AACTTACAAC
Statistics
Matches: 375, Mismatches: 29, Indels: 54
0.82 0.06 0.12
Matches are distributed among these distances:
54 3 0.01
55 7 0.02
56 169 0.45
57 14 0.04
58 6 0.02
59 23 0.06
60 6 0.02
61 2 0.01
62 53 0.14
63 7 0.02
64 3 0.01
65 57 0.15
66 15 0.04
67 7 0.02
68 3 0.01
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.40
Consensus pattern (56 bp):
TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTA
Found at i:2146547 original size:22 final size:22
Alignment explanation
Indices: 2146512--2146562 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
2146502 TACATAACTT
2146512 AATTA-ATTAATATTATACATA
1 AATTACATTAATATTATACATA
* *
2146533 ACTTACATTAGTATTATACATA
1 AATTACATTAATATTATACATA
2146555 AATTACAT
1 AATTACAT
2146563 AACTTAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.47, C:0.10, G:0.02, T:0.41
Consensus pattern (22 bp):
AATTACATTAATATTATACATA
Found at i:2146641 original size:34 final size:34
Alignment explanation
Indices: 2146539--2146845 Score: 270
Period size: 31 Copynumber: 9.7 Consensus size: 34
2146529 CATAACTTAC
*
2146539 ATTAGTATTATACATAAATTACATAACTTAATTA
1 ATTAATATTATACATAAATTACATAACTTAATTA
* ** *
2146573 A-T--TATTACACATAAATTACATTGCTT-A--C
1 ATTAATATTATACATAAATTACATAACTTAATTA
*
2146601 AGTAATATTATACATAAATTACATAACTTAATTA
1 ATTAATATTATACATAAATTACATAACTTAATTA
*
2146635 ATTAATATTATACATAACTTACATAACTTACA--A
1 ATTAATATTATACATAAATTACATAACTTA-ATTA
* * *
2146668 CTTACA-ACT-TACATAACTTACAT---TT--TT-
1 ATTA-ATATTATACATAAATTACATAACTTAATTA
* *
2146695 A-T-A-ATTATTCATAAATTACATAACTT-A--C
1 ATTAATATTATACATAAATTACATAACTTAATTA
2146723 ATTAATATTATACATAAATTACATAACTTAATTA
1 ATTAATATTATACATAAATTACATAACTTAATTA
2146757 ATT-A-A-TATACATAAATTACATAAC-TAATTA
1 ATTAATATTATACATAAATTACATAACTTAATTA
**
2146787 CATTAATATTATACATAAATTACATAACTTTGTTA
1 -ATTAATATTATACATAAATTACATAACTTAATTA
*
2146822 ATTAATATTATACATAACTTACAT
1 ATTAATATTATACATAAATTACAT
2146846 TAATATTATA
Statistics
Matches: 225, Mismatches: 21, Indels: 54
0.75 0.07 0.18
Matches are distributed among these distances:
24 3 0.01
25 12 0.05
26 1 0.00
28 4 0.02
29 4 0.02
30 8 0.04
31 86 0.38
32 18 0.08
33 9 0.04
34 75 0.33
35 5 0.02
ACGTcount: A:0.46, C:0.13, G:0.01, T:0.40
Consensus pattern (34 bp):
ATTAATATTATACATAAATTACATAACTTAATTA
Found at i:2146671 original size:16 final size:16
Alignment explanation
Indices: 2146645--2146689 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
2146635 ATTAATATTA
2146645 TACATAACTTACATAACT
1 TACATAACTTAC--AACT
2146663 TAC--AACTTACAACT
1 TACATAACTTACAACT
2146677 TACATAACTTACA
1 TACATAACTTACA
2146690 TTTTTATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 7 0.28
16 15 0.60
18 3 0.12
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.31
Consensus pattern (16 bp):
TACATAACTTACAACT
Found at i:2146744 original size:153 final size:151
Alignment explanation
Indices: 2146404--2146907 Score: 556
Period size: 153 Copynumber: 3.4 Consensus size: 151
2146394 AATTAATTAA
* * *
2146404 TATACATAAATTACATAAGTTACATTAA-TATTATACATAAATTACATAACTTAATTAATTAATA
1 TATACATAAATTACATAACTTA-ATTAATTATTACACATAAATTACATAACTTAAGTAATTAATA
*
2146468 T---T--A-TACATAAC---TTGCATTAATATTATACATAAATTACATAACTTAATTAATTAATA
65 TACATAAATTACATAACTAATTACATTAATATTATACATAAATTACATAACTTAA-TAATTAATA
*
2146524 TTATACATAACTTACATTAGTAT
129 CTATACATAACTTACATTAGTAT
** *
2146547 TATACATAAATTACATAACTTAATTAATTATTACACATAAATTACATTGCTTACAGTAA-TATTA
1 TATACATAAATTACATAACTTAATTAATTATTACACATAAATTACATAACTTA-AGTAATTAATA
* *
2146611 TACATAAATTACATAACTTAATTA-ATTAATATTATACATAACTTACATAACTTACA-ACTTACA
65 TACATAAATTACATAAC-TAATTACATTAATATTATACATAAATTACATAACTTA-ATAATTA-A
2146674 -ACT-TACATAACTTACATTTTTA-TAAT
127 TACTATACATAACTTACA---TTAGT-AT
* * *
2146700 TATTCATAAATTACATAACTTACATTAA-TATTATACATAAATTACATAACTTAATTAATTAATA
1 TATACATAAATTACATAACTTA-ATTAATTATTACACATAAATTACATAACTTAAGTAATTAATA
**
2146764 TACATAAATTACATAACTAATTACATTAATATTATACATAAATTACATAACTTTGTTAATTAATA
65 TACATAAATTACATAACTAATTACATTAATATTATACATAAATTACATAAC-TTAATAATTAATA
* *
2146829 TTATACATAACTTACATTAATAT
129 CTATACATAACTTACATTAGTAT
* * * * *
2146852 TATACTTAAATTACATAAGTTAGTTAATTAATATTATACATAACTTACATAACTTA
1 TATACATAAATTACATAACTTAATTAA-T--TATTACACATAAATTACATAACTTA
2146908 CAACTTACAT
Statistics
Matches: 305, Mismatches: 26, Indels: 48
0.80 0.07 0.13
Matches are distributed among these distances:
142 5 0.02
143 48 0.16
144 4 0.01
146 1 0.00
148 1 0.00
149 8 0.03
150 13 0.04
151 10 0.03
152 65 0.21
153 100 0.33
154 13 0.04
155 37 0.12
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.40
Consensus pattern (151 bp):
TATACATAAATTACATAACTTAATTAATTATTACACATAAATTACATAACTTAAGTAATTAATAT
ACATAAATTACATAACTAATTACATTAATATTATACATAAATTACATAACTTAATAATTAATACT
ATACATAACTTACATTAGTAT
Found at i:2146810 original size:22 final size:22
Alignment explanation
Indices: 2146711--2146811 Score: 72
Period size: 22 Copynumber: 4.6 Consensus size: 22
2146701 ATTCATAAAT
*
2146711 TACATAACTTACATTAATATTA
1 TACATAAATTACATTAATATTA
*
2146733 TACATAAATTACA-TAACT-TAA
1 TACATAAATTACATTAA-TATTA
*
2146754 TTA-ATTAATATACA-TAA-A-T-
1 -TACATAAAT-TACATTAATATTA
2146773 TACATAACTAATTACATTAATATTA
1 TACAT-A--AATTACATTAATATTA
2146798 TACATAAATTACAT
1 TACATAAATTACAT
2146812 AACTTTGTTA
Statistics
Matches: 62, Mismatches: 5, Indels: 24
0.68 0.05 0.26
Matches are distributed among these distances:
18 2 0.03
19 2 0.03
21 14 0.23
22 36 0.58
23 1 0.02
24 2 0.03
25 5 0.08
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.39
Consensus pattern (22 bp):
TACATAAATTACATTAATATTA
Found at i:2146850 original size:22 final size:22
Alignment explanation
Indices: 2146822--2146867 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
2146812 AACTTTGTTA
*
2146822 ATTAATATTATACATAACTTAC
1 ATTAATATTATACATAAATTAC
*
2146844 ATTAATATTATACTTAAATTAC
1 ATTAATATTATACATAAATTAC
2146866 AT
1 AT
2146868 AAGTTAGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (22 bp):
ATTAATATTATACATAAATTAC
Found at i:2146902 original size:9 final size:9
Alignment explanation
Indices: 2146888--2147028 Score: 111
Period size: 9 Copynumber: 16.7 Consensus size: 9
2146878 ATTAATATTA
2146888 TACATAACT
1 TACATAACT
2146897 TACATAACT
1 TACATAACT
2146906 TAC--AACT
1 TACATAACT
2146913 TACATAACT
1 TACATAACT
***
2146922 TACATTTTT
1 TACATAACT
*
2146931 TA-ATTA-T
1 TACATAACT
* *
2146938 T-CGTAAAT
1 TACATAACT
2146946 TACATAACT
1 TACATAACT
* *
2146955 TACTTAATT
1 TACATAACT
*
2146964 TTCATAA--
1 TACATAACT
*
2146971 TAAATAACT
1 TACATAACT
2146980 TACATAACT
1 TACATAACT
2146989 TAC--AACT
1 TACATAACT
2146996 TACATAACT
1 TACATAACT
* *
2147005 TATATGACT
1 TACATAACT
2147014 TACATAACT
1 TACATAACT
2147023 TACATA
1 TACATA
2147029 GCATAATTTT
Statistics
Matches: 104, Mismatches: 19, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
7 23 0.22
8 5 0.05
9 76 0.73
ACGTcount: A:0.42, C:0.18, G:0.01, T:0.39
Consensus pattern (9 bp):
TACATAACT
Found at i:2146916 original size:25 final size:25
Alignment explanation
Indices: 2146888--2147028 Score: 80
Period size: 25 Copynumber: 5.6 Consensus size: 25
2146878 ATTAATATTA
2146888 TACATAACTTACATAACTTACAACT
1 TACATAACTTACATAACTTACAACT
* **
2146913 TACATAACTTACAT--TTTTTAA-T
1 TACATAACTTACATAACTTACAACT
* * *
2146935 TATTCGTAAATTACATAACTTACTTAATT
1 TA--CATAACTTACATAACTTAC--AACT
* *
2146964 TTCATAA--TAAATAACTTACATAACT
1 TACATAACTTACATAACTTAC--AACT
*
2146989 TAC--AACTTACATAACTTATATGACT
1 TACATAACTTACATAACTTACA--ACT
2147014 TACATAACTTACATA
1 TACATAACTTACATA
2147029 GCATAATTTT
Statistics
Matches: 87, Mismatches: 16, Indels: 24
0.69 0.13 0.19
Matches are distributed among these distances:
22 3 0.03
23 7 0.08
24 10 0.11
25 47 0.54
26 2 0.02
27 14 0.16
28 2 0.02
29 2 0.02
ACGTcount: A:0.42, C:0.18, G:0.01, T:0.39
Consensus pattern (25 bp):
TACATAACTTACATAACTTACAACT
Found at i:2146926 original size:34 final size:33
Alignment explanation
Indices: 2146888--2147028 Score: 92
Period size: 34 Copynumber: 4.2 Consensus size: 33
2146878 ATTAATATTA
2146888 TACATAACTTACATAACTTACAACTTACATAACT
1 TACATAACTTACATAA-TTACAACTTACATAACT
*** * *
2146922 TACATTTTTTA-ATTATT-CGTAAATTACATAACT
1 TACATAACTTACATAATTAC--AACTTACATAACT
* * * * *
2146955 TACTTAATTTTCATAATAAATAACTTACATAACT
1 TACATAACTTACATAAT-TACAACTTACATAACT
*
2146989 TAC--AACTTACATAACTTATATGACTTACATAACT
1 TACATAACTTACATAA-TTACA--ACTTACATAACT
2147023 TACATA
1 TACATA
2147029 GCATAATTTT
Statistics
Matches: 81, Mismatches: 16, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
31 1 0.01
32 14 0.17
33 23 0.28
34 42 0.52
36 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.01, T:0.39
Consensus pattern (33 bp):
TACATAACTTACATAATTACAACTTACATAACT
Found at i:2146978 original size:83 final size:81
Alignment explanation
Indices: 2146832--2147006 Score: 235
Period size: 83 Copynumber: 2.1 Consensus size: 81
2146822 ATTAATATTA
* * * * *
2146832 TACATAACTTACATTAATATTATACTTAAATTACATAAGTTAGTTAATTAATATTATACATAACT
1 TACATAACTTACATTAATATTATACGTAAATTACATAACTTACTTAATTAATATAATAAATAACT
2146897 TACATAACTTACAACT
66 TACATAACTTACAACT
** * *
2146913 TACATAACTTACATTTTTTAATTATTCGTAAATTACATAACTTACTTAATT-TTCATAATAAATA
1 TACATAACTTACA-TTAAT-ATTATACGTAAATTACATAACTTACTTAATTAAT-ATAATAAATA
2146977 ACTTACATAACTTACAACT
63 ACTTACATAACTTACAACT
2146996 TACATAACTTA
1 TACATAACTTA
2147007 TATGACTTAC
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
81 13 0.16
82 4 0.05
83 65 0.79
ACGTcount: A:0.43, C:0.15, G:0.02, T:0.41
Consensus pattern (81 bp):
TACATAACTTACATTAATATTATACGTAAATTACATAACTTACTTAATTAATATAATAAATAACT
TACATAACTTACAACT
Found at i:2147016 original size:18 final size:16
Alignment explanation
Indices: 2146893--2147026 Score: 78
Period size: 16 Copynumber: 8.1 Consensus size: 16
2146883 TATTATACAT
2146893 AACTTACATAACTTAC
1 AACTTACATAACTTAC
2146909 AACTTACATAACTTAC
1 AACTTACATAACTTAC
***
2146925 -A-TTTTTTAA-TTATTC
1 AACTTACATAACTTA--C
*
2146940 GTAAATTACATAACTTAC
1 --AACTTACATAACTTAC
* * * *
2146958 TTAATTTTCATAA-TAAAT
1 --AACTTACATAACT-TAC
2146976 AACTTACATAACTTAC
1 AACTTACATAACTTAC
*
2146992 AACTTACATAACTTAT
1 AACTTACATAACTTAC
2147008 ATGACTTACATAACTTAC
1 A--ACTTACATAACTTAC
2147026 A
1 A
2147027 TAGCATAATT
Statistics
Matches: 90, Mismatches: 17, Indels: 20
0.71 0.13 0.16
Matches are distributed among these distances:
13 3 0.03
14 5 0.06
15 2 0.02
16 42 0.47
17 2 0.02
18 28 0.31
19 5 0.06
20 3 0.03
ACGTcount: A:0.42, C:0.18, G:0.01, T:0.39
Consensus pattern (16 bp):
AACTTACATAACTTAC
Found at i:2147091 original size:16 final size:16
Alignment explanation
Indices: 2147066--2147099 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2147056 ATTATTTGGG
*
2147066 TAATAAATAACTTACA
1 TAATAAATAACTAACA
*
2147082 TAATACATAACTAACA
1 TAATAAATAACTAACA
2147098 TA
1 TA
2147100 GCTTAACTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (16 bp):
TAATAAATAACTAACA
Found at i:2150425 original size:66 final size:65
Alignment explanation
Indices: 2150319--2150488 Score: 198
Period size: 66 Copynumber: 2.6 Consensus size: 65
2150309 AGCAAATTAC
* * * *
2150319 ACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAG
1 ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAATAAAAG-TATGAAGAACTCCAG
2150383 CT
65 -T
* *
2150385 ACAACTGAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAATGAAAGTATGAAGAACTCCAGT
1 ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAATAAAAGTATGAAGAACTCCAGT
* * * * * *
2150450 AGTAGCTTAGAGCAGATGCGGCAGCAAGAGAAGCAGAGG
1 A-CAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGG
2150489 CGGCAACGAG
Statistics
Matches: 89, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
65 2 0.02
66 83 0.93
67 4 0.04
ACGTcount: A:0.40, C:0.17, G:0.29, T:0.14
Consensus pattern (65 bp):
ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAATAAAAGTATGAAGAACTCCAGT
Found at i:2150531 original size:21 final size:21
Alignment explanation
Indices: 2150460--2150570 Score: 105
Period size: 21 Copynumber: 5.3 Consensus size: 21
2150450 AGTAGCTTAG
* * * *
2150460 AGCAGATGCGGCAGCAAGAGA
1 AGCAGAGGCTGCAGCGAGGGA
* * *
2150481 AGCAGAGGCGGCAACGAGAGA
1 AGCAGAGGCTGCAGCGAGGGA
* *
2150502 AGTACAGGCTGCAGCGAGGGA
1 AGCAGAGGCTGCAGCGAGGGA
* **
2150523 ACCAGAGGCTATAGCGAGGGA
1 AGCAGAGGCTGCAGCGAGGGA
*
2150544 AGTAGAGGCTGCAGCGAGGGA
1 AGCAGAGGCTGCAGCGAGGGA
2150565 AGCAGA
1 AGCAGA
2150571 CAGCGTCAAA
Statistics
Matches: 72, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 72 1.00
ACGTcount: A:0.34, C:0.18, G:0.41, T:0.06
Consensus pattern (21 bp):
AGCAGAGGCTGCAGCGAGGGA
Found at i:2150967 original size:43 final size:43
Alignment explanation
Indices: 2150920--2151192 Score: 262
Period size: 43 Copynumber: 6.3 Consensus size: 43
2150910 AGGTGTTAGC
* * * *
2150920 CTTTAGTGACGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGT
1 CTTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
* ** * *
2150963 CTTTAGCGGCATTTGTGGAAAAAGCGCCACTAAAGATCATGGT
1 CTTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
* ** * * *
2151006 CTTTAGCGGTGTTTGTGGGGAAAGTGCCGCTAAAGATTAGGTT
1 CTTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
* * * *
2151049 CTTTAGTGGCATTTGTGGTCGAAGCGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
* ** * *
2151092 CTATT-GCGGCGTTTGAGGGGAAAGCGCCGCTAAAGATTAGGTT
1 CT-TTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
* * *
2151135 CTTTAGTGGCGTTTGTGGTCGAAGCGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
*
2151178 CTATT-GCGGGGTTTG
1 CT-TTAGCGGCGTTTG
2151193 AGAGAAAAAC
Statistics
Matches: 180, Mismatches: 47, Indels: 6
0.77 0.20 0.03
Matches are distributed among these distances:
42 2 0.01
43 174 0.97
44 4 0.02
ACGTcount: A:0.22, C:0.16, G:0.32, T:0.30
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
Found at i:2151035 original size:86 final size:86
Alignment explanation
Indices: 2150940--2151213 Score: 379
Period size: 86 Copynumber: 3.2 Consensus size: 86
2150930 GTTTTTGGTC
* * * *** * * *
2150940 AAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCATTTGTGGAAAAAGCGCCACTAAAGATCATGG
1 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCATTTGTGGTCGAAGCGCCGCTATAGATCAGGG
* *
2151005 TCT-TTAGCGGTGTTTGTGGGG
66 TCTATT-GCGGCGTTTGAGGGG
*
2151026 AAAGTGCCGCTAAAGATTAGGTTCTTTAGTGGCATTTGTGGTCGAAGCGCCGCTATAGATCAGGG
1 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCATTTGTGGTCGAAGCGCCGCTATAGATCAGGG
2151091 TCTATTGCGGCGTTTGAGGGG
66 TCTATTGCGGCGTTTGAGGGG
*
2151112 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCGAAGCGCCGCTATAGATCAGGG
1 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCATTTGTGGTCGAAGCGCCGCTATAGATCAGGG
* * *
2151177 TCTATTGCGGGGTTTGAGAGA
66 TCTATTGCGGCGTTTGAGGGG
*
2151198 AAAACGCCGCTAAAGA
1 AAAGCGCCGCTAAAGA
2151214 CCAACACCTT
Statistics
Matches: 169, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
86 167 0.99
87 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (86 bp):
AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCATTTGTGGTCGAAGCGCCGCTATAGATCAGGG
TCTATTGCGGCGTTTGAGGGG
Found at i:2151116 original size:129 final size:129
Alignment explanation
Indices: 2150920--2151152 Score: 308
Period size: 129 Copynumber: 1.8 Consensus size: 129
2150910 AGGTGTTAGC
* * *
2150920 CTTTAGTGACGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCATTTGTGGAAAA
1 CTTTAGTGACATTTGTGGTCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCATTTGAGGAAAA
*
2150985 AGCGCCACTAAAGATCATGG-TCTTTAGCGGTGTTTGTGGGGAAAGTGCCGCTAAAGATTAGGTT
66 AGCGCCACTAAAGATCA-GGTTCTTTAGCGGCGTTTGTGGGGAAAGTGCCGCTAAAGATTAGGTT
* * * * * **
2151049 CTTTAGTGGCATTTGTGGTCGAAGCGCCGCTATAGATCAGGGTCTATT-GCGGCGTTTGAGGGGA
1 CTTTAGTGACATTTGTGGTCAAAGCGCCGCTAAAGATAAGGGTCT-TTAGCGGCATTTGAGGAAA
* * *
2151113 AAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGG
65 AAGCGCCACTAAAGATCAGGTTCTTTAGCGGCGTTTGTGG
2151153 TCGAAGCGCC
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
128 2 0.02
129 84 0.95
130 2 0.02
ACGTcount: A:0.22, C:0.16, G:0.32, T:0.30
Consensus pattern (129 bp):
CTTTAGTGACATTTGTGGTCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCATTTGAGGAAAA
AGCGCCACTAAAGATCAGGTTCTTTAGCGGCGTTTGTGGGGAAAGTGCCGCTAAAGATTAGGTT
Found at i:2151225 original size:86 final size:86
Alignment explanation
Indices: 2151049--2151234 Score: 264
Period size: 86 Copynumber: 2.2 Consensus size: 86
2151039 AGATTAGGTT
* *
2151049 CTTTAGTGGCATTTGTGGTCGAAGCGCCGCTATAGATCAGGGTCTATTGCGGCGTTTGAGGGGAA
1 CTTTAGTGGCATTTGTGGTCGAAGCGCCGCTATAGATCAGGGTCTATTGCGGCGTTTGAGAGAAA
* ** ****
2151114 AGCGCCGCTAAAGATTAGGTT
66 AACGCCGCTAAAGACCAACAC
* *
2151135 CTTTAGTGGCGTTTGTGGTCGAAGCGCCGCTATAGATCAGGGTCTATTGCGGGGTTTGAGAGAAA
1 CTTTAGTGGCATTTGTGGTCGAAGCGCCGCTATAGATCAGGGTCTATTGCGGCGTTTGAGAGAAA
2151200 AACGCCGCTAAAGACCAACAC
66 AACGCCGCTAAAGACCAACAC
*
2151221 CTTTAGCGGCATTT
1 CTTTAGTGGCATTT
2151235 ATTTCTAAAA
Statistics
Matches: 87, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
86 87 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (86 bp):
CTTTAGTGGCATTTGTGGTCGAAGCGCCGCTATAGATCAGGGTCTATTGCGGCGTTTGAGAGAAA
AACGCCGCTAAAGACCAACAC
Found at i:2151343 original size:21 final size:18
Alignment explanation
Indices: 2151307--2151349 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
2151297 TCAAAGCGCA
2151307 GCTAAAAGTATTTGCGGC
1 GCTAAAAGTATTTGCGGC
*
2151325 GCTAAAAGTATTTGCTGC
1 GCTAAAAGTATTTGCGGC
2151343 GCTAAAA
1 GCTAAAA
2151350 AGCGCCGCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (18 bp):
GCTAAAAGTATTTGCGGC
Found at i:2151374 original size:22 final size:22
Alignment explanation
Indices: 2151346--2151388 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2151336 TTGCTGCGCT
*
2151346 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
2151368 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
2151389 GTTTTGGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.28, G:0.21, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:2151497 original size:21 final size:21
Alignment explanation
Indices: 2151450--2151491 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
2151440 ACAATTTTGT
*
2151450 AATTAAAGTGAAATTAAAACA
1 AATTAAAGTAAAATTAAAACA
2151471 AATTAAAGTAAAATTAAAACA
1 AATTAAAGTAAAATTAAAACA
2151492 CTTTAATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.24
Consensus pattern (21 bp):
AATTAAAGTAAAATTAAAACA
Found at i:2152407 original size:24 final size:24
Alignment explanation
Indices: 2152343--2152424 Score: 69
Period size: 24 Copynumber: 3.4 Consensus size: 24
2152333 GTTACCAATT
2152343 TTTAGCTC-GAGAGAGCTTACCGATA
1 TTTAGCTCGGA-AGAGCTTACCG-TA
* *** *
2152368 TTCAGCTTACATGAGCTTACCGTA
1 TTTAGCTCGGAAGAGCTTACCGTA
*
2152392 TTTAGCTCGGAAGAGCTTACTGT-
1 TTTAGCTCGGAAGAGCTTACCGTA
2152415 TTATAGCTCG
1 TT-TAGCTCG
2152425 TAAAAGCATA
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
23 2 0.04
24 26 0.58
25 16 0.36
26 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (24 bp):
TTTAGCTCGGAAGAGCTTACCGTA
Done.