Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 136 of 167
Found at i:45537067 original size:30 final size:30
Alignment explanation
Indices: 45537033--45537090 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
45537023 TAGGTACTTC
* *
45537033 CACACGGGT-GATCTACACGCCCGTGTGTGA
1 CACACGGGTAGA-CCACACGCCCATGTGTGA
*
45537063 CACACTGGTAGACCACACGCCCATGTGT
1 CACACGGGTAGACCACACGCCCATGTGT
45537091 CATGGTCGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.22, C:0.33, G:0.26, T:0.19
Consensus pattern (30 bp):
CACACGGGTAGACCACACGCCCATGTGTGA
Found at i:45542159 original size:35 final size:35
Alignment explanation
Indices: 45541988--45542186 Score: 263
Period size: 35 Copynumber: 5.7 Consensus size: 35
45541978 TCCATGGAAA
* * *
45541988 AGTTGTGAAACTTAGGTATGGTATCATCCATACTG
1 AGTTGTGAAACGTAGGTATGGTATTAACCATACTG
*
45542023 AGTTGTGAAACGTAGGTATGGTATTAACCATGCTG
1 AGTTGTGAAACGTAGGTATGGTATTAACCATACTG
45542058 AGTTGTGAAACGTAGGTATGGTATTAACCATACTG
1 AGTTGTGAAACGTAGGTATGGTATTAACCATACTG
* *
45542093 AGTTGTGGAACGTAGGTATGGTATTATCCATACTG
1 AGTTGTGAAACGTAGGTATGGTATTAACCATACTG
** ** * ** *
45542128 AGTTAAGAAACGTAGGTACCGCATTTCCCATACCG
1 AGTTGTGAAACGTAGGTATGGTATTAACCATACTG
*
45542163 AGTTGTGAAATGTAGGTATGGTAT
1 AGTTGTGAAACGTAGGTATGGTAT
45542187 GTCAATGAGG
Statistics
Matches: 142, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 142 1.00
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (35 bp):
AGTTGTGAAACGTAGGTATGGTATTAACCATACTG
Found at i:45544943 original size:49 final size:53
Alignment explanation
Indices: 45544856--45544956 Score: 138
Period size: 55 Copynumber: 1.9 Consensus size: 53
45544846 TATTAGTGTT
45544856 AGAAAAAAAATGACTATTGAGTCTACTAAACTTGATGTTCAAGTCACTAATCTGC
1 AGAAAAAAAATGACTATTGAG-CTACT-AACTTGATGTTCAAGTCACTAATCTGC
* *
45544911 AGAAAAAAAATGACTGTTGAG-T-CT-AC-TGATGTTCAAGTCATTAATC
1 AGAAAAAAAATGACTATTGAGCTACTAACTTGATGTTCAAGTCACTAATC
45544957 CGCTAGGGCA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
49 19 0.43
50 2 0.05
52 2 0.05
53 1 0.02
55 20 0.45
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.30
Consensus pattern (53 bp):
AGAAAAAAAATGACTATTGAGCTACTAACTTGATGTTCAAGTCACTAATCTGC
Found at i:45548421 original size:12 final size:12
Alignment explanation
Indices: 45548406--45548437 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
45548396 ATCGAACCAT
45548406 AAATATTTTTAA
1 AAATATTTTTAA
*
45548418 AAATATTTTTAG
1 AAATATTTTTAA
45548430 AAATATTT
1 AAATATTT
45548438 ATGGCATAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (12 bp):
AAATATTTTTAA
Found at i:45559299 original size:35 final size:35
Alignment explanation
Indices: 45559260--45559421 Score: 200
Period size: 35 Copynumber: 4.6 Consensus size: 35
45559250 ATAGAAAAGC
* *
45559260 TGTGAAACGTAGGTATGGTATCATCCATACTGATT
1 TGTGAAACGTAGGTATGGTATTATCCATACTGAGT
* *
45559295 TGTGAAACATAGGTATGGTATTAACCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTATCCATACTGAGT
45559330 TGTGAAACGTAGGTATGGTATTATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTATCCATACTGAGT
** ** *
45559365 TAAGAAACGTAGGTATGACATT-TCCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATTAT-CCATACTGAGT
* * *
45559400 TGTGAAATGCAGGTGTGGTATT
1 TGTGAAACGTAGGTATGGTATT
45559422 TCAATAAGGA
Statistics
Matches: 108, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
34 1 0.01
35 107 0.99
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (35 bp):
TGTGAAACGTAGGTATGGTATTATCCATACTGAGT
Found at i:45564406 original size:4 final size:4
Alignment explanation
Indices: 45564397--45564427 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
45564387 GAAATCAAAT
45564397 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
45564428 TAAATGAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:45570831 original size:49 final size:49
Alignment explanation
Indices: 45570755--45570874 Score: 132
Period size: 49 Copynumber: 2.4 Consensus size: 49
45570745 TCTCGGATGA
* * * * * *
45570755 CCCAAAAATGATGACTTTTACTGTTTGCATGTTCTACCATCCCAAGTGG
1 CCCAACAATGATGGCTTTGAATATTTGCATATTCTACCATCCCAAGTGG
* * ***
45570804 CCCAACAATGATGGCTTTGAATATTTGCATATTTTATCATCTTGAGTGG
1 CCCAACAATGATGGCTTTGAATATTTGCATATTCTACCATCCCAAGTGG
*
45570853 CCTAACAATGATGGCTTTGAAT
1 CCCAACAATGATGGCTTTGAAT
45570875 CATTATATCG
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
49 59 1.00
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (49 bp):
CCCAACAATGATGGCTTTGAATATTTGCATATTCTACCATCCCAAGTGG
Found at i:45588072 original size:9 final size:9
Alignment explanation
Indices: 45588058--45588086 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
45588048 GGCTTCATTG
45588058 CAACTTGCA
1 CAACTTGCA
45588067 CAACTTGCA
1 CAACTTGCA
45588076 CAACTTGCA
1 CAACTTGCA
45588085 CA
1 CA
45588087 TTGCAACTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.10, T:0.21
Consensus pattern (9 bp):
CAACTTGCA
Found at i:45597074 original size:46 final size:46
Alignment explanation
Indices: 45597024--45597242 Score: 212
Period size: 46 Copynumber: 4.7 Consensus size: 46
45597014 TGGTTGAGCA
45597024 TCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* *
45597070 TCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATG
1 TCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * * * *
45597116 T-TCGAACTCGTTGAGTTGAGTTCGGGTTC-GTGA--GATGTAACTAGG
1 TCT-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* * * *
45597161 CATCTGAACTCATTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * ** *
45597209 CCCGGGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
45597243 GGGGCGGGTT
Statistics
Matches: 141, Mismatches: 23, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
43 5 0.04
45 5 0.04
46 98 0.70
47 23 0.16
48 5 0.04
50 5 0.04
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.32
Consensus pattern (46 bp):
TCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:45600973 original size:14 final size:14
Alignment explanation
Indices: 45600952--45600992 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
45600942 TTGCAACTTG
45600952 CACAACTTGCACAT
1 CACAACTTGCACAT
** *
45600966 TGCAACTTGCAAAT
1 CACAACTTGCACAT
45600980 CACAACTTGCACA
1 CACAACTTGCACA
45600993 ATCAGGTTAG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.37, C:0.32, G:0.10, T:0.22
Consensus pattern (14 bp):
CACAACTTGCACAT
Found at i:45602468 original size:4 final size:4
Alignment explanation
Indices: 45602131--45602460 Score: 606
Period size: 4 Copynumber: 82.5 Consensus size: 4
45602121 GAAATCAAAT
45602131 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
45602179 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
45602227 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
45602275 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
45602323 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * *
45602371 ATAC ATAC ATGC ATAC ATAC ATAC ATGC ATGC ATAC ATAC ATGC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
45602419 ATGC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
45602461 GCATGCATAT
Statistics
Matches: 320, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
4 320 1.00
ACGTcount: A:0.48, C:0.25, G:0.02, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:45602913 original size:19 final size:19
Alignment explanation
Indices: 45602878--45602919 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
45602868 TATGGTTAAC
45602878 ATTAGTTAATTATTAATTA
1 ATTAGTTAATTATTAATTA
45602897 ATTATGTTAATTA-TAATTA
1 ATTA-GTTAATTATTAATTA
45602916 ATTA
1 ATTA
45602920 AAGTTTAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (19 bp):
ATTAGTTAATTATTAATTA
Found at i:45604602 original size:90 final size:90
Alignment explanation
Indices: 45604439--45604629 Score: 310
Period size: 90 Copynumber: 2.1 Consensus size: 90
45604429 ACACCCAACT
* *
45604439 TTAAAAAATCATTATTTATAGGTTTTTCCGGCATTCTAAGACATATGGTTGACCAAAATAAGAAG
1 TTAAGAAATCACTATTTATAGGTTTTTCCGGCATTCTAAGACATATGGTTGACCAAAATAAGAAG
* * *
45604504 ATATGAGTGAATTGTCATAGAATGA
66 ATAGGAGTGAATTGTCATAAAATAA
* * *
45604529 TTAAGAAATCACTATTTATAGGTTTTTCGGGCATTCTAAGACGTATGGTTGACCAAAATAAGAAT
1 TTAAGAAATCACTATTTATAGGTTTTTCCGGCATTCTAAGACATATGGTTGACCAAAATAAGAAG
45604594 ATAGGAGTGAATTGTCATAAAATAA
66 ATAGGAGTGAATTGTCATAAAATAA
45604619 TTAAGAAATCA
1 TTAAGAAATCA
45604630 ACTTGAAAAA
Statistics
Matches: 93, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 93 1.00
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.32
Consensus pattern (90 bp):
TTAAGAAATCACTATTTATAGGTTTTTCCGGCATTCTAAGACATATGGTTGACCAAAATAAGAAG
ATAGGAGTGAATTGTCATAAAATAA
Found at i:45608586 original size:45 final size:45
Alignment explanation
Indices: 45608522--45608607 Score: 172
Period size: 45 Copynumber: 1.9 Consensus size: 45
45608512 ATCTTAGCCC
45608522 AATTTCAGATTCTTTTAATCGAATCACATGACGTACCCGATGCCT
1 AATTTCAGATTCTTTTAATCGAATCACATGACGTACCCGATGCCT
45608567 AATTTCAGATTCTTTTAATCGAATCACATGACGTACCCGAT
1 AATTTCAGATTCTTTTAATCGAATCACATGACGTACCCGAT
45608608 ATCACGTCAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (45 bp):
AATTTCAGATTCTTTTAATCGAATCACATGACGTACCCGATGCCT
Found at i:45610600 original size:64 final size:64
Alignment explanation
Indices: 45610499--45610626 Score: 247
Period size: 64 Copynumber: 2.0 Consensus size: 64
45610489 ACCTCTTGTG
*
45610499 AAATCATTTAGTTATATTTCCAAAATGGTTGCAGTAATTTTTTACTTCAGACATATTCAACCAC
1 AAATCATTTAGTTATATTTCCAAAATGGTTGCAGTAATTTTTTACTTCAAACATATTCAACCAC
45610563 AAATCATTTAGTTATATTTCCAAAATGGTTGCAGTAATTTTTTACTTCAAACATATTCAACCAC
1 AAATCATTTAGTTATATTTCCAAAATGGTTGCAGTAATTTTTTACTTCAAACATATTCAACCAC
45610627 GAACAAGAAA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.39
Consensus pattern (64 bp):
AAATCATTTAGTTATATTTCCAAAATGGTTGCAGTAATTTTTTACTTCAAACATATTCAACCAC
Found at i:45617390 original size:4 final size:4
Alignment explanation
Indices: 45617381--45617498 Score: 200
Period size: 4 Copynumber: 29.5 Consensus size: 4
45617371 GAAATCAAAT
* *
45617381 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ACAC ATAC ATAC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
45617429 ATAC ATAC ATAC ATAC ATGC ATAC ATAC ATAC ATAT ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
45617477 ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC AT
45617499 GCATGCATGC
Statistics
Matches: 106, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 106 1.00
ACGTcount: A:0.48, C:0.25, G:0.02, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:45625488 original size:14 final size:13
Alignment explanation
Indices: 45625451--45625489 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
45625441 TAAATTCAAA
45625451 TCTAAATAATTAT
1 TCTAAATAATTAT
* *
45625464 CCTTAATAATTAT
1 TCTAAATAATTAT
45625477 TCTAATATAATTA
1 TCTAA-ATAATTA
45625490 AACATTAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 14 0.67
14 7 0.33
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (13 bp):
TCTAAATAATTAT
Found at i:45626079 original size:13 final size:13
Alignment explanation
Indices: 45626061--45626085 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45626051 AATATGTCTT
45626061 TTTTTCTTTTTTC
1 TTTTTCTTTTTTC
45626074 TTTTTCTTTTTT
1 TTTTTCTTTTTT
45626086 TAATTTAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTCTTTTTTC
Found at i:45626273 original size:96 final size:97
Alignment explanation
Indices: 45626103--45626286 Score: 244
Period size: 96 Copynumber: 1.9 Consensus size: 97
45626093 ATTTAATTTA
** * * *
45626103 TTTATTTTTACTTAGGAATATATCAAGCCCTTTGACACGAAGAGAGATAACAGCCAAGCACCCCA
1 TTTATTTTTACTTAAAAACATATCAAACCCTTTGACACGAAGAGAGATAACAACCAAGCACCCCA
* * *
45626168 CCTCGGTTACTTAGCCCAACATACTCCTAATT
66 CCCCAGTTACTCAGCCCAACATACTCCTAATT
* * * * *
45626200 TTTATTTTT-CTTAAAAACATATCAAACCTTTTGGCGCGAAGAGAGATGACAACCAAGCACCTCA
1 TTTATTTTTACTTAAAAACATATCAAACCCTTTGACACGAAGAGAGATAACAACCAAGCACCCCA
45626264 CCCCAGTTACTCAGCCCAACATA
66 CCCCAGTTACTCAGCCCAACATA
45626287 TTCTTAAAAA
Statistics
Matches: 74, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
96 65 0.88
97 9 0.12
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (97 bp):
TTTATTTTTACTTAAAAACATATCAAACCCTTTGACACGAAGAGAGATAACAACCAAGCACCCCA
CCCCAGTTACTCAGCCCAACATACTCCTAATT
Found at i:45641032 original size:40 final size:41
Alignment explanation
Indices: 45640977--45641162 Score: 222
Period size: 40 Copynumber: 4.7 Consensus size: 41
45640967 TGATTATTCG
* * *
45640977 GACTATATCCGGGCTAAGTGCCGAAGGCAGTTGTGCTA-CT
1 GACTATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCGAGTT
45641017 GACTATATCCGGGCTAAGTCCCGAAGGC-GTTTGTGCGAGTT
1 GACTATATCCGGGCTAAGTCCCGAAGGCAG-TTGTGCGAGTT
* *** *
45641058 G-CTATATCCGAGCTAAGTCCCGAAGGGTTTTGTGCTAG-T
1 GACTATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCGAGTT
* *
45641097 GACTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTT
1 GACTATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCGAGTT
*
45641138 G-CTATATCC-GGCTAAATCCCGAAGG
1 GACTATATCCGGGCTAAGTCCCGAAGG
45641163 TACTTGGGTT
Statistics
Matches: 127, Mismatches: 14, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
39 17 0.13
40 106 0.83
41 4 0.03
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (41 bp):
GACTATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCGAGTT
Found at i:45641112 original size:80 final size:79
Alignment explanation
Indices: 45640979--45641162 Score: 278
Period size: 80 Copynumber: 2.3 Consensus size: 79
45640969 ATTATTCGGA
* *
45640979 CTATATCCGGGCTAAGTGCCGAAGGCAGTTGTGCTACTGACTATATCCGGGCTAAGTCCCGAAGG
1 CTATATCC-GGCTAAGTCCCGAAGGCAGTTGTGCTACTGACTATATCCGGGCTAAGACCCGAAGG
*
45641044 CGTTTGTGCGAGTTG
65 CATTTGTGCGAGTTG
*** *
45641059 CTATATCCGAGCTAAGTCCCGAAGGGTTTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGG
1 CTATATCCG-GCTAAGTCCCGAAGGCAGTTGTGCTACTGACTATATCCGGGCTAAGACCCGAAGG
45641124 CATTTGTGCGAGTTG
65 CATTTGTGCGAGTTG
*
45641139 CTATATCCGGCTAAATCCCGAAGG
1 CTATATCCGGCTAAGTCCCGAAGG
45641163 TACTTGGGTT
Statistics
Matches: 95, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
79 15 0.16
80 80 0.84
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (79 bp):
CTATATCCGGCTAAGTCCCGAAGGCAGTTGTGCTACTGACTATATCCGGGCTAAGACCCGAAGGC
ATTTGTGCGAGTTG
Found at i:45642891 original size:8 final size:7
Alignment explanation
Indices: 45642878--45642935 Score: 50
Period size: 8 Copynumber: 8.3 Consensus size: 7
45642868 ACCCAAACAA
45642878 AATAAAGT
1 AATAAA-T
45642886 AATAAAT
1 AATAAAT
45642893 AAT-AA-
1 AATAAAT
45642898 AATAAAGT
1 AATAAA-T
*
45642906 AATGAAT
1 AATAAAT
*
45642913 AAAAAAT
1 AATAAAT
45642920 AATAAAAT
1 AAT-AAAT
45642928 AA-AAAT
1 AATAAAT
45642934 AA
1 AA
45642936 AGAAAAATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
5 3 0.07
6 10 0.24
7 12 0.29
8 17 0.40
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.22
Consensus pattern (7 bp):
AATAAAT
Found at i:45642901 original size:20 final size:19
Alignment explanation
Indices: 45642876--45642948 Score: 79
Period size: 20 Copynumber: 4.2 Consensus size: 19
45642866 TCACCCAAAC
45642876 AAAATAAAGTAATAAATAA
1 AAAATAAAGTAATAAATAA
*
45642895 TAAAATAAAGTAATGAATAA
1 -AAAATAAAGTAATAAATAA
45642915 AAAAT-AA-T-A-AAAT-A
1 AAAATAAAGTAATAAATAA
45642929 AAAATAAAG-AA-AAATAA
1 AAAATAAAGTAATAAATAA
45642946 AAA
1 AAA
45642949 TTGGGTTGCC
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
14 6 0.13
15 5 0.11
16 6 0.13
17 5 0.11
18 2 0.04
19 5 0.11
20 18 0.38
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.19
Consensus pattern (19 bp):
AAAATAAAGTAATAAATAA
Found at i:45642941 original size:24 final size:24
Alignment explanation
Indices: 45642876--45642945 Score: 79
Period size: 27 Copynumber: 2.7 Consensus size: 24
45642866 TCACCCAAAC
45642876 AAAATAAAGTAATAAATAATAAAATA
1 AAAATAAAG-AA-AAATAATAAAATA
45642902 AAGTAATGAATA-AAAAATAATAAAATA
1 AA--AAT-AA-AGAAAAATAATAAAATA
45642929 AAAATAAAGAAAAATAA
1 AAAATAAAGAAAAATAA
45642946 AAATTGGGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
23 1 0.03
24 10 0.26
25 3 0.08
26 2 0.05
27 15 0.38
28 5 0.13
29 2 0.05
30 1 0.03
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (24 bp):
AAAATAAAGAAAAATAATAAAATA
Found at i:45643536 original size:93 final size:93
Alignment explanation
Indices: 45643417--45643599 Score: 294
Period size: 93 Copynumber: 2.0 Consensus size: 93
45643407 AGTGCCATAA
*
45643417 ACGTTAAACTTCACGATCTCCCCATCAAACTCCATCATAAGGGTTCCGCTTCGTACGTCAATCTT
1 ACGTTAAACTTCACAATCTCCCCATCAAACTCCATCATAAGGGTTCCGCTTCGTACGTCAATCTT
** *
45643482 AGTGTTTGCAGTACTAAGGAAAGGTCGC
66 AGCATTTGCAGTACTAAGAAAAGGTCGC
* * * *
45643510 ACGTTATACTTCACAATCTCTCCATCAAACTCCATCGTGAGGGTTCCGCTTCGTACGTCAATCTT
1 ACGTTAAACTTCACAATCTCCCCATCAAACTCCATCATAAGGGTTCCGCTTCGTACGTCAATCTT
45643575 AGCATTTGCAGTACTAAGAAAAGGT
66 AGCATTTGCAGTACTAAGAAAAGGT
45643600 TGCCCCAACA
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 82 1.00
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.29
Consensus pattern (93 bp):
ACGTTAAACTTCACAATCTCCCCATCAAACTCCATCATAAGGGTTCCGCTTCGTACGTCAATCTT
AGCATTTGCAGTACTAAGAAAAGGTCGC
Found at i:45646691 original size:10 final size:10
Alignment explanation
Indices: 45646664--45646713 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
45646654 TTAAATTCTA
45646664 AAAGATAAAT
1 AAAGATAAAT
*
45646674 ACAA-ATAATT
1 A-AAGATAAAT
*
45646684 AAAGATAATT
1 AAAGATAAAT
45646694 AAAGATAAAT
1 AAAGATAAAT
*
45646704 AAAAATAAAT
1 AAAGATAAAT
45646714 CTTAAATTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.24
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:45646763 original size:14 final size:13
Alignment explanation
Indices: 45646727--45646764 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
45646717 AAATTCAAAT
45646727 CTAAATAATTATC
1 CTAAATAATTATC
*
45646740 CTTAATAATTATC
1 CTAAATAATTATC
45646753 CTAACATAATTA
1 CTAA-ATAATTA
45646765 AACATTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (13 bp):
CTAAATAATTATC
Found at i:45652131 original size:43 final size:43
Alignment explanation
Indices: 45652008--45652153 Score: 168
Period size: 43 Copynumber: 3.4 Consensus size: 43
45651998 CGCAACTATA
* * *
45652008 GCAAACGCCGCTAAAGATCATGACTTTTAGTGGCGCTTTTTCC-
1 GCAAACACCGCTAAAGACCATGACCTTTAGTGGCGC-TTTTCCT
* * * **
45652051 ACAAGCACCACTAAAGACCATGACCTTTAACGGCGCTTTTCCT
1 GCAAACACCGCTAAAGACCATGACCTTTAGTGGCGCTTTTCCT
* * *
45652094 GCAAACACCGTTAAAGACCATGACCTTTAGTGACGCTTTCCCT
1 GCAAACACCGCTAAAGACCATGACCTTTAGTGGCGCTTTTCCT
*
45652137 GCAAACGCCGCTAAAGA
1 GCAAACACCGCTAAAGA
45652154 ATATAACCTT
Statistics
Matches: 84, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
42 6 0.07
43 78 0.93
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (43 bp):
GCAAACACCGCTAAAGACCATGACCTTTAGTGGCGCTTTTCCT
Found at i:45658205 original size:3 final size:3
Alignment explanation
Indices: 45658179--45658242 Score: 51
Period size: 3 Copynumber: 20.3 Consensus size: 3
45658169 TATATCTTTG
*
45658179 TAT TAT ATAT TAT AAT TA- TAT TAT TAT ATAT TAT T-T ATAT TAT TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT TAT TAT
*
45658225 TATT TAC TAT ATAT TAT T
1 TA-T TAT TAT -TAT TAT T
45658243 TTTCACAAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
2 3 0.06
3 34 0.68
4 13 0.26
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:45658236 original size:50 final size:49
Alignment explanation
Indices: 45658182--45658372 Score: 152
Period size: 50 Copynumber: 3.9 Consensus size: 49
45658172 ATCTTTGTAT
45658182 TATATATTATA-ATTATATTATTATATATTATTTATATTATTATTATTTAC
1 TATATATTATATATTATA-TATTATATATTATTTATA-TATTATTATTTAC
* * * * *
45658232 TATATATTAT-TTTTCACAAATTA-GTATTATTT-TACATTATTATTTA-
1 TATATATTATATATT-ATATATTATATATTATTTATATATTATTATTTAC
*
45658278 TATAATATTATTATATTGTATTATT-TATA-TATATTATATATTATT-TTTAC
1 TAT-ATATTA-TATATTATA-TATTATATATTAT-TTATATATTATTATTTAC
*
45658328 ATATATACTT-TCATATTATATATTATA-ATTATTT-TAAATTATTAT
1 -TATATA-TTAT-ATATTATATATTATATATTATTTATATATTATTAT
45658373 GTCATTTTTC
Statistics
Matches: 112, Mismatches: 13, Indels: 33
0.71 0.08 0.21
Matches are distributed among these distances:
46 3 0.03
47 17 0.15
48 15 0.13
49 31 0.28
50 39 0.35
51 7 0.06
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.58
Consensus pattern (49 bp):
TATATATTATATATTATATATTATATATTATTTATATATTATTATTTAC
Found at i:45658291 original size:13 final size:13
Alignment explanation
Indices: 45658269--45658322 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 13
45658259 TATTTTACAT
45658269 TATTATTTATATAA
1 TATTA-TTATATAA
**
45658283 TATTATTATATTG
1 TATTATTATATAA
45658296 TATTATT-TAT-A
1 TATTATTATATAA
*
45658307 TA-TATTATATAT
1 TATTATTATATAA
45658319 TATT
1 TATT
45658323 TTTACATATA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
10 4 0.12
11 5 0.15
12 5 0.15
13 14 0.42
14 5 0.15
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (13 bp):
TATTATTATATAA
Found at i:45658299 original size:27 final size:25
Alignment explanation
Indices: 45658269--45658319 Score: 84
Period size: 27 Copynumber: 2.0 Consensus size: 25
45658259 TATTTTACAT
45658269 TATTATTTATATAATATTATTATATTG
1 TATTATTTATAT-ATATTA-TATATTG
45658296 TATTATTTATATATATTATATATT
1 TATTATTTATATATATTATATATT
45658320 ATTTTTACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 6 0.25
26 6 0.25
27 12 0.50
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (25 bp):
TATTATTTATATATATTATATATTG
Found at i:45662457 original size:14 final size:14
Alignment explanation
Indices: 45662438--45662467 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
45662428 AAGATATTCT
45662438 TTTTCTAAATAAAG
1 TTTTCTAAATAAAG
*
45662452 TTTTCTAAATGAAG
1 TTTTCTAAATAAAG
45662466 TT
1 TT
45662468 GAACCAGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.47
Consensus pattern (14 bp):
TTTTCTAAATAAAG
Found at i:45662506 original size:14 final size:16
Alignment explanation
Indices: 45662487--45662523 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
45662477 TTGATATCCT
45662487 TTTGCAT-TCAT-GCA
1 TTTGCATCTCATAGCA
45662501 TTTGCATCTCATAGCA
1 TTTGCATCTCATAGCA
45662517 TTT-CATC
1 TTTGCATC
45662524 GCATCGTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 8 0.38
16 6 0.29
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43
Consensus pattern (16 bp):
TTTGCATCTCATAGCA
Found at i:45668400 original size:28 final size:28
Alignment explanation
Indices: 45668337--45668490 Score: 274
Period size: 28 Copynumber: 5.5 Consensus size: 28
45668327 ATATTAAGTC
* *
45668337 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
45668364 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
45668392 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
45668420 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
45668448 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
45668476 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45668491 GTACAATTTA
Statistics
Matches: 124, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
27 22 0.18
28 102 0.82
ACGTcount: A:0.34, C:0.29, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:45676347 original size:29 final size:27
Alignment explanation
Indices: 45676329--45676398 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
45676319 ATATTAAGTC
45676329 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
45676356 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
45676384 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
45676399 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:45676392 original size:28 final size:28
Alignment explanation
Indices: 45676329--45676426 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
45676319 ATATTAAGTC
*
45676329 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
45676356 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
45676384 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
45676413 CGCACACTTAGTGC
1 CGCACACTTAGTGC
45676427 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:45682352 original size:202 final size:204
Alignment explanation
Indices: 45681837--45682386 Score: 797
Period size: 206 Copynumber: 2.7 Consensus size: 204
45681827 AGATCTGGCG
* *
45681837 GAAGCAAGATCCAAGATGGTTTGGCATCCTTGTACTTACAAGGAACAAACCGAAGACATAGCTGA
1 GAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGA
* * * * *
45681902 TTCGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATAATTTGGCATCTCTGTATTGTCAAAG
66 TTTGGCTTTCACGTGTTTACGATAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAG
** **
45681967 AACAAATCGAAGTTTGGCGTCTCCATATTCGGTGGAAAGCAGACACATTGCAGATCTGGCCTTCA
131 AACAAATCGAAGTTTGGCGTCTCCATATTCGGACGAAAGCAGACACATT---GATCTCACCTTCA
* *
45682032 TATGTTTATACT
193 GATGTTTACACT
* *
45682044 GAAGC-AGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAA-ATCATAGCTG
1 GAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGA-CATAGCTG
* * *
45682107 ATTTGGCTTTCACGTGCTTATGATAAAGCAAATCTAAGATGATTTGGCATCTTTGTATTGTCAGA
65 ATTTGGCTTTCACGTGTTTACGATAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
*
45682172 GAACAAATTGAAGTTTGGCGTCTCCATATTC-GACGAAAGGCAGACACA-T-ATCTCACCTTCAG
130 GAACAAATCGAAGTTTGGCGTCTCCATATTCGGACGAAA-GCAGACACATTGATCTCACCTTCAG
45682234 ATGATTT-CACT
194 ATG-TTTACACT
*
45682245 GAAGCAAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGA
1 GAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGA
* * *
45682310 TTTGGTTTTCGCGTGTTTACGCTAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAG
66 TTTGGCTTTCACGTGTTTACGATAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAG
45682375 AACAAATCGAAG
131 AACAAATCGAAG
45682387 AAGCAGATTT
Statistics
Matches: 309, Mismatches: 29, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
201 21 0.07
202 127 0.41
203 1 0.00
205 7 0.02
206 148 0.48
207 5 0.02
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (204 bp):
GAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGA
TTTGGCTTTCACGTGTTTACGATAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAG
AACAAATCGAAGTTTGGCGTCTCCATATTCGGACGAAAGCAGACACATTGATCTCACCTTCAGAT
GTTTACACT
Found at i:45687059 original size:202 final size:204
Alignment explanation
Indices: 45686544--45687093 Score: 797
Period size: 206 Copynumber: 2.7 Consensus size: 204
45686534 AGATCTGGCG
* *
45686544 GAAGCAAGATCCAAGATGGTTTGGCATCCTTGTACTTACAAGGAACAAACCGAAGACATAGCTGA
1 GAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGA
* * * * *
45686609 TTCGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATAATTTGGCATCTCTGTATTGTCAAAG
66 TTTGGCTTTCACGTGTTTACGATAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAG
** **
45686674 AACAAATCGAAGTTTGGCGTCTCCATATTCGGTGGAAAGCAGACACATTGCAGATCTGGCCTTCA
131 AACAAATCGAAGTTTGGCGTCTCCATATTCGGACGAAAGCAGACACATT---GATCTCACCTTCA
* *
45686739 TATGTTTATACT
193 GATGTTTACACT
* *
45686751 GAAGC-AGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAA-ATCATAGCTG
1 GAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGA-CATAGCTG
* * *
45686814 ATTTGGCTTTCACGTGCTTATGATAAAGCAAATCTAAGATGATTTGGCATCTTTGTATTGTCAGA
65 ATTTGGCTTTCACGTGTTTACGATAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
*
45686879 GAACAAATTGAAGTTTGGCGTCTCCATATTC-GACGAAAGGCAGACACA-T-ATCTCACCTTCAG
130 GAACAAATCGAAGTTTGGCGTCTCCATATTCGGACGAAA-GCAGACACATTGATCTCACCTTCAG
45686941 ATGATTT-CACT
194 ATG-TTTACACT
*
45686952 GAAGCAAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGA
1 GAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGA
* * *
45687017 TTTGGTTTTCGCGTGTTTACGCTAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAG
66 TTTGGCTTTCACGTGTTTACGATAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAG
45687082 AACAAATCGAAG
131 AACAAATCGAAG
45687094 AAGCAGATTT
Statistics
Matches: 309, Mismatches: 29, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
201 21 0.07
202 127 0.41
203 1 0.00
205 7 0.02
206 148 0.48
207 5 0.02
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (204 bp):
GAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGA
TTTGGCTTTCACGTGTTTACGATAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAG
AACAAATCGAAGTTTGGCGTCTCCATATTCGGACGAAAGCAGACACATTGATCTCACCTTCAGAT
GTTTACACT
Found at i:45689090 original size:7 final size:7
Alignment explanation
Indices: 45689077--45689141 Score: 112
Period size: 7 Copynumber: 9.0 Consensus size: 7
45689067 TTAAATATTA
45689077 AATTTTT
1 AATTTTT
45689084 AAGTTTTT
1 AA-TTTTT
45689092 AATTTTT
1 AATTTTT
45689099 AATTTTT
1 AATTTTT
45689106 AATTTTT
1 AATTTTT
45689113 AATTTTT
1 AATTTTT
45689120 AATTTTT
1 AATTTTT
45689127 AATTTTT
1 AATTTTT
45689134 AAATTTTT
1 -AATTTTT
45689142 TTTTGAAGAT
Statistics
Matches: 56, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
7 42 0.75
8 14 0.25
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (7 bp):
AATTTTT
Found at i:45689763 original size:15 final size:15
Alignment explanation
Indices: 45689730--45689772 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
45689720 TTATCTCTTA
*
45689730 CATAA-CCATAAA-T
1 CATAATCCATAAACC
*
45689743 CATAATCCCTAAACC
1 CATAATCCATAAACC
45689758 CATAATCCATAAACC
1 CATAATCCATAAACC
45689773 TTAAAATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 5 0.20
14 6 0.24
15 14 0.56
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.21
Consensus pattern (15 bp):
CATAATCCATAAACC
Found at i:45689777 original size:22 final size:22
Alignment explanation
Indices: 45689735--45689821 Score: 52
Period size: 22 Copynumber: 4.0 Consensus size: 22
45689725 TCTTACATAA
*
45689735 CCATAAATCATAATCCCTAAAC
1 CCATAAATCATAAACCCTAAAC
* *
45689757 CCAT-AATCCATAAACCTTAAAA
1 CCATAAAT-CATAAACCCTAAAC
** * * **
45689779 TAATAACTCATACACTTTAAAC
1 CCATAAATCATAAACCCTAAAC
* *
45689801 CC-TAAACCCTAAACCCTAAAC
1 CCATAAATCATAAACCCTAAAC
45689822 TATAAACCCT
Statistics
Matches: 46, Mismatches: 17, Indels: 5
0.68 0.25 0.07
Matches are distributed among these distances:
21 16 0.35
22 28 0.61
23 2 0.04
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (22 bp):
CCATAAATCATAAACCCTAAAC
Found at i:45689808 original size:7 final size:7
Alignment explanation
Indices: 45689796--45689835 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
45689786 TCATACACTT
45689796 TAAACCC
1 TAAACCC
45689803 TAAACCC
1 TAAACCC
45689810 TAAACCC
1 TAAACCC
**
45689817 TAAACTA
1 TAAACCC
45689824 TAAACCC
1 TAAACCC
45689831 TAAAC
1 TAAAC
45689836 TATAATGATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.17
Consensus pattern (7 bp):
TAAACCC
Found at i:45689815 original size:14 final size:14
Alignment explanation
Indices: 45689796--45689840 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
45689786 TCATACACTT
*
45689796 TAAACCCTAAACCC
1 TAAACCCTAAACCA
*
45689810 TAAACCCTAAACTA
1 TAAACCCTAAACCA
*
45689824 TAAACCCTAAACTA
1 TAAACCCTAAACCA
45689838 TAA
1 TAA
45689841 TGATAATCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:45689958 original size:7 final size:7
Alignment explanation
Indices: 45689934--45690113 Score: 78
Period size: 7 Copynumber: 24.7 Consensus size: 7
45689924 ACTAACTAAT
45689934 CTAAACC
1 CTAAACC
*
45689941 TTAAACTC
1 CTAAAC-C
*
45689949 CTAACCC
1 CTAAACC
45689956 CTAAACC
1 CTAAACC
45689963 CTAAACC
1 CTAAACC
45689970 CTAAACC
1 CTAAACC
* *
45689977 ATAAATC
1 CTAAACC
*
45689984 CTAAAAC
1 CTAAACC
*
45689991 ATAAACC
1 CTAAACC
* *
45689998 ATGAACC
1 CTAAACC
*
45690005 ATAAACCC
1 CTAAA-CC
*
45690013 CT-CACC
1 CTAAACC
*
45690019 CTTAACC
1 CTAAACC
*
45690026 CTTAACCC
1 C-TAAACC
45690034 CT-AACAC
1 CTAAAC-C
45690041 CTAAACC
1 CTAAACC
*
45690048 TTAAACC
1 CTAAACC
*
45690055 C-CAACC
1 CTAAACC
45690061 CTTAAATCAC
1 C-TAAA-C-C
45690071 CTTTAAACC
1 C--TAAACC
* *
45690080 ATAATCC
1 CTAAACC
45690087 CTAAACC
1 CTAAACC
*
45690094 CATAATCC
1 C-TAAACC
*
45690102 ATAAACC
1 CTAAACC
*
45690109 TTAAA
1 CTAAA
45690114 ATAGTAACTC
Statistics
Matches: 131, Mismatches: 30, Indels: 24
0.71 0.16 0.13
Matches are distributed among these distances:
6 11 0.08
7 87 0.66
8 23 0.18
9 2 0.02
10 3 0.02
11 5 0.04
ACGTcount: A:0.42, C:0.37, G:0.01, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:45690066 original size:21 final size:22
Alignment explanation
Indices: 45689935--45690066 Score: 87
Period size: 21 Copynumber: 6.2 Consensus size: 22
45689925 CTAACTAATC
* *
45689935 TAAACCTTAAACTCCTAACCCC
1 TAAACCTTAAACCCCTAACCCT
* * *
45689957 TAAACCCTAAA-CCCTAAACCA
1 TAAACCTTAAACCCCTAACCCT
* * * *
45689978 TAAATCC-TAAA-ACATAAACCA
1 TAAA-CCTTAAACCCCTAACCCT
* * *
45689999 TGAACCATAAACCCCTCACCCT
1 TAAACCTTAAACCCCTAACCCT
*
45690021 TAACCCTT-AACCCCTAACACC-
1 TAAACCTTAAACCCCTAAC-CCT
45690042 TAAACCTTAAACCCC-AACCCT
1 TAAACCTTAAACCCCTAACCCT
45690063 TAAA
1 TAAA
45690067 TCACCTTTAA
Statistics
Matches: 87, Mismatches: 17, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
20 4 0.05
21 53 0.61
22 30 0.34
ACGTcount: A:0.42, C:0.39, G:0.01, T:0.19
Consensus pattern (22 bp):
TAAACCTTAAACCCCTAACCCT
Found at i:45690510 original size:41 final size:39
Alignment explanation
Indices: 45690425--45690536 Score: 127
Period size: 39 Copynumber: 2.8 Consensus size: 39
45690415 AGATCAAGCA
* *
45690425 TTAGCGGCGTTTTTAAAAGGCGCCGCTAAAGGTGTAATT
1 TTAGCGGCGTTTTTAAAAAGCGCCGCTAAAGCTGTAATT
* * *
45690464 ATAGCGGCGTTTCTTAAAAAAGCGTCGCTAATGCT-TAATCT
1 TTAGCGGCGTTT-TT-AAAAAGCGCCGCTAAAGCTGTAAT-T
* *
45690505 TTAGCGTCGTTTTTGAAAAGCGCCGCTAAAGC
1 TTAGCGGCGTTTTTAAAAAGCGCCGCTAAAGC
45690537 CACTAAAAGC
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
39 26 0.43
40 8 0.13
41 26 0.43
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (39 bp):
TTAGCGGCGTTTTTAAAAAGCGCCGCTAAAGCTGTAATT
Found at i:45690665 original size:180 final size:182
Alignment explanation
Indices: 45690322--45690723 Score: 490
Period size: 180 Copynumber: 2.2 Consensus size: 182
45690312 CATTTCTTGT
*
45690322 GGCGTTTTTCAAAAAGCGCCGCTAAAGCCACTAAAAGCTTAATACAGCGTTTTGCAAAATTCTTT
1 GGCGTTTTT-AAAAAGCGCCGCTAAAGCCACTAAAAGC-T-AT--A-CGTTTTGCAAAATACTTT
* *
45690387 TGCAGCGTTTTTTGAAAAACGCCACCAAAGATCAAGCATTAGCGGCGTTTTTAAAAGGCGCCGCT
60 TGCAGCGTTCTTTCAAAAACGCCACCAAAGATCAAGCATTAGCGGCGTTTTTAAAAGGCGCCGCT
* * ** *
45690452 AAAGGTGTAATTATAGCGGCGTTTCTTAAAAAAGCG-TCGCTAATGCTTAATCTTTAGC
125 AAAGGTATAATTATAGCGGCGTTTCTCAAAAAAGCGCT-GCTAATAATCAATCTTTAGC
* * * *
45690510 GTCGTTTTTGAAAAGCGCCGCTAAAGCCACTAAAAGC-GT-CGTTTTGCAAAATACTTTTGCGGC
1 GGCGTTTTTAAAAAGCGCCGCTAAAGCCACTAAAAGCTATACGTTTTGCAAAATACTTTTGCAGC
* ** *
45690573 GTTCTTTCAAAAATGCTGCTAAAGATCAAGCATTAGCGGCGTTTTCTAAAAGGCGCCGCTAAAGG
66 GTTCTTTCAAAAACGCCACCAAAGATCAAGCATTAGCGGCGTTTT-TAAAAGGCGCCGCTAAAGG
* * *
45690638 TATACA-TATAGCTGCGTTT-TCAAAAAAGCGCTGCTAATAATCGATCTTTAGT
130 TATA-ATTATAGCGGCGTTTCTCAAAAAAGCGCTGCTAATAATCAATCTTTAGC
** *
45690690 GGCGTCATTAAAAAGCGCCACTAAAGCCACTAAA
1 GGCGTTTTTAAAAAGCGCCGCTAAAGCCACTAAA
45690724 GGCTTGTGGC
Statistics
Matches: 187, Mismatches: 24, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
180 115 0.61
181 35 0.19
182 1 0.01
184 1 0.01
187 27 0.14
188 8 0.04
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (182 bp):
GGCGTTTTTAAAAAGCGCCGCTAAAGCCACTAAAAGCTATACGTTTTGCAAAATACTTTTGCAGC
GTTCTTTCAAAAACGCCACCAAAGATCAAGCATTAGCGGCGTTTTTAAAAGGCGCCGCTAAAGGT
ATAATTATAGCGGCGTTTCTCAAAAAAGCGCTGCTAATAATCAATCTTTAGC
Found at i:45700156 original size:5 final size:5
Alignment explanation
Indices: 45700146--45700173 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
45700136 TTGTGTGTTC
45700146 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
45700174 TTCACAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:45702723 original size:26 final size:26
Alignment explanation
Indices: 45702693--45702744 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
45702683 GCAAGAGGAG
** *
45702693 ATGGAATCACTTTGCAAAAATAAAAA
1 ATGGAATCACTTCACAAAAACAAAAA
*
45702719 ATGGAATTACTTCACAAAAACAAAAA
1 ATGGAATCACTTCACAAAAACAAAAA
45702745 CTGCATTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.56, C:0.13, G:0.10, T:0.21
Consensus pattern (26 bp):
ATGGAATCACTTCACAAAAACAAAAA
Found at i:45704577 original size:49 final size:48
Alignment explanation
Indices: 45704501--45704608 Score: 135
Period size: 49 Copynumber: 2.2 Consensus size: 48
45704491 GAACTTGTAC
* * * * *
45704501 ATTCAACCATCCGAATGACCCAACAATGATGACTTTTACTGTTTGCAT
1 ATTCTACCATCCCAATGACCCAACAATGATGACTTTGAATATTTGCAT
* *
45704549 ATTCTACCATCCCAAGTGGCCCAACAATGATGGCTTTGAATATTTGCAT
1 ATTCTACCATCCCAA-TGACCCAACAATGATGACTTTGAATATTTGCAT
*
45704598 ATTCTATCATC
1 ATTCTACCATC
45704609 TTGAGCGGCC
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
48 13 0.25
49 38 0.75
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (48 bp):
ATTCTACCATCCCAATGACCCAACAATGATGACTTTGAATATTTGCAT
Found at i:45704624 original size:49 final size:49
Alignment explanation
Indices: 45704519--45704638 Score: 141
Period size: 49 Copynumber: 2.4 Consensus size: 49
45704509 ATCCGAATGA
* * * * *
45704519 CCCAACAATGATGACTTTTACTGTTTGCATATTCTACCATCCCAAGTGG
1 CCCAACAATGATGGCTTTGAATATTTGCATATTCTACCATCCCAAGCGG
* ***
45704568 CCCAACAATGATGGCTTTGAATATTTGCATATTCTATCATCTTGAGCGG
1 CCCAACAATGATGGCTTTGAATATTTGCATATTCTACCATCCCAAGCGG
* *
45704617 CCTAACAATGATGGTTTTGAAT
1 CCCAACAATGATGGCTTTGAAT
45704639 CATTATTTCG
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 60 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.34
Consensus pattern (49 bp):
CCCAACAATGATGGCTTTGAATATTTGCATATTCTACCATCCCAAGCGG
Found at i:45705505 original size:20 final size:20
Alignment explanation
Indices: 45705462--45705501 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
45705452 GGTTAACATT
*
45705462 AGTTAATTATTAATTAGTTA
1 AGTTAATTATTAATTAATTA
45705482 AGTTAATTA-TAATTAATTA
1 AGTTAATTATTAATTAATTA
45705501 A
1 A
45705502 AGTTTAATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.47
Consensus pattern (20 bp):
AGTTAATTATTAATTAATTA
Found at i:45711795 original size:38 final size:38
Alignment explanation
Indices: 45711744--45711826 Score: 139
Period size: 38 Copynumber: 2.2 Consensus size: 38
45711734 AACCCTAATC
* * *
45711744 CCACCTATTCCACCACCTTTGTTGGTCACCCACCTTGG
1 CCACCTACTCCACCACCCTTGTTGGCCACCCACCTTGG
45711782 CCACCTACTCCACCACCCTTGTTGGCCACCCACCTTGG
1 CCACCTACTCCACCACCCTTGTTGGCCACCCACCTTGG
45711820 CCACCTA
1 CCACCTA
45711827 AACCACCCCA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.17, C:0.47, G:0.12, T:0.24
Consensus pattern (38 bp):
CCACCTACTCCACCACCCTTGTTGGCCACCCACCTTGG
Found at i:45713330 original size:5 final size:5
Alignment explanation
Indices: 45713320--45713347 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
45713310 TTGTGTGTTC
45713320 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
45713348 TTCACAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:45715897 original size:26 final size:26
Alignment explanation
Indices: 45715867--45715918 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
45715857 GCAAGAGGAG
** *
45715867 ATGGAATCACTTTGCAAAAATAAAAA
1 ATGGAATCACTTCACAAAAACAAAAA
*
45715893 ATGGAATTACTTCACAAAAACAAAAA
1 ATGGAATCACTTCACAAAAACAAAAA
45715919 CTGCATTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.56, C:0.13, G:0.10, T:0.21
Consensus pattern (26 bp):
ATGGAATCACTTCACAAAAACAAAAA
Found at i:45717751 original size:49 final size:48
Alignment explanation
Indices: 45717675--45717782 Score: 135
Period size: 49 Copynumber: 2.2 Consensus size: 48
45717665 GAACTTGTAC
* * * * *
45717675 ATTCAACCATCCGAATGACCCAACAATGATGACTTTTACTGTTTGCAT
1 ATTCTACCATCCCAATGACCCAACAATGATGACTTTGAATATTTGCAT
* *
45717723 ATTCTACCATCCCAAGTGGCCCAACAATGATGGCTTTGAATATTTGCAT
1 ATTCTACCATCCCAA-TGACCCAACAATGATGACTTTGAATATTTGCAT
*
45717772 ATTCTATCATC
1 ATTCTACCATC
45717783 TTGAGCGGCC
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
48 13 0.25
49 38 0.75
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (48 bp):
ATTCTACCATCCCAATGACCCAACAATGATGACTTTGAATATTTGCAT
Found at i:45717798 original size:49 final size:49
Alignment explanation
Indices: 45717693--45717812 Score: 141
Period size: 49 Copynumber: 2.4 Consensus size: 49
45717683 ATCCGAATGA
* * * * *
45717693 CCCAACAATGATGACTTTTACTGTTTGCATATTCTACCATCCCAAGTGG
1 CCCAACAATGATGGCTTTGAATATTTGCATATTCTACCATCCCAAGCGG
* ***
45717742 CCCAACAATGATGGCTTTGAATATTTGCATATTCTATCATCTTGAGCGG
1 CCCAACAATGATGGCTTTGAATATTTGCATATTCTACCATCCCAAGCGG
* *
45717791 CCTAACAATGATGGTTTTGAAT
1 CCCAACAATGATGGCTTTGAAT
45717813 CATTATTTCG
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 60 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.34
Consensus pattern (49 bp):
CCCAACAATGATGGCTTTGAATATTTGCATATTCTACCATCCCAAGCGG
Found at i:45718679 original size:20 final size:20
Alignment explanation
Indices: 45718636--45718675 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
45718626 GGTTAACATT
*
45718636 AGTTAATTATTAATTAGTTA
1 AGTTAATTATTAATTAATTA
45718656 AGTTAATTA-TAATTAATTA
1 AGTTAATTATTAATTAATTA
45718675 A
1 A
45718676 AGTTTAATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.47
Consensus pattern (20 bp):
AGTTAATTATTAATTAATTA
Found at i:45726953 original size:15 final size:15
Alignment explanation
Indices: 45726929--45726958 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
45726919 TGGAGATCGA
*
45726929 GGAAATGGTCGTGGT
1 GGAAAAGGTCGTGGT
45726944 GGAAAAGGTCGTGGT
1 GGAAAAGGTCGTGGT
45726959 CAAGAAGGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.47, T:0.23
Consensus pattern (15 bp):
GGAAAAGGTCGTGGT
Found at i:45730339 original size:15 final size:15
Alignment explanation
Indices: 45730319--45730349 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
45730309 GTCATGTAAG
45730319 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
45730334 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
45730349 T
1 T
45730350 ATATTCTTTT
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:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:45730539 original size:17 final size:17
Alignment explanation
Indices: 45730506--45730544 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
45730496 TAAGCTTTTG
45730506 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
45730523 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
45730540 ATTTT
1 ATTTT
45730545 CCACAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:45733375 original size:5 final size:5
Alignment explanation
Indices: 45733365--45733392 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
45733355 TTGTGTGTTC
45733365 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
45733393 TTCACAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:45735942 original size:26 final size:26
Alignment explanation
Indices: 45735912--45735963 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
45735902 GCAAGAGGAG
** *
45735912 ATGGAATCACTTTGCAAAAATAAAAA
1 ATGGAATCACTTCACAAAAACAAAAA
*
45735938 ATGGAATTACTTCACAAAAACAAAAA
1 ATGGAATCACTTCACAAAAACAAAAA
45735964 CTGCATTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.56, C:0.13, G:0.10, T:0.21
Consensus pattern (26 bp):
ATGGAATCACTTCACAAAAACAAAAA
Found at i:45737796 original size:49 final size:48
Alignment explanation
Indices: 45737720--45737827 Score: 135
Period size: 49 Copynumber: 2.2 Consensus size: 48
45737710 GAACTTGTAC
* * * * *
45737720 ATTCAACCATCCGAATGACCCAACAATGATGACTTTTACTGTTTGCAT
1 ATTCTACCATCCCAATGACCCAACAATGATGACTTTGAATATTTGCAT
* *
45737768 ATTCTACCATCCCAAGTGGCCCAACAATGATGGCTTTGAATATTTGCAT
1 ATTCTACCATCCCAA-TGACCCAACAATGATGACTTTGAATATTTGCAT
*
45737817 ATTCTATCATC
1 ATTCTACCATC
45737828 TTGAGCGGCC
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
48 13 0.25
49 38 0.75
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (48 bp):
ATTCTACCATCCCAATGACCCAACAATGATGACTTTGAATATTTGCAT
Found at i:45737843 original size:49 final size:49
Alignment explanation
Indices: 45737738--45737857 Score: 141
Period size: 49 Copynumber: 2.4 Consensus size: 49
45737728 ATCCGAATGA
* * * * *
45737738 CCCAACAATGATGACTTTTACTGTTTGCATATTCTACCATCCCAAGTGG
1 CCCAACAATGATGGCTTTGAATATTTGCATATTCTACCATCCCAAGCGG
* ***
45737787 CCCAACAATGATGGCTTTGAATATTTGCATATTCTATCATCTTGAGCGG
1 CCCAACAATGATGGCTTTGAATATTTGCATATTCTACCATCCCAAGCGG
* *
45737836 CCTAACAATGATGGTTTTGAAT
1 CCCAACAATGATGGCTTTGAAT
45737858 CATTATTTCG
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 60 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.34
Consensus pattern (49 bp):
CCCAACAATGATGGCTTTGAATATTTGCATATTCTACCATCCCAAGCGG
Found at i:45738724 original size:20 final size:20
Alignment explanation
Indices: 45738681--45738720 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
45738671 GGTTAACATT
*
45738681 AGTTAATTATTAATTAGTTA
1 AGTTAATTATTAATTAATTA
45738701 AGTTAATTA-TAATTAATTA
1 AGTTAATTATTAATTAATTA
45738720 A
1 A
45738721 AGTTTAATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.47
Consensus pattern (20 bp):
AGTTAATTATTAATTAATTA
Found at i:45745014 original size:38 final size:38
Alignment explanation
Indices: 45744963--45745045 Score: 139
Period size: 38 Copynumber: 2.2 Consensus size: 38
45744953 AACCCTAATC
* * *
45744963 CCACCTATTCCACCACCTTTGTTGGTCACCCACCTTGG
1 CCACCTACTCCACCACCCTTGTTGGCCACCCACCTTGG
45745001 CCACCTACTCCACCACCCTTGTTGGCCACCCACCTTGG
1 CCACCTACTCCACCACCCTTGTTGGCCACCCACCTTGG
45745039 CCACCTA
1 CCACCTA
45745046 AACCACCCCA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.17, C:0.47, G:0.12, T:0.24
Consensus pattern (38 bp):
CCACCTACTCCACCACCCTTGTTGGCCACCCACCTTGG
Found at i:45746549 original size:5 final size:5
Alignment explanation
Indices: 45746539--45746566 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
45746529 TTGTGTGTTC
45746539 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
45746567 TTCACAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:45749116 original size:26 final size:26
Alignment explanation
Indices: 45749086--45749137 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
45749076 GCAAGAGGAG
** *
45749086 ATGGAATCACTTTGCAAAAATAAAAA
1 ATGGAATCACTTCACAAAAACAAAAA
*
45749112 ATGGAATTACTTCACAAAAACAAAAA
1 ATGGAATCACTTCACAAAAACAAAAA
45749138 CTGCATTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.56, C:0.13, G:0.10, T:0.21
Consensus pattern (26 bp):
ATGGAATCACTTCACAAAAACAAAAA
Found at i:45750970 original size:49 final size:48
Alignment explanation
Indices: 45750894--45751001 Score: 135
Period size: 49 Copynumber: 2.2 Consensus size: 48
45750884 GAACTTGTAC
* * * * *
45750894 ATTCAACCATCCGAATGACCCAACAATGATGACTTTTACTGTTTGCAT
1 ATTCTACCATCCCAATGACCCAACAATGATGACTTTGAATATTTGCAT
* *
45750942 ATTCTACCATCCCAAGTGGCCCAACAATGATGGCTTTGAATATTTGCAT
1 ATTCTACCATCCCAA-TGACCCAACAATGATGACTTTGAATATTTGCAT
*
45750991 ATTCTATCATC
1 ATTCTACCATC
45751002 TTGAGCGGCC
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
48 13 0.25
49 38 0.75
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (48 bp):
ATTCTACCATCCCAATGACCCAACAATGATGACTTTGAATATTTGCAT
Found at i:45751017 original size:49 final size:49
Alignment explanation
Indices: 45750912--45751031 Score: 141
Period size: 49 Copynumber: 2.4 Consensus size: 49
45750902 ATCCGAATGA
* * * * *
45750912 CCCAACAATGATGACTTTTACTGTTTGCATATTCTACCATCCCAAGTGG
1 CCCAACAATGATGGCTTTGAATATTTGCATATTCTACCATCCCAAGCGG
* ***
45750961 CCCAACAATGATGGCTTTGAATATTTGCATATTCTATCATCTTGAGCGG
1 CCCAACAATGATGGCTTTGAATATTTGCATATTCTACCATCCCAAGCGG
* *
45751010 CCTAACAATGATGGTTTTGAAT
1 CCCAACAATGATGGCTTTGAAT
45751032 CATTATTTCG
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 60 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.34
Consensus pattern (49 bp):
CCCAACAATGATGGCTTTGAATATTTGCATATTCTACCATCCCAAGCGG
Found at i:45751898 original size:20 final size:20
Alignment explanation
Indices: 45751855--45751894 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
45751845 GGTTAACATT
*
45751855 AGTTAATTATTAATTAGTTA
1 AGTTAATTATTAATTAATTA
45751875 AGTTAATTA-TAATTAATTA
1 AGTTAATTATTAATTAATTA
45751894 A
1 A
45751895 AGTTTAATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.47
Consensus pattern (20 bp):
AGTTAATTATTAATTAATTA
Found at i:45763021 original size:40 final size:40
Alignment explanation
Indices: 45762959--45763376 Score: 653
Period size: 40 Copynumber: 10.5 Consensus size: 40
45762949 AAGCCAAGTA
* * * *
45762959 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
45762998 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
45763038 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
45763078 CCTTCAGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
45763118 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
45763158 CCTTCAGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
45763198 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
45763238 CCTTCAGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
45763278 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
45763318 CCTTCGGGACTTAGTCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
45763358 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
45763377 TTATCATCCA
Statistics
Matches: 351, Mismatches: 25, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
39 13 0.04
40 338 0.96
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:45779492 original size:68 final size:68
Alignment explanation
Indices: 45779403--45779604 Score: 350
Period size: 68 Copynumber: 3.0 Consensus size: 68
45779393 CAATCAAATA
*
45779403 TCTTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGTAGATCTCCTTGAAGTTTCAGTGG
1 TCTTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
45779468 ATC
66 ATC
* *
45779471 TCTTTTCCCTGAAATGGCGTTGGAGTGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
1 TCTTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
45779536 ATC
66 ATC
* * *
45779539 TCTTCTCCCTGATATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAATGG
1 TCTTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
45779604 A
66 A
45779605 ATTGATTGAA
Statistics
Matches: 126, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 126 1.00
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.28
Consensus pattern (68 bp):
TCTTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
ATC
Found at i:45785452 original size:32 final size:32
Alignment explanation
Indices: 45785416--45785478 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
45785406 GTATGCATTT
*
45785416 TAGCATTTTAATAGTTAATAGATGATGGGCAA
1 TAGCATTTTAATAGTTAATAGATGAAGGGCAA
*
45785448 TAGCATTTTAATAGTTAATGGATGAAGGGCA
1 TAGCATTTTAATAGTTAATAGATGAAGGGCA
45785479 TGGTAAGCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.06, G:0.24, T:0.33
Consensus pattern (32 bp):
TAGCATTTTAATAGTTAATAGATGAAGGGCAA
Found at i:45788276 original size:129 final size:129
Alignment explanation
Indices: 45788045--45788280 Score: 285
Period size: 129 Copynumber: 1.8 Consensus size: 129
45788035 TACAAGCGTT
* ** ** ** *
45788045 GCTAAAGGTCACGTTCTTTAGCGACATTTTTGAGAAAAGTGTTGCTAAAGGTTATGTTCTTTAGT
1 GCTAAAGGTCACATTCTTTAGCGACATTTTTGAGAAAAGTGCCGCTAAAGGACACATTCTTTAGC
** * * * * *
45788110 GGTGTTTGTATGAAAAGCGCCGCTAAATGTTATGTTCTTTAGTGGTATTTGTATGAAAAGCGAC
66 GGCATTTGTATGAAAAGCACCACTAAAGGTCACGTTCTTTAGTGGTATTTGTATGAAAAGCGAC
* * *
45788174 GCTAAAGGTCACATTCTTTAGCGGCGTTTTTGAGAAAA-TCGCCGCTAAATGACACATTCTTTAG
1 GCTAAAGGTCACATTCTTTAGCGACATTTTTGAGAAAAGT-GCCGCTAAAGGACACATTCTTTAG
*
45788238 CGGCATTTGTGTGAAAAGCACCACTAAAGGTCACGTTCTTTAG
65 CGGCATTTGTATGAAAAGCACCACTAAAGGTCACGTTCTTTAG
45788281 CGACATTTTT
Statistics
Matches: 87, Mismatches: 19, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
128 1 0.01
129 86 0.99
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (129 bp):
GCTAAAGGTCACATTCTTTAGCGACATTTTTGAGAAAAGTGCCGCTAAAGGACACATTCTTTAGC
GGCATTTGTATGAAAAGCACCACTAAAGGTCACGTTCTTTAGTGGTATTTGTATGAAAAGCGAC
Found at i:45788281 original size:43 final size:43
Alignment explanation
Indices: 45788045--45788379 Score: 256
Period size: 43 Copynumber: 7.6 Consensus size: 43
45788035 TACAAGCGTT
* * * * **
45788045 GCTAAAGGTCACGTTCTTTAGCGACATTTTTGAGAAAAGTGTT
1 GCTAAAGGTCACGTTCTTTAGCGGCATTTGTGTGAAAAGCGCC
* * * ** *
45788088 GCTAAAGGTTATGTTCTTTAGTGGTGTTTGTATGAAAAGCGCC
1 GCTAAAGGTCACGTTCTTTAGCGGCATTTGTGTGAAAAGCGCC
* * * * * * *
45788131 GCTAAATGTTATGTTCTTTAGTGGTATTTGTATGAAAAGCGAC
1 GCTAAAGGTCACGTTCTTTAGCGGCATTTGTGTGAAAAGCGCC
* * * * *
45788174 GCTAAAGGTCACATTCTTTAGCGGCGTTTTTGAGAAAATCGCC
1 GCTAAAGGTCACGTTCTTTAGCGGCATTTGTGTGAAAAGCGCC
* * * *
45788217 GCTAAATGACACATTCTTTAGCGGCATTTGTGTGAAAAGCACC
1 GCTAAAGGTCACGTTCTTTAGCGGCATTTGTGTGAAAAGCGCC
* * * *
45788260 ACTAAAGGTCACGTTCTTTAGCGACATTTTTGAGAAAAGTGCCGCTAAAGAC
1 GCTAAAGGTCACGTTCTTTAGCGGCATTTGTGTGAAAA--G-CGC------C
* * * * *
45788312 GCTAAAGGACACATTCTTTAACGGCGTTTGTGTGAAAAGCGCA
1 GCTAAAGGTCACGTTCTTTAGCGGCATTTGTGTGAAAAGCGCC
45788355 GCTAAAGGTCACGTTCTTTAGCGGC
1 GCTAAAGGTCACGTTCTTTAGCGGC
45788380 GCTTTCTAAA
Statistics
Matches: 229, Mismatches: 54, Indels: 18
0.76 0.18 0.06
Matches are distributed among these distances:
43 191 0.83
45 1 0.00
46 2 0.01
49 3 0.01
50 1 0.00
52 31 0.14
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (43 bp):
GCTAAAGGTCACGTTCTTTAGCGGCATTTGTGTGAAAAGCGCC
Found at i:45788349 original size:52 final size:52
Alignment explanation
Indices: 45788261--45788361 Score: 121
Period size: 52 Copynumber: 1.9 Consensus size: 52
45788251 AAAAGCACCA
* * * * * *
45788261 CTAAAGGTCACGTTCTTTAGCGACATTTTTGAGAAAAGTGCCGCTAAAGACG
1 CTAAAGGACACATTCTTTAACGACATTTGTGAGAAAAGCGCAGCTAAAGACG
* * *
45788313 CTAAAGGACACATTCTTTAACGGCGTTTGTGTGAAAAGCGCAGCTAAAG
1 CTAAAGGACACATTCTTTAACGACATTTGTGAGAAAAGCGCAGCTAAAG
45788362 GTCACGTTCT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
52 40 1.00
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.26
Consensus pattern (52 bp):
CTAAAGGACACATTCTTTAACGACATTTGTGAGAAAAGCGCAGCTAAAGACG
Found at i:45790096 original size:69 final size:69
Alignment explanation
Indices: 45789985--45790113 Score: 215
Period size: 69 Copynumber: 1.9 Consensus size: 69
45789975 ATAAGTACTG
45789985 AAACAATTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTCAAACACTTCAATTTACAGC
1 AAACAATTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTCAAACACTTCAATTTACAGC
45790050 GTTC
66 GTTC
* * *
45790054 AAACACTTCAATTTGCAGCACTTTAA-CACTTCAATTTACAGCATTTAAACACTTCAATTT
1 AAACAATTCAATTTGCAACA-TTTAAGCACTTCAATTTACAGCATTCAAACACTTCAATTT
45790114 GTAGCACTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
69 51 0.91
70 5 0.09
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.33
Consensus pattern (69 bp):
AAACAATTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTCAAACACTTCAATTTACAGC
GTTC
Found at i:45790119 original size:23 final size:23
Alignment explanation
Indices: 45789985--45790113 Score: 170
Period size: 23 Copynumber: 5.6 Consensus size: 23
45789975 ATAAGTACTG
* * *
45789985 AAACAATTCAATTTGCAACATTT
1 AAACACTTCAATTTACAGCATTT
* *
45790008 AAGCACTTCAATTTACAGCATTC
1 AAACACTTCAATTTACAGCATTT
* *
45790031 AAACACTTCAATTTACAGCGTTC
1 AAACACTTCAATTTACAGCATTT
*
45790054 AAACACTTCAATTTGCAGCACTTT
1 AAACACTTCAATTTACAGCA-TTT
45790078 -AACACTTCAATTTACAGCATTT
1 AAACACTTCAATTTACAGCATTT
45790100 AAACACTTCAATTT
1 AAACACTTCAATTT
45790114 GTAGCACTTT
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
22 3 0.03
23 88 0.95
24 2 0.02
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.33
Consensus pattern (23 bp):
AAACACTTCAATTTACAGCATTT
Found at i:45790127 original size:23 final size:22
Alignment explanation
Indices: 45789986--45790135 Score: 149
Period size: 23 Copynumber: 6.5 Consensus size: 22
45789976 TAAGTACTGA
* * *
45789986 AACAATTCAATTTGCAACATTT
1 AACACTTCAATTTACAGCATTT
*
45790008 AAGCACTTCAATTTACAGCATTCA
1 AA-CACTTCAATTTACAGCATT-T
* *
45790032 AACACTTCAATTTACAGCGTTCA
1 AACACTTCAATTTACAGCATT-T
*
45790055 AACACTTCAATTTGCAGCACTTT
1 AACACTTCAATTTACAGCA-TTT
45790078 AACACTTCAATTTACAGCATTT
1 AACACTTCAATTTACAGCATTT
**
45790100 AAACACTTCAATTTGTAGCACTTT
1 -AACACTTCAATTTACAGCA-TTT
45790124 AACA-TCTCAATT
1 AACACT-TCAATT
45790136 AACAACACTT
Statistics
Matches: 111, Mismatches: 11, Indels: 11
0.83 0.08 0.08
Matches are distributed among these distances:
22 6 0.05
23 98 0.88
24 7 0.06
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (22 bp):
AACACTTCAATTTACAGCATTT
Found at i:45790145 original size:69 final size:70
Alignment explanation
Indices: 45789985--45790145 Score: 177
Period size: 69 Copynumber: 2.3 Consensus size: 70
45789975 ATAAGTACTG
* **
45789985 AAACAATTCAATTTGCAACA-TTTAAGCACTTCAATTTACAGCATTCAAACACTTCAATTTACAG
1 AAACACTTCAATTAACAACACTTTAAGCACTTCAATTTACAGCATTCAAACACTTCAATTTACAG
*
45790049 CGTTC
66 CCTTC
** * * **
45790054 AAACACTTCAATTTGCAGCACTTTAA-CACTTCAATTTACAGCATTTAAACACTTCAATTTGTAG
1 AAACACTTCAATTAACAACACTTTAAGCACTTCAATTTACAGCATTCAAACACTTCAATTTACAG
45790118 CACTT-
66 C-CTTC
*
45790123 TAACA-TCTCAATTAACAACACTT
1 AAACACT-TCAATTAACAACACTT
45790146 ATATACCTCA
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
68 1 0.01
69 71 0.90
70 7 0.09
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (70 bp):
AAACACTTCAATTAACAACACTTTAAGCACTTCAATTTACAGCATTCAAACACTTCAATTTACAG
CCTTC
Found at i:45790157 original size:46 final size:46
Alignment explanation
Indices: 45789986--45790158 Score: 127
Period size: 46 Copynumber: 3.8 Consensus size: 46
45789976 TAAGTACTGA
* ** * * * * *
45789986 AACAATTCAATTTGCAACATTTAAGCACTTCAATTTACAGCA-TTCA
1 AACACTTCAATTAACAACACTTAAACACCTCAATTTGCAGCACTT-T
* * * *
45790032 AACACTTCAATTTACAGC-GTTCAAACACTTCAATTTGCAGCACTTT
1 AACACTTCAATTAACAACACTT-AAACACCTCAATTTGCAGCACTTT
* * * * *
45790078 AACACTTCAATTTACAGCATTTAAACACTTCAATTTGTAGCACTTT
1 AACACTTCAATTAACAACACTTAAACACCTCAATTTGCAGCACTTT
* *
45790124 AACA-TCTCAATTAACAACACTTATATACCTCAATT
1 AACACT-TCAATTAACAACACTTAAACACCTCAATT
45790159 ACAACGATAT
Statistics
Matches: 108, Mismatches: 15, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
45 3 0.03
46 101 0.94
47 4 0.04
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.34
Consensus pattern (46 bp):
AACACTTCAATTAACAACACTTAAACACCTCAATTTGCAGCACTTT
Found at i:45790343 original size:19 final size:20
Alignment explanation
Indices: 45790302--45790343 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
45790292 TATATTGATA
* * *
45790302 AAAATATATTTATAAGTTTT
1 AAAATATATTTAAAAATTAT
45790322 AAAA-ATATTTAAAAATTAT
1 AAAATATATTTAAAAATTAT
45790341 AAA
1 AAA
45790344 TATTAAAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
AAAATATATTTAAAAATTAT
Found at i:45790637 original size:12 final size:10
Alignment explanation
Indices: 45790602--45790632 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
45790592 TTAAGAGTTA
*
45790602 TATAAATAAT
1 TATAAAAAAT
45790612 TATAAAAAAT
1 TATAAAAAAT
45790622 TATAAAAAAT
1 TATAAAAAAT
45790632 T
1 T
45790633 GTATATAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
TATAAAAAAT
Found at i:45791146 original size:25 final size:25
Alignment explanation
Indices: 45791041--45791140 Score: 164
Period size: 25 Copynumber: 4.0 Consensus size: 25
45791031 CAGAAAACTA
*
45791041 GAGAAGTAGCAGAGGGATGCCGACG
1 GAGATGTAGCAGAGGGATGCCGACG
45791066 GAGATGTAGCAGAGGGATGCCGACG
1 GAGATGTAGCAGAGGGATGCCGACG
*
45791091 GAGATGTAGCAGAGGGATGCCAACG
1 GAGATGTAGCAGAGGGATGCCGACG
* *
45791116 GAGATGTAGCAGAAGGCTGCCGACG
1 GAGATGTAGCAGAGGGATGCCGACG
45791141 ACGATGCGGA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 70 1.00
ACGTcount: A:0.30, C:0.17, G:0.42, T:0.11
Consensus pattern (25 bp):
GAGATGTAGCAGAGGGATGCCGACG
Found at i:45792911 original size:21 final size:21
Alignment explanation
Indices: 45792871--45792911 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
45792861 TCAGTTCGGC
* *
45792871 CTCTTTTGCTTTAAGTTCCTT
1 CTCTCTTGCTTTAAGATCCTT
*
45792892 CTCTCTTGCTTTTAGATCCT
1 CTCTCTTGCTTTAAGATCCT
45792912 AGATTTGCAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.27, G:0.10, T:0.54
Consensus pattern (21 bp):
CTCTCTTGCTTTAAGATCCTT
Found at i:45794581 original size:20 final size:18
Alignment explanation
Indices: 45794536--45794573 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
45794526 GAAAGGCTGA
*
45794536 GAAAGAAAAGGGAATTGG
1 GAAAGAAAAGGGAATGGG
45794554 GAAAGAAAAGGGAATCGGG
1 GAAAGAAAAGGGAAT-GGG
45794573 G
1 G
45794574 GAGAGAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.47, C:0.03, G:0.42, T:0.08
Consensus pattern (18 bp):
GAAAGAAAAGGGAATGGG
Found at i:45794628 original size:72 final size:72
Alignment explanation
Indices: 45794507--45794655 Score: 203
Period size: 72 Copynumber: 2.1 Consensus size: 72
45794497 TTCGGGTATA
* *
45794507 AAATAGAAGAACAGGTTGAGAAAGGCTGAGAAAGAAAAGGGAATTGGGAAAGAAAAGGGAA-T-C
1 AAATAGAAGAACAGGCTGAGAAAGGCTGAGAAAGAAAAGGGAATCGGGAAAG--AAGGGAATTGC
45794570 GGGGGAGAG
64 GGGGGAGAG
* * ** *
45794579 AAATAGAAGTACAGGCTGAGAATGGCTGAGAAAGAAATTGGAATCGGGAAAGAAGGGAATTGGGG
1 AAATAGAAGAACAGGCTGAGAAAGGCTGAGAAAGAAAAGGGAATCGGGAAAGAAGGGAATTGCGG
45794644 GGGAGAG
66 GGGAGAG
45794651 AAATA
1 AAATA
45794656 AAATGACATG
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
70 7 0.10
71 1 0.01
72 60 0.88
ACGTcount: A:0.45, C:0.05, G:0.38, T:0.12
Consensus pattern (72 bp):
AAATAGAAGAACAGGCTGAGAAAGGCTGAGAAAGAAAAGGGAATCGGGAAAGAAGGGAATTGCGG
GGGAGAG
Found at i:45795264 original size:7 final size:7
Alignment explanation
Indices: 45795240--45795273 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
45795230 ACCCTTCAAT
45795240 CATAATC
1 CATAATC
*
45795247 CATAAACC
1 CAT-AATC
45795255 CATAATC
1 CATAATC
45795262 CATAATC
1 CATAATC
45795269 CATAA
1 CATAA
45795274 ACCTTAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (7 bp):
CATAATC
Found at i:45795588 original size:24 final size:24
Alignment explanation
Indices: 45795560--45795608 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
45795550 CCAAAATAAC
45795560 AATTAATTTTTATATAAACTTTTA
1 AATTAATTTTTATATAAACTTTTA
45795584 AATTAATTTTTATATAAACTTTTA
1 AATTAATTTTTATATAAACTTTTA
45795608 A
1 A
45795609 TAAATATACG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (24 bp):
AATTAATTTTTATATAAACTTTTA
Found at i:45795611 original size:11 final size:12
Alignment explanation
Indices: 45795567--45795612 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
45795557 AACAATTAAT
45795567 TTTTATATAAAC
1 TTTTATATAAAC
* * *
45795579 TTTTAAATTAAT
1 TTTTATATAAAC
45795591 TTTTATATAAAC
1 TTTTATATAAAC
45795603 TTTTA-ATAAA
1 TTTTATATAAA
45795613 TATACGAGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
11 5 0.18
12 23 0.82
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTTATATAAAC
Found at i:45796332 original size:40 final size:40
Alignment explanation
Indices: 45796194--45796332 Score: 138
Period size: 41 Copynumber: 3.4 Consensus size: 40
45796184 GTTATATGAC
** *
45796194 TTTTAGTGGTGTTTTGACCATAAA-CGCCACTATTGCTCTAGT
1 TTTTAGTGGCATTTT-ACCA-AAAGCGCCACTATTGCT-TTGT
* * * *
45796236 TTTTAGCGGTATTTTACCAAAAGCGCCGCTAATGCTTTGTT
1 TTTTAGTGGCATTTTACCAAAAGCGCCACTATTGCTTTG-T
*
45796277 TTTTA-TAGGCATTTTACCAAAAGCGCCACTATTACTTTGT
1 TTTTAGT-GGCATTTTACCAAAAGCGCCACTATTGCTTTGT
*
45796317 TTTTAGTGGCGTTTTA
1 TTTTAGTGGCATTTTA
45796333 ACAATTTTTG
Statistics
Matches: 82, Mismatches: 11, Indels: 10
0.80 0.11 0.10
Matches are distributed among these distances:
40 19 0.23
41 50 0.61
42 13 0.16
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (40 bp):
TTTTAGTGGCATTTTACCAAAAGCGCCACTATTGCTTTGT
Found at i:45803435 original size:18 final size:18
Alignment explanation
Indices: 45803408--45803442 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
45803398 GATAAATCCT
45803408 AATCAAGGATTTACTCCC
1 AATCAAGGATTTACTCCC
*
45803426 AATCAGGGATTTACTCC
1 AATCAAGGATTTACTCC
45803443 TATATTAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (18 bp):
AATCAAGGATTTACTCCC
Found at i:45805113 original size:16 final size:17
Alignment explanation
Indices: 45805082--45805115 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
45805072 GTATCCTCTC
45805082 TGTAAACAACCTTTCCT
1 TGTAAACAACCTTTCCT
*
45805099 TGTAAA-AATCTTTCCT
1 TGTAAACAACCTTTCCT
45805115 T
1 T
45805116 TANNNNNNNN
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.41
Consensus pattern (17 bp):
TGTAAACAACCTTTCCT
Found at i:45817062 original size:20 final size:21
Alignment explanation
Indices: 45817037--45817079 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
45817027 ATTAAATAAT
45817037 AAATAATAATAA-TTA-AAATA
1 AAATAATAA-AATTTATAAATA
45817057 AAATAATAAAATTTATAAATA
1 AAATAATAAAATTTATAAATA
45817078 AA
1 AA
45817080 CTATTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 2 0.10
20 12 0.57
21 7 0.33
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
AAATAATAAAATTTATAAATA
Found at i:45817067 original size:13 final size:13
Alignment explanation
Indices: 45817025--45817068 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
45817015 CTTTATTTAT
*
45817025 AAATTAAATAAT-
1 AAATAAAATAATA
45817037 AAATAATAATAATTA
1 AAATAA-AATAA-TA
45817052 AAATAAAATAATA
1 AAATAAAATAATA
45817065 AAAT
1 AAAT
45817069 TTATAAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 5 0.18
13 11 0.39
14 6 0.21
15 6 0.21
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AAATAAAATAATA
Found at i:45820804 original size:278 final size:278
Alignment explanation
Indices: 45820307--45820848 Score: 1084
Period size: 278 Copynumber: 1.9 Consensus size: 278
45820297 TTTATCTGAC
45820307 TTATTATCTAGTGGCTCTTTATCCCAACCAAGGATGAACCACCACTATAACTCCATCTCTTCCTC
1 TTATTATCTAGTGGCTCTTTATCCCAACCAAGGATGAACCACCACTATAACTCCATCTCTTCCTC
45820372 TTTGTTAATCTCACTAATTAATAATTTCAAATCTTTCTATAATCATATATCTAACATATTTTTTA
66 TTTGTTAATCTCACTAATTAATAATTTCAAATCTTTCTATAATCATATATCTAACATATTTTTTA
45820437 ATTAATGCATAAAATTTGATTTGATATATTTTTAATTAAATAGATTATTTTACTAGATTTGGTTT
131 ATTAATGCATAAAATTTGATTTGATATATTTTTAATTAAATAGATTATTTTACTAGATTTGGTTT
45820502 TGTATTTTCTAGATTTTTTAGTAGCTCCAATTATTTTTATTTTTAAAGTGTACATTCATGTTGAT
196 TGTATTTTCTAGATTTTTTAGTAGCTCCAATTATTTTTATTTTTAAAGTGTACATTCATGTTGAT
45820567 GCTTCTAGGTGTCCTTAT
261 GCTTCTAGGTGTCCTTAT
45820585 TTATTATCTAGTGGCTCTTTATCCCAACCAAGGATGAACCACCACTATAACTCCATCTCTTCCTC
1 TTATTATCTAGTGGCTCTTTATCCCAACCAAGGATGAACCACCACTATAACTCCATCTCTTCCTC
45820650 TTTGTTAATCTCACTAATTAATAATTTCAAATCTTTCTATAATCATATATCTAACATATTTTTTA
66 TTTGTTAATCTCACTAATTAATAATTTCAAATCTTTCTATAATCATATATCTAACATATTTTTTA
45820715 ATTAATGCATAAAATTTGATTTGATATATTTTTAATTAAATAGATTATTTTACTAGATTTGGTTT
131 ATTAATGCATAAAATTTGATTTGATATATTTTTAATTAAATAGATTATTTTACTAGATTTGGTTT
45820780 TGTATTTTCTAGATTTTTTAGTAGCTCCAATTATTTTTATTTTTAAAGTGTACATTCATGTTGAT
196 TGTATTTTCTAGATTTTTTAGTAGCTCCAATTATTTTTATTTTTAAAGTGTACATTCATGTTGAT
45820845 GCTT
261 GCTT
45820849 TTTTAATGTT
Statistics
Matches: 264, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
278 264 1.00
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.46
Consensus pattern (278 bp):
TTATTATCTAGTGGCTCTTTATCCCAACCAAGGATGAACCACCACTATAACTCCATCTCTTCCTC
TTTGTTAATCTCACTAATTAATAATTTCAAATCTTTCTATAATCATATATCTAACATATTTTTTA
ATTAATGCATAAAATTTGATTTGATATATTTTTAATTAAATAGATTATTTTACTAGATTTGGTTT
TGTATTTTCTAGATTTTTTAGTAGCTCCAATTATTTTTATTTTTAAAGTGTACATTCATGTTGAT
GCTTCTAGGTGTCCTTAT
Found at i:45823848 original size:44 final size:44
Alignment explanation
Indices: 45823780--45823917 Score: 161
Period size: 44 Copynumber: 3.1 Consensus size: 44
45823770 TTATAGTAAG
* * ** * *
45823780 TTCAATCCAACCCACTGTGACTTCAGAGGTGTAGGATTTGTAGC
1 TTCATTCCAACCCATTGCAACTTCAGGGGTATAGGATTTGTAGC
* * *
45823824 CTCATTCCAACCCATTGCAACTTCAGGGGTATAGGAATTGTAAC
1 TTCATTCCAACCCATTGCAACTTCAGGGGTATAGGATTTGTAGC
**
45823868 TTCA-TCTTACTCCATTGCAACTTCAGGGGTATAGGATTTGTAGC
1 TTCATTCCAAC-CCATTGCAACTTCAGGGGTATAGGATTTGTAGC
45823912 TTCATT
1 TTCATT
45823918 TTGTTCCATT
Statistics
Matches: 78, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
43 4 0.05
44 73 0.94
45 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (44 bp):
TTCATTCCAACCCATTGCAACTTCAGGGGTATAGGATTTGTAGC
Found at i:45823926 original size:44 final size:44
Alignment explanation
Indices: 45823799--45824032 Score: 168
Period size: 44 Copynumber: 5.2 Consensus size: 44
45823789 ACCCACTGTG
* * * *** *
45823799 ACTTCAGAGGTGTAGGATTTGTAGCCTCATTCCAACCCATTGCA
1 ACTTCAGGGGTATAGGATTTGTAGCTTCATTTTGATCCATTGCA
* * *
45823843 ACTTCAGGGGTATAGGAATTGTAACTTCATCTT-ACTCCATTGCA
1 ACTTCAGGGGTATAGGATTTGTAGCTTCATTTTGA-TCCATTGCA
* *
45823887 ACTTCAGGGGTATAGGATTTGTAGCTTCATTTTGTTCCATTGTA
1 ACTTCAGGGGTATAGGATTTGTAGCTTCATTTTGATCCATTGCA
* * ** *
45823931 ACTTCA-GAG-AGTAGGATTCGCCATCGTAGTTTCATTCAGACCCATTGCA
1 ACTTCAGGGGTA-TAGGATT-----T-GTAGCTTCATTTTGATCCATTGCA
* * * * * *
45823980 ACTTTAGGGGTATAGGAATTATATCTTCATCTTGCTCCATTGCA
1 ACTTCAGGGGTATAGGATTTGTAGCTTCATTTTGATCCATTGCA
45824024 ACTTCAGGG
1 ACTTCAGGG
45824033 AGATAAGATT
Statistics
Matches: 146, Mismatches: 33, Indels: 22
0.73 0.16 0.11
Matches are distributed among these distances:
42 1 0.01
43 10 0.07
44 101 0.69
45 1 0.01
48 1 0.01
49 23 0.16
50 8 0.05
51 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.34
Consensus pattern (44 bp):
ACTTCAGGGGTATAGGATTTGTAGCTTCATTTTGATCCATTGCA
Found at i:45823994 original size:93 final size:94
Alignment explanation
Indices: 45823879--45824096 Score: 280
Period size: 93 Copynumber: 2.3 Consensus size: 94
45823869 TCATCTTACT
* * * * *
45823879 CCATTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATTTTGTTCCATTGTAACTTCAGAGAG-T
1 CCATTGCAACTTTAGGGGTATAGGAATTGTAGCTTCATCTTGCTCCATTGCAACTTCAGAGAGAT
* *
45823943 AGGATTCGCCATCGT-AGTTTCATT-CAGAC
66 AAGATTCACCAT-GTGAGTTTCATTCCA-AC
* * *
45823972 CCATTGCAACTTTAGGGGTATAGGAATTATATCTTCATCTTGCTCCATTGCAACTTCAGGGAGAT
1 CCATTGCAACTTTAGGGGTATAGGAATTGTAGCTTCATCTTGCTCCATTGCAACTTCAGAGAGAT
*
45824037 AAGATTCACCATTTGAGTTTCATTCCAAC
66 AAGATTCACCATGTGAGTTTCATTCCAAC
* *
45824066 CCACTGCAACTTTAGGGGTATAAGAATTGTA
1 CCATTGCAACTTTAGGGGTATAGGAATTGTA
45824097 TCTTTAATCC
Statistics
Matches: 108, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
93 56 0.52
94 50 0.46
95 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (94 bp):
CCATTGCAACTTTAGGGGTATAGGAATTGTAGCTTCATCTTGCTCCATTGCAACTTCAGAGAGAT
AAGATTCACCATGTGAGTTTCATTCCAAC
Found at i:45824082 original size:94 final size:93
Alignment explanation
Indices: 45823883--45824100 Score: 278
Period size: 94 Copynumber: 2.3 Consensus size: 93
45823873 CTTACTCCAT
* * * * * * *
45823883 TGCAACTTCAGGGGTATAGGATTTGTAGCTTCATTTTGTTCCATTGTAACTTCAGAGAGTAGGAT
1 TGCAACTTTAGGGGTATAGGAATTGTATCTTCATCTTGCTCCATTGCAACTTCAGAGAGTAAGAT
* *
45823948 TCGCCATCGTAGTTTCATTCAGACCCAT
66 TCACCATCGTAGTTTCATTCAGACCCAC
* *
45823976 TGCAACTTTAGGGGTATAGGAATTATATCTTCATCTTGCTCCATTGCAACTTCAGGGAGATAAGA
1 TGCAACTTTAGGGGTATAGGAATTGTATCTTCATCTTGCTCCATTGCAACTTCAGAGAG-TAAGA
*
45824041 TTCACCAT-TTGAGTTTCATTCCA-ACCCAC
65 TTCACCATCGT-AGTTTCATT-CAGACCCAC
*
45824070 TGCAACTTTAGGGGTATAAGAATTGTATCTT
1 TGCAACTTTAGGGGTATAGGAATTGTATCTT
45824101 TAATCCAATC
Statistics
Matches: 108, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
93 52 0.48
94 54 0.50
95 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (93 bp):
TGCAACTTTAGGGGTATAGGAATTGTATCTTCATCTTGCTCCATTGCAACTTCAGAGAGTAAGAT
TCACCATCGTAGTTTCATTCAGACCCAC
Found at i:45824145 original size:94 final size:95
Alignment explanation
Indices: 45823956--45824127 Score: 215
Period size: 94 Copynumber: 1.8 Consensus size: 95
45823946 ATTCGCCATC
* * * *** *
45823956 GTAGTTTCATT-CAGACCCATTGCAACTTTAGGGGTATAGGAATTATATCTTCATCTTGCTCCAT
1 GTAGTTTCATTCCA-ACCCACTGCAACTTTAGGGGTATAAGAATTATATCTTAATCTCAATCCAC
* *
45824020 TGCAACTTCAGGGAGATAAGATTCACCATTT
65 TGCAACTTCAAGAAGATAAGATTCACCATTT
*
45824051 G-AGTTTCATTCCAACCCACTGCAACTTTAGGGGTATAAGAATTGTATCTTTAATC-CAATCCAC
1 GTAGTTTCATTCCAACCCACTGCAACTTTAGGGGTATAAGAATTATATC-TTAATCTCAATCCAC
45824114 TGCAACTTCAAGAA
65 TGCAACTTCAAGAA
45824128 TATAGGATAT
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
94 57 0.88
95 8 0.12
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.33
Consensus pattern (95 bp):
GTAGTTTCATTCCAACCCACTGCAACTTTAGGGGTATAAGAATTATATCTTAATCTCAATCCACT
GCAACTTCAAGAAGATAAGATTCACCATTT
Found at i:45824182 original size:44 final size:44
Alignment explanation
Indices: 45824132--45824281 Score: 135
Period size: 44 Copynumber: 3.3 Consensus size: 44
45824122 CAAGAATATA
* *
45824132 GGATATAGGATTTGTAGCTTCAATCTGATCCACTGTAACTTTAG
1 GGATATAGGATTCGTAGCTTCAATCTGATCCACTGAAACTTTAG
* *
45824176 GGATATAGGATTCGTAGCTTC-ATCTTGCTCTACT-ACAACTTTAG
1 GGATATAGGATTCGTAGCTTCAATC-TGATCCACTGA-AACTTTAG
* *
45824220 GGAGATAAGATTCGCTATGGCAGATTCAATCTGA-CTCACTGAAACTTTAG
1 GGATATAGGATTCG-TA--GC---TTCAATCTGATC-CACTGAAACTTTAG
*
45824270 GGGTATAGGATT
1 GGATATAGGATT
45824282 TGTGGTTTTA
Statistics
Matches: 84, Mismatches: 11, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
43 3 0.04
44 47 0.56
45 2 0.02
47 2 0.02
49 1 0.01
50 25 0.30
51 4 0.05
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (44 bp):
GGATATAGGATTCGTAGCTTCAATCTGATCCACTGAAACTTTAG
Found at i:45830526 original size:24 final size:24
Alignment explanation
Indices: 45830459--45830526 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 24
45830449 AGAGCGTCCT
*
45830459 GTTATA-AGCTCTCAGGAGCTTCTC
1 GTTATATAGCTCT-TGGAGCTTCTC
* *
45830483 GTTATATGGTTCTTGCGAGCTTCTC
1 GTTATATAGCTCTTG-GAGCTTCTC
45830508 GTTA-ATAGCTCTTTGGAGC
1 GTTATATAGCTC-TTGGAGC
45830527 ATCTTGATTG
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
24 16 0.44
25 20 0.56
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.38
Consensus pattern (24 bp):
GTTATATAGCTCTTGGAGCTTCTC
Found at i:45830735 original size:24 final size:25
Alignment explanation
Indices: 45830708--45830765 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
45830698 TTGTATGATA
* *
45830708 TTCCCGTTA-ATGGCTCTC-CGAAGT
1 TTCCCGTTACATGGCTCACACG-AGC
*
45830732 TTCCCATTACATGGCTCACACGAGC
1 TTCCCGTTACATGGCTCACACGAGC
45830757 TTCCCGTTA
1 TTCCCGTTA
45830766 TAAGGCTCGA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 8 0.29
25 18 0.64
26 2 0.07
ACGTcount: A:0.19, C:0.33, G:0.17, T:0.31
Consensus pattern (25 bp):
TTCCCGTTACATGGCTCACACGAGC
Found at i:45831268 original size:16 final size:16
Alignment explanation
Indices: 45831247--45831285 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
45831237 AAAGTACTTC
*
45831247 GGAAGCTCGTTGGGTT
1 GGAAGCTCATTGGGTT
45831263 GGAAGCTCATTGGGTT
1 GGAAGCTCATTGGGTT
45831279 GGAAGCT
1 GGAAGCT
45831286 TGGTGGAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.18, C:0.13, G:0.41, T:0.28
Consensus pattern (16 bp):
GGAAGCTCATTGGGTT
Found at i:45831659 original size:5 final size:5
Alignment explanation
Indices: 45831649--45831680 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
45831639 TTAAGATATG
45831649 ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA AT
1 ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA AT
45831681 GAAAAAGGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATTAA
Found at i:45832120 original size:21 final size:22
Alignment explanation
Indices: 45832091--45832135 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
45832081 GATAAATAAA
*
45832091 TAAATAAATGAAATAAAAAGAC
1 TAAATAAATAAAATAAAAAGAC
*
45832113 TAAA-AAATAAAATAAAAATAC
1 TAAATAAATAAAATAAAAAGAC
45832134 TA
1 TA
45832136 TGCTAGCGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.20
Consensus pattern (22 bp):
TAAATAAATAAAATAAAAAGAC
Found at i:45832415 original size:19 final size:20
Alignment explanation
Indices: 45832379--45832430 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 20
45832369 AATCAATTTT
* *
45832379 AAATATTAAA-AAAGTAAAG
1 AAATAATAAATAAAGTAAAC
*
45832398 GAATAATAAATAAA-TAAAC
1 AAATAATAAATAAAGTAAAC
*
45832417 AAATAATAGATAAA
1 AAATAATAAATAAA
45832431 ATAATATATA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 24 0.89
20 3 0.11
ACGTcount: A:0.69, C:0.02, G:0.08, T:0.21
Consensus pattern (20 bp):
AAATAATAAATAAAGTAAAC
Found at i:45835824 original size:54 final size:54
Alignment explanation
Indices: 45835742--45836587 Score: 1640
Period size: 54 Copynumber: 15.7 Consensus size: 54
45835732 GTGACGAAGT
* * *
45835742 CACCAGATACAGAT-ATTGTGGCATAGCCACCAGAACAAATATATGTGGCAGAGC
1 CACCAAAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
45835796 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAAATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
45835850 CACCAAATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAAATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
45835904 CACCAAATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAAATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
45835958 CACCAAATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAAATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
45836012 CACCAAATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAAATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
45836066 CACCAAATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAAATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
45836120 CACCAAATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAAATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
45836174 CACCAAATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAAATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
45836228 CACCAAATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAAATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
45836282 CACCAAATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAAATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
45836336 CACCAAATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAAATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
45836390 CACCAAATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAAATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
45836444 CACCAAATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAAATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
45836498 CACCAAATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAAATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
45836552 CACCAAATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAAATCAGATAATTGTGGCATAGCCACCAGGAC
45836588 GCTTCCTCCA
Statistics
Matches: 788, Mismatches: 3, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
53 5 0.01
54 783 0.99
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.18
Consensus pattern (54 bp):
CACCAAATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:45838216 original size:26 final size:26
Alignment explanation
Indices: 45838182--45838289 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
45838172 TGAAATGCCC
* *
45838182 ATCACGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
45838208 ATCATGGAACATTGACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
45838234 ATCATGAAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
45838260 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
45838286 ATCA
1 ATCA
45838290 ATTTGTACCA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.37, C:0.25, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:45845530 original size:44 final size:45
Alignment explanation
Indices: 45845451--45845542 Score: 168
Period size: 44 Copynumber: 2.1 Consensus size: 45
45845441 TCAAACTTGA
*
45845451 TATAATGTTAGTGCCAAAAAAAATTCATAAACCATTGCAGACATG
1 TATAATGCTAGTGCCAAAAAAAATTCATAAACCATTGCAGACATG
45845496 TATAATGCTAGTGCC-AAAAAAATTCATAAACCATTGCAGACATG
1 TATAATGCTAGTGCCAAAAAAAATTCATAAACCATTGCAGACATG
45845540 TAT
1 TAT
45845543 GAAAATTGCT
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 32 0.70
45 14 0.30
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.27
Consensus pattern (45 bp):
TATAATGCTAGTGCCAAAAAAAATTCATAAACCATTGCAGACATG
Found at i:45853751 original size:247 final size:247
Alignment explanation
Indices: 45853315--45853808 Score: 819
Period size: 247 Copynumber: 2.0 Consensus size: 247
45853305 CATATACGGG
* *
45853315 TCGATCCCCAACAATTCAGAAGTTTCCATTTAAGTCATTGGGCTATTAAAAACGCTCCTATATGG
1 TCGATCCCCAACAATTCAAAAGTTTCCATTTAAGTCATTGGACTATTAAAAACGCTCCTATATGG
*
45853380 CCTTCTCCATTTGCATCGCTTGCACCAATAAAAAGCTCTCTTTCCCCTTCTCTTTTACATTTCAG
66 CCTTCTCCATTTGCATCGCTTGCACCAATAAAAAGCTCTCTTTCCCCTTCTATTTTACATTTCAG
* *
45853445 TTTTTTCATGAAATAACTTTGAACGTCACTAATCTGCAAACCAAAATCCAAACAGTTTTCTTCTT
131 TTTTTTCATGAAATAACTTTGAACGCCACTAATCTACAAACCAAAATCCAAACAGTTTTCTTCTT
45853510 TGATCTCCAACACAGATCATCAGTTTGACTTGGATCTAACATATGTTCTTCT
196 TGATCTCCAACACAGATCATCAGTTTGACTTGGATCTAACATATGTTCTTCT
* * * *
45853562 TCGATCCCCAACAATTCAAAAGTTTTCATTTAAGTTATTGGATTGTTAAAAACGCTCCTATATGG
1 TCGATCCCCAACAATTCAAAAGTTTCCATTTAAGTCATTGGACTATTAAAAACGCTCCTATATGG
*
45853627 CCTTCTCCATTTGCATCGCTTGCACCAATAAAAAGCTCTCATTT-CCCTTCTATTTTACATTTTA
66 CCTTCTCCATTTGCATCGCTTGCACCAATAAAAAGCTCTC-TTTCCCCTTCTATTTTACATTTCA
* * *
45853691 GTTTTTTTATGAAATAACTTTGAACGCCACTACTCTACAAACTAAAATCCAAACAGTTTTCTTCT
130 GTTTTTTCATGAAATAACTTTGAACGCCACTAATCTACAAACCAAAATCCAAACAGTTTTCTTCT
* * * *
45853756 TTGATCTTCGACACAGATCATTAGTTTGACTTGGATCTAACGTATGTTCTTCT
195 TTGATCTCCAACACAGATCATCAGTTTGACTTGGATCTAACATATGTTCTTCT
45853809 ACTCGTCGAT
Statistics
Matches: 229, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
247 226 0.99
248 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (247 bp):
TCGATCCCCAACAATTCAAAAGTTTCCATTTAAGTCATTGGACTATTAAAAACGCTCCTATATGG
CCTTCTCCATTTGCATCGCTTGCACCAATAAAAAGCTCTCTTTCCCCTTCTATTTTACATTTCAG
TTTTTTCATGAAATAACTTTGAACGCCACTAATCTACAAACCAAAATCCAAACAGTTTTCTTCTT
TGATCTCCAACACAGATCATCAGTTTGACTTGGATCTAACATATGTTCTTCT
Found at i:45861364 original size:106 final size:107
Alignment explanation
Indices: 45861196--45861396 Score: 377
Period size: 106 Copynumber: 1.9 Consensus size: 107
45861186 TGTAAAAAAT
45861196 AAACACTCAACACTCAAAAATAAAAGTTAGCAAACCTCACCATTAATCACTCAAAAAG-AAAAAT
1 AAACACTCAACACTCAAAAATAAAAGTTAGCAAACCTCACCATTAATCACTCAAAAAGAAAAAAT
45861260 CAAATTCTCAATGAGGTCGAATTCAATCTTTAAAACCTGCAA
66 CAAATTCTCAATGAGGTCGAATTCAATCTTTAAAACCTGCAA
* *
45861302 AAACACTCAACACTCAAAAATAAAAGTTATCAAACCTCACCGTTAATCACTCAAAAAGAAAAAAT
1 AAACACTCAACACTCAAAAATAAAAGTTAGCAAACCTCACCATTAATCACTCAAAAAGAAAAAAT
45861367 CAAATTCTCAATGAGGTCGAATTCAATCTT
66 CAAATTCTCAATGAGGTCGAATTCAATCTT
45861397 GTGAGTTCTT
Statistics
Matches: 92, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
106 56 0.61
107 36 0.39
ACGTcount: A:0.48, C:0.22, G:0.07, T:0.22
Consensus pattern (107 bp):
AAACACTCAACACTCAAAAATAAAAGTTAGCAAACCTCACCATTAATCACTCAAAAAGAAAAAAT
CAAATTCTCAATGAGGTCGAATTCAATCTTTAAAACCTGCAA
Found at i:45864939 original size:153 final size:153
Alignment explanation
Indices: 45864727--45867298 Score: 3256
Period size: 153 Copynumber: 16.8 Consensus size: 153
45864717 AAGATAAATT
* * *
45864727 TTTGAGAACTTATAGCTTAACCCGATCGATTCATGCAACTAGCTAATAAATATAGCAATTAGACT
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGACT
* * * * * * * *
45864792 TTCCCTAAATCTTAATTTATTACC-ATTTTATTAAAAAAAATAAACCATCGCCAATAAAATCAAG
66 TCCCCTTAATCTCAAATTATTACCTCTTTTATT-AAAAATATAAACCATCACCAACAAAATCAAG
* *
45864856 ATTAATGTGCTGCTACTATGTGTC
130 ATTAATGTGCTGCTAATATGCGTC
* * ** * *
45864880 TTTGAGAACTTATAGCTTAACTTGATCAACACATGCAACTAGCTAATAAATATAGCAATTGGGCT
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGACT
* * * *
45864945 TCCCCTTAATCTTAAAGTATTACATCTTTTATTAAAAATATAAACCATCACCCACAAAATCAAGA
66 TCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCAACAAAATCAAGA
** * * *
45865010 TTAATGTAATACTAATATTCATC
131 TTAATGTGCTGCTAATATGCGTC
* * * * *
45865033 TTTGAGAATTTATAGCTTAACTCGATTGATTCATGCAACTAGCTAATAAATATTGCAATTGAACT
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGACT
* * * * *
45865098 TCCCATTCATCTCAAATTATTTCCTCTTTTATTAAAAATATAAACTATC-GCAGACAAAATCAAG
66 TCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCA-ACAAAATCAAG
* *
45865162 ATTAACGTG-T-CATTAATATTCGTC
130 ATTAATGTGCTGC--TAATATGCGTC
* * * * *
45865186 TTTGAGAACTTATAGCTTAAATCGATCGATTC-T-C-AGTTGCTTAATAAATAATA-CAATTGAA
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGC-TAATAAAT-ATAGCAGTTGGA
* * * *
45865247 CTTCCCCTTATTCTAAAATTATTACCTCTTTTATT-AAAATAAAAACCATCACCCACAAAATCAA
64 CTTCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCAACAAAATCAA
*
45865311 GATTAATGTGCTTCTAATATGCGTC
129 GATTAATGTGCTGCTAATATGCGTC
* * *
45865336 TTTGAGAACTTATAGCTTAACTTGATTGATTCATGCAACTAACTAATAAATATAGCAGTTGGACT
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGACT
* * *
45865401 T-CCCTTAATCTCAAATTATTACCACTTTTATTAAAAATGTAAACCATCACCAACAAAATTAAGA
66 TCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCAACAAAATCAAGA
* *
45865465 TTAATGTGCTGCTCATATGTGTC
131 TTAATGTGCTGCTAATATGCGTC
* ** * * * *
45865488 TTTGAGAAATTATAGCTTAACTTAATTGATTCATGCAAATAGCTAATAAATATTGCAATT-GATC
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGA-C
* * * *
45865552 TTTCCCTTAATCTCAAATTATTTCCTCTTTTATTAAAAATATAAACTATC-GCAGACAAAATCAA
65 TTCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCA-ACAAAATCAA
* * * *
45865616 GATTAATGTGCTTCTAACATGTGTT
129 GATTAATGTGCTGCTAATATGCGTC
* * * * **
45865641 TTTTAGAACTTATAGCTTAACTTGATCGATTCATGCAACAAGGTAATAAATATAATAGTTGGACT
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGACT
* ***
45865706 TCCCCTTAATCTCAAATTATCACCTCTTTTATTAAAAATATAAACCATCATTGACAAAATCAAGA
66 TCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCAACAAAATCAAGA
45865771 TTAATGTGCTGCTAATATGCGTC
131 TTAATGTGCTGCTAATATGCGTC
* * *
45865794 TTTGAGAACTTATAGCTTAATTCGATCGATACATGCAACTAGCTAATAAATATAGTAGTTGGACT
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGACT
* *
45865859 TCCCCTTAATCTCAAAGTATTACCTCTTTTATTAAAAATATAAACCATCACCCACAAAATCAAGA
66 TCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCAACAAAATCAAGA
* * * *
45865924 TTAATGTACTACTAATATACATC
131 TTAATGTGCTGCTAATATGCGTC
* * * * *
45865947 TTTAAGAACTTATAGCTTAACTCGATCGATTCGTACAACTTGCTAATAAACATAGCAGTTGGACT
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGACT
* * *
45866012 TCCCCTTAATATCAAATTATTACCTCTTTTATTAAAAATATAAACCATCGA-CGACAAAATCAAT
66 TCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATC-ACCAACAAAATCAAG
* * *
45866076 ATTAATGTGCTGTTAATATACATC
130 ATTAATGTGCTGCTAATATGCGTC
* *
45866100 TTTGAGAACTTATAGCTTAACTCGGTCGATTCATGCAACTAGCTAATAAATATAACAGTTGGACT
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGACT
* * * * *
45866165 TCCGCTTAATCTCAAATTATTACCTTTTTTATTAAAAGTATAAACTATCACCCACAAAATCAAGA
66 TCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCAACAAAATCAAGA
* * * *
45866230 TTAATATACTACTAATATGCATC
131 TTAATGTGCTGCTAATATGCGTC
* * *
45866253 TTTGAGAAAC-TATAGCTTAACTCGATCAATTCATGCATCTAGCTAATAAATATAGCTGTTGGAC
1 TTTGAG-AACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGAC
* * *
45866317 TTCCCCTTGATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCAACGACAAAAATCAA
65 TTCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCAAC-AAAATCAA
* * *
45866382 GATTAATGTGCTGTTAATATGCATA
129 GATTAATGTGCTGCTAATATGCGTC
* *
45866407 TTTGAGAACTTATAGCTTAACTCGATCGATTGATGCAACTAGCTAATAAATATAACAGTTGGACT
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGACT
* * *
45866472 TCCCCTTAATCTCTAATTATTACCTCTTTTATTAAAAATATAAACCATCGA-CGAGAAAATC-AG
66 TCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATC-ACCAACAAAATCAAG
*
45866535 TATTAATGTGCTGCTAATATGCGTA
130 -ATTAATGTGCTGCTAATATGCGTC
** * * * *
45866560 TTTTTGAACTTATAGCTTAACTCAATCAATTCATGCAACTAGCTAATAAATATAACAATTGGACT
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGACT
*
45866625 TCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATTGA-CAACAAAAATCAA
66 TCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCA-TCACCAAC-AAAATCAA
*
45866689 GATTAATGTGCTGCTAATATGCATC
129 GATTAATGTGCTGCTAATATGCGTC
* * *
45866714 TTTGAGAACTTATAGCTTAACTCGATCAATTCATGCAACTAGCTAAAAAATATAGCAGTTGAACT
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGACT
* * *
45866779 TCCCCTTAATCTCAAATTATTACCT-TTCTTATTAAAAAAAATAAACCATCGCCGACAAAATCAA
66 TCCCCTTAATCTCAAATTATTACCTCTT-TTATT-AAAAATATAAACCATCACCAACAAAATCAA
* ** *
45866843 GATTAAGGTATTGCTAATATGTGTC
129 GATTAATGTGCTGCTAATATGCGTC
* * * * * *
45866868 TTTGAGAACCTATAGCTTAACTCGACCAATACATGTAGCTAGCTAATAAATATAGCAGTTGGACT
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGACT
* * * * *
45866933 TCCCTTTACTCTCAAAGTATTACCTATTTTATTAAAAATATAAACCATCACCCACAAAATCAAGA
66 TCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCAACAAAATCAAGA
* *
45866998 TTAATGTACTACTAATATGCGTC
131 TTAATGTGCTGCTAATATGCGTC
* * *
45867021 TTTGAAAACTTATAGCTTAACTCGATTGATTCATGCAACTAGCTAATAAATATAGTAGTTGGACT
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGACT
* *
45867086 TCCCTTTAATCTCAACTTATTACCTCTTTTATTAAAAATATAAACCATCACCCAA-AAAATCAAG
66 TCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCA-CCAACAAAATCAAG
* *
45867150 ATTAATGTGTTGCTAATATGCATC
130 ATTAATGTGCTGCTAATATGCGTC
* * * * *
45867174 TTTGAGAACTTATAGCTTAACTTGATCGATTCATGCAATTAGATAAAAAATATAGTAGTTGGACT
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGACT
* * * **
45867239 TCCCCTTAATCTCAAAGTATTAACTCTTTTATTAAAAAAATAAACCATCACTGACAAAAT
66 TCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCAACAAAAT
45867299 TGTAACAACC
Statistics
Matches: 2113, Mismatches: 271, Indels: 70
0.86 0.11 0.03
Matches are distributed among these distances:
150 75 0.04
151 84 0.04
152 135 0.06
153 1417 0.67
154 381 0.18
155 21 0.01
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.34
Consensus pattern (153 bp):
TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGACT
TCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCAACAAAATCAAGA
TTAATGTGCTGCTAATATGCGTC
Found at i:45867459 original size:12 final size:12
Alignment explanation
Indices: 45867442--45867471 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
45867432 TAATTTTAGC
45867442 AATTGCATGCTT
1 AATTGCATGCTT
45867454 AATTGCATGCTT
1 AATTGCATGCTT
45867466 AATTGC
1 AATTGC
45867472 GAAAAAGGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.40
Consensus pattern (12 bp):
AATTGCATGCTT
Found at i:45868591 original size:48 final size:48
Alignment explanation
Indices: 45868516--45868839 Score: 271
Period size: 48 Copynumber: 6.8 Consensus size: 48
45868506 TGATATGTGT
* * * *
45868516 GCTAGTGTAAGACCATGTT-TGGAACATGGCATTGGCATTGAGACGAGA
1 GCTAGTGTAAGACCAT-TTCTGGGACATGGCATCGGCATTGACATGAGA
* * * * * *
45868564 GCTAGAGTAAGACCATTTCTGGGACATGGCATCAGCCTCGACATGTGG
1 GCTAGTGTAAGACCATTTCTGGGACATGGCATCGGCATTGACATGAGA
* * * * * **
45868612 GCCAGTGTAAAACCATGTT-TGGAATATGGCATCGGCATTGAGACCAGA
1 GCTAGTGTAAGACCAT-TTCTGGGACATGGCATCGGCATTGACATGAGA
* * * * ** *
45868660 GCTAGTGTAAAACCATGTCTGGGACATGGCATCAGCCTCAACATGTGA
1 GCTAGTGTAAGACCATTTCTGGGACATGGCATCGGCATTGACATGAGA
* * * * *
45868708 GCCAGTGTAAGACCATGTT-TGGAACATGGCATCAGCATTGAGAAGAGA
1 GCTAGTGTAAGACCAT-TTCTGGGACATGGCATCGGCATTGACATGAGA
* * *
45868756 GCTA-TGTAAGACTATGTCTGGGACATGGCATCGGCCTTGACATGTA-A
1 GCTAGTGTAAGACCATTTCTGGGACATGGCATCGGCATTGACATG-AGA
* *
45868803 GATAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 GCTAGTGTAAGACCATTTCTGGGACATGGCATCGGCA
45868840 ATTTACCCTC
Statistics
Matches: 213, Mismatches: 56, Indels: 14
0.75 0.20 0.05
Matches are distributed among these distances:
46 1 0.00
47 38 0.18
48 171 0.80
49 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (48 bp):
GCTAGTGTAAGACCATTTCTGGGACATGGCATCGGCATTGACATGAGA
Found at i:45868652 original size:96 final size:96
Alignment explanation
Indices: 45868510--45868839 Score: 464
Period size: 96 Copynumber: 3.4 Consensus size: 96
45868500 TTTGGGTGAT
* * * *
45868510 ATGTGTGCTAGTGTAAGACCATGTTTGGAACATGGCATTGGCATTGAGACGAGAGCTAGAGTAAG
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAG
*
45868575 ACCATTTCTGGGACATGGCATCAGCCTCGAC
66 ACCATGTCTGGGACATGGCATCAGCCTCGAC
* * * * *
45868606 ATGTGGGCCAGTGTAAAACCATGTTTGGAATATGGCATCGGCATTGAGACCAGAGCTAGTGTAAA
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAG
*
45868671 ACCATGTCTGGGACATGGCATCAGCCTCAAC
66 ACCATGTCTGGGACATGGCATCAGCCTCGAC
* *
45868702 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCAGCATTGAGAAGAGAGCTA-TGTAAG
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAG
* * *
45868766 ACTATGTCTGGGACATGGCATCGGCCTTGAC
66 ACCATGTCTGGGACATGGCATCAGCCTCGAC
* ** * *
45868797 ATGTAAGATAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCA
45868840 ATTTACCCTC
Statistics
Matches: 207, Mismatches: 27, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
95 69 0.33
96 138 0.67
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (96 bp):
ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAG
ACCATGTCTGGGACATGGCATCAGCCTCGAC
Done.