Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 179 of 378
Found at i:52213388 original size:18 final size:17
Alignment explanation
Indices: 52213352--52213484 Score: 185
Period size: 18 Copynumber: 7.5 Consensus size: 17
52213342 AATCATATCT
52213352 TCTAAGATTGTATATCATA
1 TCTAAGATTG-A-ATCATA
52213371 TCTAAGATTGCAATCATA
1 TCTAAGATTG-AATCATA
*
52213389 TCTAAGATTGTATCATA
1 TCTAAGATTGAATCATA
52213406 TCTAAGATTGCAATCATA
1 TCTAAGATTG-AATCATA
*
52213424 TCTAAGATTGTATCATA
1 TCTAAGATTGAATCATA
52213441 TCTAAGATTGCAATCATA
1 TCTAAGATTG-AATCATA
* *
52213459 TTTAAGATTGTATCATA
1 TCTAAGATTGAATCATA
52213476 TCTAAGATT
1 TCTAAGATT
52213485 ACATATCATT
Statistics
Matches: 104, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
17 46 0.44
18 47 0.45
19 11 0.11
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (17 bp):
TCTAAGATTGAATCATA
Found at i:52213410 original size:35 final size:35
Alignment explanation
Indices: 52213352--52213493 Score: 239
Period size: 35 Copynumber: 4.0 Consensus size: 35
52213342 AATCATATCT
52213352 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
52213389 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
52213424 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* *
52213459 TTTAAGATTGTATCATATCTAAGATTACATATCAT
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCAT
52213494 TGAAGATTAT
Statistics
Matches: 102, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
35 87 0.85
36 5 0.05
37 10 0.10
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:52222450 original size:44 final size:44
Alignment explanation
Indices: 52222378--52222508 Score: 147
Period size: 44 Copynumber: 3.0 Consensus size: 44
52222368 ATTACATGTA
* * *
52222378 TCGCATCCATAATGAACTCAAACAAACTCAACGAGCTCAGATGC
1 TCGCATCCATAATGAACTTAGACCAACTCAACGAGCTCAGATGC
* *
52222422 TCGCATCCATAATGAACTTGGACCAACTCAACGAGCTCGGATGC
1 TCGCATCCATAATGAACTTAGACCAACTCAACGAGCTCAGATGC
* * * * *
52222466 -CTCATACATATCACGAACCTAGACCAACTCAACGAGTTCAGAT
1 TCGCATCCATA--ATGAACTTAGACCAACTCAACGAGCTCAGAT
52222509 TTTTAAATTC
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
43 8 0.11
44 39 0.53
45 26 0.36
ACGTcount: A:0.35, C:0.30, G:0.15, T:0.20
Consensus pattern (44 bp):
TCGCATCCATAATGAACTTAGACCAACTCAACGAGCTCAGATGC
Found at i:52225825 original size:40 final size:40
Alignment explanation
Indices: 52225781--52225896 Score: 214
Period size: 40 Copynumber: 2.9 Consensus size: 40
52225771 AGATATAGCT
*
52225781 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
*
52225821 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
52225861 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
52225897 CATCCGAATA
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 73 1.00
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.27
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:52230457 original size:24 final size:24
Alignment explanation
Indices: 52230430--52230496 Score: 116
Period size: 24 Copynumber: 2.8 Consensus size: 24
52230420 CTTATTATGT
*
52230430 TCGCACACATAGTGCCATAGCGAA
1 TCGCACACATAGTGCCATAGCAAA
*
52230454 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGCAAA
52230478 TCGCACACATAGTGCCATA
1 TCGCACACATAGTGCCATA
52230497 TATTTCCAGC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.34, C:0.28, G:0.18, T:0.19
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGCAAA
Found at i:52230521 original size:29 final size:29
Alignment explanation
Indices: 52230479--52230581 Score: 188
Period size: 29 Copynumber: 3.6 Consensus size: 29
52230469 CATAGTAAAT
52230479 CGCACACATAGTGCCATATATTTCCAGCA
1 CGCACACATAGTGCCATATATTTCCAGCA
52230508 CGCACACATAGTGCCATATATTTCCAGCA
1 CGCACACATAGTGCCATATATTTCCAGCA
*
52230537 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACATAGTGCCATATATTTCCAGCA
*
52230566 CGCACACTTAGTGCCA
1 CGCACACATAGTGCCA
52230582 ACCTCGTCAC
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
29 73 1.00
ACGTcount: A:0.29, C:0.32, G:0.15, T:0.24
Consensus pattern (29 bp):
CGCACACATAGTGCCATATATTTCCAGCA
Found at i:52238222 original size:24 final size:24
Alignment explanation
Indices: 52238195--52238357 Score: 290
Period size: 24 Copynumber: 6.8 Consensus size: 24
52238185 CTTATTATGT
**
52238195 TCGCACACATAGTGCCATAGCGAA
1 TCGCACACATAGTGCCATAGTAAA
52238219 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
52238243 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
**
52238267 TCGCACACATAGTGCCATAGTGGA
1 TCGCACACATAGTGCCATAGTAAA
52238291 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
52238315 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
52238339 TCGCACACATAGTGCCATA
1 TCGCACACATAGTGCCATA
52238358 TATTTCCAGC
Statistics
Matches: 133, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 133 1.00
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.20
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:52238382 original size:29 final size:29
Alignment explanation
Indices: 52238340--52238413 Score: 130
Period size: 29 Copynumber: 2.6 Consensus size: 29
52238330 CATAGTAAAT
*
52238340 CGCACACATAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
52238369 CGCACACTTAGTGCCATATCTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
52238398 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
52238414 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.34, G:0.15, T:0.24
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:52245159 original size:40 final size:40
Alignment explanation
Indices: 52245104--52245313 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
52245094 AACATTGGAA
52245104 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
52245144 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
52245184 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
52245224 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
52245263 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
52245304 CTATATCCGG
1 ATATATCCGG
52245314 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:52253270 original size:40 final size:40
Alignment explanation
Indices: 52253215--52253424 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
52253205 AACATTGGAA
52253215 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
52253255 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
52253295 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
52253335 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
52253374 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
52253415 CTATATCCGG
1 ATATATCCGG
52253425 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:52255816 original size:44 final size:44
Alignment explanation
Indices: 52255750--52255835 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 44
52255740 TACATGTATT
* *
52255750 GCATCCATAATAGACTCGGACCAACTCAACAAGCTCGGATGCTC
1 GCATCCACAATAGACTCAGACCAACTCAACAAGCTCGGATGCTC
* * *
52255794 GCATCCACAAT-GAACTCAGACCAATTCACCGAGCTCGGATGC
1 GCATCCACAATAG-ACTCAGACCAACTCAACAAGCTCGGATGC
52255836 ATCATACATA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
43 1 0.03
44 35 0.97
ACGTcount: A:0.31, C:0.33, G:0.19, T:0.17
Consensus pattern (44 bp):
GCATCCACAATAGACTCAGACCAACTCAACAAGCTCGGATGCTC
Found at i:52257399 original size:49 final size:49
Alignment explanation
Indices: 52257335--52257566 Score: 214
Period size: 49 Copynumber: 4.7 Consensus size: 49
52257325 CTGGTACGCA
* * * ** *
52257335 TAGTAGCCTACACTTAGTACTACAGATGCGACCAATTACCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATACGGTACACG
* ** * *
52257384 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATATGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATACGGTACACG
* * * * * *
52257434 TAGTAGCCTGCACTTAGTGCTACACACGTGATCGAAGTTATATGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATACGGTACACG
* * *
52257485 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATACGGTACACG
* * *
52257534 TAGTAGCTTTCACATT-GTACTACACACGTGACC
1 TAGTAGCCTGCAC-TTAGTACTACACACGCGACC
52257567 TCACAATAGA
Statistics
Matches: 148, Mismatches: 31, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
49 64 0.43
50 46 0.31
51 38 0.26
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATACGGTACACG
Found at i:52257498 original size:51 final size:50
Alignment explanation
Indices: 52257384--52257510 Score: 173
Period size: 51 Copynumber: 2.5 Consensus size: 50
52257374 CCGGTACATG
* *
52257384 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATATGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCGAACCATATGATACACA
* * ** * *
52257434 TAGTAGCCTGCACTTAGTGCTACACACGTGATCGAAGTTATATGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCGAA-CCATATGATACACA
52257485 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
52257511 TGCGACCAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 33 0.49
51 34 0.51
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCGAACCATATGATACACA
Found at i:52261230 original size:40 final size:41
Alignment explanation
Indices: 52261192--52261400 Score: 227
Period size: 40 Copynumber: 5.2 Consensus size: 41
52261182 CTTCGGGACA
* *
52261192 TAGCCCGG-TTATAGTAGCTCGCACAAATGCCTTTGGGA-CT
1 TAGCCCGGATT-TAGTAACTCGCACAAATGCCTTTCGGATCT
* *
52261232 TAACACGGATTTAGTAACTCGCACAAATGCC-TTCGGATCT
1 TAGCCCGGATTTAGTAACTCGCACAAATGCCTTTCGGATCT
*
52261272 TAGTCCGGATTTAGTAACTCGCACAAATGCC-TTCGGATCT
1 TAGCCCGGATTTAGTAACTCGCACAAATGCCTTTCGGATCT
* * **
52261312 TAGTCCGGATATAGCCACTCGCACAAATGCC-TTCGGATCT
1 TAGCCCGGATTTAGTAACTCGCACAAATGCCTTTCGGATCT
* * *
52261352 TAGTCCGGATTTAGTCACTTAGCACAAA-GCC-TTCGGGA-CT
1 TAGCCCGGATTTAGTAAC-TCGCACAAATGCCTTTC-GGATCT
52261392 TAGCCCGGA
1 TAGCCCGGA
52261401 CATCATTCGA
Statistics
Matches: 151, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 5 0.03
40 133 0.88
41 13 0.09
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (41 bp):
TAGCCCGGATTTAGTAACTCGCACAAATGCCTTTCGGATCT
Found at i:52261301 original size:80 final size:80
Alignment explanation
Indices: 52261155--52261400 Score: 259
Period size: 80 Copynumber: 3.1 Consensus size: 80
52261145 TCGGAGTTTA
* * ** * * * *
52261155 ACCGGACATAGCTACTCGTTCAAATACCTTCGGGA-CATAGCCCGG-TTATAGTAGCTCGCACAA
1 ACCGGATATAGCAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCACAA
52261218 ATGCCTTTGGGACTTA-
64 ATGCCTTTGGGACTTAG
* *
52261234 ACACGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACAAA
1 AC-CGGATATAGCAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACAAA
*
52261299 TGCC-TTCGGATCTTAG
65 TGCCTTTGGGA-CTTAG
* * * *
52261315 TCCGGATATAGCCACTCGCACAAATGCCTTCGGATCTTAGTCCGGATTTAGTCACTTAGCACAAA
1 ACCGGATATAGCAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATTTAGTAAC-TCGCACAAA
*
52261380 -GCCTTCGGGACTTAG
65 TGCCTTTGGGACTTAG
*
52261395 CCCGGA
1 ACCGGA
52261401 CATCATTCGA
Statistics
Matches: 140, Mismatches: 20, Indels: 13
0.81 0.12 0.08
Matches are distributed among these distances:
79 10 0.07
80 115 0.82
81 15 0.11
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (80 bp):
ACCGGATATAGCAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACAAAT
GCCTTTGGGACTTAG
Found at i:52267769 original size:49 final size:50
Alignment explanation
Indices: 52267692--52267937 Score: 291
Period size: 49 Copynumber: 4.9 Consensus size: 50
52267682 TTGCCAAAGC
* * *
52267692 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CTAAT
1 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
* *
52267741 TATCCGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAAC
1 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
* *** * *
52267791 CATCTTATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-T
* * *
52267842 TAT-CGAGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC-AAT
1 TATCCG-GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
* * * *
52267891 AATCCGATACACGTAGTAGCTTGCACTTAGTACTACACACATGACCT
1 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT
52267938 CACAATAGAT
Statistics
Matches: 164, Mismatches: 28, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
49 77 0.47
50 50 0.30
51 37 0.23
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.26
Consensus pattern (50 bp):
TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
Found at i:52267875 original size:101 final size:98
Alignment explanation
Indices: 52267699--52267935 Score: 314
Period size: 100 Copynumber: 2.4 Consensus size: 98
52267689 AGCTATCTGG
* * * *
52267699 TACACATAGTAGCCTGCACTTAGTACTACACATGTGACTAATTATCCGGTACACGTAGTAGCCTA
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACGAATTATCCGGTACACATAGTAGCCTA
* * **
52267764 CACTTAGTACTACACACGTGACCTAACCATCTTA
66 CACTTAGTACTACACACGCGACC-AACAATCCGA
52267798 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAT-CGAGTACACATAGTAGC
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CGAA-TTATCCG-GTACACATAGTAGC
* * *
52267862 CTGCACTTAGTACTACACATGCGACCAATAATCCGA
63 CTACACTTAGTACTACACACGCGACCAACAATCCGA
* *
52267898 TACACGTAGTAGCTTGCACTTAGTACTACACACATGAC
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGAC
52267936 CTCACAATAG
Statistics
Matches: 122, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
99 36 0.30
100 46 0.38
101 40 0.33
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.26
Consensus pattern (98 bp):
TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACGAATTATCCGGTACACATAGTAGCCTA
CACTTAGTACTACACACGCGACCAACAATCCGA
Found at i:52272306 original size:12 final size:13
Alignment explanation
Indices: 52272289--52272326 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
52272279 ATCCTGGAAT
52272289 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
52272301 ATTAAGAACACATA
1 ATTAAGAACA-AGA
52272315 ATTAAGAACAAG
1 ATTAAGAACAAG
52272327 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:52282590 original size:40 final size:40
Alignment explanation
Indices: 52282543--52282727 Score: 219
Period size: 40 Copynumber: 4.6 Consensus size: 40
52282533 CTCACACAAG
*
52282543 GCCTTCGGGTCTTAGCCCGGATAT-GATAACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAG-TAACTAGCACAAAT
* **
52282583 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTAACTAGCACAAAT
* * * *
52282623 GCCTTCGGGTTTTGGCCCGGATATAGTAACTCGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTAACTAGCACAAAT
* * * * *
52282663 GCCTTCGGATCTTAGTCCGGATATAGTCACTTAACACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTAAC-TAGCACAAAT
*
52282704 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
52282728 CATTCGAATA
Statistics
Matches: 120, Mismatches: 23, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
40 92 0.77
41 28 0.23
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTAACTAGCACAAAT
Found at i:52282641 original size:80 final size:81
Alignment explanation
Indices: 52282543--52282727 Score: 259
Period size: 80 Copynumber: 2.3 Consensus size: 81
52282533 CTCACACAAG
52282543 GCCTTCGGGTCTTAGCCCGGATAT-GATAACTAGCATAAATGCCTTCGGGA-CTTAGCCCGGATA
1 GCCTTCGGGTCTTAGCCCGGATATAG-TAACTAGCATAAATGCCTTC-GGATCTTAGCCCGGATA
* * *
52282606 TAGTCGC-TAGCACAAAT
64 TAGTCACTTAACACAAAA
* * * *
52282623 GCCTTCGGGTTTTGGCCCGGATATAGTAACTCGCATAAATGCCTTCGGATCTTAGTCCGGATATA
1 GCCTTCGGGTCTTAGCCCGGATATAGTAACTAGCATAAATGCCTTCGGATCTTAGCCCGGATATA
52282688 GTCACTTAACACAAAA
66 GTCACTTAACACAAAA
*
52282704 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
52282728 CATTCGAATA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
79 3 0.03
80 59 0.64
81 30 0.33
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.26
Consensus pattern (81 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTAACTAGCATAAATGCCTTCGGATCTTAGCCCGGATATA
GTCACTTAACACAAAA
Found at i:52290718 original size:40 final size:40
Alignment explanation
Indices: 52290648--52290855 Score: 231
Period size: 40 Copynumber: 5.2 Consensus size: 40
52290638 CGGGATTTAA
** * *
52290648 CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGC
* *
52290687 CCGGATAT-GATCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAG-TCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
52290727 CCGGATATAGTCGCTAGCACAAATGCCTTCGGGTTTTGGC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
52290767 CCGGATATAGTAACTCGCATAAATGCCTTCGGATCTTAGT
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
52290807 CCGGATATAGTCACTTAACACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAGTCAC-TAGCACAAATGCCTTCGGGTCTTAGC
52290848 CCGGATAT
1 CCGGATAT
52290856 CATTCGAATA
Statistics
Matches: 138, Mismatches: 27, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
39 15 0.11
40 95 0.69
41 28 0.20
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:52293526 original size:40 final size:40
Alignment explanation
Indices: 52293471--52293616 Score: 292
Period size: 40 Copynumber: 3.6 Consensus size: 40
52293461 AACATTGGAA
52293471 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
52293511 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
52293551 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
52293591 ATATATCCGGGCTAAGACCCGAAGGC
1 ATATATCCGGGCTAAGACCCGAAGGC
52293617 TTGATATATC
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 106 1.00
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.21
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:52293630 original size:29 final size:29
Alignment explanation
Indices: 52293588--52293645 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
52293578 TTCGTGCGAG
52293588 TTGATATATCCGGGCTAAGACCCGAAGGC
1 TTGATATATCCGGGCTAAGACCCGAAGGC
52293617 TTGATATATCCGGGCTAAGACCCGAAGGC
1 TTGATATATCCGGGCTAAGACCCGAAGGC
52293646 CTTTGTGCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.21
Consensus pattern (29 bp):
TTGATATATCCGGGCTAAGACCCGAAGGC
Found at i:52293644 original size:109 final size:109
Alignment explanation
Indices: 52293508--52293709 Score: 289
Period size: 109 Copynumber: 1.9 Consensus size: 109
52293498 TTCGTGCGAG
* * * *
52293508 TTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGA-TATATCCGGGCTAAGACCCG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TCACCAAATCCGGGCTAAGACCCG
* *
52293572 AAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGC
65 AAGGCAATCGTGCGAGTCGATATATCCGGGCTAAGACCCGAAGGC
* * * *
52293617 TTGATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAGTCACCAAATCCGGGTTATGACCCGA
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCACCAAATCCGGGCTAAGACCCGA
*
52293682 AGGCAATCGTGCGAGTCGCTATATCCGG
66 AGGCAATCGTGCGAGTCGATATATCCGG
52293710 TTAAATCCCG
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
108 2 0.02
109 79 0.98
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.22
Consensus pattern (109 bp):
TTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCACCAAATCCGGGCTAAGACCCGA
AGGCAATCGTGCGAGTCGATATATCCGGGCTAAGACCCGAAGGC
Found at i:52293668 original size:69 final size:69
Alignment explanation
Indices: 52293548--52293685 Score: 188
Period size: 69 Copynumber: 2.0 Consensus size: 69
52293538 TTCGTGCGAG
* * * *
52293548 TTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGA
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTCACAAATCCGGGCTAAGACCCGA
52293613 AGGC
66 AGGC
* * * *
52293617 TTGATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TCACCAAATCCGGGTTATGACCCG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTCA-CAAATCCGGGCTAAGACCCG
52293681 AAGGC
65 AAGGC
52293686 AATCGTGCGA
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
68 2 0.03
69 58 0.97
ACGTcount: A:0.26, C:0.25, G:0.28, T:0.22
Consensus pattern (69 bp):
TTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTCACAAATCCGGGCTAAGACCCGA
AGGC
Found at i:52293708 original size:40 final size:40
Alignment explanation
Indices: 52293621--52293709 Score: 97
Period size: 40 Copynumber: 2.2 Consensus size: 40
52293611 GAAGGCTTGA
** *
52293621 TATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAGTCAC
1 TATATCCGGGCTAAGACCCGAAGGCAATCGTGCAAGTCAC
* * * * * *
52293661 CAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCGC
1 TATATCCGGGCTAAGACCCGAAGGCAATCGTGCAAGTCAC
52293701 TATATCCGG
1 TATATCCGG
52293710 TTAAATCCCG
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.25, C:0.27, G:0.27, T:0.21
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATCGTGCAAGTCAC
Found at i:52301690 original size:40 final size:40
Alignment explanation
Indices: 52301635--52301884 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
52301625 AACATTGGAA
52301635 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
52301675 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
52301715 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
52301755 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
52301795 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
52301834 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
52301875 CTATATCCGG
1 ATATATCCGG
52301885 TTAAATCCCG
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:52308177 original size:28 final size:28
Alignment explanation
Indices: 52308145--52308243 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
52308135 GCAATAAGCC
*
52308145 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
52308173 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
52308201 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
52308230 CGCACACTTAGTGC
1 CGCACACTTAGTGC
52308244 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:52315857 original size:28 final size:28
Alignment explanation
Indices: 52315825--52315923 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
52315815 GCAATAAGCC
*
52315825 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
52315853 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
52315881 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
52315910 CGCACACTTAGTGC
1 CGCACACTTAGTGC
52315924 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:52323085 original size:21 final size:22
Alignment explanation
Indices: 52323045--52323090 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
52323035 ATGACCCCTG
*
52323045 TTTCCAAAATTTTTCCTTTT-T
1 TTTCCAAAATTTTTCATTTTAT
52323066 TTTCCAAAA-TTTTCTATTTTAT
1 TTTCCAAAATTTTTC-ATTTTAT
52323088 TTT
1 TTT
52323091 AAAATGATCC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 5 0.23
21 13 0.59
22 4 0.18
ACGTcount: A:0.22, C:0.15, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTCCAAAATTTTTCATTTTAT
Found at i:52329791 original size:30 final size:30
Alignment explanation
Indices: 52329755--52329821 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 30
52329745 GTTCTTAAGC
* * *
52329755 TTAATTTTTATCCTAATAAATC-CTTTATTT
1 TTAATTTGTATCCAAATAAATCTC-TAATTT
52329785 TTAATTTGTATCCAAATAAATCTCTAATTT
1 TTAATTTGTATCCAAATAAATCTCTAATTT
52329815 TTAATTT
1 TTAATTT
52329822 ATACTTAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 32 0.97
31 1 0.03
ACGTcount: A:0.33, C:0.12, G:0.01, T:0.54
Consensus pattern (30 bp):
TTAATTTGTATCCAAATAAATCTCTAATTT
Found at i:52330526 original size:2 final size:2
Alignment explanation
Indices: 52330519--52330550 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
52330509 ATAGCTTGTA
52330519 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
52330551 TCAATAAATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:52331647 original size:61 final size:62
Alignment explanation
Indices: 52331531--52331649 Score: 154
Period size: 61 Copynumber: 1.9 Consensus size: 62
52331521 CCTTGAATTA
* * *
52331531 TTTTTAAAATTTTTAATTAAGCTCTTCAAAATTTTGAAAATTTCTATTTACCTTTTAATTTG
1 TTTTGAAAATTTTTAATCAAGCTCTTCAAAATTTTGAAAATTTCTATTAACCTTTTAATTTG
* *
52331593 TTTTGAAAA-TTTTAATCAAGCT-TTCTAAAATTTTGGAAATTT-TGATTAATCTTTTAA
1 TTTTGAAAATTTTTAATCAAGCTCTTC-AAAATTTTGAAAATTTCT-ATTAACCTTTTAA
52331650 AAAATTAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
60 4 0.08
61 38 0.76
62 8 0.16
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (62 bp):
TTTTGAAAATTTTTAATCAAGCTCTTCAAAATTTTGAAAATTTCTATTAACCTTTTAATTTG
Found at i:52338283 original size:43 final size:42
Alignment explanation
Indices: 52338208--52338319 Score: 118
Period size: 43 Copynumber: 2.6 Consensus size: 42
52338198 GATTAACGAC
* * * * *
52338208 GCCAATGTCCCAGACATAGTATTACACGTAATCGTATAAT-GAT
1 GCCAATGTCCCAGACATGGTCTTACACATAATC--ACAATAAAT
* *
52338251 GCCAATGTCCTAGACATGGTCTTATACATAATCACAATACAAT
1 GCCAATGTCCCAGACATGGTCTTACACATAATCACAATA-AAT
*
52338294 GCCAATTTCCCAGACATGGTCTTACA
1 GCCAATGTCCCAGACATGGTCTTACA
52338320 TGTAATCTCA
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
41 4 0.07
43 53 0.93
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (42 bp):
GCCAATGTCCCAGACATGGTCTTACACATAATCACAATAAAT
Found at i:52347063 original size:43 final size:44
Alignment explanation
Indices: 52347014--52347131 Score: 118
Period size: 43 Copynumber: 2.8 Consensus size: 44
52347004 TCCTAGATAT
* *
52347014 GGTCTTACATGTAAAT-AC-ATATCGATCCCACTATCCCAGACAG
1 GGTCTTACACGTAAATCACAATA-CGATCCCAATATCCCAGACAG
** * *
52347057 GGTCTTACACG-AAATCACAATACGATGTCAATGTCCCAGACAT
1 GGTCTTACACGTAAATCACAATACGATCCCAATATCCCAGACAG
* * *
52347100 GGTCTTACACGT-AATCTCAATACAATGCCAAT
1 GGTCTTACACGTAAATCACAATACGATCCCAAT
52347132 GTCCAATTAC
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
42 4 0.06
43 56 0.89
44 3 0.05
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.25
Consensus pattern (44 bp):
GGTCTTACACGTAAATCACAATACGATCCCAATATCCCAGACAG
Found at i:52347132 original size:43 final size:43
Alignment explanation
Indices: 52347047--52347135 Score: 133
Period size: 43 Copynumber: 2.1 Consensus size: 43
52347037 GATCCCACTA
* *
52347047 TCCCAGACAGGGTCTTACACGAAATCACAATACGATGTCAATG
1 TCCCAGACAGGGTCTTACACGAAATCACAATACAATGCCAATG
* * *
52347090 TCCCAGACATGGTCTTACACGTAATCTCAATACAATGCCAATG
1 TCCCAGACAGGGTCTTACACGAAATCACAATACAATGCCAATG
52347133 TCC
1 TCC
52347136 AATTACATGT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.24
Consensus pattern (43 bp):
TCCCAGACAGGGTCTTACACGAAATCACAATACAATGCCAATG
Found at i:52356672 original size:25 final size:25
Alignment explanation
Indices: 52356630--52356678 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
52356620 CTTTATTATT
* *
52356630 ATCATTATGAAGAATTATGTGATTA
1 ATCATTATCAAGAATTATATGATTA
* *
52356655 ATCATTATCATGAGTTATATGATT
1 ATCATTATCAAGAATTATATGATT
52356679 GGTCCTCTAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (25 bp):
ATCATTATCAAGAATTATATGATTA
Found at i:52356951 original size:40 final size:40
Alignment explanation
Indices: 52356901--52356997 Score: 167
Period size: 40 Copynumber: 2.4 Consensus size: 40
52356891 TTGCGAATAC
*
52356901 CTGATAGCTTGTGTGAGCAGCTCATGTAGCGATATCCTGA
1 CTGACAGCTTGTGTGAGCAGCTCATGTAGCGATATCCTGA
*
52356941 CTGACAGCTTGTGTGAGCAGCTCATGTAGCTATATCCTGA
1 CTGACAGCTTGTGTGAGCAGCTCATGTAGCGATATCCTGA
*
52356981 CTAACAGCTTGTGTGAG
1 CTGACAGCTTGTGTGAG
52356998 TAGACCCGTG
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.30
Consensus pattern (40 bp):
CTGACAGCTTGTGTGAGCAGCTCATGTAGCGATATCCTGA
Found at i:52357712 original size:171 final size:171
Alignment explanation
Indices: 52357427--52357781 Score: 629
Period size: 171 Copynumber: 2.1 Consensus size: 171
52357417 GTTAACCCTC
*
52357427 ACACGCCCATGTGGAGGCAATGCACACGCCCGTGTACTTTGGGACACGCCTATGTCCCCTACCCG
1 ACACGCCTATGTGGAGGCAATGCACACGCCCGTGTACTTTGGGACACGCCTATGTCCCCTACCCG
52357492 TGTGGAATTAATTGAATTTATTTTCTATTTCGAACCTGCAGGGGTTTTCACACGGCCAAGCACAC
66 TGTGGAATTAATTGAATTTATTTTCTATTTCGAACCTGCAGGGGTTTTCACACGGCCAAGCACAC
52357557 GACCATGTCTCTGGCCCGTGTCCTTCACATGGCCTGCCTTA
131 GACCATGTCTCTGGCCCGTGTCCTTCACATGGCCTGCCTTA
* * * * *
52357598 ACACGCCTGTGTGGAGGCAATGCACACGCCCGTGTGCTTTGGGACACGCCTGTGTCCCTTACCTG
1 ACACGCCTATGTGGAGGCAATGCACACGCCCGTGTACTTTGGGACACGCCTATGTCCCCTACCCG
*
52357663 TGTGGAATTAATTGAATTTATTTTCTATTTCGAACCTGCAGGGGTTTTCATACGGCCAAGCACAC
66 TGTGGAATTAATTGAATTTATTTTCTATTTCGAACCTGCAGGGGTTTTCACACGGCCAAGCACAC
* *
52357728 GCCCGTGTCTCTGGCCCGTGTCCTTCACATGGCCTGCCTTA
131 GACCATGTCTCTGGCCCGTGTCCTTCACATGGCCTGCCTTA
52357769 ACACGCCTATGTG
1 ACACGCCTATGTG
52357782 CTTTGGGACA
Statistics
Matches: 174, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
171 174 1.00
ACGTcount: A:0.19, C:0.30, G:0.23, T:0.28
Consensus pattern (171 bp):
ACACGCCTATGTGGAGGCAATGCACACGCCCGTGTACTTTGGGACACGCCTATGTCCCCTACCCG
TGTGGAATTAATTGAATTTATTTTCTATTTCGAACCTGCAGGGGTTTTCACACGGCCAAGCACAC
GACCATGTCTCTGGCCCGTGTCCTTCACATGGCCTGCCTTA
Found at i:52357889 original size:148 final size:148
Alignment explanation
Indices: 52357621--52357929 Score: 537
Period size: 148 Copynumber: 2.1 Consensus size: 148
52357611 GAGGCAATGC
* * *
52357621 ACACGCCCGTGTGCTTTGGGACACGCCTGTGTCCCTTACCTGTGTGGAATTAATTGAATTTATTT
1 ACACGCCTGTGTGCTTTGGGACACGCCTGTGTCCCCTACCCGTGTGGAATTAATTGAATTTATTT
* * *
52357686 TCTATTTCGAACCTGCAGGGGTTTTCATACGGCCAAGCACACGCCCGTGTCTCTGGCCCGTGTCC
66 TCTATTTCGAACCTACAGGGGTTTTCACACAGCCAAGCACACGCCCGTGTCTCTGGCCCGTGTCC
52357751 TTCACATGGCCTGCCTTA
131 TTCACATGGCCTGCCTTA
*
52357769 ACACGCCTATGTGCTTTGGGACACGCCTGTGTCCCCTACCCGTGTGGAATTAATTGAATTTATTT
1 ACACGCCTGTGTGCTTTGGGACACGCCTGTGTCCCCTACCCGTGTGGAATTAATTGAATTTATTT
* *
52357834 TCTATTTTGAACCTACAGGGGTTTTCACACAGCCAAGCACACTCCCGTGTCTCTGGCCCGTGTCC
66 TCTATTTCGAACCTACAGGGGTTTTCACACAGCCAAGCACACGCCCGTGTCTCTGGCCCGTGTCC
52357899 TTCACATGGCCTGCCTTA
131 TTCACATGGCCTGCCTTA
52357917 ACACGCCTGTGTG
1 ACACGCCTGTGTG
52357930 GTCGCCTGTG
Statistics
Matches: 151, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
148 151 1.00
ACGTcount: A:0.18, C:0.29, G:0.22, T:0.31
Consensus pattern (148 bp):
ACACGCCTGTGTGCTTTGGGACACGCCTGTGTCCCCTACCCGTGTGGAATTAATTGAATTTATTT
TCTATTTCGAACCTACAGGGGTTTTCACACAGCCAAGCACACGCCCGTGTCTCTGGCCCGTGTCC
TTCACATGGCCTGCCTTA
Found at i:52362647 original size:17 final size:17
Alignment explanation
Indices: 52362621--52362656 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
52362611 CGCTAAAATG
*
52362621 ATTGTCAGCCCATTTAT
1 ATTGTAAGCCCATTTAT
52362638 ATTGTAAGCCCATTTAT
1 ATTGTAAGCCCATTTAT
52362655 AT
1 AT
52362657 AAGTATATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.42
Consensus pattern (17 bp):
ATTGTAAGCCCATTTAT
Found at i:52367219 original size:43 final size:42
Alignment explanation
Indices: 52367172--52367268 Score: 124
Period size: 42 Copynumber: 2.3 Consensus size: 42
52367162 CCAGATGTGC
*
52367172 TCTTACATGTAATCAAATATCGATG-CCACTGTCCCAGACATGG
1 TCTTACATGTAATCAAATAT-GATGTCCA-TGTCCCAAACATGG
* * *
52367215 TCTTACATGAAATCAAATATGATGTCGATGTCCTAAACATGG
1 TCTTACATGTAATCAAATATGATGTCCATGTCCCAAACATGG
*
52367257 TCTTACACGTAA
1 TCTTACATGTAA
52367269 ATCATAAGTC
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
42 26 0.55
43 21 0.45
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (42 bp):
TCTTACATGTAATCAAATATGATGTCCATGTCCCAAACATGG
Found at i:52367271 original size:43 final size:44
Alignment explanation
Indices: 52367172--52367272 Score: 129
Period size: 43 Copynumber: 2.4 Consensus size: 44
52367162 CCAGATGTGC
*
52367172 TCTTACATGT-AATCAAATATCGATGCCACTGTCCCAGACATGG
1 TCTTACATGTAAATCAAATATCGATGCCACTGTCCCAAACATGG
* *
52367215 TCTTACATG-AAATCAAATAT-GATGTCGA-TGTCCTAAACATGG
1 TCTTACATGTAAATCAAATATCGATG-CCACTGTCCCAAACATGG
*
52367257 TCTTACACGTAAATCA
1 TCTTACATGTAAATCA
52367273 TAAGTCAATG
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
42 24 0.47
43 27 0.53
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.30
Consensus pattern (44 bp):
TCTTACATGTAAATCAAATATCGATGCCACTGTCCCAAACATGG
Found at i:52370473 original size:20 final size:20
Alignment explanation
Indices: 52370448--52370492 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
52370438 AGGGACTAAA
* *
52370448 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
52370468 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
52370488 ATGAA
1 ATGAA
52370493 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:52371358 original size:19 final size:20
Alignment explanation
Indices: 52371329--52371368 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
52371319 CAACAGACAT
*
52371329 AAAACTCTTGACATGGTATG
1 AAAACTCTTGACATGATATG
*
52371349 AAAA-TCTTGATATGATATG
1 AAAACTCTTGACATGATATG
52371368 A
1 A
52371369 TAATGACTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (20 bp):
AAAACTCTTGACATGATATG
Found at i:52375274 original size:31 final size:31
Alignment explanation
Indices: 52375239--52375299 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
52375229 CCAGTAAGTC
*
52375239 AGAATCCTGCTCTGTACACTATGTATAATTT
1 AGAATCCTGCTCCGTACACTATGTATAATTT
*
52375270 AGAATCCTGCTCCGTGCACTATGTATAATT
1 AGAATCCTGCTCCGTACACTATGTATAATT
52375300 ATGCTAAACC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (31 bp):
AGAATCCTGCTCCGTACACTATGTATAATTT
Found at i:52379308 original size:50 final size:52
Alignment explanation
Indices: 52379231--52379337 Score: 191
Period size: 50 Copynumber: 2.1 Consensus size: 52
52379221 CTTGAGTTCA
52379231 GAGCCGCGTTAGGACTATACACGGACGGGTTCATGGACGACGACAACTTTGT
1 GAGCCGCGTTAGGACTATACACGGACGGGTTCATGGACGACGACAACTTTGT
*
52379283 GAGCC-CGTT-GGACTATACACGGACGGGTTCATGGACGACGACGACTTTGT
1 GAGCCGCGTTAGGACTATACACGGACGGGTTCATGGACGACGACAACTTTGT
52379333 GAGCC
1 GAGCC
52379338 TCCATCGCCA
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
50 45 0.83
51 4 0.07
52 5 0.09
ACGTcount: A:0.23, C:0.24, G:0.32, T:0.21
Consensus pattern (52 bp):
GAGCCGCGTTAGGACTATACACGGACGGGTTCATGGACGACGACAACTTTGT
Found at i:52389855 original size:3 final size:3
Alignment explanation
Indices: 52389847--52389878 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
52389837 TATTTTAAGT
52389847 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
52389879 TGGTTTTGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:52394307 original size:40 final size:40
Alignment explanation
Indices: 52394250--52394435 Score: 220
Period size: 40 Copynumber: 4.7 Consensus size: 40
52394240 TCGAATGATG
* * *
52394250 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
52394290 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
52394330 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
52394370 TCCGGGA-TAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCC-GGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * * *
52394411 -CCGGGCCATGTCCCGAAGGTATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
52394436 AACGATGGCT
Statistics
Matches: 132, Mismatches: 8, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
39 3 0.02
40 116 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:52400029 original size:94 final size:93
Alignment explanation
Indices: 52399915--52400087 Score: 303
Period size: 94 Copynumber: 1.8 Consensus size: 93
52399905 CGCCCATAAG
*
52399915 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
52399979 AACGAGCTTCGGATGCCTAGTTACATCTCA
65 AACGAG-TTCGGATGCCTAGTTACATCTCA
*
52400009 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
52400074 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
52400088 TCAACATCCT
Statistics
Matches: 76, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
93 11 0.14
94 65 0.86
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:52400079 original size:46 final size:46
Alignment explanation
Indices: 52399908--52400084 Score: 202
Period size: 46 Copynumber: 3.8 Consensus size: 46
52399898 TGTAACCCGC
* *
52399908 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
52399954 CCATAAGTGAACTCGGACTCAACTCAACGAGCTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAG-TTCGGA---C-A-TTCGCAT
*
52400005 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
52400048 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
52400085 TGCTCAACAT
Statistics
Matches: 111, Mismatches: 9, Indels: 22
0.78 0.06 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.55
47 8 0.07
48 23 0.21
49 2 0.02
50 2 0.02
51 3 0.03
52 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:52405360 original size:40 final size:40
Alignment explanation
Indices: 52405135--52405332 Score: 278
Period size: 40 Copynumber: 5.0 Consensus size: 40
52405125 TCGAATGATG
* * *
52405135 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
52405175 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
52405215 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
* *
52405255 TCCGGACTAAGATCTGAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
52405295 TCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTA
1 TCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA
52405333 TAACCGGGCC
Statistics
Matches: 146, Mismatches: 8, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
39 1 0.01
40 134 0.92
41 11 0.08
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:52405367 original size:120 final size:120
Alignment explanation
Indices: 52405150--52405367 Score: 275
Period size: 120 Copynumber: 1.8 Consensus size: 120
52405140 GCTAAGTCCC
*
52405150 GAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 GAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGCTACTAAA
* **
52405215 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCT
66 TCCGGACCAAGATCCGAAGGCATTTGAACGAGTTACTAAATCCGGACTAAGATCT
* *
52405270 GAAGGCATTTGTG-TGAGTTACTAAATCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACT
1 GAAGGC-TTTGTGCTAAGTGACTAAATCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAGCTACT
* * *
52405332 ATAA-CCGGGCCATG-TCCCGAAGGTATTTGAACGAGT
63 A-AATCCGGACCAAGAT-CCGAAGGCATTTGAACGAGT
52405368 GGCTATACCC
Statistics
Matches: 84, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
119 2 0.02
120 71 0.85
121 11 0.13
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (120 bp):
GAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGCTACTAAA
TCCGGACCAAGATCCGAAGGCATTTGAACGAGTTACTAAATCCGGACTAAGATCT
Found at i:52411853 original size:31 final size:25
Alignment explanation
Indices: 52411792--52411842 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
52411782 AGACTTGTAA
52411792 AATTTGTTTGATAATGATAAATGTT
1 AATTTGTTTGATAATGATAAATGTT
52411817 AATTTGTTTGATAATGATAAATGTT
1 AATTTGTTTGATAATGATAAATGTT
52411842 A
1 A
52411843 GGTTATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (25 bp):
AATTTGTTTGATAATGATAAATGTT
Found at i:52414166 original size:40 final size:39
Alignment explanation
Indices: 52414001--52414184 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
52413991 AAATTGAATG
* * *
52414001 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
52414041 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
52414081 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
52414121 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
52414160 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
52414185 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:52414209 original size:80 final size:81
Alignment explanation
Indices: 52414041--52414229 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
52414031 GCTGGAAATT
* * * *
52414041 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
52414106 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
52414122 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
52414185 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
52414201 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
52414230 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:52420608 original size:93 final size:93
Alignment explanation
Indices: 52420496--52420667 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
52420486 GCCCATAAGT
* *
52420496 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
52420561 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
52420589 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
52420654 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
52420668 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:52420663 original size:46 final size:46
Alignment explanation
Indices: 52420488--52420663 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
52420478 TGTAACCCGC
* * *
52420488 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
52420534 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
52420584 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
52420627 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
52420664 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:52425060 original size:40 final size:39
Alignment explanation
Indices: 52424895--52425078 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
52424885 AAATTGAATG
* * *
52424895 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
52424935 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
52424975 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
52425015 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
52425054 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
52425079 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:52425103 original size:80 final size:81
Alignment explanation
Indices: 52424935--52425123 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
52424925 GCTGGAAATT
* * * *
52424935 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
52425000 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
52425016 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
52425079 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
52425095 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
52425124 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:52434997 original size:54 final size:53
Alignment explanation
Indices: 52434930--52435066 Score: 157
Period size: 54 Copynumber: 2.5 Consensus size: 53
52434920 AAACATACAT
* * *
52434930 CACACAGGGGCAAAACAATCATCTTAGCATATAAGAGAAAAATATTCATTTTAC
1 CACACAGGGGCAAAACAGTCAT-TTACCATATAAGAGAAAAATAGTCATTTTAC
* * * * * *
52434984 CACATATGGGCAAAATAGTCAATTTACCGTATAAGGGCAAAATAGTCATTTTAC
1 CACACAGGGGCAAAACAGTC-ATTTACCATATAAGAGAAAAATAGTCATTTTAC
*
52435038 CACACAGGGGCAATACAGTCATTTTACCA
1 CACACAGGGGCAAAACAGTCA-TTTACCA
52435067 CAAAGAGGTC
Statistics
Matches: 67, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
53 1 0.01
54 64 0.96
55 2 0.03
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (53 bp):
CACACAGGGGCAAAACAGTCATTTACCATATAAGAGAAAAATAGTCATTTTAC
Found at i:52434998 original size:27 final size:27
Alignment explanation
Indices: 52434968--52435068 Score: 121
Period size: 27 Copynumber: 3.7 Consensus size: 27
52434958 ATATAAGAGA
* *
52434968 AAAATATTCATTTTACCACATATGGGC
1 AAAATAGTCATTTTACCACATAAGGGC
* **
52434995 AAAATAGTCAATTTACCGTATAAGGGC
1 AAAATAGTCATTTTACCACATAAGGGC
* *
52435022 AAAATAGTCATTTTACCACACAGGGGC
1 AAAATAGTCATTTTACCACATAAGGGC
* *
52435049 AATACAGTCATTTTACCACA
1 AAAATAGTCATTTTACCACA
52435069 AAGAGGTCCT
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.28
Consensus pattern (27 bp):
AAAATAGTCATTTTACCACATAAGGGC
Found at i:52435068 original size:25 final size:27
Alignment explanation
Indices: 52434930--52435068 Score: 98
Period size: 27 Copynumber: 5.1 Consensus size: 27
52434920 AAACATACAT
* * *
52434930 CACACAGGGGCAAAACAATCATCTTAG
1 CACACAGGGGCAAAACAGTCATTTTAC
* * * * * * *
52434957 CATATAAGAGAAAAATATTCATTTTAC
1 CACACAGGGGCAAAACAGTCATTTTAC
* * * *
52434984 CACATATGGGCAAAATAGTCAATTTAC
1 CACACAGGGGCAAAACAGTCATTTTAC
** * * *
52435011 CGTATAAGGGCAAAATAGTCATTTTAC
1 CACACAGGGGCAAAACAGTCATTTTAC
*
52435038 CACACAGGGGCAATACAGTCATTTTAC
1 CACACAGGGGCAAAACAGTCATTTTAC
52435065 CACA
1 CACA
52435069 AAGAGGTCCT
Statistics
Matches: 87, Mismatches: 25, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 87 1.00
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.24
Consensus pattern (27 bp):
CACACAGGGGCAAAACAGTCATTTTAC
Found at i:52437865 original size:46 final size:46
Alignment explanation
Indices: 52437798--52437919 Score: 151
Period size: 46 Copynumber: 2.7 Consensus size: 46
52437788 TGTGTGCTAG
*
52437798 TGTAAGACATGTTTGGGACATGCATCGGCCACATT-ATGAGAGCCAA
1 TGTAAGACATGTCTGGGACATGCATCGGCC-CATTGATGAGAGCCAA
* * *
52437844 TGTAAGACATGTCTGGGACATGCATCAG--CATTGAGATGAGAGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCCATT--GATGAGAGCCAA
*
52437890 TGTAAGACATGTCTAGGACATGCATCGGCC
1 TGTAAGACATGTCTGGGACATGCATCGGCC
52437920 TCGAAATATG
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.06
46 61 0.94
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCCATTGATGAGAGCCAA
Found at i:52438044 original size:49 final size:49
Alignment explanation
Indices: 52437796--52438151 Score: 176
Period size: 49 Copynumber: 7.5 Consensus size: 49
52437786 TATGTGTGCT
* * * * * * *
52437796 AGTGTAAGACATGTTTGGGACAT-GCATCGGCCAC-AT-TATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGTC
* * * * *
52437842 AATGTAAGACATGTCTGGGACAT-GCATC-AGCATTG--AGATGAGAG-C
1 AGTGTAAGACCTGTCTGGGACATGGCATCGA-CCTCGATAGATGAAAGTC
* * * * * *
52437887 TAGTGTAAGACATGTCTAGGACAT-GCATCGGCCTCGAAATATGCAAG-C
1 -AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGTC
** * * * * *
52437935 TAGTGTAAGACCCATCTGGGATATGGCGTC-AGCTTGAT-G-TG--TGTC
1 -AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGTC
* * *
52437980 AGTATAAGACCTGTCTGGGACATGGCATCGACAC-CGGTAGATGAGAG-C
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGAAAGTC
* * * * *
52438028 TAGTGTAAGACTTGTCTAGGACACGGCATCGGCCTCGATATATGAAAGTC
1 -AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGTC
* * * *
52438078 AGTGTAAGACCTGTCTGGGACATGGCATCGACTTTGAT-G-TGCTAA-CC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATG-AAAGTC
52438125 AGTGTAAGACCATGTCTGGGACATGGC
1 AGTGTAAGACC-TGTCTGGGACATGGC
52438152 GTCGGCATTT
Statistics
Matches: 237, Mismatches: 53, Indels: 38
0.72 0.16 0.12
Matches are distributed among these distances:
44 25 0.11
45 5 0.02
46 67 0.28
47 16 0.07
48 49 0.21
49 74 0.31
50 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGTC
Found at i:52438103 original size:142 final size:145
Alignment explanation
Indices: 52437846--52438151 Score: 382
Period size: 142 Copynumber: 2.2 Consensus size: 145
52437836 AGAGCCAATG
**
52437846 TAAGA-CATGTCTGGGACAT-GCATC-AGCA-TTG-AGATGAGAGCTAGTGTAAGACATGTCTAG
1 TAAGACCATGTCTGGGACATGGCATCGA-CACCGGTAGATGAGAGCTAGTGTAAGACATGTCTAG
* * * *
52437906 GACATGCATCGGCCTCGAAATATGCAAGCTAGTGTAAGACCCATCTGGGATATGGCGTC-AGC-T
65 GACAGGCATCGGCCTCGAAATATGAAAGCTAGTGTAAGACCCATCTGGGACATGGCATCGA-CTT
**
52437969 TGATGTG-T-GTCAGTA
129 TGATGTGCTAACCAGTA
*
52437984 TAAGACC-TGTCTGGGACATGGCATCGACACCGGTAGATGAGAGCTAGTGTAAGACTTGTCTAGG
1 TAAGACCATGTCTGGGACATGGCATCGACACCGGTAGATGAGAGCTAGTGTAAGACATGTCTAGG
* **
52438048 ACACGGCATCGGCCTCGATATATGAAAG-TCAGTGTAAGACCTGTCTGGGACATGGCATCGACTT
66 ACA-GGCATCGGCCTCGAAATATGAAAGCT-AGTGTAAGACCCATCTGGGACATGGCATCGACTT
*
52438112 TGATGTGCTAACCAGTG
129 TGATGTGCTAACCAGTA
52438129 TAAGACCATGTCTGGGACATGGC
1 TAAGACCATGTCTGGGACATGGC
52438152 GTCGGCATTT
Statistics
Matches: 143, Mismatches: 13, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
138 17 0.12
139 8 0.06
140 2 0.01
141 33 0.23
142 47 0.33
143 9 0.06
144 1 0.01
145 11 0.08
146 15 0.10
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.25
Consensus pattern (145 bp):
TAAGACCATGTCTGGGACATGGCATCGACACCGGTAGATGAGAGCTAGTGTAAGACATGTCTAGG
ACAGGCATCGGCCTCGAAATATGAAAGCTAGTGTAAGACCCATCTGGGACATGGCATCGACTTTG
ATGTGCTAACCAGTA
Found at i:52439556 original size:42 final size:42
Alignment explanation
Indices: 52439507--52439634 Score: 139
Period size: 42 Copynumber: 3.0 Consensus size: 42
52439497 TATGGTTATG
*
52439507 TGTGATTTTGTGTAAGACCATATCTAGGATATGGCATCGATA
1 TGTGATTTTGTGTAAGACCATATCTGGGATATGGCATCGATA
* * * * *
52439549 TTTGATTTTGTGTAAGACCATGTCTGGGACACGACATCGATA
1 TGTGATTTTGTGTAAGACCATATCTGGGATATGGCATCGATA
* * * * * *
52439591 CGAGATATCGTGTAAGACCATAGCTGGGCTACTGGCATCGATA
1 TGTGATTTTGTGTAAGACCATATCTGGGATA-TGGCATCGATA
52439634 T
1 T
52439635 ATGTGATCCC
Statistics
Matches: 67, Mismatches: 18, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
42 58 0.87
43 9 0.13
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.31
Consensus pattern (42 bp):
TGTGATTTTGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:52448792 original size:27 final size:26
Alignment explanation
Indices: 52448744--52448795 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
52448734 GCGAGGCTGC
*
52448744 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
52448770 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
52448796 TTACAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:52456134 original size:42 final size:42
Alignment explanation
Indices: 52456055--52456134 Score: 97
Period size: 42 Copynumber: 1.9 Consensus size: 42
52456045 ATTATGTGTG
* * ** *
52456055 ATTTCGTGTAAGACCATATCTGGGATATGGCATCGATATTTA
1 ATTTCGTGTAAGACCATATCTAGGACATAACACCGATATTTA
* *
52456097 ATTTCGTGTAAGTCCATGTCTAGGACATAACACCGATA
1 ATTTCGTGTAAGACCATATCTAGGACATAACACCGATA
52456135 CGAGATATTG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 31 1.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (42 bp):
ATTTCGTGTAAGACCATATCTAGGACATAACACCGATATTTA
Found at i:52470002 original size:5 final size:5
Alignment explanation
Indices: 52469992--52470019 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
52469982 TCATATTTCG
52469992 ATAAA ATAAA ATAAA ATAAA ATAAA ATA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATA
52470020 TAAGTTGTAA
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:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:52473347 original size:25 final size:25
Alignment explanation
Indices: 52473313--52473362 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
52473303 TTTCCAGTGT
52473313 AAGTTTTTTATTTTCCCTTATTTTA
1 AAGTTTTTTATTTTCCCTTATTTTA
52473338 AAGTTTTTTATTTTCCCTTATTTTA
1 AAGTTTTTTATTTTCCCTTATTTTA
52473363 TTCTGATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.12, G:0.04, T:0.64
Consensus pattern (25 bp):
AAGTTTTTTATTTTCCCTTATTTTA
Found at i:52476623 original size:16 final size:17
Alignment explanation
Indices: 52476602--52476634 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
52476592 CTAAAAAAAA
*
52476602 TTAAATTATTTT-AAAT
1 TTAAATAATTTTGAAAT
52476618 TTAAATAATTTTGAAAT
1 TTAAATAATTTTGAAAT
52476635 CCAAATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (17 bp):
TTAAATAATTTTGAAAT
Found at i:52476956 original size:25 final size:25
Alignment explanation
Indices: 52476922--52476979 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
52476912 ATCATTTACT
* *
52476922 ATTTA-TATTT-AGTTTTAATGTTTA
1 ATTTAGTATTTAAATTTTAAT-TCTA
*
52476946 ATTTAGTATTTAAATTTTTATTCTA
1 ATTTAGTATTTAAATTTTAATTCTA
52476971 ATTTAGTAT
1 ATTTAGTAT
52476980 CTAGGTTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 5 0.17
25 17 0.59
26 7 0.24
ACGTcount: A:0.31, C:0.02, G:0.07, T:0.60
Consensus pattern (25 bp):
ATTTAGTATTTAAATTTTAATTCTA
Found at i:52479937 original size:23 final size:23
Alignment explanation
Indices: 52479884--52479937 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
52479874 GTATACTATG
52479884 TATATATTACGTATATACCTTTAA
1 TATATATTACGTATATA-CTTTAA
* *
52479908 TAT-TATTAGGTATTTA-TTTATA
1 TATATATTACGTATATACTTTA-A
52479930 TATATATT
1 TATATATT
52479938 TATATAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 4 0.15
22 4 0.15
23 15 0.58
24 3 0.12
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.54
Consensus pattern (23 bp):
TATATATTACGTATATACTTTAA
Found at i:52480228 original size:21 final size:21
Alignment explanation
Indices: 52480195--52480234 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
52480185 TACTAACATG
52480195 TATATATACTATATATTTTAT
1 TATATATACTATATATTTTAT
*
52480216 TATAT-TACGTATATGTTTT
1 TATATATAC-TATATATTTT
52480235 TATATACGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (21 bp):
TATATATACTATATATTTTAT
Found at i:52480240 original size:21 final size:18
Alignment explanation
Indices: 52480195--52480241 Score: 51
Period size: 21 Copynumber: 2.5 Consensus size: 18
52480185 TACTAACATG
52480195 TATATATACTATATATTT
1 TATATATACTATATATTT
*
52480213 TATTATATTACGTATATGTTT
1 TA-TATA-TAC-TATATATTT
52480234 T-TATATAC
1 TATATATAC
52480242 GCCATGCATA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 5 0.20
19 8 0.32
20 3 0.12
21 9 0.36
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.55
Consensus pattern (18 bp):
TATATATACTATATATTT
Found at i:52483422 original size:40 final size:40
Alignment explanation
Indices: 52483377--52483544 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
52483367 CGGAATATAA
52483377 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
52483417 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
52483457 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
52483497 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
52483537 CCGGATAT
1 CCGGATAT
52483545 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:52483527 original size:80 final size:80
Alignment explanation
Indices: 52483393--52483542 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
52483383 ATAATCACGT
*
52483393 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
52483457 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
52483473 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
52483536 CCCGGAT
64 CCCGGAT
52483543 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:52495690 original size:43 final size:43
Alignment explanation
Indices: 52495632--52495774 Score: 151
Period size: 43 Copynumber: 3.5 Consensus size: 43
52495622 GGGCTTCAAC
52495632 CCCCTAAGCAATAGGGTAACAAGCCAAATTTTCAAACCTTAAA
1 CCCCTAAGCAATAGGGTAACAAGCCAAATTTTCAAACCTTAAA
* ** * * *
52495675 CCCCTAAGCAGTAGGG--A-AA--C--A-GGTC-GAGCTTTAA
1 CCCCTAAGCAATAGGGTAACAAGCCAAATTTTCAAACCTTAAA
52495709 CCCCTAAGCAATAGGGTAACAAGCCAAATTTTCAAACCTTAAA
1 CCCCTAAGCAATAGGGTAACAAGCCAAATTTTCAAACCTTAAA
* *
52495752 CCCCTAAGCAGTAGGGAAACAAG
1 CCCCTAAGCAATAGGGTAACAAG
52495775 TCGAGCTTTA
Statistics
Matches: 77, Mismatches: 14, Indels: 18
0.71 0.13 0.17
Matches are distributed among these distances:
34 21 0.27
35 2 0.03
36 2 0.03
37 2 0.03
38 1 0.01
39 1 0.01
40 2 0.03
41 2 0.03
42 2 0.03
43 42 0.55
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.18
Consensus pattern (43 bp):
CCCCTAAGCAATAGGGTAACAAGCCAAATTTTCAAACCTTAAA
Found at i:52495716 original size:34 final size:34
Alignment explanation
Indices: 52495673--52495808 Score: 119
Period size: 34 Copynumber: 3.7 Consensus size: 34
52495663 TCAAACCTTA
*
52495673 AACCCCTAAGCAGTAGGGAAACAGGTCGAGCTTT
1 AACCCCTAAGCAGTAGGGAAACAAGTCGAGCTTT
* * * * *
52495707 AACCCCTAAGCAATAGGGTAACAAGCCAAATTTTCAAACCTTA
1 AACCCCTAAGCAGTAGGG--A-AA--C-AA--GTC-GAGCTTT
52495750 AACCCCTAAGCAGTAGGGAAACAAGTCGAGCTTT
1 AACCCCTAAGCAGTAGGGAAACAAGTCGAGCTTT
* *
52495784 AACCCCTAAGCAGTGGGGTAACAAG
1 AACCCCTAAGCAGTAGGGAAACAAG
52495809 CTGAATTTTG
Statistics
Matches: 80, Mismatches: 13, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
34 44 0.55
35 2 0.03
36 1 0.01
37 4 0.05
38 1 0.01
39 1 0.01
40 3 0.04
41 1 0.01
42 2 0.03
43 21 0.26
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.18
Consensus pattern (34 bp):
AACCCCTAAGCAGTAGGGAAACAAGTCGAGCTTT
Found at i:52495724 original size:77 final size:77
Alignment explanation
Indices: 52495632--52495851 Score: 334
Period size: 77 Copynumber: 2.8 Consensus size: 77
52495622 GGGCTTCAAC
*
52495632 CCCCTAAGCAATAGGGTAACAAGCCAAATTTTCAAACCTTAAACCCCTAAGCAGTAGGGAAACAG
1 CCCCTAAGCAATAGGGTAACAAGCCAAATTTTCAAACCTTAAACCCCTAAGCAGTAGGGAAACAA
52495697 GTCGAGCTTTAA
66 GTCGAGCTTTAA
52495709 CCCCTAAGCAATAGGGTAACAAGCCAAATTTTCAAACCTTAAACCCCTAAGCAGTAGGGAAACAA
1 CCCCTAAGCAATAGGGTAACAAGCCAAATTTTCAAACCTTAAACCCCTAAGCAGTAGGGAAACAA
52495774 GTCGAGCTTTAA
66 GTCGAGCTTTAA
* * ** * * * *
52495786 CCCCTAAGCAGTGGGGTAACAAGCTGAATTTTGAAGATCTT-ATCATCCTAAGCAGTAGGGAAAC
1 CCCCTAAGCAATAGGGTAACAAGCCAAATTTTCAA-ACCTTAAAC-CCCTAAGCAGTAGGGAAAC
52495850 AA
64 AA
52495852 ATCAATGATG
Statistics
Matches: 132, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
77 108 0.82
78 24 0.18
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.20
Consensus pattern (77 bp):
CCCCTAAGCAATAGGGTAACAAGCCAAATTTTCAAACCTTAAACCCCTAAGCAGTAGGGAAACAA
GTCGAGCTTTAA
Found at i:52514993 original size:40 final size:40
Alignment explanation
Indices: 52514938--52515121 Score: 230
Period size: 40 Copynumber: 4.5 Consensus size: 40
52514928 TATTCGGATG
52514938 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
*
52514978 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAGTTGCT
* * *
52515021 ATACCCGGGCTAAGTCCCGAAGGCATTTATGCCAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
* *
52515061 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
* *
52515101 ATATCC-GGCTAAATCCTGAAG
1 ATATCCGGGCTAAGTCCCGAAG
52515122 ATACTTGGGT
Statistics
Matches: 126, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
39 14 0.11
40 74 0.59
41 2 0.02
43 34 0.27
44 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
Found at i:52515081 original size:83 final size:80
Alignment explanation
Indices: 52514942--52515121 Score: 263
Period size: 83 Copynumber: 2.2 Consensus size: 80
52514932 CGGATGATAT
* * *
52514942 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCGAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTATGCCAGTGACTATATCCGGGCGAAGACCCGAAGGCATTTG
52515007 TGCGAGTAGTTGCTATAC
66 TGC-A--AGTTGCTATAC
*
52515025 CCGGGCTAAGTCCCGAAGGCATTTATGCCAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTATGCCAGTGACTATATCCGGGCGAAGACCCGAAGGCATTTG
*
52515090 TGCAAGTTGCTATAT
66 TGCAAGTTGCTATAC
* *
52515105 CC-GGCTAAATCCTGAAG
1 CCGGGCTAAGTCCCGAAG
52515122 ATACTTGGGT
Statistics
Matches: 90, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
79 13 0.14
80 12 0.13
82 1 0.01
83 64 0.71
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTATGCCAGTGACTATATCCGGGCGAAGACCCGAAGGCATTTG
TGCAAGTTGCTATAC
Found at i:52517620 original size:48 final size:48
Alignment explanation
Indices: 52517549--52517782 Score: 328
Period size: 48 Copynumber: 4.9 Consensus size: 48
52517539 CGTGACACCG
* *
52517549 TGATAAATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGA
1 TGATATATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGA
*
52517597 TGATATATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACGA
1 TGATATATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGA
* *
52517645 TGATATATGTGCCTGTGTAAGACCATGTCTAGGACATGGCATCGGCGA
1 TGATATATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGA
* * * *
52517693 TGATATGTGTGCCAGTGTAAAACCATGTTTGGGACATGGCATCAGCGA
1 TGATATATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGA
* * *
52517741 TGATATGTG-GATTCA-TGTAAGACCATGTCAGGGACATGGCAT
1 TGATATATGTG--CCAGTGTAAGACCATGTCTGGGACATGGCAT
52517783 TGGTACTTTA
Statistics
Matches: 168, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
47 1 0.01
48 165 0.98
49 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.26
Consensus pattern (48 bp):
TGATATATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGA
Found at i:52524604 original size:13 final size:15
Alignment explanation
Indices: 52524577--52524605 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
52524567 TGGCCACATG
52524577 GGTGTGTGCCACACA
1 GGTGTGTGCCACACA
52524592 GGTGTGTGCCACAC
1 GGTGTGTGCCACAC
52524606 GGTCGGTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.28, G:0.34, T:0.21
Consensus pattern (15 bp):
GGTGTGTGCCACACA
Found at i:52525001 original size:20 final size:22
Alignment explanation
Indices: 52524958--52525003 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
52524948 GTCCCTAGGT
* *
52524958 CACACAGGTGTGTGCCTCCTTC
1 CACACAGGCGTATGCCTCCTTC
52524980 CACACAGGCGTATGCC-CC-TC
1 CACACAGGCGTATGCCTCCTTC
52525000 CACA
1 CACA
52525004 TGGGCGTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 6 0.27
21 2 0.09
22 14 0.64
ACGTcount: A:0.20, C:0.41, G:0.20, T:0.20
Consensus pattern (22 bp):
CACACAGGCGTATGCCTCCTTC
Found at i:52532721 original size:49 final size:49
Alignment explanation
Indices: 52532653--52533037 Score: 675
Period size: 49 Copynumber: 7.9 Consensus size: 49
52532643 GTATGAGATG
* * *
52532653 TATATATGTGATACGGCCTAATGGCCAATGTGATAAATGTGAAAGTGTA
1 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
52532702 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
52532751 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
52532800 TATACATGTGATAAGGCCTAATGGCTAATGTGATGAATGTGAAAGTGTA
1 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
52532849 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
52532898 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTA
1 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
52532947 TAT--ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
1 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
52532994 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
52533038 TATATGTGTG
Statistics
Matches: 324, Mismatches: 10, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 44 0.14
49 280 0.86
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.29
Consensus pattern (49 bp):
TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:52533086 original size:48 final size:48
Alignment explanation
Indices: 52533029--52533132 Score: 199
Period size: 48 Copynumber: 2.2 Consensus size: 48
52533019 CGATGTGATG
52533029 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
*
52533077 AATGTGAAATATATGTGTGATATGTATGTGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
52533125 AATGTGAA
1 AATGTGAA
52533133 TGTTGTAACA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 55 1.00
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.33
Consensus pattern (48 bp):
AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:52535528 original size:40 final size:40
Alignment explanation
Indices: 52535479--52535649 Score: 195
Period size: 40 Copynumber: 4.3 Consensus size: 40
52535469 TCTTCGGAAT
* * *
52535479 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
52535518 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
52535558 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
52535598 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTC-GGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
52535637 TTAGCCCGGATAT
1 TTAGCCCGGATAT
52535650 CATTCAAATG
Statistics
Matches: 110, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 19 0.17
40 90 0.82
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:52543634 original size:40 final size:40
Alignment explanation
Indices: 52543585--52543755 Score: 195
Period size: 40 Copynumber: 4.3 Consensus size: 40
52543575 TCTTCGGAAT
* * *
52543585 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
52543624 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
52543664 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
52543704 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTC-GGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
52543743 TTAGCCCGGATAT
1 TTAGCCCGGATAT
52543756 CATTCAAATG
Statistics
Matches: 110, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 19 0.17
40 90 0.82
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:52550377 original size:43 final size:43
Alignment explanation
Indices: 52550325--52550438 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 43
52550315 ATCTCATATT
* *
52550325 GATGGCAATGTCCTAGACATGCTCTTACACGAAATCA-TATAAC
1 GATGCCAATGTCCTAGACATGCTCTTACACGAAATCACAAT-AC
* * *
52550368 GATGCCAATGTCCTAAACATGGTCTTACACGTAATCACAATAC
1 GATGCCAATGTCCTAGACATGCTCTTACACGAAATCACAATAC
* *
52550411 AATTCCAATGTCCTAGACAT-CATCTTAC
1 GATGCCAATGTCCTAGACATGC-TCTTAC
52550439 TGTAATCACA
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
43 58 0.97
44 2 0.03
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.27
Consensus pattern (43 bp):
GATGCCAATGTCCTAGACATGCTCTTACACGAAATCACAATAC
Found at i:52553616 original size:96 final size:96
Alignment explanation
Indices: 52553511--52553694 Score: 287
Period size: 96 Copynumber: 1.9 Consensus size: 96
52553501 ATGTCAATGC
* * *
52553511 CGATGCCATGTCCCAGACATGGTCTTAGACTAGCACACATATCAACACCGATGCCATGTCCCAGA
1 CGATGCCATGTCCCAGACATCGACTTACACTAGCACACATATCAACACCGATGCCATGTCCCAGA
52553576 CATGGTCGTACACTGGCTCACATATCAACAT
66 CATGGTCGTACACTGGCTCACATATCAACAT
* * * * *
52553607 CGATTCCATGTCCCAGACATCGACTTACACTGGCTCACATATCAACGCTGATGCCATGTCCCAGA
1 CGATGCCATGTCCCAGACATCGACTTACACTAGCACACATATCAACACCGATGCCATGTCCCAGA
*
52553672 CATGGTCTTACACTGGCTCACAT
66 CATGGTCGTACACTGGCTCACAT
52553695 TAACCACGGT
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
96 79 1.00
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.23
Consensus pattern (96 bp):
CGATGCCATGTCCCAGACATCGACTTACACTAGCACACATATCAACACCGATGCCATGTCCCAGA
CATGGTCGTACACTGGCTCACATATCAACAT
Found at i:52553682 original size:48 final size:47
Alignment explanation
Indices: 52553512--52553694 Score: 258
Period size: 48 Copynumber: 3.8 Consensus size: 47
52553502 TGTCAATGCC
* * * *
52553512 GATGCCATGTCCCAGACATGGTCTTAGACTAGCACACATATCAACACC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAC-CT
* *
52553560 GATGCCATGTCCCAGACATGGTCGTACACTGGCTCACATATCAACAT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACCT
* * *
52553607 CGATTCCATGTCCCAGACATCGACTTACACTGGCTCACATATCAACGCT
1 -GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAC-CT
52553656 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT
52553695 TAACCACGGT
Statistics
Matches: 119, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
48 118 0.99
49 1 0.01
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.23
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACCT
Found at i:52555239 original size:26 final size:26
Alignment explanation
Indices: 52555210--52555286 Score: 64
Period size: 28 Copynumber: 2.8 Consensus size: 26
52555200 TCTCTTTGAA
* * *
52555210 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
52555236 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
* * *
52555264 CCATTATCAATATTTCGTACACT
1 TCA-T-TCAATATCTCGCACACT
52555287 GAGTACCATA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 3 0.07
27 1 0.02
28 38 0.90
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.36
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:52555255 original size:28 final size:28
Alignment explanation
Indices: 52555224--52555295 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
52555214 TCGATATTTT
* *
52555224 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTATCAATATCTC
*
52555252 GCACACTAAGTGCCATTATCAATATTTC
1 GCACACTAAGTGCCATTATCAATATCTC
* * *
52555280 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
52555296 ATTTGATTGC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCCATTATCAATATCTC
Found at i:52556611 original size:21 final size:21
Alignment explanation
Indices: 52556587--52556642 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
52556577 TTTTCTAAAC
52556587 CCACTTGACCTTAAAGTCATA
1 CCACTTGACCTTAAAGTCATA
52556608 CCACTTGACCTTAAAGTCATA
1 CCACTTGACCTTAAAGTCATA
*
52556629 CCACTTGAACTTAA
1 CCACTTGACCTTAA
52556643 TAAATCGCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.34, C:0.29, G:0.09, T:0.29
Consensus pattern (21 bp):
CCACTTGACCTTAAAGTCATA
Found at i:52558445 original size:141 final size:141
Alignment explanation
Indices: 52558191--52558498 Score: 465
Period size: 141 Copynumber: 2.2 Consensus size: 141
52558181 TTTCACACGC
* * *
52558191 AATTTCTTTATGAAATTTTCACAAAAGAATGAAAACATATCATAGGCCTTATAATAATCATAAAA
1 AATTTCTTCACGAAATTTTCACACAAGAATGAAAACATATCATAGGCCTTATAATAATCATAAAA
* * * * *
52558256 TAATTATTTCTATTTCAAATTTGTGGTCTCGAAACCACTGTTCTGACTAGGCCCTAATTCGGGAT
66 TAATTATTTATATTTCAAACTTATGGTCTCAAAACCACTATTCTGACTAGGCCCTAATTCGGGAT
52558321 GTTACAGGTAA
131 GTTACAGGTAA
* *
52558332 AATTTCTTCACGAAATTTTCACACAAGCAT-ACAAACATATCTTAGGCCTTATAATAATCATAAA
1 AATTTCTTCACGAAATTTTCACACAAGAATGA-AAACATATCATAGGCCTTATAATAATCATAAA
* * *
52558396 CTAATTATTTATATTTTAGACTTATGGTCTCAAAACCACTATTCTGACTAGGCCCTAATTCGGGA
65 ATAATTATTTATATTTCAAACTTATGGTCTCAAAACCACTATTCTGACTAGGCCCTAATTCGGGA
*
52558461 TGTTATAGGTAA
130 TGTTACAGGTAA
*
52558473 AATTTCTTCACGAAATTTTTACACAA
1 AATTTCTTCACGAAATTTTCACACAA
52558499 CCCTAATATC
Statistics
Matches: 151, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
140 1 0.01
141 150 0.99
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (141 bp):
AATTTCTTCACGAAATTTTCACACAAGAATGAAAACATATCATAGGCCTTATAATAATCATAAAA
TAATTATTTATATTTCAAACTTATGGTCTCAAAACCACTATTCTGACTAGGCCCTAATTCGGGAT
GTTACAGGTAA
Found at i:52558529 original size:141 final size:141
Alignment explanation
Indices: 52558243--52558530 Score: 373
Period size: 141 Copynumber: 2.0 Consensus size: 141
52558233 TAGGCCTTAT
* * * * *
52558243 AATAATCATAAAATAATTATTTCTATTTCAAATTTGTGGTCTCGAAACCACTGTTCTGACTAGGC
1 AATAATCATAAAATAATTATTTATATTTCAAACTTATGGTCTCAAAACCACTATTCTGACTAGGC
* *
52558308 CCTAATTCGGGATGTTACAGGTAAAATTTCTTCACGAAATTTTCACACAAGCATACAAACATATC
66 CCTAATTCGGGATGTTACAGGTAAAATTTCTTCACGAAATTTTCACACAACCATACAAACATAGC
** * *
52558373 TTAGGCCTTAT
131 TTAAACATTAA
* * *
52558384 AATAATCATAAACTAATTATTTATATTTTAGACTTATGGTCTCAAAACCACTATTCTGACTAGGC
1 AATAATCATAAAATAATTATTTATATTTCAAACTTATGGTCTCAAAACCACTATTCTGACTAGGC
* * * *
52558449 CCTAATTCGGGATGTTATAGGTAAAATTTCTTCACGAAATTTTTACACAACCCTA-ATATCAT-G
66 CCTAATTCGGGATGTTACAGGTAAAATTTCTTCACGAAATTTTCACACAACCATACA-AACATAG
*
52558512 CTGTAAATATTAA
130 CT-TAAACATTAA
52558525 AATAAT
1 AATAAT
52558531 AAAATAAATT
Statistics
Matches: 126, Mismatches: 19, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
140 3 0.02
141 123 0.98
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (141 bp):
AATAATCATAAAATAATTATTTATATTTCAAACTTATGGTCTCAAAACCACTATTCTGACTAGGC
CCTAATTCGGGATGTTACAGGTAAAATTTCTTCACGAAATTTTCACACAACCATACAAACATAGC
TTAAACATTAA
Found at i:52569473 original size:20 final size:20
Alignment explanation
Indices: 52569448--52569485 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
52569438 ACAATGAAGG
52569448 AATAAAATATACTA-AAATGA
1 AATAAAATA-ACTACAAATGA
52569468 AATAAAATAACTACAAAT
1 AATAAAATAACTACAAAT
52569486 AAACTCTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.66, C:0.08, G:0.03, T:0.24
Consensus pattern (20 bp):
AATAAAATAACTACAAATGA
Found at i:52574630 original size:8 final size:8
Alignment explanation
Indices: 52574617--52574642 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
52574607 ATTTACCAAC
52574617 TTTTATTA
1 TTTTATTA
52574625 TTTTATTA
1 TTTTATTA
52574633 TTTTATTA
1 TTTTATTA
52574641 TT
1 TT
52574643 CTGAATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTATTA
Found at i:52582233 original size:12 final size:12
Alignment explanation
Indices: 52582218--52582242 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
52582208 GGTAAGTTTT
52582218 CGAGTAATGAAA
1 CGAGTAATGAAA
52582230 CGAGTAATGAAA
1 CGAGTAATGAAA
52582242 C
1 C
52582243 TTAGTTTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.12, G:0.24, T:0.16
Consensus pattern (12 bp):
CGAGTAATGAAA
Found at i:52582585 original size:40 final size:40
Alignment explanation
Indices: 52582530--52582710 Score: 276
Period size: 40 Copynumber: 4.5 Consensus size: 40
52582520 TATTCGGATG
*
52582530 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
52582570 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
**
52582610 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
52582650 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
52582690 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
52582711 ATACTTGGGT
Statistics
Matches: 130, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 13 0.10
40 115 0.88
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:52587930 original size:40 final size:40
Alignment explanation
Indices: 52587835--52588014 Score: 260
Period size: 40 Copynumber: 4.5 Consensus size: 40
52587825 TATTCGGATG
*
52587835 ATATCCGGGCTAAGTCCCGAAGGCATTTTGTGCTAGTTAC-
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCTAGTGACT
52587875 -TATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
**
52587914 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
52587954 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
52587994 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
52588015 ATACTTGGGT
Statistics
Matches: 128, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
38 13 0.10
39 37 0.29
40 76 0.59
41 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:52596082 original size:40 final size:40
Alignment explanation
Indices: 52596027--52596246 Score: 286
Period size: 40 Copynumber: 5.5 Consensus size: 40
52596017 TATTCGGATG
52596027 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
52596067 ATATCCGGGCTAAGTCCCGAAGGCA-TTGTG-AGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCA--AGTTACT
* * *
52596107 ATA-CCCGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
52596146 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
52596186 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
52596226 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
52596247 ATACTTGGGT
Statistics
Matches: 159, Mismatches: 16, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
38 1 0.01
39 46 0.29
40 112 0.70
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:52596165 original size:79 final size:80
Alignment explanation
Indices: 52596027--52596246 Score: 297
Period size: 79 Copynumber: 2.8 Consensus size: 80
52596017 TATTCGGATG
* *
52596027 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCCGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
* *
52596092 TT-GTGAGTAGTTG-CT
66 TTCATG-CTAG-TGACT
*
52596107 ATA-CCCGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCCGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
52596171 TTCATGCTAGTGACT
66 TTCATGCTAGTGACT
* * * *
52596186 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 ATATCCCGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
52596247 ATACTTGGGT
Statistics
Matches: 127, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
78 2 0.02
79 82 0.65
80 41 0.32
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATATCCCGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
TTCATGCTAGTGACT
Found at i:52596243 original size:119 final size:119
Alignment explanation
Indices: 52596027--52596246 Score: 352
Period size: 119 Copynumber: 1.8 Consensus size: 119
52596017 TATTCGGATG
** * *
52596027 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCA
*
52596092 TTGTGAGTAGTTGCTATACCCGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
66 TTGTGAGTAGTTGCTATACCCGGCTAAATCCCGAAGGCATTTGTGCTAGTGACT
*
52596146 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
52596211 TTTGTGCG-AGTTGCTATATCCGGCTAAATCCCGAAG
66 -TTGTGAGTAGTTGCTATACCCGGCTAAATCCCGAAG
52596247 ATACTTGGGT
Statistics
Matches: 92, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
119 86 0.93
120 6 0.07
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (119 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTGTGAGTAGTTGCTATACCCGGCTAAATCCCGAAGGCATTTGTGCTAGTGACT
Found at i:52601949 original size:58 final size:58
Alignment explanation
Indices: 52601856--52602022 Score: 184
Period size: 58 Copynumber: 2.9 Consensus size: 58
52601846 TTTTTATACT
*
52601856 ATTATATATTATAATTTT-TT-AATTCATA--TAATAATAATTATATTAAGAATTTTATTAA
1 ATTATATATTAT--TTTTATTAAATT-ATATTTAATAATAATTATATTAA-AATTTGATTAA
* * * *
52601914 ATTATATATTA-TTTTATTAAATTATATTTAGTAATAATCATGTTAAAATATGATTAA
1 ATTATATATTATTTTTATTAAATTATATTTAATAATAATTATATTAAAATTTGATTAA
* *
52601971 ATTATTTATTATTTTTATTAAATTATTTTTAATAATAATCT-TATTAAAATTT
1 ATTATATATTATTTTTATTAAATTATATTTAATAATAAT-TATATTAAAATTT
52602023 AATAATAATA
Statistics
Matches: 92, Mismatches: 11, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
55 4 0.04
56 5 0.05
57 23 0.25
58 60 0.65
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (58 bp):
ATTATATATTATTTTTATTAAATTATATTTAATAATAATTATATTAAAATTTGATTAA
Found at i:52602189 original size:24 final size:23
Alignment explanation
Indices: 52602157--52602221 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 23
52602147 AATAATTTTA
52602157 TATT-AAATT-TATTATTAAATAT
1 TATTAAAATTATATTATT-AATAT
* *
52602179 TATTAATAATTATATTAATAATGT
1 TATTAA-AATTATATTATTAATAT
52602203 TATTAAAATATATATTATT
1 TATTAAAAT-TATATTATT
52602222 TTATTAAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
22 4 0.11
23 4 0.11
24 22 0.61
25 6 0.17
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TATTAAAATTATATTATTAATAT
Found at i:52602194 original size:12 final size:12
Alignment explanation
Indices: 52602154--52602219 Score: 52
Period size: 12 Copynumber: 5.7 Consensus size: 12
52602144 AATAATAATT
52602154 TTATATT-A-AA
1 TTATATTAATAA
*
52602164 TT-TATTATTAA
1 TTATATTAATAA
*
52602175 ATATTATTAATAA
1 TTA-TATTAATAA
52602188 TTATATTAATAA
1 TTATATTAATAA
52602200 TGT-TATTAA-AA
1 T-TATATTAATAA
52602211 TATATATTA
1 T-TATATTA
52602220 TTTTATTAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
9 4 0.09
10 2 0.04
11 7 0.16
12 21 0.47
13 11 0.24
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (12 bp):
TTATATTAATAA
Found at i:52602475 original size:44 final size:46
Alignment explanation
Indices: 52602405--52602494 Score: 121
Period size: 44 Copynumber: 2.0 Consensus size: 46
52602395 ATTACAACAT
52602405 CATTCCATTCAACCAAACACAAGAATT-CT-ATTACAGCTCTATTC
1 CATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTATTC
* *** *
52602449 CATTCCATTTAACCAAACAGTTGAATTATTGATTACAGCTCTATTC
1 CATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTATTC
52602495 AATTACAACC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
44 23 0.59
45 1 0.03
46 15 0.38
ACGTcount: A:0.34, C:0.26, G:0.07, T:0.33
Consensus pattern (46 bp):
CATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTATTC
Found at i:52613260 original size:30 final size:29
Alignment explanation
Indices: 52613221--52613287 Score: 107
Period size: 30 Copynumber: 2.3 Consensus size: 29
52613211 TTTTAGCAAA
*
52613221 AAACTCTCAAATTTCTCCCTATATTTCTC
1 AAACTCTCAAATTTCTCCCTAAATTTCTC
*
52613250 AAAGCTCTCAAATTTCTCCTTAAATTTCTC
1 AAA-CTCTCAAATTTCTCCCTAAATTTCTC
52613280 AAACTCTC
1 AAACTCTC
52613288 TTTAATTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 8 0.23
30 27 0.77
ACGTcount: A:0.30, C:0.30, G:0.01, T:0.39
Consensus pattern (29 bp):
AAACTCTCAAATTTCTCCCTAAATTTCTC
Found at i:52615351 original size:21 final size:21
Alignment explanation
Indices: 52615325--52615368 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
52615315 CCCACAATCA
52615325 GAGCAACCACAACACCCGCTG
1 GAGCAACCACAACACCCGCTG
* *
52615346 GAGCAACCACAACTCCCGTTG
1 GAGCAACCACAACACCCGCTG
52615367 GA
1 GA
52615369 AGCTGAACCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.32, C:0.39, G:0.20, T:0.09
Consensus pattern (21 bp):
GAGCAACCACAACACCCGCTG
Found at i:52621790 original size:10 final size:11
Alignment explanation
Indices: 52621771--52621800 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
52621761 TTTGCCTAAG
52621771 ATGTGAATTGA
1 ATGTGAATTGA
52621782 ATG-GAATTGA
1 ATGTGAATTGA
52621792 ATGTGAATT
1 ATGTGAATT
52621801 TTATTAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.37, C:0.00, G:0.27, T:0.37
Consensus pattern (11 bp):
ATGTGAATTGA
Found at i:52625504 original size:37 final size:37
Alignment explanation
Indices: 52625454--52625529 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
52625444 ATGATCAATG
*
52625454 TTGTTGTGATTAGCCAAATG-TAT-TGGCTTATAATGAT
1 TTGTTGTGATTAGCC--ATGAGATGTGGCTTATAATGAT
52625491 TTGTTGT-ATTTAGCCATGAGATGTGGCTTATAATGAT
1 TTGTTGTGA-TTAGCCATGAGATGTGGCTTATAATGAT
52625528 TT
1 TT
52625530 TGGCTTGTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
35 3 0.09
36 3 0.09
37 29 0.83
ACGTcount: A:0.25, C:0.08, G:0.22, T:0.45
Consensus pattern (37 bp):
TTGTTGTGATTAGCCATGAGATGTGGCTTATAATGAT
Found at i:52628035 original size:2 final size:2
Alignment explanation
Indices: 52628028--52628053 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
52628018 ATGAAAGTGC
52628028 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
52628054 CTTAAGAGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:52631725 original size:37 final size:37
Alignment explanation
Indices: 52631674--52631749 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
52631664 ATGATCGATG
*
52631674 TTGTTGTGATTAGCCAAATG-TAT-TGGCTTATAATGAT
1 TTGTTGTGATTAGCC--ATGAGATGTGGCTTATAATGAT
52631711 TTGTTGT-ATGTAGCCATGAGATGTGGCTTATAATGAT
1 TTGTTGTGAT-TAGCCATGAGATGTGGCTTATAATGAT
52631748 TT
1 TT
52631750 TTGCTTGTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
35 3 0.09
36 4 0.11
37 28 0.80
ACGTcount: A:0.25, C:0.08, G:0.24, T:0.43
Consensus pattern (37 bp):
TTGTTGTGATTAGCCATGAGATGTGGCTTATAATGAT
Found at i:52643752 original size:58 final size:59
Alignment explanation
Indices: 52643634--52643795 Score: 195
Period size: 58 Copynumber: 2.8 Consensus size: 59
52643624 GTGACGAGAT
* *
52643634 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGC-ATGCTGGAAAAATA
1 TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGATGCTCGAAAAATA
***
52643692 TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGATGCTCGAAAAATA
* ** * **
52643750 TGGCACTGTGTGTGCGGGCT-TAAATCGCATGGCACTAAGTGTGCGA
1 TGGCACTGAGTGTGCATGCTGGAAAT-ATATGGCACTAAGTGTGCGA
52643796 AATCGAGTAT
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
57 4 0.04
58 86 0.95
59 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (59 bp):
TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGATGCTCGAAAAATA
Found at i:52643756 original size:29 final size:29
Alignment explanation
Indices: 52643634--52643735 Score: 186
Period size: 29 Copynumber: 3.5 Consensus size: 29
52643624 GTGACGAGAT
52643634 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
52643663 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
52643692 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
52643721 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
52643736 GAGCTCGAAG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 69 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:52651581 original size:58 final size:59
Alignment explanation
Indices: 52651463--52651624 Score: 195
Period size: 58 Copynumber: 2.8 Consensus size: 59
52651453 GTGACGAGAT
* *
52651463 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGC-ATGCTGGAAAAATA
1 TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGATGCTCGAAAAATA
***
52651521 TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGATGCTCGAAAAATA
* ** * **
52651579 TGGCACTGTGTGTGCGGGCT-TAAATCGCATGGCACTAAGTGTGCGA
1 TGGCACTGAGTGTGCATGCTGGAAAT-ATATGGCACTAAGTGTGCGA
52651625 AATCGAGTAT
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
57 4 0.04
58 86 0.95
59 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (59 bp):
TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGATGCTCGAAAAATA
Found at i:52651585 original size:29 final size:29
Alignment explanation
Indices: 52651463--52651564 Score: 186
Period size: 29 Copynumber: 3.5 Consensus size: 29
52651453 GTGACGAGAT
52651463 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
52651492 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
52651521 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
52651550 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
52651565 GAGCTCGAAG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 69 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Done.