Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 162 of 310
Found at i:53064884 original size:14 final size:14
Alignment explanation
Indices: 53064844--53064887 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
53064834 AAGGATTCAA
53064844 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
53064858 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
53064873 AGATGGGTTTATGG
1 AGATGGGTTTATGG
53064887 A
1 A
53064888 TATAAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:53065922 original size:14 final size:14
Alignment explanation
Indices: 53065880--53065924 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
53065870 TTAAAGAAGC
53065880 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
53065894 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
53065907 AACTCATTTAATTA
1 AACTCATTAAATTA
53065921 AACT
1 AACT
53065925 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:53068389 original size:18 final size:18
Alignment explanation
Indices: 53068368--53068414 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
53068358 AAACTCTTTT
53068368 TCATTCTCTTTCTCAATC
1 TCATTCTCTTTCTCAATC
* * *
53068386 TCATTTTCTTTTTCACTC
1 TCATTCTCTTTCTCAATC
*
53068404 TCAATCTCTTT
1 TCATTCTCTTT
53068415 TTCTTTTTCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.15, C:0.30, G:0.00, T:0.55
Consensus pattern (18 bp):
TCATTCTCTTTCTCAATC
Found at i:53068423 original size:24 final size:24
Alignment explanation
Indices: 53068343--53068420 Score: 102
Period size: 24 Copynumber: 3.2 Consensus size: 24
53068333 CTTGTTCACA
*
53068343 TTCTTTCTCTCTCTCAAACTCTTT
1 TTCTTTCTCTCTCTCAATCTCTTT
* * *
53068367 TTCATTCTCTTTCTCAATCTCATT
1 TTCTTTCTCTCTCTCAATCTCTTT
* *
53068391 TTCTTTTTCACTCTCAATCTCTTT
1 TTCTTTCTCTCTCTCAATCTCTTT
53068415 TTCTTT
1 TTCTTT
53068421 TTCTTTCATT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.13, C:0.29, G:0.00, T:0.58
Consensus pattern (24 bp):
TTCTTTCTCTCTCTCAATCTCTTT
Found at i:53069376 original size:15 final size:15
Alignment explanation
Indices: 53069356--53069403 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
53069346 TCAAAGATGG
53069356 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
53069371 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
53069385 GTTTATGGATATAAA
1 GTTTATGGATATGAA
53069400 GTTT
1 GTTT
53069404 TTATAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:53069390 original size:14 final size:14
Alignment explanation
Indices: 53069350--53069393 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
53069340 AAGGATTCAA
53069350 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
53069364 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
53069379 AGATGGGTTTATGG
1 AGATGGGTTTATGG
53069393 A
1 A
53069394 TATAAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:53070426 original size:14 final size:14
Alignment explanation
Indices: 53070384--53070428 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
53070374 TTAAAGAAGC
53070384 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
53070398 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
53070411 AACTCATTTAATTA
1 AACTCATTAAATTA
53070425 AACT
1 AACT
53070429 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:53074753 original size:14 final size:14
Alignment explanation
Indices: 53074734--53074762 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
53074724 ATGTGCCTCA
53074734 TGCAAAATTTTCCG
1 TGCAAAATTTTCCG
53074748 TGCAAAATTTTCCG
1 TGCAAAATTTTCCG
53074762 T
1 T
53074763 ATAAGTTCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.38
Consensus pattern (14 bp):
TGCAAAATTTTCCG
Found at i:53078594 original size:30 final size:30
Alignment explanation
Indices: 53078560--53078620 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
53078550 TCCTTAACTC
53078560 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
53078590 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
53078620 A
1 A
53078621 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:53080592 original size:10 final size:10
Alignment explanation
Indices: 53080573--53080619 Score: 51
Period size: 11 Copynumber: 4.6 Consensus size: 10
53080563 TTCTCAATTC
53080573 ATCA-ACCAA
1 ATCATACCAA
53080582 ATCATACCAA
1 ATCATACCAA
*
53080592 ATCTAAACCAA
1 ATC-ATACCAA
53080603 ATTCATACCAA
1 A-TCATACCAA
*
53080614 AGCATA
1 ATCATA
53080620 TGTTTCATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 4 0.12
10 12 0.38
11 14 0.44
12 2 0.06
ACGTcount: A:0.51, C:0.28, G:0.02, T:0.19
Consensus pattern (10 bp):
ATCATACCAA
Found at i:53081423 original size:42 final size:43
Alignment explanation
Indices: 53081322--53081485 Score: 138
Period size: 43 Copynumber: 3.8 Consensus size: 43
53081312 AGCTCATACA
* * *
53081322 ATGCCAACGTCCTAGAC-GTGGTCTTACATGTAATCAAATATAG
1 ATGCCAACGTCCCAGACAG-GGTCTTACACGAAATCAAATATAG
* *
53081365 ATGCC-ACTGTCCCAGACAGGGTCTTACACGAAATCAAGTA-CG
1 ATGCCAAC-GTCCCAGACAGGGTCTTACACGAAATCAAATATAG
* * * * *
53081407 ATGCCAACATCCCAGACATGATCTTACACGTAAACCATAAGTATAT
1 ATGCCAACGTCCCAGACAGGGTCTTACACG-AAATCA-AA-TATAG
* *
53081453 ATGCCAACGTCCTAGGC-GTGGTCTTACACGAAA
1 ATGCCAACGTCCCAGACAG-GGTCTTACACGAAA
53081486 ACACATATCG
Statistics
Matches: 96, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
42 27 0.28
43 38 0.40
44 2 0.02
45 5 0.05
46 24 0.25
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACAGGGTCTTACACGAAATCAAATATAG
Found at i:53088808 original size:15 final size:15
Alignment explanation
Indices: 53088763--53088812 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 15
53088753 CTTTTTGTTC
*
53088763 TCTTTTATTCTCTTTT
1 TCTTTCATT-TCTTTT
53088779 TCTTTCTCAATTTCTTTT
1 TC-TT-TC-ATTTCTTTT
53088797 TCTTTCATTTCTTTT
1 TCTTTCATTTCTTTT
53088812 T
1 T
53088813 TTATCTCTCG
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
15 10 0.33
16 4 0.13
17 4 0.13
18 9 0.30
19 3 0.10
ACGTcount: A:0.08, C:0.20, G:0.00, T:0.72
Consensus pattern (15 bp):
TCTTTCATTTCTTTT
Found at i:53092711 original size:27 final size:26
Alignment explanation
Indices: 53092680--53092857 Score: 153
Period size: 27 Copynumber: 6.6 Consensus size: 26
53092670 TAAATTGTAC
53092680 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * * *
53092707 TGCACTAAGTGTACGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
*
53092733 ATGCACTAAGTGTGCGAATTGA-TCATGC
1 A-GCACTAAGTGTGCG-ATTGACT-ATGT
*
53092761 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* **
53092789 AGCACTAAGTGTGCGATTTGATTACAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
53092816 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
53092843 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
53092858 GGCTCAATAT
Statistics
Matches: 128, Mismatches: 16, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
26 2 0.02
27 101 0.79
28 24 0.19
29 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:53092848 original size:82 final size:81
Alignment explanation
Indices: 53092677--53092857 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
53092667 GATTAAATTG
* *
53092677 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTACGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTACGAAATGAATATCATGCACTAA
53092742 GTGTGCGAATTGATCA
66 GTGTGCGAATTGATCA
* * * * ** *
53092758 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTA-CATAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTACGAAATGAATATCAT-GCACT
* *
53092822 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGATCA
* *
53092840 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
53092858 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 19 0.23
82 64 0.77
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTACGAAATGAATATCATGCACTAA
GTGTGCGAATTGATCA
Found at i:53092868 original size:27 final size:27
Alignment explanation
Indices: 53092762--53092868 Score: 79
Period size: 27 Copynumber: 3.9 Consensus size: 27
53092752 TGATCATGCG
* * * *
53092762 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * *
53092790 GCACTAAGTGTGCGATTTGATTACATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
53092817 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
53092844 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
53092869 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:53099302 original size:25 final size:25
Alignment explanation
Indices: 53099274--53099327 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
53099264 TATATTTACT
*
53099274 TATAAATATATTTATATGTATATAG
1 TATAAATATATTTATATGTATATAA
** *
53099299 TATAGGTATATTTGTATGTATATAA
1 TATAAATATATTTATATGTATATAA
53099324 TATA
1 TATA
53099328 TATGAATATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (25 bp):
TATAAATATATTTATATGTATATAA
Found at i:53099329 original size:27 final size:25
Alignment explanation
Indices: 53099280--53099327 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
53099270 TACTTATAAA
*
53099280 TATATTTATATGTATATAGTATAGG
1 TATATTTATATGTATATAATATAGG
*
53099305 TATATTTGTATGTATATAATATA
1 TATATTTATATGTATATAATATA
53099328 TATGAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (25 bp):
TATATTTATATGTATATAATATAGG
Found at i:53101318 original size:19 final size:19
Alignment explanation
Indices: 53101294--53101333 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
53101284 AGCTCCCATG
53101294 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
53101313 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
53101332 TA
1 TA
53101334 TTAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:53102598 original size:14 final size:14
Alignment explanation
Indices: 53102576--53102623 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
53102566 ACCTAAACCG
* *
53102576 ACCAATTTGTTCAT
1 ACCATTTTGTTCCT
53102590 ACCATTTTGTTCCT
1 ACCATTTTGTTCCT
* *
53102604 ACCCTTTCGTTCCT
1 ACCATTTTGTTCCT
53102618 ACCATT
1 ACCATT
53102624 CCATTCGCAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (14 bp):
ACCATTTTGTTCCT
Found at i:53102993 original size:11 final size:11
Alignment explanation
Indices: 53102977--53103026 Score: 59
Period size: 11 Copynumber: 4.6 Consensus size: 11
53102967 TATACAAGTT
53102977 AAAAAAAATCA
1 AAAAAAAATCA
* *
53102988 AAAAAAATTCG
1 AAAAAAAATCA
53102999 AAAAAAAAT--
1 AAAAAAAATCA
53103008 AAAAAAAATCGA
1 AAAAAAAATC-A
53103020 AAAAAAA
1 AAAAAAA
53103027 GTGATTTATG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
9 9 0.27
11 17 0.52
12 7 0.21
ACGTcount: A:0.80, C:0.06, G:0.04, T:0.10
Consensus pattern (11 bp):
AAAAAAAATCA
Found at i:53103002 original size:20 final size:19
Alignment explanation
Indices: 53102978--53103025 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 19
53102968 ATACAAGTTA
53102978 AAAAAAATCAAAAAAAATTCG
1 AAAAAAAT-AAAAAAAA-TCG
53102999 AAAAAAAATAAAAAAAATCG
1 -AAAAAAATAAAAAAAATCG
53103019 AAAAAAA
1 AAAAAAA
53103026 AGTGATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.27
20 3 0.12
21 8 0.31
22 8 0.31
ACGTcount: A:0.79, C:0.06, G:0.04, T:0.10
Consensus pattern (19 bp):
AAAAAAATAAAAAAAATCG
Found at i:53103026 original size:20 final size:22
Alignment explanation
Indices: 53102977--53103026 Score: 86
Period size: 20 Copynumber: 2.4 Consensus size: 22
53102967 TATACAAGTT
53102977 AAAAAAAATCAAAAAAAATTCG
1 AAAAAAAATCAAAAAAAATTCG
53102999 AAAAAAAAT-AAAAAAAA-TCG
1 AAAAAAAATCAAAAAAAATTCG
53103019 AAAAAAAA
1 AAAAAAAA
53103027 GTGATTTATG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 11 0.39
21 8 0.29
22 9 0.32
ACGTcount: A:0.80, C:0.06, G:0.04, T:0.10
Consensus pattern (22 bp):
AAAAAAAATCAAAAAAAATTCG
Found at i:53108269 original size:19 final size:19
Alignment explanation
Indices: 53108245--53108284 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
53108235 AGCTCCCATG
53108245 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
53108264 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
53108283 TA
1 TA
53108285 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:53109552 original size:14 final size:14
Alignment explanation
Indices: 53109530--53109577 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
53109520 ACCTAAACCG
* *
53109530 ACCAATTTGTTCAT
1 ACCATTTTGTTCCT
53109544 ACCATTTTGTTCCT
1 ACCATTTTGTTCCT
* *
53109558 ACCCTTTCGTTCCT
1 ACCATTTTGTTCCT
53109572 ACCATT
1 ACCATT
53109578 CCATTCGTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (14 bp):
ACCATTTTGTTCCT
Found at i:53109869 original size:13 final size:13
Alignment explanation
Indices: 53109851--53109875 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53109841 ACCTACACCT
53109851 AAATTAATTCAAC
1 AAATTAATTCAAC
53109864 AAATTAATTCAA
1 AAATTAATTCAA
53109876 TTTTAGGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (13 bp):
AAATTAATTCAAC
Found at i:53114377 original size:46 final size:45
Alignment explanation
Indices: 53114310--53114479 Score: 191
Period size: 46 Copynumber: 3.7 Consensus size: 45
53114300 TGTAACCCGC
* *
53114310 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGCATTCGCAT
*
53114356 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A--T
* *** * *
53114402 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCAT
53114449 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
53114480 TTAGGATGCC
Statistics
Matches: 103, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 61 0.59
47 31 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
Found at i:53114431 original size:93 final size:93
Alignment explanation
Indices: 53114318--53114489 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
53114308 GCCCATAAGT
*
53114318 GAACTCAGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCAGACTCAACTCAACGAG-TCAGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
53114382 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTAGGATGCCTAGTTACATCTCTC
* **
53114411 GAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGTCAGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
53114476 CGAGTTAGGATGCC
66 CGAGCTAGGATGCC
53114490 CAAATATCCT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 3 0.04
93 69 0.96
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGTCAGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTAGGATGCCTAGTTACATCTCTC
Found at i:53114504 original size:46 final size:44
Alignment explanation
Indices: 53114361--53114504 Score: 98
Period size: 46 Copynumber: 3.1 Consensus size: 44
53114351 CGCATCCATA
* * *
53114361 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTAGGATGCCCA---A-ATC-CT
* * * *
53114410 --CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTAGG--ATGCCCAAATCC-T
53114453 AAGTGAACTCGGACTCAACTCAACGAGTTAGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTAGGATGCCC-AA-ATCCT
53114500 AGTGA
1 AGTGA
53114505 CATGTCACTT
Statistics
Matches: 75, Mismatches: 10, Indels: 23
0.69 0.09 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 4 0.05
46 32 0.43
47 27 0.36
48 4 0.05
49 3 0.04
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTAGGATGCCCAAATCCT
Found at i:53118678 original size:25 final size:25
Alignment explanation
Indices: 53118646--53118694 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
53118636 CAATGAAAAG
53118646 GAAGGGTGATGAAAAAAAAATGGTT
1 GAAGGGTGATGAAAAAAAAATGGTT
53118671 GAAGGGTGATGAAAAAAAAATGGT
1 GAAGGGTGATGAAAAAAAAATGGT
53118695 CTCATCCATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.33, T:0.18
Consensus pattern (25 bp):
GAAGGGTGATGAAAAAAAAATGGTT
Found at i:53118817 original size:70 final size:70
Alignment explanation
Indices: 53118695--53118836 Score: 275
Period size: 71 Copynumber: 2.0 Consensus size: 70
53118685 AAAAAATGGT
53118695 CTCATCCATACCCCCCTTGTTGCCGTGAGTTGAGGAAAGAAAACAAAAAAAAAATGTGTTCATTC
1 CTCATCCATACCCCCCTTGTTGCCGTGAGTTGAGGAAAGAAAACAAAAAAAAAATGTGTTCATTC
53118760 TTGAA
66 TTGAA
53118765 CTCATCCATACCCCCCCTTGTTGCCGTGAGTTGAGGAAAGAAAACAAAAAAAAAATGTGTTCATT
1 CTCATCCATA-CCCCCCTTGTTGCCGTGAGTTGAGGAAAGAAAACAAAAAAAAAATGTGTTCATT
53118830 CTTGAA
65 CTTGAA
53118836 C
1 C
53118837 ACCTTTGGCC
Statistics
Matches: 71, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 10 0.14
71 61 0.86
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (70 bp):
CTCATCCATACCCCCCTTGTTGCCGTGAGTTGAGGAAAGAAAACAAAAAAAAAATGTGTTCATTC
TTGAA
Found at i:53120247 original size:27 final size:27
Alignment explanation
Indices: 53120216--53120393 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
53120206 TAAATTGTAC
53120216 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
53120243 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
53120269 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
53120297 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
53120325 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
53120352 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
53120379 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
53120394 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:53120330 original size:82 final size:81
Alignment explanation
Indices: 53120217--53120372 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
53120207 AAATTGTACA
* *
53120217 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
53120281 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
53120298 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
53120363 TGCGAGTTGA
65 TGCGAATTGA
53120373 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:53120384 original size:82 final size:81
Alignment explanation
Indices: 53120213--53120393 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
53120203 GATTAAATTG
* *
53120213 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
53120278 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
53120294 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
53120358 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
53120376 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
53120394 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:53122888 original size:98 final size:98
Alignment explanation
Indices: 53122719--53122913 Score: 354
Period size: 98 Copynumber: 2.0 Consensus size: 98
53122709 AGATCGACGA
* * *
53122719 GTAAAGTTCCGTTCTCAGCTGTAAAGAAGTTCAGGTAGGACATTAATAAGTCGAGGGCGGCTGCG
1 GTAAAGCTCCGTTCTCAGCTGTAAAGAAGTTCAGGGAGGACATTAATAAGTCGAGGGCGACTGCG
*
53122784 GGAATTTCCATCAGGGCATGACCATCGATGGGG
66 GGAATTTCCATCAGGGCAAGACCATCGATGGGG
53122817 GTAAAGCTCCGTTCTCAGCTGTAAAGAAGTTCAGGGAGGACATTAATAAGTCGAGGGCGACTGCG
1 GTAAAGCTCCGTTCTCAGCTGTAAAGAAGTTCAGGGAGGACATTAATAAGTCGAGGGCGACTGCG
53122882 GGAATTTCCATCAGGGCAAGACCATCGATGGG
66 GGAATTTCCATCAGGGCAAGACCATCGATGGG
53122914 CTCCCGAGCT
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (98 bp):
GTAAAGCTCCGTTCTCAGCTGTAAAGAAGTTCAGGGAGGACATTAATAAGTCGAGGGCGACTGCG
GGAATTTCCATCAGGGCAAGACCATCGATGGGG
Found at i:53128530 original size:27 final size:27
Alignment explanation
Indices: 53128499--53128676 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
53128489 TAAATTGTAC
53128499 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
53128526 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
53128552 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
53128580 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
53128608 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
53128635 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
53128662 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
53128677 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:53128613 original size:82 final size:81
Alignment explanation
Indices: 53128500--53128655 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
53128490 AAATTGTACA
* *
53128500 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
53128564 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
53128581 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
53128646 TGCGAGTTGA
65 TGCGAATTGA
53128656 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:53128667 original size:82 final size:81
Alignment explanation
Indices: 53128496--53128676 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
53128486 GATTAAATTG
* *
53128496 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
53128561 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
53128577 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
53128641 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
53128659 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
53128677 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:53137126 original size:80 final size:80
Alignment explanation
Indices: 53136989--53137306 Score: 627
Period size: 80 Copynumber: 4.0 Consensus size: 80
53136979 TAATGATCAC
53136989 ATCTCTTAAACATAAACGTAAAACAAAAAAAAGCATGCTTACGATACAAGATTCAAAGGTAATGC
1 ATCTCTTAAACATAAACGTAAAACAAAAAAAA-CATGCTTACGATACAAGATTCAAAGGTAATGC
53137054 AGAGAATATCCTTAAT
65 AGAGAATATCCTTAAT
53137070 ATCTCTTAAACATAAACGTAAAACAAAAAAAACATGCTTACGATACAAGATTCAAAGGTAATGCA
1 ATCTCTTAAACATAAACGTAAAACAAAAAAAACATGCTTACGATACAAGATTCAAAGGTAATGCA
53137135 GAGAATATCCTTAAT
66 GAGAATATCCTTAAT
53137150 ATCTCTTAAACATAAACGTAAAACAAAAAAAACATGCTTACGATACAAGATTCAAAGGTAATGCA
1 ATCTCTTAAACATAAACGTAAAACAAAAAAAACATGCTTACGATACAAGATTCAAAGGTAATGCA
53137215 GAGAATATCCTTAAT
66 GAGAATATCCTTAAT
53137230 ATCTCTTAAACATAAACGTAAAACAAAAAAAACATGCTTACGATACAAGATTCAAAGGTAATGCA
1 ATCTCTTAAACATAAACGTAAAACAAAAAAAACATGCTTACGATACAAGATTCAAAGGTAATGCA
53137295 GAGAATATCCTT
66 GAGAATATCCTT
53137307 TCTTTTTTTC
Statistics
Matches: 237, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
80 205 0.86
81 32 0.14
ACGTcount: A:0.48, C:0.16, G:0.12, T:0.24
Consensus pattern (80 bp):
ATCTCTTAAACATAAACGTAAAACAAAAAAAACATGCTTACGATACAAGATTCAAAGGTAATGCA
GAGAATATCCTTAAT
Found at i:53145806 original size:31 final size:31
Alignment explanation
Indices: 53145748--53145806 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
53145738 AAAGTATACT
* ****
53145748 AACAGTCACTCAACTTTGATCTCAATAATAA
1 AACAGTCACTCAACTTTCAAAGAAATAATAA
53145779 AACAGTCACTCAACTTTCAAAGAAATAA
1 AACAGTCACTCAACTTTCAAAGAAATAA
53145807 CAAATCAATC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.46, C:0.22, G:0.07, T:0.25
Consensus pattern (31 bp):
AACAGTCACTCAACTTTCAAAGAAATAATAA
Found at i:53150972 original size:12 final size:11
Alignment explanation
Indices: 53150958--53151010 Score: 54
Period size: 11 Copynumber: 4.7 Consensus size: 11
53150948 AACAGGGAAG
53150958 AAAGAAAGAAA
1 AAAGAAAGAAA
*
53150969 GAA-AAAGAAA
1 AAAGAAAGAAA
*
53150979 AAGGAAAGAAA
1 AAAGAAAGAAA
*
53150990 AAGAGAAATGAAT
1 AA-AGAAA-GAAA
53151003 AAAGAAAG
1 AAAGAAAG
53151011 CCATTGCCTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
10 8 0.24
11 12 0.35
12 9 0.26
13 5 0.15
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.04
Consensus pattern (11 bp):
AAAGAAAGAAA
Found at i:53150987 original size:17 final size:18
Alignment explanation
Indices: 53150955--53150993 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
53150945 CGAAACAGGG
53150955 AAGAAAGAAAGAAAGAAA
1 AAGAAAGAAAGAAAGAAA
*
53150973 AAGAAA-AAGGAAAGAAA
1 AAGAAAGAAAGAAAGAAA
53150990 AAGA
1 AAGA
53150994 GAAATGAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (18 bp):
AAGAAAGAAAGAAAGAAA
Found at i:53151006 original size:25 final size:24
Alignment explanation
Indices: 53150955--53151010 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
53150945 CGAAACAGGG
53150955 AAGAAAGAAAGAAAGAAAAAGAAA
1 AAGAAAGAAAGAAAGAAAAAGAAA
*
53150979 AAGGAAAG-AA-AAAGAGAAATGAATA
1 AA-GAAAGAAAGAAAGA-AAAAGAA-A
53151004 AAGAAAG
1 AAGAAAG
53151011 CCATTGCCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
23 5 0.18
24 15 0.54
25 8 0.29
ACGTcount: A:0.73, C:0.00, G:0.23, T:0.04
Consensus pattern (24 bp):
AAGAAAGAAAGAAAGAAAAAGAAA
Found at i:53151036 original size:75 final size:75
Alignment explanation
Indices: 53150948--53151097 Score: 291
Period size: 75 Copynumber: 2.0 Consensus size: 75
53150938 GCAAAAACGA
*
53150948 AACAGGGAAGAAAGAAAGAAAGAAAAAGAAAAAGGAAAGAAAAAGAGAAATGAATAAAGAAAGCC
1 AACAGGGAAGAAAGAAAGAAAGAAAAAGAAAAAGGAAAGAAAAAGAGAAAAGAATAAAGAAAGCC
53151013 ATTGCCTTAG
66 ATTGCCTTAG
53151023 AACAGGGAAGAAAGAAAGAAAGAAAAAGAAAAAGGAAAGAAAAAGAGAAAAGAATAAAGAAAGCC
1 AACAGGGAAGAAAGAAAGAAAGAAAAAGAAAAAGGAAAGAAAAAGAGAAAAGAATAAAGAAAGCC
53151088 ATTGCCTTAG
66 ATTGCCTTAG
53151098 GGGTTTCAAT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.62, C:0.07, G:0.24, T:0.07
Consensus pattern (75 bp):
AACAGGGAAGAAAGAAAGAAAGAAAAAGAAAAAGGAAAGAAAAAGAGAAAAGAATAAAGAAAGCC
ATTGCCTTAG
Found at i:53151047 original size:12 final size:11
Alignment explanation
Indices: 53151033--53151085 Score: 54
Period size: 11 Copynumber: 4.7 Consensus size: 11
53151023 AACAGGGAAG
53151033 AAAGAAAGAAA
1 AAAGAAAGAAA
*
53151044 GAA-AAAGAAA
1 AAAGAAAGAAA
*
53151054 AAGGAAAGAAA
1 AAAGAAAGAAA
*
53151065 AAGAGAAAAGAAT
1 AA-AG-AAAGAAA
53151078 AAAGAAAG
1 AAAGAAAG
53151086 CCATTGCCTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
10 8 0.24
11 15 0.44
12 3 0.09
13 8 0.24
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (11 bp):
AAAGAAAGAAA
Found at i:53151060 original size:7 final size:6
Alignment explanation
Indices: 53151041--53151084 Score: 54
Period size: 6 Copynumber: 7.2 Consensus size: 6
53151031 AGAAAGAAAG
*
53151041 AAAGAA AAAGAA AAAG-G AAAGAA AAAGAGA AAAGAA TAAAGAA A
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGA-A AAAGAA -AAAGAA A
53151085 GCCATTGCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 4 0.12
6 17 0.52
7 12 0.36
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.02
Consensus pattern (6 bp):
AAAGAA
Found at i:53151062 original size:17 final size:17
Alignment explanation
Indices: 53151030--53151074 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 17
53151020 TAGAACAGGG
*
53151030 AAGAAAGAAAGAAAGAAA
1 AAGAAA-AAGGAAAGAAA
53151048 AAGAAAAAGGAAAGAAA
1 AAGAAAAAGGAAAGAAA
53151065 AAGAGAAAAG
1 AAGA-AAAAG
53151075 AATAAAGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (17 bp):
AAGAAAAAGGAAAGAAA
Found at i:53151064 original size:25 final size:24
Alignment explanation
Indices: 53151030--53151085 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 24
53151020 TAGAACAGGG
53151030 AAGAAAGAAAGAA-AGAAAAAGAA-A
1 AAGAAAGAAA-AAGAG-AAAAGAATA
53151054 AAGGAAAGAAAAAGAGAAAAGAATA
1 AA-GAAAGAAAAAGAGAAAAGAATA
53151079 AAGAAAG
1 AAGAAAG
53151086 CCATTGCCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
24 16 0.55
25 13 0.45
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (24 bp):
AAGAAAGAAAAAGAGAAAAGAATA
Found at i:53153229 original size:11 final size:11
Alignment explanation
Indices: 53153213--53153256 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
53153203 TTCTTTGGAT
53153213 TCAAATATGAC
1 TCAAATATGAC
*
53153224 TCAAATATGAT
1 TCAAATATGAC
* *
53153235 TTAAATATGAA
1 TCAAATATGAC
53153246 TCAAATATGAC
1 TCAAATATGAC
53153257 AAATCAGATC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.48, C:0.11, G:0.09, T:0.32
Consensus pattern (11 bp):
TCAAATATGAC
Found at i:53153235 original size:22 final size:22
Alignment explanation
Indices: 53153210--53153255 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
53153200 AGCTTCTTTG
*
53153210 GATTCAAATATGACTCAAATAT
1 GATTCAAATATGAATCAAATAT
*
53153232 GATTTAAATATGAATCAAATAT
1 GATTCAAATATGAATCAAATAT
53153254 GA
1 GA
53153256 CAAATCAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.48, C:0.09, G:0.11, T:0.33
Consensus pattern (22 bp):
GATTCAAATATGAATCAAATAT
Found at i:53153472 original size:90 final size:90
Alignment explanation
Indices: 53153353--53153671 Score: 449
Period size: 90 Copynumber: 3.5 Consensus size: 90
53153343 ATTTCTTTGG
*
53153353 TTATTGTCTGTCATGTGCATGACAGAAACAAATTTGTTTGTATTAAATTGTTTGGTTATTGTACA
1 TTATTGTCTGTCATATGCATGACAGAAACAAATTTGTTTGTATTAAATTGTTTGGTTATTGTACA
*
53153418 TGACATAAATGAATTTCTTTGTATT
66 TGACATAAATGGATTTCTTTGTATT
** * *
53153443 TTATTGTCTACCATATGTATGACAAAAACAAATTTGTTTGTATTAAATTGTTTGGTTATTGTACA
1 TTATTGTCTGTCATATGCATGACAGAAACAAATTTGTTTGTATTAAATTGTTTGGTTATTGTACA
*
53153508 AGACATAAATGGATTTCTTTGTATT
66 TGACATAAATGGATTTCTTTGTATT
* ** * *
53153533 TTATTGTCTGTTATATGCATGACAGAAATGAATTTGTTTGTATTAAATTGTTTGGTTATTGAACT
1 TTATTGTCTGTCATATGCATGACAGAAACAAATTTGTTTGTATTAAATTGTTTGGTTATTGTACA
*
53153598 TGACAAAAATGGATTTCTTTGTATT
66 TGACATAAATGGATTTCTTTGTATT
** * * * * **
53153623 AAAGTGTATGGCATGTGCATGACAGAAATGAATTTGTTTGTATTAAATT
1 TTATTGTCTGTCATATGCATGACAGAAACAAATTTGTTTGTATTAAATT
53153672 ATTTTTTGTA
Statistics
Matches: 204, Mismatches: 25, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
90 204 1.00
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.44
Consensus pattern (90 bp):
TTATTGTCTGTCATATGCATGACAGAAACAAATTTGTTTGTATTAAATTGTTTGGTTATTGTACA
TGACATAAATGGATTTCTTTGTATT
Found at i:53153493 original size:44 final size:45
Alignment explanation
Indices: 53153371--53153494 Score: 117
Period size: 46 Copynumber: 2.8 Consensus size: 45
53153361 TGTCATGTGC
* ****
53153371 ATGACAGAAACAAATTTGTTTGTATTAAATTGTTTGGTTATTGTA
1 ATGACAAAAACAAATTTGTTTGTATTAAATTGTTACCATATTGTA
* ** * **
53153416 CATGACATAAATGAATTTCTTTGTATTTTATTGTCTACCATA-TGT-
1 -ATGACAAAAACAAATTTGTTTGTATTAAATTGT-TACCATATTGTA
53153461 ATGACAAAAACAAATTTGTTTGTATTAAATTGTT
1 ATGACAAAAACAAATTTGTTTGTATTAAATTGTT
53153495 TGGTTATTGT
Statistics
Matches: 61, Mismatches: 16, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
43 1 0.02
44 27 0.44
46 30 0.49
47 3 0.05
ACGTcount: A:0.34, C:0.08, G:0.14, T:0.44
Consensus pattern (45 bp):
ATGACAAAAACAAATTTGTTTGTATTAAATTGTTACCATATTGTA
Found at i:53155698 original size:71 final size:67
Alignment explanation
Indices: 53155592--53155809 Score: 230
Period size: 63 Copynumber: 3.2 Consensus size: 67
53155582 CACTTAAAAC
* * * *
53155592 CGAATGCATATATAATTTAAAACATGAATAGCCGAATGTGTATATACATATATGCTTAACAAATA
1 CGAATGTATATACAATTT-AAACATGAATAGCCGAATG-ATATATAC--ATATGCATAACAAATA
53155657 TTATCA
62 TTATCA
* *
53155663 TCGAATGTATATACAGTTTAAACATGAATAGCCGAATGCT-TATAC--A--CATAACAAATATTA
1 -CGAATGTATATACAATTTAAACATGAATAGCCGAATGATATATACATATGCATAACAAATATTA
53155723 TCA
65 TCA
* * * *
53155726 CCGAATGTATATACACTTTAAACATGAATAGCTGAATGCATATATACATATGCACAACAAGTATT
1 -CGAATGTATATACAATTTAAACATGAATAGCCGAATG-ATATATACATATGCATAACAAATATT
53155791 ATCA
64 ATCA
*
53155795 CTGAATGTAAATACA
1 C-GAATGTATATACA
53155810 TGTTCTTCAA
Statistics
Matches: 127, Mismatches: 12, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
63 51 0.40
64 1 0.01
65 6 0.05
67 1 0.01
68 1 0.01
69 32 0.25
70 1 0.01
71 19 0.15
72 15 0.12
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.30
Consensus pattern (67 bp):
CGAATGTATATACAATTTAAACATGAATAGCCGAATGATATATACATATGCATAACAAATATTAT
CA
Found at i:53155699 original size:31 final size:30
Alignment explanation
Indices: 53155664--53155774 Score: 84
Period size: 31 Copynumber: 3.5 Consensus size: 30
53155654 ATATTATCAT
53155664 CGAATGTATATACAGTTTAAACATGAATAGC
1 CGAATGTATATACA-TTTAAACATGAATAGC
** *
53155695 CGAATGCT-TATACACATAACAAAT-ATTATCA-C
1 CGAATG-TATATACATTTAA-ACATGA--AT-AGC
53155727 CGAATGTATATACACTTTAAACATGAATAGC
1 CGAATGTATATACA-TTTAAACATGAATAGC
*
53155758 TGAATGCATATATACAT
1 CGAATG--TATATACAT
53155775 ATGCACAACA
Statistics
Matches: 62, Mismatches: 7, Indels: 21
0.69 0.08 0.23
Matches are distributed among these distances:
30 5 0.08
31 24 0.39
32 20 0.32
33 13 0.21
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (30 bp):
CGAATGTATATACATTTAAACATGAATAGC
Found at i:53156006 original size:41 final size:41
Alignment explanation
Indices: 53155934--53156040 Score: 126
Period size: 41 Copynumber: 2.6 Consensus size: 41
53155924 ATCGGCTTTT
* * * * *
53155934 AGCCTGCTAGACTTATAGTCC-GAATTGTTTCACCGGCATTA
1 AGCCTGCTAGACATAAAG-CCTGAAATATTTCACCGGCATCA
53155975 AGCCTGCTAGACATAAAGCCTGAAATATTTCACCGGCATCA
1 AGCCTGCTAGACATAAAGCCTGAAATATTTCACCGGCATCA
* * *
53156016 AACCTGCTAGACGTAAAGTCTGAAA
1 AGCCTGCTAGACATAAAGCCTGAAA
53156041 CATTCGATCA
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 2 0.04
41 55 0.96
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (41 bp):
AGCCTGCTAGACATAAAGCCTGAAATATTTCACCGGCATCA
Found at i:53156541 original size:8 final size:8
Alignment explanation
Indices: 53156528--53156561 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
53156518 ATCCGAGCAT
53156528 TATATACA
1 TATATACA
*
53156536 TATATATA
1 TATATACA
*
53156544 CATATACA
1 TATATACA
53156552 TATATACA
1 TATATACA
53156560 TA
1 TA
53156562 CTCATACATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (8 bp):
TATATACA
Found at i:53158141 original size:44 final size:44
Alignment explanation
Indices: 53158078--53158168 Score: 155
Period size: 44 Copynumber: 2.1 Consensus size: 44
53158068 GATTGGTTGA
53158078 AGGGAAAGAACCCTACTCACTGGTCAAGGTCCCACTTCTCAATT
1 AGGGAAAGAACCCTACTCACTGGTCAAGGTCCCACTTCTCAATT
* * *
53158122 AGGGAAAGAGCCCTGCTCACTGGTCAAGGTCCCACTTCTCATTT
1 AGGGAAAGAACCCTACTCACTGGTCAAGGTCCCACTTCTCAATT
53158166 AGG
1 AGG
53158169 AGCCAGTCTA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (44 bp):
AGGGAAAGAACCCTACTCACTGGTCAAGGTCCCACTTCTCAATT
Found at i:53160170 original size:93 final size:93
Alignment explanation
Indices: 53160058--53160229 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
53160048 GCCCATAAGT
* *
53160058 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
53160123 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* **
53160151 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
53160216 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
53160230 CAAACATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:53160225 original size:46 final size:46
Alignment explanation
Indices: 53160050--53160225 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
53160040 TGTAACCCGC
* * *
53160050 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTACAT
*
53160096 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTACAT
* * *
53160146 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTACAT
*
53160189 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
53160226 TGCCCAAACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
46 65 0.58
47 28 0.25
49 1 0.01
50 7 0.06
51 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTACAT
Found at i:53161163 original size:73 final size:73
Alignment explanation
Indices: 53161044--53161189 Score: 265
Period size: 73 Copynumber: 2.0 Consensus size: 73
53161034 ATTAAAAACG
* * *
53161044 AGGCTAGAACGGACTTACAATCGAGCTTGGAAGCTTGAAAAACCCTAGCCATGGTTTCTCCTTGC
1 AGGCTAAAACGGACTTACAATCGAGATTGGAAGCTTGAAAAACCCTAGACATGGTTTCTCCTTGC
53161109 TATATTCA
66 TATATTCA
53161117 AGGCTAAAACGGACTTACAATCGAGATTGGAAGCTTGAAAAACCCTAGACATGGTTTCTCCTTGC
1 AGGCTAAAACGGACTTACAATCGAGATTGGAAGCTTGAAAAACCCTAGACATGGTTTCTCCTTGC
53161182 TATATTCA
66 TATATTCA
53161190 GCCATGGGGT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 70 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (73 bp):
AGGCTAAAACGGACTTACAATCGAGATTGGAAGCTTGAAAAACCCTAGACATGGTTTCTCCTTGC
TATATTCA
Found at i:53188521 original size:21 final size:21
Alignment explanation
Indices: 53188495--53188539 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
53188485 TCATGCAAAG
53188495 TTAGCCAATCCATACCCAGAA
1 TTAGCCAATCCATACCCAGAA
53188516 TTAGCCAATCCATACCCAGAA
1 TTAGCCAATCCATACCCAGAA
53188537 TTA
1 TTA
53188540 TATCAAACTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.31, G:0.09, T:0.22
Consensus pattern (21 bp):
TTAGCCAATCCATACCCAGAA
Found at i:53191676 original size:22 final size:22
Alignment explanation
Indices: 53191648--53191691 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
53191638 AATAACACAT
53191648 GTTATAAAACTAGGTCCCTATA
1 GTTATAAAACTAGGTCCCTATA
53191670 GTTATAAAACTAGGTCCCTATA
1 GTTATAAAACTAGGTCCCTATA
53191692 CATGCCACTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (22 bp):
GTTATAAAACTAGGTCCCTATA
Found at i:53192839 original size:50 final size:50
Alignment explanation
Indices: 53192710--53192955 Score: 277
Period size: 49 Copynumber: 4.9 Consensus size: 50
53192700 TAGCCAAAGC
* * * * *
53192710 TATCTAGTACGCATAGTAGCCTGCACTTAGTAATACACATGCGACC-AAT
1 TATCTAGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
* *
53192759 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTAGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
* * *
53192809 CATCTAATACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAAGT
1 TATCTAGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA-T
* * * *
53192860 TATCGAGTACGCATAGTAGCCTGCACTTAGTACT--ACACGTG-CGGCGAAT
1 TATCTAGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGAC--CTAAT
* *
53192909 TATCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACCT
1 TATCTAGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT
53192956 CACAATAGAT
Statistics
Matches: 163, Mismatches: 25, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
49 78 0.48
50 48 0.29
51 36 0.22
52 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (50 bp):
TATCTAGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
Found at i:53192946 original size:100 final size:100
Alignment explanation
Indices: 53192772--53192952 Score: 267
Period size: 100 Copynumber: 1.8 Consensus size: 100
53192762 CTGGTACACG
* *
53192772 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTAATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTA-ACACGTGACCGAACCATCTAATACACGTAGTAGCCTACACTT
53192837 AGTACTACACACGTGATTGAAGTTATCGAGTACGCA
65 AGTACTACACACGTGATTGAAGTTATCGAGTACGCA
** **
53192873 TAGTAGCCTGCACTTAGTACT-ACACGTG-CGGCGAATTATCTGGTACACGTAGTAGCCTACACT
1 TAGTAGCCTGCACTTAGTACTAACACGTGAC--CGAACCATCTAATACACGTAGTAGCCTACACT
53192936 TAGTACTACACACGTGA
64 TAGTACTACACACGTGA
53192953 CCTCACAATA
Statistics
Matches: 72, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
98 1 0.01
99 7 0.10
100 43 0.60
101 21 0.29
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.26
Consensus pattern (100 bp):
TAGTAGCCTGCACTTAGTACTAACACGTGACCGAACCATCTAATACACGTAGTAGCCTACACTTA
GTACTACACACGTGATTGAAGTTATCGAGTACGCA
Found at i:53196455 original size:40 final size:40
Alignment explanation
Indices: 53196411--53196555 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
53196401 CTCGCACAAG
* * * * *
53196411 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
53196451 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * * *
53196491 GCCTTC-GGATCTTAGTCCGAATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
53196532 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
53196556 CATTCGAGTA
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 3 0.03
40 58 0.64
41 26 0.29
42 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:53199084 original size:28 final size:28
Alignment explanation
Indices: 53199040--53199150 Score: 100
Period size: 29 Copynumber: 3.9 Consensus size: 28
53199030 ACATACAGGC
* *
53199040 ATATGGCCCA-CTTGGCCCAATCTCATTT
1 ATATGGCCCATC-AGGCCCAATCACATTT
*
53199068 ATATGGCCCATCAGGCCCAATTCACATTC
1 ATATGGCCCATCAGGCCCAA-TCACATTT
* * *
53199097 ATATGACCCATCAAGCCCAAATCACCTTT
1 ATATGGCCCATCAGGCCC-AATCACATTT
*
53199126 ATATGG-CCAGTTAGGCCCAAATCAC
1 ATATGGCCCA-TCAGGCCC-AATCAC
53199151 CTTATATACA
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
28 20 0.29
29 47 0.68
30 2 0.03
ACGTcount: A:0.29, C:0.32, G:0.14, T:0.25
Consensus pattern (28 bp):
ATATGGCCCATCAGGCCCAATCACATTT
Found at i:53202066 original size:40 final size:40
Alignment explanation
Indices: 53202011--53202179 Score: 293
Period size: 40 Copynumber: 4.2 Consensus size: 40
53202001 TATTCGAATG
53202011 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
53202051 ATATCCGGGCTAAGTCCCGAAGGCATTTGTTCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
53202091 ATATCCGGGGTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
53202131 ATATCCGGGCTAAGTCCCGAAGGCATTTGTTCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
53202171 ATATCCGGG
1 ATATCCGGG
53202180 GGTGTTTGAG
Statistics
Matches: 121, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 121 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:53202144 original size:80 final size:80
Alignment explanation
Indices: 53202011--53202180 Score: 331
Period size: 80 Copynumber: 2.1 Consensus size: 80
53202001 TATTCGAATG
*
53202011 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGGTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
53202076 TTTGTTCTATTGACT
66 TTTGTTCTATTGACT
53202091 ATATCCGGGGTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGGTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
53202156 TTTGTTCTATTGACT
66 TTTGTTCTATTGACT
53202171 ATATCCGGGG
1 ATATCCGGGG
53202181 GTGTTTGAGC
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 89 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.29
Consensus pattern (80 bp):
ATATCCGGGGTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTTCTATTGACT
Found at i:53202308 original size:40 final size:41
Alignment explanation
Indices: 53202253--53202359 Score: 157
Period size: 40 Copynumber: 2.7 Consensus size: 41
53202243 ATGATTATTC
*
53202253 TGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-T
1 TGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
*
53202293 TGACTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGT
1 TGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
* *
53202334 TG-CTATATTC-GGCTAAATCCCGAAGG
1 TGACTATATCCGGGCTAAGTCCCGAAGG
53202360 TACTTGGGTT
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
39 14 0.23
40 44 0.72
41 3 0.05
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.27
Consensus pattern (41 bp):
TGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
Found at i:53205368 original size:18 final size:18
Alignment explanation
Indices: 53205341--53205378 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
53205331 GGAGCAAAAG
53205341 AAACGAG-AAACGGGCCA
1 AAACGAGAAAACGGGCCA
*
53205358 AAACAGAGAAAATGGGCCA
1 AAAC-GAGAAAACGGGCCA
53205377 AA
1 AA
53205379 GTACGAACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 3 0.17
19 11 0.61
ACGTcount: A:0.53, C:0.18, G:0.26, T:0.03
Consensus pattern (18 bp):
AAACGAGAAAACGGGCCA
Found at i:53205621 original size:100 final size:100
Alignment explanation
Indices: 53205448--53205709 Score: 515
Period size: 100 Copynumber: 2.6 Consensus size: 100
53205438 CTAACAGGCT
*
53205448 CGAGCCCAAGTTGATTCCAATTTGGAAAAGGCTAATTTTGAGGGCTCATAGGCATTCCAAAGTAA
1 CGAGCCCAAGTTGAGTCCAATTTGGAAAAGGCTAATTTTGAGGGCTCATAGGCATTCCAAAGTAA
53205513 TCGCACACGGGCGTGTCACATGGGTATGTCCCTGC
66 TCGCACACGGGCGTGTCACATGGGTATGTCCCTGC
53205548 CGAGCCCAAGTTGAGTCCAATTTGGAAAAGGCTAATTTTGAGGGCTCATAGGCATTCCAAAGTAA
1 CGAGCCCAAGTTGAGTCCAATTTGGAAAAGGCTAATTTTGAGGGCTCATAGGCATTCCAAAGTAA
53205613 TCGCACACGGGCGTGTCACATGGGTATGTCCCTGC
66 TCGCACACGGGCGTGTCACATGGGTATGTCCCTGC
53205648 CGAGCCCAAGTTGAGTCCAATTTGGAAAAGGCTAATTTTGAGGGCTCATAGGCATTCCAAAG
1 CGAGCCCAAGTTGAGTCCAATTTGGAAAAGGCTAATTTTGAGGGCTCATAGGCATTCCAAAG
53205710 CCTATAAATA
Statistics
Matches: 161, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 161 1.00
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.24
Consensus pattern (100 bp):
CGAGCCCAAGTTGAGTCCAATTTGGAAAAGGCTAATTTTGAGGGCTCATAGGCATTCCAAAGTAA
TCGCACACGGGCGTGTCACATGGGTATGTCCCTGC
Found at i:53214839 original size:49 final size:49
Alignment explanation
Indices: 53214784--53215223 Score: 675
Period size: 49 Copynumber: 9.2 Consensus size: 49
53214774 AATTCTAAAT
*
53214784 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
53214833 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
53214882 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
53214931 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
*
53214978 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG--TATATG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
* * *
53215025 TGCGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
*
53215074 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG--TATATG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
* *
53215121 CGTGATAAGGCTTAATGGCCGATGTAATGAATGTGAAAGTG--TATATA
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
* * ** * * *
53215168 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGTATA-A-A
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
53215215 TGTGATAAG
1 TGTGATAAG
53215224 TCCCGAAGGG
Statistics
Matches: 363, Mismatches: 24, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
47 179 0.49
48 1 0.00
49 183 0.50
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.30
Consensus pattern (49 bp):
TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
Found at i:53214994 original size:47 final size:47
Alignment explanation
Indices: 53214784--53215223 Score: 664
Period size: 47 Copynumber: 9.2 Consensus size: 47
53214774 AATTCTAAAT
*
53214784 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
53214833 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
53214882 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
53214931 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
53214978 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * *
53215025 TGCGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
*
53215074 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
53215121 CGTGATAAGGCTTAATGGCCGATGTAATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * ** * * * *
53215168 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGTATAAA
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
53215215 TGTGATAAG
1 TGTGATAAG
53215224 TCCCGAAGGG
Statistics
Matches: 364, Mismatches: 25, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
47 183 0.50
49 181 0.50
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.30
Consensus pattern (47 bp):
TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:53215082 original size:143 final size:143
Alignment explanation
Indices: 53214784--53215223 Score: 704
Period size: 143 Copynumber: 3.1 Consensus size: 143
53214774 AATTCTAAAT
*
53214784 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAAT
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCTTAAT
*
53214849 GGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAAT
64 GGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
53214914 GTGAAAGTGTATATATA
127 GTGAAAGTGTATATATA
53214931 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTTAATGG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTTAATGG
* * *
53214996 CCGATGTGATGAATGTGAAAGTGTATATGTGCGATAAGGCCTAATAGCCGATGTGATGAATGTGA
66 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
53215061 AAGTGTATATATA
131 AAGTGTATATATA
**
53215074 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCTTAATGG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTTAATGG
* * * * * * *
53215139 CCGATGTAATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGA
66 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
53215204 AAGTGTATA-A-A
131 AAGTGTATATATA
53215215 TGTGATAAG
1 TGTGATAAG
53215224 TCCCGAAGGG
Statistics
Matches: 276, Mismatches: 17, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
141 10 0.04
142 1 0.00
143 178 0.64
145 47 0.17
147 40 0.14
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.30
Consensus pattern (143 bp):
TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTTAATGG
CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
AAGTGTATATATA
Found at i:53215399 original size:37 final size:37
Alignment explanation
Indices: 53215341--53215419 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
53215331 TCGAGCTCTA
* * *
53215341 AAGACCCGATGACTACATGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
* *
53215378 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
53215415 AAGAC
1 AAGAC
53215420 TTTGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
Found at i:53223864 original size:5 final size:5
Alignment explanation
Indices: 53223854--53223880 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
53223844 TACATCAAAC
53223854 ATGCA ATGCA ATGCA ATGCA ATGCA AT
1 ATGCA ATGCA ATGCA ATGCA ATGCA AT
53223881 CCCATCCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (5 bp):
ATGCA
Found at i:53224534 original size:29 final size:29
Alignment explanation
Indices: 53224497--53224591 Score: 120
Period size: 29 Copynumber: 3.3 Consensus size: 29
53224487 GGTCGAATCT
* *
53224497 CATTTATATGGCGCATCAGGCCCAATTCA
1 CATTTATATGGCCCATTAGGCCCAATTCA
* * *
53224526 CATTCATATGGCCCATTAGGTCCAAATCA
1 CATTTATATGGCCCATTAGGCCCAATTCA
* *
53224555 CCTTTATATGGCCCGTTAGGCCCAATTCA
1 CATTTATATGGCCCATTAGGCCCAATTCA
53224584 C-TTTATAT
1 CATTTATAT
53224592 ACATGCTCAC
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
28 7 0.12
29 49 0.88
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (29 bp):
CATTTATATGGCCCATTAGGCCCAATTCA
Found at i:53224576 original size:58 final size:57
Alignment explanation
Indices: 53224468--53224584 Score: 146
Period size: 58 Copynumber: 2.0 Consensus size: 57
53224458 ACCCCTACAT
* * *
53224468 ACATGCATATGGCCCACTTGGTCGAATCTCATTTATATGGCGCATCAGGCCCAATTC
1 ACATGCATATGGCCCACTTGGTCAAATCACATTTATATGGCCCATCAGGCCCAATTC
* * * *
53224525 ACATTCATATGGCCCA-TTAGGTCCAAATCACCTTTATATGGCCCGTTAGGCCCAATTC
1 ACATGCATATGGCCCACTT-GGT-CAAATCACATTTATATGGCCCATCAGGCCCAATTC
53224583 AC
1 AC
53224585 TTTATATACA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
56 2 0.04
57 18 0.35
58 31 0.61
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (57 bp):
ACATGCATATGGCCCACTTGGTCAAATCACATTTATATGGCCCATCAGGCCCAATTC
Found at i:53226040 original size:16 final size:16
Alignment explanation
Indices: 53226015--53226046 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
53226005 AAATTCAAGA
53226015 TTTCGAGATTTTTGGG
1 TTTCGAGATTTTTGGG
*
53226031 TTTCGGGATTTTTGGG
1 TTTCGAGATTTTTGGG
53226047 GAGTTACAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.06, G:0.34, T:0.50
Consensus pattern (16 bp):
TTTCGAGATTTTTGGG
Found at i:53232262 original size:28 final size:28
Alignment explanation
Indices: 53232231--53232297 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
53232221 CTGTGTCCAT
*
53232231 TGCCCGTGTCTCTCACACGGCCATGACA
1 TGCCCGTGTCTCTCAAACGGCCATGACA
53232259 TGCCCGTGTCTCTCAAACGGCCATGACA
1 TGCCCGTGTCTCTCAAACGGCCATGACA
* *
53232287 CGCCTGTGTCT
1 TGCCCGTGTCT
53232298 TAGCCCGTGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.16, C:0.37, G:0.22, T:0.24
Consensus pattern (28 bp):
TGCCCGTGTCTCTCAAACGGCCATGACA
Found at i:53252541 original size:47 final size:47
Alignment explanation
Indices: 53252472--53253464 Score: 1896
Period size: 47 Copynumber: 21.1 Consensus size: 47
53252462 CTCGTAGTGA
* * *
53252472 ATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTACTGGCCAATGTGATGAATGTGAAAGTGTAT
53252519 ATATGTGATAAGGCCTACTGGCCAATGTGATGAATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTACTGGCCAATGTGATGAATGTGAAAGTGTAT
53252566 ATATGTGATAAGGCCTACTGGCCAATGTGATGAATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTACTGGCCAATGTGATGAATGTGAAAGTGTAT
53252613 ATATGTGATAAGGCCTACTGGCCAATGTGATGAATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTACTGGCCAATGTGATGAATGTGAAAGTGTAT
53252660 ATATGTGATAAGGCCTACTGGCCAATGTGATGAATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTACTGGCCAATGTGATGAATGTGAAAGTGTAT
53252707 ATATGTGATAAGGCCTACTGGCCAATGTGATGAATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTACTGGCCAATGTGATGAATGTGAAAGTGTAT
53252754 ATATGTGATAAGGCCTACTGGCCAATGTGATGAATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTACTGGCCAATGTGATGAATGTGAAAGTGTAT
53252801 ATATGTGATAAGGCCTACTGGCCAATGTGATGAATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTACTGGCCAATGTGATGAATGTGAAAGTGTAT
53252848 ATATGTGATAAGGCCTACTGGCCAATGTGATGAATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTACTGGCCAATGTGATGAATGTGAAAGTGTAT
53252895 ATATGTGATAAGGCCTACTGGCCAATGTGATGAATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTACTGGCCAATGTGATGAATGTGAAAGTGTAT
53252942 ATATGTGATAAGGCCTACTGGCCAATGTGATGAATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTACTGGCCAATGTGATGAATGTGAAAGTGTAT
53252989 ATATGTGATAAGGCCTACTGGCCAATGTGATGAATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTACTGGCCAATGTGATGAATGTGAAAGTGTAT
53253036 ATATGTGATAAGGCCTACTGGCCAATGTGATGAATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTACTGGCCAATGTGATGAATGTGAAAGTGTAT
53253083 ATATGTGATAAGGCCTACTGGCCAATGTGATGAATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTACTGGCCAATGTGATGAATGTGAAAGTGTAT
53253130 ATATGTGATAAGGCCTACTGGCCAATGTGATGAATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTACTGGCCAATGTGATGAATGTGAAAGTGTAT
53253177 ATATGTGATAAGGCCTACTGGCCAATGTGATGAATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTACTGGCCAATGTGATGAATGTGAAAGTGTAT
53253224 ATATGTGATAAGGCCTACTGGCCAATGTGATGAATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTACTGGCCAATGTGATGAATGTGAAAGTGTAT
53253271 ATATGTGATAAGGCCTACTGGCCAATGTGATGAATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTACTGGCCAATGTGATGAATGTGAAAGTGTAT
* *
53253318 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATATGTGATAAGGCCTACTGGCCAATGTGATGAATGTGAAAGTG--TAT
* * *
53253367 ATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTACTGGCCAATGTGATGAATGTGAAAGTGTAT
53253414 ATATGTGATAAGGCCTACTGGCCAATGTGATGAATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTACTGGCCAATGTGATGAATGTGAAAGTGTAT
53253461 ATAT
1 ATAT
53253465 ANNNNNNNNN
Statistics
Matches: 935, Mismatches: 9, Indels: 4
0.99 0.01 0.00
Matches are distributed among these distances:
47 889 0.95
49 46 0.05
ACGTcount: A:0.32, C:0.10, G:0.28, T:0.30
Consensus pattern (47 bp):
ATATGTGATAAGGCCTACTGGCCAATGTGATGAATGTGAAAGTGTAT
Found at i:53254535 original size:27 final size:26
Alignment explanation
Indices: 53254479--53254535 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
53254469 CAACCTTAAC
* *
53254479 CCTAGGGGTATATTAGTAATTTTACT
1 CCTAGGGGTAAATTAGTAATTTTACA
*
53254505 CCTAGGGGTAAATCT-GTAAATTTTCCA
1 CCTAGGGGTAAAT-TAGT-AATTTTACA
53254532 CCTA
1 CCTA
53254536 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (26 bp):
CCTAGGGGTAAATTAGTAATTTTACA
Found at i:53259144 original size:16 final size:17
Alignment explanation
Indices: 53259107--53259144 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
53259097 TGTACGAGTT
53259107 TATATGCTGAAATTAAA
1 TATATGCTGAAATTAAA
*
53259124 T-TATG-TGAAATTATA
1 TATATGCTGAAATTAAA
53259139 TATATG
1 TATATG
53259145 AAAGTCGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 10 0.53
16 8 0.42
17 1 0.05
ACGTcount: A:0.42, C:0.03, G:0.13, T:0.42
Consensus pattern (17 bp):
TATATGCTGAAATTAAA
Found at i:53271024 original size:6 final size:6
Alignment explanation
Indices: 53271006--53271065 Score: 70
Period size: 6 Copynumber: 9.8 Consensus size: 6
53270996 AAGAAACATT
*
53271006 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGGTG AT-AGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
53271055 ATCAGA ATCAG
1 ATCAGA ATCAG
53271066 TATTAGGTCA
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
5 3 0.06
6 39 0.83
7 3 0.06
8 2 0.04
ACGTcount: A:0.47, C:0.15, G:0.20, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:53271052 original size:31 final size:31
Alignment explanation
Indices: 53271014--53271093 Score: 115
Period size: 31 Copynumber: 2.6 Consensus size: 31
53271004 TTATCAGAAC
*
53271014 TAGAATCAGAATCAGAATCAGAATCAGGTGA
1 TAGAATCAGAATCAGAATCAGAATCAGGTCA
* *
53271045 TAGAATCAGAATCAGAATCAGTATTAGGTCA
1 TAGAATCAGAATCAGAATCAGAATCAGGTCA
* *
53271076 CAGAATCAAAATCAGAAT
1 TAGAATCAGAATCAGAAT
53271094 GTGAATGCAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.21
Consensus pattern (31 bp):
TAGAATCAGAATCAGAATCAGAATCAGGTCA
Found at i:53271248 original size:27 final size:27
Alignment explanation
Indices: 53271208--53271267 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
53271198 AGCATTGCTG
*
53271208 CCAGAACAGATA-TTGTGACAGAGTCA
1 CCAGAACAGATATTTGTGACAGAGCCA
* *
53271234 CCAGATACAGATATTTGTGGCATAGCCA
1 CCAGA-ACAGATATTTGTGACAGAGCCA
53271262 CCAGAA
1 CCAGAA
53271268 TCAAATAATG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 5 0.17
27 8 0.28
28 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (27 bp):
CCAGAACAGATATTTGTGACAGAGCCA
Found at i:53271891 original size:27 final size:27
Alignment explanation
Indices: 53271853--53272315 Score: 496
Period size: 27 Copynumber: 17.1 Consensus size: 27
53271843 GGGGCAAAAT
* *
53271853 GGTAATTTTACCCTA-AGAGGGTATCTC
1 GGTAATTCTACCCTACAG-GGGTATTTC
* **
53271880 GGTAATTCTACCTTACAGGGGTAAATC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
53271907 AGTATTTCTAACCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
53271934 GGTAATTCTACCCTACAGTGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
53271961 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
53271988 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
53272015 GATAATTCTACCTTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
53272042 AGTAATTATACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
53272069 GGTAGTTCTACCTTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
53272096 AGTAATTATACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
53272123 GATAATTCTACCATACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
53272150 AGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
53272177 AATAATTCTACCCTACAGTGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
53272204 GATAATTCTACCCTACAGGGATATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
53272231 TGTAATTCTACCTTAGAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** * *
53272258 AATAATTCTACCCTACAGAGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
53272285 GCTAATTCTACCTTACAGTGGTGTTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
53272312 GGTA
1 GGTA
53272316 TTTTTGTAAA
Statistics
Matches: 359, Mismatches: 76, Indels: 2
0.82 0.17 0.00
Matches are distributed among these distances:
27 357 0.99
28 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:53272398 original size:27 final size:27
Alignment explanation
Indices: 53272368--53272442 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 27
53272358 GGTACTTTGG
53272368 TAATTTTACAAGTCGAGGGTATTTCAA
1 TAATTTTACAAGTCGAGGGTATTTCAA
** * * *
53272395 TAATTTTGTAGGTCGAGGATATTTCAG
1 TAATTTTACAAGTCGAGGGTATTTCAA
* * *
53272422 TAATTTCACAAATCAAGGGTA
1 TAATTTTACAAGTCGAGGGTA
53272443 GTTTGGTAAT
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (27 bp):
TAATTTTACAAGTCGAGGGTATTTCAA
Found at i:53272472 original size:54 final size:54
Alignment explanation
Indices: 53272421--53272589 Score: 266
Period size: 54 Copynumber: 3.1 Consensus size: 54
53272411 GGATATTTCA
* * * *
53272421 GTAATTTCACAAATCAAGGGTAGTTTGGTAATTCTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
* *
53272475 ATAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACTAGGGGCATTTTG
1 GTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
* *
53272529 GTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
53272583 GTAATTT
1 GTAATTT
53272590 GGTAAACTAA
Statistics
Matches: 105, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 105 1.00
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (54 bp):
GTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
Found at i:53272596 original size:27 final size:27
Alignment explanation
Indices: 53272421--53272589 Score: 230
Period size: 27 Copynumber: 6.3 Consensus size: 27
53272411 GGATATTTCA
* * * *
53272421 GTAATTTCACAAATCAAGGGTAGTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
* *
53272448 GTAATTCTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
* *
53272475 ATAATTTTACAAACCAAGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
* *
53272502 GTAATTTTACAAACTAGGGGCATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
* *
53272529 GTAATTTTATAAACCAAGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
53272556 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
53272583 GTAATTT
1 GTAATTT
53272590 GGTAAACTAA
Statistics
Matches: 122, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 122 1.00
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (27 bp):
GTAATTTTACAAACCAGGGGTATTTTG
Found at i:53274550 original size:6 final size:6
Alignment explanation
Indices: 53274532--53274619 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
53274522 AAGAAACATT
* *
53274532 ATCAGA A-CTAGA ATCAGA ATCAGA GTCAGA ATCAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
53274581 ATCAGA ATCAGT ATTAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
53274620 GTGAATGCGA
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
5 4 0.06
6 52 0.81
7 6 0.09
8 2 0.03
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:53274579 original size:31 final size:31
Alignment explanation
Indices: 53274541--53274619 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
53274531 TATCAGAACT
* *
53274541 AGAATCAGAATCAGAGTCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* *
53274572 AGAATCAGAATCAGAATCAGTATTAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
53274603 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
53274620 GTGAATGCGA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:53274789 original size:28 final size:26
Alignment explanation
Indices: 53274734--53274815 Score: 92
Period size: 28 Copynumber: 3.0 Consensus size: 26
53274724 AGCATTGCTG
* * *
53274734 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAAAGCCA
*
53274760 CCAGATACAGATATTTGTGGCATAGCCA
1 CCAGA-ACAGATA-TTGTGGCAAAGCCA
*
53274788 CCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAA-CAGATATTGTGGCAAAGCCA
53274815 C
1 C
53274816 TTAACAGAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
26 5 0.10
27 21 0.44
28 22 0.46
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAAAGCCA
Found at i:53275396 original size:27 final size:27
Alignment explanation
Indices: 53275358--53275876 Score: 533
Period size: 27 Copynumber: 19.3 Consensus size: 27
53275348 GGGGCAAAAT
* *
53275358 GGTAATTTTACCCTA-AGAGGGTATCTC
1 GGTAATTCTACCCTACAG-GGGTATTTC
* **
53275385 GGTAATTCTACCTTACAGGGGTAAATC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
53275412 AGTATTTCTAACCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
53275439 GGTAATTCTACCCTGA-AGGGGTATTTC
1 GGTAATTCTACCCT-ACAGGGGTATTTC
53275466 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
53275493 GATAATTCTACCCTAC-GGTGGTATTTT
1 GGTAATTCTACCCTACAGG-GGTATTTC
* * *
53275520 AGTAATTTTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
53275547 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
53275574 GATAATTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
53275601 AGTAATTATACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
53275628 GGTAATTCTACCTTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
53275655 AGTAATTATACCCTACAGGGGTTTTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
53275682 GATAATTCTAACATACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
53275709 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** * **
53275736 AATAATTTTACCCTACAATGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
53275763 GGTAATTCTACCCTACAGGGATATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
53275790 TGTAATTCTACCTTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
53275817 AATAATTCTACCATACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
53275844 GCTAATTCTACCTTACA-GGGTGTCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
53275870 GGTAATT
1 GGTAATT
53275877 TTGTAAATCG
Statistics
Matches: 406, Mismatches: 81, Indels: 11
0.82 0.16 0.02
Matches are distributed among these distances:
26 16 0.04
27 385 0.95
28 5 0.01
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:53275908 original size:59 final size:60
Alignment explanation
Indices: 53275830--53275945 Score: 189
Period size: 59 Copynumber: 1.9 Consensus size: 60
53275820 AATTCTACCA
*
53275830 TACAGGGGTATTTCGCTAATTCTACCTTACAG-GGTGTCTCGGTAATTTTGTAAATCGCC
1 TACAGAGGTATTTCGCTAATTCTACCTTACAGTGGTGTCTCGGTAATTTTGTAAATCGCC
* * *
53275889 TACAGAGGTATTTTGCTAATTCTACCTTACAGTGGTGTTTCGGTATTTTTGTAAATC
1 TACAGAGGTATTTCGCTAATTCTACCTTACAGTGGTGTCTCGGTAATTTTGTAAATC
53275946 AAGGGTAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
59 30 0.58
60 22 0.42
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.40
Consensus pattern (60 bp):
TACAGAGGTATTTCGCTAATTCTACCTTACAGTGGTGTCTCGGTAATTTTGTAAATCGCC
Found at i:53276016 original size:27 final size:27
Alignment explanation
Indices: 53275986--53276063 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 27
53275976 GGTACTTTGG
53275986 TAATTTTACAAGTCGAGGGTATTTCAA
1 TAATTTTACAAGTCGAGGGTATTTCAA
** * * *
53276013 TAATTTTGTAGGTCGAGGATATTTCAG
1 TAATTTTACAAGTCGAGGGTATTTCAA
* *
53276040 TAATTTCACAAATC-AGGGGTATTT
1 TAATTTTACAAGTCGA-GGGTATTT
53276064 TGGTAATTCT
Statistics
Matches: 39, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
26 1 0.03
27 38 0.97
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (27 bp):
TAATTTTACAAGTCGAGGGTATTTCAA
Found at i:53276322 original size:27 final size:27
Alignment explanation
Indices: 53276039--53276315 Score: 378
Period size: 27 Copynumber: 10.3 Consensus size: 27
53276029 GGATATTTCA
* * *
53276039 GTAATTTCACAAATCAGGGGTATTTTG
1 GTAATTTTACAAACCAAGGGTATTTTG
* *
53276066 GTAATTCTACAAACTAAGGGTATTTTG
1 GTAATTTTACAAACCAAGGGTATTTTG
* *
53276093 ATAATTTTACAAACCAATGGTATTTTG
1 GTAATTTTACAAACCAAGGGTATTTTG
*
53276120 GTAATTTTACAAA-CTAGGGTTATTTTG
1 GTAATTTTACAAACCAAGGG-TATTTTG
*
53276147 GTAATTTTATAAACCAAGGGTATTTTG
1 GTAATTTTACAAACCAAGGGTATTTTG
*
53276174 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAACCAAGGGTATTTTG
* * *
53276201 GTGATTTTATAAACCAAGGGTATTTTA
1 GTAATTTTACAAACCAAGGGTATTTTG
*
53276228 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAACCAAGGGTATTTTG
**
53276255 GTAATTTTGTAAACCAAGGGTATTTTG
1 GTAATTTTACAAACCAAGGGTATTTTG
53276282 GTAATTTTACAAACC-AGAGGTATTTTG
1 GTAATTTTACAAACCAAG-GGTATTTTG
53276309 GTAATTT
1 GTAATTT
53276316 GGTAAACTAA
Statistics
Matches: 218, Mismatches: 29, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
26 6 0.03
27 207 0.95
28 5 0.02
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAACCAAGGGTATTTTG
Found at i:53277775 original size:42 final size:41
Alignment explanation
Indices: 53277684--53277856 Score: 267
Period size: 41 Copynumber: 4.2 Consensus size: 41
53277674 TTTTTGAATC
*
53277684 AATGAAAAGGTTGAAAAGGATGTTATCCAAAATGGATATAA
1 AATGAAAAGGTTGAAAAGGATGTTATCCAAAAAGGATATAA
*
53277725 AATGAAAAGGTTGAAAAGGATGTTATCCAAAAATGATATAA
1 AATGAAAAGGTTGAAAAGGATGTTATCCAAAAAGGATATAA
* * *
53277766 AATAAAAAAGGTTGAAAAGGATGTTATCCGAAAAGGATATCA
1 AAT-GAAAAGGTTGAAAAGGATGTTATCCAAAAAGGATATAA
*
53277808 AATGAAAAGGTTGAAAAGGATTTTATCCAAAAAGGATA-ACA
1 AATGAAAAGGTTGAAAAGGATGTTATCCAAAAAGGATATA-A
53277849 AATGAAAA
1 AATGAAAA
53277857 TGATGTATTT
Statistics
Matches: 120, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
41 83 0.69
42 37 0.31
ACGTcount: A:0.51, C:0.06, G:0.20, T:0.23
Consensus pattern (41 bp):
AATGAAAAGGTTGAAAAGGATGTTATCCAAAAAGGATATAA
Found at i:53277788 original size:83 final size:83
Alignment explanation
Indices: 53277688--53277845 Score: 273
Period size: 83 Copynumber: 1.9 Consensus size: 83
53277678 TGAATCAATG
53277688 AAAAGGTTGAAAAGGATGTTATCC-AAAATGGATATAAAATGAAAAGGTTGAAAAGGATGTTATC
1 AAAAGGTTGAAAAGGATGTTATCCGAAAA-GGATATAAAATGAAAAGGTTGAAAAGGATGTTATC
*
53277752 CAAAAATGATATAAAATAA
65 CAAAAAGGATATAAAATAA
* *
53277771 AAAAGGTTGAAAAGGATGTTATCCGAAAAGGATATCAAATGAAAAGGTTGAAAAGGATTTTATCC
1 AAAAGGTTGAAAAGGATGTTATCCGAAAAGGATATAAAATGAAAAGGTTGAAAAGGATGTTATCC
53277836 AAAAAGGATA
66 AAAAAGGATA
53277846 ACAAATGAAA
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
83 67 0.94
84 4 0.06
ACGTcount: A:0.50, C:0.06, G:0.21, T:0.23
Consensus pattern (83 bp):
AAAAGGTTGAAAAGGATGTTATCCGAAAAGGATATAAAATGAAAAGGTTGAAAAGGATGTTATCC
AAAAAGGATATAAAATAA
Found at i:53278969 original size:19 final size:18
Alignment explanation
Indices: 53278942--53278979 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
53278932 TGACCCTTGC
*
53278942 TTCCTAAATTTTCATATTT
1 TTCCAAAATTTTCA-ATTT
53278961 TTCCAAAATTTTCAATTT
1 TTCCAAAATTTTCAATTT
53278979 T
1 T
53278980 GTTTCAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.29, C:0.16, G:0.00, T:0.55
Consensus pattern (18 bp):
TTCCAAAATTTTCAATTT
Found at i:53281320 original size:64 final size:64
Alignment explanation
Indices: 53281251--53281447 Score: 394
Period size: 64 Copynumber: 3.1 Consensus size: 64
53281241 TCAAAACTCA
53281251 TATCAAAAGTTGATGTTATATCTAAATTTAACTGAACAGTTATTATGTTCTCCTATCATAACTT
1 TATCAAAAGTTGATGTTATATCTAAATTTAACTGAACAGTTATTATGTTCTCCTATCATAACTT
53281315 TATCAAAAGTTGATGTTATATCTAAATTTAACTGAACAGTTATTATGTTCTCCTATCATAACTT
1 TATCAAAAGTTGATGTTATATCTAAATTTAACTGAACAGTTATTATGTTCTCCTATCATAACTT
53281379 TATCAAAAGTTGATGTTATATCTAAATTTAACTGAACAGTTATTATGTTCTCCTATCATAACTT
1 TATCAAAAGTTGATGTTATATCTAAATTTAACTGAACAGTTATTATGTTCTCCTATCATAACTT
53281443 TATCA
1 TATCA
53281448 TTAGTAGCAC
Statistics
Matches: 133, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 133 1.00
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (64 bp):
TATCAAAAGTTGATGTTATATCTAAATTTAACTGAACAGTTATTATGTTCTCCTATCATAACTT
Found at i:53281331 original size:32 final size:32
Alignment explanation
Indices: 53281295--53281395 Score: 93
Period size: 32 Copynumber: 3.2 Consensus size: 32
53281285 AACAGTTATT
53281295 ATGTTCTCCTATCATAACTTTATCAAAAGTTG
1 ATGTTCTCCTATCATAACTTTATCAAAAGTTG
* * * * *
53281327 ATG-T-T-ATATC-TAAATTTAACTGAACAGTTATT
1 ATGTTCTCCTATCATAACTTT-A-TCAAAAG-T-TG
53281359 ATGTTCTCCTATCATAACTTTATCAAAAGTTG
1 ATGTTCTCCTATCATAACTTTATCAAAAGTTG
53281391 ATGTT
1 ATGTT
53281396 ATATCTAAAT
Statistics
Matches: 51, Mismatches: 10, Indels: 16
0.66 0.13 0.21
Matches are distributed among these distances:
28 6 0.12
29 5 0.10
30 6 0.12
31 2 0.04
32 13 0.25
33 2 0.04
34 6 0.12
35 5 0.10
36 6 0.12
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (32 bp):
ATGTTCTCCTATCATAACTTTATCAAAAGTTG
Found at i:53286953 original size:70 final size:70
Alignment explanation
Indices: 53286840--53286974 Score: 243
Period size: 70 Copynumber: 1.9 Consensus size: 70
53286830 TATTTGTTTA
* *
53286840 ATTAAGCTCAAGAGCAAAGGGGAACTAAATCCGATAAAGGGAAGGAAAAAGTGGTCGAATAGCTA
1 ATTAAGCTCAAGAGCAAAGGGGAAATAAAACCGATAAAGGGAAGGAAAAAGTGGTCGAATAGCTA
53286905 TTTTG
66 TTTTG
*
53286910 ATTAAGCTCAAGAGCAAAGGGGAAATAAAACCGATAAAGGGAAGGAAAAAGTGGTTGAATAGCTA
1 ATTAAGCTCAAGAGCAAAGGGGAAATAAAACCGATAAAGGGAAGGAAAAAGTGGTCGAATAGCTA
53286975 GCGGAATCGT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
70 62 1.00
ACGTcount: A:0.44, C:0.10, G:0.27, T:0.18
Consensus pattern (70 bp):
ATTAAGCTCAAGAGCAAAGGGGAAATAAAACCGATAAAGGGAAGGAAAAAGTGGTCGAATAGCTA
TTTTG
Found at i:53287343 original size:40 final size:40
Alignment explanation
Indices: 53287198--53287381 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
53287188 TTGAATGATG
* *
53287198 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * * *
53287237 TCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
53287277 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
53287316 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
53287357 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
53287382 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
39 52 0.42
40 62 0.50
41 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:53287403 original size:79 final size:79
Alignment explanation
Indices: 53287250--53287414 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
53287240 AGACTAAGAT
* ** *
53287250 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
53287315 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
53287329 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
53287391 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
53287408 CCGAAGG
1 CCGAAGG
53287415 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.04
79 46 0.62
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:53292087 original size:38 final size:38
Alignment explanation
Indices: 53292045--53292214 Score: 223
Period size: 38 Copynumber: 4.4 Consensus size: 38
53292035 TAAAGATCCA
*
53292045 CAGGCTTTGTGCTGGTATTATATCCGGGTTAAATCCCG
1 CAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCG
53292083 CAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCG
1 CAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCG
* * *
53292121 CAGGCTTCATGCTAGTATTATATTCGGGTTAAATCCCG
1 CAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCG
* * * *
53292159 CAGGCTTAGTGTTGGTATTATATTCGAGCTTAAAGTCCCG
1 CAGGCTTCGTGCTGGTATTATATCCG-GGTTAAA-TCCCG
* * *
53292199 TAGGTTTTGTGCTGGT
1 CAGGCTTCGTGCTGGT
53292215 GACTGGATTC
Statistics
Matches: 117, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
38 94 0.80
39 6 0.05
40 17 0.15
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.35
Consensus pattern (38 bp):
CAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCG
Found at i:53297309 original size:45 final size:45
Alignment explanation
Indices: 53297246--53297422 Score: 259
Period size: 45 Copynumber: 4.0 Consensus size: 45
53297236 CAGAATTCAT
* *
53297246 TCACCGACATT-TCGCCTGCTAGGCTCGAAA-GCCCGAATAGTATC
1 TCACCGACATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAGTATA
* * *
53297290 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCTCGAATAGCATA
1 TCACCGACATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATA
* *
53297335 TCACCGACATTATAGCCTGCTAGGCTCAAAGGCCCAAATAATATA
1 TCACCGACATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATA
*
53297380 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
1 TCACCGACATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
53297423 CTGTACGATA
Statistics
Matches: 118, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
44 13 0.11
45 105 0.89
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
TCACCGACATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATA
Found at i:53298916 original size:34 final size:34
Alignment explanation
Indices: 53298838--53298909 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 34
53298828 CATTTCAGTA
*
53298838 ACAGT-TCAGTTTCAGTTAGGGCCTAAGCCCATT
1 ACAGTATCAGTATCAGTTAGGGCCTAAGCCCATT
* *
53298871 ACAGTATCAGTATCAGTGTA-GGCCTTAGCCTATT
1 ACAGTATCAGTATCAGT-TAGGGCCTAAGCCCATT
*
53298905 TCAGT
1 ACAGT
53298910 GACAGTAACA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 5 0.15
34 26 0.79
35 2 0.06
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (34 bp):
ACAGTATCAGTATCAGTTAGGGCCTAAGCCCATT
Found at i:53306722 original size:56 final size:56
Alignment explanation
Indices: 53306636--53306752 Score: 225
Period size: 56 Copynumber: 2.1 Consensus size: 56
53306626 ACAAGGGATG
53306636 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
53306692 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
53306748 ATGGG
1 ATGGG
53306753 AAATAAACTA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 60 1.00
ACGTcount: A:0.44, C:0.09, G:0.24, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:53308100 original size:80 final size:79
Alignment explanation
Indices: 53307886--53308110 Score: 276
Period size: 79 Copynumber: 2.8 Consensus size: 79
53307876 TCGAATGATG
* * * * * *
53307886 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCATT
*
53307950 TGTGCGAGATACTAAT
64 TGTGCGAGATACTAAA
* *
53307966 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTATTA-AATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT-GTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATT
*
53308029 TGTGCGAGTTACTAAA
64 TGTGCGAGATACTAAA
* *
53308045 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGC-ATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
53308110 G
65 G
53308111 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
78 2 0.02
79 59 0.47
80 59 0.47
81 5 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:53308117 original size:40 final size:40
Alignment explanation
Indices: 53307886--53308110 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
53307876 TCGAATGATG
* * * *
53307886 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
53307926 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
53307966 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
53308005 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
53308045 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
53308086 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
53308111 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 33 0.20
40 118 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:53308132 original size:119 final size:119
Alignment explanation
Indices: 53307886--53308143 Score: 274
Period size: 119 Copynumber: 2.2 Consensus size: 119
53307876 TCGAATGATG
* * *
53307886 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
* ** *
53307951 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTATTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * **
53308005 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAA
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAA
* * * *
53308068 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
53308125 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
53308144 TACGTGATTT
Statistics
Matches: 116, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 83 0.72
120 30 0.26
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:53310375 original size:18 final size:17
Alignment explanation
Indices: 53310348--53310383 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
53310338 TAAGCAAGCT
53310348 AAACAAAAACAAAATAA
1 AAACAAAAACAAAATAA
53310365 AAACTAAAAACAAAATAA
1 AAAC-AAAAACAAAATAA
53310383 A
1 A
53310384 TTGAAAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.81, C:0.11, G:0.00, T:0.08
Consensus pattern (17 bp):
AAACAAAAACAAAATAA
Found at i:53313779 original size:13 final size:12
Alignment explanation
Indices: 53313744--53313786 Score: 50
Period size: 14 Copynumber: 3.3 Consensus size: 12
53313734 CGTATACACA
53313744 ATTCATATAACT
1 ATTCATATAACT
53313756 ACTTCCATATAACT
1 A-TT-CATATAACT
*
53313770 GATTCATATAATT
1 -ATTCATATAACT
53313783 ATTC
1 ATTC
53313787 TGTATATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 5 0.19
13 10 0.37
14 11 0.41
15 1 0.04
ACGTcount: A:0.37, C:0.19, G:0.02, T:0.42
Consensus pattern (12 bp):
ATTCATATAACT
Found at i:53313831 original size:13 final size:13
Alignment explanation
Indices: 53313815--53313874 Score: 50
Period size: 13 Copynumber: 4.4 Consensus size: 13
53313805 TAACCGATTC
53313815 ATATAATCATTTT
1 ATATAATCATTTT
*
53313828 ATATATTCATTTTT
1 ATATAATCA-TTTT
* *
53313842 CCATATAA-CCTATTC
1 --ATATAATCAT-TTT
53313857 ATATAATCATTTT
1 ATATAATCATTTT
53313870 ATATA
1 ATATA
53313875 TTCGTTTTTC
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
13 21 0.58
14 7 0.19
15 3 0.08
16 5 0.14
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (13 bp):
ATATAATCATTTT
Found at i:53313835 original size:21 final size:21
Alignment explanation
Indices: 53313811--53313877 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
53313801 CATATAACCG
53313811 ATTCATATAATCATTTTATAT
1 ATTCATATAATCATTTTATAT
** * * **
53313832 ATTCAT-TTTTCCATATAACCT
1 ATTCATATAAT-CATTTTATAT
53313853 ATTCATATAATCATTTTATAT
1 ATTCATATAATCATTTTATAT
53313874 ATTC
1 ATTC
53313878 GTTTTTCCAC
Statistics
Matches: 32, Mismatches: 12, Indels: 4
0.67 0.25 0.08
Matches are distributed among these distances:
20 2 0.06
21 28 0.88
22 2 0.06
ACGTcount: A:0.34, C:0.15, G:0.00, T:0.51
Consensus pattern (21 bp):
ATTCATATAATCATTTTATAT
Found at i:53313858 original size:42 final size:41
Alignment explanation
Indices: 53313758--53313886 Score: 163
Period size: 42 Copynumber: 3.1 Consensus size: 41
53313748 ATATAACTAC
* * * *
53313758 TTCCATATAA-CTGATTCATATAATTATTCTGTATATT-TAT
1 TTCCATATAACCT-ATTCATATAATCATTTTATATATTCTTT
* *
53313798 GTCCATATAACCGATTCATATAATCATTTTATATATTCATTT
1 TTCCATATAACCTATTCATATAATCATTTTATATATTC-TTT
53313840 TTCCATATAACCTATTCATATAATCATTTTATATATTCGTTT
1 TTCCATATAACCTATTCATATAATCATTTTATATATTC-TTT
53313882 TTCCA
1 TTCCA
53313887 CCCAATGAAC
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
40 30 0.39
41 1 0.01
42 46 0.60
ACGTcount: A:0.32, C:0.16, G:0.04, T:0.48
Consensus pattern (41 bp):
TTCCATATAACCTATTCATATAATCATTTTATATATTCTTT
Found at i:53313960 original size:25 final size:25
Alignment explanation
Indices: 53313928--53313992 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
53313918 ACACAAGAAT
*
53313928 AATGCTCATACAAGCTATAACTGTA
1 AATGCTCACACAAGCTATAACTGTA
* * * *
53313953 ATTGCTCACCCGAGCTATAATTGTA
1 AATGCTCACACAAGCTATAACTGTA
53313978 AATGCTCACACAAGC
1 AATGCTCACACAAGC
53313993 AATGAAATGG
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (25 bp):
AATGCTCACACAAGCTATAACTGTA
Found at i:53322151 original size:46 final size:45
Alignment explanation
Indices: 53322081--53322249 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 45
53322071 AACCCGCCCC
53322081 TAAGTGAACTCGGACTCAACTCAACGAGCTTGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTGGGCGTTCGCATCCA
* *
53322127 TAAGTGAACTCGGACTCAAATCAACGAGTTTGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTGG--G-C--GTTCGCATCCA
* * * *
53322175 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTT-GGGCGTTCGCATCCA
*
53322220 TAGGTGAACTCGGACTCAACTCAACGAGTT
1 TAAGTGAACTCGGACTCAACTCAACGAGTT
53322250 CGGATGCTCA
Statistics
Matches: 101, Mismatches: 12, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 58 0.57
47 24 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTGGGCGTTCGCATCCA
Found at i:53322193 original size:93 final size:93
Alignment explanation
Indices: 53322086--53322256 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
53322076 GCCCCTAAGT
* *
53322086 GAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCATAAGTGAACTCGGACTCAAATCA
1 GAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCGGACTCAAATCA
*
53322150 ACGAGTTTGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
* *
53322179 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAAATCAA
53322244 CGAGTTCGGATGC
66 CGAGTTCGGATGC
53322257 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAAATCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:53322713 original size:30 final size:30
Alignment explanation
Indices: 53322679--53322738 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
53322669 ATTTAATACG
53322679 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
53322709 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
53322739 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Done.