Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 45 of 186
Found at i:13507111 original size:23 final size:22
Alignment explanation
Indices: 13507039--13507126 Score: 92
Period size: 21 Copynumber: 4.1 Consensus size: 22
13507029 TACCTAATCA
*
13507039 GAATACGACACATAA-GTGCCT
1 GAATACGACACACAAGGTGCCT
*
13507060 GAA-ACGACACACGAGGTGCCT
1 GAATACGACACACAAGGTGCCT
* *
13507081 G-CTGCGACACACAAGGTGCCT
1 GAATACGACACACAAGGTGCCT
* *
13507102 GAAATACGACACATAAAGTGCCT
1 G-AATACGACACACAAGGTGCCT
13507125 GA
1 GA
13507127 TCAGTAAAGC
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
20 9 0.17
21 27 0.50
22 1 0.02
23 17 0.31
ACGTcount: A:0.35, C:0.26, G:0.24, T:0.15
Consensus pattern (22 bp):
GAATACGACACACAAGGTGCCT
Found at i:13507123 original size:44 final size:41
Alignment explanation
Indices: 13507044--13507125 Score: 101
Period size: 44 Copynumber: 1.9 Consensus size: 41
13507034 AATCAGAATA
* * *
13507044 CGACACATAAGTGCCTGAAACGACACACGAGGTGCCTGCTG
1 CGACACACAAGTGCCTGAAACGACACACAAAGTGCCTGCTG
*
13507085 CGACACACAAGGTGCCTGAAATACGACACATAAAGTGCCTG
1 CGACACACAA-GTGCCTG-AA-ACGACACACAAAGTGCCTG
13507126 ATCAGTAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 9 0.26
42 7 0.21
43 2 0.06
44 16 0.47
ACGTcount: A:0.33, C:0.28, G:0.24, T:0.15
Consensus pattern (41 bp):
CGACACACAAGTGCCTGAAACGACACACAAAGTGCCTGCTG
Found at i:13507345 original size:23 final size:23
Alignment explanation
Indices: 13507317--13507379 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
13507307 AAATGTCCAA
*
13507317 CCAAAACACACTAGTATAATCCT
1 CCAAAACACACCAGTATAATCCT
* *
13507340 CTAAAACACACCAGGATAATCCT
1 CCAAAACACACCAGTATAATCCT
13507363 CCAAAACACACCAGTAT
1 CCAAAACACACCAGTAT
13507380 CATATAATCC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.44, C:0.32, G:0.06, T:0.17
Consensus pattern (23 bp):
CCAAAACACACCAGTATAATCCT
Found at i:13507409 original size:23 final size:23
Alignment explanation
Indices: 13507317--13507410 Score: 98
Period size: 23 Copynumber: 3.9 Consensus size: 23
13507307 AAATGTCCAA
* *
13507317 CCAAAACACACTAGTATAATCCT
1 CCAAAACACACCAGAATAATCCT
* *
13507340 CTAAAACACACCAGGATAATCCT
1 CCAAAACACACCAGAATAATCCT
13507363 CCAAAACACACCAGTATCATATAATCCT
1 CCAAAACACACCAG----A-ATAATCCT
*
13507391 CCCAAACACACCAGAATAAT
1 CCAAAACACACCAGAATAAT
13507411 ATAATCCATC
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
23 38 0.63
24 1 0.02
28 21 0.35
ACGTcount: A:0.45, C:0.32, G:0.05, T:0.18
Consensus pattern (23 bp):
CCAAAACACACCAGAATAATCCT
Found at i:13507436 original size:29 final size:28
Alignment explanation
Indices: 13507355--13507437 Score: 121
Period size: 28 Copynumber: 2.9 Consensus size: 28
13507345 ACACACCAGG
* *
13507355 ATAATCCTCCAAAACACACCAGTATCAT
1 ATAATCCTCCAAAACACACCAGAATAAT
*
13507383 ATAATCCTCCCAAACACACCAGAATAAT
1 ATAATCCTCCAAAACACACCAGAATAAT
*
13507411 ATAATCCATCCAAAACAAACCAGAATA
1 ATAATCC-TCCAAAACACACCAGAATA
13507438 GCACAAAGTG
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 32 0.65
29 17 0.35
ACGTcount: A:0.48, C:0.30, G:0.04, T:0.18
Consensus pattern (28 bp):
ATAATCCTCCAAAACACACCAGAATAAT
Found at i:13513149 original size:27 final size:26
Alignment explanation
Indices: 13513110--13513162 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
13513100 AGGACACAGG
*
13513110 TGTGGGGAGGTAGGCTGTGTGGCGCGA
1 TGTGGGGAGGTAGG-GGTGTGGCGCGA
13513137 TGTGGGG-GCGTAGGGGTGTGGCGCGA
1 TGTGGGGAG-GTAGGGGTGTGGCGCGA
13513163 AGGTACTAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 12 0.50
27 12 0.50
ACGTcount: A:0.09, C:0.11, G:0.58, T:0.21
Consensus pattern (26 bp):
TGTGGGGAGGTAGGGGTGTGGCGCGA
Found at i:13516040 original size:25 final size:26
Alignment explanation
Indices: 13515995--13516043 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
13515985 CATAAAATTA
*
13515995 TTTTACAATTTTTAATTAATTTTTTT
1 TTTTACAATTTTTAATGAATTTTTTT
*
13516021 TTTTACATTTTTTAA-GAATTTTT
1 TTTTACAATTTTTAATGAATTTTT
13516044 ACAAAATTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (26 bp):
TTTTACAATTTTTAATGAATTTTTTT
Found at i:13523497 original size:27 final size:26
Alignment explanation
Indices: 13523458--13523510 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
13523448 AGGACACAGG
*
13523458 TGTGGGGAGGTAGGCTGTGTGGCGCGA
1 TGTGGGGAGGTAGG-GGTGTGGCGCGA
13523485 TGTGGGG-GCGTAGGGGTGTGGCGCGA
1 TGTGGGGAG-GTAGGGGTGTGGCGCGA
13523511 AGGTACTAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 12 0.50
27 12 0.50
ACGTcount: A:0.09, C:0.11, G:0.58, T:0.21
Consensus pattern (26 bp):
TGTGGGGAGGTAGGGGTGTGGCGCGA
Found at i:13526388 original size:25 final size:26
Alignment explanation
Indices: 13526343--13526391 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
13526333 CATAAAATTA
*
13526343 TTTTACAATTTTTAATTAATTTTTTT
1 TTTTACAATTTTTAATGAATTTTTTT
*
13526369 TTTTACATTTTTTAA-GAATTTTT
1 TTTTACAATTTTTAATGAATTTTT
13526392 ACAAAATTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (26 bp):
TTTTACAATTTTTAATGAATTTTTTT
Found at i:13537159 original size:18 final size:18
Alignment explanation
Indices: 13537136--13537174 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
13537126 TTTGCATGCA
*
13537136 ATGAATACGTATATGACT
1 ATGAATACGCATATGACT
*
13537154 ATGAATGCGCATATGACT
1 ATGAATACGCATATGACT
13537172 ATG
1 ATG
13537175 TCTGAGGATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (18 bp):
ATGAATACGCATATGACT
Found at i:13548285 original size:180 final size:180
Alignment explanation
Indices: 13547972--13548310 Score: 425
Period size: 180 Copynumber: 1.9 Consensus size: 180
13547962 TAAGATACCT
* * * *
13547972 TAATTTTCTATGAAACTAGACTCATATATCTTCTTACCATAAAATTTTTGGAATTTTTGGTCTGG
1 TAATTTTCTATGAAACTAGACTCACATATATTCTTACCATAAAATTTTTAGAATTTTTGGTCTAG
* * *
13548037 CCAATAAGTACAGTTTATTCATTAAAGATACCACTATTACATTATCCAACAATTCCAAACTCTCT
66 CCAATAAGTACAGTTTATTCATTAAAAATACCACTATTACACTATCCAACAATTCCAAACTATCT
* *
13548102 TCACTAAAATTTA-TTTTTCTCATGGTACAAGACTCCAAATTGAGAAGCAA
131 TCACTAAAA-ATAGTTTATCTCATGGTACAAGACTCCAAATTGAGAAGCAA
**
13548152 TAATTTT-TATAGAAACTTTACTCACATATATTCTTACCATAAAATTTTTCAGAA-TTTTGGT-T
1 TAATTTTCTAT-GAAACTAGACTCACATATATTCTTACCATAAAATTTTT-AGAATTTTTGGTCT
* * * * * * * * * *
13548214 CAGCCAATTAGTATAGTTTATTCATTAAAAATACCCCTGTTTCACTATCTAATAGTTCCGACCTA
64 -AGCCAATAAGTACAGTTTATTCATTAAAAATACCACTATTACACTATCCAACAATTCCAAACTA
13548279 TCTTCACTAAAAATAGTTTATCTCATGGTACA
128 TCTTCACTAAAAATAGTTTATCTCATGGTACA
13548311 GCTCTCGGAT
Statistics
Matches: 134, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
179 6 0.04
180 125 0.93
181 3 0.02
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (180 bp):
TAATTTTCTATGAAACTAGACTCACATATATTCTTACCATAAAATTTTTAGAATTTTTGGTCTAG
CCAATAAGTACAGTTTATTCATTAAAAATACCACTATTACACTATCCAACAATTCCAAACTATCT
TCACTAAAAATAGTTTATCTCATGGTACAAGACTCCAAATTGAGAAGCAA
Found at i:13548656 original size:16 final size:16
Alignment explanation
Indices: 13548637--13548668 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13548627 AATTATTTTA
13548637 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
13548653 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
13548669 ACTCCATTCT
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:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:13548945 original size:50 final size:50
Alignment explanation
Indices: 13548870--13549407 Score: 378
Period size: 50 Copynumber: 10.7 Consensus size: 50
13548860 CGAAGCTCCT
* *
13548870 TGGTACGCATAGTAGCCTGCACTTAGTACTACACATGATACCTATTAATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGATACCTATCAATC
* * * *
13548920 TGGTACATATAGTAGCCTGCACTTAGTACTACACATG-TGACTTAACCATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGAT-ACCTATCAATC
* * * ** *
13548970 TGATACACGTAGTAGCCTGCACTTAGTACTACACACAAGAT-CGAAGTTAA-C
1 TGGTACACATAGTAGCCTGCACTTAGTACT--ACACATGATACCTA-TCAATC
* * * * ** *
13549021 GGGTACGCATAGTAGCTTGCACTTATTACTACACATGCGACCTACCAATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGATACCTATCAATC
* * * * *
13549071 TGGTACACATAGTAGCCAGCACTTAGTACTACACACG-TGACTTAACCATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGAT-ACCTATCAATC
* * * * ** *
13549121 TGATATACGTAGTAGCCTGCACTTAGTACCACACACATGAT-CGAAGTTAA-C
1 TGGTACACATAGTAGCCTGCACTTAGTA-C-TACACATGATACCTA-TCAATC
* * ** *
13549172 GGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTACCAATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGATACCTATCAATC
* * * **
13549222 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGA-A-TTAACCGTC
1 TGGTACACATAGTAGCCTGCACTTAGTACT--ACACATGATACCTATCAATC
* * * * *
13549272 TGATACACGTAGTAGCCTGTACTTAGTACTACACATG-TGA-TTGAAGTTAA-C
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGAT-ACCT--A-TCAATC
* ** * * **
13549323 GGGTATGCATAGTAGCCTACACTTAATACTACACATGCGACCTATCAATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGATACCTATCAATC
* *
13549373 TGGTACACGTAGTAGCCTACACTTAGTACTACACA
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACA
13549408 CGTGACTCAC
Statistics
Matches: 373, Mismatches: 91, Indels: 48
0.73 0.18 0.09
Matches are distributed among these distances:
48 7 0.02
49 24 0.06
50 231 0.62
51 87 0.23
52 22 0.06
53 2 0.01
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (50 bp):
TGGTACACATAGTAGCCTGCACTTAGTACTACACATGATACCTATCAATC
Found at i:13549134 original size:151 final size:151
Alignment explanation
Indices: 13548871--13549414 Score: 838
Period size: 151 Copynumber: 3.6 Consensus size: 151
13548861 GAAGCTCCTT
** ** *
13548871 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGATACCTATTAATCTGGTACATATAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTACCAATCTGGTACACATAGTAGC
* *
13548936 CTGCACTTAGTACTACACATGTGACTTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
66 CAGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
*
13549001 CACACAAGATCGAAGTTAACG
131 CACACATGATCGAAGTTAACG
* *
13549022 GGTACGCATAGTAGCTTGCACTTATTACTACACATGCGACCTACCAATCTGGTACACATAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTACCAATCTGGTACACATAGTAGC
* *
13549087 CAGCACTTAGTACTACACACGTGACTTAACCATCTGATATACGTAGTAGCCTGCACTTAGTACCA
66 CAGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
13549152 CACACATGATCGAAGTTAACG
131 CACACATGATCGAAGTTAACG
*
13549173 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTACCAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTACCAATCTGGTACACATAGTAGC
* * * * *
13549238 CTGCACTTAGTACTACACACATGAATTAACCGTCTGATACACGTAGTAGCCTGTACTTAGTACTA
66 CAGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
** *
13549303 CACATGTGATTGAAGTTAACG
131 CACACATGATCGAAGTTAACG
* * * * *
13549324 GGTATGCATAGTAGCCTACACTTAATACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTACCAATCTGGTACACATAGTAGC
13549389 CTA-CACTTAGTACTACACACGTGACT
66 C-AGCACTTAGTACTACACACGTGACT
13549415 CACAACGGAT
Statistics
Matches: 360, Mismatches: 32, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
151 360 1.00
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (151 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTACCAATCTGGTACACATAGTAGC
CAGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
CACACATGATCGAAGTTAACG
Found at i:13555374 original size:16 final size:16
Alignment explanation
Indices: 13555355--13555386 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13555345 AATTGTTTTA
13555355 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
13555371 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
13555387 ACTCCATTCT
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:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:13555700 original size:50 final size:50
Alignment explanation
Indices: 13555638--13555968 Score: 228
Period size: 50 Copynumber: 6.6 Consensus size: 50
13555628 TTGGTACATG
* *
13555638 TAGTA-CCTGCACTTAGTACTACACACGTGACTTAACCATCTGATATACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAATCTGATACACA
* * * * * *
13555687 TAGTAGCCAGCACTTAGTACTACACACGTGA-TCGAAGTTAAT-GGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACT-TAA--CAATCTGATACACA
* * * ** * * *
13555738 TAGTAGCCTGTACTTAGTACTACGCATGCAACCTATCAATC-CAGT--ACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAATCTGA-TACACA
* * * *
13555786 TAGTAGCCTACACTTAGTACTACACACGTGAATTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAATCTGATACACA
* * * * * **
13555836 TGGTAGCCTGCACTTAGTACTATACACGTGA-TCGAAGTCAA-CGGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACT-TAA--CAATCTGATACACA
* * ** * *
13555887 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATGAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAATCTGATACACA
* *
13555937 TAGTAGCCTACACTTAATACTACACACGTGAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGAC
13555969 ACACAACGGA
Statistics
Matches: 210, Mismatches: 57, Indels: 29
0.71 0.19 0.10
Matches are distributed among these distances:
48 34 0.16
49 13 0.06
50 94 0.45
51 65 0.31
52 4 0.02
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAATCTGATACACA
Found at i:13555851 original size:149 final size:150
Alignment explanation
Indices: 13555638--13555967 Score: 475
Period size: 149 Copynumber: 2.2 Consensus size: 150
13555628 TTGGTACATG
* * *
13555638 TAGTA-CCTGCACTTAGTACTACACACGTGACTTAACCATCTGATATACATAGTAGCCAGCACTT
1 TAGTAGCCTACACTTAGTACTACACACGTGAATTAACCATCTGATACACATAGTAGCCAGCACTT
* * * *
13555702 AGTACTACACACGTGATCGAAGTTAATGGGTACGCATAGTAGCCTGTACTTAGTACTACGCATGC
66 AGTACTACACACGTGATCGAAGTCAACGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGC
13555767 AACCTATCAATCCAGTACA-
131 AACCTATCAATCCAGTACAC
* * *
13555786 TAGTAGCCTACACTTAGTACTACACACGTGAATTAACCATCTGATACACGTGGTAGCCTGCACTT
1 TAGTAGCCTACACTTAGTACTACACACGTGAATTAACCATCTGATACACATAGTAGCCAGCACTT
* * *
13555851 AGTACTATACACGTGATCGAAGTCAACGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGT
66 AGTACTACACACGTGATCGAAGTCAACGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGC
* * **
13555916 GACCTATGAATCTGGTACAC
131 AACCTATCAATCCAGTACAC
*
13555936 GTAGTAGCCTACACTTAATACTACACACGTGA
1 -TAGTAGCCTACACTTAGTACTACACACGTGA
13555968 CACACAACGG
Statistics
Matches: 161, Mismatches: 18, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
148 5 0.03
149 126 0.78
151 30 0.19
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (150 bp):
TAGTAGCCTACACTTAGTACTACACACGTGAATTAACCATCTGATACACATAGTAGCCAGCACTT
AGTACTACACACGTGATCGAAGTCAACGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGC
AACCTATCAATCCAGTACAC
Found at i:13555906 original size:101 final size:101
Alignment explanation
Indices: 13555784--13555967 Score: 260
Period size: 101 Copynumber: 1.8 Consensus size: 101
13555774 CAATCCAGTA
* * * *
13555784 CATAGTAGCCTACACTTAGTACTACACACGTGAATTAACCATCTGATACACGTGGTAGCCTGCAC
1 CATAGTAGCCTACACTTAGTACTACACACGTGAACTAACAATCTGATACACGTAGTAGCCTACAC
* *
13555849 TTAGTACTATACACGTGATCGAAGTCAACGGGTATG
66 TTAATACTACACACGTGATCGAAGTCAACGGGTATG
* * * ** *
13555885 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTATGAATCTGGTACACGTAGTAGCCTACAC
1 CATAGTAGCCTACACTTAGTACTACACACGTGAACTAACAATCTGATACACGTAGTAGCCTACAC
13555950 TTAATACTACACACGTGA
66 TTAATACTACACACGTGA
13555968 CACACAACGG
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
101 71 1.00
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.26
Consensus pattern (101 bp):
CATAGTAGCCTACACTTAGTACTACACACGTGAACTAACAATCTGATACACGTAGTAGCCTACAC
TTAATACTACACACGTGATCGAAGTCAACGGGTATG
Found at i:13564567 original size:22 final size:24
Alignment explanation
Indices: 13564532--13564582 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
13564522 TTATTGAATC
*
13564532 CCATGTACATG-TATCATATAT-A
1 CCATGTACACGATATCATATATAA
*
13564554 CCATGTATACGTATATCATATATAA
1 CCATGTACACG-ATATCATATATAA
13564579 CCAT
1 CCAT
13564583 TTCCATGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 9 0.38
24 10 0.42
25 5 0.21
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.35
Consensus pattern (24 bp):
CCATGTACACGATATCATATATAA
Found at i:13564793 original size:25 final size:25
Alignment explanation
Indices: 13564765--13564824 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
13564755 AAGCTCCTCT
* *
13564765 GAGCTGAATAACGATAAGCTCATAC
1 GAGCTGAATAACAATAAGCTCATAA
* *
13564790 GAGCTGAGTATCAATAAGCTCATAA
1 GAGCTGAATAACAATAAGCTCATAA
13564815 GAGCTAGAAT
1 GAGCT-GAAT
13564825 CAGTAACCCT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 26 0.90
26 3 0.10
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.22
Consensus pattern (25 bp):
GAGCTGAATAACAATAAGCTCATAA
Found at i:13573020 original size:16 final size:16
Alignment explanation
Indices: 13572999--13573029 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13572989 TGAAGCTCTA
13572999 ATTTTATTATATGATG
1 ATTTTATTATATGATG
*
13573015 ATTTTATTATGTGAT
1 ATTTTATTATATGAT
13573030 TTTGATAGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (16 bp):
ATTTTATTATATGATG
Found at i:13581383 original size:19 final size:21
Alignment explanation
Indices: 13581345--13581387 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
13581335 TTAACAATAG
13581345 AAAAACTTGAACATTCTTCAA
1 AAAAACTTGAACATTCTTCAA
*
13581366 AAAAACTT-ACCATT-TTCAA
1 AAAAACTTGAACATTCTTCAA
13581385 AAA
1 AAA
13581388 TACCCTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.38
20 5 0.24
21 8 0.38
ACGTcount: A:0.51, C:0.19, G:0.02, T:0.28
Consensus pattern (21 bp):
AAAAACTTGAACATTCTTCAA
Found at i:13587654 original size:46 final size:45
Alignment explanation
Indices: 13587587--13587761 Score: 208
Period size: 46 Copynumber: 3.8 Consensus size: 45
13587577 TGTAACTCGC
13587587 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
* * *
13587633 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTCGCAT
* *** * *
13587679 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTTGGGCATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
*
13587726 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
13587762 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 17, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
45 2 0.02
46 70 0.65
47 33 0.31
48 2 0.02
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGCAT
Found at i:13587707 original size:93 final size:93
Alignment explanation
Indices: 13587595--13587765 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
13587585 GCCCATAAGT
*
13587595 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
13587660 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
13587688 GAACTCGGACTCAACTCAACGAGTTTGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
13587753 CGAGTTCGGATGC
66 CGAGCTCGGATGC
13587766 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:13587781 original size:46 final size:46
Alignment explanation
Indices: 13587592--13587781 Score: 135
Period size: 46 Copynumber: 4.1 Consensus size: 46
13587582 CTCGCCCATA
** * *
13587592 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCC-T
13587637 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTTA-CATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACCATC-CT
* * * * * * *
13587687 --CGAACTCGGACTCAACTCAACGAGTTTGGGCATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAG-CTCGG-ATGCTCAACCATCCT
*
13587731 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
13587777 AGTGA
1 AGTGA
13587782 CATGTCACTT
Statistics
Matches: 114, Mismatches: 15, Indels: 30
0.72 0.09 0.19
Matches are distributed among these distances:
44 9 0.08
45 5 0.04
46 60 0.53
47 26 0.23
48 3 0.03
49 4 0.04
50 6 0.05
51 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
Found at i:13589602 original size:15 final size:15
Alignment explanation
Indices: 13589578--13589625 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
13589568 AGGAAACCGA
13589578 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
13589593 ATAGAGAAATCC-AG
1 ATAAAGAAATCCAAG
*
13589607 AATAAAGAAACCCAAG
1 -ATAAAGAAATCCAAG
13589623 ATA
1 ATA
13589626 CGATACTATG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 2 0.07
15 24 0.86
16 2 0.07
ACGTcount: A:0.58, C:0.15, G:0.15, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:13592690 original size:93 final size:93
Alignment explanation
Indices: 13592577--13593491 Score: 1662
Period size: 93 Copynumber: 9.8 Consensus size: 93
13592567 CGCCCATAAG
* * * *
13592577 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
13592642 ATGAGCTCGGATGCCTAGTTACATCTCT
66 ATGAGCTCGGATGCCTAGTTACATCTCT
13592670 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
13592735 ATGAGCTCGGATGCCTAGTTACATCTCT
66 ATGAGCTCGGATGCCTAGTTACATCTCT
13592763 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
13592828 ATGAGCTCGGATGCCTAGTTACATCTCT
66 ATGAGCTCGGATGCCTAGTTACATCTCT
13592856 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
13592921 ATGAGCTCGGATGCCTAGTTACATCTCT
66 ATGAGCTCGGATGCCTAGTTACATCTCT
13592949 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
13593014 ATGAGCTCGGATGCCTAGTTACATCTCT
66 ATGAGCTCGGATGCCTAGTTACATCTCT
13593042 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
13593107 ATGAGCTCGGATGCCTAGTTACATCTCT
66 ATGAGCTCGGATGCCTAGTTACATCTCT
13593135 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
13593200 ATGAGCTCGGATGCCTAGTTACATCTCT
66 ATGAGCTCGGATGCCTAGTTACATCTCT
13593228 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
13593293 ATGAGCTCGGATGCCTAGTTACATCTCT
66 ATGAGCTCGGATGCCTAGTTACATCTCT
13593321 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
* * *
13593386 ACGAGTTCGGA---C-A-TTCGCATC-CAT
66 ATGAGCTCGGATGCCTAGTT-ACATCTC-T
13593410 AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAAC
1 ---TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAAC
* *
13593475 TCAACGAGTTCGGATGC
63 TCAATGAGCTCGGATGC
13593492 TCAACCATCC
Statistics
Matches: 807, Mismatches: 7, Indels: 14
0.97 0.01 0.02
Matches are distributed among these distances:
88 3 0.00
89 6 0.01
90 1 0.00
92 76 0.09
93 721 0.89
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (93 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ATGAGCTCGGATGCCTAGTTACATCTCT
Found at i:13596339 original size:35 final size:36
Alignment explanation
Indices: 13596269--13596342 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 36
13596259 GTTAAGCAGG
* * *
13596269 AAGAACATGAAAAAGTGAGGAAAGAGAATAGAAAGA
1 AAGAAAATGAAAAAGTAAGGAAAGAGAAGAGAAAGA
*
13596305 AAGAAAATGAAAAAG-AAGGAAAGA-AACGATAAAGA
1 AAGAAAATGAAAAAGTAAGGAAAGAGAA-GAGAAAGA
13596340 AAG
1 AAG
13596343 GGGAACAAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
34 2 0.06
35 17 0.52
36 14 0.42
ACGTcount: A:0.65, C:0.03, G:0.26, T:0.07
Consensus pattern (36 bp):
AAGAAAATGAAAAAGTAAGGAAAGAGAAGAGAAAGA
Found at i:13596343 original size:20 final size:21
Alignment explanation
Indices: 13596298--13596343 Score: 53
Period size: 19 Copynumber: 2.3 Consensus size: 21
13596288 GAAAGAGAAT
*
13596298 AGAAA-GAAAGAAAATGAAAA
1 AGAAAGGAAAGAAAACGAAAA
*
13596318 AG-AAGGAAAG-AAACGATAA
1 AGAAAGGAAAGAAAACGAAAA
13596337 AGAAAGG
1 AGAAAGG
13596344 GGAACAAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.67, C:0.02, G:0.26, T:0.04
Consensus pattern (21 bp):
AGAAAGGAAAGAAAACGAAAA
Found at i:13597499 original size:51 final size:51
Alignment explanation
Indices: 13597422--13597538 Score: 171
Period size: 51 Copynumber: 2.3 Consensus size: 51
13597412 TGATGTGTCT
13597422 TAAAACAAATATTTTTTTAAGGGTGGAGAGAGAGAGATGAGCAGCACCAATA
1 TAAAA-AAATATTTTTTTAAGGGTGGAGAGAGAGAGATGAGCAGCACCAATA
* * * * *
13597474 TAAAAAAATATTTTTTTATGGGTGGAGGGAGAGAGATGGGCGGCACCAGTA
1 TAAAAAAATATTTTTTTAAGGGTGGAGAGAGAGAGATGAGCAGCACCAATA
*
13597525 TAAAAAAAAATTTT
1 TAAAAAAATATTTT
13597539 GGTAAGAGAG
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
51 54 0.92
52 5 0.08
ACGTcount: A:0.41, C:0.08, G:0.26, T:0.26
Consensus pattern (51 bp):
TAAAAAAATATTTTTTTAAGGGTGGAGAGAGAGAGATGAGCAGCACCAATA
Found at i:13610718 original size:10 final size:10
Alignment explanation
Indices: 13610703--13610735 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
13610693 ACACATATCA
*
13610703 CATTTTTAAT
1 CATTTTTCAT
13610713 CATTTTTCAT
1 CATTTTTCAT
13610723 CATTTTTCAT
1 CATTTTTCAT
13610733 CAT
1 CAT
13610736 CTTATTACCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.58
Consensus pattern (10 bp):
CATTTTTCAT
Found at i:13611107 original size:46 final size:46
Alignment explanation
Indices: 13610962--13611107 Score: 140
Period size: 46 Copynumber: 3.2 Consensus size: 46
13610952 AACCCGCCCA
* *
13610962 TAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTTACAT-C
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACATCC
* * ** *
13611010 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACACTC-GCATCC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACATCC
13611054 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAA-CATCC
13611102 T-AGTGA
1 TAAGTGA
13611108 CATGTCACTT
Statistics
Matches: 82, Mismatches: 10, Indels: 14
0.77 0.09 0.13
Matches are distributed among these distances:
43 3 0.04
44 1 0.01
45 2 0.02
46 37 0.45
47 31 0.38
48 8 0.10
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACATCC
Found at i:13613697 original size:35 final size:35
Alignment explanation
Indices: 13613651--13613930 Score: 233
Period size: 35 Copynumber: 7.6 Consensus size: 35
13613641 ACAAAGTGTG
13613651 AAATGTAGGTATGGCATTTCCCATACCGAGTTGTA
1 AAATGTAGGTATGGCATTTCCCATACCGAGTTGTA
* * * *
13613686 AAATGTTGGTATGGTATTATCAAATCCATACTGAGTT-AA
1 AAATGTAGGTATGGCATT-TC----CCATACCGAGTTGTA
*
13613725 GAAACGTAGGTATGGCATTTCCCATACCGAGTTGTA
1 -AAATGTAGGTATGGCATTTCCCATACCGAGTTGTA
* * * *
13613761 AAATGTTGGTATGGTATTATCAAATCCATACTGAGTT-AA
1 AAATGTAGGTATGGCATT-TC----CCATACCGAGTTGTA
*
13613800 GAAACGTAGGTATGGCATTTCCCATACCGAGTTGTA
1 -AAATGTAGGTATGGCATTTCCCATACCGAGTTGTA
* * * *
13613836 AAATGTTGGTATGGTATTATCAAATCCATACTGAGTT-AA
1 AAATGTAGGTATGGCATT-TC----CCATACCGAGTTGTA
*
13613875 GAAACGTAGGTATGGCATTTCCCATACCGAGTTGTA
1 -AAATGTAGGTATGGCATTTCCCATACCGAGTTGTA
*
13613911 AAATGTAGGTATGGTATTTC
1 AAATGTAGGTATGGCATTTC
13613931 AATGAGGAAA
Statistics
Matches: 193, Mismatches: 31, Indels: 42
0.73 0.12 0.16
Matches are distributed among these distances:
35 97 0.50
36 9 0.05
39 9 0.05
40 78 0.40
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (35 bp):
AAATGTAGGTATGGCATTTCCCATACCGAGTTGTA
Found at i:13613758 original size:75 final size:75
Alignment explanation
Indices: 13613650--13613932 Score: 541
Period size: 75 Copynumber: 3.8 Consensus size: 75
13613640 GACAAAGTGT
*
13613650 GAAATGTAGGTATGGCATTTCCCATACCGAGTTGTAAAATGTTGGTATGGTATTATCAAATCCAT
1 GAAACGTAGGTATGGCATTTCCCATACCGAGTTGTAAAATGTTGGTATGGTATTATCAAATCCAT
13613715 ACTGAGTTAA
66 ACTGAGTTAA
13613725 GAAACGTAGGTATGGCATTTCCCATACCGAGTTGTAAAATGTTGGTATGGTATTATCAAATCCAT
1 GAAACGTAGGTATGGCATTTCCCATACCGAGTTGTAAAATGTTGGTATGGTATTATCAAATCCAT
13613790 ACTGAGTTAA
66 ACTGAGTTAA
13613800 GAAACGTAGGTATGGCATTTCCCATACCGAGTTGTAAAATGTTGGTATGGTATTATCAAATCCAT
1 GAAACGTAGGTATGGCATTTCCCATACCGAGTTGTAAAATGTTGGTATGGTATTATCAAATCCAT
13613865 ACTGAGTTAA
66 ACTGAGTTAA
*
13613875 GAAACGTAGGTATGGCATTTCCCATACCGAGTTGTAAAATGTAGGTATGGTATT-TCAA
1 GAAACGTAGGTATGGCATTTCCCATACCGAGTTGTAAAATGTTGGTATGGTATTATCAA
13613933 TGAGGAAAAC
Statistics
Matches: 206, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
74 4 0.02
75 202 0.98
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (75 bp):
GAAACGTAGGTATGGCATTTCCCATACCGAGTTGTAAAATGTTGGTATGGTATTATCAAATCCAT
ACTGAGTTAA
Found at i:13619217 original size:43 final size:43
Alignment explanation
Indices: 13619072--13619228 Score: 167
Period size: 43 Copynumber: 3.7 Consensus size: 43
13619062 TGTGTTATCG
* * * **
13619072 TGTAAGACCACGTTTGGGACGTTGGCATCGACT-TATGATTTATG
1 TGTAAGACCACGTCTGGGACATTGGCATCGA-TATTTGA-TTACA
* *
13619116 TGTAAGACCACGTCTGGGACTTTGGCATCG-TATTTGATTTCA
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTACA
* *
13619158 TGTAAAACC-CTGTCTGGGACAATGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGACATTGGCATCGATATTTGATTACA
* *
13619201 TGTAAGACCACATCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACATTGGCAT
13619229 TGTACGAGCT
Statistics
Matches: 95, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
41 1 0.01
42 28 0.29
43 37 0.39
44 29 0.31
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTACA
Found at i:13626062 original size:22 final size:21
Alignment explanation
Indices: 13626003--13626085 Score: 94
Period size: 22 Copynumber: 3.8 Consensus size: 21
13625993 TCATGGTCGG
* *
13626003 TAAGCTCTTTTGAGCCGAACAT
1 TAAGCTCTATTGAGCTGAA-AT
*
13626025 TAAGCTCTTTTGAGCTGAATAT
1 TAAGCTCTATTGAGCTGAA-AT
13626047 TAAGCTCTATTGAGCTGAAAT
1 TAAGCTCTATTGAGCTGAAAT
*
13626068 GGTAAGCTCTAATGAGCT
1 --TAAGCTCTATTGAGCT
13626086 AAAACGGTAA
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
21 2 0.04
22 38 0.69
23 15 0.27
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (21 bp):
TAAGCTCTATTGAGCTGAAAT
Found at i:13626077 original size:23 final size:24
Alignment explanation
Indices: 13626001--13626099 Score: 93
Period size: 22 Copynumber: 4.4 Consensus size: 24
13625991 AGTCATGGTC
* *
13626001 GGTAAGCTCTTTTGAGCCGAACAT
1 GGTAAGCTCTATTGAGCTGAACAT
* *
13626025 --TAAGCTCTTTTGAGCTGAATAT
1 GGTAAGCTCTATTGAGCTGAACAT
13626047 --TAAGCTCTATTGAGCTGAA-AT
1 GGTAAGCTCTATTGAGCTGAACAT
* * *
13626068 GGTAAGCTCTAATGAGCT-AAAAC
1 GGTAAGCTCTATTGAGCTGAACAT
13626091 GGTAAGCTC
1 GGTAAGCTC
13626100 CAATAAGCTG
Statistics
Matches: 67, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
21 2 0.03
22 40 0.60
23 25 0.37
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (24 bp):
GGTAAGCTCTATTGAGCTGAACAT
Found at i:13626108 original size:23 final size:23
Alignment explanation
Indices: 13626059--13626115 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
13626049 AGCTCTATTG
* * *
13626059 AGCTGAAATGGTAAGCTCTAATG
1 AGCTGAAACGGTAAGCTCCAATA
*
13626082 AGCTAAAACGGTAAGCTCCAATA
1 AGCTGAAACGGTAAGCTCCAATA
13626105 AGCTGAAACGG
1 AGCTGAAACGG
13626116 GAGCTGAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.19
Consensus pattern (23 bp):
AGCTGAAACGGTAAGCTCCAATA
Found at i:13633112 original size:23 final size:23
Alignment explanation
Indices: 13633029--13633114 Score: 86
Period size: 23 Copynumber: 3.8 Consensus size: 23
13633019 GTCATGGTCG
*
13633029 GTAAGCTCTTTTGAGCTG-AACA
1 GTAAGCTCTTATGAGCTGAAACA
* * *
13633051 TTAAGCT-TTATTGAGCTAAAACG
1 GTAAGCTCTTA-TGAGCTGAAACA
** *
13633074 GTAAGCTCCAAAGAGCTGAAACA
1 GTAAGCTCTTATGAGCTGAAACA
13633097 GTAAGCTCTTATGAGCTG
1 GTAAGCTCTTATGAGCTG
13633115 TCATGAGTCT
Statistics
Matches: 48, Mismatches: 13, Indels: 5
0.73 0.20 0.08
Matches are distributed among these distances:
21 2 0.04
22 12 0.25
23 33 0.69
24 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (23 bp):
GTAAGCTCTTATGAGCTGAAACA
Found at i:13642857 original size:76 final size:76
Alignment explanation
Indices: 13642731--13642882 Score: 295
Period size: 76 Copynumber: 2.0 Consensus size: 76
13642721 TGGCTCCGAA
13642731 TCAGACGATTTATTCATTTAACTTGCCCCGTAGAGATCCTTAAGTTATGTTATTATCCCTATTCA
1 TCAGACGATTTATTCATTTAACTTGCCCCGTAGAGATCCTTAAGTTATGTTATTATCCCTATTCA
13642796 GGACTAATAAT
66 GGACTAATAAT
*
13642807 TCAGACGATTTATTCATTTAACTTGCCCCGTAGAGATCCTTAAGTTATGTTCTTATCCCTATTCA
1 TCAGACGATTTATTCATTTAACTTGCCCCGTAGAGATCCTTAAGTTATGTTATTATCCCTATTCA
13642872 GGACTAATAAT
66 GGACTAATAAT
13642883 GTCTAATCCC
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.38
Consensus pattern (76 bp):
TCAGACGATTTATTCATTTAACTTGCCCCGTAGAGATCCTTAAGTTATGTTATTATCCCTATTCA
GGACTAATAAT
Found at i:13645548 original size:19 final size:19
Alignment explanation
Indices: 13645524--13645562 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
13645514 TTATCAAACA
* *
13645524 CCAAACATGCATTTTTTAT
1 CCAAACATACATTTTCTAT
13645543 CCAAACATACATTTTCTAT
1 CCAAACATACATTTTCTAT
13645562 C
1 C
13645563 ATTAGAAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.26, G:0.03, T:0.38
Consensus pattern (19 bp):
CCAAACATACATTTTCTAT
Found at i:13658112 original size:46 final size:44
Alignment explanation
Indices: 13658059--13658231 Score: 177
Period size: 46 Copynumber: 3.8 Consensus size: 44
13658049 TGGTTGAGCA
13658059 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-G
* *** * *
13658105 TCCGAACTCGTTGAGTTGAGTCCGAATTCGAGAGATGTAACTAGGCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GGAAG
* *
13658152 TCCGAACTTGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-G
* *
13658198 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
13658232 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 62 0.61
47 30 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (44 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAAG
Found at i:13667315 original size:6 final size:6
Alignment explanation
Indices: 13667306--13667338 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
13667296 AATAAAATTG
*
13667306 AAATGA AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAA
13667339 GATAAGAGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:13684180 original size:48 final size:48
Alignment explanation
Indices: 13684040--13684182 Score: 191
Period size: 48 Copynumber: 3.0 Consensus size: 48
13684030 ACTCAGGAGT
* * * *
13684040 CTCGCACACT-AAGTGCCAATATCATGACCCGAAGCCAACTCAA-CATAT
1 CTCGCAC-CTGAAGTGCCAATATCATGGCCCGAAGCCAAATCAATGA-AG
* *
13684088 CTTGCACCTGAAGTGCTAATATCATGGCCCGAAGCCAAATCAATGAAG
1 CTCGCACCTGAAGTGCCAATATCATGGCCCGAAGCCAAATCAATGAAG
*
13684136 CTCGCACCTGAAGTGCCAATATCATGGCCCAAAGCCAAATCAATGAA
1 CTCGCACCTGAAGTGCCAATATCATGGCCCGAAGCCAAATCAATGAA
13684183 TCCCTTAATG
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
47 2 0.02
48 81 0.96
49 1 0.01
ACGTcount: A:0.35, C:0.29, G:0.17, T:0.19
Consensus pattern (48 bp):
CTCGCACCTGAAGTGCCAATATCATGGCCCGAAGCCAAATCAATGAAG
Found at i:13685927 original size:30 final size:30
Alignment explanation
Indices: 13685891--13685947 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
13685881 ACTTGTTGTT
*
13685891 AATA-TTTTAATATATGAAATATAAATTTTA
1 AATATTTTTAATAAAT-AAATATAAATTTTA
*
13685921 AATATTTTTAATAAATAAATATTAATT
1 AATATTTTTAATAAATAAATATAAATT
13685948 ATTTATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 14 0.58
31 10 0.42
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (30 bp):
AATATTTTTAATAAATAAATATAAATTTTA
Found at i:13685994 original size:33 final size:31
Alignment explanation
Indices: 13685899--13686000 Score: 82
Period size: 31 Copynumber: 3.1 Consensus size: 31
13685889 TTAATATTTT
*
13685899 AATATATGAAATATAAATTTTAAATATTTTTAATA
1 AATATAT-AAAT-TATATTTTAAATA--TTTAATA
* *
13685934 AATAAATATTAATTAT-TTATAAA-ATTTAATTA
1 AAT--ATATAAATTATATTTTAAATATTTAA-TA
13685966 GAATATATAAATTATATTTTAAATATTTAAATA
1 -AATATATAAATTATATTTTAAATATTT-AATA
13685999 AA
1 AA
13686001 ACCATTAAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 17
0.71 0.06 0.22
Matches are distributed among these distances:
31 15 0.27
32 10 0.18
33 10 0.18
34 8 0.15
35 5 0.09
36 3 0.05
37 4 0.07
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (31 bp):
AATATATAAATTATATTTTAAATATTTAATA
Found at i:13694073 original size:18 final size:17
Alignment explanation
Indices: 13694040--13694078 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
13694030 TTGTATAAAT
13694040 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
13694058 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
13694075 TGTG
1 TGTG
13694079 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:13706307 original size:21 final size:21
Alignment explanation
Indices: 13706283--13706336 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
13706273 TTCGCTTCTC
13706283 CCACGCCCATGTGTTAGGGTA
1 CCACGCCCATGTGTTAGGGTA
*
13706304 CCACGCCTATGTGTTAGGGTA
1 CCACGCCCATGTGTTAGGGTA
*
13706325 CCACACCCATGT
1 CCACGCCCATGT
13706337 ATTGTTATCC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.20, C:0.31, G:0.24, T:0.24
Consensus pattern (21 bp):
CCACGCCCATGTGTTAGGGTA
Found at i:13711555 original size:16 final size:16
Alignment explanation
Indices: 13711534--13711565 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13711524 TCAATAAAAA
13711534 TTTGGATATGAATAAT
1 TTTGGATATGAATAAT
*
13711550 TTTGGATATGATTAAT
1 TTTGGATATGAATAAT
13711566 AAATGACATG
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:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (16 bp):
TTTGGATATGAATAAT
Found at i:13712412 original size:12 final size:12
Alignment explanation
Indices: 13712395--13712419 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13712385 ATATACAATT
13712395 TCGTTTCTTATA
1 TCGTTTCTTATA
13712407 TCGTTTCTTATA
1 TCGTTTCTTATA
13712419 T
1 T
13712420 GTGAAACTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.16, G:0.08, T:0.60
Consensus pattern (12 bp):
TCGTTTCTTATA
Found at i:13714117 original size:19 final size:20
Alignment explanation
Indices: 13714079--13714118 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
13714069 GATTCAAAAT
*
13714079 TTTTGAAAAGGTATTGATAC
1 TTTTGAAAAGGTACTGATAC
*
13714099 TTTTGATAA-GTACTGATAC
1 TTTTGAAAAGGTACTGATAC
13714118 T
1 T
13714119 ATTTCTAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (20 bp):
TTTTGAAAAGGTACTGATAC
Found at i:13718238 original size:21 final size:22
Alignment explanation
Indices: 13718196--13718239 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
13718186 ATCCAGAAAC
*
13718196 ATTTGTCAAATCAAAATGTCAT
1 ATTTGTCAAATCAAAATATCAT
13718218 ATTT-TCATAATC-AAATATCAT
1 ATTTGTCA-AATCAAAATATCAT
13718239 A
1 A
13718240 ACAGAATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.39
Consensus pattern (22 bp):
ATTTGTCAAATCAAAATATCAT
Found at i:13719916 original size:10 final size:10
Alignment explanation
Indices: 13719901--13719957 Score: 62
Period size: 10 Copynumber: 5.3 Consensus size: 10
13719891 ATTGGCAATA
13719901 TGAATGATAT
1 TGAATGATAT
13719911 TGAATGATAT
1 TGAATGATAT
13719921 TGATCATGA-ATT
1 TGA--ATGATA-T
13719933 TGGAATAGATAT
1 T-GAAT-GATAT
13719945 TGAATGATAT
1 TGAATGATAT
13719955 TGA
1 TGA
13719958 TCACGAATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
10 21 0.51
11 7 0.17
12 10 0.24
13 3 0.07
ACGTcount: A:0.39, C:0.02, G:0.21, T:0.39
Consensus pattern (10 bp):
TGAATGATAT
Found at i:13719946 original size:34 final size:34
Alignment explanation
Indices: 13719902--13719983 Score: 130
Period size: 34 Copynumber: 2.4 Consensus size: 34
13719892 TTGGCAATAT
*
13719902 GAAT-GATATTGAATGATATTGATCATGAATTTG
1 GAATAGATATTGAATGATATTGATCACGAATTTG
13719935 GAATAGATATTGAATGATATTGATCACGAATTTG
1 GAATAGATATTGAATGATATTGATCACGAATTTG
* *
13719969 GAGTAGACATTGAAT
1 GAATAGATATTGAAT
13719984 TGAATTATTC
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 4 0.09
34 41 0.91
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.35
Consensus pattern (34 bp):
GAATAGATATTGAATGATATTGATCACGAATTTG
Found at i:13721753 original size:20 final size:20
Alignment explanation
Indices: 13721728--13721768 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
13721718 TTTTCAAAGG
13721728 TGTAGGGAACACACACCCGT
1 TGTAGGGAACACACACCCGT
13721748 TGTAGGGAACACACACCCGT
1 TGTAGGGAACACACACCCGT
13721768 T
1 T
13721769 TGGCTCACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.17
Consensus pattern (20 bp):
TGTAGGGAACACACACCCGT
Found at i:13722820 original size:21 final size:21
Alignment explanation
Indices: 13722794--13722943 Score: 74
Period size: 21 Copynumber: 7.1 Consensus size: 21
13722784 CGAAAAGCTG
13722794 AACAAAAGCTCATAAGA-TCTA
1 AACAAAAGCTCATAAGAGT-TA
* * *
13722815 AACAAAAACTCTTAAGAGTTG
1 AACAAAAGCTCATAAGAGTTA
* * *
13722836 AACAAAAGCTCGTAAGAGCTG
1 AACAAAAGCTCATAAGAGTTA
** *
13722857 AACGGGAA-CTCATAAGAGCTA
1 AAC-AAAAGCTCATAAGAGTTA
* * *
13722878 AAGAGAAGCTCA-ATAGAGCTGA
1 AACAAAAGCTCATA-AGAG-TTA
* * *
13722900 ACCGAAA-CTCATATGAGTTA
1 AACAAAAGCTCATAAGAGTTA
* * *
13722920 AACAGAAGCTCATGAGAGCTA
1 AACAAAAGCTCATAAGAGTTA
13722941 AAC
1 AAC
13722944 GGAAAGTAAA
Statistics
Matches: 96, Mismatches: 26, Indels: 14
0.71 0.19 0.10
Matches are distributed among these distances:
20 10 0.10
21 78 0.81
22 8 0.08
ACGTcount: A:0.45, C:0.18, G:0.19, T:0.17
Consensus pattern (21 bp):
AACAAAAGCTCATAAGAGTTA
Found at i:13722867 original size:42 final size:42
Alignment explanation
Indices: 13722794--13722948 Score: 150
Period size: 42 Copynumber: 3.7 Consensus size: 42
13722784 CGAAAAGCTG
* ** * *
13722794 AACAAAAGCTCATAAGATCTAAACAAAAACTCTTAAGAGTTG
1 AACAAAAGCTCATAAGAGCTAAACGGAAACTCATAAGAGTTA
* * * *
13722836 AACAAAAGCTCGTAAGAGCTGAACGGGAACTCATAAGAGCTA
1 AACAAAAGCTCATAAGAGCTAAACGGAAACTCATAAGAGTTA
* * * * *
13722878 AAGAGAAGCTCA-ATAGAGCTGAACCGAAACTCATATGAGTTA
1 AACAAAAGCTCATA-AGAGCTAAACGGAAACTCATAAGAGTTA
* *
13722920 AACAGAAGCTCATGAGAGCTAAACGGAAA
1 AACAAAAGCTCATAAGAGCTAAACGGAAA
13722949 GTAAACATGA
Statistics
Matches: 91, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
41 1 0.01
42 90 0.99
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (42 bp):
AACAAAAGCTCATAAGAGCTAAACGGAAACTCATAAGAGTTA
Found at i:13723451 original size:17 final size:18
Alignment explanation
Indices: 13723401--13723459 Score: 66
Period size: 17 Copynumber: 3.1 Consensus size: 18
13723391 TAATTTAGTC
13723401 ATTAACTAATTAATCTTATCAA
1 ATTAACTAATT--T-TTAT-AA
13723423 ATTAACTAATTTTTATAA
1 ATTAACTAATTTTTATAA
*
13723441 ATTAA-TAATTTATATAA
1 ATTAACTAATTTTTATAA
13723458 AT
1 AT
13723460 ATTATAGGAT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
17 13 0.36
18 7 0.19
19 4 0.11
20 1 0.03
22 11 0.31
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTAACTAATTTTTATAA
Found at i:13737874 original size:2 final size:2
Alignment explanation
Indices: 13737867--13737903 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
13737857 TTCTAACTTA
13737867 AT AT AT AT A- AT AT A- AT AT -T AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13737904 TACAAGGCCT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
1 3 0.09
2 29 0.91
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13737891 original size:19 final size:19
Alignment explanation
Indices: 13737867--13737905 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
13737857 TTCTAACTTA
13737867 ATATATATA-ATATAATATT
1 ATATATATATATAT-ATATT
13737886 ATATATATATATATATATT
1 ATATATATATATATATATT
13737905 A
1 A
13737906 CAAGGCCTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATATATATATATATATT
Found at i:13738291 original size:28 final size:28
Alignment explanation
Indices: 13738241--13738304 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 28
13738231 TAATATCTCA
* **
13738241 TTTTAAAAAAATATAATTTATTTCAA-AT
1 TTTTAAAAAAATAAAATCAATTT-AATAT
*
13738269 TTTTAATAAAATAAAATCAATTTAATAT
1 TTTTAAAAAAATAAAATCAATTTAATAT
13738297 TTTCTAAA
1 TTT-TAAA
13738305 TCTACTTATC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 2 0.07
28 24 0.83
29 3 0.10
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (28 bp):
TTTTAAAAAAATAAAATCAATTTAATAT
Found at i:13739635 original size:18 final size:18
Alignment explanation
Indices: 13739609--13739660 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
13739599 AATATATAAA
* *
13739609 TAAAGTTATAAAATTATT
1 TAAATTTATAAAATAATT
*
13739627 TAAATTTATATAATAATT
1 TAAATTTATAAAATAATT
*
13739645 TAAATTTATATAATAA
1 TAAATTTATAAAATAA
13739661 CAATCATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
TAAATTTATAAAATAATT
Found at i:13748271 original size:94 final size:94
Alignment explanation
Indices: 13748069--13748378 Score: 285
Period size: 94 Copynumber: 3.3 Consensus size: 94
13748059 AGAGCTAGTA
* * * * *
13748069 TAAGACCATGTCTGGGACATGGCATCGGTATTGAGACGAGGGCTAGTGTAAGACGTGTCTGGGAC
1 TAAGACCATGTCTGGGACATGGCATCGGCATAGAGATGAGTGCTAGTGTAAGACATGTCTGGGAC
13748134 ATGCATCAGTCGCATCATGATAGTCCGTG
66 ATGCATCAGTCGCATCATGATAGTCCGTG
** * * * *
13748163 TAAGACCACATCTGGTACATGGCATCGGCATAGAGGTGAGTGCCAGTGTAAGACATGTTTGGGAC
1 TAAGACCATGTCTGGGACATGGCATCGGCATAGAGATGAGTGCTAGTGTAAGACATGTCTGGGAC
* * *
13748228 ATGCATTAGCCTCG-ATGATGTTAG-CCAGTG
66 ATGCATCAG--TCGCATCATGATAGTCC-GTG
* * * ** *
13748258 TAAGA-CGTGTCTGGGACAT-GCATTGGC-TA-AGTTTCGTGCTAGTGTAAGACATGTCTGAGAC
1 TAAGACCATGTCTGGGACATGGCATCGGCATAGAGATGAGTGCTAGTGTAAGACATGTCTGGGAC
* * * *
13748319 ATGCATCAG-CAAGTATACACGAGAG-CTAGTG
66 ATGCATCAGTC--GCAT-CATGATAGTC-CGTG
13748350 TAAGACCATGTCTGGGACATGGCATCGGC
1 TAAGACCATGTCTGGGACATGGCATCGGC
13748379 CTCGATGGAG
Statistics
Matches: 173, Mismatches: 33, Indels: 20
0.77 0.15 0.09
Matches are distributed among these distances:
88 1 0.01
90 1 0.01
91 36 0.21
92 15 0.09
93 20 0.12
94 81 0.47
95 16 0.09
96 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (94 bp):
TAAGACCATGTCTGGGACATGGCATCGGCATAGAGATGAGTGCTAGTGTAAGACATGTCTGGGAC
ATGCATCAGTCGCATCATGATAGTCCGTG
Found at i:13749301 original size:55 final size:54
Alignment explanation
Indices: 13749186--13749304 Score: 132
Period size: 55 Copynumber: 2.2 Consensus size: 54
13749176 CTTAAACTTT
* * *
13749186 TAAA-TCAGTATTGTCCACGGTTAGGCCACACAGGCATGTGCCATAGCCATGTC
1 TAAAGTCAGTATTGCCCACGGGTAGGCCACACAGGCATGTGCCATAGCCATGCC
* * * * * *
13749239 TATAAGTCAGTATTGCCCACGGGTAGGTCACACGGGCGTGTGTCATGGCCGTGCCC
1 TA-AAGTCAGTATTGCCCACGGGTAGGCCACACAGGCATGTGCCATAGCCATG-CC
13749295 TAAAGTCAGT
1 TAAAGTCAGT
13749305 GTCGCACACG
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
53 2 0.04
54 2 0.04
55 47 0.87
56 3 0.06
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.24
Consensus pattern (54 bp):
TAAAGTCAGTATTGCCCACGGGTAGGCCACACAGGCATGTGCCATAGCCATGCC
Found at i:13749981 original size:20 final size:19
Alignment explanation
Indices: 13749953--13749991 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
13749943 GTCTTGCAAC
13749953 AAGAAGTATCGATACCTTTG
1 AAGAAGTATCGATA-CTTTG
*
13749973 AAGAGGTATCGATACTTTG
1 AAGAAGTATCGATACTTTG
13749992 GGCATTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (19 bp):
AAGAAGTATCGATACTTTG
Found at i:13750402 original size:20 final size:19
Alignment explanation
Indices: 13750373--13750425 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
13750363 ACCAAGCATG
* *
13750373 GGTATGGATACTTGGTTCAA
1 GGTATTGATACTT-ATTCAA
* *
13750393 GGTATTGATACCTTATTGAG
1 GGTATTGATA-CTTATTCAA
13750413 GGTATTGATACTT
1 GGTATTGATACTT
13750426 TGGTCCCTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 3 0.11
20 22 0.79
21 3 0.11
ACGTcount: A:0.25, C:0.09, G:0.26, T:0.40
Consensus pattern (19 bp):
GGTATTGATACTTATTCAA
Found at i:13761660 original size:28 final size:28
Alignment explanation
Indices: 13761620--13761676 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
13761610 TCTAGCTGAA
13761620 ACATAGCTCCTAACTTCAATCTGCAACG
1 ACATAGCTCCTAACTTCAATCTGCAACG
13761648 ACATAGCTCCTAACTTCAATCTGCAACG
1 ACATAGCTCCTAACTTCAATCTGCAACG
13761676 A
1 A
13761677 GAGGCTACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.32, G:0.11, T:0.25
Consensus pattern (28 bp):
ACATAGCTCCTAACTTCAATCTGCAACG
Found at i:13763696 original size:43 final size:43
Alignment explanation
Indices: 13763630--13763713 Score: 159
Period size: 43 Copynumber: 2.0 Consensus size: 43
13763620 TAGGAGTAAG
13763630 AATGGTCTCAATCAATGCATTAAGAATGATTTTGATATTATTA
1 AATGGTCTCAATCAATGCATTAAGAATGATTTTGATATTATTA
*
13763673 AATGGTCTCAATCAATGCCTTAAGAATGATTTTGATATTAT
1 AATGGTCTCAATCAATGCATTAAGAATGATTTTGATATTAT
13763714 GAAAATCATA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (43 bp):
AATGGTCTCAATCAATGCATTAAGAATGATTTTGATATTATTA
Found at i:13764339 original size:28 final size:28
Alignment explanation
Indices: 13764296--13764354 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 28
13764286 GTTGTTTTCT
13764296 ACAAAAATAAGAAATATCTAATTTATTC
1 ACAAAAATAAGAAATATCTAATTTATTC
13764324 ACAAAAATAA-AGAATATCTAATTTATTC
1 ACAAAAATAAGA-AATATCTAATTTATTC
13764352 ACA
1 ACA
13764355 CTCTAATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
27 1 0.03
28 29 0.97
ACGTcount: A:0.54, C:0.12, G:0.03, T:0.31
Consensus pattern (28 bp):
ACAAAAATAAGAAATATCTAATTTATTC
Found at i:13765429 original size:246 final size:252
Alignment explanation
Indices: 13764952--13765440 Score: 638
Period size: 246 Copynumber: 2.0 Consensus size: 252
13764942 TAACATTCTG
13764952 TCTTTAGAAAAGAGAGAGACATTCTTTAAATTACTTAATCTGAAATATCAAAACTATAAGATTTG
1 TCTTTAGAAAAGAGAGAGACATTCTTTAAATTACTTAATCTGAAATATCAAAACTATAAGA--TG
* * * *
13765017 AATATTTCAATAAATCAATGAATTCATGTACGCTTCTACATCTAATTTTGATTTTGATAATCTAA
64 AATATTTCAAGAAATCAATAAATTCATATACACTTCTACATCTAATTTTGATTTTGATAATCTAA
13765082 CATAACGTATCTTGATTTATTAAATTCTATATTAAAAATTTACGTTGCTAATATTATCTTCAAAA
129 CATAACGTATCTTGATTTATTAAATTCTATATTAAAAATTTACGTTGCTAATATTATCTTCAAAA
* *
13765147 CTAGATTGCATATACCTATCTAAATCTTTAAAAACAAATCGAAAAAAAGAGAGTCACCT
194 CTAGATTGCATATACATATATAAATCTTTAAAAACAAATCGAAAAAAAGAGAGTCACCT
*
13765206 TCTTTAG-AAAGAGAGAGTTATC-TTCTTTAAATTACTTAATCTGAAATATCAAAATTAT-A-A-
1 TCTTTAGAAAAGAGAGAG--A-CATTCTTTAAATTACTTAATCTGAAATATCAAAACTATAAGAT
* * *
13765266 G-AT-TTT-AAGAAATCAATAAATTTATATACACTTTTACATCTAATTTTG-TTTTTAGTAATCT
63 GAATATTTCAAGAAATCAATAAATTCATATACACTTCTACATCTAATTTTGATTTTGA-TAATCT
** * * * * *
13765327 AACATAATTTATC-TGATTTATTAAATTTTGTATTGAAATTTTAGGTTGCTAATATTATCTTCAA
127 AACATAACGTATCTTGATTTATTAAATTCTATATTAAAAATTTACGTTGCTAATATTATCTTCAA
* * * * * * *
13765391 AAGTAGATTGCATGTACATGTATAATTCTTTGAAAACAAATGGAAGAAAA
192 AACTAGATTGCATATACATATATAAATCTTTAAAAACAAATCGAAAAAAA
13765441 TGATTTCGGA
Statistics
Matches: 207, Mismatches: 24, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
246 92 0.44
247 53 0.26
248 3 0.01
249 2 0.01
250 1 0.00
253 11 0.05
254 8 0.04
255 36 0.17
256 1 0.00
ACGTcount: A:0.40, C:0.11, G:0.10, T:0.39
Consensus pattern (252 bp):
TCTTTAGAAAAGAGAGAGACATTCTTTAAATTACTTAATCTGAAATATCAAAACTATAAGATGAA
TATTTCAAGAAATCAATAAATTCATATACACTTCTACATCTAATTTTGATTTTGATAATCTAACA
TAACGTATCTTGATTTATTAAATTCTATATTAAAAATTTACGTTGCTAATATTATCTTCAAAACT
AGATTGCATATACATATATAAATCTTTAAAAACAAATCGAAAAAAAGAGAGTCACCT
Found at i:13766593 original size:37 final size:37
Alignment explanation
Indices: 13766543--13766635 Score: 118
Period size: 37 Copynumber: 2.5 Consensus size: 37
13766533 CATTTAATTC
* * *
13766543 ATTTTTAAAATTTTAAAAA-TATTTTTTTATATTTTT-T
1 ATTTTT-AAATTTTAAAAAGAATTTTTCTA-ATTTTTAA
13766580 ATATTTTAAATTTTAAAAAGAATTTTTCTAATTTTTAA
1 AT-TTTTAAATTTTAAAAAGAATTTTTCTAATTTTTAA
13766618 ATTTTTAAATTTTAAAAA
1 ATTTTTAAATTTTAAAAA
13766636 ATTAATTAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
37 36 0.72
38 14 0.28
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (37 bp):
ATTTTTAAATTTTAAAAAGAATTTTTCTAATTTTTAA
Found at i:13767456 original size:45 final size:45
Alignment explanation
Indices: 13767392--13767562 Score: 306
Period size: 45 Copynumber: 3.8 Consensus size: 45
13767382 TGGTGGTGGC
* * *
13767392 GGAGGAGCTCCATATGAAGGATAACCAGAAAAAGATTAGGGTGAT
1 GGAGGAGCTCCATACGAAGGATAGCCAGAAAAAGATTGGGGTGAT
13767437 GGAGGAGCTCCATACGAAGGATAGCCAGAAAAAGATTGGGGTGAT
1 GGAGGAGCTCCATACGAAGGATAGCCAGAAAAAGATTGGGGTGAT
13767482 GGAGGAGCTCCATACGAAGGATAGCCAGAAAAAGATTGGGGTGAT
1 GGAGGAGCTCCATACGAAGGATAGCCAGAAAAAGATTGGGGTGAT
*
13767527 GGAGGAGCTCCATACGAAGGATAGCCAGAAAGAGAT
1 GGAGGAGCTCCATACGAAGGATAGCCAGAAAAAGAT
13767563 GGTGATGGCA
Statistics
Matches: 122, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
45 122 1.00
ACGTcount: A:0.37, C:0.13, G:0.34, T:0.15
Consensus pattern (45 bp):
GGAGGAGCTCCATACGAAGGATAGCCAGAAAAAGATTGGGGTGAT
Found at i:13767883 original size:45 final size:45
Alignment explanation
Indices: 13767819--13768169 Score: 675
Period size: 45 Copynumber: 7.8 Consensus size: 45
13767809 TGGTGGTGGC
*
13767819 GGAGGAGCTCCATATGAAGGATAGCCAGAAAAAGATTGGGGTGAT
1 GGAGGAGCTCCATACGAAGGATAGCCAGAAAAAGATTGGGGTGAT
13767864 GGAGGAGCTCCATACGAAGGATAGCCAGAAAAAGATTGGGGTGAT
1 GGAGGAGCTCCATACGAAGGATAGCCAGAAAAAGATTGGGGTGAT
13767909 GGAGGAGCTCCATACGAAGGATAGCCAGAAAAAGATTGGGGTGAT
1 GGAGGAGCTCCATACGAAGGATAGCCAGAAAAAGATTGGGGTGAT
13767954 GGAGGAGCTCCATACGAAGGATAGCCAGAAAAAGATTGGGGTGAT
1 GGAGGAGCTCCATACGAAGGATAGCCAGAAAAAGATTGGGGTGAT
13767999 GGAGGAGCTCCATACGAAGGATAGCCAGAAAAAGATTGGGGTGAT
1 GGAGGAGCTCCATACGAAGGATAGCCAGAAAAAGATTGGGGTGAT
13768044 GGAGGAGCTCCATACGAAGGATAGCCAGAAAAAGATTGGGGTGAT
1 GGAGGAGCTCCATACGAAGGATAGCCAGAAAAAGATTGGGGTGAT
13768089 GGAGGAGCTCCATACGAAGGATAGCCAGAAAAAGATTGGGGTGAT
1 GGAGGAGCTCCATACGAAGGATAGCCAGAAAAAGATTGGGGTGAT
* *
13768134 GGAGGAGCTCCATACGAAGGATAACCAGAAAGAGAT
1 GGAGGAGCTCCATACGAAGGATAGCCAGAAAAAGAT
13768170 GGTGATGGCA
Statistics
Matches: 303, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
45 303 1.00
ACGTcount: A:0.36, C:0.13, G:0.35, T:0.15
Consensus pattern (45 bp):
GGAGGAGCTCCATACGAAGGATAGCCAGAAAAAGATTGGGGTGAT
Found at i:13768640 original size:607 final size:603
Alignment explanation
Indices: 13767399--13768519 Score: 1958
Period size: 607 Copynumber: 1.9 Consensus size: 603
13767389 GGCGGAGGAG
* *
13767399 CTCCATATGAAGGATAACCAGAAAAAGATTAGGGTGATGGAGGAGCTCCATACGAAGGATAGCCA
1 CTCCATAAGAAGGATAGCCAGAAAAAGATTAGGGTGATGGAGGAGCTCCATACGAAGGATAGCCA
13767464 GAAAAAGATTGGGGTGATGGAGGAGCTCCATACGAAGGATAGCCAGAAAAAGATTGGGGTGATGG
66 GAAAAAGATTGGGGTGATGGAGGAGCTCCATACGAAGGATAGCCAGAAAAAGATTGGGGTGATGG
* *
13767529 AGGAGCTCCATACGAAGGATAGCCAGAAAGAGATGGTGATGGCAAGAGTGCACTAGAATCCTCCC
131 AGGAGCTCCATACGAAGGATAACCAGAAAGAGATGGTGATGGCAAGAATGCACTAGAATCCTCCC
13767594 CTAAAACCATGTAATCAAGGTTGAAGGCTGATATCCAAATCGCCACAAGGATGACAAATGCTGGA
196 CTAAAACCATGTAATCAAGGTTGAAGGCTGATATCCAAATCGCCACAAGGATGACAAATGCTGGA
13767659 ATCCTTGACTAAAGAAAGTTTCGCTTCAGAAAAAAAGAAGAAACCGATTGTTTAGTCAAGGGGAA
261 ATCCTTGACTAAAGAAAGTTTCGCTTCAGAAAAAAAGAAGAAACCGATTGTTTAGTCAAGGGGAA
13767724 AGAATCTGACAACGAGTGAGTTTTATGGAATTGCAAAACGTAAAGACACTTTATATGAAGGATAG
326 AGAATCTGACAACGAGTGAGTTTTATGGAATTGCAAAACGTAAAGACACTTTATATGAAGGATAG
13767789 GTGGAAATAGACGAGGGTGGTGGTGGTGGCGGAGGAGCTCCATATGAAGGATAGCCAGAAAAAGA
391 GTGGAAATAGACGAGGGTGGTGGTGGTGGCGGAGGAGCTCCATATGAAGGATAGCCAGAAAAAGA
* * *
13767854 TTGGGGTGATGGAGGAGCTCCATACGAAGGATAGCCAGAAAAAGATTGGGGTGATGGAGGAGCTC
456 TTGGGGTGATGGAGGAGCTCCATACGAAGGATAACCAGAAAAAGATT-GGGTGATGGAAGAGATC
* * * ** * * * *
13767919 CATACGAAGGATAGCCAGAAAAAGATTGGGGTGATGGAGGAGCTCCATACGAAGGATAGCCAGAA
520 CATACGAAGCATACCCAGAAAAACATTGGAATCAAGGAGAAGCTCCATACCAA-GATAGCCA-AA
** *
13767984 AAAGATTGGGGTGATGGAGGAG
583 AAAGATTGGAATGATGGA-GAC
* *
13768006 CTCCATACGAAGGATAGCCAGAAAAAGATTGGGGTGATGGAGGAGCTCCATACGAAGGATAGCCA
1 CTCCATAAGAAGGATAGCCAGAAAAAGATTAGGGTGATGGAGGAGCTCCATACGAAGGATAGCCA
13768071 GAAAAAGATTGGGGTGATGGAGGAGCTCCATACGAAGGATAGCCAGAAAAAGATTGGGGTGATGG
66 GAAAAAGATTGGGGTGATGGAGGAGCTCCATACGAAGGATAGCCAGAAAAAGATTGGGGTGATGG
*
13768136 AGGAGCTCCATACGAAGGATAACCAGAAAGAGATGGTGATGGCAAGAATGCATTAGAATCCTCCC
131 AGGAGCTCCATACGAAGGATAACCAGAAAGAGATGGTGATGGCAAGAATGCACTAGAATCCTCCC
*
13768201 CTAAAACCATGTAATCAAGGTTGAAGGCTGATATCCAAATCGCCACAAGGATGGCAAATGCTGGA
196 CTAAAACCATGTAATCAAGGTTGAAGGCTGATATCCAAATCGCCACAAGGATGACAAATGCTGGA
13768266 ATCCTTGACTAAAGAAAGTTTCGCTTCAGAAAAAAAGAAGAAACCGATTGTTTAGTCAAGGGGAA
261 ATCCTTGACTAAAGAAAGTTTCGCTTCAGAAAAAAAGAAGAAACCGATTGTTTAGTCAAGGGGAA
13768331 AGAATCTGACAACGAGTGAGTTTTATGGAATTGCAAAACGTAAAGACACTTTATATGAAGGATAG
326 AGAATCTGACAACGAGTGAGTTTTATGGAATTGCAAAACGTAAAGACACTTTATATGAAGGATAG
*
13768396 GTGGAAATAGACGAGGGTGGTGGTGGTGGCGGAGGAGCTCCATATGAAGGATAGCTAGAAAAAGA
391 GTGGAAATAGACGAGGGTGGTGGTGGTGGCGGAGGAGCTCCATATGAAGGATAGCCAGAAAAAGA
*
13768461 TTGGGGTGATGGAGGAGCTCCATACGAAGGATAACCAGAAAGAGA-T-GGTGATGGCAAGA
456 TTGGGGTGATGGAGGAGCTCCATACGAAGGATAACCAGAAAAAGATTGGGTGATGG-AAGA
13768520 ATGCATTAGA
Statistics
Matches: 502, Mismatches: 11, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
604 8 0.02
605 3 0.01
606 1 0.00
607 490 0.98
ACGTcount: A:0.36, C:0.14, G:0.31, T:0.19
Consensus pattern (603 bp):
CTCCATAAGAAGGATAGCCAGAAAAAGATTAGGGTGATGGAGGAGCTCCATACGAAGGATAGCCA
GAAAAAGATTGGGGTGATGGAGGAGCTCCATACGAAGGATAGCCAGAAAAAGATTGGGGTGATGG
AGGAGCTCCATACGAAGGATAACCAGAAAGAGATGGTGATGGCAAGAATGCACTAGAATCCTCCC
CTAAAACCATGTAATCAAGGTTGAAGGCTGATATCCAAATCGCCACAAGGATGACAAATGCTGGA
ATCCTTGACTAAAGAAAGTTTCGCTTCAGAAAAAAAGAAGAAACCGATTGTTTAGTCAAGGGGAA
AGAATCTGACAACGAGTGAGTTTTATGGAATTGCAAAACGTAAAGACACTTTATATGAAGGATAG
GTGGAAATAGACGAGGGTGGTGGTGGTGGCGGAGGAGCTCCATATGAAGGATAGCCAGAAAAAGA
TTGGGGTGATGGAGGAGCTCCATACGAAGGATAACCAGAAAAAGATTGGGTGATGGAAGAGATCC
ATACGAAGCATACCCAGAAAAACATTGGAATCAAGGAGAAGCTCCATACCAAGATAGCCAAAAAA
GATTGGAATGATGGAGAC
Found at i:13768794 original size:41 final size:40
Alignment explanation
Indices: 13768718--13768813 Score: 131
Period size: 41 Copynumber: 2.4 Consensus size: 40
13768708 GCAAAAATTA
*
13768718 TAAAACACGGAGCAATAGCGGCGTTTTACCAAAAACGCCGC
1 TAAAA-ACAGAGCAATAGCGGCGTTTTACCAAAAACGCCGC
**
13768759 TAAAAACAGAGCAATAGCGGCGTTTTTTA-TTAAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCG--TTTTACCAAAAACGCCGC
13768800 TAAAAACAGAGCAA
1 TAAAAACAGAGCAA
13768814 CAAAACGCCG
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
40 16 0.32
41 29 0.58
42 5 0.10
ACGTcount: A:0.41, C:0.22, G:0.20, T:0.18
Consensus pattern (40 bp):
TAAAAACAGAGCAATAGCGGCGTTTTACCAAAAACGCCGC
Found at i:13768824 original size:25 final size:25
Alignment explanation
Indices: 13768790--13768837 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
13768780 GTTTTTTATT
*
13768790 AAAACGCCGCTAAAAACAGAGCAAC
1 AAAACGCCGCTAAAAACAAAGCAAC
13768815 AAAACGCCGCTAAAAACAAAGCA
1 AAAACGCCGCTAAAAACAAAGCA
13768838 TTAGCGGCGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.54, C:0.27, G:0.15, T:0.04
Consensus pattern (25 bp):
AAAACGCCGCTAAAAACAAAGCAAC
Found at i:13768876 original size:66 final size:66
Alignment explanation
Indices: 13768749--13768878 Score: 172
Period size: 66 Copynumber: 2.0 Consensus size: 66
13768739 CGTTTTACCA
* * **
13768749 AAAACGCCGCTAAAAACAGAGCAATAGCGGCGTTTTTTATTAAAACGCCGCTAAAAACAGAGCAA
1 AAAACGCCGCTAAAAACAAAGCAATAGCGGCGTCTTTTAGCAAAACGCCGCTAAAAACAGAGCAA
13768814 C
66 C
* * * *
13768815 AAAACGCCGCTAAAAACAAAGCATTAGCGGCG-CTTTTGGCAGAACGCCGCTAAAAGCCAGAGCA
1 AAAACGCCGCTAAAAACAAAGCAATAGCGGCGTCTTTTAGCAAAACGCCGCTAAAA-ACAGAGCA
13768879 TAGCGGCACT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
65 18 0.33
66 37 0.67
ACGTcount: A:0.40, C:0.25, G:0.21, T:0.15
Consensus pattern (66 bp):
AAAACGCCGCTAAAAACAAAGCAATAGCGGCGTCTTTTAGCAAAACGCCGCTAAAAACAGAGCAA
C
Found at i:13768936 original size:41 final size:41
Alignment explanation
Indices: 13768814--13769032 Score: 307
Period size: 41 Copynumber: 5.4 Consensus size: 41
13768804 AACAGAGCAA
*
13768814 CAAAACGCCGCTAAAAA-CAAAGCATTAGCGGCGCTTTTGG
1 CAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
* * *
13768854 CAGAACGCCGCTAAAAGCCAGAGCA-TAGCGGCACTTTTGG
1 CAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
* *
13768894 CAGAACGCCGCTAAAAACCAGAGTATTAGCGGCGCTTTTGG
1 CAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
* *
13768935 CAAAACGCCGCTAAAAACTAGAGCATTAGTGGCGCTTTTGG
1 CAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
** *
13768976 CAAAACGAGGCTAAAAAACAGAGCATTAGCGGCGCTTTTGG
1 CAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
* *
13769017 AAAAACGCAGCTAAAA
1 CAAAACGCCGCTAAAA
13769033 GTCATATAAT
Statistics
Matches: 158, Mismatches: 19, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
40 52 0.33
41 106 0.67
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (41 bp):
CAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
Found at i:13769145 original size:21 final size:22
Alignment explanation
Indices: 13769119--13769159 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
13769109 AAATCCTAAA
13769119 AACCCCT-AAACACTAAACTAT
1 AACCCCTAAAACACTAAACTAT
*
13769140 AACCCCTAAAACCCTAAACT
1 AACCCCTAAAACACTAAACT
13769160 CCAAAAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.46, C:0.37, G:0.00, T:0.17
Consensus pattern (22 bp):
AACCCCTAAAACACTAAACTAT
Found at i:13769287 original size:14 final size:14
Alignment explanation
Indices: 13769270--13769309 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
13769260 ATGATATAAT
13769270 GTTTATTGTTTTTG
1 GTTTATTGTTTTTG
**
13769284 GTTTAGAGTTTTTG
1 GTTTATTGTTTTTG
*
13769298 GTTTTTTGTTTT
1 GTTTATTGTTTT
13769310 ACAGTTGGGA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.07, C:0.00, G:0.23, T:0.70
Consensus pattern (14 bp):
GTTTATTGTTTTTG
Found at i:13769748 original size:17 final size:18
Alignment explanation
Indices: 13769726--13769759 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13769716 TATTTGTTTT
13769726 AATATA-TTAAAATTATC
1 AATATAGTTAAAATTATC
*
13769743 AATATAGTTTAAATTAT
1 AATATAGTTAAAATTAT
13769760 TTAAGAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (18 bp):
AATATAGTTAAAATTATC
Found at i:13783806 original size:14 final size:14
Alignment explanation
Indices: 13783789--13783817 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
13783779 ACCATGTAAT
13783789 ACCTCCTAAAGTGA
1 ACCTCCTAAAGTGA
13783803 ACCTCCTAAAGTGA
1 ACCTCCTAAAGTGA
13783817 A
1 A
13783818 GGTTTAGTCT
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:0.38, C:0.28, G:0.14, T:0.21
Consensus pattern (14 bp):
ACCTCCTAAAGTGA
Found at i:13787180 original size:64 final size:64
Alignment explanation
Indices: 13787101--13787231 Score: 199
Period size: 64 Copynumber: 2.0 Consensus size: 64
13787091 GTGCTACAAT
* *
13787101 CCAGACATTCAAACAAAACTTAGTTTCATCAATTGAAACATAAAAATCTTTGTCATTAGATGAA
1 CCAGACATTCAAACAAAACTTAGTTTCATCAATAGAAACATAAAAATCTTTGTCATCAGATGAA
* * * * *
13787165 CCAGACATTCAAACAAAACTTGGTTTCATCTATAGAAATATACAAATGTTTGTCATCAGATGAA
1 CCAGACATTCAAACAAAACTTAGTTTCATCAATAGAAACATAAAAATCTTTGTCATCAGATGAA
13787229 CCA
1 CCA
13787232 AACTAAACAA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.29
Consensus pattern (64 bp):
CCAGACATTCAAACAAAACTTAGTTTCATCAATAGAAACATAAAAATCTTTGTCATCAGATGAA
Found at i:13789115 original size:22 final size:22
Alignment explanation
Indices: 13789087--13789133 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
13789077 TACATGGATA
*
13789087 TTAGGTG-GATTTTAAAAGTTTT
1 TTAGGTGAAATTTTAAAA-TTTT
*
13789109 TTAGGTGAAATTTTAAGATTTT
1 TTAGGTGAAATTTTAAAATTTT
13789131 TTA
1 TTA
13789134 AAATTATACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.30, C:0.00, G:0.19, T:0.51
Consensus pattern (22 bp):
TTAGGTGAAATTTTAAAATTTT
Found at i:13795169 original size:5 final size:5
Alignment explanation
Indices: 13795159--13795190 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
13795149 TTGTGTGTTC
13795159 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
13795191 TCACAGTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:13795173 original size:9 final size:9
Alignment explanation
Indices: 13795159--13795189 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
13795149 TTGTGTGTTC
13795159 TTTATTTTA
1 TTTATTTTA
13795168 TTTATTTTA
1 TTTATTTTA
13795177 TTTTATTTTA
1 -TTTATTTTA
13795187 TTT
1 TTT
13795190 TTCACAGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:13796395 original size:95 final size:95
Alignment explanation
Indices: 13796232--13796407 Score: 217
Period size: 95 Copynumber: 1.9 Consensus size: 95
13796222 AATCAGACAC
* * *
13796232 TAACCATTACACAATGTTGCTCACACAAGCTGTGAAGAATCCACAGCACATGCAGAATCTTAACC
1 TAACCATTACACAATGCTGCTCACACAAGCTGTGAAGAATCCACAACACATACAGAATCTTAACC
*
13796297 ATCGGTAAGGTATCCAGTAAATCGATACAT
66 ATCGATAAGGTATCCAGTAAATCGATACAT
* * * * * * * * * **
13796327 TAACCATTATACGATGCTGCTGACACGAGCTGTGAAGAATCCGCAATATATATAGGATCTTAGTC
1 TAACCATTACACAATGCTGCTCACACAAGCTGTGAAGAATCCACAACACATACAGAATCTTAACC
13796392 ATCGATAAGGTATCCA
66 ATCGATAAGGTATCCA
13796408 CCATTTGTAC
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
95 66 1.00
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (95 bp):
TAACCATTACACAATGCTGCTCACACAAGCTGTGAAGAATCCACAACACATACAGAATCTTAACC
ATCGATAAGGTATCCAGTAAATCGATACAT
Found at i:13798669 original size:18 final size:17
Alignment explanation
Indices: 13798641--13798678 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
13798631 AACATATAAC
13798641 AAATAAATTTTTGTTTATA
1 AAATAAATTTTT-TTTA-A
13798660 AAAT-AATTTTTTTTAA
1 AAATAAATTTTTTTTAA
13798676 AAA
1 AAA
13798679 AGAAAAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.21
17 4 0.21
18 7 0.37
19 4 0.21
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
AAATAAATTTTTTTTAA
Found at i:13798734 original size:15 final size:17
Alignment explanation
Indices: 13798706--13798745 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
13798696 ATATGGGTTT
13798706 TTTA-AAAATATTTTA-
1 TTTATAAAATATTTTAG
13798721 TTTATAAAAT-TTTTAG
1 TTTATAAAATATTTTAG
13798737 TTTAATAAA
1 TTT-ATAAA
13798746 TAAATTTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 9 0.41
16 8 0.36
17 5 0.23
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TTTATAAAATATTTTAG
Found at i:13798856 original size:6 final size:7
Alignment explanation
Indices: 13798838--13798863 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
13798828 CATCAAAAAT
13798838 ATTTTTA
1 ATTTTTA
13798845 ATTTTTA
1 ATTTTTA
13798852 ATTTTTA
1 ATTTTTA
13798859 ATTTT
1 ATTTT
13798864 CAAGAATCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
ATTTTTA
Found at i:13804009 original size:3 final size:3
Alignment explanation
Indices: 13804001--13804034 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
13803991 TTTGGTTCTT
13804001 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
13804035 AATAAAATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:13804492 original size:24 final size:25
Alignment explanation
Indices: 13804463--13804518 Score: 87
Period size: 27 Copynumber: 2.2 Consensus size: 25
13804453 TACCTTTTCA
13804463 GTTTTATTTATTTG-TTCTTTATTT
1 GTTTTATTTATTTGTTTCTTTATTT
13804487 GTTTTATTTATTTGTTTTTCTTTATTT
1 GTTTTATTTATTTG--TTTCTTTATTT
13804514 GTTTT
1 GTTTT
13804519 TTCTGTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
24 14 0.48
27 15 0.52
ACGTcount: A:0.11, C:0.04, G:0.09, T:0.77
Consensus pattern (25 bp):
GTTTTATTTATTTGTTTCTTTATTT
Found at i:13804497 original size:60 final size:57
Alignment explanation
Indices: 13804406--13804537 Score: 149
Period size: 60 Copynumber: 2.3 Consensus size: 57
13804396 TTTTTGATTT
* *
13804406 TTTTAATTTATTTGTCCTTTTTCGTTTTTTATTTGTTTTCCTTTGTTTACCTTTTCAG
1 TTTT-ATTTATTTGTTCTTTTTCGTTTTTTATTTGTTTTCCTTTATTTACCTTTTCAG
* * *** *
13804464 TTTTATTTATTTGTTCTTTATTTGTTTTATTTATTTGTTTTTCTTTATTTGTTTTTTCTG
1 TTTTATTTATTTGTTCTTT-TTCG-TTT-TTTATTTGTTTTCCTTTATTTACCTTTTCAG
13804524 TTTT-TTTATTTGTT
1 TTTTATTTATTTGTT
13804538 TAATAATATT
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
57 14 0.22
58 7 0.11
59 13 0.21
60 29 0.46
ACGTcount: A:0.10, C:0.08, G:0.08, T:0.73
Consensus pattern (57 bp):
TTTTATTTATTTGTTCTTTTTCGTTTTTTATTTGTTTTCCTTTATTTACCTTTTCAG
Found at i:13804760 original size:21 final size:22
Alignment explanation
Indices: 13804717--13804761 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
13804707 TTTTTAATAG
**
13804717 AAATAAAAAAACGAGGACCAAA
1 AAATAAAAAAACGAGGAAAAAA
*
13804739 AAATAAAAAAATGA-GAAAAAA
1 AAATAAAAAAACGAGGAAAAAA
13804760 AA
1 AA
13804762 GGATTTATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.76, C:0.07, G:0.11, T:0.07
Consensus pattern (22 bp):
AAATAAAAAAACGAGGAAAAAA
Found at i:13808243 original size:133 final size:133
Alignment explanation
Indices: 13808005--13808246 Score: 484
Period size: 133 Copynumber: 1.8 Consensus size: 133
13807995 CGTTCGGAAT
13808005 AGAAACGATATGAATGATCTATTGTGAGGTCATGAGCGTAGTACTAAGTGTAGGCTACTACGTGT
1 AGAAACGATATGAATGATCTATTGTGAGGTCATGAGCGTAGTACTAAGTGTAGGCTACTACGTGT
13808070 ATCGGATAATTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGAT
66 ATCGGATAATTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGAT
13808135 TAC
131 TAC
13808138 AGAAACGATATGAATGATCTATTGTGAGGTCATGAGCGTAGTACTAAGTGTAGGCTACTACGTGT
1 AGAAACGATATGAATGATCTATTGTGAGGTCATGAGCGTAGTACTAAGTGTAGGCTACTACGTGT
13808203 ATCGGATAATTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
66 ATCGGATAATTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
13808247 CGTGTAATGG
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
133 109 1.00
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (133 bp):
AGAAACGATATGAATGATCTATTGTGAGGTCATGAGCGTAGTACTAAGTGTAGGCTACTACGTGT
ATCGGATAATTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGAT
TAC
Found at i:13808247 original size:49 final size:49
Alignment explanation
Indices: 13808175--13808295 Score: 208
Period size: 49 Copynumber: 2.5 Consensus size: 49
13808165 GGTCATGAGC
*
13808175 GTAGTACTAAGTGTAGGCTACTACGTGT-ATCGGATAATTGGTCGCATGT
1 GTAGTACTAAGTGCAGGCTACTACGTGTAAT-GGATAATTGGTCGCATGT
13808224 GTAGTACTAAGTGCAGGCTACTACGTGTAATGGATAATTGGTCGCATGT
1 GTAGTACTAAGTGCAGGCTACTACGTGTAATGGATAATTGGTCGCATGT
*
13808273 GTAGTACTAAGTTCAGGCTACTA
1 GTAGTACTAAGTGCAGGCTACTA
13808296 TGCGTACCAG
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
49 67 0.97
50 2 0.03
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.31
Consensus pattern (49 bp):
GTAGTACTAAGTGCAGGCTACTACGTGTAATGGATAATTGGTCGCATGT
Found at i:13809788 original size:3 final size:3
Alignment explanation
Indices: 13809780--13809808 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
13809770 ATAAAAGGAT
13809780 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
13809809 GAGAGTGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:13809936 original size:3 final size:3
Alignment explanation
Indices: 13809869--13810129 Score: 160
Period size: 3 Copynumber: 87.7 Consensus size: 3
13809859 ATAAAAAGGG
* * * * * * *
13809869 AAT AAT -AT AAT AGT AAC AAT AAC AAT AAC AAT AAT GAT ATT AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
13809916 AAT AAA AAT AAT AGT AAT AAT AAT AAC AGT AAT AAA AAT AAA AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
** * * * *
13809964 TGT AAT AGT AAT AAT AAT GAA- AAT AAT AAT AGT AAT AAA AAT AAA
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
* ** *
13810009 AAT AGT GGT AAT AAT AAT AAT AAT AAT AAT GAA- AAT AAA AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
* * * *
13810054 AGT AGT AAT AAT AAT AAT AAT GAAT -AT AAAT AAT AGT AA- AAG AA-
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT -AAT AAT AAT AAT AAT AAT
*
13810098 AAT AAT AAT AA- AATT AACT AAT -TT AAT AAT AA
1 AAT AAT AAT AAT AA-T AA-T AAT AAT AAT AAT AA
13810130 AGTAGCTAAA
Statistics
Matches: 194, Mismatches: 51, Indels: 26
0.72 0.19 0.10
Matches are distributed among these distances:
2 15 0.08
3 165 0.85
4 14 0.07
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:13809938 original size:42 final size:41
Alignment explanation
Indices: 13809892--13810108 Score: 192
Period size: 42 Copynumber: 5.3 Consensus size: 41
13809882 TAACAATAAC
* *
13809892 AATAACAATAATGATATTAATAAAAATAAAAATAATAGTAAT
1 AATAATAATAATAATA-TAATAAAAATAAAAATAATAGTAAT
* * * ***
13809934 AATAATAACAGTAATAAAAATAAAAATAATTGTAATAGTAAT
1 AATAATAATAATAAT-ATAATAAAAATAAAAATAATAGTAAT
* *
13809976 AATAATGAAAATAATAATAGTAATAAAAATAAAAATAGTGGTAAT
1 AATAAT---AATAATAATA-TAATAAAAATAAAAATAATAGTAAT
* *
13810021 AATAATAATAAT-A-ATAATGAAAATAAAAATAATAGTAGT
1 AATAATAATAATAATATAATAAAAATAAAAATAATAGTAAT
* * * * *
13810060 AATAATAATAATAAT-GAATATAAATAATAGTAAAAG-AA-
1 AATAATAATAATAATATAATAAAAATAAAAATAATAGTAAT
13810098 AATAATAATAA
1 AATAATAATAA
13810109 AATTAACTAA
Statistics
Matches: 141, Mismatches: 27, Indels: 18
0.76 0.15 0.10
Matches are distributed among these distances:
38 11 0.08
39 34 0.24
40 17 0.12
41 1 0.01
42 44 0.31
43 1 0.01
44 1 0.01
45 32 0.23
ACGTcount: A:0.64, C:0.01, G:0.07, T:0.28
Consensus pattern (41 bp):
AATAATAATAATAATATAATAAAAATAAAAATAATAGTAAT
Found at i:13813055 original size:32 final size:31
Alignment explanation
Indices: 13813009--13813068 Score: 84
Period size: 32 Copynumber: 1.9 Consensus size: 31
13812999 AAATATTAAT
*
13813009 TTTTAAAATTTTAAATTTAATTTAAAAAACG
1 TTTTAAAATTTTAAAATTAATTTAAAAAACG
* *
13813040 TTTTAATATCTTTAAAATTGATTTAAAAA
1 TTTTAAAAT-TTTAAAATTAATTTAAAAA
13813069 TTAATAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 8 0.32
32 17 0.68
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (31 bp):
TTTTAAAATTTTAAAATTAATTTAAAAAACG
Found at i:13813204 original size:6 final size:7
Alignment explanation
Indices: 13813187--13813221 Score: 52
Period size: 7 Copynumber: 4.7 Consensus size: 7
13813177 ATATTTTTAA
13813187 AAAAATT
1 AAAAATT
13813194 AAAAATT
1 AAAAATT
13813201 AAAAATT
1 AAAAATT
13813208 AAAATATT
1 AAAA-ATT
13813216 ATAAAA
1 A-AAAA
13813222 CTAATAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 18 0.69
8 5 0.19
9 3 0.12
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AAAAATT
Found at i:13813302 original size:21 final size:20
Alignment explanation
Indices: 13813277--13813328 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
13813267 TTTATATTAT
*
13813277 TAAAATATATATTTAAAATG
1 TAAAAAATATATTTAAAATG
* *
13813297 TAAAAAAATAATATTTAAATTT
1 T-AAAAAAT-ATATTTAAAATG
13813319 TAAAAAATAT
1 TAAAAAATAT
13813329 TTTTTTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 3 0.11
21 13 0.48
22 11 0.41
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
TAAAAAATATATTTAAAATG
Found at i:13813310 original size:22 final size:23
Alignment explanation
Indices: 13813278--13813325 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
13813268 TTATATTATT
13813278 AAAATATATATTTAAAATGTAAA
1 AAAATATATATTTAAAATGTAAA
* *
13813301 AAAATA-ATATTTAAATTTTAAA
1 AAAATATATATTTAAAATGTAAA
13813323 AAA
1 AAA
13813326 TATTTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (23 bp):
AAAATATATATTTAAAATGTAAA
Found at i:13814502 original size:20 final size:20
Alignment explanation
Indices: 13814477--13814536 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
13814467 TTTTAAAATT
13814477 TAAAAATTATTAAAAAATCA
1 TAAAAATTATTAAAAAATCA
* *
13814497 TAAAAATTA-AAAAAAAGTTA
1 TAAAAATTATTAAAAAA-TCA
*
13814517 TAAAATTTTTATTAAAAAAT
1 TAAAA--ATTATTAAAAAAT
13814537 TAACAAGACC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
19 6 0.19
20 16 0.50
22 4 0.12
23 6 0.19
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
TAAAAATTATTAAAAAATCA
Found at i:13815928 original size:23 final size:22
Alignment explanation
Indices: 13815901--13815968 Score: 84
Period size: 22 Copynumber: 3.0 Consensus size: 22
13815891 AGAAAAAGAC
*
13815901 GGATGAGCAATGAAGATTCTCT
1 GGATGAACAATGAAGATTCTCT
*
13815923 GCGATGAACAAT-AAAATTCTCT
1 G-GATGAACAATGAAGATTCTCT
*
13815945 GGCATGAACAATGAAGATTTTCT
1 GG-ATGAACAATGAAGATTCTCT
13815968 G
1 G
13815969 TTGAAAGAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
21 1 0.03
22 20 0.51
23 18 0.46
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (22 bp):
GGATGAACAATGAAGATTCTCT
Found at i:13816808 original size:22 final size:22
Alignment explanation
Indices: 13816783--13816825 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
13816773 CAATTATGTG
* *
13816783 ATTTATATTTATAAAAATATAT
1 ATTTAAATTAATAAAAATATAT
*
13816805 ATTTAAATTAATGAAAATATA
1 ATTTAAATTAATAAAAATATA
13816826 AATATATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
ATTTAAATTAATAAAAATATAT
Found at i:13820847 original size:20 final size:17
Alignment explanation
Indices: 13820809--13820852 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 17
13820799 AAACCCTAAT
13820809 TTTCCCTTTTCTTTTTC
1 TTTCCCTTTTCTTTTTC
13820826 TTTCCCTTCTTCCTTCTTTC
1 TTTCCCTT-TT-CTT-TTTC
13820846 TTTCCCT
1 TTTCCCT
13820853 GCTCATTCGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.33
18 2 0.08
19 3 0.12
20 11 0.46
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTCCCTTTTCTTTTTC
Found at i:13820979 original size:16 final size:17
Alignment explanation
Indices: 13820926--13820979 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 17
13820916 ATTAATATAT
* *
13820926 TATAATTATATAATTTA
1 TATAATTATTTACTTTA
* *
13820943 -AT-ATAATTTACTTTT
1 TATAATTATTTACTTTA
13820958 TATAATTATTTAC-TTA
1 TATAATTATTTACTTTA
13820974 TATAAT
1 TATAAT
13820980 AAGTAAATTC
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
15 9 0.31
16 12 0.41
17 8 0.28
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.56
Consensus pattern (17 bp):
TATAATTATTTACTTTA
Found at i:13823955 original size:15 final size:15
Alignment explanation
Indices: 13823935--13823966 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
13823925 CATTTCACTA
*
13823935 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
13823950 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
13823965 TT
1 TT
13823967 TTCATGTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:13828490 original size:28 final size:28
Alignment explanation
Indices: 13828458--13828515 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
13828448 CTTCATGTAA
13828458 TACCCCTAACCCCTCTCTGTCATTGGAT
1 TACCCCTAACCCCTCTCTGTCATTGGAT
*
13828486 TACCCCTACCCCCTCTCTGTCATTGGAT
1 TACCCCTAACCCCTCTCTGTCATTGGAT
13828514 TA
1 TA
13828516 GGGTCACGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.17, C:0.40, G:0.10, T:0.33
Consensus pattern (28 bp):
TACCCCTAACCCCTCTCTGTCATTGGAT
Found at i:13835956 original size:16 final size:16
Alignment explanation
Indices: 13835935--13835979 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
13835925 ATATATTATA
13835935 TATTTTTTATTTGTTT
1 TATTTTTTATTTGTTT
*
13835951 TATTTTTTAGATTGTTT
1 TATTTTTTA-TTTGTTT
*
13835968 AATTTTTGTATT
1 TATTTTT-TATT
13835980 ATGACCAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 9 0.38
17 13 0.54
18 2 0.08
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (16 bp):
TATTTTTTATTTGTTT
Found at i:13836277 original size:21 final size:21
Alignment explanation
Indices: 13836253--13836313 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
13836243 TAATTATAAA
13836253 TAAATGCTAAAATCCT-AACCC
1 TAAAT-CTAAAATCCTAAACCC
*
13836274 TAAATTTAAAATCCTAAACCC
1 TAAATCTAAAATCCTAAACCC
*
13836295 TTAAA-CTCAAAATCTTAAA
1 -TAAATCT-AAAATCCTAAA
13836314 TTTCAGAGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 9 0.26
21 11 0.32
22 14 0.41
ACGTcount: A:0.48, C:0.23, G:0.02, T:0.28
Consensus pattern (21 bp):
TAAATCTAAAATCCTAAACCC
Found at i:13838362 original size:12 final size:12
Alignment explanation
Indices: 13838345--13838392 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
13838335 TATTCATGAG
13838345 AAATTATTTAAT
1 AAATTATTTAAT
***
13838357 AAATTAAAAAAT
1 AAATTATTTAAT
*
13838369 AAATTATTTAAC
1 AAATTATTTAAT
13838381 AAATATATTTAA
1 AAAT-TATTTAA
13838393 ATATTGACGA
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
12 21 0.75
13 7 0.25
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (12 bp):
AAATTATTTAAT
Found at i:13843664 original size:14 final size:14
Alignment explanation
Indices: 13843647--13843677 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
13843637 ATAATATAGT
13843647 ATAATGAATAAAGA
1 ATAATGAATAAAGA
*
13843661 ATAATGAGTAAAGA
1 ATAATGAATAAAGA
13843675 ATA
1 ATA
13843678 GAAAAGTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.23
Consensus pattern (14 bp):
ATAATGAATAAAGA
Found at i:13843711 original size:4 final size:4
Alignment explanation
Indices: 13843702--13843732 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
13843692 AGCAAACGTG
*
13843702 AGAA AGAA AGAA AGAA AGAA AGAT AGAA AGA
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGA
13843733 CTAACAGAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (4 bp):
AGAA
Found at i:13847746 original size:35 final size:35
Alignment explanation
Indices: 13847678--13847748 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
13847668 CATCTCCGGA
* * * * *
13847678 GCTTGGTAAATATGGAAAGTGTTCTTCACAGATAT
1 GCTTGGAAAATATGGAAAGGGATCCTCAAAGATAT
*
13847713 GCTTGGAAAATATGGAAGGGGATCCTCAAAGATAT
1 GCTTGGAAAATATGGAAAGGGATCCTCAAAGATAT
13847748 G
1 G
13847749 TGATCTTAGA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.34, C:0.11, G:0.27, T:0.28
Consensus pattern (35 bp):
GCTTGGAAAATATGGAAAGGGATCCTCAAAGATAT
Found at i:13849868 original size:53 final size:53
Alignment explanation
Indices: 13849805--13849911 Score: 178
Period size: 53 Copynumber: 2.0 Consensus size: 53
13849795 TTATTTGGGC
*
13849805 TGGATGGCAAGGGCATGAAATCAGCAGGAAAATTGATAAATTAAGGGAAAAAT
1 TGGACGGCAAGGGCATGAAATCAGCAGGAAAATTGATAAATTAAGGGAAAAAT
* * *
13849858 TGGACGGCAAGGGTATGAAGTCAGCAGGAAAATTGATAAATTAAGGGCAAAAT
1 TGGACGGCAAGGGCATGAAATCAGCAGGAAAATTGATAAATTAAGGGAAAAAT
13849911 T
1 T
13849912 AGAATATTGC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.43, C:0.08, G:0.29, T:0.20
Consensus pattern (53 bp):
TGGACGGCAAGGGCATGAAATCAGCAGGAAAATTGATAAATTAAGGGAAAAAT
Found at i:13860961 original size:18 final size:18
Alignment explanation
Indices: 13860938--13860984 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
13860928 GAGCGACTCT
13860938 TTTTTTTATATTAAAATA
1 TTTTTTTATATTAAAATA
*
13860956 TTTTTTTA-AATAAAATA
1 TTTTTTTATATTAAAATA
13860973 TTATTTTT-TATT
1 TT-TTTTTATATT
13860985 GTCGGATCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 10 0.40
18 15 0.60
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTTTTATATTAAAATA
Found at i:13861937 original size:17 final size:18
Alignment explanation
Indices: 13861910--13861946 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
13861900 TGAAAATAAA
13861910 AAAAATAATATTTTATTT
1 AAAAATAATATTTTATTT
*
13861928 AAAAAT-ATATTTTTTTT
1 AAAAATAATATTTTATTT
13861945 AA
1 AA
13861947 TATAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
AAAAATAATATTTTATTT
Found at i:13865804 original size:34 final size:34
Alignment explanation
Indices: 13865761--13865831 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
13865751 CTAAGCTTAG
13865761 TAAGCCCATATAATTCAAAATTAAACTTACCATT
1 TAAGCCCATATAATTCAAAATTAAACTTACCATT
13865795 TAAGCCCATATAATTCAAAATTAAACTTACCATT
1 TAAGCCCATATAATTCAAAATTAAACTTACCATT
13865829 TAA
1 TAA
13865832 AGTAATCAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.45, C:0.20, G:0.03, T:0.32
Consensus pattern (34 bp):
TAAGCCCATATAATTCAAAATTAAACTTACCATT
Done.