Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 28 of 143
Found at i:8229127 original size:51 final size:52
Alignment explanation
Indices: 8229045--8229181 Score: 145
Period size: 51 Copynumber: 2.6 Consensus size: 52
8229035 GCTATAAACG
* *
8229045 AAAGGATCCGATGACTAAGTGTCATCGTGAGTAAATGAA-TCC-ATGATGGATT
1 AAAGG-TCCGATGACTAAGTGTCATCATGAGTAAATGAATTCCTAT-ATGGAAT
* * *
8229097 AAAGGTCCGATGACTCAGTGTTATCATGAGTATATGAATTCCTATATGGAAT
1 AAAGGTCCGATGACTAAGTGTCATCATGAGTAAATGAATTCCTATATGGAAT
* * *
8229149 AAGAGGTTCGATGATTATA-TGTCATCGTGAGTA
1 AA-AGGTCCGATGACTA-AGTGTCATCATGAGTA
8229182 TTAAATGAAT
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
51 29 0.41
52 16 0.23
53 25 0.35
54 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (52 bp):
AAAGGTCCGATGACTAAGTGTCATCATGAGTAAATGAATTCCTATATGGAAT
Found at i:8234972 original size:20 final size:20
Alignment explanation
Indices: 8234935--8234972 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
8234925 TTAATTGAAT
*
8234935 AAAAAGGACTAAATTATAAA
1 AAAAAGGACTAAAGTATAAA
8234955 AAAAAGGA-TAAAAGTATA
1 AAAAAGGACT-AAAGTATA
8234973 GTTGTTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.06
20 15 0.94
ACGTcount: A:0.66, C:0.03, G:0.13, T:0.18
Consensus pattern (20 bp):
AAAAAGGACTAAAGTATAAA
Found at i:8236034 original size:51 final size:50
Alignment explanation
Indices: 8235958--8236135 Score: 203
Period size: 51 Copynumber: 3.4 Consensus size: 50
8235948 AAATGATCTA
8235958 ATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACAGATTAAAGGTCCG
1 ATGACTAA-TGTCATCGTGAGTAAATGAATCCTTTACAGATTAAAGGTCCG
* * * **
8236009 ATGACTAAGTGTCATCATGAGTAAATGAATCCATAATGGATTAAAGGTCCG
1 ATGACTAA-TGTCATCGTGAGTAAATGAATCCTTTACAGATTAAAGGTCCG
* * * * *
8236060 ATGACTCAATGTTATCGTGAGTATATGAATTCGTATACAGAATAAGAGGTCCG
1 ATGACT-AATGTCATCGTGAGTAAATGAA-TCCTTTACAGATTAA-AGGTCCG
*
8236113 ATGATTATATGTCATCGTGAGTA
1 ATGACTA-ATGTCATCGTGAGTA
8236136 TTAAATGAAT
Statistics
Matches: 106, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
51 69 0.65
52 11 0.10
53 26 0.25
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.30
Consensus pattern (50 bp):
ATGACTAATGTCATCGTGAGTAAATGAATCCTTTACAGATTAAAGGTCCG
Found at i:8237483 original size:26 final size:26
Alignment explanation
Indices: 8237449--8237500 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
8237439 TTTTTGCAAC
* * *
8237449 CGAACTCAATTTAAAATTTTTTCGAAT
1 CGAACTCAAGTCAAAA-ATTTTCGAAT
8237476 CGAA-TCAAGTCAAAAATTTTCGAAT
1 CGAACTCAAGTCAAAAATTTTCGAAT
8237501 TGAGTTGAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 9 0.41
26 9 0.41
27 4 0.18
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (26 bp):
CGAACTCAAGTCAAAAATTTTCGAAT
Found at i:8241629 original size:19 final size:19
Alignment explanation
Indices: 8241598--8241768 Score: 173
Period size: 19 Copynumber: 9.0 Consensus size: 19
8241588 GAATTATCGA
*
8241598 ACTGACTCGTAAGAGCGAT
1 ACTGGCTCGTAAGAGCGAT
* **
8241617 ACTGGCTCATAAGAGTAAT
1 ACTGGCTCGTAAGAGCGAT
* * *
8241636 ACTAGCTCGTGAGAGCGTT
1 ACTGGCTCGTAAGAGCGAT
*
8241655 ACTGGCTCGTAAGAGCAAT
1 ACTGGCTCGTAAGAGCGAT
* *
8241674 ACTGGTTCGTAAGAGCAAT
1 ACTGGCTCGTAAGAGCGAT
* *
8241693 ACTGGCTTGTAAGAGCAAT
1 ACTGGCTCGTAAGAGCGAT
*
8241712 ACTGGCTCGTGAGAGCGA-
1 ACTGGCTCGTAAGAGCGAT
* * *
8241730 ATCTGGCTTGTGAGAGTGAT
1 A-CTGGCTCGTAAGAGCGAT
*
8241750 ACTGGTTCGTAAGAGCGAT
1 ACTGGCTCGTAAGAGCGAT
8241769 TTACTAACTG
Statistics
Matches: 124, Mismatches: 26, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
18 1 0.01
19 122 0.98
20 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (19 bp):
ACTGGCTCGTAAGAGCGAT
Found at i:8241658 original size:38 final size:38
Alignment explanation
Indices: 8241598--8241768 Score: 191
Period size: 38 Copynumber: 4.5 Consensus size: 38
8241588 GAATTATCGA
* * *
8241598 ACTGACTCGTAAGAGCGATACTGGCTCATAAGAGTAAT
1 ACTGGCTCGTAAGAGCGATACTGGCTCGTAAGAGCAAT
* * *
8241636 ACTAGCTCGTGAGAGCGTTACTGGCTCGTAAGAGCAAT
1 ACTGGCTCGTAAGAGCGATACTGGCTCGTAAGAGCAAT
* * *
8241674 ACTGGTTCGTAAGAGCAATACTGGCTTGTAAGAGCAAT
1 ACTGGCTCGTAAGAGCGATACTGGCTCGTAAGAGCAAT
* * * **
8241712 ACTGGCTCGTGAGAGCGA-ATCTGGCTTGTGAGAGTGAT
1 ACTGGCTCGTAAGAGCGATA-CTGGCTCGTAAGAGCAAT
*
8241750 ACTGGTTCGTAAGAGCGAT
1 ACTGGCTCGTAAGAGCGAT
8241769 TTACTAACTG
Statistics
Matches: 111, Mismatches: 20, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
37 1 0.01
38 110 0.99
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (38 bp):
ACTGGCTCGTAAGAGCGATACTGGCTCGTAAGAGCAAT
Found at i:8244239 original size:52 final size:53
Alignment explanation
Indices: 8244110--8244315 Score: 333
Period size: 53 Copynumber: 3.9 Consensus size: 53
8244100 CATTTAATAT
*
8244110 TCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATAGGGTTCATATAAC
1 TCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATAGGATTCATATAAC
*
8244163 TCACGATGACACAGAGTCATCGGACCTTTAATCCGTAATAGGATTCATAT-AC
1 TCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATAGGATTCATATAAC
* *
8244215 TCACGATGACACAAAGTCATCGGACCTTTAATCTGTAATTGGATTCATATAAC
1 TCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATAGGATTCATATAAC
* * * *
8244268 TCACGATGACATAGAGTCATCGGACCTTTAATCTGTAATTGGATTCAT
1 TCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATAGGATTCAT
8244316 TAATCCGTAA
Statistics
Matches: 145, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
52 49 0.34
53 96 0.66
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (53 bp):
TCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATAGGATTCATATAAC
Found at i:8244292 original size:105 final size:105
Alignment explanation
Indices: 8244110--8244315 Score: 358
Period size: 105 Copynumber: 2.0 Consensus size: 105
8244100 CATTTAATAT
*
8244110 TCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATAGGGTTCATATAACTCACGATGACAC
1 TCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATAGGATTCATATAACTCACGATGACAC
8244175 AGAGTCATCGGACCTTTAATCCGTAATAGGATTCATATAC
66 AGAGTCATCGGACCTTTAATCCGTAATAGGATTCATATAC
* * *
8244215 TCACGATGACACAAAGTCATCGGACCTTTAATCTGTAATTGGATTCATATAACTCACGATGACAT
1 TCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATAGGATTCATATAACTCACGATGACAC
* *
8244280 AGAGTCATCGGACCTTTAATCTGTAATTGGATTCAT
66 AGAGTCATCGGACCTTTAATCCGTAATAGGATTCAT
8244316 TAATCCGTAA
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
105 95 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (105 bp):
TCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATAGGATTCATATAACTCACGATGACAC
AGAGTCATCGGACCTTTAATCCGTAATAGGATTCATATAC
Found at i:8244320 original size:20 final size:20
Alignment explanation
Indices: 8244295--8244335 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
8244285 CATCGGACCT
* *
8244295 TTAATCTGTAATTGGATTCA
1 TTAATCCGTAATAGGATTCA
8244315 TTAATCCGTAATAGGATTCA
1 TTAATCCGTAATAGGATTCA
8244335 T
1 T
8244336 ATAAATCACG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (20 bp):
TTAATCCGTAATAGGATTCA
Found at i:8244361 original size:73 final size:73
Alignment explanation
Indices: 8244242--8244379 Score: 222
Period size: 73 Copynumber: 1.9 Consensus size: 73
8244232 CATCGGACCT
* * * * *
8244242 TTAATCTGTAATTGGATTCATATAACTCACGATGACATAGAGTCATCGGACCTTTAATCTGTAAT
1 TTAATCCGTAATAGGATTCATATAAATCACGATGACACAGAGTCATCGGACCTTTAATCCGTAAT
8244307 TGGATTCA
66 TGGATTCA
*
8244315 TTAATCCGTAATAGGATTCATATAAATCACGATGACACAGGGTCATCGGACCTTTAATCCGTAAT
1 TTAATCCGTAATAGGATTCATATAAATCACGATGACACAGAGTCATCGGACCTTTAATCCGTAAT
8244380 AGGGTTCTCA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 59 1.00
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Consensus pattern (73 bp):
TTAATCCGTAATAGGATTCATATAAATCACGATGACACAGAGTCATCGGACCTTTAATCCGTAAT
TGGATTCA
Found at i:8244904 original size:16 final size:16
Alignment explanation
Indices: 8244880--8244911 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
8244870 TCCTTACAAG
*
8244880 TTTATTCCTTTAACAT
1 TTTAGTCCTTTAACAT
8244896 TTTAGTCCTTTAACAT
1 TTTAGTCCTTTAACAT
8244912 AAAAATTACT
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:0.25, C:0.19, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTAGTCCTTTAACAT
Found at i:8264883 original size:22 final size:22
Alignment explanation
Indices: 8264831--8264883 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
8264821 GTTACTGTTA
* *
8264831 TATTGTTGTTTTGCTACCATTT
1 TATTGTTATATTGCTACCATTT
* * **
8264853 TACTATTATATTGCTATTATTT
1 TATTGTTATATTGCTACCATTT
8264875 TATTGTTAT
1 TATTGTTAT
8264884 TATTTGGATA
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.21, C:0.09, G:0.09, T:0.60
Consensus pattern (22 bp):
TATTGTTATATTGCTACCATTT
Found at i:8267702 original size:11 final size:11
Alignment explanation
Indices: 8267688--8267713 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
8267678 AATCTGTCAA
8267688 ATATCTTGTAG
1 ATATCTTGTAG
8267699 ATATCTTGTAG
1 ATATCTTGTAG
8267710 ATAT
1 ATAT
8267714 TTACTTTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (11 bp):
ATATCTTGTAG
Found at i:8267707 original size:49 final size:49
Alignment explanation
Indices: 8267635--8267729 Score: 163
Period size: 49 Copynumber: 1.9 Consensus size: 49
8267625 AGCATAGCTA
*
8267635 TCAAATATCTTGTAGATATCTTGTAAATATATATTTTCTTAAGAATCTG
1 TCAAATATCTTGTAGATATCTTGTAAATATATACTTTCTTAAGAATCTG
* *
8267684 TCAAATATCTTGTAGATATCTTGTAGATATTTACTTTCTTAAGAAT
1 TCAAATATCTTGTAGATATCTTGTAAATATATACTTTCTTAAGAAT
8267730 AGGTTATTGT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.45
Consensus pattern (49 bp):
TCAAATATCTTGTAGATATCTTGTAAATATATACTTTCTTAAGAATCTG
Found at i:8281615 original size:13 final size:14
Alignment explanation
Indices: 8281594--8281625 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
8281584 GCTTGTTTCC
8281594 TTTGCTTTTTGTTT
1 TTTGCTTTTTGTTT
8281608 TTTG-TTTTTGTTT
1 TTTGCTTTTTGTTT
8281621 TTTGC
1 TTTGC
8281626 CTACATTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.00, C:0.06, G:0.16, T:0.78
Consensus pattern (14 bp):
TTTGCTTTTTGTTT
Found at i:8287171 original size:49 final size:48
Alignment explanation
Indices: 8287035--8287417 Score: 271
Period size: 49 Copynumber: 7.9 Consensus size: 48
8287025 CTGCAATGTT
* * *
8287035 TTCGTGGTACTAGATTCGCCATTGCGGCTTAGATCTTTCCC-TTCATGC
1 TTCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTTCAT-C
* * * * * ** * * *
8287083 TTTTGAGGCACAAGG-TTCACTATTGAGACTTAAACCTTTCCCTTTGCATC
1 -TTCGTGGTAC-TGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTT-CATC
* *
8287133 TTCGTGGTACTGGATTCGCCGTTGCGGCTCAAATCTTTCCC-TTCATT
1 TTCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTTCATC
* * *
8287180 TTCTGAGGTACAAGG-TTCGCCGTTGCGGCTTAAACCTTTCCCTTTGCATC
1 TTC-GTGGTAC-TGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTT-CATC
* * * *
8287230 TTCATGGTATTGGATTCGCC-TTGTGGCTTAAATCTTTCCC-TTCATT
1 TTCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTTCATC
* * *
8287276 TTCGTGGTACTGGATTCGCCGTTGTGACTTAAATCCTTCCC-TTCATGC
1 TTCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTTCAT-C
* * * ** * * *
8287324 TTTTGAGGTACAAGG-TTCATCGTTGCGACTTAAACCTTTCCCTCCATT-ACC
1 -TTCGTGGTAC-TGGATTCGCCGTTGCGGCTTAAATCTTTCCCT---TTCATC
* *
8287375 TTTGTGGTACTGGATTTGCCGTTGCGGCTTAAATCTTTCCCTT
1 TTCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTT
8287418 CATGTCTTCA
Statistics
Matches: 260, Mismatches: 56, Indels: 38
0.73 0.16 0.11
Matches are distributed among these distances:
46 21 0.08
47 32 0.12
48 55 0.21
49 101 0.39
50 44 0.17
51 4 0.02
52 1 0.00
53 2 0.01
ACGTcount: A:0.16, C:0.26, G:0.20, T:0.38
Consensus pattern (48 bp):
TTCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTTCATC
Found at i:8287238 original size:97 final size:96
Alignment explanation
Indices: 8287039--8287318 Score: 343
Period size: 97 Copynumber: 2.9 Consensus size: 96
8287029 AATGTTTTCG
* * * *
8287039 TGGTACTAGATTCGCCATTGCGGCTTAGATCTTTCCCTTCATGCTTT-TGAGGCACAAGGTTCAC
1 TGGTACTGGATTCGCC-TTGCGGCTTAAATCTTTCCCTTCAT--TTTCTGAGGTACAAGGTTCGC
** *
8287103 TATTGAGACTTAAACCTTTCCCTTTGCATCTTCG
63 CGTTGAGACTTAAACCTTTCCCTTTGCATCTTCA
*
8287137 TGGTACTGGATTCGCCGTTGCGGCTCAAATCTTTCCCTTCATTTTCTGAGGTACAAGGTTCGCCG
1 TGGTACTGGATTCGCC-TTGCGGCTTAAATCTTTCCCTTCATTTTCTGAGGTACAAGGTTCGCCG
* *
8287202 TTGCGGCTTAAACCTTTCCCTTTGCATCTTCA
65 TTGAGACTTAAACCTTTCCCTTTGCATCTTCA
* * * *
8287234 TGGTATTGGATTCGCCTTGTGGCTTAAATCTTTCCCTTCATTTTC-GTGGTAC-TGGATTCGCCG
1 TGGTACTGGATTCGCCTTGCGGCTTAAATCTTTCCCTTCATTTTCTGAGGTACAAGG-TTCGCCG
*
8287297 TTGTGACTTAAATCC-TTCCCTT
65 TTGAGACTTAAA-CCTTTCCCTT
8287319 CATGCTTTTG
Statistics
Matches: 161, Mismatches: 18, Indels: 9
0.86 0.10 0.05
Matches are distributed among these distances:
94 2 0.01
95 30 0.19
96 32 0.20
97 59 0.37
98 38 0.24
ACGTcount: A:0.16, C:0.26, G:0.20, T:0.38
Consensus pattern (96 bp):
TGGTACTGGATTCGCCTTGCGGCTTAAATCTTTCCCTTCATTTTCTGAGGTACAAGGTTCGCCGT
TGAGACTTAAACCTTTCCCTTTGCATCTTCA
Found at i:8302689 original size:6 final size:6
Alignment explanation
Indices: 8302678--8302760 Score: 73
Period size: 6 Copynumber: 14.0 Consensus size: 6
8302668 ATAAAGGAAG
* * * *
8302678 AGAAAA AGAAAA A-AGAA AGAAAAA AGAAAAA AGGAAA AGGAAA AGGAAA
1 AGAAAA AGAAAA AGAAAA AG-AAAA AG-AAAA AGAAAA AGAAAA AGAAAA
* *
8302727 AGAAAA AGAAAA A-AAGA AGAAAA A-AGAA AGAAAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA
8302761 TGAGAGCTCG
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
5 12 0.18
6 41 0.63
7 12 0.18
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:8302692 original size:7 final size:7
Alignment explanation
Indices: 8302675--8302755 Score: 57
Period size: 7 Copynumber: 11.9 Consensus size: 7
8302665 AAAATAAAGG
8302675 AAGAGAAA
1 AAGA-AAA
8302683 AAGAAAA
1 AAGAAAA
8302690 AAG---A
1 AAGAAAA
8302694 AAGAAAA
1 AAGAAAA
8302701 AAGAAAA
1 AAGAAAA
*
8302708 AAG-GAA
1 AAGAAAA
*
8302714 AAGGAAA
1 AAGAAAA
*
8302721 AGGAAAA
1 AAGAAAA
8302728 GAA-AAAGA
1 -AAGAAA-A
8302736 AA-AAAA
1 AAGAAAA
8302742 GAAGAAAA
1 -AAGAAAA
8302750 AAGAAA
1 AAGAAA
8302756 GAAAATGAGA
Statistics
Matches: 60, Mismatches: 5, Indels: 17
0.73 0.06 0.21
Matches are distributed among these distances:
4 4 0.07
6 6 0.10
7 40 0.67
8 10 0.17
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:8302698 original size:11 final size:11
Alignment explanation
Indices: 8302682--8302760 Score: 72
Period size: 11 Copynumber: 6.7 Consensus size: 11
8302672 AGGAAGAGAA
8302682 AAAGAAAAAAG
1 AAAGAAAAAAG
8302693 AAAGAAAAAAG
1 AAAGAAAAAAG
*
8302704 AAAAAAGGAAAAGG
1 AAAGAA--AAAA-G
8302718 AAAAGGAAAAGAA-
1 -AAA-GAAAA-AAG
8302731 AAAGAAAAAA-
1 AAAGAAAAAAG
8302741 AGAAGAAAAAAG
1 A-AAGAAAAAAG
8302753 AAAGAAAA
1 AAAGAAAA
8302761 TGAGAGCTCG
Statistics
Matches: 58, Mismatches: 2, Indels: 16
0.76 0.03 0.21
Matches are distributed among these distances:
10 3 0.05
11 37 0.64
12 4 0.07
13 4 0.07
14 3 0.05
15 5 0.09
16 2 0.03
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
AAAGAAAAAAG
Found at i:8303702 original size:21 final size:21
Alignment explanation
Indices: 8303678--8303733 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
8303668 TTGAAGCCGC
8303678 AAAGGCGAATCTTAAAGCTGT
1 AAAGGCGAATCTTAAAGCTGT
* *
8303699 AAAGG-G-CTCGATTGAAGCTGT
1 AAAGGCGAATC--TTAAAGCTGT
*
8303720 AAAGACGAATCTTA
1 AAAGGCGAATCTTA
8303734 CGCCCTTAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 8
0.67 0.13 0.21
Matches are distributed among these distances:
19 2 0.08
20 1 0.04
21 20 0.77
22 1 0.04
23 2 0.08
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (21 bp):
AAAGGCGAATCTTAAAGCTGT
Found at i:8304335 original size:94 final size:93
Alignment explanation
Indices: 8304010--8305084 Score: 299
Period size: 94 Copynumber: 11.5 Consensus size: 93
8304000 TAAAACAGGT
* * *
8304010 AGTAGATCTCAACGTTCTTGAGGTTACAGTGGAGTGGGGTGAAGCACCAGAATCCTATACTCC-T
1 AGTAGAGCTCAACGTTCTTGAGGTTACAGTGGAGTGGAGTGAAGCACCCGAATCCTATAC-CCTT
* *
8304074 GAGTTGCAGCGGGTTAGATGAAAATAATGA
65 GAGTTGCAGAGGG-TGGATGAAAATAATGA
* * * ** * *
8304104 AGTAGAGCTCAACGTCCTTGAGGTTACAGTGAAATGGAGTGATA-C-TTCAAATCCTATATTCCT
1 AGTAGAGCTCAACGTTCTTGAGGTTACAGTGGAGTGGAGTGA-AGCACCCGAATCCTATA-CCCT
* * * * *
8304167 GGTGAAG-TACAGAGAAGTGGGTTAAAATAGGTG-
64 --TG-AGTTGCAGAG-GGTGGATGAAAATA-ATGA
* * * * *
8304200 -GCAGATCTCAAC-ATCTCTGAGGTTATAGTGGACTGGAGTGAAGCACCCGAATCCTATACCCTT
1 AGTAGAGCTCAACGTTCT-TGAGGTTACAGTGGAGTGGAGTGAAGCACCCGAATCCTATACCCTT
*
8304263 GAGTTGCAGTGGGTCGGATGAAAATAATGA
65 GAGTTGCAGAGGGT-GGATGAAAATAATGA
* * * * * * **
8304293 AGTAGAGCTCAACGTTCTTGAGGTTACAATAGAGTAGAGTGAA--ACTTCAAATCCCATTTTCCT
1 AGTAGAGCTCAACGTTCTTGAGGTTACAGTGGAGTGGAGTGAAGCAC-CCGAATCCTA-TACCCT
* * * ** * * * * *
8304356 GATGAGGTACAAAGAAATGGGTTAAAA-CAGGT
64 --TGAGTTGCAGAG-GGTGGATGAAAATAATGA
* * * * * * * * *
8304388 AGCAGATCTCAATGTCCCTGAGGTTATAGTGGAGTGGACTGAAGCA-CC--A---GATACCCCTG
1 AGTAGAGCTCAACGTTCTTGAGGTTACAGTGGAGTGGAGTGAAGCACCCGAATCCTATACCCTTG
* * *
8304447 AGTTACAGTGGGTCGAATGAAAATAATGA
66 AGTTGCAGAGGGT-GGATGAAAATAATGA
* * * * * * * * *
8304476 AGCAAAGCTCAACGTCCCTGAGGTTACAGTGGAGTGAAGTG-AGC-CTTCAAATCTTAT-CTTTC
1 AGTAGAGCTCAACGTTCTTGAGGTTACAGTGGAGTGGAGTGAAGCAC-CCGAATCCTATAC--CC
* * * * * * * *
8304538 TAGTGAGGTACAAAGAAGTGGGTTAAAAT-AGGT
63 T--TGAGTTGCAGAG-GGTGGATGAAAATAATGA
* * * * * ** ** *
8304571 AGTAGATCTCAACGTCCCTGATGTTACAATGGAAAGGAGTGAAGCACCAAAATCCTATACCCCTG
1 AGTAGAGCTCAACGTTCTTGAGGTTACAGTGGAGTGGAGTGAAGCACCCGAATCCTATACCCTTG
* * * *
8304636 AGTTACAGTGGTTCTGATGAAAATAATGA
66 AGTTGCAGAGGGT-GGATGAAAATAATGA
* * * * * * * *
8304665 AGCAGAGCTCAATGTCCCTG-GTGTTATAGTGGAGTGGAGTG-AG-ACTTCAAATCCCAT-CTTC
1 AGTAGAGCTCAACGTTCTTGAG-GTTACAGTGGAGTGGAGTGAAGCAC-CCGAATCCTATAC--C
* * * * * * * *
8304726 CTACTGAGGTACAGAGAAGTGGGTTAAAA-CAGGT
62 CT--TGAGTTGCAGAG-GGTGGATGAAAATAATGA
* * * * * *
8304760 AGTAGATCTCAACGTCCCTGAGGTTACAATGGAGTGGAGTGAAGCACCAGAATCCTATACCCCTG
1 AGTAGAGCTCAACGTTCTTGAGGTTACAGTGGAGTGGAGTGAAGCACCCGAATCCTATACCCTTG
* * * *
8304825 AGCTGCA-ATGAGTTGAATGAAAATAACGA
66 AGTTGCAGA-G-GGTGGATGAAAATAATGA
* * * * * * *
8304854 AGTAGAGCTCAACGTTCTTGAGATTACAGTGGAGTGAAATG-AG-ACTTCAAATCCCAT-CTTCT
1 AGTAGAGCTCAACGTTCTTGAGGTTACAGTGGAGTGGAGTGAAGCAC-CCGAATCCTATAC--CC
* * * * * * *
8304916 TGGTGAGGTACAGAGAAGTGGGTTAAAACAGGTG-
63 T--TGAGTTGCAGAG-GGTGGATGAAAATA-ATGA
* * * * * *
8304950 A-CAGATCTCAAC-ATCTCT-ATGGATACAATGGAGTGGAGTGAAGCACCAGAATCCTATACCCT
1 AGTAGAGCTCAACGTTCT-TGA-GGTTACAGTGGAGTGGAGTGAAGCACCCGAATCCTATACCCT
* * *
8305012 TGGGCTGCAGCGGGTCGGATGAAAATAATGA
64 TGAGTTGCAGAGGGT-GGATGAAAATAATGA
* * * *
8305043 AGTAGGGCTTAACGTTCCTGAGGTTACAGTGTAGTGGAGTGA
1 AGTAGAGCTCAACGTTCTTGAGGTTACAGTGGAGTGGAGTGA
8305085 GACTTCAAAT
Statistics
Matches: 687, Mismatches: 222, Indels: 144
0.65 0.21 0.14
Matches are distributed among these distances:
86 1 0.00
87 18 0.03
88 38 0.06
89 3 0.00
90 2 0.00
92 21 0.03
93 105 0.15
94 179 0.26
95 179 0.26
96 121 0.18
97 20 0.03
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.25
Consensus pattern (93 bp):
AGTAGAGCTCAACGTTCTTGAGGTTACAGTGGAGTGGAGTGAAGCACCCGAATCCTATACCCTTG
AGTTGCAGAGGGTGGATGAAAATAATGA
Found at i:8304944 original size:561 final size:559
Alignment explanation
Indices: 8303825--8305134 Score: 1597
Period size: 561 Copynumber: 2.3 Consensus size: 559
8303815 CAACAAAGCG
* *
8303825 GATCTCAATGTCCCTAAGGTTATAATGGAGTGGAGTGAAGCACCAAAATCTTATACTCCTGAGTT
1 GATCTCAATGTCCCT-AGGTTATAATGGAGTGGAGTGAAGCACC---A---GATACCCCTGAGTT
* * * * * *
8303890 GCAATGGGTC-ACATTAAAACAACGAAGTAAAGCTCAACATCCCTAAGGTTACAGTGGAGTGGAG
59 GCAGTGGGTCGA-ATGAAAATAATGAAGTAAAGCTCAACGTCCCTGAGGTTACAGTGGAGTGGAG
*
8303954 TGAGACTTCAAATCCTATC-TTCTTGGTGAGCTACAGAGAAGTGGGTTAAAACAGGTAGTAGATC
123 TGAGACTTCAAATCCTATCTTTC-T-GTGAGGTACAGAGAAGTGGGTTAAAACAGGTAGTAGATC
* * * ** * * * *
8304018 TCAACGTTCTTGAGGTTACAGTGGAGTGGGGTGAAGCACCAGAATCCTATACTCCTGAGTTGCAG
186 TCAACGTCCCTGAGGTTACAATGGAAAGGAGTGAAGCACCAAAATCCTATACCCCTGAGTTACAG
* * *
8304083 CGGGTTAGATGAAAATAATGAAGTAGAGCTCAACGTCCTTGAGGTTACAGTGAAATGGAGTGATA
251 CGGGTTAGATGAAAATAATGAAGCAGAGCTCAACGTCCCTGAGGTTACAGTGAAATGGAGTGAGA
* ** * *
8304148 CTTCAAATCCTATATTCCTGGTGAAGTACAGAGAAGTGGGTTAAAATAGGTGGCAGATCTCAACA
316 CTTCAAATCCCATATTCCTACTGAAGTACAGAGAAGTGGGTTAAAACAGGTAGCAGATCTCAACA
* * * * * * * *
8304213 TCTCTGAGGTTATAGTGGACTGGAGTGAAGCACCCGAATCCTATACCCTTGAGTTGCAGTGGGTC
381 TCCCTGAGGTTACAATGGACTGGAGTGAAGCACCAGAATCCTATACCCCTGAGCTGCAATGAGTC
* * * *
8304278 GGATGAAAATAATGAAGTAGAGCTCAACGTTCTTGAGGTTACAATAGAGTAGAGTGAAACTTCAA
446 GAATGAAAATAACGAAGTAGAGCTCAACGTTCTTGAGATTACAATAGAGTAGAATGAAACTTCAA
*
8304343 ATCCCATTTTCCTGATGAGGTACAAAGAAATGGGTTAAAACAGGT-AGCA
511 ATCCCATCTTCCTGATGAGGTACAAAGAAATGGGTTAAAACAGGTGA-CA
* * *
8304392 GATCTCAATGTCCCTGAGGTTATAGTGGAGTGGACTGAAGCACCAGATACCCCTGAGTTACAGTG
1 GATCTCAATGTCCCT-AGGTTATAATGGAGTGGAGTGAAGCACCAGATACCCCTGAGTTGCAGTG
* * *
8304457 GGTCGAATGAAAATAATGAAGCAAAGCTCAACGTCCCTGAGGTTACAGTGGAGTGAAGTGAGCCT
65 GGTCGAATGAAAATAATGAAGTAAAGCTCAACGTCCCTGAGGTTACAGTGGAGTGGAGTGAGACT
* * *
8304522 TCAAATCTTATCTTTCTAGTGAGGTACAAAGAAGTGGGTTAAAATAGGTAGTAGATCTCAACGTC
130 TCAAATCCTATCTTTCT-GTGAGGTACAGAGAAGTGGGTTAAAACAGGTAGTAGATCTCAACGTC
* * *
8304587 CCTGATGTTACAATGGAAAGGAGTGAAGCACCAAAATCCTATACCCCTGAGTTACAG-TGGTTCT
194 CCTGAGGTTACAATGGAAAGGAGTGAAGCACCAAAATCCTATACCCCTGAGTTACAGCGGGTT-A
* * * *
8304651 GATGAAAATAATGAAGCAGAGCTCAATGTCCCTG-GTGTTATAGTGGAGTGGAGTGAGACTTCAA
258 GATGAAAATAATGAAGCAGAGCTCAACGTCCCTGAG-GTTACAGTGAAATGGAGTGAGACTTCAA
* * * *
8304715 ATCCCATCTTCCTACTGAGGTACAGAGAAGTGGGTTAAAACAGGTAGTAGATCTCAACGTCCCTG
322 ATCCCATATTCCTACTGAAGTACAGAGAAGTGGGTTAAAACAGGTAGCAGATCTCAACATCCCTG
* *
8304780 AGGTTACAATGGAGTGGAGTGAAGCACCAGAATCCTATACCCCTGAGCTGCAATGAGTTGAATGA
387 AGGTTACAATGGACTGGAGTGAAGCACCAGAATCCTATACCCCTGAGCTGCAATGAGTCGAATGA
* * *
8304845 AAATAACGAAGTAGAGCTCAACGTTCTTGAGATTACAGTGGAGT-GAAATGAGACTTCAAATCCC
452 AAATAACGAAGTAGAGCTCAACGTTCTTGAGATTACAATAGAGTAG-AATGAAACTTCAAATCCC
* * * *
8304909 ATCTTCTTGGTGAGGTACAGAGAAGTGGGTTAAAACAGGTGACA
516 ATCTTCCTGATGAGGTACAAAGAAATGGGTTAAAACAGGTGACA
** * * * * * *
8304953 GATCTCAACATCTCTATGGATACAATGGAGTGGAGTGAAGCACCAGAATCCTATACCCTTGGGCT
1 GATCTCAATGTCCCTA-GGTTATAATGGAGTGGAGTGAAGCACCAG------ATACCCCTGAGTT
* * ** * * *
8305018 GCAGCGGGTCGGATGAAAATAATGAAGTAGGGCTTAACGTTCCTGAGGTTACAGTGTAGTGGAGT
59 GCAGTGGGTCGAATGAAAATAATGAAGTAAAGCTCAACGTCCCTGAGGTTACAGTGGAGTGGAGT
* *
8305083 GAGACTTCAAATCCCATCTTTCTGATGAGGTATAGAGAAGTGGGTTAAAACA
124 GAGACTTCAAATCCTATCTTTCTG-TGAGGTACAGAGAAGTGGGTTAAAACA
8305135 AATAGGAAAT
Statistics
Matches: 633, Mismatches: 96, Indels: 28
0.84 0.13 0.04
Matches are distributed among these distances:
560 7 0.01
561 469 0.74
562 5 0.01
564 1 0.00
566 1 0.00
567 150 0.24
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (559 bp):
GATCTCAATGTCCCTAGGTTATAATGGAGTGGAGTGAAGCACCAGATACCCCTGAGTTGCAGTGG
GTCGAATGAAAATAATGAAGTAAAGCTCAACGTCCCTGAGGTTACAGTGGAGTGGAGTGAGACTT
CAAATCCTATCTTTCTGTGAGGTACAGAGAAGTGGGTTAAAACAGGTAGTAGATCTCAACGTCCC
TGAGGTTACAATGGAAAGGAGTGAAGCACCAAAATCCTATACCCCTGAGTTACAGCGGGTTAGAT
GAAAATAATGAAGCAGAGCTCAACGTCCCTGAGGTTACAGTGAAATGGAGTGAGACTTCAAATCC
CATATTCCTACTGAAGTACAGAGAAGTGGGTTAAAACAGGTAGCAGATCTCAACATCCCTGAGGT
TACAATGGACTGGAGTGAAGCACCAGAATCCTATACCCCTGAGCTGCAATGAGTCGAATGAAAAT
AACGAAGTAGAGCTCAACGTTCTTGAGATTACAATAGAGTAGAATGAAACTTCAAATCCCATCTT
CCTGATGAGGTACAAAGAAATGGGTTAAAACAGGTGACA
Found at i:8305149 original size:189 final size:189
Alignment explanation
Indices: 8303825--8305182 Score: 1490
Period size: 189 Copynumber: 7.2 Consensus size: 189
8303815 CAACAAAGCG
* * * * * *
8303825 GATCTCAATGTCCCTAAGGTTATAATGGAGTGGAGTGAAGCACCAAAATCTTATACTCCTGAGTT
1 GATCTCAACGTCCCTGAGGTTACAATGGAGTGGAGTGAAGCACCAGAATCCTATACCCCTGAGTT
* ** * * * * * * *
8303890 GCAATGGGTCACATTAAAACAACGAAGTAAAGCTCAACATCCCTAAGGTTACAGTGGAGTGGAGT
66 GCAGTGGGTCGGATGAAAATAATGAAGTAGAGCTCAACGTTCCTGAGGTTACAGTGGAGTGGAGT
* * * *
8303955 GAGACTTCAAATCCTATC-TTCTTGGTGAGCTACAGAGAAGTGGGTTAAAACAGGTAGTA
131 GAGACTTCAAATCCCATCTTTC-TGATGAGGTACAGAGAAGTGGGTTAAAACAGGTAGGA
* * * * *
8304014 GATCTCAACGTTCTTGAGGTTACAGTGGAGTGGGGTGAAGCACCAGAATCCTATACTCCTGAGTT
1 GATCTCAACGTCCCTGAGGTTACAATGGAGTGGAGTGAAGCACCAGAATCCTATACCCCTGAGTT
* ** * *
8304079 GCAGCGGGTTAGATGAAAATAATGAAGTAGAGCTCAACG-TCCTTGAGGTTACAGTGAAATGGAG
66 GCAGTGGGTCGGATGAAAATAATGAAGTAGAGCTCAACGTTCC-TGAGGTTACAGTGGAGTGGAG
* * * * * * *
8304143 TGATACTTCAAATCCTATATTCCTGGTGAAGTACAGAGAAGTGGGTTAAAATAGGT-GGCA
130 TGAGACTTCAAATCCCATCTTTCTGATGAGGTACAGAGAAGTGGGTTAAAACAGGTAGG-A
* * * * * * *
8304203 GATCTCAACATCTCTGAGGTTATAGTGGACTGGAGTGAAGCACCCGAATCCTATACCCTTGAGTT
1 GATCTCAACGTCCCTGAGGTTACAATGGAGTGGAGTGAAGCACCAGAATCCTATACCCCTGAGTT
* * * *
8304268 GCAGTGGGTCGGATGAAAATAATGAAGTAGAGCTCAACGTTCTTGAGGTTACAATAGAGTAGAGT
66 GCAGTGGGTCGGATGAAAATAATGAAGTAGAGCTCAACGTTCCTGAGGTTACAGTGGAGTGGAGT
* * * *
8304333 GAAACTTCAAATCCCAT-TTTCCTGATGAGGTACAAAGAAATGGGTTAAAACAGGTAGCA
131 GAGACTTCAAATCCCATCTTT-CTGATGAGGTACAGAGAAGTGGGTTAAAACAGGTAGGA
* * * *
8304392 GATCTCAATGTCCCTGAGGTTATAGTGGAGTGGACTGAAGCACCAG------ATACCCCTGAGTT
1 GATCTCAACGTCCCTGAGGTTACAATGGAGTGGAGTGAAGCACCAGAATCCTATACCCCTGAGTT
* * * * * *
8304451 ACAGTGGGTCGAATGAAAATAATGAAGCAAAGCTCAACGTCCCTGAGGTTACAGTGGAGTGAAGT
66 GCAGTGGGTCGGATGAAAATAATGAAGTAGAGCTCAACGTTCCTGAGGTTACAGTGGAGTGGAGT
* ** * * *
8304516 GAGCCTTCAAATCTTATCTTTCT-AGTGAGGTACAAAGAAGTGGGTTAAAATAGGTAGTA
131 GAGACTTCAAATCCCATCTTTCTGA-TGAGGTACAGAGAAGTGGGTTAAAACAGGTAGGA
* ** *
8304575 GATCTCAACGTCCCTGATGTTACAATGGAAAGGAGTGAAGCACCAAAATCCTATACCCCTGAGTT
1 GATCTCAACGTCCCTGAGGTTACAATGGAGTGGAGTGAAGCACCAGAATCCTATACCCCTGAGTT
* * * * * * *
8304640 ACAGTGGTTCTGATGAAAATAATGAAGCAGAGCTCAATGTCCCTG-GTGTTATAGTGGAGTGGAG
66 GCAGTGGGTCGGATGAAAATAATGAAGTAGAGCTCAACGTTCCTGAG-GTTACAGTGGAGTGGAG
* *
8304704 TGAGACTTCAAATCCCATCTTCCT-ACTGAGGTACAGAGAAGTGGGTTAAAACAGGTAGTA
130 TGAGACTTCAAATCCCATCTTTCTGA-TGAGGTACAGAGAAGTGGGTTAAAACAGGTAGGA
*
8304764 GATCTCAACGTCCCTGAGGTTACAATGGAGTGGAGTGAAGCACCAGAATCCTATACCCCTGAGCT
1 GATCTCAACGTCCCTGAGGTTACAATGGAGTGGAGTGAAGCACCAGAATCCTATACCCCTGAGTT
* * * * * * * * *
8304829 GCAATGAGTTGAATGAAAATAACGAAGTAGAGCTCAACGTTCTTGAGATTACAGTGGAGTGAAAT
66 GCAGTGGGTCGGATGAAAATAATGAAGTAGAGCTCAACGTTCCTGAGGTTACAGTGGAGTGGAGT
* *
8304894 GAGACTTCAAATCCCATC-TTCTTGGTGAGGTACAGAGAAGTGGGTTAAAACAGGT-GACA
131 GAGACTTCAAATCCCATCTTTC-TGATGAGGTACAGAGAAGTGGGTTAAAACAGGTAG-GA
* * * * * *
8304953 GATCTCAACATCTCT-ATGGATACAATGGAGTGGAGTGAAGCACCAGAATCCTATACCCTTGGGC
1 GATCTCAACGTCCCTGA-GGTTACAATGGAGTGGAGTGAAGCACCAGAATCCTATACCCCTGAGT
* * * *
8305017 TGCAGCGGGTCGGATGAAAATAATGAAGTAGGGCTTAACGTTCCTGAGGTTACAGTGTAGTGGAG
65 TGCAGTGGGTCGGATGAAAATAATGAAGTAGAGCTCAACGTTCCTGAGGTTACAGTGGAGTGGAG
* **
8305082 TGAGACTTCAAATCCCATCTTTCTGATGAGGTATAGAGAAGTGGGTTAAAACAAATAGGA
130 TGAGACTTCAAATCCCATCTTTCTGATGAGGTACAGAGAAGTGGGTTAAAACAGGTAGGA
* * * * * *
8305142 AATCTCAATC-TCCCTGAAGTTGCAGTAGAATGGAGTGAAGC
1 GATCTCAA-CGTCCCTGAGGTTACAATGGAGTGGAGTGAAGC
8305183 CACGACATCA
Statistics
Matches: 987, Mismatches: 158, Indels: 48
0.83 0.13 0.04
Matches are distributed among these distances:
182 1 0.00
183 151 0.15
184 3 0.00
188 10 0.01
189 810 0.82
190 12 0.01
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (189 bp):
GATCTCAACGTCCCTGAGGTTACAATGGAGTGGAGTGAAGCACCAGAATCCTATACCCCTGAGTT
GCAGTGGGTCGGATGAAAATAATGAAGTAGAGCTCAACGTTCCTGAGGTTACAGTGGAGTGGAGT
GAGACTTCAAATCCCATCTTTCTGATGAGGTACAGAGAAGTGGGTTAAAACAGGTAGGA
Found at i:8305772 original size:18 final size:18
Alignment explanation
Indices: 8305741--8305779 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
8305731 GTAACCTGCA
*
8305741 AAAGACAGAGAAAAGAAC
1 AAAGACAGAGAAAAAAAC
8305759 AAAGACA-AGAAAAAAAAC
1 AAAGACAGAG-AAAAAAAC
8305777 AAA
1 AAA
8305780 TAGCAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.74, C:0.10, G:0.15, T:0.00
Consensus pattern (18 bp):
AAAGACAGAGAAAAAAAC
Found at i:8307072 original size:17 final size:17
Alignment explanation
Indices: 8307047--8307081 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
8307037 TTCAACCCGG
* *
8307047 TTTTTTATATTTTTTTA
1 TTTTATATATTTATTTA
8307064 TTTTATATATTTATTTA
1 TTTTATATATTTATTTA
8307081 T
1 T
8307082 CATTTAGCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTATATATTTATTTA
Found at i:8319222 original size:28 final size:29
Alignment explanation
Indices: 8319191--8319251 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
8319181 TAAAAGGCAA
8319191 AATTATTATA-TT-GTCTACGTAGTTAAAT
1 AATTATTATACTTCGTCTAC-TAGTTAAAT
* *
8319219 AATT-TTGTACTTCGTCTACTTGTTAAAT
1 AATTATTATACTTCGTCTACTAGTTAAAT
8319247 AATTA
1 AATTA
8319252 CCCCATTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
27 4 0.14
28 18 0.64
29 6 0.21
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.48
Consensus pattern (29 bp):
AATTATTATACTTCGTCTACTAGTTAAAT
Found at i:8320363 original size:7 final size:7
Alignment explanation
Indices: 8320350--8320383 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
8320340 TATGTTGTAA
8320350 GGTTTAG
1 GGTTTAG
*
8320357 AGTTTAG
1 GGTTTAG
8320364 GGTTTAG
1 GGTTTAG
*
8320371 GGTTTAA
1 GGTTTAG
8320378 GGTTTA
1 GGTTTA
8320384 TATGTTATAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.35, T:0.44
Consensus pattern (7 bp):
GGTTTAG
Found at i:8320369 original size:14 final size:14
Alignment explanation
Indices: 8320347--8320383 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
8320337 TTATATGTTG
8320347 TAAGGTTTAGAGTT
1 TAAGGTTTAGAGTT
* *
8320361 TAGGGTTTAGGGTT
1 TAAGGTTTAGAGTT
8320375 TAAGGTTTA
1 TAAGGTTTA
8320384 TATGTTATAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.43
Consensus pattern (14 bp):
TAAGGTTTAGAGTT
Found at i:8321488 original size:29 final size:29
Alignment explanation
Indices: 8321454--8321543 Score: 130
Period size: 29 Copynumber: 3.1 Consensus size: 29
8321444 TAAAATATAG
8321454 CTGATTGATTTTAAATTGAATAAATTATT
1 CTGATTGATTTTAAATTGAATAAATTATT
* *
8321483 GTGATTGATTTTAAATTGAATAAACTATT
1 CTGATTGATTTTAAATTGAATAAATTATT
8321512 CT-ATTTGAATTTT-AATTGAATAAATTATT
1 CTGA-TTG-ATTTTAAATTGAATAAATTATT
8321541 CTG
1 CTG
8321544 TTTTCTGTAG
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
28 1 0.02
29 48 0.89
30 5 0.09
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (29 bp):
CTGATTGATTTTAAATTGAATAAATTATT
Found at i:8323120 original size:24 final size:24
Alignment explanation
Indices: 8323088--8323133 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
8323078 TGTAAAAACA
*
8323088 AAAATAAAAACAACTAAGCCTATG
1 AAAATAAAAACAACTAAACCTATG
8323112 AAAATAAAAACAACTAAACCTA
1 AAAATAAAAACAACTAAACCTA
8323134 AAATACAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.63, C:0.17, G:0.04, T:0.15
Consensus pattern (24 bp):
AAAATAAAAACAACTAAACCTATG
Found at i:8328554 original size:23 final size:22
Alignment explanation
Indices: 8328518--8328561 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
8328508 TAAATATTTC
*
8328518 ATTAAATAATTTGGGTTGAATTA
1 ATTAAATAAATTGGGTT-AATTA
*
8328541 ATTAATTAAATTGGGTTAATT
1 ATTAAATAAATTGGGTTAATT
8328562 TTATTTCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (22 bp):
ATTAAATAAATTGGGTTAATTA
Found at i:8336540 original size:8 final size:9
Alignment explanation
Indices: 8336516--8336540 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
8336506 TAAATTGCTC
8336516 AAATTTTTA
1 AAATTTTTA
8336525 AAATTTTTA
1 AAATTTTTA
8336534 AAATTTT
1 AAATTTT
8336541 CAAGTATGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
AAATTTTTA
Found at i:8343763 original size:16 final size:17
Alignment explanation
Indices: 8343730--8343770 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
8343720 GAAGTAGAAC
*
8343730 AAGAAGAAGGCCAAGAG
1 AAGAAGAAGGCAAAGAG
8343747 AAGAAGAAGG-AAAGAG
1 AAGAAGAAGGCAAAGAG
*
8343763 AGGAAGAA
1 AAGAAGAA
8343771 TTTGAGAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.59, C:0.05, G:0.37, T:0.00
Consensus pattern (17 bp):
AAGAAGAAGGCAAAGAG
Found at i:8344884 original size:15 final size:15
Alignment explanation
Indices: 8344862--8344902 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
8344852 AAATCACAAA
*
8344862 AAGAAAAAAGAAGAAG
1 AAGAAAATAGAA-AAG
8344878 AAGAAAATAGAAAAG
1 AAGAAAATAGAAAAG
8344893 AAGAGAAATA
1 AAGA-AAATA
8344903 TATTGCAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.73, C:0.00, G:0.22, T:0.05
Consensus pattern (15 bp):
AAGAAAATAGAAAAG
Found at i:8350066 original size:21 final size:20
Alignment explanation
Indices: 8350042--8350142 Score: 58
Period size: 21 Copynumber: 5.3 Consensus size: 20
8350032 AAGCTTACTA
8350042 GGCACATAGCCTGAACACACC
1 GGCACATAGCCTGAACACA-C
*
8350063 GGCACAAAGCC----CACTA-
1 GGCACATAGCCTGAACAC-AC
*
8350079 GGCACATAGCCTGAATACACC
1 GGCACATAGCCTGAACACA-C
* * *
8350100 GACACAAAGCCT--AC-TA-
1 GGCACATAGCCTGAACACAC
8350116 GGCACATAGCCTGAACACAC
1 GGCACATAGCCTGAACACAC
8350136 TGGCACA
1 -GGCACA
8350143 AAGCTAACTA
Statistics
Matches: 58, Mismatches: 10, Indels: 24
0.63 0.11 0.26
Matches are distributed among these distances:
16 20 0.34
17 3 0.05
18 4 0.07
19 3 0.05
20 2 0.03
21 26 0.45
ACGTcount: A:0.36, C:0.35, G:0.19, T:0.11
Consensus pattern (20 bp):
GGCACATAGCCTGAACACAC
Found at i:8350088 original size:37 final size:37
Alignment explanation
Indices: 8350022--8350202 Score: 229
Period size: 37 Copynumber: 4.9 Consensus size: 37
8350012 TTCTTGAATG
* * *
8350022 CACCAGCACGAAGCTTACTAGGCACATAGCCTGAACA
1 CACCGGCACAAAGCCTACTAGGCACATAGCCTGAACA
* *
8350059 CACCGGCACAAAGCCCACTAGGCACATAGCCTGAATA
1 CACCGGCACAAAGCCTACTAGGCACATAGCCTGAACA
*
8350096 CACCGACACAAAGCCTACTAGGCACATAGCCTGAACA
1 CACCGGCACAAAGCCTACTAGGCACATAGCCTGAACA
* * * *
8350133 CACTGGCACAAAG-CTAACTAGGCACATTGTCTGAATA
1 CACCGGCACAAAGCCT-ACTAGGCACATAGCCTGAACA
* * *
8350170 CACCAGCATAAAGCCTACTCGGCACATAGCCTG
1 CACCGGCACAAAGCCTACTAGGCACATAGCCTG
8350203 TATACTTAGA
Statistics
Matches: 123, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
36 2 0.02
37 119 0.97
38 2 0.02
ACGTcount: A:0.35, C:0.33, G:0.18, T:0.14
Consensus pattern (37 bp):
CACCGGCACAAAGCCTACTAGGCACATAGCCTGAACA
Found at i:8350141 original size:74 final size:74
Alignment explanation
Indices: 8350016--8350202 Score: 268
Period size: 74 Copynumber: 2.5 Consensus size: 74
8350006 CATTCATTCT
* * * *
8350016 TGAATGCACCAGCACGAAGCTTACTAGGCACATAGCCTGAACACACCGGCACAAAGCCCACTAGG
1 TGAATACACCAGCACAAAGCCTACTAGGCACATAGCCTGAACACACCGGCACAAAGCCAACTAGG
8350081 CACATAGCC
66 CACATAGCC
* *
8350090 TGAATACACC-GACACAAAGCCTACTAGGCACATAGCCTGAACACACTGGCACAAAGCTAACTAG
1 TGAATACACCAG-CACAAAGCCTACTAGGCACATAGCCTGAACACACCGGCACAAAGCCAACTAG
* *
8350154 GCACATTGTC
65 GCACATAGCC
* *
8350164 TGAATACACCAGCATAAAGCCTACTCGGCACATAGCCTG
1 TGAATACACCAGCACAAAGCCTACTAGGCACATAGCCTG
8350203 TATACTTAGA
Statistics
Matches: 101, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
73 1 0.01
74 99 0.98
75 1 0.01
ACGTcount: A:0.35, C:0.32, G:0.19, T:0.15
Consensus pattern (74 bp):
TGAATACACCAGCACAAAGCCTACTAGGCACATAGCCTGAACACACCGGCACAAAGCCAACTAGG
CACATAGCC
Found at i:8352457 original size:64 final size:64
Alignment explanation
Indices: 8352353--8352481 Score: 222
Period size: 64 Copynumber: 2.0 Consensus size: 64
8352343 GCCAATTTTT
* * * *
8352353 CTAATGAATAATCCATTTGTACAGGTATAATATGCGCTGTCTTCATCAAATGATCTACCACAAC
1 CTAATGAACAATCCATTCGTACAGGTATAAAATGCACTGTCTTCATCAAATGATCTACCACAAC
8352417 CTAATGAACAATCCATTCGTACAGGTATAAAATGCACTGTCTTCATCAAATGATCTACCACAAC
1 CTAATGAACAATCCATTCGTACAGGTATAAAATGCACTGTCTTCATCAAATGATCTACCACAAC
8352481 C
1 C
8352482 CATATAGGAT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.29
Consensus pattern (64 bp):
CTAATGAACAATCCATTCGTACAGGTATAAAATGCACTGTCTTCATCAAATGATCTACCACAAC
Found at i:8357432 original size:37 final size:37
Alignment explanation
Indices: 8357378--8357578 Score: 271
Period size: 37 Copynumber: 5.5 Consensus size: 37
8357368 CTAGCACGAT
* * *
8357378 GCCTACTAGGCACATAGCCTAAACGCACAGGCACAAA
1 GCCTACTAGGCACATAGCCTGAACACACCGGCACAAA
* * *
8357415 GCCTACTAGGCATATAGCCTGAATACACCGGCATAAA
1 GCCTACTAGGCACATAGCCTGAACACACCGGCACAAA
* *
8357452 GCCTACTAGGCACATAACCTGAACACACCAGCACAAA
1 GCCTACTAGGCACATAGCCTGAACACACCGGCACAAA
*
8357489 GCCTGCTAGGCACATAGCCTG-A-ACACCGGCACAAA
1 GCCTACTAGGCACATAGCCTGAACACACCGGCACAAA
* * *
8357524 GCCTACTAGGCATATCGCCTGAATACACCGGCACAAA
1 GCCTACTAGGCACATAGCCTGAACACACCGGCACAAA
*
8357561 GCCTACTAGGCATATAGC
1 GCCTACTAGGCACATAGC
8357579 TTGTATACTT
Statistics
Matches: 144, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
35 30 0.21
36 2 0.01
37 112 0.78
ACGTcount: A:0.35, C:0.32, G:0.19, T:0.14
Consensus pattern (37 bp):
GCCTACTAGGCACATAGCCTGAACACACCGGCACAAA
Found at i:8357545 original size:72 final size:74
Alignment explanation
Indices: 8357378--8357578 Score: 282
Period size: 72 Copynumber: 2.7 Consensus size: 74
8357368 CTAGCACGAT
* *
8357378 GCCTACTAGGCACATAGCCTAAACGCA-CAGGCACAAAGCCTACTAGGCATATAGCCTGAATACA
1 GCCTACTAGGCACATAGCCTGAACACACCA-GCACAAAGCCTACTAGGCATATAGCCTGAATACA
*
8357442 CCGGCATAAA
65 CCGGCACAAA
* * *
8357452 GCCTACTAGGCACATAACCTGAACACACCAGCACAAAGCCTGCTAGGCACATAGCCTG-A-ACAC
1 GCCTACTAGGCACATAGCCTGAACACACCAGCACAAAGCCTACTAGGCATATAGCCTGAATACAC
8357515 CGGCACAAA
66 CGGCACAAA
* * * *
8357524 GCCTACTAGGCATATCGCCTGAATACACCGGCACAAAGCCTACTAGGCATATAGC
1 GCCTACTAGGCACATAGCCTGAACACACCAGCACAAAGCCTACTAGGCATATAGC
8357579 TTGTATACTT
Statistics
Matches: 113, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
72 60 0.53
73 1 0.01
74 50 0.44
75 2 0.02
ACGTcount: A:0.35, C:0.32, G:0.19, T:0.14
Consensus pattern (74 bp):
GCCTACTAGGCACATAGCCTGAACACACCAGCACAAAGCCTACTAGGCATATAGCCTGAATACAC
CGGCACAAA
Found at i:8361848 original size:19 final size:20
Alignment explanation
Indices: 8361812--8361850 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
8361802 TAAAATCGAT
8361812 TAAACAATAATTTGGAAAAA
1 TAAACAATAATTTGGAAAAA
* *
8361832 TAAA-AATATTTTTGAAAAA
1 TAAACAATAATTTGGAAAAA
8361851 ATAATTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.31
Consensus pattern (20 bp):
TAAACAATAATTTGGAAAAA
Found at i:8364906 original size:41 final size:41
Alignment explanation
Indices: 8364798--8365242 Score: 524
Period size: 41 Copynumber: 10.9 Consensus size: 41
8364788 GCAAAAGATA
* * * * *
8364798 GAGCAACAGCGGCACTTAT-GGAAAAGCACCGCTACAGAT-G
1 GAGCAATAGCGGCGCTTATAGG-AAAGCGCCGCTAAAGGTCG
* * *
8364838 GAGCAATAGCGGCGTTTAT-GGAGAAGCGCCGCTAAAGATCA
1 GAGCAATAGCGGCGCTTATAGGA-AAGCGCCGCTAAAGGTCG
* * *
8364879 GAGTAATAGCGGCGCTTATATGAAAGCGCCGCTGAAGGTCG
1 GAGCAATAGCGGCGCTTATAGGAAAGCGCCGCTAAAGGTCG
* *
8364920 GAGCAATAGCGGCGCTTAT-GGAGAAGCACCGCTAAAGATCG
1 GAGCAATAGCGGCGCTTATAGGA-AAGCGCCGCTAAAGGTCG
* *
8364961 GAGCAATAGCGACGCTTATAAGAATA-CGCCGCTAAAGGTCG
1 GAGCAATAGCGGCGCTTATAGGAA-AGCGCCGCTAAAGGTCG
* * *
8365002 AAGCAATAGCGGCGCTTATAAGAAATCGCCGCTAAAGGTCG
1 GAGCAATAGCGGCGCTTATAGGAAAGCGCCGCTAAAGGTCG
* * * *
8365043 GAGCAATAGTGGCGCTTATGGGAAAGCACCGCTAAAGGTCT
1 GAGCAATAGCGGCGCTTATAGGAAAGCGCCGCTAAAGGTCG
*
8365084 GAGCAATAGCGGCGCTTATAAGAAAGCGCCGCTAAAGGTCG
1 GAGCAATAGCGGCGCTTATAGGAAAGCGCCGCTAAAGGTCG
* * *
8365125 GAGCAATAGCGGCGCTTAT-GAGAAATCGCTGCTAAAGGTTG
1 GAGCAATAGCGGCGCTTATAG-GAAAGCGCCGCTAAAGGTCG
* * *
8365166 GAGAAATAGCGGCGCTTATGGGAAAGCGCCGCTAAAGTTCG
1 GAGCAATAGCGGCGCTTATAGGAAAGCGCCGCTAAAGGTCG
* *
8365207 GAGCAATAGCGACGCTTATGGGAAAGCGCCGCTAAA
1 GAGCAATAGCGGCGCTTATAGGAAAGCGCCGCTAAA
8365243 ATTTTTACAT
Statistics
Matches: 350, Mismatches: 46, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
39 1 0.00
40 35 0.10
41 308 0.88
42 6 0.02
ACGTcount: A:0.31, C:0.21, G:0.31, T:0.17
Consensus pattern (41 bp):
GAGCAATAGCGGCGCTTATAGGAAAGCGCCGCTAAAGGTCG
Found at i:8365016 original size:123 final size:122
Alignment explanation
Indices: 8364798--8365242 Score: 585
Period size: 123 Copynumber: 3.6 Consensus size: 122
8364788 GCAAAAGATA
* * * * * * *
8364798 GAGCAACAGCGGCACTTATGGAAAAGCACCGCTACAGAT-GGAGCAATAGCGGCGTTTAT-GGAG
1 GAGCAATAGCGGCGCTTATGGGAAAGCACCGCTAAAGATCGGAGCAATAGCGACGCTTATAAGA-
* * * *
8364861 AAGCGCCGCTAAAGATC-AGAGTAATAGCGGCGCTTATATGAAAGCGCCGCTGAAGGTCG
65 AAGCGCCGCTAAAGGTCGA-AGCAATAGCGGCGCTTATA-GAAATCGCCGCTAAAGGTCG
8364920 GAGCAATAGCGGCGCTTAT-GGAGAAGCACCGCTAAAGATCGGAGCAATAGCGACGCTTATAAGA
1 GAGCAATAGCGGCGCTTATGGGA-AAGCACCGCTAAAGATCGGAGCAATAGCGACGCTTATAAGA
8364984 ATA-CGCCGCTAAAGGTCGAAGCAATAGCGGCGCTTATAAGAAATCGCCGCTAAAGGTCG
65 A-AGCGCCGCTAAAGGTCGAAGCAATAGCGGCGCTTAT-AGAAATCGCCGCTAAAGGTCG
* * * *
8365043 GAGCAATAGTGGCGCTTATGGGAAAGCACCGCTAAAGGTCTGAGCAATAGCGGCGCTTATAAGAA
1 GAGCAATAGCGGCGCTTATGGGAAAGCACCGCTAAAGATCGGAGCAATAGCGACGCTTATAAGAA
* * *
8365108 AGCGCCGCTAAAGGTCGGAGCAATAGCGGCGCTTATGAGAAATCGCTGCTAAAGGTTG
66 AGCGCCGCTAAAGGTCGAAGCAATAGCGGCGCTTAT-AGAAATCGCCGCTAAAGGTCG
* * * **
8365166 GAGAAATAGCGGCGCTTATGGGAAAGCGCCGCTAAAGTTCGGAGCAATAGCGACGCTTATGGGAA
1 GAGCAATAGCGGCGCTTATGGGAAAGCACCGCTAAAGATCGGAGCAATAGCGACGCTTATAAGAA
8365231 AGCGCCGCTAAA
66 AGCGCCGCTAAA
8365243 ATTTTTACAT
Statistics
Matches: 288, Mismatches: 27, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
121 2 0.01
122 33 0.11
123 245 0.85
124 8 0.03
ACGTcount: A:0.31, C:0.21, G:0.31, T:0.17
Consensus pattern (122 bp):
GAGCAATAGCGGCGCTTATGGGAAAGCACCGCTAAAGATCGGAGCAATAGCGACGCTTATAAGAA
AGCGCCGCTAAAGGTCGAAGCAATAGCGGCGCTTATAGAAATCGCCGCTAAAGGTCG
Found at i:8365331 original size:15 final size:15
Alignment explanation
Indices: 8365308--8365345 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
8365298 ATAGATTTCG
*
8365308 AAATTCCTAAATTCT
1 AAATCCCTAAATTCT
*
8365323 AAATCCCTAATTTCT
1 AAATCCCTAAATTCT
8365338 AAATCCCT
1 AAATCCCT
8365346 CTCCTCCTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.37, C:0.26, G:0.00, T:0.37
Consensus pattern (15 bp):
AAATCCCTAAATTCT
Found at i:8367347 original size:65 final size:66
Alignment explanation
Indices: 8367242--8367388 Score: 215
Period size: 65 Copynumber: 2.2 Consensus size: 66
8367232 CAAATTGCTC
* * *
8367242 AACTTAAAGAGGAGGCTGCAGCAAGAGAAGCAGAGGCTCAAAAAAAA-ATGACGAACTCCATCTA
1 AACTTAAAGAGGAGGCTACAGCAAGAGAAGCAGAGGCTCAAAAAAAATATGAAGAACTCCACCTA
8367306 A
66 A
** *
8367307 AACTTAAAGAGGAGGCTACAGTGAGAGAAGCAGAGTCTCAAAAAAAATATGAAGAACTCCACCTA
1 AACTTAAAGAGGAGGCTACAGCAAGAGAAGCAGAGGCTCAAAAAAAATATGAAGAACTCCACCTA
*
8367372 C
66 A
*
8367373 AACTTAAAGTGGAGGC
1 AACTTAAAGAGGAGGC
8367389 AGCGGCGAGG
Statistics
Matches: 73, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
65 43 0.59
66 30 0.41
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (66 bp):
AACTTAAAGAGGAGGCTACAGCAAGAGAAGCAGAGGCTCAAAAAAAATATGAAGAACTCCACCTA
A
Found at i:8367410 original size:21 final size:21
Alignment explanation
Indices: 8367384--8367423 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8367374 ACTTAAAGTG
* *
8367384 GAGGCAGCGGCGAGGCAAGAA
1 GAGGCAACAGCGAGGCAAGAA
8367405 GAGGCAACAGCGAGGCAAG
1 GAGGCAACAGCGAGGCAAG
8367424 CGAAGGAAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.20, G:0.45, T:0.00
Consensus pattern (21 bp):
GAGGCAACAGCGAGGCAAGAA
Found at i:8367656 original size:15 final size:15
Alignment explanation
Indices: 8367636--8367664 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
8367626 ATTTGAAGTT
8367636 ATTGGTTGGATTTGC
1 ATTGGTTGGATTTGC
8367651 ATTGGTTGGATTTG
1 ATTGGTTGGATTTG
8367665 AATTTACAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.03, G:0.34, T:0.48
Consensus pattern (15 bp):
ATTGGTTGGATTTGC
Found at i:8367799 original size:43 final size:42
Alignment explanation
Indices: 8367733--8367873 Score: 228
Period size: 43 Copynumber: 3.3 Consensus size: 42
8367723 ATCTGTTATA
* *
8367733 TTAGCGGCGCTTTTGGAATAAGCGCCGCTAAAGAACATGGTCT
1 TTAGCGGCGCTTGTGGAA-AAGCGCCGCTAAAGAACATGGCCT
8367776 TTAGCGGCGCTTGTGGAGAAAGCGCCGCTAAAGAACATGGCCT
1 TTAGCGGCGCTTGTGGA-AAAGCGCCGCTAAAGAACATGGCCT
*
8367819 TTCGCGGCGCTTGTGGAAAAAGCGCCGCTAAAGAACATGGCCT
1 TTAGCGGCGCTTGTGG-AAAAGCGCCGCTAAAGAACATGGCCT
8367862 TTAGCGGCGCTT
1 TTAGCGGCGCTT
8367874 TTTCGCATAA
Statistics
Matches: 92, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
43 90 0.98
44 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.22
Consensus pattern (42 bp):
TTAGCGGCGCTTGTGGAAAAGCGCCGCTAAAGAACATGGCCT
Found at i:8371053 original size:21 final size:21
Alignment explanation
Indices: 8371023--8371065 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
8371013 ATAAACAATA
* *
8371023 TAATGGTTTTGCCTTTTAATT
1 TAATGATTTTGACTTTTAATT
8371044 TAATGATTTTGACTTTTAATT
1 TAATGATTTTGACTTTTAATT
8371065 T
1 T
8371066 TAGAAAAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.07, G:0.12, T:0.58
Consensus pattern (21 bp):
TAATGATTTTGACTTTTAATT
Found at i:8373525 original size:38 final size:39
Alignment explanation
Indices: 8373480--8373579 Score: 130
Period size: 39 Copynumber: 2.6 Consensus size: 39
8373470 GAAATCCTTG
* *
8373480 TTATAATTATTGTAATTATAATTTAT-GATCGAATATTA
1 TTATAATTATTGTAATTATAATTTATCGATCAAACATTA
* * *
8373518 TTATAATTATTGTAATTGTAATTTTTCGGTCAAACATTA
1 TTATAATTATTGTAATTATAATTTATCGATCAAACATTA
* *
8373557 TTATAATTATGGTAAATATAATT
1 TTATAATTATTGTAATTATAATT
8373580 ATTATATTCT
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
38 24 0.45
39 29 0.55
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.49
Consensus pattern (39 bp):
TTATAATTATTGTAATTATAATTTATCGATCAAACATTA
Found at i:8377813 original size:20 final size:20
Alignment explanation
Indices: 8377776--8377828 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
8377766 CTCCAATGAG
* *
8377776 ACTTCTATCGATAGAACTCC
1 ACTTCTACCGATAGAACTAC
8377796 ACTTCTACCGAT-GCAACTAC
1 ACTTCTACCGATAG-AACTAC
* *
8377816 AGTTCTACTGATA
1 ACTTCTACCGATA
8377829 CCTTGAAGAC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.30, C:0.28, G:0.11, T:0.30
Consensus pattern (20 bp):
ACTTCTACCGATAGAACTAC
Found at i:8379546 original size:9 final size:9
Alignment explanation
Indices: 8379534--8379558 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
8379524 ACATTGAAGA
8379534 AAGTGAATC
1 AAGTGAATC
8379543 AAGTGAATC
1 AAGTGAATC
8379552 AAGTGAA
1 AAGTGAA
8379559 GAGGTGGATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.08, G:0.24, T:0.20
Consensus pattern (9 bp):
AAGTGAATC
Found at i:8380751 original size:33 final size:33
Alignment explanation
Indices: 8380686--8380751 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
8380676 ATATTTATGC
* * *
8380686 CTTAAATTGAAAATGATTTTTATATAGGGGGAG
1 CTTAAATTCAAAATGACTTTTATATAGAGGGAG
*
8380719 CTTAATTTCAAAATGACTTTTAT-TAAGAGGGAG
1 CTTAAATTCAAAATGACTTTTATAT-AGAGGGAG
8380752 AAATCTATTC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 1 0.04
33 27 0.96
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.36
Consensus pattern (33 bp):
CTTAAATTCAAAATGACTTTTATATAGAGGGAG
Found at i:8380935 original size:20 final size:20
Alignment explanation
Indices: 8380898--8380950 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
8380888 CTCCAATGAG
* *
8380898 ACTTCTATCGATAGAACTCC
1 ACTTCTACCGATAGAACTAC
8380918 ACTTCTACCGAT-GCAACTAC
1 ACTTCTACCGATAG-AACTAC
* *
8380938 AGTTCTACTGATA
1 ACTTCTACCGATA
8380951 CCTTGAAGAC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.30, C:0.28, G:0.11, T:0.30
Consensus pattern (20 bp):
ACTTCTACCGATAGAACTAC
Found at i:8390400 original size:15 final size:15
Alignment explanation
Indices: 8390372--8390414 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
8390362 TTTCACCTCA
*
8390372 AGTCC-TTAAAATTT
1 AGTCCTTTAACATTT
*
8390386 ATTCCTTTAACATTTT
1 AGTCCTTTAACA-TTT
8390402 AGTCCTTTAACAT
1 AGTCCTTTAACAT
8390415 AAAAATTACC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 4 0.17
15 6 0.25
16 14 0.58
ACGTcount: A:0.30, C:0.19, G:0.05, T:0.47
Consensus pattern (15 bp):
AGTCCTTTAACATTT
Found at i:8390407 original size:16 final size:16
Alignment explanation
Indices: 8390383--8390414 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
8390373 GTCCTTAAAA
*
8390383 TTTATTCCTTTAACAT
1 TTTAGTCCTTTAACAT
8390399 TTTAGTCCTTTAACAT
1 TTTAGTCCTTTAACAT
8390415 AAAAATTACC
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:0.25, C:0.19, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTAGTCCTTTAACAT
Found at i:8394608 original size:51 final size:51
Alignment explanation
Indices: 8394526--8394706 Score: 263
Period size: 51 Copynumber: 3.5 Consensus size: 51
8394516 TAAACGAAAA
*
8394526 GGTCCGATGACTAATTGTCATCGTGAGTGAATGAATCCTTTATGGATTAAT
1 GGTCCGATGACTAAGTGTCATCGTGAGTGAATGAATCCTTTATGGATTAAT
* *
8394577 GGCCCAATGACTAAGTGTCATCGTGAGTGAATGAATCCTTTATGGATTAAT
1 GGTCCGATGACTAAGTGTCATCGTGAGTGAATGAATCCTTTATGGATTAAT
* * * * * *
8394628 GGTTCGATGATTAAGTGTCATCGTGAATAAATAAATCCTTTATGGATTAAA
1 GGTCCGATGACTAAGTGTCATCGTGAGTGAATGAATCCTTTATGGATTAAT
* *
8394679 GATCCGATGACTAAGTGTCATCATGAGT
1 GGTCCGATGACTAAGTGTCATCGTGAGT
8394707 TTATGGATTC
Statistics
Matches: 114, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 114 1.00
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (51 bp):
GGTCCGATGACTAAGTGTCATCGTGAGTGAATGAATCCTTTATGGATTAAT
Found at i:8397723 original size:38 final size:38
Alignment explanation
Indices: 8397675--8397751 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
8397665 AATGGGTAAA
*
8397675 GAGTTTGTCGTATACAGTGATGCATCTCTAAATGGCTT
1 GAGTTAGTCGTATACAGTGATGCATCTCTAAATGGCTT
8397713 GAGTTAGTCGTATACAGTGATGCATCTCTAAATGGCTT
1 GAGTTAGTCGTATACAGTGATGCATCTCTAAATGGCTT
8397751 G
1 G
8397752 GGTTTGTATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.35
Consensus pattern (38 bp):
GAGTTAGTCGTATACAGTGATGCATCTCTAAATGGCTT
Found at i:8400871 original size:51 final size:51
Alignment explanation
Indices: 8400790--8400970 Score: 254
Period size: 51 Copynumber: 3.5 Consensus size: 51
8400780 TAAACGAAAG
* * *
8400790 GGTCTGATGACTAAGTGTCATCGTGAGTGAATGAATCCTTTATGGGTTAAT
1 GGTCCGATGACTAAGTGTCATCATGAGTGAATGAATCCTTTATGGATTAAT
* * *
8400841 GGTCCGATGACTAAGTATCATCGTGAGTGAATGAATCCTTCATGGATTAAT
1 GGTCCGATGACTAAGTGTCATCATGAGTGAATGAATCCTTTATGGATTAAT
* * * *
8400892 GGTCCGATGACTAAGTGTCATCATGAGTAAATAAATTCTTTATGGATTAAA
1 GGTCCGATGACTAAGTGTCATCATGAGTGAATGAATCCTTTATGGATTAAT
* *
8400943 GATCCGATGAATAAGTGTCATCATGAGT
1 GGTCCGATGACTAAGTGTCATCATGAGT
8400971 TTATGGATTC
Statistics
Matches: 117, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 117 1.00
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.33
Consensus pattern (51 bp):
GGTCCGATGACTAAGTGTCATCATGAGTGAATGAATCCTTTATGGATTAAT
Found at i:8401752 original size:21 final size:19
Alignment explanation
Indices: 8401722--8401774 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 19
8401712 GGAGTTTTTA
*
8401722 GTATCAGTAGATTCATGACAT
1 GTATCGGTAGATT-AT-ACAT
*
8401743 GTATCGGTAGAAATTATACTT
1 GTATCGGTAG--ATTATACAT
8401764 GTATCGGTAGA
1 GTATCGGTAGA
8401775 ACTAGTACAG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
19 1 0.04
21 22 0.79
22 2 0.07
23 3 0.11
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (19 bp):
GTATCGGTAGATTATACAT
Found at i:8403976 original size:80 final size:80
Alignment explanation
Indices: 8403753--8403959 Score: 317
Period size: 80 Copynumber: 2.6 Consensus size: 80
8403743 ACGATCCTAA
* *
8403753 CACCCAGTGTCTAGCGGATAAATCGCAAAAGTGAGCCCAGCACTAGTTGGATTAACCAACAAATA
1 CACCCAGTGTCTAGCGGATAAACCGCAAAAGTGAGCCCAGCTCTAGTTGGATTAACCAACAAATA
8403818 TCCATCAAATCTTGG
66 TCCATCAAATCTTGG
* * * ** *
8403833 CACCTAGTGCCTAACGGATAAACTACAAAAGTGAGTCCAGCTCTAGTTGGATTAACCAACAAATA
1 CACCCAGTGTCTAGCGGATAAACCGCAAAAGTGAGCCCAGCTCTAGTTGGATTAACCAACAAATA
8403898 TCCGA-CAAATCTTGG
66 TCC-ATCAAATCTTGG
*
8403913 CACCCAGTGTCTAGCGGATAAACCGCAAAACTGAGCCCAGCTCTAGT
1 CACCCAGTGTCTAGCGGATAAACCGCAAAAGTGAGCCCAGCTCTAGT
8403960 CAGTTAAACT
Statistics
Matches: 111, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
80 110 0.99
81 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (80 bp):
CACCCAGTGTCTAGCGGATAAACCGCAAAAGTGAGCCCAGCTCTAGTTGGATTAACCAACAAATA
TCCATCAAATCTTGG
Found at i:8404240 original size:2 final size:2
Alignment explanation
Indices: 8404233--8404280 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
8404223 CTATTCCATA
8404233 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8404275 AT AT AT
1 AT AT AT
8404281 TGATTTGACT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8412982 original size:22 final size:22
Alignment explanation
Indices: 8412952--8412998 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
8412942 TTTAAAATGA
* *
8412952 AAAATTTTTTTATTTAAATTTTT
1 AAAATTTTTTT-TCTAAAATTTT
8412975 AAAA-TTTTTTTCTAAAATTTT
1 AAAATTTTTTTTCTAAAATTTT
8412996 AAA
1 AAA
8412999 TTAGTAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 12 0.55
22 6 0.27
23 4 0.18
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
AAAATTTTTTTTCTAAAATTTT
Found at i:8414145 original size:13 final size:13
Alignment explanation
Indices: 8414110--8414147 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
8414100 ATGCAAAACA
*
8414110 AAAAAAAATAAAG
1 AAAAAAAATCAAG
8414123 AAAAAAAATCAAG
1 AAAAAAAATCAAG
*
8414136 AAAGAAAATCAA
1 AAAAAAAATCAA
8414148 AACAAGTAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.79, C:0.05, G:0.08, T:0.08
Consensus pattern (13 bp):
AAAAAAAATCAAG
Found at i:8415834 original size:9 final size:9
Alignment explanation
Indices: 8415822--8415852 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
8415812 ACCCAAAAAC
8415822 CTTCATCAT
1 CTTCATCAT
*
8415831 CTTCATCTT
1 CTTCATCAT
8415840 CTTCATCAT
1 CTTCATCAT
8415849 CTTC
1 CTTC
8415853 TCCAAACGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.16, C:0.35, G:0.00, T:0.48
Consensus pattern (9 bp):
CTTCATCAT
Found at i:8416626 original size:23 final size:23
Alignment explanation
Indices: 8416600--8417007 Score: 591
Period size: 23 Copynumber: 17.7 Consensus size: 23
8416590 TTCTTATATC
*
8416600 TGTGCTTAAATATTAATATGATT
1 TGTGCTTAAATATTAATGTGATT
*
8416623 TGTGCTCAAATATTAATGTGATT
1 TGTGCTTAAATATTAATGTGATT
*
8416646 TGTGCTTAAATATTAATATGATT
1 TGTGCTTAAATATTAATGTGATT
* *
8416669 TGTACTCAAATATTAATGTGATT
1 TGTGCTTAAATATTAATGTGATT
*
8416692 TATGCTTAAATATTAATGTGATT
1 TGTGCTTAAATATTAATGTGATT
*
8416715 TGTGCTCAAATATTAATGTGATT
1 TGTGCTTAAATATTAATGTGATT
* * * *
8416738 TATGTTTAAATGTTAATCTGATT
1 TGTGCTTAAATATTAATGTGATT
* **
8416761 TGTGTTTAAATATTAATAAGATT
1 TGTGCTTAAATATTAATGTGATT
**
8416784 TGAACTTAAATATTAATGTGATT
1 TGTGCTTAAATATTAATGTGATT
*
8416807 TGTGTTTAAATATTAATGTGATT
1 TGTGCTTAAATATTAATGTGATT
* *
8416830 TGTGCTTAAATATTAATATTATT
1 TGTGCTTAAATATTAATGTGATT
8416853 TGTGCTTAAATATTAATGTGATT
1 TGTGCTTAAATATTAATGTGATT
8416876 TGTGCTTAAATATTAATGTGATT
1 TGTGCTTAAATATTAATGTGATT
* *
8416899 TGTACTTAAATATTAATATGATT
1 TGTGCTTAAATATTAATGTGATT
8416922 TGTGCTTAAATATTAATGTGATT
1 TGTGCTTAAATATTAATGTGATT
* * *
8416945 TATGCTTAAATAGTAATGTGCTT
1 TGTGCTTAAATATTAATGTGATT
8416968 TGTGCTTAAATATTAATGTGATT
1 TGTGCTTAAATATTAATGTGATT
*
8416991 TGTGATTAAATATTAAT
1 TGTGCTTAAATATTAAT
8417008 ATGAAATTGT
Statistics
Matches: 340, Mismatches: 45, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 340 1.00
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.47
Consensus pattern (23 bp):
TGTGCTTAAATATTAATGTGATT
Found at i:8421232 original size:18 final size:18
Alignment explanation
Indices: 8421186--8421233 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
8421176 GTCAATGGTT
*
8421186 CGGGTCGGGTCAAGCTCA
1 CGGGTTGGGTCAAGCTCA
* *
8421204 CGGATCT-GGTCAGGCTCA
1 CGGGT-TGGGTCAAGCTCA
8421222 CGGGTTGGGTCA
1 CGGGTTGGGTCA
8421234 CATTGTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
17 1 0.04
18 23 0.96
ACGTcount: A:0.15, C:0.25, G:0.40, T:0.21
Consensus pattern (18 bp):
CGGGTTGGGTCAAGCTCA
Found at i:8424491 original size:26 final size:26
Alignment explanation
Indices: 8424462--8424514 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
8424452 TCTTCCAAGA
8424462 AGGGTTATAAAATGTTAGGAATAGAT
1 AGGGTTATAAAATGTTAGGAATAGAT
*
8424488 AGGGTTGTAAAATGTTAGGAATAGAT
1 AGGGTTATAAAATGTTAGGAATAGAT
8424514 A
1 A
8424515 CTGTCATGGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.28, T:0.30
Consensus pattern (26 bp):
AGGGTTATAAAATGTTAGGAATAGAT
Found at i:8443108 original size:28 final size:28
Alignment explanation
Indices: 8443063--8443229 Score: 79
Period size: 28 Copynumber: 6.0 Consensus size: 28
8443053 AATGTTTGCC
* *
8443063 CTTTTTAAAGGTACACCATAAAGTCTTT
1 CTTTTTAAAGGTACACCACAAAGGCTTT
**
8443091 CTTTTTAAAGGTTTACCACAAAGGCTTT
1 CTTTTTAAAGGTACACCACAAAGGCTTT
* * * ** *
8443119 CCTTTCAAAGAT-TTCCACGAAGGAC-TT
1 CTTTTTAAAGGTACACCACAAAGG-CTTT
* * * *
8443146 CCTTTTAGAGATTCACCACAAAGGCTTT
1 CTTTTTAAAGGTACACCACAAAGGCTTT
* * * * *
8443174 CATTTTAGAGAT-TACCACGAAGGCTTT
1 CTTTTTAAAGGTACACCACAAAGGCTTT
* * * * * *
8443201 CCTATCAAAGATTCGCCACAAAGGCTTT
1 CTTTTTAAAGGTACACCACAAAGGCTTT
8443229 C
1 C
8443230 CTTTCCTAAC
Statistics
Matches: 111, Mismatches: 24, Indels: 8
0.78 0.17 0.06
Matches are distributed among these distances:
27 43 0.39
28 68 0.61
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (28 bp):
CTTTTTAAAGGTACACCACAAAGGCTTT
Found at i:8443164 original size:55 final size:55
Alignment explanation
Indices: 8443105--8443234 Score: 172
Period size: 55 Copynumber: 2.4 Consensus size: 55
8443095 TTAAAGGTTT
* * * *
8443105 ACCACAAAGGCTTTCCTTTCAAAGATTTCCACGAAGGAC-TTCCTTTTAGAGATTC
1 ACCACAAAGGCTTTCCTTTCAAAGATTACCACGAAGG-CTTTCCTATCAAAGATTC
* * *
8443160 ACCACAAAGGCTTTCATTTTAGAGATTACCACGAAGGCTTTCCTATCAAAGATTC
1 ACCACAAAGGCTTTCCTTTCAAAGATTACCACGAAGGCTTTCCTATCAAAGATTC
*
8443215 GCCACAAAGGCTTTCCTTTC
1 ACCACAAAGGCTTTCCTTTC
8443235 CTAACGTGTT
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 1 0.02
55 63 0.98
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (55 bp):
ACCACAAAGGCTTTCCTTTCAAAGATTACCACGAAGGCTTTCCTATCAAAGATTC
Found at i:8443230 original size:28 final size:27
Alignment explanation
Indices: 8443103--8443234 Score: 140
Period size: 27 Copynumber: 4.8 Consensus size: 27
8443093 TTTTAAAGGT
8443103 TTACCACAAAGGCTTTCCTTTCAAAGA
1 TTACCACAAAGGCTTTCCTTTCAAAGA
* * * *
8443130 TTTCCACGAAGGAC-TTCCTTTTAGAGA
1 TTACCACAAAGG-CTTTCCTTTCAAAGA
* * *
8443157 TTCACCACAAAGGCTTTCATTTTAGAGA
1 TT-ACCACAAAGGCTTTCCTTTCAAAGA
* *
8443185 TTACCACGAAGGCTTTCCTATCAAAGA
1 TTACCACAAAGGCTTTCCTTTCAAAGA
*
8443212 TTCGCCACAAAGGCTTTCCTTTC
1 TT-ACCACAAAGGCTTTCCTTTC
8443235 CTAACGTGTT
Statistics
Matches: 86, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
27 46 0.53
28 40 0.47
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (27 bp):
TTACCACAAAGGCTTTCCTTTCAAAGA
Found at i:8447231 original size:37 final size:37
Alignment explanation
Indices: 8447168--8447280 Score: 138
Period size: 37 Copynumber: 3.1 Consensus size: 37
8447158 GCGTCGCATG
* *
8447168 AATATT-TTCAGAATGCAACCAAGACTATCGCTACATA
1 AATATTCTTCA-ATTGCAACCAGGACTATCGCTACATA
* *
8447205 AATATTCTTCAATTGCATCCAGGACTATCGCTGCATA
1 AATATTCTTCAATTGCAACCAGGACTATCGCTACATA
* * * *
8447242 AGTATTCTTCAATTGCACCCAGGAATGTCGCTACATA
1 AATATTCTTCAATTGCAACCAGGACTATCGCTACATA
8447279 AA
1 AA
8447281 CATGTCCAGA
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
37 61 0.94
38 4 0.06
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (37 bp):
AATATTCTTCAATTGCAACCAGGACTATCGCTACATA
Found at i:8449916 original size:16 final size:15
Alignment explanation
Indices: 8449891--8449924 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
8449881 TCAGTCACAT
*
8449891 AAAAAAAAGAAGAAG
1 AAAAAAAAGAAAAAG
8449906 AAAAGAAAAGAAAAAG
1 AAAA-AAAAGAAAAAG
8449922 AAA
1 AAA
8449925 TATTTTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAAAAAAGAAAAAG
Found at i:8450421 original size:37 final size:38
Alignment explanation
Indices: 8450358--8450430 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
8450348 TTACTATTAA
* **
8450358 TGTCGCTGCATGAGCACTTCTTGATTGTGCCCAAAAAC
1 TGTCGCTGCATGAGCACTTCTGGATTGCACCCAAAAAC
*
8450396 TGTCGCTGCAT-TGCACTTCTGGATTGCACCCAAAA
1 TGTCGCTGCATGAGCACTTCTGGATTGCACCCAAAA
8450431 CTATCATTGC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 20 0.65
38 11 0.35
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (38 bp):
TGTCGCTGCATGAGCACTTCTGGATTGCACCCAAAAAC
Found at i:8450550 original size:37 final size:37
Alignment explanation
Indices: 8450438--8450553 Score: 117
Period size: 37 Copynumber: 3.1 Consensus size: 37
8450428 AAACTATCAT
* * * * *
8450438 TGCATGAATATTTTTGAAATGCATCCAA-GACTGTCGC
1 TGCATAAATATTCTTCAATTGCA-CCAAGGAATGTCGC
* * * *
8450475 TACATAAATATTCTTCAATTGCATCAAGGACTATCGC
1 TGCATAAATATTCTTCAATTGCACCAAGGAATGTCGC
* *
8450512 TGCATAAGTATTCTTCAATTGCACCCAGGAATGTCGC
1 TGCATAAATATTCTTCAATTGCACCAAGGAATGTCGC
8450549 TGCAT
1 TGCAT
8450554 GAACATGTCC
Statistics
Matches: 65, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
36 3 0.05
37 62 0.95
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (37 bp):
TGCATAAATATTCTTCAATTGCACCAAGGAATGTCGC
Found at i:8450572 original size:26 final size:26
Alignment explanation
Indices: 8450543--8450597 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
8450533 CACCCAGGAA
*
8450543 TGTCGCTGCATGAACATGTCCAGAAT
1 TGTCGCTACATGAACATGTCCAGAAT
*
8450569 TGTCGCTACATGAACGTGTCCAGAAT
1 TGTCGCTACATGAACATGTCCAGAAT
8450595 TGT
1 TGT
8450598 GCCCAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (26 bp):
TGTCGCTACATGAACATGTCCAGAAT
Found at i:8454048 original size:31 final size:30
Alignment explanation
Indices: 8454013--8454115 Score: 131
Period size: 28 Copynumber: 3.5 Consensus size: 30
8454003 TCAAATAATT
8454013 TTAAAATTATTAAAATTACTTTTTTAAAATA
1 TTAAAATTATTAAAATTA-TTTTTTAAAATA
* *
8454044 TT-AAATTTTTTAAATTA-TTTTTAAAATA
1 TTAAAATTATTAAAATTATTTTTTAAAATA
*
8454072 -TAAAATTATTAAAATTATTTTTTTGAAATA
1 TTAAAATTATTAAAATTA-TTTTTTAAAATA
*
8454102 ATAAAATTATTAAA
1 TTAAAATTATTAAA
8454116 TAATTTTAAT
Statistics
Matches: 63, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
27 1 0.02
28 24 0.38
30 23 0.37
31 15 0.24
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.50
Consensus pattern (30 bp):
TTAAAATTATTAAAATTATTTTTTAAAATA
Found at i:8454052 original size:16 final size:16
Alignment explanation
Indices: 8454033--8454086 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
8454023 TAAAATTACT
8454033 TTTTTAAAATATTAAA
1 TTTTTAAAATATTAAA
*
8454049 TTTTT-TAA-ATT--A
1 TTTTTAAAATATTAAA
*
8454061 TTTTTAAAATATAAAA
1 TTTTTAAAATATTAAA
*
8454077 TTATTAAAAT
1 TTTTTAAAAT
8454087 TATTTTTTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
12 6 0.20
13 2 0.07
14 5 0.17
15 2 0.07
16 15 0.50
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTTTAAAATATTAAA
Found at i:8462081 original size:15 final size:15
Alignment explanation
Indices: 8462057--8462099 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 15
8462047 CCGTATCAAG
*
8462057 GTCACGATCAATAGC
1 GTCACTATCAATAGC
8462072 GTCACTATCATCAATAGC
1 GTCAC--T-ATCAATAGC
8462090 GTCACTATCA
1 GTCACTATCA
8462100 TCAATATCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
15 9 0.38
16 1 0.04
18 14 0.58
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.26
Consensus pattern (15 bp):
GTCACTATCAATAGC
Found at i:8462086 original size:18 final size:18
Alignment explanation
Indices: 8462063--8462105 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
8462053 CAAGGTCACG
8462063 ATCAATAGCGTCACTATC
1 ATCAATAGCGTCACTATC
8462081 ATCAATAGCGTCACTATC
1 ATCAATAGCGTCACTATC
8462099 ATCAATA
1 ATCAATA
8462106 TCGATATCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.37, C:0.26, G:0.09, T:0.28
Consensus pattern (18 bp):
ATCAATAGCGTCACTATC
Found at i:8471941 original size:23 final size:24
Alignment explanation
Indices: 8471914--8471960 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
8471904 AGTCTCATTT
*
8471914 TTATCGTTATTGTTA-TTA-TTTTC
1 TTATCCTTA-TGTTAGTTACTTTTC
8471937 TTATCCTTATGTTAGTTACTTTTC
1 TTATCCTTATGTTAGTTACTTTTC
8471961 GTTTAAGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 5 0.24
23 11 0.52
24 5 0.24
ACGTcount: A:0.17, C:0.13, G:0.09, T:0.62
Consensus pattern (24 bp):
TTATCCTTATGTTAGTTACTTTTC
Found at i:8474517 original size:13 final size:13
Alignment explanation
Indices: 8474501--8474590 Score: 51
Period size: 13 Copynumber: 6.8 Consensus size: 13
8474491 ACTCAACCCA
8474501 TTGACTTTGACCG
1 TTGACTTTGACCG
* *
8474514 TTGAC-CTGACCCA
1 TTGACTTTGA-CCG
*
8474527 TTGGCTTTGACCCG
1 TTGACTTTGA-CCG
*
8474541 TTGACATGTTGA-CT
1 TTGAC-T-TTGACCG
* *
8474555 TTGATTATTGA-CT
1 TTGACT-TTGACCG
8474568 TTGACTTTGACCG
1 TTGACTTTGACCG
*
8474581 TTGAATTTGA
1 TTGACTTTGA
8474591 ATTTGACCAA
Statistics
Matches: 60, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
12 7 0.12
13 33 0.55
14 15 0.25
15 1 0.02
16 4 0.07
ACGTcount: A:0.19, C:0.20, G:0.21, T:0.40
Consensus pattern (13 bp):
TTGACTTTGACCG
Found at i:8474518 original size:26 final size:27
Alignment explanation
Indices: 8474495--8474545 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
8474485 CCATTGACTC
8474495 AACCCATTGACTTTGA-CCGTTGACCT
1 AACCCATTGACTTTGACCCGTTGACCT
* *
8474521 GACCCATTGGCTTTGACCCGTTGAC
1 AACCCATTGACTTTGACCCGTTGAC
8474546 ATGTTGACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.20, C:0.31, G:0.20, T:0.29
Consensus pattern (27 bp):
AACCCATTGACTTTGACCCGTTGACCT
Found at i:8474584 original size:19 final size:19
Alignment explanation
Indices: 8474531--8474598 Score: 64
Period size: 19 Copynumber: 3.4 Consensus size: 19
8474521 GACCCATTGG
8474531 CTTTGACCCGTTGACATGTTGA
1 CTTTGA-CCGTTGAC-T-TTGA
***
8474553 CTTTGATTATTGACTTTGA
1 CTTTGACCGTTGACTTTGA
*
8474572 CTTTGACCGTTGAATTTGA
1 CTTTGACCGTTGACTTTGA
*
8474591 ATTTGACC
1 CTTTGACC
8474599 AACCTATCCT
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
19 26 0.68
20 1 0.03
21 5 0.13
22 6 0.16
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.43
Consensus pattern (19 bp):
CTTTGACCGTTGACTTTGA
Found at i:8475681 original size:20 final size:20
Alignment explanation
Indices: 8475645--8475683 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
8475635 TTATTAAATT
*
8475645 ATTTTTAGATTGTAATTTTA
1 ATTTTTAGATTGGAATTTTA
8475665 ATTTTTA-ATTTGGAATTTT
1 ATTTTTAGA-TTGGAATTTT
8475684 GAATATTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (20 bp):
ATTTTTAGATTGGAATTTTA
Found at i:8478575 original size:3 final size:3
Alignment explanation
Indices: 8478567--8478603 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
8478557 TGGAAAAAAT
8478567 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
8478604 AACTTGTGGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:8480730 original size:14 final size:14
Alignment explanation
Indices: 8480715--8480762 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
8480705 TGACTCGACT
*
8480715 CGTTGACTTTGACT
1 CGTTGACTTTGACC
*
8480729 CGTTGAC-CTGACC
1 CGTTGACTTTGACC
* *
8480742 CATTGACTTTGCCC
1 CGTTGACTTTGACC
8480756 CGTTGAC
1 CGTTGAC
8480763 CTATTAACTT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
13 10 0.37
14 17 0.63
ACGTcount: A:0.15, C:0.31, G:0.21, T:0.33
Consensus pattern (14 bp):
CGTTGACTTTGACC
Found at i:8490275 original size:23 final size:23
Alignment explanation
Indices: 8490151--8490273 Score: 183
Period size: 23 Copynumber: 5.3 Consensus size: 23
8490141 ATCTTAATTC
8490151 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
8490174 TTTAATCATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
*
8490197 TTTAAGTACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
*
8490220 TTTAAGCACAAATCACATTCATA
1 TTTAAGCACAAATCACATTAATA
* *
8490243 TTTAAACATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
8490266 TTTAAGCA
1 TTTAAGCA
8490274 TAGATAAAAG
Statistics
Matches: 87, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 87 1.00
ACGTcount: A:0.47, C:0.15, G:0.03, T:0.35
Consensus pattern (23 bp):
TTTAAGCACAAATCACATTAATA
Found at i:8497783 original size:18 final size:17
Alignment explanation
Indices: 8497742--8497784 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
8497732 TTGAAATAAA
*
8497742 AAAAAATCCTAAAATTT
1 AAAAAATCCTAAAATAT
*
8497759 AATAAAATTCTAAAAATAT
1 AA-AAAATCCT-AAAATAT
8497778 AAAAAAT
1 AAAAAAT
8497785 ATAAAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 12 0.55
19 8 0.36
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAAAATCCTAAAATAT
Found at i:8498374 original size:16 final size:16
Alignment explanation
Indices: 8498333--8498377 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
8498323 AAGGGTCCAC
*
8498333 AAAATT-TTTTGA-AA
1 AAAATTATTTTTATAA
8498347 AACAATTA-TTTTATAA
1 AA-AATTATTTTTATAA
8498363 AAAATTATTTTTATA
1 AAAATTATTTTTATA
8498378 TATAAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 2 0.08
15 13 0.50
16 11 0.42
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (16 bp):
AAAATTATTTTTATAA
Found at i:8500088 original size:60 final size:59
Alignment explanation
Indices: 8499906--8500089 Score: 174
Period size: 59 Copynumber: 3.1 Consensus size: 59
8499896 ATTTAGGTAT
* * *
8499906 CAAATTGAATCTAAAAAAGGA-TTAAGTACCAAATTAGGAAAAAATGACAAGTTCAAGTAC
1 CAAATTGAA-CTAAAAAA-AATTTAAGTACCAAATTAGGAAAAAGTGTCAAGTTCAAGTAC
* * * * * * ** *
8499966 CAAATTGGA-TCCAAAAAAGTTTAGGTATCAAATTAGAAAAAAGTGTCAAGTTTGAGTTC
1 CAAATTGAACT-AAAAAAAATTTAAGTACCAAATTAGGAAAAAGTGTCAAGTTCAAGTAC
* * * *
8500025 CAAATTGAACTAAAAAGAAATTTAAATACCAAATTAGGAAAATGTGTCATGTTCAACTAC
1 CAAATTGAACTAAAAA-AAATTTAAGTACCAAATTAGGAAAAAGTGTCAAGTTCAAGTAC
8500085 CAAAT
1 CAAAT
8500090 ATTATATTAA
Statistics
Matches: 95, Mismatches: 25, Indels: 8
0.74 0.20 0.06
Matches are distributed among these distances:
58 1 0.01
59 48 0.51
60 46 0.48
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.26
Consensus pattern (59 bp):
CAAATTGAACTAAAAAAAATTTAAGTACCAAATTAGGAAAAAGTGTCAAGTTCAAGTAC
Found at i:8502268 original size:20 final size:21
Alignment explanation
Indices: 8502230--8502268 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
8502220 CCATAATCCA
**
8502230 AAATCCTTAAACCTTAAATTC
1 AAATCCTTAAACCCCAAATTC
8502251 AAATCC-TAAACCCCAAAT
1 AAATCCTTAAACCCCAAAT
8502269 CATTAACCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (21 bp):
AAATCCTTAAACCCCAAATTC
Found at i:8502521 original size:18 final size:17
Alignment explanation
Indices: 8502485--8502527 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
8502475 TGCACAAAAA
**
8502485 TAAAAAATATTAACTTT
1 TAAAAAATATTAAAATT
8502502 TAAAAAGATATTAAAATT
1 TAAAAA-ATATTAAAATT
8502520 TATAAAAA
1 TA-AAAAA
8502528 AACTATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 6 0.27
18 12 0.55
19 4 0.18
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (17 bp):
TAAAAAATATTAAAATT
Found at i:8504212 original size:17 final size:17
Alignment explanation
Indices: 8504190--8504222 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
8504180 AATGCCTTAA
8504190 ATGAAGAGATAAGACCC
1 ATGAAGAGATAAGACCC
8504207 ATGAAGAGATAAGACC
1 ATGAAGAGATAAGACC
8504223 TGTGGGAGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.15, G:0.24, T:0.12
Consensus pattern (17 bp):
ATGAAGAGATAAGACCC
Found at i:8509407 original size:15 final size:16
Alignment explanation
Indices: 8509387--8509416 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8509377 CAAATATACG
8509387 AAAAT-AAATATGAGA
1 AAAATAAAATATGAGA
8509402 AAAATAAAATATGAG
1 AAAATAAAATATGAG
8509417 TTATGAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.67, C:0.00, G:0.13, T:0.20
Consensus pattern (16 bp):
AAAATAAAATATGAGA
Found at i:8509574 original size:30 final size:29
Alignment explanation
Indices: 8509529--8509798 Score: 203
Period size: 29 Copynumber: 9.2 Consensus size: 29
8509519 AGTTTCGGAG
*
8509529 AGTTTG-GGGTTAAAATGTAATTTTGGAA
1 AGTTTGAGGGTAAAAATGTAATTTTGGAA
* *
8509557 AGTTTTAAGGGTAAAAATGTCATTTTGGGAA
1 AG-TTTGAGGGTAAAAATGTAATTTT-GGAA
* *
8509588 AGTTCG-GGGTAAAAATGTGAATTTTAG-A
1 AGTTTGAGGGTAAAAATGT-AATTTTGGAA
* * *
8509616 AGTTTGGGGGTCAAAATGTGACTTTT-GAA
1 AGTTTGAGGGTAAAAATGT-AATTTTGGAA
* * *
8509645 AGTTCGGGGGTAAAAATGTGACTTTTGG-A
1 AGTTTGAGGGTAAAAATGT-AATTTTGGAA
* * *
8509674 AGCTTAAGGGCAAAAATGTAATTTTAGAGAA
1 AGTTTGAGGGTAAAAATGTAATTTT-G-GAA
* * *
8509705 A-TTCGAGGGTGAAAATGTAATTTTTGAGA
1 AGTTTGAGGGTAAAAATGTAATTTTGGA-A
* *
8509734 AGTTTTAGGGTAAAAATATAATTTTGGAA
1 AGTTTGAGGGTAAAAATGTAATTTTGGAA
* * *
8509763 AGTTCGGGGGTCAAAACATG-ATTTTTGGAA
1 AGTTTGAGGGT-AAAA-ATGTAATTTTGGAA
8509793 AGTTTG
1 AGTTTG
8509799 GGGACCTTTT
Statistics
Matches: 193, Mismatches: 35, Indels: 26
0.76 0.14 0.10
Matches are distributed among these distances:
28 16 0.08
29 85 0.44
30 82 0.42
31 10 0.05
ACGTcount: A:0.34, C:0.04, G:0.28, T:0.34
Consensus pattern (29 bp):
AGTTTGAGGGTAAAAATGTAATTTTGGAA
Found at i:8509597 original size:59 final size:58
Alignment explanation
Indices: 8509529--8509797 Score: 239
Period size: 58 Copynumber: 4.6 Consensus size: 58
8509519 AGTTTCGGAG
* * *
8509529 AGTTTGGGGTTAAAATGTAATTTTGGAAAGTTTTAAGGGTAAAAATGTCATTTTGGGAA
1 AGTTCGGGGTAAAAATGTAATTTTGGAAAGTTTTAAGGGTAAAAATGTAATTTT-GGAA
* ** * *
8509588 AGTTCGGGGTAAAAATGTGAATTTTAG-AAG-TTTGGGGGTCAAAATGTGACTTTT-GAA
1 AGTTCGGGGTAAAAATGT-AATTTTGGAAAGTTTTAAGGGTAAAAATGT-AATTTTGGAA
* * *
8509645 AGTTCGGGGGTAAAAATGTGACTTTTGG-AAG-CTTAAGGGCAAAAATGTAATTTTAGAGAA
1 AGTTC-GGGGTAAAAATGT-AATTTTGGAAAGTTTTAAGGGTAAAAATGTAATTTT-G-GAA
* * *
8509705 A-TTCGAGGGTGAAAATGTAATTTTTGAGAAGTTTT-AGGGTAAAAATATAATTTTGGAA
1 AGTTCG-GGGTAAAAATGTAATTTTGGA-AAGTTTTAAGGGTAAAAATGTAATTTTGGAA
*
8509763 AGTTCGGGGGTCAAAACATG-ATTTTTGGAAAGTTT
1 AGTTC-GGGGT-AAAA-ATGTAATTTTGGAAAGTTT
8509798 GGGGACCTTT
Statistics
Matches: 171, Mismatches: 25, Indels: 28
0.76 0.11 0.12
Matches are distributed among these distances:
57 13 0.08
58 60 0.35
59 51 0.30
60 42 0.25
61 5 0.03
ACGTcount: A:0.34, C:0.04, G:0.28, T:0.34
Consensus pattern (58 bp):
AGTTCGGGGTAAAAATGTAATTTTGGAAAGTTTTAAGGGTAAAAATGTAATTTTGGAA
Found at i:8511383 original size:6 final size:6
Alignment explanation
Indices: 8511374--8511469 Score: 76
Period size: 6 Copynumber: 16.0 Consensus size: 6
8511364 TAAATCTAAA
* *
8511374 TAAATT TAAACT TAAATT TACAA-- TAAATT TAAATT TCAAATAAG TAAATT
1 TAAATT TAAATT TAAATT TA-AATT TAAATT TAAATT T-AAAT--T TAAATT
* *
8511424 TAAACT TAAA-A TAAATT TAAATT TCAAA-- TAAATT TAAATT TAAATT
1 TAAATT TAAATT TAAATT TAAATT T-AAATT TAAATT TAAATT TAAATT
8511470 CTGTTTGGGT
Statistics
Matches: 73, Mismatches: 7, Indels: 20
0.73 0.07 0.20
Matches are distributed among these distances:
4 5 0.07
5 7 0.10
6 47 0.64
7 9 0.12
8 4 0.05
9 1 0.01
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (6 bp):
TAAATT
Found at i:8511405 original size:17 final size:17
Alignment explanation
Indices: 8511380--8511465 Score: 84
Period size: 17 Copynumber: 4.8 Consensus size: 17
8511370 TAAATAAATT
*
8511380 TAAACTTAAATTTACAA
1 TAAATTTAAATTTACAA
*
8511397 TAAATTTAAATTTCAAATAA
1 TAAATTTAAATTT---ACAA
* *
8511417 GTAAATTTAAACTTAAAA
1 -TAAATTTAAATTTACAA
8511435 TAAATTTAAATTT-CAAA
1 TAAATTTAAATTTAC-AA
8511452 TAAATTTAAATTTA
1 TAAATTTAAATTTA
8511466 AATTCTGTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
17 39 0.68
18 3 0.05
20 3 0.05
21 12 0.21
ACGTcount: A:0.53, C:0.06, G:0.01, T:0.40
Consensus pattern (17 bp):
TAAATTTAAATTTACAA
Found at i:8511437 original size:38 final size:38
Alignment explanation
Indices: 8511380--8511454 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
8511370 TAAATAAATT
* *
8511380 TAAACTTAAATTTACAATAAATTTAAATTTCAAATAAG
1 TAAACTTAAACTTAAAATAAATTTAAATTTCAAATAAG
*
8511418 TAAATTTAAACTTAAAATAAATTTAAATTTCAAATAA
1 TAAACTTAAACTTAAAATAAATTTAAATTTCAAATAA
8511455 ATTTAAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.37
Consensus pattern (38 bp):
TAAACTTAAACTTAAAATAAATTTAAATTTCAAATAAG
Found at i:8511462 original size:10 final size:10
Alignment explanation
Indices: 8511364--8511407 Score: 52
Period size: 10 Copynumber: 4.1 Consensus size: 10
8511354 TGGACATTAG
*
8511364 TAAATCTAAA
1 TAAATTTAAA
8511374 TAAATTTAAA
1 TAAATTTAAA
8511384 CTTAAATTTACAA
1 --TAAATTTA-AA
8511397 TAAATTTAAA
1 TAAATTTAAA
8511407 T
1 T
8511408 TTCAAATAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
10 12 0.40
11 8 0.27
12 8 0.27
13 2 0.07
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.39
Consensus pattern (10 bp):
TAAATTTAAA
Found at i:8512072 original size:78 final size:78
Alignment explanation
Indices: 8511948--8512442 Score: 530
Period size: 78 Copynumber: 6.3 Consensus size: 78
8511938 AATAACCGCC
* * * * *
8511948 ATCTGCCCCATGATCGGGGTAAGAGATTGGCTAATGATGATTTGCCCCAAGCTCGAGGTAAAAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGAGGTAAAAGA
8512013 TCGAATGGCTGCA
66 TCGAATGGCTGCA
* * * * *
8512026 ATCTGCCCCAAGCTCGGGATAAGAGATTGGCTAATGGTGATCTGCCCCAAGCTCAAGTTAAAAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGAGGTAAAAGA
*
8512091 TTGAATGGCTGCA
66 TCGAATGGCTGCA
* * * * * *
8512104 ATTTGCGCCAGGCTCGGGGTAAAAGATTGGTTGATAGTGATCTGCCCCAAGCT-TAGGGTAAAAG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGA-GGTAAAAG
*
8512168 ATCGAATGGCTACA
65 ATCGAATGGCTGCA
* * * * * * **
8512182 ATTTGCCCTAGGCTCGGGGTAAGAGAATGACTGATGGTGATCTGCCCCAGGCTCGGGGTAAGTGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGAGGTAAAAGA
*
8512247 TCGAATGGTTGCA
66 TCGAATGGCTGCA
* * * * * *
8512260 ATCTACCCTAGGCTCGAGGTAAAAGATTGGCTGATGGTGATCTGCCCCAGGCTCGGGGTAAAAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGAGGTAAAAGA
8512325 TCGAATGGCTGCA
66 TCGAATGGCTGCA
* * * * * * * *
8512338 ATCTGCCCTAGCCTCGGGGTAAGAGATTGACTGGTGATGATCTGCCCCAGGCTCGGGGTAAGAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGAGGTAAAAGA
*
8512403 TTGACTGATGG-TG--
66 TCGA---ATGGCTGCA
* *
8512416 ATCTGCCTCAGGCTCAGGGTAAGAGAT
1 ATCTGCCCCAGGCTCGGGGTAAGAGAT
8512443 CAAATCTTCA
Statistics
Matches: 356, Mismatches: 56, Indels: 10
0.84 0.13 0.02
Matches are distributed among these distances:
77 1 0.00
78 349 0.98
80 2 0.01
81 4 0.01
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (78 bp):
ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGAGGTAAAAGA
TCGAATGGCTGCA
Found at i:8512404 original size:39 final size:39
Alignment explanation
Indices: 8511948--8512442 Score: 281
Period size: 39 Copynumber: 12.7 Consensus size: 39
8511938 AATAACCGCC
* * * *
8511948 ATCTGCCCCATGATCGGGGTAAGAGATTGGCTAATGATG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGACTGATGATG
* * * * * * *
8511987 ATTTGCCCCAAGCTCGAGGTAAAAGATCGAATG--GCTG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGACTGATGATG
* * * * *
8512024 CAATCTGCCCCAAGCTCGGGATAAGAGATTGGCTAATGGTG
1 --ATCTGCCCCAGGCTCGGGGTAAGAGATTGACTGATGATG
* ** * * * *
8512065 ATCTGCCCCAAGCTCAAGTTAAAAGATTGAATG--GCTG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGACTGATGATG
* * * **
8512102 CAATTTGCGCCAGGCTCGGGGTAAAAGATTGGTTGAT-AGTG
1 --ATCTGCCCCAGGCTCGGGGTAAGAGATTGACTGATGA-TG
* ** * * * * **
8512143 ATCTGCCCCAAGCTTAGGGTAAAAGATCGAATGGCT-ACA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGACT-GATGATG
* * * *
8512182 ATTTGCCCTAGGCTCGGGGTAAGAGAATGACTGATGGTG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGACTGATGATG
* * * *
8512221 ATCTGCCCCAGGCTCGGGGTAAGTGATCGAATG--GTTG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGACTGATGATG
* * * * * *
8512258 CAATCTACCCTAGGCTCGAGGTAAAAGATTGGCTGATGGTG
1 --ATCTGCCCCAGGCTCGGGGTAAGAGATTGACTGATGATG
* * * *
8512299 ATCTGCCCCAGGCTCGGGGTAAAAGATCGAATG--GCTG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGACTGATGATG
* * *
8512336 CAATCTGCCCTAGCCTCGGGGTAAGAGATTGACTGGTGATG
1 --ATCTGCCCCAGGCTCGGGGTAAGAGATTGACTGATGATG
*
8512377 ATCTGCCCCAGGCTCGGGGTAAGAGATTGACTGATGGTG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGACTGATGATG
* *
8512416 ATCTGCCTCAGGCTCAGGGTAAGAGAT
1 ATCTGCCCCAGGCTCGGGGTAAGAGAT
8512443 CAAATCTTCA
Statistics
Matches: 342, Mismatches: 95, Indels: 38
0.72 0.20 0.08
Matches are distributed among these distances:
37 12 0.04
38 2 0.01
39 314 0.92
40 3 0.01
41 11 0.03
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (39 bp):
ATCTGCCCCAGGCTCGGGGTAAGAGATTGACTGATGATG
Found at i:8524245 original size:28 final size:28
Alignment explanation
Indices: 8524214--8524597 Score: 152
Period size: 29 Copynumber: 13.2 Consensus size: 28
8524204 AGTTTCGAAG
*
8524214 AGTTTGGGGTTAAAATATAATTTTAGAA
1 AGTTTGGGGTAAAAATATAATTTTAGAA
* * * *
8524242 AGTTTTAGGGGTAAAAATGTCATTTTGGGA
1 AG-TTT-GGGGTAAAAATATAATTTTAGAA
* * * *
8524272 AGTTCGGGGTAAAAATGTGAGTTTT-GTA
1 AGTTTGGGGTAAAAATAT-AATTTTAGAA
* * * *
8524300 AGTTCGAGGGT-CAAATGTGATTTTTAG-A
1 AGTTTG-GGGTAAAAATAT-AATTTTAGAA
* * *
8524328 AGTTTGGGGTAAAAATGTGACTTTT-GGA
1 AGTTTGGGGTAAAAATAT-AATTTTAGAA
*** * * *
8524356 AGTTCAAAGGTAAAAATGTGACTTTTGGAA
1 AGTT-TGGGGTAAAAATAT-AATTTTAGAA
* *
8524386 A-TTTAAGGGG-AAAAATGTAATTTTGGAAA
1 AGTTT--GGGGTAAAAATATAATTTTAG-AA
* * * * * *
8524415 AATTCAGGAGTGAAAATGTAATTTTTGAAA
1 AGTT-TGGGGTAAAAATATAATTTTAG-AA
* * *
8524445 AGTTTGGGGTCAAAATATGATTTTTGAA
1 AGTTTGGGGTAAAAATATAATTTTAGAA
*
8524473 AGTTTAGGGGTAAAAATGTAATTTTAGAGA
1 AGTTT-GGGGTAAAAATATAATTTTAGA-A
* * *
8524503 AATTTAAGGGTAAAAATGTAATTTTTCAG-A
1 AGTTT-GGGGTAAAAATATAA-TTTT-AGAA
* *
8524533 AGTTTGGGGGGTAAAAATATAATTTTGGCA
1 AGTTT--GGGGTAAAAATATAATTTTAGAA
* *
8524563 AGTTTAGGGGTCAAAATATGATTTTTAGAA
1 AGTTT-GGGGTAAAAATAT-AATTTTAGAA
8524593 AGTTT
1 AGTTT
8524598 AAGGACCTTT
Statistics
Matches: 286, Mismatches: 48, Indels: 42
0.76 0.13 0.11
Matches are distributed among these distances:
27 5 0.02
28 72 0.25
29 96 0.34
30 94 0.33
31 17 0.06
32 2 0.01
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.35
Consensus pattern (28 bp):
AGTTTGGGGTAAAAATATAATTTTAGAA
Found at i:8524259 original size:30 final size:29
Alignment explanation
Indices: 8524197--8524598 Score: 229
Period size: 30 Copynumber: 13.8 Consensus size: 29
8524187 AAAGGGGTCG
* * *
8524197 AAAATG-AAGTTTCGAAGAGTTT-GGGGTT
1 AAAATGTAATTTTAGAA-AGTTTAGGGGTA
*
8524225 AAAATATAATTTTAGAAAGTTTTAGGGGTA
1 AAAATGTAATTTTAGAAAG-TTTAGGGGTA
* * * *
8524255 AAAATGTCATTTTGGGAAG-TTCGGGGTA
1 AAAATGTAATTTTAGAAAGTTTAGGGGTA
* * *
8524283 AAAATGTGAGTTTT-GTAAG-TTCGAGGGT-
1 AAAATGT-AATTTTAGAAAGTTTAG-GGGTA
* *
8524311 CAAATGTGATTTTTAG-AAGTTT-GGGGTA
1 AAAATGT-AATTTTAGAAAGTTTAGGGGTA
* * * **
8524339 AAAATGTGACTTTT-GGAAGTTCAAAGGTA
1 AAAATGT-AATTTTAGAAAGTTTAGGGGTA
* *
8524368 AAAATGTGACTTTTGGAAA-TTTAAGGGG-A
1 AAAATGT-AATTTTAGAAAGTTT-AGGGGTA
* * * * *
8524397 AAAATGTAATTTTGGAAAAATTCAGGAGTG
1 AAAATGTAATTTTAG-AAAGTTTAGGGGTA
* *
8524427 AAAATGTAATTTTTGAAAAGTTT-GGGGTC
1 AAAATGTAATTTTAG-AAAGTTTAGGGGTA
* * *
8524456 AAAATATGATTTTTGAAAGTTTAGGGGTA
1 AAAATGTAATTTTAGAAAGTTTAGGGGTA
* *
8524485 AAAATGTAATTTTAGAGAAATTTAAGGGTA
1 AAAATGTAATTTTAGA-AAGTTTAGGGGTA
*
8524515 AAAATGTAATTTTTCAG-AAGTTTGGGGGGTA
1 AAAATGTAA-TTTT-AGAAAGTTT-AGGGGTA
* * *
8524546 AAAATATAATTTTGGCAAGTTTAGGGGTCA
1 AAAATGTAATTTTAGAAAGTTTAGGGGT-A
*
8524576 AAATATG-ATTTTTAGAAAGTTTA
1 AAA-ATGTAATTTTAGAAAGTTTA
8524599 AGGACCTTTT
Statistics
Matches: 301, Mismatches: 50, Indels: 44
0.76 0.13 0.11
Matches are distributed among these distances:
27 5 0.02
28 77 0.26
29 98 0.33
30 100 0.33
31 19 0.06
32 2 0.01
ACGTcount: A:0.37, C:0.03, G:0.25, T:0.35
Consensus pattern (29 bp):
AAAATGTAATTTTAGAAAGTTTAGGGGTA
Found at i:8524587 original size:90 final size:88
Alignment explanation
Indices: 8524364--8524601 Score: 241
Period size: 88 Copynumber: 2.7 Consensus size: 88
8524354 GAAGTTCAAA
* * * * * *
8524364 GGTAAAAATGTGACTTTTGGAAA-TTTAAGGGG-AAAAATGTAA-TTTTGGAAAAATTCAGGAGT
1 GGTAAAAATAT-AATTTTGGAAAGTTT-AGGGGTAAAAATATAATTTTTAGAAAATTTAAGG-GT
* *
8524426 GAAAATGTAATTTTTGAAAAGTTTGG
63 AAAAATGTAATTTTTCAAAAGTTTGG
* * * *
8524452 GGTCAAAATATGATTTTTGAAAGTTTAGGGGTAAAAATGTAA-TTTTAGAGAAATTTAAGGGTAA
1 GGTAAAAATATAATTTTGGAAAGTTTAGGGGTAAAAATATAATTTTTAGA-AAATTTAAGGGTAA
*
8524516 AAATGTAATTTTTCAGAAGTTTGGGG
65 AAATGTAATTTTTCAAAAGTTT--GG
* * * *
8524542 GGTAAAAATATAATTTTGGCAAGTTTAGGGGTCAAAATATGATTTTTAGAAAGTTTAAGG
1 GGTAAAAATATAATTTTGGAAAGTTTAGGGGTAAAAATATAATTTTTAGAAAATTTAAGG
8524602 ACCTTTTGGG
Statistics
Matches: 125, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
87 13 0.10
88 51 0.41
89 8 0.06
90 46 0.37
91 7 0.06
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.34
Consensus pattern (88 bp):
GGTAAAAATATAATTTTGGAAAGTTTAGGGGTAAAAATATAATTTTTAGAAAATTTAAGGGTAAA
AATGTAATTTTTCAAAAGTTTGG
Found at i:8525816 original size:6 final size:6
Alignment explanation
Indices: 8525807--8525868 Score: 54
Period size: 6 Copynumber: 10.0 Consensus size: 6
8525797 TAAATCTAAA
* * * *
8525807 TAAATT TAAACT TAAATT TCAAATAAA TAAATT TAAACT TAAA-A TAAATT
1 TAAATT TAAATT TAAATT T-AAAT--T TAAATT TAAATT TAAATT TAAATT
8525857 TAAATT TAAATT
1 TAAATT TAAATT
8525869 CTGTTTGGGT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
5 4 0.09
6 32 0.71
7 4 0.09
8 4 0.09
9 1 0.02
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (6 bp):
TAAATT
Found at i:8525851 original size:17 final size:17
Alignment explanation
Indices: 8525831--8525866 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
8525821 AATTTCAAAT
8525831 AAATAAATTTAAACTTA
1 AAATAAATTTAAACTTA
*
8525848 AAATAAATTTAAATTTA
1 AAATAAATTTAAACTTA
8525865 AA
1 AA
8525867 TTCTGTTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATAAATTTAAACTTA
Found at i:8525860 original size:27 final size:27
Alignment explanation
Indices: 8525797--8525861 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
8525787 TGGACATTAG
*
8525797 TAAATCTAAATAAATTTAAACTTAAATT
1 TAAAT-TAAATAAATTTAAACTTAAATA
8525825 TCAAA-TAAATAAATTTAAACTTAAA-A
1 T-AAATTAAATAAATTTAAACTTAAATA
8525851 TAAATTTAAAT
1 TAAA-TTAAAT
8525862 TTAAATTCTG
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
25 3 0.09
26 1 0.03
27 25 0.76
28 1 0.03
29 3 0.09
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (27 bp):
TAAATTAAATAAATTTAAACTTAAATA
Found at i:8526453 original size:6 final size:6
Alignment explanation
Indices: 8526444--8526522 Score: 65
Period size: 6 Copynumber: 13.0 Consensus size: 6
8526434 TAAATCTAAA
* *
8526444 TAAATT TAAACT TAAATT TACAA-- TAAATT TAAATT TCAAATAAA TAAATT
1 TAAATT TAAATT TAAATT TA-AATT TAAATT TAAATT T-AAAT--T TAAATT
* *
8526494 TAAACT TAAA-A TAAATT TAAATT TAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT
8526523 CAGTTTGGAT
Statistics
Matches: 59, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
4 2 0.03
5 6 0.10
6 40 0.68
7 6 0.10
8 4 0.07
9 1 0.02
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (6 bp):
TAAATT
Found at i:8526475 original size:17 final size:17
Alignment explanation
Indices: 8526450--8526520 Score: 79
Period size: 17 Copynumber: 3.9 Consensus size: 17
8526440 TAAATAAATT
* *
8526450 TAAACTTAAATTTACAA
1 TAAATTTAAATTTAAAA
8526467 TAAATTTAAATTTCAAATAAA
1 TAAATTTAAATTT---A-AAA
*
8526488 TAAATTTAAACTTAAAA
1 TAAATTTAAATTTAAAA
8526505 TAAATTTAAATTTAAA
1 TAAATTTAAATTTAAA
8526521 TTCAGTTTGG
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
17 30 0.65
18 1 0.02
20 1 0.02
21 14 0.30
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:8526515 original size:10 final size:10
Alignment explanation
Indices: 8526434--8526477 Score: 52
Period size: 10 Copynumber: 4.1 Consensus size: 10
8526424 TGGACATTAG
*
8526434 TAAATCTAAA
1 TAAATTTAAA
8526444 TAAATTTAAA
1 TAAATTTAAA
8526454 CTTAAATTTACAA
1 --TAAATTTA-AA
8526467 TAAATTTAAA
1 TAAATTTAAA
8526477 T
1 T
8526478 TTCAAATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
10 12 0.40
11 8 0.27
12 8 0.27
13 2 0.07
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.39
Consensus pattern (10 bp):
TAAATTTAAA
Found at i:8543905 original size:17 final size:19
Alignment explanation
Indices: 8543879--8543923 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
8543869 ATAGTTTGCA
*
8543879 TGCATCTTTA-TTT-TCAT
1 TGCATTTTTATTTTGTCAT
8543896 TGCATTTTTATTTTGTCAT
1 TGCATTTTTATTTTGTCAT
8543915 TGCATTTTT
1 TGCATTTTT
8543924 TTGTTAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 9 0.36
18 3 0.12
19 13 0.52
ACGTcount: A:0.16, C:0.13, G:0.09, T:0.62
Consensus pattern (19 bp):
TGCATTTTTATTTTGTCAT
Found at i:8550071 original size:22 final size:23
Alignment explanation
Indices: 8550023--8550087 Score: 80
Period size: 22 Copynumber: 2.9 Consensus size: 23
8550013 ACTAACAGAA
* *
8550023 CAGAGAGCACTAATGAGCT-GAT
1 CAGAGAGCACTAATGTGCTAAAT
*
8550045 CAGAGAACACTAATGTGCTAAAT
1 CAGAGAGCACTAATGTGCTAAAT
*
8550068 -AGAGAGCACTAAAGTGCTAA
1 CAGAGAGCACTAATGTGCTAA
8550088 TAAATCAAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 35 0.95
23 2 0.05
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.18
Consensus pattern (23 bp):
CAGAGAGCACTAATGTGCTAAAT
Found at i:8556048 original size:49 final size:49
Alignment explanation
Indices: 8555984--8557068 Score: 589
Period size: 49 Copynumber: 22.2 Consensus size: 49
8555974 TTCAATATGT
* *** *
8555984 TCCCTCTTTGGTTTTAAGGTGTTAGATCCATCGTCGTGGCTTCAATCTA
1 TCCCTCTTTGGTTTTAAGGTGTTAGGTCCATCGTTACGGCTTCAACCTA
* * * * **
8556033 TCCCTCTTTGGTTTTAGGGTATTATGTCCGTCGTTATAGCTTCAACCTA
1 TCCCTCTTTGGTTTTAAGGTGTTAGGTCCATCGTTACGGCTTCAACCTA
* * * * * * * *
8556082 TCCCTCTTCGGTTTTAAGGTGTAAGATCTATCGTTACGACTTTAATCTT
1 TCCCTCTTTGGTTTTAAGGTGTTAGGTCCATCGTTACGGCTTCAACCTA
* * ** * * * *
8556131 TCCCT-TTCT-ATTTTAGGGTGTTAGGTCCGCCATTGCAGCTTCAACTTA
1 TCCCTCTT-TGGTTTTAAGGTGTTAGGTCCATCGTTACGGCTTCAACCTA
*** * * *
8556179 TCCCTCTTCAATTTTAAGGTGTAAGGTCCACCGTTACGGCTTCAACCTT
1 TCCCTCTTTGGTTTTAAGGTGTTAGGTCCATCGTTACGGCTTCAACCTA
* * * * ** * ** **
8556228 TCCATCTTTGATTTTAGGGTGTTAGATTTATCATTGTGGCTTCAATGTA
1 TCCCTCTTTGGTTTTAAGGTGTTAGGTCCATCGTTACGGCTTCAACCTA
* * * *
8556277 TCCCTCTTCGATTTTAAGGTGTTAGGTCCGTCGTTACGACTTCAACCTA
1 TCCCTCTTTGGTTTTAAGGTGTTAGGTCCATCGTTACGGCTTCAACCTA
* ** * * ** * * *
8556326 TCCCTTTTTTATTTTAAGGTGTAAGATCCATCGTTACAACTTTAATCTT
1 TCCCTCTTTGGTTTTAAGGTGTTAGGTCCATCGTTACGGCTTCAACCTA
* * * * * * *
8556375 TCCCTCTTCGATTTT-TGGATGTTAGGTTCACCGTTGCAGCTTCAACCTA
1 TCCCTCTTTGGTTTTAAGG-TGTTAGGTCCATCGTTACGGCTTCAACCTA
*** ** * * * * * * *
8556424 TCCCTCTTCAATTTTAAGAAGTAAGATCCATCGTTGCGACTTTAATCTT
1 TCCCTCTTTGGTTTTAAGGTGTTAGGTCCATCGTTACGGCTTCAACCTA
** * * *
8556473 TCCCTCTTCAGTTTTAAGGTGTTAGGTCCACCATTACGGCTTTAACCTA
1 TCCCTCTTTGGTTTTAAGGTGTTAGGTCCATCGTTACGGCTTCAACCTA
* *** * * *
8556522 TTCCTCTTCAATTTTAAGGTGTAAGGTCCACCGTTACGGCTTCAACCTT
1 TCCCTCTTTGGTTTTAAGGTGTTAGGTCCATCGTTACGGCTTCAACCTA
* * * ** *
8556571 TCCCTATTTGGTTTTAGGGTGTTAGGTCCGTCGTTGTGGCTTTAACCTA
1 TCCCTCTTTGGTTTTAAGGTGTTAGGTCCATCGTTACGGCTTCAACCTA
* *** * * * *
8556620 TCCCTCCTCAATTTTAAGGTGTAAGGTCCATCATTGCGGCTTCAACCTT
1 TCCCTCTTTGGTTTTAAGGTGTTAGGTCCATCGTTACGGCTTCAACCTA
* ** *
8556669 TCCCTCTTTGGTTTT-AGGATGTTAGATCCATCGTTACAACTTCAATCTA
1 TCCCTCTTTGGTTTTAAGG-TGTTAGGTCCATCGTTACGGCTTCAACCTA
*** * * * ** *
8556718 TCCCTCTTCAATTTTAGGGTGTTAGGTCCGTCATTACAACTTCAACTTA
1 TCCCTCTTTGGTTTTAAGGTGTTAGGTCCATCGTTACGGCTTCAACCTA
* * * * * * ** *
8556767 TCCCTTTTTGGTTTTAAGGTG-TAAGTACCGTTGTTGCGACTTCAATATT
1 TCCCTCTTTGGTTTTAAGGTGTTAGGT-CCATCGTTACGGCTTCAACCTA
* ** ** *
8556816 TCCCTC-TTGGTTTTTAGGTACTAGGTCCGCCATTACGGCTTCAACCTA
1 TCCCTCTTTGGTTTTAAGGTGTTAGGTCCATCGTTACGGCTTCAACCTA
* * * * * ** * *
8556864 TCCCTCTTTAGTTTTAAGGTGTAAGATTCATCATTGTGGCTTCAATCTT
1 TCCCTCTTTGGTTTTAAGGTGTTAGGTCCATCGTTACGGCTTCAACCTA
* * * *** * * *
8556913 TCTCTCTTTGGTTTTAGGGTGTTAGATCTGCCATTGCGGCTTCAATCTTA
1 TCCCTCTTTGGTTTTAAGGTGTTAGGTCCATCGTTACGGCTTCAA-CCTA
* * * * * ** **
8556963 TCCCTTTTTGGTTTTAGGGCGTTAAGTCCGTCGTTACAACTTCAAATTA
1 TCCCTCTTTGGTTTTAAGGTGTTAGGTCCATCGTTACGGCTTCAACCTA
** * ** * *
8557012 TCCCTCTTCAGTTTTAAGATGTTAGGTTTACCATTACGGCTTCAACCTA
1 TCCCTCTTTGGTTTTAAGGTGTTAGGTCCATCGTTACGGCTTCAACCTA
*
8557061 TTCCTCTT
1 TCCCTCTT
8557069 CAAACTCTAT
Statistics
Matches: 771, Mismatches: 254, Indels: 22
0.74 0.24 0.02
Matches are distributed among these distances:
48 72 0.09
49 661 0.86
50 38 0.05
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.41
Consensus pattern (49 bp):
TCCCTCTTTGGTTTTAAGGTGTTAGGTCCATCGTTACGGCTTCAACCTA
Found at i:8570346 original size:65 final size:65
Alignment explanation
Indices: 8570266--8570396 Score: 262
Period size: 65 Copynumber: 2.0 Consensus size: 65
8570256 AATAGGAGAA
8570266 AGAGGAAGAGAAGAAGAATGAAAAAGATGTAGATGCCCTGACAAATTTAGATGTAAAATTTGTCG
1 AGAGGAAGAGAAGAAGAATGAAAAAGATGTAGATGCCCTGACAAATTTAGATGTAAAATTTGTCG
8570331 AGAGGAAGAGAAGAAGAATGAAAAAGATGTAGATGCCCTGACAAATTTAGATGTAAAATTTGTCG
1 AGAGGAAGAGAAGAAGAATGAAAAAGATGTAGATGCCCTGACAAATTTAGATGTAAAATTTGTCG
8570396 A
1 A
8570397 TACACCCACC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.45, C:0.08, G:0.26, T:0.21
Consensus pattern (65 bp):
AGAGGAAGAGAAGAAGAATGAAAAAGATGTAGATGCCCTGACAAATTTAGATGTAAAATTTGTCG
Found at i:8575623 original size:52 final size:52
Alignment explanation
Indices: 8575543--8575833 Score: 449
Period size: 52 Copynumber: 5.6 Consensus size: 52
8575533 AAATGCAAAA
* * *
8575543 AGGTCCGATAACTATGTGTCATCATGAGTATATGAATCCTTTACGAATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * *
8575595 GGGTCCAATGACTATGTTTCATCGTGAGTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
*
8575647 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
8575699 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * * *
8575751 AGGTCCGATGATTATGTGTCATCGTGAGCATATGGATCCTTTTACGGATT-TA
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCC-TTTACGGATTATG
* *
8575803 AGGTCCGATGACTCTCTGTCATCGTGAGTAT
1 AGGTCCGATGACTATGTGTCATCGTGAGTAT
8575834 TAAATGGGAA
Statistics
Matches: 219, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
52 209 0.95
53 10 0.05
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
Found at i:8579530 original size:61 final size:60
Alignment explanation
Indices: 8579422--8579641 Score: 264
Period size: 61 Copynumber: 3.6 Consensus size: 60
8579412 TAAAAACTTT
* * *
8579422 ATTTCAACCCCTTAACTTTTCTAAAATCACATTTTAACCACCCAAACTTTTTCAAAATTAC
1 ATTTTAACCCCTAAACTTTTCTAAAATCACATTTTAACC-CCTAAACTTTTTCAAAATTAC
* * *
8579483 ATTTTAACCCCTAAACTTTTCTAAAATTACATTTTAACCCCTTAAACTTTTCCAAAAATAC
1 ATTTTAACCCCTAAACTTTTCTAAAATCACATTTTAACCCC-TAAACTTTTTCAAAATTAC
* * * * * *
8579544 ATTTTGACCCCCAAAC-TTTCTAAAATTACATTTTTTACCCCTAAAC-TATTCAAAATTGC
1 ATTTTAACCCCTAAACTTTTCTAAAATCACA-TTTTAACCCCTAAACTTTTTCAAAATTAC
* * *
8579603 ATTTTAACCTCTAAACTTCTCAAAAATCACATTTTAACC
1 ATTTTAACCCCTAAACTTTTCTAAAATCACATTTTAACC
8579642 TTGTAATATC
Statistics
Matches: 136, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
59 29 0.21
60 32 0.24
61 75 0.55
ACGTcount: A:0.36, C:0.26, G:0.01, T:0.37
Consensus pattern (60 bp):
ATTTTAACCCCTAAACTTTTCTAAAATCACATTTTAACCCCTAAACTTTTTCAAAATTAC
Found at i:8579642 original size:30 final size:30
Alignment explanation
Indices: 8579422--8579641 Score: 248
Period size: 30 Copynumber: 7.3 Consensus size: 30
8579412 TAAAAACTTT
* * *
8579422 ATTTCAACCCCTTAACTTTTCTAAAATCAC
1 ATTTTAACCCCTAAACTTTTCTAAAATTAC
*
8579452 ATTTTAACCACCCAAACTTTT-TCAAAATTAC
1 ATTTTAACC-CCTAAACTTTTCT-AAAATTAC
8579483 ATTTTAACCCCTAAACTTTTCTAAAATTAC
1 ATTTTAACCCCTAAACTTTTCTAAAATTAC
* *
8579513 ATTTTAACCCCTTAAACTTTTCCAAAAATAC
1 ATTTTAACCCC-TAAACTTTTCTAAAATTAC
* *
8579544 ATTTTGACCCCCAAAC-TTTCTAAAATTAC
1 ATTTTAACCCCTAAACTTTTCTAAAATTAC
* * *
8579573 ATTTTTTACCCCTAAACTATTC-AAAATTGC
1 A-TTTTAACCCCTAAACTTTTCTAAAATTAC
* * * *
8579603 ATTTTAACCTCTAAACTTCTCAAAAATCAC
1 ATTTTAACCCCTAAACTTTTCTAAAATTAC
8579633 ATTTTAACC
1 ATTTTAACC
8579642 TTGTAATATC
Statistics
Matches: 162, Mismatches: 21, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
29 28 0.17
30 78 0.48
31 56 0.35
ACGTcount: A:0.36, C:0.26, G:0.01, T:0.37
Consensus pattern (30 bp):
ATTTTAACCCCTAAACTTTTCTAAAATTAC
Done.