Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 222 of 279
Found at i:72619559 original size:49 final size:49
Alignment explanation
Indices: 72619485--72620284 Score: 1495
Period size: 49 Copynumber: 16.4 Consensus size: 49
72619475 ATTCAGCCAA
*
72619485 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGT
72619532 GAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGT
72619581 GAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGT
72619630 GAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGT
72619679 GAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGT
72619728 GAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGT
72619777 GAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGT
72619826 GAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGT
72619875 GAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGT
72619924 GAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGT
72619973 GAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGT
72620022 GAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGT
72620071 GAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGT
72620120 GAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGT
72620169 GAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGT
* * * * * *
72620218 GAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGT
72620265 GAAAGTGTATA-A-ATGTGATA
1 GAAAGTGTATATATATGTGATA
72620285 AGTCCCGAAG
Statistics
Matches: 741, Mismatches: 8, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
47 55 0.07
48 1 0.00
49 685 0.92
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.30
Consensus pattern (49 bp):
GAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGT
Found at i:72642687 original size:40 final size:40
Alignment explanation
Indices: 72642655--72643045 Score: 597
Period size: 40 Copynumber: 9.8 Consensus size: 40
72642645 CCATCATGAT
* * * * *
72642655 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
* ** * * *
72642695 TGCTCTTCGGGGTTTAGCACAGATATATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
* *
72642735 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
*
72642775 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
*
72642815 TGCTCTTCGAGACTTAGCCCAGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
* *
72642855 TGCTCTTCGAGACTTAGCTCGGATATATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
72642895 TGCTCTTCGAGACTTAGCCCGGATACA-CACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
72642934 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
*
72642974 TGCACTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
72643014 TGCTCTTCG-GAACTTAGCCCGGATACATCACT
1 TGCTCTTCGAG-ACTTAGCCCGGATACATCACT
72643046 CTCAATTCTC
Statistics
Matches: 328, Mismatches: 21, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
39 40 0.12
40 288 0.88
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:72642912 original size:23 final size:23
Alignment explanation
Indices: 72642846--72642912 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 23
72642836 GATACATCAC
72642846 TAGCACGAATGCTCTTCGAGACT
1 TAGCACGAATGCTCTTCGAGACT
* * * *
72642869 TAGCTCGGAT-AT-ATC---AC-
1 TAGCACGAATGCTCTTCGAGACT
72642886 TAGCACGAATGCTCTTCGAGACT
1 TAGCACGAATGCTCTTCGAGACT
72642909 TAGC
1 TAGC
72642913 CCGGATACAC
Statistics
Matches: 30, Mismatches: 8, Indels: 12
0.60 0.16 0.24
Matches are distributed among these distances:
17 8 0.27
18 3 0.10
19 2 0.07
21 2 0.07
22 3 0.10
23 12 0.40
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (23 bp):
TAGCACGAATGCTCTTCGAGACT
Found at i:72650147 original size:11 final size:11
Alignment explanation
Indices: 72650111--72650166 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
72650101 CATGGTATGT
72650111 ATGATATGCAC
1 ATGATATGCAC
* *
72650122 ATGACATG--T
1 ATGATATGCAC
72650131 ATGATATGCAC
1 ATGATATGCAC
*
72650142 ATGATATG--T
1 ATGATATGCAC
72650151 ATGATATGCAC
1 ATGATATGCAC
72650162 ATGAT
1 ATGAT
72650167 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:72650166 original size:20 final size:20
Alignment explanation
Indices: 72650100--72650166 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
72650090 ATTTTGATAA
*
72650100 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
72650120 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
72650140 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
72650160 ACATGAT
1 ACATGAT
72650167 GTAATCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:72650352 original size:25 final size:25
Alignment explanation
Indices: 72650318--72650387 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
72650308 GAGGAAGTGC
*
72650318 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
72650343 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
72650368 AAAAGGGCTTTGCCCTAGTT
1 AAAAGGGCTTTGCCCCAGTT
72650388 ATTTAGAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:72661722 original size:43 final size:40
Alignment explanation
Indices: 72661623--72661806 Score: 223
Period size: 40 Copynumber: 4.6 Consensus size: 40
72661613 TATTCAGATG
* *
72661623 ATATCAGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
72661663 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
*
72661706 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
72661746 ACATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
72661786 AT-TCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
72661807 TACTTGGGTT
Statistics
Matches: 126, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
38 14 0.11
39 5 0.04
40 68 0.54
41 2 0.02
43 35 0.28
44 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:72661768 original size:83 final size:83
Alignment explanation
Indices: 72661629--72661781 Score: 270
Period size: 83 Copynumber: 1.8 Consensus size: 83
72661619 GATGATATCA
* *
72661629 GGGCTAAGTCCCGAAGGCATTTATGCTAGTGACTATATCCGGGCGAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTATGCTAGTGACTACATCCGGGCGAAGACCCGAAGGCATTTGTG
72661694 CGAGTAGTTGCTATACCC
66 CGAGTAGTTGCTATACCC
* *
72661712 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTACATCCGGGCTAAGACCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTATGCTAGTGACTACATCCGGGCGAAGACCCGAAGGCATTTGTG
72661777 CGAGT
66 CGAGT
72661782 TGCTATTCCG
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 66 1.00
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.24
Consensus pattern (83 bp):
GGGCTAAGTCCCGAAGGCATTTATGCTAGTGACTACATCCGGGCGAAGACCCGAAGGCATTTGTG
CGAGTAGTTGCTATACCC
Found at i:72669064 original size:41 final size:40
Alignment explanation
Indices: 72669019--72669180 Score: 143
Period size: 41 Copynumber: 3.9 Consensus size: 40
72669009 TCTTAGTACC
72669019 GGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTAGACCACT
1 GGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTAGA-CACT
* * *
72669060 GGCTCGAAGGCCCTTC-AGAACTAAG-TCTGG-TTATGACACT
1 GGCTCAAAAGCCCTTCGAG-ACCAAGCTC-GGATTA-GACACT
* * *
72669100 GGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGCTATTAG-CACT
1 GGCTC--AAAAGCCCTTCGAGACCAAGCTCGG--ATTAGACACT
* *
72669143 GGCTTAGAAGCCCTTCGAGACCAAGCTCGGATTTAGAC
1 GGCTCAAAAGCCCTTCGAGACCAAGCTCGGA-TTAGAC
72669181 CCCGATTAGC
Statistics
Matches: 98, Mismatches: 11, Indels: 24
0.74 0.08 0.18
Matches are distributed among these distances:
39 1 0.01
40 20 0.20
41 45 0.46
42 17 0.17
43 11 0.11
44 1 0.01
45 3 0.03
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (40 bp):
GGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTAGACACT
Found at i:72672898 original size:39 final size:39
Alignment explanation
Indices: 72672844--72673016 Score: 161
Period size: 39 Copynumber: 4.4 Consensus size: 39
72672834 CAAACGAGTA
** *
72672844 CCTTC-GGACTTTAGCCAGATATAGCCACTAGCTCAAATG
1 CCTTCGGGAC-TTAGCCAGATATAGTAACTCGCTCAAATG
* * * *
72672883 CCTTCGGGACTTAGCCCGGTTATAGTGACTCGCACAAATG
1 CCTTCGGGACTTAG-CCAGATATAGTAACTCGCTCAAATG
* * *
72672923 CCTTCGGGACTTAGCCCGGTATAATAACTCGCAT-AAATG
1 CCTTCGGGACTTAGCCAGATATAGTAACTCGC-TCAAATG
* * * * * *
72672962 CCTTCGGGACTTAGCCCGGTATAATAACTCGCACGAGTG
1 CCTTCGGGACTTAGCCAGATATAGTAACTCGCTCAAATG
72673001 CCTTCGGGACTTAGCC
1 CCTTCGGGACTTAGCC
72673017 CGGTTATCAA
Statistics
Matches: 116, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
39 79 0.68
40 37 0.32
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCAGATATAGTAACTCGCTCAAATG
Found at i:72673017 original size:39 final size:39
Alignment explanation
Indices: 72672877--72673020 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
72672867 GCCACTAGCT
* *
72672877 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAATAACTCGCA
72672917 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
*
72672956 TAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
* *
72672995 CGAGTGCCTTCGGGACTTAGCCCGGT
1 CAAATGCCTTCGGGACTTAGCCCGGT
72673021 TATCAACCGA
Statistics
Matches: 98, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 73 0.74
40 25 0.26
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
Found at i:72674301 original size:24 final size:24
Alignment explanation
Indices: 72674257--72674302 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
72674247 AGGATGGACA
*
72674257 CATTTTTTTTTCTTTTGTTTTCAT
1 CATTTTTTTCTCTTTTGTTTTCAT
72674281 CATTTTCTTTCTCTTTT-TTTTC
1 CATTTT-TTTCTCTTTTGTTTTC
72674303 CCATTTCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.07, C:0.17, G:0.02, T:0.74
Consensus pattern (24 bp):
CATTTTTTTCTCTTTTGTTTTCAT
Found at i:72674307 original size:23 final size:25
Alignment explanation
Indices: 72674257--72674312 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
72674247 AGGATGGACA
* *
72674257 CATTTT-TTTTTCTTTTGTTTTCAT
1 CATTTTCTTTCTCTTTTGTTTTCAC
72674281 CATTTTCTTTCTCTTTT-TTTTC-C
1 CATTTTCTTTCTCTTTTGTTTTCAC
72674304 CA-TTTCTTT
1 CATTTTCTTT
72674313 ATTACTAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 7 0.24
23 2 0.07
24 11 0.38
25 9 0.31
ACGTcount: A:0.07, C:0.20, G:0.02, T:0.71
Consensus pattern (25 bp):
CATTTTCTTTCTCTTTTGTTTTCAC
Found at i:72680911 original size:18 final size:18
Alignment explanation
Indices: 72680885--72680937 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
72680875 CAAATTCCCG
*
72680885 TAATTATAATGAAAATAA
1 TAATAATAATGAAAATAA
**
72680903 TAATAATAATTCAAATAA
1 TAATAATAATGAAAATAA
72680921 TAATAACATAATGAAAA
1 TAAT-A-ATAATGAAAA
72680938 CCTTATTACA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 19 0.68
19 1 0.04
20 8 0.29
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (18 bp):
TAATAATAATGAAAATAA
Found at i:72681854 original size:29 final size:29
Alignment explanation
Indices: 72681791--72681898 Score: 130
Period size: 29 Copynumber: 3.8 Consensus size: 29
72681781 TTCACATACC
* * *
72681791 TGTATCTGGCCCATTAAGCCC-AATCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
*
72681819 T-TCATATGGCCCATTAGGCCCAAATCACC
1 TGT-ATATGGCCCATTAGGCCCAAATCACA
*
72681848 TGTATATGGCCCATTAGGCCCAAATGACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* *
72681877 TTTATATGGCCCGTTAGGCCCA
1 TGTATATGGCCCATTAGGCCCA
72681899 TCACATTCAT
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
27 1 0.01
28 17 0.25
29 50 0.72
30 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:72681858 original size:57 final size:58
Alignment explanation
Indices: 72681788--72681898 Score: 161
Period size: 58 Copynumber: 1.9 Consensus size: 58
72681778 AATTTCACAT
* *
72681788 ACCTGTATCTGGCCCATTAAGCCC-AATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCAAATC
* * * *
72681845 ACCTGTATATGGCCCATTAGGCCCAAATGACATTTATATGGCCCGTTAGGCCCA
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCA
72681899 TCACATTCAT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 22 0.47
58 25 0.53
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (58 bp):
ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCAAATC
Found at i:72682046 original size:55 final size:55
Alignment explanation
Indices: 72681980--72682091 Score: 197
Period size: 55 Copynumber: 2.0 Consensus size: 55
72681970 GACCTAACAG
**
72681980 CCCATCGGGCCCATTTACCCCATTCCTTCCCATATGGCCAAATCACAACCCAAGT
1 CCCATCGGGCCCATTTACCCCATTCCGGCCCATATGGCCAAATCACAACCCAAGT
*
72682035 CCCATCGGGCCCATTTACCCCATTTCGGCCCATATGGCCAAATCACAACCCAAGT
1 CCCATCGGGCCCATTTACCCCATTCCGGCCCATATGGCCAAATCACAACCCAAGT
72682090 CC
1 CC
72682092 ACGGAATCGC
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.25, C:0.42, G:0.12, T:0.21
Consensus pattern (55 bp):
CCCATCGGGCCCATTTACCCCATTCCGGCCCATATGGCCAAATCACAACCCAAGT
Found at i:72682200 original size:16 final size:16
Alignment explanation
Indices: 72682176--72682218 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
72682166 GTAGCCAAAC
72682176 TTTCAGCTTTTCGACA
1 TTTCAGCTTTTCGACA
* *
72682192 TTTCGGCTTTTCGGCA
1 TTTCAGCTTTTCGACA
*
72682208 TTTCAGGTTTT
1 TTTCAGCTTTT
72682219 GCTGATACAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.12, C:0.21, G:0.19, T:0.49
Consensus pattern (16 bp):
TTTCAGCTTTTCGACA
Found at i:72683517 original size:16 final size:16
Alignment explanation
Indices: 72683492--72683523 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
72683482 AAGTTCGGGA
72683492 TTTTGAGATTTTTGGG
1 TTTTGAGATTTTTGGG
*
72683508 TTTTGGGATTTTTGGG
1 TTTTGAGATTTTTGGG
72683524 GTGTTACACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.00, G:0.34, T:0.56
Consensus pattern (16 bp):
TTTTGAGATTTTTGGG
Found at i:72684215 original size:15 final size:16
Alignment explanation
Indices: 72684180--72684210 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
72684170 GCAAAAGCTG
*
72684180 AAAAGTTAAAATGCCA
1 AAAAGCTAAAATGCCA
72684196 AAAAGCTAAAATGCC
1 AAAAGCTAAAATGCC
72684211 GAAAGTTTGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.16, G:0.13, T:0.16
Consensus pattern (16 bp):
AAAAGCTAAAATGCCA
Found at i:72684565 original size:28 final size:28
Alignment explanation
Indices: 72684447--72684572 Score: 130
Period size: 29 Copynumber: 4.4 Consensus size: 28
72684437 TTTGGGTCGG
* *
72684447 ATGGGCCATATAAATGAGATTGGACCTA
1 ATGGGCCATATGAATGAGATTGGGCCTA
* *
72684475 ATGAGCCATATGAATGTGAATTGGGCCTA
1 ATGGGCCATATGAATGAG-ATTGGGCCTA
* **
72684504 ATAGGCCATATGAACGTGA-ATTGGGCCGG
1 ATGGGCCATATGAA--TGAGATTGGGCCTA
72684533 ATGGGCCATAT-AATAGAGATTGGGCCTA
1 ATGGGCCATATGAAT-GAGATTGGGCCTA
*
72684561 GTGGGCCATATG
1 ATGGGCCATATG
72684573 CATGTATGTA
Statistics
Matches: 79, Mismatches: 13, Indels: 11
0.77 0.13 0.11
Matches are distributed among these distances:
26 1 0.01
27 2 0.03
28 35 0.44
29 39 0.49
31 2 0.03
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (28 bp):
ATGGGCCATATGAATGAGATTGGGCCTA
Found at i:72689927 original size:201 final size:202
Alignment explanation
Indices: 72689547--72689942 Score: 571
Period size: 201 Copynumber: 2.0 Consensus size: 202
72689537 AGTGAAAAAT
* * *
72689547 CAGTTCCTATTGGATAAATCAGTTTTTATTGAATTAATTGAAACTATGTATGTCATTGAATTATT
1 CAGTTCCTATTGGACAAATAAGTTTTTATTGAATTAATTAAAACTATGTATGTCATTGAATTATT
* * **
72689612 CAAATATGATTCAAATCATTTTTTAAATGTTGATTCAAATATGATTATTGTTTGTATTAAACTAA
66 CAAATATGATTCAAATCATTTTTTAAATATTGATTCAAATATGATTATTATTTGTAACAAACTAA
* * * * * *
72689677 ATTACAAGTTTGGACTTTTGTATACTTATTGTCTGCTATGTGCATACTAATTACCTTAGGAAAGA
131 ATTACAAGTTTGCACTTTTGTAAACTTATTGTCCGCCATATGAATACTAATTACCTTAGGAAAGA
72689742 GGCAAAC
196 GGCAAAC
* * *
72689749 CAGTTTCTATTTGACAAATAAG-TTTTATTGAATTATTTAAAACTATGTATGTCATTGAATTATT
1 CAGTTCCTATTGGACAAATAAGTTTTTATTGAATTAATTAAAACTATGTATGTCATTGAATTATT
*
72689813 CAAATATGATTCAAAAT-ATTTTTTAAATATTGATTGAAATATGATTATTATTTGTAACAAACTA
66 CAAATATGATTC-AAATCATTTTTTAAATATTGATTCAAATATGATTATTATTTGTAACAAACTA
* * * * *
72689877 AATTGCAGGTTTGCATTTTTGTAAACTTATTGTCCGCCGTATGAATACTAATTGCCTTAGGAAAG
130 AATTACAAGTTTGCACTTTTGTAAACTTATTGTCCGCCATATGAATACTAATTACCTTAGGAAAG
72689942 A
195 A
72689943 CACAAATCAA
Statistics
Matches: 171, Mismatches: 22, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
201 149 0.87
202 22 0.13
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.42
Consensus pattern (202 bp):
CAGTTCCTATTGGACAAATAAGTTTTTATTGAATTAATTAAAACTATGTATGTCATTGAATTATT
CAAATATGATTCAAATCATTTTTTAAATATTGATTCAAATATGATTATTATTTGTAACAAACTAA
ATTACAAGTTTGCACTTTTGTAAACTTATTGTCCGCCATATGAATACTAATTACCTTAGGAAAGA
GGCAAAC
Found at i:72692986 original size:20 final size:20
Alignment explanation
Indices: 72692949--72692986 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
72692939 CCACATAATT
*
72692949 CATAAAATTTAGAATTTTTC
1 CATAAAATTTACAATTTTTC
*
72692969 CATAAATTTTAC-ATTTTT
1 CATAAAATTTACAATTTTT
72692987 ATAATTTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.37, C:0.11, G:0.03, T:0.50
Consensus pattern (20 bp):
CATAAAATTTACAATTTTTC
Found at i:72697740 original size:43 final size:43
Alignment explanation
Indices: 72697677--72697818 Score: 180
Period size: 43 Copynumber: 3.3 Consensus size: 43
72697667 GTGCTGGTAT
*
72697677 TATATTCGGGCCTTCGTGCCTAGCATGCTTTGTGCCGGTGATG
1 TATATTCGGGCCTTCATGCCTAGCATGCTTTGTGCCGGTGATG
*
72697720 TATATTCGGGCCTTCATGCCTAGCAGGCTTTGTGCCGGTGATG
1 TATATTCGGGCCTTCATGCCTAGCATGCTTTGTGCCGGTGATG
* * **
72697763 TGTATTCGGGCCTTTGA-GCCTAGCATGCTATAATGCCGGTGA-G
1 TATATTCGGGCC-TTCATGCCTAGCATGCT-TTGTGCCGGTGATG
72697806 ATACTATTCGGGC
1 -TA-TATTCGGGC
72697819 TTTCGATATC
Statistics
Matches: 87, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
43 64 0.74
44 14 0.16
45 9 0.10
ACGTcount: A:0.15, C:0.23, G:0.30, T:0.32
Consensus pattern (43 bp):
TATATTCGGGCCTTCATGCCTAGCATGCTTTGTGCCGGTGATG
Found at i:72700796 original size:33 final size:33
Alignment explanation
Indices: 72700758--72700828 Score: 142
Period size: 33 Copynumber: 2.2 Consensus size: 33
72700748 GCTTAGTAAG
72700758 TACATATAATAGGAATTTAACTTACCATGTATT
1 TACATATAATAGGAATTTAACTTACCATGTATT
72700791 TACATATAATAGGAATTTAACTTACCATGTATT
1 TACATATAATAGGAATTTAACTTACCATGTATT
72700824 TACAT
1 TACAT
72700829 TTAAGATTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.39
Consensus pattern (33 bp):
TACATATAATAGGAATTTAACTTACCATGTATT
Found at i:72701506 original size:25 final size:25
Alignment explanation
Indices: 72701478--72701535 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
72701468 TATTGATCAA
72701478 GATGCTCGTAGGAACG-ATATAACAG
1 GATGCTCGTA-GAACGCATATAACAG
** *
72701503 GATGCTCG-AGAGGGCTTATAACAG
1 GATGCTCGTAGAACGCATATAACAG
72701527 GATGCTCGT
1 GATGCTCGT
72701536 CCAAGCTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
23 3 0.11
24 17 0.61
25 8 0.29
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.22
Consensus pattern (25 bp):
GATGCTCGTAGAACGCATATAACAG
Found at i:72712342 original size:21 final size:21
Alignment explanation
Indices: 72712316--72712374 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
72712306 GTGAAGGGTA
*
72712316 GCACATGGCCATGTGATAG-AG
1 GCACATGGCCGTGTGA-AGCAG
*
72712337 GCACATGCCCGTGTGAAGCAG
1 GCACATGGCCGTGTGAAGCAG
*
72712358 GGACATGGCCGTGTGAA
1 GCACATGGCCGTGTGAA
72712375 TAGGTCATGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 2 0.06
21 31 0.94
ACGTcount: A:0.25, C:0.22, G:0.36, T:0.17
Consensus pattern (21 bp):
GCACATGGCCGTGTGAAGCAG
Found at i:72718278 original size:27 final size:27
Alignment explanation
Indices: 72718248--72718425 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
72718238 ATATTGAGCC
* * *
72718248 CGCACACTCAATGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
72718275 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
72718302 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
72718330 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
72718357 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
72718384 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
72718411 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
72718426 GTACAATTTA
Statistics
Matches: 128, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 103 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:72718389 original size:82 final size:81
Alignment explanation
Indices: 72718269--72718424 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
72718259 TGCTATATAA
* * *
72718269 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
72718334 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
72718351 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
72718415 CACTTAGTGC
65 CACTTAGTGC
72718425 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:72742061 original size:40 final size:40
Alignment explanation
Indices: 72742003--72742289 Score: 362
Period size: 40 Copynumber: 7.2 Consensus size: 40
72741993 ATTTGAATAA
* *
72742003 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTT
1 TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* *
72742043 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGACTT
1 TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTT
*
72742083 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* *
72742123 TATCCGAGTTAAGACCTGAAGGCATTTGTGCTAGTGATTT
1 TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* * * *
72742163 TATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* * * *
72742203 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* * * * *
72742243 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTA
1 TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTT
72742283 TATCCGG
1 TATCCGG
72742290 CTAAATTCTG
Statistics
Matches: 222, Mismatches: 22, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
39 2 0.01
40 217 0.98
41 3 0.01
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (40 bp):
TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTT
Found at i:72746598 original size:40 final size:40
Alignment explanation
Indices: 72746541--72747041 Score: 713
Period size: 40 Copynumber: 12.6 Consensus size: 40
72746531 TATTCGGATG
* *
72746541 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
72746581 ATATCTGGGCTATGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
**
72746621 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
72746661 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
**
72746701 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
72746741 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * *
72746781 ATATCTGGGCTAAGTCTCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
72746821 ATATCTGGGCTAAGTCCC-AGAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGA-AGGCATTTGTGCTAGTGACT
* * *
72746861 ATATCCGGGCTAAGTCCCGAGGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
72746901 ATATCTGGGCTAAGTCCC-AGAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGA-AGGCATTTGTGCTAGTGACT
**
72746941 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
72746981 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
72747021 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
72747042 ATACTTGGGT
Statistics
Matches: 414, Mismatches: 42, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
39 15 0.04
40 395 0.95
41 4 0.01
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:72749993 original size:42 final size:43
Alignment explanation
Indices: 72749916--72750017 Score: 109
Period size: 42 Copynumber: 2.4 Consensus size: 43
72749906 TCCCGGACGT
* * **
72749916 GGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAGATAG
1 GGTCTTACACGTAAATCAATATCGATGCCGATGTCCCAGATAG
* *
72749959 GGTCTTACACG-AAATCAGATA-CGATGCCGATGTCCCAGACAT
1 GGTCTTACACGTAAATCA-ATATCGATGCCGATGTCCCAGATAG
* *
72750001 GGTCCTATACGTAAATC
1 GGTCTTACACGTAAATC
72750018 TCAATCAAAG
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
42 31 0.63
43 18 0.37
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (43 bp):
GGTCTTACACGTAAATCAATATCGATGCCGATGTCCCAGATAG
Found at i:72755713 original size:27 final size:26
Alignment explanation
Indices: 72755665--72755716 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
72755655 GCGAGGCTGC
*
72755665 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
72755691 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
72755717 TTACAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:72756399 original size:27 final size:27
Alignment explanation
Indices: 72756369--72756478 Score: 114
Period size: 27 Copynumber: 4.1 Consensus size: 27
72756359 GGGGCAAAAT
* *
72756369 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATCTC
*
72756396 GGTAATTCTACCCTAC-AGTGGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATCTC
* * *
72756423 GGTATTTCTATCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATCTC
* * * *
72756450 GATAGTTCTATCCTACAGGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATCTC
72756477 GG
1 GG
72756479 AAATCAAGGG
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
26 2 0.03
27 67 0.94
28 2 0.03
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATCTC
Found at i:72764729 original size:43 final size:42
Alignment explanation
Indices: 72764630--72764754 Score: 144
Period size: 43 Copynumber: 3.0 Consensus size: 42
72764620 AGGGTTACTA
* * * *
72764630 AGATTACATATAAAACAATATCTGGGATATGGCATCGACATG
1 AGATTACATATAAGACCATATCTGGGATATGGCATCGATACG
* * *
72764672 AGACTT-CGTATAAGACCATAGCTGGGCTATTGGCATCGATACG
1 AGA-TTACATATAAGACCATATCTGGGATA-TGGCATCGATACG
* *
72764715 AGATTACATGTAAGACCATATCTGGGATATGGCATTGATA
1 AGATTACATATAAGACCATATCTGGGATATGGCATCGATA
72764755 TGGTACTGAG
Statistics
Matches: 68, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
42 33 0.49
43 35 0.51
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.27
Consensus pattern (42 bp):
AGATTACATATAAGACCATATCTGGGATATGGCATCGATACG
Found at i:72764907 original size:23 final size:23
Alignment explanation
Indices: 72764877--72764923 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
72764867 TACAGGTATG
72764877 TACATAAGTTTATAAGCATTGAC
1 TACATAAGTTTATAAGCATTGAC
72764900 TACATAAGTTTATAAGCATTGAC
1 TACATAAGTTTATAAGCATTGAC
72764923 T
1 T
72764924 TCATGGTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (23 bp):
TACATAAGTTTATAAGCATTGAC
Found at i:72766276 original size:20 final size:20
Alignment explanation
Indices: 72766251--72766300 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
72766241 CACGGACTAC
72766251 CCACACGGGCATGTCCCAAG
1 CCACACGGGCATGTCCCAAG
72766271 CCACACGGGCATGTCCCAAG
1 CCACACGGGCATGTCCCAAG
*
72766291 CCACATGGGC
1 CCACACGGGC
72766301 GTGTGACCTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.24, C:0.40, G:0.26, T:0.10
Consensus pattern (20 bp):
CCACACGGGCATGTCCCAAG
Found at i:72774000 original size:43 final size:42
Alignment explanation
Indices: 72773928--72774078 Score: 171
Period size: 43 Copynumber: 3.5 Consensus size: 42
72773918 TATCCCAGAT
* * *
72773928 ATGGTCTTACATGTTATCACAT-ATCGATGTCGATAG-CCCAGC
1 ATGGTCTTACACGTAATCACATAAT-GATGTCAAT-GTCCCAGC
* * *
72773970 TATGGTCTTACACGAAATCAAATAATGATGTCAATGTCCCAAAC
1 -ATGGTCTTACACGTAATCACATAATGATGTCAATGTCCC-AGC
* *
72774014 ATGATCTTACACGTAATCACATAATGATGCCAATGTCCCAGGC
1 ATGGTCTTACACGTAATCACATAATGATGTCAATGTCCCA-GC
72774057 ATGGTCTTACACGTAATCACAT
1 ATGGTCTTACACGTAATCACAT
72774079 CTTGTTAATA
Statistics
Matches: 92, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
42 2 0.02
43 86 0.93
44 4 0.04
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.28
Consensus pattern (42 bp):
ATGGTCTTACACGTAATCACATAATGATGTCAATGTCCCAGC
Found at i:72777337 original size:79 final size:82
Alignment explanation
Indices: 72777226--72777410 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
72777216 GCTACTCGTT
* * *
72777226 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
72777289 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
72777306 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
72777369 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
72777386 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
72777411 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:72777410 original size:40 final size:40
Alignment explanation
Indices: 72777207--72777410 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
72777197 CGGAATTTAA
** *
72777207 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
72777247 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
72777287 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
72777326 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
72777366 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
72777406 CCGGA
1 CCGGA
72777411 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:72780873 original size:67 final size:64
Alignment explanation
Indices: 72780735--72780918 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
72780725 ATATAGTTCG
* * * * * * *
72780735 GCTCTCTTGTAC-ACATGGTGAACAC-TCAGTACCACCCATGTGACCTAGCCA-ATTTATCTCGT
1 GCTCTCTTGT-CTACATGGTGTACACAT-GGAACCACCCATGCGACCTAGCTACATATATCCCGT
72780797 A
64 A
* * *
72780798 GCTCTCTTGTCTACATGGTGTCCTTCACTTGGAACCACGCATGCGACCTAGCTACATATATCCCG
1 GCTCTCTTGTCTACATGGTG---TACACATGGAACCACCCATGCGACCTAGCTACATATATCCCG
72780863 TA
63 TA
* *
72780865 GCTCTCTTGTCTACATGGTGTACACATGGTATCACCCATGCGACCTAGCTACAT
1 GCTCTCTTGTCTACATGGTGTACACATGGAACCACCCATGCGACCTAGCTACAT
72780919 TATAATGTCT
Statistics
Matches: 101, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.18
64 29 0.29
66 22 0.22
67 31 0.31
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.29
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACATGGAACCACCCATGCGACCTAGCTACATATATCCCGTA
Found at i:72781894 original size:22 final size:22
Alignment explanation
Indices: 72781866--72781912 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
72781856 TTTCACTCGA
72781866 AACCGAGTAGCACAAGTTGTCT
1 AACCGAGTAGCACAAGTTGTCT
72781888 AACCGAGTAGCACAAGTTGTCT
1 AACCGAGTAGCACAAGTTGTCT
72781910 AAC
1 AAC
72781913 ATAATTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.21
Consensus pattern (22 bp):
AACCGAGTAGCACAAGTTGTCT
Found at i:72787329 original size:21 final size:22
Alignment explanation
Indices: 72787289--72787329 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
72787279 TTCCAAATAA
* *
72787289 AACATTATATCATTTCTAATTC
1 AACATTATATCAATTATAATTC
72787311 AACATT-TATCAATTATAAT
1 AACATTATATCAATTATAAT
72787330 CGGGCATGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (22 bp):
AACATTATATCAATTATAATTC
Found at i:72788569 original size:15 final size:16
Alignment explanation
Indices: 72788542--72788571 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
72788532 AGATATTCCA
72788542 ATTTAGTCCCATTTTT
1 ATTTAGTCCCATTTTT
72788558 ATTTAG-CCCATTTT
1 ATTTAGTCCCATTTT
72788572 GGCAATTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.53
Consensus pattern (16 bp):
ATTTAGTCCCATTTTT
Found at i:72791979 original size:5 final size:5
Alignment explanation
Indices: 72791948--72791990 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
72791938 TAAATTTAAC
* * *
72791948 TCAAT TTAAT ACAAT TCATAA TCAAT TCAAT TCAAT TCAAT TC
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCAAT TC
72791991 GCATCCTAGG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
5 27 0.87
6 4 0.13
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.40
Consensus pattern (5 bp):
TCAAT
Found at i:72795199 original size:27 final size:26
Alignment explanation
Indices: 72795112--72795203 Score: 96
Period size: 27 Copynumber: 3.5 Consensus size: 26
72795102 AATAACTGAT
*
72795112 TTCGCACACTTAGTGCTCAAAAAT-TAA
1 TTCGCACACTTAGTGCTC--AAATCAAA
* * * *
72795139 TTCACACACATAGTGCTTAAATCCAA
1 TTCGCACACTTAGTGCTCAAATCAAA
*
72795165 CTCGCACACTTAGTGCTCAATATCAAA
1 TTCGCACACTTAGTGCTCAA-ATCAAA
72795192 TTCGCACACTTA
1 TTCGCACACTTA
72795204 ATGCATCCTT
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
25 4 0.08
26 18 0.34
27 31 0.58
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.28
Consensus pattern (26 bp):
TTCGCACACTTAGTGCTCAAATCAAA
Found at i:72795410 original size:32 final size:32
Alignment explanation
Indices: 72795351--72795449 Score: 105
Period size: 32 Copynumber: 3.1 Consensus size: 32
72795341 CTCAATCGGC
* * *
72795351 TATATCAAACTACACCTAGATACACATTCAGT
1 TATATCCAACTACACATATATACACATTCAGT
* *
72795383 TATATCCAA-TCACACATATATAGACATTCAACT
1 TATATCCAACT-ACACATATATACACATTC-AGT
72795416 T-TATCCAACTACACATATATACACACTT-AGT
1 TATATCCAACTACACATATATACACA-TTCAGT
72795447 TAT
1 TAT
72795450 GTCAAACATA
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
31 4 0.07
32 45 0.82
33 6 0.11
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.31
Consensus pattern (32 bp):
TATATCCAACTACACATATATACACATTCAGT
Found at i:72798397 original size:23 final size:23
Alignment explanation
Indices: 72798353--72798397 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
72798343 ACTAACCCTT
* * *
72798353 TGTGGCATATTTTGTATAGCCTA
1 TGTGACATATTCTGGATAGCCTA
*
72798376 TGTGACATATTCTGGATGGCCT
1 TGTGACATATTCTGGATAGCCT
72798398 TTGCGGAAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.20, C:0.16, G:0.24, T:0.40
Consensus pattern (23 bp):
TGTGACATATTCTGGATAGCCTA
Found at i:72803181 original size:28 final size:28
Alignment explanation
Indices: 72803141--72803230 Score: 137
Period size: 28 Copynumber: 3.2 Consensus size: 28
72803131 TGTACTAGAG
*
72803141 TACCCCTATGTATGAAAAATTACCATCA
1 TACCCCTATGTATGCAAAATTACCATCA
*
72803169 TACCCCTATGTATGCAAAATTACCATTA
1 TACCCCTATGTATGCAAAATTACCATCA
*
72803197 TACCCCTATGTATGCAAAATAACC-TCTA
1 TACCCCTATGTATGCAAAATTACCATC-A
72803225 TACCCC
1 TACCCC
72803231 AGGGTTAATT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
27 1 0.02
28 56 0.98
ACGTcount: A:0.36, C:0.29, G:0.07, T:0.29
Consensus pattern (28 bp):
TACCCCTATGTATGCAAAATTACCATCA
Found at i:72803398 original size:27 final size:28
Alignment explanation
Indices: 72803337--72803426 Score: 103
Period size: 27 Copynumber: 3.2 Consensus size: 28
72803327 AGGAAGCGTC
*
72803337 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* * **
72803365 CTAGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
72803392 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
72803421 CTGGTG
1 CTGGTG
72803427 ACTCTGTCAC
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
27 22 0.44
28 21 0.42
29 7 0.14
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:72803437 original size:29 final size:28
Alignment explanation
Indices: 72803347--72803437 Score: 85
Period size: 27 Copynumber: 3.2 Consensus size: 28
72803337 CTGGTGGCTA
* * * *
72803347 TGCCACAAATTATCTGTTCTAGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
72803375 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
72803402 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
72803431 TGTCACA
1 TGCCACA
72803438 TTTTCTGTAT
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
27 22 0.43
28 14 0.27
29 15 0.29
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:72803445 original size:55 final size:56
Alignment explanation
Indices: 72803337--72803451 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 56
72803327 AGGAAGCGTC
* * *
72803337 CTGGTGGCTATGCCACAAATTATCTGTTCTAGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTAGTGACCCTGCCACATATATCTGTAT
* * * *
72803392 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTAGTGACCCTGCCACATATATCTGTAT
72803448 CTGG
1 CTGG
72803452 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.60
56 19 0.38
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTAGTGACCCTGCCACATATATCTGTAT
Found at i:72811148 original size:28 final size:29
Alignment explanation
Indices: 72811063--72811154 Score: 145
Period size: 28 Copynumber: 3.3 Consensus size: 29
72811053 TGTACTAGAG
72811063 TACCCCTATGTATGCAAAATTACCATC-A
1 TACCCCTATGTATGCAAAATTACCATCTA
72811091 TACCCCTATGTATGCAAAATTACCAT-TA
1 TACCCCTATGTATGCAAAATTACCATCTA
*
72811119 TACCCCTATGTATGCAAAATAACC-TCTA
1 TACCCCTATGTATGCAAAATTACCATCTA
*
72811147 TACGCCTA
1 TACCCCTA
72811155 GGGTTAATTT
Statistics
Matches: 60, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
27 1 0.02
28 59 0.98
ACGTcount: A:0.35, C:0.28, G:0.08, T:0.29
Consensus pattern (29 bp):
TACCCCTATGTATGCAAAATTACCATCTA
Found at i:72811301 original size:28 final size:27
Alignment explanation
Indices: 72811260--72811349 Score: 92
Period size: 28 Copynumber: 3.2 Consensus size: 27
72811250 AGGAAGCGTC
72811260 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* ** *
72811288 CTGGTGGCCCTGCCACGTATATTTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
*
72811315 CTGGTGGCACTACCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
72811344 CTGGTG
1 CTGGTG
72811350 ACTCTGTCAC
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
27 21 0.42
28 22 0.44
29 7 0.14
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.33
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:72818557 original size:23 final size:23
Alignment explanation
Indices: 72818527--72818652 Score: 123
Period size: 23 Copynumber: 5.4 Consensus size: 23
72818517 AGCTTACTAT
*
72818527 TTTCAGCTCATTGGAGCTTACCG
1 TTTCAGCTCATTAGAGCTTACCG
*
72818550 TTTCAGCTC-TTATGAGCTTACTG
1 TTTCAGCTCATTA-GAGCTTACCG
72818573 TTT-AGCTCGA-TAGAGCTTACCG
1 TTTCAGCTC-ATTAGAGCTTACCG
* * * *
72818595 TTTCAGCTCAGTGGAGCTTATCA
1 TTTCAGCTCATTAGAGCTTACCG
* *
72818618 TTTCAGCTCAATAGAGCTTACTG
1 TTTCAGCTCATTAGAGCTTACCG
72818641 TTCATCAGCTCA
1 TT--TCAGCTCA
72818653 GAAGGAGCTT
Statistics
Matches: 85, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
22 20 0.24
23 57 0.67
25 8 0.09
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (23 bp):
TTTCAGCTCATTAGAGCTTACCG
Found at i:72818612 original size:45 final size:45
Alignment explanation
Indices: 72818516--72818664 Score: 142
Period size: 45 Copynumber: 3.2 Consensus size: 45
72818506 CAGATCGAAA
* *
72818516 GAGCTTACTATTTTCAGCTCATTGGAGCTTACCGTTTCAGCTCTTA-T-
1 GAGCTTAC-A-TTTCAGCTCAATAGAGCTTACCGTTTCAGCTC--AGTG
* *
72818563 GAGCTTAC-TGTTTAGCTCGATAGAGCTTACCGTTTCAGCTCAGTG
1 GAGCTTACAT-TTCAGCTCAATAGAGCTTACCGTTTCAGCTCAGTG
* *
72818608 GAGCTTATCATTTCAGCTCAATAGAGCTTACTGTTCATCAGCTCAGAAG
1 GAGCTTA-CATTTCAGCTCAATAGAGCTTACCGTT--TCAGCTCAG-TG
72818657 GAGCTTAC
1 GAGCTTAC
72818665 CAATCATGGC
Statistics
Matches: 86, Mismatches: 8, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
45 34 0.40
46 22 0.26
47 9 0.10
48 10 0.12
49 8 0.09
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (45 bp):
GAGCTTACATTTCAGCTCAATAGAGCTTACCGTTTCAGCTCAGTG
Found at i:72820900 original size:53 final size:53
Alignment explanation
Indices: 72820706--72820959 Score: 218
Period size: 53 Copynumber: 4.8 Consensus size: 53
72820696 ATTAGGGTTT
* * *
72820706 AAGGATACCGTGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-CATTGGTAA-G-TTCATAAGGC
* * * * *
72820761 AA-GAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAATGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C-ATAAGGC
* * * *
72820815 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCGTTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
* *
72820868 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT--TCAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCAT-AAGGC
* * * * *
72820917 AAGAATACCACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
72820960 GTGCCCGTGT
Statistics
Matches: 165, Mismatches: 27, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
49 39 0.24
51 3 0.02
52 8 0.05
53 47 0.28
54 31 0.19
55 36 0.22
56 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:72820911 original size:108 final size:109
Alignment explanation
Indices: 72820716--72820912 Score: 292
Period size: 108 Copynumber: 1.8 Consensus size: 109
72820706 AAGGATACCG
*
72820716 TGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGAAATCATGTAAGACCAT
1 TGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGAAACCATGTAAGACCAT
*
72820781 GTCAAGACATGGCATTGATAAGTTACTATAATGCAAAGGTCCCA
66 GTCAAGACATGGCAATGATAAGTTACTATAATGCAAAGGTCCCA
** * *
72820825 TGTAAGACCATGCCAAGGCATGG-CGTTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAGACC
1 TGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAA-GAAACCATGTAAGACC
*
72820887 ATGTCAAGACATGGCAATGGTAAGTT
64 ATGTCAAGACATGGCAATGATAAGTT
72820913 TCAAAAGAAT
Statistics
Matches: 79, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
106 3 0.04
107 9 0.11
108 44 0.56
109 23 0.29
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (109 bp):
TGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGAAACCATGTAAGACCAT
GTCAAGACATGGCAATGATAAGTTACTATAATGCAAAGGTCCCA
Found at i:72821177 original size:16 final size:16
Alignment explanation
Indices: 72821156--72821186 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
72821146 ATAAATTTGA
72821156 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
72821172 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
72821187 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:72826683 original size:47 final size:47
Alignment explanation
Indices: 72826630--72826758 Score: 195
Period size: 47 Copynumber: 2.7 Consensus size: 47
72826620 TTAGGATTCT
*
72826630 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCG
* * *
72826677 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCG
** *
72826724 ATGTGATGGGTGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
72826759 TCCCGAAGGG
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.31, C:0.07, G:0.33, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCG
Found at i:72839223 original size:19 final size:19
Alignment explanation
Indices: 72839178--72839214 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
72839168 GATCGAAAAT
72839178 GACTAAATTAAAATATAAA
1 GACTAAATTAAAATATAAA
72839197 GACTAAATTAAAATATAA
1 GACTAAATTAAAATATAA
72839215 GGGCTAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.27
Consensus pattern (19 bp):
GACTAAATTAAAATATAAA
Found at i:72841768 original size:30 final size:30
Alignment explanation
Indices: 72841734--72841791 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 30
72841724 CTCCACATGT
72841734 TTCATAACA-TATTTTTCCATTATCATCACA
1 TTCATAACATTA-TTTTCCATTATCATCACA
72841764 TTCATAACATTATTTTCCATTATCATCA
1 TTCATAACATTATTTTCCATTATCATCA
72841792 GATTGTACCT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 25 0.93
31 2 0.07
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.45
Consensus pattern (30 bp):
TTCATAACATTATTTTCCATTATCATCACA
Found at i:72844670 original size:19 final size:19
Alignment explanation
Indices: 72844646--72844688 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
72844636 ACATTATTTG
*
72844646 AAAAAT-AATTAAGTTTAGT
1 AAAAATGAATTAAGTATA-T
*
72844665 AAAAATGAATTTAGTATAT
1 AAAAATGAATTAAGTATAT
72844684 AAAAA
1 AAAAA
72844689 AGTAATTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (19 bp):
AAAAATGAATTAAGTATAT
Found at i:72844695 original size:20 final size:21
Alignment explanation
Indices: 72844646--72844695 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 21
72844636 ACATTATTTG
*
72844646 AAAAA-TAATTAAGTTTAGTA
1 AAAAAGTAATTAAGTATAGTA
* *
72844666 AAAATG-AATTTAGTATA-TA
1 AAAAAGTAATTAAGTATAGTA
72844685 AAAAAGTAATT
1 AAAAAGTAATT
72844696 CAAAAATATT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.34
Consensus pattern (21 bp):
AAAAAGTAATTAAGTATAGTA
Found at i:72844856 original size:17 final size:17
Alignment explanation
Indices: 72844823--72844856 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
72844813 TAGTAATTAA
*
72844823 AATATTATTTAACTTTG
1 AATATTATTGAACTTTG
*
72844840 AATATTATTGAATTTTG
1 AATATTATTGAACTTTG
72844857 CATTATTTGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.03, G:0.09, T:0.53
Consensus pattern (17 bp):
AATATTATTGAACTTTG
Found at i:72845659 original size:14 final size:15
Alignment explanation
Indices: 72845640--72845674 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
72845630 ACTTTATGTA
72845640 TTTTAATT-TGATAT
1 TTTTAATTATGATAT
*
72845654 TTTTAATTATTATAT
1 TTTTAATTATGATAT
72845669 TTTTAA
1 TTTTAA
72845675 AATTTTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (15 bp):
TTTTAATTATGATAT
Found at i:72847394 original size:19 final size:19
Alignment explanation
Indices: 72847370--72847439 Score: 110
Period size: 19 Copynumber: 3.8 Consensus size: 19
72847360 AGTTTAAGGT
72847370 ATTAGGGTTAATTGATTAA
1 ATTAGGGTTAATTGATTAA
72847389 ATTAGGG---ATTGATTAA
1 ATTAGGGTTAATTGATTAA
72847405 ATTAGGGTTAATTGATTAA
1 ATTAGGGTTAATTGATTAA
*
72847424 TTTAGGGTTAATTGAT
1 ATTAGGGTTAATTGAT
72847440 ACATAATTGT
Statistics
Matches: 47, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
16 16 0.34
19 31 0.66
ACGTcount: A:0.34, C:0.00, G:0.23, T:0.43
Consensus pattern (19 bp):
ATTAGGGTTAATTGATTAA
Found at i:72848200 original size:126 final size:126
Alignment explanation
Indices: 72847975--72848609 Score: 984
Period size: 126 Copynumber: 5.0 Consensus size: 126
72847965 GGGTTTCTGC
* * * ** * *
72847975 AAAAATAATTTTGAGTTGACGTTTCTGAACAAATAGGGTTAAAAACACTTCAAGCAGGATGTACT
1 AAAAATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACT
* * * *
72848040 GTCAGCAAAATTTCTGAAAAAAGCTCCCACGTGGATGTTATTTTGCTACAGTAGTTAGTAG
66 GTCAGTAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTAGTAG
72848101 AAAAATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACT
1 AAAAATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACT
* * *
72848166 GTCAGTAAAATTTCTGAAAAAAGCTCCCACGTGGATGTTATTTTGCTACAGTAGTTAGTAG
66 GTCAGTAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTAGTAG
72848227 AAAAATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACT
1 AAAAATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACT
* * *
72848292 GTCAGTAAAATTTCTGAAAAAAACTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAA
66 GTCAGTAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTAGTAG
* * * *
72848353 AAAAATAATTCTGAGTAGACATTTTTGAACAAATAGTGTTGAAAACGCTTCAAGCAAGATGCACT
1 AAAAATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACT
* * * * *
72848418 GTCAGCAAATTTTCTAAAAAAAGCTCCCACGTGGACGCTCTTTTACTACAGTAGTTTGTAG
66 GTCAGTAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTAGTAG
* *
72848479 AAAAATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGTACT
1 AAAAATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACT
* * *
72848544 GTCAGTAAAATTTCT-AAAAAAGTTCCCACGTGGACACTCTTTTGCTACAGTAGTTCGTAG
66 GTCAGTAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTAGTAG
72848604 AAAAAT
1 AAAAAT
72848610 GAGGCTATAA
Statistics
Matches: 472, Mismatches: 37, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
125 47 0.10
126 425 0.90
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.29
Consensus pattern (126 bp):
AAAAATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACT
GTCAGTAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTAGTAG
Found at i:72851835 original size:21 final size:21
Alignment explanation
Indices: 72851797--72851836 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
72851787 TGGATCAGCT
* *
72851797 TCCGGCAGGGGTTGTGGTTCC
1 TCCGGCAGGGGATCTGGTTCC
*
72851818 TCCGGTAGGGGATCTGGTT
1 TCCGGCAGGGGATCTGGTT
72851837 GTAAGTGTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.07, C:0.20, G:0.42, T:0.30
Consensus pattern (21 bp):
TCCGGCAGGGGATCTGGTTCC
Found at i:72852106 original size:18 final size:18
Alignment explanation
Indices: 72852083--72852120 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
72852073 GGAAAATGAA
*
72852083 ACATATAAGGGTTAGGAT
1 ACATATAAGGGCTAGGAT
72852101 ACATATAAGGGCTAGGAT
1 ACATATAAGGGCTAGGAT
72852119 AC
1 AC
72852121 GCACCTAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (18 bp):
ACATATAAGGGCTAGGAT
Found at i:72852717 original size:7 final size:7
Alignment explanation
Indices: 72852707--72852739 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
72852697 TTATATACAT
72852707 AATACTA
1 AATACTA
72852714 AATACTA
1 AATACTA
72852721 AATACTA
1 AATACTA
72852728 AATACTA
1 AATACTA
72852735 AATAC
1 AATAC
72852740 GAAACAACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:72853701 original size:23 final size:23
Alignment explanation
Indices: 72853666--72853710 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
72853656 ATAAAACAAA
*
72853666 AATTAATTAAAAT-TACATAAATT
1 AATTAATGAAAATAT-CATAAATT
*
72853689 AATTAATGCAAATATCATAAAT
1 AATTAATGAAAATATCATAAAT
72853711 GAAAAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.36
Consensus pattern (23 bp):
AATTAATGAAAATATCATAAATT
Found at i:72853845 original size:50 final size:47
Alignment explanation
Indices: 72853704--72853840 Score: 177
Period size: 50 Copynumber: 2.8 Consensus size: 47
72853694 ATGCAAATAT
* *
72853704 CATAAATGAAAAAAAAATCAAGTAGTATTGAAATTTTAATTATAATTG
1 CATAAATGAAAAAAATATCAAATAGTATTGAAA-TTTAATTATAATTG
*
72853752 CATAAATGAATAAAATATCAAATAGTATTGTGCAAATTTAATTA-AATTTG
1 CATAAATGAAAAAAATATCAAATAGTA-T-TG-AAATTTAATTATAA-TTG
*
72853802 CATAAATTAAAAAAATATCAAATAGTATTGAAAATTTAA
1 CATAAATGAAAAAAATATCAAATAGTATTG-AAATTTAA
72853841 AATTATCACT
Statistics
Matches: 79, Mismatches: 6, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
48 34 0.43
49 4 0.05
50 38 0.48
51 3 0.04
ACGTcount: A:0.53, C:0.05, G:0.09, T:0.34
Consensus pattern (47 bp):
CATAAATGAAAAAAATATCAAATAGTATTGAAATTTAATTATAATTG
Found at i:72853981 original size:16 final size:17
Alignment explanation
Indices: 72853949--72853981 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
72853939 TTTTAAAAAA
72853949 TTAAATTCAAAAATTTT
1 TTAAATTCAAAAATTTT
*
72853966 TTAAATT-AAGAATTTT
1 TTAAATTCAAAAATTTT
72853982 GATAGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (17 bp):
TTAAATTCAAAAATTTT
Found at i:72858157 original size:77 final size:77
Alignment explanation
Indices: 72857989--72858145 Score: 228
Period size: 77 Copynumber: 2.0 Consensus size: 77
72857979 TTTTATTGGG
*
72857989 TTAAATTTTTAAAATTTTGAATTAGTCATCGTAATTTAGTTTTTGATTTTTTCATATTATTGCAC
1 TTAAATTTTTAAAATTTTGAATTAGTCATCGTAATTTAGTTTTTGATTTTTTCATATTATTACAC
* * **
72858054 GTTATTTTTGGG
66 ATTATTTATGAC
*
72858066 TTAAATTTTTAAAATTTTGAATTAGTCATCGTAATTTAGTTTTTGATTTTTTCATATTAAGTTAT
1 TTAAATTTTTAAAATTTTGAATTAGTCATCGTAATTTAGTTTTTGATTTTTTCATATT-A-TTAC
72858131 A-ATT-TTTATGAC
64 ACATTATTTATGAC
72858143 TTA
1 TTA
72858146 TTTTTATAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
77 66 0.92
78 3 0.04
79 3 0.04
ACGTcount: A:0.29, C:0.06, G:0.11, T:0.55
Consensus pattern (77 bp):
TTAAATTTTTAAAATTTTGAATTAGTCATCGTAATTTAGTTTTTGATTTTTTCATATTATTACAC
ATTATTTATGAC
Found at i:72861649 original size:14 final size:14
Alignment explanation
Indices: 72861632--72861658 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
72861622 GAGTATGGTA
72861632 AAATATTTAAAAAG
1 AAATATTTAAAAAG
72861646 AAATATTTAAAAA
1 AAATATTTAAAAA
72861659 ATTACTAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.30
Consensus pattern (14 bp):
AAATATTTAAAAAG
Found at i:72864523 original size:22 final size:23
Alignment explanation
Indices: 72864481--72864523 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
72864471 GACTATAAAA
72864481 CATGAAATCTGATCATCTGTTTG
1 CATGAAATCTGATCATCTGTTTG
*
72864504 CATGAATTCTGAT-ATCTGTT
1 CATGAAATCTGATCATCTGTT
72864524 CATATATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (23 bp):
CATGAAATCTGATCATCTGTTTG
Found at i:72868283 original size:83 final size:83
Alignment explanation
Indices: 72868166--72868330 Score: 321
Period size: 83 Copynumber: 2.0 Consensus size: 83
72868156 ACCGAACCAT
72868166 ACCATAGTTCCTCCAACCTATCGATTCAATTTCATATCAATTCATGCATTCACATTCCATATACT
1 ACCATAGTTCCTCCAACCTATCGATTCAATTTCATATCAATTCATGCATTCACATTCCATATACT
72868231 CATCAATAGGACATTGAA
66 CATCAATAGGACATTGAA
*
72868249 ACCATAGTTCCTCCAACCTATCGATTCAGTTTCATATCAATTCATGCATTCACATTCCATATACT
1 ACCATAGTTCCTCCAACCTATCGATTCAATTTCATATCAATTCATGCATTCACATTCCATATACT
72868314 CATCAATAGGACATTGA
66 CATCAATAGGACATTGA
72868331 GGCATTTTCA
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 81 1.00
ACGTcount: A:0.33, C:0.27, G:0.08, T:0.33
Consensus pattern (83 bp):
ACCATAGTTCCTCCAACCTATCGATTCAATTTCATATCAATTCATGCATTCACATTCCATATACT
CATCAATAGGACATTGAA
Found at i:72868618 original size:27 final size:27
Alignment explanation
Indices: 72868588--72868765 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
72868578 ATATTGAGTC
* * * *
72868588 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
72868615 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
72868642 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
72868670 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
72868697 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
72868724 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
72868751 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
72868766 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:72868727 original size:82 final size:81
Alignment explanation
Indices: 72868609--72868764 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
72868599 TGCTATATAA
* *
72868609 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
72868674 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
72868691 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
72868755 CACTTAGTGC
65 CACTTAGTGC
72868765 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:72872916 original size:23 final size:22
Alignment explanation
Indices: 72872858--72872918 Score: 81
Period size: 21 Copynumber: 2.8 Consensus size: 22
72872848 AACACATAAA
72872858 GTGCCTAAA-ACGACACACGAG
1 GTGCCTAAATACGACACACGAG
* *
72872879 GTGCCT-GATACGACATACGAG
1 GTGCCTAAATACGACACACGAG
72872900 GTGCCTAAAATACGACACA
1 GTGCCT-AAATACGACACA
72872919 TAAAGTGCCT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.03
21 23 0.70
23 9 0.27
ACGTcount: A:0.36, C:0.26, G:0.23, T:0.15
Consensus pattern (22 bp):
GTGCCTAAATACGACACACGAG
Found at i:72872926 original size:23 final size:22
Alignment explanation
Indices: 72872849--72872928 Score: 65
Period size: 21 Copynumber: 3.7 Consensus size: 22
72872839 TCAGAGTACA
*
72872849 ACACATAAAGTGCCTAAA-ACG
1 ACACACAAAGTGCCTAAATACG
* * *
72872870 ACACACGAGGTGCCT-GATACG
1 ACACACAAAGTGCCTAAATACG
* * *
72872891 ACATACGAGGTGCCTAAAATACG
1 ACACACAAAGTGCCT-AAATACG
*
72872914 ACACATAAAGTGCCT
1 ACACACAAAGTGCCT
72872929 GATCGGTAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
20 1 0.02
21 29 0.63
23 16 0.35
ACGTcount: A:0.39, C:0.25, G:0.20, T:0.16
Consensus pattern (22 bp):
ACACACAAAGTGCCTAAATACG
Found at i:72873329 original size:15 final size:15
Alignment explanation
Indices: 72873303--72873359 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
72873293 CATATATATT
72873303 ATATAA-TTCAATCA
1 ATATAATTTCAATCA
72873317 ATATAATTTCAATCA
1 ATATAATTTCAATCA
*
72873332 AAATAATTTCAATCA
1 ATATAATTTCAATCA
*
72873347 ATATAAATTCAAT
1 ATATAATTTCAAT
72873360 AAATTCATCG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
14 6 0.15
15 33 0.85
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (15 bp):
ATATAATTTCAATCA
Found at i:72874642 original size:5 final size:5
Alignment explanation
Indices: 72874629--72874745 Score: 225
Period size: 5 Copynumber: 23.2 Consensus size: 5
72874619 TTCTTTAGTT
72874629 TATATA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATA-A TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
72874680 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
72874730 TATAA TATAA TATAA T
1 TATAA TATAA TATAA T
72874746 TAAAACATAA
Statistics
Matches: 111, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 107 0.96
6 4 0.04
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:72874781 original size:8 final size:8
Alignment explanation
Indices: 72874768--72874796 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
72874758 TATCTTTATT
72874768 ATATAATA
1 ATATAATA
72874776 ATATAATA
1 ATATAATA
72874784 ATATAATA
1 ATATAATA
72874792 ATATA
1 ATATA
72874797 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:72883487 original size:21 final size:21
Alignment explanation
Indices: 72883451--72883493 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
72883441 AAAAATAAAG
72883451 TACTTATAGACATAAATGAGC
1 TACTTATAGACATAAATGAGC
72883472 TACTTATAGATC-TAAATGAGC
1 TACTTATAGA-CATAAATGAGC
72883493 T
1 T
72883494 CCACTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.33
Consensus pattern (21 bp):
TACTTATAGACATAAATGAGC
Found at i:72888268 original size:12 final size:12
Alignment explanation
Indices: 72888248--72888277 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
72888238 TTAGTGAGTT
*
72888248 ACACTGCCTAAC
1 ACACAGCCTAAC
72888260 ACACAGCCTAAC
1 ACACAGCCTAAC
72888272 ACACAG
1 ACACAG
72888278 GCGTGTGGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.40, C:0.40, G:0.10, T:0.10
Consensus pattern (12 bp):
ACACAGCCTAAC
Found at i:72888698 original size:14 final size:13
Alignment explanation
Indices: 72888681--72888710 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
72888671 CCTTTCTCCA
72888681 TTTTCTTTTCTTCT
1 TTTTCTTTTCTT-T
72888695 TTTTCTTTTCTTT
1 TTTTCTTTTCTTT
72888708 TTT
1 TTT
72888711 GGAAAAGGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTCTTTTCTTT
Found at i:72907415 original size:21 final size:21
Alignment explanation
Indices: 72907389--72907432 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
72907379 AAAATTGAAG
72907389 TAGAAATAATTATTTTATGAT
1 TAGAAATAATTATTTTATGAT
72907410 TAGAAATAATTATTTTATGAT
1 TAGAAATAATTATTTTATGAT
72907431 TA
1 TA
72907433 TTATGAGGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (21 bp):
TAGAAATAATTATTTTATGAT
Found at i:72925834 original size:47 final size:47
Alignment explanation
Indices: 72925780--72925996 Score: 326
Period size: 47 Copynumber: 4.6 Consensus size: 47
72925770 TATTTGAATA
* *
72925780 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
72925827 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
72925874 AATGTGAAAGTGTATCTATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTA--TATATGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
72925923 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
72925970 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
72925997 TCCCGAAGGG
Statistics
Matches: 154, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
47 109 0.71
49 45 0.29
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:72925906 original size:96 final size:94
Alignment explanation
Indices: 72925780--72925996 Score: 362
Period size: 96 Copynumber: 2.3 Consensus size: 94
72925770 TATTTGAATA
72925780 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
72925845 TGTGATAAGGCCGAATGGCCAATGTGATG
66 TGTGACAAGGCCGAATGGCCAACGTGATG
72925874 AATGTGAAAGTGTATCTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTA--TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
72925939 TATGTGACAGGGCCGAGTGGCCAACGTGATG
64 TATGTGACAAGGCCGAATGGCCAACGTGATG
* *
72925970 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
72925997 TCCCGAAGGG
Statistics
Matches: 115, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
94 26 0.23
96 89 0.77
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (94 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGACAAGGCCGAATGGCCAACGTGATG
Found at i:72926252 original size:37 final size:37
Alignment explanation
Indices: 72926114--72926251 Score: 222
Period size: 37 Copynumber: 3.7 Consensus size: 37
72926104 CCGAGCTCTA
* *
72926114 AAGACCCGATGACTATGTGTGGAGATTAGGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
*
72926151 AAGACCCGATGACTACGTGTGGAGATTATGTCCAGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
*
72926188 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
* *
72926225 AAGACCCGATAACTTCGTGTGGAGATT
1 AAGACCCGATGACTACGTGTGGAGATT
72926252 TCGTCTGAGC
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 94 1.00
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.25
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
Found at i:72927299 original size:46 final size:46
Alignment explanation
Indices: 72927232--72927323 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
72927222 TCAACTGTTT
*
72927232 GGATCAGGTAAATTTCGACGCCGAAATTTCTTTAAGGAGGGTAGAG
1 GGATCAGGTAAATTTCGACGCCGAAATTTCTTTAAGGAGGGAAGAG
72927278 GGATCAGGTAAATTTCGACGCCGAAATTTCTTTAAGGAGGGAAGAG
1 GGATCAGGTAAATTTCGACGCCGAAATTTCTTTAAGGAGGGAAGAG
72927324 TTGTAACATC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (46 bp):
GGATCAGGTAAATTTCGACGCCGAAATTTCTTTAAGGAGGGAAGAG
Found at i:72929163 original size:11 final size:11
Alignment explanation
Indices: 72929147--72929213 Score: 79
Period size: 11 Copynumber: 6.5 Consensus size: 11
72929137 CATGATTGAT
72929147 ATGATATGCAC
1 ATGATATGCAC
72929158 ATGATATGCAC
1 ATGATATGCAC
*
72929169 ATGATATGTAC
1 ATGATATGCAC
72929180 --GATATGCAC
1 ATGATATGCAC
*
72929189 ATGATAT--AA
1 ATGATATGCAC
*
72929198 ACGATATGCAC
1 ATGATATGCAC
72929209 ATGAT
1 ATGAT
72929214 GTGTTCATAA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
9 15 0.33
11 31 0.67
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:72929172 original size:31 final size:31
Alignment explanation
Indices: 72929136--72929195 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
72929126 ATTTTGATAT
*
72929136 ACATGAT-TGATATGATATGCACATGATATGC
1 ACATGATATG-TACGATATGCACATGATATGC
72929167 ACATGATATGTACGATATGCACATGATAT
1 ACATGATATGTACGATATGCACATGATAT
72929196 AAACGATATG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 25 0.93
32 2 0.07
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (31 bp):
ACATGATATGTACGATATGCACATGATATGC
Found at i:72929185 original size:20 final size:20
Alignment explanation
Indices: 72929160--72929213 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
72929150 ATATGCACAT
**
72929160 GATATGCACATGATATGTAC
1 GATATGCACATGATATAAAC
72929180 GATATGCACATGATATAAAC
1 GATATGCACATGATATAAAC
72929200 GATATGCACATGAT
1 GATATGCACATGAT
72929214 GTGTTCATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.28
Consensus pattern (20 bp):
GATATGCACATGATATAAAC
Found at i:72929292 original size:26 final size:26
Alignment explanation
Indices: 72929263--72929335 Score: 110
Period size: 26 Copynumber: 2.8 Consensus size: 26
72929253 AAGGAAGTGC
*
72929263 AAAAGAGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
72929289 AAAAGGGCTTATTCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* *
72929315 AAAAGGGCTTTTGCCCTAGTT
1 AAAAGGGCTTATGCCCCAGTT
72929336 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:72930175 original size:59 final size:59
Alignment explanation
Indices: 72930083--72930200 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
72930073 TCGTCCACAC
72930083 TATCAAAGCCCTTTTGGTACACGTTTGGTTGAACTCTGAAAATGGCATGTATAGGACTA
1 TATCAAAGCCCTTTTGGTACACGTTTGGTTGAACTCTGAAAATGGCATGTATAGGACTA
72930142 TATCAAAGCCCTTTTGGTACACGTTTGGTTGAACTCTGAAAATGGCATGTATAGGACTA
1 TATCAAAGCCCTTTTGGTACACGTTTGGTTGAACTCTGAAAATGGCATGTATAGGACTA
72930201 CCCTTGTGTT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (59 bp):
TATCAAAGCCCTTTTGGTACACGTTTGGTTGAACTCTGAAAATGGCATGTATAGGACTA
Found at i:72939147 original size:26 final size:26
Alignment explanation
Indices: 72939093--72939157 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
72939083 TTTTCCCACA
*
72939093 AAAAATTTGACAATTTTACCACTGGT
1 AAAAATTTGACAATTTTACCACTGAT
* *
72939119 AAAAATTTGACGATTTTTCTC-CTGAT
1 AAAAATTTGACAATTTTAC-CACTGAT
72939145 -AAAATTTCGACAA
1 AAAAATTT-GACAA
72939158 AATATGGTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 7 0.21
26 25 0.76
27 1 0.03
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.35
Consensus pattern (26 bp):
AAAAATTTGACAATTTTACCACTGAT
Found at i:72946062 original size:82 final size:82
Alignment explanation
Indices: 72945925--72946088 Score: 328
Period size: 82 Copynumber: 2.0 Consensus size: 82
72945915 ACTTAGTCAT
72945925 TTCCCATTAAACATATTAGAATAATAACGAGTGACAGCCCTAATGTGACCCTAGTCTGGAAGTGG
1 TTCCCATTAAACATATTAGAATAATAACGAGTGACAGCCCTAATGTGACCCTAGTCTGGAAGTGG
72945990 TTTCGGGACCACAAAAC
66 TTTCGGGACCACAAAAC
72946007 TTCCCATTAAACATATTAGAATAATAACGAGTGACAGCCCTAATGTGACCCTAGTCTGGAAGTGG
1 TTCCCATTAAACATATTAGAATAATAACGAGTGACAGCCCTAATGTGACCCTAGTCTGGAAGTGG
72946072 TTTCGGGACCACAAAAC
66 TTTCGGGACCACAAAAC
72946089 CGAGTCACAA
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 82 1.00
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (82 bp):
TTCCCATTAAACATATTAGAATAATAACGAGTGACAGCCCTAATGTGACCCTAGTCTGGAAGTGG
TTTCGGGACCACAAAAC
Found at i:72948312 original size:40 final size:40
Alignment explanation
Indices: 72947905--72948293 Score: 676
Period size: 40 Copynumber: 9.7 Consensus size: 40
72947895 TATTCAGATG
72947905 AATTCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 AATTCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
72947945 AATTCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 AATTCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
72947985 AATTCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 AATTCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
72948025 AATTCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 AATTCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
72948065 AATTCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 AATTCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
72948105 AATTCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 AATTCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
72948145 AATTCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 AATTCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
72948185 AAATCCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACT
1 AATTCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACT
* * * *
72948225 -ATATCCGAGCTAAGTCTCGAAGGCATTTGTGCGAGTTACT
1 AAT-TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
72948265 -ATATCCGGGCTAAGTCCCGAAGGCATTTG
1 AAT-TCCGGGCTAAGTCCCGAAGGCATTTG
72948294 GGCGAGTAGC
Statistics
Matches: 338, Mismatches: 8, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
39 2 0.01
40 336 0.99
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
AATTCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:72955905 original size:28 final size:28
Alignment explanation
Indices: 72955840--72955938 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
72955830 CATGAGATTG
* * *
72955840 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
72955869 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
72955897 GCACTAAGTGTGCGAGTTCGAATAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
72955925 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
72955939 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.71
29 17 0.27
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:72957166 original size:11 final size:11
Alignment explanation
Indices: 72957150--72957183 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
72957140 TTGGCCCGGC
72957150 CAAAAATTCTA
1 CAAAAATTCTA
72957161 CAAAAATTCTA
1 CAAAAATTCTA
72957172 CAAAAATTCTA
1 CAAAAATTCTA
72957183 C
1 C
72957184 CATATATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.53, C:0.21, G:0.00, T:0.26
Consensus pattern (11 bp):
CAAAAATTCTA
Found at i:72958880 original size:106 final size:106
Alignment explanation
Indices: 72958759--72958969 Score: 395
Period size: 106 Copynumber: 2.0 Consensus size: 106
72958749 TTAAATTAAG
*
72958759 GTTTGCTAAGCTAGCTACTAAGGTGAAGTGCAAATGTTAGTATTTGATTGCTAGTGTATATATGT
1 GTTTGCTAAGCTAGCTACTAAGGTGAAGTGCAAATGTTAGTATTTGATTGCTAGTGTATATATGC
*
72958824 GTATTAGCGGAGTTTTGAACTTGAATAATGGTCTGAGCACC
66 GTATTAGCCGAGTTTTGAACTTGAATAATGGTCTGAGCACC
72958865 GTTTGCTAAGCTAGCTACTAAGGTGAAGTGCAAATGTTAGTATTTGATTGCTAGTGTATATATGC
1 GTTTGCTAAGCTAGCTACTAAGGTGAAGTGCAAATGTTAGTATTTGATTGCTAGTGTATATATGC
*
72958930 GTATTAGCCGAGTTTTGAACTTGAATAATGGTTTGAGCAC
66 GTATTAGCCGAGTTTTGAACTTGAATAATGGTCTGAGCAC
72958970 TATGTGTTGT
Statistics
Matches: 102, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
106 102 1.00
ACGTcount: A:0.27, C:0.11, G:0.25, T:0.36
Consensus pattern (106 bp):
GTTTGCTAAGCTAGCTACTAAGGTGAAGTGCAAATGTTAGTATTTGATTGCTAGTGTATATATGC
GTATTAGCCGAGTTTTGAACTTGAATAATGGTCTGAGCACC
Found at i:72959732 original size:40 final size:40
Alignment explanation
Indices: 72959677--72960101 Score: 834
Period size: 40 Copynumber: 10.6 Consensus size: 40
72959667 CAGATGGTAA
72959677 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
72959717 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
72959757 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
72959797 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
72959837 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
72959877 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
72959917 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
72959957 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
72959997 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
72960037 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAT-T
72960077 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
72960102 AGCGAGTAGC
Statistics
Matches: 384, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
39 2 0.01
40 382 0.99
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
Found at i:72961601 original size:50 final size:50
Alignment explanation
Indices: 72961497--72961619 Score: 133
Period size: 50 Copynumber: 2.4 Consensus size: 50
72961487 CGGATGCCCG
* * **
72961497 GTGGCCTGCACATAGTACCACCCTTGTAGTCAAAGCTACCTTCTTCACAAA
1 GTGGCCTGCATATAGTACCA-CATTGTAACCAAAGCTACCTTCTTCACAAA
* * * *
72961548 GTGGCCTTCATATAGTACCACATTGTAACCAAAGCTATCTT-TTACGCATA
1 GTGGCCTGCATATAGTACCACATTGTAACCAAAGCTACCTTCTT-CACAAA
72961598 GTGGCCTGCACT-TAGTACCACA
1 GTGGCCTGCA-TATAGTACCACA
72961620 CATGTGATCG
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
49 2 0.03
50 40 0.66
51 19 0.31
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (50 bp):
GTGGCCTGCATATAGTACCACATTGTAACCAAAGCTACCTTCTTCACAAA
Found at i:72961714 original size:50 final size:51
Alignment explanation
Indices: 72961601--72961732 Score: 169
Period size: 50 Copynumber: 2.6 Consensus size: 51
72961591 ACGCATAGTG
* * * * *
72961601 GCCTGCACTTAGTACCACACATGTGATCGAAGCTATCGGGTACACAGAGTA
1 GCCTGCACTTAGTACTACACATGTGACCTAAGCCATCGGGTACACAGAATA
*
72961652 GCCTGCACTTAGTACTACACATGTGACCTAA-CCATCTGGTACAC-GTAATA
1 GCCTGCACTTAGTACTACACATGTGACCTAAGCCATCGGGTACACAG-AATA
* *
72961702 GCCTGCACTTAGTACTACACACGTAACCTAA
1 GCCTGCACTTAGTACTACACATGTGACCTAA
72961733 AACCATTTTC
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
49 1 0.01
50 43 0.60
51 28 0.39
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.23
Consensus pattern (51 bp):
GCCTGCACTTAGTACTACACATGTGACCTAAGCCATCGGGTACACAGAATA
Found at i:72981225 original size:46 final size:46
Alignment explanation
Indices: 72981172--72981262 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 46
72981162 TATATATACA
*
72981172 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACATATCTCACATTAGCCATTCGGCTTTACCACATATC
* * *
72981218 CATCTCATACATGTTTCGCATTAGCCATTCGGCTTTACCACATAT
1 CATCTCATACATATCTCACATTAGCCATTCGGCTTTACCACATAT
72981263 ATGCATGTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.26, C:0.30, G:0.09, T:0.35
Consensus pattern (46 bp):
CATCTCATACATATCTCACATTAGCCATTCGGCTTTACCACATATC
Found at i:72981310 original size:47 final size:47
Alignment explanation
Indices: 72981236--72981329 Score: 152
Period size: 47 Copynumber: 2.0 Consensus size: 47
72981226 ACATGTTTCG
*
72981236 CATTAGCCATTCGGCTTTACCACATATATGCATGTTCACATTCATCA
1 CATTAGCCATTCGGCCTTACCACATATATGCATGTTCACATTCATCA
* * *
72981283 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTAGCCATTCGGCCTTACCACATATATGCATGTTCACATTCATCA
72981330 TATTTAATCC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.35
Consensus pattern (47 bp):
CATTAGCCATTCGGCCTTACCACATATATGCATGTTCACATTCATCA
Found at i:72986274 original size:42 final size:42
Alignment explanation
Indices: 72986209--72986324 Score: 182
Period size: 42 Copynumber: 2.8 Consensus size: 42
72986199 CGTCGTTTAT
*
72986209 TTGATGCCATAGT-CCA-ACTATGGTCTTACACGAAGTCTCATA
1 TTGATGCCAT-GTCCCAGAC-ATGGTCTTACACGAAATCTCATA
*
72986251 TTGATGTCATGTCCCAGACATGGTCTTACACGAAATCTCATA
1 TTGATGCCATGTCCCAGACATGGTCTTACACGAAATCTCATA
72986293 TTGATGCCATGTCCCAGACATGGTCTTACACG
1 TTGATGCCATGTCCCAGACATGGTCTTACACG
72986325 TATCACAATG
Statistics
Matches: 69, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
41 2 0.03
42 65 0.94
43 2 0.03
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (42 bp):
TTGATGCCATGTCCCAGACATGGTCTTACACGAAATCTCATA
Found at i:72986345 original size:36 final size:35
Alignment explanation
Indices: 72986296--72986465 Score: 107
Period size: 36 Copynumber: 4.7 Consensus size: 35
72986286 TCTCATATTG
72986296 ATGCCAT-GTCCCAGACATGGTCTTACACGTATCACA
1 ATGCCATAG-CCCAG-CATGGTCTTACACGTATCACA
* * * *
72986332 ATGCCATAGCCCAGCTATGGTCATACATGTCATTACG
1 ATGCCATAGCCCAGC-ATGGTCTTACACGT-ATCACA
*
72986369 ATGCCATAG-CCAGCTATGGTCTTACACATACTCACA
1 ATGCCATAGCCCAGC-ATGGTCTTACACGTA-TCACA
* * *
72986405 TGTACTGCCATGGTCCAACCATGGTCTT--ACGT-TCACA
1 ---A-TGCCATAG-CCCAGCATGGTCTTACACGTATCACA
* *
72986442 ATGCCATATCCCAGTTATGGTCTT
1 ATGCCATAGCCCAG-CATGGTCTT
72986466 TTCACTGAAA
Statistics
Matches: 105, Mismatches: 18, Indels: 25
0.71 0.12 0.17
Matches are distributed among these distances:
32 3 0.03
33 14 0.13
34 1 0.01
35 2 0.02
36 44 0.42
37 19 0.18
39 4 0.04
40 7 0.07
41 8 0.08
42 3 0.03
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (35 bp):
ATGCCATAGCCCAGCATGGTCTTACACGTATCACA
Found at i:72992638 original size:21 final size:21
Alignment explanation
Indices: 72992613--72992671 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 21
72992603 CAAAATTTAG
72992613 TTTTACTTGCTGATGTTCAGC
1 TTTTACTTGCTGATGTTCAGC
**
72992634 TTTTACAAGGCACCTGATGTTCAGC
1 TTTTAC-TTG---CTGATGTTCAGC
72992659 TTTTACTTGCTGA
1 TTTTACTTGCTGA
72992672 CATATCAAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
21 10 0.33
22 1 0.03
24 1 0.03
25 18 0.60
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.42
Consensus pattern (21 bp):
TTTTACTTGCTGATGTTCAGC
Found at i:72996686 original size:43 final size:43
Alignment explanation
Indices: 72996623--72996789 Score: 185
Period size: 43 Copynumber: 3.9 Consensus size: 43
72996613 AGCTCATACA
* * * * *
72996623 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATATTG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
* * * *
72996665 ATGCCAATGTCCCAGACATGGTCTTACACGAAATTATATAACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
* * *
72996708 ATTCCAATGTCCCAGACATGGTCTTGCACGTAATCACA-ATACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAT-CG
* *
72996751 ATGTCAATGTCCCAGACATGGTCTTACATGTAATCACAT
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAT
72996790 CTCAGTAATC
Statistics
Matches: 102, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
42 6 0.06
43 96 0.94
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
Found at i:72997677 original size:17 final size:18
Alignment explanation
Indices: 72997644--72997677 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
72997634 TTTTTTATTT
*
72997644 AATTAACCTTATTAACCA
1 AATTAACATTATTAACCA
72997662 AATTAACATT-TTAACC
1 AATTAACATTATTAACC
72997678 TTAATATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (18 bp):
AATTAACATTATTAACCA
Found at i:72998781 original size:24 final size:25
Alignment explanation
Indices: 72998739--72998786 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
72998729 ACACAAATGT
*
72998739 AGCTCTTTGTGAACGTCCTGATATA
1 AGCTCTTTATGAACGTCCTGATATA
*
72998764 AGCTC-TTATGAACTTCCTGATAT
1 AGCTCTTTATGAACGTCCTGATAT
72998787 GGCTCACTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.38
Consensus pattern (25 bp):
AGCTCTTTATGAACGTCCTGATATA
Found at i:73002304 original size:39 final size:40
Alignment explanation
Indices: 73002254--73002346 Score: 125
Period size: 40 Copynumber: 2.3 Consensus size: 40
73002244 GCAAAAATTG
73002254 TAAAACACAGAGCAATAGCGGC-GTTTTGAAAAAACAACGC
1 TAAAA-ACAGAGCAATAGCGGCTGTTTTGAAAAAACAACGC
* ** **
73002294 TAAAAACAGAGCAATAGCGGCTTTTTTGTTAAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCTGTTTTGAAAAAACAACGC
73002334 TAAAAACAGAGCA
1 TAAAAACAGAGCA
73002347 TCAACGGTGC
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 16 0.34
40 31 0.66
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.18
Consensus pattern (40 bp):
TAAAAACAGAGCAATAGCGGCTGTTTTGAAAAAACAACGC
Found at i:73002400 original size:41 final size:39
Alignment explanation
Indices: 73002254--73002460 Score: 191
Period size: 41 Copynumber: 5.1 Consensus size: 39
73002244 GCAAAAATTG
** **
73002254 TAAAACACAGAGCAATAGCGGCG-TTTTGAAAAAACAACGC
1 TAAAA-ACAGAGC-ATAGCGGCGCTTTTGGTAAAACGCCGC
** *
73002294 TAAAAACAGAGCAATAGCGGCTTTTTTGTTAAAACGCCGC
1 TAAAAACAGAGC-ATAGCGGCGCTTTTGGTAAAACGCCGC
* *
73002334 TAAAAACAGAGCATCAACGGTGCTTTTGGTAAAACGCCGC
1 TAAAAACAGAGCAT-AGCGGCGCTTTTGGTAAAACGCCGC
* * * *
73002374 TAAAGACCAGAGCATCAGCGGCGCTTTTGGTGAAATGCTGC
1 TAAA-AACAGAGCAT-AGCGGCGCTTTTGGTAAAACGCCGC
* * *
73002415 TAAAGACCAGAGCATTAGCGTCGCTTTTGGTAAAACGCCAC
1 TAAA-AACAGAGCA-TAGCGGCGCTTTTGGTAAAACGCCGC
73002456 TAAAA
1 TAAAA
73002461 GCCATGTAAC
Statistics
Matches: 142, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.13
40 55 0.39
41 68 0.48
42 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (39 bp):
TAAAAACAGAGCATAGCGGCGCTTTTGGTAAAACGCCGC
Found at i:73003100 original size:24 final size:24
Alignment explanation
Indices: 73003073--73003121 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
73003063 CATATATTTA
73003073 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
73003097 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
73003121 T
1 T
73003122 GTTATTTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (24 bp):
TTAAAAGTTTATATAAAAATTAAT
Found at i:73006872 original size:17 final size:18
Alignment explanation
Indices: 73006850--73006883 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
73006840 TACTTGTGGG
73006850 GGAATATGGAG-TCAACT
1 GGAATATGGAGTTCAACT
73006867 GGAATATGGAGTTCAAC
1 GGAATATGGAGTTCAAC
73006884 ATTTTGGCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.35, C:0.12, G:0.29, T:0.24
Consensus pattern (18 bp):
GGAATATGGAGTTCAACT
Found at i:73010212 original size:27 final size:26
Alignment explanation
Indices: 73010156--73010212 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
73010146 CAACCTTAAC
* * *
73010156 CCTAGGGGTATATCAATAATTTTGCT
1 CCTAGGGGTAAATCAATAATTTTCCA
**
73010182 CCTAGGGGTAAATCTGTAAATTTTCCA
1 CCTAGGGGTAAATCAAT-AATTTTCCA
73010209 CCTA
1 CCTA
73010213 TAAAGGTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAATAATTTTCCA
Done.