Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 154 of 235
Found at i:51928640 original size:40 final size:40
Alignment explanation
Indices: 51928542--51928804 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
51928532 TCCTCGTTCA
* * * *
51928542 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
* **
51928581 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
51928621 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
*
51928661 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
* *
51928701 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
* * * * * *
51928741 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACG
* *
51928781 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
51928805 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
Found at i:51932360 original size:25 final size:25
Alignment explanation
Indices: 51932322--51932403 Score: 78
Period size: 26 Copynumber: 3.2 Consensus size: 25
51932312 TCGCCACATA
51932322 TACTGATACTGGCAGCTTTGCTGCGT
1 TACTG-TACTGGCAGCTTTGCTGCGT
* * *
51932348 TACTGTACTGGCAGCCTTGCTACAAAAT
1 TACTGTACTGGCAGCTTTGCTGC---GT
*
51932376 TA-T-TACTGGCAGCTTTGCTGCGA
1 TACTGTACTGGCAGCTTTGCTGCGT
51932399 TACTG
1 TACTG
51932404 GTGTGTTGTC
Statistics
Matches: 44, Mismatches: 7, Indels: 11
0.71 0.11 0.18
Matches are distributed among these distances:
23 2 0.05
24 1 0.02
25 16 0.36
26 21 0.48
27 1 0.02
28 3 0.07
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (25 bp):
TACTGTACTGGCAGCTTTGCTGCGT
Found at i:51950907 original size:18 final size:17
Alignment explanation
Indices: 51950884--51950918 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
51950874 GTTGGGCTAA
*
51950884 AATGGGCTATGTGGGCTT
1 AATGGGCT-TATGGGCTT
51950902 AATGGGCTTATGGGCTT
1 AATGGGCTTATGGGCTT
51950919 CACACGGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.17, C:0.11, G:0.37, T:0.34
Consensus pattern (17 bp):
AATGGGCTTATGGGCTT
Found at i:51952929 original size:41 final size:40
Alignment explanation
Indices: 51952803--51952934 Score: 135
Period size: 40 Copynumber: 3.3 Consensus size: 40
51952793 TTATGTTTTT
** * * *
51952803 CACTTAGTGTGCATTTTGAGATAGCTTTGGCAATATAAAG
1 CACTTAGTGTGCAGATTGAGATAGCTTTGGCTATATGATG
*
51952843 CACTTAGTGTGCA-ATTTG-GAGTAGCTTCGGCTATATG-TGG
1 CACTTAGTGTGCAGA-TTGAGA-TAGCTTTGGCTATATGAT-G
*
51952883 CACTTAGTGTGCGAGATTGAGATAGCTTTGGCTATTTGATG
1 CACTTAGTGTGC-AGATTGAGATAGCTTTGGCTATATGATG
*
51952924 TACTTAGTGTG
1 CACTTAGTGTG
51952935 TGAGATTATA
Statistics
Matches: 77, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
39 2 0.03
40 42 0.55
41 29 0.38
42 4 0.05
ACGTcount: A:0.23, C:0.13, G:0.27, T:0.36
Consensus pattern (40 bp):
CACTTAGTGTGCAGATTGAGATAGCTTTGGCTATATGATG
Found at i:51970673 original size:40 final size:40
Alignment explanation
Indices: 51970601--51970731 Score: 122
Period size: 40 Copynumber: 3.3 Consensus size: 40
51970591 ACTATGTTTT
* *
51970601 GCACTTAGTGCGCG-TTTGAGATAGCTTTGGCTATATAAA
1 GCACTTAGTGTGCGATTTGAGATAGCTTCGGCTATATAAA
***
51970640 GCACTTAGTGTGCGATTTG-GAGTAGCTTCGGCTATATGTG
1 GCACTTAGTGTGCGATTTGAGA-TAGCTTCGGCTATATAAA
** * * * * *
51970680 GCACTTAGTGTGCGAGACTGAAATAGCTTTGGCTATGTGAT
1 GCACTTAGTGTGCGA-TTTGAGATAGCTTCGGCTATATAAA
51970721 GCACTTAGTGT
1 GCACTTAGTGT
51970732 CCTAGGTTAT
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
39 15 0.20
40 33 0.43
41 27 0.36
42 1 0.01
ACGTcount: A:0.22, C:0.15, G:0.29, T:0.34
Consensus pattern (40 bp):
GCACTTAGTGTGCGATTTGAGATAGCTTCGGCTATATAAA
Found at i:51970725 original size:41 final size:40
Alignment explanation
Indices: 51970621--51970731 Score: 125
Period size: 40 Copynumber: 2.8 Consensus size: 40
51970611 CGCGTTTGAG
* * ** *
51970621 ATAGCTTTGGCTATATAAAGCACTTAGTGTGCGATTTGGA
1 ATAGCTTTGGCTATATGATGCACTTAGTGTGCGAACTGAA
* *
51970661 GTAGCTTCGGCTATATG-TGGCACTTAGTGTGCGAGACTGAA
1 ATAGCTTTGGCTATATGAT-GCACTTAGTGTGCGA-ACTGAA
*
51970702 ATAGCTTTGGCTATGTGATGCACTTAGTGT
1 ATAGCTTTGGCTATATGATGCACTTAGTGT
51970732 CCTAGGTTAT
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
40 29 0.50
41 28 0.48
42 1 0.02
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.34
Consensus pattern (40 bp):
ATAGCTTTGGCTATATGATGCACTTAGTGTGCGAACTGAA
Found at i:51974401 original size:11 final size:11
Alignment explanation
Indices: 51974385--51974411 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
51974375 TGAAATAGAA
51974385 ATGATTATTTG
1 ATGATTATTTG
51974396 ATGATTATTTG
1 ATGATTATTTG
51974407 ATGAT
1 ATGAT
51974412 CCATGATATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.19, T:0.52
Consensus pattern (11 bp):
ATGATTATTTG
Found at i:51975654 original size:21 final size:21
Alignment explanation
Indices: 51975625--51975699 Score: 53
Period size: 21 Copynumber: 3.4 Consensus size: 21
51975615 CTATGTGACA
*
51975625 TGAACTCATTGAGTTGTGGTC
1 TGAATTCATTGAGTTGTGGTC
* *
51975646 TGATTTCA-TGATATATGTGGCATC
1 TGAATTCATTGA-GT-TGTGG--TC
* *
51975670 TGAACTCATTGAGTTATGGTC
1 TGAATTCATTGAGTTGTGGTC
*
51975691 TGAGTTCAT
1 TGAATTCAT
51975700 GATGTATATG
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
20 3 0.08
21 16 0.40
22 5 0.12
23 4 0.10
24 9 0.22
25 3 0.08
ACGTcount: A:0.23, C:0.13, G:0.24, T:0.40
Consensus pattern (21 bp):
TGAATTCATTGAGTTGTGGTC
Found at i:51978873 original size:11 final size:12
Alignment explanation
Indices: 51978857--51978886 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
51978847 ATGTGCTAAT
51978857 TTGTTTGA-TGG
1 TTGTTTGATTGG
51978868 TTGTTTGATTGG
1 TTGTTTGATTGG
51978880 TTGTTTG
1 TTGTTTG
51978887 TTATACTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.44
12 10 0.56
ACGTcount: A:0.07, C:0.00, G:0.33, T:0.60
Consensus pattern (12 bp):
TTGTTTGATTGG
Found at i:51980660 original size:13 final size:13
Alignment explanation
Indices: 51980642--51980668 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
51980632 GCTCGGTAGG
51980642 GACACGCCCGTGT
1 GACACGCCCGTGT
51980655 GACACGCCCGTGT
1 GACACGCCCGTGT
51980668 G
1 G
51980669 CGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:51982536 original size:153 final size:153
Alignment explanation
Indices: 51982344--51982805 Score: 774
Period size: 153 Copynumber: 3.0 Consensus size: 153
51982334 AGCTCGGGCG
51982344 TTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAA
1 TTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAA
51982409 CTCGGCTTGTATCCTAATCTATTCCTAAGGTTCAAACGGGCTTTTTCCTCGAACACTTATCCTTG
66 CTCGGCTTGTATCCTAATCTATTCCTAAGGTTCAAACGGGCTTTTTCCTCGAACACTTATCCTTG
51982474 CCGTCTTCCGTAGAATGCCGAAA
131 CCGTCTTCCGTAGAATGCCGAAA
*
51982497 TTCGCATCCATAAGTGAAATCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAA
1 TTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAA
51982562 CTCGGCTTGTATCCTAATCTATTCCTAAGGTTCAAACGGGCTTTTTCCTCGAACACTTATCCTTG
66 CTCGGCTTGTATCCTAATCTATTCCTAAGGTTCAAACGGGCTTTTTCCTCGAACACTTATCCTTG
51982627 CCGTCTTCCGTAGAATGCCGAAATA
131 CCGTCTTCCGTAGAATGCCG-AA-A
51982652 TTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-CTCA---ACCATC-CTAG
1 TTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCT-AGTTA-CATCTC-A-
* * *
51982712 TGACATGTC-ACTTGTATCCTAATCTATTCCTAAGGTTCAAACGGGCTTTTTCCTCGAACACTTA
62 CGA-A-CTCGGCTTGTATCCTAATCTATTCCTAAGGTTCAAACGGGCTTTTTCCTCGAACACTTA
51982776 TCCTTGCCGTCTTCCGTAGAATGCCGAAA
125 TCCTTGCCGTCTTCCGTAGAATGCCGAAA
51982805 T
1 T
51982806 CAATACTCGG
Statistics
Matches: 296, Mismatches: 5, Indels: 16
0.93 0.02 0.05
Matches are distributed among these distances:
152 2 0.01
153 156 0.53
154 8 0.03
155 128 0.43
156 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (153 bp):
TTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAA
CTCGGCTTGTATCCTAATCTATTCCTAAGGTTCAAACGGGCTTTTTCCTCGAACACTTATCCTTG
CCGTCTTCCGTAGAATGCCGAAA
Found at i:51986918 original size:11 final size:12
Alignment explanation
Indices: 51986883--51986919 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
51986873 CCGGCACTGA
51986883 TTCAACTTTCTT
1 TTCAACTTTCTT
51986895 TTCAACTTTCTT
1 TTCAACTTTCTT
51986907 TTCAAC-TTCTT
1 TTCAACTTTCTT
51986918 TT
1 TT
51986920 GTATTAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 7 0.28
12 18 0.72
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.59
Consensus pattern (12 bp):
TTCAACTTTCTT
Found at i:51989927 original size:93 final size:93
Alignment explanation
Indices: 51989814--51989985 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
51989804 CGCCCATAAG
* *
51989814 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
51989879 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
51989907 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
51989972 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
51989986 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:51989982 original size:46 final size:46
Alignment explanation
Indices: 51989807--51989982 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
51989797 TGTAACCCGC
* * *
51989807 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
51989853 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
51989903 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
51989946 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
51989983 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:51994205 original size:11 final size:12
Alignment explanation
Indices: 51994170--51994206 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
51994160 CCGGCACTGA
51994170 TTCAACTTTCTT
1 TTCAACTTTCTT
51994182 TTCAACTTTCTT
1 TTCAACTTTCTT
51994194 TTCAAC-TTCTT
1 TTCAACTTTCTT
51994205 TT
1 TT
51994207 GTATTAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 7 0.28
12 18 0.72
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.59
Consensus pattern (12 bp):
TTCAACTTTCTT
Found at i:51998794 original size:43 final size:43
Alignment explanation
Indices: 51998737--51999718 Score: 1549
Period size: 43 Copynumber: 23.3 Consensus size: 43
51998727 ACCGGCACAG
51998737 AGCCTGCTAGGCAATAAGCCTGATAAAATACACCGGCACATAA
1 AGCCTGCTAGGCAATAAGCCTGATAAAATACACCGGCACATAA
* *
51998780 AGCCTGCTAGGCAATAAGCCTGATATAATACACTGGCAC--AA
1 AGCCTGCTAGGCAATAAGCCTGATAAAATACACCGGCACATAA
* **
51998821 AGCCGGCTAGGCAATAAGCCTGATTTAATACACCGGCAC--AA
1 AGCCTGCTAGGCAATAAGCCTGATAAAATACACCGGCACATAA
** *
51998862 AGCCTGCTAGGCAATAAGCCTGATTTTAA-ACACTGGCAC--AA
1 AGCCTGCTAGGCAATAAGCCTGA-TAAAATACACCGGCACATAA
* * *
51998903 AGCCTGCTAGGCAATAAGCCTGATATAATACACC-G-AAACAA
1 AGCCTGCTAGGCAATAAGCCTGATAAAATACACCGGCACATAA
* *
51998944 AGCCTGCTAGGCAATAAGCCTGGTATAATACACCGGCAC--AA
1 AGCCTGCTAGGCAATAAGCCTGATAAAATACACCGGCACATAA
* *
51998985 AGCCTGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAA
1 AGCCTGCTAGGCAATAAGCCTGATAAAATACACCGGCACATAA
51999028 AGCCTGCTAGGCAATAAGCCTGATAAAATACACCGGCACATAA
1 AGCCTGCTAGGCAATAAGCCTGATAAAATACACCGGCACATAA
51999071 AGCCTGCTAGGCAATAAGCCTGATAAAATACACCGGCACATAA
1 AGCCTGCTAGGCAATAAGCCTGATAAAATACACCGGCACATAA
51999114 AGCCTGCTAGGCAATAAGCCTGATAAAATACACCGGCACATAA
1 AGCCTGCTAGGCAATAAGCCTGATAAAATACACCGGCACATAA
51999157 AGCCTGCTAGGCAATAAGCCTGATAAAATACACCGGCACATAA
1 AGCCTGCTAGGCAATAAGCCTGATAAAATACACCGGCACATAA
51999200 AGCCTGCTAGGCAATAAGCCTGATAAAATACACCGGCACATAA
1 AGCCTGCTAGGCAATAAGCCTGATAAAATACACCGGCACATAA
51999243 AGCCTGCTAGGCAATAAGCCTGATAAAATACACCGGCACATAA
1 AGCCTGCTAGGCAATAAGCCTGATAAAATACACCGGCACATAA
51999286 AGCCTGCTAGGCAATAAGCCTGATAAAATACACCGGCACATAA
1 AGCCTGCTAGGCAATAAGCCTGATAAAATACACCGGCACATAA
51999329 AGCCTGCTAGGCAATAAGCCTGATAAAATACACCGGCACATAA
1 AGCCTGCTAGGCAATAAGCCTGATAAAATACACCGGCACATAA
51999372 AGCCTGCTAGGCAATAAGCCTGATAAAATACACCGGCACATAA
1 AGCCTGCTAGGCAATAAGCCTGATAAAATACACCGGCACATAA
51999415 AGCCTGCTAGGCAATAAGCCTGATAAAATACACCGGCACATAA
1 AGCCTGCTAGGCAATAAGCCTGATAAAATACACCGGCACATAA
51999458 AGCCTGCTAGGCAATAAGCCTGATAAAATACACCGGCACATAA
1 AGCCTGCTAGGCAATAAGCCTGATAAAATACACCGGCACATAA
* *
51999501 AGCCTGCTAGGCAATAAGCCTGATATAATACACTGGCAC--AA
1 AGCCTGCTAGGCAATAAGCCTGATAAAATACACCGGCACATAA
* **
51999542 AGCCGGCTAGGCAATAAGCCTGATTTAATACACCGGCAC--AA
1 AGCCTGCTAGGCAATAAGCCTGATAAAATACACCGGCACATAA
* * *
51999583 AGCCTGCTAGGCAATAAGCCTGATTTAAA-ACATC-G-ACACAA
1 AGCCTGCTAGGCAATAAGCCTGA-TAAAATACACCGGCACATAA
* *
51999624 AGCCTGCTAGGCAATAAGCCTAATATAATACACCGGCAC--AA
1 AGCCTGCTAGGCAATAAGCCTGATAAAATACACCGGCACATAA
* *
51999665 AGCCTACTAGGCAATAAGCCTGATATAATACACCGGCAC--AA
1 AGCCTGCTAGGCAATAAGCCTGATAAAATACACCGGCACATAA
51999706 AGCCTGCTAGGCA
1 AGCCTGCTAGGCA
51999719 GTAAAGCCCG
Statistics
Matches: 895, Mismatches: 30, Indels: 30
0.94 0.03 0.03
Matches are distributed among these distances:
39 3 0.00
40 9 0.01
41 322 0.36
42 11 0.01
43 550 0.61
ACGTcount: A:0.38, C:0.26, G:0.19, T:0.17
Consensus pattern (43 bp):
AGCCTGCTAGGCAATAAGCCTGATAAAATACACCGGCACATAA
Found at i:52006323 original size:41 final size:41
Alignment explanation
Indices: 52006259--52006554 Score: 416
Period size: 41 Copynumber: 7.1 Consensus size: 41
52006249 ACATAAAATT
*
52006259 TGCTAGGC-ATAGAGCCT-AGTATAATACACCGGCACAGAGCC
1 TGCTAGGCAATA-AGCCTGA-TATAATACACCGGCACAAAGCC
* * * *
52006300 TACTAGGAAATAAGCCTGATATAATACACGGGCATATAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGC--ACAAAGCC
52006343 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
* * * * *
52006384 TACTACGCAATAAGCCTGATTTAATACATCGGCACAGAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
52006425 TGCTAGGCAATAAGCCTGATATAATACACCGGCACATAACGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACA-AA-GCC
*
52006468 TGTTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
*
52006509 TGTTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
52006550 TGCTA
1 TGCTA
52006555 CAAAGCCTGC
Statistics
Matches: 228, Mismatches: 21, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
41 147 0.64
42 7 0.03
43 74 0.32
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (41 bp):
TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
Found at i:52006396 original size:84 final size:81
Alignment explanation
Indices: 52006259--52006555 Score: 400
Period size: 84 Copynumber: 3.6 Consensus size: 81
52006249 ACATAAAATT
* * *
52006259 TGCTAGGC-ATAGAGCCT-AGTATAATACACCGGCACAGAGCCTACTAGGAAATAAGCCTGATAT
1 TGCTAGGCAATA-AGCCTGA-TATAATACACCGGCACAAAGCCTACTACGCAATAAGCCTGATAT
*
52006322 AATACACGGGCATATAAAGCC
64 AATACAC-GGC--ACAAAGCC
*
52006343 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCCTACTACGCAATAAGCCTGATTTAA
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCCTACTACGCAATAAGCCTGATATAA
*
52006408 TACATCGGCACAGAGCC
66 TACA-CGGCACAAAGCC
** *
52006425 TGCTAGGCAATAAGCCTGATATAATACACCGGCACATAACGCCTGTTAGGCAATAAGCCTGATAT
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACA-AA-GCCTACTACGCAATAAGCCTGATAT
52006490 AATACACCGGCACAAAGCC
64 AATACA-CGGCACAAAGCC
* *
52006509 TGTTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCCTGCTAC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCCTACTAC
52006556 AAAGCCTGCT
Statistics
Matches: 193, Mismatches: 15, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
82 49 0.25
83 4 0.02
84 135 0.70
85 5 0.03
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (81 bp):
TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCCTACTACGCAATAAGCCTGATATAA
TACACGGCACAAAGCC
Found at i:52006559 original size:12 final size:12
Alignment explanation
Indices: 52006542--52006566 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
52006532 ATACACCGGC
52006542 ACAAAGCCTGCT
1 ACAAAGCCTGCT
52006554 ACAAAGCCTGCT
1 ACAAAGCCTGCT
52006566 A
1 A
52006567 GGCAATAAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.32, G:0.16, T:0.16
Consensus pattern (12 bp):
ACAAAGCCTGCT
Found at i:52006569 original size:53 final size:53
Alignment explanation
Indices: 52006501--52006607 Score: 187
Period size: 53 Copynumber: 2.0 Consensus size: 53
52006491 ATACACCGGC
*
52006501 ACAAAGCCTGTTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCCTGCT
1 ACAAAGCCTGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCCTGCT
* *
52006554 ACAAAGCCTGCTAGGCAATAAGCCTGATTTAATACATCGGCACAAAGCCTGCT
1 ACAAAGCCTGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCCTGCT
52006607 A
1 A
52006608 GGTAATAAGC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.20
Consensus pattern (53 bp):
ACAAAGCCTGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCCTGCT
Found at i:52006615 original size:41 final size:41
Alignment explanation
Indices: 52006554--52007476 Score: 1415
Period size: 41 Copynumber: 22.5 Consensus size: 41
52006544 AAAGCCTGCT
*
52006554 ACAAAGCCTGCTAGGCAATAAGCCTGATTTAATACATCGGC
1 ACAAAGCCTGCTAGGCAATAAGCCTGATTTAATACACCGGC
* *
52006595 ACAAAGCCTGCTAGGTAATAAGCCTGATTTAAAACACCGGC
1 ACAAAGCCTGCTAGGCAATAAGCCTGATTTAATACACCGGC
*
52006636 ACAAAGCCTGCTAGGCAATAAGCCTGATATAATACACCGGC
1 ACAAAGCCTGCTAGGCAATAAGCCTGATTTAATACACCGGC
* * *
52006677 ACAAAGCCTACTACGCAATAAGCCTGATTTAATACATCGGC
1 ACAAAGCCTGCTAGGCAATAAGCCTGATTTAATACACCGGC
* *
52006718 ACAAAGCCTGCTAGGTAATAAGCCTGATTTAAAACACCGGC
1 ACAAAGCCTGCTAGGCAATAAGCCTGATTTAATACACCGGC
*
52006759 ACAAAGCCTGCTAGGCAATAAGCCTGATATAATACACCGGC
1 ACAAAGCCTGCTAGGCAATAAGCCTGATTTAATACACCGGC
* * *
52006800 ACAAAGCCTACTACGCAATAAGCCTGATTTAATACATCGGC
1 ACAAAGCCTGCTAGGCAATAAGCCTGATTTAATACACCGGC
* *
52006841 ACAAAGCCTGCTAGGTAATAAGCCTGATTTAAAACACCGGC
1 ACAAAGCCTGCTAGGCAATAAGCCTGATTTAATACACCGGC
*
52006882 ACAAAGCCTGCTAGGCAATAAGCCTGATATAATACACCGGC
1 ACAAAGCCTGCTAGGCAATAAGCCTGATTTAATACACCGGC
* * *
52006923 ACAAAGCCTACTACGCAATAAGCCTGATTTAATACATCGGC
1 ACAAAGCCTGCTAGGCAATAAGCCTGATTTAATACACCGGC
* *
52006964 ACAAAGCCTGCTAGGTAATAAGCCTGATTTAAAACACCGGC
1 ACAAAGCCTGCTAGGCAATAAGCCTGATTTAATACACCGGC
*
52007005 ACAAAGCCTGCTAGGCAATAAGCCTGATATAATACACCGGC
1 ACAAAGCCTGCTAGGCAATAAGCCTGATTTAATACACCGGC
* * *
52007046 ACAAAGCCTACTACGCAATAAGCCTGATTTAATACATCGGC
1 ACAAAGCCTGCTAGGCAATAAGCCTGATTTAATACACCGGC
* *
52007087 ACAAAGCCTGCTAGGTAATAAGCCTGATTTAAAACACCGGC
1 ACAAAGCCTGCTAGGCAATAAGCCTGATTTAATACACCGGC
*
52007128 ACAAAGCCTGCTAGGCAATAAGCCTGATTTTAA-ACACTGGC
1 ACAAAGCCTGCTAGGCAATAAGCCTGA-TTTAATACACCGGC
*
52007169 ACAAAGCCTGCTAGGCAATAAGCCTGATTTTAA-ACACTGGC
1 ACAAAGCCTGCTAGGCAATAAGCCTGA-TTTAATACACCGGC
*
52007210 ACAAAGCCTGCTAGGCAATAAGCCTGATTTTAA-ACACTGGC
1 ACAAAGCCTGCTAGGCAATAAGCCTGA-TTTAATACACCGGC
*
52007251 ACAAAGCCTGCTAGGCAATAAGCCTGATTTTAA-ACACTGGC
1 ACAAAGCCTGCTAGGCAATAAGCCTGA-TTTAATACACCGGC
*
52007292 ACAAAGCCTGCTAGGCAATAAGCCTGATTTTAA-ACACTGGC
1 ACAAAGCCTGCTAGGCAATAAGCCTGA-TTTAATACACCGGC
*
52007333 ACAAAGCCTGCTAGGCAATAAGCCTGATTTAATACATCGGC
1 ACAAAGCCTGCTAGGCAATAAGCCTGATTTAATACACCGGC
* *
52007374 ACAAAGCCTGCTAGGTAATAAGCCTGATTTAAAACACCGGC
1 ACAAAGCCTGCTAGGCAATAAGCCTGATTTAATACACCGGC
* *
52007415 ACAAAGCCTGCTAGGCAATAAGCCTGATATAATACACCAGC
1 ACAAAGCCTGCTAGGCAATAAGCCTGATTTAATACACCGGC
* *
52007456 ACAAAGCCTGGTAGGTAATAA
1 ACAAAGCCTGCTAGGCAATAA
52007477 AGCCCGAATA
Statistics
Matches: 816, Mismatches: 64, Indels: 4
0.92 0.07 0.00
Matches are distributed among these distances:
40 5 0.01
41 806 0.99
42 5 0.01
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (41 bp):
ACAAAGCCTGCTAGGCAATAAGCCTGATTTAATACACCGGC
Found at i:52006632 original size:94 final size:94
Alignment explanation
Indices: 52006465--52006648 Score: 305
Period size: 94 Copynumber: 2.0 Consensus size: 94
52006455 GGCACATAAC
* *
52006465 GCCTGTTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCCTGTTAGGCAATAAGCCTGATA
1 GCCTGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCCTGCTAGGCAATAAGCCTGATA
*
52006530 TAATACACCGGCACAAAGCCTGCTACAAA
66 TAAAACACCGGCACAAAGCCTGCTACAAA
* * * *
52006559 GCCTGCTAGGCAATAAGCCTGATTTAATACATCGGCACAAAGCCTGCTAGGTAATAAGCCTGATT
1 GCCTGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCCTGCTAGGCAATAAGCCTGATA
52006624 TAAAACACCGGCACAAAGCCTGCTA
66 TAAAACACCGGCACAAAGCCTGCTA
52006649 GGCAATAAGC
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
94 83 1.00
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.20
Consensus pattern (94 bp):
GCCTGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCCTGCTAGGCAATAAGCCTGATA
TAAAACACCGGCACAAAGCCTGCTACAAA
Found at i:52011451 original size:16 final size:16
Alignment explanation
Indices: 52011426--52011457 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
52011416 CAATCTTTAT
*
52011426 AAAATTTTTGTTTTTG
1 AAAATCTTTGTTTTTG
52011442 AAAATCTTTGTTTTTG
1 AAAATCTTTGTTTTTG
52011458 TAAACCCATT
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:0.03, G:0.12, T:0.59
Consensus pattern (16 bp):
AAAATCTTTGTTTTTG
Found at i:52012453 original size:27 final size:27
Alignment explanation
Indices: 52012418--52012529 Score: 122
Period size: 27 Copynumber: 4.1 Consensus size: 27
52012408 AGCATGGCTG
* *
52012418 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
52012444 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
* * *
52012472 CCA-AAACAGATATATGTGGTAAAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
*
52012499 CCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGATACAGATAA-TGTGGCAGAGCCA
52012526 CCAG
1 CCAG
52012530 GACGCTTCCT
Statistics
Matches: 73, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
26 6 0.08
27 51 0.70
28 16 0.22
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:52025195 original size:40 final size:40
Alignment explanation
Indices: 52025114--52025256 Score: 227
Period size: 40 Copynumber: 3.6 Consensus size: 40
52025104 TATTCGGATG
*
52025114 ATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCTAGTGACT
52025155 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
52025195 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
52025235 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
52025257 TACTTGGGTT
Statistics
Matches: 98, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
39 15 0.15
40 57 0.58
41 26 0.27
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:52031794 original size:13 final size:13
Alignment explanation
Indices: 52031776--52031801 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
52031766 ATATTATAAT
52031776 TATTTTATGTTAA
1 TATTTTATGTTAA
52031789 TATTTTATGTTAA
1 TATTTTATGTTAA
52031802 AAATAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:52033303 original size:39 final size:40
Alignment explanation
Indices: 52033178--52033303 Score: 202
Period size: 40 Copynumber: 3.2 Consensus size: 40
52033168 GGACTAAGAT
52033178 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTG-CTATATCCGGGCTAAGTC
*
52033218 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAGTC
* *
52033258 CCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAGTC
52033297 CCGAAGG
1 CCGAAGG
52033304 TACTTGGGTT
Statistics
Matches: 81, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
39 15 0.19
40 65 0.80
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAGTC
Found at i:52035677 original size:30 final size:30
Alignment explanation
Indices: 52035641--52035701 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
52035631 CACCTGTAAC
*
52035641 ACCCCTAGCTCGTATCTGTCGTCGGAATAG
1 ACCCCTAGCTCGTATCTGTCGTCGAAATAG
52035671 ACCCCTAGCTCGTATCTGTCGTCGAAATAG
1 ACCCCTAGCTCGTATCTGTCGTCGAAATAG
52035701 A
1 A
52035702 GTCATAAGGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (30 bp):
ACCCCTAGCTCGTATCTGTCGTCGAAATAG
Found at i:52048419 original size:27 final size:26
Alignment explanation
Indices: 52048371--52048422 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
52048361 ATGAGGCTGC
*
52048371 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
52048397 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
52048423 TTGCAGTGAG
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:52056221 original size:42 final size:42
Alignment explanation
Indices: 52056174--52056380 Score: 270
Period size: 43 Copynumber: 4.9 Consensus size: 42
52056164 AAGGGTTATT
* * *
52056174 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGATTCCATGTAAGACCATATCTGGGATATGGCATCAATA
* * *
52056216 TGAGATTTCATGTAAGACCATAGCTGGGCTATTGGCATCAATA
1 TGAGATTCCATGTAAGACCATATCTGGGATA-TGGCATCAATA
** *
52056259 TGAGACCCCATGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGATTCCATGTAAGACCATATCTGGGATATGGCATCAATA
* * *
52056301 TGAGATTTCATGTAAGACCATAGCTGGGCTATTGGCATCAATA
1 TGAGATTCCATGTAAGACCATATCTGGGATA-TGGCATCAATA
**
52056344 TGAGACCCCATGTAAGACCATATCTGGGATATGGCAT
1 TGAGATTCCATGTAAGACCATATCTGGGATATGGCAT
52056381 TGGTAAGGTG
Statistics
Matches: 141, Mismatches: 22, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
42 69 0.49
43 72 0.51
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (42 bp):
TGAGATTCCATGTAAGACCATATCTGGGATATGGCATCAATA
Found at i:52056317 original size:85 final size:85
Alignment explanation
Indices: 52056184--52056380 Score: 394
Period size: 85 Copynumber: 2.3 Consensus size: 85
52056174 TGAGATTACG
52056184 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTCATGTAAGACCATAGCTGGGCTATT
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTCATGTAAGACCATAGCTGGGCTATT
52056249 GGCATCAATATGAGACCCCA
66 GGCATCAATATGAGACCCCA
52056269 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTCATGTAAGACCATAGCTGGGCTATT
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTCATGTAAGACCATAGCTGGGCTATT
52056334 GGCATCAATATGAGACCCCA
66 GGCATCAATATGAGACCCCA
52056354 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
52056381 TGGTAAGGTG
Statistics
Matches: 112, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 112 1.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (85 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTCATGTAAGACCATAGCTGGGCTATT
GGCATCAATATGAGACCCCA
Found at i:52058824 original size:14 final size:14
Alignment explanation
Indices: 52058805--52058832 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
52058795 CTATTGACCG
52058805 TATGATTATTTGTT
1 TATGATTATTTGTT
52058819 TATGATTATTTGTT
1 TATGATTATTTGTT
52058833 GATAAAGGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.14, T:0.64
Consensus pattern (14 bp):
TATGATTATTTGTT
Found at i:52063171 original size:40 final size:39
Alignment explanation
Indices: 52063109--52063206 Score: 115
Period size: 40 Copynumber: 2.5 Consensus size: 39
52063099 CATTAGCGAC
** * *
52063109 GCTTTTTAAAAAACGCTACTATAGATCGAGCACTAGCGGT
1 GCTTTTTAAAAAACGCCGCTATAGATCAAGCACTA-AGGT
* * *
52063149 GCTTTTTAAAAAATGCCGCTATAGATCAATCATTAAGGT
1 GCTTTTTAAAAAACGCCGCTATAGATCAAGCACTAAGGT
*
52063188 ACTTTTTAAAAAACGCCGC
1 GCTTTTTAAAAAACGCCGC
52063207 AAAAAAATTA
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 20 0.41
40 29 0.59
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (39 bp):
GCTTTTTAAAAAACGCCGCTATAGATCAAGCACTAAGGT
Found at i:52063314 original size:40 final size:40
Alignment explanation
Indices: 52063258--52063396 Score: 138
Period size: 40 Copynumber: 3.5 Consensus size: 40
52063248 GTGGCATTAG
* *
52063258 CGGCGC-TTTTAGAAAAACGTCGCTATTGATTGACCATCAA
1 CGGCGCTTTTTA-AAAAACGTCGCTATAGGTTGACCATCAA
* * ** *
52063298 CGGCGCTTTTTAAAAAACGCCACTATAGGTCCACCA-CTAG
1 CGGCGCTTTTTAAAAAACGTCGCTATAGGTTGACCATC-AA
* * *
52063338 CGGCTCTTTCTAAAAAACGTCGCTATAGGTTGACCATTAA
1 CGGCGCTTTTTAAAAAACGTCGCTATAGGTTGACCATCAA
* *
52063378 TGGCGCTTTTTGAAAAACG
1 CGGCGCTTTTTAAAAAACG
52063397 CAGCAAAAAA
Statistics
Matches: 77, Mismatches: 19, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
39 1 0.01
40 71 0.92
41 5 0.06
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.27
Consensus pattern (40 bp):
CGGCGCTTTTTAAAAAACGTCGCTATAGGTTGACCATCAA
Found at i:52063796 original size:7 final size:7
Alignment explanation
Indices: 52063784--52063975 Score: 79
Period size: 7 Copynumber: 26.9 Consensus size: 7
52063774 TATCATTATA
52063784 GTTTAGG
1 GTTTAGG
52063791 GTTTAGG
1 GTTTAGG
52063798 GTTTAGG
1 GTTTAGG
* *
52063805 GTATATG
1 GTTTAGG
52063812 GTTTAGG
1 GTTTAGG
*
52063819 GTTTAAG
1 GTTTAGG
*
52063826 CTTTAGG
1 GTTTAGG
52063833 AGTTACTA--
1 -GTT--TAGG
* *
52063841 TTTTAAG
1 GTTTAGG
*
52063848 GTTTATG
1 GTTTAGG
*
52063855 GATTATGG
1 GTTTA-GG
*
52063863 GTTTTGG
1 GTTTAGG
* *
52063870 GATTATG
1 GTTTAGG
*
52063877 GTTTATG
1 GTTTAGG
52063884 GTTTAAGG
1 GTTT-AGG
52063892 G-TT-GG
1 GTTTAGG
*
52063897 GATTTAAG
1 G-TTTAGG
52063905 GTTTAGG
1 GTTTAGG
*
52063912 GGTTAGGG
1 GTTTA-GG
*
52063920 GTTTATG
1 GTTTAGG
*
52063927 GTTTATG
1 GTTTAGG
* *
52063934 TTTTATG
1 GTTTAGG
*
52063941 ATTTAGG
1 GTTTAGG
52063948 GTTTATGG
1 GTTTA-GG
*
52063956 G-ATATGG
1 GTTTA-GG
*
52063963 GTTAAGG
1 GTTTAGG
52063970 GTTTAG
1 GTTTAG
52063976 ATTAATTAGT
Statistics
Matches: 139, Mismatches: 33, Indels: 26
0.70 0.17 0.13
Matches are distributed among these distances:
5 5 0.04
7 111 0.80
8 21 0.15
10 2 0.01
ACGTcount: A:0.20, C:0.01, G:0.34, T:0.45
Consensus pattern (7 bp):
GTTTAGG
Found at i:52063965 original size:43 final size:43
Alignment explanation
Indices: 52063842--52063974 Score: 110
Period size: 43 Copynumber: 3.1 Consensus size: 43
52063832 GAGTTACTAT
*
52063842 TTTAAGGTTTATGGA-TTATGGGTTT-TGGGATTAT-GGTTTATGG
1 TTTAAGGGTTA-GGATTTA-GGGTTTATGGGA-TATGGGTTTATGG
* * * * *
52063885 TTTAAGGGTTGGGATTTAAGGTTTAGGGGTTAGGGGTTTATGG
1 TTTAAGGGTTAGGATTTAGGGTTTATGGGATATGGGTTTATGG
* ** * * *
52063928 TTTATGTTTTATGATTTAGGGTTTATGGGATATGGGTTAAGGG
1 TTTAAGGGTTAGGATTTAGGGTTTATGGGATATGGGTTTATGG
52063971 TTTA
1 TTTA
52063975 GATTAATTAG
Statistics
Matches: 70, Mismatches: 17, Indels: 6
0.75 0.18 0.06
Matches are distributed among these distances:
42 10 0.14
43 60 0.86
ACGTcount: A:0.20, C:0.00, G:0.35, T:0.46
Consensus pattern (43 bp):
TTTAAGGGTTAGGATTTAGGGTTTATGGGATATGGGTTTATGG
Found at i:52064679 original size:71 final size:73
Alignment explanation
Indices: 52064533--52064681 Score: 187
Period size: 72 Copynumber: 2.1 Consensus size: 73
52064523 GACGCCGTTT
* ** *
52064533 TATTTCTCTCCCCCCAATTTCCTCTTCTTTCCTGATTTCCTTTTCTTTCTCAGCCATTCTCAGCC
1 TATTTCTCTCCCCCCAATTCCCTCTTCTTTCCCAATTTCCTTTTCTTTCTCAGCCATTCTCAACC
52064598 TGTTACTC
66 TGTTACTC
* * * **
52064606 TATTTCTCT-CCCCCGATTCCCTTTTCTTTCCCAATTTCCTTTT-TTTCTCATCGTTTCTCAACC
1 TATTTCTCTCCCCCCAATTCCCTCTTCTTTCCCAATTTCCTTTTCTTTCTCAGCCATTCTCAACC
52064669 TGTT-CTTC
66 TGTTAC-TC
52064677 TATTT
1 TATTT
52064682 TATACCAGAA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
70 1 0.02
71 27 0.41
72 29 0.44
73 9 0.14
ACGTcount: A:0.11, C:0.35, G:0.05, T:0.50
Consensus pattern (73 bp):
TATTTCTCTCCCCCCAATTCCCTCTTCTTTCCCAATTTCCTTTTCTTTCTCAGCCATTCTCAACC
TGTTACTC
Found at i:52065209 original size:28 final size:28
Alignment explanation
Indices: 52065158--52065213 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
52065148 TTTGCCTTTG
* *
52065158 TTCTATCTTTCCTGAAACTTTAGGTTTA
1 TTCTATCTTTCCCGAAACTCTAGGTTTA
*
52065186 TTCTATCTTTCCCGAATCTCTAGGTTTA
1 TTCTATCTTTCCCGAAACTCTAGGTTTA
52065214 AAAAAAACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.20, C:0.21, G:0.11, T:0.48
Consensus pattern (28 bp):
TTCTATCTTTCCCGAAACTCTAGGTTTA
Found at i:52065408 original size:21 final size:21
Alignment explanation
Indices: 52065382--52065427 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
52065372 AAAGAAGCTT
52065382 TCATCTTCTTCCAACAGATTG
1 TCATCTTCTTCCAACAGATTG
*
52065403 TCATCTTCTTCCAATAGATTG
1 TCATCTTCTTCCAACAGATTG
52065424 TCAT
1 TCAT
52065428 ATATATTGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.24, C:0.26, G:0.09, T:0.41
Consensus pattern (21 bp):
TCATCTTCTTCCAACAGATTG
Found at i:52068685 original size:23 final size:23
Alignment explanation
Indices: 52068655--52068758 Score: 154
Period size: 23 Copynumber: 4.5 Consensus size: 23
52068645 TGGTTGCTGC
52068655 TGTTTAAATGTTGTAAATTGAAG
1 TGTTTAAATGTTGTAAATTGAAG
*
52068678 TGTTTAAATGCTGTAAATTGAAG
1 TGTTTAAATGTTGTAAATTGAAG
** *
52068701 TGTTTAAATGTAATAAATTCAAG
1 TGTTTAAATGTTGTAAATTGAAG
* *
52068724 TATTTAAATGCTGTAAATTGAAG
1 TGTTTAAATGTTGTAAATTGAAG
52068747 TGTTTAAATGTT
1 TGTTTAAATGTT
52068759 CTTTGTGTAG
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 69 1.00
ACGTcount: A:0.37, C:0.03, G:0.18, T:0.42
Consensus pattern (23 bp):
TGTTTAAATGTTGTAAATTGAAG
Found at i:52068711 original size:46 final size:46
Alignment explanation
Indices: 52068655--52068758 Score: 172
Period size: 46 Copynumber: 2.3 Consensus size: 46
52068645 TGGTTGCTGC
* * *
52068655 TGTTTAAATGTTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAG
1 TGTTTAAATGTTATAAATTCAAGTATTTAAATGCTGTAAATTGAAG
*
52068701 TGTTTAAATGTAATAAATTCAAGTATTTAAATGCTGTAAATTGAAG
1 TGTTTAAATGTTATAAATTCAAGTATTTAAATGCTGTAAATTGAAG
52068747 TGTTTAAATGTT
1 TGTTTAAATGTT
52068759 CTTTGTGTAG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 53 1.00
ACGTcount: A:0.37, C:0.03, G:0.18, T:0.42
Consensus pattern (46 bp):
TGTTTAAATGTTATAAATTCAAGTATTTAAATGCTGTAAATTGAAG
Found at i:52069345 original size:42 final size:42
Alignment explanation
Indices: 52069276--52069357 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
52069266 TCGCTAAAGG
* *
52069276 TCATGTCTTTAGCGGCGTTTGAGGAGAAAATGCCGTTAAAAA
1 TCATGTATTTAGCGGCGTTTGAGGAGAAAACGCCGTTAAAAA
* * *
52069318 TCATGTATTTAGTGGCGTTTTTA-GAGAAAGCGCCGTTAAA
1 TCATGTATTTAGCGGCG-TTTGAGGAGAAAACGCCGTTAAA
52069358 GGTCATGTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 30 0.88
43 4 0.12
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (42 bp):
TCATGTATTTAGCGGCGTTTGAGGAGAAAACGCCGTTAAAAA
Found at i:52069364 original size:42 final size:42
Alignment explanation
Indices: 52069241--52069529 Score: 217
Period size: 43 Copynumber: 6.8 Consensus size: 42
52069231 TGATATGGTA
* * * * *
52069241 TTTAGTGGAGTTTTTGGGGAAAGCGTCGCTAAAGGTCATGTC
1 TTTAGTGGCGTTTTTAGAGAAAGCGCCGTTAAAGGTCATGTC
* * ** ** *
52069283 TTTAGCGGCG-TTTGAGGAGAAAATGCCGTTAAAAATCATGTA
1 TTTAGTGGCGTTTTTA-GAGAAAGCGCCGTTAAAGGTCATGTC
52069325 TTTAGTGGCGTTTTTAGAGAAAGCGCCGTTAAAGGTCATGTTC
1 TTTAGTGGCGTTTTTAGAGAAAGCGCCGTTAAAGGTCATG-TC
* * * * *
52069368 TTTAATGACATTTTT-GAGGAAAGCGCTGGTAAAGGTCATGTTC
1 TTTAGTGGCGTTTTTAGA-GAAAGCGCCGTTAAAGGTCATG-TC
* * * ** *
52069411 TTTAATGGCGTTTTTAGGGAAAGTGTTGCTAAAGGTCATGTTC
1 TTTAGTGGCGTTTTTAGAGAAAGCGCCGTTAAAGGTCATG-TC
52069454 TTTAGTGGCGTTTCTGT-G-GAAAGCGCCGTTAAAGGTCATGTTC
1 TTTAGTGGCGTTT-T-TAGAGAAAGCGCCGTTAAAGGTCATG-TC
* * * * * *
52069497 TTTAGCGGCATTTTTGGGGAAAACGCAGTTAAA
1 TTTAGTGGCGTTTTTAGAGAAAGCGCCGTTAAA
52069530 TGTAATAAAT
Statistics
Matches: 199, Mismatches: 39, Indels: 17
0.78 0.15 0.07
Matches are distributed among these distances:
41 4 0.02
42 59 0.30
43 132 0.66
44 3 0.02
45 1 0.01
ACGTcount: A:0.25, C:0.12, G:0.28, T:0.34
Consensus pattern (42 bp):
TTTAGTGGCGTTTTTAGAGAAAGCGCCGTTAAAGGTCATGTC
Found at i:52069433 original size:86 final size:86
Alignment explanation
Indices: 52069325--52069529 Score: 248
Period size: 86 Copynumber: 2.4 Consensus size: 86
52069315 AAATCATGTA
* * *
52069325 TTTAGTGGCGTTTTTAGAGAAAGCGCCGTTAAAGGTCATGTTCTTTAATGACATTTTTGAGGAAA
1 TTTAGTGGCGTTTTTAGGGAAAGCGCAGTTAAAGGTCATGTTCTTTAATGACATTTCTGAGGAAA
*
52069390 GCGCTGGTAAAGGTCATGTTC
66 GCGCCGGTAAAGGTCATGTTC
* * ** * * * * *
52069411 TTTAATGGCGTTTTTAGGGAAAGTGTTGCTAAAGGTCATGTTCTTTAGTGGCGTTTCTGTGGAAA
1 TTTAGTGGCGTTTTTAGGGAAAGCGCAGTTAAAGGTCATGTTCTTTAATGACATTTCTGAGGAAA
*
52069476 GCGCCGTTAAAGGTCATGTTC
66 GCGCCGGTAAAGGTCATGTTC
* * * *
52069497 TTTAGCGGCATTTTTGGGGAAAACGCAGTTAAA
1 TTTAGTGGCGTTTTTAGGGAAAGCGCAGTTAAA
52069530 TGTAATAAAT
Statistics
Matches: 97, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
86 97 1.00
ACGTcount: A:0.24, C:0.13, G:0.28, T:0.35
Consensus pattern (86 bp):
TTTAGTGGCGTTTTTAGGGAAAGCGCAGTTAAAGGTCATGTTCTTTAATGACATTTCTGAGGAAA
GCGCCGGTAAAGGTCATGTTC
Found at i:52070198 original size:28 final size:28
Alignment explanation
Indices: 52070136--52070201 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 28
52070126 TTCACATACC
* **
52070136 TTATCTGGCCCATTAAGCCCAATCATTT
1 TTATATGGCCCATTAAGCCCAATCACCT
* *
52070164 TTTTATGGCCCATT-GGCCCAAATCACCT
1 TTATATGGCCCATTAAGCCC-AATCACCT
52070192 TTATATGGCC
1 TTATATGGCC
52070202 TGTTAGGCCC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 4 0.13
28 27 0.87
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.35
Consensus pattern (28 bp):
TTATATGGCCCATTAAGCCCAATCACCT
Found at i:52070306 original size:17 final size:18
Alignment explanation
Indices: 52070284--52070329 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
52070274 TGCCTATTAT
52070284 GGGCCCA-ATAGCCCATC
1 GGGCCCATATAGCCCATC
*
52070301 GGGCCCATTTAGCCCATTC
1 GGGCCCATATAGCCCA-TC
*
52070320 CGGCCCATAT
1 GGGCCCATAT
52070330 GGCCAAATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 7 0.29
18 7 0.29
19 10 0.42
ACGTcount: A:0.20, C:0.39, G:0.22, T:0.20
Consensus pattern (18 bp):
GGGCCCATATAGCCCATC
Found at i:52070468 original size:24 final size:24
Alignment explanation
Indices: 52070441--52070486 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
52070431 CAAACTTTCG
* *
52070441 GCTTTTTGGCATTTCGGCTTTTTA
1 GCTTTTTGGCAATTCGACTTTTTA
52070465 GCTTTTTGGCAATTCGACTTTT
1 GCTTTTTGGCAATTCGACTTTT
52070487 GCCGATACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.11, C:0.17, G:0.20, T:0.52
Consensus pattern (24 bp):
GCTTTTTGGCAATTCGACTTTTTA
Found at i:52074729 original size:28 final size:27
Alignment explanation
Indices: 52074685--52074768 Score: 71
Period size: 28 Copynumber: 3.0 Consensus size: 27
52074675 TACCTGTATC
* *
52074685 TGGCCCATTAAGACCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCA-ATTCATA
**
52074713 TGGCCCATTAGGCCCAAATCACCT-ATA
1 TGGCCCATTAGGCCC-AATCAATTCATA
* * *
52074740 TGGCCCGTTAGGCCTAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCA-ATTCATA
52074768 T
1 T
52074769 TCATGCTCAC
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
26 4 0.09
27 17 0.39
28 18 0.41
29 5 0.11
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
TGGCCCATTAGGCCCAATCAATTCATA
Found at i:52074848 original size:17 final size:18
Alignment explanation
Indices: 52074826--52074872 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
52074816 TTGCCTATTA
52074826 TGGGCCCA-ATAGCCCAT
1 TGGGCCCATATAGCCCAT
*
52074843 TGGGCCCATTTAGCCCAT
1 TGGGCCCATATAGCCCAT
*
52074861 TCTGGCCCATAT
1 T-GGGCCCATAT
52074873 GGCCAAATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 8 0.32
18 9 0.36
19 8 0.32
ACGTcount: A:0.19, C:0.34, G:0.21, T:0.26
Consensus pattern (18 bp):
TGGGCCCATATAGCCCAT
Found at i:52076584 original size:26 final size:27
Alignment explanation
Indices: 52076471--52076596 Score: 121
Period size: 27 Copynumber: 4.7 Consensus size: 27
52076461 GGCATAATCG
* ** * *
52076471 TCATTTTACCATACAGGGGTATTATGG
1 TCATTTTACCTTATGGGGGTATTACGA
*
52076498 TCATTTTACCTTATGGGGGTATTTCGA
1 TCATTTTACCTTATGGGGGTATTACGA
* *
52076525 TCATTTTACCCTATGGGGGTATTTC-A
1 TCATTTTACCTTATGGGGGTATTACGA
*
52076551 TTCATTTTACCTTAT-GGGGTATTACGG
1 -TCATTTTACCTTATGGGGGTATTACGA
** *
52076578 TTGTTTTACCATATGGGGG
1 TCATTTTACCTTATGGGGG
52076597 CATTTCGGCC
Statistics
Matches: 83, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
26 21 0.25
27 62 0.75
ACGTcount: A:0.20, C:0.15, G:0.23, T:0.42
Consensus pattern (27 bp):
TCATTTTACCTTATGGGGGTATTACGA
Found at i:52076593 original size:53 final size:54
Alignment explanation
Indices: 52076498--52076602 Score: 149
Period size: 53 Copynumber: 2.0 Consensus size: 54
52076488 GGTATTATGG
* * *
52076498 TCATTTTACCTTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCAT
1 TCATTTTACCTTATGGGGGTATTACGATCATTTTACCATATGGGGGCATTTCAT
* **
52076552 TCATTTTACCTTAT-GGGGTATTACGGTTGTTTTACCATATGGGGGCATTTC
1 TCATTTTACCTTATGGGGGTATTACGATCATTTTACCATATGGGGGCATTTC
52076603 GGCCAAACTT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
53 31 0.69
54 14 0.31
ACGTcount: A:0.18, C:0.16, G:0.22, T:0.44
Consensus pattern (54 bp):
TCATTTTACCTTATGGGGGTATTACGATCATTTTACCATATGGGGGCATTTCAT
Found at i:52077608 original size:27 final size:27
Alignment explanation
Indices: 52077577--52077641 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
52077567 TATTTAGTAT
* *
52077577 CAGTACAGTCTGGGCCTTAGCCCTATA
1 CAGTACAGTCTGGGCCTAAGCCCAATA
* * *
52077604 TAGTAATAGTGTGGGCCTAAGCCCAATA
1 CAGT-ACAGTCTGGGCCTAAGCCCAATA
52077632 CAGTATCAGT
1 CAGTA-CAGT
52077642 ACAATGTAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
27 4 0.14
28 25 0.86
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (27 bp):
CAGTACAGTCTGGGCCTAAGCCCAATA
Found at i:52078047 original size:26 final size:27
Alignment explanation
Indices: 52077991--52078127 Score: 154
Period size: 27 Copynumber: 5.1 Consensus size: 27
52077981 GGGCATAATC
* * * * *
52077991 GTCATTTTATCATACAGGGGTATTACG
1 GTCATTTTACCCTATAGGGGTATTTCA
*
52078018 GTCATTTTACCTTAT-GGGGTATTTCA
1 GTCATTTTACCCTATAGGGGTATTTCA
*
52078044 GTCATTTTACCCTATAGGGGTATTTTTA
1 GTCATTTTACCCTATAGGGGTA-TTTCA
*
52078072 -TCATTTTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATAGGGGTATTTCA
* *
52078098 GTCATTTTACCCTAT-GGGGCATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCA
52078124 GTCA
1 GTCA
52078128 AACTTTACTA
Statistics
Matches: 96, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
26 40 0.42
27 52 0.54
28 4 0.04
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTTCA
Found at i:52078112 original size:54 final size:52
Alignment explanation
Indices: 52078019--52078121 Score: 170
Period size: 54 Copynumber: 1.9 Consensus size: 52
52078009 GGTATTACGG
* *
52078019 TCATTTTACCTTATGGGGTATTTCAGTCATTTTACCCTATAGGGGTATTTTTA
1 TCATTTTACCCTATGGGGTATTTCAGTCATTTTACCCTAT-GGGGCATTTTTA
52078072 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGGGGCATTT
1 TCATTTTACCCTAT-GGGGTATTTCAGTCATTTTACCCTATGGGGCATTT
52078122 CGGTCAAACT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
53 21 0.45
54 26 0.55
ACGTcount: A:0.19, C:0.17, G:0.18, T:0.45
Consensus pattern (52 bp):
TCATTTTACCCTATGGGGTATTTCAGTCATTTTACCCTATGGGGCATTTTTA
Found at i:52079676 original size:23 final size:23
Alignment explanation
Indices: 52079587--52079710 Score: 83
Period size: 23 Copynumber: 5.3 Consensus size: 23
52079577 AGACTCACCA
52079587 CAGCTCGTATGAGCTTACCGATATAT
1 CAGCTCGTATGAGCTTACCG-T-T-T
* * **
52079613 CAGCTCGAAAGAGCTTACTATTTT
1 CAGCTCGTATGAGCTTAC-CGTTT
* *
52079637 CAGCTCAT-TGGAACTTACCGTTT
1 CAGCTCGTAT-GAGCTTACCGTTT
*
52079660 CAGCTCGTATGAGCTTACTGTTT
1 CAGCTCGTATGAGCTTACCGTTT
* * *
52079683 -AGCT-TTAAAGAGCTTACTGTTT
1 CAGCTCGT-ATGAGCTTACCGTTT
52079705 CAGCTC
1 CAGCTC
52079711 AATAGAGTTA
Statistics
Matches: 77, Mismatches: 15, Indels: 14
0.73 0.14 0.13
Matches are distributed among these distances:
21 1 0.01
22 18 0.23
23 25 0.32
24 15 0.19
25 1 0.01
26 17 0.22
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.35
Consensus pattern (23 bp):
CAGCTCGTATGAGCTTACCGTTT
Found at i:52079717 original size:23 final size:23
Alignment explanation
Indices: 52079612--52079717 Score: 85
Period size: 23 Copynumber: 4.6 Consensus size: 23
52079602 TACCGATATA
*
52079612 TCAGCTCGAA-AGAGCTTACTATTT
1 TCAGCTC-AATAGAGCTTACT-GTT
* * * *
52079636 TCAGCTCATTGGAACTTACCGTT
1 TCAGCTCAATAGAGCTTACTGTT
*
52079659 TCAGCTC-GTATGAGCTTACTGTT
1 TCAGCTCAATA-GAGCTTACTGTT
*
52079682 T-AGCTTTAA-AGAGCTTACTGTT
1 TCAGC-TCAATAGAGCTTACTGTT
52079704 TCAGCTCAATAGAG
1 TCAGCTCAATAGAG
52079718 TTATTGCTTA
Statistics
Matches: 64, Mismatches: 12, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
22 20 0.31
23 30 0.47
24 14 0.22
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (23 bp):
TCAGCTCAATAGAGCTTACTGTT
Found at i:52082772 original size:21 final size:20
Alignment explanation
Indices: 52082744--52082783 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
52082734 GATCTATACG
52082744 AATAAATTT-AACATCAATTT
1 AATAAATTTAAAC-TCAATTT
52082764 AATACAATTTAAACTCAATT
1 AATA-AATTTAAACTCAATT
52082784 CAGTCCAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 11 0.61
22 3 0.17
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (20 bp):
AATAAATTTAAACTCAATTT
Found at i:52095345 original size:13 final size:13
Alignment explanation
Indices: 52095327--52095351 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52095317 GTAAGTGATT
52095327 TTGATGATTTTTC
1 TTGATGATTTTTC
52095340 TTGATGATTTTT
1 TTGATGATTTTT
52095352 GCACTTTTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTGATGATTTTTC
Found at i:52096146 original size:50 final size:48
Alignment explanation
Indices: 52096089--52096275 Score: 191
Period size: 50 Copynumber: 3.9 Consensus size: 48
52096079 GCCACATTAC
52096089 GAGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGATAT
1 GAGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCAC-GAGAT-T
* ** **
52096139 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGTGTCGGC-CTTGATTTT
1 GAGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCAC--GAGATT
* * * * ** *
52096188 GATAGTCAGTGTAAGACCATGTCTGGGACATGGCATC--AACTTGATG
1 GAGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCACGAGATT
*
52096234 GATGAGCCAATGTAAGATCATGTCTGGGACATGGCATCGGCA
1 GA-GAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCA
52096276 TTACACATTA
Statistics
Matches: 111, Mismatches: 21, Indels: 11
0.78 0.15 0.08
Matches are distributed among these distances:
46 3 0.03
47 31 0.28
48 1 0.01
49 36 0.32
50 40 0.36
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (48 bp):
GAGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCACGAGATT
Found at i:52096274 original size:96 final size:98
Alignment explanation
Indices: 52096098--52096274 Score: 243
Period size: 96 Copynumber: 1.8 Consensus size: 98
52096088 CGAGAGCCAA
* * *
52096098 TGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGATATGAGAGCCAGTGTAAGACCATGTCT
1 TGTAAGACCATGTCTGGGACATGGCATC-GAACAGAGATAGGAGAGCCAATGTAAGACCATGTCT
**
52096163 GGGACATGGTGTCGGCCTTGATTTTGATAGTCAG
65 GGGACATGGCATCGGCCTTGATTTTGATAGTCAG
** *
52096197 TGTAAGACCATGTCTGGGACATGGCATC-AAC-TTGAT-GGATGAGCCAATGTAAGATCATGTCT
1 TGTAAGACCATGTCTGGGACATGGCATCGAACAGAGATAGGA-GAGCCAATGTAAGACCATGTCT
52096259 GGGACATGGCATCGGC
65 GGGACATGGCATCGGC
52096275 ATTACACATT
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
95 2 0.03
96 37 0.54
97 2 0.03
99 28 0.41
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.25
Consensus pattern (98 bp):
TGTAAGACCATGTCTGGGACATGGCATCGAACAGAGATAGGAGAGCCAATGTAAGACCATGTCTG
GGACATGGCATCGGCCTTGATTTTGATAGTCAG
Found at i:52102373 original size:13 final size:13
Alignment explanation
Indices: 52102355--52102379 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52102345 ACAAGTGATT
52102355 TTGATGATTTTTC
1 TTGATGATTTTTC
52102368 TTGATGATTTTT
1 TTGATGATTTTT
52102380 GCACTTTTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTGATGATTTTTC
Found at i:52103153 original size:47 final size:45
Alignment explanation
Indices: 52103085--52103343 Score: 186
Period size: 47 Copynumber: 5.5 Consensus size: 45
52103075 TTTGTGCGCT
* *
52103085 AGTGTAAGACATGTCTGGGACATGCATCAGCCATATTAGGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GGCATATGAGGAGAGCC
* *
52103131 AGTGTAAGGCCATGTCTGGGACATGGCATCGGCAT-TGAGACGAGAGCT
1 AGTGTAA-GACATGTCTGGGACAT-GCATCGGCATATGAG--GAGAGCC
* * *
52103179 AGTATAAGACATGTCTGGGACATGCATCGGC-TATGA-GATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATATGAGGA-GAGCC
* * * *** * *
52103223 AGTGTAAGACCATGTCTGGGACATGGCGTTGGCCTCGATTTCGATAGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCAT--ATGAGGAGAGCC
* * *
52103272 AGTGTAAGACCATGTCTGGGACATCGCATCGAC-T-TGATAGATGACCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATATGA-GGA-GAGCC
52103319 AGTGTAAGACAATGTCTGGGACATG
1 AGTGTAAGAC-ATGTCTGGGACATG
52103344 GCATTAGTAT
Statistics
Matches: 172, Mismatches: 26, Indels: 30
0.75 0.11 0.13
Matches are distributed among these distances:
43 2 0.01
44 10 0.06
45 16 0.09
46 31 0.18
47 59 0.34
48 18 0.10
49 34 0.20
50 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATATGAGGAGAGCC
Found at i:52105164 original size:48 final size:46
Alignment explanation
Indices: 52105063--52105431 Score: 212
Period size: 48 Copynumber: 7.8 Consensus size: 46
52105053 ATGGATGTGT
* * *
52105063 GCTAGTGTAAGACATGTCTGGGACATGCATCGCCAACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCAATATGAGA
* * * *
52105109 GCCAGTGTAAGACTATGTCTGGGACATGGCATCGGCATTAAAACGAGA
1 GCTAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCATCAATATGAGA
* * *
52105157 GCTAGTGTAAGACATGTTTGGGACATCCATCGGCCTCGAGATATGCA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATC-A-ATATG-AGA
* ** * * *
52105205 GCTAGTGTAAGACCTGTCTGGGACATGGCATCAACAT-GACATGTG-
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCATCAATATGAGA
* * * * * *
52105250 TCT-GTGTAAGACCTATTTGGGACATGGCATCGACACCAATAGATGAGA
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCATCAAT--ATGAGA
* * * * *
52105298 GCCAGTGTAAGACCTGTCTGGGACATAGCATCAGCCTCGATATATGAAA
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCATC-A-ATATGAGA
* * * * * *
52105347 G-TCAATGTAAGACCTGTCTGGGACATGGCATCGAC-TTAGATGTGTGA
1 GCT-AGTGTAAGACATGTCTGGGACAT-GCATCGGCATCA-ATATGAGA
* *
52105394 GCCAGTGTAAGACAATGTTTGGAGA-ATGGCATCGGCAT
1 GCTAGTGTAAGAC-ATGTCTGG-GACAT-GCATCGGCAT
52105432 TGTACCCTAT
Statistics
Matches: 248, Mismatches: 56, Indels: 35
0.73 0.17 0.10
Matches are distributed among these distances:
44 29 0.12
45 3 0.01
46 24 0.10
47 46 0.19
48 72 0.29
49 71 0.29
50 1 0.00
51 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCAATATGAGA
Found at i:52105320 original size:49 final size:48
Alignment explanation
Indices: 52105066--52105381 Score: 222
Period size: 49 Copynumber: 6.7 Consensus size: 48
52105056 GATGTGTGCT
* * *
52105066 AGTGTAAGACATGTCTGGGACAT-GCATCGCCAACAT-TATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACCATATATGAGAGCC
* * ** * * *
52105112 AGTGTAAGACTATGTCTGGGACATGGCATCGGCATTA-AAACGAGAGCT
1 AGTGTAAGAC-CTGTCTGGGACATGGCATCGACACCATATATGAGAGCC
* * * * * *
52105160 AGTGTAAGACATGTTTGGGACAT-CCATCGGC-CTCGAGATATGCA-AGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACAC-C-ATATATG-AGAGCC
* * *
52105208 AGTGTAAGACCTGTCTGGGACATGGCATC-A-A-CATGACAT--GTGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACCAT-ATATGAGAGCC
* * * *
52105252 TGTGTAAGACCTATTTGGGACATGGCATCGACACCAATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACC-ATATATGAGAGCC
* * * * * *
52105301 AGTGTAAGACCTGTCTGGGACATAGCATCAGCCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATC-GACACCATATATGAGAGCC
*
52105350 AATGTAAGACCTGTCTGGGACATGGCATCGAC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC
52105382 TTAGATGTGT
Statistics
Matches: 212, Mismatches: 40, Indels: 34
0.74 0.14 0.12
Matches are distributed among these distances:
44 27 0.13
45 2 0.01
46 22 0.10
47 30 0.14
48 58 0.27
49 70 0.33
50 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACACCATATATGAGAGCC
Found at i:52105335 original size:142 final size:140
Alignment explanation
Indices: 52105113--52105378 Score: 358
Period size: 142 Copynumber: 1.9 Consensus size: 140
52105103 ATGAGAGCCA
* ** * *
52105113 GTGTAAGACTATGTCTGGGACATGGCATCGGCATTAAAACGAGAGCTAGTGTAAGACATGTTTGG
1 GTGTAAGACTATGTCTGGGACATGGCATCGACACCAAAACGAGAGCCAGTGTAAGACATGTCTGG
* * *
52105178 GACATCCATCGGCCTCGAGATATGCAAG-CTAGTGTAAGACCTGTCTGGGACATGGCATCAACAT
66 GACATCCATCAGCCTCGAGATATGAAAGTC-AATGTAAGACCTGTCTGGGACATGGCATCAACAT
52105242 GACATGTGTCT
130 GACATGTGTCT
* *
52105253 GTGTAAGACCTAT-T-TGGGACATGGCATCGACACCAATAGATGAGAGCCAGTGTAAGACCTGTC
1 GTGTAAGA-CTATGTCTGGGACATGGCATCGACACCAA-A-ACGAGAGCCAGTGTAAGACATGTC
* *
52105316 TGGGACATAGCATCAGCCTCGATATATGAAAGTCAATGTAAGACCTGTCTGGGACATGGCATC
63 TGGGACAT-CCATCAGCCTCGAGATATGAAAGTCAATGTAAGACCTGTCTGGGACATGGCATC
52105379 GACTTAGATG
Statistics
Matches: 109, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
139 19 0.17
140 10 0.09
141 32 0.29
142 47 0.43
143 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (140 bp):
GTGTAAGACTATGTCTGGGACATGGCATCGACACCAAAACGAGAGCCAGTGTAAGACATGTCTGG
GACATCCATCAGCCTCGAGATATGAAAGTCAATGTAAGACCTGTCTGGGACATGGCATCAACATG
ACATGTGTCT
Found at i:52107117 original size:22 final size:23
Alignment explanation
Indices: 52107091--52107136 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
52107081 GTTTCGAAGG
*
52107091 CACACAGGC-GTGTCCTTGTGTC
1 CACACAGGCAGTGACCTTGTGTC
*
52107113 CACACGGGCATGTGACCTTGTGTC
1 CACACAGGCA-GTGACCTTGTGTC
52107137 ATGGAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 8 0.40
24 12 0.60
ACGTcount: A:0.15, C:0.30, G:0.28, T:0.26
Consensus pattern (23 bp):
CACACAGGCAGTGACCTTGTGTC
Found at i:52108340 original size:26 final size:27
Alignment explanation
Indices: 52108311--52108368 Score: 84
Period size: 26 Copynumber: 2.2 Consensus size: 27
52108301 GTGCACTTTT
52108311 AAGGAAAACCTTTGTGGC-AAATATGA
1 AAGGAAAACCTTTGTGGCGAAATATGA
* *
52108337 AAGG-AAACCTTTGTGGCGTAATATGG
1 AAGGAAAACCTTTGTGGCGAAATATGA
52108363 AAGGAA
1 AAGGAA
52108369 TGTCTTTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 13 0.46
26 14 0.50
27 1 0.04
ACGTcount: A:0.40, C:0.10, G:0.28, T:0.22
Consensus pattern (27 bp):
AAGGAAAACCTTTGTGGCGAAATATGA
Found at i:52114351 original size:181 final size:181
Alignment explanation
Indices: 52114108--52114438 Score: 466
Period size: 181 Copynumber: 1.8 Consensus size: 181
52114098 TAATTTTCCC
* * * *
52114108 AAAAATTATACTCACATATATTCTTACCATAAAATTTTCAGAATTTTTTGTTTAGCCAATTAGCA
1 AAAAACTATACTCACATATATTATTACCACAAAATTTTCAGAATTTTTGGTTTAGCCAATTAGCA
** *
52114173 CAGTTTATTCATTAAAGTTATC-CCTATTTCACTGTCCAACAGTTCCAACCTCTCTTCACTAAAA
66 CAGTTTATTCATTAAAAATA-CACATATTTCACTGTCCAACAGTTCCAACCTCTCTTCACTAAAA
52114237 ATTATTTATCTCATGGTACAGGACACCAAATTAAGAACAGCTAATTTTACAA
130 ATTATTTATCTCATGGTACAGGACACCAAATTAAGAACAGCTAATTTTACAA
* * * *
52114289 AAAAACTATACTTACATATATTATTACTACAAAATTTTCATAATTTTTGGTTTAGCCAATTAGTA
1 AAAAACTATACTCACATATATTATTACCACAAAATTTTCAGAATTTTTGGTTTAGCCAATTAGCA
* * * *** * * *
52114354 TAGTTTATTCATTAAAAATACACATGTTTCATTGTTTGACAGTTCCAATCTTTCTTCACTAAATA
66 CAGTTTATTCATTAAAAATACACATATTTCACTGTCCAACAGTTCCAACCTCTCTTCACTAAAAA
52114419 TTATTTATCTCATGGTACAG
131 TTATTTATCTCATGGTACAG
52114439 ATCTCGGATG
Statistics
Matches: 129, Mismatches: 20, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
180 1 0.01
181 128 0.99
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.39
Consensus pattern (181 bp):
AAAAACTATACTCACATATATTATTACCACAAAATTTTCAGAATTTTTGGTTTAGCCAATTAGCA
CAGTTTATTCATTAAAAATACACATATTTCACTGTCCAACAGTTCCAACCTCTCTTCACTAAAAA
TTATTTATCTCATGGTACAGGACACCAAATTAAGAACAGCTAATTTTACAA
Found at i:52116682 original size:18 final size:18
Alignment explanation
Indices: 52116659--52116695 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
52116649 CTACCTCTAT
52116659 TAGTAGTGCTAGTCTGTC
1 TAGTAGTGCTAGTCTGTC
52116677 TAGTAGTGCTAGTCTGTC
1 TAGTAGTGCTAGTCTGTC
52116695 T
1 T
52116696 GACATTCTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.27, T:0.41
Consensus pattern (18 bp):
TAGTAGTGCTAGTCTGTC
Found at i:52118847 original size:180 final size:178
Alignment explanation
Indices: 52118528--52118863 Score: 505
Period size: 180 Copynumber: 1.9 Consensus size: 178
52118518 TAAGATCTAT
* *
52118528 TAATTTTCCCAAAAACTAGACTCACATATATTCTTACCATAAAACTTTCAGAATTTTTTTTAGCC
1 TAATTTTCCCAAAAACTAGACTCACATATATTCTTACAATAAAACTTTCAGAATTTTGTTTAGCC
* *
52118593 AATTAGTACAGTTTATTCATTAAATTTACCCCTATTTCACTGTCCAACACTTCCGACCTCTCTTC
66 AATTAGTACAGTTTATTCATTAAATATACCCCTATTTCACTGTCCAACACTTCCAACCTCTCTTC
52118658 ACAAAAAATTATTTATCTCATGGTACGGGACTCAAAATTAAGAACCGC
131 ACAAAAAATTATTTATCTCATGGTACGGGACTCAAAATTAAGAACCGC
*
52118706 TAATTTTCCCACAAACTAGACTCACATATATTCTTACAATAAAA-TTTCCAGAATTGTTGGTTTA
1 TAATTTTCCCAAAAACTAGACTCACATATATTCTTACAATAAAACTTT-CAGAATT-TT-GTTTA
* * ** * * * *
52118770 GCCAATTAGTATAGTTTATTCATTAAATATACCCCTGTTTCACTGTCTGATAGTTCCAATCTTTC
63 GCCAATTAGTACAGTTTATTCATTAAATATACCCCTATTTCACTGTCCAACACTTCCAACCTCTC
52118835 TTCA-ATAAAAATTATTTATCTCATGGTAC
128 TTCACA-AAAAATTATTTATCTCATGGTAC
52118864 AGATCTCGGA
Statistics
Matches: 141, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
177 3 0.02
178 49 0.35
179 3 0.02
180 86 0.61
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.37
Consensus pattern (178 bp):
TAATTTTCCCAAAAACTAGACTCACATATATTCTTACAATAAAACTTTCAGAATTTTGTTTAGCC
AATTAGTACAGTTTATTCATTAAATATACCCCTATTTCACTGTCCAACACTTCCAACCTCTCTTC
ACAAAAAATTATTTATCTCATGGTACGGGACTCAAAATTAAGAACCGC
Found at i:52119475 original size:50 final size:50
Alignment explanation
Indices: 52119413--52119630 Score: 258
Period size: 50 Copynumber: 4.3 Consensus size: 50
52119403 GGTACGCATG
*
52119413 GTAGCCTGCACTTAGTACTACGCATGCGACCTATCAATCTGGTACACGTA
1 GTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTA
* * * * * *
52119463 GTAGCCTGCACTTAGTACTACACACGTGACTTATCCATCTGATATACGTA
1 GTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTA
* * ** * * * *
52119513 GTAGGCTGCACTTAGTACTACACATGTGATCGAAGTTAA-CGGGTACGCATA
1 GTAGCCTGCACTTAGTACTACACATGCGA-CCTA-TCAATCTGGTACACGTA
**
52119564 GTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCCAGTACACGTA
1 GTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTA
52119614 GTAGCCTGCACTTAGTA
1 GTAGCCTGCACTTAGTA
52119631 TGTAACACCC
Statistics
Matches: 138, Mismatches: 27, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
49 3 0.02
50 97 0.70
51 36 0.26
52 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.27
Consensus pattern (50 bp):
GTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTA
Found at i:52120331 original size:30 final size:30
Alignment explanation
Indices: 52120295--52120396 Score: 143
Period size: 30 Copynumber: 3.4 Consensus size: 30
52120285 AACCAAAATG
* *
52120295 AGAATCAGAATCAGAATCAATAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
52120325 AGAATCAGAATCA-ATATTAGTAACAGAATT
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
*
52120355 AGAATCAGAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
52120386 AGAATCAGAAT
1 AGAATCAGAAT
52120397 TAGGTGACAG
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.02
30 42 0.66
31 21 0.33
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.21
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:52120415 original size:6 final size:6
Alignment explanation
Indices: 52120295--52120396 Score: 86
Period size: 6 Copynumber: 16.8 Consensus size: 6
52120285 AACCAAAATG
* *
52120295 AGAATC AGAATC AGAATC A-ATAAC AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AGA-ATC AGAATC AGAATC AGAATC AGA-ATC
* * *
52120343 AGTAA-C AGAATT AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
52120392 AGAAT
1 AGAAT
52120397 TAGGTGACAG
Statistics
Matches: 77, Mismatches: 10, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
5 5 0.06
6 66 0.86
7 4 0.05
8 2 0.03
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:52120421 original size:25 final size:25
Alignment explanation
Indices: 52120355--52120415 Score: 122
Period size: 25 Copynumber: 2.4 Consensus size: 25
52120345 TAACAGAATT
52120355 AGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATTAGGTGAC
52120380 AGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATTAGGTGAC
52120405 AGAATCAGAAT
1 AGAATCAGAAT
52120416 GTGAATGCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.46, C:0.11, G:0.23, T:0.20
Consensus pattern (25 bp):
AGAATCAGAATCAGAATTAGGTGAC
Found at i:52120596 original size:27 final size:27
Alignment explanation
Indices: 52120533--52120598 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
52120523 AGCATGGCTG
*
52120533 CCAGAA-CAGATATCGTGACAGAGTCA
1 CCAGAATCAGATATCGTGACAGAGCCA
* * *
52120559 CTAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATATCGTGACAGAGCCA
52120586 CCAGAATCAGATA
1 CCAGAATCAGATA
52120599 ATATGGCAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
25 1 0.03
26 3 0.09
27 26 0.81
28 2 0.06
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATATCGTGACAGAGCCA
Found at i:52120819 original size:22 final size:22
Alignment explanation
Indices: 52120771--52120829 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
52120761 GTAAATACGT
*
52120771 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
52120793 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
52120815 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
52120830 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:52121200 original size:27 final size:27
Alignment explanation
Indices: 52121170--52121365 Score: 221
Period size: 27 Copynumber: 7.3 Consensus size: 27
52121160 GGGGCAAAAT
* * *
52121170 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
52121197 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
52121224 GGTATTTCTATCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
52121251 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
52121278 GGTACTTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
52121305 TGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
52121332 GGAAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
52121359 AGTAATT
1 GGTAATT
52121366 TCACAATCAA
Statistics
Matches: 141, Mismatches: 28, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 141 1.00
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:52121400 original size:27 final size:27
Alignment explanation
Indices: 52121370--52121859 Score: 538
Period size: 27 Copynumber: 18.2 Consensus size: 27
52121360 GTAATTTCAC
* *
52121370 AATCAAGGGTAAAACGGTAATTCAATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
52121397 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
52121424 AAGT-GAGGGTAAACCAGTAATTCTGTA
1 AA-TCGAGGGTAAAACGGTAATTCTATA
* * * *
52121451 AATCAAGGATAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
52121478 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
52121505 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * * *
52121532 AA-CTAAGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
52121558 AATCGAGGGTAAAATGGTTATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
52121585 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* *
52121612 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
52121639 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
52121666 AATTGAGGGTAAAACGGTGATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
52121693 AA-CTGAGGGTAAAACGATAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
** * * *
52121720 AATTAAGGGTAAAATGGTAATTTTATG
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
52121747 AATTGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
52121774 AATCGAGGGTAAAACGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
52121801 AATCGAGGGTAAAATGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
52121828 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
52121855 AATCG
1 AATCG
52121860 GGAGTACTTT
Statistics
Matches: 388, Mismatches: 68, Indels: 14
0.83 0.14 0.03
Matches are distributed among these distances:
26 24 0.06
27 362 0.93
28 2 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTATA
Found at i:52123890 original size:6 final size:6
Alignment explanation
Indices: 52123875--52124018 Score: 120
Period size: 6 Copynumber: 23.8 Consensus size: 6
52123865 AACCAAAATG
* *
52123875 AGAATC AGAATT AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * *
52123923 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGCC AGAATC AAAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
52123972 AGAATC AGAATC A-ATATT AGTCA-C AGAATC AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGA-ATC AG-AATC AGAATC AGAATC AGAATC AGAAT
52124019 TACGTCACAG
Statistics
Matches: 111, Mismatches: 14, Indels: 26
0.74 0.09 0.17
Matches are distributed among these distances:
5 8 0.07
6 95 0.86
7 6 0.05
8 2 0.02
ACGTcount: A:0.49, C:0.15, G:0.16, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:52123984 original size:67 final size:67
Alignment explanation
Indices: 52123901--52124043 Score: 252
Period size: 67 Copynumber: 2.1 Consensus size: 67
52123891 TCAGTAACAG
*
52123901 AATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAATCAGAATTAGGTGC-CAGAAT
1 AATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAATCAGAATTACGT-CACAGAAT
52123965 CAA
65 CAA
*
52123968 AATCAGAATCAGAATCAATATTAGTCACAGAATCAGAATCAGAATCAGAATTACGTCACAGAATC
1 AATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAATCAGAATTACGTCACAGAATC
52124033 AA
66 AA
52124035 AATCAGAAT
1 AATCAGAAT
52124044 GTGAATGCAA
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
66 1 0.01
67 72 0.99
ACGTcount: A:0.48, C:0.16, G:0.15, T:0.21
Consensus pattern (67 bp):
AATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAATCAGAATTACGTCACAGAATC
AA
Found at i:52124198 original size:27 final size:26
Alignment explanation
Indices: 52124161--52124226 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
52124151 AGCATGGCTG
*
52124161 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
52124187 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
52124214 CCAGAATCAGATA
1 CCAGAA-CAGATA
52124227 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:52124231 original size:27 final size:27
Alignment explanation
Indices: 52124161--52124234 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
52124151 AGCATGGCTG
* *
52124161 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
52124187 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
52124214 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
52124235 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:52124241 original size:27 final size:27
Alignment explanation
Indices: 52124185--52124242 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
52124175 GTGACAGAGT
* * *
52124185 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
52124212 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
52124239 CACC
1 CACC
52124243 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:52124447 original size:22 final size:22
Alignment explanation
Indices: 52124399--52124457 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
52124389 GTAAATATGT
*
52124399 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
52124421 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
52124443 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
52124458 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:52124626 original size:27 final size:26
Alignment explanation
Indices: 52124545--52124627 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 26
52124535 TCGATCGGTC
* * *
52124545 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGCCAGAGCCACCAG
52124571 ATACAGATATTGTGCCAGAGCCACCAG
1 A-ACAGATATTGTGCCAGAGCCACCAG
* * *
52124598 AACAGATATCTGTGGCATAGCCACTAG
1 AACAGATAT-TGTGCCAGAGCCACCAG
52124625 AAC
1 AAC
52124628 GCTTCCTCCG
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
26 9 0.18
27 40 0.82
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGCCAGAGCCACCAG
Found at i:52125018 original size:54 final size:54
Alignment explanation
Indices: 52124828--52125020 Score: 253
Period size: 54 Copynumber: 3.6 Consensus size: 54
52124818 GGAAAATGAC
* * *
52124828 AATTTTACCCCACAAGGGTATCTC-GATAATTCTACCCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAAGGGTATTTCAG-TAATTCTACCCTACAGGGGTATTTCGGT
* * *
52124882 ATTTCTACCCTACAAGGGTATTTCAATAATTCTACCCTACAGGGGTATTTTGGT
1 AATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGT
* * * * * *
52124936 ACTTCTATCCTATAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAGA
1 AATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGT
*
52124990 AATTCTACCCTACAAGGGTATTTTAGTAATT
1 AATTCTACCCTACAAGGGTATTTCAGTAATT
52125021 TCACAATTAA
Statistics
Matches: 120, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
54 120 1.00
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (54 bp):
AATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGT
Found at i:52125020 original size:27 final size:27
Alignment explanation
Indices: 52124828--52125020 Score: 217
Period size: 27 Copynumber: 7.1 Consensus size: 27
52124818 GGAAAATGAC
* * *
52124828 AATTTTACCCCACAAGGGTATCTC-GAT
1 AATTCTACCCTACAAGGGTATTTCAG-T
* *
52124855 AATTCTACCCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAAGGGTATTTCAGT
* *
52124882 ATTTCTACCCTACAAGGGTATTTCAAT
1 AATTCTACCCTACAAGGGTATTTCAGT
* **
52124909 AATTCTACCCTACAGGGGTATTTTGGT
1 AATTCTACCCTACAAGGGTATTTCAGT
* * *
52124936 ACTTCTATCCTATAAGGGTATTTCAGT
1 AATTCTACCCTACAAGGGTATTTCAGT
* * *
52124963 AATTCTACCCTATAGGGGTATTTCAGA
1 AATTCTACCCTACAAGGGTATTTCAGT
*
52124990 AATTCTACCCTACAAGGGTATTTTAGT
1 AATTCTACCCTACAAGGGTATTTCAGT
52125017 AATT
1 AATT
52125021 TCACAATTAA
Statistics
Matches: 138, Mismatches: 27, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
27 137 0.99
28 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (27 bp):
AATTCTACCCTACAAGGGTATTTCAGT
Found at i:52125063 original size:27 final size:27
Alignment explanation
Indices: 52125030--52125485 Score: 463
Period size: 27 Copynumber: 17.1 Consensus size: 27
52125020 TTCACAATTA
* *
52125030 AGGGTAAAATGGTAATTTTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* * *
52125057 AGGGTAAAACGATAATTTTGTAAATTG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* * * *
52125084 AGGGTAAACCAGCAATTCTGTAAATCA
1 AGGGTAAAACGGTAATTCTGTAAATCG
* * **
52125111 AGGGTAAAACGATAATTTTACAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
*
52125138 AGGGTAAAATGGT-ATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
**
52125164 AGGGTAAAATAGTAATTCTGTAAA-CTG
1 AGGGTAAAACGGTAATTCTGTAAATC-G
*
52125191 AGGGTAAAACGATAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
** *
52125218 AGGGTAAAATAGTAATTCTATAAA-CTG
1 AGGGTAAAACGGTAATTCTGTAAATC-G
*
52125245 AGGGTAAAACGGTAATTCTATAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
52125272 AGGGTAAAACGGTAATTTATTCTGTAAA-CTG
1 AGGGTAAAACGGT-A---ATTCTGTAAATC-G
*
52125303 AGGGTAAAACGATAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* *
52125330 AGGGTAAAATGGTAATTCTATAAA-CTG
1 AGGGTAAAACGGTAATTCTGTAAATC-G
52125357 AGGGTAAAACGG-----C--TAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
*
52125377 AGGGTAAAATGGTAATTCTGTAAA-CTG
1 AGGGTAAAACGGTAATTCTGTAAATC-G
*
52125404 AGGGTAAAACCGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* * **
52125431 AGGGTAAAATGGTAATTTTAAAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
52125458 AGGGT-AAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
52125484 AG
1 AG
52125486 AGTACTTTGG
Statistics
Matches: 356, Mismatches: 51, Indels: 45
0.79 0.11 0.10
Matches are distributed among these distances:
20 16 0.04
21 1 0.00
22 1 0.00
25 1 0.00
26 45 0.13
27 263 0.74
28 5 0.01
30 2 0.01
31 22 0.06
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
AGGGTAAAACGGTAATTCTGTAAATCG
Found at i:52125142 original size:134 final size:134
Alignment explanation
Indices: 52125029--52125366 Score: 337
Period size: 134 Copynumber: 2.5 Consensus size: 134
52125019 TTTCACAATT
* * * * *
52125029 AAGGGTAAAATGGTAATTTTGTAAA-TCGAGGGTAAAACGATAATTTTGTAAATTGAGGGTAAAC
1 AAGGGTAAAATAGTAATTCTGTAAACT-GAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAA
* * *
52125093 CAGCAATTCTGTAAA-TCAAGGGTAAAACGATAATTTTACAAATCGAGGGTAAAATGGTATTCTG
65 CAGCAATTCTATAAACT-AAGGGTAAAACGATAATTCTACAAATCGAGGGTAAAATAGTATTCTG
*
52125157 TAAATC
129 CAAATC
* *
52125163 GAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAAT
1 AAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAAC
* * * * *
52125228 AGTAATTCTATAAACTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTATT
66 AGCAATTCTATAAACTAAGGGTAAAACGATAATTCTACAAATCGAGGGTAAAA---T-A-GTATT
*
52125293 CTGTAAA-C
126 CTGCAAATC
* * * * *
52125301 TGAGGGTAAAA-CGATAATTCTGTAAA-TCGAGGGTAAAATGGTAATTCTATAAA-CTGAGGGTA
1 -AAGGGTAAAATAG-TAATTCTGTAAACT-GAGGGTAAAACGATAATTCTGTAAATC-GAGGGTA
52125363 AAAC
62 AAAC
52125367 GGCTAAATCG
Statistics
Matches: 173, Mismatches: 20, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
134 101 0.58
135 2 0.01
137 1 0.01
138 4 0.02
139 65 0.38
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (134 bp):
AAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAAC
AGCAATTCTATAAACTAAGGGTAAAACGATAATTCTACAAATCGAGGGTAAAATAGTATTCTGCA
AATC
Found at i:52125323 original size:112 final size:107
Alignment explanation
Indices: 52125030--52125485 Score: 549
Period size: 107 Copynumber: 4.3 Consensus size: 107
52125020 TTCACAATTA
* * * * * *
52125030 AGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGATAATTTTGTAAATTGAGGGT-AAACC
1 AGGGTAAAACGGTAATTCT-TAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTAAAACG
* * * * * *
52125094 AGCAATTCTGTAAATCAAGGGTAAAACGATAATTTTACAAA-TCG
65 A-TAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAACT-G
* **
52125138 AGGGTAAAATGGT-ATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACG
1 AGGGTAAAACGGTAATTCT-TAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTAAAACG
*
52125202 ATAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAACTG
65 ATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAACTG
52125245 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTATTCTGTAAACTGAGGGTAA
1 AGGGTAAAACGGTAATTCT-TAAATCGAGGGTAAAACGGT-A---ATTCTGTAAACTGAGGGTAA
52125310 AACGATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAACTG
61 AACGATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAACTG
*
52125357 AGGGTAAAACGG-----C-TAAATCGAGGGTAAAATGGTAATTCTGTAAACTGAGGGTAAAACCG
1 AGGGTAAAACGGTAATTCTTAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTAAAA-CG
* *
52125416 -TAATTCTGTAAATCGAGGGTAAAATGGTAATTTTA-AAAATCG
65 ATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAACT-G
52125458 AGGGT-AAACGGTAATTCTGTAAATCGAG
1 AGGGTAAAACGGTAATTCT-TAAATCGAG
52125486 AGTACTTTGG
Statistics
Matches: 310, Mismatches: 22, Indels: 33
0.85 0.06 0.09
Matches are distributed among these distances:
100 10 0.03
101 62 0.20
102 2 0.01
104 1 0.00
105 20 0.06
107 94 0.30
108 42 0.14
109 1 0.00
112 78 0.25
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (107 bp):
AGGGTAAAACGGTAATTCTTAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTAAAACGA
TAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAACTG
Found at i:52125377 original size:47 final size:47
Alignment explanation
Indices: 52125323--52125413 Score: 173
Period size: 47 Copynumber: 1.9 Consensus size: 47
52125313 GATAATTCTG
52125323 TAAATCGAGGGTAAAATGGTAATTCTATAAACTGAGGGTAAAACGGC
1 TAAATCGAGGGTAAAATGGTAATTCTATAAACTGAGGGTAAAACGGC
*
52125370 TAAATCGAGGGTAAAATGGTAATTCTGTAAACTGAGGGTAAAAC
1 TAAATCGAGGGTAAAATGGTAATTCTATAAACTGAGGGTAAAAC
52125414 CGTAATTCTG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.41, C:0.10, G:0.25, T:0.24
Consensus pattern (47 bp):
TAAATCGAGGGTAAAATGGTAATTCTATAAACTGAGGGTAAAACGGC
Found at i:52125393 original size:74 final size:74
Alignment explanation
Indices: 52125302--52125439 Score: 199
Period size: 74 Copynumber: 1.9 Consensus size: 74
52125292 TCTGTAAACT
**
52125302 GAGGGTAAAACGATAATTCTGTAAA-TCGAGGGTAAAATGGTAATTCTATAAA-CTGAGGGTAAA
1 GAGGGTAAAACGATAATTCTGTAAACT-GAGGGTAAAACCGTAATTCTATAAATC-GAGGGTAAA
52125365 ACGGCTAAATC
64 ACGGCTAAATC
* * *
52125376 GAGGGTAAAATGGTAATTCTGTAAACTGAGGGTAAAACCGTAATTCTGTAAATCGAGGGTAAAA
1 GAGGGTAAAACGATAATTCTGTAAACTGAGGGTAAAACCGTAATTCTATAAATCGAGGGTAAAA
52125440 TGGTAATTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
74 55 0.96
75 2 0.04
ACGTcount: A:0.40, C:0.10, G:0.25, T:0.25
Consensus pattern (74 bp):
GAGGGTAAAACGATAATTCTGTAAACTGAGGGTAAAACCGTAATTCTATAAATCGAGGGTAAAAC
GGCTAAATC
Found at i:52125497 original size:53 final size:54
Alignment explanation
Indices: 52125370--52125514 Score: 170
Period size: 53 Copynumber: 2.7 Consensus size: 54
52125360 GTAAAACGGC
* *
52125370 TAAATCGAGGGTAAAATGGTAATTCTGT-AAACT-GAGGGTAAAACCGTAATTCTG
1 TAAATCGAGAGTAAAATGGTAATT-T-TAAAAATCGAGGGTAAAACCGTAATTCTG
* *
52125424 TAAATCGAGGGTAAAATGGTAATTTTAAAAATCGAGGGT-AAACGGTAATTCTG
1 TAAATCGAGAGTAAAATGGTAATTTTAAAAATCGAGGGTAAAACCGTAATTCTG
*** * *
52125477 TAAATCGAGAGTACTTTGGTAATTTTACAAGTCGAGGG
1 TAAATCGAGAGTAAAATGGTAATTTTAAAAATCGAGGG
52125515 CATTTCAGTA
Statistics
Matches: 81, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
52 1 0.01
53 50 0.62
54 30 0.37
ACGTcount: A:0.37, C:0.10, G:0.25, T:0.29
Consensus pattern (54 bp):
TAAATCGAGAGTAAAATGGTAATTTTAAAAATCGAGGGTAAAACCGTAATTCTG
Found at i:52126510 original size:50 final size:50
Alignment explanation
Indices: 52126357--52126575 Score: 244
Period size: 50 Copynumber: 4.3 Consensus size: 50
52126347 GGGTGTTACA
* * * *
52126357 TAGTACTACACATGTGACCTAACCATTTGATACACGTAGTAGCCTGCACT
1 TAGTACTACACATGTGACCTAACAATCTGGTACACATAGTAGCCTGCACT
** * * * *
52126407 TAGTACTACACATGTGATCGAAACTATCGGGTACGCATAGTAGACTGCACT
1 TAGTACTACACATGTGA-CCTAACAATCTGGTACACATAGTAGCCTGCACT
* *
52126458 TAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGCCTGCACT
1 TAGTACTACACATGTGACCTAACAATCTGGTACACATAGTAGCCTGCACT
* * *
52126508 TAGTACTACATATGTGACCTAA-AA-CTGTCTTAAACACATAGTAGCCTGCACA
1 TAGTACTACACATGTGACCTAACAATCTG--GT--ACACATAGTAGCCTGCACT
52126560 TAGTACTACACATGTG
1 TAGTACTACACATGTG
52126576 TTCTCACAAC
Statistics
Matches: 141, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
48 3 0.02
49 2 0.01
50 64 0.45
51 40 0.28
52 32 0.23
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.26
Consensus pattern (50 bp):
TAGTACTACACATGTGACCTAACAATCTGGTACACATAGTAGCCTGCACT
Found at i:52150962 original size:55 final size:55
Alignment explanation
Indices: 52150861--52150984 Score: 144
Period size: 55 Copynumber: 2.3 Consensus size: 55
52150851 GTTAATCTGA
* *
52150861 CAGGTTCGACCACGAGTTCTAGACACAGGCGTGATGAATGCCCGTGTTATTTTCT
1 CAGGTTCAACCACGAGTTCTAGACACAGGCGTGATGAATGCCCGTGTTATTTTCG
* * * * *
52150916 CAGGTTCAACCATG-GTTCTAAGACACAGGGGTG-TCGTATGCTCGTGTTATTTTGG
1 CAGGTTCAACCACGAGTTCT-AGACACAGGCGTGAT-GAATGCCCGTGTTATTTTCG
*
52150971 CAGGTTCACCCACG
1 CAGGTTCAACCACG
52150985 GTCCCTATAC
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
54 6 0.10
55 52 0.90
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (55 bp):
CAGGTTCAACCACGAGTTCTAGACACAGGCGTGATGAATGCCCGTGTTATTTTCG
Found at i:52155484 original size:13 final size:13
Alignment explanation
Indices: 52155466--52155497 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
52155456 CTATTAGAAG
52155466 ATCTCTTTCTAAC
1 ATCTCTTTCTAAC
52155479 ATCTCTTTCTAAC
1 ATCTCTTTCTAAC
52155492 ATCTCT
1 ATCTCT
52155498 AGCTTCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47
Consensus pattern (13 bp):
ATCTCTTTCTAAC
Found at i:52161372 original size:22 final size:22
Alignment explanation
Indices: 52161323--52161365 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
52161313 GAATCTCACC
52161323 ATTTTCACATTTCAACTCAAGG
1 ATTTTCACATTTCAACTCAAGG
52161345 ATTTTCACATTTCAACTCAAG
1 ATTTTCACATTTCAACTCAAG
52161366 TGTTTTCTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (22 bp):
ATTTTCACATTTCAACTCAAGG
Found at i:52162668 original size:50 final size:50
Alignment explanation
Indices: 52162604--52162947 Score: 318
Period size: 50 Copynumber: 6.8 Consensus size: 50
52162594 AAGCTCTTTT
* * * *
52162604 GTACACATATTAGCCTACACTTAGTACTACACATGCGACCTATCAATCTG
1 GTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAATCTG
* *
52162654 GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTTATGC-ATCTG
1 GTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAT-CAATCTG
* * * * * ** * *
52162704 ATACACGTAGTAGGCTGCACTTAATACTACACGCGTGATCGAAGTTAAT-GG
1 GTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCTA-TCAATCTG
**** * *
52162755 GTATGTATAGTGGCCTGCACTTAGTACTACACATGCGACCTATCAATCTG
1 GTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAATCTG
** ** * * *
52162805 GTACACGTAGTAGCCTGCACTTAGTACTACACACATGATCGAAACTATCGG
1 GTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCTATCAATCTG
* * * *
52162856 GTA-A-GTATAATAGCCTGCACTTAGTACTACACATGGGACCTAACAATCTG
1 GTACACG--TAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAATCTG
52162906 GTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTA
1 GTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTA
52162948 AAACTGTCTT
Statistics
Matches: 231, Mismatches: 53, Indels: 20
0.76 0.17 0.07
Matches are distributed among these distances:
49 5 0.02
50 153 0.66
51 69 0.30
52 4 0.02
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (50 bp):
GTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAATCTG
Found at i:52162786 original size:101 final size:101
Alignment explanation
Indices: 52162661--52162939 Score: 391
Period size: 101 Copynumber: 2.8 Consensus size: 101
52162651 CTGGTACACG
* * * * *
52162661 TAGTAGCCTGCACTTAGTACTACACACGTGACTTATGC-ATCTGATACACGTAGTAGGCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAT-CAATCTGGTACACGTAGTAGCCTGCACT
* * * ** *
52162725 TAATACTACACGCGTGATCGAAGTTAAT-GGGTATGTA
65 TAGTACTACACACATGATCGAAACT-ATCGGGTAAGTA
*
52162762 TAGTGGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTGCACTT
52162827 AGTACTACACACATGATCGAAACTATCGGGTAAGTA
66 AGTACTACACACATGATCGAAACTATCGGGTAAGTA
* * *
52162863 TAATAGCCTGCACTTAGTACTACACATGGGACCTAACAATCTGGTACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTGCACTT
52162928 AGTACTACACAC
66 AGTACTACACAC
52162940 GCGACCTAAA
Statistics
Matches: 160, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
100 3 0.02
101 157 0.98
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.27
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTGCACTT
AGTACTACACACATGATCGAAACTATCGGGTAAGTA
Found at i:52162922 original size:151 final size:150
Alignment explanation
Indices: 52162604--52162947 Score: 390
Period size: 151 Copynumber: 2.3 Consensus size: 150
52162594 AAGCTCTTTT
* *
52162604 GTACACATATTAGCCTACACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCC
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCC
* * ** * * *
52162669 TGCACTTAGTACTACACACGTGACTTATGCATCTGATACACGTAGTAGGCTGCACTTAATACTAC
66 TGCACTTAGTACTACACACATGACTGAAACATCGGATACACGTAATAGCCTGCACTTAATACTAC
* * * *
52162734 ACGCGTGATCGAAGTTAATGG
131 ACACGGGACCGAAG-CAATGG
*** *
52162755 GTATGTATAGTGGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCC
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCC
* *
52162820 TGCACTTAGTACTACACACATGA-TCGAAACTATCGGGTA-A-GTATAATAGCCTGCACTTAGTA
66 TGCACTTAGTACTACACACATGACT-GAAAC-ATCGGATACACG--TAATAGCCTGCACTTAATA
* * *
52162882 CTACACATGGGACCTAA-CAATCTG
127 CTACACACGGGACCGAAGCAAT-GG
* *
52162906 GTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTA
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTA
52162948 AAACTGTCTT
Statistics
Matches: 160, Mismatches: 28, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
150 5 0.03
151 121 0.76
152 34 0.21
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (150 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCC
TGCACTTAGTACTACACACATGACTGAAACATCGGATACACGTAATAGCCTGCACTTAATACTAC
ACACGGGACCGAAGCAATGG
Found at i:52164329 original size:13 final size:13
Alignment explanation
Indices: 52164313--52164337 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52164303 TTAAATCAGT
52164313 TAATTAGTTTAAA
1 TAATTAGTTTAAA
52164326 TAATTAGTTTAA
1 TAATTAGTTTAA
52164338 TAAACAAACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAATTAGTTTAAA
Found at i:52170719 original size:13 final size:13
Alignment explanation
Indices: 52170701--52170725 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52170691 AATCACAAAT
52170701 AAATACACATATC
1 AAATACACATATC
52170714 AAATACACATAT
1 AAATACACATAT
52170726 TTTTTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.20, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATACACATATC
Found at i:52173216 original size:12 final size:11
Alignment explanation
Indices: 52173159--52173245 Score: 61
Period size: 11 Copynumber: 7.5 Consensus size: 11
52173149 TGAATCCTCC
*
52173159 TATTTTTTTATT
1 TATTTTATT-TT
52173171 TAGTTTTATTTT
1 TA-TTTTATTTT
52173183 TATTTTATTTT
1 TATTTTATTTT
*
52173194 CT-TTTTCTTTT
1 -TATTTTATTTT
*
52173205 TCTTTTGATTTT
1 TATTTT-ATTTT
*
52173217 TATTTTCATTTC
1 TATTTT-ATTTT
*
52173229 AATTATTA-TTT
1 TATT-TTATTTT
52173240 TATTTT
1 TATTTT
52173246 GAAAGACATA
Statistics
Matches: 61, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
10 3 0.05
11 26 0.43
12 24 0.39
13 8 0.13
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.76
Consensus pattern (11 bp):
TATTTTATTTT
Found at i:52173217 original size:7 final size:6
Alignment explanation
Indices: 52173159--52173245 Score: 56
Period size: 6 Copynumber: 15.0 Consensus size: 6
52173149 TGAATCCTCC
* * *
52173159 TATTTT T-TTATT TAGTTT TATTTT TA-TTT TA-TTT TCTTTT TCTTTT
1 TATTTT TATT-TT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
* * * * * *
52173205 TCTTTT GATTTT TATTTT CATTTC AATTAT TA-TTT TATTTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
52173246 GAAAGACATA
Statistics
Matches: 64, Mismatches: 13, Indels: 8
0.75 0.15 0.09
Matches are distributed among these distances:
5 15 0.23
6 48 0.75
7 1 0.02
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.76
Consensus pattern (6 bp):
TATTTT
Found at i:52176174 original size:13 final size:13
Alignment explanation
Indices: 52176158--52176182 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52176148 TTAAATCAGT
52176158 TAATTAGTTTAAA
1 TAATTAGTTTAAA
52176171 TAATTAGTTTAA
1 TAATTAGTTTAA
52176183 TAAACAAACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAATTAGTTTAAA
Found at i:52178059 original size:13 final size:13
Alignment explanation
Indices: 52178041--52178067 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
52178031 ACTCGGCAAG
52178041 GACACGCCCGTGT
1 GACACGCCCGTGT
52178054 GACACGCCCGTGT
1 GACACGCCCGTGT
52178067 G
1 G
52178068 CGATTGCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:52195553 original size:27 final size:27
Alignment explanation
Indices: 52195522--52195699 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
52195512 TAAATTGTAC
52195522 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
52195549 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
52195575 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
52195603 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
52195631 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
52195658 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
52195685 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
52195700 GACTCGATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 108 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:52195636 original size:82 final size:81
Alignment explanation
Indices: 52195523--52195678 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
52195513 AAATTGTACA
*
52195523 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
52195587 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
52195604 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
52195669 TGCGAGTTGA
65 TGCGAATTGA
52195679 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:52195690 original size:82 final size:81
Alignment explanation
Indices: 52195519--52195699 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
52195509 GATTAAATTG
*
52195519 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
52195584 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
52195600 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
52195664 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
52195682 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
52195700 GACTCGATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:52204053 original size:27 final size:27
Alignment explanation
Indices: 52204023--52204126 Score: 122
Period size: 27 Copynumber: 3.9 Consensus size: 27
52204013 CACGTTAGGT
*
52204023 AAGAAAAGCCTTTGTGGTGTAATATGA
1 AAGAAAAGCCTTTGTGGCGTAATATGA
* * *
52204050 AAGAAAA-AC-ATGTGGCATAATATGA
1 AAGAAAAGCCTTTGTGGCGTAATATGA
* *
52204075 AAGAAAAGCCTTTGTGGCGCAAAATGA
1 AAGAAAAGCCTTTGTGGCGTAATATGA
* *
52204102 AAGAAAAGCCTTTGTAGTGTAATAT
1 AAGAAAAGCCTTTGTGGCGTAATAT
52204127 TGAAGGAATT
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
25 20 0.32
26 2 0.03
27 40 0.65
ACGTcount: A:0.42, C:0.10, G:0.23, T:0.25
Consensus pattern (27 bp):
AAGAAAAGCCTTTGTGGCGTAATATGA
Found at i:52205819 original size:69 final size:69
Alignment explanation
Indices: 52205704--52205846 Score: 234
Period size: 69 Copynumber: 2.1 Consensus size: 69
52205694 TGTATGTTGT
* *
52205704 AGTCTATTTTAACCACCTTACTAATAACCTTTGCAATTGCCTTCATTAAGCCCTTAGTACATATA
1 AGTCTATTTTAACCACCTTACTAATAACCTTTGCAATTGCCCTCATTAAGCCCATAGTACATATA
52205769 TAGG
66 TAGG
*
52205773 AGTCTATTTTAACCAGCTTACTAATAA-CTATTGCAATTGCCCTCATTAAGCCCATAGTACATAT
1 AGTCTATTTTAACCACCTTACTAATAACCT-TTGCAATTGCCCTCATTAAGCCCATAGTACATAT
*
52205837 ATGGG
65 ATAGG
52205842 AGTCT
1 AGTCT
52205847 TCGTAAACGA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
68 2 0.03
69 67 0.97
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (69 bp):
AGTCTATTTTAACCACCTTACTAATAACCTTTGCAATTGCCCTCATTAAGCCCATAGTACATATA
TAGG
Found at i:52207730 original size:40 final size:41
Alignment explanation
Indices: 52207671--52207902 Score: 312
Period size: 40 Copynumber: 5.8 Consensus size: 41
52207661 CATTTGAATG
* * * *
52207671 ATATCCAGGCTAAGTCCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * *
52207711 TTATCCGGGCCAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * * *
52207751 ATACCCGGGATAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
52207791 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
52207831 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
52207871 ATATCCGGGCTAAGACCCGAGGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
52207903 TTGTGGTTAT
Statistics
Matches: 168, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
39 2 0.01
40 161 0.96
41 5 0.03
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
Found at i:52207885 original size:120 final size:119
Alignment explanation
Indices: 52207671--52207922 Score: 353
Period size: 120 Copynumber: 2.1 Consensus size: 119
52207661 CATTTGAATG
* * *
52207671 ATATCCAGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCCAAGACCCGAAGGCA
1 ATATCC-GGCTAAGACCCGAAGGCAATTGTGCGAGTGATTATATCCGGGCCAAGACCCGAAGGCA
*
52207736 TTTGTGCGAGTTGCTATACCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATT
65 TTTGTGCGAGTTGATATACCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATT
* * *
52207791 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATATCCGGGCTAAGACCCGAAGGC
1 ATATCC-GGCTAAGACCCGAAGGCAATTGTGCGAG-TGATTATATCCGGGCCAAGACCCGAAGGC
* * * * * *
52207855 ATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAGGGCATTTGTGCTTGTGGTT
64 ATTTGTGCGAGTTGATATACCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATT
52207911 ATATCCGGCTAA
1 ATATCCGGCTAA
52207923 ATTCCGAAGA
Statistics
Matches: 116, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
119 6 0.05
120 107 0.92
121 3 0.03
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (119 bp):
ATATCCGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTATATCCGGGCCAAGACCCGAAGGCAT
TTGTGCGAGTTGATATACCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:52207918 original size:80 final size:80
Alignment explanation
Indices: 52207671--52207902 Score: 358
Period size: 80 Copynumber: 2.9 Consensus size: 80
52207661 CATTTGAATG
* * *
52207671 ATATCCAGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCCAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
*
52207736 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGAT
* *
52207751 ATACCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
52207816 TTTGTGCGAGTTGAT
66 TTTGTGCGAGTTGAT
* * * *
52207831 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATATCCGGGCTAAGACCCGAGGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TGATTTTATCCGGGCTAAGACCCGAAGGC
52207895 ATTTGTGC
65 ATTTGTGC
52207903 TTGTGGTTAT
Statistics
Matches: 139, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
80 136 0.98
81 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGAT
Found at i:52214904 original size:12 final size:11
Alignment explanation
Indices: 52214881--52214933 Score: 53
Period size: 10 Copynumber: 5.2 Consensus size: 11
52214871 ATAAAAAATT
52214881 AAAATAT-TAA
1 AAAATATATAA
52214891 AAAATATAT-A
1 AAAATATATAA
52214901 AAAATATAT--
1 AAAATATATAA
52214910 AAAATCATA-AA
1 AAAAT-ATATAA
*
52214921 AATATATATAA
1 AAAATATATAA
52214932 AA
1 AA
52214934 TTGTAAAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
9 5 0.14
10 23 0.62
11 9 0.24
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (11 bp):
AAAATATATAA
Found at i:52214907 original size:46 final size:46
Alignment explanation
Indices: 52214824--52214912 Score: 110
Period size: 46 Copynumber: 1.9 Consensus size: 46
52214814 TTATTAAAAA
** *
52214824 TAATAAAAATTAAAATCAATAAAAGCTATAAATAATAT-TAAATTT
1 TAATAAAAATTAAAATCAATAAAAAATATAAAAAATATATAAATTT
*
52214869 TAATAAAAAATTAAAAT-ATTAAAAAATATATAAAAATATATAAA
1 TAAT-AAAAATTAAAATCAATAAAAAATATA-AAAAATATATAAA
52214913 ATCATAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
45 14 0.38
46 19 0.51
47 4 0.11
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.31
Consensus pattern (46 bp):
TAATAAAAATTAAAATCAATAAAAAATATAAAAAATATATAAATTT
Found at i:52214927 original size:20 final size:20
Alignment explanation
Indices: 52214881--52214966 Score: 81
Period size: 20 Copynumber: 4.4 Consensus size: 20
52214871 ATAAAAAATT
*
52214881 AAAATAT-TAAAAAAT-ATA
1 AAAATATATATAAAATCATA
52214899 TAAAA-ATATATAAAATCATA
1 -AAAATATATATAAAATCATA
**
52214919 AAAATATATATAAAATTGTA
1 AAAATATATATAAAATCATA
* *
52214939 AAATTTTATA-AAAATCATA
1 AAAATATATATAAAATCATA
52214958 AAAAGTATA
1 AAAA-TATA
52214967 AGATATATAG
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
18 2 0.04
19 25 0.46
20 27 0.50
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (20 bp):
AAAATATATATAAAATCATA
Found at i:52214950 original size:30 final size:29
Alignment explanation
Indices: 52214871--52215005 Score: 99
Period size: 28 Copynumber: 4.8 Consensus size: 29
52214861 TTAAATTTTA
52214871 ATAAAAA-AT-TAAAATATTA-AAAAATAT
1 ATAAAAATATATAAAAT-TTATAAAAATAT
*
52214898 ATAAAAATATATAAAA-TCATAAAAATAT
1 ATAAAAATATATAAAATTTATAAAAATAT
* *
52214926 ATATAAAAT-TGTAAAATTTTATAAAAAT-C
1 ATA-AAAATATATAAAA-TTTATAAAAATAT
* * * *
52214955 ATAAAAA-GTATAAGATATATAGAAATAT
1 ATAAAAATATATAAAATTTATAAAAATAT
*
52214983 A-AAAAACTATA-AAATTTTATAAA
1 ATAAAAA-TATATAAAATTTATAAA
52215006 GTTGTAAGAA
Statistics
Matches: 84, Mismatches: 14, Indels: 19
0.72 0.12 0.16
Matches are distributed among these distances:
27 23 0.27
28 37 0.44
29 15 0.18
30 9 0.11
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (29 bp):
ATAAAAATATATAAAATTTATAAAAATAT
Found at i:52214967 original size:9 final size:8
Alignment explanation
Indices: 52214870--52214987 Score: 51
Period size: 9 Copynumber: 13.2 Consensus size: 8
52214860 ATTAAATTTT
52214870 AATA-AAA
1 AATATAAA
52214877 AAT-TAAA
1 AATATAAA
*
52214884 ATATTAAAAA
1 A-A-TATAAA
52214894 ATATATAAA
1 A-ATATAAA
52214903 AATATATAA
1 AATATA-AA
52214912 AATCATAAAA
1 AAT-AT-AAA
52214922 ATATATATAA
1 A-ATATA-AA
*
52214932 AATTGTAAA
1 AA-TATAAA
*
52214941 ATTTTATAAA
1 A--ATATAAA
52214951 AATCATAAA
1 AAT-ATAAA
52214960 AAGTATAAGA
1 AA-TATAA-A
* *
52214970 TATATAGA
1 AATATAAA
52214978 AATATAAA
1 AATATAAA
52214986 AA
1 AA
52214988 ACTATAAAAT
Statistics
Matches: 86, Mismatches: 10, Indels: 29
0.69 0.08 0.23
Matches are distributed among these distances:
7 7 0.08
8 16 0.19
9 32 0.37
10 28 0.33
11 3 0.03
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (8 bp):
AATATAAA
Found at i:52214967 original size:18 final size:18
Alignment explanation
Indices: 52214898--52214966 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 18
52214888 TAAAAAATAT
52214898 ATAAAAATATATAAAATC
1 ATAAAAATATATAAAATC
*
52214916 ATAAAAATATATATAAAATT
1 AT-AAAA-ATATATAAAATC
* * *
52214936 GTAAAATTTTATAAAAATC
1 ATAAAAATATAT-AAAATC
52214955 ATAAAAAGTATA
1 ATAAAAA-TATA
52214967 AGATATATAG
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
18 6 0.15
19 18 0.46
20 15 0.38
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (18 bp):
ATAAAAATATATAAAATC
Done.