Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 36 of 136
Found at i:11735957 original size:24 final size:24
Alignment explanation
Indices: 11735894--11735945 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
11735884 TTTCTAGAAG
* * *
11735894 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
11735918 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
11735942 ATTT
1 ATTT
11735946 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:11737896 original size:2 final size:2
Alignment explanation
Indices: 11737889--11737916 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11737879 TCCTATTCCT
11737889 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
11737917 ATGAAAGGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:11742096 original size:24 final size:24
Alignment explanation
Indices: 11742064--11742113 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
11742054 TTTAAGACTT
11742064 AGGTAGTTTTAATATGTTGAATTG
1 AGGTAGTTTTAATATGTTGAATTG
11742088 AGGTAGTTTTAATATGTTGAATTG
1 AGGTAGTTTTAATATGTTGAATTG
11742112 AG
1 AG
11742114 CGTACAGGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (24 bp):
AGGTAGTTTTAATATGTTGAATTG
Found at i:11751309 original size:45 final size:45
Alignment explanation
Indices: 11751174--11751309 Score: 166
Period size: 45 Copynumber: 3.0 Consensus size: 45
11751164 GTTTGCAAAC
* * * *
11751174 AAGCTGCTAGTATGGTGTGAATAAACCACTCATCGGTGCATATAA
1 AAGCTACTAGTATGTTGTGGATAAACCACTCATCGGTGCAAATAA
** * * * *
11751219 AAGCTACTAGTACATTGTGGATAAACTAGTCATTGGTGCAGATAA
1 AAGCTACTAGTATGTTGTGGATAAACCACTCATCGGTGCAAATAA
11751264 AAGCTACTAGTATGTTGTGGATAAACCACTCATCGGT-CGAAATAA
1 AAGCTACTAGTATGTTGTGGATAAACCACTCATCGGTGC-AAATAA
11751309 A
1 A
11751310 TCACTCATTG
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
44 1 0.01
45 74 0.99
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.27
Consensus pattern (45 bp):
AAGCTACTAGTATGTTGTGGATAAACCACTCATCGGTGCAAATAA
Found at i:11756657 original size:18 final size:18
Alignment explanation
Indices: 11756618--11756657 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
11756608 TAAAAAAATC
*
11756618 ATATTTTTTATATTTAAT
1 ATATTTTTTATATTTAAA
11756636 ATATTTTTTA-ATTTCAAA
1 ATATTTTTTATATTT-AAA
11756654 ATAT
1 ATAT
11756658 GTAGTAACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (18 bp):
ATATTTTTTATATTTAAA
Found at i:11757068 original size:22 final size:22
Alignment explanation
Indices: 11757041--11757100 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
11757031 TACTTAGGTG
11757041 TAAATTAAAATTCATGGGTGTA
1 TAAATTAAAATTCATGGGTGTA
* *
11757063 TAAATT-AAATATCAAGGGTTTA
1 TAAATTAAAAT-TCATGGGTGTA
11757085 TAAATTAAAATT-ATGG
1 TAAATTAAAATTCATGG
11757101 AAATTATGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
21 7 0.21
22 22 0.67
23 4 0.12
ACGTcount: A:0.45, C:0.03, G:0.15, T:0.37
Consensus pattern (22 bp):
TAAATTAAAATTCATGGGTGTA
Found at i:11758494 original size:20 final size:18
Alignment explanation
Indices: 11758459--11758501 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
11758449 ATAACATTGA
11758459 ATTTTGAAATTTTTATAT
1 ATTTTGAAATTTTTATAT
*
11758477 ATTTTGAAATCATTT-TAT
1 ATTTTGAAAT-TTTTATAT
11758495 ATTTTGA
1 ATTTTGA
11758502 TCTTTTTGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 20 0.87
19 3 0.13
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.58
Consensus pattern (18 bp):
ATTTTGAAATTTTTATAT
Found at i:11758809 original size:14 final size:14
Alignment explanation
Indices: 11758792--11758837 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
11758782 TTAATGTCTC
11758792 AAAATTAAAATATA
1 AAAATTAAAATATA
11758806 AAAATTAAAAT-TA
1 AAAATTAAAATATA
* *
11758819 AAATTTCAAAAAATA
1 AAAATT-AAAATATA
11758834 AAAA
1 AAAA
11758838 AATTTAACAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 7 0.26
14 15 0.56
15 5 0.19
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (14 bp):
AAAATTAAAATATA
Found at i:11763565 original size:11 final size:11
Alignment explanation
Indices: 11763543--11763631 Score: 53
Period size: 11 Copynumber: 8.3 Consensus size: 11
11763533 ATATATACTA
*
11763543 AATAGAATAAT
1 AATAAAATAAT
11763554 AATAATAA-AAT
1 AATAA-AATAAT
11763565 AATAAAAT-AT
1 AATAAAATAAT
* *
11763575 CATTTAAA-AAT
1 -AATAAAATAAT
*
11763586 -A-AAAATAAA
1 AATAAAATAAT
*
11763595 AATAAAAATAAA
1 AAT-AAAATAAT
*
11763607 AATAAAATATT
1 AATAAAATAAT
*
11763618 AATAAACTAAT
1 AATAAAATAAT
11763629 AAT
1 AAT
11763632 TAATTAATTA
Statistics
Matches: 60, Mismatches: 10, Indels: 16
0.70 0.12 0.19
Matches are distributed among these distances:
8 3 0.05
9 2 0.03
10 5 0.08
11 37 0.62
12 13 0.22
ACGTcount: A:0.70, C:0.02, G:0.01, T:0.27
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:11763594 original size:12 final size:12
Alignment explanation
Indices: 11763579--11763613 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
11763569 AAATATCATT
11763579 TAAAAATAAAAA
1 TAAAAATAAAAA
11763591 TAAAAATAAAAA
1 TAAAAATAAAAA
11763603 TAAAAATAAAA
1 TAAAAATAAAA
11763614 TATTAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (12 bp):
TAAAAATAAAAA
Found at i:11763600 original size:18 final size:18
Alignment explanation
Indices: 11763579--11763613 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
11763569 AAATATCATT
11763579 TAAAAATAAAAATAAAAA
1 TAAAAATAAAAATAAAAA
11763597 TAAAAATAAAAATAAAA
1 TAAAAATAAAAATAAAA
11763614 TATTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (18 bp):
TAAAAATAAAAATAAAAA
Found at i:11764317 original size:23 final size:23
Alignment explanation
Indices: 11764286--11764336 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
11764276 ACCTACTTTC
* * *
11764286 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCAGGATA
11764309 TTACAGTAGTAATTTTCAGGATA
1 TTACAGTAGTAATTTTCAGGATA
11764332 TTACA
1 TTACA
11764337 ATATAGATGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCAGGATA
Found at i:11766959 original size:29 final size:29
Alignment explanation
Indices: 11766920--11766977 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
11766910 TTTAATAATA
11766920 AAAATGAATAAACTTTTAAAAGGAAAAAT
1 AAAATGAATAAACTTTTAAAAGGAAAAAT
11766949 AAAATGAATAAACTTTTAAAAGGAAAAAT
1 AAAATGAATAAACTTTTAAAAGGAAAAAT
11766978 TTAATTTACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.62, C:0.03, G:0.10, T:0.24
Consensus pattern (29 bp):
AAAATGAATAAACTTTTAAAAGGAAAAAT
Found at i:11771956 original size:17 final size:17
Alignment explanation
Indices: 11771914--11771949 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
11771904 CATATATATA
11771914 TAAAAAAATAATTACAT
1 TAAAAAAATAATTACAT
11771931 TAAAAAAATAATTACAT
1 TAAAAAAATAATTACAT
11771948 TA
1 TA
11771950 TGGAAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
TAAAAAAATAATTACAT
Found at i:11773596 original size:44 final size:44
Alignment explanation
Indices: 11773548--11773846 Score: 258
Period size: 44 Copynumber: 6.9 Consensus size: 44
11773538 GATCCAAGAT
* *
11773548 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGAC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCGAC
* *
11773592 TTTAATTTGCTCCACTGCAACTTCAGGGAGATAAGATT-TGCCATC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-CGA-C
* * * *
11773637 TTCAATCTGC-CTCATTGCAACTTCA-GGAGGATAAGACTT-GCTTAC
1 TTTAATCTGCTC-CACTGCAACTTCAGGGA-GATAAGA-TTATC-GAC
* *
11773682 -TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTA--GA-
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCGAC
*** * * * * * *
11773722 TGCGATCTGCT-CTCTACAACTTTAGAGAGATAAGATCTGT-GAT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATCGAC
* * *
11773765 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCGAC
*
11773809 TTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
11773847 TGCCATCTTC
Statistics
Matches: 201, Mismatches: 39, Indels: 30
0.74 0.14 0.11
Matches are distributed among these distances:
40 20 0.10
41 8 0.04
42 2 0.01
43 11 0.05
44 123 0.61
45 34 0.17
46 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (44 bp):
TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCGAC
Found at i:11773715 original size:217 final size:217
Alignment explanation
Indices: 11773449--11774021 Score: 941
Period size: 217 Copynumber: 2.6 Consensus size: 217
11773439 ATTTCAGAAA
* *
11773449 GATAAGACTTGCTTACTTAGTCTGCTCCATTGCAATTTCAGGGAGATAAGACTAGATGCGATCTG
1 GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTG
* *
11773514 CTCTCTGCAACTTCATATAGATAAGATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGA
66 CTCTCTGCAACTTCAGAGAGATAAGATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGA
*
11773579 TAGGATTATCGACTTTAATTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATC
131 TAGGATTATCGACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATC
* *
11773644 TGCCTCATTGCAACTTCAGGAG
196 TGCCTCACTACAACTTCAGGAG
11773666 GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTG
1 GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTG
* * ***
11773731 CTCTCTACAACTTTAGAGAGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGA
66 CTCTCTGCAACTTCAGAGAGATAAGATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGA
* * *
11773796 TAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCCATCTTCAGTC
131 TAGGATTATCGACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATC
11773861 TGCCTCACTACAACTTCAGGAG
196 TGCCTCACTACAACTTCAGGAG
* * *
11773883 GATAAGACTTGCTTACTTAGTTTGCTCCACTACAACTTTAGGGAGATCAA-ACTAGATGCGATCT
1 GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGAT-AAGACTAGATGCGATCT
* * *
11773947 GCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAG
65 GCTCTCTGCAACTTCAGAGAGATAAGATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGGGAG
11774012 ATAGGATTAT
130 ATAGGATTAT
11774022 TGGCCTCCGA
Statistics
Matches: 329, Mismatches: 26, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
217 327 0.99
218 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (217 bp):
GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTG
CTCTCTGCAACTTCAGAGAGATAAGATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGA
TAGGATTATCGACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATC
TGCCTCACTACAACTTCAGGAG
Found at i:11780764 original size:690 final size:655
Alignment explanation
Indices: 11779443--11780788 Score: 2377
Period size: 690 Copynumber: 2.0 Consensus size: 655
11779433 ATCTTATTGG
11779443 ATACAGCTGCTATTATATCCTCTTCGGCGTTTATTGTCACTAGCTGACCTTCTGACACTAACTTC
1 ATACAGCTGCTATTATATCCTCTTCGGCGTTTATTGTCACTAGCTGACCTTCTGACACTAACTTC
11779508 AGCTTCTGATGTAATGATGACGATACTGCCCCCGCCGAATGTATCCATGGTCTTTCTACTAAACA
66 AGCTTCTGATGTAATGATGACGATACTGCCCCCGCCGAATGTATCCATGGTCTTTCTACTAAACA
11779573 ATTGTACGAAGGTTTGATATCCATCACAATAAAATCTACCTCATAAACTGTTGGGCCAATCAGTA
131 ATTGTACGAAGGTTTGATATCCATCACAATAAAATCTACCTCATAAACTGTTGGGCCAATCAGTA
11779638 GGGGTATCTCAATTCTTCCCATGACCTTTCTTTCTGTACCGTCAAACGCCCTTACTATATTTTGG
196 GGGGTATCTCAATTCTTCCCATGACCTTTCTTTCTGTACCGTCAAACGCCCTTACTATATTTTGG
11779703 GATGTTTTCATGTGCGAACTGTCTATGGGAAGCCTGTTAAGTGTGAATAATGGCAACATGTTCAA
261 GATGTTTTCATGTGCGAACTGTCTATGGGAAGCCTGTTAAGTGTGAATAATGGCAACATGTTCAA
11779768 AGCTGATCCATTGTCAATCAATACTCCTGGCAAAATATGCCCCTTGCATCGTACAGTGATATGTA
326 AGCTGATCCATTGTCAATCAATACTCCTGGCAAAATATGCCCCTTGCATCGTACAGTGATATGTA
11779833 AAGCCTTAGTAGATCCCACGCCCCCAGGAGGTATTTCATCATCATTGAAGAATATGAAATTATCA
391 AAGCCTTAGTAGATCCCACGCCCCCAGGAGGTATTTCATCATCATTGAAGAATATGAAATTATCA
11779898 GCACTGATATTATTGACCAACCGATCTAACTTGCCAACAGAAATATCATTGGCCACATAGGTCTC
456 GCACTGATATTATTGACCAACCGATCTAACTTGCCAACAGAAATATCATTGGCCACATAGGTCTC
11779963 GTTTAGCATCTTCATCAACGCATTTCGATGTACTTCTGAGTTCAAGAGTAGGGCTAGTACAGATA
521 GTTTAGCATCTTCATCAACGCATTTCGATGTACTTCTGAGTTCAAGAGTAGGGCTAGTACAGATA
11780028 TGCGAGCCGGTTGTTTATGCAACTGCTCGACAACATTATACTCACTATGCTTCAAAAATTTGAGG
586 TGCGAGCCGGTTGTTTATGCAACTGCTCGACAACATTATACTCACTATGCTTCAAAAATTTGAGG
11780093 AATTC
651 AATTC
11780098 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNATACAGCTGCTATTATATCCTCTTCGGCGT
1 -----------------------------------ATACAGCTGCTATTATATCCTCTTCGGCGT
11780163 TTATTGTCACTAGCTGACCTTCTGACACTAACTTCAGCTTCTGATGTAATGATGACGATACTGCC
31 TTATTGTCACTAGCTGACCTTCTGACACTAACTTCAGCTTCTGATGTAATGATGACGATACTGCC
11780228 CCCGCCGAATGTATCCATGGTCTTTCTACTAAACAATTGTACGAAGGTTTGATATCCATCACAAT
96 CCCGCCGAATGTATCCATGGTCTTTCTACTAAACAATTGTACGAAGGTTTGATATCCATCACAAT
11780293 AAAATCTACCTCATAAACTGTTGGGCCAATCAGTAGGGGTATCTCAATTCTTCCCATGACCTTTC
161 AAAATCTACCTCATAAACTGTTGGGCCAATCAGTAGGGGTATCTCAATTCTTCCCATGACCTTTC
11780358 TTTCTGTACCGTCAAACGCCCTTACTATATTTTGGGATGTTTTCATGTGCGAACTGTCTATGGGA
226 TTTCTGTACCGTCAAACGCCCTTACTATATTTTGGGATGTTTTCATGTGCGAACTGTCTATGGGA
11780423 AGCCTGTTAAGTGTGAATAATGGCAACATGTTCAAAGCTGATCCATTGTCAATCAATACTCCTGG
291 AGCCTGTTAAGTGTGAATAATGGCAACATGTTCAAAGCTGATCCATTGTCAATCAATACTCCTGG
11780488 CAAAATATGCCCCTTGCATCGTACAGTGATATGTAAAGCCTTAGTAGATCCCACGCCCCCAGGAG
356 CAAAATATGCCCCTTGCATCGTACAGTGATATGTAAAGCCTTAGTAGATCCCACGCCCCCAGGAG
11780553 GTATTTCATCATCATTGAAGAATATGAAATTATCAGCACTGATATTATTGACCAACCGATCTAAC
421 GTATTTCATCATCATTGAAGAATATGAAATTATCAGCACTGATATTATTGACCAACCGATCTAAC
11780618 TTGCCAACAGAAATATCATTGGCCACATAGGTCTCGTTTAGCATCTTCATCAACGCATTTCGATG
486 TTGCCAACAGAAATATCATTGGCCACATAGGTCTCGTTTAGCATCTTCATCAACGCATTTCGATG
11780683 TACTTCTGAGTTCAAGAGTAGGGCTAGTACAGATATGCGAGCCGGTTGTTTATGCAACTGCTCGA
551 TACTTCTGAGTTCAAGAGTAGGGCTAGTACAGATATGCGAGCCGGTTGTTTATGCAACTGCTCGA
11780748 CAACATTATACTCACTATGCTTCAAAAATTTGAGGAATTC
616 CAACATTATACTCACTATGCTTCAAAAATTTGAGGAATTC
11780788 A
1 A
11780789 CAGCTTCTTC
Statistics
Matches: 656, Mismatches: 0, Indels: 35
0.95 0.00 0.05
Matches are distributed among these distances:
655 1 0.00
690 655 1.00
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.30
Consensus pattern (655 bp):
ATACAGCTGCTATTATATCCTCTTCGGCGTTTATTGTCACTAGCTGACCTTCTGACACTAACTTC
AGCTTCTGATGTAATGATGACGATACTGCCCCCGCCGAATGTATCCATGGTCTTTCTACTAAACA
ATTGTACGAAGGTTTGATATCCATCACAATAAAATCTACCTCATAAACTGTTGGGCCAATCAGTA
GGGGTATCTCAATTCTTCCCATGACCTTTCTTTCTGTACCGTCAAACGCCCTTACTATATTTTGG
GATGTTTTCATGTGCGAACTGTCTATGGGAAGCCTGTTAAGTGTGAATAATGGCAACATGTTCAA
AGCTGATCCATTGTCAATCAATACTCCTGGCAAAATATGCCCCTTGCATCGTACAGTGATATGTA
AAGCCTTAGTAGATCCCACGCCCCCAGGAGGTATTTCATCATCATTGAAGAATATGAAATTATCA
GCACTGATATTATTGACCAACCGATCTAACTTGCCAACAGAAATATCATTGGCCACATAGGTCTC
GTTTAGCATCTTCATCAACGCATTTCGATGTACTTCTGAGTTCAAGAGTAGGGCTAGTACAGATA
TGCGAGCCGGTTGTTTATGCAACTGCTCGACAACATTATACTCACTATGCTTCAAAAATTTGAGG
AATTC
Found at i:11789107 original size:146 final size:146
Alignment explanation
Indices: 11788840--11789127 Score: 513
Period size: 146 Copynumber: 2.0 Consensus size: 146
11788830 CATGACATGT
11788840 TGGAACGCAGTCTAATAGCAGCTTAGATTAACTAAATACTTTCGGCAAGATTCAAAGTTCTATAG
1 TGGAACGCAGTCTAATAGCAGCTTAGATTAACTAAATACTTTCGGCAAGATTCAAAGTTCTATAG
* * *
11788905 TTATATTAAAAATATTATCTGAGTGTATATCCTTTTGTTATTAAATTTTATATTTTCAATTATTA
66 TTAGATTAAAAACATTAACTGAGTGTATATCCTTTTGTTATTAAATTTTATATTTTCAATTATTA
11788970 AACCCTCAAATCATAG
131 AACCCTCAAATCATAG
* *
11788986 TGGAACGCAGTCTAATCGCAGCTTAGATTAACTAAATACTTTCGGCAAGATTCAAAGTTCTATAT
1 TGGAACGCAGTCTAATAGCAGCTTAGATTAACTAAATACTTTCGGCAAGATTCAAAGTTCTATAG
* *
11789051 TTAGATTAAAAACATTAACTGAGTGTATATCCTTTTGTTATTAAGTTTTATTTTTTCAATTATTA
66 TTAGATTAAAAACATTAACTGAGTGTATATCCTTTTGTTATTAAATTTTATATTTTCAATTATTA
11789116 AACCCTCAAATC
131 AACCCTCAAATC
11789128 TTAGGTATCT
Statistics
Matches: 135, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
146 135 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.39
Consensus pattern (146 bp):
TGGAACGCAGTCTAATAGCAGCTTAGATTAACTAAATACTTTCGGCAAGATTCAAAGTTCTATAG
TTAGATTAAAAACATTAACTGAGTGTATATCCTTTTGTTATTAAATTTTATATTTTCAATTATTA
AACCCTCAAATCATAG
Found at i:11794349 original size:45 final size:46
Alignment explanation
Indices: 11794293--11794386 Score: 181
Period size: 45 Copynumber: 2.1 Consensus size: 46
11794283 GTTATAGAAT
11794293 AATCTAATAATATTAGAAAATGAAGGAAGG-AAGAAAGAGTATTAG
1 AATCTAATAATATTAGAAAATGAAGGAAGGAAAGAAAGAGTATTAG
11794338 AATCTAATAATATTAGAAAATGAAGGAAGGAAAGAAAGAGTATTAG
1 AATCTAATAATATTAGAAAATGAAGGAAGGAAAGAAAGAGTATTAG
11794384 AAT
1 AAT
11794387 TTGTTGATAT
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 30 0.62
46 18 0.38
ACGTcount: A:0.54, C:0.02, G:0.21, T:0.22
Consensus pattern (46 bp):
AATCTAATAATATTAGAAAATGAAGGAAGGAAAGAAAGAGTATTAG
Found at i:11797175 original size:20 final size:17
Alignment explanation
Indices: 11797132--11797177 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 17
11797122 ATTTAGATTG
11797132 AACACAAATTATGGAAC
1 AACACAAATTATGGAAC
11797149 AACACAAATTATGGAAC
1 AACACAAATTATGGAAC
11797166 AATCACACAATT
1 AA-CACA-AATT
11797178 TTAGCATACC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 19 0.70
18 4 0.15
19 4 0.15
ACGTcount: A:0.52, C:0.20, G:0.09, T:0.20
Consensus pattern (17 bp):
AACACAAATTATGGAAC
Found at i:11800699 original size:51 final size:51
Alignment explanation
Indices: 11800633--11800752 Score: 134
Period size: 51 Copynumber: 2.4 Consensus size: 51
11800623 GTATTGTGTA
* *
11800633 AAGGCTACTACGTGTATCTATAA-ATGATGGTCACATGTGTAGTACTAAGTG
1 AAGGCTACTACGTGTATCAAGAAGAT-ATGGTCACATGTGTAGTACTAAGTG
* * * * * * **
11800684 AAGGCTACAATGTGTACCAAGAAGCTTTGGTCACGTGTGTAGTACTGTGTG
1 AAGGCTACTACGTGTATCAAGAAGATATGGTCACATGTGTAGTACTAAGTG
11800735 AAGGCTACTACGTGTATC
1 AAGGCTACTACGTGTATC
11800753 GAATGATAAA
Statistics
Matches: 55, Mismatches: 13, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
51 54 0.98
52 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (51 bp):
AAGGCTACTACGTGTATCAAGAAGATATGGTCACATGTGTAGTACTAAGTG
Found at i:11808300 original size:46 final size:46
Alignment explanation
Indices: 11808247--11808337 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
11808237 CTGTGTGAAG
11808247 GCTACTACGTGTATCGAT-AACTGATGGTCACATGTGTAGTACTAAA
1 GCTACTACGTGTATCGATAAACT-ATGGTCACATGTGTAGTACTAAA
* * *
11808293 GCTACTACGTGTATCGGTAAACTATGGTTACATGTGTGGTACTAA
1 GCTACTACGTGTATCGATAAACTATGGTCACATGTGTAGTACTAA
11808338 GTGAAGGCTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
46 37 0.90
47 4 0.10
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (46 bp):
GCTACTACGTGTATCGATAAACTATGGTCACATGTGTAGTACTAAA
Found at i:11808498 original size:100 final size:98
Alignment explanation
Indices: 11808371--11808554 Score: 287
Period size: 100 Copynumber: 1.9 Consensus size: 98
11808361 AAAGCTTTGG
* * *
11808371 TCACGTATGTAGTATTATGTGAAGGCTACTACGTGAGCCGTAAAACTTGATCACGTGTGTAATAC
1 TCACGTATGTAGTACTATGTGAAGGCTACTACGTGAACCGCAAAAC-TGATCACGTGTGTAATAC
11808436 TATGTGAAAGGCTACTACGTGAACTGTAAAACTGA
65 TATGTG-AAGGCTACTACGTGAACTGTAAAACTGA
* * * *
11808471 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTGCAAAACTGATCACGTGTGTAGTATT
1 TCACGTATGTAGTACTATGTGAAGGCTACTACGTGAACCGCAAAACTGATCACGTGTGTAATACT
11808536 ATGTGAAGGCTACTACGTG
66 ATGTGAAGGCTACTACGTG
11808555 TATCGAATGA
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
98 14 0.18
99 22 0.29
100 41 0.53
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.29
Consensus pattern (98 bp):
TCACGTATGTAGTACTATGTGAAGGCTACTACGTGAACCGCAAAACTGATCACGTGTGTAATACT
ATGTGAAGGCTACTACGTGAACTGTAAAACTGA
Found at i:11808516 original size:49 final size:49
Alignment explanation
Indices: 11808371--11808554 Score: 287
Period size: 49 Copynumber: 3.7 Consensus size: 49
11808361 AAAGCTTTGG
* * * *
11808371 TCACGTATGTAGTATTATGTGAAGGCTACTACGTGAGCCGTAAAACTTGA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAAC-TGA
*
11808421 TCACGTGTGTAATACTATGTGAAAGGCTACTACGTGAACTGTAAAACTGA
1 TCACGTGTGTAGTACTATGTG-AAGGCTACTACGTGAACTGTAAAACTGA
*
11808471 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTGCAAAACTGA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAACTGA
*
11808520 TCACGTGTGTAGTATTATGTGAAGGCTACTACGTG
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTG
11808555 TATCGAATGA
Statistics
Matches: 125, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
49 61 0.49
50 41 0.33
51 23 0.18
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.29
Consensus pattern (49 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAACTGA
Found at i:11808583 original size:100 final size:99
Alignment explanation
Indices: 11808379--11808586 Score: 244
Period size: 100 Copynumber: 2.1 Consensus size: 99
11808369 GGTCACGTAT
* * *
11808379 GTAGTATTATGTGAAGGCTACTACGTGAGCCGTAAAACTTGATCACGTGTGTAATACTATGTGAA
1 GTAGTACTATGTGAAGGCTACTACGTGAACCGCAAAACTTGATCACGTGTGTAATACTATGTGAA
* * * *
11808444 AGGCTACTACGTGAACTGTAAAACTGATCACGTGT
66 AGGCTACTACGTGAAATGTAAAAC-GATAACATGG
* * *
11808479 GTAGTACTATGTGAAGGCTACTACGTGAACTGCAAAAC-TGATCACGTGTGTAGTATTATGTG-A
1 GTAGTACTATGTGAAGGCTACTACGTGAACCGCAAAACTTGATCACGTGTGTAATACTATGTGAA
11808542 AGGCTACTACGTGTATCGAATGATAAAA-G-TAACATGG
66 AGGCTACTACGTG-A---AATG-TAAAACGATAACATGG
11808579 GTAGTACT
1 GTAGTACT
11808587 GTGTCAAAAA
Statistics
Matches: 93, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
98 14 0.15
99 23 0.25
100 47 0.51
101 1 0.01
102 3 0.03
103 5 0.05
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.29
Consensus pattern (99 bp):
GTAGTACTATGTGAAGGCTACTACGTGAACCGCAAAACTTGATCACGTGTGTAATACTATGTGAA
AGGCTACTACGTGAAATGTAAAACGATAACATGG
Found at i:11826965 original size:68 final size:68
Alignment explanation
Indices: 11826826--11826956 Score: 181
Period size: 68 Copynumber: 1.9 Consensus size: 68
11826816 GAAGTTTGCC
* * * *
11826826 AGGACAGTAAACATGACACTATATTATATAAAATCATAACTGGGATATGGAAACATTTGAAGTCT
1 AGGACAGTAAACATGACACCATATTATATAAAACCATAACTAGGATATGAAAACATTTGAAGTCT
11826891 ACT
66 ACT
* * * * *
11826894 AGGACAGTAAACATGACACCATATTGTGTAAGACCATAGCTAGGCTATGAAAACATTTGAAGT
1 AGGACAGTAAACATGACACCATATTATATAAAACCATAACTAGGATATGAAAACATTTGAAGT
11826957 TCATTAGGAT
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
68 54 1.00
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (68 bp):
AGGACAGTAAACATGACACCATATTATATAAAACCATAACTAGGATATGAAAACATTTGAAGTCT
ACT
Found at i:11829496 original size:43 final size:43
Alignment explanation
Indices: 11829435--11830249 Score: 1630
Period size: 43 Copynumber: 19.0 Consensus size: 43
11829425 AAATTCAAAG
11829435 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTTT
1 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTTT
11829478 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTTT
1 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTTT
11829521 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTTT
1 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTTT
11829564 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTTT
1 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTTT
11829607 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTTT
1 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTTT
11829650 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTTT
1 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTTT
11829693 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTTT
1 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTTT
11829736 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTTT
1 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTTT
11829779 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTTT
1 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTTT
11829822 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTTT
1 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTTT
11829865 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTTT
1 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTTT
11829908 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTTT
1 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTTT
11829951 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTTT
1 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTTT
11829994 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTTT
1 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTTT
11830037 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTTT
1 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTTT
11830080 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTTT
1 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTTT
11830123 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTTT
1 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTTT
11830166 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTTT
1 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTTT
11830209 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTT
1 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTT
11830250 CACACATATT
Statistics
Matches: 772, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 772 1.00
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (43 bp):
GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTTT
Found at i:11830857 original size:37 final size:35
Alignment explanation
Indices: 11830808--11830899 Score: 103
Period size: 36 Copynumber: 2.5 Consensus size: 35
11830798 GAAAACAAAC
* * *
11830808 AAAAAAATAAAAAAATTATATATTGATCAAAGTTTAA
1 AAAAAAACAAAAAAATT-TAGAAT-ATCAAAGTTTAA
*
11830845 AAAAAAACAAAAAAAATTTCGAATATCAAAGTTTAA
1 AAAAAAAC-AAAAAAATTTAGAATATCAAAGTTTAA
*
11830881 AAGAAAAAGAAAAAAATTT
1 AA-AAAAACAAAAAAATTT
11830900 CAAAAAATAT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
36 24 0.50
37 15 0.31
38 9 0.19
ACGTcount: A:0.65, C:0.04, G:0.07, T:0.24
Consensus pattern (35 bp):
AAAAAAACAAAAAAATTTAGAATATCAAAGTTTAA
Found at i:11837558 original size:20 final size:21
Alignment explanation
Indices: 11837535--11837574 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
11837525 ATATCATCGT
*
11837535 TCATATCAAAAATAA-TAAAC
1 TCATAGCAAAAATAAGTAAAC
*
11837555 TCATAGCAAACATAAGTAAA
1 TCATAGCAAAAATAAGTAAA
11837575 TTAAATAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.57, C:0.15, G:0.05, T:0.23
Consensus pattern (21 bp):
TCATAGCAAAAATAAGTAAAC
Found at i:11845611 original size:17 final size:17
Alignment explanation
Indices: 11845589--11845621 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11845579 ATGAATGAAA
11845589 AAATGCTAG-GGCAATTG
1 AAATGCT-GTGGCAATTG
11845606 AAATGCTGTGGCAATT
1 AAATGCTGTGGCAATT
11845622 CTCAAAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.07
17 14 0.93
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.27
Consensus pattern (17 bp):
AAATGCTGTGGCAATTG
Found at i:11850653 original size:30 final size:30
Alignment explanation
Indices: 11850619--11850678 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
11850609 ACAATAAAGT
11850619 ATATGAATGAATTGTGTATAATTGGTTATA
1 ATATGAATGAATTGTGTATAATTGGTTATA
11850649 ATATGAATGAATTGTGTATAATTGGTTATA
1 ATATGAATGAATTGTGTATAATTGGTTATA
11850679 TGCCTGATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.43
Consensus pattern (30 bp):
ATATGAATGAATTGTGTATAATTGGTTATA
Found at i:11867276 original size:26 final size:26
Alignment explanation
Indices: 11867247--11867297 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
11867237 GTAATTCTAG
11867247 AATATCATAACATATATCAGTTTCAA
1 AATATCATAACATATATCAGTTTCAA
* *
11867273 AATATCATAGCATGTATCAGTTTCA
1 AATATCATAACATATATCAGTTTCA
11867298 GAACACTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (26 bp):
AATATCATAACATATATCAGTTTCAA
Found at i:11868901 original size:19 final size:19
Alignment explanation
Indices: 11868877--11868914 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
11868867 TTTTCTTACT
11868877 AAAAATTATTTATCTCTTA
1 AAAAATTATTTATCTCTTA
11868896 AAAAATTATTTATCTCTTA
1 AAAAATTATTTATCTCTTA
11868915 GTACGAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (19 bp):
AAAAATTATTTATCTCTTA
Found at i:11869330 original size:9 final size:9
Alignment explanation
Indices: 11869311--11869345 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
11869301 TTTTTGCATC
11869311 ATTTACTCTT
1 ATTT-CTCTT
11869321 ATTTCTCTT
1 ATTTCTCTT
*
11869330 ATTTCTCAT
1 ATTTCTCTT
11869339 ATTTCTC
1 ATTTCTC
11869346 GATAGCAAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 20 0.83
10 4 0.17
ACGTcount: A:0.17, C:0.23, G:0.00, T:0.60
Consensus pattern (9 bp):
ATTTCTCTT
Found at i:11872538 original size:98 final size:99
Alignment explanation
Indices: 11872380--11872576 Score: 387
Period size: 98 Copynumber: 2.0 Consensus size: 99
11872370 TCAATACTTC
11872380 AAATTGCTTCTTGGTTTTGCGCTTCTAGCAGTGTCTGCGGACCCATTTTTCGCCGTTTGTGCAAA
1 AAATTGCTTCTTGGTTTTGCGCTTCTAGCAGTGTCTGCGGACCCATTTTTCGCCGTTTGTGCAAA
11872445 TCTGTTGAAAATAACCAAAATTC-TCAAAATTAA
66 TCTGTTGAAAATAACCAAAATTCATCAAAATTAA
11872478 AAATTGCTTCTTGGTTTTGCGCTTCTAGCAGTGTCTGCGGACCCATTTTTCGCCGTTTGTGCAAA
1 AAATTGCTTCTTGGTTTTGCGCTTCTAGCAGTGTCTGCGGACCCATTTTTCGCCGTTTGTGCAAA
11872543 TCTGTTGAAAATAACCAAAATTCATCAAAATTAA
66 TCTGTTGAAAATAACCAAAATTCATCAAAATTAA
11872577 TTATAAAATT
Statistics
Matches: 98, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
98 88 0.90
99 10 0.10
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (99 bp):
AAATTGCTTCTTGGTTTTGCGCTTCTAGCAGTGTCTGCGGACCCATTTTTCGCCGTTTGTGCAAA
TCTGTTGAAAATAACCAAAATTCATCAAAATTAA
Found at i:11873345 original size:338 final size:338
Alignment explanation
Indices: 11872729--11873646 Score: 1410
Period size: 338 Copynumber: 2.7 Consensus size: 338
11872719 CCCTGTTTCC
* * * * *
11872729 ACCCTTCCACAAACTTGTAATAGTATTCTACTAACCACATAAAGCTTTGAACCTTAGTAACACTT
1 ACCCTTCCACAAACTTGCAATAGTATTCTACTAACCTCATAAAGCTTTGCACCTCAGAAACACTT
* * * * **
11872794 TTTGGTCATTTCCACTCTAAAACTTCCTCAATCCTCTTTGGGTCTATGCAAATTCCCTCAACAAA
66 TTTGGTCATTTCCACTCTAAAATTTCCTCAATCTTCTTTGGGTCTACGCAAAATCCCTCCGCAAA
*
11872859 ATCCACATAACACAAGAATGCTACCTCCCTTAACCAAAATTCACACTTCCTGAGCTTCACGAATA
131 ATCCACATAACCCAAGAATGCTACCTCCCTTAACCAAAATTCACACTTCCTGAGCTTCACGAATA
* * * *
11872924 GTTGCTTCTCTCATAAAATATGTAACACGGTTTCCAGGTGAGCATCACCTTAAGTCTTTCAAAGC
196 GTTGCTTCTCTCGTAAAATATGTAACACAGTTTGCAGGTGAGCATCACCTTAAGTCTTTAAAAGC
* *
11872989 TTTCTTGACTTTCCTCTATCCATTCGAACTCCACATCTTTCTGA-AGTAGCTTTATTATGGGTGT
261 TTTCTTGACTTTCCTCTATCCATGCGAACTCCACATCTTTCT-ACAGTAGATTTATTATGGGTGT
11873053 CGCAATGGTGGCGA
325 CGCAATGGTGGCGA
*
11873067 ACCCTTCTACAAACTTGCAATAGTATTCTACTAACCTCATAAAGCTTTGCACCTCAGAAACACTT
1 ACCCTTCCACAAACTTGCAATAGTATTCTACTAACCTCATAAAGCTTTGCACCTCAGAAACACTT
* *
11873132 TTTGGTCATTTCCACTCTAAAATTTCCTCAATCTTTTTTGGGTCTACGTAAAATCCCTCCGCAAA
66 TTTGGTCATTTCCACTCTAAAATTTCCTCAATCTTCTTTGGGTCTACGCAAAATCCCTCCGCAAA
*
11873197 ATCCACATAACCCAAGAATGCTACCTCCCTTAACCAAAATTCACACTTGCTGAGCTTCACGAATA
131 ATCCACATAACCCAAGAATGCTACCTCCCTTAACCAAAATTCACACTTCCTGAGCTTCACGAATA
*
11873262 GTTGCTTCTCTCGTAAAATATGTAACACAGTTTGCAGATGAGCATCACCTTAAGTCTTTAAAAGC
196 GTTGCTTCTCTCGTAAAATATGTAACACAGTTTGCAGGTGAGCATCACCTTAAGTCTTTAAAAG-
*
11873327 CTTT-TTGTCTTTCCTCTATCCATGCGAACTCCACATCTTTCTACAGTAGATTTATTATGGGTGT
260 CTTTCTTGACTTTCCTCTATCCATGCGAACTCCACATCTTTCTACAGTAGATTTATTATGGGTGT
11873391 CGCAATGGTGGCGA
325 CGCAATGGTGGCGA
* *
11873405 ACCCTTCCACAAACTTGCCATAGTATTCTACTAACCTCATAAAGCTTCGCACCTCA-ATAACACT
1 ACCCTTCCACAAACTTGCAATAGTATTCTACTAACCTCATAAAGCTTTGCACCTCAGA-AACACT
* ** * *
11873469 TTTTGGTCATTTCCACACTAAAATTTAGTCAATCTTCTTTGGGTCTACGCAAACTCCCTTCGCAA
65 TTTTGGTCATTTCCACTCTAAAATTTCCTCAATCTTCTTTGGGTCTACGCAAAATCCCTCCGCAA
* * * *
11873534 AATCCACATAACCCAAGAATGCTACCTCCCTTAACCAAAATTTACACTTCCTAAGCTTCATGAAA
130 AATCCACATAACCCAAGAATGCTACCTCCCTTAACCAAAATTCACACTTCCTGAGCTTCACGAAT
* * * * * * *
11873599 AGTTACTTCTCTCGCAGAATTTGTAACATAGTTCGCAGGTGAGAATCA
195 AGTTGCTTCTCTCGTAAAATATGTAACACAGTTTGCAGGTGAGCATCA
11873647 TGCTCTTCTT
Statistics
Matches: 530, Mismatches: 47, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
337 2 0.00
338 524 0.99
339 4 0.01
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (338 bp):
ACCCTTCCACAAACTTGCAATAGTATTCTACTAACCTCATAAAGCTTTGCACCTCAGAAACACTT
TTTGGTCATTTCCACTCTAAAATTTCCTCAATCTTCTTTGGGTCTACGCAAAATCCCTCCGCAAA
ATCCACATAACCCAAGAATGCTACCTCCCTTAACCAAAATTCACACTTCCTGAGCTTCACGAATA
GTTGCTTCTCTCGTAAAATATGTAACACAGTTTGCAGGTGAGCATCACCTTAAGTCTTTAAAAGC
TTTCTTGACTTTCCTCTATCCATGCGAACTCCACATCTTTCTACAGTAGATTTATTATGGGTGTC
GCAATGGTGGCGA
Found at i:11876096 original size:23 final size:23
Alignment explanation
Indices: 11876070--11876139 Score: 122
Period size: 23 Copynumber: 3.0 Consensus size: 23
11876060 ATAAGTGCCA
*
11876070 CACTGATATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
11876093 CACTGAAATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
*
11876116 CACTGAAAAGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
11876139 C
1 C
11876140 TTACACTTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.34, C:0.27, G:0.21, T:0.17
Consensus pattern (23 bp):
CACTGAAATGTAGCCGAAGCTAC
Found at i:11880852 original size:19 final size:20
Alignment explanation
Indices: 11880815--11880852 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11880805 TATGTGTTTT
11880815 GTTCAAATGTAACTTTGTTA
1 GTTCAAATGTAACTTTGTTA
*
11880835 GTTCAATTGTAA-TTTGTT
1 GTTCAAATGTAACTTTGTT
11880853 CAGCAAAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.26, C:0.08, G:0.16, T:0.50
Consensus pattern (20 bp):
GTTCAAATGTAACTTTGTTA
Found at i:11885334 original size:19 final size:20
Alignment explanation
Indices: 11885297--11885334 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11885287 TATGTGTTTT
11885297 GTTCAAATGTAACTTTGTTA
1 GTTCAAATGTAACTTTGTTA
*
11885317 GTTCAATTGTAA-TTTGTT
1 GTTCAAATGTAACTTTGTT
11885335 CAGCAAAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.26, C:0.08, G:0.16, T:0.50
Consensus pattern (20 bp):
GTTCAAATGTAACTTTGTTA
Found at i:11887805 original size:21 final size:22
Alignment explanation
Indices: 11887775--11887818 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
11887765 TAATATGTTT
11887775 TAAATAGATATAACTATTAAAG
1 TAAATAGATATAACTATTAAAG
* *
11887797 TAAA-AGATATAATTATTCAAG
1 TAAATAGATATAACTATTAAAG
11887818 T
1 T
11887819 GACATCTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.52, C:0.05, G:0.09, T:0.34
Consensus pattern (22 bp):
TAAATAGATATAACTATTAAAG
Found at i:11890110 original size:19 final size:20
Alignment explanation
Indices: 11890067--11890111 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
11890057 AAGATAGCTA
11890067 GATGAGTTGAGAGAATGATG
1 GATGAGTTGAGAGAATGATG
*
11890087 AATGAG-TGAGA-AATGATGG
1 GATGAGTTGAGAGAATGAT-G
11890106 GATGAG
1 GATGAG
11890112 GGATGATTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 6 0.27
19 11 0.50
20 5 0.23
ACGTcount: A:0.38, C:0.00, G:0.40, T:0.22
Consensus pattern (20 bp):
GATGAGTTGAGAGAATGATG
Found at i:11895352 original size:17 final size:17
Alignment explanation
Indices: 11895332--11895365 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
11895322 TTGAAAAAAA
11895332 AAATTCGAAAAAAAAGG
1 AAATTCGAAAAAAAAGG
11895349 AAATTCGAAAAAAAAGG
1 AAATTCGAAAAAAAAGG
11895366 GGGTACGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.65, C:0.06, G:0.18, T:0.12
Consensus pattern (17 bp):
AAATTCGAAAAAAAAGG
Found at i:11896234 original size:6 final size:6
Alignment explanation
Indices: 11896223--11896331 Score: 74
Period size: 6 Copynumber: 17.7 Consensus size: 6
11896213 ACATTGTAAT
* * * ** *
11896223 GAAAAA GAAAAA GAAAAT GAAAAC GAAAAT GAAAAA GAAATT GCAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA
** ** * * *
11896271 GAAAAA GAAATC GAAAAA GTGAGA GAAAAA GAAAAT GAAGAAAA GAAAATT
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA G-A-AAAA GAAAA-A
11896322 GAAAAA GAAA
1 GAAAAA GAAA
11896332 TTGAGATTGA
Statistics
Matches: 76, Mismatches: 24, Indels: 6
0.72 0.23 0.06
Matches are distributed among these distances:
6 65 0.86
7 7 0.09
8 4 0.05
ACGTcount: A:0.70, C:0.03, G:0.19, T:0.08
Consensus pattern (6 bp):
GAAAAA
Found at i:11896340 original size:18 final size:18
Alignment explanation
Indices: 11896319--11896353 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
11896309 AGAAAAGAAA
11896319 ATTGA-AAAAGAAATTGAG
1 ATTGAGAAAA-AAATTGAG
11896337 ATTGAGAAAAAAATTGA
1 ATTGAGAAAAAAATTGA
11896354 AAAAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (18 bp):
ATTGAGAAAAAAATTGAG
Found at i:11896362 original size:16 final size:18
Alignment explanation
Indices: 11896341--11896379 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
11896331 ATTGAGATTG
11896341 AGAAAAA-A-ATTGAAAA
1 AGAAAAAGATATTGAAAA
*
11896357 AGAAAAAGATGTTGAAAA
1 AGAAAAAGATATTGAAAA
11896375 AGAAA
1 AGAAA
11896380 CGAGAGGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
17 1 0.05
18 12 0.60
ACGTcount: A:0.69, C:0.00, G:0.18, T:0.13
Consensus pattern (18 bp):
AGAAAAAGATATTGAAAA
Found at i:11898416 original size:13 final size:13
Alignment explanation
Indices: 11898398--11898426 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
11898388 TGTGTTTTGC
11898398 TGCTGTTGTTTAA
1 TGCTGTTGTTTAA
11898411 TGCTGTTGTTTAA
1 TGCTGTTGTTTAA
11898424 TGC
1 TGC
11898427 AGAATATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.10, G:0.24, T:0.52
Consensus pattern (13 bp):
TGCTGTTGTTTAA
Found at i:11925029 original size:10 final size:9
Alignment explanation
Indices: 11925010--11925043 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 9
11925000 AATTTTAATG
11925010 AAAAATATA
1 AAAAATATA
11925019 AAAATATATA
1 AAAA-ATATA
11925029 AAAAATTATA
1 AAAAA-TATA
11925039 AAAAA
1 AAAAA
11925044 AATTATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 5 0.22
10 18 0.78
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
AAAAATATA
Found at i:11925103 original size:19 final size:19
Alignment explanation
Indices: 11925079--11925122 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
11925069 AACTTATTTT
11925079 AAAATTTACAGAATT-TA-AA
1 AAAATTTA-A-AATTATATAA
11925098 AAAATTTAAAATTATATAA
1 AAAATTTAAAATTATATAA
11925117 AAAATT
1 AAAATT
11925123 AGTTTCCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.17
18 3 0.13
19 16 0.70
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (19 bp):
AAAATTTAAAATTATATAA
Found at i:11927158 original size:19 final size:19
Alignment explanation
Indices: 11927105--11927158 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 19
11927095 GCCATGTGGC
11927105 AAAAATT-ATAAAAA--AT
1 AAAAATTAATAAAAATTAT
* * *
11927121 AAAAATCAATAAGATTTAT
1 AAAAATTAATAAAAATTAT
11927140 AAAAATTAATAAAAATTAT
1 AAAAATTAATAAAAATTAT
11927159 TTAAAATAGA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
16 6 0.21
17 5 0.17
19 18 0.62
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (19 bp):
AAAAATTAATAAAAATTAT
Found at i:11927199 original size:19 final size:19
Alignment explanation
Indices: 11927175--11927238 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
11927165 TAGAATAAAT
*
11927175 TATAAATATCGTAAAAAAA
1 TATAAAAATCGTAAAAAAA
* * ***
11927194 TATAAAAATTGCAAAATGT
1 TATAAAAATCGTAAAAAAA
*
11927213 TATAAAAATCATAAAAAAA
1 TATAAAAATCGTAAAAAAA
11927232 TATAAAA
1 TATAAAA
11927239 TGCATTAAAA
Statistics
Matches: 33, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.27
Consensus pattern (19 bp):
TATAAAAATCGTAAAAAAA
Found at i:11927514 original size:11 final size:12
Alignment explanation
Indices: 11927491--11927515 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11927481 CTTTATAAAA
11927491 TTTTCTAATTTT
1 TTTTCTAATTTT
11927503 TTTTCTAATTTT
1 TTTTCTAATTTT
11927515 T
1 T
11927516 AATAGATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTCTAATTTT
Found at i:11927573 original size:20 final size:19
Alignment explanation
Indices: 11927529--11927573 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
11927519 AGATTAAAAT
*
11927529 ATTTTTATATTTTTATTAA
1 ATTTTAATATTTTTATTAA
* *
11927548 AATTTAATATTTTTTTCTAA
1 ATTTTAATATTTTTAT-TAA
11927568 ATTTTA
1 ATTTTA
11927574 TTGATTTCTA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (19 bp):
ATTTTAATATTTTTATTAA
Found at i:11927913 original size:93 final size:92
Alignment explanation
Indices: 11927739--11927914 Score: 237
Period size: 93 Copynumber: 1.9 Consensus size: 92
11927729 AATTGAGTGC
* * *
11927739 AAAAAAAAAGTAGGGGCTTAATTGCTCTTTTGAAAAAGTTTGAGGGCCTTTTTGATGCATTTTTG
1 AAAAAAAAAATAGGGGCTTAATTGCTCTTTTGAAAAAGTTTGAGGGCCTTTTTAATACATTTTTG
* * * *
11927804 CAGTTCAAGTACCCAATTGAATTTCCA
66 AAGTTAAAATAACCAATTGAATTTCCA
* * *
11927831 AAAAAAAAAATAGGGGCTTAATTGTTTCTTTTGAAAATGTTTGAGGGTCTTTTTAATACA-TTTT
1 AAAAAAAAAATAGGGGCTTAATTG-CTCTTTTGAAAAAGTTTGAGGGCCTTTTTAATACATTTTT
11927895 GAAAGTTAAAATAACCAATT
65 G-AAGTTAAAATAACCAATT
11927915 CAGTGAAAAA
Statistics
Matches: 72, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
92 28 0.39
93 44 0.61
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (92 bp):
AAAAAAAAAATAGGGGCTTAATTGCTCTTTTGAAAAAGTTTGAGGGCCTTTTTAATACATTTTTG
AAGTTAAAATAACCAATTGAATTTCCA
Found at i:11928192 original size:86 final size:86
Alignment explanation
Indices: 11927992--11928195 Score: 211
Period size: 86 Copynumber: 2.3 Consensus size: 86
11927982 CAAACCTTTA
* * *
11927992 AAAAAAAACAATTAAGTCCTTACTATTGTTTTTACTCAATTGGATACTTGACTTTTCAAAATGAA
1 AAAAGAAACAATTAAG-CCCTACT-TT-TTTTTACTCAATTGGATACTTGACTATTCAAAATGAA
11928057 TCAAAAAGACCTTCAAACTTTTTC
63 TCAAAAAGACCTTCAAACTTTTTC
* * * * *
11928081 AGAAGAAACAATTAAGCGCT-TTTTTTTTGTACTCAATTGGGTACTTGAACTATT-AAAATGCAT
1 AAAAGAAACAATTAAGCCCTACTTTTTTT-TACTCAATTGGATACTTG-ACTATTCAAAATGAAT
*
11928144 CAAAAAGGCCCTT-AAAC-TTTTC
64 CAAAAA-GACCTTCAAACTTTTTC
**
11928166 AAAAG-AGTAATTAAGCCCCTACTTTTTTTT
1 AAAAGAAACAATTAAG-CCCTACTTTTTTTT
11928196 GGCACTCAAT
Statistics
Matches: 96, Mismatches: 14, Indels: 14
0.77 0.11 0.11
Matches are distributed among these distances:
84 8 0.08
85 17 0.18
86 44 0.46
87 11 0.11
88 2 0.02
89 14 0.15
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.36
Consensus pattern (86 bp):
AAAAGAAACAATTAAGCCCTACTTTTTTTTACTCAATTGGATACTTGACTATTCAAAATGAATCA
AAAAGACCTTCAAACTTTTTC
Found at i:11928486 original size:30 final size:28
Alignment explanation
Indices: 11928409--11928493 Score: 91
Period size: 29 Copynumber: 2.9 Consensus size: 28
11928399 TAGAAAAAGA
*
11928409 TTATAAAATAGTAAAAAATTATAAAATT
1 TTATAAAATCGTAAAAAATTATAAAATT
*
11928437 TTATAAAAATCATAAAAAA-TATATAAATT
1 TTAT-AAAATCGTAAAAAATTATA-AAATT
* *
11928466 TGTATAAAGTCGTAAGAAAATTAGAAAA
1 T-TATAAAATCGTAA-AAAATTATAAAA
11928494 AAAATGTAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
28 8 0.17
29 26 0.55
30 10 0.21
31 3 0.06
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (28 bp):
TTATAAAATCGTAAAAAATTATAAAATT
Found at i:11928760 original size:29 final size:30
Alignment explanation
Indices: 11928719--11928793 Score: 86
Period size: 28 Copynumber: 2.6 Consensus size: 30
11928709 TTTTGATTAA
*
11928719 TTTTAAATTATTTTTTCTATTTTTAGT-AAG
1 TTTTAAATTA-TTTTTATATTTTTAGTAAAG
*
11928749 TTTTAAA-TATTTTTATATTTTTATTAAAG
1 TTTTAAATTATTTTTATATTTTTAGTAAAG
*
11928778 -TTT-AATAATTTTTATA
1 TTTTAAATTATTTTTATA
11928794 ACTTTCATTG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 2 0.05
28 26 0.65
29 5 0.12
30 7 0.17
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.63
Consensus pattern (30 bp):
TTTTAAATTATTTTTATATTTTTAGTAAAG
Found at i:11930371 original size:50 final size:50
Alignment explanation
Indices: 11930315--11930421 Score: 187
Period size: 50 Copynumber: 2.1 Consensus size: 50
11930305 TTGCGTAAAA
* *
11930315 TAAAAATCAAACGACATAATCCATTATAGGATTCATCTCCCTAGGTATTT
1 TAAAAATCAAACGACAAAATCCATCATAGGATTCATCTCCCTAGGTATTT
11930365 TAAAAATCAAACGACAAAATCCATCATAGGATTCATCTCCCTAGGTATTT
1 TAAAAATCAAACGACAAAATCCATCATAGGATTCATCTCCCTAGGTATTT
*
11930415 TGAAAAT
1 TAAAAAT
11930422 TAGTTCATAC
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (50 bp):
TAAAAATCAAACGACAAAATCCATCATAGGATTCATCTCCCTAGGTATTT
Found at i:11939134 original size:6 final size:6
Alignment explanation
Indices: 11939111--11939180 Score: 61
Period size: 6 Copynumber: 11.5 Consensus size: 6
11939101 TAAGTCCGAC
* * * * * *
11939111 AAATAA AATAAAA AAATAA CAATAA AAATAT AATTAC AATTAA AAATAA
1 AAATAA AA-ATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
11939160 AAATAA AAA-ATA AAATAA AAA
1 AAATAA AAATA-A AAATAA AAA
11939181 ATTATAAAAC
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
5 1 0.02
6 45 0.87
7 6 0.12
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (6 bp):
AAATAA
Found at i:11939139 original size:12 final size:13
Alignment explanation
Indices: 11939111--11939182 Score: 67
Period size: 13 Copynumber: 5.3 Consensus size: 13
11939101 TAAGTCCGAC
11939111 AAATAA-AATAAAA
1 AAATAACAAT-AAA
11939124 AAATAACAATAAA
1 AAATAACAATAAA
*
11939137 AATATAATTACAATTAA
1 AA-AT-A--ACAATAAA
*
11939154 AAATAAAAATAAA
1 AAATAACAATAAA
11939167 AAATAA-AATAAA
1 AAATAACAATAAA
11939179 AAAT
1 AAAT
11939183 TATAAAACTA
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
12 10 0.20
13 23 0.45
14 5 0.10
15 2 0.04
16 2 0.04
17 9 0.18
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (13 bp):
AAATAACAATAAA
Found at i:11957758 original size:18 final size:18
Alignment explanation
Indices: 11957732--11957776 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
11957722 CGTTCGTTTC
11957732 CAAAACATTATTC-ATTT
1 CAAAACATTATTCAATTT
*
11957749 ACAAATCATTATTCAATTT
1 -CAAAACATTATTCAATTT
11957768 CAAAACATT
1 CAAAACATT
11957777 TTCTTATTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (18 bp):
CAAAACATTATTCAATTT
Found at i:11971151 original size:20 final size:20
Alignment explanation
Indices: 11971126--11971166 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
11971116 TTCAGAACGT
11971126 ATGCCATATTTAAAATAGTA
1 ATGCCATATTTAAAATAGTA
11971146 ATGCCATATTTAAAATAGTA
1 ATGCCATATTTAAAATAGTA
11971166 A
1 A
11971167 GAAGGAACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.34
Consensus pattern (20 bp):
ATGCCATATTTAAAATAGTA
Found at i:11974944 original size:172 final size:174
Alignment explanation
Indices: 11974658--11975003 Score: 678
Period size: 172 Copynumber: 2.0 Consensus size: 174
11974648 ATCGAATTGC
11974658 ACATTAAATCAAAGTTAATGTACAATTTTGAGATTTTTCTCAATAATTTTTTTGTTGGAGTAATG
1 ACATTAAATCAAAGTTAATGTACAATTTTGAGATTTTTCTCAATAATTTTTTTGTTGGAGTAATG
11974723 TTTTTTAGAAAATTTGACATCAACATTTTAATTAAATAATTAACAATGACAAAAATTTAGACTAG
66 TTTTTTAGAAAATTTGACATCAACATTTTAATTAAATAATTAACAATGACAAAAATTTAGACTAG
11974788 CTAATAACATTATAAAATTAAAGGAATAAAA-T-TATTAAAAAT
131 CTAATAACATTATAAAATTAAAGGAATAAAATTATATTAAAAAT
11974830 ACATTAAATCAAAGTTAATGTACAATTTTGAGATTTTTCTCAATAATTTTTTTGTTGGAGTAATG
1 ACATTAAATCAAAGTTAATGTACAATTTTGAGATTTTTCTCAATAATTTTTTTGTTGGAGTAATG
11974895 TTTTTTAGAAAATTTGACATCAACATTTTAATTAAATAATTAACAATGACAAAAATTTAGACTAG
66 TTTTTTAGAAAATTTGACATCAACATTTTAATTAAATAATTAACAATGACAAAAATTTAGACTAG
11974960 CTAATAACATTATAAAATTAAAGGAATAAAATTATATTAAAAAT
131 CTAATAACATTATAAAATTAAAGGAATAAAATTATATTAAAAAT
11975004 TAAAACATAT
Statistics
Matches: 172, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
172 161 0.94
173 1 0.01
174 10 0.06
ACGTcount: A:0.45, C:0.08, G:0.09, T:0.38
Consensus pattern (174 bp):
ACATTAAATCAAAGTTAATGTACAATTTTGAGATTTTTCTCAATAATTTTTTTGTTGGAGTAATG
TTTTTTAGAAAATTTGACATCAACATTTTAATTAAATAATTAACAATGACAAAAATTTAGACTAG
CTAATAACATTATAAAATTAAAGGAATAAAATTATATTAAAAAT
Found at i:11975005 original size:26 final size:25
Alignment explanation
Indices: 11974968--11975059 Score: 82
Period size: 26 Copynumber: 3.5 Consensus size: 25
11974958 AGCTAATAAC
11974968 ATTATAAAATTAAAGGAATAAAATTAT
1 ATTA-AAAATTAAA-GAATAAAATTAT
*
11974995 ATTAAAAATTAAA-ACATATAAATTAA
1 ATTAAAAATTAAAGA-ATA-AAATTAT
*
11975021 ATCT-AAAATTAAAGAA-ACCAAATTTT
1 AT-TAAAAATTAAAGAATA--AAATTAT
11975047 ATTAAAAATTAAA
1 ATTAAAAATTAAA
11975060 TTAAGTATAT
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
24 1 0.02
25 5 0.09
26 43 0.78
27 6 0.11
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (25 bp):
ATTAAAAATTAAAGAATAAAATTAT
Found at i:11982126 original size:138 final size:138
Alignment explanation
Indices: 11981877--11982425 Score: 496
Period size: 138 Copynumber: 4.0 Consensus size: 138
11981867 AAACTATCAT
*** * * * * * *
11981877 CAGTAAAAACAAGGTTTGTAGACGAAGAGCCGCAACCTTTAAAATAGTTAGTGAGAGCAAAGCTC
1 CAGTAAAAACAAGGTTCACAGGCGAAGAGCCACAGCCTCTAAAACAGTTAGCGAGAGCAAAGCTC
** * * * * *
11981942 CCAACAATGAAAACAAGGTTCGTAGGCAAAGAGCCGTATCCTCTAAAATAGTTAGCGAGAGAAAA
66 CCAACTGTAAAAACAAGGTTCGCAGGCAAAGAGCCGCAGCCTCTAAAATAGTTAGCGAGAGTAAA
*
11982007 GCTCTCAA
131 GCTCCCAA
* ** * * *
11982015 CAGTAAAAATAAGGTTTGCAGGTGAAGAGTCACAGCCTTTAAAACAGTTAGCGAGAGCAAAGCTC
1 CAGTAAAAACAAGGTTCACAGGCGAAGAGCCACAGCCTCTAAAACAGTTAGCGAGAGCAAAGCTC
* * * * *
11982080 CCAACTGTAAAAATAAGGCTCGCAGGCAAAGAGCCGCAGTCACTAAAATAGTTAAC--GAGTAAA
66 CCAACTGTAAAAACAAGGTTCGCAGGCAAAGAGCCGCAGCCTCTAAAATAGTTAGCGAGAGTAAA
*
11982143 GCTCCCAG
131 GCTCCCAA
* * * * ** * *
11982151 CTGTGAAAACAATGTTCACAGGTGAAGAGCCGTAGCCTCTAAAACAGTTAGCTAGAGCAAACCTC
1 CAGTAAAAACAAGGTTCACAGGCGAAGAGCCACAGCCTCTAAAACAGTTAGCGAGAGCAAAGCTC
* ** * * * * * * *
11982216 CTAGTTGCAAAAACAAGGTTTGTAGGCTATA-AGCTGCAGCCTTTAAAACAGTTAGCGAGAGTAA
66 CCAACTGTAAAAACAAGGTTCGCAGGC-AAAGAGCCGCAGCCTCTAAAATAGTTAGCGAGAGTAA
11982280 AGCTCCCAA
130 AGCTCCCAA
* * * * * *
11982289 CTA-TGAAAACAAGGTTCATAGGCGAAAAACCACAGCCTCTAATACAATTAGCGAGAGCAAAGCT
1 C-AGTAAAAACAAGGTTCACAGGCGAAGAGCCACAGCCTCTAAAACAGTTAGCGAGAGCAAAGCT
* * ** * *
11982353 CCCAGCTGTAAAAATAAGGTTCGCAGG-AGAAGATTCGCAGCCTCTAAAATAGATAGCAAGAGTA
65 CCCAACTGTAAAAACAAGGTTCGCAGGCA-AAGAGCCGCAGCCTCTAAAATAGTTAGCGAGAGTA
*
11982417 AAGTTCCCA
129 AAGCTCCCA
11982426 GTTGTAAAAC
Statistics
Matches: 327, Mismatches: 78, Indels: 12
0.78 0.19 0.03
Matches are distributed among these distances:
136 104 0.32
137 3 0.01
138 220 0.67
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.19
Consensus pattern (138 bp):
CAGTAAAAACAAGGTTCACAGGCGAAGAGCCACAGCCTCTAAAACAGTTAGCGAGAGCAAAGCTC
CCAACTGTAAAAACAAGGTTCGCAGGCAAAGAGCCGCAGCCTCTAAAATAGTTAGCGAGAGTAAA
GCTCCCAA
Found at i:11982426 original size:69 final size:69
Alignment explanation
Indices: 11981879--11982434 Score: 413
Period size: 69 Copynumber: 8.1 Consensus size: 69
11981869 ACTATCATCA
* * * * * *
11981879 GTAAAAACAAGGTTTGTA-GACGAAGAGCCGCAACCTTTAAAATAGTTAGTGAGAGCAAAGCTCC
1 GTAAAAACAAGGTTCGCAGGA-GAAGAGCCGCAGCCTCTAAAACAGTTAGCGAGAGCAAAGCTCC
* *
11981943 CAACA
65 CAGCT
* * * * * * * *
11981948 ATGAAAACAAGGTTCGTAGGCA-AAGAGCCGTATCCTCTAAAATAGTTAGCGAGAGAAAAGCTCT
1 GTAAAAACAAGGTTCGCAGG-AGAAGAGCCGCAGCCTCTAAAACAGTTAGCGAGAGCAAAGCTCC
* *
11982012 CAACA
65 CAGCT
* * * * * *
11982017 GTAAAAATAAGGTTTGCAGGTGAAGAGTCACAGCCTTTAAAACAGTTAGCGAGAGCAAAGCTCCC
1 GTAAAAACAAGGTTCGCAGGAGAAGAGCCGCAGCCTCTAAAACAGTTAGCGAGAGCAAAGCTCCC
*
11982082 AACT
66 AGCT
* * * * * * *
11982086 GTAAAAATAAGGCTCGCAGGCA-AAGAGCCGCAGTCACTAAAATAGTTAAC--GAGTAAAGCTCC
1 GTAAAAACAAGGTTCGCAGG-AGAAGAGCCGCAGCCTCTAAAACAGTTAGCGAGAGCAAAGCTCC
11982148 CAGCT
65 CAGCT
* * * * * * * *
11982153 GTGAAAACAATGTTCACAGGTGAAGAGCCGTAGCCTCTAAAACAGTTAGCTAGAGCAAACCTCCT
1 GTAAAAACAAGGTTCGCAGGAGAAGAGCCGCAGCCTCTAAAACAGTTAGCGAGAGCAAAGCTCCC
*
11982218 AGTT
66 AGCT
* * * ** * * *
11982222 GCAAAAACAAGGTTTGTAGGCTATA-AGCTGCAGCCTTTAAAACAGTTAGCGAGAGTAAAGCTCC
1 GTAAAAACAAGGTTCGCAGGAGA-AGAGCCGCAGCCTCTAAAACAGTTAGCGAGAGCAAAGCTCC
*
11982286 CAACT
65 CAGCT
* * ** * * * * * *
11982291 ATGAAAACAAGGTTCATAGGCGAAAAACCACAGCCTCTAATACAATTAGCGAGAGCAAAGCTCCC
1 GTAAAAACAAGGTTCGCAGGAGAAGAGCCGCAGCCTCTAAAACAGTTAGCGAGAGCAAAGCTCCC
11982356 AGCT
66 AGCT
* ** * * * * *
11982360 GTAAAAATAAGGTTCGCAGGAGAAGATTCGCAGCCTCTAAAATAGATAGCAAGAGTAAAGTTCCC
1 GTAAAAACAAGGTTCGCAGGAGAAGAGCCGCAGCCTCTAAAACAGTTAGCGAGAGCAAAGCTCCC
*
11982425 AGTT
66 AGCT
11982429 GTAAAA
1 GTAAAA
11982435 CCAAAGCTTG
Statistics
Matches: 378, Mismatches: 100, Indels: 18
0.76 0.20 0.04
Matches are distributed among these distances:
67 53 0.14
68 1 0.00
69 321 0.85
70 2 0.01
71 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.19
Consensus pattern (69 bp):
GTAAAAACAAGGTTCGCAGGAGAAGAGCCGCAGCCTCTAAAACAGTTAGCGAGAGCAAAGCTCCC
AGCT
Found at i:11982657 original size:54 final size:54
Alignment explanation
Indices: 11982491--11982660 Score: 173
Period size: 54 Copynumber: 3.2 Consensus size: 54
11982481 AGAGAAAACC
* * *
11982491 TCTTAAGTATGAAATAGCTCGCGGATTTGTATTCCCAGTTATGAATTTTAAAAT
1 TCTTAAGTATAAAATAGCTCACGGATTTGTATTCCCAGCTATGAATTTTAAAAT
* * * * * *** *
11982545 T-TTAAGTATAGAATAGCTCACAGG-TTTATACTCCCAACTGTGAATAAAAAAAC
1 TCTTAAGTATAAAATAGCTCAC-GGATTTGTATTCCCAGCTATGAATTTTAAAAT
* * * *
11982598 CCTTAAGTACAAAATAGCTTACGGATTCGTATTCCCAGCTATGAATTTTAAAAT
1 TCTTAAGTATAAAATAGCTCACGGATTTGTATTCCCAGCTATGAATTTTAAAAT
11982652 TCTTAAGTA
1 TCTTAAGTA
11982661 GAGAACAGTT
Statistics
Matches: 87, Mismatches: 26, Indels: 6
0.73 0.22 0.05
Matches are distributed among these distances:
53 39 0.45
54 48 0.55
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (54 bp):
TCTTAAGTATAAAATAGCTCACGGATTTGTATTCCCAGCTATGAATTTTAAAAT
Found at i:12002377 original size:95 final size:95
Alignment explanation
Indices: 12002214--12002404 Score: 364
Period size: 95 Copynumber: 2.0 Consensus size: 95
12002204 TAATCAGGCC
12002214 TATAACCAATTATACACAATTCATTCATATACTTTATTGTCCTCCTCCTCCTCTCAATCCCACAT
1 TATAACCAATTATACACAATTCATTCATATACTTTATTGTCCTCCTCCTCCTCTCAATCCCACAT
12002279 CCTTTATGTATATAACATGCTCAAATAGCA
66 CCTTTATGTATATAACATGCTCAAATAGCA
* *
12002309 TATAACCAATTATACACAGTTCATTCATATACTTTATTGTCCTCCTCCTCCTCTCCATCCCACAT
1 TATAACCAATTATACACAATTCATTCATATACTTTATTGTCCTCCTCCTCCTCTCAATCCCACAT
12002374 CCTTTATGTATATAACATGCTCAAATAGCA
66 CCTTTATGTATATAACATGCTCAAATAGCA
12002404 T
1 T
12002405 TATACATAAT
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 94 1.00
ACGTcount: A:0.30, C:0.29, G:0.05, T:0.36
Consensus pattern (95 bp):
TATAACCAATTATACACAATTCATTCATATACTTTATTGTCCTCCTCCTCCTCTCAATCCCACAT
CCTTTATGTATATAACATGCTCAAATAGCA
Found at i:12003373 original size:51 final size:50
Alignment explanation
Indices: 12003287--12003620 Score: 226
Period size: 51 Copynumber: 6.7 Consensus size: 50
12003277 TAAATTATAC
* * * * * *
12003287 CTGGTTCACATAGTAGCCTACATATAGTACTACACATGCGACCATTTTCAT
1 CTGGTACACGTAGTAGCCTGCACATAGTACTACACACGCGACCA-TATCAT
* * * *
12003338 CTGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA-AGCTAT
1 CTGGTACACGTAGTAGCCTGCACATAGTACTACACACGCGA-CCATATC-AT
* * *
12003389 CTGGT--AC---GTAGCCTGCACATAGTACTACATATGCAACCA-ATCATT
1 CTGGTACACGTAGTAGCCTGCACATAGTACTACACACGCGACCATATCA-T
* * ** *
12003434 CCGGTACATGTAGTAGCCTAG-ACATAGTACTACACACGTAACCATTTTCAT
1 CTGGTACACGTAGTAGCCT-GCACATAGTACTACACACGCGACCA-TATCAT
* * * * *
12003485 -TCGATACACATAGTAGCCTGCACATAGTACTACACACGTGATCGA-AGCTAT
1 CT-GGTACACGTAGTAGCCTGCACATAGTACTACACACGCGA-CCATATC-AT
* * *
12003536 -TCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATT
1 CT-GGTACACGTAGTAGCCTGCACATAGTACTACACACGCGACCATATCA-T
* *
12003586 CCGGTACACGTAATAGCCTGCACAT-GTACTACACA
1 CTGGTACACGTAGTAGCCTGCACATAGTACTACACA
12003621 ACCTAGCAAC
Statistics
Matches: 224, Mismatches: 41, Indels: 38
0.74 0.14 0.13
Matches are distributed among these distances:
44 1 0.00
45 9 0.04
46 25 0.11
47 1 0.00
49 13 0.06
50 54 0.24
51 114 0.51
52 7 0.03
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.26
Consensus pattern (50 bp):
CTGGTACACGTAGTAGCCTGCACATAGTACTACACACGCGACCATATCAT
Found at i:12019287 original size:42 final size:42
Alignment explanation
Indices: 12019160--12019418 Score: 319
Period size: 42 Copynumber: 6.2 Consensus size: 42
12019150 ACCGGCACTT
* * **
12019160 AGCCTGCTAGACATATAGTCTGAAA-TGTTTCACCAG-AATTA
1 AGCCTGCTAGACGTAAAGTCTGAAATTGTTTCACTGGCAA-TA
* *
12019201 AGCCTGCTAGACGTAAAGT-TTATATTGTTTCACTGGCAATA
1 AGCCTGCTAGACGTAAAGTCTGAAATTGTTTCACTGGCAATA
* *
12019242 AGCCTGCTAGACGTAAAGTCTGAAATTATTTCACTGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGAAATTGTTTCACTGGCAATA
** *
12019284 AGCCAACTAGACGTAAAGTCTGATATTGTTTCACTGGCAATA
1 AGCCTGCTAGACGTAAAGTCTGAAATTGTTTCACTGGCAATA
* * ** *
12019326 AGCCTGCTAGGCGTAAAGTCTGAAATTATTTCACCAGCATTA
1 AGCCTGCTAGACGTAAAGTCTGAAATTGTTTCACTGGCAATA
* *
12019368 AGCCTGCTAGACGTAAAGTTTGATATTGTTTCACT-GCAATA
1 AGCCTGCTAGACGTAAAGTCTGAAATTGTTTCACTGGCAATA
12019409 AGCCTGCTAG
1 AGCCTGCTAG
12019419 GCGCTAAGCC
Statistics
Matches: 186, Mismatches: 29, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
40 3 0.02
41 62 0.33
42 121 0.65
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (42 bp):
AGCCTGCTAGACGTAAAGTCTGAAATTGTTTCACTGGCAATA
Found at i:12019332 original size:84 final size:83
Alignment explanation
Indices: 12019160--12019418 Score: 396
Period size: 84 Copynumber: 3.1 Consensus size: 83
12019150 ACCGGCACTT
* * * * *
12019160 AGCCTGCTAGACATATAGTCTGAAA-TGTTTCACCAGAATTAAGCCTGCTAGACGTAAAGTTTAT
1 AGCCTGCTAGACGTAAAGTCTGAAATTATTTCACCAGCATTAAGCCTGCTAGACGTAAAGTTGAT
12019224 ATTGTTTCACTGGCAATA
66 ATTGTTTCACTGGCAATA
** **
12019242 AGCCTGCTAGACGTAAAGTCTGAAATTATTTCACTGGCATTAAGCCAACTAGACGTAAAGTCTGA
1 AGCCTGCTAGACGTAAAGTCTGAAATTATTTCACCAGCATTAAGCCTGCTAGACGTAAAGT-TGA
12019307 TATTGTTTCACTGGCAATA
65 TATTGTTTCACTGGCAATA
*
12019326 AGCCTGCTAGGCGTAAAGTCTGAAATTATTTCACCAGCATTAAGCCTGCTAGACGTAAAGTTTGA
1 AGCCTGCTAGACGTAAAGTCTGAAATTATTTCACCAGCATTAAGCCTGCTAGACGTAAAG-TTGA
12019391 TATTGTTTCACT-GCAATA
65 TATTGTTTCACTGGCAATA
12019409 AGCCTGCTAG
1 AGCCTGCTAG
12019419 GCGCTAAGCC
Statistics
Matches: 160, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
82 23 0.14
83 45 0.28
84 91 0.57
85 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (83 bp):
AGCCTGCTAGACGTAAAGTCTGAAATTATTTCACCAGCATTAAGCCTGCTAGACGTAAAGTTGAT
ATTGTTTCACTGGCAATA
Found at i:12022773 original size:27 final size:27
Alignment explanation
Indices: 12022743--12022803 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
12022733 TTGGAGTCAA
* *
12022743 TAAACATGTGATAGTCCGCC-AGGACAG
1 TAAACACGGGATAGTCCGCCGA-GACAG
*
12022770 TAAACACGGGATAGTCCGTCGAGACAG
1 TAAACACGGGATAGTCCGCCGAGACAG
12022797 TAAACAC
1 TAAACAC
12022804 TGGTTCATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.16
Consensus pattern (27 bp):
TAAACACGGGATAGTCCGCCGAGACAG
Found at i:12024815 original size:11 final size:11
Alignment explanation
Indices: 12024801--12024825 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
12024791 CATGTATAAA
12024801 ACATTTTTTTT
1 ACATTTTTTTT
12024812 ACATTTTTTTT
1 ACATTTTTTTT
12024823 ACA
1 ACA
12024826 AAACTAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (11 bp):
ACATTTTTTTT
Found at i:12027776 original size:20 final size:20
Alignment explanation
Indices: 12027734--12027777 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
12027724 TCATATATGA
* *
12027734 AATTTAAGAAAATAACTCTT
1 AATTTAAGAAAATAACACGT
12027754 AATTTAAAGAAAATAA-ACGT
1 AATTT-AAGAAAATAACACGT
12027774 AATT
1 AATT
12027778 ATCTAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.32
Consensus pattern (20 bp):
AATTTAAGAAAATAACACGT
Found at i:12029963 original size:12 final size:12
Alignment explanation
Indices: 12029946--12029971 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
12029936 CAAAACAGGC
12029946 TTTTAGCGGCGT
1 TTTTAGCGGCGT
12029958 TTTTAGCGGCGT
1 TTTTAGCGGCGT
12029970 TT
1 TT
12029972 GGATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:12030187 original size:73 final size:72
Alignment explanation
Indices: 12030040--12030211 Score: 229
Period size: 73 Copynumber: 2.4 Consensus size: 72
12030030 AAAATAAGCA
* * ** *
12030040 TTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAATGACGTCATTTACCGAGCTTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACACCATTTACCAAGCTTT
12030105 CAGGGAT
66 CAGGGAT
* * *
12030112 TTAGCGGCGTTTTTG-GAAAAGCGCCGCAAAAGAACCTAAGCCCAACGACACCGTTTTCTAAGCT
1 TTAGCGGCGTTTTTGAG-AAAGCGCCGCAAAA-AACCTAAGCCCAACGACACCATTTACCAAGCT
*
12030176 TTCGGGGAT
64 TTCAGGGAT
*
12030185 TTAGCGGCGTTTTTAAGAAAGCGCCGC
1 TTAGCGGCGTTTTTGAGAAAGCGCCGC
12030212 TAATGCTCAG
Statistics
Matches: 87, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
71 1 0.01
72 28 0.32
73 57 0.66
74 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (72 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACACCATTTACCAAGCTTT
CAGGGAT
Found at i:12030406 original size:113 final size:114
Alignment explanation
Indices: 12030104--12030438 Score: 546
Period size: 114 Copynumber: 2.9 Consensus size: 114
12030094 TACCGAGCTT
* * * *
12030104 TCAGGGATTTAGCGGCGTTTTTGGAAAAGCGCCGCAAAAGAACCTAAGCCCAACGACACCGTTTT
1 TCAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTT
* **
12030169 CTAAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGC
66 CTGAGCTTTCTTGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGC
* *
12030218 TCAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGACTAACGACGCCGTTTT
1 TCAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTT
12030283 CTGAGCTTTCTTGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGC
66 CTGAGCTTTCTTGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGC
*
12030332 TCAGGGCTTTAGC-GTGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTT
1 TCAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTT
* **
12030396 CTGAGCTTTCTTGGATTGAGCGGCGTTTTTGGGAAAGCGCCGC
66 CTGAGCTTTCTTGGATTTAGCGGCGTTTTTAAGAAAGCGCCGC
12030439 AAAAAAACCT
Statistics
Matches: 206, Mismatches: 15, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
113 88 0.43
114 118 0.57
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (114 bp):
TCAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTT
CTGAGCTTTCTTGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGC
Found at i:12030452 original size:186 final size:186
Alignment explanation
Indices: 12030228--12030624 Score: 749
Period size: 186 Copynumber: 2.1 Consensus size: 186
12030218 TCAGGGCTTT
* *
12030228 AGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGACTAACGACGCCGTTTTCTGAGCTTTC
1 AGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGACCAACGACGCCGTTTACTGAGCTTTC
12030293 TTGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGTGTTTTTGGGAA
66 TTGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGTGTTTTTGGGAA
*
12030358 AGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCTTGGATTG
131 AGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCTTGGATTG
12030414 AGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGACCAACGACGCCGTTTACTGAGCTTTC
1 AGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGACCAACGACGCCGTTTACTGAGCTTTC
12030479 TTGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGTGTTTTTGGGAA
66 TTGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGTGTTTTTGGGAA
12030544 AGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCTTGGATTG
131 AGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCTTGGATTG
**
12030600 AGCGGCGTTTTTAAGAAAGCGCCGC
1 AGCGGCGTTTTTGGGAAAGCGCCGC
12030625 TAATGCTCAG
Statistics
Matches: 206, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
186 206 1.00
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (186 bp):
AGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGACCAACGACGCCGTTTACTGAGCTTTC
TTGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGTGTTTTTGGGAA
AGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCTTGGATTG
Found at i:12030466 original size:73 final size:73
Alignment explanation
Indices: 12030347--12030511 Score: 285
Period size: 73 Copynumber: 2.3 Consensus size: 73
12030337 GCTTTAGCGT
* *
12030347 GTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCTTGGAT
1 GTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGACCAACGACGCCGTTTACTGAGCTTTCTTGGAT
12030412 TGAGCGGC
66 TGAGCGGC
12030420 GTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGACCAACGACGCCGTTTACTGAGCTTTCTTGGAT
1 GTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGACCAACGACGCCGTTTACTGAGCTTTCTTGGAT
*
12030485 TTAGCGGC
66 TGAGCGGC
**
12030493 GTTTTTAAGAAAGCGCCGC
1 GTTTTTGGGAAAGCGCCGC
12030512 TAATGCTCAG
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 87 1.00
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (73 bp):
GTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGACCAACGACGCCGTTTACTGAGCTTTCTTGGAT
TGAGCGGC
Found at i:12030618 original size:113 final size:114
Alignment explanation
Indices: 12030414--12030855 Score: 665
Period size: 113 Copynumber: 3.9 Consensus size: 114
12030404 TCTTGGATTG
*
12030414 AGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGACCAACGACGCCGTTTACTGAGCTTTC
1 AGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGACCAACGACGCCGTTTTCTGAGCTTTC
*
12030479 TTGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTT
66 TTGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTT
* * *
12030528 AGC-GTGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTC
1 AGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGACCAACGACGCCGTTTTCTGAGCTTTC
* *
12030592 TTGGATTGAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTT
66 TTGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTT
* *
12030641 AGCGGCGTTTTTGGGAAAGCGCTGC-AAAAAACTTAAGACCAACGACGCCGTTTTCTGAGCTTTC
1 AGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGACCAACGACGCCGTTTTCTGAGCTTTC
*
12030705 TTGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTT
66 TTGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTT
** * *
12030754 AGCGGCGTTTTTGATAAAGCGCCGCAAAAAAAAAAACCTAAGCCCAACGATGCCGTTTTCTGAGC
1 AGCGGCGTTTTTGGGAAAGCGCCGC----AAAAAAACCTAAGACCAACGACGCCGTTTTCTGAGC
** *
12030819 TTTCGGGGATTTAGCGGCATTTTT-GGAAAAGCGCCGC
62 TTTCTTGGATTTAGCGGCATTTTTAAG-AAAGCGCCGC
12030856 AAAAAAACCT
Statistics
Matches: 299, Mismatches: 22, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
113 212 0.71
114 22 0.07
117 1 0.00
118 64 0.21
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (114 bp):
AGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGACCAACGACGCCGTTTTCTGAGCTTTC
TTGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTT
Found at i:12030892 original size:73 final size:74
Alignment explanation
Indices: 12030747--12030928 Score: 260
Period size: 73 Copynumber: 2.4 Consensus size: 74
12030737 CTAATGCTCA
* * *
12030747 GGGATTTAGCGGCGTTTTTGATAAAGCGCCGCAAAAAAAAAAACCTAAGCCCAACGATGCCGTTT
1 GGGATTTAGCGGCATTTTTGAGAAAGCGCCGC---AAAAAAAACCTAAGCCCAACGACGCCGTTT
12030812 TCTGAGCTTTCG
63 TCTGAGCTTTCG
12030824 GGGATTTAGCGGCATTTTTG-GAAAAGCGCCGC-AAAAAAACCTAAGCCCAACGACGCCGTTTTC
1 GGGATTTAGCGGCATTTTTGAG-AAAGCGCCGCAAAAAAAACCTAAGCCCAACGACGCCGTTTTC
*
12030887 TGAGCTTTCT
65 TGAGCTTTCG
* *
12030897 TGGATTTAGCGGCATTTTTAAGAAAGCGCCGC
1 GGGATTTAGCGGCATTTTTGAGAAAGCGCCGC
12030929 TAATGCTCAG
Statistics
Matches: 97, Mismatches: 6, Indels: 8
0.87 0.05 0.07
Matches are distributed among these distances:
73 67 0.69
74 1 0.01
77 29 0.30
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (74 bp):
GGGATTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAAAACCTAAGCCCAACGACGCCGTTTTCT
GAGCTTTCG
Found at i:12030893 original size:191 final size:186
Alignment explanation
Indices: 12030638--12031042 Score: 686
Period size: 191 Copynumber: 2.2 Consensus size: 186
12030628 TGCTCAGGGC
* * *
12030638 TTTAGCGGCGTTTTTGGGAAAGCGCTGCAAAAAACTTAAGACCAACGACGCCGTTTTCTGAGCTT
1 TTTAGCGGCGTTTTTGGAAAAGCGCCGCAAAAAACCTAAGACCAACGACGCCGTTTTCTGAGCTT
12030703 TCTTGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTT-G
66 TCTTGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTTGG
12030767 ATAAAGCGCCGCAAAAAAAAAAACCTAAGCCCAACGATGCCGTTTTCTGAGCTTTCGGGGA
131 A-AAAGCGCCGC----AAAAAAACCTAAGCCCAACGATGCCGTTTTCTGAGCTTTCGGGGA
* *
12030828 TTTAGCGGCATTTTTGGAAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGGAAAAGCGCCGC-AAAAAACCTAAGACCAACGACGCCGTTTTCTGAGCT
12030893 TTCTTGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTTG
65 TTCTTGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTTG
* *
12030958 GAATAGCGCCGCAAAAAAACCTAAGCCCAACGATGCCGTTTTTTGAGCTTTCGGGGA
130 GAAAAGCGCCGCAAAAAAACCTAAGCCCAACGATGCCGTTTTCTGAGCTTTCGGGGA
12031015 TTTAGCGGCGTTTTTGGAAAAGCGCCGC
1 TTTAGCGGCGTTTTTGGAAAAGCGCCGC
12031043 TAAATTTTTT
Statistics
Matches: 205, Mismatches: 8, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
187 71 0.35
190 25 0.12
191 107 0.52
192 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (186 bp):
TTTAGCGGCGTTTTTGGAAAAGCGCCGCAAAAAACCTAAGACCAACGACGCCGTTTTCTGAGCTT
TCTTGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTTGG
AAAAGCGCCGCAAAAAAACCTAAGCCCAACGATGCCGTTTTCTGAGCTTTCGGGGA
Found at i:12030969 original size:114 final size:114
Alignment explanation
Indices: 12030824--12031045 Score: 356
Period size: 114 Copynumber: 1.9 Consensus size: 114
12030814 TGAGCTTTCG
12030824 GGGATTTAGCGGCATTTTTGGAAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTG
1 GGGATTTAGCGGCATTTTTGGAAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTG
**
12030889 AGCTTTCTTGGATTTAGCGGCATTTTTA-AGAAAGCGCCGCTAATGCTCA
66 AGCTTTCGGGGATTTAGCGGCATTTTTAGA-AAAGCGCCGCTAATGCTCA
* * * *
12030938 GGGATTTAGCGGCGTTTTTGGAATAGCGCCGCAAAAAAACCTAAGCCCAACGATGCCGTTTTTTG
1 GGGATTTAGCGGCATTTTTGGAAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTG
* *
12031003 AGCTTTCGGGGATTTAGCGGCGTTTTTGGAAAAGCGCCGCTAA
66 AGCTTTCGGGGATTTAGCGGCATTTTTAGAAAAGCGCCGCTAA
12031046 ATTTTTTTTA
Statistics
Matches: 99, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
114 98 0.99
115 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.27
Consensus pattern (114 bp):
GGGATTTAGCGGCATTTTTGGAAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTG
AGCTTTCGGGGATTTAGCGGCATTTTTAGAAAAGCGCCGCTAATGCTCA
Found at i:12031343 original size:142 final size:142
Alignment explanation
Indices: 12031186--12031987 Score: 1579
Period size: 142 Copynumber: 5.6 Consensus size: 142
12031176 ATTAAAATAT
12031186 TGTTTTTAGCAAAAATAAATCAATGTATAAAAAAATAAAATAAAAAAATTTTTAGCATAGCAAAA
1 TGTTTTTAGCAAAAATAAATCAATGTATAAAAAAATAAAATAAAAAAATTTTTAGCATAGCAAAA
12031251 CGGTGTCATTTTGTTCAAAATGAAATAAGTTTTTGCGGCGTTTTTATAAAAATGCCGCAAAAGAA
66 CGGTGTCATTTTGTTCAAAATGAAATAAGTTTTTGCGGCGTTTTTATAAAAATGCCGCAAAAGAA
12031316 AAGCAATAGCGG
131 AAGCAATAGCGG
12031328 TGTTTTTAGCAAAAATAAATCAATGTATAAAAAAATAAAATAAAAAAATTTTTAGCATAGCAAAA
1 TGTTTTTAGCAAAAATAAATCAATGTATAAAAAAATAAAATAAAAAAATTTTTAGCATAGCAAAA
12031393 CGGTGTCATTTTGTTCAAAATGAAATAAGTTTTTGCGGCGTTTTTATAAAAATGCCGCAAAAGAA
66 CGGTGTCATTTTGTTCAAAATGAAATAAGTTTTTGCGGCGTTTTTATAAAAATGCCGCAAAAGAA
12031458 AAGCAATAGCGG
131 AAGCAATAGCGG
12031470 TGTTTTTAGCAAAAATAAATCAATGTATAAAAAAATAAAATAAAAAAATTTTTAGCATAGCAAAA
1 TGTTTTTAGCAAAAATAAATCAATGTATAAAAAAATAAAATAAAAAAATTTTTAGCATAGCAAAA
12031535 CGGTGTCATTTTGTTCAAAATGAAATAAGTTTTTGCGGCGTTTTTATAAAAATGCCGCAAAAGAA
66 CGGTGTCATTTTGTTCAAAATGAAATAAGTTTTTGCGGCGTTTTTATAAAAATGCCGCAAAAGAA
12031600 AAGCAATAGCGG
131 AAGCAATAGCGG
12031612 TGTTTTTAGCAAAAATAAATCAATGTATAAAAAAATAAAATAAAAAAATTTTTAGCATAGCAAAA
1 TGTTTTTAGCAAAAATAAATCAATGTATAAAAAAATAAAATAAAAAAATTTTTAGCATAGCAAAA
12031677 CGGTGTCATTTTGTTCAAAATGAAATAAGTTTTTGCGGCGTTTTTATAAAAATGCCGCAAAAGAA
66 CGGTGTCATTTTGTTCAAAATGAAATAAGTTTTTGCGGCGTTTTTATAAAAATGCCGCAAAAGAA
12031742 AAGCAATAGCGG
131 AAGCAATAGCGG
12031754 TGTTTTTAGCAAAAATAAATCAATGTATAAAAAAATAAAATAAAAAAATTTTTAGCATAGCAAAA
1 TGTTTTTAGCAAAAATAAATCAATGTATAAAAAAATAAAATAAAAAAATTTTTAGCATAGCAAAA
12031819 CGGTGTCATTTTGTTCAAAATGAAATAAGTTTTTGCGGCGTTTTTATAAAAATGCCGCAAAAGAA
66 CGGTGTCATTTTGTTCAAAATGAAATAAGTTTTTGCGGCGTTTTTATAAAAATGCCGCAAAAGAA
12031884 AAGCAATAGCGG
131 AAGCAATAGCGG
12031896 TGTTTTTAGCAAAAATAAATCAATGTATATAAAAAATAAAAT-AAAAAATTTTTAGCATAGCAAA
1 TGTTTTTAGCAAAAATAAATCAATGTATA-AAAAAATAAAATAAAAAAATTTTTAGCATAGCAAA
*
12031960 ACGGTATCATTTTGTTCAAAATGAAATA
65 ACGGTGTCATTTTGTTCAAAATGAAATA
12031988 GCGGCGTTTT
Statistics
Matches: 658, Mismatches: 1, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
142 646 0.98
143 12 0.02
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.30
Consensus pattern (142 bp):
TGTTTTTAGCAAAAATAAATCAATGTATAAAAAAATAAAATAAAAAAATTTTTAGCATAGCAAAA
CGGTGTCATTTTGTTCAAAATGAAATAAGTTTTTGCGGCGTTTTTATAAAAATGCCGCAAAAGAA
AAGCAATAGCGG
Found at i:12032051 original size:245 final size:248
Alignment explanation
Indices: 12031764--12032248 Score: 667
Period size: 245 Copynumber: 1.9 Consensus size: 248
12031754 TGTTTTTAGC
* ** * *
12031764 AAAAATAAATCAATGTATAAAAAAATAAAATAAAAAAATTTTTAGCATAGCAAAACGGTGTCATT
1 AAAAATAAATCAATGTATAAAAAAACAAAATAAAAAAATTTTTAAAACAGCAAAACGGCGTCATT
* * ** *
12031829 TTGTTCAAAATGAAATAAGTTTTTGCGGCGTTTTTAT-AAAAATGCCGCAAAAGAAAAGCAATAG
66 TTGTTCAAAAT-AAAAAAATTTTTGCGGCGTTTCAATGAAAAACGCCGCAAAAGAAAAGCAATAG
12031893 CGG-TGTTTT-T-A-GCAAAAA-TAAATCAATGTATATAAAAAATAAAATAAAAAATTTTTAGCA
130 CGGATGTTTTATAACGCAAAAAGTAAATCAAT-T-TATAAAAAATAAAATAAAAAATTTTTAGCA
12031953 TAGCAAAACGGTATCATTTTGTTCAAAATGAAATAGCGGCGTTTTTAAATGCCGCA
193 TAGCAAAACGGTATCATTTTGTTCAAAATGAAATAGCGGCGTTTTTAAATGCCGCA
* * *
12032009 AAAAATAAATTAATTTATAAAAAAACAAAATAAAAAAATTTTTAAAACAGCAAAACGGCGTCGTT
1 AAAAATAAATCAATGTATAAAAAAACAAAATAAAAAAATTTTTAAAACAGCAAAACGGCGTCATT
* **
12032074 TTGTTCAAAATAAAAAAATTTTTGCGGCGTTTCAATGAAAAACGCCGCTAAAGGTAAGCAATAGC
66 TTGTTCAAAATAAAAAAATTTTTGCGGCGTTTCAATGAAAAACGCCGCAAAAGAAAAGCAATAGC
*
12032139 GGCATTTTTTATCAAAACGCCGCAAAAAGTAAATCAATTTATAAAAAATAAAATAAAAAATTTTT
131 GG-ATGTTTTAT---AA---CGCAAAAAGTAAATCAATTTATAAAAAATAAAATAAAAAATTTTT
* *
12032204 AGCATAGTAAAACGGTGTCATTTTGTTCAAAATGAAATAGCGGCG
189 AGCATAGCAAAACGGTATCATTTTGTTCAAAATGAAATAGCGGCG
12032249 CAAAAAATAA
Statistics
Matches: 208, Mismatches: 19, Indels: 16
0.86 0.08 0.07
Matches are distributed among these distances:
244 21 0.10
245 94 0.45
247 5 0.02
248 1 0.00
252 1 0.00
255 69 0.33
256 8 0.04
257 9 0.04
ACGTcount: A:0.47, C:0.11, G:0.14, T:0.28
Consensus pattern (248 bp):
AAAAATAAATCAATGTATAAAAAAACAAAATAAAAAAATTTTTAAAACAGCAAAACGGCGTCATT
TTGTTCAAAATAAAAAAATTTTTGCGGCGTTTCAATGAAAAACGCCGCAAAAGAAAAGCAATAGC
GGATGTTTTATAACGCAAAAAGTAAATCAATTTATAAAAAATAAAATAAAAAATTTTTAGCATAG
CAAAACGGTATCATTTTGTTCAAAATGAAATAGCGGCGTTTTTAAATGCCGCA
Found at i:12038460 original size:43 final size:42
Alignment explanation
Indices: 12038343--12038596 Score: 228
Period size: 43 Copynumber: 6.0 Consensus size: 42
12038333 CATGATATGC
* * * * * *
12038343 TTTTAGCGGCGTTTTTGCG-AGAAGTGTCGCTAAAGGT-TTGT
1 TTTTAGCGGCGTTTGTG-GAAAAAGCGCCGCTAAAGGTCATGG
12038384 TTTATAGCGGCGTTTGT-GATAAACAGCGCCGCTAAAGGTCATGG
1 TTT-TAGCGGCGTTTGTGGA-AAA-AGCGCCGCTAAAGGTCATGG
* * * *
12038428 TTTCTAGCGGCGTTTGTGGGAAAAGTGTCGCTAAAGGTTATGG
1 TTT-TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGG
* * * *
12038471 TCTATAGCGACGTTTGTGGAAAAAGCGCTGCTAAAGGTTATGG
1 T-TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGG
* * *
12038514 TCTTTAGCGGCGTTTGTGTAAAAAGCGCCGCTAATGGTCATGAC
1 T-TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATG-G
* * *
12038558 CTTTAGCGGCGTTTGT-GAAGAAGCGCCGTTAAAGGTCAT
1 TTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCAT
12038597 AACCTTTAGC
Statistics
Matches: 176, Mismatches: 29, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
40 1 0.01
41 3 0.02
42 33 0.19
43 116 0.66
44 22 0.12
45 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.31
Consensus pattern (42 bp):
TTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGG
Found at i:12038498 original size:86 final size:85
Alignment explanation
Indices: 12038344--12038596 Score: 285
Period size: 86 Copynumber: 3.0 Consensus size: 85
12038334 ATGATATGCT
* * * *
12038344 TTTAGCGGCGTTTTTGCGAGAAGTGTCGCTAAAGGTT-TGTTTTATAGCGGCGTTTGTGATAAAC
1 TTTAGCGGCGTTTGTGCGAAAAGTGTCGCTAAAGGTTATGATCTATAGCGGCGTTTGTGA-AAA-
12038408 AGCGCCGCTAAAGGTCATGGT-
64 AGCGCCGCTAAAGGTCATGGTC
* * *
12038429 TTCTAGCGGCGTTTGTGGGAAAAGTGTCGCTAAAGGTTATGGTCTATAGCGACGTTTGTGGAAAA
1 TT-TAGCGGCGTTTGTGCGAAAAGTGTCGCTAAAGGTTATGATCTATAGCGGCGTTTGT-GAAAA
* *
12038494 AGCGCTGCTAAAGGTTATGGTC
64 AGCGCCGCTAAAGGTCATGGTC
** * * * * * * *
12038516 TTTAGCGGCGTTTGTGTAAAAAGCGCCGCTAATGGTCATGACCTTTAGCGGCGTTTGTGAAGAAG
1 TTTAGCGGCGTTTGTGCGAAAAGTGTCGCTAAAGGTTATGATCTATAGCGGCGTTTGTGAAAAAG
*
12038581 CGCCGTTAAAGGTCAT
66 CGCCGCTAAAGGTCAT
12038597 AACCTTTAGC
Statistics
Matches: 142, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
85 21 0.15
86 97 0.68
87 22 0.15
88 2 0.01
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.30
Consensus pattern (85 bp):
TTTAGCGGCGTTTGTGCGAAAAGTGTCGCTAAAGGTTATGATCTATAGCGGCGTTTGTGAAAAAG
CGCCGCTAAAGGTCATGGTC
Found at i:12040930 original size:21 final size:21
Alignment explanation
Indices: 12040889--12040930 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
12040879 TATGTTTTGA
*
12040889 CATGTTTTGAGCTTGTTTAAT
1 CATGTTTTGAGCTTGTATAAT
12040910 CATGTTTTGAG-TTGGTATAAT
1 CATGTTTTGAGCTT-GTATAAT
12040931 TGATGGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.21, C:0.07, G:0.21, T:0.50
Consensus pattern (21 bp):
CATGTTTTGAGCTTGTATAAT
Found at i:12045421 original size:20 final size:20
Alignment explanation
Indices: 12045396--12045448 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
12045386 TAATAACGGA
*
12045396 AACTTATCCATATCAATAGT
1 AACTTATCCATATCAACAGT
* *
12045416 AACTTATACATACCAACAGT
1 AACTTATCCATATCAACAGT
12045436 AA-TTCATCCATAT
1 AACTT-ATCCATAT
12045449 AATTACATAG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 2 0.07
20 25 0.93
ACGTcount: A:0.42, C:0.23, G:0.04, T:0.32
Consensus pattern (20 bp):
AACTTATCCATATCAACAGT
Found at i:12045674 original size:23 final size:24
Alignment explanation
Indices: 12045637--12045711 Score: 75
Period size: 23 Copynumber: 3.2 Consensus size: 24
12045627 AATCTCTATC
* *
12045637 GAGCTGAAACGGTAAGCTCCGT-A
1 GAGCTGAAATGGTAAGCTCCATAA
* *
12045660 GAGCTGAAATAGTAAACT-CATAA
1 GAGCTGAAATGGTAAGCTCCATAA
* *
12045683 GAGCTGAATTGGTAAGCT-CATAC
1 GAGCTGAAATGGTAAGCTCCATAA
12045706 GAGCTG
1 GAGCTG
12045712 TGGTGAGTCC
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
22 2 0.05
23 41 0.95
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.21
Consensus pattern (24 bp):
GAGCTGAAATGGTAAGCTCCATAA
Found at i:12052778 original size:14 final size:14
Alignment explanation
Indices: 12052734--12052780 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
12052724 AAATTCATTC
12052734 ATCAATTCATGTAA
1 ATCAATTCATGTAA
*
12052748 ATCATATATCAT-AAA
1 ATCA-AT-TCATGTAA
*
12052763 ATCAATCCATGTAA
1 ATCAATTCATGTAA
12052777 ATCA
1 ATCA
12052781 TGTATTTCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
13 3 0.11
14 12 0.44
15 8 0.30
16 4 0.15
ACGTcount: A:0.47, C:0.17, G:0.04, T:0.32
Consensus pattern (14 bp):
ATCAATTCATGTAA
Found at i:12052927 original size:20 final size:19
Alignment explanation
Indices: 12052879--12052927 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
12052869 TAACGAAAAT
*
12052879 TTATCCATATCAATAGTAA
1 TTATCCATACCAATAGTAA
*
12052898 CTTATACATACCAATAGTAA
1 -TTATCCATACCAATAGTAA
12052918 TTCATCCATA
1 TT-ATCCATA
12052928 TAATTACATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.41, C:0.20, G:0.04, T:0.35
Consensus pattern (19 bp):
TTATCCATACCAATAGTAA
Found at i:12053143 original size:23 final size:23
Alignment explanation
Indices: 12053092--12053181 Score: 83
Period size: 23 Copynumber: 3.8 Consensus size: 23
12053082 AGCTCATTCC
* *
12053092 GAGCTGATGAACGGTAAGCTCTATC
1 GAGCTGA--AACGGTAAGCTCCATA
* *
12053117 GAGCTAAAACGGTAAGCTCCGTA
1 GAGCTGAAACGGTAAGCTCCATA
** *
12053140 GAGCTGAAATAGTAAACT-CATAA
1 GAGCTGAAACGGTAAGCTCCAT-A
12053163 GAGCTGAAACGGTAAGCTC
1 GAGCTGAAACGGTAAGCTC
12053182 ATACAAGCTG
Statistics
Matches: 51, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
22 2 0.04
23 43 0.84
25 6 0.12
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.20
Consensus pattern (23 bp):
GAGCTGAAACGGTAAGCTCCATA
Found at i:12053190 original size:23 final size:22
Alignment explanation
Indices: 12053101--12053191 Score: 74
Period size: 23 Copynumber: 4.0 Consensus size: 22
12053091 CGAGCTGATG
** *
12053101 AACGGTAAGCTCTATCGAGCTAA
1 AACGGTAAGCTC-ATAAAGCTGA
* *
12053124 AACGGTAAGCTCCGTAGAGCTGA
1 AACGGTAAGCT-CATAAAGCTGA
** *
12053147 AATAGTAAACTCATAAGAGCTGA
1 AACGGTAAGCTCATAA-AGCTGA
12053170 AACGGTAAGCTCATACAAGCTG
1 AACGGTAAGCTCATA-AAGCTG
12053192 TGGTGAGTTC
Statistics
Matches: 54, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
22 3 0.06
23 49 0.91
24 2 0.04
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (22 bp):
AACGGTAAGCTCATAAAGCTGA
Found at i:12053712 original size:125 final size:125
Alignment explanation
Indices: 12053490--12053827 Score: 568
Period size: 125 Copynumber: 2.7 Consensus size: 125
12053480 TAAGAGACGC
*
12053490 CGTTTAACTTTGACCTGTAGTGGCACTAGCGGCGTTTATCTACAAACGCCGGTAAAGATCTAGCA
1 CGTTTAACTTTGACCTGTAGTGGCACTAGCGGCGTTTATCTAAAAACGCCGGTAAAGATCTAGCA
* *
12053555 TTTGCGACGCTTATCAAAAAACGCCACTAATGCTCCGCAAAGAATTAAGTAGAACGCCGT
66 TTTGCGACGCTTATCAAAAAACGCCACTAATGCTCCGCAAAGAATTAAGCAGAACGCAGT
* ** * *
12053615 CGTTTAACTTTGACCTGTAGTGGCATTAGCGGCGTTTATCTGGAAACGCCAGTAAAGATCTAGCT
1 CGTTTAACTTTGACCTGTAGTGGCACTAGCGGCGTTTATCTAAAAACGCCGGTAAAGATCTAGCA
*
12053680 TTTGCGACGCTTATCAAAAAACGCCACTAATGCTCCGCAAATAATTAAGCAGAACGCAGT
66 TTTGCGACGCTTATCAAAAAACGCCACTAATGCTCCGCAAAGAATTAAGCAGAACGCAGT
*
12053740 CGTTTAACTTTGACCTGTAGTGGCACTAGCGGCGTTTATCTAAAAACGTCGGTAAAGATCTAGCA
1 CGTTTAACTTTGACCTGTAGTGGCACTAGCGGCGTTTATCTAAAAACGCCGGTAAAGATCTAGCA
* *
12053805 TTTGCGGCTCTTATCAAAAAACG
66 TTTGCGACGCTTATCAAAAAACG
12053828 TTGCTAAAGA
Statistics
Matches: 197, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
125 197 1.00
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (125 bp):
CGTTTAACTTTGACCTGTAGTGGCACTAGCGGCGTTTATCTAAAAACGCCGGTAAAGATCTAGCA
TTTGCGACGCTTATCAAAAAACGCCACTAATGCTCCGCAAAGAATTAAGCAGAACGCAGT
Found at i:12053890 original size:166 final size:165
Alignment explanation
Indices: 12053696--12054326 Score: 816
Period size: 166 Copynumber: 3.8 Consensus size: 165
12053686 ACGCTTATCA
*
12053696 AAAAACGCCACTAATGCTCCGCAAATAATTAAGCAGAACGCAGTCGTTTAACTTTGACCTGTAGT
1 AAAAATGCCACTAATGCTCCGCAAATAATTAAGCAGAACGC-GTCGTTTAACTTTGACCTGTAGT
* * *
12053761 GGCACTAGCGGCGTTTATCTAAAAACGTCGGTAAAGATCTAGCATTTGCGGCTCTTATCAAAAAA
65 GGCACTAGCGGCGTTTATATAAAAACGCCGGTAAAGATCTAGCATTTGCGGCGCTTATCAAAAAA
* * *
12053826 CGTTGCTAAAGATCGGTATATTAGCAGCGCTAACAG
130 CGTCGCTAAAGATCGGTACATTAGCGGCGCTAACAG
* * * *
12053862 AAAAATGCCACTAATGCTCCGTAAATAATTGAGCAGAACATCGTCGTTTAACTTTGACCTATAGT
1 AAAAATGCCACTAATGCTCCGCAAATAATTAAGCAGAAC-GCGTCGTTTAACTTTGACCTGTAGT
* * * * *
12053927 GGCAGTAGTGGCGTTTATCTGAAAATGCCGGTAAAGATCTAGCATTTGCGGCGCTTATCAAAAAA
65 GGCACTAGCGGCGTTTATATAAAAACGCCGGTAAAGATCTAGCATTTGCGGCGCTTATCAAAAAA
* * *
12053992 TGTCGCTAGAGATTGGTACATTAGCGGCGCTAACAG
130 CGTCGCTAAAGATCGGTACATTAGCGGCGCTAACAG
* * * ** *
12054028 AAAAATGCCAGTAATGCTCCGCAAATAATTAAGAAGAACGCCGTTGTTTAACTTTGATAATATTA
1 AAAAATGCCACTAATGCTCCGCAAATAATTAAGCAGAACG-CGTCGTTTAACTTTGA-CCT-GTA
* * * * * * * *
12054093 GTGGTAGTAGCAGTGTTTATATGAAAACACTGGTAAAGATCTAGCATTTGCGGCGCTTATCAACA
63 GTGGCACTAGCGGCGTTTATATAAAAACGCCGGTAAAGATCTAGCATTTGCGGCGCTTATCAAAA
* *
12054158 AATGCCGCTAAAGATCGGTACATTAGCGGCGCTAGA-A-
128 AACGTCGCTAAAGATCGGTACATTAGCGGCGCTA-ACAG
*
12054195 AAAAATGCCACTATTGCTCCGCAAATAATTAAGCAGAACGTCGTCGTTTAACTTTGACCTGTAGT
1 AAAAATGCCACTAATGCTCCGCAAATAATTAAGCAGAACG-CGTCGTTTAACTTTGACCTGTAGT
* ** * *
12054260 GACACTAGCGGCGTTTATATGGAAACACCGGTAAAGATCTAGCATTTGCGGCGTTTATCAAAAAA
65 GGCACTAGCGGCGTTTATATAAAAACGCCGGTAAAGATCTAGCATTTGCGGCGCTTATCAAAAAA
12054325 CG
130 CG
12054327 CCACTAATCC
Statistics
Matches: 404, Mismatches: 56, Indels: 11
0.86 0.12 0.02
Matches are distributed among these distances:
165 61 0.15
166 198 0.49
167 54 0.13
168 90 0.22
169 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.26
Consensus pattern (165 bp):
AAAAATGCCACTAATGCTCCGCAAATAATTAAGCAGAACGCGTCGTTTAACTTTGACCTGTAGTG
GCACTAGCGGCGTTTATATAAAAACGCCGGTAAAGATCTAGCATTTGCGGCGCTTATCAAAAAAC
GTCGCTAAAGATCGGTACATTAGCGGCGCTAACAG
Found at i:12054312 original size:333 final size:332
Alignment explanation
Indices: 12053696--12054324 Score: 888
Period size: 333 Copynumber: 1.9 Consensus size: 332
12053686 ACGCTTATCA
* **
12053696 AAAAACGCCACTAATGCTCCGCAAATAATTAAGCAGAACGCAGTCGTTTAACTTTGACCTGTAGT
1 AAAAACGCCACTAATGCTCCGCAAATAATTAAGAAGAACGCAGTCGTTTAACTTTGAAATGTAGT
* * *
12053761 GGCACTAGCGGCGTTTATCTAAAAACGTCGGTAAAGATCTAGCATTTGCGGCTCTTATCAAAAAA
66 GGCACTAGCAGCGTTTATATAAAAACGTCGGTAAAGATCTAGCATTTGCGGCGCTTATCAAAAAA
** * *
12053826 CGTTGCTAAAGATCGGTATATTAGCAGCGCTAACAGAAAAATGCCACTAATGCTCCGTAAATAAT
131 CGCCGCTAAAGATCGGTACATTAGCAGCGCTAACAGAAAAATGCCACTAATGCTCCGCAAATAAT
* * * * * **
12053891 TGAGCAGAACATCGTCGTTTAACTTTGACCTATAGTGGCAGTAGTGGCGTTTATCTGAAAATGCC
196 TAAGCAGAACATCGTCGTTTAACTTTGACCTATAGTGACACTAGCGGCGTTTATATGAAAACACC
12053956 GGTAAAGATCTAGCATTTGCGGCGCTTATCAAAAAATGTCGCTAGAGATTGGTACATTAGCGGCG
261 GGTAAAGATCTAGCATTTGCGGCGCTTATCAAAAAATGTCGCTAGAGATTGGTACATTAGCGGCG
12054021 CTAACAG
326 CTAACAG
* * * * *
12054028 AAAAATGCCAGTAATGCTCCGCAAATAATTAAGAAGAACGCCGTTGTTTAACTTTGATAATATTA
1 AAAAACGCCACTAATGCTCCGCAAATAATTAAGAAGAACGCAGTCGTTTAACTTTGA-AAT-GTA
* * *
12054093 GTGGTAGTAGCAGTGTTTATATGAAAACAC-T-GGTAAAGATCTAGCATTTGCGGCGCTTATCAA
64 GTGGCACTAGCAGCGTTTATAT-AAAA-ACGTCGGTAAAGATCTAGCATTTGCGGCGCTTATCAA
* * * *
12054156 CAAATGCCGCTAAAGATCGGTACATTAGCGGCGCTAGA-A-AAAAATGCCACTATTGCTCCGCAA
127 AAAACGCCGCTAAAGATCGGTACATTAGCAGCGCTA-ACAGAAAAATGCCACTAATGCTCCGCAA
* * *
12054219 ATAATTAAGCAGAACGTCGTCGTTTAACTTTGACCTGTAGTGACACTAGCGGCGTTTATATGGAA
191 ATAATTAAGCAGAACATCGTCGTTTAACTTTGACCTATAGTGACACTAGCGGCGTTTATATGAAA
*
12054284 ACACCGGTAAAGATCTAGCATTTGCGGCGTTTATCAAAAAA
256 ACACCGGTAAAGATCTAGCATTTGCGGCGCTTATCAAAAAA
12054325 CGCCACTAAT
Statistics
Matches: 259, Mismatches: 33, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
332 52 0.20
333 118 0.46
334 81 0.31
335 6 0.02
336 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (332 bp):
AAAAACGCCACTAATGCTCCGCAAATAATTAAGAAGAACGCAGTCGTTTAACTTTGAAATGTAGT
GGCACTAGCAGCGTTTATATAAAAACGTCGGTAAAGATCTAGCATTTGCGGCGCTTATCAAAAAA
CGCCGCTAAAGATCGGTACATTAGCAGCGCTAACAGAAAAATGCCACTAATGCTCCGCAAATAAT
TAAGCAGAACATCGTCGTTTAACTTTGACCTATAGTGACACTAGCGGCGTTTATATGAAAACACC
GGTAAAGATCTAGCATTTGCGGCGCTTATCAAAAAATGTCGCTAGAGATTGGTACATTAGCGGCG
CTAACAG
Found at i:12054969 original size:13 final size:13
Alignment explanation
Indices: 12054951--12054993 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
12054941 GGGTTTACGA
12054951 TTTATGGTGTAGG
1 TTTATGGTGTAGG
*
12054964 TTTATGGTTTAGTG
1 TTTATGGTGTAG-G
* *
12054978 TATATGGTGTACG
1 TTTATGGTGTAGG
12054991 TTT
1 TTT
12054994 TCAATTTACA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
13 14 0.58
14 10 0.42
ACGTcount: A:0.16, C:0.02, G:0.30, T:0.51
Consensus pattern (13 bp):
TTTATGGTGTAGG
Found at i:12059213 original size:21 final size:21
Alignment explanation
Indices: 12059187--12059236 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
12059177 CTACAACTTA
12059187 AAGCAGAGGCGGCAGCAAGGG
1 AAGCAGAGGCGGCAGCAAGGG
* *
12059208 AAGCAGAGGCTGCAGCGAGGG
1 AAGCAGAGGCGGCAGCAAGGG
12059229 AAGCAGAG
1 AAGCAGAG
12059237 CAGAGCAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.34, C:0.18, G:0.46, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCAAGGG
Found at i:12059678 original size:43 final size:44
Alignment explanation
Indices: 12059574--12059695 Score: 149
Period size: 44 Copynumber: 2.8 Consensus size: 44
12059564 CCGCTAAATT
* * *
12059574 TAGCGGCATTTATAGAAAAAGCGCCGCTAAAAGTCACCAAACAA
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAAGTCACCAAACAA
* ** * *
12059618 TAGCGGCGTTTGTGGAAAAAGCGTCGCTAAAAGTCA-TGATCTA
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAAGTCACCAAACAA
*
12059661 TAGCGGCGTTTGTGG-AAAAGCGCCGCTAAAGGTCA
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAAGTCA
12059696 GGAAAAGCGC
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 18 0.26
43 18 0.26
44 32 0.47
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.20
Consensus pattern (44 bp):
TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAAGTCACCAAACAA
Found at i:12059702 original size:22 final size:22
Alignment explanation
Indices: 12059674--12059717 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
12059664 CGGCGTTTGT
*
12059674 GGAAAAGCGCCGCTAAAGGTCA
1 GGAAAAGCGCCGCTAAAAGTCA
12059696 GGAAAAGCGCCGCTAAAAGTCA
1 GGAAAAGCGCCGCTAAAAGTCA
12059718 TGATCTATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.23, G:0.30, T:0.09
Consensus pattern (22 bp):
GGAAAAGCGCCGCTAAAAGTCA
Found at i:12059736 original size:64 final size:64
Alignment explanation
Indices: 12059634--12059759 Score: 225
Period size: 64 Copynumber: 2.0 Consensus size: 64
12059624 CGTTTGTGGA
*
12059634 AAAAGCGTCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCAGG
1 AAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCAGG
* *
12059698 AAAAGCGCCGCTAAAAGTCATGATCTATAGCGGTGTTTGTGGAAAAGCGTCGCTAAAGGTCA
1 AAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCA
12059760 TGATCTATAG
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (64 bp):
AAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCAGG
Found at i:12059760 original size:42 final size:43
Alignment explanation
Indices: 12059696--12059798 Score: 163
Period size: 42 Copynumber: 2.4 Consensus size: 43
12059686 CTAAAGGTCA
* * *
12059696 GGAAAAGCGCCGCTAAAAGTCATGATCTATAGCGGTGTTTGT-
1 GGAAAAGCGTCGCTAAAGGTCATGATCTATAGCGGCGTTTGTG
12059738 GGAAAAGCGTCGCTAAAGGTCATGATCTATAGCGGCGTTTGTG
1 GGAAAAGCGTCGCTAAAGGTCATGATCTATAGCGGCGTTTGTG
*
12059781 GGATAAGCGTCGCTAAAG
1 GGAAAAGCGTCGCTAAAG
12059799 AACATGACCT
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
42 39 0.70
43 17 0.30
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (43 bp):
GGAAAAGCGTCGCTAAAGGTCATGATCTATAGCGGCGTTTGTG
Found at i:12059777 original size:106 final size:109
Alignment explanation
Indices: 12059590--12059798 Score: 325
Period size: 106 Copynumber: 1.9 Consensus size: 109
12059580 CATTTATAGA
12059590 AAAAGCGCCGCTAAAAGTCACCAAACAATAGCGGCGTTTGTGGAAAAAGCGTCGCTAAAAGTCAT
1 AAAAGCGCCGCTAAAAGTCACCAAACAATAGCGGCGTTTGTGGAAAAAGCGTCGCTAAAAGTCAT
12059655 GATCTATAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTCAGG
66 GATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAGG
** * * * *
12059698 AAAAGCGCCGCTAAAAGTCA-TGATCTATAGCGGTGTTTGTGG-AAAAGCGTCGCTAAAGGTCAT
1 AAAAGCGCCGCTAAAAGTCACCAAACAATAGCGGCGTTTGTGGAAAAAGCGTCGCTAAAAGTCAT
* *
12059761 GATCTATAGCGGCGTTTGTGGGATAAGCGTCGCTAAAG
66 GATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
12059799 AACATGACCT
Statistics
Matches: 92, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
106 39 0.42
107 33 0.36
108 20 0.22
ACGTcount: A:0.31, C:0.19, G:0.29, T:0.22
Consensus pattern (109 bp):
AAAAGCGCCGCTAAAAGTCACCAAACAATAGCGGCGTTTGTGGAAAAAGCGTCGCTAAAAGTCAT
GATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAGG
Found at i:12059805 original size:43 final size:42
Alignment explanation
Indices: 12059696--12059814 Score: 141
Period size: 42 Copynumber: 2.8 Consensus size: 42
12059686 CTAAAGGTCA
* * *
12059696 GGAAAAGCGCCGCTAAA-AGTCATGATCTATAGCGGTGTTTGT
1 GGAAAAGCGTCGCTAAAGA-ACATGATCTATAGCGGCGTTTGT
**
12059738 GGAAAAGCGTCGCTAAAGGTCATGATCTATAGCGGCGTTTGT
1 GGAAAAGCGTCGCTAAAGAACATGATCTATAGCGGCGTTTGT
* * *
12059780 GGGATAAGCGTCGCTAAAGAACATGACCTTTAGCG
1 -GGAAAAGCGTCGCTAAAGAACATGATCTATAGCG
12059815 ACATTTATTT
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
42 38 0.57
43 29 0.43
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (42 bp):
GGAAAAGCGTCGCTAAAGAACATGATCTATAGCGGCGTTTGT
Found at i:12061354 original size:36 final size:35
Alignment explanation
Indices: 12061307--12061435 Score: 99
Period size: 36 Copynumber: 3.8 Consensus size: 35
12061297 ACGTTCAAGA
*
12061307 GATTGGGAAGACTCGATATCTCGTTCAGCTTCTTAG
1 GATTGAGAAGACTCGATATCTCGTTCAG-TTCTTAG
* * *
12061343 GATTGAGAAGAC-CTA-ATATC--TCA-TTCAATA-
1 GATTGAGAAGACTCGATATCTCGTTCAGTTC-TTAG
* * ** *
12061373 GCTTGAGAAGACTCGATATCGCGTTCAGGAGCTTGG
1 GATTGAGAAGACTCGATATCTCGTTCA-GTTCTTAG
*
12061409 GATTGAGAAGACTTGATATCTCGTTCA
1 GATTGAGAAGACTCGATATCTCGTTCA
12061436 AGATCTTGGG
Statistics
Matches: 70, Mismatches: 15, Indels: 16
0.69 0.15 0.16
Matches are distributed among these distances:
30 14 0.20
31 4 0.06
32 6 0.09
34 7 0.10
35 3 0.04
36 36 0.51
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (35 bp):
GATTGAGAAGACTCGATATCTCGTTCAGTTCTTAG
Found at i:12061390 original size:66 final size:66
Alignment explanation
Indices: 12061300--12061450 Score: 185
Period size: 66 Copynumber: 2.3 Consensus size: 66
12061290 TGCGAGGACG
* * * **
12061300 TTCAAGAGATTGGGAAGACTCGATATCTCGTTCAGCTTCTTAGGATTGAGAAGACCTAATATCTC
1 TTCAAGAGCTTGAGAAGACTCGATATCGCGTTCAGCAGCTTAGGATTGAGAAGACCTAATATCTC
12061365 A
66 A
* * * * *
12061366 TTCAATAGCTTGAGAAGACTCGATATCGCGTTCAGGAGCTTGGGATTGAGAAGACTTGATATCTC
1 TTCAAGAGCTTGAGAAGACTCGATATCGCGTTCAGCAGCTTAGGATTGAGAAGACCTAATATCTC
*
12061431 G
66 A
* *
12061432 TTCAAGATCTTGGGAAGAC
1 TTCAAGAGCTTGAGAAGAC
12061451 CAAATATTTG
Statistics
Matches: 71, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
66 71 1.00
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (66 bp):
TTCAAGAGCTTGAGAAGACTCGATATCGCGTTCAGCAGCTTAGGATTGAGAAGACCTAATATCTC
A
Found at i:12061444 original size:36 final size:36
Alignment explanation
Indices: 12061375--12061446 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
12061365 ATTCAATAGC
*
12061375 TTGAGAAGACTCGATATCGCGTTCAGGAGCTTGGGA
1 TTGAGAAGACTCGATATCGCGTTCAAGAGCTTGGGA
* * *
12061411 TTGAGAAGACTTGATATCTCGTTCAAGATCTTGGGA
1 TTGAGAAGACTCGATATCGCGTTCAAGAGCTTGGGA
12061447 AGACCAAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (36 bp):
TTGAGAAGACTCGATATCGCGTTCAAGAGCTTGGGA
Found at i:12062089 original size:79 final size:81
Alignment explanation
Indices: 12061958--12062124 Score: 313
Period size: 79 Copynumber: 2.1 Consensus size: 81
12061948 TTAATATTTG
12061958 ATTAT-TATTAAAGTTATATAATTAAAAACTAAAAAATACTTTGTTAATATAAAGTATAACCTTA
1 ATTATATATTAAAGTTATATAATTAAAAACTAAAAAATACTTTGTTAATATAAAGTATAACCTTA
12062022 TAACTTAAGGGGG-GA
66 TAACTTAAGGGGGCGA
12062037 ATTATATA-TAAAGTTATATAATTAAAAACTAAAAAATACTTTGTTAATATAAAGTATAACCTTA
1 ATTATATATTAAAGTTATATAATTAAAAACTAAAAAATACTTTGTTAATATAAAGTATAACCTTA
12062101 TAACTTAAGGGGGCGA
66 TAACTTAAGGGGGCGA
12062117 ATTATATA
1 ATTATATA
12062125 AAATACAATT
Statistics
Matches: 86, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
79 74 0.86
80 12 0.14
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.35
Consensus pattern (81 bp):
ATTATATATTAAAGTTATATAATTAAAAACTAAAAAATACTTTGTTAATATAAAGTATAACCTTA
TAACTTAAGGGGGCGA
Found at i:12067709 original size:22 final size:22
Alignment explanation
Indices: 12067674--12067715 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
12067664 AAGTTTTAAT
** *
12067674 AAATAATTTTTAAAGAAATAAA
1 AAATAATTAATAAAAAAATAAA
12067696 AAATAATTAATAAAAAAATA
1 AAATAATTAATAAAAAAATA
12067716 CATCTAGAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (22 bp):
AAATAATTAATAAAAAAATAAA
Found at i:12068507 original size:19 final size:19
Alignment explanation
Indices: 12068481--12068524 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
12068471 TTTTTATATA
*
12068481 ATTAAAAAAATTAAATATTT
1 ATTAAAAAATTTAAA-ATTT
12068501 ATTAAAAAATTTAAAATTT
1 ATTAAAAAATTTAAAATTT
*
12068520 TTTAA
1 ATTAA
12068525 TCTTTTTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
ATTAAAAAATTTAAAATTT
Found at i:12072599 original size:27 final size:26
Alignment explanation
Indices: 12072569--12072644 Score: 75
Period size: 26 Copynumber: 2.9 Consensus size: 26
12072559 TGGCAGTCCA
12072569 CCAAGACAATCTAAATGTGGCAA-TCTG
1 CCAAGACAATCTAAATGTGG-AAGT-TG
**
12072596 CCAAGATGATCT-AATGTGGAAGTTG
1 CCAAGACAATCTAAATGTGGAAGTTG
* * *
12072621 TCAGGACAATATAAATGTGGAAGT
1 CCAAGACAATCTAAATGTGGAAGT
12072645 CCACGAGGAC
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
25 11 0.28
26 19 0.47
27 10 0.25
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (26 bp):
CCAAGACAATCTAAATGTGGAAGTTG
Found at i:12078290 original size:42 final size:43
Alignment explanation
Indices: 12078243--12078362 Score: 145
Period size: 42 Copynumber: 2.8 Consensus size: 43
12078233 TTCCGATGTG
* * *
12078243 TGATTTTGTGTAAGACCATGTCTGGGACATTGGCATCG-TATA
1 TGATTTCGTGTAAGACCATATCTGGGACAGTGGCATCGATATA
*
12078285 TGATTTCGTGTAAGACCCTATCTGGGACAGTGGCATCGATATA
1 TGATTTCGTGTAAGACCATATCTGGGACAGTGGCATCGATATA
* ** * *
12078328 TTATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 TGATTTCGTGTAAGACCATATCTGGGACAGTGGCAT
12078363 TGCACGAGCT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
42 40 0.60
43 27 0.40
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.33
Consensus pattern (43 bp):
TGATTTCGTGTAAGACCATATCTGGGACAGTGGCATCGATATA
Found at i:12083087 original size:24 final size:23
Alignment explanation
Indices: 12083053--12083099 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
12083043 TTCTAGCTGG
12083053 TTAAACTAAAAATTTTCTTACGA
1 TTAAACTAAAAATTTTCTTACGA
12083076 TTAAACTAAAAATTTTCTTACGA
1 TTAAACTAAAAATTTTCTTACGA
12083099 T
1 T
12083100 CACGTCGGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.43, C:0.13, G:0.04, T:0.40
Consensus pattern (23 bp):
TTAAACTAAAAATTTTCTTACGA
Found at i:12086755 original size:30 final size:30
Alignment explanation
Indices: 12086711--12086817 Score: 178
Period size: 30 Copynumber: 3.6 Consensus size: 30
12086701 ACATGGGCGT
* * *
12086711 GTGACTCAGCCGTGTGTGAGACACAGCTTG
1 GTGACACAGTCGTGTGTGAGACACGGCTTG
*
12086741 GCGACACAGTCGTGTGTGAGACACGGCTTG
1 GTGACACAGTCGTGTGTGAGACACGGCTTG
12086771 GTGACACAGTCGTGTGTGAGACACGGCTTG
1 GTGACACAGTCGTGTGTGAGACACGGCTTG
12086801 GTGACACAGTCGTGTGT
1 GTGACACAGTCGTGTGT
12086818 CCCCTGTAGG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 72 1.00
ACGTcount: A:0.20, C:0.21, G:0.36, T:0.23
Consensus pattern (30 bp):
GTGACACAGTCGTGTGTGAGACACGGCTTG
Found at i:12086789 original size:15 final size:15
Alignment explanation
Indices: 12086743--12086817 Score: 64
Period size: 15 Copynumber: 5.0 Consensus size: 15
12086733 ACAGCTTGGC
12086743 GACACAGTCGTGTGT
1 GACACAGTCGTGTGT
* * *
12086758 GAGACACGGCTTG-GT
1 GACACA-GTCGTGTGT
12086773 GACACAGTCGTGTGT
1 GACACAGTCGTGTGT
* * *
12086788 GAGACACGGCTTG-GT
1 GACACA-GTCGTGTGT
12086803 GACACAGTCGTGTGT
1 GACACAGTCGTGTGT
12086818 CCCCTGTAGG
Statistics
Matches: 44, Mismatches: 12, Indels: 8
0.69 0.19 0.12
Matches are distributed among these distances:
14 8 0.18
15 28 0.64
16 8 0.18
ACGTcount: A:0.20, C:0.20, G:0.36, T:0.24
Consensus pattern (15 bp):
GACACAGTCGTGTGT
Found at i:12087153 original size:22 final size:21
Alignment explanation
Indices: 12087112--12087153 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
12087102 CTTATACTTT
* *
12087112 CCAAATGTTTCTAGTTTAGTC
1 CCAAATGTTTCTAATATAGTC
12087133 CCAAATTGTTTCTAATATAGT
1 CCAAA-TGTTTCTAATATAGT
12087154 TTTAGGGCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.43
Consensus pattern (21 bp):
CCAAATGTTTCTAATATAGTC
Found at i:12089790 original size:12 final size:13
Alignment explanation
Indices: 12089773--12089813 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
12089763 CTATCAAATT
12089773 TTTTTA-TCATTA
1 TTTTTATTCATTA
*
12089785 TTTTTATTC-TTT
1 TTTTTATTCATTA
*
12089797 TTTTTATTTATTA
1 TTTTTATTCATTA
12089810 TTTT
1 TTTT
12089814 AGATTAAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
12 16 0.67
13 8 0.33
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTTATTCATTA
Found at i:12090757 original size:25 final size:24
Alignment explanation
Indices: 12090713--12090761 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
12090703 AAAACAAATA
12090713 GAAAAAAATCGGCAAAAAAATAAAG
1 GAAAAAAATC-GCAAAAAAATAAAG
12090738 GAAAAAAAT-GCATAATAAAATAAA
1 GAAAAAAATCGCA-AA-AAAATAAA
12090762 ATAAAACATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 3 0.14
24 2 0.09
25 17 0.77
ACGTcount: A:0.69, C:0.06, G:0.12, T:0.12
Consensus pattern (24 bp):
GAAAAAAATCGCAAAAAAATAAAG
Found at i:12090795 original size:6 final size:6
Alignment explanation
Indices: 12090780--12090856 Score: 65
Period size: 6 Copynumber: 13.5 Consensus size: 6
12090770 TATAAATCTG
* * * **
12090780 AAAAAT -AAAAT -AAAA- ACAAAT AACAAT AAAAAT AAAAGT ACGAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
12090825 AAAAAT AAAAAT --AAAT AAAATAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAA-AT AAAAAT AAA
12090857 TGAAATCACT
Statistics
Matches: 56, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
4 4 0.07
5 12 0.21
6 34 0.61
7 6 0.11
ACGTcount: A:0.77, C:0.04, G:0.03, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:12090810 original size:27 final size:27
Alignment explanation
Indices: 12090754--12090816 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
12090744 AATGCATAAT
* *
12090754 AAAATAAAATAAAACATATAAATCTGA
1 AAAATAAAATAAAACAAATAAATATGA
12090781 AAAATAAAATAAAAACAAATAACA-AT-A
1 AAAATAAAAT-AAAACAAATAA-ATATGA
12090808 AAAATAAAA
1 AAAATAAAA
12090817 GTACGAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 20 0.62
28 11 0.34
29 1 0.03
ACGTcount: A:0.75, C:0.06, G:0.02, T:0.17
Consensus pattern (27 bp):
AAAATAAAATAAAACAAATAAATATGA
Done.