Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
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: 15077257
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 37 of 62
Found at i:8017713 original size:2 final size:2
Alignment explanation
Indices: 8017708--8017737 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
8017698 ACGTTTTTGA
8017708 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8017738 GTTTTGAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:8017714 original size:33 final size:33
Alignment explanation
Indices: 8017642--8017722 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 33
8017632 TTTAAAAAAT
***
8017642 ATATATAATATATAGTTTTGAAAACGTTTTAAA
1 ATATATAATATATAGTTAAAAAAACGTTTTAAA
* * **
8017675 AAATATAATATATGGTTAAAAAAACGTTTTTGA
1 ATATATAATATATAGTTAAAAAAACGTTTTAAA
8017708 ATATATATATATATA
1 ATATATA-ATATATA
8017723 TATATATATA
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
33 32 0.84
34 6 0.16
ACGTcount: A:0.48, C:0.02, G:0.09, T:0.41
Consensus pattern (33 bp):
ATATATAATATATAGTTAAAAAAACGTTTTAAA
Found at i:8017775 original size:38 final size:38
Alignment explanation
Indices: 8017720--8017812 Score: 127
Period size: 38 Copynumber: 2.4 Consensus size: 38
8017710 ATATATATAT
8017720 ATATATATATATAATATAGTTTTGAA-ATCA-TTTTTTGAAA
1 ATATATATA-AT-ATATAGTTTT-AAGAT-ATTTTTTTGAAA
*
8017760 ATATGTATAATATATAGTTTTAAGATATTTTTTTGAAA
1 ATATATATAATATATAGTTTTAAGATATTTTTTTGAAA
8017798 ATATATATAATATAT
1 ATATATATAATATAT
8017813 TTTAGAAAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
37 3 0.06
38 36 0.73
39 2 0.04
40 8 0.16
ACGTcount: A:0.43, C:0.01, G:0.08, T:0.48
Consensus pattern (38 bp):
ATATATATAATATATAGTTTTAAGATATTTTTTTGAAA
Found at i:8017889 original size:15 final size:14
Alignment explanation
Indices: 8017866--8017904 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
8017856 ATATATATAC
8017866 ATTTTTATTTATTTT
1 ATTTTTATTTA-TTT
*
8017881 ATTTCTATTTATTT
1 ATTTTTATTTATTT
8017895 ATTTTTATTT
1 ATTTTTATTT
8017905 TTATTTCCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (14 bp):
ATTTTTATTTATTT
Found at i:8017902 original size:20 final size:19
Alignment explanation
Indices: 8017869--8017910 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
8017859 TATATACATT
8017869 TTTATTTATTTTATTTCTA
1 TTTATTTATTTTATTTCTA
*
8017888 TTTATTTATTTTTATTTTTA
1 TTTATTTA-TTTTATTTCTA
8017908 TTT
1 TTT
8017911 CCATTTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTATTTATTTTATTTCTA
Found at i:8025195 original size:11 final size:11
Alignment explanation
Indices: 8025179--8025219 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
8025169 CTCGAGACTC
8025179 AAGCTCGATTG
1 AAGCTCGATTG
8025190 AAGCTCGATTG
1 AAGCTCGATTG
* *
8025201 AAGCTAGATTC
1 AAGCTCGATTG
8025212 AAGCTCGA
1 AAGCTCGA
8025220 CTGATTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (11 bp):
AAGCTCGATTG
Found at i:8026236 original size:23 final size:22
Alignment explanation
Indices: 8026206--8026261 Score: 78
Period size: 21 Copynumber: 2.5 Consensus size: 22
8026196 ATAATTTTTT
*
8026206 TTAATTTTTTCCATCTAAATATA
1 TTAATTTTTTACAT-TAAATATA
8026229 TTAA-TTTTTACATTAAATATA
1 TTAATTTTTTACATTAAATATA
8026250 TTAATATTTTTA
1 TTAAT-TTTTTA
8026262 TTAATATTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 12 0.40
22 8 0.27
23 10 0.33
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (22 bp):
TTAATTTTTTACATTAAATATA
Found at i:8026638 original size:28 final size:28
Alignment explanation
Indices: 8026607--8026661 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
8026597 CTCCGTTTAC
*
8026607 ATTAT-TTCGTCGAGTCAGTTCTTGAAAT
1 ATTATGTTCGT-GAGTCAGTGCTTGAAAT
*
8026635 ATTATGTTGGTGAGTCAGTGCTTGAAA
1 ATTATGTTCGTGAGTCAGTGCTTGAAA
8026662 GCAATGATGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 20 0.83
29 4 0.17
ACGTcount: A:0.25, C:0.11, G:0.24, T:0.40
Consensus pattern (28 bp):
ATTATGTTCGTGAGTCAGTGCTTGAAAT
Found at i:8028274 original size:17 final size:17
Alignment explanation
Indices: 8028251--8028297 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
8028241 AAGTGTAAAA
8028251 CATTTGATATCTGTAAAT
1 CATTTGATATCTGT-AAT
8028269 -ATTTGATAAT-TGTAAT
1 CATTTGAT-ATCTGTAAT
*
8028285 CATCTGATATCTG
1 CATTTGATATCTG
8028298 CAAACATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
16 5 0.20
17 18 0.72
18 2 0.08
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.45
Consensus pattern (17 bp):
CATTTGATATCTGTAAT
Found at i:8028276 original size:35 final size:34
Alignment explanation
Indices: 8028237--8028306 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
8028227 AATCTTTGTC
* * *
8028237 TGATAAGTGTAAAACATTTGATATCTGTAAATATT
1 TGATAAGTGT-AAACATCTGATATCTGCAAACATT
* *
8028272 TGATAATTGTAATCATCTGATATCTGCAAACATT
1 TGATAAGTGTAAACATCTGATATCTGCAAACATT
8028306 T
1 T
8028307 AAAATTAATC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
34 21 0.70
35 9 0.30
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (34 bp):
TGATAAGTGTAAACATCTGATATCTGCAAACATT
Found at i:8030384 original size:2 final size:2
Alignment explanation
Indices: 8030332--8030372 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
8030322 TTCTATAACC
*
8030332 AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8030373 ATACACATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:8032352 original size:102 final size:101
Alignment explanation
Indices: 8032225--8032442 Score: 364
Period size: 102 Copynumber: 2.1 Consensus size: 101
8032215 TGCTAATATA
* * * *
8032225 TTAACTCCAGCCATTTTATACAGTTTTACACCAGTCGACCTACTCTTTTTGTCTGTTAATATACA
1 TTAACTCCAGCCATTTTATACAGTTTTACACCAGCCGACCCACTCTTTTTATCTGCTAATATACA
8032290 CCTAGATTCATGCATTATACAGCCTAGATTTAATGCC
66 CCTAGATTCATGCATTATACAGCCTAGA-TTAATGCC
* *
8032327 TTAACTCCAGCCATTTTATGCAGTTTTACACTAGCCGACCCACTCTTTTTATCTGCTAATATACA
1 TTAACTCCAGCCATTTTATACAGTTTTACACCAGCCGACCCACTCTTTTTATCTGCTAATATACA
*
8032392 CCTAGATTCATGCATTATACGGCCTAGATTAATGCC
66 CCTAGATTCATGCATTATACAGCCTAGATTAATGCC
8032428 TTAACTCCAGCCATT
1 TTAACTCCAGCCATT
8032443 AATGTGGTCA
Statistics
Matches: 109, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
101 23 0.21
102 86 0.79
ACGTcount: A:0.27, C:0.26, G:0.11, T:0.36
Consensus pattern (101 bp):
TTAACTCCAGCCATTTTATACAGTTTTACACCAGCCGACCCACTCTTTTTATCTGCTAATATACA
CCTAGATTCATGCATTATACAGCCTAGATTAATGCC
Found at i:8032475 original size:51 final size:51
Alignment explanation
Indices: 8032399--8032500 Score: 186
Period size: 51 Copynumber: 2.0 Consensus size: 51
8032389 ACACCTAGAT
**
8032399 TCATGCATTATACGGCCTAGATTAATGCCTTAACTCCAGCCATTAATGTGG
1 TCATGCATTATACAACCTAGATTAATGCCTTAACTCCAGCCATTAATGTGG
8032450 TCATGCATTATACAACCTAGATTAATGCCTTAACTCCAGCCATTAATGTGG
1 TCATGCATTATACAACCTAGATTAATGCCTTAACTCCAGCCATTAATGTGG
8032501 CTCGTGTGTT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (51 bp):
TCATGCATTATACAACCTAGATTAATGCCTTAACTCCAGCCATTAATGTGG
Found at i:8032827 original size:58 final size:58
Alignment explanation
Indices: 8032737--8032848 Score: 215
Period size: 58 Copynumber: 1.9 Consensus size: 58
8032727 TCTTCAGTAG
8032737 TACAGCATCATAATTTTTCATAACTAGAAACATAAGTTTCACTCTAGTCAAGTGTGAT
1 TACAGCATCATAATTTTTCATAACTAGAAACATAAGTTTCACTCTAGTCAAGTGTGAT
*
8032795 TACAGCATCATAATTTTTCATAACTTGAAACATAAGTTTCACTCTAGTCAAGTG
1 TACAGCATCATAATTTTTCATAACTAGAAACATAAGTTTCACTCTAGTCAAGTG
8032849 GAATCACTCA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 53 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.35
Consensus pattern (58 bp):
TACAGCATCATAATTTTTCATAACTAGAAACATAAGTTTCACTCTAGTCAAGTGTGAT
Found at i:8046261 original size:31 final size:33
Alignment explanation
Indices: 8046193--8046285 Score: 122
Period size: 32 Copynumber: 2.9 Consensus size: 33
8046183 GAAGGACCAT
* *
8046193 TATCCATATGT-TTCGAAGAACATAGGTAACAC
1 TATCCATATGTCTCCAAAGAACATAGGTAACAC
*
8046225 TATCCATTTGTC-CCAAAGAACATAGGTAA-AC
1 TATCCATATGTCTCCAAAGAACATAGGTAACAC
*
8046256 TATCCATATGTCTCGAAAG-ACATAGGTAAC
1 TATCCATATGTCTCCAAAGAACATAGGTAAC
8046286 CCTTGACTCT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
31 23 0.43
32 30 0.57
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (33 bp):
TATCCATATGTCTCCAAAGAACATAGGTAACAC
Found at i:8053808 original size:20 final size:20
Alignment explanation
Indices: 8053783--8053821 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
8053773 TCGAGACACA
8053783 TATGTCATCATTTAGCCACC
1 TATGTCATCATTTAGCCACC
8053803 TATGTCATCATTTAGCCAC
1 TATGTCATCATTTAGCCAC
8053822 AAAACTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.28, G:0.10, T:0.36
Consensus pattern (20 bp):
TATGTCATCATTTAGCCACC
Found at i:8054829 original size:95 final size:95
Alignment explanation
Indices: 8054655--8054825 Score: 245
Period size: 95 Copynumber: 1.8 Consensus size: 95
8054645 TACTGATGAG
* * ** * *
8054655 GTAGTATCGATACCATGGTGAGGGTATCGATACCAGGTAACATCAAACCTAATTTTGGTATCGAT
1 GTAGTATCGATACAATGGTGAGAGTATAAATACCAAGCAACATCAAACCTAATTTTGGTATCGAT
8054720 ACCAGAAAGGGGTATTGGTACCCTAACATA
66 ACCAGAAAGGGGTATTGGTACCCTAACATA
* * * *
8054750 GTAGTATCGATATAATGGTGAGAGTATAAATACCAAGCCACATCAAAGCTAATTTTGTTATCGAT
1 GTAGTATCGATACAATGGTGAGAGTATAAATACCAAGCAACATCAAACCTAATTTTGGTATCGAT
8054815 ACC-GAAAGGGG
66 ACCAGAAAGGGG
8054826 GTATCGATAC
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
94 8 0.12
95 58 0.88
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (95 bp):
GTAGTATCGATACAATGGTGAGAGTATAAATACCAAGCAACATCAAACCTAATTTTGGTATCGAT
ACCAGAAAGGGGTATTGGTACCCTAACATA
Found at i:8054849 original size:95 final size:95
Alignment explanation
Indices: 8054654--8054868 Score: 234
Period size: 95 Copynumber: 2.3 Consensus size: 95
8054644 GTACTGATGA
* * ** * *
8054654 GGTAGTATCGATACCATGGTGAGGGTATCGATACCAGGTAACATCAAACCTAATTTTGGTATCGA
1 GGTAGTATCGATACAATGGTGAGAGTATAAATACCAAGCAACATCAAACCTAATTTTGGTATCGA
* * * *
8054719 TACCAGAAAGGGGTATTGGTACCCTAACAT
66 TACCAGAAAGGGGTATCGATACCATAACAG
* * * * *
8054749 AGTAGTATCGATATAATGGTGAGAGTATAAATACCAAGCCACATCAAAGCTAATTTTGTTATCGA
1 GGTAGTATCGATACAATGGTGAGAGTATAAATACCAAGCAACATCAAACCTAATTTTGGTATCGA
**
8054814 TACC-GAAAGGGGGTATCGATACCATAGTAG
66 TACCAGAAA-GGGGTATCGATACCATAACAG
* *
8054844 GGTAGTATTGATACCATGGTAGAGA
1 GGTAGTATCGATACAATGGT-GAGA
8054869 TATCGATACT
Statistics
Matches: 97, Mismatches: 21, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
94 4 0.04
95 89 0.92
96 4 0.04
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (95 bp):
GGTAGTATCGATACAATGGTGAGAGTATAAATACCAAGCAACATCAAACCTAATTTTGGTATCGA
TACCAGAAAGGGGTATCGATACCATAACAG
Found at i:8055595 original size:31 final size:31
Alignment explanation
Indices: 8055502--8055596 Score: 81
Period size: 31 Copynumber: 3.2 Consensus size: 31
8055492 AGGGCACTTC
* *
8055502 GTGTCCTAAAATGATAAGGAAATCATACTAA
1 GTGTACTAAAATGATAAGGAAACCATACTAA
* * * ** *
8055533 GTGTA-T-AAAT-TTCCA-GATACGGTACTTA
1 GTGTACTAAAATGAT-AAGGAAACCATACTAA
8055561 GTGTACTAAAATGATAAGGAAACCATACTAA
1 GTGTACTAAAATGATAAGGAAACCATACTAA
8055592 GTGTA
1 GTGTA
8055597 TGAATTTCCA
Statistics
Matches: 45, Mismatches: 14, Indels: 10
0.65 0.20 0.14
Matches are distributed among these distances:
28 14 0.31
29 6 0.13
30 6 0.13
31 19 0.42
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (31 bp):
GTGTACTAAAATGATAAGGAAACCATACTAA
Found at i:8055663 original size:59 final size:59
Alignment explanation
Indices: 8055213--8055664 Score: 679
Period size: 59 Copynumber: 7.7 Consensus size: 59
8055203 CTAAGTTAGT
* * *
8055213 TAAAATAATAAGGAAATCATACTAAGTGTATGAATTTTCAGATAGGGCACTTCGTGTAC
1 TAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGTGC
* * ** **
8055272 TAAAATGATAAGGAAATCATAATAAGTGTATGAATTTCTAGATAGGGCACTAAGTGTTT
1 TAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGTGC
* * * *
8055331 TAAAATGATAAAGAAATCATACTAAGTGTATGAATTTTCAAATAGGGAACTTCGTGTGC
1 TAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGTGC
* *
8055390 TAAAATGATAAGAAAATCATACTAAGTGTATGAATTTCTAGATAGGGCACTTCGTGTGC
1 TAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGTGC
*
8055449 TAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGTCC
1 TAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGTGC
* * * * *
8055508 TAAAATGATAAGGAAATCATACTAAGTGTATAAATTTCCAGATACGGTACTTAGTGTAC
1 TAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGTGC
* * *
8055567 TAAAATGATAAGGAAACCATACTAAGTGTATGAATTTCCAGATAGGGCACTTTGTATGC
1 TAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGTGC
*
8055626 TAAAATGATAAGGAAATCATACTAATTGTATGAATTTCC
1 TAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCC
8055665 TATTGAATTT
Statistics
Matches: 352, Mismatches: 41, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 352 1.00
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.31
Consensus pattern (59 bp):
TAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGTGC
Found at i:8056971 original size:85 final size:86
Alignment explanation
Indices: 8056840--8056998 Score: 259
Period size: 85 Copynumber: 1.9 Consensus size: 86
8056830 CAAATGCGTA
**
8056840 TCATTGAAGCCACCATCATAAATCTCAGATGACACACAATTGTGTGTCATAAATCTATGACACGC
1 TCATTGAAGCCACCATCATAAATCGAAGATGACACACAATTGTGTGTCATAAATCTATGACACGC
8056905 ATTTATGACGCACTTTGTGCG
66 ATTTATGACGCACTTTGTGCG
* *
8056926 TCATTGAAGGCC-CCATCATAAAT-GAAGATGACACACATTTGTGTGTCATAAATTTATGACACG
1 TCATTGAA-GCCACCATCATAAATCGAAGATGACACACAATTGTGTGTCATAAATCTATGACACG
8056989 CATTTATGAC
65 CATTTATGAC
8056999 TTACATTTAT
Statistics
Matches: 68, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
85 46 0.68
86 19 0.28
87 3 0.04
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (86 bp):
TCATTGAAGCCACCATCATAAATCGAAGATGACACACAATTGTGTGTCATAAATCTATGACACGC
ATTTATGACGCACTTTGTGCG
Found at i:8057005 original size:13 final size:13
Alignment explanation
Indices: 8056989--8057018 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
8056979 TTATGACACG
*
8056989 CATTTATGACTTA
1 CATTTATAACTTA
8057002 CATTTATAACTTA
1 CATTTATAACTTA
8057015 CATT
1 CATT
8057019 GCGTGTCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.17, G:0.03, T:0.47
Consensus pattern (13 bp):
CATTTATAACTTA
Found at i:8057082 original size:2 final size:2
Alignment explanation
Indices: 8057077--8057103 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8057067 TGTCGTAAAT
8057077 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
8057104 TGTAGATTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8057605 original size:22 final size:22
Alignment explanation
Indices: 8057580--8057622 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
8057570 ATGATAGTTG
*
8057580 TATGACTA-ATGTGTATGTATGA
1 TATGAC-AGATGTGTATATATGA
8057602 TATGACAGATGTGTATATATG
1 TATGACAGATGTGTATATATG
8057623 TCCACCTAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.40
Consensus pattern (22 bp):
TATGACAGATGTGTATATATGA
Found at i:8061665 original size:29 final size:29
Alignment explanation
Indices: 8061633--8061699 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
8061623 ATAAGCCTTA
* * *
8061633 GAAAATTGAGGAACATTTTGTAAGTTTTG
1 GAAAATTGAGGAACAATTTGAAAATTTTG
* * *
8061662 GAAAGTTGGGGATCAATTTGAAAATTTTG
1 GAAAATTGAGGAACAATTTGAAAATTTTG
8061691 GAAAATTGA
1 GAAAATTGA
8061700 TGGGCTATTA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.37, C:0.03, G:0.25, T:0.34
Consensus pattern (29 bp):
GAAAATTGAGGAACAATTTGAAAATTTTG
Found at i:8063822 original size:31 final size:31
Alignment explanation
Indices: 8063748--8063824 Score: 145
Period size: 31 Copynumber: 2.5 Consensus size: 31
8063738 TTCCCCCCTC
*
8063748 GATTCATTGTTCACACCTTCCCAAATGCTCT
1 GATTCATTGTTCGCACCTTCCCAAATGCTCT
8063779 GATTCATTGTTCGCACCTTCCCAAATGCTCT
1 GATTCATTGTTCGCACCTTCCCAAATGCTCT
8063810 GATTCATTGTTCGCA
1 GATTCATTGTTCGCA
8063825 ATTCTTATGT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.21, C:0.30, G:0.13, T:0.36
Consensus pattern (31 bp):
GATTCATTGTTCGCACCTTCCCAAATGCTCT
Found at i:8064435 original size:207 final size:205
Alignment explanation
Indices: 8064035--8064538 Score: 622
Period size: 207 Copynumber: 2.4 Consensus size: 205
8064025 TTTGACGCAA
** * *
8064035 TTTCAATTTGTTAGTTGTTTTCTTCTTTTGAATGCACAAAAAAGTCT-GTGAAATCTGCATTTTT
1 TTTCAATTTGTTAGTTGTTTTCTTCTTTTGAATGCATGAAAAATTCTAG-GGAATCTGCATTTTT
* * * *
8064099 -TGTTTGGGATTGAGGAAAAGTTTTAACTTGAATATCGATTAGCTTGAATCACAATATGTTGCTG
65 CTGTTTTGGATTGAGGAAAAG---T--CTTGAATATCAATTAGCTTGAACCACAATATATTGCTG
* *
8064163 ATATAGTTGTGTTGTTTTCTGTTGCACGAGCAAAGTTATTGATTTATAAGTTTAAGTCCCATGCT
125 ATATAGTTGTGTTGTTTTCTGTTACACGAGCAAAGTTATTGACTTATAAGTTTAAGTCCCATGCT
*
8064228 TGTGTGTGTTGT-TGGT
190 TGTGTGTGTT-TCTGAT
* * *
8064244 TTTCAATTTGTTGGTTGTTTTCTTCTTTTGAATGCATGCAAAATTCTAGGGAATCTGCCTTTTTT
1 TTTCAATTTGTTAGTTGTTTTCTTCTTTTGAATGCATGAAAAATTCTAGGGAATCTG-C-ATTTT
* * ** * *
8064309 TCTGTTTTGGATTGAGGGAAAGTCTTGACTATCAATTTTCTTGAACCATAATATATTGCTGATTT
64 TCTGTTTTGGATTGAGGAAAAGTCTTGAATATCAATTAGCTTGAACCACAATATATTGCTGATAT
* ** * * *
8064374 AGTTGTGTTGTTTTCTTTTACGTGAGCAAAGTTATT-AGCTTATAGGTTTTAGTCTCATGCTTGT
129 AGTTGTGTTGTTTTCTGTTACACGAGCAAAGTTATTGA-CTTATAAGTTTAAGTCCCATGCTTGT
8064438 GTGTGTTTCTGAT
193 GTGTGTTTCTGAT
* *
8064451 TTTCAATTTGTTTGTTGTTTTCTTCTTTTAAATGCATGAAAAATTCTAGGGAATCTGCATTTTTC
1 TTTCAATTTGTTAGTTGTTTTCTTCTTTTGAATGCATGAAAAATTCTAGGGAATCTGCATTTTTC
*
8064516 TG-TTTGAATTGAGGAAAAGTCTT
66 TGTTTTGGATTGAGGAAAAGTCTT
8064539 AACTTGACTA
Statistics
Matches: 257, Mismatches: 32, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
204 19 0.07
205 8 0.03
206 3 0.01
207 152 0.59
209 50 0.19
210 2 0.01
211 5 0.02
212 18 0.07
ACGTcount: A:0.23, C:0.11, G:0.20, T:0.46
Consensus pattern (205 bp):
TTTCAATTTGTTAGTTGTTTTCTTCTTTTGAATGCATGAAAAATTCTAGGGAATCTGCATTTTTC
TGTTTTGGATTGAGGAAAAGTCTTGAATATCAATTAGCTTGAACCACAATATATTGCTGATATAG
TTGTGTTGTTTTCTGTTACACGAGCAAAGTTATTGACTTATAAGTTTAAGTCCCATGCTTGTGTG
TGTTTCTGAT
Found at i:8068877 original size:2 final size:2
Alignment explanation
Indices: 8068870--8068894 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8068860 TCAATCTACA
8068870 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
8068895 ATTTACGACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8069074 original size:13 final size:13
Alignment explanation
Indices: 8069058--8069118 Score: 68
Period size: 13 Copynumber: 4.7 Consensus size: 13
8069048 CGCAATGAGT
*
8069058 GTCATAAATGTGC
1 GTCATAAATGCGC
* * *
8069071 GTCAGAAATGTGG
1 GTCATAAATGCGC
*
8069084 GTCATAAATGCGT
1 GTCATAAATGCGC
8069097 GTCATAAATGCGC
1 GTCATAAATGCGC
*
8069110 GTCAAAAAT
1 GTCATAAAT
8069119 TCATGACGCA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 41 1.00
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (13 bp):
GTCATAAATGCGC
Found at i:8074680 original size:95 final size:95
Alignment explanation
Indices: 8074555--8074777 Score: 331
Period size: 95 Copynumber: 2.3 Consensus size: 95
8074545 TACTGATTAG
* * *
8074555 GTAGTATCGATACTATGGTGAGGGTATCGATACCAGGTAACATCGAACCTAATTTTGGTATCCAT
1 GTAGTATCGATACCATGGTGAGGGTATCGATACCAAGCAACATCGAACCTAATTTTGGTATCCAT
* * * *
8074620 ACCGGAAGGGGGTATCAGTACCCTAGCATA
66 ACCCGAAGGGGGTATCAATACCATAGCAGA
* * *
8074650 GTAGTATCGATACCATGGTGAGGGTATCGATACCAAGCCACATCGAAGCTAATTTTGGTATCGAT
1 GTAGTATCGATACCATGGTGAGGGTATCGATACCAAGCAACATCGAACCTAATTTTGGTATCCAT
*
8074715 ACCCGAAGGGGGTATCAATACCATAGTAGA
66 ACCCGAAGGGGGTATCAATACCATAGCAGA
8074745 GTAGTATCGATACCATGGT-AGGGGTATCGATAC
1 GTAGTATCGATACCATGGTGA-GGGTATCGATAC
8074778 TGAAGGGCCA
Statistics
Matches: 116, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
94 1 0.01
95 115 0.99
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (95 bp):
GTAGTATCGATACCATGGTGAGGGTATCGATACCAAGCAACATCGAACCTAATTTTGGTATCCAT
ACCCGAAGGGGGTATCAATACCATAGCAGA
Found at i:8074773 original size:20 final size:20
Alignment explanation
Indices: 8074723--8074777 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 20
8074713 ATACCCGAAG
*
8074723 GGGGTATCAATACCATAGTA
1 GGGGTATCGATACCATAGTA
* *
8074743 GAGTAGTATCGATACCATGGTA
1 G-G-GGTATCGATACCATAGTA
8074765 GGGGTATCGATAC
1 GGGGTATCGATAC
8074778 TGAAGGGCCA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 11 0.38
21 2 0.07
22 16 0.55
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (20 bp):
GGGGTATCGATACCATAGTA
Found at i:8075176 original size:59 final size:59
Alignment explanation
Indices: 8075103--8075248 Score: 222
Period size: 59 Copynumber: 2.5 Consensus size: 59
8075093 ACAAAATGGC
* *
8075103 ACTAAGTGTGCTAAAATAATAAGGAAATCATACT-ACGTGTATGAATTTCTAGATAGGGA
1 ACTAAGTGTGCTAAAATGATAAGGAAATCATACTGA-GTGTATGAATTTCCAGATAGGGA
** * *
8075162 ACTTCGTGTACTAAAATGATAAGGAAATCATACTGAGTGTATGAATTTCCAGATAGGGC
1 ACTAAGTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGAATTTCCAGATAGGGA
8075221 ACTAAGTGTGCTAAAATGATAAGGAAAT
1 ACTAAGTGTGCTAAAATGATAAGGAAAT
8075249 AGATAGGGCA
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
59 76 0.99
60 1 0.01
ACGTcount: A:0.40, C:0.11, G:0.21, T:0.28
Consensus pattern (59 bp):
ACTAAGTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGAATTTCCAGATAGGGA
Found at i:8075267 original size:37 final size:37
Alignment explanation
Indices: 8075212--8075285 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
8075202 ATGAATTTCC
8075212 AGATAGGGCACTAAGTGTGCTAAAATGATAAGGAAAT
1 AGATAGGGCACTAAGTGTGCTAAAATGATAAGGAAAT
**
8075249 AGATAGGGCACTTCGTGTGCTAAAATGATAAGGAAAT
1 AGATAGGGCACTAAGTGTGCTAAAATGATAAGGAAAT
8075286 CATACTAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.41, C:0.09, G:0.27, T:0.23
Consensus pattern (37 bp):
AGATAGGGCACTAAGTGTGCTAAAATGATAAGGAAAT
Found at i:8081496 original size:2 final size:2
Alignment explanation
Indices: 8081489--8081527 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
8081479 CCCGGTTAGT
*
8081489 TA TA TA TA TA TA TA TT TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8081528 ATGAATTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8082695 original size:24 final size:22
Alignment explanation
Indices: 8082663--8082721 Score: 75
Period size: 21 Copynumber: 2.6 Consensus size: 22
8082653 TACCACATAG
*
8082663 GGTATCGATACCCGTATGCAAAGA
1 GGTATCGATACCC-TATCCAAA-A
*
8082687 GGTATCGATA-CCTATCCTAAA
1 GGTATCGATACCCTATCCAAAA
8082708 GGTATCGATACCCT
1 GGTATCGATACCCT
8082722 TTATGTTGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 11 0.34
22 9 0.28
23 2 0.06
24 10 0.31
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (22 bp):
GGTATCGATACCCTATCCAAAA
Found at i:8088950 original size:12 final size:12
Alignment explanation
Indices: 8088935--8088982 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
8088925 GATCAAACAG
*
8088935 ACCTCTAAACCC
1 ACCTCCAAACCC
*
8088947 ACCTCCAAACCT
1 ACCTCCAAACCC
*
8088959 ACCTCCAAATCC
1 ACCTCCAAACCC
*
8088971 ACCTCCTAACCC
1 ACCTCCAAACCC
8088983 TAATCCAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.31, C:0.52, G:0.00, T:0.17
Consensus pattern (12 bp):
ACCTCCAAACCC
Found at i:8088962 original size:24 final size:24
Alignment explanation
Indices: 8088935--8088981 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
8088925 GATCAAACAG
*
8088935 ACCTCTAAACCCACCTCCAAACCT
1 ACCTCCAAACCCACCTCCAAACCT
* *
8088959 ACCTCCAAATCCACCTCCTAACC
1 ACCTCCAAACCCACCTCCAAACC
8088982 CTAATCCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.32, C:0.51, G:0.00, T:0.17
Consensus pattern (24 bp):
ACCTCCAAACCCACCTCCAAACCT
Found at i:8088989 original size:24 final size:24
Alignment explanation
Indices: 8088945--8088992 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
8088935 ACCTCTAAAC
*
8088945 CCACCTCCAAACCTACCTCCAAAT
1 CCACCTCCAAACCTACATCCAAAT
*
8088969 CCACCTCCTAACCCTA-ATCCAAAT
1 CCACCTCC-AAACCTACATCCAAAT
8088993 GAACCTGAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.33, C:0.48, G:0.00, T:0.19
Consensus pattern (24 bp):
CCACCTCCAAACCTACATCCAAAT
Found at i:8090962 original size:24 final size:23
Alignment explanation
Indices: 8090930--8090989 Score: 79
Period size: 21 Copynumber: 2.7 Consensus size: 23
8090920 TAACCTATAG
*
8090930 GGTATCGATACCCCTATCCAAAGA
1 GGTACCGATACCCCTATCCAAA-A
*
8090954 GGTACCGATA--CCTATCCCAAA
1 GGTACCGATACCCCTATCCAAAA
8090975 GGTACCGATACCCCT
1 GGTACCGATACCCCT
8090990 TATGTTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 11 0.34
22 9 0.28
23 3 0.09
24 9 0.28
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.20
Consensus pattern (23 bp):
GGTACCGATACCCCTATCCAAAA
Found at i:8099442 original size:24 final size:24
Alignment explanation
Indices: 8099377--8099447 Score: 80
Period size: 24 Copynumber: 3.1 Consensus size: 24
8099367 ATCCACAGTC
8099377 TTTATGTATGTCTATTATTAAGTG
1 TTTATGTATGTCTATTATTAAGTG
**
8099401 -TT-T-T-TGT-TAAAGATTAAGTG
1 TTTATGTATGTCT-ATTATTAAGTG
8099421 TTTATGTATGTCTATTATTAAGTG
1 TTTATGTATGTCTATTATTAAGTG
8099445 TTT
1 TTT
8099448 GATTGTTACT
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
19 1 0.03
20 12 0.32
21 3 0.08
22 2 0.05
23 3 0.08
24 15 0.41
25 1 0.03
ACGTcount: A:0.25, C:0.03, G:0.17, T:0.55
Consensus pattern (24 bp):
TTTATGTATGTCTATTATTAAGTG
Found at i:8107691 original size:11 final size:11
Alignment explanation
Indices: 8107677--8107701 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8107667 CATTCATAAC
8107677 TTTGGCTCAAT
1 TTTGGCTCAAT
8107688 TTTGGCTCAAT
1 TTTGGCTCAAT
8107699 TTT
1 TTT
8107702 CTTCGAGTTT
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:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (11 bp):
TTTGGCTCAAT
Found at i:8114200 original size:18 final size:19
Alignment explanation
Indices: 8114160--8114203 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
8114150 TTTGGTTCAT
* *
8114160 GGAATATAAGATTACCAGTG
1 GGAATAAAAGATTACCA-CG
8114180 GGAATAAAAGATTACC-CG
1 GGAATAAAAGATTACCACG
8114198 GGAATA
1 GGAATA
8114204 GGATTACTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 7 0.32
20 15 0.68
ACGTcount: A:0.43, C:0.11, G:0.25, T:0.20
Consensus pattern (19 bp):
GGAATAAAAGATTACCACG
Found at i:8114342 original size:18 final size:18
Alignment explanation
Indices: 8114319--8114366 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
8114309 AAATTATCCT
*
8114319 TATTATATATTTGTATAA
1 TATTATATATTTGTAAAA
*
8114337 TATTATA-AATTGTAAAA
1 TATTATATATTTGTAAAA
8114354 TATTTATATATTT
1 TA-TTATATATTT
8114367 TCTTTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 10 0.40
18 12 0.48
19 3 0.12
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (18 bp):
TATTATATATTTGTAAAA
Found at i:8114418 original size:36 final size:37
Alignment explanation
Indices: 8114342--8114414 Score: 114
Period size: 36 Copynumber: 2.0 Consensus size: 37
8114332 TATAATATTA
*
8114342 TAAATTGTAAAATATTTATATATTTTCTTTAGAAAAT
1 TAAATTGTAAAATATTTATATATTTTCTTTACAAAAT
*
8114379 TAAATT-TATAATATTTATATATTTT-TTTACAAAAT
1 TAAATTGTAAAATATTTATATATTTTCTTTACAAAAT
8114414 T
1 T
8114415 TAAAATATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
35 10 0.29
36 18 0.53
37 6 0.18
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (37 bp):
TAAATTGTAAAATATTTATATATTTTCTTTACAAAAT
Found at i:8114424 original size:35 final size:36
Alignment explanation
Indices: 8114352--8114424 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 36
8114342 TAAATTGTAA
* *
8114352 AATATTTATATATTTTCTTTAGAAAATTAAATTTAT
1 AATATTTATATATTTTCTTTACAAAATTAAATATAT
8114388 AATATTTATATATTTT-TTTACAAAATTTAAA-ATAT
1 AATATTTATATATTTTCTTTACAAAA-TTAAATATAT
8114423 AA
1 AA
8114425 AAAAGATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
35 13 0.38
36 21 0.62
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (36 bp):
AATATTTATATATTTTCTTTACAAAATTAAATATAT
Found at i:8115741 original size:2 final size:2
Alignment explanation
Indices: 8115734--8115782 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
8115724 AATTGACATT
8115734 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8115776 TA TA TA T
1 TA TA TA T
8115783 GGAAAATCGC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8123986 original size:197 final size:197
Alignment explanation
Indices: 8123631--8124520 Score: 1212
Period size: 197 Copynumber: 4.6 Consensus size: 197
8123621 AATATAATAG
* * * * * *
8123631 GTTTAAATTTGACAAAACCGGTAAAGATCTATTGGAATGGTTGAAATTTGTATTGATACGTTTA-
1 GTTTCAATTTGACAAAACCGGTAAAGAGCTACTGGAATTGTTGAAATTTGTATCGATACTTTTAT
*
8123695 AAGTATATGTACCAAAGTATCGGTACTTTAGGAATTTAAAAGAATTGCAATAATAACGACTATAA
66 AAGTATATGTACCAAAGTATCGATACTTTAGGAATTTAAAAGAATTGCAATAATAACGACTATAA
8123760 AGTATCGATACCTTAGACACATGTATCGATACATGACAATATAACCA-ATTTAAATTTGACAAAA
131 AGTATCGATACCTTAGACACATGTATCGATACATGACAATATAA-CATATTTAAATTTGACAAAA
*
8123824 TC-
195 CCA
* * *
8123826 GATTTCAATTTGACAAAACCGGTAAAGAGCTA-TCGAAATTATTGAAATTTGTATTGATACTTTT
1 G-TTTCAATTTGACAAAACCGGTAAAGAGCTACT-GGAATTGTTGAAATTTGTATCGATACTTTT
*
8123890 ATAAGTATATGTACCAAAGTATTGATACTTTAGGAATTTAAAAGAATTGCAATAATAGA-GACTA
64 ATAAGTATATGTACCAAAGTATCGATACTTTAGGAATTTAAAAGAATTGCAATAATA-ACGACTA
* * * * * *
8123954 TAAAGTATTGATACATTATACACATTTATCGATACATGACAATATAATATGTTTAAATTTGACAA
128 TAAAGTATCGATACCTTAGACACATGTATCGATACATGACAATATAACATATTTAAATTTGACAA
8124019 AACCA
193 AACCA
* *
8124024 GTTTAAATTTGACAAAACCGGTAAAGAGCTACTGGAATAGTTGAAATTTGTATCGATA-TGTTTA
1 GTTTCAATTTGACAAAACCGGTAAAGAGCTACTGGAATTGTTGAAATTTGTATCGATACT-TTTA
* * *
8124088 TAATTATATGTACCAAAGTATCGATACTTTAGGAATTTAAAAGAATTGCAATAATAATGCCTATA
65 TAAGTATATGTACCAAAGTATCGATACTTTAGGAATTTAAAAGAATTGCAATAATAACGACTATA
* *
8124153 AAGTATCAATACCTTAGACACATGTATCGATACATGAC--TATAACATGTTTAAATTTGACAAAA
130 AAGTATCGATACCTTAGACACATGTATCGATACATGACAATATAACATATTTAAATTTGACAAAA
8124216 CCA
195 CCA
* * * * *
8124219 GTTTTAATTTGAC-AAACTGATAAAGAACTACTGGAATGGTTGAAATTTGTATCGATACTTTTAT
1 GTTTCAATTTGACAAAACCGGTAAAGAGCTACTGGAATTGTTGAAATTTGTATCGATACTTTTAT
* * * * *
8124283 AAATATATGTACCAAAATATCGATACTTTAGGAATTTAAAAGAATTTCAATAATAGCGCCTATAA
66 AAGTATATGTACCAAAGTATCGATACTTTAGGAATTTAAAAGAATTGCAATAATAACGACTATAA
* * *
8124348 AGTATCGATACCTTAGACACGTGTATCGATACATGACAATATAACATGTTGAAATTTGACAAAAC
131 AGTATCGATACCTTAGACACATGTATCGATACATGACAATATAACATATTTAAATTTGACAAAAC
8124413 CA
196 CA
* * * * *
8124415 GTTTCAATTTGAGAAAACTGGTAAAGTGCTACTGGAATTGTTTAAA---ATATCGATA-TGTTTA
1 GTTTCAATTTGACAAAACCGGTAAAGAGCTACTGGAATTGTTGAAATTTGTATCGATACT-TTTA
* * * *
8124476 TAAGCATATGTACCATAGTATCGGTACTTAAGGAATTTAAAAGAA
65 TAAGTATATGTACCAAAGTATCGATACTTTAGGAATTTAAAAGAA
8124521 ATGAAAAAAG
Statistics
Matches: 625, Mismatches: 56, Indels: 29
0.88 0.08 0.04
Matches are distributed among these distances:
193 1 0.00
194 191 0.31
195 42 0.07
196 96 0.15
197 292 0.47
198 3 0.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (197 bp):
GTTTCAATTTGACAAAACCGGTAAAGAGCTACTGGAATTGTTGAAATTTGTATCGATACTTTTAT
AAGTATATGTACCAAAGTATCGATACTTTAGGAATTTAAAAGAATTGCAATAATAACGACTATAA
AGTATCGATACCTTAGACACATGTATCGATACATGACAATATAACATATTTAAATTTGACAAAAC
CA
Found at i:8124029 original size:20 final size:20
Alignment explanation
Indices: 8124004--8124042 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
8123994 AATATAATAT
8124004 GTTTAAATTTGACAAAACCA
1 GTTTAAATTTGACAAAACCA
8124024 GTTTAAATTTGACAAAACC
1 GTTTAAATTTGACAAAACC
8124043 GGTAAAGAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (20 bp):
GTTTAAATTTGACAAAACCA
Found at i:8124380 original size:391 final size:393
Alignment explanation
Indices: 8123631--8124520 Score: 1294
Period size: 391 Copynumber: 2.3 Consensus size: 393
8123621 AATATAATAG
* * * * *
8123631 GTTTAAATTTGACAAAACCGGTAAAGATCTATTGGAATGGTTGAAATTTGTATTGATACGTTTA-
1 GTTTAAATTTGACAAAACCGGTAAAGAGCTACTGGAATAGTTGAAATTTGTATCGATATGTTTAT
8123695 AAGTATATGTACCAAAGTATCGGTACTTTAGGAATTTAAAAGAATTGCAATAATAACGACTATAA
66 AAGTATATGTACCAAAGTATCGGTACTTTAGGAATTTAAAAGAATTGCAATAATAACGACTATAA
* *
8123760 AGTATCGATACCTTAGACACATGTATCGATACATGACAATATAACCAATTTAAATTTGACAAAAT
131 AGTATCAATACCTTAGACACATGTATCGATACATGAC-ATATAACCAATTTAAATTTGACAAAAC
* * * *
8123825 CGATTTCAATTTGACAAAACCGGTAAAGAGCTATCGAAATTATTGAAATTTGTATTGATACTTTT
195 CGATTTCAATTTGACAAAACCGATAAAGAACTATCGAAATGATTGAAATTTGTATCGATACTTTT
* * *
8123890 ATAAGTATATGTACCAAAGTATTGATACTTTAGGAATTTAAAAGAATTGCAATAATAGAGACTAT
260 ATAAATATATGTACCAAAATATCGATACTTTAGGAATTTAAAAGAATTGCAATAATAGAGACTAT
* * * * *
8123955 AAAGTATTGATACATTATACACATTTATCGATACATGACAATATAATATGTTTAAATTTGACAAA
325 AAAGTATCGATACATTAGACACATGTATCGATACATGACAATATAACATGTTGAAATTTGACAAA
8124020 ACCA
390 ACCA
8124024 GTTTAAATTTGACAAAACCGGTAAAGAGCTACTGGAATAGTTGAAATTTGTATCGATATGTTTAT
1 GTTTAAATTTGACAAAACCGGTAAAGAGCTACTGGAATAGTTGAAATTTGTATCGATATGTTTAT
* * * *
8124089 AATTATATGTACCAAAGTATCGATACTTTAGGAATTTAAAAGAATTGCAATAATAATGCCTATAA
66 AAGTATATGTACCAAAGTATCGGTACTTTAGGAATTTAAAAGAATTGCAATAATAACGACTATAA
*
8124154 AGTATCAATACCTTAGACACATGTATCGATACATGAC-TATAA-CATGTTTAAATTTGACAAAAC
131 AGTATCAATACCTTAGACACATGTATCGATACATGACATATAACCA-ATTTAAATTTGACAAAAC
* * * *
8124217 C-AGTTTTAATTTGAC-AAACTGATAAAGAACTA-CTGGAATGGTTGAAATTTGTATCGATACTT
195 CGA-TTTCAATTTGACAAAACCGATAAAGAACTATC-GAAATGATTGAAATTTGTATCGATACTT
* * *
8124279 TTATAAATATATGTACCAAAATATCGATACTTTAGGAATTTAAAAGAATTTCAATAATAGCGCCT
258 TTATAAATATATGTACCAAAATATCGATACTTTAGGAATTTAAAAGAATTGCAATAATAGAGACT
* *
8124344 ATAAAGTATCGATACCTTAGACACGTGTATCGATACATGACAATATAACATGTTGAAATTTGACA
323 ATAAAGTATCGATACATTAGACACATGTATCGATACATGACAATATAACATGTTGAAATTTGACA
8124409 AAACCA
388 AAACCA
* * * * * * *
8124415 GTTTCAATTTGAGAAAACTGGTAAAGTGCTACTGGAATTGTTTAAA---ATATCGATATGTTTAT
1 GTTTAAATTTGACAAAACCGGTAAAGAGCTACTGGAATAGTTGAAATTTGTATCGATATGTTTAT
* * *
8124477 AAGCATATGTACCATAGTATCGGTACTTAAGGAATTTAAAAGAA
66 AAGTATATGTACCAAAGTATCGGTACTTTAGGAATTTAAAAGAA
8124521 ATGAAAAAAG
Statistics
Matches: 448, Mismatches: 45, Indels: 13
0.89 0.09 0.03
Matches are distributed among these distances:
388 54 0.12
390 1 0.00
391 204 0.46
392 33 0.07
393 59 0.13
394 97 0.22
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (393 bp):
GTTTAAATTTGACAAAACCGGTAAAGAGCTACTGGAATAGTTGAAATTTGTATCGATATGTTTAT
AAGTATATGTACCAAAGTATCGGTACTTTAGGAATTTAAAAGAATTGCAATAATAACGACTATAA
AGTATCAATACCTTAGACACATGTATCGATACATGACATATAACCAATTTAAATTTGACAAAACC
GATTTCAATTTGACAAAACCGATAAAGAACTATCGAAATGATTGAAATTTGTATCGATACTTTTA
TAAATATATGTACCAAAATATCGATACTTTAGGAATTTAAAAGAATTGCAATAATAGAGACTATA
AAGTATCGATACATTAGACACATGTATCGATACATGACAATATAACATGTTGAAATTTGACAAAA
CCA
Found at i:8126926 original size:18 final size:17
Alignment explanation
Indices: 8126903--8126941 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
8126893 TACGCGGAGA
*
8126903 AAAAAAATATGATGAATT
1 AAAAAAATATGAAGAA-T
8126921 AAAAAAATATGAAGAAT
1 AAAAAAATATGAAGAAT
8126938 AAAA
1 AAAA
8126942 GTTGGATGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (17 bp):
AAAAAAATATGAAGAAT
Found at i:8128180 original size:146 final size:145
Alignment explanation
Indices: 8127698--8128223 Score: 710
Period size: 143 Copynumber: 3.6 Consensus size: 145
8127688 ACCGATATCG
*
8127698 ATACTTTTATTCCAATATGCTTGTCAAACAATTTGCACGCCAAATATATCGATACACATTATTAA
1 ATACTTTTATTCCAATATGCTTGTCAAACAATTTGCACGCCAAATGTATCGATACACATTATTAA
* * *
8127763 AGTATCGATATTTATAATTTC-AAATAATATATGCAAAGTATGAAAATGTCTAAGTATCGATACT
66 AGTATCGATATTTATAATTTCGAAACAATGTATGCAAAGTATGAAAATGTCCAAGTATCGATACT
* *
8127827 TCTTATGCCGGTATGG
131 TCTTATG-TGGTATGA
* * *
8127843 ATACTTTTATTTCAGTATGCTTGTCAAACAATTTGCACGACAAATGTATCGATACACATTATTAA
1 ATACTTTTATTCCAATATGCTTGTCAAACAATTTGCACGCCAAATGTATCGATACACATTATTAA
* *
8127908 AGTATCAATATTTATAATTTCGAAACAATGTATGC---TTATGAAAATGTCCAAGTATCGATACT
66 AGTATCGATATTTATAATTTCGAAACAATGTATGCAAAGTATGAAAATGTCCAAGTATCGATACT
*
8127970 TCTCATGTCGGTAT-A
131 TCTTATGT-GGTATGA
* * *
8127985 GATACTTTTATTCCATTATGCTTGTCAAACAATTTGCATGCCAAATGTATCGATGCACATTATTA
1 -ATACTTTTATTCCAATATGCTTGTCAAACAATTTGCACGCCAAATGTATCGATACACATTATTA
*
8128050 AAGTATCGATATTTATAATTTCGAAACAATGTATGCAAAGTATGAAAATATCCAAGTATCGATAC
65 AAGTATCGATATTTATAATTTCGAAACAATGTATGCAAAGTATGAAAATGTCCAAGTATCGATAC
*
8128115 TTCTTATGATTGTATGA
130 TTCTTATG-TGGTATGA
* * * **
8128132 ATACTTTTATTCTAATATGATTCTCAAACAATTTGCACG-CATTTTGTATCGATACGCACA-TA-
1 ATACTTTTATTCCAATATGCTTGTCAAACAATTTGCACGCCA-AATGTATCGATA--CACATTAT
*
8128194 TAAAGTATCGATACTTGA-AATTTCGAAACA
63 TAAAGTATCGATA-TTTATAATTTCGAAACA
8128224 TATTACTTTA
Statistics
Matches: 338, Mismatches: 31, Indels: 23
0.86 0.08 0.06
Matches are distributed among these distances:
143 130 0.38
145 83 0.25
146 114 0.34
147 7 0.02
148 4 0.01
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (145 bp):
ATACTTTTATTCCAATATGCTTGTCAAACAATTTGCACGCCAAATGTATCGATACACATTATTAA
AGTATCGATATTTATAATTTCGAAACAATGTATGCAAAGTATGAAAATGTCCAAGTATCGATACT
TCTTATGTGGTATGA
Found at i:8128218 original size:289 final size:288
Alignment explanation
Indices: 8127697--8128223 Score: 794
Period size: 289 Copynumber: 1.8 Consensus size: 288
8127687 TACCGATATC
8127697 GATACTTTTATTCCAATATGCTTGTCAAACAATTTGCACGCCAAATATATCGATACACATTATTA
1 GATACTTTTATTCCAATATGCTTGTCAAACAATTTGCACGCCAAATATATCGATACACATTATTA
* * *
8127762 AAGTATCGATATTTATAATTTCAAATAATATATGCAAAGTATGAAAATGTCTAAGTATCGATACT
66 AAGTATCGATATTTATAATTTCAAACAATATATGCAAAGTATGAAAATATCCAAGTATCGATACT
* * * * *
8127827 TCTTATGCCGGTATGGATACTTTTATTTCAGTATGCTTGTCAAACAATTTGCACGACAAATGTAT
131 TCTTATGACGGTATGAATACTTTTATTTCAATATGATTCTCAAACAATTTGCACGACAAATGTAT
*
8127892 CGATACACATTATTAAAGTATCAATATTTATAATTTCGAAACAATGTATGCTTATGAAAATGTCC
196 CGATACACATTATTAAAGTATCAATATTGATAATTTCGAAACAATGTATGCTTATGAAAATGTCC
8127957 AAGTATCGATACTTCTCATGTCGGTATA
261 AAGTATCGATACTTCTCATGTCGGTATA
* * * *
8127985 GATACTTTTATTCCATTATGCTTGTCAAACAATTTGCATGCCAAATGTATCGATGCACATTATTA
1 GATACTTTTATTCCAATATGCTTGTCAAACAATTTGCACGCCAAATATATCGATACACATTATTA
*
8128050 AAGTATCGATATTTATAATTTCGAAACAATGTATGCAAAGTATGAAAATATCCAAGTATCGATAC
66 AAGTATCGATATTTATAATTTC-AAACAATATATGCAAAGTATGAAAATATCCAAGTATCGATAC
** **
8128115 TTCTTATGATTGTATGAATACTTTTA-TTCTAATATGATTCTCAAACAATTTGCACG-CATTTTG
130 TTCTTATGACGGTATGAATACTTTTATTTC-AATATGATTCTCAAACAATTTGCACGACA-AATG
*
8128178 TATCGATACGCACA-TA-TAAAGTATCGATACTTGA-AATTTCGAAACA
193 TATCGATA--CACATTATTAAAGTATCAATA-TTGATAATTTCGAAACA
8128224 TATTACTTTA
Statistics
Matches: 214, Mismatches: 19, Indels: 11
0.88 0.08 0.05
Matches are distributed among these distances:
288 88 0.41
289 117 0.55
290 5 0.02
291 4 0.02
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (288 bp):
GATACTTTTATTCCAATATGCTTGTCAAACAATTTGCACGCCAAATATATCGATACACATTATTA
AAGTATCGATATTTATAATTTCAAACAATATATGCAAAGTATGAAAATATCCAAGTATCGATACT
TCTTATGACGGTATGAATACTTTTATTTCAATATGATTCTCAAACAATTTGCACGACAAATGTAT
CGATACACATTATTAAAGTATCAATATTGATAATTTCGAAACAATGTATGCTTATGAAAATGTCC
AAGTATCGATACTTCTCATGTCGGTATA
Found at i:8128458 original size:198 final size:200
Alignment explanation
Indices: 8128095--8128490 Score: 530
Period size: 198 Copynumber: 2.0 Consensus size: 200
8128085 CAAAGTATGA
** *
8128095 AAATATCCAAGTATCGATACTTCTTATGATTGTATGAATACTTTTATTCTAATATGATTCTCAAA
1 AAATATCCAAGTATCGATACTTCTTATGATAATATGAATACTTTTATTCCAATATGATTCTCAAA
* ***
8128160 CAATTTGCACGCATTTTGTATCGATACGCACATATAAAGTATCGATACTTGAAATTTCGAAACAT
66 CAATTTGCACACAAAATGTATCGATAC-CACATATAAAGTATCGATACTTGAAATTTCGAAACAT
* * *
8128225 ATTACTTTAAAATAGTAGGTAAATTAATAATGTAAAAGGTAAAAGTCTACCGATATAATGATAAT
130 ATTACTTTAAAATAATAGGTAAATTAACAATGTAAAAGGTAAAAGTCTACCGATATAATAATAAT
8128290 AGGTGT
195 AGGTGT
* * *
8128296 AAATA-CCAAGTATCGATAC-TCTTTAT-ATAAATATGAATATTTTTATTCCAGTATGCTTCTCA
1 AAATATCCAAGTATCGATACTTC-TTATGAT-AATATGAATACTTTTATTCCAATATGATTCTCA
** * *
8128358 AACAATTTGCACACAAAATGTATCGATA-CATGTATAAAGTATCGCTACTTGAAATTTCGAAACC
64 AACAATTTGCACACAAAATGTATCGATACCACATATAAAGTATCGATACTTGAAATTTCGAAACA
* * * * * *
8128422 TGTTACTTTAAAGTAATAGGTAAATTAACAATGTAAACGGTAAAAGTCTACTGGTATATTAATAA
129 TATTACTTTAAAATAATAGGTAAATTAACAATGTAAAAGGTAAAAGTCTACCGATATAATAATAA
8128487 TAGG
194 TAGG
8128491 CTATCGATAC
Statistics
Matches: 170, Mismatches: 23, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
198 92 0.54
199 4 0.02
200 69 0.41
201 5 0.03
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (200 bp):
AAATATCCAAGTATCGATACTTCTTATGATAATATGAATACTTTTATTCCAATATGATTCTCAAA
CAATTTGCACACAAAATGTATCGATACCACATATAAAGTATCGATACTTGAAATTTCGAAACATA
TTACTTTAAAATAATAGGTAAATTAACAATGTAAAAGGTAAAAGTCTACCGATATAATAATAATA
GGTGT
Found at i:8129063 original size:18 final size:18
Alignment explanation
Indices: 8129042--8129085 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 18
8129032 CAACTAAAAC
8129042 CTTCTTCTCAACCAAGAT
1 CTTCTTCTCAACCAAGAT
*
8129060 CTTC-T-T-AACCAAGGT
1 CTTCTTCTCAACCAAGAT
8129075 CTTCTTCTCAA
1 CTTCTTCTCAA
8129086 GTAAGGTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
15 12 0.55
16 2 0.09
17 2 0.09
18 6 0.27
ACGTcount: A:0.25, C:0.32, G:0.07, T:0.36
Consensus pattern (18 bp):
CTTCTTCTCAACCAAGAT
Found at i:8132150 original size:199 final size:201
Alignment explanation
Indices: 8131810--8132233 Score: 568
Period size: 199 Copynumber: 2.1 Consensus size: 201
8131800 ATTTGCTTGT
*
8131810 GTAAATACCAAGTATCAATACTTTTATATAGGCATTGATACTTTTATTCTAGTATGATTCTCAAA
1 GTAAATACCAAGTATCAATACTTTTATATAGGCATTGATACTTTTATTCCAGTATGATTCTCAAA
* * *
8131875 CAAATTACATGTAAAATGTATCGATACACATATATAAAATATTAATACTTGGAATTTCGAAACCT
66 CAAATTACATGCAAAATGTATCGATACACATATATAAAATATCAATACTTAGAATTTCGAAACCT
* * * *
8131940 ATTACTTTAAAGTAATAGGTTAATTAACAATGTAAACGATAAA-AGTT-TACCGGTATATTGATA
131 ATTACTTTAAAGTAATAGGTAAATTAACAATGTAAACGATAAACAGTTCTACCGATATAATGAAA
8132003 ATAGGC
196 ATAGGC
* * * * *
8132009 GTAAATAACAAGTATCAATACTTTTTTATAGGTA-TGAATACTTTTATTCCAGTATGTTTTTCAA
1 GTAAATACCAAGTATCAATACTTTTATATAGGCATTG-ATACTTTTATTCCAGTATGATTCTCAA
* * * * * *
8132073 ACAATTTGCATGCAAAATGTATCGATACACATATATAAAGTATCGATACTTATAATTTC-AAAGT
65 ACAAATTACATGCAAAATGTATCGATACACATATATAAAATATCAATACTTAGAATTTCGAAA-C
* * *
8132137 CTATTACTTTAAAGTAATAGGTAAATTAACAATGTACACGGTAAACATTTCTACCGATATAATGA
129 CTATTACTTTAAAGTAATAGGTAAATTAACAATGTAAACGATAAACAGTTCTACCGATATAATGA
*
8132202 AAATAGGT
194 AAATAGGC
* *
8132210 GTAAATGTCCAAGTATCGATACTT
1 GTAAAT-ACCAAGTATCAATACTT
8132234 ATAATTTCGA
Statistics
Matches: 194, Mismatches: 26, Indels: 7
0.85 0.11 0.03
Matches are distributed among these distances:
198 5 0.03
199 148 0.76
200 3 0.02
201 24 0.12
202 14 0.07
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (201 bp):
GTAAATACCAAGTATCAATACTTTTATATAGGCATTGATACTTTTATTCCAGTATGATTCTCAAA
CAAATTACATGCAAAATGTATCGATACACATATATAAAATATCAATACTTAGAATTTCGAAACCT
ATTACTTTAAAGTAATAGGTAAATTAACAATGTAAACGATAAACAGTTCTACCGATATAATGAAA
ATAGGC
Found at i:8132302 original size:104 final size:104
Alignment explanation
Indices: 8132148--8132336 Score: 317
Period size: 104 Copynumber: 1.8 Consensus size: 104
8132138 TATTACTTTA
*
8132148 AAGTAATAGGTAAATTAACAATGTACACGGTAAACATTTCTACCGATATAATGAAAATAGGTGTA
1 AAGTAATAGGTAAATTAACAATGTACACGGTAAACATTTCTACCGATATAATGAAAATAGGCGTA
*
8132213 AATGTCCAAGTATCGATACTTATAATTTCGAAACCTATT
66 AATGTCCAAGTAACGATACTTATAATTTCGAAACCTATT
* *
8132252 AAGTAATAGTTAAATTAACAATGTACACGGTAAACGTTTCTACC-AGTATAATGAAAATAGGCGT
1 AAGTAATAGGTAAATTAACAATGTACACGGTAAACATTTCTACCGA-TATAATGAAAATAGGCGT
*
8132316 ATATGTCCAAGTAACGATACT
65 AAATGTCCAAGTAACGATACT
8132337 CATATATAAA
Statistics
Matches: 79, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
103 1 0.01
104 78 0.99
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (104 bp):
AAGTAATAGGTAAATTAACAATGTACACGGTAAACATTTCTACCGATATAATGAAAATAGGCGTA
AATGTCCAAGTAACGATACTTATAATTTCGAAACCTATT
Found at i:8132458 original size:131 final size:127
Alignment explanation
Indices: 8132220--8132504 Score: 375
Period size: 131 Copynumber: 2.2 Consensus size: 127
8132210 GTAAATGTCC
* *
8132220 AAGTATCGATACTTATAATTTCGAAACC--TATTAAGTAATAGTTAAATTAACAATGTACACGGT
1 AAGTATCGATACTTATAATTTCGAAACCTATATTAAGTAATAGGTAAATTAACAATGTACACGAT
* * *
8132283 AAACGTTTCTACCAGTATAATGAAAATAGGCGTATATGTCCAAGTA-ACGATACTCAT-ATATA
66 AAACGTTTCTACCAGTATAATGAAAATAGGCGTAAATATACAAGTATA-GATACT-ATCATATA
8132345 AAGTATCGATACTTATAATTTCGAAACCTATTATTTTAAAGTAATAGGTAAATTAACAATGTACA
1 AAGTATCGATACTTATAATTTCGAAACCTA-TA--TT-AAGTAATAGGTAAATTAACAATGTACA
* * *
8132410 CGATAAATGTTTCTATC-GATATTATGAAAATAGGCGTAAATATACAAGTATAGATACTATCATA
62 CGATAAACGTTTCTACCAG-TATAATGAAAATAGGCGTAAATATACAAGTATAGATACTATCATA
8132474 TA
126 TA
* *
8132476 AA-TATTGATACTTATAATTTCAAAACCTA
1 AAGTATCGATACTTATAATTTCGAAACCTA
8132505 AGTAAATTAA
Statistics
Matches: 141, Mismatches: 10, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
125 28 0.20
128 2 0.01
130 30 0.21
131 80 0.57
132 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (127 bp):
AAGTATCGATACTTATAATTTCGAAACCTATATTAAGTAATAGGTAAATTAACAATGTACACGAT
AAACGTTTCTACCAGTATAATGAAAATAGGCGTAAATATACAAGTATAGATACTATCATATA
Found at i:8135919 original size:43 final size:43
Alignment explanation
Indices: 8135858--8135941 Score: 159
Period size: 43 Copynumber: 2.0 Consensus size: 43
8135848 AACACAGAAA
*
8135858 AGGCGCCATTCTCATAAACACACCATGAGTTTTTATTTCCTAG
1 AGGCGCCATTCTCATAAACACACCATGAATTTTTATTTCCTAG
8135901 AGGCGCCATTCTCATAAACACACCATGAATTTTTATTTCCT
1 AGGCGCCATTCTCATAAACACACCATGAATTTTTATTTCCT
8135942 TCTCTCCAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (43 bp):
AGGCGCCATTCTCATAAACACACCATGAATTTTTATTTCCTAG
Found at i:8137357 original size:15 final size:15
Alignment explanation
Indices: 8137337--8137387 Score: 84
Period size: 15 Copynumber: 3.4 Consensus size: 15
8137327 TATTTTACTA
8137337 GGCGGGCGGATGTGG
1 GGCGGGCGGATGTGG
*
8137352 GGCGGGCGGATGTGA
1 GGCGGGCGGATGTGG
*
8137367 GGCGGGCGGATGCGG
1 GGCGGGCGGATGTGG
8137382 GGCGGG
1 GGCGGG
8137388 TAAGGTGTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.08, C:0.16, G:0.67, T:0.10
Consensus pattern (15 bp):
GGCGGGCGGATGTGG
Found at i:8141188 original size:19 final size:19
Alignment explanation
Indices: 8141147--8141189 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
8141137 ATGCCTAATT
* * *
8141147 TTATAAAACAATTATTAAT
1 TTATCAAACAATTATAAAA
8141166 TTATCAAACAATTATAAAA
1 TTATCAAACAATTATAAAA
8141185 TTATC
1 TTATC
8141190 TTTAAATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (19 bp):
TTATCAAACAATTATAAAA
Found at i:8142484 original size:67 final size:67
Alignment explanation
Indices: 8142327--8142526 Score: 226
Period size: 67 Copynumber: 3.0 Consensus size: 67
8142317 TGGAAAGAAA
** * ** * * * * * *
8142327 TATGTTTCAAGAGAAGCTATCTCAAGTGAGATAAAATTTTGTTTCGAGTGAAA-TATTTCAAA-A
1 TATGTTTCAAGAGAAAATGTCTCAAGCAAGATGAAACTTTGTTTCGAGAGAAACAATCTCAAAGG
8142390 TT
66 TT
* *
8142392 TACGTTTCAATG-GAAAATTGTCTCAAGCAAGATGAAACTTTGTTTCAAGAGAAACAATCTCAAA
1 TATGTTTCAA-GAGAAAA-TGTCTCAAGCAAGATGAAACTTTGTTTCGAGAGAAACAATCTCAAA
8142456 GGTT
64 GGTT
* *
8142460 TATGTTTCAAGAGAAAATGTCTCAAGCAATATGAAACTTTGTTTCGTGAGAAACAATCTCAAAGG
1 TATGTTTCAAGAGAAAATGTCTCAAGCAAGATGAAACTTTGTTTCGAGAGAAACAATCTCAAAGG
8142525 TT
66 TT
8142527 ATCAATTTTG
Statistics
Matches: 113, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
65 12 0.11
66 30 0.27
67 55 0.49
68 16 0.14
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (67 bp):
TATGTTTCAAGAGAAAATGTCTCAAGCAAGATGAAACTTTGTTTCGAGAGAAACAATCTCAAAGG
TT
Found at i:8142740 original size:99 final size:102
Alignment explanation
Indices: 8142572--8142813 Score: 289
Period size: 99 Copynumber: 2.4 Consensus size: 102
8142562 TTGTGTTTTG
* * *
8142572 AGGGAAAATGTCTCAAGCGAGACG-AATTTGTTTTGA--AAGAAACAATCTCAAGTCAGATTAAT
1 AGGGAAAATATCTCAAGCGAGACGAAATTTGTTTTGAGGAA-AAACAATCTCAAGTCAGATCAAC
* * ** * *
8142634 TTTGTTTCAAGTAAAACAACTTTGAAATTTG-TTC-CG
65 TTTGTTTCAAATAAAACAAATTCAAAATTTGCATCTCA
* * * *
8142670 A-GGAAATTATCTCAAGCGAAACGAAATTTGTTTTGAGGAAAAACAATCTCAAGTGAGGTCAACT
1 AGGGAAAATATCTCAAGCGAGACGAAATTTGTTTTGAGGAAAAACAATCTCAAGTCAGATCAACT
*
8142734 TTGTTTCAAATGAAACAAATTCAAAATTTGCATCTCA
66 TTGTTTCAAATAAAACAAATTCAAAATTTGCATCTCA
*
8142771 AGGGAAAATGTCTCAAGCGAGACGAAATTTGTTTTGAGAGAAA
1 AGGGAAAATATCTCAAGCGAGACGAAATTTGTTTTGAG-GAAA
8142814 TAATCGAAAA
Statistics
Matches: 120, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
97 19 0.16
98 13 0.11
99 45 0.38
100 4 0.03
101 2 0.02
102 33 0.28
103 4 0.03
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (102 bp):
AGGGAAAATATCTCAAGCGAGACGAAATTTGTTTTGAGGAAAAACAATCTCAAGTCAGATCAACT
TTGTTTCAAATAAAACAAATTCAAAATTTGCATCTCA
Found at i:8143148 original size:37 final size:36
Alignment explanation
Indices: 8143102--8143259 Score: 145
Period size: 36 Copynumber: 4.3 Consensus size: 36
8143092 CAAGATAGAT
* * *
8143102 AAAATTTTATTTCATGAGAAAATTGTATCAAGTGAAAC
1 AAAA-TTTATTTCAAGAG-AAATTGTATCAAGCGAGAC
* * *
8143140 AAAATTTATTTCAAGCGAGATTGTCTCAAGCGAGAC
1 AAAATTTATTTCAAGAGAAATTGTATCAAGCGAGAC
* * * * *
8143176 AAAATTTGTTTTAAGAGAATTTATATCAAGTGAGAC
1 AAAATTTATTTCAAGAGAAATTGTATCAAGCGAGAC
* ** * *
8143212 AAAATTTGTTTTTAGATAAATTGTCTCAAGCGAGAC
1 AAAATTTATTTCAAGAGAAATTGTATCAAGCGAGAC
8143248 AAAATTTGATTT
1 AAAATTT-ATTT
8143260 TATATAAAAC
Statistics
Matches: 98, Mismatches: 21, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
36 80 0.82
37 14 0.14
38 4 0.04
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.35
Consensus pattern (36 bp):
AAAATTTATTTCAAGAGAAATTGTATCAAGCGAGAC
Found at i:8143290 original size:72 final size:72
Alignment explanation
Indices: 8143127--8143345 Score: 203
Period size: 72 Copynumber: 3.0 Consensus size: 72
8143117 GAGAAAATTG
* ** *
8143127 TATCAAGTGAAACAAAATTTA-TTTCAAGCGAGATTGTCTCAAGCGAGACAAAATTTGTTTTAAG
1 TATCAAGTGAGAC-AAATTTAGTTTCAAGAAAAATTGTCTCAAGCGAGACAAAATTTGTTTTAAG
***
8143191 AGAATTTA
65 AGAAACAA
** *
8143199 TATCAAGTGAGACAAAATTT-GTTTTTAGATAAATTGTCTCAAGCGAGACAAAATTTGATTTTAT
1 TATCAAGTGAGAC-AAATTTAGTTTCAAGAAAAATTGTCTCAAGCGAGACAAAATTTG-TTTTA-
*
8143263 ATA-AAACAA
63 AGAGAAACAA
* * * * * *
8143272 TCTCATGTGAGATC-AATTTAGTTTCAAGAAAAATTATCTCAAACGAGACGAAACTTTGTTTCAA
1 TATCAAGTGAGA-CAAATTTAGTTTCAAGAAAAATTGTCTCAAGCGAGAC-AAAATTTGTTTTAA
8143336 GAGAAACAA
64 GAGAAACAA
8143345 T
1 T
8143346 CTTTAAGGTG
Statistics
Matches: 120, Mismatches: 20, Indels: 13
0.78 0.13 0.08
Matches are distributed among these distances:
72 57 0.47
73 53 0.44
74 10 0.08
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (72 bp):
TATCAAGTGAGACAAATTTAGTTTCAAGAAAAATTGTCTCAAGCGAGACAAAATTTGTTTTAAGA
GAAACAA
Found at i:8145411 original size:25 final size:24
Alignment explanation
Indices: 8145381--8145446 Score: 80
Period size: 24 Copynumber: 2.7 Consensus size: 24
8145371 TTTTATTTTC
8145381 AAAATTTTGAAAAATATAAATTA-AA
1 AAAATTTTGAAAAATAT--ATTATAA
* * *
8145406 AGAATTTTGAAAAATCTTTTATAA
1 AAAATTTTGAAAAATATATTATAA
8145430 AAAATTTTGAAAAATAT
1 AAAATTTTGAAAAATAT
8145447 TACCCATTTC
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
23 3 0.09
24 17 0.49
25 15 0.43
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.36
Consensus pattern (24 bp):
AAAATTTTGAAAAATATATTATAA
Found at i:8146621 original size:3 final size:3
Alignment explanation
Indices: 8146606--8146663 Score: 80
Period size: 3 Copynumber: 19.3 Consensus size: 3
8146596 ATATATATCC
* * *
8146606 TCA TCA GCA TCA TCA TCA TCA TCA TTA TCA TCA TCA TCA TCA TCA ACA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
*
8146654 TCA TTA TCA T
1 TCA TCA TCA T
8146664 TGTCACTATC
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.29, G:0.02, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:8146664 original size:6 final size:6
Alignment explanation
Indices: 8146614--8146684 Score: 52
Period size: 6 Copynumber: 11.3 Consensus size: 6
8146604 CCTCATCAGC
* * * **
8146614 ATCATC ATCATC ATCATT ATCATCAT CATCATC ATCAAC ATCATT ATCATT
1 ATCATT ATCATT ATCATT ATCAT--T -ATCATT ATCATT ATCATT ATCATT
* *
8146665 GTCACT ATCATT ATCATT AT
1 ATCATT ATCATT ATCATT AT
8146685 TACAATTCAT
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
6 47 0.89
8 1 0.02
9 5 0.09
ACGTcount: A:0.34, C:0.25, G:0.01, T:0.39
Consensus pattern (6 bp):
ATCATT
Found at i:8146828 original size:23 final size:24
Alignment explanation
Indices: 8146801--8146898 Score: 87
Period size: 23 Copynumber: 4.2 Consensus size: 24
8146791 ATAAATAGCA
8146801 CCGAAGTG-CCACATAGAAATGTC
1 CCGAAGTGACCACATAGAAATGTC
* * * *
8146824 TCGAAG-AACCACATAGTATTGTC
1 CCGAAGTGACCACATAGAAATGTC
** * *
8146847 TTGAA-TGACCGCATAAAAATGTC
1 CCGAAGTGACCACATAGAAATGTC
*
8146870 CCGAAG-GACCACAGAGAAATGTC
1 CCGAAGTGACCACATAGAAATGTC
8146893 CCGAAG
1 CCGAAG
8146899 AACCGTGTAG
Statistics
Matches: 57, Mismatches: 15, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
23 57 1.00
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.18
Consensus pattern (24 bp):
CCGAAGTGACCACATAGAAATGTC
Found at i:8147175 original size:45 final size:46
Alignment explanation
Indices: 8147077--8147194 Score: 111
Period size: 45 Copynumber: 2.6 Consensus size: 46
8147067 ATCACATATA
* * *
8147077 CATATAAGCACATAGATC-CTTATCAGC-TAGCTTATAGCACATGTT
1 CATATAATCACATAGATCACATAACA-CATAGCTTATAGCACATGTT
* * *
8147122 CATATAATCTAC-TAGGTCA-ATAACACATAGCTTATATCATAT-TCT
1 CATATAATC-ACATAGATCACATAACACATAGCTTATAGCACATGT-T
*
8147167 CATGTAATCACATAGATCACATAACACA
1 CATATAATCACATAGATCACATAACACA
8147195 CAAGTTATAG
Statistics
Matches: 59, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
44 4 0.07
45 45 0.76
46 10 0.17
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (46 bp):
CATATAATCACATAGATCACATAACACATAGCTTATAGCACATGTT
Found at i:8148949 original size:26 final size:26
Alignment explanation
Indices: 8148920--8148971 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
8148910 TTTTATTTCA
8148920 TTCTTCTATTTTTCTTT-TT-GCTTTTT
1 TTCTT-TATTTTT-TTTCTTCGCTTTTT
*
8148946 TTCTTTGTTTTTTTTCTTCGCTTTTT
1 TTCTTTATTTTTTTTCTTCGCTTTTT
8148972 CTTTTTCTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 3 0.13
25 8 0.35
26 12 0.52
ACGTcount: A:0.02, C:0.15, G:0.06, T:0.77
Consensus pattern (26 bp):
TTCTTTATTTTTTTTCTTCGCTTTTT
Found at i:8148993 original size:17 final size:16
Alignment explanation
Indices: 8148954--8148994 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
8148944 TTTTCTTTGT
*
8148954 TTTTTTTCTTCGCTTT
1 TTTTTTTCTTCGCTTC
8148970 TTCTTTTTCTTCGCTCTC
1 TT-TTTTTCTTCGCT-TC
8148988 TTTTTTT
1 TTTTTTT
8148995 TATTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 2 0.09
17 17 0.77
18 3 0.14
ACGTcount: A:0.00, C:0.22, G:0.05, T:0.73
Consensus pattern (16 bp):
TTTTTTTCTTCGCTTC
Found at i:8152108 original size:20 final size:19
Alignment explanation
Indices: 8152069--8152119 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
8152059 TTTAAAACAA
8152069 TTTT-AAGGAAAAATCATT
1 TTTTAAAGGAAAAATCATT
8152087 TTTTAAAGGAAAAATCATT
1 TTTTAAAGGAAAAATCATT
*
8152106 TTTTAAAAGAAAAA
1 TTTTAAAGGAAAAA
8152120 ATTGGTGTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 4 0.13
19 27 0.87
ACGTcount: A:0.51, C:0.04, G:0.10, T:0.35
Consensus pattern (19 bp):
TTTTAAAGGAAAAATCATT
Found at i:8153140 original size:4 final size:4
Alignment explanation
Indices: 8153131--8153161 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
8153121 TTCGAACATA
8153131 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
8153162 AGGTTAGCAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:8153325 original size:14 final size:14
Alignment explanation
Indices: 8153308--8153352 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
8153298 CGAATAATTC
*
8153308 AAATAAATTAATAA-
1 AAATAAAATAA-AAT
8153322 AAATAAAATAAAAT
1 AAATAAAATAAAAT
8153336 AAATAAAATAAAAT
1 AAATAAAATAAAAT
8153350 AAA
1 AAA
8153353 AAATTAATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 2 0.07
14 27 0.93
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:8153331 original size:5 final size:5
Alignment explanation
Indices: 8153308--8153353 Score: 60
Period size: 5 Copynumber: 9.6 Consensus size: 5
8153298 CGAATAATTC
* *
8153308 AAATA AATTA ATA-A AAATA AAATA AAAT- AAATA AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAA
8153354 AATTAATAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
4 7 0.20
5 28 0.80
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
AAATA
Found at i:8153332 original size:19 final size:19
Alignment explanation
Indices: 8153308--8153353 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
8153298 CGAATAATTC
*
8153308 AAAT-AAATTAATAAAAATA
1 AAATAAAATAAAT-AAAATA
8153327 AAATAAAATAAATAAAATA
1 AAATAAAATAAATAAAATA
8153346 AAATAAAA
1 AAATAAAA
8153354 AATTAATAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (19 bp):
AAATAAAATAAATAAAATA
Found at i:8159575 original size:31 final size:31
Alignment explanation
Indices: 8159529--8159631 Score: 124
Period size: 31 Copynumber: 3.5 Consensus size: 31
8159519 AAAAAACACA
* *
8159529 AGTTTTGGTCTCTTACGTTATTGTTTTATTG
1 AGTTTTGGTCACTTACGTTATCGTTTTATTG
* *
8159560 AGTTTTGATCACTTACTTTATCGTTTTATTG
1 AGTTTTGGTCACTTACGTTATCGTTTTATTG
*
8159591 AGTTTTGGTCAC-T---TTATCGTTTTATTT
1 AGTTTTGGTCACTTACGTTATCGTTTTATTG
*
8159618 AGTTTTAGTCACTT
1 AGTTTTGGTCACTT
8159632 GGACATTGAA
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
27 24 0.38
28 1 0.02
30 1 0.02
31 38 0.59
ACGTcount: A:0.17, C:0.12, G:0.16, T:0.56
Consensus pattern (31 bp):
AGTTTTGGTCACTTACGTTATCGTTTTATTG
Found at i:8159604 original size:27 final size:27
Alignment explanation
Indices: 8159546--8159631 Score: 100
Period size: 27 Copynumber: 3.0 Consensus size: 27
8159536 GTCTCTTACG
* *
8159546 TTATTGTTTTATTGAGTTTTGATCACTTACT
1 TTATCGTTTTATTGAGTTTTGGT--C--ACT
8159577 TTATCGTTTTATTGAGTTTTGGTCACT
1 TTATCGTTTTATTGAGTTTTGGTCACT
* *
8159604 TTATCGTTTTATTTAGTTTTAGTCACT
1 TTATCGTTTTATTGAGTTTTGGTCACT
8159631 T
1 T
8159632 GGACATTGAA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
27 29 0.57
29 1 0.02
31 21 0.41
ACGTcount: A:0.17, C:0.10, G:0.14, T:0.58
Consensus pattern (27 bp):
TTATCGTTTTATTGAGTTTTGGTCACT
Found at i:8160785 original size:31 final size:31
Alignment explanation
Indices: 8160710--8160904 Score: 272
Period size: 31 Copynumber: 6.4 Consensus size: 31
8160700 ATTCAACGTT
* *
8160710 TAAGTAACCAAAACTTAATAAAACGAT-A--
1 TAAGTGACCAAAACATAATAAAACGATAACG
* * *
8160738 -AAGTGACTAAAACATAATAAAATGATAACA
1 TAAGTGACCAAAACATAATAAAACGATAACG
*
8160768 TAAGTGACCAAAGCATAATAAAACGATAACG
1 TAAGTGACCAAAACATAATAAAACGATAACG
8160799 TAAGTGACCAAAACATAATAAAACGATAACG
1 TAAGTGACCAAAACATAATAAAACGATAACG
8160830 TAAGTGACCAAAACATAATAAAACGATAACG
1 TAAGTGACCAAAACATAATAAAACGATAACG
* * *
8160861 TAAGTGACAAAAACATAATAAAACGATAGCA
1 TAAGTGACCAAAACATAATAAAACGATAACG
*
8160892 TAAGTGACAAAAA
1 TAAGTGACCAAAA
8160905 ATATATGTGT
Statistics
Matches: 151, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.15
28 1 0.01
31 128 0.85
ACGTcount: A:0.56, C:0.14, G:0.12, T:0.17
Consensus pattern (31 bp):
TAAGTGACCAAAACATAATAAAACGATAACG
Found at i:8163237 original size:310 final size:310
Alignment explanation
Indices: 8162669--8163291 Score: 1149
Period size: 310 Copynumber: 2.0 Consensus size: 310
8162659 TTTTATCTTC
*
8162669 TATGTAGGGGAGCACATCATTACTCTGAATGATGTTTCAATATAGTTGGGACTCCCGATAGATGG
1 TATGTAGGGGAGCACATCATTACTCTGAATGATGTTTCAATACAGTTGGGACTCCCGATAGATGG
* *
8162734 TCGTGCTCCTATTGCTGTGGCGGGTGATGATTGGAAAAGTTGTGCCTCTAGTATCTAAGAAAGTT
66 TCATGATCCTATTGCTGTGGCGGGTGATGATTGGAAAAGTTGTGCCTCTAGTATCTAAGAAAGTT
*
8162799 CCTGAATTTGTTCAATGGTGGTTGAATCTTGTTAGAGTGGCTTCAAACCAATTTTCGAGAGTTAG
131 CCTGAATTTGTTCAATGGTGGCTGAATCTTGTTAGAGTGGCTTCAAACCAATTTTCGAGAGTTAG
*
8162864 ACGAAAATTCTTCTAAAGATGAGGCAAAAGTATTTGTTCAGACAAAAGGTTTGATCGTGAACGAG
196 ACGAAAATTCTTCTAAAGATGAGGAAAAAGTATTTGTTCAGACAAAAGGTTTGATCGTGAACGAG
8162929 TCATTTGTCTTTATTTTCTTAATAAAGTAATTTCAATACTAAATTTATTA
261 TCATTTGTCTTTATTTTCTTAATAAAGTAATTTCAATACTAAATTTATTA
*
8162979 TATGTGGGGGAGCACATCATTACTCTGAATGATGTTTCAATACAGTTGGGACTCCCGATAGATGG
1 TATGTAGGGGAGCACATCATTACTCTGAATGATGTTTCAATACAGTTGGGACTCCCGATAGATGG
* *
8163044 TCATGATCCTATTGGTGTGGCGGGTGGTGATTGGAAAAGTTGTGCCTCTAGTATCTAAGAAAGTT
66 TCATGATCCTATTGCTGTGGCGGGTGATGATTGGAAAAGTTGTGCCTCTAGTATCTAAGAAAGTT
*
8163109 CCTGAATTTGTTCAATGGTGGCTGAATCTTGTTA-ACGTGGCTTCAAACCAATTTTTGAGAGTTA
131 CCTGAATTTGTTCAATGGTGGCTGAATCTTGTTAGA-GTGGCTTCAAACCAATTTTCGAGAGTTA
8163173 GACGAAAATTCTTCTAAAGATGAGGAAAAAGTATTTGTTCAGACAAAAGGTTTGATCGTGAACGA
195 GACGAAAATTCTTCTAAAGATGAGGAAAAAGTATTTGTTCAGACAAAAGGTTTGATCGTGAACGA
8163238 GTCATTTGTCTTTATTTTCTTAATAAAGTAATTTCAATACTAAATTTATTA
260 GTCATTTGTCTTTATTTTCTTAATAAAGTAATTTCAATACTAAATTTATTA
8163289 TAT
1 TAT
8163292 AATAATTAAA
Statistics
Matches: 303, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
309 1 0.00
310 302 1.00
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.35
Consensus pattern (310 bp):
TATGTAGGGGAGCACATCATTACTCTGAATGATGTTTCAATACAGTTGGGACTCCCGATAGATGG
TCATGATCCTATTGCTGTGGCGGGTGATGATTGGAAAAGTTGTGCCTCTAGTATCTAAGAAAGTT
CCTGAATTTGTTCAATGGTGGCTGAATCTTGTTAGAGTGGCTTCAAACCAATTTTCGAGAGTTAG
ACGAAAATTCTTCTAAAGATGAGGAAAAAGTATTTGTTCAGACAAAAGGTTTGATCGTGAACGAG
TCATTTGTCTTTATTTTCTTAATAAAGTAATTTCAATACTAAATTTATTA
Found at i:8166158 original size:2 final size:2
Alignment explanation
Indices: 8166151--8166179 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8166141 TAGTTTTACT
8166151 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8166180 GTGTGTGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8167062 original size:15 final size:15
Alignment explanation
Indices: 8167042--8167078 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
8167032 TGACACCTTA
*
8167042 CCCGCCCCGCATCCG
1 CCCGCCCCACATCCG
8167057 CCCGCCCCACATCCG
1 CCCGCCCCACATCCG
*
8167072 CTCGCCC
1 CCCGCCC
8167079 AGTAAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.08, C:0.68, G:0.16, T:0.08
Consensus pattern (15 bp):
CCCGCCCCACATCCG
Found at i:8168147 original size:60 final size:59
Alignment explanation
Indices: 8168064--8168184 Score: 163
Period size: 60 Copynumber: 2.0 Consensus size: 59
8168054 ATGGTCTTCC
* * * *
8168064 GATTATAGGATATTGTTTCATTGAGTTTATCGATTATTAAAAGTTATAAAATAATCATCT
1 GATTATAGAATATTCTTTCATTGAGTCTATCGACTATTAAAAGTTATAAAATAATCA-CT
* *
8168124 GATTATAGAATATTACTTT-ATTGAGTCTCTCGACTATTAAAAGTTATAAAATAGTCACT
1 GATTATAGAATATT-CTTTCATTGAGTCTATCGACTATTAAAAGTTATAAAATAATCACT
8168183 GA
1 GA
8168185 ATATTCATAT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
59 4 0.07
60 47 0.87
61 3 0.06
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.40
Consensus pattern (59 bp):
GATTATAGAATATTCTTTCATTGAGTCTATCGACTATTAAAAGTTATAAAATAATCACT
Found at i:8168197 original size:60 final size:60
Alignment explanation
Indices: 8168083--8168198 Score: 153
Period size: 60 Copynumber: 1.9 Consensus size: 60
8168073 ATATTGTTTC
* * * *
8168083 ATTGAGTTTATCGATTATTAAAAGTTATAAAATAATCATCTGATTATAGAATATTACTTT
1 ATTGAGTCTATCGACTATTAAAAGTTATAAAATAATCATCTGAATATACAATATTACTTT
* * *
8168143 ATTGAGTCTCTCGACTATTAAAAGTTATAAAATAGTCA-CTGAATATTCATATATTA
1 ATTGAGTCTATCGACTATTAAAAGTTATAAAATAATCATCTGAATATACA-ATATTA
8168199 TAAACTCATT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
59 8 0.17
60 40 0.83
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.41
Consensus pattern (60 bp):
ATTGAGTCTATCGACTATTAAAAGTTATAAAATAATCATCTGAATATACAATATTACTTT
Found at i:8168883 original size:21 final size:24
Alignment explanation
Indices: 8168853--8168899 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
8168843 TATATATAAG
8168853 AAATAAAG-AA-AG-AATAAAAAA
1 AAATAAAGAAATAGAAATAAAAAA
*
8168874 AAATATAGAAATAGAAATAAAAAA
1 AAATAAAGAAATAGAAATAAAAAA
8168898 AA
1 AA
8168900 TGTTGAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 7 0.32
22 2 0.09
23 2 0.09
24 11 0.50
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.13
Consensus pattern (24 bp):
AAATAAAGAAATAGAAATAAAAAA
Found at i:8168908 original size:22 final size:24
Alignment explanation
Indices: 8168869--8168913 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
8168859 AGAAAGAATA
8168869 AAAAAAAATATAGAAAT-AGAAAT
1 AAAAAAAATATAGAAATAAGAAAT
* *
8168892 AAAAAAAATGTTG-AATAAGAAA
1 AAAAAAAATATAGAAATAAGAAA
8168914 GGATTATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.18
Consensus pattern (24 bp):
AAAAAAAATATAGAAATAAGAAAT
Found at i:8170141 original size:4 final size:4
Alignment explanation
Indices: 8170132--8170229 Score: 69
Period size: 4 Copynumber: 23.5 Consensus size: 4
8170122 ATAAAATCAA
* **
8170132 AAAT AAAT AAAT AAAT -AAT AATAT AAAT AAAT ATAT AATAT ATGT ATAAT
1 AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AA-AT AAAT A-AAT
8170182 AAAAT AATAT AGAAT -AAT -AAT AATAT ATAAT AAAT AAAT -AAT AAAT
1 -AAAT AA-AT A-AAT AAAT AAAT AA-AT A-AAT AAAT AAAT AAAT AAAT
8170228 AA
1 AA
8170230 TATATATTAT
Statistics
Matches: 77, Mismatches: 6, Indels: 22
0.73 0.06 0.21
Matches are distributed among these distances:
3 12 0.16
4 40 0.52
5 22 0.29
6 3 0.04
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (4 bp):
AAAT
Found at i:8170174 original size:2 final size:2
Alignment explanation
Indices: 8170152--8170336 Score: 84
Period size: 2 Copynumber: 100.5 Consensus size: 2
8170142 ATAAATAATA
* * * *
8170152 AT AT AA AT AA AT AT AT A- AT AT AT GT AT A- AT A- AA AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
8170190 AT AG A- AT A- AT A- AT A- AT AT AT A- AT AA AT AA AT A- AT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
8170226 AT A- AT AT AT AT -T AT A- AT A- AT AT GCT AT AT A- AT AT AT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT
* *
8170264 AT AT AT A- AT A- AT AT A- AT TT AT AT ACT AT AT A- AT AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
* *
8170303 AT ACT AT AT AT AT AT AT AT GT AT AT GT AT AT AT A
1 AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8170337 AAAAGGGTCG
Statistics
Matches: 135, Mismatches: 26, Indels: 44
0.66 0.13 0.21
Matches are distributed among these distances:
1 19 0.14
2 111 0.82
3 5 0.04
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.40
Consensus pattern (2 bp):
AT
Found at i:8170200 original size:46 final size:41
Alignment explanation
Indices: 8170132--8170278 Score: 124
Period size: 45 Copynumber: 3.5 Consensus size: 41
8170122 ATAAAATCAA
*
8170132 AAATAAATAAATAAATAATA-A-TAT-A-AATAAATATATAAT
1 AAATAAAT-AATAAATAATATAGAATAATAAT-AATATATAAT
* **
8170171 ATATGTATAATAAAATAATATAGAATAATAATAATATATAAT
1 AAATAAATAAT-AAATAATATAGAATAATAATAATATATAAT
* *
8170213 AAATAAATAATAAATAATATATATTATAATAATATGCTATATAAT
1 AAATAAATAATAAATAATATAGA--ATAATAATA--ATATATAAT
*
8170258 ATATAAAT-ATATAATAATATA
1 AAATAAATAATA-AATAATATA
8170279 ATTTATATAC
Statistics
Matches: 88, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
38 3 0.03
39 13 0.15
40 1 0.01
41 13 0.15
42 19 0.22
43 12 0.14
44 3 0.03
45 24 0.27
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (41 bp):
AAATAAATAATAAATAATATAGAATAATAATAATATATAAT
Found at i:8170203 original size:21 final size:21
Alignment explanation
Indices: 8170138--8170233 Score: 52
Period size: 25 Copynumber: 4.1 Consensus size: 21
8170128 TCAAAAATAA
*
8170138 ATAAATAAATAATAATATAA-
1 ATAAATAAATAATAAAATAAT
* *
8170158 ATAAATATATAATATATGTATAAT
1 ATAAATAAATAATA-A--AATAAT
8170182 A-AAATAATATAGAATAATAATAAT
1 ATAAATAA-AT--AATAA-AATAAT
8170206 ATATAATAAATAAATAATAAATAAT
1 ATA-AATAAAT-AAT-A-AAATAAT
8170231 ATA
1 ATA
8170234 TATTATAATA
Statistics
Matches: 60, Mismatches: 5, Indels: 17
0.73 0.06 0.21
Matches are distributed among these distances:
20 13 0.22
21 1 0.02
23 10 0.17
24 12 0.20
25 14 0.23
26 10 0.17
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (21 bp):
ATAAATAAATAATAAAATAAT
Found at i:8170241 original size:27 final size:27
Alignment explanation
Indices: 8170132--8170303 Score: 113
Period size: 27 Copynumber: 6.2 Consensus size: 27
8170122 ATAAAATCAA
8170132 AAATAAATAAATAAATAATAATATAA-AT
1 AAATAAAT-AATAAATAAT-ATATAATAT
* * * *
8170160 AAATATATAATATAT-GTATAATAAAAT
1 AAATAAATAATAAATAATAT-ATAATAT
8170187 AATATAGAATAAT-AATAATATAT-A-AT
1 AA-ATA-AATAATAAATAATATATAATAT
*
8170213 AAATAAATAATAAATAATATATATTAT
1 AAATAAATAATAAATAATATATAATAT
** *
8170240 -AATAATATGCTATATAATATATAAATAT
1 AAATAA-ATAATAAATAATATAT-AATAT
* *
8170268 ATAATAATATAATTTATATACTATATAATAT
1 A-AATAA-ATAA--TAAATAATATATAATAT
8170299 AAATA
1 AAATA
8170304 TACTATATAT
Statistics
Matches: 116, Mismatches: 14, Indels: 26
0.74 0.09 0.17
Matches are distributed among these distances:
24 6 0.05
25 15 0.13
26 14 0.12
27 26 0.22
28 18 0.16
29 8 0.07
30 12 0.10
31 6 0.05
32 11 0.09
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (27 bp):
AAATAAATAATAAATAATATATAATAT
Found at i:8170257 original size:52 final size:51
Alignment explanation
Indices: 8170201--8170298 Score: 128
Period size: 52 Copynumber: 1.9 Consensus size: 51
8170191 TAGAATAATA
*
8170201 ATAATATATAATAAATA-AATAATA-AATAATATATATTATAATAATATGCTAT
1 ATAATATATAA-AAATATAATAATATAAT-ATATATACTAT-ATAATATGCTAT
* *
8170253 ATAATATATAAATATATAATAATATAATTTATATACTATATAATAT
1 ATAATATATAAAAATATAATAATATAATATATATACTATATAATAT
8170299 AAATATACTA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
51 11 0.27
52 27 0.66
53 3 0.07
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (51 bp):
ATAATATATAAAAATATAATAATATAATATATATACTATATAATATGCTAT
Found at i:8170260 original size:7 final size:7
Alignment explanation
Indices: 8170141--8170320 Score: 107
Period size: 7 Copynumber: 26.1 Consensus size: 7
8170131 AAAATAAATA
*
8170141 AATAAAT
1 AATATAT
8170148 AATAATAT
1 AAT-ATAT
8170156 AA-ATA-
1 AATATAT
8170161 AATATAT
1 AATATAT
8170168 AATATAT
1 AATATAT
*
8170175 -GTATAAT
1 AATAT-AT
8170182 AA-A-AT
1 AATATAT
*
8170187 AATATAG
1 AATATAT
8170194 AATA-AT
1 AATATAT
8170200 AATA-AT
1 AATATAT
8170206 -ATATAAT
1 AATAT-AT
*
8170213 AAATAAAT
1 -AATATAT
*
8170221 AATAAAT
1 AATATAT
8170228 AATATAT
1 AATATAT
8170235 -AT-TAT
1 AATATAT
8170240 AATAATAT
1 AAT-ATAT
**
8170248 GCTATAT
1 AATATAT
8170255 AATATAT
1 AATATAT
8170262 AAATATAT
1 -AATATAT
8170270 AATAATAT
1 AAT-ATAT
8170278 AATTTATAT
1 AA--TATAT
*
8170287 ACTATAT
1 AATATAT
8170294 AATATA-
1 AATATAT
8170300 AATATACT
1 AATATA-T
8170308 -ATATAT
1 AATATAT
8170314 -ATATAT
1 AATATAT
8170320 A
1 A
8170321 TGTATATGTA
Statistics
Matches: 139, Mismatches: 13, Indels: 42
0.72 0.07 0.22
Matches are distributed among these distances:
5 12 0.09
6 34 0.24
7 60 0.43
8 24 0.17
9 8 0.06
10 1 0.01
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (7 bp):
AATATAT
Found at i:8170272 original size:73 final size:73
Alignment explanation
Indices: 8170137--8170339 Score: 191
Period size: 73 Copynumber: 2.7 Consensus size: 73
8170127 ATCAAAAATA
8170137 AATAAATAAATAATAATATAAATAAATATATAATATATGTATAATAAAATAATATAGAATAATAA
1 AATAAATAAATAATAATATAAATAAATATATAATATATGTATAATAAAATAATATAGAATAATAA
8170202 TAATATAT
66 TAATATAT
* *
8170210 AATAAATAAATAATAA-AT-AATATATATTATAATAATATGCTAT-ATAATATATAAATATATAA
1 AATAAATAAATAATAATATAAATAAATA-TATAAT-ATATG-TATAATAA-A-AT-AATATAGAA
8170272 TAAT-ATAATTTATAT
60 TAATAATAA--TATAT
* * * * *
8170287 ACTATATAATATAA-ATATACTATATATATATATATGTATATGTATATATAAAA
1 AATAAATAA-ATAATA-ATA-TAAATAAATATATA-ATATATGTATA-ATAAAA
8170340 AGGGTCGGAC
Statistics
Matches: 108, Mismatches: 6, Indels: 26
0.77 0.04 0.19
Matches are distributed among these distances:
71 7 0.06
72 8 0.07
73 25 0.23
74 4 0.04
75 6 0.06
76 12 0.11
77 13 0.12
78 5 0.05
79 5 0.05
80 11 0.10
81 12 0.11
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.38
Consensus pattern (73 bp):
AATAAATAAATAATAATATAAATAAATATATAATATATGTATAATAAAATAATATAGAATAATAA
TAATATAT
Found at i:8170276 original size:3 final size:3
Alignment explanation
Indices: 8170145--8170246 Score: 57
Period size: 3 Copynumber: 31.3 Consensus size: 3
8170135 TAAATAAATA
*
8170145 AAT AAT AAT -AT AAAT AAAT ATAT AAT ATAT GTAT AAT AA- AAT AAT
1 AAT AAT AAT AAT -AAT -AAT A-AT AAT A-AT -AAT AAT AAT AAT AAT
*
8170190 ATAG AAT AAT AAT AAT ATAT AAT AAAT AAAT AAT AAAT AAT -AT ATAT
1 A-AT AAT AAT AAT AAT A-AT AAT -AAT -AAT AAT -AAT AAT AAT A-AT
*
8170237 TAT AAT AAT A
1 AAT AAT AAT A
8170247 TGCTATATAA
Statistics
Matches: 81, Mismatches: 6, Indels: 24
0.73 0.05 0.22
Matches are distributed among these distances:
2 6 0.07
3 45 0.56
4 30 0.37
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:8170306 original size:18 final size:17
Alignment explanation
Indices: 8170134--8170338 Score: 111
Period size: 15 Copynumber: 12.6 Consensus size: 17
8170124 AAAATCAAAA
*
8170134 ATAA-ATAAATAAATA-
1 ATAATATAAATATATAT
*
8170149 ATAATATAAATAAATAT
1 ATAATATAAATATATAT
*
8170166 ATAATAT--ATGTATA-
1 ATAATATAAATATATAT
* *
8170180 ATAAAAT-AATATAGA-
1 ATAATATAAATATATAT
8170195 ATAATA-ATAATATATA-
1 ATAATATA-AATATATAT
*
8170211 ATAA-ATAAATA-ATAA
1 ATAATATAAATATATAT
*
8170226 ATAATATATAT-TATA-
1 ATAATATAAATATATAT
**
8170241 ATAATAT-GCTATATA-
1 ATAATATAAATATATAT
8170256 AT-ATATAAATATATA-
1 ATAATATAAATATATAT
8170271 ATAATATAATTTATATACTAT
1 ATAATATAA---ATATA-TAT
8170292 ATAATATAAATATACTAT
1 ATAATATAAATATA-TAT
* *
8170310 ATATATATATATGTATAT
1 ATA-ATATAAATATATAT
*
8170328 GTATATATAAA
1 ATA-ATATAAA
8170339 AAGGGTCGGA
Statistics
Matches: 156, Mismatches: 16, Indels: 33
0.76 0.08 0.16
Matches are distributed among these distances:
14 14 0.09
15 49 0.31
16 37 0.24
17 7 0.04
18 24 0.15
19 14 0.09
20 2 0.01
21 9 0.06
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.39
Consensus pattern (17 bp):
ATAATATAAATATATAT
Found at i:8170310 original size:11 final size:10
Alignment explanation
Indices: 8170138--8170338 Score: 60
Period size: 11 Copynumber: 19.5 Consensus size: 10
8170128 TCAAAAATAA
*
8170138 ATAAATAAAT
1 ATAAATATAT
*
8170148 A-ATAATATAA
1 ATA-AATATAT
8170158 ATAAATATAT
1 ATAAATATAT
* *
8170168 AATATATGTAT
1 -ATAAATATAT
8170179 AATAAA-ATAAT
1 -ATAAATAT-AT
8170190 ATAGAATA-AT
1 ATA-AATATAT
8170200 A-ATAATATAT
1 ATA-AATATAT
*
8170210 AATAAATAAAT
1 -ATAAATATAT
8170221 AATAAATA-AT
1 -ATAAATATAT
*
8170231 ATATAT-TAT
1 ATAAATATAT
*
8170240 A-ATAATATGCT
1 ATA-AATAT-AT
*
8170251 ATATA-ATAT
1 ATAAATATAT
8170260 ATAAATATAT
1 ATAAATATAT
8170270 A-ATAATATAAT
1 ATA-AATAT-AT
* *
8170281 TTATATACTAT
1 ATAAATA-TAT
*
8170292 ATAATATAAAT
1 ATAA-ATATAT
*
8170303 ATACTATATAT
1 ATA-AATATAT
* *
8170314 ATATATATGT
1 ATAAATATAT
**
8170324 ATATGTATAT
1 ATAAATATAT
8170334 ATAAA
1 ATAAA
8170339 AAGGGTCGGA
Statistics
Matches: 143, Mismatches: 27, Indels: 42
0.67 0.13 0.20
Matches are distributed among these distances:
8 1 0.01
9 22 0.15
10 54 0.38
11 58 0.41
12 8 0.06
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.39
Consensus pattern (10 bp):
ATAAATATAT
Found at i:8170312 original size:52 final size:50
Alignment explanation
Indices: 8170133--8170321 Score: 122
Period size: 52 Copynumber: 4.0 Consensus size: 50
8170123 TAAAATCAAA
* *
8170133 AATAAATAA--ATA-AATA-ATAATATAAATA-AATATATA-ATATATGT
1 AATAAATAATTATATAATATATAATATAAATATAATATATATAAATATAT
* * *
8170177 -AT-AATAA--A-ATAATATAGAATA-ATA-ATAATATATAATAAATAAAT
1 AATAAATAATTATATAATATATAATATAAATATAATATAT-ATAAATATAT
* **
8170221 AATAAATAA-TATATATTATAATAATAT-GCTAT-ATAATATATAAATATAT
1 AATAAATAATTATATAATAT-ATAATATAAATATAAT-ATATATAAATATAT
* * *
8170270 AATAATATAATTTATATACTATATAATATAAATATACTATATATATATATAT
1 AATAA-ATAA-TTATATAATATATAATATAAATATAATATATATAAATATAT
8170322 GTATATGTAT
Statistics
Matches: 112, Mismatches: 15, Indels: 28
0.72 0.10 0.18
Matches are distributed among these distances:
41 2 0.02
42 19 0.17
43 8 0.07
44 5 0.04
45 2 0.02
46 5 0.04
47 1 0.01
48 6 0.05
49 21 0.19
50 10 0.09
51 7 0.06
52 25 0.22
53 1 0.01
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (50 bp):
AATAAATAATTATATAATATATAATATAAATATAATATATATAAATATAT
Found at i:8170326 original size:27 final size:29
Alignment explanation
Indices: 8170204--8170326 Score: 109
Period size: 27 Copynumber: 4.4 Consensus size: 29
8170194 AATAATAATA
* *
8170204 ATATATA-ATA-AATAA-ATAATAAATA-
1 ATATATATATATAATAATATACTATATAT
*
8170229 ATATATAT-TATAATAATATGCTATATAAT
1 ATATATATATATAATAATATACTATAT-AT
* * *
8170258 ATATAAATATATAATAATATAATTTATAT
1 ATATATATATATAATAATATACTATATAT
8170287 ACTATATA-ATAT-A-AATATACTATATAT
1 A-TATATATATATAATAATATACTATATAT
*
8170314 ATATATATGTATA
1 ATATATATATATA
8170327 TGTATATATA
Statistics
Matches: 78, Mismatches: 11, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
25 9 0.12
26 11 0.14
27 22 0.28
28 2 0.03
29 14 0.18
30 20 0.26
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (29 bp):
ATATATATATATAATAATATACTATATAT
Found at i:8179770 original size:30 final size:31
Alignment explanation
Indices: 8179735--8179795 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
8179725 AGAATAATTT
* *
8179735 GGGGACCATTTTG-TAATTTTTGAAAAGTTG
1 GGGGACCAATTTGATAATTTTGGAAAAGTTG
8179765 GGGGACCAATTTGATAATTTTGGAAAAGTTG
1 GGGGACCAATTTGATAATTTTGGAAAAGTTG
8179796 TGAATGGTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 12 0.43
31 16 0.57
ACGTcount: A:0.30, C:0.07, G:0.28, T:0.36
Consensus pattern (31 bp):
GGGGACCAATTTGATAATTTTGGAAAAGTTG
Found at i:8180357 original size:24 final size:24
Alignment explanation
Indices: 8180330--8180377 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
8180320 TGCATGACAT
8180330 TGTACATAGATGTTTTATACATCA
1 TGTACATAGATGTTTTATACATCA
8180354 TGTACATAGATGTTTTATACATCA
1 TGTACATAGATGTTTTATACATCA
8180378 CCAGGAAGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (24 bp):
TGTACATAGATGTTTTATACATCA
Found at i:8181584 original size:154 final size:149
Alignment explanation
Indices: 8181300--8181582 Score: 484
Period size: 154 Copynumber: 1.9 Consensus size: 149
8181290 TAGTATGTGA
8181300 TAGTATGATATTTTTATATTATCAATTATCATTTTAAGAAAGGAAATTTTTAAATCACTTTGAAT
1 TAGTATGATATTTTTATATTATCAATTATCATTTTAAGAAAGGAAATTTTTAAATCACTTTGAAT
8181365 GGGAAAAGATTTTACGAAATGTAAGGTGACATTTATAATCTGTATAGGTATAATTATACGGGTTA
66 GGGAAAAGATTTTACGAAATG-AA-GT-AC--TTATAATCTGTATAGGTATAATTATACGGGTTA
8181430 CGGGTGTTTCATTTATTAATATGG
126 CGGGTGTTTCATTTATTAATATGG
8181454 TAGTATGATATTTTTATATTATCAATTATCATTTTAAGAAAGGAAATTTTTAAATCACTTTGAAT
1 TAGTATGATATTTTTATATTATCAATTATCATTTTAAGAAAGGAAATTTTTAAATCACTTTGAAT
*
8181519 GGGAAAAGATTTTACGAAATG-A-T-C-TATAATCTGTATAGGTATAATTATATGGGTTACGGGT
66 GGGAAAAGATTTTACGAAATGAAGTACTTATAATCTGTATAGGTATAATTATACGGGTTACGGGT
8181580 GTT
131 GTT
8181583 ACAGAAAGAA
Statistics
Matches: 128, Mismatches: 1, Indels: 9
0.93 0.01 0.07
Matches are distributed among these distances:
145 39 0.30
148 1 0.01
150 1 0.01
152 1 0.01
154 86 0.67
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.41
Consensus pattern (149 bp):
TAGTATGATATTTTTATATTATCAATTATCATTTTAAGAAAGGAAATTTTTAAATCACTTTGAAT
GGGAAAAGATTTTACGAAATGAAGTACTTATAATCTGTATAGGTATAATTATACGGGTTACGGGT
GTTTCATTTATTAATATGG
Found at i:8185316 original size:44 final size:44
Alignment explanation
Indices: 8185199--8185306 Score: 155
Period size: 44 Copynumber: 2.5 Consensus size: 44
8185189 TAAAATCGTT
*
8185199 CCTAAAAGAAATAAAAAATATATATATATATATATATAATATTA
1 CCTAAAAGAAATAAGAAATATATATATATATATATATAATATTA
** * *
8185243 AATAAAAGAAAAAAGAAATATATATATATATATA-ATAATGTTA
1 CCTAAAAGAAATAAGAAATATATATATATATATATATAATATTA
8185286 CCTAAAAGAAATGAAGAAATA
1 CCTAAAAGAAAT-AAGAAATA
8185307 AAAAAATATA
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 17 0.31
44 38 0.69
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.29
Consensus pattern (44 bp):
CCTAAAAGAAATAAGAAATATATATATATATATATATAATATTA
Found at i:8186168 original size:11 final size:11
Alignment explanation
Indices: 8186115--8186172 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
8186105 TATATCCCTT
*
8186115 TTTTGCTTCGA
1 TTTTGTTTCGA
*
8186126 TTTTGTTTTGA
1 TTTTGTTTCGA
*
8186137 TTTTGTCTCG-
1 TTTTGTTTCGA
* *
8186147 TATT-CTTCGA
1 TTTTGTTTCGA
8186157 TTTTGTTTCGA
1 TTTTGTTTCGA
8186168 TTTTG
1 TTTTG
8186173 CTTCAAGATG
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
9 3 0.08
10 6 0.17
11 27 0.75
ACGTcount: A:0.09, C:0.12, G:0.17, T:0.62
Consensus pattern (11 bp):
TTTTGTTTCGA
Found at i:8186466 original size:184 final size:184
Alignment explanation
Indices: 8186157--8186524 Score: 736
Period size: 184 Copynumber: 2.0 Consensus size: 184
8186147 TATTCTTCGA
8186157 TTTTGTTTCGATTTTGCTTCAAGATGGTTTGTTGACGAAAATCCCAAGATGGTTCAGTCCCAGAT
1 TTTTGTTTCGATTTTGCTTCAAGATGGTTTGTTGACGAAAATCCCAAGATGGTTCAGTCCCAGAT
8186222 TGTCTGATTTACTTCGATTCGTGCACTATTTTTCTCATTGGTCATTTCGCTTTGTGTCGGTACAT
66 TGTCTGATTTACTTCGATTCGTGCACTATTTTTCTCATTGGTCATTTCGCTTTGTGTCGGTACAT
8186287 CTCTTGGTCATTGGCGCACATGCTTGTCTCTTGACCTCCCCTAACCGTATGGCG
131 CTCTTGGTCATTGGCGCACATGCTTGTCTCTTGACCTCCCCTAACCGTATGGCG
8186341 TTTTGTTTCGATTTTGCTTCAAGATGGTTTGTTGACGAAAATCCCAAGATGGTTCAGTCCCAGAT
1 TTTTGTTTCGATTTTGCTTCAAGATGGTTTGTTGACGAAAATCCCAAGATGGTTCAGTCCCAGAT
8186406 TGTCTGATTTACTTCGATTCGTGCACTATTTTTCTCATTGGTCATTTCGCTTTGTGTCGGTACAT
66 TGTCTGATTTACTTCGATTCGTGCACTATTTTTCTCATTGGTCATTTCGCTTTGTGTCGGTACAT
8186471 CTCTTGGTCATTGGCGCACATGCTTGTCTCTTGACCTCCCCTAACCGTATGGCG
131 CTCTTGGTCATTGGCGCACATGCTTGTCTCTTGACCTCCCCTAACCGTATGGCG
8186525 CCCTTGACTA
Statistics
Matches: 184, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
184 184 1.00
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.40
Consensus pattern (184 bp):
TTTTGTTTCGATTTTGCTTCAAGATGGTTTGTTGACGAAAATCCCAAGATGGTTCAGTCCCAGAT
TGTCTGATTTACTTCGATTCGTGCACTATTTTTCTCATTGGTCATTTCGCTTTGTGTCGGTACAT
CTCTTGGTCATTGGCGCACATGCTTGTCTCTTGACCTCCCCTAACCGTATGGCG
Found at i:8186661 original size:4 final size:4
Alignment explanation
Indices: 8186652--8186693 Score: 59
Period size: 4 Copynumber: 10.5 Consensus size: 4
8186642 ATAAAATCAA
*
8186652 AAAT AAAT AAAT AAAT AAAT AAAT -AAT ATAAT AAAT ATAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A-AAT AAAT AAAT AA
8186694 TATATGTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 3 0.09
4 27 0.79
5 4 0.12
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (4 bp):
AAAT
Found at i:8186727 original size:8 final size:8
Alignment explanation
Indices: 8186653--8186741 Score: 57
Period size: 8 Copynumber: 11.5 Consensus size: 8
8186643 TAAAATCAAA
8186653 AATA-AAT
1 AATATAAT
8186660 AA-ATAAAT
1 AATAT-AAT
8186668 AA-ATAAAT
1 AATAT-AAT
8186676 AATATAAT
1 AATATAAT
8186684 AA-ATATAT
1 AATATA-AT
8186692 AATAT-AT
1 AATATAAT
* *
8186699 -GTATAGT
1 AATATAAT
*
8186706 AAAATAAT
1 AATATAAT
8186714 -ATATAAT
1 AATATAAT
8186721 AATATAAT
1 AATATAAT
*
8186729 ATATATTAT
1 A-ATATAAT
8186738 AATA
1 AATA
8186742 ATATGCTATA
Statistics
Matches: 66, Mismatches: 7, Indels: 17
0.73 0.08 0.19
Matches are distributed among these distances:
6 4 0.06
7 14 0.21
8 37 0.56
9 11 0.17
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (8 bp):
AATATAAT
Found at i:8186727 original size:15 final size:15
Alignment explanation
Indices: 8186661--8186733 Score: 73
Period size: 15 Copynumber: 5.1 Consensus size: 15
8186651 AAAATAAATA
8186661 AATAA-ATAA-ATA-
1 AATAATATAATATAT
*
8186673 AATAATATAATAAAT
1 AATAATATAATATAT
*
8186688 ATATAATAT-ATGTAT
1 A-ATAATATAATATAT
* *
8186703 AGTAAAATAATATAT
1 AATAATATAATATAT
8186718 AATAATATAATATAT
1 AATAATATAATATAT
8186733 A
1 A
8186734 TTATAATAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
12 5 0.10
13 4 0.08
14 7 0.15
15 25 0.52
16 7 0.15
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (15 bp):
AATAATATAATATAT
Found at i:8186742 original size:15 final size:14
Alignment explanation
Indices: 8186679--8186745 Score: 55
Period size: 15 Copynumber: 4.5 Consensus size: 14
8186669 AATAAATAAT
*
8186679 ATAATAAATATATA
1 ATAATATATATATA
* *
8186693 ATATATGTATAGTAAA
1 ATA-ATATATA-TATA
8186709 ATAATATATA-ATAA
1 ATAATATATATAT-A
8186723 TATAATATATATTATA
1 -ATAATATATA-TATA
8186739 ATAATAT
1 ATAATAT
8186746 GCTATATATA
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
13 1 0.02
14 4 0.10
15 28 0.67
16 7 0.17
17 2 0.05
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (14 bp):
ATAATATATATATA
Found at i:8187720 original size:8 final size:8
Alignment explanation
Indices: 8187707--8187753 Score: 76
Period size: 8 Copynumber: 5.9 Consensus size: 8
8187697 GAACATCGAA
8187707 AGGAAAAG
1 AGGAAAAG
8187715 AGGAAAAG
1 AGGAAAAG
8187723 AGGAAAAG
1 AGGAAAAG
*
8187731 AAGAAAAG
1 AGGAAAAG
*
8187739 AGGAAAAC
1 AGGAAAAG
8187747 AGGAAAA
1 AGGAAAA
8187754 TAGAGAAAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 36 1.00
ACGTcount: A:0.66, C:0.02, G:0.32, T:0.00
Consensus pattern (8 bp):
AGGAAAAG
Found at i:8187736 original size:24 final size:25
Alignment explanation
Indices: 8187709--8187762 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 25
8187699 ACATCGAAAG
*
8187709 GAAAAGAGGAAAAGAGGAAAAGA-A
1 GAAAAGAGGAAAACAGGAAAAGAGA
*
8187733 GAAAAGAGGAAAACAGGAAAATAGA
1 GAAAAGAGGAAAACAGGAAAAGAGA
8187758 GAAAA
1 GAAAA
8187763 CAGAAGGCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 21 0.78
25 6 0.22
ACGTcount: A:0.67, C:0.02, G:0.30, T:0.02
Consensus pattern (25 bp):
GAAAAGAGGAAAACAGGAAAAGAGA
Found at i:8188659 original size:2 final size:2
Alignment explanation
Indices: 8188629--8188678 Score: 57
Period size: 2 Copynumber: 25.5 Consensus size: 2
8188619 TTTGATCTTT
* * * *
8188629 TA TA TA TT TA TT TA TT TA TT TA T- TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8188670 TA TA TA TA T
1 TA TA TA TA T
8188679 TCTTTTAATT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (2 bp):
TA
Found at i:8192867 original size:99 final size:97
Alignment explanation
Indices: 8192755--8192960 Score: 256
Period size: 99 Copynumber: 2.1 Consensus size: 97
8192745 AGATTACTAT
*
8192755 ATTATATATTATACAATACAA-CTTGAACT-GTCCCTCT-AGAGCAATTGGTTAAACGCTCCGAC
1 ATTATATATTATACAATA-AAGCTTG-ACTAGTCCCTCTAAG-GCAATTGGTTAAACGCCCCGAC
* *
8192817 TTTATGGATAAGATTAAGGTAACCTGATAAAGGTG
63 TTTATGGATAAGATTAAGCTAACCTGATAAAGATG
* * *
8192852 ATTATAATATATATACAATAAAGCTTGAGTAGTCCCTCTAAGGTAATTGGTTAAACGCCCCGGCT
1 ATTAT-ATAT-TATACAATAAAGCTTGACTAGTCCCTCTAAGGCAATTGGTTAAACGCCCCGACT
* * *
8192917 TTTTGGATAAGATTCAGCTAGCCTGATAAAGATG
64 TTATGGATAAGATTAAGCTAACCTGATAAAGATG
*
8192951 ATTATTTATT
1 ATTATATATT
8192961 GAGCTGTCCC
Statistics
Matches: 94, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
97 6 0.06
98 11 0.12
99 75 0.80
100 2 0.02
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (97 bp):
ATTATATATTATACAATAAAGCTTGACTAGTCCCTCTAAGGCAATTGGTTAAACGCCCCGACTTT
ATGGATAAGATTAAGCTAACCTGATAAAGATG
Found at i:8194366 original size:57 final size:57
Alignment explanation
Indices: 8194322--8194473 Score: 259
Period size: 57 Copynumber: 2.7 Consensus size: 57
8194312 TTCCAGAGTC
* *
8194322 AATTTCAACTTCACAACAAAGGATATCAAACTCAAAGCCAAACAATATTCAAGATTG
1 AATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAAACAATATTCAAGATTG
* *
8194379 GATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCTAAACAATATTCAAGATTG
1 AATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAAACAATATTCAAGATTG
*
8194436 TATTTCAACTTCACAACGAAGGATATCCAACTCAAAGC
1 AATTTCAACTTCACAACGAAGGATATCCAACTCAAAGC
8194474 AAATTTGGTG
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 90 1.00
ACGTcount: A:0.43, C:0.22, G:0.11, T:0.24
Consensus pattern (57 bp):
AATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAAACAATATTCAAGATTG
Found at i:8194528 original size:23 final size:23
Alignment explanation
Indices: 8194502--8194546 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
8194492 CTTGGATTTC
8194502 AACTTCACAACGAAGGATATCGA
1 AACTTCACAACGAAGGATATCGA
* *
8194525 AACTTCACGATGAAGGATATCG
1 AACTTCACAACGAAGGATATCG
8194547 TGCTCACAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (23 bp):
AACTTCACAACGAAGGATATCGA
Found at i:8194745 original size:124 final size:124
Alignment explanation
Indices: 8194525--8194924 Score: 604
Period size: 124 Copynumber: 3.2 Consensus size: 124
8194515 AGGATATCGA
* * * *
8194525 AACTTCACGATGAAGGATATCGTGCTCACAAGCAGCATCCATCTCTAGATTGGGTTTAAACTTCA
1 AACTTCACGATGAAAGATATCGTGCCCACAAGCAGCATCCATCTCTAGATTGGATTTCAACTTCA
*
8194590 CAACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCATCCACGATTTC
66 CAACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGAGCCATCCACGATTTC
* *
8194649 AACTTCACGACGAAAGATATCGTGCCCACAAGAAGCATCCATCTCTAGATTGGATTTCAACTTCA
1 AACTTCACGATGAAAGATATCGTGCCCACAAGCAGCATCCATCTCTAGATTGGATTTCAACTTCA
* * * *
8194714 CAACAAAGGATATCCTATTTAAAGCTCAACTTCACAATGAAGGAGCCATCCACGATTTC
66 CAACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGAGCCATCCACGATTTC
* * * * ** *
8194773 AACTTCACGATGGAGGATATCGTACCCACAATCATAATCCATCTCTAGATTGGATTTCAACTTTA
1 AACTTCACGATGAAAGATATCGTGCCCACAAGCAGCATCCATCTCTAGATTGGATTTCAACTTCA
* *
8194838 CAATGAAGGATATCCAATTCAAAGCTCAACTTCACCACGAAGGAGCCATCCACGATTTC
66 CAACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGAGCCATCCACGATTTC
8194897 AACTTCACGATG-AAGAATATCGTGCCCA
1 AACTTCACGATGAAAG-ATATCGTGCCCA
8194925 ATAGATTGAC
Statistics
Matches: 247, Mismatches: 28, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
123 2 0.01
124 245 0.99
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.24
Consensus pattern (124 bp):
AACTTCACGATGAAAGATATCGTGCCCACAAGCAGCATCCATCTCTAGATTGGATTTCAACTTCA
CAACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGAGCCATCCACGATTTC
Found at i:8195195 original size:84 final size:85
Alignment explanation
Indices: 8194987--8195196 Score: 251
Period size: 85 Copynumber: 2.5 Consensus size: 85
8194977 TTTCCCCAAC
* * *
8194987 AATTTACAGCATAACTTAAGGCGAGAAGAGTTATCTCTCAACAAAGACCTCCGAGTACGATTACA
1 AATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTCCGAGTACGATTACA
* *
8195052 TTCAGATCAAAGGAATGCCA
66 TCCAGATCAAAGGAATACCA
* * * * * * *
8195072 AATTTACAACATATCTCAAGACGAGAAGGGCTATCTGTCAACCAAGACCTTCGAGTTCGATTACA
1 AATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTCCGAGTACGATTACA
* * *
8195137 -CCAGTTCAAAGGCATATCA
66 TCCAGATCAAAGGAATACCA
* * *
8195156 AATTTACAGCATAAATCAAGGCAAGAAGGGTTATATGTCAA
1 AATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAA
8195197 TAAAAACTGA
Statistics
Matches: 103, Mismatches: 22, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
84 48 0.47
85 55 0.53
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (85 bp):
AATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTCCGAGTACGATTACA
TCCAGATCAAAGGAATACCA
Found at i:8197273 original size:9 final size:9
Alignment explanation
Indices: 8197250--8197284 Score: 54
Period size: 8 Copynumber: 3.9 Consensus size: 9
8197240 TCTTTTACAT
8197250 TTTTATTTA
1 TTTTATTTA
8197259 -TTTATTTA
1 TTTTATTTA
8197267 TTTTATTTA
1 TTTTATTTA
8197276 TTTTTATTT
1 -TTTTATTT
8197285 TCTTTTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.33
9 8 0.33
10 8 0.33
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTATTTA
Found at i:8197291 original size:10 final size:10
Alignment explanation
Indices: 8197248--8197284 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
8197238 GATCTTTTAC
8197248 ATTTTTATTT
1 ATTTTTATTT
8197258 A--TTTATTT
1 ATTTTTATTT
8197266 A-TTTTATTT
1 ATTTTTATTT
8197275 ATTTTTATTT
1 ATTTTTATTT
8197285 TCTTTTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 8 0.32
9 8 0.32
10 9 0.36
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (10 bp):
ATTTTTATTT
Found at i:8200842 original size:16 final size:17
Alignment explanation
Indices: 8200821--8200852 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
8200811 TCTTGTTGTT
8200821 CTCCATTTGA-ATCTTG
1 CTCCATTTGACATCTTG
8200837 CTCCATTTGACATCTT
1 CTCCATTTGACATCTT
8200853 CTAACATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (17 bp):
CTCCATTTGACATCTTG
Done.