Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 331 of 373
Found at i:111129485 original size:31 final size:31
Alignment explanation
Indices: 111129416--111129492 Score: 88
Period size: 30 Copynumber: 2.5 Consensus size: 31
111129406 AAATATTATT
* * *
111129416 TTATTATTTTAATAATTTTTAAATGATAAAA
1 TTATAATTTTTATTATTTTTAAATGATAAAA
*
111129447 TTA-AATTTTTATTATTTTTAAGA-GATTAAA
1 TTATAATTTTTATTATTTTTAA-ATGATAAAA
111129477 TTATAA-TTTTATTATT
1 TTATAATTTTTATTATT
111129493 AATTTAAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
30 34 0.85
31 6 0.15
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (31 bp):
TTATAATTTTTATTATTTTTAAATGATAAAA
Found at i:111129493 original size:19 final size:19
Alignment explanation
Indices: 111129471--111129507 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
111129461 TTTTTAAGAG
*
111129471 ATTAAATTATAATTTTATT
1 ATTAAATTAAAATTTTATT
*
111129490 ATTAATTTAAAATTTTAT
1 ATTAAATTAAAATTTTAT
111129508 AAAATATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTAAATTAAAATTTTATT
Found at i:111136850 original size:20 final size:20
Alignment explanation
Indices: 111136812--111136871 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 20
111136802 TTTTAAAAAC
*
111136812 ATATAAAAATTC-TAATAAA
1 ATATAAAAATTCAAAATAAA
*
111136831 ATATAAAATTTCAAAATAAA
1 ATATAAAAATTCAAAATAAA
* *
111136851 ATATATAACTT-AAAATAAA
1 ATATAAAAATTCAAAATAAA
111136870 AT
1 AT
111136872 CAACCTCAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
19 21 0.58
20 15 0.42
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (20 bp):
ATATAAAAATTCAAAATAAA
Found at i:111139646 original size:20 final size:20
Alignment explanation
Indices: 111139621--111139658 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
111139611 CAAATTTTAT
111139621 ATTTTAAAAAAATTATAATA
1 ATTTTAAAAAAATTATAATA
111139641 ATTTTAAAAAAATTATAA
1 ATTTTAAAAAAATTATAA
111139659 AGAATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
ATTTTAAAAAAATTATAATA
Found at i:111144795 original size:25 final size:26
Alignment explanation
Indices: 111144767--111144815 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
111144757 TTTTTATGTG
*
111144767 TAGTA-AATTATATAATA-TATAAAAA
1 TAGTATAA-TATAAAATACTATAAAAA
111144792 TAGTATAATATAAAATACTATAAA
1 TAGTATAATATAAAATACTATAAA
111144816 TTTAAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (26 bp):
TAGTATAATATAAAATACTATAAAAA
Found at i:111144802 original size:16 final size:17
Alignment explanation
Indices: 111144777--111144826 Score: 59
Period size: 15 Copynumber: 3.0 Consensus size: 17
111144767 TAGTAAATTA
111144777 TATAATATATAAAAATAG
1 TATAA-ATATAAAAATAG
*
111144795 TAT-AATAT-AAAATAC
1 TATAAATATAAAAATAG
*
111144810 TATAAATTTAAAAATAG
1 TATAAATATAAAAATAG
111144827 ATCGGATTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 9 0.33
16 8 0.30
17 7 0.26
18 3 0.11
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (17 bp):
TATAAATATAAAAATAG
Found at i:111148070 original size:23 final size:26
Alignment explanation
Indices: 111148033--111148079 Score: 73
Period size: 23 Copynumber: 1.9 Consensus size: 26
111148023 ATATTTTGTC
111148033 AAATATAGATACCACATT-GAAAAAA
1 AAATATAGATACCACATTAGAAAAAA
111148058 AAATAT-G-TACCACATTAGAAAA
1 AAATATAGATACCACATTAGAAAA
111148080 TAGCGTCAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 9 0.43
24 6 0.29
25 6 0.29
ACGTcount: A:0.57, C:0.13, G:0.09, T:0.21
Consensus pattern (26 bp):
AAATATAGATACCACATTAGAAAAAA
Found at i:111149308 original size:11 final size:11
Alignment explanation
Indices: 111149292--111149317 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
111149282 TTATTTATTA
111149292 TTTTTTGTAAT
1 TTTTTTGTAAT
111149303 TTTTTTGTAAT
1 TTTTTTGTAAT
111149314 TTTT
1 TTTT
111149318 AATAAGAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (11 bp):
TTTTTTGTAAT
Found at i:111151817 original size:26 final size:24
Alignment explanation
Indices: 111151787--111151840 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
111151777 GGAGAGAAAC
* *
111151787 AAAAAAGGGTCAAAGTGTTTTTTTTT
1 AAAAAA-GCTCAAAATG-TTTTTTTT
*
111151813 AAAAAAGCTTAAAATGTTTTTTTT
1 AAAAAAGCTCAAAATGTTTTTTTT
111151837 AAAA
1 AAAA
111151841 CGTTTTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 12 0.48
25 7 0.28
26 6 0.24
ACGTcount: A:0.43, C:0.04, G:0.13, T:0.41
Consensus pattern (24 bp):
AAAAAAGCTCAAAATGTTTTTTTT
Found at i:111153721 original size:55 final size:55
Alignment explanation
Indices: 111153655--111153764 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
111153645 AAAAATAAGG
111153655 CACTAATCTTCAATTATACCTCTTGTCAAACTAAATGCACTTGTCAGTATCAATC
1 CACTAATCTTCAATTATACCTCTTGTCAAACTAAATGCACTTGTCAGTATCAATC
*
111153710 CACTAATCTTCAATTATACCTCTTGTGAAACTAAATGCACTTGTCAGTATCAATC
1 CACTAATCTTCAATTATACCTCTTGTCAAACTAAATGCACTTGTCAGTATCAATC
111153765 TACTTCTTAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.33, C:0.25, G:0.08, T:0.35
Consensus pattern (55 bp):
CACTAATCTTCAATTATACCTCTTGTCAAACTAAATGCACTTGTCAGTATCAATC
Found at i:111154739 original size:18 final size:17
Alignment explanation
Indices: 111154713--111154765 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 17
111154703 GAAACATTTA
*
111154713 TTTTAATGTTTTTATTAT-
1 TTTT-ATGTTTTT-TAATG
111154731 TTTTGATGTATTTTTAATG
1 TTTT-ATGT-TTTTTAATG
111154750 TTTTATGTTTTTTAAT
1 TTTTATGTTTTTTAAT
111154766 TAAAATTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 8 0.26
18 15 0.48
19 8 0.26
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.70
Consensus pattern (17 bp):
TTTTATGTTTTTTAATG
Found at i:111155376 original size:24 final size:25
Alignment explanation
Indices: 111155343--111155390 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
111155333 ACATTCTGTC
*
111155343 AAATATATGTACCACATT-GAAAAA
1 AAATACATGTACCACATTAGAAAAA
*
111155367 AAATACATGTATCACATTAGAAAA
1 AAATACATGTACCACATTAGAAAA
111155391 TAATGTCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.54, C:0.12, G:0.08, T:0.25
Consensus pattern (25 bp):
AAATACATGTACCACATTAGAAAAA
Found at i:111156764 original size:3 final size:3
Alignment explanation
Indices: 111156756--111156803 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
111156746 AATAAAGTAC
111156756 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
111156804 GAGAATAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:111158587 original size:44 final size:44
Alignment explanation
Indices: 111158539--111158721 Score: 131
Period size: 44 Copynumber: 4.1 Consensus size: 44
111158529 CTCCAGGGAA
*
111158539 ATAAGAATCGCATCTTCAATCTGCTCCACTGCAACTTCAAGAAG
1 ATAAGATTCGCATCTTCAATCTGCTCCACTGCAACTTCAAGAAG
* * * * *
111158583 ATAAGATTTGTAAC-TCTAA-CTTGCTCCACTGCAACTTTAGGGAA-
1 ATAAGATTCGCATCTTC-AATC-TGCTCCACTGCAACTTCA-AGAAG
* *** * * * *
111158627 ATAAGGTTTATAGCTTTAATCTGCTCTACTGCAACTTTAA-AGAG
1 ATAAGATTCGCATCTTCAATCTGCTCCACTGCAACTTCAAGA-AG
* * * *
111158671 ATAAGATTCGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAG
1 ATAAGATTCGC-ATCTTCAATCTGCTCCACTGCAACTTCAAGAAG
111158716 ATAAGA
1 ATAAGA
111158722 CTTGTGGCTT
Statistics
Matches: 108, Mismatches: 22, Indels: 17
0.73 0.15 0.12
Matches are distributed among these distances:
42 1 0.01
43 4 0.04
44 66 0.61
45 37 0.34
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (44 bp):
ATAAGATTCGCATCTTCAATCTGCTCCACTGCAACTTCAAGAAG
Found at i:111158732 original size:89 final size:88
Alignment explanation
Indices: 111158556--111158767 Score: 221
Period size: 89 Copynumber: 2.4 Consensus size: 88
111158546 TCGCATCTTC
* * *
111158556 AATCTGCTCCACTGCAACTTCAAGAAGATAAGATTTGTAACTCTAACTTGCTCCACTGCAACTTT
1 AATCTGCTCCACTGCAACTTAAAGAAGATAAGATTCGTAACTCTAACTTGCTCCACTGCAACTTC
**
111158621 AGGGAAATAAGGTTTATAGCTTT
66 AGGGAAATAAGACTTATAGCTTT
* * * *
111158644 AATCTGCTCTACTGCAACTTTAAAG-AGATAAGATTCGCTATCT-TTAGTCTGCTCCACTGCAAC
1 AATCTGCTCCACTGCAAC-TTAAAGAAGATAAGATTCG-TAACTCTAACT-TGCTCCACTGCAAC
* * *
111158707 TTCAGGGAGATAAGACTTGTGGCTTT
63 TTCAGGGAAATAAGACTTATAGCTTT
* * * * * *
111158733 AATCTACTCCATTGTAACTTCAGGGAGATAAGATT
1 AATCTGCTCCACTGCAACTTAAAGAAGATAAGATT
111158768 TGCCATAATA
Statistics
Matches: 102, Mismatches: 18, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
88 35 0.34
89 67 0.66
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.32
Consensus pattern (88 bp):
AATCTGCTCCACTGCAACTTAAAGAAGATAAGATTCGTAACTCTAACTTGCTCCACTGCAACTTC
AGGGAAATAAGACTTATAGCTTT
Found at i:111159645 original size:94 final size:94
Alignment explanation
Indices: 111159521--111159704 Score: 235
Period size: 94 Copynumber: 2.0 Consensus size: 94
111159511 GGCTTTAATT
* * *
111159521 TGCTCCACTGCAACTTTAGGAAGATAAGATTCACCATGATAACTTTAATCCGTCCCACTGCCAT-
1 TGCTCCACTGCAACTTCAGGAAGATAAGATTCACCATAATAACTTTAATCCATCCCACTG-CATC
* *
111159585 TTTAGGGGTGTAGGATTAGTGGTTTCAATA
65 TTTAGAGGTATAGGATTAGTGGTTTCAATA
* ** * * *
111159615 TGCTCCACTGCATCTTCAGGGGGATAAGATTCGCCATAATGATTTTAATCCATCCCACTGCATCT
1 TGCTCCACTGCAACTTCAGGAAGATAAGATTCACCATAATAACTTTAATCCATCCCACTGCATCT
**
111159680 TTAGAGGTATAGGATTTTTGGTTTC
66 TTAGAGGTATAGGATTAGTGGTTTC
111159705 TCTGATCTTT
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
93 3 0.04
94 73 0.96
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.34
Consensus pattern (94 bp):
TGCTCCACTGCAACTTCAGGAAGATAAGATTCACCATAATAACTTTAATCCATCCCACTGCATCT
TTAGAGGTATAGGATTAGTGGTTTCAATA
Found at i:111164269 original size:47 final size:47
Alignment explanation
Indices: 111164202--111164326 Score: 146
Period size: 47 Copynumber: 2.7 Consensus size: 47
111164192 TTTACATAAT
* * * *
111164202 GATGCCATAGCCCAGCTATGGT-TT-TACACGTAAGCACATATCTCACT
1 GATGCCATATCCCAGATATGGTCTTATACA-GT-AGCACATATCACACC
* * *
111164249 GATGTCATATCTCAGATATGGTCTTATACAGTAGCATATATCACACC
1 GATGCCATATCCCAGATATGGTCTTATACAGTAGCACATATCACACC
*
111164296 GATGCCATATCCCAGATATGGTCCTATACAG
1 GATGCCATATCCCAGATATGGTCTTATACAG
111164327 AAATCACTTG
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
47 58 0.88
48 4 0.06
49 4 0.06
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (47 bp):
GATGCCATATCCCAGATATGGTCTTATACAGTAGCACATATCACACC
Found at i:111164342 original size:7 final size:7
Alignment explanation
Indices: 111164330--111164358 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
111164320 TATACAGAAA
111164330 TCACTTG
1 TCACTTG
111164337 TCACTTG
1 TCACTTG
111164344 TCACTTG
1 TCACTTG
111164351 TCACTTG
1 TCACTTG
111164358 T
1 T
111164359 AGCCAAAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.45
Consensus pattern (7 bp):
TCACTTG
Found at i:111164392 original size:31 final size:31
Alignment explanation
Indices: 111164357--111164565 Score: 292
Period size: 31 Copynumber: 6.7 Consensus size: 31
111164347 CTTGTCACTT
* *
111164357 GTAGCCAAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* ** * *
111164388 GTAGCTGGTGCTACCATTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
111164419 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
111164450 GTAGCCGAAGCTACCACTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
111164481 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
111164512 GTAGCTGAAACTACCAATTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
111164543 GTAGCTGAAGCTACCACTTTTCA
1 GTAGCCGAAGCTACCACTTTTCA
111164566 GTTGTCATTT
Statistics
Matches: 158, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 158 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:111164649 original size:50 final size:50
Alignment explanation
Indices: 111164543--111164719 Score: 257
Period size: 50 Copynumber: 3.5 Consensus size: 50
111164533 CACTGATCAG
* * * *
111164543 GTAGCTGAAGCTACCACTTTTCAGTTGTCATTTG-CCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCC-TTGATCAGATAAGT
* *
111164594 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTAATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
111164644 GTAGCCGAAGTTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
111164694 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
111164720 GTTTCCATGG
Statistics
Matches: 113, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
50 89 0.79
51 24 0.21
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:111180692 original size:22 final size:23
Alignment explanation
Indices: 111180667--111180712 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
111180657 CAACCAATCC
* *
111180667 AATTCA-ACATATTTTTAAGATA
1 AATTCATACATATTTATAAAATA
*
111180689 AATTCATGCATATTTATAAAATA
1 AATTCATACATATTTATAAAATA
111180712 A
1 A
111180713 CGTCATCACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.39
Consensus pattern (23 bp):
AATTCATACATATTTATAAAATA
Found at i:111180718 original size:23 final size:23
Alignment explanation
Indices: 111180674--111180718 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
111180664 TCCAATTCAA
* * *
111180674 CATATTTTTAAGATAAATTCATG
1 CATATTTATAAAATAAAGTCATG
*
111180697 CATATTTATAAAATAACGTCAT
1 CATATTTATAAAATAAAGTCAT
111180719 CACATACCCA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (23 bp):
CATATTTATAAAATAAAGTCATG
Found at i:111183687 original size:21 final size:21
Alignment explanation
Indices: 111183636--111183727 Score: 71
Period size: 21 Copynumber: 4.4 Consensus size: 21
111183626 AGGCTGCACT
* * *
111183636 GAAGCACATAAGTGTTAAATG
1 GAAGCTCATAAGGGTTAAACG
* *
111183657 GAAACCCATAAGGGTTAAACG
1 GAAGCTCATAAGGGTTAAACG
*
111183678 GAAGCTCAT-AGGAGTTGAACG
1 GAAGCTCATAAGG-GTTAAACG
* * *
111183699 GAAAGC-CATAAGGGCTAATCT
1 G-AAGCTCATAAGGGTTAAACG
111183720 GAAGCTCA
1 GAAGCTCA
111183728 AAAGAGCTAA
Statistics
Matches: 56, Mismatches: 11, Indels: 8
0.75 0.15 0.11
Matches are distributed among these distances:
20 7 0.12
21 42 0.75
22 7 0.12
ACGTcount: A:0.39, C:0.16, G:0.26, T:0.18
Consensus pattern (21 bp):
GAAGCTCATAAGGGTTAAACG
Found at i:111183736 original size:21 final size:21
Alignment explanation
Indices: 111183712--111183766 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
111183702 AGCCATAAGG
* * *
111183712 GCTAATCTGAAGCTCAAAAGA
1 GCTAAACTGAAACCCAAAAGA
*
111183733 GCTAAACTGAAACCCAAAAGG
1 GCTAAACTGAAACCCAAAAGA
* *
111183754 GTTGAACTGAAAC
1 GCTAAACTGAAAC
111183767 TTATATGAGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.44, C:0.20, G:0.20, T:0.16
Consensus pattern (21 bp):
GCTAAACTGAAACCCAAAAGA
Found at i:111183764 original size:42 final size:41
Alignment explanation
Indices: 111183633--111183764 Score: 111
Period size: 42 Copynumber: 3.1 Consensus size: 41
111183623 TAAAGGCTGC
* * * * *
111183633 ACTGAAGCACATAAGTGTTAAATGGAAACCCATAAGGGTTAA
1 ACTGAAGCTCAAAAGAGCTAAACGGAAACCCATAAGGGTT-A
* * * * * * *
111183675 ACGGAAGCTCATAGGAGTTGAACGGAAAGCCATAAGGGCTA
1 ACTGAAGCTCAAAAGAGCTAAACGGAAACCCATAAGGGTTA
* *
111183716 ATCTGAAGCTCAAAAGAGCTAAACTGAAACCCAAAAGGGTTGA
1 A-CTGAAGCTCAAAAGAGCTAAACGGAAACCCATAAGGGTT-A
111183759 ACTGAA
1 ACTGAA
111183765 ACTTATATGA
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
41 2 0.03
42 67 0.94
43 2 0.03
ACGTcount: A:0.42, C:0.17, G:0.24, T:0.17
Consensus pattern (41 bp):
ACTGAAGCTCAAAAGAGCTAAACGGAAACCCATAAGGGTTA
Found at i:111186482 original size:47 final size:47
Alignment explanation
Indices: 111186351--111186483 Score: 149
Period size: 47 Copynumber: 2.8 Consensus size: 47
111186341 CGTTGGCAGT
* * * * * *
111186351 TCATCTATTCGACCAATGGTTTATCCACAATGGATTTCAGTCGGCAA
1 TCATCTGTTCGACCAATGGTTTATCCACAACGTATTTTAATCGCCAA
* * * * *
111186398 TCATCTGCTCGACCAATTGTTCATCCACAACGTATTTTAATTGCCAG
1 TCATCTGTTCGACCAATGGTTTATCCACAACGTATTTTAATCGCCAA
* *
111186445 TCATCTGTTCGGCCAGTGGTTTATCCACAACGTATTTTA
1 TCATCTGTTCGACCAATGGTTTATCCACAACGTATTTTA
111186484 GTTGATCTCC
Statistics
Matches: 70, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.35
Consensus pattern (47 bp):
TCATCTGTTCGACCAATGGTTTATCCACAACGTATTTTAATCGCCAA
Found at i:111192277 original size:14 final size:14
Alignment explanation
Indices: 111192258--111192296 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
111192248 AAACTAATTG
*
111192258 TGCAAGTTGTGATT
1 TGCAAGTTGTGATA
111192272 TGCAAGTTGTGATA
1 TGCAAGTTGTGATA
111192286 TGCAAGTTGTG
1 TGCAAGTTGTG
111192297 CAAGTTGCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.23, C:0.08, G:0.31, T:0.38
Consensus pattern (14 bp):
TGCAAGTTGTGATA
Found at i:111195664 original size:14 final size:14
Alignment explanation
Indices: 111195643--111195682 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
111195633 CTTACCTAAT
111195643 TGTGCAAGTTGTGA
1 TGTGCAAGTTGTGA
*
111195657 TTTGCAAGTTGTGA
1 TGTGCAAGTTGTGA
111195671 TGTGCAAGTTGT
1 TGTGCAAGTTGT
111195683 ACAAGTTGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.20, C:0.07, G:0.33, T:0.40
Consensus pattern (14 bp):
TGTGCAAGTTGTGA
Found at i:111207003 original size:23 final size:23
Alignment explanation
Indices: 111206973--111207019 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
111206963 AGTAGTAGCA
*
111206973 TCAACAATTACTGAATCTCAAAG
1 TCAACAATTACTAAATCTCAAAG
111206996 TCAACAATTACTAAATCTCAAAG
1 TCAACAATTACTAAATCTCAAAG
111207019 T
1 T
111207020 TGAACAGGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.21, G:0.06, T:0.28
Consensus pattern (23 bp):
TCAACAATTACTAAATCTCAAAG
Found at i:111208092 original size:10 final size:10
Alignment explanation
Indices: 111208077--111208125 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
111208067 TATTTTAGCT
111208077 TTTATCTTTA
1 TTTATCTTTA
*
111208087 TTTATCCTTA
1 TTTATCTTTA
*
111208097 ATTATCTTTA
1 TTTATCTTTA
* * *
111208107 ATTATATGTA
1 TTTATCTTTA
111208117 TTTATCTTT
1 TTTATCTTT
111208126 TAGAATTTAA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.24, C:0.10, G:0.02, T:0.63
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:111209040 original size:39 final size:40
Alignment explanation
Indices: 111209004--111209081 Score: 99
Period size: 41 Copynumber: 2.0 Consensus size: 40
111208994 TTAATTTTCA
111209004 AAATTTC-A-ATCAAAACTTTTAATTCTGTTTTTATTTTAT
1 AAATTTCTAGATCAAAACTTTTAATTCT-TTTTTATTTTAT
***
111209043 TTTTTTCTAGATCAAAACTTTTAATTCTTTTTT-TTTTAT
1 AAATTTCTAGATCAAAACTTTTAATTCTTTTTTATTTTAT
111209082 TTTTTTCCCA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
39 10 0.29
40 6 0.18
41 18 0.53
ACGTcount: A:0.28, C:0.10, G:0.03, T:0.59
Consensus pattern (40 bp):
AAATTTCTAGATCAAAACTTTTAATTCTTTTTTATTTTAT
Found at i:111209085 original size:39 final size:41
Alignment explanation
Indices: 111209012--111209088 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 41
111209002 CAAAATTTCA
111209012 ATCAAAACTTTTAATTCTGTTTTTATTTTATTTTTTTCTAG
1 ATCAAAACTTTTAATTCTGTTTTTATTTTATTTTTTTCTAG
111209053 ATCAAAACTTTTAATTCT-TTTTT-TTTTATTTTTTTC
1 ATCAAAACTTTTAATTCTGTTTTTATTTTATTTTTTTC
111209089 CCAGGTACGC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
39 13 0.36
40 5 0.14
41 18 0.50
ACGTcount: A:0.23, C:0.10, G:0.03, T:0.64
Consensus pattern (41 bp):
ATCAAAACTTTTAATTCTGTTTTTATTTTATTTTTTTCTAG
Found at i:111210663 original size:33 final size:33
Alignment explanation
Indices: 111210621--111210697 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 33
111210611 GCTAATGTGC
* *
111210621 TTGATTTCCAAC-AGCAGATACAACAGCAAACTA
1 TTGATTTCCAACGA-AAAATACAACAGCAAACTA
* * *
111210654 TTGATTTCCAACGAAAAATACTACGGCAAACTC
1 TTGATTTCCAACGAAAAATACAACAGCAAACTA
111210687 TTGATTTCCAA
1 TTGATTTCCAA
111210698 AAGGAAACAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
33 37 0.97
34 1 0.03
ACGTcount: A:0.39, C:0.23, G:0.12, T:0.26
Consensus pattern (33 bp):
TTGATTTCCAACGAAAAATACAACAGCAAACTA
Found at i:111211966 original size:15 final size:15
Alignment explanation
Indices: 111211946--111212030 Score: 50
Period size: 15 Copynumber: 5.4 Consensus size: 15
111211936 AGGCAACCCA
111211946 ATTTTTATTTTCTTT
1 ATTTTTATTTTCTTT
*
111211961 ATTTTTATTATATTATATT
1 ATTTTTA-T-T-TTCT-TT
*
111211980 ATTATTTATTGTC-TT
1 ATT-TTTATTTTCTTT
*
111211995 A-TTTTATTTTATTTT
1 ATTTTTATTTT-CTTT
*
111212010 ATTATTTA-TTACTTT
1 ATT-TTTATTTTCTTT
111212025 ATTTTT
1 ATTTTT
111212031 GGATATTGAT
Statistics
Matches: 54, Mismatches: 7, Indels: 19
0.68 0.09 0.24
Matches are distributed among these distances:
13 7 0.13
14 4 0.07
15 19 0.35
16 4 0.07
17 6 0.11
18 4 0.07
19 6 0.11
20 4 0.07
ACGTcount: A:0.22, C:0.04, G:0.01, T:0.73
Consensus pattern (15 bp):
ATTTTTATTTTCTTT
Found at i:111212027 original size:30 final size:30
Alignment explanation
Indices: 111211968--111212029 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
111211958 TTTATTTTTA
*
111211968 TTATATTATATTATTATTTATTGTCTTATT
1 TTATATTATATTATTATTTATTCTCTTATT
* *
111211998 TTATTTTATTTTATTATTTATTACT-TTATT
1 TTATATTATATTATTATTTATT-CTCTTATT
111212028 TT
1 TT
111212030 TGGATATTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.24, C:0.03, G:0.02, T:0.71
Consensus pattern (30 bp):
TTATATTATATTATTATTTATTCTCTTATT
Found at i:111212028 original size:20 final size:19
Alignment explanation
Indices: 111211958--111212029 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 19
111211948 TTTTATTTTC
*
111211958 TTTATT-TTTATTATATTA
1 TTTATTATTTATTTTATTA
* *
111211976 TATTATTATTTATTGTCTTA
1 T-TTATTATTTATTTTATTA
111211996 -TT-TTATTTTATTTTATTA
1 TTTATTA-TTTATTTTATTA
111212014 TTTATTACTTTATTTT
1 TTTATTA-TTTATTTT
111212030 TGGATATTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
17 3 0.07
18 13 0.30
19 7 0.16
20 21 0.48
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (19 bp):
TTTATTATTTATTTTATTA
Found at i:111213972 original size:23 final size:23
Alignment explanation
Indices: 111213942--111213992 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
111213932 GCCAAAAATA
111213942 CAAAATGTGAAAGATTTTGGGAG
1 CAAAATGTGAAAGATTTTGGGAG
* *
111213965 CAAAATGTGGAAGATTTTGGGTG
1 CAAAATGTGAAAGATTTTGGGAG
111213988 CAAAA
1 CAAAA
111213993 ATGCAAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.39, C:0.06, G:0.29, T:0.25
Consensus pattern (23 bp):
CAAAATGTGAAAGATTTTGGGAG
Found at i:111214002 original size:24 final size:23
Alignment explanation
Indices: 111213942--111214002 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
111213932 GCCAAAAATA
**
111213942 CAAAATGTGAAAGATTTTGGGAG
1 CAAAATGCAAAAGATTTTGGGAG
*** *
111213965 CAAAATGTGGAAGATTTTGGGTG
1 CAAAATGCAAAAGATTTTGGGAG
111213988 CAAAAATGCAAAAGA
1 C-AAAATGCAAAAGA
111214003 AGAGATTTTG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 22 0.69
24 10 0.31
ACGTcount: A:0.43, C:0.07, G:0.28, T:0.23
Consensus pattern (23 bp):
CAAAATGCAAAAGATTTTGGGAG
Found at i:111216369 original size:15 final size:16
Alignment explanation
Indices: 111216333--111216368 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
111216323 CATTGAAGTA
* *
111216333 TTTTTTGAAAACCGTG
1 TTTTTCGAAAACCATG
111216349 TTTTTCGAAAACCATG
1 TTTTTCGAAAACCATG
111216365 TTTT
1 TTTT
111216369 CATTGAAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.47
Consensus pattern (16 bp):
TTTTTCGAAAACCATG
Found at i:111220010 original size:16 final size:17
Alignment explanation
Indices: 111219989--111220023 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
111219979 TAATGTATAG
111219989 GAAAATTA-TTAATTGA
1 GAAAATTAGTTAATTGA
111220005 GAAAATTAGTTTAATTGA
1 GAAAATTAG-TTAATTGA
111220023 G
1 G
111220024 GGGTTAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
18 9 0.53
ACGTcount: A:0.46, C:0.00, G:0.17, T:0.37
Consensus pattern (17 bp):
GAAAATTAGTTAATTGA
Found at i:111220903 original size:31 final size:31
Alignment explanation
Indices: 111220868--111220935 Score: 127
Period size: 31 Copynumber: 2.2 Consensus size: 31
111220858 TTCTATTTTA
111220868 ATATGTTGGAAATGAAGTTAATGGTAAAAAT
1 ATATGTTGGAAATGAAGTTAATGGTAAAAAT
111220899 ATATGTTGGAAATGAAGTTAATGGTAAAAAT
1 ATATGTTGGAAATGAAGTTAATGGTAAAAAT
*
111220930 TTATGT
1 ATATGT
111220936 GAGACTATTC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (31 bp):
ATATGTTGGAAATGAAGTTAATGGTAAAAAT
Found at i:111222497 original size:16 final size:17
Alignment explanation
Indices: 111222476--111222510 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
111222466 TAATGTCTAG
111222476 GAAAATTA-TTAATTGA
1 GAAAATTAGTTAATTGA
111222492 GAAAATTAGTTTAATTGA
1 GAAAATTAG-TTAATTGA
111222510 G
1 G
111222511 GGGTTAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
18 9 0.53
ACGTcount: A:0.46, C:0.00, G:0.17, T:0.37
Consensus pattern (17 bp):
GAAAATTAGTTAATTGA
Found at i:111224356 original size:15 final size:15
Alignment explanation
Indices: 111224319--111224347 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
111224309 TTTCCCTATC
111224319 TAATAATAATAATTA
1 TAATAATAATAATTA
111224334 TAATAATAATAATT
1 TAATAATAATAATT
111224348 TTATAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATAATAATAATTA
Found at i:111231199 original size:60 final size:60
Alignment explanation
Indices: 111231101--111231225 Score: 241
Period size: 60 Copynumber: 2.1 Consensus size: 60
111231091 TGTAGTTCAC
111231101 TGAGCATTGAGCTCAATTCCTTATCCTCACATCTAGTACGGGTGAGTTTGGATGAGTTAT
1 TGAGCATTGAGCTCAATTCCTTATCCTCACATCTAGTACGGGTGAGTTTGGATGAGTTAT
*
111231161 TGAGTATTGAGCTCAATTCCTTATCCTCACATCTAGTACGGGTGAGTTTGGATGAGTTAT
1 TGAGCATTGAGCTCAATTCCTTATCCTCACATCTAGTACGGGTGAGTTTGGATGAGTTAT
111231221 TGAGC
1 TGAGC
111231226 GTGGTGCAAT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 63 1.00
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (60 bp):
TGAGCATTGAGCTCAATTCCTTATCCTCACATCTAGTACGGGTGAGTTTGGATGAGTTAT
Found at i:111232427 original size:30 final size:31
Alignment explanation
Indices: 111232393--111232464 Score: 112
Period size: 29 Copynumber: 2.4 Consensus size: 31
111232383 GACCCAAATA
111232393 TAAATATTTAAAATTTAAAGGGTTAA-AGTG
1 TAAATATTTAAAATTTAAAGGGTTAATAGTG
*
111232423 TAAATA-TAAAAATTTAAAGGGTTAATAGTG
1 TAAATATTTAAAATTTAAAGGGTTAATAGTG
111232453 TAAATATATTAA
1 TAAATAT-TTAA
111232465 GAGTGGAAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
29 18 0.49
30 16 0.43
32 3 0.08
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (31 bp):
TAAATATTTAAAATTTAAAGGGTTAATAGTG
Found at i:111232706 original size:23 final size:24
Alignment explanation
Indices: 111232669--111232713 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
111232659 TGGATAAAAT
111232669 AATATTTTATAAATATTTTATTTA
1 AATATTTTATAAATATTTTATTTA
*
111232693 AATA-TTTATTAATATTTTATT
1 AATATTTTATAAATATTTTATT
111232714 AATTTAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
AATATTTTATAAATATTTTATTTA
Found at i:111232713 original size:11 final size:11
Alignment explanation
Indices: 111232668--111232716 Score: 64
Period size: 11 Copynumber: 4.4 Consensus size: 11
111232658 ATGGATAAAA
111232668 TAATATTTTAT
1 TAATATTTTAT
*
111232679 AAATATTTTATT
1 TAATATTTTA-T
111232691 TAA-ATATTTAT
1 TAATAT-TTTAT
111232702 TAATATTTTAT
1 TAATATTTTAT
111232713 TAAT
1 TAAT
111232717 TTAATATTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
11 24 0.73
12 9 0.27
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TAATATTTTAT
Found at i:111234241 original size:27 final size:27
Alignment explanation
Indices: 111234211--111234267 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
111234201 GGAATTAAAC
111234211 TTAGTGTGATTTTTTAGTACAATAATT
1 TTAGTGTGATTTTTTAGTACAATAATT
111234238 TTAGTGTGATTTTTTAGTACAATAATT
1 TTAGTGTGATTTTTTAGTACAATAATT
111234265 TTA
1 TTA
111234268 CTCTTGTACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.30, C:0.04, G:0.14, T:0.53
Consensus pattern (27 bp):
TTAGTGTGATTTTTTAGTACAATAATT
Found at i:111234565 original size:20 final size:20
Alignment explanation
Indices: 111234533--111234581 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
111234523 GATTTTTTCA
111234533 TTTTTAATATTTTTAA-AAT
1 TTTTTAATATTTTTAATAAT
*
111234552 TTTTATAATTTTTTTAATAAT
1 TTTT-TAATATTTTTAATAAT
111234573 TTATTTAAT
1 TT-TTTAAT
111234582 TAAGCCCGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 4 0.15
20 11 0.42
21 9 0.35
22 2 0.08
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTTAATATTTTTAATAAT
Found at i:111239276 original size:17 final size:17
Alignment explanation
Indices: 111239254--111239320 Score: 64
Period size: 18 Copynumber: 3.6 Consensus size: 17
111239244 AATTCGACTG
*
111239254 ATTTTTTTATTTTTAAT
1 ATTTTTTAATTTTTAAT
111239271 ATTTTTTAAATTTTT-AT
1 ATTTTTT-AATTTTTAAT
111239288 AATTTTTATAATTTTTTAAT
1 -ATTTTT-TAA-TTTTTAAT
111239308 AATTTATTTAATT
1 -ATTT-TTTAATT
111239321 AAATCCGAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
17 9 0.21
18 14 0.33
19 8 0.19
20 10 0.23
21 2 0.05
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATTTTTAAT
Found at i:111239283 original size:18 final size:19
Alignment explanation
Indices: 111239262--111239318 Score: 73
Period size: 18 Copynumber: 3.0 Consensus size: 19
111239252 TGATTTTTTT
111239262 ATTTTTAAT-ATTTTTTAA
1 ATTTTTAATAATTTTTTAA
111239280 ATTTTT-ATAATTTTTATAA
1 ATTTTTAATAATTTTT-TAA
*
111239299 TTTTTTAATAATTTATTTAA
1 ATTTTTAATAATTT-TTTAA
111239319 TTAAATCCGA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
17 2 0.06
18 12 0.35
19 8 0.24
20 10 0.29
21 2 0.06
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTTTTAATAATTTTTTAA
Found at i:111239313 original size:27 final size:27
Alignment explanation
Indices: 111239262--111239314 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
111239252 TGATTTTTTT
*
111239262 ATTTTTAATATTTTTTAAATTTTTATA
1 ATTTTTAATATTTTTTAAATATTTATA
111239289 ATTTTT-ATAATTTTTT-AATAATTTAT
1 ATTTTTAAT-ATTTTTTAAAT-ATTTAT
111239315 TTAATTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (27 bp):
ATTTTTAATATTTTTTAAATATTTATA
Found at i:111239319 original size:12 final size:11
Alignment explanation
Indices: 111239263--111239319 Score: 56
Period size: 9 Copynumber: 5.7 Consensus size: 11
111239253 GATTTTTTTA
111239263 TTTTTAAT-AT
1 TTTTTAATAAT
111239273 TTTTT-A-AA-
1 TTTTTAATAAT
111239281 TTTTT-ATAA-
1 TTTTTAATAAT
111239290 TTTTT-ATAAT
1 TTTTTAATAAT
111239300 TTTTTAATAAT
1 TTTTTAATAAT
111239311 TTATTTAAT
1 TT-TTTAAT
111239320 TAAATCCGAA
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
8 6 0.14
9 13 0.31
10 10 0.24
11 7 0.17
12 6 0.14
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TTTTTAATAAT
Found at i:111239319 original size:20 final size:19
Alignment explanation
Indices: 111239254--111239320 Score: 77
Period size: 20 Copynumber: 3.6 Consensus size: 19
111239244 AATTCGACTG
*
111239254 ATTTTTTTA-TTTTTAAT-
1 ATTTTTTAATTTTTTAATA
*
111239271 ATTTTTTAAATTTTT-ATA
1 ATTTTTTAATTTTTTAATA
111239289 ATTTTTATAATTTTTTAATA
1 ATTTTT-TAATTTTTTAATA
111239309 ATTTATTTAATT
1 ATTT-TTTAATT
111239321 AAATCCGAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
17 10 0.23
18 11 0.26
19 8 0.19
20 12 0.28
21 2 0.05
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
ATTTTTTAATTTTTTAATA
Found at i:111245557 original size:13 final size:12
Alignment explanation
Indices: 111245537--111245574 Score: 51
Period size: 13 Copynumber: 3.2 Consensus size: 12
111245527 TGTACTTATC
111245537 TCATTCATTCAA
1 TCATTCATTCAA
*
111245549 TCAATTCATACAA
1 TC-ATTCATTCAA
111245562 TCA-TCATTCAA
1 TCATTCATTCAA
111245573 TC
1 TC
111245575 TCAATCAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 9 0.39
12 3 0.13
13 11 0.48
ACGTcount: A:0.37, C:0.26, G:0.00, T:0.37
Consensus pattern (12 bp):
TCATTCATTCAA
Found at i:111246649 original size:24 final size:24
Alignment explanation
Indices: 111246581--111246677 Score: 83
Period size: 24 Copynumber: 4.0 Consensus size: 24
111246571 CTGAGTTGAT
*
111246581 GAACAGTAAGCTC-TATTGAGCTGA
1 GAACAGTAAGCTCTTA-CGAGCTGA
*
111246605 AAACAGTAAGCT-TTGACGAGCTGA
1 GAACAGTAAGCTCTT-ACGAGCTGA
* *
111246629 GAACAGTAAGCTCTTAGGAGCTAA
1 GAACAGTAAGCTCTTACGAGCTGA
*
111246653 TATATCAGTAAGCT-TATACGAGCTG
1 GA-A-CAGTAAGCTCT-TACGAGCTG
111246678 CAGTGAGTCC
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
24 38 0.64
25 5 0.08
26 16 0.27
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (24 bp):
GAACAGTAAGCTCTTACGAGCTGA
Found at i:111246650 original size:48 final size:50
Alignment explanation
Indices: 111246581--111246677 Score: 123
Period size: 48 Copynumber: 2.0 Consensus size: 50
111246571 CTGAGTTGAT
*
111246581 GAACAGTAAGCTCTATTGAGCTGAA-A-A-CAGTAAGCTT-TGACGAGCTGA
1 GAACAGTAAGCTCTATGGAGCT-AATATATCAGTAAGCTTAT-ACGAGCTGA
111246629 GAACAGTAAGCTCT-TAGGAGCTAATATATCAGTAAGCTTATACGAGCTG
1 GAACAGTAAGCTCTAT-GGAGCTAATATATCAGTAAGCTTATACGAGCTG
111246678 CAGTGAGTCC
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
47 3 0.07
48 20 0.47
49 1 0.02
50 18 0.42
51 1 0.02
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (50 bp):
GAACAGTAAGCTCTATGGAGCTAATATATCAGTAAGCTTATACGAGCTGA
Found at i:111267170 original size:24 final size:25
Alignment explanation
Indices: 111267116--111267172 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
111267106 GTTATGACCG
*
111267116 ATAAGCTCTTTCTGAGCTAATGAATA
1 ATAAGCTCTATCTGAGCTAA-GAATA
*
111267142 GTAAGCTCTATC-GAGCT-AGAAATA
1 ATAAGCTCTATCTGAGCTAAG-AATA
111267166 ATAAGCT
1 ATAAGCT
111267173 TTTACGAGCT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 1 0.04
24 11 0.41
25 5 0.19
26 10 0.37
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.30
Consensus pattern (25 bp):
ATAAGCTCTATCTGAGCTAAGAATA
Found at i:111267194 original size:24 final size:26
Alignment explanation
Indices: 111267167--111267223 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 26
111267157 CTAGAAATAA
* *
111267167 TAAGCTTTTACGAGCTGAGA-A-CAG
1 TAAGCTCTTACAAGCTGAGATATCAG
*
111267191 TAAGCTCTTACAAGCTGATATATCAG
1 TAAGCTCTTACAAGCTGAGATATCAG
111267217 TAAGCTC
1 TAAGCTC
111267224 ATGCGAGCTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 17 0.61
25 1 0.04
26 10 0.36
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.28
Consensus pattern (26 bp):
TAAGCTCTTACAAGCTGAGATATCAG
Found at i:111271247 original size:31 final size:31
Alignment explanation
Indices: 111271209--111271267 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
111271199 ATGGCAAGTA
*
111271209 AAAAGTGGTAGCTTCGGTTACCTGATCAATG
1 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
*
111271240 AAAAGTGGTAGCTTTGGCTACCTGATCA
1 AAAAGTGGTAGCTTCGGCTACCTGATCA
111271268 TCGGCTACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (31 bp):
AAAAGTGGTAGCTTCGGCTACCTGATCAATG
Found at i:111271317 original size:31 final size:31
Alignment explanation
Indices: 111271269--111271337 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
111271259 ACCTGATCAT
* * *
111271269 CGGCTACTTGATTAGTGAAAAATGGTAGCTC
1 CGGCTACCTGATCAGTGAAAAATGATAGCTC
* * *
111271300 CGGCTACCTGATCAGTGAATAGTGATAGCTT
1 CGGCTACCTGATCAGTGAAAAATGATAGCTC
111271331 CGGCTAC
1 CGGCTAC
111271338 AAGTGACAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (31 bp):
CGGCTACCTGATCAGTGAAAAATGATAGCTC
Found at i:111273286 original size:88 final size:87
Alignment explanation
Indices: 111273115--111273290 Score: 298
Period size: 88 Copynumber: 2.0 Consensus size: 87
111273105 CTAAACCAGA
*
111273115 TTTCCCCACAATGGGTTTCTAAGGTCATGGTCCTATCCCACCATGACATATGAAATGTATGTGTA
1 TTTCCCCACAATGGGTTTCTAAGGTCATAGTCCTATCCCACCATGACATATGAAATGTATGTGTA
* *
111273180 TTAAGATATGTTACCACATCTCC
66 TTAAGACACGTTACCACAT-TCC
111273203 TTTCCCCACAATGGGTTTCTAAGGTCATAGTCCTATCCCACCATGACATATGAAATGTATGTGTA
1 TTTCCCCACAATGGGTTTCTAAGGTCATAGTCCTATCCCACCATGACATATGAAATGTATGTGTA
* *
111273268 TTAAGACGCGTTATCACATTCC
66 TTAAGACACGTTACCACATTCC
111273290 T
1 T
111273291 GACCCCTCAA
Statistics
Matches: 83, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
87 4 0.05
88 79 0.95
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (87 bp):
TTTCCCCACAATGGGTTTCTAAGGTCATAGTCCTATCCCACCATGACATATGAAATGTATGTGTA
TTAAGACACGTTACCACATTCC
Found at i:111274040 original size:29 final size:30
Alignment explanation
Indices: 111273973--111274041 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
111273963 ATTTGATATT
* * *
111273973 ATTTAATTCTTTTTAATAATACAATGACTA
1 ATTTAATTCTATTTAATAATAAAAAGACTA
* * *
111274003 AATTGATTC-ATTTAATAGTAAAAAGACTA
1 ATTTAATTCTATTTAATAATAAAAAGACTA
111274032 ATTTAATTCT
1 ATTTAATTCT
111274042 TTTTTTATAA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
29 23 0.77
30 7 0.23
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.43
Consensus pattern (30 bp):
ATTTAATTCTATTTAATAATAAAAAGACTA
Found at i:111277296 original size:37 final size:37
Alignment explanation
Indices: 111277254--111277324 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
111277244 TTGTGCACAT
111277254 TGATCACGTTGGATTTGTTTACAAATATTTTTTTCAG
1 TGATCACGTTGGATTTGTTTACAAATATTTTTTTCAG
111277291 TGATCACGTTGGATTTGTTTACAAATATTTTTTT
1 TGATCACGTTGGATTTGTTTACAAATATTTTTTT
111277325 TTCTGATTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.24, C:0.10, G:0.15, T:0.51
Consensus pattern (37 bp):
TGATCACGTTGGATTTGTTTACAAATATTTTTTTCAG
Found at i:111280723 original size:46 final size:46
Alignment explanation
Indices: 111280654--111280745 Score: 148
Period size: 46 Copynumber: 2.0 Consensus size: 46
111280644 AAAGATTTAT
* *
111280654 GATACTACATTTTAACAAAATATTTATTGGATTGTCCATTCTAAAG
1 GATACTACATTTTAACAAAATATTTATTGAATTGTCCACTCTAAAG
* *
111280700 GATACTACATTTTAACAAGATATTTATTGAATTGTCTACTCTAAAG
1 GATACTACATTTTAACAAAATATTTATTGAATTGTCCACTCTAAAG
111280746 ATTAGGTGAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (46 bp):
GATACTACATTTTAACAAAATATTTATTGAATTGTCCACTCTAAAG
Found at i:111281232 original size:65 final size:64
Alignment explanation
Indices: 111281091--111281237 Score: 152
Period size: 65 Copynumber: 2.3 Consensus size: 64
111281081 AATCTAATCA
* * ****
111281091 TTATGATAAACTATATAAAATATAAAATCAATTAAGCTATAAAGTCAACACAATATGAATTTTTT
1 TTAT-ATAAATTATATAAAATACAAAATCAATTAAGCTATAAAGTCAACACAATATGAATAAAAT
* * * * **
111281156 TTAAAAAAAATTATATAAAATACAAAATGAATTAAGCTATACAGTCAACACAATAATGTGTAAAA
1 TT-ATATAAATTATATAAAATACAAAATCAATTAAGCTATAAAGTCAACACAAT-ATGAATAAAA
111281221 T
64 T
111281222 TTATATAAATT-TATAA
1 TTATATAAATTATATAA
111281238 TAATTAAAAA
Statistics
Matches: 66, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
64 5 0.08
65 53 0.80
66 8 0.12
ACGTcount: A:0.52, C:0.08, G:0.06, T:0.33
Consensus pattern (64 bp):
TTATATAAATTATATAAAATACAAAATCAATTAAGCTATAAAGTCAACACAATATGAATAAAAT
Found at i:111285339 original size:4 final size:4
Alignment explanation
Indices: 111285332--111285368 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
111285322 TAATTAAACC
111285332 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
111285369 TATGGTTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:111299219 original size:146 final size:147
Alignment explanation
Indices: 111299009--111299341 Score: 379
Period size: 146 Copynumber: 2.3 Consensus size: 147
111298999 TAAAATATTG
* * * * * *
111299009 AATGTGTAACTAATTTTATGGTAGATTATAAAATATA-TAGTTAATATTATATAATTAAGGTAGA
1 AATGTGTAACTAA-CTTATGGTAGATTATAATATATACAAGTAAACATTATATAATTAAGATAGA
* * * *
111299073 TTATTAATAATATGTATAT-CTATGTATAGCTATGCTATTATAATATACATTTTTATATTAATGA
65 TTATTAATAATATGTA-ATCCTATATAAAACTATGATATTATAATATACATTTTTATATTAATGA
* *
111299137 GATGTAAGC-TTAAACCCTA
129 GACGCAA-CATTAAACCCTA
*
111299156 AATGTATAACTAACTGTATGGTAGATTATAATATATACAAG-AAACA-TATATAATTAAGATAGA
1 AATGTGTAACTAACT-TATGGTAGATTATAATATATACAAGTAAACATTATATAATTAAGATAGA
* * * * * *
111299219 TTTTTAATAATATGTAATCCTATATAAAATTATGATATTTTAATGTATATTTTTATATTAATGAT
65 TTATTAATAATATGTAATCCTATATAAAACTATGATATTATAATATACATTTTTATATTAATGAG
*
111299284 ACGCAACATTAAACTCTA
130 ACGCAACATTAAACCCTA
* * *
111299302 AACGTGTAATTAACTTCATAGTAGATTATAATATATACAA
1 AATGTGTAACTAACTT-ATGGTAGATTATAATATATACAA
111299342 TTAGCATGGA
Statistics
Matches: 157, Mismatches: 24, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
145 4 0.03
146 116 0.74
147 35 0.22
148 2 0.01
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.40
Consensus pattern (147 bp):
AATGTGTAACTAACTTATGGTAGATTATAATATATACAAGTAAACATTATATAATTAAGATAGAT
TATTAATAATATGTAATCCTATATAAAACTATGATATTATAATATACATTTTTATATTAATGAGA
CGCAACATTAAACCCTA
Found at i:111303675 original size:17 final size:17
Alignment explanation
Indices: 111303655--111303707 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
111303645 TTCATAAACA
111303655 TATATCATTCATTTCAT-
1 TATATCATT-ATTTCATG
*
111303672 TATATCAATATTTCATG
1 TATATCATTATTTCATG
111303689 TACTATCA-T-TTTCATG
1 TA-TATCATTATTTCATG
111303705 TAT
1 TAT
111303708 TTCAGGTATA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
15 1 0.03
16 16 0.48
17 11 0.33
18 5 0.15
ACGTcount: A:0.30, C:0.15, G:0.04, T:0.51
Consensus pattern (17 bp):
TATATCATTATTTCATG
Found at i:111303966 original size:33 final size:33
Alignment explanation
Indices: 111303920--111304048 Score: 100
Period size: 33 Copynumber: 3.8 Consensus size: 33
111303910 GTTTTCTTTA
*
111303920 TGCCATAGTCCAACTATGGTCTTACACTTGTAT
1 TGCCATAGCCCAACTATGGTCTTACACTTGTAT
* * * * ** *
111303953 TGCCATGGCCCAACCATGGCCTTACTCACGTAG
1 TGCCATAGCCCAACTATGGTCTTACACTTGTAT
* *
111303986 TGCCATATCCCAGA-TATGGTCTTATCATCTT-CAT
1 TGCCATAGCCCA-ACTATGGTCTTA-CA-CTTGTAT
*
111304020 GATGCCATAGCCCAGCTATGGTCTTACAC
1 --TGCCATAGCCCAACTATGGTCTTACAC
111304049 ATGCACATAT
Statistics
Matches: 71, Mismatches: 19, Indels: 11
0.70 0.19 0.11
Matches are distributed among these distances:
33 43 0.61
34 4 0.06
35 3 0.04
36 21 0.30
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.30
Consensus pattern (33 bp):
TGCCATAGCCCAACTATGGTCTTACACTTGTAT
Found at i:111304106 original size:108 final size:105
Alignment explanation
Indices: 111303954--111304152 Score: 249
Period size: 108 Copynumber: 1.9 Consensus size: 105
111303944 CACTTGTATT
* **
111303954 GCCATGGCCCAACCATGGCCTTACTCACGTAGTGCCATATCCCAGATATGGTCTTATCATCTTCA
1 GCCATGGCCCAACCATGGCCTTACTCACGTAGTGCCATAACCCAGATATGGTCTTATCA-CTAAA
*
111304019 TGATGCCATAGCCCAGCTATGGTCTTACACATGCACATATACC
65 T--TGCCATAGCCCAACTATGGTCTTACACATGCACATATACC
* * ** * *
111304062 GCCATGGTCCAACCATGGTCTTACGTTCACG-A-TGTTATAACCCAGTTATGGTCTTTTCACTAA
1 GCCATGGCCCAACCATGGCCTTAC--TCACGTAGTGCCATAACCCAGATATGGTCTTATCACTAA
111304125 ATTGCCATAGCCCAACTATGGTCTTACA
64 ATTGCCATAGCCCAACTATGGTCTTACA
111304153 TTTACACACT
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
105 25 0.32
107 4 0.05
108 44 0.56
109 1 0.01
110 5 0.06
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (105 bp):
GCCATGGCCCAACCATGGCCTTACTCACGTAGTGCCATAACCCAGATATGGTCTTATCACTAAAT
TGCCATAGCCCAACTATGGTCTTACACATGCACATATACC
Found at i:111310799 original size:23 final size:23
Alignment explanation
Indices: 111310727--111310792 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 23
111310717 TATCAAATTT
* *
111310727 TCATAATCAATCTCAGTTTCT-TTC
1 TCAT-ATCAATTTCA-TTTCTACTC
111310751 TCATATCAATTTCATTTCTACTC
1 TCATATCAATTTCATTTCTACTC
* *
111310774 TCATTTCCATTCTCATTTC
1 TCATATCAATT-TCATTTC
111310793 AGTCTCAGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
22 5 0.14
23 20 0.56
24 11 0.31
ACGTcount: A:0.23, C:0.27, G:0.02, T:0.48
Consensus pattern (23 bp):
TCATATCAATTTCATTTCTACTC
Found at i:111312966 original size:8 final size:8
Alignment explanation
Indices: 111312924--111312948 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
111312914 ATATAGACTA
111312924 AATAAAAT
1 AATAAAAT
111312932 AATAAAAT
1 AATAAAAT
111312940 AATAAAAT
1 AATAAAAT
111312948 A
1 A
111312949 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:111313000 original size:41 final size:41
Alignment explanation
Indices: 111312922--111313003 Score: 98
Period size: 41 Copynumber: 2.0 Consensus size: 41
111312912 AAATATAGAC
*
111312922 TAAATAAAATAATAAAATAATAAAATATCTTATTAAAATAT
1 TAAATAAAATAATAAAATAATAAAATAACTTATTAAAATAT
*
111312963 TAAAT-AAATAATAATTATATAATTAAATAAC-TA-TAAAATAT
1 TAAATAAAATAATAA--A-ATAATAAAATAACTTATTAAAATAT
111313004 CACCAACATC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
40 9 0.25
41 13 0.36
42 3 0.08
43 11 0.31
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (41 bp):
TAAATAAAATAATAAAATAATAAAATAACTTATTAAAATAT
Found at i:111313258 original size:29 final size:30
Alignment explanation
Indices: 111313200--111313268 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
111313190 CCACCCTTAA
* * * *
111313200 AATATTTTCACTATTAGTCCTTCAACTTTT
1 AATATTTACACTATTAATCCCTCAAATTTT
*
111313230 CATATTTACACT-TTAATCCCTCAAATTTT
1 AATATTTACACTATTAATCCCTCAAATTTT
111313259 AAGTATTTAC
1 AA-TATTTAC
111313269 TCTTGGGCCA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.30, C:0.20, G:0.03, T:0.46
Consensus pattern (30 bp):
AATATTTACACTATTAATCCCTCAAATTTT
Found at i:111314007 original size:14 final size:15
Alignment explanation
Indices: 111313981--111314009 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
111313971 CACATTTCAT
111313981 TATTTTAAATATATA
1 TATTTTAAATATATA
111313996 TATTTT-AATATATA
1 TATTTTAAATATATA
111314010 ACATGTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TATTTTAAATATATA
Found at i:111316030 original size:7 final size:7
Alignment explanation
Indices: 111316020--111316069 Score: 91
Period size: 7 Copynumber: 7.1 Consensus size: 7
111316010 TAATATTTAC
111316020 TTAAGTA
1 TTAAGTA
111316027 TTAAGTA
1 TTAAGTA
111316034 TTAAGTA
1 TTAAGTA
*
111316041 TTAAATA
1 TTAAGTA
111316048 TTAAGTA
1 TTAAGTA
111316055 TTAAGTA
1 TTAAGTA
111316062 TTAAGTA
1 TTAAGTA
111316069 T
1 T
111316070 ATATTATTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 41 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (7 bp):
TTAAGTA
Found at i:111317071 original size:41 final size:40
Alignment explanation
Indices: 111317015--111317139 Score: 141
Period size: 40 Copynumber: 3.2 Consensus size: 40
111317005 GACTTTGAGT
*
111317015 CGATGAGACACTGGGTGTCAAATTATTACTTCGAATTAATT
1 CGATGAGACACTGGGTGTCAAATTATTACTTCGAATT-ATC
* * ** *
111317056 CGATGA-ATCACTGGGT-ACCAA-T-TTACTTCGGTTTAGC
1 CGATGAGA-CACTGGGTGTCAAATTATTACTTCGAATTATC
*
111317093 CGATGAGACACTGGGTGTCAAATTATTACTTCAAATTATC
1 CGATGAGACACTGGGTGTCAAATTATTACTTCGAATTATC
111317133 CGATGAG
1 CGATGAG
111317140 GTAATGGGTG
Statistics
Matches: 67, Mismatches: 12, Indels: 11
0.74 0.13 0.12
Matches are distributed among these distances:
37 15 0.22
38 14 0.21
39 2 0.03
40 22 0.33
41 14 0.21
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.32
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAAATTATTACTTCGAATTATC
Found at i:111317514 original size:17 final size:18
Alignment explanation
Indices: 111317484--111317518 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
111317474 AATGTGAATT
111317484 TTAATTATTCAATTGTGC
1 TTAATTATTCAATTGTGC
*
111317502 TTAA-TATTTAATTGTGC
1 TTAATTATTCAATTGTGC
111317519 CTATTATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.29, C:0.09, G:0.11, T:0.51
Consensus pattern (18 bp):
TTAATTATTCAATTGTGC
Found at i:111336764 original size:23 final size:22
Alignment explanation
Indices: 111336732--111336787 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
111336722 TAATTTTGGT
111336732 ATATGATGAAGT-TATCTT-ATAA
1 ATATGATGAA-TCTATCTTGA-AA
111336754 ATATGCATGAATCTATCTTGAAA
1 ATATG-ATGAATCTATCTTGAAA
*
111336777 ATATGTTGAAT
1 ATATGATGAAT
111336788 TGGATTGGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 11 0.37
23 18 0.60
24 1 0.03
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.39
Consensus pattern (22 bp):
ATATGATGAATCTATCTTGAAA
Found at i:111337762 original size:14 final size:14
Alignment explanation
Indices: 111337743--111337771 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
111337733 TACCAGATGA
111337743 GGTTGTTGTTTCTG
1 GGTTGTTGTTTCTG
111337757 GGTTGTTGTTTCTG
1 GGTTGTTGTTTCTG
111337771 G
1 G
111337772 TGAAATGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.07, G:0.38, T:0.55
Consensus pattern (14 bp):
GGTTGTTGTTTCTG
Found at i:111338161 original size:39 final size:40
Alignment explanation
Indices: 111338112--111338187 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
111338102 GCATTTATGA
* * * **
111338112 AAAAATGCCGCTATTGC-TTACCTTTTGTGGCGTTTATTC
1 AAAAACGCCGCTAATCCTTTACCTTTTACGGCGTTTATTC
111338151 AAAAACGCCGCTAATCCTTTACCTTTTACGGCGTTTA
1 AAAAACGCCGCTAATCCTTTACCTTTTACGGCGTTTA
111338188 AAAATGCCGC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
39 14 0.45
40 17 0.55
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (40 bp):
AAAAACGCCGCTAATCCTTTACCTTTTACGGCGTTTATTC
Found at i:111344171 original size:23 final size:24
Alignment explanation
Indices: 111344145--111344192 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
111344135 GAAAGTAAAA
111344145 AGAGAA-CGTGCCAAAAGGCAGAC
1 AGAGAACCGTGCCAAAAGGCAGAC
* *
111344168 AGAGAATCCGTGCGAACAGGCAGAC
1 AGAGAA-CCGTGCCAAAAGGCAGAC
111344193 TAATTTTAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 6 0.29
25 15 0.71
ACGTcount: A:0.40, C:0.23, G:0.31, T:0.06
Consensus pattern (24 bp):
AGAGAACCGTGCCAAAAGGCAGAC
Found at i:111346035 original size:25 final size:25
Alignment explanation
Indices: 111346007--111346085 Score: 72
Period size: 25 Copynumber: 3.1 Consensus size: 25
111345997 ATTCCCAATT
*
111346007 ATGGCTCGGATGAGCTTTCCGTTAC
1 ATGGCTCGAATGAGCTTTCCGTTAC
* *
111346032 ATGGCTC-ACATAAG-TTTCCAGTTAT
1 ATGGCTCGA-ATGAGCTTTCC-GTTAC
* *
111346057 ATGGCTCGAAAGAGCTTCCCGTTTAC
1 ATGGCTCGAATGAGCTTTCCG-TTAC
111346083 ATG
1 ATG
111346086 TTTGCATGAG
Statistics
Matches: 42, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
24 5 0.12
25 26 0.62
26 11 0.26
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.32
Consensus pattern (25 bp):
ATGGCTCGAATGAGCTTTCCGTTAC
Found at i:111348711 original size:12 final size:13
Alignment explanation
Indices: 111348683--111348708 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
111348673 CATGCAAATT
111348683 AGAAAGAAAAAAA
1 AGAAAGAAAAAAA
111348696 AGAAAGAAAAAAA
1 AGAAAGAAAAAAA
111348709 GAAGAAGAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AGAAAGAAAAAAA
Found at i:111352778 original size:26 final size:26
Alignment explanation
Indices: 111352748--111352800 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
111352738 TTTGCAGTTT
111352748 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
111352774 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
111352800 T
1 T
111352801 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:111359284 original size:32 final size:32
Alignment explanation
Indices: 111359248--111359312 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
111359238 TGTATGCATT
111359248 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
111359280 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
111359312 T
1 T
111359313 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:111360826 original size:26 final size:26
Alignment explanation
Indices: 111360797--111360849 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
111360787 TTTACAGTTT
111360797 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTA-GAGATAAATTGACCGAAA
* *
111360823 TACCCCTAGAGTTAAATTGACCTAAA
1 TACCCCTAGAGATAAATTGACCGAAA
111360849 T
1 T
111360850 GCATGTTCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 9 0.38
26 15 0.62
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGAGATAAATTGACCGAAA
Found at i:111361068 original size:21 final size:21
Alignment explanation
Indices: 111361042--111361089 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
111361032 ATTCCCCACA
111361042 TGGAGTGTA-TGGCTGGTAGGG
1 TGGAGTGTAGTGGCTGGT-GGG
*
111361063 TGGAGTGTAGTGGTTGGTGGG
1 TGGAGTGTAGTGGCTGGTGGG
*
111361084 TTGAGT
1 TGGAGT
111361090 AGTCTCCCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.12, C:0.02, G:0.52, T:0.33
Consensus pattern (21 bp):
TGGAGTGTAGTGGCTGGTGGG
Found at i:111362137 original size:48 final size:47
Alignment explanation
Indices: 111362085--111362414 Score: 209
Period size: 48 Copynumber: 6.9 Consensus size: 47
111362075 GCCACATTAT
*
111362085 GAGAGCCAGTGTAAGACCATGTCAGGGACATGGCATCGGCATTGAGA
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA
* * * * * * *
111362132 CGAGAGCTAATGTAAGA-CATGTTTGGGACAT-ACATCTGCCTCGAGA
1 -GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA
* * * * * ** *
111362178 TATAAGCCAGGGTGAGATCATGTCTGGGACATGGCATCGGCACGGATA
1 GA-GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA
* * * * ** *
111362226 GAGTTGTCAGTGTAAGACCATATCTGGGACATGGTATCGGCACGGATATGT
1 GAG-AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTG--A-GA
* * * * * * *
111362277 GAGACCCAATGTAAGACCATGCCTGGGACATGGCACCGGCCTTAATCGT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA--GA
* * * * *
111362326 GATAGTCATTGTGAGACCATGTCTGGGACATGGCATCGAC-TTGATGTA
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-G-A
* *
111362374 -TGAGCCACTGTAAGACCATGTCTGGGACATGGCATCGGCAT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
111362415 CCTACCCTAT
Statistics
Matches: 210, Mismatches: 62, Indels: 20
0.72 0.21 0.07
Matches are distributed among these distances:
45 1 0.00
46 20 0.10
47 59 0.28
48 63 0.30
49 34 0.16
50 30 0.14
51 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (47 bp):
GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA
Found at i:111362352 original size:49 final size:48
Alignment explanation
Indices: 111362087--111362412 Score: 172
Period size: 47 Copynumber: 6.8 Consensus size: 48
111362077 CACATTATGA
* * * *
111362087 GAGCCAGTGTAAGACCATGTCAGGGACATGGCATCGGCATTGAGACG-A-
1 GAGCCACTGTAAGACCATGTCTGGGACATGGCATCGGCCTT-A-ATGTAT
* * * * * **
111362135 GAGCTAATGTAAGA-CATGTTTGGGACAT-ACATCTGCCTCGA-GATAT
1 GAGCCACTGTAAGACCATGTCTGGGACATGGCATCGGCCTTAATG-TAT
* ** * * *
111362181 AAGCCAGGGTGAGATCATGTCTGGGACATGGCATCGGCACGGATAGA-GT-T
1 GAGCCACTGTAAGACCATGTCTGGGACATGGCATCGGC-C--TTA-ATGTAT
* * * * **
111362231 --GTCAGTGTAAGACCATATCTGGGACATGGTATCGGCACGGATATGTGA-
1 GAGCCACTGTAAGACCATGTCTGGGACATGGCATCGGC-CTTA-ATGT-AT
* * * *
111362279 GACCCAATGTAAGACCATGCCTGGGACATGGCACCGGCCTTAATCGTGAT
1 GAGCCACTGTAAGACCATGTCTGGGACATGGCATCGGCCTTAAT-GT-AT
* * * * *
111362329 -AGTCATTGTGAGACCATGTCTGGGACATGGCATC-GACTTGATGTAT
1 GAGCCACTGTAAGACCATGTCTGGGACATGGCATCGGCCTTAATGTAT
111362375 GAGCCACTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GAGCCACTGTAAGACCATGTCTGGGACATGGCATCGGC
111362413 ATCCTACCCT
Statistics
Matches: 210, Mismatches: 50, Indels: 36
0.71 0.17 0.12
Matches are distributed among these distances:
43 1 0.00
44 1 0.00
45 1 0.00
46 20 0.10
47 60 0.29
48 59 0.28
49 35 0.17
50 30 0.14
51 1 0.00
52 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.23
Consensus pattern (48 bp):
GAGCCACTGTAAGACCATGTCTGGGACATGGCATCGGCCTTAATGTAT
Found at i:111368719 original size:46 final size:47
Alignment explanation
Indices: 111368667--111368981 Score: 215
Period size: 46 Copynumber: 6.7 Consensus size: 47
111368657 TTTGTGTGCT
* * *
111368667 AGTGTAAGA-CATGTCTGGGACAT-GCATGGGCCACGTTATGAGAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGG-CACGTTAAGAGAGCC
*
111368713 AGTGTAAGACCATGTCTAGGACATGGCATCGGCA--TTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCACGTT-A-A-GAGAGCC
111368761 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGC-C-TTAAGATGTAAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCACGTTAAGA-G--AGCC
* * * * * *
111368807 AGTGTAAGACCATGTCTGGGACATGGCATGGGC-C-ATGAGATGTGTC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCACGTTAAGA-GAGCC
* * * * *
111368853 AGTATAAGACCATGTCT-GAGACATGGCATCGGC-C-ATGAGATGTGTC
1 AGTGTAAGACCATGTCTAG-GACATGGCATCGGCACGTTAAGA-GAGCC
* ** * **
111368899 AGTGTAAGACCATGTCTGGGACATGGCATCTACATGGATATGTGAGAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCA-CG-T-TAAGAGAGCC
* *
111368949 AGTGTAAAACCATGTCTAGGACATGGCGTCGGC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGC
111368982 CTTAATCGCG
Statistics
Matches: 225, Mismatches: 26, Indels: 32
0.80 0.09 0.11
Matches are distributed among these distances:
43 2 0.01
44 2 0.01
45 4 0.02
46 104 0.46
47 43 0.19
48 35 0.16
50 31 0.14
51 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCGGCACGTTAAGAGAGCC
Found at i:111368829 original size:94 final size:97
Alignment explanation
Indices: 111368664--111369032 Score: 322
Period size: 94 Copynumber: 3.9 Consensus size: 97
111368654 CCATTTGTGT
* * *
111368664 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATGGGCC--ACGTTATG-AGAGCCAGTGTAAGACC
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTTAAG--ATGTAGAGCCAGTGTAAGACC
* *
111368724 ATGTCTAGGACATGGCATCGGCATTGAGACGAGA
64 ATGTCTGGGACATGGCATCGGCATTGAGATGAGA
111368758 GCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTTAAGATGTA-AGCCAGTGTAAGACCAT
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTTAAGATGTAGAGCCAGTGTAAGACCAT
* *
111368820 GTCTGGGACATGGCATGGGCCA-TGAGATGTG-
66 GTCTGGGACATGGCATCGG-CATTGAGATGAGA
* * * * *
111368851 TC-AGTATAAGACCATGTCT-GAGACATGGCATCGGCCATGAGATGT---GTCAGTGTAAGACCA
1 GCTAGTGTAAGACCATGTCTAG-GACATGGCATCGGCCTTAAGATGTAGAGCCAGTGTAAGACCA
** * *
111368911 TGTCTGGGACATGGCATCTACATGGATATGTGAGA
65 TGTCTGGGACATGGCATCGGCATTGAGA--TGAGA
* * * * * * * * *
111368946 GCCAGTGTAAAACCATGTCTAGGACATGGCGTCGGCCTT-A-ATCGCGATAGTCATTGTGAGACA
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTTAAGAT-G-TAGAGCCAGTGTAAGACC
111369009 ATGTCTGGGACATGGCATCGGCAT
64 ATGTCTGGGACATGGCATCGGCAT
111369033 CCTACCCTAT
Statistics
Matches: 228, Mismatches: 29, Indels: 31
0.79 0.10 0.11
Matches are distributed among these distances:
91 2 0.01
92 43 0.19
93 13 0.06
94 98 0.43
95 6 0.03
96 32 0.14
97 1 0.00
99 33 0.14
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (97 bp):
GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTTAAGATGTAGAGCCAGTGTAAGACCAT
GTCTGGGACATGGCATCGGCATTGAGATGAGA
Found at i:111368928 original size:140 final size:143
Alignment explanation
Indices: 111368667--111368975 Score: 350
Period size: 140 Copynumber: 2.2 Consensus size: 143
111368657 TTTGTGTGCT
* *
111368667 AGTGTAAGA-CATGTCTGGGACAT-GCATGGGCCACGTTATGAGAGCCAGTGTAAGACCATGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATGGGCCAC-TGATGAGAGCCAGTATAAGACCATGTCT
* * *
111368730 AGGACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTT
65 AGGACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGACATG
111368795 AAGATGT-A-AGCC
130 AAGATGTGAGAGCC
* *
111368807 AGTGTAAGACCATGTCTGGGACATGGCATGGGCCA-TGA-GATGTGTCAGTATAAGACCATGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATGGGCCACTGATGA-GAGCCAGTATAAGACCATGTCT
* * * * *
111368870 -GAGACATGGCATCGGCCA-TGAGATGTG-TC-AGTGTAAGACCATGTCTGGGACATGGCATCTA
65 AG-GACATGGCATCGG-CATTGAGACGAGAGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGA
* *
111368931 CATGGATATGTGAGAGCC
126 CATGAAGATGTGAGAGCC
* *
111368949 AGTGTAAAACCATGTCTAGGACATGGC
1 AGTGTAAGACCATGTCTGGGACATGGC
111368976 GTCGGCCTTA
Statistics
Matches: 144, Mismatches: 16, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
138 9 0.06
139 17 0.12
140 62 0.43
141 17 0.12
142 39 0.27
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (143 bp):
AGTGTAAGACCATGTCTGGGACATGGCATGGGCCACTGATGAGAGCCAGTATAAGACCATGTCTA
GGACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGACATGA
AGATGTGAGAGCC
Found at i:111373610 original size:41 final size:40
Alignment explanation
Indices: 111373548--111374115 Score: 654
Period size: 41 Copynumber: 13.8 Consensus size: 40
111373538 AGTCGTGAAA
* *
111373548 TAGCGGCGTTTTCGGAAAAACGCCGCCAAAAGTCTGAGAAT
1 TAGCGGCGTTTT-TGAAAAACGCCGCCAAAAGTCTGAGCAT
* * *
111373589 TAGCGGCGTTTTTCAAGAAACGCTGCCAAAAGTCTGAGAAT
1 TAGCGGCGTTTTTGAA-AAACGCCGCCAAAAGTCTGAGCAT
* * * **
111373630 TCGCAGCATTTCTCCAAAAACGCCGCCAAAAGTCTGAGCAT
1 TAGCGGCGTTT-TTGAAAAACGCCGCCAAAAGTCTGAGCAT
*
111373671 TAGCGGCATTTTTAGAAAAACGCCGCCAAAAGTCTGAGCAT
1 TAGCGGCGTTTTT-GAAAAACGCCGCCAAAAGTCTGAGCAT
* * * *
111373712 TAGCGGCGTTGTTGGAAAAGCGCCACTAAAAGTCTGAGCAT
1 TAGCGGCGTT-TTTGAAAAACGCCGCCAAAAGTCTGAGCAT
* * *
111373753 TAGCGGCGTTGTTGGAAAAGCGCCGCTAAAAGTCTGAGCAT
1 TAGCGGCGTT-TTTGAAAAACGCCGCCAAAAGTCTGAGCAT
* *
111373794 TAGCGGCGTTGTTGGAAAAACGCCGCTAAAAGTCTGAGCAT
1 TAGCGGCGTT-TTTGAAAAACGCCGCCAAAAGTCTGAGCAT
* *
111373835 TAGCGGCGTTGTTGGAAAAACGCCGCCAAAA-TACTGAGAAT
1 TAGCGGCGTT-TTTGAAAAACGCCGCCAAAAGT-CTGAGCAT
* *
111373876 TAGCGGCGTTTGTCGGAAAACGCCGCCAAAA-TACTGAGCAT
1 TAGCGGCGTTT-TTGAAAAACGCCGCCAAAAGT-CTGAGCAT
* * *
111373917 TAGCGGCGTTTTTGGGAAAACGCCGCCAAAAGTCTGAGTAC
1 TAGCGGCGTTTTT-GAAAAACGCCGCCAAAAGTCTGAGCAT
* *
111373958 TAGCGGCGTTTTTGGGAAAACGCCGCCAAAAGTCTGAGTAT
1 TAGCGGCGTTTTT-GAAAAACGCCGCCAAAAGTCTGAGCAT
* *
111373999 TCGCGGCGTTTTTGGAAAAACGCCACCAAAAGTCTGAGCAT
1 TAGCGGCGTTTTT-GAAAAACGCCGCCAAAAGTCTGAGCAT
*
111374040 TAGCGACGTTTTTTGAAAAACGCCGCCAAAAGTCTGAGCAT
1 TAGCGGCG-TTTTTGAAAAACGCCGCCAAAAGTCTGAGCAT
* * * *
111374081 TAGCGGCAGTTTTGGAGAAACGCCGCTAAACGTCT
1 TAGCGGC-GTTTTTGAAAAACGCCGCCAAAAGTCT
111374116 TTTTGAATTA
Statistics
Matches: 476, Mismatches: 41, Indels: 20
0.89 0.08 0.04
Matches are distributed among these distances:
40 6 0.01
41 457 0.96
42 13 0.03
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (40 bp):
TAGCGGCGTTTTTGAAAAACGCCGCCAAAAGTCTGAGCAT
Found at i:111374221 original size:42 final size:41
Alignment explanation
Indices: 111374143--111374223 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 41
111374133 TTAGTTAAGT
* * *
111374143 TTTAAGGTTTAGTTCTTATGTTTTGGGTTTACGATTTAATA
1 TTTAAGGTTTAGGTCTTATGTTTAGGGTTTAAGATTTAATA
111374184 TTTAAGGTTTAGGGTC-TATGGTTTAGGGTTTAAGATTTAA
1 TTTAAGGTTTA-GGTCTTAT-GTTTAGGGTTTAAGATTTAA
111374224 AATGTTAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
41 14 0.40
42 21 0.60
ACGTcount: A:0.23, C:0.04, G:0.23, T:0.49
Consensus pattern (41 bp):
TTTAAGGTTTAGGTCTTATGTTTAGGGTTTAAGATTTAATA
Found at i:111374222 original size:14 final size:14
Alignment explanation
Indices: 111374184--111374222 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
111374174 CGATTTAATA
111374184 TTTAAGGTTTAGGG
1 TTTAAGGTTTAGGG
* *
111374198 TCTATGGTTTAGGG
1 TTTAAGGTTTAGGG
*
111374212 TTTAAGATTTA
1 TTTAAGGTTTA
111374223 AAATGTTAAT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.23, C:0.03, G:0.28, T:0.46
Consensus pattern (14 bp):
TTTAAGGTTTAGGG
Found at i:111374278 original size:7 final size:7
Alignment explanation
Indices: 111374268--111374293 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
111374258 TGGGTTTGAG
111374268 GTTTAGT
1 GTTTAGT
111374275 GTTTAGT
1 GTTTAGT
111374282 GTTTAGT
1 GTTTAGT
111374289 GTTTA
1 GTTTA
111374294 TGATCTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.27, T:0.58
Consensus pattern (7 bp):
GTTTAGT
Found at i:111374332 original size:8 final size:8
Alignment explanation
Indices: 111374319--111374384 Score: 54
Period size: 8 Copynumber: 8.9 Consensus size: 8
111374309 GCGGTATTAA
111374319 GGGTTTAT
1 GGGTTTAT
111374327 GGGTTTA-
1 GGGTTTAT
*
111374334 -GGTTTAA
1 GGGTTTAT
111374341 GGGTTTAT
1 GGGTTTAT
*
111374349 -GTTTTAT
1 GGGTTTAT
*
111374356 --GTTTTT
1 GGGTTTAT
111374362 GTGGTTTA-
1 G-GGTTTAT
111374370 GGGTTTAT
1 GGGTTTAT
111374378 GGGTTTA
1 GGGTTTA
111374385 AGGTTTAGTG
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
6 10 0.21
7 12 0.26
8 21 0.45
9 4 0.09
ACGTcount: A:0.14, C:0.00, G:0.33, T:0.53
Consensus pattern (8 bp):
GGGTTTAT
Found at i:111374342 original size:22 final size:22
Alignment explanation
Indices: 111374315--111374391 Score: 70
Period size: 22 Copynumber: 3.5 Consensus size: 22
111374305 TTTAGCGGTA
111374315 TTAAGGGTTTATGGGTTTAGGT
1 TTAAGGGTTTATGGGTTTAGGT
* *
111374337 TTAAGGGTTTAT-GTTTTATGT
1 TTAAGGGTTTATGGGTTTAGGT
**
111374358 TTTTGTGGTTTA-GGGTTTATGGGT
1 TTAAG-GGTTTATGGGTTTA--GGT
111374382 TTAA-GGTTTA
1 TTAAGGGTTTA
111374392 GTGGTTAGGG
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
21 10 0.23
22 29 0.67
24 4 0.09
ACGTcount: A:0.17, C:0.00, G:0.31, T:0.52
Consensus pattern (22 bp):
TTAAGGGTTTATGGGTTTAGGT
Found at i:111374397 original size:15 final size:14
Alignment explanation
Indices: 111374328--111374397 Score: 52
Period size: 15 Copynumber: 4.8 Consensus size: 14
111374318 AGGGTTTATG
111374328 GGTTTA-GGTTTAA
1 GGTTTATGGTTTAA
* *
111374341 GGGTTTATGTTTTAT
1 -GGTTTATGGTTTAA
* * *
111374356 GTTTTTGTGGTTTAG
1 G-GTTTATGGTTTAA
111374371 GGTTTATGGGTTTAA
1 GGTTTAT-GGTTTAA
111374386 GGTTTAGTGGTT
1 GGTTTA-TGGTT
111374398 AGGGGTTTAG
Statistics
Matches: 43, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
14 11 0.26
15 31 0.72
16 1 0.02
ACGTcount: A:0.14, C:0.00, G:0.33, T:0.53
Consensus pattern (14 bp):
GGTTTATGGTTTAA
Found at i:111374412 original size:22 final size:22
Alignment explanation
Indices: 111374364--111374406 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
111374354 ATGTTTTTGT
*
111374364 GGTTTAGGGTTTATGGGTTTAA
1 GGTTTAGGGTTTAGGGGTTTAA
111374386 GGTTTAGTGG-TTAGGGGTTTA
1 GGTTTAG-GGTTTAGGGGTTTA
111374407 GTGTTTGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.16, C:0.00, G:0.40, T:0.44
Consensus pattern (22 bp):
GGTTTAGGGTTTAGGGGTTTAA
Found at i:111375678 original size:22 final size:22
Alignment explanation
Indices: 111375653--111375707 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
111375643 TATCTAGAAT
111375653 TTAGGGTTTAAT-GTTTATAAGG
1 TTAGGGTTTAATGGTTTA-AAGG
* *
111375675 TTAGGTGTTT-ATGGTTTAGAGT
1 TTAGG-GTTTAATGGTTTAAAGG
111375697 TTAGGGTTTAA
1 TTAGGGTTTAA
111375708 GATTTAGGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
21 4 0.14
22 15 0.54
23 9 0.32
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (22 bp):
TTAGGGTTTAATGGTTTAAAGG
Found at i:111375713 original size:21 final size:20
Alignment explanation
Indices: 111375647--111375724 Score: 66
Period size: 21 Copynumber: 3.6 Consensus size: 20
111375637 ATTTAGTATC
*
111375647 TAGAATTTAGGGTTTAATGTT
1 TAGAGTTTAGGGTTTAA-GTT
* * *
111375668 TATAAGGTTAGGTGTTTATGGTT
1 TA-GAGTTTAGG-GTTTA-AGTT
111375691 TAGAGTTTAGGGTTTAAGATT
1 TAGAGTTTAGGGTTTAAG-TT
*
111375712 TAGGGTTTAGGGT
1 TAGAGTTTAGGGT
111375725 CTGATTTTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
20 1 0.02
21 21 0.47
22 13 0.29
23 10 0.22
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (20 bp):
TAGAGTTTAGGGTTTAAGTT
Found at i:111375722 original size:7 final size:7
Alignment explanation
Indices: 111375675--111375724 Score: 55
Period size: 7 Copynumber: 7.0 Consensus size: 7
111375665 GTTTATAAGG
111375675 TTAGGTGT
1 TTAGG-GT
*
111375683 TTATGGT
1 TTAGGGT
*
111375690 TTAGAGT
1 TTAGGGT
111375697 TTAGGGT
1 TTAGGGT
* *
111375704 TTAAGAT
1 TTAGGGT
111375711 TTAGGGT
1 TTAGGGT
111375718 TTAGGGT
1 TTAGGGT
111375725 CTGATTTTGT
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
7 30 0.88
8 4 0.12
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.46
Consensus pattern (7 bp):
TTAGGGT
Found at i:111379114 original size:9 final size:9
Alignment explanation
Indices: 111379073--111379209 Score: 112
Period size: 9 Copynumber: 14.6 Consensus size: 9
111379063 ATTGATCATT
*
111379073 ACTTAAATA
1 ACTTACATA
*
111379082 AGTTACATA
1 ACTTACATA
* *
111379091 ACTCACGTA
1 ACTTACATA
111379100 ACTTACATA
1 ACTTACATA
*
111379109 ATTTACATAACA
1 ACTTACAT---A
*
111379121 ACCTACATA
1 ACTTACATA
111379130 ACTTACATA
1 ACTTACATA
111379139 ACTTACATA
1 ACTTACATA
* *
111379148 ATTTATATA
1 ACTTACATA
*
111379157 ACTCACATA
1 ACTTACATA
* *
111379166 ACGTATATAACA
1 AC-T-TA-CATA
111379178 ACTTACATA
1 ACTTACATA
*
111379187 ACTCACATA
1 ACTTACATA
111379196 ACTTACATA
1 ACTTACATA
111379205 ACTTA
1 ACTTA
111379210 ATACATGTAG
Statistics
Matches: 99, Mismatches: 23, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
9 83 0.84
10 3 0.03
11 2 0.02
12 11 0.11
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:111379165 original size:48 final size:48
Alignment explanation
Indices: 111379078--111379207 Score: 145
Period size: 48 Copynumber: 2.7 Consensus size: 48
111379068 TCATTACTTA
* * * * *
111379078 AATAAGTTACATAACTCACGTAACTTACATAATTTACATAAC-AACCT
1 AATAACTTACATAACTCACATAACTTACATAACTCACATAACGAACAT
* * * * *
111379125 ACATAACTTACATAACTTACATAATTTATATAACTCACATAACGTATAT
1 A-ATAACTTACATAACTCACATAACTTACATAACTCACATAACGAACAT
*
111379174 AACAACTTACATAACTCACATAACTTACATAACT
1 AATAACTTACATAACTCACATAACTTACATAACT
111379208 TAATACATGT
Statistics
Matches: 67, Mismatches: 14, Indels: 3
0.80 0.17 0.04
Matches are distributed among these distances:
47 1 0.01
48 63 0.94
49 3 0.04
ACGTcount: A:0.45, C:0.22, G:0.02, T:0.31
Consensus pattern (48 bp):
AATAACTTACATAACTCACATAACTTACATAACTCACATAACGAACAT
Found at i:111379165 original size:57 final size:57
Alignment explanation
Indices: 111379098--111379205 Score: 162
Period size: 57 Copynumber: 1.9 Consensus size: 57
111379088 ATAACTCACG
* ** *
111379098 TAACTTACATAATTTACATAACAACCTACATAACTTACATAACTTACATAATTTATA
1 TAACTCACATAACGTACATAACAACCTACATAACTCACATAACTTACATAATTTATA
* *
111379155 TAACTCACATAACGTATATAACAACTTACATAACTCACATAACTTACATAA
1 TAACTCACATAACGTACATAACAACCTACATAACTCACATAACTTACATAA
111379206 CTTAATACAT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 45 1.00
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.31
Consensus pattern (57 bp):
TAACTCACATAACGTACATAACAACCTACATAACTCACATAACTTACATAATTTATA
Found at i:111379215 original size:30 final size:29
Alignment explanation
Indices: 111379098--111379206 Score: 114
Period size: 30 Copynumber: 3.8 Consensus size: 29
111379088 ATAACTCACG
* *
111379098 TAACTTACATAATTTACATAACAACCTACA
1 TAACTCACATAACTTACATAACAA-CTACA
* ** *
111379128 TAACTTACATAACTTACAT-A-ATTTATA
1 TAACTCACATAACTTACATAACAACTACA
* *
111379155 TAACTCACATAACGTATATAACAACTTACA
1 TAACTCACATAACTTACATAACAAC-TACA
111379185 TAACTCACATAACTTACATAAC
1 TAACTCACATAACTTACATAAC
111379207 TTAATACATG
Statistics
Matches: 64, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
27 19 0.30
28 2 0.03
29 2 0.03
30 41 0.64
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.31
Consensus pattern (29 bp):
TAACTCACATAACTTACATAACAACTACA
Found at i:111384680 original size:21 final size:21
Alignment explanation
Indices: 111384648--111384706 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
111384638 TCTAGCCGAT
*
111384648 GCAGCAGAGAGGGAGGCAGCG
1 GCAGCAGCGAGGGAGGCAGCG
*
111384669 GTAGCAGCGAGGGAGGCAGCG
1 GCAGCAGCGAGGGAGGCAGCG
* *
111384690 GCAGTAGCGAGAGAGGC
1 GCAGCAGCGAGGGAGGC
111384707 GGAGCAGAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.27, C:0.19, G:0.51, T:0.03
Consensus pattern (21 bp):
GCAGCAGCGAGGGAGGCAGCG
Found at i:111385095 original size:43 final size:44
Alignment explanation
Indices: 111385046--111385149 Score: 129
Period size: 44 Copynumber: 2.4 Consensus size: 44
111385036 TTTAGCGGTG
*
111385046 TTTGTGGGGAAAGCGCCACT-AAAGGACTCTACTTTTGGCGGCA
1 TTTGTGGAGAAAGCGCCACTAAAAGGACTCTACTTTTGGCGGCA
* * * *
111385089 TTTGTGGAGAAAGCGCCGCTAAAAGGTCTGTACTTTTGGCGGCG
1 TTTGTGGAGAAAGCGCCACTAAAAGGACTCTACTTTTGGCGGCA
* * *
111385133 TTTTTGGTGTAAGCGCC
1 TTTGTGGAGAAAGCGCC
111385150 GCTATAGGTC
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
43 18 0.35
44 34 0.65
ACGTcount: A:0.20, C:0.19, G:0.32, T:0.29
Consensus pattern (44 bp):
TTTGTGGAGAAAGCGCCACTAAAAGGACTCTACTTTTGGCGGCA
Found at i:111385174 original size:43 final size:42
Alignment explanation
Indices: 111385036--111385432 Score: 294
Period size: 43 Copynumber: 9.2 Consensus size: 42
111385026 AATCTGTAAA
* * * *
111385036 TTTAGCGGTGTTTGTGGGGAAAGCGCCACTAAAGGACTCTACT
1 TTTAGCGGCGTTTGT-GGGAAAGCGCCGCTAAAGGTCTGTACT
* *
111385079 TTTGGCGGCATTTGTGGAGAAAGCGCCGCTAAAAGGTCTGTACT
1 TTTAGCGGCGTTTGTGG-GAAAGCGCCGCT-AAAGGTCTGTACT
* * * * **
111385123 TTTGGCGGCGTTTTTGGTGTAAGCGCCGCTATAGGTCTGTAAA
1 TTTAGCGGCGTTTGTGG-GAAAGCGCCGCTAAAGGTCTGTACT
* * *
111385166 TTTAGCGGCTTTTTTGGGCAAAAGCTCCGCTAAAGGTCTGTACT
1 TTTAGCGGCGTTTGTGGG--AAAGCGCCGCTAAAGGTCTGTACT
*** * *
111385210 TTTAGCGGCGCTTTG-CAAACAAACGCCGCTAAAGGTCTGCACT
1 TTTAGCGGCG-TTTGTGGGA-AAGCGCCGCTAAAGGTCTGTACT
* *** * ** *
111385253 TTTAGCAGTGCTTTTCCCGGAAA-CTCCGCTAAAGGTCTACACC
1 TTTAGC-G-GCGTTTGTGGGAAAGCGCCGCTAAAGGTCTGTACT
* * * *
111385296 TTTAGTGGCGTTTGTGGGTAAAACGCCGCTAAAGGTATGTGCT
1 TTTAGCGGCGTTTGTGGG-AAAGCGCCGCTAAAGGTCTGTACT
* ** * *
111385339 TTTAGCGGCGTTTGTTTGCTAAGCGCCGCTAAAGGTTTATACT
1 TTTAGCGGCGTTTG-TGGGAAAGCGCCGCTAAAGGTCTGTACT
* * * * *
111385382 ATTAGCGGCGTTTATGGTAAAGCGCCGCTAAAGGTATCTACT
1 TTTAGCGGCGTTTGTGGGAAAGCGCCGCTAAAGGTCTGTACT
111385424 TTTAGCGGC
1 TTTAGCGGC
111385433 TTTTTTTCAC
Statistics
Matches: 280, Mismatches: 62, Indels: 25
0.76 0.17 0.07
Matches are distributed among these distances:
41 7 0.03
42 39 0.14
43 154 0.55
44 73 0.26
45 7 0.03
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (42 bp):
TTTAGCGGCGTTTGTGGGAAAGCGCCGCTAAAGGTCTGTACT
Found at i:111388363 original size:34 final size:33
Alignment explanation
Indices: 111388280--111388364 Score: 82
Period size: 34 Copynumber: 2.5 Consensus size: 33
111388270 AATGCATAAA
* *
111388280 AAGCATTATTTTTGCTACTGAGTTGATCTGTCAC
1 AAGCA-TATTTTTGCTACTGAATCGATCTGTCAC
* * *
111388314 AAGCATATTAATTGCTACTGAATCGAAT-TGTTAT
1 AAGCATATT-TTTGCTACTGAATCG-ATCTGTCAC
111388348 AAGCATATTGTTTGCTA
1 AAGCATATT-TTTGCTA
111388365 TCGTATTATT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
33 4 0.10
34 36 0.86
35 2 0.05
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.40
Consensus pattern (33 bp):
AAGCATATTTTTGCTACTGAATCGATCTGTCAC
Found at i:111396303 original size:33 final size:33
Alignment explanation
Indices: 111396266--111396332 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
111396256 GTCCACCTAG
111396266 TTTGATCCCTTTTATCTCATAATCACCGATGTA
1 TTTGATCCCTTTTATCTCATAATCACCGATGTA
*
111396299 TTTGATCCTTTTTATCTCATAATCACCGATGTA
1 TTTGATCCCTTTTATCTCATAATCACCGATGTA
111396332 T
1 T
111396333 CTTTTGTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.24, C:0.22, G:0.09, T:0.45
Consensus pattern (33 bp):
TTTGATCCCTTTTATCTCATAATCACCGATGTA
Found at i:111398461 original size:10 final size:10
Alignment explanation
Indices: 111398440--111398476 Score: 67
Period size: 10 Copynumber: 3.8 Consensus size: 10
111398430 TTTTAAGAAA
111398440 ATTTTTAA-T
1 ATTTTTAATT
111398449 ATTTTTAATT
1 ATTTTTAATT
111398459 ATTTTTAATT
1 ATTTTTAATT
111398469 ATTTTTAA
1 ATTTTTAA
111398477 AATACATGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 8 0.30
10 19 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
ATTTTTAATT
Found at i:111399725 original size:21 final size:22
Alignment explanation
Indices: 111399701--111399750 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
111399691 ATTTGCTTAT
*
111399701 TTGAATTGATTATTT-TGTTGA
1 TTGAATCGATTATTTATGTTGA
* * *
111399722 TTGACTCGATTCTTTATGTTGT
1 TTGAATCGATTATTTATGTTGA
111399744 TTGAATC
1 TTGAATC
111399751 AATTCTTTGT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.20, C:0.08, G:0.18, T:0.54
Consensus pattern (22 bp):
TTGAATCGATTATTTATGTTGA
Found at i:111399747 original size:22 final size:21
Alignment explanation
Indices: 111399708--111399773 Score: 71
Period size: 22 Copynumber: 3.1 Consensus size: 21
111399698 TATTTGAATT
* *
111399708 GATTATTTTGTTGATTGACTC
1 GATTCTTTTGTTGTTTGACTC
*
111399729 GATTCTTTATGTTGTTTGAATC
1 GATTCTTT-TGTTGTTTGACTC
* *
111399751 AATTC-TTTGTTGTTTAACTC
1 GATTCTTTTGTTGTTTGACTC
111399771 GAT
1 GAT
111399774 CCAAATGCCA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
20 13 0.35
21 9 0.24
22 15 0.41
ACGTcount: A:0.20, C:0.11, G:0.17, T:0.53
Consensus pattern (21 bp):
GATTCTTTTGTTGTTTGACTC
Found at i:111402298 original size:16 final size:18
Alignment explanation
Indices: 111402277--111402317 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
111402267 CTAATTTAAT
*
111402277 ATAAAATCA-AAAT-AAA
1 ATAAAATAATAAATAAAA
111402293 ATAAAA-AATAAATAAAA
1 ATAAAATAATAAATAAAA
111402310 ATAAAATA
1 ATAAAATA
111402318 GAAATTTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 1 0.05
16 10 0.48
17 9 0.43
18 1 0.05
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (18 bp):
ATAAAATAATAAATAAAA
Found at i:111408270 original size:6 final size:6
Alignment explanation
Indices: 111408259--111408288 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
111408249 TCCCGACTAT
*
111408259 TGTTAC TGTTAC TGTTAC CGTTAC TGTTAC
1 TGTTAC TGTTAC TGTTAC TGTTAC TGTTAC
111408289 CAATTCGGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.47
Consensus pattern (6 bp):
TGTTAC
Found at i:111408391 original size:53 final size:53
Alignment explanation
Indices: 111408334--111408436 Score: 143
Period size: 53 Copynumber: 1.9 Consensus size: 53
111408324 TATTGTTTCG
* * *
111408334 GATTTGTTCCGATGAGGCACTCTGTGTACCTTACTGTTACTGTTACTGTTCTA
1 GATTTATTCCGATGAAGCACTCTGTGTACCGTACTGTTACTGTTACTGTTCTA
* * * *
111408387 GATTTATTCTGATGAAGTACTCTGTGTATCGTACTGTTACTGTTATTGTT
1 GATTTATTCCGATGAAGCACTCTGTGTACCGTACTGTTACTGTTACTGTT
111408437 ACTGCTACTG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.18, C:0.17, G:0.20, T:0.45
Consensus pattern (53 bp):
GATTTATTCCGATGAAGCACTCTGTGTACCGTACTGTTACTGTTACTGTTCTA
Done.