Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 336 of 343
Found at i:107620491 original size:21 final size:21
Alignment explanation
Indices: 107620448--107620502 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
107620438 TTCGAATCTA
*
107620448 AATTTAAATATTTAATTTAATT
1 AATTTAAAT-TTAAATTTAATT
107620470 AATTTAAATTTAAATTGT-ATT
1 AATTTAAATTTAAATT-TAATT
*
107620491 AA-TTCAATTTAA
1 AATTTAAATTTAA
107620503 TCATAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 9 0.30
21 11 0.37
22 10 0.33
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
AATTTAAATTTAAATTTAATT
Found at i:107627256 original size:18 final size:18
Alignment explanation
Indices: 107627233--107627325 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
107627223 CCCAACTACT
* *
107627233 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTGCC
107627251 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTGCC
*
107627269 GTATACGTAAATAGTGCC
1 GTATACGTGAATAGTGCC
*
107627287 ATATACGTGAATAGTGCC
1 GTATACGTGAATAGTGCC
* *
107627305 GTATACGTAAATAGTACC
1 GTATACGTGAATAGTGCC
107627323 GTA
1 GTA
107627326 AACGGTTGTA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 67 1.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (18 bp):
GTATACGTGAATAGTGCC
Found at i:107633000 original size:31 final size:31
Alignment explanation
Indices: 107632959--107633026 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
107632949 GATACCCAAT
* * *
107632959 CCAAAATGAACATTGAAGCCAAACTCAAATA
1 CCAAATTGAACATTAAAACCAAACTCAAATA
*
107632990 CCAAATTGAACATTAAAACCAAACTCATATA
1 CCAAATTGAACATTAAAACCAAACTCAAATA
107633021 CCAAAT
1 CCAAAT
107633027 AGTATATTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.51, C:0.24, G:0.06, T:0.19
Consensus pattern (31 bp):
CCAAATTGAACATTAAAACCAAACTCAAATA
Found at i:107640145 original size:26 final size:26
Alignment explanation
Indices: 107640124--107640251 Score: 229
Period size: 26 Copynumber: 4.9 Consensus size: 26
107640114 ATTGATAAAA
* *
107640124 GGTTAGGTAAATGTTCCATGATAATA
1 GGTTAGGTAAATGTTTCATGATAATG
*
107640150 GGTTAGGTAAATGTTCCATGATAATG
1 GGTTAGGTAAATGTTTCATGATAATG
107640176 GGTTAGGTAAATGTTTCATGATAATG
1 GGTTAGGTAAATGTTTCATGATAATG
107640202 GGTTAGGTAAATGTTTCATGATAATG
1 GGTTAGGTAAATGTTTCATGATAATG
107640228 GGTTAGGTAAATGTTTCATGATAA
1 GGTTAGGTAAATGTTTCATGATAA
107640252 GAATTTCATG
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 100 1.00
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.37
Consensus pattern (26 bp):
GGTTAGGTAAATGTTTCATGATAATG
Found at i:107641972 original size:27 final size:27
Alignment explanation
Indices: 107641870--107641975 Score: 126
Period size: 27 Copynumber: 3.9 Consensus size: 27
107641860 GAGGAAGCGT
* * *
107641870 TCTGGTGGCTATTCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCAC-ATTATCTGTA
107641897 TCTGGTGGCTCTGCCACATATATCTGT-
1 TCTGGTGGCTCTGCCACAT-TATCTGTA
107641924 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCAC-ATTATCTGTA
* *
107641952 TCTGGTGACTCTGTCACATTATCT
1 TCTGGTGGCTCTGCCACATTATCT
107641976 ATTCTAGCAG
Statistics
Matches: 70, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
26 1 0.01
27 52 0.74
28 17 0.24
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.37
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACATTATCTGTA
Found at i:107641975 original size:54 final size:54
Alignment explanation
Indices: 107641868--107641980 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 54
107641858 TGGAGGAAGC
* *
107641868 GTTCTGGTGGCTATTCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
107641922 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
*
107641976 ATTCT
1 GTTCT
107641981 AGCAGCCATG
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:107645995 original size:26 final size:26
Alignment explanation
Indices: 107645959--107646068 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
107645949 TGATACAAAT
*
107645959 TGATAAAAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
107645985 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
107646011 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
107646037 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
107646063 TGATAA
1 TGATAA
107646069 GAATTTCATG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:107650950 original size:64 final size:64
Alignment explanation
Indices: 107650824--107650951 Score: 159
Period size: 64 Copynumber: 2.0 Consensus size: 64
107650814 GAGCATCCCT
* * ** * * *
107650824 ATCAGTATTGATCCTACATGTGTTGTGGACATACCGCAACTCTTTGTGAGCATCCTATTATATG
1 ATCAGTATTGATCCTACATATATTGCAGACATACCGCAACTCTTTATAAGCATCATATTATATG
* *
107650888 ATCAGTATTGATCCTGCATATATTGCAGACATACCGCAACTCTTTATAAGCGTCATGA-TATATG
1 ATCAGTATTGATCCTACATATATTGCAGACATACCGCAACTCTTTATAAGCATCAT-ATTATATG
107650952 GCTCTTCATG
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
64 53 0.98
65 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.34
Consensus pattern (64 bp):
ATCAGTATTGATCCTACATATATTGCAGACATACCGCAACTCTTTATAAGCATCATATTATATG
Found at i:107652812 original size:22 final size:22
Alignment explanation
Indices: 107652787--107652829 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
107652777 TTATACATAC
*
107652787 TATTATATTTCATTA-TTATTAT
1 TATTATACTT-ATTATTTATTAT
107652809 TATTATACTTATTATTTATTA
1 TATTATACTTATTATTTATTA
107652830 GCCTTAGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (22 bp):
TATTATACTTATTATTTATTAT
Found at i:107653177 original size:28 final size:28
Alignment explanation
Indices: 107653088--107653217 Score: 74
Period size: 29 Copynumber: 4.5 Consensus size: 28
107653078 TAGTAATTTT
**
107653088 TTATTATT-TTAATTTAATATTTAATATA
1 TTATTATTATT-ATTTGTTATTTAATATA
* * *
107653116 TT-TTCTTTTCATATTTG-TATATTATTATCA
1 TTATTATTAT--TATTTGTTAT-TTAATAT-A
107653146 TTATTATTATTATTTGTTATTTAATATA
1 TTATTATTATTATTTGTTATTTAATATA
*
107653174 TTATAATTATTGTATTT-TTA-TTACCATCATA
1 TTATTATTA-T-TATTTGTTATTTA--AT-ATA
107653205 TTATTA-TATTATT
1 TTATTATTATTATT
107653218 ACACCTTTTA
Statistics
Matches: 82, Mismatches: 8, Indels: 24
0.72 0.07 0.21
Matches are distributed among these distances:
27 4 0.05
28 22 0.27
29 27 0.33
30 16 0.20
31 13 0.16
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (28 bp):
TTATTATTATTATTTGTTATTTAATATA
Found at i:107653264 original size:23 final size:23
Alignment explanation
Indices: 107653223--107653271 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
107653213 TTATTACACC
*
107653223 TTTTACTATTATTACTATTGTAT
1 TTTTACTATTATTACTATTATAT
**
107653246 TTTTACTATTATTGTTATTATAT
1 TTTTACTATTATTACTATTATAT
107653269 TTT
1 TTT
107653272 CCTCTTTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.24, C:0.06, G:0.04, T:0.65
Consensus pattern (23 bp):
TTTTACTATTATTACTATTATAT
Found at i:107653494 original size:22 final size:22
Alignment explanation
Indices: 107653469--107653514 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
107653459 TTACTATTTG
*
107653469 TATTTACCGTTATTATTACTAT
1 TATTTACAGTTATTATTACTAT
* * *
107653491 TATTTTCATTTTTTATTACTAT
1 TATTTACAGTTATTATTACTAT
107653513 TA
1 TA
107653515 CTAATATCAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.26, C:0.11, G:0.02, T:0.61
Consensus pattern (22 bp):
TATTTACAGTTATTATTACTAT
Found at i:107653559 original size:51 final size:51
Alignment explanation
Indices: 107653504--107653610 Score: 119
Period size: 51 Copynumber: 2.1 Consensus size: 51
107653494 TTTCATTTTT
* * * * *
107653504 TATTACTATTACTAATATCATTCCT-TTATTATT-TTCTATTATTATCATCAC
1 TATTACTAATACAAATATCAATACTCTTATTATTATT-T-TTATTATCATCAA
* *
107653555 TATTATTAATACAAATATTAATACTCTTATTATTATTTTTATTATCATCAA
1 TATTACTAATACAAATATCAATACTCTTATTATTATTTTTATTATCATCAA
107653606 TATTA
1 TATTA
107653611 TAGTTTTACC
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
51 36 0.77
52 9 0.19
53 2 0.04
ACGTcount: A:0.35, C:0.13, G:0.00, T:0.52
Consensus pattern (51 bp):
TATTACTAATACAAATATCAATACTCTTATTATTATTTTTATTATCATCAA
Found at i:107653650 original size:3 final size:3
Alignment explanation
Indices: 107653642--107653670 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
107653632 CATTATCAAC
107653642 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
107653671 CGTTTTCATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:107653842 original size:12 final size:12
Alignment explanation
Indices: 107653827--107653856 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
107653817 TTGTTACTAA
*
107653827 TATTGTCACACT
1 TATTATCACACT
107653839 TATTATCACACT
1 TATTATCACACT
107653851 TATTAT
1 TATTAT
107653857 TATACATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.20, G:0.03, T:0.47
Consensus pattern (12 bp):
TATTATCACACT
Found at i:107653868 original size:13 final size:15
Alignment explanation
Indices: 107653838--107653871 Score: 54
Period size: 13 Copynumber: 2.4 Consensus size: 15
107653828 ATTGTCACAC
107653838 TTATTATCACACTTA
1 TTATTATCACACTTA
107653853 TTATTAT-ACA-TTA
1 TTATTATCACACTTA
107653866 TTATTA
1 TTATTA
107653872 ATACCATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.47
14 3 0.16
15 7 0.37
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (15 bp):
TTATTATCACACTTA
Found at i:107666230 original size:58 final size:59
Alignment explanation
Indices: 107666154--107666372 Score: 172
Period size: 58 Copynumber: 3.7 Consensus size: 59
107666144 TATATCTTTA
*
107666154 ATATAT-ATATGTATATATTTATGTA-ATATTATTAATAGTTTTTTTAATATTATTATT
1 ATATATAATATGTATATATTTATGTACATATTATTAATAGTTTTTGTAATATTATTATT
* * * * * *
107666211 ATTTCTAATATGTATATA-TTATGTATATATTTTTACAT-GTATTATGTACATATT-TTCAGTA
1 ATATATAATATGTATATATTTATGTACATATTATTA-ATAGT-TTTTGTA-ATATTATT-A-TT
* *
107666272 ACTATATCATATGTATATATTTTATGTACATACTT-TTAATA-TTATTATGT-AT-TTATTTTT
1 A-TATATAATATGTATATA-TTTATGTACATA-TTATTAATAGTT-TT-TGTAATATTATTATT
*
107666332 A-ATATATATATGTATGTATTTATGTA-ATATTATTAATAGTT
1 ATATATA-ATATGTATATATTTATGTACATATTATTAATAGTT
107666373 GTTTTTTTAA
Statistics
Matches: 129, Mismatches: 15, Indels: 35
0.72 0.08 0.20
Matches are distributed among these distances:
56 2 0.02
57 20 0.16
58 35 0.27
59 19 0.15
60 8 0.06
61 4 0.03
62 19 0.15
63 4 0.03
64 16 0.12
65 2 0.02
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.55
Consensus pattern (59 bp):
ATATATAATATGTATATATTTATGTACATATTATTAATAGTTTTTGTAATATTATTATT
Found at i:107666346 original size:23 final size:23
Alignment explanation
Indices: 107666288--107666391 Score: 88
Period size: 23 Copynumber: 4.4 Consensus size: 23
107666278 TCATATGTAT
** *
107666288 ATATT-TTATGTACATACTTTTA
1 ATATTATTATGTATGTATTTTTA
*
107666310 ATATTATTATGTATTTATTTTTA
1 ATATTATTATGTATGTATTTTTA
107666333 ATA-TATATATGTATGTATTTATGTA
1 ATATTAT-TATGTATGTATTT-T-TA
*
107666358 ATATTATTAATAGT-TGTTTTTTTA
1 ATATTATT-AT-GTATGTATTTTTA
*
107666382 ACATTATTAT
1 ATATTATTAT
107666392 CATTTCTAAT
Statistics
Matches: 69, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
22 8 0.12
23 31 0.45
24 10 0.14
25 7 0.10
26 11 0.16
27 2 0.03
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.58
Consensus pattern (23 bp):
ATATTATTATGTATGTATTTTTA
Found at i:107666441 original size:23 final size:22
Alignment explanation
Indices: 107666415--107666476 Score: 56
Period size: 23 Copynumber: 2.8 Consensus size: 22
107666405 TATGTGTATC
107666415 GTATATGTTTTTATATAAATTA
1 GTATATGTTTTTATATAAATTA
* * *
107666437 TGTATATATCTTTAGTAT-TATTA
1 -GTATATGTTTTTA-TATAAATTA
107666460 GTTATATGTTTTT-TATA
1 G-TATATGTTTTTATATA
107666477 CTATTTCATG
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
21 3 0.10
22 1 0.03
23 24 0.77
24 3 0.10
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.58
Consensus pattern (22 bp):
GTATATGTTTTTATATAAATTA
Found at i:107666568 original size:23 final size:22
Alignment explanation
Indices: 107666534--107666591 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 22
107666524 TAGCATGTGT
107666534 TTTAATATTATATGTATATATC
1 TTTAATATTATATGTATATATC
*
107666556 TTTAATATATATATGTATATATT
1 TTTAATAT-TATATGTATATATC
107666579 TATGTAATATTAT
1 T-T-TAATATTAT
107666592 TAATAGTTGT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 8 0.25
23 14 0.44
24 4 0.12
25 6 0.19
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (22 bp):
TTTAATATTATATGTATATATC
Found at i:107666574 original size:21 final size:21
Alignment explanation
Indices: 107666534--107666580 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
107666524 TAGCATGTGT
*
107666534 TTTAATATTATATGTATATATC
1 TTTAATATTATATG-ATATATA
107666556 TTTAATATATATATG-TATATA
1 TTTAATAT-TATATGATATATA
107666577 TTTA
1 TTTA
107666581 TGTAATATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 9 0.39
22 8 0.35
23 6 0.26
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.55
Consensus pattern (21 bp):
TTTAATATTATATGATATATA
Found at i:107666588 original size:21 final size:23
Alignment explanation
Indices: 107666534--107666577 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
107666524 TAGCATGTGT
107666534 TTTAATAT-TATATGTATATATC
1 TTTAATATATATATGTATATATC
107666556 TTTAATATATATATGTATATAT
1 TTTAATATATATATGTATATAT
107666578 TTATGTAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (23 bp):
TTTAATATATATATGTATATATC
Found at i:107666629 original size:107 final size:112
Alignment explanation
Indices: 107666305--107666630 Score: 314
Period size: 107 Copynumber: 2.9 Consensus size: 112
107666295 ATGTACATAC
* * *
107666305 TTTTAATATTATTATGTATTTATTTTTAATATATATATGTATGTATTTATGTAATATTATTAATA
1 TTTTAATATTATTATGTATATATCTTTAATATATATATGTATATATTTATGTAATATTATTAATA
*
107666370 GTTGTTTTTTTAACATTATTATCATTTCTAATATATATGTGTATCGTATATG
66 GTTGTTTTTTTAACATTATTATTATTTCTAATATATA--TG--TCG-ATATG
* * * * *
107666422 TTTTTATATAAATTATGTATATATCTTTAGTAT-TAT-TAGT-TATATGTTTTTTATACTATTTC
1 TTTTAATAT-TATTATGTATATATCTTTAATATATATAT-GTATATAT-TTATGTA-A-TA-TT-
* * * * *
107666484 ATGTAATA-TT-TTATATTATCCTTATTATTATTAT-TAATAT-TA-G-C-ATGTG
59 AT-TAATAGTTGTTTTTTTAACATTATTATTATT-TCTAATATATATGTCGATATG
107666533 TTTTAATATTA-TATGTATATATCTTTAATATATATATGTATATATTTATGTAATATTATTAATA
1 TTTTAATATTATTATGTATATATCTTTAATATATATATGTATATATTTATGTAATATTATTAATA
*
107666597 GTTGTTTTTTTAACATTATCATTATTTCTAATAT
66 GTTGTTTTTTTAACATTATTATTATTTCTAATAT
107666631 GTATATACTA
Statistics
Matches: 170, Mismatches: 24, Indels: 40
0.73 0.10 0.17
Matches are distributed among these distances:
105 5 0.03
106 5 0.03
107 25 0.15
108 2 0.01
109 20 0.12
110 11 0.06
111 18 0.11
113 1 0.01
116 6 0.04
117 18 0.11
118 20 0.12
119 4 0.02
120 25 0.15
121 5 0.03
122 5 0.03
ACGTcount: A:0.32, C:0.04, G:0.07, T:0.56
Consensus pattern (112 bp):
TTTTAATATTATTATGTATATATCTTTAATATATATATGTATATATTTATGTAATATTATTAATA
GTTGTTTTTTTAACATTATTATTATTTCTAATATATATGTCGATATG
Found at i:107666716 original size:39 final size:38
Alignment explanation
Indices: 107666673--107666761 Score: 108
Period size: 37 Copynumber: 2.3 Consensus size: 38
107666663 ATGTATACAT
*
107666673 TTTTTATATATTACATATATATATATATTTAATACTGTA
1 TTTTTATATATT-CATATATATATATATTTAATACTATA
** * *
107666712 TTTTTATAT-TTGTTATGTATATATCTTTAATACTATA
1 TTTTTATATATTCATATATATATATATTTAATACTATA
107666749 TTATTTATATATT
1 TT-TTTATATATT
107666762 TTTTATTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
37 23 0.53
38 9 0.21
39 11 0.26
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.58
Consensus pattern (38 bp):
TTTTTATATATTCATATATATATATATTTAATACTATA
Found at i:107666808 original size:59 final size:55
Alignment explanation
Indices: 107666710--107666818 Score: 146
Period size: 59 Copynumber: 1.9 Consensus size: 55
107666700 TTTAATACTG
* * *
107666710 TATTTTTATATTTGTTATGTATATATCTTTAATACTATATTATTTATATATTTTT
1 TATTTTTATATTTCTTACGTATATATCTTTAATACTATATTATGTATATATTTTT
*
107666765 TATTTTTCATATTATCTTACGTATATATTTTTTAATAACTATATTATGTATATA
1 TATTTTT-ATATT-TCTTACGTATATA-TCTTTAAT-ACTATATTATGTATATA
107666819 CTAGTACTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
55 7 0.15
56 5 0.11
57 11 0.24
58 7 0.15
59 16 0.35
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.60
Consensus pattern (55 bp):
TATTTTTATATTTCTTACGTATATATCTTTAATACTATATTATGTATATATTTTT
Found at i:107666815 original size:27 final size:27
Alignment explanation
Indices: 107666724--107666818 Score: 77
Period size: 32 Copynumber: 3.4 Consensus size: 27
107666714 TTTATATTTG
*
107666724 TTATGTATATA-TCTTTAAT-ACTATA
1 TTATGTATATATTTTTTAATAACTATA
* * * *
107666749 TTATTTATATATTTTTTATTTTTCATATTATC
1 TTATGTATATATTTTTTA---AT-A-ACTATA
*
107666781 TTACGTATATATTTTTTAATAACTATA
1 TTATGTATATATTTTTTAATAACTATA
107666808 TTATGTATATA
1 TTATGTATATA
107666819 CTAGTACTAT
Statistics
Matches: 52, Mismatches: 11, Indels: 12
0.69 0.15 0.16
Matches are distributed among these distances:
25 10 0.19
26 5 0.10
27 14 0.27
28 1 0.02
29 2 0.04
32 20 0.38
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (27 bp):
TTATGTATATATTTTTTAATAACTATA
Found at i:107667063 original size:18 final size:18
Alignment explanation
Indices: 107667040--107667098 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 18
107667030 ATAAATATAC
*
107667040 TTTTTATATATAGTATTA
1 TTTTTATATATATTATTA
107667058 TTTTTATATATCATTA-TA
1 TTTTTATATAT-ATTATTA
107667076 TTTATTAT-TATACTTATTA
1 TTT-TTATATATA-TTATTA
107667095 TTTT
1 TTTT
107667099 CACTATTGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
17 1 0.03
18 23 0.64
19 12 0.33
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTTTATATATATTATTA
Found at i:107668111 original size:53 final size:52
Alignment explanation
Indices: 107668050--107668184 Score: 157
Period size: 52 Copynumber: 2.6 Consensus size: 52
107668040 TATCGCATAT
107668050 ATGGTCTTATAC-GGAGGCACATTATCACATCATACCGATGCCATAGCCCAACC
1 ATGGTCTTATACGGGA-GCACA-TATCACATCATACCGATGCCATAGCCCAACC
* * * * * *
107668103 ATGTTCTTATACGGGAGTACATATCACAAT-GTATCGATGCCATAGCCCAGCT
1 ATGGTCTTATACGGGAGCACATATCAC-ATCATACCGATGCCATAGCCCAACC
* *
107668155 TTGGTCTTATACGGGCGCACATATCACATC
1 ATGGTCTTATACGGGAGCACATATCACATC
107668185 TATCTGTCAA
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
51 2 0.03
52 47 0.68
53 17 0.25
54 3 0.04
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.27
Consensus pattern (52 bp):
ATGGTCTTATACGGGAGCACATATCACATCATACCGATGCCATAGCCCAACC
Found at i:107674625 original size:25 final size:26
Alignment explanation
Indices: 107674588--107674640 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
107674578 TCAAACATGC
107674588 ATTTAGGTCAATTTAACC-CTAGGGGT
1 ATTTAGGTCAATTT-ACCTCTAGGGGT
*
107674614 ATTTCGGT-AATTTACCTTCTAGGGGT
1 ATTTAGGTCAATTTACC-TCTAGGGGT
107674640 A
1 A
107674641 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 3 0.12
25 5 0.21
26 16 0.67
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTACCTCTAGGGGT
Found at i:107676161 original size:26 final size:26
Alignment explanation
Indices: 107676130--107676237 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
107676120 TGAAATGCCC
107676130 ATCATGGAACATTTACCTAAAC-CATT
1 ATCATGGAACATTTACCT-AACTCATT
107676156 ATCATGGAACATTTACCTAACTCATT
1 ATCATGGAACATTTACCTAACTCATT
*
107676182 ATCATGGAATATTTACCTAA-TCCATT
1 ATCATGGAACATTTACCTAACT-CATT
*
107676208 ATCATGGAATATTTACCTAACTCATT
1 ATCATGGAACATTTACCTAACTCATT
107676234 ATCA
1 ATCA
107676238 ATTTGTACCA
Statistics
Matches: 78, Mismatches: 1, Indels: 6
0.92 0.01 0.07
Matches are distributed among these distances:
25 4 0.05
26 73 0.94
27 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.35
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACTCATT
Found at i:107676208 original size:52 final size:52
Alignment explanation
Indices: 107676130--107676237 Score: 189
Period size: 52 Copynumber: 2.1 Consensus size: 52
107676120 TGAAATGCCC
107676130 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACTCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACTCATT
* * *
107676182 ATCATGGAATATTTACCTAATCCATTATCATGGAATATTTACCTAACTCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACTCATT
107676234 ATCA
1 ATCA
107676238 ATTTGTACCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.35
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACTCATT
Found at i:107678383 original size:14 final size:15
Alignment explanation
Indices: 107678347--107678385 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
107678337 CCGTAAAAGT
107678347 AAGTCATTTTCCAGA
1 AAGTCATTTTCCAGA
*
107678362 AA-TAATTTTCC-GA
1 AAGTCATTTTCCAGA
107678375 AAGTCATTTTC
1 AAGTCATTTTC
107678386 AGTAAAACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 4 0.19
14 15 0.71
15 2 0.10
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.38
Consensus pattern (15 bp):
AAGTCATTTTCCAGA
Found at i:107683118 original size:36 final size:36
Alignment explanation
Indices: 107683027--107683106 Score: 108
Period size: 36 Copynumber: 2.2 Consensus size: 36
107683017 GAGCTCAAGT
** *
107683027 TCAAGCTTGAGTACAAAAAATAGTAAATGAGCTTAA
1 TCAAGCTCAAGTACAAAAATTAGTAAATGAGCTTAA
*
107683063 TCGAGCTCAAGTACAAAAATTAGTCAAA-GAGCTTAA
1 TCAAGCTCAAGTACAAAAATTAGT-AAATGAGCTTAA
107683099 TCAAGCTC
1 TCAAGCTC
107683107 GAGCTTAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
36 35 0.92
37 3 0.08
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (36 bp):
TCAAGCTCAAGTACAAAAATTAGTAAATGAGCTTAA
Found at i:107685801 original size:25 final size:25
Alignment explanation
Indices: 107685768--107685818 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
107685758 TTACTTCATA
107685768 TATACATTAACATAAACTTGAAGGT
1 TATACATTAACATAAACTTGAAGGT
*
107685793 TATATATTAACATAAACTTGAAGGT
1 TATACATTAACATAAACTTGAAGGT
107685818 T
1 T
107685819 TTTTTTTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (25 bp):
TATACATTAACATAAACTTGAAGGT
Found at i:107689151 original size:19 final size:19
Alignment explanation
Indices: 107689127--107689165 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
107689117 TAATAAGTTA
*
107689127 TTTAATATTTCAAT-TTTAT
1 TTTAATAATT-AATATTTAT
107689146 TTTAATAATTAATATTTAT
1 TTTAATAATTAATATTTAT
107689165 T
1 T
107689166 ACAATTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTAATAATTAATATTTAT
Found at i:107693700 original size:26 final size:26
Alignment explanation
Indices: 107693671--107693726 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
107693661 TGATACAAAT
*
107693671 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
107693697 TGATAATGGATTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
107693723 TGAT
1 TGAT
107693727 GGGAATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:107700744 original size:26 final size:26
Alignment explanation
Indices: 107700715--107700822 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
107700705 TGATACAAAT
107700715 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
107700741 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
107700767 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
107700793 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
107700819 TGAT
1 TGAT
107700823 GGGATTTCAT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:107703593 original size:42 final size:42
Alignment explanation
Indices: 107703541--107703623 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
107703531 GCTCGAGTTG
* *
107703541 GAGCTTGAGTACAAAAATTAGTAAATGAGCTTAATTGAGCTC
1 GAGCTCGAGTACAAAAATTAGTAAATGAGCTTAATTAAGCTC
*
107703583 GAGCTCGAGTACAAAAATTAGTAAGTGAGCTTAATTAAGCT
1 GAGCTCGAGTACAAAAATTAGTAAATGAGCTTAATTAAGCT
107703624 TGAACTCAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.28
Consensus pattern (42 bp):
GAGCTCGAGTACAAAAATTAGTAAATGAGCTTAATTAAGCTC
Found at i:107705804 original size:23 final size:22
Alignment explanation
Indices: 107705773--107705815 Score: 77
Period size: 23 Copynumber: 1.9 Consensus size: 22
107705763 ATCAAAACTA
107705773 ATAATAAAATAATATATAATGT
1 ATAATAAAATAATATATAATGT
107705795 ATAATAAAAATAATATATAAT
1 ATAAT-AAAATAATATATAAT
107705816 AAAATAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (22 bp):
ATAATAAAATAATATATAATGT
Found at i:107705813 original size:16 final size:16
Alignment explanation
Indices: 107705788--107705833 Score: 67
Period size: 15 Copynumber: 2.9 Consensus size: 16
107705778 AAAATAATAT
*
107705788 ATAATGTATAATAAAA
1 ATAATATATAATAAAA
107705804 ATAATATATAAT-AAA
1 ATAATATATAATAAAA
*
107705819 ATAATATATATTAAA
1 ATAATATATAATAAA
107705834 GATATATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 14 0.52
16 13 0.48
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (16 bp):
ATAATATATAATAAAA
Found at i:107705852 original size:38 final size:39
Alignment explanation
Indices: 107705758--107705857 Score: 95
Period size: 38 Copynumber: 2.6 Consensus size: 39
107705748 TTAACAAAAC
* *
107705758 AATATATCAAAAC-TAATAATAAAATAATATATAATGTAT
1 AATATAT-AAAACATTATAATAAAATAATATATAATGTAA
107705797 AATA-A-AAATA-ATATATAATAAAATAATATAT-AT-TAA
1 AATATATAAA-ACAT-TATAATAAAATAATATATAATGTAA
107705833 AGATATATAAAACATTATAAATAAA
1 A-ATATATAAAACATTAT-AATAAA
107705858 TACATAGAGG
Statistics
Matches: 51, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
36 6 0.12
37 7 0.14
38 23 0.45
39 15 0.29
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (39 bp):
AATATATAAAACATTATAATAAAATAATATATAATGTAA
Found at i:107705961 original size:23 final size:23
Alignment explanation
Indices: 107705935--107705982 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
107705925 ATATATTAGG
107705935 AACAACAAT-AGTAATATATATAA
1 AACAACAATAAG-AATATATATAA
*
107705958 AACAACTATAAGAATATATATAA
1 AACAACAATAAGAATATATATAA
107705981 AA
1 AA
107705983 TATATATGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 21 0.91
24 2 0.09
ACGTcount: A:0.62, C:0.08, G:0.04, T:0.25
Consensus pattern (23 bp):
AACAACAATAAGAATATATATAA
Found at i:107705984 original size:11 final size:11
Alignment explanation
Indices: 107705947--107705989 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
107705937 CAACAATAGT
107705947 AATATATATAA
1 AATATATATAA
*
107705958 AACA-ACTATAA
1 AATATA-TATAA
107705969 GAATATATATAA
1 -AATATATATAA
107705981 AATATATAT
1 AATATATAT
107705990 GTAGTATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
10 1 0.04
11 17 0.63
12 8 0.30
13 1 0.04
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (11 bp):
AATATATATAA
Found at i:107706034 original size:16 final size:17
Alignment explanation
Indices: 107706004--107706038 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
107705994 TATTAATTAA
*
107706004 AAATGTTTAATAATAAT
1 AAATGTTTAAAAATAAT
107706021 AAATG-TTAAAAATAAT
1 AAATGTTTAAAAATAAT
107706037 AA
1 AA
107706039 TACAAGAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (17 bp):
AAATGTTTAAAAATAAT
Found at i:107714687 original size:165 final size:167
Alignment explanation
Indices: 107714449--107714789 Score: 499
Period size: 165 Copynumber: 2.0 Consensus size: 167
107714439 ATTGTCTTTG
* * * *
107714449 TTGATGAGTGATACTAACTCAATTAACACTAAATAATGATATAGATTAAATTAACTTTCTACCCT
1 TTGATGAGTGATACCAACTCAATCAACACTAAATAATGATAAAGATTAAAATAACTTTCTACCCT
* * *
107714514 AGAATATAAAATGACAAAAATATCGTCATAATAATGTTCCTTATTTTAT-AAAAATGGGTTTTCC
66 AAAATATAAAATGACAAAAATATCGTCATAATAATATTCCATATTTTATAAAAAATGGGTTTTCC
* * *
107714578 GTAATTTCTCAATTAAGTTAGAACTCGGTTGTCTCAA
131 GTAATTTATCAACTAAGTTAGAACTCGGTTATCTCAA
* * * *
107714615 TTGATGAGTGATACCAGCTCAA-CAACCCTAAAT-ATTAGTAAAGATTAAAATAACTTTCTATCC
1 TTGATGAGTGATACCAACTCAATCAACACTAAATAATGA-TAAAGATTAAAATAACTTTCTACCC
107714678 TAAAATATAAAATGACAAAAATATCGTCATAATAATATTCCATATTTTATAAAAAAATGGGTTTT
65 TAAAATATAAAATGACAAAAATATCGTCATAATAATATTCCATATTTTAT-AAAAAATGGGTTTT
* *
107714743 CTGTAATTTATCAACTAAGTTAGAACTCGGTTATCTTAA
129 CCGTAATTTATCAACTAAGTTAGAACTCGGTTATCTCAA
107714782 TTGATGAG
1 TTGATGAG
107714790 CGACACTAAT
Statistics
Matches: 156, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
164 3 0.02
165 78 0.50
166 20 0.13
167 55 0.35
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.35
Consensus pattern (167 bp):
TTGATGAGTGATACCAACTCAATCAACACTAAATAATGATAAAGATTAAAATAACTTTCTACCCT
AAAATATAAAATGACAAAAATATCGTCATAATAATATTCCATATTTTATAAAAAATGGGTTTTCC
GTAATTTATCAACTAAGTTAGAACTCGGTTATCTCAA
Found at i:107715485 original size:15 final size:16
Alignment explanation
Indices: 107715459--107715498 Score: 57
Period size: 14 Copynumber: 2.6 Consensus size: 16
107715449 AATCATTGGT
107715459 TAAAAATA-ATTTT-A
1 TAAAAATATATTTTAA
107715473 TAAAAATATATTTTAA
1 TAAAAATATATTTTAA
107715489 TATAAAATAT
1 TA-AAAATAT
107715499 GCATGATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.35
15 5 0.22
16 3 0.13
17 7 0.30
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAAAATATATTTTAA
Found at i:107730045 original size:15 final size:15
Alignment explanation
Indices: 107730022--107730067 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 15
107730012 TGGAATAAAA
107730022 CAAAGGAGAATTGAAG
1 CAAA-GAGAATTGAAG
*
107730038 CAAAGAGAAAATGGAAG
1 CAAAGAG--AATTGAAG
107730055 CAAAGAGAATTGA
1 CAAAGAGAATTGA
107730068 TCAAGATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 8 0.31
16 4 0.15
17 14 0.54
ACGTcount: A:0.54, C:0.07, G:0.28, T:0.11
Consensus pattern (15 bp):
CAAAGAGAATTGAAG
Found at i:107733362 original size:40 final size:40
Alignment explanation
Indices: 107733318--107733405 Score: 122
Period size: 40 Copynumber: 2.2 Consensus size: 40
107733308 AACAAATGGA
* * *
107733318 ACAAAATTATAAGACTTATAATTAATAATACAAAAGATTC
1 ACAAAAATATAAAACTTATAATTAACAATACAAAAGATTC
* * *
107733358 ACAAAAATATAAAACTTATAATTAACACTACAAAATATTT
1 ACAAAAATATAAAACTTATAATTAACAATACAAAAGATTC
107733398 ACAAAAAT
1 ACAAAAAT
107733406 TCAGATAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.58, C:0.11, G:0.02, T:0.28
Consensus pattern (40 bp):
ACAAAAATATAAAACTTATAATTAACAATACAAAAGATTC
Found at i:107738048 original size:19 final size:19
Alignment explanation
Indices: 107738003--107738050 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
107737993 ATCAAATTAA
*
107738003 AATAAAAATAAAAATATAG
1 AATAAAAATAAAAATAAAG
* *
107738022 AATCAAAACT-AAAATAAAT
1 AAT-AAAAATAAAAATAAAG
107738041 AATAAAAATA
1 AATAAAAATA
107738051 TACAAGCTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
18 5 0.22
19 13 0.57
20 5 0.22
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.21
Consensus pattern (19 bp):
AATAAAAATAAAAATAAAG
Found at i:107738517 original size:26 final size:26
Alignment explanation
Indices: 107738488--107738595 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
107738478 TGGTACAAAT
107738488 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
107738514 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
107738540 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
107738566 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
107738592 TGAT
1 TGAT
107738596 GGGCGTTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:107741790 original size:12 final size:12
Alignment explanation
Indices: 107741773--107741803 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
107741763 ACTCGGGGAA
107741773 GAGGCCGTGGTC
1 GAGGCCGTGGTC
107741785 GAGGCCGTGGTC
1 GAGGCCGTGGTC
107741797 GAGGCCG
1 GAGGCCG
107741804 AGGTAGTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.10, C:0.26, G:0.52, T:0.13
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:107746703 original size:26 final size:26
Alignment explanation
Indices: 107746674--107746781 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
107746664 TGGTACAAAT
107746674 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
107746700 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
107746726 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
107746752 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
107746778 TGAT
1 TGAT
107746782 GGGCATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:107754265 original size:14 final size:14
Alignment explanation
Indices: 107754245--107754289 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
107754235 CACTAAAAAT
107754245 TAAACCCTAAACCA
1 TAAACCCTAAACCA
* * *
107754259 TACACCCTACACTA
1 TAAACCCTAAACCA
*
107754273 TAAACCCTAAACTA
1 TAAACCCTAAACCA
107754287 TAA
1 TAA
107754290 TGATAATTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:107754769 original size:15 final size:15
Alignment explanation
Indices: 107754730--107754772 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
107754720 TAAATTTTAA
* *
107754730 CCCT-AACCCTTAAA
1 CCCTAAACCCATAAT
107754744 CCCTAAA-CCATAAT
1 CCCTAAACCCATAAT
107754758 CCCTAAACCCATAAT
1 CCCTAAACCCATAAT
107754773 TCATCATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 16 0.64
15 9 0.36
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.21
Consensus pattern (15 bp):
CCCTAAACCCATAAT
Found at i:107754879 original size:49 final size:46
Alignment explanation
Indices: 107754794--107754890 Score: 140
Period size: 49 Copynumber: 2.0 Consensus size: 46
107754784 CTTCAAATAC
* *
107754794 TAGTTAACTCCTAAACCTTAAACCCTAAACCGTATATCTTAAACCA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
*
107754840 TAGTTAACTCATAAACTTACTTAAACCCTAAACTATATATCTTAAACCA
1 TAGTTAACTCATAAAC---CTTAAACCCTAAACCATATATCTTAAACCA
107754889 TA
1 TA
107754891 AACCTTAAAC
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
46 15 0.33
49 30 0.67
ACGTcount: A:0.41, C:0.25, G:0.03, T:0.31
Consensus pattern (46 bp):
TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
Found at i:107754897 original size:14 final size:14
Alignment explanation
Indices: 107754861--107754905 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
107754851 TAAACTTACT
*
107754861 TAAACCCTAAACTA
1 TAAACCTTAAACTA
* * *
107754875 TATATCTTAAACCA
1 TAAACCTTAAACTA
107754889 TAAACCTTAAACTA
1 TAAACCTTAAACTA
107754903 TAA
1 TAA
107754906 TGATAATTAA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.29
Consensus pattern (14 bp):
TAAACCTTAAACTA
Found at i:107757992 original size:27 final size:27
Alignment explanation
Indices: 107757973--107758156 Score: 206
Period size: 27 Copynumber: 6.8 Consensus size: 27
107757963 ATTACCAAAG
* *
107757973 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
*
107758000 TACCCTCGACTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
*
107758027 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
* * *
107758054 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACCATTT
* * * **
107758081 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCATTT
* ***
107758108 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACCATTT
* *
107758135 TACCCTTGGTTTACAAAATTAC
1 TACCCTCGATTTACAAAATTAC
107758157 TAAAATACCC
Statistics
Matches: 137, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 137 1.00
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCATTT
Found at i:107758004 original size:54 final size:54
Alignment explanation
Indices: 107757946--107758129 Score: 215
Period size: 54 Copynumber: 3.4 Consensus size: 54
107757936 ATTACTGAAA
* * *** *
107757946 TACCCTCAAATTGTAAAATTACCAAAGTACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGAATTATAAAATTACCATTTTACCCTCGATTTATAGAATTACCGTTT
* * * *
107758000 TACCCTCGACTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGAATTATAAAATTACCATTTTACCCTCGATTTATAGAATTACCGTTT
* * * * *
107758054 TACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGAATTATAAAATTACCATTTTACCCTCGATTTATAGAATTACCGTTT
* *
107758108 TACCCTCGATTTACAAAATTAC
1 TACCCTCGAATTATAAAATTAC
107758130 TAAAATACCC
Statistics
Matches: 110, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 110 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.38
Consensus pattern (54 bp):
TACCCTCGAATTATAAAATTACCATTTTACCCTCGATTTATAGAATTACCGTTT
Found at i:107758069 original size:81 final size:81
Alignment explanation
Indices: 107757973--107758129 Score: 251
Period size: 81 Copynumber: 1.9 Consensus size: 81
107757963 ATTACCAAAG
107757973 TACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAAAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAAAATTACCATTTTACCCTCGATT
107758038 TACAAAATTACCGTTT
66 TACAAAATTACCGTTT
* * * * * **
107758054 TACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTATAGAATTACTGTTTTACCCTCGATT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAAAATTACCATTTTACCCTCGATT
107758119 TACAAAATTAC
66 TACAAAATTAC
107758130 TAAAATACCC
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 69 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (81 bp):
TACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAAAATTACCATTTTACCCTCGATT
TACAAAATTACCGTTT
Found at i:107758130 original size:54 final size:54
Alignment explanation
Indices: 107757973--107758131 Score: 237
Period size: 54 Copynumber: 2.9 Consensus size: 54
107757963 ATTACCAAAG
* * *
107757973 TACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAAAATTACCATTT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACTATTT
* * * *
107758027 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACTATTT
* *
107758081 TACCCTTGATTTATAGAATTACTGTTTTACCCTCGATTTACAAAATTACTA
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACTA
107758132 AAATACCCTT
Statistics
Matches: 92, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 92 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.40
Consensus pattern (54 bp):
TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACTATTT
Found at i:107758139 original size:81 final size:81
Alignment explanation
Indices: 107757960--107758158 Score: 245
Period size: 81 Copynumber: 2.5 Consensus size: 81
107757950 CTCAAATTGT
* *
107757960 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAAAATTACCAT
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACTATTTTACCCTCGACTTACAAAATTACCAT
107758025 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
**** * * * * **
107758041 AAAATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTATAGAATTACTGT
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACTATTTTACCCTCGACTTACAAAATTACCAT
107758106 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
* * * * *
107758122 AAAATTACTAAAATACCCTTGGTTTACAAAATTACTA
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACTA
107758159 AAATACCCTC
Statistics
Matches: 98, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 98 1.00
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.37
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCGATTTATAGAATTACTATTTTACCCTCGACTTACAAAATTACCAT
TTTACCCTCGATTTAC
Found at i:107758157 original size:27 final size:27
Alignment explanation
Indices: 107758108--107758415 Score: 130
Period size: 27 Copynumber: 11.4 Consensus size: 27
107758098 ATTACTGTTT
* *
107758108 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
107758135 TACCCTTGGTTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
* * * *
107758162 TACCC-TCGATCAGTAAAATTAGC-AAAA
1 TACCCTTGGTTTA-CAAAATTA-CTAAAA
* * ** *
107758189 TA-CATTGGTCTGTAAAATTGCTAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
* * ** *
107758215 TACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
* * ** *
107758242 TACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
*** **
107758269 TACCAC-TGGTTTGTGAAATTACCGAAA
1 TACC-CTTGGTTTACAAAATTACTAAAA
*** ** *
107758296 TACCCTAAATTT--GTAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
* * *
107758321 TACCCCTGATTTACAAAGTTAC-AGAAA
1 TACCCTTGGTTTACAAAATTACTA-AAA
* *
107758348 TACCCTTGACTTT-CTAAAAATTA-TGGAAA
1 TACCCTTG-GTTTAC--AAAATTACT-AAAA
* *
107758377 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
107758404 TACCCTTGGTTT
1 TACCCTTGGTTT
107758416 GTAGATTTAC
Statistics
Matches: 224, Mismatches: 40, Indels: 34
0.75 0.13 0.11
Matches are distributed among these distances:
25 21 0.09
26 20 0.09
27 157 0.70
28 9 0.04
29 17 0.08
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACTAAAA
Found at i:107758166 original size:54 final size:54
Alignment explanation
Indices: 107757927--107758301 Score: 173
Period size: 54 Copynumber: 7.0 Consensus size: 54
107757917 GAATATTTTA
* * * * * * *
107757927 GTTTACCAAATTACTGAAATACCCTCAAATTGTAAAATTACCAAAGTACCCTCG
1 GTTTACAAAATTACTAAAATACCCTCGATTTATAAAATTACCAAAATACCCTTG
* * * * *** * * *** *
107757981 ATTTATAGAATTACCATTTTACCCTCGACTTACAAAATTACCATTTTACCCTCG
1 GTTTACAAAATTACTAAAATACCCTCGATTTATAAAATTACCAAAATACCCTTG
* ***** * * ***
107758035 ATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTTG
1 GTTTACAAAATTACTAAAATACCCTCGATTTATAAAATTACCAAAATACCCTTG
* * * **** * *
107758089 ATTTATAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTG
1 GTTTACAAAATTACTAAAATACCCTCGATTTATAAAATTACCAAAATACCCTTG
* * *
107758143 GTTTACAAAATTACTAAAATACCCTCGA-TCAGTAAAATTAGCAAAATA-CATTG
1 GTTTACAAAATTACTAAAATACCCTCGATTTA-TAAAATTACCAAAATACCCTTG
* ** * * * * *
107758196 GTCTGTAAAATTGCTAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCCCTA
1 GTTTACAAAATTACTAAAATACCCTCGA-TTTATAAAATTACCAAAATACCCTTG
** * * * * *
107758250 GTTTGTAAAATTACCAAAATACCACT-GGTTTGTGAAATTACCGAAATACCCT
1 GTTTACAAAATTACTAAAATACC-CTCGATTTATAAAATTACCAAAATACCCT
107758302 AAATTTGTAA
Statistics
Matches: 252, Mismatches: 63, Indels: 12
0.77 0.19 0.04
Matches are distributed among these distances:
52 2 0.01
53 41 0.16
54 208 0.83
55 1 0.00
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.34
Consensus pattern (54 bp):
GTTTACAAAATTACTAAAATACCCTCGATTTATAAAATTACCAAAATACCCTTG
Found at i:107758258 original size:80 final size:82
Alignment explanation
Indices: 107758122--107758327 Score: 217
Period size: 80 Copynumber: 2.6 Consensus size: 82
107758112 CTCGATTTAC
* * ** * * *
107758122 AAAATTACTAAAATACCCTTGGTTTACAAAATTACTAAAATA-CCCTCGATCAGTAAAATTAGCA
1 AAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGATCAGTAAAATTACCA
*
107758186 AAATA-CATTGGTCTGT
66 AAATACCACTGGTCTGT
* **
107758202 AAAATTGCTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACCA
1 AAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGATCAGTAAAATTACCA
*
107758266 AAATACCACTGGTTTGT
66 AAATACCACTGGTCTGT
* ** *
107758283 GAAATTACCGAAATA-CCCTAAATTTGT--AATTACCAAAATACCCCT
1 AAAATTACTAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCCT
107758328 GATTTACAAA
Statistics
Matches: 106, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
79 18 0.17
80 57 0.54
81 31 0.29
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (82 bp):
AAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGATCAGTAAAATTACCA
AAATACCACTGGTCTGT
Found at i:107758309 original size:54 final size:54
Alignment explanation
Indices: 107758199--107758324 Score: 159
Period size: 54 Copynumber: 2.4 Consensus size: 54
107758189 TACATTGGTC
* * * *
107758199 TGTAAAATTGCTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTT
1 TGTAAAATTACCAAAATACCACTAGTTTGTAAAATTACCAAAATACCCCTAATT
* * *
107758253 TGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATA-CCCTAAATT
1 TGTAAAATTACCAAAATACCACTAGTTTGTAAAATTACCAAAATACCCCT-AATT
107758307 TGT--AATTACCAAAATACC
1 TGTAAAATTACCAAAATACC
107758325 CCTGATTTAC
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
52 15 0.23
53 4 0.06
54 45 0.70
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (54 bp):
TGTAAAATTACCAAAATACCACTAGTTTGTAAAATTACCAAAATACCCCTAATT
Found at i:107758499 original size:27 final size:27
Alignment explanation
Indices: 107758469--107758560 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
107758459 ACCCCTATTA
*
107758469 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
107758496 GGTAAAGTGACCATAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
107758523 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
107758550 GGTAAAATGAC
1 GGTAAAATGAC
107758561 GAATATGCCC
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 57 0.98
28 1 0.02
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:107759455 original size:26 final size:26
Alignment explanation
Indices: 107759369--107759464 Score: 142
Period size: 25 Copynumber: 3.8 Consensus size: 26
107759359 AGGAAGTGCT
*
107759369 AAAAGGGCTATGCCCCAGTTT-TCCG
1 AAAAGGGCTTTGCCCCAGTTTATCCG
107759394 AAAAGGGCTTTGCCCCAGTTTA-CCG
1 AAAAGGGCTTTGCCCCAGTTTATCCG
**
107759419 AAAAGGGCTTTGCCCCAGTTTATCAA
1 AAAAGGGCTTTGCCCCAGTTTATCCG
*
107759445 AAAAGGGCTTTGCCGCAGTT
1 AAAAGGGCTTTGCCCCAGTT
107759465 ATTAAAAGAG
Statistics
Matches: 65, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
25 45 0.69
26 20 0.31
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (26 bp):
AAAAGGGCTTTGCCCCAGTTTATCCG
Found at i:107759488 original size:51 final size:50
Alignment explanation
Indices: 107759367--107759489 Score: 142
Period size: 50 Copynumber: 2.4 Consensus size: 50
107759357 GGAGGAAGTG
**
107759367 CTAAAAGGGCTATGCCCCAGTTTTCCGAAAAGGGCTTTGCCCCAGTTTAC
1 CTAAAAGGGCTATGCCCCAGTTTTCAAAAAAGGGCTTTGCCCCAGTTTAC
* * *
107759417 CGAAAAGGGCTTTGCCCCAGTTTATCAAAAAAGGGCTTTGCCGCAG-TTA-
1 CTAAAAGGGCTATGCCCCAGTTT-TCAAAAAAGGGCTTTGCCCCAGTTTAC
* *
107759466 TTAAAAGAGGCTAGGCCTCCAGTT
1 CTAAAAG-GGCTATGCC-CCAGTT
107759490 ATATGATAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
49 5 0.08
50 31 0.51
51 25 0.41
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (50 bp):
CTAAAAGGGCTATGCCCCAGTTTTCAAAAAAGGGCTTTGCCCCAGTTTAC
Found at i:107759674 original size:42 final size:42
Alignment explanation
Indices: 107759615--107759706 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
107759605 TAGTCTCCCC
*
107759615 AAATGGGCTTGCATACATTCATTGGTATTTCATATGATATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATATGATATTG
* *
107759657 AAATGGGCTTGCATACATTCATTGATATTTCATGTGTTATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATATGATATTG
107759699 AAATGGGC
1 AAATGGGC
107759707 CTATGGGCCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGATATTTCATATGATATTG
Found at i:107763257 original size:40 final size:40
Alignment explanation
Indices: 107763219--107763441 Score: 238
Period size: 40 Copynumber: 5.6 Consensus size: 40
107763209 GCTCCTCGTT
* * *
107763219 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
107763259 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
107763299 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * ** *
107763339 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATTTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
107763378 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
107763419 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAACCCG
107763442 AACATCATTC
Statistics
Matches: 156, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
38 2 0.01
39 29 0.19
40 113 0.72
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:107773225 original size:22 final size:21
Alignment explanation
Indices: 107773188--107773230 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
107773178 AATAATAACG
*
107773188 ATATATAAACATATAA-ATGT
1 ATATATAAAAATATAATATGT
107773208 ATATATTAAAAATAATAATATGT
1 ATATA-TAAAAAT-ATAATATGT
107773231 GTACATAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 5 0.26
21 6 0.32
22 4 0.21
23 4 0.21
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (21 bp):
ATATATAAAAATATAATATGT
Found at i:107790840 original size:17 final size:18
Alignment explanation
Indices: 107790820--107790853 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
107790810 AAGTGAATTG
107790820 AAATTGCA-AAATTAAAT
1 AAATTGCAGAAATTAAAT
107790837 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
107790854 AAGAGGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:107791589 original size:21 final size:22
Alignment explanation
Indices: 107791560--107791605 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
107791550 AGTCTATTCC
**
107791560 TAATGAAATTCTAAAAGATAAA
1 TAATGAAATAATAAAAGATAAA
*
107791582 TAAT-AAATAATTAAAGATAAA
1 TAATGAAATAATAAAAGATAAA
107791603 TAA
1 TAA
107791606 AGATAAATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (22 bp):
TAATGAAATAATAAAAGATAAA
Found at i:107791606 original size:10 final size:10
Alignment explanation
Indices: 107791573--107791623 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
107791563 TGAAATTCTA
107791573 AAAGATAAAT
1 AAAGATAAAT
* *
107791583 AATAAATAATT
1 AA-AGATAAAT
107791594 AAAGATAAAT
1 AAAGATAAAT
107791604 AAAGATAAAT
1 AAAGATAAAT
107791614 GAAA-ATAAAT
1 -AAAGATAAAT
107791624 CCTAAAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
10 24 0.69
11 11 0.31
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.24
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:107793569 original size:16 final size:17
Alignment explanation
Indices: 107793538--107793570 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
107793528 TTCATAAGTA
107793538 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
107793555 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
107793571 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:107794083 original size:46 final size:46
Alignment explanation
Indices: 107793856--107794083 Score: 296
Period size: 46 Copynumber: 5.0 Consensus size: 46
107793846 TTTGACACGA
* * * **
107793856 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TATCATAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGT
** *
107793902 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* * *** *
107793948 TGCCATCGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
107793994 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
107794040 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
107794084 AGAGCACACT
Statistics
Matches: 161, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 4 0.02
46 157 0.98
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
Found at i:107797481 original size:26 final size:26
Alignment explanation
Indices: 107797445--107797554 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
107797435 TGATACAAAT
107797445 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
107797471 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
107797497 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
107797523 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
107797549 TGATAA
1 TGATAA
107797555 GAATTTCATA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:107799203 original size:27 final size:26
Alignment explanation
Indices: 107799165--107799246 Score: 92
Period size: 27 Copynumber: 3.0 Consensus size: 26
107799155 AAGCGTTCTA
* *
107799165 GTGGCTATGCCACAAATATCTGATCTG
1 GTGGCTCTGCCAC-ATTATCTGATCTG
107799192 GTGGCTCTGCCACGATTATCTGTATCTG
1 GTGGCTCTGCCAC-ATTATCTG-ATCTG
* * *
107799220 GTGACTCTGTCACATTATCTGTTCTG
1 GTGGCTCTGCCACATTATCTGATCTG
107799246 G
1 G
107799247 CAGCCATGCT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 5 0.10
27 27 0.56
28 16 0.33
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTGATCTG
Found at i:107810046 original size:17 final size:17
Alignment explanation
Indices: 107810024--107810057 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
107810014 CCCAAAGGAA
107810024 CTAAGAGAACTAGTAAT
1 CTAAGAGAACTAGTAAT
*
107810041 CTAAGAGTACTAGTAAT
1 CTAAGAGAACTAGTAAT
107810058 TACTTTCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.18, T:0.26
Consensus pattern (17 bp):
CTAAGAGAACTAGTAAT
Found at i:107811803 original size:5 final size:6
Alignment explanation
Indices: 107811793--107811841 Score: 50
Period size: 6 Copynumber: 8.5 Consensus size: 6
107811783 AAGAATATTT
* *
107811793 TATTAA T-TTAA TATTAA TATGATA TATTAA T-TTAA T-TTAA TATTTA
1 TATTAA TATTAA TATTAA TATTA-A TATTAA TATTAA TATTAA TATTAA
107811839 TAT
1 TAT
107811842 CGATAATACT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
5 15 0.41
6 17 0.46
7 5 0.14
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (6 bp):
TATTAA
Found at i:107811829 original size:29 final size:29
Alignment explanation
Indices: 107811794--107811929 Score: 123
Period size: 29 Copynumber: 4.6 Consensus size: 29
107811784 AGAATATTTT
107811794 ATTAATTTAATATTAATATGAT-ATATTA
1 ATTAATTTAATATTAATATGATAATATTA
* *
107811822 ATTTAATTTAATATTTATATCGATAATACTTT
1 A-TTAATTTAATATTAATAT-GATAATA-TTA
* * *
107811854 ATTGATTTAATATTAATGTGA-GATATTAA
1 ATTAATTTAATATTAATATGATAATATT-A
* * * *
107811883 ATTTATTTAATATTTATCTTGATAATAATTT
1 ATTAATTTAATATTAAT-ATGATAAT-ATTA
107811914 ATTAATTTAATATTAA
1 ATTAATTTAATATTAA
107811930 CGTGATTAAT
Statistics
Matches: 86, Mismatches: 14, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
28 3 0.03
29 35 0.41
30 8 0.09
31 34 0.40
32 6 0.07
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.51
Consensus pattern (29 bp):
ATTAATTTAATATTAATATGATAATATTA
Found at i:107811829 original size:60 final size:61
Alignment explanation
Indices: 107811763--107811929 Score: 221
Period size: 60 Copynumber: 2.8 Consensus size: 61
107811753 ATAACATTGT
* * * * *
107811763 TTTAATTTCATATTTATCTAAAGAATATTTTATTAATTTAATATTAATATGATATATT-AA
1 TTTAATTTAATATTTATCTAGATAATAATTTATTAATTTAATATTAATATGAGATATTAAA
* * * * *
107811823 TTTAATTTAATATTTATATCGATAATACTTTATTGATTTAATATTAATGTGAGATATTAAA
1 TTTAATTTAATATTTATCTAGATAATAATTTATTAATTTAATATTAATATGAGATATTAAA
*
107811884 TTT-ATTTAATATTTATCTTGATAATAATTTATTAATTTAATATTAA
1 TTTAATTTAATATTTATCTAGATAATAATTTATTAATTTAATATTAA
107811930 CGTGATTAAT
Statistics
Matches: 93, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
60 88 0.95
61 5 0.05
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (61 bp):
TTTAATTTAATATTTATCTAGATAATAATTTATTAATTTAATATTAATATGAGATATTAAA
Found at i:107812338 original size:18 final size:17
Alignment explanation
Indices: 107812306--107812346 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
107812296 TCTTGTTTTG
107812306 AATTTTTTTTCAAACTCT
1 AATTTTTTTTCAAAC-CT
107812324 AATTTTTTCTT-AAACCT
1 AATTTTTT-TTCAAACCT
107812341 -ATTTTT
1 AATTTTT
107812347 CGTTGCGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 6 0.27
17 2 0.09
18 12 0.55
19 2 0.09
ACGTcount: A:0.27, C:0.15, G:0.00, T:0.59
Consensus pattern (17 bp):
AATTTTTTTTCAAACCT
Found at i:107816907 original size:22 final size:22
Alignment explanation
Indices: 107816882--107816925 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
107816872 ATTTATCAAC
*
107816882 TTTCATTATTTTATTATTATTA
1 TTTCATTATTTTATAATTATTA
*
107816904 TTTCATTTTTTTATAATTATTA
1 TTTCATTATTTTATAATTATTA
107816926 AGTATTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (22 bp):
TTTCATTATTTTATAATTATTA
Found at i:107816951 original size:18 final size:18
Alignment explanation
Indices: 107816912--107816953 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
107816902 TATTTCATTT
*
107816912 TTTTATAATTATTAAGTA
1 TTTTATAATTATTAAGGA
*
107816930 TTTTA-AATTATTTAGGA
1 TTTTATAATTATTAAGGA
107816947 GTTTTAT
1 -TTTTAT
107816954 GTCAATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (18 bp):
TTTTATAATTATTAAGGA
Found at i:107819473 original size:21 final size:21
Alignment explanation
Indices: 107819444--107819497 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
107819434 ATGATATTGA
107819444 AATGATATTTATATTTATGAT
1 AATGATATTTATATTTATGAT
* * *
107819465 AATGTTATTTATCTTTGTGAT
1 AATGATATTTATATTTATGAT
* *
107819486 AATTAAATTTAT
1 AATGATATTTAT
107819498 CTAGCCATTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.02, G:0.09, T:0.54
Consensus pattern (21 bp):
AATGATATTTATATTTATGAT
Found at i:107824564 original size:2 final size:2
Alignment explanation
Indices: 107824557--107824591 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
107824547 CCCTATTTTA
*
107824557 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
107824592 CATTTGTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:107824799 original size:6 final size:6
Alignment explanation
Indices: 107824783--107824826 Score: 79
Period size: 6 Copynumber: 7.2 Consensus size: 6
107824773 CTATTTCATA
107824783 TATTATT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT T
1 TATT-TT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT T
107824827 TTATCTATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 33 0.89
7 4 0.11
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TATTTT
Found at i:107824835 original size:18 final size:18
Alignment explanation
Indices: 107824783--107824836 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
107824773 CTATTTCATA
*
107824783 TATTATTTATTTTTATTTT
1 TATT-TTTATTTCTATTTT
*
107824802 TATTTTTATTTTTATTTT
1 TATTTTTATTTCTATTTT
107824820 TATTTTT-TTATCTATTT
1 TATTTTTATT-TCTATTT
107824837 CCAAACTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
17 2 0.06
18 27 0.82
19 4 0.12
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.80
Consensus pattern (18 bp):
TATTTTTATTTCTATTTT
Found at i:107829627 original size:25 final size:24
Alignment explanation
Indices: 107829593--107829652 Score: 111
Period size: 25 Copynumber: 2.5 Consensus size: 24
107829583 TGGGTTTTTC
107829593 AATATATTAAACTAATTACAATTAA
1 AATATATTAAACTAATTACAATT-A
107829618 AATATATTAAACTAATTACAATTA
1 AATATATTAAACTAATTACAATTA
107829642 AATATATTAAA
1 AATATATTAAA
107829653 TTAAAATTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 12 0.34
25 23 0.66
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (24 bp):
AATATATTAAACTAATTACAATTA
Found at i:107834870 original size:13 final size:13
Alignment explanation
Indices: 107834852--107834877 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
107834842 TTTCGCTTCC
107834852 AAAATCAATTTTT
1 AAAATCAATTTTT
107834865 AAAATCAATTTTT
1 AAAATCAATTTTT
107834878 TTTATTTTTT
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:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
AAAATCAATTTTT
Found at i:107840475 original size:6 final size:6
Alignment explanation
Indices: 107840464--107840539 Score: 70
Period size: 6 Copynumber: 12.7 Consensus size: 6
107840454 CCAATCTTTC
*
107840464 TTTTTA TTTTTA TTTTTA TTTTTA TTTATT- TTTTT- CTTTTA TTATTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTT-TTA TTTTTA TTTTTA TT-TTTA
*
107840512 TTATTT- TCTTTTC TTTTTA -TTTTA TTTT
1 TT-TTTA T-TTTTA TTTTTA TTTTTA TTTT
107840540 AGTTAAATAT
Statistics
Matches: 61, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
5 11 0.18
6 36 0.59
7 14 0.23
ACGTcount: A:0.14, C:0.04, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:107840493 original size:16 final size:16
Alignment explanation
Indices: 107840472--107840538 Score: 68
Period size: 16 Copynumber: 4.2 Consensus size: 16
107840462 TCTTTTTATT
107840472 TTTATTTTTATTTTTA
1 TTTATTTTTATTTTTA
*
107840488 TTTATTTTTTTCTTTTA
1 TTTATTTTTAT-TTTTA
107840505 -TTATTTATTATTTTCT-
1 TTTATTT-TTATTTT-TA
*
107840521 TTTCTTTTTA-TTTTA
1 TTTATTTTTATTTTTA
107840536 TTT
1 TTT
107840539 TAGTTAAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
14 1 0.02
15 6 0.14
16 22 0.51
17 14 0.33
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTATTTTTATTTTTA
Found at i:107840539 original size:16 final size:15
Alignment explanation
Indices: 107840465--107840539 Score: 60
Period size: 16 Copynumber: 4.6 Consensus size: 15
107840455 CAATCTTTCT
107840465 TTTTATTTTTATTTTTA
1 TTTTA-TTTT-TTTTTA
*
107840482 TTTTTATTTATTTTTTTC
1 -TTTTA-TT-TTTTTTTA
* *
107840500 TTTTATTATTTATTA
1 TTTTATTTTTTTTTA
*
107840515 TTTTCTTTTCTTTTTA
1 TTTTATTTT-TTTTTA
107840531 TTTTATTTT
1 TTTTATTTT
107840540 AGTTAAATAT
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
15 12 0.26
16 15 0.32
17 5 0.11
18 13 0.28
19 2 0.04
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTATTTTTTTTTA
Found at i:107841062 original size:18 final size:17
Alignment explanation
Indices: 107841042--107841123 Score: 64
Period size: 18 Copynumber: 4.8 Consensus size: 17
107841032 TGGCCTGTTG
107841042 ATTATATAATTTAAATT
1 ATTATATAATTTAAATT
*
107841059 GATTATATAATTAAAAATT
1 -ATTATATAATT-TAAATT
107841078 ATTATCAT--TTT--ATCT
1 ATTAT-ATAATTTAAAT-T
* *
107841093 AATAAATAATTTAAATT
1 ATTATATAATTTAAATT
107841110 AATTATATAATTTA
1 -ATTATATAATTTA
107841124 TTAAAATATT
Statistics
Matches: 50, Mismatches: 6, Indels: 16
0.69 0.08 0.22
Matches are distributed among these distances:
14 4 0.08
15 4 0.08
16 3 0.06
17 3 0.06
18 29 0.58
19 7 0.14
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (17 bp):
ATTATATAATTTAAATT
Found at i:107841141 original size:22 final size:21
Alignment explanation
Indices: 107841103--107841151 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 21
107841093 AATAAATAAT
* **
107841103 TTAAATTAATTATATAATTTA
1 TTAAAATAATTATATAAAATA
*
107841124 TTAAAATATTTATAATAAAATA
1 TTAAAATAATTAT-ATAAAATA
107841146 TTAAAA
1 TTAAAA
107841152 GATACATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TTAAAATAATTATATAAAATA
Found at i:107841367 original size:21 final size:21
Alignment explanation
Indices: 107841341--107841393 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
107841331 CGCTGTTTCT
*
107841341 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
107841362 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
107841383 AATCTCACCGC
1 AATCTCACCGC
107841394 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.38, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:107842453 original size:118 final size:118
Alignment explanation
Indices: 107842245--107842475 Score: 372
Period size: 118 Copynumber: 2.0 Consensus size: 118
107842235 TGTTTTCCAT
* * *
107842245 GGTTATGAGTACAGCTTAGATCGTGACTGACTGAGTAACCGGGGTAAGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAAGGTACTTGGGTTGTCATT
107842310 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
** *
107842363 GGTTATGAGTATGGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTACTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAAGGTACTTGGGTTGTCATT
****
107842428 CTACTTCGCGTCAAAAGGTTGTGTGACGTGTTGGGTAAAACTCCGCTA
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTA
107842476 ACCGGAAATA
Statistics
Matches: 103, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
118 103 1.00
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (118 bp):
GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAAGGTACTTGGGTTGTCATT
CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
Found at i:107842614 original size:10 final size:10
Alignment explanation
Indices: 107842601--107842637 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
107842591 AATAAAATTT
107842601 AAAAAAAG-A
1 AAAAAAAGAA
107842610 AAAAAAAGAA
1 AAAAAAAGAA
107842620 AAAAAAAGAA
1 AAAAAAAGAA
107842630 GAAAAAAA
1 -AAAAAAA
107842638 TAAGTACTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 8 0.31
10 11 0.42
11 7 0.27
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:107844319 original size:25 final size:23
Alignment explanation
Indices: 107844284--107844396 Score: 75
Period size: 25 Copynumber: 4.6 Consensus size: 23
107844274 CATTCACATT
*
107844284 CTGATTTTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTT--CTGATA
*
107844309 CTGATTCTGATTCTAATTCT-ATCA
1 CTGATTCTGATTCT-GTTCTGAT-A
* * *
107844333 CCTAATTCTGATTCTGATTTTGATT
1 -CTGATTCTGATTCTG-TTCTGATA
* * *
107844358 CTGATTCTGATTTTGTCACCTGATT
1 CTGATTCTGATTCTGT--TCTGATA
107844383 CTGATTCTGATTCT
1 CTGATTCTGATTCT
107844397 CATTTTGATT
Statistics
Matches: 70, Mismatches: 11, Indels: 14
0.74 0.12 0.15
Matches are distributed among these distances:
23 3 0.04
24 16 0.23
25 47 0.67
26 4 0.06
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.49
Consensus pattern (23 bp):
CTGATTCTGATTCTGTTCTGATA
Found at i:107844319 original size:31 final size:31
Alignment explanation
Indices: 107844281--107844360 Score: 106
Period size: 31 Copynumber: 2.6 Consensus size: 31
107844271 TTGCATTCAC
* *
107844281 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTCACCTAATACTG
* * * *
107844312 ATTCTGATTCTAATTCTATCACCTAATTCTG
1 ATTCTGATTTTGATTCTGTCACCTAATACTG
107844343 ATTCTGATTTTGATTCTG
1 ATTCTGATTTTGATTCTG
107844361 ATTCTGATTT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.21, C:0.17, G:0.12, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTCACCTAATACTG
Found at i:107844320 original size:6 final size:6
Alignment explanation
Indices: 107844281--107844408 Score: 91
Period size: 6 Copynumber: 20.8 Consensus size: 6
107844271 TTGCATTCAC
* * *
107844281 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCT-
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
107844329 ATCACCTA ATTCTG ATTCTG ATTTTG ATTCTG ATTCTG ATTTTG -TCACCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG
* *
107844380 ATTCTG ATTCTG ATTCTC ATTTTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
107844409 AGTTCAGATA
Statistics
Matches: 95, Mismatches: 18, Indels: 18
0.73 0.14 0.14
Matches are distributed among these distances:
5 5 0.05
6 79 0.83
7 7 0.07
8 4 0.04
ACGTcount: A:0.20, C:0.18, G:0.12, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:107844350 original size:43 final size:43
Alignment explanation
Indices: 107844303--107844409 Score: 142
Period size: 43 Copynumber: 2.5 Consensus size: 43
107844293 ATTCTGTTAC
*
107844303 CTGATACTGATTCTGATTCTAATTCTATCACCTAATTCTGATT
1 CTGATTCTGATTCTGATTCTAATTCTATCACCTAATTCTGATT
* * * * *
107844346 CTGATTTTGATTCTGATTCTGATTTTGTCACCTGATTCTGATT
1 CTGATTCTGATTCTGATTCTAATTCTATCACCTAATTCTGATT
* *
107844389 CTGATTCTCATTTTGATTCTA
1 CTGATTCTGATTCTGATTCTA
107844410 GTTCAGATAA
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.21, C:0.19, G:0.12, T:0.49
Consensus pattern (43 bp):
CTGATTCTGATTCTGATTCTAATTCTATCACCTAATTCTGATT
Found at i:107850479 original size:19 final size:19
Alignment explanation
Indices: 107850455--107850495 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
107850445 TTTAATTGTT
*
107850455 TTATAATATGAAATGAATA
1 TTATAATATGAAAGGAATA
*
107850474 TTATAATATTAAAGGAATA
1 TTATAATATGAAAGGAATA
107850493 TTA
1 TTA
107850496 ATATTATAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (19 bp):
TTATAATATGAAAGGAATA
Found at i:107852273 original size:39 final size:39
Alignment explanation
Indices: 107852219--107852514 Score: 538
Period size: 39 Copynumber: 7.5 Consensus size: 39
107852209 TAATGGAGAA
107852219 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
107852258 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
107852297 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTA
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
107852336 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTA
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
107852375 TTATATCCGGGCCAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
107852414 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
107852453 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTA
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
107852492 TTATATCCGGGCTTAAAGTCCCG
1 TTATATCCGGGC-T-AAGTCCCG
107852515 CATGCTTTGT
Statistics
Matches: 250, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
39 241 0.96
40 1 0.00
41 8 0.03
ACGTcount: A:0.19, C:0.24, G:0.29, T:0.28
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:107852618 original size:39 final size:39
Alignment explanation
Indices: 107852564--107852646 Score: 139
Period size: 39 Copynumber: 2.1 Consensus size: 39
107852554 AGCAGACTTA
*
107852564 GGGCTAAGTCCCGAAGGCATCCGTGCTGGTGTTATATCC
1 GGGCTAAGTCCCGAAGGCATCCGTGCTGGTATTATATCC
*
107852603 GGGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCC
1 GGGCTAAGTCCCGAAGGCATCCGTGCTGGTATTATATCC
*
107852642 TGGCT
1 GGGCT
107852647 TAAAGTCCTG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.18, C:0.24, G:0.30, T:0.28
Consensus pattern (39 bp):
GGGCTAAGTCCCGAAGGCATCCGTGCTGGTATTATATCC
Found at i:107852678 original size:142 final size:142
Alignment explanation
Indices: 107852422--107852705 Score: 541
Period size: 142 Copynumber: 2.0 Consensus size: 142
107852412 TGTTATATCC
*
107852422 GGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
1 GGGCTAAGTCCCGAAGGCATCCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
107852487 TGGTATTATATCCGGGCTTAAAGTCCCGCATGCTTTGTGGTGGTGATTTGATTTTGGTTTTAAAT
66 TGGTATTATATCCGGGCTTAAAGTCCCGCATGCTTTGTGGTGGTGATTTGATTTTGGTTTTAAAT
107852552 CTAGCAGACTTA
131 CTAGCAGACTTA
107852564 GGGCTAAGTCCCGAAGGCATCCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
1 GGGCTAAGTCCCGAAGGCATCCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
107852629 TGGTATTATATCCTGGCTTAAAGTCCTGCATGCTTTGTGGTGGTGATTTGATTTTGGTTTTAAAT
66 TGGTATTATATCCGGGCTTAAAGTCCCGCATGCTTTGTGGTGGTGATTTGATTTTGGTTTTAAAT
107852694 CTAGCAGACTTA
131 CTAGCAGACTTA
107852706 ATGCCGATGA
Statistics
Matches: 139, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
142 139 1.00
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (142 bp):
GGGCTAAGTCCCGAAGGCATCCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
TGGTATTATATCCGGGCTTAAAGTCCCGCATGCTTTGTGGTGGTGATTTGATTTTGGTTTTAAAT
CTAGCAGACTTA
Found at i:107859870 original size:2 final size:2
Alignment explanation
Indices: 107859863--107859887 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
107859853 ATAGTTCATG
107859863 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 T
107859888 GCGCCCACAC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:107860632 original size:34 final size:34
Alignment explanation
Indices: 107860565--107860633 Score: 104
Period size: 34 Copynumber: 2.0 Consensus size: 34
107860555 AGCCAGAGAT
*
107860565 GCATCAAATAAATACTAAATATGAAGAGAGATAG
1 GCATCAAATAAATACTAAATATGAAAAGAGATAG
*
107860599 GCATCAAATAGATACTAAATATGAAAATG-GATAG
1 GCATCAAATAAATACTAAATATGAAAA-GAGATAG
107860633 G
1 G
107860634 GAACTAGATC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 31 0.97
35 1 0.03
ACGTcount: A:0.51, C:0.09, G:0.19, T:0.22
Consensus pattern (34 bp):
GCATCAAATAAATACTAAATATGAAAAGAGATAG
Found at i:107862280 original size:51 final size:51
Alignment explanation
Indices: 107862221--107862321 Score: 184
Period size: 51 Copynumber: 2.0 Consensus size: 51
107862211 TCTTCCATCA
107862221 ATATTACCTCTCCCCATAGATCAACAATGTTTAGAAAAATAATCATATTCG
1 ATATTACCTCTCCCCATAGATCAACAATGTTTAGAAAAATAATCATATTCG
* *
107862272 ATATTACCTCTTCCCATAGATCAACAATGTTTAGAAAAATAATCGTATTC
1 ATATTACCTCTCCCCATAGATCAACAATGTTTAGAAAAATAATCATATTC
107862322 CAACTGTTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.33
Consensus pattern (51 bp):
ATATTACCTCTCCCCATAGATCAACAATGTTTAGAAAAATAATCATATTCG
Found at i:107869943 original size:114 final size:114
Alignment explanation
Indices: 107869743--107869954 Score: 352
Period size: 114 Copynumber: 1.9 Consensus size: 114
107869733 ATAATGGATC
* * *
107869743 AAATGCTTACCTTTTATGCTTCTTTGCTTCATGTTTAAGGCTTGCACCATAGATGACACCTACCA
1 AAATGCTTACCTTTAATGCTTATTTGCTTCATGGTTAAGGCTTGCACCATAGATGACACCTACCA
*
107869808 ACTCACATTTTGCTTGCTTATTTATTCCTCTTAGTCAAATTTGCCTATT
66 ACCCACATTTTGCTTGCTTATTTATTCCTCTTAGTCAAATTTGCCTATT
* * *
107869857 AAATGCTTACCTTTAATGCTTATTTGCTTCATGGTTAAGGTTTGGACCATAGCTGACACCTACCA
1 AAATGCTTACCTTTAATGCTTATTTGCTTCATGGTTAAGGCTTGCACCATAGATGACACCTACCA
*
107869922 ACCCCCATTTTGCTTGCTTATTTATTCCTCTTA
66 ACCCACATTTTGCTTGCTTATTTATTCCTCTTA
107869955 CTGAATTACA
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 90 1.00
ACGTcount: A:0.23, C:0.24, G:0.12, T:0.41
Consensus pattern (114 bp):
AAATGCTTACCTTTAATGCTTATTTGCTTCATGGTTAAGGCTTGCACCATAGATGACACCTACCA
ACCCACATTTTGCTTGCTTATTTATTCCTCTTAGTCAAATTTGCCTATT
Found at i:107875497 original size:17 final size:17
Alignment explanation
Indices: 107875475--107875509 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
107875465 ATTATGCCAA
107875475 ATTAAAGTATATAGACT
1 ATTAAAGTATATAGACT
107875492 ATTAAAGTATATAGACT
1 ATTAAAGTATATAGACT
107875509 A
1 A
107875510 AATCCCAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.34
Consensus pattern (17 bp):
ATTAAAGTATATAGACT
Found at i:107885863 original size:11 final size:11
Alignment explanation
Indices: 107885847--107885874 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
107885837 TTTGATTCGC
107885847 TTATATTATTT
1 TTATATTATTT
107885858 TTATATTATTT
1 TTATATTATTT
107885869 TTATAT
1 TTATAT
107885875 AAAAATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATATTATTT
Found at i:107886097 original size:36 final size:33
Alignment explanation
Indices: 107886029--107886113 Score: 80
Period size: 36 Copynumber: 2.5 Consensus size: 33
107886019 AAACAGTAGA
* * *
107886029 AAAATTAATAATAAAATAATATTTATACAATATCT
1 AAAA-TAACAATAAAATAATAGTAATACAATAT-T
* *
107886064 AAATAATAACAATAAAATAGTAGTAATATAATATT
1 -AA-AATAACAATAAAATAATAGTAATACAATATT
*
107886099 AAAATGACAATAAAA
1 AAAATAACAATAAAA
107886114 CAACATCAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
33 12 0.29
34 2 0.05
35 1 0.02
36 25 0.60
37 2 0.05
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.31
Consensus pattern (33 bp):
AAAATAACAATAAAATAATAGTAATACAATATT
Found at i:107886588 original size:17 final size:17
Alignment explanation
Indices: 107886568--107886604 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
107886558 GGTCAATACT
107886568 TTTATCTAAACTCTCAC
1 TTTATCTAAACTCTCAC
107886585 TTTATCTAAACTCTCAC
1 TTTATCTAAACTCTCAC
107886602 TTT
1 TTT
107886605 TCAGACGGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.46
Consensus pattern (17 bp):
TTTATCTAAACTCTCAC
Found at i:107891077 original size:18 final size:19
Alignment explanation
Indices: 107891035--107891076 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
107891025 TTTCATGTCA
* *
107891035 AAAAATATTTTAAAATTAT
1 AAAAATATTTAAAAAATAT
107891054 AAAAATATTTAAAAAATAT
1 AAAAATATTTAAAAAATAT
107891073 AAAA
1 AAAA
107891077 TTATAAAAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAATATTTAAAAAATAT
Found at i:107895074 original size:21 final size:21
Alignment explanation
Indices: 107895035--107895080 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
107895025 AGAAATTTTT
*
107895035 TTTCTTTTATGTTCTTTTAAC
1 TTTCTTTTATGTTCCTTTAAC
* * *
107895056 TTTCTTTTTTTTTCCTTTATC
1 TTTCTTTTATGTTCCTTTAAC
107895077 TTTC
1 TTTC
107895081 ATTCTCTTCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.09, C:0.17, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTCTTTTATGTTCCTTTAAC
Found at i:107895422 original size:31 final size:29
Alignment explanation
Indices: 107895384--107895455 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
107895374 TTAATGGCTC
*
107895384 AGTGACTAAAATATTACAACACGATAACATA
1 AGTGACTAAAATATAACAACAC-A-AACATA
* ***
107895415 AGTGACTAAAACATAACATTTCAAACATA
1 AGTGACTAAAATATAACAACACAAACATA
107895444 AGTGACTAAAAT
1 AGTGACTAAAAT
107895456 GTAATTTGAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 17 0.49
30 1 0.03
31 17 0.49
ACGTcount: A:0.51, C:0.15, G:0.10, T:0.24
Consensus pattern (29 bp):
AGTGACTAAAATATAACAACACAAACATA
Found at i:107898873 original size:9 final size:9
Alignment explanation
Indices: 107898861--107898928 Score: 100
Period size: 9 Copynumber: 7.6 Consensus size: 9
107898851 AAAAGTATAA
107898861 AATTAACCG
1 AATTAACCG
*
107898870 AATTAATCG
1 AATTAACCG
107898879 AATTAACCG
1 AATTAACCG
*
107898888 AATTACCCG
1 AATTAACCG
*
107898897 AATTACCCG
1 AATTAACCG
*
107898906 ATTTAACCG
1 AATTAACCG
107898915 AATTAACCG
1 AATTAACCG
107898924 AATTA
1 AATTA
107898929 TTTGTATAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 53 1.00
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:107900303 original size:31 final size:29
Alignment explanation
Indices: 107900243--107900303 Score: 70
Period size: 31 Copynumber: 2.0 Consensus size: 29
107900233 ATTATATAAA
* *
107900243 ATTAGTTAAATTTTAATTTTAGTTCTTAT
1 ATTAGTTAAATTTTAATTTGACTTCTTAT
107900272 ATTATGTTAAAATTTTAGATTTGACTT-TTAT
1 ATTA-GTT-AAATTTTA-ATTTGACTTCTTAT
107900303 A
1 A
107900304 CTTAATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 4 0.15
30 3 0.11
31 13 0.48
32 7 0.26
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (29 bp):
ATTAGTTAAATTTTAATTTGACTTCTTAT
Done.