Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 350 of 433
Found at i:110175695 original size:3 final size:3
Alignment explanation
Indices: 110175689--110175755 Score: 61
Period size: 3 Copynumber: 23.0 Consensus size: 3
110175679 AGCACAATTC
* *
110175689 TAA TAA TAA TAA -AA TAA -ATA TAA TAC TAA TAA CAA TAA TAA -AA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
*
110175732 TAA TAA TCA TAA TAAA TAA -AA TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA
110175756 ATAAAGAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
2 7 0.13
3 41 0.79
4 4 0.08
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:110175717 original size:26 final size:26
Alignment explanation
Indices: 110175688--110175758 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
110175678 AAGCACAATT
110175688 CTAATAATAATAAAATAAATATAATA
1 CTAATAATAATAAAATAAATATAATA
*
110175714 CTAATAACAAT--AATAAA-ATAATA
1 CTAATAATAATAAAATAAATATAATA
* *
110175737 ATCATAATAAATAAAATAAATA
1 CTAATAAT-AATAAAATAAATA
110175759 AAGAAAAGGG
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
23 11 0.30
24 9 0.24
26 16 0.43
27 1 0.03
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (26 bp):
CTAATAATAATAAAATAAATATAATA
Found at i:110175754 original size:29 final size:28
Alignment explanation
Indices: 110175693--110175760 Score: 68
Period size: 29 Copynumber: 2.3 Consensus size: 28
110175683 CAATTCTAAT
*
110175693 AATAATAAAATAAATATAATACTAATAAC
1 AATAATAAAATAAATATAATAC-AATAAA
110175722 AATAATAAAATAATAATCATAATA-AAT-AA
1 AATAATAAAAT-A-AAT-ATAATACAATAAA
110175751 AATAAATAAA
1 AAT-AATAAA
110175761 GAAAAGGGGA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
29 15 0.44
30 10 0.29
31 3 0.09
32 6 0.18
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.26
Consensus pattern (28 bp):
AATAATAAAATAAATATAATACAATAAA
Found at i:110178121 original size:46 final size:46
Alignment explanation
Indices: 110178060--110178179 Score: 206
Period size: 46 Copynumber: 2.6 Consensus size: 46
110178050 GGCATTCGAA
* *
110178060 CTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGCCTGAG
1 CTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACACCCGAG
110178106 CTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACACCCGAG
1 CTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACACCCGAG
110178152 CTCGTTGAGTTGA-TTCTGAGTTCACTTA
1 CTCGTTGAGTTGAGTTC-GAGTTCACTTA
110178180 GGGGCGGGTT
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
45 3 0.04
46 68 0.96
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.33
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACACCCGAG
Found at i:110178126 original size:93 final size:92
Alignment explanation
Indices: 110177959--110178128 Score: 252
Period size: 93 Copynumber: 1.8 Consensus size: 92
110177949 GGATGGTTGA
* * *
110177959 GCATCCGAACTCGTTGAGTTGAGTCTAGTTCACTTACGGATGCGAATGTTCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTACGGATGCGAACGCTCGAACTCGTTGAGTT
110178024 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
* * *
110178051 GCATTCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGC-CTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAG-TCGAGTTCACTTACGGATGCGAACGCTC-GAACTCGTTGAG
*
110178115 TTGAGTTCGAGTTC
64 TTGAGTCCGAGTTC
110178129 ACTTATGGAT
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
92 23 0.33
93 46 0.67
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTACGGATGCGAACGCTCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:110182671 original size:75 final size:75
Alignment explanation
Indices: 110182559--110182708 Score: 300
Period size: 75 Copynumber: 2.0 Consensus size: 75
110182549 TTTGTATGGT
110182559 GAAAAGTGCCGAGTATATACCGACCACAAAAGTCTTAAGTACTTGATGTCACAAAAGGACTTGAA
1 GAAAAGTGCCGAGTATATACCGACCACAAAAGTCTTAAGTACTTGATGTCACAAAAGGACTTGAA
110182624 TTTGAGACAG
66 TTTGAGACAG
110182634 GAAAAGTGCCGAGTATATACCGACCACAAAAGTCTTAAGTACTTGATGTCACAAAAGGACTTGAA
1 GAAAAGTGCCGAGTATATACCGACCACAAAAGTCTTAAGTACTTGATGTCACAAAAGGACTTGAA
110182699 TTTGAGACAG
66 TTTGAGACAG
110182709 CGAAGATGGT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (75 bp):
GAAAAGTGCCGAGTATATACCGACCACAAAAGTCTTAAGTACTTGATGTCACAAAAGGACTTGAA
TTTGAGACAG
Found at i:110185677 original size:46 final size:46
Alignment explanation
Indices: 110185626--110185750 Score: 178
Period size: 46 Copynumber: 2.7 Consensus size: 46
110185616 GGTTGAGCAT
* * *
110185626 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCTGAGTTCACTTACGGATGCAAATGC
* * *
110185672 TCGAACTTGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATGC
1 CCGAACTCGTTGAGTTGAGTCTGAGTTCACTTACGGATGCAAATGC
* *
110185718 CCGAGCTCGTTGAGTTGATTCTGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCTGAGTTCACTTA
110185751 GGGGCGGGTT
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCTGAGTTCACTTACGGATGCAAATGC
Found at i:110189800 original size:46 final size:44
Alignment explanation
Indices: 110189750--110189925 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 44
110189740 TGGTTGAGCA
110189750 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-G
* *** * *
110189796 TCCGAACTCGTTGAGTTGAGTCCGAATTCGAGAGATGTAACTAGGCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GGAAG
*
110189843 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-G
* *
110189889 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
110189926 GTGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 31 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (44 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAAG
Found at i:110195131 original size:39 final size:39
Alignment explanation
Indices: 110195074--110195165 Score: 132
Period size: 39 Copynumber: 2.4 Consensus size: 39
110195064 GACTTTAGGC
* * * *
110195074 CCGGATAT-CTTCCGGCACGTAGCCTGTGGACCTCAAGT
1 CCGGATATGTTTCCAGCACGTAGCCTGCGGAACTCAAGT
110195112 CCGGATATGTTTCCAGCACGTAGCCTGCGGAACTCAAGT
1 CCGGATATGTTTCCAGCACGTAGCCTGCGGAACTCAAGT
*
110195151 CCAGATATGTTTCCA
1 CCGGATATGTTTCCA
110195166 AATATCATGC
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
38 8 0.17
39 40 0.83
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATGTTTCCAGCACGTAGCCTGCGGAACTCAAGT
Found at i:110197304 original size:38 final size:38
Alignment explanation
Indices: 110197253--110197377 Score: 223
Period size: 38 Copynumber: 3.3 Consensus size: 38
110197243 AACTTTAGGC
* *
110197253 CCGGATATATTCCAGTACGTAGCCTGCGGACCTCAAGT
1 CCGGATATGTTCCAGCACGTAGCCTGCGGACCTCAAGT
*
110197291 CCGGATATGTTCCAGCATGTAGCCTGCGGACCTCAAGT
1 CCGGATATGTTCCAGCACGTAGCCTGCGGACCTCAAGT
110197329 CCGGATATGTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATGTTCCAGCACGTAGCCTGCGGACCTCAAGT
110197367 CCGGATATGTT
1 CCGGATATGTT
110197378 TCCAAATATC
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 83 1.00
ACGTcount: A:0.22, C:0.29, G:0.26, T:0.24
Consensus pattern (38 bp):
CCGGATATGTTCCAGCACGTAGCCTGCGGACCTCAAGT
Found at i:110201161 original size:21 final size:20
Alignment explanation
Indices: 110201127--110201171 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
110201117 ATTAGAATGT
110201127 AAAA-ATTAAATTAAAA-ACA
1 AAAATATTAAATTAAAATA-A
110201146 AAAATATTAGAATTAAAATAA
1 AAAATATTA-AATTAAAATAA
110201167 AAAAT
1 AAAAT
110201172 GGATATATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.17
20 4 0.17
21 14 0.61
22 1 0.04
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (20 bp):
AAAATATTAAATTAAAATAA
Found at i:110202721 original size:12 final size:13
Alignment explanation
Indices: 110202682--110202722 Score: 59
Period size: 12 Copynumber: 3.3 Consensus size: 13
110202672 ATTAATTGCT
*
110202682 ATAAGAAAATCTA
1 ATAATAAAATCTA
110202695 ATAAT-AAATCTA
1 ATAATAAAATCTA
110202707 ATAATAAAATC-A
1 ATAATAAAATCTA
110202719 ATAA
1 ATAA
110202723 CAATGATCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 17 0.65
13 9 0.35
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.27
Consensus pattern (13 bp):
ATAATAAAATCTA
Found at i:110211998 original size:38 final size:38
Alignment explanation
Indices: 110211947--110212023 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
110211937 CTTGAGCCTA
110211947 ACAAGCAATTCATTGATTTTCCCTCAATATTAACCCAT
1 ACAAGCAATTCATTGATTTTCCCTCAATATTAACCCAT
*
110211985 ACAAGCTATTCATTGATTTTCCCTCAATATTAACCCAT
1 ACAAGCAATTCATTGATTTTCCCTCAATATTAACCCAT
110212023 A
1 A
110212024 ACCCATTATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.35
Consensus pattern (38 bp):
ACAAGCAATTCATTGATTTTCCCTCAATATTAACCCAT
Found at i:110213871 original size:19 final size:19
Alignment explanation
Indices: 110213847--110213886 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
110213837 TAGTTTAGTT
110213847 AATTCATTTAGATTAAACA
1 AATTCATTTAGATTAAACA
110213866 AATTCATTTAGATTAAACA
1 AATTCATTTAGATTAAACA
110213885 AA
1 AA
110213887 CCCCTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.35
Consensus pattern (19 bp):
AATTCATTTAGATTAAACA
Found at i:110213894 original size:19 final size:19
Alignment explanation
Indices: 110213851--110213894 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
110213841 TTAGTTAATT
**
110213851 CATTTAGATTAAACAAATT
1 CATTTAGATTAAACAAACC
110213870 CATTTAGATTAAACAAACC
1 CATTTAGATTAAACAAACC
*
110213889 CCTTTA
1 CATTTA
110213895 TTTTTTAGGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.43, C:0.18, G:0.05, T:0.34
Consensus pattern (19 bp):
CATTTAGATTAAACAAACC
Found at i:110218495 original size:40 final size:40
Alignment explanation
Indices: 110218297--110218481 Score: 300
Period size: 40 Copynumber: 4.6 Consensus size: 40
110218287 GGATTGGTAC
* *
110218297 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
110218336 TCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
110218377 CCGGGCTAAGTCCCGAAGGCATTTTTGCGAGTTACTATCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
110218417 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
110218457 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
110218482 AGCTAGTAGC
Statistics
Matches: 134, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 133 0.99
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:110227198 original size:22 final size:22
Alignment explanation
Indices: 110227173--110227218 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
110227163 GGCATTACTA
110227173 AACTTATAACTCAGGTCAAAAC
1 AACTTATAACTCAGGTCAAAAC
110227195 AACTTATAACTCAGGTCAAAAC
1 AACTTATAACTCAGGTCAAAAC
110227217 AA
1 AA
110227219 TCATTTATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.48, C:0.22, G:0.09, T:0.22
Consensus pattern (22 bp):
AACTTATAACTCAGGTCAAAAC
Found at i:110227296 original size:24 final size:24
Alignment explanation
Indices: 110227268--110227318 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
110227258 CAATCACATT
110227268 CAATATGTACTTAAATCAAGCATA
1 CAATATGTACTTAAATCAAGCATA
110227292 CAATATGTACTTAAATCAAGCATA
1 CAATATGTACTTAAATCAAGCATA
110227316 CAA
1 CAA
110227319 GACTCTAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.47, C:0.18, G:0.08, T:0.27
Consensus pattern (24 bp):
CAATATGTACTTAAATCAAGCATA
Found at i:110227490 original size:42 final size:42
Alignment explanation
Indices: 110227383--110227479 Score: 167
Period size: 42 Copynumber: 2.3 Consensus size: 42
110227373 TTCAAATATC
*
110227383 ACACGCCCGTGTGAACAGGCCATGTGCCTCACACGGATTTAG
1 ACACGCCCGTGTGAACAGGCCATGTGCCTCACACGGAATTAG
*
110227425 ACATGCCCGTGTGAACAGGCCATGTGCCTCACACGGAATTAG
1 ACACGCCCGTGTGAACAGGCCATGTGCCTCACACGGAATTAG
*
110227467 ACACGCTCGTGTG
1 ACACGCCCGTGTG
110227480 TCTAGGCCAT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.24, C:0.30, G:0.27, T:0.20
Consensus pattern (42 bp):
ACACGCCCGTGTGAACAGGCCATGTGCCTCACACGGAATTAG
Found at i:110230679 original size:19 final size:18
Alignment explanation
Indices: 110230625--110230685 Score: 95
Period size: 18 Copynumber: 3.3 Consensus size: 18
110230615 TGTGGGTAGT
110230625 CCGTGTGGTCACACACGC
1 CCGTGTGGTCACACACGC
*
110230643 CCGTGCGGTCACACACGC
1 CCGTGTGGTCACACACGC
*
110230661 CCGTGTGGCTCAGACACGC
1 CCGTGTGG-TCACACACGC
110230680 CCGTGT
1 CCGTGT
110230686 CCTCAGCCCG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
18 24 0.62
19 15 0.38
ACGTcount: A:0.15, C:0.39, G:0.30, T:0.16
Consensus pattern (18 bp):
CCGTGTGGTCACACACGC
Found at i:110238370 original size:42 final size:42
Alignment explanation
Indices: 110238271--110238426 Score: 147
Period size: 43 Copynumber: 3.6 Consensus size: 42
110238261 AGTGCCAGCA
* * * *
110238271 TCCTAGAGATGGTCTTATATGTAATCAAATATCGATGCCACTG
1 TCCTAGACATGGTCTTACACGAAATCAAATA-CGATGCCACTG
* *
110238314 TCCTAAACAGGGTCTTACACGAAATCAAATACGATGCCGA-TG
1 TCCTAGACATGGTCTTACACGAAATCAAATACGATGCC-ACTG
* *
110238356 TCCCAGACATGGTCTTACACATAAATCTCAAAT-CGATGCCAACT-
1 TCCTAGACATGGTCTTACAC-GAAA--TCAAATACGATGCC-ACTG
* *
110238400 TCTTAGACGTGGTCTTACACGAAATCA
1 TCCTAGACATGGTCTTACACGAAATCA
110238427 CATATCGGAA
Statistics
Matches: 93, Mismatches: 15, Indels: 12
0.77 0.12 0.10
Matches are distributed among these distances:
41 3 0.03
42 26 0.28
43 32 0.34
44 25 0.27
45 7 0.08
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.27
Consensus pattern (42 bp):
TCCTAGACATGGTCTTACACGAAATCAAATACGATGCCACTG
Found at i:110238382 original size:43 final size:42
Alignment explanation
Indices: 110238293--110238426 Score: 114
Period size: 42 Copynumber: 3.1 Consensus size: 42
110238283 TCTTATATGT
*
110238293 AATCAAATATCGATGCCACTGTCCTAAACAGGGTCTTACACGA
1 AATCAAATA-CGATGCCACTGTCCCAAACAGGGTCTTACACGA
* * *
110238336 AATCAAATACGATGCCGA-TGTCCCAGACATGGTCTTACACATA
1 AATCAAATACGATGCC-ACTGTCCCAAACAGGGTCTTACAC-GA
** *
110238379 AATCTCAAAT-CGATGCCAACT-TCTTAGAC-GTGGTCTTACACGA
1 AA--TCAAATACGATGCC-ACTGTCCCAAACAG-GGTCTTACACGA
110238422 AATCA
1 AATCA
110238427 CATATCGGAA
Statistics
Matches: 76, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
41 3 0.04
42 26 0.34
43 16 0.21
44 24 0.32
45 7 0.09
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (42 bp):
AATCAAATACGATGCCACTGTCCCAAACAGGGTCTTACACGA
Found at i:110238481 original size:64 final size:64
Alignment explanation
Indices: 110238380--110238507 Score: 238
Period size: 64 Copynumber: 2.0 Consensus size: 64
110238370 TTACACATAA
*
110238380 ATCTCAAATCGATGCCAACTTCTTAGACGTGGTCTTACACGAAATCACATATCGGAATCCTATG
1 ATCTCAAATCGATGCCAACGTCTTAGACGTGGTCTTACACGAAATCACATATCGGAATCCTATG
*
110238444 ATCTCAAATCGATGCCAACGTCTTAGACGTGGTCTTACATGAAATCACATATCGGAATCCTATG
1 ATCTCAAATCGATGCCAACGTCTTAGACGTGGTCTTACACGAAATCACATATCGGAATCCTATG
110238508 TCATGACATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.28
Consensus pattern (64 bp):
ATCTCAAATCGATGCCAACGTCTTAGACGTGGTCTTACACGAAATCACATATCGGAATCCTATG
Found at i:110241899 original size:2 final size:2
Alignment explanation
Indices: 110241894--110241929 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
110241884 TGAAATTTGA
110241894 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
110241930 TTTATATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:110242516 original size:45 final size:45
Alignment explanation
Indices: 110242452--110242586 Score: 191
Period size: 45 Copynumber: 3.0 Consensus size: 45
110242442 ATTATCGTAC
* *
110242452 GACACTATTCGGGCCTTTGAGCCTAGCAAGCTATAATGCTGGTGA
1 GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
* *
110242497 GACACTATTTGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGA
1 GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
* * *
110242542 GATACTATTCGGG-CTTTCAAGCCTAACAGGCTATAATGCCGGTGA
1 GACACTATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGGTGA
110242587 AAGGATATCG
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
44 4 0.05
45 76 0.95
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (45 bp):
GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
Found at i:110242668 original size:85 final size:88
Alignment explanation
Indices: 110242507--110242671 Score: 207
Period size: 85 Copynumber: 1.9 Consensus size: 88
110242497 GACACTATTT
* *
110242507 GGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGATACTATTCGGGCTTTCAAGCCTAACAGG
1 GGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGATAC-ATTCGGGCTTTAAAACCTAACAGG
110242572 CTATAATGCCGGTGAAAGGATATC
65 CTATAATGCCGGTGAAAGGATATC
* * *
110242596 GGGCC-TTGGGCCTAGCAGG-TGA-AATGCCAGTGA-ATGA-ATTCGGGTTTTTAAAACCTACCA
1 GGGCCTTTGAGCCTAGCAGGCT-ATAATGCCAGTGAGAT-ACATTCGGG-CTTTAAAACCTAACA
110242656 GGCTA-AATGCCGGTGA
63 GGCTATAATGCCGGTGA
110242672 TTTGATGAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
85 18 0.26
86 18 0.26
87 13 0.19
88 14 0.21
89 5 0.07
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (88 bp):
GGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGATACATTCGGGCTTTAAAACCTAACAGGC
TATAATGCCGGTGAAAGGATATC
Found at i:110245192 original size:45 final size:46
Alignment explanation
Indices: 110245127--110245219 Score: 170
Period size: 45 Copynumber: 2.0 Consensus size: 46
110245117 AAAAAAAAGT
110245127 AAGAAAAAAACATAATAAGTAACAAATTAAGACTTTGAAGCCTAAA
1 AAGAAAAAAACATAATAAGTAACAAATTAAGACTTTGAAGCCTAAA
*
110245173 AAGAAAAAAA-ATAATAAGTAACAAATTAAGACTTTGAAGCCTGAA
1 AAGAAAAAAACATAATAAGTAACAAATTAAGACTTTGAAGCCTAAA
110245218 AA
1 AA
110245220 TACTCTGATA
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 36 0.78
46 10 0.22
ACGTcount: A:0.59, C:0.10, G:0.12, T:0.19
Consensus pattern (46 bp):
AAGAAAAAAACATAATAAGTAACAAATTAAGACTTTGAAGCCTAAA
Found at i:110248030 original size:40 final size:39
Alignment explanation
Indices: 110247967--110248052 Score: 109
Period size: 40 Copynumber: 2.2 Consensus size: 39
110247957 TAACGACTTA
**
110247967 TCGGCTAAAATGGCACTTAGTGTGCGGTTTGAAATAGCT
1 TCGGCTAAAATGGCACTTAGTGTGCAATTTGAAATAGCT
* * *
110248006 TCGGTTAAAAGTGGCACTTGGTGTGCAATTTGAGATAGCT
1 TCGGCTAAAA-TGGCACTTAGTGTGCAATTTGAAATAGCT
*
110248046 TTGGCTA
1 TCGGCTA
110248053 TATATATAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 9 0.23
40 30 0.77
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (39 bp):
TCGGCTAAAATGGCACTTAGTGTGCAATTTGAAATAGCT
Found at i:110248849 original size:15 final size:15
Alignment explanation
Indices: 110248829--110248858 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
110248819 TATATGTGAG
110248829 TCTAGTTTCAAGGAA
1 TCTAGTTTCAAGGAA
110248844 TCTAGTTTCAAGGAA
1 TCTAGTTTCAAGGAA
110248859 AATTAGCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (15 bp):
TCTAGTTTCAAGGAA
Found at i:110261441 original size:44 final size:43
Alignment explanation
Indices: 110261384--110261486 Score: 127
Period size: 44 Copynumber: 2.4 Consensus size: 43
110261374 GGTGCTGTTT
* * *
110261384 AAAAAATGCCGCTAAAGACTAGGAATTTTAGC-AGCGCTTTTCC
1 AAAAAACGCCGCTAAAGACCAAGAATTTTAGCGA-CGCTTTTCC
* **
110261427 AAACAAACGCCGCTAAAGACCAAGACTTTTAGCGACGCTTTTTT
1 AAA-AAACGCCGCTAAAGACCAAGAATTTTAGCGACGCTTTTCC
110261471 AAAAAACGCCGCTAAA
1 AAAAAACGCCGCTAAA
110261487 AAACGGGTCC
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
43 16 0.31
44 35 0.67
45 1 0.02
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.22
Consensus pattern (43 bp):
AAAAAACGCCGCTAAAGACCAAGAATTTTAGCGACGCTTTTCC
Found at i:110261503 original size:43 final size:43
Alignment explanation
Indices: 110261456--110261571 Score: 189
Period size: 43 Copynumber: 2.7 Consensus size: 43
110261446 CCAAGACTTT
* *
110261456 TAGCGACGCTTTTTTAAAAAACGCCGCTAAAAA-ACGGGTCCTC
1 TAGCGGCGCTTTTTTAAAAAACGCCGCTAAAAATA-GGGACCTC
110261499 TAGCGGCGCTTTTTTAAAAAACGCCGCTAAAAATAGGGACCTC
1 TAGCGGCGCTTTTTTAAAAAACGCCGCTAAAAATAGGGACCTC
*
110261542 TAGCGGCGCTTTTCTAAAAAACGCCGCTAA
1 TAGCGGCGCTTTTTTAAAAAACGCCGCTAA
110261572 TTTGCCCAGT
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
43 68 0.99
44 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (43 bp):
TAGCGGCGCTTTTTTAAAAAACGCCGCTAAAAATAGGGACCTC
Found at i:110261527 original size:86 final size:87
Alignment explanation
Indices: 110261412--110261571 Score: 207
Period size: 86 Copynumber: 1.9 Consensus size: 87
110261402 CTAGGAATTT
* * * *
110261412 TAGCAGCGCTTTTCCAAACAAACGCCGCTAAAGACCA-AGACTTTTAGCGACGCTTTTTTAAAAA
1 TAGCAGCGCTTTTCCAAACAAACGCCGCTAAA-AACAGAGACCTCTAGCGACGCTTTTCTAAAAA
110261476 ACGCCGCTAAAAAACGGGTCCTC
65 ACGCCGCTAAAAAACGGGTCCTC
* ** * * *
110261499 TAGCGGCGCTTTTTTAAA-AAACGCCGCTAAAAATAGGGACCTCTAGCGGCGCTTTTCTAAAAAA
1 TAGCAGCGCTTTTCCAAACAAACGCCGCTAAAAACAGAGACCTCTAGCGACGCTTTTCTAAAAAA
110261563 CGCCGCTAA
66 CGCCGCTAA
110261572 TTTGCCCAGT
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
85 2 0.03
86 45 0.73
87 15 0.24
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.23
Consensus pattern (87 bp):
TAGCAGCGCTTTTCCAAACAAACGCCGCTAAAAACAGAGACCTCTAGCGACGCTTTTCTAAAAAA
CGCCGCTAAAAAACGGGTCCTC
Found at i:110267447 original size:9 final size:9
Alignment explanation
Indices: 110267433--110267620 Score: 133
Period size: 9 Copynumber: 19.6 Consensus size: 9
110267423 ATGTATTAGT
110267433 TAAGTTATG
1 TAAGTTATG
110267442 TAAGTTGTTATG
1 TAA---GTTATG
*
110267454 TACGTTATG
1 TAAGTTATG
* *
110267463 TGAGTTTTG
1 TAAGTTATG
*
110267472 TAAATTATG
1 TAAGTTATG
110267481 TAAGTTATG
1 TAAGTTATG
*
110267490 TGAGTTATG
1 TAAGTTATG
110267499 TAAGTTGTTATG
1 TAA---GTTATG
*
110267511 TAAATTATG
1 TAAGTTATG
110267520 TAAGTTATG
1 TAAGTTATG
*
110267529 TGAGTTATG
1 TAAGTTATG
110267538 TAAGTTGTTATG
1 TAA---GTTATG
* *
110267550 TAAATTACG
1 TAAGTTATG
110267559 TAAGTTATG
1 TAAGTTATG
**
110267568 TGGGTTATG
1 TAAGTTATG
110267577 TAAGTTGTTATG
1 TAA---GTTATG
* *
110267589 TAAATTACG
1 TAAGTTATG
110267598 TAAGTTATG
1 TAAGTTATG
* *
110267607 TAATTTATT
1 TAAGTTATG
110267616 TAAGT
1 TAAGT
110267621 AATGATCAAT
Statistics
Matches: 138, Mismatches: 29, Indels: 24
0.72 0.15 0.13
Matches are distributed among these distances:
9 103 0.75
12 35 0.25
ACGTcount: A:0.30, C:0.02, G:0.22, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:110267537 original size:57 final size:57
Alignment explanation
Indices: 110267435--110267543 Score: 164
Period size: 57 Copynumber: 1.9 Consensus size: 57
110267425 GTATTAGTTA
** * *
110267435 AGTTATGTAAGTTGTTATGTACGTTATGTGAGTTTTGTAAATTATGTAAGTTATGTG
1 AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATGTAAATTATGTAAGTTATGTG
* *
110267492 AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
1 AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATGTAAATTATGTAAGTT
110267544 GTTATGTAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 46 1.00
ACGTcount: A:0.28, C:0.01, G:0.24, T:0.47
Consensus pattern (57 bp):
AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATGTAAATTATGTAAGTTATGTG
Found at i:110267600 original size:21 final size:21
Alignment explanation
Indices: 110267437--110267603 Score: 142
Period size: 21 Copynumber: 8.5 Consensus size: 21
110267427 ATTAGTTAAG
**
110267437 TTATGTAAGTTGTTATGTACG
1 TTATGTAAGTTGTTATGTAAA
*
110267458 TTATGTGAG-T-TT-TGTAAA
1 TTATGTAAGTTGTTATGTAAA
* *
110267476 TTATGTAA---GTTATGTGAG
1 TTATGTAAGTTGTTATGTAAA
110267494 TTATGTAAGTTGTTATGTAAA
1 TTATGTAAGTTGTTATGTAAA
* *
110267515 TTATGTAA---GTTATGTGAG
1 TTATGTAAGTTGTTATGTAAA
110267533 TTATGTAAGTTGTTATGTAAA
1 TTATGTAAGTTGTTATGTAAA
* ***
110267554 TTACGTAA---GTTATGTGGG
1 TTATGTAAGTTGTTATGTAAA
110267572 TTATGTAAGTTGTTATGTAAA
1 TTATGTAAGTTGTTATGTAAA
*
110267593 TTACGTAAGTT
1 TTATGTAAGTT
110267604 ATGTAATTTA
Statistics
Matches: 114, Mismatches: 21, Indels: 22
0.73 0.13 0.14
Matches are distributed among these distances:
17 2 0.02
18 53 0.46
19 2 0.02
20 1 0.01
21 56 0.49
ACGTcount: A:0.29, C:0.02, G:0.23, T:0.46
Consensus pattern (21 bp):
TTATGTAAGTTGTTATGTAAA
Found at i:110267620 original size:39 final size:39
Alignment explanation
Indices: 110267470--110267607 Score: 249
Period size: 39 Copynumber: 3.5 Consensus size: 39
110267460 ATGTGAGTTT
*
110267470 TGTAAATTATGTAAGTTATGTGAGTTATGTAAGTTGTTA
1 TGTAAATTACGTAAGTTATGTGAGTTATGTAAGTTGTTA
*
110267509 TGTAAATTATGTAAGTTATGTGAGTTATGTAAGTTGTTA
1 TGTAAATTACGTAAGTTATGTGAGTTATGTAAGTTGTTA
*
110267548 TGTAAATTACGTAAGTTATGTGGGTTATGTAAGTTGTTA
1 TGTAAATTACGTAAGTTATGTGAGTTATGTAAGTTGTTA
110267587 TGTAAATTACGTAAGTTATGT
1 TGTAAATTACGTAAGTTATGT
110267608 AATTTATTTA
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 97 1.00
ACGTcount: A:0.30, C:0.01, G:0.23, T:0.45
Consensus pattern (39 bp):
TGTAAATTACGTAAGTTATGTGAGTTATGTAAGTTGTTA
Found at i:110267620 original size:78 final size:78
Alignment explanation
Indices: 110267448--110267620 Score: 253
Period size: 78 Copynumber: 2.3 Consensus size: 78
110267438 TATGTAAGTT
* * *
110267448 GTTATGTACGTTATGTGAG-T-TT-TGTAAATTATGTAAGTTATGTGAGTTATGTAAGTTGTTAT
1 GTTATGTAAGTTATGTAAGTTGTTATGTAAATTACGTAAGTTATGTGAGTTATGTAAGTTGTTAT
*
110267510 GTAAATTATGTAA
66 GTAAATTACGTAA
* *
110267523 GTTATGTGAGTTATGTAAGTTGTTATGTAAATTACGTAAGTTATGTGGGTTATGTAAGTTGTTAT
1 GTTATGTAAGTTATGTAAGTTGTTATGTAAATTACGTAAGTTATGTGAGTTATGTAAGTTGTTAT
110267588 GTAAATTACGTAA
66 GTAAATTACGTAA
* *
110267601 GTTATGTAATTTATTTAAGT
1 GTTATGTAAGTTATGTAAGT
110267621 AATGATCAAT
Statistics
Matches: 86, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
75 16 0.19
76 1 0.01
77 2 0.02
78 67 0.78
ACGTcount: A:0.29, C:0.02, G:0.23, T:0.46
Consensus pattern (78 bp):
GTTATGTAAGTTATGTAAGTTGTTATGTAAATTACGTAAGTTATGTGAGTTATGTAAGTTGTTAT
GTAAATTACGTAA
Found at i:110268224 original size:241 final size:241
Alignment explanation
Indices: 110267801--110268287 Score: 911
Period size: 241 Copynumber: 2.0 Consensus size: 241
110267791 TTAAGGTTAT
110267801 ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTCCAAGTCTTTTTGAATTTTTTAAGAT
1 ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTCCAAGTCTTTTTGAATTTTTTAAGAT
*
110267866 TCATCATATGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAACTCGATATAAGGCA
66 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAACTCGATATAAGGCA
*
110267931 ACCCGTCAGGTTTCTAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
131 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
* *
110267996 GGTCAGCTATTGTTGTAATTTTAATGGATAAGCAAGCTACATGGTA
196 GGTCAGCTATTGTTATAATTTTAATGGACAAGCAAGCTACATGGTA
* *
110268042 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGAT
1 ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTCCAAGTCTTTTTGAATTTTTTAAGAT
*
110268107 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
66 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAACTCGATATAAGGCA
110268172 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
131 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
110268237 GGTCAGCTATTGTTATAATTTTAATGGACAAGCAAGCTACATGGTA
196 GGTCAGCTATTGTTATAATTTTAATGGACAAGCAAGCTACATGGTA
110268283 ATAAA
1 ATAAA
110268288 ATTAATTCAT
Statistics
Matches: 239, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
241 239 1.00
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (241 bp):
ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTCCAAGTCTTTTTGAATTTTTTAAGAT
TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAACTCGATATAAGGCA
ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
GGTCAGCTATTGTTATAATTTTAATGGACAAGCAAGCTACATGGTA
Found at i:110273503 original size:28 final size:27
Alignment explanation
Indices: 110273451--110273503 Score: 63
Period size: 27 Copynumber: 1.9 Consensus size: 27
110273441 GGTCTCTCTA
* *
110273451 ATATATTTAAATTTTTGATTTATTTGC
1 ATATATTTAAATTTTTAATTCATTTGC
110273478 ATATACTTT-AATTTTTAATATCATTT
1 ATATA-TTTAAATTTTTAAT-TCATTT
110273504 AGTCTATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
27 14 0.64
28 8 0.36
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (27 bp):
ATATATTTAAATTTTTAATTCATTTGC
Found at i:110273689 original size:14 final size:14
Alignment explanation
Indices: 110273670--110273704 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
110273660 CATTAATATC
110273670 TATATATATATCAA
1 TATATATATATCAA
*
110273684 TATATATATATCCA
1 TATATATATATCAA
110273698 TATATAT
1 TATATAT
110273705 GAAATTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.46
Consensus pattern (14 bp):
TATATATATATCAA
Found at i:110273700 original size:12 final size:12
Alignment explanation
Indices: 110273665--110273704 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
110273655 TTTTACATTA
110273665 ATATCTATATAT
1 ATATCTATATAT
110273677 ATATCAATATATAT
1 ATATC--TATATAT
*
110273691 ATATCCATATAT
1 ATATCTATATAT
110273703 AT
1 AT
110273705 GAAATTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 13 0.52
14 12 0.48
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (12 bp):
ATATCTATATAT
Found at i:110281727 original size:126 final size:126
Alignment explanation
Indices: 110281529--110282045 Score: 731
Period size: 126 Copynumber: 4.1 Consensus size: 126
110281519 ATAAAAAAAA
* * * * *
110281529 TTCTACAGTAGTTTTTGAAACAATAAATTTGAGAAGACGTTTCTGAACAAATAGTGCCAAAAACG
1 TTCTA-AGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACG
*
110281594 CTTCAAGCAGGATGCACTGTCAGCAAAAGTATTAAAAAAAAGCTTC-CACGTGGACGCGTTTT
65 CTTCAAGCAGGATGCACTGTCAGCAAAAGTACT-AAAAAAAGCTTCTCACGTGGACGCGTTTT
* **
110281656 TCCT-AGTAGTTTCTGAAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAATA
1 TTCTAAGTAGTTTCTG-AAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACG
* * *
110281720 CTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGC-TCCCACGTGGACGTGTTTT
65 CTTCAAGCAGGATGCACTGTCAGCAAAAGTACTAAAAAAAGCTTCTCACGTGGACGCGTTTT
*
110281781 TTCTACAGTAGTTTCTAAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACG
1 TTCTA-AGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACG
* * *
110281846 CTTCAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAAAG-TTCTTACGTGGATGCGTTTT
65 CTTCAAGCAGGATGCACTGTCAGCAAAAGTACTAAAAAAAGCTTCTCACGTGGACGCGTTTT
* *
110281907 TTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGATATATCTGAACAAATAGTGTCAAAAACG
1 TTCTA-AGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACG
* * * *
110281972 CTTCAAGCAGGATGAACTCTCAGCAAAATTACTGAAAAAAGC-TCTCACGTGGACGC-TCTTT
65 CTTCAAGCAGGATGCACTGTCAGCAAAAGTACTAAAAAAAGCTTCTCACGTGGACGCGT-TTT
110282033 TTCTACAGTAGTT
1 TTCTA-AGTAGTT
110282046 CCCATTTGGC
Statistics
Matches: 354, Mismatches: 29, Indels: 15
0.89 0.07 0.04
Matches are distributed among these distances:
124 2 0.01
125 38 0.11
126 301 0.85
127 13 0.04
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (126 bp):
TTCTAAGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGC
TTCAAGCAGGATGCACTGTCAGCAAAAGTACTAAAAAAAGCTTCTCACGTGGACGCGTTTT
Found at i:110284893 original size:46 final size:45
Alignment explanation
Indices: 110284792--110284953 Score: 168
Period size: 46 Copynumber: 3.5 Consensus size: 45
110284782 TCCCAAGGTA
* *
110284792 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTAG
1 CCGATGCCATGTCCCAGACAT-GTCTTACACTGACTA-CGTCTC-AAG
* * *
110284840 CCAATG-CATGTCCCAGACATGTCTTACACTGGCTTACGCCTCAAGG
1 CCGATGCCATGTCCCAGACATGTCTTACACTGAC-TACGTCTCAA-G
* *
110284886 CCGATG-CATGTCCTAGACATGTCTTACACTAGCCCT-CGTCTCAATG
1 CCGATGCCATGTCCCAGACATGTCTTACACT-G-ACTACGTCTCAA-G
110284932 CCGATGCCATGTCCCAGACATG
1 CCGATGCCATGTCCCAGACATG
110284954 GCATTGGCAC
Statistics
Matches: 98, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
45 1 0.01
46 59 0.60
47 32 0.33
48 6 0.06
ACGTcount: A:0.23, C:0.33, G:0.19, T:0.25
Consensus pattern (45 bp):
CCGATGCCATGTCCCAGACATGTCTTACACTGACTACGTCTCAAG
Found at i:110285926 original size:28 final size:28
Alignment explanation
Indices: 110285894--110285958 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
110285884 TAGGAACTAA
*
110285894 GACATGGGCGTGTCATAGCCGTGTGAGG
1 GACATGGGCGTATCATAGCCGTGTGAGG
*
110285922 GACATGGGCGTATCATGGCCGTGTGAGG
1 GACATGGGCGTATCATAGCCGTGTGAGG
*
110285950 GACACGGGC
1 GACATGGGC
110285959 TATTGACACG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.18, C:0.20, G:0.43, T:0.18
Consensus pattern (28 bp):
GACATGGGCGTATCATAGCCGTGTGAGG
Found at i:110287217 original size:14 final size:15
Alignment explanation
Indices: 110287200--110287308 Score: 85
Period size: 18 Copynumber: 6.4 Consensus size: 15
110287190 ATAATCTTCA
110287200 ATATG-CAATCTTAG
1 ATATGACAATCTTAG
110287214 ATATGATACAATCTTAG
1 ATATG--ACAATCTTAG
110287231 ATATGATTGCAATCTTAG
1 ATATGA---CAATCTTAG
110287249 ATATGATATGCAATCTTAG
1 ATATG--A--CAATCTTAG
110287268 ATATGATACAATCTTAG
1 ATATG--ACAATCTTAG
110287285 ATATGATTGCAATCTTAG
1 ATATGA---CAATCTTAG
110287303 ATATGA
1 ATATGA
110287309 TATGCAATCT
Statistics
Matches: 84, Mismatches: 0, Indels: 18
0.82 0.00 0.18
Matches are distributed among these distances:
14 5 0.06
15 2 0.02
17 28 0.33
18 29 0.35
19 19 0.23
20 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.37
Consensus pattern (15 bp):
ATATGACAATCTTAG
Found at i:110287227 original size:17 final size:17
Alignment explanation
Indices: 110287205--110287322 Score: 164
Period size: 17 Copynumber: 6.6 Consensus size: 17
110287195 CTTCAATATG
110287205 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
*
110287222 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
110287240 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
110287257 TGCAATCTTAGATATGATA
1 --CAATCTTAGATATGATA
*
110287276 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
110287294 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
110287311 TGCAATCTTAGA
1 --CAATCTTAGA
110287323 AGATATGATT
Statistics
Matches: 91, Mismatches: 4, Indels: 10
0.87 0.04 0.10
Matches are distributed among these distances:
17 32 0.35
18 32 0.35
19 27 0.30
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.36
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:110287248 original size:35 final size:35
Alignment explanation
Indices: 110287203--110287322 Score: 179
Period size: 35 Copynumber: 3.3 Consensus size: 35
110287193 ATCTTCAATA
110287203 TGCAATCTTAGATATGATACAATCTTAGATATGAT
1 TGCAATCTTAGATATGATACAATCTTAGATATGAT
110287238 TGCAATCTTAGATATGATATGCAATCTTAGATATGA-
1 TGCAATCTTAGATATGATA--CAATCTTAGATATGAT
* *
110287274 TACAATCTTAGATATGATTGCAATCTTAGATATGAT
1 TGCAATCTTAGATATGA-TACAATCTTAGATATGAT
110287310 ATGCAATCTTAGA
1 -TGCAATCTTAGA
110287323 AGATATGATT
Statistics
Matches: 77, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
35 34 0.44
36 16 0.21
37 27 0.35
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (35 bp):
TGCAATCTTAGATATGATACAATCTTAGATATGAT
Found at i:110287259 original size:54 final size:54
Alignment explanation
Indices: 110287200--110287322 Score: 246
Period size: 54 Copynumber: 2.3 Consensus size: 54
110287190 ATAATCTTCA
110287200 ATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGATATG
1 ATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGATATG
110287254 ATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGATATG
1 ATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGATATG
110287308 ATATGCAATCTTAGA
1 ATATGCAATCTTAGA
110287323 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 69 1.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (54 bp):
ATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGATATG
Found at i:110287329 original size:17 final size:19
Alignment explanation
Indices: 110287200--110287322 Score: 204
Period size: 19 Copynumber: 6.8 Consensus size: 19
110287190 ATAATCTTCA
110287200 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
110287219 ATA--CAATCTTAGATATG
1 ATATGCAATCTTAGATATG
110287236 AT-TGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
110287254 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
110287273 ATA--CAATCTTAGATATG
1 ATATGCAATCTTAGATATG
110287290 AT-TGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
110287308 ATATGCAATCTTAGA
1 ATATGCAATCTTAGA
110287323 AGATATGATT
Statistics
Matches: 98, Mismatches: 0, Indels: 12
0.89 0.00 0.11
Matches are distributed among these distances:
17 32 0.33
18 32 0.33
19 34 0.35
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:110287348 original size:22 final size:22
Alignment explanation
Indices: 110287200--110287345 Score: 97
Period size: 17 Copynumber: 7.7 Consensus size: 22
110287190 ATAATCTTCA
110287200 ATATGCAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
110287219 ATA--CAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
110287236 AT-TGCAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
110287254 ATATGCAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
110287273 ATA--CAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
110287290 AT-TGCAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
110287308 ATATGCAATCTTAGAAGATATG
1 ATATGCAATCTTAGAAGATATG
* *
110287330 ATTTTGTAATCTTAGA
1 A-TATGCAATCTTAGA
110287346 GATTTAATTT
Statistics
Matches: 115, Mismatches: 2, Indels: 16
0.86 0.02 0.12
Matches are distributed among these distances:
17 32 0.28
18 32 0.28
19 31 0.27
22 8 0.07
23 12 0.10
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (22 bp):
ATATGCAATCTTAGAAGATATG
Found at i:110287355 original size:22 final size:22
Alignment explanation
Indices: 110287314--110287359 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
110287304 TATGATATGC
*
110287314 AATCTTAGAAGATATGATTTTGT
1 AATCTTAGAAGATAT-AATTTGT
*
110287337 AATCTTAG-AGATTTAATTTGT
1 AATCTTAGAAGATATAATTTGT
110287358 AA
1 AA
110287360 ATACCTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.38
22 5 0.24
23 8 0.38
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.43
Consensus pattern (22 bp):
AATCTTAGAAGATATAATTTGT
Found at i:110287358 original size:21 final size:23
Alignment explanation
Indices: 110287301--110287359 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
110287291 TTGCAATCTT
* *
110287301 AGATATG-ATATGCAATCTTAGA
1 AGATATGAATTTGTAATCTTAGA
*
110287323 AGATATGATTTTGTAATCTTAG-
1 AGATATGAATTTGTAATCTTAGA
*
110287345 AGAT-TTAATTTGTAA
1 AGATATGAATTTGTAA
110287360 ATACCTTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 9 0.29
22 11 0.35
23 11 0.35
ACGTcount: A:0.37, C:0.05, G:0.17, T:0.41
Consensus pattern (23 bp):
AGATATGAATTTGTAATCTTAGA
Found at i:110294068 original size:8 final size:7
Alignment explanation
Indices: 110294055--110294105 Score: 50
Period size: 7 Copynumber: 6.9 Consensus size: 7
110294045 CTATTTCAAA
110294055 AAAAAAGG
1 AAAAAA-G
110294063 AAAAAAG
1 AAAAAAG
*
110294070 AAAAGAAA
1 AAAA-AAG
110294078 AAGAGAAAG
1 AA-A-AAAG
110294087 -AAAAAG
1 AAAAAAG
110294093 AAAAAAG
1 AAAAAAG
110294100 AAAAAA
1 AAAAAA
110294106 TGGAGAGGCC
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
6 4 0.11
7 18 0.49
8 11 0.30
9 3 0.08
10 1 0.03
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:110294073 original size:6 final size:6
Alignment explanation
Indices: 110294064--110294104 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
110294054 AAAAAAAGGA
*
110294064 AAAAAG -AAAAG AAAAAG AGAAAG AAAAAG AAAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG -AAAAAG AAAAA
110294105 ATGGAGAGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 5 0.16
6 20 0.65
7 6 0.19
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:110294077 original size:12 final size:12
Alignment explanation
Indices: 110294052--110294105 Score: 58
Period size: 11 Copynumber: 4.5 Consensus size: 12
110294042 CTTCTATTTC
*
110294052 AAAAAA-AAAGG
1 AAAAAAGAAAAG
110294063 AAAAAAGAAAAG
1 AAAAAAGAAAAG
110294075 -AAAAAGAGAAAG
1 AAAAAAGA-AAAG
*
110294087 AAAAAGAAAAAAG
1 AAAAA-AGAAAAG
110294100 AAAAAA
1 AAAAAA
110294106 TGGAGAGGCC
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
11 13 0.35
12 9 0.24
13 13 0.35
14 2 0.05
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAAG
Found at i:110294078 original size:18 final size:18
Alignment explanation
Indices: 110294064--110294104 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
110294054 AAAAAAAGGA
110294064 AAAAAG-AAAAGAAAAAG
1 AAAAAGAAAAAGAAAAAG
*
110294081 AGAAAGAAAAAGAAAAAAG
1 AAAAAGAAAAAG-AAAAAG
110294100 AAAAA
1 AAAAA
110294105 ATGGAGAGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 5 0.25
18 5 0.25
19 10 0.50
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAAGAAAAAG
Found at i:110294099 original size:13 final size:13
Alignment explanation
Indices: 110294055--110294104 Score: 59
Period size: 12 Copynumber: 3.9 Consensus size: 13
110294045 CTATTTCAAA
110294055 AAAAAAGGAAAAA-
1 AAAAAA-GAAAAAG
*
110294068 AGAAAAGAAAAAG
1 AAAAAAGAAAAAG
*
110294081 -AGAAAGAAAAAG
1 AAAAAAGAAAAAG
110294093 AAAAAAGAAAAA
1 AAAAAAGAAAAA
110294105 ATGGAGAGGC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
12 16 0.52
13 15 0.48
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:110295156 original size:44 final size:44
Alignment explanation
Indices: 110295063--110295404 Score: 356
Period size: 44 Copynumber: 7.8 Consensus size: 44
110295053 AATCCAAGAT
* ** * * *
110295063 GATTTGGCGTCTCTGTATTGTAAG-GAGCAGGTCAAAGATGACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
*
110295106 GATTTGGCATCTCTGTATTGGCAGAGAACAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
* *
110295150 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGAGATAACT
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCG-A-AGATAACA
* * * ** * *
110295196 GATTTGGCTTTCACGTGT-TTACGTTGA-AGCAAATCCAAGAT----
1 GATTTGGC-ATCTC-TGTATT-GGCAGAGAGCAGATCGAAGATAACA
* *
110295237 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
* *
110295281 AATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
* * *
110295325 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGACAGCA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
* * *
110295369 AATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGA
110295405 GGACATAGCT
Statistics
Matches: 250, Mismatches: 37, Indels: 23
0.81 0.12 0.07
Matches are distributed among these distances:
39 5 0.02
40 17 0.07
41 8 0.03
43 21 0.08
44 161 0.64
45 5 0.02
46 16 0.06
47 12 0.05
48 5 0.02
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (44 bp):
GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
Found at i:110295338 original size:175 final size:174
Alignment explanation
Indices: 110295048--110295363 Score: 542
Period size: 175 Copynumber: 1.8 Consensus size: 174
110295038 ATTTACACTA
* * *
110295048 AAGCAAATCCAAGATGATTTGGCGTCTCTGTATTGTAAGGAGCAGGTCAAAGATGACAGATTTGG
1 AAGCAAATCCAAGATGATTTGGCGTCTCTGTATTGTAAGGAGCAGATCAAAGATAACAAATTTGG
* *
110295113 CATCTCTGTATTGGCAGAGAACAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGCAGGGAG
66 CATCTCTGTATTGGCAGAGAACAGATCAAAGATAACAGATTTGGCATCTCTGTATTGGCAGAGAG
*
110295178 CAGATCGAAGAGATAACTGATTTGGCTTTCACGTGTTTACGTTG
131 CAGATCAAAGAGATAACTGATTTGGCTTTCACGTGTTTACGTTG
* *
110295222 AAGCAAATCCAAGATGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAACAAATTTG
1 AAGCAAATCCAAGATGATTTGGCGTCTCTGTATTGTAAG-GAGCAGATCAAAGATAACAAATTTG
*
110295287 GCATCTCTGTATTGGCAGAGAGCAGATCAAAGATAACAGATTTGGCATCTCTGTATTGGCAGAGA
65 GCATCTCTGTATTGGCAGAGAACAGATCAAAGATAACAGATTTGGCATCTCTGTATTGGCAGAGA
110295352 GCAGATCAAAGA
130 GCAGATCAAAGA
110295364 CAGCAAATTT
Statistics
Matches: 132, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
174 38 0.29
175 94 0.71
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.27
Consensus pattern (174 bp):
AAGCAAATCCAAGATGATTTGGCGTCTCTGTATTGTAAGGAGCAGATCAAAGATAACAAATTTGG
CATCTCTGTATTGGCAGAGAACAGATCAAAGATAACAGATTTGGCATCTCTGTATTGGCAGAGAG
CAGATCAAAGAGATAACTGATTTGGCTTTCACGTGTTTACGTTG
Found at i:110295482 original size:87 final size:87
Alignment explanation
Indices: 110295370--110295619 Score: 419
Period size: 87 Copynumber: 2.9 Consensus size: 87
110295360 AAGACAGCAA
110295370 ATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAGGACATAGCTGATTTGGCTTTCACGTGTTT
1 ATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAGGACATAGCTGATTTGGCTTTCACGTGTTT
110295435 ACGTTGAAGCAAATCTAAGATG
66 ACGTTGAAGCAAATCTAAGATG
* * * * *
110295457 ATTTGGCGTCTTTGTATTAGTAGGGAGCATATCGAAGACATAGCTGATTTGGCTTTCACGTGTTT
1 ATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAGGACATAGCTGATTTGGCTTTCACGTGTTT
*
110295522 ACATTGAAGCAAATCTAAGATG
66 ACGTTGAAGCAAATCTAAGATG
* * *
110295544 ATTTGGTGTCTCTGTATTGGCAGGAAGCAGATCGAGGACATAGCTGATTTGGTTTTCACGTGTTT
1 ATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAGGACATAGCTGATTTGGCTTTCACGTGTTT
110295609 ACGTTGAAGCA
66 ACGTTGAAGCA
110295620 CGTGTTTACG
Statistics
Matches: 148, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 148 1.00
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (87 bp):
ATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAGGACATAGCTGATTTGGCTTTCACGTGTTT
ACGTTGAAGCAAATCTAAGATG
Found at i:110295493 original size:219 final size:218
Alignment explanation
Indices: 110295064--110295494 Score: 675
Period size: 219 Copynumber: 2.0 Consensus size: 218
110295054 ATCCAAGATG
* * * *
110295064 ATTTGGCGTCTCTGTATTGTAAGGAGCAGGTCAAAGATGACAGATTTGGCATCTCTGTATTGGCA
1 ATTTGGCATCTCTGTATTGGAAGGAGCAGATCAAAGATAACAGATTTGGCATCTCTGTATTGGCA
* * * *
110295129 GAGAACAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGAGATAA
66 GAGAACAGATCAAAGACAACAAATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGACATAA
110295194 CTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCCAAGATGATTTGGCGTCTCTGTATTGTC
131 CTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCCAAGATGATTTGGCGTCTCTGTATTGTC
110295259 AGAGAGCAGATCGAAGATAACAA
196 AGAGAGCAGATCGAAGATAACAA
*
110295282 ATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATAACAGATTTGGCATCTCTGTATTGGC
1 ATTTGGCATCTCTGTATTGGAAG-GAGCAGATCAAAGATAACAGATTTGGCATCTCTGTATTGGC
* * * *
110295347 AGAGAGCAGATCAAAGACAGCAAATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAGGACATA
65 AGAGAACAGATCAAAGACAACAAATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGACATA
* * *
110295412 GCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCGTCTTTGTATTAG
130 ACTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCCAAGATGATTTGGCGTCTCTGTATT-G
* *
110295477 T-AGGGAGCATATCGAAGA
194 TCAGAGAGCAGATCGAAGA
110295495 CATAGCTGAT
Statistics
Matches: 193, Mismatches: 18, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
218 20 0.10
219 171 0.89
220 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (218 bp):
ATTTGGCATCTCTGTATTGGAAGGAGCAGATCAAAGATAACAGATTTGGCATCTCTGTATTGGCA
GAGAACAGATCAAAGACAACAAATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGACATAA
CTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCCAAGATGATTTGGCGTCTCTGTATTGTC
AGAGAGCAGATCGAAGATAACAA
Found at i:110295623 original size:18 final size:18
Alignment explanation
Indices: 110295600--110295637 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
110295590 ATTTGGTTTT
110295600 CACGTGTTTACGTTGAAG
1 CACGTGTTTACGTTGAAG
110295618 CACGTGTTTACGTTGAAG
1 CACGTGTTTACGTTGAAG
110295636 CA
1 CA
110295638 AATCTAAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (18 bp):
CACGTGTTTACGTTGAAG
Found at i:110295695 original size:105 final size:105
Alignment explanation
Indices: 110295513--110295724 Score: 334
Period size: 105 Copynumber: 2.0 Consensus size: 105
110295503 ATTTGGCTTT
* *
110295513 CACGTGTTTACATTGAAGCAAATCTAAGATGATTTGGTGTCTCTGTATTGGCAGGAAGCAGATCG
1 CACGTGTTTACATTGAAGCAAATCTAAGATGATTTAGCGTCTCTGTATTGGCAGGAAGCAGATCG
* * *
110295578 AGGACATAGCTGATTTGGTTTTCACGTGTTTACGTTGAAG
66 AAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAG
* * * * *
110295618 CACGTGTTTACGTTGAAGCAAATCTAAGATGGTTTAGCGTCTTTGTATTGGCAGGGAGCAGATTG
1 CACGTGTTTACATTGAAGCAAATCTAAGATGATTTAGCGTCTCTGTATTGGCAGGAAGCAGATCG
110295683 AAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAG
66 AAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAG
110295723 CA
1 CA
110295725 AATCTAAGAT
Statistics
Matches: 97, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
105 97 1.00
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (105 bp):
CACGTGTTTACATTGAAGCAAATCTAAGATGATTTAGCGTCTCTGTATTGGCAGGAAGCAGATCG
AAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAG
Found at i:110296366 original size:14 final size:15
Alignment explanation
Indices: 110296349--110296457 Score: 85
Period size: 18 Copynumber: 6.4 Consensus size: 15
110296339 ATAATCTTCA
110296349 ATATG-CAATCTTAG
1 ATATGACAATCTTAG
110296363 ATATGATACAATCTTAG
1 ATATG--ACAATCTTAG
110296380 ATATGATTGCAATCTTAG
1 ATATGA---CAATCTTAG
110296398 ATATGATATGCAATCTTAG
1 ATATG--A--CAATCTTAG
110296417 ATATGATACAATCTTAG
1 ATATG--ACAATCTTAG
110296434 ATATGATTGCAATCTTAG
1 ATATGA---CAATCTTAG
110296452 ATATGA
1 ATATGA
110296458 TATGCAATCT
Statistics
Matches: 84, Mismatches: 0, Indels: 18
0.82 0.00 0.18
Matches are distributed among these distances:
14 5 0.06
15 2 0.02
17 28 0.33
18 29 0.35
19 19 0.23
20 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.37
Consensus pattern (15 bp):
ATATGACAATCTTAG
Found at i:110296376 original size:17 final size:17
Alignment explanation
Indices: 110296354--110296471 Score: 164
Period size: 17 Copynumber: 6.6 Consensus size: 17
110296344 CTTCAATATG
110296354 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
*
110296371 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
110296389 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
110296406 TGCAATCTTAGATATGATA
1 --CAATCTTAGATATGATA
*
110296425 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
110296443 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
110296460 TGCAATCTTAGA
1 --CAATCTTAGA
110296472 AGATATGATT
Statistics
Matches: 91, Mismatches: 4, Indels: 10
0.87 0.04 0.10
Matches are distributed among these distances:
17 32 0.35
18 32 0.35
19 27 0.30
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.36
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:110296397 original size:35 final size:35
Alignment explanation
Indices: 110296352--110296471 Score: 179
Period size: 35 Copynumber: 3.3 Consensus size: 35
110296342 ATCTTCAATA
110296352 TGCAATCTTAGATATGATACAATCTTAGATATGAT
1 TGCAATCTTAGATATGATACAATCTTAGATATGAT
110296387 TGCAATCTTAGATATGATATGCAATCTTAGATATGA-
1 TGCAATCTTAGATATGATA--CAATCTTAGATATGAT
* *
110296423 TACAATCTTAGATATGATTGCAATCTTAGATATGAT
1 TGCAATCTTAGATATGA-TACAATCTTAGATATGAT
110296459 ATGCAATCTTAGA
1 -TGCAATCTTAGA
110296472 AGATATGATT
Statistics
Matches: 77, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
35 34 0.44
36 16 0.21
37 27 0.35
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (35 bp):
TGCAATCTTAGATATGATACAATCTTAGATATGAT
Found at i:110296408 original size:54 final size:54
Alignment explanation
Indices: 110296349--110296471 Score: 246
Period size: 54 Copynumber: 2.3 Consensus size: 54
110296339 ATAATCTTCA
110296349 ATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGATATG
1 ATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGATATG
110296403 ATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGATATG
1 ATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGATATG
110296457 ATATGCAATCTTAGA
1 ATATGCAATCTTAGA
110296472 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 69 1.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (54 bp):
ATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGATATG
Found at i:110296478 original size:17 final size:19
Alignment explanation
Indices: 110296349--110296471 Score: 204
Period size: 19 Copynumber: 6.8 Consensus size: 19
110296339 ATAATCTTCA
110296349 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
110296368 ATA--CAATCTTAGATATG
1 ATATGCAATCTTAGATATG
110296385 AT-TGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
110296403 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
110296422 ATA--CAATCTTAGATATG
1 ATATGCAATCTTAGATATG
110296439 AT-TGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
110296457 ATATGCAATCTTAGA
1 ATATGCAATCTTAGA
110296472 AGATATGATT
Statistics
Matches: 98, Mismatches: 0, Indels: 12
0.89 0.00 0.11
Matches are distributed among these distances:
17 32 0.33
18 32 0.33
19 34 0.35
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:110296497 original size:22 final size:22
Alignment explanation
Indices: 110296349--110296494 Score: 97
Period size: 17 Copynumber: 7.7 Consensus size: 22
110296339 ATAATCTTCA
110296349 ATATGCAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
110296368 ATA--CAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
110296385 AT-TGCAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
110296403 ATATGCAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
110296422 ATA--CAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
110296439 AT-TGCAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
110296457 ATATGCAATCTTAGAAGATATG
1 ATATGCAATCTTAGAAGATATG
* *
110296479 ATTTTGTAATCTTAGA
1 A-TATGCAATCTTAGA
110296495 GATTTAATTT
Statistics
Matches: 115, Mismatches: 2, Indels: 16
0.86 0.02 0.12
Matches are distributed among these distances:
17 32 0.28
18 32 0.28
19 31 0.27
22 8 0.07
23 12 0.10
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (22 bp):
ATATGCAATCTTAGAAGATATG
Found at i:110296504 original size:22 final size:22
Alignment explanation
Indices: 110296463--110296508 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
110296453 TATGATATGC
*
110296463 AATCTTAGAAGATATGATTTTGT
1 AATCTTAGAAGATAT-AATTTGT
*
110296486 AATCTTAG-AGATTTAATTTGT
1 AATCTTAGAAGATATAATTTGT
110296507 AA
1 AA
110296509 ATACCTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.38
22 5 0.24
23 8 0.38
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.43
Consensus pattern (22 bp):
AATCTTAGAAGATATAATTTGT
Found at i:110296507 original size:21 final size:23
Alignment explanation
Indices: 110296450--110296508 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
110296440 TTGCAATCTT
* *
110296450 AGATATG-ATATGCAATCTTAGA
1 AGATATGAATTTGTAATCTTAGA
*
110296472 AGATATGATTTTGTAATCTTAG-
1 AGATATGAATTTGTAATCTTAGA
*
110296494 AGAT-TTAATTTGTAA
1 AGATATGAATTTGTAA
110296509 ATACCTTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 9 0.29
22 11 0.35
23 11 0.35
ACGTcount: A:0.37, C:0.05, G:0.17, T:0.41
Consensus pattern (23 bp):
AGATATGAATTTGTAATCTTAGA
Found at i:110299341 original size:47 final size:49
Alignment explanation
Indices: 110299269--110299498 Score: 239
Period size: 47 Copynumber: 4.9 Consensus size: 49
110299259 TGGGGTAAGG
* *
110299269 TGCCGATGCCATATCCCAAACATGGTCTTACACTGGCTCAT-ATCTC-A
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAA
* * *
110299316 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTC-G
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAA
* * *
110299363 TAGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTA-CGTCTCGA
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAA
* * * * *
110299410 GGCAGATG-CATGTCCCAGACAT-GTATTACACTAGCAC-TCATCTCAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAA
* *
110299456 TGCCAATGCCATGTCCTAGACATGGTCTTACACTGGCTC-TCAT
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAT
110299499 AATGTGGCCG
Statistics
Matches: 152, Mismatches: 24, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
46 62 0.41
47 68 0.45
48 22 0.14
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (49 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAA
Found at i:110299408 original size:46 final size:48
Alignment explanation
Indices: 110299270--110299534 Score: 216
Period size: 47 Copynumber: 5.7 Consensus size: 48
110299260 GGGGTAAGGT
* * * * *
110299270 GCCGATGCCATATCCCAAACATGGTCTTACACTGGCTCATATCTCAT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGTA
* *
110299317 GTCGATGCCATGTCCCAGACATGGTCTTACACTGAC-TATCATCTCGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTA-CATCTCGTA
*
110299365 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCG-A
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGTA
* * * * *
110299410 GGCAGATG-CATGTCCCAGACAT-GTATTACACTAGCACT-CATCTC-AA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TTACATCTCGTA
* * * *
110299456 TGCCAATGCCATGTCCTAGACATGGTCTTACACTGGCTCT-CATAAT-GTG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TACAT-CTCGTA
*
110299505 GCCGAT-ACATGT-CCAGACAT-GTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
110299535 AGCTCACAAT
Statistics
Matches: 179, Mismatches: 28, Indels: 24
0.77 0.12 0.10
Matches are distributed among these distances:
45 11 0.06
46 68 0.38
47 73 0.41
48 26 0.15
49 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGTA
Found at i:110301066 original size:148 final size:148
Alignment explanation
Indices: 110300798--110301090 Score: 451
Period size: 148 Copynumber: 2.0 Consensus size: 148
110300788 ATTAAAAATA
* * *
110300798 TAAAAATATTCAAAATATTGCCTTATTTAAAATAACTTCTATTGTATTAAAAATATAAAAGTAAA
1 TAAAAATATTAAAAATATTGCCTTATTCAAAAGAACTTCTATTGTATTAAAAATATAAAAGTAAA
*** * * *
110300863 TTACAATTACTTTATTCAAAACAACTTTTATTTTATTAAATGGAACAATATAAAAAAGTTTGTAC
66 TTACAATTAAAATATTAAAAACAACTTTTATTTTATTAAATGAAACAATATAAAAAAGTTTATAC
*
110300928 AAATATATTAAAAAATTT
131 AAATATATAAAAAAATTT
* ** * *
110300946 TAAAAATTTTAAAAATATTGGTTTATTCAAAAGAACTTTTATTTTATTAAAAATATAAAAGTAAA
1 TAAAAATATTAAAAATATTGCCTTATTCAAAAGAACTTCTATTGTATTAAAAATATAAAAGTAAA
110301011 TTACAATTAAAATATTAAAAACAACTTTTATTTTATTAAATGAAACAATATAAAAAAGTTTATAC
66 TTACAATTAAAATATTAAAAACAACTTTTATTTTATTAAATGAAACAATATAAAAAAGTTTATAC
110301076 AAATATATAAAAAAA
131 AAATATATAAAAAAA
110301091 ATCAATGTTG
Statistics
Matches: 130, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
148 130 1.00
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (148 bp):
TAAAAATATTAAAAATATTGCCTTATTCAAAAGAACTTCTATTGTATTAAAAATATAAAAGTAAA
TTACAATTAAAATATTAAAAACAACTTTTATTTTATTAAATGAAACAATATAAAAAAGTTTATAC
AAATATATAAAAAAATTT
Found at i:110304050 original size:17 final size:17
Alignment explanation
Indices: 110304006--110304053 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
110303996 ACGAAATATT
* *
110304006 TGACTGTTATTGAATTAC
1 TGACTGTTACTG-ATGAC
* *
110304024 TGATTATTACTGATGAC
1 TGACTGTTACTGATGAC
110304041 TGACTGTTACTGA
1 TGACTGTTACTGA
110304054 AATGGATAAG
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (17 bp):
TGACTGTTACTGATGAC
Found at i:110305468 original size:7 final size:7
Alignment explanation
Indices: 110305458--110305483 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
110305448 TTATATACAT
110305458 AATACTA
1 AATACTA
110305465 AATACTA
1 AATACTA
110305472 AATACTA
1 AATACTA
110305479 AATAC
1 AATAC
110305484 GAATCGACTA
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:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:110306676 original size:11 final size:11
Alignment explanation
Indices: 110306642--110306677 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
110306632 TAAAGAGAGC
*
110306642 TTTGAGAGAAA
1 TTTGAGAGAAT
110306653 TTTGAGAGAAT
1 TTTGAGAGAAT
*
110306664 TTTGAGAGGAT
1 TTTGAGAGAAT
110306675 TTT
1 TTT
110306678 TGTGTAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.33, C:0.00, G:0.28, T:0.39
Consensus pattern (11 bp):
TTTGAGAGAAT
Found at i:110307101 original size:44 final size:44
Alignment explanation
Indices: 110307052--110307139 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
110307042 AAAACAAAGT
*
110307052 TAATTTTGAAGGTGCTTGGTAAGGATAAAAAATGAGAGAGCAGA
1 TAATTTTGAAGGTGCTTGGTAAGGATAAAAAAAGAGAGAGCAGA
* *
110307096 TAATTTTGAATGTGCTTGGTAAGGGTAAAAAAAGAGAGAGCAGA
1 TAATTTTGAAGGTGCTTGGTAAGGATAAAAAAAGAGAGAGCAGA
110307140 GAGACAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.41, C:0.05, G:0.30, T:0.25
Consensus pattern (44 bp):
TAATTTTGAAGGTGCTTGGTAAGGATAAAAAAAGAGAGAGCAGA
Found at i:110307163 original size:2 final size:2
Alignment explanation
Indices: 110307158--110307190 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
110307148 AAAAAAAGAA
110307158 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
110307191 AAAGAGAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:110312709 original size:52 final size:50
Alignment explanation
Indices: 110312592--110312768 Score: 203
Period size: 51 Copynumber: 3.5 Consensus size: 50
110312582 GGATACCCGA
* * * * * *
110312592 TGGCCTGCATATAGTACCACTCTTGTAGTCAAAGCTACCTTCTTCACAAAG
1 TGGCCTTCACATAGTAACACACTTGT-GACAAAGCTATCTTCTTCACAAAG
* * * *
110312643 TGGCTTTCATATAGTACCATACTTGTGAACAAAGCTATCTTTCTTCACAAAG
1 TGGCCTTCACATAGTAACACACTTGTG-ACAAAGCTATC-TTCTTCACAAAG
* * *
110312695 TGGCCTTCACATAGTATCACACTTGTGACCAAGCTATC-TCTTCTCAAAG
1 TGGCCTTCACATAGTAACACACTTGTGACAAAGCTATCTTCTTCACAAAG
110312744 TGGCCTTCACATAGTAACACACTTG
1 TGGCCTTCACATAGTAACACACTTG
110312769 AGTCACTAGT
Statistics
Matches: 111, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
49 34 0.31
50 1 0.01
51 41 0.37
52 35 0.32
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (50 bp):
TGGCCTTCACATAGTAACACACTTGTGACAAAGCTATCTTCTTCACAAAG
Found at i:110312750 original size:49 final size:51
Alignment explanation
Indices: 110312621--110312768 Score: 201
Period size: 52 Copynumber: 2.9 Consensus size: 51
110312611 CTCTTGTAGT
* * * * *
110312621 CAAAGCTACCTTCTTCACAAAGTGGCTTTCATATAGTACCATACTTGTGAA
1 CAAAGCTATCTTCTTCACAAAGTGGCCTTCACATAGTAACACACTTGTGAA
*
110312672 CAAAGCTATCTTTCTTCACAAAGTGGCCTTCACATAGTATCACACTTGTG-A
1 CAAAGCTATC-TTCTTCACAAAGTGGCCTTCACATAGTAACACACTTGTGAA
* *
110312723 CCAAGCTATC-TCTTCTCAAAGTGGCCTTCACATAGTAACACACTTG
1 CAAAGCTATCTTCTTCACAAAGTGGCCTTCACATAGTAACACACTTG
110312769 AGTCACTAGT
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
49 34 0.39
51 19 0.22
52 35 0.40
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (51 bp):
CAAAGCTATCTTCTTCACAAAGTGGCCTTCACATAGTAACACACTTGTGAA
Found at i:110313331 original size:21 final size:21
Alignment explanation
Indices: 110313307--110313352 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
110313297 ATCATTTAGT
*
110313307 AAAAGTTGTTTATCACACCCC
1 AAAAGTTGTTTATCACACCAC
*
110313328 AAAAGTTGTTTATTACACCAC
1 AAAAGTTGTTTATCACACCAC
110313349 AAAA
1 AAAA
110313353 TTTTATATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (21 bp):
AAAAGTTGTTTATCACACCAC
Found at i:110314992 original size:63 final size:62
Alignment explanation
Indices: 110314925--110315053 Score: 167
Period size: 63 Copynumber: 2.0 Consensus size: 62
110314915 TTTAGGTCAT
*
110314925 TTTTTATTTT-TTTTTCATTTTGGAGAAAACCA-CATTCATTTTTCAAAT-TATT-CTATTTCTC
1 TTTTTATTTTATTTTT--TTTTGGAGAAAACCATAATT-A-TTTTCAAATGT-TTCCTATTTCTC
110314986 CA
61 CA
110314988 TTTTTATTTTCATTTTTTTTTGGAGAAAACCATAATTATTTTCAAATGTTTCCTATTTCTCCA
1 TTTTTATTTT-ATTTTTTTTTGGAGAAAACCATAATTATTTTCAAATGTTTCCTATTTCTCCA
110315051 TTT
1 TTT
110315054 CACCATTTCT
Statistics
Matches: 60, Mismatches: 1, Indels: 10
0.85 0.01 0.14
Matches are distributed among these distances:
62 11 0.18
63 41 0.68
64 3 0.05
65 5 0.08
ACGTcount: A:0.25, C:0.15, G:0.05, T:0.55
Consensus pattern (62 bp):
TTTTTATTTTATTTTTTTTTGGAGAAAACCATAATTATTTTCAAATGTTTCCTATTTCTCCA
Found at i:110320076 original size:19 final size:18
Alignment explanation
Indices: 110320017--110320081 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 18
110320007 TTTAAGTTTG
*
110320017 ATTAGATTTTAGATTTAA
1 ATTAAATTTTAGATTTAA
** *
110320035 ATTAGGTTTTTAGATTCTTA
1 ATTA-AATTTTAGATT-TAA
110320055 ATTAAATTTTAGATATTAA
1 ATTAAATTTTAGAT-TTAA
*
110320074 ATTCAATT
1 ATTAAATT
110320082 AGATGTTTAG
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
18 4 0.11
19 27 0.71
20 7 0.18
ACGTcount: A:0.37, C:0.03, G:0.09, T:0.51
Consensus pattern (18 bp):
ATTAAATTTTAGATTTAA
Found at i:110324718 original size:22 final size:21
Alignment explanation
Indices: 110324683--110324812 Score: 68
Period size: 19 Copynumber: 6.7 Consensus size: 21
110324673 AAAAGGTATC
* *
110324683 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
110324704 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
110324727 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
110324746 TGC-AATCATAT-T-TAAGAT
1 TACAAATCATATCTCTAAGAT
**
110324764 T--GTATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
110324781 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
110324800 TGC-AATCATATCT
1 TACAAATCATATCT
110324813 AAGATTGTAT
Statistics
Matches: 92, Mismatches: 8, Indels: 19
0.77 0.07 0.16
Matches are distributed among these distances:
16 1 0.01
17 13 0.14
18 19 0.21
19 30 0.33
20 1 0.01
21 3 0.03
22 15 0.16
23 10 0.11
ACGTcount: A:0.39, C:0.15, G:0.08, T:0.37
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:110324726 original size:23 final size:22
Alignment explanation
Indices: 110324683--110324740 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
110324673 AAAAGGTATC
* *
110324683 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
110324704 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
110324727 TGCATATCATATCT
1 TACAAATCATATCT
110324741 AAGATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:110324743 original size:19 final size:19
Alignment explanation
Indices: 110324719--110324841 Score: 195
Period size: 19 Copynumber: 6.8 Consensus size: 19
110324709 AATCATATCT
110324719 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
110324738 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
*
110324756 TTTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
110324773 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
110324792 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
110324810 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
110324827 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
110324842 TGAAGATTAT
Statistics
Matches: 96, Mismatches: 2, Indels: 12
0.87 0.02 0.11
Matches are distributed among these distances:
17 31 0.32
18 31 0.32
19 34 0.35
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:110324787 original size:54 final size:54
Alignment explanation
Indices: 110324719--110324841 Score: 237
Period size: 54 Copynumber: 2.3 Consensus size: 54
110324709 AATCATATCT
*
110324719 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATTTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
110324773 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
110324827 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
110324842 TGAAGATTAT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
54 68 1.00
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (54 bp):
TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
Found at i:110324838 original size:35 final size:36
Alignment explanation
Indices: 110324719--110324838 Score: 181
Period size: 35 Copynumber: 3.3 Consensus size: 36
110324709 AATCATATCT
*
110324719 TCTAAGATTGCATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGCA-ATCATATCTAAGATTGCTATCATA
* *
110324756 TTTAAGATTG-TATCATATCTAAGATTGCATATCATA
1 TCTAAGATTGCAATCATATCTAAGATTGC-TATCATA
110324792 TCTAAGATTGCAATCATATCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATATCTAAGATTGCTATCATA
110324827 TCTAAGATTGCA
1 TCTAAGATTGCA
110324839 TATTGAAGAT
Statistics
Matches: 76, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
35 36 0.47
36 15 0.20
37 25 0.33
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.38
Consensus pattern (36 bp):
TCTAAGATTGCAATCATATCTAAGATTGCTATCATA
Found at i:110325495 original size:41 final size:40
Alignment explanation
Indices: 110325450--110325583 Score: 92
Period size: 47 Copynumber: 3.1 Consensus size: 40
110325440 CAGAGACGCT
110325450 AAATCATCTTAGATTTGCTTCAACATAAACACGTGAAAGCC
1 AAATCATCTTAGATTTGCTTCAACATAAACACGTGAAA-CC
* * * ** * * *
110325491 AAATCAGCTATGTCTTCGATCTGCTCCCTGCCA-ATACA-GAGACACC
1 AAAT---C-A--TCTTAGATTTGCT-TC-AACATAAACACGTGAAACC
110325537 AAATCATCTTAGATTTGCTTCAACATAAACACGTGAAAACC
1 AAATCATCTTAGATTTGCTTCAACATAAACACGTG-AAACC
110325578 AAATCA
1 AAATCA
110325584 GCTATGTCCT
Statistics
Matches: 66, Mismatches: 16, Indels: 22
0.63 0.15 0.21
Matches are distributed among these distances:
38 2 0.03
39 5 0.08
40 13 0.20
41 14 0.21
42 1 0.02
43 1 0.02
44 1 0.02
45 1 0.02
46 6 0.09
47 15 0.23
48 5 0.08
49 2 0.03
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.25
Consensus pattern (40 bp):
AAATCATCTTAGATTTGCTTCAACATAAACACGTGAAACC
Found at i:110325562 original size:87 final size:87
Alignment explanation
Indices: 110325416--110325889 Score: 797
Period size: 87 Copynumber: 5.4 Consensus size: 87
110325406 AGATCTGTTA
* ** * * *
110325416 TCTTCGATCTGCTCTCTAACAACACAGAGACGCTAAATCATCTTAGATTTGCTTCAACATAAACA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
110325481 CGTGAAAGCCAAATCAGCTATG
66 CGTGAAAGCCAAATCAGCTATG
* *
110325503 TCTTCGATCTGCTCCCTGCCAATACAGAGACACCAAATCATCTTAGATTTGCTTCAACATAAACA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
*
110325568 CGTGAAAACCAAATCAGCTATG
66 CGTGAAAGCCAAATCAGCTATG
*
110325590 TCCTT-GATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTTAACGTAAAC
1 T-CTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAAC
*
110325654 ACGTAAAAGCCAAATCAGCTATG
65 ACGTGAAAGCCAAATCAGCTATG
*
110325677 TCTTCGATCTGCTCCCTACCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
110325742 CGTGAAAGCCAAATCAGCTATG
66 CGTGAAAGCCAAATCAGCTATG
* *
110325764 TCTTCGATCTGCTCCCTGCCAATACAGAGACACCAAATCATCTTAGATTTGTTTCAACGTAAACA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
110325829 CGTGAAAGCCAAATCAGCTATG
66 CGTGAAAGCCAAATCAGCTATG
*
110325851 TCCTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATC
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATC
110325890 TGCTGTCTTC
Statistics
Matches: 365, Mismatches: 20, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
86 3 0.01
87 359 0.98
88 3 0.01
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (87 bp):
TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
CGTGAAAGCCAAATCAGCTATG
Found at i:110325905 original size:44 final size:44
Alignment explanation
Indices: 110325854--110326195 Score: 349
Period size: 44 Copynumber: 7.8 Consensus size: 44
110325844 AGCTATGTCC
* * *
110325854 TCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCTGCTGTCT
1 TCGATCTGCTCCCTGCCAATACAGAGATGCCAAATCTGTTATCT
* ** *
110325898 TCGATCTGCTCTCTGCCAATGTAGAGATGCCAAATTTGTTATCT
1 TCGATCTGCTCCCTGCCAATACAGAGATGCCAAATCTGTTATCT
**
110325942 TCGATCTGCTCTTTGCCAATACAGAGATGCCAAATCTGTTATCT
1 TCGATCTGCTCCCTGCCAATACAGAGATGCCAAATCTGTTATCT
* * *
110325986 TCGATCTGCT-CTTGACAATACAGAGACGCCAAATC----ATCT
1 TCGATCTGCTCCCTGCCAATACAGAGATGCCAAATCTGTTATCT
* * * * * * *
110326025 TGGATTTGCTTCAAC-G-TAA-ACACGTAAAAGCCAAATCAGTTATGTCT
1 TCGATCTGC-TC-CCTGCCAATACA-G-AGATGCCAAATCTGTTA--TCT
*
110326072 TCGATCTGCTCCCTGCCAATACAGAGATACCAAATCTGTTATCT
1 TCGATCTGCTCCCTGCCAATACAGAGATGCCAAATCTGTTATCT
* * * *
110326116 TCGATCTGCTCTCTGCCAATATAGAGATGCAAAATCTGTCATCT
1 TCGATCTGCTCCCTGCCAATACAGAGATGCCAAATCTGTTATCT
*
110326160 TCGATCTGCTCCCTGACAATACAGAGATGCCAAATC
1 TCGATCTGCTCCCTGCCAATACAGAGATGCCAAATC
110326196 ATCTTGGATC
Statistics
Matches: 246, Mismatches: 38, Indels: 28
0.79 0.12 0.09
Matches are distributed among these distances:
39 14 0.06
40 4 0.02
41 11 0.04
43 22 0.09
44 161 0.65
45 2 0.01
46 16 0.07
47 13 0.05
48 3 0.01
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (44 bp):
TCGATCTGCTCCCTGCCAATACAGAGATGCCAAATCTGTTATCT
Found at i:110326007 original size:218 final size:219
Alignment explanation
Indices: 110325764--110326195 Score: 686
Period size: 218 Copynumber: 2.0 Consensus size: 219
110325754 ATCAGCTATG
* *
110325764 TCTTCGATCTGCTCCCTGCCAATACAGAGACACCAAATCATCTTAGATTTGTTTCAACGTAAACA
1 TCTTCGATCTGCTCCCTGACAATACAGAGACACCAAATCATCTTAGATTTGCTTCAACGTAAACA
* *
110325829 CGTGAAAGCCAAATCAGCTATGTCCTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCTGCT
66 CGTAAAAGCCAAATCAGCTATGTCCTCGATCTGCTCCCTGCCAATACAGAGACACCAAATCTGCT
* * * * * ** *
110325894 GTCTTCGATCTGCTCTCTGCCAATGTAGAGATGCCAAATTTGTTATCTTCGATCTGCTCTTTGCC
131 ATCTTCGATCTGCTCTCTGCCAATATAGAGATGCAAAATCTGTCATCTTCGATCTGCTCCCTGAC
110325959 AATACAGAGATGCCAAATCTGTTA
196 AATACAGAGATGCCAAATCTGTTA
* * *
110325983 TCTTCGATCTGCT-CTTGACAATACAGAGACGCCAAATCATCTTGGATTTGCTTCAACGTAAACA
1 TCTTCGATCTGCTCCCTGACAATACAGAGACACCAAATCATCTTAGATTTGCTTCAACGTAAACA
* * * *
110326047 CGTAAAAGCCAAATCAGTTATGTCTTCGATCTGCTCCCTGCCAATACAGAGATACCAAATCTGTT
66 CGTAAAAGCCAAATCAGCTATGTCCTCGATCTGCTCCCTGCCAATACAGAGACACCAAATCTGCT
110326112 ATCTTCGATCTGCTCTCTGCCAATATAGAGATGCAAAATCTGTCATCTTCGATCTGCTCCCTGAC
131 ATCTTCGATCTGCTCTCTGCCAATATAGAGATGCAAAATCTGTCATCTTCGATCTGCTCCCTGAC
110326177 AATACAGAGATGCCAAATC
196 AATACAGAGATGCCAAATC
110326196 ATCTTGGATC
Statistics
Matches: 194, Mismatches: 19, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
218 181 0.93
219 13 0.07
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (219 bp):
TCTTCGATCTGCTCCCTGACAATACAGAGACACCAAATCATCTTAGATTTGCTTCAACGTAAACA
CGTAAAAGCCAAATCAGCTATGTCCTCGATCTGCTCCCTGCCAATACAGAGACACCAAATCTGCT
ATCTTCGATCTGCTCTCTGCCAATATAGAGATGCAAAATCTGTCATCTTCGATCTGCTCCCTGAC
AATACAGAGATGCCAAATCTGTTA
Found at i:110327183 original size:20 final size:21
Alignment explanation
Indices: 110327160--110327201 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
110327150 TCACCTTGGC
110327160 CTCTCTATT-TTTTCTTT-TTT
1 CTCT-TATTCTTTTCTTTATTT
*
110327180 CTCTTTTTCTTTTCTTTATTT
1 CTCTTATTCTTTTCTTTATTT
110327201 C
1 C
110327202 CCTTTTTTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 3 0.16
20 12 0.63
21 4 0.21
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (21 bp):
CTCTTATTCTTTTCTTTATTT
Found at i:110327201 original size:21 final size:20
Alignment explanation
Indices: 110327169--110327208 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
110327159 CCTCTCTATT
*
110327169 TTTTCTTTTTTCTCTTTTTC
1 TTTTCTTTTTTCCCTTTTTC
110327189 TTTTCTTTATTTCCCTTTTT
1 TTTTCTTT-TTTCCCTTTTT
110327209 TCCTCTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTCTTTTTTCCCTTTTTC
Found at i:110327207 original size:20 final size:20
Alignment explanation
Indices: 110327169--110327207 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
110327159 CCTCTCTATT
*
110327169 TTTTCTTTTTTCTCTTTTTC
1 TTTTCTTTTTTCTCCTTTTC
110327189 TTTTCTTTATTTC-CCTTTT
1 TTTTCTTT-TTTCTCCTTTT
110327208 TTCCTCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTCTTTTTTCTCCTTTTC
Found at i:110334033 original size:17 final size:18
Alignment explanation
Indices: 110333999--110334098 Score: 150
Period size: 17 Copynumber: 5.6 Consensus size: 18
110333989 AATCATATCT
*
110333999 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
110334017 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
110334034 TCTAAGATTGCATATCATA
1 TCTAAGATTGC-TATCATA
*
110334053 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
*
110334071 TCTATGATTG-TATCATA
1 TCTAAGATTGCTATCATA
110334088 TCTAAGATTGC
1 TCTAAGATTGC
110334099 ATATTGAAGA
Statistics
Matches: 74, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
17 31 0.42
18 25 0.34
19 18 0.24
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (18 bp):
TCTAAGATTGCTATCATA
Found at i:110334042 original size:35 final size:36
Alignment explanation
Indices: 110333999--110334099 Score: 152
Period size: 35 Copynumber: 2.8 Consensus size: 36
110333989 AATCATATCT
*
110333999 TCTAAGATTGCAATCATATCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATATCTAAGATTGCAATCATA
110334034 TCTAAGATTGCATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGCA-ATCATATCTAAGATTGCAATCATA
* *
110334071 TCTATGATTG-TATCATATCTAAGATTGCA
1 TCTAAGATTGCAATCATATCTAAGATTGCA
110334100 TATTGAAGAT
Statistics
Matches: 61, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
35 30 0.49
36 16 0.26
37 15 0.25
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.38
Consensus pattern (36 bp):
TCTAAGATTGCAATCATATCTAAGATTGCAATCATA
Found at i:110334061 original size:54 final size:52
Alignment explanation
Indices: 110333992--110334102 Score: 195
Period size: 54 Copynumber: 2.1 Consensus size: 52
110333982 ATTATAAAAT
110333992 CATATCTTCTAAGATTGCAATCATATCTAAGATTGTATCATATCTAAGATTG
1 CATATCTTCTAAGATTGCAATCATATCTAAGATTGTATCATATCTAAGATTG
*
110334044 CATATCATATCTAAGATTGCAATCATATCTATGATTGTATCATATCTAAGATTG
1 CATATC-T-TCTAAGATTGCAATCATATCTAAGATTGTATCATATCTAAGATTG
110334098 CATAT
1 CATAT
110334103 TGAAGATTAT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
52 6 0.11
53 1 0.02
54 49 0.88
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (52 bp):
CATATCTTCTAAGATTGCAATCATATCTAAGATTGTATCATATCTAAGATTG
Found at i:110334614 original size:18 final size:18
Alignment explanation
Indices: 110334591--110334648 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 18
110334581 AGGTTGTGAG
110334591 AAGAGAAGTTGAAATAAA
1 AAGAGAAGTTGAAATAAA
**
110334609 AAGAG-AGTGTG-AGGAAA
1 AAGAGAAGT-TGAAATAAA
110334626 AAGA-AA-TTGAAATAAA
1 AAGAGAAGTTGAAATAAA
*
110334642 AAAAGAA
1 AAGAGAA
110334649 AAAGAAAAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 9
0.69 0.11 0.20
Matches are distributed among these distances:
15 2 0.06
16 8 0.26
17 14 0.45
18 7 0.23
ACGTcount: A:0.62, C:0.00, G:0.24, T:0.14
Consensus pattern (18 bp):
AAGAGAAGTTGAAATAAA
Found at i:110336949 original size:17 final size:17
Alignment explanation
Indices: 110336923--110336955 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
110336913 AATTTAGACA
110336923 TTTTTATTTTT-TTTTG
1 TTTTTATTTTTGTTTTG
110336939 TTTTATATTTTTGTTTT
1 TTTT-TATTTTTGTTTT
110336956 TAATTTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 7 0.47
18 4 0.27
ACGTcount: A:0.09, C:0.00, G:0.06, T:0.85
Consensus pattern (17 bp):
TTTTTATTTTTGTTTTG
Found at i:110340415 original size:14 final size:15
Alignment explanation
Indices: 110340398--110340427 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
110340388 ATTTTATTTC
110340398 TTTTC-TTTTTCTTT
1 TTTTCTTTTTTCTTT
110340412 TTTTCTTTTTTCTTT
1 TTTTCTTTTTTCTTT
110340427 T
1 T
110340428 CTATTTGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTTCTTTTTTCTTT
Found at i:110344327 original size:21 final size:21
Alignment explanation
Indices: 110344301--110344343 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
110344291 AAAGGGAATG
110344301 TACCTCATTAAAATCAACCAA
1 TACCTCATTAAAATCAACCAA
110344322 TACCTCATTAAAATCAACCAA
1 TACCTCATTAAAATCAACCAA
110344343 T
1 T
110344344 GTACCAGCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.26
Consensus pattern (21 bp):
TACCTCATTAAAATCAACCAA
Found at i:110349479 original size:21 final size:22
Alignment explanation
Indices: 110349427--110349479 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
110349417 AAATAAAGTC
*
110349427 CATGTA-CAAATATCATCATCT
1 CATGTATCATATATCATCATCT
* *
110349448 CATGTTTTCATATATCAT-ATGT
1 CATG-TATCATATATCATCATCT
110349470 CATGTATCAT
1 CATGTATCAT
110349480 CATTTACTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 9 0.35
22 8 0.31
23 9 0.35
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.42
Consensus pattern (22 bp):
CATGTATCATATATCATCATCT
Found at i:110349777 original size:57 final size:58
Alignment explanation
Indices: 110349716--110349839 Score: 135
Period size: 58 Copynumber: 2.2 Consensus size: 58
110349706 CCAGTCCAGA
* * ** * *
110349716 CTAAATCCTCTATATAATGTATGCTTAAAA-GAGCTTA-ATCTGGATTACTCGTCTGGG
1 CTAAATCCTATACATAACATATGCTCAAAAGGA-CTTATATCAGGATTACTCGTCTGGG
* * * *
110349773 CTAAATCCAATCCATAACATATGCTCGAGAGGACTTATATCAGGATTACTCGTCTGGG
1 CTAAATCCTATACATAACATATGCTCAAAAGGACTTATATCAGGATTACTCGTCTGGG
110349831 CTAAATCCT
1 CTAAATCCT
110349840 TTCATAAATG
Statistics
Matches: 54, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
57 25 0.46
58 29 0.54
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (58 bp):
CTAAATCCTATACATAACATATGCTCAAAAGGACTTATATCAGGATTACTCGTCTGGG
Found at i:110365897 original size:28 final size:27
Alignment explanation
Indices: 110365846--110365902 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 27
110365836 ATAGTGATAC
* * *
110365846 TGTATTGGGCTTAGGCCCATACTGTTAT
1 TGTATAGGGCTAAGGCCCAGACTG-TAT
*
110365874 TGTATAGGGCTAAGGGCCAGACTGTAT
1 TGTATAGGGCTAAGGCCCAGACTGTAT
110365901 TG
1 TG
110365903 ATACTATATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 5 0.20
28 20 0.80
ACGTcount: A:0.21, C:0.16, G:0.30, T:0.33
Consensus pattern (27 bp):
TGTATAGGGCTAAGGCCCAGACTGTAT
Found at i:110367356 original size:40 final size:40
Alignment explanation
Indices: 110367312--110367531 Score: 370
Period size: 40 Copynumber: 5.5 Consensus size: 40
110367302 TACTTGCTCG
* *
110367312 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
110367352 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
110367392 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
*
110367432 AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* * *
110367472 AATGCCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCTCA
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACA
110367512 AATGCCTTCGGGACTTAGCC
1 AATGCCTTCGGGACTTAGCC
110367532 TGGTTATCAT
Statistics
Matches: 172, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 1 0.01
40 171 0.99
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
Found at i:110380192 original size:50 final size:50
Alignment explanation
Indices: 110380068--110380350 Score: 227
Period size: 50 Copynumber: 5.6 Consensus size: 50
110380058 ATTGTGAGAA
* * * *** *
110380068 CACATGTGTAGTACTATGTGCAGGATACTATGTGTTTAAGATATTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATATGTACCAGATA--GTTAGGT
* * *
110380120 CACGTGTGTAGTAATAAATGCAGGCTACTATATGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATATGTACCAGATAGTTAGGT
* * * *
110380170 CGCATGTGTAGTACTAAGTGCAGGCTACTA-A-GCATACTC-GACAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATATG--TAC-CAGA-TAGTT-AGGT
* *** * *
110380221 CACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATATGTACCAGATAGTTAGGT
* * * *
110380271 CACGTGTGTAGTACTAAGTGTAGACTACTACATGTACCAGATTA-TT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATATGTACCAGA-TAGTTAGGT
*
110380320 CGCATGTGTAGTACTAAGTGCAGGCTACTAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTAT
110380351 GCATACCAGA
Statistics
Matches: 185, Mismatches: 36, Indels: 23
0.76 0.15 0.09
Matches are distributed among these distances:
48 1 0.01
49 31 0.17
50 79 0.43
51 38 0.21
52 35 0.19
53 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATATGTACCAGATAGTTAGGT
Found at i:110380250 original size:101 final size:101
Alignment explanation
Indices: 110380119--110380300 Score: 265
Period size: 101 Copynumber: 1.8 Consensus size: 101
110380109 TATTTTTAGG
* * *
110380119 TCACGTGTGTAGTAATAAATGCAGGCTACTATATGTACCAGATAGTTAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTAATAAATGCAGGCTACTACACGTACCAGATAGTTAGGTCACATGTGTAGTAC
*
110380184 TAAGTGCAGGCTACTAAGCATACTCGACAACTTCAA
66 TAAGTGCAGACTACTAAGCATACTCGACAACTTCAA
* * * * * *
110380220 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTAATAAATGCAGGCTACTACACGTACCAGATAGTTAGGTCACATGTGTAGTAC
*
110380285 TAAGTGTAGACTACTA
66 TAAGTGCAGACTACTA
110380301 CATGTACCAG
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
101 70 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (101 bp):
TCACGTGTGTAGTAATAAATGCAGGCTACTACACGTACCAGATAGTTAGGTCACATGTGTAGTAC
TAAGTGCAGACTACTAAGCATACTCGACAACTTCAA
Found at i:110380392 original size:150 final size:151
Alignment explanation
Indices: 110380114--110380395 Score: 381
Period size: 150 Copynumber: 1.9 Consensus size: 151
110380104 TAAGATATTT
* *
110380114 TTAGGTCACGTGTGTAGTAATAAATGCAGGCTACTATATGTACCAGATAGTTAGGTCGCATGTGT
1 TTAGGTCACGTGTGTAGTAATAAATGCAGACTACTACATGTACCAGATAGTTAGGTCGCATGTGT
** * *
110380179 AGTACTAAGTGCAGGCTACTAAGCATACTCGACAACTTCAATCACGTGTGTAGTACTAAGTGCAG
66 AGTACTAAGTGCAGGCTACTAAGCATACTCGACAACTTCAATCACAAGGGTAGTAATAAGTGCAG
110380244 GCTACTACGCGTATCAGATGG
131 GCTACTACGCGTATCAGATGG
* * *
110380265 TTAGGTCACGTGTGTAGTACTAAGTGTAGACTACTACATGTACCAGATTA-TT-GGTCGCATGTG
1 TTAGGTCACGTGTGTAGTAATAAATGCAGACTACTACATGTACCAGA-TAGTTAGGTCGCATGTG
* * * * * * *
110380328 TAGTACTAAGTGCAGGCTACTATGCATAC-CAGATAGCTTCGATTACAAGGGTGGTAATATGTGC
65 TAGTACTAAGTGCAGGCTACTAAGCATACTC-GACAACTTCAATCACAAGGGTAGTAATAAGTGC
110380392 AGGC
129 AGGC
110380396 AACCATGTAT
Statistics
Matches: 113, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
149 1 0.01
150 66 0.58
151 44 0.39
152 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (151 bp):
TTAGGTCACGTGTGTAGTAATAAATGCAGACTACTACATGTACCAGATAGTTAGGTCGCATGTGT
AGTACTAAGTGCAGGCTACTAAGCATACTCGACAACTTCAATCACAAGGGTAGTAATAAGTGCAG
GCTACTACGCGTATCAGATGG
Found at i:110382898 original size:24 final size:24
Alignment explanation
Indices: 110382871--110382961 Score: 164
Period size: 24 Copynumber: 3.8 Consensus size: 24
110382861 CTTATTATGT
**
110382871 TCGCACACATAGTGCCATAGCGAA
1 TCGCACACATAGTGCCATAGTAAA
110382895 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
110382919 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
110382943 TCGCACACATAGTGCCATA
1 TCGCACACATAGTGCCATA
110382962 TATTTCCAGC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 65 1.00
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:110382986 original size:29 final size:29
Alignment explanation
Indices: 110382944--110383017 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
110382934 CATAGTAAAT
*
110382944 CGCACACATAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
110382973 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
110383002 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
110383018 ATCTCGTCAC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.24
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:110389722 original size:24 final size:24
Alignment explanation
Indices: 110389695--110389785 Score: 164
Period size: 24 Copynumber: 3.8 Consensus size: 24
110389685 CTTATTATGT
**
110389695 TCGCACACATAGTGCCATAGCGAA
1 TCGCACACATAGTGCCATAGTAAA
110389719 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
110389743 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
110389767 TCGCACACATAGTGCCATA
1 TCGCACACATAGTGCCATA
110389786 TATTTCCAGC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 65 1.00
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:110389810 original size:29 final size:29
Alignment explanation
Indices: 110389768--110389841 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
110389758 CATAGTAAAT
*
110389768 CGCACACATAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
110389797 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
110389826 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
110389842 ATCTCGTCAC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.24
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:110401925 original size:23 final size:23
Alignment explanation
Indices: 110401895--110401960 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
110401885 AAATGCATTT
* *
110401895 ACAAAATACT-CCATAAAGGCCAA
1 ACAAAATA-TGCCAGAAAGGACAA
*
110401918 ACAAAATATGCCAGACAGGACAA
1 ACAAAATATGCCAGAAAGGACAA
*
110401941 ACAAAATATGCCACAAAGGA
1 ACAAAATATGCCAGAAAGGA
110401961 AATACAGGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 1 0.03
23 36 0.97
ACGTcount: A:0.53, C:0.23, G:0.14, T:0.11
Consensus pattern (23 bp):
ACAAAATATGCCAGAAAGGACAA
Found at i:110404153 original size:54 final size:54
Alignment explanation
Indices: 110404109--110404291 Score: 152
Period size: 54 Copynumber: 3.4 Consensus size: 54
110404099 CAAATTGTAA
* *
110404109 AATTACCAAAGTACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTACAG
1 AATTACCAAAGTACCCTCGATTTAAAGAATTACTGTTTTACCCTCAATTTACAG
**** ** *
110404163 AATTACCGTTTTACCCTCGATTTAAAGAATTACTGTTTTACCCTTGATCTACAG
1 AATTACCAAAGTACCCTCGATTTAAAGAATTACTGTTTTACCCTCAATTTACAG
***** **** * * *
110404217 AATTACTGTTTTACCCTCGATTTACAA-AATTACTAAAATACCCTTAGTTTACAA
1 AATTACCAAAGTACCCTCGATTTA-AAGAATTACTGTTTTACCCTCAATTTACAG
*
110404271 AATTACCAAAATACCCTCGAT
1 AATTACCAAAGTACCCTCGAT
110404292 CAGTAAAATT
Statistics
Matches: 107, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
54 105 0.98
55 2 0.02
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (54 bp):
AATTACCAAAGTACCCTCGATTTAAAGAATTACTGTTTTACCCTCAATTTACAG
Found at i:110404250 original size:27 final size:27
Alignment explanation
Indices: 110404120--110404250 Score: 208
Period size: 27 Copynumber: 4.9 Consensus size: 27
110404110 ATTACCAAAG
*
110404120 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
110404147 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
110404174 TACCCTCGATTTAAAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
110404201 TACCCTTGATCTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
110404228 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
110404251 AAAATACCCT
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 94 1.00
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:110404286 original size:81 final size:80
Alignment explanation
Indices: 110404107--110404292 Score: 194
Period size: 81 Copynumber: 2.3 Consensus size: 80
110404097 CTCAAATTGT
* * * * **
110404107 AAAATTACCAAAGTACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGT
1 AAAATTACCAAAATACCCTCGATCTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCAA
** *
110404172 TTTACCCTCGATTTA
66 AATACCCTAGATTTA
***** * *
110404187 AAGAATTACTGTTTTACCCTTGATCTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTA
1 AA-AATTACCAAAATACCCTCGATCTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCA
110404252 AAATACCCTTAG-TTTA
65 AAATACCC-TAGATTTA
110404268 CAAAATTACCAAAATACCCTCGATC
1 -AAAATTACCAAAATACCCTCGATC
110404293 AGTAAAATTA
Statistics
Matches: 82, Mismatches: 21, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
80 2 0.02
81 76 0.93
82 4 0.05
ACGTcount: A:0.34, C:0.23, G:0.09, T:0.35
Consensus pattern (80 bp):
AAAATTACCAAAATACCCTCGATCTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCAA
AATACCCTAGATTTA
Found at i:110404313 original size:81 final size:80
Alignment explanation
Indices: 110404228--110404504 Score: 315
Period size: 81 Copynumber: 3.4 Consensus size: 80
110404218 ATTACTGTTT
* ** * * *
110404228 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCTCGATC
1 TACCC-CGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATT
*
110404293 AGTAAAATTACCAAAA
65 TGTAAAATTACCAAAA
* ** * * *
110404309 TA-CCCTAGTTTGTAAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCGAAATACCTTCAATT
1 TACCCCGA-TTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATT
110404373 TGTAAAATTACCAAAA
65 TGTAAAATTACCAAAA
* ** * * *
110404389 TACCCCTAGTTTGTAAAATTACCAAAATACCATTGGTTTGTGAAATTACCGAAATACCCTCAATT
1 TACCCCGA-TTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATT
110404454 TGTAAAATTACCAAAA
65 TGTAAAATTACCAAAA
*
110404470 TACCCCTGATTTACAAAGTTAC-AGAAATACCCTTG
1 TACCCC-GATTTACAAAATTACTA-AAATACCCTTG
110404505 ACTTTCTAAA
Statistics
Matches: 168, Mismatches: 24, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
79 2 0.01
80 65 0.39
81 100 0.60
82 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (80 bp):
TACCCCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATTT
GTAAAATTACCAAAA
Found at i:110404561 original size:27 final size:27
Alignment explanation
Indices: 110404242--110404579 Score: 277
Period size: 27 Copynumber: 12.5 Consensus size: 27
110404232 CTCGATTTAC
* * **
110404242 AAAATTACTAAAATACCCTTAGTTTAC
1 AAAATTACCAAAATACCCTTGGTTTGT
* * **
110404269 AAAATTACCAAAATACCCTCGATCAGT
1 AAAATTACCAAAATACCCTTGGTTTGT
*
110404296 AAAATTACCAAAATACCC-TAGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * *
110404322 AAAATTGCTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* **
110404349 AAAATTACCGAAATA-CCTTCAATTTGT
1 AAAATTACCAAAATACCCTT-GGTTTGT
* *
110404376 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
*
110404403 AAAATTACCAAAATACCATTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * ***
110404430 GAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * **
110404457 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACCAAAATACCCTTGGTTTGT
* * *
110404484 AAAGTTA-CAGAAATACCCTTGACTTTCT
1 AAAATTACCA-AAATACCCTTG-GTTTGT
*** * *
110404512 AAAAATTATGGAAATACCATTGGTTTAT
1 -AAAATTACCAAAATACCCTTGGTTTGT
*
110404540 AAAATTACTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* *
110404567 AGATTTACCAAAA
1 AAAATTACCAAAA
110404580 CACCTTTATA
Statistics
Matches: 244, Mismatches: 60, Indels: 14
0.77 0.19 0.04
Matches are distributed among these distances:
26 24 0.10
27 194 0.80
28 10 0.04
29 16 0.07
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGGTTTGT
Done.