Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 6 of 221
Found at i:1960763 original size:6 final size:7
Alignment explanation
Indices: 1960745--1960771 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
1960735 ATATCCTCCA
1960745 ATTTTTT
1 ATTTTTT
1960752 ATTTTTT
1 ATTTTTT
1960759 ATTTTTT
1 ATTTTTT
1960766 ATTTTT
1 ATTTTT
1960772 GTAATTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
ATTTTTT
Found at i:1969519 original size:18 final size:19
Alignment explanation
Indices: 1969498--1969533 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1969488 TTAGAAATTT
1969498 ACAAAAAA-AATGAAAAAA
1 ACAAAAAACAATGAAAAAA
1969516 ACAAAAAACAATGAAAAA
1 ACAAAAAACAATGAAAAA
1969534 TTGGTTGCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.81, C:0.08, G:0.06, T:0.06
Consensus pattern (19 bp):
ACAAAAAACAATGAAAAAA
Found at i:1969775 original size:31 final size:31
Alignment explanation
Indices: 1969739--1969805 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
1969729 TTTTAACTAA
* * *
1969739 TTTTTTATTTTCAATTTATATAT-TCTTCTT
1 TTTTTTATCTTCAATTTACATATATATTCTT
*
1969769 TATTTTTATCTTCAGTTTACATATATATTCTT
1 T-TTTTTATCTTCAATTTACATATATATTCTT
1969801 TTTTT
1 TTTTT
1969806 GAAATTTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
30 1 0.03
31 23 0.74
32 7 0.23
ACGTcount: A:0.21, C:0.10, G:0.01, T:0.67
Consensus pattern (31 bp):
TTTTTTATCTTCAATTTACATATATATTCTT
Found at i:1971026 original size:3 final size:3
Alignment explanation
Indices: 1971018--1971056 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
1971008 TAACCCTATT
1971018 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1971057 TTATTATTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1971207 original size:40 final size:40
Alignment explanation
Indices: 1971147--1971268 Score: 235
Period size: 40 Copynumber: 3.0 Consensus size: 40
1971137 ATTATAAAAG
*
1971147 TACAGTTTTATATTAGAGTAATTGAATCAGTTCTTAAATA
1 TACAATTTTATATTAGAGTAATTGAATCAGTTCTTAAATA
1971187 TACAATTTTATATTAGAGTAATTGAATCAGTTCTTAAATA
1 TACAATTTTATATTAGAGTAATTGAATCAGTTCTTAAATA
1971227 TACAATTTTATATTAGAGTAATTGAATCAGTTCTTAAATA
1 TACAATTTTATATTAGAGTAATTGAATCAGTTCTTAAATA
1971267 TA
1 TA
1971269 ATAATTATAA
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 81 1.00
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.43
Consensus pattern (40 bp):
TACAATTTTATATTAGAGTAATTGAATCAGTTCTTAAATA
Found at i:1977109 original size:26 final size:26
Alignment explanation
Indices: 1977080--1977158 Score: 70
Period size: 28 Copynumber: 3.0 Consensus size: 26
1977070 TTATGCTTAA
1977080 ATTTAAGATTTAATCCTTATACTTTT
1 ATTTAAGATTTAATCCTTATACTTTT
* ** * * *
1977106 ATTTCAA-TTTTAGCCACAATATGCTTAT
1 ATTT-AAGATTTAATC-C-TTATACTTTT
1977134 ATTTAAGATTTAATCCTTATACTTT
1 ATTTAAGATTTAATCCTTATACTTT
1977159 AATCTTTTAA
Statistics
Matches: 37, Mismatches: 12, Indels: 8
0.65 0.21 0.14
Matches are distributed among these distances:
26 15 0.41
27 6 0.16
28 16 0.43
ACGTcount: A:0.32, C:0.14, G:0.05, T:0.49
Consensus pattern (26 bp):
ATTTAAGATTTAATCCTTATACTTTT
Found at i:1977110 original size:49 final size:50
Alignment explanation
Indices: 1977037--1977161 Score: 164
Period size: 54 Copynumber: 2.5 Consensus size: 50
1977027 AATATGCTTG
* *
1977037 AGATTTAATTC-TATACTTTAATTTCAATTTTAG-TTATGCTTAAATTTA
1 AGATTTAATCCTTATACTTTAATTTCAATTTTAGCATATGCTTAAATTTA
* *
1977085 AGATTTAATCCTTATACTTTTATTTCAATTTTAGCCACAATATGCTTATATTTA
1 AGATTTAATCCTTATACTTTAATTTCAATTTTAG---C-ATATGCTTAAATTTA
1977139 AGATTTAATCCTTATACTTTAAT
1 AGATTTAATCCTTATACTTTAAT
1977162 CTTTTAACAT
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
48 10 0.15
49 21 0.32
54 35 0.53
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.50
Consensus pattern (50 bp):
AGATTTAATCCTTATACTTTAATTTCAATTTTAGCATATGCTTAAATTTA
Found at i:1979296 original size:2 final size:2
Alignment explanation
Indices: 1979291--1979318 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1979281 TAAACAAAAG
1979291 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1979319 AGCAGCACCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2010977 original size:36 final size:35
Alignment explanation
Indices: 2010803--2011186 Score: 249
Period size: 36 Copynumber: 10.5 Consensus size: 35
2010793 ATGCCGACCT
*
2010803 TTAAAAAGGGTTGGGATAGACCTAGT-T-AAGACTAACC
1 TTAAAAA-GGTTGGGATAGA-CTTGTCTAAAG-C-AACC
* * * *
2010840 TTTGAAAAAGGTTGTGATAAACCTATCT-AAGACAACC
1 -TT-AAAAAGGTTGGGATAGACTTGTCTAAAG-CAACC
* ** * * *
2010877 TTAAAAAGGTCGATATAGTTCTTG-CTTAAGGCAACTT
1 TTAAAAAGGTTGGGATAG-ACTTGTC-TAAAGCAAC-C
* *
2010914 TTAAAAACAGTTGGGATAGAGC-CGTCTAAAGCAACC
1 TTAAAAA-GGTTGGGATAGA-CTTGTCTAAAGCAACC
* * *
2010950 TTAAAAAGGTTAGGATCGACATTGTCTAAAACAACC
1 TTAAAAAGGTTGGGATAGAC-TTGTCTAAAGCAACC
* *
2010986 TATAAAAAGGTTGGGATAGACCTGTCTAAGGCAACC
1 T-TAAAAAGGTTGGGATAGACTTGTCTAAAGCAACC
* * *
2011022 TTAAACAA-GTTAGGATAAACTATGTCTAAGGCAACC
1 TTAAA-AAGGTTGGGATAGACT-TGTCTAAAGCAACC
* * * *
2011058 TTTAAAAAAGGTCGGAATAGACTCGTCTAAGGCAACC
1 -TT-AAAAAGGTTGGGATAGACTTGTCTAAAGCAACC
* * * *
2011095 TTAAAAAGGTTGGGATAGACCATGTCTAAGGTAACTT
1 TTAAAAAGGTTGGGATAGA-CTTGTCTAAAGCAAC-C
* *
2011132 TTAAAAAAGGTTGGGATAGACCTGTTTAAAGCAACC
1 TT-AAAAAGGTTGGGATAGACTTGTCTAAAGCAACC
*
2011168 TTAAAAAAGTTGGGATAGA
1 TTAAAAAGGTTGGGATAGA
2011187 TATTATTTAA
Statistics
Matches: 274, Mismatches: 52, Indels: 43
0.74 0.14 0.12
Matches are distributed among these distances:
34 1 0.00
35 67 0.24
36 74 0.27
37 71 0.26
38 56 0.20
39 5 0.02
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.26
Consensus pattern (35 bp):
TTAAAAAGGTTGGGATAGACTTGTCTAAAGCAACC
Found at i:2011020 original size:72 final size:73
Alignment explanation
Indices: 2010915--2011226 Score: 314
Period size: 73 Copynumber: 4.3 Consensus size: 73
2010905 AGGCAACTTT
*
2010915 TAAAAACA-GTTGGGATAGAGCC-GTCTAAAGCAACCTTAAAAAGGTTAGGATCGACATTGTCTA
1 TAAAAA-AGGTTGGGATAGA-CCTGTCTAAAGCAACCTTAAAAAGGTTAGGATAGACATTGTCTA
2010978 AAACAACCTA
64 AAACAACCTA
* *
2010988 T-AAAAAGGTTGGGATAGACCTGTCTAAGGCAACCTTAAACAA-GTTAGGATAAAC-TATGTCTA
1 TAAAAAAGGTTGGGATAGACCTGTCTAAAGCAACCTTAAA-AAGGTTAGGATAGACAT-TGTCTA
** *
2011050 AGGCAACCTT
64 AAACAACCTA
* * * *
2011060 TAAAAAAGGTCGGAATAGA-CTCGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCA-TGTCTA
1 TAAAAAAGGTTGGGATAGACCT-GTCTAAAGCAACCTTAAAAAGGTTAGGATAGA-CATTGTCTA
*** * *
2011123 AGGTAACTTT
64 AAACAACCTA
* * * * * *
2011133 TAAAAAAGGTTGGGATAGACCTGTTTAAAGCAACCTTAAAAAAGTTGGGATAGATATTATTTAAA
1 TAAAAAAGGTTGGGATAGACCTGTCTAAAGCAACCTTAAAAAGGTTAGGATAGACATTGTCTAAA
2011198 ACAACCTA
66 ACAACCTA
*
2011206 TAAAAAAAGATTGGGATAGAC
1 T-AAAAAAGGTTGGGATAGAC
2011227 ACGTATAATA
Statistics
Matches: 201, Mismatches: 26, Indels: 23
0.80 0.10 0.09
Matches are distributed among these distances:
71 4 0.02
72 61 0.30
73 115 0.57
74 21 0.10
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.24
Consensus pattern (73 bp):
TAAAAAAGGTTGGGATAGACCTGTCTAAAGCAACCTTAAAAAGGTTAGGATAGACATTGTCTAAA
ACAACCTA
Found at i:2011121 original size:145 final size:145
Alignment explanation
Indices: 2010803--2011180 Score: 396
Period size: 145 Copynumber: 2.6 Consensus size: 145
2010793 ATGCCGACCT
* * * *
2010803 TTAAAAAGGGTTGGGATAGACC-TAGT-TAAGACTAACCTTTGAAAAAGGTTGTGATAAACCTAT
1 TTAAAAA-GGTTGGGATAGACCAT-GTCTAAGAC-AACCTTTAAAAAAGGTTGGGATAGACCTGT
* * * * * * *
2010866 CTAAGACAACCTTAAAAAGGTCGATATAGTTCTTGCTTAAGGCAACTTTTAAAAACAGTTGGGAT
63 CTAAGGCAACCTTAAAAAGTTGGATATAG-ACTTGCTTAAGGCAACCTTTAAAAACAGTCGGAAT
2010931 AGAGCCGTCTAAAGCAACC
127 AGAGCCGTCTAAAGCAACC
* * * *
2010950 TTAAAAAGGTTAGGATCGA-CATTGTCTAAAACAACCTAT-AAAAAGGTTGGGATAGACCTGTCT
1 TTAAAAAGGTTGGGATAGACCA-TGTCTAAGACAACCTTTAAAAAAGGTTGGGATAGACCTGTCT
2011013 AAGGCAACCTTAAACAAGTTAGGATA-A-ACTATG-TCTAAGGCAACCTTTAAAAA-AGGTCGGA
65 AAGGCAACCTTAAA-AAGTT-GGATATAGACT-TGCT-TAAGGCAACCTTTAAAAACA-GTCGGA
*
2011074 ATAGA-CTCGTCTAAGGCAACC
125 ATAGAGC-CGTCTAAAGCAACC
** * *
2011095 TTAAAAAGGTTGGGATAGACCATGTCTAAGGTAACTTTTAAAAAAGGTTGGGATAGACCTGTTTA
1 TTAAAAAGGTTGGGATAGACCATGTCTAAGACAACCTTTAAAAAAGGTTGGGATAGACCTGTCTA
*
2011160 AAGCAACCTTAAAAAAGTTGG
66 AGGCAACCTT-AAAAAGTTGG
2011181 GATAGATATT
Statistics
Matches: 195, Mismatches: 24, Indels: 26
0.80 0.10 0.11
Matches are distributed among these distances:
144 5 0.03
145 107 0.55
146 63 0.32
147 20 0.10
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (145 bp):
TTAAAAAGGTTGGGATAGACCATGTCTAAGACAACCTTTAAAAAAGGTTGGGATAGACCTGTCTA
AGGCAACCTTAAAAAGTTGGATATAGACTTGCTTAAGGCAACCTTTAAAAACAGTCGGAATAGAG
CCGTCTAAAGCAACC
Found at i:2011196 original size:36 final size:35
Alignment explanation
Indices: 2010914--2011225 Score: 232
Period size: 36 Copynumber: 8.5 Consensus size: 35
2010904 AAGGCAACTT
* *
2010914 TTAAAAACAGTTGGGATAGAGCCGTCTAAAGCAACC
1 TTAAAAA-AGTTGGGATAGAACTGTCTAAAGCAACC
* * * * *
2010950 TTAAAAAGGTTAGGATCGACATTGTCTAAAACAACC
1 TTAAAAAAGTTGGGATAGA-ACTGTCTAAAGCAACC
* * *
2010986 TATAAAAAGGTTGGGATAGACCTGTCTAAGGCAACC
1 T-TAAAAAAGTTGGGATAGAACTGTCTAAAGCAACC
* * *
2011022 TTAAACAAGTTAGGATA-AACTATGTCTAAGGCAACC
1 TTAAAAAAGTTGGGATAGAAC--TGTCTAAAGCAACC
* * *
2011058 TTTAAAAAAGGTCGGAATAG-ACTCGTCTAAGGCAACC
1 -TTAAAAAA-GTTGGGATAGAACT-GTCTAAAGCAACC
* * * * *
2011095 TTAAAAAGGTTGGGATAGACCATGTCTAAGGTAACTT
1 TTAAAAAAGTTGGGATAGAAC-TGTCTAAAGCAAC-C
* *
2011132 TTAAAAAAGGTTGGGATAGACCTGTTTAAAGCAACC
1 TTAAAAAA-GTTGGGATAGAACTGTCTAAAGCAACC
* * * *
2011168 TTAAAAAAGTTGGGATAGATATTATTTAAAACAACC
1 TTAAAAAAGTTGGGATAGA-ACTGTCTAAAGCAACC
2011204 TATAAAAAAAGATTGGGATAGA
1 T-T-AAAAAAG-TTGGGATAGA
2011226 CACGTATAAT
Statistics
Matches: 224, Mismatches: 36, Indels: 29
0.78 0.12 0.10
Matches are distributed among these distances:
34 2 0.01
35 41 0.18
36 88 0.39
37 55 0.25
38 28 0.12
39 10 0.04
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.25
Consensus pattern (35 bp):
TTAAAAAAGTTGGGATAGAACTGTCTAAAGCAACC
Found at i:2014346 original size:47 final size:47
Alignment explanation
Indices: 2014132--2014345 Score: 383
Period size: 47 Copynumber: 4.6 Consensus size: 47
2014122 TAAATAATGT
*
2014132 ATACTTTACCCGGGTAAAGTATGCATTATTAGTGAATCTGCTAATAC
1 ATACTTTATCCGGGTAAAGTATGCATTATTAGTGAATCTGCTAATAC
*
2014179 ATACTTTATCCGGGTAAAATATGCATTATTAGTGAATCTGCTAATAC
1 ATACTTTATCCGGGTAAAGTATGCATTATTAGTGAATCTGCTAATAC
*
2014226 ATACTTTATCCGAGTAAAGTATGCATTATTAGTGAATCTGCTAATAC
1 ATACTTTATCCGGGTAAAGTATGCATTATTAGTGAATCTGCTAATAC
*
2014273 ATACTTTATCCGGGTAAAGTATGCATAATTAGTGAATCTGCTAATAC
1 ATACTTTATCCGGGTAAAGTATGCATTATTAGTGAATCTGCTAATAC
*
2014320 ATACTTTATCTGGGTAAAGTATGCAT
1 ATACTTTATCCGGGTAAAGTATGCAT
2014346 ACATTCTTAA
Statistics
Matches: 160, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 160 1.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (47 bp):
ATACTTTATCCGGGTAAAGTATGCATTATTAGTGAATCTGCTAATAC
Found at i:2014819 original size:15 final size:15
Alignment explanation
Indices: 2014787--2014844 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 15
2014777 CACAAACCCT
* *
2014787 AAATCTCAAGACCATA
1 AAATCTTAA-ACCTTA
2014803 AAATCTTAAACCTTA
1 AAATCTTAAACCTTA
** *
2014818 AAATAATAGACCTTA
1 AAATCTTAAACCTTA
*
2014833 AAATCCTAAACC
1 AAATCTTAAACC
2014845 ACAAACCATA
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
15 26 0.76
16 8 0.24
ACGTcount: A:0.50, C:0.22, G:0.03, T:0.24
Consensus pattern (15 bp):
AAATCTTAAACCTTA
Found at i:2014983 original size:22 final size:22
Alignment explanation
Indices: 2014958--2015001 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
2014948 AGATTACTCG
2014958 CAAACCCATAATCACAAAACCC
1 CAAACCCATAATCACAAAACCC
* *
2014980 CAAATCCATAATCATAAAACCC
1 CAAACCCATAATCACAAAACCC
2015002 TAAAATCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.36, G:0.00, T:0.14
Consensus pattern (22 bp):
CAAACCCATAATCACAAAACCC
Found at i:2015011 original size:22 final size:22
Alignment explanation
Indices: 2014963--2015012 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
2014953 ACTCGCAAAC
*
2014963 CCATAATCACAAAACCCCAAAT
1 CCATAATCACAAAACCCAAAAT
*
2014985 CCATAATCATAAAACCCTAAAAT
1 CCATAATCACAAAACCC-AAAAT
2015008 -CATAA
1 CCATAA
2015013 ACCCCAAACC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 21 0.84
23 4 0.16
ACGTcount: A:0.52, C:0.30, G:0.00, T:0.18
Consensus pattern (22 bp):
CCATAATCACAAAACCCAAAAT
Found at i:2015029 original size:22 final size:22
Alignment explanation
Indices: 2014996--2015038 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
2014986 CATAATCATA
* *
2014996 AAACCCTAAAATCATAAACCCC
1 AAACCCTAAAATAAAAAACCCC
2015018 AAACCCGT-AAATAAAAAACCC
1 AAACCC-TAAAATAAAAAACCC
2015039 TAAAACCTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.53, C:0.33, G:0.02, T:0.12
Consensus pattern (22 bp):
AAACCCTAAAATAAAAAACCCC
Found at i:2015583 original size:132 final size:132
Alignment explanation
Indices: 2015346--2015715 Score: 650
Period size: 132 Copynumber: 2.8 Consensus size: 132
2015336 CTGACAAGTG
* *
2015346 TATCCCAACACTTAGGAAAGTGTCGCCCCAAAACTGTCGTCTTAGGACTAGACAAAAGCCAACTC
1 TATCCCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTAGACAAAAGCCAACTC
* *
2015411 TTATTCAAGCGTTGTCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTAG
66 TTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATAG
2015476 TC
131 TC
*
2015478 TATCCCAACACTTAGAAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTAGACAAAAGCCAACTC
1 TATCCCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTAGACAAAAGCCAACTC
*
2015543 TTATTCAAGCGTTGCCTTAGGCATATATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATAG
66 TTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATAG
2015608 TC
131 TC
* * *
2015610 TATACCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACAACACAAAAGCCAACTC
1 TATCCCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTAGACAAAAGCCAACTC
*
2015675 TTATTCAAGCGTTGCCTTAGGCATACATATACCAACCCTTA
66 TTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTA
2015716 GGAAAATGTC
Statistics
Matches: 226, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 226 1.00
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (132 bp):
TATCCCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTAGACAAAAGCCAACTC
TTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATAG
TC
Found at i:2015802 original size:91 final size:92
Alignment explanation
Indices: 2015610--2015806 Score: 297
Period size: 92 Copynumber: 2.2 Consensus size: 92
2015600 AAGCATAGTC
* * *
2015610 TATACCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACAACACAAAAGCCAACTC
1 TATACCAACCCTTAGGAAAATGTCACCACAAAAGTGTCGTCTTAGGACAACACAAAAGCCAACTC
2015675 TTATTCAAGCGTTGCCTTAGGCATACA
66 TTATTCAAGCGTTGCCTTAGGCATACA
* * *
2015702 TATACCAACCCTTAGGAAAATGTCACCACAAAAGTGTCGTCTTAGGACTACA-TAAAGGCAACTC
1 TATACCAACCCTTAGGAAAATGTCACCACAAAAGTGTCGTCTTAGGACAACACAAAAGCCAACTC
* *
2015766 TTATTTAAGCGTTGCTTTAGGCATACA
66 TTATTCAAGCGTTGCCTTAGGCATACA
* *
2015793 TCTCCCAACCCTTA
1 TATACCAACCCTTA
2015807 TACATAAAGT
Statistics
Matches: 95, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
91 47 0.49
92 48 0.51
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (92 bp):
TATACCAACCCTTAGGAAAATGTCACCACAAAAGTGTCGTCTTAGGACAACACAAAAGCCAACTC
TTATTCAAGCGTTGCCTTAGGCATACA
Found at i:2016246 original size:10 final size:10
Alignment explanation
Indices: 2016227--2016269 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
2016217 TTATAAAATT
2016227 TAAAAATAAA
1 TAAAAATAAA
*
2016237 TAAAAGTAAA
1 TAAAAATAAA
**
2016247 TAAAAAT-TT
1 TAAAAATAAA
2016256 TAAAAATAAA
1 TAAAAATAAA
2016266 TAAA
1 TAAA
2016270 GTGGGAAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
9 7 0.27
10 19 0.73
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (10 bp):
TAAAAATAAA
Found at i:2017800 original size:20 final size:20
Alignment explanation
Indices: 2017777--2017823 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
2017767 CTATTCAAAC
*
2017777 AATATTACT-TGAATAGTTAT
1 AATATTA-TATGAATAGCTAT
2017797 AATATTATATGAATAGCTAT
1 AATATTATATGAATAGCTAT
2017817 ATATATT
1 A-ATATT
2017824 TTTAAAGATG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 1 0.04
20 18 0.75
21 5 0.21
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.45
Consensus pattern (20 bp):
AATATTATATGAATAGCTAT
Found at i:2022388 original size:16 final size:16
Alignment explanation
Indices: 2022367--2022397 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2022357 AAGAAACGAT
*
2022367 AAATATGTATATATAA
1 AAATATGTACATATAA
2022383 AAATATGTACATATA
1 AAATATGTACATATA
2022398 TATGGGTGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.35
Consensus pattern (16 bp):
AAATATGTACATATAA
Found at i:2022964 original size:3 final size:3
Alignment explanation
Indices: 2022912--2022952 Score: 66
Period size: 3 Copynumber: 13.7 Consensus size: 3
2022902 AACATAAACA
2022912 AAT AAGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2022953 ACAAAATAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 31 0.86
4 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:2024937 original size:88 final size:87
Alignment explanation
Indices: 2024690--2025103 Score: 460
Period size: 88 Copynumber: 4.7 Consensus size: 87
2024680 GATCTGTAAT
* *
2024690 TCTTCAACCAGCTCCACTACAACCGAGAGAGGTAAGGTTTG-TCTTCGACCTGCTTCACTGTCAA
1 TCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTTCTTCGACCTGCTTCGCTGTCAA
* * * * *
2024754 CGCAGGAAGATAAAATCAGTTG
66 CGCAGGAAGACAAGATCTGCTA
* ** * *
2024776 TCTTCAACCAACTCTTCTAC-ACTCGAGAGAGGCAAGGCTTTGTT-TTCGATCTGCTTCGCTGTT
1 TCTTCAACCAGCTCCACTACAAC-CGAGAGAGGCAAGG-TTTGTTCTTCGACCTGCTTCGCTGTC
* *
2024839 AACGTAGGAAGGCAAGATCTGCTA
64 AACGCAGGAAGACAAGATCTGCTA
* * * * * *
2024863 TCTTCAACCAGCTCTACTGCAACCGATG-GAGGCAAGGCTTTGTTTTTCGATCTACTTCGCTGTT
1 TCTTCAACCAGCTCCACTACAACCGA-GAGAGGCAAGG-TTTGTTCTTCGACCTGCTTCGCTGTC
* *
2024927 AATGCAGGAAGGCAAGATCTGCTA
64 AACGCAGGAAGACAAGATCTGCTA
* * * *
2024951 TCTTCAACTAGCTCCACCACAACCGAGGGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGTTGTCA
1 TCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGT-TCTTCGACCTGCTTCGCTGTCA
* ** *
2025016 ATGCAGGAAGACAAGATCTTTTG
65 ACGCAGGAAGACAAGATCTGCTA
2025039 TCTTCAACCAGCTCCA-TCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTC
1 TCTTCAACCAGCTCCACT-ACAACCGAGAGAGGCAAGGTTTGT-TCTTCGACCTGCTTCGCTGTC
2025103 A
64 A
2025104 TCACAACCGA
Statistics
Matches: 282, Mismatches: 37, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
85 2 0.01
86 30 0.11
87 79 0.28
88 171 0.61
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.28
Consensus pattern (87 bp):
TCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTTCTTCGACCTGCTTCGCTGTCAA
CGCAGGAAGACAAGATCTGCTA
Found at i:2025125 original size:49 final size:49
Alignment explanation
Indices: 2025053--2025152 Score: 173
Period size: 49 Copynumber: 2.0 Consensus size: 49
2025043 CAACCAGCTC
*
2025053 CATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGT
1 CATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGT
* *
2025102 CATCACAACCGAAAGAGGCAAGGTTTGTGTTTTCGATCTGCTTCGCTGT
1 CATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGT
2025151 CA
1 CA
2025153 ATGTAGGAAG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.28
Consensus pattern (49 bp):
CATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGT
Found at i:2025204 original size:88 final size:88
Alignment explanation
Indices: 2025103--2025357 Score: 510
Period size: 88 Copynumber: 2.9 Consensus size: 88
2025093 CTTCGCTGTC
2025103 ATCACAACCGAAAGAGGCAAGGTTTGTGTTTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAG
1 ATCACAACCGAAAGAGGCAAGGTTTGTGTTTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAG
2025168 ATCTTTTGTCTTCAACCAGCTCT
66 ATCTTTTGTCTTCAACCAGCTCT
2025191 ATCACAACCGAAAGAGGCAAGGTTTGTGTTTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAG
1 ATCACAACCGAAAGAGGCAAGGTTTGTGTTTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAG
2025256 ATCTTTTGTCTTCAACCAGCTCT
66 ATCTTTTGTCTTCAACCAGCTCT
2025279 ATCACAACCGAAAGAGGCAAGGTTTGTGTTTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAG
1 ATCACAACCGAAAGAGGCAAGGTTTGTGTTTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAG
2025344 ATCTTTTGTCTTCA
66 ATCTTTTGTCTTCA
2025358 TTGATCTGTC
Statistics
Matches: 167, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 167 1.00
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (88 bp):
ATCACAACCGAAAGAGGCAAGGTTTGTGTTTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAG
ATCTTTTGTCTTCAACCAGCTCT
Found at i:2025214 original size:137 final size:137
Alignment explanation
Indices: 2024968--2025240 Score: 447
Period size: 137 Copynumber: 2.0 Consensus size: 137
2024958 CTAGCTCCAC
** *
2024968 CACAACCGAGGGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGTTGTCAATGCAGGAAGACAAGAT
1 CACAACCGAAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGACAAGAT
*
2025033 CTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCG
66 CTTTTGTCTTCAACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCG
2025098 CTGTCAT
131 CTGTCAT
* * * *
2025105 CACAACCGAAAGAGGCAAGGTTTGTGTTTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGAT
1 CACAACCGAAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGACAAGAT
* * *
2025170 CTTTTGTCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTTTTCGATCTGCTTCG
66 CTTTTGTCTTCAACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCG
2025235 CTGTCA
131 CTGTCA
2025241 ATGTAGGAAG
Statistics
Matches: 125, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
137 125 1.00
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (137 bp):
CACAACCGAAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGACAAGAT
CTTTTGTCTTCAACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCG
CTGTCAT
Found at i:2025273 original size:225 final size:225
Alignment explanation
Indices: 2024882--2025328 Score: 680
Period size: 225 Copynumber: 2.0 Consensus size: 225
2024872 AGCTCTACTG
** *
2024882 CAACCGATGGAGGCAAGGCTTTGTTTTTCGATCTACTTCGCTGTTAATGCAGGAAGGCAAGATCT
1 CAACCGAAAGAGGCAAGGCTTTGTTTTTCGATCTACTTCGCTGTCAATGCAGGAAGGCAAGATCT
* ** *
2024947 GCTATCTTCAACTAGCTCCACCACAACCGAGGGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGTT
66 GCTATCTTCAACCAGCTCCACCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCT
*
2025012 GTCAATGCAGGAAGACAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGT
131 GTCAATGCAGGAAGACAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAAAGAGGCAAGGT
2025077 TTGTGTCTTCGACCTGCTTCGCTGTCATCA
196 TTGTGTCTTCGACCTGCTTCGCTGTCATCA
* *
2025107 CAACCGAAAGAGGCAAGG-TTTGTGTTTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATC
1 CAACCGAAAGAGGCAAGGCTTTGT-TTTTCGATCTACTTCGCTGTCAATGCAGGAAGGCAAGATC
** * * * * *
2025171 TTTTGTCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTTTTCGATCTGCTTCGC
65 TGCTATCTTCAACCAGCTCCACCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGC
* * *
2025236 TGTCAATGTAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGG
130 TGTCAATGCAGGAAGACAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAAAGAGGCAAGG
* *
2025301 TTTGTGTTTTCGATCTGCTTCGCTGTCA
195 TTTGTGTCTTCGACCTGCTTCGCTGTCA
2025329 ATGTAGGAAG
Statistics
Matches: 199, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
224 5 0.03
225 194 0.97
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.29
Consensus pattern (225 bp):
CAACCGAAAGAGGCAAGGCTTTGTTTTTCGATCTACTTCGCTGTCAATGCAGGAAGGCAAGATCT
GCTATCTTCAACCAGCTCCACCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCT
GTCAATGCAGGAAGACAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAAAGAGGCAAGGT
TTGTGTCTTCGACCTGCTTCGCTGTCATCA
Found at i:2025341 original size:44 final size:44
Alignment explanation
Indices: 2025117--2025343 Score: 156
Period size: 44 Copynumber: 5.2 Consensus size: 44
2025107 CAACCGAAAG
2025117 AGGCAAGGTTTGTGTTTTCGATCTGCTTCGCTGTCAATGTAGGA
1 AGGCAAGGTTTGTGTTTTCGATCTGCTTCGCTGTCAATGTAGGA
* * * * * * ** ** * * *
2025161 AGGCAAGATCTTTTGTCTTCAACCAGC-TCTATCACAACCGAAAG-
1 AGGCAAGGT-TTGTGTTTTCGATCTGCTTCGCTGTCAA-TGTAGGA
2025205 AGGCAAGGTTTGTGTTTTCGATCTGCTTCGCTGTCAATGTAGGA
1 AGGCAAGGTTTGTGTTTTCGATCTGCTTCGCTGTCAATGTAGGA
* * * * * * ** ** * * *
2025249 AGGCAAGATCTTTTGTCTTCAACCAGC-TCTATCACAACCGAAAG-
1 AGGCAAGGT-TTGTGTTTTCGATCTGCTTCGCTGTCAA-TGTAGGA
2025293 AGGCAAGGTTTGTGTTTTCGATCTGCTTCGCTGTCAATGTAGGA
1 AGGCAAGGTTTGTGTTTTCGATCTGCTTCGCTGTCAATGTAGGA
2025337 AGGCAAG
1 AGGCAAG
2025344 ATCTTTTGTC
Statistics
Matches: 123, Mismatches: 52, Indels: 16
0.64 0.27 0.08
Matches are distributed among these distances:
43 30 0.24
44 63 0.51
45 30 0.24
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (44 bp):
AGGCAAGGTTTGTGTTTTCGATCTGCTTCGCTGTCAATGTAGGA
Found at i:2027058 original size:12 final size:12
Alignment explanation
Indices: 2027041--2027085 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
2027031 TCGATTTCTC
*
2027041 TTTTTCTTTTTA
1 TTTTTCTTTTGA
2027053 TTTTTCTTTTGA
1 TTTTTCTTTTGA
**
2027065 TTTTGATTTTG-
1 TTTTTCTTTTGA
2027076 TTTTTCTTTT
1 TTTTTCTTTT
2027086 CCTTTTCCCT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
11 8 0.29
12 20 0.71
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.80
Consensus pattern (12 bp):
TTTTTCTTTTGA
Found at i:2027060 original size:18 final size:18
Alignment explanation
Indices: 2027033--2027085 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 18
2027023 GACTTTGATC
*
2027033 GATTTCTCTTTTTCTTTT
1 GATTTTTCTTTTTCTTTT
* **
2027051 TATTTTTCTTTTGATTTT
1 GATTTTTCTTTTTCTTTT
*
2027069 GA-TTTTGTTTTTCTTTT
1 GATTTTTCTTTTTCTTTT
2027086 CCTTTTCCCT
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
17 12 0.44
18 15 0.56
ACGTcount: A:0.08, C:0.09, G:0.08, T:0.75
Consensus pattern (18 bp):
GATTTTTCTTTTTCTTTT
Found at i:2027091 original size:23 final size:23
Alignment explanation
Indices: 2027048--2027091 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
2027038 CTCTTTTTCT
*
2027048 TTTTATTTTTCTTTTGATTTTGA
1 TTTTATTTTTCTTTTCATTTTGA
* *
2027071 TTTTGTTTTTCTTTTCCTTTT
1 TTTTATTTTTCTTTTCATTTT
2027092 CCCTTGTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.07, C:0.09, G:0.07, T:0.77
Consensus pattern (23 bp):
TTTTATTTTTCTTTTCATTTTGA
Found at i:2029680 original size:19 final size:20
Alignment explanation
Indices: 2029651--2029699 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
2029641 CACTTCGTGA
* *
2029651 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAGATGCATG
*
2029670 CAATGTAATGCAGATGCATG
1 AAATGTAATGCAGATGCATG
2029690 AAATG-AATGC
1 AAATGTAATGC
2029700 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAGATGCATG
Found at i:2030109 original size:1 final size:1
Alignment explanation
Indices: 2030103--2030144 Score: 75
Period size: 1 Copynumber: 42.0 Consensus size: 1
2030093 CAAGACAAAT
*
2030103 AAAAAAAAAAAAAAAAAAAAAAAAACAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2030145 CAATCACTAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.98, C:0.02, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:2030145 original size:17 final size:17
Alignment explanation
Indices: 2030103--2030147 Score: 83
Period size: 17 Copynumber: 2.7 Consensus size: 17
2030093 CAAGACAAAT
2030103 AAAAAAAAA-AAAAAAA
1 AAAAAAAAACAAAAAAA
2030119 AAAAAAAAACAAAAAAA
1 AAAAAAAAACAAAAAAA
2030136 AAAAAAAAACAA
1 AAAAAAAAACAA
2030148 TCACTACCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
16 9 0.32
17 19 0.68
ACGTcount: A:0.96, C:0.04, G:0.00, T:0.00
Consensus pattern (17 bp):
AAAAAAAAACAAAAAAA
Found at i:2032118 original size:3 final size:3
Alignment explanation
Indices: 2032072--2032106 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
2032062 AACATAAACA
2032072 AAT AAGT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2032107 ACAAAATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 25 0.83
4 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:2036772 original size:14 final size:14
Alignment explanation
Indices: 2036753--2036780 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2036743 TTTTAATAAT
2036753 TAAAAAAAAGAAAA
1 TAAAAAAAAGAAAA
2036767 TAAAAAAAAGAAAA
1 TAAAAAAAAGAAAA
2036781 GGATTGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.86, C:0.00, G:0.07, T:0.07
Consensus pattern (14 bp):
TAAAAAAAAGAAAA
Found at i:2038040 original size:31 final size:30
Alignment explanation
Indices: 2038002--2038094 Score: 79
Period size: 31 Copynumber: 3.1 Consensus size: 30
2037992 TTATTATACT
2038002 ATTTGGTACTTAAGTTTAGTTTTAATGTTTA
1 ATTTGGTACTTAAGTTT-GTTTTAATGTTTA
*
2038033 ATTTGGTATCTT-AGTTT-TCTTT--T-TCTA
1 ATTTGGTA-CTTAAGTTTGT-TTTAATGTTTA
* * *
2038060 ATATGGTACCTAAGTTTGGCTTTAATGTTTA
1 ATTTGGTACTTAAGTTT-GTTTTAATGTTTA
2038091 ATTT
1 ATTT
2038095 TATACCCAGA
Statistics
Matches: 48, Mismatches: 6, Indels: 16
0.69 0.09 0.23
Matches are distributed among these distances:
26 2 0.04
27 15 0.31
28 4 0.08
29 1 0.02
30 4 0.08
31 19 0.40
32 3 0.06
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.55
Consensus pattern (30 bp):
ATTTGGTACTTAAGTTTGTTTTAATGTTTA
Found at i:2046185 original size:46 final size:46
Alignment explanation
Indices: 2046132--2046337 Score: 337
Period size: 46 Copynumber: 4.5 Consensus size: 46
2046122 AGTACTTCTA
*
2046132 ATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTG
1 ATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTG
* *
2046178 ATCAAGTGACAAAGTGATAAGTGGTAGCTTTAACTACACTTATCTG
1 ATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTG
*
2046224 ATCAAGTAACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTG
1 ATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTG
*
2046270 ATCAAGTGACAAAGTGATAAGTGATAGC-CTAGCTACACTTATCTG
1 ATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTG
*
2046315 ATC-AGGGAC-AAGTGATAAGTGAT
1 ATCAAGTGACAAAGTGATAAGTGAT
2046338 CATATGTAAG
Statistics
Matches: 153, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
43 14 0.09
44 5 0.03
45 19 0.12
46 115 0.75
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (46 bp):
ATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTG
Found at i:2048253 original size:45 final size:46
Alignment explanation
Indices: 2048177--2048283 Score: 166
Period size: 46 Copynumber: 2.4 Consensus size: 46
2048167 TACGTATGAT
* *
2048177 CACTTATCAC-TTCTC-CTTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
2048220 CACTTATCACTTTGTCACTTGCTCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
2048266 CACTTATCACTTTGTCAC
1 CACTTATCACTTTGTCAC
2048284 CACTTATCAC
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
43 10 0.17
44 4 0.07
45 20 0.34
46 24 0.41
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:2048277 original size:46 final size:45
Alignment explanation
Indices: 2048177--2048399 Score: 191
Period size: 45 Copynumber: 4.6 Consensus size: 45
2048167 TACGTATGAT
* *
2048177 CACTTATCAC-TTCTC-CTTGATCAGATAAGTGTAGCTAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTAC
*
2048220 CACTTATCACTTTGTCACTTGCTCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTAC
* *
2048266 CACTTATCACTTTGTCACCACTT-ATCACTTGTTCCTGATCAGATAAGTGTAGCTAAAACTAC
1 CACTTATCACTTTGT---CACTTGATCA---------GATAAG-T--G--TAGCT-AAGCTAC
* *
2048328 CACTTATCACTTTGTCACTTGATCAGATAAATGTAGCTAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTAC
2048373 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
2048400 AGTACTCAAA
Statistics
Matches: 149, Mismatches: 10, Indels: 40
0.75 0.05 0.20
Matches are distributed among these distances:
43 10 0.07
44 4 0.03
45 52 0.35
46 26 0.17
48 4 0.03
49 5 0.03
50 1 0.01
51 4 0.03
57 5 0.03
58 1 0.01
59 5 0.03
60 5 0.03
62 27 0.18
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.34
Consensus pattern (45 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTAC
Found at i:2048317 original size:62 final size:64
Alignment explanation
Indices: 2048218--2048345 Score: 208
Period size: 62 Copynumber: 2.0 Consensus size: 64
2048208 TAGCTAGGCT
* *
2048218 ACCACTTATCACTTTGTCACTTGCTCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTC
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTTGTC
2048282 ACCACTTATCAC-TTGTTC-C-TGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTTGTC
1 ACCACTTATCACTTTG-TCACTTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTTGTC
2048344 AC
1 AC
2048346 TTGATCAGAT
Statistics
Matches: 61, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
62 43 0.70
63 4 0.07
64 14 0.23
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.34
Consensus pattern (64 bp):
ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTTGTC
Found at i:2048377 original size:107 final size:107
Alignment explanation
Indices: 2048177--2048390 Score: 342
Period size: 107 Copynumber: 2.0 Consensus size: 107
2048167 TACGTATGAT
** *
2048177 CACTTATCACTTCTCCTTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTTGC
1 CACTTATCACTTCTCCTTGATCAGATAAGTGTAGCTAAACTACCACTTATCACTTTGTCACTTGA
*
2048242 TCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCAC
66 TCAGATAAATGTAGCTAAAGCTACCACTTATCACTTTGTCAC
*
2048284 CACTTATCACTTGTTCC-TGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTTGTCACTT
1 CACTTATCACTT-CTCCTTGATCAGATAAGTGTAGCT-AAACTACCACTTATCACTTTGTCACTT
*
2048348 GATCAGATAAATGTAGCT-AAGCTATCACTTATCACTTTGTCAC
64 GATCAGATAAATGTAGCTAAAGCTACCACTTATCACTTTGTCAC
2048391 TTGATCAGAA
Statistics
Matches: 99, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
107 55 0.56
108 44 0.44
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (107 bp):
CACTTATCACTTCTCCTTGATCAGATAAGTGTAGCTAAACTACCACTTATCACTTTGTCACTTGA
TCAGATAAATGTAGCTAAAGCTACCACTTATCACTTTGTCAC
Found at i:2052317 original size:48 final size:48
Alignment explanation
Indices: 2052228--2052321 Score: 120
Period size: 48 Copynumber: 2.0 Consensus size: 48
2052218 TTTCTTGGCT
* * *
2052228 TAAAAACGCCTAAGTCAGCCTAACTTCCACCGATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
*
2052276 TAAAAATGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
2052322 AGAATTCCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
47 4 0.10
48 36 0.90
ACGTcount: A:0.39, C:0.27, G:0.14, T:0.20
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:2054832 original size:48 final size:48
Alignment explanation
Indices: 2054743--2054836 Score: 120
Period size: 48 Copynumber: 2.0 Consensus size: 48
2054733 TTTCTTGGCT
* * *
2054743 TAAAAACGCCTAAGTCAGCCTAACTTCCACCGATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
*
2054791 TAAAAATGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
2054837 AGAATTCCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
47 4 0.10
48 36 0.90
ACGTcount: A:0.39, C:0.27, G:0.14, T:0.20
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:2061769 original size:24 final size:24
Alignment explanation
Indices: 2061714--2061771 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
2061704 AAATTTAAAT
*
2061714 AATATAATTATATTTAATTTTTAA
1 AATATAAATATATTTAATTTTTAA
* *
2061738 AACA-AAATA-ATTTAATTTTTTTA
1 AATATAAATATATTTAA-TTTTTAA
2061761 AATATAAATAT
1 AATATAAATAT
2061772 TAATACTCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
22 6 0.22
23 13 0.48
24 8 0.30
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
AATATAAATATATTTAATTTTTAA
Found at i:2061932 original size:18 final size:19
Alignment explanation
Indices: 2061892--2061937 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
2061882 CATTAATTAT
2061892 ATTTTAAATATGTATTTAG
1 ATTTTAAATATGTATTTAG
2061911 ATTTT-AATAGTGTATTTA-
1 ATTTTAAATA-TGTATTTAG
2061929 ATTTATAAA
1 ATTT-TAAA
2061938 AAAAATTATC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 8 0.33
19 14 0.58
20 2 0.08
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (19 bp):
ATTTTAAATATGTATTTAG
Found at i:2072621 original size:24 final size:25
Alignment explanation
Indices: 2072594--2072647 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
2072584 CAATGTATGA
* *
2072594 AATTTTAAAT-GTTTAATTACTTTT
1 AATTTTAAATAATTTAATTAATTTT
*
2072618 AA-TTTAATTAATTTAATTAATTTT
1 AATTTTAAATAATTTAATTAATTTT
2072642 AATTTT
1 AATTTT
2072648 TAATTTAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 6 0.24
24 16 0.64
25 3 0.12
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (25 bp):
AATTTTAAATAATTTAATTAATTTT
Found at i:2072630 original size:9 final size:9
Alignment explanation
Indices: 2072616--2072645 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
2072606 TTAATTACTT
2072616 TTAATTTAA
1 TTAATTTAA
2072625 TTAATTTAA
1 TTAATTTAA
2072634 TTAATTTTAA
1 TTAA-TTTAA
2072644 TT
1 TT
2072646 TTTAATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.65
10 7 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TTAATTTAA
Found at i:2075576 original size:16 final size:15
Alignment explanation
Indices: 2075555--2075588 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
2075545 GAATTGAATA
2075555 ATTGTATGATATAGTT
1 ATTGTATGATATA-TT
*
2075571 ATTGTATGTTATATT
1 ATTGTATGATATATT
2075586 ATT
1 ATT
2075589 TTACTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.29, C:0.00, G:0.15, T:0.56
Consensus pattern (15 bp):
ATTGTATGATATATT
Found at i:2082321 original size:29 final size:31
Alignment explanation
Indices: 2082273--2082334 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 31
2082263 TTATTCCAAA
2082273 AAGCATAAAAACGCAATAATAACT-AAAATT
1 AAGCATAAAAACGCAATAATAACTGAAAATT
* * *
2082303 AAGCATAAAATC-TAATAATCACTGAAAATT
1 AAGCATAAAAACGCAATAATAACTGAAAATT
2082333 AA
1 AA
2082335 TAAAATATGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 9 0.32
30 19 0.68
ACGTcount: A:0.58, C:0.13, G:0.06, T:0.23
Consensus pattern (31 bp):
AAGCATAAAAACGCAATAATAACTGAAAATT
Found at i:2084024 original size:77 final size:77
Alignment explanation
Indices: 2083897--2084050 Score: 308
Period size: 77 Copynumber: 2.0 Consensus size: 77
2083887 GCATGTTACA
2083897 CAAAGTATTTATACATAACTTTATTATGGGTATGATATGTAAGGTATAACATCCCCTATTCATGA
1 CAAAGTATTTATACATAACTTTATTATGGGTATGATATGTAAGGTATAACATCCCCTATTCATGA
2083962 ATTGAATGCGAT
66 ATTGAATGCGAT
2083974 CAAAGTATTTATACATAACTTTATTATGGGTATGATATGTAAGGTATAACATCCCCTATTCATGA
1 CAAAGTATTTATACATAACTTTATTATGGGTATGATATGTAAGGTATAACATCCCCTATTCATGA
2084039 ATTGAATGCGAT
66 ATTGAATGCGAT
2084051 AGCCACTATT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 77 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (77 bp):
CAAAGTATTTATACATAACTTTATTATGGGTATGATATGTAAGGTATAACATCCCCTATTCATGA
ATTGAATGCGAT
Found at i:2084375 original size:17 final size:17
Alignment explanation
Indices: 2084343--2084376 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2084333 TAACCGTGCA
*
2084343 ATATATTTGGCATAATT
1 ATATATTTAGCATAATT
*
2084360 ATATATTTAGCCTAATT
1 ATATATTTAGCATAATT
2084377 TTTATTTTCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.47
Consensus pattern (17 bp):
ATATATTTAGCATAATT
Found at i:2087618 original size:11 final size:11
Alignment explanation
Indices: 2087602--2087626 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2087592 GTAAAAATAA
2087602 AAATTATTTTT
1 AAATTATTTTT
2087613 AAATTATTTTT
1 AAATTATTTTT
2087624 AAA
1 AAA
2087627 ATAAGTACAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
AAATTATTTTT
Found at i:2087996 original size:14 final size:14
Alignment explanation
Indices: 2087977--2088003 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2087967 TTTCTAATAT
2087977 TTTTTTATAAATTA
1 TTTTTTATAAATTA
2087991 TTTTTTATAAATT
1 TTTTTTATAAATT
2088004 TGTTATGGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTTTATAAATTA
Found at i:2088122 original size:28 final size:28
Alignment explanation
Indices: 2088091--2088148 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
2088081 AAAATTTAAC
2088091 AAATATTAATATTTTTA-ATTTTTTTTAT
1 AAAT-TTAATATTTTTATATTTTTTTTAT
* *
2088119 AAATTTTATATTTTTATGTTTTTTTTAT
1 AAATTTAATATTTTTATATTTTTTTTAT
2088147 AA
1 AA
2088149 TTCCAAAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 11 0.41
28 16 0.59
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (28 bp):
AAATTTAATATTTTTATATTTTTTTTAT
Found at i:2088706 original size:44 final size:44
Alignment explanation
Indices: 2088629--2088718 Score: 139
Period size: 44 Copynumber: 2.0 Consensus size: 44
2088619 CCGAATTTAA
2088629 TTTAATTGTTTTATTTTTTATTTTAAAGCAAATAAGATTATATTT
1 TTTAATTGTTTTATTTTTTATTTTAAAGCAAATAAGATTAT-TTT
*
2088674 TTTAATTGTTTTA-TTTTTATTTTGAAA-CAAATAATATTATTTT
1 TTTAATTGTTTTATTTTTTATTTT-AAAGCAAATAAGATTATTTT
2088717 TT
1 TT
2088719 GAGTTTAGAA
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
43 5 0.12
44 22 0.51
45 16 0.37
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (44 bp):
TTTAATTGTTTTATTTTTTATTTTAAAGCAAATAAGATTATTTT
Found at i:2094211 original size:13 final size:13
Alignment explanation
Indices: 2094190--2094233 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
2094180 GTGGAGCTAA
*
2094190 TTATGGATGATTT
1 TTATTGATGATTT
2094203 TTATTGATGATTACTT
1 TTATTGATGA-T--TT
2094219 TTATTGATGATTT
1 TTATTGATGATTT
2094232 TT
1 TT
2094234 CTAGAAAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 13 0.48
14 1 0.04
15 1 0.04
16 12 0.44
ACGTcount: A:0.23, C:0.02, G:0.16, T:0.59
Consensus pattern (13 bp):
TTATTGATGATTT
Found at i:2103291 original size:24 final size:24
Alignment explanation
Indices: 2103264--2103312 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
2103254 AATTTTAAAC
2103264 ATAAAAGAATAATGTTTACATTAT
1 ATAAAAGAATAATGTTTACATTAT
*
2103288 ATAACAGAATAATGTTTACATTAT
1 ATAAAAGAATAATGTTTACATTAT
2103312 A
1 A
2103313 ATGTTATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.37
Consensus pattern (24 bp):
ATAAAAGAATAATGTTTACATTAT
Found at i:2104591 original size:60 final size:59
Alignment explanation
Indices: 2104487--2104603 Score: 139
Period size: 60 Copynumber: 2.0 Consensus size: 59
2104477 ATACTAGTAG
* * *
2104487 TCACCCAATTATTAGTAATTTTTATTTTTGATCATCTAATTATGAAAAGTTACAAATAA
1 TCACCCAATTAATAGTAATTTTTATTTTTGATCATCTAACTATGAAAAATTACAAATAA
* * *
2104546 TCACTCAATTAATAGTTAATTTCTT-TTTTTGGTCA-CTCAACTATGAAAAATTATAAAT
1 TCACCCAATTAATAG-TAATTT-TTATTTTTGATCATCT-AACTATGAAAAATTACAAAT
2104604 TGGTCACCCA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
59 15 0.31
60 32 0.65
61 2 0.04
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.43
Consensus pattern (59 bp):
TCACCCAATTAATAGTAATTTTTATTTTTGATCATCTAACTATGAAAAATTACAAATAA
Found at i:2106012 original size:20 final size:18
Alignment explanation
Indices: 2105989--2106031 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
2105979 AAAAGCCATT
2105989 ATTTTTTTAAAATAATTATC
1 ATTTTTTT-AAATAA-TATC
* *
2106009 ATTTATTTAAATTATATC
1 ATTTTTTTAAATAATATC
2106027 ATTTT
1 ATTTT
2106032 AATTTTTCAC
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 8 0.40
19 5 0.25
20 7 0.35
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTTTTTAAATAATATC
Found at i:2107913 original size:3 final size:3
Alignment explanation
Indices: 2107905--2107930 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2107895 CAACTCGGGC
2107905 TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TG
2107931 GTCATCAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:2109897 original size:22 final size:21
Alignment explanation
Indices: 2109863--2109932 Score: 97
Period size: 22 Copynumber: 3.2 Consensus size: 21
2109853 AAATTCAATA
2109863 TCAATATCCTTCAAAAATTCTC
1 TCAAT-TCCTTCAAAAATTCTC
2109885 TCAATTCCGTTCAAAAATTCTC
1 TCAATTCC-TTCAAAAATTCTC
2109907 TCAAATTCCTTTC-AAAATTCTC
1 TC-AATTCC-TTCAAAAATTCTC
2109929 TCAA
1 TCAA
2109933 ACTCTCAAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
21 5 0.11
22 31 0.69
23 9 0.20
ACGTcount: A:0.34, C:0.27, G:0.01, T:0.37
Consensus pattern (21 bp):
TCAATTCCTTCAAAAATTCTC
Found at i:2109933 original size:22 final size:23
Alignment explanation
Indices: 2109872--2109933 Score: 101
Period size: 22 Copynumber: 2.8 Consensus size: 23
2109862 ATCAATATCC
2109872 TTCAAAAATTCTCTC-AATTCCG
1 TTCAAAAATTCTCTCAAATTCCG
*
2109894 TTCAAAAATTCTCTCAAATTCCT
1 TTCAAAAATTCTCTCAAATTCCG
2109917 TTC-AAAATTCTCTCAAA
1 TTCAAAAATTCTCTCAAA
2109934 CTCTCAAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
22 29 0.76
23 9 0.24
ACGTcount: A:0.35, C:0.26, G:0.02, T:0.37
Consensus pattern (23 bp):
TTCAAAAATTCTCTCAAATTCCG
Found at i:2109939 original size:30 final size:30
Alignment explanation
Indices: 2109904--2109962 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
2109894 TTCAAAAATT
* *
2109904 CTCTCAAATTCCTTTCAAAATTCTCTCAAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAAA
2109934 CTCTCAAATTCCTTCCAAAATCCTCTCAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAA
2109963 TTTCCTTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.34, G:0.00, T:0.34
Consensus pattern (30 bp):
CTCTCAAATTCCTTCCAAAATCCTCTCAAA
Found at i:2109973 original size:21 final size:22
Alignment explanation
Indices: 2109934--2109975 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
2109924 TTCTCTCAAA
2109934 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
2109956 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
2109976 ATCTCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:2110081 original size:29 final size:29
Alignment explanation
Indices: 2110021--2110081 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
2110011 AATTTCATTA
* *
2110021 TTTTAAGAAAATTTTAAAATTTTTTATTT
1 TTTTAAGAAAATTTTAAAATTTTTAATAT
2110050 TTTTAA-AATAATTTTAAAATTTTTAATAT
1 TTTTAAGAA-AATTTTAAAATTTTTAATAT
2110079 TTT
1 TTT
2110082 CAACAATGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 2 0.07
29 27 0.93
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (29 bp):
TTTTAAGAAAATTTTAAAATTTTTAATAT
Found at i:2110201 original size:14 final size:15
Alignment explanation
Indices: 2110172--2110205 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
2110162 AAATTTTAAA
2110172 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
2110187 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
2110201 TTTTA
1 TTTTA
2110206 GATATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:2112375 original size:28 final size:28
Alignment explanation
Indices: 2112329--2112811 Score: 532
Period size: 28 Copynumber: 18.4 Consensus size: 28
2112319 TTTTGACATT
* *
2112329 ATTTGATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
* *
2112357 ATATAATTAAAAA--CT---CTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
*
2112380 ACTTAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
2112408 ATTTAATTAAAAACCCTAA-C--A--TA
1 ATTTAATTAAAAACCCTAACCTAACCTA
2112431 ATTTAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
**
2112459 ATTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
2112487 ATTTAATTAAAAACCCTAA-C--A--TA
1 ATTTAATTAAAAACCCTAACCTAACCTA
2112510 ATTTAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
* **
2112538 ATTTAATTAAAACCCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
2112566 ATTTAATTAAAAACCCTAA-C--A--TA
1 ATTTAATTAAAAACCCTAACCTAACCTA
*
2112589 ATTTAATTAAAAACCCTAACCCTAACATA
1 ATTTAATTAAAAACCCTAA-CCTAACCTA
*
2112618 ATTTAATTAAAATCCCTAACTCTAACCTA
1 ATTTAATTAAAAACCCTAAC-CTAACCTA
2112647 ATTTAATTAAAAA-CCT----TAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
* *
2112670 GTTTAGTTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAACCTA
**
2112699 ATTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
2112727 ATTTAATTAAAAA--C---CCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
2112750 ATTTAATTAAAAA-CC--A--TAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
*
2112773 ATTTAATTAAAAACCCTGACTCTAACCTA
1 ATTTAATTAAAAACCCTAAC-CTAACCTA
2112802 ATTTAATTAA
1 ATTTAATTAA
2112812 TGTAAAAACC
Statistics
Matches: 396, Mismatches: 23, Indels: 71
0.81 0.05 0.14
Matches are distributed among these distances:
23 140 0.35
24 8 0.02
25 6 0.02
26 6 0.02
27 4 0.01
28 152 0.38
29 80 0.20
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.32
Consensus pattern (28 bp):
ATTTAATTAAAAACCCTAACCTAACCTA
Found at i:2112415 original size:51 final size:51
Alignment explanation
Indices: 2112329--2112789 Score: 457
Period size: 51 Copynumber: 8.9 Consensus size: 51
2112319 TTTTGACATT
* * * *
2112329 ATTTGATTAAAAACCCTAACCTAACTTAATATAATTAAAAACTCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACTTA
* *
2112380 ACTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACATA
1 ATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACTTA
2112431 ATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAA-C----TTA
2112487 ATTTAATTAAAAACCCTAA-C--A--TAATTTAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAA-CT----TA
* ** *
2112538 ATTTAATTAAAACCCCTAACCTAATTTAATTTAATTAAAAACCCTAACATA
1 ATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACTTA
* *
2112589 ATTTAATTAAAAACCCTAACCCTAACATAATTTAATTAAAATCCCTAACTCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAACCTAATTTAATTAAAAACCCTAA--CT----TA
* *
2112647 ATTTAATTAAAAA-CCT----TAACCTAGTTTAGTTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAA--CT----TA
** *
2112699 ATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACTTA
2112750 ATTTAATTAAAAA-CC--A--TAACCTAATTTAATTAAAAACCCT
1 ATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCT
2112790 GACTCTAACC
Statistics
Matches: 357, Mismatches: 27, Indels: 57
0.81 0.06 0.13
Matches are distributed among these distances:
46 22 0.06
47 1 0.00
48 1 0.00
50 2 0.01
51 169 0.47
52 71 0.20
53 4 0.01
54 2 0.01
55 3 0.01
56 42 0.12
57 25 0.07
58 15 0.04
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (51 bp):
ATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACTTA
Found at i:2112787 original size:23 final size:23
Alignment explanation
Indices: 2112346--2112787 Score: 249
Period size: 23 Copynumber: 17.2 Consensus size: 23
2112336 TAAAAACCCT
* *
2112346 AACC-TAACTTAATATAATTAAA
1 AACCATAACCTAATTTAATTAAA
* *
2112368 AACTC-TAACTTAACTTAATTAAA
1 AAC-CATAACCTAATTTAATTAAA
2112391 AACCCTAACCTAACCTAATTTAATTAAA
1 AA-CC--A--TAACCTAATTTAATTAAA
* *
2112419 AACCCTAACATAATTTAATTAAA
1 AACCATAACCTAATTTAATTAAA
2112442 AACCCTAACCTAACCTAATTTAATTAAA
1 AA-CC--A--TAACCTAATTTAATTAAA
*
2112470 AACCCTAACCTAATTTAATTTAATTAAA
1 AACCATAACC-----TAATTTAATTAAA
* *
2112498 AACCCTAACATAATTTAATTAAA
1 AACCATAACCTAATTTAATTAAA
2112521 AACCCTAACCTAACCTAATTTAATTAAA
1 AA-CC--A--TAACCTAATTTAATTAAA
* *
2112549 ACCCCTAACCTAATTTAATTTAATTAAA
1 AACCATAACC-----TAATTTAATTAAA
* *
2112577 AACCCTAACATAATTTAATTAAA
1 AACCATAACCTAATTTAATTAAA
*
2112600 AACCCTAACCCTAACATAATTTAATTAAA
1 AA-CC--A---TAACCTAATTTAATTAAA
*
2112629 ATCCCTAACTCTAACCTAATTTAATTAAA
1 A-ACC--A---TAACCTAATTTAATTAAA
* * *
2112658 AACCTTAACCTAGTTTAGTTAAA
1 AACCATAACCTAATTTAATTAAA
2112681 AACCCTAACCCTAACCTAATTTAATTAAA
1 AA-CC--A---TAACCTAATTTAATTAAA
*
2112710 AACCCTAACCTAATTTAATTTAATTAAA
1 AACCATAACC-----TAATTTAATTAAA
*
2112738 AACCCTAACCTAATTTAATTAAA
1 AACCATAACCTAATTTAATTAAA
2112761 AACCATAACCTAATTTAATTAAA
1 AACCATAACCTAATTTAATTAAA
2112784 AACC
1 AACC
2112788 CTGACTCTAA
Statistics
Matches: 346, Mismatches: 29, Indels: 89
0.75 0.06 0.19
Matches are distributed among these distances:
22 3 0.01
23 141 0.41
24 9 0.03
27 6 0.02
28 125 0.36
29 62 0.18
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.31
Consensus pattern (23 bp):
AACCATAACCTAATTTAATTAAA
Found at i:2116242 original size:124 final size:124
Alignment explanation
Indices: 2116029--2116294 Score: 417
Period size: 124 Copynumber: 2.1 Consensus size: 124
2116019 CCACGAGGGC
2116029 GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCG
1 GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCG
* * * * **
2116094 AAATCGCGTCCACGAGGGCGCGATTTTACAATTTCTTCTCATATAGCATCCTGGTATCA
66 AAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
* * *
2116153 GCGATTTTATACTATTTGCTCAGAAAACGTCAAAAAAAATTATTTCTTACATGACC-ACTGTAGC
1 GCGATTTGACACTATTTGCTCAG-AAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGC
2116217 GAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
65 GAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
**
2116277 GCGATTTCCCACTATTTG
1 GCGATTTGACACTATTTG
2116295 ACCAGATACA
Statistics
Matches: 129, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
124 98 0.76
125 31 0.24
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (124 bp):
GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCG
AAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
Found at i:2119027 original size:6 final size:6
Alignment explanation
Indices: 2119018--2119047 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
2119008 TATATATATA
2119018 TTTCTT TTTCTT TTTCTT TTT-TT TTTCTT T
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT T
2119048 CTTCAAAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (6 bp):
TTTCTT
Found at i:2119042 original size:11 final size:12
Alignment explanation
Indices: 2119018--2119047 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
2119008 TATATATATA
2119018 TTTCTTTTTCTT
1 TTTCTTTTTCTT
2119030 TTTCTTTTT-TT
1 TTTCTTTTTCTT
2119041 TTTCTTT
1 TTTCTTT
2119048 CTTCAAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.50
12 9 0.50
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (12 bp):
TTTCTTTTTCTT
Found at i:2121850 original size:25 final size:26
Alignment explanation
Indices: 2121810--2121858 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
2121800 ATATAACATA
*
2121810 ATACTACAATATTGTTCATACCAATG
1 ATACTACAATATTGTTCAAACCAATG
2121836 ATACTAC-ATATTGTTCAAACCAA
1 ATACTACAATATTGTTCAAACCAA
2121859 ATAATCATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.41, C:0.20, G:0.06, T:0.33
Consensus pattern (26 bp):
ATACTACAATATTGTTCAAACCAATG
Found at i:2122017 original size:13 final size:13
Alignment explanation
Indices: 2121999--2122025 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2121989 ACTTTTTTTG
2121999 TTTAAAAATTGTT
1 TTTAAAAATTGTT
2122012 TTTAAAAATTGTT
1 TTTAAAAATTGTT
2122025 T
1 T
2122026 ATACTTCAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (13 bp):
TTTAAAAATTGTT
Found at i:2129877 original size:53 final size:53
Alignment explanation
Indices: 2129812--2129918 Score: 196
Period size: 53 Copynumber: 2.0 Consensus size: 53
2129802 CTTCTAAGTG
2129812 GTTTCTGGACATCCAAATTAATTCTGAGTCGACAGAATTCTTCACTAATTTCA
1 GTTTCTGGACATCCAAATTAATTCTGAGTCGACAGAATTCTTCACTAATTTCA
* *
2129865 GTTTCTGGACATCCAAATTAATTCTGTGTCGACAGAATTCTTTACTAATTTCA
1 GTTTCTGGACATCCAAATTAATTCTGAGTCGACAGAATTCTTCACTAATTTCA
2129918 G
1 G
2129919 ATCTGAGAAC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (53 bp):
GTTTCTGGACATCCAAATTAATTCTGAGTCGACAGAATTCTTCACTAATTTCA
Found at i:2131500 original size:13 final size:13
Alignment explanation
Indices: 2131482--2131507 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2131472 AAAGTATTTT
2131482 AAAATTAAAAATA
1 AAAATTAAAAATA
2131495 AAAATTAAAAATA
1 AAAATTAAAAATA
2131508 TATATTTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AAAATTAAAAATA
Found at i:2138547 original size:154 final size:154
Alignment explanation
Indices: 2138261--2139262 Score: 1734
Period size: 154 Copynumber: 6.5 Consensus size: 154
2138251 TATTAAAAAT
* * *
2138261 TCAACAGGGTCTATAGCTCAGTGCTAGAGCATTTGACTGCAGATCAAGAGGTCACCGGTTCGAAC
1 TCAACGGGGTCCATAGCTCAGTGGTAGAGCATTTGACTGCAGATCAAGAGGTCACCGGTTCGAAC
** * * * *
2138326 CCGGTTGGGCCCTAATTTTACCTATTTTTGCCAAGTCCGTCCAAAATTTCCATCGTTTATACATG
66 CCGGTTGGGCCCTGCTTTTACTTAATTTTGCCAAGTCCGTCCAAAACTTCCATAGTTTATACATG
**
2138391 TAGTAACCAAAGTATCATTGCTTC
131 TAGTAACCAAAGTAAAATTGCTTC
**
2138415 TCAGTGGGGTCCATAGCTCAGTGGTAGAGCATTTGACTGCAGATCAAGAGGTCACCGGTTCGAAC
1 TCAACGGGGTCCATAGCTCAGTGGTAGAGCATTTGACTGCAGATCAAGAGGTCACCGGTTCGAAC
*
2138480 CCGGTTGGGCCCTGCTTTTACTTAATTTTGCCAAGTCCGTCCTAAACTTCCATAGTTTATACATG
66 CCGGTTGGGCCCTGCTTTTACTTAATTTTGCCAAGTCCGTCCAAAACTTCCATAGTTTATACATG
* * *
2138545 TAGTAACCAAAGTAGAATTGTTTT
131 TAGTAACCAAAGTAAAATTGCTTC
* *
2138569 TGAATGGGGTCCATAGCTCAGTGGTAGAGCATTTGACTGCAGATCAAGAGGTCACCGGTTCGAAC
1 TCAACGGGGTCCATAGCTCAGTGGTAGAGCATTTGACTGCAGATCAAGAGGTCACCGGTTCGAAC
*
2138634 CCGGTTGGGCCCTGCTTTTACTTAATTTTGCCAAGTCCGTCCTAAACTTCCATAGTTTATACATG
66 CCGGTTGGGCCCTGCTTTTACTTAATTTTGCCAAGTCCGTCCAAAACTTCCATAGTTTATACATG
2138699 TAGTAACCAAAGTAAAATTGCTTC
131 TAGTAACCAAAGTAAAATTGCTTC
2138723 TCAACGGGGTCCATAGCTCAGTGGTAGAGCATTTGACTGCAGATCAAGAGGTCACCGGTTCGAAC
1 TCAACGGGGTCCATAGCTCAGTGGTAGAGCATTTGACTGCAGATCAAGAGGTCACCGGTTCGAAC
*
2138788 CCGGTTGGGCCCTGCTTTTACTTAATTTTGCCAAGTCCGTCCTAAACTTCCATAGTTTATACATG
66 CCGGTTGGGCCCTGCTTTTACTTAATTTTGCCAAGTCCGTCCAAAACTTCCATAGTTTATACATG
2138853 TAGTAACCAAAGTAAAATTGCTTC
131 TAGTAACCAAAGTAAAATTGCTTC
2138877 TCAACGGGGTCCATAGCTCAGTGGTAGAGCATTTGACTGCAGATCAAGAGGTCACCGGTTCGAAC
1 TCAACGGGGTCCATAGCTCAGTGGTAGAGCATTTGACTGCAGATCAAGAGGTCACCGGTTCGAAC
*
2138942 CCGGTTAGGCCCTGCTTTTACTTAATTTTGCCAAGTCCGTCCAAAACTTCCATAGTTTATACATG
66 CCGGTTGGGCCCTGCTTTTACTTAATTTTGCCAAGTCCGTCCAAAACTTCCATAGTTTATACATG
*
2139007 TAGTAGCCAAAGTAAAATTGCTTC
131 TAGTAACCAAAGTAAAATTGCTTC
*
2139031 TCAACGGGGTCCATAGCTCAGTGGTAGAGCATTTGACTGCAAATCAAGAGGTCACCGGTTCGAAC
1 TCAACGGGGTCCATAGCTCAGTGGTAGAGCATTTGACTGCAGATCAAGAGGTCACCGGTTCGAAC
2139096 CCGGTTGGGCCCTGCTTTTACTTAATTTTGCCAAGTCCGTCCAAAACTTCCATAGTTTATACATG
66 CCGGTTGGGCCCTGCTTTTACTTAATTTTGCCAAGTCCGTCCAAAACTTCCATAGTTTATACATG
* *
2139161 TAGTAGCCAAAGTAAAATTGCCTC
131 TAGTAACCAAAGTAAAATTGCTTC
***
2139185 TCAATAAGGTCCATAGCTCAGTGGTAGAGCATTTGACTGCAGATCAAGAGGTCACCGGTTCGAAC
1 TCAACGGGGTCCATAGCTCAGTGGTAGAGCATTTGACTGCAGATCAAGAGGTCACCGGTTCGAAC
*
2139250 CTGGTTGGGCCCT
66 CCGGTTGGGCCCT
2139263 CTATATTTTT
Statistics
Matches: 814, Mismatches: 34, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
154 814 1.00
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (154 bp):
TCAACGGGGTCCATAGCTCAGTGGTAGAGCATTTGACTGCAGATCAAGAGGTCACCGGTTCGAAC
CCGGTTGGGCCCTGCTTTTACTTAATTTTGCCAAGTCCGTCCAAAACTTCCATAGTTTATACATG
TAGTAACCAAAGTAAAATTGCTTC
Found at i:2140395 original size:18 final size:17
Alignment explanation
Indices: 2140357--2140399 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 17
2140347 TTAATACATA
2140357 ATTATATATTATTAATAT
1 ATTA-ATATTATTAATAT
2140375 ATTAATATTATCT-ATACT
1 ATTAATATTAT-TAATA-T
2140393 ATTAATA
1 ATTAATA
2140400 AAACTCTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTAATATTATTAATAT
Found at i:2141423 original size:20 final size:21
Alignment explanation
Indices: 2141390--2141428 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
2141380 AATGTTATAG
2141390 TAAATATTTATTT-ATTATCA
1 TAAATATTTATTTAATTATCA
2141410 TAAATATATT-TTTAATTAT
1 TAAATAT-TTATTTAATTAT
2141429 TATTTAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (21 bp):
TAAATATTTATTTAATTATCA
Found at i:2145000 original size:15 final size:15
Alignment explanation
Indices: 2144980--2145013 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
2144970 GGACTTAGAG
2144980 TTTTCTTCTTTTT-TT
1 TTTTCTT-TTTTTCTT
2144995 TTTTCTTTTTTTCTT
1 TTTTCTTTTTTTCTT
2145010 TTTT
1 TTTT
2145014 GGGGTTGGCG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTTCTTTTTTTCTT
Found at i:2145003 original size:8 final size:8
Alignment explanation
Indices: 2144980--2145013 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
2144970 GGACTTAGAG
*
2144980 TTTTCTTC
1 TTTTCTTT
2144988 TTTT-TTT
1 TTTTCTTT
2144995 TTTTCTTT
1 TTTTCTTT
2145003 TTTTCTTT
1 TTTTCTTT
2145011 TTT
1 TTT
2145014 GGGGTTGGCG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 6 0.25
8 18 0.75
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTCTTT
Found at i:2145685 original size:18 final size:17
Alignment explanation
Indices: 2145662--2145695 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
2145652 AATTTGGTAC
*
2145662 TTTCCTTTTTCTCTTTTT
1 TTTCCTTATTCT-TTTTT
2145680 TTTCCTTATTCTTTTT
1 TTTCCTTATTCTTTTT
2145696 CTTGCTTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTCCTTATTCTTTTTT
Found at i:2148817 original size:23 final size:22
Alignment explanation
Indices: 2148776--2148819 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
2148766 TTTTTGGAAA
*
2148776 TTTTTTGAACTTTTAATTAATT
1 TTTTTTGAAATTTTAATTAATT
*
2148798 TTTTTTGAAATTTCTCATTAAT
1 TTTTTTGAAATTT-TAATTAAT
2148820 CTCACAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.27, C:0.07, G:0.05, T:0.61
Consensus pattern (22 bp):
TTTTTTGAAATTTTAATTAATT
Found at i:2149091 original size:14 final size:15
Alignment explanation
Indices: 2149066--2149103 Score: 55
Period size: 13 Copynumber: 2.7 Consensus size: 15
2149056 TGTAAATACG
2149066 TATTATTTTATTTAA
1 TATTATTTTATTTAA
2149081 TATTA-TTTATTT-A
1 TATTATTTTATTTAA
2149094 T-TTATTTTAT
1 TATTATTTTAT
2149104 CTAGCATCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.14
13 7 0.32
14 7 0.32
15 5 0.23
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TATTATTTTATTTAA
Found at i:2151114 original size:18 final size:17
Alignment explanation
Indices: 2151091--2151129 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
2151081 AACAAGAACC
* *
2151091 ATATATATGATGAAAAAG
1 ATATATATCAT-AAAAAA
2151109 ATATATATCATAAAAAA
1 ATATATATCATAAAAAA
2151126 ATAT
1 ATAT
2151130 TGATAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.31
Consensus pattern (17 bp):
ATATATATCATAAAAAA
Found at i:2154607 original size:24 final size:25
Alignment explanation
Indices: 2154546--2154609 Score: 76
Period size: 24 Copynumber: 2.5 Consensus size: 25
2154536 AAATTTTAAA
*
2154546 AATATATTTTAAAAATTAAAAATCATT
1 AATAT-TTTTAAAAAATAAAAA-CATT
* *
2154573 AACATTATTAAAAAATAAAAA-ATT
1 AATATTTTTAAAAAATAAAAACATT
2154597 AATATTTTTAAAA
1 AATATTTTTAAAA
2154610 TTTAATTAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
24 14 0.44
26 14 0.44
27 4 0.12
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (25 bp):
AATATTTTTAAAAAATAAAAACATT
Found at i:2155539 original size:4 final size:4
Alignment explanation
Indices: 2155530--2155554 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
2155520 CAATACTATT
2155530 TGCA TGCA TGCA TGCA TGCA TGCA T
1 TGCA TGCA TGCA TGCA TGCA TGCA T
2155555 ACATAATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (4 bp):
TGCA
Found at i:2157611 original size:19 final size:19
Alignment explanation
Indices: 2157587--2157656 Score: 63
Period size: 19 Copynumber: 3.6 Consensus size: 19
2157577 TAAATATATT
2157587 TATTTTTTAAATTTTAAAA
1 TATTTTTTAAATTTTAAAA
**
2157606 TATTTTTTACATACTTTT-TGA
1 TATTTTTTA-A-A-TTTTAAAA
*
2157627 T-TTTTTTTAATTTTAAAA
1 TATTTTTTAAATTTTAAAA
*
2157645 TATTTTTAAAAT
1 TATTTTTTAAAT
2157657 ACTTTTTTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
17 4 0.10
18 3 0.08
19 18 0.46
20 7 0.18
21 3 0.08
22 4 0.10
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.61
Consensus pattern (19 bp):
TATTTTTTAAATTTTAAAA
Found at i:2157635 original size:40 final size:40
Alignment explanation
Indices: 2157588--2157771 Score: 219
Period size: 40 Copynumber: 4.5 Consensus size: 40
2157578 AAATATATTT
* * * *
2157588 ATTTTTTAAATTTTAAAATATTTTTTACATAC-TTTTTGA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAA
*
2157627 TTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATAC-TTTTTTAA
2157668 ATTTTTTTAA-TTTAAAATATTTTTAAAATACTTTTTTTTTAA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATAC---TTTTTTAA
* * *
2157710 TTTTTTTTAATTTTAAAATATTTCTAAAATACTTTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAA
*
2157750 ATTTTTTAAAATTTTTAAAATA
1 ATTTTTT-TAA-TTTTAAAATA
2157772 AAAATGGGCC
Statistics
Matches: 127, Mismatches: 11, Indels: 11
0.85 0.07 0.07
Matches are distributed among these distances:
39 28 0.22
40 34 0.27
41 17 0.13
42 28 0.22
43 20 0.16
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (40 bp):
ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAA
Found at i:2157665 original size:41 final size:41
Alignment explanation
Indices: 2157589--2157771 Score: 246
Period size: 41 Copynumber: 4.5 Consensus size: 41
2157579 AATATATTTA
* * * *
2157589 TTTTTTAAATTTTAAAATATTTTTTACATAC--TTTTTGAT
1 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAT
*
2157628 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAA
1 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAT
2157669 TTTTTTTAA-TTTAAAATATTTTTAAAATACTTTTTTTTTAAT
1 TTTTTTTAATTTTAAAATATTTTTAAAATAC--TTTTTTTAAT
*
2157711 TTTTTTTAATTTTAAAATATTTCTAAAATACTTTTTTTAAT
1 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAT
**
2157752 TTTTTAAAATTTTTAAAATA
1 TTTTTTTAA-TTTTAAAATA
2157772 AAAATGGGCC
Statistics
Matches: 129, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
39 28 0.22
40 21 0.16
41 32 0.25
42 28 0.22
43 20 0.16
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (41 bp):
TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAT
Found at i:2158332 original size:14 final size:15
Alignment explanation
Indices: 2158308--2158337 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
2158298 ATTTAGAGTT
2158308 TTTTTAGAATTTTTA
1 TTTTTAGAATTTTTA
2158323 TTTTTA-AATTTTTA
1 TTTTTAGAATTTTTA
2158337 T
1 T
2158338 AATTTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (15 bp):
TTTTTAGAATTTTTA
Found at i:2158373 original size:19 final size:18
Alignment explanation
Indices: 2158349--2158408 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 18
2158339 ATTTAAAAAA
2158349 AAATATTTGAAATTTTTAT
1 AAATATTTG-AATTTTTAT
* *
2158368 AAATATTTGGATTTTTAA
1 AAATATTTGAATTTTTAT
2158386 AAATTATTTTGAATTTTT-T
1 AAA-TA-TTTGAATTTTTAT
2158405 AAAT
1 AAAT
2158409 TTGTTTAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
18 11 0.31
19 14 0.40
20 10 0.29
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (18 bp):
AAATATTTGAATTTTTAT
Found at i:2158409 original size:19 final size:20
Alignment explanation
Indices: 2158354--2158422 Score: 65
Period size: 19 Copynumber: 3.5 Consensus size: 20
2158344 AAAAAAAATA
2158354 TTTGAAATTTTTATAAA-TA-
1 TTTG-AATTTTTATAAATTAT
* *
2158373 TTTGGATTTTTAAAAATTAT
1 TTTGAATTTTTATAAATTAT
2158393 TTTGAATTTTT-TAAATT-T
1 TTTGAATTTTTATAAATTAT
*
2158411 GTTTAAATTTTT
1 -TTTGAATTTTT
2158423 TGTTGATTAG
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
18 11 0.26
19 21 0.50
20 10 0.24
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.59
Consensus pattern (20 bp):
TTTGAATTTTTATAAATTAT
Found at i:2160310 original size:7 final size:7
Alignment explanation
Indices: 2160298--2160322 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
2160288 TTTTATATGA
2160298 ATTTAAT
1 ATTTAAT
2160305 ATTTAAT
1 ATTTAAT
2160312 ATTTAAT
1 ATTTAAT
2160319 ATTT
1 ATTT
2160323 TATTTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
ATTTAAT
Found at i:2161395 original size:19 final size:19
Alignment explanation
Indices: 2161373--2161416 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
2161363 TTCTAATACT
*
2161373 TTTTTAAATTTTATTA-AAA
1 TTTTCAAATTTT-TTAGAAA
*
2161392 TTTTCATATTTTTTAGAAA
1 TTTTCAAATTTTTTAGAAA
2161411 TTTTCA
1 TTTTCA
2161417 TTTTTAGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (19 bp):
TTTTCAAATTTTTTAGAAA
Found at i:2161417 original size:19 final size:19
Alignment explanation
Indices: 2161380--2161422 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
2161370 ACTTTTTTAA
2161380 ATTTTATTAAAATTTTCAT
1 ATTTTATTAAAATTTTCAT
2161399 ATTTT-TTAGAAATTTTCAT
1 ATTTTATTA-AAATTTTCAT
2161418 -TTTTA
1 ATTTTA
2161423 GAATTTTATG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (19 bp):
ATTTTATTAAAATTTTCAT
Found at i:2161770 original size:14 final size:15
Alignment explanation
Indices: 2161751--2161779 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2161741 TTTAAAAATT
2161751 TTAAAAAAT-ATAGC
1 TTAAAAAATAATAGC
2161765 TTAAAAAATAATAGC
1 TTAAAAAATAATAGC
2161780 ATGTGGCCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.28
Consensus pattern (15 bp):
TTAAAAAATAATAGC
Found at i:2169049 original size:14 final size:14
Alignment explanation
Indices: 2169030--2169058 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2169020 CGATTTATAT
2169030 AAACTGGAAAAGGG
1 AAACTGGAAAAGGG
2169044 AAACTGGAAAAGGG
1 AAACTGGAAAAGGG
2169058 A
1 A
2169059 GTTGTTTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.34, T:0.07
Consensus pattern (14 bp):
AAACTGGAAAAGGG
Found at i:2180378 original size:22 final size:23
Alignment explanation
Indices: 2180353--2180399 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
2180343 CTTATCTATC
2180353 TTTTATTTAAA-TAA-TAAACAAA
1 TTTTATTTAAATTAATTAAA-AAA
2180375 TTTTATTTAAATTAATTAAAAAA
1 TTTTATTTAAATTAATTAAAAAA
2180398 TT
1 TT
2180400 ATAAATATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 11 0.48
23 8 0.35
24 4 0.17
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
TTTTATTTAAATTAATTAAAAAA
Found at i:2185981 original size:22 final size:22
Alignment explanation
Indices: 2185956--2186006 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
2185946 AAATTAAATT
*
2185956 ATATATTTTTACTATTGTAAAA
1 ATATATTTTCACTATTGTAAAA
* ** *
2185978 ATATAATTTCGTTATTTTAAAA
1 ATATATTTTCACTATTGTAAAA
2186000 ATATATT
1 ATATATT
2186007 AATTATTAAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (22 bp):
ATATATTTTCACTATTGTAAAA
Found at i:2189618 original size:12 final size:12
Alignment explanation
Indices: 2189571--2189619 Score: 57
Period size: 11 Copynumber: 4.2 Consensus size: 12
2189561 TCATTTAATA
2189571 TTAAAAA-ATTT
1 TTAAAAATATTT
*
2189582 TAAAAAATATTT
1 TTAAAAATATTT
* *
2189594 TT-ATAATCTTT
1 TTAAAAATATTT
2189605 TTAAAAATATTT
1 TTAAAAATATTT
2189617 TTA
1 TTA
2189620 CCAATAATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
11 15 0.50
12 15 0.50
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (12 bp):
TTAAAAATATTT
Found at i:2189630 original size:24 final size:23
Alignment explanation
Indices: 2189577--2189632 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
2189567 AATATTAAAA
*
2189577 AATTTTAAAAAATATTTTTATAAT
1 AATTTT-AAAAATATTTTTACAAT
**
2189601 CTTTTTAAAAATATTTTTACCAAT
1 AATTTTAAAAATATTTTTA-CAAT
2189625 AATTTTAA
1 AATTTTAA
2189633 TATAAAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 13 0.50
24 13 0.50
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (23 bp):
AATTTTAAAAATATTTTTACAAT
Found at i:2192563 original size:22 final size:22
Alignment explanation
Indices: 2192538--2192582 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
2192528 TCTACCATTG
*
2192538 TCCTTCAGATCTCAAAATTTGC
1 TCCTTCAGATCTCAAAACTTGC
2192560 TCCTTCAGATCTCAAAACTTGC
1 TCCTTCAGATCTCAAAACTTGC
2192582 T
1 T
2192583 GGACCCTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.29, G:0.09, T:0.36
Consensus pattern (22 bp):
TCCTTCAGATCTCAAAACTTGC
Found at i:2201034 original size:21 final size:21
Alignment explanation
Indices: 2201008--2201048 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2200998 ATCTGCTCAA
* *
2201008 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
2201029 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
2201049 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:2205943 original size:19 final size:19
Alignment explanation
Indices: 2205919--2205955 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
2205909 TTATGTGTTC
2205919 ATCGTTGAGGTTGAAAATT
1 ATCGTTGAGGTTGAAAATT
2205938 ATCGTTGAGGTTGAAAAT
1 ATCGTTGAGGTTGAAAAT
2205956 CAGTTTTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.35
Consensus pattern (19 bp):
ATCGTTGAGGTTGAAAATT
Found at i:2216683 original size:114 final size:114
Alignment explanation
Indices: 2216483--2216706 Score: 412
Period size: 114 Copynumber: 2.0 Consensus size: 114
2216473 AAGACAACAA
* *
2216483 GGCCAAAAAGAGCAAGGCATAAAGACTCAAGCTGCTCGAGGTGGTGTAATGGAAACAAAACCGTT
1 GGCCAAAAAGAACAAGGCATAAAGACTCAAGCTGCTCGAGGTGGTGTAATGGAAACAAAACCATT
2216548 GAACATGTCTTGTTATTTTGTCCATTTGCAAGTGTAGTGTGGGAGACAT
66 GAACATGTCTTGTTATTTTGTCCATTTGCAAGTGTAGTGTGGGAGACAT
*
2216597 GGCCAAAAAGAACAAGGCATAAAGACTCAAGGTGCTCGAGGTGGTGTAATGGAAACAAAACCATT
1 GGCCAAAAAGAACAAGGCATAAAGACTCAAGCTGCTCGAGGTGGTGTAATGGAAACAAAACCATT
*
2216662 GAACATGTCTTGTTCTTTTGTCCATTTGCAAGTGTAGTGTGGGAG
66 GAACATGTCTTGTTATTTTGTCCATTTGCAAGTGTAGTGTGGGAG
2216707 GCTTGTAGTC
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
114 106 1.00
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (114 bp):
GGCCAAAAAGAACAAGGCATAAAGACTCAAGCTGCTCGAGGTGGTGTAATGGAAACAAAACCATT
GAACATGTCTTGTTATTTTGTCCATTTGCAAGTGTAGTGTGGGAGACAT
Found at i:2226719 original size:31 final size:29
Alignment explanation
Indices: 2226678--2226753 Score: 73
Period size: 29 Copynumber: 2.5 Consensus size: 29
2226668 CCCTTGAAAC
**
2226678 TTTTAGAAAATTTTAACTAAGCTCTCTTA-AA
1 TTTTA-AAAATTTTAACTAA--TCTCACAGAA
* *
2226709 TTTTTAAAAATTATCACTAATCTCACAGAA
1 -TTTTAAAAATTTTAACTAATCTCACAGAA
2226739 TTTTAAAAATTTTAA
1 TTTTAAAAATTTTAA
2226754 TTAGACCCCA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
29 18 0.49
30 2 0.05
31 12 0.32
32 5 0.14
ACGTcount: A:0.42, C:0.12, G:0.04, T:0.42
Consensus pattern (29 bp):
TTTTAAAAATTTTAACTAATCTCACAGAA
Found at i:2228311 original size:29 final size:29
Alignment explanation
Indices: 2228244--2228312 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
2228234 ATGGGTACAT
**
2228244 GTCGTTTTCTTTCTAATATTTATGATTTAA
1 GTCGTTTT-TTTCTAATATTTATGAAATAA
2228274 G-CGTCTTTTTTCTAATATTTATGAGAATAA
1 GTCGT-TTTTTTCTAATATTTATGA-AATAA
2228304 GTCGTTTTT
1 GTCGTTTTT
2228313 CGAGAGATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
29 19 0.56
30 12 0.35
31 3 0.09
ACGTcount: A:0.23, C:0.10, G:0.13, T:0.54
Consensus pattern (29 bp):
GTCGTTTTTTTCTAATATTTATGAAATAA
Found at i:2229734 original size:3 final size:3
Alignment explanation
Indices: 2229726--2229751 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2229716 AGTTTTGGGT
2229726 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
2229752 ATCTAATTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:2232366 original size:24 final size:24
Alignment explanation
Indices: 2232338--2232389 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
2232328 TTAGTAGGTC
* *
2232338 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
2232362 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
2232386 AAAT
1 AAAT
2232390 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:2232921 original size:13 final size:13
Alignment explanation
Indices: 2232903--2232928 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2232893 AAATAAACCA
2232903 TTAATAGAATCAG
1 TTAATAGAATCAG
2232916 TTAATAGAATCAG
1 TTAATAGAATCAG
2232929 ACACTGCAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (13 bp):
TTAATAGAATCAG
Found at i:2244977 original size:6 final size:6
Alignment explanation
Indices: 2244968--2245002 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
2244958 GTGGCTGTGG
* *
2244968 CGGTCA CGGTCA CGGTTA CGGTTA CGGTTA CGGTT
1 CGGTTA CGGTTA CGGTTA CGGTTA CGGTTA CGGTT
2245003 CGCACTTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.14, C:0.23, G:0.34, T:0.29
Consensus pattern (6 bp):
CGGTTA
Found at i:2248428 original size:305 final size:304
Alignment explanation
Indices: 2247848--2248476 Score: 1064
Period size: 305 Copynumber: 2.1 Consensus size: 304
2247838 CTTTTGAAAA
*
2247848 CAAATTTGAGTGGAAAATATGAGCATATGTTGTTTTCTACCGTAACTCGGCAGTCTTCGGATGCC
1 CAAA-TTGAGTGGAAAATATGAGCATATGTTGTTTTCTACCGTAACTCGGCAATCTTCGGATGCC
* * *
2247913 GATTTCAGGTATATTCGAGCTCCATTTTCATTTAAAATTTCATTTTTATTTTGATGATTTTTTTT
65 GATTTCAGGTATATTCAAGCTCCATTTTCATTGAAAATTTCATTTTTATTTTGATGA-GTTTTTT
2247978 TTGTGATCAAGATCTTATTGAATTTCATCACGGTTTGGTTTAGTAATAGCATTGTGCTAACTGGT
129 TTGTGATCAAGATCTTATTGAATTTCATCACGGTTTGGTTTAGTAATAGCATTGTGCTAACTGGT
* *
2248043 TGCTAGCGATTTAATTTTGTTTGTTTGTTTGTTTTTATGAGAACGTTGTTTGAAGTTTGTGATAT
194 TGCTAGCGATTTAATTTTGTTTGTTTATTTATTTTTATGAGAACGTTGTTTGAAGTTTGTGATAT
* *
2248108 TTCATTGAGAAAAAAAAGTTTCATGGAACCTGGTGTGATATTTGTC
259 TTCATTGAGAAAAAAAAGTTTCATGGAACCCGGTATGATATTTGTC
2248154 CAAATTGAGTGGAAAATATGAGCATATGTTGTTTTCTACCGTAACTCGGCAATCTTCGGATGCCG
1 CAAATTGAGTGGAAAATATGAGCATATGTTGTTTTCTACCGTAACTCGGCAATCTTCGGATGCCG
* *
2248219 ATTTCAGGTATATTCAAGCTTCATTTTCATTGAAATTTTCATTTTTATTTTGATG-GTTTTTTTT
66 ATTTCAGGTATATTCAAGCTCCATTTTCATTGAAAATTTCATTTTTATTTTGATGAGTTTTTTTT
* *
2248283 GTGATCAAGATCTTATTGAATTTCATCACGGTTTGG-TTAGTAATCGAGGATTGTGCTATCTGGT
131 GTGATCAAGATCTTATTGAATTTCATCACGGTTTGGTTTAGTAAT--AGCATTGTGCTAACTGGT
*
2248347 TGCTAGCGATTTAATTTTGTTTGTTTATTTATTTTTATGAGAACGTTGTTTGAAGTTTGTGATCT
194 TGCTAGCGATTTAATTTTGTTTGTTTATTTATTTTTATGAGAACGTTGTTTGAAGTTTGTGATAT
*
2248412 TTCGTTGAGAAAAAAAAAGTTTCATGGAACCCGGTATGATATTTGTC
259 TTCATTGAG-AAAAAAAAGTTTCATGGAACCCGGTATGATATTTGTC
*
2248459 CAAATTGAGCGGAAAATA
1 CAAATTGAGTGGAAAATA
2248477 GTGATAATAA
Statistics
Matches: 305, Mismatches: 15, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
302 8 0.03
303 44 0.14
304 86 0.28
305 163 0.53
306 4 0.01
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.43
Consensus pattern (304 bp):
CAAATTGAGTGGAAAATATGAGCATATGTTGTTTTCTACCGTAACTCGGCAATCTTCGGATGCCG
ATTTCAGGTATATTCAAGCTCCATTTTCATTGAAAATTTCATTTTTATTTTGATGAGTTTTTTTT
GTGATCAAGATCTTATTGAATTTCATCACGGTTTGGTTTAGTAATAGCATTGTGCTAACTGGTTG
CTAGCGATTTAATTTTGTTTGTTTATTTATTTTTATGAGAACGTTGTTTGAAGTTTGTGATATTT
CATTGAGAAAAAAAAGTTTCATGGAACCCGGTATGATATTTGTC
Found at i:2263674 original size:88 final size:88
Alignment explanation
Indices: 2263525--2263701 Score: 345
Period size: 88 Copynumber: 2.0 Consensus size: 88
2263515 TTGTATTGTT
2263525 AAAATTTGACAAGGTTGATGGAATAACTAGACAGTGAAATGTGGCGTGTCATGAGTAACTCATAT
1 AAAATTTGACAAGGTTGATGGAATAACTAGACAGTGAAATGTGGCGTGTCATGAGTAACTCATAT
2263590 TGATTTACAGGAATCAATTTTTA
66 TGATTTACAGGAATCAATTTTTA
2263613 AAAATTTGACAAGGTTGATGGAATAACTAGACAGTGAAATGTGGCGTGTCATGAGTAACTCATAT
1 AAAATTTGACAAGGTTGATGGAATAACTAGACAGTGAAATGTGGCGTGTCATGAGTAACTCATAT
*
2263678 TGATTTACAGGAATCGATTTTTA
66 TGATTTACAGGAATCAATTTTTA
2263701 A
1 A
2263702 CAGAAAGACC
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 88 1.00
ACGTcount: A:0.36, C:0.10, G:0.22, T:0.32
Consensus pattern (88 bp):
AAAATTTGACAAGGTTGATGGAATAACTAGACAGTGAAATGTGGCGTGTCATGAGTAACTCATAT
TGATTTACAGGAATCAATTTTTA
Found at i:2265172 original size:45 final size:41
Alignment explanation
Indices: 2265085--2265176 Score: 105
Period size: 43 Copynumber: 2.2 Consensus size: 41
2265075 AAATTGTAAT
** *
2265085 ATATAATATATAAATTAATAAAAAAATAAAAATTTACAAAAA
1 ATAT-ATATATAAAAGAATAAAAAAATAAAAATTTAAAAAAA
*
2265127 ATATATATATAAAAGAATTAAAAAAATTACAAATTTATAAAAAA
1 ATATATATATAAAAGAA-TAAAAAAA-TAAAAATTTA-AAAAAA
2265171 A-ATATA
1 ATATATA
2265177 AACAATAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
41 11 0.26
42 12 0.28
43 14 0.33
44 6 0.14
ACGTcount: A:0.67, C:0.02, G:0.01, T:0.29
Consensus pattern (41 bp):
ATATATATATAAAAGAATAAAAAAATAAAAATTTAAAAAAA
Found at i:2272697 original size:304 final size:306
Alignment explanation
Indices: 2272082--2272703 Score: 1079
Period size: 304 Copynumber: 2.0 Consensus size: 306
2272072 CCATTTTCCG
*
2272082 CTCAATTTGGACAAATATCACACCGGATTCCATGAAACTTTTTTTTCTCAATGAAAGATCACAAA
1 CTCAATTTGGACAAATATCACACCGGATTCCATGAAACTTTTTTTTATCAATGAAAGATCACAAA
* *
2272147 CTTCAAACAACGTACTCATAAAAATAAATAAACAAACAAAATTAAATCGCTAGCAACCAGATAGC
66 CTTCAAACAACGTACTCATAAAAACAAACAAACAAACAAAATTAAATCGCTAGCAACCAGATAGC
2272212 ACAATCCTCGATTACTAAACCAAACCGTGATGAAATTCAATAAGATCTTGATCACAAAAAAAAAA
131 ACAATCCTCGATTACTAAACCAAACCGTGATGAAATTCAATAAGATCTTGATCAC--AAAAAAAA
* *
2272277 ATCATCAAACTAAAAATGAAAATTTCAATGAAAATGGAGCTTGAATATACCTGAAATCGGCATCC
194 ATCATCAAAATAAAAATGAAAATTTCAATGAAAATGGAGCTCGAATATACCTGAAATCGGCATCC
* *
2272342 GAAGATTGCCGAGTTACGGTAGAAAACAACATATGCTCATATTTTCCA
259 GAAGATTGCCGAGTTACGGTAGAAAACAACACATGCTCATATTTGCCA
*
2272390 CTCAATTTGGACAAATATCACTCCAGG-TTCCATGAAACTTTTTTTTATCAATGAAAGATCACAA
1 CTCAATTTGGACAAATATCACACC-GGATTCCATGAAACTTTTTTTTATCAATGAAAGATCACAA
* * *
2272454 ACTTGAAACAAC-TTCTCATAAAAACAAGCAAACAAACAAAATTAAATCGCTAGCAACCAGATAG
65 ACTTCAAACAACGTACTCATAAAAACAAACAAACAAACAAAATTAAATCGCTAGCAACCAGATAG
*
2272518 CACAATCCTCGATTACTAAACCAACCCGTGATGAAATTCAATAAGATCTTGATCAC-AAAAAAAA
130 CACAATCCTCGATTACTAAACCAAACCGTGATGAAATTCAATAAGATCTTGATCACAAAAAAAAA
2272582 TCATCAAAATAAAAATGAAAATTTCAATGAAAATGGAGCTCGAATATACCTGAAATCGGCATCCG
195 TCATCAAAATAAAAATGAAAATTTCAATGAAAATGGAGCTCGAATATACCTGAAATCGGCATCCG
2272647 AAGATTGCCGAGTTACGGTAGAAAACAACACATGCTCATATTTGCCA
260 AAGATTGCCGAGTTACGGTAGAAAACAACACATGCTCATATTTGCCA
2272694 CTCAAATTTG
1 CTC-AATTTG
2272704 TTTTCAAAAG
Statistics
Matches: 300, Mismatches: 12, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
304 119 0.40
305 6 0.02
307 103 0.34
308 70 0.23
309 2 0.01
ACGTcount: A:0.43, C:0.20, G:0.12, T:0.24
Consensus pattern (306 bp):
CTCAATTTGGACAAATATCACACCGGATTCCATGAAACTTTTTTTTATCAATGAAAGATCACAAA
CTTCAAACAACGTACTCATAAAAACAAACAAACAAACAAAATTAAATCGCTAGCAACCAGATAGC
ACAATCCTCGATTACTAAACCAAACCGTGATGAAATTCAATAAGATCTTGATCACAAAAAAAAAT
CATCAAAATAAAAATGAAAATTTCAATGAAAATGGAGCTCGAATATACCTGAAATCGGCATCCGA
AGATTGCCGAGTTACGGTAGAAAACAACACATGCTCATATTTGCCA
Found at i:2278061 original size:8 final size:8
Alignment explanation
Indices: 2278048--2278072 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
2278038 TATGATATTT
2278048 CTCTCTTA
1 CTCTCTTA
2278056 CTCTCTTA
1 CTCTCTTA
2278064 CTCTCTTA
1 CTCTCTTA
2278072 C
1 C
2278073 ACTTATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.40, G:0.00, T:0.48
Consensus pattern (8 bp):
CTCTCTTA
Found at i:2278566 original size:17 final size:18
Alignment explanation
Indices: 2278544--2278585 Score: 50
Period size: 20 Copynumber: 2.3 Consensus size: 18
2278534 ATGATAAGGG
2278544 TTCATACATA-TTTGACT
1 TTCATACATATTTTGACT
*
2278561 TTCATATATATATTTTGACT
1 TTC--ATACATATTTTGACT
2278581 TTCAT
1 TTCAT
2278586 TTTCCTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
17 3 0.14
18 2 0.10
19 6 0.29
20 10 0.48
ACGTcount: A:0.29, C:0.14, G:0.05, T:0.52
Consensus pattern (18 bp):
TTCATACATATTTTGACT
Done.