Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 7662336
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 20 of 38
Found at i:4186860 original size:198 final size:199
Alignment explanation
Indices: 4186522--4187731 Score: 1456
Period size: 198 Copynumber: 6.0 Consensus size: 199
4186512 TCAGTAATCT
* *
4186522 CCAGAATGAATGCCCAACCGAGGTGCACAAATAAAGTGTCGATACATTTATTAAAAGTATCGATC
1 CCAGAATGAATGCCCAA-CGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGATC
* * * *
4186587 CCAAAAACATCGAATAAGATAATTATAATGTAATAGGTAAATTTCCAATGTAACCGGTAGATATA
65 CCAAAAACATCAAATAAGATAATTATAATGTAATAGGTAACTTTACAATGTAACCGGTAGAAATA
** * *
4186652 TATTGGTTAATTAG-AAATAGGTCTACATAATATATTGACACTTTTTAAA-TTGTGTCGATACTT
130 TACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAAGTTGTGTCGATACTT
*
4186715 TTTGT
195 TTTGA
* *
4186720 CCAGAATGAATGACCAACCGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGATA
1 CCAGAATGAATGCCCAA-CGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGATC
*
4186785 CCAAAAACATCAAATAAGATAATTATAATGTAATAGGTCAA-TTTCCAATGTAACCGGTAGAAAT
65 CCAAAAACATCAAATAAGATAATTATAATGTAATAGGT-AACTTTACAATGTAACCGGTAGAAAT
* * * *
4186849 ATACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGGCACTTTTTAAATTTGTGTCAATACA
129 ATACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAAGTTGTGTCGATACT
4186914 TTTTGA
194 TTTTGA
* * *
4186920 CCAGAATGAATGCCCAACAAGGTGTACGAATAAAGTGTCGATACATTTATAAAACGTATCGATCC
1 CCAGAATGAATGCCCAACGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGATCC
* * * * * *
4186985 CAAAAATATCAAA-ACCGATAAATATAATGTAATAGGTAAATTTCCAATGTAACCGATAGAAATA
66 CAAAAACATCAAATA-AGATAATTATAATGTAATAGGTAACTTTACAATGTAACCGGTAGAAATA
* * * * * * ** * *
4187049 TACCGGTTTTATGAGAGAATGGGTCTACATCATGTATCGACACTTGTGGAATTTGTGTTGATACT
130 TACCGG-TTAATTAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAAGTTGTGTCGATACT
*
4187114 TTTTGT
194 TTTTGA
* * * *
4187120 CCAGAATGAATGCCTAA-AAGAGTGCACGCATAAAGTTTCGATACATTTATAAAAAGTATCGATC
1 CCAGAATGAATGCCCAACGAG-GTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGATC
* *
4187184 CCAAAAACATTGAAACT--GATAATTATAATGTAATAGGTAACTTTACAATGTAACCGGCAGAAA
65 CCAAAAACA-TCAAA-TAAGATAATTATAATGTAATAGGTAACTTTACAATGTAACCGGTAGAAA
*
4187247 TATACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGATACTTTTTAAAGTTGTGTCGATAC
128 TATACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAAGTTGTGTCGATAC
*
4187312 GTTTTGA
193 TTTTTGA
* ** * ** *
4187319 CCAGAATGAATGCCCAATGAGGTGCACGCTTAAAGTGTCAATACATTTA-AAATTGTTTCGATCC
1 CCAGAATGAATGCCCAACGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGATCC
** *
4187383 CAAAAACATCGAAA-CCGATAATTATAATGTAATAGGTAACTTTACAATGTAACCGGTAGACATA
66 CAAAAACATC-AAATAAGATAATTATAATGTAATAGGTAACTTTACAATGTAACCGGTAGAAATA
* * *
4187447 TACCGGTTAATTAGAAAATAGGTCTACATGATGTATCAACACTTTTTAAAGTTGTGTCAATA-TG
130 TACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAAGTTGTGTCGATACT-
4187511 TTTTGA
194 TTTTGA
* **
4187517 CCAGAATGAATGCCCAATGAGGTGCAC-ACATAAAGTGTCGATACATTTA-AAATTGTATCGATC
1 CCAGAATGAATGCCCAACGAGGTGCACGA-ATAAAGTGTCGATACATTTATAAAAAGTATCGATC
4187580 CCAAAATATTGAAACCGAT-AATTATAATGTAATAAGTAACTTTATAATGTAATAGGTAACTTTA
65 CC---A-A---AAA-C-ATCAA--ATAA-G-----A-TAA--TTATAATGTAATAGGTAACTTTA
* **
4187644 CAATGTAACCGGTAGAAATATACCGGTTAATTAGAAAATAGGTTTACATAATGTATTAACACTTT
110 CAATGTAACCGGTAGAAATATACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTT
*
4187709 TTAAAGTTGTTTCGATACTTTTT
175 TTAAAGTTGTGTCGATACTTTTT
4187732 TAAATTACGC
Statistics
Matches: 885, Mismatches: 89, Indels: 57
0.86 0.09 0.06
Matches are distributed among these distances:
197 1 0.00
198 329 0.37
199 234 0.26
200 197 0.22
201 5 0.01
202 1 0.00
205 5 0.01
206 1 0.00
207 3 0.00
209 1 0.00
214 1 0.00
215 3 0.00
217 103 0.12
218 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.31
Consensus pattern (199 bp):
CCAGAATGAATGCCCAACGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGATCC
CAAAAACATCAAATAAGATAATTATAATGTAATAGGTAACTTTACAATGTAACCGGTAGAAATAT
ACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAAGTTGTGTCGATACTTT
TTGA
Found at i:4187626 original size:20 final size:20
Alignment explanation
Indices: 4187601--4187651 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
4187591 AAACCGATAA
4187601 TTATAATGTAATAAGTAACT
1 TTATAATGTAATAAGTAACT
*
4187621 TTATAATGTAATAGGTAACT
1 TTATAATGTAATAAGTAACT
*
4187641 TTACAATGTAA
1 TTATAATGTAA
4187652 CCGGTAGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.43, C:0.06, G:0.12, T:0.39
Consensus pattern (20 bp):
TTATAATGTAATAAGTAACT
Found at i:4187657 original size:20 final size:20
Alignment explanation
Indices: 4187605--4187657 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
4187595 CGATAATTAT
* * *
4187605 AATGTAATAAGTAACTTTAT
1 AATGTAACAGGTAACTTTAC
*
4187625 AATGTAATAGGTAACTTTAC
1 AATGTAACAGGTAACTTTAC
*
4187645 AATGTAACCGGTA
1 AATGTAACAGGTA
4187658 GAAATATACC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.34
Consensus pattern (20 bp):
AATGTAACAGGTAACTTTAC
Found at i:4189326 original size:19 final size:19
Alignment explanation
Indices: 4189302--4189349 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
4189292 ATGTAGGGGA
4189302 AATTTTGTATACGATTCAT
1 AATTTTGTATACGATTCAT
*
4189321 AATTTTGTATACGATTTAT
1 AATTTTGTATACGATTCAT
4189340 AATTTTGTAT
1 AATTTTGTAT
4189350 GTGAATGTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.06, G:0.10, T:0.52
Consensus pattern (19 bp):
AATTTTGTATACGATTCAT
Found at i:4192513 original size:198 final size:200
Alignment explanation
Indices: 4192162--4192540 Score: 541
Period size: 198 Copynumber: 1.9 Consensus size: 200
4192152 ATTACAAAAC
* * *
4192162 AGGTAAACATAATGTATCGATACTTGTGGAATTTGTGTCGATACTTATTGTCCAAAATGAATGCC
1 AGGTAAACATAATGTATCGACACTTGTGAAATATGTGTCGATACTTATTGTCCAAAATGAATGCC
*
4192227 CTAACGAGGTGCACGCATAAAGTACCGATACATTTATTAAAAGTATCGATCCCAAAAACATCAAA
66 CTAACGAGGTGCACGCATAAAGTACCGATACATTTA-TAAAAGCATCGATCCCAAAAACATCAAA
*
4192292 ACCGATAATTATGATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACTGGTTTTTTGA
130 ACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACTGGTTTTTTGA
4192357 GAGAAT
195 GAGAAT
* * * * *
4192363 AGGTCAACATAATGTATCGACACTTTTTAAATATGTGTCGATA-TT-TTTTCCCAAAATTAATGC
1 AGGTAAACATAATGTATCGACACTTGTGAAATATGTGTCGATACTTATTGT-CCAAAATGAATGC
** * * * *
4192426 CC-AACGAGGTGCACGCATAAAGTGTCGATACATTTA-AAATTGCATCGATCTCAAAAATATCGA
65 CCTAACGAGGTGCACGCATAAAGTACCGATACATTTATAAA-AGCATCGATCCCAAAAACATCAA
* *
4192489 AACCGATAATTATAATGTAATAGGTAAATTTACAATGTTATCGGTATAAATA
129 AACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATA
4192541 AACCAGTTTA
Statistics
Matches: 158, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
197 3 0.02
198 67 0.42
199 35 0.22
200 16 0.10
201 37 0.23
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (200 bp):
AGGTAAACATAATGTATCGACACTTGTGAAATATGTGTCGATACTTATTGTCCAAAATGAATGCC
CTAACGAGGTGCACGCATAAAGTACCGATACATTTATAAAAGCATCGATCCCAAAAACATCAAAA
CCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACTGGTTTTTTGAG
AGAAT
Found at i:4192596 original size:23 final size:23
Alignment explanation
Indices: 4192567--4192614 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
4192557 AAATAGGTCA
*
4192567 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGCTACCTAATACATT
*
4192590 ATATAAGCGCTACCTAATATATT
1 ATATAAGCGCTACCTAATACATT
4192613 AT
1 AT
4192615 TGTACTTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (23 bp):
ATATAAGCGCTACCTAATACATT
Found at i:4192701 original size:23 final size:23
Alignment explanation
Indices: 4192651--4192695 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
4192641 TACTTATTTT
*
4192651 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
4192674 ATTATATAAGCGCTACCTAATA
1 ATTATATAAGCGCTACCTAATA
4192696 TGTTATTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:4192717 original size:87 final size:87
Alignment explanation
Indices: 4192567--4192728 Score: 279
Period size: 87 Copynumber: 1.9 Consensus size: 87
4192557 AAATAGGTCA
* *
4192567 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATATTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATATTATTGAACTTAATAATATTT
*
4192632 CCGGTTAAATACTTATTTTATT
66 CCGATTAAATACTTATTTTATT
* *
4192654 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGAACTTAATGATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATATTATTGAACTTAATAATATTT
4192719 CCGATTAAAT
66 CCGATTAAAT
4192729 TATATAACAT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 70 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATATTATTGAACTTAATAATATTT
CCGATTAAATACTTATTTTATT
Found at i:4196606 original size:12 final size:12
Alignment explanation
Indices: 4196589--4196618 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
4196579 AAAAGGGTGT
4196589 AAATTGATGGGG
1 AAATTGATGGGG
*
4196601 AAATTGTTGGGG
1 AAATTGATGGGG
4196613 AAATTG
1 AAATTG
4196619 CAAAGAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.37, T:0.30
Consensus pattern (12 bp):
AAATTGATGGGG
Found at i:4198035 original size:12 final size:12
Alignment explanation
Indices: 4198018--4198044 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
4198008 AGTTTGACTC
4198018 AAAAAAATTAAA
1 AAAAAAATTAAA
4198030 AAAAAAATTAAA
1 AAAAAAATTAAA
4198042 AAA
1 AAA
4198045 TGAACAAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAAAAATTAAA
Found at i:4198362 original size:2 final size:2
Alignment explanation
Indices: 4198355--4198384 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4198345 TTATTTGAAT
4198355 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4198385 ATGTTATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4206189 original size:20 final size:21
Alignment explanation
Indices: 4206164--4206204 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4206154 TTTGTGGCCG
*
4206164 TTTCTAG-CCGTTGGGGATGA
1 TTTCTAGACAGTTGGGGATGA
*
4206184 TTTCTAGACATTTGGGGATGA
1 TTTCTAGACAGTTGGGGATGA
4206205 AATCTCTGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.20, C:0.12, G:0.32, T:0.37
Consensus pattern (21 bp):
TTTCTAGACAGTTGGGGATGA
Found at i:4217420 original size:19 final size:21
Alignment explanation
Indices: 4217383--4217425 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
4217373 TAACTTTTTC
4217383 TTTTATCTTTCATTATTAA-T
1 TTTTATCTTTCATTATTAACT
*
4217403 TTTTCTCTTTCATT-TTAACT
1 TTTTATCTTTCATTATTAACT
4217423 TTT
1 TTT
4217426 ACCTTTTCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.19, C:0.14, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTATCTTTCATTATTAACT
Found at i:4217431 original size:19 final size:20
Alignment explanation
Indices: 4217382--4217431 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
4217372 TTAACTTTTT
*
4217382 CTTTTATCTTTCATTATTAA
1 CTTTTACCTTTCATTATTAA
*
4217402 -TTTTTCTCTTTCATT-TTAA
1 CTTTTAC-CTTTCATTATTAA
4217421 CTTTTACCTTT
1 CTTTTACCTTT
4217432 TCTCTTTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.64
Consensus pattern (20 bp):
CTTTTACCTTTCATTATTAA
Found at i:4223696 original size:36 final size:36
Alignment explanation
Indices: 4223626--4223696 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 36
4223616 GCCTTAGGTC
* ***
4223626 TATAAGGAATTATCAGTTTGATCGGTGCTTAACCTA
1 TATAAGGAATTATCAGCTTGATCAAAGCTTAACCTA
4223662 TATAAGGAATTATCAGCTTGATCAAAG-TTGAACCT
1 TATAAGGAATTATCAGCTTGATCAAAGCTT-AACCT
4223697 GCAGAAACTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 2 0.07
36 28 0.93
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (36 bp):
TATAAGGAATTATCAGCTTGATCAAAGCTTAACCTA
Found at i:4227812 original size:107 final size:107
Alignment explanation
Indices: 4227698--4228524 Score: 1355
Period size: 107 Copynumber: 7.8 Consensus size: 107
4227688 TCACTTTCTC
* **
4227698 TTTCTTCAGGGAGTAGAACTCGAACATTCTTCTTCCTACGGG-CTCGCTCTCTCTTTTCTTCAGG
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTC-CGCTCTCT-TTTTCTTCAGG
* * *
4227762 GAGT-AGAACTCGAACAATCATCTTCCTACGGGTCTGCTCTCTC
64 GAGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
* *
4227805 TTCCTTCAAGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTTTTTCTTCAGGGA
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTTTTTCTTCAGGGA
*
4227870 GTAAGAACTCGAACAATAATCTTCCTACGAGTCCGCTCTCTA
66 GTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
*
4227912 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTTTTCCTTCAGGGA
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTTTTTCTTCAGGGA
*
4227977 GTAAGAACTCGAACGATAATCTTCCTACGGGTCCGCTCTCTA
66 GTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
*
4228019 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACAGGTCCGCTCTCTTTTTCTTCAGGGA
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTTTTTCTTCAGGGA
*
4228084 GTAAAAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
66 GTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
* *
4228126 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGTGTCCGCTCTCTTTTTCTTTAGGGA
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTTTTTCTTCAGGGA
*
4228191 GTAATAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
66 GTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
* *
4228233 TTTCTTCAAGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCACTCTCTTTTTCTTCAGGGA
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTTTTTCTTCAGGGA
*
4228298 GTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTT
66 GTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
* * *
4228340 TTTCTTCAGGGAGTAAAACTCGAACAATAATCTTCCTACGGG-CTCGCTCTATATTTCTTCAGGG
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTC-CGCTCTCTTTTTCTTCAGGG
*
4228404 AGTAAGAACTCGAACAATAATCTTCCTACGGGTCCAC-C-CTA
65 AGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
4228445 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGC-C-CTATTTTCTTCAGGG
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCT-TTTTCTTCAGGG
4228508 AGT-AGAACTCGAACAAT
65 AGTAAGAACTCGAACAAT
4228525 CTTCTGTTGC
Statistics
Matches: 677, Mismatches: 38, Indels: 14
0.93 0.05 0.02
Matches are distributed among these distances:
103 15 0.02
104 15 0.02
105 46 0.07
106 18 0.03
107 582 0.86
108 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (107 bp):
TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTTTTTCTTCAGGGA
GTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
Found at i:4229887 original size:10 final size:10
Alignment explanation
Indices: 4229874--4230043 Score: 240
Period size: 10 Copynumber: 16.6 Consensus size: 10
4229864 TTTGTTTTGT
4229874 TTTTTTTTCA
1 TTTTTTTTCA
4229884 TTTTTTCATTTTCA
1 -TTTTT---TTTCA
4229898 TTTTTTTTCA
1 TTTTTTTTCA
4229908 TTTTTTTTCA
1 TTTTTTTTCA
4229918 -TTTTTTTCA
1 TTTTTTTTCA
4229927 TTTTTTTTCA
1 TTTTTTTTCA
4229937 TTTTTTCATTTTCA
1 --TTTT--TTTTCA
4229951 TTTTTTTTCA
1 TTTTTTTTCA
4229961 TTTTTTTTC-
1 TTTTTTTTCA
4229970 TTTTTTTTCA
1 TTTTTTTTCA
4229980 TTTTTTTTCA
1 TTTTTTTTCA
4229990 TTTTTTTTCA
1 TTTTTTTTCA
4230000 TTTTTTTTCA
1 TTTTTTTTCA
4230010 TTTTTTTTCA
1 TTTTTTTTCA
4230020 -TTTTTTTCA
1 TTTTTTTTCA
4230029 TTTTTTTT-A
1 TTTTTTTTCA
4230038 TTTTTT
1 TTTTTT
4230044 CATTTTCATT
Statistics
Matches: 149, Mismatches: 0, Indels: 22
0.87 0.00 0.13
Matches are distributed among these distances:
9 34 0.23
10 86 0.58
11 5 0.03
12 8 0.05
13 5 0.03
14 11 0.07
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTTTTTCA
Found at i:4229889 original size:24 final size:24
Alignment explanation
Indices: 4229874--4230063 Score: 119
Period size: 20 Copynumber: 8.9 Consensus size: 24
4229864 TTTGTTTTGT
*
4229874 TTTTTTTTCATTTTTTCATTTTCA
1 TTTTTTTTCATTTTTTTATTTTCA
4229898 TTTTTTTTCA---TTTT-TTTTCA
1 TTTTTTTTCATTTTTTTATTTTCA
4229918 -TTTTTTTCATTTTTTTTCATTTT--
1 TTTTTTTTCA-TTTTTTT-ATTTTCA
**
4229941 TTCATTTTCA---TTTT-TTTTCA
1 TTTTTTTTCATTTTTTTATTTTCA
4229961 TTTTTTTTC--T--TTT-TTTTCA
1 TTTTTTTTCATTTTTTTATTTTCA
4229980 TTTTTTTTCA--TTT-T-TTTTCA
1 TTTTTTTTCATTTTTTTATTTTCA
4230000 TTTTTTTTCA---TTTT-TTTTCA
1 TTTTTTTTCATTTTTTTATTTTCA
4230020 -TTTTTTTCATTTTTTTTATTTT--
1 TTTTTTTTCA-TTTTTTTATTTTCA
**
4230042 TTCATTTTCATTTTTTTATTTT
1 TTTTTTTTCATTTTTTTATTTT
4230064 TTCATCTTCA
Statistics
Matches: 139, Mismatches: 7, Indels: 42
0.74 0.04 0.22
Matches are distributed among these distances:
18 4 0.03
19 38 0.27
20 41 0.29
21 4 0.03
22 12 0.09
23 15 0.11
24 21 0.15
25 4 0.03
ACGTcount: A:0.11, C:0.10, G:0.00, T:0.79
Consensus pattern (24 bp):
TTTTTTTTCATTTTTTTATTTTCA
Found at i:4229914 original size:19 final size:20
Alignment explanation
Indices: 4229892--4230043 Score: 240
Period size: 19 Copynumber: 7.6 Consensus size: 20
4229882 CATTTTTTCA
4229892 TTTTCATTTTTTTTCATTTT
1 TTTTCATTTTTTTTCATTTT
4229912 TTTTCA-TTTTTTTCATTTT
1 TTTTCATTTTTTTTCATTTT
4229931 TTTTCATTTTTTCATTTTCATTTT
1 TTTTCA--TTTT--TTTTCATTTT
4229955 TTTTCATTTTTTTTC-TTTT
1 TTTTCATTTTTTTTCATTTT
4229974 TTTTCATTTTTTTTCATTTT
1 TTTTCATTTTTTTTCATTTT
4229994 TTTTCATTTTTTTTCATTTT
1 TTTTCATTTTTTTTCATTTT
4230014 TTTTCA-TTTTTTTCATTTT
1 TTTTCATTTTTTTTCATTTT
4230033 TTTT-ATTTTTT
1 TTTTCATTTTTT
4230044 CATTTTCATT
Statistics
Matches: 125, Mismatches: 0, Indels: 15
0.89 0.00 0.11
Matches are distributed among these distances:
18 1 0.01
19 60 0.48
20 41 0.33
22 7 0.06
24 16 0.13
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTCATTTTTTTTCATTTT
Found at i:4229931 original size:53 final size:53
Alignment explanation
Indices: 4229874--4230065 Score: 326
Period size: 53 Copynumber: 3.8 Consensus size: 53
4229864 TTTGTTTTGT
4229874 TTTTTTTTCATTTTTTCATTTTCATTTTTTTTCATTTTTTTTCATTTTTTTCA
1 TTTTTTTTCATTTTTTCATTTTCATTTTTTTTCATTTTTTTTCATTTTTTTCA
*
4229927 TTTTTTTTCATTTTTTCATTTTCATTTTTTTTCATTTTTTTTCTTTTTTTTCA
1 TTTTTTTTCATTTTTTCATTTTCATTTTTTTTCATTTTTTTTCATTTTTTTCA
4229980 TTTTTTTTCA--TTTT--TTTTCATTTTTTTTCATTTTTTTTCATTTTTTTCA
1 TTTTTTTTCATTTTTTCATTTTCATTTTTTTTCATTTTTTTTCATTTTTTTCA
4230029 TTTTTTTT-ATTTTTTCATTTTCA-TTTTTTT-ATTTTTT
1 TTTTTTTTCATTTTTTCATTTTCATTTTTTTTCATTTTTT
4230066 CATCTTCAAG
Statistics
Matches: 133, Mismatches: 2, Indels: 11
0.91 0.01 0.08
Matches are distributed among these distances:
48 1 0.01
49 42 0.32
50 11 0.08
51 11 0.08
52 6 0.05
53 62 0.47
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (53 bp):
TTTTTTTTCATTTTTTCATTTTCATTTTTTTTCATTTTTTTTCATTTTTTTCA
Found at i:4230055 original size:19 final size:18
Alignment explanation
Indices: 4229874--4230068 Score: 205
Period size: 19 Copynumber: 11.1 Consensus size: 18
4229864 TTTGTTTTGT
4229874 TTTTTTTTCATTTTTTCA
1 TTTTTTTTCATTTTTTCA
**
4229892 TTTTCATT--TTTTTTCA
1 TTTTTTTTCATTTTTTCA
4229908 TTTTTTTTCATTTTTTTCA
1 TTTTTTTTCA-TTTTTTCA
4229927 TTTTTTTTCATTTTTTCA
1 TTTTTTTTCATTTTTTCA
**
4229945 TTTTCATT--TTTTTTCA
1 TTTTTTTTCATTTTTTCA
*
4229961 TTTTTTTTCTTTTTTTTCA
1 TTTTTTTTC-ATTTTTTCA
4229980 TTTTTTTTCATTTTTTTTCA
1 TTTTTTTTCA--TTTTTTCA
4230000 TTTTTTTTCATTTTTTTTCA
1 TTTTTTTTCA--TTTTTTCA
4230020 -TTTTTTTCATTTTTT--
1 TTTTTTTTCATTTTTTCA
4230035 TTATTTTTTCA--TTTTCA
1 TT-TTTTTTCATTTTTTCA
4230052 -TTTTTTT-ATTTTTTCA
1 TTTTTTTTCATTTTTTCA
4230068 T
1 T
4230069 CTTCAAGAAA
Statistics
Matches: 153, Mismatches: 9, Indels: 31
0.79 0.05 0.16
Matches are distributed among these distances:
14 1 0.01
15 10 0.07
16 36 0.24
17 14 0.09
18 20 0.13
19 44 0.29
20 28 0.18
ACGTcount: A:0.11, C:0.10, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTTTTCATTTTTTCA
Found at i:4230055 original size:29 final size:31
Alignment explanation
Indices: 4229874--4230068 Score: 175
Period size: 29 Copynumber: 6.4 Consensus size: 31
4229864 TTTGTTTTGT
4229874 TTTTTTTTCA-TTTTTTCATTTTCATTTTTTTTCA
1 TTTTTTTTCATTTTTTTCATTTTCA----TTTTCA
4229908 TTTTTTTTCATTTTTTTCATTTT--TTTTCA
1 TTTTTTTTCATTTTTTTCATTTTCATTTTCA
4229937 TTTTTTCATTTTCATTTTTTTTCATTTT--TTTTC-
1 --TTTT--TTTTCA-TTTTTTTCATTTTCATTTTCA
4229970 TTTTTTTTCATTTTTTTTCATTTT--TTTTCA
1 TTTTTTTTCA-TTTTTTTCATTTTCATTTTCA
4230000 TTTTTTTTCATTTTTTTTCA-TTT--TTTTCA
1 TTTTTTTTCA-TTTTTTTCATTTTCATTTTCA
*
4230029 TTTTTTTT-A-TTTTTTCATTTTCATTTT-T
1 TTTTTTTTCATTTTTTTCATTTTCATTTTCA
4230057 TTATTTTTTCAT
1 TT-TTTTTTCAT
4230069 CTTCAAGAAA
Statistics
Matches: 147, Mismatches: 1, Indels: 29
0.83 0.01 0.16
Matches are distributed among these distances:
26 8 0.05
27 3 0.02
28 3 0.02
29 58 0.39
30 21 0.14
31 8 0.05
33 6 0.04
34 28 0.19
35 12 0.08
ACGTcount: A:0.11, C:0.10, G:0.00, T:0.79
Consensus pattern (31 bp):
TTTTTTTTCATTTTTTTCATTTTCATTTTCA
Found at i:4230056 original size:39 final size:40
Alignment explanation
Indices: 4229875--4230049 Score: 220
Period size: 43 Copynumber: 4.3 Consensus size: 40
4229865 TTGTTTTGTT
4229875 TTTTTTTCATTTTTTCATTTTCATTTTTTTTCATTTTTTTTCA
1 TTTTTTTCA-TTTTT--TTTTCATTTTTTTTCATTTTTTTTCA
4229918 TTTTTTTCA-TTTTTTTTCATTTTTTCATTTTCATTTTTTTTCA
1 TTTTTTTCATTTTTTTTTCA--TTTT--TTTTCATTTTTTTTCA
4229961 TTTTTTT--TCTTTTTTTTCATTTTTTTTCATTTTTTTTCA
1 TTTTTTTCAT-TTTTTTTTCATTTTTTTTCATTTTTTTTCA
4230000 TTTTTTTTCA-TTTTTTTTCA-TTTTTTTCATTTTTTTT-A
1 -TTTTTTTCATTTTTTTTTCATTTTTTTTCATTTTTTTTCA
4230038 -TTTTTTCATTTT
1 TTTTTTTCATTTT
4230050 CATTTTTTTA
Statistics
Matches: 122, Mismatches: 0, Indels: 26
0.82 0.00 0.18
Matches are distributed among these distances:
36 8 0.07
37 3 0.02
38 1 0.01
39 39 0.32
40 17 0.14
41 12 0.10
43 42 0.34
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.79
Consensus pattern (40 bp):
TTTTTTTCATTTTTTTTTCATTTTTTTTCATTTTTTTTCA
Found at i:4239932 original size:15 final size:15
Alignment explanation
Indices: 4239912--4239953 Score: 75
Period size: 15 Copynumber: 2.7 Consensus size: 15
4239902 TGATGTCTCG
4239912 GTGCTCGGGAGTGGC
1 GTGCTCGGGAGTGGC
4239927 GTGCTCGGGAGTGGC
1 GTGCTCGGGAGTGGC
4239942 GTGCTCGTGGAG
1 GTGCTCG-GGAG
4239954 CGTGTGTTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 22 0.85
16 4 0.15
ACGTcount: A:0.07, C:0.19, G:0.52, T:0.21
Consensus pattern (15 bp):
GTGCTCGGGAGTGGC
Found at i:4242238 original size:32 final size:26
Alignment explanation
Indices: 4242182--4242249 Score: 75
Period size: 27 Copynumber: 2.4 Consensus size: 26
4242172 TTCTACTTTA
4242182 AAATAATATTATTTTATATATTTAAT
1 AAATAATATTATTTTATATATTTAAT
4242208 ATAATAATATAATATTTTAGTATCATTTTAAT
1 A-AATAATAT--TATTTTA-TAT-A-TTTAAT
4242240 AAA-AATATTA
1 AAATAATATTA
4242250 ATTGTTAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
26 1 0.03
27 8 0.22
28 2 0.06
29 7 0.19
30 8 0.22
31 3 0.08
32 7 0.19
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (26 bp):
AAATAATATTATTTTATATATTTAAT
Found at i:4242284 original size:44 final size:43
Alignment explanation
Indices: 4242232--4242388 Score: 122
Period size: 52 Copynumber: 3.5 Consensus size: 43
4242222 TTTTAGTATC
4242232 ATTTTAAT-A-AAAATATTAATTGTTAAATATATTGATTAATA
1 ATTTTAATAATAAAATATTAATTGTTAAATATATTGATTAATA
* * *
4242273 ATTTTAATAATATAATATTATATTTATTATTATGATAGTATACTAAATT-ATA
1 ATTTTAATAATAAAATATTA-A-TTGTTA--A--ATA-TAT--T-GATTAATA
* * * *
4242325 GTTATAATTATATAATATTAATTGTTAAATATATTGATTAATA
1 ATTTTAATAATAAAATATTAATTGTTAAATATATTGATTAATA
*
4242368 ATTTATAATAATATAATATTA
1 ATTT-TAATAATAAAATATTA
4242389 TATTTATTAT
Statistics
Matches: 91, Mismatches: 11, Indels: 25
0.72 0.09 0.20
Matches are distributed among these distances:
41 8 0.09
42 4 0.04
43 14 0.15
44 16 0.18
45 8 0.09
46 3 0.03
47 1 0.01
48 1 0.01
49 3 0.03
50 8 0.09
51 1 0.01
52 21 0.23
53 3 0.03
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.48
Consensus pattern (43 bp):
ATTTTAATAATAAAATATTAATTGTTAAATATATTGATTAATA
Found at i:4242301 original size:52 final size:52
Alignment explanation
Indices: 4242245--4242397 Score: 148
Period size: 46 Copynumber: 3.1 Consensus size: 52
4242235 TTAATAAAAA
4242245 TATTAATTGTTAAATATATTGATTAATAATTTTAATAATATAATATTATATT
1 TATTAATTGTTAAATATATTGATTAATAATTTTAATAATATAATATTATATT
* * * * * *
4242297 TATT-ATT-AT-GATAGTA-T-ACT-A-AATTATAGT--TAT-A-ATTATATAA
1 TATTAATTGTTAAATA-TATTGATTAATAATTTTAATAATATAATATTATAT-T
4242340 TATTAATTGTTAAATATATTGATTAATAATTTATAATAATATAATATTATATT
1 TATTAATTGTTAAATATATTGATTAATAATTT-TAATAATATAATATTATATT
4242393 TATTA
1 TATTA
4242398 TTATGATAGT
Statistics
Matches: 75, Mismatches: 12, Indels: 27
0.66 0.11 0.24
Matches are distributed among these distances:
42 7 0.09
43 5 0.07
44 6 0.08
45 3 0.04
46 11 0.15
47 3 0.04
48 3 0.04
49 8 0.11
50 6 0.08
51 3 0.04
52 7 0.09
53 6 0.08
54 7 0.09
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.50
Consensus pattern (52 bp):
TATTAATTGTTAAATATATTGATTAATAATTTTAATAATATAATATTATATT
Found at i:4242324 original size:30 final size:31
Alignment explanation
Indices: 4242280--4242422 Score: 91
Period size: 33 Copynumber: 4.5 Consensus size: 31
4242270 ATAATTTTAA
4242280 TAATA-TAATATTATATTTATTATTATGATAG
1 TAATACTAA-ATTATATTTATTATTATGATAG
* *
4242311 T-ATACTAAATTATAGTTATAATTA-TATAATAT
1 TAATACTAAATTATA-TT-T-ATTATTATGATAG
** * * * *
4242343 TAATTGTTAAA-TATATTGATTAATAATTTATAA
1 TAA-TACTAAATTATATTTATT-ATTA-TGATAG
4242376 TAATA-TAATATTATATTTATTATTATGATAG
1 TAATACTAA-ATTATATTTATTATTATGATAG
*
4242407 T-TTACTAAATTATATT
1 TAATACTAAATTATATT
4242423 ATAATAAATT
Statistics
Matches: 86, Mismatches: 14, Indels: 25
0.69 0.11 0.20
Matches are distributed among these distances:
30 22 0.26
31 18 0.21
32 16 0.19
33 25 0.29
34 5 0.06
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.50
Consensus pattern (31 bp):
TAATACTAAATTATATTTATTATTATGATAG
Found at i:4242406 original size:96 final size:95
Alignment explanation
Indices: 4242243--4242485 Score: 350
Period size: 96 Copynumber: 2.5 Consensus size: 95
4242233 TTTTAATAAA
4242243 AATATTAATTGTTAAATATATTGATTAATAATTTTAATAATATAATATTATATTTATTATTATGA
1 AATATTAATTGTTAAATATATTGATTAATAATTTTAATAATATAATATTATATTTATTATTATGA
*
4242308 TAGTATACTAAATTATAGTTATAAT-TATAT
66 TAGTATACTAAATTATA-TTATAATAAATAT
4242338 AATATTAATTGTTAAATATATTGATTAATAATTTATAATAATATAATATTATATTTATTATTATG
1 AATATTAATTGTTAAATATATTGATTAATAATTT-TAATAATATAATATTATATTTATTATTATG
* *
4242403 ATAGTTTACTAAATTATATTATAATAAATTT
65 ATAGTATACTAAATTATATTATAATAAATAT
* * * *
4242434 AATATTATATTATTAAA-ATTATTAATCAAT-ATATTTAACAAT-TAATATTATA
1 AATATTA-ATTGTTAAATA-TATTGATTAATAAT-TTTAATAATATAATATTATA
4242486 ATTTTTAGGA
Statistics
Matches: 136, Mismatches: 7, Indels: 10
0.89 0.05 0.07
Matches are distributed among these distances:
95 51 0.38
96 66 0.49
97 19 0.14
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.49
Consensus pattern (95 bp):
AATATTAATTGTTAAATATATTGATTAATAATTTTAATAATATAATATTATATTTATTATTATGA
TAGTATACTAAATTATATTATAATAAATAT
Found at i:4251253 original size:21 final size:20
Alignment explanation
Indices: 4251223--4251262 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
4251213 GGGATTGTAA
*
4251223 TAAAGTTTTTAAAGTTTTTTT
1 TAAAGATTTT-AAGTTTTTTT
4251244 TAAAGATTTTAAGTTTTTT
1 TAAAGATTTTAAGTTTTTT
4251263 GAGTTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.30, C:0.00, G:0.10, T:0.60
Consensus pattern (20 bp):
TAAAGATTTTAAGTTTTTTT
Found at i:4251653 original size:11 final size:11
Alignment explanation
Indices: 4251639--4251672 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
4251629 TTAGTTTATC
*
4251639 ATTATCTTTTT
1 ATTATCATTTT
4251650 ATTATCATTTT
1 ATTATCATTTT
*
4251661 ATCATCATTTT
1 ATTATCATTTT
4251672 A
1 A
4251673 GGATAGTAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.26, C:0.12, G:0.00, T:0.62
Consensus pattern (11 bp):
ATTATCATTTT
Found at i:4256117 original size:46 final size:46
Alignment explanation
Indices: 4256038--4256127 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
4256028 ATATTATTAA
* *
4256038 TAGATTTTCCTATTGCAGAATAAATAATAATAATTCTTGTTTTTTT
1 TAGATTTTCCTATTGCAGAATAAATAATAATAATTATTGGTTTTTT
* *
4256084 TAGATTTTTCTATTGCAGAATAAATTAA-CATAATTATTGGTTTT
1 TAGATTTTCCTATTGCAGAATAAA-TAATAATAATTATTGGTTTT
4256128 CACTATTGCA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
46 36 0.92
47 3 0.08
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.49
Consensus pattern (46 bp):
TAGATTTTCCTATTGCAGAATAAATAATAATAATTATTGGTTTTTT
Found at i:4259004 original size:22 final size:22
Alignment explanation
Indices: 4258957--4259004 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
4258947 GATCCGATAT
*
4258957 GGAGTGTCACACTAAGGCCACT
1 GGAGTGTCACACTAAGGCCACC
* *
4258979 GGAGTGTCACACTAGGGCTACC
1 GGAGTGTCACACTAAGGCCACC
4259001 GGAG
1 GGAG
4259005 CGACCCACCG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.25, C:0.25, G:0.33, T:0.17
Consensus pattern (22 bp):
GGAGTGTCACACTAAGGCCACC
Found at i:4263640 original size:59 final size:60
Alignment explanation
Indices: 4263575--4263722 Score: 205
Period size: 60 Copynumber: 2.5 Consensus size: 60
4263565 CATTTTAAAG
* * * *
4263575 AGTTCTTAAA-TTTTAAAATATTTTAATTTCATCC-TAAATTATGATTCTTATTTC-AAATT
1 AGTTCTTAAACTTTT-GAATATTCTAATTTCATCCTTAAACTATGA-TCCTATTTCTAAATT
4263634 AGTTCTTAAACTTTTGAATATTCTAATTTCATCCTTAAACTATGATCCTATTTCTAAATT
1 AGTTCTTAAACTTTTGAATATTCTAATTTCATCCTTAAACTATGATCCTATTTCTAAATT
4263694 AG-TCTTTAAACTTTTGAATATTCTAATTT
1 AGTTC-TTAAACTTTTGAATATTCTAATTT
4263723 TAATCCCAAA
Statistics
Matches: 81, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
59 37 0.46
60 44 0.54
ACGTcount: A:0.33, C:0.13, G:0.05, T:0.49
Consensus pattern (60 bp):
AGTTCTTAAACTTTTGAATATTCTAATTTCATCCTTAAACTATGATCCTATTTCTAAATT
Found at i:4264634 original size:12 final size:12
Alignment explanation
Indices: 4264617--4264641 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4264607 CCATCCAAGA
4264617 CTTGGGAATGTG
1 CTTGGGAATGTG
4264629 CTTGGGAATGTG
1 CTTGGGAATGTG
4264641 C
1 C
4264642 AGGGAAAACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.12, G:0.40, T:0.32
Consensus pattern (12 bp):
CTTGGGAATGTG
Found at i:4269594 original size:2 final size:2
Alignment explanation
Indices: 4269589--4269626 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
4269579 ATATATGTTC
4269589 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
4269627 TCACTCTTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:4272940 original size:81 final size:81
Alignment explanation
Indices: 4272849--4273010 Score: 324
Period size: 81 Copynumber: 2.0 Consensus size: 81
4272839 CATATTCGTT
4272849 CACGTTCGCTGATGTTCCTTAATATAAATCTTTCTTCTCACTTATATTCGTGTTCTGTTATAGGT
1 CACGTTCGCTGATGTTCCTTAATATAAATCTTTCTTCTCACTTATATTCGTGTTCTGTTATAGGT
4272914 GTTACATACAAAAAGG
66 GTTACATACAAAAAGG
4272930 CACGTTCGCTGATGTTCCTTAATATAAATCTTTCTTCTCACTTATATTCGTGTTCTGTTATAGGT
1 CACGTTCGCTGATGTTCCTTAATATAAATCTTTCTTCTCACTTATATTCGTGTTCTGTTATAGGT
4272995 GTTACATACAAAAAGG
66 GTTACATACAAAAAGG
4273011 TTCATGTTTG
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.41
Consensus pattern (81 bp):
CACGTTCGCTGATGTTCCTTAATATAAATCTTTCTTCTCACTTATATTCGTGTTCTGTTATAGGT
GTTACATACAAAAAGG
Found at i:4275508 original size:21 final size:21
Alignment explanation
Indices: 4275446--4275510 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
4275436 CTAAAAAACC
* *
4275446 TGCTGAAAATCCTATAGCCAC
1 TGCTGAAAATCCTACAGCCAT
*
4275467 TACTGAAAATCCTACAGCCAT
1 TGCTGAAAATCCTACAGCCAT
*
4275488 TGCTGAAATTCCTACAGCCAT
1 TGCTGAAAATCCTACAGCCAT
4275509 TG
1 TG
4275511 TAATTCCTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (21 bp):
TGCTGAAAATCCTACAGCCAT
Found at i:4275517 original size:18 final size:20
Alignment explanation
Indices: 4275476--4275518 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
4275466 CTACTGAAAA
4275476 TCCTACAGCCATTGCTGAAAT
1 TCCTACAGCCATTGCT-AAAT
4275497 TCCTACAGCCATTG-T-AAT
1 TCCTACAGCCATTGCTAAAT
4275515 TCCT
1 TCCT
4275519 GATTTGGACC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.32
20 1 0.05
21 14 0.64
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.33
Consensus pattern (20 bp):
TCCTACAGCCATTGCTAAAT
Found at i:4280237 original size:31 final size:32
Alignment explanation
Indices: 4280169--4280238 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 32
4280159 GTAACAACGT
* * * *
4280169 CAAACGACCGGTTACGTCGGGGGACTATATTG
1 CAAACAACCGGTTACGTCGGGAGACCATATTA
*
4280201 TAAACAACCGGTTACGTC-GGAGACCATATTA
1 CAAACAACCGGTTACGTCGGGAGACCATATTA
4280232 CAAACAA
1 CAAACAA
4280239 ACTAAATGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
31 16 0.50
32 16 0.50
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (32 bp):
CAAACAACCGGTTACGTCGGGAGACCATATTA
Found at i:4281177 original size:21 final size:21
Alignment explanation
Indices: 4281159--4281197 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4281149 GTTCAAAATT
*
4281159 TAAAA-TTAAATTTTAAAAAA
1 TAAAATTTAAATATTAAAAAA
4281179 TAAAATTTAAATATTAAAA
1 TAAAATTTAAATATTAAAA
4281198 CAGACGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
TAAAATTTAAATATTAAAAAA
Found at i:4281196 original size:14 final size:13
Alignment explanation
Indices: 4281153--4281197 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
4281143 TTATCAGTTC
4281153 AAAATTTAAAATT
1 AAAATTTAAAATT
* *
4281166 AAATTTTAAAAAAT
1 AAAATTT-AAAATT
4281180 AAAATTTAAATATT
1 AAAATTTAAA-ATT
4281194 AAAA
1 AAAA
4281198 CAGACGAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
13 9 0.35
14 17 0.65
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AAAATTTAAAATT
Found at i:4281966 original size:13 final size:13
Alignment explanation
Indices: 4281929--4281966 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
4281919 AAAACTACAT
*
4281929 AAATAAATAAATA
1 AAATGAATAAATA
4281942 AAA-GAATAAAATA
1 AAATGAAT-AAATA
4281955 AAATGAATAAAT
1 AAATGAATAAAT
4281967 GGTAAATCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 3 0.14
13 15 0.68
14 4 0.18
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (13 bp):
AAATGAATAAATA
Found at i:4290970 original size:20 final size:20
Alignment explanation
Indices: 4290945--4290984 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
4290935 TCTTGGTGCA
*
4290945 GAGGGAATCGATCCCCCCTT
1 GAGGGAACCGATCCCCCCTT
*
4290965 GAGGGAACCGATTCCCCCTT
1 GAGGGAACCGATCCCCCCTT
4290985 TGAAGGGGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.20, C:0.35, G:0.25, T:0.20
Consensus pattern (20 bp):
GAGGGAACCGATCCCCCCTT
Found at i:4291025 original size:21 final size:21
Alignment explanation
Indices: 4290988--4291027 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4290978 CCCCCTTTGA
*
4290988 AGGGGAACTGATTCCCCCCAC
1 AGGGGAACTGATACCCCCCAC
4291009 AGGGGAA-TCGATACCCCCC
1 AGGGGAACT-GATACCCCCC
4291028 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.25, C:0.38, G:0.25, T:0.12
Consensus pattern (21 bp):
AGGGGAACTGATACCCCCCAC
Found at i:4295475 original size:37 final size:35
Alignment explanation
Indices: 4295364--4295585 Score: 134
Period size: 35 Copynumber: 6.5 Consensus size: 35
4295354 TTTAAAAAAT
* * *
4295364 AAACTATATA-T-TAT-A-TTTAAAAACATTTTCA
1 AAACTATATATTATATAATTTTCAAAATATTTTTA
* *
4295395 AAACTATA--TTATATAGTTTTCAAAAATGATTTTAA
1 AAACTATATATTATATAATTTTC-AAAAT-ATTTTTA
* *
4295430 AAAC-AT-TA-TATA-AGTTTTCCAAAT-TTTTTA
1 AAACTATATATTATATAATTTTCAAAATATTTTTA
4295460 AAACTATATATATTATATAAATTTTCCAAAAATATTTATTAA
1 AAAC--TATATATTATAT-AATTTT-C-AAAATATTT-TT-A
*
4295502 AAACTATATA-T-TAT-ATTTTCAAAATGA-TTTCA
1 AAACTATATATTATATAATTTTCAAAAT-ATTTTTA
* *
4295534 AAACTATATACTATATAATTTTCAAAAT-GTTTTA
1 AAACTATATATTATATAATTTTCAAAATATTTTTA
*
4295568 AAACTTATATATTGTATA
1 AAAC-TATATATTATATA
4295586 TAAGATATAA
Statistics
Matches: 153, Mismatches: 12, Indels: 48
0.72 0.06 0.23
Matches are distributed among these distances:
30 10 0.07
31 11 0.07
32 15 0.10
33 14 0.09
34 30 0.20
35 38 0.25
36 5 0.03
37 5 0.03
38 4 0.03
39 5 0.03
40 9 0.06
41 2 0.01
42 5 0.03
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.44
Consensus pattern (35 bp):
AAACTATATATTATATAATTTTCAAAATATTTTTA
Found at i:4295512 original size:72 final size:71
Alignment explanation
Indices: 4295399--4295577 Score: 182
Period size: 72 Copynumber: 2.6 Consensus size: 71
4295389 TTTTCAAAAC
* * * *
4295399 TATATTATATAGTTTTCAAAAATGATTTTAAAAACATTATA-TA-AGTTTTCCAAAT-TTTTTAA
1 TATATTATATAATTTTCAAAAATGATTTTAAAAACATTATATTATA-TTTTCAAAATGATTTCAA
4295461 AACTATA
65 AACTATA
4295468 TATATTATATAAATTTTCCAAAAAT-ATTTATTAAAAAC-TATATATTATATTTTCAAAATGATT
1 TATATTATAT-AATTTT-CAAAAATGA-TT-TTAAAAACAT-TATATTATATTTTCAAAATGATT
4295531 TCAAAAC--TA
61 TCAAAACTATA
*
4295540 TATACTATATAATTTTC-AAAATG-TTTT-AAAAC-TTATAT
1 TATATTATATAATTTTCAAAAATGATTTTAAAAACATTATAT
4295578 ATTGTATATA
Statistics
Matches: 96, Mismatches: 5, Indels: 22
0.78 0.04 0.18
Matches are distributed among these distances:
65 5 0.05
66 6 0.06
67 2 0.02
68 2 0.02
69 15 0.16
70 7 0.07
71 16 0.17
72 23 0.24
73 11 0.11
74 9 0.09
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.45
Consensus pattern (71 bp):
TATATTATATAATTTTCAAAAATGATTTTAAAAACATTATATTATATTTTCAAAATGATTTCAAA
ACTATA
Found at i:4295588 original size:37 final size:33
Alignment explanation
Indices: 4295364--4295579 Score: 146
Period size: 34 Copynumber: 6.4 Consensus size: 33
4295354 TTTAAAAAAT
** *
4295364 AAACTATATAT-TAT-ATTTAAAAACAT-TTTCA
1 AAACTATATATATATAATTTTCAAA-ATGTTTTA
*
4295395 AAACTATAT-TATATAGTTTTCAAAAATGATTTTAA
1 AAACTATATATATATAATTTTC-AAAATG-TTTT-A
* * *
4295430 AAAC-AT-TATATA-AGTTTTCCAAATTTTTTA
1 AAACTATATATATATAATTTTCAAAATGTTTTA
*
4295460 AAACTATATATATTATATAAATTTTCCAAAAATATTTATTAA
1 AAAC--TATATA-TATAT-AATTTT-C-AAAAT-GTT-TT-A
*
4295502 AAACTATATAT-TAT-ATTTTCAAAATGATTTCA
1 AAACTATATATATATAATTTTCAAAATG-TTTTA
4295534 AAACTATATACTATATAATTTTCAAAATGTTTTA
1 AAACTATATA-TATATAATTTTCAAAATGTTTTA
4295568 AAACT-TATATAT
1 AAACTATATATAT
4295580 TGTATATAAG
Statistics
Matches: 151, Mismatches: 11, Indels: 45
0.73 0.05 0.22
Matches are distributed among these distances:
30 6 0.04
31 16 0.11
32 23 0.15
33 19 0.13
34 30 0.20
35 22 0.15
36 5 0.03
37 5 0.03
38 4 0.03
39 5 0.03
40 9 0.06
41 2 0.01
42 5 0.03
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (33 bp):
AAACTATATATATATAATTTTCAAAATGTTTTA
Found at i:4295644 original size:37 final size:39
Alignment explanation
Indices: 4295603--4295713 Score: 102
Period size: 37 Copynumber: 2.9 Consensus size: 39
4295593 TAAGTTTTTT
*
4295603 AAAAACGTTTTAAAAAAACTATATA-A-TATATATTTCA
1 AAAAACATTTTAAAAAAACTATATATATTATATATTTCA
* *** *
4295640 AAAAATATTTTTTGAAAACTATATATATTATATTTTTC-
1 AAAAACATTTTAAAAAAACTATATATATTATATATTTCA
* * *
4295678 AAAAATATTTTCAAAAAATTATACTATATTACTATA
1 AAAAACATTTTAAAAAAACTATA-TATATTA-TATA
4295714 ATAAAAATAA
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
37 20 0.34
38 20 0.34
39 16 0.27
40 3 0.05
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (39 bp):
AAAAACATTTTAAAAAAACTATATATATTATATATTTCA
Found at i:4295706 original size:39 final size:39
Alignment explanation
Indices: 4295610--4295713 Score: 115
Period size: 38 Copynumber: 2.7 Consensus size: 39
4295600 TTTAAAAACG
*
4295610 TTTTAAAAAAACTATATA-A-TATATATTTCAAAAAATA
1 TTTTCAAAAAACTATATATATTATATATTTCAAAAAATA
*** *
4295647 TTTTTTGAAAACTATATATATTATATTTTTC-AAAAATA
1 TTTTCAAAAAACTATATATATTATATATTTCAAAAAATA
*
4295685 TTTTCAAAAAATTATACTATATTACTATA
1 TTTTCAAAAAACTATA-TATATTA-TATA
4295714 ATAAAAATAA
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
37 15 0.28
38 20 0.37
39 16 0.30
40 3 0.06
ACGTcount: A:0.48, C:0.07, G:0.01, T:0.44
Consensus pattern (39 bp):
TTTTCAAAAAACTATATATATTATATATTTCAAAAAATA
Found at i:4312690 original size:22 final size:22
Alignment explanation
Indices: 4312664--4312717 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
4312654 TTCTATACTA
*
4312664 GTATCGATACTCCTAAGTTAGG
1 GTATCGATACTCCTAAGCTAGG
*
4312686 GTATCGATACTTCTAAGCTAGG
1 GTATCGATACTCCTAAGCTAGG
4312708 GTATCGATAC
1 GTATCGATAC
4312718 CAAATTTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (22 bp):
GTATCGATACTCCTAAGCTAGG
Found at i:4314817 original size:32 final size:30
Alignment explanation
Indices: 4314758--4314817 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
4314748 TAAGCTCATT
* * *
4314758 AAAATTTTTCTCGACTTTTGTTCATTAAAA
1 AAAATTTTGCTCGACTATTGCTCATTAAAA
4314788 AAAATTGTTGCTCGACTCATTGCTCATTAA
1 AAAATT-TTGCTCGACT-ATTGCTCATTAA
4314818 GCTCGTTACT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 6 0.24
31 9 0.36
32 10 0.40
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.42
Consensus pattern (30 bp):
AAAATTTTGCTCGACTATTGCTCATTAAAA
Found at i:4314878 original size:12 final size:12
Alignment explanation
Indices: 4314861--4314891 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
4314851 ATTAAGCTCG
*
4314861 TTGCTCACCTTA
1 TTGCTCACCTCA
4314873 TTGCTCACCTCA
1 TTGCTCACCTCA
4314885 TTGCTCA
1 TTGCTCA
4314892 TTAAGTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.16, C:0.35, G:0.10, T:0.39
Consensus pattern (12 bp):
TTGCTCACCTCA
Found at i:4316139 original size:20 final size:21
Alignment explanation
Indices: 4316110--4316170 Score: 61
Period size: 24 Copynumber: 2.8 Consensus size: 21
4316100 ACAATCACGA
* *
4316110 TGGTACCGATACTCCTCCTTG
1 TGGTATCGATACTCCTCCCTG
4316131 -GGTATCGATACTTCCTTTCCCTG
1 TGGTATCGATAC-TCC--TCCCTG
4316154 TGGTATCGATACCTCCT
1 TGGTATCGATA-CTCCT
4316171 TAAGTATCGG
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
20 10 0.30
21 3 0.09
22 1 0.03
23 5 0.15
24 13 0.39
25 1 0.03
ACGTcount: A:0.15, C:0.31, G:0.18, T:0.36
Consensus pattern (21 bp):
TGGTATCGATACTCCTCCCTG
Found at i:4319803 original size:2 final size:2
Alignment explanation
Indices: 4319796--4319836 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
4319786 ATCTAAAAAC
4319796 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4319837 GAGTAGGGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4323271 original size:16 final size:15
Alignment explanation
Indices: 4323248--4323278 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
4323238 ACTGAGTTTA
4323248 AAACTTATAAGAACT
1 AAACTTATAAGAACT
4323263 AAACATTATAAGAACT
1 AAAC-TTATAAGAACT
4323279 CAGGCGTCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.55, C:0.13, G:0.06, T:0.26
Consensus pattern (15 bp):
AAACTTATAAGAACT
Found at i:4323338 original size:2 final size:2
Alignment explanation
Indices: 4323331--4323363 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4323321 CTATTATGTC
4323331 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4323364 AATCAAAAAT
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:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4329825 original size:60 final size:60
Alignment explanation
Indices: 4329711--4329836 Score: 139
Period size: 60 Copynumber: 2.1 Consensus size: 60
4329701 GGTGACCATC
* * *
4329711 TTGTAACTTTTAATAGTTGATAGACTCAACAAAGAAACACTCTATAGTTTGAGGATAATT
1 TTGTAACTTTTAATAGTTCAGAGACTCAACAAAGAAACACTCTATAGTTAGAGGATAATT
* * * * *
4329771 TTGTAACTTTTAATA-TTCCAGAGACTTAATAAAGCAATACTCTATA-TTCAGAGGATCATT
1 TTGTAACTTTTAATAGTT-CAGAGACTCAACAAAGAAACACTCTATAGTT-AGAGGATAATT
4329831 TATGTA
1 T-TGTA
4329837 TTTTACCCAA
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
59 4 0.07
60 47 0.85
61 4 0.07
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (60 bp):
TTGTAACTTTTAATAGTTCAGAGACTCAACAAAGAAACACTCTATAGTTAGAGGATAATT
Found at i:4330548 original size:31 final size:31
Alignment explanation
Indices: 4330501--4330580 Score: 144
Period size: 31 Copynumber: 2.6 Consensus size: 31
4330491 TCACTCGGAT
*
4330501 TTAAA-TTATTGAATCAAACTGTTACAGAAA
1 TTAAATTTATGGAATCAAACTGTTACAGAAA
4330531 TTAAATTTATGGAATCAAACTGTTACAGAAA
1 TTAAATTTATGGAATCAAACTGTTACAGAAA
4330562 TTAAATTTATGGAATCAAA
1 TTAAATTTATGGAATCAAA
4330581 GTGGAGGGAC
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 5 0.10
31 43 0.90
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.34
Consensus pattern (31 bp):
TTAAATTTATGGAATCAAACTGTTACAGAAA
Found at i:4332476 original size:24 final size:24
Alignment explanation
Indices: 4332449--4332508 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
4332439 AAATATAAAA
* **
4332449 ATAAATGAGCTT-TTAAATGAGTTT
1 ATAAACGAGCTTCTT-AATGAACTT
*
4332473 ATAAACGAGATTCTTAATGAACTT
1 ATAAACGAGCTTCTTAATGAACTT
4332497 ATAAACGAGCTT
1 ATAAACGAGCTT
4332509 ATTCGTGAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 28 0.93
25 2 0.07
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (24 bp):
ATAAACGAGCTTCTTAATGAACTT
Found at i:4335633 original size:19 final size:20
Alignment explanation
Indices: 4335597--4335637 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
4335587 TTCTTTAAAA
*
4335597 TTTTATAAATTTATTTTTAT
1 TTTTATAAATCTATTTTTAT
*
4335617 TTTTATAAGTCTA-TTTTAT
1 TTTTATAAATCTATTTTTAT
4335636 TT
1 TT
4335638 AAAATTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (20 bp):
TTTTATAAATCTATTTTTAT
Found at i:4336563 original size:19 final size:19
Alignment explanation
Indices: 4336541--4336578 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
4336531 GACCGATACA
4336541 GGTGACCTGATCCGATCCG
1 GGTGACCTGATCCGATCCG
4336560 GGTGACCTGATCCGATCCG
1 GGTGACCTGATCCGATCCG
4336579 ATGTGTCACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.32, G:0.32, T:0.21
Consensus pattern (19 bp):
GGTGACCTGATCCGATCCG
Found at i:4339685 original size:17 final size:16
Alignment explanation
Indices: 4339647--4339694 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 16
4339637 CGAAAAACAT
* *
4339647 AAAATATGATTTTTCG
1 AAAATTTGACTTTTCG
4339663 ACAAATTTGACTTTTCGG
1 A-AAATTTGACTTTTC-G
4339681 AAAATTTGACTTTT
1 AAAATTTGACTTTT
4339695 TTTTTGTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 1 0.04
17 25 0.89
18 2 0.07
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.44
Consensus pattern (16 bp):
AAAATTTGACTTTTCG
Found at i:4339725 original size:13 final size:13
Alignment explanation
Indices: 4339707--4339731 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4339697 TTTGTCAAAA
4339707 TCAAAGTCAACGG
1 TCAAAGTCAACGG
4339720 TCAAAGTCAACG
1 TCAAAGTCAACG
4339732 ATTAACTCTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.20, T:0.16
Consensus pattern (13 bp):
TCAAAGTCAACGG
Found at i:4340773 original size:21 final size:21
Alignment explanation
Indices: 4340749--4340815 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 21
4340739 ATTAGGGACT
4340749 ATTATAAAAGTAAAAAGTTTG
1 ATTATAAAAGTAAAAAGTTTG
* * * * **
4340770 ATTAAAAAAATTAAAGGCTTCA
1 ATTATAAAAGTAAAAAG-TTTG
* *
4340792 ATTATAAAAGTAGAAAGTGTG
1 ATTATAAAAGTAAAAAGTTTG
4340813 ATT
1 ATT
4340816 GAAAAAATTA
Statistics
Matches: 31, Mismatches: 14, Indels: 2
0.66 0.30 0.04
Matches are distributed among these distances:
21 17 0.55
22 14 0.45
ACGTcount: A:0.51, C:0.03, G:0.15, T:0.31
Consensus pattern (21 bp):
ATTATAAAAGTAAAAAGTTTG
Found at i:4340797 original size:43 final size:43
Alignment explanation
Indices: 4340749--4341400 Score: 422
Period size: 43 Copynumber: 15.2 Consensus size: 43
4340739 ATTAGGGACT
* ** *
4340749 ATTATAAAAGTAAAAAGTTTGATTAAAAAAATTAAAGGCTTCA
1 ATTATAAAGGTAAAAAGTGAGATTAAAAAAATTAAGGGCTTCA
* * * * * * *
4340792 ATTATAAAAGTAGAAAGTGTGATTGAAAAAATTAGGGGCCTAA
1 ATTATAAAGGTAAAAAGTGAGATTAAAAAAATTAAGGGCTTCA
* * *
4340835 ATTATAAAGGTAAAAGGTAAGATTTAAAAAATT-AGGG-TCTCA
1 ATTATAAAGGTAAAAAGTGAGATTAAAAAAATTAAGGGCT-TCA
* *
4340877 ATTATAAAGGTAAAAAGTGAGATTGAAAAAAA-TAATGGCCTCA
1 ATTATAAAGGTAAAAAGTGAGATT-AAAAAAATTAAGGGCTTCA
* *
4340920 ATTATAAAGGTAAAAAGTAAGATTGAAAAAACTTAAGGG-TCTCA
1 ATTATAAAGGTAAAAAGTGAGATT-AAAAAAATTAAGGGCT-TCA
* *
4340964 ATTATAAAAGTAAAAAGTGAGAATGT-AAAAAA-T-AGGAGCTTTA
1 ATTATAAAGGTAAAAAGTGAG-AT-TAAAAAAATTAAGG-GCTTCA
** * * * * * *
4341007 ATTATAAAATTAAAAGGTGGGATT-GAAAATTTTAGGAGCCTCA
1 ATTATAAAGGTAAAAAGTGAGATTAAAAAAATTAAGG-GCTTCA
* * * *
4341050 ATTATAAAGGTAAAAGGTGAGATTAAAAAAATTAGGGGTTTTA
1 ATTATAAAGGTAAAAAGTGAGATTAAAAAAATTAAGGGCTTCA
* * * * **
4341093 ATTATAAAAGTAGAAAGTGAGATT-GAAAAATTAGGGGCCACA
1 ATTATAAAGGTAAAAAGTGAGATTAAAAAAATTAAGGGCTTCA
* * * *
4341135 GTTATAAAGGTAAAAAAT-AGGATTGAAAAAAATTAGGGGCCTCA
1 ATTATAAAGGTAAAAAGTGA-GATT-AAAAAAATTAAGGGCTTCA
** * * * *
4341179 AACAGAAATGTAAAACGTGAGATTAAAAAAATTATA-GGTTTCA
1 ATTATAAAGGTAAAAAGTGAGATTAAAAAAATTA-AGGGCTTCA
* * * *
4341222 ATTATAAAGGTAGAAAGAGAGA-TAGAAAAAGTT-AGGGACTTTA
1 ATTATAAAGGTAAAAAGTGAGATTA-AAAAAATTAAGGG-CTTCA
* * * * *
4341265 ATTATAAAGGTAAAAAATAAGATTGAAAAAAATT-AGAGCCTAA
1 ATTATAAAGGTAAAAAGTGAGATT-AAAAAAATTAAGGGCTTCA
* ** * *
4341308 ACTATAATTGAAAAAAGTGAGATTAAAAAAATT-AGGGACCTCA
1 ATTATAAAGGTAAAAAGTGAGATTAAAAAAATTAAGGG-CTTCA
* * * * *
4341351 ATTATTAAGAT-AAAAGTGGGATTACAAACATT-AGGAGCCTT-A
1 ATTATAAAGGTAAAAAGTGAGATTAAAAAAATTAAGG-G-CTTCA
4341393 ATTATAAA
1 ATTATAAA
4341401 TATAATAAAA
Statistics
Matches: 476, Mismatches: 108, Indels: 51
0.75 0.17 0.08
Matches are distributed among these distances:
41 7 0.01
42 110 0.23
43 271 0.57
44 83 0.17
45 4 0.01
46 1 0.00
ACGTcount: A:0.49, C:0.06, G:0.19, T:0.26
Consensus pattern (43 bp):
ATTATAAAGGTAAAAAGTGAGATTAAAAAAATTAAGGGCTTCA
Found at i:4341142 original size:215 final size:215
Alignment explanation
Indices: 4340786--4341365 Score: 589
Period size: 215 Copynumber: 2.7 Consensus size: 215
4340776 AAAATTAAAG
* *
4340786 GCTTCAATTATAAAAGTAGAAAGTGTGATTGAAAAAATTAGGGGCCTAAATTATAAAGGTAAAAG
1 GCTTCAATTATAAAAGTAGAAAGTGGGATTGAAAAAATTAGGAGCCTAAATTATAAAGGTAAAAG
* * *
4340851 GTAAGATTTAAAAAATTAGGGTCTCAATTATAAAGGTAAAAAGTGAGATTGAAAAAAATAATGGC
66 GTAAGATTAAAAAAATTAGGGTCTCAATTATAAAAGTAAAAAGTGAGATTGAAAAAAATAAGGGC
* * * *
4340916 CTCAATTATAAAGGTAAAAAGTAAGATTGAAAAAACTTAAGGGTCTCAATTATAAAAGTAAAAAG
131 CACAATTATAAAGGTAAAAAATAAGATTGAAAAAAATTAAGGGCCTCAATTATAAAAGTAAAAAG
4340981 TGAGAATGTAAAAAATAGGA
196 TGAGAATGTAAAAAATAGGA
* * ** *
4341001 GCTTTAATTATAAAATTA-AAAGGTGGGATTGAAAATTTTAGGAGCCTCAATTATAAAGGTAAAA
1 GCTTCAATTATAAAAGTAGAAA-GTGGGATTGAAAAAATTAGGAGCCTAAATTATAAAGGTAAAA
* * * * * *
4341065 GGTGAGATTAAAAAAATTAGGGGTTTTAATTATAAAAGTAGAAAGTGAGATTG-AAAAATTAGGG
65 GGTAAGATTAAAAAAATTA-GGGTCTCAATTATAAAAGTAAAAAGTGAGATTGAAAAAAATAAGG
* * * ** * *
4341129 GCCACAGTTATAAAGGTAAAAAATAGGATTGAAAAAAATTAGGGGCCTCAAACAGAAATGTAAAA
129 GCCACAATTATAAAGGTAAAAAATAAGATTGAAAAAAATTAAGGGCCTCAATTATAAAAGTAAAA
* *
4341194 CGTGAG-AT-TAAAAAAATTA-TA
194 AGTGAGAATGT-AAAAAA-TAGGA
* * * * * * * *
4341215 GGTTTCAATTATAAAGGTAGAAAGAGAGATAGAAAAAGTTAGG-GACTTTAATTATAAAGGTAAA
1 -GCTTCAATTATAAAAGTAGAAAGTGGGATTGAAAAAATTAGGAG-CCTAAATTATAAAGGTAAA
** * * * * ** * *
4341279 AAATAAGATTGAAAAAAATTAGAGCCTAAACTATAATTGAAAAAAGTGAGATT-AAAAAAATTAG
64 AGGTAAGATT-AAAAAAATTAGGGTCTCAATTATAAAAGTAAAAAGTGAGATTGAAAAAAATAAG
* * *
4341343 GGACCTCAATTATTAAGATAAAA
128 GG-CCACAATTATAAAGGTAAAA
4341366 GTGGGATTAC
Statistics
Matches: 296, Mismatches: 59, Indels: 19
0.79 0.16 0.05
Matches are distributed among these distances:
213 1 0.00
214 13 0.04
215 224 0.76
216 58 0.20
ACGTcount: A:0.49, C:0.06, G:0.20, T:0.26
Consensus pattern (215 bp):
GCTTCAATTATAAAAGTAGAAAGTGGGATTGAAAAAATTAGGAGCCTAAATTATAAAGGTAAAAG
GTAAGATTAAAAAAATTAGGGTCTCAATTATAAAAGTAAAAAGTGAGATTGAAAAAAATAAGGGC
CACAATTATAAAGGTAAAAAATAAGATTGAAAAAAATTAAGGGCCTCAATTATAAAAGTAAAAAG
TGAGAATGTAAAAAATAGGA
Found at i:4341225 original size:258 final size:257
Alignment explanation
Indices: 4340749--4341355 Score: 606
Period size: 258 Copynumber: 2.4 Consensus size: 257
4340739 ATTAGGGACT
* ** * * *
4340749 ATTATAAAAGTAAAAAGTTTGATT-AAAAAAATTAAAGGCTTCAATTATAAAAGTAGAAAGTGTG
1 ATTATAAAAGTAAAAAATAAGATTGAAAAAAATTAGA-GCCTCAATTATAAAAGTA-AAAGTGAG
* * *
4340813 ATTGAAAAAATTAGGGGCCTAAATTATAAAGGTAAAAGGTAAGATTTAAAAAATTAGGGTCTCAA
64 ATTAAAAAAATTAGGGGCCTAAATTATAAAAGTAAAAGGTAAGATTTAAAAAATTAGGGGCTCAA
* * ** *
4340878 TTATAAAGGTAAAAAGTGAGATTGAAAAAAATAATGGCCTCAATTATAAAGGTAAAAAGTAAGAT
129 TTATAAAGGTAAAAAATGAGATTGAAAAAAATAAGGGCCTCAAACAGAAAGGTAAAAAGTAAGAT
* *
4340943 TGAAAAAACTTAAGGGTCTCAATTATAAAAGTAAAAAGTGAGA-ATGTAAAAA-ATA-GGAGCTT
194 TGAAAAAAATTAAGGGTCTCAATTATAAAAGTAAAAAGAGAGATA-G-AAAAAGATAGGGA-CTT
4341005 TA
256 TA
* ** ** ** *
4341007 ATTATAAAATTAAAAGGTGGGATTG-AAAATTTTAGGAGCCTCAATTATAAAGGTAAAAGGTGAG
1 ATTATAAAAGTAAAAAATAAGATTGAAAAAAATTA-GAGCCTCAATTATAAAAGTAAAA-GTGAG
** * * *
4341071 ATTAAAAAAATTAGGGGTTTTAATTATAAAAGTAGAAA-GTGAGA-TTGAAAAATTAGGGGC-CA
64 ATTAAAAAAATTAGGGGCCTAAATTATAAAAGTA-AAAGGTAAGATTTAAAAAATTAGGGGCTCA
* * *
4341133 CAGTTATAAAGGTAAAAAAT-AGGATTGAAAAAAATTAGGGGCCTCAAACAGAAATGTAAAACGT
128 -A-TTATAAAGGTAAAAAATGA-GATTGAAAAAAA-TAAGGGCCTCAAACAGAAAGGTAAAAAGT
* * * * *
4341197 GAGATT-AAAAAAATTATA-GGTTTCAATTATAAAGGTAGAAAGAGAGATAGAAAAAGTTAGGGA
189 AAGATTGAAAAAAATTA-AGGGTCTCAATTATAAAAGTAAAAAGAGAGATAGAAAAAGATAGGGA
4341260 CTTTA
253 CTTTA
* * * ** *
4341265 ATTATAAAGGTAAAAAATAAGATTGAAAAAAATTAGAGCCTAAACTATAATTGAAAAAAGTGAGA
1 ATTATAAAAGTAAAAAATAAGATTGAAAAAAATTAGAGCCTCAATTATAAAAG-TAAAAGTGAGA
* *
4341330 TTAAAAAAATTAGGGACCTCAATTAT
65 TTAAAAAAATTAGGGGCCTAAATTAT
4341356 TAAGATAAAA
Statistics
Matches: 285, Mismatches: 50, Indels: 28
0.79 0.14 0.08
Matches are distributed among these distances:
256 2 0.01
257 24 0.08
258 212 0.74
259 47 0.16
ACGTcount: A:0.50, C:0.05, G:0.19, T:0.26
Consensus pattern (257 bp):
ATTATAAAAGTAAAAAATAAGATTGAAAAAAATTAGAGCCTCAATTATAAAAGTAAAAGTGAGAT
TAAAAAAATTAGGGGCCTAAATTATAAAAGTAAAAGGTAAGATTTAAAAAATTAGGGGCTCAATT
ATAAAGGTAAAAAATGAGATTGAAAAAAATAAGGGCCTCAAACAGAAAGGTAAAAAGTAAGATTG
AAAAAAATTAAGGGTCTCAATTATAAAAGTAAAAAGAGAGATAGAAAAAGATAGGGACTTTA
Found at i:4341352 original size:129 final size:128
Alignment explanation
Indices: 4340794--4341355 Score: 467
Period size: 129 Copynumber: 4.4 Consensus size: 128
4340784 AGGCTTCAAT
* * * * * * * *
4340794 TATAAAAGTAGAAAGTGTGATTGAAAAAATTAGGGGCCTAAATTATAAAGGTA-AAAGGTAAGAT
1 TATAAAGGTAAAAAGTGAGATTAAAAAAATTA-GGGTCTCAATTATAAAAGTAGAAA-GTGAGA-
* * * * * *
4340858 TTA-AAAAATTAGGGTC-TCAATTATAAAGGTAAAAAGTGAGATTGAAAAAAATAATG-GCCTCA
63 -TAGAAAAATTAGGGACTTCAATTATAAAGGTAAAAAATAAGATTGAAAAAAATTAGGAGCCTAA
*
4340920 AT
127 AC
* * *
4340922 TATAAAGGTAAAAAGTAAGATTGAAAAAACTTAAGGGTCTCAATTATAAAAGTAAAAAGTGAGA-
1 TATAAAGGTAAAAAGTGAGATT-AAAAAAATT-AGGGTCTCAATTATAAAAGTAGAAAGTGAGAT
* * ** ** ** ** *
4340986 ATGTAAAAAATA-GGAGCTTTAATTATAAAATTAAAAGGTGGGATTG-AAAATTTTAGGAGCCTC
64 A-G-AAAAATTAGGGA-CTTCAATTATAAAGGTAAAAAATAAGATTGAAAAAAATTAGGAGCCTA
*
4341049 AAT
126 AAC
* * * *
4341052 TATAAAGGTAAAAGGTGAGATTAAAAAAATTAGGGGTTTTAATTATAAAAGTAGAAAGTGAGATT
1 TATAAAGGTAAAAAGTGAGATTAAAAAAATTA-GGGTCTCAATTATAAAAGTAGAAAGTGAGATA
* ** * * *
4341117 GAAAAATTAGGGGCCACAGTTATAAAGGTAAAAAATAGGATTGAAAAAAATTAGGGGCCTCAAAC
65 GAAAAATTAGGGACTTCAATTATAAAGGTAAAAAATAAGATTGAAAAAAATTAGGAGCCT-AAAC
* * * * * * *
4341182 -AGAAATGTAAAACGTGAGATTAAAAAAATTATAGGTTTCAATTATAAAGGTAGAAAGAGAGATA
1 TATAAAGGTAAAAAGTGAGATTAAAAAAATTA-GGGTCTCAATTATAAAAGTAGAAAGTGAGATA
*
4341246 GAAAAAGTTAGGGACTTTAATTATAAAGGTAAAAAATAAGATTGAAAAAAATTA-GAGCCTAAAC
65 GAAAAA-TTAGGGACTTCAATTATAAAGGTAAAAAATAAGATTGAAAAAAATTAGGAGCCTAAAC
** * *
4341310 TATAATTGAAAAAAGTGAGATTAAAAAAATTAGGGACCTCAATTAT
1 TATAAAGGTAAAAAGTGAGATTAAAAAAATTAGGG-TCTCAATTAT
4341356 TAAGATAAAA
Statistics
Matches: 350, Mismatches: 67, Indels: 33
0.78 0.15 0.07
Matches are distributed among these distances:
126 1 0.00
128 55 0.16
129 196 0.56
130 98 0.28
ACGTcount: A:0.49, C:0.05, G:0.20, T:0.25
Consensus pattern (128 bp):
TATAAAGGTAAAAAGTGAGATTAAAAAAATTAGGGTCTCAATTATAAAAGTAGAAAGTGAGATAG
AAAAATTAGGGACTTCAATTATAAAGGTAAAAAATAAGATTGAAAAAAATTAGGAGCCTAAAC
Found at i:4341476 original size:25 final size:25
Alignment explanation
Indices: 4341447--4341499 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
4341437 AAAATAAAAA
4341447 ATATGATTGTAAAATTAAGAGTCCT
1 ATATGATTGTAAAATTAAGAGTCCT
4341472 ATATGATTGTAAAATTAAGAGTCCT
1 ATATGATTGTAAAATTAAGAGTCCT
4341497 ATA
1 ATA
4341500 AGAAACGGGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.36
Consensus pattern (25 bp):
ATATGATTGTAAAATTAAGAGTCCT
Found at i:4342933 original size:229 final size:229
Alignment explanation
Indices: 4342520--4342973 Score: 845
Period size: 229 Copynumber: 2.0 Consensus size: 229
4342510 TTCGAGTGGG
4342520 AGTTATATATTTTTGAGTTGGGTCGGATTGACCAATAATCCAATCCGACTTGACCCAACCCGTTC
1 AGTTATATATTTTTGAGTTGGGTCGGATTGACCAATAATCCAATCCGACTTGACCCAACCCGTTC
*
4342585 CATGCTCATCTTTAACTGAAACAATAACACCGACCCATGATCAAAAGATCCATTAATCAGAGTGA
66 CATGCTCATCTTTAACCGAAACAATAACACCGACCCATGATCAAAAGATCCATTAATCAGAGTGA
* *
4342650 CACGTGTGTGGTGATCTATCAACCCATTATTAGTCATCTTTCCAAACTTAATGACCTAAGCCCAA
131 CACGTGTGTGGTGATCTATCAACCCATTATTAGTCATCTTGCCAAACCTAATGACCTAAGCCCAA
4342715 CAACTTTAAACAATCCTTAAAAGGCCCCATTATT
196 CAACTTTAAACAATCCTTAAAAGGCCCCATTATT
*
4342749 AGTTATATATTTTTGAGTTGGGTTGGATTGACCAATAATCCAATCCGACTTGACCCAACCCGTTC
1 AGTTATATATTTTTGAGTTGGGTCGGATTGACCAATAATCCAATCCGACTTGACCCAACCCGTTC
* *
4342814 CATGCTCATCTTTAACCGAAACAATAATACCGACCCATGATTAAAAGATCCATTAATCAGAGTGA
66 CATGCTCATCTTTAACCGAAACAATAACACCGACCCATGATCAAAAGATCCATTAATCAGAGTGA
4342879 CACGTGTGTGGTGATCTATCAACCCATTATTAGTCATCTTGCCAAACCTAATGACCTAAGCCCAA
131 CACGTGTGTGGTGATCTATCAACCCATTATTAGTCATCTTGCCAAACCTAATGACCTAAGCCCAA
*
4342944 CAACTTTAAACAATCCTTAAGAGGCCCCAT
196 CAACTTTAAACAATCCTTAAAAGGCCCCAT
4342974 ATAAGTCCAA
Statistics
Matches: 218, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
229 218 1.00
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (229 bp):
AGTTATATATTTTTGAGTTGGGTCGGATTGACCAATAATCCAATCCGACTTGACCCAACCCGTTC
CATGCTCATCTTTAACCGAAACAATAACACCGACCCATGATCAAAAGATCCATTAATCAGAGTGA
CACGTGTGTGGTGATCTATCAACCCATTATTAGTCATCTTGCCAAACCTAATGACCTAAGCCCAA
CAACTTTAAACAATCCTTAAAAGGCCCCATTATT
Found at i:4344606 original size:38 final size:38
Alignment explanation
Indices: 4344555--4344685 Score: 176
Period size: 38 Copynumber: 3.4 Consensus size: 38
4344545 TGAGGGTTTC
* *
4344555 ATAGG-TCATTCGGGACACAAATAACATCCTTCAGGATG
1 ATAGGTTC-TTCGGGACACAGATAACATCCTTCGGGATG
* *
4344593 ATAGGTTCGTCGGGACACAGATAACATCGTTCGGGATG
1 ATAGGTTCTTCGGGACACAGATAACATCCTTCGGGATG
*
4344631 ATAGG-TCATTCGGGACACAGATGACATCCTTCGGGATG
1 ATAGGTTC-TTCGGGACACAGATAACATCCTTCGGGATG
*
4344669 ATAGGTCCTTCGGGACA
1 ATAGGTTCTTCGGGACA
4344686 TATATTTCAC
Statistics
Matches: 82, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
37 2 0.02
38 77 0.94
39 3 0.04
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (38 bp):
ATAGGTTCTTCGGGACACAGATAACATCCTTCGGGATG
Found at i:4344814 original size:30 final size:30
Alignment explanation
Indices: 4344780--4344838 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
4344770 TTAAGTTCTC
*
4344780 AGTAATGTACATGAGCTTATAAAAGATATT
1 AGTAATGTACATGAGCCTATAAAAGATATT
* *
4344810 AGTAATGTTCATGGGCCTATAAAAGATAT
1 AGTAATGTACATGAGCCTATAAAAGATAT
4344839 CAAAGGTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.41, C:0.08, G:0.19, T:0.32
Consensus pattern (30 bp):
AGTAATGTACATGAGCCTATAAAAGATATT
Found at i:4349325 original size:2 final size:2
Alignment explanation
Indices: 4349311--4349354 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
4349301 ATGCATAAGT
*
4349311 TA TA TA TG T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4349352 TA T
1 TA T
4349355 CTTCATAGTA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4349602 original size:21 final size:21
Alignment explanation
Indices: 4349578--4349671 Score: 106
Period size: 21 Copynumber: 4.7 Consensus size: 21
4349568 GTTTCAAAGG
* *
4349578 TCCTTCGAGATACAGATAACA
1 TCCTTCGGGACACAGATAACA
* *
4349599 TCCTTCGGG--A-TGAT-AGA
1 TCCTTCGGGACACAGATAACA
*
4349616 TCTTTCGGGACACAGATAACA
1 TCCTTCGGGACACAGATAACA
*
4349637 TCCTTCGGGACACAGATGACA
1 TCCTTCGGGACACAGATAACA
4349658 TCCTTCGGGACACA
1 TCCTTCGGGACACA
4349672 TATTTCACAT
Statistics
Matches: 61, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
17 10 0.16
18 3 0.05
19 2 0.03
20 3 0.05
21 43 0.70
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (21 bp):
TCCTTCGGGACACAGATAACA
Found at i:4349796 original size:30 final size:30
Alignment explanation
Indices: 4349762--4349824 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
4349752 CCTTAAGTTC
*
4349762 TCAGTAATGTACATGGGCTTATAAAAGATA
1 TCAGTAATGTACATGGGCCTATAAAAGATA
*
4349792 TCAGTAATGTTCATGGGCCTATAAAAGATA
1 TCAGTAATGTACATGGGCCTATAAAAGATA
4349822 TCA
1 TCA
4349825 AAGGGATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (30 bp):
TCAGTAATGTACATGGGCCTATAAAAGATA
Found at i:4351684 original size:23 final size:23
Alignment explanation
Indices: 4351640--4351686 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
4351630 AACATATTAA
* **
4351640 GTAGCGCTTAAATAATGTAATAG
1 GTAGCACTTAAATAATAAAATAG
*
4351663 GTAGCACTTATATAATAAAATAG
1 GTAGCACTTAAATAATAAAATAG
4351686 G
1 G
4351687 CATTTAACCG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.43, C:0.09, G:0.19, T:0.30
Consensus pattern (23 bp):
GTAGCACTTAAATAATAAAATAG
Found at i:4351746 original size:87 final size:87
Alignment explanation
Indices: 4351600--4351762 Score: 272
Period size: 87 Copynumber: 1.9 Consensus size: 87
4351590 TATGTTATAT
*
4351600 CATTTAACCGGAAATATTATCAACCACAATAACATATTAAGTAGCGCTTAAATAATGTAATAGGT
1 CATTTAACCGGAAATATTATCAACCACAATAACAAATTAAGTAGCGCTTAAATAATGTAATAGGT
4351665 AGCACTTATATAATAAAATAGG
66 AGCACTTATATAATAAAATAGG
** * * *
4351687 CATTTAACCGGAAATATTATCAAGTACAATAACAAATTAGGTAGCTCTTATATAATGTAATAGGT
1 CATTTAACCGGAAATATTATCAACCACAATAACAAATTAAGTAGCGCTTAAATAATGTAATAGGT
4351752 AGCACTTATAT
66 AGCACTTATAT
4351763 TGACCTATTT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 70 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.31
Consensus pattern (87 bp):
CATTTAACCGGAAATATTATCAACCACAATAACAAATTAAGTAGCGCTTAAATAATGTAATAGGT
AGCACTTATATAATAAAATAGG
Found at i:4352215 original size:199 final size:194
Alignment explanation
Indices: 4351757--4352234 Score: 496
Period size: 197 Copynumber: 2.4 Consensus size: 194
4351747 TAGGTAGCAC
* * * * * *
4351757 TTATATTGACCTATTTTCTCATAAAAACGGTAAATTTAAACCGGTTACATTATAAATTGACCTAT
1 TTATGTTGACCTA-TTTCTCAT-AAACCGGTATATTT-TACCGGTTACATTGTAAATTTACCTAT
* * *
4351822 TACATTATAAATATCGGTTTCGATGTTTTCAGGATTGATAAAATTTTAAATGTATCGACACTTTA
63 TACATTATAATTATCGATTTCGATGTTTTCAGGATCGAT-AAATTTTAAATGTATCGACACTTTA
** * * * * *
4351887 TGCGTGTAACTCGTTTGTGCTTTATTTTGGAAAAAAGTATCGACACATATTTAAAGAGTGTCGAT
127 TGCGTACAACTCGTTTGTCCTTCATTTTGGAAAAAAGTATCGACACAAATTAAAAAAGTGTCGAT
4351952 ACA
192 ACA
* * * * * *
4351955 TAATGTAGACCTATTTGCTAATTAACCGATATATTTTAACCGGTTACATTGTAAATTTACCTGTT
1 TTATGTTGACCTATTT-CTCATAAACCGGTATATTTT-ACCGGTTACATTGTAAATTTACCTATT
* * * *
4352020 ACATAATAATTATCGATTTTGATG-TTTCGATGATCGAT-ACTTTTAAAAATGTATCGACACTTT
64 ACATTATAATTATCGATTTCGATGTTTTC-AGGATCGATAAATTTT--AAATGTATCGACACTTT
* * *
4352083 ATGCGTACACCTTGTTTG-CCATTCATTTT-GAAAAAATGTATCGCCACAAATTAAACAAAGTGT
126 ATGCGTACAACTCGTTTGTCC-TTCATTTTGGAAAAAA-GTATCGACACAAATTAAA-AAAGTGT
*
4352146 CGATACT
188 CGATACA
* *
4352153 TTATGTTGACCTATTCTCTCATGAACCCGGTATATTTCTACCGGTTACATTGGAAATTTACCTAT
1 TTATGTTGACCTATT-TCTCAT-AAACCGGTATATTT-TACCGGTTACATTGTAAATTTACCTAT
*
4352218 TACATTATATTTATCGA
63 TACATTATAATTATCGA
4352235 CACAAAATCT
Statistics
Matches: 229, Mismatches: 40, Indels: 21
0.79 0.14 0.07
Matches are distributed among these distances:
195 5 0.02
196 12 0.05
197 117 0.51
198 43 0.19
199 51 0.22
200 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (194 bp):
TTATGTTGACCTATTTCTCATAAACCGGTATATTTTACCGGTTACATTGTAAATTTACCTATTAC
ATTATAATTATCGATTTCGATGTTTTCAGGATCGATAAATTTTAAATGTATCGACACTTTATGCG
TACAACTCGTTTGTCCTTCATTTTGGAAAAAAGTATCGACACAAATTAAAAAAGTGTCGATACA
Found at i:4352258 original size:199 final size:197
Alignment explanation
Indices: 4351869--4352261 Score: 420
Period size: 199 Copynumber: 2.0 Consensus size: 197
4351859 ATAAAATTTT
** * *
4351869 AAATGTATCGACACTTTATGCGTGTAACTCGTTTGTGCTTTATTTTGGAAAAAAGTATCGACACA
1 AAATGTATCGACACTTTATGCGTACAACTCGTTTGTCCTTCATTTTGGAAAAAAGTATCGACACA
* * * *
4351934 TATTTAAAGAGTGTCGATACATAATGTAGACCTATTTGCTAATTAACCGATATATTTTAACCGGT
66 AATTAAAAAAGTGTCGATACATAATGTAGACCTATTTGCTAATGAACCGATATATTTTAACCGGT
* * ***** * * *
4351999 TACATTGTAAATTTACCTGTTACATAATAATTATCGATTTTGATGTTTCGATGATCGATACTTTT
131 TACATTGGAAATTTACCTATTACATAATAATTATCGAACAAAATCTATAGATGATCGATACTTTT
4352064 AA
196 AA
* * *
4352066 AAATGTATCGACACTTTATGCGTACACCTTGTTTG-CCATTCATTTT-GAAAAAATGTATCGCCA
1 AAATGTATCGACACTTTATGCGTACAACTCGTTTGTCC-TTCATTTTGGAAAAAA-GTATCGACA
* * * * *
4352129 CAAATTAAACAAAGTGTCGATACTTTATGTTGACCTATTCT-CTCATGAACCCGGTATATTTCT-
64 CAAATTAAA-AAAGTGTCGATACATAATGTAGACCTATT-TGCTAATGAA-CCGATATATTT-TA
* *
4352192 ACCGGTTACATTGGAAATTTACCTATTACATTATATTTATCGACACAAAATCTAATAG-TG-TCG
125 ACCGGTTACATTGGAAATTTACCTATTACATAATAATTATCGA-ACAAAATCT-ATAGATGATCG
4352255 ATACTTT
188 ATACTTT
4352262 ATGTTAACCT
Statistics
Matches: 160, Mismatches: 28, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
196 8 0.05
197 53 0.33
198 31 0.19
199 60 0.38
200 6 0.04
201 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.38
Consensus pattern (197 bp):
AAATGTATCGACACTTTATGCGTACAACTCGTTTGTCCTTCATTTTGGAAAAAAGTATCGACACA
AATTAAAAAAGTGTCGATACATAATGTAGACCTATTTGCTAATGAACCGATATATTTTAACCGGT
TACATTGGAAATTTACCTATTACATAATAATTATCGAACAAAATCTATAGATGATCGATACTTTT
AA
Found at i:4352317 original size:106 final size:107
Alignment explanation
Indices: 4352141--4352333 Score: 262
Period size: 106 Copynumber: 1.8 Consensus size: 107
4352131 AATTAAACAA
* * * * * *
4352141 AGTGTCGATACTTTATGTTGACCTATTCTCTCATGAACCCGGTATATTTCTACCGGTTACATTGG
1 AGTGTCGATACTTTATGTTAACCTATTCTATAATGAACACAGTATATGTCTACCGGTTACATTGG
4352206 AAATTTACCTATTACATTATATTTATCGACACAAAATCTAAT
66 AAATTTACCTATTACATTATATTTATCGACACAAAATCTAAT
* * * * * *
4352248 AGTGTCGATACTTTATGTTAACCTGTTTTATAATTAA-ACAGTATATGTGTACTGGTTACATTGT
1 AGTGTCGATACTTTATGTTAACCTATTCTATAATGAACACAGTATATGTCTACCGGTTACATTGG
*
4352312 CAATTTACCTATTACATTATAT
66 AAATTTACCTATTACATTATAT
4352334 CATTTGTCAT
Statistics
Matches: 73, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
106 42 0.58
107 31 0.42
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (107 bp):
AGTGTCGATACTTTATGTTAACCTATTCTATAATGAACACAGTATATGTCTACCGGTTACATTGG
AAATTTACCTATTACATTATATTTATCGACACAAAATCTAAT
Found at i:4354602 original size:58 final size:58
Alignment explanation
Indices: 4354495--4354604 Score: 134
Period size: 58 Copynumber: 1.9 Consensus size: 58
4354485 CATAAACATT
* * *
4354495 TATTAAATAAAAGTATCGGCACATTTATACAACATATAATATCATTTTCTACCTATAA
1 TATTAAATAAAAGTATCGGCACATTTATACAACATAGAAGATCACTTTCTACCTATAA
* * *
4354553 TATTAAATAAAAGTATC-G-ATATTTATCATCTACCTAGAAGATCACTTTCTAC
1 TATTAAATAAAAGTATCGGCACATTTAT-A-CAACATAGAAGATCACTTTCTAC
4354605 ATGTAATCGG
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
56 7 0.16
57 2 0.05
58 35 0.80
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.36
Consensus pattern (58 bp):
TATTAAATAAAAGTATCGGCACATTTATACAACATAGAAGATCACTTTCTACCTATAA
Found at i:4354881 original size:23 final size:24
Alignment explanation
Indices: 4354835--4354881 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
4354825 TAGCTATGCC
*
4354835 TTTATATTTACATCGGATATATTA
1 TTTATATTTACATCGGATAAATTA
4354859 TTTATATTTA-ATC-GATACAATTA
1 TTTATATTTACATCGGATA-AATTA
4354882 CATAAGTGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 7 0.33
24 10 0.48
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (24 bp):
TTTATATTTACATCGGATAAATTA
Found at i:4355113 original size:91 final size:91
Alignment explanation
Indices: 4354986--4355173 Score: 241
Period size: 91 Copynumber: 2.1 Consensus size: 91
4354976 ATTAAAGTAC
* * * *
4354986 CGACACTTTCAACATAACCGGTTGCGCTTTATCGGTTTTGTCATTTCGATACCGGTTTTATCATA
1 CGACACTTTCAACATAACCGGTAGCGCTTTACCGGTTTTATCATTTCGAGACCGGTTTTATCATA
* * * *
4355051 TTTTTACCTATTTTATTGTTATGGAT
66 TTATTACATATTATATTGCTATGGAT
* * ** * *
4355077 CGACACTTTCAATATATCCGGTAGCTTTTTACCGGTTTTATCATTTCGAGACCTGTTTTGTCATA
1 CGACACTTTCAACATAACCGGTAGCGCTTTACCGGTTTTATCATTTCGAGACCGGTTTTATCATA
*
4355142 TTATTACATGTTATATTGCTATGGAT
66 TTATTACATATTATATTGCTATGGAT
4355168 CGACAC
1 CGACAC
4355174 ATTTTTATAA
Statistics
Matches: 82, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
91 82 1.00
ACGTcount: A:0.22, C:0.19, G:0.15, T:0.43
Consensus pattern (91 bp):
CGACACTTTCAACATAACCGGTAGCGCTTTACCGGTTTTATCATTTCGAGACCGGTTTTATCATA
TTATTACATATTATATTGCTATGGAT
Found at i:4355624 original size:3 final size:3
Alignment explanation
Indices: 4355616--4355654 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
4355606 AGACCCTGCA
4355616 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4355655 CAGATTATTT
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):
AAT
Found at i:4358386 original size:22 final size:22
Alignment explanation
Indices: 4358360--4358407 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
4358350 AGAGGTGCAT
*
4358360 GTTGGCGATTTTCTCAGACATG
1 GTTGGCCATTTTCTCAGACATG
*
4358382 GTTGGCCATTTTCTTAGACATG
1 GTTGGCCATTTTCTCAGACATG
4358404 GTTG
1 GTTG
4358408 ATGATTTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.27, T:0.40
Consensus pattern (22 bp):
GTTGGCCATTTTCTCAGACATG
Found at i:4358414 original size:22 final size:22
Alignment explanation
Indices: 4358360--4358420 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
4358350 AGAGGTGCAT
* *
4358360 GTTGGCGATTTTCTCAGACATG
1 GTTGACGATTTTCTTAGACATG
* *
4358382 GTTGGCCATTTTCTTAGACATG
1 GTTGACGATTTTCTTAGACATG
*
4358404 GTTGATGA-TTTCTTAGA
1 GTTGACGATTTTCTTAGA
4358421 AATCTTTATG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 9 0.26
22 25 0.74
ACGTcount: A:0.20, C:0.15, G:0.25, T:0.41
Consensus pattern (22 bp):
GTTGACGATTTTCTTAGACATG
Found at i:4358441 original size:24 final size:24
Alignment explanation
Indices: 4358413--4358465 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
4358403 GGTTGATGAT
4358413 TTCTTAGAAATCTTTATGGACGAC
1 TTCTTAGAAATCTTTATGGACGAC
4358437 TTCTTAGAAATCTTTATGGACGAC
1 TTCTTAGAAATCTTTATGGACGAC
4358461 TTCTT
1 TTCTT
4358466 TGTCTCAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.42
Consensus pattern (24 bp):
TTCTTAGAAATCTTTATGGACGAC
Found at i:4359615 original size:4 final size:4
Alignment explanation
Indices: 4359606--4359639 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
4359596 CAATTCATTT
4359606 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT
4359640 GGTTGAACAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:4363145 original size:11 final size:10
Alignment explanation
Indices: 4363116--4363141 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
4363106 TTATATTATG
4363116 TAGTTTCATT
1 TAGTTTCATT
4363126 TAGTTTCATT
1 TAGTTTCATT
4363136 TAGTTT
1 TAGTTT
4363142 TCATGCATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.19, C:0.08, G:0.12, T:0.62
Consensus pattern (10 bp):
TAGTTTCATT
Found at i:4368069 original size:21 final size:21
Alignment explanation
Indices: 4368041--4368091 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
4368031 ACTTGACAAC
4368041 ATAGAAAAATAAAAT-AAAAA
1 ATAGAAAAATAAAATCAAAAA
* *
4368061 ATAAGAAAAA-ACAATCAAACA
1 AT-AGAAAAATAAAATCAAAAA
4368082 ATAGAAAAAT
1 ATAGAAAAAT
4368092 TGAAAATGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.75, C:0.06, G:0.06, T:0.14
Consensus pattern (21 bp):
ATAGAAAAATAAAATCAAAAA
Found at i:4379101 original size:48 final size:48
Alignment explanation
Indices: 4379018--4379131 Score: 149
Period size: 48 Copynumber: 2.4 Consensus size: 48
4379008 ATAATTCACA
* * **
4379018 TCAAGTATCATATCAAAATTCTGGTCAAGATTCAGATCAGAATCCAAG
1 TCAAGTATCATATCAGAATCCACGTCAAGATTCAGATCAGAATCCAAG
*
4379066 TCAAGTATCATATCAGAATCCACGTC-AGATATCAGATCAGAATCCATG
1 TCAAGTATCATATCAGAATCCACGTCAAGAT-TCAGATCAGAATCCAAG
* *
4379114 TCAAGTATTAGATCAGAA
1 TCAAGTATCATATCAGAA
4379132 ATCAAATCGA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
47 4 0.07
48 54 0.93
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.26
Consensus pattern (48 bp):
TCAAGTATCATATCAGAATCCACGTCAAGATTCAGATCAGAATCCAAG
Found at i:4379126 original size:24 final size:24
Alignment explanation
Indices: 4379018--4379131 Score: 115
Period size: 24 Copynumber: 4.8 Consensus size: 24
4379008 ATAATTCACA
* * * **
4379018 TCAAGTATCATATCAAAATTCTGG
1 TCAAGTATCAGATCAGAATCCAAG
4379042 TCAAG-ATTCAGATCAGAATCCAAG
1 TCAAGTA-TCAGATCAGAATCCAAG
* *
4379066 TCAAGTATCATATCAGAATCCACG
1 TCAAGTATCAGATCAGAATCCAAG
*
4379090 TC-AGATATCAGATCAGAATCCATG
1 TCAAG-TATCAGATCAGAATCCAAG
*
4379114 TCAAGTATTAGATCAGAA
1 TCAAGTATCAGATCAGAA
4379132 ATCAAATCGA
Statistics
Matches: 76, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
23 3 0.04
24 70 0.92
25 3 0.04
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.26
Consensus pattern (24 bp):
TCAAGTATCAGATCAGAATCCAAG
Found at i:4379148 original size:48 final size:48
Alignment explanation
Indices: 4379049--4379148 Score: 114
Period size: 48 Copynumber: 2.1 Consensus size: 48
4379039 TGGTCAAGAT
* ** *
4379049 TCAGATCAGAATCCAAGTCAAGTATCATATCAGAATCCACGTCAGATA
1 TCAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCCAAATCAGAAA
* *
4379097 TCAGATCAGAATCCATGTCAAGTATTAGATCAGAAAT-CAAATC-GAAAA
1 TCAGATCAGAATCCAAGTCAAGTATCAGATCAG-AATCCAAATCAG-AAA
4379145 TCAG
1 TCAG
4379149 GTAAAATATT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
47 1 0.02
48 40 0.91
49 3 0.07
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.23
Consensus pattern (48 bp):
TCAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCCAAATCAGAAA
Found at i:4382812 original size:19 final size:19
Alignment explanation
Indices: 4382788--4382824 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
4382778 AATTGTAATA
4382788 GATCCCTTCGATCCATCCT
1 GATCCCTTCGATCCATCCT
4382807 GATCCCTTCGATCCATCC
1 GATCCCTTCGATCCATCC
4382825 CAAATCTCAT
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:0.16, C:0.43, G:0.11, T:0.30
Consensus pattern (19 bp):
GATCCCTTCGATCCATCCT
Found at i:4383753 original size:2 final size:2
Alignment explanation
Indices: 4383746--4383802 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
4383736 GGATCCTAGT
4383746 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4383788 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
4383803 GTGGGGGCGT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4388906 original size:43 final size:43
Alignment explanation
Indices: 4388859--4388940 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
4388849 GTTATAGATC
4388859 TCGATTTTTTGTGGCGTTTGTTCTAAAAACAACGCTATAAATA
1 TCGATTTTTTGTGGCGTTTGTTCTAAAAACAACGCTATAAATA
* * *
4388902 TCGATTTTTTGTTGTGTTTGTTCTAAAAACACCGCTATA
1 TCGATTTTTTGTGGCGTTTGTTCTAAAAACAACGCTATA
4388941 TATCATGACT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.43
Consensus pattern (43 bp):
TCGATTTTTTGTGGCGTTTGTTCTAAAAACAACGCTATAAATA
Found at i:4390995 original size:22 final size:23
Alignment explanation
Indices: 4390961--4391007 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
4390951 TTTGTTTCTA
* * *
4390961 AAATGTTATAAATTTATTTTTTT
1 AAATGTTAAAAATTCATATTTTT
4390984 AAAT-TTAAAAATTCATATTTTT
1 AAATGTTAAAAATTCATATTTTT
4391006 AA
1 AA
4391008 CATAAAATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (23 bp):
AAATGTTAAAAATTCATATTTTT
Found at i:4396400 original size:22 final size:21
Alignment explanation
Indices: 4396370--4396437 Score: 57
Period size: 22 Copynumber: 3.1 Consensus size: 21
4396360 TGTTAGTTTA
*
4396370 TATATACATAATATTGAAGTGT
1 TATAGACATAA-ATTGAAGTGT
* *
4396392 TATAGACATAAA-TGTTAGTTT
1 TATAGACATAAATTG-AAGTGT
*
4396413 ATATAGACATAAGATTAAAGTGT
1 -TATAGACATAA-ATTGAAGTGT
4396436 TA
1 TA
4396438 GTTTTTATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
20 2 0.06
21 5 0.14
22 23 0.64
23 5 0.14
24 1 0.03
ACGTcount: A:0.43, C:0.04, G:0.15, T:0.38
Consensus pattern (21 bp):
TATAGACATAAATTGAAGTGT
Found at i:4402600 original size:32 final size:32
Alignment explanation
Indices: 4402546--4402607 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
4402536 TCTTACCTGT
* *
4402546 ACTAACTATTTTCTTTTGTTTTGTTTGTGTAC
1 ACTAACTATTTTCGTTTATTTTGTTTGTGTAC
4402578 ACTAACT-TATTTCGTTTATTTTGTTTGTGT
1 ACTAACTAT-TTTCGTTTATTTTGTTTGTGT
4402608 CATTTTTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 1 0.04
32 26 0.96
ACGTcount: A:0.16, C:0.11, G:0.13, T:0.60
Consensus pattern (32 bp):
ACTAACTATTTTCGTTTATTTTGTTTGTGTAC
Found at i:4403363 original size:21 final size:20
Alignment explanation
Indices: 4403320--4403364 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
4403310 GTTGGGATCA
* *
4403320 ACATTTTTGCATCTGCATTT
1 ACATATTTGCATCTGCATCT
*
4403340 ACATATTTGCATTTTGCATCT
1 ACATATTTGCA-TCTGCATCT
4403361 ACAT
1 ACAT
4403365 TTCATTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.24, C:0.20, G:0.09, T:0.47
Consensus pattern (20 bp):
ACATATTTGCATCTGCATCT
Found at i:4404695 original size:44 final size:42
Alignment explanation
Indices: 4404639--4404755 Score: 103
Period size: 44 Copynumber: 2.6 Consensus size: 42
4404629 TATCAAACCG
*
4404639 AAGAG-AACAGAAAAACAAAGAGAAAAGAAGTAAAGAA-AAAAACA
1 AAGAGCAA-AGAAAAA-AAAGAGAAAAGAAGCAAA-AACAAAAA-A
* * *
4404683 AAGAGCAAAGAAAAAAAAAGAAAAAAAAAAGCAAAAACAAAGAA
1 AAGAGCAAAG-AAAAAAAAG-AGAAAAGAAGCAAAAACAAAAAA
*
4404727 AAGAGCAAAGAACAAAAAGATGACAAAGA
1 AAGAGCAAAGAAAAAAAAGA-GA-AAAGA
4404756 GCACAGACAA
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
42 1 0.02
43 9 0.15
44 28 0.47
45 22 0.37
ACGTcount: A:0.74, C:0.08, G:0.17, T:0.02
Consensus pattern (42 bp):
AAGAGCAAAGAAAAAAAAGAGAAAAGAAGCAAAAACAAAAAA
Found at i:4404706 original size:27 final size:28
Alignment explanation
Indices: 4404647--4404730 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 28
4404637 CGAAGAGAAC
* ** *
4404647 AGAAAAACAAAGAGAAAAGAAGTAAAGA
1 AGAAAAACAAAGAGCAAAGAACAAAAAA
4404675 A-AAAAACAAAGAGCAAAGAA-AAAAAA
1 AGAAAAACAAAGAGCAAAGAACAAAAAA
*
4404701 AGAAAAA-AAAAAGCAAA-AACAAAGAAA
1 AGAAAAACAAAGAGCAAAGAACAAA-AAA
4404728 AGA
1 AGA
4404731 GCAAAGAACA
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
25 2 0.04
26 17 0.35
27 29 0.59
28 1 0.02
ACGTcount: A:0.77, C:0.06, G:0.15, T:0.01
Consensus pattern (28 bp):
AGAAAAACAAAGAGCAAAGAACAAAAAA
Found at i:4404709 original size:11 final size:11
Alignment explanation
Indices: 4404689--4404728 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
4404679 AACAAAGAGC
4404689 AAAG-AAAAAA
1 AAAGAAAAAAA
4404699 AAAGAAAAAAA
1 AAAGAAAAAAA
* *
4404710 AAAGCAAAAAC
1 AAAGAAAAAAA
4404721 AAAGAAAA
1 AAAGAAAA
4404729 GAGCAAAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 4 0.15
11 22 0.85
ACGTcount: A:0.85, C:0.05, G:0.10, T:0.00
Consensus pattern (11 bp):
AAAGAAAAAAA
Found at i:4404724 original size:32 final size:33
Alignment explanation
Indices: 4404649--4404728 Score: 101
Period size: 32 Copynumber: 2.4 Consensus size: 33
4404639 AAGAGAACAG
* *
4404649 AAAAACAAAGAGAAAAGAAGTAAAGAAAAAAAC
1 AAAAACAAAGAAAAAAAAAGTAAAGAAAAAAAC
*
4404682 AAAGAGCAAAGAAAAAAAAAG-AAA-AAAAAAAGC
1 AAA-AACAAAGAAAAAAAAAGTAAAGAAAAAAA-C
4404715 AAAAACAAAGAAAA
1 AAAAACAAAGAAAA
4404729 GAGCAAAGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
32 17 0.41
33 10 0.24
34 14 0.34
ACGTcount: A:0.79, C:0.06, G:0.14, T:0.01
Consensus pattern (33 bp):
AAAAACAAAGAAAAAAAAAGTAAAGAAAAAAAC
Found at i:4404744 original size:16 final size:14
Alignment explanation
Indices: 4404674--4404746 Score: 51
Period size: 16 Copynumber: 4.9 Consensus size: 14
4404664 AGAAGTAAAG
4404674 AAAAAAACAAAGAGC
1 AAAAAAA-AAAGAGC
*
4404689 AAAGAAAAAAAAAG-
1 AAA-AAAAAAAGAGC
*
4404703 AAAAAAAAAAGCA-A
1 AAAAAAAAAAG-AGC
4404717 AAACAAAGAAAAGAGC
1 AAA-AAA-AAAAGAGC
4404733 AAAGAACAAAAAGA
1 AAA-AA-AAAAAGA
4404747 TGACAAAGAG
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
13 7 0.15
14 7 0.15
15 12 0.26
16 20 0.43
17 1 0.02
ACGTcount: A:0.78, C:0.08, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAGAGC
Found at i:4404744 original size:32 final size:31
Alignment explanation
Indices: 4404649--4404745 Score: 79
Period size: 32 Copynumber: 3.0 Consensus size: 31
4404639 AAGAGAACAG
*
4404649 AAAAACAAAGAGAAAAGAAGTAAAGAAAAAAA-C
1 AAAAAC-AA-AGAAAAG-AGAAAAGAAAAAAAGC
* * * *
4404682 AAAGAGCAAAGAAAAAAAAAGAAAAAAAAAAGC
1 AAA-AACAAAGAAAAGAGAA-AAGAAAAAAAGC
*
4404715 AAAAACAAAGAAAAGAGCAAAGAACAAAAAG
1 AAAAACAAAGAAAAGAGAAAAGAA-AAAAAG
4404746 ATGACAAAGA
Statistics
Matches: 50, Mismatches: 10, Indels: 9
0.72 0.14 0.13
Matches are distributed among these distances:
31 6 0.12
32 33 0.66
33 9 0.18
34 2 0.04
ACGTcount: A:0.76, C:0.07, G:0.15, T:0.01
Consensus pattern (31 bp):
AAAAACAAAGAAAAGAGAAAAGAAAAAAAGC
Found at i:4405636 original size:24 final size:23
Alignment explanation
Indices: 4405581--4405638 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
4405571 TGAAAGAAGC
*
4405581 AATATTTTCAAAACTTTTGATTA
1 AATATTTTCAAAACTTTTAATTA
4405604 AATATTTTTCAAAACTCTTTTAATT-
1 AATA-TTTTCAAAA--CTTTTAATTA
*
4405629 GATATTTTCA
1 AATATTTTCA
4405639 TACTTTTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
23 4 0.13
24 15 0.50
25 3 0.10
26 8 0.27
ACGTcount: A:0.36, C:0.10, G:0.03, T:0.50
Consensus pattern (23 bp):
AATATTTTCAAAACTTTTAATTA
Found at i:4405932 original size:16 final size:16
Alignment explanation
Indices: 4405900--4405939 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
4405890 GATCGAGAAA
**
4405900 ACATACATCAATGCAT
1 ACATACATCAACACAT
*
4405916 ATATACATCAACACAT
1 ACATACATCAACACAT
4405932 ACATACAT
1 ACATACAT
4405940 ATTACATGAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.47, C:0.25, G:0.03, T:0.25
Consensus pattern (16 bp):
ACATACATCAACACAT
Found at i:4407652 original size:30 final size:30
Alignment explanation
Indices: 4407616--4407674 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
4407606 TGAGACAATA
* *
4407616 TCTTTGAGTTTGTTTCTATTGAAACAAAAG
1 TCTTTGAGTCTGTTTCTATTAAAACAAAAG
4407646 TCTTTGAGTCTGTTTCTATTAAAACAAAA
1 TCTTTGAGTCTGTTTCTATTAAAACAAAA
4407675 CAATCTTTGA
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:0.12, G:0.14, T:0.42
Consensus pattern (30 bp):
TCTTTGAGTCTGTTTCTATTAAAACAAAAG
Found at i:4407705 original size:31 final size:31
Alignment explanation
Indices: 4407615--4407705 Score: 98
Period size: 30 Copynumber: 3.0 Consensus size: 31
4407605 TTGAGACAAT
* *
4407615 ATCTTTGAGTTTGTTTCTATTGAAAC-AAAA
1 ATCTTTGAGTCTGTTCCTATTGAAACAAAAA
* * *
4407645 GTCTTTGAGTCTGTTTCTATTAAAACAAAACA
1 ATCTTTGAGTCTGTTCCTATTGAAACAAAA-A
4407677 ATCTTTGAGTCAT-TTCCT-TTGAAACAAAA
1 ATCTTTGAGTC-TGTTCCTATTGAAACAAAA
4407706 TTTTGTCTCT
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
30 23 0.44
31 13 0.25
32 15 0.29
33 1 0.02
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (31 bp):
ATCTTTGAGTCTGTTCCTATTGAAACAAAAA
Found at i:4408045 original size:134 final size:134
Alignment explanation
Indices: 4407805--4408252 Score: 664
Period size: 134 Copynumber: 3.3 Consensus size: 134
4407795 AATCATTATC
* * *
4407805 CCTAAAGATGGCCAGAAATCTTCATCACGTATGAGCCGTGTCATCCCATGACCAGATCTCTTCAT
1 CCTAAAGATGACCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCTGACCAGATCTCTTCAT
* * * *
4407870 CGCATAGGAGCCGTGTCACCCCTAGATAACCAGACGTCCTCATCACGTAGAAATCGTGTTATCGC
66 CGCGTAGGAGCTGTGTCACCCCTAGATAACCAGACGTCCTCATCACGTAGGAATCGTGTTATCAC
4407935 CCTT
131 CCTT
* * * *
4407939 CCTAAAGATGACCAGAACTATTCATCACGTATGAGTCGTATCATCCCCCGACCAGATCTCCTT-A
1 CCTAAAGATGACCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCTGACCAGATCT-CTTCA
* * * **
4408003 TCGCGTAGGAGCTGTGTCACCCCTAGATAACCAGTCGTCCTCATTACGTAGGAACCGAATTATCA
65 TCGCGTAGGAGCTGTGTCACCCCTAGATAACCAGACGTCCTCATCACGTAGGAATCGTGTTATCA
4408068 CCCTT
130 CCCTT
* * *
4408073 CCTAAAGATGGCCTGAACTCTTCATCACGTATGAGCCGTGTCATCCACTGACCAGATCTCTTCAT
1 CCTAAAGATGACCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCTGACCAGATCTCTTCAT
* *
4408138 CGCGTAGGAGCTGTGTCACCCCTAGATAACAAGACATCCTCATCACGTAGGAATCGTGTTATCAC
66 CGCGTAGGAGCTGTGTCACCCCTAGATAACCAGACGTCCTCATCACGTAGGAATCGTGTTATCAC
**
4408203 ATTT
131 CCTT
*
4408207 CCTAAAGATGACCAGAACTCTTCATCACGTATGAGCTGTGTCATCC
1 CCTAAAGATGACCAGAACTCTTCATCACGTATGAGCCGTGTCATCC
4408253 ACCCTTAGAC
Statistics
Matches: 277, Mismatches: 35, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
133 3 0.01
134 271 0.98
135 3 0.01
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.26
Consensus pattern (134 bp):
CCTAAAGATGACCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCTGACCAGATCTCTTCAT
CGCGTAGGAGCTGTGTCACCCCTAGATAACCAGACGTCCTCATCACGTAGGAATCGTGTTATCAC
CCTT
Found at i:4408467 original size:3 final size:3
Alignment explanation
Indices: 4408461--4408486 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4408451 ATTTTATTTA
4408461 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
4408487 CTAATTATAA
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:4410631 original size:14 final size:15
Alignment explanation
Indices: 4410601--4410633 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
4410591 TTGTCTTATA
4410601 AAAATGATTTTTCTT
1 AAAATGATTTTTCTT
*
4410616 AAAATTATTTTT-TT
1 AAAATGATTTTTCTT
4410630 AAAA
1 AAAA
4410634 GACGTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (15 bp):
AAAATGATTTTTCTT
Found at i:4411976 original size:36 final size:36
Alignment explanation
Indices: 4411903--4411976 Score: 112
Period size: 36 Copynumber: 2.1 Consensus size: 36
4411893 TTTTGATATC
**
4411903 TGCTCATTCTGAACCTGAAATGACCCGAATGTGAAT
1 TGCTCATTCTGAACCTGAAATGACCCGAATGCAAAT
* *
4411939 TGCTCATTTTGAACTTGAAATGACCCGAATGCAAAT
1 TGCTCATTCTGAACCTGAAATGACCCGAATGCAAAT
4411975 TG
1 TG
4411977 ATTGAAACAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (36 bp):
TGCTCATTCTGAACCTGAAATGACCCGAATGCAAAT
Found at i:4420486 original size:21 final size:21
Alignment explanation
Indices: 4420438--4420487 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
4420428 ATGACTATCA
4420438 CAATGCGATTTTCCAATTTCG
1 CAATGCGATTTTCCAATTTCG
**
4420459 CGTTGCGATTTTCCCAA-TTCG
1 CAATGCGATTTT-CCAATTTCG
4420480 CAATGCGA
1 CAATGCGA
4420488 ATAAGTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (21 bp):
CAATGCGATTTTCCAATTTCG
Found at i:4420520 original size:21 final size:21
Alignment explanation
Indices: 4420477--4420549 Score: 94
Period size: 21 Copynumber: 3.5 Consensus size: 21
4420467 TTTTCCCAAT
** *
4420477 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTTGGAAAA
4420497 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTTGGAAAA
4420518 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTTGGAAAA
* *
4420539 TAGCAACGCGA
1 TCGCAATGCGA
4420550 TACTGACTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
20 12 0.26
21 35 0.74
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTTGGAAAA
Found at i:4420564 original size:62 final size:62
Alignment explanation
Indices: 4420496--4420638 Score: 164
Period size: 62 Copynumber: 2.3 Consensus size: 62
4420486 GAATAAGTAA
* ** * **
4420496 ATCGCAATGCGAATTTGGAAAATCGCAATGCGA-ATTTGGAAAATAGCAACGCGATACTGACT
1 ATCGCAACGCGAATTTACAAAATCGCAATGCGATA-ATACAAAATAGCAACGCGATACTGACT
* *
4420558 ATCGCAACGCG-ATAATACAAAATCGCAATGCGATAATACAAAATCGCAACGCGATACTGACT
1 ATCGCAACGCGAAT-TTACAAAATCGCAATGCGATAATACAAAATAGCAACGCGATACTGACT
*
4420620 TTCGCAACGCGATATTTAC
1 ATCGCAACGCGA-ATTTAC
4420639 TTTCGCAACG
Statistics
Matches: 67, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
61 2 0.03
62 59 0.88
63 4 0.06
64 2 0.03
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.22
Consensus pattern (62 bp):
ATCGCAACGCGAATTTACAAAATCGCAATGCGATAATACAAAATAGCAACGCGATACTGACT
Found at i:4420566 original size:20 final size:20
Alignment explanation
Indices: 4420541--4420673 Score: 108
Period size: 20 Copynumber: 6.5 Consensus size: 20
4420531 TTGGAAAATA
4420541 GCAACGCGATACTGACTATC
1 GCAACGCGATACTGACTATC
* *
4420561 GCAACGCGATAAT-ACAAAATC
1 GCAACGCGATACTGAC--TATC
* * *
4420582 GCAATGCGATAAT-ACAAAATC
1 GCAACGCGATACTGAC--TATC
*
4420603 GCAACGCGATACTGACTTTC
1 GCAACGCGATACTGACTATC
* * *
4420623 GCAACGCGATATTTACTTTC
1 GCAACGCGATACTGACTATC
* *
4420643 GCAACGAGATACTGACTTTC
1 GCAACGCGATACTGACTATC
*
4420663 GCAACGAGATA
1 GCAACGCGATA
4420674 ATACATAATC
Statistics
Matches: 98, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
19 2 0.02
20 60 0.61
21 34 0.35
22 2 0.02
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (20 bp):
GCAACGCGATACTGACTATC
Found at i:4420584 original size:21 final size:21
Alignment explanation
Indices: 4420558--4420613 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
4420548 GATACTGACT
4420558 ATCGCAACGCGATAATACAAA
1 ATCGCAACGCGATAATACAAA
*
4420579 ATCGCAATGCGATAATACAAA
1 ATCGCAACGCGATAATACAAA
4420600 ATCGCAACGCGATA
1 ATCGCAACGCGATA
4420614 CTGACTTTCG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.45, C:0.23, G:0.16, T:0.16
Consensus pattern (21 bp):
ATCGCAACGCGATAATACAAA
Done.