Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 52 of 425
Found at i:14020480 original size:31 final size:31
Alignment explanation
Indices: 14020434--14020505 Score: 135
Period size: 31 Copynumber: 2.3 Consensus size: 31
14020424 TTGCATTCAC
14020434 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
14020466 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
14020497 ATTCTGATT
1 ATTCTGATT
14020506 CTTTTATATG
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
31 33 0.82
32 7 0.17
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.50
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:14024253 original size:22 final size:21
Alignment explanation
Indices: 14024223--14024269 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
14024213 TTCAAATTAA
14024223 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
14024245 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
14024266 ATCT
1 ATCT
14024270 AAGATTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:14024275 original size:19 final size:19
Alignment explanation
Indices: 14024240--14024318 Score: 108
Period size: 19 Copynumber: 4.2 Consensus size: 19
14024230 AGATTACAAG
14024240 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
14024261 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
*
14024278 ATCATATCTATGATTGCAT
1 ATCATATCTAAGATTGCAT
*
14024297 ATCATATCTAAGATTGTAT
1 ATCATATCTAAGATTGCAT
14024316 ATC
1 ATC
14024319 CTTAAATATT
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
17 16 0.30
19 28 0.53
20 1 0.02
21 8 0.15
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:14025666 original size:21 final size:21
Alignment explanation
Indices: 14025642--14025683 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
14025632 TCAATATCAT
14025642 TATCCAACCA-AATAAATTCAA
1 TATCCAA-CAGAATAAATTCAA
*
14025663 TATCTAACAGAATAAATTCAA
1 TATCCAACAGAATAAATTCAA
14025684 CAAGCTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.52, C:0.19, G:0.02, T:0.26
Consensus pattern (21 bp):
TATCCAACAGAATAAATTCAA
Found at i:14025717 original size:21 final size:21
Alignment explanation
Indices: 14025652--14025717 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
14025642 TATCCAACCA
14025652 AATAAATTCAATATCTAACAG
1 AATAAATTCAATATCTAACAG
* * *
14025673 AATAAATTCAACAAGCTTAAAACAT
1 AATAAATTCAA-TATC-T--AACAG
14025698 AATAAATTCAATATCTAACA
1 AATAAATTCAATATCTAACA
14025718 AATTCAAGAC
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
21 15 0.42
22 2 0.06
23 2 0.06
24 2 0.06
25 15 0.42
ACGTcount: A:0.55, C:0.15, G:0.03, T:0.27
Consensus pattern (21 bp):
AATAAATTCAATATCTAACAG
Found at i:14030410 original size:91 final size:93
Alignment explanation
Indices: 14030237--14030414 Score: 297
Period size: 91 Copynumber: 1.9 Consensus size: 93
14030227 CCGAAAAATC
*
14030237 AATGTTTTCCTAGCAAACAAATGCACCCTAAAAGAAAAAGAAAAAAAAATTCATATCATCTTCCC
1 AATGTTTTCCTAGCAAACAAACGCACCCTAAAAG--AAAGAAAAAAAAATTCATATCATCTTCCC
*
14030302 CAAGTATTTCTATGGAAACTCTCTCCGGAA
64 CAAATATTTCTATGGAAACTCTCTCCGGAA
*
14030332 AATGTTTTCCTAGCAAACAAACGCACCCTAAATG-AA-AAAAAAAAATTCATATCATCTTCCCCA
1 AATGTTTTCCTAGCAAACAAACGCACCCTAAAAGAAAGAAAAAAAAATTCATATCATCTTCCCCA
14030395 AATATTTCTATGGAAACTCT
66 AATATTTCTATGGAAACTCT
14030415 AGGAGAGAGG
Statistics
Matches: 80, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
91 46 0.57
92 2 0.03
95 32 0.40
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.26
Consensus pattern (93 bp):
AATGTTTTCCTAGCAAACAAACGCACCCTAAAAGAAAGAAAAAAAAATTCATATCATCTTCCCCA
AATATTTCTATGGAAACTCTCTCCGGAA
Found at i:14032486 original size:20 final size:20
Alignment explanation
Indices: 14032438--14032487 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
14032428 TGGAGCAGGA
* *
14032438 ATATCAATACCTTAGGAAAT
1 ATATCGATACCTTAAGAAAT
*
14032458 ATATTGATACCTTAAGAAA-
1 ATATCGATACCTTAAGAAAT
14032477 AGTATCGATAC
1 A-TATCGATAC
14032488 TGGATTTGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (20 bp):
ATATCGATACCTTAAGAAAT
Found at i:14038501 original size:43 final size:43
Alignment explanation
Indices: 14038344--14038773 Score: 455
Period size: 43 Copynumber: 10.1 Consensus size: 43
14038334 ATATCGTACA
* **
14038344 ATGCCAACATCCCAGACGTGGTCTTACAT-GCT-ATCTTATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTAC-TCG-TAATCACATATCG
* * * * *
14038387 ATGTC-ACTGTCCTAGATAG-GGTCTTACACG-AATCAAATA-CG
1 ATGCCAAC-GTCCCAGA-CGTGGTCTTACTCGTAATCACATATCG
* * * * * * *
14038428 ATGCCGATGTCCCAAACAT-GTCTT-TTACGTAACCATATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACT-CGTAATCACATATCG
* * *
14038470 ATGCCAACGGCCTAGACGTGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACTCGTAATCACATATCG
* ** * *
14038513 ATGACAACACCCCAGACGTGGCCTTA-TACGTAATCACATATTG
1 ATGCCAACGTCCCAGACGTGGTCTTACT-CGTAATCACATATCG
* *
14038556 ATGCTAACATCCCAGACGTGGTCTTACTCGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACTCGTAATCACATATCG
14038599 ATGCCAACGTCCCAGACGTGGTCTTACTCGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACTCGTAATCACATATCG
* * *
14038642 ATGTCAATGTCCCAGACATGGTCTTACTCGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACTCGTAATCACATATCG
* * *
14038685 ATACCAATGTCCCAGACGTGGTCCTACTCGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACTCGTAATCACATATCG
*
14038728 ATGCCAACGTCCCAGACGTGGTCTTACTTGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACTCGTAATCACATATCG
14038771 ATG
1 ATG
14038774 TCACATATAT
Statistics
Matches: 322, Mismatches: 52, Indels: 26
0.81 0.13 0.06
Matches are distributed among these distances:
40 7 0.02
41 19 0.06
42 24 0.07
43 270 0.84
44 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.27
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACTCGTAATCACATATCG
Found at i:14040564 original size:27 final size:26
Alignment explanation
Indices: 14040527--14040641 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
14040517 AGCATGGCTG
* *
14040527 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
14040553 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
14040581 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
14040608 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
14040635 CCAGAAC
1 CCAGAAC
14040642 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:14040586 original size:54 final size:54
Alignment explanation
Indices: 14040527--14040641 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
14040517 AGCATGGCTG
*
14040527 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
14040581 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
14040635 CCAGAAC
1 CCAGAAC
14040642 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:14042285 original size:26 final size:26
Alignment explanation
Indices: 14042249--14042358 Score: 159
Period size: 26 Copynumber: 4.2 Consensus size: 26
14042239 CATGAAATTC
14042249 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
14042275 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
14042301 TTATCATGGAACATTTACCTAATCTA
1 TTATCATGAAACATTTACCTAACCCA
**
14042327 TTATCATTG-AACATTTACCTAACATA
1 TTATCA-TGAAACATTTACCTAACCCA
14042353 TTATCA
1 TTATCA
14042359 ATTTGTACCA
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
26 76 0.97
27 2 0.03
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:14046359 original size:27 final size:26
Alignment explanation
Indices: 14046322--14046436 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
14046312 AGCATGGTTG
* *
14046322 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
14046348 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
14046376 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
14046403 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
14046430 CCAGAAC
1 CCAGAAC
14046437 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:14046381 original size:54 final size:54
Alignment explanation
Indices: 14046322--14046436 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
14046312 AGCATGGTTG
*
14046322 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
14046376 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
14046430 CCAGAAC
1 CCAGAAC
14046437 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:14046569 original size:26 final size:26
Alignment explanation
Indices: 14046532--14046613 Score: 92
Period size: 26 Copynumber: 3.1 Consensus size: 26
14046522 TCAGTCAAAA
* *
14046532 TTTGCACTTAGGGGTATAACGGTAAT
1 TTTGCACCTAGGGGTATAACAGTAAT
14046558 TTTGCACCTAGGGGTATAACAGTAAT
1 TTTGCACCTAGGGGTATAACAGTAAT
* * * *
14046584 TTTCCATACATAGGGGTATTATAGTAAT
1 TTTGC--ACCTAGGGGTATAACAGTAAT
14046612 TT
1 TT
14046614 AGCTACTTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
26 28 0.58
28 20 0.42
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.37
Consensus pattern (26 bp):
TTTGCACCTAGGGGTATAACAGTAAT
Found at i:14048089 original size:26 final size:26
Alignment explanation
Indices: 14048053--14048162 Score: 150
Period size: 26 Copynumber: 4.2 Consensus size: 26
14048043 CATGAAATTC
14048053 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
14048079 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * * *
14048105 TTATCATGGAGCATTTACCTAATCTA
1 TTATCATGAAACATTTACCTAACCCA
**
14048131 TTATCATTG-AACATTTACCTAACATA
1 TTATCA-TGAAACATTTACCTAACCCA
14048157 TTATCA
1 TTATCA
14048163 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
26 74 0.97
27 2 0.03
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:14048962 original size:14 final size:15
Alignment explanation
Indices: 14048945--14048973 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
14048935 TCACGAAAAT
14048945 TTCACACAT-ATAAA
1 TTCACACATAATAAA
14048959 TTCACACATAATAAA
1 TTCACACATAATAAA
14048974 AACTAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:14051368 original size:20 final size:20
Alignment explanation
Indices: 14051343--14051381 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
14051333 ATAATCATAT
14051343 TTTATTAAATAAAAATAATC
1 TTTATTAAATAAAAATAATC
14051363 TTTATTAAATAAAAATAAT
1 TTTATTAAATAAAAATAAT
14051382 ATTATAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (20 bp):
TTTATTAAATAAAAATAATC
Found at i:14053644 original size:46 final size:46
Alignment explanation
Indices: 14053491--14053702 Score: 191
Period size: 46 Copynumber: 4.6 Consensus size: 46
14053481 TTAATTGTGT
* * *
14053491 GCCAGTGTAAGACATGTCTGAGACATGCATCGGCCAC-ATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGAGA
* * * * *
14053537 GCCAGTGTAAGACCATGTCTGGGAGATGGCATTGGCATTGAGACGAGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGAGA
* * *
14053585 GCTAGTGTAAGACATGTCTGGGACATGTATCAGCCTCGAGATGTA-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-AGA
* * *
14053631 GCCAGTGTAAGACATGTTTGGGACATGCATCGG-CTATGAGAT--GT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGAGA
* *
14053675 GTCAGTGTAAGACCATGTCTAGGACATG
1 GCCAGTGTAAGA-CATGTCTGGGACATG
14053703 ATACATCGGC
Statistics
Matches: 134, Mismatches: 25, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
44 11 0.08
45 15 0.11
46 58 0.43
47 26 0.19
48 23 0.17
49 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGA
Found at i:14055219 original size:20 final size:20
Alignment explanation
Indices: 14055194--14055231 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
14055184 TATTCATGTC
14055194 ATGTCTAATGTTTATAATCT
1 ATGTCTAATGTTTATAATCT
14055214 ATGTCTAATGTTTATAAT
1 ATGTCTAATGTTTATAAT
14055232 GTGATTATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.50
Consensus pattern (20 bp):
ATGTCTAATGTTTATAATCT
Found at i:14055797 original size:19 final size:19
Alignment explanation
Indices: 14055775--14055833 Score: 118
Period size: 19 Copynumber: 3.1 Consensus size: 19
14055765 GACACAGGCG
14055775 TGCCAAAGGCACACGGGCA
1 TGCCAAAGGCACACGGGCA
14055794 TGCCAAAGGCACACGGGCA
1 TGCCAAAGGCACACGGGCA
14055813 TGCCAAAGGCACACGGGCA
1 TGCCAAAGGCACACGGGCA
14055832 TG
1 TG
14055834 TCCCTATGTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.31, C:0.31, G:0.32, T:0.07
Consensus pattern (19 bp):
TGCCAAAGGCACACGGGCA
Found at i:14064047 original size:31 final size:31
Alignment explanation
Indices: 14064006--14064069 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
14063996 CCTTTTCATA
*
14064006 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
14064037 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
14064068 TT
1 TT
14064070 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:14064313 original size:24 final size:24
Alignment explanation
Indices: 14064261--14064450 Score: 269
Period size: 24 Copynumber: 8.0 Consensus size: 24
14064251 GCTTTATCAT
*
14064261 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
14064286 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
14064310 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
14064333 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
14064357 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
14064381 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
14064405 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
14064428 ATAACTAGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
14064451 TCACTTCCTC
Statistics
Matches: 152, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
23 42 0.28
24 98 0.64
25 12 0.08
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:14064337 original size:47 final size:48
Alignment explanation
Indices: 14064260--14064451 Score: 282
Period size: 47 Copynumber: 4.0 Consensus size: 48
14064250 TGCTTTATCA
* *
14064260 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTT
*
14064309 TATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCGTAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* *
14064356 GATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* *
14064404 GATAACTGGGGCATAAGCCC-TTTAATAACTAGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
14064451 T
1 T
14064452 CACTTCCTCC
Statistics
Matches: 132, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
47 69 0.52
48 50 0.38
49 13 0.10
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (48 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:14064361 original size:71 final size:72
Alignment explanation
Indices: 14064261--14064451 Score: 280
Period size: 71 Copynumber: 2.7 Consensus size: 72
14064251 GCTTTATCAT
* *
14064261 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAA
14064325 GCCC-TTTA
64 GCCCTTTTA
* * *
14064333 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGC
*
14064398 CCTTTTG
66 CCTTTTA
*
14064405 ATAACTGGGGCATAAGCCC-TTTAATAACTAGGGCATAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTT
14064452 CACTTCCTCC
Statistics
Matches: 108, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
71 75 0.69
72 33 0.31
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (72 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGC
CCTTTTA
Found at i:14064522 original size:9 final size:9
Alignment explanation
Indices: 14064508--14064564 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
14064498 ATCTCGTGTG
14064508 CATATCATA
1 CATATCATA
*
14064517 CATATCATGTG
1 CATATCA--TA
14064528 CATATCATA
1 CATATCATA
* *
14064537 CATGTCATGTG
1 CATATCA--TA
14064548 CATATCATA
1 CATATCATA
14064557 CATATCAT
1 CATATCAT
14064565 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:14064527 original size:20 final size:20
Alignment explanation
Indices: 14064504--14064566 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
14064494 GAACATCTCG
14064504 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
14064524 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
14064544 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
14064564 TGT
1 TGT
14064567 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:14064649 original size:25 final size:25
Alignment explanation
Indices: 14064603--14064650 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
14064593 ATATATAAAC
* * * *
14064603 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
14064628 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
14064651 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:14065828 original size:26 final size:27
Alignment explanation
Indices: 14065795--14065892 Score: 107
Period size: 27 Copynumber: 3.7 Consensus size: 27
14065785 TCATACGAAA
*
14065795 CATA-AGGGCATATT-C-GTCATTTTAC
1 CATACAGGGC-TATTACGGTCACTTTAC
*
14065820 CATACAGGGGTATTACGGTCACTTTAC
1 CATACAGGGCTATTACGGTCACTTTAC
*
14065847 CTTACAGGGCT-TTACGGTCACTTTAC
1 CATACAGGGCTATTACGGTCACTTTAC
*
14065873 CCTACAGGGGCT-TTACGGTC
1 CATACA-GGGCTATTACGGTC
14065893 TTTTTACCTA
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
25 8 0.12
26 25 0.39
27 31 0.48
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.32
Consensus pattern (27 bp):
CATACAGGGCTATTACGGTCACTTTAC
Found at i:14065909 original size:27 final size:27
Alignment explanation
Indices: 14065810--14065892 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
14065800 GGGCATATTC
* *
14065810 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
*
14065837 GTCACTTTACCTTACA-GGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
14065863 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
14065890 GTC
1 GTC
14065893 TTTTTACCTA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
26 23 0.45
27 28 0.55
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.33
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:14065984 original size:27 final size:27
Alignment explanation
Indices: 14065954--14066061 Score: 94
Period size: 27 Copynumber: 3.9 Consensus size: 27
14065944 GTAAATCTAC
14065954 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
14065981 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* * *
14066007 AGAAAGTCAAGGGTATTTCTGTAACTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* * **
14066037 AAATCAGGGGTATTTTGGTAATTTT
1 AAACCAAGGGTATTTCAGTAATTTT
14066062 ACAAATTGAG
Statistics
Matches: 66, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.02
27 40 0.61
28 7 0.11
29 17 0.26
30 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:14066059 original size:56 final size:54
Alignment explanation
Indices: 14065951--14066120 Score: 166
Period size: 54 Copynumber: 3.1 Consensus size: 54
14065941 TTGGTAAATC
* * *
14065951 TACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTT
1 TACAAATCAAGGGTATTTCAGTAA-TTTGTAAACCAGTGGTATTT-TGGTAATTTT
* * * *
14066006 TAGAAAGTCAAGGGTATTTCTGTAACTTTGTAAATCAGGGGTATTTTGGTAA-TTT
1 TACAAA-TCAAGGGTATTTCAGTAA-TTTGTAAACCAGTGGTATTTTGGTAATTTT
** * **
14066061 TACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAA-TTT
1 TACAAATCAAGGGTATTTCAGTAATTT-GTAAACCAGTGGTATTTTGGTAATTTT
14066115 TACAAA
1 TACAAA
14066121 CTAGGGGTAT
Statistics
Matches: 96, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
53 3 0.03
54 43 0.45
55 14 0.15
56 36 0.38
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (54 bp):
TACAAATCAAGGGTATTTCAGTAATTTGTAAACCAGTGGTATTTTGGTAATTTT
Found at i:14066067 original size:27 final size:27
Alignment explanation
Indices: 14066037--14066168 Score: 155
Period size: 27 Copynumber: 4.9 Consensus size: 27
14066027 GTAACTTTGT
14066037 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
* * *
14066064 AAAT-TGAGGGTATTTCGGTAATTTCAC
1 AAATCAG-GGGTATTTTGGTAATTTTAC
* *
14066091 AAACCAGTGGTATTTTGGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
14066118 AAA-CTAGGGGTATTTTGGTAATTTTAC
1 AAATC-AGGGGTATTTTGGTAATTTTAC
*
14066145 AAAT-TGAGGGTATTTT-GTAATTTT
1 AAATCAG-GGGTATTTTGGTAATTTT
14066169 GTAAATCGAG
Statistics
Matches: 90, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
26 11 0.12
27 78 0.87
28 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.42
Consensus pattern (27 bp):
AAATCAGGGGTATTTTGGTAATTTTAC
Found at i:14066103 original size:54 final size:54
Alignment explanation
Indices: 14066044--14066182 Score: 167
Period size: 54 Copynumber: 2.6 Consensus size: 54
14066034 TGTAAATCAG
14066044 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAA-CCA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAATCCA
* * * **
14066097 GTGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAATTGA
1 G-GGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCGGTAATTTCACAAATCCA
** *
14066152 GGGTATTTT-GTAATTTTGTAAATCGAGGGTA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTA
14066183 AAATAATAAT
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
53 18 0.25
54 53 0.73
55 2 0.03
ACGTcount: A:0.29, C:0.07, G:0.23, T:0.41
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAATCCA
Found at i:14066200 original size:27 final size:27
Alignment explanation
Indices: 14066162--14066344 Score: 195
Period size: 27 Copynumber: 6.8 Consensus size: 27
14066152 GGGTATTTTG
* *
14066162 TAATTTTGTAAATCGAGGGTAAAATAA
1 TAATTCTGTAAATCGAGGGTAAAACAA
* * *
14066189 TAATTCTGTAAATCAAGGGTAAAATAG
1 TAATTCTGTAAATCGAGGGTAAAACAA
* * *
14066216 TAATTCTATAAATCGACGGTAAAACGA
1 TAATTCTGTAAATCGAGGGTAAAACAA
* *
14066243 TAATTTTGTAAATCGAGGGTAAAACAG
1 TAATTCTGTAAATCGAGGGTAAAACAA
* * * **
14066270 TAATTTTGTAAATCAAAGGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAACAA
* * *
14066297 TAATTATGTAAATCGGGGGTAAAACGA
1 TAATTCTGTAAATCGAGGGTAAAACAA
*
14066324 TAATTCTGTAAATCGGGGGTA
1 TAATTCTGTAAATCGAGGGTA
14066345 CTTTAGTAAT
Statistics
Matches: 133, Mismatches: 23, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 133 1.00
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.30
Consensus pattern (27 bp):
TAATTCTGTAAATCGAGGGTAAAACAA
Found at i:14066357 original size:81 final size:81
Alignment explanation
Indices: 14066162--14066344 Score: 258
Period size: 81 Copynumber: 2.3 Consensus size: 81
14066152 GGGTATTTTG
* * * * *
14066162 TAATTTTGTAAATCGAGGGTAAAATAATAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAA
1 TAATTTTGTAAATCGAGGGTAAAATAGTAATTTTGTAAATCAAAGGTAAAACAGTAATTATATAA
14066227 ATCGACGGTAAAACGA
66 ATCGACGGTAAAACGA
* * *
14066243 TAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAAGGTAAAACGGTAATTATGTAA
1 TAATTTTGTAAATCGAGGGTAAAATAGTAATTTTGTAAATCAAAGGTAAAACAGTAATTATATAA
**
14066308 ATCGGGGGTAAAACGA
66 ATCGACGGTAAAACGA
* *
14066324 TAATTCTGTAAATCGGGGGTA
1 TAATTTTGTAAATCGAGGGTA
14066345 CTTTAGTAAT
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 90 1.00
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.30
Consensus pattern (81 bp):
TAATTTTGTAAATCGAGGGTAAAATAGTAATTTTGTAAATCAAAGGTAAAACAGTAATTATATAA
ATCGACGGTAAAACGA
Found at i:14066370 original size:81 final size:81
Alignment explanation
Indices: 14066162--14066398 Score: 213
Period size: 81 Copynumber: 2.9 Consensus size: 81
14066152 GGGTATTTTG
* * * * ** * * *
14066162 TAATTTTGTAAATCGAGGGTAAAATAATAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAA
1 TAATTCTGTAAATCGAGGGTAAAACAGTAATTTTACAAATCAAAGGTAAAACAGTAATTATATAA
14066227 ATCGACGGTAAAACGA
66 ATCGACGGTAAAACGA
* ** * *
14066243 TAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAAGGTAAAACGGTAATTATGTAA
1 TAATTCTGTAAATCGAGGGTAAAACAGTAATTTTACAAATCAAAGGTAAAACAGTAATTATATAA
**
14066308 ATCGGGGGTAAAACGA
66 ATCGACGGTAAAACGA
* **** * * *** * *
14066324 TAATTCTGTAAATCGGGGGTACTTTAGTAATTTTACAAGTCGAAGGTATTTCAGTAATTTTACAA
1 TAATTCTGTAAATCGAGGGTAAAACAGTAATTTTACAAATCAAAGGTAAAACAGTAATTATATAA
*
14066389 ATCGAGGGTA
66 ATCGACGGTA
14066399 TTTCAGTATT
Statistics
Matches: 128, Mismatches: 28, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
81 128 1.00
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (81 bp):
TAATTCTGTAAATCGAGGGTAAAACAGTAATTTTACAAATCAAAGGTAAAACAGTAATTATATAA
ATCGACGGTAAAACGA
Found at i:14066371 original size:27 final size:27
Alignment explanation
Indices: 14066341--14066439 Score: 121
Period size: 27 Copynumber: 3.7 Consensus size: 27
14066331 GTAAATCGGG
*
14066341 GGTACTTT-AGTAATTTTACAAGTCGAA
1 GGTA-TTTCAGTAATTTTACAAATCGAA
*
14066368 GGTATTTCAGTAATTTTACAAATCGAG
1 GGTATTTCAGTAATTTTACAAATCGAA
* *
14066395 GGTATTTCAGTATTTTTACAAA-CTAA
1 GGTATTTCAGTAATTTTACAAATCGAA
*
14066421 GGGTATTTCGGTAATTTTA
1 -GGTATTTCAGTAATTTTA
14066440 GTAAACTAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
26 5 0.08
27 58 0.92
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
GGTATTTCAGTAATTTTACAAATCGAA
Found at i:14066426 original size:54 final size:54
Alignment explanation
Indices: 14066333--14066439 Score: 137
Period size: 54 Copynumber: 2.0 Consensus size: 54
14066323 ATAATTCTGT
* *
14066333 AAATCGGGGGTACTTTAGTAATTTTACAAGTCGAAGGTATTTCAGTAATTTTAC
1 AAATCGAGGGTACTTTAGTAATTTTACAAGACGAAGGTATTTCAGTAATTTTAC
* * *
14066387 AAATCGAGGGTA-TTTCAGTATTTTTACAA-ACTAAGGGTATTTCGGTAATTTTA
1 AAATCGAGGGTACTTT-AGTAATTTTACAAGACGAA-GGTATTTCAGTAATTTTA
14066440 GTAAACTAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
53 6 0.13
54 40 0.87
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (54 bp):
AAATCGAGGGTACTTTAGTAATTTTACAAGACGAAGGTATTTCAGTAATTTTAC
Found at i:14066453 original size:27 final size:27
Alignment explanation
Indices: 14066349--14066454 Score: 92
Period size: 27 Copynumber: 3.9 Consensus size: 27
14066339 GGGGTACTTT
* *
14066349 AGTAATTTTACAAGTCGAAG-GTATTTC
1 AGTAATTTTACAA-ACTAAGAGTATTTC
* *
14066376 AGTAATTTTACAAA-TCGAGGGTATTTC
1 AGTAATTTTACAAACT-AAGAGTATTTC
* *
14066403 AGTATTTTTACAAACTAAGGGTATTTC
1 AGTAATTTTACAAACTAAGAGTATTTC
* *
14066430 GGTAATTTTAGTAAACTAA-AGTATT
1 AGTAATTTTA-CAAACTAAGAGTATT
14066455 CTAAACATGG
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
26 2 0.03
27 56 0.85
28 8 0.12
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (27 bp):
AGTAATTTTACAAACTAAGAGTATTTC
Found at i:14069134 original size:31 final size:31
Alignment explanation
Indices: 14069093--14069156 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
14069083 CCTTTTCATA
*
14069093 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
14069124 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
14069155 TT
1 TT
14069157 ACTGTAAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:14069425 original size:47 final size:48
Alignment explanation
Indices: 14069348--14069513 Score: 214
Period size: 47 Copynumber: 3.5 Consensus size: 48
14069338 TGCTTTATCA
* *
14069348 TATAACTAGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTT
1 TATAACTAG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTT
*
14069397 TATAACTAGGGCATAAGCCC-TTTAATAACTGGGGCGTAAGCCCTTTT
1 TATAACTAGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* * *
14069444 GATAACTGGGGCATAAGCCCTTTTGATAACT-GGGCATAAGCCC-TTT
1 TATAACTAGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* *
14069490 AATAACTGGGGCATAAGCCCTTTT
1 TATAACTAGGGCATAAGCCCTTTT
14069514 TCACTTCCTC
Statistics
Matches: 107, Mismatches: 8, Indels: 7
0.88 0.07 0.06
Matches are distributed among these distances:
46 26 0.24
47 54 0.50
48 14 0.13
49 13 0.12
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.30
Consensus pattern (48 bp):
TATAACTAGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:14069431 original size:23 final size:24
Alignment explanation
Indices: 14069363--14069513 Score: 218
Period size: 24 Copynumber: 6.4 Consensus size: 24
14069353 CTAGAGGCCT
*
14069363 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
* *
14069388 AGCCCTTTTTATAACTAGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
14069412 AGCCC-TTTAATAACTGGGGCGTA
1 AGCCCTTTTAATAACTGGGGCATA
*
14069435 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
14069459 AGCCCTTTTGATAACT-GGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
14069482 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
14069505 AGCCCTTTT
1 AGCCCTTTT
14069514 TCACTTCCTC
Statistics
Matches: 114, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
22 9 0.08
23 44 0.39
24 57 0.50
25 4 0.04
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:14069586 original size:9 final size:9
Alignment explanation
Indices: 14069572--14069628 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
14069562 ATCTCGTGTG
14069572 CATATCATA
1 CATATCATA
*
14069581 CATATCATGTG
1 CATATCA--TA
14069592 CATATCATA
1 CATATCATA
* *
14069601 CATGTCATGTG
1 CATATCA--TA
14069612 CATATCATA
1 CATATCATA
14069621 CATATCAT
1 CATATCAT
14069629 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:14069591 original size:20 final size:20
Alignment explanation
Indices: 14069568--14069630 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
14069558 GAACATCTCG
14069568 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
14069588 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
14069608 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
14069628 TGT
1 TGT
14069631 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:14069713 original size:25 final size:25
Alignment explanation
Indices: 14069667--14069714 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
14069657 ATATATAAAC
* * * *
14069667 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
14069692 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
14069715 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:14070966 original size:27 final size:27
Alignment explanation
Indices: 14070875--14070957 Score: 105
Period size: 27 Copynumber: 3.1 Consensus size: 27
14070865 GGGCATATTC
* * *
14070875 GTCATTTTACCATAC-AGGGGTATTACG
1 GTCACTTTACCCTACAAGGGCT-TTACG
* *
14070902 GTCACTTTACCTTACATGGGCTTTACG
1 GTCACTTTACCCTACAAGGGCTTTACG
14070929 GTCACTTTACCCTACAAGGGCTTTACG
1 GTCACTTTACCCTACAAGGGCTTTACG
14070956 GT
1 GT
14070958 TTTTTTACCT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
27 45 0.92
28 4 0.08
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (27 bp):
GTCACTTTACCCTACAAGGGCTTTACG
Found at i:14071241 original size:27 final size:27
Alignment explanation
Indices: 14071017--14071249 Score: 154
Period size: 27 Copynumber: 8.6 Consensus size: 27
14071007 TTGGTAAATC
* * *
14071017 TACAAACCAAGGGTATTTCAGTAATTT
1 TACAAATCGAGGGTATTTCTGTAATTT
** * * * *
14071044 TGTAAACCAATGGTATTTCTATAATTTT
1 TACAAATCGAGGGTATTTCTGTAA-TTT
* * *
14071072 TAGAAAGTCAAGGGTATTTCTGTAACTT
1 TACAAA-TCGAGGGTATTTCTGTAATTT
**
14071100 TGTAAATC-AGGGGTATTT-TGGTAATTT
1 TACAAATCGA-GGGTATTTCT-GTAATTT
* *
14071127 TACAAATTGAGGGTATTTCGGTAATTT
1 TACAAATCGAGGGTATTTCTGTAATTT
* *
14071154 CACAAA-CCAGTGGTATTT-TGGTAATTT
1 TACAAATCGAG-GGTATTTCT-GTAATTT
*
14071181 TACAAA-CTAGTGGTATTT-TGGTAATTT
1 TACAAATCGAG-GGTATTTCT-GTAATTT
*
14071208 TACAAATTGAGGGTATTTCTGTAATTT
1 TACAAATCGAGGGTATTTCTGTAATTT
**
14071235 TGTAAATCGAGGGTA
1 TACAAATCGAGGGTA
14071250 AAATAGTAAT
Statistics
Matches: 167, Mismatches: 29, Indels: 20
0.77 0.13 0.09
Matches are distributed among these distances:
26 4 0.02
27 131 0.78
28 17 0.10
29 15 0.09
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
TACAAATCGAGGGTATTTCTGTAATTT
Found at i:14071258 original size:27 final size:27
Alignment explanation
Indices: 14071228--14071492 Score: 343
Period size: 27 Copynumber: 9.8 Consensus size: 27
14071218 GGGTATTTCT
* *
14071228 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* * *
14071255 GTAATTCTATAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
14071282 GTAATTCTATAAATCGACGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
14071309 ATAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
14071336 GTAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
14071363 GTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
14071390 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
14071417 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
14071444 GTAATTATGTAAATCGGGGGTAAAAC-
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
14071470 GATAATTCTGTAAATCGGGGGTA
1 G-TAATTCTGTAAATCGAGGGTA
14071493 CTTTAGTAAT
Statistics
Matches: 212, Mismatches: 25, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
26 1 0.00
27 211 1.00
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACA
Found at i:14071259 original size:81 final size:81
Alignment explanation
Indices: 14071111--14071260 Score: 203
Period size: 81 Copynumber: 1.9 Consensus size: 81
14071101 GTAAATCAGG
*** *
14071111 GGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGT
1 GGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTAAAATAGT
14071176 AATTTTACAAACTAGT
66 AATTTTACAAACTAGT
* *** *
14071192 GGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTGTAATTTTGTAAATCGAG-GGTAAAATAG
1 GGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAA-CCAGTGGTAAAATAG
14071256 TAATT
65 TAATT
14071261 CTATAAATCA
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
81 56 0.95
82 3 0.05
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.41
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTAAAATAGT
AATTTTACAAACTAGT
Found at i:14071519 original size:27 final size:27
Alignment explanation
Indices: 14071489--14071587 Score: 121
Period size: 27 Copynumber: 3.7 Consensus size: 27
14071479 GTAAATCGGG
*
14071489 GGTACTTT-AGTAATTTTACAAGTCGAA
1 GGTA-TTTCAGTAATTTTACAAATCGAA
*
14071516 GGTATTTCAGTAATTTTACAAATCGAG
1 GGTATTTCAGTAATTTTACAAATCGAA
* *
14071543 GGTATTTCAGTATTTTTACAAA-CTAA
1 GGTATTTCAGTAATTTTACAAATCGAA
*
14071569 GGGTATTTCGGTAATTTTA
1 -GGTATTTCAGTAATTTTA
14071588 GTAAACTAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
26 5 0.08
27 58 0.92
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
GGTATTTCAGTAATTTTACAAATCGAA
Found at i:14071574 original size:54 final size:54
Alignment explanation
Indices: 14071481--14071587 Score: 137
Period size: 54 Copynumber: 2.0 Consensus size: 54
14071471 ATAATTCTGT
* *
14071481 AAATCGGGGGTACTTTAGTAATTTTACAAGTCGAAGGTATTTCAGTAATTTTAC
1 AAATCGAGGGTACTTTAGTAATTTTACAAGACGAAGGTATTTCAGTAATTTTAC
* * *
14071535 AAATCGAGGGTA-TTTCAGTATTTTTACAA-ACTAAGGGTATTTCGGTAATTTTA
1 AAATCGAGGGTACTTT-AGTAATTTTACAAGACGAA-GGTATTTCAGTAATTTTA
14071588 GTAAACTAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
53 6 0.13
54 40 0.87
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (54 bp):
AAATCGAGGGTACTTTAGTAATTTTACAAGACGAAGGTATTTCAGTAATTTTAC
Found at i:14071601 original size:27 final size:27
Alignment explanation
Indices: 14071497--14071602 Score: 92
Period size: 27 Copynumber: 3.9 Consensus size: 27
14071487 GGGGTACTTT
* *
14071497 AGTAATTTTACAAGTCGAAG-GTATTTC
1 AGTAATTTTACAA-ACTAAGAGTATTTC
* *
14071524 AGTAATTTTACAAA-TCGAGGGTATTTC
1 AGTAATTTTACAAACT-AAGAGTATTTC
* *
14071551 AGTATTTTTACAAACTAAGGGTATTTC
1 AGTAATTTTACAAACTAAGAGTATTTC
* *
14071578 GGTAATTTTAGTAAACTAA-AGTATT
1 AGTAATTTTA-CAAACTAAGAGTATT
14071603 CTAAACATGG
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
26 2 0.03
27 56 0.85
28 8 0.12
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (27 bp):
AGTAATTTTACAAACTAAGAGTATTTC
Found at i:14074404 original size:43 final size:43
Alignment explanation
Indices: 14074369--14074494 Score: 148
Period size: 43 Copynumber: 2.9 Consensus size: 43
14074359 TCTTATACGA
**
14074369 AATCATATAACGATGCCAATGTCTTAGACATGGTCTTACACAT
1 AATCATATAACGATGCCAATGTCCCAGACATGGTCTTACACAT
* ** * *
14074412 CATTGTATAATGATGCCAATGTCCCAGACATGGTCTTACTCAT
1 AATCATATAACGATGCCAATGTCCCAGACATGGTCTTACACAT
*
14074455 AATCCCA-AT-ACAATGCCAATGTCCCAGACATGGTCTTACA
1 AAT--CATATAACGATGCCAATGTCCCAGACATGGTCTTACA
14074495 TGTAATCTCT
Statistics
Matches: 68, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
43 66 0.97
44 2 0.03
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.29
Consensus pattern (43 bp):
AATCATATAACGATGCCAATGTCCCAGACATGGTCTTACACAT
Found at i:14083613 original size:24 final size:24
Alignment explanation
Indices: 14083581--14083629 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
14083571 TCTAGGAGAC
14083581 CTTAAAACATGCTTGGAAGAGGTT
1 CTTAAAACATGCTTGGAAGAGGTT
14083605 CTTAAAACATGCTTGGAAGAGGTT
1 CTTAAAACATGCTTGGAAGAGGTT
14083629 C
1 C
14083630 GAGACTAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (24 bp):
CTTAAAACATGCTTGGAAGAGGTT
Found at i:14084768 original size:26 final size:26
Alignment explanation
Indices: 14084739--14084846 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
14084729 TGATACAAAT
14084739 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
14084765 TGATAATGGATTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
14084791 TGATAATGGGTTAGGCAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
14084817 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
14084843 TGAT
1 TGAT
14084847 TGGAATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:14089145 original size:42 final size:42
Alignment explanation
Indices: 14089096--14089182 Score: 131
Period size: 42 Copynumber: 2.1 Consensus size: 42
14089086 TATGGCCTTC
14089096 CACGAAATCTCAT-ATCGATGCCATATCCCAGATATGGTCGTA
1 CACGAAATCTCATAAT-GATGCCATATCCCAGATATGGTCGTA
* * *
14089138 CACGAAATCTCATAATGGTGCCATATCCTAGATATGGTCTTA
1 CACGAAATCTCATAATGATGCCATATCCCAGATATGGTCGTA
14089180 CAC
1 CAC
14089183 ATAGTCTTGG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
42 39 0.95
43 2 0.05
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (42 bp):
CACGAAATCTCATAATGATGCCATATCCCAGATATGGTCGTA
Found at i:14090900 original size:22 final size:21
Alignment explanation
Indices: 14090875--14090921 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
14090865 TAGAAAGAAT
14090875 AAAATAATGAAAAAAAAAAAGG
1 AAAAT-ATGAAAAAAAAAAAGG
** *
14090897 AAAATATGATGAAAACAAAGG
1 AAAATATGAAAAAAAAAAAGG
14090918 AAAA
1 AAAA
14090922 AAAAAGTGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.72, C:0.02, G:0.15, T:0.11
Consensus pattern (21 bp):
AAAATATGAAAAAAAAAAAGG
Found at i:14091161 original size:7 final size:7
Alignment explanation
Indices: 14091149--14091173 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
14091139 GTTGTCTTCT
14091149 TGTTTGA
1 TGTTTGA
14091156 TGTTTGA
1 TGTTTGA
14091163 TGTTTGA
1 TGTTTGA
14091170 TGTT
1 TGTT
14091174 GTGGTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
TGTTTGA
Found at i:14092103 original size:27 final size:28
Alignment explanation
Indices: 14092047--14092116 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
14092037 AAATTTGTAC
14092047 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
14092075 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
14092102 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
14092117 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:14099024 original size:7 final size:7
Alignment explanation
Indices: 14099012--14099036 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
14099002 GTTGTCTTCT
14099012 TGTTTGA
1 TGTTTGA
14099019 TGTTTGA
1 TGTTTGA
14099026 TGTTTGA
1 TGTTTGA
14099033 TGTT
1 TGTT
14099037 GTGGTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
TGTTTGA
Found at i:14099970 original size:27 final size:28
Alignment explanation
Indices: 14099914--14099983 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
14099904 AAATTTGTAC
14099914 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
14099942 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
14099969 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
14099984 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:14102174 original size:23 final size:23
Alignment explanation
Indices: 14102147--14102195 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
14102137 TATGAATAAG
14102147 TTCACCATTTTTTGGTACACAAA
1 TTCACCATTTTTTGGTACACAAA
14102170 TTCACCATTTTTTGGTACACAAA
1 TTCACCATTTTTTGGTACACAAA
14102193 TTC
1 TTC
14102196 TACCTCGGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (23 bp):
TTCACCATTTTTTGGTACACAAA
Found at i:14105495 original size:42 final size:43
Alignment explanation
Indices: 14105387--14105504 Score: 141
Period size: 43 Copynumber: 2.8 Consensus size: 43
14105377 AGCTCACACA
* * *
14105387 ATGCCAGCGTCCCAGACATGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATGAAATAAAATATCG
* * *
14105430 ATGCC-ACTGTCCTAGATAAGGTCTTACATGAAATAAAATAT-G
1 ATGCCAAC-GTCCCAGACATGGTCTTACATGAAATAAAATATCG
* *
14105472 ATGCCAACATCCCAGACGTGGTCTTACATGAAA
1 ATGCCAACGTCCCAGACATGGTCTTACATGAAA
14105505 ACGCATATAG
Statistics
Matches: 62, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
42 27 0.44
43 35 0.56
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGAAATAAAATATCG
Found at i:14107796 original size:10 final size:10
Alignment explanation
Indices: 14107781--14107807 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
14107771 GATCCCCAAA
14107781 AATCTCCGAC
1 AATCTCCGAC
14107791 AATCTCCGAC
1 AATCTCCGAC
14107801 AATCTCC
1 AATCTCC
14107808 AATCCCCGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.30, C:0.41, G:0.07, T:0.22
Consensus pattern (10 bp):
AATCTCCGAC
Found at i:14108051 original size:31 final size:31
Alignment explanation
Indices: 14108013--14108075 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
14108003 GATTCATCAC
* *
14108013 ATATCAAGCTCATTAAGCATGAGTTTTATGT
1 ATATCAAGCTCATTAAACACGAGTTTTATGT
*
14108044 ATATCAAGCTTATTAAACACGAGTTTTATGT
1 ATATCAAGCTCATTAAACACGAGTTTTATGT
14108075 A
1 A
14108076 CATACCTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (31 bp):
ATATCAAGCTCATTAAACACGAGTTTTATGT
Found at i:14108316 original size:42 final size:41
Alignment explanation
Indices: 14108206--14108356 Score: 194
Period size: 42 Copynumber: 3.6 Consensus size: 41
14108196 AGATTAATGT
* * ** *
14108206 CATATCCCAGATATGGTCTTATATGGGATCTCATTTTGATGC
1 CATATCCCAGATATGGTCTTACACGAAATCTCA-TATGATGC
* * *
14108248 CAATAGCCCAGCTATGGTCTTCCACGAAATCTCATATCGATGC
1 C-ATATCCCAGATATGGTCTTACACGAAATCTCATAT-GATGC
14108291 CATATCCCAGATATGGTCTTACACGAAATCTCATAATGATGC
1 CATATCCCAGATATGGTCTTACACGAAATCTCAT-ATGATGC
14108333 CATATCCCAGATATGGTCTTACAC
1 CATATCCCAGATATGGTCTTACAC
14108357 ATAGTTTCGG
Statistics
Matches: 95, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
42 62 0.65
43 33 0.35
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.30
Consensus pattern (41 bp):
CATATCCCAGATATGGTCTTACACGAAATCTCATATGATGC
Found at i:14110377 original size:2 final size:2
Alignment explanation
Indices: 14110370--14110401 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
14110360 TCTCGTTTGA
14110370 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14110402 GAAATTCCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14110698 original size:25 final size:27
Alignment explanation
Indices: 14110670--14110733 Score: 71
Period size: 25 Copynumber: 2.5 Consensus size: 27
14110660 CTCACTTGAA
*
14110670 CTTCCCGA-TATATGGCTATCCG-GAG
1 CTTCCCGATTAAATGGCTATCCGTGAG
* *
14110695 CTTCCC-ATTAAATGGCTCTTCGTGAG
1 CTTCCCGATTAAATGGCTATCCGTGAG
*
14110721 CTTCCCGTTTAAA
1 CTTCCCGATTAAA
14110734 GACTCTTCAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 1 0.03
25 17 0.53
26 9 0.28
27 5 0.16
ACGTcount: A:0.20, C:0.28, G:0.19, T:0.33
Consensus pattern (27 bp):
CTTCCCGATTAAATGGCTATCCGTGAG
Found at i:14110725 original size:26 final size:26
Alignment explanation
Indices: 14110692--14110749 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
14110682 TGGCTATCCG
* *
14110692 GAGCTTCCC-ATTAAATGGCTCTTCGT
1 GAGCTTCCCGATTAAA-GACTCTTCAT
*
14110718 GAGCTTCCCGTTTAAAGACTCTTCAT
1 GAGCTTCCCGATTAAAGACTCTTCAT
14110744 GAGCTT
1 GAGCTT
14110750 TCTAATTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 23 0.82
27 5 0.18
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (26 bp):
GAGCTTCCCGATTAAAGACTCTTCAT
Found at i:14116643 original size:87 final size:87
Alignment explanation
Indices: 14116493--14116671 Score: 225
Period size: 87 Copynumber: 2.1 Consensus size: 87
14116483 AGGTAGTTTG
* * * * ***
14116493 CCGAGTAACATTGAATCTAACCCAAGGGAGCAAATCAATGCAATTACCATTCAAGATGCGGAAGG
1 CCGAGTAACATAGAATCTAACCCAAGGGAACAAATCAATACAATTACCACTCAAGACAAGGAAGG
*
14116558 GTTAGTTGCA-CCTGAACCAGAA
66 CTTAGTTG-AGCCTGAACCAGAA
* * *
14116580 CCGAGTAACATAGAATCTAACCTAAGGGAACAACTCAATACGATTACCACTCAAGACAAGGAAGG
1 CCGAGTAACATAGAATCTAACCCAAGGGAACAAATCAATACAATTACCACTCAAGACAAGGAAGG
* *
14116645 CTTAGTTGAGCCTGCATCAGAA
66 CTTAGTTGAGCCTGAACCAGAA
14116667 CCGAG
1 CCGAG
14116672 GCAAGGCATT
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
86 1 0.01
87 77 0.99
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.18
Consensus pattern (87 bp):
CCGAGTAACATAGAATCTAACCCAAGGGAACAAATCAATACAATTACCACTCAAGACAAGGAAGG
CTTAGTTGAGCCTGAACCAGAA
Found at i:14127093 original size:44 final size:41
Alignment explanation
Indices: 14126980--14127096 Score: 134
Period size: 40 Copynumber: 2.8 Consensus size: 41
14126970 GCGGCTTAAT
***
14126980 ATAGCTTCGGCTAC-AAATGGCACTAAGTGTGCGAATTGTA
1 ATAGCTTCGGCTACTAAATGGCACTAAGTGTGCGAATACCA
14127020 ATAGCTTCGGCTA-TATAA-GGCACTAAGTGTGC-AATACCA
1 ATAGCTTCGGCTACTA-AATGGCACTAAGTGTGCGAATACCA
14127059 ACTTAGCTTCGGCTAACTGAAATGGCACTAAGTGTGCG
1 A--TAGCTTCGGCT-ACT-AAATGGCACTAAGTGTGCG
14127097 GAATCATTTT
Statistics
Matches: 65, Mismatches: 3, Indels: 13
0.80 0.04 0.16
Matches are distributed among these distances:
39 5 0.08
40 28 0.43
41 13 0.20
42 1 0.02
43 3 0.05
44 15 0.23
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (41 bp):
ATAGCTTCGGCTACTAAATGGCACTAAGTGTGCGAATACCA
Found at i:14127109 original size:44 final size:41
Alignment explanation
Indices: 14126981--14127117 Score: 131
Period size: 40 Copynumber: 3.3 Consensus size: 41
14126971 CGGCTTAATA
** *
14126981 TAGCTTCGGCTAC-AAATGGCACTAAGTGTGCGAATTGTAA
1 TAGCTTCGGCTACTAAATGGCACTAAGTGTGCGAATCATAT
14127021 TAGCTTCGGCTA-TATAA-GGCACTAAGTGTGC-AATACCA-ACT
1 TAGCTTCGGCTACTA-AATGGCACTAAGTGTGCGAAT--CATA-T
*
14127062 TAGCTTCGGCTAACTGAAATGGCACTAAGTGTGCGGAATCATTT
1 TAGCTTCGGCT-ACT-AAATGGCACTAAGTGTGC-GAATCATAT
*
14127106 TAGCTTTGGCTA
1 TAGCTTCGGCTA
14127118 ACCCTTACAG
Statistics
Matches: 80, Mismatches: 5, Indels: 21
0.75 0.05 0.20
Matches are distributed among these distances:
39 3 0.04
40 28 0.35
41 13 0.16
42 1 0.01
43 4 0.05
44 28 0.35
46 3 0.04
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.29
Consensus pattern (41 bp):
TAGCTTCGGCTACTAAATGGCACTAAGTGTGCGAATCATAT
Found at i:14130542 original size:20 final size:19
Alignment explanation
Indices: 14130513--14130588 Score: 64
Period size: 20 Copynumber: 3.9 Consensus size: 19
14130503 ACTTTAAAAT
*
14130513 CAAGTGAAAATGATTTTAA
1 CAAGTCAAAATGATTTTAA
* *
14130532 CCAAGTCAAAATGATTTCAGT
1 -CAAGTCAAAATGATTTTA-A
* **
14130553 CAAGTTAAAACCATTTTAA
1 CAAGTCAAAATGATTTTAA
14130572 CACA-TCAAAATGATTTT
1 CA-AGTCAAAATGATTTT
14130589 CGAATGAGTT
Statistics
Matches: 43, Mismatches: 11, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
19 12 0.28
20 31 0.72
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (19 bp):
CAAGTCAAAATGATTTTAA
Found at i:14130767 original size:21 final size:22
Alignment explanation
Indices: 14130741--14130783 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
14130731 ATTTTTTTGT
14130741 ATCGATA-CTTTCTGAAAAATA
1 ATCGATATCTTTCTGAAAAATA
*
14130762 ATCGATATCTTTCTTAAAAATA
1 ATCGATATCTTTCTGAAAAATA
14130784 GTACCAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.37
Consensus pattern (22 bp):
ATCGATATCTTTCTGAAAAATA
Found at i:14139554 original size:36 final size:36
Alignment explanation
Indices: 14139510--14139578 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
14139500 ACATACTTAA
14139510 AAAAATAAATTTTTTTAGCAATATTTTACTTAAAAC
1 AAAAATAAATTTTTTTAGCAATATTTTACTTAAAAC
14139546 AAAAATAAATTTTTTTAGCAATATTTTACTTAA
1 AAAAATAAATTTTTTTAGCAATATTTTACTTAA
14139579 GCATAACTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.43
Consensus pattern (36 bp):
AAAAATAAATTTTTTTAGCAATATTTTACTTAAAAC
Found at i:14145760 original size:99 final size:100
Alignment explanation
Indices: 14145585--14145829 Score: 323
Period size: 99 Copynumber: 2.5 Consensus size: 100
14145575 TAGCCAAAGC
* * * * * ** *
14145585 TATCTGGTACGCATAGTAGCCTGCACATAGTACTATACATGCGACCAATTATCTGGTACACGTAG
1 TATCGGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCTGATACACGTAG
*
14145650 TATCCTGCACTTAGTACTACACACGTGA-C-CAAT
66 TAGCCTGCACTTAGTACTACACACGTGATCACAAT
* * *
14145683 TATCGGGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
1 TATCGGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AACCATCTGATACACGTA
*
14145748 GTAGCCTGCACTTAGTACTACACACGTGATCACAGT
65 GTAGCCTGCACTTAGTACTACACACGTGATCACAAT
* * *
14145784 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TATCGGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
14145830 TCACAATAGA
Statistics
Matches: 125, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
98 38 0.30
99 43 0.34
100 1 0.01
101 43 0.34
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.27
Consensus pattern (100 bp):
TATCGGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCTGATACACGTAG
TAGCCTGCACTTAGTACTACACACGTGATCACAAT
Found at i:14145765 original size:50 final size:49
Alignment explanation
Indices: 14145585--14145822 Score: 296
Period size: 49 Copynumber: 4.8 Consensus size: 49
14145575 TAGCCAAAGC
* * * * * *
14145585 TATCTGGTACGCATAGTAGCCTGCACATAGTACTATACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
*
14145634 TATCTGGTACACGTAGTATCCTGCACTTAGTACTACACACGTGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * *
14145683 TATCGGGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * *
14145733 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* * * *
14145784 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
14145823 TGCGACCTCA
Statistics
Matches: 163, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
49 85 0.52
50 42 0.26
51 35 0.21
52 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:14148145 original size:31 final size:31
Alignment explanation
Indices: 14148110--14148198 Score: 74
Period size: 31 Copynumber: 3.2 Consensus size: 31
14148100 AATAATAGAT
14148110 TTGAGATGTCAAAATAATGTGATTATCCAGA
1 TTGAGATGTCAAAATAATGTGATTATCCAGA
*
14148141 TT--GA-GTCAGAAA-AA--CG---AT--AGA
1 TTGAGATGTCA-AAATAATGTGATTATCCAGA
14148162 TTTGAGATGTCAAAATAATGTGATTATCCAGA
1 -TTGAGATGTCAAAATAATGTGATTATCCAGA
14148194 TTGAG
1 TTGAG
14148199 TCAGATGATC
Statistics
Matches: 43, Mismatches: 2, Indels: 26
0.61 0.03 0.37
Matches are distributed among these distances:
21 3 0.07
22 2 0.05
23 2 0.05
24 5 0.12
25 6 0.14
26 1 0.02
27 1 0.02
28 6 0.14
29 5 0.12
30 2 0.05
31 7 0.16
32 3 0.07
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.30
Consensus pattern (31 bp):
TTGAGATGTCAAAATAATGTGATTATCCAGA
Found at i:14148148 original size:28 final size:28
Alignment explanation
Indices: 14148117--14148201 Score: 83
Period size: 28 Copynumber: 3.1 Consensus size: 28
14148107 GATTTGAGAT
14148117 GTCAAAATAATGTGATTATCCAGATTGA
1 GTCAAAATAATGTGATTATCCAGATTGA
* *
14148145 GTCAGAAA-AACGATAGATT-T-GAGA-T--
1 GTCA-AAATAATG-T-GATTATCCAGATTGA
14148170 GTCAAAATAATGTGATTATCCAGATTGA
1 GTCAAAATAATGTGATTATCCAGATTGA
14148198 GTCA
1 GTCA
14148202 GATGATCTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 18
0.67 0.06 0.27
Matches are distributed among these distances:
23 4 0.09
24 5 0.11
25 10 0.23
26 1 0.02
27 1 0.02
28 14 0.32
29 5 0.11
30 4 0.09
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.29
Consensus pattern (28 bp):
GTCAAAATAATGTGATTATCCAGATTGA
Found at i:14148175 original size:53 final size:53
Alignment explanation
Indices: 14148095--14148203 Score: 200
Period size: 53 Copynumber: 2.1 Consensus size: 53
14148085 AAATTGCAAA
*
14148095 AGAAAAATAATAGATTTGAGATGTCAAAATAATGTGATTATCCAGATTGAGTC
1 AGAAAAACAATAGATTTGAGATGTCAAAATAATGTGATTATCCAGATTGAGTC
*
14148148 AGAAAAACGATAGATTTGAGATGTCAAAATAATGTGATTATCCAGATTGAGTC
1 AGAAAAACAATAGATTTGAGATGTCAAAATAATGTGATTATCCAGATTGAGTC
14148201 AGA
1 AGA
14148204 TGATCTGAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.43, C:0.08, G:0.20, T:0.28
Consensus pattern (53 bp):
AGAAAAACAATAGATTTGAGATGTCAAAATAATGTGATTATCCAGATTGAGTC
Found at i:14148194 original size:25 final size:25
Alignment explanation
Indices: 14148113--14148194 Score: 71
Period size: 25 Copynumber: 3.2 Consensus size: 25
14148103 AATAGATTTG
14148113 AGATGTCAAAATAATGTGATTATCC
1 AGATGTCAAAATAATGTGATTATCC
* *
14148138 AGATTGAGTCAGAAA-AACGATAGATT-T-G
1 AGA-T--GTCA-AAATAATG-T-GATTATCC
14148166 AGATGTCAAAATAATGTGATTATCC
1 AGATGTCAAAATAATGTGATTATCC
14148191 AGAT
1 AGAT
14148195 TGAGTCAGAT
Statistics
Matches: 44, Mismatches: 4, Indels: 18
0.67 0.06 0.27
Matches are distributed among these distances:
23 4 0.09
24 5 0.11
25 14 0.32
26 1 0.02
27 1 0.02
28 10 0.23
29 5 0.11
30 4 0.09
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (25 bp):
AGATGTCAAAATAATGTGATTATCC
Found at i:14155817 original size:72 final size:72
Alignment explanation
Indices: 14155719--14155964 Score: 298
Period size: 72 Copynumber: 3.4 Consensus size: 72
14155709 TGCCCGCATT
* * * * * *
14155719 TGAGCTACTCACGGGTCTATATACAAATTTAGCACCTGAACCCCAAAGCATTATCATGTAATGCC
1 TGAGCTACTCACGGGTTTATACACAAAGTCAGTACCCGAACCCCAAAGCATTATCATGTAATGCC
14155784 CACTCAC
66 CACTCAC
* *
14155791 TGAGCTACTCACAGGTTTATACACAAAGTCAGTACCCAAACCCCAAAGCATTATCATGTAATGCC
1 TGAGCTACTCACGGGTTTATACACAAAGTCAGTACCCGAACCCCAAAGCATTATCATGTAATGCC
*
14155856 CACTCAT
66 CACTCAC
* * * * * *
14155863 TGAGCCACTCATGGTTTTACACACAAAGTCAGTACCCGGACCCCAAAGCATTAACATG-ATATGC
1 TGAGCTACTCACGGGTTTATACACAAAGTCAGTACCCGAACCCCAAAGCATTATCATGTA-ATGC
*
14155927 TCACTCAGC
65 CCACTCA-C
* *
14155936 T-AGTTACTCACGGGTTTATACAAAAAGTC
1 TGAGCTACTCACGGGTTTATACACAAAGTC
14155965 CGCACCCGGA
Statistics
Matches: 147, Mismatches: 25, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
71 1 0.01
72 145 0.99
73 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (72 bp):
TGAGCTACTCACGGGTTTATACACAAAGTCAGTACCCGAACCCCAAAGCATTATCATGTAATGCC
CACTCAC
Found at i:14164673 original size:46 final size:46
Alignment explanation
Indices: 14164540--14164778 Score: 181
Period size: 46 Copynumber: 5.2 Consensus size: 46
14164530 CCCAGTTATG
* * * * *
14164540 GTCTTACACTGGCTCTCATATATCCGTGCCGATGCATGTCCCAAACAT
1 GTCTTACACTAGCTCT-ACATCT-CGAGCCGATGCATGTCCCAGACAT
* *
14164588 GTCTTACACTAG--C-ACATCTCGTAGTCAATGCATG-CCCTAGACAT
1 GTCTTACACTAGCTCTACATCTCG-AGCCGATGCATGTCCC-AGACAT
* * * *
14164632 GTCTTACACTGGCT-TATATCTCGAGCCCGATGCATGTCCTAGACAA
1 GTCTTACACTAGCTCTACATCTCGAG-CCGATGCATGTCCCAGACAT
* *
14164678 GTCTTACACTAGCTCT-CGTCTCAATGCCGATGCATGTCCCAGACAT
1 GTCTTACACTAGCTCTACATCTCGA-GCCGATGCATGTCCCAGACAT
* * *
14164724 GTCTTACACTAGAATTTCATA-ATGT-G-GCTGATGCATGTCCCAGACAT
1 GTCTTACACTAG---CTC-TACATCTCGAGCCGATGCATGTCCCAGACAT
14164771 GTCTTACA
1 GTCTTACA
14164779 TTGGCTCACA
Statistics
Matches: 153, Mismatches: 24, Indels: 29
0.74 0.12 0.14
Matches are distributed among these distances:
43 5 0.03
44 29 0.19
45 2 0.01
46 69 0.45
47 32 0.21
48 11 0.07
49 2 0.01
50 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (46 bp):
GTCTTACACTAGCTCTACATCTCGAGCCGATGCATGTCCCAGACAT
Found at i:14167271 original size:28 final size:28
Alignment explanation
Indices: 14167240--14167295 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
14167230 ACAACGACTC
14167240 CGCCAAATGAAAAAGAGAATTAAAATTT
1 CGCCAAATGAAAAAGAGAATTAAAATTT
14167268 CGCCAAATGAAAAAGAGAATTAAAATTT
1 CGCCAAATGAAAAAGAGAATTAAAATTT
14167296 TCTCTCTGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.54, C:0.11, G:0.14, T:0.21
Consensus pattern (28 bp):
CGCCAAATGAAAAAGAGAATTAAAATTT
Found at i:14169129 original size:47 final size:47
Alignment explanation
Indices: 14169054--14169176 Score: 228
Period size: 47 Copynumber: 2.6 Consensus size: 47
14169044 GTCCATAAGT
* *
14169054 GAACTCAGACTCAACTCAATGAGCTCGGATGCCTAGTTACATCTAAC
1 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTAAC
14169101 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTAAC
1 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTAAC
14169148 GAACTCAGACTCAACTCAACGAGTTCGGA
1 GAACTCAGACTCAACTCAACGAGTTCGGA
14169177 CATTCGCATC
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 74 1.00
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.22
Consensus pattern (47 bp):
GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTAAC
Found at i:14171643 original size:29 final size:29
Alignment explanation
Indices: 14171604--14171691 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
14171594 CAAAGATAAC
*
14171604 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
14171633 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
14171662 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
14171692 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:14171662 original size:15 final size:15
Alignment explanation
Indices: 14171604--14171682 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
14171594 CAAAGATAAC
*
14171604 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
14171618 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
14171633 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
14171647 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
14171662 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
14171677 AAGAAA
1 AAGAAA
14171683 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:14171691 original size:15 final size:15
Alignment explanation
Indices: 14171615--14171691 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
14171605 AGAAAACCGA
14171615 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
14171630 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
14171644 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
14171658 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
14171674 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
14171689 ATA
1 ATA
14171692 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:14174705 original size:93 final size:93
Alignment explanation
Indices: 14174593--14174763 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
14174583 GCCCATAAGT
***
14174593 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
14174658 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
14174686 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
14174751 CGAGTTCGGATGC
66 CGAGTTCGGATGC
14174764 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:14174760 original size:46 final size:46
Alignment explanation
Indices: 14174585--14174760 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
14174575 TGTAACCCGC
* ***
14174585 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
14174631 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
14174681 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
14174724 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
14174761 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.58
47 29 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:14177259 original size:30 final size:30
Alignment explanation
Indices: 14177223--14177299 Score: 100
Period size: 30 Copynumber: 2.6 Consensus size: 30
14177213 AGCTATCCTT
*
14177223 TTTTCATAATTTGATGGTCGTCACCATCCA
1 TTTTCATAATTTGATAGTCGTCACCATCCA
** * *
14177253 TTTTCATTGTTCGATAGTCGTCACCATCCC
1 TTTTCATAATTTGATAGTCGTCACCATCCA
*
14177283 TTTTCATAATATGATAG
1 TTTTCATAATTTGATAG
14177300 CTAAAGTTAT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.23, C:0.22, G:0.13, T:0.42
Consensus pattern (30 bp):
TTTTCATAATTTGATAGTCGTCACCATCCA
Found at i:14177337 original size:30 final size:30
Alignment explanation
Indices: 14177278--14177337 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
14177268 AGTCGTCACC
*
14177278 ATCCCTTTTCATAATATGATAGCTAAAGTT
1 ATCCCTTTTCATAATACGATAGCTAAAGTT
* *
14177308 ATCCCTTTTCATAGAT-CGATGGCTGAAGTT
1 ATCCCTTTTCATA-ATACGATAGCTAAAGTT
14177338 CGATGGTCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 24 0.92
31 2 0.08
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.38
Consensus pattern (30 bp):
ATCCCTTTTCATAATACGATAGCTAAAGTT
Found at i:14179092 original size:55 final size:55
Alignment explanation
Indices: 14179027--14179137 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
14179017 AGCTCACAGC
14179027 AGCCCACACATTTCATTATTTTACAAATTACACATTGAATATTTTTCATTTTTCA
1 AGCCCACACATTTCATTATTTTACAAATTACACATTGAATATTTTTCATTTTTCA
14179082 AGCCCACACATTTCATTATTTTACAAATTACACATTGAATATTTTTCATTTTTCA
1 AGCCCACACATTTCATTATTTTACAAATTACACATTGAATATTTTTCATTTTTCA
14179137 A
1 A
14179138 TTTAATCCCT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (55 bp):
AGCCCACACATTTCATTATTTTACAAATTACACATTGAATATTTTTCATTTTTCA
Found at i:14181577 original size:68 final size:70
Alignment explanation
Indices: 14181505--14181702 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
14181495 ACACCCTGTA
* * * *
14181505 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
14181567 ATAAAT
65 ATAAAT
*
14181573 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
14181638 ATAAAT
65 ATAAAT
*
14181644 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
14181703 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:14181616 original size:41 final size:41
Alignment explanation
Indices: 14181571--14181688 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
14181561 TGAAAGATAA
14181571 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
14181612 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
14181642 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
14181683 ATGTAG
1 ATGTAG
14181689 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:14181628 original size:71 final size:71
Alignment explanation
Indices: 14181539--14181702 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
14181529 GAGATGTATC
14181539 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
14181604 AGGACA
66 AGGACA
14181610 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
14181675 AGGACA
66 AGGACA
14181681 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
14181703 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:14185752 original size:16 final size:17
Alignment explanation
Indices: 14185726--14185770 Score: 65
Period size: 16 Copynumber: 2.7 Consensus size: 17
14185716 GTTTAATTGG
*
14185726 TTTAGTTGTTTGTTTAT
1 TTTAGTTGTTTATTTAT
14185743 TTTA-TTGTTTATTTAT
1 TTTAGTTGTTTATTTAT
*
14185759 TTTAGTTATTTA
1 TTTAGTTGTTTA
14185771 GGTTTGAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 15 0.60
17 10 0.40
ACGTcount: A:0.18, C:0.00, G:0.11, T:0.71
Consensus pattern (17 bp):
TTTAGTTGTTTATTTAT
Found at i:14187191 original size:24 final size:22
Alignment explanation
Indices: 14187143--14187204 Score: 70
Period size: 24 Copynumber: 2.7 Consensus size: 22
14187133 CTTCCATTTT
*
14187143 TCCCACTAAGGGCTCTCATACG
1 TCCCACTAAGGGCTCTCAAACG
*
14187165 TCCCACATAAGGGGCTCTCAAATG
1 TCCCAC-TAA-GGGCTCTCAAACG
* *
14187189 TCCTATTAAGGGCTCT
1 TCCCACTAAGGGCTCT
14187205 TACACATCCC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
22 13 0.38
23 6 0.18
24 15 0.44
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (22 bp):
TCCCACTAAGGGCTCTCAAACG
Found at i:14190187 original size:34 final size:35
Alignment explanation
Indices: 14190128--14190208 Score: 92
Period size: 35 Copynumber: 2.3 Consensus size: 35
14190118 AATCCCTCTA
* * *
14190128 AAACACACCAGATGCTTACACGAGCTA-ACCAGCCG
1 AAACACACCA-ATGCTCAAAAGAGCTAGACCAGCCG
* **
14190163 AAACACACCAATGCTCAAAAGAGCTAGTCCCTCCG
1 AAACACACCAATGCTCAAAAGAGCTAGACCAGCCG
14190198 AAACACACCAA
1 AAACACACCAA
14190209 ACATAGAGTA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
34 13 0.33
35 26 0.67
ACGTcount: A:0.41, C:0.35, G:0.14, T:0.11
Consensus pattern (35 bp):
AAACACACCAATGCTCAAAAGAGCTAGACCAGCCG
Found at i:14195335 original size:40 final size:39
Alignment explanation
Indices: 14195280--14195385 Score: 122
Period size: 40 Copynumber: 2.6 Consensus size: 39
14195270 CGATGATAAA
14195280 TCGGCTATTAGTGGCACTTAGTGTGCAAATCGACATAGCT
1 TCGGCTATTA-TGGCACTTAGTGTGCAAATCGACATAGCT
** * * *
14195320 TCGGCTATATATGGCACTTAGTGTGTGATTTGAGATAGCT
1 TCGGCTAT-TATGGCACTTAGTGTGCAAATCGACATAGCT
* *
14195360 TCGGCTATGTACGACACTTAGTGTGC
1 TCGGCTAT-TATGGCACTTAGTGTGC
14195386 GAGATATCGA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
40 54 0.96
41 2 0.04
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (39 bp):
TCGGCTATTATGGCACTTAGTGTGCAAATCGACATAGCT
Found at i:14195483 original size:28 final size:28
Alignment explanation
Indices: 14195374--14195476 Score: 163
Period size: 28 Copynumber: 3.7 Consensus size: 28
14195364 CTATGTACGA
14195374 CACTTAGTGTGCGAGATATCGAA-TATGG
1 CACTTAGTGTGCGAGATATC-AAGTATGG
14195402 CACTTAGTGTGCGAGATATCAAGTATGG
1 CACTTAGTGTGCGAGATATCAAGTATGG
* * *
14195430 TAATTAGTGCGCGAGATATCAAGTATGG
1 CACTTAGTGTGCGAGATATCAAGTATGG
14195458 CACTTAGTGTGCGAGATAT
1 CACTTAGTGTGCGAGATAT
14195477 TGAGTATTCA
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 2 0.03
28 66 0.97
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
CACTTAGTGTGCGAGATATCAAGTATGG
Found at i:14197239 original size:46 final size:46
Alignment explanation
Indices: 14197183--14197358 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
14197173 TGTTTGGGCA
*
14197183 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
14197229 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
14197276 TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
14197322 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
14197359 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 62 0.58
47 28 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:14197338 original size:93 final size:93
Alignment explanation
Indices: 14197179--14197351 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
14197169 AGGATGTTTG
* * * *
14197179 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
14197244 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
14197272 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
14197337 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
14197352 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:14200525 original size:42 final size:42
Alignment explanation
Indices: 14200479--14200587 Score: 114
Period size: 43 Copynumber: 2.6 Consensus size: 42
14200469 TCGATGACTC
* * *
14200479 TGTCCCAGACAGGGTCTTACACGAAAT-T-AGATACGATGCCGA
1 TGTCCCAGACACGGTCTTACACGAAATCTCA-AT-CGAAGCAGA
* * * *
14200521 TGTCCCAAACATGGTCTTATACGTAAATCTCAATCGAAGCATA
1 TGTCCCAGACACGGTCTTACACG-AAATCTCAATCGAAGCAGA
14200564 TGTCCCAGACACGGTCTTACACGA
1 TGTCCCAGACACGGTCTTACACGA
14200588 TGTGTCAGAC
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
42 21 0.38
43 30 0.55
44 3 0.05
45 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (42 bp):
TGTCCCAGACACGGTCTTACACGAAATCTCAATCGAAGCAGA
Found at i:14210050 original size:49 final size:49
Alignment explanation
Indices: 14209993--14210087 Score: 190
Period size: 49 Copynumber: 1.9 Consensus size: 49
14209983 ATGACACAGG
14209993 AAATGACTTAGAAGAACATCTCTTTTGGAACTCTCAAATCATTCTAAGA
1 AAATGACTTAGAAGAACATCTCTTTTGGAACTCTCAAATCATTCTAAGA
14210042 AAATGACTTAGAAGAACATCTCTTTTGGAACTCTCAAATCATTCTA
1 AAATGACTTAGAAGAACATCTCTTTTGGAACTCTCAAATCATTCTA
14210088 TCTCGTTGTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.32
Consensus pattern (49 bp):
AAATGACTTAGAAGAACATCTCTTTTGGAACTCTCAAATCATTCTAAGA
Found at i:14212498 original size:36 final size:36
Alignment explanation
Indices: 14212446--14212541 Score: 122
Period size: 36 Copynumber: 2.7 Consensus size: 36
14212436 CATCGTCAGT
* * *
14212446 CCAACCAAAACACACCAAATGCTCACACAAGCTAAT
1 CCAATCAAAACACACCAAATGCTCACACAAGCCAAA
* *
14212482 CCATTCAAAACACACCAAATGCTCACACGAGCCAAA
1 CCAATCAAAACACACCAAATGCTCACACAAGCCAAA
* *
14212518 CTAATCGAAACACACC-AATGCTCA
1 CCAATCAAAACACACCAAATGCTCA
14212542 AAAGAGCTAG
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
35 8 0.15
36 44 0.85
ACGTcount: A:0.45, C:0.35, G:0.07, T:0.12
Consensus pattern (36 bp):
CCAATCAAAACACACCAAATGCTCACACAAGCCAAA
Found at i:14218015 original size:18 final size:19
Alignment explanation
Indices: 14217981--14218016 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
14217971 TTTCGAAATT
14217981 CAATAATATAACTTTTGAC
1 CAATAATATAACTTTTGAC
*
14218000 CAATAAT-TATCTTTTGA
1 CAATAATATAACTTTTGA
14218017 TTAATTACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.39, C:0.14, G:0.06, T:0.42
Consensus pattern (19 bp):
CAATAATATAACTTTTGAC
Found at i:14228967 original size:20 final size:20
Alignment explanation
Indices: 14228916--14228967 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
14228906 TGAATACCCG
*
14228916 TTAAAATAA-TTTTCACCTA
1 TTAAAATAATTTTTCACATA
* *
14228935 TTAAATTATTTTTTCACATA
1 TTAAAATAATTTTTCACATA
*
14228955 TTAAAACAATTTT
1 TTAAAATAATTTT
14228968 AACTTGATAG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (20 bp):
TTAAAATAATTTTTCACATA
Found at i:14231536 original size:2 final size:2
Alignment explanation
Indices: 14231529--14231553 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14231519 GTAAAAGTTA
14231529 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 A
14231554 CTATTGCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14232279 original size:16 final size:16
Alignment explanation
Indices: 14232258--14232290 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
14232248 ACTAAAGCTC
*
14232258 TATTTTAATTTTTTTA
1 TATTTTAATTTTATTA
14232274 TATTTTAATTTTATTA
1 TATTTTAATTTTATTA
14232290 T
1 T
14232291 GCACACTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TATTTTAATTTTATTA
Found at i:14232883 original size:306 final size:289
Alignment explanation
Indices: 14232161--14232902 Score: 700
Period size: 306 Copynumber: 2.5 Consensus size: 289
14232151 AAGTTAATCT
* * * * * *
14232161 TTTTATTTAATAAAATA-AATAAAAATACACATTGT-GAGATTTGAACTC-GATTCAATTGGATT
1 TTTTATTTAA-AAAAAACAATAAAAA-ATACATTGTGGA-ATTTGAACCCAAATT-AATCGCATT
* * * *
14232223 AGTAAAACTTTTAATTTACCCCTCAACTAAAGCTCTATTTTAAT--TTTTTTATATTTTAATTTT
62 AGTAAAACTTTTAATTTACCACTCAACTAAAGCTTTATTTAAATAATTTTTTACATTTTAATTTT
* *
14232286 ATTATGCACACTTTATTA-TTTCCATCAATTGTATATTTATCTATACTATTAGTTAAGCTTACTT
127 ATTATGCACACTTTATTACTTTCCATCAATTGTATATTTATATATACTATTAGTTAAACTTACTT
* * *
14232350 GGTGTCACCCTCAACCAGGTCTCAAACTCGATTAGGAAAATTATGGAAATGCCCTTCCATAATTA
192 GGTGTCACCCTCAACCAGGTCACAAACTCGATTAGGAAAATTAGGGAAATACCCTTCCATAATTA
* * * * *
14232415 AAATAATTTATATTACTTGAGGGTATTTTAGTC
257 AAATAAGTTAAATTACCTGAGAGTACTTTAGTC
* * * * *
14232448 -TTT-TTTATTAAAAAACAATAAAAAATACATATGGTGGGATTTGAACCCGAAA-CAATTC-TAC
1 TTTTATTTA-AAAAAAACAATAAAAAATACAT-T-GTGGAATTTGAACCC-AAATTAA-TCGCAT
* * * * * *
14232509 TAATAAAA-TTTTAATTTACCACTTAGCTAAAGCATTATTCCAAAACAATTTTTTTACATTTTAA
61 TAGTAAAACTTTTAATTTACCACTCAACTAAAGCTTTATT--TAAATAA-TTTTTTACATTTTAA
* *
14232573 TTTTATTATGCACACTTTATTACTTT-CATTAATTGTATATTATATATACTTACTATTATTTAAA
123 TTTTATTATGCACACTTTATTACTTTCCATCAATTGTATATT-TATATA--TACTATTAGTTAAA
* * * * *
14232637 CTTTTGACTGGGTTGGTGTCATCCTCAA-CAGCGTCACCAACTTGGTTAGGGAAATTACGGAACG
185 C--TT-AC----TTGGTGTCACCCTCAACCAG-GTCACAAACTCGATTAGGAAAATTA-GG---G
* *
14232701 AAAATACCTTTCCCTAATTAAAATAAGTTAAATTACCTGAGAGTACTTTAGTCC
238 -AAATACCCTTCCATAATTAAAATAAGTTAAATTACCTGAGAGTACTTTAGT-C
*
14232755 TTTTATTTAAAAAAAACAATAAAAAATACATCTGTGGAATTTGAACGCAAATTAATCGCATTAGT
1 TTTTATTTAAAAAAAACAATAAAAAATACAT-TGTGGAATTTGAACCCAAATTAATCGCATTAGT
* * * *
14232820 AAAACCTTTAATTTACTACTCATCTAAAGCTTTATTTAAATAATTTTATACATTTTTAATTTTAT
65 AAAACTTTTAATTTACCACTCAACTAAAGCTTTATTTAAATAATTTTTTACA-TTTTAATTTTAT
*
14232885 TATGTACACTTTATTACT
129 TATGCACACTTTATTACT
14232903 CAAGATTGAT
Statistics
Matches: 362, Mismatches: 56, Indels: 55
0.77 0.12 0.12
Matches are distributed among these distances:
285 14 0.04
286 38 0.10
287 21 0.06
288 4 0.01
289 1 0.00
291 50 0.14
292 8 0.02
294 13 0.04
296 2 0.01
297 2 0.01
300 3 0.01
301 35 0.10
302 1 0.00
305 9 0.02
306 82 0.23
307 24 0.07
308 51 0.14
309 4 0.01
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.40
Consensus pattern (289 bp):
TTTTATTTAAAAAAAACAATAAAAAATACATTGTGGAATTTGAACCCAAATTAATCGCATTAGTA
AAACTTTTAATTTACCACTCAACTAAAGCTTTATTTAAATAATTTTTTACATTTTAATTTTATTA
TGCACACTTTATTACTTTCCATCAATTGTATATTTATATATACTATTAGTTAAACTTACTTGGTG
TCACCCTCAACCAGGTCACAAACTCGATTAGGAAAATTAGGGAAATACCCTTCCATAATTAAAAT
AAGTTAAATTACCTGAGAGTACTTTAGTC
Found at i:14237108 original size:5 final size:5
Alignment explanation
Indices: 14237098--14237124 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
14237088 AAAAATGTGA
14237098 AAAAT AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AA
14237125 CACACAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:14241797 original size:10 final size:10
Alignment explanation
Indices: 14241778--14241816 Score: 69
Period size: 10 Copynumber: 3.9 Consensus size: 10
14241768 AATCTTATTC
*
14241778 TAAAATAAGA
1 TAAAAGAAGA
14241788 TAAAAGAAGA
1 TAAAAGAAGA
14241798 TAAAAGAAGA
1 TAAAAGAAGA
14241808 TAAAAGAAG
1 TAAAAGAAG
14241817 TCTAGTTCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.69, C:0.00, G:0.18, T:0.13
Consensus pattern (10 bp):
TAAAAGAAGA
Found at i:14243089 original size:22 final size:23
Alignment explanation
Indices: 14243064--14243122 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
14243054 TGGGATTGTT
14243064 ATTTTTTAATAAAATTTTTAT-A
1 ATTTTTTAATAAAATTTTTATGA
* *
14243086 ATTTTTGT-TTATAATTTTTATGA
1 ATTTTT-TAATAAAATTTTTATGA
*
14243109 GTTTTTTAA-AAAAT
1 ATTTTTTAATAAAAT
14243123 AATTTTTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
22 22 0.76
23 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (23 bp):
ATTTTTTAATAAAATTTTTATGA
Found at i:14243096 original size:13 final size:13
Alignment explanation
Indices: 14243080--14243104 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14243070 TAATAAAATT
14243080 TTTATAATTTTTG
1 TTTATAATTTTTG
14243093 TTTATAATTTTT
1 TTTATAATTTTT
14243105 ATGAGTTTTT
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:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
TTTATAATTTTTG
Found at i:14254057 original size:35 final size:35
Alignment explanation
Indices: 14254018--14254156 Score: 161
Period size: 35 Copynumber: 4.0 Consensus size: 35
14254008 ATGGCAAAGT
*
14254018 TATGATACATAGGTATGGTATTTTCCATACTGATC
1 TATGATACATAGGTATGGTATTTTCCATACTGAGC
*
14254053 TATGATATATAGGTATGGTATTTTCCATACTGAGC
1 TATGATACATAGGTATGGTATTTTCCATACTGAGC
* * * * *
14254088 TATAATACGTAGGTATGGTATTTCCCATACCGAGT
1 TATGATACATAGGTATGGTATTTTCCATACTGAGC
* * * * **
14254123 TGTGAAACGTAGGTATGATATTAACCATACTGAG
1 TATGATACATAGGTATGGTATTTTCCATACTGAG
14254157 TTGTCAATCG
Statistics
Matches: 89, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 89 1.00
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (35 bp):
TATGATACATAGGTATGGTATTTTCCATACTGAGC
Found at i:14258851 original size:13 final size:13
Alignment explanation
Indices: 14258833--14258857 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14258823 GCAATTCAAA
14258833 TTTTATTTTTTAT
1 TTTTATTTTTTAT
14258846 TTTTATTTTTTA
1 TTTTATTTTTTA
14258858 AATTTTCTTT
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTATTTTTTAT
Found at i:14258863 original size:14 final size:14
Alignment explanation
Indices: 14258830--14258882 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
14258820 ATTGCAATTC
14258830 AAATTTTATTTTTT
1 AAATTTTATTTTTT
*
14258844 -ATTTTTATTTTTT
1 AAATTTTATTTTTT
* *
14258857 AAATTTTCTTTTCT
1 AAATTTTATTTTTT
*
14258871 AATTTTTCATTT
1 AAATTTT-ATTT
14258883 ATTTTCTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 12 0.39
14 16 0.52
15 3 0.10
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.72
Consensus pattern (14 bp):
AAATTTTATTTTTT
Found at i:14268835 original size:10 final size:10
Alignment explanation
Indices: 14268818--14268877 Score: 86
Period size: 10 Copynumber: 6.0 Consensus size: 10
14268808 TGAAATTCTA
14268818 AAAGATAAAT
1 AAAGATAAAT
*
14268828 ACAGATAAAT
1 AAAGATAAAT
*
14268838 AAAGATAATT
1 AAAGATAAAT
14268848 AAAGATAAAT
1 AAAGATAAAT
14268858 AAAGATAAAT
1 AAAGATAAAT
14268868 GAAA-ATAAAT
1 -AAAGATAAAT
14268878 CCTAAAATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
10 42 0.93
11 3 0.07
ACGTcount: A:0.67, C:0.02, G:0.10, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:14270524 original size:15 final size:14
Alignment explanation
Indices: 14270504--14270564 Score: 58
Period size: 15 Copynumber: 4.4 Consensus size: 14
14270494 TTAATATTTG
14270504 AAAATAATAAATAAT
1 AAAA-AATAAATAAT
14270519 AAAATAATAAGATAA-
1 AAAA-AATAA-ATAAT
14270534 AATAAAAT-AA-AAT
1 AA-AAAATAAATAAT
14270547 -AAAAATAAATAAT
1 AAAAAATAAATAAT
14270560 AAAAA
1 AAAAA
14270565 TTGGGTTACC
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
11 5 0.12
12 5 0.12
13 4 0.10
14 5 0.12
15 15 0.38
16 6 0.15
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (14 bp):
AAAAAATAAATAAT
Done.