Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 118 of 362
Found at i:38826284 original size:27 final size:27
Alignment explanation
Indices: 38826254--38826479 Score: 242
Period size: 27 Copynumber: 8.4 Consensus size: 27
38826244 CCCCCGATTT
* * *
38826254 GTAAAATAACCATAATACCCTTATAGG
1 GTAAAATGACCGTAATACCCTTGTAGG
* * *
38826281 GTAAAATTACTGTAATACCCCTGTAGG
1 GTAAAATGACCGTAATACCCTTGTAGG
38826308 GTAAAATGACCGTAATACCAC-TGTAGG
1 GTAAAATGACCGTAATACC-CTTGTAGG
* *
38826335 GTAAAATGATCGTAATACCCTTATAGG
1 GTAAAATGACCGTAATACCCTTGTAGG
*
38826362 GTAAAATGATCGTAATACCCTTGTAGG
1 GTAAAATGACCGTAATACCCTTGTAGG
* *
38826389 GTAAAATGACCGTAATACCCCTATAGG
1 GTAAAATGACCGTAATACCCTTGTAGG
* ** * *
38826416 ATAGGATTACCATAATATCCC-TGTAGG
1 GTAAAATGACCGTAATA-CCCTTGTAGG
* *
38826443 GTAAAATGATCGTAATA-CCTCTGTATG
1 GTAAAATGACCGTAATACCCT-TGTAGG
38826470 GTAAAATGAC
1 GTAAAATGAC
38826480 GATTATGCCT
Statistics
Matches: 167, Mismatches: 27, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
25 2 0.01
26 1 0.01
27 160 0.96
28 4 0.02
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (27 bp):
GTAAAATGACCGTAATACCCTTGTAGG
Found at i:38826325 original size:81 final size:81
Alignment explanation
Indices: 38826240--38826479 Score: 272
Period size: 81 Copynumber: 3.0 Consensus size: 81
38826230 TAATTACAAA
** *
38826240 AATACCCCCGATTTGTAAAATAACCATAATACCCTTATAGGGTAAAATTA-CTGTAATACCCCTG
1 AATACCCCCGATAGGTAAAATAACCATAATACCCTTATAGGGTAAAATGATC-GTAATACCCCTG
38826304 TAGGGTAAAATGACCGT
65 TAGGGTAAAATGACCGT
* * * * * *
38826321 AATACCACTG-TAGGGTAAAATGATCGTAATACCCTTATAGGGTAAAATGATCGTAATACCCTTG
1 AATACCCCCGATA-GGTAAAATAACCATAATACCCTTATAGGGTAAAATGATCGTAATACCCCTG
38826385 TAGGGTAAAATGACCGT
65 TAGGGTAAAATGACCGT
* ** * * *
38826402 AATA-CCCCTATAGGATAGGATTACCATAATATCCC-TGTAGGGTAAAATGATCGTAATACCTCT
1 AATACCCCCGATAGG-TAAAATAACCATAATA-CCCTTATAGGGTAAAATGATCGTAATACCCCT
*
38826465 GTATGGTAAAATGAC
64 GTAGGGTAAAATGAC
38826480 GATTATGCCT
Statistics
Matches: 133, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
80 5 0.04
81 124 0.93
82 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (81 bp):
AATACCCCCGATAGGTAAAATAACCATAATACCCTTATAGGGTAAAATGATCGTAATACCCCTGT
AGGGTAAAATGACCGT
Found at i:38826683 original size:27 final size:27
Alignment explanation
Indices: 38826653--38826715 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
38826643 CTGTTATTAA
38826653 TGGCTATGCCACAATTACTAATACTGG
1 TGGCTATGCCACAATTACTAATACTGG
* * * *
38826680 TGGCTTTGCCACATTTACTATTTCTGG
1 TGGCTATGCCACAATTACTAATACTGG
*
38826707 TAGCTATGC
1 TGGCTATGC
38826716 TATATTGTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (27 bp):
TGGCTATGCCACAATTACTAATACTGG
Found at i:38826906 original size:33 final size:34
Alignment explanation
Indices: 38826863--38826928 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 34
38826853 ACTATTCTGT
*
38826863 TACTATATAGGGCTAAGGCCCAGACTG-TACTGA
1 TACTAAATAGGGCTAAGGCCCAGACTGTTACTGA
*
38826896 TACTAAATAGGGCTCAGGCCCAGACTGTTACTG
1 TACTAAATAGGGCTAAGGCCCAGACTGTTACTG
38826929 CATGCATTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 25 0.83
34 5 0.17
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (34 bp):
TACTAAATAGGGCTAAGGCCCAGACTGTTACTGA
Found at i:38831150 original size:22 final size:21
Alignment explanation
Indices: 38831097--38831151 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 21
38831087 ATGGCCTCTA
**
38831097 ACATGGGCATGTCCTAGGGTC
1 ACATGGGCATGTCCTAGGACC
* * *
38831118 ACACGGACATGTCTCTTGGACC
1 ACATGGGCATGTC-CTAGGACC
38831140 ACATGGGCATGT
1 ACATGGGCATGT
38831152 GAGCCCTGCG
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (21 bp):
ACATGGGCATGTCCTAGGACC
Found at i:38832019 original size:21 final size:21
Alignment explanation
Indices: 38831995--38832034 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
38831985 TTTAACATTG
*
38831995 ATTTGATAAAATTCACATTCA
1 ATTTCATAAAATTCACATTCA
**
38832016 ATTTCATTCAATTCACATT
1 ATTTCATAAAATTCACATT
38832035 TTAGGCAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.17, G:0.03, T:0.42
Consensus pattern (21 bp):
ATTTCATAAAATTCACATTCA
Found at i:38839869 original size:20 final size:21
Alignment explanation
Indices: 38839832--38839870 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
38839822 AAAGGGACAT
38839832 TATGCATGTATTTGATTGAGC
1 TATGCATGTATTTGATTGAGC
* *
38839853 TATG-ATGTGTTTTATTGA
1 TATGCATGTATTTGATTGA
38839871 AACAGTTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.23, C:0.05, G:0.23, T:0.49
Consensus pattern (21 bp):
TATGCATGTATTTGATTGAGC
Found at i:38841310 original size:16 final size:17
Alignment explanation
Indices: 38841263--38841352 Score: 69
Period size: 21 Copynumber: 5.1 Consensus size: 17
38841253 ACATTAGTTA
38841263 TATATTATTTTTATTAT
1 TATATTATTTTTATTAT
*
38841280 CCATCATGTTATTTTTATTAT
1 ---T-ATATTATTTTTATTAT
38841301 TATA-TA-TTTTACTTA-
1 TATATTATTTTTA-TTAT
*
38841316 TAAATTATATTTTATTAT
1 TATATTAT-TTTTATTAT
*
38841334 ATATATTATTTTTTTTAT
1 -TATATTATTTTTATTAT
38841352 T
1 T
38841353 TTTTTTATAA
Statistics
Matches: 58, Mismatches: 5, Indels: 17
0.73 0.06 0.21
Matches are distributed among these distances:
15 8 0.14
16 7 0.12
17 6 0.10
18 14 0.24
19 7 0.12
20 1 0.02
21 15 0.26
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.64
Consensus pattern (17 bp):
TATATTATTTTTATTAT
Found at i:38853827 original size:44 final size:44
Alignment explanation
Indices: 38853726--38853853 Score: 148
Period size: 44 Copynumber: 2.9 Consensus size: 44
38853716 GATCCAAGAT
**
38853726 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATGGCA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATAACA
* ** * *
38853770 GATTAGGTGTCTCTGTATTGTCAGAGAGTAGATCAAAGATAATA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATAACA
* * * *
38853814 GATTTGGCATCTCTATATTTGACGGAGAGCAGATCGAAGA
1 GATTTGGCATCTCTGTA-TTGTCAGAGAGCAGATCAAAGA
38853854 CATAGCAAAT
Statistics
Matches: 68, Mismatches: 15, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
44 50 0.74
45 18 0.26
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (44 bp):
GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATAACA
Found at i:38853933 original size:89 final size:87
Alignment explanation
Indices: 38853840--38854391 Score: 405
Period size: 89 Copynumber: 6.2 Consensus size: 87
38853830 ATTTGACGGA
*
38853840 GAGCAGATCGAAGACATAGCAAATCTAACCTTCGAATGTTTTCACATCGAAGTAGATCCAAGATG
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTC--ATGTTTTCACATCGAAGTAGATCCAAGATG
*
38853905 GTTTGGCATCCTTGCATTTACAAG
64 ATTTGGCATCCTTGCATTTACAAG
* *
38853929 GAGCAGATCGAAGACATAGCAGATCTGACCTTCGGATGTTTTCACATCGAAGTAGATCTAAGATG
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTC--ATGTTTTCACATCGAAGTAGATCCAAGATG
** * *
38853994 ATTTGGCATCCTTGTGTTCATAAG
64 ATTTGGCATCCTTGCATTTACAAG
* * * ** * * ** * * *
38854018 GAGCAGTTCGAAGACATAGCTGATTTGGCTTTCACGTGCTCAC-GCTGAAATAGATCCAAGATTA
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTCATGTTTTCACATC-GAAGTAGATCCAAGATGA
*
38854082 TTTGGCAT-CTCTGTATTGT-C-AG
65 TTTGGCATCCT-TGCATT-TACAAG
* * * * * ** * * * *
38854104 TGAGTAGATC-AA-AGATGGTAGATTTGGCATCTC-TGTATTGTCAGA--G-AGCAGATCGAAGA
1 -GAGCAGATCGAAGACATAGCAGATCTAACCT-TCATGT-TT-TCACATCGAAGTAGATCCAAGA
* * *
38854163 TAAAAGATTTGACAT-C-TCCATATTTGAC-GG
62 T----GATTTGGCATCCTTGC--ATTT-ACAAG
* *
38854193 AGAGTAGATCAAAGACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGAT
1 -GAGCAGATCGAAGACATAGCAGATCTAACCTTC--ATGTTTTCACATCGAAGTAGATCCAAGAT
* *
38854258 GGTTTGGCATCCTTGCGTTTACAAG
63 GATTTGGCATCCTTGCATTTACAAG
*
38854283 GAACAGATCGAAGACATAGCAGATCTAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGATG
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTC--ATGTTTTCACATCGAAGTAGATCCAAGATG
*
38854348 ATTTGGCATCCTT--ATGCTCACAAG
64 ATTTGGCATCCTTGCAT--TTACAAG
38854372 GAGCAGATCGAAGACATAGC
1 GAGCAGATCGAAGACATAGC
38854392 TGATTTGGCT
Statistics
Matches: 367, Mismatches: 67, Indels: 58
0.75 0.14 0.12
Matches are distributed among these distances:
84 11 0.03
85 16 0.04
86 10 0.03
87 47 0.13
88 12 0.03
89 219 0.60
90 16 0.04
91 16 0.04
92 4 0.01
93 4 0.01
94 12 0.03
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (87 bp):
GAGCAGATCGAAGACATAGCAGATCTAACCTTCATGTTTTCACATCGAAGTAGATCCAAGATGAT
TTGGCATCCTTGCATTTACAAG
Found at i:38854171 original size:44 final size:44
Alignment explanation
Indices: 38854081--38854207 Score: 137
Period size: 44 Copynumber: 2.9 Consensus size: 44
38854071 ATCCAAGATT
* * ***
38854081 ATTTGGCATCTCTGTATTGTCAGTGAGTAGATCAAAGATGGTAG
1 ATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATAAAAG
*
38854125 ATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAAAAG
1 ATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATAAAAG
* ** * * *
38854169 ATTTGACATCTCCATATTTGACGGAGAGTAGATCAAAGA
1 ATTTGGCATCTCTGTA-TTGTCAGAGAGCAGATCAAAGA
38854208 CATAGCAGAT
Statistics
Matches: 69, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
44 51 0.74
45 18 0.26
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.30
Consensus pattern (44 bp):
ATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATAAAAG
Found at i:38854354 original size:354 final size:353
Alignment explanation
Indices: 38853705--38854515 Score: 1241
Period size: 354 Copynumber: 2.3 Consensus size: 353
38853695 TCAGGTGTTT
*
38853705 ACGCTGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATGGCA
1 ACGCTGAAATAGATCCAAGAT-ATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATGGCA
* * * * * * *
38853770 GATTAGGTGTCTCTGTATTGTCAGAGAGTAGATCAAAGATAATAGATTTGGCATCTCTATATTTG
65 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAAAAGATTTGACATCTCCATATTTG
*
38853835 ACGGAGAGCAGATCGAAGACATAGCAAATCTAACCTTCGAATGTTTTCACATCGAAGTAGATCCA
130 ACGGAGAGCAGATCAAAGACATAGCAAATCTAACCTTCGAATGTTTTCACATCGAAGTAGATCCA
* * *
38853900 AGATGGTTTGGCATCCTTGCATTTACAAGGAGCAGATCGAAGACATAGCAGATCTGACCTTCGGA
195 AGATGGTTTGGCATCCTTGCATTTACAAGGAACAGATCGAAGACATAGCAGATCTAACCTTCAGA
* * * * *
38853965 TGTTTTCACATCGAAGTAGATCTAAGATGATTTGGCATCCTTGTGTTCATAAGGAGCAGTTCGAA
260 TGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTATGCTCACAAGGAGCAGATCGAA
38854030 GACATAGCTGATTTGGCTTTCACGTGCTC
325 GACATAGCTGATTTGGCTTTCACGTGCTC
* * *
38854059 ACGCTGAAATAGATCCAAGATTATTTGGCATCTCTGTATTGTCAGTGAGTAGATCAAAGATGGTA
1 ACGCTGAAATAGATCCAAGA-TATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATGGCA
*
38854124 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAAAAGATTTGACATCTCCATATTTG
65 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAAAAGATTTGACATCTCCATATTTG
* * *
38854189 ACGGAGAGTAGATCAAAGACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCA
130 ACGGAGAGCAGATCAAAGACATAGCAAATCTAACCTTCGAATGTTTTCACATCGAAGTAGATCCA
*
38854254 AGATGGTTTGGCATCCTTGCGTTTACAAGGAACAGATCGAAGACATAGCAGATCTAACCTTCAGA
195 AGATGGTTTGGCATCCTTGCATTTACAAGGAACAGATCGAAGACATAGCAGATCTAACCTTCAGA
38854319 TGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTATGCTCACAAGGAGCAGATCGAA
260 TGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTATGCTCACAAGGAGCAGATCGAA
* *
38854384 GACATAGCTGATTTGGCTTTCACGTGTTG
325 GACATAGCTGATTTGGCTTTCACGTGCTC
** * ** * *
38854413 ACATTGAAACAGATCCAAG--ATTTGGTGTCTCTGTATGGTCAGAGAGCAGATCGAAA-ATAGCA
1 ACGCTGAAATAGATCCAAGATATTTGGCATCTCTGTATTGTCAGAGAGCAGATC-AAAGATGGCA
* * *
38854475 GATTTGACGTCTATGTATGGTCAGAGAGCAGATCGAAGATA
65 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATA
38854516 GCAAATTTGG
Statistics
Matches: 414, Mismatches: 41, Indels: 7
0.90 0.09 0.02
Matches are distributed among these distances:
351 69 0.17
352 3 0.01
354 341 0.82
355 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (353 bp):
ACGCTGAAATAGATCCAAGATATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATGGCAG
ATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAAAAGATTTGACATCTCCATATTTGA
CGGAGAGCAGATCAAAGACATAGCAAATCTAACCTTCGAATGTTTTCACATCGAAGTAGATCCAA
GATGGTTTGGCATCCTTGCATTTACAAGGAACAGATCGAAGACATAGCAGATCTAACCTTCAGAT
GTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTATGCTCACAAGGAGCAGATCGAAG
ACATAGCTGATTTGGCTTTCACGTGCTC
Found at i:38854493 original size:44 final size:44
Alignment explanation
Indices: 38854432--38854622 Score: 283
Period size: 44 Copynumber: 4.3 Consensus size: 44
38854422 CAGATCCAAG
* * *
38854432 ATTTGGTGTCTCTGTATGGTCAGAGAGCAGATCGAAAATAGCAG
1 ATTTGGCGTCTCTGTATGGTCAGAGAGCAGATCGAAGATAGCAA
* *
38854476 ATTTGACGTCTATGTATGGTCAGAGAGCAGATCGAAGATAGCAA
1 ATTTGGCGTCTCTGTATGGTCAGAGAGCAGATCGAAGATAGCAA
* *
38854520 ATTTGGCATTTCTGTATGGTCAGAGAGCAGATCGAAGATAGCAA
1 ATTTGGCGTCTCTGTATGGTCAGAGAGCAGATCGAAGATAGCAA
* * * *
38854564 ATTTGGTGTCTCAGTATTGTCAGGGAGCAGATCGAAGATAGCAA
1 ATTTGGCGTCTCTGTATGGTCAGAGAGCAGATCGAAGATAGCAA
38854608 ATTTGGCGTCTCTGT
1 ATTTGGCGTCTCTGT
38854623 GTTCGACGGA
Statistics
Matches: 130, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 130 1.00
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.28
Consensus pattern (44 bp):
ATTTGGCGTCTCTGTATGGTCAGAGAGCAGATCGAAGATAGCAA
Found at i:38854535 original size:88 final size:88
Alignment explanation
Indices: 38854440--38854648 Score: 285
Period size: 88 Copynumber: 2.4 Consensus size: 88
38854430 AGATTTGGTG
*
38854440 TCTCTGTATGGTCAGAGAGCAGATCGAAAATAGCAGATTTGACGTCT-ATGTATGGTCAGAGAGC
1 TCTCTGTATGGTCAGAGAGCAGATCGAAAATAGCAAATTTGACGTCTCA-GTATGGTCAGAGAGC
38854504 AGATCGAAGATAGCAAATTTGGCA
65 AGATCGAAGATAGCAAATTTGGCA
* * ** * *
38854528 TTTCTGTATGGTCAGAGAGCAGATCGAAGATAGCAAATTTGGTGTCTCAGTATTGTCAGGGAGCA
1 TCTCTGTATGGTCAGAGAGCAGATCGAAAATAGCAAATTTGACGTCTCAGTATGGTCAGAGAGCA
*
38854593 GATCGAAGATAGCAAATTTGGCG
66 GATCGAAGATAGCAAATTTGGCA
* * * *
38854616 TCTCTGTGTTCGACGGAGAGCAGATCGAAAATA
1 TCTCTGT-ATGGTCAGAGAGCAGATCGAAAATA
38854649 TCAGCATGAT
Statistics
Matches: 105, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
88 84 0.80
89 21 0.20
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (88 bp):
TCTCTGTATGGTCAGAGAGCAGATCGAAAATAGCAAATTTGACGTCTCAGTATGGTCAGAGAGCA
GATCGAAGATAGCAAATTTGGCA
Found at i:38857641 original size:12 final size:12
Alignment explanation
Indices: 38857624--38857673 Score: 64
Period size: 12 Copynumber: 4.2 Consensus size: 12
38857614 ACTTATAAAT
38857624 TATATTTTATTA
1 TATATTTTATTA
38857636 TATATTTTATTA
1 TATATTTTATTA
* *
38857648 TATATATTATTT
1 TATATTTTATTA
* *
38857660 TTTATTTTTTTA
1 TATATTTTATTA
38857672 TA
1 TA
38857674 AATTATGTAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TATATTTTATTA
Found at i:38857657 original size:24 final size:23
Alignment explanation
Indices: 38857624--38857690 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 23
38857614 ACTTATAAAT
*
38857624 TATATTTTATTATATATTTTATTA
1 TATATATTATTAT-TATTTTATTA
* *
38857648 TATATATTATTTTTTATTTTTTTA
1 TATATATTA-TTATTATTTTATTA
*
38857672 TAAATTATGTATTATTATT
1 TATA-TAT-TATTATTATT
38857691 CATTAATTGT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
24 20 0.57
25 13 0.37
26 2 0.06
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.67
Consensus pattern (23 bp):
TATATATTATTATTATTTTATTA
Found at i:38859841 original size:122 final size:122
Alignment explanation
Indices: 38859608--38859851 Score: 273
Period size: 122 Copynumber: 2.0 Consensus size: 122
38859598 TTATTATACA
* * * *
38859608 ACTAGAGTTATACCGATACCTTGAAGACTTCTACTAAAAGAAGTCAAAATAATAGCCAAAGTTTA
1 ACTAGAGTTATACCGATACCTTGAAGACTTCTACCAAAACAAGTCAAAATAATAGCAAAAGTTCA
* * **
38859673 GCCCCTTCTGCACTTCTATCTATACTCTACTGCGTTCTACTAATACCAGCTGAAACC
66 GCCCCTCCTGCACTTCTATCTATACTCTACTGCGTTCTACCAATACCAAATGAAACC
* * * * *
38859730 ACTAGAGTTCTACCGCTACCTTG-AGTACTTCTACCGAAACAAGTCAAAA-AAGTTGTAAAAGTT
1 ACTAGAGTTATACCGATACCTTGAAG-ACTTCTACCAAAACAAGTCAAAATAA-TAGCAAAAGTT
* *
38859793 CAGCCTCC-CCTGCACTTCTA-CTGATACTCTGA-TGGGTTCTACCGATACCAAATGAAACC
64 CAGCC-CCTCCTGCACTTCTATCT-ATACTCT-ACTGCGTTCTACCAATACCAAATGAAACC
38859852 CTCAAAGTTC
Statistics
Matches: 102, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
121 6 0.06
122 93 0.91
123 3 0.03
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.27
Consensus pattern (122 bp):
ACTAGAGTTATACCGATACCTTGAAGACTTCTACCAAAACAAGTCAAAATAATAGCAAAAGTTCA
GCCCCTCCTGCACTTCTATCTATACTCTACTGCGTTCTACCAATACCAAATGAAACC
Found at i:38862082 original size:48 final size:47
Alignment explanation
Indices: 38861924--38862090 Score: 178
Period size: 46 Copynumber: 3.6 Consensus size: 47
38861914 TGATATGTGT
* * * *
38861924 GCTAGTGTAAGACATGTGTGGGACATGCATCGACCAC-ATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGTATGAGA
* * * * * *
38861970 GCCAATGTAAGACATGTCTCGGACATGTATCGGCATTGAG-ATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGTATGAGA
*
38862016 GCTAGTGTAAGATATGTCTGGGACATGCATCGGCCTCGAGATATGCA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAG-TATG-AGA
* *
38862064 GCTAGTGTAAGACCTGTCTGGAACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
38862091 GTGTCAGCTT
Statistics
Matches: 97, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
46 67 0.69
47 1 0.01
48 28 0.29
49 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.25
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGTATGAGA
Found at i:38868645 original size:46 final size:48
Alignment explanation
Indices: 38868578--38868698 Score: 165
Period size: 46 Copynumber: 2.6 Consensus size: 48
38868568 TGATATGTGT
*
38868578 GCTAGTGTAAGACATGTCTGGGACATGCATCGACATTAAGACA-AG-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACATCAAGACATAGAA
* * * *
38868624 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAGAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACATCAAGACATAGAA
* *
38868672 GCTAGTGTAAGACCTGTCTAGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
38868699 GCGTCAGCTT
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
46 38 0.58
47 2 0.03
48 26 0.39
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACATCAAGACATAGAA
Found at i:38868842 original size:142 final size:142
Alignment explanation
Indices: 38868583--38868894 Score: 357
Period size: 142 Copynumber: 2.2 Consensus size: 142
38868573 TGTGTGCTAG
* * * *
38868583 TGTAAGACATGTCTGGGACAT-GCATCGACATTAAGACAAGAGCTAGTGTAAGACATGTCTGGGA
1 TGTAAGACATGTCTGGGACATGGCGTCGACATGAAGACAAGAGCCAGTGTAAGACATGTCTGAGA
* * * * *
38868647 CATGCATCGGCCTCGAGATATAGAAGCTAGTGTAAGACCTGTCTAGGACATGGCGTC-AGCTTGA
66 CAGGCATCGGCCTCGAGATATAAAAGCTAGTGTAAGACCTATCTAGGACATGGCATCGAACTTGA
*
38868711 TGTG-T-GTCAA
131 TGTGCTAGCCAA
* ** * *
38868721 TGTAAGACATGTCTGGGACATGGTGTCGACACTGATAGATGAGAGCCAGTGTAAGACCTGTTTGA
1 TGTAAGACATGTCTGGGACATGGCGTCGACA-TGA-AGACAAGAGCCAGTGTAAGACATGTCTGA
* * *
38868786 GACACGGCATCGGCCTCGATATATAAAAG-TCAGTGTAA-AGTCTATCTGGGACATGGCATCGAA
64 GACA-GGCATCGGCCTCGAGATATAAAAGCT-AGTGTAAGA-CCTATCTAGGACATGGCATCGAA
*
38868849 TTTGATGTGCTAGCCAA
126 CTTGATGTGCTAGCCAA
38868866 TGTAAGACCATGTCTGGGACATGGCGTCG
1 TGTAAGA-CATGTCTGGGACATGGCGTCG
38868895 GCATTTTACC
Statistics
Matches: 144, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
138 21 0.15
139 7 0.05
140 2 0.01
141 29 0.20
142 44 0.31
143 9 0.06
144 1 0.01
145 11 0.08
146 20 0.14
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (142 bp):
TGTAAGACATGTCTGGGACATGGCGTCGACATGAAGACAAGAGCCAGTGTAAGACATGTCTGAGA
CAGGCATCGGCCTCGAGATATAAAAGCTAGTGTAAGACCTATCTAGGACATGGCATCGAACTTGA
TGTGCTAGCCAA
Found at i:38871652 original size:37 final size:37
Alignment explanation
Indices: 38871602--38871680 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
38871592 TTATTACGAA
* * *
38871602 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
38871639 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
38871676 GTCTT
1 GTCTT
38871681 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:38871877 original size:47 final size:47
Alignment explanation
Indices: 38871799--38872401 Score: 1014
Period size: 47 Copynumber: 12.7 Consensus size: 47
38871789 CCCTTCGGGA
* * * * * *
38871799 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38871846 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38871893 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38871940 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38871989 CTTATCACATATAT--ACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38872034 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTGGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38872083 CTTATCACATATATATACACTTTCACATTCATCACATCGTCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38872132 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38872179 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38872226 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38872273 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38872320 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38872367 CTTATCACATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
38872402 AGAATCCTAA
Statistics
Matches: 533, Mismatches: 16, Indels: 14
0.95 0.03 0.02
Matches are distributed among these distances:
45 39 0.07
46 1 0.00
47 361 0.68
49 132 0.25
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38878801 original size:38 final size:38
Alignment explanation
Indices: 38878758--38878833 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
38878748 ACATTTACAA
38878758 GAGAGACCATACTTTTGCTTGTTGAAGTTGCACCACTT
1 GAGAGACCATACTTTTGCTTGTTGAAGTTGCACCACTT
38878796 GAGAGACCATACTTTTGCTTGTTGAAGTTGCACCACTT
1 GAGAGACCATACTTTTGCTTGTTGAAGTTGCACCACTT
38878834 CTTATATTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (38 bp):
GAGAGACCATACTTTTGCTTGTTGAAGTTGCACCACTT
Found at i:38883168 original size:6 final size:6
Alignment explanation
Indices: 38883112--38883148 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
38883102 AAATCTACTA
38883112 AAAAAT AAACAAT AAACAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAA-AAT AAA-AAT AAAAAT AAAAAT AAAAA
38883149 GTAGTTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 17 0.57
7 13 0.43
ACGTcount: A:0.81, C:0.05, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:38899725 original size:21 final size:22
Alignment explanation
Indices: 38899699--38899739 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
38899689 CACTAGGTAC
38899699 AGGGGC-ACACGCCCATGTGGG
1 AGGGGCAACACGCCCATGTGGG
38899720 AGGGGCAACACGCCCATGTG
1 AGGGGCAACACGCCCATGTG
38899740 ACCAACTCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.22, C:0.29, G:0.39, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACGCCCATGTGGG
Found at i:38901036 original size:46 final size:45
Alignment explanation
Indices: 38900944--38901157 Score: 193
Period size: 46 Copynumber: 4.6 Consensus size: 45
38900934 TATCTGTGCC
* **
38900944 GATGCCATGTCCCAGACATGGTCTTACACT-G-ATACATCTTGTAGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATC-TCAAGCT
*
38900990 GATGCATGTCCCAGACATGTTTTACACTGGCTTACATCTCGAAGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTC-AAGCT
* * * * *
38901036 GAAGCATGTCCCAGACATGTCTTACACTAGCACT-CGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-TTACATCTCAA-GCT
* * * *
38901082 GATGCCATGTCCCAGACATGGTCTTACATTGGCTTTCATAAT-ATGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACAT-CTCA-AGCT
38901130 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
38901158 AGCTCACACA
Statistics
Matches: 139, Mismatches: 19, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
44 9 0.06
45 18 0.13
46 61 0.44
47 30 0.22
48 20 0.14
49 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCAAGCT
Found at i:38916056 original size:12 final size:12
Alignment explanation
Indices: 38916039--38916066 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
38916029 CCACACGCCT
38916039 GTGTGCTAGGCC
1 GTGTGCTAGGCC
38916051 GTGTGCTAGGCC
1 GTGTGCTAGGCC
38916063 GTGT
1 GTGT
38916067 AATAGCTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.21, G:0.43, T:0.29
Consensus pattern (12 bp):
GTGTGCTAGGCC
Found at i:38920682 original size:21 final size:21
Alignment explanation
Indices: 38920658--38920703 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
38920648 ATAAAGGCTA
38920658 ATGTTGGATATACCACAATCT
1 ATGTTGGATATACCACAATCT
*
38920679 ATGTTGTATATACCACAATCT
1 ATGTTGGATATACCACAATCT
38920700 ATGT
1 ATGT
38920704 AATGGGATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (21 bp):
ATGTTGGATATACCACAATCT
Found at i:38924612 original size:30 final size:30
Alignment explanation
Indices: 38924572--38924631 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
38924562 GATGTGAGTT
*
38924572 ACACATGGCCTAGACACACGCTCG-TGTGTC
1 ACACACGGCCTAGACACACGC-CGATGTGTC
*
38924602 ACACACGGCCTAGACTCACGCCGATGTGTC
1 ACACACGGCCTAGACACACGCCGATGTGTC
38924632 TACCTGTGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 2 0.07
30 25 0.93
ACGTcount: A:0.23, C:0.35, G:0.23, T:0.18
Consensus pattern (30 bp):
ACACACGGCCTAGACACACGCCGATGTGTC
Found at i:38928712 original size:20 final size:20
Alignment explanation
Indices: 38928673--38928733 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
38928663 ACCGAAGTGT
* * *
38928673 AACAGAGGCATCAGATTGCA
1 AACAGAGGCACCAAAGTGCA
* *
38928693 AGCAGAGGTACCAAAGTGCA
1 AACAGAGGCACCAAAGTGCA
*
38928713 AACAGAGGCACCGAAGTGCA
1 AACAGAGGCACCAAAGTGCA
38928733 A
1 A
38928734 TCCTGTACAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.41, C:0.21, G:0.28, T:0.10
Consensus pattern (20 bp):
AACAGAGGCACCAAAGTGCA
Found at i:38929140 original size:217 final size:217
Alignment explanation
Indices: 38928765--38929201 Score: 768
Period size: 217 Copynumber: 2.0 Consensus size: 217
38928755 AACCATATTG
* * * * * * *
38928765 GCATGCTAATTGTATCCTAGTGATTTCTACGTTCAACCGGGCATTATATGAAAATTTTTTACCTT
1 GCATGCTAATTGTATCCTAGTGATTACTACGCTCAACCAGACATTATATGAAAATCTGTTACCTA
* *
38928830 TATACATATGTATCAACCAGAGGCACTTCATCGTTTCTGTACACATAATATAAATTCATTATGCT
66 TATACATATGAATCAACCAGAGGCACTTCATCGTTTCTGTACAAATAATATAAATTCATTATGCT
38928895 CATGTAAAAAATGTGAAATCACAAGGATTGTCACCATCCATTATCCATTTTCATATGAATTTGAT
131 CATGTAAAAAATGTGAAATCACAAGGATTGTCACCATCCATTATCCATTTTCATATGAATTTGAT
38928960 TTCATTATCCAATATTATATAA
196 TTCATTATCCAATATTATATAA
38928982 GCATGCTAATTGTATCCTAGTGATTACTACGCTCAACCAGACATTATATGAAAATCTGTTACCTA
1 GCATGCTAATTGTATCCTAGTGATTACTACGCTCAACCAGACATTATATGAAAATCTGTTACCTA
38929047 TATACATATGAATCAACCAGAGGCACTTCATCGGTTT-TGTACAAATAATATAAATTCATTATGC
66 TATACATATGAATCAACCAGAGGCACTTCATC-GTTTCTGTACAAATAATATAAATTCATTATGC
*
38929111 TCATGTAAAAAATGTGAAATCACAAGGATTGTCACCATCCATTATTCATTTTCATATGAATTTGA
130 TCATGTAAAAAATGTGAAATCACAAGGATTGTCACCATCCATTATCCATTTTCATATGAATTTGA
38929176 TTTCATTATCCAATATTATATAA
195 TTTCATTATCCAATATTATATAA
38929199 GCA
1 GCA
38929202 ACTTATGAAT
Statistics
Matches: 209, Mismatches: 10, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
217 205 0.98
218 4 0.02
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.36
Consensus pattern (217 bp):
GCATGCTAATTGTATCCTAGTGATTACTACGCTCAACCAGACATTATATGAAAATCTGTTACCTA
TATACATATGAATCAACCAGAGGCACTTCATCGTTTCTGTACAAATAATATAAATTCATTATGCT
CATGTAAAAAATGTGAAATCACAAGGATTGTCACCATCCATTATCCATTTTCATATGAATTTGAT
TTCATTATCCAATATTATATAA
Found at i:38941050 original size:22 final size:22
Alignment explanation
Indices: 38941020--38941073 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
38941010 ATACGTTTGA
*
38941020 CACACAGCCATAAT-TAGGTTGG
1 CACAAAGCCAT-ATGTAGGTTGG
*
38941042 CACAGAGCCATATGTAGGTTGG
1 CACAAAGCCATATGTAGGTTGG
*
38941064 CGCAAAGCCA
1 CACAAAGCCA
38941074 AAATCAGAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 2 0.07
22 26 0.93
ACGTcount: A:0.31, C:0.24, G:0.26, T:0.19
Consensus pattern (22 bp):
CACAAAGCCATATGTAGGTTGG
Found at i:38941552 original size:27 final size:27
Alignment explanation
Indices: 38941499--38941883 Score: 283
Period size: 27 Copynumber: 14.2 Consensus size: 27
38941489 TTTCACCCTA
* * * *
38941499 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
** *
38941526 CAAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
38941553 CAATGGTATTTCT-ATAATTTTTA-AAAGT
1 CAAGGGTATTT-TGGTAA-TTTTACAAA-T
* *
38941581 CAAGGGTATTTCT-ATAATTTTATAAAT
1 CAAGGGTATTT-TGGTAATTTTACAAAT
* * * *
38941608 TAGGGGTATTTTTGTAATTTTCCAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
38941635 CGAGGGTATTTTAGTAATTTTCCAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
38941662 CAGGGGTATTTTGGTAATTTTACAAATT
1 CAAGGGTATTTTGGTAATTTTACAAA-T
* * *
38941690 GAA-GGTATTTTAGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* **
38941716 CAAGGGTATTTTGGTAATTTTATAGGT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *** * **
38941743 TAAGGGTATTTCAATAATTTTATAGGT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * * *
38941770 TAAGGGTATTTCGATAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
38941797 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
38941824 CAGGGGTATTTTGGTAATTTTGCTAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * **
38941851 CGAGGGTATTTTTGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
38941878 CAAGGG
1 CAAGGG
38941884 CATTCAGTAA
Statistics
Matches: 296, Mismatches: 55, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
26 4 0.01
27 266 0.90
28 26 0.09
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.42
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:38946290 original size:3 final size:3
Alignment explanation
Indices: 38946282--38946307 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
38946272 TTTTCACCAA
38946282 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
38946308 AACTGTCCAT
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:38947413 original size:53 final size:54
Alignment explanation
Indices: 38947346--38947549 Score: 203
Period size: 53 Copynumber: 3.8 Consensus size: 54
38947336 TTCCTTTTTA
* * * *
38947346 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTT-TTG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * *
38947399 AACTCACCATTGCCATGCCTTGGCATAGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * *
38947453 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTACTTGCCTTGTAG
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * *
38947508 AACTTACCAATGCCATGCCTTGGCATGGCCTTACTTGGTATC
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATC
38947550 TTTAAACCCT
Statistics
Matches: 117, Mismatches: 32, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
53 43 0.37
54 34 0.29
55 40 0.34
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.37
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:38947481 original size:108 final size:109
Alignment explanation
Indices: 38947356--38947552 Score: 288
Period size: 109 Copynumber: 1.8 Consensus size: 109
38947346 AACTTACCAT
* * * * *
38947356 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTT-TTGAACTCACCATTGCCATGCCTT
1 TGCCATGTCTTGACATGGTCTTACATGATATACTTGCCTTGTAGAACTCACCAATGCCATGCCTT
*
38947420 GGCATAGTCTTACATGGGATCTTTGCCTTATAGTAGTTTATCAA
66 GGCATAGCCTTACATGGGATCTTTGCCTTATAGTAGTTTATCAA
* *
38947464 TGCCATGTCTTGACATGGTCTTACATGATTTACTTGCCTTGTAGAACTTACCAATGCCATGCCTT
1 TGCCATGTCTTGACATGGTCTTACATGATATACTTGCCTTGTAGAACTCACCAATGCCATGCCTT
* * *
38947529 GGCATGGCCTTACTTGGTATCTTT
66 GGCATAGCCTTACATGGGATCTTT
38947553 AAACCCTAAT
Statistics
Matches: 77, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
108 36 0.47
109 41 0.53
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.38
Consensus pattern (109 bp):
TGCCATGTCTTGACATGGTCTTACATGATATACTTGCCTTGTAGAACTCACCAATGCCATGCCTT
GGCATAGCCTTACATGGGATCTTTGCCTTATAGTAGTTTATCAA
Found at i:38957109 original size:43 final size:43
Alignment explanation
Indices: 38957054--38957209 Score: 163
Period size: 43 Copynumber: 3.6 Consensus size: 43
38957044 TGCCATATCA
* * * *
38957054 CAGATATGGTCTTACATGTTATCACATATTGATGCCAGTGTCC
1 CAGACATGGTCTTACATGTAATCACATATTGATGCCAATGTCT
* * * * * *
38957097 CAGACAGGGTCTTACACGAAATTGA-TTAATGATGCCAATGTCT
1 CAGACATGGTCTTACATGTAA-TCACATATTGATGCCAATGTCT
* **
38957140 CAGACATGGTCTTACATGTAATCTCA-ATACAATGCCAATGTCT
1 CAGACATGGTCTTACATGTAATCACATAT-TGATGCCAATGTCT
38957183 CAGACATGGTCTTACATGTAATCACAT
1 CAGACATGGTCTTACATGTAATCACAT
38957210 CTCGATAACC
Statistics
Matches: 89, Mismatches: 20, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
42 2 0.02
43 85 0.96
44 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (43 bp):
CAGACATGGTCTTACATGTAATCACATATTGATGCCAATGTCT
Found at i:38977349 original size:258 final size:258
Alignment explanation
Indices: 38976892--38977408 Score: 998
Period size: 258 Copynumber: 2.0 Consensus size: 258
38976882 CGTATAATGC
*
38976892 CTCATAAGGTGCCATCTTTAAATTGGACTGATAACTGTTATTATAAGCGAATTCAACCGAAGGTA
1 CTCATAAGGTGCCATCTTTAAACTGGACTGATAACTGTTATTATAAGCGAATTCAACCGAAGGTA
38976957 GATAATTTTCCCAACTACCTTGAAACTCAAGAACACAACATTTAAGAATATCTTCAAGTGTCTGG
66 GATAATTTTCCCAACTACCTTGAAACTCAAGAACACAACATTTAAGAATATCTTCAAGTGTCTGG
*
38977022 ATTATTCTCTCGGATTGTCCATCAGTCTGTGGGTGGAAAGTAGTACTAAAATTTAGTTTTGTTCC
131 ATTATTCTCTCGGATTGTCCATCAGTCTGTGGGTGGAAAGTAGTACTAAAATTTAGTTTCGTTCC
38977087 CAAAGCCGCTTACAACTTTGTCCAAAATCATGACGTAAATCTCAGATCTCTATCTGAAATAAT
196 CAAAGCCGCTTACAACTTTGTCCAAAATCATGACGTAAATCTCAGATCTCTATCTGAAATAAT
38977150 CTCATAAGGTGCCATCTTTAAACTGGACTGATAACTGTTATTATAAGCGAATTCAACCGAAGGTA
1 CTCATAAGGTGCCATCTTTAAACTGGACTGATAACTGTTATTATAAGCGAATTCAACCGAAGGTA
*
38977215 GATAATTTTCCCAACTACCTTGAAACTGAAGAACACAACATTTAAGAATATCTTCAAGTGTCTGG
66 GATAATTTTCCCAACTACCTTGAAACTCAAGAACACAACATTTAAGAATATCTTCAAGTGTCTGG
38977280 ATTATTCTCTCGGATTGTCCATCAGTCTGTGGGTGGAAAGTAGTACTAAAATTTAGTTTCGTTCC
131 ATTATTCTCTCGGATTGTCCATCAGTCTGTGGGTGGAAAGTAGTACTAAAATTTAGTTTCGTTCC
*
38977345 CAAAGCCGCTTACAACTTTGTCCAAAATCGTGACGTAAATCTCAGATCTCTATCTGAAATAAT
196 CAAAGCCGCTTACAACTTTGTCCAAAATCATGACGTAAATCTCAGATCTCTATCTGAAATAAT
38977408 C
1 C
38977409 GACAATGTCA
Statistics
Matches: 255, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
258 255 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (258 bp):
CTCATAAGGTGCCATCTTTAAACTGGACTGATAACTGTTATTATAAGCGAATTCAACCGAAGGTA
GATAATTTTCCCAACTACCTTGAAACTCAAGAACACAACATTTAAGAATATCTTCAAGTGTCTGG
ATTATTCTCTCGGATTGTCCATCAGTCTGTGGGTGGAAAGTAGTACTAAAATTTAGTTTCGTTCC
CAAAGCCGCTTACAACTTTGTCCAAAATCATGACGTAAATCTCAGATCTCTATCTGAAATAAT
Found at i:38978178 original size:26 final size:27
Alignment explanation
Indices: 38978127--38978180 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
38978117 TCATTAACAT
*
38978127 TTGGGCCTCAACCCATCACAGTATCAA
1 TTGGGCCTCAACCCATCACAGAATCAA
* *
38978154 TTGGGCCT-AGCCCATCTCAGAATCAA
1 TTGGGCCTCAACCCATCACAGAATCAA
38978180 T
1 T
38978181 ATAAACTTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (27 bp):
TTGGGCCTCAACCCATCACAGAATCAA
Found at i:38978213 original size:32 final size:32
Alignment explanation
Indices: 38978154--38978232 Score: 97
Period size: 32 Copynumber: 2.5 Consensus size: 32
38978144 ACAGTATCAA
* * *
38978154 TTGGGCCTAGCCCATCTCAGAATCAATATAAAC
1 TTGGGCCTAGCCCATATAAGAACCAATAT-AAC
* *
38978187 TT-GGCCTAGCCTATATAAGAACCAATATCAC
1 TTGGGCCTAGCCCATATAAGAACCAATATAAC
38978218 TTGGGCCTAGCCCAT
1 TTGGGCCTAGCCCAT
38978233 TTCAATATCA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
31 4 0.10
32 33 0.85
33 2 0.05
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.25
Consensus pattern (32 bp):
TTGGGCCTAGCCCATATAAGAACCAATATAAC
Found at i:38979890 original size:37 final size:37
Alignment explanation
Indices: 38979840--38979918 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
38979830 TTATTACGAA
* * *
38979840 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
38979877 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
38979914 GTCTT
1 GTCTT
38979919 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:38980196 original size:47 final size:47
Alignment explanation
Indices: 38980036--38980354 Score: 530
Period size: 47 Copynumber: 6.7 Consensus size: 47
38980026 GCCCTTCGGG
*
38980036 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
38980086 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
38980135 ACTTTCACATTCATCACATCAGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
38980182 GCTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
38980229 GCTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
38980276 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
38980323 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
38980355 ATACTATCAT
Statistics
Matches: 260, Mismatches: 9, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
47 175 0.67
49 81 0.31
50 4 0.02
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:38980292 original size:25 final size:25
Alignment explanation
Indices: 38980216--38980294 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
38980206 ATTAGGCCTT
*
38980216 ATCACATATATACGCTTTCACATTC
1 ATCACATATATACACTTTCACATTC
**** ***
38980241 ATCACAT-CGGCCA-TTAGGCATT-
1 ATCACATATATACACTTTCACATTC
38980263 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
38980288 ATCACAT
1 ATCACAT
38980295 CGGCCATTAG
Statistics
Matches: 36, Mismatches: 15, Indels: 6
0.63 0.26 0.11
Matches are distributed among these distances:
22 7 0.19
23 8 0.22
24 7 0.19
25 14 0.39
ACGTcount: A:0.33, C:0.28, G:0.06, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:38985742 original size:30 final size:30
Alignment explanation
Indices: 38985708--38985768 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
38985698 TCCTTAACTC
38985708 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
38985738 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
38985768 A
1 A
38985769 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:38991609 original size:32 final size:33
Alignment explanation
Indices: 38991573--38991657 Score: 113
Period size: 32 Copynumber: 2.6 Consensus size: 33
38991563 CCCATTGCAG
* *
38991573 TATCAATTGGGCCTAGCCCATCT-CAGAATCAA
1 TATCAGTTGGGCCTAGCCCATCTACAGAACCAA
*
38991605 TATCAGTTGGGCCTAG--CATTTACCAGAACCAA
1 TATCAGTTGGGCCTAGCCCATCTA-CAGAACCAA
38991637 TATCAGTTGGGCCTAGCCCAT
1 TATCAGTTGGGCCTAGCCCAT
38991658 TTCAATATCA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
30 4 0.09
32 39 0.85
34 3 0.07
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (33 bp):
TATCAGTTGGGCCTAGCCCATCTACAGAACCAA
Found at i:38999203 original size:47 final size:47
Alignment explanation
Indices: 38999140--38999392 Score: 380
Period size: 47 Copynumber: 5.4 Consensus size: 47
38999130 CCCTTCGGGA
* * *
38999140 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
38999187 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
38999234 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
38999281 CTTATCTCATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
38999328 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
38999375 CTTATCACATATACACAC
1 CTTATCACATATATACAC
38999393 CTTGTACATC
Statistics
Matches: 189, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 189 1.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:39008238 original size:55 final size:53
Alignment explanation
Indices: 39008094--39008286 Score: 163
Period size: 55 Copynumber: 3.6 Consensus size: 53
39008084 ACTTACTATC
* *
39008094 GCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCATT
1 GCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAAT
* * * * * ** * *
39008147 GCAATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAGTAGTTTATCAAT
1 GCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G-AACTCACCAAT
* * * * *
39008202 GCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAGAAATTACCAAT
1 GCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAAT
** * *
39008256 GAAATG-CTTTGGCATGGTCTTACTTGGTATC
1 GCCATGTC-TTGACATGGTCTTACATGGTATC
39008287 TTTAAACCCT
Statistics
Matches: 109, Mismatches: 28, Indels: 5
0.77 0.20 0.04
Matches are distributed among these distances:
53 36 0.33
54 32 0.29
55 41 0.38
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.37
Consensus pattern (53 bp):
GCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAAT
Found at i:39012002 original size:101 final size:101
Alignment explanation
Indices: 39011892--39012123 Score: 279
Period size: 101 Copynumber: 2.3 Consensus size: 101
39011882 GATGGTTAAG
* * * *
39011892 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGATAGGTCGCATGTGTACTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATGGATAAGTCACATGTCTACTAC
39011957 TAAGTGCAGGCTACTATGCATACCCGTTAACTTTGA
66 TAAGTGCAGGCTACTATGCATACCCGTTAACTTTGA
* * * * * *
39011993 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTCTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATGGATAAGTCACATGTCTACTAC
** * * * *
39012058 TAAGTGCAGGCTACTATGTGTACCAGATTGA--TAGG
66 TAAGTGCAGGCTACTATGCATACCCG-TTAACTTTGA
* *
39012093 TCGCATATGTAGTACTAAGTGCAGGCTACTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTA
39012124 TGCATACCAG
Statistics
Matches: 111, Mismatches: 19, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
100 30 0.27
101 78 0.70
102 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (101 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATGGATAAGTCACATGTCTACTAC
TAAGTGCAGGCTACTATGCATACCCGTTAACTTTGA
Found at i:39012070 original size:151 final size:151
Alignment explanation
Indices: 39011796--39012131 Score: 600
Period size: 151 Copynumber: 2.2 Consensus size: 151
39011786 GTGAGTCACG
*
39011796 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTTGATCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGTTAACTTTGATCACGTGTGTAGTACTAAG
* *
39011861 TGTAGGCTACTACGTGTATCAGATGGTTAAGTCACATGTGTAGTACTAAGTGCAGGCTACTACGT
66 TGCAGGCTACTACGTGTATCAGATGGTTAAGTCACATGTCTAGTACTAAGTGCAGGCTACTACGT
39011926 GTACCAAATTGATAGGTCGCA
131 GTACCAAATTGATAGGTCGCA
*
39011947 TGTGTACTACTAAGTGCAGGCTACTATGCATACCCGTTAACTTTGATCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGTTAACTTTGATCACGTGTGTAGTACTAAG
* *
39012012 TGCAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTCTAGTACTAAGTGCAGGCTACTATGT
66 TGCAGGCTACTACGTGTATCAGATGGTTAAGTCACATGTCTAGTACTAAGTGCAGGCTACTACGT
*
39012077 GTACCAGATTGATAGGTCGCA
131 GTACCAAATTGATAGGTCGCA
*
39012098 TATGTAGTACTAAGTGCAGGCTACTATGCATACC
1 TGTGTAGTACTAAGTGCAGGCTACTATGCATACC
39012132 AGCGAGCTTC
Statistics
Matches: 176, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
151 176 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.30
Consensus pattern (151 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGTTAACTTTGATCACGTGTGTAGTACTAAG
TGCAGGCTACTACGTGTATCAGATGGTTAAGTCACATGTCTAGTACTAAGTGCAGGCTACTACGT
GTACCAAATTGATAGGTCGCA
Found at i:39012125 original size:24 final size:24
Alignment explanation
Indices: 39012052--39012125 Score: 62
Period size: 24 Copynumber: 3.0 Consensus size: 24
39012042 GTCACGTGTC
39012052 TAGTACTAAGTGCAGGCTACTATG
1 TAGTACTAAGTGCAGGCTACTATG
* * * *
39012076 T-GTACCAGATTGATAGG-TCGCATATG
1 TAGTACTA-AGTG-CAGGCT-AC-TATG
39012102 TAGTACTAAGTGCAGGCTACTATG
1 TAGTACTAAGTGCAGGCTACTATG
39012126 CATACCAGCG
Statistics
Matches: 36, Mismatches: 8, Indels: 12
0.64 0.14 0.21
Matches are distributed among these distances:
23 5 0.14
24 9 0.25
25 8 0.22
26 9 0.25
27 5 0.14
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (24 bp):
TAGTACTAAGTGCAGGCTACTATG
Found at i:39012133 original size:50 final size:50
Alignment explanation
Indices: 39011790--39012125 Score: 325
Period size: 50 Copynumber: 6.7 Consensus size: 50
39011780 TCCGTTGTGA
* * * * *
39011790 GTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-TTAACTTTG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGA--TAG
* * * * * * * *
39011841 ATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
* *
39011891 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
* * ** * * *
39011941 GTCGCATGTGTACTACTAAGTGCAGGCTACTATGCATACCCG-TTAACTTTG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGA--TAG
* * * * * * *
39011992 ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
* *
39012042 GTCACGTGTCTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
* *
39012092 GTCGCATATGTAGTACTAAGTGCAGGCTACTATG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATG
39012126 CATACCAGCG
Statistics
Matches: 228, Mismatches: 53, Indels: 9
0.79 0.18 0.03
Matches are distributed among these distances:
49 3 0.01
50 152 0.67
51 71 0.31
52 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
Found at i:39012355 original size:16 final size:16
Alignment explanation
Indices: 39012334--39012365 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
39012324 AGAATGGAGT
39012334 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
39012350 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
39012366 TAAAATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:39019416 original size:53 final size:53
Alignment explanation
Indices: 39019347--39019451 Score: 138
Period size: 53 Copynumber: 2.0 Consensus size: 53
39019337 TTTCCTTTTT
* * * * * *
39019347 AACTTACCATTTCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATG
1 AACTCACCATTACCATGCCTTGACATGGTCTTACATGGGATCCTTACCTTATG
* *
39019400 AACTCACCATTACCATGCCTTGGCATGGTCTTACATGGGATCTTTACCTTAT
1 AACTCACCATTACCATGCCTTGACATGGTCTTACATGGGATCCTTACCTTAT
39019452 AGTAGTTTAT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
53 44 1.00
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.37
Consensus pattern (53 bp):
AACTCACCATTACCATGCCTTGACATGGTCTTACATGGGATCCTTACCTTATG
Found at i:39020423 original size:33 final size:33
Alignment explanation
Indices: 39020386--39020456 Score: 133
Period size: 33 Copynumber: 2.2 Consensus size: 33
39020376 TGCACACGCT
*
39020386 CGTGTGCTTGGGGACACGCCCATGTCCCACACC
1 CGTGTGCTTGGGAACACGCCCATGTCCCACACC
39020419 CGTGTGCTTGGGAACACGCCCATGTCCCACACC
1 CGTGTGCTTGGGAACACGCCCATGTCCCACACC
39020452 CGTGT
1 CGTGT
39020457 TGAATTTTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.15, C:0.38, G:0.27, T:0.20
Consensus pattern (33 bp):
CGTGTGCTTGGGAACACGCCCATGTCCCACACC
Found at i:39025205 original size:40 final size:40
Alignment explanation
Indices: 39025153--39025314 Score: 209
Period size: 40 Copynumber: 4.0 Consensus size: 40
39025143 GGATTTAGCT
* * *
39025153 GGATATAACAACTTGCACAAATGCCCTCGGGTCTTAGCCC
1 GGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCC
*
39025193 AGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCC
1 GGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCC
* * * * *
39025233 GGATATAATC-ACTAGCATAAATGCCTTCGGGACATAGCCC
1 GGATAT-AGCAACTCGCACAAATGCCTTCGGGTCTTAGCCC
* *
39025273 GGATATAGCAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 GGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCC
39025313 GG
1 GG
39025315 TTATCATCCG
Statistics
Matches: 103, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
39 2 0.02
40 99 0.96
41 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
GGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCC
Found at i:39025271 original size:80 final size:80
Alignment explanation
Indices: 39025153--39025314 Score: 236
Period size: 80 Copynumber: 2.0 Consensus size: 80
39025143 GGATTTAGCT
* * *
39025153 GGATATAACAACTTGCACAAATGCCCTCGGGTCTTAGCCCAGATATAGCAACTCGCACAAATGCC
1 GGATATAACAACTAGCACAAATGCCCTCGGGACATAGCCCAGATATAGCAACTCGCACAAATGCC
*
39025218 TTCGGGTCTTAGCCC
66 TTCGGATCTTAGCCC
* * *
39025233 GGATATAATC-ACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGCAACTCGCACAAATGC
1 GGATATAA-CAACTAGCACAAATGCCCTCGGGACATAGCCCAGATATAGCAACTCGCACAAATGC
*
39025297 CTTCGGATCTTAGTCC
65 CTTCGGATCTTAGCCC
39025313 GG
1 GG
39025315 TTATCATCCG
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
80 72 0.99
81 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (80 bp):
GGATATAACAACTAGCACAAATGCCCTCGGGACATAGCCCAGATATAGCAACTCGCACAAATGCC
TTCGGATCTTAGCCC
Found at i:39029048 original size:46 final size:46
Alignment explanation
Indices: 39028988--39029215 Score: 316
Period size: 46 Copynumber: 5.0 Consensus size: 46
39028978 TTTGACATGA
* * * * *
39028988 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTC-GTGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAG-GT
* *** *
39029034 TGCCATGGCATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
39029080 TGCCGTGGTATCTTTCAACCATGGTCTTACACATTTCATAACAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
39029126 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
39029172 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
39029216 AGAGCACACT
Statistics
Matches: 163, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
45 4 0.02
46 159 0.98
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:39029954 original size:17 final size:18
Alignment explanation
Indices: 39029923--39029960 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
39029913 GATAGGCCGA
39029923 AATGGGCCATACGGGCCC
1 AATGGGCCATACGGGCCC
39029941 AATGGGCC-TACGGGCCC
1 AATGGGCCATACGGGCCC
39029958 AAT
1 AAT
39029961 TGGATAAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.24, C:0.32, G:0.32, T:0.13
Consensus pattern (18 bp):
AATGGGCCATACGGGCCC
Found at i:39030354 original size:27 final size:27
Alignment explanation
Indices: 39030214--39030353 Score: 183
Period size: 27 Copynumber: 5.2 Consensus size: 27
39030204 CGATTTACAA
* *
39030214 AATTATTGAAA-ACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
39030240 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
39030267 AATTACTGAAATACCATTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
39030294 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * * *
39030321 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCTTGTAGGGTAG
39030348 AATTAC
1 AATTAC
39030354 CATTTTGCCC
Statistics
Matches: 99, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 10 0.10
27 89 0.90
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGTAGGGTAG
Found at i:39031146 original size:6 final size:6
Alignment explanation
Indices: 39031137--39031267 Score: 99
Period size: 6 Copynumber: 21.3 Consensus size: 6
39031127 TTGCATTCAC
* * * *
39031137 ATTCTG ATTCTG ATTCTG -TTACCTA ATACTG ATTCTG -TCACCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG AT--TCTG ATTCTG
* *
39031187 ATTCTA ATTCTG ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
39031236 ATTCTA ATTCTG ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
39031268 AATGTTTCTT
Statistics
Matches: 98, Mismatches: 16, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
5 5 0.05
6 82 0.84
7 8 0.08
8 3 0.03
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:39031172 original size:31 final size:31
Alignment explanation
Indices: 39031137--39031247 Score: 120
Period size: 31 Copynumber: 3.6 Consensus size: 31
39031127 TTGCATTCAC
* *
39031137 ATTCTGATTCTGATTCTGTTACCTAATACTG
1 ATTCTGATTCTAATTCTGTTACCTAATTCTG
*
39031168 ATTCTG-TCACCTAATTCTGATT--CTAATTCTG
1 ATTCTGAT--TCTAATTCTG-TTACCTAATTCTG
* * *
39031199 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTAATTCTGTTACCTAATTCTG
39031230 ATTCTGATTCTAATTCTG
1 ATTCTGATTCTAATTCTG
39031248 ATTTTGATTC
Statistics
Matches: 66, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
29 1 0.02
30 9 0.14
31 45 0.68
32 9 0.14
33 2 0.03
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.46
Consensus pattern (31 bp):
ATTCTGATTCTAATTCTGTTACCTAATTCTG
Found at i:39031226 original size:19 final size:19
Alignment explanation
Indices: 39031140--39031235 Score: 93
Period size: 19 Copynumber: 4.8 Consensus size: 19
39031130 CATTCACATT
*
39031140 CTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGTCAC
* *
39031159 CTAATACTGATTCTGTCAC
1 CTGATTCTGATTCTGTCAC
* * *
39031178 CTAATTCTGATTCTAATTCTGATT
1 CTGATTCTGATTCT--GTC--A-C
39031202 CTGATTCTGATTCTGTCAC
1 CTGATTCTGATTCTGTCAC
39031221 CTGATTCTGATTCTG
1 CTGATTCTGATTCTG
39031236 ATTCTAATTC
Statistics
Matches: 63, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
19 44 0.70
20 1 0.02
21 2 0.03
22 2 0.03
23 1 0.02
24 13 0.21
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.45
Consensus pattern (19 bp):
CTGATTCTGATTCTGTCAC
Found at i:39031446 original size:12 final size:13
Alignment explanation
Indices: 39031429--39031454 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
39031419 TTTACACTGA
39031429 GTTTTTGTAAACT
1 GTTTTTGTAAACT
39031442 GTTTTTGTAAACT
1 GTTTTTGTAAACT
39031455 CACCTCGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (13 bp):
GTTTTTGTAAACT
Found at i:39034038 original size:14 final size:14
Alignment explanation
Indices: 39034008--39034049 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
39033998 TTTTATACTA
39034008 AATAATTAATAATAT
1 AATAA-TAATAATAT
39034023 AATAATAATGAA-AT
1 AATAATAAT-AATAT
39034037 AATAATAA-AATAT
1 AATAATAATAATAT
39034050 CTCCTTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 2 0.08
13 2 0.08
14 14 0.56
15 7 0.28
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (14 bp):
AATAATAATAATAT
Found at i:39036097 original size:34 final size:34
Alignment explanation
Indices: 39035991--39036106 Score: 137
Period size: 34 Copynumber: 3.4 Consensus size: 34
39035981 CTAATACTGT
* * * **
39035991 AATGGGCTTAGGCCC-TACTGGTACTGTTATTGA
1 AATGGGCTCAGGCCCAGACTGCTACTGTTACAGA
*
39036024 AATGCGCTCAGGCCCAGACTGCTACTGTTACTA-A
1 AATGGGCTCAGGCCCAGACTGCTACTGTTAC-AGA
39036058 AATGGGCTCAGGCCCAGACTGCTACTGTTACAGA
1 AATGGGCTCAGGCCCAGACTGCTACTGTTACAGA
* *
39036092 TATGGGCTAAGGCCC
1 AATGGGCTCAGGCCC
39036107 TAACTGAAAC
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
33 14 0.20
34 57 0.80
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (34 bp):
AATGGGCTCAGGCCCAGACTGCTACTGTTACAGA
Found at i:39040940 original size:30 final size:29
Alignment explanation
Indices: 39040835--39040959 Score: 189
Period size: 29 Copynumber: 4.3 Consensus size: 29
39040825 AAGTCTACAT
* *
39040835 ACATCCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
39040863 TCATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
39040892 ACATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
39040921 ACATTCATATGGCCCCATTAGGCCCAAATC
1 ACATTCATATGG-CCCATTAGGCCCAAATC
39040951 ACATTCATA
1 ACATTCATA
39040960 CTTATGAATT
Statistics
Matches: 89, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
28 20 0.22
29 43 0.48
30 26 0.29
ACGTcount: A:0.29, C:0.33, G:0.14, T:0.24
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:39040951 original size:59 final size:57
Alignment explanation
Indices: 39040842--39040956 Score: 185
Period size: 59 Copynumber: 2.0 Consensus size: 57
39040832 CATACATCCA
* *
39040842 TATGGCCCACTAGGCCCAATCTCATTCGTATGGCCCATTAGGCCCAAATCACATTCG
1 TATGGCCCACTAGGCCCAATCACATTCATATGGCCCATTAGGCCCAAATCACATTCG
*
39040899 TATGGCCCATTAGGCCCAAATCACATTCATATGGCCCCATTAGGCCCAAATCACATTC
1 TATGGCCCACTAGGCCC-AATCACATTCATATGG-CCCATTAGGCCCAAATCACATTC
39040957 ATACTTATGA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
57 16 0.30
58 14 0.26
59 23 0.43
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.24
Consensus pattern (57 bp):
TATGGCCCACTAGGCCCAATCACATTCATATGGCCCATTAGGCCCAAATCACATTCG
Found at i:39045432 original size:45 final size:45
Alignment explanation
Indices: 39045368--39045455 Score: 176
Period size: 45 Copynumber: 2.0 Consensus size: 45
39045358 GTCATATGTG
39045368 TATGTATAAGAAAGTCGAGTCAGAGGTCCTACAACCCCTCCCCCT
1 TATGTATAAGAAAGTCGAGTCAGAGGTCCTACAACCCCTCCCCCT
39045413 TATGTATAAGAAAGTCGAGTCAGAGGTCCTACAACCCCTCCCC
1 TATGTATAAGAAAGTCGAGTCAGAGGTCCTACAACCCCTCCCC
39045456 ATACCAAAGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.22
Consensus pattern (45 bp):
TATGTATAAGAAAGTCGAGTCAGAGGTCCTACAACCCCTCCCCCT
Found at i:39046297 original size:15 final size:15
Alignment explanation
Indices: 39046262--39046332 Score: 81
Period size: 15 Copynumber: 4.7 Consensus size: 15
39046252 ATATCTTGGG
* *
39046262 TTTCTTTATCCTGTA
1 TTTCTTTATTCTGGA
* *
39046277 TCTCTTTGTTCTGGA
1 TTTCTTTATTCTGGA
39046292 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
39046307 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
39046322 TTTCTTTATTC
1 TTTCTTTATTC
39046333 GGTTTCCTTG
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
14 2 0.04
15 42 0.91
16 2 0.04
ACGTcount: A:0.11, C:0.18, G:0.11, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:39046322 original size:30 final size:30
Alignment explanation
Indices: 39046253--39046332 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 30
39046243 CATAGTATCA
* * * *
39046253 TATCTTGGGTTTCTTTATCCTGTATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATCTCTC
* *
39046283 TGT-TCTGGATTTCTTTATTCTGGATTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATCTCTC
39046313 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
39046333 GGTTTCCTTG
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
29 1 0.02
30 39 0.95
31 1 0.02
ACGTcount: A:0.11, C:0.17, G:0.14, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATCTCTC
Found at i:39048752 original size:46 final size:46
Alignment explanation
Indices: 39048696--39048872 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
39048686 ATATATGGCA
* *
39048696 TCCGACACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAGCG
1 TCCGA-ACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAGGCG
*** * * *
39048743 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AGGCG
** * * *
39048790 TTTGAGCTCGTTGAGTTGATTCTGAGTTCACTTATGGATGC-GGACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAGG-CG
* *
39048836 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
39048873 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 24, Indels: 9
0.76 0.18 0.07
Matches are distributed among these distances:
45 2 0.02
46 62 0.61
47 38 0.37
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAGGCG
Found at i:39050302 original size:46 final size:46
Alignment explanation
Indices: 39050252--39050423 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
39050242 TGGTTGAGCA
*
39050252 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
39050298 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
39050343 CATCC-AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
39050390 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
39050424 GGGGCAGGTT
Statistics
Matches: 104, Mismatches: 12, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 5 0.05
46 82 0.79
47 6 0.06
49 3 0.03
50 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:39050413 original size:92 final size:93
Alignment explanation
Indices: 39050249--39050418 Score: 297
Period size: 92 Copynumber: 1.8 Consensus size: 93
39050239 GGATGGTTGA
* *
39050249 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
39050314 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
39050342 GCATCC-AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
39050406 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
39050419 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 67 0.92
93 6 0.08
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:39053427 original size:15 final size:15
Alignment explanation
Indices: 39053389--39053432 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
39053379 CATAGTATCG
* *
39053389 TATCTTGGGTTTCTT
1 TATCTTGGATTTCTC
39053404 TAT-TCTGGATTTCTC
1 TATCT-TGGATTTCTC
39053419 TATCTTGGATTTCT
1 TATCTTGGATTTCT
39053433 TTATTCGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 1 0.04
15 23 0.92
16 1 0.04
ACGTcount: A:0.11, C:0.16, G:0.16, T:0.57
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:39055880 original size:46 final size:46
Alignment explanation
Indices: 39055830--39056002 Score: 149
Period size: 46 Copynumber: 3.7 Consensus size: 46
39055820 TGGTTGAGCA
39055830 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
39055876 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * * *
39055921 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 --TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
39055969 -CCTGAGCTCACTGAGTTGAGTCCAAGTTCACTTA
1 TCC-GAACTCATTGAGTTGAGTCCGAGTTCACTTA
39056003 GGGGCGGGTT
Statistics
Matches: 100, Mismatches: 17, Indels: 20
0.73 0.12 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 5 0.05
46 54 0.54
47 28 0.28
48 3 0.03
50 2 0.02
51 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (46 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:39055986 original size:93 final size:93
Alignment explanation
Indices: 39055827--39055997 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
39055817 GGATGGTTGA
* * * **
39055827 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCGAACTCACTGAGT
*
39055892 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCAAGTTCGTGAAATGTAACTAG
* *
39055920 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG-CCTGAGCTCACTGAG
1 GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCC-GAACTCACTGAG
39055984 TTGAGTCCAAGTTC
65 TTGAGTCCAAGTTC
39055998 ACTTAGGGGC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
92 2 0.03
93 67 0.97
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCGAACTCACTGAGT
TGAGTCCAAGTTCGTGAAATGTAACTAG
Found at i:39065853 original size:27 final size:27
Alignment explanation
Indices: 39065804--39065855 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
39065794 AAACACCAAG
*
39065804 AAATGGAAGCCTTTGTGGAAATCTATA
1 AAATAGAAGCCTTTGTGGAAATCTATA
*
39065831 AAATAGAAGCTCTTT-TGGTAATCTA
1 AAATAGAAGC-CTTTGTGGAAATCTA
39065856 AGGAAAGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.33
Consensus pattern (27 bp):
AAATAGAAGCCTTTGTGGAAATCTATA
Found at i:39086758 original size:210 final size:210
Alignment explanation
Indices: 39086387--39086820 Score: 845
Period size: 210 Copynumber: 2.1 Consensus size: 210
39086377 TGAATATATG
39086387 ACTAGC-CAG-TTTTGGACATGTTTTATATGGTTTTCTAATTAAATTTAAAAGGCTAAATATGTA
1 ACTAGCTCAGTTTTTGGACATGTTTTATATGGTTTTCTAATTAAATTTAAAAGGCTAAATATGTA
*
39086450 AAATAGTTAATAACATATATATGATATAATATACCATAATTAAAAGCTATGTTCTTCATATTTTC
66 AAATAGTTAATAACATATATATGATATAATATAACATAATTAAAAGCTATGTTCTTCATATTTTC
39086515 TCATGACTGGAAAATAAAAAAATAAAAGAAGAAACAAAGCTTAGGGTTCGTCCATTTAATAAGCT
131 TCATGACTGGAAAATAAAAAAATAAAAGAAGAAACAAAGCTTAGGGTTCGTCCATTTAATAAGCT
39086580 CAATCAAGGTATGTA
196 CAATCAAGGTATGTA
39086595 ACTAGCTCAGTTTTTGGACATGTTTTATATGGTTTTCTAATTAAATTTAAAAGGCTAAATATGTA
1 ACTAGCTCAGTTTTTGGACATGTTTTATATGGTTTTCTAATTAAATTTAAAAGGCTAAATATGTA
39086660 AAATAGTTAATAACATATATATGATATAATATAACATAATTAAAAGCTATGTTCTTCATATTTTC
66 AAATAGTTAATAACATATATATGATATAATATAACATAATTAAAAGCTATGTTCTTCATATTTTC
39086725 TCATGACTGGAAAATAAAAAAATAAAAGAAGAAACAAAGCTTAGGGTTCGTCCATTTAATAAGCT
131 TCATGACTGGAAAATAAAAAAATAAAAGAAGAAACAAAGCTTAGGGTTCGTCCATTTAATAAGCT
39086790 CAATCAAGGTATGTA
196 CAATCAAGGTATGTA
39086805 ACTAGCTCAGTTTTTG
1 ACTAGCTCAGTTTTTG
39086821 ATCATTTTTA
Statistics
Matches: 223, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
208 6 0.03
209 3 0.01
210 214 0.96
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.35
Consensus pattern (210 bp):
ACTAGCTCAGTTTTTGGACATGTTTTATATGGTTTTCTAATTAAATTTAAAAGGCTAAATATGTA
AAATAGTTAATAACATATATATGATATAATATAACATAATTAAAAGCTATGTTCTTCATATTTTC
TCATGACTGGAAAATAAAAAAATAAAAGAAGAAACAAAGCTTAGGGTTCGTCCATTTAATAAGCT
CAATCAAGGTATGTA
Found at i:39087610 original size:31 final size:32
Alignment explanation
Indices: 39087558--39087617 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 32
39087548 ACATAGGATT
* *
39087558 TCGATATGTGATGTGCGAGTAAGACCATGGCA
1 TCGATATATGATGTACGAGTAAGACCATGGCA
39087590 TCGATATATG-TGTACGAGTAAGACCATG
1 TCGATATATGATGTACGAGTAAGACCATG
39087618 TTTAATACGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 17 0.65
32 9 0.35
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (32 bp):
TCGATATATGATGTACGAGTAAGACCATGGCA
Found at i:39087679 original size:56 final size:56
Alignment explanation
Indices: 39087593--39087726 Score: 196
Period size: 56 Copynumber: 2.4 Consensus size: 56
39087583 CATGGCATCG
*
39087593 ATATATGTGTACGAGTAAGACCATGTTTAATACGTAGGCATCGATATGTGATTCCA
1 ATATATGTGTACGAGTAAGACCACGTTTAATACGTAGGCATCGATATGTGATTCCA
** * * * *
39087649 ATATATGTGTGTGAGTAAGACCACGTTTAATATGTTGGCATTGATATGTGATTCCG
1 ATATATGTGTACGAGTAAGACCACGTTTAATACGTAGGCATCGATATGTGATTCCA
*
39087705 ATATATGTGTCCGAGTAAGACC
1 ATATATGTGTACGAGTAAGACC
39087727 CTGTCTGGGA
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 69 1.00
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (56 bp):
ATATATGTGTACGAGTAAGACCACGTTTAATACGTAGGCATCGATATGTGATTCCA
Found at i:39087744 original size:56 final size:54
Alignment explanation
Indices: 39087591--39087756 Score: 156
Period size: 56 Copynumber: 3.0 Consensus size: 54
39087581 ACCATGGCAT
*
39087591 CGATATATGTGTACGAGTAAGACCATGTTTAATAC-GTAGGCATCGATATGTGATTC
1 CGATATATGTGTACGAGTAAGACCCTG-TTAA-ACAGT-GGCATCGATATGTGATTC
* ** * * *
39087647 CAATATATGTGTGTGAGTAAGACCAC-GTTTAATATGTTGGCATTGATATGTGATTC
1 CGATATATGTGTACGAGTAAGACC-CTGTTAAACA-G-TGGCATCGATATGTGATTC
* **
39087703 CGATATATGTGTCCGAGTAAGACCCTGTCTGGGACAGTGGCATCGATATGTGAT
1 CGATATATGTGTACGAGTAAGACCCTGT-T-AAACAGTGGCATCGATATGTGAT
39087757 AACATGTAAG
Statistics
Matches: 89, Mismatches: 14, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
54 1 0.01
55 4 0.04
56 79 0.89
57 3 0.03
58 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (54 bp):
CGATATATGTGTACGAGTAAGACCCTGTTAAACAGTGGCATCGATATGTGATTC
Found at i:39091770 original size:27 final size:27
Alignment explanation
Indices: 39091722--39091826 Score: 126
Period size: 27 Copynumber: 3.9 Consensus size: 27
39091712 ACGAGGCTGC
* *
39091722 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
39091749 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
39091775 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
39091802 CAGATAATTGTGGCATAGTCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
39091827 GACGCTTCCT
Statistics
Matches: 70, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
26 8 0.11
27 59 0.84
28 3 0.04
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:39092116 original size:20 final size:20
Alignment explanation
Indices: 39092091--39092139 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
39092081 ATTGGGCCCG
39092091 TTGGCCCATGAACCCGATCT
1 TTGGCCCATGAACCCGATCT
39092111 TTGGCCCATGAACCCGATCT
1 TTGGCCCATGAACCCGATCT
39092131 TTGGCCCAT
1 TTGGCCCAT
39092140 TAAGCCCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.18, C:0.35, G:0.20, T:0.27
Consensus pattern (20 bp):
TTGGCCCATGAACCCGATCT
Found at i:39092284 original size:16 final size:15
Alignment explanation
Indices: 39092263--39092292 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
39092253 AAAATACCGA
39092263 CTTTTCGGCATTTTGG
1 CTTTTCGGC-TTTTGG
39092279 CTTTTCGGCTTTTG
1 CTTTTCGGCTTTTG
39092293 CCAATCTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.03, C:0.20, G:0.23, T:0.53
Consensus pattern (15 bp):
CTTTTCGGCTTTTGG
Found at i:39093502 original size:26 final size:26
Alignment explanation
Indices: 39093467--39093573 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
39093457 TGAAATGCCC
*
39093467 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
39093493 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
39093519 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
39093545 ATCATGGAACA-TTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
39093570 ATCA
1 ATCA
39093574 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
25 17 0.23
26 57 0.77
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:39097654 original size:39 final size:39
Alignment explanation
Indices: 39097570--39097680 Score: 116
Period size: 40 Copynumber: 2.8 Consensus size: 39
39097560 AGATACTAAT
** *
39097570 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTCTAAAA
* **
39097610 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATGA
1 TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTT-CTAAAA
* *
39097650 -CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 TCCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
39097681 GAGCTATATC
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
39 25 0.42
40 35 0.58
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTTCTAAAA
Found at i:39105518 original size:39 final size:39
Alignment explanation
Indices: 39105434--39105544 Score: 116
Period size: 40 Copynumber: 2.8 Consensus size: 39
39105424 AGATACTAAT
** *
39105434 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTCTAAAA
* **
39105474 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATGA
1 TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTT-CTAAAA
* *
39105514 -CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 TCCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
39105545 GAGCTATATC
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
39 25 0.42
40 35 0.58
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTTCTAAAA
Found at i:39109258 original size:27 final size:27
Alignment explanation
Indices: 39109210--39109368 Score: 148
Period size: 27 Copynumber: 5.9 Consensus size: 27
39109200 GCGAGGCTGC
* *
39109210 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
39109237 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
39109263 CAGATACATGTGGCAGAGCCACCAGAT-
1 CAGATA-TTGTGGCAGAGCCACCAGATA
** *
39109290 CAGATAATCATGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
39109317 TAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* **
39109344 TAGATAATTGTGGCATTGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
39109369 GACGCTTCCT
Statistics
Matches: 111, Mismatches: 13, Indels: 16
0.79 0.09 0.11
Matches are distributed among these distances:
26 9 0.08
27 98 0.88
28 4 0.04
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:39109358 original size:54 final size:54
Alignment explanation
Indices: 39109228--39109368 Score: 203
Period size: 54 Copynumber: 2.6 Consensus size: 54
39109218 GTGACGAAGT
*
39109228 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATACATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATACATGTGGCAGAGC
** * *
39109282 CACCAGATCAGATAATCATGGCATAGCCACCAGAATAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATACATGTGGCAGAGC
* *
39109336 CACCAGATTAGATAATTGTGGCATTGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
39109369 GACGCTTCCT
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
53 5 0.06
54 72 0.94
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATACATGTGGCAGAGC
Found at i:39111014 original size:26 final size:26
Alignment explanation
Indices: 39110979--39111086 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
39110969 TGAAATGCCC
*
39110979 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
39111005 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
39111031 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
39111057 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
39111083 ATCA
1 ATCA
39111087 ATTTTTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:39113275 original size:6 final size:6
Alignment explanation
Indices: 39113263--39113379 Score: 62
Period size: 6 Copynumber: 18.8 Consensus size: 6
39113253 TACCAGAACT
* * * *
39113263 AGAATC AGGATC AGAATC AGAATT AG-GTGAC AGAATC AAAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* * *
39113312 AGTATC AGTATC AGGTAA-C AGAATC AAAATC AGAATC A-ATATC AGGTAA-C
1 AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC AGA-ATC A-G-AATC
*
39113362 AGAATC AAAAATC AGAAT
1 AGAATC -AGAATC AGAAT
39113380 GTGAATGCAA
Statistics
Matches: 85, Mismatches: 14, Indels: 24
0.69 0.11 0.20
Matches are distributed among these distances:
5 6 0.07
6 63 0.74
7 12 0.14
8 3 0.04
9 1 0.01
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:39113306 original size:37 final size:37
Alignment explanation
Indices: 39113265--39113379 Score: 134
Period size: 37 Copynumber: 3.2 Consensus size: 37
39113255 CCAGAACTAG
* * *
39113265 AATCAGGATCAGAATCAGAATTAGGTGACAGAATCAA
1 AATCAGAATCAGAATCAGAATCAGGTAACAGAATCAA
* *
39113302 AATCAGAATCAGTATCAGTATCAGGTAACAGAATCAA
1 AATCAGAATCAGAATCAGAATCAGGTAACAGAATCAA
39113339 AATCAGAATC--AAT----ATCAGGTAACAGAATCAAA
1 AATCAGAATCAGAATCAGAATCAGGTAACAGAATC-AA
39113371 AATCAGAAT
1 AATCAGAAT
39113380 GTGAATGCAA
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
31 16 0.23
32 11 0.15
35 2 0.03
37 42 0.59
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.20
Consensus pattern (37 bp):
AATCAGAATCAGAATCAGAATCAGGTAACAGAATCAA
Found at i:39113307 original size:31 final size:32
Alignment explanation
Indices: 39113263--39113379 Score: 130
Period size: 31 Copynumber: 3.5 Consensus size: 32
39113253 TACCAGAACT
** *
39113263 AGAATCAGGATCAGAATCAGA-ATTAGGTGAC
1 AGAATCAAAATCAGAATCAGATATTAGGTAAC
39113294 AGAATCAAAATCAGAATCAGTATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAG-AT-A-T-T-AGGTAAC
*
39113331 AGAATCAAAATCAGAATCA-ATATCAGGTAAC
1 AGAATCAAAATCAGAATCAGATATTAGGTAAC
39113362 AGAATCAAAAATCAGAAT
1 AGAATC-AAAATCAGAAT
39113380 GTGAATGCAA
Statistics
Matches: 75, Mismatches: 4, Indels: 13
0.82 0.04 0.14
Matches are distributed among these distances:
31 31 0.41
32 12 0.16
33 1 0.01
34 2 0.03
35 3 0.04
36 1 0.01
37 25 0.33
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.20
Consensus pattern (32 bp):
AGAATCAAAATCAGAATCAGATATTAGGTAAC
Found at i:39113558 original size:27 final size:26
Alignment explanation
Indices: 39113519--39113617 Score: 117
Period size: 27 Copynumber: 3.7 Consensus size: 26
39113509 CAGTTATCAA
* *
39113519 ATATTGTGACAGAGTCACCAAATACAG
1 ATATTGTGGCAGAGCCACCAAA-ACAG
*
39113546 ATATTGTGGCAGAGCCACCAGAACAG
1 ATATTGTGGCAGAGCCACCAAAACAG
*
39113572 ATATTTGTGGCATAGCCACCAGAAACAG
1 ATA-TTGTGGCAGAGCCACCA-AAACAG
* *
39113600 ATAATGTGGCAAAGCCAC
1 ATATTGTGGCAGAGCCAC
39113618 TTAACAGAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
26 7 0.11
27 48 0.76
28 8 0.13
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.19
Consensus pattern (26 bp):
ATATTGTGGCAGAGCCACCAAAACAG
Found at i:39113804 original size:22 final size:22
Alignment explanation
Indices: 39113776--39113840 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
39113766 GCAAATACGT
*
39113776 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
39113798 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
* *
39113820 TTGACACAAAGCAATAATCAG
1 TTGGCACAAAGCCATAATCAG
39113841 AAGGCTTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:39114314 original size:27 final size:27
Alignment explanation
Indices: 39114266--39114487 Score: 257
Period size: 27 Copynumber: 8.3 Consensus size: 27
39114256 GGGGCAAAAT
* * * *
39114266 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
39114292 GGTGATTCCACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
39114319 AGTAATTCTACCCTACAGGAGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
39114346 GATAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
39114373 AGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
39114400 GATAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
39114427 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
39114454 GGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
39114481 GGTAATT
1 GGTAATT
39114488 TTCTAAATCG
Statistics
Matches: 163, Mismatches: 32, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
26 13 0.08
27 150 0.92
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:39114514 original size:81 final size:79
Alignment explanation
Indices: 39114345--39114516 Score: 193
Period size: 81 Copynumber: 2.1 Consensus size: 79
39114335 AGGAGTATTG
* *
39114345 CGATAATTCTACCTTACAAGGGTATTTCAGTAATTCTACCTTATAGGGGTATTTCGATAATTTTA
1 CGATAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGATAATTTT-
* ***
39114410 CCCTACAGGGGTATTT
65 -CCTAAAGGGGTAAAA
* * * * *
39114426 CGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTTGGTAATTTT-
1 CGATAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGATAATTTTC
39114490 CTAAATCGAGGGTAAAA
66 CTAAA--G-GGGTAAAA
39114507 CGATAATTCT
1 CGATAATTCT
39114517 GTAAATCAAG
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
78 4 0.05
80 1 0.01
81 71 0.93
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (79 bp):
CGATAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGATAATTTTC
CTAAAGGGGTAAAA
Found at i:39114873 original size:27 final size:27
Alignment explanation
Indices: 39114526--39114866 Score: 373
Period size: 27 Copynumber: 12.6 Consensus size: 27
39114516 TGTAAATCAA
* **
39114526 GGGTACTTTGGTAATTTTACAAGTC-G
1 GGGTATTTTGGTAATTTTACAAACCAG
*** **
39114552 AGGGTATTTCAATAATTTTACAAGTC-G
1 -GGGTATTTTGGTAATTTTACAAACCAG
* * ** *
39114579 AGGGTATTTTAGTAATTTCACAAATTAA
1 -GGGTATTTTGGTAATTTTACAAACCAG
* * *
39114607 GGGTAGTTTGGTAATTTAACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
39114634 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
39114661 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
39114688 GGGTATTTTTGGTAATTTTACAAACCAG
1 GGGTA-TTTTGGTAATTTTACAAACCAG
*
39114716 GGGTATTTTGGTAATTTTACAAACTA-
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
39114742 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
39114769 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
39114796 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* **
39114823 GGGTATTTTAGCGATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
39114850 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
39114867 GGTAAACTAA
Statistics
Matches: 271, Mismatches: 40, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
26 24 0.09
27 221 0.82
28 26 0.10
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:39118965 original size:43 final size:43
Alignment explanation
Indices: 39118906--39119049 Score: 252
Period size: 43 Copynumber: 3.3 Consensus size: 43
39118896 TACTATAATG
*
39118906 GCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTAATTG
1 GCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTAATTA
39118949 GCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTAATTA
1 GCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTAATTA
* * *
39118992 GCACTAAGTGTGAGACACAATTATAGCTTCGGTTAATTAATTA
1 GCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTAATTA
39119035 GCACTAAGTGTGCGA
1 GCACTAAGTGTGCGA
39119050 GTTCGTTGAA
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 96 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (43 bp):
GCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTAATTA
Found at i:39132660 original size:43 final size:43
Alignment explanation
Indices: 39132613--39132725 Score: 113
Period size: 42 Copynumber: 2.7 Consensus size: 43
39132603 CCTCGATTGA
* **
39132613 GATTTACGTATAAGACCATGTCTAGGACATTGGCATC-ATATCT
1 GATTTACGTGTAAGACCATGTCTAGGACAGAGGCATCGATAT-T
* * * *
39132656 GATTT-CGTGTAAGACCCTATCTGGGACGGAGGCATCGATATT
1 GATTTACGTGTAAGACCATGTCTAGGACAGAGGCATCGATATT
* * *
39132698 GAATTACATGTAAGACCACGTCTAGGAC
1 GATTTACGTGTAAGACCATGTCTAGGAC
39132726 GTCAACATTG
Statistics
Matches: 55, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
42 29 0.53
43 26 0.47
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (43 bp):
GATTTACGTGTAAGACCATGTCTAGGACAGAGGCATCGATATT
Found at i:39132726 original size:43 final size:42
Alignment explanation
Indices: 39132623--39132726 Score: 95
Period size: 43 Copynumber: 2.5 Consensus size: 42
39132613 GATTTACGTA
* *** * *
39132623 TAAGACCATGTCTAGGACATTGGCATCATATCTGATTTCGTG
1 TAAGACCACGTCTAGGACGGAGGCATCATATCTGATTACATG
* *
39132665 TAAGACC-CTATCTGGGACGGAGGCATCGATAT-TGAATTACATG
1 TAAGACCAC-GTCTAGGACGGAGGCATC-ATATCTG-ATTACATG
39132708 TAAGACCACGTCTAGGACG
1 TAAGACCACGTCTAGGACG
39132727 TCAACATTGT
Statistics
Matches: 48, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
42 22 0.46
43 25 0.52
44 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (42 bp):
TAAGACCACGTCTAGGACGGAGGCATCATATCTGATTACATG
Found at i:39135810 original size:48 final size:48
Alignment explanation
Indices: 39135754--39135852 Score: 180
Period size: 48 Copynumber: 2.1 Consensus size: 48
39135744 GCGTAAAGCG
*
39135754 TAAAAGTTCCATACTATTAGTTAAAGGTGTTAATTGACCTTGGATTTT
1 TAAAAGTTCCATACTATTAGTTAAAGGTGTTAATTGACCATGGATTTT
*
39135802 TAAAAGTTCCATGCTATTAGTTAAAGGTGTTAATTGACCATGGATTTT
1 TAAAAGTTCCATACTATTAGTTAAAGGTGTTAATTGACCATGGATTTT
39135850 TAA
1 TAA
39135853 TATAATGGCC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.40
Consensus pattern (48 bp):
TAAAAGTTCCATACTATTAGTTAAAGGTGTTAATTGACCATGGATTTT
Found at i:39136919 original size:87 final size:86
Alignment explanation
Indices: 39136828--39137010 Score: 203
Period size: 86 Copynumber: 2.1 Consensus size: 86
39136818 TGAGATTGTA
* * * *
39136828 ATAGCATT-GGCTGAGTAAATGGAACTATA-TGGGTGACACCGA-TATAACTTCGGTTTAATATA
1 ATAGC-TTCGGCTAAGTAAATGGAACTA-AGTGGGCGACA-CAATTATAACTTCGG-CTAAT-TA
39136890 A-TGGCACTAAGTGTGCGATACAATT
61 ATTGGCACTAAGTGTGCGATACAATT
* * * * * *
39136915 ATAGCTTCGGCTAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTAATTGG
1 ATAGCTTCGGCTAAGTAAATGGAACTAAGTGGGCGACACAATTATAACTTCGGCTAATTAATTGG
39136980 CACTAAGTGTGCGATACAATT
66 CACTAAGTGTGCGATACAATT
39137001 ATAGCTTCGG
1 ATAGCTTCGG
39137011 TTAATTAAGT
Statistics
Matches: 82, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
85 3 0.04
86 43 0.52
87 36 0.44
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.31
Consensus pattern (86 bp):
ATAGCTTCGGCTAAGTAAATGGAACTAAGTGGGCGACACAATTATAACTTCGGCTAATTAATTGG
CACTAAGTGTGCGATACAATT
Found at i:39136939 original size:43 final size:43
Alignment explanation
Indices: 39136883--39137033 Score: 259
Period size: 43 Copynumber: 3.5 Consensus size: 43
39136873 AACTTCGGTT
39136883 TAATATAA-TGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
1 TAAT-TAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
39136926 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
1 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
*
39136969 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGT
1 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
* *
39137012 TAATTAAGTAGCACTAAGTGTG
1 TAATTAATTGGCACTAAGTGTG
39137034 TGAGTTAGTT
Statistics
Matches: 104, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
42 3 0.03
43 101 0.97
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (43 bp):
TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
Found at i:39145379 original size:6 final size:6
Alignment explanation
Indices: 39145335--39145382 Score: 51
Period size: 6 Copynumber: 7.5 Consensus size: 6
39145325 AAAACTATCT
* *
39145335 AAAGAT AAAGAA AATAAAA TAATAGAA AAAGAA AAAGAA AAAGAA AAA
1 AAAGAA AAAGAA AA-AGAA -AA-AGAA AAAGAA AAAGAA AAAGAA AAA
39145383 TTTTTAAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
6 26 0.70
7 5 0.14
8 6 0.16
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.08
Consensus pattern (6 bp):
AAAGAA
Found at i:39149303 original size:40 final size:41
Alignment explanation
Indices: 39149253--39149349 Score: 121
Period size: 40 Copynumber: 2.4 Consensus size: 41
39149243 TATCTCGGTA
39149253 TCGCACACTTAGTGCC-TCATATAG-TCGAAGCTA-TTCCAAC
1 TCGCACACTTAGTGCCAT-ATATAGCT-GAAGCTATTTCCAAC
* * *
39149293 TCGCACACTTAGTGCCATTTGTAGCTGAAGCTATTTCGAAC
1 TCGCACACTTAGTGCCATATATAGCTGAAGCTATTTCCAAC
39149334 -CGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
39149350 AACATAGTTG
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
40 43 0.84
41 8 0.16
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.28
Consensus pattern (41 bp):
TCGCACACTTAGTGCCATATATAGCTGAAGCTATTTCCAAC
Found at i:39150148 original size:16 final size:16
Alignment explanation
Indices: 39150108--39150140 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
39150098 TTACTTTGGT
*
39150108 TTTA-TTTAATTAACC
1 TTTATTTTATTTAACC
39150123 TTTATTTTATTTAACC
1 TTTATTTTATTTAACC
39150139 TT
1 TT
39150141 ATTATTATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTATTTTATTTAACC
Found at i:39156758 original size:40 final size:40
Alignment explanation
Indices: 39156705--39156799 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 40
39156695 ATCGCGGTAT
* *
39156705 CGCAAACTTAGTGCC-TAATATAGCCGAAGCTA-TTCCAAC
1 CGCACACTTAGTGCCAT-ATATAGCCGAAGCTATTTCAAAC
* * * *
39156744 TTGCACACTTAGTGCCATTTGTAGCTGAAGCTATTTCAAAC
1 -CGCACACTTAGTGCCATATATAGCCGAAGCTATTTCAAAC
39156785 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
39156800 GAACATAGTC
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
40 39 0.85
41 7 0.15
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.27
Consensus pattern (40 bp):
CGCACACTTAGTGCCATATATAGCCGAAGCTATTTCAAAC
Found at i:39175149 original size:19 final size:19
Alignment explanation
Indices: 39175125--39175164 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
39175115 GATTTATAAA
39175125 TGTTTATTAGTTATTTAAT
1 TGTTTATTAGTTATTTAAT
39175144 TGTTTATTAGTTATTTAAT
1 TGTTTATTAGTTATTTAAT
39175163 TG
1 TG
39175165 CTATGAATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.25, C:0.00, G:0.12, T:0.62
Consensus pattern (19 bp):
TGTTTATTAGTTATTTAAT
Found at i:39175377 original size:43 final size:42
Alignment explanation
Indices: 39175284--39175450 Score: 167
Period size: 43 Copynumber: 3.9 Consensus size: 42
39175274 GATTATCGAG
* *
39175284 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGT
1 ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGT
*
39175326 ATTGTGATTACATGTAAGACCATGTCTAGGACATTAGCATCGTT
1 A-TGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCG-T
* * * * * *
39175370 ATATGATTTCGTATAAGACTC-TGTCTAGGAAAGTGGCATCGAT
1 ATGTGATTACATGTAAGAC-CATGTCTAGGACATTGGCATCG-T
* * * *
39175413 ATGTGATAACATGTAAGACCGTATCTAGGATA-TGGCAT
1 ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCAT
39175451 TGTACGAGCT
Statistics
Matches: 103, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
42 8 0.08
43 92 0.89
44 3 0.03
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.32
Consensus pattern (42 bp):
ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGT
Found at i:39182296 original size:55 final size:54
Alignment explanation
Indices: 39182161--39182363 Score: 230
Period size: 54 Copynumber: 3.8 Consensus size: 54
39182151 TGACATTTGG
* * * *
39182161 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
1 TAAGACAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTA
* * * * *
39182215 TAAGTCAAGGAAATCATGTAAGACCATGTCAAGATATGGCATTGATGAGTTACTA
1 TAAGACAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTA
* * * *
39182270 TAAGACAAAGG-TCCCATGTAAGACCATGCCAAGGCATGACATTGGTGAGTTC-A
1 TAAGAC-AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTA
* * *
39182323 TAAGGCAAGGATACCATGTAAGACCATGTCATGACATGGCA
1 TAAGACAAGGATACCATGTAAGACCATGCCAAGACATGGCA
39182364 ATGGTAAGTT
Statistics
Matches: 124, Mismatches: 22, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
52 4 0.03
53 31 0.25
54 45 0.36
55 40 0.32
56 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.24
Consensus pattern (54 bp):
TAAGACAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTA
Found at i:39184945 original size:47 final size:47
Alignment explanation
Indices: 39184880--39185103 Score: 253
Period size: 47 Copynumber: 4.8 Consensus size: 47
39184870 ACATTATGAA
*
39184880 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGACGAG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TTGAGACGAG
* *
39184928 AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGTA-
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTTGAGACG-AG
* *
39184974 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTATGAGATGAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCT-TGAGACGAG
** * * *
39185020 ATTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTAAGA-TATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGACGA-G
* *
39185067 AGCCAGTGTAAGACCATGTCTGGGACACGGTATCGGC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
39185104 ACCTTACCCA
Statistics
Matches: 152, Mismatches: 17, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
45 3 0.02
46 64 0.42
47 65 0.43
48 20 0.13
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (47 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGACGAG
Found at i:39184971 original size:46 final size:47
Alignment explanation
Indices: 39184880--39185093 Score: 242
Period size: 46 Copynumber: 4.6 Consensus size: 47
39184870 ACATTATGAA
* *
39184880 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGACGAG
1 AGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTTGAGACGAG
* *
39184928 AGCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCTCGAGACGTA-
1 AGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTTGAGACG-AG
* *
39184974 AGCCAGTGTAAGA-CATGTCTGGGACATGCATCGG-CTATGAGATGAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCT-TGAGACGAG
** * * *
39185020 ATTCAGTGTAAGACCATGTCTGGGACATGGCATC-GACTTAAGA-TATG
1 AGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTTGAGACGA-G
39185067 AGCCAGTGTAAGACCATGTCTGGGACA
1 AGCCAGTGTAAGACCATGTCTGGGACA
39185094 CGGTATCGGC
Statistics
Matches: 145, Mismatches: 14, Indels: 15
0.83 0.08 0.09
Matches are distributed among these distances:
45 3 0.02
46 65 0.45
47 58 0.40
48 19 0.13
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (47 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTTGAGACGAG
Found at i:39185043 original size:93 final size:94
Alignment explanation
Indices: 39184879--39185104 Score: 273
Period size: 93 Copynumber: 2.4 Consensus size: 94
39184869 CACATTATGA
*
39184879 AAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACAT
1 AAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACAT
* * *
39184944 GTCTGGGACAT-GCATCGGCCTCGAGACGT
66 GTCTGGGACATGGCATC-GACTCAAGACAT
* * *
39184973 AAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TATGAGATGATA-TTCAGTGTAAGAC
1 AAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-TGAGACGAGAGCT-AGTGTAAGA-
* *
39185034 CATGTCTGGGACATGGCATCGACTTAAGATAT
63 CATGTCTGGGACATGGCATCGACTCAAGACAT
* * *
39185066 GAGCCAGTGTAAGACCATGTCTGGGACACGGTATCGGCA
1 AAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
39185105 CCTTACCCAC
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
91 2 0.02
92 25 0.22
93 47 0.42
94 32 0.28
95 7 0.06
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (94 bp):
AAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACAT
GTCTGGGACATGGCATCGACTCAAGACAT
Found at i:39187226 original size:38 final size:38
Alignment explanation
Indices: 39187183--39187391 Score: 157
Period size: 38 Copynumber: 5.0 Consensus size: 38
39187173 TTTCAAATTA
*
39187183 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
* *
39187221 ACATGTTTAACTGTGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACG-T--T
* * *
39187262 GAATCAATATATGTAACTGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGTATATCCACTTAGCACCACGTT
*
39187306 ACATGTATCAATATGTGTAATCGTGGTATATCCACTTAGCACCACGTT
1 ACATG------TA----TAACCGTGGTATATCCACTTAGCACCACGTT
* * *
39187354 ACACGTATAACAGTGGTATATCTACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
39187392 TTTTTCATTC
Statistics
Matches: 140, Mismatches: 14, Indels: 34
0.74 0.07 0.18
Matches are distributed among these distances:
38 61 0.44
39 1 0.01
40 2 0.01
41 2 0.01
42 3 0.02
43 1 0.01
44 2 0.01
45 3 0.02
46 3 0.02
47 28 0.20
48 34 0.24
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (38 bp):
ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
Found at i:39187337 original size:48 final size:48
Alignment explanation
Indices: 39187228--39187361 Score: 209
Period size: 48 Copynumber: 2.8 Consensus size: 48
39187218 GTTACATGTT
*
39187228 TAACTGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATG
1 TAACTGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
* *
39187275 TAACTGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTG
1 TAACTGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
*
39187323 TAA-TCGTGGTATATCCACTTAGCACCACGTTACACGTAT
1 TAACT-GTGGTATATCCACTTAGCACCACGTTACATGTAT
39187362 AACAGTGGTA
Statistics
Matches: 80, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
47 32 0.40
48 48 0.60
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (48 bp):
TAACTGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
Found at i:39189993 original size:18 final size:19
Alignment explanation
Indices: 39189966--39190003 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
39189956 TTTATAGTTT
39189966 TAAATAATTTTGGGTAAAA
1 TAAATAATTTTGGGTAAAA
*
39189985 TAAAT-ATTTTGGGTCAAA
1 TAAATAATTTTGGGTAAAA
39190003 T
1 T
39190004 TATAATTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.42, C:0.03, G:0.16, T:0.39
Consensus pattern (19 bp):
TAAATAATTTTGGGTAAAA
Found at i:39194051 original size:28 final size:29
Alignment explanation
Indices: 39193992--39194059 Score: 111
Period size: 28 Copynumber: 2.4 Consensus size: 29
39193982 TCAAGCCATA
* *
39193992 TGGGTCATATGAATGTGATTTGGGCCTAG
1 TGGGCCATATGAATGAGATTTGGGCCTAG
39194021 TGGGCCATATGAATGAGA-TTGGGCCTAG
1 TGGGCCATATGAATGAGATTTGGGCCTAG
39194049 TGGGCCATATG
1 TGGGCCATATG
39194060 CATGTATGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
28 21 0.57
29 16 0.43
ACGTcount: A:0.22, C:0.13, G:0.35, T:0.29
Consensus pattern (29 bp):
TGGGCCATATGAATGAGATTTGGGCCTAG
Found at i:39194423 original size:27 final size:27
Alignment explanation
Indices: 39194358--39194424 Score: 109
Period size: 26 Copynumber: 2.5 Consensus size: 27
39194348 GTAATAAAGG
*
39194358 AAAATTACCAAAATACCCTCGACCTAT
1 AAAATTACCGAAATACCCTCGACCTAT
*
39194385 -AAATTACCGAAATACCCTCGACTTAT
1 AAAATTACCGAAATACCCTCGACCTAT
39194411 AAAATTACCGAAAT
1 AAAATTACCGAAAT
39194425 GCCCCTAAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 24 0.65
27 13 0.35
ACGTcount: A:0.45, C:0.25, G:0.06, T:0.24
Consensus pattern (27 bp):
AAAATTACCGAAATACCCTCGACCTAT
Found at i:39203707 original size:11 final size:11
Alignment explanation
Indices: 39203691--39203732 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
39203681 TTTGAGTCCA
39203691 TTTATTTTTAC
1 TTTATTTTTAC
39203702 TTTATTTTT-C
1 TTTATTTTTAC
*
39203712 TTTTATTTTTAT
1 -TTTATTTTTAC
39203724 TTCTATTTT
1 TT-TATTTT
39203733 CAATTTTCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 1 0.04
11 20 0.74
12 6 0.22
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTATTTTTAC
Done.