Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 241 of 425
Found at i:73778114 original size:35 final size:35
Alignment explanation
Indices: 73778069--73778140 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
73778059 TTCCTTTAAC
73778069 TATTATTTATTTTTGGGTTGTAATAAGGCCAATTT
1 TATTATTTATTTTTGGGTTGTAATAAGGCCAATTT
73778104 TATTATTTATTTTTGGGTTGTAATAAGGCCAATTT
1 TATTATTTATTTTTGGGTTGTAATAAGGCCAATTT
73778139 TA
1 TA
73778141 ACTTTTCTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.26, C:0.06, G:0.17, T:0.51
Consensus pattern (35 bp):
TATTATTTATTTTTGGGTTGTAATAAGGCCAATTT
Found at i:73782747 original size:40 final size:40
Alignment explanation
Indices: 73782692--73782916 Score: 283
Period size: 40 Copynumber: 5.6 Consensus size: 40
73782682 TATTCGGATG
73782692 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
73782732 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* *
73782775 ATA-CTCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATC-CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
73782815 ATTTCCGGGCTAAGACCCGAAGGCATGTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * * *
73782855 ATATCCGGGTTAAGTCCCGACGGCATTTGTGCGAGTTGCG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
73782895 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
73782917 TACTTGGTTT
Statistics
Matches: 161, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
39 13 0.08
40 109 0.68
41 2 0.01
42 1 0.01
43 36 0.22
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:73782836 original size:83 final size:80
Alignment explanation
Indices: 73782692--73782916 Score: 278
Period size: 83 Copynumber: 2.8 Consensus size: 80
73782682 TATTCGGATG
* *
73782692 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
73782757 TTTGTGCGAGTAGTTGCT
66 TGTGTGC--G-AGTTACT
* *
73782775 ATA-CTCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATTTCCGGGCTAAGACCCGAAGGC
1 ATATC-CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGC
73782839 ATGTGTGCGAGTTACT
65 ATGTGTGCGAGTTACT
* * * *
73782855 ATATCCGGGTTAAGTCCCGACGGCATTTGTGCGAGTTG-CGATATCC-GGCTAA-ATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGA-CCCGAAGG
73782917 TACTTGGTTT
Statistics
Matches: 127, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
78 1 0.01
79 14 0.11
80 42 0.33
81 4 0.03
82 1 0.01
83 65 0.51
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TGTGTGCGAGTTACT
Found at i:73786498 original size:48 final size:48
Alignment explanation
Indices: 73786440--73786756 Score: 306
Period size: 48 Copynumber: 6.6 Consensus size: 48
73786430 TGTGTGCTAC
* *
73786440 TGTAAGACCATGTCTAGGACATGGCATCGGCCACGATATGAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCATGATATGAGAGCCAG
* * * * *
73786488 TGTAAGACCATGTTTAGAACATGGCATCGACAATG-TAATGAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCATGAT-ATGAGAGCCAG
** * * * *
73786536 TGTAAGACCATGTCTGGGACATGGTTTCAG-CATTGATATGTGCGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCA-TGATATGAGAGCCAG
* *
73786584 TGTAAGACCATGTCTGGGACATGGCATTGGCCAT-ATTATGAGAGCCAA
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCATGA-TATGAGAGCCAG
* * * *
73786632 TGTAA-ACCCATGTCTGGGACATGGCATCTG-TATTGAGATGAGAGCTAG
1 TGTAAGA-CCATGTCTGGGACATGGCATCGGCCA-TGATATGAGAGCCAG
* * *
73786680 TGTAAGACCATGTCTGGGACATGGCATCGGCC-TCAACAT-ATGAGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCAT-GATATGA-GAGCCAG
* *
73786728 TGTAAGACCATGTTTGGAACATGGCATCG
1 TGTAAGACCATGTCTGGGACATGGCATCG
73786757 ACAATTCACC
Statistics
Matches: 219, Mismatches: 38, Indels: 24
0.78 0.14 0.09
Matches are distributed among these distances:
47 7 0.03
48 207 0.95
49 5 0.02
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCCATGATATGAGAGCCAG
Found at i:73786687 original size:144 final size:144
Alignment explanation
Indices: 73786427--73786703 Score: 382
Period size: 144 Copynumber: 1.9 Consensus size: 144
73786417 CATTTGGGTA
* *
73786427 ATATGTGTGCTACTGTAAGACCATGTCTAGGACATGGCATCGGCCACGATATGAGAGCCAGTGTA
1 ATATGTGCGCTACTGTAAGACCATGTCTAGGACATGGCATCGGCCACGATATGAGAGCCAATGTA
*
73786492 AGACCATGTTTAGAACATGGCATCGACAATGTAATGAGAGCCAGTGTAAGACCATGTCTGGGACA
66 AGACCATGTCTAGAACATGGCATCGACAATGTAATGAGAGCCAGTGTAAGACCATGTCTGGGACA
73786557 TGGTTTCAGCATTG
131 TGGTTTCAGCATTG
* * * *
73786571 ATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCA-TATTATGAGAGCCAATGT
1 ATATGTGCGCTACTGTAAGACCATGTCTAGGACATGGCATCGGCCACGA-TATGAGAGCCAATGT
* * * * *
73786635 AA-ACCCATGTCTGGGACATGGCATCTG-TATTG-AGATGAGAGCTAGTGTAAGACCATGTCTGG
65 AAGA-CCATGTCTAGAACATGGCATC-GACAATGTA-ATGAGAGCCAGTGTAAGACCATGTCTGG
73786697 GACATGG
127 GACATGG
73786704 CATCGGCCTC
Statistics
Matches: 117, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
143 3 0.03
144 113 0.97
145 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (144 bp):
ATATGTGCGCTACTGTAAGACCATGTCTAGGACATGGCATCGGCCACGATATGAGAGCCAATGTA
AGACCATGTCTAGAACATGGCATCGACAATGTAATGAGAGCCAGTGTAAGACCATGTCTGGGACA
TGGTTTCAGCATTG
Found at i:73786730 original size:144 final size:144
Alignment explanation
Indices: 73786435--73786756 Score: 366
Period size: 144 Copynumber: 2.2 Consensus size: 144
73786425 TAATATGTGT
* * *
73786435 GCTACTGTAAGACCATGTCTAGGACATGGCATCGGCCACGATATGAGAGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAATGTAAGACCATG
* **
73786500 TTTAGAACATGGCATCGACAATGTAATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGTTTCA
66 TCTAGAACATGGCATCGACAATGTAATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCA
** * * *
73786565 GCATTGATATGTGC
131 GCATCAACATATGA
* *
73786579 GCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCA-TATTATGAGAGCCAATGTAA-ACCCA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGA-TATGAGAGCCAATGTAAGA-CCA
* * * * *
73786642 TGTCTGGGACATGGCATCTG-TATTG-AGATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGC
64 TGTCTAGAACATGGCATC-GACAATGTA-ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGC
* *
73786705 ATCGGCCTCAACATATGA
127 ATCAGCATCAACATATGA
* *
73786723 G-TCAGTGTAAGACCATGTTTGGAACATGGCATCG
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCG
73786757 ACAATTCACC
Statistics
Matches: 150, Mismatches: 23, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
143 4 0.03
144 145 0.97
145 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (144 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAATGTAAGACCATG
TCTAGAACATGGCATCGACAATGTAATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCA
GCATCAACATATGA
Found at i:73787024 original size:18 final size:18
Alignment explanation
Indices: 73787001--73787035 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
73786991 GTTTATACCT
73787001 GTGATATATAAGCATGTA
1 GTGATATATAAGCATGTA
* *
73787019 GTGATATCTACGCATGT
1 GTGATATATAAGCATGT
73787036 TCACTCAAGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.34
Consensus pattern (18 bp):
GTGATATATAAGCATGTA
Found at i:73788392 original size:27 final size:27
Alignment explanation
Indices: 73788347--73788404 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 27
73788337 ATTTAAGATG
73788347 TGTCTTAGTTTATTACTTGTGTTTAATA
1 TGTCTTAGTTTATTACTTGT-TTTAATA
*
73788375 TGTCTTAG-TTATTACTTGTTTTAATG
1 TGTCTTAGTTTATTACTTGTTTTAATA
73788401 TGTC
1 TGTC
73788405 CTAGCTGAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 10 0.34
27 11 0.38
28 8 0.28
ACGTcount: A:0.19, C:0.09, G:0.16, T:0.57
Consensus pattern (27 bp):
TGTCTTAGTTTATTACTTGTTTTAATA
Found at i:73788960 original size:10 final size:10
Alignment explanation
Indices: 73788929--73788963 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
73788919 CTGGAGAAGC
73788929 TTTCTGGAAT
1 TTTCTGGAAT
*
73788939 TTTCTTGAAAT
1 TTTC-TGGAAT
73788950 TTTCTGGAAT
1 TTTCTGGAAT
73788960 TTTC
1 TTTC
73788964 AGCTCATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.20, C:0.11, G:0.14, T:0.54
Consensus pattern (10 bp):
TTTCTGGAAT
Found at i:73793470 original size:27 final size:27
Alignment explanation
Indices: 73793425--73793482 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 27
73793415 ATTTAAGATG
73793425 TGTCTTAGTTTATTACTTGTGTTTAATA
1 TGTCTTAGTTTATTACTTGT-TTTAATA
*
73793453 TGTCTTAG-TTATTACTTGTTTTAATG
1 TGTCTTAGTTTATTACTTGTTTTAATA
73793479 TGTC
1 TGTC
73793483 CTAGCTGAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 10 0.34
27 11 0.38
28 8 0.28
ACGTcount: A:0.19, C:0.09, G:0.16, T:0.57
Consensus pattern (27 bp):
TGTCTTAGTTTATTACTTGTTTTAATA
Found at i:73811410 original size:30 final size:30
Alignment explanation
Indices: 73811355--73811485 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
73811345 ATAGTGAATC
*
73811355 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
73811384 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
73811414 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
73811442 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
73811472 CGCACACTTAGTGC
1 CGCACACTTAGTGC
73811486 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:73811465 original size:58 final size:58
Alignment explanation
Indices: 73811354--73811485 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
73811344 TATAGTGAAT
* * * * *
73811354 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
73811413 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
73811471 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
73811486 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:73819364 original size:30 final size:30
Alignment explanation
Indices: 73819309--73819439 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
73819299 ATAGTGAATC
*
73819309 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
73819338 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
73819368 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
73819396 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
73819426 CGCACACTTAGTGC
1 CGCACACTTAGTGC
73819440 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:73819419 original size:58 final size:58
Alignment explanation
Indices: 73819308--73819439 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
73819298 TATAGTGAAT
* * * * *
73819308 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
73819367 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
73819425 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
73819440 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:73826006 original size:8 final size:8
Alignment explanation
Indices: 73825993--73826020 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
73825983 GGGGTTAATT
73825993 TGTGAAAA
1 TGTGAAAA
73826001 TGTGAAAA
1 TGTGAAAA
73826009 TGTGAAAA
1 TGTGAAAA
73826017 TGTG
1 TGTG
73826021 TGGTTAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (8 bp):
TGTGAAAA
Found at i:73826690 original size:42 final size:42
Alignment explanation
Indices: 73826580--73826683 Score: 109
Period size: 42 Copynumber: 2.5 Consensus size: 42
73826570 GAGATTTACG
* * ** *
73826580 TGTAAGACCATACCTGGGACATTGGCATCGTATATAATTTCG
1 TGTAAGACCATATCTGGGACAGTGGCATCGTATATAATAACA
* * * * *
73826622 TATAAGACCTTGTCTGGGACAGTGGCATCGATATTTGATAACA
1 TGTAAGACCATATCTGGGACAGTGGCATCG-TATATAATAACA
73826665 TGTAAGACCATATCTGGGA
1 TGTAAGACCATATCTGGGA
73826684 TATGGCAATG
Statistics
Matches: 48, Mismatches: 13, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
42 25 0.52
43 23 0.48
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGACAGTGGCATCGTATATAATAACA
Found at i:73826865 original size:21 final size:21
Alignment explanation
Indices: 73826839--73826885 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
73826829 GGTGAGTATG
* *
73826839 TTATAA-ATAATGGCATGTGAA
1 TTATAAGAGAATGGAATGTG-A
73826860 TTATAAGAGAATGGAATGTGA
1 TTATAAGAGAATGGAATGTGA
73826881 TTATA
1 TTATA
73826886 TGCAAGTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.43, C:0.02, G:0.21, T:0.34
Consensus pattern (21 bp):
TTATAAGAGAATGGAATGTGA
Found at i:73829227 original size:41 final size:40
Alignment explanation
Indices: 73829108--73829315 Score: 278
Period size: 40 Copynumber: 5.2 Consensus size: 40
73829098 CAGGATTTAA
* *
73829108 CCGGATATAG-CAAATAGCACAAATGCCTTTGGGACTTAGC
1 CCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGC
* * *
73829148 CCAGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGC
* *
73829188 CCGGATATAGTCGCTAGCACAAAATGCCTTCGGGTCTTAGC
1 CCGGATATAGTCACTAGCAC-AAATGCCTTCGGGACTTAGC
* *
73829229 CCGGATATCGTCACTAGCGCAAATGCCTTC-GGACTTAG-
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGC
*
73829267 CCGGATATAGTCACTAGCACAAAGTGCCTTCGGGTCTTAGC
1 CCGGATATAGTCACTAGCACAAA-TGCCTTCGGGACTTAGC
73829308 CCGGATAT
1 CCGGATAT
73829316 CATCCGAATA
Statistics
Matches: 146, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
38 21 0.14
39 14 0.10
40 67 0.46
41 44 0.30
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGC
Found at i:73829298 original size:79 final size:79
Alignment explanation
Indices: 73829094--73829316 Score: 288
Period size: 79 Copynumber: 2.8 Consensus size: 79
73829084 AACCCAAGTA
* * * * * * *
73829094 CCTTCAGGATTTAACCGGATATAG-CAAATAGCACAAATGCCTTTGGGACTTAGCCCAGATATAG
1 CCTTCAGGACTTAGCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATCG
*
73829158 TAACTCGCACAAATG
65 TAACTAGCACAAATG
* *
73829173 CCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAATGCCTTCGGGTCTTAGCCCGGATATC
1 CCTTCAGGACTTAG-CCGGATATAGTCACTAGCAC-AAATGCCTTCGGGTCTTAGCCCGGATATC
* *
73829238 GTCACTAGCGCAAATG
64 GTAACTAGCACAAATG
73829254 CCTTC-GGACTTAGCCGGATATAGTCACTAGCACAAAGTGCCTTCGGGTCTTAGCCCGGATATC
1 CCTTCAGGACTTAGCCGGATATAGTCACTAGCACAAA-TGCCTTCGGGTCTTAGCCCGGATATC
73829317 ATCCGAATAA
Statistics
Matches: 127, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
78 3 0.02
79 56 0.44
80 24 0.19
81 44 0.35
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.24
Consensus pattern (79 bp):
CCTTCAGGACTTAGCCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATCGT
AACTAGCACAAATG
Found at i:73833248 original size:40 final size:41
Alignment explanation
Indices: 73833201--73833384 Score: 234
Period size: 40 Copynumber: 4.6 Consensus size: 41
73833191 CTCGCACAAG
* *
73833201 GCCTTCGGGTCTTAGCCCGGATATGGTC-ACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCAACTAGCACAAAT
* * *
73833241 GCCTTCGGGACTTAGCCCGGATATAATCGA-TAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCAACTAGCACAAAT
73833281 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCA-CACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCAACT-AGCACAAAT
* * * *
73833321 GCCTTCGGATCTTAGTCCGGATATAGTC-ACTAGCATAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCAACTAGCACAAAT
*
73833361 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
73833385 CATTCGAATA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 3 0.02
40 119 0.95
41 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (41 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCAACTAGCACAAAT
Found at i:73833296 original size:80 final size:79
Alignment explanation
Indices: 73833165--73833384 Score: 261
Period size: 80 Copynumber: 2.8 Consensus size: 79
73833155 ACCCAAGTAT
* * * * *
73833165 CTTCGGGATTTAGCCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATGGTC
1 CTTCGGGACTTAGCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG-C
*
73833229 -ACT-AGCATAAATGC
65 AACTCA-CACAAATGC
*
73833243 CTTCGGGACTTAGCCCGGATATAATCGA-TAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CTTCGGGACTTAG-CCGGATATAATC-ACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG
73833307 CAACTCACACAAATGC
64 CAACTCACACAAATGC
* * *
73833323 CTTC-GGATCTTAGTCCGGATATAGTCACTAGCATAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGA-CTTAG-CCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
73833385 CATTCGAATA
Statistics
Matches: 124, Mismatches: 11, Indels: 12
0.84 0.07 0.08
Matches are distributed among these distances:
78 12 0.10
79 21 0.17
80 90 0.73
81 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (79 bp):
CTTCGGGACTTAGCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGCA
ACTCACACAAATGC
Found at i:73841904 original size:46 final size:46
Alignment explanation
Indices: 73841854--73842029 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
73841844 TGGTTGAGCA
*
73841854 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
73841900 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
73841945 CATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
73841993 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
73842030 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:73842010 original size:93 final size:93
Alignment explanation
Indices: 73841851--73842022 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
73841841 GGATGGTTGA
* *
73841851 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGGCCCGAACTCGTTGAGT
73841916 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
** *
73841944 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGGCCCGAACTCGTTGAGT
73842009 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
73842023 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:73859185 original size:29 final size:29
Alignment explanation
Indices: 73859094--73859225 Score: 131
Period size: 29 Copynumber: 4.6 Consensus size: 29
73859084 TACTCGATTT
** * *
73859094 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
73859123 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
**
73859152 CGCACACCCAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
73859181 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
73859210 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
73859226 ATCTCGTCAC
Statistics
Matches: 84, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
28 2 0.02
29 82 0.98
ACGTcount: A:0.26, C:0.34, G:0.17, T:0.23
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:73865403 original size:46 final size:45
Alignment explanation
Indices: 73865306--73865562 Score: 227
Period size: 46 Copynumber: 5.6 Consensus size: 45
73865296 AGCCGTGCCA
*
73865306 ATGCATGTCCCAGACATGTCTTACACTAGC-ACATCTCGTAGG-CG
1 ATGCATGTCCCAGACATGTCTTACACTAGCTACATCTC-AAGGCCG
* * * *
73865350 ATGCATGTCCTAGACATGTCTGACATTGGCTAACATCTCAAGGCCG
1 ATGCATGTCCCAGACATGTCTTACACTAGCT-ACATCTCAAGGCCG
* * * * * *
73865396 ATGCATGTCCTAGGCATGTCTTACACTCGCTTTCATACT-ATGGCTG
1 ATGCATGTCCCAGACATGTCTTACACTAGC-TACAT-CTCAAGGCCG
* * *
73865442 ATGCATGTCCCAGACATGTCTTACACTAGC-CCTTGCCTCAATGCCG
1 ATGCATGTCCCAGACATGTCTTACACTAGCTACAT--CTCAAGGCCG
* * **
73865488 ATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAAT-GTGGCCG
1 ATG-CATGTCCCAGACAT-GTCTTACACTAGCTA-CAT-CTCAAGGCCG
73865536 ATGCATGTCCCAGACATGTCTTACACT
1 ATGCATGTCCCAGACATGTCTTACACT
73865563 GGCACACAAA
Statistics
Matches: 173, Mismatches: 29, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
44 28 0.16
45 5 0.03
46 87 0.50
47 31 0.18
48 19 0.11
49 1 0.01
50 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (45 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCTACATCTCAAGGCCG
Found at i:73865543 original size:94 final size:92
Alignment explanation
Indices: 73865306--73865562 Score: 272
Period size: 94 Copynumber: 2.8 Consensus size: 92
73865296 AGCCGTGCCA
* * ** *
73865306 ATGCATGTCCCAGACATGTCTTACACTAGCACATC-TCGTA-GG-CGATGCATGTCCTAGACATG
1 ATGCATGTCCCAGACATGTCTTACACTCGC-TATCATAATATGGCCGATGCATGTCCCAGACATG
* * * **
73865368 TCTGACA-TTG-GCTAACATCTCAAGGCCG
65 TCTTACACTAGCCCTTGC--CTCAAGGCCG
* * * * *
73865396 ATGCATGTCCTAGGCATGTCTTACACTCGCTTTCATACTATGGCTGATGCATGTCCCAGACATGT
1 ATGCATGTCCCAGACATGTCTTACACTCGCTATCATAATATGGCCGATGCATGTCCCAGACATGT
*
73865461 CTTACACTAGCCCTTGCCTCAATGCCG
66 CTTACACTAGCCCTTGCCTCAAGGCCG
* *
73865488 ATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATGTGGCCGATGCATGTCCCAGACAT
1 ATG-CATGTCCCAGACAT-GTCTTACACTCGCTATCATAATATGGCCGATGCATGTCCCAGACAT
73865553 GTCTTACACT
64 GTCTTACACT
73865563 GGCACACAAA
Statistics
Matches: 138, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
89 2 0.01
90 30 0.22
91 2 0.01
92 36 0.26
93 14 0.10
94 54 0.39
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (92 bp):
ATGCATGTCCCAGACATGTCTTACACTCGCTATCATAATATGGCCGATGCATGTCCCAGACATGT
CTTACACTAGCCCTTGCCTCAAGGCCG
Found at i:73865558 original size:140 final size:136
Alignment explanation
Indices: 73865306--73865562 Score: 329
Period size: 140 Copynumber: 1.9 Consensus size: 136
73865296 AGCCGTGCCA
* * *
73865306 ATGCATGTCCCAGACATGTCTTACACTAGCACATCTCGTAGGCGATGCATGTCCTAGACATGTCT
1 ATGCATGTCCCAGACATGTCTTACACTAGCACATCTCATAGCCGATGCATGTCCCAGACATGTCT
* * * *
73865371 GACATTGGCTAACATCTCAAGGCCGATGCATGTCCTAGGCATGTCTTACACTCGCTTTCATACTA
66 GACACTGGCTAACATATCAAGGCCGATGCATGTCCCAGACATGTCTTACACTCGCTTTCATACTA
73865436 TGGCTG
131 TGGCTG
* *
73865442 ATGCATGTCCCAGACATGTCTTACACTAGCCCTTGCCTCA-ATGCCGATGCCATGTCCCAGACAT
1 ATGCATGTCCCAGACATGTCTTACACTAGCACAT--CTCATA-GCCGATG-CATGTCCCAGACAT
* * **
73865506 GGTCTTACACTGGCTATCATAAT-GTGGCCGATGCATGTCCCAGACATGTCTTACACT
62 -GTCTGACACTGGCTAACAT-ATCAAGGCCGATGCATGTCCCAGACATGTCTTACACT
73865563 GGCACACAAA
Statistics
Matches: 102, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
136 32 0.31
137 1 0.01
138 9 0.09
139 13 0.13
140 46 0.45
141 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (136 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCACATCTCATAGCCGATGCATGTCCCAGACATGTCT
GACACTGGCTAACATATCAAGGCCGATGCATGTCCCAGACATGTCTTACACTCGCTTTCATACTA
TGGCTG
Found at i:73875825 original size:40 final size:39
Alignment explanation
Indices: 73875619--73875839 Score: 298
Period size: 39 Copynumber: 5.6 Consensus size: 39
73875609 AATGTTCGAG
* *
73875619 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
73875658 TGATATCTGGGCTAAGCCCGAAGGCAATTGTGAGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
73875697 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
73875736 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
73875775 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
73875815 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
73875840 TGTTTTGAAC
Statistics
Matches: 163, Mismatches: 18, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 123 0.75
40 40 0.25
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:73883796 original size:39 final size:39
Alignment explanation
Indices: 73883738--73883889 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
73883728 GAATGTTCGA
*
73883738 GTGATATCC-GGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
73883776 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
73883815 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
73883854 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
73883890 GGTTACCATA
Statistics
Matches: 105, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
38 9 0.09
39 79 0.75
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:73883907 original size:78 final size:78
Alignment explanation
Indices: 73883747--73883918 Score: 229
Period size: 78 Copynumber: 2.2 Consensus size: 78
73883737 AGTGATATCC
73883747 GGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGA
1 GGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGA
** *
73883812 GCTATGATATCCG
66 GCTACCATATACG
* * *
73883825 GGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
* * *
73883890 GGTTACCATA-ACT
65 AGCTACCATATACG
*
73883903 GGCTATGTCCCGAAGG
1 GGCTAAG-CCCGAAGG
73883919 TGTTTTGAAC
Statistics
Matches: 82, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
78 51 0.62
79 31 0.38
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (78 bp):
GGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGA
GCTACCATATACG
Found at i:73886428 original size:21 final size:20
Alignment explanation
Indices: 73886390--73886428 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
73886380 TGGGCCGTAA
*
73886390 GCCCATTGGGCCCAATTTTG
1 GCCCATCGGGCCCAATTTTG
*
73886410 GCCCATCGAGGCCCTATTT
1 GCCCATCG-GGCCCAATTT
73886429 CCGAAGTACG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.15, C:0.33, G:0.23, T:0.28
Consensus pattern (20 bp):
GCCCATCGGGCCCAATTTTG
Found at i:73903730 original size:40 final size:40
Alignment explanation
Indices: 73903599--73903732 Score: 162
Period size: 40 Copynumber: 3.4 Consensus size: 40
73903589 GTTATTGTGG
* * * *
73903599 CACTTAGTGTGCGATATGACATAGCTTCGACTATATATAA
1 CACTTAGTGTGTGATTTGACATAGCTTCGGCTATATATGA
* * *
73903639 CACTTAGTGTGCT-ATTCGACATAGCTTTGGCTATATATGG
1 CACTTAGTGTG-TGATTTGACATAGCTTCGGCTATATATGA
* * *
73903679 CACTTAGTGTGTGATTTGAGATAGCTTCGGCTATGTACGA
1 CACTTAGTGTGTGATTTGACATAGCTTCGGCTATATATGA
73903719 CACTTAGTGTGTGA
1 CACTTAGTGTGTGA
73903733 GATATCATGG
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 1 0.01
40 78 0.99
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (40 bp):
CACTTAGTGTGTGATTTGACATAGCTTCGGCTATATATGA
Found at i:73907765 original size:30 final size:30
Alignment explanation
Indices: 73907729--73907789 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
73907719 CATTTAATAC
*
73907729 AAACTTTGGCAAAATTACATTTTTGCCCCT
1 AAACTTTGGCAAAATTACACTTTTGCCCCT
* *
73907759 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACACTTTTGCCCCT
73907789 A
1 A
73907790 GGCTCAGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACACTTTTGCCCCT
Found at i:73913321 original size:18 final size:18
Alignment explanation
Indices: 73913283--73913322 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
73913273 GTTTGGCAAT
* * *
73913283 TTAATACAATTCGCCATA
1 TTAATACAAATCACCAAA
73913301 TTAATACAAATCACCAAA
1 TTAATACAAATCACCAAA
73913319 TTAA
1 TTAA
73913323 CACAGTTTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.47, C:0.20, G:0.03, T:0.30
Consensus pattern (18 bp):
TTAATACAAATCACCAAA
Found at i:73917137 original size:40 final size:40
Alignment explanation
Indices: 73917100--73917322 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
73917090 GCTACTCGTT
*
73917100 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
73917140 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
73917180 CCAATGCCTTC-GG-CTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
73917218 CAAATGCCTTC-GGATCTTAGTCCGGA-TTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
73917257 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
73917298 CAAA-GCCTTCGAGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
73917323 CATCATTCGA
Statistics
Matches: 166, Mismatches: 11, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
38 35 0.21
39 41 0.25
40 78 0.47
41 12 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:73917306 original size:117 final size:120
Alignment explanation
Indices: 73917100--73917322 Score: 287
Period size: 117 Copynumber: 1.9 Consensus size: 120
73917090 GCTACTCGTT
*
73917100 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* * * *
73917165 ATTTAGTAACTCGCACCAATGCCTTCG-G-CTTAGTCCGGATTTAGTAACTCGCA
66 ATATAGTAACTAGCACCAAAGCCTTCGAGACTTAGCCCGGATTTAGTAACTCGCA
* * **
73917218 CAAATGCCTTC-GGATCTTAGTCCGGAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGA-CATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
*
73917280 GGATATAGTCACTTAGCA-CAAAGCCTTCGAGACTTAGCCCGGA
64 GGATATAGTAAC-TAGCACCAAAGCCTTCGAGACTTAGCCCGGA
73917323 CATCATTCGA
Statistics
Matches: 90, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
116 3 0.03
117 52 0.58
118 25 0.28
119 10 0.11
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCACCAAAGCCTTCGAGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:73921087 original size:38 final size:40
Alignment explanation
Indices: 73921038--73921141 Score: 124
Period size: 38 Copynumber: 2.7 Consensus size: 40
73921028 TTCGAACGAT
*** *
73921038 TGCCTTCGGGTCTTAACCCGGAT-TGGTAACTTGCACAAA
1 TGCCTTCGGGTCTTAACCCGGATATAACAACTCGCACAAA
* *
73921077 TGCC-TCGGGTCTT-AGCCGGATATAACAACTCGCACGAA
1 TGCCTTCGGGTCTTAACCCGGATATAACAACTCGCACAAA
*
73921115 TGCCTTCGGGTCTTAGCCCGGATATAA
1 TGCCTTCGGGTCTTAACCCGGATATAA
73921142 TTACTAGCAT
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
37 7 0.13
38 24 0.44
39 13 0.24
40 10 0.19
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAACCCGGATATAACAACTCGCACAAA
Found at i:73926550 original size:40 final size:40
Alignment explanation
Indices: 73926495--73926704 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
73926485 AACATTGGAA
73926495 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
73926535 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
73926575 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
73926615 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
73926654 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
73926695 CTATATCCGG
1 ATATATCCGG
73926705 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:73932105 original size:40 final size:40
Alignment explanation
Indices: 73932031--73932173 Score: 151
Period size: 40 Copynumber: 3.6 Consensus size: 40
73932021 CCGCACCAAG
* * * * * * *
73932031 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAC
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
73932071 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * * *
73932111 GCCTTCGAGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
73932151 GCCTTCGGGTCTTAACCCGGATA
1 GCCTTCGGGTCTTAGCCCGGATA
73932174 AAATTTTCAG
Statistics
Matches: 85, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 85 1.00
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:73933263 original size:40 final size:42
Alignment explanation
Indices: 73933172--73933270 Score: 141
Period size: 40 Copynumber: 2.4 Consensus size: 42
73933162 ATATTATAAT
*
73933172 CTCGCACACTAAGTGCC-TGCCATAGCCGAAGCTATCTCAAC
1 CTCGCACACTAAGTGCCATGACATAGCCGAAGCTATCTCAAC
* * *
73933213 CTCACGCACTAAGTGCCAT-ATATAGCCGAA-CTATCTCAAC
1 CTCGCACACTAAGTGCCATGACATAGCCGAAGCTATCTCAAC
73933253 CTCGCACACTAAGTGCCA
1 CTCGCACACTAAGTGCCA
73933271 AACATAGTTG
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
40 26 0.51
41 24 0.47
42 1 0.02
ACGTcount: A:0.29, C:0.35, G:0.15, T:0.20
Consensus pattern (42 bp):
CTCGCACACTAAGTGCCATGACATAGCCGAAGCTATCTCAAC
Found at i:73939922 original size:27 final size:27
Alignment explanation
Indices: 73939892--73939974 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 27
73939882 ATCTCATATC
* *
73939892 TGTAGGCTAGCATTACTGAAATACCCT
1 TGTAGGGTAGAATTACTGAAATACCCT
* *
73939919 TGTAGGGTAGAATTACTGAAATGCCCC
1 TGTAGGGTAGAATTACTGAAATACCCT
**
73939946 TGTAGGGTAGAATTACCAAAATACCCT
1 TGTAGGGTAGAATTACTGAAATACCCT
73939973 TG
1 TG
73939975 GTTTATAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (27 bp):
TGTAGGGTAGAATTACTGAAATACCCT
Found at i:73939987 original size:54 final size:54
Alignment explanation
Indices: 73939937--73940079 Score: 144
Period size: 54 Copynumber: 2.6 Consensus size: 54
73939927 AGAATTACTG
* * * *
73939937 AAATGCCCCT-GTAGGGTAGAATTACCAAAATACCCTTGGTTTATAAAATTACCA
1 AAATACCCCTGGT-GGGTAAAATTACCAAAATACCCCTAGTTTATAAAATTACCA
** * *
73939991 AAATACCCCTGGTTTGTAAAATTTCCAAAATACCCCTAGTTTGTAAAATTACCA
1 AAATACCCCTGGTGGGTAAAATTACCAAAATACCCCTAGTTTATAAAATTACCA
* * ** * *
73940045 AAATACCTCTGATTTGTGAAATTACTAAAATACCC
1 AAATACCCCTGGTGGGTAAAATTACCAAAATACCC
73940080 TCGACCTGTA
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
54 73 0.97
55 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (54 bp):
AAATACCCCTGGTGGGTAAAATTACCAAAATACCCCTAGTTTATAAAATTACCA
Found at i:73940146 original size:27 final size:27
Alignment explanation
Indices: 73939956--73940140 Score: 196
Period size: 27 Copynumber: 6.9 Consensus size: 27
73939946 TGTAGGGTAG
* * *
73939956 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTCGATTTGTAA
*
73939983 AATTACCAAAATACCC-CTGGTTTGTAA
1 AATTACCAAAATACCCTC-GATTTGTAA
* *
73940010 AATTTCCAAAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCCTCGA-TTTGTAA
*
73940037 AATTACCAAAATA-CCTCTGATTTGTGA
1 AATTACCAAAATACCCTC-GATTTGTAA
* **
73940064 AATTACTAAAATACCCTCGACCTGTAA
1 AATTACCAAAATACCCTCGATTTGTAA
* * *
73940091 AATTACTAAAATACCCTCAACTTGTAA
1 AATTACCAAAATACCCTCGATTTGTAA
*
73940118 AATTACCAAAGTACCCTCGATTT
1 AATTACCAAAATACCCTCGATTT
73940141 AAAAAAATTA
Statistics
Matches: 135, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
26 2 0.01
27 128 0.95
28 5 0.04
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTCGATTTGTAA
Found at i:73940184 original size:27 final size:27
Alignment explanation
Indices: 73940129--73940403 Score: 352
Period size: 27 Copynumber: 10.1 Consensus size: 27
73940119 ATTACCAAAG
* *
73940129 TACCCTCGATTTAAAAAAATTACCGTTT
1 TACCCTCGATTT-ACAGAATTACCGTTT
*
73940157 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
73940184 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
**
73940211 TACCCTCGATTTACAGAATTATTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
73940238 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * **
73940265 TACCCTCAATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
73940292 TATCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
** **
73940319 TACCCTTAATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
73940346 TACCCTCAATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
73940373 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
73940400 TACC
1 TACC
73940404 TCTAGGGTGT
Statistics
Matches: 216, Mismatches: 31, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
27 204 0.94
28 12 0.06
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:73940218 original size:54 final size:54
Alignment explanation
Indices: 73940129--73940403 Score: 388
Period size: 54 Copynumber: 5.1 Consensus size: 54
73940119 ATTACCAAAG
* * *
73940129 TACCCTCGATTTAAAAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTT-ACAGAATTACCGTTTTACCCTCGATTTACAGAATTACTATTT
* * * *
73940184 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAGAATTATTGTTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACTATTT
* * *
73940238 TACCCTCGATTTATAGAATTACCGTTTTACCCTCAATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACTATTT
* **
73940292 TATCCTCGATTTACAGAATTACCGTTTTACCCTTAATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACTATTT
* * * *
73940346 TACCCTCAATTTACAGAATTACCGTTTTACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACTATTT
73940400 TACC
1 TACC
73940404 TCTAGGGTGT
Statistics
Matches: 199, Mismatches: 21, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
54 187 0.94
55 12 0.06
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.40
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACTATTT
Found at i:73940265 original size:81 final size:81
Alignment explanation
Indices: 73940129--73940403 Score: 388
Period size: 81 Copynumber: 3.4 Consensus size: 81
73940119 ATTACCAAAG
* * *
73940129 TACCCTCGATTTAAAAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGAT
1 TACCCTCGATTT-ACAGAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCAAT
73940194 TTACAAAATTACTGTTT
65 TTACAAAATTACTGTTT
** * *
73940211 TACCCTCGATTTACAGAATTATTGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCAATT
*
73940276 TACAAAATTACTATTT
66 TACAAAATTACTGTTT
* ** *
73940292 TATCCTCGATTTACAGAATTACCGTTTTACCCTTAATTTACAGAATTACTATTTTACCCTCAATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCAATT
* *
73940357 TACAGAATTACCGTTT
66 TACAAAATTACTGTTT
* * *
73940373 TACCCTCGATTTATAAAATTACCATTTTACC
1 TACCCTCGATTTACAGAATTACCGTTTTACC
73940404 TCTAGGGTGT
Statistics
Matches: 170, Mismatches: 23, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
81 158 0.93
82 12 0.07
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCAATT
TACAAAATTACTGTTT
Found at i:73940945 original size:31 final size:31
Alignment explanation
Indices: 73940910--73940988 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
73940900 TTGCATTCAC
*
73940910 ATTCTGATTTTGATTCTGTTACTTGACACTG
1 ATTCTGATTTTGATTCTGTTACCTGACACTG
**
73940941 ATTCTGATTTTGATTCTGTTACCTGATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGACACTG
*
73940972 ATTCTGATTCTGATTCT
1 ATTCTGATTTTGATTCT
73940989 AGTTCTGATA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.18, C:0.16, G:0.15, T:0.51
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGACACTG
Found at i:73940949 original size:6 final size:6
Alignment explanation
Indices: 73940910--73940997 Score: 74
Period size: 6 Copynumber: 14.3 Consensus size: 6
73940900 TTGCATTCAC
* ** *
73940910 ATTCTG ATTTTG ATTCTG -TTACTTG ACACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT-C-TG ATTCTG ATTCTG ATTCTG ATTCTG
73940959 -TTACCTG ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
73940998 AATGTTTCTT
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
5 5 0.08
6 52 0.79
7 7 0.11
8 2 0.03
ACGTcount: A:0.18, C:0.16, G:0.16, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:73940966 original size:25 final size:28
Alignment explanation
Indices: 73940910--73940983 Score: 91
Period size: 25 Copynumber: 2.6 Consensus size: 28
73940900 TTGCATTCAC
73940910 ATTCTGATTTTGATTCTGTTACTTGACACTG
1 ATTCTGATTTTGATTCTG-T--TTGACACTG
73940941 ATTCTGATTTTGATTCTG-TT-AC-CTG
1 ATTCTGATTTTGATTCTGTTTGACACTG
*
73940966 ATTCTGATTCTGATTCTG
1 ATTCTGATTTTGATTCTG
73940984 ATTCTAGTTC
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
25 20 0.48
26 2 0.05
27 2 0.05
31 18 0.43
ACGTcount: A:0.18, C:0.16, G:0.16, T:0.50
Consensus pattern (28 bp):
ATTCTGATTTTGATTCTGTTTGACACTG
Found at i:73950282 original size:41 final size:40
Alignment explanation
Indices: 73950234--73950368 Score: 146
Period size: 41 Copynumber: 3.3 Consensus size: 40
73950224 TATAATCTCT
73950234 CACACTAAGTGCCTTTCATAGCCGAAGCTATCTCAACCTCA
1 CACACTAAGTGCCTTT-ATAGCCGAAGCTATCTCAACCTCA
* * * * *
73950275 CATACTAAGTGTCATTTATAGCCGAAGTTATTTCAA-CTCG
1 CACACTAAGTG-CCTTTATAGCCGAAGCTATCTCAACCTCA
* * * * *
73950315 CACACTAAGTGCTCTATGTTGTCGAAGCTATCTCAACCTTA
1 CACACTAAGTGC-CTTTATAGCCGAAGCTATCTCAACCTCA
73950356 CACACTAAGTGCC
1 CACACTAAGTGCC
73950369 AAACATAGTC
Statistics
Matches: 76, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
39 1 0.01
40 30 0.39
41 41 0.54
42 4 0.05
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (40 bp):
CACACTAAGTGCCTTTATAGCCGAAGCTATCTCAACCTCA
Found at i:73956006 original size:43 final size:42
Alignment explanation
Indices: 73955909--73956009 Score: 132
Period size: 42 Copynumber: 2.4 Consensus size: 42
73955899 CGATTTGAGA
* *
73955909 TTTACGTGTAAGACCATGTCTGGGACATCGGCATCGTATTTG
1 TTTACGTGTAAGACCATGTCTGGGACAGCGGCATCATATTTG
* *
73955951 TTTTCGTGTAAGACCCTGTCTGGGACAGCGGCATCAATATTT-
1 TTTACGTGTAAGACCATGTCTGGGACAGCGGCATC-ATATTTG
*
73955993 TATTACATGTAAGACCA
1 T-TTACGTGTAAGACCA
73956010 CGTTAGGGAT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
42 33 0.66
43 17 0.34
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (42 bp):
TTTACGTGTAAGACCATGTCTGGGACAGCGGCATCATATTTG
Found at i:73957906 original size:111 final size:111
Alignment explanation
Indices: 73957712--73957934 Score: 437
Period size: 111 Copynumber: 2.0 Consensus size: 111
73957702 GATAATAATA
73957712 TCCTTACCTTTTCTCATCTGGGAAATTTCGAAGACAAAATTTTCTTTTAAGAGTAGAGTTGTCAC
1 TCCTTACCTTTTCTCATCTGGGAAATTTCGAAGACAAAATTTTCTTTTAAGAGTAGAGTTGTCAC
*
73957777 ATGCCATTTTTTATGCATGTCCGCAAGAATGAGAACAAAGGGAATG
66 ATGCCATTTTTTATGCATGTCCGCAAGAATAAGAACAAAGGGAATG
73957823 TCCTTACCTTTTCTCATCTGGGAAATTTCGAAGACAAAATTTTCTTTTAAGAGTAGAGTTGTCAC
1 TCCTTACCTTTTCTCATCTGGGAAATTTCGAAGACAAAATTTTCTTTTAAGAGTAGAGTTGTCAC
73957888 ATGCCATTTTTTATGCATGTCCGCAAGAATAAGAACAAAGGGAATG
66 ATGCCATTTTTTATGCATGTCCGCAAGAATAAGAACAAAGGGAATG
73957934 T
1 T
73957935 GTAGTGTAGT
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
111 111 1.00
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (111 bp):
TCCTTACCTTTTCTCATCTGGGAAATTTCGAAGACAAAATTTTCTTTTAAGAGTAGAGTTGTCAC
ATGCCATTTTTTATGCATGTCCGCAAGAATAAGAACAAAGGGAATG
Found at i:73968060 original size:40 final size:40
Alignment explanation
Indices: 73968005--73968122 Score: 163
Period size: 40 Copynumber: 3.0 Consensus size: 40
73967995 GTTATTTATG
73968005 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
*
73968045 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCATGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
* * *
73968085 TGGAA-TGACATCCGGG-TTAAAAACCTGCAGG-TT-GTGC
1 TGGAATTG-TATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
73968122 T
1 T
73968123 AAATATGTGT
Statistics
Matches: 72, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
37 4 0.06
38 2 0.03
39 15 0.21
40 51 0.71
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
Found at i:73975979 original size:19 final size:20
Alignment explanation
Indices: 73975942--73975979 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
73975932 GAATGTAGCC
73975942 AATGTCTACTAATAATGTGA
1 AATGTCTACTAATAATGTGA
73975962 AATGTTCTA-TAA-AATGTG
1 AATG-TCTACTAATAATGTG
73975980 TTAGAATACG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 7 0.41
21 4 0.24
ACGTcount: A:0.39, C:0.08, G:0.16, T:0.37
Consensus pattern (20 bp):
AATGTCTACTAATAATGTGA
Found at i:73976071 original size:40 final size:40
Alignment explanation
Indices: 73976016--73976099 Score: 150
Period size: 40 Copynumber: 2.1 Consensus size: 40
73976006 ATTTGATGTG
*
73976016 GAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTA
1 GAATTGTATCCGGGCTTAAAGACCCACAGGCTTCGTGCTA
*
73976056 GAATTGTATCCGGGCTTAAAGACCCACAGGCTTCGTGCTG
1 GAATTGTATCCGGGCTTAAAGACCCACAGGCTTCGTGCTA
73976096 GAAT
1 GAAT
73976100 GACATCTAGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
GAATTGTATCCGGGCTTAAAGACCCACAGGCTTCGTGCTA
Found at i:73976495 original size:2 final size:2
Alignment explanation
Indices: 73976488--73976520 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
73976478 TATTCATGTG
73976488 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
73976521 TCGGCCAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:73980297 original size:20 final size:20
Alignment explanation
Indices: 73980256--73980299 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
73980246 AGAACATGTA
* *
73980256 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
73980276 TTCATCAAAATTTT-CAACTT
1 TTCAT-AAAATTTTACAACTT
73980296 TTCA
1 TTCA
73980300 ATTTAGTCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.36, C:0.14, G:0.02, T:0.48
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:73982784 original size:21 final size:21
Alignment explanation
Indices: 73982758--73982797 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
73982748 ATGTCATCTT
*
73982758 TTTAATTTAATTAACTTTTAA
1 TTTAATTTAATTAAATTTTAA
*
73982779 TTTAATTTTATTAAATTTT
1 TTTAATTTAATTAAATTTT
73982798 TTTATAACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTAATTTAATTAAATTTTAA
Found at i:73989211 original size:29 final size:29
Alignment explanation
Indices: 73989179--73989314 Score: 157
Period size: 29 Copynumber: 4.7 Consensus size: 29
73989169 ATACCCTTCG
** * *
73989179 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
73989208 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
73989237 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
73989266 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
73989295 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACTTAGTGCCA
73989315 ATCTCGTCAC
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 93 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.29
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:73989306 original size:58 final size:58
Alignment explanation
Indices: 73989154--73989313 Score: 176
Period size: 58 Copynumber: 2.8 Consensus size: 58
73989144 AATTTAAGCC
* *** * * ** * *
73989154 CGCACACACAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
* * * * *
73989212 TGCACACATAGTGTCATATTTTTCCAGCATGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
*
73989270 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
73989314 AATCTCGTCA
Statistics
Matches: 83, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
58 83 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.28
Consensus pattern (58 bp):
CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
Found at i:73990148 original size:143 final size:141
Alignment explanation
Indices: 73989958--73990252 Score: 545
Period size: 143 Copynumber: 2.1 Consensus size: 141
73989948 AAATTCTATA
73989958 GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
1 GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
73990023 TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
66 TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
*
73990088 GAAGACAACAT
131 GAAAACAACAT
73990099 GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
1 GCATGGCCGAATACTCATG--CACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
* *
73990164 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTGATCACAACAACATCAAAACACTCACTA
64 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
73990229 AGGAAAACAACAT
129 AGGAAAACAACAT
73990242 GCATGGCCGAA
1 GCATGGCCGAA
73990253 ATTTAACTCA
Statistics
Matches: 149, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
141 19 0.13
143 130 0.87
ACGTcount: A:0.39, C:0.28, G:0.11, T:0.22
Consensus pattern (141 bp):
GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
GAAAACAACAT
Found at i:73993680 original size:47 final size:45
Alignment explanation
Indices: 73993571--73993743 Score: 152
Period size: 46 Copynumber: 3.7 Consensus size: 45
73993561 CATTTTTGTA
* * * *
73993571 CTAGTATAAGACATGTCTGGGACATGCATCGGCCATATTATGAGTG
1 CTAGTGTAAGACATGTCTGGGACATGCATCGG-CATATGACGAGAG
*
73993617 CCAGTGTAAGACCATGTCTGGGACATGCCATCGGCAT-TGAGACGAGAG
1 CTAGTGTAAGA-CATGTCTGGGACATG-CATCGGCATAT--GACGAGAG
* * * * *
73993665 CTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGTGA-TATAAG
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCAT-ATGACGA-GAG
* * *
73993711 CCAATGTAAGACATGTTTGGGACATGCATCGGC
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGC
73993744 TACAAGATTT
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
45 1 0.01
46 51 0.48
47 32 0.30
48 22 0.21
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (45 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGGCATATGACGAGAG
Found at i:73993868 original size:99 final size:94
Alignment explanation
Indices: 73993709--73993884 Score: 246
Period size: 99 Copynumber: 1.8 Consensus size: 94
73993699 TCGTGATATA
*
73993709 AGCCAATGTAAGACATGTTTGGGACATGCATCGGCTACAAGATTTGTCAGTGTAAGACCATGTCT
1 AGCCAATGTAAGACATGTTTGGGACATGCATCGGCTACAAGATTAGTCAGTGTAAGACCATGTCT
73993774 GGGACATGGCATTAGCACAGAGATGTGGG
66 GGGACATGGCATTAGCACAGAGATGTGGG
* * * *
73993803 AGCCAGTGTAAGACCATGTTTGGGACATGGCGTCGGCTTCAATTTCGA-TAGTCAGTGTAATACC
1 AGCCAATGTAAGA-CATGTTTGGGACAT-GCATCGGCTACAA----GATTAGTCAGTGTAAGACC
73993867 ATGTCTGGGACATGGCAT
60 ATGTCTGGGACATGGCAT
73993885 CAACTTGATG
Statistics
Matches: 71, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
94 12 0.17
95 14 0.20
96 11 0.15
99 32 0.45
100 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (94 bp):
AGCCAATGTAAGACATGTTTGGGACATGCATCGGCTACAAGATTAGTCAGTGTAAGACCATGTCT
GGGACATGGCATTAGCACAGAGATGTGGG
Found at i:74001579 original size:47 final size:48
Alignment explanation
Indices: 74001316--74001573 Score: 276
Period size: 49 Copynumber: 5.4 Consensus size: 48
74001306 TGTGCTAGTA
** **
74001316 TAAGA-CATGTCTGGGACATGGCATCGGCACAGAGATGT-GGGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGG-AC-TTGAT-TCGATAGCCAGTG
* * * *
74001365 TAAGACCATGTCTGGGACATGGCGTCGGCCTCGATTTCGATAGTCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGACTTGA-TTCGATAGCCAGTG
*
74001414 TAAGACCATGTCTGGGACATGGCATC-GACTTGA-TGGATAAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGACTTGATTCGAT-AGCCAGTG
* * * *
74001461 TAAGACCATGTATGGGACATGGCGTCGGCCTTGATTTCGATAGTCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGACTTGA-TTCGATAGCCAGTG
* *
74001510 TAAGACCATGTCTGGGACATGCCATC-GACTTGA-TGGATAAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGACTTGATTCGAT-AGCCAGTG
74001557 TAAGACCATGTCTGGGA
1 TAAGACCATGTCTGGGA
74001574 TATGCCTTCG
Statistics
Matches: 178, Mismatches: 23, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
46 8 0.04
47 55 0.31
48 20 0.11
49 70 0.39
50 25 0.14
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATCGGACTTGATTCGATAGCCAGTG
Found at i:74001585 original size:96 final size:96
Alignment explanation
Indices: 74001357--74001573 Score: 407
Period size: 96 Copynumber: 2.3 Consensus size: 96
74001347 GAGATGTGGG
74001357 AGCCAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATTTCGATAGTCAGTGTAAGACCA
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATTTCGATAGTCAGTGTAAGACCA
*
74001422 TGTCTGGGACATGGCATCGACTTGATGGATA
66 TGTCTGGGACATGCCATCGACTTGATGGATA
* *
74001453 AGCCAGTGTAAGACCATGTATGGGACATGGCGTCGGCCTTGATTTCGATAGTCAGTGTAAGACCA
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATTTCGATAGTCAGTGTAAGACCA
74001518 TGTCTGGGACATGCCATCGACTTGATGGATA
66 TGTCTGGGACATGCCATCGACTTGATGGATA
74001549 AGCCAGTGTAAGACCATGTCTGGGA
1 AGCCAGTGTAAGACCATGTCTGGGA
74001574 TATGCCTTCG
Statistics
Matches: 117, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 117 1.00
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (96 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATTTCGATAGTCAGTGTAAGACCA
TGTCTGGGACATGCCATCGACTTGATGGATA
Found at i:74008965 original size:203 final size:204
Alignment explanation
Indices: 74008593--74008992 Score: 540
Period size: 203 Copynumber: 2.0 Consensus size: 204
74008583 ATTCATTTCA
* * *
74008593 ATTTATGGAGTCCATCTTCTGACATCTCAAAATGCGGTAATAAATATTTCCTAACTTTTATTAAT
1 ATTTATGGAGTCCATCTTCTGACATCTCAAAAGGAGGTAATAAATATTTCCTAACTTTTACTAAT
* *
74008658 GATCACTCCAGAAAAATGTTTGGGTTTTTTTTTAAACAGAAAAGTGAAGTCTTCGGAATCTTCAA
66 GATCACTCCAGAAAAATGTTAGGGTTTTTTTTGAAACAGAAAAGTGAAGTCTTCGGAATCTTCAA
** * * ** * * *
74008723 ACAGTGGAATATATCATTAGAAGAACAAATTAAAAAGTCCGTGAAGCGGTTGAGGATTGATAATG
131 ACAGTAAAAGACATCATTAGAAGAACAAAACAAAAAGTCCATGAAGCGGTTGAGAATGGATAATG
74008788 GTAATTCCG
196 GTAATTCCG
* *
74008797 ATTTATGG-GTCTATCTTCT-AGCATCTTAAAAGGAGGTAATAAATATTTCCTAACTTTTACTAA
1 ATTTATGGAGTCCATCTTCTGA-CATCTCAAAAGGAGGTAATAAATATTTCCTAACTTTTACTAA
*
74008860 TGATCACTCCAG-AAAA-GTTAGGGTTTATTCTTTGAAACAGAAAAGTGAAGTCTTTGGAATCTT
65 TGATCACTCCAGAAAAATGTTAGGGTTT-TT-TTTGAAACAGAAAAGTGAAGTCTTCGGAATCTT
** * *
74008923 CAAACAGTAAAAGACA-CTATTAGAAGAACAAAACGGAAAGTCCATGAGGTGGTTGAGAATGGAT
128 CAAACAGTAAAAGACATC-ATTAGAAGAACAAAACAAAAAGTCCATGAAGCGGTTGAGAATGGAT
74008987 AATGGT
192 AATGGT
74008993 CTTGAGTTCT
Statistics
Matches: 171, Mismatches: 21, Indels: 9
0.85 0.10 0.04
Matches are distributed among these distances:
201 9 0.05
202 8 0.05
203 146 0.85
204 8 0.05
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (204 bp):
ATTTATGGAGTCCATCTTCTGACATCTCAAAAGGAGGTAATAAATATTTCCTAACTTTTACTAAT
GATCACTCCAGAAAAATGTTAGGGTTTTTTTTGAAACAGAAAAGTGAAGTCTTCGGAATCTTCAA
ACAGTAAAAGACATCATTAGAAGAACAAAACAAAAAGTCCATGAAGCGGTTGAGAATGGATAATG
GTAATTCCG
Found at i:74011314 original size:40 final size:40
Alignment explanation
Indices: 74011287--74011429 Score: 216
Period size: 40 Copynumber: 3.6 Consensus size: 40
74011277 TACTAACTCG
* * *
74011287 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACA
*
74011327 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACA
* *
74011367 AATGCCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCACA
74011407 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
74011430 TTATCATCCG
Statistics
Matches: 97, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
39 1 0.01
40 96 0.99
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.21
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACA
Found at i:74020215 original size:23 final size:24
Alignment explanation
Indices: 74020171--74020215 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
74020161 TCATACAAAT
* *
74020171 AAAAAAATTAAAAATAATTTTTTA
1 AAAAAAATCAAAAATAACTTTTTA
*
74020195 AAAAAAATCATAAA-AACTTTT
1 AAAAAAATCAAAAATAACTTTT
74020216 AGAAAATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 6 0.33
24 12 0.67
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (24 bp):
AAAAAAATCAAAAATAACTTTTTA
Found at i:74022226 original size:12 final size:12
Alignment explanation
Indices: 74022209--74022239 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
74022199 TCTGACTTGT
74022209 GCCACACAGCCA
1 GCCACACAGCCA
*
74022221 GCCACACAGCTA
1 GCCACACAGCCA
74022233 GCCACAC
1 GCCACAC
74022240 GCCCGTGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.32, C:0.48, G:0.16, T:0.03
Consensus pattern (12 bp):
GCCACACAGCCA
Found at i:74024214 original size:40 final size:39
Alignment explanation
Indices: 74024169--74024376 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 39
74024159 CGGAATACAA
*
74024169 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
74024209 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
74024249 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** *
74024289 CCGGATGTAGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
74024329 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
74024369 CCGGATAT
1 CCGGATAT
74024377 CATTCAATTG
Statistics
Matches: 143, Mismatches: 22, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
39 4 0.03
40 136 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:74024309 original size:80 final size:81
Alignment explanation
Indices: 74024169--74024374 Score: 240
Period size: 80 Copynumber: 2.6 Consensus size: 81
74024159 CGGAATACAA
* * *
74024169 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCAC-AAT
*
74024233 -GCCTTCGGGTATTAGC
65 GGCCTTCGGGTATTAAC
* *
74024249 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAT
*
74024312 GGCCTTCGGGTCTTAAC
65 GGCCTTCGGGTATTAAC
** * ** * *
74024329 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
74024375 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
79 3 0.03
80 101 0.94
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAATG
GCCTTCGGGTATTAAC
Found at i:74033851 original size:93 final size:93
Alignment explanation
Indices: 74033692--74033862 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
74033682 CGCCCTAAGT
* *
74033692 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
74033757 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
74033785 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
74033850 CGAGTTCGGATGC
66 CGAGTTCGGATGC
74033863 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:74033859 original size:46 final size:46
Alignment explanation
Indices: 74033687--74033859 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
74033677 TAACCCGCCC
* * *
74033687 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
74033733 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
74033781 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
74033826 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
74033860 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:74034318 original size:30 final size:30
Alignment explanation
Indices: 74034284--74034343 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
74034274 ATTTAATACG
74034284 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
74034314 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
74034344 GGCTCGGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:74038514 original size:30 final size:30
Alignment explanation
Indices: 74038480--74038539 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
74038470 ATTTAATACG
74038480 AACTTTGGAAAAAGTACACTTTTGCCCCTA
1 AACTTTGGAAAAAGTACACTTTTGCCCCTA
* * * *
74038510 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAAGTACACTTTTGCCCCTA
74038540 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (30 bp):
AACTTTGGAAAAAGTACACTTTTGCCCCTA
Found at i:74043925 original size:29 final size:30
Alignment explanation
Indices: 74043869--74043925 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
74043859 GTTTGATTGC
* *
74043869 TTTTGGTTGAGTCTTGTTAGTGTCATTAGT
1 TTTTGGTTGAATCTTGTTAGTGTAATTAGT
*
74043899 TTTTGGTTGAAT-TTGTTAGTTTAATTA
1 TTTTGGTTGAATCTTGTTAGTGTAATTA
74043926 TATTCATGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.18, C:0.04, G:0.23, T:0.56
Consensus pattern (30 bp):
TTTTGGTTGAATCTTGTTAGTGTAATTAGT
Found at i:74045245 original size:16 final size:15
Alignment explanation
Indices: 74045223--74045269 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 15
74045213 GTTGAGAACT
74045223 TTTATTTATTATTTT-
1 TTTATTTATT-TTTTC
74045238 TATTATTTACTTTTTTC
1 T-TTATTTA-TTTTTTC
74045255 TTTATTTATCTTTTT
1 TTTATTTAT-TTTTT
74045270 AAATTACTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 2 0.07
16 23 0.82
17 3 0.11
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTATTTATTTTTTC
Found at i:74053315 original size:26 final size:25
Alignment explanation
Indices: 74053259--74053321 Score: 72
Period size: 26 Copynumber: 2.5 Consensus size: 25
74053249 TTAGCTCTTA
74053259 TGAGCTTTCCGATATAGGCTCTTCG
1 TGAGCTTTCCGATATAGGCTCTTCG
* * * *
74053284 TCAGCTTTCCGTTAATTGGCTCTTTG
1 TGAGCTTTCCGAT-ATAGGCTCTTCG
*
74053310 TGAGCTTCCCGA
1 TGAGCTTTCCGA
74053322 CAGTGCTCGC
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
25 11 0.37
26 19 0.63
ACGTcount: A:0.14, C:0.25, G:0.22, T:0.38
Consensus pattern (25 bp):
TGAGCTTTCCGATATAGGCTCTTCG
Found at i:74053405 original size:24 final size:24
Alignment explanation
Indices: 74053371--74053417 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
74053361 GTTTCTCGTT
*
74053371 ATATGGCTCTTTGTGAGCTTCCCG
1 ATATGGCTCTTTGTGAACTTCCCG
*
74053395 ATATGGTTCTTTGTGAACTTCCC
1 ATATGGCTCTTTGTGAACTTCCC
74053418 ATTGTATAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.40
Consensus pattern (24 bp):
ATATGGCTCTTTGTGAACTTCCCG
Found at i:74059399 original size:23 final size:23
Alignment explanation
Indices: 74059373--74059418 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
74059363 ATTATGATAG
74059373 CATAGTTCGTCATTTTATAGGCT
1 CATAGTTCGTCATTTTATAGGCT
74059396 CATAGTTCGTCATTTTATAGGCT
1 CATAGTTCGTCATTTTATAGGCT
74059419 TCTAACAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.43
Consensus pattern (23 bp):
CATAGTTCGTCATTTTATAGGCT
Found at i:74065075 original size:15 final size:15
Alignment explanation
Indices: 74065057--74065108 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
74065047 ACGGGCGGGT
74065057 GTGACACACGGCTAG
1 GTGACACACGGCTAG
*
74065072 GTG--ACACGGCCTTG
1 GTGACACACGG-CTAG
74065086 TGTGACACACGGCTAG
1 -GTGACACACGGCTAG
74065102 GTGACAC
1 GTGACAC
74065109 GGCCGTGTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
13 6 0.19
14 3 0.10
15 13 0.42
16 3 0.10
17 6 0.19
ACGTcount: A:0.23, C:0.27, G:0.33, T:0.17
Consensus pattern (15 bp):
GTGACACACGGCTAG
Found at i:74065078 original size:30 final size:30
Alignment explanation
Indices: 74065044--74065113 Score: 113
Period size: 30 Copynumber: 2.3 Consensus size: 30
74065034 CACAGCCAGA
*
74065044 GACACGGGCGGGTGTGACACACGGCTAGGT
1 GACACGGCCGGGTGTGACACACGGCTAGGT
**
74065074 GACACGGCCTTGTGTGACACACGGCTAGGT
1 GACACGGCCGGGTGTGACACACGGCTAGGT
74065104 GACACGGCCG
1 GACACGGCCG
74065114 TGTATCCCCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.20, C:0.27, G:0.39, T:0.14
Consensus pattern (30 bp):
GACACGGCCGGGTGTGACACACGGCTAGGT
Found at i:74065080 original size:13 final size:13
Alignment explanation
Indices: 74065062--74065111 Score: 55
Period size: 13 Copynumber: 3.5 Consensus size: 13
74065052 CGGGTGTGAC
74065062 ACACGGCTAGGTG
1 ACACGGCTAGGTG
*
74065075 ACACGGCCTTGTGTG
1 ACACGG-CTAG-GTG
74065090 ACACACGGCTAGGTG
1 --ACACGGCTAGGTG
74065105 ACACGGC
1 ACACGGC
74065112 CGTGTATCCC
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
13 13 0.42
14 3 0.10
15 6 0.19
16 3 0.10
17 6 0.19
ACGTcount: A:0.22, C:0.28, G:0.34, T:0.16
Consensus pattern (13 bp):
ACACGGCTAGGTG
Found at i:74074235 original size:43 final size:42
Alignment explanation
Indices: 74074172--74074293 Score: 156
Period size: 43 Copynumber: 2.9 Consensus size: 42
74074162 TACCGTACCA
* *
74074172 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
* * * *
74074214 ATGCCAATAGCCCAGCTATGGTCTTACACG-AAGTTTTATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGTAA-TCTCATATCG
*
74074257 ATGCCATATCCAAGATATGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCA
74074294 GTAACCCTAA
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
42 31 0.47
43 35 0.53
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
Found at i:74080447 original size:50 final size:48
Alignment explanation
Indices: 74080339--74080519 Score: 170
Period size: 48 Copynumber: 3.7 Consensus size: 48
74080329 TCATCAAATT
* * * ** *
74080339 GATGCCATGTCCCAG-CATGGTCTTACACTGACTATCGA-AATTGAGGCC
1 GATGCCATGTCCCAGACATGGTTTTACACTGAC-A-CCACTATACATGCC
* * * *
74080387 GACGCCATGTCCCAGACATGGTTTTACACT-AGCTCTCACATATCCGTGCC
1 GATGCCATGTCCCAGACATGGTTTTACACTGA-CAC-CAC-TATACATGCC
* *
74080437 GATGCCATGTCCCAAACATGGTTTTACACTGACACCTCTATACATGCC
1 GATGCCATGTCCCAGACATGGTTTTACACTGACACCACTATACATGCC
* *
74080485 AATGCCATGTCCCAGACATGGTCTTACACTGACAC
1 GATGCCATGTCCCAGACATGGTTTTACACTGACAC
74080520 ATCTCATAGC
Statistics
Matches: 109, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
47 1 0.01
48 56 0.51
49 16 0.15
50 35 0.32
51 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.25
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTTTTACACTGACACCACTATACATGCC
Found at i:74080578 original size:46 final size:46
Alignment explanation
Indices: 74080490--74080656 Score: 182
Period size: 46 Copynumber: 3.6 Consensus size: 46
74080480 ATGCCAATGC
*
74080490 CATGTCCCAGACATGGTCTTACACTGAC--ACATCTCATAGCCGATA
1 CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCA-AGCCGATA
* * * *
74080535 CATGTACTAGACAT-GTCTTACACTGGCTTACATCTCGAGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTTACATCTC-AAGCCGATA
* * *
74080581 CATGTCCCAGACAT-GTCTTACACCGGCTCT-CGTCTCAATGCCGATGC
1 CATGTCCCAGACATGGTCTTACACTGGCT-TACATCTCAA-GCCGAT-A
74080628 CATGTCCCAGACATGGTCTTACACTGGCT
1 CATGTCCCAGACATGGTCTTACACTGGCT
74080657 CCATTAGCTC
Statistics
Matches: 103, Mismatches: 12, Indels: 11
0.82 0.10 0.09
Matches are distributed among these distances:
44 12 0.12
45 13 0.13
46 49 0.48
47 16 0.16
48 13 0.13
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.26
Consensus pattern (46 bp):
CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCAAGCCGATA
Found at i:74082621 original size:93 final size:93
Alignment explanation
Indices: 74082509--74082680 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
74082499 GCCCATAAGT
* *
74082509 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
74082574 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
74082602 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
74082667 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
74082681 CAAATATCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:74082676 original size:46 final size:46
Alignment explanation
Indices: 74082501--74082676 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
74082491 TGTAACCCGC
* * *
74082501 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
74082547 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
74082597 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
74082640 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
74082677 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:74085101 original size:30 final size:30
Alignment explanation
Indices: 74085057--74085145 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
74085047 CAAAGATAAC
74085057 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
74085086 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
74085116 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
74085146 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:74085105 original size:15 final size:15
Alignment explanation
Indices: 74085057--74085136 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
74085047 CAAAGATAAC
*
74085057 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
74085071 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
74085086 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
74085101 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
74085116 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
74085131 AAGAAA
1 AAGAAA
74085137 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:74085145 original size:15 final size:15
Alignment explanation
Indices: 74085068--74085145 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
74085058 AGAAAACCGA
74085068 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
74085083 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
74085097 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
74085112 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
74085128 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
74085143 ATA
1 ATA
74085146 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:74087909 original size:29 final size:28
Alignment explanation
Indices: 74087877--74087978 Score: 114
Period size: 29 Copynumber: 3.5 Consensus size: 28
74087867 ACTCAATCAT
*
74087877 GCACACTTAGTGCCATATGATTCAAGCCC
1 GCACACTTAGTGCCATAT-ATTCAAGCTC
* * *
74087906 GCACACATAGTGCCATATAGTCCAAACTC
1 GCACACTTAGTGCCATATA-TTCAAGCTC
* *
74087935 GCACACTTAGTGCCGTACATTACAAGCTC
1 GCACACTTAGTGCCATATATT-CAAGCTC
*
74087964 GCACACTCAGTGCCA
1 GCACACTTAGTGCCA
74087979 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
28 2 0.03
29 58 0.97
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (28 bp):
GCACACTTAGTGCCATATATTCAAGCTC
Found at i:74091410 original size:93 final size:93
Alignment explanation
Indices: 74091298--74091469 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
74091288 GCCCATAAGT
* *
74091298 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
74091363 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
74091391 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
74091456 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
74091470 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:74091465 original size:46 final size:46
Alignment explanation
Indices: 74091290--74091465 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
74091280 TGTAACCCGC
* * *
74091290 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
74091336 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
74091386 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
74091429 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
74091466 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:74096009 original size:46 final size:45
Alignment explanation
Indices: 74095767--74096121 Score: 252
Period size: 46 Copynumber: 7.5 Consensus size: 45
74095757 GTATCAATGC
* * * *
74095767 CATGTCCTAGACATGGTCTTACACTGG-TGCATCCATC-AAGTCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTTCAT-C-TCGAGGCCGATG
* ** *
74095813 CCATGTCCCAGACATGATCTTACACTGACTATCAAAATCGAGGCCGACG
1 -CATGTCCCAGACATG-TCTTACACTGGCT-TC-ATCTCGAGGCCGATG
* * * * *
74095862 CCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCATGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCT-T--CATCTCGAGGCCGATG
* * * * *
74095912 CCATGTCCCAGACATGGTCTTACATTGAC-ACATATC-ATAGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTTCATCTCGA-GGCCGATG
* *
74095958 CATGTCCTAGACATGTCTTACACTGGCTTACATCTCGAGGCCGTTG
1 CATGTCCCAGACATGTCTTACACTGGCTT-CATCTCGAGGCCGATG
* * *
74096004 CATGTCCCAGACATGTCTTACACTGGCTTTCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGC-TTCATCTCGAGGCCGATG
* * *
74096050 CCATGTCCCAGACATGGTCTTACACTGGCTCTTATAAT-GTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCT-TCAT-CTCGAGGCCGATG
74096098 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
74096122 TGCACACAAA
Statistics
Matches: 251, Mismatches: 40, Indels: 35
0.77 0.12 0.11
Matches are distributed among these distances:
44 11 0.04
45 14 0.06
46 72 0.29
47 55 0.22
48 25 0.10
49 35 0.14
50 38 0.15
51 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCTTCATCTCGAGGCCGATG
Found at i:74096070 original size:94 final size:95
Alignment explanation
Indices: 74095763--74096121 Score: 332
Period size: 94 Copynumber: 3.8 Consensus size: 95
74095753 ACTAGTATCA
* * * * *
74095763 ATGCCATGTCCTAGACATGGTCTTACACTGG---TGCATCCATC-AAGTCGATGCCATGTCCCAG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACAT-AATCGAGGCCGATGCCATGTCCCAG
* *
74095824 ACATGATCTTACACTGACTATCAAAATCGAGGCCG
65 ACATG-TCTTACACTGACT-TC-ATATC-ATGCCG
* * * * *
74095859 ACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACAT-ATCCATGCTGATGCCATGTCCCAG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-ACATAATCGAGGCCGATGCCATGTCCCAG
* *
74095923 ACATGGTCTTACATTGAC-ACATATCATAGCCG
65 ACAT-GTCTTACACTGACTTCATATCAT-GCCG
* * *
74095955 ATG-CATGTCCTAGACAT-GTCTTACACTGGCT-TACAT-CTCGAGGCCGTTG-CATGTCCCAGA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATAATCGAGGCCGATGCCATGTCCCAGA
* * *
74096015 CATGTCTTACACTGGCTTTCGTCTCAATGCCG
66 CATGTCTTACACTGAC-TTCATATC-ATGCCG
* *
74096047 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-TATAAT-GTGGCCGATG-CATGTCCCAGA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATAATCGAGGCCGATGCCATGTCCCAGA
74096109 CATGTCTTACACT
66 CATGTCTTACACT
74096122 TGCACACAAA
Statistics
Matches: 220, Mismatches: 29, Indels: 30
0.79 0.10 0.11
Matches are distributed among these distances:
90 11 0.05
91 14 0.06
92 23 0.10
93 16 0.07
94 61 0.28
95 16 0.07
96 38 0.17
97 1 0.00
98 3 0.01
99 33 0.15
100 4 0.02
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (95 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATAATCGAGGCCGATGCCATGTCCCAGA
CATGTCTTACACTGACTTCATATCATGCCG
Found at i:74103254 original size:29 final size:28
Alignment explanation
Indices: 74103166--74103267 Score: 82
Period size: 29 Copynumber: 3.5 Consensus size: 28
74103156 TACTCAATCA
* *
74103166 CGCACACTTAGTGCCACGT-GATTCAAGCC
1 CGCACACTTAGTG-C-CGTACATTCAAGCT
* * * *
74103195 CGCACACATAGTGCCATATAGTCCCAA-CT
1 CGCACACTTAGTGCCGTACA-T-TCAAGCT
74103224 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCGTACATT-CAAGCT
*
74103253 CGCACACTCAGTGCC
1 CGCACACTTAGTGCC
74103268 AATCTCGTCA
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
27 2 0.03
28 6 0.10
29 47 0.81
30 3 0.05
ACGTcount: A:0.26, C:0.35, G:0.18, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCGTACATTCAAGCT
Found at i:74107870 original size:39 final size:39
Alignment explanation
Indices: 74107680--74107872 Score: 278
Period size: 39 Copynumber: 4.9 Consensus size: 39
74107670 AATGTGCAAA
* * *
74107680 TTGTGATATCCGGGCTAAACCCGAAGGCAAATGTGCGAA
1 TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG
* * *
74107719 ATATGATATCCGGGCTAAGCCCAAAGGCAATTGTGCGAG
1 TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG
*
74107758 TTGTGATATCCGGGCTAAGCCCGAAGGCAATGGTGCGAG
1 TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG
* *
74107797 CTATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG
1 TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG
* * *
74107836 TTGTGATATCCGGGTTAAGTCCGAAGGCATTTGTGCG
1 TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCG
74107873 GGTTACCATA
Statistics
Matches: 136, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 136 1.00
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (39 bp):
TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG
Found at i:74107888 original size:39 final size:39
Alignment explanation
Indices: 74107689--74107902 Score: 158
Period size: 39 Copynumber: 5.5 Consensus size: 39
74107679 ATTGTGATAT
** * ** ** *
74107689 CCGGGCTAAACCCGAAGGCAAATGTGCGAAATATGATAT
1 CCGGGCTAAGTCCGAAGGCAATTGTGCGAGTTACCATAA
* * *** *
74107728 CCGGGCTAAGCCCAAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCGAAGGCAATTGTGCGAGTTACCATAA
* * * ** *
74107767 CCGGGCTAAGCCCGAAGGCAATGGTGCGAGCTATGATAT
1 CCGGGCTAAGTCCGAAGGCAATTGTGCGAGTTACCATAA
* *** *
74107806 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCGAAGGCAATTGTGCGAGTTACCATAA
* * *
74107845 CCGGGTTAAGTCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCGAAGGCAATTGTGCGAGTTACCATAA
*
74107884 CCGGGCTATGTCCCGAAGG
1 CCGGGCTAAGT-CCGAAGG
74107903 TGTTTGAACG
Statistics
Matches: 151, Mismatches: 23, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 144 0.95
40 7 0.05
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.21
Consensus pattern (39 bp):
CCGGGCTAAGTCCGAAGGCAATTGTGCGAGTTACCATAA
Found at i:74107888 original size:78 final size:78
Alignment explanation
Indices: 74107680--74107902 Score: 268
Period size: 78 Copynumber: 2.8 Consensus size: 78
74107670 AATGTGCAAA
* ** ** * *
74107680 TTGTGATATCCGGGCTAAACCCGAAGGCAAAT-GTGCGAAATATGATATCCGGGCTAAGCCCAAA
1 TTGTGATATCCGGGCTAAGCCCGAAGGC-AATGGTGCGAGCTACCATAACCGGGCTAAGCCCGAA
74107744 GGCAATTGTGCGAG
65 GGCAATTGTGCGAG
** *
74107758 TTGTGATATCCGGGCTAAGCCCGAAGGCAATGGTGCGAGCTATGATATCCGGGCTAAGCCCGAAG
1 TTGTGATATCCGGGCTAAGCCCGAAGGCAATGGTGCGAGCTACCATAACCGGGCTAAGCCCGAAG
74107823 GCAATTGTGCGAG
66 GCAATTGTGCGAG
* * * * * * *
74107836 TTGTGATATCCGGGTTAAGTCCGAAGGCATTTGTGCGGGTTACCATAACCGGGCTATGTCCCGAA
1 TTGTGATATCCGGGCTAAGCCCGAAGGCAATGGTGCGAGCTACCATAACCGGGCTAAG-CCCGAA
74107901 GG
65 GG
74107903 TGTTTGAACG
Statistics
Matches: 129, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
77 3 0.02
78 118 0.91
79 8 0.06
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (78 bp):
TTGTGATATCCGGGCTAAGCCCGAAGGCAATGGTGCGAGCTACCATAACCGGGCTAAGCCCGAAG
GCAATTGTGCGAG
Found at i:74107889 original size:117 final size:118
Alignment explanation
Indices: 74107683--74107902 Score: 298
Period size: 117 Copynumber: 1.9 Consensus size: 118
74107673 GTGCAAATTG
74107683 TGATATCCGGGCTAAACCCGAAGGCAAATGTGCGAAATATGATATCCGGGCTAAGCCCAAAGGCA
1 TGATATCCGGGCTAAACCCGAAGGCAAATGTGCGAAATATGATATCCGGGCTAAGCCCAAAGGCA
*** *
74107748 ATTGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAATGGTGCGAGCTA
66 ATTGTGCGAGTTACCATAACCGGGCTAAGTCCCGAAGGCAATGGTGCGAGCTA
* * ** * * * *
74107800 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCGAAGGCA
1 TGATATCCGGGCTAAACCCGAAGGCAAATGTGCGAAATATGATATCCGGGCTAAGCCCAAAGGCA
* * *
74107865 TTTGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
66 ATTGTGCGAGTTACCATAACCGGGCTAAGTCCCGAAGG
74107903 TGTTTGAACG
Statistics
Matches: 87, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
117 79 0.91
118 8 0.09
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (118 bp):
TGATATCCGGGCTAAACCCGAAGGCAAATGTGCGAAATATGATATCCGGGCTAAGCCCAAAGGCA
ATTGTGCGAGTTACCATAACCGGGCTAAGTCCCGAAGGCAATGGTGCGAGCTA
Found at i:74111596 original size:40 final size:39
Alignment explanation
Indices: 74111432--74111614 Score: 129
Period size: 40 Copynumber: 4.6 Consensus size: 39
74111422 AAATTGAATG
* * *
74111432 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
74111472 ATAACCGGGTTAAGA-CCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
74111511 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
74111551 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
74111590 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
74111615 CTTGGTGCGG
Statistics
Matches: 111, Mismatches: 26, Indels: 12
0.74 0.17 0.08
Matches are distributed among these distances:
36 4 0.04
37 2 0.02
38 2 0.02
39 21 0.19
40 82 0.74
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:74119700 original size:40 final size:39
Alignment explanation
Indices: 74119535--74119718 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
74119525 AAATTGAATG
* * *
74119535 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
74119575 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
74119615 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
74119655 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
74119694 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
74119719 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:74119743 original size:80 final size:81
Alignment explanation
Indices: 74119575--74119763 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
74119565 GCTGGAAATT
* * * *
74119575 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
74119640 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
74119656 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
74119719 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
74119735 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
74119764 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:74121238 original size:86 final size:86
Alignment explanation
Indices: 74121093--74121250 Score: 307
Period size: 86 Copynumber: 1.8 Consensus size: 86
74121083 ATGGATGGGC
*
74121093 AAAACAAGTGAACTTGGCTTGCTAACCCCTCGTGTCCGACACCGGCGATGGTCTCGGGTTCGGGG
1 AAAACAAGTGAACTTGGCTTGCTAACCCCTCGTGTCCAACACCGGCGATGGTCTCGGGTTCGGGG
74121158 TGTTACAATTTATTGGTATCA
66 TGTTACAATTTATTGGTATCA
74121179 AAAACAAGTGAACTTGGCTTGCTAACCCCTCGTGTCCAACACCGGCGATGGTCTCGGGTTCGGGG
1 AAAACAAGTGAACTTGGCTTGCTAACCCCTCGTGTCCAACACCGGCGATGGTCTCGGGTTCGGGG
74121244 TGTTACA
66 TGTTACA
74121251 GTCGCCCTCG
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 71 1.00
ACGTcount: A:0.22, C:0.25, G:0.27, T:0.26
Consensus pattern (86 bp):
AAAACAAGTGAACTTGGCTTGCTAACCCCTCGTGTCCAACACCGGCGATGGTCTCGGGTTCGGGG
TGTTACAATTTATTGGTATCA
Found at i:74123061 original size:26 final size:26
Alignment explanation
Indices: 74123032--74123083 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
74123022 GCTGGTCGTT
74123032 GCCAAACATTTCCGTACTTCTTAATG
1 GCCAAACATTTCCGTACTTCTTAATG
74123058 GCCAAACATTTCCGTACTTCTTAATG
1 GCCAAACATTTCCGTACTTCTTAATG
74123084 AGCATATACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
GCCAAACATTTCCGTACTTCTTAATG
Found at i:74123851 original size:29 final size:28
Alignment explanation
Indices: 74123763--74123864 Score: 82
Period size: 29 Copynumber: 3.5 Consensus size: 28
74123753 TACTCAATCA
* *
74123763 CGCACACTTAGTGCCACGT-GATTCAAGCC
1 CGCACACTTAGTG-C-CGTACATTCAAGCT
* * * *
74123792 CGCACACATAGTGCCATATAGTCCCAA-CT
1 CGCACACTTAGTGCCGTACA-T-TCAAGCT
74123821 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCGTACATT-CAAGCT
*
74123850 CGCACACTCAGTGCC
1 CGCACACTTAGTGCC
74123865 AATCTCGTCA
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
27 2 0.03
28 6 0.10
29 47 0.81
30 3 0.05
ACGTcount: A:0.26, C:0.35, G:0.18, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCGTACATTCAAGCT
Found at i:74126363 original size:30 final size:30
Alignment explanation
Indices: 74126329--74126389 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
74126319 TTCCCGAGCC
*
74126329 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
* * *
74126359 TAGGGGAAAAATTGTAAATTTGCCAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
74126389 T
1 T
74126390 GAGTTAGGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.41, C:0.07, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:74127303 original size:49 final size:50
Alignment explanation
Indices: 74127172--74127305 Score: 207
Period size: 50 Copynumber: 2.7 Consensus size: 50
74127162 TATATGTAGC
* *
74127172 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATAGT
1 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAAT
* * * *
74127222 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAAT
1 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAAT
74127272 T-GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
74127306 TGCATACCAG
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
49 31 0.41
50 45 0.59
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (50 bp):
TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAAT
Found at i:74133752 original size:24 final size:24
Alignment explanation
Indices: 74133716--74133857 Score: 169
Period size: 24 Copynumber: 6.0 Consensus size: 24
74133706 TACCAATATA
** *
74133716 TCAGCTCACTAGAGCTTCCTGTTC
1 TCAGCTCGTTAGAGCTTACTGTTC
*
74133740 TCAGCTCGTTAGATCTTACTGTTC
1 TCAGCTCGTTAGAGCTTACTGTTC
** *
74133764 TCAGCTTATTAGATCTTACTGTTC
1 TCAGCTCGTTAGAGCTTACTGTTC
* * *
74133788 TCAACACGTTAGAGCTTACAGTTC
1 TCAGCTCGTTAGAGCTTACTGTTC
*
74133812 TCAGCTCGTTAGAGCTAACTGTT-
1 TCAGCTCGTTAGAGCTTACTGTTC
*
74133835 TCAGCTCGATAGAGCTTACTGTT
1 TCAGCTCGTTAGAGCTTACTGTT
74133858 TAAAAGCTCA
Statistics
Matches: 100, Mismatches: 18, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
23 21 0.21
24 79 0.79
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.37
Consensus pattern (24 bp):
TCAGCTCGTTAGAGCTTACTGTTC
Found at i:74133814 original size:72 final size:71
Alignment explanation
Indices: 74133725--74133857 Score: 187
Period size: 72 Copynumber: 1.9 Consensus size: 71
74133715 ATCAGCTCAC
* * * * * *
74133725 TAGAGCTTCCTGTTCTCAGCTCGTTAGATCTTACTGTTCTCAGCT-TATTAGATCTTACTGTTCT
1 TAGAGCTTACAGTTCTCAGCTCGTTAGAGCTAACTGTT-TCAGCTCGA-TAGAGCTTACTGTTCT
74133789 CAACACGT
64 CAACACGT
74133797 TAGAGCTTACAGTTCTCAGCTCGTTAGAGCTAACTGTTTCAGCTCGATAGAGCTTACTGTT
1 TAGAGCTTACAGTTCTCAGCTCGTTAGAGCTAACTGTTTCAGCTCGATAGAGCTTACTGTT
74133858 TAAAAGCTCA
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
71 19 0.35
72 35 0.65
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (71 bp):
TAGAGCTTACAGTTCTCAGCTCGTTAGAGCTAACTGTTTCAGCTCGATAGAGCTTACTGTTCTCA
ACACGT
Found at i:74134098 original size:20 final size:20
Alignment explanation
Indices: 74134075--74134116 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
74134065 GTTATTATTG
*
74134075 ATGAACTACTGGTTATATGA
1 ATGAACTACAGGTTATATGA
* *
74134095 ATGAAGTACAGTTTATATGA
1 ATGAACTACAGGTTATATGA
74134115 AT
1 AT
74134117 AGAAATGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.07, G:0.19, T:0.36
Consensus pattern (20 bp):
ATGAACTACAGGTTATATGA
Found at i:74137228 original size:92 final size:92
Alignment explanation
Indices: 74137071--74137240 Score: 297
Period size: 92 Copynumber: 1.8 Consensus size: 92
74137061 CGCCCATAAG
* *
74137071 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAGTGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAGTGAACTCGGACTCAACTCAA
74137136 CGAGTTCGGATGCCTAGTTACATCTCA
66 CGAGTTCGGATGCCTAGTTACATCTCA
*
74137163 CGAACTCGGACTCAACTCAACGAGTTCGGACATT-GCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCAT-AGTGAACTCGGACTCAACTCA
74137227 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
74137241 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
91 8 0.11
92 66 0.89
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCA
Found at i:74137237 original size:45 final size:45
Alignment explanation
Indices: 74137064--74137237 Score: 203
Period size: 45 Copynumber: 3.8 Consensus size: 45
74137054 TGTAACCCGC
* * *
74137064 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATT-GCAT
* *
74137110 CCAT-AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTGCAT
*
74137159 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTGCAT
*
74137201 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
74137238 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 9, Indels: 19
0.80 0.07 0.14
Matches are distributed among these distances:
42 5 0.05
43 2 0.02
44 3 0.03
45 58 0.53
46 4 0.04
47 30 0.27
48 3 0.03
49 3 0.03
50 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTGCAT
Found at i:74139635 original size:15 final size:15
Alignment explanation
Indices: 74139613--74139660 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
74139603 AAGAAACCGA
74139613 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
74139628 ATAGAGAAATCC-AG
1 ATAAAGAAATCCAAG
*
74139642 AATAAAGAAACCCAAG
1 -ATAAAGAAATCCAAG
74139658 ATA
1 ATA
74139661 CGATACTATG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 2 0.07
15 24 0.86
16 2 0.07
ACGTcount: A:0.58, C:0.15, G:0.15, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:74139645 original size:30 final size:28
Alignment explanation
Indices: 74139604--74139660 Score: 87
Period size: 30 Copynumber: 2.0 Consensus size: 28
74139594 AAAGATAACA
*
74139604 AGAAACCGAATAAAGAAATCCAAGATAG
1 AGAAACCGAATAAAGAAACCCAAGATAG
74139632 AGAAATCCAGAATAAAGAAACCCAAGATA
1 AGAAA-CC-GAATAAAGAAACCCAAGATA
74139661 CGATACTATG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 5 0.19
29 2 0.08
30 19 0.73
ACGTcount: A:0.58, C:0.16, G:0.16, T:0.11
Consensus pattern (28 bp):
AGAAACCGAATAAAGAAACCCAAGATAG
Found at i:74148892 original size:11 final size:11
Alignment explanation
Indices: 74148873--74148942 Score: 52
Period size: 11 Copynumber: 6.3 Consensus size: 11
74148863 AGGTCGAACC
*
74148873 TTTTCTCTTTT
1 TTTTTTCTTTT
74148884 TTTTTTCTTTT
1 TTTTTTCTTTT
* *
74148895 TTTATTCTTTA
1 TTTTTTCTTTT
*
74148906 TTTATTCTTTAT
1 TTTTTTCTTT-T
*
74148918 TTTATTT-TATT
1 TTT-TTTCTTTT
* *
74148929 TTATTTATTTT
1 TTTTTTCTTTT
74148940 TTT
1 TTT
74148943 AGGGCATTTG
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
10 3 0.06
11 37 0.79
12 5 0.11
13 2 0.04
ACGTcount: A:0.11, C:0.07, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:74148903 original size:22 final size:22
Alignment explanation
Indices: 74148878--74148943 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
74148868 GAACCTTTTC
74148878 TCTTTTTTTTTTCTTTTTTTAT
1 TCTTTTTTTTTTCTTTTTTTAT
* *
74148900 TCTTTATTTATTCTTTATTTTAT
1 TCTTTTTTTTTTCTTT-TTTTAT
* *
74148923 T-TTATTTTATTTATTTTTTTA
1 TCTT-TTTTTTTTCTTTTTTTA
74148944 GGGCATTTGC
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
22 21 0.58
23 15 0.42
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.80
Consensus pattern (22 bp):
TCTTTTTTTTTTCTTTTTTTAT
Found at i:74149764 original size:3 final size:3
Alignment explanation
Indices: 74149756--74149790 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
74149746 ACTTTCAAAA
74149756 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
74149791 CATCATCATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:74149795 original size:3 final size:3
Alignment explanation
Indices: 74149789--74149838 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
74149779 TATTATTATT
74149789 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
74149837 AT
1 AT
74149839 TCATTTTTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Done.