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 131 of 425
Found at i:39212572 original size:27 final size:27
Alignment explanation
Indices: 39212342--39212628 Score: 177
Period size: 27 Copynumber: 10.6 Consensus size: 27
39212332 TTGGTAAATC
*
39212342 TACAAACCAAGGGTATTTTAGTAATTT
1 TACAAATCAAGGGTATTTTAGTAATTT
** * *
39212369 TGTAAACCAATGGTATTTCTA-TAATTTT
1 TACAAATCAAGGGTATTT-TAGTAA-TTT
* *
39212397 TAGAAAGTCAAGGGTATTTCT-GTAACTT
1 TACAAA-TCAAGGGTATTT-TAGTAATTT
** *
39212425 TGTAAATCAGGGGTATTTT-GATAATTT
1 TACAAATCAAGGGTATTTTAG-TAATTT
** **
39212452 TACAAATTGAGGGTATTTCGGTAATTT
1 TACAAATCAAGGGTATTTTAGTAATTT
* * *
39212479 CACAAACCAAGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTTAGTAATTT
* *
39212506 TACAAA-CTAGGGGTATTTTGGTAATTT
1 TACAAATC-AAGGGTATTTTAGTAATTT
*
39212533 TACAAACCAAGGGTATTTTAGTAATTT
1 TACAAATCAAGGGTATTTTAGTAATTT
** * **** *
39212560 TGTAAATCGAGGGTAAAACAGTAATTC
1 TACAAATCAAGGGTATTTTAGTAATTT
* *** *
39212587 TATAAATCAAGGGTAAAATAGTAATTC
1 TACAAATCAAGGGTATTTTAGTAATTT
* *
39212614 TATAAATTAAGGGTA
1 TACAAATCAAGGGTA
39212629 AAATAGTAAT
Statistics
Matches: 212, Mismatches: 40, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
26 3 0.01
27 177 0.83
28 17 0.08
29 15 0.07
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.37
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTTAGTAATTT
Found at i:39212601 original size:81 final size:81
Alignment explanation
Indices: 39212526--39212756 Score: 196
Period size: 81 Copynumber: 2.9 Consensus size: 81
39212516 GGGTATTTTG
* *** ** *
39212526 GTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATA
1 GTAATTCTACAAACCAAGGGTAAAATAGTAATTCAGTAAATCAAGGGTAAAACAGTAATTCTATA
39212591 AATCAAGGGTAAAATA
66 AATCAAGGGTAAAATA
* ** * *
39212607 GTAATTCTATAAATTAAGGGTAAAATAGTAATTCAGTAAATCAAGGGTAAAACGGTAATTCTGTA
1 GTAATTCTACAAACCAAGGGTAAAATAGTAATTCAGTAAATCAAGGGTAAAACAGTAATTCTATA
* * *
39212672 AGTCGAGGGTAAAA-C
66 AATCAAGGGTAAAATA
* ** * * ** ** * *
39212687 GATAATTATGTAAATCAGGGGTAAAACGGTAATT-ATGTAAATCGGGGGTAAAACGGTAATTCTG
1 G-TAATTCTACAAACCAAGGGTAAAATAGTAATTCA-GTAAATCAAGGGTAAAACAGTAATTCTA
39212751 TAAATC
64 TAAATC
39212757 GGAGGTACTT
Statistics
Matches: 124, Mismatches: 24, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
80 2 0.02
81 122 0.98
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (81 bp):
GTAATTCTACAAACCAAGGGTAAAATAGTAATTCAGTAAATCAAGGGTAAAACAGTAATTCTATA
AATCAAGGGTAAAATA
Found at i:39212758 original size:27 final size:27
Alignment explanation
Indices: 39212553--39212756 Score: 237
Period size: 27 Copynumber: 7.6 Consensus size: 27
39212543 GGGTATTTTA
* * *
39212553 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCAAGGGTAAAACG
* **
39212580 GTAATTCTATAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCAAGGGTAAAACG
* * **
39212607 GTAATTCTATAAATTAAGGGTAAAATA
1 GTAATTCTGTAAATCAAGGGTAAAACG
*
39212634 GTAATTCAGTAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCAAGGGTAAAACG
* *
39212661 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCAAGGGTAAAACG
* * *
39212688 ATAATTATGTAAATCAGGGGTAAAACG
1 GTAATTCTGTAAATCAAGGGTAAAACG
* **
39212715 GTAATTATGTAAATCGGGGGTAAAACG
1 GTAATTCTGTAAATCAAGGGTAAAACG
39212742 GTAATTCTGTAAATC
1 GTAATTCTGTAAATC
39212757 GGAGGTACTT
Statistics
Matches: 156, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 156 1.00
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCAAGGGTAAAACG
Found at i:39218301 original size:46 final size:46
Alignment explanation
Indices: 39218250--39218425 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
39218240 TGGTTGAGCA
39218250 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
39218296 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
39218341 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
39218389 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
39218426 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:39218406 original size:93 final size:93
Alignment explanation
Indices: 39218247--39218417 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
39218237 GGATGGTTGA
* *
39218247 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
39218312 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
39218340 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
39218405 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
39218418 ACTTATGGGC
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:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:39221960 original size:50 final size:50
Alignment explanation
Indices: 39221900--39221998 Score: 189
Period size: 50 Copynumber: 2.0 Consensus size: 50
39221890 TGTCTGTTCT
*
39221900 GTTCTGGAATGGGCCTATGGGCCATACTGCTATCTGAAAAGGGGCTAAGA
1 GTTCTAGAATGGGCCTATGGGCCATACTGCTATCTGAAAAGGGGCTAAGA
39221950 GTTCTAGAATGGGCCTATGGGCCATACTGCTATCTGAAAAGGGGCTAAG
1 GTTCTAGAATGGGCCTATGGGCCATACTGCTATCTGAAAAGGGGCTAAG
39221999 GCCCAGTTTA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.24
Consensus pattern (50 bp):
GTTCTAGAATGGGCCTATGGGCCATACTGCTATCTGAAAAGGGGCTAAGA
Found at i:39233572 original size:21 final size:20
Alignment explanation
Indices: 39233548--39233595 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
39233538 GACAAAATGC
39233548 ATTCAACCTAACACAAATTAA
1 ATTCAACCTAA-ACAAATTAA
* * *
39233569 ATTCAAGCTAAGCTAATTAA
1 ATTCAACCTAAACAAATTAA
39233589 ATT-AACC
1 ATTCAACC
39233596 ATTCCAACAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 3 0.13
20 10 0.43
21 10 0.43
ACGTcount: A:0.48, C:0.21, G:0.04, T:0.27
Consensus pattern (20 bp):
ATTCAACCTAAACAAATTAA
Found at i:39235336 original size:29 final size:30
Alignment explanation
Indices: 39235282--39235340 Score: 77
Period size: 28 Copynumber: 2.0 Consensus size: 30
39235272 CCTTTTGAAG
* *
39235282 ATATTTACAAAAAGAGGCATCTAATTTTTA
1 ATATTTACAAAAAGAGGCAACAAATTTTTA
*
39235312 ATATTTAC-AAAAGA-GCAACAAAATTTTA
1 ATATTTACAAAAAGAGGCAACAAATTTTTA
39235340 A
1 A
39235341 AAATAGTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 12 0.46
29 6 0.23
30 8 0.31
ACGTcount: A:0.49, C:0.10, G:0.08, T:0.32
Consensus pattern (30 bp):
ATATTTACAAAAAGAGGCAACAAATTTTTA
Found at i:39237617 original size:43 final size:43
Alignment explanation
Indices: 39237547--39237638 Score: 109
Period size: 43 Copynumber: 2.1 Consensus size: 43
39237537 TTTGGGATGT
*
39237547 TGGCATCGATATGTGTTCTTTTGTAAGACC-CTGTCTAGGACAG
1 TGGCATCGATATGTGTTCTATTGTAAGACCAC-GTCTAGGACAG
* *
39237590 TGGCATCGATATGTGATTAC-ATT-TAAGACCACGTCTGGGACAT
1 TGGCATCGATATGTG-TT-CTATTGTAAGACCACGTCTAGGACAG
39237633 TGGCAT
1 TGGCAT
39237639 TATACGATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
43 37 0.86
44 5 0.12
45 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (43 bp):
TGGCATCGATATGTGTTCTATTGTAAGACCACGTCTAGGACAG
Found at i:39241009 original size:26 final size:27
Alignment explanation
Indices: 39240980--39241038 Score: 111
Period size: 26 Copynumber: 2.2 Consensus size: 27
39240970 TAGCCAAATG
39240980 AATCATTTCATTAATACGCA-TCACAT
1 AATCATTTCATTAATACGCATTCACAT
39241006 AATCATTTCATTAATACGCATTCACAT
1 AATCATTTCATTAATACGCATTCACAT
39241033 AATCAT
1 AATCAT
39241039 ACTTACTTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 20 0.62
27 12 0.38
ACGTcount: A:0.39, C:0.22, G:0.03, T:0.36
Consensus pattern (27 bp):
AATCATTTCATTAATACGCATTCACAT
Found at i:39241300 original size:40 final size:39
Alignment explanation
Indices: 39241255--39241462 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
39241245 CGGAATACAA
*
39241255 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
39241295 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
39241335 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
39241375 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
39241415 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
39241455 CCGGATAT
1 CCGGATAT
39241463 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:39241395 original size:80 final size:81
Alignment explanation
Indices: 39241255--39241460 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
39241245 CGGAATACAA
* * *
39241255 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
39241319 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
39241335 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
39241398 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
39241415 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
39241461 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 104 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:39249096 original size:27 final size:27
Alignment explanation
Indices: 39249064--39249123 Score: 120
Period size: 27 Copynumber: 2.2 Consensus size: 27
39249054 TAGCCAAATG
39249064 AATCATTTCATTAATACGCATTCACAT
1 AATCATTTCATTAATACGCATTCACAT
39249091 AATCATTTCATTAATACGCATTCACAT
1 AATCATTTCATTAATACGCATTCACAT
39249118 AATCAT
1 AATCAT
39249124 ACTTACTTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.38, C:0.22, G:0.03, T:0.37
Consensus pattern (27 bp):
AATCATTTCATTAATACGCATTCACAT
Found at i:39249399 original size:40 final size:40
Alignment explanation
Indices: 39249340--39249547 Score: 229
Period size: 40 Copynumber: 5.2 Consensus size: 40
39249330 CAGAATACAA
* * *
39249340 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
* *
39249380 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
39249420 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
39249460 CCGGATGTAGTC-ACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACGACTTGCACAAATGCCTTCGGGTCTTAGC
** * * * *
39249500 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
39249540 CCGGATAT
1 CCGGATAT
39249548 CATTCAATTG
Statistics
Matches: 142, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
40 141 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:39257192 original size:40 final size:40
Alignment explanation
Indices: 39257118--39257299 Score: 224
Period size: 40 Copynumber: 4.6 Consensus size: 40
39257108 AACCCAAGTA
* * *
39257118 CCTTCGGGATTTAG-CCGGATAT-AGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAA-TAGCACAAATG
* * *
39257157 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
* * *
39257197 CCTTCGGGACTTAGCCCGGATATAATCACTAGAACAAATT
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
* * *
39257237 CCTTCGCGACATAGCCCGGATATAATCAATAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
*
39257277 CCTTCGGGACTTAACCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
39257300 CATTCGAATA
Statistics
Matches: 120, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 12 0.10
40 105 0.88
41 3 0.03
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
Found at i:39262835 original size:29 final size:28
Alignment explanation
Indices: 39262801--39262903 Score: 127
Period size: 29 Copynumber: 3.6 Consensus size: 28
39262791 TAATCGATCA
*
39262801 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCAT-TAATTTAAGCT
*
39262830 CGCACACATAGTGCCATATAATTTAAGCT
1 CGCACACTTAGTGCCAT-TAATTTAAGCT
*
39262859 CGTACACTTAGTGCCA-TACATTTCAAGCT
1 CGCACACTTAGTGCCATTA-ATTT-AAGCT
*
39262888 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
39262904 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
27 2 0.03
28 4 0.06
29 59 0.91
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCCATTAATTTAAGCT
Found at i:39270865 original size:29 final size:28
Alignment explanation
Indices: 39270831--39270933 Score: 127
Period size: 29 Copynumber: 3.6 Consensus size: 28
39270821 TAATCGATCA
*
39270831 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCAT-TAATTTAAGCT
*
39270860 CGCACACATAGTGCCATATAATTTAAGCT
1 CGCACACTTAGTGCCAT-TAATTTAAGCT
*
39270889 CGTACACTTAGTGCCA-TACATTTCAAGCT
1 CGCACACTTAGTGCCATTA-ATTT-AAGCT
*
39270918 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
39270934 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
27 2 0.03
28 4 0.06
29 59 0.91
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCCATTAATTTAAGCT
Found at i:39272811 original size:48 final size:48
Alignment explanation
Indices: 39272753--39273094 Score: 513
Period size: 48 Copynumber: 7.0 Consensus size: 48
39272743 ATATACACAC
* * *
39272753 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
39272801 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
39272849 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * * *
39272897 ATCTCATATATATTTCACATTAGCCATACGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
39272945 ATCTCATACATATTTCACACTAGCCATTCAGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
** * * * *
39272993 ATCTCATTTATATTTCACATTAGCCATACGGCGTTACCACATATATATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC----ATATACAT
39273045 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
39273093 AT
1 AT
39273095 ATTTTTCTTG
Statistics
Matches: 265, Mismatches: 25, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
48 223 0.84
52 42 0.16
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:39279314 original size:40 final size:40
Alignment explanation
Indices: 39279240--39279461 Score: 304
Period size: 40 Copynumber: 5.6 Consensus size: 40
39279230 AACCCAAGTA
* * *
39279240 CCTTCGGGATTTAG-CCGGATAT-AGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAA-TAGCACAAATG
* * *
39279279 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
* * *
39279319 CCTTCGGGACTTAGCCCGGATATAATCACTAGAACAAATT
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
39279359 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
* * *
39279399 CCTTCGGGACTTAGCCCGGATATAATCACTATCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
*
39279439 CCTTCGGGACTTAACCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
39279462 CATTCGAATA
Statistics
Matches: 162, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 12 0.07
40 147 0.91
41 3 0.02
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
Found at i:39285022 original size:29 final size:29
Alignment explanation
Indices: 39284989--39285149 Score: 153
Period size: 29 Copynumber: 5.6 Consensus size: 29
39284979 GTGACGAGAT
39284989 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
39285018 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * *
39285047 TGGCACTAAGTGTGCATGCTAGAAGTATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
39285076 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
39285105 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
39285134 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
39285150 AAATCGAGTA
Statistics
Matches: 111, Mismatches: 20, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 2 0.02
29 109 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:39285186 original size:2 final size:2
Alignment explanation
Indices: 39285181--39285209 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
39285171 GTGTGCGTAC
39285181 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 T
39285210 CTCCGATCGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:39290520 original size:20 final size:20
Alignment explanation
Indices: 39290495--39290548 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
39290485 TATTGATATG
*
39290495 TTTTCTTTTAGAACTCACTC
1 TTTTCTTTTAGAACTCACTA
39290515 TTTTCTTTTAGAACTCACTA
1 TTTTCTTTTAGAACTCACTA
39290535 TTTTCTTTT-GAACT
1 TTTTCTTTTAGAACT
39290549 TAGTTACCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 5 0.15
20 28 0.85
ACGTcount: A:0.20, C:0.20, G:0.06, T:0.54
Consensus pattern (20 bp):
TTTTCTTTTAGAACTCACTA
Found at i:39291263 original size:30 final size:30
Alignment explanation
Indices: 39291227--39291320 Score: 89
Period size: 30 Copynumber: 3.1 Consensus size: 30
39291217 ATTGATCAAG
* * *
39291227 CAAGCTAAAAGTATATCAGGGTTGCTCACA
1 CAAGCTAAAAGTATAACAAGATTGCTCACA
* *
39291257 CAAGCTAACATTATAACAAGATTGCTCACA
1 CAAGCTAAAAGTATAACAAGATTGCTCACA
* * * * * *
39291287 CAAGTTGACACTATAACAAGGTTGCTCACC
1 CAAGCTAAAAGTATAACAAGATTGCTCACA
39291317 CAAG
1 CAAG
39291321 TTGAGATTAT
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.22
Consensus pattern (30 bp):
CAAGCTAAAAGTATAACAAGATTGCTCACA
Found at i:39291339 original size:30 final size:30
Alignment explanation
Indices: 39291246--39291331 Score: 118
Period size: 30 Copynumber: 2.9 Consensus size: 30
39291236 AGTATATCAG
* *
39291246 GGTTGCTCACACAAGCTAACATTATAACAA
1 GGTTGCTCACACAAGTTGACATTATAACAA
* *
39291276 GATTGCTCACACAAGTTGACACTATAACAA
1 GGTTGCTCACACAAGTTGACATTATAACAA
* *
39291306 GGTTGCTCACCCAAGTTGAGATTATA
1 GGTTGCTCACACAAGTTGACATTATA
39291332 TCGAGGTTAC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (30 bp):
GGTTGCTCACACAAGTTGACATTATAACAA
Found at i:39291724 original size:7 final size:7
Alignment explanation
Indices: 39291714--39291760 Score: 85
Period size: 7 Copynumber: 6.7 Consensus size: 7
39291704 AAAAAAAACA
*
39291714 TAAAACC
1 TAAACCC
39291721 TAAACCC
1 TAAACCC
39291728 TAAACCC
1 TAAACCC
39291735 TAAACCC
1 TAAACCC
39291742 TAAACCC
1 TAAACCC
39291749 TAAACCC
1 TAAACCC
39291756 TAAAC
1 TAAAC
39291761 TAGTAAGTCC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.47, C:0.38, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAACCC
Found at i:39304456 original size:43 final size:44
Alignment explanation
Indices: 39304409--39304513 Score: 144
Period size: 43 Copynumber: 2.5 Consensus size: 44
39304399 ATGCTGATAG
* *
39304409 CCCAG-CTATGGTGTTACACGAAATCAAATAGCGATGCCAATGT
1 CCCAGACTATGGTCTTACACGAAATCAAATAACGATGCCAATGT
* * *
39304452 CCCAGACT-TGGTCTTACACGTAATCACATAATGATGCCAATGT
1 CCCAGACTATGGTCTTACACGAAATCAAATAACGATGCCAATGT
39304495 CCCAGAC-ATGGTCTTACAC
1 CCCAGACTATGGTCTTACAC
39304514 ATAATCACAT
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
43 53 0.96
44 2 0.04
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (44 bp):
CCCAGACTATGGTCTTACACGAAATCAAATAACGATGCCAATGT
Found at i:39304519 original size:43 final size:43
Alignment explanation
Indices: 39304441--39304523 Score: 148
Period size: 43 Copynumber: 1.9 Consensus size: 43
39304431 ATCAAATAGC
* *
39304441 GATGCCAATGTCCCAGACTTGGTCTTACACGTAATCACATAAT
1 GATGCCAATGTCCCAGACATGGTCTTACACATAATCACATAAT
39304484 GATGCCAATGTCCCAGACATGGTCTTACACATAATCACAT
1 GATGCCAATGTCCCAGACATGGTCTTACACATAATCACAT
39304524 CTCCTTAATC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.27
Consensus pattern (43 bp):
GATGCCAATGTCCCAGACATGGTCTTACACATAATCACATAAT
Found at i:39314176 original size:55 final size:54
Alignment explanation
Indices: 39314089--39314337 Score: 248
Period size: 55 Copynumber: 4.7 Consensus size: 54
39314079 ATTAGGGTTT
*
39314089 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * *
39314144 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * * *
39314199 AAAGG-T-CCTATATAAGAACATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACC-ATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
*
39314252 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * *
39314301 AAGGATACCACGTAAGACCATGACAAGTCATGGCAAT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAAT
39314338 CGTAAGGTAC
Statistics
Matches: 161, Mismatches: 23, Indels: 25
0.77 0.11 0.12
Matches are distributed among these distances:
49 33 0.20
52 7 0.04
53 37 0.23
54 15 0.09
55 65 0.40
56 4 0.02
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:39321762 original size:55 final size:52
Alignment explanation
Indices: 39321652--39321859 Score: 177
Period size: 55 Copynumber: 3.8 Consensus size: 52
39321642 ATTAGGGTTT
** * * **
39321652 AAGGATACCATGTAAGACCATACCAGGGCATGAAAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATG-GCATT-GTAA-G-TTCATAAGGC
* * *
39321707 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATTAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTG-TAAGTT-C-ATAAGGC
* * * *
39321762 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTTGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCA-TTGTAAGTTCATAAGGC
* *
39321815 AAGGATACCATCTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGTCAAGACATGGC-ATTGTAAGTT
39321860 TCAAAAGGAT
Statistics
Matches: 123, Mismatches: 22, Indels: 18
0.75 0.13 0.11
Matches are distributed among these distances:
52 6 0.05
53 41 0.33
54 8 0.07
55 61 0.50
56 7 0.06
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (52 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGTAAGTTCATAAGGC
Found at i:39321847 original size:53 final size:55
Alignment explanation
Indices: 39321701--39321859 Score: 182
Period size: 53 Copynumber: 2.9 Consensus size: 55
39321691 GTAAGGTTTC
* *
39321701 TAAGGCAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTA
1 TAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTA
* * * * *
39321756 TTAGGCAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTTG-TGAGTT-C-A
1 TAAGGC-AAGGATACCATGTAAGACCATGTCAAGACATGGCA-TTGATAAGTTACTA
* * *
39321809 TAAGGCAAGGATACCATCTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 TAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTT
39321860 TCAAAAGGAT
Statistics
Matches: 86, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
52 6 0.07
53 37 0.43
54 1 0.01
55 35 0.41
56 7 0.08
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (55 bp):
TAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTA
Found at i:39324681 original size:43 final size:43
Alignment explanation
Indices: 39324606--39324706 Score: 121
Period size: 43 Copynumber: 2.3 Consensus size: 43
39324596 ACTATTGTCT
* * * *
39324606 TACACGAAATCAAATAACGATGTCACTATCCCAGACATGGTAG
1 TACACGTAATCACATAACGATGCCAATATCCCAGACATGGTAG
* * **
39324649 TACACGTAATCACATAATGATGCCAATGTCCCAGACATGGTCT
1 TACACGTAATCACATAACGATGCCAATATCCCAGACATGGTAG
*
39324692 TACACATAATCACAT
1 TACACGTAATCACAT
39324707 CTCGTTAATC
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.38, C:0.25, G:0.14, T:0.24
Consensus pattern (43 bp):
TACACGTAATCACATAACGATGCCAATATCCCAGACATGGTAG
Found at i:39334467 original size:27 final size:27
Alignment explanation
Indices: 39334437--39334542 Score: 140
Period size: 27 Copynumber: 3.9 Consensus size: 27
39334427 TGCCCTCGAC
* *
39334437 TTGTAAAATCACAAAAATACCCCTGGT
1 TTGTAAAATTACTAAAATACCCCTGGT
* *
39334464 TTGTAAAATTACTAAAATACCCTTTGT
1 TTGTAAAATTACTAAAATACCCCTGGT
* * *
39334491 TTATAAAATTACCAAAATACCCATGGT
1 TTGTAAAATTACTAAAATACCCCTGGT
*
39334518 TTGCAAAATTACTAAAATACCCCTG
1 TTGTAAAATTACTAAAATACCCCTG
39334543 TAGGGTAGAA
Statistics
Matches: 67, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 67 1.00
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
TTGTAAAATTACTAAAATACCCCTGGT
Found at i:39334475 original size:54 final size:54
Alignment explanation
Indices: 39334416--39334539 Score: 151
Period size: 54 Copynumber: 2.3 Consensus size: 54
39334406 TTAGTTTACC
* * * * *
39334416 AATTACTGAAATGCCC-TCGACTTGTAAAATCACAAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTCG-CTTATAAAATCACAAAAATACCCATGGTTTGCAA
* * * *
39334470 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCATGGTTTGCAA
1 AATTACTAAAATACCCTTCGCTTATAAAATCACAAAAATACCCATGGTTTGCAA
39334524 AATTACTAAAATACCC
1 AATTACTAAAATACCC
39334540 CTGTAGGGTA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
54 58 0.97
55 2 0.03
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (54 bp):
AATTACTAAAATACCCTTCGCTTATAAAATCACAAAAATACCCATGGTTTGCAA
Found at i:39334554 original size:27 final size:27
Alignment explanation
Indices: 39334524--39334585 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
39334514 TGGTTTGCAA
*
39334524 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
*
39334551 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
39334578 AATTACCA
1 AATTACCA
39334586 TTTTGCCCCT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGTAGGGTAG
Found at i:39334555 original size:54 final size:54
Alignment explanation
Indices: 39334440--39334566 Score: 148
Period size: 54 Copynumber: 2.4 Consensus size: 54
39334430 CCTCGACTTG
* * * * * **
39334440 TAAAATCACAAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTA
1 TAAAATTACCAAAATACCCATGGTTTGCAAAATTACTAAAATACCCTCTGTGGA
*
39334494 TAAAATTACCAAAATACCCATGGTTTGCAAAATTACTAAAATACCC-CTGTAGGG
1 TAAAATTACCAAAATACCCATGGTTTGCAAAATTACTAAAATACCCTCTGT-GGA
* *
39334548 TAGAATTACCGAAATACCC
1 TAAAATTACCAAAATACCC
39334567 CTGTAGGGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
53 3 0.05
54 59 0.95
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.28
Consensus pattern (54 bp):
TAAAATTACCAAAATACCCATGGTTTGCAAAATTACTAAAATACCCTCTGTGGA
Found at i:39335237 original size:28 final size:28
Alignment explanation
Indices: 39335204--39335300 Score: 169
Period size: 28 Copynumber: 3.5 Consensus size: 28
39335194 GCGTGGATCA
*
39335204 CGAAATTACCCCTAAAGAGCCAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
39335232 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
39335260 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
39335288 CGATA-TACCCCTA
1 CGAAATTACCCCTA
39335301 GGGTTTTAAA
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 8 0.12
28 59 0.88
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:39338331 original size:40 final size:39
Alignment explanation
Indices: 39338245--39338428 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 39
39338235 AAATTGAATG
* * * * *
39338245 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAA-AATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC--AAGTAGT
* * *
39338285 ACATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAG-T
* *
39338325 ATATCCGGGCCAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAG-T
* * * *
39338365 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
* * *
39338404 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
39338429 CTTGGTGCGG
Statistics
Matches: 116, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
38 1 0.01
39 5 0.04
40 108 0.93
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
Found at i:39346440 original size:40 final size:39
Alignment explanation
Indices: 39346354--39346537 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 39
39346344 AAATTGAATG
* * * * *
39346354 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAA-AATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC--AAGTAGT
* * *
39346394 ACATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAG-T
* *
39346434 ATATCCGGGCCAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAG-T
* * * *
39346474 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
* * *
39346513 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
39346538 CTTGGTGCGG
Statistics
Matches: 116, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
38 1 0.01
39 5 0.04
40 108 0.93
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
Found at i:39349750 original size:27 final size:27
Alignment explanation
Indices: 39349720--39349906 Score: 204
Period size: 27 Copynumber: 6.9 Consensus size: 27
39349710 TGCCCTCAAC
* *
39349720 TTGTAAAATCACCAAAATA-CCTCTGGT
1 TTGTAAAATTACTAAAATACCCT-TGGT
39349747 TTGTAAAATTACTAAAATACCCTTGGT
1 TTGTAAAATTACTAAAATACCCTTGGT
** * *
39349774 TTACAAAATTACAAAAATACCCCTGGTT
1 TTGTAAAATTACTAAAATACCCTTGG-T
39349802 TTGTAAAATTACTAAAATACCCTTGGT
1 TTGTAAAATTACTAAAATACCCTTGGT
* * *
39349829 TTATAAAATTACCAAAATACCCATGGT
1 TTGTAAAATTACTAAAATACCCTTGGT
*
39349856 TTGCAAAATTACTAAAATACCCTGTAGG-
1 TTGTAAAATTACTAAAATACCCT-T-GGT
39349884 --GTAAAATTACCT-AAATACCCTTG
1 TTGTAAAATTA-CTAAAATACCCTTG
39349907 TAGGGTAGAA
Statistics
Matches: 137, Mismatches: 18, Indels: 13
0.82 0.11 0.08
Matches are distributed among these distances:
24 1 0.01
25 1 0.01
26 17 0.12
27 89 0.65
28 27 0.20
29 2 0.01
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
TTGTAAAATTACTAAAATACCCTTGGT
Found at i:39349819 original size:82 final size:82
Alignment explanation
Indices: 39349720--39349877 Score: 237
Period size: 82 Copynumber: 1.9 Consensus size: 82
39349710 TGCCCTCAAC
* * *
39349720 TTGTAAAATCACCAAAATA-CCTCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTACAAAATT
1 TTGTAAAATCACCAAAATACCCT-TGGTTTATAAAATTACCAAAATACCCATGGTTTACAAAATT
39349784 ACAAAAATACCCCTGGTT
65 ACAAAAATACCCCTGGTT
* * *
39349802 TTGTAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCATGGTTTGCAAAATTA
1 TTGTAAAATCACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCATGGTTTACAAAATTA
*
39349867 CTAAAATACCC
66 CAAAAATACCC
39349878 TGTAGGGTAA
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
82 65 0.96
83 3 0.04
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.32
Consensus pattern (82 bp):
TTGTAAAATCACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCATGGTTTACAAAATTA
CAAAAATACCCCTGGTT
Found at i:39349820 original size:55 final size:54
Alignment explanation
Indices: 39349724--39349878 Score: 247
Period size: 55 Copynumber: 2.9 Consensus size: 54
39349714 CTCAACTTGT
* *
39349724 AAAATCACCAAAATACCTCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTAC
* *
39349778 AAAATTACAAAAATACCCCTGGTTTTGTAAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCCTGG-TTTGTAAAATTACTAAAATACCCTTGGTTTAC
* *
39349833 AAAATTACCAAAATACCCATGGTTTGCAAAATTACTAAAATACCCT
1 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCT
39349879 GTAGGGTAAA
Statistics
Matches: 93, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
54 42 0.45
55 51 0.55
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.31
Consensus pattern (54 bp):
AAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTAC
Found at i:39349899 original size:26 final size:28
Alignment explanation
Indices: 39349804--39349921 Score: 97
Period size: 27 Copynumber: 4.4 Consensus size: 28
39349794 CCCTGGTTTT
**
39349804 GTAAAATTA-CTAAAATACCCTTGGT-TT
1 GTAAAATTACCTAAAATACCCTT-GTAGG
* * **
39349831 ATAAAATTACC-AAAATACCCATGGT-TT
1 GTAAAATTACCTAAAATACCC-TTGTAGG
*
39349858 GCAAAATTA-CTAAAATACCC-TGTAGG
1 GTAAAATTACCTAAAATACCCTTGTAGG
39349884 GTAAAATTACCT-AAATACCCTTGTAGG
1 GTAAAATTACCTAAAATACCCTTGTAGG
*
39349911 GTAGAATTACC
1 GTAAAATTACC
39349922 ATTTTGCCCC
Statistics
Matches: 76, Mismatches: 9, Indels: 12
0.78 0.09 0.12
Matches are distributed among these distances:
25 2 0.03
26 17 0.22
27 55 0.72
28 2 0.03
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.30
Consensus pattern (28 bp):
GTAAAATTACCTAAAATACCCTTGTAGG
Found at i:39350588 original size:30 final size:29
Alignment explanation
Indices: 39350535--39350621 Score: 158
Period size: 29 Copynumber: 3.0 Consensus size: 29
39350525 GTAGATCACG
39350535 AAATTACCCCTAAAGAGCAAAATTACCGA
1 AAATTACCCCTAAAGAGCAAAATTACCGA
39350564 AAATTACCCCTAAAGAGCCAAAATTACCG-
1 AAATTACCCCTAAAGAG-CAAAATTACCGA
39350593 AAATTACCCCTAAAGAGCAAAATTACCGA
1 AAATTACCCCTAAAGAGCAAAATTACCGA
39350622 TATACCCTAG
Statistics
Matches: 56, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
28 11 0.20
29 34 0.61
30 11 0.20
ACGTcount: A:0.47, C:0.25, G:0.10, T:0.17
Consensus pattern (29 bp):
AAATTACCCCTAAAGAGCAAAATTACCGA
Found at i:39356208 original size:40 final size:40
Alignment explanation
Indices: 39356148--39356368 Score: 320
Period size: 40 Copynumber: 5.5 Consensus size: 40
39356138 CATTTGAATG
39356148 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
*
39356188 ATATTCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
*
39356228 ATATCCGGGCTAAGACCCGAAGGCATTTGTGTGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* *
39356268 ATATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* * * * * * *
39356308 ATGTCCGGGTTAAGACCCGAAGGCAATTGGGCGTGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
39356348 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
39356369 AAACTTGGGT
Statistics
Matches: 165, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
38 1 0.01
39 12 0.07
40 152 0.92
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
Found at i:39358519 original size:20 final size:21
Alignment explanation
Indices: 39358491--39358560 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 21
39358481 AAAGGGGGAA
39358491 TTTGACATGCAAGTCCATTAT
1 TTTGACATGCAAGTCCATTAT
* * *
39358512 TTTG-CATGC-A-TGCTTTAA
1 TTTGACATGCAAGTCCATTAT
* *
39358530 TTAGTCATGCAAGTCCATTAT
1 TTTGACATGCAAGTCCATTAT
39358551 TTTG-CATGCA
1 TTTGACATGCA
39358561 TGCTTTAATT
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
18 8 0.21
19 6 0.16
20 12 0.32
21 12 0.32
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.40
Consensus pattern (21 bp):
TTTGACATGCAAGTCCATTAT
Found at i:39358550 original size:39 final size:39
Alignment explanation
Indices: 39358496--39358576 Score: 162
Period size: 39 Copynumber: 2.1 Consensus size: 39
39358486 GGGAATTTGA
39358496 CATGCAAGTCCATTATTTTGCATGCATGCTTTAATTAGT
1 CATGCAAGTCCATTATTTTGCATGCATGCTTTAATTAGT
39358535 CATGCAAGTCCATTATTTTGCATGCATGCTTTAATTAGT
1 CATGCAAGTCCATTATTTTGCATGCATGCTTTAATTAGT
39358574 CAT
1 CAT
39358577 CACATTTCCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.41
Consensus pattern (39 bp):
CATGCAAGTCCATTATTTTGCATGCATGCTTTAATTAGT
Found at i:39364970 original size:40 final size:40
Alignment explanation
Indices: 39364925--39365092 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
39364915 CGGAATATAA
39364925 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
39364965 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
39365005 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
39365045 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
39365085 CCGGATAT
1 CCGGATAT
39365093 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:39365075 original size:80 final size:80
Alignment explanation
Indices: 39364941--39365090 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
39364931 ATAATCACGT
*
39364941 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
39365005 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
39365021 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
39365084 CCCGGAT
64 CCCGGAT
39365091 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:39372766 original size:21 final size:21
Alignment explanation
Indices: 39372742--39372782 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
39372732 TCATCAGATC
*
39372742 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGAATCGGGGG
**
39372763 TACAGGTTGAGGAATCGGGG
1 TACACCTTGAGGAATCGGGG
39372783 AGGTGGGGGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.17, G:0.41, T:0.20
Consensus pattern (21 bp):
TACACCTTGAGGAATCGGGGG
Found at i:39375036 original size:30 final size:30
Alignment explanation
Indices: 39374991--39375050 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
39374981 ATTTAATACG
*
39374991 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
39375021 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
39375051 GGCTCGGGAA
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:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:39380282 original size:21 final size:21
Alignment explanation
Indices: 39380258--39380299 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
39380248 TCATCAGATC
*
39380258 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGAATCGGGGG
**
39380279 TACAGGTTGAGGAATCGGGGG
1 TACACCTTGAGGAATCGGGGG
39380300 AGGTGGGGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.17, G:0.43, T:0.19
Consensus pattern (21 bp):
TACACCTTGAGGAATCGGGGG
Found at i:39387152 original size:46 final size:46
Alignment explanation
Indices: 39387099--39387266 Score: 151
Period size: 46 Copynumber: 3.8 Consensus size: 46
39387089 TATTTGGGCA
39387099 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * * *
39387145 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
39387192 TCCGAACTC----A-TTGAGT---AGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
39387230 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
39387267 GCGGGTTACA
Statistics
Matches: 95, Mismatches: 12, Indels: 30
0.69 0.09 0.22
Matches are distributed among these distances:
38 8 0.08
39 7 0.07
40 2 0.02
42 11 0.12
43 11 0.12
45 2 0.02
46 43 0.45
47 11 0.12
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:39392852 original size:30 final size:30
Alignment explanation
Indices: 39392816--39392872 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
39392806 ATTTAATACG
*
39392816 AACTTTTGCAAAATTACATTTTTGCCCCTA
1 AACTTTTGCAAAATTACACTTTTGCCCCTA
*
39392846 AACTTTTGCATAATTACACTTTTGCCC
1 AACTTTTGCAAAATTACACTTTTGCCC
39392873 GTAGGCTCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (30 bp):
AACTTTTGCAAAATTACACTTTTGCCCCTA
Found at i:39397270 original size:27 final size:28
Alignment explanation
Indices: 39397214--39397281 Score: 129
Period size: 27 Copynumber: 2.5 Consensus size: 28
39397204 AAATTTGTAC
39397214 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
39397242 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
39397269 AGCACTAAGTGTG
1 AGCACTAAGTGTG
39397282 TGGACTCACT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:39397294 original size:27 final size:27
Alignment explanation
Indices: 39397214--39397295 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
39397204 AAATTTGTAC
* * *
39397214 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
* * *
39397242 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
*
39397269 AGCACTAAGTGTGTG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
39397296 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 1 0.02
27 31 0.63
28 17 0.35
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:39401089 original size:30 final size:30
Alignment explanation
Indices: 39401031--39401089 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
39401021 TTTATGAGCC
* *
39401031 TAGGGGCCAAAGTGCAAATATGTGAAAGTG
1 TAGGGGCCAAAATGCAAATATGTAAAAGTG
* * *
39401061 TAGGGGTCAAAATGCAAATTTTTAAAAGT
1 TAGGGGCCAAAATGCAAATATGTAAAAGT
39401090 ATGATTTTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.39, C:0.08, G:0.27, T:0.25
Consensus pattern (30 bp):
TAGGGGCCAAAATGCAAATATGTAAAAGTG
Found at i:39402096 original size:50 final size:50
Alignment explanation
Indices: 39401715--39402099 Score: 301
Period size: 50 Copynumber: 7.7 Consensus size: 50
39401705 GTCACGTGTA
39401715 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTG
* * ** * ** *
39401765 TAGTACTAAATGCAGGCTACTATGCATACCCG-TT-A-ACTTCGATTAGGTGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCG--CA--TGTG
* * * * * * * * * *
39401816 TAGGACTAAGTACAGGCTACTACATGTATCAGATGGTTAAGTCACGTGTT
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTG
* ** * * *
39401866 TAGTATTTTGTGCAGGCTACTACATGTACTAGATTGATAGGTCGTATGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTG
* * * * * * * *
39401916 TAGTACTAAGTGCAGGCTACTATGAGTACCCG-TTAACTTCGATCACCTGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAGGTCGCATGTG
** * * * * * *
39401967 TAGTACTAAGTGCAGGCTACTACAAGTATCAGATGGTTAAGTCACGTGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTG
39402017 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTG
* * *
39402067 TAGTACTAAGTGCAGGCTAGTATGCGTACCAGA
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGA
39402100 GAGCTTCGGT
Statistics
Matches: 250, Mismatches: 75, Indels: 20
0.72 0.22 0.06
Matches are distributed among these distances:
47 4 0.02
48 1 0.00
49 6 0.02
50 171 0.68
51 63 0.25
52 2 0.01
54 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
TAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTG
Found at i:39402107 original size:151 final size:151
Alignment explanation
Indices: 39401704--39402096 Score: 624
Period size: 151 Copynumber: 2.6 Consensus size: 151
39401694 TTCTGTTGTG
39401704 AGTCACGTGTATAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
1 AGTCACGTGTATAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
* * * **
39401769 ACTAAATGCAGGCTACTATGCATACCCGTTAACTTCGATTAGGTGTGTAGGACTAAGTACAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACCTGTGTAGGACTAAGTACAGGCT
*
39401834 ACTACATGTATCAGATGGTTA
131 ACTACAAGTATCAGATGGTTA
* * ** * * *
39401855 AGTCACGTGTTTAGTATTTTGTGCAGGCTACTACATGTACTAGATTGATAGGTCGTATGTGTAGT
1 AGTCACGTGTATAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
* * *
39401920 ACTAAGTGCAGGCTACTATGAGTACCCGTTAACTTCGATCACCTGTGTAGTACTAAGTGCAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACCTGTGTAGGACTAAGTACAGGCT
39401985 ACTACAAGTATCAGATGGTTA
131 ACTACAAGTATCAGATGGTTA
*
39402006 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
1 AGTCACGTGTATAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
*
39402071 ACTAAGTGCAGGCTAGTATGCGTACC
66 ACTAAGTGCAGGCTACTATGCGTACC
39402097 AGAGAGCTTC
Statistics
Matches: 217, Mismatches: 25, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
151 217 1.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (151 bp):
AGTCACGTGTATAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACCTGTGTAGGACTAAGTACAGGCT
ACTACAAGTATCAGATGGTTA
Found at i:39402320 original size:16 final size:16
Alignment explanation
Indices: 39402299--39402330 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
39402289 AGAAAGGAGT
39402299 AAGTGAAATTTTGTAA
1 AAGTGAAATTTTGTAA
39402315 AAGTGAAATTTTGTAA
1 AAGTGAAATTTTGTAA
39402331 TAAAACAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.38
Consensus pattern (16 bp):
AAGTGAAATTTTGTAA
Found at i:39402941 original size:181 final size:180
Alignment explanation
Indices: 39402631--39402982 Score: 456
Period size: 181 Copynumber: 1.9 Consensus size: 180
39402621 AGTTGTGCCA
* * * * *
39402631 TGAGATAAATAATTTTTAGTGAAGAGAGGTTGGAACTGTAGGACAGTGAAATGGGGGTCTATTTA
1 TGAGATAAATAACTTTTAGTGAAGAGAGGTCGAAACTGTAGGACAGTGAAATAGGGGTATATTTA
* * *
39402696 TTGAATAAACTATACTAATTGGCTAAACCAAAAATTCTGAAAATTTCATGGTAAGAATATATATG
66 ATGAATAAACTATACTAATTGGCTAAACCAAAAATTCTAAAAATTTCATGGTAAGAAGATATATG
* * * *
39402761 AGTTTAGTTTCT-GGGAAAATTAGCGGTTCTCAATTTGGAGTCTCGTACCG
131 AGTCTAGTTT-TAGAGAAAATTAACGGATCTCAATTTGGAGTCTCGTACCG
* *
39402811 TGAGATAAATAACTTTTAGTGAAGAGAGGTCGAAACTGTCA-GATAGGTGAAATAGGGGTATCTT
1 TGAGATAAATAACTTTTAGTGAAGAGAGGTCGAAACTGT-AGGACA-GTGAAATAGGGGTATATT
* * * * * * *
39402875 TAATGAATAAACTGTACTTATTGGGTAGACTAAAATTTCTAAAAATTTTATGGTAAGAAGATATA
64 TAATGAATAAACTATACTAATTGGCTAAACCAAAAATTCTAAAAATTTCATGGTAAGAAGATATA
* *
39402940 TGAGTCTAGTTTTAGATAAAATTAACGGATCTTAATTTGGAGT
129 TGAGTCTAGTTTTAGAGAAAATTAACGGATCTCAATTTGGAGT
39402983 TTCTTAGCTC
Statistics
Matches: 146, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
180 40 0.27
181 106 0.73
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.33
Consensus pattern (180 bp):
TGAGATAAATAACTTTTAGTGAAGAGAGGTCGAAACTGTAGGACAGTGAAATAGGGGTATATTTA
ATGAATAAACTATACTAATTGGCTAAACCAAAAATTCTAAAAATTTCATGGTAAGAAGATATATG
AGTCTAGTTTTAGAGAAAATTAACGGATCTCAATTTGGAGTCTCGTACCG
Found at i:39403665 original size:126 final size:126
Alignment explanation
Indices: 39403432--39403679 Score: 442
Period size: 126 Copynumber: 2.0 Consensus size: 126
39403422 TGTGTTTATA
*
39403432 ATTGGTTGTTATGAATAATTTGTATAACACATGTATATGATGAATGCTCTAAGACCATTCGAGGT
1 ATTGGTTGTTATGAATAATTAGTATAACACATGTATATGATGAATGCTCTAAGACCATTCGAGGT
* *
39403497 TGTCGTGGCCATGGAATGAATGTGTGGCATGGTACTAGGTTGATAATGATTGAATATAATG
66 GGTCGTGGCCATGGAATGAATGTGTGGCATGGTACTAAGTTGATAATGATTGAATATAATG
* *
39403558 ATTGGTTGTTATGAATTATTAGTATAACACATGTATATGATGAATGCTCTAAGATCATTCGAGGT
1 ATTGGTTGTTATGAATAATTAGTATAACACATGTATATGATGAATGCTCTAAGACCATTCGAGGT
*
39403623 GGTCGTGGCCATGGAATGAATGTGTGGCATGGTAGTAAGTTGATAATGATTGAATAT
66 GGTCGTGGCCATGGAATGAATGTGTGGCATGGTACTAAGTTGATAATGATTGAATAT
39403680 GGACAATTGT
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
126 116 1.00
ACGTcount: A:0.30, C:0.09, G:0.26, T:0.35
Consensus pattern (126 bp):
ATTGGTTGTTATGAATAATTAGTATAACACATGTATATGATGAATGCTCTAAGACCATTCGAGGT
GGTCGTGGCCATGGAATGAATGTGTGGCATGGTACTAAGTTGATAATGATTGAATATAATG
Found at i:39406748 original size:27 final size:26
Alignment explanation
Indices: 39406718--39406802 Score: 76
Period size: 26 Copynumber: 3.5 Consensus size: 26
39406708 TTGCCTCAAG
39406718 TTCAAATCTTTTTGAGTCATCAAATAT
1 TTCAAA-CTTTTTGAGTCATCAAATAT
* *
39406745 TTCAAACTTTTT---TGATC----AG
1 TTCAAACTTTTTGAGTCATCAAATAT
*
39406764 TTCAAATCTTTTTGAGTCATCAAATAT
1 TTC-AAACTTTTTGAGTCATCAAATAT
39406791 TTCAAACTTTTT
1 TTCAAACTTTTT
39406803 TTATCAGTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 17
0.66 0.09 0.25
Matches are distributed among these distances:
19 4 0.09
20 8 0.18
23 8 0.18
26 14 0.32
27 10 0.23
ACGTcount: A:0.31, C:0.15, G:0.07, T:0.47
Consensus pattern (26 bp):
TTCAAACTTTTTGAGTCATCAAATAT
Found at i:39406768 original size:46 final size:46
Alignment explanation
Indices: 39406716--39406810 Score: 181
Period size: 46 Copynumber: 2.1 Consensus size: 46
39406706 CTTTGCCTCA
39406716 AGTTCAAATCTTTTTGAGTCATCAAATATTTCAAACTTTTTTGATC
1 AGTTCAAATCTTTTTGAGTCATCAAATATTTCAAACTTTTTTGATC
*
39406762 AGTTCAAATCTTTTTGAGTCATCAAATATTTCAAACTTTTTTTATC
1 AGTTCAAATCTTTTTGAGTCATCAAATATTTCAAACTTTTTTGATC
39406808 AGT
1 AGT
39406811 GAATATTCGG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (46 bp):
AGTTCAAATCTTTTTGAGTCATCAAATATTTCAAACTTTTTTGATC
Found at i:39411700 original size:49 final size:49
Alignment explanation
Indices: 39411646--39411870 Score: 272
Period size: 49 Copynumber: 4.5 Consensus size: 49
39411636 CTGGTACGCA
* * *
39411646 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATAC-GGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTAT-CGGGTACACG
*
39411695 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCGGGTACACG
* ** * *
39411744 TAGTAGCCTGCACGTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCGGGTACACG
* * * *
39411794 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCGGGTACACG
* *
39411845 TAGTAGCCTACACTTAGAACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
39411871 TGCGACCTCA
Statistics
Matches: 153, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
48 1 0.01
49 76 0.50
50 42 0.27
51 33 0.22
52 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCGGGTACACG
Found at i:39411817 original size:99 final size:100
Alignment explanation
Indices: 39411633--39411877 Score: 298
Period size: 99 Copynumber: 2.5 Consensus size: 100
39411623 TAGCCAAAGC
* * * ** *
39411633 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAATTATACGGTACACGTAG
1 TATCCGGTACACATAGTAGCCTGCACATAGTACTACACACGCGACCAACCATACGATACACGTAG
39411698 TAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
66 TAGCCTGCACTTAGTACTACACACGTGATCACAAT
* * *
39411731 TATCCGGTACACGTAGTAGCCTGCACGTAGTACTACACACGTGACCTAACCAT-CTGATACACGT
1 TATCCGGTACACATAGTAGCCTGCACATAGTACTACACACGCGACC-AACCATAC-GATACACGT
*
39411795 AGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
64 AGTAGCCTGCACTTAGTACTACACACGTGATCACAAT
* * * * * * *
39411832 TTTCGGGTACGCATAGTAGCCTACACTTAGAACTACACATGCGACC
1 TATCCGGTACACATAGTAGCCTGCACATAGTACTACACACGCGACC
39411878 TCACAATAGA
Statistics
Matches: 124, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
98 41 0.33
99 42 0.34
100 1 0.01
101 40 0.32
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (100 bp):
TATCCGGTACACATAGTAGCCTGCACATAGTACTACACACGCGACCAACCATACGATACACGTAG
TAGCCTGCACTTAGTACTACACACGTGATCACAAT
Found at i:39421209 original size:25 final size:25
Alignment explanation
Indices: 39421181--39421228 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
39421171 TTATACCATG
* * *
39421181 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
39421206 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
39421229 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:39421297 original size:20 final size:20
Alignment explanation
Indices: 39421272--39421330 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
39421262 TAAATATGGT
39421272 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
39421292 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
39421312 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
39421331 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:39421312 original size:11 final size:11
Alignment explanation
Indices: 39421276--39421330 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
39421266 TATGGTATGT
39421276 ATGATATGCAC
1 ATGATATGCAC
* *
39421287 ATGAAATG--T
1 ATGATATGCAC
39421296 ATGATATGCAC
1 ATGATATGCAC
*
39421307 ATGATATG--T
1 ATGATATGCAC
39421316 ATGATATGCAC
1 ATGATATGCAC
39421327 ATGA
1 ATGA
39421331 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:39421435 original size:23 final size:24
Alignment explanation
Indices: 39421381--39421485 Score: 167
Period size: 24 Copynumber: 4.4 Consensus size: 24
39421371 GAGGAAGTGA
*
39421381 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
39421405 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
39421428 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
39421452 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
39421476 AAAAGAGGCT
1 AAAAG-GGCT
39421486 AGGCCTCTAG
Statistics
Matches: 75, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
23 22 0.29
24 49 0.65
25 4 0.05
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:39421450 original size:47 final size:48
Alignment explanation
Indices: 39421381--39421485 Score: 167
Period size: 47 Copynumber: 2.2 Consensus size: 48
39421371 GAGGAAGTGA
39421381 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
39421428 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
39421476 AAAAGAGGCT
1 AAAAG-GGCT
39421486 AGGCCTCTAG
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
47 43 0.81
48 6 0.11
49 4 0.08
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:39421514 original size:28 final size:25
Alignment explanation
Indices: 39421483--39421548 Score: 71
Period size: 25 Copynumber: 2.5 Consensus size: 25
39421473 ATTAAAAGAG
39421483 GCTAGGCCTCTAGTTATATGATAAAGCA
1 GCTAGGCCTCTAG--AT-TGATAAAGCA
* *
39421511 GCTATGCATAC-AGATTGATAAAGCA
1 GCTAGGCCT-CTAGATTGATAAAGCA
39421536 GCTAGGCCTCTAG
1 GCTAGGCCTCTAG
39421549 GCCTCTAGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
24 1 0.03
25 19 0.59
26 2 0.06
28 9 0.28
29 1 0.03
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.26
Consensus pattern (25 bp):
GCTAGGCCTCTAGATTGATAAAGCA
Found at i:39423176 original size:93 final size:93
Alignment explanation
Indices: 39423046--39423216 Score: 252
Period size: 93 Copynumber: 1.8 Consensus size: 93
39423036 CCCATAAGCA
* *
39423046 AACTCGGACTCAACTCAATGAGCTAGGGCATTAGCATCCATAAGTGAACTCAGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTAGGACATTAGCATCCATAAGTGAACTCAGACTCAACTCAAC
*
39423111 GAGTTCGGATGCCTAGTTACATTTCACG
66 GAGTTCGAATGCCTAGTTACATTTCACG
* * * * * **
39423139 AACTCGGACTCAACTCAACGAGTTCGGACGTTTGCATCTATAAGTGAACTTGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTAGGACATTAGCATCCATAAGTGAACTCAGACTCAACTCAAC
39423204 GAGTTCGAATGCC
66 GAGTTCGAATGCC
39423217 CAAATATCCG
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTAGGACATTAGCATCCATAAGTGAACTCAGACTCAACTCAAC
GAGTTCGAATGCCTAGTTACATTTCACG
Found at i:39423205 original size:46 final size:46
Alignment explanation
Indices: 39423046--39423210 Score: 156
Period size: 46 Copynumber: 3.6 Consensus size: 46
39423036 CCCATAAGCA
* * * * * *
39423046 AACTCGGACTCAACTCAATGAGCTAGGGCATTAGCATCCATAAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCTATAAGTG
* * * * *
39423092 AACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-T-TCA-CG
1 AACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCTATAAGTG
*
39423139 AACTCGGACTCAACTCAACGAGTTCGGACGTTTGCATCTATAAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCTATAAGTG
*
39423185 AACTTGGACTCAACTCAACGAGTTCG
1 AACTCGGACTCAACTCAACGAGTTCG
39423211 AATGCCCAAA
Statistics
Matches: 94, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
43 5 0.05
44 2 0.02
45 2 0.02
46 49 0.52
47 28 0.30
48 2 0.02
49 1 0.01
50 5 0.05
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.24
Consensus pattern (46 bp):
AACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCTATAAGTG
Found at i:39430142 original size:25 final size:25
Alignment explanation
Indices: 39430095--39430142 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
39430085 TTATAATATG
* * * *
39430095 AAAATGACCGTTTTGCCCTTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
39430120 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
39430143 GTTTATGTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:39430211 original size:20 final size:20
Alignment explanation
Indices: 39430186--39430244 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
39430176 TAAATATGGT
39430186 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
39430206 ATGTATGCTATGCACATGAT
1 ATGTATGATATGCACATGAA
39430226 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
39430245 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:39430322 original size:24 final size:24
Alignment explanation
Indices: 39430295--39430437 Score: 202
Period size: 24 Copynumber: 6.0 Consensus size: 24
39430285 GAGGAAGTGA
39430295 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
39430319 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
39430343 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
39430366 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* *
39430390 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATC
*
39430414 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
39430438 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 3, Indels: 9
0.90 0.02 0.07
Matches are distributed among these distances:
23 24 0.22
24 76 0.68
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:39430388 original size:47 final size:47
Alignment explanation
Indices: 39430295--39430437 Score: 200
Period size: 47 Copynumber: 3.0 Consensus size: 47
39430285 GAGGAAGTGA
39430295 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
39430343 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* *
39430390 GAAAGGGCTT-TGGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTAT-GCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
39430438 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
46 1 0.01
47 42 0.48
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:39430411 original size:71 final size:72
Alignment explanation
Indices: 39430295--39430438 Score: 213
Period size: 71 Copynumber: 2.0 Consensus size: 72
39430285 GAGGAAGTGA
*
39430295 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
39430358 CCAGTTAT
65 CCAGTTAT
** *
39430366 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTT-TGGCCCCAGTTATTAAAAGAGGCTAGGCCT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTAT-GCCCCAGTTATCAAAAGAGGCTAGGCCT
39430430 CCAGTTAT
65 CCAGTTAT
39430438 A
1 A
39430439 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
70 1 0.02
71 53 0.80
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:39430664 original size:31 final size:31
Alignment explanation
Indices: 39430629--39430692 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
39430619 CGTTTACAGT
39430629 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
39430660 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
39430691 AA
1 AA
39430693 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:39433864 original size:12 final size:13
Alignment explanation
Indices: 39433847--39433876 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
39433837 TACTGGAATT
39433847 TAATTTTTATT-C
1 TAATTTTTATTAC
39433859 TAATTTTTATTAC
1 TAATTTTTATTAC
39433872 TAATT
1 TAATT
39433877 CTTCTTTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (13 bp):
TAATTTTTATTAC
Found at i:39435475 original size:40 final size:40
Alignment explanation
Indices: 39435427--39435611 Score: 255
Period size: 40 Copynumber: 4.6 Consensus size: 40
39435417 CTTGCACAAG
*
39435427 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
39435467 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
39435507 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
39435547 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
39435588 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
39435612 CATTCGAATA
Statistics
Matches: 125, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 95 0.76
41 29 0.23
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:39438026 original size:31 final size:31
Alignment explanation
Indices: 39437988--39438051 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
39437978 TAGAACTCTT
*
39437988 AAATAAAGAAGAGGAGGTAAAACCCGAAAGC
1 AAATAAAGAAGAGGAGGTAAAACCCAAAAGC
39438019 AAATAAAGAAGAGGAGGTAAAACCCAAAAGC
1 AAATAAAGAAGAGGAGGTAAAACCCAAAAGC
39438050 AA
1 AA
39438052 TGACAATCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.58, C:0.12, G:0.23, T:0.06
Consensus pattern (31 bp):
AAATAAAGAAGAGGAGGTAAAACCCAAAAGC
Found at i:39440690 original size:44 final size:43
Alignment explanation
Indices: 39440590--39440708 Score: 125
Period size: 44 Copynumber: 2.8 Consensus size: 43
39440580 AATCGAATAT
* * * * *
39440590 CGATGCC-ACTGTCCCTGACAGGGTCTTACAC-AAAATTATATA
1 CGATGCCAAC-GTCCCAGACATGGTCTTACACGAAAATCACAAA
* *
39440632 CGATGCCAATGTCCCAGACATGGTCTTACACGTAAATCACAAA
1 CGATGCCAACGTCCCAGACATGGTCTTACACGAAAATCACAAA
**
39440675 CCGATGCCAACGTCCCAGATGTGGTCTTACACGA
1 -CGATGCCAACGTCCCAGACATGGTCTTACACGA
39440709 TAACACATAT
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
42 26 0.41
43 8 0.13
44 29 0.46
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (43 bp):
CGATGCCAACGTCCCAGACATGGTCTTACACGAAAATCACAAA
Found at i:39443972 original size:38 final size:37
Alignment explanation
Indices: 39443928--39444023 Score: 120
Period size: 38 Copynumber: 2.5 Consensus size: 37
39443918 ATCCTTCTTG
* *
39443928 TAATTATTGTAATTATAATTTAGGATCGAATATTATTA
1 TAATTATTGTAATTATAATTTAGG-TCAAACATTATTA
* * *
39443966 TAATTATTGTAATTGTAATTTTTGGTCAAACGTTATTA
1 TAATTATTGTAATTATAA-TTTAGGTCAAACATTATTA
*
39444004 TAATTATGGTAATTATAATT
1 TAATTATTGTAATTATAATT
39444024 ATTATATTTC
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
37 2 0.04
38 43 0.86
39 5 0.10
ACGTcount: A:0.36, C:0.03, G:0.11, T:0.49
Consensus pattern (37 bp):
TAATTATTGTAATTATAATTTAGGTCAAACATTATTA
Found at i:39456098 original size:30 final size:30
Alignment explanation
Indices: 39456063--39456124 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
39456053 TTGAACAAAG
*
39456063 AAAACCAAGGCAGAGGATAAAAGGAGGATA
1 AAAACCAAGGCAGAGGATAAAACGAGGATA
39456093 AAAACCAAGGCAGAGGATAAAACGAGGATA
1 AAAACCAAGGCAGAGGATAAAACGAGGATA
39456123 AA
1 AA
39456125 GAGGGGATCC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.55, C:0.11, G:0.27, T:0.06
Consensus pattern (30 bp):
AAAACCAAGGCAGAGGATAAAACGAGGATA
Found at i:39459184 original size:11 final size:11
Alignment explanation
Indices: 39459168--39459197 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
39459158 TATATATATT
39459168 TAAAAATTATA
1 TAAAAATTATA
*
39459179 TAAAAATAATA
1 TAAAAATTATA
39459190 TAAAAATT
1 TAAAAATT
39459198 TAATACAGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:39461541 original size:26 final size:26
Alignment explanation
Indices: 39461512--39461565 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
39461502 AAAATGAGAG
39461512 ATTGCTTGCAGGTCAAGTTAAACAAA
1 ATTGCTTGCAGGTCAAGTTAAACAAA
39461538 ATTGCTTGCAGGTCAAGTTAAACAAA
1 ATTGCTTGCAGGTCAAGTTAAACAAA
39461564 AT
1 AT
39461566 ATATTTTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.28
Consensus pattern (26 bp):
ATTGCTTGCAGGTCAAGTTAAACAAA
Found at i:39476496 original size:22 final size:22
Alignment explanation
Indices: 39476468--39476512 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
39476458 GTCCTAAAGA
39476468 CGATTTTCGGCACATCCGACTC
1 CGATTTTCGGCACATCCGACTC
39476490 CGATTTTCGGCACATCCGACTC
1 CGATTTTCGGCACATCCGACTC
39476512 C
1 C
39476513 TTAACTCTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.18, C:0.38, G:0.18, T:0.27
Consensus pattern (22 bp):
CGATTTTCGGCACATCCGACTC
Found at i:39480287 original size:68 final size:68
Alignment explanation
Indices: 39480137--39480294 Score: 160
Period size: 68 Copynumber: 2.3 Consensus size: 68
39480127 CTAGCCAATT
* * *
39480137 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACACATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACA
**
39480202 TTTA
65 CATA
* * *
39480206 TCTCTCCCGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTA
1 TATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTA
39480268 CTACATA
63 C-ACATA
*
39480275 GTATCTCGTAGCTTTCTTGT
1 -TATCTCGTAGCTCTCTTGT
39480295 ACACATGATG
Statistics
Matches: 74, Mismatches: 10, Indels: 11
0.78 0.11 0.12
Matches are distributed among these distances:
68 35 0.47
69 7 0.09
70 6 0.08
71 26 0.35
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (68 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACAC
ATA
Found at i:39483586 original size:20 final size:20
Alignment explanation
Indices: 39483561--39483598 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
39483551 ATTTACTAAT
39483561 AAATATTTATCAATTCAATC
1 AAATATTTATCAATTCAATC
39483581 AAATATTTATCAATTCAA
1 AAATATTTATCAATTCAA
39483599 CTTCTAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.39
Consensus pattern (20 bp):
AAATATTTATCAATTCAATC
Found at i:39489712 original size:43 final size:42
Alignment explanation
Indices: 39489557--39489713 Score: 145
Period size: 43 Copynumber: 3.7 Consensus size: 42
39489547 TGTGTTATCG
* * * * *
39489557 TGTAAGACCACGTCTGGGCCGTTGGCATCGATTTGTGATTTACG
1 TGTAAGACCACGTCTAGGACATTGGCATCGAATT-TGA-TTACA
* * * * * * *
39489601 TATAAGACCATGTTTGGGACATTGGCATCGTATATGATTTCA
1 TGTAAGACCACGTCTAGGACATTGGCATCGAATTTGATTACA
*
39489643 TGTAAGACC-CTGTCTAGGACAGTGGCATCGACATTTGATTACA
1 TGTAAGACCAC-GTCTAGGACATTGGCATCGA-ATTTGATTACA
*
39489686 TGTAAGACCACGTCTAGGACTTTGGCAT
1 TGTAAGACCACGTCTAGGACATTGGCAT
39489714 TGTTGAGCTA
Statistics
Matches: 90, Mismatches: 20, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
42 27 0.30
43 36 0.40
44 27 0.30
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACGTCTAGGACATTGGCATCGAATTTGATTACA
Found at i:39493378 original size:21 final size:20
Alignment explanation
Indices: 39493350--39493388 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
39493340 CAAAACTTGT
39493350 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
39493370 ATAATCTATCATTAAACAT
1 ATAA-CTATCATCAAACAT
39493389 CAAAATACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:39497406 original size:17 final size:15
Alignment explanation
Indices: 39497376--39497420 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
39497366 AGTCTGAGAC
39497376 AAAGAAATCCAAGAT
1 AAAGAAATCCAAGAT
39497391 AAAGAAACTCCCAAGAT
1 AAAGAAA-T-CCAAGAT
**
39497408 TTAGAAATCCAAG
1 AAAGAAATCCAAG
39497421 TTACAATACC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 12 0.46
16 2 0.08
17 12 0.46
ACGTcount: A:0.53, C:0.18, G:0.13, T:0.16
Consensus pattern (15 bp):
AAAGAAATCCAAGAT
Found at i:39504200 original size:48 final size:48
Alignment explanation
Indices: 39504141--39504378 Score: 377
Period size: 48 Copynumber: 4.9 Consensus size: 48
39504131 TACAATATAA
39504141 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
39504189 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
39504237 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
** **
39504285 ATACGTATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
39504333 ATATATATATATGTGGTAAATCCGAATGGCTAATGAGCAATATGTA
1 --ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
39504379 GGAGGTGTGT
Statistics
Matches: 177, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
48 140 0.79
50 37 0.21
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.31
Consensus pattern (48 bp):
ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:39504456 original size:144 final size:143
Alignment explanation
Indices: 39504145--39504419 Score: 363
Period size: 146 Copynumber: 1.9 Consensus size: 143
39504135 ATATAAATAT
**
39504145 ATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATATATATGTGGTAAAGCC
1 ATATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAGATATATATATGTGGTAAAGCC
* * * * *
39504210 GAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAA
66 GAATGGCTAATGAGAAATATGTAGGAGATATGTATATATGGT-AAGCCGAATGCCAAATATGAAA
39504275 TATGTATGAGATAC
130 TATGTATGAGATAC
* *
39504289 GTATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAGATATATATATATGTGGTAAAT
1 ATATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAG--ATATATATATGTGGTAAAG
* * * * * * *
39504354 CCGAATGGCTAATGAGCAATATGTAGGAGGTGTGTGTATATTGT-GGCCGAATGACCAAATGTGA
64 CCGAATGGCTAATGAGAAATATGTAGGAGATATGTATATATGGTAAGCCGAATG-CCAAATATGA
39504418 AA
128 AA
39504420 AGTGTGTAGT
Statistics
Matches: 112, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
144 49 0.44
145 9 0.08
146 54 0.48
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.30
Consensus pattern (143 bp):
ATATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAGATATATATATGTGGTAAAGCC
GAATGGCTAATGAGAAATATGTAGGAGATATGTATATATGGTAAGCCGAATGCCAAATATGAAAT
ATGTATGAGATAC
Found at i:39504487 original size:47 final size:47
Alignment explanation
Indices: 39504436--39504540 Score: 183
Period size: 47 Copynumber: 2.2 Consensus size: 47
39504426 TAGTATTAAT
* *
39504436 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
1 TATGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAAAGTGTATA
39504483 TATGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
39504530 AATGTGATAAG
1 TATGTGATAAG
39504541 TCCCGAAGGG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.35, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
TATGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAAAGTGTATA
Found at i:39508163 original size:16 final size:15
Alignment explanation
Indices: 39508137--39508166 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
39508127 CACCCAAGGC
39508137 ACACCCAACCTTATA
1 ACACCCAACCTTATA
39508152 ACACCTCAACCTTAT
1 ACACC-CAACCTTAT
39508167 CTGATTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.37, C:0.40, G:0.00, T:0.23
Consensus pattern (15 bp):
ACACCCAACCTTATA
Found at i:39514814 original size:32 final size:32
Alignment explanation
Indices: 39514778--39514844 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
39514768 AGCTTCTCCC
39514778 ATGGCTATCTTAATCTTAAATTTCAATTGAAG
1 ATGGCTATCTTAATCTTAAATTTCAATTGAAG
39514810 ATGGCTATCTTAATCTTAAATTTCAATTGAAG
1 ATGGCTATCTTAATCTTAAATTTCAATTGAAG
39514842 ATG
1 ATG
39514845 AACAAAGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (32 bp):
ATGGCTATCTTAATCTTAAATTTCAATTGAAG
Found at i:39517375 original size:30 final size:31
Alignment explanation
Indices: 39517341--39517403 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
39517331 CCTTTTCATG
39517341 TTTCATA-TTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
39517371 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
39517402 TT
1 TT
39517404 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:39517645 original size:24 final size:24
Alignment explanation
Indices: 39517594--39517712 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
39517584 GCTTTATCAT
*
39517594 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
39517619 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
39517643 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
39517666 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
39517690 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
39517713 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 23 0.26
24 52 0.60
25 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:39517673 original size:47 final size:48
Alignment explanation
Indices: 39517594--39517712 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
39517584 GCTTTATCAT
*
39517594 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCA
* **
39517643 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
39517690 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
39517713 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 44 0.68
48 9 0.14
49 12 0.18
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
Found at i:39517788 original size:20 final size:20
Alignment explanation
Indices: 39517763--39517822 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
39517753 TATGATTACC
39517763 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
39517783 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
39517803 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
39517823 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:39517793 original size:11 final size:11
Alignment explanation
Indices: 39517763--39517817 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
39517753 TATGATTACC
39517763 TCATGTGCATA
1 TCATGTGCATA
*
39517774 TCA--TACATA
1 TCATGTGCATA
39517783 TCATGTGCATA
1 TCATGTGCATA
* *
39517794 TCA--TACATT
1 TCATGTGCATA
39517803 TCATGTGCATA
1 TCATGTGCATA
39517814 TCAT
1 TCAT
39517818 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:39517897 original size:25 final size:25
Alignment explanation
Indices: 39517865--39517912 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
39517855 ATACATAAAC
* * *
39517865 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
39517890 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
39517913 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:39523514 original size:31 final size:31
Alignment explanation
Indices: 39523479--39523542 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
39523469 CCTTTTCATG
39523479 TTTCATATTCCATAACACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
* **
39523510 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
39523541 TT
1 TT
39523543 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATATTCCATAACACTGGGCCGAAGCCT
Found at i:39523785 original size:24 final size:24
Alignment explanation
Indices: 39523734--39523852 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
39523724 GCTTTATCAT
*
39523734 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
39523759 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
39523783 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
39523806 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
39523830 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
39523853 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 23 0.26
24 52 0.60
25 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:39523813 original size:47 final size:48
Alignment explanation
Indices: 39523734--39523852 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
39523724 GCTTTATCAT
*
39523734 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCA
* **
39523783 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
39523830 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
39523853 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 44 0.68
48 9 0.14
49 12 0.18
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
Found at i:39523928 original size:20 final size:20
Alignment explanation
Indices: 39523903--39523962 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
39523893 TATGATTACC
39523903 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
39523923 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
39523943 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
39523963 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:39523933 original size:11 final size:11
Alignment explanation
Indices: 39523903--39523957 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
39523893 TATGATTACC
39523903 TCATGTGCATA
1 TCATGTGCATA
*
39523914 TCA--TACATA
1 TCATGTGCATA
39523923 TCATGTGCATA
1 TCATGTGCATA
* *
39523934 TCA--TACATT
1 TCATGTGCATA
39523943 TCATGTGCATA
1 TCATGTGCATA
39523954 TCAT
1 TCAT
39523958 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:39524037 original size:25 final size:25
Alignment explanation
Indices: 39524005--39524052 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
39523995 ATACATAAAC
* * *
39524005 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
39524030 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
39524053 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:39530118 original size:29 final size:28
Alignment explanation
Indices: 39530072--39530131 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
39530062 TTTTCATTTA
*
39530072 TTTCACAATTCAACCCCTCAATTTACACT
1 TTTCACAATTCAACCCCT-AATATACACT
* * *
39530101 TTTCACAATTTAATCCCTAATATACATT
1 TTTCACAATTCAACCCCTAATATACACT
39530129 TTT
1 TTT
39530132 ACTCAAAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 11 0.41
29 16 0.59
ACGTcount: A:0.32, C:0.27, G:0.00, T:0.42
Consensus pattern (28 bp):
TTTCACAATTCAACCCCTAATATACACT
Found at i:39531456 original size:21 final size:21
Alignment explanation
Indices: 39531431--39531492 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 21
39531421 TATACAAATT
39531431 TATCAAGCTTCATACACATAG
1 TATCAAGCTTCATACACATAG
*
39531452 TATCAA----C-TAC-CAT-T
1 TATCAAGCTTCATACACATAG
39531466 TATCAAGCTTCATACACATAG
1 TATCAAGCTTCATACACATAG
39531487 TATCAA
1 TATCAA
39531493 CTACCACTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 14
0.67 0.04 0.29
Matches are distributed among these distances:
14 6 0.19
15 3 0.09
16 3 0.09
17 1 0.03
18 1 0.03
19 3 0.09
20 3 0.09
21 12 0.38
ACGTcount: A:0.39, C:0.24, G:0.06, T:0.31
Consensus pattern (21 bp):
TATCAAGCTTCATACACATAG
Found at i:39531474 original size:35 final size:35
Alignment explanation
Indices: 39531428--39531498 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
39531418 GTATATACAA
39531428 ATTTATCAAGCTTCATACACATAGTATCAACTACC
1 ATTTATCAAGCTTCATACACATAGTATCAACTACC
39531463 ATTTATCAAGCTTCATACACATAGTATCAACTACC
1 ATTTATCAAGCTTCATACACATAGTATCAACTACC
39531498 A
1 A
39531499 CTTAAGTATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (35 bp):
ATTTATCAAGCTTCATACACATAGTATCAACTACC
Found at i:39532240 original size:29 final size:28
Alignment explanation
Indices: 39532194--39532253 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
39532184 TTTTCATTTA
*
39532194 TTTCACAATTCAACCCCTCAATTTACACT
1 TTTCACAATTCAACCCCT-AATATACACT
* * *
39532223 TTTCACAATTTAATCCCTAATATACATT
1 TTTCACAATTCAACCCCTAATATACACT
39532251 TTT
1 TTT
39532254 ACTCAAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 11 0.41
29 16 0.59
ACGTcount: A:0.32, C:0.27, G:0.00, T:0.42
Consensus pattern (28 bp):
TTTCACAATTCAACCCCTAATATACACT
Found at i:39532989 original size:20 final size:19
Alignment explanation
Indices: 39532951--39532990 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
39532941 AAAGTAGGGG
*
39532951 AATTTATTTTCTAATAATA
1 AATTTATTTTCTAAGAATA
*
39532970 AATTCTATTTTCTGAGAATA
1 AATT-TATTTTCTAAGAATA
39532990 A
1 A
39532991 TAATTTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.47
Consensus pattern (19 bp):
AATTTATTTTCTAAGAATA
Found at i:39539915 original size:6 final size:6
Alignment explanation
Indices: 39539906--39539942 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
39539896 AAAGTGAAAG
39539906 AATAAA AATAAA AATAAA AATAAA AA-AATA AATAAA A
1 AATAAA AATAAA AATAAA AATAAA AATAA-A AATAAA A
39539943 CAAACCCAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 2 0.07
6 25 0.86
7 2 0.07
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:39548255 original size:45 final size:45
Alignment explanation
Indices: 39548191--39548283 Score: 177
Period size: 45 Copynumber: 2.1 Consensus size: 45
39548181 TGTGAAGAAG
39548191 AAGGATAGTATGATGCGGCTATGTATTTACTATAGACAGTTGAAT
1 AAGGATAGTATGATGCGGCTATGTATTTACTATAGACAGTTGAAT
*
39548236 AAGGATAGTATGATTCGGCTATGTATTTACTATAGACAGTTGAAT
1 AAGGATAGTATGATGCGGCTATGTATTTACTATAGACAGTTGAAT
39548281 AAG
1 AAG
39548284 TTGACTTTTA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.34, C:0.09, G:0.24, T:0.33
Consensus pattern (45 bp):
AAGGATAGTATGATGCGGCTATGTATTTACTATAGACAGTTGAAT
Found at i:39550703 original size:18 final size:17
Alignment explanation
Indices: 39550675--39550717 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
39550665 ATTTTTCCTC
* *
39550675 TTTCTCTTTTTTTATTT
1 TTTCTCCTTTTATATTT
39550692 TTTCCTCCTTTTATATTT
1 TTT-CTCCTTTTATATTT
39550710 TTTCTCCT
1 TTTCTCCT
39550718 GTCATTTTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTCTCCTTTTATATTT
Found at i:39550710 original size:24 final size:23
Alignment explanation
Indices: 39550662--39550711 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
39550652 AACTGAACTG
* *
39550662 TTTATTTTTCCTCTTTCTCTTTT
1 TTTATTTTTCCTCTTTCTATATT
39550685 TTTATTTTTTCCTCCTTT-TATATT
1 TTTA-TTTTTCCT-CTTTCTATATT
39550709 TTT
1 TTT
39550712 TCTCCTGTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 4 0.17
24 15 0.65
25 4 0.17
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTATTTTTCCTCTTTCTATATT
Found at i:39558573 original size:39 final size:39
Alignment explanation
Indices: 39558519--39558634 Score: 169
Period size: 39 Copynumber: 3.0 Consensus size: 39
39558509 AGTGATGAAG
*
39558519 TATATCCAGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* ** *
39558558 TATATCCGGACTTAAGGTCCGTAAACTGTGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* *
39558597 TATAACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAA
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAA
39558635 ATATGTCTGG
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 66 1.00
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
Done.