Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 152 of 211
Found at i:45079859 original size:88 final size:88
Alignment explanation
Indices: 45079710--45080896 Score: 1950
Period size: 88 Copynumber: 13.5 Consensus size: 88
45079700 AACAGATAAG
* * *
45079710 TGAAGACAAAAGATCTTGCCTTCCTGTATTGATAGTGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
*
45079775 TTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
*
45079798 TGAAGACAAAAGATCTTACCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
45079863 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* * *
45079886 TGAAGACAAAAGATTTTGCCTTCCTGCATTGACAGTGAAGAAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
45079951 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* * *
45079974 CGAAGACAAAAGATCTTGCCTTCCTGTATTGACAGCGAAGCAAGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
45080039 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* * *
45080062 TGAAGACAAAAGATCTTGCCTTCCTGTATTGACAGCGAAGTAGGTCGAAGACATAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
* *
45080127 CTCTCTGTTGTGATGGAGCTGAT
66 CTCTCGGTTGTGATGGAGCTGGT
* *
45080150 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
*
45080215 CTCTCGGTTGTGATGGAGTTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* *
45080238 TGAAGATAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGTAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
45080303 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
*
45080326 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGTAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
45080391 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
*
45080414 TGAAAACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
45080479 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
*
45080502 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCAAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
* *
45080567 CTCTCTGTTGTGATGGATCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* *
45080590 TGAAGACAAAAGATCTTGCCTTCCTGTATTGACAGCGAAGTAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
45080655 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* * *
45080678 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGGTCGAAGATACAAATCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
*
45080743 CTCTTGGTTGT-A-GCAGAGCTGGT
66 CTCTCGGTTGTGATG--GAGCTGGT
* * * **
45080766 TGAAGACAACAGATCTTGCCTTCCTGCATTAACAGCAAAGCAAATCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
45080831 CTCTCGGTTGT-A-GCAGAGCTGGT
66 CTCTCGGTTGTGATG--GAGCTGGT
* * *
45080854 TGAAGACAACAGATCTTCCCTTCCTGCATTGACAGCGGAGCAG
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAG
45080897 ACTGAAGATA
Statistics
Matches: 1031, Mismatches: 66, Indels: 4
0.94 0.06 0.00
Matches are distributed among these distances:
86 1 0.00
87 1 0.00
88 1029 1.00
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (88 bp):
TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
CTCTCGGTTGTGATGGAGCTGGT
Found at i:45102530 original size:40 final size:39
Alignment explanation
Indices: 45102473--45102569 Score: 131
Period size: 40 Copynumber: 2.5 Consensus size: 39
45102463 ACCTATACTA
* *
45102473 GATTGCACATACATGCCCATGTTTGTACTTCGGTACCCCT
1 GATTGCACATACGTGCCCATCTTTGTACTTCGGTA-CCCT
* * *
45102513 GATTGCACAAACGTGCCCCTCTTTGTACTTTGGTACCCT
1 GATTGCACATACGTGCCCATCTTTGTACTTCGGTACCCT
*
45102552 GGTTGCACATACGTGCCC
1 GATTGCACATACGTGCCC
45102570 CTATTTACAC
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 20 0.40
40 30 0.60
ACGTcount: A:0.19, C:0.31, G:0.20, T:0.31
Consensus pattern (39 bp):
GATTGCACATACGTGCCCATCTTTGTACTTCGGTACCCT
Found at i:45102566 original size:39 final size:40
Alignment explanation
Indices: 45102473--45102586 Score: 140
Period size: 39 Copynumber: 2.9 Consensus size: 40
45102463 ACCTATACTA
* * * *
45102473 GATTGCACATACATGCCCATGTTTGTACTTCGGTACCCCT
1 GATTGCACATACGTGCCCCTATTTGTACTTTGGTACCCCT
* *
45102513 GATTGCACAAACGTGCCCCTCTTTGTACTTTGGTA-CCCT
1 GATTGCACATACGTGCCCCTATTTGTACTTTGGTACCCCT
* **
45102552 GGTTGCACATACGTGCCCCTATTTACACTTTGGTA
1 GATTGCACATACGTGCCCCTATTTGTACTTTGGTA
45102587 ACTTCAATTG
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
39 34 0.53
40 30 0.47
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.33
Consensus pattern (40 bp):
GATTGCACATACGTGCCCCTATTTGTACTTTGGTACCCCT
Found at i:45113396 original size:16 final size:16
Alignment explanation
Indices: 45113375--45113408 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
45113365 AATTCACAAT
45113375 TTGGTGAACTCTAAGG
1 TTGGTGAACTCTAAGG
*
45113391 TTGGTGAACTCTAGGG
1 TTGGTGAACTCTAAGG
45113407 TT
1 TT
45113409 TGTTGGACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.12, G:0.32, T:0.35
Consensus pattern (16 bp):
TTGGTGAACTCTAAGG
Found at i:45116785 original size:50 final size:49
Alignment explanation
Indices: 45116608--45116758 Score: 140
Period size: 50 Copynumber: 2.9 Consensus size: 49
45116598 CATTTGGGTA
* * *
45116608 AAGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGGTTAT
1 AAGAGATCCC-TGTAAGACCATGCCTGGGACATGGCATGGGCA-C--CGA-G--AT
* * * * * *
45116664 GAGAGGTCCTATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGATCC-CTGTAAGACCATGCCTGGGACATGGCATGGGCACCGAGAT
45116714 AAGAGATCCCTCGTAAGACCATGCCTGGGACATGGCATGGGCACC
1 AAGAGATCCCT-GTAAGACCATGCCTGGGACATGGCATGGGCACC
45116759 ATTATGAGAA
Statistics
Matches: 82, Mismatches: 11, Indels: 10
0.80 0.11 0.10
Matches are distributed among these distances:
49 1 0.01
50 39 0.48
52 1 0.01
53 2 0.02
55 1 0.01
56 38 0.46
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (49 bp):
AAGAGATCCCTGTAAGACCATGCCTGGGACATGGCATGGGCACCGAGAT
Found at i:45116792 original size:50 final size:49
Alignment explanation
Indices: 45116675--45116847 Score: 154
Period size: 50 Copynumber: 3.5 Consensus size: 49
45116665 AGAGGTCCTA
* * *
45116675 TGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAAGAGA-T-CCC
1 TGTAAGACCATGTCTGGGACATGGCATTGGCACC-ACATGAGA-ACTCCCC
* * *
45116724 TCGTAAGACCATGCCTGGGACATGGCATGGGCACCATTATGAGAACTCCCC
1 T-GTAAGACCATGTCTGGGACATGGCATTGGCACCA-CATGAGAACTCCCC
* * * ** * *
45116775 TGTAAGACCATATCTGGGATATGGAATTGGCAGTACAAGA-AACATCCCA
1 TGTAAGACCATGTCTGGGACATGGCATTGGCACCACATGAGAAC-TCCCC
*
45116824 TGTAAGACCATTTCTGGGACATGG
1 TGTAAGACCATGTCTGGGACATGG
45116848 ATTTTGCATG
Statistics
Matches: 102, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
48 3 0.03
49 32 0.31
50 63 0.62
51 4 0.04
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.22
Consensus pattern (49 bp):
TGTAAGACCATGTCTGGGACATGGCATTGGCACCACATGAGAACTCCCC
Found at i:45117189 original size:15 final size:15
Alignment explanation
Indices: 45117169--45117199 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
45117159 TTTTCTTGTA
45117169 AACTTACTATGCTTT
1 AACTTACTATGCTTT
45117184 AACTTACTATGCTTT
1 AACTTACTATGCTTT
45117199 A
1 A
45117200 TGCTTACTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.29, C:0.19, G:0.06, T:0.45
Consensus pattern (15 bp):
AACTTACTATGCTTT
Found at i:45122043 original size:15 final size:16
Alignment explanation
Indices: 45122013--45122044 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
45122003 ACTTTAGAGG
45122013 CAAAAATGTAATTTTT
1 CAAAAATGTAATTTTT
*
45122029 CAAAAATGTGATTTTT
1 CAAAAATGTAATTTTT
45122045 GGATTGGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (16 bp):
CAAAAATGTAATTTTT
Found at i:45122386 original size:101 final size:102
Alignment explanation
Indices: 45122270--45122454 Score: 311
Period size: 101 Copynumber: 1.8 Consensus size: 102
45122260 AAAGTGATGG
*
45122270 TCACGTGTGTGGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCACATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGAT-GGTCACATGTGTAGT
45122333 ACTATCTGCAGGCTACTATGCGTACCGAATAGCTTCGA
65 ACTATCTGCAGGCTACTATGCGTACCGAATAGCTTCGA
* *
45122371 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
*
45122436 CTATGTGCAGGCTACTATG
66 CTATCTGCAGGCTACTATG
45122455 TGAACCGGTA
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
101 39 0.50
102 35 0.45
103 4 0.05
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
CTATCTGCAGGCTACTATGCGTACCGAATAGCTTCGA
Found at i:45122394 original size:51 final size:49
Alignment explanation
Indices: 45122267--45122461 Score: 221
Period size: 51 Copynumber: 3.9 Consensus size: 49
45122257 GTGAAAGTGA
* *
45122267 TGGTCACGTGTGTGGTACTATGTGCAGGCTACTACGTGTACCAGAAT-GAT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAATAG-T
* * * *
45122317 AGGTCACATGTGTAGTACTATCTGCAGGCTACTATGCGTACCGAATAGCT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATAG-T
* * * *
45122367 TCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGT
1 T-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATAGT
* *
45122417 GATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGAACCG
1 --TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
45122462 GTATCATTAA
Statistics
Matches: 121, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
49 4 0.03
50 39 0.32
51 77 0.64
52 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.30
Consensus pattern (49 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATAGT
Found at i:45122456 original size:26 final size:26
Alignment explanation
Indices: 45122376--45122456 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
45122366 TTCGATCACG
45122376 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* *
45122402 CGTGTA-T-CGGATAGTG-ATGG-TCAC-A
1 TGTGTAGTAC-TAT-GTGCA-GGCT-ACTA
45122427 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
45122453 TGTG
1 TGTG
45122457 AACCGGTATC
Statistics
Matches: 42, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
24 1 0.02
25 18 0.43
26 22 0.52
27 1 0.02
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:45122493 original size:101 final size:100
Alignment explanation
Indices: 45122270--45122461 Score: 287
Period size: 102 Copynumber: 1.9 Consensus size: 100
45122260 AAAGTGATGG
*
45122270 TCACGTGTGTGGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCACATGTGTAGTAC
1 TCACGTGTGT-ATACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCACATGTGTAGTAC
*
45122335 TATCTGCAGGCTACTATGCGTACCGAATAGCTTCGA
65 TATCTGCAGGCTACTATGCGAACCGAATAGCTTCGA
* *
45122371 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGAT-GGTCACATGTGTAGT
1 TCACGTGTGTA-TACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCACATGTGTAGT
* *
45122435 ACTATGTGCAGGCTACTATGTGAACCG
63 ACTATCTGCAGGCTACTATGCGAACCG
45122462 GTATCATTAA
Statistics
Matches: 82, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
101 38 0.46
102 40 0.49
103 4 0.05
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (100 bp):
TCACGTGTGTATACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCACATGTGTAGTACT
ATCTGCAGGCTACTATGCGAACCGAATAGCTTCGA
Found at i:45127549 original size:50 final size:50
Alignment explanation
Indices: 45127447--45127678 Score: 236
Period size: 50 Copynumber: 4.5 Consensus size: 50
45127437 GGTAAAAAGA
*
45127447 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGGTTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGA-G--ATGAGAGG
45127503 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * * **
45127553 TCCC-TCGTAAGATCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCAT-GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * * * * * * **
45127603 TCCCATGTAAGACCGTATCTAGGATATGGCATTGGCA--GTACAAGAAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAGG
45127652 TCCCATGTAAGACCATGTCTGGGACAT
1 TCCCATGTAAGACCATGTCTGGGACAT
45127679 TTCTTTGGCA
Statistics
Matches: 152, Mismatches: 21, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
48 1 0.01
49 29 0.19
50 80 0.53
51 1 0.01
52 1 0.01
53 2 0.01
55 1 0.01
56 37 0.24
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:45148857 original size:49 final size:48
Alignment explanation
Indices: 45148800--45148929 Score: 149
Period size: 49 Copynumber: 2.6 Consensus size: 48
45148790 GTTGCATATA
45148800 TATTTAAAACTTGTTTAAATAATAATTTAAATT-T-TATTTAATTA-TATTT
1 TATTTAAAACTT-TTTAAATAATAA-TTAAATTATGT-TTTAATTATTA-TT
* *
45148849 TATTTAAAACTCATTTAAATAATAAATAAATTATGTTTTAATTATTATT
1 TATTTAAAACT-TTTTAAATAATAATTAAATTATGTTTTAATTATTATT
* *
45148898 TATCTAAAACTCTTTTGAATAATAATTAAATT
1 TATTTAAAACT-TTTTAAATAATAATTAAATT
45148930 CTTTTTCCTT
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
48 6 0.08
49 62 0.87
50 3 0.04
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (48 bp):
TATTTAAAACTTTTTAAATAATAATTAAATTATGTTTTAATTATTATT
Found at i:45148988 original size:94 final size:94
Alignment explanation
Indices: 45148884--45149058 Score: 305
Period size: 94 Copynumber: 1.9 Consensus size: 94
45148874 ATAAATTATG
* * *
45148884 TTTTAATTATTATTTATCTAAAACTCTTTTGAATAATAATTAAATTCTTTTTCCTTATCTGATAA
1 TTTTAATTATTATTTATCTAAAACTCTTTTAAATAATAATTAAATTCTATTTCCTTATCTAATAA
45148949 GGAATATATCAAATCCTTTTGATTTTGAA
66 GGAATATATCAAATCCTTTTGATTTTGAA
* *
45148978 TTTTAATTATTATTTATCTAAAACTCTTTTAAATAATTATTAAATTCTATTTGCTTATCTAATAA
1 TTTTAATTATTATTTATCTAAAACTCTTTTAAATAATAATTAAATTCTATTTCCTTATCTAATAA
45149043 GGAATATATCAAATCC
66 GGAATATATCAAATCC
45149059 CCTTTTTATC
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
94 76 1.00
ACGTcount: A:0.36, C:0.11, G:0.05, T:0.48
Consensus pattern (94 bp):
TTTTAATTATTATTTATCTAAAACTCTTTTAAATAATAATTAAATTCTATTTCCTTATCTAATAA
GGAATATATCAAATCCTTTTGATTTTGAA
Found at i:45162240 original size:33 final size:33
Alignment explanation
Indices: 45162203--45162272 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
45162193 TTGGCCATTG
*
45162203 ATAATTGTTTCTGGCAATTCTCTCAATGATGTC
1 ATAATTGTTTCTGGCAATTCTCTCAAAGATGTC
45162236 ATAATTGTTTCTGGCAATTCTCTCAAAGATGTC
1 ATAATTGTTTCTGGCAATTCTCTCAAAGATGTC
45162269 ATAA
1 ATAA
45162273 GCCTCATATA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (33 bp):
ATAATTGTTTCTGGCAATTCTCTCAAAGATGTC
Found at i:45164916 original size:22 final size:23
Alignment explanation
Indices: 45164883--45164926 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
45164873 TCTGTCGAAA
45164883 ATTATCAAAATTAA-TCAAAATTT
1 ATTATCAAAATTAAGT-AAAATTT
45164906 ATTAT-AAAATTAAGTAAAATT
1 ATTATCAAAATTAAGTAAAATT
45164927 AAACATGTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (23 bp):
ATTATCAAAATTAAGTAAAATTT
Found at i:45171780 original size:19 final size:19
Alignment explanation
Indices: 45171758--45171802 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
45171748 AAAATAATAT
45171758 AAAAAATAATAAATTTTAA
1 AAAAAATAATAAATTTTAA
** *
45171777 AAAATTTATTAAATTTTAA
1 AAAAAATAATAAATTTTAA
*
45171796 TAAAAAT
1 AAAAAAT
45171803 TAAAGAATTT
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAAATAATAAATTTTAA
Found at i:45171789 original size:29 final size:29
Alignment explanation
Indices: 45171736--45171820 Score: 80
Period size: 29 Copynumber: 2.9 Consensus size: 29
45171726 CCGCTCTTAT
* *
45171736 TAAAAATTAGAAAAAATAATATAAAAAATAA
1 TAAAAATTA-AAAAATTTAT-TAAAAAATAA
** ***
45171767 TAAATTTTAAAAAATTTATTAAATTTTAA
1 TAAAAATTAAAAAATTTATTAAAAAATAA
*
45171796 TAAAAATTAAAGAATTTATTAAAAA
1 TAAAAATTAAAAAATTTATTAAAAA
45171821 TTATATTTTT
Statistics
Matches: 42, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
29 27 0.64
30 8 0.19
31 7 0.17
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (29 bp):
TAAAAATTAAAAAATTTATTAAAAAATAA
Found at i:45171849 original size:28 final size:27
Alignment explanation
Indices: 45171828--45171880 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 27
45171818 AAATTATATT
45171828 TTTTATAAAAAT-AGTAAAAAATGTAAAA
1 TTTTATAAAAATCA-TAAAAAAT-TAAAA
45171856 TTTTATAAAAATCATAAAAAATTAA
1 TTTTATAAAAATCATAAAAAATTAA
45171881 CGACCATTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 3 0.12
28 20 0.83
29 1 0.04
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (27 bp):
TTTTATAAAAATCATAAAAAATTAAAA
Found at i:45172145 original size:18 final size:20
Alignment explanation
Indices: 45172114--45172155 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
45172104 TTTTATAAAA
45172114 TTTTACAATATTTTAT-TTT
1 TTTTACAATATTTTATATTT
45172133 TTTTACAAT-TTTTATATTT
1 TTTTACAATATTTTATATTT
45172152 TTTT
1 TTTT
45172156 CTAATTGTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTACAATATTTTATATTT
Found at i:45175345 original size:43 final size:43
Alignment explanation
Indices: 45175284--45175519 Score: 246
Period size: 43 Copynumber: 5.5 Consensus size: 43
45175274 GTTTTTGGAA
* *
45175284 ACAAACGCCGCTAAAGAGCGAAACTTTTAGCGGCGCTTTTCTC
1 ACAAACGCCGCTAAAGAGCGAAACCTTTAGCGGCGCTTTTCCC
* * * *
45175327 ACAAACGCCGCTAAAGAGC-AAGACCATTAGCAGCGTTTTTTTCC
1 ACAAACGCCGCTAAAGAGCGAA-ACCTTTAGCGGCG-CTTTTCCC
* *
45175371 A-AAACACCGCTAAAGAGCTG-GACCTTTAGCGGCGCTTTTCCC
1 ACAAACGCCGCTAAAGAGC-GAAACCTTTAGCGGCGCTTTTCCC
* * **
45175413 AAAAACGCCGCTAAAAAGGCG-AACCTTTAGCGGTACTTTTCCC
1 ACAAACGCCGCTAAAGA-GCGAAACCTTTAGCGGCGCTTTTCCC
* * * * *
45175456 ACAAACGTCGCTAAAGAGCCAGACTTTTGGCGGCGCTTTTCCC
1 ACAAACGCCGCTAAAGAGCGAAACCTTTAGCGGCGCTTTTCCC
*
45175499 ACAAACGCCACTAAAGAGCGA
1 ACAAACGCCGCTAAAGAGCGA
45175520 CAAACGCCGC
Statistics
Matches: 157, Mismatches: 29, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
42 11 0.07
43 138 0.88
44 8 0.05
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGAGCGAAACCTTTAGCGGCGCTTTTCCC
Found at i:45175384 original size:86 final size:85
Alignment explanation
Indices: 45175284--45175517 Score: 276
Period size: 86 Copynumber: 2.7 Consensus size: 85
45175274 GTTTTTGGAA
* *
45175284 ACAAACGCCGCTAAAGAGCGAAACTTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAGAGCAAG
1 ACAAACGCCGCTAAAGAGCGAGACTTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAGCAA-
* *
45175349 ACCATTAGCAGCGT-TTTTTTCC
65 ACCATTAGC-G-GTACTTTTCCC
* * * * *
45175371 A-AAACACCGCTAAAGAGCTG-GACCTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAAAAGGCG
1 ACAAACGCCGCTAAAGAGC-GAGACTTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGA-GCA
*
45175434 AACCTTTAGCGGTACTTTTCCC
64 AACCATTAGCGGTACTTTTCCC
* * * *
45175456 ACAAACGTCGCTAAAGAGCCAGACTTTTGGCGGCGCTTTTCCCACAAACGCCACTAAAGAGC
1 ACAAACGCCGCTAAAGAGCGAGACTTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAGC
45175518 GACAAACGCC
Statistics
Matches: 124, Mismatches: 18, Indels: 12
0.81 0.12 0.08
Matches are distributed among these distances:
84 2 0.02
85 10 0.08
86 107 0.86
87 5 0.04
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (85 bp):
ACAAACGCCGCTAAAGAGCGAGACTTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAGCAAA
CCATTAGCGGTACTTTTCCC
Found at i:45179081 original size:12 final size:12
Alignment explanation
Indices: 45179038--45179093 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
45179028 ACATGTATAA
45179038 ATTTTAGTTTTTT
1 ATTTTA-TTTTTT
* *
45179051 ATTTCA-TTTAT
1 ATTTTATTTTTT
45179062 A-TTT-TTTTTT
1 ATTTTATTTTTT
45179072 ATTTTATTTTTT
1 ATTTTATTTTTT
*
45179084 CTTTTATTTT
1 ATTTTATTTT
45179094 GGTCCTATCT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 7 0.20
11 8 0.23
12 15 0.43
13 5 0.14
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.79
Consensus pattern (12 bp):
ATTTTATTTTTT
Found at i:45179088 original size:17 final size:16
Alignment explanation
Indices: 45179038--45179093 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 16
45179028 ACATGTATAA
*
45179038 ATTTTAGTTTTTTATTTC
1 ATTTTA-TTTTTT-TTTT
45179056 A-TTTATATTTTTTTTT
1 ATTTTAT-TTTTTTTTT
45179072 ATTTTATTTTTTCTTTT
1 ATTTTATTTTTT-TTTT
45179089 ATTTT
1 ATTTT
45179094 GGTCCTATCT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
16 10 0.29
17 23 0.68
18 1 0.03
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.79
Consensus pattern (16 bp):
ATTTTATTTTTTTTTT
Found at i:45179509 original size:17 final size:16
Alignment explanation
Indices: 45179458--45179514 Score: 55
Period size: 17 Copynumber: 3.6 Consensus size: 16
45179448 TGAAACCTTA
45179458 AACCC-TAAA-TCCCT
1 AACCCATAAACTCCCT
* *
45179472 AACCCTTAAACCCCCT
1 AACCCATAAACTCCCT
*
45179488 GACCCATAAATCTCCCT
1 AACCCATAAA-CTCCCT
*
45179505 AACCCCTAAA
1 AACCCATAAA
45179515 GCATAACACT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
14 5 0.15
15 4 0.12
16 12 0.35
17 13 0.38
ACGTcount: A:0.35, C:0.44, G:0.02, T:0.19
Consensus pattern (16 bp):
AACCCATAAACTCCCT
Found at i:45179972 original size:113 final size:114
Alignment explanation
Indices: 45179772--45180236 Score: 580
Period size: 113 Copynumber: 4.1 Consensus size: 114
45179762 TAAATTATTT
* *
45179772 TAAATCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCTAAAGCTAAGAAAAC
1 TAAATCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAAC
* * * *
45179837 GGCGCCGTTGGGCTTAGATTTTTTTGCAGCGGTTTCCCAAAAATGCCGC
66 GGCGCCGTTGGGCTTAGTTTTTTTTGCGGCGCTTTCCCAAAAACGCCGC
* * *
45179886 TAAATCCCTGAGCATTAGCGGC-ATTTCTTAAAATCGCTGCTAAATCCCCAAAAGCTCAGAAAAC
1 TAAATCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAAC
* * ***
45179950 GGTGCCGTTCGGCTTAGTTTTTTTTGCGGCGCTTTCCCAAAAACATTGC
66 GGCGCCGTTGGGCTTAGTTTTTTTTGCGGCGCTTTCCCAAAAACGCCGC
* * * *
45179999 TAAA-GCCTGAGCATTAGCGGCGCTTTCTTCAAAACGCTGCTAAATCCCCGATAA-CTCAGAAAA
1 TAAATCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCC-AAAAGCTCAGAAAA
* * * * *
45180062 TGGAGCGGTTGGGCTTAGTTTTTTTTTTGCGGTGCTTCCCCAAAAACGCCGC
65 CGGCGCCGTTGGGCTTAG--TTTTTTTTGCGGCGCTTTCCCAAAAACGCCGC
* * * * *
45180114 TAAAGCCCTAAGCATTAGCGGCGTTTTCTAAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAAC
1 TAAATCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAAC
* * * *
45180179 GGCGTCGTTGGGCATAG--GTTTTTGCGGCGCTTTCTCAAAAACGCCGC
66 GGCGCCGTTGGGCTTAGTTTTTTTTGCGGCGCTTTCCCAAAAACGCCGC
45180226 TAAATCCCTGA
1 TAAATCCCTGA
45180237 AAGCTCAGCA
Statistics
Matches: 298, Mismatches: 47, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
112 51 0.17
113 128 0.43
114 25 0.08
115 33 0.11
116 61 0.20
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (114 bp):
TAAATCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAAC
GGCGCCGTTGGGCTTAGTTTTTTTTGCGGCGCTTTCCCAAAAACGCCGC
Found at i:45180220 original size:71 final size:72
Alignment explanation
Indices: 45180131--45180303 Score: 224
Period size: 71 Copynumber: 2.4 Consensus size: 72
45180121 CTAAGCATTA
* *
45180131 GCGGCGTTTTCTAAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGT-TGGGCATA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTGT-GGCATA
45180195 GG-TTTTT
65 GGTTTTTT
* * * *
45180202 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGAAAGCTCAGCAAACGGTGTCGTGTGGCTTAG
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTGTGGCATAG
45180267 GTTTTTTTT
66 G--TTTTTT
* * *
45180276 GCGGCGCTTCCCCAAAAACACCGCTAAA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAA
45180304 GCCCTGAGCA
Statistics
Matches: 89, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
71 58 0.65
72 1 0.01
74 30 0.34
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (72 bp):
GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTGTGGCATAG
GTTTTTT
Found at i:45180330 original size:186 final size:188
Alignment explanation
Indices: 45180015--45180424 Score: 589
Period size: 186 Copynumber: 2.2 Consensus size: 188
45180005 CTGAGCATTA
* * *
45180015 GCGGCGCTTTCTTC-AAAACGCTGCTAAATCCCCGATAACTCAGAAAATGGAGCGGTTGGGCTTA
1 GCGGCGCTTTC-TCAAAAACGCCGCTAAATCCCTGATAACTCAGAAAACGGAGCGGTTGGGCTTA
* * * * *
45180079 GTTTTTTTTTTGCGGTGCTTCCCCAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCGTTTTCTA
65 GTGTTTTTTTTGCGGCGCTTCCCCAAAAACACCGCTAAAGCCCTAAGCATTAGCGACGCTTTCTA
**
45180144 AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCATAGG-TTTTT
130 AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGAAGTCGTTGGGCATAGGTTTTTT
* *
45180202 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGA-AAGCTCAGCAAACGGTGTC-G-TGTGGCT
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGATAA-CTCAGAAAACGGAG-CGGTTG-GGCT
*
45180264 TAG-GTTTTTTTTGCGGCGCTTCCCCAAAAACACCGCTAAAGCCCTGAGCATTAGCGACGCTTTC
63 TAGTGTTTTTTTTGCGGCGCTTCCCCAAAAACACCGCTAAAGCCCTAAGCATTAGCGACGCTTTC
* *
45180328 TAAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGAAGTCGTTTGGCTTAGGTTTTTTT
128 TAAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGAAGTCGTTGGGCATAGG-TTTTTT
*
45180390 GCGGTGCTTTCTCAAAAACGCCGCTAAATCCCTGA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGA
45180425 GCATTAGCGA
Statistics
Matches: 201, Mismatches: 16, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
186 112 0.56
187 49 0.24
188 40 0.20
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (188 bp):
GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGATAACTCAGAAAACGGAGCGGTTGGGCTTAG
TGTTTTTTTTGCGGCGCTTCCCCAAAAACACCGCTAAAGCCCTAAGCATTAGCGACGCTTTCTAA
AAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGAAGTCGTTGGGCATAGGTTTTTT
Found at i:45180416 original size:300 final size:300
Alignment explanation
Indices: 45179909--45180604 Score: 945
Period size: 300 Copynumber: 2.3 Consensus size: 300
45179899 ATTAGCGGCA
* * * * *
45179909 TTTCTTAAAATCGCTGCTAAATCCCCAAAAGCTCAGAAAACGGTGCCGTTCGGCTTA-GTTTTTT
1 TTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGTGTCGTT-GGCTTAGGTTTTTT
** * ** *
45179973 TTGCGGCGCTTTCCCAAAAACATTGCTAAAGCCTGAGCATTAGCGGCGCTTTCTTCAAAACGCTG
65 TTGCGGCGCTTTCCCAAAAACACCGCTAAAGCCTGAGCATTAGCGACGCTTTCTAAAAAACGCCG
* * *
45180038 CTAAATCCCCGATAACTCAGAAAATGGAGCGGTTGGGCTTAGTTTTTTTTTTGCGGTGCTTCCCC
130 CTAAATCCCCGATAACTCAGAAAACGAAGCGGTTGGGCTTAG-TGTTTTTTTGCGGTGCTTCCCC
* *
45180103 AAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCGTTTTCTAAAAAACGCCGCTAAATCCCCGAAA
194 AAAAACGCCGCTAAAGCCCTAAGCATTAGCGACGCTTTCTAAAAAACGCCGCTAAATCCCCGAAA
45180168 GCTCAGAAAACGGCGTCGTTGGGCATAGG-TTTTTGCGGCGC
259 GCTCAGAAAACGGCGTCGTTGGGCATAGGTTTTTTGCGGCGC
* *
45180209 TTTCTCAAAAACGCCGCTAAATCCCTGAAAGCTCAGCAAACGGTGTCGTGTGGCTTAGGTTTTTT
1 TTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGTGTCGT-TGGCTTAGGTTTTTT
*
45180274 TTGCGGCGCTTCCCCAAAAACACCGCTAAAGCCCTGAGCATTAGCGACGCTTTCTAAAAAACGCC
65 TTGCGGCGCTTTCCCAAAAACACCGCTAAAG-CCTGAGCATTAGCGACGCTTTCTAAAAAACGCC
* *
45180339 GCTAAATCCCCGA-AAGCTCAGAAAACGAAGTC-GTTTGGCTTAG-GTTTTTTTGCGGTGCTTTC
129 GCTAAATCCCCGATAA-CTCAGAAAACGAAG-CGGTTGGGCTTAGTGTTTTTTTGCGGTGCTTCC
* * * *
45180401 TCAAAAACGCCGCTAAATCCCTGAGCATTAGCGACGCTTTCTTAAAAACGCCGCTAAATCCCCGA
192 CCAAAAACGCCGCTAAAGCCCTAAGCATTAGCGACGCTTTCTAAAAAACGCCGCTAAATCCCCGA
* *
45180466 AAGCTCAGAAAACGGCGTCGTTTGGCTTAGGTTTTTTTGCGGCGC
257 AAGCTCAGAAAACGGCGTCGTTGGGCATAGG-TTTTTTGCGGCGC
* * * * * *
45180511 TTTATCAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAATGGCGTTGTTTGGCTTAGG-TTTTT
1 TTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGTGTCG-TTGGCTTAGGTTTTTT
* ** *
45180575 TTGTGGCGCTTTATCAAAAACACCACTAAA
65 TTGCGGCGCTTTCCCAAAAACACCGCTAAA
45180605 TCCCCGAAAG
Statistics
Matches: 348, Mismatches: 40, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
300 153 0.44
301 68 0.20
302 125 0.36
303 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (300 bp):
TTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGTGTCGTTGGCTTAGGTTTTTTT
TGCGGCGCTTTCCCAAAAACACCGCTAAAGCCTGAGCATTAGCGACGCTTTCTAAAAAACGCCGC
TAAATCCCCGATAACTCAGAAAACGAAGCGGTTGGGCTTAGTGTTTTTTTGCGGTGCTTCCCCAA
AAACGCCGCTAAAGCCCTAAGCATTAGCGACGCTTTCTAAAAAACGCCGCTAAATCCCCGAAAGC
TCAGAAAACGGCGTCGTTGGGCATAGGTTTTTTGCGGCGC
Found at i:45180433 original size:114 final size:114
Alignment explanation
Indices: 45180206--45180535 Score: 516
Period size: 114 Copynumber: 2.9 Consensus size: 114
45180196 GTTTTTGCGG
* * * * *
45180206 CGCTTTCTCAAAAACGCCGCTAAATCCCTGAAAGCTCAGCAAACGGTGTCGTGTGGCTTAGGTTT
1 CGCTTTCTAAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGAGTCGTTTGGCTTAGG-TT
* * * *
45180271 TTTTTGCGGCGCTTCCCCAAAAACACCGCTAAAGCCCTGAGCATTAGCGA
65 TTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGAGCATTAGCGA
*
45180321 CGCTTTCTAAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGAAGTCGTTTGGCTTAGGTTT
1 CGCTTTCTAAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGAGTCGTTTGGCTTAGGTTT
*
45180386 TTTTGCGGTGCTTTCTCAAAAACGCCGCTAAATCCCTGAGCATTAGCGA
66 TTTTGCGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGAGCATTAGCGA
* *
45180435 CGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTTGGCTTAGGTTT
1 CGCTTTCTAAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGAGTCGTTTGGCTTAGGTTT
* *
45180500 TTTTGCGGCGCTTTATCAAAAACGCCACTAAATCCC
66 TTTTGCGGCGCTTTCTCAAAAACGCCGCTAAATCCC
45180536 CGAAAGCTCA
Statistics
Matches: 198, Mismatches: 17, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
114 142 0.72
115 56 0.28
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (114 bp):
CGCTTTCTAAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGAGTCGTTTGGCTTAGGTTT
TTTTGCGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGAGCATTAGCGA
Found at i:45180556 original size:73 final size:73
Alignment explanation
Indices: 45180435--45180681 Score: 377
Period size: 73 Copynumber: 3.4 Consensus size: 73
45180425 GCATTAGCGA
* * * * * *
45180435 CGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTTGGCTTAGGTTT
1 CGCTTTATCAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAATGGCGTTGTTTGGCTTAGGTTT
45180500 TTTTGCGG
66 TTTTGCGG
45180508 CGCTTTATCAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAATGGCGTTGTTTGGCTTAGGTTT
1 CGCTTTATCAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAATGGCGTTGTTTGGCTTAGGTTT
*
45180573 TTTTGTGG
66 TTTTGCGG
* **
45180581 CGCTTTATCAAAAACACCACTAAATCCCCGAAAGCTCAAAAAATGGTATTGTTTGGCTTAGGTTT
1 CGCTTTATCAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAATGGCGTTGTTTGGCTTAGGTTT
*
45180646 TTTAGCGG
66 TTTTGCGG
* *
45180654 CGATTTATCAAAAACGCCGCTAAATCCC
1 CGCTTTATCAAAAACGCCACTAAATCCC
45180682 TGAGCATTAG
Statistics
Matches: 159, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 159 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (73 bp):
CGCTTTATCAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAATGGCGTTGTTTGGCTTAGGTTT
TTTTGCGG
Found at i:45180694 original size:41 final size:41
Alignment explanation
Indices: 45180647--45180725 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 41
45180637 CTTAGGTTTT
*
45180647 TTAGCGGCGA-TTTATCAAAAACGCCGCTAAATCCCTGAGCA
1 TTAGCGGC-ACTTTATCAAAAACACCGCTAAATCCCTGAGCA
* * *
45180688 TTAGCGGCACTTTCTTAAAAACACCGCTAAATCTCTGA
1 TTAGCGGCACTTTATCAAAAACACCGCTAAATCCCTGA
45180726 AAGCTCAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 1 0.03
41 32 0.97
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (41 bp):
TTAGCGGCACTTTATCAAAAACACCGCTAAATCCCTGAGCA
Found at i:45180782 original size:374 final size:372
Alignment explanation
Indices: 45180144--45180886 Score: 1013
Period size: 374 Copynumber: 2.0 Consensus size: 372
45180134 GCGTTTTCTA
* *
45180144 AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCATAGGTTTTTGCGGCGC
1 AAAAACGCCACTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTGGGCATAGGTTTTTGCGGCGC
* * * * ** *
45180209 TTTCTCAAAAACGCCGCTAAATCCCTGAAAGCTCAGCAAACGGTGTCGTGTGGCTTAGGTTTTTT
66 TTTATCAAAAACACCACTAAATCCCCGAAAGCTCAAAAAACGGTATCGTGTGGCTTAGGTTTTTT
* * * * *
45180274 TTGCGGCGCTTCCCCAAAAACACCGCTAAAGCCCTGAGCATTAGCGACGCTTTCTAAAAAACGCC
131 TAGCGGCGATTCACCAAAAACACCGCTAAAGCCCTGAGCATTAGCGACACTTTCTAAAAAACACC
* * * * *
45180339 GCTAAATCCCCGAAAGCTCAGAAAACGAAGTCGTTTGGCTTAGGTTTTTTTGCGGTGCTTTCTCA
196 GCTAAATCCCCGAAAGCTCAAAAAACGAAGTCGTTTGGCGTAGGGTTTTTTGCGGCGCTTTATCA
*
45180404 AAAACGCCGCTAAATCCCTGAGCATTAGC-GACGCTTTCTTAAAAACGCCGCTAAATCCCCGAAA
261 AAAACGCCGCTAAATCCCTGAGCATTAGCAG-CGCTTTCTTAAAAACACCGCTAAATCCCCGAAA
* * *
45180468 GCTCAGAAAACGGCGTCGTTTGGCTTAGGTTTTTTTGCGGCGCTTTATC
325 ACTCAGAAAACAGCGTCGTTGGGCTTAGG-TTTTTTGCGGCGCTTTATC
* * * * *
45180517 AAAAACGCCACTAAATCCCCGAAAGCTCAAAAAATGGCGTTGTTTGGCTTAGGTTTTTTTGTGGC
1 AAAAACGCCACTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTGGGCATAGG--TTTTTGCGGC
* * *
45180582 GCTTTATCAAAAACACCACTAAATCCCCGAAAGCTCAAAAAATGGTATTGTTTGGCTTAGG-TTT
64 GCTTTATCAAAAACACCACTAAATCCCCGAAAGCTCAAAAAACGGTATCGTGTGGCTTAGGTTTT
* * * * * *
45180646 TTTAGCGGCGATTTATCAAAAACGCCGCTAAATCCCTGAGCATTAGCGGCACTTTCTTAAAAACA
129 TTTAGCGGCGATTCACCAAAAACACCGCTAAAGCCCTGAGCATTAGCGACACTTTCTAAAAAACA
* * ** *
45180711 CCGCTAAATCTCTGAAAGCTCAAAAAACGGCGTTGTTTGGCGTAGGGTTTTTTGCGGCGCTTTAT
194 CCGCTAAATCCCCGAAAGCTCAAAAAACGAAGTCGTTTGGCGTAGGGTTTTTTGCGGCGCTTTAT
* *
45180776 CAAAAACGTCGCTAAATCCCTGAGCATTAGCAGCGCTTTCTTAAAAACACCGCTAAATCTCCGAA
259 CAAAAACGCCGCTAAATCCCTGAGCATTAGCAGCGCTTTCTTAAAAACACCGCTAAATCCCCGAA
* * *
45180841 AACTCGGTAAACAGTGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTT
324 AACTCAGAAAACAGCGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTT
45180887 CTAGAAAATG
Statistics
Matches: 320, Mismatches: 47, Indels: 6
0.86 0.13 0.02
Matches are distributed among these distances:
373 63 0.20
374 196 0.61
375 61 0.19
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (372 bp):
AAAAACGCCACTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTGGGCATAGGTTTTTGCGGCGC
TTTATCAAAAACACCACTAAATCCCCGAAAGCTCAAAAAACGGTATCGTGTGGCTTAGGTTTTTT
TAGCGGCGATTCACCAAAAACACCGCTAAAGCCCTGAGCATTAGCGACACTTTCTAAAAAACACC
GCTAAATCCCCGAAAGCTCAAAAAACGAAGTCGTTTGGCGTAGGGTTTTTTGCGGCGCTTTATCA
AAAACGCCGCTAAATCCCTGAGCATTAGCAGCGCTTTCTTAAAAACACCGCTAAATCCCCGAAAA
CTCAGAAAACAGCGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTATC
Found at i:45180790 original size:114 final size:113
Alignment explanation
Indices: 45180590--45180903 Score: 414
Period size: 114 Copynumber: 2.8 Consensus size: 113
45180580 GCGCTTTATC
* * * *
45180590 AAAAACACCACTAAATCCCCGAAAGCTCAAAAAATGGTATTGTTTGGCTTAGGTTTTTTAGCGGC
1 AAAAACACCGCTAAATCTCCGAAAGCTCAAAAAACGGTGTTGTTTGGCTTAGGTTTTTT-GCGGC
* *
45180655 GATTTATCAAAAACGCCGCTAAATCCCTGAGCATTAGCGGCACTTTCTT
65 GCTTTATCAAAAACGCCGCTAAATCCCTGAGCATTAGCAGCACTTTCTT
* * *
45180704 AAAAACACCGCTAAATCTCTGAAAGCTCAAAAAACGGCGTTGTTTGGCGTAGGGTTTTTTGCGGC
1 AAAAACACCGCTAAATCTCCGAAAGCTCAAAAAACGGTGTTGTTTGGCTTA-GGTTTTTTGCGGC
* *
45180769 GCTTTATCAAAAACGTCGCTAAATCCCTGAGCATTAGCAGCGCTTTCTT
65 GCTTTATCAAAAACGCCGCTAAATCCCTGAGCATTAGCAGCACTTTCTT
* *** * * *
45180818 AAAAACACCGCTAAATCTCCGAAAACTCGGTAAACAGTGTCGTTGGGCTTAGGTTTTTTGCGGCG
1 AAAAACACCGCTAAATCTCCGAAAGCTCAAAAAACGGTGTTGTTTGGCTTAGGTTTTTTGCGGCG
* *
45180883 CTTTCT-AGAAAATGCCGCTAA
66 CTTTATCA-AAAACGCCGCTAA
45180904 TTCTTATTTT
Statistics
Matches: 174, Mismatches: 24, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
112 1 0.01
113 30 0.17
114 135 0.78
115 8 0.05
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.28
Consensus pattern (113 bp):
AAAAACACCGCTAAATCTCCGAAAGCTCAAAAAACGGTGTTGTTTGGCTTAGGTTTTTTGCGGCG
CTTTATCAAAAACGCCGCTAAATCCCTGAGCATTAGCAGCACTTTCTT
Found at i:45189099 original size:20 final size:20
Alignment explanation
Indices: 45189065--45189106 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
45189055 TACTATTTAA
** *
45189065 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
45189085 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
45189105 AT
1 AT
45189107 GTGTTTATTT
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:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:45190095 original size:32 final size:32
Alignment explanation
Indices: 45190049--45190122 Score: 98
Period size: 32 Copynumber: 2.3 Consensus size: 32
45190039 TATTTTTGTT
*
45190049 CACACCCAATGGACCGTCCAACTCC-TGATGTC
1 CACACCCAAGGGACCGTCCAACTCCAT-ATGTC
* *
45190081 CACACCCAAGGGACCGTCCAAGTCCATATGTT
1 CACACCCAAGGGACCGTCCAACTCCATATGTC
45190113 CACA-CCAAGG
1 CACACCCAAGG
45190123 ACTTTTTAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
31 6 0.16
32 31 0.82
33 1 0.03
ACGTcount: A:0.28, C:0.38, G:0.18, T:0.16
Consensus pattern (32 bp):
CACACCCAAGGGACCGTCCAACTCCATATGTC
Found at i:45191521 original size:16 final size:17
Alignment explanation
Indices: 45191500--45191532 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
45191490 TTGATGGTCG
45191500 TTCTGT-TATTGAAAAA
1 TTCTGTATATTGAAAAA
45191516 TTCTGTGATATTGAAAA
1 TTCTGT-ATATTGAAAA
45191533 GATGTTGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.36, C:0.06, G:0.15, T:0.42
Consensus pattern (17 bp):
TTCTGTATATTGAAAAA
Found at i:45201901 original size:255 final size:255
Alignment explanation
Indices: 45201450--45201956 Score: 944
Period size: 255 Copynumber: 2.0 Consensus size: 255
45201440 GTCCATTCTA
*
45201450 ACCCAAGCTCCTATATTGATTCAACCTAAGTCGAGTAAGGAGTTTGTGGTGTACAGCGATGCTTC
1 ACCCAAGCTCCTATATTGATTCAACCTAAGTCGAGTAAGGAGTTTATGGTGTACAGCGATGCTTC
*
45201515 ACACTTCGATTTGAGATATGTTCTGATGTAGGATGGTAAAGTGGTAGCTTATGCGCCGGTAACTA
66 ACACTTCGATTTGAGATATGTTCTGATGTAGGATGGTAAAGTGGTAGCTTATGCACCGGTAACTA
*
45201580 TCCTACTCATGATTTTGAGCTAGGTGCAGTCATGTTCACTCTGAAATTCTGGATGCACTACCTGT
131 TCCTACTCATGATTTTGAGCTAGGTGCAGTCATGTTCACTCTGAAAATCTGGATGCACTACCTGT
45201645 ATGGTGAGAGGTATATCATTTACACCGACCACAACAGATTGATTCAAGTGAAACTTCCTG
196 ATGGTGAGAGGTATATCATTTACACCGACCACAACAGATTGATTCAAGTGAAACTTCCTG
*
45201705 ACCCAAGCTCCTATATTGATTCAACCTAAGTCGAGTAAGGAGTTTATGGTGTACAGCGATGTTTC
1 ACCCAAGCTCCTATATTGATTCAACCTAAGTCGAGTAAGGAGTTTATGGTGTACAGCGATGCTTC
*
45201770 ACACTTCTATTTGAGATATAG-TCTGATGTAGGATGGTAAAGTGGTAGCTTATGCACCGGTAACT
66 ACACTTCGATTTGAGATAT-GTTCTGATGTAGGATGGTAAAGTGGTAGCTTATGCACCGGTAACT
*
45201834 ATCCTACTCATGATTTTGAGCTAGGTGCAGTCATGTTCGCTCTGAAAATCTGGATGCACTACCTG
130 ATCCTACTCATGATTTTGAGCTAGGTGCAGTCATGTTCACTCTGAAAATCTGGATGCACTACCTG
45201899 TATGGTGAGAGGTATATCATTTACACCGACCACAACAGATTGATTCAAGTGAAACTTC
195 TATGGTGAGAGGTATATCATTTACACCGACCACAACAGATTGATTCAAGTGAAACTTC
45201957 ATATTTTAGT
Statistics
Matches: 245, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
255 244 1.00
256 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.31
Consensus pattern (255 bp):
ACCCAAGCTCCTATATTGATTCAACCTAAGTCGAGTAAGGAGTTTATGGTGTACAGCGATGCTTC
ACACTTCGATTTGAGATATGTTCTGATGTAGGATGGTAAAGTGGTAGCTTATGCACCGGTAACTA
TCCTACTCATGATTTTGAGCTAGGTGCAGTCATGTTCACTCTGAAAATCTGGATGCACTACCTGT
ATGGTGAGAGGTATATCATTTACACCGACCACAACAGATTGATTCAAGTGAAACTTCCTG
Found at i:45208899 original size:28 final size:27
Alignment explanation
Indices: 45208867--45208965 Score: 112
Period size: 28 Copynumber: 3.6 Consensus size: 27
45208857 TTAATAAGTA
* *
45208867 CGCACACTTAGTGCTTAATAATCACACT
1 CGCACACTTAGTGCTT-ATAATTAAACT
*
45208895 CGCACACTTAGTGCTT-TACCATTATACT
1 CGCACACTTAGTGCTTATA--ATTAAACT
45208923 CGCACACTTAGTGCATT-TCAATTAAACT
1 CGCACACTTAGTGC-TTAT-AATTAAACT
45208951 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45208966 AATCTCATTA
Statistics
Matches: 64, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
26 2 0.03
27 1 0.02
28 57 0.89
29 3 0.05
30 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.31
Consensus pattern (27 bp):
CGCACACTTAGTGCTTATAATTAAACT
Found at i:45213009 original size:45 final size:45
Alignment explanation
Indices: 45212910--45213031 Score: 131
Period size: 45 Copynumber: 2.7 Consensus size: 45
45212900 ATACGTTTAG
*
45212910 AGATGAATAAGACCATAGCTGAAAGATGCTATGGTATCACACTAA
1 AGATGAATAAGACCATAGCTGAAAGATGCTATGGCATCACACTAA
** * *
45212955 AGACCAATAAGACCATAGTTGAAAGATGCTATGGCGTCATCA-TATA
1 AGATGAATAAGACCATAGCTGAAAGATGCTATGGCATCA-CACTA-A
* * * *
45213001 A-ATGAATAAGATCATGGCTAAAAGACGCTAT
1 AGATGAATAAGACCATAGCTGAAAGATGCTAT
45213032 AACATCCTTT
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
45 59 0.94
46 4 0.06
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.23
Consensus pattern (45 bp):
AGATGAATAAGACCATAGCTGAAAGATGCTATGGCATCACACTAA
Found at i:45213346 original size:27 final size:27
Alignment explanation
Indices: 45213316--45213380 Score: 64
Period size: 27 Copynumber: 2.4 Consensus size: 27
45213306 GACGACACAT
*
45213316 TAAACATGGGATAGT-CTGTTAGGAC-A
1 TAAACATGGGATAGTCCTCTT-GGACGA
*
45213342 CTAAAC-TCGGGGTAGTCCTCTTGGACGA
1 -TAAACAT-GGGATAGTCCTCTTGGACGA
45213370 TAAACATGGGA
1 TAAACATGGGA
45213381 GATTATGAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
26 1 0.03
27 24 0.77
28 6 0.19
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (27 bp):
TAAACATGGGATAGTCCTCTTGGACGA
Found at i:45218670 original size:13 final size:13
Alignment explanation
Indices: 45218652--45218676 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45218642 ATTTCATTTT
45218652 TTCAATTTCAATA
1 TTCAATTTCAATA
45218665 TTCAATTTCAAT
1 TTCAATTTCAAT
45218677 GTTTTACCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (13 bp):
TTCAATTTCAATA
Found at i:45219044 original size:30 final size:30
Alignment explanation
Indices: 45219010--45219082 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
45219000 TACATGTTAA
*
45219010 CATATTCATACCATGT-ATCATTCACATTTG
1 CATATTCATACC-TGTAATCAGTCACATTTG
* *
45219040 CATA-TCATACTCTGTAATTAGTCACATTTT
1 CATATTCATAC-CTGTAATCAGTCACATTTG
*
45219070 CATTTTCATACCT
1 CATATTCATACCT
45219083 TATAATCATC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
29 9 0.25
30 21 0.58
31 6 0.17
ACGTcount: A:0.29, C:0.23, G:0.05, T:0.42
Consensus pattern (30 bp):
CATATTCATACCTGTAATCAGTCACATTTG
Found at i:45221525 original size:20 final size:22
Alignment explanation
Indices: 45221500--45221542 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
45221490 GAAATGAATA
45221500 AAAATTTTA-AAA-CATAAATT
1 AAAATTTTATAAATCATAAATT
*
45221520 AAAATTTTATAAATTATAAATT
1 AAAATTTTATAAATCATAAATT
45221542 A
1 A
45221543 TAATACATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 3 0.15
22 8 0.40
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAATTTTATAAATCATAAATT
Found at i:45223484 original size:50 final size:49
Alignment explanation
Indices: 45223336--45223485 Score: 131
Period size: 50 Copynumber: 3.0 Consensus size: 49
45223326 CGTAACTATG
* * ** *
45223336 ATGTCAGGGAAGCAAGATTCGCCATTGTAGCTTTAATCTACTCCGCTGCA
1 ATGTCAGGGAAGCAAGATTCGCCGTTGTAGCTTTAAT-TTCTCTACTACA
* * * * * * *
45223386 TTATCTGGGAAGTAAGATTCACTGTTGTAGCTTTACTCTTCT-TGACTACA
1 ATGTCAGGGAAGCAAGATTCGCCGTTGTAGCTTTAAT-TTCTCT-ACTACA
* *
45223436 ATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTTAATTTGCTCTACTACA
1 ATGTCAGGGAAGCAAGATTCGCCGTTGTAGCTTTAATTT-CTCTACTACA
45223486 TTATCTGGGA
Statistics
Matches: 77, Mismatches: 20, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
49 2 0.03
50 74 0.96
51 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (49 bp):
ATGTCAGGGAAGCAAGATTCGCCGTTGTAGCTTTAATTTCTCTACTACA
Found at i:45223827 original size:175 final size:173
Alignment explanation
Indices: 45223530--45223848 Score: 478
Period size: 175 Copynumber: 1.8 Consensus size: 173
45223520 TATTCCATTC
* * *
45223530 TAATCTCAGGGAGATAAGACCTGATACGATCTGCTCTACTGTAACTTCAGAGATAAGATCATTTA
1 TAATCTCAGGGAGATAAAACCTGATACGATCTACTCTACTGTAACTTCAGAGATAAAATCATTTA
* * *
45223595 TTTTAATCCGCTCCACTATAATCTCAAAGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAA
66 GTTTAATCCGCTCCACTATAATCTCAAAGAAATAGGATTACTAGCTTCAATCTGCTCCGCTATAA
45223660 TCTC-AGGAAGATAATATCTAAAATTCTTCTGTTTATTCAACTA
131 TCTCAAGG-AGATAATATCTAAAATTCTTCTGTTTATTCAACTA
* * *
45223703 TAATCTCAGGGAGATAAAACCTGATGCGATCTACTCTACTGTAGCTTCAGAGAGATAAAATCCTT
1 TAATCTCAGGGAGATAAAACCTGATACGATCTACTCTACTGTAACTTC--AGAGATAAAATCATT
* * * **
45223768 TAGTTTAATCCGTTCCATTGTAATCTCAGGGAAATAGGATTACTAGCTTCAATCTGCTCCGCTAT
64 TAGTTTAATCCGCTCCACTATAATCTCAAAGAAATAGGATTACTAGCTTCAATCTGCTCCGCTAT
45223833 AATCTCAAGGAGATAA
129 AATCTCAAGGAGATAA
45223849 GATTCACCAT
Statistics
Matches: 129, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
173 44 0.34
175 82 0.64
176 3 0.02
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (173 bp):
TAATCTCAGGGAGATAAAACCTGATACGATCTACTCTACTGTAACTTCAGAGATAAAATCATTTA
GTTTAATCCGCTCCACTATAATCTCAAAGAAATAGGATTACTAGCTTCAATCTGCTCCGCTATAA
TCTCAAGGAGATAATATCTAAAATTCTTCTGTTTATTCAACTA
Found at i:45223871 original size:45 final size:44
Alignment explanation
Indices: 45223788--45223877 Score: 117
Period size: 45 Copynumber: 2.0 Consensus size: 44
45223778 CGTTCCATTG
* * *
45223788 TAATCTCAGGGAAATAGGATTACTAGCTTCAATCTGCTCCGCTA
1 TAATCTCAAGGAAATAAGATTACCAGCTTCAATCTGCTCCGCTA
* * *
45223832 TAATCTCAAGGAGATAAGATTCACCATCTTCGATCTGCTCCGCTA
1 TAATCTCAAGGAAATAAGATT-ACCAGCTTCAATCTGCTCCGCTA
45223877 T
1 T
45223878 TGCTTTGGGA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 18 0.46
45 21 0.54
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (44 bp):
TAATCTCAAGGAAATAAGATTACCAGCTTCAATCTGCTCCGCTA
Found at i:45238019 original size:27 final size:25
Alignment explanation
Indices: 45237970--45238017 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
45237960 TTGAACAATC
45237970 TTATCATTTAAAAAAATATATATCA
1 TTATCATTTAAAAAAATATATATCA
* *
45237995 TTATCTTTTCAAAAAATATATAT
1 TTATCATTTAAAAAAATATATAT
45238018 ATGATACTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (25 bp):
TTATCATTTAAAAAAATATATATCA
Found at i:45238075 original size:13 final size:15
Alignment explanation
Indices: 45238049--45238080 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
45238039 CATTGTATGC
45238049 ATTTCCCACCATC-T
1 ATTTCCCACCATCTT
45238063 ATTTCCC-CCATCTT
1 ATTTCCCACCATCTT
45238077 ATTT
1 ATTT
45238081 GGTTCAAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.19, C:0.38, G:0.00, T:0.44
Consensus pattern (15 bp):
ATTTCCCACCATCTT
Found at i:45240106 original size:2 final size:2
Alignment explanation
Indices: 45240099--45240126 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
45240089 ATCAAAATTC
45240099 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45240127 TTAACTTGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45248029 original size:17 final size:17
Alignment explanation
Indices: 45248004--45248037 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
45247994 GAAAGAGTAG
* *
45248004 TAATTTTTAATTTTTTA
1 TAATATTTAATATTTTA
45248021 TAATATTTAATATTTTA
1 TAATATTTAATATTTTA
45248038 AAAAAATTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TAATATTTAATATTTTA
Found at i:45249462 original size:13 final size:14
Alignment explanation
Indices: 45249437--45249465 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
45249427 AATATGAAAG
45249437 TTTAAATATTTAAT
1 TTTAAATATTTAAT
45249451 TTTAAA-ATTTAAT
1 TTTAAATATTTAAT
45249464 TT
1 TT
45249466 CAATATTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTAAATATTTAAT
Found at i:45251224 original size:17 final size:19
Alignment explanation
Indices: 45251201--45251242 Score: 70
Period size: 17 Copynumber: 2.3 Consensus size: 19
45251191 GTTCGCATTC
45251201 AGTTCGTATT-CATATAAG
1 AGTTCGTATTGCATATAAG
45251219 -GTTCGTATTGCATATAAG
1 AGTTCGTATTGCATATAAG
45251237 AGTTCG
1 AGTTCG
45251243 CATACCTATG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.41
18 8 0.36
19 5 0.23
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (19 bp):
AGTTCGTATTGCATATAAG
Found at i:45252424 original size:91 final size:92
Alignment explanation
Indices: 45252267--45252440 Score: 287
Period size: 91 Copynumber: 1.9 Consensus size: 92
45252257 GTTGCTGCAG
* * *
45252267 GGAACTAGTGGAATGAGTATTTAGGATCTAAGTTTGAAGATAAGAGCTTTGCTTGTGAGTTTTTC
1 GGAACTAGTGGAATGAGTATTTAGGATCCAAGTTTGAAGACAAGAGCTTTGCTTGTGAGTTGTTC
45252332 TCCAGTAACT-AAACCCTAAACCCTAA
66 TCCAGTAACTAAAACCCTAAACCCTAA
* *
45252358 GGAACTAGTGGAATGAGTATTTATGATCCAAGTTTGAATACAAGAGCTTTGCTTGTGAGTTGTTC
1 GGAACTAGTGGAATGAGTATTTAGGATCCAAGTTTGAAGACAAGAGCTTTGCTTGTGAGTTGTTC
*
45252423 TCTAGTAACTAAAACCCT
66 TCCAGTAACTAAAACCCT
45252441 TCAAGTTGCA
Statistics
Matches: 76, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
91 69 0.91
92 7 0.09
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (92 bp):
GGAACTAGTGGAATGAGTATTTAGGATCCAAGTTTGAAGACAAGAGCTTTGCTTGTGAGTTGTTC
TCCAGTAACTAAAACCCTAAACCCTAA
Found at i:45253912 original size:57 final size:55
Alignment explanation
Indices: 45253790--45253913 Score: 144
Period size: 55 Copynumber: 2.2 Consensus size: 55
45253780 TAATTCATAT
* * **
45253790 TTTAATAATAATTAAATTAAGAATGTTATTAAATTATATATTATTTTTATTTGTA
1 TTTAATAATAATTAAATTAAGAATATGATTAAATTATATATTATTTTTATTTAAA
*
45253845 TTTAATAATAATTATATTAA-AATATGATTAAATTATTTATTATTATTTTTA-TTAAA
1 TTTAATAATAATTAAATTAAGAATATGATTAAATTA--TA-TATTATTTTTATTTAAA
*
45253901 TTTATTTAATAAT
1 TTTA-ATAATAAT
45253914 AATCCTATTA
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
54 13 0.22
55 19 0.32
56 9 0.15
57 18 0.31
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (55 bp):
TTTAATAATAATTAAATTAAGAATATGATTAAATTATATATTATTTTTATTTAAA
Found at i:45253923 original size:60 final size:56
Alignment explanation
Indices: 45253772--45253927 Score: 172
Period size: 60 Copynumber: 2.7 Consensus size: 56
45253762 TTATGTAATG
* * *
45253772 ATTTTTATTAATTCATATTTTAATAATAATTAAATTAAGAATGTTATTAAATTATATATT
1 ATTTTTATTAATT--TA-TTTAATAATAATTATATTAA-AATATGATTAAATTATATATT
*
45253832 ATTTTTATT--TGTATTTAATAATAATTATATTAAAATATGATTAAATTATTTATTATT
1 ATTTTTATTAATTTATTTAATAATAATTATATTAAAATATGATTAAATTA--TA-TATT
**
45253889 ATTTTTATTAAATTTATTTAATAATAATCCTATTAAAAT
1 ATTTTTATT-AATTTATTTAATAATAATTATATTAAAAT
45253928 TTAATAACAA
Statistics
Matches: 83, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
54 13 0.16
55 19 0.23
56 4 0.05
57 13 0.16
58 1 0.01
60 33 0.40
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (56 bp):
ATTTTTATTAATTTATTTAATAATAATTATATTAAAATATGATTAAATTATATATT
Found at i:45258446 original size:119 final size:114
Alignment explanation
Indices: 45258234--45258469 Score: 339
Period size: 119 Copynumber: 2.0 Consensus size: 114
45258224 TCGTAAGTCT
* * *
45258234 CTAAGGGCTCCTTTAGATGGGTGTTTACCTCTAGTGCGTTGCATTTAGTTTTTTTTTGTCTCGCG
1 CTAAGGGCTCCTTTAGATGGGTGTATACCTCTAGTGCGGTGCATTTAGTTTTTTTTTGTCTCACG
* *
45258299 CTACAGTATGGTTATAGTATCTAATCTCATCGCCACAAC-AGTTTTTACA
66 CTACAATATGGCTATAGTATCTAATCTCATCGCCACAACTA-TTTTTACA
* *
45258348 CTAAGGGCTCCTTTAGATGGGTGTATACCTCTAGTGTGGTGCGTTTAGTTTCTTTTTTTTTTGTC
1 CTAAGGGCTCCTTTAGATGGGTGTATACCTCTAGTGCGGTGCATTTAG-----TTTTTTTTTGTC
*
45258413 TCACGCTATAATATGGCTATAGTATCTAATCTCATCGCCACAACTATTTTTACA
61 TCACGCTACAATATGGCTATAGTATCTAATCTCATCGCCACAACTATTTTTACA
45258467 CTA
1 CTA
45258470 GCCGCAGGTA
Statistics
Matches: 108, Mismatches: 8, Indels: 7
0.88 0.07 0.06
Matches are distributed among these distances:
114 44 0.41
119 63 0.58
120 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.41
Consensus pattern (114 bp):
CTAAGGGCTCCTTTAGATGGGTGTATACCTCTAGTGCGGTGCATTTAGTTTTTTTTTGTCTCACG
CTACAATATGGCTATAGTATCTAATCTCATCGCCACAACTATTTTTACA
Found at i:45260308 original size:12 final size:12
Alignment explanation
Indices: 45260291--45260316 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
45260281 CTTTTCCCTT
45260291 CCATCGGTTCTG
1 CCATCGGTTCTG
45260303 CCATCGGTTCTG
1 CCATCGGTTCTG
45260315 CC
1 CC
45260317 GTCGCTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.38, G:0.23, T:0.31
Consensus pattern (12 bp):
CCATCGGTTCTG
Found at i:45263189 original size:18 final size:17
Alignment explanation
Indices: 45263167--45263301 Score: 77
Period size: 18 Copynumber: 8.0 Consensus size: 17
45263157 AATACTAAGA
45263167 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
45263184 ATTTTTGTTAAA-T-TAT
1 A-TTTTATTAAATTATAT
* *
45263200 A-TTTAAT-AATAAT-T
1 ATTTTATTAAATTATAT
* *
45263214 ATTTTAAATTATATTTTAT
1 ATTTT--ATTAAATTATAT
* * *
45263233 AGTATTA-TATATTAT-G
1 A-TTTTATTAAATTATAT
*
45263249 ATTTTAGTAAATTCATAT
1 ATTTTATTAAATT-ATAT
*
45263267 ATTTCATTAAATTATAT
1 ATTTTATTAAATTATAT
45263284 ATTTTTATTAAATTATAT
1 A-TTTTATTAAATTATAT
45263302 TTAATAATAA
Statistics
Matches: 88, Mismatches: 17, Indels: 25
0.68 0.13 0.19
Matches are distributed among these distances:
13 2 0.02
14 6 0.07
15 8 0.09
16 10 0.11
17 18 0.20
18 39 0.44
19 2 0.02
20 3 0.03
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.56
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:45263318 original size:26 final size:25
Alignment explanation
Indices: 45263289--45263360 Score: 57
Period size: 26 Copynumber: 3.0 Consensus size: 25
45263279 TATATATTTT
45263289 TATTAAATTATATTTAATAATAATTA
1 TATTAAATTATATTTAATAAT-ATTA
* *
45263315 TATTAAAATATGA-TTAA-ATTATT-
1 TATTAAATTAT-ATTTAATAATATTA
*
45263338 TATT--ATTATA-TTAATAATCTTA
1 TATTAAATTATATTTAATAATATTA
45263360 T
1 T
45263361 TAAAAATTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
20 5 0.13
21 8 0.21
22 1 0.03
23 4 0.11
24 3 0.08
25 2 0.05
26 14 0.37
27 1 0.03
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (25 bp):
TATTAAATTATATTTAATAATATTA
Found at i:45263518 original size:44 final size:46
Alignment explanation
Indices: 45263455--45263546 Score: 152
Period size: 44 Copynumber: 2.0 Consensus size: 46
45263445 ACTATTACAC
*
45263455 TTCTATTCCATTCAACCAAACACAAGAA-TA-TCATTACGCCTCTA
1 TTCTATTCCATTCAACCAAACAAAAGAATTACTCATTACGCCTCTA
*
45263499 TTCTATTCCATTCAACCAAACAAAAGAATTACTTATTACGCCTCTA
1 TTCTATTCCATTCAACCAAACAAAAGAATTACTCATTACGCCTCTA
45263545 TT
1 TT
45263547 TCATTACACT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 27 0.61
45 2 0.05
46 15 0.34
ACGTcount: A:0.36, C:0.27, G:0.04, T:0.33
Consensus pattern (46 bp):
TTCTATTCCATTCAACCAAACAAAAGAATTACTCATTACGCCTCTA
Found at i:45264239 original size:22 final size:22
Alignment explanation
Indices: 45264214--45264255 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
45264204 AAGATTTGTG
* *
45264214 TGTTTTATTATTGTTTTTATGA
1 TGTTTTATAATAGTTTTTATGA
45264236 TGTTTTATAATAGTTTTTAT
1 TGTTTTATAATAGTTTTTAT
45264256 ATTTAAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.67
Consensus pattern (22 bp):
TGTTTTATAATAGTTTTTATGA
Found at i:45264400 original size:115 final size:114
Alignment explanation
Indices: 45264281--45264560 Score: 305
Period size: 115 Copynumber: 2.4 Consensus size: 114
45264271 TTTTATAATG
* * * * *
45264281 TTTTTTAGATTTAAGTTTGCATTAAATGTATGGTTAATTTGTTTTATTAATGTTATTATTGTATC
1 TTTTTTAGATTTAAGTTTGTATT-AAGGTATGATTAATTTATTTTATTAATGTTATTATGGTATC
*
45264346 TTATATCAGTTTTTTTCGTATTCAAGGGAAATGATA-TTTTT-TTGTTGTGT
65 TTATATCA-ATTTTTT-GTATTCAAGGGAAATGATATTTTTTGTTGTTGTGT
* * *
45264396 TTTTTTAGTTTTATA-TTTGTATTGAAGGTATGATTAATTTATTTTATTAATGTTTTTGTGGTAT
1 TTTTTTAGATTTA-AGTTTGTATT-AAGGTATGATTAATTTATTTTATTAATGTTATTATGGTAT
* ***** *
45264460 CTTATATTAATTTTTTGTATTTTCTTGAAATGTTATTTTTTGTTGTTGTGT
64 CTTATATCAATTTTTTGTATTCAAGGGAAATGATATTTTTTGTTGTTGTGT
* * * * *
45264511 TTTATTAGCTTTAAGTTTGTATTTAGGTTTGATTAATTTTTTTTATTAAT
1 TTTTTTAGATTTAAGTTTGTATTAAGGTATGATTAATTTATTTTATTAAT
45264561 ATGGGTAAGA
Statistics
Matches: 139, Mismatches: 22, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
113 13 0.09
114 36 0.26
115 89 0.64
116 1 0.01
ACGTcount: A:0.23, C:0.03, G:0.15, T:0.60
Consensus pattern (114 bp):
TTTTTTAGATTTAAGTTTGTATTAAGGTATGATTAATTTATTTTATTAATGTTATTATGGTATCT
TATATCAATTTTTTGTATTCAAGGGAAATGATATTTTTTGTTGTTGTGT
Found at i:45264712 original size:22 final size:22
Alignment explanation
Indices: 45264658--45264712 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
45264648 ATTTGGGGAA
45264658 TTGTGTTTATTAATATAATTAAT
1 TTGT-TTTATTAATATAATTAAT
* *
45264681 TTGTTATATTAAT-TAATTTAT
1 TTGTTTTATTAATATAATTAAT
*
45264702 TATTTTTTATT
1 T-TGTTTTATT
45264713 CAAGTTTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 8 0.30
22 15 0.56
23 4 0.15
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (22 bp):
TTGTTTTATTAATATAATTAAT
Found at i:45267264 original size:15 final size:17
Alignment explanation
Indices: 45267232--45267264 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
45267222 TAAATGAAAA
45267232 TATAATATTTTATATTT
1 TATAATATTTTATATTT
45267249 TATAA-ATTTT-TATTT
1 TATAATATTTTATATTT
45267264 T
1 T
45267265 TTATCATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 5 0.31
17 5 0.31
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TATAATATTTTATATTT
Found at i:45269051 original size:25 final size:25
Alignment explanation
Indices: 45269030--45269076 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
45269020 TTTTATATTA
45269030 ATATTAATATTAAATAAATATAAGT
1 ATATTAATATTAAATAAATATAAGT
45269055 ATATTAATATTAAATAAA-ATAA
1 ATATTAATATTAAATAAATATAA
45269077 AAATTTATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (25 bp):
ATATTAATATTAAATAAATATAAGT
Found at i:45269475 original size:16 final size:17
Alignment explanation
Indices: 45269442--45269476 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
45269432 TTCATTATTC
*
45269442 AATTTTTAATTATTTAT
1 AATTTTTAATTATATAT
45269459 AATTTTTAA-TATATAT
1 AATTTTTAATTATATAT
45269475 AA
1 AA
45269477 AACTACGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
AATTTTTAATTATATAT
Found at i:45276294 original size:7 final size:7
Alignment explanation
Indices: 45276277--45276309 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
45276267 GAATTTAAAA
45276277 AAAAGATG
1 AAAA-ATG
45276285 AAAAATG
1 AAAAATG
45276292 -AAAATG
1 AAAAATG
45276298 AAAAATG
1 AAAAATG
45276305 AAAAA
1 AAAAA
45276310 ATAAAAAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.25
7 14 0.58
8 4 0.17
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:45276298 original size:13 final size:13
Alignment explanation
Indices: 45276282--45276308 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
45276272 TAAAAAAAAG
45276282 ATGAAAAATGAAA
1 ATGAAAAATGAAA
45276295 ATGAAAAATGAAA
1 ATGAAAAATGAAA
45276308 A
1 A
45276309 AATAAAAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
ATGAAAAATGAAA
Found at i:45276322 original size:14 final size:15
Alignment explanation
Indices: 45276276--45276316 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
45276266 TGAATTTAAA
45276276 AAAAAGATGAAAAATG
1 AAAAA-ATGAAAAATG
45276292 --AAAATGAAAAATG
1 AAAAAATGAAAAATG
45276305 AAAAAAT-AAAAA
1 AAAAAATGAAAAA
45276317 GTAAAATGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 10 0.43
14 8 0.35
15 5 0.22
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (15 bp):
AAAAAATGAAAAATG
Found at i:45277692 original size:131 final size:131
Alignment explanation
Indices: 45277519--45277882 Score: 602
Period size: 131 Copynumber: 2.8 Consensus size: 131
45277509 GTGAAATCAC
*
45277519 CACGTCCTATGTCCCTGACCAGCGGTGGAATAGGTTGGAAATTGCAGATCTTGTCTCCCTAAGCA
1 CACGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTGCAGATCTTGTCTCCCTAAGCA
* *
45277584 GTAGTGGAGCAGATCCAAGACGGCAAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCC
66 GTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCC
45277649 A
131 A
* *
45277650 CACGTACTATGTCCCTGACTAGCAGTGGAATAGGTTGGAAATTGCAGATCTTGTCTCCCTAAGCA
1 CACGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTGCAGATCTTGTCTCCCTAAGCA
* *
45277715 GTAGTAGAGCAGATCGAAGACGGCGAATCTTATCTTCCTCAGGAGTAGGGAAACAGATTTAAGCC
66 GTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCC
45277780 A
131 A
** * * *
45277781 CACGTCCTATGTCCCTGACCAATAGTGAAATAGGTTGGAAATTACAGATCTTGTCTCCCAAAGCA
1 CACGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTGCAGATCTTGTCTCCCTAAGCA
* *
45277846 ATAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTC
66 GTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTC
45277883 AAGTGTAAGG
Statistics
Matches: 216, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
131 216 1.00
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (131 bp):
CACGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTGCAGATCTTGTCTCCCTAAGCA
GTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCC
A
Found at i:45278002 original size:44 final size:44
Alignment explanation
Indices: 45277917--45278436 Score: 320
Period size: 44 Copynumber: 11.1 Consensus size: 44
45277907 CACAATAGAT
* * * *
45277917 CAGATTAAAGCCAGAAATCTTATCTCCCTAAGATTACAGTGGAG
1 CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTGGAG
* * *
45277961 CAAATTGAAGCTAGTAATCCTATCTCCCTGAGATTATAGTGGAG
1 CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTGGAG
* ** * * *
45278005 CGGATT-AAAATAAAG-GATCTTATATCTCTGA-AGTTACAGTAGAGTAG
1 CAGATTGAAGCT--AGTAATCTTATCTCCCTGAGA-TTACAGT-G-G-AG
* * *
45278052 ATCGTATCGGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGTAGAG
1 --C--A---GATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTGGAG
*
45278103 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTGGAG
* ** * *
45278147 CGGATT-AAAATAAAG-GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCG
1 CAGATTGAAGCT--AGTAATCTTATCTCCCTGAGA-TTACAGT---G--GA--G
* * *
45278198 CATCAGATTGAAGCTAGAAATCTTATCTCCTTGAGATTACAGCGGAG
1 ---CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTGGAG
45278245 CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTGGAG
* ** * *
45278289 CGGATT-AAAATAAAG-GATCTTATCTCTCTGA-AGTTACAGTAAAGTAGATCG
1 CAGATTGAAGCT--AGTAATCTTATCTCCCTGAGA-TTACAGT---G--GA--G
* *
45278340 CATCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
1 ---CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTGGAG
*
45278387 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTGGAG
*
45278431 CGGATT
1 CAGATT
45278437 AAAATAAAGG
Statistics
Matches: 369, Mismatches: 59, Indels: 96
0.70 0.11 0.18
Matches are distributed among these distances:
43 12 0.03
44 235 0.64
45 7 0.02
46 1 0.00
47 7 0.02
49 10 0.03
51 6 0.02
52 1 0.00
53 6 0.02
54 73 0.20
55 11 0.03
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (44 bp):
CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTGGAG
Found at i:45278087 original size:142 final size:142
Alignment explanation
Indices: 45277915--45278487 Score: 1002
Period size: 142 Copynumber: 4.0 Consensus size: 142
45277905 GCCACAATAG
* * * *
45277915 ATCAGATTAAAGCCAGAAATCTTATCTCCCTAAGATTACAGTGGAGCAAATTGAAGCTAGTAATC
1 ATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
* *
45277980 CTATCTCCCTGAGATTATAGTGGAGCGGATTAAAATAAAGGATCTTATATCTCTGAAGTTACAGT
66 CTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGT
*
45278045 AGAGTAGATCGT
131 AGAGTAGATCGC
* **
45278057 ATCGGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGTAGAGCAGATTGAAGCTAGTAATC
1 ATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
45278122 CTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGT
66 CTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGT
45278187 AGAGTAGATCGC
131 AGAGTAGATCGC
* *
45278199 ATCAGATTGAAGCTAGAAATCTTATCTCCTTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
1 ATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
*
45278264 TTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGT
66 CTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGT
*
45278329 AAAGTAGATCGC
131 AGAGTAGATCGC
*
45278341 ATCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
1 ATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
*
45278406 CTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCCCTGAAGTTACAGT
66 CTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGT
45278471 AGAGTAGATCGC
131 AGAGTAGATCGC
45278483 ATCAG
1 ATCAG
45278488 GTCTTATCTC
Statistics
Matches: 412, Mismatches: 19, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
142 412 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (142 bp):
ATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
CTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGT
AGAGTAGATCGC
Found at i:45278282 original size:98 final size:97
Alignment explanation
Indices: 45278103--45278284 Score: 233
Period size: 98 Copynumber: 1.9 Consensus size: 97
45278093 TACAGTAGAG
* * * *
45278103 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTT
1 CAGATTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTAAAAT-AAGAATCTT
*
45278168 ATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
65 ATCTCCCTGAAGTTACAGTAGAGTAGATCGCAT
* * **
45278201 CAGATTGAAGCTAGAAATCTTATCTCCTTGAGATTACAGCGGAGCAGATTGAAGCT-AGTAATCT
1 CAGATTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATT-AAAATAAG-AATCT
45278265 TATCTCCCTG-AGATTACAGT
64 TATCTCCCTGAAG-TTACAGT
45278285 GGAGCGGATT
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
97 4 0.06
98 65 0.90
99 3 0.04
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (97 bp):
CAGATTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTAAAATAAGAATCTTA
TCTCCCTGAAGTTACAGTAGAGTAGATCGCAT
Found at i:45278424 original size:98 final size:97
Alignment explanation
Indices: 45278245--45278426 Score: 242
Period size: 98 Copynumber: 1.9 Consensus size: 97
45278235 TACAGCGGAG
* * * * *
45278245 CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTT
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAAT-AAGAATCCT
*
45278310 ATCTCTCTGAAGTTACAGTAAAGTAGATCGCAT
65 ATCTCCCTGAAGTTACAGTAAAGTAGATCGCAT
**
45278343 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCT-AGTAATCC
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATT-AAAATAAG-AATCC
45278407 TATCTCCCTG-AGATTACAGT
64 TATCTCCCTGAAG-TTACAGT
45278427 GGAGCGGATT
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
97 4 0.05
98 66 0.90
99 3 0.04
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (97 bp):
CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAATAAGAATCCTA
TCTCCCTGAAGTTACAGTAAAGTAGATCGCAT
Found at i:45278455 original size:44 final size:44
Alignment explanation
Indices: 45278343--45278479 Score: 127
Period size: 44 Copynumber: 3.1 Consensus size: 44
45278333 TAGATCGCAT
** * *
45278343 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
1 CAGATTGAAAATAGTAATCTTATCTCCCTGAGATTACAGTGGAG
** *
45278387 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAG
1 CAGATTGAAAATAGTAATCTTATCTCCCTGAGATTACAGTGGAG
* * *
45278431 CGGATT-AAAATAAAG-GATCTTATCTCCCTGA-AGTTACAGTAGAG
1 CAGATTGAAAAT--AGTAATCTTATCTCCCTGAGA-TTACAGTGGAG
*
45278475 TAGAT
1 CAGAT
45278480 CGCATCAGGT
Statistics
Matches: 79, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
43 4 0.05
44 73 0.92
45 2 0.03
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (44 bp):
CAGATTGAAAATAGTAATCTTATCTCCCTGAGATTACAGTGGAG
Found at i:45282750 original size:18 final size:19
Alignment explanation
Indices: 45282715--45282766 Score: 83
Period size: 18 Copynumber: 2.9 Consensus size: 19
45282705 AAAAATAAAA
45282715 TTTT-AAAACACGAGAATT
1 TTTTGAAAACACGAGAATT
45282733 TTTTGAAAACACGA-AATT
1 TTTTGAAAACACGAGAATT
45282751 TTTTG-AAACACGAGAA
1 TTTTGAAAACACGAGAA
45282767 AGTTGTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.25
18 15 0.47
19 9 0.28
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (19 bp):
TTTTGAAAACACGAGAATT
Found at i:45282767 original size:19 final size:18
Alignment explanation
Indices: 45282724--45282815 Score: 66
Period size: 19 Copynumber: 4.8 Consensus size: 18
45282714 ATTTTAAAAC
45282724 ACGAG-AATTTTTTGAAA
1 ACGAGAAATTTTTTGAAA
45282741 AC-ACGAAATTTTTTGAAA
1 ACGA-GAAATTTTTTGAAA
45282759 CACGAGAAAGTTGTTTTTTGAAA
1 -ACGAGAAA----TTTTTTGAAA
45282782 ATGCGA-AAATTTTTT-AAA
1 A--CGAGAAATTTTTTGAAA
45282800 GACGAGAAAGTTTTTT
1 -ACGAGAAA-TTTTTT
45282816 TTTTAAAATG
Statistics
Matches: 62, Mismatches: 0, Indels: 24
0.72 0.00 0.28
Matches are distributed among these distances:
16 1 0.02
17 6 0.10
18 18 0.29
19 19 0.31
20 1 0.02
22 1 0.02
23 13 0.21
24 3 0.05
ACGTcount: A:0.39, C:0.08, G:0.17, T:0.36
Consensus pattern (18 bp):
ACGAGAAATTTTTTGAAA
Found at i:45282789 original size:41 final size:41
Alignment explanation
Indices: 45282731--45282825 Score: 129
Period size: 41 Copynumber: 2.3 Consensus size: 41
45282721 AACACGAGAA
**
45282731 TTTTTTGAAAACACG-AAATTTTTTGAAACACGAGAAAGTTG
1 TTTTTTGAAAATGCGAAAATTTTTT-AAACACGAGAAAGTTG
* *
45282772 TTTTTTGAAAATGCGAAAATTTTTTAAAGACGAGAAAGTTT
1 TTTTTTGAAAATGCGAAAATTTTTTAAACACGAGAAAGTTG
*
45282813 TTTTTTTAAAATG
1 TTTTTTGAAAATG
45282826 AATTTTTTCA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 39 0.81
42 9 0.19
ACGTcount: A:0.38, C:0.06, G:0.16, T:0.40
Consensus pattern (41 bp):
TTTTTTGAAAATGCGAAAATTTTTTAAACACGAGAAAGTTG
Found at i:45282978 original size:18 final size:18
Alignment explanation
Indices: 45282951--45282987 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
45282941 CGTGATTCTA
*
45282951 TTAAAGCACGAGAATTTT
1 TTAAAACACGAGAATTTT
45282969 TTAAAACACGAGAATTTT
1 TTAAAACACGAGAATTTT
45282987 T
1 T
45282988 GAATATTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.35
Consensus pattern (18 bp):
TTAAAACACGAGAATTTT
Found at i:45283631 original size:4 final size:4
Alignment explanation
Indices: 45283620--45283686 Score: 63
Period size: 4 Copynumber: 17.8 Consensus size: 4
45283610 ATTTTTTTTC
* *
45283620 CTTT -TTT CTTT CTTT C-TT CTTT CCTTT TTTT C-TT CTTT CTTT CTTC
1 CTTT CTTT CTTT CTTT CTTT CTTT -CTTT CTTT CTTT CTTT CTTT CTTT
*
45283666 CCTT -TTT CTTT -TTT CTTT CTT
1 CTTT CTTT CTTT CTTT CTTT CTT
45283687 CTCCGTTCAC
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
3 14 0.27
4 33 0.65
5 4 0.08
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
CTTT
Found at i:45283634 original size:11 final size:11
Alignment explanation
Indices: 45283611--45283686 Score: 61
Period size: 11 Copynumber: 7.2 Consensus size: 11
45283601 ACTGTTTTAA
*
45283611 TTTTTT-TTCC
1 TTTTTTCTTTC
45283621 TTTTTTCTTTC
1 TTTTTTCTTTC
*
45283632 TTTCTTCTTTC
1 TTTTTTCTTTC
*
45283643 -CTTTT-TTTC
1 TTTTTTCTTTC
*
45283652 TTCTTTCTTTC
1 TTTTTTCTTTC
**
45283663 TTCCCTT-TTTC
1 TT-TTTTCTTTC
45283674 TTTTTTCTTTC
1 TTTTTTCTTTC
45283685 TT
1 TT
45283687 CTCCGTTCAC
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
9 4 0.08
10 14 0.27
11 31 0.60
12 3 0.06
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTTCTTTC
Found at i:45283646 original size:23 final size:22
Alignment explanation
Indices: 45283614--45283683 Score: 90
Period size: 23 Copynumber: 3.1 Consensus size: 22
45283604 GTTTTAATTT
45283614 TTTTTCCTTTTTTCTTTCTTTC
1 TTTTTCCTTTTTTCTTTCTTTC
45283636 TTCTTTCCTTTTTT-TCTTCTTTC
1 TT-TTTCCTTTTTTCT-TTCTTTC
*
45283659 TTTCTTCCCTTTTTCTTT-TTTC
1 TTT-TTCCTTTTTTCTTTCTTTC
45283681 TTT
1 TTT
45283684 CTTCTCCGTT
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
22 11 0.26
23 31 0.72
24 1 0.02
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTTTCCTTTTTTCTTTCTTTC
Found at i:45283674 original size:22 final size:22
Alignment explanation
Indices: 45283646--45283687 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
45283636 TTCTTTCCTT
45283646 TTTTTCTTCTTTCTTTCTTCCC
1 TTTTTCTTCTTTCTTTCTTCCC
*
45283668 TTTTTCTTTTTTCTTTCTTC
1 TTTTTCTTCTTTCTTTCTTC
45283688 TCCGTTCACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTTTCTTCTTTCTTTCTTCCC
Found at i:45283681 original size:7 final size:7
Alignment explanation
Indices: 45283613--45283688 Score: 62
Period size: 7 Copynumber: 10.1 Consensus size: 7
45283603 TGTTTTAATT
45283613 TTTTTTCC
1 TTTTTT-C
45283621 TTTTTTC
1 TTTTTTC
45283628 TTTCTTTC
1 TTT-TTTC
*
45283636 TTCTTTCC
1 TT-TTTTC
45283644 TTTTTTTC
1 -TTTTTTC
*
45283652 TTCTTTC
1 TTTTTTC
*
45283659 TTTCTTCC
1 TTT-TTTC
*
45283667 CTTTTTC
1 TTTTTTC
45283674 TTTTTTC
1 TTTTTTC
*
45283681 TTTCTTC
1 TTTTTTC
45283688 T
1 T
45283689 CCGTTCACCC
Statistics
Matches: 55, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
7 28 0.51
8 24 0.44
9 3 0.05
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTTTTC
Found at i:45283812 original size:25 final size:24
Alignment explanation
Indices: 45283784--45283851 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 24
45283774 CTTTCTCTCA
*
45283784 TTTTCTTTTTTTCTTCTTT-GCTTTC
1 TTTT-TTTTTTT-TTCTTTCGCTTGC
*
45283809 TTTTTTTTTTTTATTTTTCGCTTGC
1 TTTTTTTTTTTT-TCTTTCGCTTGC
45283834 TTTTTTTATTTTTTCTTT
1 TTTTTTT-TTTTTTCTTT
45283852 TTCACTTCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
23 1 0.03
24 11 0.30
25 20 0.54
26 5 0.14
ACGTcount: A:0.03, C:0.13, G:0.04, T:0.79
Consensus pattern (24 bp):
TTTTTTTTTTTTTCTTTCGCTTGC
Found at i:45284210 original size:30 final size:30
Alignment explanation
Indices: 45284160--45284329 Score: 206
Period size: 30 Copynumber: 5.7 Consensus size: 30
45284150 TAAATACAGT
*
45284160 AAAAGTTTTGGGG-CTAAAATGTAATTTTAAG
1 AAAAGTTTAGGGGTC-AAAATGTAATTTT-AG
*
45284191 AAAA-TTTAGGGGTTAAAATGTAATTTT-G
1 AAAAGTTTAGGGGTCAAAATGTAATTTTAG
45284219 AGAAAGTTTAGGGGTCAAAATGTAA-TTTAG
1 A-AAAGTTTAGGGGTCAAAATGTAATTTTAG
* * **
45284249 AAAATTTTAGAGGTTGAAATGTAATTTT-G
1 AAAAGTTTAGGGGTCAAAATGTAATTTTAG
*
45284278 AGAAATTTTAGGGGTCAAAATGTAATTTTAG
1 A-AAAGTTTAGGGGTCAAAATGTAATTTTAG
45284309 AAAAGTTTAGGGGTCAAAATG
1 AAAAGTTTAGGGGTCAAAATG
45284330 CATTTTTTTT
Statistics
Matches: 121, Mismatches: 11, Indels: 15
0.82 0.07 0.10
Matches are distributed among these distances:
28 2 0.02
29 27 0.22
30 86 0.71
31 6 0.05
ACGTcount: A:0.39, C:0.02, G:0.24, T:0.35
Consensus pattern (30 bp):
AAAAGTTTAGGGGTCAAAATGTAATTTTAG
Found at i:45284335 original size:59 final size:59
Alignment explanation
Indices: 45284161--45284329 Score: 243
Period size: 59 Copynumber: 2.8 Consensus size: 59
45284151 AAATACAGTA
*
45284161 AAAGTTTTGGGG-CTAAAATGTAATTTTAAGAAAATTTAGGGGTTAAAATGTAATTTTGAG
1 AAAGTTTAGGGGTC-AAAATGTAATTTT-AGAAAATTTAGGGGTTAAAATGTAATTTTGAG
* *
45284221 AAAGTTTAGGGGTCAAAATGTAA-TTTAGAAAATTTTAGAGGTTGAAATGTAATTTTGAG
1 AAAGTTTAGGGGTCAAAATGTAATTTTAGAAAA-TTTAGGGGTTAAAATGTAATTTTGAG
* *
45284280 AAATTTTAGGGGTCAAAATGTAATTTTAGAAAAGTTTAGGGGTCAAAATG
1 AAAGTTTAGGGGTCAAAATGTAATTTTAGAAAA-TTTAGGGGTTAAAATG
45284330 CATTTTTTTT
Statistics
Matches: 98, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
58 6 0.06
59 49 0.50
60 42 0.43
61 1 0.01
ACGTcount: A:0.39, C:0.02, G:0.24, T:0.35
Consensus pattern (59 bp):
AAAGTTTAGGGGTCAAAATGTAATTTTAGAAAATTTAGGGGTTAAAATGTAATTTTGAG
Found at i:45284599 original size:78 final size:77
Alignment explanation
Indices: 45284508--45286335 Score: 2156
Period size: 78 Copynumber: 23.8 Consensus size: 77
45284498 TTGGTGTGCC
* *
45284508 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTCTTGAAAAAAAGAAATTGAAAATAA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTG-AAA-AA
*
45284572 TACCTCGGCATGCG
64 TACCTCGGCATGTG
* * *
45284586 ACCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTGAAAAAAACAAAAATTGAAAAA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG--AAAAACAGAAATTGAAAAA
* * *
45284651 TATCTCAGCATGAG
64 TACCTCGGCATGTG
* * *
45284665 ACCCGAGGCTTAACTCACCTCTCGCAATATGACTTGA-TTTTTGAAAAACAGAAATT-TAAAATA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATA
** * *
45284728 CCTCAACGTGCG
66 CCTCGGCATGTG
45284740 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAAGACAGAAATTGAAAAA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAA-ACAGAAATTGAAAAA
* *
45284804 TACCTCAGCGTGTG
64 TACCTCGGCATGTG
* * *
45284818 ACCCGAGGCTCAACTCACTTCTAGCAATATGAGTTGA-TTTTTGAAAAACAGAAACTTAAAAGAA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAA-TT-GAA-AA
45284882 ATACCTCGGCATGTG
63 ATACCTCGGCATGTG
* * *
45284897 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-CTTTTG-AAAACATAAATTTAAAAAAT
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAA-TTGAAAAAT
45284960 ACCTCGGCATGTG
65 ACCTCGGCATGTG
* * * *
45284973 -TCCGAGGCTCAACTCACCTCTCGCAATTTGAGTTGA-TTTTTGAAAAATAGAAATTTAAAAAAT
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAA-TTGAAAAAT
*
45285036 ACCTCAGCATGTG
65 ACCTCGGCATGTG
* * *
45285049 -CCCCAGGCTCAACTCACCTCTCGCATTATGAGTTGA-TTTTTGAAATAA-AGAAATTTTAAAAA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAA-AACAGAAA-TTGAAAAA
45285111 TACCTCGGCATGTG
64 TACCTCGGCATGTG
* * * *
45285125 -TCCGAGGCTCAACTCACCTCTCGCAATTTGAGTTGA-TTTTTGAAAAATAGAAATTTAAAAATA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATA
45285188 CCTCGGCATGTG
66 CCTCGGCATGTG
* * * * *
45285200 -TCCGATGCTCAACTCACCTCTCGCAATTTGAGTTGA-TTTTTGAAAAATAGAAATT-AAAGATA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATA
* *
45285262 CCTCGGTATTTG
66 CCTCGGCATGTG
* * * * * * *
45285274 ATCCGATGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTAAAAAATAGAAAAT-AAAGATA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATA
* *
45285338 CCTCCGTATGTG
66 CCTCGGCATGTG
* * *
45285350 ACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAATAGAAACTG-AAAA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGAAAAACAGAAATTGAAAAA
*
45285414 TACCTC--AATGTG
64 TACCTCGGCATGTG
** * * * * *
45285426 ACTTGAGGCTCAACTCACCTCTTGCATTATTAGTTGATTGTTTTGAAAAACAAAAATT-AAAGAT
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT-TTTTGAAAAACAGAAATTGAAAAAT
* *
45285490 ACCTCGGTAAGTG
65 ACCTCGGCATGTG
** *
45285503 ACCCGAGGCTCAACTCACCT-T----ATATGAGTTGA--TTTAAAAAAACAGAAATTAAAACAAA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATT-GAA-AAA
*
45285561 TACATCGGC--GTG
64 TACCTCGGCATGTG
* * *
45285573 ACCCGAGGCTTAACTCACCTCTCGCAATATGCGTTGA-TTTTTGAAAAAACAGAAATTGAGAAAT
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAAACAGAAATTGAAAAAT
* *
45285637 ACCTTGGCGTGTG
65 ACCTCGGCATGTG
* * * * * *
45285650 -CCCAAGGCTCAACTCACCTTTTGCATTATGAGTTGATTTTTTTGAAAAATAGAAATTAAAAAAA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATT--GAAAA
*
45285714 ATACCTCGGCGTGTG
63 ATACCTCGGCATGTG
* *
45285729 ACCCGAGGCTCAACTTACCTCTCGCAATATGAGTTAATTTTTTTGAAAAACAGAAATTG-AAAAT
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAAAT
*
45285793 ACCTCAGC--GTG
65 ACCTCGGCATGTG
*
45285804 ACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATA
45285869 CCTCAGG-ATGTG
66 CCTC-GGCATGTG
*
45285881 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTGAAAAAT
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAAAT
45285946 ACCTCAGG-ATGTG
65 ACCTC-GGCATGTG
* *
45285959 ACCCGGGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAAT
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAAAT
*
45286024 ACCTCAAG-ATGTG
65 ACCTC-GGCATGTG
* *
45286037 ACCCGAGGCTCAACTCACCTCTCGCATTATGATTTGATTTTTTGAAAAACAGAAATTGAAAAATA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATA
45286102 CCTCAGG-ATGTG
66 CCTC-GGCATGTG
* * * *
45286114 ACCCGAGGCTCAACTCATCTTTCGCAATATGAGTTAATTTTTTTGAAAAACAGAAATTAAAAAAT
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAAAT
*
45286179 ACCTTAGG-ATGTG
65 ACC-TCGGCATGTG
* *
45286192 ACCCGAGGCTCAACTCACCTCTCACATTATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATA
45286257 CCTCAGG-ATGTG
66 CCTC-GGCATGTG
* *
45286269 ACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGCAAAAATAGAAATTGAAAAA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG-AAAAACAGAAATTGAAAAA
45286334 TA
64 TA
45286336 AATCTTAAAA
Statistics
Matches: 1557, Mismatches: 145, Indels: 95
0.87 0.08 0.05
Matches are distributed among these distances:
69 15 0.01
70 22 0.01
71 3 0.00
72 18 0.01
74 39 0.03
75 297 0.19
76 325 0.21
77 262 0.17
78 367 0.24
79 144 0.09
80 53 0.03
81 12 0.01
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (77 bp):
ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATA
CCTCGGCATGTG
Found at i:45284902 original size:232 final size:229
Alignment explanation
Indices: 45284508--45286310 Score: 2012
Period size: 232 Copynumber: 7.9 Consensus size: 229
45284498 TTGGTGTGCC
* *
45284508 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTCTTGAAAAAAAGAAATTGAAAATAA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATT-AAAA-AA
* * * *
45284572 TACCTCGGCATGCGACCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTGAAAAAAA
64 TACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTG--AAAAA
* * * * * * *
45284637 CAAAAATTGAAAAATATCTCAGCATGAGACCCGAGGCTTAACTCACCTCTCGCAATATGACTTGA
127 CAGAAATTAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* *
45284702 TTTTTGAAAAACAGAAATTTAAAATACCTCAACGTGCG
192 TTTTTGAAAAACAGAAATTTAAAATACCTCGACGTGTG
* *
45284740 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAAGACAGAAATTGAAAAA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAA-ATAGAAATTAAAAAA
*
45284804 TACCTCAGCGTGTGACCCGAGGCTCAACTCACTTCTAGCAATATGAGTTGA-TTTTTGAAAAACA
64 TACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTGAAAAACA
45284868 GAAACTTAAAAGAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
129 GAAA-TT-AAA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* * * *
45284933 ACTTTTG-AAAACATAAATTTAAAAAATACCTCGGCATGTG
191 ATTTTTGAAAAACAGAAATTT--AAAATACCTCGACGTGTG
* *
45284973 -TCCGAGGCTCAACTCACCTCTCGCAATTTGAGTTGA-TTTTTGAAAAATAGAAATTTAAAAAAT
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAA-TTAAAAAAT
* * * *
45285036 ACCTCAGCATGTG-CCCCAGGCTCAACTCACCTCTCGCATTATGAGTTGA-TTTTTGAAATAA-A
65 ACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTGAAA-AACA
* * *
45285098 GAAATTTTAAAAATACCTCGGCATGTG-TCCGAGGCTCAACTCACCTCTCGCAATTTGAGTTGAT
129 GAAA-TTAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* * *
45285162 TTTTGAAAAATAGAAATTTAAAAATACCTCGGCATGTG
193 TTTTGAAAAACAGAAATTT-AAAATACCTCGACGTGTG
* * * *
45285200 -TCCGATGCTCAACTCACCTCTCGCAATTTGAGTTGA-TTTTTGAAAAATAGAAATT-AAAGATA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTAAAAAATA
* ** * * * * *
45285262 CCTCGGTATTTGATCCGATGCTCAACTCACCTCTCA-CAATATGAGTTGATTTTTTAAAAAATAG
66 CCTCAGCGTGTGACCCGAGGCTCAACTCACCTCT-AGCAATATGAGTTGATTTTTTGAAAAACAG
* * * * *
45285326 AAAAT-AAAGATACCTCCGTATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
130 AAATTAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---
* * * *
45285390 TTTTTGAAAAATAGAAACTGAAAATACCTC-A-ATGTG
192 TTTTTGAAAAACAGAAATTTAAAATACCTCGACGTGTG
** * * * * * *
45285426 ACTTGAGGCTCAACTCACCTCTTGCATTATTAGTTGATTGTTTTGAAAAACAAAAATT-AAAGAT
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT-TTTTGAAAAATAGAAATTAAAAAAT
**
45285490 ACCTC-G-GTAAGTGACCCGAGGCTCAACTCACCT-T----ATATGAGTTGA--TTTAAAAAAAC
65 ACCTCAGCGT--GTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTGAAAAAC
* * *
45285546 AGAAATTAAAACAAATACATCGGC--GTGACCCGAGGCTTAACTCACCTCTCGCAATATGCGTTG
128 AGAAATT-AAA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* * *
45285609 ATTTTTGAAAAAACAGAAATTGAGAAATACCTTGGCGTGTG
191 ATTTTTG-AAAAACAGAAATTTA-AAATACCTCGACGTGTG
* * * *
45285650 -CCCAAGGCTCAACTCACCTTTTGCATTATGAGTTGATTTTTTTGAAAAATAGAAATTAAAAAAA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAATAGAAATT--AAAAA
* * * *
45285714 ATACCTCGGCGTGTGACCCGAGGCTCAACTTACCTCTCGCAATATGAGTTAATTTTTTTGAAAAA
63 ATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTTTGAAAAA
* * *
45285779 CAGAAATT-GAAAATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGA
127 CAGAAATTAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* *
45285841 TTTTTTGAAAAACAGAAATTGAAAAATACCTC-AGGATGTG
192 -TTTTTGAAAAACAGAAATT-TAAAATACCTCGACG-TGTG
*
45285881 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTGAAAAAT
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAATAGAAATTAAAAAAT
* * *
45285946 ACCTCAG-GATGTGACCCGGGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAAC
65 ACCTCAGCG-TGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTTTGAAAAAC
* * * *
45286010 AGAAATTGAAAAATACCTCAAG-ATGTGACCCGAGGCTCAACTCACCTCTCGCATTATGATTTGA
128 AGAAATTAAAAAATACCTC-GGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* *
45286074 TTTTTTGAAAAACAGAAATTGAAAAATACCTC-AGGATGTG
192 -TTTTTGAAAAACAGAAATT-TAAAATACCTCGACG-TGTG
* * * *
45286114 ACCCGAGGCTCAACTCATCTTTCGCAATATGAGTTAATTTTTTTGAAAAACAGAAATTAAAAAAT
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAATAGAAATTAAAAAAT
* *
45286179 ACCTTAG-GATGTGACCCGAGGCTCAACTCACCTCTCA-CATTATGAGTTGATTTTTTGAAAAAC
65 ACCTCAGCG-TGTGACCCGAGGCTCAACTCACCTCT-AGCAATATGAGTTGATTTTTTGAAAAAC
* *
45286242 AGAAATTGAAAAATACCTCAGG-ATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA
128 AGAAATTAAAAAATACCTC-GGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
45286306 TTTTT
192 TTTTT
45286311 TTGCAAAAAT
Statistics
Matches: 1384, Mismatches: 133, Indels: 109
0.85 0.08 0.07
Matches are distributed among these distances:
220 6 0.00
221 13 0.01
222 23 0.02
223 84 0.06
224 19 0.01
225 39 0.03
226 105 0.08
227 154 0.11
228 43 0.03
229 78 0.06
230 127 0.09
231 143 0.10
232 320 0.23
233 206 0.15
234 24 0.02
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (229 bp):
ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTAAAAAATA
CCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTGAAAAACAGA
AATTAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
TGAAAAACAGAAATTTAAAATACCTCGACGTGTG
Found at i:45285973 original size:155 final size:153
Alignment explanation
Indices: 45284508--45286335 Score: 2118
Period size: 155 Copynumber: 11.9 Consensus size: 153
45284498 TTGGTGTGCC
* *
45284508 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTGAAAAAAAGAAATTGAAAATAAT
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTG-AAA-AAT
* * *
45284573 ACCTC-GGCATGCGACCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTGAAAAAAA
64 ACCTCAGG-ATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG--AAAAA
* * * *
45284637 CAAAAATTGAAAAATATCTCAGCATGAG
126 CAGAAATTGAAAAATACCTCAGGATGTG
* * *
45284665 ACCCGAGGCTTAACTCACCTCTCGCAATATGACTTGATTTTTGAAAAACAGAAATT-TAAAATAC
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATAC
* *
45284729 CTCAACG-TGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAAGACA
66 CTC-AGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAA-ACA
45284792 GAAATTGAAAAATACCTCAGCG-TGTG
128 GAAATTGAAAAATACCTCAG-GATGTG
* * *
45284818 ACCCGAGGCTCAACTCACTTCTAGCAATATGAGTTGATTTTTGAAAAACAGAAACTTAAAAGAAA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TT-GAA-AAA
*
45284883 TACCTC-GGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-CTTTTG-AAAAC
63 TACCTCAGG-ATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAC
* *
45284945 ATAAATTTAAAAAATACCTC-GGCATGTG
127 AGAAA-TTGAAAAATACCTCAGG-ATGTG
* * * *
45284973 -TCCGAGGCTCAACTCACCTCTCGCAATTTGAGTTGATTTTTGAAAAATAGAAATTTAAAAAATA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TTGAAAAATA
* * *
45285037 CCTCAGCATGTG-CCCCAGGCTCAACTCACCTCTCGCATTATGAGTTGA-TTTTTGAAATAA-AG
65 CCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAA-AACAG
*
45285099 AAATTTTAAAAATACCTC-GGCATGTG
129 AAA-TTGAAAAATACCTCAGG-ATGTG
* * * *
45285125 -TCCGAGGCTCAACTCACCTCTCGCAATTTGAGTTGATTTTTGAAAAATAGAAATTTAAAAATAC
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATAC
* * * *
45285189 CTC-GGCATGTG-TCCGATGCTCAACTCACCTCTCGCAATTTGAGTTGA-TTTTTGAAAAATAGA
66 CTCAGG-ATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGA
* *
45285251 AATT-AAAGATACCTC-GGTATTTG
130 AATTGAAAAATACCTCAGG-ATGTG
* * * * * * *
45285274 ATCCGATGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTAAAAAATAGAAAAT-AAAGATA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTGAAAAATA
* * * *
45285338 CCTCCGTATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAATA
65 CCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGAAAAACA
*
45285403 GAAACTG-AAAATACCTCA--ATGTG
128 GAAATTGAAAAATACCTCAGGATGTG
** * * * * *
45285426 ACTTGAGGCTCAACTCACCTCTTGCATTATTAGTTGATTGTTTTGAAAAACAAAAATT-AAAGAT
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T-TTTTGAAAAACAGAAATTGAAAAAT
* **
45285490 ACCTC-GGTAAGTGACCCGAGGCTCAACTCACCT-T----ATATGAGTTGA--TTTAAAAAAACA
64 ACCTCAGG-ATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACA
* * *
45285547 GAAATTAAAACAAATACATC-GG-CGTG
128 GAAATT-GAA-AAATACCTCAGGATGTG
* * *
45285573 ACCCGAGGCTTAACTCACCTCTCGCAATATGCGTTGATTTTTGAAAAAACAGAAATTGAGAAATA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAAACAGAAATTGAAAAATA
* * * * * * *
45285638 CCT-TGGCGTGTG-CCCAAGGCTCAACTCACCTTTTGCATTATGAGTTGATTTTTTTGAAAAATA
65 CCTCAGG-ATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACA
* *
45285701 GAAATTAAAAAAAATACCTC-GGCGTGTG
128 GAAATT--GAAAAATACCTCAGG-ATGTG
* *
45285729 ACCCGAGGCTCAACTTACCTCTCGCAATATGAGTTAATTTTTTTGAAAAACAGAAATTG-AAAAT
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAAAAT
* *
45285793 ACCTCA-G-CGTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTGAAAAACAG
64 ACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAG
45285856 AAATTGAAAAATACCTCAGGATGTG
129 AAATTGAAAAATACCTCAGGATGTG
*
45285881 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTGAAAAAT
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAAAAT
* *
45285946 ACCTCAGGATGTGACCCGGGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACA
64 ACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACA
*
45286011 GAAATTGAAAAATACCTCAAGATGTG
128 GAAATTGAAAAATACCTCAGGATGTG
* *
45286037 ACCCGAGGCTCAACTCACCTCTCGCATTATGATTTGATTTTTTGAAAAACAGAAATTGAAAAATA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTGAAAAATA
* * *
45286102 CCTCAGGATGTGACCCGAGGCTCAACTCATCTTTCGCAATATGAGTTAATTTTTTTGAAAAACAG
65 CCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAG
* *
45286167 AAATTAAAAAATACCTTAGGATGTG
129 AAATTGAAAAATACCTCAGGATGTG
* *
45286192 ACCCGAGGCTCAACTCACCTCTCACATTATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTGAAAAATA
* *
45286257 CCTCAGGATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGCAAAAATA
65 CCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG-AAAAACA
45286322 GAAATTGAAAAATA
128 GAAATTGAAAAATA
45286336 AATCTTAAAA
Statistics
Matches: 1475, Mismatches: 138, Indels: 117
0.85 0.08 0.07
Matches are distributed among these distances:
144 14 0.01
145 5 0.00
146 32 0.02
147 55 0.04
148 11 0.01
149 16 0.01
150 53 0.04
151 162 0.11
152 208 0.14
153 148 0.10
154 181 0.12
155 324 0.22
156 140 0.09
157 120 0.08
158 6 0.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (153 bp):
ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATAC
CTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAA
ATTGAAAAATACCTCAGGATGTG
Found at i:45287207 original size:9 final size:9
Alignment explanation
Indices: 45287189--45287258 Score: 61
Period size: 9 Copynumber: 7.6 Consensus size: 9
45287179 TGATTTTTCA
45287189 TTTTTC-AT
1 TTTTTCTAT
45287197 TTTTTCTAT
1 TTTTTCTAT
* *
45287206 TTTTTTTGCT
1 TTTTTCT-AT
*
45287216 TCTTTCTAT
1 TTTTTCTAT
45287225 TTTTTCTATTT
1 TTTTTCTA--T
* *
45287236 TTTTTGTTT
1 TTTTTCTAT
45287245 TTTTTCTAT
1 TTTTTCTAT
45287254 TTTTT
1 TTTTT
45287259 AGGCATAACA
Statistics
Matches: 48, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
8 6 0.12
9 29 0.60
10 6 0.12
11 7 0.15
ACGTcount: A:0.07, C:0.10, G:0.03, T:0.80
Consensus pattern (9 bp):
TTTTTCTAT
Found at i:45287211 original size:19 final size:19
Alignment explanation
Indices: 45287189--45287258 Score: 72
Period size: 19 Copynumber: 3.7 Consensus size: 19
45287179 TGATTTTTCA
45287189 TTTTTCATTTTTTCTATTT
1 TTTTTCATTTTTTCTATTT
*
45287208 TTTTTGC-TTCTTTCTATTT
1 TTTTT-CATTTTTTCTATTT
* * *
45287227 TTTCT-ATTTTTTTTGTTT
1 TTTTTCATTTTTTCTATTT
45287245 TTTTTCTATTTTTT
1 TTTTTC-ATTTTTT
45287259 AGGCATAACA
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
18 13 0.32
19 20 0.49
20 8 0.20
ACGTcount: A:0.07, C:0.10, G:0.03, T:0.80
Consensus pattern (19 bp):
TTTTTCATTTTTTCTATTT
Found at i:45287226 original size:28 final size:29
Alignment explanation
Indices: 45287191--45287258 Score: 104
Period size: 28 Copynumber: 2.4 Consensus size: 29
45287181 ATTTTTCATT
45287191 TTTC-ATTTTTTCTATTTTTTTTG-CTTC
1 TTTCTATTTTTTCTATTTTTTTTGTCTTC
* *
45287218 TTTCTATTTTTTCTATTTTTTTTGTTTTT
1 TTTCTATTTTTTCTATTTTTTTTGTCTTC
45287247 TTTCTATTTTTT
1 TTTCTATTTTTT
45287259 AGGCATAACA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 4 0.11
28 19 0.51
29 14 0.38
ACGTcount: A:0.07, C:0.10, G:0.03, T:0.79
Consensus pattern (29 bp):
TTTCTATTTTTTCTATTTTTTTTGTCTTC
Found at i:45292218 original size:67 final size:67
Alignment explanation
Indices: 45292102--45292266 Score: 294
Period size: 67 Copynumber: 2.5 Consensus size: 67
45292092 ATTTACTTAT
* *
45292102 GCCTATGCGGAGGGACAAGTTAACTCACGAAAGCATAAGTCATATGTAACCCGAAAGTATTTCAC
1 GCCTGTGCGGAGGGACGAGTTAACTCACGAAAGCATAAGTCATATGTAACCCGAAAGTATTTCAC
45292167 TA
66 TA
* *
45292169 GCCTGTGTGGAGGGACGAGTTAACTCACGAAAGCATAAGTCATATGTAACCCGGAAGTATTTCAC
1 GCCTGTGCGGAGGGACGAGTTAACTCACGAAAGCATAAGTCATATGTAACCCGAAAGTATTTCAC
45292234 TA
66 TA
45292236 GCCTGTGCGGAGGGACGAGTTAACTCACGAA
1 GCCTGTGCGGAGGGACGAGTTAACTCACGAA
45292267 GGCGTAGCGT
Statistics
Matches: 93, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 93 1.00
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (67 bp):
GCCTGTGCGGAGGGACGAGTTAACTCACGAAAGCATAAGTCATATGTAACCCGAAAGTATTTCAC
TA
Found at i:45293084 original size:52 final size:52
Alignment explanation
Indices: 45293012--45293126 Score: 169
Period size: 52 Copynumber: 2.2 Consensus size: 52
45293002 TAAAAAAAAT
* * *
45293012 GAAAA-TTTGAAACACGAGAATTTTTTGAAAACATAAAATTTTTTGAAACAC
1 GAAAATTTTTAAACACAAGAATTTTTTGAAAACACAAAATTTTTTGAAACAC
*
45293063 GAAAATTTTTAAACACAAGAATTTTTTGAAAACACGAAATTTTTTGAAACAC
1 GAAAATTTTTAAACACAAGAATTTTTTGAAAACACAAAATTTTTTGAAACAC
45293115 GAGAAAGTTTTT
1 GA-AAA-TTTTT
45293127 TTTGAAAACG
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
51 5 0.09
52 44 0.77
53 3 0.05
54 5 0.09
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (52 bp):
GAAAATTTTTAAACACAAGAATTTTTTGAAAACACAAAATTTTTTGAAACAC
Found at i:45293165 original size:18 final size:19
Alignment explanation
Indices: 45293017--45293167 Score: 128
Period size: 18 Copynumber: 8.2 Consensus size: 19
45293007 AAAATGAAAA
45293017 TTTGAAACACGAG-AATTT
1 TTTGAAACACGAGAAATTT
*
45293035 TTTGAAA-AC-ATAAAATTT
1 TTTGAAACACGA-GAAATTT
45293053 TTTGAAACACGA-AAA-TT
1 TTTGAAACACGAGAAATTT
*
45293070 TTT-AAACACAAG-AATTT
1 TTTGAAACACGAGAAATTT
45293087 TTTGAAA-AC-ACGAAATTT
1 TTTGAAACACGA-GAAATTT
45293105 TTTGAAACACGAGAAAGTTTTT
1 TTTGAAACACGAGAAA---TTT
45293127 TTTGAAA-ACGCCA-AAATTT
1 TTTGAAACACG--AGAAATTT
45293146 TTT-AAACACGAGAAAGTTT
1 TTTGAAACACGAGAAA-TTT
45293165 TTT
1 TTT
45293168 TTTTAAAATG
Statistics
Matches: 112, Mismatches: 2, Indels: 37
0.74 0.01 0.25
Matches are distributed among these distances:
16 11 0.10
17 16 0.14
18 43 0.38
19 23 0.21
20 2 0.02
21 3 0.03
22 13 0.12
23 1 0.01
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (19 bp):
TTTGAAACACGAGAAATTT
Found at i:45293169 original size:21 final size:21
Alignment explanation
Indices: 45293102--45293169 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
45293092 AAACACGAAA
*
45293102 TTTTTTGAAACACGAGAAAGT
1 TTTTTTTAAACACGAGAAAGT
**
45293123 TTTTTTTGAAA-ACGCCAAA--
1 TTTTTTT-AAACACGAGAAAGT
*
45293142 ATTTTTTAAACACGAGAAAGT
1 TTTTTTTAAACACGAGAAAGT
45293163 TTTTTTT
1 TTTTTTT
45293170 TTAAAATGAA
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
18 3 0.08
19 12 0.33
21 18 0.50
22 3 0.08
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.41
Consensus pattern (21 bp):
TTTTTTTAAACACGAGAAAGT
Found at i:45293170 original size:41 final size:40
Alignment explanation
Indices: 45293050--45293169 Score: 139
Period size: 40 Copynumber: 3.1 Consensus size: 40
45293040 AAACATAAAA
*
45293050 TTTTTTG-AAACACGAAAA-TTTTT-AAACACAAG-AA---
1 TTTTTTGAAAACAC-AAAATTTTTTGAAACACGAGAAAGTT
*
45293084 TTTTTTGAAAACACGAAATTTTTTGAAACACGAGAAAGTT
1 TTTTTTGAAAACACAAAATTTTTTGAAACACGAGAAAGTT
*
45293124 TTTTTTGAAAACGCCAAAATTTTTT-AAACACGAGAAAGTT
1 TTTTTTGAAAAC-ACAAAATTTTTTGAAACACGAGAAAGTT
45293164 TTTTTT
1 TTTTTT
45293170 TTAAAATGAA
Statistics
Matches: 74, Mismatches: 4, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
34 10 0.14
35 11 0.15
36 8 0.11
37 2 0.03
40 33 0.45
41 10 0.14
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.38
Consensus pattern (40 bp):
TTTTTTGAAAACACAAAATTTTTTGAAACACGAGAAAGTT
Found at i:45293330 original size:18 final size:18
Alignment explanation
Indices: 45293297--45293339 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
45293287 TTTATTCGTG
* *
45293297 ATTTTATTAAAGCACGAGA
1 ATTTT-TTAAAACACGAAA
45293316 ATTTTTTAAAACACGAAA
1 ATTTTTTAAAACACGAAA
45293334 ATTTTT
1 ATTTTT
45293340 GAATATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (18 bp):
ATTTTTTAAAACACGAAA
Found at i:45293999 original size:4 final size:4
Alignment explanation
Indices: 45293975--45294064 Score: 55
Period size: 4 Copynumber: 22.5 Consensus size: 4
45293965 TTTAAATTTT
* *
45293975 TTTC CTTC TTTC TCTTT TTTC TTTCCC TTTC -TTC TTTC TTTC -TTC TTTCC
1 TTTC TTTC TTTC T-TTC TTTC TTT--C TTTC TTTC TTTC TTTC TTTC TTT-C
* * *
45294025 TTTT TTTC -TTA TTTC TTTC TTCCC TTT- TTT- TTTC TTTC TT
1 TTTC TTTC TTTC TTTC TTTC TT-TC TTTC TTTC TTTC TTTC TT
45294065 CTCCATTCAC
Statistics
Matches: 67, Mismatches: 10, Indels: 18
0.71 0.11 0.19
Matches are distributed among these distances:
3 14 0.21
4 39 0.58
5 10 0.15
6 4 0.06
ACGTcount: A:0.01, C:0.27, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTC
Found at i:45294020 original size:24 final size:23
Alignment explanation
Indices: 45293987--45294066 Score: 83
Period size: 23 Copynumber: 3.4 Consensus size: 23
45293977 TCCTTCTTTC
*
45293987 TCTTTTTTCTTTCCCTTTCTTCTT
1 TCTTTCTTCTTTCCCTTT-TTCTT
*
45294011 TCTTTCTTCTTT-CCTTTTTTTCT
1 TCTTTCTTCTTTCCCTTTTTCT-T
* *
45294034 TATTTCTT-TCTTCCCTTTTTTTT
1 TCTTTCTTCT-TTCCCTTTTTCTT
45294057 TCTTTCTTCT
1 TCTTTCTTCT
45294067 CCATTCACCC
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
22 4 0.08
23 23 0.48
24 21 0.44
ACGTcount: A:0.01, C:0.26, G:0.00, T:0.72
Consensus pattern (23 bp):
TCTTTCTTCTTTCCCTTTTTCTT
Found at i:45294055 original size:27 final size:26
Alignment explanation
Indices: 45294002--45294060 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 26
45293992 TTTCTTTCCC
*
45294002 TTTCTTCTTTCTTTCTTCTTTCCTTTT
1 TTTCTTATTTCTTTCTTCTTT-CTTTT
*
45294029 TTTCTTATTTCTTTCTTCCCTT-TTTT
1 TTTCTTATTTCTTTCTT-CTTTCTTTT
45294055 TTTCTT
1 TTTCTT
45294061 TCTTCTCCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 10 0.34
27 16 0.55
28 3 0.10
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.75
Consensus pattern (26 bp):
TTTCTTATTTCTTTCTTCTTTCTTTT
Found at i:45294205 original size:21 final size:20
Alignment explanation
Indices: 45294166--45294220 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
45294156 CTCTCCTTTT
* *
45294166 CTTTTTTTCCTCTTT-GCTTT
1 CTTTTTTT-CTTTTTCGCTTG
*
45294186 CTTCTTTTTGTTTTTCGCTTG
1 CTT-TTTTTCTTTTTCGCTTG
45294207 CTTTTTTTCTTTTT
1 CTTTTTTTCTTTTT
45294221 TCTTTTTTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.00, C:0.20, G:0.07, T:0.73
Consensus pattern (20 bp):
CTTTTTTTCTTTTTCGCTTG
Found at i:45294221 original size:21 final size:21
Alignment explanation
Indices: 45294166--45294222 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
45294156 CTCTCCTTTT
* *
45294166 CTTTTTTTCCTCTTT-GCTTT
1 CTTTTTTTCCTTTTTCGCTTG
*
45294186 CTTCTTTTT-GTTTTTCGCTTG
1 CTT-TTTTTCCTTTTTCGCTTG
*
45294207 CTTTTTTTCTTTTTTC
1 CTTTTTTTCCTTTTTC
45294223 TTTTTTACTT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
20 12 0.40
21 18 0.60
ACGTcount: A:0.00, C:0.21, G:0.07, T:0.72
Consensus pattern (21 bp):
CTTTTTTTCCTTTTTCGCTTG
Found at i:45294583 original size:30 final size:30
Alignment explanation
Indices: 45294549--45294637 Score: 97
Period size: 30 Copynumber: 3.0 Consensus size: 30
45294539 GGCTAAAACA
* *
45294549 TAATTTCAAGAAAGTTTAGGGGTTAAAATG
1 TAATTTAAAGAAAGTTTAGGGGTCAAAATG
** * * *
45294579 TAATTTTGAGAATGCTCAGGGGTCAAAATG
1 TAATTTAAAGAAAGTTTAGGGGTCAAAATG
* *
45294609 TAATTTAAAAAAAGTTTAAGGGTCAAAAT
1 TAATTTAAAGAAAGTTTAGGGGTCAAAAT
45294638 ACAATTTTTT
Statistics
Matches: 46, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.31
Consensus pattern (30 bp):
TAATTTAAAGAAAGTTTAGGGGTCAAAATG
Found at i:45297149 original size:40 final size:40
Alignment explanation
Indices: 45297062--45297164 Score: 120
Period size: 40 Copynumber: 2.6 Consensus size: 40
45297052 AGATTTAGTG
**
45297062 GCATTAGCGGCGCTTTTTGAAAAACACTGCAATAGATCGA
1 GCATTAGCGGCGCTTTTTGAAAAACACCACAATAGATCGA
* *
45297102 GCATTAGCGGCACTTTTTGAAAAACACCACTAAT-GGTCGA
1 GCATTAGCGGCGCTTTTTGAAAAACACCAC-AATAGATCGA
* *
45297142 -CTTTTAGCGGCGCCTTTTGAAAA
1 GC-ATTAGCGGCGCTTTTTGAAAA
45297165 GCGCTGCAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
39 1 0.02
40 50 0.93
41 3 0.06
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTGAAAAACACCACAATAGATCGA
Found at i:45297208 original size:99 final size:98
Alignment explanation
Indices: 45297102--45297284 Score: 244
Period size: 99 Copynumber: 1.9 Consensus size: 98
45297092 AATAGATCGA
* *
45297102 GCATTAGCGGCACTTTTTGAAAAACACCACTA-ATGGTCGA-CTTTTAGCGGCGCCTTTTGAAAA
1 GCATTAGCGGCACTTTTTGAAAAACACCACTATA-GATCGAGC-ATTAGCGGCGCCTTTTGAAAA
*
45297165 GCGCTGCAAAAAAATTAAGCACCCTTAGCTTTAGTG
64 ACGCTG-AAAAAAATTAAGCACCCTTAGCTTTAGTG
* * * * *
45297201 GCATTAGCGGCGCTTTTTGAAAATCGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAAC
1 GCATTAGCGGCACTTTTTGAAAAACACCACTATAGATCGAGCATTAGCGGCGCCTTTTGAAAAAC
*
45297266 GCTGTAAAAAATTAAGCAC
66 GCTGAAAAAAATTAAGCAC
45297285 AACGCCGTCG
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
98 14 0.19
99 57 0.78
100 2 0.03
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (98 bp):
GCATTAGCGGCACTTTTTGAAAAACACCACTATAGATCGAGCATTAGCGGCGCCTTTTGAAAAAC
GCTGAAAAAAATTAAGCACCCTTAGCTTTAGTG
Found at i:45297479 original size:102 final size:103
Alignment explanation
Indices: 45297303--45297490 Score: 272
Period size: 102 Copynumber: 1.8 Consensus size: 103
45297293 CGTTTTATGT
** * *
45297303 TGAGCTTTAGTGGCATTAGCGGCGCTTCTTTAAAAACACCGCTATAGGTCGAGCATTAGCGGCGT
1 TGAGCTTTAGTGGCATTAGCACCGCTTCTTTAAAAACACCGCTATAGGTCGACCATTAGCGGCGC
45297368 TTTTTG-AAAACGCCGCAAAAAATTTAGTAAGACACCG
66 TTTTTGAAAAACGCCGCAAAAAATTTAGTAAGACACCG
* ** *
45297405 TGAGCTTTAGTGGCATTAGCACCGCTT-TTTGTAAAATGCCGCTATAGGTCTACCATTAGCGGCG
1 TGAGCTTTAGTGGCATTAGCACCGCTTCTTT-AAAAACACCGCTATAGGTCGACCATTAGCGGCG
*
45297469 CTTTTTGAAAAACGTCGCAAAA
65 CTTTTTGAAAAACGCCGCAAAA
45297491 GACATTTTAT
Statistics
Matches: 75, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
101 3 0.04
102 59 0.79
103 13 0.17
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (103 bp):
TGAGCTTTAGTGGCATTAGCACCGCTTCTTTAAAAACACCGCTATAGGTCGACCATTAGCGGCGC
TTTTTGAAAAACGCCGCAAAAAATTTAGTAAGACACCG
Found at i:45297802 original size:14 final size:14
Alignment explanation
Indices: 45297780--45297979 Score: 91
Period size: 14 Copynumber: 13.5 Consensus size: 14
45297770 TTAATTATCA
*
45297780 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
45297794 TTATGGTTTAGGGT
1 TTATGGTTTAGGGT
* * *
45297808 ATATGATTTAGAGT
1 TTATGGTTTAGGGT
*
45297822 TTAAGGTTTAGGAGT
1 TTATGGTTTAGG-GT
*
45297837 TACTATTTTCAGGTTTATGGAT
1 T--TA---T--GGTTTA-GGGT
* *
45297859 AATAT-GTTTAGGGA
1 -TTATGGTTTAGGGT
*
45297873 TTATGGTTTAGGGA
1 TTATGGTTTAGGGT
45297887 TTATGGTTTAGGGT
1 TTATGGTTTAGGGT
* *
45297901 TTAGGGTTTAAGGT
1 TTATGGTTTAGGGT
* *
45297915 TTAAGAGTTACTA-TG-
1 TTATG-GTT--TAGGGT
* * *
45297930 TTAAGGTTTATGGA
1 TTATGGTTTAGGGT
*
45297944 TTATGGGTTTAGGGA
1 TTAT-GGTTTAGGGT
*
45297959 TTATGGTTTATGGT
1 TTATGGTTTAGGGT
45297973 TTATGGT
1 TTATGGT
45297980 CTAAAGGTTG
Statistics
Matches: 145, Mismatches: 24, Indels: 34
0.71 0.12 0.17
Matches are distributed among these distances:
12 2 0.01
13 4 0.03
14 93 0.64
15 29 0.20
16 1 0.01
17 4 0.03
18 1 0.01
21 2 0.01
22 7 0.05
23 2 0.01
ACGTcount: A:0.23, C:0.01, G:0.29, T:0.46
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:45297873 original size:15 final size:14
Alignment explanation
Indices: 45297864--45297979 Score: 92
Period size: 14 Copynumber: 8.1 Consensus size: 14
45297854 TGGATAATAT
45297864 GTTTAGGGATTATG
1 GTTTAGGGATTATG
45297878 GTTTAGGGATTATG
1 GTTTAGGGATTATG
* *
45297892 GTTTAGGGTTTAGG
1 GTTTAGGGATTATG
* * *
45297906 GTTTAAGGTTTAAG
1 GTTTAGGGATTATG
* *
45297920 AGTTACTA-TG-TTAAG
1 -GTT--TAGGGATTATG
*
45297935 GTTTATGGATTATGG
1 GTTTAGGGATTAT-G
45297950 GTTTAGGGATTATG
1 GTTTAGGGATTATG
* *
45297964 GTTTATGGTTTATG
1 GTTTAGGGATTATG
45297978 GT
1 GT
45297980 CTAAAGGTTG
Statistics
Matches: 86, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
12 2 0.02
13 1 0.01
14 59 0.69
15 21 0.24
16 1 0.01
17 2 0.02
ACGTcount: A:0.22, C:0.01, G:0.33, T:0.45
Consensus pattern (14 bp):
GTTTAGGGATTATG
Found at i:45297919 original size:7 final size:7
Alignment explanation
Indices: 45297864--45297917 Score: 63
Period size: 7 Copynumber: 7.7 Consensus size: 7
45297854 TGGATAATAT
45297864 GTTTAGG
1 GTTTAGG
* *
45297871 GATTATG
1 GTTTAGG
45297878 GTTTAGG
1 GTTTAGG
* *
45297885 GATTATG
1 GTTTAGG
45297892 GTTTAGG
1 GTTTAGG
45297899 GTTTAGG
1 GTTTAGG
*
45297906 GTTTAAG
1 GTTTAGG
45297913 GTTTA
1 GTTTA
45297918 AGAGTTACTA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.20, C:0.00, G:0.35, T:0.44
Consensus pattern (7 bp):
GTTTAGG
Found at i:45297937 original size:86 final size:86
Alignment explanation
Indices: 45297814--45297979 Score: 251
Period size: 86 Copynumber: 1.9 Consensus size: 86
45297804 GGGTATATGA
* * * *
45297814 TTTAGAGTTTAAGGTTTAGGAGTTACTATTTTCAGGTTTATGGATAATATGTTTAGGGATTATGG
1 TTTAGAGTTTAAGGTTTAAGAGTTACTATGTTAAGGTTTATGGATAATAGGTTTAGGGATTATGG
45297879 TTTAGGGATTATGGTTTAGGG
66 TTTAGGGATTATGGTTTAGGG
* * *
45297900 TTTAGGGTTTAAGGTTTAAGAGTTACTATGTTAAGGTTTATGGATTATGGGTTTAGGGATTATGG
1 TTTAGAGTTTAAGGTTTAAGAGTTACTATGTTAAGGTTTATGGATAATAGGTTTAGGGATTATGG
* *
45297965 TTTATGGTTTATGGT
66 TTTAGGGATTATGGT
45297980 CTAAAGGTTG
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
86 71 1.00
ACGTcount: A:0.23, C:0.02, G:0.30, T:0.45
Consensus pattern (86 bp):
TTTAGAGTTTAAGGTTTAAGAGTTACTATGTTAAGGTTTATGGATAATAGGTTTAGGGATTATGG
TTTAGGGATTATGGTTTAGGG
Found at i:45297949 original size:7 final size:7
Alignment explanation
Indices: 45297934--45297979 Score: 56
Period size: 7 Copynumber: 6.4 Consensus size: 7
45297924 ACTATGTTAA
45297934 GGTTTAT
1 GGTTTAT
*
45297941 GGATTAT
1 GGTTTAT
*
45297948 GGGTTTAG
1 -GGTTTAT
*
45297956 GGATTAT
1 GGTTTAT
45297963 GGTTTAT
1 GGTTTAT
45297970 GGTTTAT
1 GGTTTAT
45297977 GGT
1 GGT
45297980 CTAAAGGTTG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
7 27 0.84
8 5 0.16
ACGTcount: A:0.17, C:0.00, G:0.35, T:0.48
Consensus pattern (7 bp):
GGTTTAT
Found at i:45297976 original size:29 final size:29
Alignment explanation
Indices: 45297848--45297978 Score: 106
Period size: 29 Copynumber: 4.6 Consensus size: 29
45297838 ACTATTTTCA
* **
45297848 GGTTTATGGATAATATGTTTAGGGATTAT
1 GGTTTATGGATTATGGGTTTAGGGATTAT
* * *
45297877 GGTTTAGGGATTAT-GGTTTAGGGTTTAG
1 GGTTTATGGATTATGGGTTTAGGGATTAT
* * * * * *
45297905 GGTTTAAGGTTTAAGAGTTACTA-TG-TTAA
1 GGTTTATGGATTATGGGTT--TAGGGATTAT
45297934 GGTTTATGGATTATGGGTTTAGGGATTAT
1 GGTTTATGGATTATGGGTTTAGGGATTAT
*
45297963 GGTTTATGGTTTATGG
1 GGTTTATGGATTATGG
45297979 TCTAAAGGTT
Statistics
Matches: 79, Mismatches: 18, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
27 2 0.03
28 23 0.29
29 51 0.65
30 1 0.01
31 2 0.03
ACGTcount: A:0.23, C:0.01, G:0.32, T:0.44
Consensus pattern (29 bp):
GGTTTATGGATTATGGGTTTAGGGATTAT
Found at i:45299024 original size:114 final size:115
Alignment explanation
Indices: 45298563--45299024 Score: 414
Period size: 115 Copynumber: 4.0 Consensus size: 115
45298553 CAAAAAGTAA
* * * * * * * *
45298563 GCAAAAA-TCATTTTGTTTTAATAAAAATGGCACCGTTTTATTGGATTTCTTAGTGGTGTTTTTG
1 GCAAAAAGTTATTTTGTTTTAATCAAAACGACGCCGTTTTATTTGATTTTTTAGTGGTGTTTTCG
* * * * * * * * *
45298627 GTGAAACGCTGCAATATGTTGGGCTGTAGTGGTGCTATCCTAAAAACGCT
66 GTAAAACGCCGCAATAGGTCGGGCTTTAGCGGCGCTATCCGAAAAACGCC
* * * * ** *
45298677 GCAAAAAGTTATTCTGTTTTTATTAAAACGACGCCTTTTTATTTGATTTTTTAGTGGCATTTTTG
1 GCAAAAAGTTATTTTGTTTTAATCAAAACGACGCCGTTTTATTTGATTTTTTAGTGGTGTTTTCG
**
45298742 GTAAAACGCCGCAATAGGTCGGGCTTTAGCGGCGCT-TGGTGAAAAACGCC
66 GTAAAACGCCGCAATAGGTCGGGCTTTAGCGGCGCTAT-CCGAAAAACGCC
* * * *
45298792 ACAAAAGGTTAATTTGTTTTAATCAAAACGAAGCCGTTTTATTTGATTTTTTAGTGGTGTTTTC-
1 GCAAAAAGTTATTTTGTTTTAATCAAAACGACGCCGTTTTATTTGATTTTTTAGTGGTGTTTTCG
* * * *
45298856 GTCAAAATGCCGCAATAGGTCGGGCTTTAGCGGCGCTAT-CAAAAAACACT
66 GT-AAAACGCCGCAATAGGTCGGGCTTTAGCGGCGCTATCCGAAAAACGCC
* * * * * *
45298906 GCAAAATGTTATTTTGTTTTAATCAAAATGGCGCCATTTT-TGTAGGTTTTTTAGTGGTGTTTTC
1 GCAAAAAGTTATTTTGTTTTAATCAAAACGACGCCGTTTTAT-TTGATTTTTTAGTGGTGTTTTC
* * * * * * * * *
45298970 AGTTAAATGCTGCAATATGTAGGGATTTAGCGGCGCTAT-GGATAAACGCC
65 GGTAAAACGCCGCAATAGGTCGGGCTTTAGCGGCGCTATCCGAAAAACGCC
45299020 GCAAA
1 GCAAA
45299025 GGTTGATTTC
Statistics
Matches: 284, Mismatches: 58, Indels: 12
0.80 0.16 0.03
Matches are distributed among these distances:
113 1 0.00
114 112 0.39
115 170 0.60
116 1 0.00
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (115 bp):
GCAAAAAGTTATTTTGTTTTAATCAAAACGACGCCGTTTTATTTGATTTTTTAGTGGTGTTTTCG
GTAAAACGCCGCAATAGGTCGGGCTTTAGCGGCGCTATCCGAAAAACGCC
Found at i:45299498 original size:20 final size:20
Alignment explanation
Indices: 45299461--45299499 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
45299451 AAAAATGGAT
* *
45299461 ATGGGTGTTCATGGTTGTTC
1 ATGGCTGTTCATCGTTGTTC
*
45299481 ATGGCTGTTCATCTTTGTT
1 ATGGCTGTTCATCGTTGTT
45299500 TCCATAATTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.10, C:0.13, G:0.28, T:0.49
Consensus pattern (20 bp):
ATGGCTGTTCATCGTTGTTC
Found at i:45301006 original size:36 final size:36
Alignment explanation
Indices: 45300958--45301028 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 36
45300948 AATAAAAACT
*
45300958 ATAAAAGTTTATTTATCATATCATTAAATTGTTATTA
1 ATAAAAGTTTATTAATCA-ATCATTAAATTGTTATTA
** *
45300995 ATAAAA-TTTATTAATCAATGTTTTAATTGTTATT
1 ATAAAAGTTTATTAATCAATCATTAAATTGTTATT
45301029 TTAAGAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 14 0.47
36 10 0.33
37 6 0.20
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.51
Consensus pattern (36 bp):
ATAAAAGTTTATTAATCAATCATTAAATTGTTATTA
Found at i:45301183 original size:9 final size:9
Alignment explanation
Indices: 45301171--45301408 Score: 171
Period size: 9 Copynumber: 25.6 Consensus size: 9
45301161 ATCATATCAA
45301171 AACTTACAT
1 AACTTACAT
45301180 AACTTACAT
1 AACTTACAT
45301189 AA-TTCACAT
1 AACTT-ACAT
45301198 AACTTA-AT
1 AACTTACAT
*
45301206 AACTTTTATAT
1 AAC--TTACAT
* *
45301217 ATCATATCAT
1 AACTTA-CAT
45301227 AACTTACAT
1 AACTTACAT
*
45301236 AACTCACAT
1 AACTTACAT
*
45301245 AATTTACAT
1 AACTTACAT
45301254 AACTTA-AT
1 AACTTACAT
*
45301262 AACTTTTATAT
1 AAC--TTACAT
* *
45301273 ATCATATCAT
1 AACTTA-CAT
45301283 AACTTACAT
1 AACTTACAT
*
45301292 AACTCACAT
1 AACTTACAT
45301301 AACTTACAT
1 AACTTACAT
*
45301310 AAATTA-AT
1 AACTTACAT
*
45301318 AACTTATAT
1 AACTTACAT
*
45301327 ATATCATATCAT
1 A-A-CTTA-CAT
*
45301339 AACTTACCT
1 AACTTACAT
*
45301348 AACTCACAT
1 AACTTACAT
45301357 AACTTACAT
1 AACTTACAT
45301366 AACTTA-AT
1 AACTTACAT
*
45301374 AACTTTTATAT
1 AAC--TTACAT
* *
45301385 ATCATATCAT
1 AACTTA-CAT
45301395 AACTTACAT
1 AACTTACAT
45301404 AACTT
1 AACTT
45301409 GCATGATATA
Statistics
Matches: 181, Mismatches: 30, Indels: 36
0.73 0.12 0.15
Matches are distributed among these distances:
8 24 0.13
9 105 0.58
10 33 0.18
11 16 0.09
12 3 0.02
ACGTcount: A:0.43, C:0.19, G:0.00, T:0.38
Consensus pattern (9 bp):
AACTTACAT
Done.