Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 153 of 332
Found at i:50148405 original size:15 final size:15
Alignment explanation
Indices: 50148347--50148425 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
50148337 CAAAGATAAC
*
50148347 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
50148361 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
50148376 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
50148390 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
50148405 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
50148420 AAGAAA
1 AAGAAA
50148426 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:50148434 original size:15 final size:15
Alignment explanation
Indices: 50148358--50148434 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
50148348 AGAAAACCGA
50148358 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
50148373 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
50148387 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
50148401 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
50148417 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
50148432 ATA
1 ATA
50148435 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:50158670 original size:39 final size:38
Alignment explanation
Indices: 50158626--50159015 Score: 304
Period size: 39 Copynumber: 10.1 Consensus size: 38
50158616 CCCCTAGCCA
*
50158626 CACTTACGTGCCCCTGTTGTACTCTAGTTCCCCTGATCG
1 CACTTACGTGCCCCTGTTGTACT-TAGTACCCCTGATCG
* * *
50158665 CACTTACTTGCCTCTGTTGTACTTCGATACCCCTGATCG
1 CACTTACGTGCCCCTGTTGTACTTAG-TACCCCTGATCG
* * * * * *
50158704 CACATACATGCCCTTGTTGTAC--AGCATCCCTGATTG
1 CACTTACGTGCCCCTGTTGTACTTAGTACCCCTGATCG
** * * *
50158740 CACTTACGTGCCCCTAATGTATTTTGGTA-CCCTAATCG
1 CACTTACGTGCCCCTGTTGTA-CTTAGTACCCCTGATCG
* * * *
50158778 CACCTACGTGCCCTTGTTGTACTTCAGTACCCCTTATTG
1 CACTTACGTGCCCCTGTTGTACTT-AGTACCCCTGATCG
* * *
50158817 CACTTACGTGCCCCTGTTGTAATTCGGTACCCCTAATCG
1 CACTTACGTGCCCCTGTTGTACTT-AGTACCCCTGATCG
* *
50158856 CACTTACGTG-CCCTCGATGTACTTCAGTA-CCCTGATTG
1 CACTTACGTGCCCCT-GTTGTACTT-AGTACCCCTGATCG
* * * *
50158894 CACCTACGTTCCCCTATTGTACTTTGGTACCCCTGATCG
1 CACTTACGTGCCCCTGTTGTAC-TTAGTACCCCTGATCG
* * ** * * *
50158933 TAGTTATATGCCCCTGTTGTACTTCGATACCTCTGATCA
1 CACTTACGTGCCCCTGTTGTACTTAG-TACCCCTGATCG
* * * *
50158972 CACTTACATGCTCCTGTTGTACTTCGGTACCCCTGGTCG
1 CACTTACGTGCCCCTGTTGTACTT-AGTACCCCTGATCG
50159011 CACTT
1 CACTT
50159016 TTGTGTCGTA
Statistics
Matches: 274, Mismatches: 65, Indels: 24
0.75 0.18 0.07
Matches are distributed among these distances:
36 25 0.09
37 3 0.01
38 59 0.22
39 186 0.68
40 1 0.00
ACGTcount: A:0.17, C:0.32, G:0.17, T:0.34
Consensus pattern (38 bp):
CACTTACGTGCCCCTGTTGTACTTAGTACCCCTGATCG
Found at i:50158830 original size:20 final size:20
Alignment explanation
Indices: 50158777--50158831 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 20
50158767 TACCCTAATC
* *
50158777 GCACCTACGTG-CCCTTGTT
1 GCACTTACGTGCCCCTTATT
* *
50158796 GTACTT-CAGTACCCCTTATT
1 GCACTTAC-GTGCCCCTTATT
50158816 GCACTTACGTGCCCCT
1 GCACTTACGTGCCCCT
50158832 GTTGTAATTC
Statistics
Matches: 27, Mismatches: 6, Indels: 5
0.71 0.16 0.13
Matches are distributed among these distances:
18 1 0.04
19 6 0.22
20 19 0.70
21 1 0.04
ACGTcount: A:0.15, C:0.36, G:0.16, T:0.33
Consensus pattern (20 bp):
GCACTTACGTGCCCCTTATT
Found at i:50158846 original size:77 final size:78
Alignment explanation
Indices: 50158626--50159015 Score: 380
Period size: 77 Copynumber: 5.1 Consensus size: 78
50158616 CCCCTAGCCA
* * * * *
50158626 CACTTACGTGCCCCTGTTGTAC-TCTAGTTCCCCTGATCGCACTTACTTGCCTCTGTTGTACTTC
1 CACTTACGTGCCCTTGTTGTACTTC-AGTACCCCTGATTGCACTTACGTGCCCCTGTTGTACTTC
* *
50158690 GATACCCCTGATCG
65 GGTACCCCTAATCG
* * * * ** * *
50158704 CACATACATGCCCTTGTTGTA---CAGCATCCCTGATTGCACTTACGTGCCCCTAATGTATTTTG
1 CACTTACGTGCCCTTGTTGTACTTCAGTACCCCTGATTGCACTTACGTGCCCCTGTTGTACTTCG
50158766 GTA-CCCTAATCG
66 GTACCCCTAATCG
* * *
50158778 CACCTACGTGCCCTTGTTGTACTTCAGTACCCCTTATTGCACTTACGTGCCCCTGTTGTAATTCG
1 CACTTACGTGCCCTTGTTGTACTTCAGTACCCCTGATTGCACTTACGTGCCCCTGTTGTACTTCG
50158843 GTACCCCTAATCG
66 GTACCCCTAATCG
* * * * * *
50158856 CACTTACGTGCCCTCGATGTACTTCAGTA-CCCTGATTGCACCTACGTTCCCCTATTGTACTTTG
1 CACTTACGTGCCCTTGTTGTACTTCAGTACCCCTGATTGCACTTACGTGCCCCTGTTGTACTTCG
*
50158920 GTACCCCTGATCG
66 GTACCCCTAATCG
* * ** * * ** * *
50158933 TAGTTATATGCCCCTGTTGTACTTC-GATACCTCTGATCACACTTACATGCTCCTGTTGTACTTC
1 CACTTACGTGCCCTTGTTGTACTTCAG-TACCCCTGATTGCACTTACGTGCCCCTGTTGTACTTC
**
50158997 GGTACCCCTGGTCG
65 GGTACCCCTAATCG
50159011 CACTT
1 CACTT
50159016 TTGTGTCGTA
Statistics
Matches: 253, Mismatches: 53, Indels: 12
0.80 0.17 0.04
Matches are distributed among these distances:
74 27 0.11
75 32 0.13
76 2 0.01
77 98 0.39
78 94 0.37
ACGTcount: A:0.17, C:0.32, G:0.17, T:0.34
Consensus pattern (78 bp):
CACTTACGTGCCCTTGTTGTACTTCAGTACCCCTGATTGCACTTACGTGCCCCTGTTGTACTTCG
GTACCCCTAATCG
Found at i:50158897 original size:116 final size:116
Alignment explanation
Indices: 50158656--50159003 Score: 305
Period size: 116 Copynumber: 3.0 Consensus size: 116
50158646 ACTCTAGTTC
* * * * * * *
50158656 CCCTGATCGCACTTACTTGCCTCTGTTGTACTTC-GATACCCCTGATCGCACATACATGCCCTTG
1 CCCTAATCGCACCTACGTGCCCCTATTGTACTTCAG-TACCCCTGATCGCACTTACATGCCCCTG
* * * * * *
50158720 TTGTACA-GC-AT--CCCTGATTGCACTTACGTGCCC-CTAATGTATTTTGGTA
65 TTGTA-ATTCGATACCCCTAATCGCACTTACGTGCCCTC-GATGTACTTCGGTA
* * * * *
50158769 CCCTAATCGCACCTACGTGCCCTTGTTGTACTTCAGTACCCCTTATTGCACTTACGTGCCCCTGT
1 CCCTAATCGCACCTACGTGCCCCTATTGTACTTCAGTACCCCTGATCGCACTTACATGCCCCTGT
* *
50158834 TGTAATTCGGTACCCCTAATCGCACTTACGTGCCCTCGATGTACTTCAGTA
66 TGTAATTCGATACCCCTAATCGCACTTACGTGCCCTCGATGTACTTCGGTA
* * * ** * * *
50158885 CCCTGATTGCACCTACGTTCCCCTATTGTACTTTGGTACCCCTGATCGTAGTTATATGCCCCTGT
1 CCCTAATCGCACCTACGTGCCCCTATTGTACTTCAGTACCCCTGATCGCACTTACATGCCCCTGT
* * * * * *
50158950 TGTACTTCGATACCTCTGATCACACTTACATGCTCCT-GTTGTACTTCGGTA
66 TGTAATTCGATACCCCTAATCGCACTTACGTGC-CCTCGATGTACTTCGGTA
50159001 CCC
1 CCC
50159004 CTGGTCGCAC
Statistics
Matches: 189, Mismatches: 39, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
112 1 0.01
113 58 0.31
114 2 0.01
116 124 0.66
117 4 0.02
ACGTcount: A:0.18, C:0.32, G:0.16, T:0.34
Consensus pattern (116 bp):
CCCTAATCGCACCTACGTGCCCCTATTGTACTTCAGTACCCCTGATCGCACTTACATGCCCCTGT
TGTAATTCGATACCCCTAATCGCACTTACGTGCCCTCGATGTACTTCGGTA
Found at i:50161000 original size:20 final size:20
Alignment explanation
Indices: 50160958--50161145 Score: 84
Period size: 20 Copynumber: 9.4 Consensus size: 20
50160948 ATGTACATTT
* * *
50160958 AGGGGTACTAAAGTACAATC
1 AGGGGCACTGAAGTACAAAC
* *
50160978 AGGGGCACTGATGTGCAAAC
1 AGGGGCACTGAAGTACAAAC
* * *
50160998 AGGCGTACCGAAGTACAAACC
1 AGGGGCACTGAAGTACAAA-C
* *
50161019 A-GGACACT-AATGTGCAAAC
1 AGGGGCACTGAA-GTACAAAC
* *
50161038 AAGGGTGC-C-AAAGTACAACC
1 -AGGG-GCACTGAAGTACAAAC
* **
50161058 A-GGGCACTGATGTTTAAAC
1 AGGGGCACTGAAGTACAAAC
* * *
50161077 AGGGGTACCGAAGTACAATC
1 AGGGGCACTGAAGTACAAAC
* *
50161097 AGAGGCACT-AA-TATGCAAAT
1 AGGGGCACTGAAGTA--CAAAC
*
50161117 AGGGGTACTGAAGTACAAAC
1 AGGGGCACTGAAGTACAAAC
50161137 AGGGGCACT
1 AGGGGCACT
50161146 TCTTCATTTC
Statistics
Matches: 117, Mismatches: 38, Indels: 26
0.65 0.21 0.14
Matches are distributed among these distances:
17 2 0.02
18 5 0.04
19 13 0.11
20 85 0.73
21 9 0.08
22 3 0.03
ACGTcount: A:0.37, C:0.20, G:0.27, T:0.16
Consensus pattern (20 bp):
AGGGGCACTGAAGTACAAAC
Found at i:50161012 original size:40 final size:40
Alignment explanation
Indices: 50160958--50161145 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
50160948 ATGTACATTT
** * *
50160958 AGGGGTACTAAAGTACAATCAGGGGCACTGATGTGCAAAC
1 AGGGGTACCGAAGTACAACCAGGGGCACTAATGTGCAAAC
* *
50160998 AGGCGTACCGAAGTACAAACCA-GGACACTAATGTGCAAAC
1 AGGGGTACCGAAGTAC-AACCAGGGGCACTAATGTGCAAAC
* * * * **
50161038 AAGGGTGCCAAAGTACAACCA-GGGCACTGATGTTTAAAC
1 AGGGGTACCGAAGTACAACCAGGGGCACTAATGTGCAAAC
* * * *
50161077 AGGGGTACCGAAGTACAATCAGAGGCACTAATATGCAAAT
1 AGGGGTACCGAAGTACAACCAGGGGCACTAATGTGCAAAC
* *
50161117 AGGGGTACTGAAGTACAAACAGGGGCACT
1 AGGGGTACCGAAGTACAACCAGGGGCACT
50161146 TCTTCATTTC
Statistics
Matches: 119, Mismatches: 27, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 36 0.30
40 79 0.66
41 4 0.03
ACGTcount: A:0.37, C:0.20, G:0.27, T:0.16
Consensus pattern (40 bp):
AGGGGTACCGAAGTACAACCAGGGGCACTAATGTGCAAAC
Found at i:50161106 original size:79 final size:80
Alignment explanation
Indices: 50160967--50161145 Score: 218
Period size: 79 Copynumber: 2.2 Consensus size: 80
50160957 TAGGGGTACT
* *
50160967 AAAGTACAATCAGGGGCACTGATGTGCAAACAGGCGTACCGAAGTACAAACCAGGACACTAATGT
1 AAAGTACAACCAGGGGCACTGATGTGCAAACAGGCGTACCGAAGTACAAACCAGGACACTAATAT
50161032 GCAAACAAGGGTGCC
66 GCAAACAAGGGTGCC
** * * *
50161047 AAAGTACAACCA-GGGCACTGATGTTTAAACAGGGGTACCGAAGTAC-AATCAGAGGCACTAATA
1 AAAGTACAACCAGGGGCACTGATGTGCAAACAGGCGTACCGAAGTACAAACCAG-GACACTAATA
* * * *
50161110 TGCAAATAGGGGTACT
65 TGCAAACAAGGGTGCC
* *
50161126 GAAGTACAAACAGGGGCACT
1 AAAGTACAACCAGGGGCACT
50161146 TCTTCATTTC
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
78 5 0.06
79 61 0.73
80 18 0.21
ACGTcount: A:0.38, C:0.20, G:0.26, T:0.16
Consensus pattern (80 bp):
AAAGTACAACCAGGGGCACTGATGTGCAAACAGGCGTACCGAAGTACAAACCAGGACACTAATAT
GCAAACAAGGGTGCC
Found at i:50161766 original size:18 final size:18
Alignment explanation
Indices: 50161743--50161780 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
50161733 CAAAATCACT
50161743 TAACAA-AATACTTTTAAA
1 TAACAATAATAC-TTTAAA
50161761 TAACAATTAATACTTTAAA
1 TAACAA-TAATACTTTAAA
50161780 T
1 T
50161781 TCATCATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 7 0.39
20 5 0.28
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.37
Consensus pattern (18 bp):
TAACAATAATACTTTAAA
Found at i:50162078 original size:16 final size:16
Alignment explanation
Indices: 50162048--50162082 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
50162038 ACCTTGTATT
50162048 TTATTATTTATTTTAA
1 TTATTATTTATTTTAA
50162064 TTATT-TTTATATTTAA
1 TTATTATTTAT-TTTAA
50162080 TTA
1 TTA
50162083 GAGGTGCTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTATTATTTATTTTAA
Found at i:50163262 original size:13 final size:13
Alignment explanation
Indices: 50163246--50163277 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
50163236 ATTATTCATA
50163246 AATATTAAATAAT
1 AATATTAAATAAT
50163259 AATATTAAATAAT
1 AATATTAAATAAT
50163272 AATATT
1 AATATT
50163278 TACGAACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
AATATTAAATAAT
Found at i:50167415 original size:27 final size:27
Alignment explanation
Indices: 50167273--50167418 Score: 184
Period size: 27 Copynumber: 5.4 Consensus size: 27
50167263 GGGGCAAAAT
* * ** *
50167273 GGTAATTTTACCCCACAACGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
50167300 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
50167327 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
50167354 GGTAATTCAATCCTACAGTGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
50167381 GGTAATTCTATCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
50167408 GGTAATTCTAC
1 GGTAATTCTAC
50167419 AACTTATCCA
Statistics
Matches: 103, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 103 1.00
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:50184452 original size:27 final size:26
Alignment explanation
Indices: 50184415--50184531 Score: 128
Period size: 27 Copynumber: 4.4 Consensus size: 26
50184405 AGGGGAAATT
* *
50184415 GTAATTTTACCTCACAAGGGTATCTCG
1 GTAATTCTACC-CACAAGGGTATTTCG
*
50184442 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCC-ACAAGGGTATTTCG
* * *
50184469 GTAATTCTATCCGACAGGGGT-TTTTG
1 GTAATTCTA-CCCACAAGGGTATTTCG
*
50184495 GTAATTCTACCTTACAAGGGTATTTCG
1 GTAATTCTACC-CACAAGGGTATTTCG
50184522 GTAATTCTAC
1 GTAATTCTAC
50184532 AACTTATCCA
Statistics
Matches: 78, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
25 2 0.03
26 21 0.27
27 53 0.68
28 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.36
Consensus pattern (26 bp):
GTAATTCTACCCACAAGGGTATTTCG
Found at i:50211462 original size:26 final size:27
Alignment explanation
Indices: 50211433--50211492 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
50211423 CCACATATAT
*
50211433 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
50211459 ATATCTGTATCTGGTGACTTTGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
50211486 ATATCTG
1 ATATCTG
50211493 GCAGCCTCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:50212832 original size:16 final size:16
Alignment explanation
Indices: 50212811--50212842 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
50212801 TATAAGTTGG
50212811 ATTTAAGGTTGTTAAA
1 ATTTAAGGTTGTTAAA
50212827 ATTTAAGGTTGTTAAA
1 ATTTAAGGTTGTTAAA
50212843 TTGCCATTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.44
Consensus pattern (16 bp):
ATTTAAGGTTGTTAAA
Found at i:50214816 original size:64 final size:64
Alignment explanation
Indices: 50214735--50214918 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
50214725 AGACATTATG
* * *
50214735 ATGTAGCTAGGTCGCATGGGTGATACTTTGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTTAGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
50214799 ATGTAGCTAGGTCGCATGCGTGGTTC-CAGGTGGAGGACACCATGTAGACAAGAGAGCTACGAGA
1 ATGTAGCTAGGTCGCATGGGTGATACTTA-GT---GTACACCATGTAGACAAGAGAGCTACGAGA
50214863 TAA
62 TAA
* * * * *
50214866 AT-TGGCTAGGTCACATGGGTGGTACTGAGTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGATACTTAGTGTACACCATGTAG-ACAAGAGAGC
50214919 CGAACTATAT
Statistics
Matches: 99, Mismatches: 15, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.28, C:0.17, G:0.32, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTTAGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:50217676 original size:45 final size:45
Alignment explanation
Indices: 50217612--50217737 Score: 175
Period size: 45 Copynumber: 2.8 Consensus size: 45
50217602 ACAGTACTAT
50217612 TCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAATACCAC
1 TCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAATACCAC
* ** *
50217657 TCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATATTAT
1 TCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAATACCAC
* * *
50217702 TCGGG-CTTCGAGCCTAGCAGGCGA-AATGCTGGTGAA
1 TCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAA
50217738 TGAATTCGGG
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
43 10 0.14
44 17 0.23
45 46 0.63
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.24
Consensus pattern (45 bp):
TCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAATACCAC
Found at i:50217920 original size:35 final size:35
Alignment explanation
Indices: 50217881--50217952 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
50217871 TATATGTGAG
50217881 TATGATTTGAATTGAATCATAAGTGTATAATATGA
1 TATGATTTGAATTGAATCATAAGTGTATAATATGA
*
50217916 TATGATTTGAATTGAATCATAAGTGTATAATGTGA
1 TATGATTTGAATTGAATCATAAGTGTATAATATGA
50217951 TA
1 TA
50217953 CATATGTGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.39, C:0.03, G:0.18, T:0.40
Consensus pattern (35 bp):
TATGATTTGAATTGAATCATAAGTGTATAATATGA
Found at i:50218886 original size:40 final size:39
Alignment explanation
Indices: 50218818--50218899 Score: 112
Period size: 40 Copynumber: 2.1 Consensus size: 39
50218808 AATGTGCATT
*
50218818 TAGGGGTACCAAGTACAATCAGAGGCACTGATATGCAAA
1 TAGGGGTACCAAGTACAAACAGAGGCACTGATATGCAAA
* *
50218857 TAGGGGTACCAAATTACAAACAG-GAGCACTGATGTGCAAA
1 TAGGGGTACC-AAGTACAAACAGAG-GCACTGATATGCAAA
50218897 TAG
1 TAG
50218900 ACACACTTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
39 11 0.29
40 27 0.71
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.18
Consensus pattern (39 bp):
TAGGGGTACCAAGTACAAACAGAGGCACTGATATGCAAA
Found at i:50219755 original size:13 final size:14
Alignment explanation
Indices: 50219739--50219770 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
50219729 ATTTTTTAAC
50219739 ATTTTATTTT-ATT
1 ATTTTATTTTAATT
50219752 A-TTTATTTTAATT
1 ATTTTATTTTAATT
50219765 ATTTTA
1 ATTTTA
50219771 ACATTAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 8 0.47
13 5 0.29
14 4 0.24
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
ATTTTATTTTAATT
Found at i:50232662 original size:47 final size:47
Alignment explanation
Indices: 50232604--50232725 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
50232594 GCATTGGAAC
*
50232604 TAAGACAAGGATACCATGTAAGACCATGTTTGGACCATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
50232651 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
50232698 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
50232726 CCAAGGCATG
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:50232738 original size:142 final size:140
Alignment explanation
Indices: 50232470--50232795 Score: 316
Period size: 142 Copynumber: 2.3 Consensus size: 140
50232460 ATTGACGGTT
** *
50232470 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGGTAAGCATCCCATGTAAGACCA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGACAAGCATACCATGTAAGACCA
* * * **
50232535 TGTCAAGACATGGCATCGGCATTGATTAAGGACTCTATGTAAGACCACATCAAGATGTGGCATTG
66 TGTCAAGACATGGCATCGGCATAGATTAAGGAATCTATGTAAGACCACACCAAGACATGGCATTG
50232600 GAACTAAGAC
131 GAACTAAGAC
*** *
50232610 AAGGATACCATGTAAGACCATGTTTGGACCATGGCATTTGGTAAGACAAGGATACCATGTAAGAC
1 AAGGATACCATGTAAGACCATGTCAAGA-CATGGCA-TTGGTAAGACAAGCATACCATGTAAGAC
*** * * ** *
50232675 CATGTTTGGAACATGGCATTTGGTA-AGA-TAAGGATATC-ATGTAAGACCATGCCAAGGCATGG
64 CATGTCAAG-ACATGGCA-TCGGCATAGATTAAGGA-ATCTATGTAAGACCACACCAAGACATGG
* *
50232737 CATTGATAAGTTCTATAAGGC
126 CATTG-GAA---C--TAAGAC
* *
50232758 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTG
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTG
50232796 ATGAGTTACT
Statistics
Matches: 148, Mismatches: 27, Indels: 16
0.77 0.14 0.08
Matches are distributed among these distances:
140 25 0.17
141 7 0.05
142 59 0.40
143 14 0.09
144 4 0.03
146 4 0.03
147 7 0.05
148 28 0.19
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (140 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGACAAGCATACCATGTAAGACCA
TGTCAAGACATGGCATCGGCATAGATTAAGGAATCTATGTAAGACCACACCAAGACATGGCATTG
GAACTAAGAC
Found at i:50232845 original size:55 final size:55
Alignment explanation
Indices: 50232704--50232900 Score: 231
Period size: 54 Copynumber: 3.6 Consensus size: 55
50232694 TTGGTAAGAT
* *
50232704 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC-
1 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGCA
* *
50232758 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCA
1 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTT-CTATAAGGCA
** * * *
50232814 AAGG-TCTCATGTAAGATCATGCCAAGGCATGGAATTGGTGAGTTC-ATAAGGC-
1 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGCA
* * * * *
50232866 AAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCA
50232901 ATGGTAAGTT
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
52 4 0.03
53 30 0.25
54 42 0.34
55 42 0.34
56 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (55 bp):
AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGCA
Found at i:50238372 original size:15 final size:14
Alignment explanation
Indices: 50238317--50238383 Score: 66
Period size: 15 Copynumber: 4.8 Consensus size: 14
50238307 TAAAGATAAC
*
50238317 AAGAAAACC-AATA
1 AAGAAATCCAAATA
50238330 AAGAAATCCAAGATA
1 AAGAAATCCAA-ATA
* *
50238345 GA-AAACCCAAATA
1 AAGAAATCCAAATA
50238358 AAGAAATCCAGAATA
1 AAGAAATCCA-AATA
*
50238373 AAGAAACCCAA
1 AAGAAATCCAA
50238384 GATACGATAC
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
13 12 0.27
14 15 0.34
15 17 0.39
ACGTcount: A:0.63, C:0.18, G:0.10, T:0.09
Consensus pattern (14 bp):
AAGAAATCCAAATA
Found at i:50241429 original size:49 final size:49
Alignment explanation
Indices: 50241357--50241502 Score: 193
Period size: 49 Copynumber: 2.9 Consensus size: 49
50241347 AGCCGAAGCT
50241357 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATA
1 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATA
* * * * * *
50241406 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTT
1 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAATA
* * *
50241457 TTCGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCA
1 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCA
50241503 CGTAGTAGCC
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
49 41 0.50
50 2 0.02
51 39 0.48
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (49 bp):
ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATA
Found at i:50241494 original size:51 final size:49
Alignment explanation
Indices: 50241361--50241502 Score: 176
Period size: 51 Copynumber: 2.9 Consensus size: 49
50241351 GAAGCTATCT
* *
50241361 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCT
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAATAATCG
* * * * **
50241410 GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCG
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAATAATCG
* *
50241461 GGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCA
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCA
50241503 CGTAGTAGCC
Statistics
Matches: 78, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
49 37 0.47
50 2 0.03
51 39 0.50
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.25
Consensus pattern (49 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAATAATCG
Found at i:50241509 original size:36 final size:36
Alignment explanation
Indices: 50241469--50241537 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
50241459 CGGGTATGCA
50241469 TAGTAGCCTGCACTTAGTACTACACATGCGACCACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCACG
*
50241505 TAGTAGCCTGCACTTAGTACTACACATGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC
50241538 TCACAATAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.25
Consensus pattern (36 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCACG
Found at i:50244812 original size:64 final size:63
Alignment explanation
Indices: 50244734--50244914 Score: 175
Period size: 67 Copynumber: 2.8 Consensus size: 63
50244724 CATTATGATA
* * *
50244734 TAGCTAGGTTGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATATAT
1 TAGCTAGGTTGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAAAT
* * * * * * *
50244797 GTAGCTAGGTTGCATGCGTGGTTCCAGGTGAAGGATACCATGTAAACAAGAGAGCTACGAGATAA
1 -TAGCTAGGTTGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGATAA
50244862 AT
62 AT
* ** * *
50244864 TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGTGGACAAGAGAGC
1 TAGCTAGGTTGCATGGGTGGTACT-ATGTGTACACCATGTAGACAAGAGAGC
50244915 CGAACTATAT
Statistics
Matches: 91, Mismatches: 22, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
63 18 0.20
64 22 0.24
66 20 0.22
67 31 0.34
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.24
Consensus pattern (63 bp):
TAGCTAGGTTGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAAAT
Found at i:50247146 original size:44 final size:44
Alignment explanation
Indices: 50247082--50247207 Score: 200
Period size: 44 Copynumber: 2.9 Consensus size: 44
50247072 GGATCCGATA
50247082 TATGTTTT-CGTGTAAGACCACGTCTGGGACATTGGCATCGACT
1 TATGTTTTACGTGTAAGACCACGTCTGGGACATTGGCATCGACT
50247125 TATGTTTTACGTGTAAGACCACGTCTGGGACATTGGCATCGACT
1 TATGTTTTACGTGTAAGACCACGTCTGGGACATTGGCATCGACT
* * * **
50247169 TATGTTTCACGTGTAAGACCATGTATGGGATGTTGGCAT
1 TATGTTTTACGTGTAAGACCACGTCTGGGACATTGGCAT
50247208 TGTATTTGAT
Statistics
Matches: 77, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
43 8 0.10
44 69 0.90
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.33
Consensus pattern (44 bp):
TATGTTTTACGTGTAAGACCACGTCTGGGACATTGGCATCGACT
Found at i:50247792 original size:25 final size:25
Alignment explanation
Indices: 50247764--50247838 Score: 86
Period size: 25 Copynumber: 3.2 Consensus size: 25
50247754 AAAGTATGGC
50247764 ATGTATAGGCTAGAAGTGTGTGAAT
1 ATGTATAGGCTAGAAGTGTGTGAAT
* * * *
50247789 ATGTTTA-G-TA-ATGTGTATGGA-
1 ATGTATAGGCTAGAAGTGTGTGAAT
50247810 ATGTATAGGCTAGAAGTGTGTGAAT
1 ATGTATAGGCTAGAAGTGTGTGAAT
50247835 ATGT
1 ATGT
50247839 TTAGTAATGT
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
21 6 0.16
22 9 0.24
23 4 0.11
24 9 0.24
25 10 0.26
ACGTcount: A:0.31, C:0.03, G:0.31, T:0.36
Consensus pattern (25 bp):
ATGTATAGGCTAGAAGTGTGTGAAT
Found at i:50247824 original size:46 final size:46
Alignment explanation
Indices: 50247757--50247852 Score: 183
Period size: 46 Copynumber: 2.1 Consensus size: 46
50247747 ATATATTAAA
*
50247757 GTATGGCATGTATAGGCTAGAAGTGTGTGAATATGTTTAGTAATGT
1 GTATGGAATGTATAGGCTAGAAGTGTGTGAATATGTTTAGTAATGT
50247803 GTATGGAATGTATAGGCTAGAAGTGTGTGAATATGTTTAGTAATGT
1 GTATGGAATGTATAGGCTAGAAGTGTGTGAATATGTTTAGTAATGT
50247849 GTAT
1 GTAT
50247853 ATTTAGCCAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.29, C:0.03, G:0.30, T:0.38
Consensus pattern (46 bp):
GTATGGAATGTATAGGCTAGAAGTGTGTGAATATGTTTAGTAATGT
Found at i:50248415 original size:12 final size:12
Alignment explanation
Indices: 50248398--50248433 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
50248388 CTAGACACAC
*
50248398 GGGCGTTTGACT
1 GGGCGTGTGACT
50248410 GGGCGTGTGACT
1 GGGCGTGTGACT
*
50248422 GGCCGTGTGACT
1 GGGCGTGTGACT
50248434 CAAGTCAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.08, C:0.19, G:0.44, T:0.28
Consensus pattern (12 bp):
GGGCGTGTGACT
Found at i:50258298 original size:16 final size:16
Alignment explanation
Indices: 50258279--50258310 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
50258269 AATTGTTCTA
50258279 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
50258295 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
50258311 ACTCCATTCT
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:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:50258575 original size:50 final size:50
Alignment explanation
Indices: 50258510--50258848 Score: 319
Period size: 50 Copynumber: 6.7 Consensus size: 50
50258500 ACCGAAGCTC
* * *
50258510 TCTGGTACGCATAGTAGCCTGTACTTAGTACTACACATGCGGCCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
** * * * * *
50258560 TCTGGTACATGTAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* * * ** *
50258610 TTTGATACACATAGTAGCCTGCACTTAGTACTACACATGTGATCAAAGTTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCTA-TCAA
* * *
50258662 -CAGGTA-AGCATAATAGCCTGCACTTAGTACTACACATGCGACCTGTCAA
1 TCTGGTACA-CATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* **
50258711 TCTAGTACACATAGTAGCCTGCACTTAGTACTACACACATGATCGAAGT-T-AA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACT--ACACATG--CGACCTATCAA
* *
50258763 -CGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* * * * *
50258812 TCTGGTACACGTAGTTGCCTACATTTAATACTACACA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
50258849 CGTGACTCAC
Statistics
Matches: 231, Mismatches: 46, Indels: 24
0.77 0.15 0.08
Matches are distributed among these distances:
47 4 0.02
48 1 0.00
49 12 0.05
50 134 0.58
51 65 0.28
52 10 0.04
53 1 0.00
54 4 0.02
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
Found at i:50258696 original size:51 final size:50
Alignment explanation
Indices: 50258619--50258800 Score: 217
Period size: 51 Copynumber: 3.6 Consensus size: 50
50258609 ATTTGATACA
50258619 CATAGTAGCCTGCACTTAGTACTACACATGTGATCAAAGTTAACAGGTAAG
1 CATAGTAGCCTGCACTTAGTACTACACATGTGATC-AAGTTAACAGGTAAG
* * ** *
50258670 CATAATAGCCTGCACTTAGTACTACACATGCGA-CCTGTCAATCTA-GTACA-
1 CATAGTAGCCTGCACTTAGTACTACACATGTGATCAAGTTAA-C-AGGTA-AG
** * *
50258720 CATAGTAGCCTGCACTTAGTACTACACACATGATCGAAGTTAACGGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACATGTGATC-AAGTTAACAGGTAAG
50258771 CATAGTAGCCTGCACTTAGTACTACACATG
1 CATAGTAGCCTGCACTTAGTACTACACATG
50258801 CGACCTATCA
Statistics
Matches: 108, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
49 4 0.04
50 34 0.31
51 66 0.61
52 4 0.04
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.25
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACATGTGATCAAGTTAACAGGTAAG
Found at i:50258721 original size:101 final size:101
Alignment explanation
Indices: 50258574--50258853 Score: 373
Period size: 101 Copynumber: 2.8 Consensus size: 101
50258564 GTACATGTAG
* * * * * *
50258574 TAGCCTGCACTTAGTACTACACACGTGACTTAACCAT-TTGATACACATAGTAGCCTGCACTTAG
1 TAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTAG-TACACATAGTAGCCTGCACTTAG
*
50258638 TACTACACATGTGATCAAAGTTAACAGGTAAGCATAA
65 TACTACACACGTGATCAAAGTTAACAGGTAAGCATAA
*
50258675 TAGCCTGCACTTAGTACTACACATGCGACCTGTCAATCTAGTACACATAGTAGCCTGCACTTAGT
1 TAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTAGTACACATAGTAGCCTGCACTTAGT
* * * * *
50258740 ACTACACACATGATCGAAGTTAACGGGTACGCATAG
66 ACTACACACGTGATCAAAGTTAACAGGTAAGCATAA
* * * * * *
50258776 TAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTTGCCTACATTTAAT
1 TAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTAGTACACATAGTAGCCTGCACTTAGT
50258841 ACTACACACGTGA
66 ACTACACACGTGA
50258854 CTCACAATGG
Statistics
Matches: 157, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
101 155 0.99
102 2 0.01
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (101 bp):
TAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTAGTACACATAGTAGCCTGCACTTAGT
ACTACACACGTGATCAAAGTTAACAGGTAAGCATAA
Found at i:50258747 original size:26 final size:26
Alignment explanation
Indices: 50258670--50258747 Score: 67
Period size: 26 Copynumber: 3.1 Consensus size: 26
50258660 AACAGGTAAG
*
50258670 CATAATAGCCTGCACTTAGTACTACA
1 CATAGTAGCCTGCACTTAGTACTACA
* *
50258696 CAT-G-CGACCTGTCAATCTAG---TACA
1 CATAGTAG-CCTG-CACT-TAGTACTACA
50258720 CATAGTAGCCTGCACTTAGTACTACA
1 CATAGTAGCCTGCACTTAGTACTACA
50258746 CA
1 CA
50258748 CATGATCGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 16
0.65 0.08 0.27
Matches are distributed among these distances:
23 3 0.08
24 11 0.28
25 9 0.23
26 13 0.33
27 3 0.08
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (26 bp):
CATAGTAGCCTGCACTTAGTACTACA
Found at i:50258848 original size:151 final size:151
Alignment explanation
Indices: 50258513--50258803 Score: 350
Period size: 151 Copynumber: 1.9 Consensus size: 151
50258503 GAAGCTCTCT
* * ** * * * **
50258513 GGTACGCATAGTAGCCTGTACTTAGTACTACACATGCGGCCTATCAATCTGGTACATGTAGTAGC
1 GGTAAGCATAATAGCCTACACTTAATACTACACATGCGACCTATCAATCTAGTACACATAGTAGC
* * ***
50258578 CTGCACTTAGTACTACACACGTGACTTAACCATTTGATACACATAGTAGCCTGCACTTAGTACTA
66 CTGCACTTAGTACTACACACATGACTGAACCAACGGATACACATAGTAGCCTGCACTTAGTACTA
* *
50258643 CACATGTGATCAAAGTTAACA
131 CACATGCGATCAAAGTCAACA
* * *
50258664 GGTAAGCATAATAGCCTGCACTTAGTACTACACATGCGACCTGTCAATCTAGTACACATAGTAGC
1 GGTAAGCATAATAGCCTACACTTAATACTACACATGCGACCTATCAATCTAGTACACATAGTAGC
** * *
50258729 CTGCACTTAGTACTACACACATGA-TCGAAGTTAACGGGTACGCATAGTAGCCTGCACTTAGTAC
66 CTGCACTTAGTACTACACACATGACT-GAA-CCAACGGATACACATAGTAGCCTGCACTTAGTAC
50258793 TACACATGCGA
129 TACACATGCGA
50258804 CCTATCAATC
Statistics
Matches: 120, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
150 1 0.01
151 82 0.68
152 37 0.31
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (151 bp):
GGTAAGCATAATAGCCTACACTTAATACTACACATGCGACCTATCAATCTAGTACACATAGTAGC
CTGCACTTAGTACTACACACATGACTGAACCAACGGATACACATAGTAGCCTGCACTTAGTACTA
CACATGCGATCAAAGTCAACA
Found at i:50263878 original size:16 final size:16
Alignment explanation
Indices: 50263859--50263890 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
50263849 AATTGTTTTA
50263859 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
50263875 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
50263891 ACTCCATTCT
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:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:50264192 original size:50 final size:50
Alignment explanation
Indices: 50264098--50264221 Score: 142
Period size: 50 Copynumber: 2.5 Consensus size: 50
50264088 CTCTGGAATG
* * *
50264098 CATAGTAGCGTACACTTAGTACTACACATGAAACCTATCAATCTGGTACA
1 CATAGTAGCCTACACTTAGTACTACACATGAAACCTAACAATCTGATACA
* * * * *
50264148 CGTAGTAGCCTACACTTAGTACTACACAT-ATGACTTAACCATCTGATATA
1 CATAGTAGCCTACACTTAGTACTACACATGA-AACCTAACAATCTGATACA
**
50264198 CATAGTAGCCTGTACTTAGTACTA
1 CATAGTAGCCTACACTTAGTACTA
50264222 TACACGTGTT
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
49 1 0.02
50 61 0.98
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (50 bp):
CATAGTAGCCTACACTTAGTACTACACATGAAACCTAACAATCTGATACA
Found at i:50264548 original size:19 final size:20
Alignment explanation
Indices: 50264526--50264575 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 20
50264516 ATTTACATAC
50264526 AAAC-TTATTCATTTCAAAG
1 AAACATTATTCATTTCAAAG
*
50264545 AAACATCATACTCATTTCAAAG
1 AAACAT--TATTCATTTCAAAG
50264567 AAACATTAT
1 AAACATTAT
50264576 ATTCCATCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 4 0.15
20 3 0.12
22 19 0.73
ACGTcount: A:0.46, C:0.18, G:0.04, T:0.32
Consensus pattern (20 bp):
AAACATTATTCATTTCAAAG
Found at i:50264731 original size:19 final size:20
Alignment explanation
Indices: 50264701--50264747 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
50264691 GAGAACATGT
50264701 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
*
50264722 TA-ATATCAAAATATTCACA
1 TATATATCAAAATAATCACA
50264741 TATATAT
1 TATATAT
50264748 ACTTACAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 16 0.67
20 6 0.25
21 2 0.08
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:50270527 original size:29 final size:29
Alignment explanation
Indices: 50270485--50270556 Score: 99
Period size: 29 Copynumber: 2.5 Consensus size: 29
50270475 TATTCCTAAG
* **
50270485 GCCCATTAGGCCCAAATTACCTGTATATA
1 GCCCATTAGGCCCAAATCAAATGTATATA
* *
50270514 GCCCATTAGGCCCAAATCAAATTTATATG
1 GCCCATTAGGCCCAAATCAAATGTATATA
50270543 GCCCATTAGGCCCA
1 GCCCATTAGGCCCA
50270557 GTCACATTCA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (29 bp):
GCCCATTAGGCCCAAATCAAATGTATATA
Found at i:50280433 original size:15 final size:13
Alignment explanation
Indices: 50280404--50280430 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
50280394 GTTCGGTAGG
50280404 GACACGCCCGTGT
1 GACACGCCCGTGT
50280417 GACACGCCCGTGT
1 GACACGCCCGTGT
50280430 G
1 G
50280431 TGATTACTTC
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:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:50284485 original size:29 final size:29
Alignment explanation
Indices: 50284452--50284523 Score: 99
Period size: 29 Copynumber: 2.5 Consensus size: 29
50284442 TATTCCTAAG
* **
50284452 GCCCATTAGGCCCAAATTACCTGTATATA
1 GCCCATTAGGCCCAAATAAAATGTATATA
* *
50284481 GCCCATTAGGCCCAAATAAAATTTATATG
1 GCCCATTAGGCCCAAATAAAATGTATATA
50284510 GCCCATTAGGCCCA
1 GCCCATTAGGCCCA
50284524 TTCACATTCA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (29 bp):
GCCCATTAGGCCCAAATAAAATGTATATA
Found at i:50284774 original size:11 final size:11
Alignment explanation
Indices: 50284758--50284784 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
50284748 TACAATTGAT
50284758 AGTGTGTGTGC
1 AGTGTGTGTGC
50284769 AGTGTGTGTGC
1 AGTGTGTGTGC
50284780 AGTGT
1 AGTGT
50284785 ATGTACACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.11, C:0.07, G:0.44, T:0.37
Consensus pattern (11 bp):
AGTGTGTGTGC
Found at i:50286203 original size:13 final size:13
Alignment explanation
Indices: 50286185--50286209 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50286175 TTTAAATGTG
50286185 TTTAATGTGTTTT
1 TTTAATGTGTTTT
50286198 TTTAATGTGTTT
1 TTTAATGTGTTT
50286210 ATTTGTAGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (13 bp):
TTTAATGTGTTTT
Found at i:50286338 original size:24 final size:24
Alignment explanation
Indices: 50286311--50286371 Score: 104
Period size: 24 Copynumber: 2.5 Consensus size: 24
50286301 AAGGGGCTGT
*
50286311 TACATTATTTAAAGGAGAGCATTA
1 TACATCATTTAAAGGAGAGCATTA
50286335 TACATCATTTAAAGGAGAGCATTA
1 TACATCATTTAAAGGAGAGCATTA
*
50286359 TACATCGTTTAAA
1 TACATCATTTAAA
50286372 TTCGGCAGCC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (24 bp):
TACATCATTTAAAGGAGAGCATTA
Found at i:50297344 original size:29 final size:29
Alignment explanation
Indices: 50297278--50297396 Score: 156
Period size: 29 Copynumber: 4.2 Consensus size: 29
50297268 TGCAAACATG
50297278 CATATGGCCCACTAGGCCCAA-TC-TCATT
1 CATATGGCCCACTAGGCCCAATTCAT-ATT
*
50297306 CATATGGCCCA-TATGGCCCAGTTCATATT
1 CATATGGCCCACTA-GGCCCAATTCATATT
* *
50297335 CTTATGGCCCACTAGGCCCAATTCACATT
1 CATATGGCCCACTAGGCCCAATTCATATT
*
50297364 CATATGGCCCACTAGGCCCAAATCATATT
1 CATATGGCCCACTAGGCCCAATTCATATT
50297393 -ATAT
1 CATAT
50297397 TCATGCTCAC
Statistics
Matches: 80, Mismatches: 7, Indels: 8
0.84 0.07 0.08
Matches are distributed among these distances:
27 2 0.03
28 21 0.26
29 54 0.68
30 3 0.04
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.28
Consensus pattern (29 bp):
CATATGGCCCACTAGGCCCAATTCATATT
Found at i:50297382 original size:58 final size:57
Alignment explanation
Indices: 50297280--50297392 Score: 174
Period size: 58 Copynumber: 2.0 Consensus size: 57
50297270 CAAACATGCA
* **
50297280 TATGGCCCACTAGGCCCAATCTCATTCATATGGCCCATATGGCCCAGTTCATATTCT
1 TATGGCCCACTAGGCCCAATCACATTCATATGGCCCATATGGCCCAAATCATATTCT
50297337 TATGGCCCACTAGGCCCAATTCACATTCATATGGCCCACTA-GGCCCAAATCATATT
1 TATGGCCCACTAGGCCCAA-TCACATTCATATGGCCCA-TATGGCCCAAATCATATT
50297393 ATATTCATGC
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
57 19 0.37
58 30 0.59
59 2 0.04
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (57 bp):
TATGGCCCACTAGGCCCAATCACATTCATATGGCCCATATGGCCCAAATCATATTCT
Found at i:50298815 original size:15 final size:16
Alignment explanation
Indices: 50298791--50298821 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
50298781 AAATTTGAGA
50298791 TTTCAGGATTTTGGGG
1 TTTCAGGATTTTGGGG
50298807 TTTCA-GATTTTGGGG
1 TTTCAGGATTTTGGGG
50298822 CATTACATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.13, C:0.06, G:0.35, T:0.45
Consensus pattern (16 bp):
TTTCAGGATTTTGGGG
Found at i:50299673 original size:21 final size:20
Alignment explanation
Indices: 50299643--50299683 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
50299633 TATTTTTCAA
50299643 TCTCAATCTCTTTTTGCTTTC
1 TCTCAATCTCTTTTT-CTTTC
*
50299664 TCTCACTCTCTTTTTCTTTC
1 TCTCAATCTCTTTTTCTTTC
50299684 ATTTCTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.07, C:0.32, G:0.02, T:0.59
Consensus pattern (20 bp):
TCTCAATCTCTTTTTCTTTC
Found at i:50303015 original size:93 final size:93
Alignment explanation
Indices: 50302848--50303019 Score: 247
Period size: 93 Copynumber: 1.8 Consensus size: 93
50302838 GCCCATAAGT
* * *
50302848 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAATGAACCCGGACTCAACTCAA
1 GAACTCGGACTAAACTCAATGAGCTCGGACATTCGCATCCATAAATGAACCCGGACTCAACTCAA
*
50302913 TGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * * *
50302941 GAACTCGGACTAAACTCAACT-AGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTAAACTCAA-TGAGCTCGGACATTCGCATCCATAAATGAACCCGGACTCAACTCA
*
50303005 ACGAGTTCGGATGCC
65 ACGAGCTCGGATGCC
50303020 CAAATATCCT
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
93 68 0.99
94 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTAAACTCAATGAGCTCGGACATTCGCATCCATAAATGAACCCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:50307295 original size:13 final size:14
Alignment explanation
Indices: 50307277--50307309 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
50307267 AACCAAAAAC
*
50307277 AAACATATCAATA-
1 AAACATATAAATAT
50307290 AAACATATAAATAT
1 AAACATATAAATAT
50307304 AAACAT
1 AAACAT
50307310 GGTCGAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (14 bp):
AAACATATAAATAT
Found at i:50308737 original size:43 final size:43
Alignment explanation
Indices: 50308617--50308888 Score: 232
Period size: 43 Copynumber: 6.4 Consensus size: 43
50308607 TCCCGGACAT
* * * * *
50308617 GTAATCACATATCGGTGCCACTGTCCCAGATAG-GGTCTCACAT
1 GTAATCACATATCGATGCCAATGTCCCAAAT-GTGGTCTTACAC
* *** * **
50308660 G-AATCAAATAT-GATGCTGGTGTCCCAGACATGGTCTTACAC
1 GTAATCACATATCGATGCCAATGTCCCAAATGTGGTCTTACAC
*
50308701 GTAATCACATATCGATGCCAATGTTCCAAATGTGGTCTTACAC
1 GTAATCACATATCGATGCCAATGTCCCAAATGTGGTCTTACAC
* * * * ***
50308744 GTAATCACAAATCGATGCCACTATCCCAGACAAGGTCTTACAC
1 GTAATCACATATCGATGCCAATGTCCCAAATGTGGTCTTACAC
*
50308787 GTAATCACATATCG-TCGCCAATGTCCCAGATGTGGTCTTACAC
1 GTAATCACATATCGAT-GCCAATGTCCCAAATGTGGTCTTACAC
* * * *
50308830 ATAATCACATATTGATGCCACTGTCCCAGACA-G-GGTCTTAAAC
1 GTAATCACATATCGATGCCAATGTCCCA-A-ATGTGGTCTTACAC
*
50308873 GTAATAACATATCGAT
1 GTAATCACATATCGAT
50308889 ATCACATATC
Statistics
Matches: 183, Mismatches: 39, Indels: 14
0.78 0.17 0.06
Matches are distributed among these distances:
41 22 0.12
42 19 0.10
43 139 0.76
44 2 0.01
45 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (43 bp):
GTAATCACATATCGATGCCAATGTCCCAAATGTGGTCTTACAC
Found at i:50308786 original size:86 final size:87
Alignment explanation
Indices: 50308681--50308888 Score: 312
Period size: 86 Copynumber: 2.4 Consensus size: 87
50308671 GATGCTGGTG
* * *
50308681 TCCCAGACATGGTCTTACACGTAATCACATATCGAT-GCCAATGTTCCAAATGTGGTCTTACACG
1 TCCCAGACAAGGTCTTACACGTAATCACATATCGATCGCCAATGTCCCAAATGTGGTCTTACACA
50308745 TAATCACAAATCGATGCCACTA
66 TAATCACAAATCGATGCCACTA
*
50308767 TCCCAGACAAGGTCTTACACGTAATCACATATCG-TCGCCAATGTCCCAGATGTGGTCTTACACA
1 TCCCAGACAAGGTCTTACACGTAATCACATATCGATCGCCAATGTCCCAAATGTGGTCTTACACA
* * *
50308831 TAATCACATATTGATGCCACTG
66 TAATCACAAATCGATGCCACTA
* * *
50308853 TCCCAGACAGGGTCTTAAACGTAATAACATATCGAT
1 TCCCAGACAAGGTCTTACACGTAATCACATATCGAT
50308889 ATCACATATC
Statistics
Matches: 110, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
85 1 0.01
86 108 0.98
87 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.26
Consensus pattern (87 bp):
TCCCAGACAAGGTCTTACACGTAATCACATATCGATCGCCAATGTCCCAAATGTGGTCTTACACA
TAATCACAAATCGATGCCACTA
Found at i:50312660 original size:54 final size:53
Alignment explanation
Indices: 50312480--50312883 Score: 371
Period size: 54 Copynumber: 7.6 Consensus size: 53
50312470 CTTACCATTT
* * * *
50312480 CCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCAATG
1 CCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATGAACTCATCAATG
* ** *
50312533 CCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGTCTTATAGTAACTCATCAATG
1 CCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTAT-G-AACTCATCAATG
* * * * *
50312588 CTATGTCTTGACACGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATG
1 CCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTAT-GAACTCATCAATG
** *
50312642 CCATGCCTTGACATGGTCTTACATGATATCCTTATC-T-T--AC-CA--AACG
1 CCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATGAACTCATCAATG
* * *
50312688 CCATG--TTCCGAACATGGTCTTACATGGTATCCTTGTCTTATGAACTCACCAATG
1 CCATGCCTT--G-ACATGGTCTTACATGATATCCTTGCCTTATGAACTCATCAATG
* * * **
50312742 CCATGCCTTGGCATGGGCTTACGTGGGA-CCTTTGCCTTATGGTAACTCATCAATG
1 CCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTAT-G-AACTCATCAATG
* * * *
50312797 CCATGTCTTGACATGGTATTACATGATTTCCTTGCCTTATAGAACTTATCAATG
1 CCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTAT-GAACTCATCAATG
*
50312851 CCATGCCTTGGCATGGTCTTACATGATATCCTT
1 CCATGCCTTGACATGGTCTTACATGATATCCTT
50312884 ACTTACCAAA
Statistics
Matches: 285, Mismatches: 46, Indels: 39
0.77 0.12 0.11
Matches are distributed among these distances:
44 2 0.01
46 9 0.03
47 24 0.08
48 2 0.01
49 3 0.01
51 2 0.01
52 7 0.02
53 55 0.19
54 92 0.32
55 83 0.29
56 6 0.02
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.35
Consensus pattern (53 bp):
CCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATGAACTCATCAATG
Found at i:50312680 original size:109 final size:106
Alignment explanation
Indices: 50312480--50312876 Score: 436
Period size: 109 Copynumber: 3.7 Consensus size: 106
50312470 CTTACCATTT
* *
50312480 CCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGC
1 CCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGC
* *
50312545 ATGGTCTTACATGGGACCTTTGTCTTATAGTAACTCATCAATG
66 ATGGTCTTACATGAGACC-TTATCTTAT-GTAACTCATCAATG
* * * * * *
50312588 CTATGTCTTGACACGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGA
1 CCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAT-GAACTCACCAATGCCATGCCTTGG
* *
50312653 CATGGTCTTACATGATATCCTTATC---T-T-AC-CA--AACG
65 CATGGTCTTACATGAGA-CCTTATCTTATGTAACTCATCAATG
* * *
50312688 CCATGT-TCCGAACATGGTCTTACATGGTATCCTTGTCTTATGAACTCACCAATGCCATGCCTTG
1 CCATGTCT-TG-ACATGGTCTTACATGATATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
* * *
50312752 GCATGGGCTTACGTGGGACCTT-TGCCTTATGGTAACTCATCAATG
64 GCATGGTCTTACATGAGACCTTAT--CTTAT-GTAACTCATCAATG
* * * *
50312797 CCATGTCTTGACATGGTATTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGG
1 CCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAT-GAACTCACCAATGCCATGCCTTGG
50312862 CATGGTCTTACATGA
65 CATGGTCTTACATGA
50312877 TATCCTTACT
Statistics
Matches: 236, Mismatches: 36, Indels: 33
0.77 0.12 0.11
Matches are distributed among these distances:
98 1 0.00
99 5 0.02
100 44 0.19
101 26 0.11
102 2 0.01
103 3 0.01
104 1 0.00
105 1 0.00
106 3 0.01
107 2 0.01
108 61 0.26
109 84 0.36
110 3 0.01
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.35
Consensus pattern (106 bp):
CCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGC
ATGGTCTTACATGAGACCTTATCTTATGTAACTCATCAATG
Found at i:50312850 original size:209 final size:208
Alignment explanation
Indices: 50312490--50312935 Score: 775
Period size: 209 Copynumber: 2.1 Consensus size: 208
50312480 CCATGTCTTG
* * *
50312490 ACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
1 ACATGGTCTTACATGGTATCCTTGTCTTATGAACTCACCAATGCCATGCCTTGGCATGGGCTTAC
* * *
50312555 ATGGGACCTTTGTCTTATAGTAACTCATCAATGCTATGTCTTGACACGGTCTTACATGATTTCCT
66 ATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTGACACGGTATTACATGATTTCCT
50312620 TGCCTTATAGAACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTATCTTACCAA
131 TGCCTTATAGAACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTA-CTTACCAA
*
50312685 ACGCCATGTTCCGA
195 ACGCCATGTTCCAA
50312699 ACATGGTCTTACATGGTATCCTTGTCTTATGAACTCACCAATGCCATGCCTTGGCATGGGCTTAC
1 ACATGGTCTTACATGGTATCCTTGTCTTATGAACTCACCAATGCCATGCCTTGGCATGGGCTTAC
* * *
50312764 GTGGGACCTTTGCCTTATGGTAACTCATCAATGCCATGTCTTGACATGGTATTACATGATTTCCT
66 ATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTGACACGGTATTACATGATTTCCT
*
50312829 TGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTACTTACCAAA
131 TGCCTTATAGAACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTACTTACCAAA
*
50312894 TGCCATGTTCCAA
196 CGCCATGTTCCAA
50312907 ACATGGTCTTACATGGTATCCTTGTCTTA
1 ACATGGTCTTACATGGTATCCTTGTCTTA
50312936 GTGCCAATTC
Statistics
Matches: 225, Mismatches: 12, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
208 49 0.22
209 176 0.78
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (208 bp):
ACATGGTCTTACATGGTATCCTTGTCTTATGAACTCACCAATGCCATGCCTTGGCATGGGCTTAC
ATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTGACACGGTATTACATGATTTCCT
TGCCTTATAGAACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTACTTACCAAA
CGCCATGTTCCAA
Found at i:50319459 original size:50 final size:49
Alignment explanation
Indices: 50319289--50319520 Score: 268
Period size: 49 Copynumber: 4.7 Consensus size: 49
50319279 TCTATTGTGA
** * *
50319289 GGTCACGTGCATAGTACTAAGTGCAGGCTACTACGTTTACCGGATAATT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATT
* * * ***
50319338 GGTCGCATGTGTAATACTAAGTGCAGGCTACTATGCGTACTC-GATAACTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTAC-CGGATAA-TT
* * * **
50319388 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATT
50319438 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATT
* *
50319488 GGTCACATGTGTAGTACTAAGTGCAGTCTACTA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
50319521 TGCGTGCCAG
Statistics
Matches: 153, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
49 68 0.44
50 50 0.33
51 35 0.23
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATT
Found at i:50319532 original size:99 final size:101
Alignment explanation
Indices: 50319300--50319520 Score: 252
Period size: 101 Copynumber: 2.2 Consensus size: 101
50319290 GTCACGTGCA
*** * ** * *
50319300 TAGTACTAAGTGCAGGCTACTACGTTTACCGGATAATT-GGTCGCATGTGTAATACTAAGTGCAG
1 TAGTACTAAGTGCAGGCTACTACACGTACCAGATGGTTAGGTCACGTGTGTAATACTAAGTGCAG
** *
50319364 GCTACTATGCGTACTCGATAACTTCGATCACGTGTG
66 GCTACTACACGTACTCGATAACTTCGATCACATGTG
* * *
50319400 TAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAG
1 TAGTACTAAGTGCAGGCTACTACACGTACCAGATGGTTAGGTCACGTGTGTAATACTAAGTGCAG
* *
50319465 GCTACTACATGTAC-CGGATAA-TT-GGTCACATGTG
66 GCTACTACACGTACTC-GATAACTTCGATCACATGTG
*
50319499 TAGTACTAAGTGCAGTCTACTA
1 TAGTACTAAGTGCAGGCTACTA
50319521 TGCGTGCCAG
Statistics
Matches: 104, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
99 30 0.29
100 35 0.34
101 39 0.38
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (101 bp):
TAGTACTAAGTGCAGGCTACTACACGTACCAGATGGTTAGGTCACGTGTGTAATACTAAGTGCAG
GCTACTACACGTACTCGATAACTTCGATCACATGTG
Found at i:50321413 original size:16 final size:17
Alignment explanation
Indices: 50321385--50321416 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
50321375 TTATAAACAC
50321385 ATATCATTTATTTCATT
1 ATATCATTTATTTCATT
50321402 ATATCA-TTATTTCAT
1 ATATCATTTATTTCAT
50321417 ATACCATAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.31, C:0.12, G:0.00, T:0.56
Consensus pattern (17 bp):
ATATCATTTATTTCATT
Found at i:50327771 original size:15 final size:15
Alignment explanation
Indices: 50327751--50327806 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
50327741 GTATCTTGGG
50327751 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
50327766 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
50327781 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
50327796 TTTCTTTATTC
1 TTTCTTTATTC
50327807 GGTTTCCTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 2 0.05
15 33 0.89
16 2 0.05
ACGTcount: A:0.12, C:0.16, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:50330259 original size:46 final size:46
Alignment explanation
Indices: 50330206--50330378 Score: 194
Period size: 46 Copynumber: 3.7 Consensus size: 46
50330196 TGGTTGAGCA
50330206 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
50330252 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
50330297 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
50330345 -CCTGAGCTCGTTGATTTGAGTCCGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
50330379 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 5 0.05
46 58 0.55
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:50330364 original size:93 final size:93
Alignment explanation
Indices: 50330203--50330373 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
50330193 GAATGGTTGA
*
50330203 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
50330268 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
50330296 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
50330360 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
50330374 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:50332581 original size:18 final size:18
Alignment explanation
Indices: 50332535--50332569 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
50332525 TACAAAGCCG
50332535 TAATACAAAATATGGTCA
1 TAATACAAAATATGGTCA
50332553 TAATACAAAATATGGTC
1 TAATACAAAATATGGTC
50332570 TTACATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.29
Consensus pattern (18 bp):
TAATACAAAATATGGTCA
Found at i:50333922 original size:9 final size:9
Alignment explanation
Indices: 50333910--50333968 Score: 64
Period size: 9 Copynumber: 6.4 Consensus size: 9
50333900 AGTTAATTAA
*
50333910 GTTTCATGT
1 GTTTAATGT
*
50333919 GTTTAAAGT
1 GTTTAATGT
*
50333928 ATTTAATGT
1 GTTTAATGT
*
50333937 GTTGAATGT
1 GTTTAATGT
*
50333946 GTTTAATGA
1 GTTTAATGT
50333955 GTTTTAATGT
1 G-TTTAATGT
50333965 GTTT
1 GTTT
50333969 GTTAATGCTT
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
9 32 0.80
10 8 0.20
ACGTcount: A:0.24, C:0.02, G:0.22, T:0.53
Consensus pattern (9 bp):
GTTTAATGT
Found at i:50333960 original size:28 final size:27
Alignment explanation
Indices: 50333915--50333967 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 27
50333905 ATTAAGTTTC
50333915 ATGTGTTTAAAGTATTTAATGTGTTGA
1 ATGTGTTTAAAGTATTTAATGTGTTGA
50333942 ATGTGTTTAATGAGT-TTTAATGTGTT
1 ATGTGTTTAA--AGTATTTAATGTGTT
50333968 TGTTAATGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 10 0.42
28 11 0.46
29 3 0.12
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (27 bp):
ATGTGTTTAAAGTATTTAATGTGTTGA
Found at i:50342374 original size:12 final size:12
Alignment explanation
Indices: 50342344--50342382 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
50342334 CTTGCACCCT
* *
50342344 TCCGCGACCACG
1 TCCGCGGCCTCG
*
50342356 TCTGCGGCCTCG
1 TCCGCGGCCTCG
50342368 TCCGCGGCCTCG
1 TCCGCGGCCTCG
50342380 TCC
1 TCC
50342383 ATGAGTTCCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.05, C:0.49, G:0.28, T:0.18
Consensus pattern (12 bp):
TCCGCGGCCTCG
Found at i:50343890 original size:11 final size:11
Alignment explanation
Indices: 50343874--50343923 Score: 61
Period size: 11 Copynumber: 4.8 Consensus size: 11
50343864 ATATATGAAT
50343874 ATATCATGTGC
1 ATATCATGTGC
*
50343885 ATATCA--TAC
1 ATATCATGTGC
50343894 ATATCATGTGC
1 ATATCATGTGC
50343905 ATATCATGT-C
1 ATATCATGTGC
*
50343915 AAATCATGT
1 ATATCATGT
50343924 ATATCAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
9 8 0.24
10 9 0.26
11 17 0.50
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (11 bp):
ATATCATGTGC
Found at i:50343899 original size:20 final size:20
Alignment explanation
Indices: 50343874--50343911 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
50343864 ATATATGAAT
50343874 ATATCATGTGCATATCATAC
1 ATATCATGTGCATATCATAC
50343894 ATATCATGTGCATATCAT
1 ATATCATGTGCATATCAT
50343912 GTCAAATCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (20 bp):
ATATCATGTGCATATCATAC
Found at i:50350048 original size:43 final size:43
Alignment explanation
Indices: 50349982--50350153 Score: 158
Period size: 43 Copynumber: 4.0 Consensus size: 43
50349972 AGCTCGTACA
* * *
50349982 ATGCCAATGTCCC-GAC-GTGGTCTTACATGTAATCACATATCG
1 ATGCCACTGTCCCAGACAG-GGTCTTACACGAAATCACATATCG
* * *
50350024 ATGCCACTTTCCCAGACAGGGTCTTACACGAACTCATATA-CG
1 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATCACATATCG
* * * *
50350066 ATGTCGA-TGTCCCAGACATGCTCTTACACGCAAATCACAAATCG
1 ATG-CCACTGTCCCAGACAGGGTCTTACACG-AAATCACATATCG
*
50350110 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAAATCACAGATCG
1 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCACATATCG
50350153 A
1 A
50350154 AATCCTATGT
Statistics
Matches: 105, Mismatches: 17, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
42 36 0.34
43 43 0.41
44 26 0.25
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACAGGGTCTTACACGAAATCACATATCG
Found at i:50350068 original size:42 final size:42
Alignment explanation
Indices: 50349982--50350145 Score: 131
Period size: 42 Copynumber: 3.9 Consensus size: 42
50349972 AGCTCGTACA
* * * *
50349982 ATGCCAATGTCCC-GAC-GTGGTCTTACATGTAATCACATATCG
1 ATGCCACTGTCCCAGACAG-GGTCTTACACGAAATCATATA-CG
* *
50350024 ATGCCACTTTCCCAGACAGGGTCTTACACGAACTCATATACG
1 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATCATATACG
* * * * *
50350066 ATGTCGA-TGTCCCAGACATGCTCTTACACGCAAATCACAAATCG
1 ATG-CCACTGTCCCAGACAGGGTCTTACACG-AAATCATATA-CG
50350110 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAAATCA
1 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCA
50350146 CAGATCGAAA
Statistics
Matches: 98, Mismatches: 16, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
42 36 0.37
43 36 0.37
44 26 0.27
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (42 bp):
ATGCCACTGTCCCAGACAGGGTCTTACACGAAATCATATACG
Found at i:50354282 original size:20 final size:20
Alignment explanation
Indices: 50354259--50354298 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
50354249 CAAGAATTAA
50354259 AACACATAATTAAGAACAAG
1 AACACATAATTAAGAACAAG
50354279 AACACATAATTAAGAACAAG
1 AACACATAATTAAGAACAAG
50354299 TTAAATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.60, C:0.15, G:0.10, T:0.15
Consensus pattern (20 bp):
AACACATAATTAAGAACAAG
Found at i:50361494 original size:48 final size:48
Alignment explanation
Indices: 50361423--50361725 Score: 552
Period size: 48 Copynumber: 6.3 Consensus size: 48
50361413 ATGTACAAGA
* **
50361423 AAATATGTATGAGATATGTATATGTGGTAAAGATGAATGGCTAGTGTG
1 AAATATGTACGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
* *
50361471 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGTTAGTGTG
1 AAATATGTACGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
50361519 AAATATGTACGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATGTACGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
50361567 AAATATGTACGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATGTACGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
50361615 AAATATGTACGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATGTACGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
50361663 AAATATGTACGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATGTACGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
*
50361711 AAATATGTAGGAGAT
1 AAATATGTACGAGAT
50361726 GTGTGTATAT
Statistics
Matches: 249, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 249 1.00
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.30
Consensus pattern (48 bp):
AAATATGTACGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
Found at i:50361950 original size:34 final size:36
Alignment explanation
Indices: 50361865--50361964 Score: 150
Period size: 34 Copynumber: 2.8 Consensus size: 36
50361855 TGGAAATATA
50361865 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
1 TTCCGGGTAAGA-CCGATGACTACGTGTGGAGATTAT
*
50361902 GTCCGGGTAAGACCGATGACTACGTGTGGAGATT-T
1 TTCCGGGTAAGACCGATGACTACGTGTGGAGATTAT
* *
50361937 TTCC-GGTAAGACCGATAACTACTTGTGG
1 TTCCGGGTAAGACCGATGACTACGTGTGG
50361965 GGACTGTTCG
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
34 22 0.37
35 4 0.07
36 22 0.37
37 11 0.19
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (36 bp):
TTCCGGGTAAGACCGATGACTACGTGTGGAGATTAT
Found at i:50380757 original size:46 final size:46
Alignment explanation
Indices: 50380690--50380818 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
50380680 TGTAACCCGC
* * *
50380690 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
50380736 CCATAACTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
50380782 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
50380819 TGCTCAACCA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:50380837 original size:46 final size:45
Alignment explanation
Indices: 50380695--50380837 Score: 137
Period size: 46 Copynumber: 3.1 Consensus size: 45
50380685 CCCGCCCATA
* ** * *
50380695 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T
* *** *
50380740 AACTGAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T
50380786 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCT
50380833 AGTGA
1 AGTGA
50380838 CATGTCACTT
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
46 80 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCT
Found at i:50388293 original size:46 final size:46
Alignment explanation
Indices: 50388118--50388293 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
50388108 TGTAACCCGC
* * * * *
50388118 CCATAAGTGAATTCAGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
50388164 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACAT
* * * * * *
50388214 --TTCA-CGAACTCTGACTCAACTTAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
50388257 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
50388294 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 60 0.57
47 27 0.26
48 2 0.02
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
Found at i:50388753 original size:30 final size:30
Alignment explanation
Indices: 50388719--50388778 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
50388709 ATTTAATATG
50388719 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
50388749 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
50388779 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:50390646 original size:42 final size:42
Alignment explanation
Indices: 50390573--50390738 Score: 201
Period size: 42 Copynumber: 3.9 Consensus size: 42
50390563 CAAAGGATTT
*
50390573 TCGATATGTGTTCTCATGTAAGACCACGTCTGGGACATTGGCA
1 TCGATATGTGAT-TCATGTAAGACCACGTCTGGGACATTGGCA
* * * * *
50390616 TCGATATGTGATACATGTAAGAACATGTCTGGAATATTGGCA
1 TCGATATGTGATTCATGTAAGACCACGTCTGGGACATTGGCA
* * *
50390658 TCG-TATTTGATTCGTGTAAGACC-CTGTCTGGGACAGTGGCA
1 TCGATATGTGATTCATGTAAGACCAC-GTCTGGGACATTGGCA
*
50390699 TCGATATGTGATTGCATGTAAGACCACATCTGGGACATTG
1 TCGATATGTGATT-CATGTAAGACCACGTCTGGGACATTG
50390739 ACATTGTACG
Statistics
Matches: 101, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
41 32 0.32
42 36 0.36
43 32 0.32
44 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (42 bp):
TCGATATGTGATTCATGTAAGACCACGTCTGGGACATTGGCA
Found at i:50394528 original size:85 final size:85
Alignment explanation
Indices: 50394382--50394541 Score: 284
Period size: 85 Copynumber: 1.9 Consensus size: 85
50394372 GATTATTCAG
* * * *
50394382 ATTGAATCTAATGATCTGAATGGTTTACCGGCAGTGATATCTTTGATGTTAGCTTAGAAGTATGT
1 ATTGAATCTAATGATCTGAATGGTTTACCAGCAGTGATATCTTCGATGTTAGCTCAAAAGTATGT
50394447 GAGAAAAGGTTGTGAAGCTT
66 GAGAAAAGGTTGTGAAGCTT
50394467 ATTGAATCTAATGATCTGAATGGTTTACCAGCAGTGATATCTTCGATGTTAGCTCAAAAGTATGT
1 ATTGAATCTAATGATCTGAATGGTTTACCAGCAGTGATATCTTCGATGTTAGCTCAAAAGTATGT
50394532 GAGAAAAGGT
66 GAGAAAAGGT
50394542 GTGCTTGATA
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 71 1.00
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.34
Consensus pattern (85 bp):
ATTGAATCTAATGATCTGAATGGTTTACCAGCAGTGATATCTTCGATGTTAGCTCAAAAGTATGT
GAGAAAAGGTTGTGAAGCTT
Found at i:50396765 original size:21 final size:22
Alignment explanation
Indices: 50396731--50396773 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
50396721 TTTCTTGATC
*
50396731 TAAATTAATAAAATTC-ATTTAT
1 TAAATCAATAAAA-TCGATTTAT
50396753 TAAATCAA-AAAATCGATTTAT
1 TAAATCAATAAAATCGATTTAT
50396774 ACACTCAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 2 0.11
21 10 0.53
22 7 0.37
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.40
Consensus pattern (22 bp):
TAAATCAATAAAATCGATTTAT
Found at i:50399200 original size:46 final size:46
Alignment explanation
Indices: 50399150--50399322 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
50399140 TGGTTGAGCA
* *
50399150 TCCGAACTCGTTGAGTTGACTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
50399196 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
50399243 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
50399289 CCCGAGCTCGTTGAGTTGAGTCCGCGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
50399323 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 59 0.56
47 29 0.28
48 3 0.03
50 5 0.05
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:50399306 original size:93 final size:93
Alignment explanation
Indices: 50399147--50399317 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
50399137 GGATGGTTGA
* *
50399147 GCATCCGAACTCGTTGAGTTGACTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGACTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
50399212 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
50399240 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGACTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
*
50399305 TGAGTCCGCGTTC
66 TGAGTCCGAGTTC
50399318 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGACTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:50415280 original size:43 final size:43
Alignment explanation
Indices: 50415182--50415280 Score: 112
Period size: 43 Copynumber: 2.3 Consensus size: 43
50415172 GATTAACTTT
* * * *
50415182 TGGGACGTTGGCATCGATATGTGATTACGTGTAAGACCCTGTC
1 TGGGACGTTGGCACCGATATGCGATTACATGTAAGACACTGTC
* *
50415225 TGTGAC-TGTGGCACCGATATGCGATTGCATGTAAGACTAC-GTC
1 TGGGACGT-TGGCACCGATATGCGATTACATGTAAGAC-ACTGTC
50415268 TGGGACGTTGGCA
1 TGGGACGTTGGCA
50415281 TTGTATGATA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
42 1 0.02
43 43 0.93
44 2 0.04
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.28
Consensus pattern (43 bp):
TGGGACGTTGGCACCGATATGCGATTACATGTAAGACACTGTC
Found at i:50415697 original size:18 final size:17
Alignment explanation
Indices: 50415670--50415704 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
50415660 ATATTATGGC
50415670 TTTGAGATTGAATGATAT
1 TTTGAGATTGAAT-ATAT
*
50415688 TTTGATATTGAATATAT
1 TTTGAGATTGAATATAT
50415705 GTATATTCAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.49
Consensus pattern (17 bp):
TTTGAGATTGAATATAT
Found at i:50420752 original size:17 final size:17
Alignment explanation
Indices: 50420730--50420765 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
50420720 GTAGGAAGTA
*
50420730 TATTAAATTGAAGTGCC
1 TATTAAATTAAAGTGCC
50420747 TATTAAATTAAAGTGCC
1 TATTAAATTAAAGTGCC
50420764 TA
1 TA
50420766 GATGGTGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (17 bp):
TATTAAATTAAAGTGCC
Found at i:50441330 original size:43 final size:43
Alignment explanation
Indices: 50441269--50441444 Score: 343
Period size: 43 Copynumber: 4.1 Consensus size: 43
50441259 TAAAGAGCAT
50441269 GGGCAATAAGTGTTCACGGTTGTGAGATTGGCACTAAGTGTGC
1 GGGCAATAAGTGTTCACGGTTGTGAGATTGGCACTAAGTGTGC
50441312 GGGCAATAAGTGTTCACGGTTGTGAGATTGGCACTAAGTGTGC
1 GGGCAATAAGTGTTCACGGTTGTGAGATTGGCACTAAGTGTGC
50441355 GGGCAATAAGTGTTCACGGTTGTGAGATTGGCACTAAGTGTGC
1 GGGCAATAAGTGTTCACGGTTGTGAGATTGGCACTAAGTGTGC
*
50441398 GGGCAATAAGTGTTCATGGTTGTGAGATTGGCACTAAGTGTGC
1 GGGCAATAAGTGTTCACGGTTGTGAGATTGGCACTAAGTGTGC
50441441 GGGC
1 GGGC
50441445 TTGAAATGCA
Statistics
Matches: 132, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 132 1.00
ACGTcount: A:0.23, C:0.14, G:0.36, T:0.28
Consensus pattern (43 bp):
GGGCAATAAGTGTTCACGGTTGTGAGATTGGCACTAAGTGTGC
Found at i:50441461 original size:29 final size:29
Alignment explanation
Indices: 50441426--50441499 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
50441416 GTTGTGAGAT
* *
50441426 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
50441455 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
50441484 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
50441500 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:50441933 original size:40 final size:40
Alignment explanation
Indices: 50441810--50442005 Score: 184
Period size: 40 Copynumber: 4.9 Consensus size: 40
50441800 TCGAATGATG
** *
50441810 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
* ** * * *
50441850 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCATGCTAGTGA-TATA
*
50441890 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
*
50441930 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * * * *
50441970 TCCGTGCTAAATCCCAAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
50442006 CGTGTATTCG
Statistics
Matches: 131, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 1 0.01
40 111 0.85
41 19 0.15
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:50441947 original size:80 final size:81
Alignment explanation
Indices: 50441810--50442006 Score: 206
Period size: 80 Copynumber: 2.5 Consensus size: 81
50441800 TCGAATGATG
**
50441810 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAG-GCA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGACCATATCCGGACTAAGATCCGAAGAGCA
* *
50441872 TTGGTGCGAGTTACTAAA
65 TTCGTGCGAGTGA-TAAA
** *
50441890 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TGTATCCGGGCTAAG-TCCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGACCATATCCGGACTAAGAT-CCGAAGAGCA
* *
50441953 TTCGTGCTAGTGATATA
65 TTCGTGCGAGTGATAAA
* * * * *
50441970 TCCGTGCTAAATCCCAAAGAGCAATCATGCTGGTGAC
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGAC
50442007 GTGTATTCGG
Statistics
Matches: 98, Mismatches: 14, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
79 1 0.01
80 71 0.72
81 20 0.20
82 6 0.06
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGACCATATCCGGACTAAGATCCGAAGAGCAT
TCGTGCGAGTGATAAA
Found at i:50443386 original size:168 final size:168
Alignment explanation
Indices: 50443108--50443443 Score: 654
Period size: 168 Copynumber: 2.0 Consensus size: 168
50443098 GGGGGGAGAG
50443108 TTGTGACACCCCTAATTTGACCCTAGTCAGAAAGCGGTTTCGGGACCGCTAAACCGAGTAACCAA
1 TTGTGACACCCCTAATTTGACCCTAGTCAGAAAGCGGTTTCGGGACCGCTAAACCGAGTAACCAA
50443173 ATTATTTGAACATGATATTTATTGTCTAAAATAAATGTGTGAAAATTTTAAGCTTCGATTTAGTA
66 ATTATTTGAACATGATATTTATTGTCTAAAATAAATGTGTGAAAATTTTAAGCTTCGATTTAGTA
50443238 AATTTCATGTGAATTTAGTCAATAGGGCTTATGTGTGA
131 AATTTCATGTGAATTTAGTCAATAGGGCTTATGTGTGA
* *
50443276 TTGTGACACCCCTAATTTGACCCTAGTCGGAAAGTGGTTTCGGGACCGCTAAACCGAGTAACCAA
1 TTGTGACACCCCTAATTTGACCCTAGTCAGAAAGCGGTTTCGGGACCGCTAAACCGAGTAACCAA
50443341 ATTATTTGAACATGATATTTATTGTCTAAAATAAATGTGTGAAAATTTTAAGCTTCGATTTAGTA
66 ATTATTTGAACATGATATTTATTGTCTAAAATAAATGTGTGAAAATTTTAAGCTTCGATTTAGTA
50443406 AATTTCATGTGAATTTAGTCAATAGGGCTTATGTGTGA
131 AATTTCATGTGAATTTAGTCAATAGGGCTTATGTGTGA
50443444 CATTTTTGAA
Statistics
Matches: 166, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
168 166 1.00
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (168 bp):
TTGTGACACCCCTAATTTGACCCTAGTCAGAAAGCGGTTTCGGGACCGCTAAACCGAGTAACCAA
ATTATTTGAACATGATATTTATTGTCTAAAATAAATGTGTGAAAATTTTAAGCTTCGATTTAGTA
AATTTCATGTGAATTTAGTCAATAGGGCTTATGTGTGA
Found at i:50446984 original size:13 final size:13
Alignment explanation
Indices: 50446962--50446994 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
50446952 AAGGGATTGT
50446962 TTAT-TAAACTAA
1 TTATCTAAACTAA
50446974 TTATCTAAACTAA
1 TTATCTAAACTAA
*
50446987 TTAACTAA
1 TTATCTAA
50446995 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:50449945 original size:5 final size:5
Alignment explanation
Indices: 50449922--50449984 Score: 54
Period size: 6 Copynumber: 11.4 Consensus size: 5
50449912 AAATTAAAAT
*
50449922 AATAA AATTGA AATGAA AATAAA AATAAA AATAAA AATAAA AATAA AATAA
1 AATAA AA-TAA AAT-AA AAT-AA AAT-AA AAT-AA AAT-AA AATAA AATAA
*
50449973 AATAG AATAA AA
1 AATAA AATAA AA
50449985 AGATAAGAGG
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
5 20 0.39
6 31 0.61
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:50449947 original size:12 final size:12
Alignment explanation
Indices: 50449932--50449974 Score: 70
Period size: 12 Copynumber: 3.7 Consensus size: 12
50449922 AATAAAATTG
*
50449932 AAATGAAAATAA
1 AAATAAAAATAA
50449944 AAATAAAAATAA
1 AAATAAAAATAA
50449956 AAATAAAAAT-A
1 AAATAAAAATAA
50449967 AAATAAAA
1 AAATAAAA
50449975 TAGAATAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
11 9 0.30
12 21 0.70
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.16
Consensus pattern (12 bp):
AAATAAAAATAA
Found at i:50451004 original size:21 final size:20
Alignment explanation
Indices: 50450980--50451024 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
50450970 TCGCTTCTCT
*
50450980 CACGCCCGTGTGTTATGGTA
1 CACGCCCGTGTATTATGGTA
*
50451000 GCACGCCCGTGTATTATTGTA
1 -CACGCCCGTGTATTATGGTA
50451021 CACG
1 CACG
50451025 GCTGAACGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.18, C:0.27, G:0.27, T:0.29
Consensus pattern (20 bp):
CACGCCCGTGTATTATGGTA
Found at i:50454430 original size:13 final size:13
Alignment explanation
Indices: 50454408--50454440 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
50454398 AAGGGTTTGT
50454408 TTAT-TAAACTAA
1 TTATCTAAACTAA
50454420 TTATCTAAACTAA
1 TTATCTAAACTAA
*
50454433 TTAACTAA
1 TTATCTAA
50454441 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:50456677 original size:43 final size:42
Alignment explanation
Indices: 50456587--50456700 Score: 113
Period size: 43 Copynumber: 2.7 Consensus size: 42
50456577 CATTAATTTG
* * *
50456587 TGATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATA
1 TGATTT-CGTGTAAGACCCTGTCTGGGACAATAGCATCGTATA
* * *
50456630 TGATTTCGTGTAAGACCCTGTCTGGGATAATAGCATTGATATT
1 TGATTTCGTGTAAGACCCTGTCTGGGACAATAGCATCG-TATA
* * *
50456673 TGATTACATGTAAGGCCAC-GTCTGGGAC
1 TGATTTCGTGTAAGACC-CTGTCTGGGAC
50456701 GTCGACTTTG
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
42 27 0.46
43 31 0.53
44 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCCTGTCTGGGACAATAGCATCGTATA
Found at i:50464785 original size:28 final size:28
Alignment explanation
Indices: 50464754--50464832 Score: 140
Period size: 28 Copynumber: 2.8 Consensus size: 28
50464744 AACATCAAAT
50464754 ATGGCACTTAGTGTGCGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
50464782 ATGGCACTCAGTATGCGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
50464810 ATGGCACTTAGTGTGCGAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
50464833 CGAATGATTC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.28
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:50467835 original size:46 final size:46
Alignment explanation
Indices: 50467771--50468039 Score: 358
Period size: 46 Copynumber: 5.6 Consensus size: 46
50467761 TTTGAGTACT
* *
50467771 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
50467817 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
50467863 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
50467915 TCTGATCAAGTGATAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTG---A---CAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* **
50467967 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
50468013 TCTGATCAAGTGACAAAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
50468040 GCTACACTTA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
49 1 0.01
52 85 0.43
55 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:50467896 original size:52 final size:51
Alignment explanation
Indices: 50467831--50468039 Score: 293
Period size: 52 Copynumber: 4.1 Consensus size: 51
50467821 ATCAAGTGAC
50467831 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* *
50467883 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* * *
50467934 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC-----
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
50467981 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGTG
50468033 ATAAGTG
1 A-AAGTG
50468040 GCTACACTTA
Statistics
Matches: 140, Mismatches: 9, Indels: 15
0.85 0.05 0.09
Matches are distributed among these distances:
46 42 0.30
51 1 0.01
52 92 0.66
53 5 0.04
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:50467934 original size:7 final size:7
Alignment explanation
Indices: 50467917--50467950 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
50467907 TACACTTATC
50467917 TGATCAAG
1 TGAT-AAG
50467925 TGATAAG
1 TGATAAG
*
50467932 TGAAAAG
1 TGATAAG
50467939 TGATAAG
1 TGATAAG
50467946 TGATA
1 TGATA
50467951 GCTTCGGCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 20 0.83
8 4 0.17
ACGTcount: A:0.44, C:0.03, G:0.26, T:0.26
Consensus pattern (7 bp):
TGATAAG
Found at i:50468047 original size:37 final size:37
Alignment explanation
Indices: 50468003--50468148 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
50467993 GATAGCTTTA
**
50468003 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
50468040 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
50468077 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
50468114 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
50468149 ATCATACGTA
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 88 0.85
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:50471926 original size:54 final size:53
Alignment explanation
Indices: 50471716--50471926 Score: 151
Period size: 54 Copynumber: 3.9 Consensus size: 53
50471706 TACCTTTCCT
* * * *
50471716 TTTTAAACTTACCATTGCCATGTCTTGATATGGTCTTACGTGGTATCCTTGCC
1 TTTTAAACTTACCAATGCCATGCCTTGACATGGTCTTACTTGGTATCCTTGCC
* * * * * *
50471769 TTATGAACTCACCATTGCCATGCCTTGGCATGGTCTTACATGG-A-CCTTTGCC
1 TTTTAAACTTACCAATGCCATGCCTTGACATGGTCTTACTTGGTATCC-TTGCC
* ** * * * * *
50471821 ATATCGT-AGTTTATCAATGCCATGTCTTGACATGGTATTA-TATGATTTCCTTGCC
1 -T-T-TTAAACTTACCAATGCCATGCCTTGACATGGTCTTACT-TGGTATCCTTGCC
* * *
50471876 TTTTAAAACTTACCAATGACATGCCTTGGCATGGTCTTACTTGGCATCCTT
1 TTTT-AAACTTACCAATGCCATGCCTTGACATGGTCTTACTTGGTATCCTT
50471927 AAACCCTAAT
Statistics
Matches: 118, Mismatches: 30, Indels: 19
0.71 0.18 0.11
Matches are distributed among these distances:
51 2 0.02
52 7 0.06
53 38 0.32
54 62 0.53
55 7 0.06
56 2 0.02
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (53 bp):
TTTTAAACTTACCAATGCCATGCCTTGACATGGTCTTACTTGGTATCCTTGCC
Found at i:50486571 original size:27 final size:28
Alignment explanation
Indices: 50486536--50486589 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
50486526 TTTGATGATT
* * *
50486536 TGAGTAATTTGGGAC-AAATTGTGAAAA
1 TGAGAAATTGGGGACTAAAATGTGAAAA
50486563 TGAGAAATTGGGGACTAAAATGTGAAA
1 TGAGAAATTGGGGACTAAAATGTGAAA
50486590 TAAATGAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.43, C:0.04, G:0.28, T:0.26
Consensus pattern (28 bp):
TGAGAAATTGGGGACTAAAATGTGAAAA
Found at i:50492640 original size:43 final size:43
Alignment explanation
Indices: 50492517--50492651 Score: 116
Period size: 43 Copynumber: 3.1 Consensus size: 43
50492507 TCTGGAACGT
* * * * *
50492517 TGGCATCGAT-TTGAGATTTACACGTAAGACCATGTCTGGGACAT
1 TGGCATCGATATT-TGA-TTACATGTAAGACCACGTCTGGGATAG
*** * *
50492561 TGGCATCG-TATTTGATTTTGTGTAACACGCTC-TCTGGGATAG
1 TGGCATCGATATTTGATTACATGTAAGAC-CACGTCTGGGATAG
50492603 TGGCATCGATATTTGATTACATGTAAGACCACGTCTGGGAT-G
1 TGGCATCGATATTTGATTACATGTAAGACCACGTCTGGGATAG
50492645 TTGGCAT
1 -TGGCAT
50492652 TGTACTAGCT
Statistics
Matches: 71, Mismatches: 15, Indels: 11
0.73 0.15 0.11
Matches are distributed among these distances:
42 27 0.38
43 34 0.48
44 10 0.14
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (43 bp):
TGGCATCGATATTTGATTACATGTAAGACCACGTCTGGGATAG
Found at i:50499826 original size:140 final size:140
Alignment explanation
Indices: 50499574--50499847 Score: 503
Period size: 140 Copynumber: 2.0 Consensus size: 140
50499564 TTTTTTATAG
*
50499574 TGTTAATCATCTAGTAATTTTTTTATATACATTTCATTTCACATACTTATCAAATATGTATACTT
1 TGTTAATCACCTAGTAATTTTTTTATATACATTTCATTTCACATACTTATCAAATATGTATACTT
*
50499639 TAACTTTGATGACATTTGAATGATTCAAATATAAAATATCTTAATTATCAAACAAATATTATGCA
66 TAACTTTGATGACATTTGAATGATTCAAATAGAAAATATCTTAATTATCAAACAAATATTATGCA
50499704 CATAATACAA
131 CATAATACAA
*
50499714 TGTTAATCACCTAGTAATTTTTTTATATACATTTCATTTCACATACTTATTAAATATGTATACTT
1 TGTTAATCACCTAGTAATTTTTTTATATACATTTCATTTCACATACTTATCAAATATGTATACTT
* *
50499779 TAACTTTGATGACATTTGAATGATTCAAATAGAAAATATTTTAATTATCAAACAAATATTATGCG
66 TAACTTTGATGACATTTGAATGATTCAAATAGAAAATATCTTAATTATCAAACAAATATTATGCA
50499844 CATA
131 CATA
50499848 CTTTATACAA
Statistics
Matches: 129, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
140 129 1.00
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.42
Consensus pattern (140 bp):
TGTTAATCACCTAGTAATTTTTTTATATACATTTCATTTCACATACTTATCAAATATGTATACTT
TAACTTTGATGACATTTGAATGATTCAAATAGAAAATATCTTAATTATCAAACAAATATTATGCA
CATAATACAA
Found at i:50505218 original size:23 final size:23
Alignment explanation
Indices: 50505137--50505230 Score: 84
Period size: 23 Copynumber: 4.1 Consensus size: 23
50505127 GAAAACGATT
**
50505137 GAGCTGAA-CAGTAAGCTCTTTT
1 GAGCTGAATCAGTAAGCTCTTAC
* ** *
50505159 GAGCTAAATCAGTAAGCTCCAAT
1 GAGCTGAATCAGTAAGCTCTTAC
50505182 GAGCTGAAAT-AGTAAGCTCTTAC
1 GAGCTG-AATCAGTAAGCTCTTAC
* * *
50505205 GAGCTGAGTCAGTAAACTCATAC
1 GAGCTGAATCAGTAAGCTCTTAC
50505228 GAG
1 GAG
50505231 ATGTGGTGAA
Statistics
Matches: 58, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
22 9 0.16
23 46 0.79
24 3 0.05
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.24
Consensus pattern (23 bp):
GAGCTGAATCAGTAAGCTCTTAC
Found at i:50513340 original size:43 final size:43
Alignment explanation
Indices: 50513271--50513362 Score: 109
Period size: 43 Copynumber: 2.1 Consensus size: 43
50513261 AGTAAGACCA
*
50513271 TGGCATCGATATATGTGTGCAAGTAAGACC-CTGTCTGGGACAG-
1 TGGCATCGATATATGTGTACAAGTAAGACCAC-GTCTGGGAC-GT
* *
50513314 TGGCATCGATATGTGAT-TACATGTAAGACCACGTCTGGGACGT
1 TGGCATCGATATATG-TGTACAAGTAAGACCACGTCTGGGACGT
50513357 TGGCAT
1 TGGCAT
50513363 TGTACAATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
42 1 0.02
43 40 0.93
44 2 0.05
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.27
Consensus pattern (43 bp):
TGGCATCGATATATGTGTACAAGTAAGACCACGTCTGGGACGT
Found at i:50519989 original size:25 final size:25
Alignment explanation
Indices: 50519954--50520030 Score: 102
Period size: 25 Copynumber: 3.1 Consensus size: 25
50519944 GCCTAGCCTC
50519954 TTTTAAT-AACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
50519978 TTTTAATAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
**** *
50520003 TTCCGGTAAACTGGGGCATAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
50520028 TTT
1 TTT
50520031 AGCACTTCCT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 7 0.15
25 39 0.85
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAGCCCT
Found at i:50520858 original size:27 final size:28
Alignment explanation
Indices: 50520827--50520895 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 28
50520817 TACGGAACAT
*
50520827 AAGGGCATATT-C-GTCATTTTACCATAC
1 AAGGGC-TATTACGGTCACTTTACCATAC
*
50520854 AAGGG-TATTACGGTCACTTTACCCTAC
1 AAGGGCTATTACGGTCACTTTACCATAC
50520881 AAGGGCT-TTACGGTC
1 AAGGGCTATTACGGTC
50520896 TTTTTACCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
25 4 0.11
26 1 0.03
27 31 0.84
28 1 0.03
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (28 bp):
AAGGGCTATTACGGTCACTTTACCATAC
Found at i:50520901 original size:27 final size:27
Alignment explanation
Indices: 50520839--50520903 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
50520829 GGGCATATTC
50520839 GTCATTTTACCATACAAGGGTATTACG
1 GTCATTTTACCATACAAGGGTATTACG
* *
50520866 GTCACTTTACCCTACAAGGGCT-TTACG
1 GTCATTTTACCATACAAGGG-TATTACG
*
50520893 GTCTTTTTACC
1 GTCATTTTACC
50520904 TATTAGGGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGTATTACG
Found at i:50520987 original size:27 final size:26
Alignment explanation
Indices: 50520957--50521012 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
50520947 GTAAATCTAG
* *
50520957 AAACCAAAGGTATTTCAGTAATTTTGT
1 AAACCAAAGGTATTCCAATAATTTT-T
*
50520984 AAACCAATGGTATTCCAATAATTTTT
1 AAACCAAAGGTATTCCAATAATTTTT
50521010 AAA
1 AAA
50521013 AAAGTCAAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 4 0.15
27 22 0.85
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.36
Consensus pattern (26 bp):
AAACCAAAGGTATTCCAATAATTTTT
Found at i:50521062 original size:27 final size:27
Alignment explanation
Indices: 50521021--50521174 Score: 141
Period size: 27 Copynumber: 5.7 Consensus size: 27
50521011 AAAAAGTCAA
** * * *
50521021 GGGTATTTTTTTAATTTTGTACATTAG
1 GGGTATTTTGGTAATTTTGCAAACTAG
* *
50521048 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTGCAAACTAG
* *
50521074 AGGGTATTTCGGTAATTTCT-CAAACCAG
1 -GGGTATTTTGGTAATTT-TGCAAACTAG
* * *
50521102 TGGTATTTTTGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTGCAAACTAG
* *
50521129 GGGTATTTTGGTAATTTTGTAAACTAA
1 GGGTATTTTGGTAATTTTGCAAACTAG
*
50521156 GGGTATTTTAGTAATTTTG
1 GGGTATTTTGGTAATTTTG
50521175 TAAATCGAGG
Statistics
Matches: 104, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
26 3 0.03
27 99 0.95
28 2 0.02
ACGTcount: A:0.27, C:0.06, G:0.21, T:0.46
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTGCAAACTAG
Found at i:50521159 original size:81 final size:81
Alignment explanation
Indices: 50521022--50521172 Score: 203
Period size: 81 Copynumber: 1.9 Consensus size: 81
50521012 AAAAGTCAAG
* ** * * * * *
50521022 GGTATTTTTTTAATTTTGTACATTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGT
1 GGTATTTTTGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGT
50521087 AATTTCTCAAACCAGT
66 AATTTCTCAAACCAGT
** *
50521103 GGTATTTTTGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTAGT
1 GGTATTTTTGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGT
50521168 AATTT
66 AATTT
50521173 TGTAAATCGA
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 59 1.00
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.46
Consensus pattern (81 bp):
GGTATTTTTGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGT
AATTTCTCAAACCAGT
Found at i:50521161 original size:54 final size:54
Alignment explanation
Indices: 50521020--50521187 Score: 162
Period size: 54 Copynumber: 3.1 Consensus size: 54
50521010 AAAAAAGTCA
** * * * * *
50521020 AGGGTATTTTTTTAATTTTGTACATTAGGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTAGTAATTTTACAAATAG
* * * *
50521074 AGGGTATTTCGGTAATTTCT-CAAAC-CAGTGGTATTTTTGTAATTTTACAAACTAG
1 AGGGTATTTTGGTAATTT-TGTAAACTAAG-GGTATTTTAGTAATTTTACAAA-TAG
** *
50521129 -GGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTAGTAATTTTACAAATAG
50521182 AGGGTA
1 AGGGTA
50521188 AAACGGTAAT
Statistics
Matches: 91, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
53 4 0.04
54 82 0.90
55 5 0.05
ACGTcount: A:0.28, C:0.07, G:0.21, T:0.44
Consensus pattern (54 bp):
AGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTAGTAATTTTACAAATAG
Found at i:50521175 original size:27 final size:27
Alignment explanation
Indices: 50520965--50521178 Score: 119
Period size: 27 Copynumber: 7.8 Consensus size: 27
50520955 AGAAACCAAA
* * *
50520965 GGTATTTCAGTAATTTTGTAAACCAAT
1 GGTATTTTAGTAATTTTGTAAACTAAG
** * *
50520992 GGTATTCCAATAATTTT-TAAAAAAGTCAAG
1 GGTATTTTAGTAATTTTGT---AAACT-AAG
** * * *
50521022 GGTATTTTTTTAATTTTGTACATTAGG
1 GGTATTTTAGTAATTTTGTAAACTAAG
* ** * *
50521049 GGTATTTTGGTAATTTTACAAATTGAG
1 GGTATTTTAGTAATTTTGTAAACTAAG
** * *
50521076 GGTATTTCGGTAATTTCT-CAAAC-CAG
1 GGTATTTTAGTAATTT-TGTAAACTAAG
* ** *
50521102 TGGTATTTTTGTAATTTTACAAACTAGG
1 -GGTATTTTAGTAATTTTGTAAACTAAG
*
50521130 GGTATTTTGGTAATTTTGTAAACTAAG
1 GGTATTTTAGTAATTTTGTAAACTAAG
50521157 GGTATTTTAGTAATTTTGTAAA
1 GGTATTTTAGTAATTTTGTAAA
50521179 TCGAGGGTAA
Statistics
Matches: 147, Mismatches: 31, Indels: 18
0.75 0.16 0.09
Matches are distributed among these distances:
26 4 0.03
27 119 0.81
28 5 0.03
29 3 0.02
30 15 0.10
31 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.43
Consensus pattern (27 bp):
GGTATTTTAGTAATTTTGTAAACTAAG
Found at i:50521196 original size:27 final size:27
Alignment explanation
Indices: 50521166--50521321 Score: 199
Period size: 27 Copynumber: 5.8 Consensus size: 27
50521156 GGGTATTTTA
* *
50521166 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCAAGGGTAAAACG
*
50521193 GTAATTCTGTAAATCGAA-GGTAAAACA
1 GTAATTCTGTAAATC-AAGGGTAAAACG
* *
50521220 GTAATTCTGTAAATTAAGGGTAAAATG
1 GTAATTCTGTAAATCAAGGGTAAAACG
* *
50521247 GTAATTCTATAAATTAAGGGTAAAACG
1 GTAATTCTGTAAATCAAGGGTAAAACG
*
50521274 ATAA-TCTGTAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCAAGGGTAAAACG
* *
50521300 GTAATTCTGTATATCGAGGGTA
1 GTAATTCTGTAAATCAAGGGTA
50521322 CTTTGGTAAT
Statistics
Matches: 112, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
26 25 0.22
27 86 0.77
28 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCAAGGGTAAAACG
Done.