Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 190 of 325
Found at i:60121294 original size:52 final size:52
Alignment explanation
Indices: 60121172--60121327 Score: 264
Period size: 52 Copynumber: 3.1 Consensus size: 52
60121162 GCCTAGCCTC
60121172 TTTTAAT-AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCT
1 TTTTAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCT
* *
60121221 TTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAATCCCT
1 TTTTAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCT
*
60121273 TTTTAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGAGGCATAAGCCCT
1 TTTTAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCT
60121325 TTT
1 TTT
60121328 GCACTTCCTC
Statistics
Matches: 99, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
49 6 0.06
50 10 0.10
51 25 0.25
52 58 0.59
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (52 bp):
TTTTAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCT
Found at i:60122190 original size:27 final size:27
Alignment explanation
Indices: 60122129--60122192 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
60122119 GGCATATTCA
60122129 TCATTTTACCATACAAGGGTATTACGG
1 TCATTTTACCATACAAGGGTATTACGG
* * *
60122156 TCACTTTACCCTACAGGGGCT-TTACGG
1 TCATTTTACCATACAAGGG-TATTACGG
*
60122183 TCTTTTTACC
1 TCATTTTACC
60122193 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (27 bp):
TCATTTTACCATACAAGGGTATTACGG
Found at i:60122355 original size:27 final size:26
Alignment explanation
Indices: 60122225--60122376 Score: 133
Period size: 27 Copynumber: 5.7 Consensus size: 26
60122215 TCATCCTACA
* * * *
60122225 AGGGTGTTTTGGTAAATCTACAAATCA
1 AGGGTATTTTGGTAATTTTACAAA-CT
* ** *
60122252 AGGGTATTTTTGTAATTTTGTAAATT
1 AGGGTATTTTGGTAATTTTACAAACT
*
60122278 AGGGGTATTTTGGTAATTTTACAAATT
1 A-GGGTATTTTGGTAATTTTACAAACT
* * * *
60122305 GAGGGTATTTCGATAATTTCACAAACC
1 -AGGGTATTTTGGTAATTTTACAAACT
60122332 AGTGGTATTTTGGTAATTTTACAAACT
1 AG-GGTATTTTGGTAATTTTACAAACT
*
60122359 AGGGGTGTTTTGGTAATT
1 A-GGGTATTTTGGTAATT
60122377 CTACCCTATA
Statistics
Matches: 100, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
26 3 0.03
27 95 0.95
28 2 0.02
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.41
Consensus pattern (26 bp):
AGGGTATTTTGGTAATTTTACAAACT
Found at i:60122392 original size:81 final size:81
Alignment explanation
Indices: 60122254--60122409 Score: 199
Period size: 81 Copynumber: 1.9 Consensus size: 81
60122244 ACAAATCAAG
* ** * * *
60122254 GGTATTTTTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTC-GA
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACAAATAGAGGGTATTTCAG-
60122318 TAATTTCACAAACCAGT
65 TAATTTCACAAACCAGT
* **
60122335 GGTATTTTGGTAATTTTACAAACTAGGGGTGTTTTGGTAATTCTACCCTATAG-GGGTATTTCAG
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTA-CAAATAGAGGGTATTTCAG
60122399 TAATTTCACAA
65 TAATTTCACAA
60122410 TCGAGGGTAA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
81 59 0.92
82 5 0.08
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.42
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACAAATAGAGGGTATTTCAGT
AATTTCACAAACCAGT
Found at i:60122438 original size:27 final size:27
Alignment explanation
Indices: 60122408--60122539 Score: 156
Period size: 27 Copynumber: 4.9 Consensus size: 27
60122398 GTAATTTCAC
*
60122408 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
60122435 AATCAAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
60122462 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**** * *
60122489 AATCGAGGGTACTTTGGTAATTTTGTC
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
60122516 AATCGAGGGTAAAATGGTAATTCT
1 AATCGAGGGTAAAACGGTAATTCT
60122540 ATCTTACAGG
Statistics
Matches: 88, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 88 1.00
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:60122566 original size:54 final size:55
Alignment explanation
Indices: 60122388--60122541 Score: 147
Period size: 54 Copynumber: 2.9 Consensus size: 55
60122378 TACCCTATAG
* * * * *
60122388 GGGTA-TTTCAGTAA-TTT-CACAATCGAGGGTAAAACGGTAATTTTGTAAATCAA
1 GGGTACTTTCAGTAATTTTGTA-AATCGAGGGTAAAACAGTAATTCTATAAATCGA
*** *
60122441 GGGTA-AAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGA
1 GGGTACTTTCAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGA
* * **
60122495 GGGTACTTT-GGTAATTTTGTCAATCGAGGGTAAAATGGTAATTCTAT
1 GGGTACTTTCAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTAT
60122542 CTTACAGGAG
Statistics
Matches: 81, Mismatches: 17, Indels: 5
0.79 0.17 0.05
Matches are distributed among these distances:
53 11 0.14
54 69 0.85
55 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.22, T:0.32
Consensus pattern (55 bp):
GGGTACTTTCAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGA
Found at i:60122613 original size:27 final size:28
Alignment explanation
Indices: 60122551--60122779 Score: 150
Period size: 27 Copynumber: 8.1 Consensus size: 28
60122541 TCTTACAGGA
60122551 GTATTTCAGTAATTTTACAAAATCGAGG
1 GTATTTCAGTAATTTTACAAAATCGAGG
* *
60122579 GTATTTCAGTAATTTTTCAAACT-GAGG
1 GTATTTCAGTAATTTTACAAAATCGAGG
*
60122606 GTGTTTCAGTAATTTTAC-AAATCGAGG
1 GTATTTCAGTAATTTTACAAAATCGAGG
* * * *
60122633 ATATTTGGGTACTTTGGTAATTTTAC-AAGTCAAGG
1 GTA-TT---T-C---AGTAATTTTACAAAATCGAGG
*
60122668 GTATTTCAGTAATTTTAC-AAATCAGGGG
1 GTATTTCAGTAATTTTACAAAATC-GAGG
* *
60122696 GTATTTTAGTAATTTTAC-AAA-CCAGGG
1 GTATTTCAGTAATTTTACAAAATCGA-GG
** ** * *
60122723 GTATTTTGGTAATTTT-GTAAACCAAGG
1 GTATTTCAGTAATTTTACAAAATCGAGG
* *
60122750 GTATTTCAGTAATTTTA-TAAATTGAGG
1 GTATTTCAGTAATTTTACAAAATCGAGG
60122777 GTA
1 GTA
60122780 AAATGGTAAT
Statistics
Matches: 161, Mismatches: 26, Indels: 29
0.75 0.12 0.13
Matches are distributed among these distances:
26 3 0.02
27 86 0.53
28 47 0.29
30 1 0.01
31 2 0.01
32 1 0.01
34 2 0.01
35 19 0.12
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (28 bp):
GTATTTCAGTAATTTTACAAAATCGAGG
Found at i:60122725 original size:55 final size:54
Alignment explanation
Indices: 60122639--60122766 Score: 139
Period size: 55 Copynumber: 2.4 Consensus size: 54
60122629 GAGGATATTT
* * ** * *
60122639 GGGTACTTTGGTAATTTTACAAGTCAAGGGTATTTCAGTAATTTTACAAATCAGG
1 GGGTATTTTAGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAACCA-A
* ** **
60122694 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAACCAA
*
60122748 GGGTATTTCAGTAATTTTA
1 GGGTATTTTAGTAATTTTA
60122767 TAAATTGAGG
Statistics
Matches: 61, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
54 18 0.30
55 43 0.70
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAACCAA
Found at i:60122728 original size:90 final size:90
Alignment explanation
Indices: 60122559--60122742 Score: 228
Period size: 90 Copynumber: 2.0 Consensus size: 90
60122549 GAGTATTTCA
* * * *
60122559 GTAATTTTACAAAATCGAGGGTATTTCAGTAATTTTTCAAACTGAGGGTGTTTCAGTAATTTTAC
1 GTAATTTTACAAAATCAAGGGTATTTCAGTAATTTTACAAACAGAGGGTATTTCAGTAATTTTAC
* *
60122624 AAATCGAGGATATTTGGGTACTTTG
66 AAACCGAGGATATTTGGGTAATTTG
* * *
60122649 GTAATTTTAC-AAGTCAAGGGTATTTCAGTAATTTTACAAATCAGGGGGTATTTTAGTAATTTTA
1 GTAATTTTACAAAATCAAGGGTATTTCAGTAATTTTACAAA-CAGAGGGTATTTCAGTAATTTTA
* * *
60122713 CAAACC-AGGGGTATTTTGGTAATTTT
65 CAAACCGA-GGATATTTGGGTAATTTG
60122739 GTAA
1 GTAA
60122743 ACCAAGGGTA
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
89 28 0.35
90 52 0.65
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (90 bp):
GTAATTTTACAAAATCAAGGGTATTTCAGTAATTTTACAAACAGAGGGTATTTCAGTAATTTTAC
AAACCGAGGATATTTGGGTAATTTG
Found at i:60122779 original size:54 final size:54
Alignment explanation
Indices: 60122694--60122844 Score: 142
Period size: 54 Copynumber: 2.8 Consensus size: 54
60122684 ACAAATCAGG
* * * *** *
60122694 GGGTATTTTAGTAATTTTACAAA-CCAGGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTCAGTAATTTTATAAATCGA-GGGTAAAATGGTAATTCTGTAAACCAA
* * *
60122748 GGGTATTTCAGTAATTTTATAAATTGAGGGTAAAATGGTAATTCTGTAAATCGA
1 GGGTATTTCAGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTGTAAACCAA
** * * * *
60122802 GGGTAAGTCGGTAATTCTGTAAATCGAGGGTAAAATAGTAATT
1 GGGTATTTCAGTAATTTTATAAATCGAGGGTAAAATGGTAATT
60122845 TTATAAATCG
Statistics
Matches: 79, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
54 78 0.99
55 1 0.01
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTGTAAACCAA
Found at i:60122788 original size:27 final size:27
Alignment explanation
Indices: 60122758--60122900 Score: 171
Period size: 27 Copynumber: 5.3 Consensus size: 27
60122748 GGGTATTTCA
* * *
60122758 GTAATTTTATAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
60122785 GTAATTCTGTAAATCGAGGGT-AAGTCG
1 GTAATTCTGTAAATCGAGGGTAAAAT-G
*
60122812 GTAATTCTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * * *
60122839 GTAATTTTATAAATCGAGGTTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
60122866 ATAATTCTGTCAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
60122893 GTAATTCT
1 GTAATTCT
60122901 ATCTTACAGG
Statistics
Matches: 96, Mismatches: 18, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
26 3 0.03
27 90 0.94
28 3 0.03
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.33
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATG
Found at i:60122823 original size:81 final size:81
Alignment explanation
Indices: 60122730--60122888 Score: 212
Period size: 81 Copynumber: 2.0 Consensus size: 81
60122720 GGGGTATTTT
* ** * * *
60122730 GGTAATTTTGTAAACCAAGGGT-ATTTCAGTAATTTTATAAATTGAGGGTAAAATGGTAATTCTG
1 GGTAATTCTGTAAACCAAGGGTAAAAT-AGTAATTTTATAAATCGAGGGTAAAACGATAATTCTG
60122794 TAAATCGAGGGTAAGTC
65 TAAATCGAGGGTAAGTC
* * *
60122811 GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTATAAATCGAGGTTAAAACGATAATTCTGT
1 GGTAATTCTGTAAACCAAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACGATAATTCTGT
*
60122876 CAATCGAGGGTAA
66 AAATCGAGGGTAA
60122889 AATGGTAATT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
81 65 0.97
82 2 0.03
ACGTcount: A:0.36, C:0.08, G:0.23, T:0.33
Consensus pattern (81 bp):
GGTAATTCTGTAAACCAAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACGATAATTCTGT
AAATCGAGGGTAAGTC
Found at i:60122852 original size:54 final size:54
Alignment explanation
Indices: 60122729--60122898 Score: 196
Period size: 54 Copynumber: 3.1 Consensus size: 54
60122719 AGGGGTATTT
* * ** * * * *
60122729 TGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTATAAATTGAGGGTAAAA
1 TGGTAATTTTGTAAATCGAGGGTAAATCGGTAATTCTGTAAATCGAGGGTAAAA
* *
60122783 TGGTAATTCTGTAAATCGAGGGTAAGTCGGTAATTCTGTAAATCGAGGGTAAAA
1 TGGTAATTTTGTAAATCGAGGGTAAATCGGTAATTCTGTAAATCGAGGGTAAAA
* * * * * *
60122837 TAGTAATTTTATAAATCGAGGTTAAAACGATAATTCTGTCAATCGAGGGTAAAA
1 TGGTAATTTTGTAAATCGAGGGTAAATCGGTAATTCTGTAAATCGAGGGTAAAA
60122891 TGGTAATT
1 TGGTAATT
60122899 CTATCTTACA
Statistics
Matches: 98, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 98 1.00
ACGTcount: A:0.36, C:0.08, G:0.22, T:0.34
Consensus pattern (54 bp):
TGGTAATTTTGTAAATCGAGGGTAAATCGGTAATTCTGTAAATCGAGGGTAAAA
Found at i:60122922 original size:81 final size:81
Alignment explanation
Indices: 60122747--60122942 Score: 200
Period size: 81 Copynumber: 2.4 Consensus size: 81
60122737 TTGTAAACCA
* * * * *
60122747 AGGGTATTTCAGTAATTTTATAAATTGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAGTCG
1 AGGGTATTTTAGTAATTTTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAATCG
*
60122812 GTAATTCTGTAAATCG
66 GTAATTCTATAAATCG
*** * *
60122828 AGGGTAAAATAGTAATTTTATAAATCGAGGTTAAAACGATAATTCTGTCAATCGAGGGTAAAAT-
1 AGGGTATTTTAGTAATTTTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGT-AAATC
**
60122892 GGTAATTCTAT-CTTAC-
65 GGTAATTCTATAAAT-CG
* *
60122908 AGGAGTATTTTAGTAATTTTACAAAAGCGAGGGTA
1 AGG-GTATTTTAGTAATTTTA-TAAATCGAGGGTA
60122943 TTTCAGTAAT
Statistics
Matches: 92, Mismatches: 19, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
80 4 0.04
81 75 0.82
82 13 0.14
ACGTcount: A:0.36, C:0.08, G:0.22, T:0.33
Consensus pattern (81 bp):
AGGGTATTTTAGTAATTTTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAATCG
GTAATTCTATAAATCG
Found at i:60128745 original size:15 final size:15
Alignment explanation
Indices: 60128725--60128759 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
60128715 TTCTAATACT
60128725 ATTATTATTTATCTA
1 ATTATTATTTATCTA
60128740 ATTATTATTTATCTA
1 ATTATTATTTATCTA
*
60128755 TTTAT
1 ATTAT
60128760 ATACTAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTATCTA
Found at i:60128923 original size:24 final size:22
Alignment explanation
Indices: 60128885--60128941 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 22
60128875 TTTAAAACTT
*
60128885 TTATTATTATTATTATATTTCTA
1 TTATTATT-TTATTAAATTTCTA
*
60128908 TGTATTATTTTAATTAAATTTTTA
1 T-TATTATTTT-ATTAAATTTCTA
*
60128932 TTAATATTTT
1 TTATTATTTT
60128942 TTTTATTTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 11 0.38
24 18 0.62
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (22 bp):
TTATTATTTTATTAAATTTCTA
Found at i:60134368 original size:11 final size:11
Alignment explanation
Indices: 60134342--60134390 Score: 62
Period size: 11 Copynumber: 4.5 Consensus size: 11
60134332 TAAACTGAAA
60134342 CACCACCATAC
1 CACCACCATAC
* * *
60134353 AACCACAATAT
1 CACCACCATAC
60134364 CACCACCATAC
1 CACCACCATAC
*
60134375 CACCACCATAG
1 CACCACCATAC
60134386 CACCA
1 CACCA
60134391 TCGTACCGCC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.41, C:0.47, G:0.02, T:0.10
Consensus pattern (11 bp):
CACCACCATAC
Found at i:60134397 original size:22 final size:22
Alignment explanation
Indices: 60134342--60134390 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
60134332 TAAACTGAAA
* * *
60134342 CACCACCATACAACCACAATAT
1 CACCACCATACCACCACCATAG
60134364 CACCACCATACCACCACCATAG
1 CACCACCATACCACCACCATAG
60134386 CACCA
1 CACCA
60134391 TCGTACCGCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.41, C:0.47, G:0.02, T:0.10
Consensus pattern (22 bp):
CACCACCATACCACCACCATAG
Found at i:60139484 original size:21 final size:21
Alignment explanation
Indices: 60139459--60139505 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
60139449 AAATCAATAG
60139459 TTTTCAAATGAAATCTTTTTA
1 TTTTCAAATGAAATCTTTTTA
60139480 TTTTCAAATGAAATCTTTTTA
1 TTTTCAAATGAAATCTTTTTA
60139501 TTTTC
1 TTTTC
60139506 GGTAAACCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.04, T:0.55
Consensus pattern (21 bp):
TTTTCAAATGAAATCTTTTTA
Found at i:60169963 original size:22 final size:22
Alignment explanation
Indices: 60169925--60169997 Score: 103
Period size: 22 Copynumber: 3.3 Consensus size: 22
60169915 AGCACTATTA
*
60169925 AGCTGAAACGGTAAGCTC-TGACG
1 AGCTG-AACAGTAAGCTCAT-ACG
60169948 AGCTGAACAGTAAGCTCATACG
1 AGCTGAACAGTAAGCTCATACG
*
60169970 AGCTGAACAGTAAGCTCATACT
1 AGCTGAACAGTAAGCTCATACG
60169992 AGCTGA
1 AGCTGA
60169998 GAATAGATAG
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
22 41 0.87
23 6 0.13
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (22 bp):
AGCTGAACAGTAAGCTCATACG
Found at i:60174745 original size:38 final size:38
Alignment explanation
Indices: 60174697--60174895 Score: 301
Period size: 38 Copynumber: 5.3 Consensus size: 38
60174687 GGCTCAAAGG
* * * *
60174697 CCCGAATATAATACCAGCACTAGGCCTGCAGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
60174735 CCCGGATATAATACCAGCAAGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
60174773 CCCGAATATAATACC-GCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
60174810 CCTGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
60174848 CCAGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
60174886 CCCGGATATA
1 CCCGGATATA
60174896 CATCGAATAT
Statistics
Matches: 148, Mismatches: 12, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
37 33 0.22
38 115 0.78
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.21
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:60174810 original size:75 final size:76
Alignment explanation
Indices: 60174697--60174895 Score: 310
Period size: 75 Copynumber: 2.6 Consensus size: 76
60174687 GGCTCAAAGG
* * *
60174697 CCCGAATATAATACCAGCACTAGGCCTGCAGGATTTAACCCGGATATAATACCAGCAAGAAGCCT
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCAAGAAGCCT
60174762 GCGGGATTTAA
66 GCGGGATTTAA
* * *
60174773 CCCGAATATAATACC-GCACGAAGCCTGCGGGATTTAACCTGGATATATTACCAGCACGAAGCCT
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCAAGAAGCCT
60174837 GCGGGATTTAA
66 GCGGGATTTAA
* * *
60174848 CCAGGATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATA
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATA
60174896 CATCGAATAT
Statistics
Matches: 112, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
75 66 0.59
76 46 0.41
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.21
Consensus pattern (76 bp):
CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCAAGAAGCCT
GCGGGATTTAA
Found at i:60179450 original size:55 final size:55
Alignment explanation
Indices: 60179366--60179474 Score: 200
Period size: 55 Copynumber: 2.0 Consensus size: 55
60179356 TGGCGTCAAT
60179366 TTCAAGGATAAGATCAAGTAGTTTATGTTTGAATTTCAAATTTCAAATACAAGGC
1 TTCAAGGATAAGATCAAGTAGTTTATGTTTGAATTTCAAATTTCAAATACAAGGC
* *
60179421 TTCAAGGATAAGATCAAGTAGTTTGTGTTTGAATTTTAAATTTCAAATACAAGG
1 TTCAAGGATAAGATCAAGTAGTTTATGTTTGAATTTCAAATTTCAAATACAAGG
60179475 TTGCCATACA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (55 bp):
TTCAAGGATAAGATCAAGTAGTTTATGTTTGAATTTCAAATTTCAAATACAAGGC
Found at i:60185972 original size:55 final size:55
Alignment explanation
Indices: 60185888--60185997 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
60185878 TTGGCGTCAA
60185888 CTTCAAGGATAAGATCAACTAGTTTGTGTTTGAATTTCAAATTTCAAATACAAGG
1 CTTCAAGGATAAGATCAACTAGTTTGTGTTTGAATTTCAAATTTCAAATACAAGG
*
60185943 CTTCAAGGATAAGATCAAGTAGTTTGTGTTTGAATTTCAAATTTCAAATACAAGG
1 CTTCAAGGATAAGATCAACTAGTTTGTGTTTGAATTTCAAATTTCAAATACAAGG
60185998 TTACCATACA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (55 bp):
CTTCAAGGATAAGATCAACTAGTTTGTGTTTGAATTTCAAATTTCAAATACAAGG
Found at i:60191515 original size:14 final size:15
Alignment explanation
Indices: 60191493--60191522 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
60191483 GAATATTAGA
60191493 ACATGAATTAAGAAC
1 ACATGAATTAAGAAC
60191508 ACAT-AATTAAGAAC
1 ACATGAATTAAGAAC
60191522 A
1 A
60191523 AGTCAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.57, C:0.13, G:0.10, T:0.20
Consensus pattern (15 bp):
ACATGAATTAAGAAC
Found at i:60202643 original size:40 final size:40
Alignment explanation
Indices: 60202413--60202636 Score: 269
Period size: 40 Copynumber: 5.6 Consensus size: 40
60202403 TGAATGATGT
* * * * *
60202413 CCGGGCTAAGTCCGGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
60202453 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
* *
60202493 CCGAGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
60202531 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
60202572 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
60202612 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
60202637 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
39 34 0.21
40 118 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:60202658 original size:119 final size:119
Alignment explanation
Indices: 60202412--60202669 Score: 283
Period size: 119 Copynumber: 2.2 Consensus size: 119
60202402 TTGAATGATG
* * *
60202412 TCCGGGCTAAGTCCGGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
* * **
60202477 GTGCGAGTTACTAATTCCGAGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGTCACTAATACCGAGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * *
60202531 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
* * * *
60202594 TTGTGCGAGTCACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGTCACTAAT-ACCGAGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
60202651 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
60202670 TACGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 83 0.71
120 31 0.26
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GTGCGAGTCACTAATACCGAGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:60205490 original size:50 final size:49
Alignment explanation
Indices: 60205427--60205563 Score: 177
Period size: 50 Copynumber: 2.8 Consensus size: 49
60205417 ATATGGTGTT
* * *
60205427 AATATGAGTTCCCAAGTAAGACCATGTTTGGGATATGGCATTGGCATCT
1 AATATGAGATCCCATGTAAGACCATGTTTGGGATATGGCATTGGCATCG
* *
60205476 ACATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
1 A-ATATGAGATCCCATGTAAGACCATGTTTGGGATATGGCATTGGCATCG
* * * *
60205526 AGT-GGTGATCCCATGTAAGACCATATTTGGGATATGGC
1 AATATGAGATCCCATGTAAGACCATGTTTGGGATATGGC
60205564 GTTGATATCT
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
48 30 0.39
49 2 0.03
50 44 0.58
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (49 bp):
AATATGAGATCCCATGTAAGACCATGTTTGGGATATGGCATTGGCATCG
Found at i:60208262 original size:17 final size:17
Alignment explanation
Indices: 60208240--60208278 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
60208230 GGGCTAAATG
60208240 GGCCACACGAGCATGTA
1 GGCCACACGAGCATGTA
*
60208257 GGCCACACGAGCGTGTA
1 GGCCACACGAGCATGTA
60208274 GGCCA
1 GGCCA
60208279 TTTGGGCTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.26, C:0.31, G:0.33, T:0.10
Consensus pattern (17 bp):
GGCCACACGAGCATGTA
Found at i:60208434 original size:27 final size:27
Alignment explanation
Indices: 60208403--60208734 Score: 459
Period size: 27 Copynumber: 12.3 Consensus size: 27
60208393 TAAACTAGGC
* **
60208403 AAAATGACCGTAATGCCCCTATAACGT
1 AAAATGACCGTAATGCCCCTGTAGGGT
60208430 AAAATGACCGTAATGCCCCTGTAGGGT
1 AAAATGACCGTAATGCCCCTGTAGGGT
* * *
60208457 AAAATGATCGTAATACCCCTGTAAGGT
1 AAAATGACCGTAATGCCCCTGTAGGGT
*
60208484 AAAATGACCGTAATGCCGCTGTAGGGT
1 AAAATGACCGTAATGCCCCTGTAGGGT
*
60208511 AAAATGACCGTAATACCCCTGTAGGGT
1 AAAATGACCGTAATGCCCCTGTAGGGT
60208538 AAAATGACCGTAATGCCCCTGTAGGGT
1 AAAATGACCGTAATGCCCCTGTAGGGT
* *
60208565 AAAATGACCATAATGCCCCTATAGGGT
1 AAAATGACCGTAATGCCCCTGTAGGGT
*
60208592 AAAATGACCGTAATGCCCCTGTATGGT
1 AAAATGACCGTAATGCCCCTGTAGGGT
*
60208619 AAAATGACCGTAATGCCCCTGTATGGT
1 AAAATGACCGTAATGCCCCTGTAGGGT
* * *
60208646 AAAATGACTGTAATGCCCCTATAGGAT
1 AAAATGACCGTAATGCCCCTGTAGGGT
* * *
60208673 AAAATGATCGTAATGCCCCTATATGGT
1 AAAATGACCGTAATGCCCCTGTAGGGT
* * *
60208700 AAAATGACTGTAATACCCCT-TCATGGT
1 AAAATGACCGTAATGCCCCTGT-AGGGT
60208727 AAAATGAC
1 AAAATGAC
60208735 GATTATGCCC
Statistics
Matches: 275, Mismatches: 29, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
26 1 0.00
27 274 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (27 bp):
AAAATGACCGTAATGCCCCTGTAGGGT
Found at i:60209133 original size:33 final size:33
Alignment explanation
Indices: 60209091--60209183 Score: 116
Period size: 32 Copynumber: 2.8 Consensus size: 33
60209081 CCCACACTTT
* * *
60209091 TACTGTATAGGACTAAGGCCCAGATTGTACTGC
1 TACTGTATAGGGCTAAAGCCCAGATTGTACCGC
* * * *
60209124 TACTGTATAGGGCT-ATGCCCGGACTGTACCGG
1 TACTGTATAGGGCTAAAGCCCAGATTGTACCGC
60209156 TACTGTATAGGGCTAAAGCCCAGATTGT
1 TACTGTATAGGGCTAAAGCCCAGATTGT
60209184 TTTGCATATT
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
32 27 0.54
33 23 0.46
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (33 bp):
TACTGTATAGGGCTAAAGCCCAGATTGTACCGC
Found at i:60210763 original size:26 final size:27
Alignment explanation
Indices: 60210734--60210787 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
60210724 TCACACAAGT
*
60210734 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
60210760 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
60210787 T
1 T
60210788 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:60210819 original size:27 final size:27
Alignment explanation
Indices: 60210789--60210988 Score: 256
Period size: 27 Copynumber: 7.4 Consensus size: 27
60210779 GGGCAAAATG
* * * *
60210789 GTAATTTTACCCGACAAGGGTATCTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
60210816 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
60210843 GTATTTCTACCCTATAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
60210870 GTAATTCTATCCTACAAGGGGTATTTCG
1 GTAATTCTACCCTAC-AGGGGTATTTCA
60210898 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
60210925 ATAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
60210952 GTAATTCTACCTTATAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
60210979 GTAATTCTAC
1 GTAATTCTAC
60210989 AACTTATTCA
Statistics
Matches: 155, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
27 129 0.83
28 26 0.17
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:60210968 original size:109 final size:109
Alignment explanation
Indices: 60210788--60210987 Score: 319
Period size: 109 Copynumber: 1.8 Consensus size: 109
60210778 GGGGCAAAAT
* * * *
60210788 GGTAATTTTACCCGACAAGGGTATCTCAGTAATTCTACCCTATAGGGGTATTTCAGTATTTCTAC
1 GGTAATTCTACCCGACAAGGGTATCTCAATAATTCTACCCTACAGGGGTATTTCAGTAATTCTAC
60210853 CCTATAGGGGTATTTCGGTAATTCTATCCTACAAGGGGTATTTC
66 CCTATAGGGGTATTTCGGTAATTCTATCCTACAAGGGGTATTTC
* * * *
60210897 GGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
1 GGTAATTCTACCCGACAAGGGTATCTCAATAATTCTACCCTACAGGGGTATTTCAGTAATTCTAC
*
60210962 CTTATAGGGGTATTTCGGTAATTCTA
66 CCTATAGGGGTATTTCGGTAATTCTA
60210988 CAACTTATTC
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
109 82 1.00
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (109 bp):
GGTAATTCTACCCGACAAGGGTATCTCAATAATTCTACCCTACAGGGGTATTTCAGTAATTCTAC
CCTATAGGGGTATTTCGGTAATTCTATCCTACAAGGGGTATTTC
Found at i:60213267 original size:42 final size:46
Alignment explanation
Indices: 60213220--60213339 Score: 124
Period size: 48 Copynumber: 2.7 Consensus size: 46
60213210 TTATCTTATT
*
60213220 AGACCATATCTGGGATATGGCATT-G-AT-A-TG-AGATCCGATGTA
1 AGACCATATCTGGGATATGGCATTGGCATCAGTGCA-ATCCCATGTA
* * *
60213262 AGACCATGTCTAGGACATGGCATTGGCATCGAGTGCTAATCCCATGTA
1 AGACCATATCTGGGATATGGCATTGGCATC-AGTGC-AATCCCATGTA
* *
60213310 GGACCATATCTGGGATATGGCGTTGGCATC
1 AGACCATATCTGGGATATGGCATTGGCATC
60213340 TTATTATGTG
Statistics
Matches: 62, Mismatches: 9, Indels: 8
0.78 0.11 0.10
Matches are distributed among these distances:
42 21 0.34
43 1 0.02
44 2 0.03
46 1 0.02
47 2 0.03
48 34 0.55
49 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.27
Consensus pattern (46 bp):
AGACCATATCTGGGATATGGCATTGGCATCAGTGCAATCCCATGTA
Found at i:60217395 original size:6 final size:6
Alignment explanation
Indices: 60217365--60217532 Score: 94
Period size: 6 Copynumber: 27.3 Consensus size: 6
60217355 AAGAAACATT
* *
60217365 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * * *
60217413 ATCAGA ATTA-A GTGACAAA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA
1 ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* * * * * *
60217463 ATTAGA ATCAAA ATCAGA ATTAG- GTGACAGA ATCAAA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCA-G-A
*
60217514 A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA AT
60217533 GTGAATGCAA
Statistics
Matches: 121, Mismatches: 27, Indels: 28
0.69 0.15 0.16
Matches are distributed among these distances:
5 8 0.07
6 98 0.81
7 10 0.08
8 5 0.04
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:60217438 original size:31 final size:31
Alignment explanation
Indices: 60217400--60217510 Score: 100
Period size: 31 Copynumber: 3.6 Consensus size: 31
60217390 TCAGAATCAG
60217400 AATCAGAATCAGAATCAGAATTAAGTGACAA
1 AATCAGAATCAGAATCAGAATTAAGTGACAA
* * * *
60217431 AATCAGAATCAGTATCAG-GTAACAG-AATCAA
1 AATCAGAATCAGAATCAGAATTA-AGTGA-CAA
* * * *
60217462 AATTAGAATCAAAATCAGAATTAGGTGACAG
1 AATCAGAATCAGAATCAGAATTAAGTGACAA
* *
60217493 AATCAAAATCAGTATCAG
1 AATCAGAATCAGAATCAG
60217511 GTAACAGAAT
Statistics
Matches: 60, Mismatches: 16, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
30 3 0.05
31 54 0.90
32 3 0.05
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.21
Consensus pattern (31 bp):
AATCAGAATCAGAATCAGAATTAAGTGACAA
Found at i:60217459 original size:25 final size:24
Alignment explanation
Indices: 60217386--60217472 Score: 86
Period size: 25 Copynumber: 3.5 Consensus size: 24
60217376 AATCAAAATG
60217386 AGAATCAGAATCAG-AATCAGAATC
1 AGAATCAGAATCAGTAA-CAGAATC
* * *
60217410 AGAATCAGAATTAAGTGACAAAATC
1 AGAATCAGAA-TCAGTAACAGAATC
*
60217435 AGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCA-GTAACAGAATC
* *
60217460 AAAATTAGAATCA
1 AGAATCAGAATCA
60217473 AAATCAGAAT
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
24 12 0.24
25 37 0.74
26 1 0.02
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.20
Consensus pattern (24 bp):
AGAATCAGAATCAGTAACAGAATC
Found at i:60217459 original size:62 final size:62
Alignment explanation
Indices: 60217391--60217532 Score: 230
Period size: 62 Copynumber: 2.3 Consensus size: 62
60217381 AAATGAGAAT
* * *
60217391 CAGAATCAGAATCAGAATCAGAATCAGAATTAAGTGACAAAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAAAATCAGAATTAAGTGACAAAATCAAAATCAGTATCAGGTAA
* * *
60217453 CAGAATCAAAATTAGAATCAAAATCAGAATTAGGTGACAGAATCAAAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAAAATCAGAATTAAGTGACAAAATCAAAATCAGTATCAGGTAA
60217515 CAGAATCAAAATCAGAAT
1 CAGAATCAAAATCAGAAT
60217533 GTGAATGCAA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 73 1.00
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (62 bp):
CAGAATCAAAATCAGAATCAAAATCAGAATTAAGTGACAAAATCAAAATCAGTATCAGGTAA
Found at i:60217472 original size:37 final size:37
Alignment explanation
Indices: 60217388--60217510 Score: 117
Period size: 37 Copynumber: 3.3 Consensus size: 37
60217378 TCAAAATGAG
*
60217388 AATCAGAATCAGAATCAGAATCA-G-AATCAGAAT-TA
1 AATCAGAATCAGAATCAGAATCAGGTAA-CAGAATCAA
* * *
60217423 AGTGACAAAATCAGAATCAGTATCAGGTAACAGAATCAA
1 AAT--CAGAATCAGAATCAGAATCAGGTAACAGAATCAA
* * * *
60217462 AATTAGAATCAAAATCAGAATTAGGTGACAGAATCAA
1 AATCAGAATCAGAATCAGAATCAGGTAACAGAATCAA
*
60217499 AATCAGTATCAG
1 AATCAGAATCAG
60217511 GTAACAGAAT
Statistics
Matches: 69, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
35 2 0.03
37 55 0.80
38 7 0.10
39 5 0.07
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (37 bp):
AATCAGAATCAGAATCAGAATCAGGTAACAGAATCAA
Found at i:60217494 original size:25 final size:25
Alignment explanation
Indices: 60217466--60217532 Score: 107
Period size: 25 Copynumber: 2.7 Consensus size: 25
60217456 AATCAAAATT
* *
60217466 AGAATCAAAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGGTAAC
*
60217491 AGAATCAAAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGGTAAC
60217516 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
60217533 GTGAATGCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.51, C:0.13, G:0.16, T:0.19
Consensus pattern (25 bp):
AGAATCAAAATCAGAATCAGGTAAC
Found at i:60217686 original size:27 final size:26
Alignment explanation
Indices: 60217649--60217757 Score: 119
Period size: 27 Copynumber: 4.1 Consensus size: 26
60217639 CAGCATGACT
*
60217649 ACCAGAACAGATATTGTGACAGAGTC
1 ACCAGAACAGATATTGTGACAGAGCC
* *
60217675 ACTAGATACAGATATTGTGGCAGAGCC
1 ACCAGA-ACAGATATTGTGACAGAGCC
* *
60217702 ACCAGAACAGATATTTGTGGCATAGCC
1 ACCAGAACAGATA-TTGTGACAGAGCC
* * *
60217729 ACCAGAAACAGATAATGTGGCAAAGCC
1 ACCAG-AACAGATATTGTGACAGAGCC
60217756 AC
1 AC
60217758 TTAACAGAAT
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 12 0.16
27 53 0.73
28 8 0.11
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (26 bp):
ACCAGAACAGATATTGTGACAGAGCC
Found at i:60217748 original size:54 final size:53
Alignment explanation
Indices: 60217649--60217757 Score: 146
Period size: 54 Copynumber: 2.0 Consensus size: 53
60217639 CAGCATGACT
* * * * *
60217649 ACCAGAACAGATATTGTGACAGAGTCACTAGATACAGATATTGTGGCAGAGCC
1 ACCAGAACAGATATTGTGACAGAGCCACCAGAAACAGATAATGTGGCAAAGCC
* *
60217702 ACCAGAACAGATATTTGTGGCATAGCCACCAGAAACAGATAATGTGGCAAAGCC
1 ACCAGAACAGATA-TTGTGACAGAGCCACCAGAAACAGATAATGTGGCAAAGCC
60217756 AC
1 AC
60217758 TTAACAGAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 13 0.27
54 35 0.73
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (53 bp):
ACCAGAACAGATATTGTGACAGAGCCACCAGAAACAGATAATGTGGCAAAGCC
Found at i:60218321 original size:27 final size:27
Alignment explanation
Indices: 60218263--60218321 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
60218253 ACTTGCCCAC
* *
60218263 AAGGGCAAAATAGTCATTTAACACCCT
1 AAGGGCAAAATAGTAATTTAACACCAT
*
60218290 AAGGGCAAAATGGTAATTTTAAC-CCAT
1 AAGGGCAAAATAGTAA-TTTAACACCAT
*
60218317 GAGGG
1 AAGGG
60218322 TATCTCAGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 21 0.78
28 6 0.22
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (27 bp):
AAGGGCAAAATAGTAATTTAACACCAT
Found at i:60218349 original size:27 final size:27
Alignment explanation
Indices: 60218319--60218658 Score: 448
Period size: 27 Copynumber: 12.6 Consensus size: 27
60218309 TAACCCATGA
* * *
60218319 GGGTATCTCAGTAATTCTACCGTATAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
60218346 GGGTATTTCAGTATTTCTACCCTACAA
1 GGGTATTTCAGTAATTCTACCCTACAG
* * * *
60218373 GGATATTTCGGTAATTTTACCCTATAG
1 GGGTATTTCAGTAATTCTACCCTACAG
*
60218400 GGGTATTTCAGTAATTCTACCCTACAA
1 GGGTATTTCAGTAATTCTACCCTACAG
* ** *
60218427 GGGTATTTCGGTAATTCTACTTTATAG
1 GGGTATTTCAGTAATTCTACCCTACAG
60218454 GGGTATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
60218481 AGGTATTTCAGTAATTCTA-CTTGACAG
1 GGGTATTTCAGTAATTCTACCCT-ACAG
* *
60218508 GGGTATTTAAGTAATTCTACCCTAAAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* ** *
60218535 GGGTATTTCGGTAATTCTACTTTATAG
1 GGGTATTTCAGTAATTCTACCCTACAG
60218562 GGGTATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
60218589 GGGTATTTCAGTAATTCTACCTTACAA
1 GGGTATTTCAGTAATTCTACCCTACAG
60218616 GGGTATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
60218643 GGGTATTTCAGTAATT
1 GGGTATTTCAGTAATT
60218659 TTACAATCGA
Statistics
Matches: 267, Mismatches: 44, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
26 2 0.01
27 263 0.99
28 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (27 bp):
GGGTATTTCAGTAATTCTACCCTACAG
Found at i:60218683 original size:26 final size:27
Alignment explanation
Indices: 60218645--60218695 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
60218635 CCCTACAGGG
*
60218645 GTATTTCAGTAATTTTAC-AATCGACT
1 GTATTTCAATAATTTTACAAATCGACT
60218671 GTATTTCAATAATTTTACAAATCGA
1 GTATTTCAATAATTTTACAAATCGA
60218696 GGATATTTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (27 bp):
GTATTTCAATAATTTTACAAATCGACT
Found at i:60218702 original size:27 final size:26
Alignment explanation
Indices: 60218644--60218703 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
60218634 ACCCTACAGG
*
60218644 GGTATTTCAGTAATTTTACAATCGAC
1 GGTATTTCAATAATTTTACAATCGAC
*
60218670 TGTATTTCAATAATTTTACAAATCGA-
1 GGTATTTCAATAATTTTAC-AATCGAC
60218696 GGATATTT
1 GG-TATTT
60218704 GGGTAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 18 0.62
27 11 0.38
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (26 bp):
GGTATTTCAATAATTTTACAATCGAC
Found at i:60218710 original size:27 final size:27
Alignment explanation
Indices: 60218680--60218744 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
60218670 TGTATTTCAA
*
60218680 TAATTTTACAAATC-GAGGATA-TTTGGG
1 TAATTTTACAAACCTG-GGATACTTT-GG
* *
60218707 TAATTTTATAAACCTGGGGTACTTTGG
1 TAATTTTACAAACCTGGGATACTTTGG
60218734 TAATTTTACAA
1 TAATTTTACAA
60218745 CTGGGGGTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 28 0.88
28 4 0.12
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.40
Consensus pattern (27 bp):
TAATTTTACAAACCTGGGATACTTTGG
Found at i:60220546 original size:17 final size:17
Alignment explanation
Indices: 60220526--60220586 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
60220516 ATTTCAAGAC
60220526 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
** ***
60220543 TTATGTTGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
60220562 CTTATGTAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
60220580 TTATGTA
1 TTATGTA
60220587 GTGACTCATA
Statistics
Matches: 31, Mismatches: 10, Indels: 6
0.66 0.21 0.13
Matches are distributed among these distances:
17 15 0.48
18 4 0.13
19 4 0.13
20 8 0.26
ACGTcount: A:0.30, C:0.03, G:0.15, T:0.52
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:60220562 original size:37 final size:37
Alignment explanation
Indices: 60220521--60220669 Score: 235
Period size: 37 Copynumber: 4.0 Consensus size: 37
60220511 TGTTAATTTC
*
60220521 AAGACTTATGTAATGTTTTTAATTATGTTGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
*
60220558 AAGACTTATGTAATGTTTTTAATTATGTAGTGACTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
* * *
60220595 TAGGCTTATGTAATATTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
**
60220632 AAGACTTACATAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
60220669 A
1 A
60220670 TTTGGGTAAT
Statistics
Matches: 101, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.46
Consensus pattern (37 bp):
AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
Found at i:60221546 original size:26 final size:24
Alignment explanation
Indices: 60221501--60221550 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
60221491 ATTTGTTTTA
*
60221501 ATATTTGTTTTTATGCTTTTAAAT
1 ATATTTGTTTTTATACTTTTAAAT
*
60221525 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATACTTTTAAAT
60221551 TTTTTATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (24 bp):
ATATTTGTTTTTATACTTTTAAAT
Found at i:60227069 original size:82 final size:81
Alignment explanation
Indices: 60226983--60227134 Score: 211
Period size: 82 Copynumber: 1.9 Consensus size: 81
60226973 CCGCAAAAAA
*
60226983 TTGA-GCAATAGCGGCGTTTTTGGTCCA-AA-CGCCGCTATAGATCGAGGTTTTAGCGGCGCTTC
1 TTGAGGCAATAGCGGCG-TTTT--TCCAGAAGCGCCGCTATAGATCGAGCTTTTAGCGGCGCTT-
60227045 TGGAAAAACACTGCTATAGG
62 TGGAAAAACACTGCTATAGG
** *
60227065 TTGAGGTTATAGCGGCGTTTTTCCAGAAGCGCCGCTATAGATCGAGCTTTTAGCGGCGCTTTTGA
1 TTGAGGCAATAGCGGCGTTTTTCCAGAAGCGCCGCTATAGATCGAGCTTTTAGCGGCGCTTTGGA
60227130 AAAAC
66 AAAAC
60227135 GCCTCAAAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
80 4 0.06
81 10 0.16
82 39 0.62
83 10 0.16
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (81 bp):
TTGAGGCAATAGCGGCGTTTTTCCAGAAGCGCCGCTATAGATCGAGCTTTTAGCGGCGCTTTGGA
AAAACACTGCTATAGG
Found at i:60227378 original size:7 final size:7
Alignment explanation
Indices: 60227368--60227444 Score: 50
Period size: 7 Copynumber: 10.7 Consensus size: 7
60227358 CATGGGTTAT
60227368 GGGTTTA
1 GGGTTTA
60227375 GGGTTTA
1 GGGTTTA
***
60227382 TAATTTA
1 GGGTTTA
*
60227389 TGGTTTAA
1 GGGTTT-A
*
60227397 GGG-TTG
1 GGGTTTA
60227403 GGGTTTA
1 GGGTTTA
*
60227410 AGG-TTA
1 GGGTTTA
60227416 GGGGTTTA
1 -GGGTTTA
60227424 GGGGTTTA
1 -GGGTTTA
60227432 GGGTTTA
1 GGGTTTA
60227439 TGGGTT
1 -GGGTT
60227445 ATATTCTATG
Statistics
Matches: 55, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
6 6 0.11
7 30 0.55
8 19 0.35
ACGTcount: A:0.17, C:0.00, G:0.40, T:0.43
Consensus pattern (7 bp):
GGGTTTA
Found at i:60227407 original size:14 final size:14
Alignment explanation
Indices: 60227390--60227444 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
60227380 TATAATTTAT
60227390 GGTTTAAGGGTTGG
1 GGTTTAAGGGTTGG
60227404 GGTTTAA-GGTTAGG
1 GGTTTAAGGGTT-GG
* *
60227418 GGTTTAGGGGTTTAG
1 GGTTTAAGGG-TTGG
*
60227433 GGTTTATGGGTT
1 GGTTTAAGGGTT
60227445 ATATTCTATG
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
13 4 0.11
14 17 0.49
15 12 0.34
16 2 0.06
ACGTcount: A:0.15, C:0.00, G:0.45, T:0.40
Consensus pattern (14 bp):
GGTTTAAGGGTTGG
Found at i:60228147 original size:15 final size:14
Alignment explanation
Indices: 60228127--60228177 Score: 59
Period size: 13 Copynumber: 3.6 Consensus size: 14
60228117 AATTTTTTCT
60228127 TTTATAAAAATATAA
1 TTTATAAAAA-ATAA
60228142 TTTATAAAAAAT-A
1 TTTATAAAAAATAA
* * *
60228155 GTAATAAAAAATAT
1 TTTATAAAAAATAA
60228169 TTTATAAAA
1 TTTATAAAA
60228178 TCATGTAACT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
13 11 0.37
14 9 0.30
15 10 0.33
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (14 bp):
TTTATAAAAAATAA
Found at i:60228153 original size:16 final size:16
Alignment explanation
Indices: 60228127--60228159 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
60228117 AATTTTTTCT
60228127 TTTATAAAAATA-TAA
1 TTTATAAAAATAGTAA
60228142 TTTATAAAAAATAGTAA
1 TTTAT-AAAAATAGTAA
60228159 T
1 T
60228160 AAAAAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 7 0.44
17 4 0.25
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
TTTATAAAAATAGTAA
Found at i:60232539 original size:24 final size:24
Alignment explanation
Indices: 60232482--60232528 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
60232472 AACCATGATG
60232482 GTTAATTATTACGAGTTTTGTAGT
1 GTTAATTATTACGAGTTTTGTAGT
*
60232506 GTTAATTATTACTAGTTTTGTAG
1 GTTAATTATTACGAGTTTTGTAG
60232529 CTTCTATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.04, G:0.19, T:0.51
Consensus pattern (24 bp):
GTTAATTATTACGAGTTTTGTAGT
Found at i:60232697 original size:24 final size:22
Alignment explanation
Indices: 60232670--60232713 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
60232660 AATTTCAAAA
60232670 ATAAAACATAATATAATATTTATC
1 ATAAAA-ATAA-ATAATATTTATC
*
60232694 ATAAAAATAAATATTATTTA
1 ATAAAAATAAATAATATTTA
60232714 ATAAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (22 bp):
ATAAAAATAAATAATATTTATC
Found at i:60232804 original size:43 final size:43
Alignment explanation
Indices: 60232757--60232966 Score: 312
Period size: 43 Copynumber: 4.9 Consensus size: 43
60232747 CGTTTTCAAA
* * *
60232757 AAAAGTGCCACTAAAGGTCATGATTTTTAGCGGCGTTTGCGGG
1 AAAAGTGCCGCTAAAGGTCTTGATCTTTAGCGGCGTTTGCGGG
* * * * *
60232800 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTACAGG
1 AAAAGTGCCGCTAAAGGTCTTGATCTTTAGCGGCGTTTGCGGG
*
60232843 AAAAGTGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGCGGG
1 AAAAGTGCCGCTAAAGGTCTTGATCTTTAGCGGCGTTTGCGGG
* *
60232886 AAAAGTGCCGCTAAAGGTCTTGACCTTTAGCGGCGTTTGTGGG
1 AAAAGTGCCGCTAAAGGTCTTGATCTTTAGCGGCGTTTGCGGG
*
60232929 AAAAGTGCCGCTAAAGGTCTTGACCTTTAGCGGCGTTT
1 AAAAGTGCCGCTAAAGGTCTTGATCTTTAGCGGCGTTT
60232967 TTTTTAAATA
Statistics
Matches: 154, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 154 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (43 bp):
AAAAGTGCCGCTAAAGGTCTTGATCTTTAGCGGCGTTTGCGGG
Found at i:60237404 original size:26 final size:26
Alignment explanation
Indices: 60237375--60237425 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
60237365 CATGGTAAGG
60237375 TAGTAAATGCAAATGTAACATGAATA
1 TAGTAAATGCAAATGTAACATGAATA
60237401 TAGTAAATGCAAATGTAACATGAAT
1 TAGTAAATGCAAATGTAACATGAAT
60237426 GTCTTGGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.49, C:0.08, G:0.16, T:0.27
Consensus pattern (26 bp):
TAGTAAATGCAAATGTAACATGAATA
Found at i:60244077 original size:46 final size:46
Alignment explanation
Indices: 60243900--60244077 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
60243890 GCAAACCCGC
*
60243900 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGC-T
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG-TTAGCAT
* * * * ** *
60243946 ACATTTCA-CAAACTCGGACTCAACTCAACGAGCTCGGGCGTTGGCAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGTTAGCAT
* * * *
60243993 CCATAAGTGAACTCGGACTCAACCCAACGAGTTAGGATGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGTTAGCAT
*
60244039 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG
60244078 CCCAAATATC
Statistics
Matches: 108, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
45 2 0.02
46 73 0.68
47 31 0.29
48 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGTTAGCAT
Found at i:60245077 original size:10 final size:11
Alignment explanation
Indices: 60245049--60245074 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
60245039 ATTCCATCCA
60245049 TGTCCAATTTT
1 TGTCCAATTTT
60245060 TGTCCAATTTT
1 TGTCCAATTTT
60245071 TGTC
1 TGTC
60245075 AATAAACTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.19, G:0.12, T:0.54
Consensus pattern (11 bp):
TGTCCAATTTT
Found at i:60249125 original size:653 final size:653
Alignment explanation
Indices: 60247971--60249262 Score: 2307
Period size: 653 Copynumber: 2.0 Consensus size: 653
60247961 CTTCGCCGAG
60247971 CAAGGCTTCTATGAATCCTTGATTGCTGCCCAAGATGGCTGAAGAACACCTCTTTCTCAAGAGAG
1 CAAGGCTTCTATGAATCCTTGATTGCTGCCCAAGATGGCTGAAGAACACCTCTTTCTCAAGAGAG
60248036 GAAATCAGCACAAGAGGAAGGGAAAATGGGATGGAAAATGGAGAGGAAACTTTGAGAGAAGTGAA
66 GAAATCAGCACAAGAGGAAGGGAAAATGGGATGGAAAATGGAGAGGAAACTTTGAGAGAAGTGAA
* *
60248101 GAGAGGGTGAGAGAATGTTGTGGAATGAGGGATGTTGAGGGATGCCTTGAAATGGGTAGCATAGG
131 GAGAGGGTGAAAGAATGTTGTGGAATGAGGGATGTTGAGGGATGCCTTGAAATGGGCAGCATAGG
* *
60248166 GTGGCTTTTATAGATGAAGAGGGCTGCTAAAAATAGCAAATTCAGCAGCCAAGAGAGCCCTCCCA
196 GTGGATTTTATAGATAAAGAGGGCTGCTAAAAATAGCAAATTCAGCAGCCAAGAGAGCCCTCCCA
*
60248231 TGGCCAGCCACACACATGGCAAGGTTGAAGCTTTCAACCTTGCTAAAAATAGACTGGGGCAAATC
261 CGGCCAGCCACACACATGGCAAGGTTGAAGCTTTCAACCTTGCTAAAAATAGACTGGGGCAAATC
*
60248296 TACAAAGCCTAAAATAAAAATGGGGTTTGAACGTAATTTGGAGGTTTTTCAAGGGCCTTTTTGCA
326 TACAAAGCCTAAAATAAAAATGGGGTTTGAACGTAATTTGAAGGTTTTTCAAGGGCCTTTTTGCA
* ***
60248361 AGCATATTTTATCAGCTAATTTTTTGATTTGCGTCAGCCAATGGACGATCCTGGTCAGCCCAATT
391 AGAATATTTTATCAGCTAATTGCCTGATTTGCGTCAGCCAATGGACGATCCTGGTCAGCCCAATT
*
60248426 AGTGGCTGGTTCGGCTCACTTCATTCGGTTCAACCACTGCGGTTCACTAGGCCATTTCTTCATAA
456 AGTGGCTGGTTCGGCTCACTTCATTCGGTTCAACCACTGCGGTTCACTAGGCCATTTCTTAATAA
60248491 TTAATTAAAATTAATTCATTTAACCTAAATTAAATAGGAAATAAATTAAAATTAATTTAATTATG
521 TTAATTAAAATTAATTCATTTAACCTAAATTAAATAGGAAATAAATTAAAATTAATTTAATTATG
* * *
60248556 AATTAATACACATTTTTGGAT-GTCTTGGGCTGGAAATTAATTGGTCTCAATACATATTTCTGGA
586 AATTAATACACATTTCTGGATCGTCTTAGGCTAGAAATTAATTGGTCTCAATACATATTTCTGGA
60248620 TTT
651 TTT
60248623 CAAGGCTTCTATGAATCCTTGATTGCTGCCCAAGATGGCTGAAGAACACCTCTTTCTCAAGAGAG
1 CAAGGCTTCTATGAATCCTTGATTGCTGCCCAAGATGGCTGAAGAACACCTCTTTCTCAAGAGAG
*
60248688 GAAATCAGCACAAGAGGAAGGGAAAATGGGATGGAAAAATTGAGAGGAAACTTTGAGAGAAGTGA
66 GAAATCAGCACAAGAGGAAGGGAAAATGGGATGG-AAAATGGAGAGGAAACTTTGAGAGAAGTGA
60248753 AGAGAGGGTGAAAGAATGTTGTGGAATGAGGGATGTTGAGGGATGCCTTGAAATGGGCAGCATAG
130 AGAGAGGGTGAAAGAATGTTGTGGAATGAGGGATGTTGAGGGATGCCTTGAAATGGGCAGCATAG
* *
60248818 GGTGGATTTTATAGCTAAAGAGGGCTGGTAAAAATAGCAAATTCAGCAGCCAAGAGAGCCCTCCC
195 GGTGGATTTTATAGATAAAGAGGGCTGCTAAAAATAGCAAATTCAGCAGCCAAGAGAGCCCTCCC
*** *
60248883 ACGGTTGGCCACACACATGGCAAGGTTGAAGCTTTCAACCTTGCTAAAAATAGGCTGGGGCAAAT
260 ACGGCCAGCCACACACATGGCAAGGTTGAAGCTTTCAACCTTGCTAAAAATAGACTGGGGCAAAT
*
60248948 CTACAAAGCCTAAAATAAAGATGGGGTTTGAACGTAATTTGAAGGTTTTTCAAGGGCCTTTTTGC
325 CTACAAAGCCTAAAATAAAAATGGGGTTTGAACGTAATTTGAAGGTTTTTCAAGGGCCTTTTTGC
* * *
60249013 AAGAATATTTTATCAGCTAATTGCCTGATTTGGGTCAGCCAATGGACGGTTCTGGTCAGCCCAAT
390 AAGAATATTTTATCAGCTAATTGCCTGATTTGCGTCAGCCAATGGACGATCCTGGTCAGCCCAAT
* *
60249078 TAGTGGCTGGTTCGGCTCACTTCATTCGGTTCAACCAGTGCGGTTCACTAGGCCCTTTCTTAATA
455 TAGTGGCTGGTTCGGCTCACTTCATTCGGTTCAACCACTGCGGTTCACTAGGCCATTTCTTAATA
60249143 ATTAATTAAAATTAATTCATTTAACCTAAATTAAATAGGAAATAAATTAAAATTAATTTAATTAT
520 ATTAATTAAAATTAATTCATTTAACCTAAATTAAATAGGAAATAAATTAAAATTAATTTAATTAT
* *
60249208 GAATTAGTACACATTTCTGGATCGTCTTAGGCTAGAAATTAATTGGTCTCGATAC
585 GAATTAATACACATTTCTGGATCGTCTTAGGCTAGAAATTAATTGGTCTCAATAC
60249263 TTCAAATTGC
Statistics
Matches: 609, Mismatches: 29, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
652 99 0.16
653 481 0.79
654 29 0.05
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (653 bp):
CAAGGCTTCTATGAATCCTTGATTGCTGCCCAAGATGGCTGAAGAACACCTCTTTCTCAAGAGAG
GAAATCAGCACAAGAGGAAGGGAAAATGGGATGGAAAATGGAGAGGAAACTTTGAGAGAAGTGAA
GAGAGGGTGAAAGAATGTTGTGGAATGAGGGATGTTGAGGGATGCCTTGAAATGGGCAGCATAGG
GTGGATTTTATAGATAAAGAGGGCTGCTAAAAATAGCAAATTCAGCAGCCAAGAGAGCCCTCCCA
CGGCCAGCCACACACATGGCAAGGTTGAAGCTTTCAACCTTGCTAAAAATAGACTGGGGCAAATC
TACAAAGCCTAAAATAAAAATGGGGTTTGAACGTAATTTGAAGGTTTTTCAAGGGCCTTTTTGCA
AGAATATTTTATCAGCTAATTGCCTGATTTGCGTCAGCCAATGGACGATCCTGGTCAGCCCAATT
AGTGGCTGGTTCGGCTCACTTCATTCGGTTCAACCACTGCGGTTCACTAGGCCATTTCTTAATAA
TTAATTAAAATTAATTCATTTAACCTAAATTAAATAGGAAATAAATTAAAATTAATTTAATTATG
AATTAATACACATTTCTGGATCGTCTTAGGCTAGAAATTAATTGGTCTCAATACATATTTCTGGA
TTT
Found at i:60249350 original size:20 final size:20
Alignment explanation
Indices: 60249327--60249364 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
60249317 CCAATTGTGT
*
60249327 AATTTTGTCAAAAATAACCA
1 AATTTAGTCAAAAATAACCA
*
60249347 AATTTAGTCAAAATTAAC
1 AATTTAGTCAAAAATAAC
60249365 TACAAAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.05, T:0.32
Consensus pattern (20 bp):
AATTTAGTCAAAAATAACCA
Found at i:60249796 original size:43 final size:45
Alignment explanation
Indices: 60249715--60249801 Score: 115
Period size: 43 Copynumber: 2.0 Consensus size: 45
60249705 AACTTCAGGG
** * *
60249715 AGATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTCAGAA
1 AGATAAGATCTTCAATCTTCAAACTGCTCTCTTACTACCTCAGAA
*
60249760 AGATAAGA-C-TCATTCTTCAAACTGCTCTCTTACTACCTCAGA
1 AGATAAGATCTTCAATCTTCAAACTGCTCTCTTACTACCTCAGA
60249802 GAGGTGAGGC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
43 28 0.76
44 1 0.03
45 8 0.22
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.33
Consensus pattern (45 bp):
AGATAAGATCTTCAATCTTCAAACTGCTCTCTTACTACCTCAGAA
Found at i:60249891 original size:176 final size:177
Alignment explanation
Indices: 60249587--60249911 Score: 526
Period size: 176 Copynumber: 1.8 Consensus size: 177
60249577 TTATCTCAAG
* * * *
60249587 AAGATCTCACTCTTCAATCTGTTCTCTTGCCACCTCAGAGAGATAAGGCTGGTGGTAAAATCTGC
1 AAGATCTCACTCTTCAAACTGCTCTCTTACCACCTCAGAGAGATAAGGCGGGTGGTAAAATCTGC
* * *
60249652 TCCCTTGCCGATACATGGAAATAAGATTCACCATTTTCGATCTGCTCCACTGCAACTTCAGGGAG
66 TCCATTGCCGATACATGGAAATAAGATTCACCATATTCGATCCGCTCCACTGCAACTTCAGGGAG
60249717 ATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGAT
131 ATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGAT
* * * *
60249764 AAGA-CTCATTCTTCAAACTGCTCTCTTACTACCTCAGAGAGGTGAGGCGGGTGGTAAAATCTGC
1 AAGATCTCACTCTTCAAACTGCTCTCTTACCACCTCAGAGAGATAAGGCGGGTGGTAAAATCTGC
* *
60249828 TCCATTGCCGATACATGGAGATAAGATTCACCATATTCGATCCGCTCCTCTGCAACTTCAGGGAG
66 TCCATTGCCGATACATGGAAATAAGATTCACCATATTCGATCCGCTCCACTGCAACTTCAGGGAG
60249893 ATAAGATCTTCAATCTTCA
131 ATAAGATCTTCAATCTTCA
60249912 CCAATATCGC
Statistics
Matches: 135, Mismatches: 13, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
176 131 0.97
177 4 0.03
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (177 bp):
AAGATCTCACTCTTCAAACTGCTCTCTTACCACCTCAGAGAGATAAGGCGGGTGGTAAAATCTGC
TCCATTGCCGATACATGGAAATAAGATTCACCATATTCGATCCGCTCCACTGCAACTTCAGGGAG
ATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGAT
Found at i:60253710 original size:23 final size:23
Alignment explanation
Indices: 60253655--60253701 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
60253645 TCACTGACCA
60253655 CAAAGCCCAATAGCTTTCCGGAT
1 CAAAGCCCAATAGCTTTCCGGAT
60253678 CAAAGCCCAATAGCTTTCCGGAT
1 CAAAGCCCAATAGCTTTCCGGAT
60253701 C
1 C
60253702 TAGCCCCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (23 bp):
CAAAGCCCAATAGCTTTCCGGAT
Found at i:60263790 original size:46 final size:46
Alignment explanation
Indices: 60263723--60263897 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 46
60263713 TGTAACCCGC
*
60263723 CCATAAGCGAACTTGGACTCAACTCAACGAGCTCGGGCATTCGTAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGTAT
* * * * * *
60263769 CCATAAGTGAACTTGGACTCAACTCAACAAGTTC-GG-ATGCCTAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGTA--T
* * * *
60263815 ACATTTCA-CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGTAT
* *
60263862 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG
60263898 ATGCCCAAAT
Statistics
Matches: 103, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
44 5 0.05
45 4 0.04
46 61 0.59
47 26 0.25
48 4 0.04
49 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGTAT
Found at i:60263838 original size:93 final size:93
Alignment explanation
Indices: 60263730--60263902 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
60263720 CGCCCATAAG
* * *
60263730 CGAACTTGGACTCAACTCAACGAGCTCGGGCATTCGTATCCATAAGTGAACTTGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
60263795 ACAAGTTCGGATGCCTAGTTACATTTCA
66 ACAAGTTCGGATGCCTAGTTACATTTCA
*
60263823 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
60263888 ACGAGTTCGGATGCC
66 ACAAGTTCGGATGCC
60263903 CAAATATCCA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACAAGTTCGGATGCCTAGTTACATTTCA
Found at i:60264330 original size:30 final size:30
Alignment explanation
Indices: 60264296--60264353 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
60264286 CCCTAGTACC
60264296 AACTTTGACAAAATTAC-CATTTTTCCCCTA
1 AACTTTGACAAAATTACAC-TTTTTCCCCTA
* * *
60264326 AACTTTTACATATTTACACTTTTTCCCC
1 AACTTTGACAAAATTACACTTTTTCCCC
60264354 AAGGCTCGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.29, C:0.28, G:0.02, T:0.41
Consensus pattern (30 bp):
AACTTTGACAAAATTACACTTTTTCCCCTA
Found at i:60266834 original size:27 final size:27
Alignment explanation
Indices: 60266788--60266937 Score: 158
Period size: 27 Copynumber: 5.6 Consensus size: 27
60266778 AATGTGTCAG
* *
60266788 GAAAGAATAGCCCTTATGGCGAACTCT
1 GAAAGAATAGCCTTTGTGGCGAACTCT
*
60266815 GAAAGAATAACCTTTGTGGCGAACTCT
1 GAAAGAATAGCCTTTGTGGCGAACTCT
60266842 GAAAGAATAGCCTTTGTGGCGAACTCT
1 GAAAGAATAGCCTTTGTGGCGAACTCT
* * * * *
60266869 GAGAGAATAGCATTAGTGGCGAATTAT
1 GAAAGAATAGCCTTTGTGGCGAACTCT
* * * * *
60266896 GAAGGGATAGCCTTAGTGG-AAAATCCT
1 GAAAGAATAGCCTTTGTGGCGAACT-CT
*
60266923 GCAAGAATAGCCTTT
1 GAAAGAATAGCCTTT
60266938 ATAGTGTACT
Statistics
Matches: 102, Mismatches: 20, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
26 3 0.03
27 99 0.97
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (27 bp):
GAAAGAATAGCCTTTGTGGCGAACTCT
Found at i:60269093 original size:40 final size:40
Alignment explanation
Indices: 60269026--60269190 Score: 183
Period size: 40 Copynumber: 4.2 Consensus size: 40
60269016 ACCCAAGCAT
* *
60269026 CTTCGGGAT-TTAG-CCAGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
*
60269065 CTTCGGGTCTTACCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
60269105 CTTCGGGTCTTAGCCCGGATATTATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATA-TAGCAACTCGCACAAATGC
* * * * * *
60269145 TTTCAGGACATAGCCCGGATATAGCAACTCACACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
60269185 CTTCGG
1 CTTCGG
60269191 ATCATAGTCC
Statistics
Matches: 104, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.12
40 87 0.84
41 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:60277282 original size:40 final size:40
Alignment explanation
Indices: 60277215--60277378 Score: 217
Period size: 40 Copynumber: 4.1 Consensus size: 40
60277205 ACCCAAGCAT
*
60277215 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
60277254 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
60277294 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * * *
60277334 CTTCGGGACATAGCCCGGATATAGCAACTCACACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
60277374 CTTCG
1 CTTCG
60277379 AATCTTAGTC
Statistics
Matches: 110, Mismatches: 11, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.12
40 94 0.85
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:60284830 original size:40 final size:40
Alignment explanation
Indices: 60284794--60285023 Score: 356
Period size: 40 Copynumber: 5.8 Consensus size: 40
60284784 GGATATAGCT
*
60284794 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
**
60284834 GTTCGCACAAATGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
60284874 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
60284914 ACTGGCACAAATGCCTTCGGGACTTAGCCCAGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
60284954 ACTCGCACAAATGACTTCGGGACTTAGCCCGGAATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
60284994 ACTAGCACAAATGCCTTCGGGACTTAGCCC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCC
60285024 CGTTATCATC
Statistics
Matches: 176, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 174 0.99
41 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:60284922 original size:80 final size:80
Alignment explanation
Indices: 60284768--60285023 Score: 367
Period size: 80 Copynumber: 3.2 Consensus size: 80
60284758 AAACCAAGTA
* * *
60284768 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACTTAGCCCGG-ATAT
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-T
** *
60284830 AGTAGTTCGCACAAATG
64 AGTAACTAGCACAAATG
60284847 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
*
60284912 TAACTGGCACAAATG
66 TAACTAGCACAAATG
* *
60284927 CCTTCGGGACTTAGCCCAGA-ATTAGTAACTCGCACAAATGACTTCGGGACTTAGCCCGGAATTA
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTA
*
60284991 GTCACTAGCACAAATG
65 GTAACTAGCACAAATG
60285007 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
60285024 CGTTATCATC
Statistics
Matches: 163, Mismatches: 10, Indels: 7
0.91 0.06 0.04
Matches are distributed among these distances:
79 14 0.09
80 147 0.90
81 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
TAACTAGCACAAATG
Found at i:60290762 original size:40 final size:41
Alignment explanation
Indices: 60290718--60290859 Score: 168
Period size: 40 Copynumber: 3.5 Consensus size: 41
60290708 ACCATATCCG
*
60290718 GACTAAGATCCAAAGGCATTTGTGCGAGATACTAAATT-CA
1 GACTAAGATCCGAAGGCATTTGTGCGAGATACTAAATTCCA
*
60290758 GACTAAGATCCGAAGGCATTTGTGCGAGATACT-AATTCCG
1 GACTAAGATCCGAAGGCATTTGTGCGAGATACTAAATTCCA
* * *
60290798 GGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA-TCCG
1 GACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAATTCCA
**
60290838 GGTTAAG-TCCCGAAGGCATTTG
1 GACTAAGAT-CCGAAGGCATTTG
60290860 AACGAGGAGC
Statistics
Matches: 94, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
39 5 0.05
40 87 0.93
41 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (41 bp):
GACTAAGATCCGAAGGCATTTGTGCGAGATACTAAATTCCA
Found at i:60290851 original size:80 final size:81
Alignment explanation
Indices: 60290674--60290859 Score: 213
Period size: 80 Copynumber: 2.3 Consensus size: 81
60290664 TTGAATGATG
* *
60290674 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCAAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTGACAATATCCGGACTAAGATCCAAAGGCATT
60290738 TGTGCGAGATACTAAA
66 TGTGCGAGATACTAAA
* * * * *
60290754 TTCAGACTAAGAT-CCGAAGGCATTTGTGCG-AGAT-ACTAAT-TCCGGGCTAAG-TCCCGAAGG
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TGAC-AATATCCGGACTAAGAT-CCAAAGG
*
60290814 CATTTGTGCGAGTTACTAAA
62 CATTTGTGCGAGATACTAAA
*
60290834 TCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
60290860 AACGAGGAGC
Statistics
Matches: 88, Mismatches: 12, Indels: 12
0.79 0.11 0.11
Matches are distributed among these distances:
79 2 0.02
80 75 0.85
81 11 0.12
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTGACAATATCCGGACTAAGATCCAAAGGCATT
TGTGCGAGATACTAAA
Found at i:60290877 original size:40 final size:40
Alignment explanation
Indices: 60290767--60290882 Score: 121
Period size: 40 Copynumber: 2.9 Consensus size: 40
60290757 AGACTAAGAT
** * *
60290767 CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAGTC
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGTC
** *
60290807 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTC
*
60290847 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAA
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAA
60290883 ATTTCGAAGG
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
39 8 0.12
40 60 0.88
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTC
Found at i:60290878 original size:80 final size:80
Alignment explanation
Indices: 60290711--60290878 Score: 182
Period size: 80 Copynumber: 2.1 Consensus size: 80
60290701 CTAAGTGACC
*
60290711 ATATCCGGACTAAGATCCAAAGGCATTTGTGCGAGATACTAAATTCAGACTAAGATCCGAAGGCA
1 ATATCCGGACTAAGATCCAAAGGCATTTGTGCGAGATACTAAATCCAGACTAAGATCCGAAGGCA
**
60290776 TTTGTGCGAGATACT
66 TTTGAACGAGATACT
* * * * **
60290791 A-ATTCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAG
1 ATA-TCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGATACTAAATCCAGACTAAGAT-CCGAAG
*
60290853 GCATTTGAACGAGGA-GCT
63 GCATTTGAACGA-GATACT
60290871 ATATCCGG
1 ATATCCGG
60290879 TTAAATTTCG
Statistics
Matches: 73, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
79 3 0.04
80 67 0.92
81 3 0.04
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (80 bp):
ATATCCGGACTAAGATCCAAAGGCATTTGTGCGAGATACTAAATCCAGACTAAGATCCGAAGGCA
TTTGAACGAGATACT
Found at i:60298336 original size:40 final size:40
Alignment explanation
Indices: 60298148--60298372 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
60298138 TTGAATGATG
* * * *
60298148 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
60298188 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
60298227 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
60298267 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
60298307 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
60298348 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
60298373 AACGAGGAGC
Statistics
Matches: 167, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
39 39 0.23
40 118 0.71
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:60299707 original size:41 final size:42
Alignment explanation
Indices: 60299662--60299781 Score: 120
Period size: 42 Copynumber: 2.9 Consensus size: 42
60299652 TCTCATGAGC
*
60299662 TTCAG-TCAACTCA-TATGAGTCTT-AGTTTAACCCTTCTGGGT
1 TTCAGTTCAACT-ATTATGAG-CTTCAGTTTAACCCTTATGGGT
* * *
60299703 TTCAGTTCAGCTATTTTGAGCTTCAGTTTAACCTTTATGGGT
1 TTCAGTTCAACTATTATGAGCTTCAGTTTAACCCTTATGGGT
* * * **
60299745 TTCTGTTCAGCTCTTATGAGCTTCCCTTTAACCCTTA
1 TTCAGTTCAACTATTATGAGCTTCAGTTTAACCCTTA
60299782 CAGGTTTCCA
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
41 9 0.14
42 57 0.86
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (42 bp):
TTCAGTTCAACTATTATGAGCTTCAGTTTAACCCTTATGGGT
Found at i:60299732 original size:42 final size:42
Alignment explanation
Indices: 60299675--60299781 Score: 135
Period size: 42 Copynumber: 2.5 Consensus size: 42
60299665 AGTCAACTCA
*
60299675 TATGAGTCTT-AGTTTAACCCTTCTGGGTTTCAGTTCAGCTAT
1 TATGAG-CTTCAGTTTAACCCTTATGGGTTTCAGTTCAGCTAT
* * * *
60299717 TTTGAGCTTCAGTTTAACCTTTATGGGTTTCTGTTCAGCTCT
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTCAGTTCAGCTAT
**
60299759 TATGAGCTTCCCTTTAACCCTTA
1 TATGAGCTTCAGTTTAACCCTTA
60299782 CAGGTTTCCA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 3 0.05
42 52 0.95
ACGTcount: A:0.18, C:0.21, G:0.17, T:0.44
Consensus pattern (42 bp):
TATGAGCTTCAGTTTAACCCTTATGGGTTTCAGTTCAGCTAT
Found at i:60302951 original size:19 final size:19
Alignment explanation
Indices: 60302927--60302966 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
60302917 ATAGGAAGAG
60302927 AAGAATCTTGATTAAATAA
1 AAGAATCTTGATTAAATAA
60302946 AAGAATCTTGATTAAATAA
1 AAGAATCTTGATTAAATAA
60302965 AA
1 AA
60302967 CTTAAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.30
Consensus pattern (19 bp):
AAGAATCTTGATTAAATAA
Found at i:60310360 original size:14 final size:16
Alignment explanation
Indices: 60310327--60310363 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
60310317 TCGTTGCAAG
60310327 TTAAAGATAGAAAAAA
1 TTAAAGATAGAAAAAA
60310343 -TAAA-ATA-AAAAAA
1 TTAAAGATAGAAAAAA
60310356 TTAAAGAT
1 TTAAAGAT
60310364 TTAGTAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 5
0.79 0.00 0.21
Matches are distributed among these distances:
13 6 0.32
14 7 0.37
15 6 0.32
ACGTcount: A:0.70, C:0.00, G:0.08, T:0.22
Consensus pattern (16 bp):
TTAAAGATAGAAAAAA
Found at i:60310735 original size:13 final size:13
Alignment explanation
Indices: 60310717--60310742 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
60310707 AGTGACTCTT
60310717 TTACCTGAATCCA
1 TTACCTGAATCCA
60310730 TTACCTGAATCCA
1 TTACCTGAATCCA
60310743 CCATGATAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.31
Consensus pattern (13 bp):
TTACCTGAATCCA
Found at i:60311445 original size:32 final size:32
Alignment explanation
Indices: 60311409--60311474 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
60311399 AAAATTAAAT
60311409 TAAAAGAAACAGAAACAGAAAAGATTTCGGCA
1 TAAAAGAAACAGAAACAGAAAAGATTTCGGCA
60311441 TAAAAGAAACAGAAACAGAAAAGATTTCGGCA
1 TAAAAGAAACAGAAACAGAAAAGATTTCGGCA
60311473 TA
1 TA
60311475 CCTTGGACTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.56, C:0.12, G:0.18, T:0.14
Consensus pattern (32 bp):
TAAAAGAAACAGAAACAGAAAAGATTTCGGCA
Found at i:60312163 original size:19 final size:21
Alignment explanation
Indices: 60312127--60312166 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
60312117 GGGGTATTTT
60312127 TTATTTTTAATATTAATATAA
1 TTATTTTTAATATTAATATAA
60312148 TTATTTTT-AT-TTAATATAA
1 TTATTTTTAATATTAATATAA
60312167 AAAATTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.47
20 2 0.11
21 8 0.42
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTATTTTTAATATTAATATAA
Found at i:60315125 original size:46 final size:46
Alignment explanation
Indices: 60315073--60315299 Score: 341
Period size: 46 Copynumber: 5.0 Consensus size: 46
60315063 GCTTTCTGAA
* *
60315073 ATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
60315119 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
60315165 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
60315211 -TGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * * *
60315256 A-GAAAATAAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
60315300 TCGAAGATAA
Statistics
Matches: 169, Mismatches: 10, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
45 44 0.26
46 125 0.74
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.22
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:60315268 original size:91 final size:92
Alignment explanation
Indices: 60315073--60315299 Score: 341
Period size: 91 Copynumber: 2.5 Consensus size: 92
60315063 GCTTTCTGAA
** **
60315073 ATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCAT
1 ATGAAATAAGTAAGACCATAGTTGAAAGATACCATGGCAACATGATATGAAATGAATAAGACCAT
*
60315138 GGTTGAAAGATACCATGGCAACATGAT
66 GGTTGAAAGATACCATGGCAACATGAC
* *
60315165 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT-TGAAATGAATAAGACCAT
1 ATGAAATAAGTAAGACCATAGTTGAAAGATACCATGGCAACATGATATGAAATGAATAAGACCAT
60315229 GGTTGAAAGATACCATGGCAACATGAC
66 GGTTGAAAGATACCATGGCAACATGAC
* * *
60315256 A-GAAAATAAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATAAGTAAGACCATAGTTGAAAGATACCATGGCAACATG
60315300 TCGAAGATAA
Statistics
Matches: 124, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
90 1 0.01
91 79 0.64
92 44 0.35
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.22
Consensus pattern (92 bp):
ATGAAATAAGTAAGACCATAGTTGAAAGATACCATGGCAACATGATATGAAATGAATAAGACCAT
GGTTGAAAGATACCATGGCAACATGAC
Found at i:60316621 original size:22 final size:22
Alignment explanation
Indices: 60316585--60316653 Score: 86
Period size: 22 Copynumber: 3.1 Consensus size: 22
60316575 TCTCTGATTA
* * *
60316585 TTAGCATATTAGTGCTCTCCGT
1 TTAGCACATTTGTGCTCTCTGT
60316607 TTAGCACATTTGTGCTCTCTGT
1 TTAGCACATTTGTGCTCTCTGT
*
60316629 ATAGCAC-TTTAGTGCTCTCTGT
1 TTAGCACATTT-GTGCTCTCTGT
60316651 TTA
1 TTA
60316654 ATAATACATA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
21 3 0.07
22 38 0.93
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.43
Consensus pattern (22 bp):
TTAGCACATTTGTGCTCTCTGT
Found at i:60321622 original size:46 final size:46
Alignment explanation
Indices: 60321400--60321612 Score: 338
Period size: 46 Copynumber: 4.6 Consensus size: 46
60321390 GCTTTCTGAA
* *
60321400 ATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
60321446 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
60321492 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
**
60321538 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
60321584 A-GAAAATGAGTAAGACCATAGTTGAAAGA
1 ATG-AAATGTGTAAGACCATGGTTGAAAGA
60321613 CATTATGGCA
Statistics
Matches: 158, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
45 1 0.01
46 157 0.99
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:60323104 original size:40 final size:40
Alignment explanation
Indices: 60323021--60323240 Score: 250
Period size: 40 Copynumber: 5.5 Consensus size: 40
60323011 ACCCAAGTAT
** * *
60323021 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
60323059 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
60323099 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
60323139 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
60323179 CTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
60323219 CTTCAGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
60323241 CATTCGAATA
Statistics
Matches: 153, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 16 0.10
40 124 0.81
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:60329944 original size:51 final size:51
Alignment explanation
Indices: 60329889--60330037 Score: 156
Period size: 51 Copynumber: 3.1 Consensus size: 51
60329879 CTACCACATA
* *
60329889 ACATGTAACACATCCATAATGAACTCGGACCTCTCAAAGAGCTCGGATGTT
1 ACATGTAACGCATCCATAATGAACTCGGACCTCTCAAAGAGCTCGGATGAT
*
60329940 ACATG-AATCGCATCCATTATGAACTCGGACCTCTCAACA-AGCTC-GA--AT
1 ACATGTAA-CGCATCCATAATGAACTCGGACCTCTCAA-AGAGCTCGGATGAT
* * *
60329988 AC---T--CGCATTCATAATGAACTCGGACCTCTCAATGAGCTCGGATGCT
1 ACATGTAACGCATCCATAATGAACTCGGACCTCTCAAAGAGCTCGGATGAT
60330034 ACAT
1 ACAT
60330038 ATCTCACAAA
Statistics
Matches: 82, Mismatches: 7, Indels: 21
0.75 0.06 0.19
Matches are distributed among these distances:
43 32 0.39
44 2 0.02
46 3 0.04
48 3 0.04
50 4 0.05
51 37 0.45
52 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.24
Consensus pattern (51 bp):
ACATGTAACGCATCCATAATGAACTCGGACCTCTCAAAGAGCTCGGATGAT
Found at i:60331217 original size:19 final size:19
Alignment explanation
Indices: 60331174--60331210 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
60331164 TTTTAATATA
60331174 ACCAATTTTAAGAACACAT
1 ACCAATTTTAAGAACACAT
60331193 ACCAATTTTAAGAACACA
1 ACCAATTTTAAGAACACA
60331211 ATTCAATACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.22, G:0.05, T:0.24
Consensus pattern (19 bp):
ACCAATTTTAAGAACACAT
Found at i:60332490 original size:28 final size:28
Alignment explanation
Indices: 60332435--60332492 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
60332425 TATAGTAAGT
*
60332435 TCGCACACTTAGTGCTTAATAATCAAAC
1 TCGCACACTTAGTGCTTAACAATCAAAC
*
60332463 TCGCACACTTAGTGC-TATACAATTAAAC
1 TCGCACACTTAGTGCTTA-ACAATCAAAC
60332491 TC
1 TC
60332493 ACAAAATTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 2 0.07
28 25 0.93
ACGTcount: A:0.34, C:0.26, G:0.10, T:0.29
Consensus pattern (28 bp):
TCGCACACTTAGTGCTTAACAATCAAAC
Found at i:60348247 original size:8 final size:8
Alignment explanation
Indices: 60348234--60348263 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
60348224 AATGGAGCCT
60348234 TAATTTAA
1 TAATTTAA
60348242 TAATTTAA
1 TAATTTAA
60348250 TAATTTAA
1 TAATTTAA
60348258 T-ATTTA
1 TAATTTA
60348264 TTTAATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 5 0.23
8 17 0.77
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
TAATTTAA
Found at i:60351020 original size:14 final size:14
Alignment explanation
Indices: 60351001--60351029 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
60350991 ACAGATGGAT
60351001 TCGTATAATTCTTA
1 TCGTATAATTCTTA
60351015 TCGTATAATTCTTA
1 TCGTATAATTCTTA
60351029 T
1 T
60351030 ATATATTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.52
Consensus pattern (14 bp):
TCGTATAATTCTTA
Found at i:60353539 original size:39 final size:40
Alignment explanation
Indices: 60353484--60353566 Score: 159
Period size: 39 Copynumber: 2.1 Consensus size: 40
60353474 TCGAGAGCAA
60353484 GTGGGCTTATTTCTTTGCAAAATTGTGCTCAATTTCATAT
1 GTGGGCTTATTTCTTTGCAAAATTGTGCTCAATTTCATAT
60353524 GTGGGC-TATTTCTTTGCAAAATTGTGCTCAATTTCATAT
1 GTGGGCTTATTTCTTTGCAAAATTGTGCTCAATTTCATAT
60353563 GTGG
1 GTGG
60353567 CAATTCCGCA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 37 0.86
40 6 0.14
ACGTcount: A:0.22, C:0.14, G:0.20, T:0.43
Consensus pattern (40 bp):
GTGGGCTTATTTCTTTGCAAAATTGTGCTCAATTTCATAT
Found at i:60354121 original size:6 final size:6
Alignment explanation
Indices: 60354094--60354152 Score: 57
Period size: 6 Copynumber: 10.0 Consensus size: 6
60354084 TTTCTCTGAT
* * * * *
60354094 AGGGAG AGGGGG AGAGAT A-GGAG AAGGAG AGGGAG ATGGAG AGGGAG
1 AGGGAG AGGGAG AGGGAG AGGGAG AGGGAG AGGGAG AGGGAG AGGGAG
*
60354141 AGGGAG GGGGAG
1 AGGGAG AGGGAG
60354153 TAGGAGGGAG
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
5 3 0.07
6 39 0.93
ACGTcount: A:0.34, C:0.00, G:0.63, T:0.03
Consensus pattern (6 bp):
AGGGAG
Found at i:60354134 original size:12 final size:12
Alignment explanation
Indices: 60354113--60354171 Score: 66
Period size: 12 Copynumber: 4.9 Consensus size: 12
60354103 GGGAGAGATA
60354113 GGAGAAGGAGAG
1 GGAGAAGGAGAG
*
60354125 GGAGATGGAGAG
1 GGAGAAGGAGAG
* *
60354137 GGAGAGGGAGGG
1 GGAGAAGGAGAG
*
60354149 GGAGTAGGAG-G
1 GGAGAAGGAGAG
60354160 GAGAGAAGGAGA
1 G-GAGAAGGAGA
60354172 AAAGAGAGGA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
11 2 0.05
12 37 0.95
ACGTcount: A:0.36, C:0.00, G:0.61, T:0.03
Consensus pattern (12 bp):
GGAGAAGGAGAG
Found at i:60354140 original size:18 final size:19
Alignment explanation
Indices: 60354107--60354146 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
60354097 GAGAGGGGGA
60354107 GAGATAGGAGAAGGAGAGG
1 GAGATAGGAGAAGGAGAGG
*
60354126 GAGAT-GGAGAGGGAGAGG
1 GAGATAGGAGAAGGAGAGG
60354144 GAG
1 GAG
60354147 GGGGAGTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.38, C:0.00, G:0.57, T:0.05
Consensus pattern (19 bp):
GAGATAGGAGAAGGAGAGG
Found at i:60354152 original size:18 final size:18
Alignment explanation
Indices: 60354113--60354172 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
60354103 GGGAGAGATA
*
60354113 GGAGAAGGAGAGGGAGAT
1 GGAGAAGGAGAGGGAGAG
* *
60354131 GGAGAGGGAGAGGGAGGG
1 GGAGAAGGAGAGGGAGAG
* *
60354149 GGAGTAGGAG-GGAGAGAA
1 GGAGAAGGAGAGG-GAGAG
60354167 GGAGAA
1 GGAGAA
60354173 AAGAGAGGAA
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
17 2 0.06
18 31 0.94
ACGTcount: A:0.37, C:0.00, G:0.60, T:0.03
Consensus pattern (18 bp):
GGAGAAGGAGAGGGAGAG
Found at i:60354186 original size:15 final size:15
Alignment explanation
Indices: 60354168--60354210 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
60354158 GGGAGAGAAG
60354168 GAGAAAAGAGAGGAA
1 GAGAAAAGAGAGGAA
*
60354183 GAGAAGAGAGAGGGAA
1 GAGAAAAGAGA-GGAA
60354199 G-G-AAAGAGAGGA
1 GAGAAAAGAGAGGA
60354211 GGAAGGAGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 3 0.12
14 6 0.24
15 11 0.44
16 5 0.20
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (15 bp):
GAGAAAAGAGAGGAA
Found at i:60354244 original size:22 final size:22
Alignment explanation
Indices: 60354210--60354252 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
60354200 GAAAGAGAGG
* * *
60354210 AGGAAGGAGGAGAGGGAGGGAT
1 AGGAAAGACGAGAGGAAGGGAT
60354232 AGGAAAGACGAGAGGAAGGGA
1 AGGAAAGACGAGAGGAAGGGA
60354253 AGAGAGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.42, C:0.02, G:0.53, T:0.02
Consensus pattern (22 bp):
AGGAAAGACGAGAGGAAGGGAT
Found at i:60354399 original size:8 final size:8
Alignment explanation
Indices: 60354370--60354412 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
60354360 AAAGAAGAGC
60354370 GAAAGGGG
1 GAAAGGGG
*
60354378 GAGGAGGAGG
1 GA-AAGG-GG
60354388 GAAAGGGG
1 GAAAGGGG
60354396 GAAA-GGG
1 GAAAGGGG
60354403 GAAAGGGG
1 GAAAGGGG
60354411 GA
1 GA
60354413 GGAAGTGGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
7 7 0.23
8 13 0.43
9 6 0.20
10 4 0.13
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (8 bp):
GAAAGGGG
Found at i:60354416 original size:18 final size:19
Alignment explanation
Indices: 60354364--60354416 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 19
60354354 TAGGAAAAAG
*
60354364 AAGAGCGAAAGGGGGAGG-
1 AAGAGGGAAAGGGGGAGGA
*
60354382 AGGAGGGAAA--GGG-GGA
1 AAGAGGGAAAGGGGGAGGA
60354398 AAG-GGGAAAGGGGGAGGA
1 AAGAGGGAAAGGGGGAGGA
60354416 A
1 A
60354417 GTGGAGAGAG
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
15 8 0.29
16 5 0.18
17 3 0.11
18 12 0.43
ACGTcount: A:0.40, C:0.02, G:0.58, T:0.00
Consensus pattern (19 bp):
AAGAGGGAAAGGGGGAGGA
Found at i:60354430 original size:33 final size:32
Alignment explanation
Indices: 60354370--60354432 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 32
60354360 AAAGAAGAGC
60354370 GAAAGGGGGAGGAGGAGGGAAAGGGGGAAAGGG
1 GAAAGGGGGAGGA-GAGGGAAAGGGGGAAAGGG
*
60354403 GAAAGGGGGAGGA-AGTGGAGAGAGGGGAAA
1 GAAAGGGGGAGGAGAG-GGAAAG-GGGGAAA
60354433 AGAGAAGAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 2 0.07
32 5 0.19
33 20 0.74
ACGTcount: A:0.38, C:0.00, G:0.60, T:0.02
Consensus pattern (32 bp):
GAAAGGGGGAGGAGAGGGAAAGGGGGAAAGGG
Found at i:60354526 original size:30 final size:27
Alignment explanation
Indices: 60354474--60354528 Score: 74
Period size: 30 Copynumber: 1.9 Consensus size: 27
60354464 GAGAGAAAGA
60354474 AGGTGAGGGAGGGAGGGAAAGGGGGAG
1 AGGTGAGGGAGGGAGGGAAAGGGGGAG
*
60354501 AGGTGAGGAGAGAGAGAGGGGAAGGGGG
1 AGGTGAGG-GAG-G-GAGGGAAAGGGGG
60354529 GGGGGAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 8 0.33
28 3 0.12
29 1 0.04
30 12 0.50
ACGTcount: A:0.31, C:0.00, G:0.65, T:0.04
Consensus pattern (27 bp):
AGGTGAGGGAGGGAGGGAAAGGGGGAG
Found at i:60354564 original size:14 final size:15
Alignment explanation
Indices: 60354530--60354577 Score: 62
Period size: 14 Copynumber: 3.1 Consensus size: 15
60354520 GGAAGGGGGG
*
60354530 GGGGAAAAAGGAGAGA
1 GGGGAAGAA-GAGAGA
60354546 GGGGAAGAAGAGA-A
1 GGGGAAGAAGAGAGA
60354560 GGGGAAGAAGAGGAGA
1 GGGGAAGAAGA-GAGA
60354576 GG
1 GG
60354578 TAGGAGGAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 12 0.41
15 6 0.21
16 11 0.38
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (15 bp):
GGGGAAGAAGAGAGA
Found at i:60354575 original size:17 final size:17
Alignment explanation
Indices: 60354530--60354576 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
60354520 GGAAGGGGGG
60354530 GGGGAA-AAAGGAGAGA
1 GGGGAAGAAAGGAGAGA
60354546 GGGGAAG-AA-GAGA-A
1 GGGGAAGAAAGGAGAGA
60354560 GGGGAAGAAGAGGAGAG
1 GGGGAAGAA-AGGAGAG
60354577 GTAGGAGGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
14 8 0.31
15 5 0.19
16 9 0.35
17 4 0.15
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (17 bp):
GGGGAAGAAAGGAGAGA
Found at i:60354825 original size:10 final size:10
Alignment explanation
Indices: 60354810--60354866 Score: 53
Period size: 10 Copynumber: 5.5 Consensus size: 10
60354800 GGAGGGAGAG
60354810 GAGGGGGGGA
1 GAGGGGGGGA
60354820 GAGGGGGGGGGA
1 GA--GGGGGGGA
* *
60354832 GAGAGGAGGA
1 GAGGGGGGGA
60354842 G-GGAGGGGGA
1 GAGG-GGGGGA
*
60354852 GAGGAGGGGA
1 GAGGGGGGGA
60354862 GAGGG
1 GAGGG
60354867 AGCAGGGGGG
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
9 1 0.03
10 24 0.65
11 2 0.05
12 10 0.27
ACGTcount: A:0.25, C:0.00, G:0.75, T:0.00
Consensus pattern (10 bp):
GAGGGGGGGA
Found at i:60354849 original size:22 final size:22
Alignment explanation
Indices: 60354799--60354868 Score: 72
Period size: 20 Copynumber: 3.2 Consensus size: 22
60354789 GGAAGAAGGG
* * *
60354799 GGGAGGGAGAGGAGGGGGGGAGA
1 GGGAGGGGGA-GAGGAGGAGAGA
*
60354822 GGGGGGGGGAGA-GAGGAG-GA
1 GGGAGGGGGAGAGGAGGAGAGA
*
60354842 GGGAGGGGGAGAGGAGGGGAGA
1 GGGAGGGGGAGAGGAGGAGAGA
60354864 GGGAG
1 GGGAG
60354869 CAGGGGGGGG
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
20 13 0.33
21 9 0.23
22 9 0.23
23 8 0.21
ACGTcount: A:0.26, C:0.00, G:0.74, T:0.00
Consensus pattern (22 bp):
GGGAGGGGGAGAGGAGGAGAGA
Found at i:60354855 original size:32 final size:29
Alignment explanation
Indices: 60354787--60354880 Score: 102
Period size: 30 Copynumber: 3.2 Consensus size: 29
60354777 GGAGAAAGGA
* * *
60354787 GGGGAAGAAGGGGGGAGGGA-GAGGAGGG
1 GGGGGAGAGGGGGGGAGAGAGGAGGAGGG
*
60354815 GGGGAGAGGGGGGGGGAGAGAGGAGGAGGG
1 GGGG-GAGAGGGGGGGAGAGAGGAGGAGGG
* *
60354845 AGGGGGAGAGGAGGGGAGAG-GGAGCAGGG
1 -GGGGGAGAGGGGGGGAGAGAGGAGGAGGG
60354874 GGGGGAG
1 GGGGGAG
60354881 TAGAGCGGAG
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
28 11 0.20
29 20 0.36
30 21 0.38
31 4 0.07
ACGTcount: A:0.26, C:0.01, G:0.73, T:0.00
Consensus pattern (29 bp):
GGGGGAGAGGGGGGGAGAGAGGAGGAGGG
Found at i:60354873 original size:25 final size:24
Alignment explanation
Indices: 60354692--60354875 Score: 91
Period size: 25 Copynumber: 7.6 Consensus size: 24
60354682 GAGGAGAGAT
*
60354692 AGAGGGGGAGGGGGAGATGGAAGGAGG
1 AGAGGGAGAGGGGGAGA-GG-AGG-GG
* * *
60354719 A-AGAAGAGAGGGGGAG-GGA-AGA
1 AGAG-GGAGAGGGGGAGAGGAGGGG
* *
60354741 AGAAGGAGAGGGGGAAAGGGAGGGG
1 AGAGGGAGAGGGGGAGA-GGAGGGG
*
60354766 AGGAGGGAG-GGGGAGAAAGGAGGGG
1 A-GAGGGAGAGGGG-GAGAGGAGGGG
* * *
60354791 AAGAAGGGGGGAGGGAGAGGAGGGGGGG
1 -AG-A-GGGAGAGGGGGA-GAGGAGGGG
*
60354819 AGAGGG-G-GGGGGAGA-GAGGAG
1 AGAGGGAGAGGGGGAGAGGAGGGG
60354840 -GA-GG-GAGGGGGAGAGGAGGGG
1 AGAGGGAGAGGGGGAGAGGAGGGG
60354861 AGAGGGAGCAGGGGG
1 AGAGGGAG-AGGGGG
60354876 GGGAGTAGAG
Statistics
Matches: 121, Mismatches: 18, Indels: 38
0.68 0.10 0.21
Matches are distributed among these distances:
19 3 0.02
20 10 0.08
21 9 0.07
22 16 0.13
23 8 0.07
24 6 0.05
25 25 0.21
26 15 0.12
27 19 0.16
28 10 0.08
ACGTcount: A:0.32, C:0.01, G:0.67, T:0.01
Consensus pattern (24 bp):
AGAGGGAGAGGGGGAGAGGAGGGG
Found at i:60354890 original size:28 final size:30
Alignment explanation
Indices: 60354829--60354891 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 30
60354819 AGAGGGGGGG
* *
60354829 GGAGAGAGGAGGAGGGAGGGGGAGAGGAGG
1 GGAGAGAGGAGCAGGGAGGGGGAGAGGAGC
60354859 GGAGAG-GGAGCAGGG-GGGGGAGTA-GAGC
1 GGAGAGAGGAGCAGGGAGGGGGAG-AGGAGC
60354887 GGAGA
1 GGAGA
60354892 AAAAGAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 15 0.50
29 9 0.30
30 6 0.20
ACGTcount: A:0.29, C:0.03, G:0.67, T:0.02
Consensus pattern (30 bp):
GGAGAGAGGAGCAGGGAGGGGGAGAGGAGC
Found at i:60354982 original size:12 final size:12
Alignment explanation
Indices: 60354935--60354994 Score: 53
Period size: 12 Copynumber: 5.4 Consensus size: 12
60354925 GGGTAATGGC
60354935 GGAGGAAGGAGA-
1 GGAGG-AGGAGAG
60354947 GGAGGAGGCAG-G
1 GGAGGAGG-AGAG
60354959 GGAGGA-GA-AG
1 GGAGGAGGAGAG
60354969 GGAGGAGGAGAG
1 GGAGGAGGAGAG
60354981 GG-GG-GGA-AG
1 GGAGGAGGAGAG
60354990 GGAGG
1 GGAGG
60354995 GAGGGGAGAA
Statistics
Matches: 42, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
9 4 0.10
10 13 0.31
11 8 0.19
12 17 0.40
ACGTcount: A:0.32, C:0.02, G:0.67, T:0.00
Consensus pattern (12 bp):
GGAGGAGGAGAG
Found at i:60354991 original size:21 final size:24
Alignment explanation
Indices: 60354938--60354994 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 24
60354928 TAATGGCGGA
60354938 GGAAGGAGAGGAGGAGGCAGGGGAG
1 GGAAGG-GAGGAGGAGGCAGGGGAG
60354963 GAGAAGGGAGGAGGA-G-AGGGG-G
1 G-GAAGGGAGGAGGAGGCAGGGGAG
60354985 GGAAGGGAGG
1 GGAAGGGAGG
60354995 GAGGGGAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
21 9 0.29
22 2 0.06
23 5 0.16
24 1 0.03
25 9 0.29
26 5 0.16
ACGTcount: A:0.32, C:0.02, G:0.67, T:0.00
Consensus pattern (24 bp):
GGAAGGGAGGAGGAGGCAGGGGAG
Found at i:60355097 original size:24 final size:23
Alignment explanation
Indices: 60355069--60355123 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
60355059 AAAGGGGGAG
**
60355069 GGGAGGAGAAGGGGAAGAAGGAA
1 GGGAGGAGAAGGAAAAGAAGGAA
* *
60355092 GAGGAGGGGATGGAAAAGAAGGAA
1 G-GGAGGAGAAGGAAAAGAAGGAA
60355116 GGGAGGAG
1 GGGAGGAG
60355124 GAGAGGAGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.42, C:0.00, G:0.56, T:0.02
Consensus pattern (23 bp):
GGGAGGAGAAGGAAAAGAAGGAA
Found at i:60355232 original size:27 final size:28
Alignment explanation
Indices: 60355184--60355249 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 28
60355174 AGGAGGAGGG
60355184 GAAGGAAGGGAGGTTAAGGGATAAG-GAA
1 GAAGGAAGGGAGG-TAAGGGATAAGAGAA
60355212 -AAGGAAGGGAGG-AAGTAGGATAAGAGAA
1 GAAGGAAGGGAGGTAAG--GGATAAGAGAA
60355240 GAAGGGAAGG
1 GAA-GGAAGG
60355250 AGGGTAGGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
25 3 0.09
27 19 0.58
28 3 0.09
29 2 0.06
30 6 0.18
ACGTcount: A:0.45, C:0.00, G:0.47, T:0.08
Consensus pattern (28 bp):
GAAGGAAGGGAGGTAAGGGATAAGAGAA
Found at i:60355256 original size:27 final size:26
Alignment explanation
Indices: 60355185--60355258 Score: 64
Period size: 27 Copynumber: 2.7 Consensus size: 26
60355175 GGAGGAGGGG
*
60355185 AAGGAAGGGAGG-TTAAGGGATAAGGAA
1 AAGGAAGGGAGGAGT-A-GGATAAGGAA
60355212 AAGGAAGGGAGGAAGTAGGATAAGAGAA
1 AAGGAAGGGAGG-AGTAGGATAAG-GAA
60355240 GAAGGGAA-GGAGG-GTAGGA
1 -AA-GGAAGGGAGGAGTAGGA
60355259 GGAGGGAGGG
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
27 25 0.61
28 4 0.10
29 8 0.20
30 4 0.10
ACGTcount: A:0.45, C:0.00, G:0.47, T:0.08
Consensus pattern (26 bp):
AAGGAAGGGAGGAGTAGGATAAGGAA
Done.