Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 125 of 141
Found at i:37246037 original size:23 final size:22
Alignment explanation
Indices: 37245963--37246091 Score: 102
Period size: 23 Copynumber: 5.7 Consensus size: 22
37245953 ATAGTATATA
*
37245963 ATAAATTTAAAA-ATATTAATG
1 ATAAATTTAAAATAAATTAATG
* *
37245984 ATAAATTTGAAATAGATATACATG
1 ATAAATTTAAAATAAAT-TA-ATG
37246008 ATAAATTTAAAATAAAGTTAATG
1 ATAAATTTAAAATAAA-TTAATG
* * *
37246031 ATGAATTTAAAATAATAATATTG
1 ATAAATTTAAAATAA-ATTAATG
*
37246054 ATAAA-TTAGAAAT-AATAAACATG
1 ATAAATTTA-AAATAAAT-TA-ATG
*
37246077 ATAAATCTAAAATAA
1 ATAAATTTAAAATAA
37246092 TAATATACAA
Statistics
Matches: 86, Mismatches: 12, Indels: 17
0.75 0.10 0.15
Matches are distributed among these distances:
21 12 0.14
22 8 0.09
23 42 0.49
24 23 0.27
25 1 0.01
ACGTcount: A:0.57, C:0.02, G:0.08, T:0.33
Consensus pattern (22 bp):
ATAAATTTAAAATAAATTAATG
Found at i:37246044 original size:47 final size:45
Alignment explanation
Indices: 37245937--37246096 Score: 139
Period size: 46 Copynumber: 3.5 Consensus size: 45
37245927 TAATCATATG
** * * *
37245937 TGATAAATCCAAAATAATAGTATATAATAAATTTAAAA-ATATTAA
1 TGATAAATTTAAAATAATAATA-ATGATAAATTTAAAATAAATTAA
*
37245982 TGATAAATTTGAAATAGAT-ATACATGATAAATTTAAAATAAAGTTAA
1 TGATAAATTTAAAATA-ATAATA-ATGATAAATTTAAAATAAA-TTAA
* * *
37246029 TGATGAATTTAAAATAATAATATTGATAAA-TTAGAAAT-AATAAACA
1 TGATAAATTTAAAATAATAATAATGATAAATTTA-AAATAAAT-TA-A
*
37246075 TGATAAATCTAAAATAATAATA
1 TGATAAATTTAAAATAATAATA
37246097 TACAATACAC
Statistics
Matches: 95, Mismatches: 13, Indels: 13
0.79 0.11 0.11
Matches are distributed among these distances:
44 1 0.01
45 35 0.37
46 38 0.40
47 21 0.22
ACGTcount: A:0.56, C:0.03, G:0.07, T:0.33
Consensus pattern (45 bp):
TGATAAATTTAAAATAATAATAATGATAAATTTAAAATAAATTAA
Found at i:37257255 original size:8 final size:8
Alignment explanation
Indices: 37257244--37257287 Score: 56
Period size: 8 Copynumber: 5.8 Consensus size: 8
37257234 ATCCCTCACA
37257244 CTCTCATT
1 CTCTCATT
37257252 CTCTCATT
1 CTCTCATT
37257260 CTCTC-TT
1 CTCTCATT
*
37257267 CTC-CTTT
1 CTCTCATT
*
37257274 CTCTCTTT
1 CTCTCATT
37257282 CTCTCA
1 CTCTCA
37257288 ACTTTTCCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
6 1 0.03
7 10 0.30
8 22 0.67
ACGTcount: A:0.07, C:0.41, G:0.00, T:0.52
Consensus pattern (8 bp):
CTCTCATT
Found at i:37257275 original size:14 final size:15
Alignment explanation
Indices: 37257244--37257287 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
37257234 ATCCCTCACA
37257244 CTCTCATTCTCTCATT
1 CTCTC-TTCTCTCATT
*
37257260 CTCTCTTCTC-CTTT
1 CTCTCTTCTCTCATT
37257274 CTCTCTTTCTCTCA
1 CTCTC-TTCTCTCA
37257288 ACTTTTCCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 8 0.33
15 10 0.42
16 6 0.25
ACGTcount: A:0.07, C:0.41, G:0.00, T:0.52
Consensus pattern (15 bp):
CTCTCTTCTCTCATT
Found at i:37264416 original size:11 final size:10
Alignment explanation
Indices: 37264399--37264435 Score: 51
Period size: 9 Copynumber: 3.8 Consensus size: 10
37264389 AGTCGTGTGT
37264399 TTTATTTTTG
1 TTTATTTTTG
37264409 TTTCATTTTTG
1 TTT-ATTTTTG
37264420 TTT-TTTTTG
1 TTTATTTTTG
37264429 TTT-TTTT
1 TTTATTTT
37264436 ATTTCTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 13 0.50
10 3 0.12
11 10 0.38
ACGTcount: A:0.05, C:0.03, G:0.08, T:0.84
Consensus pattern (10 bp):
TTTATTTTTG
Found at i:37269370 original size:27 final size:27
Alignment explanation
Indices: 37269339--37269513 Score: 181
Period size: 27 Copynumber: 6.4 Consensus size: 27
37269329 TAAATTGTAC
*
37269339 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
37269366 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
37269392 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
37269420 GGCACTAAGTGTGCGAGATGGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * * *
37269448 GGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
37269475 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
37269502 AGCACTGAGTGT
1 AGCACTAAGTGT
37269514 ACGGGCTCAA
Statistics
Matches: 124, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 100 0.81
28 24 0.19
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:37269400 original size:54 final size:55
Alignment explanation
Indices: 37269340--37269490 Score: 198
Period size: 55 Copynumber: 2.8 Consensus size: 55
37269330 AAATTGTACA
*
37269340 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAAT-GAATATGAT-
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGGAATATG-TG
* * ** * *
37269394 GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGATGGACTATGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGGAATATGTG
* *
37269449 GCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGA
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGA
37269491 GTTGATTATA
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
54 41 0.49
55 42 0.51
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (55 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGGAATATGTG
Found at i:37269455 original size:82 final size:81
Alignment explanation
Indices: 37269340--37269495 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
37269330 AAATTGTACA
* * * *
37269340 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGAATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
37269404 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
37269421 GCACTAAGTGTGCGAGATGGACTATGTGGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-ATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
37269486 TGCGAGTTGA
65 TGCGAATTGA
37269496 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 15 0.23
82 49 0.75
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:37269507 original size:82 final size:81
Alignment explanation
Indices: 37269336--37269513 Score: 205
Period size: 82 Copynumber: 2.2 Consensus size: 81
37269326 GATTAAATTG
* * * *
37269336 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAA
37269401 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
37269417 TGCGGCACTAAGTGTGCGAGATGGACTATGTGGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-ATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
37269481 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
37269499 TATAGCACTGAGTGT
1 TACAGCACTAAGTGT
37269514 ACGGGCTCAA
Statistics
Matches: 79, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 18 0.23
82 61 0.77
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:37270110 original size:29 final size:29
Alignment explanation
Indices: 37270072--37270128 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
37270062 TTTGGTACTT
*
37270072 TCTTCTTAGTGTGTTTAGAAGATCATTTC
1 TCTTCTTAGTGTGCTTAGAAGATCATTTC
37270101 TCTTCTTAGTGTGCTTAGAAGATCATTT
1 TCTTCTTAGTGTGCTTAGAAGATCATTT
37270129 TGGCATGTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.21, C:0.14, G:0.18, T:0.47
Consensus pattern (29 bp):
TCTTCTTAGTGTGCTTAGAAGATCATTTC
Found at i:37272428 original size:129 final size:129
Alignment explanation
Indices: 37272198--37272462 Score: 530
Period size: 129 Copynumber: 2.1 Consensus size: 129
37272188 ACCATCTTTC
37272198 TTTGGTACCAATAAGACAGGAACGGCACAAGGGCTTAGGCTCTCACGAATGTACCCTTTGTCTAG
1 TTTGGTACCAATAAGACAGGAACGGCACAAGGGCTTAGGCTCTCACGAATGTACCCTTTGTCTAG
37272263 TAATTCCTCAACTAGCCTTTACAATTCCTTTGTCTCCTCGGGATTGCATCTATAGGCTGGTCGA
66 TAATTCCTCAACTAGCCTTTACAATTCCTTTGTCTCCTCGGGATTGCATCTATAGGCTGGTCGA
37272327 TTTGGTACCAATAAGACAGGAACGGCACAAGGGCTTAGGCTCTCACGAATGTACCCTTTGTCTAG
1 TTTGGTACCAATAAGACAGGAACGGCACAAGGGCTTAGGCTCTCACGAATGTACCCTTTGTCTAG
37272392 TAATTCCTCAACTAGCCTTTACAATTCCTTTGTCTCCTCGGGATTGCATCTATAGGCTGGTCGA
66 TAATTCCTCAACTAGCCTTTACAATTCCTTTGTCTCCTCGGGATTGCATCTATAGGCTGGTCGA
37272456 TTTGGTA
1 TTTGGTA
37272463 TTGAAGCTCC
Statistics
Matches: 136, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
129 136 1.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (129 bp):
TTTGGTACCAATAAGACAGGAACGGCACAAGGGCTTAGGCTCTCACGAATGTACCCTTTGTCTAG
TAATTCCTCAACTAGCCTTTACAATTCCTTTGTCTCCTCGGGATTGCATCTATAGGCTGGTCGA
Found at i:37279144 original size:15 final size:14
Alignment explanation
Indices: 37279124--37279153 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
37279114 AAATCCCACA
37279124 AATTTAGTCACTTGC
1 AATTTAGTCA-TTGC
37279139 AATTTAGTCATTGC
1 AATTTAGTCATTGC
37279153 A
1 A
37279154 CTATTTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (14 bp):
AATTTAGTCATTGC
Found at i:37287060 original size:13 final size:13
Alignment explanation
Indices: 37287018--37287073 Score: 67
Period size: 13 Copynumber: 4.3 Consensus size: 13
37287008 TGATATTAGT
37287018 TTTTCAAGATATG
1 TTTTCAAGATATG
* *
37287031 TTTCCAAGTTATG
1 TTTTCAAGATATG
*
37287044 TTTTCAAGCTATG
1 TTTTCAAGATATG
* *
37287057 TTTTAAAAATATG
1 TTTTCAAGATATG
37287070 TTTT
1 TTTT
37287074 ATGCGTGCTC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.29, C:0.09, G:0.12, T:0.50
Consensus pattern (13 bp):
TTTTCAAGATATG
Found at i:37292540 original size:10 final size:10
Alignment explanation
Indices: 37292525--37292551 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
37292515 CAATTTGAGG
37292525 CTAAATTCAC
1 CTAAATTCAC
37292535 CTAAATTCAC
1 CTAAATTCAC
37292545 CTAAATT
1 CTAAATT
37292552 AATTTTCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.26, G:0.00, T:0.33
Consensus pattern (10 bp):
CTAAATTCAC
Found at i:37300203 original size:15 final size:14
Alignment explanation
Indices: 37300183--37300229 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
37300173 AATTAAAAAT
37300183 AACTAAGTTAGATAA
1 AACTAAGTTA-ATAA
37300198 AACTAA---AATAA
1 AACTAAGTTAATAA
37300209 AACTAAGTTAAATAA
1 AACTAAGTT-AATAA
37300224 AACTAA
1 AACTAA
37300230 CAAAATTAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
11 10 0.36
12 1 0.04
15 17 0.61
ACGTcount: A:0.62, C:0.09, G:0.06, T:0.23
Consensus pattern (14 bp):
AACTAAGTTAATAA
Found at i:37310558 original size:25 final size:25
Alignment explanation
Indices: 37310524--37310576 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
37310514 CACAACTCAA
* *
37310524 TTACATCACCACAGGGAAAGAATTG
1 TTACACCACCACAGAGAAAGAATTG
*
37310549 TTACACCACCACAGAGAAATAATTG
1 TTACACCACCACAGAGAAAGAATTG
37310574 TTA
1 TTA
37310577 GCAATGGTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.23
Consensus pattern (25 bp):
TTACACCACCACAGAGAAAGAATTG
Found at i:37320298 original size:38 final size:39
Alignment explanation
Indices: 37320249--37320338 Score: 137
Period size: 39 Copynumber: 2.3 Consensus size: 39
37320239 CGAATCATAA
37320249 GTACTGAAGTACAACAAGGGCA-GTATGTGCATTCAGGG
1 GTACTGAAGTACAACAAGGGCATGTATGTGCATTCAGGG
* * * *
37320287 GTACCGAAGTACAACAGGGGCATGTGTGTGCATTTAGGG
1 GTACTGAAGTACAACAAGGGCATGTATGTGCATTCAGGG
37320326 GTACTGAAGTACA
1 GTACTGAAGTACA
37320339 GTACGGTATA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
38 20 0.43
39 26 0.57
ACGTcount: A:0.30, C:0.16, G:0.32, T:0.22
Consensus pattern (39 bp):
GTACTGAAGTACAACAAGGGCATGTATGTGCATTCAGGG
Found at i:37323011 original size:39 final size:39
Alignment explanation
Indices: 37322915--37323013 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
37322905 GTTCACTTCT
* * * * * *
37322915 AAGCATATATCACATTACACATATGATTACATGATGTTC
1 AAGCATATATCACAATACTCACATAATCACATAATGTTC
* ** *
37322954 AAGCACATATTGCAATACTCACATAATCGCATAATGTTC
1 AAGCATATATCACAATACTCACATAATCACATAATGTTC
37322993 AAGCATATATCACAATACTCA
1 AAGCATATATCACAATACTCA
37323014 AAAACAAGTT
Statistics
Matches: 47, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.29
Consensus pattern (39 bp):
AAGCATATATCACAATACTCACATAATCACATAATGTTC
Found at i:37327866 original size:73 final size:72
Alignment explanation
Indices: 37327694--37327866 Score: 163
Period size: 73 Copynumber: 2.4 Consensus size: 72
37327684 TTATACTTTC
* * * * * **
37327694 GAAATAATATGCA-CCCAACGCTTGTCA-TATGTAATCGAGTATATGTGTGCCCAGCACTCGTTG
1 GAAATAATATG-AGCCCAACGCTTGTCAGTATGTAACCAAGTAAATGTGTGCCCAACACTCATCA
* ** *
37327757 GAATGTTT
65 AAACATAT
* * *
37327765 AAAATAATATGAGCCCAAAG-TTCATCAGTATGTAACCAAGTAAAATGTGTGCCCAACACTCATC
1 GAAATAATATGAGCCCAACGCTT-GTCAGTATGTAACCAAGT-AAATGTGTGCCCAACACTCATC
37327829 AAAACATAT
64 AAAACATAT
*
37327838 GAAATAATATGTGCCCAACGCTTGTCAGT
1 GAAATAATATGAGCCCAACGCTTGTCAGT
37327867 GTAAAATTGA
Statistics
Matches: 79, Mismatches: 18, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
70 3 0.04
71 19 0.24
72 11 0.14
73 44 0.56
74 2 0.03
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.27
Consensus pattern (72 bp):
GAAATAATATGAGCCCAACGCTTGTCAGTATGTAACCAAGTAAATGTGTGCCCAACACTCATCAA
AACATAT
Found at i:37330740 original size:11 final size:10
Alignment explanation
Indices: 37330723--37330773 Score: 57
Period size: 11 Copynumber: 4.7 Consensus size: 10
37330713 ACAAACTGAA
37330723 ACACCACCAT
1 ACACCACCAT
*
37330733 ATCACCACTAT
1 A-CACCACCAT
37330744 ACAACCACCAT
1 AC-ACCACCAT
37330755 AGCACCACCAT
1 A-CACCACCAT
37330766 ACCACCAC
1 A-CACCAC
37330774 TCTTGTACCA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
10 2 0.06
11 32 0.91
12 1 0.03
ACGTcount: A:0.39, C:0.47, G:0.02, T:0.12
Consensus pattern (10 bp):
ACACCACCAT
Found at i:37330753 original size:22 final size:22
Alignment explanation
Indices: 37330725--37330773 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
37330715 AAACTGAAAC
* *
37330725 ACCACCATATCACCACTATACA
1 ACCACCATAGCACCACCATACA
*
37330747 ACCACCATAGCACCACCATACC
1 ACCACCATAGCACCACCATACA
37330769 ACCAC
1 ACCAC
37330774 TCTTGTACCA
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:0.39, C:0.47, G:0.02, T:0.12
Consensus pattern (22 bp):
ACCACCATAGCACCACCATACA
Found at i:37336231 original size:39 final size:39
Alignment explanation
Indices: 37336120--37336338 Score: 240
Period size: 39 Copynumber: 5.5 Consensus size: 39
37336110 TGTGAATCAT
* * * *
37336120 GGGTACCGAAGTACAACAGGGGCACATATGTGAATGATTAAG
1 GGGTACCGAAGTACAATAGGGGCACGTATGTG---CATTCAG
* * * *
37336162 GGGTACCAAAGTAAAATAGGGTCACATATGTGCATTCAG
1 GGGTACCGAAGTACAATAGGGGCACGTATGTGCATTCAG
* * * * *
37336201 GGGTATCGAAGTACAACAGGGGCACGTATGTACTTTTAG
1 GGGTACCGAAGTACAATAGGGGCACGTATGTGCATTCAG
* * *
37336240 GGGTATCGAAGTACAATAGGGGCACGCATGTACATTCAG
1 GGGTACCGAAGTACAATAGGGGCACGTATGTGCATTCAG
* *
37336279 GGGTACAGAAGTACAATAGGGGCAAGTATGTGCATTCAG
1 GGGTACCGAAGTACAATAGGGGCACGTATGTGCATTCAG
*
37336318 GGGTACCAAAGTACAATAGGG
1 GGGTACCGAAGTACAATAGGG
37336339 TATAATTATA
Statistics
Matches: 151, Mismatches: 26, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
39 123 0.81
42 28 0.19
ACGTcount: A:0.33, C:0.15, G:0.31, T:0.21
Consensus pattern (39 bp):
GGGTACCGAAGTACAATAGGGGCACGTATGTGCATTCAG
Found at i:37336261 original size:19 final size:18
Alignment explanation
Indices: 37336199--37336300 Score: 69
Period size: 19 Copynumber: 5.3 Consensus size: 18
37336189 ATGTGCATTC
*
37336199 AGGGGTATCGAAGTACAAC
1 AGGGGTA-CGAAGTACAAT
* * **
37336218 AGGGGCACGTATGTACTTTT
1 AGGGGTACG-AAGTAC-AAT
37336238 AGGGGTATCGAAGTACAAT
1 AGGGGTA-CGAAGTACAAT
* * *
37336257 AGGGGCACGCATGTACATT
1 AGGGGTACG-AAGTACAAT
37336276 CAGGGGTACAGAAGTACAAT
1 -AGGGGTAC-GAAGTACAAT
37336296 AGGGG
1 AGGGG
37336301 CAAGTATGTG
Statistics
Matches: 62, Mismatches: 15, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
18 4 0.06
19 30 0.48
20 25 0.40
21 3 0.05
ACGTcount: A:0.31, C:0.15, G:0.33, T:0.21
Consensus pattern (18 bp):
AGGGGTACGAAGTACAAT
Found at i:37336292 original size:20 final size:20
Alignment explanation
Indices: 37336269--37336332 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
37336259 GGGCACGCAT
37336269 GTACATTCAGGGGTACAGAA
1 GTACATTCAGGGGTACAGAA
* * *
37336289 GTACAAT-AGGGGCA-AGTAT
1 GTACATTCAGGGGTACAG-AA
*
37336308 GTGCATTCAGGGGTACCA-AA
1 GTACATTCAGGGGTA-CAGAA
37336328 GTACA
1 GTACA
37336333 ATAGGGTATA
Statistics
Matches: 32, Mismatches: 8, Indels: 8
0.67 0.17 0.17
Matches are distributed among these distances:
18 2 0.06
19 12 0.38
20 17 0.53
22 1 0.03
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.20
Consensus pattern (20 bp):
GTACATTCAGGGGTACAGAA
Found at i:37350519 original size:29 final size:29
Alignment explanation
Indices: 37350483--37350549 Score: 109
Period size: 29 Copynumber: 2.3 Consensus size: 29
37350473 ACAAAGTTTA
*
37350483 CCAC-AAGGCATTCATTTAATAGAGATAG
1 CCACAAAGGCATCCATTTAATAGAGATAG
*
37350511 CCACAAAGGCATCCATTTAATAGATATAG
1 CCACAAAGGCATCCATTTAATAGAGATAG
37350540 CCACAAAGGC
1 CCACAAAGGC
37350550 TTCCTTATAC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 4 0.11
29 32 0.89
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.21
Consensus pattern (29 bp):
CCACAAAGGCATCCATTTAATAGAGATAG
Found at i:37363059 original size:20 final size:20
Alignment explanation
Indices: 37363034--37363073 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
37363024 CGGAAAATGA
*
37363034 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
37363054 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
37363074 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:37363234 original size:22 final size:22
Alignment explanation
Indices: 37363160--37363236 Score: 67
Period size: 20 Copynumber: 3.8 Consensus size: 22
37363150 TTTGGAAAAG
*
37363160 TTATTTTTAGATATA--TTAAA
1 TTATTTTTACATATATTTTAAA
* *
37363180 TTGTTTTTACATATATATT-AA
1 TTATTTTTACATATATTTTAAA
* *
37363201 TAAATTTT---TATATTTTAAA
1 TTATTTTTACATATATTTTAAA
37363220 TTATTTTTACATATATT
1 TTATTTTTACATATATT
37363237 GCAATGATTT
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
18 7 0.16
19 8 0.19
20 13 0.30
21 7 0.16
22 8 0.19
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (22 bp):
TTATTTTTACATATATTTTAAA
Found at i:37363381 original size:15 final size:15
Alignment explanation
Indices: 37363358--37363388 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
37363348 TAAAGCCAAG
37363358 GATGAGATTGATGAT
1 GATGAGATTGATGAT
*
37363373 GATGTGATTGATGAT
1 GATGAGATTGATGAT
37363388 G
1 G
37363389 TCAATATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.35
Consensus pattern (15 bp):
GATGAGATTGATGAT
Found at i:37364323 original size:17 final size:15
Alignment explanation
Indices: 37364299--37364341 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 15
37364289 GTGTATATAT
*
37364299 AAAAACAAATGTTTG
1 AAAAACAAATGTTTC
37364314 AATGAAACAAATGTTTC
1 AA--AAACAAATGTTTC
37364331 AAAAACAAATG
1 AAAAACAAATG
37364342 CCATGCCATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 11 0.44
17 14 0.56
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.23
Consensus pattern (15 bp):
AAAAACAAATGTTTC
Found at i:37366283 original size:13 final size:13
Alignment explanation
Indices: 37366265--37366290 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37366255 CCAGAAACTG
37366265 ATTTGCAGAAAAC
1 ATTTGCAGAAAAC
37366278 ATTTGCAGAAAAC
1 ATTTGCAGAAAAC
37366291 TACCCATTTG
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:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (13 bp):
ATTTGCAGAAAAC
Found at i:37372692 original size:43 final size:45
Alignment explanation
Indices: 37372642--37372745 Score: 149
Period size: 43 Copynumber: 2.4 Consensus size: 45
37372632 GCAAGGTATC
*
37372642 TGCAAAACTGAGAAGATAATAAGAA-AAGGAAA-ACACAGATGTT
1 TGCAAAACTGAGAAGATAATAAGAACAAGAAAATACACAGATGTT
* *
37372685 TGCAAAACTGAGATGATAATAAGAACAAGAAAATACATAGATGTT
1 TGCAAAACTGAGAAGATAATAAGAACAAGAAAATACACAGATGTT
* *
37372730 TACAAAACAGAGAAGA
1 TGCAAAACTGAGAAGA
37372746 ACATAGTGGT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
43 24 0.45
44 6 0.11
45 23 0.43
ACGTcount: A:0.54, C:0.10, G:0.19, T:0.17
Consensus pattern (45 bp):
TGCAAAACTGAGAAGATAATAAGAACAAGAAAATACACAGATGTT
Found at i:37375866 original size:40 final size:39
Alignment explanation
Indices: 37375835--37376044 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
37375825 GGACTAAGAT
* *
37375835 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
37375875 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
37375915 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* ** *
37375955 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
37375995 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
37376034 CCGAAGGCATT
1 CCGAAGGCATT
37376045 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 13, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
39 33 0.22
40 117 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:37375998 original size:120 final size:120
Alignment explanation
Indices: 37375782--37376044 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
37375772 TTGAATGCTG
* *
37375782 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
37375846 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
37375902 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * * *
37375965 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
37376021 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
37376045 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
119 38 0.32
120 73 0.61
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:37376064 original size:79 final size:80
Alignment explanation
Indices: 37375835--37376079 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 80
37375825 GGACTAAGAT
* * * * * * * ** *
37375835 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
37375898 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
37375915 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
37375980 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
37375995 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
37376059 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
37376073 CCGAAGG
1 CCGAAGG
37376080 TACGTGATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.10
79 46 0.33
80 75 0.54
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:37383898 original size:39 final size:39
Alignment explanation
Indices: 37383734--37383916 Score: 170
Period size: 40 Copynumber: 4.6 Consensus size: 39
37383724 TTGAATGCTG
* * * * * * *
37383734 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTATGTCCCGAAGGCATTGTGC-GAGTTACTAAA
* * * *
37383774 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTATG-TCCCGAAGG-CATTGTGCGAGTTACTAAA
* **
37383814 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTATGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
37383854 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
37383893 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTATGTCCCGAAGGCATT
37383917 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
39 38 0.31
40 74 0.61
41 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:37383936 original size:79 final size:80
Alignment explanation
Indices: 37383770--37383951 Score: 190
Period size: 79 Copynumber: 2.3 Consensus size: 80
37383760 GCTAAGTGAA
* * * *
37383770 TATATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGG
1 TATATCCGGGTTAAG-TCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGG
** ** *
37383834 CATTCGTGCGAGTTGT
65 CATTCGAACGAGGAGC
* * * * *
37383850 TAAATCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
*
37383914 ATTTGAACGAGGAGC
66 ATTCGAACGAGGAGC
*
37383929 TATATCC-GGTTAAATCCCGAAGG
1 TATATCCGGGTTAAGTCCCGAAGG
37383952 TACGTGATTT
Statistics
Matches: 83, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
78 14 0.17
79 50 0.60
80 19 0.23
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (80 bp):
TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
ATTCGAACGAGGAGC
Found at i:37387646 original size:54 final size:54
Alignment explanation
Indices: 37387580--37387717 Score: 172
Period size: 54 Copynumber: 2.6 Consensus size: 54
37387570 ACATTAAAAG
* ** * *
37387580 TTTAATCCAGCAA-GTAAGTGAACTAATTTGAACTTAATTAACTAAGATGAGTAC
1 TTTATTCCAGCAACGTAA-TGAACTAAGATGAACTCAATTAACTAAGATGAGTAA
* *
37387634 TTTATTCCAGCAACTTAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAA
1 TTTATTCCAGCAACGTAATGAACTAAGATGAACTCAATTAACTAAGATGAGTAA
* *
37387688 TTTATTCCAGCAACTTAATTAACTAA-ATGA
1 TTTATTCCAGCAACGTAATGAACTAAGATGA
37387718 GTAATTTATT
Statistics
Matches: 76, Mismatches: 7, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
53 4 0.05
54 69 0.91
55 3 0.04
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (54 bp):
TTTATTCCAGCAACGTAATGAACTAAGATGAACTCAATTAACTAAGATGAGTAA
Found at i:37387672 original size:19 final size:19
Alignment explanation
Indices: 37387645--37387683 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
37387635 TTATTCCAGC
*
37387645 AACTTAATTAACTAAGATG
1 AACTCAATTAACTAAGATG
37387664 AACTCAATTAACTAAGATG
1 AACTCAATTAACTAAGATG
37387683 A
1 A
37387684 GTAATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.49, C:0.13, G:0.10, T:0.28
Consensus pattern (19 bp):
AACTCAATTAACTAAGATG
Found at i:37387723 original size:34 final size:35
Alignment explanation
Indices: 37387664--37387736 Score: 121
Period size: 34 Copynumber: 2.1 Consensus size: 35
37387654 AACTAAGATG
37387664 AACTCAATTAACTAAGATGAGTAATTTATTCCAGC
1 AACTCAATTAACTAAGATGAGTAATTTATTCCAGC
* *
37387699 AACTTAATTAACTAA-ATGAGTAATTTATTCTAGC
1 AACTCAATTAACTAAGATGAGTAATTTATTCCAGC
37387733 AACT
1 AACT
37387737 AAATACTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
34 22 0.61
35 14 0.39
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (35 bp):
AACTCAATTAACTAAGATGAGTAATTTATTCCAGC
Found at i:37387844 original size:20 final size:21
Alignment explanation
Indices: 37387815--37387854 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
37387805 AGCTTGAAGA
* *
37387815 AGCTAGAATTGAGC-TCATTG
1 AGCTAAAATTAAGCTTCATTG
37387835 AGCTAAAATTAAGCTTCATT
1 AGCTAAAATTAAGCTTCATT
37387855 TTGCACTTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (21 bp):
AGCTAAAATTAAGCTTCATTG
Found at i:37390180 original size:142 final size:142
Alignment explanation
Indices: 37389924--37390208 Score: 570
Period size: 142 Copynumber: 2.0 Consensus size: 142
37389914 AGAATTGGCC
37389924 TAAACTTGAAGGGCCCAAGTGCAAGATGAAACATCTCATAGGCCTGATTGATTATTACGCCAATG
1 TAAACTTGAAGGGCCCAAGTGCAAGATGAAACATCTCATAGGCCTGATTGATTATTACGCCAATG
37389989 TTTTTAAAGACTTTTTAATTCAATATAGTTTTATTTAAATTAATAAGTTTGCATATTTTTAATTT
66 TTTTTAAAGACTTTTTAATTCAATATAGTTTTATTTAAATTAATAAGTTTGCATATTTTTAATTT
37390054 TAAACTTGCACT
131 TAAACTTGCACT
37390066 TAAACTTGAAGGGCCCAAGTGCAAGATGAAACATCTCATAGGCCTGATTGATTATTACGCCAATG
1 TAAACTTGAAGGGCCCAAGTGCAAGATGAAACATCTCATAGGCCTGATTGATTATTACGCCAATG
37390131 TTTTTAAAGACTTTTTAATTCAATATAGTTTTATTTAAATTAATAAGTTTGCATATTTTTAATTT
66 TTTTTAAAGACTTTTTAATTCAATATAGTTTTATTTAAATTAATAAGTTTGCATATTTTTAATTT
37390196 TAAACTTGCACT
131 TAAACTTGCACT
37390208 T
1 T
37390209 TGTGTGTTCT
Statistics
Matches: 143, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
142 143 1.00
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (142 bp):
TAAACTTGAAGGGCCCAAGTGCAAGATGAAACATCTCATAGGCCTGATTGATTATTACGCCAATG
TTTTTAAAGACTTTTTAATTCAATATAGTTTTATTTAAATTAATAAGTTTGCATATTTTTAATTT
TAAACTTGCACT
Found at i:37392415 original size:13 final size:13
Alignment explanation
Indices: 37392397--37392422 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37392387 ACCTGAAAGT
37392397 AATTTAATTCATA
1 AATTTAATTCATA
37392410 AATTTAATTCATA
1 AATTTAATTCATA
37392423 TTAGGACACA
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:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
AATTTAATTCATA
Found at i:37392837 original size:20 final size:21
Alignment explanation
Indices: 37392812--37392850 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
37392802 TCAAACAAGC
37392812 AAATGAGCTCAA-TGAGCTGG
1 AAATGAGCTCAATTGAGCTGG
*
37392832 AAATGAGCTGAATTGAGCT
1 AAATGAGCTCAATTGAGCT
37392851 CAACGAGCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.23
Consensus pattern (21 bp):
AAATGAGCTCAATTGAGCTGG
Found at i:37394129 original size:17 final size:17
Alignment explanation
Indices: 37394109--37394162 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
37394099 CTTCACTCGT
37394109 TTTCTTTTCAAACTCTC
1 TTTCTTTTCAAACTCTC
*
37394126 TTTCTTTTTCAATCTCAT-
1 TTTC-TTTTCAAACTC-TC
37394144 TTTGCTTTTC--ACTCTC
1 TTT-CTTTTCAAACTCTC
37394160 TTT
1 TTT
37394163 TGTTTTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
15 1 0.03
16 6 0.19
17 4 0.13
18 18 0.58
19 2 0.06
ACGTcount: A:0.13, C:0.26, G:0.02, T:0.59
Consensus pattern (17 bp):
TTTCTTTTCAAACTCTC
Found at i:37394152 original size:18 final size:18
Alignment explanation
Indices: 37394131--37394182 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
37394121 CTCTCTTTCT
37394131 TTTTCAATCTCATTTTGC
1 TTTTCAATCTCATTTTGC
* *
37394149 TTTTCACTCTC-TTTTGT
1 TTTTCAATCTCATTTTGC
*
37394166 TTTTGAAATCTCATTTT
1 TTTT-CAATCTCATTTT
37394183 CATATTTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
17 9 0.32
18 15 0.54
19 4 0.14
ACGTcount: A:0.15, C:0.19, G:0.06, T:0.60
Consensus pattern (18 bp):
TTTTCAATCTCATTTTGC
Found at i:37394196 original size:6 final size:6
Alignment explanation
Indices: 37394187--37394285 Score: 74
Period size: 6 Copynumber: 16.0 Consensus size: 6
37394177 CATTTTCATA
* * * **
37394187 TTTTTC TTTTTC AATTTTC TTTTCTTC ATTTTC TTTTTC TCTCAC TTTTTC
1 TTTTTC TTTTTC -TTTTTC -TTT-TTC TTTTTC TTTTTC TTTTTC TTTTTC
* * **
37394238 GTTTTC TTTTTC TTTTT- TGTTTTC TTTTTC TTCTTC ACTTTC TTTTTC
1 TTTTTC TTTTTC TTTTTC T-TTTTC TTTTTC TTTTTC TTTTTC TTTTTC
37394286 GAATTCATTA
Statistics
Matches: 70, Mismatches: 19, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
5 1 0.01
6 56 0.80
7 10 0.14
8 3 0.04
ACGTcount: A:0.05, C:0.20, G:0.02, T:0.73
Consensus pattern (6 bp):
TTTTTC
Found at i:37395253 original size:14 final size:13
Alignment explanation
Indices: 37395231--37395280 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
37395221 CTTCAATCCA
37395231 CGATTTTTTTTTT
1 CGATTTTTTTTTT
*
37395244 -TACTTTTTTTTTT
1 CGA-TTTTTTTTTT
37395257 CGATTTTTTTTTT
1 CGATTTTTTTTTT
**
37395270 AAATTTTTTTT
1 CGATTTTTTTT
37395281 AATCACTTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
12 1 0.03
13 29 0.94
14 1 0.03
ACGTcount: A:0.12, C:0.06, G:0.04, T:0.78
Consensus pattern (13 bp):
CGATTTTTTTTTT
Found at i:37395260 original size:26 final size:26
Alignment explanation
Indices: 37395231--37395280 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
37395221 CTTCAATCCA
* *
37395231 CGATTTTTTTTTTTACTTTTTTTTTT
1 CGATTTTTTTTTTAAATTTTTTTTTT
37395257 CGATTTTTTTTTTAAATTTTTTTT
1 CGATTTTTTTTTTAAATTTTTTTT
37395281 AATCACTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.12, C:0.06, G:0.04, T:0.78
Consensus pattern (26 bp):
CGATTTTTTTTTTAAATTTTTTTTTT
Found at i:37396414 original size:13 final size:13
Alignment explanation
Indices: 37396396--37396421 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37396386 ACCTGAAAGC
37396396 AATTTAATTCATA
1 AATTTAATTCATA
37396409 AATTTAATTCATA
1 AATTTAATTCATA
37396422 TTAGGACACA
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:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
AATTTAATTCATA
Found at i:37396836 original size:20 final size:21
Alignment explanation
Indices: 37396811--37396849 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
37396801 TCAAACAAGC
37396811 AAATGAGCTCAA-TGAGCTGG
1 AAATGAGCTCAATTGAGCTGG
*
37396831 AAATGAGCTGAATTGAGCT
1 AAATGAGCTCAATTGAGCT
37396850 CAACGAGCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.23
Consensus pattern (21 bp):
AAATGAGCTCAATTGAGCTGG
Found at i:37398124 original size:17 final size:17
Alignment explanation
Indices: 37398104--37398157 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
37398094 CTTCACTCGT
37398104 TTTCTTTTCAAACTCTC
1 TTTCTTTTCAAACTCTC
*
37398121 TTTCTTTTTCAATCTCAT-
1 TTTC-TTTTCAAACTC-TC
37398139 TTTGCTTTTC--ACTCTC
1 TTT-CTTTTCAAACTCTC
37398155 TTT
1 TTT
37398158 TGTTTTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
15 1 0.03
16 6 0.19
17 4 0.13
18 18 0.58
19 2 0.06
ACGTcount: A:0.13, C:0.26, G:0.02, T:0.59
Consensus pattern (17 bp):
TTTCTTTTCAAACTCTC
Found at i:37398147 original size:18 final size:18
Alignment explanation
Indices: 37398126--37398177 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
37398116 CTCTCTTTCT
37398126 TTTTCAATCTCATTTTGC
1 TTTTCAATCTCATTTTGC
* *
37398144 TTTTCACTCTC-TTTTGT
1 TTTTCAATCTCATTTTGC
*
37398161 TTTTGAAATCTCATTTT
1 TTTT-CAATCTCATTTT
37398178 CATATTTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
17 9 0.32
18 15 0.54
19 4 0.14
ACGTcount: A:0.15, C:0.19, G:0.06, T:0.60
Consensus pattern (18 bp):
TTTTCAATCTCATTTTGC
Found at i:37398191 original size:6 final size:6
Alignment explanation
Indices: 37398182--37398280 Score: 65
Period size: 6 Copynumber: 16.0 Consensus size: 6
37398172 CATTTTCATA
* * * **
37398182 TTTTTC TTTTTC AATTTTC TTTTCTTC ATTTTC TTTTTC TCTCAC TTTTTC
1 TTTTTC TTTTTC -TTTTTC -TTT-TTC TTTTTC TTTTTC TTTTTC TTTTTC
* * * **
37398233 GTTTGC TTTTTC TTTTT- TGTTTTC TTTTTC TTCTTC ACTTTC TTTTTC
1 TTTTTC TTTTTC TTTTTC T-TTTTC TTTTTC TTTTTC TTTTTC TTTTTC
37398281 GAATTCATTA
Statistics
Matches: 68, Mismatches: 21, Indels: 8
0.70 0.22 0.08
Matches are distributed among these distances:
5 1 0.01
6 54 0.79
7 10 0.15
8 3 0.04
ACGTcount: A:0.05, C:0.20, G:0.03, T:0.72
Consensus pattern (6 bp):
TTTTTC
Found at i:37399249 original size:10 final size:10
Alignment explanation
Indices: 37399234--37399279 Score: 67
Period size: 10 Copynumber: 4.7 Consensus size: 10
37399224 TCCACGAATT
*
37399234 TTTTTTTTAC
1 TTTTTTTTAA
37399244 TTTTTTTT-A
1 TTTTTTTTAA
*
37399253 TTTTTTTCAA
1 TTTTTTTTAA
37399263 TTTTTTTTAA
1 TTTTTTTTAA
37399273 TTTTTTT
1 TTTTTTT
37399280 AATCACTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
9 7 0.22
10 25 0.78
ACGTcount: A:0.13, C:0.04, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTTTTTAA
Found at i:37399258 original size:20 final size:21
Alignment explanation
Indices: 37399233--37399279 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
37399223 ATCCACGAAT
* *
37399233 TTTTTTTTTACTTTTTTTT-A
1 TTTTTTTTCAATTTTTTTTAA
37399253 -TTTTTTTCAATTTTTTTTAA
1 TTTTTTTTCAATTTTTTTTAA
37399273 TTTTTTT
1 TTTTTTT
37399280 AATCACTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 16 0.70
20 1 0.04
21 6 0.26
ACGTcount: A:0.13, C:0.04, G:0.00, T:0.83
Consensus pattern (21 bp):
TTTTTTTTCAATTTTTTTTAA
Found at i:37399281 original size:9 final size:9
Alignment explanation
Indices: 37399235--37399282 Score: 60
Period size: 9 Copynumber: 5.1 Consensus size: 9
37399225 CCACGAATTT
*
37399235 TTTTTTTAC
1 TTTTTTTAA
*
37399244 TTTTTTTTA
1 TTTTTTTAA
37399253 TTTTTTTCAA
1 TTTTTTT-AA
37399263 TTTTTTTTAA
1 -TTTTTTTAA
37399273 TTTTTTTAA
1 TTTTTTTAA
37399282 T
1 T
37399283 CACTTACTCC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 24 0.71
10 3 0.09
11 7 0.21
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:37400410 original size:13 final size:13
Alignment explanation
Indices: 37400392--37400417 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37400382 ACCTGAAAGC
37400392 AATTTAATTCATA
1 AATTTAATTCATA
37400405 AATTTAATTCATA
1 AATTTAATTCATA
37400418 TTAGGACACA
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:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
AATTTAATTCATA
Found at i:37400832 original size:20 final size:21
Alignment explanation
Indices: 37400807--37400845 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
37400797 TCAAACAAGC
37400807 AAATGAGCTCAA-TGAGCTGG
1 AAATGAGCTCAATTGAGCTGG
*
37400827 AAATGAGCTGAATTGAGCT
1 AAATGAGCTCAATTGAGCT
37400846 CAACGAGCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.23
Consensus pattern (21 bp):
AAATGAGCTCAATTGAGCTGG
Found at i:37404553 original size:25 final size:25
Alignment explanation
Indices: 37404525--37404575 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
37404515 AAAATTCGGC
*
37404525 TAATAATGGTGCATGAGTTAAACAG
1 TAATAATGCTGCATGAGTTAAACAG
37404550 TAATAATGCTGCATGAGTTAAACAG
1 TAATAATGCTGCATGAGTTAAACAG
37404575 T
1 T
37404576 CTTTGATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.29
Consensus pattern (25 bp):
TAATAATGCTGCATGAGTTAAACAG
Found at i:37415899 original size:16 final size:16
Alignment explanation
Indices: 37415860--37415902 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
37415850 GTATGGGAGC
*
37415860 AATACATGAATGGCTG
1 AATACATGGATGGCTG
*
37415876 GATACATGGATGGCTG
1 AATACATGGATGGCTG
*
37415892 AATTCATGGAT
1 AATACATGGAT
37415903 ATGGCTCATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.28
Consensus pattern (16 bp):
AATACATGGATGGCTG
Found at i:37416902 original size:46 final size:46
Alignment explanation
Indices: 37416830--37416923 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
37416820 AGTTTAAAAG
37416830 ACCTCGACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGA
1 ACCTCGACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGA
* *
37416876 ACCTTGACCCACTATCAAGGATGATAGGAACCTTGGTATATGATGA
1 ACCTCGACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGA
37416922 AC
1 AC
37416924 GCCACACTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.24
Consensus pattern (46 bp):
ACCTCGACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGA
Found at i:37424689 original size:22 final size:21
Alignment explanation
Indices: 37424664--37424707 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
37424654 AGGGCATAAA
*
37424664 AATGCTCTTTAAGAACTCCTTT
1 AATGATCTTTAAG-ACTCCTTT
* *
37424686 AATGATGTTTAAGCCTCCTTT
1 AATGATCTTTAAGACTCCTTT
37424707 A
1 A
37424708 TAGCAGCCCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (21 bp):
AATGATCTTTAAGACTCCTTT
Found at i:37427127 original size:26 final size:25
Alignment explanation
Indices: 37427097--37427160 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 25
37427087 AAGAAGGGCT
* *
37427097 GAAATTGGCTAAGTGAAATGATGATG
1 GAAATTGGCTAAGTG-AATGAGGATC
*
37427123 GAAA-TGGCTAGGTGAATGAGGATC
1 GAAATTGGCTAAGTGAATGAGGATC
*
37427147 GAGATTCGGCTAAG
1 GAAATT-GGCTAAG
37427161 GTTCTGAAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
24 11 0.35
25 10 0.32
26 10 0.32
ACGTcount: A:0.34, C:0.08, G:0.34, T:0.23
Consensus pattern (25 bp):
GAAATTGGCTAAGTGAATGAGGATC
Found at i:37427923 original size:20 final size:20
Alignment explanation
Indices: 37427889--37427958 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
37427879 AAGCTCATTT
37427889 TCAGCTCACTT-GAGCTCAAG
1 TCAGCTCA-TTCGAGCTCAAG
*
37427909 TCATCTCATTCGAGCTCAAG
1 TCAGCTCATTCGAGCTCAAG
* ** *
37427929 TTAGCTCACACGAGCTCAAT
1 TCAGCTCATTCGAGCTCAAG
37427949 TCAGCTCATT
1 TCAGCTCATT
37427959 ATTAGATCAC
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
19 2 0.05
20 38 0.95
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.29
Consensus pattern (20 bp):
TCAGCTCATTCGAGCTCAAG
Found at i:37430460 original size:5 final size:6
Alignment explanation
Indices: 37430424--37430546 Score: 59
Period size: 6 Copynumber: 20.0 Consensus size: 6
37430414 AACGTAAATG
* ** * **
37430424 AAGAAA AAGAAA TAGAAA GTGCAA AAGAAA AAGAAA ACTAAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
* ** * * ** *
37430472 AATAAA TTGGAA AAGAAA AAGAAA TCA-AAA AAGTGA GAGAAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA -AAGAAA AAGAAA AAGAAA AAGAAA
* *
37430520 ACGAAGAA AAGAAA ATTGAAA AAGAAA
1 AAG-A-AA AAGAAA A-AGAAA AAGAAA
37430547 TTGAGATTGA
Statistics
Matches: 81, Mismatches: 31, Indels: 10
0.66 0.25 0.08
Matches are distributed among these distances:
5 1 0.01
6 68 0.84
7 8 0.10
8 4 0.05
ACGTcount: A:0.71, C:0.03, G:0.18, T:0.08
Consensus pattern (6 bp):
AAGAAA
Found at i:37430486 original size:36 final size:36
Alignment explanation
Indices: 37430427--37430504 Score: 102
Period size: 36 Copynumber: 2.2 Consensus size: 36
37430417 GTAAATGAAG
* *
37430427 AAAAAGAAATAGAAAGTGCAAAAGAAAAAGAAAACT
1 AAAAAGAAAAAGAAAGTGCAAAAGAAAAAGAAAACA
* * * *
37430463 AAAAAGAAAAATAAATTGGAAAAGAAAAAGAAATCA
1 AAAAAGAAAAAGAAAGTGCAAAAGAAAAAGAAAACA
37430499 AAAAAG
1 AAAAAG
37430505 TGAGAGAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.72, C:0.04, G:0.15, T:0.09
Consensus pattern (36 bp):
AAAAAGAAAAAGAAAGTGCAAAAGAAAAAGAAAACA
Found at i:37430496 original size:18 final size:18
Alignment explanation
Indices: 37430426--37430546 Score: 73
Period size: 18 Copynumber: 6.6 Consensus size: 18
37430416 CGTAAATGAA
* *
37430426 GAAAAAGAAATAGAAAGT
1 GAAAAAGAAAAAGAAATT
* *
37430444 GCAAAAGAAAAAGAAAACT
1 GAAAAAGAAAAAG-AAATT
*
37430463 -AAAAAGAAAAATAAATT
1 GAAAAAGAAAAAGAAATT
* *
37430480 GGAAAAGAAAAAGAAATC
1 GAAAAAGAAAAAGAAATT
* ** * **
37430498 AAAAAAGTGAGAGAAAAA
1 GAAAAAGAAAAAGAAATT
*
37430516 GAAAACGAAGAAAAGAAAATT
1 GAAAAAG-A-AAAAG-AAATT
37430537 GAAAAAGAAA
1 GAAAAAGAAA
37430547 TTGAGATTGA
Statistics
Matches: 74, Mismatches: 24, Indels: 9
0.69 0.22 0.08
Matches are distributed among these distances:
17 4 0.05
18 51 0.69
19 6 0.08
20 4 0.05
21 9 0.12
ACGTcount: A:0.70, C:0.03, G:0.18, T:0.08
Consensus pattern (18 bp):
GAAAAAGAAAAAGAAATT
Found at i:37432156 original size:14 final size:14
Alignment explanation
Indices: 37432137--37432163 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
37432127 ATGCATCTCC
37432137 CATGCATGAATCTA
1 CATGCATGAATCTA
37432151 CATGCATGAATCT
1 CATGCATGAATCT
37432164 GTCCAATGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (14 bp):
CATGCATGAATCTA
Found at i:37433608 original size:20 final size:20
Alignment explanation
Indices: 37433583--37433620 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
37433573 TAACAGCTGC
37433583 TGGCCTTTAATTCAACTTGT
1 TGGCCTTTAATTCAACTTGT
37433603 TGGCCTTTAATTCAACTT
1 TGGCCTTTAATTCAACTT
37433621 CATAACAGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.45
Consensus pattern (20 bp):
TGGCCTTTAATTCAACTTGT
Found at i:37433845 original size:31 final size:32
Alignment explanation
Indices: 37433810--37433872 Score: 83
Period size: 35 Copynumber: 1.9 Consensus size: 32
37433800 TACACTAATG
37433810 ATTTA-AGCAACTAAATTAACTAAGATGAGTA
1 ATTTACAGCAACTAAATTAACTAAGATGAGTA
*
37433841 ATTTATTCCAGCAACTTAATTAACTAAGATGA
1 ATTTA---CAGCAACTAAATTAACTAAGATGA
37433873 TACGATCTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 5 0.19
35 22 0.81
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.32
Consensus pattern (32 bp):
ATTTACAGCAACTAAATTAACTAAGATGAGTA
Found at i:37434037 original size:20 final size:19
Alignment explanation
Indices: 37434014--37434078 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 19
37434004 CAGCTCACTC
37434014 GAGCTCAAGACAGTTCATT
1 GAGCTCAAGACAGTTCATT
* *
37434033 CGAGCTCAAGTCAGCTCATAT
1 -GAGCTCAAGACAGTTCAT-T
*
37434054 GAGCTCAATTA-AGTTCATT
1 GAGCTCAA-GACAGTTCATT
37434073 GAGCTC
1 GAGCTC
37434079 GTTATTAGAT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
19 7 0.18
20 30 0.79
21 1 0.03
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (19 bp):
GAGCTCAAGACAGTTCATT
Found at i:37435357 original size:20 final size:20
Alignment explanation
Indices: 37435328--37435415 Score: 113
Period size: 20 Copynumber: 4.4 Consensus size: 20
37435318 TCCATTTGGT
* *
37435328 TCAGCCCACTCGAGCTCAAA
1 TCAGCTCACTCGAGCTCAAG
37435348 TCAGCTCACTCGAGCTCAAG
1 TCAGCTCACTCGAGCTCAAG
* *
37435368 TCAGCTCATTTGAGCTCAAG
1 TCAGCTCACTCGAGCTCAAG
* * *
37435388 TCAGCTCCCACGAGCTCAAT
1 TCAGCTCACTCGAGCTCAAG
37435408 TCAGCTCA
1 TCAGCTCA
37435416 TTGAGCTCGT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 58 1.00
ACGTcount: A:0.26, C:0.35, G:0.17, T:0.22
Consensus pattern (20 bp):
TCAGCTCACTCGAGCTCAAG
Found at i:37435434 original size:40 final size:40
Alignment explanation
Indices: 37435339--37435423 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 40
37435329 CAGCCCACTC
* * *
37435339 GAGCTCAAATCAGCTCACTCGAGCTCAAGTCAGCTCATTT
1 GAGCTCAAGTCAGCTCCCACGAGCTCAAGTCAGCTCATTT
*
37435379 GAGCTCAAGTCAGCTCCCACGAGCTCAATTCAGCTCA-TT
1 GAGCTCAAGTCAGCTCCCACGAGCTCAAGTCAGCTCATTT
37435418 GAGCTC
1 GAGCTC
37435424 GTTATTAGCT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 8 0.20
40 33 0.80
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.24
Consensus pattern (40 bp):
GAGCTCAAGTCAGCTCCCACGAGCTCAAGTCAGCTCATTT
Found at i:37438022 original size:18 final size:17
Alignment explanation
Indices: 37437999--37438056 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 17
37437989 TGGAGAAATG
*
37437999 AAAGAAGAAGACATTGAA
1 AAAGAA-AAGAAATTGAA
*
37438017 AAAGAAAAAGAAATTGCA
1 AAAG-AAAAGAAATTGAA
37438035 AAAGAAAAGGAAATTGAA
1 AAAGAAAA-GAAATTGAA
37438053 AAAG
1 AAAG
37438057 TAAGTGAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
17 4 0.11
18 29 0.83
19 2 0.06
ACGTcount: A:0.66, C:0.03, G:0.21, T:0.10
Consensus pattern (17 bp):
AAAGAAAAGAAATTGAA
Found at i:37438056 original size:30 final size:29
Alignment explanation
Indices: 37438020--37438100 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 29
37438010 CATTGAAAAA
*
37438020 GAAAAAGAAATTGCAAAAGAAAAGGAAATT
1 GAAAAAGAAATTG-AAAAGAAAAAGAAATT
* * *
37438050 GAAAAAGTAAGTGAAAAGGAAAAAGAGATT
1 GAAAAAGAAATTGAAAA-GAAAAAGAAATT
37438080 GAAAAAGAAATTGAAAGAGAA
1 GAAAAAGAAATTGAAA-AGAA
37438101 GAAAAAGAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
29 4 0.09
30 38 0.88
31 1 0.02
ACGTcount: A:0.63, C:0.01, G:0.23, T:0.12
Consensus pattern (29 bp):
GAAAAAGAAATTGAAAAGAAAAAGAAATT
Found at i:37438065 original size:18 final size:17
Alignment explanation
Indices: 37438011--37438075 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 17
37438001 AGAAGAAGAC
*
37438011 ATTGAAAAAGAAAAAGAA
1 ATTGAAAAAG-AAAGGAA
*
37438029 ATTGCAAAAGAAAAGGAA
1 ATTGAAAAAG-AAAGGAA
*
37438047 ATTGAAAAAGTAAGTGAA
1 ATTGAAAAAGAAAG-GAA
**
37438065 AAGGAAAAAGA
1 ATTGAAAAAGA
37438076 GATTGAAAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
17 3 0.08
18 36 0.92
ACGTcount: A:0.65, C:0.02, G:0.22, T:0.12
Consensus pattern (17 bp):
ATTGAAAAAGAAAGGAA
Found at i:37439814 original size:20 final size:20
Alignment explanation
Indices: 37439784--37439857 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
37439774 AAGCTCATTT
37439784 TCAATTTCAGCTCACTCGAGC
1 TCAA-TTCAGCTCACTCGAGC
37439805 TCAATTCAGCTCACTCGAGC
1 TCAATTCAGCTCACTCGAGC
* * * * **
37439825 TCAAGTCAACTCCCACGCCC
1 TCAATTCAGCTCACTCGAGC
37439845 TCAATTCAGCTCA
1 TCAATTCAGCTCA
37439858 TTGAGCTCGT
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
20 40 0.91
21 4 0.09
ACGTcount: A:0.26, C:0.38, G:0.12, T:0.24
Consensus pattern (20 bp):
TCAATTCAGCTCACTCGAGC
Found at i:37441689 original size:6 final size:6
Alignment explanation
Indices: 37441680--37441770 Score: 76
Period size: 6 Copynumber: 15.2 Consensus size: 6
37441670 AACAAAAATG
** *
37441680 AAGAAA AAGAAA GTGAAA AAGAAA AAGAAA ACGAAA AAGAAA AA-AAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
** * * ** *
37441727 TTGCAA AAGAAA AAGAAA TAAAAAA AAGTGA GAGAAA AAGAAA A
1 AAGAAA AAGAAA AAGAAA -AAGAAA AAGAAA AAGAAA AAGAAA A
37441771 CGAAGAAAAA
Statistics
Matches: 63, Mismatches: 20, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
5 3 0.05
6 55 0.87
7 5 0.08
ACGTcount: A:0.75, C:0.02, G:0.18, T:0.05
Consensus pattern (6 bp):
AAGAAA
Found at i:37441745 original size:18 final size:18
Alignment explanation
Indices: 37441680--37441745 Score: 89
Period size: 18 Copynumber: 3.7 Consensus size: 18
37441670 AACAAAAATG
*
37441680 AAGAAAAAGAAAGTGAAA
1 AAGAAAAAGAAATTGAAA
**
37441698 AAGAAAAAGAAAACGAAA
1 AAGAAAAAGAAATTGAAA
*
37441716 AAGAAAAA-AAATTGCAA
1 AAGAAAAAGAAATTGAAA
37441733 AAGAAAAAGAAAT
1 AAGAAAAAGAAAT
37441746 AAAAAAAAGT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
17 14 0.33
18 28 0.67
ACGTcount: A:0.74, C:0.03, G:0.17, T:0.06
Consensus pattern (18 bp):
AAGAAAAAGAAATTGAAA
Found at i:37441828 original size:17 final size:18
Alignment explanation
Indices: 37441806--37441842 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
37441796 TGAGATTGAG
37441806 AAAAGA-ATTGAAAAAGA
1 AAAAGATATTGAAAAAGA
*
37441823 AAAAGATGTTGAAAAAGA
1 AAAAGATATTGAAAAAGA
37441841 AA
1 AA
37441843 CGAGAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.68, C:0.00, G:0.19, T:0.14
Consensus pattern (18 bp):
AAAAGATATTGAAAAAGA
Found at i:37443620 original size:20 final size:20
Alignment explanation
Indices: 37443594--37443660 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
37443584 TTTAACTTGG
37443594 TTCAGCTCACTCGAGCTCAA
1 TTCAGCTCACTCGAGCTCAA
* *
37443614 GTCAGCTCATTCGAGCTCAA
1 TTCAGCTCACTCGAGCTCAA
* *
37443634 TTTAACTCACAT-GAGCTCAA
1 TTCAGCTCAC-TCGAGCTCAA
37443654 TTCAGCT
1 TTCAGCT
37443661 TATTGAGCTC
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 37 0.97
21 1 0.03
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (20 bp):
TTCAGCTCACTCGAGCTCAA
Found at i:37446379 original size:50 final size:52
Alignment explanation
Indices: 37446304--37446422 Score: 143
Period size: 52 Copynumber: 2.3 Consensus size: 52
37446294 TAAATAAAGT
* ** * * *
37446304 CATGCTTTATGTAACTTTAATGTTAG-TTAAGTTTGCATCA-TAATTTATGA
1 CATGCATTATGTAACTCCAATGTTAGTTTAAGTCTACATCATTAATTTAAGA
* *
37446354 CATGCATTATGTAACTCCCATGTTAGTTTAAGTCTACATCATTAATTTAAGT
1 CATGCATTATGTAACTCCAATGTTAGTTTAAGTCTACATCATTAATTTAAGA
*
37446406 CATGCATTAAGTAACTC
1 CATGCATTATGTAACTC
37446423 ATTTGTTCAT
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
50 22 0.38
51 12 0.21
52 24 0.41
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (52 bp):
CATGCATTATGTAACTCCAATGTTAGTTTAAGTCTACATCATTAATTTAAGA
Found at i:37446420 original size:52 final size:50
Alignment explanation
Indices: 37446300--37446422 Score: 147
Period size: 50 Copynumber: 2.4 Consensus size: 50
37446290 ACACTAAATA
* ** * *
37446300 AAGTCATGCTTTATGTAACTTTAATGTTAGTTAAGTTTGCATCATAATTT
1 AAGTCATGCATTATGTAACTCCAATGTTAGTTAAGTCTACATCATAATTT
* * *
37446350 ATGACATGCATTATGTAACTCCCATGTTAGTTTAAGTCTACATCATTAATTT
1 AAGTCATGCATTATGTAACTCCAATGTTAG-TTAAGTCTACATCA-TAATTT
*
37446402 AAGTCATGCATTAAGTAACTC
1 AAGTCATGCATTATGTAACTC
37446423 ATTTGTTCAT
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 24 0.40
51 12 0.20
52 24 0.40
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.41
Consensus pattern (50 bp):
AAGTCATGCATTATGTAACTCCAATGTTAGTTAAGTCTACATCATAATTT
Found at i:37449059 original size:13 final size:13
Alignment explanation
Indices: 37449041--37449065 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37449031 TAATGGTATA
37449041 TTGAATCCATGAC
1 TTGAATCCATGAC
37449054 TTGAATCCATGA
1 TTGAATCCATGA
37449066 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:37449646 original size:27 final size:27
Alignment explanation
Indices: 37449615--37449792 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
37449605 TAAATTGTAC
37449615 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
37449642 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
37449668 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
37449696 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
37449724 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
37449751 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
37449778 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
37449793 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:37449729 original size:82 final size:81
Alignment explanation
Indices: 37449616--37449771 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
37449606 AAATTGTACA
* *
37449616 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
37449680 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
37449697 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
37449762 TGCGAGTTGA
65 TGCGAATTGA
37449772 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:37449783 original size:82 final size:81
Alignment explanation
Indices: 37449612--37449792 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
37449602 GATTAAATTG
* *
37449612 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
37449677 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
37449693 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
37449757 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
37449775 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
37449793 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:37462719 original size:29 final size:27
Alignment explanation
Indices: 37462686--37462740 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 27
37462676 ATGATTAAAT
37462686 AAAATCGACA-CAAGCAGAATTTAAAAGAA
1 AAAATCGACAGCAAG-A-AA-TTAAAAGAA
*
37462715 AAAATTGACAGCAAGAAATTAAAAGA
1 AAAATCGACAGCAAGAAATTAAAAGA
37462741 TAAGTCCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 8 0.33
28 2 0.08
29 10 0.42
30 4 0.17
ACGTcount: A:0.60, C:0.11, G:0.15, T:0.15
Consensus pattern (27 bp):
AAAATCGACAGCAAGAAATTAAAAGAA
Found at i:37470870 original size:12 final size:12
Alignment explanation
Indices: 37470828--37470869 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
37470818 TTTTCATCTT
37470828 TTTCTTTTTC-A
1 TTTCTTTTTCAA
37470839 TTTC--TTTCAA
1 TTTCTTTTTCAA
37470849 TTTCTTTTTCAA
1 TTTCTTTTTCAA
37470861 TGTTCTTTT
1 T-TTCTTTT
37470870 CTCGCTCACA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 4 0.15
10 5 0.19
11 4 0.15
12 7 0.26
13 7 0.26
ACGTcount: A:0.12, C:0.17, G:0.02, T:0.69
Consensus pattern (12 bp):
TTTCTTTTTCAA
Found at i:37472030 original size:12 final size:12
Alignment explanation
Indices: 37472013--37472064 Score: 52
Period size: 12 Copynumber: 4.4 Consensus size: 12
37472003 AAATAAACTC
37472013 TTTTTTTAAATT
1 TTTTTTTAAATT
*
37472025 TTTTTTTCAATT
1 TTTTTTTAAATT
* * *
37472037 TCTTTCT-GATT
1 TTTTTTTAAATT
*
37472048 TTTTTTAAAATT
1 TTTTTTTAAATT
37472060 TTTTT
1 TTTTT
37472065 CACAATGACT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
11 7 0.23
12 24 0.77
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.73
Consensus pattern (12 bp):
TTTTTTTAAATT
Found at i:37472059 original size:23 final size:23
Alignment explanation
Indices: 37472022--37472065 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
37472012 CTTTTTTTAA
**
37472022 ATTTTTTTTTCAATTTCTTTCTG
1 ATTTTTTTTAAAATTTCTTTCTG
*
37472045 ATTTTTTTTAAAATTTTTTTC
1 ATTTTTTTTAAAATTTCTTTC
37472066 ACAATGACTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.18, C:0.09, G:0.02, T:0.70
Consensus pattern (23 bp):
ATTTTTTTTAAAATTTCTTTCTG
Found at i:37477234 original size:30 final size:29
Alignment explanation
Indices: 37477179--37477236 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
37477169 TAGCTCATCT
*
37477179 TCAGCTCCTCGAGCTCCATTCAGCTCAAA
1 TCAGCTCCTCGAGCTCCATTAAGCTCAAA
*
37477208 TCAGCTCACTTGAGCT-CATTTAAGCTCAA
1 TCAGCTC-CTCGAGCTCCA-TTAAGCTCAA
37477237 TTTAGCTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 9 0.36
30 16 0.64
ACGTcount: A:0.26, C:0.33, G:0.14, T:0.28
Consensus pattern (29 bp):
TCAGCTCCTCGAGCTCCATTAAGCTCAAA
Found at i:37480436 original size:470 final size:470
Alignment explanation
Indices: 37479556--37480497 Score: 1875
Period size: 470 Copynumber: 2.0 Consensus size: 470
37479546 GGACAAAATT
37479556 AATTATTTATGTCAAATGTGTCCATGGATGTTTTAATATGTTTTAGTTATTACATAGCATAAATG
1 AATTATTTATGTCAAATGTGTCCATGGATGTTTTAATATGTTTTAGTTATTACATAGCATAAATG
37479621 TGTCTATCTCATATCATCTAATTAATGTGTCTTATTGTTGATGTAATATGTCTGAATTCAGCTGA
66 TGTCTATCTCATATCATCTAATTAATGTGTCTTATTGTTGATGTAATATGTCTGAATTCAGCTGA
37479686 ATTTATGAGCAGGTTTATTGTCTAAGTTGCAGCCGAATTTAATTTTTCTTAACTTGATTAATTGG
131 ATTTATGAGCAGGTTTATTGTCTAAGTTGCAGCCGAATTTAATTTTTCTTAACTTGATTAATTGG
37479751 CTGAATTTAATTACTGCAAGTACATGCATGAAACAACATTGATGGAGCTAATGATTCCTCTTTTC
196 CTGAATTTAATTACTGCAAGTACATGCATGAAACAACATTGATGGAGCTAATGATTCCTCTTTTC
37479816 CATATGACTATTCGTGGAGCTCAATGGATAATGAGCTTAATTAAAACTCCAGTTATTGTGTTGAG
261 CATATGACTATTCGTGGAGCTCAATGGATAATGAGCTTAATTAAAACTCCAGTTATTGTGTTGAG
*
37479881 CTTCTCCAAGTGGCTATTCAAAGAATTTAATGGACAAGGCTGTTCAAATGGAGTCCATTTAGCTG
326 CTTCTCCAAGTGGCTATTCAAAGAATTCAATGGACAAGGCTGTTCAAATGGAGTCCATTTAGCTG
37479946 GTGGCTGATCAATTTCGTCCTTTCACACTTAGAGGCTATTGGAGTTCATCCATTCACATTATCTG
391 GTGGCTGATCAATTTCGTCCTTTCACACTTAGAGGCTATTGGAGTTCATCCATTCACATTATCTG
37480011 GGCTGTTCATGCTCC
456 GGCTGTTCATGCTCC
37480026 AATTATTTATGTCAAATGTGTCCATGGATGTTTTAATATGTTTTAGTTATTACATAGCATAAATG
1 AATTATTTATGTCAAATGTGTCCATGGATGTTTTAATATGTTTTAGTTATTACATAGCATAAATG
37480091 TGTCTATCTCATATCATCTAATTAATGTGTCTTATTGTTGATGTAATATGTCTGAATTCAGCTGA
66 TGTCTATCTCATATCATCTAATTAATGTGTCTTATTGTTGATGTAATATGTCTGAATTCAGCTGA
37480156 ATTTATGAGCAGGTTTATTGTCTAAGTTGCAGCCGAATTTAATTTTTCTTAACTTGATTAATTGG
131 ATTTATGAGCAGGTTTATTGTCTAAGTTGCAGCCGAATTTAATTTTTCTTAACTTGATTAATTGG
37480221 CTGAATTTAATTACTGCAAGTACATGCATGAAACAACATTGATGGAGCTAATGATTCCTCTTTTC
196 CTGAATTTAATTACTGCAAGTACATGCATGAAACAACATTGATGGAGCTAATGATTCCTCTTTTC
37480286 CATATGACTATTCGTGGAGCTCAATGGATAATGAGCTTAATTAAAACTCCAGTTATTGTGTTGAG
261 CATATGACTATTCGTGGAGCTCAATGGATAATGAGCTTAATTAAAACTCCAGTTATTGTGTTGAG
37480351 CTTCTCCAAGTGGCTATTCAAAGAATTCAATGGACAAGGCTGTTCAAATGGAGTCCATTTAGCTG
326 CTTCTCCAAGTGGCTATTCAAAGAATTCAATGGACAAGGCTGTTCAAATGGAGTCCATTTAGCTG
37480416 GTGGCTGATCAATTTCGTCCTTTCACACTTAGAGGCTATTGGAGTTCATCCATTCACATTATCTG
391 GTGGCTGATCAATTTCGTCCTTTCACACTTAGAGGCTATTGGAGTTCATCCATTCACATTATCTG
37480481 GGCTGTTCATGCTCC
456 GGCTGTTCATGCTCC
37480496 AA
1 AA
37480498 AACTTCCAAT
Statistics
Matches: 471, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
470 471 1.00
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (470 bp):
AATTATTTATGTCAAATGTGTCCATGGATGTTTTAATATGTTTTAGTTATTACATAGCATAAATG
TGTCTATCTCATATCATCTAATTAATGTGTCTTATTGTTGATGTAATATGTCTGAATTCAGCTGA
ATTTATGAGCAGGTTTATTGTCTAAGTTGCAGCCGAATTTAATTTTTCTTAACTTGATTAATTGG
CTGAATTTAATTACTGCAAGTACATGCATGAAACAACATTGATGGAGCTAATGATTCCTCTTTTC
CATATGACTATTCGTGGAGCTCAATGGATAATGAGCTTAATTAAAACTCCAGTTATTGTGTTGAG
CTTCTCCAAGTGGCTATTCAAAGAATTCAATGGACAAGGCTGTTCAAATGGAGTCCATTTAGCTG
GTGGCTGATCAATTTCGTCCTTTCACACTTAGAGGCTATTGGAGTTCATCCATTCACATTATCTG
GGCTGTTCATGCTCC
Found at i:37481652 original size:18 final size:18
Alignment explanation
Indices: 37481631--37481675 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
37481621 AGAAATAAAC
*
37481631 GAAAAAGAAAATGAAAGT
1 GAAAAAGAAAAAGAAAGT
* * *
37481649 GAAAAGGAAAAAGAGATT
1 GAAAAAGAAAAAGAAAGT
37481667 GAAAAAGAA
1 GAAAAAGAA
37481676 GTAAGTGAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.24, T:0.09
Consensus pattern (18 bp):
GAAAAAGAAAAAGAAAGT
Found at i:37485290 original size:46 final size:46
Alignment explanation
Indices: 37485237--37485330 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
37485227 GTAATGTGGC
*
37485237 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTTGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
*
37485283 GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
37485329 GT
1 GT
37485331 CTTTTCTTTG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.35
Consensus pattern (46 bp):
GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
Found at i:37490262 original size:31 final size:31
Alignment explanation
Indices: 37490218--37490311 Score: 127
Period size: 31 Copynumber: 3.1 Consensus size: 31
37490208 GTATTGGAAT
* *
37490218 AGTC-TTATGTGTGAACAATCAGTAATGAAG
1 AGTCTTTACGTGTGAACAATCAGCAATGAAG
*
37490248 AGTCTTTACGTGTGAACAATCCGCAATGAAG
1 AGTCTTTACGTGTGAACAATCAGCAATGAAG
* * *
37490279 AGCCTCTAGGTGTGAACAATCAGCAATGAAG
1 AGTCTTTACGTGTGAACAATCAGCAATGAAG
37490310 AG
1 AG
37490312 ACTTGGTGTG
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
30 4 0.07
31 52 0.93
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AGTCTTTACGTGTGAACAATCAGCAATGAAG
Found at i:37490323 original size:31 final size:31
Alignment explanation
Indices: 37490221--37490328 Score: 123
Period size: 31 Copynumber: 3.5 Consensus size: 31
37490211 TTGGAATAGT
* *
37490221 CTTA-TGTGTGAACAATCAGTAATGAAGAGT
1 CTTAGTGTGTGAACAATCAGCAATGAAGAGA
* * *
37490251 CTTTA-CGTGTGAACAATCCGCAATGAAGAGC
1 C-TTAGTGTGTGAACAATCAGCAATGAAGAGA
37490282 CTCTAG-GTGTGAACAATCAGCAATGAAGAGA
1 CT-TAGTGTGTGAACAATCAGCAATGAAGAGA
*
37490313 CTTGGTGTGTGAACAA
1 CTTAGTGTGTGAACAA
37490329 CCATAGCCGA
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
30 4 0.06
31 63 0.94
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (31 bp):
CTTAGTGTGTGAACAATCAGCAATGAAGAGA
Found at i:37490709 original size:19 final size:19
Alignment explanation
Indices: 37490685--37490721 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
37490675 GTAACAATTT
37490685 AGACAAATTAAATGACTGA
1 AGACAAATTAAATGACTGA
* *
37490704 AGACAACTTAAATTACTG
1 AGACAAATTAAATGACTG
37490722 TAGTAAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (19 bp):
AGACAAATTAAATGACTGA
Found at i:37490709 original size:28 final size:28
Alignment explanation
Indices: 37490652--37490714 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 28
37490642 AAAATAAATG
* *
37490652 AATTTAAGACAACTTAAATTGCTGTAAC
1 AATTTAAGACAAATTAAATTGCTGAAAC
37490680 AATTT-AGACAAATTAAA-TGACTGAAGAC
1 AATTTAAGACAAATTAAATTG-CTGAA-AC
*
37490708 AACTTAA
1 AATTTAA
37490715 ATTACTGTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
26 2 0.07
27 15 0.52
28 11 0.38
29 1 0.03
ACGTcount: A:0.48, C:0.13, G:0.11, T:0.29
Consensus pattern (28 bp):
AATTTAAGACAAATTAAATTGCTGAAAC
Found at i:37490709 original size:46 final size:46
Alignment explanation
Indices: 37490657--37490747 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 46
37490647 AAATGAATTT
* *
37490657 AAGACAACTTAAATTGCTGTAACAATTTAGACAAATTAAATGACTG
1 AAGACAACTTAAATTACTGTAACAAATTAGACAAATTAAATGACTG
**
37490703 AAGACAACTTAAATTACTGTAGTAAATTAGACAAATTAAATGACT
1 AAGACAACTTAAATTACTGTAACAAATTAGACAAATTAAATGACT
37490748 TAACTTATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (46 bp):
AAGACAACTTAAATTACTGTAACAAATTAGACAAATTAAATGACTG
Found at i:37495840 original size:24 final size:24
Alignment explanation
Indices: 37495807--37495899 Score: 100
Period size: 24 Copynumber: 3.9 Consensus size: 24
37495797 TTAAATACTA
*
37495807 AGTTTTAATTTTTGGACTTTATTT
1 AGTTTCAATTTTTGGACTTTATTT
* ** *
37495831 AGTTTCAATTTCTT--TCAATACTT
1 AGTTTCAATTT-TTGGACTTTATTT
*
37495854 AGTTTTAATTTTTGGACTTTATTT
1 AGTTTCAATTTTTGGACTTTATTT
*
37495878 AGTTTCAATTTTTTGACTTTAT
1 AGTTTCAATTTTTGGACTTTAT
37495900 GATTAAATTC
Statistics
Matches: 54, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
22 2 0.04
23 15 0.28
24 35 0.65
25 2 0.04
ACGTcount: A:0.23, C:0.09, G:0.10, T:0.59
Consensus pattern (24 bp):
AGTTTCAATTTTTGGACTTTATTT
Found at i:37495862 original size:47 final size:47
Alignment explanation
Indices: 37495793--37495888 Score: 174
Period size: 47 Copynumber: 2.0 Consensus size: 47
37495783 AAAATTTTAA
37495793 TTCTTTAAATACTAAGTTTTAATTTTTGGACTTTATTTAGTTTCAAT
1 TTCTTTAAATACTAAGTTTTAATTTTTGGACTTTATTTAGTTTCAAT
* *
37495840 TTCTTTCAATACTTAGTTTTAATTTTTGGACTTTATTTAGTTTCAAT
1 TTCTTTAAATACTAAGTTTTAATTTTTGGACTTTATTTAGTTTCAAT
37495887 TT
1 TT
37495889 TTTGACTTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.25, C:0.09, G:0.08, T:0.57
Consensus pattern (47 bp):
TTCTTTAAATACTAAGTTTTAATTTTTGGACTTTATTTAGTTTCAAT
Found at i:37498830 original size:10 final size:10
Alignment explanation
Indices: 37498809--37498861 Score: 56
Period size: 10 Copynumber: 5.3 Consensus size: 10
37498799 GAGCTTAATC
*
37498809 AGCTGAATTG
1 AGCTGACTTG
37498819 AGCTCGAC-TG
1 AGCT-GACTTG
37498829 AGCTGACTTG
1 AGCTGACTTG
*
37498839 AGCTAGA-ATG
1 AGCT-GACTTG
37498849 AGCTGACTTG
1 AGCTGACTTG
37498859 AGC
1 AGC
37498862 ACAAGTGAGC
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
9 5 0.14
10 27 0.75
11 4 0.11
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (10 bp):
AGCTGACTTG
Found at i:37498834 original size:20 final size:20
Alignment explanation
Indices: 37498809--37498875 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
37498799 GAGCTTAATC
*
37498809 AGCTGAATTGAGCTCGACTG
1 AGCTGAATTGAGCTCGAATG
* *
37498829 AGCTGACTTGAGCTAGAATG
1 AGCTGAATTGAGCTCGAATG
* *
37498849 AGCTGACTTGAGCAC-AAGTG
1 AGCTGAATTGAGCTCGAA-TG
37498869 AGCTGAA
1 AGCTGAA
37498876 CCACATGAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
19 2 0.05
20 38 0.95
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.22
Consensus pattern (20 bp):
AGCTGAATTGAGCTCGAATG
Found at i:37503820 original size:27 final size:27
Alignment explanation
Indices: 37503790--37503967 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
37503780 ATATTGAGTC
* * * *
37503790 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
37503817 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
37503844 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
37503872 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
37503899 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
37503926 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
37503953 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
37503968 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:37503929 original size:82 final size:81
Alignment explanation
Indices: 37503811--37503966 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
37503801 TGCTATATAA
* *
37503811 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
37503876 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
37503893 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
37503957 CACTTAGTGC
65 CACTTAGTGC
37503967 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:37511884 original size:27 final size:27
Alignment explanation
Indices: 37511854--37512031 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
37511844 ATATTGAGCC
* * * *
37511854 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* * *
37511881 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
37511908 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
37511936 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
37511963 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
37511990 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
37512017 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
37512032 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:37511993 original size:82 final size:81
Alignment explanation
Indices: 37511875--37512030 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
37511865 TGCTATATAA
* *
37511875 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
37511940 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
37511957 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
37512021 CACTTAGTGC
65 CACTTAGTGC
37512031 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 17 0.25
82 50 0.75
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:37514768 original size:10 final size:10
Alignment explanation
Indices: 37514753--37514821 Score: 52
Period size: 10 Copynumber: 6.9 Consensus size: 10
37514743 ACGAGCTCAA
37514753 TGAGCTGAAT
1 TGAGCTGAAT
37514763 TGAGCTCGAA-
1 TGAGCT-GAAT
*
37514773 TGAGCTGACT
1 TGAGCTGAAT
37514783 TGAGCTCGAA-
1 TGAGCT-GAAT
* *
37514793 CGAGCTGACT
1 TGAGCTGAAT
* * *
37514803 TAAGCTCAAG
1 TGAGCTGAAT
37514813 TGAGCTGAA
1 TGAGCTGAA
37514822 CCACATGAAA
Statistics
Matches: 44, Mismatches: 11, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
9 4 0.09
10 35 0.80
11 5 0.11
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (10 bp):
TGAGCTGAAT
Found at i:37514774 original size:20 final size:19
Alignment explanation
Indices: 37514745--37514821 Score: 91
Period size: 20 Copynumber: 3.9 Consensus size: 19
37514735 AGCTAATAAC
37514745 GAGCTCAATGAGCTGAATT
1 GAGCTCAATGAGCTGAATT
*
37514764 GAGCTCGAATGAGCTGACTT
1 GAGCTC-AATGAGCTGAATT
* *
37514784 GAGCTCGAACGAGCTGACTT
1 GAGCTC-AATGAGCTGAATT
*
37514804 AAGCTCAAGTGAGCTGAA
1 GAGCTCAA-TGAGCTGAA
37514822 CCACATGAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
19 8 0.16
20 43 0.84
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (19 bp):
GAGCTCAATGAGCTGAATT
Found at i:37524133 original size:13 final size:13
Alignment explanation
Indices: 37524115--37524143 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
37524105 GTAAGAAGGC
37524115 AAAGTCACGGATT
1 AAAGTCACGGATT
37524128 AAAGTCACGGATT
1 AAAGTCACGGATT
37524141 AAA
1 AAA
37524144 CCGCATGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.21
Consensus pattern (13 bp):
AAAGTCACGGATT
Found at i:37526521 original size:19 final size:17
Alignment explanation
Indices: 37526483--37526523 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 17
37526473 TTTCAGTTGC
37526483 TAATTAGTTAAATAAAT
1 TAATTAGTTAAATAAAT
*
37526500 TAATTAGCTTAAGATTAAT
1 TAATTAG-TTAA-ATAAAT
37526519 TAATT
1 TAATT
37526524 TAATAAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.33
18 4 0.19
19 10 0.48
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.44
Consensus pattern (17 bp):
TAATTAGTTAAATAAAT
Found at i:37528838 original size:24 final size:24
Alignment explanation
Indices: 37528802--37528916 Score: 76
Period size: 24 Copynumber: 4.6 Consensus size: 24
37528792 AAAAACGAAA
* *
37528802 AAGAAGAAGAAGAAAAAGAAAGTG
1 AAGAAGAAAAAGAAAAAGAAAATG
*
37528826 AAGAAGAAAAAGAAAAAAGAAATTG
1 AAGAAGAAAAAG-AAAAAGAAAATG
* *
37528851 CTA-AAGAAAAAGAAATCAAAAAAATG
1 -AAGAAGAAAAAGAAA--AAGAAAATG
*
37528877 -AG-AGAAAAAGAAAACAGAGAAAAG
1 AAGAAGAAAAAGAAAA-AGA-AAATG
37528901 AA-AATTGAAAAAGAAA
1 AAGAA--GAAAAAGAAA
37528917 TTGAGATTGT
Statistics
Matches: 73, Mismatches: 7, Indels: 19
0.74 0.07 0.19
Matches are distributed among these distances:
22 1 0.01
23 2 0.03
24 30 0.41
25 22 0.30
26 8 0.11
27 10 0.14
ACGTcount: A:0.70, C:0.03, G:0.20, T:0.07
Consensus pattern (24 bp):
AAGAAGAAAAAGAAAAAGAAAATG
Found at i:37528840 original size:6 final size:6
Alignment explanation
Indices: 37528805--37528916 Score: 50
Period size: 6 Copynumber: 18.0 Consensus size: 6
37528795 AACGAAAAAG
* ** * ** **
37528805 AAGAAG AAGAAA AAGAAA GTGAAG AAGAAA AAGAAAA AAGAAA TTGCTA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAG-AAA AAGAAA AAGAAA
*
37528854 AAGAAA AAGAAA TCAA-AAA AATG--A GAGAAA AAGAAA ACAGAGAA AAGAAA
1 AAGAAA AAGAAA --AAGAAA AA-GAAA AAGAAA AAGAAA A-AGA-AA AAGAAA
*
37528904 ATTGAAA AAGAAA
1 A-AGAAA AAGAAA
37528917 TTGAGATTGT
Statistics
Matches: 77, Mismatches: 19, Indels: 20
0.66 0.16 0.17
Matches are distributed among these distances:
4 1 0.01
5 4 0.05
6 47 0.61
7 20 0.26
8 5 0.06
ACGTcount: A:0.71, C:0.03, G:0.20, T:0.07
Consensus pattern (6 bp):
AAGAAA
Found at i:37528899 original size:25 final size:25
Alignment explanation
Indices: 37528801--37528916 Score: 76
Period size: 25 Copynumber: 4.5 Consensus size: 25
37528791 TAAAAACGAA
* * * *
37528801 AAAGAAGAAGAAGAAAAAGAAAGTGA
1 AAAGAAAAAGAA-AACAAGAAAATGC
*
37528827 AGAAGAAAAAGAAAA-AAGAAATTGC
1 A-AAGAAAAAGAAAACAAGAAAATGC
* *
37528852 TAAAGAAAAAGAAATCAAAAAAATG-
1 -AAAGAAAAAGAAAACAAGAAAATGC
* *
37528877 AGAGAAAAAGAAAACAGAGAAAA-GA
1 AAAGAAAAAGAAAACA-AGAAAATGC
37528902 AAATTGAAAAAGAAA
1 AAA--GAAAAAGAAA
37528917 TTGAGATTGT
Statistics
Matches: 73, Mismatches: 10, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
24 15 0.21
25 27 0.37
26 11 0.15
27 20 0.27
ACGTcount: A:0.71, C:0.03, G:0.20, T:0.07
Consensus pattern (25 bp):
AAAGAAAAAGAAAACAAGAAAATGC
Found at i:37531799 original size:16 final size:17
Alignment explanation
Indices: 37531778--37531812 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
37531768 AGTTAAGTGT
37531778 TTAATTAT-GTGTTTAA
1 TTAATTATAGTGTTTAA
37531794 TTAATTATGAGTGTTTAA
1 TTAATTAT-AGTGTTTAA
37531812 T
1 T
37531813 ATGTCTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
18 9 0.53
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.54
Consensus pattern (17 bp):
TTAATTATAGTGTTTAA
Found at i:37535961 original size:27 final size:28
Alignment explanation
Indices: 37535919--37535988 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
37535909 ATTTTTAATG
37535919 CATG-TTTTAATATGTCATAGT-TAGTA
1 CATGTTTTTAATATGTCATAGTCTAGTA
* * *
37535945 CATGTTTTTAATTTGTCTTAGTCTATTA
1 CATGTTTTTAATATGTCATAGTCTAGTA
37535973 CATGTTTTTAATATGT
1 CATGTTTTTAATATGT
37535989 TCTTGTTTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 4 0.11
27 15 0.39
28 19 0.50
ACGTcount: A:0.26, C:0.09, G:0.13, T:0.53
Consensus pattern (28 bp):
CATGTTTTTAATATGTCATAGTCTAGTA
Found at i:37542022 original size:15 final size:15
Alignment explanation
Indices: 37542002--37542032 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
37541992 ACATTTCTTA
*
37542002 AGGTTTGTATACAAT
1 AGGTTTGCATACAAT
37542017 AGGTTTGCATACAAT
1 AGGTTTGCATACAAT
37542032 A
1 A
37542033 CCTCCTTTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (15 bp):
AGGTTTGCATACAAT
Found at i:37547737 original size:11 final size:11
Alignment explanation
Indices: 37547721--37547759 Score: 55
Period size: 10 Copynumber: 3.7 Consensus size: 11
37547711 GAACGAGCTT
37547721 ATTGAGCTAGA
1 ATTGAGCTAGA
37547732 ATTGAGCTA-A
1 ATTGAGCTAGA
*
37547742 ATTGAGCTCG-
1 ATTGAGCTAGA
37547752 ATTGAGCT
1 ATTGAGCT
37547760 GGATCAAGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.31
Consensus pattern (11 bp):
ATTGAGCTAGA
Found at i:37547746 original size:21 final size:20
Alignment explanation
Indices: 37547721--37547759 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
37547711 GAACGAGCTT
37547721 ATTGAGCTAGAATTGAGCTAA
1 ATTGAGCTAG-ATTGAGCTAA
*
37547742 ATTGAGCTCGATTGAGCT
1 ATTGAGCTAGATTGAGCT
37547760 GGATCAAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.31
Consensus pattern (20 bp):
ATTGAGCTAGATTGAGCTAA
Done.