Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 170 of 290
Found at i:55537815 original size:39 final size:40
Alignment explanation
Indices: 55537772--55537916 Score: 120
Period size: 39 Copynumber: 3.7 Consensus size: 40
55537762 TAGGAGTACT
* *
55537772 GAAGTACAACAGA-GGCACGTAAGTGTGATTAGGGATACC
1 GAAGTACAACAGAGGGCACATAAGTGCGATTAGGGATACC
* * * * *
55537811 GAAGTACAATAG-GGGAAAAATCAAGCGCGATCAAGGG-TACC
1 GAAGTACAACAGAGGG-CACAT-AAGTGCGAT-TAGGGATACC
* * * *
55537852 GAAGTACAA-AAAGGGCACATAAGTGCGATCAGGGGTATC
1 GAAGTACAACAGAGGGCACATAAGTGCGATTAGGGATACC
*
55537891 GAAGTACAACA-AGGGCACGTAAGTGC
1 GAAGTACAACAGAGGGCACATAAGTGC
55537917 ACTCAAGAAT
Statistics
Matches: 85, Mismatches: 14, Indels: 14
0.75 0.12 0.12
Matches are distributed among these distances:
38 4 0.05
39 47 0.55
40 7 0.08
41 23 0.27
42 4 0.05
ACGTcount: A:0.39, C:0.17, G:0.30, T:0.14
Consensus pattern (40 bp):
GAAGTACAACAGAGGGCACATAAGTGCGATTAGGGATACC
Found at i:55539500 original size:45 final size:45
Alignment explanation
Indices: 55539436--55539609 Score: 188
Period size: 45 Copynumber: 3.8 Consensus size: 45
55539426 TGTAACCCGC
55539436 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGCAT
* * *
55539481 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTCGCAT
* *** * * * *
55539527 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCAGACATTCACAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
* *
55539574 CCATAAGTAAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
55539610 ATGCCCAAAT
Statistics
Matches: 104, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
45 37 0.36
46 32 0.31
47 35 0.34
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGCAT
Found at i:55539602 original size:93 final size:92
Alignment explanation
Indices: 55539444--55539614 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 92
55539434 GCCCATAAGT
* * * *
55539444 GAACTCGGACTCAACTCAACGAGCTCGGGCTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCAGACTTCACATCCATAAGTAAACTCGGACTCAACTCAAC
55539509 GAGCTCGGATGCCTAGTTACATCTCTC
66 GAGCTCGGATGCCTAGTTACATCTCTC
*
55539536 GAACTCGGACTCAACTCAACGAGTTCAGACATTCACATCCATAAGTAAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGAC-TTCACATCCATAAGTAAACTCGGACTCAACTCAA
*
55539601 CGAGTTCGGATGCC
65 CGAGCTCGGATGCC
55539615 CAAATATCCT
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
92 27 0.38
93 45 0.62
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACTTCACATCCATAAGTAAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCTC
Found at i:55544992 original size:46 final size:46
Alignment explanation
Indices: 55544925--55545094 Score: 202
Period size: 46 Copynumber: 3.7 Consensus size: 46
55544915 TGTAACCTGC
*
55544925 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCTTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCAT
*
55544971 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGC-A--T
* *** * * *
55545017 ACATCTCTCGAACTTGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCAT
55545064 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
55545095 TTCGGATGCC
Statistics
Matches: 102, Mismatches: 15, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 61 0.60
47 29 0.28
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCAT
Found at i:55545046 original size:93 final size:93
Alignment explanation
Indices: 55544933--55545104 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
55544923 GCCCATAAGT
* *
55544933 GAACTCGGACTCAACTCAACGAGCTCAGGCTTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55544998 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
55545026 GAACTTGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
55545091 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
55545105 CAAATATCCT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:55545119 original size:46 final size:44
Alignment explanation
Indices: 55544930--55545119 Score: 104
Period size: 46 Copynumber: 4.1 Consensus size: 44
55544920 CCTGCCCATA
* * * *
55544930 AGTGAACTCGGACTCAACTCAACGAGCTCAGGCTTTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GG-ATGCCCAAATCC-T
* *
55544975 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * * * *
55545025 --CGAACTTGGACTCAACTCAACGAGTTCAGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTC-G-GATGCCCAAATCC-T
55545068 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
55545115 AGTGA
1 AGTGA
55545120 CTGTCACTTG
Statistics
Matches: 111, Mismatches: 16, Indels: 34
0.69 0.10 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.04
44 6 0.05
45 3 0.03
46 59 0.53
47 25 0.23
48 5 0.05
49 3 0.03
50 4 0.04
51 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:55549908 original size:27 final size:27
Alignment explanation
Indices: 55549889--55550042 Score: 193
Period size: 27 Copynumber: 5.7 Consensus size: 27
55549879 ACCCAAATAT
*
55549889 CCTCGATTTATAGAATTACCGTTTTAC
1 CCTCGATTTATAGAATTACCGATTTAC
* * *
55549916 CCTCGATTTAAAGAATTACTGTTTTAC
1 CCTCGATTTATAGAATTACCGATTTAC
55549943 CCTCGATTTATAGAATTACC-ATTTTAC
1 CCTCGATTTATAGAATTACCGA-TTTAC
* * *
55549970 CCTTGATTTATAGAATTATCGTTTTAC
1 CCTCGATTTATAGAATTACCGATTTAC
* *
55549997 CCTCGATTTATAGAATTACCGTTTTAT
1 CCTCGATTTATAGAATTACCGATTTAC
* *
55550024 CCTCGATTTACAAAATTAC
1 CCTCGATTTATAGAATTAC
55550043 TAAAATACCC
Statistics
Matches: 112, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
27 112 1.00
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.42
Consensus pattern (27 bp):
CCTCGATTTATAGAATTACCGATTTAC
Found at i:55550054 original size:81 final size:81
Alignment explanation
Indices: 55549868--55550070 Score: 244
Period size: 81 Copynumber: 2.5 Consensus size: 81
55549858 GTACCCCTAG
* * * * *
55549868 TTTATAAAACTACCCAAATATCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTAAAGAATT
1 TTTACAAAATTACCAAAATACCCTTGATTTATAGAATTACCGTTTTACCCTCGATTTAAAGAATT
*
55549933 ACTGTTTTACCCTCGA
66 ACCGTTTTACCCTCGA
* * *** * *
55549949 TTTATAGAATTACCATTTTACCCTTGATTTATAGAATTATCGTTTTACCCTCGATTTATAGAATT
1 TTTACAAAATTACCAAAATACCCTTGATTTATAGAATTACCGTTTTACCCTCGATTTAAAGAATT
*
55550014 ACCGTTTTATCCTCGA
66 ACCGTTTTACCCTCGA
* * * *
55550030 TTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACC
1 TTTACAAAATTACCAAAATACCCTTGATTTATAGAATTACC
55550071 AAAATACCCT
Statistics
Matches: 100, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
81 100 1.00
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.39
Consensus pattern (81 bp):
TTTACAAAATTACCAAAATACCCTTGATTTATAGAATTACCGTTTTACCCTCGATTTAAAGAATT
ACCGTTTTACCCTCGA
Found at i:55550060 original size:27 final size:27
Alignment explanation
Indices: 55550030--55550189 Score: 153
Period size: 27 Copynumber: 6.0 Consensus size: 27
55550020 TTATCCTCGA
* * *
55550030 TTTACAAAATTACTAAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCCTGG
* *
55550057 TTTACAAAATTACCAAAATA-CCCTCG
1 TTTATAAAATTACCAAAATACCCCTGG
* *
55550083 ATCAGTAAAATTACCAAAATACCCCTGG
1 TTTA-TAAAATTACCAAAATACCCCTGG
* * *
55550111 TTTGTAAAATTACTAAAATACCCCTAG
1 TTTATAAAATTACCAAAATACCCCTGG
* * *
55550138 TTTGTAAAATTACCAAAATACCCTTGA
1 TTTATAAAATTACCAAAATACCCCTGG
* * *
55550165 TTTGTAAAA-TATCGAAATACCCCTG
1 TTTATAAAATTACCAAAATACCCCTG
55550190 TAGGGTAGAA
Statistics
Matches: 112, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
26 19 0.17
27 87 0.78
28 6 0.05
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
TTTATAAAATTACCAAAATACCCCTGG
Found at i:55550095 original size:81 final size:81
Alignment explanation
Indices: 55550028--55550189 Score: 209
Period size: 81 Copynumber: 2.0 Consensus size: 81
55550018 TTTTATCCTC
* *
55550028 GATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAA
1 GATTTACAAAATTACTAAAATACCCCTAGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAA
55550093 TTACCAAAATACCCCT
66 TTACCAAAATACCCCT
* ** ** * **
55550109 GGTTTGTAAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGATTTGTAAAA
1 GATTTACAAAATTACTAAAATACCCCTAGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAA
* *
55550174 -TATCGAAATACCCCT
66 TTACCAAAATACCCCT
55550189 G
1 G
55550190 TAGGGTAGAA
Statistics
Matches: 69, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
80 14 0.20
81 55 0.80
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.30
Consensus pattern (81 bp):
GATTTACAAAATTACTAAAATACCCCTAGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAA
TTACCAAAATACCCCT
Found at i:55550169 original size:54 final size:54
Alignment explanation
Indices: 55550035--55550174 Score: 183
Period size: 54 Copynumber: 2.6 Consensus size: 54
55550025 CTCGATTTAC
* ** *
55550035 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGT
1 AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTAGATCAGT
* * **
55550089 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCCTAG-TTTGT
1 AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATA-CCCTAGATCAGT
*
55550143 AAAATTACCAAAATACCCTTGATTTGTAAAAT
1 AAAATTACCAAAATACCCTTGGTTTGTAAAAT
55550175 ATCGAAATAC
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
54 70 0.93
55 5 0.07
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (54 bp):
AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTAGATCAGT
Found at i:55550209 original size:27 final size:27
Alignment explanation
Indices: 55550177--55550420 Score: 326
Period size: 27 Copynumber: 9.0 Consensus size: 27
55550167 TGTAAAATAT
55550177 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
** *
55550204 TAAAATACCTCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
55550231 CGAAATAACCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
55550258 CGAAATACCCCTGTAAGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
55550285 TGAAATACCCCTGTAGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
55550312 AGAAATACCCCTATAGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * * *
55550339 AGAAATACCCTTATAGGGTAGAAATAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
55550366 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * * *
55550393 CGAGATACCCTTGTGGGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
55550420 C
1 C
55550421 ATTTTGCCCC
Statistics
Matches: 192, Mismatches: 25, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 192 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:55550661 original size:25 final size:25
Alignment explanation
Indices: 55550623--55550692 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
55550613 AGGAAGTGCT
* *
55550623 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
55550648 AAAAGGGTTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
55550673 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
55550693 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:55550705 original size:24 final size:24
Alignment explanation
Indices: 55550622--55550717 Score: 86
Period size: 25 Copynumber: 3.9 Consensus size: 24
55550612 GAGGAAGTGC
*
55550622 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTATGCCCCAGTTTA-T
* * *
55550647 GAAAAGGGTTTTGCCCCAGTTTAT
1 TAAAAGGGCTATGCCCCAGTTTAT
* *
55550671 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTATGCCCCAGTTTAT
*
55550695 TAAAAGAGGCTAGGCCTCCAGTT
1 TAAAAG-GGCTATGCC-CCAGTT
55550718 ATATGATAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
23 5 0.09
24 11 0.19
25 41 0.71
26 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (24 bp):
TAAAAGGGCTATGCCCCAGTTTAT
Found at i:55550984 original size:31 final size:31
Alignment explanation
Indices: 55550913--55550987 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
55550903 CATTTACAGT
* *
55550913 AAAGGCTTCAGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAACGATATGATTTATGA
*
55550944 AAAGGCTTCGGCCCAGCGATATGATTTATGA
1 AAAGGCTTCGGCCCAACGATATGATTTATGA
55550975 AAAGGCTTCGGCC
1 AAAGGCTTCGGCC
55550988 TAGTAACCAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAACGATATGATTTATGA
Found at i:55553325 original size:27 final size:27
Alignment explanation
Indices: 55553295--55553450 Score: 188
Period size: 27 Copynumber: 5.8 Consensus size: 27
55553285 ACCCAAATAT
*
55553295 CCTCGATTTATAGAATTACTGTTTTAC
1 CCTCGATTTATAGAATTACTATTTTAC
*
55553322 CCTCGATTTATAGAATTACTATTTAAC
1 CCTCGATTTATAGAATTACTATTTTAC
* *
55553349 CCTCAATTTATAGAATTACCATTTTAC
1 CCTCGATTTATAGAATTACTATTTTAC
*
55553376 CCTTGATTTATAGAATTA-TCATTTTAC
1 CCTCGATTTATAGAATTACT-ATTTTAC
* **
55553403 CCTCGATTTACAGAATTACCGTTTTAC
1 CCTCGATTTATAGAATTACTATTTTAC
** * *
55553430 CCTTAATTTACAAAATTACTA
1 CCTCGATTTATAGAATTACTA
55553451 AAATACCCTT
Statistics
Matches: 110, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
27 110 1.00
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.42
Consensus pattern (27 bp):
CCTCGATTTATAGAATTACTATTTTAC
Found at i:55553384 original size:81 final size:81
Alignment explanation
Indices: 55553299--55553448 Score: 212
Period size: 81 Copynumber: 1.9 Consensus size: 81
55553289 AAATATCCTC
* * * * *
55553299 GATTTATAGAATTA-CTGTTTTACCCTCGATTTATAGAATTACTATTTAACCCTCAATTTATAGA
1 GATTTATAGAATTATC-ATTTTACCCTCGATTTACAGAATTACCATTTAACCCTCAATTTACAAA
55553363 ATTACCATTTTACCCTT
65 ATTACCATTTTACCCTT
* * *
55553380 GATTTATAGAATTATCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTTAATTTACAAAA
1 GATTTATAGAATTATCATTTTACCCTCGATTTACAGAATTACCATTTAACCCTCAATTTACAAAA
55553445 TTAC
66 TTAC
55553449 TAAAATACCC
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
81 59 0.98
82 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.07, T:0.42
Consensus pattern (81 bp):
GATTTATAGAATTATCATTTTACCCTCGATTTACAGAATTACCATTTAACCCTCAATTTACAAAA
TTACCATTTTACCCTT
Found at i:55553433 original size:54 final size:54
Alignment explanation
Indices: 55553295--55553450 Score: 215
Period size: 54 Copynumber: 2.9 Consensus size: 54
55553285 ACCCAAATAT
* *
55553295 CCTCGATTTATAGAATTACTGTTTTACCCTCGATTTATAGAATTACTATTTAAC
1 CCTCGATTTATAGAATTACCGTTTTACCCTTGATTTATAGAATTACTATTTAAC
* * *
55553349 CCTCAATTTATAGAATTACCATTTTACCCTTGATTTATAGAATTA-TCATTTTAC
1 CCTCGATTTATAGAATTACCGTTTTACCCTTGATTTATAGAATTACT-ATTTAAC
* * * *
55553403 CCTCGATTTACAGAATTACCGTTTTACCCTTAATTTACAAAATTACTA
1 CCTCGATTTATAGAATTACCGTTTTACCCTTGATTTATAGAATTACTA
55553451 AAATACCCTT
Statistics
Matches: 89, Mismatches: 11, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
53 1 0.01
54 87 0.98
55 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.42
Consensus pattern (54 bp):
CCTCGATTTATAGAATTACCGTTTTACCCTTGATTTATAGAATTACTATTTAAC
Found at i:55553457 original size:27 final size:27
Alignment explanation
Indices: 55553427--55553512 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 27
55553417 ATTACCGTTT
*
55553427 TACCCTTAATTTACAAAATTACTAAAA
1 TACCCTTAATTTACAAAATTACCAAAA
**
55553454 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTAATTTACAAAATTACCAAAA
** * *
55553481 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTTAATTTA-CAAAATTACCAAAA
55553508 TACCC
1 TACCC
55553513 CTGGTTTGTA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
26 2 0.04
27 49 0.96
ACGTcount: A:0.43, C:0.24, G:0.05, T:0.28
Consensus pattern (27 bp):
TACCCTTAATTTACAAAATTACCAAAA
Found at i:55553458 original size:54 final size:54
Alignment explanation
Indices: 55553289--55553476 Score: 182
Period size: 54 Copynumber: 3.5 Consensus size: 54
55553279 AAAACTACCC
* * * *
55553289 AAATATCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTATAGAATTACT-
1 AAATACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTATAGAATTACTA
** * * *
55553342 ATTTAACCCTCAATTTATAGAATTACCATTTTACCCTTGATTTATAGAATTA-TCA
1 AAAT-ACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTATAGAATTACT-A
*** * * *
55553397 TTTTACCCTCGATTTACAGAATTACCGTTTTACCCTTAATTTACAAAATTACTA
1 AAATACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTATAGAATTACTA
* * *
55553451 AAATACCCTTGGTTTACAAAATTACC
1 AAATACCCTCGATTTACAGAATTACC
55553477 AAAATACCCT
Statistics
Matches: 111, Mismatches: 20, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
53 3 0.03
54 104 0.94
55 4 0.04
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.40
Consensus pattern (54 bp):
AAATACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTATAGAATTACTA
Found at i:55553458 original size:81 final size:81
Alignment explanation
Indices: 55553274--55553475 Score: 208
Period size: 81 Copynumber: 2.5 Consensus size: 81
55553264 GTACCTCCGG
* * * * * * *
55553274 TTTATAAAACTACCCAAATATCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTATAGAATT
1 TTTACAAAATTACCAAAATACCCTTGATTTATAGAATTACTATTTTACCCTCGATTTACAGAATT
*
55553339 ACTATTTAACCCTCAA
66 ACCATTTAACCCTCAA
* * ***
55553355 TTTATAGAATTACCATTTTACCCTTGATTTATAGAATTA-TCATTTTACCCTCGATTTACAGAAT
1 TTTACAAAATTACCAAAATACCCTTGATTTATAGAATTACT-ATTTTACCCTCGATTTACAGAAT
* * *
55553419 TACCGTTTTACCCTTAA
65 TACCATTTAACCCTCAA
* * * *
55553436 TTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTAC
1 TTTACAAAATTACCAAAATACCCTTGATTTATAGAATTAC
55553476 CAAAATACCC
Statistics
Matches: 96, Mismatches: 23, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
80 1 0.01
81 95 0.99
ACGTcount: A:0.34, C:0.20, G:0.06, T:0.40
Consensus pattern (81 bp):
TTTACAAAATTACCAAAATACCCTTGATTTATAGAATTACTATTTTACCCTCGATTTACAGAATT
ACCATTTAACCCTCAA
Found at i:55553523 original size:27 final size:27
Alignment explanation
Indices: 55553441--55553567 Score: 116
Period size: 27 Copynumber: 4.8 Consensus size: 27
55553431 CTTAATTTAC
* * * **
55553441 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGATTTGT
**
55553468 AAAATTACCAAAATA-CCCTCGATCAGT
1 AAAATTACCAAAATACCCCT-GATTTGT
*
55553495 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* **
55553522 AAAATTACTAAAATACCATTGATTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
*
55553549 -AAA-TACCGAAATACCCCTG
1 AAAATTACCAAAATACCCCTG
55553568 TAGGGTAGAA
Statistics
Matches: 80, Mismatches: 18, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
25 12 0.15
26 6 0.08
27 58 0.73
28 4 0.05
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.28
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGATTTGT
Found at i:55553551 original size:54 final size:54
Alignment explanation
Indices: 55553441--55553567 Score: 150
Period size: 54 Copynumber: 2.4 Consensus size: 54
55553431 CTTAATTTAC
* * *
55553441 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGT
1 AAAATTACCAAAATACCCCTGGTTTACAAAATTACCAAAATACCATCGATCAGT
** * * **
55553495 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCATTGATTTGT
1 AAAATTACCAAAATACCCCTGGTTTACAAAATTACCAAAATACCATCGATCAGT
*
55553549 -AAA-TACCGAAATACCCCTG
1 AAAATTACCAAAATACCCCTG
55553568 TAGGGTAGAA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
52 15 0.24
53 3 0.05
54 45 0.71
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.28
Consensus pattern (54 bp):
AAAATTACCAAAATACCCCTGGTTTACAAAATTACCAAAATACCATCGATCAGT
Found at i:55553594 original size:27 final size:27
Alignment explanation
Indices: 55553552--55553771 Score: 325
Period size: 27 Copynumber: 8.1 Consensus size: 27
55553542 GATTTGTAAA
55553552 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* *
55553579 GACTGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
55553606 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* *
55553633 TACTGAAATAACCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
55553660 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * *
55553687 TACTGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAT
*
55553714 TACCGAAATACCCCTATAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * *
55553741 TACCGAGATACCCTTGT-GCGGTAAAAT
1 TACCGAAATACCCCTGTAG-GGTAGAAT
55553768 TACC
1 TACC
55553772 ATTTTGCCCC
Statistics
Matches: 173, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
26 1 0.01
27 172 0.99
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (27 bp):
TACCGAAATACCCCTGTAGGGTAGAAT
Found at i:55554032 original size:25 final size:24
Alignment explanation
Indices: 55553974--55554041 Score: 93
Period size: 25 Copynumber: 2.8 Consensus size: 24
55553964 GGAAGTGCTA
*
55553974 AAAGGG-TTATGCCCCAGTTTACCG
1 AAAGGGCTT-TGCCCCAGTTTACAG
*
55553998 AAAGGACTTTGCCCCAGTTTATCAG
1 AAAGGGCTTTGCCCCAGTTTA-CAG
55554023 AAAGGGCTTTGCCCCAGTT
1 AAAGGGCTTTGCCCCAGTT
55554042 ATTAAAAGAG
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
24 17 0.44
25 22 0.56
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAGGGCTTTGCCCCAGTTTACAG
Found at i:55554274 original size:30 final size:31
Alignment explanation
Indices: 55554209--55554282 Score: 114
Period size: 31 Copynumber: 2.4 Consensus size: 31
55554199 CGTTTACAGT
* *
55554209 AAAGGCTTCGTCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAACGATATGATTTATGA
*
55554240 AAAGGCTTCGGCCCAGCGATATGATTTA-GA
1 AAAGGCTTCGGCCCAACGATATGATTTATGA
55554270 AAAGGCTTCGGCC
1 AAAGGCTTCGGCC
55554283 TAGTATATGT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 15 0.38
31 25 0.62
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAACGATATGATTTATGA
Found at i:55560400 original size:30 final size:29
Alignment explanation
Indices: 55560353--55560413 Score: 104
Period size: 30 Copynumber: 2.1 Consensus size: 29
55560343 CAAGTAGCCG
*
55560353 AAGCTAGTTAAATTGCACACTTAGTGCCA
1 AAGCTAGTTAAACTGCACACTTAGTGCCA
55560382 AAGCTAGTTTAAACTGCACACTTAGTGCCA
1 AAGCTAG-TTAAACTGCACACTTAGTGCCA
55560412 AA
1 AA
55560414 ACTTCCGATT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 7 0.23
30 23 0.77
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.26
Consensus pattern (29 bp):
AAGCTAGTTAAACTGCACACTTAGTGCCA
Found at i:55565519 original size:13 final size:13
Alignment explanation
Indices: 55565501--55565526 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55565491 AATAACATGG
55565501 ATTTAGAGCTTTA
1 ATTTAGAGCTTTA
55565514 ATTTAGAGCTTTA
1 ATTTAGAGCTTTA
55565527 CTTTTGTTGT
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:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
ATTTAGAGCTTTA
Found at i:55566311 original size:41 final size:42
Alignment explanation
Indices: 55566172--55566318 Score: 136
Period size: 42 Copynumber: 3.5 Consensus size: 42
55566162 CTTTCCATTT
* * * * * * *
55566172 AGCTCGCATGAACTTCTGTTTAACTCATATGAGTTTTCATTC
1 AGCTCTCATGAGCTTCTGTTCAACCCTTATGGGTTTTCGTTC
* *
55566214 AGCTCT-ATTGAGCTTCTGTTTAACCCTTATGGGTTTCCGTTC
1 AGCTCTCA-TGAGCTTCTGTTCAACCCTTATGGGTTTTCGTTC
* * * * *
55566256 AGCTTTTATAAGCTTCTGTTCAACCCTTA-GGGTTTTTGTTT
1 AGCTCTCATGAGCTTCTGTTCAACCCTTATGGGTTTTCGTTC
*
55566297 AGCTCTCATGAGCTTCTATTCA
1 AGCTCTCATGAGCTTCTGTTCA
55566319 GCCTTCGGGC
Statistics
Matches: 86, Mismatches: 17, Indels: 5
0.80 0.16 0.05
Matches are distributed among these distances:
41 28 0.33
42 57 0.66
43 1 0.01
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.43
Consensus pattern (42 bp):
AGCTCTCATGAGCTTCTGTTCAACCCTTATGGGTTTTCGTTC
Found at i:55570091 original size:138 final size:138
Alignment explanation
Indices: 55569843--55570154 Score: 376
Period size: 138 Copynumber: 2.3 Consensus size: 138
55569833 CATATAAGGT
* * * * * **
55569843 GCTTGGGTTGTCATCTCGTTTTGCGTCAAAAGGTTTGGTGACGAGCTGAAGCTTGTAACACTCTG
1 GCTTGGGTTGCCATCTCGTTTCGCGTCAAAAGGTTTGGTGACGAACCGAAACTTGTAACACTCCA
55569908 CTAACCGAGCTGCCTTAAGAAAGGAGAAATAAATCAATTAAGGACATATGAAATTGAGTAACCAA
66 CTAACCGAGCTGCCTTAAGAAAGGAGAAATAAATCAATTAAGGACATATGAAATTGAGTAACCAA
55569973 GATGAGGC
131 GATGAGGC
* * * **
55569981 GCTTGGGTTGCCATCTTGTTTCGTGTCAAAAGGTTTGGTGATGAACCGAAACTTGTAACGTTCCA
1 GCTTGGGTTGCCATCTCGTTTCGCGTCAAAAGGTTTGGTGACGAACCGAAACTTGTAACACTCCA
* ** * * * **
55570046 CTAACCGAGCTGCCTTGAGAAAGGAGAAATAAATTGATTAGGGACATGTGAAATTGAGTTA-CTG
66 CTAACCGAGCTGCCTTAAGAAAGGAGAAATAAATCAATTAAGGACATATGAAATTGAGTAACCAA
*
55570110 GAATGA-GT
131 G-ATGAGGC
* * * *
55570118 GCTTGGGTTGTCATCTCGTTTTGCATCAAAAAGTTTG
1 GCTTGGGTTGCCATCTCGTTTCGCGTCAAAAGGTTTG
55570155 ATTATGTCTC
Statistics
Matches: 146, Mismatches: 27, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
137 34 0.23
138 112 0.77
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (138 bp):
GCTTGGGTTGCCATCTCGTTTCGCGTCAAAAGGTTTGGTGACGAACCGAAACTTGTAACACTCCA
CTAACCGAGCTGCCTTAAGAAAGGAGAAATAAATCAATTAAGGACATATGAAATTGAGTAACCAA
GATGAGGC
Found at i:55572107 original size:39 final size:38
Alignment explanation
Indices: 55572062--55572182 Score: 179
Period size: 39 Copynumber: 3.1 Consensus size: 38
55572052 AAGCAAGACA
* *
55572062 CTGGAAATGTATCCAGGCAAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCC-GGCTAAAGTCCCGCAGGCTTCGTG
55572101 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCC-GGCTAAAGTCCCGCAGGCTTCGTG
* *
55572140 CTGGAAATTTATCCGAGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCG-GCTAAAGTCCCGCAGGCTTCGTG
55572179 CTGG
1 CTGG
55572183 TAACATAATT
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
38 1 0.01
39 75 0.99
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.23
Consensus pattern (38 bp):
CTGGAAATGTATCCGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:55575688 original size:23 final size:25
Alignment explanation
Indices: 55575653--55575700 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
55575643 TATGTAATAT
* *
55575653 ATGTATTATCATGA-GAA-AAATTA
1 ATGTACTAACATGAGGAATAAATTA
55575676 ATGTACTAACATGAGGAATAAATTA
1 ATGTACTAACATGAGGAATAAATTA
55575701 CCCAATGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 12 0.57
24 3 0.14
25 6 0.29
ACGTcount: A:0.48, C:0.06, G:0.15, T:0.31
Consensus pattern (25 bp):
ATGTACTAACATGAGGAATAAATTA
Found at i:55579396 original size:17 final size:18
Alignment explanation
Indices: 55579371--55579405 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
55579361 TTTGAACATG
55579371 AATGATTTAAAT-TAAAA
1 AATGATTTAAATCTAAAA
*
55579388 AATGGTTTAAATCTAAAA
1 AATGATTTAAATCTAAAA
55579406 CCATCCAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.54, C:0.03, G:0.09, T:0.34
Consensus pattern (18 bp):
AATGATTTAAATCTAAAA
Found at i:55580454 original size:20 final size:20
Alignment explanation
Indices: 55580426--55580463 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
55580416 ATATAAAGAC
* *
55580426 TAAATAGATTTATTTAATAA
1 TAAAGAGATTAATTTAATAA
55580446 TAAAGAGATTAATTTAAT
1 TAAAGAGATTAATTTAAT
55580464 CTAGTCCCTA
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:0.00, G:0.08, T:0.42
Consensus pattern (20 bp):
TAAAGAGATTAATTTAATAA
Found at i:55581974 original size:30 final size:30
Alignment explanation
Indices: 55581940--55581999 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
55581930 CGAATAAGTG
55581940 AATATATCTTTCCAAGATGACTTAGAAAAT
1 AATATATCTTTCCAAGATGACTTAGAAAAT
55581970 AATATATCTTTCCAAGATGACTTAGAAAAT
1 AATATATCTTTCCAAGATGACTTAGAAAAT
55582000 CTATTCATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.33
Consensus pattern (30 bp):
AATATATCTTTCCAAGATGACTTAGAAAAT
Found at i:55583252 original size:53 final size:54
Alignment explanation
Indices: 55583175--55583295 Score: 201
Period size: 55 Copynumber: 2.3 Consensus size: 54
55583165 ATGGTAAGGG
*
55583175 TTAATTTTAA-TTTTTGAATATTATTTAATA-TTTTTCATTTATTTAATTTTAA
1 TTAATTTTAATTTTTTGAATATTATTTAATATTTTTTCATTTATGTAATTTTAA
55583227 TTAATTTTAATTTTTTGAATATTATTTAATATTTTTTTCATTTATGTAATTTTAA
1 TTAATTTTAATTTTTTGAATATTATTTAATA-TTTTTTCATTTATGTAATTTTAA
*
55583282 TTAATTTTTATTTT
1 TTAATTTTAATTTT
55583296 ATAATTTTTT
Statistics
Matches: 64, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
52 10 0.16
53 20 0.31
55 34 0.53
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (54 bp):
TTAATTTTAATTTTTTGAATATTATTTAATATTTTTTCATTTATGTAATTTTAA
Found at i:55584811 original size:18 final size:18
Alignment explanation
Indices: 55584788--55584824 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
55584778 TGCCAGGTTC
*
55584788 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
55584806 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
55584824 G
1 G
55584825 CTCCTTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.27, G:0.11, T:0.38
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:55588333 original size:38 final size:38
Alignment explanation
Indices: 55588248--55588366 Score: 193
Period size: 39 Copynumber: 3.1 Consensus size: 38
55588238 ATTACCAGCA
* *
55588248 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGACACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGA-TCATTT
55588287 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATCATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATCATTT
*
55588325 CCAGCACGAAGCCTGCGGGACTTTAGCCTGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGAT-CATTT
55588364 CCA
1 CCA
55588367 CTGTCTTGCA
Statistics
Matches: 76, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
38 37 0.49
39 39 0.51
ACGTcount: A:0.22, C:0.32, G:0.25, T:0.21
Consensus pattern (38 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATCATTT
Found at i:55599899 original size:125 final size:126
Alignment explanation
Indices: 55599676--55599928 Score: 357
Period size: 125 Copynumber: 2.0 Consensus size: 126
55599666 GGCCAAACAT
* * *
55599676 GAACTACTTTAGAAAAAGAGCATCCACGTGAGAGCTTTTTTTAGAAATTTTGCTGACATTGCATC
1 GAACTACTCTAGAAAAAGAGCATCCACGTGAGAGCTTTTTTCAGAAATTTTGCTGACAATGCATC
* * * *
55599741 CTGTTTGAAGCGTTTTTGACACTATTTGCTTAGAAATATCTTCTCAAAATTATTTTTTCAG
66 CTGCTTGAAACATTTTTGACACTATTTGCTTAGAAACATCTTCTCAAAATTATTTTTTCAG
* * * *
55599802 GAACTGCTCTAGAAAAAGAGCATCCACGTGGGAGC-TTTTTCAGTAATTTTGCAT-ACAATGCGT
1 GAACTACTCTAGAAAAAGAGCATCCACGTGAGAGCTTTTTTCAGAAATTTTGC-TGACAATGCAT
* * *
55599865 CTTGCTTGAAACATTTTTGACACTATTTGTTTAGAAACGTCTTCTCAAAATTATTTTTTCAG
65 CCTGCTTGAAACATTTTTGACACTATTTGCTTAGAAACATCTTCTCAAAATTATTTTTTCAG
55599927 GA
1 GA
55599929 TAAAAATAGT
Statistics
Matches: 112, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
125 79 0.71
126 33 0.29
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.38
Consensus pattern (126 bp):
GAACTACTCTAGAAAAAGAGCATCCACGTGAGAGCTTTTTTCAGAAATTTTGCTGACAATGCATC
CTGCTTGAAACATTTTTGACACTATTTGCTTAGAAACATCTTCTCAAAATTATTTTTTCAG
Found at i:55600099 original size:33 final size:33
Alignment explanation
Indices: 55599987--55600110 Score: 142
Period size: 34 Copynumber: 3.7 Consensus size: 33
55599977 TAAAATAAAC
* *
55599987 TAAACCCTAATTTAATTAAGTTTAACCTT-AAACCC
1 TAAACCCTAATTTAATTAA-TTT-A-TTTAAAACCA
* * *
55600022 TAAATCCTAATTTAATTAATTTATTTATAACCCT
1 TAAACCCTAATTTAATTAATTTATTTA-AAACCA
* *
55600056 TAAACACTAATTTACTTAATTTATTTAAAACCA
1 TAAACCCTAATTTAATTAATTTATTTAAAACCA
55600089 TAAACCCTAATTTAATTAATTT
1 TAAACCCTAATTTAATTAATTT
55600111 TTACAAAATA
Statistics
Matches: 76, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
32 2 0.03
33 25 0.33
34 31 0.41
35 18 0.24
ACGTcount: A:0.41, C:0.17, G:0.01, T:0.41
Consensus pattern (33 bp):
TAAACCCTAATTTAATTAATTTATTTAAAACCA
Found at i:55600228 original size:34 final size:34
Alignment explanation
Indices: 55600154--55600229 Score: 91
Period size: 34 Copynumber: 2.2 Consensus size: 34
55600144 AAAATCCACT
* *
55600154 AAAACCCTAAACCTTAACTTATTTTAACAAAAAC
1 AAAACCTTAAACCTTAAATTATTTTAACAAAAAC
* *
55600188 ATAAACCTTAAACC-TAAATTATTTTAGCAAAACCC
1 A-AAACCTTAAACCTTAAATTATTTTAACAAAA-AC
55600223 AAAACCT
1 AAAACCT
55600230 AAAAACCCTA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
34 23 0.64
35 13 0.36
ACGTcount: A:0.49, C:0.24, G:0.01, T:0.26
Consensus pattern (34 bp):
AAAACCTTAAACCTTAAATTATTTTAACAAAAAC
Found at i:55602902 original size:32 final size:32
Alignment explanation
Indices: 55602866--55602933 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
55602856 TGAATAAAAT
55602866 AGTATCAGTACAGTCTGGGCCAAGCCCTATTC
1 AGTATCAGTACAGTCTGGGCCAAGCCCTATTC
*
55602898 AGTATCCGTACAGTCTGGGCCAAGCCCTATTC
1 AGTATCAGTACAGTCTGGGCCAAGCCCTATTC
55602930 AGTA
1 AGTA
55602934 GTAGAGTGAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (32 bp):
AGTATCAGTACAGTCTGGGCCAAGCCCTATTC
Found at i:55608158 original size:31 final size:31
Alignment explanation
Indices: 55608120--55608183 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
55608110 CCTTTTCATA
55608120 TTTCATATTTCACAACACTGGGCCGAAGCCT
1 TTTCATATTTCACAACACTGGGCCGAAGCCT
* **
55608151 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCACAACACTGGGCCGAAGCCT
55608182 TT
1 TT
55608184 ACTGTATACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATATTTCACAACACTGGGCCGAAGCCT
Found at i:55608452 original size:23 final size:23
Alignment explanation
Indices: 55608377--55608493 Score: 173
Period size: 23 Copynumber: 5.0 Consensus size: 23
55608367 GCTTTATCAT
*
55608377 ATAACTGGAGGCCT-AGCCTCTTTGA
1 ATAACTGG-GGCATAAGCC-CTTT-A
*
55608402 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCC-TTTA
55608426 ATAACTGGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTA
55608449 ATAACTGGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTA
55608472 ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTT
55608494 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
23 49 0.56
24 23 0.26
25 15 0.17
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (23 bp):
ATAACTGGGGCATAAGCCCTTTA
Found at i:55608569 original size:20 final size:20
Alignment explanation
Indices: 55608544--55608610 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
55608534 TTATGATTAC
55608544 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
55608564 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
55608584 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
55608604 ACCATGT
1 ATCATGT
55608611 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:55608575 original size:11 final size:11
Alignment explanation
Indices: 55608544--55608599 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
55608534 TTATGATTAC
55608544 ATCATGTGCAT
1 ATCATGTGCAT
*
55608555 ATCA--TACAT
1 ATCATGTGCAT
55608564 ATCATGTGCAT
1 ATCATGTGCAT
*
55608575 ATCA--TACAT
1 ATCATGTGCAT
*
55608584 GTCATGTGCAT
1 ATCATGTGCAT
55608595 ATCAT
1 ATCAT
55608600 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:55608693 original size:25 final size:25
Alignment explanation
Indices: 55608647--55608694 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
55608637 ATACATAAAC
* * * *
55608647 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
55608672 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
55608695 CATGTTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:55615751 original size:32 final size:32
Alignment explanation
Indices: 55615715--55615775 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
55615705 CATAGTATTA
55615715 GTACAATCTAGGCCAAGCCCTATTCAGTATCC
1 GTACAATCTAGGCCAAGCCCTATTCAGTATCC
* *
55615747 GTACAGTCTGGGCCAAGCCCTATTCAGTA
1 GTACAATCTAGGCCAAGCCCTATTCAGTA
55615776 GTAAAGTGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.25
Consensus pattern (32 bp):
GTACAATCTAGGCCAAGCCCTATTCAGTATCC
Found at i:55617917 original size:31 final size:31
Alignment explanation
Indices: 55617879--55617954 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
55617869 CATACACTGG
*
55617879 GCCGAAGCCTTTACATTA-TCCATGTCACTAA
1 GCCGAAGCCTTTACATTACT-CATATCACTAA
* * **
55617910 GCTGAAGCCTTTTCATTACTCATATCACTGG
1 GCCGAAGCCTTTACATTACTCATATCACTAA
55617941 GCCGAAGCCTTTAC
1 GCCGAAGCCTTTAC
55617955 TGCAAATGGT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
31 36 0.97
32 1 0.03
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (31 bp):
GCCGAAGCCTTTACATTACTCATATCACTAA
Found at i:55618202 original size:25 final size:26
Alignment explanation
Indices: 55618173--55618242 Score: 99
Period size: 25 Copynumber: 2.8 Consensus size: 26
55618163 CCTCTTTAAT
55618173 AACTGGGGCAAAGCCCTTTTT-GATA
1 AACTGGGGCAAAGCCCTTTTTCGATA
*
55618198 AACTGGGGCAAAG-CCTTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTCGATA
* *
55618223 AACTAGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
55618243 GCACTTCCTC
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
24 7 0.17
25 27 0.68
26 6 0.15
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (26 bp):
AACTGGGGCAAAGCCCTTTTTCGATA
Found at i:55618402 original size:25 final size:25
Alignment explanation
Indices: 55618373--55618420 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
55618363 ATAATTAAAC
* **
55618373 CCTAGGGGTAAAATGGTCATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
55618398 CCTAGGGGCAAAACAGTCATTTT
1 CCTAGGGGCAAAACAGTCATTTT
55618421 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:55619987 original size:13 final size:13
Alignment explanation
Indices: 55619969--55619993 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55619959 TAATGGTATA
55619969 TTGAATCCATGAT
1 TTGAATCCATGAT
55619982 TTGAATCCATGA
1 TTGAATCCATGA
55619994 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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:55621431 original size:47 final size:47
Alignment explanation
Indices: 55621373--55621631 Score: 374
Period size: 47 Copynumber: 5.5 Consensus size: 47
55621363 ATTCAGCCAA
55621373 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
55621420 GAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * *
55621469 GAAAATGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
55621516 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * * * * * * *
55621563 GAATGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
55621610 GAAAGTGCATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
55621632 TCCCGAAGGG
Statistics
Matches: 191, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
47 146 0.76
49 45 0.24
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:55623697 original size:43 final size:43
Alignment explanation
Indices: 55623649--55623751 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
55623639 TTGGTTTTCA
*
55623649 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATCG
55623692 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATCG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATCG
55623735 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
55623752 TTGAAATGCA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.22, C:0.17, G:0.36, T:0.25
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATCG
Found at i:55623769 original size:29 final size:29
Alignment explanation
Indices: 55623734--55623806 Score: 103
Period size: 29 Copynumber: 2.5 Consensus size: 29
55623724 TTGTGAGATC
* *
55623734 GGCACTAAGTGTGCGGGCTTGAAA-TGCAT
1 GGCACTAAGTGTGCGAG-TTGAAAGTACAT
*
55623763 GGCACTAAGTGTGCGAGTTTAAAGTACAT
1 GGCACTAAGTGTGCGAGTTGAAAGTACAT
55623792 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
55623807 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAGTTGAAAGTACAT
Found at i:55624246 original size:40 final size:39
Alignment explanation
Indices: 55624121--55624273 Score: 123
Period size: 40 Copynumber: 3.8 Consensus size: 39
55624111 ATGATGTTCG
* *
55624121 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC
1 GGCTAAGTCCCGAAGGCATTCGTGCT-AGTGACTATATCC
* * * * *
55624160 GGACTAAGAT-CCGAAGGCATTGGTGCGAGTTACTAAATCTG
1 GG-CTAAG-TCCCGAAGGCATTCGTGCTAGTGACTATATC-C
55624201 GGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA-TATATCC
1 GGCTAAGTCCCGAAG-GCATTCGTGCTAGTGACTATATCC
* * * *
55624240 GTGCTAAATCCCGAAGAGCAATCATGCTGGTGAC
1 G-GCTAAGTCCCGAAG-GCATTCGTGCTAGTGAC
55624274 GTGTATTCGG
Statistics
Matches: 91, Mismatches: 15, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
39 4 0.04
40 65 0.71
41 22 0.24
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGGCATTCGTGCTAGTGACTATATCC
Found at i:55626349 original size:13 final size:13
Alignment explanation
Indices: 55626331--55626355 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55626321 TAATGGTATA
55626331 TTGAATCCATGAT
1 TTGAATCCATGAT
55626344 TTGAATCCATGA
1 TTGAATCCATGA
55626356 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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:55627793 original size:47 final size:47
Alignment explanation
Indices: 55627735--55628040 Score: 459
Period size: 47 Copynumber: 6.5 Consensus size: 47
55627725 ATTCAGCCAA
55627735 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
55627782 GAAAGTGTATATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
55627831 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
55627878 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
55627925 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * * * * * * *
55627972 GAATGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
55628019 GAAAGTGCATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
55628041 TCCCGAAGGG
Statistics
Matches: 238, Mismatches: 19, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
47 192 0.81
49 46 0.19
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:55632452 original size:20 final size:20
Alignment explanation
Indices: 55632427--55632464 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
55632417 TAAGCTTATG
*
55632427 ATAAGTAAATGGAATGGTAA
1 ATAAGTAAATGAAATGGTAA
*
55632447 ATAAGTAGATGAAATGGT
1 ATAAGTAAATGAAATGGT
55632465 TTATTGTTTT
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:0.47, C:0.00, G:0.26, T:0.26
Consensus pattern (20 bp):
ATAAGTAAATGAAATGGTAA
Found at i:55634606 original size:40 final size:40
Alignment explanation
Indices: 55634528--55634709 Score: 262
Period size: 40 Copynumber: 4.6 Consensus size: 40
55634518 AACCCAAGTA
* *
55634528 CCTTCGGGAATTAG-CCGGATATAG-CAACTCA-CACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACT-AGCATAAATG
* ** *
55634567 CCTTCGGGTCTTAGCAAGGATATAGTCACTAGCAAAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATG
55634607 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATG
55634647 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATG
*
55634687 CCTTCGGGACTTAGCCCAGATAT
1 CCTTCGGGACTTAGCCCGGATAT
55634710 CATCTGAATA
Statistics
Matches: 130, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 13 0.10
40 116 0.89
41 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATG
Found at i:55642966 original size:34 final size:33
Alignment explanation
Indices: 55642902--55642976 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 33
55642892 AATTGGGTTA
* * *
55642902 AAGCCCACACTGTTACTGCTAATG-TAATGGGCT
1 AAGCCCACACTGATATTGCTACTGAT-ATGGGCT
55642935 AAGGCCCACACTGATATTGCTACTGATATGGGCTT
1 AA-GCCCACACTGATATTGCTACTGATATGGGC-T
55642970 AAGCCCA
1 AAGCCCA
55642977 AACCGTCCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
33 2 0.06
34 30 0.83
35 4 0.11
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.25
Consensus pattern (33 bp):
AAGCCCACACTGATATTGCTACTGATATGGGCT
Found at i:55650000 original size:24 final size:23
Alignment explanation
Indices: 55649968--55650038 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 23
55649958 GGAGTGATAT
55649968 GTGGAGGAAATCAAGAAGAGGATG
1 GTGGAGGAAATCAAG-AGAGGATG
*
55649992 GTGGAGGAAATTAAGGAGAGGATG
1 GTGGAGGAAATCAA-GAGAGGATG
*
55650016 GGGGA-GAAACTCAATGAGAGGAT
1 GTGGAGGAAA-TCAA-GAGAGGAT
55650039 TATGGAGAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.10
24 36 0.88
25 1 0.02
ACGTcount: A:0.39, C:0.04, G:0.42, T:0.14
Consensus pattern (23 bp):
GTGGAGGAAATCAAGAGAGGATG
Found at i:55650224 original size:22 final size:22
Alignment explanation
Indices: 55650182--55650223 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
55650172 GGTCTTTTAG
* *
55650182 GTTTTGTTTTGTTCTTCTTTTC
1 GTTTTGTTTTGCTCTGCTTTTC
55650204 GTTTTGTTTT-CTCTGCTTTT
1 GTTTTGTTTTGCTCTGCTTTT
55650224 TGTGCTACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.00, C:0.14, G:0.14, T:0.71
Consensus pattern (22 bp):
GTTTTGTTTTGCTCTGCTTTTC
Found at i:55651168 original size:19 final size:19
Alignment explanation
Indices: 55651144--55651181 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
55651134 TGGGCCACGA
55651144 TGGGCCAAAATGGG-TTGTG
1 TGGGCC-AAATGGGCTTGTG
*
55651163 TGGGCCCAATGGGCTTGTG
1 TGGGCCAAATGGGCTTGTG
55651182 GGATCCACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.16, C:0.16, G:0.42, T:0.26
Consensus pattern (19 bp):
TGGGCCAAATGGGCTTGTG
Found at i:55652630 original size:21 final size:21
Alignment explanation
Indices: 55652600--55652645 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
55652590 AATATAGTAG
55652600 GTAG-AAATACTAAGACTACT
1 GTAGAAAATACTAAGACTACT
*
55652620 GTAGAAAATACTGAGACTACT
1 GTAGAAAATACTAAGACTACT
55652641 GTAGA
1 GTAGA
55652646 TAAAGGACTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.43, C:0.13, G:0.20, T:0.24
Consensus pattern (21 bp):
GTAGAAAATACTAAGACTACT
Found at i:55657519 original size:29 final size:29
Alignment explanation
Indices: 55657481--55657537 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
55657471 TGCATGTATG
55657481 TTTTAATGGCTAGAAGTGTTTTGGGTGTA
1 TTTTAATGGCTAGAAGTGTTTTGGGTGTA
55657510 TTTTAATGGCTAGAAGTGTTTTGGGTGT
1 TTTTAATGGCTAGAAGTGTTTTGGGTGT
55657538 GTTTGGGAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.19, C:0.04, G:0.32, T:0.46
Consensus pattern (29 bp):
TTTTAATGGCTAGAAGTGTTTTGGGTGTA
Found at i:55659470 original size:26 final size:26
Alignment explanation
Indices: 55659441--55659490 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
55659431 TTTATACTGA
* *
55659441 TTACTGGCAGCTTTGTTGCGATACCG
1 TTACTGGCAGCTTTGCTACGATACCG
*
55659467 TTACTGGTAGCTTTGCTACGATAC
1 TTACTGGCAGCTTTGCTACGATAC
55659491 TGATATTGGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (26 bp):
TTACTGGCAGCTTTGCTACGATACCG
Found at i:55659500 original size:26 final size:26
Alignment explanation
Indices: 55659434--55659500 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
55659424 TTTAGCCTTT
* * *
55659434 ATACTGATTACTGGCAGCTTTGTTGCG
1 ATACTGA-TACTGGTAGCTTTGCTACG
* *
55659461 ATACCGTTACTGGTAGCTTTGCTACG
1 ATACTGATACTGGTAGCTTTGCTACG
*
55659487 ATACTGATATTGGT
1 ATACTGATACTGGT
55659501 GTGTCTGGCT
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
26 27 0.84
27 5 0.16
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.37
Consensus pattern (26 bp):
ATACTGATACTGGTAGCTTTGCTACG
Found at i:55661337 original size:13 final size:13
Alignment explanation
Indices: 55661319--55661343 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55661309 CCAAATCGTC
55661319 AAAAATTCATTCT
1 AAAAATTCATTCT
55661332 AAAAATTCATTC
1 AAAAATTCATTC
55661344 CAATGGAAAT
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:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (13 bp):
AAAAATTCATTCT
Found at i:55664596 original size:42 final size:42
Alignment explanation
Indices: 55664482--55664608 Score: 157
Period size: 43 Copynumber: 3.0 Consensus size: 42
55664472 AGTACCATAC
* *
55664482 CAATGCCATATCCCAGATATGGTCTTACATGGAATCTCAAAT
1 CAATGCCATATCCCAGATATGGTCTTACACGAAATCTCAAAT
* * * **
55664524 CAATGCCAATAGCCTAGCTATGGTCTTACACGAAATCTCATGT
1 CAATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCAAAT
*
55664567 CGATGCCATATCCCAGATATGGTCTTACACGTAAA-CTCAAAT
1 CAATGCCATATCCCAGATATGGTCTTACACG-AAATCTCAAAT
55664609 AACCCTAATA
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
42 33 0.47
43 37 0.53
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (42 bp):
CAATGCCATATCCCAGATATGGTCTTACACGAAATCTCAAAT
Found at i:55667002 original size:45 final size:45
Alignment explanation
Indices: 55666940--55667067 Score: 150
Period size: 45 Copynumber: 2.8 Consensus size: 45
55666930 GGATCAAATA
* * * *
55666940 CGATGCCAATGTGCCAGACATGGTCTTACACG-TAACTACATAGAT
1 CGATGCCAATGTCCCAGACGTGGTCTTACACGAAAAC-AAATAGAT
* * *
55666985 CGATGTCAATGTCCCAGACGTGGTCTTATACGAAAACAAATATAT
1 CGATGCCAATGTCCCAGACGTGGTCTTACACGAAAACAAATAGAT
* * *
55667030 CGATGCCAACGTCCCAGACGGGGTCTTACTCGAAAACA
1 CGATGCCAATGTCCCAGACGTGGTCTTACACGAAAACA
55667068 CATATTAGAA
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
45 67 0.96
46 3 0.04
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (45 bp):
CGATGCCAATGTCCCAGACGTGGTCTTACACGAAAACAAATAGAT
Found at i:55670399 original size:30 final size:30
Alignment explanation
Indices: 55670359--55670418 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
55670349 GTAAACTGAA
* *
55670359 AAACAGTAACCTCGAATCATCAAAGGACAT
1 AAACAATAACCTCAAATCATCAAAGGACAT
55670389 AAACAATAACCTCAAATCATCAAAGGACAT
1 AAACAATAACCTCAAATCATCAAAGGACAT
55670419 TTCTTACATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.50, C:0.23, G:0.10, T:0.17
Consensus pattern (30 bp):
AAACAATAACCTCAAATCATCAAAGGACAT
Found at i:55682081 original size:40 final size:40
Alignment explanation
Indices: 55681983--55682245 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
55681973 TCCTCGTTCA
* * * * *
55681983 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
55682022 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
55682062 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
55682102 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
55682142 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
55682182 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
55682222 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
55682246 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:55690141 original size:121 final size:121
Alignment explanation
Indices: 55689932--55690197 Score: 315
Period size: 121 Copynumber: 2.2 Consensus size: 121
55689922 TCCTCGTTCA
* * *
55689932 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACGCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACATAACGCCGGAT
* ** * *
55689997 TTAACATACTCGCACGACTGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
66 TTAACATACTCGCACAAAGGCCTTC-GGATCTTAACCCGGATATAATAACTTAGCAC
* * *
55690052 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAAC-CCGG
1 -AATGCCTTCGGGACTTAGCCCGGATTTAATAACTCACAC-AATGCCTTCGGGACATAACGCCGG
** * * *
55690116 ATTTAGTAT-CTCGGCACAAAGGCCTTCGGATCTTAATCCGGATATATTCACTTAGCAC
64 ATTTAACATACTC-GCACAAAGGCCTTCGGATCTTAACCCGGATATAATAACTTAGCAC
*
55690174 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
55690198 CAGCATTCAA
Statistics
Matches: 123, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
120 6 0.05
121 94 0.76
122 23 0.19
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (121 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACATAACGCCGGAT
TTAACATACTCGCACAAAGGCCTTCGGATCTTAACCCGGATATAATAACTTAGCAC
Found at i:55690157 original size:41 final size:40
Alignment explanation
Indices: 55689932--55690197 Score: 295
Period size: 40 Copynumber: 6.6 Consensus size: 40
55689922 TCCTCGTTCA
* * * * *
55689932 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
55689971 AATGCCTTCGGGACATAACGCCGGATTTAACATACTCGCACG
1 AATGCCTTCGGGACTTAAC-CCGGATTTAATA-ACTCGCACG
*
55690013 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
55690053 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
55690093 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTC-GCACG
* * * * * *
55690134 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
55690174 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
55690198 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
39 18 0.09
40 110 0.56
41 52 0.26
42 18 0.09
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:55690158 original size:81 final size:79
Alignment explanation
Indices: 55689932--55690197 Score: 302
Period size: 81 Copynumber: 3.3 Consensus size: 79
55689922 TCCTCGTTCA
* * * * *
55689932 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACGCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAATGCCTTCGGGACTTAAC-CCGGAT
*
55689997 TTAACATACTCGCACG
65 TTAATA-ACTCGCACG
* *
55690013 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC-AATGCCTTCGGGACTTAACCCGGAT
55690078 TTAATAACTCGCACG
65 TTAATAACTCGCACG
* * *
55690093 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGGCACAAAGGCCTTC-GGATCTTAATCCGG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTC-GCAC-AATGCCTTCGGGA-CTTAACCCGG
* * * *
55690157 ATATATTCACTTAGCAC-
63 ATTTAATAAC-TCGCACG
* *
55690174 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
55690198 CAGCATTCAA
Statistics
Matches: 161, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
80 44 0.27
81 94 0.58
82 23 0.14
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAATGCCTTCGGGACTTAACCCGGATT
TAATAACTCGCACG
Found at i:55702029 original size:39 final size:40
Alignment explanation
Indices: 55701929--55702113 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
55701919 TTGAATGATG
* * *
55701929 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
55701968 ATCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
55702009 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
55702048 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
55702087 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
55702114 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 36 0.29
40 78 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:55702069 original size:79 final size:81
Alignment explanation
Indices: 55701929--55702113 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
55701919 TTGAATGATG
* *
55701929 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCTGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
55701993 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
55702008 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
55702070 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
55702088 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
55702114 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:55702135 original size:79 final size:79
Alignment explanation
Indices: 55701982--55702146 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
55701972 GGACTAAGAT
* **
55701982 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
55702047 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
55702061 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
55702124 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
55702140 CCGAAGG
1 CCGAAGG
55702147 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:55706876 original size:46 final size:47
Alignment explanation
Indices: 55706772--55706885 Score: 149
Period size: 48 Copynumber: 2.4 Consensus size: 47
55706762 TGTCTTCGAC
** * *
55706772 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCA-ATATATATAAT
* * *
55706820 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATAAT
55706866 ATGGACTTACATGGCTCATT
1 ATGGACTTACATGGCTCATT
55706886 TATGTCCTGT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 28 0.48
48 30 0.52
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATAAT
Found at i:55708414 original size:14 final size:13
Alignment explanation
Indices: 55708395--55708432 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
55708385 ATTTAATGTT
55708395 TAATTATATTAGGA
1 TAATTAT-TTAGGA
*
55708409 TAATTATTAAGGA
1 TAATTATTTAGGA
55708422 TAATTATTTAG
1 TAATTATTTAG
55708433 ATTTAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (13 bp):
TAATTATTTAGGA
Found at i:55710912 original size:33 final size:33
Alignment explanation
Indices: 55710847--55710923 Score: 93
Period size: 33 Copynumber: 2.4 Consensus size: 33
55710837 AGCTAATATG
* *
55710847 CTTGATTTCCAACAGCAGATACAATGGCAAACT
1 CTTGATTTCCAACAGCAAATACAATGGAAAACT
* ***
55710880 GTTGATTTCCAACAGCAAATTTTATGGAAAACT
1 CTTGATTTCCAACAGCAAATACAATGGAAAACT
55710913 CTTG-TTTCCAA
1 CTTGATTTCCAA
55710924 AAGGAAACAA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
32 7 0.19
33 30 0.81
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (33 bp):
CTTGATTTCCAACAGCAAATACAATGGAAAACT
Found at i:55712334 original size:5 final size:5
Alignment explanation
Indices: 55712324--55712376 Score: 52
Period size: 5 Copynumber: 10.0 Consensus size: 5
55712314 TTATTATTTA
* * *
55712324 TTATT TTATT TCATT TTATT AGTATTTT TTATT TTATT TTACT TTATT
1 TTATT TTATT TTATT TTATT --T-TATT TTATT TTATT TTATT TTATT
55712372 TTATT
1 TTATT
55712377 ATTTATTATT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
5 34 0.87
6 1 0.03
7 1 0.03
8 3 0.08
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.74
Consensus pattern (5 bp):
TTATT
Found at i:55712343 original size:18 final size:17
Alignment explanation
Indices: 55712289--55712388 Score: 63
Period size: 15 Copynumber: 5.9 Consensus size: 17
55712279 AACCCAACCT
* *
55712289 TTATTTTTTTTACTTTTC
1 TTATTTTATTTA-TTTTA
55712307 TTAATTTT-TATTA-TTTA
1 TT-ATTTTAT-TTATTTTA
55712324 TTATTTTATTTCATTTTA
1 TTATTTTATTT-ATTTTA
55712342 TTAGTATTT-TTTA--TT-
1 TTA-T-TTTATTTATTTTA
55712357 TTATTTTACTTTATTTTA
1 TTATTTTA-TTTATTTTA
55712375 TTA-TTTA-TTATTTT
1 TTATTTTATTTATTTT
55712389 GTTTTTGGAT
Statistics
Matches: 69, Mismatches: 1, Indels: 27
0.71 0.01 0.28
Matches are distributed among these distances:
13 3 0.04
14 1 0.01
15 14 0.20
16 9 0.13
17 13 0.19
18 14 0.20
19 12 0.17
20 3 0.04
ACGTcount: A:0.21, C:0.04, G:0.01, T:0.74
Consensus pattern (17 bp):
TTATTTTATTTATTTTA
Found at i:55712349 original size:28 final size:30
Alignment explanation
Indices: 55712318--55712388 Score: 92
Period size: 28 Copynumber: 2.4 Consensus size: 30
55712308 TAATTTTTAT
55712318 TATTTATTATTTTATTTCA-TTT-TATTAG
1 TATTTATTATTTTATTTCACTTTATATTAG
* * * *
55712346 TATTTTTTATTTTATTTTACTTTATTTTAT
1 TATTTATTATTTTATTTCACTTTATATTAG
55712376 TATTTATTATTTT
1 TATTTATTATTTT
55712389 GTTTTTGGAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
28 17 0.47
29 3 0.08
30 16 0.44
ACGTcount: A:0.23, C:0.03, G:0.01, T:0.73
Consensus pattern (30 bp):
TATTTATTATTTTATTTCACTTTATATTAG
Found at i:55713110 original size:26 final size:26
Alignment explanation
Indices: 55713081--55713188 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
55713071 TGGTACAAAT
*
55713081 TGATAATGGGTTAGGTAAGTGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
55713107 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
55713133 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
55713159 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
55713185 TGAT
1 TGAT
55713189 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.31, C:0.07, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:55714698 original size:26 final size:26
Alignment explanation
Indices: 55714632--55714707 Score: 89
Period size: 26 Copynumber: 2.8 Consensus size: 26
55714622 AAAAGCAACT
* * *
55714632 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTATTATACCCCTA-G-GTGCA
*
55714660 AAATTACTGTTATACCCCTAGGTGCA
1 AAATTACTATTATACCCCTAGGTGCA
*
55714686 AAATTACCATTATACCCCTAGG
1 AAATTACTATTATACCCCTAGG
55714708 GTTACTTTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 23 0.55
27 1 0.02
28 18 0.43
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.30
Consensus pattern (26 bp):
AAATTACTATTATACCCCTAGGTGCA
Found at i:55714893 original size:54 final size:53
Alignment explanation
Indices: 55714811--55714951 Score: 228
Period size: 54 Copynumber: 2.6 Consensus size: 53
55714801 AGGAAGCGTC
55714811 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
*
55714865 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
* *
55714919 CTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
55714952 ACTTCGTCAC
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 7 0.09
54 75 0.91
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
Found at i:55714962 original size:27 final size:27
Alignment explanation
Indices: 55714811--55714969 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
55714801 AGGAAGCGTC
*
55714811 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
*
55714838 CTGGTGGCTCTACCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
* *
55714865 CTGGTGGCTATGCCACGATTATCTG-AT
1 CTGGTGGCTCTGCCAC-AATATCTGTAT
55714892 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
55714919 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
55714946 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
55714970 GCAGCCTCGC
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 103 0.90
28 2 0.02
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:55716727 original size:96 final size:97
Alignment explanation
Indices: 55716557--55716740 Score: 273
Period size: 96 Copynumber: 1.9 Consensus size: 97
55716547 TTTTTACGAA
* * ** *
55716557 TATGTTGGGCTGAGTAACTGGGGTGAGATGCTTGGCTGTCATCTCTTTTCGTGTCAAAAGCTTCG
1 TATGTTGGGCTGAGTAACCGGGGTGAGATGCTTGGCTGTCATCTCTCTTCGCATCAAAAGCTTCA
*
55716622 ATATGTTCTTAAG-AAAAATAAAAATTAGGAG
66 ATATATTCTTAAGCAAAAATAAAAATTAGGAG
*
55716653 TATGTTGGGCTGAGTAACCGGGGT-AGGATGCTTGGCTGTCATCTCTCTTCGCATCAAAAGGTTC
1 TATGTTGGGCTGAGTAACCGGGGTGA-GATGCTTGGCTGTCATCTCTCTTCGCATCAAAAGCTTC
*
55716717 AATATATTCTTAAGCAACAATAAA
65 AATATATTCTTAAGCAAAAATAAA
55716741 TAAATTAAAA
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
95 1 0.01
96 69 0.88
97 8 0.10
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.32
Consensus pattern (97 bp):
TATGTTGGGCTGAGTAACCGGGGTGAGATGCTTGGCTGTCATCTCTCTTCGCATCAAAAGCTTCA
ATATATTCTTAAGCAAAAATAAAAATTAGGAG
Found at i:55720549 original size:42 final size:41
Alignment explanation
Indices: 55720443--55720561 Score: 121
Period size: 43 Copynumber: 2.8 Consensus size: 41
55720433 TGTACCAATG
* * * *
55720443 CCATATCCCAAATATGGTCTTATATGAAATCTCGTATCGATA
1 CCATATCCCAGATATGGTCTTACACG-AATCTCATATCGATA
* * * *
55720485 CCAATAGCCCAGCTATGGTCTTACACGAAGTCTCATATTGATT
1 CC-ATATCCCAGATATGGTCTTACACGAA-TCTCATATCGATA
*
55720528 CCATATCCTAGATATGGTCTTACACGTAATCTCA
1 CCATATCCCAGATATGGTCTTACACG-AATCTCA
55720562 GTAACCCTAA
Statistics
Matches: 63, Mismatches: 11, Indels: 6
0.79 0.14 0.08
Matches are distributed among these distances:
42 30 0.48
43 33 0.52
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.32
Consensus pattern (41 bp):
CCATATCCCAGATATGGTCTTACACGAATCTCATATCGATA
Found at i:55725451 original size:25 final size:24
Alignment explanation
Indices: 55725423--55725474 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
55725413 TTTAATTAGT
* * *
55725423 AAATGTATTTTTTTAAAATATATAA
1 AAATATATTATTTAAAAAT-TATAA
*
55725448 AAATATATTATTTAAAAATTTTAA
1 AAATATATTATTTAAAAATTATAA
55725472 AAA
1 AAA
55725475 ATAAACATGC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (24 bp):
AAATATATTATTTAAAAATTATAA
Found at i:55725622 original size:13 final size:13
Alignment explanation
Indices: 55725604--55725629 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55725594 TAGCATCAGT
55725604 AATCAAATTAAAC
1 AATCAAATTAAAC
55725617 AATCAAATTAAAC
1 AATCAAATTAAAC
55725630 CAGTTTTGCT
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:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (13 bp):
AATCAAATTAAAC
Found at i:55727709 original size:15 final size:16
Alignment explanation
Indices: 55727686--55727724 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
55727676 GTGTCTTTTT
*
55727686 AAAAAAATAT-ATAAA
1 AAAAAAATATCAGAAA
*
55727701 AAGAAAATATCAGAAA
1 AAAAAAATATCAGAAA
55727717 AAAAAAAT
1 AAAAAAAT
55727725 CAAATGAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.15
Consensus pattern (16 bp):
AAAAAAATATCAGAAA
Found at i:55727742 original size:36 final size:37
Alignment explanation
Indices: 55727701--55727780 Score: 94
Period size: 35 Copynumber: 2.2 Consensus size: 37
55727691 AATATATAAA
55727701 AAGAAAATATCAGAAAAAAAAAA-TCAAATGAAAATG
1 AAGAAAATATCAGAAAAAAAAAACTCAAATGAAAATG
* * * * *
55727737 AAG-AAATTTCTGAAAAAAAAAACTGAATTGAAGATG
1 AAGAAAATATCAGAAAAAAAAAACTCAAATGAAAATG
55727773 -AGAAAATA
1 AAGAAAATA
55727781 AAAGAGAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
35 19 0.53
36 17 0.47
ACGTcount: A:0.64, C:0.05, G:0.14, T:0.17
Consensus pattern (37 bp):
AAGAAAATATCAGAAAAAAAAAACTCAAATGAAAATG
Found at i:55729719 original size:90 final size:90
Alignment explanation
Indices: 55729611--55729777 Score: 298
Period size: 90 Copynumber: 1.9 Consensus size: 90
55729601 TTTAAGCTAT
* *
55729611 ATAACAGGTATAATGGGAGTTAATATATGGAATTCAAGCTCAAATGTACAATAATGCATGAAATT
1 ATAACAGGTATAATGGGAGTTAATATATGGAATTCAAGCTCAAATGCACAATAAAGCATGAAATT
55729676 ATGTTAATAATTCTAACCAATATGC
66 ATGTTAATAATTCTAACCAATATGC
* *
55729701 ATAACAGGTATAATGGGAGTTAATATATGGAATTCAAGCTCAAATGCACAGTAAAGCATGCAATT
1 ATAACAGGTATAATGGGAGTTAATATATGGAATTCAAGCTCAAATGCACAATAAAGCATGAAATT
55729766 ATGTTAATAATT
66 ATGTTAATAATT
55729778 TTGACGAATA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
90 73 1.00
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.31
Consensus pattern (90 bp):
ATAACAGGTATAATGGGAGTTAATATATGGAATTCAAGCTCAAATGCACAATAAAGCATGAAATT
ATGTTAATAATTCTAACCAATATGC
Found at i:55739655 original size:49 final size:50
Alignment explanation
Indices: 55739602--55739747 Score: 179
Period size: 49 Copynumber: 2.9 Consensus size: 50
55739592 GTAGCCAAAC
*
55739602 TATCTGGTACGCATAGTAACCTGCACTTAGTACTACACATGTGACCAA-T
1 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAAGT
* * * * * **
55739651 TATCTGATACACGTAGTAGCCTGCACTTAGTACAACACACGTGATTAAAGT
1 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGA-CCAAGT
*
55739702 TATC-GAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TATCTG-GTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACC
55739748 TAGCTACATA
Statistics
Matches: 78, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
49 38 0.49
50 3 0.04
51 37 0.47
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.27
Consensus pattern (50 bp):
TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAAGT
Found at i:55743009 original size:48 final size:49
Alignment explanation
Indices: 55742919--55743041 Score: 135
Period size: 48 Copynumber: 2.6 Consensus size: 49
55742909 TATGAGAGCT
* * *
55742919 AGTGTAAGACCATGTCTAGGACATGGCATCGACATTGATATGTG-TGCC
1 AGTGTAAGACCATATCTAGGATATGGCATCGACATCGATATGTGATGCC
* * **
55742967 AGTGTAAGACCATATCTAGGATATGGCATCGTCCA-CGTTATGTGATTTC
1 AGTGTAAGACCATATCTAGGATATGGCATCG-ACATCGATATGTGATGCC
* *
55743016 A-TGTAAGACCATATTTGGGATATGGC
1 AGTGTAAGACCATATCTAGGATATGGC
55743042 GTTGATATGA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
48 59 0.92
49 5 0.08
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (49 bp):
AGTGTAAGACCATATCTAGGATATGGCATCGACATCGATATGTGATGCC
Found at i:55743160 original size:131 final size:136
Alignment explanation
Indices: 55742921--55743212 Score: 328
Period size: 131 Copynumber: 2.2 Consensus size: 136
55742911 TGAGAGCTAG
55742921 TGTAAGACCATGTCTAGGACATGGCATCGACATTGATATGTGTGCCAGTGTAAGACCATATCTAG
1 TGTAAGACCATGTCTAGGACAT-GCATCGACATTGA-ATGTGTGCCAGTGTAAGACCATATCTAG
* * ** * * * * *
55742986 GATATGGCATCGTCCACGTTATGTGATTTCATGTAAGACCATATTTGGGATATGGCGTTGATATG
64 GACATGGCATCGGCCACGACATGAGATTTCATATAAGACCATATCTGGGATATGGCATCGATATG
*
55743051 -AGATTTCA
129 TAGA-TCCA
* * * *
55743059 TGTAAGACCATGTCTAGGACATGCATCGATA-TG-A-G-GT-CCTGTGTAAGACCATGTCTGGGA
1 TGTAAGACCATGTCTAGGACATGCATCGACATTGAATGTGTGCCAGTGTAAGACCATATCTAGGA
* * * *
55743119 CATGGCATCGG-CACCGACATGAGATTTCGTATAATATCATATCTGGGATATGGCATCGGTATGT
66 CATGGCATCGGCCA-CGACATGAGATTTCATATAAGACCATATCTGGGATATGGCATCGATATGT
55743183 AGATCCA
130 AGATCCA
*
55743190 TGTAAGACCATGTCGAGGACATG
1 TGTAAGACCATGTCTAGGACATG
55743213 GTTTTGGTAT
Statistics
Matches: 133, Mismatches: 19, Indels: 11
0.82 0.12 0.07
Matches are distributed among these distances:
130 2 0.02
131 92 0.69
132 5 0.04
133 1 0.01
134 1 0.01
136 2 0.02
137 8 0.06
138 22 0.17
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (136 bp):
TGTAAGACCATGTCTAGGACATGCATCGACATTGAATGTGTGCCAGTGTAAGACCATATCTAGGA
CATGGCATCGGCCACGACATGAGATTTCATATAAGACCATATCTGGGATATGGCATCGATATGTA
GATCCA
Found at i:55746143 original size:42 final size:42
Alignment explanation
Indices: 55746079--55746160 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
55746069 ACTAATTATG
* * * **
55746079 TGCACTTAGTGTGCGAGGTCGAGATAGCTTTGGCTATATATT
1 TGCACTTAATGTGCGAGATCGAGATAACTTCAGCTATATATT
*
55746121 TGCACTTAATGTGCTAGATCGAGATAACTTCAGCTATATA
1 TGCACTTAATGTGCGAGATCGAGATAACTTCAGCTATATA
55746161 AATATATATT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (42 bp):
TGCACTTAATGTGCGAGATCGAGATAACTTCAGCTATATATT
Found at i:55746168 original size:50 final size:50
Alignment explanation
Indices: 55746113--55746207 Score: 145
Period size: 50 Copynumber: 1.9 Consensus size: 50
55746103 TAGCTTTGGC
* *
55746113 TATATATTTGCACTTAATGTGCTAGATCGAGATAACTTCAGCTATATAAA
1 TATATATTTGCACTTAATGTGCGAGATCGAGACAACTTCAGCTATATAAA
* * *
55746163 TATATATTTGCACTTAGTGTGCGAGATTGATACAACTTCAGCTAT
1 TATATATTTGCACTTAATGTGCGAGATCGAGACAACTTCAGCTAT
55746208 TTATTTGGCA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.37
Consensus pattern (50 bp):
TATATATTTGCACTTAATGTGCGAGATCGAGACAACTTCAGCTATATAAA
Found at i:55748741 original size:24 final size:24
Alignment explanation
Indices: 55748714--55748764 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
55748704 AGCTTATTCA
55748714 CAGATAACTCTGAAGAGTTAATAT
1 CAGATAACTCTGAAGAGTTAATAT
55748738 CAGATAACTCTGAAGAGTTAATAT
1 CAGATAACTCTGAAGAGTTAATAT
55748762 CAG
1 CAG
55748765 GGAGCACTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (24 bp):
CAGATAACTCTGAAGAGTTAATAT
Found at i:55759340 original size:35 final size:35
Alignment explanation
Indices: 55759301--55759402 Score: 103
Period size: 35 Copynumber: 3.1 Consensus size: 35
55759291 AAGAATTCAG
55759301 AGTTGATTCAGATGATTTTGAATGAAGCTCATAAC
1 AGTTGATTCAGATGATTTTGAATGAAGCTCATAAC
* * * * *
55759336 AGTTGGTT-AG--CATTCTGAA-GAA--T--TCAG
1 AGTTGATTCAGATGATTTTGAATGAAGCTCATAAC
55759363 AGTTGATTCAGATGATTTTGAATGAAGCTCATAAC
1 AGTTGATTCAGATGATTTTGAATGAAGCTCATAAC
55759398 AGTTG
1 AGTTG
55759403 GTTATCTGTT
Statistics
Matches: 49, Mismatches: 10, Indels: 16
0.65 0.13 0.21
Matches are distributed among these distances:
27 9 0.18
28 2 0.04
29 1 0.02
30 7 0.14
31 6 0.12
32 7 0.14
33 1 0.02
34 2 0.04
35 14 0.29
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (35 bp):
AGTTGATTCAGATGATTTTGAATGAAGCTCATAAC
Found at i:55759353 original size:62 final size:62
Alignment explanation
Indices: 55759283--55759406 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
55759273 GACTGAATAT
55759283 GCATTCTGAAGAATTCAGAGTTGATTCAGATGATTTTGAATGAAGCTCATAACAGTTGGTTA
1 GCATTCTGAAGAATTCAGAGTTGATTCAGATGATTTTGAATGAAGCTCATAACAGTTGGTTA
55759345 GCATTCTGAAGAATTCAGAGTTGATTCAGATGATTTTGAATGAAGCTCATAACAGTTGGTTA
1 GCATTCTGAAGAATTCAGAGTTGATTCAGATGATTTTGAATGAAGCTCATAACAGTTGGTTA
55759407 TCTGTTCATC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (62 bp):
GCATTCTGAAGAATTCAGAGTTGATTCAGATGATTTTGAATGAAGCTCATAACAGTTGGTTA
Found at i:55766121 original size:49 final size:49
Alignment explanation
Indices: 55765956--55766180 Score: 279
Period size: 49 Copynumber: 4.5 Consensus size: 49
55765946 TGAGGTCGCA
* * * * * *
55765956 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACG
* * * *
55766007 TGTGTAGTACTAAGTACAGGCTACTACGTGTATCAGATGATTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACG
* *
55766057 TGTCTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCAGG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* * *
55766106 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
*
55766155 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
55766181 TGCGTACCAG
Statistics
Matches: 152, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
49 76 0.50
50 44 0.29
51 32 0.21
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
Found at i:55766137 original size:99 final size:100
Alignment explanation
Indices: 55765949--55766188 Score: 286
Period size: 99 Copynumber: 2.4 Consensus size: 100
55765939 TCTATTGTGA
* * * *
55765949 GGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
1 GGTCACATGTCTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAG
* *
55766014 TACTAAGTACAGGCTACTACGTGTATCAGATGATT
66 TACTAAGTACAGGCTACTACGTGTACCAGATAATT
* * * * * *
55766049 AGGTCACGTGTCTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCAGGTGTGTA
1 -GGTCACATGTCTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTA
* * *
55766112 GTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
65 GTACTAAGTACAGGCTACTACGTGTACCAGATAATT
* * * *
55766148 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACC
1 GGTCACATGTCTAGTACTAAGTGCAGGCTACTACGCGTACC
55766189 AGATAGCTTT
Statistics
Matches: 118, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
98 35 0.30
99 43 0.36
100 1 0.01
101 39 0.33
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (100 bp):
GGTCACATGTCTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAG
TACTAAGTACAGGCTACTACGTGTACCAGATAATT
Found at i:55769206 original size:15 final size:15
Alignment explanation
Indices: 55769186--55769222 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
55769176 TATCGTATCT
55769186 TGGGTTTCTTTACTC
1 TGGGTTTCTTTACTC
*
55769201 TGGGTTTCTTTATTC
1 TGGGTTTCTTTACTC
55769216 TGGGTTT
1 TGGGTTT
55769223 TTCTATCTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.05, C:0.14, G:0.24, T:0.57
Consensus pattern (15 bp):
TGGGTTTCTTTACTC
Found at i:55771550 original size:49 final size:49
Alignment explanation
Indices: 55771375--55771599 Score: 270
Period size: 49 Copynumber: 4.5 Consensus size: 49
55771365 TGAGGTCGCA
* * * * * *
55771375 TGTGTTGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACG
* * * **
55771426 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACG
* * *
55771476 TGTGTAGTACTAAGTGTAGGGTACTACGTGTATCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* *
55771525 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
*
55771574 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
55771600 TGCGTACCAG
Statistics
Matches: 153, Mismatches: 20, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
49 77 0.50
50 45 0.29
51 31 0.20
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
Found at i:55777713 original size:27 final size:27
Alignment explanation
Indices: 55777675--55777729 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
55777665 GTCTATAATG
*
55777675 TTTATTGATATATCTTGAATTAAAACA
1 TTTATTGATATATCTTAAATTAAAACA
55777702 TTTATTGATATATCTTAAATTAAAACA
1 TTTATTGATATATCTTAAATTAAAACA
55777729 T
1 T
55777730 AGGCATTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.45
Consensus pattern (27 bp):
TTTATTGATATATCTTAAATTAAAACA
Found at i:55779056 original size:20 final size:22
Alignment explanation
Indices: 55779016--55779057 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
55779006 TAGGAGAGTG
55779016 AAAGGAATGAGAAACGGGCCAA
1 AAAGGAATGAGAAACGGGCCAA
*
55779038 AAAGGAA-GA-AAATGGGCCAA
1 AAAGGAATGAGAAACGGGCCAA
55779058 CGTACGAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 2 0.11
22 7 0.37
ACGTcount: A:0.52, C:0.12, G:0.31, T:0.05
Consensus pattern (22 bp):
AAAGGAATGAGAAACGGGCCAA
Found at i:55784507 original size:47 final size:46
Alignment explanation
Indices: 55784443--55784565 Score: 192
Period size: 47 Copynumber: 2.6 Consensus size: 46
55784433 ATCCATAAGT
*
55784443 GAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTC-GACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
* *
55784490 GAACTCAGACTCAACTCAACGAGTTTGGATGCCTAGTTACATTTCAT
1 GAACTC-GACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
55784537 GAACTCGAACTCAACTCAACGAGTTCGGA
1 GAACTCG-ACTCAACTCAACGAGTTCGGA
55784566 CATTCGCATC
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
46 1 0.01
47 69 0.99
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (46 bp):
GAACTCGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:55784630 original size:46 final size:45
Alignment explanation
Indices: 55784536--55784622 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 45
55784526 TTACATTTCA
* *
55784536 TGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAG
1 TGAACTCGAACTCAACTCAACGAGTTCGGA-ATGCGCAACCATAAG
*
55784582 TGAACTCGAACTCAACTCAACGAGTTCGG-ATGCTCAACCAT
1 TGAACTCGAACTCAACTCAACGAGTTCGGAATGCGCAACCAT
55784623 CCTAGTGACA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 9 0.24
46 29 0.76
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (45 bp):
TGAACTCGAACTCAACTCAACGAGTTCGGAATGCGCAACCATAAG
Found at i:55791991 original size:46 final size:46
Alignment explanation
Indices: 55791924--55792187 Score: 256
Period size: 46 Copynumber: 5.7 Consensus size: 46
55791914 AACCCTCCCC
*
55791924 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* *
55791970 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * * *
55792018 TCA-CGAACTCGGACTCAACTCAAAGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* *
55792063 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
55792111 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
55792156 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
55792188 AATGCTCAAC
Statistics
Matches: 175, Mismatches: 25, Indels: 36
0.74 0.11 0.15
Matches are distributed among these distances:
42 4 0.02
43 6 0.03
44 2 0.01
45 4 0.02
46 86 0.49
47 55 0.31
48 5 0.03
49 2 0.01
50 6 0.03
51 5 0.03
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:55792036 original size:93 final size:93
Alignment explanation
Indices: 55791929--55792192 Score: 483
Period size: 93 Copynumber: 2.8 Consensus size: 93
55791919 TCCCCTAAGT
* * *
55791929 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55791994 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
55792022 GAACTCGGACTCAACTCAAAGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55792087 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
55792115 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
55792180 CGAGTTCGAATGC
66 CGAGTTCGGATGC
55792193 TCAACCATCC
Statistics
Matches: 165, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 165 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:55792046 original size:47 final size:47
Alignment explanation
Indices: 55791975--55792143 Score: 222
Period size: 47 Copynumber: 3.6 Consensus size: 47
55791965 ATCCATAAGT
55791975 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
* * * * *
55792022 GAACTCGGACTCAACTCAAAGAGTTCGGA---C-A-TTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--TTCA-C
55792068 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
55792115 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
55792144 CATTCGCATC
Statistics
Matches: 103, Mismatches: 10, Indels: 18
0.79 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 28 0.27
47 57 0.55
48 2 0.02
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:55794616 original size:15 final size:14
Alignment explanation
Indices: 55794592--55794621 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
55794582 CTATAAAATC
55794592 ATACATGCAATGCA
1 ATACATGCAATGCA
55794606 ATACAATGCAATGCA
1 ATAC-ATGCAATGCA
55794621 A
1 A
55794622 CCCCCCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.47, C:0.20, G:0.13, T:0.20
Consensus pattern (14 bp):
ATACATGCAATGCA
Found at i:55795317 original size:28 final size:28
Alignment explanation
Indices: 55795286--55795368 Score: 105
Period size: 28 Copynumber: 2.9 Consensus size: 28
55795276 ATGCATACGA
*
55795286 CCCACTAGGCCCAAACTCATTCATATGG
1 CCCATTAGGCCCAAACTCATTCATATGG
* *
55795314 CCCATTAGGCCCAAA-TCACATCGTATGG
1 CCCATTAGGCCCAAACTCA-TTCATATGG
*
55795342 CCCATTAGGCCCAAATCACATTCATAT
1 CCCATTAGGCCCAAA-CTCATTCATAT
55795369 TCATGCTTTC
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 3 0.07
28 36 0.78
29 5 0.11
30 2 0.04
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (28 bp):
CCCATTAGGCCCAAACTCATTCATATGG
Found at i:55804696 original size:28 final size:28
Alignment explanation
Indices: 55804664--55804728 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
55804654 ATTTACTAGA
*
55804664 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
55804692 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
55804720 ATACCCCTA
1 ATACCCCTA
55804729 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:55804875 original size:28 final size:29
Alignment explanation
Indices: 55804834--55804896 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
55804824 AGGAAGCGTC
*
55804834 CTGGTGGCTATGCCACAAATTATCTCT-T
1 CTGGTGGCTATGCCACAAAATATCTCTAT
*
55804862 CTGGTGGC-ACTGCCACAAAATATCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTCTAT
55804891 CTGGTG
1 CTGGTG
55804897 ACTCTGTCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
27 1 0.03
28 23 0.74
29 7 0.23
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (29 bp):
CTGGTGGCTATGCCACAAAATATCTCTAT
Found at i:55804907 original size:29 final size:28
Alignment explanation
Indices: 55804844--55804907 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
55804834 CTGGTGGCTA
* *
55804844 TGCCACAAATTATCTCTTCTGGTGGCAC
1 TGCCACAAAATATCTCTTCTGGTGACAC
* *
55804872 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTCT-TCTGGTGACAC
*
55804901 TGTCACA
1 TGCCACA
55804908 TTTTCTGTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 15 0.50
29 15 0.50
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (28 bp):
TGCCACAAAATATCTCTTCTGGTGACAC
Done.