Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 391 of 427
Found at i:113379955 original size:53 final size:53
Alignment explanation
Indices: 113379799--113379964 Score: 221
Period size: 53 Copynumber: 3.1 Consensus size: 53
113379789 TGACGAAAAT
* **
113379799 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
113379851 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* * *
113379904 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A
113379958 TATGTGA
1 -ATGTGA
113379965 ACCGTGTAAG
Statistics
Matches: 103, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
51 4 0.04
52 11 0.11
53 81 0.79
54 1 0.01
55 6 0.06
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:113386467 original size:53 final size:53
Alignment explanation
Indices: 113386311--113386476 Score: 221
Period size: 53 Copynumber: 3.1 Consensus size: 53
113386301 TGACGAAAAT
* **
113386311 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
113386363 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* * *
113386416 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A
113386470 TATGTGA
1 -ATGTGA
113386477 ACCGTGTAAG
Statistics
Matches: 103, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
51 4 0.04
52 11 0.11
53 81 0.79
54 1 0.01
55 6 0.06
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:113387860 original size:119 final size:119
Alignment explanation
Indices: 113387647--113387908 Score: 398
Period size: 119 Copynumber: 2.2 Consensus size: 119
113387637 GGGCGTTACA
* *
113387647 ATTTGACTCTCAGACGTTTTCAAATATAACAGATCTAACCTTCAGATGTTTATACTGAAGCAGAT
1 ATTTGACTCTCAGACGTTCTCAAATATAACAGATCTAACCTTCAGATGTTTATACTAAAGCAGAT
* * *
113387712 CCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCGAGAACATAGCAG
66 CCAAGATGATTTGGCATCCTTGTGCTTACAAGAAACAAATCGAGAACATAGCAG
* *
113387766 ATTTGACTCCCAGACGTTCTCAAATATAGCAGATCTAACCTTCAGATGTTTATACTAAAGCAGAT
1 ATTTGACTCTCAGACGTTCTCAAATATAACAGATCTAACCTTCAGATGTTTATACTAAAGCAGAT
* * * *
113387831 CCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAG
66 CCAAGATGATTTGGCATCCTTGTGCTTACAAGAAACAAATCGAGAACATAGCAG
* * *
113387885 ATATGACTCTCAAATGTTCTCAAA
1 ATTTGACTCTCAGACGTTCTCAAA
113387909 CAGACTCAAG
Statistics
Matches: 128, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
119 128 1.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (119 bp):
ATTTGACTCTCAGACGTTCTCAAATATAACAGATCTAACCTTCAGATGTTTATACTAAAGCAGAT
CCAAGATGATTTGGCATCCTTGTGCTTACAAGAAACAAATCGAGAACATAGCAG
Found at i:113387937 original size:83 final size:83
Alignment explanation
Indices: 113387832--113388683 Score: 1472
Period size: 83 Copynumber: 10.2 Consensus size: 83
113387822 AAAGCAGATC
113387832 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
113387897 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
113387915 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
113387980 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
113387998 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
113388063 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
*
113388081 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGTAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
*
113388146 AATGTTCTCAAATAGACT
66 AATGTTCTCAAACAGACT
* * * *
113388164 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGTAGACATGACTTTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
113388229 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
* * *
113388247 CAAGATGATTTAGGCATCCTTGTGCTTACAAGGAACAAGTCGAGGA-ACTTGCAGATATGATTCT
1 CAAGATGGTTT-GGCATCCTTGTGCTTACAAGGAACAAATCGAGGACA-TTGCAGATATGACTCT
113388311 CAAATGTTCTCAAACAGACT
64 CAAATGTTCTCAAACAGACT
* * *
113388331 CAAGATGGTTTGGCATCCTTATGCTTACAAGGAACAAATCAAGGAAATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
113388396 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
* *
113388414 CGAGTTGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
*
113388479 AATGTTCTCAAATAGACT
66 AATGTTCTCAAACAGACT
* *
113388497 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGACATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
113388562 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
* * *
113388580 CAAGATGGTTTAGGCATCCTTGTGCTTACAAGGAACAAGTCGAGGACCTTGCAGATATGATTCTC
1 CAAGATGGTTT-GGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTC
113388645 AAATGTTCTCAAACAGACT
65 AAATGTTCTCAAACAGACT
* *
113388664 CAAGATGATTTGACATCCTT
1 CAAGATGGTTTGGCATCCTT
113388684 ACAAATCGAA
Statistics
Matches: 731, Mismatches: 34, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
83 576 0.79
84 155 0.21
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (83 bp):
CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
AATGTTCTCAAACAGACT
Found at i:113388437 original size:333 final size:333
Alignment explanation
Indices: 113387832--113388684 Score: 1539
Period size: 333 Copynumber: 2.6 Consensus size: 333
113387822 AAAGCAGATC
* *
113387832 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGACATGACTCTCA
*
113387897 AATGTTCTCAAACAGACTCAAGATGGTTT-GGCATCCTTGTGCTTACAAGGAACAAATCGAGG-A
66 AATGTTCTCAAACAGACTCAAGATGGTTTAGGCATCCTTGTGCTTACAAGGAACAAGTCGAGGAA
* *
113387960 CATTGCAGATATGACTCTCAAATGTTCTCAAACAGACTCAAGATGGTTTGGCATCCTTGTGCTTA
131 C-TTGCAGATATGATTCTCAAATGTTCTCAAACAGACTCAAGATGGTTTGGCATCCTTATGCTTA
* *
113388025 CAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCAAACAGACTCAAGATGGT
195 CAAGGAACAAATCAAGGAAATTGCAGATATGACTCTCAAATGTTCTCAAACAGACTCAAGATGGT
*
113388090 TTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGTAGATATGACTCTCAAATGTTCTC
260 TTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTC
113388155 AAATAGACT
325 AAATAGACT
* *
113388164 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGTAGACATGACTTTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGACATGACTCTCA
*
113388229 AATGTTCTCAAACAGACTCAAGATGATTTAGGCATCCTTGTGCTTACAAGGAACAAGTCGAGGAA
66 AATGTTCTCAAACAGACTCAAGATGGTTTAGGCATCCTTGTGCTTACAAGGAACAAGTCGAGGAA
113388294 CTTGCAGATATGATTCTCAAATGTTCTCAAACAGACTCAAGATGGTTTGGCATCCTTATGCTTAC
131 CTTGCAGATATGATTCTCAAATGTTCTCAAACAGACTCAAGATGGTTTGGCATCCTTATGCTTAC
* *
113388359 AAGGAACAAATCAAGGAAATTGCAGATATGACTCTCAAATGTTCTCAAACAGACTCGAGTTGGTT
196 AAGGAACAAATCAAGGAAATTGCAGATATGACTCTCAAATGTTCTCAAACAGACTCAAGATGGTT
113388424 TGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCA
261 TGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCA
113388489 AATAGACT
326 AATAGACT
113388497 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGACATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGACATGACTCTCA
*
113388562 AATGTTCTCAAACAGACTCAAGATGGTTTAGGCATCCTTGTGCTTACAAGGAACAAGTCGAGGAC
66 AATGTTCTCAAACAGACTCAAGATGGTTTAGGCATCCTTGTGCTTACAAGGAACAAGTCGAGGAA
* *
113388627 CTTGCAGATATGATTCTCAAATGTTCTCAAACAGACTCAAGATGATTTGACATCCTTA
131 CTTGCAGATATGATTCTCAAATGTTCTCAAACAGACTCAAGATGGTTTGGCATCCTTA
113388685 CAAATCGAAG
Statistics
Matches: 500, Mismatches: 19, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
332 89 0.18
333 409 0.82
334 2 0.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (333 bp):
CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGACATGACTCTCA
AATGTTCTCAAACAGACTCAAGATGGTTTAGGCATCCTTGTGCTTACAAGGAACAAGTCGAGGAA
CTTGCAGATATGATTCTCAAATGTTCTCAAACAGACTCAAGATGGTTTGGCATCCTTATGCTTAC
AAGGAACAAATCAAGGAAATTGCAGATATGACTCTCAAATGTTCTCAAACAGACTCAAGATGGTT
TGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCA
AATAGACT
Found at i:113389123 original size:35 final size:35
Alignment explanation
Indices: 113389070--113389211 Score: 230
Period size: 35 Copynumber: 4.0 Consensus size: 35
113389060 ATAATCCTCA
* *
113389070 ATGATATGTAATCTTAGATATGATACAATCTTAAAT
1 ATGAT-TGCAATCTTAGATATGATACAATCTTAGAT
*
113389106 ATGATTGCAATATTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
113389141 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
113389176 ATGATTGCAATCTTAGATATGATATACAATCTTAGA
1 ATGATTGCAATCTTAGATATG--ATACAATCTTAGA
113389212 AGATATGATT
Statistics
Matches: 100, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
35 82 0.82
36 5 0.05
37 13 0.13
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.37
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAGAT
Found at i:113389125 original size:18 final size:18
Alignment explanation
Indices: 113389079--113389211 Score: 191
Period size: 18 Copynumber: 7.5 Consensus size: 18
113389069 AATGATATGT
113389079 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
* *
113389096 AATCTTAAATATGATTGC
1 AATCTTAGATATGATTAC
*
113389114 AATATTAGATATGA-TAC
1 AATCTTAGATATGATTAC
*
113389131 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTAC
113389149 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
*
113389166 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTAC
113389184 AATCTTAGATATGATATAC
1 AATCTTAGATATGAT-TAC
113389203 AATCTTAGA
1 AATCTTAGA
113389212 AGATATGATT
Statistics
Matches: 102, Mismatches: 10, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
17 44 0.43
18 47 0.46
19 11 0.11
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.37
Consensus pattern (18 bp):
AATCTTAGATATGATTAC
Found at i:113389737 original size:15 final size:16
Alignment explanation
Indices: 113389694--113389752 Score: 50
Period size: 16 Copynumber: 3.5 Consensus size: 16
113389684 CAATATATTT
*
113389694 TATATATTTTATATAA
1 TATATTTTTTATATAA
113389710 T-TATTATTCTTATA-AA
1 TATATT-TT-TTATATAA
113389726 TATATTTTTTATTATATA
1 TATATTTTTTA-TATA-A
113389744 TTATATTTT
1 -TATATTTT
113389753 AAATTTATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 11
0.74 0.02 0.23
Matches are distributed among these distances:
15 6 0.17
16 10 0.29
17 10 0.29
18 1 0.03
19 8 0.23
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.63
Consensus pattern (16 bp):
TATATTTTTTATATAA
Found at i:113389756 original size:30 final size:29
Alignment explanation
Indices: 113389687--113389761 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 29
113389677 TCTAAACCAA
113389687 TATATTTT--ATATATTTTATATAATTAT
1 TATATTTTAAATATATTTTATATAATTAT
* *
113389714 TAT-TCTTATAAATATATTTTTTATTATATAT
1 TATAT-TT-TAAATATATTTTATATAAT-TAT
*
113389745 TATATTTTAAATTTATT
1 TATATTTTAAATATATT
113389762 ATTAAATATC
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
26 1 0.03
27 5 0.13
28 1 0.03
30 23 0.59
31 8 0.21
32 1 0.03
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (29 bp):
TATATTTTAAATATATTTTATATAATTAT
Found at i:113389777 original size:26 final size:26
Alignment explanation
Indices: 113389729--113389778 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
113389719 TTATAAATAT
* * * *
113389729 ATTTTTTATTATATATTATATTTTAA
1 ATTTATTATTAAATATCACATTTTAA
113389755 ATTTATTATTAAATATCACATTTT
1 ATTTATTATTAAATATCACATTTT
113389779 TTTATATGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTATTATTAAATATCACATTTTAA
Found at i:113394229 original size:235 final size:235
Alignment explanation
Indices: 113393807--113394268 Score: 816
Period size: 235 Copynumber: 2.0 Consensus size: 235
113393797 CAGTAGTCGA
*
113393807 CACATATAGTGTCTCAACGACACACAGTCGGAATATCCCTAAACACTTCCAATCCTATAGCATGC
1 CACAAATAGTGTCTCAACGACACACAGTCGGAATATCCCTAAACACTTCCAATCCTATAGCATGC
* *
113393872 CAACTATATCCGACTAACCCGATACAGTTAATAGGGTATTTAATAAACTTTCAACTTTTCAATTT
66 CAACTATATCCAACTAACCCGATACAGTTAATAGGGTATTCAATAAACTTTCAACTTTTCAATTT
*
113393937 CATTTGTAATTTAGTTTCAATCCAATTTAATACATTTTTCCATATCAATCGACATGCAAATCAAT
131 CATTTGTAATTTAGTTTCAATCCAATTTAATACATTTTTCCATATCAATCCACATGCAAATCAAT
*
113394002 TTCAATGCAATATACATTTTTCAATTTTCCACTTAATATT
196 TTCAATGCAATATACATTTTTCAAGTTTCCACTTAATATT
* * *
113394042 CACAAATAGTGTCTCATCGACACACAGTCGGAATATCCCTAAACACTTCCAATCCTATGGCGTGC
1 CACAAATAGTGTCTCAACGACACACAGTCGGAATATCCCTAAACACTTCCAATCCTATAGCATGC
** *
113394107 CAACTATATCCAACTAGTCTGATACAGTTAATAGGGTATTCAATAAACTTTCAACTTTTCAATTT
66 CAACTATATCCAACTAACCCGATACAGTTAATAGGGTATTCAATAAACTTTCAACTTTTCAATTT
113394172 CATTTGTAATTTAGTTTCAATCCAATTTAATACATTTTTCCATATCAATCCACATGCAAATCAAT
131 CATTTGTAATTTAGTTTCAATCCAATTTAATACATTTTTCCATATCAATCCACATGCAAATCAAT
*
113394237 TTCAATGCAATATACATTTTTTAAGTTTCCAC
196 TTCAATGCAATATACATTTTTCAAGTTTCCAC
113394269 ACAATACTCA
Statistics
Matches: 215, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
235 215 1.00
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.35
Consensus pattern (235 bp):
CACAAATAGTGTCTCAACGACACACAGTCGGAATATCCCTAAACACTTCCAATCCTATAGCATGC
CAACTATATCCAACTAACCCGATACAGTTAATAGGGTATTCAATAAACTTTCAACTTTTCAATTT
CATTTGTAATTTAGTTTCAATCCAATTTAATACATTTTTCCATATCAATCCACATGCAAATCAAT
TTCAATGCAATATACATTTTTCAAGTTTCCACTTAATATT
Found at i:113394909 original size:15 final size:15
Alignment explanation
Indices: 113394886--113394915 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
113394876 AAAGGGCTTG
113394886 ATTGACTTACCAATT
1 ATTGACTTACCAATT
*
113394901 ATTGGCTTACCAATT
1 ATTGACTTACCAATT
113394916 TAAACTTCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (15 bp):
ATTGACTTACCAATT
Found at i:113401971 original size:26 final size:24
Alignment explanation
Indices: 113401942--113401990 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
113401932 ATAAAAAAAT
*
113401942 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAACATAA-AAA-CAAATATA
113401968 TTTAAAAACATAAAAACAAATAT
1 TTTAAAAACATAAAAACAAATAT
113401991 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (24 bp):
TTTAAAAACATAAAAACAAATATA
Found at i:113402094 original size:15 final size:16
Alignment explanation
Indices: 113402064--113402096 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
113402054 AAATGGTTAT
113402064 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
113402081 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
113402096 A
1 A
113402097 AAATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:113403260 original size:1 final size:1
Alignment explanation
Indices: 113403226--113403250 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
113403216 GTGAGAAAGC
113403226 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
113403251 GAGGTAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:113403937 original size:36 final size:37
Alignment explanation
Indices: 113403897--113403970 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 37
113403887 TATTGTATTA
113403897 TTAAATT-ATAATTTAATATA-TTTA-TTATTAAATTTT
1 TTAAATTAATAA--TAATATATTTTATTTATTAAATTTT
* *
113403933 TTAAATTAATAATAATGTATTTTATTTATTTAATTTT
1 TTAAATTAATAATAATATATTTTATTTATTAAATTTT
113403970 T
1 T
113403971 AATATTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
35 6 0.18
36 11 0.33
37 16 0.48
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (37 bp):
TTAAATTAATAATAATATATTTTATTTATTAAATTTT
Found at i:113404342 original size:25 final size:22
Alignment explanation
Indices: 113404301--113404362 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 22
113404291 AATTTAATAT
* *
113404301 TTTTAAAAGTCTAAACCCATTAAA
1 TTTTAAAACTC-AAAACCATT-AA
113404325 TTTTAAAACTCAATAACCATTAA
1 TTTTAAAACTCAA-AACCATTAA
*
113404348 TATTTAAAACCCAAA
1 T-TTTAAAACTCAAA
113404363 TTGATCATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
23 6 0.18
24 27 0.82
ACGTcount: A:0.48, C:0.18, G:0.02, T:0.32
Consensus pattern (22 bp):
TTTTAAAACTCAAAACCATTAA
Found at i:113410074 original size:2 final size:2
Alignment explanation
Indices: 113410067--113410098 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
113410057 AAAATGCAAT
113410067 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
113410099 GGGGGGGGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:113411637 original size:5 final size:5
Alignment explanation
Indices: 113411627--113411653 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
113411617 AATGTAAGTG
113411627 AAATA AAATA AAATA AAATA AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AA
113411654 GGATTAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:113421273 original size:15 final size:15
Alignment explanation
Indices: 113421253--113421282 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
113421243 CTTTTCAGAG
113421253 TTTTAGAATTATATA
1 TTTTAGAATTATATA
*
113421268 TTTTAGAATTTTATA
1 TTTTAGAATTATATA
113421283 AGAAAAAAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (15 bp):
TTTTAGAATTATATA
Found at i:113421384 original size:9 final size:9
Alignment explanation
Indices: 113421361--113421425 Score: 51
Period size: 9 Copynumber: 6.9 Consensus size: 9
113421351 TTAATTGTCG
*
113421361 TATTTTTTG
1 TATTTTTTA
113421370 TA-TTTTTA
1 TATTTTTTA
*
113421378 TATTTTTAA
1 TATTTTTTA
113421387 TAATTTATATATA
1 T-ATTT-T-T-TA
113421400 TATTTTTTA
1 TATTTTTTA
* *
113421409 GATTTTATA
1 TATTTTTTA
113421418 TATTTTTT
1 TATTTTTT
113421426 CCTAAATTCT
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
8 7 0.16
9 23 0.52
10 5 0.11
11 2 0.05
12 5 0.11
13 2 0.05
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (9 bp):
TATTTTTTA
Found at i:113421402 original size:22 final size:20
Alignment explanation
Indices: 113421361--113421425 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
113421351 TTAATTGTCG
113421361 TATTTTTT-GTATTTT-TATA
1 TATTTTTTAG-ATTTTATATA
*
113421380 T-TTTTAATA-ATTTATATATA
1 TATTTT-TTAGATTT-TATATA
113421400 TATTTTTTAGATTTTATATA
1 TATTTTTTAGATTTTATATA
113421420 T-TTTTT
1 TATTTTT
113421426 CCTAAATTCT
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
18 8 0.21
19 8 0.21
20 14 0.37
21 8 0.21
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (20 bp):
TATTTTTTAGATTTTATATA
Found at i:113427670 original size:13 final size:14
Alignment explanation
Indices: 113427639--113427676 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
113427629 ATAGATAACC
113427639 AATTTA-ATTTTAT
1 AATTTATATTTTAT
*
113427652 ATTTTATATTTTA-
1 AATTTATATTTTAT
113427665 AATTTATATTTT
1 AATTTATATTTT
113427677 TACTTATCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
AATTTATATTTTAT
Found at i:113428011 original size:34 final size:35
Alignment explanation
Indices: 113427971--113428042 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 35
113427961 CGTCAATTAA
** * *
113427971 TATTTTTTTTTAAAATTTAAAAAG-CTCAAAAAAT
1 TATTTTTTTAAAAAAATTAAAAAGTATCAAAAAAT
*
113428005 TATTTTTTTAAAAAAATTAAAAAGTATTAAAAAAT
1 TATTTTTTTAAAAAAATTAAAAAGTATCAAAAAAT
113428040 TAT
1 TAT
113428043 AAACATATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
34 21 0.66
35 11 0.34
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (35 bp):
TATTTTTTTAAAAAAATTAAAAAGTATCAAAAAAT
Found at i:113430023 original size:19 final size:20
Alignment explanation
Indices: 113429985--113430026 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
113429975 ATATTTTTTA
113429985 TTTTTACAAATTTTGAAATAT
1 TTTTTACAAATTTT-AAATAT
*
113430006 TTTTTAGAAATTTT-AATAT
1 TTTTTACAAATTTTAAATAT
113430025 TT
1 TT
113430027 ATTTTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
21 13 0.65
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (20 bp):
TTTTTACAAATTTTAAATAT
Found at i:113430031 original size:21 final size:21
Alignment explanation
Indices: 113429981--113430031 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
113429971 TTTAATATTT
113429981 TTTATTTTTACAAATTTTGAAA
1 TTTA-TTTTACAAATTTTGAAA
*
113430003 TATT-TTTTAGAAATTTT-AATA
1 T-TTATTTTACAAATTTTGAA-A
113430024 TTTATTTT
1 TTTATTTT
113430032 TTAAAATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
20 4 0.16
21 18 0.72
22 1 0.04
23 2 0.08
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (21 bp):
TTTATTTTACAAATTTTGAAA
Found at i:113432635 original size:6 final size:6
Alignment explanation
Indices: 113432626--113432652 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
113432616 GACCCATTTG
113432626 CATTCC CATTCC CATTCC CATTCC CAT
1 CATTCC CATTCC CATTCC CATTCC CAT
113432653 GGCCATGGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.48, G:0.00, T:0.33
Consensus pattern (6 bp):
CATTCC
Found at i:113441809 original size:43 final size:43
Alignment explanation
Indices: 113441684--113441822 Score: 147
Period size: 42 Copynumber: 3.2 Consensus size: 43
113441674 TGTGTTGTCG
* * * *
113441684 TGTAAGACCACATCTGGGAC-GTTGGCATCAATTTTTGATTTACG
1 TGTAAGACCATATCTGGGACAG-TGGCATCGATATTTGATTT-CA
* * * *
113441728 TGTAAGACCATGTTTGGGACATTGGCATCG-TATATGATTTCA
1 TGTAAGACCATATCTGGGACAGTGGCATCGATATTTGATTTCA
* * *
113441770 TGTAGGACCCTATCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCATATCTGGGACAGTGGCATCGATATTTGATTTCA
113441813 TGTAAGACCA
1 TGTAAGACCA
113441823 CGTCTAGGAC
Statistics
Matches: 76, Mismatches: 17, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
42 26 0.34
43 26 0.34
44 24 0.32
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATATCTGGGACAGTGGCATCGATATTTGATTTCA
Found at i:113441839 original size:43 final size:43
Alignment explanation
Indices: 113441684--113441840 Score: 158
Period size: 43 Copynumber: 3.7 Consensus size: 43
113441674 TGTGTTGTCG
* * *
113441684 TGTAAGACCACATCTGGGACGTTGGCATCAATTTTTGATTTACG
1 TGTAAGACCACATCTGGGACGTTGGCATCGATATTTGA-TTACA
** * * * *
113441728 TGTAAGACCATGTTTGGGACATTGGCATCG-TATATGATTTCA
1 TGTAAGACCACATCTGGGACGTTGGCATCGATATTTGATTACA
*
113441770 TGTAGGACC-CTATCTGGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCAC-ATCTGGGAC-GTTGGCATCGATATTTGATTACA
* *
113441813 TGTAAGACCACGTCTAGGACGTTGGCAT
1 TGTAAGACCACATCTGGGACGTTGGCAT
113441841 TGTACGAGCT
Statistics
Matches: 89, Mismatches: 19, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
42 27 0.30
43 36 0.40
44 26 0.29
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
TGTAAGACCACATCTGGGACGTTGGCATCGATATTTGATTACA
Found at i:113445677 original size:21 final size:21
Alignment explanation
Indices: 113445639--113445679 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
113445629 GCTTCAATGA
*
113445639 GTTTCCATTCAACCCTTATGG
1 GTTTCCATTCAACACTTATGG
* *
113445660 GTTTCCATTTAGCACTTATG
1 GTTTCCATTCAACACTTATG
113445680 TGCTTCTGTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (21 bp):
GTTTCCATTCAACACTTATGG
Found at i:113446144 original size:2 final size:2
Alignment explanation
Indices: 113446139--113446199 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
113446129 TATATATATA
113446139 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
113446181 TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG T
113446200 TTGTAAGTAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:113448680 original size:5 final size:5
Alignment explanation
Indices: 113448670--113448701 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
113448660 TTGTGTGTTC
113448670 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
113448702 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:113448684 original size:9 final size:9
Alignment explanation
Indices: 113448670--113448700 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
113448660 TTGTGTGTTC
113448670 TTTATTTTA
1 TTTATTTTA
113448679 TTTATTTTA
1 TTTATTTTA
113448688 TTTTATTTTA
1 -TTTATTTTA
113448698 TTT
1 TTT
113448701 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:113453116 original size:5 final size:5
Alignment explanation
Indices: 113453106--113453138 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
113453096 TTTGTGTGTT
113453106 TTTTA TTTTA -TTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
113453139 TCACAAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:113453121 original size:9 final size:9
Alignment explanation
Indices: 113453107--113453137 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
113453097 TTGTGTGTTT
113453107 TTTATTTTA
1 TTTATTTTA
113453116 TTTATTTTA
1 TTTATTTTA
113453125 TTTTATTTTA
1 -TTTATTTTA
113453135 TTT
1 TTT
113453138 TTCACAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:113453125 original size:14 final size:15
Alignment explanation
Indices: 113453106--113453138 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
113453096 TTTGTGTGTT
113453106 TTTTATTTTA-TTTA
1 TTTTATTTTATTTTA
113453120 TTTTATTTTATTTTA
1 TTTTATTTTATTTTA
113453135 TTTT
1 TTTT
113453139 TCACAAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTATTTTATTTTA
Found at i:113453250 original size:26 final size:26
Alignment explanation
Indices: 113453220--113453272 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
113453210 TCAAGCATAA
113453220 TGTGAAACTCATCCATTCGTCTCTCT
1 TGTGAAACTCATCCATTCGTCTCTCT
*
113453246 TGTGAAATTCATCCATTCGTCTCTCT
1 TGTGAAACTCATCCATTCGTCTCTCT
113453272 T
1 T
113453273 CCCTTGGTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.28, G:0.11, T:0.42
Consensus pattern (26 bp):
TGTGAAACTCATCCATTCGTCTCTCT
Found at i:113456460 original size:20 final size:20
Alignment explanation
Indices: 113456435--113456486 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
113456425 AATATTGATG
* * *
113456435 TAATTTTTAAATTTAAAGAC
1 TAATTTTAAAATTCAAAGAA
* *
113456455 TAATTTTCAAGTTCAAAGAA
1 TAATTTTAAAATTCAAAGAA
113456475 TAATTTTAAAAT
1 TAATTTTAAAAT
113456487 AAAATTATAC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.42
Consensus pattern (20 bp):
TAATTTTAAAATTCAAAGAA
Found at i:113462620 original size:162 final size:162
Alignment explanation
Indices: 113462421--113462741 Score: 545
Period size: 162 Copynumber: 2.0 Consensus size: 162
113462411 TCTGAAGGAA
* *
113462421 GTGGAGTTTCACTCCTATATGTTGTTTGCTTAATCTCATCTGCATTGTTTTCTTCAGGAAAACAG
1 GTGGAGTTTCACTCCTATATGTCGTTTGCTTAATCTCATCTGCAGTGTTTTCTTCAGGAAAACAG
* *
113462486 AACTGATGTGGATCAATTTTAGAACTTTTCTTCTCAG-TTCCCTTTTTCTGGGGCAACAACGAAC
66 AACTGATGTGGATCAATTTTAGAACTTTTCTTCGCAGTTTCCC-TTTTCCGGGGCAACAACGAAC
113462550 CACCATTGACAGTACCAGCTAGCTTTGCAGGCG
130 CACCATTGACAGTACCAGCTAGCTTTGCAGGCG
*
113462583 GTGGAGTTTCAGTCCTATATGTCGTTTGCTTAATCTCATCTGCAGTGTTTTCTTCAGGAAAACAG
1 GTGGAGTTTCACTCCTATATGTCGTTTGCTTAATCTCATCTGCAGTGTTTTCTTCAGGAAAACAG
* * *
113462648 ACCTGATGTGGATCAATTTTAGAACTTTTCTTCGCAGTTTTCCTTTTCCGGGGCAACAATGAACC
66 AACTGATGTGGATCAATTTTAGAACTTTTCTTCGCAGTTTCCCTTTTCCGGGGCAACAACGAACC
*
113462713 ACCATTGACAGTACCATCTAGCTTTGCAG
131 ACCATTGACAGTACCAGCTAGCTTTGCAG
113462742 ATCTTCCTAC
Statistics
Matches: 149, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
162 145 0.97
163 4 0.03
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.35
Consensus pattern (162 bp):
GTGGAGTTTCACTCCTATATGTCGTTTGCTTAATCTCATCTGCAGTGTTTTCTTCAGGAAAACAG
AACTGATGTGGATCAATTTTAGAACTTTTCTTCGCAGTTTCCCTTTTCCGGGGCAACAACGAACC
ACCATTGACAGTACCAGCTAGCTTTGCAGGCG
Found at i:113467533 original size:18 final size:20
Alignment explanation
Indices: 113467498--113467535 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
113467488 TTTATCATGC
113467498 TAATAATTTTTTATAATAAT
1 TAATAATTTTTTATAATAAT
113467518 TAAT-ATTTTTTA-AATAAT
1 TAATAATTTTTTATAATAAT
113467536 ATAAATTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 8 0.44
20 4 0.22
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TAATAATTTTTTATAATAAT
Found at i:113469907 original size:46 final size:46
Alignment explanation
Indices: 113469834--113470377 Score: 759
Period size: 46 Copynumber: 11.8 Consensus size: 46
113469824 TGATGTCATA
* * * *
113469834 GTATCTTTCAACTATGGTTTTACTCATTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGTTGCCATG
* *** *
113469880 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGTTGCCATG
*
113469927 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* *
113469973 GTATCTTTCAACCATGGTCTTATTCATTTCATATCAAGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* *
113470019 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* *** *
113470065 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGTTGCCATG
113470112 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* * * *
113470158 GTATCTTTCAACCGTGGTCTTATTCATTTCATATCATGTTGTCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* * *
113470204 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCGTG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* *
113470250 GTATCTTTCAACCAT-GTCTTACACATTTAATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* *
113470295 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGTCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* *
113470341 GTATCTTTCAACCATGGTCTTACACATTCCATATCAG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
113470378 AGAGCACACT
Statistics
Matches: 454, Mismatches: 41, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
45 42 0.09
46 332 0.73
47 80 0.18
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
Found at i:113470107 original size:139 final size:138
Alignment explanation
Indices: 113469834--113470368 Score: 768
Period size: 139 Copynumber: 3.9 Consensus size: 138
113469824 TGATGTCATA
* * * *
113469834 GTATCTTTCAACTATGGTTTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAACCATGGT
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGT
** ***
113469898 CTTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCA
65 CTTACACA-TTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCA
*
113469963 GGTTGCCATG
129 CGTTGCCATG
* *
113469973 GTATCTTTCAACCATGGTCTTATTCATTTCATATCAAGTTGCCATGGTATCTTTCAACCATGGTC
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTC
* * ** *
113470038 TTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCAT
66 TTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGTCAC
113470103 GTTGCCATG
130 GTTGCCATG
*
113470112 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTATCTTTCAACCGTGGTC
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTC
** * * *
113470177 TTATTCATTTCATATCATGTTGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACG
66 TTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCACG
*
113470242 TTGCCGTG
131 TTGCCATG
* *
113470250 GTATCTTTCAACCAT-GTCTTACACATTTAATATCAGGTTGCCATGGTATCTTTCAACCATGGTC
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTC
* * *
113470314 TTACACATTTCATATCAGGTTGTCATGGTATCTTTCAACCATGGTCTTACACATT
66 TTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATT
113470369 CCATATCAGA
Statistics
Matches: 359, Mismatches: 35, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
137 98 0.27
138 75 0.21
139 186 0.52
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (138 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTC
TTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCACG
TTGCCATG
Found at i:113470151 original size:185 final size:185
Alignment explanation
Indices: 113469834--113470376 Score: 858
Period size: 185 Copynumber: 2.9 Consensus size: 185
113469824 TGATGTCATA
* * * * *
113469834 GTATCTTTCAACTATGGTTTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAACCATGGT
1 GTATCTTTCAACCATGGTCTTACACA-TTTCATATCACGTTGCCATGGTATCTTTCAACCATGGT
*
113469898 CTTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCA
65 CTTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCA
113469963 GGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAAGTTGCCATG
130 GGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAAGTTGCCATG
113470019 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTC
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTC
113470084 TTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
66 TTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
* * *
113470149 GTTGCCATGGTATCTTTCAACCGTGGTCTTATTCATTTCATATCATGTTGTCATG
131 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAAGTTGCCATG
*
113470204 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCGTGGTATCTTTCAACCAT-GTC
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTC
** **** * *
113470268 TTACACA-TTTAATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
66 TTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
* ** *
113470332 GTTGTCATGGTATCTTTCAACCATGGTCTTACACATTCCATATCA
131 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCA
113470377 GAGAGCACAC
Statistics
Matches: 334, Mismatches: 23, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
183 91 0.27
184 12 0.04
185 231 0.69
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.41
Consensus pattern (185 bp):
GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTC
TTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAAGTTGCCATG
Found at i:113486705 original size:131 final size:130
Alignment explanation
Indices: 113486508--113486798 Score: 419
Period size: 131 Copynumber: 2.3 Consensus size: 130
113486498 AAATTTCTAG
* ** * *
113486508 ACATTGAACATTGCCTT--TTTT--AGAATTTAGAAAACATGAGTGAAATTCTAAAGGAATATTC
1 ACATCGAACATTGCCTTCGTTTTAAAGAATTTTTAAAACATGAATGAAATTCCAAAGGAATATTC
* * **
113486569 GATTATTTTGAACAAATGAGAAATTGCAACCCAGCACGATAGGGCAAAATTCTTCGAATTGACAA
66 AATTATTTTGAACAAACGAGAAATTGCAACCCAGCACGATAGGGCAAAATTCCCCGAATTGACAA
113486634 ACATCGAACATTGCCTTCGTTTTAAAGAATTTTTAAAGACATGAATGAAATTCCAAAGGAATATT
1 ACATCGAACATTGCCTTCGTTTTAAAGAATTTTTAAA-ACATGAATGAAATTCCAAAGGAATATT
* ** *
113486699 CAATTATTTTGAACAAACGGGAAATTGCAACCCAGCACGATAGGGCACGATTCCCCGAATTGCCA
65 CAATTATTTTGAACAAACGAGAAATTGCAACCCAGCACGATAGGGCAAAATTCCCCGAATTGACA
113486764 A
130 A
*
113486765 ACATCAAACATTGCCTTCGTTTTAAAGAATTTTT
1 ACATCGAACATTGCCTTCGTTTTAAAGAATTTTT
113486799 TAAATGAATA
Statistics
Matches: 146, Mismatches: 14, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
126 16 0.11
128 4 0.03
130 10 0.07
131 116 0.79
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (130 bp):
ACATCGAACATTGCCTTCGTTTTAAAGAATTTTTAAAACATGAATGAAATTCCAAAGGAATATTC
AATTATTTTGAACAAACGAGAAATTGCAACCCAGCACGATAGGGCAAAATTCCCCGAATTGACAA
Found at i:113486812 original size:13 final size:13
Alignment explanation
Indices: 113486784--113486821 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
113486774 ATTGCCTTCG
*
113486784 TTTTAAA-GAATT
1 TTTTAAATGAATA
113486796 TTTTAAATGAATA
1 TTTTAAATGAATA
113486809 TTTTAAATGAATA
1 TTTTAAATGAATA
113486822 ATTATAAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 7 0.29
13 17 0.71
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (13 bp):
TTTTAAATGAATA
Found at i:113487794 original size:23 final size:22
Alignment explanation
Indices: 113487768--113487812 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
113487758 ATACATGTAC
113487768 AAATATATATA-GAATATTTAAAG
1 AAATAT-TATACGAATA-TTAAAG
*
113487791 AAATATTGTACGAATATTAAAG
1 AAATATTATACGAATATTAAAG
113487813 TGAATCAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.53, C:0.02, G:0.11, T:0.33
Consensus pattern (22 bp):
AAATATTATACGAATATTAAAG
Found at i:113492371 original size:25 final size:24
Alignment explanation
Indices: 113492338--113492417 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 24
113492328 TTATCAAATT
113492338 AAAATTAAAATAAAAATATAGAATC
1 AAAA-TAAAATAAAAATATAGAATC
*
113492363 AAAACTAAAATAAATAATA-AAAAT-
1 AAAA-TAAAATAAA-AATATAGAATC
* * * *
113492387 TAGATTAAATATAAATATAGAATC
1 AAAATAAAATAAAAATATAGAATC
113492411 AAAATAA
1 AAAATAA
113492418 TAAAGCACCA
Statistics
Matches: 42, Mismatches: 10, Indels: 7
0.71 0.17 0.12
Matches are distributed among these distances:
22 4 0.10
23 11 0.26
24 6 0.14
25 17 0.40
26 4 0.10
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.25
Consensus pattern (24 bp):
AAAATAAAATAAAAATATAGAATC
Found at i:113496593 original size:14 final size:14
Alignment explanation
Indices: 113496574--113496603 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
113496564 AATGGTGGAA
*
113496574 GGATTTTGATTTGG
1 GGATTTCGATTTGG
113496588 GGATTTCGATTTGG
1 GGATTTCGATTTGG
113496602 GG
1 GG
113496604 GAAAAATTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.13, C:0.03, G:0.40, T:0.43
Consensus pattern (14 bp):
GGATTTCGATTTGG
Found at i:113496650 original size:12 final size:13
Alignment explanation
Indices: 113496633--113496664 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
113496623 GGGGATACCG
113496633 ATTTTAGGGGG-A
1 ATTTTAGGGGGAA
113496645 ATTTTAGGGGGAA
1 ATTTTAGGGGGAA
113496658 ATTTTAG
1 ATTTTAG
113496665 ACGTTCCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (13 bp):
ATTTTAGGGGGAA
Found at i:113498083 original size:21 final size:22
Alignment explanation
Indices: 113498047--113498087 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
113498037 TGTTTTTTGG
113498047 AGTTTAGGGTTTTAGGGGTTAT
1 AGTTTAGGGTTTTAGGGGTTAT
*
113498069 AGTTTAGTG-TTTAGGGGTT
1 AGTTTAGGGTTTTAGGGGTT
113498088 TTTAGGATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.46
Consensus pattern (22 bp):
AGTTTAGGGTTTTAGGGGTTAT
Found at i:113498144 original size:54 final size:54
Alignment explanation
Indices: 113498048--113498164 Score: 146
Period size: 54 Copynumber: 2.1 Consensus size: 54
113498038 GTTTTTTGGA
* *
113498048 GTTTAGGGTTTTAGGGGTTATAGTTTAGTGTTTAGG-GGTTTTTAGGATTTAGAG
1 GTTTAGGGTTTTAGGGGTTATAGATTAGTGTTTAGGATGTTTTTAGGATTTAG-G
* ** * *
113498102 GTTTAGTGTTTTAGGGGTTATAGATTAGTGTTTATTATTTTTTTAGGGTTTAGG
1 GTTTAGGGTTTTAGGGGTTATAGATTAGTGTTTAGGATGTTTTTAGGATTTAGG
113498156 GCTTTAGGG
1 G-TTTAGGG
113498165 ATTATATGAC
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
54 34 0.64
55 19 0.36
ACGTcount: A:0.18, C:0.01, G:0.32, T:0.49
Consensus pattern (54 bp):
GTTTAGGGTTTTAGGGGTTATAGATTAGTGTTTAGGATGTTTTTAGGATTTAGG
Found at i:113498255 original size:41 final size:40
Alignment explanation
Indices: 113498175--113498301 Score: 182
Period size: 41 Copynumber: 3.1 Consensus size: 40
113498165 ATTATATGAC
* * * *
113498175 TTTTAGCGGCGTTTTATCGAAAGCGCCGCTAATGCTCTGT
1 TTTTAGCGGCGTTTTAACAAAAACGCCGCTATTGCTCTGT
113498215 TTTTAGCGGCGTTTTAACAAAAAACGCCGCTATTGCTCTGT
1 TTTTAGCGGCGTTTTAAC-AAAAACGCCGCTATTGCTCTGT
* *
113498256 TTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCCGT
1 TTTTAGCGGCGTTTTAACAAAAACGCCGCTATTGCTCTGT
113498296 GTTTTA
1 -TTTTA
113498302 TAATTTTTGC
Statistics
Matches: 79, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
40 38 0.48
41 41 0.52
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.35
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTAACAAAAACGCCGCTATTGCTCTGT
Found at i:113500137 original size:13 final size:13
Alignment explanation
Indices: 113500119--113500143 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
113500109 AAGCTTAAGG
113500119 TTAATAATATAAT
1 TTAATAATATAAT
113500132 TTAATAATATAA
1 TTAATAATATAA
113500144 AAATATGAAA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAATAATATAAT
Found at i:113517229 original size:34 final size:34
Alignment explanation
Indices: 113517181--113517245 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
113517171 GAATTGCAAT
* *
113517181 GGTTACAGCAGAGGTGTACGGGTGTTATCACCAC
1 GGTTACAGCAGAGGTGTACGAGCGTTATCACCAC
*
113517215 GGTTTCAGCAGAGGTGTACGAGCGTTATCAC
1 GGTTACAGCAGAGGTGTACGAGCGTTATCAC
113517246 TATTATAGTC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (34 bp):
GGTTACAGCAGAGGTGTACGAGCGTTATCACCAC
Found at i:113517312 original size:38 final size:38
Alignment explanation
Indices: 113517259--113517336 Score: 140
Period size: 38 Copynumber: 2.1 Consensus size: 38
113517249 TATAGTCCCT
113517259 GCAAATCACTGCAATATCAAATTATGCATCACAATTAA
1 GCAAATCACTGCAATATCAAATTATGCATCACAATTAA
113517297 GCAAATCACCT-CAATATCAAATTATGCATCACAATTAA
1 GCAAATCA-CTGCAATATCAAATTATGCATCACAATTAA
113517335 GC
1 GC
113517337 TTCAATCAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
38 37 0.95
39 2 0.05
ACGTcount: A:0.44, C:0.23, G:0.08, T:0.26
Consensus pattern (38 bp):
GCAAATCACTGCAATATCAAATTATGCATCACAATTAA
Found at i:113517666 original size:12 final size:12
Alignment explanation
Indices: 113517649--113517674 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
113517639 GTTCCAACAA
113517649 TTCCGAATCATG
1 TTCCGAATCATG
113517661 TTCCGAATCATG
1 TTCCGAATCATG
113517673 TT
1 TT
113517675 GGAAACAACG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (12 bp):
TTCCGAATCATG
Found at i:113520778 original size:21 final size:20
Alignment explanation
Indices: 113520738--113520780 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
113520728 CACTAATTCA
*
113520738 ATTTTAATTAATTTAATTTG
1 ATTTTAATTAATTCAATTTG
*
113520758 ATTTTAATTGCATTCAATTTG
1 ATTTTAATT-AATTCAATTTG
113520779 AT
1 AT
113520781 CACTGTTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.56
Consensus pattern (20 bp):
ATTTTAATTAATTCAATTTG
Found at i:113526858 original size:14 final size:14
Alignment explanation
Indices: 113526839--113526866 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
113526829 GCAAACAAAT
113526839 CAATTAATTTAAGC
1 CAATTAATTTAAGC
113526853 CAATTAATTTAAGC
1 CAATTAATTTAAGC
113526867 AAGATTGTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (14 bp):
CAATTAATTTAAGC
Found at i:113532731 original size:23 final size:23
Alignment explanation
Indices: 113532705--113532749 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
113532695 TGGGTATGTG
*
113532705 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
113532728 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
113532750 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:113533952 original size:39 final size:39
Alignment explanation
Indices: 113533906--113534033 Score: 152
Period size: 39 Copynumber: 3.3 Consensus size: 39
113533896 GGTCTTTAAC
**
113533906 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCAAGT
* * * * *
113533945 CCAGATA-TATTCCTAGCATATAGCCTGCAGATCTCATGT
1 CCGGATATTTTTCC-AGCATATAGCCTGCGGACCTCAAGT
*
113533984 CCGGATATTTTTCCAGTATATAGCCTGCGGACCT-AATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCAA-GT
113534023 CCGGATATTTT
1 CCGGATATTTT
113534034 CAATCTCATA
Statistics
Matches: 73, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
38 6 0.08
39 62 0.85
40 5 0.07
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCAAGT
Found at i:113538556 original size:92 final size:93
Alignment explanation
Indices: 113538429--113538598 Score: 288
Period size: 92 Copynumber: 1.8 Consensus size: 93
113538419 GCCCATAAGT
* *
113538429 GAACTCGGACTCAACTCAACGAGCTAGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTAGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
113538494 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
113538522 GAACTCGGACTC-ACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTAGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
113538586 CGAGTTCGGATGC
66 CGAGCTCGGATGC
113538599 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 60 0.83
93 12 0.17
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTAGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:113538595 original size:46 final size:46
Alignment explanation
Indices: 113538421--113538595 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
113538411 TGTAACCCGC
* * *
113538421 CCATAAGTGAACTCGGACTCAACTCAACGAGCTAGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
113538467 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
113538513 ACATCTCTCGAACTCGGACTC-ACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
113538559 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
113538596 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 13, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 12 0.11
46 75 0.69
47 12 0.11
48 4 0.04
49 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:113538614 original size:46 final size:46
Alignment explanation
Indices: 113538426--113538614 Score: 126
Period size: 46 Copynumber: 4.1 Consensus size: 46
113538416 CCCGCCCATA
* ** * *
113538426 AGTGAACTCGGACTCAACTCAACGAGCTAGGGCGTTC--GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCC-T
113538471 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTTA-CATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACCATC-CT
* * * * * *
113538521 --CGAACTCGGACTC-ACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGCTCAACCATCCT
*
113538564 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
113538610 AGTGA
1 AGTGA
113538615 CATATCACTT
Statistics
Matches: 113, Mismatches: 14, Indels: 32
0.71 0.09 0.20
Matches are distributed among these distances:
44 9 0.08
45 13 0.12
46 68 0.60
47 12 0.11
48 4 0.04
49 1 0.01
50 5 0.04
51 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
Found at i:113540675 original size:75 final size:73
Alignment explanation
Indices: 113540587--113540758 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 73
113540577 GGTTTTCCTC
*** * * **
113540587 ATTGAAATACCATACCTACATTTTTTAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
113540651 TCAGTATGG
65 TCAGTATGG
*
113540660 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
113540725 CTCAGTATGG
64 CTCAGTATGG
113540735 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
113540759 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 57 0.65
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:113540756 original size:35 final size:35
Alignment explanation
Indices: 113540592--113540758 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
113540582 TCCTCATTGA
*** *
113540592 AATACCATACCTACATTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
113540627 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
113540667 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
113540702 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
113540737 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
113540759 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
35 88 0.75
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:113548141 original size:35 final size:35
Alignment explanation
Indices: 113548076--113548241 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
113548066 TCCTCATTGA
** *
113548076 AATACCATACCTACATTT-TTAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
113548110 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
113548150 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
113548185 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
113548220 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
113548242 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 8, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
34 17 0.14
35 71 0.60
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:113548200 original size:75 final size:72
Alignment explanation
Indices: 113548071--113548243 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 72
113548061 GGTTTTCCTC
* * * **
113548071 ATTGAAATACCATACCTACATTTTTA-ACTCGGTATGGGAAATGCCATACCTACATTTCTTAACT
1 ATTGAAATACCATACCTACA-TTTCACACTCAGTATGGGAAATACCATACCTACATTTCACAACT
113548135 CAGTATGG
65 CAGTATGG
113548143 ATTTGATAATACCATACCTACATTTCACAGCTCAGTAT-GGATAATACCATACCTACATTTCACA
1 A-TTGA-AATACCATACCTACATTTCACA-CTCAGTATGGGA-AATACCATACCTACATTTCACA
113548207 ACTCAGTATGG
62 ACTCAGTATGG
113548218 A-TG--ATACCATACCTACATTTCACACT
1 ATTGAAATACCATACCTACATTTCACACT
113548244 TTGCCATGGA
Statistics
Matches: 91, Mismatches: 5, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
69 2 0.02
70 21 0.23
72 1 0.01
73 10 0.11
74 19 0.21
75 38 0.42
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (72 bp):
ATTGAAATACCATACCTACATTTCACACTCAGTATGGGAAATACCATACCTACATTTCACAACTC
AGTATGG
Found at i:113554134 original size:46 final size:46
Alignment explanation
Indices: 113554067--113554244 Score: 198
Period size: 46 Copynumber: 3.9 Consensus size: 46
113554057 ATGTAACCCG
*
113554067 TCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCA
1 TCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCA
* * *
113554113 TCCATAAGTGAACTCGGACTCAACTCAA-GAGCTCGGATGCCTAG-T
1 TCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG-TTCGCA
* *** * **
113554158 TACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCA
1 TCCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCA
* * *
113554205 TCCATAAGTGAACTCGGATTTAACTCAACGAGTTCGGATG
1 TCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG
113554245 CTCAACCATC
Statistics
Matches: 106, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
45 15 0.14
46 78 0.74
47 13 0.12
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (46 bp):
TCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCA
Found at i:113554187 original size:92 final size:93
Alignment explanation
Indices: 113554076--113554245 Score: 270
Period size: 92 Copynumber: 1.8 Consensus size: 93
113554066 GTCCATAAGT
***
113554076 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
113554141 -GAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
113554168 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGATTTAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
113554233 CGAGTTCGGATGC
66 CGAGCTCGGATGC
113554246 TCAACCATCC
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
92 59 0.84
93 11 0.16
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:113560720 original size:14 final size:14
Alignment explanation
Indices: 113560701--113560727 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
113560691 TGTTTTGCAT
113560701 GTAAAATATTTTCC
1 GTAAAATATTTTCC
113560715 GTAAAATATTTTC
1 GTAAAATATTTTC
113560728 ATTATTTTAC
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:0.37, C:0.11, G:0.07, T:0.44
Consensus pattern (14 bp):
GTAAAATATTTTCC
Found at i:113561768 original size:27 final size:27
Alignment explanation
Indices: 113561730--113561784 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
113561720 ACTTTCCAAA
113561730 ATTTCATATTTCATAATCATATAATTT
1 ATTTCATATTTCATAATCATATAATTT
113561757 ATTTCATATTTCATAATCATATAATTT
1 ATTTCATATTTCATAATCATATAATTT
113561784 A
1 A
113561785 CTTACTTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (27 bp):
ATTTCATATTTCATAATCATATAATTT
Found at i:113561956 original size:19 final size:19
Alignment explanation
Indices: 113561934--113561972 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
113561924 AATTAAGTAA
113561934 ATTAAGATTGA-ATAAAACT
1 ATTAAGATT-ACATAAAACT
113561953 ATTAAGATTACATAAAACT
1 ATTAAGATTACATAAAACT
113561972 A
1 A
113561973 AAACATGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 1 0.05
19 18 0.95
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (19 bp):
ATTAAGATTACATAAAACT
Found at i:113564762 original size:26 final size:27
Alignment explanation
Indices: 113564726--113564778 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
113564716 TGATGAAATG
*
113564726 TTTTATAAAAT-AATTTTATTAAATTT
1 TTTTAAAAAATAAATTTTATTAAATTT
*
113564752 TTTTAAAAAATAAATTTTATTTAATTT
1 TTTTAAAAAATAAATTTTATTAAATTT
113564779 AATAAAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 10 0.42
27 14 0.58
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (27 bp):
TTTTAAAAAATAAATTTTATTAAATTT
Found at i:113564784 original size:26 final size:26
Alignment explanation
Indices: 113564732--113564791 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
113564722 AATGTTTTAT
**
113564732 AAAATAATTTTATTAAATTTTTTTAA
1 AAAATAATTTTATTAAATTTTAATAA
*
113564758 AAAATAAATTTTATTTAA-TTTAATAA
1 AAAAT-AATTTTATTAAATTTTAATAA
*
113564784 AAAGTAAT
1 AAAATAAT
113564792 ATATTTGATA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 3 0.10
26 15 0.52
27 11 0.38
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (26 bp):
AAAATAATTTTATTAAATTTTAATAA
Found at i:113564786 original size:27 final size:26
Alignment explanation
Indices: 113564732--113564786 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 26
113564722 AATGTTTTAT
** *
113564732 AAAATAATTTTATTAAATTTTTTTAA
1 AAAATAATTTTATTAAATTTAATAAA
*
113564758 AAAATAAATTTTATTTAATTTAATAAA
1 AAAAT-AATTTTATTAAATTTAATAAA
113564785 AA
1 AA
113564787 GTAATATATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
AAAATAATTTTATTAAATTTAATAAA
Found at i:113581341 original size:16 final size:16
Alignment explanation
Indices: 113581320--113581352 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
113581310 TTTAAAAGTC
113581320 TTTTTTTTTTCTTTTT
1 TTTTTTTTTTCTTTTT
113581336 TTTTTTTTTTCTTTTT
1 TTTTTTTTTTCTTTTT
113581352 T
1 T
113581353 ATCTTCTCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.00, C:0.06, G:0.00, T:0.94
Consensus pattern (16 bp):
TTTTTTTTTTCTTTTT
Found at i:113581352 original size:11 final size:11
Alignment explanation
Indices: 113581318--113581351 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
113581308 CATTTAAAAG
113581318 TCTTTTTTTTT
1 TCTTTTTTTTT
113581329 TCTTTTTTTTT
1 TCTTTTTTTTT
113581340 T-TTTTTCTTTT
1 TCTTTTT-TTTT
113581351 T
1 T
113581352 TATCTTCTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 5 0.23
11 17 0.77
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (11 bp):
TCTTTTTTTTT
Found at i:113581874 original size:25 final size:24
Alignment explanation
Indices: 113581822--113581875 Score: 58
Period size: 23 Copynumber: 2.2 Consensus size: 24
113581812 ATCACATTAA
*
113581822 ATTAAAAAAATACAAATATCACAT
1 ATTAAAAAAATACAAATATCAAAT
*
113581846 -TTAAGAAAATATCAAA-ATCTAAAT
1 ATTAAAAAAATA-CAAATATC-AAAT
113581870 ATTAAA
1 ATTAAA
113581876 TAATATATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
23 13 0.54
24 7 0.29
25 4 0.17
ACGTcount: A:0.61, C:0.09, G:0.02, T:0.28
Consensus pattern (24 bp):
ATTAAAAAAATACAAATATCAAAT
Found at i:113592876 original size:39 final size:39
Alignment explanation
Indices: 113592832--113592958 Score: 227
Period size: 39 Copynumber: 3.3 Consensus size: 39
113592822 TATCAGAACA
*
113592832 AAGCCTGCGGGACTTTAACCCGGATACATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
* *
113592871 AAGCCTGCGGGACTTTGGCCCAGATACATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
113592910 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
113592949 AAGCCTGCGG
1 AAGCCTGCGG
113592959 ACCCTAAGTC
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 83 1.00
ACGTcount: A:0.24, C:0.31, G:0.26, T:0.20
Consensus pattern (39 bp):
AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
Found at i:113592972 original size:39 final size:39
Alignment explanation
Indices: 113592832--113592986 Score: 188
Period size: 39 Copynumber: 4.0 Consensus size: 39
113592822 TATCAGAACA
*
113592832 AAGCCTGCGGGACTTTAA-CCCGGATACATTTCCAGCACG
1 AAGCCTGCGGGAC-CTAAGCCCGGATACATTTCCAGCACG
* ** *
113592871 AAGCCTGCGGGACTTTGGCCCAGATACATTTCCAGCACG
1 AAGCCTGCGGGACCTAAGCCCGGATACATTTCCAGCACG
* *
113592910 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
1 AAGCCTGCGGGACCTAAGCCCGGATACATTTCCAGCACG
* * *
113592949 AAGCCTGC-GGACCCTAAGTCCGGATATAATTCCAGCAC
1 AAGCCTGCGGGA-CCTAAGCCCGGATACATTTCCAGCAC
113592987 ATAGCTTGCG
Statistics
Matches: 104, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
38 5 0.05
39 99 0.95
ACGTcount: A:0.25, C:0.31, G:0.24, T:0.20
Consensus pattern (39 bp):
AAGCCTGCGGGACCTAAGCCCGGATACATTTCCAGCACG
Found at i:113592997 original size:39 final size:39
Alignment explanation
Indices: 113592851--113593015 Score: 156
Period size: 39 Copynumber: 4.2 Consensus size: 39
113592841 GGACTTTAAC
* * ** *
113592851 CCGGATACATTTCCAGCACGAAGCCTGCGGGA-CTTTGGC
1 CCGGATACAATTCCAGCACGAAGCCTGC-GGACCCTAAGT
* * * * *
113592890 CCAGATACATTTCCAGCACGAAGCCTGCGGGA-CTTTAGC
1 CCGGATACAATTCCAGCACGAAGCCTGC-GGACCCTAAGT
*
113592929 CCGGATACATTTCCAGCACGAAGCCTGCGGACCCTAAGT
1 CCGGATACAATTCCAGCACGAAGCCTGCGGACCCTAAGT
* *
113592968 CCGGATATAATTCCAGCAC-ATAGCTTGCGGACCCTAAGT
1 CCGGATACAATTCCAGCACGA-AGCCTGCGGACCCTAAGT
*
113593007 CCGAATACA
1 CCGGATACA
113593016 CATCAAATAT
Statistics
Matches: 113, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
38 4 0.04
39 109 0.96
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.20
Consensus pattern (39 bp):
CCGGATACAATTCCAGCACGAAGCCTGCGGACCCTAAGT
Found at i:113592997 original size:78 final size:78
Alignment explanation
Indices: 113592832--113592986 Score: 222
Period size: 78 Copynumber: 2.0 Consensus size: 78
113592822 TATCAGAACA
* **
113592832 AAGCCTGCGGGACTTTAACCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTGGCCCAGATA
1 AAGCCTGCGGGACTTTAACCCGGATACATTTCCAGCACGAAGCCTGCGGGACCTAAGCCCAGATA
*
113592897 CATTTCCAGCACG
66 CAATTCCAGCACG
* * *
113592910 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGC-GGACCCTAAGTCCGGAT
1 AAGCCTGCGGGACTTTAACCCGGATACATTTCCAGCACGAAGCCTGCGGGA-CCTAAGCCCAGAT
*
113592974 ATAATTCCAGCAC
65 ACAATTCCAGCAC
113592987 ATAGCTTGCG
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
77 3 0.04
78 65 0.96
ACGTcount: A:0.25, C:0.31, G:0.24, T:0.20
Consensus pattern (78 bp):
AAGCCTGCGGGACTTTAACCCGGATACATTTCCAGCACGAAGCCTGCGGGACCTAAGCCCAGATA
CAATTCCAGCACG
Found at i:113593015 original size:78 final size:78
Alignment explanation
Indices: 113592832--113593015 Score: 178
Period size: 78 Copynumber: 2.4 Consensus size: 78
113592822 TATCAGAACA
* * * **
113592832 AAGCCTGCGGGACTTTAA-CCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTGGCCCAGAT
1 AAGCCTGCGGGAC-CTAAGCCCGAATACATTTCCAGCACGAAGCCTGCGGGACCTAAGCCCAGAT
*
113592896 ACATTTCCAGCACG
65 ACAATTCCAGCACG
* * * * *
113592910 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGC-GGACCCTAAGTCCGGAT
1 AAGCCTGCGGGACCTAAGCCCGAATACATTTCCAGCACGAAGCCTGCGGGA-CCTAAGCCCAGAT
*
113592974 ATAATTCCAGCAC-
65 ACAATTCCAGCACG
* *
113592987 ATAGCTTGC-GGACCCTAAGTCCGAATACA
1 A-AGCCTGCGGGA-CCTAAGCCCGAATACA
113593016 CATCAAATAT
Statistics
Matches: 89, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
77 10 0.11
78 79 0.89
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.20
Consensus pattern (78 bp):
AAGCCTGCGGGACCTAAGCCCGAATACATTTCCAGCACGAAGCCTGCGGGACCTAAGCCCAGATA
CAATTCCAGCACG
Found at i:113596591 original size:20 final size:21
Alignment explanation
Indices: 113596566--113596604 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
113596556 TCTTTAAAAT
113596566 AGGGC-ACACACCCGTGTGGA
1 AGGGCAACACACCCGTGTGGA
*
113596586 AGGGCAACACGCCCGTGTG
1 AGGGCAACACACCCGTGTG
113596605 ACCAACTCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.31, G:0.36, T:0.10
Consensus pattern (21 bp):
AGGGCAACACACCCGTGTGGA
Found at i:113597194 original size:22 final size:23
Alignment explanation
Indices: 113597169--113597214 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
113597159 CAACCAAATC
113597169 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
113597191 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
113597214 A
1 A
113597215 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:113597220 original size:23 final size:23
Alignment explanation
Indices: 113597176--113597220 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
113597166 ATCAATTCAA
*
113597176 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
113597199 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
113597221 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:113600805 original size:46 final size:46
Alignment explanation
Indices: 113600725--113600894 Score: 173
Period size: 47 Copynumber: 3.6 Consensus size: 46
113600715 GTGTCAATGC
* *
113600725 CATGTCCCAGACATGGTCTTACACT-GACTATCATCTGGTAGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAG-CTCTCATCTGGTAGCTGATG
** *
113600772 CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATA-TTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATCT-GGTAGCTGATG
* * * ** *
113600818 CCATGTCTCAGACACGGTCTTACACTGGCTCTCATAAGGTGGCTGATG
1 -CATGTCCCAGACA-TGTCTTACACTAGCTCTCATCTGGTAGCTGATG
*
113600866 CATGTCCCGGACATGTCTTACACTAGCTC
1 CATGTCCCAGACATGTCTTACACTAGCTC
113600895 ACACACAAAT
Statistics
Matches: 100, Mismatches: 18, Indels: 11
0.78 0.14 0.09
Matches are distributed among these distances:
46 36 0.36
47 41 0.41
48 23 0.23
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATCTGGTAGCTGATG
Found at i:113600882 original size:94 final size:94
Alignment explanation
Indices: 113600721--113600894 Score: 267
Period size: 94 Copynumber: 1.9 Consensus size: 94
113600711 TAAGGTGTCA
* **
113600721 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTGGTAGCCGATGCATGTCCCAGACAT
1 ATGCCATGTCCCAGACACGGTCTTACACTGACTATCATAAGGTAGCCGATGCATGTCCCAGACAT
113600786 GTCTTACACTAGCTCTCATCTCAATATTG
66 GTCTTACACTAGCTCTCATCTCAATATTG
* * * * * *
113600815 ATGCCATGTCTCAGACACGGTCTTACACTGGCTCTCATAAGGTGGCTGATGCATGTCCCGGACAT
1 ATGCCATGTCCCAGACACGGTCTTACACTGACTATCATAAGGTAGCCGATGCATGTCCCAGACAT
113600880 GTCTTACACTAGCTC
66 GTCTTACACTAGCTC
113600895 ACACACAAAT
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
94 71 1.00
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (94 bp):
ATGCCATGTCCCAGACACGGTCTTACACTGACTATCATAAGGTAGCCGATGCATGTCCCAGACAT
GTCTTACACTAGCTCTCATCTCAATATTG
Found at i:113602442 original size:30 final size:29
Alignment explanation
Indices: 113602376--113602447 Score: 92
Period size: 30 Copynumber: 2.5 Consensus size: 29
113602366 ACATCAGCAC
* *
113602376 AAAGTGCCTGAT-ACTGTAACACCGGTAT
1 AAAGTACCTGATAACTGTAACACCGGCAT
*
113602404 AAAGTACCTGATAACTGTAATCACTGGCAT
1 AAAGTACCTGATAACTGTAA-CACCGGCAT
*
113602434 ATAGTACCTGATAA
1 AAAGTACCTGATAA
113602448 ACCCTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 11 0.29
29 7 0.18
30 20 0.53
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.26
Consensus pattern (29 bp):
AAAGTACCTGATAACTGTAACACCGGCAT
Found at i:113602592 original size:37 final size:37
Alignment explanation
Indices: 113602537--113602614 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
113602527 TTCTTTTTAA
*
113602537 CATTTTCGTACACATATCAAACAACCATATACTTATT
1 CATTTCCGTACACATATCAAACAACCATATACTTATT
* * *
113602574 CATTTCCGTTCACTTATCAAATAACCATATACTTATT
1 CATTTCCGTACACATATCAAACAACCATATACTTATT
113602611 -ATTT
1 CATTT
113602615 AAACCAATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 4 0.11
37 33 0.89
ACGTcount: A:0.35, C:0.23, G:0.03, T:0.40
Consensus pattern (37 bp):
CATTTCCGTACACATATCAAACAACCATATACTTATT
Found at i:113604440 original size:18 final size:18
Alignment explanation
Indices: 113604399--113604441 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
113604389 AAAAATTATT
*
113604399 ATAAAAATGATAAAAATC
1 ATAAAAATGATAAAAATA
*
113604417 ACAAAATAT-ATAAAAATA
1 ATAAAA-ATGATAAAAATA
113604435 ATAAAAA
1 ATAAAAA
113604442 ACCATAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 1 0.05
18 18 0.86
19 2 0.10
ACGTcount: A:0.72, C:0.05, G:0.02, T:0.21
Consensus pattern (18 bp):
ATAAAAATGATAAAAATA
Found at i:113604441 original size:19 final size:21
Alignment explanation
Indices: 113604426--113604463 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
113604416 CACAAAATAT
113604426 ATAAAAAT-AATAAAAA-ACC
1 ATAAAAATAAATAAAAATACC
*
113604445 ATAAAATTAAATAAAAATA
1 ATAAAAATAAATAAAAATA
113604464 AAAATATGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 7 0.44
20 8 0.50
21 1 0.06
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (21 bp):
ATAAAAATAAATAAAAATACC
Found at i:113607706 original size:21 final size:21
Alignment explanation
Indices: 113607644--113607708 Score: 85
Period size: 21 Copynumber: 3.1 Consensus size: 21
113607634 CCTGATCAGT
*
113607644 ATACGACACATAAAGTGCCTA
1 ATACGACACATAAAGTGCCTG
* ** *
113607665 AAACGACACACGAGGTGCCTG
1 ATACGACACATAAAGTGCCTG
113607686 ATACGACACATAAAGTGCCTG
1 ATACGACACATAAAGTGCCTG
113607707 AT
1 AT
113607709 CGATAAAGCC
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.17
Consensus pattern (21 bp):
ATACGACACATAAAGTGCCTG
Found at i:113609777 original size:21 final size:22
Alignment explanation
Indices: 113609751--113609809 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
113609741 GTTTTAAGAA
*
113609751 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
113609772 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
113609794 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
113609810 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:113609824 original size:26 final size:24
Alignment explanation
Indices: 113609780--113609829 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
113609770 ATTTGTTTTA
*
113609780 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
113609804 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
113609830 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:113611990 original size:2 final size:2
Alignment explanation
Indices: 113611983--113612007 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
113611973 AAAATTTTAA
113611983 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
113612008 AAAGTTAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:113613345 original size:19 final size:20
Alignment explanation
Indices: 113613323--113613376 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 20
113613313 AATGCGTTAG
113613323 ATATTATAAAATATTATCAAT
1 ATATTATAAAA-ATTATCAAT
*
113613344 ATATTATAAAAA-TATGAAT
1 ATATTATAAAAATTATCAAT
*
113613363 -GATTATAAAAATTA
1 ATATTATAAAAATTA
113613377 AAAATTATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 10 0.33
19 8 0.27
20 1 0.03
21 11 0.37
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.39
Consensus pattern (20 bp):
ATATTATAAAAATTATCAAT
Found at i:113613349 original size:11 final size:10
Alignment explanation
Indices: 113613323--113613395 Score: 52
Period size: 10 Copynumber: 7.7 Consensus size: 10
113613313 AATGCGTTAG
113613323 ATATTATAAA
1 ATATTATAAA
*
113613333 ATATTATCAAT
1 ATATTAT-AAA
113613344 ATATTATAAA
1 ATATTATAAA
*
113613354 A-A-TAT-GA
1 ATATTATAAA
113613361 ATGATTATAAA
1 AT-ATTATAAA
113613372 A-ATTA-AAA
1 ATATTATAAA
113613380 AT-TATATAAA
1 ATAT-TATAAA
113613390 AT-TTAT
1 ATATTAT
113613396 TGACATGATA
Statistics
Matches: 51, Mismatches: 4, Indels: 17
0.71 0.06 0.24
Matches are distributed among these distances:
7 2 0.04
8 8 0.16
9 11 0.22
10 19 0.37
11 11 0.22
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (10 bp):
ATATTATAAA
Found at i:113613896 original size:9 final size:9
Alignment explanation
Indices: 113613852--113613915 Score: 56
Period size: 10 Copynumber: 6.7 Consensus size: 9
113613842 TTCCTTTATA
*
113613852 AATTTTTAT
1 AATTTTAAT
113613861 AAATTTATAAT
1 -AATTT-TAAT
* *
113613872 AACTTTGAT
1 AATTTTAAT
*
113613881 AATTTTTTAT
1 AA-TTTTAAT
113613891 AATTTTAAT
1 AATTTTAAT
113613900 AATTTTAATT
1 AATTTTAA-T
113613910 AATTTT
1 AATTTT
113613916 GTATTACTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
9 19 0.42
10 23 0.51
11 3 0.07
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (9 bp):
AATTTTAAT
Found at i:113618532 original size:14 final size:14
Alignment explanation
Indices: 113618513--113618540 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
113618503 TATATTAGTA
113618513 TTTTCTATTCTATT
1 TTTTCTATTCTATT
113618527 TTTTCTATTCTATT
1 TTTTCTATTCTATT
113618541 AGTATTAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTCTATTCTATT
Found at i:113618548 original size:6 final size:6
Alignment explanation
Indices: 113618537--113618615 Score: 66
Period size: 5 Copynumber: 14.2 Consensus size: 6
113618527 TTTTCTATTC
* *
113618537 TATTAG TATTAGAG TATTAG -ATTAG TATT-C TATT-C TATTAG TATTAG
1 TATTAG TATT--AG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG
113618584 -ATTAG TATTAG --TTAG -ATTAG -ATTAG TATTAG T
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG T
113618616 TAGTGATCCC
Statistics
Matches: 64, Mismatches: 2, Indels: 14
0.80 0.03 0.17
Matches are distributed among these distances:
4 4 0.06
5 28 0.44
6 26 0.41
8 6 0.09
ACGTcount: A:0.33, C:0.03, G:0.16, T:0.48
Consensus pattern (6 bp):
TATTAG
Found at i:113618563 original size:11 final size:11
Alignment explanation
Indices: 113618538--113618619 Score: 50
Period size: 11 Copynumber: 7.5 Consensus size: 11
113618528 TTTCTATTCT
113618538 ATTAGTATTAG
1 ATTAGTATTAG
113618549 ---AGTATTAG
1 ATTAGTATTAG
**
113618557 ATTAGTATTCT
1 ATTAGTATTAG
*
113618568 ATT-CTATTAG
1 ATTAGTATTAG
113618578 TATTAG-ATTAG
1 -ATTAGTATTAG
113618589 TATTAGTTAGATTAG
1 -ATTAG-T--ATTAG
113618604 ATTAGTATTAG
1 ATTAGTATTAG
113618615 -TTAGT
1 ATTAGT
113618620 GATCCCGGCT
Statistics
Matches: 56, Mismatches: 6, Indels: 19
0.69 0.07 0.23
Matches are distributed among these distances:
8 8 0.14
10 9 0.16
11 28 0.50
13 1 0.02
14 5 0.09
15 5 0.09
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (11 bp):
ATTAGTATTAG
Found at i:113618604 original size:20 final size:21
Alignment explanation
Indices: 113618574--113618619 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
113618564 TTCTATTCTA
113618574 TTAGTATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
113618595 TTAG-ATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
113618615 TTAGT
1 TTAGT
113618620 GATCCCGGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.48
Consensus pattern (21 bp):
TTAGTATTAGATTAGTATTAG
Found at i:113620331 original size:462 final size:461
Alignment explanation
Indices: 113619468--113620393 Score: 1807
Period size: 462 Copynumber: 2.0 Consensus size: 461
113619458 TAGGATTAGT
113619468 CAGTTCTATTTCTTGATGGGGGCAGGGAAGGGATATAACTCAGCGGTAGAGTGTCACCTTGACGT
1 CAGTTCTATTTCTTGATGGGGGCAGGGAAGGGATATAACTCAGCGGTAGAGTGTCACCTTGACGT
*
113619533 GGTGGAAGTCATCAGTTCGAGCCTGATTATCCCTAAACCCAATGTGAGTTTTTCTATTTTGCCTT
66 GGTGGAAGTCATCAGTTCGAGCCTGATTATCCCTAAACCCAATGTGAGTTTTTCTATTTTACCTT
113619598 GCCCCCGCCGTGATCGAATAAGAATGGATAAGAGGCTCGTGGGATTGACGTGAGGGGGTAGGGAT
131 GCCCCCGCCGTGATCGAATAAGAATGGATAAGAGGCTCGTGGGATTGACGTGAGGGGGTAGGGAT
113619663 GGCTATATTTCTGGGAGCGAACTCCAGGCGAATATGAAGCGCATGGATACAAGTTATGCCTTGGA
196 GGCTATATTTCTGGGAGCGAACTCCAGGCGAATATGAAGCGCATGGATACAAGTTATGCCTTGGA
113619728 ATGAAAGACAATTCCGAACCGGCTTTGTCTACGAACAAGGAAGCTATAAGTAATGCAACTATGAA
261 ATGAAAGACAATTCCGAACCGGCTTTGTCTACGAACAAGGAAGCTATAAGTAATGCAACTATGAA
*
113619793 TCTCATGGAGAGTTCGATCCTGGCTCAGGATGAACGCTGGCGGCATGCTTAACACATGTAAGTCG
326 TCTCATGGAGAGTTCGATCCTGGCTCAGGATGAACGCTGGCGGCATGCTTAACACATGCAAGTCG
113619858 GACGGGAAGTGGTGTTTCCAGTGGCGGACGGGTGAGTAACGCGTAAGAACCTGCCCTTGGGAGGG
391 GACGGGAAGTGGTGTTTCCAGTGGCGGACGGGTGAGTAACGCGTAAGAACCTGCCCTTGGGAGGG
113619923 GAACAA
456 GAACAA
113619929 CAGTTCTATTTCTTGATGGGGGCAGGGAAGGGATATAACTCAGCGGTAGAGTGTCACCTTGACGT
1 CAGTTCTATTTCTTGATGGGGGCAGGGAAGGGATATAACTCAGCGGTAGAGTGTCACCTTGACGT
113619994 GGTGGAAGTCATCAGTTCGAGCCTGATTATCCCTAAACCCAATGTGAGTTTTTCTATTTTACCTT
66 GGTGGAAGTCATCAGTTCGAGCCTGATTATCCCTAAACCCAATGTGAGTTTTTCTATTTTACCTT
113620059 GCCCCCCGCCGTGATCGAATAAGAATGGATAAGAGGCTCGTGGGATTGACGTGAGGGGGTAGGGA
131 G-CCCCCGCCGTGATCGAATAAGAATGGATAAGAGGCTCGTGGGATTGACGTGAGGGGGTAGGGA
113620124 TGGCTATATTTCTGGGAGCGAACTCCAGGCGAATATGAAGCGCATGGATACAAGTTATGCCTTGG
195 TGGCTATATTTCTGGGAGCGAACTCCAGGCGAATATGAAGCGCATGGATACAAGTTATGCCTTGG
* *
113620189 AATGAAAGACAATTTCGAACCGGCTTTGTCTACGAACAAGGAAGCTATAAGTAATGCAATTATGA
260 AATGAAAGACAATTCCGAACCGGCTTTGTCTACGAACAAGGAAGCTATAAGTAATGCAACTATGA
113620254 ATCTCATGGAGAGTTCGATCCTGGCTCAGGATGAACGCTGGCGGCATGCTTAACACATGCAAGTC
325 ATCTCATGGAGAGTTCGATCCTGGCTCAGGATGAACGCTGGCGGCATGCTTAACACATGCAAGTC
113620319 GGACGGGAAGTGGTGTTTCCAGTGGCGGACGGGTGAGTAACGCGTAAGAACCTGCCCTTGGGAGG
390 GGACGGGAAGTGGTGTTTCCAGTGGCGGACGGGTGAGTAACGCGTAAGAACCTGCCCTTGGGAGG
113620384 GGAACAA
455 GGAACAA
113620391 CAG
1 CAG
113620394 CTGGAAACGG
Statistics
Matches: 460, Mismatches: 4, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
461 130 0.28
462 330 0.72
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.24
Consensus pattern (461 bp):
CAGTTCTATTTCTTGATGGGGGCAGGGAAGGGATATAACTCAGCGGTAGAGTGTCACCTTGACGT
GGTGGAAGTCATCAGTTCGAGCCTGATTATCCCTAAACCCAATGTGAGTTTTTCTATTTTACCTT
GCCCCCGCCGTGATCGAATAAGAATGGATAAGAGGCTCGTGGGATTGACGTGAGGGGGTAGGGAT
GGCTATATTTCTGGGAGCGAACTCCAGGCGAATATGAAGCGCATGGATACAAGTTATGCCTTGGA
ATGAAAGACAATTCCGAACCGGCTTTGTCTACGAACAAGGAAGCTATAAGTAATGCAACTATGAA
TCTCATGGAGAGTTCGATCCTGGCTCAGGATGAACGCTGGCGGCATGCTTAACACATGCAAGTCG
GACGGGAAGTGGTGTTTCCAGTGGCGGACGGGTGAGTAACGCGTAAGAACCTGCCCTTGGGAGGG
GAACAA
Found at i:113633869 original size:47 final size:47
Alignment explanation
Indices: 113633800--113633895 Score: 192
Period size: 47 Copynumber: 2.0 Consensus size: 47
113633790 CATCTTTAAT
113633800 ACTTACCCTAGTTAGTGGCGAAACCATGACAACTTAATAGTTTTCTA
1 ACTTACCCTAGTTAGTGGCGAAACCATGACAACTTAATAGTTTTCTA
113633847 ACTTACCCTAGTTAGTGGCGAAACCATGACAACTTAATAGTTTTCTA
1 ACTTACCCTAGTTAGTGGCGAAACCATGACAACTTAATAGTTTTCTA
113633894 AC
1 AC
113633896 ACATTTATGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (47 bp):
ACTTACCCTAGTTAGTGGCGAAACCATGACAACTTAATAGTTTTCTA
Found at i:113642972 original size:29 final size:31
Alignment explanation
Indices: 113642905--113642978 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 31
113642895 AACGGCTTAA
* *
113642905 TGATTAAAATGTTATAATACGATAACGTAAG
1 TGATTAAAATGTAATAATACGATAACATAAG
* * *
113642936 TGACTAAAATGTAATATTTC-A-AACATAAG
1 TGATTAAAATGTAATAATACGATAACATAAG
113642965 TGATTAAAATGTAA
1 TGATTAAAATGTAA
113642979 CCTGAGTTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 20 0.54
30 1 0.03
31 16 0.43
ACGTcount: A:0.47, C:0.07, G:0.14, T:0.32
Consensus pattern (31 bp):
TGATTAAAATGTAATAATACGATAACATAAG
Found at i:113644196 original size:54 final size:55
Alignment explanation
Indices: 113644087--113644196 Score: 125
Period size: 54 Copynumber: 2.0 Consensus size: 55
113644077 TGGATTTACT
* * *
113644087 ACATAATAAACAATCAATTTAAAAAATATATATTTTAATATAATAATAGAATTAA
1 ACATAATAAACAATCAATTCAAAAAAAATATATTTTAATATAACAATAGAATTAA
* * * * *
113644142 ACAT-ATAAATAATTAATTCAAAAAAAATAGT-TTTTAATATTACAATCGATTTAA
1 ACATAATAAACAATCAATTCAAAAAAAATA-TATTTTAATATAACAATAGAATTAA
113644196 A
1 A
113644197 TAATCAATTC
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
54 41 0.89
55 5 0.11
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.35
Consensus pattern (55 bp):
ACATAATAAACAATCAATTCAAAAAAAATATATTTTAATATAACAATAGAATTAA
Found at i:113645886 original size:20 final size:20
Alignment explanation
Indices: 113645861--113645904 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
113645851 GAGCGGGTGA
* * *
113645861 AATTTTTTGATTTCGAGTAG
1 AATTTTTAGATTTAGAGCAG
113645881 AATTTTTAGATTTAGAGCAG
1 AATTTTTAGATTTAGAGCAG
113645901 AATT
1 AATT
113645905 GACATGTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (20 bp):
AATTTTTAGATTTAGAGCAG
Found at i:113646136 original size:2 final size:2
Alignment explanation
Indices: 113646119--113646156 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
113646109 TTCGCATTTT
* *
113646119 TA TA TA TG TA TG TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
113646157 TTTATTAAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
TA
Found at i:113647554 original size:5 final size:5
Alignment explanation
Indices: 113647523--113647570 Score: 55
Period size: 5 Copynumber: 9.8 Consensus size: 5
113647513 GAAATAAAGG
* *
113647523 TTTTA -TTTA TTTTCG TTTT- TGTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
113647571 GAACCTAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
4 7 0.19
5 26 0.70
6 4 0.11
ACGTcount: A:0.15, C:0.02, G:0.04, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:113648227 original size:14 final size:14
Alignment explanation
Indices: 113648205--113648241 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
113648195 CCTTTTTAAT
*
113648205 TATTCTTATAAATA
1 TATTATTATAAATA
*
113648219 TATTATTATAAATT
1 TATTATTATAAATA
113648233 TATTATTAT
1 TATTATTAT
113648242 TATAAAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (14 bp):
TATTATTATAAATA
Found at i:113648277 original size:3 final size:3
Alignment explanation
Indices: 113648258--113648841 Score: 301
Period size: 3 Copynumber: 195.3 Consensus size: 3
113648248 AAAGTTAATT
* * * * *
113648258 TTA TTA TTT TTA CTA TTA TTA TTA TTA TAA ATA -TA TTA TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
113648305 TTG TTA TTA TTA TTTA CATG TTA TTA TTTC TTT TTT TTA TTA TGGTA
1 TTA TTA TTA TTA -TTA -TTA TTA TTA -TTA TTA TTA TTA TTA T--TA
* *** * * * *
113648352 TTA TTA TTA TTG CCG TTA TTA TT- TTT TTA TTT TTT TTA TCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
113648399 TTA -TC TTA TT- TTA TTG TCA TTT TTA CTA TTA TTA TTA TTA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
113648445 -TA TT- TT- TTA TT- TT- TTA CTA CTA TTA TTA TTA GTA TTA TCA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * ** * * *
113648488 TAA TTA TTA CTA TTA TT- TT- TTA CAA TTA TTA TT- TCA CATA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
* * * **
113648531 TTA TTA CTA TTT TTG TTA TTA TTA TTA TTA TT- TT- TTA CCA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * ** * *
113648576 TTA TT- TCCTA TTT TTA TATA TTA TTA TTG TTA TTA ACA TATA CTA TCA
1 TTA TTA T--TA TTA TTA T-TA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
*
113648624 TTA TTAA TGTA CTA TTA TT- TCCTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TT-A T-TA TTA TTA TTA T--TA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * **
113648672 TTA TTA TTA TTA TTTA TTA TTA TTA CTA ATA TCA CTA TTA CCA TTTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
*
113648719 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA CTA TCTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* * * * *
113648767 ATA -GA TTA TTA -TA CCTTT TTA TTA TTA TTA CTA TT- GTA TTA TTA
1 TTA TTA TTA TTA TTA --TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
113648811 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
113648842 AATATTTTCT
Statistics
Matches: 439, Mismatches: 107, Indels: 70
0.71 0.17 0.11
Matches are distributed among these distances:
2 35 0.08
3 375 0.85
4 22 0.05
5 7 0.02
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:113648284 original size:41 final size:41
Alignment explanation
Indices: 113648232--113648318 Score: 115
Period size: 41 Copynumber: 2.1 Consensus size: 41
113648222 TATTATAAAT
*
113648232 TTATTATTATTATAAA-AAAGTTAATT-TTATTATTTTTACTA
1 TTATTATTATTATAAATAAA-TT-ATTGTTATTATTGTTACTA
* *
113648273 TTATTATTATTATAAATATATTATTGTTATTATTGTTATTA
1 TTATTATTATTATAAATAAATTATTGTTATTATTGTTACTA
113648314 TTATT
1 TTATT
113648319 TACATGTTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
40 3 0.07
41 36 0.88
42 2 0.05
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (41 bp):
TTATTATTATTATAAATAAATTATTGTTATTATTGTTACTA
Found at i:113648296 original size:17 final size:17
Alignment explanation
Indices: 113648203--113648302 Score: 53
Period size: 17 Copynumber: 5.6 Consensus size: 17
113648193 CCCCTTTTTA
*
113648203 ATTATTCTTAT-AA-AT
1 ATTATTATTATAAATAT
*
113648218 A-TATTATTATAAATTT
1 ATTATTATTATAAATAT
113648234 ATTATTATTATAAAAAAGTTAAT
1 ATTATTATTAT---AAA--T-AT
* * * *
113648257 TTTATTATTTTTACTATT
1 ATTATTATTATAAATA-T
113648275 ATTATTATTATAAATAT
1 ATTATTATTATAAATAT
*
113648292 ATTATTGTTAT
1 ATTATTATTAT
113648303 TATTGTTATT
Statistics
Matches: 63, Mismatches: 12, Indels: 18
0.68 0.13 0.19
Matches are distributed among these distances:
14 8 0.13
15 3 0.05
16 2 0.03
17 21 0.33
18 14 0.22
20 4 0.06
22 1 0.02
23 10 0.16
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (17 bp):
ATTATTATTATAAATAT
Found at i:113648460 original size:37 final size:35
Alignment explanation
Indices: 113648370--113648475 Score: 117
Period size: 37 Copynumber: 2.9 Consensus size: 35
113648360 ATTGCCGTTA
* *
113648370 TTATTTTTTTATTTTTT-TTATCATTATTATTATC
1 TTATTTTTTTATTTTTTACTATTATTATTATTATC
*
113648404 TTATTTTATTGTCA-TTTTTACTATTATTATTATTATTT
1 TTATTTT-TT-T-ATTTTTTACTATTATTATTATTA-TC
*
113648442 TTATATTTTTTATTTTTTACTACTATTATTATTA
1 TTAT-TTTTTTATTTTTTACTATTATTATTATTA
113648476 GTATTATCAA
Statistics
Matches: 61, Mismatches: 4, Indels: 11
0.80 0.05 0.14
Matches are distributed among these distances:
34 7 0.11
35 2 0.03
36 7 0.11
37 35 0.57
38 7 0.11
39 3 0.05
ACGTcount: A:0.24, C:0.06, G:0.01, T:0.70
Consensus pattern (35 bp):
TTATTTTTTTATTTTTTACTATTATTATTATTATC
Found at i:113649129 original size:3 final size:3
Alignment explanation
Indices: 113649074--113649230 Score: 88
Period size: 3 Copynumber: 53.3 Consensus size: 3
113649064 ATTTTCACTT
* * * * *
113649074 TTA TTA CTA TTA CTA TTT TTA TT- TTT TTA TT- TT- TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * *
113649119 TCA TTA TTA TTA ATA CTA ATA ATA ATA TTC TTA TTA TTA CTT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
* * * * * * *
113649164 TTA TTA TCA TTA GTA TTA TTA TTT TTA CTA CTA CTA TTA TTA TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
**
113649212 ACA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA T
113649231 CGTTTTCATC
Statistics
Matches: 121, Mismatches: 29, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
2 8 0.07
3 111 0.92
4 2 0.02
ACGTcount: A:0.32, C:0.08, G:0.01, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:113651978 original size:20 final size:20
Alignment explanation
Indices: 113651933--113651978 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
113651923 ACAAATAAAT
*
113651933 AAAAAGAAAAAAGGAAATAG
1 AAAAAGAAAAAAGGAAACAG
113651953 AAAAAGAAAGAAA-GAAACAG
1 AAAAAGAAA-AAAGGAAACAG
*
113651973 AGAAAG
1 AAAAAG
113651979 CCAAATGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.74, C:0.02, G:0.22, T:0.02
Consensus pattern (20 bp):
AAAAAGAAAAAAGGAAACAG
Found at i:113656785 original size:10 final size:10
Alignment explanation
Indices: 113656766--113656797 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
113656756 TTTTAGGATT
113656766 TTAT-TTTAA
1 TTATCTTTAA
113656775 TTATCTTTAA
1 TTATCTTTAA
113656785 TTATCTTTAA
1 TTATCTTTAA
113656795 TTA
1 TTA
113656798 ATTGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:113664709 original size:43 final size:43
Alignment explanation
Indices: 113664661--113664745 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 43
113664651 TATCAGTTAA
113664661 AGGAAAATATCATAGACCTACAAAGTAGATTAAAGATACATAT
1 AGGAAAATATCATAGACCTACAAAGTAGATTAAAGATACATAT
* *
113664704 AGGAAACTATCATAGACGTACAAAGTAGATTAAAGATACATA
1 AGGAAAATATCATAGACCTACAAAGTAGATTAAAGATACATA
113664746 CTTCTTGGAG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.51, C:0.12, G:0.15, T:0.22
Consensus pattern (43 bp):
AGGAAAATATCATAGACCTACAAAGTAGATTAAAGATACATAT
Found at i:113669437 original size:28 final size:28
Alignment explanation
Indices: 113669396--113669462 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 28
113669386 AAATGATAAA
113669396 AATAAAAAGCTATAA-AAAT-TATTAATTTTT
1 AATAAAAA--TATAAGAAATAT-TTAA-TTTT
113669426 AATAAAAATATAAGAAATATTTAATTTT
1 AATAAAAATATAAGAAATATTTAATTTT
*
113669454 ATTAAAAAT
1 AATAAAAAT
113669463 TAGAAACAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
28 17 0.50
29 8 0.24
30 9 0.26
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (28 bp):
AATAAAAATATAAGAAATATTTAATTTT
Done.