Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 54 of 202
Found at i:15979793 original size:87 final size:88
Alignment explanation
Indices: 15979668--15979942 Score: 412
Period size: 87 Copynumber: 3.1 Consensus size: 88
15979658 GTGAAACTAT
* *
15979668 AAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTATAAATCCTAGCTCCCTGACCAG
1 AAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGAGGAAGATTGTAAATCCTAGCTCCCTGACCAG
*
15979733 CATTGGAATAGGTGGAAGACTGA
66 CAGTGGAATAGGTGGAAGACTGA
* *
15979756 AAGTCCTAGCTCCCTGAA-AGCAGTGGAATAGGCGGAAGATTGTAAATCCTAGCTTCCTGACCAG
1 AAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGAGGAAGATTGTAAATCCTAGCTCCCTGACCAG
15979820 CAGTGGAATAGGTGGAAGACT-A
66 CAGTGGAATAGGTGGAAGACTGA
* * *
15979842 TAAGTCCTAGCTCCCTGAATAGCAGTGCAATAGGAGGAAGAATGTAAATCCTAGCTCCCTGACCA
1 -AAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGAGGAAGATTGTAAATCCTAGCTCCCTGACCA
** *
15979907 GCAGTGGAATAGG-CAAAGACTGT
65 GCAGTGGAATAGGTGGAAGACTGA
*
15979930 AAGTCCCAGCTCC
1 AAGTCCTAGCTCC
15979943 GTGAGCAGTA
Statistics
Matches: 172, Mismatches: 12, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
86 1 0.01
87 99 0.58
88 72 0.42
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.21
Consensus pattern (88 bp):
AAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGAGGAAGATTGTAAATCCTAGCTCCCTGACCAG
CAGTGGAATAGGTGGAAGACTGA
Found at i:15979931 original size:131 final size:131
Alignment explanation
Indices: 15979671--15979942 Score: 377
Period size: 131 Copynumber: 2.1 Consensus size: 131
15979661 AAACTATAAG
* * *
15979671 TCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTATAAATCCTAGCTCCCTGACCAGCAT
1 TCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGACTATAAATCCTAGCTCCCTGAACAGCAG
* * * * *
15979736 TGGAATAGGTGGAAGACTGAAAGTCCTAGCTCCCTGAAAGCAGTGGAATAGGCGGAAGATTGTAA
66 TGCAATAGGAGGAAGAATGAAAGTCCTAGCTCCCTGAAAGCAGTGGAATAGGCGAAAGACTGTAA
15979801 A
131 A
* * * *
15979802 TCCTAGCTTCCTGACCAGCAGTGGAATAGGTGGAAGACTATAAGTCCTAGCTCCCTGAATAGCAG
1 TCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGACTATAAATCCTAGCTCCCTGAACAGCAG
*
15979867 TGCAATAGGAGGAAGAATGTAAA-TCCTAGCTCCCTGACCAGCAGTGGAATAGGC-AAAGACTGT
66 TGCAATAGGAGGAAGAATG-AAAGTCCTAGCTCCCTGA-AAGCAGTGGAATAGGCGAAAGACTGT
*
15979930 AAG
129 AAA
*
15979933 TCCCAGCTCC
1 TCCTAGCTCC
15979943 GTGAGCAGTA
Statistics
Matches: 123, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
131 105 0.85
132 18 0.15
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.21
Consensus pattern (131 bp):
TCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGACTATAAATCCTAGCTCCCTGAACAGCAG
TGCAATAGGAGGAAGAATGAAAGTCCTAGCTCCCTGAAAGCAGTGGAATAGGCGAAAGACTGTAA
A
Found at i:15988982 original size:152 final size:152
Alignment explanation
Indices: 15988704--15989013 Score: 557
Period size: 152 Copynumber: 2.0 Consensus size: 152
15988694 ATATGTGTGA
*
15988704 GATTGATTGATTTTTCTATGAATGATGTTATGATTTAAATGTTTTGAATATTTGATAGTTTTGAG
1 GATTGGTTGATTTTTCTATGAATGATGTTATGATTTAAATGTTTTGAATATTTGATAGTTTTGAG
* * *
15988769 TTGTAAACTTTTGATAATGCTCCGTAACCCTATTCCAACAATGGATACGGGATAAGAGTGTTACA
66 GTGTAAACTTTCGATAATGCTCCGTAACCCTATTCCAACAATGGATACAGGATAAGAGTGTTACA
15988834 CATGGCCGGTCATGGGAAAGGG
131 CATGGCCGGTCATGGGAAAGGG
15988856 GATTGGTTGATTTTTCTATGAATGATGTTATGATTTAAATGTTTTGAATATTTGATAGTTTTGAG
1 GATTGGTTGATTTTTCTATGAATGATGTTATGATTTAAATGTTTTGAATATTTGATAGTTTTGAG
* *
15988921 GTGTAAACTTTCGATAATGCTCCGTAACCCTATTCCAACAATGGGTACAGGATAAGGGTGTTACA
66 GTGTAAACTTTCGATAATGCTCCGTAACCCTATTCCAACAATGGATACAGGATAAGAGTGTTACA
*
15988986 CATGGCCGGTCATGGGAAGGGG
131 CATGGCCGGTCATGGGAAAGGG
15989008 GATTGG
1 GATTGG
15989014 ATGCTATTTT
Statistics
Matches: 151, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
152 151 1.00
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (152 bp):
GATTGGTTGATTTTTCTATGAATGATGTTATGATTTAAATGTTTTGAATATTTGATAGTTTTGAG
GTGTAAACTTTCGATAATGCTCCGTAACCCTATTCCAACAATGGATACAGGATAAGAGTGTTACA
CATGGCCGGTCATGGGAAAGGG
Found at i:15991302 original size:2 final size:2
Alignment explanation
Indices: 15991297--15991357 Score: 115
Period size: 2 Copynumber: 31.0 Consensus size: 2
15991287 TTTTTTCTCT
15991297 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15991339 TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA
15991358 AAGTAAATAG
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 57 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15991918 original size:40 final size:39
Alignment explanation
Indices: 15991871--15991980 Score: 114
Period size: 40 Copynumber: 2.8 Consensus size: 39
15991861 AATGATGGGA
* * *
15991871 AAAATCGAGCATTAGCGGTGCTTTATGGAAAATGCCGCT
1 AAAATCGAGCATTAGCGGCGATTTATGGAAAACGCCGCT
* * * *
15991910 AAAGATCGAACATTAGTGGCGATTTCTGAAAAACGCCGCT
1 AAA-ATCGAGCATTAGCGGCGATTTATGGAAAACGCCGCT
* * *
15991950 AAAA-AGAGCATTAGCGGCGTTTTTTGGAAAA
1 AAAATCGAGCATTAGCGGCGATTTATGGAAAA
15991981 ACACTGCAAA
Statistics
Matches: 57, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
38 21 0.37
39 4 0.07
40 32 0.56
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.25
Consensus pattern (39 bp):
AAAATCGAGCATTAGCGGCGATTTATGGAAAACGCCGCT
Found at i:15992067 original size:41 final size:40
Alignment explanation
Indices: 15992009--15992325 Score: 309
Period size: 41 Copynumber: 7.8 Consensus size: 40
15991999 GTCACCTTTT
* * *
15992009 GGGGCTTTAGTGGCGTTTTTGAGAAAGCGCCGCTAATGCTT
1 GGGGTTTTAGCGGCGTTTTTGA-AAAGCGCCGCTAATGCTA
* *
15992050 GGGGTTTTAGCGACGTTTTTGAAAAAGCGCCGCTAA--CTC
1 GGGGTTTTAGCGGCGTTTTTG-AAAAGCGCCGCTAATGCTA
* *
15992089 GAGGTTTTAGCGGCATTTTTGGAAAAGCGCCGCTAATGCTA
1 GGGGTTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATGCTA
* * *
15992130 GGGGTTTTAGCAGCGGTTTTGCAAATGCGCCGCTAATGCTA
1 GGGGTTTTAGCGGCGTTTTTG-AAAAGCGCCGCTAATGCTA
* * *
15992171 GGGGTTTTAGCGGTGGTTTTGCAAATGCGCCGCTAATGCTA
1 GGGGTTTTAGCGGCGTTTTTG-AAAAGCGCCGCTAATGCTA
* * * * * * *
15992212 AGAGCTTTAACGGCGTTTTTGGAAAAGTGCTGCTAATGCTC
1 GGGGTTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATGCTA
* *
15992253 GGGGTTTTAGCGGCATTTGTGAAAAGGCGCCGCTAATGCT-
1 GGGGTTTTAGCGGCGTTTTTGAAAA-GCGCCGCTAATGCTA
* *
15992293 -CGGTCTTTAGCGGCATTTTTGAAAAAGCGCCGC
1 GGGGT-TTTAGCGGCGTTTTTG-AAAAGCGCCGC
15992326 AAAAAACATT
Statistics
Matches: 232, Mismatches: 35, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
39 36 0.16
40 29 0.12
41 165 0.71
42 2 0.01
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.30
Consensus pattern (40 bp):
GGGGTTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTA
Found at i:15992997 original size:15 final size:15
Alignment explanation
Indices: 15992965--15993029 Score: 57
Period size: 14 Copynumber: 4.5 Consensus size: 15
15992955 TATTTTAAGG
* *
15992965 TTTAGGGGAGTATAGA
1 TTTA-GGGATTATGGA
15992981 TTTAGGGATTATGGA
1 TTTAGGGATTATGGA
15992996 -TTAGGGATTATGG-
1 TTTAGGGATTATGGA
*
15993009 TTTAAGGG-TT-GGGA
1 TTT-AGGGATTATGGA
15993023 TTTAGGG
1 TTTAGGG
15993030 TTTAAGGGTT
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
13 6 0.14
14 20 0.47
15 13 0.30
16 4 0.09
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.37
Consensus pattern (15 bp):
TTTAGGGATTATGGA
Found at i:15993033 original size:21 final size:22
Alignment explanation
Indices: 15992979--15993076 Score: 96
Period size: 21 Copynumber: 4.6 Consensus size: 22
15992969 GGGGAGTATA
* * *
15992979 GATTTAGGGATTATGGATTAGG
1 GATTTAGGGTTTAAGGGTTAGG
*
15993001 GA-TTATGGTTTAAGGGTT-GG
1 GATTTAGGGTTTAAGGGTTAGG
*
15993021 GATTTAGGGTTTAAGGGTTAGA
1 GATTTAGGGTTTAAGGGTTAGG
*
15993043 CATTATA-GG-TTAAGGGTTAGG
1 GATT-TAGGGTTTAAGGGTTAGG
*
15993064 GATTTAAGGTTTA
1 GATTTAGGGTTTA
15993077 GGGATTCAAG
Statistics
Matches: 62, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
20 6 0.10
21 43 0.69
22 11 0.18
23 2 0.03
ACGTcount: A:0.27, C:0.01, G:0.35, T:0.38
Consensus pattern (22 bp):
GATTTAGGGTTTAAGGGTTAGG
Found at i:15993072 original size:15 final size:15
Alignment explanation
Indices: 15993052--15993089 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
15993042 ACATTATAGG
15993052 TTAAGGGTTAGGGAT
1 TTAAGGGTTAGGGAT
*
15993067 TTAAGGTTTAGGGAT
1 TTAAGGGTTAGGGAT
*
15993082 TCAAGGGT
1 TTAAGGGT
15993090 CGGGTTAGGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.26, C:0.03, G:0.37, T:0.34
Consensus pattern (15 bp):
TTAAGGGTTAGGGAT
Found at i:15993134 original size:291 final size:284
Alignment explanation
Indices: 15992602--15993156 Score: 771
Period size: 291 Copynumber: 1.9 Consensus size: 284
15992592 TATCACTATA
*
15992602 GTTTAGGGTTTTTGGTTTAGGGTATATGATTAATTTAAAATTTAAGGCCGGTTTAGGAGTTACTA
1 GTTTAGGGTTTTTGGTTTAGGGTATATGATTAATTTAAAATTTAAGGCCGGTTTAGGAGCTACTA
15992667 TTTTTAGGTTAATTTAGGGATTAGTATGGATTTAGGGATTATGGTTTAAGGGTTGGGATTTAAAG
66 TTTTTAGGTTAATTTAGGGATTA-TATGGATTTAGGGATTATGGTTTAAGGGTTGGG-----AAG
* * * *
15992732 TTTAGGGGTTTAAGTGTTAAACGTTAGGGGTTAGAGTTAGGGATTTAGGGTTTAGGGATTCAAGG
125 TTTAGGGGTTTAAGGGTTAAACATTAGAGGTTAGAGTTAGGGATTTAAGGTTTAGGGATTCAAGG
*
15992797 GTCGGGTTAAGGTTTTGGGTTTAGATTAATTAGTTTTTTGAATTTATATATTAAATATGTTCTTC
190 GTCGGGTTAAGGTTTTGGGTTTAGATTAATTAGTTTTTTGAATTTATATATTAAATATGTTCTTA
15992862 TATAATTGTAAAAAAGATAATAATAAATTT
255 TATAATTGTAAAAAAGATAATAATAAATTT
* *
15992892 GTTTAGGGTTTTTTGTTTAGGGTATATGATTAATTTAAGATTTAAGGCCGGTTTAGGAGCTACTA
1 GTTTAGGGTTTTTGGTTTAGGGTATATGATTAATTTAAAATTTAAGGCCGGTTTAGGAGCTACTA
15992957 TTTTAAGGTTTAGGGGAGTATAGATTTAGGGA-T-TATGGA-TTAGGGATTATGGTTTAAGGGTT
66 --TT----TTTA---G-GT-TA-ATTTAGGGATTATATGGATTTAGGGATTATGGTTTAAGGGTT
* * *
15993019 GGG-A-TTTA-GGGTTTAAGGGTTAGACATTATAGGTTAAGGGTTAGGGATTTAAGGTTTAGGGA
119 GGGAAGTTTAGGGGTTTAAGGGTTAAACATTAGAGGTT-AGAGTTAGGGATTTAAGGTTTAGGGA
* * *
15993081 TTCAAGGGTCGGGTTAGGGTTTTGGGTTTAGATTAATTAGTTTTTTTAATTTATATTTTAAATAT
183 TTCAAGGGTCGGGTTAAGGTTTTGGGTTTAGATTAATTAGTTTTTTGAATTTATATATTAAATAT
15993146 GTTCTTATATA
248 GTTCTTATATA
15993157 TTAATTAAAA
Statistics
Matches: 238, Mismatches: 14, Indels: 25
0.86 0.05 0.09
Matches are distributed among these distances:
290 84 0.35
291 100 0.42
292 3 0.01
296 4 0.02
298 26 0.11
299 7 0.03
300 2 0.01
301 3 0.01
302 9 0.04
ACGTcount: A:0.27, C:0.03, G:0.27, T:0.43
Consensus pattern (284 bp):
GTTTAGGGTTTTTGGTTTAGGGTATATGATTAATTTAAAATTTAAGGCCGGTTTAGGAGCTACTA
TTTTTAGGTTAATTTAGGGATTATATGGATTTAGGGATTATGGTTTAAGGGTTGGGAAGTTTAGG
GGTTTAAGGGTTAAACATTAGAGGTTAGAGTTAGGGATTTAAGGTTTAGGGATTCAAGGGTCGGG
TTAAGGTTTTGGGTTTAGATTAATTAGTTTTTTGAATTTATATATTAAATATGTTCTTATATAAT
TGTAAAAAAGATAATAATAAATTT
Found at i:15996285 original size:38 final size:38
Alignment explanation
Indices: 15996200--15996272 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
15996190 ATCTAATTAC
*
15996200 ATATACAAATATCACGTGTTGAAATTTACTTTGATCAT
1 ATATATAAATATCACGTGTTGAAATTTACTTTGATCAT
* *
15996238 ATATATAAATATCATGTGTCT-AAATTTATTTTGAT
1 ATATATAAATATCACGTGT-TGAAATTTACTTTGAT
15996273 TTTCTATGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
38 30 0.97
39 1 0.03
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.44
Consensus pattern (38 bp):
ATATATAAATATCACGTGTTGAAATTTACTTTGATCAT
Found at i:15997447 original size:31 final size:30
Alignment explanation
Indices: 15997397--15997467 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 30
15997387 ATAAGTTACA
* *
15997397 ATTTAGTTACTAAATTATTCGAAA-GTTTTC
1 ATTTAGTCACTAAACTATTC-AAATGTTTTC
15997427 ATTTATGTCACTAAACTATTCAAATGTTTTC
1 ATTTA-GTCACTAAACTATTCAAATGTTTTC
15997458 ATTCTAGTCA
1 ATT-TAGTCA
15997468 TTGGGTTGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
30 8 0.22
31 26 0.72
32 2 0.06
ACGTcount: A:0.32, C:0.14, G:0.08, T:0.45
Consensus pattern (30 bp):
ATTTAGTCACTAAACTATTCAAATGTTTTC
Found at i:15998073 original size:61 final size:58
Alignment explanation
Indices: 15997969--15998090 Score: 176
Period size: 61 Copynumber: 2.1 Consensus size: 58
15997959 CAATTAAATA
15997969 ACTAAATTGTAATTTTTTTTAATTAACCATAACGAAAATTGATTCTTATTCATAATTTAGTG
1 ACTAAATTGTAATTTTTTTTAATTAACCATAACGAAAATTGATTC----TCATAATTTAGTG
*
15998031 ACTAAATTGTAA-TTTTTTTAATTAACCATAACG-GAATCTGATTCTCATAATTTAGTG
1 ACTAAATTGTAATTTTTTTTAATTAACCATAACGAAAAT-TGATTCTCATAATTTAGTG
15998088 ACT
1 ACT
15998091 TATGTGTAAC
Statistics
Matches: 58, Mismatches: 1, Indels: 7
0.88 0.02 0.11
Matches are distributed among these distances:
57 16 0.28
60 3 0.05
61 27 0.47
62 12 0.21
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.43
Consensus pattern (58 bp):
ACTAAATTGTAATTTTTTTTAATTAACCATAACGAAAATTGATTCTCATAATTTAGTG
Found at i:16006032 original size:88 final size:88
Alignment explanation
Indices: 16005940--16006311 Score: 201
Period size: 88 Copynumber: 4.2 Consensus size: 88
16005930 CCCTAATCAG
* *
16005940 TAGTGGAGTAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCC
1 TAGTGGAGTAGATCGAAGATGGCAGATTTTACCTCCCTGTAGTTACAGTGGAGTACATTGAAGCC
16006005 AGTAATTCTACTTCCCTGGACAA
66 AGTAATTCTACTTCCCTGGACAA
* ** * * * * * *
16006028 TAGTGGAATAGATTC-AAGATTTCAGATCTTATCTCCCTAAGCAG-T--AGTGGAGCAGATCGAA
1 TAGTGGAGTAGA-TCGAAGATGGCAGATTTTACCTCCCT--GTAGTTACAGTGGAGTACATTG--
* * * ***
16006089 AATGGCAG--ATTTTACCTCCCTGTGGTTA
61 AA-GCCAGTAATTCTACTTCCCTG-GACAA
* * *** * * * * ** * *
16006117 TAGTGGAGTACATTGAAGCCAGTA-ATTCTACTTCCCTG-GGCAACAGTGGAATAGATTGAAG--
1 TAGTGGAGTAGATCGAAGATGGCAGATTTTACCTCCCTGTAGTTACAGTGGAGTACATTGAAGCC
* * *
16006178 ATTTCAGATTTTA-TCTCCCT-AAGCAA
66 A-GT-A-ATTCTACT-TCCCTGGA-CAA
* *
16006204 TAGTGGAGTAGATCGAAGATGGCGGGTTTTACCTCCCTGTAGTTACAGTGGAGTACATTGAAGCC
1 TAGTGGAGTAGATCGAAGATGGCAGATTTTACCTCCCTGTAGTTACAGTGGAGTACATTGAAGCC
*
16006269 AGTAATTCTACTTCCCTGGGCAA
66 AGTAATTCTACTTCCCTGGACAA
* * *
16006292 CAGTGGAATAGATTGAAGAT
1 TAGTGGAGTAGATCGAAGAT
16006312 TGTAANNNNN
Statistics
Matches: 199, Mismatches: 61, Indels: 48
0.65 0.20 0.16
Matches are distributed among these distances:
83 1 0.01
85 2 0.01
86 3 0.02
87 29 0.15
88 115 0.58
89 41 0.21
90 7 0.04
91 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (88 bp):
TAGTGGAGTAGATCGAAGATGGCAGATTTTACCTCCCTGTAGTTACAGTGGAGTACATTGAAGCC
AGTAATTCTACTTCCCTGGACAA
Found at i:16006054 original size:132 final size:132
Alignment explanation
Indices: 16005833--16006312 Score: 807
Period size: 132 Copynumber: 3.6 Consensus size: 132
16005823 AATATGGTGC
* * **
16005833 ATTTTACGTCTCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTAAACAACA
1 ATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACA
*
16005898 GTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAATCAGTAGTGGAGTAGATCGAAGATGGC
66 GTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGC
16005963 AG
131 AG
*
16005965 ATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAATA
1 ATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACA
* * *
16006030 GTGGAATAGATTCAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATGGC
66 GTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGC
16006095 AG
131 AG
*
16006097 ATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACA
1 ATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACA
* *
16006162 GTGGAATAGATTGAAGATTTCAGATTTTATCTCCCTAAGCAATAGTGGAGTAGATCGAAGATGGC
66 GTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGC
*
16006227 GG
131 AG
* * * *
16006229 GTTTTACCTCCCTGTAGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACA
1 ATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACA
16006294 GTGGAATAGATTGAAGATT
66 GTGGAATAGATTGAAGATT
16006313 GTAANNNNNN
Statistics
Matches: 328, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 328 1.00
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (132 bp):
ATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACA
GTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGC
AG
Found at i:16006175 original size:43 final size:43
Alignment explanation
Indices: 16006118--16006309 Score: 120
Period size: 44 Copynumber: 4.4 Consensus size: 43
16006108 CTGTGGTTAT
* *
16006118 AGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAAC
1 AGTGGAGTAGATTGAAGCCAGTAATTCTACTTCCCTGAGCAAC
* * * * *
16006161 AGTGGAATAGATTGAAG--ATTTCAGATTTTA-TCTCCCTAAGCAAT
1 AGTGGAGTAGATTGAAGCCA-GT-A-ATTCTACT-TCCCTGAGCAAC
* *** *** * * **
16006205 AGTGGAGTAGATCGAAGATGGCGGGTTTTACCTCCCTGTAGTTAC
1 AGTGGAGTAGATTGAAGCCAG-TAATTCTACTTCCCTG-AGCAAC
* *
16006250 AGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAAC
1 AGTGGAGTAGATTGAAGCCAGTAATTCTACTTCCCTGAGCAAC
*
16006293 AGTGGAATAGATTGAAG
1 AGTGGAGTAGATTGAAG
16006310 ATTGTAANNN
Statistics
Matches: 106, Mismatches: 34, Indels: 18
0.67 0.22 0.11
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 35 0.33
44 50 0.47
45 19 0.18
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (43 bp):
AGTGGAGTAGATTGAAGCCAGTAATTCTACTTCCCTGAGCAAC
Found at i:16006209 original size:44 final size:44
Alignment explanation
Indices: 16005885--16006223 Score: 174
Period size: 44 Copynumber: 7.7 Consensus size: 44
16005875 TAATTCTACT
* * * *
16005885 TCCCTAAACAACAGTGGAATAGATTGAAGATTTCAGATCTTATC
1 TCCCTAAGCAATAGTGGAGTAGATTGAAGATTTCAGATTTTATC
* * * ** *
16005929 TCCCTAATCAGTAGTGGAGTAGATCGAAGATGGCAGATTTTACC
1 TCCCTAAGCAATAGTGGAGTAGATTGAAGATTTCAGATTTTATC
** ** * * *
16005973 TCCCTGTGGTTATAGTGGAGTACATTGAAG---CCAGTAATTCTA-C
1 TCCCT-AAGCAATAGTGGAGTAGATTGAAGATTTCAG--ATTTTATC
* * * *
16006016 TTCCCT-GGACAATAGTGGAATAGATTCAAGATTTCAGATCTTATC
1 -TCCCTAAG-CAATAGTGGAGTAGATTGAAGATTTCAGATTTTATC
* * * * ** *
16006061 TCCCTAAGCAGTAGTGGAGCAGATCGAAAATGGCAGATTTTACC
1 TCCCTAAGCAATAGTGGAGTAGATTGAAGATTTCAGATTTTATC
** ** * * *
16006105 TCCCTGTGGTTATAGTGGAGTACATTGAAG---CCAGTAATTCTA-C
1 TCCCT-AAGCAATAGTGGAGTAGATTGAAGATTTCAG--ATTTTATC
** * *
16006148 TTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATTTTATC
1 -TCCCTAAGCAATAGTGGAGTAGATTGAAGATTTCAGATTTTATC
*
16006193 TCCCTAAGCAATAGTGGAGTAGATCGAAGAT
1 TCCCTAAGCAATAGTGGAGTAGATTGAAGAT
16006224 GGCGGGTTTT
Statistics
Matches: 215, Mismatches: 62, Indels: 36
0.69 0.20 0.12
Matches are distributed among these distances:
42 8 0.04
43 36 0.17
44 131 0.61
45 34 0.16
46 6 0.03
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (44 bp):
TCCCTAAGCAATAGTGGAGTAGATTGAAGATTTCAGATTTTATC
Found at i:16007564 original size:3 final size:3
Alignment explanation
Indices: 16007496--16007546 Score: 84
Period size: 3 Copynumber: 16.7 Consensus size: 3
16007486 TTTTTTAAAT
*
16007496 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTTA GTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
16007542 TTA TT
1 TTA TT
16007547 GGTATTGTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 42 0.93
4 3 0.07
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:16007782 original size:2 final size:2
Alignment explanation
Indices: 16007775--16007808 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
16007765 TTTAATTATT
16007775 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16007809 CGTATGTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16007906 original size:14 final size:14
Alignment explanation
Indices: 16007889--16007919 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
16007879 CATATACATA
16007889 TTTATTTATTTATT
1 TTTATTTATTTATT
16007903 TTTATTTATTTATT
1 TTTATTTATTTATT
16007917 TTT
1 TTT
16007920 TAATATGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTATTTATTTATT
Found at i:16008161 original size:13 final size:14
Alignment explanation
Indices: 16008127--16008163 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
16008117 TGCTTTCATA
16008127 TATATTCATTTCGTT
1 TATATT-ATTTCGTT
16008142 TAT-TTATTT-GTT
1 TATATTATTTCGTT
16008154 TATATTATTT
1 TATATTATTT
16008164 TTATGCTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 10 0.48
14 2 0.10
15 3 0.14
ACGTcount: A:0.22, C:0.05, G:0.05, T:0.68
Consensus pattern (14 bp):
TATATTATTTCGTT
Found at i:16008194 original size:15 final size:15
Alignment explanation
Indices: 16008170--16008203 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
16008160 ATTTTTATGC
16008170 TATTGATGTATTTAT
1 TATTGATGTATTTAT
*
16008185 TATTGTTGTATTTAT
1 TATTGATGTATTTAT
16008200 TATT
1 TATT
16008204 ATAGCATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.65
Consensus pattern (15 bp):
TATTGATGTATTTAT
Found at i:16017943 original size:27 final size:27
Alignment explanation
Indices: 16017907--16017997 Score: 103
Period size: 27 Copynumber: 3.3 Consensus size: 27
16017897 AATCAATAAA
*
16017907 ATTAGAAAAAATATATATATAGAAAAT
1 ATTATAAAAAATATATATATAGAAAAT
16017934 ATTATAAAAAATATATATATAGGAAAAAT
1 ATTATAAAAAATATATATATA-G-AAAAT
* * *
16017963 ATTATAAAATATAAAAGATATAGAAAA-
1 ATTATAAAAAAT-ATATATATAGAAAAT
16017990 ATTTATAA
1 A-TTATAA
16017998 GAAGATCCTA
Statistics
Matches: 56, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
27 21 0.38
28 11 0.20
29 17 0.30
30 7 0.12
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.31
Consensus pattern (27 bp):
ATTATAAAAAATATATATATAGAAAAT
Found at i:16017954 original size:29 final size:29
Alignment explanation
Indices: 16017912--16017997 Score: 90
Period size: 29 Copynumber: 3.0 Consensus size: 29
16017902 ATAAAATTAG
16017912 AAAAA-ATATATATATAGAAAATATTATA
1 AAAAATATATATATATAGAAAATATTATA
*
16017940 AAAAATATATATATA-GGAAAAATATTATA
1 AAAAATATATATATATAG-AAAATATTATA
* * *
16017969 AAATATA-AAAGATATAGAAAA-ATTTATA
1 AAAAATATATATATATAGAAAATA-TTATA
16017997 A
1 A
16017998 GAAGATCCTA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
27 1 0.02
28 21 0.43
29 27 0.55
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (29 bp):
AAAAATATATATATATAGAAAATATTATA
Found at i:16018202 original size:30 final size:31
Alignment explanation
Indices: 16018167--16018236 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 31
16018157 AGAGAATTAT
* * *
16018167 TAAAAAAATATAAAAATTGTTTTAAAATATA
1 TAAAAAAATAGAAAAATTATTATAAAATATA
* *
16018198 -AAAAATATAGAAAAATTATTATAAAATGTA
1 TAAAAAAATAGAAAAATTATTATAAAATATA
16018228 TAAAAAAAT
1 TAAAAAAAT
16018237 TCCCCCCTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
30 25 0.78
31 7 0.22
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.31
Consensus pattern (31 bp):
TAAAAAAATAGAAAAATTATTATAAAATATA
Found at i:16018222 original size:23 final size:23
Alignment explanation
Indices: 16018194--16018237 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
16018184 TGTTTTAAAA
*
16018194 TATAAAAAATATAGAAAAATTAT
1 TATAAAAAATATAAAAAAATTAT
**
16018217 TATAAAATGTATAAAAAAATT
1 TATAAAAAATATAAAAAAATT
16018238 CCCCCCTTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.32
Consensus pattern (23 bp):
TATAAAAAATATAAAAAAATTAT
Found at i:16018745 original size:17 final size:20
Alignment explanation
Indices: 16018712--16018762 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 20
16018702 TGATAATTAT
16018712 ATTT-TATATTTTATAAT-A
1 ATTTATATATTTTATAATAA
*
16018730 GTTTA-ATATTTT-TAATAA
1 ATTTATATATTTTATAATAA
16018748 ATTTATATATTTTAT
1 ATTTATATATTTTAT
16018763 TGTTATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
17 4 0.15
18 15 0.56
19 7 0.26
20 1 0.04
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
ATTTATATATTTTATAATAA
Found at i:16019199 original size:19 final size:21
Alignment explanation
Indices: 16019171--16019211 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
16019161 CTGTTTACGT
*
16019171 TGGTGTTAAT-TATAT-TATA
1 TGGTGATAATATATATATATA
16019190 TGGTGATAATATATATATATA
1 TGGTGATAATATATATATATA
16019211 T
1 T
16019212 ATATTCTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 5 0.26
21 5 0.26
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.49
Consensus pattern (21 bp):
TGGTGATAATATATATATATA
Found at i:16020899 original size:18 final size:17
Alignment explanation
Indices: 16020872--16020905 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
16020862 ACAACATAAT
*
16020872 TTATTAAATTGTTTTTA
1 TTATTAAATTATTTTTA
16020889 TTATATAAATTATTTTT
1 TTAT-TAAATTATTTTT
16020906 TAACACATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (17 bp):
TTATTAAATTATTTTTA
Found at i:16022877 original size:2 final size:2
Alignment explanation
Indices: 16022870--16022910 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
16022860 AACATGATTC
16022870 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16022911 TCAATTGTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:16023160 original size:36 final size:35
Alignment explanation
Indices: 16023114--16023206 Score: 96
Period size: 36 Copynumber: 2.6 Consensus size: 35
16023104 TACTCTCTGA
* *
16023114 TTGGCGTGTTTCGGTTGGACTAGCTCTTATGAGCAT
1 TTGGTGTGTTT-GGTTGGACTAGCTCGTATGAGCAT
** * *
16023150 TTGGTGTGTTTTGGAGGGATTGGCTCGTATGAGCAT
1 TTGGTGTG-TTTGGTTGGACTAGCTCGTATGAGCAT
*
16023186 TGGGTGTGTTATGGTTGGACT
1 TTGGTGTGTT-TGGTTGGACT
16023207 GACGATATGC
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
35 2 0.04
36 40 0.89
37 3 0.07
ACGTcount: A:0.13, C:0.11, G:0.37, T:0.40
Consensus pattern (35 bp):
TTGGTGTGTTTGGTTGGACTAGCTCGTATGAGCAT
Found at i:16024210 original size:43 final size:43
Alignment explanation
Indices: 16024160--16024244 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
16024150 CACGAGCATG
*
16024160 TGTCTCAGCCGTGTGAGTCACACGGCCTCG-CTACACGGGCGTA
1 TGTCTCAGCCGTGTGAGTCACACGGCC-CGACCACACGGGCGTA
* *
16024203 TGTCTCAGCCGTTTGAGTCATACGGCCCGACCACACGGGCGT
1 TGTCTCAGCCGTGTGAGTCACACGGCCCGACCACACGGGCGT
16024245 GTGACCCCTG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 2 0.05
43 36 0.95
ACGTcount: A:0.16, C:0.33, G:0.29, T:0.21
Consensus pattern (43 bp):
TGTCTCAGCCGTGTGAGTCACACGGCCCGACCACACGGGCGTA
Found at i:16026528 original size:114 final size:114
Alignment explanation
Indices: 16026328--16026771 Score: 602
Period size: 114 Copynumber: 3.9 Consensus size: 114
16026318 CCATTCGGGG
* * * * *
16026328 CTTTAGCGACGATTTTGTGGAAGCGCTGCAAATAAACCGAAGCCCAACGATGCCATTTTCTGAGC
1 CTTTAGCGGCGTTTTTGAGGAAGCGCCGCAAATAAACCGAAGCCCAACGACGCCATTTTCTGAGC
* * * *
16026393 ATTCGGAGATTTAGTGGCGTTTTCGGTGAAGCGCAGCTAATGCTCAGGA
66 ATTCGGGGATTTAGCGGCGTTTTCGGTAAAGCGCCGCTAATGCTCAGGA
* * * *
16026442 CTTTAGCGGCGTTTTTGAGTAAGCGTCGCAAATAAACCGAAGGCCAACGACGCCGTTTTCTGAGC
1 CTTTAGCGGCGTTTTTGAGGAAGCGCCGCAAATAAACCGAAGCCCAACGACGCCATTTTCTGAGC
* *
16026507 ATTCGAGGATTTAGCGGCGTTTTTGGTAAAGCGCCGCTAATGCTCAGGA
66 ATTCGGGGATTTAGCGGCGTTTTCGGTAAAGCGCCGCTAATGCTCAGGA
*
16026556 CTTTAGCGGCGTTTTTGAGTAAGCGCCGCAAATAAACCGAAGCCCAACGACGCCATTTTCTGAGC
1 CTTTAGCGGCGTTTTTGAGGAAGCGCCGCAAATAAACCGAAGCCCAACGACGCCATTTTCTGAGC
*
16026621 ATTCGGGGATTTAACGGCGTTTTCGGTAAAGCGCCGCTAATGCTCAGGA
66 ATTCGGGGATTTAGCGGCGTTTTCGGTAAAGCGCCGCTAATGCTCAGGA
* * * * * * * *
16026670 CTCTAGCGGCGTTTTTTGTGGAAGCGCCGTAAA-AAGCCTAAGCCCAATGATGCCGTTTTCTGAG
1 CTTTAGCGGCG-TTTTTGAGGAAGCGCCGCAAATAAACCGAAGCCCAACGACGCCATTTTCTGAG
* * * * *
16026734 CATTTGGGGATTTAGCTGCGTTTTTGATGAAGCGCCGC
65 CATTCGGGGATTTAGCGGCGTTTTCGGTAAAGCGCCGC
16026772 AAAATAATTA
Statistics
Matches: 293, Mismatches: 36, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
114 275 0.94
115 18 0.06
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (114 bp):
CTTTAGCGGCGTTTTTGAGGAAGCGCCGCAAATAAACCGAAGCCCAACGACGCCATTTTCTGAGC
ATTCGGGGATTTAGCGGCGTTTTCGGTAAAGCGCCGCTAATGCTCAGGA
Found at i:16028156 original size:147 final size:146
Alignment explanation
Indices: 16028005--16028311 Score: 325
Period size: 147 Copynumber: 2.1 Consensus size: 146
16027995 TGTAATTATG
* ** * *
16028005 TTTATTGAAATGTAGTT-GTTTTGTCTATGGTATTTGTGGCG-TTTTTCAGGAAACGCCACAAGC
1 TTTATTGAAACG-A-TTCGTTTTGTAAATGGTATTCGTGGCGATTTTT-AGAAAACGCCACAAGC
* * *
16028068 TTGA-GTAAACTGTTGGGGAAACGACTTCG-TTTGAACTTATATTTAGTGGCGCTTTACTTAAAA
63 TTGAGGT-AACTGTTGAGGAAACGACTGCGTTTTG-ACTTATAGTTAGTGGCGCTTTACTTAAAA
**
16028131 CGCCGCAAAGTTGTTCTAACA
126 CGCCGCAAAAATGTTCTAACA
* * * * *
16028152 TTTATAGAAACGATTCCGTTTTGTAAATGTTATTCGTGGCGATTTTTTGAAAACGCCACCAGTTT
1 TTTATTGAAACGATT-CGTTTTGTAAATGGTATTCGTGGCGATTTTTAGAAAACGCCACAAGCTT
* * * * * *
16028217 GAGGTAAGTGTTGATGAAGCGACTGCGTTTTGATTTATAGTTAGTGGCGCTTTGCTTAAAATGCC
65 GAGGTAACTGTTGAGGAAACGACTGCGTTTTGACTTATAGTTAGTGGCGCTTTACTTAAAACGCC
*
16028282 GCAAAAATGTTTTAACA
130 GCAAAAATGTTCTAACA
*
16028299 TTTATTGATACGA
1 TTTATTGAAACGA
16028312 GGCCGTTTTG
Statistics
Matches: 131, Mismatches: 24, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
145 2 0.02
146 1 0.01
147 117 0.89
148 11 0.08
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (146 bp):
TTTATTGAAACGATTCGTTTTGTAAATGGTATTCGTGGCGATTTTTAGAAAACGCCACAAGCTTG
AGGTAACTGTTGAGGAAACGACTGCGTTTTGACTTATAGTTAGTGGCGCTTTACTTAAAACGCCG
CAAAAATGTTCTAACA
Found at i:16028492 original size:49 final size:49
Alignment explanation
Indices: 16028412--16028515 Score: 113
Period size: 49 Copynumber: 2.1 Consensus size: 49
16028402 TATATAATGT
* * *
16028412 AGGTTATTATATATTTAGTTTATCATATTTGGTTTA-GGTTTAGGGTATTA
1 AGGTTATTATATAATTA-TTTATCATATTTGGATTACAGTTTAGGGT-TTA
* * *
16028462 GGGTTCATTATATAATT-TTTATTATGTTTGGATTACAGTTTAGGGTTTA
1 AGGTT-ATTATATAATTATTTATCATATTTGGATTACAGTTTAGGGTTTA
16028511 AGGTT
1 AGGTT
16028516 TACGATGTAG
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
49 22 0.49
50 13 0.29
51 10 0.22
ACGTcount: A:0.25, C:0.03, G:0.21, T:0.51
Consensus pattern (49 bp):
AGGTTATTATATAATTATTTATCATATTTGGATTACAGTTTAGGGTTTA
Found at i:16028526 original size:21 final size:21
Alignment explanation
Indices: 16028502--16028550 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
16028492 GATTACAGTT
16028502 TAGGGTTTAAG-GTTTACGATG
1 TAGGGTTT-AGTGTTTACGATG
* *
16028523 TA-GGTTTAGTGTTTTCGATT
1 TAGGGTTTAGTGTTTACGATG
16028543 TAGGGTTT
1 TAGGGTTT
16028551 GAGAGTTTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 2 0.08
20 15 0.62
21 7 0.29
ACGTcount: A:0.18, C:0.04, G:0.31, T:0.47
Consensus pattern (21 bp):
TAGGGTTTAGTGTTTACGATG
Found at i:16031265 original size:15 final size:16
Alignment explanation
Indices: 16031229--16031272 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
16031219 TATAAATATT
* *
16031229 TATATACATATTTAATA
1 TATATA-ATTTTTAAAA
16031246 TATAT-ATTTTTAAAA
1 TATATAATTTTTAAAA
16031261 TATATAATTTTT
1 TATATAATTTTT
16031273 TCAAGATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 13 0.54
16 6 0.25
17 5 0.21
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (16 bp):
TATATAATTTTTAAAA
Found at i:16031341 original size:12 final size:12
Alignment explanation
Indices: 16031324--16031380 Score: 53
Period size: 12 Copynumber: 4.6 Consensus size: 12
16031314 TTATCAATAA
16031324 TATATAATAACT
1 TATATAATAACT
16031336 TATATAATAACAT
1 TATATAATAAC-T
*
16031349 ACAATATAATAACT
1 --TATATAATAACT
*
16031363 TATA-CATAACT
1 TATATAATAACT
*
16031374 TAAATAA
1 TATATAA
16031381 CATACAATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
11 9 0.25
12 15 0.42
13 1 0.03
14 1 0.03
15 10 0.28
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (12 bp):
TATATAATAACT
Found at i:16031398 original size:35 final size:33
Alignment explanation
Indices: 16031341--16031410 Score: 97
Period size: 35 Copynumber: 2.1 Consensus size: 33
16031331 TAACTTATAT
16031341 AATAACATACAATATAATAACTTATACATAACTTA
1 AATAACATACAATATAATAAC-T-TACATAACTTA
*
16031376 AATAACATACAATAT-ATAAACTTGCATAACTTA
1 AATAACATACAATATAAT-AACTTACATAACTTA
16031409 AA
1 AA
16031411 GAATTATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
33 12 0.36
34 3 0.09
35 18 0.55
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.30
Consensus pattern (33 bp):
AATAACATACAATATAATAACTTACATAACTTA
Found at i:16031578 original size:23 final size:23
Alignment explanation
Indices: 16031550--16031593 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
16031540 CTTATATGTA
16031550 AACTTACATAATACATAACTTTT
1 AACTTACATAATACATAACTTTT
16031573 AACTTACATAATACATAACTT
1 AACTTACATAATACATAACTT
16031594 ATAAATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.36
Consensus pattern (23 bp):
AACTTACATAATACATAACTTTT
Found at i:16031734 original size:9 final size:9
Alignment explanation
Indices: 16031702--16032062 Score: 271
Period size: 9 Copynumber: 41.8 Consensus size: 9
16031692 ATAACATAAC
16031702 AACTTACAT
1 AACTTACAT
16031711 AA--TACAT
1 AACTTACAT
* *
16031718 AGCATACAT
1 AACTTACAT
16031727 AACTTACAT
1 AACTTACAT
*
16031736 AA--TACAA
1 AACTTACAT
16031743 AACTTACAT
1 AACTTACAT
*
16031752 AACTTAAAT
1 AACTTACAT
* *
16031761 ATCTTACAC
1 AACTTACAT
16031770 AACTTACAT
1 AACTTACAT
*
16031779 AACCTACAT
1 AACTTACAT
16031788 AA--TACATTT
1 AACTTACA--T
16031797 AACTTACAT
1 AACTTACAT
16031806 AACTTACAT
1 AACTTACAT
16031815 AACTTACAT
1 AACTTACAT
*
16031824 ACTACATA-AT
1 A--ACTTACAT
16031834 AACTTAC--
1 AACTTACAT
16031841 AACTTACAT
1 AACTTACAT
*
16031850 AACATACAT
1 AACTTACAT
* **
16031859 TACTTTGAT
1 AACTTACAT
16031868 AACTTACAT
1 AACTTACAT
16031877 AACTTACAT
1 AACTTACAT
*
16031886 ACTACATA-AT
1 A--ACTTACAT
16031896 AACTTAC--
1 AACTTACAT
16031903 AACTTACAT
1 AACTTACAT
*
16031912 AACATACAT
1 AACTTACAT
* **
16031921 TACTTTGAT
1 AACTTACAT
16031930 AACTTACAT
1 AACTTACAT
16031939 AACTTACAT
1 AACTTACAT
*
16031948 AA-TT-CAC
1 AACTTACAT
16031955 AACTTACAT
1 AACTTACAT
* *
16031964 AGCTTACTT
1 AACTTACAT
16031973 AA--TACAT
1 AACTTACAT
16031980 AACTTACAT
1 AACTTACAT
*
16031989 AA--TACAC
1 AACTTACAT
16031996 AACTTACAT
1 AACTTACAT
* *
16032005 AGCTTACTT
1 AACTTACAT
16032014 AA--TACAT
1 AACTTACAT
16032021 AACTTACAT
1 AACTTACAT
16032030 AA--TACAT
1 AACTTACAT
* *
16032037 ACACGTATAT
1 A-ACTTACAT
16032047 AACTTACAT
1 AACTTACAT
*
16032056 AATTTAC
1 AACTTAC
16032063 TTAATTTATA
Statistics
Matches: 275, Mismatches: 48, Indels: 58
0.72 0.13 0.15
Matches are distributed among these distances:
7 58 0.21
8 13 0.05
9 181 0.66
10 11 0.04
11 12 0.04
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.33
Consensus pattern (9 bp):
AACTTACAT
Found at i:16031873 original size:62 final size:62
Alignment explanation
Indices: 16031804--16031948 Score: 290
Period size: 62 Copynumber: 2.3 Consensus size: 62
16031794 TTTAACTTAC
16031804 ATAACTTACATAACTTACATACTACATAATAACTTACAACTTACATAACATACATTACTTTG
1 ATAACTTACATAACTTACATACTACATAATAACTTACAACTTACATAACATACATTACTTTG
16031866 ATAACTTACATAACTTACATACTACATAATAACTTACAACTTACATAACATACATTACTTTG
1 ATAACTTACATAACTTACATACTACATAATAACTTACAACTTACATAACATACATTACTTTG
16031928 ATAACTTACATAACTTACATA
1 ATAACTTACATAACTTACATA
16031949 ATTCACAACT
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 83 1.00
ACGTcount: A:0.44, C:0.21, G:0.01, T:0.34
Consensus pattern (62 bp):
ATAACTTACATAACTTACATACTACATAATAACTTACAACTTACATAACATACATTACTTTG
Found at i:16031961 original size:25 final size:25
Alignment explanation
Indices: 16031901--16031990 Score: 90
Period size: 25 Copynumber: 3.5 Consensus size: 25
16031891 ATAATAACTT
* * *
16031901 ACAACTTACATAACATACATTACTTTG
1 ACAACTTACATAACTTACA-TA-ATTC
*
16031928 ATAACTTACATAACTTACATAATTC
1 ACAACTTACATAACTTACATAATTC
* * *
16031953 ACAACTTACATAGCTTACTTAATAC
1 ACAACTTACATAACTTACATAATTC
*
16031978 ATAACTTACATAA
1 ACAACTTACATAA
16031991 TACACAACTT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
25 34 0.64
26 2 0.04
27 17 0.32
ACGTcount: A:0.43, C:0.21, G:0.02, T:0.33
Consensus pattern (25 bp):
ACAACTTACATAACTTACATAATTC
Found at i:16032003 original size:25 final size:25
Alignment explanation
Indices: 16031975--16032031 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
16031965 GCTTACTTAA
16031975 TACATAACTTACATAATACACAACT
1 TACATAACTTACATAATACACAACT
* * *
16032000 TACATAGCTTACTTAATACATAACT
1 TACATAACTTACATAATACACAACT
16032025 TACATAA
1 TACATAA
16032032 TACATACACG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.32
Consensus pattern (25 bp):
TACATAACTTACATAATACACAACT
Found at i:16032026 original size:16 final size:16
Alignment explanation
Indices: 16032000--16032037 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
16031990 ATACACAACT
* *
16032000 TACATAGCTTACTTAA
1 TACATAACTTACATAA
16032016 TACATAACTTACATAA
1 TACATAACTTACATAA
16032032 TACATA
1 TACATA
16032038 CACGTATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.45, C:0.18, G:0.03, T:0.34
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:16037306 original size:43 final size:41
Alignment explanation
Indices: 16037272--16037569 Score: 355
Period size: 43 Copynumber: 7.0 Consensus size: 41
16037262 GTTCGTGATG
*
16037272 AAAGCGCCGCTAAAGAACATGATCTATAGCGGCGTTTTTTT
1 AAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
* *
16037313 ACCAAGCGTCGCTAAAGAACATGATCTATAGCGGCGTTTTTTT
1 A--AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
16037356 ACCAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTTTT
1 A--AAGCGCCGCTAAAGAACATGATCTTTAGCGGCG--TTTTTTT
* * *
16037401 TAAGCGCCGCTAAAGAGCATGATCTTTAGCGGCATTTTTTTGT
1 AAAGCGCCGCTAAAGAACATGATCTTTAGCGGC-GTTTTTT-T
* *
16037444 TAAGCGCCGCTAAAGAACAAGATCTTTAGCGGCGTTTTTTT
1 AAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
* * *
16037485 CCAAAGTGCTGCTAAAGAACATGATCTTTAGTGGCGTCTTTTTTT
1 --AAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG--TTTTTTT
* * *
16037530 TAA-TGCCACTAAAGAACATGATCTTTAGCGGCGTTTTTTT
1 AAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
16037570 CTATAAACGC
Statistics
Matches: 229, Mismatches: 18, Indels: 21
0.85 0.07 0.08
Matches are distributed among these distances:
40 7 0.03
41 2 0.01
42 39 0.17
43 167 0.73
45 14 0.06
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (41 bp):
AAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
Found at i:16037363 original size:86 final size:84
Alignment explanation
Indices: 16037273--16037570 Score: 393
Period size: 86 Copynumber: 3.5 Consensus size: 84
16037263 TTCGTGATGA
*
16037273 AAGCGCCGCTAAAGAACATGATCTATAGCGGCGTTTTTTTACCAAGCGTCGCTAAAGAACATGAT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT-CCAAGCGTCGCTAAAGAACATGAT
* **
16037338 CTATAGCGGCGTTTTTTTACC
65 CTTTAGCGGCGTTTTTTT-TT
** * *
16037359 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTTTTTAAGCGCCGCTAAAGAGCATGAT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGT-TTTTTTCCAAGCGTCGCTAAAGAACATGAT
*
16037424 CTTTAGCGGCATTTTTTTGTT
65 CTTTAGCGGCGTTTTTTT-TT
* *
16037445 AAGCGCCGCTAAAGAACAAGATCTTTAGCGGCGTTTTTTTCCAA-AGTGCTGCTAAAGAACATGA
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCCAAGCGT-C-GCTAAAGAACATGA
*
16037509 TCTTTAGTGGCGTCTTTTTTTT
64 TCTTTAGCGGCGT-TTTTTTTT
* *
16037531 AA-TGCCACTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
16037571 TATAAACGCT
Statistics
Matches: 187, Mismatches: 21, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
84 1 0.01
85 44 0.24
86 130 0.70
87 12 0.06
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (84 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCCAAGCGTCGCTAAAGAACATGATC
TTTAGCGGCGTTTTTTTTT
Found at i:16037449 original size:129 final size:129
Alignment explanation
Indices: 16037273--16037569 Score: 445
Period size: 129 Copynumber: 2.3 Consensus size: 129
16037263 TTCGTGATGA
* * *
16037273 AAGCGCCGCTAAAGAACATGATCTATAGCGGCGTTTTTTTACCAAGCGTCGCTAAAGAACATGAT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTACCAAGCGCCGCTAAAGAACAAGAT
16037338 CTATAGCGGCGTTTTTTTACC-AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTTTTT
66 CTATAGCGGCGTTTTTTT-CCAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTTTTT
* * ***
16037402 AAGCGCCGCTAAAGAGCATGATCTTTAGCGGCATTTTTTTGTTAAGCGCCGCTAAAGAACAAGAT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTACCAAGCGCCGCTAAAGAACAAGAT
* * * *
16037467 CTTTAGCGGCGTTTTTTTCCAAAGTGCTGCTAAAGAACATGATCTTTAGTGGCGTCTTTTTTTT
66 CTATAGCGGCGTTTTTTTCCAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTTTTT
* *
16037531 AA-TGCCACTAAAGAACATGATCTTTAGCGGCGTTTTTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
16037570 CTATAAACGC
Statistics
Matches: 151, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
128 35 0.23
129 116 0.77
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (129 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTACCAAGCGCCGCTAAAGAACAAGAT
CTATAGCGGCGTTTTTTTCCAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTTTTT
Found at i:16037702 original size:22 final size:22
Alignment explanation
Indices: 16037659--16037702 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
16037649 TACTGGCGCT
* * **
16037659 AAAAAGCGCTGCTAAAGGCCTA
1 AAAAAACGCCGCTAAAAACCTA
16037681 AAAAAACGCCGCTAAAAACCTA
1 AAAAAACGCCGCTAAAAACCTA
16037703 TTCTGGTGTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.25, G:0.16, T:0.11
Consensus pattern (22 bp):
AAAAAACGCCGCTAAAAACCTA
Found at i:16039721 original size:61 final size:61
Alignment explanation
Indices: 16039627--16039753 Score: 155
Period size: 61 Copynumber: 2.1 Consensus size: 61
16039617 AATTTTTTAA
* * * * * * **
16039627 TTTTTAGAGTTAGGACTAAATTGGCAGATTTTGTAAATGTTGAGGGCCAAATTTATTGAAT
1 TTTTTAGAATTAGAACTAAAATGACAAAATTTGTAAACATTGAGGGCCAAATTTATTGAAT
* * *
16039688 TTTTTAGAATTAGAACTAAAATGACAAAATTTGTAAACATTTAGGGCTAAATTTGTTGAAT
1 TTTTTAGAATTAGAACTAAAATGACAAAATTTGTAAACATTGAGGGCCAAATTTATTGAAT
16039749 TTTTT
1 TTTTT
16039754 TATATTTAGG
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
61 55 1.00
ACGTcount: A:0.35, C:0.06, G:0.18, T:0.41
Consensus pattern (61 bp):
TTTTTAGAATTAGAACTAAAATGACAAAATTTGTAAACATTGAGGGCCAAATTTATTGAAT
Found at i:16043647 original size:9 final size:9
Alignment explanation
Indices: 16043615--16043681 Score: 75
Period size: 9 Copynumber: 7.4 Consensus size: 9
16043605 GTAGTGATTC
16043615 AATTCGGTT
1 AATTCGGTT
16043624 AATTCAGG-T
1 AATTC-GGTT
*
16043633 AATTCGGGT
1 AATTCGGTT
16043642 AATTCGGTT
1 AATTCGGTT
*
16043651 AATCCGAG-T
1 AATTCG-GTT
*
16043660 AATTAGGTT
1 AATTCGGTT
16043669 AATTCGGTT
1 AATTCGGTT
16043678 AATT
1 AATT
16043682 TTTAACCAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
8 3 0.06
9 43 0.88
10 3 0.06
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.39
Consensus pattern (9 bp):
AATTCGGTT
Found at i:16043647 original size:27 final size:28
Alignment explanation
Indices: 16043615--16043681 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 28
16043605 GTAGTGATTC
*
16043615 AATTCGGTTAATTCAG-GTAATTCGGGT
1 AATTCGGTTAATTCAGAGTAATTAGGGT
* *
16043642 AATTCGGTTAA-TCCGAGTAATTAGGTT
1 AATTCGGTTAATTCAGAGTAATTAGGGT
16043669 AATTCGGTTAATT
1 AATTCGGTTAATT
16043682 TTTAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 3 0.09
27 31 0.89
28 1 0.03
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.39
Consensus pattern (28 bp):
AATTCGGTTAATTCAGAGTAATTAGGGT
Found at i:16046737 original size:24 final size:24
Alignment explanation
Indices: 16046721--16046766 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
16046711 TAATCATAGT
16046721 TAAATATATTATGTTAATAAATGC
1 TAAATATATTATGTTAATAAATGC
*
16046745 TAAATATATTATGTTCATAAAT
1 TAAATATATTATGTTAATAAAT
16046767 AATAAATCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (24 bp):
TAAATATATTATGTTAATAAATGC
Found at i:16046772 original size:24 final size:24
Alignment explanation
Indices: 16046721--16046773 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
16046711 TAATCATAGT
**
16046721 TAAATATATTATGTTAATAAATGC
1 TAAATATATTATGTTAATAAATAA
*
16046745 TAAATATATTATGTTCATAAATAA
1 TAAATATATTATGTTAATAAATAA
16046769 TAAAT
1 TAAAT
16046774 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.42
Consensus pattern (24 bp):
TAAATATATTATGTTAATAAATAA
Found at i:16048265 original size:56 final size:56
Alignment explanation
Indices: 16048148--16048266 Score: 154
Period size: 56 Copynumber: 2.1 Consensus size: 56
16048138 GAAGAGGAGG
* *
16048148 AAGAAGAAATATTGTTAGATATCTTGCAAAAATTAATACCTAAATTAGAATAAAAGG
1 AAGAA-AAATATTGTTAGATATCTTGCAAAAATTAATACCTAAATCAGAATAAAAGA
*
16048205 AAGAAAAATGTTGTTAGATATCTTG-AATAAATTAATACCTAAATCA-AA-AAGAAGAA
1 AAGAAAAATATTGTTAGATATCTTGCAA-AAATTAATACCTAAATCAGAATAA-AAG-A
16048261 AAGAAA
1 AAGAAA
16048267 GAAACATTTA
Statistics
Matches: 56, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
54 2 0.04
55 7 0.12
56 42 0.75
57 5 0.09
ACGTcount: A:0.54, C:0.07, G:0.13, T:0.26
Consensus pattern (56 bp):
AAGAAAAATATTGTTAGATATCTTGCAAAAATTAATACCTAAATCAGAATAAAAGA
Found at i:16053694 original size:21 final size:21
Alignment explanation
Indices: 16053670--16053709 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
16053660 CACCTAAAGT
*
16053670 GGTATTGCAATATCCACTTTA
1 GGTATTGCAATACCCACTTTA
16053691 GGTATTGCAATACCCACTT
1 GGTATTGCAATACCCACTT
16053710 GCCAAGGATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (21 bp):
GGTATTGCAATACCCACTTTA
Found at i:16055246 original size:22 final size:22
Alignment explanation
Indices: 16055178--16055273 Score: 77
Period size: 22 Copynumber: 4.4 Consensus size: 22
16055168 TGCATTATGA
* ***
16055178 TGCCTACTGATTTACACTACAG
1 TGCCTACTGATCTACACTTTGG
* *
16055200 TGCCTACTGAT-TCACATTTTAG
1 TGCCTACTGATCT-ACACTTTGG
*
16055222 TGCCTACTGCTCTACACTTTGG
1 TGCCTACTGATCTACACTTTGG
* * *
16055244 TGCCTATTGATCAACACTTAGG
1 TGCCTACTGATCTACACTTTGG
*
16055266 TGACTACT
1 TGCCTACT
16055274 ATTTAAAGAA
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
21 1 0.02
22 58 0.97
23 1 0.02
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (22 bp):
TGCCTACTGATCTACACTTTGG
Found at i:16067838 original size:12 final size:12
Alignment explanation
Indices: 16067821--16067850 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
16067811 AGCCACACGC
16067821 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
16067833 CCGTGTGCTAGG
1 CCGTGTGCCAGG
16067845 CCGTGT
1 CCGTGT
16067851 AACTTTCGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:16072460 original size:15 final size:15
Alignment explanation
Indices: 16072440--16072473 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
16072430 TTGTTTTGCA
16072440 TTTAGGGTTTAGGGT
1 TTTAGGGTTTAGGGT
*
16072455 TTTAGGGTTTAGGTT
1 TTTAGGGTTTAGGGT
16072470 TTTA
1 TTTA
16072474 AAAATTCGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.32, T:0.53
Consensus pattern (15 bp):
TTTAGGGTTTAGGGT
Found at i:16074863 original size:21 final size:21
Alignment explanation
Indices: 16074824--16074863 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
16074814 GATAAAATAA
*
16074824 AAATAAATAAACAACAAAAAC
1 AAATAAATAAACAAAAAAAAC
*
16074845 AAATAAAT-AAGAAAAAAAA
1 AAATAAATAAACAAAAAAAA
16074864 GATAAAAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.80, C:0.07, G:0.03, T:0.10
Consensus pattern (21 bp):
AAATAAATAAACAAAAAAAAC
Found at i:16080909 original size:6 final size:6
Alignment explanation
Indices: 16080898--16080940 Score: 59
Period size: 6 Copynumber: 7.0 Consensus size: 6
16080888 ACGACCTGAA
* *
16080898 AAAAAT AAAAAT AAAAGT AAAAGT AAAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT -AAAAAT AAAAAT AAAAAT
16080941 TGTATCTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
6 29 0.85
7 5 0.15
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:16081335 original size:17 final size:17
Alignment explanation
Indices: 16081295--16081336 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
16081285 AATTTGATGA
*
16081295 GATAAAAATAAATAAAT
1 GATAAAAATAAACAAAT
* *
16081312 AAGAAAAATAAACAAAT
1 GATAAAAATAAACAAAT
16081329 GATAAAAA
1 GATAAAAA
16081337 ATGAATAAAC
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.17
Consensus pattern (17 bp):
GATAAAAATAAACAAAT
Found at i:16085157 original size:20 final size:19
Alignment explanation
Indices: 16085130--16085174 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
16085120 TTTAGAATGT
*
16085130 AAAAATTAAATTAAAAACA
1 AAAAATTAAAATAAAAACA
*
16085149 AAAATATTAAAATAAAAATA
1 AAAA-ATTAAAATAAAAACA
16085169 AAAAAT
1 AAAAAT
16085175 GGCTAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAAATTAAAATAAAAACA
Found at i:16090302 original size:17 final size:17
Alignment explanation
Indices: 16090240--16090304 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 17
16090230 TTCTTATCTT
*
16090240 TGGCGAATAAGCATTGCC
1 TGGCGAAT-AGTATTGCC
* ** * *
16090258 TAGTAAATAGAATAGCC
1 TGGCGAATAGTATTGCC
*
16090275 TGGCGGATAGTATTGCC
1 TGGCGAATAGTATTGCC
16090292 TGGCGAATAGTAT
1 TGGCGAATAGTAT
16090305 CACTCGACAG
Statistics
Matches: 35, Mismatches: 12, Indels: 1
0.73 0.25 0.02
Matches are distributed among these distances:
17 30 0.86
18 5 0.14
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (17 bp):
TGGCGAATAGTATTGCC
Found at i:16102550 original size:16 final size:17
Alignment explanation
Indices: 16102529--16102563 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
16102519 AAATGTGTAA
*
16102529 GTAATGAA-TTAATCAT
1 GTAATGAACTTAAACAT
16102545 GTAATGAACTTAAACAT
1 GTAATGAACTTAAACAT
16102562 GT
1 GT
16102564 TATGTAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (17 bp):
GTAATGAACTTAAACAT
Found at i:16111418 original size:32 final size:32
Alignment explanation
Indices: 16111361--16111421 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
16111351 AAATATATTG
*
16111361 ATTTGATTTGATTCTAACCAGATTGATTTTCA
1 ATTTGATTTGATTCTAACCAAATTGATTTTCA
* **
16111393 ATTTGATTTGATTTTATTCAAATTGATTT
1 ATTTGATTTGATTCTAACCAAATTGATTT
16111422 AAATGCACCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.28, C:0.08, G:0.11, T:0.52
Consensus pattern (32 bp):
ATTTGATTTGATTCTAACCAAATTGATTTTCA
Found at i:16111963 original size:22 final size:24
Alignment explanation
Indices: 16111914--16111964 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
16111904 ATAAATATAA
*
16111914 ATATTTTCTTATATTAATTAGTTT
1 ATATTTTCTTATATAAATTAGTTT
*
16111938 -TATTTTTTTATA-AAATTA-TTT
1 ATATTTTCTTATATAAATTAGTTT
16111959 ATATTT
1 ATATTT
16111965 ATATTTGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 3 0.12
22 10 0.42
23 11 0.46
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (24 bp):
ATATTTTCTTATATAAATTAGTTT
Found at i:16112216 original size:81 final size:81
Alignment explanation
Indices: 16112109--16112460 Score: 409
Period size: 81 Copynumber: 4.3 Consensus size: 81
16112099 TAAAAACTAA
* ** * * *
16112109 AATTGAATAATCTATTCGGGGATTTATTCTCGCTGTTCAACAGATTTTATTCGATTTTGATTTTG
1 AATTGAATAATCTGTTTTGGGATTTATTCCCGCCGTTTAACAGATTTTATTCGATTTTGATTTTG
* * *
16112174 TTTCAAAATGAGAAAT
66 TTTCCAAACGAGAATT
* * ** *
16112190 AATTGAATAAACTGTTTTGGGATTTATTCCCACCGTTTAACAGATTTTATTTTAGTTTGATTTTG
1 AATTGAATAATCTGTTTTGGGATTTATTCCCGCCGTTTAACAGATTTTATTCGATTTTGATTTTG
16112255 TTTCCAAACGAGAATT
66 TTTCCAAACGAGAATT
* * * * * *
16112271 AATTGAATAATCTGTTTTGGAATTTACTACCGCCGTTTAATAGATTATATTCGATTGTGATTTTG
1 AATTGAATAATCTGTTTTGGGATTTATTCCCGCCGTTTAACAGATTTTATTCGATTTTGATTTTG
* *
16112336 TTTCCAAACAAGATTT
66 TTTCCAAACGAGAATT
* * *
16112352 AATTAAATAATTCTGTTTCGGGATTTATTCCCTCCGTTTAACAGATTTTATTCGATTTTGATTTT
1 AATTGAATAA-TCTGTTTTGGGATTTATTCCCGCCGTTTAACAGATTTTATTCGATTTTGATTTT
* *
16112417 GTTTCCAAACAAGATTT
65 GTTTCCAAACGAGAATT
* *
16112434 AATT-ATACAATTCTATTTTGGGATTTA
1 AATTGA-ATAA-TCTGTTTTGGGATTTA
16112461 ATCCTGTCGG
Statistics
Matches: 230, Mismatches: 39, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
81 145 0.63
82 85 0.37
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (81 bp):
AATTGAATAATCTGTTTTGGGATTTATTCCCGCCGTTTAACAGATTTTATTCGATTTTGATTTTG
TTTCCAAACGAGAATT
Found at i:16116453 original size:46 final size:48
Alignment explanation
Indices: 16116397--16116506 Score: 127
Period size: 50 Copynumber: 2.3 Consensus size: 48
16116387 TCTAAAATCT
16116397 TATTTATTTAATTATT-TTCAAATCTGATG-TTTTAAATAAATATAAA
1 TATTTATTTAATTATTATTCAAATCTGATGTTTTTAAATAAATATAAA
* * * * *
16116443 TATTTATTTAATTTTTTATTTAAATCTGGTGTTTTTTACATATATATAAA
1 TATTTATTTAA-TTATTATTCAAATCTGATG-TTTTTAAATAAATATAAA
16116493 TATTT-TTTATATTA
1 TATTTATTTA-ATTA
16116507 ACTTATTTTA
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
46 11 0.21
47 4 0.08
48 11 0.21
49 6 0.11
50 21 0.40
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.56
Consensus pattern (48 bp):
TATTTATTTAATTATTATTCAAATCTGATGTTTTTAAATAAATATAAA
Found at i:16116518 original size:22 final size:22
Alignment explanation
Indices: 16116492--16116541 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
16116482 ATATATATAA
16116492 ATATTT-TTTATATTAACTTATTT
1 ATATTTGTTTATA-TAA-TTATTT
16116515 -TATTTGTTTATATAATTATTT
1 ATATTTGTTTATATAATTATTT
16116536 ATATTT
1 ATATTT
16116542 ATATTTGTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 6 0.24
22 13 0.52
23 6 0.24
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (22 bp):
ATATTTGTTTATATAATTATTT
Found at i:16133192 original size:16 final size:18
Alignment explanation
Indices: 16133160--16133192 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
16133150 GCAAAATATG
16133160 TGTGACTTTGTAATTGGT
1 TGTGACTTTGTAATTGGT
16133178 TGTGA-TTTG-AATTGG
1 TGTGACTTTGTAATTGG
16133193 AATTTGATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.18, C:0.03, G:0.30, T:0.48
Consensus pattern (18 bp):
TGTGACTTTGTAATTGGT
Found at i:16138928 original size:19 final size:18
Alignment explanation
Indices: 16138898--16138945 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
16138888 GATTTACATC
*
16138898 TCATTTCATCATTTCGTATT
1 TCATTTC-TCATATCGTA-T
16138918 TCATTTCTCATATCGTAT
1 TCATTTCTCATATCGTAT
16138936 TCATTTCTCA
1 TCATTTCTCA
16138946 ACTTTTCCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 11 0.41
19 9 0.33
20 7 0.26
ACGTcount: A:0.21, C:0.23, G:0.04, T:0.52
Consensus pattern (18 bp):
TCATTTCTCATATCGTAT
Found at i:16140017 original size:15 final size:17
Alignment explanation
Indices: 16139997--16140033 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
16139987 TTATTACTTA
16139997 ATATAT-ATATA-ACAT
1 ATATATAATATACACAT
16140012 ATATATAATATACACAT
1 ATATATAATATACACAT
*
16140029 GTATA
1 ATATA
16140034 ACATTTAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 6 0.32
16 5 0.26
17 8 0.42
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (17 bp):
ATATATAATATACACAT
Found at i:16145799 original size:16 final size:16
Alignment explanation
Indices: 16145778--16145826 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 16
16145768 ATATTTAGTC
16145778 ATATAATAAATTATTA
1 ATATAATAAATTATTA
16145794 ATATAAT---TTATTA
1 ATATAATAAATTATTA
* *
16145807 TTTTAATAAATTATTTA
1 ATATAATAAATTA-TTA
16145824 ATA
1 ATA
16145827 ATTGAATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 7
0.69 0.11 0.19
Matches are distributed among these distances:
13 11 0.44
16 10 0.40
17 4 0.16
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:16145803 original size:29 final size:30
Alignment explanation
Indices: 16145770--16145826 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
16145760 AATTATTTAT
16145770 ATTTAGTCA-TATAATAAATTA-TTAATATA
1 ATTTA-TCATTATAATAAATTATTTAATATA
* *
16145799 ATTTATTATTTTAATAAATTATTTAATA
1 ATTTATCATTATAATAAATTATTTAATA
16145827 ATTGAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.08
29 16 0.67
30 6 0.25
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (30 bp):
ATTTATCATTATAATAAATTATTTAATATA
Found at i:16145852 original size:18 final size:19
Alignment explanation
Indices: 16145820--16145855 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
16145810 TAATAAATTA
*
16145820 TTTAATAATTGAATTTTAT
1 TTTAATAATTAAATTTTAT
16145839 TTTAATAA-TAAATTTTA
1 TTTAATAATTAAATTTTA
16145856 AAATGATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (19 bp):
TTTAATAATTAAATTTTAT
Found at i:16145878 original size:13 final size:13
Alignment explanation
Indices: 16145837--16145878 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
16145827 ATTGAATTTT
16145837 ATTTT-AATAATAA
1 ATTTTAAATAAT-A
*
16145850 ATTTTAAAATGATA
1 ATTTT-AAATAATA
16145864 ATTTTAAATAATA
1 ATTTTAAATAATA
16145877 AT
1 AT
16145879 CTTCACATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 14 0.56
14 6 0.24
15 5 0.20
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (13 bp):
ATTTTAAATAATA
Found at i:16155715 original size:62 final size:62
Alignment explanation
Indices: 16155616--16155736 Score: 224
Period size: 62 Copynumber: 2.0 Consensus size: 62
16155606 TTTTTTGCAC
16155616 TCATGCATCAACATTACATTTCATTGCATACAATAAATTTCCTAAAATCCAAAAATACGCAT
1 TCATGCATCAACATTACATTTCATTGCATACAATAAATTTCCTAAAATCCAAAAATACGCAT
* *
16155678 TCATGCATCAACATTACATTTCATTGCATACAGTAAATTTCCTAAAATCCAAAAGTACG
1 TCATGCATCAACATTACATTTCATTGCATACAATAAATTTCCTAAAATCCAAAAATACG
16155737 TCGAGTTTAG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.31
Consensus pattern (62 bp):
TCATGCATCAACATTACATTTCATTGCATACAATAAATTTCCTAAAATCCAAAAATACGCAT
Found at i:16157056 original size:8 final size:8
Alignment explanation
Indices: 16157026--16157085 Score: 50
Period size: 8 Copynumber: 7.1 Consensus size: 8
16157016 TTAGTGGAGG
16157026 CAAAAAAA
1 CAAAAAAA
*
16157034 CCAAAAACA
1 -CAAAAAAA
16157043 CAAAAACAA
1 CAAAAA-AA
16157052 -AAAAAGAA
1 CAAAAA-AA
*
16157060 CAAAAGAGA
1 CAAAA-AAA
16157069 CAAAAAAA
1 CAAAAAAA
*
16157077 TAAAAAAA
1 CAAAAAAA
16157085 C
1 C
16157086 CTCTACTGGG
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
8 22 0.54
9 18 0.44
10 1 0.02
ACGTcount: A:0.78, C:0.15, G:0.05, T:0.02
Consensus pattern (8 bp):
CAAAAAAA
Found at i:16158304 original size:15 final size:15
Alignment explanation
Indices: 16158284--16158324 Score: 64
Period size: 16 Copynumber: 2.7 Consensus size: 15
16158274 TGACATTTTG
16158284 CATTCATACAAATAT
1 CATTCATACAAATAT
*
16158299 CATTCAATGCAAATAT
1 CATTC-ATACAAATAT
16158315 CATTCATACA
1 CATTCATACA
16158325 CATCTAGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.44, C:0.22, G:0.02, T:0.32
Consensus pattern (15 bp):
CATTCATACAAATAT
Found at i:16158739 original size:132 final size:132
Alignment explanation
Indices: 16158553--16159060 Score: 779
Period size: 132 Copynumber: 3.8 Consensus size: 132
16158543 TATTCCTATA
* **
16158553 TTGGTAG-GAAGTGGATCGAAGAT-GCAAATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAA
1 TTGGTAGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAA
* * *
16158616 GATGCAGATCTTGTCTTCCCATATTGGTGGCGGAGTAGATCAAAAAAGTAGATCTTGTCTTCCTG
66 GATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAGAAAGTAGATCTTGTCTTCCTG
16158681 TG
131 TG
16158683 TTGGTAGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAA
1 TTGGTAGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAA
* * *
16158748 GATACAGATCTTGTCTTCCCATATTGGTGGCGGAGTAGATCGAAGAAAGTAGATCTTGTCTTCCT
66 GATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC-AAGAAAGTAGATCTTGTCTTCCT
*
16158813 ATG
130 GTG
* *
16158816 TTGGCAGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCTTATATTGGTAGGAAGTGGATCGAA
1 TTGGTAGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAA
* * * *
16158881 GATGCATATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCCAAGAAAGCAGATATTGTCTTCAT
66 GATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGAT-CAAGAAAGTAGATCTTGTCTTCCT
*
16158946 GTA
130 GTG
* * *
16158949 TTGG-CGTGAAGTAGATCGAAGATAGCAGGTCTTGTTTTCCTATATTGGTAGGAAGTGGATCGAA
1 TTGGTAGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAA
*
16159013 GATGCAAATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAA
66 GATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC-AAGAAA
16159061 ACATATCTTA
Statistics
Matches: 351, Mismatches: 22, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
130 7 0.02
131 16 0.05
132 179 0.51
133 148 0.42
134 1 0.00
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (132 bp):
TTGGTAGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAA
GATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAGAAAGTAGATCTTGTCTTCCTG
TG
Found at i:16158757 original size:88 final size:90
Alignment explanation
Indices: 16158488--16159058 Score: 538
Period size: 88 Copynumber: 6.5 Consensus size: 90
16158478 AAGTCATTAA
* * * * * * ** * * *
16158488 AGCAGATCTTGTCTTCATGTTTTGG-CGTGAAATAGATCAAAGATAGCAGGCCCTATATTCCTAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTAT
*
16158552 ATTGGTAG-GAAGTGGATCGAAGAT
66 ATTGGTAGCGAAGTAGATCGAAGAT
* * * *
16158576 -GCAAATCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTAT
* * * *
16158638 ATTGGTGGCGGAGTAGATC-AAAAA
66 ATTGGTAGCGAAGTAGATCGAAGAT
* * * * *
16158662 AGTAGATCTTGTCTTCCTGTGTTGGTAGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTAT
*
16158727 ATTGGTAG-GAAGTGGATCGAAGAT
66 ATTGGTAGCGAAGTAGATCGAAGAT
* * * * * *
16158751 A-CAGATCTTGTCTTCCCATATTGGTGGCGGAGTAGATCGAAGAAAGTAGATCTTGTCTTCCTAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTAT
* * *
16158815 GTTGGCAGTGAAGTAGATCGAAGAT
66 ATTGGTAGCGAAGTAGATCGAAGAT
* * * * * *
16158840 AGCAGGTCCTGTCTTCTTATATTGGTAG-GAAGTGGATCGAAGAT-GCATATCTTGTCTTCCCAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTAT
* * * *
16158903 ACTGGTGGCGAAGTAGATCCAAGAA
66 ATTGGTAGCGAAGTAGATCGAAGAT
* * * * * *
16158928 AGCAGATATTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGGTCTTGTTTTCCTAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTAT
*
16158992 ATTGGTAG-GAAGTGGATCGAAGAT
66 ATTGGTAGCGAAGTAGATCGAAGAT
* * * * *
16159016 -GCAAATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGA
16159059 AAACATATCT
Statistics
Matches: 382, Mismatches: 90, Indels: 22
0.77 0.18 0.04
Matches are distributed among these distances:
86 23 0.06
87 81 0.21
88 180 0.47
89 77 0.20
90 21 0.05
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (90 bp):
AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTAT
ATTGGTAGCGAAGTAGATCGAAGAT
Found at i:16159054 original size:265 final size:263
Alignment explanation
Indices: 16158545--16159060 Score: 809
Period size: 265 Copynumber: 2.0 Consensus size: 263
16158535 AGGCCCTATA
* *
16158545 TTCCTATATTGGTAGGAAGTGGATCGAAGATGCAAATCCTGTCTTCCTATATTGGTAGGAAGTGG
1 TTCCTATATTGGCAGGAAGTAGATCGAAGATGCAAATCCTGTCTTCCTATATTGGTAGGAAGTGG
* * * *
16158610 ATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGGAGTAGATCAAAAAAGTAGATCTTGTC
66 ATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAAAAGCAGATATTGTC
* *
16158675 TTCCTGTGTTGGTAGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGT
131 TTCATGTATTGGTAGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGT
* * *
16158740 GGATCGAAGATACAGATCTTGTCTTCCCATATTGGTGGCGGAGTAGATCGAAGAAAGTAGATCTT
196 GGATCGAAGATACAAATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTT
16158805 GTC
261 GTC
* ** *
16158808 TTCCTATGTTGGCAGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCTTATATTGGTAGGAAGT
1 TTCCTATATTGGCAG-GAAGTAGATCGAAGAT-GCAAATCCTGTCTTCCTATATTGGTAGGAAGT
* *
16158873 GGATCGAAGATGCATATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCCAAGAAAGCAGATATT
64 GGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGAT-CAAAAAAGCAGATATT
* * *
16158938 GTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGGTCTTGTTTTCCTATATTGGTAGGA
128 GTCTTCATGTATTGGTAGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGA
*
16159002 AGTGGATCGAAGATGCAAATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAA
193 AGTGGATCGAAGATACAAATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAA
16159061 ACATATCTTA
Statistics
Matches: 229, Mismatches: 21, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
263 13 0.06
264 15 0.07
265 175 0.76
266 26 0.11
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (263 bp):
TTCCTATATTGGCAGGAAGTAGATCGAAGATGCAAATCCTGTCTTCCTATATTGGTAGGAAGTGG
ATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAAAAGCAGATATTGTC
TTCATGTATTGGTAGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGT
GGATCGAAGATACAAATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTT
GTC
Found at i:16159289 original size:50 final size:50
Alignment explanation
Indices: 16159135--16159410 Score: 198
Period size: 50 Copynumber: 5.5 Consensus size: 50
16159125 GCAGTGGAAC
* * *
16159135 AGATTGAAGCTACAACGGTGAATCTTGCTTCCCCGACATTACAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCTCGACATTGCAATTTAAA
* ** * * * *****
16159185 AGATTGAAGCTGCAACAACGAATCTTACTTCCAT-GGCGA-TGCAGTGGGGC
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCC-TCGAC-ATTGCAATTTAAA
* *
16159235 AGATTAAAGCTACAACGGCGAATCTTGCTTCCTCGACATTACAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCTCGACATTGCAATTTAAA
* ** * * * * * ** **
16159285 AGATTGAGGCCGCAACGGTGAATCTTACTTCCATGGAGA-TGCAGTGGAGT
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCC-TCGACATTGCAATTTAAA
* * *
16159335 AGATTAAAGCTAAAACGGCGAATCTTGCTTCCCCGACATTGCAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCTCGACATTGCAATTTAAA
* * *
16159385 AGATGGAAGCCACAATGGCGAATCTT
1 AGATTGAAGCTACAACGGCGAATCTT
16159411 ACTTTCATGG
Statistics
Matches: 159, Mismatches: 61, Indels: 12
0.69 0.26 0.05
Matches are distributed among these distances:
49 5 0.03
50 149 0.94
51 5 0.03
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (50 bp):
AGATTGAAGCTACAACGGCGAATCTTGCTTCCTCGACATTGCAATTTAAA
Found at i:16159300 original size:100 final size:100
Alignment explanation
Indices: 16159122--16159443 Score: 464
Period size: 100 Copynumber: 3.2 Consensus size: 100
16159112 TCTCTCTTGT
* * *
16159122 GATGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCCGACATTACAATTTAAAAG
1 GATGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTACAATTTAAAAG
* ** *
16159187 ATTGAAGCTGCAACAACGAATCTTACTTCCATGGC
66 ATTGAAGCCGCAACGGCGAATCTTACTTCCATGGA
* *
16159222 GATGCAGTGGGGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCTCGACATTACAATTTAAAAG
1 GATGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTACAATTTAAAAG
* *
16159287 ATTGAGGCCGCAACGGTGAATCTTACTTCCATGGA
66 ATTGAAGCCGCAACGGCGAATCTTACTTCCATGGA
* * *
16159322 GATGCAGTGGAGTAGATTAAAGCTAAAACGGCGAATCTTGCTTCCCCGACATTGCAATTTAAAAG
1 GATGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTACAATTTAAAAG
* * * * *
16159387 ATGGAAGCCACAATGGCGAATCTTACTTTCATGGT
66 ATTGAAGCCGCAACGGCGAATCTTACTTCCATGGA
*
16159422 GATGCAGTGGAGTAGATTAAAG
1 GATGCAGTGGAGCAGATTAAAG
16159444 NNNNNNNNNN
Statistics
Matches: 199, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
100 199 1.00
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (100 bp):
GATGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTACAATTTAAAAG
ATTGAAGCCGCAACGGCGAATCTTACTTCCATGGA
Found at i:16159629 original size:50 final size:50
Alignment explanation
Indices: 16159569--16160144 Score: 411
Period size: 50 Copynumber: 11.5 Consensus size: 50
16159559 GCAATTTAAA
* * *
16159569 AGATTAAAGCTGCAACAGTGAATCTTACTTCCCTGGCGGTGCAGTGGAAT
1 AGATTAAAGCTACAACGGTGAATCTTACTTCCCTGGCGTTGCAGTGGAAT
* * * * * * ** *
16159619 AGATTGAAGCTACAACGGTGAATCTTGCTTCCCCGACATTGCAATTTAAA
1 AGATTAAAGCTACAACGGTGAATCTTACTTCCCTGGCGTTGCAGTGGAAT
* *
16159669 AGATTAAAGCCGA-AACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAAT
1 AGATTAAAG-CTACAACGGTGAATCTTACTTCCCTGGCGTTGCAGTGGAAT
* * * * * * ** *
16159719 AGATTGAAGCTACAATGGTGAATCTTGCTT-CCTCGACATTGCAATTTAAA
1 AGATTAAAGCTACAACGGTGAATCTTACTTCCCT-GGCGTTGCAGTGGAAT
* * * * * * * *
16159769 AGATTGAGGCTGCAATGGCGAATCTTACTTCCATGGCGATGCAGTGGAGT
1 AGATTAAAGCTACAACGGTGAATCTTACTTCCCTGGCGTTGCAGTGGAAT
* * * * * * * ** *
16159819 AGATTAAAGCTAAAACGGCGAATCTTGCTTCCCCGACATTGCAATTTAAA
1 AGATTAAAGCTACAACGGTGAATCTTACTTCCCTGGCGTTGCAGTGGAAT
** * * * * * * * *
16159869 AGATGGAAGCCACAATGGCGAATCTTACTTTCATGGTGATGCAGTGGAGT
1 AGATTAAAGCTACAACGGTGAATCTTACTTCCCTGGCGTTGCAGTGGAAT
* * * * * * ** *
16159919 AGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACCTTGCAATTTAAA
1 AGATTAAAGCTACAACGGTGAATCTTACTTCCCTGGCGTTGCAGTGGAAT
* * *
16159969 AGATTAAAGCTGCAACAGTGAATCTTACTTCCCTGGCGGTGCAGTGGAAT
1 AGATTAAAGCTACAACGGTGAATCTTACTTCCCTGGCGTTGCAGTGGAAT
* * * * * * ** *
16160019 AGATTGAAGCTACAACGGTGAATCTTGCTTCCCCGACATTGCAATTTAAA
1 AGATTAAAGCTACAACGGTGAATCTTACTTCCCTGGCGTTGCAGTGGAAT
* *
16160069 AGATTAAAGCCGA-AACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAAT
1 AGATTAAAG-CTACAACGGTGAATCTTACTTCCCTGGCGTTGCAGTGGAAT
* * *
16160119 AGATTGAAGCTACAATGGCGAATCTT
1 AGATTAAAGCTACAACGGTGAATCTT
16160145 GTTCCTCGAC
Statistics
Matches: 383, Mismatches: 137, Indels: 12
0.72 0.26 0.02
Matches are distributed among these distances:
49 7 0.02
50 370 0.97
51 6 0.02
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (50 bp):
AGATTAAAGCTACAACGGTGAATCTTACTTCCCTGGCGTTGCAGTGGAAT
Found at i:16159717 original size:100 final size:100
Alignment explanation
Indices: 16159544--16160160 Score: 887
Period size: 100 Copynumber: 6.2 Consensus size: 100
16159534 NNNNNNNNNN
* * * *
16159544 TGCTTCCCCGACCTTGCAATTTAAAAGATTAAAGCTGCAACAGTGAATCTTACTTCCCTGGCGGT
1 TGCTTCCCCGACATTGCAATTTAAAAGATTAAAGCCGAAACGGTGAATCTTACTTCCCTGGCGGT
*
16159609 GCAGTGGAATAGATTGAAGCTACAACGGTGAATCT
66 GCAGTGGAATAGATTGAAGCTACAACGGCGAATCT
16159644 TGCTTCCCCGACATTGCAATTTAAAAGATTAAAGCCGAAACGGTGAATCTTACTTCCCTGGCGGT
1 TGCTTCCCCGACATTGCAATTTAAAAGATTAAAGCCGAAACGGTGAATCTTACTTCCCTGGCGGT
* *
16159709 GCAGTGGAATAGATTGAAGCTACAATGGTGAATCT
66 GCAGTGGAATAGATTGAAGCTACAACGGCGAATCT
* * * * * * * * *
16159744 TGCTTCCTCGACATTGCAATTTAAAAGATTGAGGCTGCAATGGCGAATCTTACTTCCATGGCGAT
1 TGCTTCCCCGACATTGCAATTTAAAAGATTAAAGCCGAAACGGTGAATCTTACTTCCCTGGCGGT
* * *
16159809 GCAGTGGAGTAGATTAAAGCTAAAACGGCGAATCT
66 GCAGTGGAATAGATTGAAGCTACAACGGCGAATCT
** * * * * * *
16159844 TGCTTCCCCGACATTGCAATTTAAAAGATGGAAGCC-ACAATGGCGAATCTTACTTTCATGGTGA
1 TGCTTCCCCGACATTGCAATTTAAAAGATTAAAGCCGA-AACGGTGAATCTTACTTCCCTGGCGG
* *
16159908 TGCAGTGGAGTAGATTAAAGCTACAACGGCGAATCT
65 TGCAGTGGAATAGATTGAAGCTACAACGGCGAATCT
* * * *
16159944 TGCTTCCCCGACCTTGCAATTTAAAAGATTAAAGCTGCAACAGTGAATCTTACTTCCCTGGCGGT
1 TGCTTCCCCGACATTGCAATTTAAAAGATTAAAGCCGAAACGGTGAATCTTACTTCCCTGGCGGT
*
16160009 GCAGTGGAATAGATTGAAGCTACAACGGTGAATCT
66 GCAGTGGAATAGATTGAAGCTACAACGGCGAATCT
16160044 TGCTTCCCCGACATTGCAATTTAAAAGATTAAAGCCGAAACGGTGAATCTTACTTCCCTGGCGGT
1 TGCTTCCCCGACATTGCAATTTAAAAGATTAAAGCCGAAACGGTGAATCTTACTTCCCTGGCGGT
*
16160109 GCAGTGGAATAGATTGAAGCTACAATGGCGAATCT
66 GCAGTGGAATAGATTGAAGCTACAACGGCGAATCT
*
16160144 TG-TTCCTCGACATTGCA
1 TGCTTCCCCGACATTGCA
16160161 GTCAATTTGA
Statistics
Matches: 466, Mismatches: 49, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
99 14 0.03
100 452 0.97
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (100 bp):
TGCTTCCCCGACATTGCAATTTAAAAGATTAAAGCCGAAACGGTGAATCTTACTTCCCTGGCGGT
GCAGTGGAATAGATTGAAGCTACAACGGCGAATCT
Found at i:16160366 original size:88 final size:87
Alignment explanation
Indices: 16160268--16160435 Score: 246
Period size: 87 Copynumber: 1.9 Consensus size: 87
16160258 TCGCATCAAG
16160268 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAAAAAACCAATCCTACCTCCCTAAAGTTACA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAG-AAAAAACCAATCCTACCTCCCTAAAGTTACA
*
16160333 GTGGATCGGATAAAAACCACAGA
65 GTGGAGCGGATAAAAACCACAGA
*** * * * *
16160356 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGCTACTAATCCTATCTCCCTGAAGTTGCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAAAAACCAATCCTACCTCCCTAAAGTTACAG
*
16160421 TGGAGCGGATTAAAA
66 TGGAGCGGATAAAAA
16160436 TGATGAATCA
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
87 38 0.54
88 33 0.46
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.22
Consensus pattern (87 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAAAAACCAATCCTACCTCCCTAAAGTTACAG
TGGAGCGGATAAAAACCACAGA
Found at i:16160406 original size:43 final size:42
Alignment explanation
Indices: 16160231--16160410 Score: 129
Period size: 43 Copynumber: 4.2 Consensus size: 42
16160221 CCACAGATCT
* *
16160231 TATCTCCCTAAGCAGTAGTGGAGCAGATC-G-CA-T-CAAGTCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAAACTACAA-TCC
**
16160271 TATCTCCCTAAGCAGTAGTGGAGCAGACAGAAAAAAACCAATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGACAG-AAACTA-CAATCC
* * * * * * *
16160315 TACCTCCCTAA--AGTTACAGTGGATCGGATAAAAACCACAGATCT
1 TATCTCCCTAAGCAG-T--AGTGGAGCAGACAGAAACTACA-ATCC
*
16160359 TATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGCTACTAATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGACAGAAACTAC-AATCC
16160402 TATCTCCCT
1 TATCTCCCT
16160411 GAAGTTGCAG
Statistics
Matches: 108, Mismatches: 19, Indels: 23
0.72 0.13 0.15
Matches are distributed among these distances:
39 1 0.01
40 28 0.26
42 3 0.03
43 30 0.28
44 30 0.28
45 14 0.13
46 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.22
Consensus pattern (42 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGACAGAAACTACAATCC
Found at i:16160903 original size:23 final size:22
Alignment explanation
Indices: 16160872--16160915 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
16160862 AGCCCAGATT
16160872 CCTAACCCAAATCAAAACTAAAC
1 CCTAACCCAAAT-AAAACTAAAC
* *
16160895 CCTAGCCCAACTAAAACTAAA
1 CCTAACCCAAATAAAACTAAA
16160916 AATTATCAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.50, C:0.34, G:0.02, T:0.14
Consensus pattern (22 bp):
CCTAACCCAAATAAAACTAAAC
Found at i:16164842 original size:23 final size:24
Alignment explanation
Indices: 16164816--16164861 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
16164806 TGGTTCAAAT
**
16164816 AACCAAGGTTTTTC-TTGTAAAAA
1 AACCAAGGTAATTCATTGTAAAAA
*
16164839 AACCTAGGTAATTCATTGTAAAA
1 AACCAAGGTAATTCATTGTAAAA
16164862 CCCCAAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (24 bp):
AACCAAGGTAATTCATTGTAAAAA
Found at i:16164982 original size:21 final size:20
Alignment explanation
Indices: 16164941--16165009 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 20
16164931 ATAAACTGGT
* * *
16164941 TTTTTCTGTAAAAAAATAAG
1 TTTTTCTATAAAAATACAAG
16164961 TTTTCTCTATAAAAATACAAG
1 TTTT-TCTATAAAAATACAAG
16164982 TAATTTTCTAT-AAAATCACAAG
1 T--TTTTCTATAAAAAT-ACAAG
16165004 TTTTTC
1 TTTTTC
16165010 CCTCAAAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
20 9 0.21
21 19 0.45
22 11 0.26
23 3 0.07
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.42
Consensus pattern (20 bp):
TTTTTCTATAAAAATACAAG
Found at i:16195909 original size:25 final size:25
Alignment explanation
Indices: 16195858--16195909 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
16195848 ATTAAAAATA
*
16195858 TTTAAAAAAATTATTTCATCCTGTT
1 TTTAAAAAAATTATCTCATCCTGTT
* *
16195883 TTTAAAAAAATT-TCTCATTCTTTT
1 TTTAAAAAAATTATCTCATCCTGTT
16195907 TTT
1 TTT
16195910 CTCTCAAGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 12 0.50
25 12 0.50
ACGTcount: A:0.33, C:0.12, G:0.02, T:0.54
Consensus pattern (25 bp):
TTTAAAAAAATTATCTCATCCTGTT
Found at i:16197278 original size:188 final size:188
Alignment explanation
Indices: 16196952--16197299 Score: 427
Period size: 188 Copynumber: 1.8 Consensus size: 188
16196942 TGCTCCATTG
* * ** *
16196952 CAACTTCAAGGTGATAAGATTTGTTGTTGTAGCTTCATTGTAACCCACTACAACCTTAGGGGGTA
1 CAACTTCAAGGTGATAAGAGTTGTAGTTGTAGCTTCATTCCAACCCACTACAACCTTAGAGGGTA
* * * *
16197017 TAGGAATTGTAGTTTCAATCCAATCCACTACAACTTCAGATATATAGGAGTTGTAGCTTCATCTT
66 TAGGAATTGTAGCTTCAATCCAATCCACTACAACTTCAGAGAGATAAGAGTTGTAGCTTCATCTT
* *
16197082 GCTCCACTGCAACTTTAGGGAGATAAGATTTGGTATAATAAATTCAATCCAACCCACTA
131 -CTCCACTGCAACTTCAAGGAGATAAGATTTGGTATAATAAATTCAATCCAACCCACTA
* * *
16197141 CAACTTCAAGG-GTATATGAGTTGTAGTTGTAGCTTCATTCCAACTCACTGCAA-CTTCA-AGGG
1 CAACTTCAAGGTG-ATAAGAGTTGTAGTTGTAGCTTCATTCCAACCCACTACAACCTT-AGAGGG
*** * * *
16197203 TATAGGAATTGTAGCTTC-ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAA
64 TATAGGAATTGTAGCTTCAATC-CAATCCACTACAACTTCAGAGAGATAAGAGTTGTAGCTTC-A
16197267 TCTAT-TCCACTGCAACTTCAAGGAGATAAGATT
127 TCT-TCTCCACTGCAACTTCAAGGAGATAAGATT
16197300 CGCTATGGTA
Statistics
Matches: 134, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
187 3 0.02
188 81 0.60
189 49 0.37
190 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (188 bp):
CAACTTCAAGGTGATAAGAGTTGTAGTTGTAGCTTCATTCCAACCCACTACAACCTTAGAGGGTA
TAGGAATTGTAGCTTCAATCCAATCCACTACAACTTCAGAGAGATAAGAGTTGTAGCTTCATCTT
CTCCACTGCAACTTCAAGGAGATAAGATTTGGTATAATAAATTCAATCCAACCCACTA
Found at i:16197353 original size:138 final size:139
Alignment explanation
Indices: 16197059--16197678 Score: 543
Period size: 138 Copynumber: 4.5 Consensus size: 139
16197049 ACTTCAGATA
* * **
16197059 TATAGGAGTTGTAGCTTCATCTTGCTCCACTGCAACTTTAGGGAGATAAGATTTGGTATAATAAA
1 TATAGGAATTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTT-G-----TAGC
* * * * *
16197124 TTCAATCCAACCCACTACAACTTCAAGG-GTATATGAGTT-G-TAGTTGTAGCTTCATTCCAACT
60 TTCAATCTAATCCACTACAACTTCAAGGAG-ATAAGA-TTCGCTAGTGGTAGATTCATTCCAACT
16197186 CACTGCAACTTCAAGGG
123 CACTGCAACTTCAAGGG
16197203 TATAGGAATTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAAT
1 TATAGGAATTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAAT
* * ** * *
16197268 CTATTCCACTGCAACTTCAAGGAGATAAGATTCGCTA-TGGTAGATTCAATT-TGATTTACTGCA
66 CTAATCCACTACAACTTCAAGGAGATAAGATTCGCTAGTGGTAGATTC-ATTCCAACTCACTGCA
* *
16197331 ACTTTATGGG
130 ACTTCAAGGG
* *
16197341 TATAGGATTTGTAGCTTCAAT-TTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTAGCTTCAA
1 TATAGGAATTGTAGCTTC-ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAA
** * * * * *
16197405 TCTGCTCCACTACAACTTC-AGAGAGATAAGATTCGC-AATAGTAGTTTCATTCCAACCCACTAC
65 TCTAATCCACTACAACTTCAAG-GAGATAAGATTCGCTAGTGGTAGATTCATTCCAACTCACTGC
16197468 AACTTCAAGGG
129 AACTTCAAGGG
* * * * * *
16197479 TATA-GAGATTGTAGCTTCAATC-CGATCCACTGCAACTTCATGGATATAGGATTCGTCA-CTTC
1 TATAGGA-ATTGTAGCTTC-ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT-AGCTTC
* ** * * * * ** *
16197541 -ATCT-TTCCCCACTGTAACTTTAGGGAGATAAGATTTGCCA-TCATAG-TTCATTCCAACCCAC
63 AATCTAAT--CCACTACAACTTCAAGGAGATAAGATTCGCTAGTGGTAGATTCATTCCAACTCAC
16197602 TGCAACTTCAAGGG
126 TGCAACTTCAAGGG
* * * * * *
16197616 TATAGAAACTGTAGCTTCAATC-TGATCCACTGCAACTTCAGGGATATAGGATTTGAAGCTTCA
1 TATAGGAATTGTAGCTTC-ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCA
16197679 TTTTGCTCTA
Statistics
Matches: 403, Mismatches: 55, Indels: 42
0.81 0.11 0.08
Matches are distributed among these distances:
136 2 0.00
137 94 0.23
138 243 0.60
139 11 0.03
143 1 0.00
144 52 0.13
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (139 bp):
TATAGGAATTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAAT
CTAATCCACTACAACTTCAAGGAGATAAGATTCGCTAGTGGTAGATTCATTCCAACTCACTGCAA
CTTCAAGGG
Found at i:16197758 original size:44 final size:45
Alignment explanation
Indices: 16197167--16197894 Score: 317
Period size: 44 Copynumber: 16.0 Consensus size: 45
16197157 TGAGTTGTAG
* ** * * *
16197167 TTGTAGCTTCATTCCAACT-CACTGCAACTTCAAGGG-TATAGGAA
1 TTGTAGCTTCAATCTTACTCCACTGCAACTTC-AGGGAGATAAGAT
*
16197211 TTGTAGCTTC-ATCTTGCTCCACTGCAACTTCAGGGAGATAAGAT
1 TTGTAGCTTCAATCTTACTCCACTGCAACTTCAGGGAGATAAGAT
* *
16197255 TTGTAGCTTCAATC-TATTCCACTGCAACTTCAAGGAGATAAGATT
1 TTGTAGCTTCAATCTTACTCCACTGCAACTTCAGGGAGATAAGA-T
* ** * * *
16197300 CGCTATGGTAGATTCAAT-TTGA-TTTACTGCAACTTTATGGG-TATAGGAT
1 ---T-T-GTAGCTTCAATCTT-ACTCCACTGCAACTTCA-GGGAGATAAGAT
*
16197349 TTGTAGCTTCAAT-TTGCTCCACTGCAACTTCAGGGAGATAAGAT
1 TTGTAGCTTCAATCTTACTCCACTGCAACTTCAGGGAGATAAGAT
* * * *
16197393 CTGTAGCTTCAATC-TGCTCCACTACAACTTCAGAGAGATAAGAT
1 TTGTAGCTTCAATCTTACTCCACTGCAACTTCAGGGAGATAAGAT
* * ** * *
16197437 TCGCAATAGTAGTTTCATTCCAAC-CCACTACAACTTCAAGGG-TATAGAGA-
1 T-----T-GTAGCTTCAATCTTACTCCACTGCAACTTC-AGGGAGATA-AGAT
** * * *
16197487 TTGTAGCTTCAATCCGA-TCCACTGCAACTTCATGGATATAGGAT
1 TTGTAGCTTCAATCTTACTCCACTGCAACTTCAGGGAGATAAGAT
* * * * *
16197531 TCGTCA-CTTC-ATCTTTCCCCACTGTAACTTTAGGGAGATAAGAT
1 TTGT-AGCTTCAATCTTACTCCACTGCAACTTCAGGGAGATAAGAT
* ** * *
16197575 TTGCCATCATAG-TTCATTCCAAC-CCACTGCAACTTCAAGG-G-TATAGAAA
1 TTG------TAGCTTCAATCTTACTCCACTGCAACTTCAGGGAGATA-AG-AT
* * * *
16197624 CTGTAGCTTCAATCTGA-TCCACTGCAACTTCAGGGATATAGGAT
1 TTGTAGCTTCAATCTTACTCCACTGCAACTTCAGGGAGATAAGAT
* * * * * * * *
16197668 TTGAAGCTTC-ATTTTGCTCTACTGTAACTTTAGAGAGATAAAAT
1 TTGTAGCTTCAATCTTACTCCACTGCAACTTCAGGGAGATAAGAT
* *
16197712 TTGCAGCTTC-ATCTTACTCCACTGCAACTTCAGGGGGATAAGAT
1 TTGTAGCTTCAATCTTACTCCACTGCAACTTCAGGGAGATAAGAT
* * ** * *
16197756 TTGCCACCGTAGTTTCATTCCAAC-CCACTGTAACTTCAAGGGTATG-GAA-AT
1 TT------GTAGCTTCAATCTTACTCCACTGCAACTTC-AGGG-A-GATAAGAT
* * *
16197807 TAT-T-GCTTCAATCTGA-TCCACTGCAACTTCAGGGATATAGGAT
1 T-TGTAGCTTCAATCTTACTCCACTGCAACTTCAGGGAGATAAGAT
* * * *
16197850 TTGTAGCTTC-ATCTTGCTCCACTACAACTTCAGAGATATAAGAT
1 TTGTAGCTTCAATCTTACTCCACTGCAACTTCAGGGAGATAAGAT
16197894 T
1 T
16197895 CATTATGACA
Statistics
Matches: 514, Mismatches: 109, Indels: 122
0.69 0.15 0.16
Matches are distributed among these distances:
42 3 0.01
43 37 0.07
44 330 0.64
45 9 0.02
46 3 0.01
47 2 0.00
48 4 0.01
49 24 0.05
50 77 0.15
51 21 0.04
52 3 0.01
53 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.32
Consensus pattern (45 bp):
TTGTAGCTTCAATCTTACTCCACTGCAACTTCAGGGAGATAAGAT
Found at i:16197817 original size:182 final size:181
Alignment explanation
Indices: 16197537--16197868 Score: 529
Period size: 182 Copynumber: 1.8 Consensus size: 181
16197527 GGATTCGTCA
* * * *
16197537 CTTCATCTTTCCCCACTGTAACTTTAGGGAGATAAGATTTGCCATCATAGTTCATTCCAACCCAC
1 CTTCATCTTACCCCACTGCAACTTCAGGGAGATAAGATTTGCCACCATAGTTCATTCCAACCCAC
*
16197602 TGCAACTTCAAGGGTATAGAAACTGTAGCTTCAATCTGATCCACTGCAACTTCAGGGATATAGGA
66 TGCAACTTCAAGGGTATAGAAACTATAGCTTCAATCTGATCCACTGCAACTTCAGGGATATAGGA
*
16197667 TTTGAAGCTTCATTTTGCTCTACTGTAACTTTAGAGAGATAAAATTTGCAG
131 TTTGAAGCTTCATCTTGCTCTACTGTAACTTTAGAGAGATAAAATTTGCAG
* * *
16197718 CTTCATCTTACTCCACTGCAACTTCAGGGGGATAAGATTTGCCACCGTAGTTTCATTCCAACCCA
1 CTTCATCTTACCCCACTGCAACTTCAGGGAGATAAGATTTGCCACCATAG-TTCATTCCAACCCA
* * * *
16197783 CTGTAACTTCAAGGGTATGGAAATTATTGCTTCAATCTGATCCACTGCAACTTCAGGGATATAGG
65 CTGCAACTTCAAGGGTATAGAAACTATAGCTTCAATCTGATCCACTGCAACTTCAGGGATATAGG
*
16197848 ATTTGTAGCTTCATCTTGCTC
130 ATTTGAAGCTTCATCTTGCTC
16197869 CACTACAACT
Statistics
Matches: 136, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
181 43 0.32
182 93 0.68
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.32
Consensus pattern (181 bp):
CTTCATCTTACCCCACTGCAACTTCAGGGAGATAAGATTTGCCACCATAGTTCATTCCAACCCAC
TGCAACTTCAAGGGTATAGAAACTATAGCTTCAATCTGATCCACTGCAACTTCAGGGATATAGGA
TTTGAAGCTTCATCTTGCTCTACTGTAACTTTAGAGAGATAAAATTTGCAG
Found at i:16197851 original size:94 final size:89
Alignment explanation
Indices: 16197549--16197852 Score: 262
Period size: 94 Copynumber: 3.3 Consensus size: 89
16197539 TCATCTTTCC
* * *
16197549 CCACTGTAACTTTAGGGAGATAAGATTTGCCATCATAGTTCATTCCAACCCACTGCAACTTCAAG
1 CCACTGCAACTTCAGGGAGATAAGATTTGCCA-C-TAGTTCATTCCAACCCACTGTAACTTCAAG
*
16197614 GGTATAGAAACTGTAGCTTCAATCTGAT
64 GGTAT-GAAA-TTTAGCTTCAATCTGAT
* * *** * *
16197642 CCACTGCAACTTCAGGGATATAGGATTTG--A--AGCTTCATT-TTGCTCTACTGTAACTTTAGA
1 CCACTGCAACTTCAGGGAGATAAGATTTGCCACTAG-TTCATTCCAAC-CCACTGTAACTTCA-A
* * *
16197702 GAG-ATAAAATTTGCAGCTTC-ATCTTACT
63 GGGTATGAAATTT--AGCTTCAATCTGA-T
*
16197730 CCACTGCAACTTCAGGGGGATAAGATTTGCCACCGTAGTTTCATTCCAACCCACTGTAACTTCAA
1 CCACTGCAACTTCAGGGAGATAAGATTTGCCA-C-TAG-TTCATTCCAACCCACTGTAACTTCAA
*
16197795 GGGTATGGAAATTATTGCTTCAATCTGAT
63 GGGTAT-GAAATT-TAGCTTCAATCTGAT
* *
16197824 CCACTGCAACTTCAGGGATATAGGATTTG
1 CCACTGCAACTTCAGGGAGATAAGATTTG
16197853 TAGCTTCATC
Statistics
Matches: 164, Mismatches: 30, Indels: 33
0.72 0.13 0.15
Matches are distributed among these distances:
86 2 0.01
87 11 0.07
88 52 0.32
89 3 0.02
90 1 0.01
91 1 0.01
93 28 0.17
94 54 0.33
95 11 0.07
96 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (89 bp):
CCACTGCAACTTCAGGGAGATAAGATTTGCCACTAGTTCATTCCAACCCACTGTAACTTCAAGGG
TATGAAATTTAGCTTCAATCTGAT
Found at i:16209585 original size:21 final size:19
Alignment explanation
Indices: 16209543--16209587 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
16209533 TAACTATAAT
*
16209543 AAAATAAAATAACTACATA
1 AAAATAAAAAAACTACATA
*
16209562 AAAATAAATAAAACATAGATA
1 AAAATAAA-AAAAC-TACATA
16209583 AAAAT
1 AAAAT
16209588 TTGAAATCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 8 0.36
20 4 0.18
21 10 0.45
ACGTcount: A:0.71, C:0.07, G:0.02, T:0.20
Consensus pattern (19 bp):
AAAATAAAAAAACTACATA
Found at i:16212297 original size:16 final size:17
Alignment explanation
Indices: 16212262--16212297 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
16212252 TAAATCATGA
*
16212262 ATTGAAAATGAATTGGC
1 ATTGAAAATGAATTGAC
16212279 ATTGAAAAT-AATTGAC
1 ATTGAAAATGAATTGAC
16212295 ATT
1 ATT
16212298 TCTATTATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.44, C:0.06, G:0.17, T:0.33
Consensus pattern (17 bp):
ATTGAAAATGAATTGAC
Found at i:16215260 original size:21 final size:21
Alignment explanation
Indices: 16215234--16215275 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
16215224 AACATCAAAT
16215234 TAAACATAAAATCATGTACTA
1 TAAACATAAAATCATGTACTA
16215255 TAAACATAAAATCATGTACTA
1 TAAACATAAAATCATGTACTA
16215276 AAGCAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.14, G:0.05, T:0.29
Consensus pattern (21 bp):
TAAACATAAAATCATGTACTA
Found at i:16222418 original size:33 final size:33
Alignment explanation
Indices: 16222371--16222434 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
16222361 TAATTTTTAT
*
16222371 TTTTAATTTAATTTAATACTTAATGTATATGTA
1 TTTTAATTTAATTTAATACTTAATATATATGTA
* * *
16222404 TTTTATTTTTATTTAATGCTTAATATATATG
1 TTTTAATTTAATTTAATACTTAATATATATG
16222435 CATTATACAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (33 bp):
TTTTAATTTAATTTAATACTTAATATATATGTA
Found at i:16226329 original size:3 final size:3
Alignment explanation
Indices: 16226318--16226354 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
16226308 ATTATTATAA
16226318 AAG AA- AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
16226355 TGGAAATAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:16234911 original size:12 final size:15
Alignment explanation
Indices: 16234881--16234914 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
16234871 GCTTCTCACC
16234881 TATTAATTACAATAT
1 TATTAATTACAATAT
16234896 TATTAATTACAATAT
1 TATTAATTACAATAT
16234911 TATT
1 TATT
16234915 TAGTCACGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTAATTACAATAT
Found at i:16236412 original size:12 final size:12
Alignment explanation
Indices: 16236395--16236419 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16236385 CAGAGGTTAT
16236395 TAACAATATTTA
1 TAACAATATTTA
16236407 TAACAATATTTA
1 TAACAATATTTA
16236419 T
1 T
16236420 GTTATAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TAACAATATTTA
Found at i:16243670 original size:45 final size:45
Alignment explanation
Indices: 16243614--16243708 Score: 154
Period size: 45 Copynumber: 2.1 Consensus size: 45
16243604 TACTATGTGA
* *
16243614 ACCGAACATCATTAATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTAATTAATAAGGTGGTTGCTATGTGCTGAATCC
* *
16243659 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTAATTAATAAGGTGGTTGCTATGTGCTGAATCC
16243704 ACCGA
1 ACCGA
16243709 GTATCTGTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTAATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:16245167 original size:14 final size:14
Alignment explanation
Indices: 16245148--16245176 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
16245138 TAAGTTAAAC
16245148 GAATTATGGAAATT
1 GAATTATGGAAATT
16245162 GAATTATGGAAATT
1 GAATTATGGAAATT
16245176 G
1 G
16245177 CAAATGATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.34
Consensus pattern (14 bp):
GAATTATGGAAATT
Found at i:16257539 original size:6 final size:6
Alignment explanation
Indices: 16257528--16257556 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
16257518 GTTGTAGTTT
16257528 TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
16257557 TCCCTTCTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTC
Found at i:16259661 original size:18 final size:18
Alignment explanation
Indices: 16259638--16259673 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
16259628 CAATTAAACC
16259638 ATTTGATTGATATATTTA
1 ATTTGATTGATATATTTA
* *
16259656 ATTTGATTTATTTATTTA
1 ATTTGATTGATATATTTA
16259674 TAAATAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (18 bp):
ATTTGATTGATATATTTA
Found at i:16259735 original size:20 final size:20
Alignment explanation
Indices: 16259712--16259750 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
16259702 CAATTTAAAA
16259712 TATAAAAAATTATTAATATG
1 TATAAAAAATTATTAATATG
* **
16259732 TATATAATTTTATTAATAT
1 TATAAAAAATTATTAATAT
16259751 ATGTAAAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAAAAAATTATTAATATG
Found at i:16259872 original size:20 final size:20
Alignment explanation
Indices: 16259847--16259886 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
16259837 AATATTTTCA
*
16259847 GTAAATCATTTTCCAGAAAT
1 GTAAATCATTTCCCAGAAAT
16259867 GTAAATCATTTCCCAGAAAT
1 GTAAATCATTTCCCAGAAAT
16259887 CATTTTCCGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (20 bp):
GTAAATCATTTCCCAGAAAT
Found at i:16277403 original size:19 final size:18
Alignment explanation
Indices: 16277357--16277405 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
16277347 GATAGAATTT
*
16277357 TTGTCATAAAATAATTAAT
1 TTGT-ATAAAATAATTAAA
*
16277376 TTTTATAAAATAATTAAA
1 TTGTATAAAATAATTAAA
16277394 TTGTATTAAAAT
1 TTGTA-TAAAAT
16277406 TTTGGGGGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 17 0.65
19 9 0.35
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (18 bp):
TTGTATAAAATAATTAAA
Found at i:16277513 original size:130 final size:130
Alignment explanation
Indices: 16277280--16277539 Score: 502
Period size: 130 Copynumber: 2.0 Consensus size: 130
16277270 ATTTAAGTTT
*
16277280 GGGGTTTGGAAACACAAAGATTTATATACTTTTTCATACCTAATTTTACTTAAAATCATGCATTT
1 GGGGTGTGGAAACACAAAGATTTATATACTTTTTCATACCTAATTTTACTTAAAATCATGCATTT
16277345 TCGATAGAATTTTTGTCATAAAATAATTAATTTTTATAAAATAATTAAATTGTATTAAAATTTTG
66 TCGATAGAATTTTTGTCATAAAATAATTAATTTTTATAAAATAATTAAATTGTATTAAAATTTTG
16277410 GGGGTGTGGAAACACAAAGATTTATATACTTTTTCATACCTAATTTTACTTAAAATCATGCATTT
1 GGGGTGTGGAAACACAAAGATTTATATACTTTTTCATACCTAATTTTACTTAAAATCATGCATTT
*
16277475 TCGATAGAATTTTTGTCATGAAATAATTAATTTTTATAAAATAATTAAATTGTATTAAAATTTTG
66 TCGATAGAATTTTTGTCATAAAATAATTAATTTTTATAAAATAATTAAATTGTATTAAAATTTTG
16277540 AACATGTTAA
Statistics
Matches: 128, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
130 128 1.00
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (130 bp):
GGGGTGTGGAAACACAAAGATTTATATACTTTTTCATACCTAATTTTACTTAAAATCATGCATTT
TCGATAGAATTTTTGTCATAAAATAATTAATTTTTATAAAATAATTAAATTGTATTAAAATTTTG
Found at i:16277533 original size:19 final size:18
Alignment explanation
Indices: 16277495--16277535 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
16277485 TTTTGTCATG
* *
16277495 AAATAATTAATTTTTATA
1 AAATAATTAAATTGTATA
16277513 AAATAATTAAATTGTATTA
1 AAATAATTAAATTGTA-TA
16277532 AAAT
1 AAAT
16277536 TTTGAACATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
AAATAATTAAATTGTATA
Found at i:16278168 original size:14 final size:14
Alignment explanation
Indices: 16278145--16278174 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
16278135 CATCCCTCAT
*
16278145 TCACATCTCTTCTC
1 TCACAACTCTTCTC
16278159 TCACAACTCTTCTC
1 TCACAACTCTTCTC
16278173 TC
1 TC
16278175 CTCTCTCAAT
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:0.17, C:0.43, G:0.00, T:0.40
Consensus pattern (14 bp):
TCACAACTCTTCTC
Found at i:16279507 original size:21 final size:21
Alignment explanation
Indices: 16279483--16279522 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
16279473 TTAGTTTAGC
*
16279483 TATTTTTTATTTTAAATTTAA
1 TATTTTCTATTTTAAATTTAA
*
16279504 TATTTTCTATTTTTAATTT
1 TATTTTCTATTTTAAATTT
16279523 CAATTTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (21 bp):
TATTTTCTATTTTAAATTTAA
Found at i:16285224 original size:137 final size:138
Alignment explanation
Indices: 16284977--16285226 Score: 310
Period size: 137 Copynumber: 1.8 Consensus size: 138
16284967 TGTAAAATAT
* * *
16284977 GTCTACTCACACAAGCTATCGGTCGGAACGTAAGCTACACGATGCTGCTTACACAAGCTATCGAG
1 GTCTACTCACACAAGCTATCAGTCGGAACGTAAGCTACACGATGCTGCTCACACAAGCTATCAAG
** * * *
16285042 TATCTGAAACTAATGTCGAACCTCATCCACTCGTAGGACATTCAAGACCAGCACCCAAAACATGG
66 TATCTGAAACTAATACCGAAACTCAGCCACTCGTAGGACACTCAAGACCAGCACCCAAAACATGG
16285107 TAACCTTG
131 TAACCTTG
* * * *
16285115 GTCTACTCATACAAGCTATCAGTCGGAACGT-AGCTACACGGTG-TGTCTCACATAAGCTGTCAA
1 GTCTACTCACACAAGCTATCAGTCGGAACGTAAGCTACACGATGCTG-CTCACACAAGCTATCAA
* * *
16285178 GTATCTGCAAC-ACCTACCGAAACTTAGCCAC-CAGTAGGACACTCAAGAC
65 GTATCTGAAACTA-ATACCGAAACTCAGCCACTC-GTAGGACACTCAAGAC
16285227 TAACACTAAA
Statistics
Matches: 94, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
136 4 0.04
137 61 0.65
138 29 0.31
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (138 bp):
GTCTACTCACACAAGCTATCAGTCGGAACGTAAGCTACACGATGCTGCTCACACAAGCTATCAAG
TATCTGAAACTAATACCGAAACTCAGCCACTCGTAGGACACTCAAGACCAGCACCCAAAACATGG
TAACCTTG
Found at i:16292584 original size:26 final size:26
Alignment explanation
Indices: 16292549--16292605 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
16292539 TAGCTCGTTA
*
16292549 AAAATTGTCAAAAATTTTACT-GGGGT
1 AAAATCGTC-AAAATTTTACTAGGGGT
*
16292575 AAAATCGTCAAAATTTTATTAGGGGT
1 AAAATCGTCAAAATTTTACTAGGGGT
16292601 AAAAT
1 AAAAT
16292606 ATAGATGAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 10 0.36
26 18 0.64
ACGTcount: A:0.42, C:0.07, G:0.18, T:0.33
Consensus pattern (26 bp):
AAAATCGTCAAAATTTTACTAGGGGT
Found at i:16298936 original size:31 final size:31
Alignment explanation
Indices: 16298870--16298936 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
16298860 ATTTTTTTAT
* *
16298870 TTAATTGTGATATATTAACTAATGTAATAAT
1 TTAATTGGGATATATTAACTAATGTAATAAC
* * **
16298901 TTAATTGGGATGTATTAACTATTGTGGTAAC
1 TTAATTGGGATATATTAACTAATGTAATAAC
16298932 TTAAT
1 TTAAT
16298937 ATGGTCAGGA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.04, G:0.15, T:0.45
Consensus pattern (31 bp):
TTAATTGGGATATATTAACTAATGTAATAAC
Found at i:16305782 original size:24 final size:25
Alignment explanation
Indices: 16305742--16305788 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
16305732 TATGTTTTTA
*
16305742 ATTTTTAAAATAGAAAATAAAAATT
1 ATTTTTAAAATAGAAAAGAAAAATT
16305767 ATTTTTAAAATA-AAAAGAAAAA
1 ATTTTTAAAATAGAAAAGAAAAA
16305789 AAGAACTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (25 bp):
ATTTTTAAAATAGAAAAGAAAAATT
Done.