Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008117.1 Hibiscus syriacus cultivar Beakdansim tig00110656_pilon, whole genome shotgun sequence
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: 1567030
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 7
Found at i:1196662 original size:2 final size:2
Alignment explanation
Indices: 1196655--1196685 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1196645 ATAAATATGT
1196655 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 T
1196686 TCTTTAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1198740 original size:15 final size:15
Alignment explanation
Indices: 1198717--1198755 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
1198707 CATACATACA
*
1198717 TTTGTATTTTGCATC
1 TTTGCATTTTGCATC
* *
1198732 TTTGCATTTTTCATT
1 TTTGCATTTTGCATC
1198747 TTTGCATTT
1 TTTGCATTT
1198756 ATACTTTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.13, C:0.13, G:0.10, T:0.64
Consensus pattern (15 bp):
TTTGCATTTTGCATC
Found at i:1198851 original size:27 final size:27
Alignment explanation
Indices: 1198815--1198874 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
1198805 CATTCACATA
1198815 TTTACATTTGCATTTACATTTGCATTT
1 TTTACATTTGCATTTACATTTGCATTT
* * *
1198842 TTTACGTTTGTATTTACATTTTCA-TT
1 TTTACATTTGCATTTACATTTGCATTT
1198868 TTTACAT
1 TTTACAT
1198875 AATTACATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.13, G:0.07, T:0.58
Consensus pattern (27 bp):
TTTACATTTGCATTTACATTTGCATTT
Found at i:1198868 original size:12 final size:12
Alignment explanation
Indices: 1198814--1198841 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
1198804 ACATTCACAT
1198814 ATTTACATTTGC
1 ATTTACATTTGC
1198826 ATTTACATTTGC
1 ATTTACATTTGC
1198838 ATTT
1 ATTT
1198842 TTTACGTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.14, G:0.07, T:0.54
Consensus pattern (12 bp):
ATTTACATTTGC
Found at i:1198873 original size:14 final size:14
Alignment explanation
Indices: 1198791--1198874 Score: 52
Period size: 14 Copynumber: 6.2 Consensus size: 14
1198781 GCACAATTTG
*
1198791 CATTTTTATTTTTA
1 CATTTTCATTTTTA
** *
1198805 CATTCACATATTTA
1 CATTTTCATTTTTA
*
1198819 CATTTGCA--TTTA
1 CATTTTCATTTTTA
*
1198831 CATTTGCATTTTTTA
1 CATTTTCA-TTTTTA
*
1198846 CGTTTGT-A--TTTA
1 CATTT-TCATTTTTA
1198858 CATTTTCATTTTTA
1 CATTTTCATTTTTA
1198872 CAT
1 CAT
1198875 AATTACATTT
Statistics
Matches: 54, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
11 1 0.02
12 21 0.39
14 23 0.43
15 9 0.17
ACGTcount: A:0.24, C:0.14, G:0.05, T:0.57
Consensus pattern (14 bp):
CATTTTCATTTTTA
Found at i:1200892 original size:77 final size:75
Alignment explanation
Indices: 1200677--1200965 Score: 542
Period size: 76 Copynumber: 3.8 Consensus size: 75
1200667 TCAAAATAAC
1200677 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACACT
1 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGAC-CT
1200742 AAGGCTTTGAA
65 AAGGCTTTGAA
1200753 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCTT
1 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACC-T
1200818 AAGGCTTTGAA
65 AAGGCTTTGAA
1200829 AACATCAAAAAGCTCCCGAAGGCTTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCC
1 AACATCAAAAAGCTCCCGAAGGC-TTTTTGGAAACATCATGCACTGTAGGACTTACAGATGA-CC
1200894 TAAGGCTTTGAA
64 TAAGGCTTTGAA
1200906 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATG
1 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATG
1200966 TGGGAAATAG
Statistics
Matches: 210, Mismatches: 0, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
75 1 0.00
76 134 0.64
77 73 0.35
78 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (75 bp):
AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCTA
AGGCTTTGAA
Found at i:1200954 original size:153 final size:152
Alignment explanation
Indices: 1200677--1200965 Score: 560
Period size: 153 Copynumber: 1.9 Consensus size: 152
1200667 TCAAAATAAC
1200677 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACACT
1 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACACT
1200742 AAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTA
66 AAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTA
1200807 CAGATGACCTTAAGGCTTTGAA
131 CAGATGACCTTAAGGCTTTGAA
*
1200829 AACATCAAAAAGCTCCCGAAGGCTTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCC
1 AACATCAAAAAGCTCCCGAAGGC-TTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACAC
1200894 TAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTT
65 TAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTT
1200959 ACAGATG
130 ACAGATG
1200966 TGGGAAATAG
Statistics
Matches: 135, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
152 23 0.17
153 112 0.83
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (152 bp):
AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACACT
AAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTA
CAGATGACCTTAAGGCTTTGAA
Found at i:1201193 original size:400 final size:399
Alignment explanation
Indices: 1200421--1201489 Score: 1807
Period size: 400 Copynumber: 2.6 Consensus size: 399
1200411 CTATATTTGT
1200421 TCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGG
1 TCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGG
1200486 CTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGA
66 CTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGA
*
1200551 TGTGAGAAATAGTTTACTAAGTAAAAAAACTAAGGAAATCGTTTTCTTACTTTTTAACAATTTCA
131 TGTGGGAAATAG--T--T---T------ACTAAGGAAATCGTTTTCTTACTTTTTAACAATTTCA
1200616 TTTTAGAAAAGATAAAATGAGAAACTAT-AGAAATCGTTTTCTCATTATTTTTCAAAATAACAAC
183 TTTTAGAAAAGATAAAATGAGAAACTATGA-AAATCGTTTTCTCATTATTTTTCAAAATAACAAC
1200680 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACACTAAG
247 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACACTAAG
1200745 GCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAG
312 GCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAG
*
1200810 ATGACCTTAAGGCTTTGAAAACA
377 ATGACCCTAAGGCTTTGAAAACA
1200833 TCAAAAAGCTCCCGAAGGCTTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAG
1 TCAAAAAGCTCCCGAAGGC-TTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAG
1200898 GCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAG
65 GCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAG
1200963 ATGTGGGAAATAGTTTACTAAGGAAATCGTTTTCTTACTTTTTAACAATTTCATTTTAGAAAAGA
130 ATGTGGGAAATAGTTTACTAAGGAAATCGTTTTCTTACTTTTTAACAATTTCATTTTAGAAAAGA
*
1201028 TAAAATGAGAAACTATGAAAATCGTTTTCTCATTATTTTTCAAAATAATAACATCAAAAAGCTCC
195 TAAAATGAGAAACTATGAAAATCGTTTTCTCATTATTTTTCAAAATAACAACATCAAAAAGCTCC
*
1201093 CGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACACTAAGTCTTTGAAAACAT
260 CGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACACTAAGGCTTTGAAAACAT
1201158 CAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGC
325 CAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGC
1201223 TTTGAAAACA
390 TTTGAAAACA
*
1201233 TCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGG
1 TCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGG
1201298 CTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGA
66 CTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGA
* * *
1201363 TGTGGGAAATATTTTACTAAGTAAAAAAACAAAGGAAATTGTTTTCTTATTTTTTAACAATTTCA
131 TGTGGGAAATAGTTTAC----T---------AAGGAAATCGTTTTCTTACTTTTTAACAATTTCA
1201428 TTTTAGAAAAGATAAAATGAGAAACTATGAAAATCGTTTTCTCATTATTTTTCAAAATAACA
183 TTTTAGAAAAGATAAAATGAGAAACTATGAAAATCGTTTTCTCATTATTTTTCAAAATAACA
1201490 TGTTGATTGG
Statistics
Matches: 633, Mismatches: 9, Indels: 30
0.94 0.01 0.04
Matches are distributed among these distances:
399 127 0.20
400 267 0.42
401 1 0.00
403 1 0.00
406 1 0.00
409 1 0.00
411 1 0.00
412 112 0.18
413 122 0.19
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.29
Consensus pattern (399 bp):
TCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGG
CTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGA
TGTGGGAAATAGTTTACTAAGGAAATCGTTTTCTTACTTTTTAACAATTTCATTTTAGAAAAGAT
AAAATGAGAAACTATGAAAATCGTTTTCTCATTATTTTTCAAAATAACAACATCAAAAAGCTCCC
GAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACACTAAGGCTTTGAAAACATC
AAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCT
TTGAAAACA
Found at i:1201391 original size:76 final size:76
Alignment explanation
Indices: 1201077--1201364 Score: 549
Period size: 76 Copynumber: 3.8 Consensus size: 76
1201067 TCAAAATAAT
*
1201077 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACACT
1 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCT
*
1201142 AAGTCTTTGAA
66 AAGGCTTTGAA
1201153 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCT
1 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCT
1201218 AAGGCTTTGAA
66 AAGGCTTTGAA
*
1201229 AACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCT
1 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCT
1201294 AAGGCTTTGAA
66 AAGGCTTTGAA
1201305 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATG
1 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATG
1201365 TGGGAAATAT
Statistics
Matches: 208, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
76 208 1.00
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (76 bp):
AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCT
AAGGCTTTGAA
Found at i:1205140 original size:31 final size:31
Alignment explanation
Indices: 1205102--1205160 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
1205092 ATATAAAATG
1205102 TGTCAACTCTGCAATTGATGAATTCAGAATC
1 TGTCAACTCTGCAATTGATGAATTCAGAATC
1205133 TGTCAACTCTGCAATTGATGAATTCAGA
1 TGTCAACTCTGCAATTGATGAATTCAGA
1205161 CCACATCTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (31 bp):
TGTCAACTCTGCAATTGATGAATTCAGAATC
Found at i:1207683 original size:31 final size:31
Alignment explanation
Indices: 1207648--1207710 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
1207638 AGAGATGTGG
1207648 TCTGAATTCATCAATTGCAGAGTTGACAGAT
1 TCTGAATTCATCAATTGCAGAGTTGACAGAT
1207679 TCTGAATTCATCAATTGCAGAGTTGACAGAT
1 TCTGAATTCATCAATTGCAGAGTTGACAGAT
1207710 T
1 T
1207711 TTATATGTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (31 bp):
TCTGAATTCATCAATTGCAGAGTTGACAGAT
Found at i:1208065 original size:76 final size:76
Alignment explanation
Indices: 1207831--1208082 Score: 461
Period size: 76 Copynumber: 3.3 Consensus size: 76
1207821 CTATTTCCCA
*
1207831 CATCTGTAAGTCCTACAGTGCA-GATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1207895 AGCCTTAGGGT
66 AGCCTTAGGGT
*
1207906 CATCTGTAAGTCATACAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1207971 AAGCCTTAGGGT
65 AAGCCTTAGGGT
1207983 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
1208048 AGCCTTAGTGT
66 AGCCTTAGGGT
1208059 CATCTGTAAGTCCTACAGTGCATG
1 CATCTGTAAGTCCTACAGTGCATG
1208083 TTATAAGTTA
Statistics
Matches: 171, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
75 21 0.12
76 76 0.44
77 74 0.43
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:1211311 original size:32 final size:32
Alignment explanation
Indices: 1211275--1211375 Score: 87
Period size: 32 Copynumber: 3.2 Consensus size: 32
1211265 TGCATAACAT
* *
1211275 AGTCAGTAGTGCATTCAGATAATGCGCAGTAG
1 AGTCAGTAGTGCATTCAGATAATGCACAGCAG
* * * * *
1211307 AGTCAATATTACATTTAGATAATGCACAACAG
1 AGTCAGTAGTGCATTCAGATAATGCACAGCAG
* * * *
1211339 AGTTAG-CGTTGCATTCAGATAGTGCACAGGAG
1 AGTCAGTAG-TGCATTCAGATAATGCACAGCAG
1211371 AGTCA
1 AGTCA
1211376 ATATCATATT
Statistics
Matches: 51, Mismatches: 17, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
32 51 1.00
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.26
Consensus pattern (32 bp):
AGTCAGTAGTGCATTCAGATAATGCACAGCAG
Found at i:1213320 original size:21 final size:23
Alignment explanation
Indices: 1213289--1213331 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 23
1213279 TATATTTTTT
1213289 TATATTTTTAATAAT-TAAATAA
1 TATATTTTTAATAATATAAATAA
1213311 TATA-TTTTAATAATATAAATA
1 TATATTTTTAATAATATAAATA
1213332 TAAAAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TATATTTTTAATAATATAAATAA
Found at i:1215602 original size:181 final size:182
Alignment explanation
Indices: 1215266--1215738 Score: 702
Period size: 182 Copynumber: 2.6 Consensus size: 182
1215256 CGATCCAAAT
* * * *
1215266 AAAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTATA-GAAATGA
1 AAAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTA-ACAAAATGA
* * * * * *
1215330 TAAAACCGGTAAAGCGCTACAGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACT
65 TAAAACCGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACT
*
1215395 TCGTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTA
130 TCGTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTA
* *
1215448 AAAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGATAACAAAATGAT
1 AAAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGAT
1215513 AAAACCGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTT
66 AAAACCGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* ** *
1215577 TGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTA
131 CGTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTA
** * *
1215629 AAAAAA-AAATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACTGGTATCAAAATGAT
1 AAAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGAT
*
1215693 AAAACCGGTAAAA-TTATACCGGATATATTGAAAGTGTCGATACTTT
66 AAAACCGGTAAAACGT-TACCGGATATATTGAAAGTGTCGATACTTT
1215739 CGTAAGTACG
Statistics
Matches: 265, Mismatches: 24, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
179 1 0.00
180 95 0.36
181 72 0.27
182 97 0.37
ACGTcount: A:0.44, C:0.14, G:0.17, T:0.26
Consensus pattern (182 bp):
AAAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGAT
AAAACCGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTT
CGTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTA
Found at i:1215682 original size:20 final size:19
Alignment explanation
Indices: 1215645--1215705 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
1215635 AAATCGATCC
* * *
1215645 AAAACGATATAACAGGTAA
1 AAAATGATAAAACCGGTAA
* *
1215664 AAATATGATAAAACTGGTATC
1 AAA-ATGATAAAACCGGTA-A
1215685 AAAATGATAAAACCGGTAA
1 AAAATGATAAAACCGGTAA
1215704 AA
1 AA
1215706 TTATACCGGA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 5 0.15
20 26 0.76
21 3 0.09
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (19 bp):
AAAATGATAAAACCGGTAA
Found at i:1215717 original size:180 final size:181
Alignment explanation
Indices: 1215276--1215738 Score: 689
Period size: 180 Copynumber: 2.6 Consensus size: 181
1215266 AAAAAATGTG
* *
1215276 TCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTAT-AGAAATGATAAAACCGGT
1 TCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCA-AAATGATAAAACCGGT
* * * * * *
1215340 AAAGCGCTACAGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTCGTGAATTT
65 AAAAC-TTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTCGTGAATTT
* **
1215405 AAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTAAAAAAATGTA
129 AAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAAAAAAATAAA
* * *
1215458 TCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGATAACAAAATGATAAAACCGGTA
1 TCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATAAAACCGGTA
*
1215523 AAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTTGTGAATTTA
66 AAAC-TTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTCGTGAATTTA
** *
1215587 AAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTAAAAAAA-AAA
130 AAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAAAAAAATAAA
*
1215638 TCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACTGGTATCAAAATGATAAAACCGGTA
1 TCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATAAAACCGGTA
*
1215703 AAATTATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACT-TACCGGATATATTGAAAGTGTCGATACTTT
1215739 CGTAAGTACG
Statistics
Matches: 256, Mismatches: 23, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
179 1 0.00
180 95 0.37
181 71 0.28
182 88 0.34
183 1 0.00
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (181 bp):
TCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATAAAACCGGTA
AAACTTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTCGTGAATTTAA
AAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAAAAAAATAAA
Found at i:1217929 original size:21 final size:21
Alignment explanation
Indices: 1217903--1217967 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
1217893 AAGACAATCA
*
1217903 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
*
1217924 AGAGTCGAATAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
1217945 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
1217966 AG
1 AG
1217968 GCATAAGGGG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.42, C:0.11, G:0.29, T:0.18
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:1218057 original size:33 final size:33
Alignment explanation
Indices: 1218001--1218063 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
1217991 AAATAGATGG
* *
1218001 AGTGGTGAAAGAAGTAGATGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
1218034 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGG
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGG
1218064 GTGATATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:1219882 original size:19 final size:19
Alignment explanation
Indices: 1219858--1219906 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
1219848 AATGTAGGGT
1219858 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
1219877 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
1219896 TATTTTTGTAT
1 TAATTTTGTAT
1219907 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:1220793 original size:200 final size:200
Alignment explanation
Indices: 1220025--1220988 Score: 1715
Period size: 200 Copynumber: 4.9 Consensus size: 200
1220015 CAATATGGCC
* *
1220025 AACAGGGTGCAACAATAAAGTGTCGAACCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
1220090 CCAAAAGTATAATGTAATATGTAATTTTCCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
1220155 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
1220220 TGGAA
196 TGGAA
1220225 AACAGGGTGCAACCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
1220289 CC-AAAGTATAATGTAATATGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
1220353 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAGTTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
1220418 TGGAA
196 TGGAA
1220423 AACAGGGTGCAACCATAAAGTGTCGATCC--ATATAAAAAGTGTCGATCCC-AAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1220485 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
1220550 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
1220615 TGGAA
196 TGGAA
*
1220620 AACAGGGTGCAACCATAAAGTGTCGATCTATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
* *
1220685 CAAAAAGTATAATGTAATATGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
1220750 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
1220815 TGGAA
196 TGGAA
*
1220820 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
1220885 CCAAAAGTATAATGTAATATATAATTTTTCAATCTAACCGGTACAAGTATACCGG--TT-T----
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
1220943 ---TATGTCTAAATAATATGTCGACACTTTTTTAGTTTGTGTCGATATT
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATT
1220989 AATTTAAATA
Statistics
Matches: 742, Mismatches: 17, Indels: 20
0.95 0.02 0.03
Matches are distributed among these distances:
190 45 0.06
196 19 0.03
197 174 0.23
198 159 0.21
199 51 0.07
200 294 0.40
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (200 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
TGGAA
Found at i:1222461 original size:6 final size:6
Alignment explanation
Indices: 1222450--1222549 Score: 60
Period size: 6 Copynumber: 16.7 Consensus size: 6
1222440 CAAGCGGTCA
* * * *
1222450 ATGAAG ATGAAG CT-AACG ATGAAG ATGACG ATGATG ATGACG ATGAAG
1 ATGAAG ATGAAG ATGAA-G ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* * * * * * * *
1222498 CTGACG ATGAAG ATGATG ACGATA- ATGATG ATGATG ATGATG ATGATG
1 ATGAAG ATGAAG ATGAAG ATGA-AG ATGAAG ATGAAG ATGAAG ATGAAG
1222546 ATGA
1 ATGA
1222550 TCCAAACAAG
Statistics
Matches: 75, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
5 2 0.03
6 71 0.95
7 2 0.03
ACGTcount: A:0.39, C:0.07, G:0.31, T:0.23
Consensus pattern (6 bp):
ATGAAG
Found at i:1222472 original size:12 final size:12
Alignment explanation
Indices: 1222450--1222549 Score: 85
Period size: 12 Copynumber: 8.3 Consensus size: 12
1222440 CAAGCGGTCA
*
1222450 ATGAAGATGAAG
1 ATGACGATGAAG
* *
1222462 CTAACGATGAAG
1 ATGACGATGAAG
*
1222474 ATGACGATGATG
1 ATGACGATGAAG
1222486 ATGACGATGAAG
1 ATGACGATGAAG
*
1222498 CTGACGATGAAG
1 ATGACGATGAAG
* *
1222510 ATGATGACGATA-
1 ATGACGATGA-AG
* *
1222522 ATGATGATGATG
1 ATGACGATGAAG
* *
1222534 ATGATGATGATG
1 ATGACGATGAAG
1222546 ATGA
1 ATGA
1222550 TCCAAACAAG
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
12 72 0.99
13 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.31, T:0.23
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:1222487 original size:3 final size:3
Alignment explanation
Indices: 1222467--1222550 Score: 87
Period size: 3 Copynumber: 28.0 Consensus size: 3
1222457 TGAAGCTAAC
* * * * * * *
1222467 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GAC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
1222515 GAC GAT AAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1222551 CCAAACAAGT
Statistics
Matches: 63, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.37, C:0.06, G:0.32, T:0.25
Consensus pattern (3 bp):
GAT
Found at i:1224483 original size:22 final size:22
Alignment explanation
Indices: 1224439--1224483 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
1224429 ATTACATAAC
**
1224439 TTTAAAAAAAGTATCGATTCTT
1 TTTAAAAAAAGTATCGACACTT
* *
1224461 TTTATAAAAAGTATGGACACTT
1 TTTAAAAAAAGTATCGACACTT
1224483 T
1 T
1224484 CAACATATTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (22 bp):
TTTAAAAAAAGTATCGACACTT
Found at i:1224798 original size:183 final size:184
Alignment explanation
Indices: 1224523--1225015 Score: 893
Period size: 183 Copynumber: 2.7 Consensus size: 184
1224513 GCAATGCTAT
*
1224523 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
* *
1224588 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTGTCAAAACGTGTCGAC
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTGTAAAAAAGTGTCGAC
1224652 AGTTACACATCGGAACCCAAAATTATAATGTAATAGATAATTTTGTAATATAAC
131 AGTTACACATCGGAACCCAAAATTATAATGTAATAGATAATTTTGTAATATAAC
1224706 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
1 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
*
1224771 GTGTCGGTACTTAATGTCCAGATTGGAAGAAAAATGTGTCGATACCATT-TAAAAAAGTGTCGAC
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTGTAAAAAAGTGTCGAC
* * * *
1224835 ATTTTCACATCGGAACCCATATTTATAATGTAATAGATAATTTTGTAATATAAC
131 AGTTACACATCGGAACCCAAAATTATAATGTAATAGATAATTTTGTAATATAAC
1224889 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
1 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
1224954 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTG-AAAAAAGTGTCG
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTGTAAAAAAGTGTCG
1225016 GTAATTTTAA
Statistics
Matches: 299, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
183 295 0.99
184 4 0.01
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.32
Consensus pattern (184 bp):
CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTGTAAAAAAGTGTCGAC
AGTTACACATCGGAACCCAAAATTATAATGTAATAGATAATTTTGTAATATAAC
Found at i:1227893 original size:23 final size:23
Alignment explanation
Indices: 1227862--1227934 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1227852 ATAGGTAAAA
*
1227862 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1227885 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1227908 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
1227931 ATAT
1 ATAT
1227935 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1228317 original size:23 final size:23
Alignment explanation
Indices: 1228291--1228363 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
1228281 ATAGGTAAAA
* *
1228291 ATATGATGTAATAAGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1228314 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1228337 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
1228360 ATAT
1 ATAT
1228364 TGTAAAGTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1228691 original size:431 final size:430
Alignment explanation
Indices: 1227659--1229134 Score: 2775
Period size: 429 Copynumber: 3.4 Consensus size: 430
1227649 GTTAATGTTG
* *
1227659 TTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAA
1 TTAAATTAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAA
1227724 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
*
1227789 AATTACATAACTTTAAACAAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
1227854 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
1227919 TAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGT
261 TAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGT
1227984 GG-AAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
326 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
*
1228048 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTG
391 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
* *
1228088 TTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAA
1 TTAAATTAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAA
1228153 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
1228218 AATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
*
1228283 AGGTAAAAATATGATGTAATAAGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
* *
1228348 TAGGTAGTGGTTATATTGTAAAGTATTTATCATTTTTATAAAAGTGTCTATACTTTTTTCACTGT
261 TAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGT
1228413 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
326 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
1228478 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
1228518 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATT-AAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1228583 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
65 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
* *
1228648 AAATTACATAACTTTAAA-AGAAGTATCGATCCTTTTTATAAAAAGTATGAACAATTTCAATATA
130 AAATTACATAACTTTAAACA-AAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATA
1228712 ATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGT
194 ATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGT
1228777 AATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATAC-TTTTTCACT
259 AATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACT
1228841 GTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
324 GTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
1228906 GCGTCTAATGATTTA-TTTTTACGTTACG--ATATATTATTA
389 GCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
*
1228945 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTCTGCAA
1 TTAAATT-AAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1229010 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
65 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
1229075 AAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
130 AAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
1229135 CATATTATAA
Statistics
Matches: 1028, Mismatches: 15, Indels: 10
0.98 0.01 0.01
Matches are distributed among these distances:
427 196 0.19
428 1 0.00
429 336 0.33
430 198 0.19
431 297 0.29
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (430 bp):
TTAAATTAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAA
TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
AATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
TAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGT
GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
Found at i:1228753 original size:23 final size:23
Alignment explanation
Indices: 1228722--1228794 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1228712 ATAGGTAAAA
*
1228722 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1228745 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1228768 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
1228791 ATAT
1 ATAT
1228795 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1232304 original size:20 final size:20
Alignment explanation
Indices: 1232263--1232304 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
1232253 AAAAAGTCAG
* *
1232263 TAGTATCGATACCTAGAGGT
1 TAGTATAGATACCCAGAGGT
*
1232283 TAGTATAGATACCCAGATGT
1 TAGTATAGATACCCAGAGGT
1232303 TA
1 TA
1232305 ATACCGATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.31
Consensus pattern (20 bp):
TAGTATAGATACCCAGAGGT
Found at i:1262986 original size:18 final size:18
Alignment explanation
Indices: 1262963--1262998 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1262953 ATATAACACA
*
1262963 TATGTCCCGAAGGACCAC
1 TATGTCCCAAAGGACCAC
1262981 TATGTCCCAAAGGACCAC
1 TATGTCCCAAAGGACCAC
1262999 GTAGACCCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.33, G:0.19, T:0.17
Consensus pattern (18 bp):
TATGTCCCAAAGGACCAC
Found at i:1263789 original size:20 final size:20
Alignment explanation
Indices: 1263764--1263821 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
1263754 TTCCCATTGA
1263764 AGTGCATCGGTGCATTCTAC
1 AGTGCATCGGTGCATTCTAC
*
1263784 AGTGCATCAGTGCATTCTAC
1 AGTGCATCGGTGCATTCTAC
*
1263804 AGTGCATCGATGCATTCT
1 AGTGCATCGGTGCATTCT
1263822 TTAACAGGTG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.31
Consensus pattern (20 bp):
AGTGCATCGGTGCATTCTAC
Found at i:1267205 original size:183 final size:184
Alignment explanation
Indices: 1266897--1267264 Score: 729
Period size: 183 Copynumber: 2.0 Consensus size: 184
1266887 CACATGTACC
1266897 ATTTCACGAGAAACACACATATCATTATATCAAATTATGGTTTCTTTTCAAAGCCCATGCACACT
1 ATTTCACGAGAAACACACATATCATTATATCAAATTATGGTTTCTTTTCAAAGCCCATGCACACT
1266962 ATTGAGAACTTAAGGTATGTGAGTACATAGAGGTTGTGCACAATCCTGTCACCACAACTCGTATA
66 ATTGAGAACTTAAGGTATGTGAGTACATAGAGGTTGTGCACAATCCTGTCACCACAACTCGTATA
1267027 AATCCCACTA-GGGCGCGTAGAATTTTTCCTGAAGGACCATGTAGATGTCCCAA
131 AATCCCACTAGGGGCGCGTAGAATTTTTCCTGAAGGACCATGTAGATGTCCCAA
1267080 ATTTCACGAGAAACACACATATCATTATATCAAATTATGGTTTCTTTTCAAAGCCCATGCACACT
1 ATTTCACGAGAAACACACATATCATTATATCAAATTATGGTTTCTTTTCAAAGCCCATGCACACT
1267145 ATTGAGAACTTAAGGTATGTGAGTACATAGAGGTTGTGCACAATCCTGTCACCACAACTCGTATA
66 ATTGAGAACTTAAGGTATGTGAGTACATAGAGGTTGTGCACAATCCTGTCACCACAACTCGTATA
1267210 AATCCCACTAGGGGCGCGTAGAATTTTTCCTGAAGGACCATGTAGATGTCCCAA
131 AATCCCACTAGGGGCGCGTAGAATTTTTCCTGAAGGACCATGTAGATGTCCCAA
1267264 A
1 A
1267265 GGACCACATA
Statistics
Matches: 184, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
183 140 0.76
184 44 0.24
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (184 bp):
ATTTCACGAGAAACACACATATCATTATATCAAATTATGGTTTCTTTTCAAAGCCCATGCACACT
ATTGAGAACTTAAGGTATGTGAGTACATAGAGGTTGTGCACAATCCTGTCACCACAACTCGTATA
AATCCCACTAGGGGCGCGTAGAATTTTTCCTGAAGGACCATGTAGATGTCCCAA
Found at i:1267434 original size:14 final size:15
Alignment explanation
Indices: 1267416--1267449 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
1267406 ACATATTCAC
*
1267416 ATCACATAGTTCTTT
1 ATCACATAGCTCTTT
1267431 -TCACATAGCTCTTT
1 ATCACATAGCTCTTT
1267445 ATCAC
1 ATCAC
1267450 TTTTCATATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.26, C:0.26, G:0.06, T:0.41
Consensus pattern (15 bp):
ATCACATAGCTCTTT
Found at i:1270762 original size:19 final size:20
Alignment explanation
Indices: 1270720--1270762 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
1270710 CCCAGTTAGG
* * *
1270720 TTCAGCTCCTTTTCAGCTAG
1 TTCAGCTCCTTTCCAACTAA
1270740 TTCAGCT-CTTTCCAACTAA
1 TTCAGCTCCTTTCCAACTAA
1270759 TTCA
1 TTCA
1270763 AATACCTTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.21, C:0.30, G:0.09, T:0.40
Consensus pattern (20 bp):
TTCAGCTCCTTTCCAACTAA
Found at i:1271438 original size:14 final size:15
Alignment explanation
Indices: 1271419--1271451 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1271409 ATATTTCCTT
*
1271419 ATTTACTTG-TTTTC
1 ATTTACGTGCTTTTC
1271433 ATTTACGTGCTTTTC
1 ATTTACGTGCTTTTC
1271448 ATTT
1 ATTT
1271452 CCATTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.15, C:0.15, G:0.09, T:0.61
Consensus pattern (15 bp):
ATTTACGTGCTTTTC
Found at i:1274827 original size:37 final size:37
Alignment explanation
Indices: 1274786--1274865 Score: 142
Period size: 37 Copynumber: 2.2 Consensus size: 37
1274776 CATGAAGAAA
* *
1274786 GTTGGTGCTGATTAGGATCATATTATCCCTTCTTATT
1 GTTGGTGCTGATTAGGATCATATCATCCCTCCTTATT
1274823 GTTGGTGCTGATTAGGATCATATCATCCCTCCTTATT
1 GTTGGTGCTGATTAGGATCATATCATCCCTCCTTATT
1274860 GTTGGT
1 GTTGGT
1274866 AATTTTTCCT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.17, C:0.17, G:0.21, T:0.44
Consensus pattern (37 bp):
GTTGGTGCTGATTAGGATCATATCATCCCTCCTTATT
Found at i:1279509 original size:28 final size:28
Alignment explanation
Indices: 1279470--1279527 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
1279460 GAAGAAATAA
*
1279470 AAAAATTAGATGGTTTTGGTTCAAAACT
1 AAAAATTAGATGGTTTTGGTTAAAAACT
1279498 AAAAATTAGATGGTTTTGGTTAAAAACT
1 AAAAATTAGATGGTTTTGGTTAAAAACT
1279526 AA
1 AA
1279528 CACTGAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.43, C:0.05, G:0.17, T:0.34
Consensus pattern (28 bp):
AAAAATTAGATGGTTTTGGTTAAAAACT
Found at i:1286967 original size:22 final size:23
Alignment explanation
Indices: 1286925--1286969 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
1286915 ATATATGATG
*
1286925 TTAAAAATAATCAGAAGTTAATA
1 TTAAAAATAATCAGAAATTAATA
1286948 TTAAAACA-AATCA-AAATTAATA
1 TTAAAA-ATAATCAGAAATTAATA
1286970 GTTTAAGTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 8 0.40
23 11 0.55
24 1 0.05
ACGTcount: A:0.60, C:0.07, G:0.04, T:0.29
Consensus pattern (23 bp):
TTAAAAATAATCAGAAATTAATA
Found at i:1290936 original size:27 final size:27
Alignment explanation
Indices: 1290903--1290963 Score: 122
Period size: 27 Copynumber: 2.3 Consensus size: 27
1290893 ACAAGTTCTG
1290903 AGTTGTTACATAACGTGGGGGATGAGA
1 AGTTGTTACATAACGTGGGGGATGAGA
1290930 AGTTGTTACATAACGTGGGGGATGAGA
1 AGTTGTTACATAACGTGGGGGATGAGA
1290957 AGTTGTT
1 AGTTGTT
1290964 TTGTCAACTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.28, C:0.07, G:0.36, T:0.30
Consensus pattern (27 bp):
AGTTGTTACATAACGTGGGGGATGAGA
Found at i:1294588 original size:122 final size:122
Alignment explanation
Indices: 1294371--1294620 Score: 367
Period size: 122 Copynumber: 2.0 Consensus size: 122
1294361 GGTTTATTCT
* * *
1294371 TATGATATAAACAATGATCAAAGTGGTATAGGATAAGAAAAGCTTTTAGTGACCATTGTGTTCTG
1 TATGATATAAACAACGATCAAAGTGGTATAGGATAAGAAAAGCTTTTAATGACCATTGTGTGCTG
** * * *
1294436 AGGTGAACTGAGCAACATAAGTCACTTATGTGATAGTGAAGTGGGGTCACTTCAACC
66 AGGTGAACCAAGCAACATAAGTCACTTATGTGAGAGTGAAATGAGGTCACTTCAACC
* **
1294493 TATGATATAAACAACGATCAAAGTGGTATAGGCTAATCAAAGCTTTTAATGACCATTGTGTGCTG
1 TATGATATAAACAACGATCAAAGTGGTATAGGATAAGAAAAGCTTTTAATGACCATTGTGTGCTG
* *
1294558 TGGTGAACCAAGCAACATTAA-TGACTTATGTGAGAGTGAAATGAGGTCACTTCAACC
66 AGGTGAACCAAGCAACA-TAAGTCACTTATGTGAGAGTGAAATGAGGTCACTTCAACC
1294615 TATGAT
1 TATGAT
1294621 TATTGGGTAT
Statistics
Matches: 114, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
122 111 0.97
123 3 0.03
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (122 bp):
TATGATATAAACAACGATCAAAGTGGTATAGGATAAGAAAAGCTTTTAATGACCATTGTGTGCTG
AGGTGAACCAAGCAACATAAGTCACTTATGTGAGAGTGAAATGAGGTCACTTCAACC
Found at i:1296121 original size:2 final size:2
Alignment explanation
Indices: 1296114--1296160 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
1296104 ATACTAACCA
1296114 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1296156 AC AC A
1 AC AC A
1296161 TATATATATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1296165 original size:2 final size:2
Alignment explanation
Indices: 1296160--1296191 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1296150 ACACACACAC
1296160 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1296192 GAAAACCAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1304982 original size:31 final size:32
Alignment explanation
Indices: 1304938--1305006 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 32
1304928 GTTTCAAAAA
* * *
1304938 TAAC-AAATCGGTCATAAATATTATCGATTTG
1 TAACAAAATCGGTCACAAACATTACCGATTTG
*
1304969 TAACAAAAT-GGTCACCAACATTACCGATTTG
1 TAACAAAATCGGTCACAAACATTACCGATTTG
1305000 TAACAAA
1 TAACAAA
1305007 GTAGTCACTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 29 0.88
32 4 0.12
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (32 bp):
TAACAAAATCGGTCACAAACATTACCGATTTG
Found at i:1306657 original size:21 final size:19
Alignment explanation
Indices: 1306631--1306671 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
1306621 TCTCTATTGT
*
1306631 TATTTTATT-ATAATATTTA
1 TATTTTTTTGATAA-ATTTA
1306650 TATTTTTTTGATAAATTTA
1 TATTTTTTTGATAAATTTA
1306669 TAT
1 TAT
1306672 ACACCTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (19 bp):
TATTTTTTTGATAAATTTA
Found at i:1312989 original size:21 final size:20
Alignment explanation
Indices: 1312959--1312998 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
1312949 TAGTAAAATG
*
1312959 TTACTTAAAACATTATATTTT
1 TTACTGAAAACATTA-ATTTT
*
1312980 TTACTGAAAATATTAATTT
1 TTACTGAAAACATTAATTT
1312999 CGCTACCTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (20 bp):
TTACTGAAAACATTAATTTT
Found at i:1313579 original size:38 final size:38
Alignment explanation
Indices: 1313528--1313603 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
1313518 TGCAGAACAC
1313528 CTATGCATCTTTAATTTCTCTTTTTAATAATATTTTTT
1 CTATGCATCTTTAATTTCTCTTTTTAATAATATTTTTT
1313566 CTATGCATCTTTAATTTCTCTTTTTAATAATATTTTTT
1 CTATGCATCTTTAATTTCTCTTTTTAATAATATTTTTT
1313604 TTAATTTCGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.13, G:0.03, T:0.61
Consensus pattern (38 bp):
CTATGCATCTTTAATTTCTCTTTTTAATAATATTTTTT
Found at i:1321913 original size:23 final size:23
Alignment explanation
Indices: 1321887--1321934 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
1321877 ATGACCTACT
1321887 TCAAAGGGAGTCCACAAGCTGCC
1 TCAAAGGGAGTCCACAAGCTGCC
1321910 TCAAAGGGAGTCCACAAGCTGCC
1 TCAAAGGGAGTCCACAAGCTGCC
1321933 TC
1 TC
1321935 TCCTCTCTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.31, G:0.25, T:0.15
Consensus pattern (23 bp):
TCAAAGGGAGTCCACAAGCTGCC
Found at i:1326210 original size:49 final size:48
Alignment explanation
Indices: 1326138--1326237 Score: 191
Period size: 49 Copynumber: 2.1 Consensus size: 48
1326128 AAGTAAATGG
1326138 TATTGAGGAGCATACATATTGTACAATGTATGCAATACATCTTTTTGTA
1 TATTGAGGAGCATACATATTGTACAATGTATGC-ATACATCTTTTTGTA
1326187 TATTGAGGAGCATACATATTGTACAATGTATGCATACATCTTTTTGTA
1 TATTGAGGAGCATACATATTGTACAATGTATGCATACATCTTTTTGTA
1326235 TAT
1 TAT
1326238 GCTTTGTATG
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
48 18 0.35
49 33 0.65
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (48 bp):
TATTGAGGAGCATACATATTGTACAATGTATGCATACATCTTTTTGTA
Found at i:1337950 original size:24 final size:24
Alignment explanation
Indices: 1337923--1337978 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
1337913 AACTGCACCA
* *
1337923 AATGTCTTTGATGCCTATACCATT
1 AATGGCTTTGATGCCTACACCATT
1337947 AATGGCTTTGATGCCTACACCATT
1 AATGGCTTTGATGCCTACACCATT
1337971 AATGGCTT
1 AATGGCTT
1337979 ACCAGGTCCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (24 bp):
AATGGCTTTGATGCCTACACCATT
Found at i:1339363 original size:80 final size:82
Alignment explanation
Indices: 1339209--1339365 Score: 185
Period size: 80 Copynumber: 1.9 Consensus size: 82
1339199 GCAACAGAGT
* * * * * *
1339209 AGTACTTTAGCGGCGTTTCTATAAAAATATCGCAGTAGGTTAATCTATAGTGGCATTATTTCAAT
1 AGTACGTTAGCGGCGTTTCTATAAAAATACCGCAATAGGTGAATCTATAGTGACATTATTTCAAC
*
1339274 AAACGCCGCAAAAGATC
66 AAACACCGCAAAAGATC
* * * *
1339291 AGTACGTTAGCGGCGTTT-TAT-AAAATGCCGCAATAGGTGCATCTATAGTGACGTT-TTTCTCA
1 AGTACGTTAGCGGCGTTTCTATAAAAATACCGCAATAGGTGAATCTATAGTGACATTATTTC-AA
1339353 CAAACACCGCAAA
65 CAAACACCGCAAA
1339366 TATATAGTGA
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
79 4 0.06
80 39 0.62
81 3 0.05
82 17 0.27
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.29
Consensus pattern (82 bp):
AGTACGTTAGCGGCGTTTCTATAAAAATACCGCAATAGGTGAATCTATAGTGACATTATTTCAAC
AAACACCGCAAAAGATC
Found at i:1342745 original size:21 final size:21
Alignment explanation
Indices: 1342712--1342755 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
1342702 ATTTACTATA
* *
1342712 ATGGATTTTAAGTTGGTTGTT
1 ATGGAATTAAAGTTGGTTGTT
*
1342733 ATGGAATTAAAGTTTGTTGTT
1 ATGGAATTAAAGTTGGTTGTT
1342754 AT
1 AT
1342756 ATATGTCATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (21 bp):
ATGGAATTAAAGTTGGTTGTT
Found at i:1343005 original size:42 final size:42
Alignment explanation
Indices: 1342951--1343093 Score: 121
Period size: 42 Copynumber: 3.4 Consensus size: 42
1342941 TTTATACAAA
* *
1342951 AAAAATGCCACTATAAAATTGTCAATAGCAGCGTTTTATTAT
1 AAAAACGCCACTATAAAATTGTCAATAGCGGCGTTTTATTAT
** * *
1342993 AAAAACGCCACTA-AAGTGTTAGAT-AATTTGCGGCG-TTTATGACT
1 AAAAACGCCACTATAA-AATT-G-TCAA-TAGCGGCGTTTTATTA-T
* * *
1343037 AAAAACTCCACTATATAATTGTCAATAGCGGCGTTTTAATAT
1 AAAAACGCCACTATAAAATTGTCAATAGCGGCGTTTTATTAT
* *
1343079 AAAAATGCCGCTATA
1 AAAAACGCCACTATA
1343094 TGTTGTGACA
Statistics
Matches: 77, Mismatches: 16, Indels: 16
0.71 0.15 0.15
Matches are distributed among these distances:
41 2 0.03
42 35 0.45
43 17 0.22
44 22 0.29
45 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (42 bp):
AAAAACGCCACTATAAAATTGTCAATAGCGGCGTTTTATTAT
Found at i:1343071 original size:86 final size:86
Alignment explanation
Indices: 1342887--1343083 Score: 240
Period size: 87 Copynumber: 2.3 Consensus size: 86
1342877 AAATACATAA
* * * *
1342887 TCAATACCGGCGTTTTACA-AAAAAAGCCACTAAAGTTTTAGATTATTTGCCCTGTTTATACAAA
1 TCAATAGCGGCGTTTTATATAAAAAAGCCACTAAAGTGTTAGATAATTTGCCCTGTTTATACAAA
1342951 AAAAATGCCACTATAAAATTG
66 AAAAATGCCACTATAAAATTG
* * *
1342972 TCAATAGCAGCGTTTTATTATAAAAACGCCACTAAAGTGTTAGATAATTTGCGGC-GTTTATGAC
1 TCAATAGCGGCGTTTTA-TATAAAAAAGCCACTAAAGTGTTAGATAATTTGC-CCTGTTTAT-AC
* * *
1343036 -TAAAAACT-CCACTATATAATTG
63 AAAAAAAATGCCACTATAAAATTG
1343058 TCAATAGCGGCGTTTTAATATAAAAA
1 TCAATAGCGGCGTTTT-ATATAAAAA
1343084 TGCCGCTATA
Statistics
Matches: 96, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
85 15 0.16
86 37 0.39
87 41 0.43
88 3 0.03
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (86 bp):
TCAATAGCGGCGTTTTATATAAAAAAGCCACTAAAGTGTTAGATAATTTGCCCTGTTTATACAAA
AAAAATGCCACTATAAAATTG
Found at i:1344021 original size:22 final size:22
Alignment explanation
Indices: 1343936--1344021 Score: 86
Period size: 22 Copynumber: 3.9 Consensus size: 22
1343926 CCATCAGATA
*
1343936 ACTAAAATGCCTTAGCACT-AGT
1 ACTAAAGTGCCTTAGCACTGA-T
* *
1343958 ACTAAAGTGACTCAGCACTGAT
1 ACTAAAGTGCCTTAGCACTGAT
* * *
1343980 AC-AGAAGTGCATTTGGACTGAT
1 ACTA-AAGTGCCTTAGCACTGAT
1344002 ACTAAAGTGCCTTAGCACTG
1 ACTAAAGTGCCTTAGCACTG
1344022 CTGAGAATAT
Statistics
Matches: 50, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
21 1 0.02
22 47 0.94
23 2 0.04
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.26
Consensus pattern (22 bp):
ACTAAAGTGCCTTAGCACTGAT
Found at i:1349517 original size:30 final size:31
Alignment explanation
Indices: 1349463--1349537 Score: 109
Period size: 30 Copynumber: 2.5 Consensus size: 31
1349453 TCTTTCTATT
1349463 TAAGTATCTAAAGTTATCTTTGTTGTCAAAA
1 TAAGTATCTAAAGTTATCTTTGTTGTCAAAA
*
1349494 TAAGTA-CTTAAAGTT-TTTTTGTTGTCAAAA
1 TAAGTATC-TAAAGTTATCTTTGTTGTCAAAA
*
1349524 TATGTATCTAAAGT
1 TAAGTATCTAAAGT
1349538 GTTCAATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
30 26 0.65
31 14 0.35
ACGTcount: A:0.35, C:0.08, G:0.13, T:0.44
Consensus pattern (31 bp):
TAAGTATCTAAAGTTATCTTTGTTGTCAAAA
Found at i:1351119 original size:26 final size:24
Alignment explanation
Indices: 1351058--1351120 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 24
1351048 ATCAAACCCG
1351058 AAATACAAGATATTCAACCCTAAACA
1 AAATACAA-A-ATTCAACCCTAAACA
*
1351084 AAATAAAAAATTCAACCC-AAACTCA
1 AAATACAAAATTCAACCCTAAA--CA
1351109 TAAATACAAAAT
1 -AAATACAAAAT
1351121 AATATTTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 3 0.09
24 9 0.28
25 3 0.09
26 17 0.53
ACGTcount: A:0.59, C:0.21, G:0.02, T:0.19
Consensus pattern (24 bp):
AAATACAAAATTCAACCCTAAACA
Found at i:1354147 original size:165 final size:165
Alignment explanation
Indices: 1353471--1354401 Score: 1029
Period size: 165 Copynumber: 5.8 Consensus size: 165
1353461 AGCTGTGTAA
* *
1353471 TCGAACTCTAAGATC-TTT-GTGACAGATAGCCCTTCTCG-CTTAGCTATG-T--AAATGA--TG
1 TCGAACTCGAAGGTCTTTTGGTGACAGATAGCCCTTCTCGCCTTAGCTATGCTGCAAATGATGTG
*
1353528 CCTT-GAGCTGA--GTA-TCGAACTTGAAGGTC-TTTGTT-GCAGATAACCCTTCTAGCCTTGAG
66 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAG
1353587 TTATG-T-AAATGATG-CCTTGGAGCTGAGCGTAG
131 TTATGCTCAAATGATGTCCTTGGAGCTGAGCGTAG
* * * * *
1353619 TCGAACTCGAAGGTCTTTTGTTG-CAGATAACCCTTCTAGCCTT-GTTATGCTACAAATG-TGTG
1 TCGAACTCGAAGGTCTTTTGGTGACAGATAGCCCTTCTCGCCTTAGCTATGCTGCAAATGATGTG
* * * *
1353681 CCTTGGAG-T-AGCATAGTCGAACTCGAAGGTCTTTGGTTGG-AGATAGCCCTTCTCA-ACTT-A
66 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCT-AGCCTTGA
* *
1353741 GTTATGCTGCAAATAATG-CCTTGGAGTTGAGCGTAG
130 GTTATGCT-CAAATGATGTCCTTGGAGCTGAGCGTAG
* * * * * *
1353777 T--AACTCAAAGGT-TTTTGTTGGA-AGATAACCCTT-TAGCCTTGAGTTATGCTGCAAATGATA
1 TCGAACTCGAAGGTCTTTTGGT-GACAGATAGCCCTTCTCGCCTT-AGCTATGCTGCAAATGATG
* * * *
1353837 TGCCTTGGAG-TGAACGTAGTAGAACTCGAAGGTCTTTTGTTGGAATATAACCCTTCTAGCCTTG
64 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTG
*
1353901 AGTTATGCTACAAATGATGTGCCTTGGAGATGAGCGTAG
129 AGTTATGCT-CAAATGATGT-CCTTGGAGCTGAGCGTAG
* *
1353940 TAGAACTCGAAGGTC-TTTGGTTGACAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
1 TCGAACTCGAAGGTCTTTTGG-TGACAGATAGCCCTTCTCGCCTT-AGCTATGCTGCAAATGATG
* * *
1354004 TGCCTTAGAGCTGAGCGTAGTTGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTA
64 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTG
* * *
1354069 AGTTATG-T-AAATAATGTACCTTAGAGCTAAGCGTAG
129 AGTTATGCTCAAATGATGT-CCTTGGAGCTGAGCGTAG
* * * *
1354105 TTGAACTCGAAGGTCTTTTGGTGACAGATAGCCCTTCTCGACTTAAGCTATGCTGTAAATAATGT
1 TCGAACTCGAAGGTCTTTTGGTGACAGATAGCCCTTCTCGCCTT-AGCTATGCTGCAAATGATGT
* *
1354170 GCCTTGGAGCTAAGCGTAGTCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTAGCCTTGC
65 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTG-
1354235 A-TTATGCTACAAATGATGTGCCTT-GAGCTGAGCGTAG
129 AGTTATGCT-CAAATGATGT-CCTTGGAGCTGAGCGTAG
** * * *
1354272 TCGAACTCGAAGGTCTTTTGGTGGTAGATAGCCCTTATTGCCTTGAGCTATGTTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTTGGTGACAGATAGCCCTTCTCGCCTT-AGCTATGCTGCAAATGATGT
* * * * *
1354337 GCCTT-GAGCTAAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAAATAGCACTTCTTGCCTTGA
65 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGA
1354401 G
130 G
1354402 CTATACTGTC
Statistics
Matches: 670, Mismatches: 71, Indels: 66
0.83 0.09 0.08
Matches are distributed among these distances:
148 13 0.02
149 22 0.03
150 6 0.01
152 6 0.01
153 7 0.01
154 5 0.01
155 35 0.05
156 43 0.06
157 16 0.02
158 37 0.06
159 28 0.04
160 14 0.02
161 17 0.03
163 18 0.03
165 160 0.24
166 71 0.11
167 104 0.16
168 68 0.10
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (165 bp):
TCGAACTCGAAGGTCTTTTGGTGACAGATAGCCCTTCTCGCCTTAGCTATGCTGCAAATGATGTG
CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAG
TTATGCTCAAATGATGTCCTTGGAGCTGAGCGTAG
Found at i:1354405 original size:83 final size:84
Alignment explanation
Indices: 1353526--1354401 Score: 990
Period size: 84 Copynumber: 10.8 Consensus size: 84
1353516 ATGTAAATGA
*
1353526 TGCCTT-GAGCTGA--GTA-TCGAACTTGAAGGTC-TTTGTT-GCAGATAACCCTTCTAGCCTTG
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTG
1353585 AGTTATG-T--AAATGA--
66 AGTTATGCTGCAAATGATG
1353599 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTT-GCAGATAACCCTTCTAGCCTT-
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTG
*
1353662 -GTTATGCTACAAATG-TG
66 AGTTATGCTGCAAATGATG
* * * *
1353679 TGCCTTGGAG-T-AGCATAGTCGAACTCGAAGGTCTTTGGTTGG-AGATAGCCCTTCTCA-ACTT
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCT-AGCCTT
*
1353740 -AGTTATGCTGCAAAT-A-A
65 GAGTTATGCTGCAAATGATG
* * *
1353757 TGCCTTGGAGTTGAGCGTAGT--AACTCAAAGGT-TTTTGTTGGAAGATAACCCTT-TAGCCTTG
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTG
*
1353818 AGTTATGCTGCAAATGATA
66 AGTTATGCTGCAAATGATG
* * * *
1353837 TGCCTTGGAG-TGAACGTAGTAGAACTCGAAGGTCTTTTGTTGGAATATAACCCTTCTAGCCTTG
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTG
*
1353901 AGTTATGCTACAAATGATG
66 AGTTATGCTGCAAATGATG
* * * * * * * *
1353920 TGCCTTGGAGATGAGCGTAGTAGAACTCGAAGGTCTTTGGTTGACAGATAGCCCTTCTCGACTTA
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTG
*
1353985 AGCTATGCTGCAAATGATG
66 AGTTATGCTGCAAATGATG
* * *
1354004 TGCCTTAGAGCTGAGCGTAGTTGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTA
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTG
*
1354069 AGTTATG-T--AAATAATG
66 AGTTATGCTGCAAATGATG
* * * * * * * * * *
1354085 TACCTTAGAGCTAAGCGTAGTTGAACTCGAAGGTCTTTTGGTGACAGATAGCCCTTCTCGACTTA
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTG
* * *
1354150 AGCTATGCTGTAAATAATG
66 AGTTATGCTGCAAATGATG
* *
1354169 TGCCTTGGAGCTAAGCGTAGTCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTAGCCTTG
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTG
*
1354234 CA-TTATGCTACAAATGATG
66 -AGTTATGCTGCAAATGATG
* * * * *
1354253 TGCCTT-GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGGTAGATAGCCCTTATTGCCTTG
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTG
* *
1354317 AGCTATGTTGCAAATGATG
66 AGTTATGCTGCAAATGATG
* * * * *
1354336 TGCCTT-GAGCTAAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAAATAGCACTTCTTGCCTTG
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTG
1354400 AG
66 AG
1354402 CTATACTGTC
Statistics
Matches: 698, Mismatches: 74, Indels: 52
0.85 0.09 0.06
Matches are distributed among these distances:
73 6 0.01
74 7 0.01
76 10 0.01
77 27 0.04
78 114 0.16
79 32 0.05
80 28 0.04
81 81 0.12
82 22 0.03
83 161 0.23
84 209 0.30
85 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (84 bp):
TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTG
AGTTATGCTGCAAATGATG
Found at i:1358875 original size:46 final size:48
Alignment explanation
Indices: 1358823--1358919 Score: 180
Period size: 46 Copynumber: 2.1 Consensus size: 48
1358813 GTATGAGAGA
1358823 TGGTGAGAGTCCAAATTGTATGGG-TTCTT-GGGAAGTTGAGTTGTAG
1 TGGTGAGAGTCCAAATTGTATGGGATTCTTGGGGAAGTTGAGTTGTAG
1358869 TGGTGAGAGTCCAAATTGTATGGGATTCTTGGGGAAGTTGAGTTGTAG
1 TGGTGAGAGTCCAAATTGTATGGGATTCTTGGGGAAGTTGAGTTGTAG
1358917 TGG
1 TGG
1358920 GATATTGGAT
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
46 24 0.49
47 5 0.10
48 20 0.41
ACGTcount: A:0.22, C:0.06, G:0.38, T:0.34
Consensus pattern (48 bp):
TGGTGAGAGTCCAAATTGTATGGGATTCTTGGGGAAGTTGAGTTGTAG
Found at i:1359774 original size:84 final size:84
Alignment explanation
Indices: 1359535--1360507 Score: 1088
Period size: 84 Copynumber: 11.7 Consensus size: 84
1359525 ATTTACCTCT
* * * * * * * *
1359535 GAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGATGACAGATAACCCTTCTCGACTTAAGCTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATG
*
1359599 CTACAAATGATGTGCCTTT
66 CTACAAATGATGTGCCTTG
* * * ** *
1359618 AAGCTGAGAGTAATCGAACTCGAAGGTC-TTTGTTGATAGATAACCCTTCTAGCCTTGAGTTATA
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATG
* *
1359682 TTATAAATGATGTGCCTTG
66 CTACAAATGATGTGCCTTG
* * *
1359701 GAGCTGAGCTTAGTCGAACTCAAAGGTCTTTTGTTGGTAGATAACCCTTCTAGCCTTGAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATG
*
1359766 CTGCAAATGATGTGCCTTG
66 CTACAAATGATGTGCCTTG
* * * * * *
1359785 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGTAGATAGCCCTTCTCA-ACTTAAGCTAT
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCT-AGCCTTGAGTTAT
* *
1359849 GCTGCAAATAATGTGCCTTG
65 GCTACAAATGATGTGCCTTG
* * * *
1359869 GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTT-G--G-----CCTTTTAGCCTTGAGTTATA
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATG
*
1359926 CTACAAATGATATGCCTTG
66 CTACAAATGATGTGCCTTG
** * * *
1359945 GAGCTGAATGTAGTCGAACTCGAAGGTCTTTTGTTGGAAGATAACCCTTCTAGCCTTGAATTATA
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATG
1360010 CTACAAATGATGTGCCTTG
66 CTACAAATGATGTGCCTTG
* * * * * * * * *
1360029 GAGATGAGCATAGTAGAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATG
* *
1360094 CTACAAATGACGTGCCTTA
66 CTACAAATGATGTGCCTTG
*
1360113 GAGCTGAGCGTAGTTGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATG
*
1360178 CT-CAAATGATGTGCCTTA
66 CTACAAATGATGTGCCTTG
* * * * ** * * * *
1360196 GAGCTAAGTGTAGTCGAACTCGAAGGTCTTTTGGTGGTAGATTGCCCTTCTCGACTTAAGCTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATG
*
1360261 CTGCAAATGATGTGCCTTG
66 CTACAAATGATGTGCCTTG
* *
1360280 GAGCTAAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTCTAGCCTTGAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATG
* * *
1360345 TTGCAAATGATGTTCCTTG
66 CTACAAATGATGTGCCTTG
* * * * * *
1360364 GAGCTGAGCATAGTCGAACTCGAAGGTCTTTTGGTGGCAGATAGCCCTTCTTGCCTTGAGCTATA
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATG
* * * *
1360429 TTGCAAATGATATGCCTTT
66 CTACAAATGATGTGCCTTG
* * * * * * *
1360448 GAGCTAAACGTAGTCGAACTCGAAGGTCTTTTGTTAGCAAATATCACTTCTTGCCTTGAG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAG
1360508 CTATACTGTC
Statistics
Matches: 767, Mismatches: 111, Indels: 23
0.85 0.12 0.03
Matches are distributed among these distances:
75 1 0.00
76 60 0.08
77 1 0.00
79 1 0.00
81 1 0.00
83 166 0.22
84 536 0.70
85 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (84 bp):
GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATG
CTACAAATGATGTGCCTTG
Found at i:1359897 original size:251 final size:253
Alignment explanation
Indices: 1359535--1360482 Score: 1210
Period size: 251 Copynumber: 3.8 Consensus size: 253
1359525 ATTTACCTCT
* * * * * *
1359535 GAGCTGAGTGTAATCGAACTCGAAGGTCTTT-GATGACAGATAACCCTTCTCGACTTAAGCTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCAACTTAAGCTATG
** * * **
1359599 CTACAAATGATGTGCCTTTAAGCTGAGAGTAATCGAACTCGAAGGTC-TTTGTTGATAGATAACC
66 CTACAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACC
* * * * *
1359663 CTTCTAGCCTTGAGTTATATTATAAATGATGTGCCTTGGAGCTGAGCT-TAGTCGAACTCAAAGG
131 CTTCTAGCCTTGAGTTATACTACAAATGATATGCCTTGGAGCTAAGCTGTAGTCGAACTCGAAGG
1359727 TCTTTTGTTGGTAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTG
196 TCTTTTGTTGGTAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTG
*
1359785 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGTAGATAGCCCTTCTCAACTTAAGCTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCAACTTAAGCTATG
* * * *
1359850 CTGCAAATAATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTT-G--G-----C
66 CTACAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACC
*
1359907 CTTTTAGCCTTGAGTTATACTACAAATGATATGCCTTGGAGCTGAA--TGTAGTCGAACTCGAAG
131 CTTCTAGCCTTGAGTTATACTACAAATGATATGCCTTGGAGCT-AAGCTGTAGTCGAACTCGAAG
* * * *
1359970 GTCTTTTGTTGGAAGATAACCCTTCTAGCCTTGAATTATACTACAAATGATGTGCCTTG
195 GTCTTTTGTTGGTAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTG
* * * *
1360029 GAGATGAGCATAGTAGAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCAACTTAAGCTATG
* * *
1360094 CTACAAATGACGTGCCTTAGAGCTGAGCGTAGTTGAACTCGAAGGTCTTTTGTTGGCAGATAACC
66 CTACAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACC
* * *
1360159 CTTCTAGCCTTGAGTTATGCT-CAAATGATGTGCCTTAGAGCTAAG-TGTAGTCGAACTCGAAGG
131 CTTCTAGCCTTGAGTTATACTACAAATGATATGCCTTGGAGCTAAGCTGTAGTCGAACTCGAAGG
* ** * * * *
1360222 TCTTTTGGTGGTAGATTGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTG
196 TCTTTTGTTGGTAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTG
* * * * *
1360280 GAGCTAAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTCT-AGCCTTGAGTTAT
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCA-ACTTAAGCTAT
* * * * * *
1360344 GTTGCAAATGATGTTCCTTGGAGCTGAGCATAGTCGAACTCGAAGGTCTTTTGGTGGCAGATAGC
65 GCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAAC
* * * * * *
1360409 CCTTCTTGCCTTGAGCTATATTGCAAATGATATGCCTTTGAGCTAAAC-GTAGTCGAACTCGAAG
130 CCTTCTAGCCTTGAGTTATACTACAAATGATATGCCTTGGAGCTAAGCTGTAGTCGAACTCGAAG
1360473 GTCTTTTGTT
195 GTCTTTTGTT
1360483 AGCAAATATC
Statistics
Matches: 603, Mismatches: 79, Indels: 30
0.85 0.11 0.04
Matches are distributed among these distances:
243 1 0.00
244 216 0.36
245 2 0.00
247 1 0.00
249 1 0.00
250 31 0.05
251 280 0.46
252 71 0.12
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (253 bp):
GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCAACTTAAGCTATG
CTACAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACC
CTTCTAGCCTTGAGTTATACTACAAATGATATGCCTTGGAGCTAAGCTGTAGTCGAACTCGAAGG
TCTTTTGTTGGTAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTG
Found at i:1361848 original size:95 final size:95
Alignment explanation
Indices: 1361669--1361913 Score: 278
Period size: 95 Copynumber: 2.5 Consensus size: 95
1361659 AATCCGGGGA
* ** * * *
1361669 GTTTAACCGATTTTTCTAGAGGGACAACTTATATCATTGTATA-TATATTATAATCACCTTTATC
1 GTTTAACCAATTACTCTAGAGGGACAACTCA-AGC-TT-TATAGTATATTATAATCACCTTGATC
* *
1361733 AGGCTAGCTGAATATTATCCATAAAGCCATGGC
63 AGGCTAGCTGAATATTATCCACAAAGCCAGGGC
* *
1361766 GTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATAGTATATTATAATCACCTTGATTAGG
1 GTTTAACCAATTACTCTAGAGGGACAACTCAAGCTTTATAGTATATTATAATCACCTTGATCAGG
* *
1361831 CTAGCT-AAGTCTTATCCACAAAGTCAGGGC
66 CTAGCTGAA-TATTATCCACAAAGCCAGGGC
* * ** *
1361861 GTTTAAACAATTACTTTAGAGGGACTGCTCAAGCTTTATTGTATATATATAAT
1 GTTTAACCAATTACTCTAGAGGGACAACTCAAGCTTTATAGTATAT-TATAAT
1361914 ATTATAATAT
Statistics
Matches: 128, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
94 6 0.05
95 87 0.68
96 8 0.06
97 27 0.21
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (95 bp):
GTTTAACCAATTACTCTAGAGGGACAACTCAAGCTTTATAGTATATTATAATCACCTTGATCAGG
CTAGCTGAATATTATCCACAAAGCCAGGGC
Found at i:1364913 original size:24 final size:23
Alignment explanation
Indices: 1364873--1364928 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
1364863 GAAAATGTAA
*
1364873 ATTTTAACATTATTAATGATATCT
1 ATTTTAA-ATTAATAATGATATCT
* * *
1364897 ATTTTAAATTAAATAATTATTTTT
1 ATTTTAAATT-AATAATGATATCT
1364921 ATTTTAAA
1 ATTTTAAA
1364929 CATAACAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 3 0.11
24 24 0.89
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.54
Consensus pattern (23 bp):
ATTTTAAATTAATAATGATATCT
Found at i:1369961 original size:14 final size:14
Alignment explanation
Indices: 1369942--1369992 Score: 102
Period size: 14 Copynumber: 3.6 Consensus size: 14
1369932 TCACTGGCAA
1369942 TGATGATTTTTGAT
1 TGATGATTTTTGAT
1369956 TGATGATTTTTGAT
1 TGATGATTTTTGAT
1369970 TGATGATTTTTGAT
1 TGATGATTTTTGAT
1369984 TGATGATTT
1 TGATGATTT
1369993 AAAGAATCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 37 1.00
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.57
Consensus pattern (14 bp):
TGATGATTTTTGAT
Found at i:1376141 original size:28 final size:28
Alignment explanation
Indices: 1376069--1376128 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
1376059 AAGATCACTT
* *
1376069 TAAAATTCATGAAACTCAACCAAAAACA
1 TAAAACTCACGAAACTCAACCAAAAACA
*
1376097 TAAAACTCGCGAAACTCAACCCAAAAAC-
1 TAAAACTCACGAAACTCAA-CCAAAAACA
1376125 TAAA
1 TAAA
1376129 GTTTACGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 20 0.71
29 8 0.29
ACGTcount: A:0.55, C:0.25, G:0.05, T:0.15
Consensus pattern (28 bp):
TAAAACTCACGAAACTCAACCAAAAACA
Found at i:1377697 original size:14 final size:14
Alignment explanation
Indices: 1377680--1377722 Score: 79
Period size: 14 Copynumber: 3.1 Consensus size: 14
1377670 GATAAAAGAT
1377680 AAATGAAAAATGAA
1 AAATGAAAAATGAA
1377694 AAATGAAAAATGAA
1 AAATGAAAAATGAA
1377708 AAATGAAAAAT-AA
1 AAATGAAAAATGAA
1377721 AA
1 AA
1377723 TCAACGGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
13 4 0.14
14 25 0.86
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.14
Consensus pattern (14 bp):
AAATGAAAAATGAA
Found at i:1377706 original size:21 final size:20
Alignment explanation
Indices: 1377680--1377722 Score: 77
Period size: 21 Copynumber: 2.1 Consensus size: 20
1377670 GATAAAAGAT
1377680 AAATGAAAAATGAAAAATGAA
1 AAATGAAAAATGAAAAAT-AA
1377701 AAATGAAAAATGAAAAATAA
1 AAATGAAAAATGAAAAATAA
1377721 AA
1 AA
1377723 TCAACGGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.14
Consensus pattern (20 bp):
AAATGAAAAATGAAAAATAA
Found at i:1377903 original size:45 final size:46
Alignment explanation
Indices: 1377878--1377965 Score: 146
Period size: 44 Copynumber: 2.0 Consensus size: 46
1377868 ATAAAAAATT
*
1377878 AAATTAAATTAAA-AACAATTTAAAAAGAAGAAAAAGAAATAAAAA
1 AAATAAAATTAAAGAACAATTTAAAAAGAAGAAAAAGAAATAAAAA
1377923 AAATAAAATTAAAGAACAATTT--AAAGAAGAAAAAGAAATAAAA
1 AAATAAAATTAAAGAACAATTTAAAAAGAAGAAAAAGAAATAAAA
1377966 TTTAAAATAA
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
44 21 0.51
45 12 0.29
46 8 0.20
ACGTcount: A:0.73, C:0.02, G:0.08, T:0.17
Consensus pattern (46 bp):
AAATAAAATTAAAGAACAATTTAAAAAGAAGAAAAAGAAATAAAAA
Found at i:1377932 original size:50 final size:47
Alignment explanation
Indices: 1377870--1377986 Score: 134
Period size: 44 Copynumber: 2.4 Consensus size: 47
1377860 AGGAGAAAAT
*
1377870 AAAAAATTAAATTAAATTAAAAACAATTTAAAAAGAAGAAAAAGAAATAA
1 AAAAAATAAAATT-AATTAAAAACAATTT--AAAGAAGAAAAAGAAATAA
*
1377920 AAAAAATAAAATT-A--AAGAACAATTTAAAGAAGAAAAAGAAATAA
1 AAAAAATAAAATTAATTAAAAACAATTTAAAGAAGAAAAAGAAATAA
1377964 AATTTAAAATAAAA-TAATTAAAA
1 AA---AAAATAAAATTAATTAAAA
1377987 GCAGAAAAAG
Statistics
Matches: 58, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
44 21 0.36
46 11 0.19
47 10 0.17
48 1 0.02
49 3 0.05
50 12 0.21
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.21
Consensus pattern (47 bp):
AAAAAATAAAATTAATTAAAAACAATTTAAAGAAGAAAAAGAAATAA
Found at i:1378025 original size:39 final size:39
Alignment explanation
Indices: 1377900--1378009 Score: 107
Period size: 39 Copynumber: 2.7 Consensus size: 39
1377890 AAACAATTTA
* * *
1377900 AAAAGAAGAAAAAGAAATAAAAAAAATAAAATTAAAGAACAATT
1 AAAAGAAGAAAAAGAAAT---AAAATTAAAAAT-AA-AATAATT
* *
1377944 TAAAGAAGAAAAAGAAATAAAATTTAAAATAAAATAATT
1 AAAAGAAGAAAAAGAAATAAAATTAAAAATAAAATAATT
*
1377983 AAAAGCAGAAAAAG-AATAAAA-TAAAAA
1 AAAAGAAGAAAAAGAAATAAAATTAAAAA
1378010 GTAATAAAAC
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
37 5 0.09
38 7 0.12
39 18 0.31
40 2 0.03
41 9 0.16
44 17 0.29
ACGTcount: A:0.74, C:0.02, G:0.09, T:0.15
Consensus pattern (39 bp):
AAAAGAAGAAAAAGAAATAAAATTAAAAATAAAATAATT
Found at i:1380592 original size:20 final size:19
Alignment explanation
Indices: 1380567--1380620 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
1380557 GCGAAATAAA
1380567 AATCGCAACGCGATCTCCAG
1 AATCGCAACGCGATC-CCAG
** *
1380587 AATCGCAAATCAGTTCCCAG
1 AATCGCAACGC-GATCCCAG
1380607 AATCGCAACGCGAT
1 AATCGCAACGCGAT
1380621 TATGAAGAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.33, C:0.31, G:0.19, T:0.17
Consensus pattern (19 bp):
AATCGCAACGCGATCCCAG
Found at i:1380735 original size:20 final size:20
Alignment explanation
Indices: 1380691--1380859 Score: 142
Period size: 20 Copynumber: 8.3 Consensus size: 20
1380681 GATTTTGACT
* *
1380691 ATCGCAACGAGTATCCGTAAA
1 ATCGCAATGCGTATCCGT-AA
* *
1380712 ATCGTAATGCGTATCCATAA
1 ATCGCAATGCGTATCCGTAA
* * * *
1380732 ATCGCAACGAGAATACGTAA
1 ATCGCAATGCGTATCCGTAA
* **
1380752 ATTGCAATGCGTATCTATAA
1 ATCGCAATGCGTATCCGTAA
* * * *
1380772 ATCGCAACGAGAATACGTAA
1 ATCGCAATGCGTATCCGTAA
1380792 ATCGCAATGCGTATCCGTAA
1 ATCGCAATGCGTATCCGTAA
* *
1380812 ATCGCAATGAC-AATACGTAAA
1 ATCGCAATG-CGTATCCGT-AA
*
1380833 ATTGCAATGCGTATCCGTAA
1 ATCGCAATGCGTATCCGTAA
1380853 ATCGCAA
1 ATCGCAA
1380860 CGCGATTTTT
Statistics
Matches: 111, Mismatches: 34, Indels: 7
0.73 0.22 0.05
Matches are distributed among these distances:
20 81 0.73
21 30 0.27
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAATGCGTATCCGTAA
Found at i:1380772 original size:40 final size:41
Alignment explanation
Indices: 1380691--1380861 Score: 238
Period size: 40 Copynumber: 4.2 Consensus size: 41
1380681 GATTTTGACT
* * *
1380691 ATCGCAACGAGTATCCGTAAAATCGTAATGCGTATCCATAA
1 ATCGCAACGAGAATACGTAAAATCGCAATGCGTATCCATAA
* *
1380732 ATCGCAACGAGAATACGT-AAATTGCAATGCGTATCTATAA
1 ATCGCAACGAGAATACGTAAAATCGCAATGCGTATCCATAA
*
1380772 ATCGCAACGAGAATACGT-AAATCGCAATGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAATGCGTATCCATAA
* * * *
1380812 ATCGCAATGACAATACGTAAAATTGCAATGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAATGCGTATCCATAA
1380853 ATCGCAACG
1 ATCGCAACG
1380862 CGATTTTTAA
Statistics
Matches: 117, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 72 0.62
41 45 0.38
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (41 bp):
ATCGCAACGAGAATACGTAAAATCGCAATGCGTATCCATAA
Found at i:1380791 original size:81 final size:81
Alignment explanation
Indices: 1380691--1380861 Score: 254
Period size: 81 Copynumber: 2.1 Consensus size: 81
1380681 GATTTTGACT
* * * *
1380691 ATCGCAACGAGTATCCGTAAAATCGTAATGCGTATCCATAAATCGCAACGAGAATACGT-AAATT
1 ATCGCAACGAGAATACGT-AAATCGCAATGCGTATCCATAAATCGCAACGACAATACGTAAAATT
*
1380755 GCAATGCGTATCTATAA
65 GCAATGCGTATCCATAA
* *
1380772 ATCGCAACGAGAATACGTAAATCGCAATGCGTATCCGTAAATCGCAATGACAATACGTAAAATTG
1 ATCGCAACGAGAATACGTAAATCGCAATGCGTATCCATAAATCGCAACGACAATACGTAAAATTG
*
1380837 CAATGCGTATCCGTAA
66 CAATGCGTATCCATAA
1380853 ATCGCAACG
1 ATCGCAACG
1380862 CGATTTTTAA
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
80 36 0.44
81 45 0.56
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (81 bp):
ATCGCAACGAGAATACGTAAATCGCAATGCGTATCCATAAATCGCAACGACAATACGTAAAATTG
CAATGCGTATCCATAA
Found at i:1381372 original size:21 final size:20
Alignment explanation
Indices: 1381324--1381386 Score: 83
Period size: 21 Copynumber: 3.1 Consensus size: 20
1381314 TAGCAATATT
1381324 GAAAATGAAAATCGCAAC-A
1 GAAAATGAAAATCGCAACGA
**
1381343 CGAAAATGACTATCGCAACGA
1 -GAAAATGAAAATCGCAACGA
1381364 GAGAAATGAAAATCGCAACGA
1 GA-AAATGAAAATCGCAACGA
1381385 GA
1 GA
1381387 TAATCGCAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 18 0.49
21 19 0.51
ACGTcount: A:0.51, C:0.17, G:0.21, T:0.11
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACGA
Found at i:1381459 original size:33 final size:35
Alignment explanation
Indices: 1381417--1381513 Score: 108
Period size: 33 Copynumber: 2.7 Consensus size: 35
1381407 AATTGGATTA
*
1381417 CGATTTTCATTTCGCGTTGCGATTC-T-CTCGTTG
1 CGATTTTCATTTCGCGTTGCGATTCTTCCGCGTTG
*
1381450 CGATTTTCATTTTGCGTTGCGATAGTCATTTCCGCGTTG
1 CGATTTTCATTTCGCGTTGCGAT--TC--TTCCGCGTTG
*
1381489 CGATTTTCATTCTCCCGTTGCGATT
1 CGATTTTCATT-TCGCGTTGCGATT
1381514 TTCATTTCAA
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
33 22 0.42
35 2 0.04
38 2 0.04
39 17 0.32
40 10 0.19
ACGTcount: A:0.11, C:0.24, G:0.21, T:0.44
Consensus pattern (35 bp):
CGATTTTCATTTCGCGTTGCGATTCTTCCGCGTTG
Found at i:1381488 original size:20 final size:20
Alignment explanation
Indices: 1381445--1381521 Score: 104
Period size: 20 Copynumber: 3.9 Consensus size: 20
1381435 GCGATTCTCT
*
1381445 CGTTGCGATTTTCATTT-TG
1 CGTTGCGATTTTCATTTCCG
**
1381464 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTTTCATTTCCG
1381484 CGTTGCGATTTTCATTCTCC-
1 CGTTGCGATTTTCATT-TCCG
1381504 CGTTGCGATTTTCATTTC
1 CGTTGCGATTTTCATTTC
1381522 AACCAAAAGA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
19 17 0.33
20 31 0.61
21 3 0.06
ACGTcount: A:0.12, C:0.23, G:0.19, T:0.45
Consensus pattern (20 bp):
CGTTGCGATTTTCATTTCCG
Found at i:1383489 original size:42 final size:42
Alignment explanation
Indices: 1383413--1383492 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
1383403 GACTCGCCTG
*
1383413 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCACTCCTATCGTTCAAGAGGCCCCTA
* * *
1383455 TCATTCCTCGAGAGTCCCCTCCTA-CAGTTCAAGAGGCC
1 TCATCCCTCAAGAGTCCACTCCTATC-GTTCAAGAGGCC
1383493 ATTGTCATCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 1 0.03
42 32 0.97
ACGTcount: A:0.23, C:0.36, G:0.17, T:0.24
Consensus pattern (42 bp):
TCATCCCTCAAGAGTCCACTCCTATCGTTCAAGAGGCCCCTA
Found at i:1385114 original size:19 final size:19
Alignment explanation
Indices: 1385048--1385107 Score: 93
Period size: 19 Copynumber: 3.2 Consensus size: 19
1385038 ACGAGAGAAA
* *
1385048 CGCAATGCGAAATTAAAAT
1 CGCAACGCGAAACTAAAAT
1385067 CGCAACGCGAAACTAAAAT
1 CGCAACGCGAAACTAAAAT
*
1385086 CGCAACGCGAAACTAAATT
1 CGCAACGCGAAACTAAAAT
1385105 CGC
1 CGC
1385108 GTTGCGATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 38 1.00
ACGTcount: A:0.43, C:0.25, G:0.17, T:0.15
Consensus pattern (19 bp):
CGCAACGCGAAACTAAAAT
Found at i:1385125 original size:19 final size:19
Alignment explanation
Indices: 1385103--1385229 Score: 94
Period size: 19 Copynumber: 7.2 Consensus size: 19
1385093 CGAAACTAAA
1385103 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
1385122 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* * *
1385137 -CCTCGTTGCGATTTTCAA
1 TTCGCGTTGCGATTTTCAT
*
1385155 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
1385170 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* **
1385188 TTCGCATTGCGATAGTCAT
1 TTCGCGTTGCGATTTTCAT
1385207 TTCCGCGTTGCGATTTTCAT
1 TT-CGCGTTGCGATTTTCAT
1385227 TTC
1 TTC
1385230 ACATTGTGAT
Statistics
Matches: 81, Mismatches: 16, Indels: 22
0.68 0.13 0.18
Matches are distributed among these distances:
14 17 0.21
16 6 0.07
17 6 0.07
19 36 0.44
20 16 0.20
ACGTcount: A:0.13, C:0.24, G:0.19, T:0.43
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:1385149 original size:33 final size:33
Alignment explanation
Indices: 1385107--1385249 Score: 178
Period size: 33 Copynumber: 4.2 Consensus size: 33
1385097 ACTAAATTCG
1385107 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
* *
1385140 CGTTGCGATTTTCAATTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
*
1385173 CGTTGCGATTTTCATTTCGCATTGCGATAGTCATTTCCG
1 CGTTGCGATTTTCATTTCGCATTGCGAT--TC----CCT
* * *
1385212 CGTTGCGATTTTCATTTCACATTGTGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1385245 CGTTG
1 CGTTG
1385250 GGATAGTAAT
Statistics
Matches: 95, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
33 64 0.67
35 2 0.02
37 2 0.02
39 27 0.28
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
Found at i:1385226 original size:20 final size:20
Alignment explanation
Indices: 1385173--1385229 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
1385163 GCGATTCTCT
1385173 CGTTGCGATTTTCATTT-CG
1 CGTTGCGATTTTCATTTCCG
* **
1385192 CATTGCGATAGTCATTTCCG
1 CGTTGCGATTTTCATTTCCG
1385212 CGTTGCGATTTTCATTTC
1 CGTTGCGATTTTCATTTC
1385230 ACATTGTGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.14, C:0.23, G:0.19, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTTTCATTTCCG
Found at i:1385245 original size:72 final size:66
Alignment explanation
Indices: 1385107--1385249 Score: 196
Period size: 72 Copynumber: 2.1 Consensus size: 66
1385097 ACTAAATTCG
* *
1385107 CGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCAATTCGCATTGCGATTCTC
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCGCGTTGCGATTTTCAATTCACATTGCGATTCTC
1385172 T
66 T
* *
1385173 CGTTGCGATTTTCATTTCGCATTGCGATAGTCATTTCCGCGTTGCGATTTTCATTTCACATTGTG
1 CGTTGCGATTTTCATTTCGCATTGCGAT--TC----CCGCGTTGCGATTTTCAATTCACATTGCG
1385238 ATTCTCT
60 ATTCTCT
1385245 CGTTG
1 CGTTG
1385250 GGATAGTAAT
Statistics
Matches: 67, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
66 28 0.42
68 2 0.03
72 37 0.55
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (66 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCCGCGTTGCGATTTTCAATTCACATTGCGATTCTC
T
Found at i:1385262 original size:72 final size:73
Alignment explanation
Indices: 1385140--1385280 Score: 194
Period size: 72 Copynumber: 1.9 Consensus size: 73
1385130 GCGATTCCCT
* ** * *
1385140 CGTTGCGATTTTCAATTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATAGT
1 CGTTGCGATTTTCAATTCACATTGCGATTCTCTCGTTGCGATAGTAATTTCCGCATTGCGATAGA
1385204 CATTTCCG
66 CATTTCCG
* * * *
1385212 CGTTGCGATTTTCATTTCACATTGTGATTCTCTCGTTGGGATAGTAATTTCCGCGTTGCGATAGA
1 CGTTGCGATTTTCAATTCACATTGCGATTCTCTCGTTGCGATAGTAATTTCCGCATTGCGATAGA
1385277 CATT
66 CATT
1385281 AAGATTTCTA
Statistics
Matches: 59, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
72 43 0.73
73 16 0.27
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.41
Consensus pattern (73 bp):
CGTTGCGATTTTCAATTCACATTGCGATTCTCTCGTTGCGATAGTAATTTCCGCATTGCGATAGA
CATTTCCG
Found at i:1386497 original size:9 final size:9
Alignment explanation
Indices: 1386483--1386507 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1386473 TACAGAATGG
1386483 ATGTTCAAC
1 ATGTTCAAC
1386492 ATGTTCAAC
1 ATGTTCAAC
1386501 ATGTTCA
1 ATGTTCA
1386508 TTTACAGTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (9 bp):
ATGTTCAAC
Found at i:1387526 original size:20 final size:19
Alignment explanation
Indices: 1387505--1387763 Score: 155
Period size: 20 Copynumber: 12.9 Consensus size: 19
1387495 GCGATAGTCA
*
1387505 GAATCTCGTTGCGATTTAC
1 GAATCGCGTTGCGATTTAC
* *
1387524 AGATTCGCATTGCGATTTAC
1 -GAATCGCGTTGCGATTTAC
*
1387544 -ATGTTCGCGTTGCGATTTAC
1 GA--ATCGCGTTGCGATTTAC
* *
1387564 GTATTCTCGTTGCGATTTAC
1 G-AATCGCGTTGCGATTTAC
* *
1387584 GGATACGCATTGCGATTTAC
1 GAAT-CGCGTTGCGATTTAC
* *
1387604 GTATTCTCGTTGCGATTTAC
1 G-AATCGCGTTGCGATTTAC
1387624 -AGATACGCGTTGCGATTTAC
1 GA-AT-CGCGTTGCGATTTAC
* * *
1387644 GTATTCTCGTTACGATTTAC
1 G-AATCGCGTTGCGATTTAC
* *
1387664 GGATACGCATTGCGATTTAC
1 GAAT-CGCGTTGCGATTTAC
* * *
1387684 GTATTCTCGTTGCAATTTAC
1 G-AATCGCGTTGCGATTTAC
*
1387704 GGATACGCGTTGCGATTTTAC
1 GAAT-CGCGTTGCGA-TTTAC
* * *
1387725 GGATACTCGTTGCGATAGT-C
1 GAAT-CGCGTTGCGAT-TTAC
1387745 AGAATCGCGTTGCGATTTA
1 -GAATCGCGTTGCGATTTA
1387764 TATGTTCGCG
Statistics
Matches: 185, Mismatches: 37, Indels: 34
0.72 0.14 0.13
Matches are distributed among these distances:
18 2 0.01
19 5 0.03
20 150 0.81
21 26 0.14
22 2 0.01
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.37
Consensus pattern (19 bp):
GAATCGCGTTGCGATTTAC
Found at i:1387555 original size:40 final size:41
Alignment explanation
Indices: 1387511--1387801 Score: 321
Period size: 40 Copynumber: 7.2 Consensus size: 41
1387501 GTCAGAATCT
* * * *
1387511 CGTTGCGATTTACAG-ATTCGCATTGCGATTTACATG-TTCG
1 CGTTGCGATTTAC-GTATTCTCGTTGCGATTTACAGGATACG
1387551 CGTTGCGATTTACGTATTCTCGTTGCGATTTAC-GGATACG
1 CGTTGCGATTTACGTATTCTCGTTGCGATTTACAGGATACG
*
1387591 CATTGCGATTTACGTATTCTCGTTGCGATTTACA-GATACG
1 CGTTGCGATTTACGTATTCTCGTTGCGATTTACAGGATACG
*
1387631 CGTTGCGATTTACGTATTCTCGTTACGATTTAC-GGATACG
1 CGTTGCGATTTACGTATTCTCGTTGCGATTTACAGGATACG
* *
1387671 CATTGCGATTTACGTATTCTCGTTGCAATTTAC-GGATACG
1 CGTTGCGATTTACGTATTCTCGTTGCGATTTACAGGATACG
* * * *
1387711 CGTTGCGATTTTACGGATACTCGTTGCGATAGT-CAGAAT-CG
1 CGTTGCGA-TTTACGTATTCTCGTTGCGAT-TTACAGGATACG
** * * * * *
1387752 CGTTGCGATTTATATGTTCGCGTTGCGATTTTCA-TATTCG
1 CGTTGCGATTTACGTATTCTCGTTGCGATTTACAGGATACG
1387792 CGTTGCGATT
1 CGTTGCGATT
1387802 ATGGAAAATC
Statistics
Matches: 218, Mismatches: 24, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
39 5 0.02
40 180 0.83
41 29 0.13
42 4 0.02
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.38
Consensus pattern (41 bp):
CGTTGCGATTTACGTATTCTCGTTGCGATTTACAGGATACG
Found at i:1387772 original size:20 final size:20
Alignment explanation
Indices: 1387749--1387801 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
1387739 ATAGTCAGAA
*
1387749 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
1387769 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
1387789 TCGCGTTGCGATT
1 TCGCGTTGCGATT
1387802 ATGGAAAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.13, C:0.19, G:0.25, T:0.43
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:1388153 original size:5 final size:5
Alignment explanation
Indices: 1388079--1388152 Score: 121
Period size: 5 Copynumber: 14.8 Consensus size: 5
1388069 ACATGAACAT
*
1388079 GATAT GATAC GATAC GATAC GATAC GATAC GATAC GATAC GATAC GATAC
1 GATAC GATAC GATAC GATAC GATAC GATAC GATAC GATAC GATAC GATAC
* *
1388129 GATAC GATAC GATAT GATAT GATA
1 GATAC GATAC GATAC GATAC GATA
1388153 TAATATAATA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 67 1.00
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (5 bp):
GATAC
Found at i:1388737 original size:23 final size:23
Alignment explanation
Indices: 1388711--1388758 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
1388701 ATAAAGTACA
*
1388711 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
1388734 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
1388757 AT
1 AT
1388759 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:1389211 original size:23 final size:23
Alignment explanation
Indices: 1389185--1389247 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1389175 ATATAACCAC
1389185 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1389208 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1389231 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1389248 GTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1389697 original size:34 final size:34
Alignment explanation
Indices: 1389657--1389722 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
1389647 AAGTTGTAGA
*
1389657 TTTTGATTTCCTTTTGCTTGGCATCATATGAGAT
1 TTTTGATTTCCTTTTGCTTGGCACCATATGAGAT
1389691 TTTTGATTTCCTTTTGCTTGGCACCATATGAG
1 TTTTGATTTCCTTTTGCTTGGCACCATATGAG
1389723 CTTTGGATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.17, C:0.17, G:0.18, T:0.48
Consensus pattern (34 bp):
TTTTGATTTCCTTTTGCTTGGCACCATATGAGAT
Found at i:1390017 original size:18 final size:18
Alignment explanation
Indices: 1389994--1390030 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1389984 GCCGAAATAT
1389994 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
1390012 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
1390030 A
1 A
1390031 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:1390494 original size:23 final size:23
Alignment explanation
Indices: 1390468--1390530 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
1390458 ATATAACCAC
1390468 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* * *
1390491 TACCTATTATATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1390514 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1390531 GTTTACCTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1390571 original size:21 final size:22
Alignment explanation
Indices: 1390546--1390595 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
1390536 CCTATTATAT
1390546 TAAAAGTG-TCCATACTTTTTA
1 TAAAAGTGATCCATACTTTTTA
* *
1390567 TAAAAAG-GATCGATACTTTTTT
1 T-AAAAGTGATCCATACTTTTTA
1390589 TAAAAGT
1 TAAAAGT
1390596 TATGTAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (22 bp):
TAAAAGTGATCCATACTTTTTA
Found at i:1390932 original size:25 final size:25
Alignment explanation
Indices: 1390875--1390940 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
1390865 CACTCAAAAG
*
1390875 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
1390900 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
1390925 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
1390941 TTAATGATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:1393717 original size:183 final size:183
Alignment explanation
Indices: 1393409--1394263 Score: 1624
Period size: 183 Copynumber: 4.7 Consensus size: 183
1393399 TTAAAATTAC
*
1393409 CGACACTTTTTTA-AATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
1 CGACACTTTTTAACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
* *
1393473 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGT
65 GATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCAAAAAACCGGTATATTTATACCGGT
1393538 TATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
130 TATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
* *
1393592 CGACACTTTTTAACAAAGTATTGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
1 CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
1393657 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCAAAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCAAAAAACCGGTATATTTATACCGGTT
1393722 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
1393775 CGACAC-TTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
1 CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
1393839 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCAAAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCAAAAAACCGGTATATTTATACCGGTT
1393904 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
1393957 CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
1 CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
*
1394022 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCAAAAAACCGGTATATTTATACCGGTT
1394087 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
1394140 CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
1 CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
*
1394205 ATTAAAAAGTGGCGATATAGGTTGTAGACCTATTCGCGCAAAAAACCGGTATATTTATA
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCAAAAAACCGGTATATTTATA
1394264 ATATGTTGAA
Statistics
Matches: 660, Mismatches: 10, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
182 180 0.27
183 478 0.72
184 2 0.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.33
Consensus pattern (183 bp):
CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCAAAAAACCGGTATATTTATACCGGTT
ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
Found at i:1394096 original size:365 final size:366
Alignment explanation
Indices: 1393409--1394263 Score: 1624
Period size: 365 Copynumber: 2.3 Consensus size: 366
1393399 TTAAAATTAC
*
1393409 CGACACTTTTTTA-AATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
1 CGACACTTTTTAACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
* *
1393473 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGT
65 GATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCAAAAAACCGGTATATTTATACCGGT
1393538 TATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTT
130 TATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTT
*
1393603 AACAAAGTATTGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAGATTAAAAAGTG
195 AACAAAGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAGATTAAAAAGTG
1393668 TCGATATAGGTTGTAGACCTATTCGCGCAAAAAACCGGTATATTTATACCGGTTATATTACAAAA
260 TCGATATAGGTTGTAGACCTATTCGCGCAAAAAACCGGTATATTTATACCGGTTATATTACAAAA
1393733 TTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
325 TTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
1393775 CGACAC-TTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
1 CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
1393839 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCAAAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCAAAAAACCGGTATATTTATACCGGTT
1393904 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTA
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTA
*
1393969 ACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAGATTAAAAAGTGT
196 ACAAAGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAGATTAAAAAGTGT
*
1394034 CGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAAT
261 CGATATAGGTTGTAGACCTATTCGCGCAAAAAACCGGTATATTTATACCGGTTATATTACAAAAT
1394099 TATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
326 TATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
1394140 CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
1 CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
*
1394205 ATTAAAAAGTGGCGATATAGGTTGTAGACCTATTCGCGCAAAAAACCGGTATATTTATA
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCAAAAAACCGGTATATTTATA
1394264 ATATGTTGAA
Statistics
Matches: 480, Mismatches: 7, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
365 355 0.74
366 125 0.26
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.33
Consensus pattern (366 bp):
CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCAAAAAACCGGTATATTTATACCGGTT
ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTA
ACAAAGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAGATTAAAAAGTGT
CGATATAGGTTGTAGACCTATTCGCGCAAAAAACCGGTATATTTATACCGGTTATATTACAAAAT
TATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
Found at i:1395740 original size:3 final size:3
Alignment explanation
Indices: 1395732--1395812 Score: 72
Period size: 3 Copynumber: 27.0 Consensus size: 3
1395722 ACTTGTTTGG
* * * **
1395732 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * * *
1395780 AGC TTC ATC GTC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1395813 GTCAGCTTCA
Statistics
Matches: 59, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.23, C:0.35, G:0.06, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:1395749 original size:12 final size:12
Alignment explanation
Indices: 1395736--1395824 Score: 88
Period size: 12 Copynumber: 7.4 Consensus size: 12
1395726 GTTTGGATCA
* *
1395736 TCATCTTCATCA
1 TCATCGTCATCT
* *
1395748 TCATCATCATCA
1 TCATCGTCATCT
* *
1395760 TCGTCATCATCT
1 TCATCGTCATCT
* *
1395772 TCATCGCCAGCT
1 TCATCGTCATCT
*
1395784 TCATCGTCATCA
1 TCATCGTCATCT
1395796 TCATCGTCATCT
1 TCATCGTCATCT
*
1395808 TCATCGTCAGCT
1 TCATCGTCATCT
1395820 TCATC
1 TCATC
1395825 TTCTGCGACC
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 65 1.00
ACGTcount: A:0.21, C:0.35, G:0.08, T:0.36
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:1395755 original size:18 final size:18
Alignment explanation
Indices: 1395736--1395827 Score: 76
Period size: 18 Copynumber: 5.1 Consensus size: 18
1395726 GTTTGGATCA
* *
1395736 TCATCTTCATCATCATCA
1 TCATCATCATCATCATCT
*
1395754 TCATCATCGTCATCATCT
1 TCATCATCATCATCATCT
** * * *
1395772 TCATCGCCAGCTTCATCG
1 TCATCATCATCATCATCT
*
1395790 TCATCATCATCGTCATCT
1 TCATCATCATCATCATCT
* * *
1395808 TCATCGTCAGCTTCATCT
1 TCATCATCATCATCATCT
1395826 TC
1 TC
1395828 TGCGACCGCT
Statistics
Matches: 57, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 57 1.00
ACGTcount: A:0.21, C:0.35, G:0.08, T:0.37
Consensus pattern (18 bp):
TCATCATCATCATCATCT
Found at i:1395788 original size:36 final size:36
Alignment explanation
Indices: 1395748--1395824 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
1395738 ATCTTCATCA
*
1395748 TCATCATCATCATCGTCATCATCTTCATCGCCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGCCAGCT
* * *
1395784 TCATCGTCATCATCATCGTCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGCCAGCT
1395820 TCATC
1 TCATC
1395825 TTCTGCGACC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.21, C:0.35, G:0.09, T:0.35
Consensus pattern (36 bp):
TCATCATCATCATCATCATCATCTTCATCGCCAGCT
Found at i:1395827 original size:6 final size:6
Alignment explanation
Indices: 1395736--1395827 Score: 67
Period size: 6 Copynumber: 15.3 Consensus size: 6
1395726 GTTTGGATCA
* * * * * * * *
1395736 TCATCT TCATCA TCATCA TCATCA TCGTCA TCATCT TCATCG CCAGCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * * * *
1395784 TCATCG TCATCA TCATCG TCATCT TCATCG TCAGCT TCATCT TC
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TC
1395828 TGCGACCGCT
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 68 1.00
ACGTcount: A:0.21, C:0.35, G:0.08, T:0.37
Consensus pattern (6 bp):
TCATCT
Found at i:1397629 original size:199 final size:199
Alignment explanation
Indices: 1397289--1398646 Score: 2493
Period size: 199 Copynumber: 6.8 Consensus size: 199
1397279 TTTAAATTAG
* *
1397289 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATA
*
1397354 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATAATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
1397419 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
1397484 AAAA
196 AAAA
*
1397488 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACTGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATA
1397553 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
1397618 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTTTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
1397683 AAAA
196 AAAA
1397687 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATA
*
1397752 ATTGTATCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
1397817 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
1397882 AAAA
196 AAAA
1397886 TATCGACACAAACTATA-TAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATA
1397950 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
1398015 CGACACTTTTTATATATGGATCGACACTTTATGGGTTCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
1398080 AAAA
196 AAAA
1398084 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATA
1398149 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * *
1398214 CGACACTTTTTATATACGGATTGACACTTTATGGGTTCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
1398279 AAAA
196 AAAA
* *
1398283 TATCGACACAAACTATATTAGCGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATA
*
1398348 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTCGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
1398413 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCATGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
1398478 AAAA
196 AAAA
* * * *
1398482 TATCGACACAAACTATATTAGTATCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAGA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATA
* * *
1398547 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
* *
1398612 TTGACACTTTTTATATATGGATCAACACTTTATGG
130 TCGACACTTTTTATATATGGATCGACACTTTATGG
1398647 TAAATTTGCC
Statistics
Matches: 1128, Mismatches: 29, Indels: 3
0.97 0.03 0.00
Matches are distributed among these distances:
198 196 0.17
199 885 0.78
200 47 0.04
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (199 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
AAAA
Found at i:1398439 original size:596 final size:597
Alignment explanation
Indices: 1397289--1398646 Score: 2511
Period size: 596 Copynumber: 2.3 Consensus size: 597
1397279 TTTAAATTAG
1397289 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
1397354 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATAATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
1397419 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
*
1397484 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACTGG
196 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGG
1397549 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
261 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
* *
1397614 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTTTGG
326 GGATCGACACTTTTTATATACGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
* *
1397679 AAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAA
391 AAAAAAAATATCGACACAAACTATATTAGCGTCGACACATTATTTAGACATATTATCTCATAAAA
*
1397744 CCGGTATAATTGTATCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGAT
456 CCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGAT
* *
1397809 TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATT
521 TTTCGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCATGTTTTCCATTCATT
1397874 CTGGAAAAAAAA
586 CTGGAAAAAAAA
* *
1397886 TATCGACACAAACTATA-TAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1397950 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
1398015 CGACACTTTTTATATATGGATCGACACTTTATGGGTTCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
1398080 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGG
196 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGG
1398145 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
261 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
* *
1398210 GGATCGACACTTTTTATATACGGATTGACACTTTATGGGTTCACCCTGTTTTCCATTCATTCTGG
326 GGATCGACACTTTTTATATACGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
1398275 AAAAAAAATATCGACACAAACTATATTAGCGTCGACACATTATTTAGACATATTATCTCATAAAA
391 AAAAAAAATATCGACACAAACTATATTAGCGTCGACACATTATTTAGACATATTATCTCATAAAA
1398340 CCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGAT
456 CCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGAT
1398405 TTTCGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCATGTTTTCCATTCATT
521 TTTCGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCATGTTTTCCATTCATT
1398470 CTGGAAAAAAAA
586 CTGGAAAAAAAA
* *
1398482 TATCGACACAAACTATATTAGTATCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAGA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* * *
1398547 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
* *
1398612 TTGACACTTTTTATATATGGATCAACACTTTATGG
130 TCGACACTTTTTATATATGGATCGACACTTTATGG
1398647 TAAATTTGCC
Statistics
Matches: 736, Mismatches: 23, Indels: 3
0.97 0.03 0.00
Matches are distributed among these distances:
596 582 0.79
597 106 0.14
598 48 0.07
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (597 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGG
TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
GGATCGACACTTTTTATATACGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
AAAAAAAATATCGACACAAACTATATTAGCGTCGACACATTATTTAGACATATTATCTCATAAAA
CCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGAT
TTTCGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCATGTTTTCCATTCATT
CTGGAAAAAAAA
Found at i:1398800 original size:19 final size:19
Alignment explanation
Indices: 1398754--1398802 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
1398744 TTATATTCAC
*
1398754 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
1398773 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
1398792 ATACAAAATTA
1 ATACAAAATTA
1398803 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:1400730 original size:21 final size:21
Alignment explanation
Indices: 1400692--1400753 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
1400682 CTTATGCCTC
* * *
1400692 TCAAGTGTATCTTCGACTCTC
1 TCAAGTTTCTCTTCGACTCTA
* *
1400713 TCGAGTTTCTCTAT-GACTCGA
1 TCAAGTTTCTCT-TCGACTCTA
1400734 TCAAGTTTCTCTTCGACTCT
1 TCAAGTTTCTCTTCGACTCT
1400754 TGATTGTCTT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.18, C:0.27, G:0.15, T:0.40
Consensus pattern (21 bp):
TCAAGTTTCTCTTCGACTCTA
Found at i:1400856 original size:15 final size:15
Alignment explanation
Indices: 1400836--1400868 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1400826 ACTCTGTTTT
*
1400836 CCCTCACCGTCGTCC
1 CCCTCACCGTCATCC
1400851 CCCTCACCGTCATCC
1 CCCTCACCGTCATCC
1400866 CCC
1 CCC
1400869 AATACAACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.64, G:0.09, T:0.18
Consensus pattern (15 bp):
CCCTCACCGTCATCC
Found at i:1403006 original size:17 final size:18
Alignment explanation
Indices: 1402984--1403026 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
1402974 ATATATCCGG
1402984 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
1403001 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
1403021 TATCAT
1 TATCAT
1403027 ATTTTTACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:1403197 original size:20 final size:20
Alignment explanation
Indices: 1403170--1403216 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
1403160 TCAGGTAACG
1403170 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
1403189 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
1403210 TTTTACC
1 TTTTACC
1403217 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:1403260 original size:181 final size:182
Alignment explanation
Indices: 1402956--1403428 Score: 689
Period size: 181 Copynumber: 2.6 Consensus size: 182
1402946 CGTACTTACG
* *
1402956 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACATTTTACCGGTTTTATCATTTTGATACCGGTTT
* * ** *
1403021 TATCATATTTTTACATGTTATATCGTTGTGGATCGATATTTTTTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
* *
1403086 AGGCGCTATAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * *
1403137 AAAGTATCGACACTTTTAATATATCAGGTAACGTTTTACCGGTTTTATCATTTTGTTACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACATTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
1403202 TATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
** *
1403267 AGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * * *
1403319 AAAGTACCGACACTTTAAATGTATCCGGTAGCACTTGACCGGTTTTATCATTTCT-ATACCGGTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACATTTTACCGGTTTTATCATTT-TGATACCGGTT
* * *
1403383 TTGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
65 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
1403429 AATTTGGATC
Statistics
Matches: 260, Mismatches: 30, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
181 163 0.63
182 96 0.37
183 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (182 bp):
AAAGTATCGACACTTTAAATATATCCGGTAACATTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:1403896 original size:229 final size:228
Alignment explanation
Indices: 1403495--1403981 Score: 866
Period size: 229 Copynumber: 2.1 Consensus size: 228
1403485 ACCTACTTTT
1403495 ATAAGTATGGACACTTTTATAAAAATGATATATACTTCTTTGAAAGTTATGTAATTTATGTTTCA
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTCTTTGAAAGTTATGTAATTTATGTTTCA
*
1403560 ATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAT
66 ATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAA
*
1403625 ATATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
131 AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
* *
1403690 CAAATATAATAATAAATATGTTTTCAACAGTGAA
196 CAAAGATAATAATAAATATATTTTC-ACAGTGAA
*
1403724 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTGAAAGTTATGTAATTTATGTTTCA
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTCTTTGAAAGTTATGTAATTTATGTTTCA
* *
1403789 ATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAA
66 ATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAA
*
1403854 AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGATTTTAAATTTAACAATATTAAC
131 AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
*
1403919 TAAAGATAATAATAAATATATTTTCACAGTGAA
196 CAAAGATAATAATAAATATATTTTCACAGTGAA
* *
1403952 AAAAGTATGGACACTTTTATAAAAAGGATA
1 ATAAGTATGGACACTTTTATAAAAATGATA
1403982 GATAATTTAC
Statistics
Matches: 247, Mismatches: 11, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
228 36 0.15
229 211 0.85
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (228 bp):
ATAAGTATGGACACTTTTATAAAAATGATATATACTTCTTTGAAAGTTATGTAATTTATGTTTCA
ATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAA
AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
CAAAGATAATAATAAATATATTTTCACAGTGAA
Found at i:1406299 original size:2 final size:2
Alignment explanation
Indices: 1406292--1406336 Score: 58
Period size: 2 Copynumber: 23.5 Consensus size: 2
1406282 TTATTGTTTT
* *
1406292 TA TA TA TA TA TT TT TA -A T- 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
1406332 TA TA T
1 TA TA T
1406337 GAAATTAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
1 2 0.05
2 37 0.95
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:1406413 original size:57 final size:53
Alignment explanation
Indices: 1406319--1406426 Score: 137
Period size: 55 Copynumber: 2.0 Consensus size: 53
1406309 TTATATATAT
1406319 ATATATATATATATATATGAAATTAATAAAAATAATTTAATATTCAAATTATAAC
1 ATATATATATATATATATGAAATTAATAAAAATAATTT-ATATT-AAATTATAAC
* * *
1406374 ATATATATATATATATATTATAGTTAATGATAAAA-AATTTATATTATATTATA
1 ATATATATATATATATATGA-AATTAAT-A-AAAATAATTTATATTAAATTATA
1406427 GTTAAAATTC
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
55 26 0.55
56 11 0.23
57 6 0.13
58 4 0.09
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.44
Consensus pattern (53 bp):
ATATATATATATATATATGAAATTAATAAAAATAATTTATATTAAATTATAAC
Found at i:1407343 original size:30 final size:33
Alignment explanation
Indices: 1407292--1407363 Score: 96
Period size: 31 Copynumber: 2.2 Consensus size: 33
1407282 CAACTTAAAA
*
1407292 TTTCAAAAATTTCAGAGGTTTAAATTA-ATTTTT
1 TTTC-AAAATTTCAAAGGTTTAAATTATATTTTT
*
1407325 TTT-AAAATTT-AAAGGTTTAATTTATATTTTT
1 TTTCAAAATTTCAAAGGTTTAAATTATATTTTT
1407356 TTTCAAAA
1 TTTCAAAA
1407364 ATTAGGGTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 12 0.34
31 16 0.46
32 4 0.11
33 3 0.09
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.51
Consensus pattern (33 bp):
TTTCAAAATTTCAAAGGTTTAAATTATATTTTT
Found at i:1407379 original size:32 final size:31
Alignment explanation
Indices: 1407292--1407379 Score: 74
Period size: 32 Copynumber: 2.8 Consensus size: 31
1407282 CAACTTAAAA
*
1407292 TTTCAAAAATTTCAGAGGTTTAAA-TTAATTTTT
1 TTTCAAAAA-TT-A-AGGGTTAAATTTAATTTTT
* * *
1407325 TTT-AAAATTTAAAGGTTTAATTTATATTTTT
1 TTTCAAAAATTAAGGGTTAAATTTA-ATTTTT
1407356 TTTCAAAAATT-AGGGTCTAAATTT
1 TTTCAAAAATTAAGGGT-TAAATTT
1407380 TTTTTGAATT
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
29 6 0.14
30 4 0.09
31 15 0.34
32 16 0.36
33 3 0.07
ACGTcount: A:0.36, C:0.05, G:0.09, T:0.50
Consensus pattern (31 bp):
TTTCAAAAATTAAGGGTTAAATTTAATTTTT
Found at i:1408426 original size:127 final size:126
Alignment explanation
Indices: 1408223--1408519 Score: 348
Period size: 126 Copynumber: 2.3 Consensus size: 126
1408213 GATAAAATGA
* * * ** ** *
1408223 TAATGTCTAATTATTTTCAATCGAGAATAAATGATATTTCATGCCTTAAAACATTCATTTATTAC
1 TAATATCTAATGATTTCCAATCGAGAATAAAT-A-ACCTC-T-CCTTAAAGTAGTCATTTATTAC
* * *
1408288 CTCAATTGAAATAAAGAGATATCACTATTTCGTCTTAAAATTCAATATTGATTCGAGCA-AAAGC
62 CTCAATCGAAATAAAGAGATATCACTATTCCGTCTTAAAA-TCAATATTGACTCGAG-ATAAAGC
1408352 -G
125 TG
*
1408353 ATAATATCTAATGATTTCCAATTGAGAATAAATAACCTCTCCTTAAAGTAGTCATTTATTA-CTC
1 -TAATATCTAATGATTTCCAATCGAGAATAAATAACCTCTCCTTAAAGTAGTCATTTATTACCT-
*
1408417 CAATCGAAATGAAGAGATATCACTATTCCGTCTTAAAATCAATATTGACTCGAGATAAAGCTG
64 CAATCGAAATAAAGAGATATCACTATTCCGTCTTAAAATCAATATTGACTCGAGATAAAGCTG
* * * *
1408480 TAATATCTGATTATTTCTAATCGAGAATAAATGACCTCTC
1 TAATATCTAATGATTTCCAATCGAGAATAAATAACCTCTC
1408520 ATGAATTAAA
Statistics
Matches: 145, Mismatches: 18, Indels: 11
0.83 0.10 0.06
Matches are distributed among these distances:
125 1 0.01
126 57 0.39
127 54 0.37
128 1 0.01
129 3 0.02
130 1 0.01
131 28 0.19
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (126 bp):
TAATATCTAATGATTTCCAATCGAGAATAAATAACCTCTCCTTAAAGTAGTCATTTATTACCTCA
ATCGAAATAAAGAGATATCACTATTCCGTCTTAAAATCAATATTGACTCGAGATAAAGCTG
Found at i:1408519 original size:126 final size:128
Alignment explanation
Indices: 1408268--1408573 Score: 352
Period size: 126 Copynumber: 2.4 Consensus size: 128
1408258 ATTTCATGCC
* * * * *
1408268 TTAAAACATTCATTTATTAC-CTCAATTGAAATAAAGAGATATCACTATTTCGTCTTAAAATTCA
1 TTAAAGCAGTCATTTATTACTC-CAATCGAAATGAAGAGATATCACTATTCCGTCTTAAAATTCA
* * *
1408332 ATATTGATTCGAGCAAAAGCGATAATATCTAATGATTTCCAATTGAGAATAAATAACCTCTC-C
65 ATATTGACTCGAGCAAAAGCGATAATATCTAATGATTTCCAATCGAGAATAAATAACCTCTCAA
*
1408395 TTAAAGTAGTCATTTATTACTCCAATCGAAATGAAGAGATATCACTATTCCGTCTTAAAA-TCAA
1 TTAAAGCAGTCATTTATTACTCCAATCGAAATGAAGAGATATCACTATTCCGTCTTAAAATTCAA
* * * *
1408459 TATTGACTCGAG-ATAAAGCTG-TAATATCTGATTATTTCTAATCGAGAATAAATGACCTCTCAT
66 TATTGACTCGAGCA-AAAGC-GATAATATCTAATGATTTCCAATCGAGAATAAATAACCTCTC--
1408522 GAA
127 -AA
* * * * * *
1408525 TTAAAGCATTCGTTTATTACTCCGACCGAAATGATGAGATATTACTATT
1 TTAAAGCAGTCATTTATTACTCCAATCGAAATGAAGAGATATCACTATT
1408574 TTCAATATCA
Statistics
Matches: 152, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
125 1 0.01
126 55 0.36
127 53 0.35
128 1 0.01
130 42 0.28
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (128 bp):
TTAAAGCAGTCATTTATTACTCCAATCGAAATGAAGAGATATCACTATTCCGTCTTAAAATTCAA
TATTGACTCGAGCAAAAGCGATAATATCTAATGATTTCCAATCGAGAATAAATAACCTCTCAA
Done.