Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008283.1 Hibiscus syriacus cultivar Beakdansim tig00110945_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: 2862730
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 14
Found at i:2155998 original size:23 final size:23
Alignment explanation
Indices: 2155952--2156000 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
2155942 TGATAACTTT
* *
2155952 TTTATTATTATATACTTCATTTG
1 TTTATTATTATATAATACATTTG
2155975 TTTATTATTATCATAATACA-TTG
1 TTTATTATTAT-ATAATACATTTG
2155998 TTT
1 TTT
2156001 TGTAACGGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.29, C:0.08, G:0.04, T:0.59
Consensus pattern (23 bp):
TTTATTATTATATAATACATTTG
Found at i:2156175 original size:2 final size:2
Alignment explanation
Indices: 2156162--2156223 Score: 115
Period size: 2 Copynumber: 30.5 Consensus size: 2
2156152 GTACTCCATG
2156162 TA TA TA TCA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2156205 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
2156224 GATAGAATAA
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 57 0.97
3 2 0.03
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2158333 original size:16 final size:16
Alignment explanation
Indices: 2158312--2158347 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
2158302 AGAGAAAAAG
2158312 AAAACCTAATCTTAAT
1 AAAACCTAATCTTAAT
*
2158328 AAAACCTACTCTTAAT
1 AAAACCTAATCTTAAT
2158344 AAAA
1 AAAA
2158348 TCAAAAGTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.53, C:0.19, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAACCTAATCTTAAT
Found at i:2165657 original size:43 final size:43
Alignment explanation
Indices: 2165584--2165668 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
2165574 CCGTGCATCA
* *
2165584 AACAAAACTTTACATATAGGGGACATCTTTCAGTCCTAACTTC
1 AACAAAACTTTACATATAGGGGACAACTTTCACTCCTAACTTC
* * *
2165627 AACAAAACTTTACATATATGGGATAACTTTCCCTCCTAACTT
1 AACAAAACTTTACATATAGGGGACAACTTTCACTCCTAACTT
2165669 TTCTAAAGCC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.35, C:0.24, G:0.09, T:0.32
Consensus pattern (43 bp):
AACAAAACTTTACATATAGGGGACAACTTTCACTCCTAACTTC
Found at i:2166487 original size:46 final size:49
Alignment explanation
Indices: 2166420--2166510 Score: 127
Period size: 46 Copynumber: 1.9 Consensus size: 49
2166410 TGGTATAAAT
* *
2166420 CCTAACCTCATGCTTTCTAGTTC-CATGC-TTTGTTT-GGAAAAATTAA
1 CCTAACCTCATGATTTCTAGTTCGCATGCATTTATTTAGGAAAAATTAA
2166466 CCTAA-CTGCATGATTTCTAGTTCGCATGCATTTATTTAGGAAAAA
1 CCTAACCT-CATGATTTCTAGTTCGCATGCATTTATTTAGGAAAAA
2166511 GAAAAGAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
45 2 0.05
46 19 0.49
47 5 0.13
48 6 0.15
49 7 0.18
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (49 bp):
CCTAACCTCATGATTTCTAGTTCGCATGCATTTATTTAGGAAAAATTAA
Found at i:2169282 original size:3 final size:3
Alignment explanation
Indices: 2169276--2169319 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
2169266 ATTTTTTGAT
* * *
2169276 TAA TAA TAA TAA AAA T-A TAA TAA TTA TAA TAA TTA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2169320 AAAATAAAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:2170179 original size:36 final size:36
Alignment explanation
Indices: 2170139--2170211 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
2170129 TTTCAATGTC
2170139 ATAATGGAACCATATCAAGATTCGCATTGTGCTCTA
1 ATAATGGAACCATATCAAGATTCGCATTGTGCTCTA
2170175 ATAATGGAACCATATCAAGATTCGCATTGTGCTCTA
1 ATAATGGAACCATATCAAGATTCGCATTGTGCTCTA
2170211 A
1 A
2170212 GTGAAGCTCG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.30
Consensus pattern (36 bp):
ATAATGGAACCATATCAAGATTCGCATTGTGCTCTA
Found at i:2180600 original size:2 final size:2
Alignment explanation
Indices: 2180595--2180623 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2180585 TTAATCATTA
2180595 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2180624 ACGATATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2181440 original size:26 final size:25
Alignment explanation
Indices: 2181390--2181440 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
2181380 TTTTTTTTCT
*
2181390 TTTTCTATAAAATTTTTTAAGTTTA
1 TTTTCTATAAAATTTTTAAAGTTTA
* *
2181415 TTTTCTCTAAAATTTTATAAATTTTA
1 TTTTCTATAAAATTTT-TAAAGTTTA
2181441 AATTAAGCGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (25 bp):
TTTTCTATAAAATTTTTAAAGTTTA
Found at i:2187993 original size:140 final size:140
Alignment explanation
Indices: 2187741--2188021 Score: 562
Period size: 140 Copynumber: 2.0 Consensus size: 140
2187731 TTATAGAAGA
2187741 CTTCAAATGGTGATTTTCCTTGCAAAACTTGTGTAGGCAACCGGTTGATGAGGTACACAGCTGAG
1 CTTCAAATGGTGATTTTCCTTGCAAAACTTGTGTAGGCAACCGGTTGATGAGGTACACAGCTGAG
2187806 CTTACTGCATATGACCAAAACCCGAAGGGAAGAGAGGCTTAAGCCATTAGCAAAAGAGCTAGTTC
66 CTTACTGCATATGACCAAAACCCGAAGGGAAGAGAGGCTTAAGCCATTAGCAAAAGAGCTAGTTC
2187871 AATGATATGG
131 AATGATATGG
2187881 CTTCAAATGGTGATTTTCCTTGCAAAACTTGTGTAGGCAACCGGTTGATGAGGTACACAGCTGAG
1 CTTCAAATGGTGATTTTCCTTGCAAAACTTGTGTAGGCAACCGGTTGATGAGGTACACAGCTGAG
2187946 CTTACTGCATATGACCAAAACCCGAAGGGAAGAGAGGCTTAAGCCATTAGCAAAAGAGCTAGTTC
66 CTTACTGCATATGACCAAAACCCGAAGGGAAGAGAGGCTTAAGCCATTAGCAAAAGAGCTAGTTC
2188011 AATGATATGG
131 AATGATATGG
2188021 C
1 C
2188022 GATGCCTTCT
Statistics
Matches: 141, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
140 141 1.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (140 bp):
CTTCAAATGGTGATTTTCCTTGCAAAACTTGTGTAGGCAACCGGTTGATGAGGTACACAGCTGAG
CTTACTGCATATGACCAAAACCCGAAGGGAAGAGAGGCTTAAGCCATTAGCAAAAGAGCTAGTTC
AATGATATGG
Found at i:2190754 original size:18 final size:17
Alignment explanation
Indices: 2190731--2190772 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
2190721 AACGTTAGAT
2190731 TATAAAATAAAATAAATA
1 TATAAAA-AAAATAAATA
*
2190749 TATAAAAAAATTAAAT-
1 TATAAAAAAAATAAATA
2190765 TA-AAAAAA
1 TATAAAAAA
2190773 TAAATCAAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 6 0.26
16 2 0.09
17 8 0.35
18 7 0.30
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
TATAAAAAAAATAAATA
Found at i:2190807 original size:17 final size:16
Alignment explanation
Indices: 2190787--2190848 Score: 52
Period size: 17 Copynumber: 3.8 Consensus size: 16
2190777 TCAAGGAAGG
2190787 AAATATTAAATTTAAAA
1 AAATATTAAA-TTAAAA
* *
2190804 AAATGTTAAAATAAAA
1 AAATATTAAATTAAAA
* * * *
2190820 AATAAAATAAATGAAGA
1 AA-ATATTAAATTAAAA
2190837 AAATATTAAATT
1 AAATATTAAATT
2190849 TCAGAAAAGA
Statistics
Matches: 33, Mismatches: 11, Indels: 3
0.70 0.23 0.06
Matches are distributed among these distances:
16 14 0.42
17 19 0.58
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (16 bp):
AAATATTAAATTAAAA
Found at i:2190824 original size:49 final size:49
Alignment explanation
Indices: 2190751--2190875 Score: 130
Period size: 50 Copynumber: 2.6 Consensus size: 49
2190741 AATAAATATA
* * *
2190751 TAAAAAAATTAAATTAAAAAAAT-AAATCAAGGAAGGAAATATTAAATT
1 TAAAAAAATTAAAATAAAAAAATAAAATAAAGGAAGAAAATATTAAATT
*
2190799 TAAAAAAATGTTAAAAT-AAAAAATAAAATAAATGAAGAAAATATTAAATT
1 TAAAAAAA--TTAAAATAAAAAAATAAAATAAAGGAAGAAAATATTAAATT
* * * *
2190849 TCAGAAAA-GAAAATAATAAATATAAAA
1 TAAAAAAATTAAAATAA-AAAAATAAAA
2190876 AAAAATGTTA
Statistics
Matches: 64, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
47 5 0.08
48 9 0.14
49 16 0.25
50 34 0.53
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.24
Consensus pattern (49 bp):
TAAAAAAATTAAAATAAAAAAATAAAATAAAGGAAGAAAATATTAAATT
Found at i:2190880 original size:19 final size:18
Alignment explanation
Indices: 2190853--2190925 Score: 51
Period size: 19 Copynumber: 3.9 Consensus size: 18
2190843 TAAATTTCAG
*
2190853 AAAAGAAAATAATAAATAT
1 AAAAAAAAATAATAAA-AT
**
2190872 AAAAAAAAATGTTAAAAGAT
1 AAAAAAAAATAAT-AAA-AT
*
2190892 AAAATAAAAATAA-AAAAC
1 AAAA-AAAAATAATAAAAT
*
2190910 AAAATAAAATAA-AAAA
1 AAAAAAAAATAATAAAA
2190926 GAAGTGAGAA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
17 11 0.25
18 5 0.11
19 13 0.30
20 9 0.20
21 6 0.14
ACGTcount: A:0.78, C:0.01, G:0.04, T:0.16
Consensus pattern (18 bp):
AAAAAAAAATAATAAAAT
Found at i:2190899 original size:12 final size:11
Alignment explanation
Indices: 2190884--2190924 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
2190874 AAAAAAATGT
2190884 TAAAAGATAAAA
1 TAAAA-ATAAAA
2190896 TAAAAATAAAA
1 TAAAAATAAAA
*
2190907 AACAAAATAAAA
1 TA-AAAATAAAA
2190919 TAAAAA
1 TAAAAA
2190925 AGAAGTGAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
11 11 0.42
12 15 0.58
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.15
Consensus pattern (11 bp):
TAAAAATAAAA
Found at i:2190920 original size:17 final size:18
Alignment explanation
Indices: 2190892--2190925 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
2190882 GTTAAAAGAT
2190892 AAAATAAAAATAAAAAAC
1 AAAATAAAAATAAAAAAC
2190910 AAAAT-AAAATAAAAAA
1 AAAATAAAAATAAAAAA
2190926 GAAGTGAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (18 bp):
AAAATAAAAATAAAAAAC
Found at i:2190958 original size:39 final size:40
Alignment explanation
Indices: 2190892--2191026 Score: 132
Period size: 39 Copynumber: 3.4 Consensus size: 40
2190882 GTTAAAAGAT
2190892 AAAATAAAAATAAAAAACAAAATAAAATAAAAAAGA-AGTGA
1 AAAATAAAAAT--AAAACAAAATAAAATAAAAAAGATAGTGA
* * *
2190933 GAAAATAAAAAT-AAACAAAATAAAATAAACAAGATTGTTA
1 -AAAATAAAAATAAAACAAAATAAAATAAAAAAGATAGTGA
** * * *
2190973 AATTTAAAAATAAAACAAAAT-AAATAAAAAGGAAAGTGT
1 AAAATAAAAATAAAACAAAATAAAATAAAAAAGATAGTGA
*
2191012 TAAATAAATAATAAA
1 AAAATAAA-AATAAA
2191027 TAATGGTAGT
Statistics
Matches: 76, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
39 47 0.62
40 18 0.24
42 11 0.14
ACGTcount: A:0.71, C:0.03, G:0.07, T:0.19
Consensus pattern (40 bp):
AAAATAAAAATAAAACAAAATAAAATAAAAAAGATAGTGA
Found at i:2190959 original size:14 final size:15
Alignment explanation
Indices: 2190934--2190964 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
2190924 AAGAAGTGAG
2190934 AAAATAAAAATAAAC
1 AAAATAAAAATAAAC
2190949 AAAAT-AAAATAAAC
1 AAAATAAAAATAAAC
2190963 AA
1 AA
2190965 GATTGTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.13
Consensus pattern (15 bp):
AAAATAAAAATAAAC
Found at i:2192305 original size:199 final size:199
Alignment explanation
Indices: 2191828--2192440 Score: 764
Period size: 199 Copynumber: 3.1 Consensus size: 199
2191818 GAGGTGACTT
* * * * * * *
2191828 CTTGTTGCCAAATCATAGTCAACCTTGGTCTTCTTCTCGGTTTAAAGACCTC-GATTTGAAAATT
1 CTTGTTG-CTAATCAAAGCCAACCTAGGTCTTCTTCTTGATTTAAAGACCTCAG-TTT-AAACTT
* * ** * *
2191892 AAACC-GAAAGTAGTTCCTCGATGCTACCATATGGTTGATATGCCCTCGAGCTGAATGAAATCAA
63 CAACCGGAAAGTAGTTCCTCGTTGCTACCATGCGGTTGATATGCCTTCGAGCTGAATGAAATCGA
* * * * *
2191956 ACTCGAAGGTTTTTTTATGACAGATAGCCCTTCTCGCCTTGAACTATGCTGTAAATTCGG-TTAG
128 ACTCGAAAG-TTTTGT-TGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTCGGCTGA-
*
2192020 GATATAGTTC
190 GAGATAGTTC
* * *
2192030 TTTGTTGCTAAATCAAAGCCAACCTAGGTCTACTTCTTGATTTAAAGACCCCAGTTTAAACTTCA
1 CTTGTTGCT-AATCAAAGCCAACCTAGGTCTTCTTCTTGATTTAAAGACCTCAGTTTAAACTTCA
* * *
2192095 ACCGAAAAGTAGTTCCTCGTTGCTACCATGCGGTTGATATGCCTTCGAGATAAATGAAATCGAAC
65 ACCGGAAAGTAGTTCCTCGTTGCTACCATGCGGTTGATATGCCTTCGAGCTGAATGAAATCGAAC
* *
2192160 TCGAAAGTTTTGTTGACAAATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTCGGCTGAGAGAT
130 TCGAAAGTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTCGGCTGAGAGAT
2192225 AGTTC
195 AGTTC
** *
2192230 CTTGTTGCTAATCGCAGCCAACCTAGGTCTTCTTCTTGACTTAAAGACCTCAGTTTAAACTTCAA
1 CTTGTTGCTAATCAAAGCCAACCTAGGTCTTCTTCTTGATTTAAAGACCTCAGTTTAAACTTCAA
* ** **
2192295 CCGGAAAGTAGTTTCTCGTTGCTACCATGCAATTGATATGTTTTCGAGCTGAATGAAATCGAACT
66 CCGGAAAGTAGTTCCTCGTTGCTACCATGCGGTTGATATGCCTTCGAGCTGAATGAAATCGAACT
* * * * ** *
2192360 CGAAAGTTTTGTTGATAGATAACCATTTTCTCCTTGAGCTATGCTGTAAATTTAGCTGGGAGATA
131 CGAAAGTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTCGGCTGAGAGATA
2192425 GTTC
196 GTTC
2192429 CTTGTTGCTAAT
1 CTTGTTGCTAAT
2192441 GACTTAAATA
Statistics
Matches: 357, Mismatches: 50, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
199 180 0.50
200 56 0.16
201 17 0.05
202 103 0.29
203 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.33
Consensus pattern (199 bp):
CTTGTTGCTAATCAAAGCCAACCTAGGTCTTCTTCTTGATTTAAAGACCTCAGTTTAAACTTCAA
CCGGAAAGTAGTTCCTCGTTGCTACCATGCGGTTGATATGCCTTCGAGCTGAATGAAATCGAACT
CGAAAGTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTCGGCTGAGAGATA
GTTC
Found at i:2192752 original size:86 final size:86
Alignment explanation
Indices: 2192646--2193104 Score: 648
Period size: 86 Copynumber: 5.3 Consensus size: 86
2192636 ATTCTTTAGT
* * ** * *
2192646 TGACCCCCCTTCACGGGAAAGCCAAATGGTATATTCTTCAGGTGGTTCCCCTTCACAGGTCTGAA
1 TGACTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTCGCGGGTCTGAA
2192711 CCAGGTGAGATGATCTTTGGA
66 CCAGGTGAGATGATCTTTGGA
* * * * *
2192732 TGACTCCCCTTTACGGGAAAGTCATGTGGTATATTCTTTAGGTGGTTTCCCTTTGCGGGTCTAAA
1 TGACTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTCGCGGGTCTGAA
*
2192797 CCAGGTTAGATGATCTTTGGA
66 CCAGGTGAGATGATCTTTGGA
**
2192818 TGACTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCAGTTCGCGGGTCTGAA
1 TGACTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTCGCGGGTCTGAA
*
2192883 CCAGGTGAAATGATCTTTGGA
66 CCAGGTGAGATGATCTTTGGA
* * *
2192904 TGACTCCCCTTCAAGGGAAAGTCATGTGGTATATTCTTCAAGTGGTTCCCCTTCACGGGTCTGAA
1 TGACTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTCGCGGGTCTGAA
* *
2192969 CCATGTTAGATGATCTTTTGGA
66 CCAGGTGAGATGATC-TTTGGA
* * * *
2192991 TGACTCTCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTCTCCTACGTGGGTCTGAA
1 TGACTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTCGCGGGTCTGAA
*
2193056 CCAGGTGAGATTATCTTTGGA
66 CCAGGTGAGATGATCTTTGGA
* * * *
2193077 TTACTCCACTTCATGGGAAATTCATGTG
1 TGACTCCCCTTCACGGGAAAGTCATGTG
2193105 AGATGTTCTT
Statistics
Matches: 328, Mismatches: 44, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
86 252 0.77
87 76 0.23
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.32
Consensus pattern (86 bp):
TGACTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTCGCGGGTCTGAA
CCAGGTGAGATGATCTTTGGA
Found at i:2197917 original size:6 final size:6
Alignment explanation
Indices: 2197906--2197941 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
2197896 CTTAATTGCA
2197906 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
2197942 TAAAGACTCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AAAATT
Found at i:2198112 original size:17 final size:17
Alignment explanation
Indices: 2198092--2198206 Score: 56
Period size: 18 Copynumber: 6.5 Consensus size: 17
2198082 TAAAAAAAGT
2198092 TAAAAGAAAAAATAAAA
1 TAAAAGAAAAAATAAAA
*
2198109 TAAATGAAGAAAATATTAAA
1 TAAAAGAA-AAAATA--AAA
***
2198129 TTTCAGAAAATAA-AATAA
1 TAAAAGAAAA-AATAA-AA
* * *
2198147 TAAAATATAAAAA-ATAT
1 TAAAAGA-AAAAATAAAA
*
2198164 TAAAAGAGAAAATAAAAA
1 TAAAAGAAAAAAT-AAAA
*
2198182 TAAAACAACAAAATAAAA
1 TAAAAGAA-AAAATAAAA
2198200 -AAAAGAA
1 TAAAAGAA
2198207 GTGAGAAATT
Statistics
Matches: 71, Mismatches: 18, Indels: 18
0.66 0.17 0.17
Matches are distributed among these distances:
16 4 0.06
17 21 0.30
18 26 0.37
19 11 0.15
20 9 0.13
ACGTcount: A:0.73, C:0.03, G:0.06, T:0.18
Consensus pattern (17 bp):
TAAAAGAAAAAATAAAA
Found at i:2198157 original size:50 final size:48
Alignment explanation
Indices: 2198049--2198161 Score: 133
Period size: 50 Copynumber: 2.3 Consensus size: 48
2198039 AATTAAATTA
* *
2198049 AAAAAAT-AAATAAATGAAGGAAATATTAAATTTTAAAAAAAGTTAAAAG
1 AAAAAATAAAATAAATGAAGAAAATATTAAATTTCAAAAAAA--TAAAAG
* *
2198098 AAAAAATAAAATAAATGAAGAAAATATTAAATTTC-AGAAAATAAAAT
1 AAAAAATAAAATAAATGAAGAAAATATTAAATTTCAAAAAAATAAAAG
2198145 AATAAAATATAAA-AAAT
1 AA-AAAATA-AAATAAAT
2198162 ATTAAAAGAG
Statistics
Matches: 57, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
47 7 0.12
48 10 0.18
49 15 0.26
50 25 0.44
ACGTcount: A:0.68, C:0.01, G:0.07, T:0.24
Consensus pattern (48 bp):
AAAAAATAAAATAAATGAAGAAAATATTAAATTTCAAAAAAATAAAAG
Found at i:2198241 original size:39 final size:37
Alignment explanation
Indices: 2198169--2198280 Score: 118
Period size: 39 Copynumber: 2.9 Consensus size: 37
2198159 AATATTAAAA
*
2198169 GAGAAAATAAAAATAAAACAACAA-AATAAAAAAAAGAAGT
1 GAGAAA-TTAAAATAAAACAA-AATAA-AAAAAAAA-AAGT
*
2198209 GAGAAATTAAAATAAAACAAAATAAAACAAAAAAAATT
1 GAGAAATTAAAATAAAACAAAATAAAA-AAAAAAAAGT
**
2198247 GTTAAATTTAATAATAAAACAAAATAAAAAAAAA
1 GAGAAA-TTAA-AATAAAACAAAATAAAAAAAAA
2198281 GGGAAGTGTT
Statistics
Matches: 64, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
38 11 0.17
39 30 0.47
40 23 0.36
ACGTcount: A:0.73, C:0.04, G:0.06, T:0.16
Consensus pattern (37 bp):
GAGAAATTAAAATAAAACAAAATAAAAAAAAAAAAGT
Found at i:2198303 original size:41 final size:39
Alignment explanation
Indices: 2198173--2198305 Score: 130
Period size: 41 Copynumber: 3.4 Consensus size: 39
2198163 TTAAAAGAGA
**
2198173 AAATAAAAATAA-AACAACAAAAT-AAAAAAAAGAAGTGAG
1 AAAT-AAAATAATAA-AACAAAATAAAAAAAAAGAAGTGTT
* * *
2198212 AAAT-TAA-AATAAAACAAAATAAAACAAAAAAAATTGTT
1 AAATAAAATAATAAAACAAAATAAAA-AAAAAGAAGTGTT
**
2198250 AAATTTAATAATAAAACAAAATAAAAAAAAAGGGAAGTGTT
1 AAATAAAATAATAAAACAAAATAAAAAAAAA--GAAGTGTT
2198291 AAATAAAATAATAAA
1 AAATAAAATAATAAA
2198306 TAATAATAGT
Statistics
Matches: 78, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
36 10 0.13
37 7 0.09
38 13 0.17
39 12 0.15
40 17 0.22
41 19 0.24
ACGTcount: A:0.71, C:0.04, G:0.08, T:0.18
Consensus pattern (39 bp):
AAATAAAATAATAAAACAAAATAAAAAAAAAGAAGTGTT
Found at i:2198374 original size:23 final size:24
Alignment explanation
Indices: 2198348--2198407 Score: 61
Period size: 23 Copynumber: 2.5 Consensus size: 24
2198338 AAGTTGTTTT
*
2198348 TAAAATAAAAGATAA-GAATTAAA
1 TAAAATAAAAGATAATGAAATAAA
* *
2198371 TAAAA-AAAAAATAATTAAATAAA
1 TAAAATAAAAGATAATGAAATAAA
*
2198394 TAAACTAAAGAGAT
1 TAAAATAAA-AGAT
2198408 TGAGATAAAG
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
22 8 0.28
23 15 0.52
24 3 0.10
25 3 0.10
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.22
Consensus pattern (24 bp):
TAAAATAAAAGATAATGAAATAAA
Found at i:2203501 original size:22 final size:21
Alignment explanation
Indices: 2203476--2203536 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
2203466 CAATATAAGG
*
2203476 TAAAAAAAATACTAATAATAAT
1 TAAAAAAAATA-TAATAATAAA
**
2203498 TAAAAAGCATGATAATAATAAA
1 TAAAAAAAAT-ATAATAATAAA
* *
2203520 TAAATAAAATAAAATAA
1 TAAAAAAAATATAATAA
2203537 GAATTTAGGG
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 6 0.19
22 24 0.77
23 1 0.03
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (21 bp):
TAAAAAAAATATAATAATAAA
Found at i:2204651 original size:27 final size:26
Alignment explanation
Indices: 2204622--2204676 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
2204612 TGTTTTTTAA
2204622 AAAAACTATATA-ATATAATTGTTTT
1 AAAAACTATATATATATAATTGTTTT
*
2204647 CAAAACTATATATTATATAA-T-TTTT
1 AAAAACTATATA-TATATAATTGTTTT
2204672 AAAAA
1 AAAAA
2204677 TGTTTTCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 19 0.73
26 1 0.04
27 6 0.23
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (26 bp):
AAAAACTATATATATATAATTGTTTT
Found at i:2204684 original size:36 final size:36
Alignment explanation
Indices: 2204641--2204775 Score: 182
Period size: 37 Copynumber: 3.7 Consensus size: 36
2204631 ATAATATAAT
*
2204641 TGTTTTCAAAACTATATATTATATAATTTTTAAAAA
1 TGTTTTCAAAACTATATATTATATAATTTTCAAAAA
2204677 TGTTTTCAAAAACTATATATTATATAATTTTCAAAGAA
1 TGTTTTC-AAAACTATATATTATATAATTTTCAAA-AA
* *
2204715 TGTTTTAAAAACTATATATTATATAATTTCCAAAAA
1 TGTTTTCAAAACTATATATTATATAATTTTCAAAAA
** *
2204751 CCATTTTC-AAACTATATAATATATA
1 -TGTTTTCAAAACTATATATTATATA
2204776 TATATGTATA
Statistics
Matches: 89, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
36 25 0.28
37 56 0.63
38 8 0.09
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (36 bp):
TGTTTTCAAAACTATATATTATATAATTTTCAAAAA
Found at i:2204963 original size:84 final size:83
Alignment explanation
Indices: 2204852--2205171 Score: 271
Period size: 84 Copynumber: 3.9 Consensus size: 83
2204842 TGTGCCTTGG
* * *
2204852 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTAATAGATAACCCTTCTAGCCTTGAGTTATGCT
1 AGCTGAGCGTAATCGAACTCGAAGGTCTTTGGT-ACAGATAACCCTTCTAGCCTTAAGTTATGCT
*
2204917 ATAAATGATATGCCCTCGA
65 GTAAATGATATGCCCTCGA
* * ** * * *
2204936 AGCTGAGTGTAATCAAACTCGGGGGTCTTTGG--CAG----CCCTTCTCGACTTAAGCTATGCTG
1 AGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTACAGATAACCCTTCTAGCCTTAAGTTATGCTG
* * * * *
2204995 CAAATTATAT-ACCTTGG
66 TAAATGATATGCCCTCGA
* * * *
2205012 AGCTGAACGTAGTCGAACTCGAAGGTCTTTGGTGACATATAACCCTTCTAGCCTTAAATTATGCT
1 AGCTGAGCGTAATCGAACTCGAAGGTCTTTGGT-ACAGATAACCCTTCTAGCCTTAAGTTATGCT
* *
2205077 GTAAATGGTGTGCCCTCGA
65 GTAAATGATATGCCCTCGA
* * * * * * * *
2205096 AGCTGAGTGTAATCGAACTCGAGGGTCTTTGG--CAGATAGCCCTTATTGACTTAAGCTATACTG
1 AGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTACAGATAACCCTTCTAGCCTTAAGTTATGCTG
* *
2205159 CAAATGATGTGCC
66 TAAATGATATGCC
2205172 TTAGAGCTTG
Statistics
Matches: 180, Mismatches: 48, Indels: 19
0.73 0.19 0.08
Matches are distributed among these distances:
76 30 0.17
77 27 0.15
79 2 0.01
81 36 0.20
83 26 0.14
84 59 0.33
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (83 bp):
AGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTACAGATAACCCTTCTAGCCTTAAGTTATGCTG
TAAATGATATGCCCTCGA
Found at i:2205076 original size:160 final size:161
Alignment explanation
Indices: 2204811--2205184 Score: 516
Period size: 160 Copynumber: 2.3 Consensus size: 161
2204801 AAATTAGTGT
* * * *
2204811 CCCTTCTCGACTTAGGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAG
1 CCCTTCTCGACTTAAGCTATACTGCAAATGATATACCTTGGAGCTGAACGTAGTCGAACTCGAAG
* * *
2204876 GTCTTTGGTAATAGATAACCCTTCTAGCCTTGAGTTATGCTATAAATGATATGCCCTCGAAGCTG
66 GTCTTTGGTAACAGATAACCCTTCTAGCCTTAAATTATGCTATAAATGATATGCCCTCGAAGCTG
*
2204941 AGTGTAATCAAACTCGGGGGTCTTTGGC-AG
131 AGTGTAATCAAACTCGAGGGTCTTTGGCAAG
* *
2204971 CCCTTCTCGACTTAAGCTATGCTGCAAATTATATACCTTGGAGCTGAACGTAGTCGAACTCGAAG
1 CCCTTCTCGACTTAAGCTATACTGCAAATGATATACCTTGGAGCTGAACGTAGTCGAACTCGAAG
* * * * *
2205036 GTCTTTGGTGACATATAACCCTTCTAGCCTTAAATTATGCTGTAAATGGTGTGCCCTCGAAGCTG
66 GTCTTTGGTAACAGATAACCCTTCTAGCCTTAAATTATGCTATAAATGATATGCCCTCGAAGCTG
*
2205101 AGTGTAATCGAACTCGAGGGTCTTTGGCAGATAG
131 AGTGTAATCAAACTCGAGGGTCTTTGGC--A-AG
* * * * *
2205135 CCCTTATTGACTTAAGCTATACTGCAAATGATGTGCCTTAGAGCTTGAAC
1 CCCTTCTCGACTTAAGCTATACTGCAAATGATATACCTTGGAGC-TGAAC
2205185 AAATGGAAGA
Statistics
Matches: 186, Mismatches: 23, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
160 142 0.76
164 39 0.21
165 5 0.03
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.30
Consensus pattern (161 bp):
CCCTTCTCGACTTAAGCTATACTGCAAATGATATACCTTGGAGCTGAACGTAGTCGAACTCGAAG
GTCTTTGGTAACAGATAACCCTTCTAGCCTTAAATTATGCTATAAATGATATGCCCTCGAAGCTG
AGTGTAATCAAACTCGAGGGTCTTTGGCAAG
Found at i:2207271 original size:25 final size:25
Alignment explanation
Indices: 2207229--2207276 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
2207219 TAATATATTA
* *
2207229 TATATAAAAAATATTTTCCAAAACC
1 TATATAAAAAATAATTTCAAAAACC
* *
2207254 TATATAATATATAATTTCAAAAA
1 TATATAAAAAATAATTTCAAAAA
2207277 TATTTTAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.35
Consensus pattern (25 bp):
TATATAAAAAATAATTTCAAAAACC
Found at i:2207322 original size:12 final size:12
Alignment explanation
Indices: 2207302--2207351 Score: 55
Period size: 12 Copynumber: 3.9 Consensus size: 12
2207292 TATTATATAC
*
2207302 TTTTTAAAAATG
1 TTTTCAAAAATG
2207314 TTTTCAAAATTATAG
1 TTTTCAAAA--AT-G
2207329 TTTTCAAAAATG
1 TTTTCAAAAATG
*
2207341 TTTTTAAAAAT
1 TTTTCAAAAAT
2207352 TATATATTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
12 19 0.58
13 2 0.06
14 2 0.06
15 10 0.30
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (12 bp):
TTTTCAAAAATG
Found at i:2207332 original size:27 final size:28
Alignment explanation
Indices: 2207297--2207355 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 28
2207287 TTATATATTA
* *
2207297 TATACTTTTTAAAAATG-TTTTCAAAAT
1 TATACTTTTCAAAAATGTTTTTAAAAAT
*
2207324 TATAGTTTTCAAAAATGTTTTTAAAAAT
1 TATACTTTTCAAAAATGTTTTTAAAAAT
2207352 TATA
1 TATA
2207356 TATTATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 15 0.54
28 13 0.46
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (28 bp):
TATACTTTTCAAAAATGTTTTTAAAAAT
Found at i:2207377 original size:40 final size:40
Alignment explanation
Indices: 2207327--2207461 Score: 197
Period size: 40 Copynumber: 3.5 Consensus size: 40
2207317 TCAAAATTAT
*
2207327 AGTTTTCAAAAATGTTTTTAAAAATTATATATTATATATA
1 AGTTTTCAAAAATGTTTTTAAAAACTATATATTATATATA
* *
2207367 AGTTTTCAAAAATATTTTCAAAAACTATATA-T-TATATA
1 AGTTTTCAAAAATGTTTTTAAAAACTATATATTATATATA
*
2207405 AGTTTTC-AAAATGATTTTAAAAACTATATATTATATA-A
1 AGTTTTCAAAAATGTTTTTAAAAACTATATATTATATATA
2207443 ATGTTTTCAAAAATGTTTT
1 A-GTTTTCAAAAATGTTTT
2207462 ATATAATATA
Statistics
Matches: 84, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
37 20 0.24
38 16 0.19
39 11 0.13
40 37 0.44
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.45
Consensus pattern (40 bp):
AGTTTTCAAAAATGTTTTTAAAAACTATATATTATATATA
Found at i:2207427 original size:37 final size:36
Alignment explanation
Indices: 2207327--2207619 Score: 257
Period size: 37 Copynumber: 8.0 Consensus size: 36
2207317 TCAAAATTAT
*
2207327 AGTTTTCAAAAATGTTTTTAAAAATTATATATTATATATA
1 AGTTTTC-AAAATG-TTTTAAAAACTATATA-T-TATATA
*
2207367 AGTTTTCAAAAATATTTTCAAAAACTATATATTATATA
1 AGTTTTC-AAAATGTTTT-AAAAACTATATATTATATA
2207405 AGTTTTCAAAATGATTTTAAAAACTATATATTATATAA
1 AGTTTTCAAAATG-TTTTAAAAACTATATATTATAT-A
2207443 ATGTTTTCAAAAATGTTTT----A-TATA-A-TATAT-
1 A-GTTTTC-AAAATGTTTTAAAAACTATATATTATATA
*
2207473 -GTTTTTAAAATGTTTTAAAAACTATATATTATATA
1 AGTTTTCAAAATGTTTTAAAAACTATATATTATATA
* *
2207508 TA-CTTTCAAAATGTTTTAAAAACTATATAATATATAA
1 -AGTTTTCAAAATGTTTTAAAAACTATATATTATAT-A
* * * *
2207545 ATGTTTTCAAAATATTTTTCAAAACCATATACTATATA
1 A-GTTTTCAAAAT-GTTTTAAAAACTATATATTATATA
* * *
2207583 TA-TTTTAAAAACGTTTTCAAAAACTATATAATATATA
1 -AGTTTTCAAAATGTTTT-AAAAACTATATATTATATA
2207620 CTTATTTTCA
Statistics
Matches: 214, Mismatches: 18, Indels: 45
0.77 0.06 0.16
Matches are distributed among these distances:
27 10 0.05
28 5 0.02
31 1 0.00
32 9 0.04
33 2 0.01
34 9 0.04
35 1 0.00
36 35 0.16
37 48 0.22
38 29 0.14
39 35 0.16
40 30 0.14
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.44
Consensus pattern (36 bp):
AGTTTTCAAAATGTTTTAAAAACTATATATTATATA
Found at i:2207498 original size:27 final size:28
Alignment explanation
Indices: 2207443--2207499 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
2207433 TATTATATAA
*
2207443 ATGTTTTCAAAAATGTTTTATATAATAT
1 ATGTTTTCAAAAATGTTTTATAAAATAT
*
2207471 ATGTTTT-TAAAATGTTTTA-AAAACTAT
1 ATGTTTTCAAAAATGTTTTATAAAA-TAT
2207498 AT
1 AT
2207500 ATTATATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 3 0.12
27 16 0.62
28 7 0.27
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (28 bp):
ATGTTTTCAAAAATGTTTTATAAAATAT
Found at i:2207521 original size:75 final size:76
Alignment explanation
Indices: 2207441--2207619 Score: 220
Period size: 75 Copynumber: 2.4 Consensus size: 76
2207431 TATATTATAT
* * * * * * *
2207441 AAATGTTTTCAAAAA-TGTTTTATATAATATATGTTTTTAAAAT-GTTTTAAAAACTATATATTA
1 AAATGTTTTCAAAAACTATATAATAT-ATAAATGTTTTCAAAATAGTTTTAAAAACCATATACTA
*
2207504 TATATACTTTCA
65 TATATACTTTAA
* *
2207516 AAATGTTTT-AAAAACTATATAATATATAAATGTTTTCAAAATATTTTTCAAAACCATATACTAT
1 AAATGTTTTCAAAAACTATATAATATATAAATGTTTTCAAAATAGTTTTAAAAACCATATACTAT
*
2207580 ATATATTTTAA
66 ATATACTTTAA
*
2207591 AAACGTTTTCAAAAACTATATAATATATA
1 AAATGTTTTCAAAAACTATATAATATATA
2207620 CTTATTTTCA
Statistics
Matches: 89, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
74 20 0.22
75 50 0.56
76 19 0.21
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (76 bp):
AAATGTTTTCAAAAACTATATAATATATAAATGTTTTCAAAATAGTTTTAAAAACCATATACTAT
ATATACTTTAA
Found at i:2207550 original size:102 final size:100
Alignment explanation
Indices: 2207254--2207556 Score: 337
Period size: 102 Copynumber: 3.0 Consensus size: 100
2207244 TTCCAAAACC
* * * *
2207254 TATATAATATATAATTTCAAAAATATTTT-AAAATTATATATTATATACT-TTTTAAAAATGTTT
1 TATATAATATAT-GTTTTAAAAATATTTTAAAAACTATATATTATATA-TATTTTCAAAATGTTT
* * * *
2207317 TCAAAA-T-TATAGTTTTCAAAAATGTTTTTAAAAATTA
64 TAAAAACTATATA-TTAT-ATAAATGTTTTCAAAAATTA
*
2207354 TATATTATATATAAGTTTTCAAAAATATTTTCAAAAACTATATATTATATA-AGTTTTCAAAATG
1 TATA-TA-ATATATGTTTT-AAAAATATTTT-AAAAACTATATATTATATATA-TTTTCAAAATG
*
2207418 ATTTTAAAAACTATATATTATATAAATGTTTTCAAAAATGTTT
61 -TTTTAAAAACTATATATTATATAAATGTTTTCAAAAA--TTA
* * *
2207461 TATATAATATATGTTTTTAAAATGTTTTAAAAACTATATATTATATATACTTTCAAAATGTTTTA
1 TATATAATATATGTTTTAAAAATATTTTAAAAACTATATATTATATATATTTTCAAAATGTTTTA
*
2207526 AAAACTATATAATATATAAATGTTTTCAAAA
66 AAAACTATATATTATATAAATGTTTTCAAAA
2207557 TATTTTTCAA
Statistics
Matches: 175, Mismatches: 15, Indels: 24
0.82 0.07 0.11
Matches are distributed among these distances:
100 4 0.02
101 5 0.03
102 51 0.29
103 29 0.17
104 37 0.21
105 33 0.19
106 6 0.03
107 10 0.06
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.46
Consensus pattern (100 bp):
TATATAATATATGTTTTAAAAATATTTTAAAAACTATATATTATATATATTTTCAAAATGTTTTA
AAAACTATATATTATATAAATGTTTTCAAAAATTA
Found at i:2207676 original size:76 final size:75
Alignment explanation
Indices: 2207485--2207698 Score: 197
Period size: 76 Copynumber: 2.8 Consensus size: 75
2207475 TTTTAAAATG
* * * * * *
2207485 TTTTAAAAACTATATATTATATATA-CTTTCAAA-ATGTTTTAAAAACTATATAATATATAAATG
1 TTTTCAAAAC-ATATACTATATATATTTTTCAAACAT-TTTCAAAAACTATATAATATATACATA
2207548 TTTTCAAAATAT
64 TTTTCAAAATAT
** * *
2207560 TTTTCAAAACCATATACTATATATATTTTAAAAACGTTTTCAAAAACTATATAATATATACTTAT
1 TTTTCAAAA-CATATACTATATATATTTTTCAAACATTTTCAAAAACTATATAATATATACATAT
2207625 TTTCAAAA-AT
65 TTTCAAAATAT
* *
2207635 CGTTTTCCGAAAA-TTATAC-AT-TATATTTTTTCAAACATTTTCAAAAACTATATTACTATATA
1 --TTTT-C-AAAACATATACTATATATA-TTTTTCAAACATTTTCAAAAACTATA-TAATATATA
2207697 CA
60 CA
2207699 CACACACACA
Statistics
Matches: 114, Mismatches: 16, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
75 27 0.24
76 63 0.55
77 19 0.17
78 1 0.01
79 4 0.04
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.43
Consensus pattern (75 bp):
TTTTCAAAACATATACTATATATATTTTTCAAACATTTTCAAAAACTATATAATATATACATATT
TTCAAAATAT
Found at i:2208609 original size:84 final size:81
Alignment explanation
Indices: 2208310--2209317 Score: 882
Period size: 84 Copynumber: 12.2 Consensus size: 81
2208300 TGCCTTGGGC
* * * * * *
2208310 TATACTGTAAATGATGTGCCTTGGAGTTGAG-GTAGTCGAACTCAAAGGTCTCTGTTGGTAGATA
1 TATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC-GAGGTCTTTGGT-GCAGATA
*
2208374 ACCCTTCTTGACTTAAGT
64 ACCCTTCTAGACTTAAGT
* * * *
2208392 TATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGT-TTTTG-GCAGATAG
1 TATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCG-AGGTCTTTGGTGCAGATAA
* * *
2208455 GCCTTCTCGACTTAAGC
65 CCCTTCTAGACTTAAGT
* * * *
2208472 TATACTGCAAATGATGTGCCTGGGAACTGAGCGTAGTTGAACTCGAAGGTCTTTGGTGACTGATA
1 TATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCG-AGGTCTTTGGTG-CAGATA
* *
2208537 ACCCTTCTAGCCTTGAGT
64 ACCCTTCTAGACTTAAGT
* * * * * * *
2208555 TATGCTGTAAATGATGTTCTCTCGAAGCTGAGTGTAATCGAACTCGAGGTTCTTT-G-GCAGATA
1 TATACTGCAAATGATGTGC-CTTGGAGCTGAGCGTAGTCGAACTCGAGG-TCTTTGGTGCAGATA
* *
2208618 ACCCTTCTCGACTTAAGC
64 ACCCTTCTAGACTTAAGT
* * *
2208636 TATATTGCAAATGATGTGCCTTAGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGAT
1 TATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC-GAGGTCTTTGG-T-GCAGAT
*
2208701 AACCCTTCTTGACTTAAGT
63 AACCCTTCTAGACTTAAGT
*
2208720 TATGA-TGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGA
1 TAT-ACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCG-AGGTC-TTTGGTG-CAGA
* *
2208784 TAACCCTTCTAGCCTTGAGT
62 TAACCCTTCTAGACTTAAGT
* * * * * *
2208804 TATACTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACTCGAGGGTCTTT-G-GCAGATA
1 TATACTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGA-GGTCTTTGGTGCAGATA
* *
2208867 GCCCTTCTCGACTTAAGT
64 ACCCTTCTAGACTTAAGT
* * * *
2208885 TATGCTGCAAATGATGTGCCTTGGAGCCGAGCATAGTCGAACTCGAAGGTCTTTGGTTGGTAGAT
1 TATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCG-AGGTCTTTGG-T-GCAGAT
* * *
2208950 AACTCTTCTAGCCTTGAGT
63 AACCCTTCTAGACTTAAGT
* * ** * * * * * *
2208969 TATACTGTAAATGATATGGCCTCAGCGTTGAGTGTAATCGAACTCGGGGGTCTTTTGTTGGCAGA
1 TATACTGCAAATGATGT-GCCTTGGAGCTGAGCGTAGTCGAACTC-GAGGTC-TTTGGT-GCAGA
*
2209034 CAACCCTTCTAGACTTAAGT
62 TAACCCTTCTAGACTTAAGT
* * *
2209054 TGTA-TGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTGACAGATA
1 TATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC-GAGGTCTTTGGTG-CAGATA
* *
2209118 ACCCTTCTAGCCTTGAGT
64 ACCCTTCTAGACTTAAGT
* * * * * * * * * * *
2209136 TATACTGTAAATGATATACCCTCGGCGCTGAGTGTAATCGAACTTGGGGGTATTTTGTTGGCAGA
1 TATACTGCAAATGATGT-GCCTTGGAGCTGAGCGTAGTCGAAC-TCGAGGT-CTTTGGT-GCAGA
*
2209201 CAACCCTTCTAGACTTAAGT
62 TAACCCTTCTAGACTTAAGT
* * *
2209221 TATGCTGCAAATGATGTGCCTTGGAGCTGATCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAAAT
1 TATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCG-AGGTCTTTGG-T-GCAGAT
* * * *
2209286 AACCCTTCTTGTCTTGAGC
63 AACCCTTCTAGACTTAAGT
*
2209305 TATATTGCAAATG
1 TATACTGCAAATG
2209318 TTACCTCAAA
Statistics
Matches: 738, Mismatches: 153, Indels: 68
0.77 0.16 0.07
Matches are distributed among these distances:
80 117 0.16
81 81 0.11
82 61 0.08
83 98 0.13
84 254 0.34
85 121 0.16
86 6 0.01
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (81 bp):
TATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAGGTCTTTGGTGCAGATAAC
CCTTCTAGACTTAAGT
Found at i:2208831 original size:249 final size:248
Alignment explanation
Indices: 2208287--2209317 Score: 1092
Period size: 249 Copynumber: 4.1 Consensus size: 248
2208277 TTTTATTGAT
* * * * * * * *
2208287 AGATAGCCCTTCTTGCCTTGGGCTATACTGTAAATGATGTGCCTTGGAGTTGAG-GTAGTCGAAC
1 AGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTGCCTCGAAGCTGAGTGTAATCGAAC
* * *
2208351 TCAAAGGTCTCTGTTGGTAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATATGCCTTGG
66 TCAAAGGT-TCT-TTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATATGCCTTGG
** * *
2208416 AGCTGAGCGTAGTCGAACTCGAAGG--TTT--TTGGCAGATAGGCCTTCTCGACTTAAGCTATAC
129 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGTTATAC
* * * *
2208477 TGCAAATGATGTGCCTGGGAACTGAGCGTAGTTGAACTCGAAGGTCTTTGGTGAC
194 TGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGAC
* * *
2208532 TGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTTCTCTCGAAGCTGAGTGTAATCGAA
1 AGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTGC-CTCGAAGCTGAGTGTAATCGAA
* * * * *
2208597 CTC-GAGGTTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATATTGCAAATGATGTGCCTTAGA
65 CTCAAAGGTTCTTTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATATGCCTTGGA
* *
2208661 GCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTTGACTTAAGTTATGA-
130 GCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGTTAT-AC
2208725 TGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGAC
194 TGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGAC
*
2208781 AGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAA
1 AGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTG-CCTCGAAGCTGAGTGTAATCGAA
* * * * *
2208846 CTC-GAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGA
65 CTCAAAGGTTCTTTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATATGCCTTGGA
* * * * * *
2208910 GCCGAGCATAGTCGAACTCGAAGGTCTTTGGTTGGTAGATAACTCTTCTAGCCTTGAGTTATACT
130 GCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGTTATACT
* ** * * * * ** * *
2208975 GTAAATGATATGGCCTCAGCGTTGAGTGTAATCGAACTCGGGGGTCTTTTGTTGGC
195 GCAAATGATAT-GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGAC
* * * * * * * * * *
2209031 AGACAACCCTTCTAGACTTAAGTTGTA-TGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAAC
1 AGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTGCCTCGAAGCTGAGTGTAATCGAAC
* * * * * *
2209095 TCAAAGG-TCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATATACCCTC
66 TCAAAGGTTCTTT-G-G-CAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATAT-GCCTT
* * * * ** * * *
2209159 GGCGCTGAGTGTAATCGAACTTGGGGGTATTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTAT
127 GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGTTAT
* * * *
2209224 GCTGCAAATGATGTGCCTTGGAGCTGATCGTAGTCGAACTCGAAGGTCTTTGGTTGGC
192 ACTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGAC
* * * * * *
2209282 AAATAACCCTTCTTGTCTTGAGCTATATTGCAAATG
1 AGATAACCCTTCTAGCCTTGAGTTATACTGTAAATG
2209318 TTACCTCAAA
Statistics
Matches: 655, Mismatches: 113, Indels: 29
0.82 0.14 0.04
Matches are distributed among these distances:
244 69 0.11
245 38 0.06
246 16 0.02
247 11 0.02
248 96 0.15
249 207 0.32
250 63 0.10
251 83 0.13
252 72 0.11
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (248 bp):
AGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTGCCTCGAAGCTGAGTGTAATCGAAC
TCAAAGGTTCTTTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATATGCCTTGGAG
CTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGTTATACTG
CAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGAC
Found at i:2208863 original size:165 final size:163
Alignment explanation
Indices: 2208287--2209317 Score: 1022
Period size: 165 Copynumber: 6.2 Consensus size: 163
2208277 TTTTATTGAT
* * * * * * *
2208287 AGATAGCCCTTCTTGCCTTGGGCTATACTGTAAATGATGTGCCTTGGAGTTGAG-GTAGTCGAAC
1 AGATAACCCTTCTAGCCTTGAGCTATACTGTAAATGATGTGCCCTCGAGCTGAGTGTAATCGAAC
* * * *
2208351 TCAAAGGTCTCTGTTGGTAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATATGCCTTGG
66 TC-GAGG-GTCTGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTGG
*
2208416 AGCTGAGCGTAGTCGAACTCGAAGGT-TTTTG-GC
129 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGC
** * * * * * * * * *
2208449 AGATAGGCCTTCTCGACTTAAGCTATACTGCAAATGATGTG-CCTGGGAACTGAGCGTAGTTGAA
1 AGATAACCCTTCTAGCCTTGAGCTATACTGTAAATGATGTGCCCT-CGAGCTGAGTGTAATCGAA
* * * * * * *
2208513 CTCGAAGGTCT-TTGGTGACTGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTTCTCT
65 CTCGAGGGTCTGTT-G-G-CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGC-CT
* * * *
2208577 CGAAGCTGAGTGTAATCGAACTCG-AGGTTCTTT-G-GC
126 TGGAGCTGAGCGTAGTCGAACTCGAAGG-TCTTTGGTGC
* * * * * * * * *
2208613 AGATAACCCTTCTCGACTTAAGCTATATTGCAAATGATGTGCCTTAGAGCTGAGCGTAGTCGAAC
1 AGATAACCCTTCTAGCCTTGAGCTATACTGTAAATGATGTGCCCTCGAGCTGAGTGTAATCGAAC
* * * *
2208678 TCAAAGGTCTTTGGTTGGCAGATAACCCTTCTTGACTTAAGTTATGATGCAAATGATATGCCTTG
66 TCGAGGGTC--T-GTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTG
2208743 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGAC
128 GAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTG-C
* *
2208781 AGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAA
1 AGATAACCCTTCTAGCCTTGAGCTATACTGTAAATGATGTGCCCTCG-AGCTGAGTGTAATCGAA
* * *
2208846 CTCGAGGGTCT-TTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGA
65 CTCGAGGGTCTGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTGGA
* * *
2208910 GCCGAGCATAGTCGAACTCGAAGGTCTTTGGTTGGT
130 GCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-T-GC
* * * *
2208946 AGATAACTCTTCTAGCCTTGAGTTATACTGTAAATGATATGGCCTC-AGCGTTGAGTGTAATCGA
1 AGATAACCCTTCTAGCCTTGAGCTATACTGTAAATGATGTGCCCTCGAGC--TGAGTGTAATCGA
* * * *
2209010 ACTCGGGGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGT-ATGCAAATGATATGCCT
64 ACTCGAGGGTC---TGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCT
*
2209074 TGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTGAC
126 TGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTG-C
* * * *
2209113 AGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATATACCCTCGGCGCTGAGTGTAATCGAA
1 AGATAACCCTTCTAGCCTTGAGCTATACTGTAAATGATGTGCCCTC-GAGCTGAGTGTAATCGAA
* * * * *
2209178 CTTGGGGGTATTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTT
65 CTCGAGGG---TCTGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTT
*
2209243 GGAGCTGATCGTAGTCGAACTCGAAGGTCTTTGGTTGGC
127 GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-T-GC
* * * * *
2209282 AAATAACCCTTCTTGTCTTGAGCTATATTGCAAATG
1 AGATAACCCTTCTAGCCTTGAGCTATACTGTAAATG
2209318 TTACCTCAAA
Statistics
Matches: 736, Mismatches: 97, Indels: 65
0.82 0.11 0.07
Matches are distributed among these distances:
160 2 0.00
161 6 0.01
162 45 0.06
163 52 0.07
164 118 0.16
165 185 0.25
166 5 0.01
167 100 0.14
168 138 0.19
169 83 0.11
170 2 0.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (163 bp):
AGATAACCCTTCTAGCCTTGAGCTATACTGTAAATGATGTGCCCTCGAGCTGAGTGTAATCGAAC
TCGAGGGTCTGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTGGAG
CTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGC
Found at i:2214562 original size:12 final size:12
Alignment explanation
Indices: 2214545--2214571 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
2214535 TTAGTTGCGA
2214545 AAATTAAAATTT
1 AAATTAAAATTT
2214557 AAATTAAAATTT
1 AAATTAAAATTT
2214569 AAA
1 AAA
2214572 ACATCGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
AAATTAAAATTT
Found at i:2216126 original size:33 final size:32
Alignment explanation
Indices: 2216088--2216169 Score: 89
Period size: 33 Copynumber: 2.5 Consensus size: 32
2216078 AAAAGGAAAA
2216088 AAAATATAATATATTATATAT-AAAAATATTTCC
1 AAAATAT-ATATATTATATATCAAAAATATTT-C
* *
2216121 AAAATATATA-ATATATAATTTCAAAAATATTTT
1 AAAATATATATAT-TAT-ATATCAAAAATATTTC
2216154 AAAAT-TATATATTATA
1 AAAATATATATATTATA
2216170 CTTTTAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
31 3 0.07
32 13 0.30
33 17 0.40
34 10 0.23
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (32 bp):
AAAATATATATATTATATATCAAAAATATTTC
Found at i:2216127 original size:21 final size:23
Alignment explanation
Indices: 2216103--2216150 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
2216093 ATAATATATT
*
2216103 ATATATAA-AAAT-ATTTCCAAA
1 ATATATAATAAATAATTTCAAAA
*
2216124 ATATATAATATATAATTTCAAAA
1 ATATATAATAAATAATTTCAAAA
2216147 ATAT
1 ATAT
2216151 TTTAAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 8 0.35
22 3 0.13
23 12 0.52
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (23 bp):
ATATATAATAAATAATTTCAAAA
Found at i:2216152 original size:34 final size:34
Alignment explanation
Indices: 2216086--2216169 Score: 91
Period size: 34 Copynumber: 2.4 Consensus size: 34
2216076 AGAAAAGGAA
*
2216086 AAAAAATATAATATATTATATATAAAAATATTTCC
1 AAAATATATAATATATTATATATAAAAATATTT-C
* *
2216121 AAAATATATAATATA-TA-ATTTCAAAAATATTTT
1 AAAATATATAATATATTATATAT-AAAAATATTTC
*
2216154 AAAATTATATATTATA
1 AAAA-TATATAATATA
2216170 CTTTTAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
33 7 0.16
34 22 0.51
35 14 0.33
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (34 bp):
AAAATATATAATATATTATATATAAAAATATTTC
Found at i:2216219 original size:12 final size:13
Alignment explanation
Indices: 2216171--2216222 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
2216161 TATATTATAC
2216171 TTTTAAAAAATGT
1 TTTTAAAAAATGT
* * *
2216184 TTTCAATTATATAGT
1 TTTTAA-AAAAT-GT
2216199 TTTTAAAAAATGT
1 TTTTAAAAAATGT
2216212 TTTTAAAAAAT
1 TTTTAAAAAAT
2216223 TATATATATA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
13 18 0.58
14 6 0.19
15 7 0.23
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (13 bp):
TTTTAAAAAATGT
Found at i:2216246 original size:38 final size:38
Alignment explanation
Indices: 2216189--2216483 Score: 226
Period size: 37 Copynumber: 8.2 Consensus size: 38
2216179 AATGTTTTCA
* * *
2216189 ATTATAT-AGTTTTTAAAAAATGTTTTTAAAAAAT-TAT
1 ATTATATAAG-TTTTCAAAAATGATTTTAAAAACTATAT
2216226 ATATATATAAGTTTTCAAAAAT-ATTTTCAAAAACTATAT
1 AT-TATATAAGTTTTCAAAAATGATTTT-AAAAACTATAT
*
2216265 ATTATATAAGGTTTC-AAAATGATTTTAAAAACTATAT
1 ATTATATAAGTTTTCAAAAATGATTTTAAAAACTATAT
2216302 ATTATATAAATGTTTTCAAAAATG--TTT------TATAT
1 ATTATAT-AA-GTTTTCAAAAATGATTTTAAAAACTATAT
* * *
2216334 A--ATATAAGTTTT-TAAAATGTTTTAAAAA-CTATAT
1 ATTATATAAGTTTTCAAAAATGATTTTAAAAACTATAT
2216368 ATTATATATA-TTTTC-AAAATG-TTTTAAAAACTATAT
1 ATTATATA-AGTTTTCAAAAATGATTTTAAAAACTATAT
* * *
2216404 AATATATAA-TTTTC-AAAAT-ATTTTCAAAACCATAT
1 ATTATATAAGTTTTCAAAAATGATTTTAAAAACTATAT
* *
2216439 ACTATATATA-TTTT-AAAAACG-TTTTCAAAAACTATAT
1 ATTATATA-AGTTTTCAAAAATGATTTT-AAAAACTATAT
*
2216476 AATATATA
1 ATTATATA
2216484 CTTATTTTCG
Statistics
Matches: 217, Mismatches: 16, Indels: 50
0.77 0.06 0.18
Matches are distributed among these distances:
27 6 0.03
28 5 0.02
29 4 0.02
30 4 0.02
32 6 0.03
34 6 0.03
35 38 0.18
36 41 0.19
37 46 0.21
38 43 0.20
39 12 0.06
40 6 0.03
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (38 bp):
ATTATATAAGTTTTCAAAAATGATTTTAAAAACTATAT
Found at i:2216246 original size:66 final size:65
Alignment explanation
Indices: 2216143--2216392 Score: 180
Period size: 66 Copynumber: 3.7 Consensus size: 65
2216133 ATATAATTTC
* * * *
2216143 AAAAATATTTT-AAAATTATATA-T-TAT-ACTTTTAAAAAATGTTTTCAATTATATAGTTTTTA
1 AAAAATGTTTTAAAAACTATATATTATATAAGTTTTCAAAAATGTTTTCAATTATATAGTTTTTA
* * *
2216204 AAAAATGTTTTTAAAAAAT-TATATATATATAAGTTTTCAAAAATATTTTCAAAAACTATATA-T
1 AAAAATG-TTTTAAAAACTATATAT-TATATAAGTTTTCAAAAATGTTTTC---AATTATATAGT
*
2216267 TATATA
61 T-TTTA
*
2216273 AGGTTTCAAAATGATTTTAAAAACTATATATTATATAAATGTTTTCAAAAATGTTTT-ATATAAT
1 A------AAAATG-TTTTAAAAACTATATATTATAT-AA-GTTTTCAAAAATGTTTTCA-ATTAT
2216337 ATAAGTTTTT-
56 AT-AGTTTTTA
2216347 -AAAATGTTTTAAAAACTATATATTATATATA-TTTTC-AAAATGTTTT
1 AAAAATGTTTTAAAAACTATATATTATATA-AGTTTTCAAAAATGTTTT
2216393 AAAAACTATA
Statistics
Matches: 153, Mismatches: 13, Indels: 44
0.73 0.06 0.21
Matches are distributed among these distances:
61 6 0.04
62 8 0.05
63 15 0.10
64 6 0.04
65 4 0.03
66 39 0.25
67 6 0.04
68 2 0.01
69 12 0.08
73 1 0.01
74 5 0.03
75 24 0.16
76 9 0.06
77 16 0.10
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (65 bp):
AAAAATGTTTTAAAAACTATATATTATATAAGTTTTCAAAAATGTTTTCAATTATATAGTTTTTA
Found at i:2216330 original size:39 final size:37
Alignment explanation
Indices: 2216189--2216483 Score: 259
Period size: 36 Copynumber: 8.2 Consensus size: 37
2216179 AATGTTTTCA
* *
2216189 ATTATAT-AGTTTTTAAAAAATGTTTTTAAAAAAT-TAT
1 ATTATATAAG-TTTTCAAAAATG-TTTTAAAAACTATAT
*
2216226 ATATATATAAGTTTTCAAAAATATTTTCAAAAACTATAT
1 AT-TATATAAGTTTTCAAAAATGTTTT-AAAAACTATAT
*
2216265 ATTATATAAGGTTTC-AAAATGATTTTAAAAACTATAT
1 ATTATATAAGTTTTCAAAAATG-TTTTAAAAACTATAT
2216302 ATTATATAAATGTTTTCAAAAATG-TTT------TATAT
1 ATTATAT-AA-GTTTTCAAAAATGTTTTAAAAACTATAT
*
2216334 A--ATATAAGTTTT-TAAAATGTTTTAAAAACTATAT
1 ATTATATAAGTTTTCAAAAATGTTTTAAAAACTATAT
2216368 ATTATATATA-TTTTC-AAAATGTTTTAAAAACTATAT
1 ATTATATA-AGTTTTCAAAAATGTTTTAAAAACTATAT
* * * *
2216404 AATATATAA-TTTTC-AAAATATTTTCAAAACCATAT
1 ATTATATAAGTTTTCAAAAATGTTTTAAAAACTATAT
* *
2216439 ACTATATATA-TTTT-AAAAACGTTTTCAAAAACTATAT
1 ATTATATA-AGTTTTCAAAAATGTTTT-AAAAACTATAT
*
2216476 AATATATA
1 ATTATATA
2216484 CTTATTTTCG
Statistics
Matches: 219, Mismatches: 17, Indels: 44
0.78 0.06 0.16
Matches are distributed among these distances:
27 6 0.03
28 8 0.04
29 2 0.01
30 4 0.02
32 6 0.03
34 6 0.03
35 31 0.14
36 50 0.23
37 46 0.21
38 42 0.19
39 12 0.05
40 6 0.03
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (37 bp):
ATTATATAAGTTTTCAAAAATGTTTTAAAAACTATAT
Found at i:2216344 original size:28 final size:29
Alignment explanation
Indices: 2216299--2216357 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 29
2216289 TTAAAAACTA
*
2216299 TATATTATATAAATGTTTTCAAAAATGTTT
1 TATATAATATAAATGTTTT-AAAAATGTTT
*
2216329 TATATAATAT-AA-GTTTTTAAAATGTTT
1 TATATAATATAAATGTTTTAAAAATGTTT
2216356 TA
1 TA
2216358 AAAACTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 11 0.41
28 5 0.19
29 2 0.07
30 9 0.33
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.51
Consensus pattern (29 bp):
TATATAATATAAATGTTTTAAAAATGTTT
Found at i:2216375 original size:36 final size:36
Alignment explanation
Indices: 2216329--2216504 Score: 207
Period size: 36 Copynumber: 4.8 Consensus size: 36
2216319 AAAAATGTTT
2216329 TATATAATATA-AGT-TTTT-AAAATGTTTTAAAAAC
1 TATATAATATATA-TATTTTCAAAATGTTTTAAAAAC
*
2216363 TATATATTATATATATTTTCAAAATGTTTTAAAAAC
1 TATATAATATATATATTTTCAAAATGTTTTAAAAAC
* *
2216399 TATATAATATATA-ATTTTCAAAATATTTTCAAAAC
1 TATATAATATATATATTTTCAAAATGTTTTAAAAAC
* * * *
2216434 CATATACTATATATATTTTAAAAACGTTTTCAAAAAC
1 TATATAATATATATATTTTCAAAATGTTTT-AAAAAC
2216471 TATATAATATATACTTATTTTCGAAAATCGTTTT
1 TATATAATATATA--TATTTTC-AAAAT-GTTTT
2216505 CCAAAAATTA
Statistics
Matches: 119, Mismatches: 14, Indels: 11
0.83 0.10 0.08
Matches are distributed among these distances:
34 11 0.09
35 36 0.30
36 41 0.34
37 16 0.13
39 6 0.05
40 4 0.03
41 5 0.04
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.44
Consensus pattern (36 bp):
TATATAATATATATATTTTCAAAATGTTTTAAAAAC
Found at i:2216433 original size:35 final size:36
Alignment explanation
Indices: 2216329--2216545 Score: 205
Period size: 36 Copynumber: 6.0 Consensus size: 36
2216319 AAAAATGTTT
*
2216329 TATATAATATA-AGT-TTTT-AAAATGTTTTAAAAAC
1 TATATAATATATA-TATTTTCAAAATGTTTTCAAAAC
* *
2216363 TATATATTATATATATTTTCAAAATGTTTTAAAAAC
1 TATATAATATATATATTTTCAAAATGTTTTCAAAAC
*
2216399 TATATAATATATA-ATTTTCAAAATATTTTCAAAAC
1 TATATAATATATATATTTTCAAAATGTTTTCAAAAC
* * * *
2216434 CATATACTATATATATTTTAAAAACGTTTTCAAAAAC
1 TATATAATATATATATTTTCAAAATGTTTTC-AAAAC
*
2216471 TATATAATATATACTTATTTTCGAAAATCGTTTTCCAAAAA
1 TATATAATATATA--TATTTTC-AAAAT-GTTTT-CAAAAC
**
2216512 T-TATACAT-TATAT-TTTGTCAAAACATTTTCAAAA
1 TATATA-ATATATATATTT-TCAAAATGTTTTCAAAA
2216546 ATTGTATTAC
Statistics
Matches: 155, Mismatches: 16, Indels: 23
0.80 0.08 0.12
Matches are distributed among these distances:
34 11 0.07
35 41 0.26
36 46 0.30
37 23 0.15
38 3 0.02
39 6 0.04
40 12 0.08
41 12 0.08
42 1 0.01
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (36 bp):
TATATAATATATATATTTTCAAAATGTTTTCAAAAC
Found at i:2223843 original size:248 final size:246
Alignment explanation
Indices: 2223367--2223858 Score: 934
Period size: 248 Copynumber: 2.0 Consensus size: 246
2223357 ATGGATTGGG
2223367 TATGTGCTGATGCTAGAAGGGGAAAGTTGTGGCCTATACCTCGAGATAATGAAGACTCATTAGAG
1 TATGTGCTGATGCTAGAAGGGGAAAGTTGTGGCCTATACCTCGAGATAATGAAGACTCATTAGAG
2223432 AAATTACCCGACGCATGATTAGAATTGGCAGCGGTCGTGTTTGCTTTGAAAATTTAGCGTCATTA
66 AAATTACCCGACGCATGATTAGAATTGGCAGCGGTCGTGTTTGCTTTGAAAATTTAGCGTCATTA
2223497 TCTATACAGGAGCAGTGCCATATTATACAAATCACAAGAGTCTAAAGTATTTTTTGACTCAAAAA
131 TCTATACAGGAGCAGTGCCATATTATACAAATCACAAGAGTCTAAAGTATTTTTTGACTCAAAAA
2223562 GAACTGAACTTGAGGCAAATAATATGGATCGAGCTTTAAAAGATTATGAGA
196 GAACTGAACTTGAGGCAAATAATATGGATCGAGCTTTAAAAGATTATGAGA
2223613 TATGTGCTGATGCTAGAA-GGGAAAGTT-TGGCCTATACCTCGAGATAATTGAAGACTCATTAGA
1 TATGTGCTGATGCTAGAAGGGGAAAGTTGTGGCCTATACCTCGAGATAA-TGAAGACTCATTAGA
2223676 GAAATTACCCGACGCATGATTTAGAATTGGCAGCGGTCGTGTTTGCTTTGAAAATTTAGCGTCAT
65 GAAATTACCCGACGCATGA-TTAGAATTGGCAGCGGTCGTGTTTGCTTTGAAAATTTAGCGTCAT
2223741 TATCTATACAGTGAGCAGTGCCATATTTATACAAATCACAAGAGTCTAAAGTATTTTTTGACTCA
129 TATCTATACAG-GAGCAGTGCCATA-TTATACAAATCACAAGAGTCTAAAGTATTTTTTGACTCA
2223806 AAAAGAACTGAACTTGAGGCAAATAATATGGATCGAGCTTTAAAAGATTATGA
192 AAAAGAACTGAACTTGAGGCAAATAATATGGATCGAGCTTTAAAAGATTATGA
2223859 TATGATCATC
Statistics
Matches: 242, Mismatches: 0, Indels: 6
0.98 0.00 0.02
Matches are distributed among these distances:
244 20 0.08
245 43 0.18
246 74 0.31
247 13 0.05
248 92 0.38
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (246 bp):
TATGTGCTGATGCTAGAAGGGGAAAGTTGTGGCCTATACCTCGAGATAATGAAGACTCATTAGAG
AAATTACCCGACGCATGATTAGAATTGGCAGCGGTCGTGTTTGCTTTGAAAATTTAGCGTCATTA
TCTATACAGGAGCAGTGCCATATTATACAAATCACAAGAGTCTAAAGTATTTTTTGACTCAAAAA
GAACTGAACTTGAGGCAAATAATATGGATCGAGCTTTAAAAGATTATGAGA
Found at i:2231310 original size:31 final size:31
Alignment explanation
Indices: 2231275--2231339 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
2231265 TAAGCTTTGT
*
2231275 TAAGCTTTACTCAATTCTCTCATATCTTTTC
1 TAAGCTTTACTCAATTATCTCATATCTTTTC
2231306 TAAGCTTTACTCAATTATCTCATATCTTTTC
1 TAAGCTTTACTCAATTATCTCATATCTTTTC
2231337 TAA
1 TAA
2231340 ACTTCAATCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.26, C:0.23, G:0.03, T:0.48
Consensus pattern (31 bp):
TAAGCTTTACTCAATTATCTCATATCTTTTC
Found at i:2231426 original size:24 final size:24
Alignment explanation
Indices: 2231399--2231450 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
2231389 TAGCTTTGCT
2231399 AAGCTATTTTTCATTGGCTTTTCC
1 AAGCTATTTTTCATTGGCTTTTCC
2231423 AAGCTATTTTTCATTGGCTTTTCC
1 AAGCTATTTTTCATTGGCTTTTCC
2231447 AAGC
1 AAGC
2231451 CTTCATTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.19, C:0.21, G:0.13, T:0.46
Consensus pattern (24 bp):
AAGCTATTTTTCATTGGCTTTTCC
Found at i:2232399 original size:184 final size:186
Alignment explanation
Indices: 2232071--2232405 Score: 631
Period size: 184 Copynumber: 1.8 Consensus size: 186
2232061 CATTGGCCAG
2232071 GAATTTGTAGTGAATCATGTTGGTCATCTTCTCCACCATGTTAAACTCGAACCAAGCTCTGAGGT
1 GAATTTGTAGTGAATCATGTTGGTCATCTTCTCCACCATGTTAAACTCGAACCAAGCTCTGAGGT
2232136 TCACTTGTTGGAAGCGTAGGTAGGTGACACTCAATAATTTTACAACTCGAAATTACTAATGATAC
66 TCACTTGTTGGAAGCGTAGGTA-GTGACACTCAATAATTTTACAACTCGAAATTACTAATGATAC
2232201 GAGGCAAAATACGTTACAACGTTACCCCAATTTCATAATTCGTCTTTGTCAATCTCA
130 GAGGCAAAATACGTTACAACGTTACCCCAATTTCATAATTCGTCTTTGTCAATCTCA
2232258 GAATTTGTAGTTGAATCATGTTGGTCATCTTCTCCACCATGTTAAACTCGAACCAAGCTCTGAGG
1 GAATTTGTAG-TGAATCATGTTGGTCATCTTCTCCACCATGTTAAACTCGAACCAAGCTCTGAGG
2232323 -TCACTTGTTGGAAGCGTAGGT-G-GACACTCAATAATTTTACAACTCGAAATTACTAATGATAC
65 TTCACTTGTTGGAAGCGTAGGTAGTGACACTCAATAATTTTACAACTCGAAATTACTAATGATAC
2232385 GAGGCAAAATACGTTACAACG
130 GAGGCAAAATACGTTACAACG
2232406 ACGTTACCCC
Statistics
Matches: 147, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
184 61 0.41
185 1 0.01
187 31 0.21
188 54 0.37
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.30
Consensus pattern (186 bp):
GAATTTGTAGTGAATCATGTTGGTCATCTTCTCCACCATGTTAAACTCGAACCAAGCTCTGAGGT
TCACTTGTTGGAAGCGTAGGTAGTGACACTCAATAATTTTACAACTCGAAATTACTAATGATACG
AGGCAAAATACGTTACAACGTTACCCCAATTTCATAATTCGTCTTTGTCAATCTCA
Found at i:2232527 original size:31 final size:31
Alignment explanation
Indices: 2232492--2232561 Score: 122
Period size: 31 Copynumber: 2.3 Consensus size: 31
2232482 TAAGCTTTGT
* *
2232492 TAAGCTTTACTTAATTCTCTCATATCTTTTC
1 TAAGCTTTACTCAATTATCTCATATCTTTTC
2232523 TAAGCTTTACTCAATTATCTCATATCTTTTC
1 TAAGCTTTACTCAATTATCTCATATCTTTTC
2232554 TAAGCTTT
1 TAAGCTTT
2232562 CAATCATATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.24, C:0.21, G:0.04, T:0.50
Consensus pattern (31 bp):
TAAGCTTTACTCAATTATCTCATATCTTTTC
Found at i:2237608 original size:20 final size:20
Alignment explanation
Indices: 2237583--2237634 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
2237573 GAATGTAATA
2237583 AGGGTATCGATACCTTAGGG
1 AGGGTATCGATACCTTAGGG
2237603 AGGGTA-CTGATACCTTAGGG
1 AGGGTATC-GATACCTTAGGG
2237623 AGGGTATCGATA
1 AGGGTATCGATA
2237635 TCCCCTAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 1 0.03
20 28 0.93
21 1 0.03
ACGTcount: A:0.27, C:0.13, G:0.35, T:0.25
Consensus pattern (20 bp):
AGGGTATCGATACCTTAGGG
Found at i:2238622 original size:22 final size:22
Alignment explanation
Indices: 2238577--2238622 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
2238567 CATATATAGT
*
2238577 ATACAGAGGTCATTCAGGATAA
1 ATACAGAGGTCATTCAGGACAA
* * *
2238599 ATACATAGGTCCTTCGGGACAA
1 ATACAGAGGTCATTCAGGACAA
2238621 AT
1 AT
2238623 TTATATGCCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (22 bp):
ATACAGAGGTCATTCAGGACAA
Found at i:2241420 original size:31 final size:31
Alignment explanation
Indices: 2241385--2241463 Score: 104
Period size: 36 Copynumber: 2.4 Consensus size: 31
2241375 TTATTATTAT
*
2241385 TTCGGGTCGGGTCGGGTTTCTAATTCATATA
1 TTCGGGTCGGGTCGGATTTCTAATTCATATA
2241416 TTCGGGTCAGGTCGGGTCGGATTTCTAATTCATATA
1 TTC--G---GGTCGGGTCGGATTTCTAATTCATATA
2241452 TTCGGGTCGGGT
1 TTCGGGTCGGGT
2241464 GAAACTTTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
31 11 0.26
33 1 0.02
34 1 0.02
36 29 0.69
ACGTcount: A:0.15, C:0.16, G:0.32, T:0.37
Consensus pattern (31 bp):
TTCGGGTCGGGTCGGATTTCTAATTCATATA
Found at i:2241429 original size:36 final size:36
Alignment explanation
Indices: 2241389--2241459 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
2241379 TATTATTTCG
*
2241389 GGTCGGGTCGGGTTTCTAATTCATATATTCGGGTCA
1 GGTCGGGTCGGATTTCTAATTCATATATTCGGGTCA
2241425 GGTCGGGTCGGATTTCTAATTCATATATTCGGGTC
1 GGTCGGGTCGGATTTCTAATTCATATATTCGGGTC
2241460 GGGTGAAACT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.17, C:0.17, G:0.30, T:0.37
Consensus pattern (36 bp):
GGTCGGGTCGGATTTCTAATTCATATATTCGGGTCA
Found at i:2241536 original size:37 final size:38
Alignment explanation
Indices: 2241483--2241556 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
2241473 TTTTGTTCGG
*
2241483 GTCGGGTCGAG-TTTTTTAATTGTGATATTCAGGTCGA
1 GTCGGGTCGAGATTTTTTAAGTGTGATATTCAGGTCGA
* *
2241520 GTCGGGTCGGGATTTTTTAAGTGTGATATTCGGGTCG
1 GTCGGGTCGAGATTTTTTAAGTGTGATATTCAGGTCG
2241557 GGTTTGGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 10 0.30
38 23 0.70
ACGTcount: A:0.16, C:0.11, G:0.34, T:0.39
Consensus pattern (38 bp):
GTCGGGTCGAGATTTTTTAAGTGTGATATTCAGGTCGA
Found at i:2253313 original size:19 final size:18
Alignment explanation
Indices: 2253291--2253326 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
2253281 TTAAAGGCTA
*
2253291 TTTGTACTATTTCTCTCTC
1 TTTGTAATATTTC-CTCTC
2253310 TTTGTAATATTTCCTCT
1 TTTGTAATATTTCCTCT
2253327 ATTAGTGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.14, C:0.22, G:0.06, T:0.58
Consensus pattern (18 bp):
TTTGTAATATTTCCTCTC
Found at i:2257341 original size:184 final size:185
Alignment explanation
Indices: 2257026--2257393 Score: 679
Period size: 184 Copynumber: 2.0 Consensus size: 185
2257016 TTTTGGCATG
2257026 ATGAGAAGTCAAAACCAGTTAGTACACCTCTTGCTCCTCATTTCAAGCTCGTGCATCCATGTCAC
1 ATGAGAAGTCAAAACCAGTTAGTACACCTCTTG--CCTCATTTCAAGCTCGTGCATCCATGTCAC
2257091 CTAAGGATGATGCAGAACGTGAATACTGTCAAAGGTTCTGTATGCAAGTGTTGTTGGTAGCTTGA
64 CTAAGGATGATGCAGAACGTGAATACTGTCAAAGGTTCTGTATGCAAGTGTTGTTGGTAGCTTGA
2257156 TGTATGC-ATGGTGTGTACGAGACCCGATATTTCACAGGCAATTGGGGTTATGATGA
129 TGTATGCAATGGTGTGTACGAGACCCGATATTTCACAGGCAATTGGGGTTATGATGA
2257212 ATGAGAAGTCAAAACCAGTTAGTACACCTCTTG-CTCA-TTCAAGCTCGGTGCATCCATGTCACC
1 ATGAGAAGTCAAAACCAGTTAGTACACCTCTTGCCTCATTTCAAGCTC-GTGCATCCATGTCACC
2257275 TAAGGATGATGCAGAACGTGAATACATGTCAAAGGTTCTGTATGCAAGTGTTGTTGGTAGCTTGA
65 TAAGGATGATGCAGAACGTGAATAC-TGTCAAAGGTTCTGTATGCAAGTGTTGTTGGTAGCTTGA
2257340 TGTATGCAATGGTGTGTACGAGACCCGATATTTCACAGGCAATTGGGGTTATGA
129 TGTATGCAATGGTGTGTACGAGACCCGATATTTCACAGGCAATTGGGGTTATGA
2257394 GCAGTATATG
Statistics
Matches: 179, Mismatches: 0, Indels: 7
0.96 0.00 0.04
Matches are distributed among these distances:
182 9 0.05
183 45 0.25
184 46 0.26
185 46 0.26
186 33 0.18
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (185 bp):
ATGAGAAGTCAAAACCAGTTAGTACACCTCTTGCCTCATTTCAAGCTCGTGCATCCATGTCACCT
AAGGATGATGCAGAACGTGAATACTGTCAAAGGTTCTGTATGCAAGTGTTGTTGGTAGCTTGATG
TATGCAATGGTGTGTACGAGACCCGATATTTCACAGGCAATTGGGGTTATGATGA
Found at i:2260018 original size:14 final size:15
Alignment explanation
Indices: 2260001--2260029 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2259991 AAAGCTATAA
2260001 CTAAA-ATTAATTTT
1 CTAAATATTAATTTT
2260015 CTAAATATTAATTTT
1 CTAAATATTAATTTT
2260030 GACATTATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (15 bp):
CTAAATATTAATTTT
Found at i:2262549 original size:17 final size:17
Alignment explanation
Indices: 2262524--2262557 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2262514 CGGTCCGACA
2262524 CGACCCGACCATTGACC
1 CGACCCGACCATTGACC
* *
2262541 CGACTCGACCGTTGACC
1 CGACCCGACCATTGACC
2262558 GTTGACTTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.44, G:0.21, T:0.15
Consensus pattern (17 bp):
CGACCCGACCATTGACC
Found at i:2269651 original size:10 final size:9
Alignment explanation
Indices: 2269622--2269688 Score: 62
Period size: 10 Copynumber: 6.9 Consensus size: 9
2269612 CTGGAAACCA
2269622 GTTTGACCG
1 GTTTGACCG
*
2269631 GTTTTCAACCG
1 G-TTT-GACCG
2269642 GTTTCGACCG
1 GTTT-GACCG
2269652 GTTTTGACCG
1 G-TTTGACCG
*
2269662 GTCTGAACCG
1 GTTTG-ACCG
2269672 GTTTGACCG
1 GTTTGACCG
*
2269681 GTCTGACC
1 GTTTGACC
2269689 CGACCCGACC
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
9 15 0.31
10 26 0.53
11 8 0.16
ACGTcount: A:0.13, C:0.27, G:0.28, T:0.31
Consensus pattern (9 bp):
GTTTGACCG
Found at i:2269652 original size:21 final size:20
Alignment explanation
Indices: 2269617--2269656 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
2269607 CGCTGCTGGA
2269617 AACCAGTTTGACCGGTTTTC
1 AACCAGTTTGACCGGTTTTC
*
2269637 AACCGGTTTCGACCGGTTTT
1 AACCAGTTT-GACCGGTTTT
2269657 GACCGGTCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (20 bp):
AACCAGTTTGACCGGTTTTC
Found at i:2269678 original size:19 final size:20
Alignment explanation
Indices: 2269648--2269686 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
2269638 ACCGGTTTCG
2269648 ACCGGTTTTGACCGGTCTGA
1 ACCGGTTTTGACCGGTCTGA
2269668 ACCGG-TTTGACCGGTCTGA
1 ACCGGTTTTGACCGGTCTGA
2269687 CCCGACCCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.15, C:0.26, G:0.31, T:0.28
Consensus pattern (20 bp):
ACCGGTTTTGACCGGTCTGA
Found at i:2269720 original size:17 final size:17
Alignment explanation
Indices: 2269695--2269730 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
2269685 GACCCGACCC
*
2269695 GACCTGACCCGACCGTT
1 GACCCGACCCGACCGTT
2269712 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
2269729 GA
1 GA
2269731 TCGTTGACCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.19, C:0.42, G:0.25, T:0.14
Consensus pattern (17 bp):
GACCCGACCCGACCGTT
Found at i:2272148 original size:445 final size:444
Alignment explanation
Indices: 2271320--2272211 Score: 1739
Period size: 445 Copynumber: 2.0 Consensus size: 444
2271310 CAACAAAACA
* *
2271320 ACAACATATGAATTTTACAATATTCAAAAGCACTAAAATATATTAAATTAAAATTACCCAGCCTT
1 ACAACATATGAATTTTACAATATTCAAAAGCACTAAAATAGATTAAATTAAAATTACCCAACCTT
2271385 TAGAAAGATAAAGAATATTCGATTATTTAAAAATATCGAAACCATGTCTTAAATGAGTTATAATA
66 TAGAAAGATAAAGAATATTCGATTATTTAAAAATATCGAAACCATGTCTTAAATGAGTTATAATA
2271450 ACCTTTTATCGATAAATTTAAATAGCCGAATATTTTTTTTCTTCCATTCCCAAATTTTAGAGTGA
131 ACCTTTTATCGATAAATTTAAATAGCCGAATATTTTTTTTCTTCCATTCCCAAATTTTAGAGTGA
2271515 GGTGTCACTAATGGGATACAATTCTAATTTAAAATCGTCAAAAGCAGATATCTAATAAGTTAAGA
196 GGTGTCACTAATGGGATACAATTCTAATTTAAAATCGTCAAAAGCAGATATCTAATAAGTTAAGA
2271580 CAACACACTTAAAACAATTTTAAATTAAAAGGGTATTACCCTTAATCCAATTATTATATAATGTC
261 CAACACACTTAAAACAATTTTAAATTAAAAGGGTATTACCCTTAATCCAATTATTATATAATGTC
2271645 GAGTTATGCACATGAGGATATCATACATATTATGCAAAATGATGTTAATGCAAAAATTAATTAAA
326 GAGTTATGCACATGAGGATATCATACATATTATGCAAAATGATGTTAATGCAAAAATTAATTAAA
2271710 CAAATATTATGATTAAAATATCAGGCAATGTTATTTTAATACCAACAATTATAT
391 CAAATATTATGATTAAAATATCAGGCAATGTTATTTTAATACCAACAATTATAT
2271764 ACAACATATGAATTTTACAATATTCAAAAGCACTAAAATAGATTAAATTAAAATTACCCAACCTT
1 ACAACATATGAATTTTACAATATTCAAAAGCACTAAAATAGATTAAATTAAAATTACCCAACCTT
2271829 TAGAAAGATAAAGAATATTCGATTATTTAAAAATATCGAAACCATGTCTTAAATGAGTTATAATA
66 TAGAAAGATAAAGAATATTCGATTATTTAAAAATATCGAAACCATGTCTTAAATGAGTTATAATA
2271894 ACCTTTTATCGATAAATTTAAATAGCCGAATATTTTTTTTTCTTCCATTCCCAAATTTTAGAGTG
131 ACCTTTTATCGATAAATTTAAATAGCCGAATA-TTTTTTTTCTTCCATTCCCAAATTTTAGAGTG
*
2271959 AGGTGTCACTAATGGGATACAATTCTAATTTAAAATCGTCAAAAGCGGATATCTAATAAGTTAAG
195 AGGTGTCACTAATGGGATACAATTCTAATTTAAAATCGTCAAAAGCAGATATCTAATAAGTTAAG
*
2272024 ACAACACACTTAAAATAATTTTAAATTAAAAGGGTATTACCCTTAATCCAATTATTATATAATGT
260 ACAACACACTTAAAACAATTTTAAATTAAAAGGGTATTACCCTTAATCCAATTATTATATAATGT
2272089 CGAGTTATGCACATGAGGATATCATACATATTATGCAAAATGATGTTAATGCAAAAATTAATTAA
325 CGAGTTATGCACATGAGGATATCATACATATTATGCAAAATGATGTTAATGCAAAAATTAATTAA
2272154 ACAAATATTATGATTAAAATATCAGGCAATGTTATTTTAATACCAACAATTATAT
390 ACAAATATTATGATTAAAATATCAGGCAATGTTATTTTAATACCAACAATTATAT
2272209 ACA
1 ACA
2272212 TATTTTATTA
Statistics
Matches: 443, Mismatches: 4, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
444 160 0.36
445 283 0.64
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (444 bp):
ACAACATATGAATTTTACAATATTCAAAAGCACTAAAATAGATTAAATTAAAATTACCCAACCTT
TAGAAAGATAAAGAATATTCGATTATTTAAAAATATCGAAACCATGTCTTAAATGAGTTATAATA
ACCTTTTATCGATAAATTTAAATAGCCGAATATTTTTTTTCTTCCATTCCCAAATTTTAGAGTGA
GGTGTCACTAATGGGATACAATTCTAATTTAAAATCGTCAAAAGCAGATATCTAATAAGTTAAGA
CAACACACTTAAAACAATTTTAAATTAAAAGGGTATTACCCTTAATCCAATTATTATATAATGTC
GAGTTATGCACATGAGGATATCATACATATTATGCAAAATGATGTTAATGCAAAAATTAATTAAA
CAAATATTATGATTAAAATATCAGGCAATGTTATTTTAATACCAACAATTATAT
Found at i:2274237 original size:19 final size:18
Alignment explanation
Indices: 2274192--2274243 Score: 61
Period size: 17 Copynumber: 2.8 Consensus size: 18
2274182 AAACATAACT
2274192 ACATAGATAATTAAACAC
1 ACATAGATAATTAAACAC
* *
2274210 A-GTACATAATTAAACAC
1 ACATAGATAATTAAACAC
2274227 ACATATGATAATATAAA
1 ACATA-GATAAT-TAAA
2274244 TAGATAAGCA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
17 15 0.56
18 3 0.11
19 5 0.19
20 4 0.15
ACGTcount: A:0.56, C:0.13, G:0.06, T:0.25
Consensus pattern (18 bp):
ACATAGATAATTAAACAC
Found at i:2274615 original size:55 final size:55
Alignment explanation
Indices: 2274556--2274935 Score: 235
Period size: 55 Copynumber: 6.7 Consensus size: 55
2274546 ACATGTATGT
* * * *** * *
2274556 TCCCTATT-CTTTCAGGGATTATAGAACTCGAACAATCTTTTGTCAACGGGTTTGC
1 TCCCTATTGCTTT-AAGGAGTATAGAACTCGAACAATCTTCTAAAAACGAGTTCGC
* *
2274611 TCCCTATTGCTTTAAGGAGTATAGAACTCGAATAATCTTCTAAAAATGAGTTCGC
1 TCCCTATTGCTTTAAGGAGTATAGAACTCGAACAATCTTCTAAAAACGAGTTCGC
* * * *
2274666 TCCCTATTGCTTTAAGGAGTATGGAACTCGAACAATCTTCTGAAAACGGGTTCCC
1 TCCCTATTGCTTTAAGGAGTATAGAACTCGAACAATCTTCTAAAAACGAGTTCGC
* * * ** *
2274721 TCGCTATTGCTTCAGGAGTTTCAGGGAGTATAGAAATCGAACAATCTTCTGCAAA-TAGTTTCGC
1 TCCCTATTG---C-----TTT-AAGGAGTATAGAACTCGAACAATCTTCTAAAAACGAG-TTCGC
* * * * ** * * *
2274785 TCCCTATTGCTTCAGGGAGTATAGAACTCAAATAATCTTCTGCAAATGGGTTCAC
1 TCCCTATTGCTTTAAGGAGTATAGAACTCGAACAATCTTCTAAAAACGAGTTCGC
* * * * * ***
2274840 TTCCTCTTGCTTCAGGGAGTATAGAACTCGAATAATCTTCTGCTAAC-ATGTTCGC
1 TCCCTATTGCTTTAAGGAGTATAGAACTCGAACAATCTTCTAAAAACGA-GTTCGC
* * ** * * *
2274895 TTCCTCTCACTTCAGGGAGTATAGAACTCGAATAATCTTCT
1 TCCCTATTGCTTTAAGGAGTATAGAACTCGAACAATCTTCT
2274936 GCCAACAGGT
Statistics
Matches: 271, Mismatches: 41, Indels: 26
0.80 0.12 0.08
Matches are distributed among these distances:
55 217 0.80
56 7 0.03
58 1 0.00
61 1 0.00
63 4 0.01
64 41 0.15
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (55 bp):
TCCCTATTGCTTTAAGGAGTATAGAACTCGAACAATCTTCTAAAAACGAGTTCGC
Found at i:2274765 original size:64 final size:64
Alignment explanation
Indices: 2274681--2274800 Score: 168
Period size: 64 Copynumber: 1.9 Consensus size: 64
2274671 ATTGCTTTAA
* * * *
2274681 GGAGTATGGAACTCGAACAATCTTCTGAAAACGGGTTCCCTCGCTATTGCTTCAGGAGTTTCAG
1 GGAGTATAGAAATCGAACAATCTTCTGAAAACAGGTTCCCTCCCTATTGCTTCAGGAGTTTCAG
* * * *
2274745 GGAGTATAGAAATCGAACAATCTTCTGCAAATAGTTTCGCTCCCTATTGCTTCAGG
1 GGAGTATAGAAATCGAACAATCTTCTGAAAACAGGTTCCCTCCCTATTGCTTCAGG
2274801 GAGTATAGAA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 48 1.00
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (64 bp):
GGAGTATAGAAATCGAACAATCTTCTGAAAACAGGTTCCCTCCCTATTGCTTCAGGAGTTTCAG
Found at i:2274861 original size:174 final size:174
Alignment explanation
Indices: 2274565--2274881 Score: 447
Period size: 174 Copynumber: 1.8 Consensus size: 174
2274555 TTCCCTATTC
* * * * * *
2274565 TTTCAGGGATTATAGAACTCGAACAATCTTTTGTCAACGGGTTTGCTCCCTATTGCTTTAAGGAG
1 TTTCAGGGAGTATAGAAATCGAACAATCTTCTGTCAAAGAGTTTGCTCCCTATTGCTTCAAGGAG
* * * *
2274630 TATAGAACTCGAATAATCTTCTAAAAATGAGTTCGCTCCCTATTGCTTTAAGGAGTATGGAACTC
66 TATAGAACTCAAATAATCTTCTAAAAATGAGTTCACTCCCTATTGCTTCAAGGAGTATAGAACTC
2274695 GAACAATCTTCTGAAAACGGGTTCCCTCGCTATTGCTTCAGGAG
131 GAACAATCTTCTGAAAACGGGTTCCCTCGCTATTGCTTCAGGAG
* *
2274739 TTTCAGGGAGTATAGAAATCGAACAATCTTCTG-CAAATAGTTTCGCTCCCTATTGCTTCAGGGA
1 TTTCAGGGAGTATAGAAATCGAACAATCTTCTGTCAAAGAGTTT-GCTCCCTATTGCTTCAAGGA
** * * * *
2274803 GTATAGAACTCAAATAATCTTCTGCAAATGGGTTCACTTCCTCTTGCTTCAGGGAGTATAGAACT
65 GTATAGAACTCAAATAATCTTCTAAAAATGAGTTCACTCCCTATTGCTTCAAGGAGTATAGAACT
*
2274868 CGAATAATCTTCTG
130 CGAACAATCTTCTG
2274882 CTAACATGTT
Statistics
Matches: 123, Mismatches: 19, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
173 7 0.06
174 116 0.94
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (174 bp):
TTTCAGGGAGTATAGAAATCGAACAATCTTCTGTCAAAGAGTTTGCTCCCTATTGCTTCAAGGAG
TATAGAACTCAAATAATCTTCTAAAAATGAGTTCACTCCCTATTGCTTCAAGGAGTATAGAACTC
GAACAATCTTCTGAAAACGGGTTCCCTCGCTATTGCTTCAGGAG
Found at i:2274933 original size:110 final size:110
Alignment explanation
Indices: 2274740--2274937 Score: 301
Period size: 110 Copynumber: 1.8 Consensus size: 110
2274730 CTTCAGGAGT
**
2274740 TTCAGGGAGTATAGAAATCGAACAATCTTCTGCAAATAGTTTCGCTCCCTATTGCTTCAGGGAGT
1 TTCAGGGAGTATAGAAATCGAACAATCTTCTGCAAATAGTTTCGCTCCCTATCACTTCAGGGAGT
2274805 ATAGAACTCAAATAATCTTCTGCAAATGGGTTCACTTCCTCTTGC
66 ATAGAACTCAAATAATCTTCTGCAAATGGGTTCACTTCCTCTTGC
* * * *
2274850 TTCAGGGAGTATAGAACTCGAATAATCTTCTGCTAACAT-G-TTCGCTTCCTCTCACTTCAGGGA
1 TTCAGGGAGTATAGAAATCGAACAATCTTCTGC-AA-ATAGTTTCGCTCCCTATCACTTCAGGGA
*
2274913 GTATAGAACTCGAATAATCTTCTGC
64 GTATAGAACTCAAATAATCTTCTGC
2274938 CAACAGGTTC
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
110 74 0.94
111 3 0.04
112 2 0.03
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (110 bp):
TTCAGGGAGTATAGAAATCGAACAATCTTCTGCAAATAGTTTCGCTCCCTATCACTTCAGGGAGT
ATAGAACTCAAATAATCTTCTGCAAATGGGTTCACTTCCTCTTGC
Found at i:2274936 original size:55 final size:54
Alignment explanation
Indices: 2274740--2274987 Score: 263
Period size: 55 Copynumber: 4.6 Consensus size: 54
2274730 CTTCAGGAGT
* * * * **
2274740 TTCAGGGAGTATAGAAATCGAACAATCTTCTGCAAATAGTTTCGCTCCCTATTGC
1 TTCAGGGAGTATAGAACTCGAATAATCTTCTGCAAAT-GGTTCACTCCCTATCAC
* * * **
2274795 TTCAGGGAGTATAGAACTCAAATAATCTTCTGCAAATGGGTTCACTTCCTCTTGC
1 TTCAGGGAGTATAGAACTCGAATAATCTTCTGCAAAT-GGTTCACTCCCTATCAC
* * *
2274850 TTCAGGGAGTATAGAACTCGAATAATCTTCTGCTAACAT-GTTCGCTTCCTCTCAC
1 TTCAGGGAGTATAGAACTCGAATAATCTTCTGC-AA-ATGGTTCACTCCCTATCAC
2274905 TTCAGGGAGTATAGAACTCGAATAATCTTCTGCCAACA-GGTTCACTCCCTATCAC
1 TTCAGGGAGTATAGAACTCGAATAATCTTCTG-CAA-ATGGTTCACTCCCTATCAC
* *
2274960 TTC---GAGTATAGAACTCAAACAATCTTCT
1 TTCAGGGAGTATAGAACTCGAATAATCTTCT
2274988 TAAAATGAAT
Statistics
Matches: 172, Mismatches: 17, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
52 23 0.13
55 144 0.84
56 3 0.02
57 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.31
Consensus pattern (54 bp):
TTCAGGGAGTATAGAACTCGAATAATCTTCTGCAAATGGTTCACTCCCTATCAC
Found at i:2278263 original size:12 final size:12
Alignment explanation
Indices: 2278245--2278280 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
2278235 TATATATGTT
2278245 CATGTGATATGA
1 CATGTGATATGA
*
2278257 TATGTGATATGA
1 CATGTGATATGA
2278269 CATGTGATATGA
1 CATGTGATATGA
2278281 GAACATGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:2278302 original size:23 final size:26
Alignment explanation
Indices: 2278245--2278313 Score: 85
Period size: 24 Copynumber: 2.8 Consensus size: 26
2278235 TATATATGTT
**
2278245 CATGTGATAT--GATATGTGATATGA
1 CATGTGATATGAGATACATGATATGA
2278269 CATGTGATATGAGA-ACATGATATGA
1 CATGTGATATGAGATACATGATATGA
2278294 -A-GTGATATGAGATACATGAT
1 CATGTGATATGAGATACATGAT
2278314 CACAAGAGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.28
24 18 0.45
25 9 0.22
26 2 0.05
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.32
Consensus pattern (26 bp):
CATGTGATATGAGATACATGATATGA
Found at i:2278353 original size:28 final size:29
Alignment explanation
Indices: 2278296--2278353 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
2278286 TGATATGAAG
* *
2278296 TGATATGAGATACATGATCACAAGAGAAA
1 TGATATGAGATACATGAACACAAGAAAAA
* *
2278325 TGATATGAG-TACATGAACATATGAAAAA
1 TGATATGAGATACATGAACACAAGAAAAA
2278353 T
1 T
2278354 AAAAATAATG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 16 0.64
29 9 0.36
ACGTcount: A:0.48, C:0.09, G:0.19, T:0.24
Consensus pattern (29 bp):
TGATATGAGATACATGAACACAAGAAAAA
Found at i:2284064 original size:23 final size:26
Alignment explanation
Indices: 2284027--2284074 Score: 75
Period size: 23 Copynumber: 2.0 Consensus size: 26
2284017 TTGATATGTG
2284027 ATATGACATGTGATATGAGA-ACATA
1 ATATGACATGTGATATGAGATACATA
2284052 ATATGA-A-GTGATATGAGATACAT
1 ATATGACATGTGATATGAGATACAT
2284075 GATCACAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 11 0.50
24 5 0.23
25 6 0.27
ACGTcount: A:0.44, C:0.06, G:0.21, T:0.29
Consensus pattern (26 bp):
ATATGACATGTGATATGAGATACATA
Found at i:2284117 original size:28 final size:29
Alignment explanation
Indices: 2284060--2284117 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
2284050 TAATATGAAG
* *
2284060 TGATATGAGATACATGATCACAAGAGAAA
1 TGATATGAGATACATGAACACAAGAAAAA
* *
2284089 TGATATGAG-TACATGAACATATGAAAAA
1 TGATATGAGATACATGAACACAAGAAAAA
2284117 T
1 T
2284118 AAAAATAATG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 16 0.64
29 9 0.36
ACGTcount: A:0.48, C:0.09, G:0.19, T:0.24
Consensus pattern (29 bp):
TGATATGAGATACATGAACACAAGAAAAA
Found at i:2285392 original size:15 final size:15
Alignment explanation
Indices: 2285372--2285408 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
2285362 ATCTTCCTTA
2285372 TTCTTTCTTCTTTTT
1 TTCTTTCTTCTTTTT
* *
2285387 TTCTTTTTTGTTTTT
1 TTCTTTCTTCTTTTT
2285402 TTCTTTC
1 TTCTTTC
2285409 GAATGTAGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.81
Consensus pattern (15 bp):
TTCTTTCTTCTTTTT
Found at i:2288152 original size:18 final size:17
Alignment explanation
Indices: 2288129--2288168 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
2288119 AAATTATCAC
2288129 ATTTTTATAT-TTTTAAA
1 ATTTTTAT-TCTTTTAAA
2288146 TATTTTTATTCTTTTAAA
1 -ATTTTTATTCTTTTAAA
2288164 ATTTT
1 ATTTT
2288169 ATAAATTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTTTTATTCTTTTAAA
Found at i:2295193 original size:81 final size:80
Alignment explanation
Indices: 2295087--2295257 Score: 283
Period size: 81 Copynumber: 2.1 Consensus size: 80
2295077 TCTAACTAAG
*
2295087 TTAACCG-ATTTTTTTCTTTAACATTAATCGAACCGAAATTATTTGACCGTTAATCGAA-CCAAA
1 TTAACCGAATTTTTTTCTTTAACATTAATCGAACCAAAATTATTTGACCGTTAATCGAATCC-AA
2295150 ATTTATTTGAAAATTA
65 ATTTATTTGAAAATTA
* *
2295166 TTAACCGAATTTTTTTCTTTAACCATTAATCGAACCAAAATTATTTGGCCGTTAATTGAATCCAA
1 TTAACCGAATTTTTTTCTTTAA-CATTAATCGAACCAAAATTATTTGACCGTTAATCGAATCCAA
2295231 ATTTATTTGAAAATTA
65 ATTTATTTGAAAATTA
2295247 TTAACCGAATT
1 TTAACCGAATT
2295258 AACTGAATAA
Statistics
Matches: 86, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
79 7 0.08
80 14 0.16
81 63 0.73
82 2 0.02
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (80 bp):
TTAACCGAATTTTTTTCTTTAACATTAATCGAACCAAAATTATTTGACCGTTAATCGAATCCAAA
TTTATTTGAAAATTA
Found at i:2295440 original size:65 final size:65
Alignment explanation
Indices: 2295374--2295507 Score: 151
Period size: 65 Copynumber: 2.0 Consensus size: 65
2295364 ATAAACCAAA
* * * *
2295374 TTAACCAAATTTATTTGAAAAGTATTAACCGAATCGAAATTATTTGACCGTTAATCGATCCAAAA
1 TTAACCAAATTTATTTCAAAA-CATTAACCGAACCGAAATTATCTGACCGTTAATCGATCCAAAA
2295439 T
65 T
* * ** * * * *
2295440 TTAACCGAATTTTTTTCTTAACATTAATCGAACCGAAATTATCTGACCGTTAATTGAACCGAAAT
1 TTAACCAAATTTATTTCAAAACATTAACCGAACCGAAATTATCTGACCGTTAATCGATCCAAAAT
2295505 TTA
1 TTA
2295508 TTTGAAAATT
Statistics
Matches: 56, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
65 40 0.71
66 16 0.29
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.35
Consensus pattern (65 bp):
TTAACCAAATTTATTTCAAAACATTAACCGAACCGAAATTATCTGACCGTTAATCGATCCAAAAT
Found at i:2295569 original size:82 final size:79
Alignment explanation
Indices: 2295440--2295611 Score: 254
Period size: 82 Copynumber: 2.1 Consensus size: 79
2295430 GATCCAAAAT
* * *
2295440 TTAACCGAATTTTTTTCTTAACATTAATCGAACCGAAATTATCTGACCGTTAATTGAACCGAAAT
1 TTAACCGAATTTTTTTCTTAACATTAATCGAACCAAAATTATCTGACCGTTAATCGAACCCAAAT
2295505 TTATTTGAAAATTA
66 TTATTTGAAAATTA
* * *
2295519 TTAATCGAATTTTTTTTCTTTAACCATTAATCGAATCAAAATTATTTGACCGTTAATCGAACCCA
1 TTAACCGAA-TTTTTTTC-TTAA-CATTAATCGAACCAAAATTATCTGACCGTTAATCGAACCCA
2295584 AATTTATTTGAAAATTA
63 AATTTATTTGAAAATTA
*
2295601 TTAACTGAATT
1 TTAACCGAATT
2295612 AACTGAATAA
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 8 0.10
80 8 0.10
81 6 0.07
82 60 0.73
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.40
Consensus pattern (79 bp):
TTAACCGAATTTTTTTCTTAACATTAATCGAACCAAAATTATCTGACCGTTAATCGAACCCAAAT
TTATTTGAAAATTA
Found at i:2295593 original size:381 final size:379
Alignment explanation
Indices: 2294886--2295593 Score: 795
Period size: 381 Copynumber: 1.9 Consensus size: 379
2294876 TTATTTGTTT
* *
2294886 AAATAAATTATTTTCTCTTTAACCGTTAATTGAATCGAAATTATTTAAAAATTATTAACCGAACT
1 AAATAAATTATTTTCTCTTTAACCGTTAATTGAACCGAAATTATTTAAAAATTATTAACCGAACC
* *
2294951 AAATTAATCGTTAATTGGTTAATAATTTTAAAATAAACCAAATTAACCAAATTTATTTGAAAATT
66 AAATTAATCGTTAATCGGTTAATAATTTTAAAATAAACCAAATTAACCAAATTTATTTGAAAAGT
* *
2295016 ATTAACCAAACCAAAATTATGTGACTGTTAATCAAACTGAAATTTATTTAAAAATTATTAATCTA
131 ATTAACCAAACCAAAATTATGTGACCGTTAATCAAACTCAAA--TATTTAAAAATTATTAATCTA
* ** * * ***
2295081 ACTAAGTTAACCGATTTTTTTCTTTAACATTAATCGAACCGAAATTATTTGACCGTTAATCGAAC
194 ACTAAGTGAACCGATAATTATCTTGAACATTAATCGAACCGAAATTATTTGAAAATTAATCGAAC
** **** *
2295146 CAAAATTTATTTGAAAATTATTAACCGAATTTTTTTCTTTAACCATTAATCGAACCAAAATTATT
259 CAAAATTTATTTGAAAACCATTAACCGAATAAAATTATTTAACCATTAATCGAACCAAAATTATT
2295211 TGGCCGTTAATTGAATCCAAATTTATTTGAAAATTATTAACCGAATTAACTGAATA
324 TGGCCGTTAATTGAATCCAAATTTATTTGAAAATTATTAACCGAATTAACTGAATA
* *
2295267 AAATAAATTATTTT-TCTTTAACCGTTAATTGAACCGAAATTTATTTGAAAATTATTAACTGAAC
1 AAATAAATTATTTTCTCTTTAACCGTTAATTGAACCGAAA-TTATTTAAAAATTATTAACCGAAC
* *
2295331 CAAATTATTCGTTAATCGGTTAATAATTTTCAAATAAACCAAATTAACCAAATTTATTTGAAAAG
65 CAAATTAATCGTTAATCGGTTAATAATTTTAAAATAAACCAAATTAACCAAATTTATTTGAAAAG
* * * * * * * **
2295396 TATTAACCGAATCGAAATTATTTGACCGTTAATCGATC-CAAA-ATTTAACCGAATT-TTTTTCT
130 TATTAACCAAACCAAAATTATGTGACCGTTAATCAAACTCAAATATTTAA--AAATTATTAATC-
* * *
2295458 TAACATTAA-TCGAACCGA-AATTATC-TGACCGTTAATTGAACCGAAATTTATTTGAAAATT-A
192 TAAC--TAAGT-GAACCGATAATTATCTTGAACATTAATCGAACCGAAA-TTATTTGAAAATTAA
* * * * * *** * * *
2295519 T-TAATCGAATTTTTTTTCTTTAACCATTAATCGAATCAAAATTATTTGACCGTTAATCGAACCC
253 TCGAACCAAAATTTATTT-GAAAACCATTAACCGAAT-AAAATTATTTAACCATTAATCGAA-CC
*
2295583 AAATTTATTTG
315 AAAATTATTTG
2295594 AAAATTATTA
Statistics
Matches: 267, Mismatches: 49, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
377 6 0.02
378 15 0.06
379 39 0.15
380 59 0.22
381 148 0.55
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (379 bp):
AAATAAATTATTTTCTCTTTAACCGTTAATTGAACCGAAATTATTTAAAAATTATTAACCGAACC
AAATTAATCGTTAATCGGTTAATAATTTTAAAATAAACCAAATTAACCAAATTTATTTGAAAAGT
ATTAACCAAACCAAAATTATGTGACCGTTAATCAAACTCAAATATTTAAAAATTATTAATCTAAC
TAAGTGAACCGATAATTATCTTGAACATTAATCGAACCGAAATTATTTGAAAATTAATCGAACCA
AAATTTATTTGAAAACCATTAACCGAATAAAATTATTTAACCATTAATCGAACCAAAATTATTTG
GCCGTTAATTGAATCCAAATTTATTTGAAAATTATTAACCGAATTAACTGAATA
Found at i:2295719 original size:169 final size:167
Alignment explanation
Indices: 2295524--2295936 Score: 554
Period size: 161 Copynumber: 2.5 Consensus size: 167
2295514 AATTATTAAT
* * *
2295524 CGAATTTTTTTTCTTTAACCATTAATCGAATCAAAATTATTTGACCGTTAATCGAACCCAAATTT
1 CGAATTTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCAAAATTT
* * *
2295589 ATTTGAAAATTATTAACTGAATTAACTGAAT-AATATAAATTA-TTTTTCTTTAATCGTTAATCG
66 ATTTGAAAATTATTAACT---TAAAC-GAATAAAT-TAAATTATTTTTTCCTTAACCGTTAATCG
* *
2295652 AACCAAAATTTATTTGAAAATTATTAATCGAACCAAATCAAC
126 AACCAAAATTTATTTAAAAATTATTAACCGAACCAAATCAAC
* * * *
2295694 CG-ATTTTTGTTCTTTAATCATTAATCAAACCGAAATTATTTGACCGTTAATCGAATCAAAATTT
1 CGAATTTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCAAAATTT
*
2295758 ATTT-AAAA--ATT-A-TTAAACGAATAAATTAAATTATTTTTTCCTTAACCGTTAATCGAACCG
66 ATTTGAAAATTATTAACTTAAACGAATAAATTAAATTATTTTTTCCTTAACCGTTAATCGAACCA
* * *
2295818 AAATTTATTTAAAAATTATTAACCGAATCGAATTAAC
131 AAATTTATTTAAAAATTATTAACCGAACCAAATCAAC
* * *
2295855 TGAATTTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATCAAACCGAAATTT
1 CGAATTTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCAAAATTT
2295920 ATTTGAAAATTATTAAC
66 ATTTGAAAATTATTAAC
2295937 CGAACCAAAT
Statistics
Matches: 212, Mismatches: 23, Indels: 19
0.83 0.09 0.07
Matches are distributed among these distances:
160 11 0.05
161 63 0.30
162 60 0.28
163 4 0.02
164 1 0.00
165 4 0.02
166 4 0.02
168 4 0.02
169 59 0.28
170 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.39
Consensus pattern (167 bp):
CGAATTTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCAAAATTT
ATTTGAAAATTATTAACTTAAACGAATAAATTAAATTATTTTTTCCTTAACCGTTAATCGAACCA
AAATTTATTTAAAAATTATTAACCGAACCAAATCAAC
Found at i:2295881 original size:70 final size:66
Alignment explanation
Indices: 2295740--2295896 Score: 201
Period size: 66 Copynumber: 2.3 Consensus size: 66
2295730 TATTTGACCG
* *
2295740 TTAATCGAATCAAAATTTATTTAAAAATTATTAAACGAATAAATTAAATTATTTTTTCCTTAACC
1 TTAATCGAACCGAAATTTATTTAAAAATTATTAAACGAATAAATTAAATTATTTTTTCCTTAACC
*
2295805 G
66 A
* * *
2295806 TTAATCGAACCGAAATTTATTTAAAAATTATTAACCGAATCGAATTAACTGAATT-TTTTTTCTT
1 TTAATCGAACCGAAATTTATTTAAAAATTATTAAACGAAT-AAATT-A---AATTATTTTTTCCT
2295870 TAACCA
61 TAACCA
2295876 TTAATCGAACCGAAA-TTATTT
1 TTAATCGAACCGAAATTTATTT
2295897 GACCGTTAAT
Statistics
Matches: 80, Mismatches: 6, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
66 37 0.46
67 4 0.05
68 1 0.01
69 6 0.08
70 28 0.35
71 4 0.05
ACGTcount: A:0.41, C:0.13, G:0.06, T:0.40
Consensus pattern (66 bp):
TTAATCGAACCGAAATTTATTTAAAAATTATTAAACGAATAAATTAAATTATTTTTTCCTTAACC
A
Found at i:2295920 original size:162 final size:162
Alignment explanation
Indices: 2295524--2295990 Score: 568
Period size: 162 Copynumber: 2.8 Consensus size: 162
2295514 AATTATTAAT
* * *
2295524 CGAATTTTTTTTCTTTAACCATTAATCGAATCAAAATTATTTGACCGTTAATCGAACCCAAATTT
1 CGAATTTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCAAAATTT
2295589 ATTTGAAAATTATT-AACTGAATTAACTGAATAATATAAATTA-TTTTTCTTTAATCGTTAATCG
66 ATTTGAAAATTATTAAAC-G----AACT--A-AAT-TAAATTATTTTTTCTTTAA-CGTTAATCG
* * *
2295652 AACCAAAATTTATTTGAAAATTATTAATCGAACCAAATCAAC
121 AACCGAAATTTATTTAAAAATTATTAACCGAACCAAATCAAC
* * * *
2295694 CG-ATTTTTGTTCTTTAATCATTAATCAAACCGAAATTATTTGACCGTTAATCGAATCAAAATTT
1 CGAATTTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCAAAATTT
* *
2295758 ATTTAAAAATTATTAAACGAA-TAAATTAAATTATTTTTTCCTTAACCGTTAATCGAACCGAAAT
66 ATTTGAAAATTATTAAACGAACTAAATTAAATTATTTTTTCTTTAA-CGTTAATCGAACCGAAAT
* * *
2295822 TTATTTAAAAATTATTAACCGAATCGAATTAAC
130 TTATTTAAAAATTATTAACCGAACCAAATCAAC
* * *
2295855 TGAATTTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATCAAACCGAAATTT
1 CGAATTTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCAAAATTT
* * * *
2295920 ATTTGAAAATTATTAACCGAACCAAATTAACCGAAT-TTTTTTCTTTAACATTAATCGAACCGAA
66 ATTTGAAAATTATTAAACGAACTAAATTAA---ATTATTTTTTCTTTAACGTTAATCGAACCGAA
2295984 A-TTATTT
128 ATTTATTT
2295991 GACCGTTAAT
Statistics
Matches: 261, Mismatches: 29, Indels: 21
0.84 0.09 0.07
Matches are distributed among these distances:
160 7 0.03
161 59 0.23
162 76 0.29
163 13 0.05
164 17 0.07
165 13 0.05
166 2 0.01
169 69 0.26
170 5 0.02
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (162 bp):
CGAATTTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCAAAATTT
ATTTGAAAATTATTAAACGAACTAAATTAAATTATTTTTTCTTTAACGTTAATCGAACCGAAATT
TATTTAAAAATTATTAACCGAACCAAATCAAC
Found at i:2296015 original size:94 final size:96
Alignment explanation
Indices: 2295802--2296033 Score: 387
Period size: 94 Copynumber: 2.4 Consensus size: 96
2295792 TTTTTCCTTA
* * *
2295802 ACCGTTAATCGAACCGAAATTTATTTAAAAATTATTAACCGAATCGAATTAACTGAATTTTTTTT
1 ACCGTTAATCGAACCGAAATTTATTTAAAAATTATTAACCGAACCAAATTAACCGAATTTTTTTT
2295867 CTTTAACCATTAATCGAACCGAAATTATTTG
66 CTTTAACCATTAATCGAACCGAAATTATTTG
* *
2295898 ACCGTTAATCAAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATTAACCGAA-TTTTTTT
1 ACCGTTAATCGAACCGAAATTTATTTAAAAATTATTAACCGAACCAAATTAACCGAATTTTTTTT
2295962 CTTTAA-CATTAATCGAACCGAAATTATTTG
66 CTTTAACCATTAATCGAACCGAAATTATTTG
* *
2295992 ACCGTTAATCGAACCAAAATTTATTTTAAAATTATTAACCGA
1 ACCGTTAATCGAACCGAAATTTATTTAAAAATTATTAACCGA
2296034 TTAACGGTTA
Statistics
Matches: 128, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
94 63 0.49
95 13 0.10
96 52 0.41
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (96 bp):
ACCGTTAATCGAACCGAAATTTATTTAAAAATTATTAACCGAACCAAATTAACCGAATTTTTTTT
CTTTAACCATTAATCGAACCGAAATTATTTG
Found at i:2298107 original size:2 final size:2
Alignment explanation
Indices: 2298041--2298094 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
2298031 ATTACCATGT
2298041 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2298083 TA TA TA TA TA TA
1 TA TA TA TA TA TA
2298095 CCTTTAATAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2298351 original size:54 final size:54
Alignment explanation
Indices: 2298278--2298384 Score: 196
Period size: 54 Copynumber: 2.0 Consensus size: 54
2298268 CACATTAACC
*
2298278 ATATGCAACGAATTAATTGAAAATTATCAACTTATATATATATATATATATATT
1 ATATACAACGAATTAATTGAAAATTATCAACTTATATATATATATATATATATT
*
2298332 ATATACAACGAATTAATTGAAAATTATCAACTTTTATATATATATATATATAT
1 ATATACAACGAATTAATTGAAAATTATCAACTTATATATATATATATATATAT
2298385 AAGCTACAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.41
Consensus pattern (54 bp):
ATATACAACGAATTAATTGAAAATTATCAACTTATATATATATATATATATATT
Found at i:2299758 original size:9 final size:8
Alignment explanation
Indices: 2299744--2299769 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
2299734 AATCCCTTTG
2299744 TTTTTTTC
1 TTTTTTTC
2299752 TTTTTTTC
1 TTTTTTTC
2299760 TTTTTTTC
1 TTTTTTTC
2299768 TT
1 TT
2299770 CTTCATTGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTTC
Found at i:2300818 original size:42 final size:42
Alignment explanation
Indices: 2300756--2300875 Score: 163
Period size: 42 Copynumber: 2.9 Consensus size: 42
2300746 AAAGACTTGT
* * * *
2300756 CATCTTGCTCAAAAGGCTTACAGATGACCCGAAGGATTTAAG
1 CATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTTAAG
*
2300798 CATCATGCTCGAAAGACTTACTGAT-AGCCTGAAGGATTTAAG
1 CATCATGCTCGAAAGACTTACTGATGA-CCCGAAGGATTTAAG
2300840 CATCATGCTCGAAAGACTTACTGATAGA-CCGAAGGA
1 CATCATGCTCGAAAGACTTACTGAT-GACCCGAAGGA
2300876 CTTATAAATT
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
41 1 0.01
42 67 0.97
44 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (42 bp):
CATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTTAAG
Found at i:2301064 original size:258 final size:256
Alignment explanation
Indices: 2300576--2301080 Score: 848
Period size: 258 Copynumber: 2.0 Consensus size: 256
2300566 TGACCCGAAC
* * *
2300576 GATTTAAGAATCATGCTCGAAAGACTTACTGATGGCCCGAATGACTTATAAATTGTGAAATTTTG
1 GATTTAAGAATCATGCTCGAAAGACTTACTGATAGACCGAAGGACTTATAAATTGTGAAATTTTG
* * *
2300641 AAAATTGCATTCTTAGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTTTCATTTTCAAATTC
66 AAAATTGCATTCTTAGTGTTAAAAAATTCCATCTTCTTAAAACATCATTTTTCATTTTCAAATTC
* *
2300706 ATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAAGACTTGTCATCTTGCTCAAAAG
131 ATGTGAAAACATCCTACCCGAAGGTCTTACGGATGGCCCGAAAGACTTATCATCTTGCTCAAAAG
2300771 GCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATAGCCTGAAG
196 GCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATAGCCTGAAG
*
2300832 GATTTAAGCATCATGCTCGAAAGACTTACTGATAGACCGAAGGACTTATAAATTGTGAAATTTTG
1 GATTTAAGAATCATGCTCGAAAGACTTACTGATAGACCGAAGGACTTATAAATTGTGAAATTTTG
* * *
2300897 AAAATTGCATTCTTCGTGTTAAAAAATTCCATCTTTTTAAAACATCATTTTTTTTATTTTCAAAT
66 AAAATTGCATTCTTAGTGTTAAAAAATTCCATCTTCTTAAAACATCA--TTTTTCATTTTCAAAT
* * *
2300962 TCATGTGAAAACATCCTACCCGAAGGTTTTACGGATGGCCCGAATGACTTATCATCTTGCTCTAA
129 TCATGTGAAAACATCCTACCCGAAGGTCTTACGGATGGCCCGAAAGACTTATCATCTTGCTCAAA
*
2301027 AGGCTTACAGATGACTCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGAT
194 AGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGAT
2301081 GGCACGAAGG
Statistics
Matches: 231, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
256 103 0.45
258 128 0.55
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (256 bp):
GATTTAAGAATCATGCTCGAAAGACTTACTGATAGACCGAAGGACTTATAAATTGTGAAATTTTG
AAAATTGCATTCTTAGTGTTAAAAAATTCCATCTTCTTAAAACATCATTTTTCATTTTCAAATTC
ATGTGAAAACATCCTACCCGAAGGTCTTACGGATGGCCCGAAAGACTTATCATCTTGCTCAAAAG
GCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATAGCCTGAAG
Found at i:2301200 original size:215 final size:216
Alignment explanation
Indices: 2300783--2301300 Score: 749
Period size: 215 Copynumber: 2.4 Consensus size: 216
2300773 TTACAGATGA
* * * * * * *
2300783 CCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGAT-AGCCTGAAGGATTTAAGCATCATG
1 CCCGAAGGACTT-ATCATCTTGCTCTAAAGGCTTACAGATGA-CCCGAAGGATTTAAGCATCATG
* *
2300847 CTCGAAAGACTTACTGATAG-ACCGAAGGACTTATAAATTGTGAAATTTTGAAAATTGCATTCTT
64 CTCGAAAGACTTACTGATGGCA-CGAAGGACTTATAAATTGTGAAATTTTGAAAATTGCATTATT
* *
2300911 CGTGTTAAAAAATTCCATCTTTTTAAAACATCATTTTTTTTATTTTCAAATTCATGTGAAAACAT
128 CGTGTTAAAAAATTCCATCTTTTTAAAACATCATTTTTCTCATTTTCAAATTCATGTGAAAACAT
* *
2300976 CCTACCCGAAGGTTTTACGGATGG
193 CCTACCCGAAGGTCTTACGAATGG
* *
2301000 CCCGAATGACTTATCATCTTGCTCTAAAGGCTTACAGATGACTCGAAGGATTTAAGCATCATGCT
1 CCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCT
2301065 CGAAAGACTTACTGATGGCACGAAGGACTTATAAATTGTG-AATTTTGAAAATTGCATTATTCGT
66 CGAAAGACTTACTGATGGCACGAAGGACTTATAAATTGTGAAATTTTGAAAATTGCATTATTCGT
* * * *
2301129 TTTCAAAAATTCCGT-TTTCTTTAAACATCA-TTTTCTCATTCTTCAAATTCATGTGAAAACATC
131 GTTAAAAAATTCCATCTTT-TTAAAACATCATTTTTCTCATT-TTCAAATTCATGTGAAAACATC
*
2301192 CTACCCGAAGGTCTTATGAATGG
194 CTACCCGAAGGTCTTACGAATGG
* *
2301215 CCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGTATCATGCC
1 CCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCT
*
2301280 CGAAAGACTTATTGATGGCAC
66 CGAAAGACTTACTGATGGCAC
2301301 TTATCGATGG
Statistics
Matches: 272, Mismatches: 25, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
214 11 0.04
215 168 0.62
216 81 0.30
217 12 0.04
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (216 bp):
CCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCT
CGAAAGACTTACTGATGGCACGAAGGACTTATAAATTGTGAAATTTTGAAAATTGCATTATTCGT
GTTAAAAAATTCCATCTTTTTAAAACATCATTTTTCTCATTTTCAAATTCATGTGAAAACATCCT
ACCCGAAGGTCTTACGAATGG
Found at i:2303555 original size:2 final size:2
Alignment explanation
Indices: 2303548--2303577 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
2303538 TTGTATACCC
*
2303548 AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2303578 TTTGTGGGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2306199 original size:109 final size:108
Alignment explanation
Indices: 2306062--2306290 Score: 395
Period size: 109 Copynumber: 2.1 Consensus size: 108
2306052 AAACAAAAAT
*
2306062 AAAAAGTGACCAAAATGCAAAAATTAAAATAATTGTAGCTAAATCAGAAATTGACAGTGACTAAA
1 AAAAAGTGACCAAAATGCAAAAATTAAAATAATTGTAGCTAAATCAGAAATTAACAGTGACTAAA
2306127 TTAAAATAAAACAAAATCAGCATACACAATCGGAATAAAATAAA
66 TTAAAATAAAACAAAATCAGCATACACAATCGGAATAAAAT-AA
*
2306171 AAAAAGTGACCAAAATGCAAAAATTAAAATAATTGTAGCTAAATCAGAAATTAATAGTGACTAAA
1 AAAAAGTGACCAAAATGCAAAAATTAAAATAATTGTAGCTAAATCAGAAATTAACAGTGACTAAA
* * * *
2306236 TTAAAATAAAACAATATCAGTATGCATAATCGGAATAAAATAA
66 TTAAAATAAAACAAAATCAGCATACACAATCGGAATAAAATAA
2306279 AAAAAGTGACCA
1 AAAAAGTGACCA
2306291 TAGTATAAAC
Statistics
Matches: 114, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
108 14 0.12
109 100 0.88
ACGTcount: A:0.56, C:0.11, G:0.11, T:0.21
Consensus pattern (108 bp):
AAAAAGTGACCAAAATGCAAAAATTAAAATAATTGTAGCTAAATCAGAAATTAACAGTGACTAAA
TTAAAATAAAACAAAATCAGCATACACAATCGGAATAAAATAA
Found at i:2307071 original size:30 final size:30
Alignment explanation
Indices: 2307001--2307064 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
2306991 TTTGATGATG
* *
2307001 GGTGTTG-AAAAAATGTGATGGTGGGTGTT
1 GGTGTTGAAAAAAATGGGATGGTAGGTGTT
*
2307030 GGTGTTGAAAAAAATGGGGTGGTAGGTGTT
1 GGTGTTGAAAAAAATGGGATGGTAGGTGTT
2307060 GGTGT
1 GGTGT
2307065 CTAAAAATGG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
29 7 0.23
30 24 0.77
ACGTcount: A:0.23, C:0.00, G:0.44, T:0.33
Consensus pattern (30 bp):
GGTGTTGAAAAAAATGGGATGGTAGGTGTT
Found at i:2307654 original size:129 final size:130
Alignment explanation
Indices: 2307378--2307974 Score: 706
Period size: 129 Copynumber: 4.6 Consensus size: 130
2307368 ATATGTGATG
* * * *
2307378 AATCGAGCAAGAAGATGACGCTGATCCAACTCCTTCTGCAATGGATTTAAGCGAAAATAAAGATG
1 AATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCAATGGATTT--GAGAGAA-AAA-ATG
* *
2307443 TCGATCCACCTCCTTCTGTGATGGAAATCGAACGATATATCGATACTGATCTACCTCCTTCTGTG
62 TCGATCCACCTCCTTCTGTGATGGAAATCGAACGATATGTCGATGCTGATCTACCTCCTTCTGTG
*
2307508 ATAG
127 ATAA
* * * *
2307512 AATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTTTACAATGGATTTGAGAGAACAAATGTCGA
1 AATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCAATGGATTTGAGAGAAAAAATGTCGA
* * * * * *
2307577 TCCATCTCCTTCTGTGATAG-AATCGAACGAAATGTTGGTGCTGATCTACCTCATTCTGTGATAA
66 TCCACCTCCTTCTGTGATGGAAATCGAACGATATGTCGATGCTGATCTACCTCCTTCTGTGAT-A
2307641 A
130 A
* * **
2307642 AAT-GAGCAAAAAGTTGATGCTGATCCAACTCCTTCTGCGATGGATTTGA-ACGAACGAATGTCG
1 AATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCAATGGATTTGAGA-GAAAAAATGTCG
* * * * *
2307705 ATCCACCTCTTTCTGTGATGG-AATCGAACGAGATGTCGGTGTTGATCTACCTCCTTCTGTTAT-
65 ATCCACCTCCTTCTGTGATGGAAATCGAACGATATGTCGATGCTGATCTACCTCCTTCTGTGATA
2307768 A
130 A
* ** * *
2307769 AAT-GAGCAAAAAGTTGACGCTGATTCAACTCCTTCTGTGATGGATTTGAGCG-AAAAATGTCAA
1 AATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCAATGGATTTGAGAGAAAAAATGTCGA
* * * * * *
2307832 TCCACCTCTTTCTGTGATGTAAATCGAGCGATATGTCGATGTTGATCTACCTCCTTTTGTGATAG
66 TCCACCTCCTTCTGTGATGGAAATCGAACGATATGTCGATGCTGATCTACCTCCTTCTGTGATAA
* * *
2307897 AATCGAGCTAAAAGTTAACGCTGATCCAACTCCTTCTGCAATGGATTTGAGCA-AAAAAATGTCA
1 AATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCAATGGATTTGAG-AGAAAAAATGTCG
*
2307961 ATCCACCTCATTCT
65 ATCCACCTCCTTCT
2307975 CCTTATGTAA
Statistics
Matches: 403, Mismatches: 52, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
126 27 0.07
127 85 0.21
128 4 0.01
129 185 0.46
130 52 0.13
131 2 0.00
132 5 0.01
134 43 0.11
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.30
Consensus pattern (130 bp):
AATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCAATGGATTTGAGAGAAAAAATGTCGA
TCCACCTCCTTCTGTGATGGAAATCGAACGATATGTCGATGCTGATCTACCTCCTTCTGTGATAA
Found at i:2307880 original size:256 final size:259
Alignment explanation
Indices: 2307378--2307974 Score: 740
Period size: 256 Copynumber: 2.3 Consensus size: 259
2307368 ATATGTGATG
* *
2307378 AATCGAGCAAGAAGATGACGCTGATCCAACTCCTTCTGCAATGGATTT-AAGCGAAAATAAAGAT
1 AATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCAATGGATTTGAA-CG--AA-AAA-AT
* *
2307442 GTCGATCCACCTCCTTCTGTGATGGAAATCGAACGATATATCGATACTGATCTACCTCCTTCTGT
61 GTCGATCCACCTCATTCTGTGATGGAAATCGAACGAGATATCGATACTGATCTACCTCCTTCTGT
* *
2307507 GATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTTTACAATGGATTTGAGAGAACAAAT
126 GATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTACAATGGATTTGAGAGAACAAAT
* * * *
2307572 GTCGATCCATCTCCTTCTGTGATAGAATCGAACGAAATGTTGGTGCTGATCTACCTCATTCTGTG
191 GTCAATCCACCTCCTTCTGTGATAGAATCGAACGAAATGTCGATGCTGATCTACCTCATTCTGTG
2307637 ATAAA
256 AT-AA
* * **
2307642 AAT-GAGCAAAAAGTTGATGCTGATCCAACTCCTTCTGCGATGGATTTGAACGAACGAATGTCGA
1 AATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCAATGGATTTGAACGAAAAAATGTCGA
* * * ** *
2307706 TCCACCTCTTTCTGTGATGG-AATCGAACGAGATGTCGGTGTTGATCTACCTCCTTCTGTTATA-
66 TCCACCTCATTCTGTGATGGAAATCGAACGAGATATCGATACTGATCTACCTCCTTCTGTGATAG
* *** *
2307769 AAT-GAGCAAAAAGTTGACGCTGATTCAACTCCTTCTGTGATGGATTTGAGCGAA-AAATGTCAA
131 AATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTACAATGGATTTGAGAGAACAAATGTCAA
* * * * * *
2307832 TCCACCTCTTTCTGTGAT-GTAAATCGAGCGATATGTCGATGTTGATCTACCTCCTTTTGTGATA
196 TCCACCTCCTTCTGTGATAG--AATCGAACGAAATGTCGATGCTGATCTACCTCATTCTGTGATA
*
2307896 G
259 A
* * * * *
2307897 AATCGAGCTAAAAGTTAACGCTGATCCAACTCCTTCTGCAATGGATTTGAGCAAAAAAATGTCAA
1 AATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCAATGGATTTGAACGAAAAAATGTCGA
2307962 TCCACCTCATTCT
66 TCCACCTCATTCT
2307975 CCTTATGTAA
Statistics
Matches: 288, Mismatches: 41, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
254 1 0.00
255 28 0.10
256 143 0.50
257 3 0.01
258 37 0.13
259 26 0.09
260 1 0.00
261 2 0.01
263 42 0.15
264 5 0.02
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.30
Consensus pattern (259 bp):
AATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCAATGGATTTGAACGAAAAAATGTCGA
TCCACCTCATTCTGTGATGGAAATCGAACGAGATATCGATACTGATCTACCTCCTTCTGTGATAG
AATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTACAATGGATTTGAGAGAACAAATGTCAA
TCCACCTCCTTCTGTGATAGAATCGAACGAAATGTCGATGCTGATCTACCTCATTCTGTGATAA
Found at i:2308461 original size:36 final size:36
Alignment explanation
Indices: 2308419--2308770 Score: 506
Period size: 36 Copynumber: 9.8 Consensus size: 36
2308409 ACATTTCTTA
* * * *
2308419 TTTCAAGGGAAATTGTCTCAAGACAGACAAAACTCG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCG
* * *
2308455 TTTCAAGGGAAACTATCTCAAGAGAGACAAAAGTCG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCG
* * *
2308491 TTTCAAGAGAAACTGTCTCAAGACAAACAAAATTTG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCG
*
2308527 TTTCAAGAGAAACTGTCTCAAAAGAGACAAAATTCG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCG
* * * *
2308563 TTTCAAGAGAAACTGTCTCAATACAAACAAAACTCG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCG
* *
2308599 TTTCAAGGGAAACTGTCTCAAGAGATACAAAATTCG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCG
* *
2308635 TTTCAAGAGAAACTTGTCTCAAGACAGACAAAATTTG
1 TTTCAAGAGAAAC-TGTCTCAAGAGAGACAAAATTCG
*
2308672 TTTCAAGAGAAACTGTCTCAAGAGAGACCAAATTCG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCG
2308708 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCG
*
2308744 TTTCAAGAGAAATTGTCTCAAGAGAGA
1 TTTCAAGAGAAACTGTCTCAAGAGAGA
2308771 AAATCTTCTG
Statistics
Matches: 283, Mismatches: 32, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
36 250 0.88
37 33 0.12
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.23
Consensus pattern (36 bp):
TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCG
Found at i:2308715 original size:21 final size:20
Alignment explanation
Indices: 2308616--2308753 Score: 61
Period size: 21 Copynumber: 7.4 Consensus size: 20
2308606 GGAAACTGTC
*
2308616 TCAAGAGATACAAAATTCGTT
1 TCAAGAGAGAC-AAATTCGTT
* *
2308637 TC-A-AGAGA-AACTT-GTC
1 TCAAGAGAGACAAATTCGTT
* *
2308653 TCAAGACAGACAAAATTTGTT
1 TCAAGAGAGAC-AAATTCGTT
* *
2308674 TC-A-AGAG--AAACT-GTC
1 TCAAGAGAGACAAATTCGTT
2308689 TCAAGAGAGACCAAATTCGTT
1 TCAAGAGAGA-CAAATTCGTT
* *
2308710 TC-A-AGAG--AAACT-GTC
1 TCAAGAGAGACAAATTCGTT
2308725 TCAAGAGAGACAAAATTCGTT
1 TCAAGAGAGAC-AAATTCGTT
2308746 TCAAGAGA
1 TCAAGAGA
2308754 AATTGTCTCA
Statistics
Matches: 85, Mismatches: 15, Indels: 34
0.63 0.11 0.25
Matches are distributed among these distances:
15 8 0.09
16 14 0.16
17 13 0.15
18 4 0.05
19 11 0.13
20 15 0.18
21 20 0.24
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.24
Consensus pattern (20 bp):
TCAAGAGAGACAAATTCGTT
Found at i:2308716 original size:145 final size:144
Alignment explanation
Indices: 2308419--2308770 Score: 569
Period size: 145 Copynumber: 2.4 Consensus size: 144
2308409 ACATTTCTTA
* * *
2308419 TTTCAAGGGAAATTGTCTCAAGACAGACAAAACTCGTTTCAAGGGAAACTATCTCAAGAGAGACA
1 TTTCAAGAGAAACTGTCTCAAGACAGACAAAACTCGTTTCAAGGGAAACTGTCTCAAGAGAGACA
2308484 AAAGTCGTTTCAAGAGAAACTGTCTCAAGACAAACAAAATTTGTTTCAAGAGAAACTGTCTCAAA
66 AAAGTCGTTTCAAGAGAAACTGTCTCAAGACAAACAAAATTTGTTTCAAGAGAAACTGTCTCAAA
2308549 AGAGACAAAATTCG
131 AGAGACAAAATTCG
* * *
2308563 TTTCAAGAGAAACTGTCTCAATACAAACAAAACTCGTTTCAAGGGAAACTGTCTCAAGAGATACA
1 TTTCAAGAGAAACTGTCTCAAGACAGACAAAACTCGTTTCAAGGGAAACTGTCTCAAGAGAGACA
* *
2308628 AAATTCGTTTCAAGAGAAACTTGTCTCAAGACAGACAAAATTTGTTTCAAGAGAAACTGTCTCAA
66 AAAGTCGTTTCAAGAGAAAC-TGTCTCAAGACAAACAAAATTTGTTTCAAGAGAAACTGTCTCAA
* *
2308693 GAGAGACCAAATTCG
130 AAGAGACAAAATTCG
* * * *
2308708 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGAGAAATTGTCTCAAGAGAGA
1 TTTCAAGAGAAACTGTCTCAAGACAGACAAAACTCGTTTCAAGGGAAACTGTCTCAAGAGAGA
2308771 AAATCTTCTG
Statistics
Matches: 190, Mismatches: 17, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
144 78 0.41
145 112 0.59
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.23
Consensus pattern (144 bp):
TTTCAAGAGAAACTGTCTCAAGACAGACAAAACTCGTTTCAAGGGAAACTGTCTCAAGAGAGACA
AAAGTCGTTTCAAGAGAAACTGTCTCAAGACAAACAAAATTTGTTTCAAGAGAAACTGTCTCAAA
AGAGACAAAATTCG
Found at i:2308804 original size:30 final size:30
Alignment explanation
Indices: 2308765--2308822 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
2308755 ATTGTCTCAA
*
2308765 GAGAGAAAATCTTCTGTTTCGAGGGAAACT
1 GAGACAAAATCTTCTGTTTCGAGGGAAACT
2308795 GAGACAAAATCTTCTGTTTCGAGGGAAA
1 GAGACAAAATCTTCTGTTTCGAGGGAAA
2308823 TTATCTCAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (30 bp):
GAGACAAAATCTTCTGTTTCGAGGGAAACT
Found at i:2308849 original size:39 final size:39
Alignment explanation
Indices: 2308795--2308926 Score: 219
Period size: 39 Copynumber: 3.4 Consensus size: 39
2308785 GAGGGAAACT
*
2308795 GAGACAAAATCTTCTGTTTCGAGGGAAATTATCTCAAGT
1 GAGACAAAATCTTCTGTTTCGAGGGAAATTATCTCAAGC
* * *
2308834 GAGACAAAATATTCTGTTTTGAGGGAAACTATCTCAAGC
1 GAGACAAAATCTTCTGTTTCGAGGGAAATTATCTCAAGC
*
2308873 GAGATAAAATCTTCTGTTTCGAGGGAAATTATCTCAAGC
1 GAGACAAAATCTTCTGTTTCGAGGGAAATTATCTCAAGC
2308912 GAGACAAAATCTTCT
1 GAGACAAAATCTTCT
2308927 TTAAAAAATC
Statistics
Matches: 84, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 84 1.00
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.30
Consensus pattern (39 bp):
GAGACAAAATCTTCTGTTTCGAGGGAAATTATCTCAAGC
Found at i:2308967 original size:24 final size:24
Alignment explanation
Indices: 2308940--2308995 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
2308930 AAAAATCTTG
2308940 AGTGAAAAGAAATGTCTTCTTTTA
1 AGTGAAAAGAAATGTCTTCTTTTA
2308964 AGTGAAAAGAAATGTCTTCTTTTA
1 AGTGAAAAGAAATGTCTTCTTTTA
*
2308988 AGTAAAAA
1 AGTGAAAA
2308996 TTATCTTAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.43, C:0.07, G:0.16, T:0.34
Consensus pattern (24 bp):
AGTGAAAAGAAATGTCTTCTTTTA
Found at i:2315212 original size:24 final size:23
Alignment explanation
Indices: 2315170--2315222 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
2315160 AAACTAATTA
2315170 ATTAAAAAAAAAAATAAAT-AAC
1 ATTAAAAAAAAAAATAAATAAAC
*
2315192 ATTAAAAATATAAAATAAAATAAAC
1 ATTAAAAA-AAAAAAT-AAATAAAC
2315217 A-TAAAA
1 ATTAAAA
2315223 TAAAGACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 8 0.30
23 6 0.22
24 9 0.33
25 4 0.15
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (23 bp):
ATTAAAAAAAAAAATAAATAAAC
Found at i:2315494 original size:100 final size:105
Alignment explanation
Indices: 2315293--2315516 Score: 332
Period size: 100 Copynumber: 2.2 Consensus size: 105
2315283 GTAACTAAAC
*
2315293 AAAAATAAAAGTGACCAAAATGCAAAAAAAAAAAATAATTGTAGCTAAATCAAAAATTAACAGTG
1 AAAAAAAAAAGTGACCAAAATGC-AAAAAAAAAAATAATTGTAGCTAAATCAAAAATTAACAGTG
2315358 ACTAAATTAAAATAAACAAAATCAGCATGCACAATCGGAATA
65 ACTAAATT-AAATAAACAAAATCAGCATGCACAATCGGAATA
* ** *
2315400 AATAAAAAAAGTGACCAAAATGC-AAAAATTAAAT-ATTGTAGCTAAATC-AAAATTAATAGTGA
1 AAAAAAAAAAGTGACCAAAATGCAAAAAAAAAAATAATTGTAGCTAAATCAAAAATTAACAGTGA
* *
2315462 CTAAATT-AATAAA-ACAATCAGCATGCATAATCGGAATA
66 CTAAATTAAATAAACAAAATCAGCATGCACAATCGGAATA
2315500 AAAAAAAAAAGTGACCA
1 AAAAAAAAAAGTGACCA
2315517 TAGTATAAAC
Statistics
Matches: 109, Mismatches: 8, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
100 39 0.36
101 6 0.06
103 20 0.18
104 14 0.13
105 9 0.08
107 21 0.19
ACGTcount: A:0.58, C:0.12, G:0.11, T:0.20
Consensus pattern (105 bp):
AAAAAAAAAAGTGACCAAAATGCAAAAAAAAAAATAATTGTAGCTAAATCAAAAATTAACAGTGA
CTAAATTAAATAAACAAAATCAGCATGCACAATCGGAATA
Found at i:2315844 original size:9 final size:9
Alignment explanation
Indices: 2315830--2315854 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
2315820 ACCGATTTGT
2315830 TTTTTTTTA
1 TTTTTTTTA
2315839 TTTTTTTTA
1 TTTTTTTTA
2315848 TTTTTTT
1 TTTTTTT
2315855 GTTGCAAATA
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:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:2316299 original size:30 final size:29
Alignment explanation
Indices: 2316246--2316329 Score: 100
Period size: 29 Copynumber: 2.9 Consensus size: 29
2316236 GCAGGACAAG
*
2316246 GGATGATGGG-GTTGGTG-TGAAAAAAAT
1 GGATGGTGGGTGTTGGTGTTGAAAAAAAT
*
2316273 GTGATGGTGGGTGTTGGTGTTGAAAAATAT
1 G-GATGGTGGGTGTTGGTGTTGAAAAAAAT
* *
2316303 GGGTGGTAGGTGTTGGTGTTTGAAAAA
1 GGATGGTGGGTGTTGGTG-TTGAAAAA
2316330 TGGTGTTTAC
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
27 1 0.02
28 8 0.16
29 22 0.45
30 18 0.37
ACGTcount: A:0.26, C:0.00, G:0.42, T:0.32
Consensus pattern (29 bp):
GGATGGTGGGTGTTGGTGTTGAAAAAAAT
Found at i:2316759 original size:12 final size:12
Alignment explanation
Indices: 2316742--2316766 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2316732 TTCACTTGAA
2316742 TCATCTTCAAAT
1 TCATCTTCAAAT
2316754 TCATCTTCAAAT
1 TCATCTTCAAAT
2316766 T
1 T
2316767 GCTCAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (12 bp):
TCATCTTCAAAT
Found at i:2322270 original size:21 final size:21
Alignment explanation
Indices: 2322246--2322293 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
2322236 ATGCGAAGTT
2322246 GTCTTCATGTATTTATGAAGG
1 GTCTTCATGTATTTATGAAGG
* *
2322267 GTCTTCATGTCTTTATGAATG
1 GTCTTCATGTATTTATGAAGG
2322288 GTCTTC
1 GTCTTC
2322294 TCGTCCTTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.19, C:0.15, G:0.21, T:0.46
Consensus pattern (21 bp):
GTCTTCATGTATTTATGAAGG
Found at i:2325056 original size:147 final size:146
Alignment explanation
Indices: 2324778--2325041 Score: 510
Period size: 147 Copynumber: 1.8 Consensus size: 146
2324768 TATATATAGA
2324778 TATATATATATATATACCTTTAATATATAAAAATAAAGTAAAAATAAAAATAATAAAATACCGAG
1 TATATATATATATATACCTTTAATATATAAAAATAAAGTAAAAATAAAAATAATAAAATACCGAG
*
2324843 CATATTACAATATTTAATAAACTATCATAACGTACACATGCAACATGTATATATAAAAATTCAAA
66 CATATTACAATATTTAATAAACTATCATAACGTACACATGCAACATGTATAGATAAAAATTCAAA
2324908 GTCACTATTACCATGT
131 GTCACTATTACCATGT
2324924 TATATATATATATATACCTTTAATATATAAAAAATAAAGTAAAAATAAAAATAATAAAATACCGA
1 TATATATATATATATACCTTTAATATAT-AAAAATAAAGTAAAAATAAAAATAATAAAATACCGA
2324989 GCATATTACAATATTTAATAAACTATCATAACGTACACATGCAACATGTATAG
65 GCATATTACAATATTTAATAAACTATCATAACGTACACATGCAACATGTATAG
2325042 CTTTGTATTT
Statistics
Matches: 116, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
146 28 0.24
147 88 0.76
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.31
Consensus pattern (146 bp):
TATATATATATATATACCTTTAATATATAAAAATAAAGTAAAAATAAAAATAATAAAATACCGAG
CATATTACAATATTTAATAAACTATCATAACGTACACATGCAACATGTATAGATAAAAATTCAAA
GTCACTATTACCATGT
Found at i:2325065 original size:56 final size:59
Alignment explanation
Indices: 2325005--2325129 Score: 132
Period size: 64 Copynumber: 2.1 Consensus size: 59
2324995 TACAATATTT
2325005 AATAAA-CT-ATCATAACG-TACA-CATGCAACATGTATAGCTTTGTATTTAAAGTGAGA
1 AATAAATCTAATCATAA-GATACAGCATGCAACATGTATAGCTTTGTATTTAAAGTGAGA
* * * *
2325061 AATAAAAAATGTAAATTATAAGATGCAGTCATGCAACATGTATAGCTTTGTATTTAAAGTGATA
1 AAT---AAATCT-AATCATAAGATACAG-CATGCAACATGTATAGCTTTGTATTTAAAGTGAGA
2325125 AATAA
1 AATAA
2325130 TGAATGTAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
56 3 0.05
59 3 0.05
60 1 0.02
61 3 0.05
62 9 0.16
64 37 0.66
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.31
Consensus pattern (59 bp):
AATAAATCTAATCATAAGATACAGCATGCAACATGTATAGCTTTGTATTTAAAGTGAGA
Found at i:2325128 original size:64 final size:64
Alignment explanation
Indices: 2325026--2325156 Score: 235
Period size: 64 Copynumber: 2.0 Consensus size: 64
2325016 ATAACGTACA
2325026 CATGCAACATGTATAGCTTTGTATTTAAAGTGAGAAATAAAAAATGTAAATTATAAGATGCAGT
1 CATGCAACATGTATAGCTTTGTATTTAAAGTGAGAAATAAAAAATGTAAATTATAAGATGCAGT
* **
2325090 CATGCAACATGTATAGCTTTGTATTTAAAGTGATAAATAATGAATGTAAATTATAAGATGCAGT
1 CATGCAACATGTATAGCTTTGTATTTAAAGTGAGAAATAAAAAATGTAAATTATAAGATGCAGT
2325154 CAT
1 CAT
2325157 ATATATATAT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.33
Consensus pattern (64 bp):
CATGCAACATGTATAGCTTTGTATTTAAAGTGAGAAATAAAAAATGTAAATTATAAGATGCAGT
Done.