Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 82 of 167
Found at i:26789605 original size:79 final size:80
Alignment explanation
Indices: 26789474--26789650 Score: 254
Period size: 79 Copynumber: 2.2 Consensus size: 80
26789464 TGGATGATAA
* *
26789474 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCC-AAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGTCCCGAAGGCATTTG
*
26789538 TGCGAGTTA-CTATAT
66 AGCGAG-TAGCTATAT
*
26789553 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAGTCCCGAAGGCATTT
26789617 GAGCGAGTAGCTATAT
65 GAGCGAGTAGCTATAT
* *
26789633 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
26789651 TACTTGGTTT
Statistics
Matches: 89, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
78 2 0.02
79 64 0.72
80 23 0.26
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGTCCCGAAGGCATTTG
AGCGAGTAGCTATAT
Found at i:26797748 original size:40 final size:40
Alignment explanation
Indices: 26797648--26797912 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
26797638 GCTCCTCGTT
* * * *
26797648 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
26797688 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
26797727 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
26797767 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
26797807 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
26797847 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
26797888 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
26797913 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:26797872 original size:80 final size:80
Alignment explanation
Indices: 26797615--26797912 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
26797605 AAATCACGTA
* ** * * *
26797615 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
26797677 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
26797693 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
26797756 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
26797773 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
26797837 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
26797853 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
26797913 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:26797921 original size:41 final size:41
Alignment explanation
Indices: 26797844--26797921 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
26797834 TTTGTATCTC
* * *
26797844 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
26797885 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
26797922 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:26805640 original size:40 final size:40
Alignment explanation
Indices: 26805596--26805857 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
26805586 GCTCCTCGTT
* *
26805596 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
26805636 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
26805676 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
26805715 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
26805754 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
26805793 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
26805834 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
26805858 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:26812023 original size:20 final size:21
Alignment explanation
Indices: 26811998--26812037 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
26811988 CCCTTGAAAT
26811998 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
26812018 AGGGCAACACGCCCGTGTGG
1 AGGGCAACACGCCCGTGTGG
26812038 TCATTATAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.20, C:0.30, G:0.40, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:26813386 original size:47 final size:46
Alignment explanation
Indices: 26813174--26813397 Score: 186
Period size: 47 Copynumber: 4.8 Consensus size: 46
26813164 CATAAGGTGT
* * * *
26813174 AATGCCGATGCCATGTCCCAGACATGGTCTTTCACTGGCTCATCCATC
1 AATGTCGATGCCATGTCCCAGACATGGTCTTACACTGTCACAT-C-TC
* *
26813222 AA-GTCGATGCCATGTCCCATACATGGTCTTACACTAGCTCTCACATATC
1 AATGTCGATGCCATGTCCCAGACATGGTCTTACACT-G---TCACATCTC
* * * *
26813271 CATGTCGATACCATGTCCTAGACATGGTCTTACACTGACACATCTC
1 AATGTCGATGCCATGTCCCAGACATGGTCTTACACTGTCACATCTC
* * * *
26813317 -GTAGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGTTCTCGTCTC
1 AAT-GTCGATGCCATGTCCCAGACATGGTCTTACACT-G-TCACATCTC
* * *
26813363 AATGTTGATGCCATGTCCTAGACATGGCCTTACAC
1 AATGTCGATGCCATGTCCCAGACATGGTCTTACAC
26813398 CGACTCTCAT
Statistics
Matches: 141, Mismatches: 24, Indels: 22
0.75 0.13 0.12
Matches are distributed among these distances:
44 10 0.07
45 15 0.11
46 23 0.16
47 44 0.31
48 11 0.08
49 4 0.03
50 30 0.21
51 4 0.03
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (46 bp):
AATGTCGATGCCATGTCCCAGACATGGTCTTACACTGTCACATCTC
Found at i:26813432 original size:94 final size:92
Alignment explanation
Indices: 26813226--26813446 Score: 237
Period size: 94 Copynumber: 2.3 Consensus size: 92
26813216 TCCATCAAGT
* * * * * *
26813226 CGATGCCATGTCCCATACATGGTCTTACACTAGCTCTCACATATCCATGTCGATACCATGTCCTA
1 CGATG-CATCTCCCAGACAT-GTCTTACACTAG-T-TCTCGTCTCAATGTCGATACCATGTCCTA
* *
26813291 GACATGGTCTTACACTGACACATCTCGTAGC
62 GACATGGCCTTACACCGACACATCTCGTAGC
* * *
26813322 CGATGCATGTCCCAGACATGTCTTACACTAGTTCTCGTCTCAATGTTGATGCCATGTCCTAGACA
1 CGATGCATCTCCCAGACATGTCTTACACTAGTTCTCGTCTCAATGTCGATACCATGTCCTAGACA
* * *
26813387 TGGCCTTACACCGACTC-TCATAATGTGGC
66 TGGCCTTACACCGACACATC-T--CGTAGC
*
26813416 CGATGCATCTCTCAGACATGTCTTACACTAG
1 CGATGCATCTCCCAGACATGTCTTACACTAG
26813447 CGCACAAATG
Statistics
Matches: 108, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
91 2 0.02
92 42 0.39
93 1 0.01
94 45 0.42
95 13 0.12
96 5 0.05
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (92 bp):
CGATGCATCTCCCAGACATGTCTTACACTAGTTCTCGTCTCAATGTCGATACCATGTCCTAGACA
TGGCCTTACACCGACACATCTCGTAGC
Found at i:26815559 original size:20 final size:20
Alignment explanation
Indices: 26815534--26815574 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
26815524 ATCTTCCGTT
26815534 GAACCATTTAGAATACTACA
1 GAACCATTTAGAATACTACA
26815554 GAACCATTTAGAATACTACA
1 GAACCATTTAGAATACTACA
26815574 G
1 G
26815575 GATATTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.20, G:0.12, T:0.24
Consensus pattern (20 bp):
GAACCATTTAGAATACTACA
Found at i:26815758 original size:49 final size:49
Alignment explanation
Indices: 26815617--26815785 Score: 196
Period size: 49 Copynumber: 3.4 Consensus size: 49
26815607 GTTGACGCTA
* *
26815617 TGTCCCAGACAGGCCTTACACTGACTTTCATATATCGAGGCCGATACTG
1 TGTCCCAGACAGGCCTTACACTGACTTTCATATATCGAGGTCGATGCTG
* *
26815666 TGTCCCAGATAGGCCTTACACTGACTTTCATATATCGAGGTCGATGTTG
1 TGTCCCAGACAGGCCTTACACTGACTTTCATATATCGAGGTCGATGCTG
* * * * * **
26815715 TGTCCCAAACAGGTCTTACACTGGCTCTCATCTATCG-GTGTCGATGCCA
1 TGTCCCAGACAGGCCTTACACTGACTTTCATATATCGAG-GTCGATGCTG
* * *
26815764 TGTCCTAGATAGGTCTTACACT
1 TGTCCCAGACAGGCCTTACACT
26815786 AGCTTGTATA
Statistics
Matches: 103, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
48 1 0.01
49 102 0.99
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (49 bp):
TGTCCCAGACAGGCCTTACACTGACTTTCATATATCGAGGTCGATGCTG
Found at i:26815864 original size:46 final size:46
Alignment explanation
Indices: 26815756--26816208 Score: 321
Period size: 46 Copynumber: 9.7 Consensus size: 46
26815746 CTATCGGTGT
* * * * *
26815756 CGATGCCATGTCCTAGATAGGTCTTACACTAGCTTGTATATCTCGAA-AC
1 CGATG-CATGTCCCAGACATGTCTTACACTAGCTT-T-CATCTC-AAGGC
* *
26815805 CGATGCATGTCCCAGACATGTCTTACACTAGCTTTCGTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTTTCATCTCAAGGC
* *
26815851 CGATGCATGTCCCAGACATGTCTTACACTAG-TTGGTATATCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTT--T-CATCTCAAGGC
* * * * * * *
26815899 CGATACATGTCCTAGACATGTCTTACACTGGCTCTTAATAT-ATGGA
1 CGATGCATGTCCCAGACATGTCTTACACTAGCT-TTCATCTCAAGGC
* * * * * * *
26815945 CGGTGCATGTCCTAGACAGGTCTTACACT-G-ATACA-CAACAA-GT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTTTCATC-TCAAGGC
* * * *
26815988 TGACGCCATGTCCCAGACAAGTCTTACACTAGCTTGTATATCTCAAGGC
1 CGATG-CATGTCCCAGACATGTCTTACACTAGCTT-T-CATCTCAAGGC
* * * * *
26816037 CGATGCATGTCCCAGACATGTCTTACACTACCTCTCGTCTCAAAGT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTTTCATCTCAAGGC
* *
26816083 CGATGCATGTCCCAGACATGTCTTACACTGGCTAGTAT-ATCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCT--T-TCATCTCAAGGC
* * * * * ** *
26816131 CTATGCACGTCCCAGACATGTCTTACACTGGCTCTCAATAT-GTGGT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTTTC-ATCTCAAGGC
26816177 CGATGCATGTCCCAGACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
26816209 ACACATATCA
Statistics
Matches: 321, Mismatches: 63, Indels: 43
0.75 0.15 0.10
Matches are distributed among these distances:
43 5 0.02
44 23 0.07
45 7 0.02
46 135 0.42
47 9 0.03
48 129 0.40
49 12 0.04
50 1 0.00
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.28
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTTTCATCTCAAGGC
Found at i:26815879 original size:94 final size:95
Alignment explanation
Indices: 26815756--26816208 Score: 339
Period size: 94 Copynumber: 4.8 Consensus size: 95
26815746 CTATCGGTGT
* * * *
26815756 CGATGCCATGTCCTAGATAGGTCTTACACTAGCTTGTATATCTCGAAACCGATGCATGTCCCAGA
1 CGATG-CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAAATCGATGCATGTCCCAGA
* *
26815821 CATGTCTTACACTAGCT-T-TCGTCTCAATGC
65 CATGTCTTACACTAGCTATAT-ATCTCAAGGC
*** * *
26815851 CGATGCATGTCCCAGACATGTCTTACACTAG-TTGGTATATCTCGAGGCCGATACATGTCCTAGA
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTT-GTATATCTCGAAATCGATGCATGTCCCAGA
* * * * *
26815915 CATGTCTTACACTGGCTCT-TAATAT-ATGGA
65 CATGTCTTACACTAGCTATAT-ATCTCAAGGC
* * * * * * *
26815945 CGGTGCATGTCCTAGACAGGTCTT--AC-A-C-TG-ATA-CACAACAAGTTGACGCCATGTCCCA
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGA-AA-TCGATG-CATGTCCCA
* *
26816003 GACAAGTCTTACACTAGCTTGTATATCTCAAGGC
63 GACATGTCTTACACTAGC-TATATATCTCAAGGC
* * **
26816037 CGATGCATGTCCCAGACATGTCTTACACTA-CCTCT-CGTCTC-AAAGTCGATGCATGTCCCAGA
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAAA-TCGATGCATGTCCCAGA
* *
26816099 CATGTCTTACACTGGCTAGTATATCTCGAGGC
65 CATGTCTTACACTAGCTA-TATATCTCAAGGC
* * * ** * *
26816131 CTATGCACGTCCCAGACATGTCTTACACTGGCTCTCAATATGT-G--GTCGATGCATGTCCCAGA
1 CGATGCATGTCCCAGACATGTCTTACACTAGCT-TGTATATCTCGAAATCGATGCATGTCCCAGA
26816193 CATGTCTTACACTAGC
65 CATGTCTTACACTAGC
26816209 ACACATATCA
Statistics
Matches: 283, Mismatches: 55, Indels: 41
0.75 0.15 0.11
Matches are distributed among these distances:
87 3 0.01
88 3 0.01
89 3 0.01
90 25 0.09
91 6 0.02
92 27 0.10
93 3 0.01
94 186 0.66
95 19 0.07
96 4 0.01
97 4 0.01
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.28
Consensus pattern (95 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAAATCGATGCATGTCCCAGAC
ATGTCTTACACTAGCTATATATCTCAAGGC
Found at i:26816031 original size:232 final size:232
Alignment explanation
Indices: 26815760--26816205 Score: 687
Period size: 232 Copynumber: 1.9 Consensus size: 232
26815750 CGGTGTCGAT
* * *
26815760 GCCATGTCCTAGATAGGTCTTACACTAGCTTGTATATCTCGAA-ACCGATGCATGTCCCAGACAT
1 GCCATGTCCCAGACAAGTCTTACACTAGCTTGTATATCTC-AAGACCGATGCATGTCCCAGACAT
* * * * *
26815824 GTCTTACACTAGCTTTCGTCTCAATGCCGATGCATGTCCCAGACATGTCTTACACTAGTTGGTAT
65 GTCTTACACTACCTCTCGTCTCAAAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTAGTAT
* * * *
26815889 ATCTCGAGGCCGATACATGTCCTAGACATGTCTTACACTGGCTCTTAATATATGGACGGTGCATG
130 ATCTCGAGGCCGATACACGTCCCAGACATGTCTTACACTGGCTCTCAATATATGGACGATGCATG
*
26815954 TCCTAGACAGGTCTTACACTGATACACAACAAGTTGAC
195 TCCCAGACAGGTCTTACACTGATACACAACAAGTTGAC
*
26815992 GCCATGTCCCAGACAAGTCTTACACTAGCTTGTATATCTCAAGGCCGATGCATGTCCCAGACATG
1 GCCATGTCCCAGACAAGTCTTACACTAGCTTGTATATCTCAAGACCGATGCATGTCCCAGACATG
* *
26816057 TCTTACACTACCTCTCGTCTCAAAGTCGATGCATGTCCCAGACATGTCTTACACTGGCTAGTATA
66 TCTTACACTACCTCTCGTCTCAAAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTAGTATA
* * * *
26816122 TCTCGAGGCCTATGCACGTCCCAGACATGTCTTACACTGGCTCTCAATATGTGGTCGATGCATGT
131 TCTCGAGGCCGATACACGTCCCAGACATGTCTTACACTGGCTCTCAATATATGGACGATGCATGT
*
26816187 CCCAGACATGTCTTACACT
196 CCCAGACAGGTCTTACACT
26816206 AGCACACATA
Statistics
Matches: 192, Mismatches: 21, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
231 2 0.01
232 190 0.99
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (232 bp):
GCCATGTCCCAGACAAGTCTTACACTAGCTTGTATATCTCAAGACCGATGCATGTCCCAGACATG
TCTTACACTACCTCTCGTCTCAAAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTAGTATA
TCTCGAGGCCGATACACGTCCCAGACATGTCTTACACTGGCTCTCAATATATGGACGATGCATGT
CCCAGACAGGTCTTACACTGATACACAACAAGTTGAC
Found at i:26818107 original size:17 final size:18
Alignment explanation
Indices: 26818085--26818119 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
26818075 AATCTGGGCT
26818085 TGTGGG-CCACACAGGCA
1 TGTGGGCCCACACAGGCA
26818102 TGTGGGCCCACACAGGCA
1 TGTGGGCCCACACAGGCA
26818120 AACTATATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.23, C:0.31, G:0.34, T:0.11
Consensus pattern (18 bp):
TGTGGGCCCACACAGGCA
Found at i:26820099 original size:11 final size:11
Alignment explanation
Indices: 26820083--26820134 Score: 50
Period size: 11 Copynumber: 4.4 Consensus size: 11
26820073 ATAGTATTTT
26820083 TATTAATTTAA
1 TATTAATTTAA
**
26820094 TATTAAAGTAA
1 TATTAATTTAA
26820105 TTATCTTAATATTAA
1 -TA--TTAAT-TTAA
26820120 TATTAATTTAA
1 TATTAATTTAA
26820131 TATT
1 TATT
26820135 TATCTTATAG
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 17 0.52
12 7 0.21
14 6 0.18
15 3 0.09
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (11 bp):
TATTAATTTAA
Found at i:26822638 original size:17 final size:18
Alignment explanation
Indices: 26822616--26822661 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 18
26822606 TATCAAGATA
26822616 AATATTAGACTAA-A-TTT
1 AATATTAGAC-AACACTTT
26822633 AATATTAAGACAATCACTTT
1 AATATT-AGACAA-CACTTT
26822653 AATATTAGA
1 AATATTAGA
26822662 TTTATTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 8 0.32
18 4 0.16
19 4 0.16
20 9 0.36
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.37
Consensus pattern (18 bp):
AATATTAGACAACACTTT
Found at i:26824744 original size:44 final size:42
Alignment explanation
Indices: 26824686--26824773 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 42
26824676 AACTCATAGA
*
26824686 CGATGCCAATGTCCCAGACATGGTCGTAAACGTAAATCACAAAT
1 CGATGCCAACGTCCCAGACATGGTCGTAAACG--AATCACAAAT
* * * *
26824730 CGATGTCAACGTCCCAGACGTGGTCTTAAACGAATCACATAT
1 CGATGCCAACGTCCCAGACATGGTCGTAAACGAATCACAAAT
26824772 CG
1 CG
26824774 GAATCTTATG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 11 0.28
44 28 0.72
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (42 bp):
CGATGCCAACGTCCCAGACATGGTCGTAAACGAATCACAAAT
Found at i:26825895 original size:13 final size:13
Alignment explanation
Indices: 26825877--26825901 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26825867 TCAAACGATA
26825877 AAATTTTCACACG
1 AAATTTTCACACG
26825890 AAATTTTCACAC
1 AAATTTTCACAC
26825902 ATATAAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:26826622 original size:12 final size:13
Alignment explanation
Indices: 26826605--26826638 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
26826595 GCAGAATCAT
26826605 AATCAAAACCAA-
1 AATCAAAACCAAC
26826617 AATCAAAACCAAC
1 AATCAAAACCAAC
26826630 AA-CAAAACC
1 AATCAAAACC
26826639 CAAAGAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 19 0.90
13 2 0.10
ACGTcount: A:0.65, C:0.29, G:0.00, T:0.06
Consensus pattern (13 bp):
AATCAAAACCAAC
Found at i:26842745 original size:17 final size:16
Alignment explanation
Indices: 26842723--26842760 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
26842713 TCTTTTTAAC
26842723 AAAATTTAACTGAAATT
1 AAAATTTAACT-AAATT
26842740 AAAATTTAACTAAATT
1 AAAATTTAACTAAATT
*
26842756 TAAAT
1 AAAAT
26842761 CAATTACTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (16 bp):
AAAATTTAACTAAATT
Found at i:26854884 original size:39 final size:39
Alignment explanation
Indices: 26854830--26854909 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
26854820 ACAAGGGGAA
*
26854830 ACAAAGATTTTTGAGATTTAGAGTCAAAGTTGATGGTTG
1 ACAAAGATTTTTGAGATATAGAGTCAAAGTTGATGGTTG
26854869 ACAAAGATTTTTGAGATATAGAGTCAAAGTTGATGGTTG
1 ACAAAGATTTTTGAGATATAGAGTCAAAGTTGATGGTTG
26854908 AC
1 AC
26854910 TTGCTTTGAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.35, C:0.06, G:0.25, T:0.34
Consensus pattern (39 bp):
ACAAAGATTTTTGAGATATAGAGTCAAAGTTGATGGTTG
Found at i:26856647 original size:21 final size:21
Alignment explanation
Indices: 26856623--26856667 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
26856613 AGAATTTATT
*
26856623 CACAGCATCAAATACGAAGAA
1 CACAACATCAAATACGAAGAA
26856644 CACAACATCAAATACGAAGAA
1 CACAACATCAAATACGAAGAA
26856665 CAC
1 CAC
26856668 TGATAGAGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.53, C:0.27, G:0.11, T:0.09
Consensus pattern (21 bp):
CACAACATCAAATACGAAGAA
Found at i:26859135 original size:14 final size:15
Alignment explanation
Indices: 26859111--26859140 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
26859101 GGATATCAAA
26859111 ACAAGAATTAAGAAC
1 ACAAGAATTAAGAAC
26859126 ACAA-AATTAAGAAC
1 ACAAGAATTAAGAAC
26859140 A
1 A
26859141 AGTTAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.13, G:0.10, T:0.13
Consensus pattern (15 bp):
ACAAGAATTAAGAAC
Found at i:26860811 original size:13 final size:13
Alignment explanation
Indices: 26860793--26860817 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26860783 ATGGAAACAT
26860793 CAGTGAACCACGG
1 CAGTGAACCACGG
26860806 CAGTGAACCACG
1 CAGTGAACCACG
26860818 CGGCACATAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.32, G:0.28, T:0.08
Consensus pattern (13 bp):
CAGTGAACCACGG
Found at i:26868606 original size:15 final size:17
Alignment explanation
Indices: 26868576--26868608 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
26868566 GAAAACATCT
26868576 CAAAAGCATAAAGAAAA
1 CAAAAGCATAAAGAAAA
26868593 CAAAA-CAT-AAGAAAA
1 CAAAAGCATAAAGAAAA
26868608 C
1 C
26868609 CCAAAACTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 3 0.19
17 5 0.31
ACGTcount: A:0.70, C:0.15, G:0.09, T:0.06
Consensus pattern (17 bp):
CAAAAGCATAAAGAAAA
Found at i:26886011 original size:18 final size:18
Alignment explanation
Indices: 26885963--26886019 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
26885953 GCTAAGAGAG
*
26885963 TTGAGGGAGGAGAGAATGA
1 TTGAGGGATGAG-GAATGA
**
26885982 -TGAATGAGTGAGGAATGA
1 TTGAGGGA-TGAGGAATGA
*
26886000 TTGAGGGATGAGGGATGA
1 TTGAGGGATGAGGAATGA
26886018 TT
1 TT
26886020 AGAAAAGTGA
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
18 22 0.73
19 8 0.27
ACGTcount: A:0.33, C:0.00, G:0.44, T:0.23
Consensus pattern (18 bp):
TTGAGGGATGAGGAATGA
Found at i:26894532 original size:17 final size:18
Alignment explanation
Indices: 26894500--26894533 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
26894490 TTTGAGTAAT
26894500 TAAGAATATCTTTAAAAC
1 TAAGAATATCTTTAAAAC
*
26894518 TAAGGATAT-TTTAAAA
1 TAAGAATATCTTTAAAA
26894534 GACATTAGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (18 bp):
TAAGAATATCTTTAAAAC
Found at i:26895398 original size:29 final size:30
Alignment explanation
Indices: 26895339--26895398 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
26895329 ATTGAGCATG
**
26895339 AGAGAATAGATAAAATCAAAACTCCGGTTA
1 AGAGAATAGATAAAATCAAAACTCCAATTA
26895369 AGAGAA-AGATAAAATCAAAACTCCAATTA
1 AGAGAATAGATAAAATCAAAACTCCAATTA
26895398 A
1 A
26895399 AAGAGAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
29 22 0.79
30 6 0.21
ACGTcount: A:0.55, C:0.13, G:0.13, T:0.18
Consensus pattern (30 bp):
AGAGAATAGATAAAATCAAAACTCCAATTA
Found at i:26897602 original size:19 final size:19
Alignment explanation
Indices: 26897578--26897615 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
26897568 CCATATCATA
26897578 GGACATACACACAAAATGG
1 GGACATACACACAAAATGG
26897597 GGACATACACACAAAATGG
1 GGACATACACACAAAATGG
26897616 CTAAGTCCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.21, G:0.21, T:0.11
Consensus pattern (19 bp):
GGACATACACACAAAATGG
Found at i:26898322 original size:47 final size:47
Alignment explanation
Indices: 26898270--26898391 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
26898260 CATGCCTTGG
* * *
26898270 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCTTGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
26898317 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
26898364 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
26898392 TTGCCAATGC
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.37
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:26903841 original size:20 final size:20
Alignment explanation
Indices: 26903799--26903841 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
26903789 AGATTTATGG
**
26903799 TATGATATGATAAGTATTGT
1 TATGATATGATAAACATTGT
* *
26903819 TATGATTTGATAAACATTTT
1 TATGATATGATAAACATTGT
26903839 TAT
1 TAT
26903842 AATCTCATGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.02, G:0.14, T:0.49
Consensus pattern (20 bp):
TATGATATGATAAACATTGT
Found at i:26906516 original size:25 final size:26
Alignment explanation
Indices: 26906449--26906520 Score: 101
Period size: 26 Copynumber: 2.8 Consensus size: 26
26906439 TCCCATTCAT
*
26906449 ATTTTACCCCTAGCAAAATTTTGACG
1 ATTTTACCCCTAGTAAAATTTTGACG
* *
26906475 ATTTTACCCCTGGTAAACTTTTGACG
1 ATTTTACCCCTAGTAAAATTTTGACG
*
26906501 ATTTT-TCCCTAGTAAAATTT
1 ATTTTACCCCTAGTAAAATTT
26906521 CGAGAAAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
25 12 0.30
26 28 0.70
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.40
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTGACG
Found at i:26906684 original size:6 final size:6
Alignment explanation
Indices: 26906670--26906703 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
26906660 CAAATGAATT
*
26906670 ATTTTC ATTTCC ATTTCC ATTTCC ATTTCC ATTT
1 ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATTT
26906704 TTAGAAACCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.18, C:0.26, G:0.00, T:0.56
Consensus pattern (6 bp):
ATTTCC
Found at i:26908885 original size:27 final size:28
Alignment explanation
Indices: 26908773--26908898 Score: 173
Period size: 28 Copynumber: 4.5 Consensus size: 28
26908763 CATGAGATTG
* * * *
26908773 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
* *
26908802 GCACTAAGTGTGCGAGCTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
26908830 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
26908858 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
26908885 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
26908899 GACTTAATAT
Statistics
Matches: 88, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
27 24 0.27
28 47 0.53
29 17 0.19
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:26908895 original size:55 final size:57
Alignment explanation
Indices: 26908773--26908898 Score: 184
Period size: 55 Copynumber: 2.2 Consensus size: 57
26908763 CATGAGATTG
* * *
26908773 GCACTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGCTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGCTTGATTATATA
* *
26908830 GCACTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGCTTGATTATATA
*
26908885 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
26908899 GACTTAATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
55 23 0.37
56 22 0.35
57 18 0.29
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGCTTGATTATATA
Found at i:26908909 original size:27 final size:27
Alignment explanation
Indices: 26908801--26908911 Score: 125
Period size: 28 Copynumber: 4.0 Consensus size: 27
26908791 TAAATTGTAC
* *
26908801 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
26908829 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
26908857 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
26908884 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
26908911 A
1 A
26908912 CTTTTGAATC
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
27 30 0.39
28 46 0.61
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:26923708 original size:25 final size:25
Alignment explanation
Indices: 26923657--26923708 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
26923647 CGAAGAATAT
*
26923657 GTGTGAATGGATTTAGCCCGGACGG
1 GTGTGAATGGATTTAGCCCAGACGG
*
26923682 GTGTGAATGGATTTAGCCCAGATGG
1 GTGTGAATGGATTTAGCCCAGACGG
26923707 GT
1 GT
26923709 AAACCGAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.21, C:0.13, G:0.38, T:0.27
Consensus pattern (25 bp):
GTGTGAATGGATTTAGCCCAGACGG
Found at i:26930719 original size:64 final size:64
Alignment explanation
Indices: 26930638--26930821 Score: 176
Period size: 67 Copynumber: 2.8 Consensus size: 64
26930628 AGACATTATG
* * *
26930638 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACTCCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * * *
26930702 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGTTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
26930767 AA
63 AA
* * * *
26930769 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
26930822 CGAACTATAT
Statistics
Matches: 95, Mismatches: 20, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 21 0.22
65 8 0.08
66 16 0.17
67 29 0.31
68 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:26935004 original size:42 final size:42
Alignment explanation
Indices: 26934849--26935004 Score: 199
Period size: 42 Copynumber: 3.7 Consensus size: 42
26934839 TACCGTACCA
* * *
26934849 ATGCCATATCCCAGATATGGTCTTACATGTAA-TCTCGTATCG
1 ATGCCATATCCTAGATATGGTCTTACACG-AAGTCTCATATCG
* * * * *
26934891 ATGCCCATAGCCAAGCTATGGTCTTACACAAAGTCTCATATCA
1 ATG-CCATATCCTAGATATGGTCTTACACGAAGTCTCATATCG
26934934 ATGCCATATCCTAGATATGGTCTTACACGAAGTCTCATA-CTG
1 ATGCCATATCCTAGATATGGTCTTACACGAAGTCTCATATC-G
26934976 ATGCCATATCCTAGATATGGTCTTACACG
1 ATGCCATATCCTAGATATGGTCTTACACG
26935005 TAATCTTAGT
Statistics
Matches: 99, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
41 1 0.01
42 66 0.67
43 32 0.32
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCTAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:26941428 original size:42 final size:42
Alignment explanation
Indices: 26941321--26941470 Score: 185
Period size: 42 Copynumber: 3.5 Consensus size: 42
26941311 GTACCAATGT
** *
26941321 CATATCCCAGATATGGTCTTACATTTAA-TCTCGTATCGATGC
1 CATATCCCAGATATGGTCTTACA-CAAAGTCTCATATCGATGC
* * * *
26941363 CAATAGCCCAGCTTTGGTCTTACACAAAGTCTTATATCGATGC
1 C-ATATCCCAGATATGGTCTTACACAAAGTCTCATATCGATGC
* *
26941406 CATATCCCAGATATGGTCTTACACGAAGTCTCATATCGATGT
1 CATATCCCAGATATGGTCTTACACAAAGTCTCATATCGATGC
*
26941448 CATATCCGAGATATGGTCTTACA
1 CATATCCCAGATATGGTCTTACA
26941471 TGTAATCTTA
Statistics
Matches: 92, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
42 60 0.65
43 32 0.35
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (42 bp):
CATATCCCAGATATGGTCTTACACAAAGTCTCATATCGATGC
Found at i:26943801 original size:26 final size:26
Alignment explanation
Indices: 26943771--26943840 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 26
26943761 TCATCCCAAA
26943771 TTTACCCCAATAAAATTTTTGACAAT
1 TTTACCCCAATAAAATTTTTGACAAT
* * **
26943797 TTTACCTTCGATAAAA-TTTTGAGGAT
1 TTTACC-CCAATAAAATTTTTGACAAT
* *
26943823 TTTATCCCAGTAAAATTT
1 TTTACCCCAATAAAATTT
26943841 CGAGAAAATT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
25 6 0.18
26 21 0.62
27 7 0.21
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.41
Consensus pattern (26 bp):
TTTACCCCAATAAAATTTTTGACAAT
Found at i:26944745 original size:12 final size:13
Alignment explanation
Indices: 26944717--26944749 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
26944707 TTATTTCTTT
26944717 TTCTCCATCTACC
1 TTCTCCATCTACC
*
26944730 TTCTCC-TCTTCC
1 TTCTCCATCTACC
26944742 TTCTCCAT
1 TTCTCCAT
26944750 AGTCGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:26945845 original size:28 final size:28
Alignment explanation
Indices: 26945813--26945877 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
26945803 ATTTACTAGA
*
26945813 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
26945841 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
26945869 ATACCCCTA
1 ATACCCCTA
26945878 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:26946041 original size:27 final size:28
Alignment explanation
Indices: 26945983--26946072 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
26945973 AGGAAGCGTC
*
26945983 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
26946011 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
26946038 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
26946067 CTGGTG
1 CTGGTG
26946073 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:26946083 original size:29 final size:28
Alignment explanation
Indices: 26945993--26946083 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
26945983 CTGGTGGCTA
* * *
26945993 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
26946021 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
26946048 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
26946077 TGTCACA
1 TGCCACA
26946084 TTTTCTGTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:26946091 original size:55 final size:56
Alignment explanation
Indices: 26945983--26946097 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
26945973 AGGAAGCGTC
* * *
26945983 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
26946038 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
26946094 CTGG
1 CTGG
26946098 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:26951781 original size:69 final size:68
Alignment explanation
Indices: 26951670--26951911 Score: 211
Period size: 69 Copynumber: 3.5 Consensus size: 68
26951660 TTCATGTGGC
* * *
26951670 CTAAAACAATTAGCGAA-AG-AAAGACTCTCAGTTGTCATATTAAGGTTCGAAGGCGAAGAGCCG
1 CTAAAACAATTAGC-AAGAGCAAAG-CTCCCAATTGTCATATTAAGGTTC-AAGGCGAAGAGCCA
26951733 CAACCT
63 CAACCT
* ** ** *
26951739 CTAAAACAATTAGCAAGAGCAAAGCTCCCAACTGTCATATTAAATTTCTCAA-GCGAAGAGTTAT
1 CTAAAACAATTAGCAAGAGCAAAGCTCCCAATTGTCATATT-AAGGT-TCAAGGCGAAGAGCCAC
*
26951803 ATCCT
64 AACCT
* * * * * * *
26951808 CTAAAACAGTTACCGAGATCAAAGCTCCCAATTGCCATATTAAGGTTCACAGGCAAAAAGCCACA
1 CTAAAACAATTAGCAAGAGCAAAGCTCCCAATTGTCATATTAAGGTTCA-AGGCGAAGAGCCACA
26951873 ACCT
65 ACCT
* * * * *
26951877 CCAAAATAGTTAGCAAGAGTAAAGCTCCCAGTTGT
1 CTAAAACAATTAGCAAGAGCAAAGCTCCCAATTGT
26951912 GTCGCGTGTG
Statistics
Matches: 135, Mismatches: 32, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
67 3 0.02
68 6 0.04
69 115 0.85
70 9 0.07
71 2 0.01
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.22
Consensus pattern (68 bp):
CTAAAACAATTAGCAAGAGCAAAGCTCCCAATTGTCATATTAAGGTTCAAGGCGAAGAGCCACAA
CCT
Found at i:26953836 original size:69 final size:69
Alignment explanation
Indices: 26953448--26953811 Score: 467
Period size: 69 Copynumber: 5.3 Consensus size: 69
26953438 AGAGTTATCA
* * * * *
26953448 AGCTGTCATATTAAGGTTCGCAGGCAAAGAGCTGCAACCTCTAAAATAGTTAGCTAGAGCAAAGC
1 AGCTGTCATATTAAGGTTCACAGGCGAAGAGCCGCAACCTCCAAAATAGTTAGCGAGAGCAAAGC
26953513 TCCC
66 TCCC
* *
26953517 AGCTGTCATATTAAGGTTCACAGGCGAAGAGCCACAACCTCCAAAATAGTTAGTGAGAGCAAAGC
1 AGCTGTCATATTAAGGTTCACAGGCGAAGAGCCGCAACCTCCAAAATAGTTAGCGAGAGCAAAGC
*
26953582 TCCT
66 TCCC
* * * * * *
26953586 AGTTGTCATATTAAGGTTCACAGGCGAAGAGCTGCAACCTCCAAAACAGTTAGTGAGAGAAAAGT
1 AGCTGTCATATTAAGGTTCACAGGCGAAGAGCCGCAACCTCCAAAATAGTTAGCGAGAGCAAAGC
26953651 TCCC
66 TCCC
* * ** * * * *
26953655 AGTTGTCATATTAAGATTTGCAGGCGAAGAGCCGCAAGCTTCAAAATAGTTAGCAAGAACAAAGC
1 AGCTGTCATATTAAGGTTCACAGGCGAAGAGCCGCAACCTCCAAAATAGTTAGCGAGAGCAAAGC
*
26953720 TCCT
66 TCCC
* * * *
26953724 AGCTATCATATTAAGGTTCACAAGCAAAGAGCCGTAACCTCCAAAATAGTTAGCGAGAGCAAAGC
1 AGCTGTCATATTAAGGTTCACAGGCGAAGAGCCGCAACCTCCAAAATAGTTAGCGAGAGCAAAGC
26953789 TCCC
66 TCCC
* *
26953793 AGCTATCATATAAAGGTTC
1 AGCTGTCATATTAAGGTTC
26953812 GTAGACGAAT
Statistics
Matches: 253, Mismatches: 42, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
69 253 1.00
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (69 bp):
AGCTGTCATATTAAGGTTCACAGGCGAAGAGCCGCAACCTCCAAAATAGTTAGCGAGAGCAAAGC
TCCC
Found at i:26956792 original size:46 final size:46
Alignment explanation
Indices: 26956739--26956878 Score: 112
Period size: 46 Copynumber: 3.2 Consensus size: 46
26956729 AAATTACCTT
26956739 TGTTTTAATTGTAGAAACCATACTATTGATAAAAGAAGGAAATAGA
1 TGTTTTAATTGTAGAAACCATACTATTGATAAAAGAAGGAAATAGA
** * * * * * * * ** ***
26956785 TGTTTTAAAAGAAAAAAGCACAGT-TT-CT-GAA-AA--TTATCTT
1 TGTTTTAATTGTAGAAACCATACTATTGATAAAAGAAGGAAATAGA
26956825 TGTTTTAATTGTAGAAACCATACTATTGATAAAAGAAGGAAATAGA
1 TGTTTTAATTGTAGAAACCATACTATTGATAAAAGAAGGAAATAGA
26956871 TGTTTTAA
1 TGTTTTAA
26956879 AAGAAAAAAT
Statistics
Matches: 60, Mismatches: 28, Indels: 12
0.60 0.28 0.12
Matches are distributed among these distances:
40 19 0.32
41 2 0.03
42 3 0.05
43 4 0.07
44 3 0.05
45 2 0.03
46 27 0.45
ACGTcount: A:0.44, C:0.07, G:0.16, T:0.34
Consensus pattern (46 bp):
TGTTTTAATTGTAGAAACCATACTATTGATAAAAGAAGGAAATAGA
Found at i:26956814 original size:86 final size:86
Alignment explanation
Indices: 26956669--26956927 Score: 466
Period size: 86 Copynumber: 3.0 Consensus size: 86
26956659 CCTTACCCTC
*
26956669 ACCATACTATCGATAAAAGAAGGAAATAGATGTTTTAAAAGAAAAAAGCAAAGTTTCTGAAAATT
1 ACCATACTATTGATAAAAGAAGGAAATAGATGTTTTAAAAGAAAAAAGCAAAGTTTCTGAAAATT
26956734 ACCTTTGTTTTAATTGTAGAA
66 ACCTTTGTTTTAATTGTAGAA
*
26956755 ACCATACTATTGATAAAAGAAGGAAATAGATGTTTTAAAAGAAAAAAGCACAGTTTCTGAAAATT
1 ACCATACTATTGATAAAAGAAGGAAATAGATGTTTTAAAAGAAAAAAGCAAAGTTTCTGAAAATT
*
26956820 ATCTTTGTTTTAATTGTAGAA
66 ACCTTTGTTTTAATTGTAGAA
26956841 ACCATACTATTGATAAAAGAAGGAAATAGATGTTTTAAAAGAAAAAATG-AAAGTTTCTGAAAAT
1 ACCATACTATTGATAAAAGAAGGAAATAGATGTTTTAAAAGAAAAAA-GCAAAGTTTCTGAAAAT
*
26956905 TACCTTTATTTTAATTGTAGAA
65 TACCTTTGTTTTAATTGTAGAA
26956927 A
1 A
26956928 ACGCTGAGAA
Statistics
Matches: 166, Mismatches: 6, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
86 165 0.99
87 1 0.01
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.32
Consensus pattern (86 bp):
ACCATACTATTGATAAAAGAAGGAAATAGATGTTTTAAAAGAAAAAAGCAAAGTTTCTGAAAATT
ACCTTTGTTTTAATTGTAGAA
Found at i:26967537 original size:209 final size:209
Alignment explanation
Indices: 26967203--26968089 Score: 1756
Period size: 209 Copynumber: 4.2 Consensus size: 209
26967193 TTATTTAGAG
26967203 TAAACGAGAGAAATCGAAACCCAGTAAGTTAGGGCACGTTTTCTCGAATTCTCGAACACCAAATA
1 TAAACGAGAGAAATCGAAACCCAGTAAGTTAGGGCACGTTTTCTCGAATTCTCGAACACCAAATA
26967268 TTGCCTTTATTTCAAAACAAATTCTTATTTCGAGATGACAAAATGTCATACCTGGTAAGTTAGGG
66 TTGCCTTTATTTCAAAACAAATTCTTATTTCGAGATGACAAAATGTCATACCTGGTAAGTTAGGG
26967333 CACTACAGTTCGCATCTTCGAGAATAAGCATTTTTCAAAACTCGTATAGCGATTTAAAAGAGTAT
131 CACTACAGTTCGCATCTTCGAGAATAAGCATTTTTCAAAACTCGTATAGCGATTTAAAAGAGTAT
26967398 TCCGTTATTTGGGT
196 TCCGTTATTTGGGT
26967412 TAAACGAGAGAAATCGAAACCCAGTAAGTTAGGGCACGTTTTCTCGAATTCTCGAACACCAAATA
1 TAAACGAGAGAAATCGAAACCCAGTAAGTTAGGGCACGTTTTCTCGAATTCTCGAACACCAAATA
26967477 TTGCCTTTATTTCAAAACAAATTCTTATTTCGAGATGACAAAATGTCATACCTGGTAAGTTAGGG
66 TTGCCTTTATTTCAAAACAAATTCTTATTTCGAGATGACAAAATGTCATACCTGGTAAGTTAGGG
26967542 CACTACAGTTCGCATCTTCGAGAATAAGCATTTTTCAAAACTCGTATAGCGATTTAAAAGAGTAT
131 CACTACAGTTCGCATCTTCGAGAATAAGCATTTTTCAAAACTCGTATAGCGATTTAAAAGAGTAT
26967607 TCCGTTATTTGGGT
196 TCCGTTATTTGGGT
26967621 TAAACGAGAGAAATCGAAACCCAGTAAGTTAGGGCACGTTTTCTCGAATTCTCGAACACCAAATA
1 TAAACGAGAGAAATCGAAACCCAGTAAGTTAGGGCACGTTTTCTCGAATTCTCGAACACCAAATA
26967686 TTGCCTTTATTTCAAAACAAATTCTTATTTCGAGATGACAAAATGTCATACCTGGTAAGTTAGGG
66 TTGCCTTTATTTCAAAACAAATTCTTATTTCGAGATGACAAAATGTCATACCTGGTAAGTTAGGG
26967751 CACTACAGTTCGCATCTTCGAGAATAAGCATTTTTCAAAACTCGTATAGCGATTTAAAAGAGTAT
131 CACTACAGTTCGCATCTTCGAGAATAAGCATTTTTCAAAACTCGTATAGCGATTTAAAAGAGTAT
26967816 TCCGTTATTTGGGT
196 TCCGTTATTTGGGT
26967830 TAAACGAGAGAAATCGAAACCCAGTAAGTTAGGGCACGTTTTCTCGAATTCTCGAACACCAAATA
1 TAAACGAGAGAAATCGAAACCCAGTAAGTTAGGGCACGTTTTCTCGAATTCTCGAACACCAAATA
26967895 TTGCCTTTATTTCAAAACAAATTCTTATTTCGAGATGACAAAATGTCATACCTGGTAAGTTAGGG
66 TTGCCTTTATTTCAAAACAAATTCTTATTTCGAGATGACAAAATGTCATACCTGGTAAGTTAGGG
26967960 CACTACAGTTCGCATCTTCGAGAATAAGCATTTTTCAAAACTCGTATAGCGATTTAAAAGAGTAT
131 CACTACAGTTCGCATCTTCGAGAATAAGCATTTTTCAAAACTCGTATAGCGATTTAAAAGAGTAT
26968025 TCCGTTATTTGGGT
196 TCCGTTATTTGGGT
*
26968039 TAAACGAGAGAAATCGAAACCCAGTAAGTTAGGGCACGATTGTCTCGAATT
1 TAAACGAGAGAAATCGAAACCCAGTAAGTTAGGGCACG-TTTTCTCGAATT
26968090 ACCAAATACG
Statistics
Matches: 676, Mismatches: 1, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
209 665 0.98
210 11 0.02
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (209 bp):
TAAACGAGAGAAATCGAAACCCAGTAAGTTAGGGCACGTTTTCTCGAATTCTCGAACACCAAATA
TTGCCTTTATTTCAAAACAAATTCTTATTTCGAGATGACAAAATGTCATACCTGGTAAGTTAGGG
CACTACAGTTCGCATCTTCGAGAATAAGCATTTTTCAAAACTCGTATAGCGATTTAAAAGAGTAT
TCCGTTATTTGGGT
Found at i:26968846 original size:22 final size:21
Alignment explanation
Indices: 26968797--26968851 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 21
26968787 AGATGAAAAA
*
26968797 AAATGTATATAATATGGTATT
1 AAATGTATATAATATAGTATT
*
26968818 AATATGTGTATAATATAGTATTT
1 AA-ATGTATATAATATAGTA-TT
26968841 AAATGTATATA
1 AAATGTATATA
26968852 CATAATGTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.07
22 23 0.79
23 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (21 bp):
AAATGTATATAATATAGTATT
Found at i:26969856 original size:23 final size:23
Alignment explanation
Indices: 26969807--26969856 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
26969797 GTTTTTTTAT
* *
26969807 TAAAAATGGGGTAATATGTTTAT
1 TAAAAATGGGGTAATATGTTAAA
*
26969830 TAAAAATGGGGATAATCTG-TAAA
1 TAAAAATGGGG-TAATATGTTAAA
26969853 TAAA
1 TAAA
26969857 TTCGAAAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.46, C:0.02, G:0.20, T:0.32
Consensus pattern (23 bp):
TAAAAATGGGGTAATATGTTAAA
Found at i:26970249 original size:12 final size:12
Alignment explanation
Indices: 26970232--26970256 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
26970222 TTGGGTTAGT
26970232 GTTTTGGGCTAA
1 GTTTTGGGCTAA
26970244 GTTTTGGGCTAA
1 GTTTTGGGCTAA
26970256 G
1 G
26970257 GGTTTTGGGT
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:0.16, C:0.08, G:0.36, T:0.40
Consensus pattern (12 bp):
GTTTTGGGCTAA
Found at i:26970428 original size:22 final size:20
Alignment explanation
Indices: 26970389--26970429 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
26970379 TTAAATTAGT
*
26970389 TTTTTTATTTAGACATTAAA
1 TTTTTTATTTAGAAATTAAA
26970409 TTTTTTATTTGAGCAAATTAA
1 TTTTTTATTT-AG-AAATTAA
26970430 GAATGAATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 2 0.11
22 6 0.33
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.54
Consensus pattern (20 bp):
TTTTTTATTTAGAAATTAAA
Found at i:26972423 original size:16 final size:16
Alignment explanation
Indices: 26972402--26972432 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26972392 ATACCAACTC
*
26972402 ATTTAATATAAATAAG
1 ATTTAACATAAATAAG
26972418 ATTTAACATAAATAA
1 ATTTAACATAAATAA
26972433 CTCCTCGGTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.35
Consensus pattern (16 bp):
ATTTAACATAAATAAG
Found at i:26976020 original size:28 final size:28
Alignment explanation
Indices: 26975945--26976050 Score: 113
Period size: 28 Copynumber: 3.8 Consensus size: 28
26975935 GAAGTAATTG
*
26975945 GGCCTGATGGGCCATATGAATGTGATTA
1 GGCCTAATGGGCCATATGAATGTGATTA
* **
26975973 GGCCTGATGGAACATATGAATGTGATTA
1 GGCCTAATGGGCCATATGAATGTGATTA
* * * *
26976001 GGCCTAATGGGCCATGTGAACGAGATTG
1 GGCCTAATGGGCCATATGAATGTGATTA
* *
26976029 GGCCTAAAGGGGCCAAATGAAT
1 GGCCT-AATGGGCCATATGAAT
26976051 AAGTGTGGAT
Statistics
Matches: 64, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
28 52 0.81
29 12 0.19
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.24
Consensus pattern (28 bp):
GGCCTAATGGGCCATATGAATGTGATTA
Found at i:26976380 original size:27 final size:27
Alignment explanation
Indices: 26976350--26976609 Score: 263
Period size: 27 Copynumber: 9.7 Consensus size: 27
26976340 TAATGAAGGG
* *
26976350 AAATTATCAAAATACCCTCGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
26976377 AAATTACCGAAGTACCCTCGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
26976404 AAATTACCAAAATACCCTCGA-TTGTG
1 AAATTACCAAAATACCCTCGATTTGTA
** * * *
26976430 AAATTACTGAAATACCATCAATTTGTG
1 AAATTACCAAAATACCCTCGATTTGTA
* * * *
26976457 AAATTACCAAAACACTCTTGATTTTTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
26976484 AAGTTACCGAAATACCCTCGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
26976511 AAATTACCAAAATACCCTCAATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * * *
26976538 AAATTACCGAAACACCCCCAATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
26976565 AAATTATCAAAATACCCTTG-TAGTGTA
1 AAATTACCAAAATACCCTCGAT-TTGTA
*
26976592 AAATTACCGAAATACCCT
1 AAATTACCAAAATACCCT
26976610 TGTAGTGCAA
Statistics
Matches: 190, Mismatches: 41, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
26 22 0.12
27 168 0.88
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:26976508 original size:54 final size:54
Alignment explanation
Indices: 26976350--26976609 Score: 308
Period size: 54 Copynumber: 4.8 Consensus size: 54
26976340 TAATGAAGGG
* * * **
26976350 AAATTATCAAAATACCCTCGGTTTGTAAAATTACCGAAGTACCCTCGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCAATTTGTA
* * * *
26976404 AAATTACCAAAATACCCTCGA-TTGTGAAATTACTGAAATACCATCAATTTGTG
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCAATTTGTA
* * * * * *
26976457 AAATTACCAAAACACTCTTGATTTTTAAAGTTACCGAAATACCCTCGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCAATTTGTA
* * *
26976511 AAATTACCAAAATACCCTCAATTTGTAAAATTACCGAAACACCCCCAATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCAATTTGTA
* * *
26976565 AAATTATCAAAATACCCTTG-TAGTGTAAAATTACCGAAATACCCT
1 AAATTACCAAAATACCCTCGAT-TTGTAAAATTACCGAAATACCCT
26976610 TGTAGTGCAA
Statistics
Matches: 170, Mismatches: 34, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
53 44 0.26
54 126 0.74
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (54 bp):
AAATTACCAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCAATTTGTA
Found at i:26976578 original size:81 final size:81
Alignment explanation
Indices: 26976350--26976609 Score: 290
Period size: 81 Copynumber: 3.2 Consensus size: 81
26976340 TAATGAAGGG
* ** ** *
26976350 AAATTATCAAAATACCCTCGGTTTGTAAAATTACCGAAGTACCCTCGGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCTCAATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTACCAAA
*
26976415 ATACCCTCGA-TTGTG
66 ATACCCTCGATTTGTA
** * * * * * * * *
26976430 AAATTACTGAAATACCATCAATTTGTGAAATTACCAAAACACTCTTGATTTTTAAAGTTACCGAA
1 AAATTACCAAAATACCCTCAATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTACCAAA
26976495 ATACCCTCGATTTGTA
66 ATACCCTCGATTTGTA
* * *
26976511 AAATTACCAAAATACCCTCAATTTGTAAAATTACCGAAACACCCCCAATTTGTAAAATTATCAAA
1 AAATTACCAAAATACCCTCAATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTACCAAA
* *
26976576 ATACCCTTG-TAGTGTA
66 ATACCCTCGAT-TTGTA
*
26976592 AAATTACCGAAATACCCT
1 AAATTACCAAAATACCCT
26976610 TGTAGTGCAA
Statistics
Matches: 145, Mismatches: 33, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
80 60 0.41
81 85 0.59
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCAATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTACCAAA
ATACCCTCGATTTGTA
Found at i:26976621 original size:27 final size:27
Alignment explanation
Indices: 26976564--26976641 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
26976554 CCCAATTTGT
* * *
26976564 AAAATTATCAAAATACCCTTGTAGTGT
1 AAAATTACCGAAATACCCTTGTAGTGC
26976591 AAAATTACCGAAATACCCTTGTAGTGC
1 AAAATTACCGAAATACCCTTGTAGTGC
* *
26976618 AAAATGACCGACATACACC-TGTAG
1 AAAATTACCGAAATAC-CCTTGTAG
26976642 GGTAAAATGA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
27 43 0.96
28 2 0.04
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.26
Consensus pattern (27 bp):
AAAATTACCGAAATACCCTTGTAGTGC
Found at i:26976648 original size:27 final size:27
Alignment explanation
Indices: 26976574--26976652 Score: 106
Period size: 27 Copynumber: 2.9 Consensus size: 27
26976564 AAAATTATCA
*
26976574 AAATACCCTTGTAGTGTAAAATTACCG
1 AAATACCCTTGTAGTGTAAAATGACCG
*
26976601 AAATACCCTTGTAGTGCAAAATGACCG
1 AAATACCCTTGTAGTGTAAAATGACCG
* *
26976628 ACATACACC-TGTAGGGTAAAATGAC
1 AAATAC-CCTTGTAGTGTAAAATGAC
26976653 TGTTTTGCCC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 44 0.96
28 2 0.04
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (27 bp):
AAATACCCTTGTAGTGTAAAATGACCG
Found at i:26980878 original size:34 final size:34
Alignment explanation
Indices: 26980839--26980907 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
26980829 CCAGGGGTGT
* * *
26980839 TTTGGTTTGTACAATTAAATATTAAACATGAGAG
1 TTTGGTCTGTACAATCAAATATTAAACATAAGAG
26980873 TTTGGTCTGTACAATCAAATATTAAACATAAGAG
1 TTTGGTCTGTACAATCAAATATTAAACATAAGAG
26980907 T
1 T
26980908 GTCAGCTGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (34 bp):
TTTGGTCTGTACAATCAAATATTAAACATAAGAG
Found at i:26991088 original size:26 final size:26
Alignment explanation
Indices: 26991047--26991109 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
26991037 TGAATATCAA
* * *
26991047 GCCTTGAGTCGGTGTTTATTTACCAT
1 GCCTTGAGCCGCTGTTTATTTACCAG
*
26991073 GCCTTGAGCCGCTGTTTATTTAGCAG
1 GCCTTGAGCCGCTGTTTATTTACCAG
*
26991099 GCTTTGAGCCG
1 GCCTTGAGCCG
26991110 ATGATGTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.14, C:0.22, G:0.27, T:0.37
Consensus pattern (26 bp):
GCCTTGAGCCGCTGTTTATTTACCAG
Found at i:26991123 original size:25 final size:25
Alignment explanation
Indices: 26991091--26991156 Score: 132
Period size: 25 Copynumber: 2.6 Consensus size: 25
26991081 CCGCTGTTTA
26991091 TTTAGCAGGCTTTGAGCCGATGATG
1 TTTAGCAGGCTTTGAGCCGATGATG
26991116 TTTAGCAGGCTTTGAGCCGATGATG
1 TTTAGCAGGCTTTGAGCCGATGATG
26991141 TTTAGCAGGCTTTGAG
1 TTTAGCAGGCTTTGAG
26991157 TCGCTGAATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.20, C:0.15, G:0.32, T:0.33
Consensus pattern (25 bp):
TTTAGCAGGCTTTGAGCCGATGATG
Found at i:26999543 original size:34 final size:31
Alignment explanation
Indices: 26999488--26999567 Score: 83
Period size: 33 Copynumber: 2.5 Consensus size: 31
26999478 ATCTCATTAT
* *
26999488 GAAAAGG-AATTTCACCTAAAAGGGTGAC-ACTT
1 GAAAAGGAAATGT-ACCTAAAA-GGT-ACAACTG
26999520 GAAAAGGATATATGTACCTAAAAGGTACAACTG
1 GAAAAGGA-A-ATGTACCTAAAAGGTACAACTG
26999553 GAAAAGGAAATGTAC
1 GAAAAGGAAATGTAC
26999568 ACTGTGTGTG
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
31 6 0.14
32 10 0.24
33 14 0.33
34 9 0.21
35 3 0.07
ACGTcount: A:0.45, C:0.12, G:0.23, T:0.20
Consensus pattern (31 bp):
GAAAAGGAAATGTACCTAAAAGGTACAACTG
Found at i:26999581 original size:33 final size:32
Alignment explanation
Indices: 26999544--26999656 Score: 104
Period size: 33 Copynumber: 3.5 Consensus size: 32
26999534 TACCTAAAAG
26999544 GTACAACTGGAAAAGGAAATGTACACTGTGTGT
1 GTACAACTGGAAAAGGAAATGTACACT-TGTGT
** * * *
26999577 GTACAACTAAAAAAAGAAACGTACACTTTGTGG
1 GTACAACTGGAAAAGGAAATGTACAC-TTGTGT
* * *
26999610 GTAC-ACTTGAAAAGGAAGTGTACGCCTTGTGT
1 GTACAACTGGAAAAGGAAATGTAC-ACTTGTGT
26999642 GTACAA-TGTGAAAAG
1 GTACAACTG-GAAAAG
26999657 TGGTAGCTTC
Statistics
Matches: 63, Mismatches: 13, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
32 24 0.38
33 38 0.60
34 1 0.02
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.24
Consensus pattern (32 bp):
GTACAACTGGAAAAGGAAATGTACACTTGTGT
Found at i:26999686 original size:31 final size:31
Alignment explanation
Indices: 26999649--26999924 Score: 310
Period size: 31 Copynumber: 8.8 Consensus size: 31
26999639 TGTGTACAAT
26999649 GTGAAAAGTGGTAGCTTCAGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCAGCTACCTGATCA
26999680 GTGAAAAGTGGTAGCTTC-GACTACCTGATCA
1 GTGAAAAGTGGTAGCTTCAG-CTACCTGATCA
* *
26999711 GTGAAAAGTGGTAGCTTCGGTTACCTGATCA
1 GTGAAAAGTGGTAGCTTCAGCTACCTGATCA
* * *
26999742 GTGAAAAGTAGTAGCTTCGGCTACCTGATTA
1 GTGAAAAGTGGTAGCTTCAGCTACCTGATCA
* *
26999773 GTGAAAAGTGGTAGCTCCAGCTACCTGATTA
1 GTGAAAAGTGGTAGCTTCAGCTACCTGATCA
* * *
26999804 GTGAATAGTGGTAGCTTCGGCTACAAGTGA-CAA
1 GTGAAAAGTGGTAGCTTCAGCTAC--CTGATC-A
26999837 GTGAAAAGTGGTAGC-TCTAGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTC-AGCTACCTGATCA
* *
26999868 GTGAATAGTGGTAGCTTCGGCT-CCAAGTGA-CAA
1 GTGAAAAGTGGTAGCTTCAGCTACC---TGATC-A
* *
26999901 GTGATAAGTGGTAGCTTTAGCTAC
1 GTGAAAAGTGGTAGCTTCAGCTAC
26999925 ACTTATCTGA
Statistics
Matches: 211, Mismatches: 21, Indels: 23
0.83 0.08 0.09
Matches are distributed among these distances:
30 3 0.01
31 155 0.73
32 7 0.03
33 45 0.21
34 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (31 bp):
GTGAAAAGTGGTAGCTTCAGCTACCTGATCA
Found at i:26999720 original size:62 final size:62
Alignment explanation
Indices: 26999649--26999924 Score: 344
Period size: 62 Copynumber: 4.4 Consensus size: 62
26999639 TGTGTACAAT
*
26999649 GTGAAAAGTGGTAGCTTCAGCTACCTGATCAGTGAAAAGTGGTAGCTTCGACTACCTGATCA
1 GTGAAAAGTGGTAGCTTCAGCTACCTGATCAGTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* * * *
26999711 GTGAAAAGTGGTAGCTTCGGTTACCTGATCAGTGAAAAGTAGTAGCTTCGGCTACCTGATTA
1 GTGAAAAGTGGTAGCTTCAGCTACCTGATCAGTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* * * *
26999773 GTGAAAAGTGGTAGCTCCAGCTACCTGATTAGTGAATAGTGGTAGCTTCGGCTACAAGTGA-CAA
1 GTGAAAAGTGGTAGCTTCAGCTACCTGATCAGTGAAAAGTGGTAGCTTCGGCTAC--CTGATC-A
*
26999837 GTGAAAAGTGGTAGC-TCTAGCTACCTGATCAGTGAATAGTGGTAGCTTCGGCT-CCAAGTGA-C
1 GTGAAAAGTGGTAGCTTC-AGCTACCTGATCAGTGAAAAGTGGTAGCTTCGGCTACC---TGATC
26999899 AA
62 -A
* *
26999901 GTGATAAGTGGTAGCTTTAGCTAC
1 GTGAAAAGTGGTAGCTTCAGCTAC
26999925 ACTTATCTGA
Statistics
Matches: 188, Mismatches: 18, Indels: 14
0.85 0.08 0.06
Matches are distributed among these distances:
62 106 0.56
63 2 0.01
64 79 0.42
65 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (62 bp):
GTGAAAAGTGGTAGCTTCAGCTACCTGATCAGTGAAAAGTGGTAGCTTCGGCTACCTGATCA
Found at i:27000019 original size:27 final size:27
Alignment explanation
Indices: 26999981--27000045 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
26999971 TAGTTGAACT
*
26999981 ATGGCAAAGTGATAAAGTGTGCCAATC
1 ATGGCAAAGTGATAAAGTGTGCCAAAC
* *
27000008 ATGGCAAAGTGATATAGTGTTCCAAAC
1 ATGGCAAAGTGATAAAGTGTGCCAAAC
*
27000035 ATAGCAAAGTG
1 ATGGCAAAGTG
27000046 TTCAGTGATC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (27 bp):
ATGGCAAAGTGATAAAGTGTGCCAAAC
Found at i:27000172 original size:34 final size:34
Alignment explanation
Indices: 27000100--27000181 Score: 112
Period size: 34 Copynumber: 2.4 Consensus size: 34
27000090 CATGGCAAAG
27000100 TGTGAAACGTAGGTATGGTATTTCCATACCGAGC
1 TGTGAAACGTAGGTATGGTATTTCCATACCGAGC
* * * *
27000134 TGTGAAATGTAGGTATGGTGTTTCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTTCCATACCGAGC
*
27000168 TGTGAATCGT-GGTA
1 TGTGAAACGTAGGTA
27000182 CTGAGCAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 4 0.10
34 38 0.90
ACGTcount: A:0.24, C:0.12, G:0.29, T:0.34
Consensus pattern (34 bp):
TGTGAAACGTAGGTATGGTATTTCCATACCGAGC
Found at i:27001340 original size:15 final size:15
Alignment explanation
Indices: 27001320--27001350 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
27001310 ATCTCTCTTG
27001320 AGACTAAAAACAACT
1 AGACTAAAAACAACT
27001335 AGACTAAAAACAACT
1 AGACTAAAAACAACT
27001350 A
1 A
27001351 ACTCTAGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.61, C:0.19, G:0.06, T:0.13
Consensus pattern (15 bp):
AGACTAAAAACAACT
Found at i:27004445 original size:13 final size:13
Alignment explanation
Indices: 27004427--27004466 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
27004417 GAAGTAATAG
*
27004427 CACACGGGTGTGT
1 CACACGGGCGTGT
27004440 CACACGGGCGTGT
1 CACACGGGCGTGT
27004453 CACACGGGCGTGT
1 CACACGGGCGTGT
27004466 C
1 C
27004467 CCTGCCAAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.15, C:0.30, G:0.38, T:0.17
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:27007286 original size:43 final size:42
Alignment explanation
Indices: 27007220--27007376 Score: 142
Period size: 43 Copynumber: 3.7 Consensus size: 42
27007210 AAGCTCCTAC
* *
27007220 ATGCCAATGTCCCAGACGTGGTCTTACTTGTAATCAAATATTG
1 ATGCCACTGTCCCAGACGTGGTCTTACATGTAATCAAATA-TG
* ** *
27007263 ATGCCACTATCCCAGACAG-GGTCTTACGCGAAATCAAATATG
1 ATGCCACTGTCCCAGAC-GTGGTCTTACATGTAATCAAATATG
* *
27007305 ACGCCAAC-GTCCCAGACGTGGTCTTACATGTAAATCATAAGT-CG
1 ATGCC-ACTGTCCCAGACGTGGTCTTACATGT-AATCA-AA-TATG
*
27007349 ATGCCAAC-GTCTCAGACGTGGTCTTACA
1 ATGCC-ACTGTCCCAGACGTGGTCTTACA
27007377 GGATAACACA
Statistics
Matches: 95, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
41 1 0.01
42 23 0.24
43 40 0.42
44 30 0.32
45 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.25
Consensus pattern (42 bp):
ATGCCACTGTCCCAGACGTGGTCTTACATGTAATCAAATATG
Found at i:27009643 original size:19 final size:19
Alignment explanation
Indices: 27009619--27009659 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
27009609 ACAACTCTAT
27009619 AACATTATCAACCGAATTA
1 AACATTATCAACCGAATTA
27009638 AACATTATCAACCGAATTA
1 AACATTATCAACCGAATTA
27009657 AAC
1 AAC
27009660 CAAGACAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.49, C:0.22, G:0.05, T:0.24
Consensus pattern (19 bp):
AACATTATCAACCGAATTA
Found at i:27016702 original size:46 final size:46
Alignment explanation
Indices: 27016635--27016804 Score: 193
Period size: 46 Copynumber: 3.7 Consensus size: 46
27016625 TGTAACCCGC
*
27016635 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCAT
*
27016681 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGC-A--T
* *** * * * *
27016727 ACATCTCTCGAACTCAGACTCAACTCAACGAGTTCAGACATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCAT
27016774 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
27016805 TTCGGATGCC
Statistics
Matches: 101, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 61 0.60
47 29 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCAT
Found at i:27016751 original size:93 final size:93
Alignment explanation
Indices: 27016643--27016814 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
27016633 GCCCATAAGT
* * *
27016643 GAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
27016708 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
27016736 GAACTCAGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
27016801 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
27016815 CAAATATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:27016829 original size:46 final size:46
Alignment explanation
Indices: 27016686--27016829 Score: 111
Period size: 46 Copynumber: 3.1 Consensus size: 46
27016676 CGCATCCATA
* * *
27016686 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TATATC-CT
* * * *
27016735 --CGAACTCAGACTCAACTCAACGAGTTC--A-G-ACATTTGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATAT--ATCC-T
*
27016778 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCT
27016825 AGTGA
1 AGTGA
27016830 CATGTCACTT
Statistics
Matches: 73, Mismatches: 12, Indels: 23
0.68 0.11 0.21
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 5 0.07
44 1 0.01
45 1 0.01
46 30 0.41
47 25 0.34
48 5 0.07
49 1 0.01
50 3 0.04
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCT
Found at i:27019706 original size:13 final size:13
Alignment explanation
Indices: 27019688--27019712 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27019678 GGCATGAACC
27019688 ACGGCCGTGTGAT
1 ACGGCCGTGTGAT
27019701 ACGGCCGTGTGA
1 ACGGCCGTGTGA
27019713 AAACAGGGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.24, G:0.40, T:0.20
Consensus pattern (13 bp):
ACGGCCGTGTGAT
Found at i:27035199 original size:178 final size:172
Alignment explanation
Indices: 27034834--27035265 Score: 555
Period size: 178 Copynumber: 2.5 Consensus size: 172
27034824 TCTTGCTACC
* * *
27034834 TCAGAGAGATAAGGCT-GGTGGCTTAAATCA-GCTCCATTGCCGATACATGGAGATAAGATTTAC
1 TCAGGGAGATAAGGCTCGG-GGCTTAAAT-ATGTTCCATTGCCGATACATGGAGATAAGATTCAC
* *
27034897 CATCTTCGATCTGCTCCACTACTGCTTAGGGAAATAAGATCTTCTTTAGTCTGCTTCCTTGCTAC
64 C-TCTTCGATCTGCTCCGCTACTGCTTAGGGAAATAAGATCTTCTTTAATCTGCTTCCTTGCTAC
* * *
27034962 CACAGGAAGATAAAACTTGTATTTTGAACCCGCTCCACTGCAATT
128 CACAGGAAGATAAAACTTGTATCTCGAACCCGCTCCACTGCAACT
* ** *
27035007 TCAGGGAGATAAGGCTCGAGGGCTTAAATTTGTTCCATTGCTAATACATGGAGATAAAATTCACC
1 TCAGGGAGATAAGGCTCG-GGGCTTAAATATGTTCCATTGCCGATACATGGAGATAAGATTCACC
* * *
27035072 TCTCCCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTTCAATCTTTAATTTGCTTCCTTGC
65 TCT-TCGATCTGCTCCGCTACTGCTTAGGGAAATAAGATC-T---TCTTTAATCTGCTTCCTTGC
** *
27035137 TACCTTAGGAAGATAAGACTTGTATCTCGAACCCGCTCCACTGCAACT
125 TACCACAGGAAGATAAAACTTGTATCTCGAACCCGCTCCACTGCAACT
* *
27035185 TCAGGGAGATAAGGCTCGGGGCTTAAATATGCTT-TATTGCCGATACATGGAGATAAGATTCGCC
1 TCAGGGAGATAAGGCTCGGGGCTTAAATATG-TTCCATTGCCGATACATGGAGATAAGATTCACC
*
27035249 TCTTTCGATCTACTCCG
65 TC-TTCGATCTGCTCCG
27035266 TTGCACCTCA
Statistics
Matches: 223, Mismatches: 26, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
173 18 0.08
174 72 0.32
175 2 0.01
177 50 0.22
178 81 0.36
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (172 bp):
TCAGGGAGATAAGGCTCGGGGCTTAAATATGTTCCATTGCCGATACATGGAGATAAGATTCACCT
CTTCGATCTGCTCCGCTACTGCTTAGGGAAATAAGATCTTCTTTAATCTGCTTCCTTGCTACCAC
AGGAAGATAAAACTTGTATCTCGAACCCGCTCCACTGCAACT
Found at i:27044473 original size:67 final size:71
Alignment explanation
Indices: 27044310--27044473 Score: 219
Period size: 75 Copynumber: 2.3 Consensus size: 71
27044300 CACACCACAG
* * *
27044310 AAATTACAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAAGAGATATATATATGTGTGTGG
1 AAATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAG--A-ATATATGTGTGTCG
27044375 TGAAGCCACC
63 TG-AGCCACC
* *
27044385 AGATTGCGGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAG-ATATATGTG-G-CGTG-
1 AAATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGAATATATGTGTGTCGTGA
27044446 GCCACC
66 GCCACC
27044452 AAATTGCAGCGAGGCTGCCAGA
1 AAATTGCAGCGAGGCTGCCAGA
27044474 ACGCTTCCTC
Statistics
Matches: 82, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
67 26 0.32
69 3 0.04
70 1 0.01
71 9 0.11
75 43 0.52
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.20
Consensus pattern (71 bp):
AAATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGAATATATGTGTGTCGTGA
GCCACC
Found at i:27057381 original size:8 final size:8
Alignment explanation
Indices: 27057368--27057396 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
27057358 GATAATAGAA
27057368 GAATTGAT
1 GAATTGAT
27057376 GAATTGAT
1 GAATTGAT
27057384 GAATTGAT
1 GAATTGAT
27057392 GAATT
1 GAATT
27057397 TAAAATCACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (8 bp):
GAATTGAT
Found at i:27057772 original size:25 final size:26
Alignment explanation
Indices: 27057724--27057776 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
27057714 TGTAACAGAT
27057724 TTTAAAAAAATGATTATGTAAATAAA
1 TTTAAAAAAATGATTATGTAAATAAA
*
27057750 TTTAAAAGAATG-TGTATGT-AATAAA
1 TTTAAAAAAATGAT-TATGTAAATAAA
27057775 TT
1 TT
27057777 AATGATGTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 9 0.36
26 16 0.64
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (26 bp):
TTTAAAAAAATGATTATGTAAATAAA
Found at i:27069961 original size:40 final size:40
Alignment explanation
Indices: 27069906--27070123 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
27069896 TTGATGATAA
* * *
27069906 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
27069946 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
27069986 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTGTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
27070026 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
27070066 CTGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
27070106 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
27070124 TACTTGGCTT
Statistics
Matches: 160, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 16 0.10
40 144 0.90
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:27083478 original size:28 final size:28
Alignment explanation
Indices: 27083415--27083549 Score: 220
Period size: 28 Copynumber: 4.9 Consensus size: 28
27083405 ATATTAAGTC
* * *
27083415 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAGTCAAACT
*
27083442 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
27083470 CGCACACTTAGTGCTACATAGTC-AACT
1 CGCACACTTAGTGCTACATAGTCAAACT
27083497 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
27083525 CGCACACTTAGTGCTACATAGTCAA
1 CGCACACTTAGTGCTACATAGTCAA
27083550 NNNNNNNNNN
Statistics
Matches: 103, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
27 48 0.47
28 55 0.53
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAGTCAAACT
Found at i:27083499 original size:55 final size:55
Alignment explanation
Indices: 27083415--27083549 Score: 234
Period size: 55 Copynumber: 2.5 Consensus size: 55
27083405 ATATTAAGTC
* * *
27083415 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
27083470 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
27083525 CGCACACTTAGTGCTACATAGTCAA
1 CGCACACTTAGTGCTACATAGTCAA
27083550 NNNNNNNNNN
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 76 1.00
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.25
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:27090427 original size:27 final size:27
Alignment explanation
Indices: 27090410--27090889 Score: 474
Period size: 27 Copynumber: 17.6 Consensus size: 27
27090400 ATATTAAGTC
27090410 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
27090437 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
27090465 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
27090492 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
27090519 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
27090547 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
27090575 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
27090603 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
27090631 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
27090658 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
27090685 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
27090713 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
27090740 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
27090767 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
27090794 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
27090821 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * * *
27090848 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
*
27090875 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
27090890 GCACAATTTA
Statistics
Matches: 444, Mismatches: 6, Indels: 6
0.97 0.01 0.01
Matches are distributed among these distances:
27 281 0.63
28 163 0.37
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:27090540 original size:54 final size:54
Alignment explanation
Indices: 27090410--27090889 Score: 852
Period size: 54 Copynumber: 8.8 Consensus size: 54
27090400 ATATTAAGTC
* * * *
27090410 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTC-AACT
27090465 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
27090519 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTC-AACT
27090575 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTC-AACT
27090631 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
*
27090685 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTCAACT
27090740 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
27090794 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
*
27090848 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
27090890 GCACAATTTA
Statistics
Matches: 415, Mismatches: 7, Indels: 7
0.97 0.02 0.02
Matches are distributed among these distances:
54 179 0.43
55 153 0.37
56 83 0.20
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
Found at i:27090547 original size:82 final size:82
Alignment explanation
Indices: 27090410--27090889 Score: 874
Period size: 82 Copynumber: 5.9 Consensus size: 82
27090400 ATATTAAGTC
* * * *
27090410 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
27090475 GTGCTACATAGTCAACT
66 GTGCTACATAGTCAACT
27090492 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
27090557 GTGCTACATAGTCAAACT
66 GTGCTACATAGTC-AACT
27090575 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
27090640 AGTGCTACATAGTCAACT
65 AGTGCTACATAGTCAACT
*
27090658 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
27090723 GTGCTACATAGTCAACT
66 GTGCTACATAGTCAACT
27090740 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTC-AACTCGCACACTTA
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
27090804 GTGCTACATAGTCAACT
66 GTGCTACATAGTCAACT
*
27090821 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTC-AATTCGCACACTTA
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
27090885 GTGCT
66 GTGCT
27090890 GCACAATTTA
Statistics
Matches: 389, Mismatches: 7, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
81 99 0.25
82 181 0.47
83 54 0.14
84 55 0.14
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (82 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
GTGCTACATAGTCAACT
Found at i:27093188 original size:13 final size:13
Alignment explanation
Indices: 27093166--27093195 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
27093156 CACTTAAACC
27093166 ATCTAAAACATCA
1 ATCTAAAACATCA
*
27093179 ATCTATAACATCA
1 ATCTAAAACATCA
27093192 ATCT
1 ATCT
27093196 TGTAATATCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (13 bp):
ATCTAAAACATCA
Found at i:27094542 original size:46 final size:46
Alignment explanation
Indices: 27094489--27094617 Score: 231
Period size: 46 Copynumber: 2.8 Consensus size: 46
27094479 TATTTGGGCA
*
27094489 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
27094535 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
27094581 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27094618 GCGGGTTACA
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:27099034 original size:53 final size:54
Alignment explanation
Indices: 27098966--27099172 Score: 209
Period size: 53 Copynumber: 3.8 Consensus size: 54
27098956 TTCCTTTTTA
* * *
27098966 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGTCTTATAG
* * * * * * *
27099019 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGTCTTATCG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGTCTTATAG
** * * * * * *
27099073 TAGTTTATCAATGCCATGTTTTGACATGGTCTTACATGATTTCCTTGTCTTGTAA
1 -AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGTCTTATAG
* * *
27099128 AACTTACCAATGTCATGTCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
27099173 AAACCCTAAT
Statistics
Matches: 121, Mismatches: 31, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
53 45 0.37
54 37 0.31
55 39 0.32
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.40
Consensus pattern (54 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGTCTTATAG
Found at i:27103835 original size:29 final size:29
Alignment explanation
Indices: 27103793--27103852 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
27103783 AAGAGCACGA
27103793 ATAGCATAGGTCCTTGCAGGTGCTCTAAC
1 ATAGCATAGGTCCTTGCAGGTGCTCTAAC
*
27103822 ATAGCATAGGTCCTTGCAGGTGTTCTAAC
1 ATAGCATAGGTCCTTGCAGGTGCTCTAAC
27103851 AT
1 AT
27103853 CTGGTCTCGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (29 bp):
ATAGCATAGGTCCTTGCAGGTGCTCTAAC
Found at i:27111262 original size:95 final size:95
Alignment explanation
Indices: 27111099--27111284 Score: 363
Period size: 95 Copynumber: 2.0 Consensus size: 95
27111089 GATAGTTGTG
27111099 AAATGGAGTGAAAACCATTAAATTATACACATAAGTATCCAGCAAGAAAATTAAACTACTAAATG
1 AAATGGAGTGAAAACCATTAAATTATACACATAAGTATCCAGCAAGAAAATTAAACTACTAAATG
27111164 TATTTATTCTAGATCAAGACATCAAATGGA
66 TATTTATTCTAGATCAAGACATCAAATGGA
*
27111194 AAATGGAGTGAAAACCATTAAATTATACACATAAGTATCCTGCAAGAAAATTAAACTACTAAATG
1 AAATGGAGTGAAAACCATTAAATTATACACATAAGTATCCAGCAAGAAAATTAAACTACTAAATG
27111259 TATTTATTCTAGATCAAGACATCAAA
66 TATTTATTCTAGATCAAGACATCAAA
27111285 GGGGGAGAAT
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 90 1.00
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.27
Consensus pattern (95 bp):
AAATGGAGTGAAAACCATTAAATTATACACATAAGTATCCAGCAAGAAAATTAAACTACTAAATG
TATTTATTCTAGATCAAGACATCAAATGGA
Found at i:27115285 original size:39 final size:39
Alignment explanation
Indices: 27115168--27115390 Score: 233
Period size: 39 Copynumber: 5.6 Consensus size: 39
27115158 GCTCCTCGTT
* * *
27115168 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCACA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
27115208 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
*
27115248 CAAATGCCTTCCGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
27115287 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
27115326 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
27115367 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
27115391 CATCATTCAA
Statistics
Matches: 162, Mismatches: 14, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
39 92 0.57
40 59 0.36
41 11 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:27115345 original size:79 final size:80
Alignment explanation
Indices: 27115168--27115390 Score: 248
Period size: 79 Copynumber: 2.8 Consensus size: 80
27115158 GCTCCTCGTT
* * * *
27115168 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCACACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTC-GGACTTAGCCCGGAAT-TAGTAATCTCGCACAAATGCCTTCGGGACTTAGCCC
*
27115231 GGATTTAGTAACTCGCA
64 GGAATTAGTAACTCGCA
27115248 CAAATGCCTTCCGG-CTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTT-CGGACTTAGCCCGGAATTAGTAATCTCGCACAAATGCCTTCGGGACTTAGCCCG
*
27115310 GAATTAGTATCTCGCA
65 GAATTAGTAACTCGCA
* * *
27115326 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCAC-AA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCACAAATGCCTTCGGGACTTAGCC
27115387 CGGA
63 CGGA
27115391 CATCATTCAA
Statistics
Matches: 126, Mismatches: 8, Indels: 19
0.82 0.05 0.12
Matches are distributed among these distances:
77 3 0.02
78 43 0.34
79 57 0.45
80 22 0.17
81 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGACTTAGCCCGGAATTAGTAATCTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCA
Found at i:27121781 original size:46 final size:46
Alignment explanation
Indices: 27121714--27121801 Score: 167
Period size: 46 Copynumber: 1.9 Consensus size: 46
27121704 AGCTAAACGG
*
27121714 TTCATATGCACGAATTTTCAATATCATACTTACTTCACATTATAAT
1 TTCATATGCACAAATTTTCAATATCATACTTACTTCACATTATAAT
27121760 TTCATATGCACAAATTTTCAATATCATACTTACTTCACATTA
1 TTCATATGCACAAATTTTCAATATCATACTTACTTCACATTA
27121802 CAAACCCTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.35, C:0.20, G:0.03, T:0.41
Consensus pattern (46 bp):
TTCATATGCACAAATTTTCAATATCATACTTACTTCACATTATAAT
Found at i:27121787 original size:22 final size:22
Alignment explanation
Indices: 27121715--27121787 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
27121705 GCTAAACGGT
*
27121715 TCATATGCACGAATTTTCAATA
1 TCATATGCACAAATTTTCAATA
* * * * *
27121737 TCATACTTACTTCACATTAT-AATT
1 TCATA--TGC-ACAAATTTTCAATA
27121761 TCATATGCACAAATTTTCAATA
1 TCATATGCACAAATTTTCAATA
27121783 TCATA
1 TCATA
27121788 CTTACTTCAC
Statistics
Matches: 36, Mismatches: 11, Indels: 8
0.65 0.20 0.15
Matches are distributed among these distances:
21 6 0.17
22 15 0.42
24 10 0.28
25 5 0.14
ACGTcount: A:0.37, C:0.19, G:0.04, T:0.40
Consensus pattern (22 bp):
TCATATGCACAAATTTTCAATA
Found at i:27122062 original size:40 final size:40
Alignment explanation
Indices: 27122025--27122289 Score: 349
Period size: 40 Copynumber: 6.7 Consensus size: 40
27122015 GCTACTCGTT
* *
27122025 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
27122065 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
27122105 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
27122145 CAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
27122185 CAAATGCCTTCGAG-CTTATCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
27122224 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
27122265 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
27122290 CATCATTCGA
Statistics
Matches: 202, Mismatches: 18, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
38 1 0.00
39 32 0.16
40 156 0.77
41 13 0.06
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:27122278 original size:119 final size:120
Alignment explanation
Indices: 27122025--27122287 Score: 354
Period size: 119 Copynumber: 2.2 Consensus size: 120
27122015 GCTACTCGTT
* * *
27122025 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGG
* * *
27122090 ATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 AATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCA
* *
27122145 CAAATGCCTTCGGGACTTAACCCGAATT-TAGTAACTCGCACAAATGCCTTCGAG-CTTATCCCG
1 CAAATGCCTTCGGGACTTAGCCCG-ATTATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCG
* ** * *
27122208 GAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
65 GAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAGTAAC-TAGCA
27122265 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
27122288 GACATCATTC
Statistics
Matches: 126, Mismatches: 14, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
118 3 0.02
119 66 0.52
120 55 0.44
121 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGG
AATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCA
Found at i:27122866 original size:56 final size:56
Alignment explanation
Indices: 27122779--27123626 Score: 1687
Period size: 56 Copynumber: 15.1 Consensus size: 56
27122769 TATTAGTTTA
*
27122779 TTGCCCATGCTTCTTATTTTATTCTTTCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
27122835 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
27122891 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
27122947 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
27123003 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
27123059 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
27123115 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
27123171 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
27123227 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
27123283 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
27123339 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
27123395 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
27123451 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
27123507 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
27123563 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
27123619 TTGCCCAT
1 TTGCCCAT
27123627 CATCCCTTGT
Statistics
Matches: 791, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 791 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:27127858 original size:45 final size:45
Alignment explanation
Indices: 27127761--27127877 Score: 159
Period size: 45 Copynumber: 2.6 Consensus size: 45
27127751 CTGGCATTTC
* * *
27127761 GCCTGCTAGGCTCGAA-GCCCG-ATA-TCATTTCATCGGCATTATA
1 GCCTGCTAGGCTCGAAGGCCCGAATAGT-ATCTCACCGGAATTATA
*
27127804 GCCTACTAGGCTCGAAGGCCCGAATAGTATCTCACCGGAATTATA
1 GCCTGCTAGGCTCGAAGGCCCGAATAGTATCTCACCGGAATTATA
*
27127849 GCCTGCTAGGCTCAAAGGCCCGAATAGTA
1 GCCTGCTAGGCTCGAAGGCCCGAATAGTA
27127878 CTGTACGATA
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
43 15 0.23
44 5 0.08
45 44 0.68
46 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.23
Consensus pattern (45 bp):
GCCTGCTAGGCTCGAAGGCCCGAATAGTATCTCACCGGAATTATA
Found at i:27128031 original size:45 final size:45
Alignment explanation
Indices: 27127980--27128372 Score: 759
Period size: 45 Copynumber: 8.7 Consensus size: 45
27127970 CACTTTAATT
*
27127980 ACCTGCTAGGTTCAAAGGCCCGAATAGTATCTCACCTGCATTATA
1 ACCTGCTAGGTTCAAAGGCCCGAATAGTATCTCACCGGCATTATA
* *
27128025 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATTATA
1 ACCTGCTAGGTTCAAAGGCCCGAATAGTATCTCACCGGCATTATA
27128070 ACCTGCTAGGTTCAAAGGCCCGAATAGTATCTCACCGGCATTATA
1 ACCTGCTAGGTTCAAAGGCCCGAATAGTATCTCACCGGCATTATA
27128115 ACCTGCTAGGTTCAAAGGCCCGAATAGTATCTCACCGGCATTATA
1 ACCTGCTAGGTTCAAAGGCCCGAATAGTATCTCACCGGCATTATA
27128160 ACCTGCTAGGTTCAAAGGCCCGAATAGTATCTCACCGGCATTATA
1 ACCTGCTAGGTTCAAAGGCCCGAATAGTATCTCACCGGCATTATA
27128205 ACCTGCTAGGTTCAAAGGCCCGAATAGTATCTCACCGGCATTATA
1 ACCTGCTAGGTTCAAAGGCCCGAATAGTATCTCACCGGCATTATA
27128250 ACCTGCTAGGTTCAAAGGCCCGAATAGTATCTCACCGGCATTATA
1 ACCTGCTAGGTTCAAAGGCCCGAATAGTATCTCACCGGCATTATA
27128295 ACCTGCTAGGTTCAAAGGCCCGAATAGTATCTCACCGGCATTATA
1 ACCTGCTAGGTTCAAAGGCCCGAATAGTATCTCACCGGCATTATA
27128340 ACCTGCTAGGTTCAAAGGCCCGAATAGTATCTC
1 ACCTGCTAGGTTCAAAGGCCCGAATAGTATCTC
27128373 TGTACAAGCA
Statistics
Matches: 343, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
45 343 1.00
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (45 bp):
ACCTGCTAGGTTCAAAGGCCCGAATAGTATCTCACCGGCATTATA
Found at i:27129170 original size:25 final size:25
Alignment explanation
Indices: 27129155--27129335 Score: 299
Period size: 25 Copynumber: 7.2 Consensus size: 25
27129145 ATAATAAGGG
* *
27129155 CAAATTTAACCGGAAATATTAAGAG
1 CAAATTTAACCGGAATTATTAAGAA
27129180 CAAATTTAACCGGAATTATTAAGAA
1 CAAATTTAACCGGAATTATTAAGAA
* *
27129205 CAAATTTAATCGAAATTATTAAGAA
1 CAAATTTAACCGGAATTATTAAGAA
* *
27129230 CAAATTTAACCAGAATTATTAAGAG
1 CAAATTTAACCGGAATTATTAAGAA
*
27129255 CAAATTTAACCGGGATTATTAAGAA
1 CAAATTTAACCGGAATTATTAAGAA
27129280 CAAATTTAACCGGAATTATTAAGAA
1 CAAATTTAACCGGAATTATTAAGAA
27129305 CAAATTTAACCGGAATTATTAAGAA
1 CAAATTTAACCGGAATTATTAAGAA
27129330 CAAATT
1 CAAATT
27129336 AATAAGCTTA
Statistics
Matches: 144, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 144 1.00
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.28
Consensus pattern (25 bp):
CAAATTTAACCGGAATTATTAAGAA
Found at i:27135835 original size:45 final size:44
Alignment explanation
Indices: 27135714--27135851 Score: 153
Period size: 45 Copynumber: 3.2 Consensus size: 44
27135704 CGATTTTAAA
*
27135714 CCCGAAT-TCAT-TCACCGACATT-TCGCCTGCTAGGCTCGAA-G
1 CCCGAATATCATCTCA-CGACATTATAGCCTGCTAGGCTCGAAGG
* *
27135755 CCC-AATATCATTTCACCAGCATTATAGCCTGCTAGGCTCGAAGG
1 CCCGAATATCATCTCACGA-CATTATAGCCTGCTAGGCTCGAAGG
* *
27135799 CCCGAAT-TGTATCTCACTGACATTATAGCCTGCTAGGCTCAAAGG
1 CCCGAATAT-CATCTCAC-GACATTATAGCCTGCTAGGCTCGAAGG
27135844 CCCGAATA
1 CCCGAATA
27135852 GTACTGTACG
Statistics
Matches: 82, Mismatches: 6, Indels: 13
0.81 0.06 0.13
Matches are distributed among these distances:
40 3 0.04
41 9 0.11
42 7 0.09
43 17 0.21
44 5 0.06
45 40 0.49
46 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (44 bp):
CCCGAATATCATCTCACGACATTATAGCCTGCTAGGCTCGAAGG
Found at i:27136704 original size:25 final size:25
Alignment explanation
Indices: 27136674--27136819 Score: 193
Period size: 25 Copynumber: 5.8 Consensus size: 25
27136664 GTAACTTATT
* * *
27136674 CGGAAATAATAAGGGCAAATTTAAC
1 CGGAATTATTAAGAGCAAATTTAAC
* * *
27136699 CAGAAATGTTAAGAGCAAATTTAAC
1 CGGAATTATTAAGAGCAAATTTAAC
* *
27136724 CGGAATTATTAAGAACAAATTTAAT
1 CGGAATTATTAAGAGCAAATTTAAC
*
27136749 CGGAATTATTAAGAGCAATTTTAAC
1 CGGAATTATTAAGAGCAAATTTAAC
*
27136774 CGGAATTTTTAAGAGCAAATTTAAC
1 CGGAATTATTAAGAGCAAATTTAAC
*
27136799 CGGAATTATTAAGAACAAATT
1 CGGAATTATTAAGAGCAAATT
27136820 AACAAGCTTA
Statistics
Matches: 105, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 105 1.00
ACGTcount: A:0.45, C:0.11, G:0.16, T:0.28
Consensus pattern (25 bp):
CGGAATTATTAAGAGCAAATTTAAC
Found at i:27136772 original size:75 final size:75
Alignment explanation
Indices: 27136673--27136819 Score: 231
Period size: 75 Copynumber: 2.0 Consensus size: 75
27136663 AGTAACTTAT
*
27136673 TCGGAAATAATAAGGGCAAATTTAACCAGAAATGTTAAGAGCAAATTTAACCGGAATTATTAAGA
1 TCGGAAATAATAAGAGCAAATTTAACCAGAAATGTTAAGAGCAAATTTAACCGGAATTATTAAGA
27136738 ACAAATTTAA
66 ACAAATTTAA
* * * * * *
27136748 TCGGAATTATTAAGAGCAATTTTAACCGGAATTTTTAAGAGCAAATTTAACCGGAATTATTAAGA
1 TCGGAAATAATAAGAGCAAATTTAACCAGAAATGTTAAGAGCAAATTTAACCGGAATTATTAAGA
27136813 ACAAATT
66 ACAAATT
27136820 AACAAGCTTA
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
75 65 1.00
ACGTcount: A:0.45, C:0.11, G:0.16, T:0.29
Consensus pattern (75 bp):
TCGGAAATAATAAGAGCAAATTTAACCAGAAATGTTAAGAGCAAATTTAACCGGAATTATTAAGA
ACAAATTTAA
Found at i:27140132 original size:28 final size:28
Alignment explanation
Indices: 27140039--27140139 Score: 87
Period size: 28 Copynumber: 3.6 Consensus size: 28
27140029 TCGATGTCTC
* * * * *
27140039 GCACACTATGTACCATACTCGATACCTC
1 GCACACTAAGTGCCATTCTCGATACTTT
* * *
27140067 GCACACTAAGTGCTATTCTGGAT-GTTT
1 GCACACTAAGTGCCATTCTCGATACTTT
* *
27140094 CGTACATTAAGTGCCATTCTCGATACTTT
1 -GCACACTAAGTGCCATTCTCGATACTTT
*
27140123 GCACACTAAGTTCCATT
1 GCACACTAAGTGCCATT
27140140 TATATAAATA
Statistics
Matches: 55, Mismatches: 16, Indels: 4
0.73 0.21 0.05
Matches are distributed among these distances:
27 1 0.02
28 51 0.93
29 3 0.05
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.33
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCGATACTTT
Found at i:27145067 original size:43 final size:43
Alignment explanation
Indices: 27145018--27145128 Score: 118
Period size: 43 Copynumber: 2.6 Consensus size: 43
27145008 TCCTAGATAT
* * *
27145018 GGTCTTACATGTTATCACATATCGATG-TCACTATCCCACACAG
1 GGTCTTACATGTAATCACATATCGATGCT-AATATCCCAAACAG
* * * * *
27145061 GGTCTTACACGAAATCACA-ATACAATGCTAATGTCCCAAACAT
1 GGTCTTACATGTAATCACATAT-CGATGCTAATATCCCAAACAG
27145104 GGTCTTACATGTAATCACATATCGA
1 GGTCTTACATGTAATCACATATCGA
27145129 GTCGATGCCA
Statistics
Matches: 54, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
42 2 0.04
43 49 0.91
44 3 0.06
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (43 bp):
GGTCTTACATGTAATCACATATCGATGCTAATATCCCAAACAG
Found at i:27149023 original size:48 final size:48
Alignment explanation
Indices: 27148951--27149226 Score: 238
Period size: 48 Copynumber: 5.8 Consensus size: 48
27148941 TATGTGTGCT
* * * * *
27148951 AGTGTAAGACCATGCCTGGAACATGGCGTCGACAATGGTATGAGATCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACAATGATATGAGAGCC
* * * ** * *
27148999 AGTGTAAGACCATGCCTGGGACATGGCTTTGACGTTGATATGTGCA-CT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACAATGATATGAG-AGCC
* * * * *
27149047 AGTGTAAGACCATGTCTGGGCCATGGCATTGGCCACGATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACAATGATATGAGAGCC
* * *
27149095 AGTGTAAGACCATGTCTGGGACATGGCATC-AGCATTGAAATGCA-AGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGA-CAATGATATG-AGAGCC
* * *
27149143 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGACATGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACAAT-GATATG-AGAGCC
* * *
27149191 AATGTAAGACCATGTCTGGGACATAGCATCGGCAAT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACAAT
27149227 TTACCATCTT
Statistics
Matches: 188, Mismatches: 33, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
47 2 0.01
48 183 0.97
49 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACAATGATATGAGAGCC
Found at i:27149102 original size:96 final size:96
Alignment explanation
Indices: 27148938--27149220 Score: 313
Period size: 96 Copynumber: 2.9 Consensus size: 96
27148928 GACATTTGAG
** * * * * * * * *
27148938 TGATATGTGTGCTAGTGTAAGACCATGCCTGGAACATGGCGTCGACAATGGTATGAGATCCAGTG
1 TGATATGTGCACTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTG
* ** *
27149003 TAAGACCATGCCTGGGACATGGC-TTTGACGT
66 TAAGACCATGTCTGGGACATGGCATCAG-CAT
* *
27149034 TGATATGTGCACTAGTGTAAGACCATGTCTGGGCCATGGCATTGGCCACGATATGAGAGCCAGTG
1 TGATATGTGCACTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTG
27149099 TAAGACCATGTCTGGGACATGGCATCAGCAT
66 TAAGACCATGTCTGGGACATGGCATCAGCAT
* * *
27149130 TGA-A-ATGCAAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTA-AGCCA
1 TGATATGTGC-A-CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATG-AGAGCCA
* *
27149192 ATGTAAGACCATGTCTGGGACATAGCATC
63 GTGTAAGACCATGTCTGGGACATGGCATC
27149221 GGCAATTTAC
Statistics
Matches: 160, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
94 3 0.02
95 2 0.01
96 152 0.95
97 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (96 bp):
TGATATGTGCACTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTG
TAAGACCATGTCTGGGACATGGCATCAGCAT
Found at i:27182987 original size:39 final size:39
Alignment explanation
Indices: 27182939--27183028 Score: 126
Period size: 39 Copynumber: 2.3 Consensus size: 39
27182929 TTTAACCTGG
* * *
27182939 ATATTTTTCTAGCACGTAGCCTGCGGACCTCAAGTCCGA
1 ATATATTTCTAGCACATAGCCTGCAGACCTCAAGTCCGA
* * *
27182978 ATATATTTCTAGCATATAGCCTGCAGACCTCATGTCCGG
1 ATATATTTCTAGCACATAGCCTGCAGACCTCAAGTCCGA
27183017 ATATATTTCTAG
1 ATATATTTCTAG
27183029 TCTCATACAT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (39 bp):
ATATATTTCTAGCACATAGCCTGCAGACCTCAAGTCCGA
Found at i:27186857 original size:21 final size:21
Alignment explanation
Indices: 27186833--27186874 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
27186823 AAGTATGGCT
27186833 TATTGGTATGTTAGAAAAATC
1 TATTGGTATGTTAGAAAAATC
27186854 TATTGGTATGTTAGAAAAATC
1 TATTGGTATGTTAGAAAAATC
27186875 AAAGTAGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.38
Consensus pattern (21 bp):
TATTGGTATGTTAGAAAAATC
Found at i:27207301 original size:46 final size:46
Alignment explanation
Indices: 27207251--27207426 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
27207241 TGGTTGAGCA
*
27207251 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
27207297 TCCGAACTCGTTGAGTTGAGTCCGAGTT---TGA-GAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
* * *
27207342 CATCCGATCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
27207390 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27207427 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 11, Indels: 22
0.77 0.08 0.16
Matches are distributed among these distances:
42 3 0.03
43 7 0.06
45 1 0.01
46 61 0.56
47 26 0.24
48 1 0.01
50 6 0.06
51 3 0.03
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:27207407 original size:93 final size:93
Alignment explanation
Indices: 27207248--27207417 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 93
27207238 GGATGGTTGA
* * * *
27207248 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
27207313 TGAGTCCGAGTTTGAGAGATGTAACTAG
66 TGAGTCCGAGTTTGAGAGATGTAACTAG
* *
27207341 GCATCCGATCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
27207406 TGAGTCCGAGTT
66 TGAGTCCGAGTT
27207418 CACTTATGGG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTTGAGAGATGTAACTAG
Found at i:27210401 original size:15 final size:15
Alignment explanation
Indices: 27210353--27210432 Score: 74
Period size: 15 Copynumber: 5.4 Consensus size: 15
27210343 ATATCTTGGG
*
27210353 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
* *
27210368 TCTCTTTATTCTAGA
1 TTTCTTTATTCTGGA
*
27210383 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
27210398 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
* *
27210413 TTACTTTATTC-GGT
1 TTTCTTTATTCTGGA
27210427 TTTCTT
1 TTTCTT
27210433 GTTATCTTTG
Statistics
Matches: 51, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
14 9 0.18
15 40 0.78
16 2 0.04
ACGTcount: A:0.12, C:0.17, G:0.12, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:27212872 original size:46 final size:46
Alignment explanation
Indices: 27212822--27213731 Score: 1646
Period size: 46 Copynumber: 19.8 Consensus size: 46
27212812 GTTGAGCATC
27212822 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
27212868 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
27212914 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
27212960 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
27213006 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
27213052 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
27213098 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
27213144 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
27213190 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
27213236 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
27213282 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
27213328 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
27213374 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
27213420 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
27213466 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
27213512 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
*
27213558 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
*** * * *
27213604 CGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--TC
1 CGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATGTT
* * **
27213651 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
* *
27213697 CGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27213732 GCGGGTTACA
Statistics
Matches: 843, Mismatches: 14, Indels: 14
0.97 0.02 0.02
Matches are distributed among these distances:
43 1 0.00
44 3 0.00
45 1 0.00
46 801 0.95
47 32 0.04
48 1 0.00
49 3 0.00
50 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.32
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
Found at i:27215655 original size:14 final size:15
Alignment explanation
Indices: 27215633--27215662 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
27215623 GAATATTAAA
27215633 ACAAGAATTAAGAAC
1 ACAAGAATTAAGAAC
27215648 ACAA-AATTAAGAAC
1 ACAAGAATTAAGAAC
27215662 A
1 A
27215663 AGTCAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.13, G:0.10, T:0.13
Consensus pattern (15 bp):
ACAAGAATTAAGAAC
Found at i:27217018 original size:43 final size:43
Alignment explanation
Indices: 27216949--27217164 Score: 208
Period size: 43 Copynumber: 5.0 Consensus size: 43
27216939 ATCTCGTACA
*
27216949 ATGCC-ATGTCCCAGAT-ATGGTCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAG-TCATGGTCTTACATGTAATCACATATCG
* * * * ** *
27216991 ATGCCACTGTCCCAGTCAGGGTTTTACACGTAATCGTATAACG
1 ATGCCAATGTCCCAGTCATGGTCTTACATGTAATCACATATCG
* *
27217034 ATGCCAATGTCCCAGAT-ATGGTCTTACACGTAATCACA-ATACA
1 ATGCCAATGTCCCAG-TCATGGTCTTACATGTAATCACATAT-CG
* * * * *
27217077 ATTCCAATGTCCTAGACATGATCTTACATGTAATCACA-ATACA
1 ATGCCAATGTCCCAGTCATGGTCTTACATGTAATCACATAT-CG
* *
27217120 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATCTCG
1 ATGCCAATGTCCCAGTCATGGTCTTACATGTAATCACATATCG
27217163 AT
1 AT
27217165 AATCCTAATG
Statistics
Matches: 143, Mismatches: 25, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
42 7 0.05
43 134 0.94
44 2 0.01
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (43 bp):
ATGCCAATGTCCCAGTCATGGTCTTACATGTAATCACATATCG
Found at i:27217104 original size:86 final size:87
Alignment explanation
Indices: 27216945--27217157 Score: 254
Period size: 86 Copynumber: 2.5 Consensus size: 87
27216935 ATAAATCTCG
* * * *
27216945 TACAATGCC-ATGTCCCAGATATGGTCTTACATGTTATCAC-ATATCGATGCCACTGTCCCAGTC
1 TACAATGCCAATGTCCCAGATATGGTCTTACATGTAATCACAATATCAATGCCAATGTCCCAGAC
* * **
27217008 AGGGTTTTACACGTAATC-GTA
66 AGGATCTTACACGTAATCACAA
* * * *
27217029 TAACGATGCCAATGTCCCAGATATGGTCTTACACGTAATCACAATA-CAATTCCAATGTCCTAGA
1 T-ACAATGCCAATGTCCCAGATATGGTCTTACATGTAATCACAATATCAATGCCAATGTCCCAGA
* *
27217093 CATGATCTTACATGTAATCACAA
65 CAGGATCTTACACGTAATCACAA
*
27217116 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
1 TACAATGCCAATGTCCCAGATATGGTCTTACATGTAATCACA
27217158 TCTCGATAAT
Statistics
Matches: 108, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
84 1 0.01
85 7 0.06
86 95 0.88
87 5 0.05
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (87 bp):
TACAATGCCAATGTCCCAGATATGGTCTTACATGTAATCACAATATCAATGCCAATGTCCCAGAC
AGGATCTTACACGTAATCACAA
Done.