Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 125 of 356
Found at i:39732959 original size:28 final size:28
Alignment explanation
Indices: 39732923--39732983 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
39732913 CTGATCATGT
*
39732923 AGATAGGACCTTAACTTGCTATCTAAGA
1 AGATAGGACCTTAACCTGCTATCTAAGA
* * *
39732951 AGATCGGACCTTGACCTGCTATCTAGGA
1 AGATAGGACCTTAACCTGCTATCTAAGA
39732979 AGATA
1 AGATA
39732984 CGAACCAAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (28 bp):
AGATAGGACCTTAACCTGCTATCTAAGA
Found at i:39735870 original size:20 final size:20
Alignment explanation
Indices: 39735847--39735889 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
39735837 GCTCACATGC
39735847 TTTTTCTATCTCAATCTCTT
1 TTTTTCTATCTCAATCTCTT
* * *
39735867 TTTTTCTCTTTCATTCTCTT
1 TTTTTCTATCTCAATCTCTT
39735887 TTT
1 TTT
39735890 CTTTTTCGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.09, C:0.23, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTTCTATCTCAATCTCTT
Found at i:39739803 original size:43 final size:43
Alignment explanation
Indices: 39739756--39739858 Score: 138
Period size: 43 Copynumber: 2.4 Consensus size: 43
39739746 TATCGAGATG
*
39739756 TGATTACAGGTAAGACCATGTCTAGGACATTGGCATTG-TATT
1 TGATTACAGGTAAGACCATGTCTAGGACATTGGCATCGTTATT
*
39739798 ATGATTAC-GTGTAAGACCATGTCTAGGACGTTGGCATCGTTATT
1 -TGATTACAG-GTAAGACCATGTCTAGGACATTGGCATCGTTATT
* *
39739842 TGATTTCATGTAAGACC
1 TGATTACAGGTAAGACC
39739859 TTGCTTGGGA
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
42 1 0.02
43 48 0.91
44 4 0.08
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (43 bp):
TGATTACAGGTAAGACCATGTCTAGGACATTGGCATCGTTATT
Found at i:39751970 original size:40 final size:38
Alignment explanation
Indices: 39751906--39752185 Score: 321
Period size: 40 Copynumber: 7.0 Consensus size: 38
39751896 CCGGAATTTA
*
39751906 ACCGGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAG
1 ACCGGA-ATAG-TACTCGCACAAATGCCTTCGGGACTTAG
* *
39751946 ACCGGATATAGTAGTTCGCACAAATGCCTTCGAGACTTAG
1 ACCGGA-ATAGTA-CTCGCACAAATGCCTTCGGGACTTAG
*
39751986 CCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTA-
1 ACCGGA-ATAGT-ACTCGCACAAATGCCTTCGGGACTTAG
39752025 ACCCGGAAATAGTAACTCGCACAAATGCCTTCGGGACTTAG
1 A-CCGG-AATAGT-ACTCGCACAAATGCCTTCGGGACTTAG
* *
39752066 CCCGGAATTAGTCACTAGCACAAATGCCTTCGGGACTTAG
1 ACCGGAA-TAGT-ACTCGCACAAATGCCTTCGGGACTTAG
*
39752106 -CCTGGAATTAGTCACTAGCACAAATGCCTTCGGGACTTAG
1 ACC-GGAA-TAGT-ACTCGCACAAATGCCTTCGGGACTTAG
* *
39752146 TCCGGAATTAGTCACTAGCACAAATGCCTTCGGGACTTAG
1 ACCGGAA-TAGT-ACTCGCACAAATGCCTTCGGGACTTAG
39752186 CCCCGTTATC
Statistics
Matches: 222, Mismatches: 10, Indels: 16
0.90 0.04 0.06
Matches are distributed among these distances:
39 6 0.03
40 212 0.95
41 4 0.02
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (38 bp):
ACCGGAATAGTACTCGCACAAATGCCTTCGGGACTTAG
Found at i:39752045 original size:80 final size:80
Alignment explanation
Indices: 39751926--39752184 Score: 378
Period size: 80 Copynumber: 3.2 Consensus size: 80
39751916 GCTACTCGCT
* ** *
39751926 CAAATGCCTTCGGGACTTAGA-CCGGATATAGTAGTTCGCACAAATGCCTTCGAGACTTAGCCCG
1 CAAATGCCTTCGGGACTTA-ACCCGGAAATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
* *
39751990 G-ATATAGTAACTCGCA
65 GAAT-TAGTCACTAGCA
39752006 CAAATGCCTTCGGGACTTAACCCGGAAATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAACCCGGAAATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
39752071 AATTAGTCACTAGCA
66 AATTAGTCACTAGCA
* * * * * *
39752086 CAAATGCCTTCGGGACTTAGCCTGGAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGTCCGG
1 CAAATGCCTTCGGGACTTAACCCGGAAATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
39752151 AATTAGTCACTAGCA
66 AATTAGTCACTAGCA
39752166 CAAATGCCTTCGGGACTTA
1 CAAATGCCTTCGGGACTTA
39752185 GCCCCGTTAT
Statistics
Matches: 165, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
79 1 0.01
80 162 0.98
81 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAACCCGGAAATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTCACTAGCA
Found at i:39752127 original size:120 final size:118
Alignment explanation
Indices: 39751903--39752188 Score: 371
Period size: 120 Copynumber: 2.4 Consensus size: 118
39751893 CCTCCGGAAT
* * * * *
39751903 TTAACCGGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAGACCGGATATAGTAGTTCGCACA
1 TTAACCGGAAATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTAGCACA
*
39751968 AATGCCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
65 AATGCCTTCGAGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGAC
39752022 TTAACCCGGAAATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTCA-CTAGC
1 TTAA-CCGGAAATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-TAGT-AGCTAGC
* * *
39752085 ACAAATGCCTTCGGGACTTAGCCTGGA-ATTAGTCACTAGCACAAATGCCTTCGGGAC
62 ACAAATGCCTTCGAGACTTAGCCCGGATA-TAGTAACTAGCACAAATGCCTTCGGGAC
* * *
39752142 TTAGTCCGGAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCC
1 TTA-ACCGGAAATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCC
39752189 CGTTATCATC
Statistics
Matches: 148, Mismatches: 13, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
119 7 0.05
120 140 0.95
121 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.24
Consensus pattern (118 bp):
TTAACCGGAAATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTAGCACAA
ATGCCTTCGAGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGAC
Found at i:39759119 original size:21 final size:21
Alignment explanation
Indices: 39759093--39759143 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
39759083 ATTGTTGAGA
*
39759093 AGGAAGTTGTTGCT-ACAAAAG
1 AGGAAGTTGTTGATGA-AAAAG
39759114 AGGAAGTTGTTGATGAAAAAG
1 AGGAAGTTGTTGATGAAAAAG
*
39759135 AAGAAGTTG
1 AGGAAGTTG
39759144 CTGAAAAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 26 0.96
22 1 0.04
ACGTcount: A:0.41, C:0.04, G:0.31, T:0.24
Consensus pattern (21 bp):
AGGAAGTTGTTGATGAAAAAG
Found at i:39761450 original size:40 final size:41
Alignment explanation
Indices: 39761308--39761493 Score: 252
Period size: 41 Copynumber: 4.6 Consensus size: 41
39761298 TACTCGAATG
*
39761308 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
*
39761349 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
* * *
39761390 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCT-AGCAACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGCGACT
* * *
39761430 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCT-AGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
* *
39761470 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
39761494 CTTGTGCGAG
Statistics
Matches: 131, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 1 0.01
40 60 0.46
41 69 0.53
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.24
Consensus pattern (41 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
Found at i:39761463 original size:81 final size:82
Alignment explanation
Indices: 39761310--39761463 Score: 240
Period size: 81 Copynumber: 1.9 Consensus size: 82
39761300 CTCGAATGAT
* * * *
39761310 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCTT
1 ATCCGGACTAAGTCCCGAAGGCATTTGTGCTAAGCAACTATATCCGGGCTAAGTCCCGAAGGCAT
*
39761375 TTGTGCTAAGCGACTAC
66 TTATGCTAAGCGACTAC
39761392 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCT-AGCAACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATCCGGACTAAG-TCCCGAAGGCATTTGTGCTAAGCAACTATATCCGGGCTAAGTCCCGAAGGCA
39761455 TTTATGCTA
65 TTTATGCTA
39761464 GTGACCATAT
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 38 0.58
82 27 0.41
83 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (82 bp):
ATCCGGACTAAGTCCCGAAGGCATTTGTGCTAAGCAACTATATCCGGGCTAAGTCCCGAAGGCAT
TTATGCTAAGCGACTAC
Found at i:39765464 original size:41 final size:39
Alignment explanation
Indices: 39765350--39765466 Score: 103
Period size: 41 Copynumber: 2.9 Consensus size: 39
39765340 TATAATAGTT
* *
39765350 CACCGGCATAAAGCCTGCTAGGCCT-AAGCTTG-TATCACA
1 CACCGGCAT-AAGCCTGCTAGG-CTAAAGCCTGATTTCACA
* * * * *
39765389 CACCGGCTTAAGGCCTGCTAGACTCAAAGTCTGATTTTATA
1 CACCGGCATAA-GCCTGCTAGGCT-AAAGCCTGATTTCACA
39765430 CACCGGCAATAAGCCTGCTAGGCATAAAGCCTGATTT
1 CACCGGC-ATAAGCCTGCTAGGC-TAAAGCCTGATTT
39765467 AATTCACCAG
Statistics
Matches: 62, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
38 4 0.06
39 17 0.27
40 5 0.08
41 32 0.52
42 4 0.06
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
CACCGGCATAAGCCTGCTAGGCTAAAGCCTGATTTCACA
Found at i:39773780 original size:49 final size:46
Alignment explanation
Indices: 39773660--39773836 Score: 151
Period size: 47 Copynumber: 3.7 Consensus size: 46
39773650 GGTATAATGC
** ** *
39773660 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGT
1 CGATGCCATGT-CCAGACATGGTCTTACACTAACTCATAAATCAAGG
39773707 CGATGCCATGTTCCAGACATGGTCTTACACTAACT-ATAGAAATCAAGG
1 CGATGCCATG-TCCAGACATGGTCTTACACTAACTCAT--AAATCAAGG
* * ** *
39773755 CTGATGCCATGTCCAACACATGGTCTTACACTAGCTC-TCACATATTCGTGC
1 C-GATGCCATGTCC-AGACATGGTCTTACACTAACTCAT-A-A-A-TCAAGG
39773806 CGATGCCATGTCCCAGACATGGTCTTACACT
1 CGATGCCATGT-CCAGACATGGTCTTACACT
39773837 GACACATCTC
Statistics
Matches: 108, Mismatches: 12, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
46 2 0.02
47 31 0.29
48 12 0.11
49 30 0.28
50 27 0.25
51 6 0.06
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (46 bp):
CGATGCCATGTCCAGACATGGTCTTACACTAACTCATAAATCAAGG
Found at i:39773890 original size:46 final size:44
Alignment explanation
Indices: 39773804--39774018 Score: 182
Period size: 46 Copynumber: 4.7 Consensus size: 44
39773794 ACATATTCGT
39773804 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGCA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACACATCTCG-AG
* *
39773850 GCCGATGCATGTCCCAGACATATCTTACACTGGCTTACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGAC--ACATCTCGAG
* * * * *
39773896 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACT-G-ACACATCTCGAG
** * * * * *
39773942 GTTGATGCCATGTCCCATACATGGTCTTACACTAGCTCTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACT-G-ACACAT-CTCGAG
39773990 GCCGATGCATGTCCCAGACATGTCTTACA
1 GCCGATGCATGTCCCAGACATGTCTTACA
39774019 ATAGCACACA
Statistics
Matches: 142, Mismatches: 19, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
44 11 0.08
45 15 0.11
46 64 0.45
47 27 0.19
48 24 0.17
49 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGACACATCTCGAG
Found at i:39773971 original size:94 final size:96
Alignment explanation
Indices: 39773661--39774023 Score: 317
Period size: 94 Copynumber: 3.9 Consensus size: 96
39773651 GTATAATGCC
* * * * *
39773661 GATGCCATGTCCCAGACATGGTCTTACACT-G-GCTCATCCATC-AAGTCGATGCCATGTTCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAC-TCGAGGCCGATGCCATGTCCCAG
* * * **
39773723 ACATGGTCTTACACTAACTATAGAAATCAAGGCT
65 ACATGGTCTTACACTAGCTCTCG-TCTCAA-GCT
* * * *
39773757 GATGCCATGTCCAACACATGGTCTTACACTAGCTCTCACATATTCG-TGCCGATGCCATGTCCCA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCT--CATACTCGAGGCCGATGCCATGTCCCA
* * *
39773821 GACATGGTCTTACACT-GACACATC-TCGC-AGCC
64 GACATGGTCTTACACTAG-CTC-TCGTCTCAAGCT
* *
39773853 GATG-CATGTCCCAGACAT-ATCTTACACTGGCT-TACAT-CTCGAGGCCGATG-CATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CATACTCGAGGCCGATGCCATGTCCCAG
*
39773913 ACAT-GTCTTACACTAGCTCTCGTCTCAATGTT
65 ACATGGTCTTACACTAGCTCTCGTCTCAA-GCT
* * *
39773945 GATGCCATGTCCCATACATGGTCTTACACTAGCTCTCATAAT-GTGGCCGATG-CATGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATACTCGAGGCCGATGCCATGTCCCAGA
*
39774008 CAT-GTCTTACAATAGC
66 CATGGTCTTACACTAGC
39774024 ACACAAATAA
Statistics
Matches: 219, Mismatches: 32, Indels: 34
0.77 0.11 0.12
Matches are distributed among these distances:
89 2 0.01
90 15 0.07
91 19 0.09
92 16 0.07
93 14 0.06
94 62 0.28
95 14 0.06
96 34 0.16
97 2 0.01
98 3 0.01
99 34 0.16
100 4 0.02
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (96 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATACTCGAGGCCGATGCCATGTCCCAGA
CATGGTCTTACACTAGCTCTCGTCTCAAGCT
Found at i:39779144 original size:46 final size:44
Alignment explanation
Indices: 39779094--39779266 Score: 172
Period size: 46 Copynumber: 3.8 Consensus size: 44
39779084 TGGTTGAGCA
39779094 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATG-GAATG
* * * *
39779140 TCCGAACTTGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGGAA-T--G
*
39779185 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATTGATGGAAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-TGATGG-AATG
* *
39779233 -CCTGAGCTCGTTGAATTGAGTCCGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
39779267 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 57 0.54
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (44 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGGAATG
Found at i:39779252 original size:93 final size:93
Alignment explanation
Indices: 39779091--39779261 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
39779081 GGATGGTTGA
* * *
39779091 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAAT
39779156 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
39779184 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATTGATG-GAAACG-CCTGAGCTCGTTGA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-AACGTCC-GAACTCGTTGA
39779247 ATTGAGTCCGAGTTC
64 ATTGAGTCCGAGTTC
39779262 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
92 3 0.04
93 68 0.96
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAAT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:39786249 original size:46 final size:45
Alignment explanation
Indices: 39786199--39786370 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 45
39786189 GGTTGAGCAT
39786199 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATGA
* * *
39786245 CCGAACTCGTTGAGTTGAGTCTGAGTTCA-TGA--GATGTAACTAGGCA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G-A
* * * * *
39786291 TTCGAACTCGTTGACTTGAGTCTGAGTTCACTTATGGATGTGAAAGC
1 -CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATGA
*
39786338 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
39786371 GAGGCGGGTT
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 58 0.56
47 27 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.30
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATGA
Found at i:39786364 original size:93 final size:93
Alignment explanation
Indices: 39786195--39786366 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
39786185 GGATGGTTGA
* *
39786195 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGACCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGACTTGAGTCCGAGTTCACTTATGGATGCGAAAGACCGAACTCGTTGAGT
*
39786260 TGAGTCTGAGTTCATGAGATGTAACTAG
66 TGAGTCCGAGTTCATGAGATGTAACTAG
* * * * *
39786288 GCATTCGAACTCGTTGACTTGAGTCTGAGTTCACTTATGGATGTGAAAGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGACTTGAGTCCGAGTTCACTTATGGATGCGAAAGACCGAACTCGTTGAGT
39786353 TGAGTCCGAGTTCA
66 TGAGTCCGAGTTCA
39786367 CTTAGAGGCG
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGACTTGAGTCCGAGTTCACTTATGGATGCGAAAGACCGAACTCGTTGAGT
TGAGTCCGAGTTCATGAGATGTAACTAG
Found at i:39788114 original size:234 final size:234
Alignment explanation
Indices: 39787705--39788171 Score: 871
Period size: 234 Copynumber: 2.0 Consensus size: 234
39787695 TTTAATAATT
*
39787705 CAAAACTTCTCCTTGATCCATTCTGAATTTGCTTAGCTTCCATCAATTCACCAAGCTCTTCAATC
1 CAAAACTTCTCCTTGATCCATTCTCAATTTGCTTAGCTTCCATCAATTCACCAAGCTCTTCAATC
* *
39787770 ATTTCTGCTTCAATTAACTCAAATGAGTCTACATCATCATTAGAATTATTATGATAAAATTCTGC
66 ATTTCTGCTTCAATTAACTCAAATGAGTCTACATCATCATAAGAATTATTATGATAAAATTCTAC
39787835 AAATTCTTCTTGAACTATTGTGTTAACAATCTAAACAACGTGACATTCTTCATTTGTATCAGTAC
131 AAATTCTTCTTGAACTATTGTGTTAACAATCTAAACAACGTGACATTCTTCATTTGTATCAGTAC
*
39787900 ACTTCATAGCATCGAAAACATTAAAGGTTATCTGCTTAC
196 ACTTCATAGCATCGAAAACATTAAAGGTTATCTACTTAC
*
39787939 CAAAACTTCTCCTTGATCCATTCTCAATTTGCTTAGCTTCCATCAATTCACCATGCTCTTCAATC
1 CAAAACTTCTCCTTGATCCATTCTCAATTTGCTTAGCTTCCATCAATTCACCAAGCTCTTCAATC
*
39788004 ATTTCTGCTTCAATTAACTCAAATGAGTCTACATCATCATAAGAATTATTGTGATAAAATTCTAC
66 ATTTCTGCTTCAATTAACTCAAATGAGTCTACATCATCATAAGAATTATTATGATAAAATTCTAC
*
39788069 AAATTCTTCTTGAACTATTGTGTTAACAATCTCAACAACGTGACATTCTTCATTTGTATCAGTAC
131 AAATTCTTCTTGAACTATTGTGTTAACAATCTAAACAACGTGACATTCTTCATTTGTATCAGTAC
39788134 ACTTCATAGCATCGAAAACATTAAAGGTTATCTACTTA
196 ACTTCATAGCATCGAAAACATTAAAGGTTATCTACTTA
39788172 TCATTAACTC
Statistics
Matches: 226, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
234 226 1.00
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.36
Consensus pattern (234 bp):
CAAAACTTCTCCTTGATCCATTCTCAATTTGCTTAGCTTCCATCAATTCACCAAGCTCTTCAATC
ATTTCTGCTTCAATTAACTCAAATGAGTCTACATCATCATAAGAATTATTATGATAAAATTCTAC
AAATTCTTCTTGAACTATTGTGTTAACAATCTAAACAACGTGACATTCTTCATTTGTATCAGTAC
ACTTCATAGCATCGAAAACATTAAAGGTTATCTACTTAC
Found at i:39789997 original size:22 final size:22
Alignment explanation
Indices: 39789950--39790005 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
39789940 TTAATATTAC
**
39789950 ATATATATTTTATAGTTGTTAT
1 ATATATATTTTATAGTTCCTAT
*
39789972 ATATATATTATTATTGTTCCTA-
1 ATATATATT-TTATAGTTCCTAT
*
39789994 ATATATCTTTTA
1 ATATATATTTTA
39790006 GGTATACATA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 17 0.59
23 9 0.31
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.57
Consensus pattern (22 bp):
ATATATATTTTATAGTTCCTAT
Found at i:39790093 original size:24 final size:24
Alignment explanation
Indices: 39790066--39790111 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
39790056 TACCTCTATA
39790066 TTTATTATTAATATTAATATATGT
1 TTTATTATTAATATTAATATATGT
39790090 TTTATTATTAATATTAATATAT
1 TTTATTATTAATATTAATATAT
39790112 ATACGTATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (24 bp):
TTTATTATTAATATTAATATATGT
Found at i:39793386 original size:34 final size:34
Alignment explanation
Indices: 39793334--39793416 Score: 136
Period size: 34 Copynumber: 2.5 Consensus size: 34
39793324 TGACCAAATT
39793334 TCACTTG-C-AACA-TAACCAATTCATACATTGC
1 TCACTTGACTAACATTAACCAATTCATACATTGC
39793365 TCACTTGACTAACATTAACCAATTCATACATTGC
1 TCACTTGACTAACATTAACCAATTCATACATTGC
*
39793399 TCACCTGACTAACATTAA
1 TCACTTGACTAACATTAA
39793417 TCATTTTTCA
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
31 7 0.15
32 1 0.02
33 4 0.08
34 36 0.75
ACGTcount: A:0.36, C:0.28, G:0.06, T:0.30
Consensus pattern (34 bp):
TCACTTGACTAACATTAACCAATTCATACATTGC
Found at i:39795223 original size:48 final size:50
Alignment explanation
Indices: 39795045--39795227 Score: 156
Period size: 51 Copynumber: 3.7 Consensus size: 50
39795035 ATCTATTGTG
* * * **
39795045 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACCT-GATAACTT
1 AGGTCACATGCGTAGTACTAAGTGCAGGCTACTACGTGTA-CTAGATAA-TT
* * * * * **
39795096 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGTTT
1 AGGTCACATGCGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATT
* * * *
39795146 AGGTCACGTGCGTATTACTAAGTGTAGGCTACTACGTGT-CTGGATAATT
1 AGGTCACATGCGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATT
* **
39795195 -GGTCGCATGTTTAGTACTAAGTGCAGGCTACTA
1 AGGTCACATGCGTAGTACTAAGTGCAGGCTACTA
39795228 TACGTACTAG
Statistics
Matches: 108, Mismatches: 23, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
48 27 0.25
49 6 0.06
50 37 0.34
51 38 0.35
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (50 bp):
AGGTCACATGCGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATT
Found at i:39814175 original size:24 final size:24
Alignment explanation
Indices: 39814124--39814266 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
39814114 GCTTTATCAT
*
39814124 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
39814149 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
39814173 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
39814197 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
39814221 GTAACT-GGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
39814244 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
39814267 GCACTTCCTC
Statistics
Matches: 108, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
23 21 0.19
24 75 0.69
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:39814249 original size:47 final size:48
Alignment explanation
Indices: 39814124--39814266 Score: 218
Period size: 47 Copynumber: 3.0 Consensus size: 48
39814114 GCTTTATCAT
* * *
39814124 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTA
39814173 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTA
*
39814221 GTAACT-GGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTT
39814267 GCACTTCCTC
Statistics
Matches: 89, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
47 40 0.45
48 37 0.42
49 12 0.13
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTA
Found at i:39814343 original size:20 final size:20
Alignment explanation
Indices: 39814318--39814382 Score: 112
Period size: 20 Copynumber: 3.2 Consensus size: 20
39814308 ATGAATACAC
39814318 CATGTGCATATCATACATAT
1 CATGTGCATATCATACATAT
*
39814338 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATAT
*
39814358 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAT
39814378 CATGT
1 CATGT
39814383 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (20 bp):
CATGTGCATATCATACATAT
Found at i:39814349 original size:11 final size:11
Alignment explanation
Indices: 39814318--39814371 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
39814308 ATGAATACAC
39814318 CATGTGCATAT
1 CATGTGCATAT
*
39814329 CA--TACATAT
1 CATGTGCATAT
39814338 CATGTGCATAT
1 CATGTGCATAT
* *
39814349 CA--TACATGT
1 CATGTGCATAT
39814358 CATGTGCATAT
1 CATGTGCATAT
39814369 CAT
1 CAT
39814372 ACATACCATG
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.45
11 18 0.55
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.35
Consensus pattern (11 bp):
CATGTGCATAT
Found at i:39816768 original size:19 final size:18
Alignment explanation
Indices: 39816731--39816774 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
39816721 ATACTTACAG
39816731 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
39816748 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
39816767 TACTAATT
1 TAATAATT
39816775 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:39818459 original size:47 final size:48
Alignment explanation
Indices: 39818344--39818468 Score: 180
Period size: 48 Copynumber: 2.6 Consensus size: 48
39818334 ATATCTGTAA
** *
39818344 GTGCTAAGTGGATATACCACAATTACACATATTGATACATGTAATGTG
1 GTGCTAAGTGGATATACCACGGTTACACATATTGATACATGTAACGTG
* * *
39818392 GTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT-TAACGTG
1 GTGCTAAGTGGATATACCACGGTTACACATATTGATACATGTAACGTG
*
39818439 GTGCTAAGTGGATATACCACGGTTAAACAT
1 GTGCTAAGTGGATATACCACGGTTACACAT
39818469 GTAACGTGGT
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
47 33 0.49
48 35 0.51
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (48 bp):
GTGCTAAGTGGATATACCACGGTTACACATATTGATACATGTAACGTG
Found at i:39818483 original size:38 final size:38
Alignment explanation
Indices: 39818432--39818508 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
39818422 ATTGATTCAT
39818432 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* *
39818470 TAACGTGGTGCTAAGTGGATATGCCACGGTTATACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
39818508 T
1 T
39818509 TAATTTGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
Found at i:39822550 original size:47 final size:47
Alignment explanation
Indices: 39822496--39822898 Score: 682
Period size: 47 Copynumber: 8.6 Consensus size: 47
39822486 TATTTGAATA
*
39822496 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
39822543 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
39822590 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
39822637 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
39822684 ATTGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
39822731 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
39822778 AATGTGAAAGTGTATATATGTGATAAGG-CTGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCT-AATGGCCGATGTGATG
* * * * *
39822825 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
39822872 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
39822899 TCCCGAAGGG
Statistics
Matches: 339, Mismatches: 15, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
46 2 0.01
47 336 0.99
48 1 0.00
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:39824717 original size:40 final size:40
Alignment explanation
Indices: 39824314--39824705 Score: 640
Period size: 40 Copynumber: 9.8 Consensus size: 40
39824304 GAGAATTGAG
*
39824314 AGTGATGTATCCGGGCTAAGTCCCGAAGAGTATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
39824354 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCTTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
39824394 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
39824434 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
39824474 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
39824514 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
39824554 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
39824594 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * ** *
39824634 AGTGATATATCCGTGCTAAACCCCAAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
39824674 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCA
39824706 ATCATGCTGG
Statistics
Matches: 331, Mismatches: 21, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 331 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:39828988 original size:47 final size:47
Alignment explanation
Indices: 39828934--39829383 Score: 783
Period size: 47 Copynumber: 9.6 Consensus size: 47
39828924 TATTTGAATA
*
39828934 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
39828981 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
39829028 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
39829075 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
39829122 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
39829169 ATTGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
39829216 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
39829263 AATGTGAAAGTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
39829310 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
39829357 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
39829384 TCCCGAAGGG
Statistics
Matches: 388, Mismatches: 15, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 388 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:39835570 original size:34 final size:35
Alignment explanation
Indices: 39835526--39835593 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 35
39835516 TATGGTACTA
*
39835526 AATTGGGCTAAGGCCCACACTGTTACTGCTACTGT
1 AATTGGGCTAAGGCCCACACTGATACTGCTACTGT
* *
39835561 AATT-GGCTAAGGCCCACATTGATATTGCTACTG
1 AATTGGGCTAAGGCCCACACTGATACTGCTACTG
39835594 ATATGGGCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 26 0.87
35 4 0.13
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (35 bp):
AATTGGGCTAAGGCCCACACTGATACTGCTACTGT
Found at i:39835610 original size:34 final size:34
Alignment explanation
Indices: 39835529--39835615 Score: 97
Period size: 34 Copynumber: 2.6 Consensus size: 34
39835519 GGTACTAAAT
*
39835529 TGGGCTAAGGCCCACACTGTTACTGCTACTGTAA
1 TGGGCTAAGGCCCACACTGATACTGCTACTGTAA
* * *
39835563 TTGGCTAAGGCCCACATTGATATTGCTACTG-ATA
1 TGGGCTAAGGCCCACACTGATACTGCTACTGTA-A
*
39835597 TGGGCTTAA-GCCCAGACTG
1 TGGGC-TAAGGCCCACACTG
39835616 TTTAGCACTG
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
33 1 0.02
34 40 0.91
35 3 0.07
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (34 bp):
TGGGCTAAGGCCCACACTGATACTGCTACTGTAA
Found at i:39838279 original size:39 final size:39
Alignment explanation
Indices: 39838220--39838441 Score: 167
Period size: 41 Copynumber: 5.6 Consensus size: 39
39838210 AATCAAGCAT
* * ** * *
39838220 CTTCGGGT-TTTAGCCGGATATAACCACTCGCACAAGGC
1 CTTCGGGTCTTAACCCGGATATAGTCACTAGCACAATGC
* *
39838258 CTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAACCCGGATATAGTCACTAGCA-CAATGC
* *
39838298 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGTCTTAACCCGGATATAGTCACTAGCAC-AATGC
* ** * ** *
39838338 CTTCGGATCTTAGTCCGGATGTAGTTGCTTAGCACAAAAGC
1 CTTCGGGTCTTAACCCGGATATAGTCAC-TAGCAC-AATGC
* ** * *
39838379 CTTCGGGACTTCGCCCGGATATAGTCGCTTAGCACAAAAGC
1 CTTCGGGTCTTAACCCGGATATAGTCAC-TAGCAC-AATGC
* *
39838420 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAACCCGGATAT
39838442 CATTCGAGTA
Statistics
Matches: 154, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
38 8 0.05
39 18 0.12
40 61 0.40
41 67 0.44
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (39 bp):
CTTCGGGTCTTAACCCGGATATAGTCACTAGCACAATGC
Found at i:39838383 original size:41 final size:41
Alignment explanation
Indices: 39838256--39838441 Score: 234
Period size: 41 Copynumber: 4.6 Consensus size: 41
39838246 CTCGCACAAG
* * * * * *
39838256 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
* *
39838296 GCCTTCGGGACTTAGCCCGGATATAGTCAC-TAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
* * *
39838336 GCCTTC-GGATCTTAGTCCGGATGTAGTTGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGCTTAGCACAAAA
*
39838377 GCCTTCGGGACTTCGCCCGGATATAGTCGCTTAGCACAAAA
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
39838418 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
39838442 CATTCGAGTA
Statistics
Matches: 129, Mismatches: 14, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
39 3 0.02
40 58 0.45
41 65 0.50
42 3 0.02
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.25
Consensus pattern (41 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
Found at i:39838395 original size:81 final size:82
Alignment explanation
Indices: 39838286--39838439 Score: 231
Period size: 81 Copynumber: 1.9 Consensus size: 82
39838276 ATATGGTCAC
* * *
39838286 TAGCATAAATGCCTTCGGGACTTAGCCCGGATATAGTCAC-TAGCACAAATGCCTTC-GGATCTT
1 TAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCACTTAGCACAAAAGCCTTCGGGA-CTT
*
39838349 AGTCCGGATGTAGTTGCT
65 AGCCCGGATGTAGTTGCT
* *
39838367 TAGCACAAAAGCCTTCGGGACTTCGCCCGGATATAGTCGCTTAGCACAAAAGCCTTCGGGACTTA
1 TAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCACTTAGCACAAAAGCCTTCGGGACTTA
39838432 GCCCGGAT
66 GCCCGGAT
39838440 ATCATTCGAG
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 36 0.55
82 26 0.40
83 3 0.05
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (82 bp):
TAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCACTTAGCACAAAAGCCTTCGGGACTTA
GCCCGGATGTAGTTGCT
Found at i:39840303 original size:42 final size:42
Alignment explanation
Indices: 39840247--39840354 Score: 112
Period size: 42 Copynumber: 2.6 Consensus size: 42
39840237 AATGCCAACA
* * * *
39840247 TCCCAAACATGGTCTTACATGTAATCAAATATC-ATGCC-ACTG
1 TCCCAGACAGGGTCTTACACGAAATCAAATA-CGATGCCTA-TG
*
39840289 TCCCAGACAGGGTCTTACACGAAATCATATACGATGCCTATG
1 TCCCAGACAGGGTCTTACACGAAATCAAATACGATGCCTATG
* * *
39840331 TCCCAGAAATGGTTTTACACGAAA
1 TCCCAGACAGGGTCTTACACGAAA
39840355 CCACATGTCG
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
41 1 0.02
42 54 0.96
43 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (42 bp):
TCCCAGACAGGGTCTTACACGAAATCAAATACGATGCCTATG
Found at i:39843332 original size:40 final size:40
Alignment explanation
Indices: 39843288--39843418 Score: 138
Period size: 40 Copynumber: 3.3 Consensus size: 40
39843278 GGGTGCCGAA
* * * *
39843288 GTGCAAATAAAGACACTAAAGTGTATTCAGTGGTACAGTT
1 GTGCAAACAAGGACACTAAAGTGTATTCAGAGGCACAGTT
* * * * *
39843328 GTGCAAACAGGGACACTAAACTGTATTAAGGGGCACAATT
1 GTGCAAACAAGGACACTAAAGTGTATTCAGAGGCACAGTT
** *
39843368 GTGCAAACAAGGACAC-CGAGTTGTATTCAGAGGCATAGTT
1 GTGCAAACAAGGACACTAAAG-TGTATTCAGAGGCACAGTT
39843408 GTGCAAACAAG
1 GTGCAAACAAG
39843419 AGCACTTCTT
Statistics
Matches: 74, Mismatches: 16, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (40 bp):
GTGCAAACAAGGACACTAAAGTGTATTCAGAGGCACAGTT
Found at i:39848833 original size:24 final size:25
Alignment explanation
Indices: 39848815--39848874 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
39848805 AAAAACGCTA
*
39848815 TGCCCCAGTTTACCGAAAAGGGCTT
1 TGCCCCAGTTTACCAAAAAGGGCTT
* *
39848840 TGCCCCATTTTATCAAAAAGGGCTT
1 TGCCCCAGTTTACCAAAAAGGGCTT
39848865 TGCCCCAGTT
1 TGCCCCAGTT
39848875 ATTAAAAGAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (25 bp):
TGCCCCAGTTTACCAAAAAGGGCTT
Found at i:39848833 original size:25 final size:24
Alignment explanation
Indices: 39848804--39848874 Score: 79
Period size: 25 Copynumber: 2.9 Consensus size: 24
39848794 TGAGGAAGTG
* *
39848804 CAAAAACGCTATGCCCCAGTTTAC
1 CAAAAAGGCTTTGCCCCAGTTTAC
* * *
39848828 CGAAAAGGGCTTTGCCCCATTTTAT
1 C-AAAAAGGCTTTGCCCCAGTTTAC
39848853 CAAAAAGGGCTTTGCCCCAGTT
1 CAAAAA-GGCTTTGCCCCAGTT
39848875 ATTAAAAGAG
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
24 5 0.13
25 33 0.87
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (24 bp):
CAAAAAGGCTTTGCCCCAGTTTAC
Found at i:39848876 original size:24 final size:24
Alignment explanation
Indices: 39848815--39848881 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 24
39848805 AAAAACGCTA
* *
39848815 TGCCCCAGTTTACCGAAAAGGGCTT
1 TGCCCCAG-TTATCAAAAAGGGCTT
*
39848840 TGCCCCATTTTATCAAAAAGGGCTT
1 TGCCCCA-GTTATCAAAAAGGGCTT
*
39848865 TGCCCCAGTTATTAAAA
1 TGCCCCAGTTATCAAAA
39848882 GAGGCTAGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
24 8 0.22
25 28 0.78
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (24 bp):
TGCCCCAGTTATCAAAAAGGGCTT
Found at i:39848887 original size:24 final size:24
Alignment explanation
Indices: 39848815--39848901 Score: 70
Period size: 25 Copynumber: 3.5 Consensus size: 24
39848805 AAAAACGCTA
*
39848815 TGCCCCAGTTTACCGAAAAG-GGCTT
1 TGCCCCAG-TTATC-AAAAGAGGCTT
*
39848840 TGCCCCATTTTATCAAAA-AGGGCTT
1 TGCCCCA-GTTATCAAAAGA-GGCTT
* *
39848865 TGCCCCAGTTATTAAAAGAGGCTA
1 TGCCCCAGTTATCAAAAGAGGCTT
*
39848889 GGCCTCCAGTTAT
1 TGCC-CCAGTTAT
39848902 ATGATAAAGC
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
24 19 0.37
25 32 0.63
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (24 bp):
TGCCCCAGTTATCAAAAGAGGCTT
Found at i:39849704 original size:38 final size:38
Alignment explanation
Indices: 39849653--39849731 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
39849643 AGCCTTCATG
*
39849653 GCTCACCTCCTCTGTTTCGGATACCTACTTGGTGCACA
1 GCTCACCTCCTCTGTTTCGGATACCTACCTGGTGCACA
39849691 GCTCACCTCCTCTGTTTCGGATACCTACCTGGTGCACA
1 GCTCACCTCCTCTGTTTCGGATACCTACCTGGTGCACA
39849729 GCT
1 GCT
39849732 TCCATTCACT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.15, C:0.35, G:0.19, T:0.30
Consensus pattern (38 bp):
GCTCACCTCCTCTGTTTCGGATACCTACCTGGTGCACA
Found at i:39856771 original size:25 final size:25
Alignment explanation
Indices: 39856743--39856812 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
39856733 GAGGAAGTGC
* * *
39856743 AAAAGCGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
39856768 AAAAGGGCTTTGCCCCATTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
39856793 AAAAGGGCTTTACCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
39856813 ATTAAAAGAG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:39856814 original size:24 final size:25
Alignment explanation
Indices: 39856768--39856819 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
39856758 CAGTTTACCG
* *
39856768 AAAAGGGCTTTGCCCCATTTTATCA
1 AAAAGGGCTTTACCCCATGTTATCA
*
39856793 AAAAGGGCTTTACCCCA-GTTATTA
1 AAAAGGGCTTTACCCCATGTTATCA
39856817 AAA
1 AAA
39856820 GAGGCTAGGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 8 0.33
25 16 0.67
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTTACCCCATGTTATCA
Found at i:39859413 original size:138 final size:138
Alignment explanation
Indices: 39859251--39859549 Score: 374
Period size: 138 Copynumber: 2.2 Consensus size: 138
39859241 TATGAGAGCT
**
39859251 AGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGAGACGAATGCTAGTGTAAGACATGTCTG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGTACGGAGACGAATGCTAGTGTAAGACATGTCTG
* * *
39859316 GGACATGCATCAG-TC-TCGGGATATAAGCCAATGTAAGA-CATGTTTGGGACATGG-ATCGGCT
66 GAACATGCATCAGCACATCGGG--A-AAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCT
39859377 ACGAGATGTGTC
128 -CGAGATGTGTC
* * * **
39859389 AGTGTAAGACCATGTTTGGGACATGGCATCGGTACGGATATGTGTGCTAGTGTAAGACATGTCTG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGTACGGAGACGAATGCTAGTGTAAGACATGTCTG
* * * *
39859454 GAACATGCATCAGCCACATCGTGAAAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTG
66 GAACATGCATCAG-CACATCGGGAAAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCTCG
* *
39859519 ATATGTGTT
130 AGATGTGTC
39859528 AGTGTAAGACC-TGTCTGGGACA
1 AGTGTAAGACCATGTCTGGGACA
39859550 CGGTATCGAC
Statistics
Matches: 139, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
138 92 0.66
139 35 0.25
140 8 0.06
141 4 0.03
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (138 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGTACGGAGACGAATGCTAGTGTAAGACATGTCTG
GAACATGCATCAGCACATCGGGAAAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCTCGA
GATGTGTC
Found at i:39859464 original size:46 final size:46
Alignment explanation
Indices: 39859248--39859514 Score: 202
Period size: 46 Copynumber: 5.7 Consensus size: 46
39859238 CATTATGAGA
** * *
39859248 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGAGACGAAT
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGTACGGAGATGTAT
* * * *
39859296 GCTAGTGTAAGACATGTCTGGGACATGCATCAGTCTCGG-GATATAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGT-ACGGAGATGTAT
* * * * *
39859342 GCCAATGTAAGACATGTTTGGGACATGGATCGGCTAC-GAGATGTGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-TACGGAGATGTAT
* * *
39859388 -C-AGTGTAAGACCATGTTTGGGACATGGCATCGGTACGGATATGTGT
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGTACGGAGATGTAT
* ** *** * *
39859434 GCTAGTGTAAGACATGTCTGGAACATGCATCAGCCACATCG-TGAAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GGTACGGAGATGTAT
39859480 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGG
39859515 CTTGATATGT
Statistics
Matches: 175, Mismatches: 33, Indels: 23
0.76 0.14 0.10
Matches are distributed among these distances:
44 8 0.05
45 19 0.11
46 76 0.43
47 46 0.26
48 26 0.15
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGTACGGAGATGTAT
Found at i:39863737 original size:54 final size:54
Alignment explanation
Indices: 39863672--39863779 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
39863662 CAGGTAGGTA
39863672 TGGTGGCCTCCTTATACGCAATTTAAGGAGCCATAGCCTTAGTAAAGGAAATAG
1 TGGTGGCCTCCTTATACGCAATTTAAGGAGCCATAGCCTTAGTAAAGGAAATAG
*
39863726 TGGTGGTCTCCTTATACGCAATTTAAGGAGCCATAGCCTTAGTAAAGGAAATAG
1 TGGTGGCCTCCTTATACGCAATTTAAGGAGCCATAGCCTTAGTAAAGGAAATAG
39863780 CGGAGGCTTG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (54 bp):
TGGTGGCCTCCTTATACGCAATTTAAGGAGCCATAGCCTTAGTAAAGGAAATAG
Found at i:39867082 original size:46 final size:45
Alignment explanation
Indices: 39867028--39867202 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 45
39867018 TGTTTGGGCA
39867028 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
* *** * * *
39867073 GTCCAAACTCGTTGAGTTGA-TCCGAGTTCGAGAGATGTAACTGGGCA-
1 -TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-TGCGAAT
* * *
39867120 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAACT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T
* *
39867166 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
39867203 GTGGGTTACA
Statistics
Matches: 105, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
44 4 0.04
45 10 0.10
46 78 0.74
47 9 0.09
48 4 0.04
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
Found at i:39867179 original size:92 final size:93
Alignment explanation
Indices: 39867022--39867194 Score: 269
Period size: 92 Copynumber: 1.9 Consensus size: 93
39867012 CTAGGATGTT
*
39867022 TGGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTG
1 TGGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCAAACTCGTTG
39867087 AGTTGA-TCCGAGTTCGAGAGATGTAAC
66 AGTTGAGTCCGAGTTCGAGAGATGTAAC
* * * * *
39867114 TGGGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAACT-CCCGAGCTCGTT
1 TGGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-TGCCCAAACTCGTT
39867178 GAGTTGAGTCCGAGTTC
65 GAGTTGAGTCCGAGTTC
39867195 ACTTATGGGT
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
92 63 0.86
93 10 0.14
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
TGGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCAAACTCGTTG
AGTTGAGTCCGAGTTCGAGAGATGTAAC
Found at i:39872200 original size:20 final size:20
Alignment explanation
Indices: 39872177--39872284 Score: 83
Period size: 20 Copynumber: 5.5 Consensus size: 20
39872167 GGTGAAGCCA
39872177 CCAGTAATGCAGATAAACTG
1 CCAGTAATGCAGATAAACTG
* * *
39872197 CCAGTAGTACAGAT-AACTA
1 CCAGTAATGCAGATAAACTG
* * * *
39872216 CCAATATTGTAGATAAAATG
1 CCAGTAATGCAGATAAACTG
* * * *
39872236 CCAGTAATGCAAACAAGCTT
1 CCAGTAATGCAGATAAACTG
* **
39872256 CCAGTATTGTTGATAAACTG
1 CCAGTAATGCAGATAAACTG
39872276 CCAGTAATG
1 CCAGTAATG
39872285 TGGTCAAGCC
Statistics
Matches: 62, Mismatches: 25, Indels: 2
0.70 0.28 0.02
Matches are distributed among these distances:
19 14 0.23
20 48 0.77
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.25
Consensus pattern (20 bp):
CCAGTAATGCAGATAAACTG
Found at i:39872300 original size:40 final size:40
Alignment explanation
Indices: 39872125--39872300 Score: 122
Period size: 40 Copynumber: 4.4 Consensus size: 40
39872115 ACTCAAATTC
* * * *
39872125 GTGGACAAGCCACTAGTAATGCAGATAAGCTGCTAGTAAT
1 GTGGTCAAGCCACCAGTAATGCAGATAAACTGCCAGTAAT
* *
39872165 GTGGTGAAGCCACCAGTAATGCAGATAAACTGCCAGTAGT
1 GTGGTCAAGCCACCAGTAATGCAGATAAACTGCCAGTAAT
** * * * * * *
39872205 ACAGAT-AA-CTACCAATATTGTAGATAAAATGCCAGTAAT
1 -GTGGTCAAGCCACCAGTAATGCAGATAAACTGCCAGTAAT
**** ** * **
39872244 GCAAACAAGCTTCCAGTATTGTTGATAAACTGCCAGTAAT
1 GTGGTCAAGCCACCAGTAATGCAGATAAACTGCCAGTAAT
39872284 GTGGTCAAGCCACCAGT
1 GTGGTCAAGCCACCAGT
39872301 GATGTGGATA
Statistics
Matches: 104, Mismatches: 29, Indels: 6
0.75 0.21 0.04
Matches are distributed among these distances:
38 1 0.01
39 27 0.26
40 74 0.71
41 2 0.02
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (40 bp):
GTGGTCAAGCCACCAGTAATGCAGATAAACTGCCAGTAAT
Found at i:39874340 original size:44 final size:44
Alignment explanation
Indices: 39874277--39874397 Score: 145
Period size: 44 Copynumber: 2.7 Consensus size: 44
39874267 AGTACATGTA
39874277 TCGCATCCATAATGAACTCGAACCAACTCAACAAGCTCGGATGC
1 TCGCATCCATAATGAACTCGAACCAACTCAACAAGCTCGGATGC
* * * *
39874321 TCGCATCCATAATGAACTCGGACCAACTTAACGAGCTCTGATGC
1 TCGCATCCATAATGAACTCGAACCAACTCAACAAGCTCGGATGC
* * * *
39874365 -CTCATACATATCACGAACCCGAACCAACTCAAC
1 TCGCATCCATA--ATGAACTCGAACCAACTCAAC
39874398 GAGTTCAGAT
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
43 8 0.12
44 40 0.62
45 17 0.26
ACGTcount: A:0.34, C:0.33, G:0.14, T:0.19
Consensus pattern (44 bp):
TCGCATCCATAATGAACTCGAACCAACTCAACAAGCTCGGATGC
Found at i:39875315 original size:50 final size:50
Alignment explanation
Indices: 39875199--39875476 Score: 270
Period size: 50 Copynumber: 5.5 Consensus size: 50
39875189 CTAGTACGCA
* * * * * *
39875199 TAGTAGGCTGCACTTAGTACTACACATGCGACC-AACAATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGGTACACG
* *
39875248 TAGTAGCTTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGGTACACG
* * * *** * ** *
39875298 TAGTAGCCTGCACTTAGTAATACACACGTGATCAAAGTTGTCGGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CCATCTGGTACACG
* * *
39875349 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGGTACACG
* * *** *
39875399 TAGTAGCCTGCAATTAGTACTACACACGTGACTTAAAACCATCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACCATCTGGTACACG
*
39875451 TAGTAGCCTGCACATAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
39875477 TGTATGCTCA
Statistics
Matches: 183, Mismatches: 42, Indels: 5
0.80 0.18 0.02
Matches are distributed among these distances:
49 29 0.16
50 82 0.45
51 37 0.20
52 35 0.19
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGGTACACG
Found at i:39875373 original size:101 final size:101
Alignment explanation
Indices: 39875248--39875429 Score: 301
Period size: 101 Copynumber: 1.8 Consensus size: 101
39875238 CCGGTACATG
* * *
39875248 TAGTAGCTTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGATACACGTAGTAGCCTGCAATT
39875313 AGTAATACACACGTGATCAAAGTTGTCGGGTATGCA
66 AGTAATACACACGTGATCAAAGTTGTCGGGTATGCA
* * *
39875349 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGCCTGCAATT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGATACACGTAGTAGCCTGCAATT
*
39875414 AGTACTACACACGTGA
66 AGTAATACACACGTGA
39875430 CTTAAAACCA
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 74 1.00
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGATACACGTAGTAGCCTGCAATT
AGTAATACACACGTGATCAAAGTTGTCGGGTATGCA
Found at i:39879898 original size:23 final size:23
Alignment explanation
Indices: 39879872--39879957 Score: 72
Period size: 23 Copynumber: 3.7 Consensus size: 23
39879862 GCTCTATTAG
*
39879872 GCTGAAACGGTAAGCTTCATCGA
1 GCTGAAACAGTAAGCTTCATCGA
*
39879895 GCTG-AACAGTAAGGC--CATACAA
1 GCTGAAACAGTAA-GCTTCAT-CGA
**
39879917 GCTGAAATGGTAAG-TTCAATCGA
1 GCTGAAACAGTAAGCTTC-ATCGA
39879940 GCTGAAAGCAGTAAGCTT
1 GCTGAAA-CAGTAAGCTT
39879958 TTCTAAGCTA
Statistics
Matches: 48, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
21 3 0.06
22 14 0.29
23 22 0.46
24 7 0.15
25 2 0.04
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.21
Consensus pattern (23 bp):
GCTGAAACAGTAAGCTTCATCGA
Found at i:39881394 original size:15 final size:15
Alignment explanation
Indices: 39881374--39881403 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
39881364 GCTAAAAAAA
*
39881374 AGAAGAGAAATGGAG
1 AGAAGAGAAAGGGAG
39881389 AGAAGAGAAAGGGAG
1 AGAAGAGAAAGGGAG
39881404 GAGCTAGAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.00, G:0.43, T:0.03
Consensus pattern (15 bp):
AGAAGAGAAAGGGAG
Found at i:39884202 original size:44 final size:44
Alignment explanation
Indices: 39884152--39884244 Score: 168
Period size: 44 Copynumber: 2.1 Consensus size: 44
39884142 TATTATGACC
* *
39884152 TTACTAACGTCCCGTAGAAATTAAAATAATAATAAAATAAAAAT
1 TTACTAACATCCCATAGAAATTAAAATAATAATAAAATAAAAAT
39884196 TTACTAACATCCCATAGAAATTAAAATAATAATAAAATAAAAAT
1 TTACTAACATCCCATAGAAATTAAAATAATAATAAAATAAAAAT
39884240 TTACT
1 TTACT
39884245 CGTCAAATTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.55, C:0.12, G:0.04, T:0.29
Consensus pattern (44 bp):
TTACTAACATCCCATAGAAATTAAAATAATAATAAAATAAAAAT
Found at i:39899494 original size:38 final size:39
Alignment explanation
Indices: 39899410--39899565 Score: 164
Period size: 39 Copynumber: 4.1 Consensus size: 39
39899400 TTCCCTTTTT
* * *
39899410 TACTTTGGTACCCCT-A-GT-ACTTACATG-CCCTGTTC
1 TACTTTGGTACCCCTGATCTCACTTACGTGCCCCTGTTG
* *
39899445 TAGTTCT-GTACCCCTGATCTCACTTACGTG-CCTTGTTG
1 TACTT-TGGTACCCCTGATCTCACTTACGTGCCCCTGTTG
* * *
39899483 TATTTTGGTACCCCTGAT-TGCACTTACATGCCCCTGCTG
1 TACTTTGGTACCCCTGATCT-CACTTACGTGCCCCTGTTG
*
39899522 TACTTTGGTACCCCTGATCACACTTACGTGCCCCTGTTG
1 TACTTTGGTACCCCTGATCTCACTTACGTGCCCCTGTTG
39899561 TACTT
1 TACTT
39899566 CGATACTCCT
Statistics
Matches: 100, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
35 12 0.12
36 2 0.02
37 3 0.03
38 38 0.38
39 45 0.45
ACGTcount: A:0.15, C:0.31, G:0.17, T:0.37
Consensus pattern (39 bp):
TACTTTGGTACCCCTGATCTCACTTACGTGCCCCTGTTG
Found at i:39899538 original size:39 final size:38
Alignment explanation
Indices: 39899410--39899584 Score: 153
Period size: 39 Copynumber: 4.6 Consensus size: 38
39899400 TTCCCTTTTT
* *
39899410 TACTTTGGTACCCCT-A--GTACTTACATGCCCTGTTC
1 TACTTTGGTACCCCTGATTGCACTTACATGCCCTGTTG
* * *
39899445 TAGTTCT-GTACCCCTGATCT-CACTTACGTGCCTTGTTG
1 TACTT-TGGTACCCCTGAT-TGCACTTACATGCCCTGTTG
* *
39899483 TATTTTGGTACCCCTGATTGCACTTACATGCCCCTGCTG
1 TACTTTGGTACCCCTGATTGCACTTACATG-CCCTGTTG
** *
39899522 TACTTTGGTACCCCTGATCACACTTACGTGCCCCTGTTG
1 TACTTTGGTACCCCTGATTGCACTTACATG-CCCTGTTG
* * * *
39899561 TACTTCGATACTCCTGATAGCACT
1 TACTTTGGTACCCCTGATTGCACT
39899585 CTTGTGCCAT
Statistics
Matches: 113, Mismatches: 19, Indels: 12
0.78 0.13 0.08
Matches are distributed among these distances:
35 12 0.11
36 2 0.02
37 2 0.02
38 38 0.34
39 59 0.52
ACGTcount: A:0.17, C:0.31, G:0.17, T:0.36
Consensus pattern (38 bp):
TACTTTGGTACCCCTGATTGCACTTACATGCCCTGTTG
Found at i:39903054 original size:93 final size:93
Alignment explanation
Indices: 39902941--39903110 Score: 322
Period size: 93 Copynumber: 1.8 Consensus size: 93
39902931 CCCATAAGTG
*
39902941 AACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
39903006 GAGTTCGGATGCCTAGTTACATTTCACA
66 GAGTTCGGATGCCTAGTTACATTTCACA
*
39903034 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
39903099 GAGTTCGGATGC
66 GAGTTCGGATGC
39903111 TCAACCATCC
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTTCACA
Found at i:39903107 original size:46 final size:46
Alignment explanation
Indices: 39902932--39903107 Score: 218
Period size: 46 Copynumber: 3.8 Consensus size: 46
39902922 TGTAACCCGC
* *
39902932 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
39902978 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACATT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCA-T
* *
39903029 TCA-CA---AACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
39903071 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
39903108 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 8, Indels: 22
0.79 0.06 0.16
Matches are distributed among these distances:
42 5 0.05
43 4 0.04
44 1 0.01
46 63 0.57
47 28 0.25
49 1 0.01
50 4 0.04
51 5 0.05
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:39905566 original size:26 final size:26
Alignment explanation
Indices: 39905530--39905585 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
39905520 TGAAGGGCAT
39905530 GGCCCTAGGACATGGCCGTGCGCCCA
1 GGCCCTAGGACATGGCCGTGCGCCCA
*
39905556 GGCCTTAGGACATGGCCGTGCGCCCA
1 GGCCCTAGGACATGGCCGTGCGCCCA
39905582 GGCC
1 GGCC
39905586 ATGTGAAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.14, C:0.38, G:0.36, T:0.12
Consensus pattern (26 bp):
GGCCCTAGGACATGGCCGTGCGCCCA
Found at i:39906316 original size:16 final size:16
Alignment explanation
Indices: 39906295--39906325 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
39906285 GTAACGCCCC
39906295 AAAAATCCCAAAATCT
1 AAAAATCCCAAAATCT
*
39906311 AAAAATCCCGAAATC
1 AAAAATCCCAAAATC
39906326 CTGAATTTTC
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:0.55, C:0.26, G:0.03, T:0.16
Consensus pattern (16 bp):
AAAAATCCCAAAATCT
Found at i:39910509 original size:43 final size:43
Alignment explanation
Indices: 39910462--39910547 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
39910452 AAGAAGATAA
39910462 TATACTATCTTAGCATATTGTACAATAAGAGATAATAAACTCT
1 TATACTATCTTAGCATATTGTACAATAAGAGATAATAAACTCT
39910505 TATACTATCTTAGCATATTGTACAATAAGAGATAATAAACTCT
1 TATACTATCTTAGCATATTGTACAATAAGAGATAATAAACTCT
39910548 ATCTCCCACT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (43 bp):
TATACTATCTTAGCATATTGTACAATAAGAGATAATAAACTCT
Found at i:39915550 original size:50 final size:51
Alignment explanation
Indices: 39915484--39915627 Score: 173
Period size: 50 Copynumber: 2.8 Consensus size: 51
39915474 GTAACTGAAG
* *
39915484 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCT-AA
1 CTATCTCGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCTAAA
* **
39915534 CTATCTCGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAA
1 CTATCTCGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCT-AAA
* *** * *
39915586 CCATCTTAAACACATAGTAGCCTGCACATATTACTACACATG
1 CTATCTCGTACACATAGTAGCCTGCACTTAGTACTACACATG
39915628 TGTTCTCACA
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
50 43 0.54
52 37 0.46
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (51 bp):
CTATCTCGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCTAAA
Found at i:39917494 original size:28 final size:28
Alignment explanation
Indices: 39917418--39917541 Score: 131
Period size: 28 Copynumber: 4.4 Consensus size: 28
39917408 CGATATTTCG
** **
39917418 CACACTAAGTGCCATACCCAATGCCTCA
1 CACACTAAGTGCCATATTCAATATCTCA
* *
39917446 TACACTAAGTGCCATATTCAATGTCTCA
1 CACACTAAGTGCCATATTCAATATCTCA
* **
39917474 CACACTAAGTGCCATAATCAATATCTTT
1 CACACTAAGTGCCATATTCAATATCTCA
* **
39917502 CACACTAAGTGTCATATTCAATATCTTG
1 CACACTAAGTGCCATATTCAATATCTCA
*
39917530 CACACTATGTGC
1 CACACTAAGTGC
39917542 TATACGTAGC
Statistics
Matches: 82, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 82 1.00
ACGTcount: A:0.32, C:0.28, G:0.10, T:0.29
Consensus pattern (28 bp):
CACACTAAGTGCCATATTCAATATCTCA
Found at i:39919028 original size:22 final size:22
Alignment explanation
Indices: 39919003--39919046 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
39918993 TTTGTACTTA
39919003 AATT-ATTAAAATAATTAATTTT
1 AATTCATT-AAATAATTAATTTT
**
39919025 AATTCATTTTATAATTAATTTT
1 AATTCATTAAATAATTAATTTT
39919047 GATTTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
AATTCATTAAATAATTAATTTT
Found at i:39919055 original size:22 final size:22
Alignment explanation
Indices: 39919013--39919056 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
39919003 AATTATTAAA
39919013 ATAATTAATTTTAATTCATTTT
1 ATAATTAATTTTAATTCATTTT
* *
39919035 ATAATTAATTTTGATTTATTTT
1 ATAATTAATTTTAATTCATTTT
39919057 GATTATTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (22 bp):
ATAATTAATTTTAATTCATTTT
Found at i:39924330 original size:27 final size:26
Alignment explanation
Indices: 39924272--39924340 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 26
39924262 GGTGGCTAAG
** *
39924272 CCACAAATATCTGTTCTGGTGGTTCTG
1 CCAC-AATATCTGTTCTGGTGACTCTA
39924299 CCACAATATCTGTATCTGGTGACTCTA
1 CCACAATATCTGT-TCTGGTGACTCTA
* *
39924326 TCACATTATCTGTTC
1 CCACAATATCTGTTC
39924341 AGGCCGCTCT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
26 11 0.31
27 25 0.69
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.38
Consensus pattern (26 bp):
CCACAATATCTGTTCTGGTGACTCTA
Found at i:39933434 original size:29 final size:30
Alignment explanation
Indices: 39933381--39933438 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
39933371 CAAAAGTTTT
39933381 GGCACTAAGTGTGCGATTTAAACTAGCTTG
1 GGCACTAAGTGTGCGATTTAAACTAGCTTG
39933411 GGCACTAAGTGTGCGATTT-AACTAGCTT
1 GGCACTAAGTGTGCGATTTAAACTAGCTT
39933439 CGGCTATTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 9 0.32
30 19 0.68
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (30 bp):
GGCACTAAGTGTGCGATTTAAACTAGCTTG
Found at i:39941060 original size:28 final size:28
Alignment explanation
Indices: 39941028--39941083 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
39941018 ATGTTTTGAG
39941028 TACGAGCTTACTAAGCTTTTGAAAGCTT
1 TACGAGCTTACTAAGCTTTTGAAAGCTT
39941056 TACGAGCTTACTAAGCTTTTGAAAGCTT
1 TACGAGCTTACTAAGCTTTTGAAAGCTT
39941084 ACTCTGTGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (28 bp):
TACGAGCTTACTAAGCTTTTGAAAGCTT
Found at i:39942514 original size:18 final size:18
Alignment explanation
Indices: 39942489--39942526 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
39942479 AATTCGTTTG
39942489 TTTATTTTTC-TTATTTA
1 TTTATTTTTCGTTATTTA
39942506 TTTATTTTTCGTTATTTA
1 TTTATTTTTCGTTATTTA
39942524 TTT
1 TTT
39942527 TTTATGTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (18 bp):
TTTATTTTTCGTTATTTA
Found at i:39945727 original size:41 final size:41
Alignment explanation
Indices: 39945646--39945739 Score: 118
Period size: 41 Copynumber: 2.3 Consensus size: 41
39945636 TCATATGAGA
* * * *
39945646 GGTATCGATACCTTTGCTAACTGTATCGATGCATTGACTTG
1 GGTATCGATACCTCTGCCAACTGTATCGATACATTAACTTG
* *
39945687 GGTATCGATACCTCTGCCAA-TGGTGTTGATACATTAACTTG
1 GGTATCGATACCTCTGCCAACT-GTATCGATACATTAACTTG
39945728 GGTATCGATACC
1 GGTATCGATACC
39945740 CATGTCAAGT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 1 0.02
41 45 0.98
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.34
Consensus pattern (41 bp):
GGTATCGATACCTCTGCCAACTGTATCGATACATTAACTTG
Found at i:39947285 original size:3 final size:3
Alignment explanation
Indices: 39947277--39947306 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
39947267 TTCCTTTGTT
*
39947277 TTC TTC TTC TTC TTC TTC TTT TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
39947307 CTCCTCCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:39949636 original size:47 final size:47
Alignment explanation
Indices: 39949541--39949670 Score: 152
Period size: 47 Copynumber: 2.8 Consensus size: 47
39949531 GTGTGAATAG
* * * *
39949541 TACCTTGATTTAGCTACGGGTCATGGTATAGGTATTTTGAAAGGAGT
1 TACCTTGATTTAGCTACGGGCCATGGTATAGGTACTCTGAAAGAAGT
* ** *
39949588 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTGGGATAAGT
1 TACCTTGATTTAGCTACGGGCCATGGTATAGGTACTCTGAAAGAAGT
* ** *
39949635 TACCTTGATTTTGCTATTGGCCATGGAATAGGTACT
1 TACCTTGATTTAGCTACGGGCCATGGTATAGGTACT
39949671 TATCAATTAT
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (47 bp):
TACCTTGATTTAGCTACGGGCCATGGTATAGGTACTCTGAAAGAAGT
Found at i:39950834 original size:13 final size:13
Alignment explanation
Indices: 39950818--39950845 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
39950808 CAGCCTGTTT
39950818 ACACGGGCATGTG
1 ACACGGGCATGTG
39950831 ACACGGGCATGTG
1 ACACGGGCATGTG
39950844 AC
1 AC
39950846 CTATGATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.25, G:0.36, T:0.14
Consensus pattern (13 bp):
ACACGGGCATGTG
Found at i:39953722 original size:40 final size:40
Alignment explanation
Indices: 39953482--39953708 Score: 350
Period size: 40 Copynumber: 5.7 Consensus size: 40
39953472 ATTCGGATTG
*
39953482 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
39953521 ATAACCAGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
39953560 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * * *
39953600 ATAATCGGGCCAAGTCCCGATGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
39953640 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
39953680 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
39953709 AGTGAGAAGC
Statistics
Matches: 169, Mismatches: 18, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 48 0.28
40 121 0.72
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:39956168 original size:17 final size:19
Alignment explanation
Indices: 39956126--39956169 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
39956116 ATGAAATTTT
*
39956126 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
39956145 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
39956163 AA-TATTA
1 AATTATTA
39956170 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:39963060 original size:8 final size:8
Alignment explanation
Indices: 39963047--39963087 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
39963037 AACTGCTAAG
39963047 GCTGAAAA
1 GCTGAAAA
39963055 GCTGAAAA
1 GCTGAAAA
* *
39963063 GCAGAAAG
1 GCTGAAAA
39963071 GCTGAAAA
1 GCTGAAAA
*
39963079 GCCGAAAA
1 GCTGAAAA
39963087 G
1 G
39963088 TGGGTAGATG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.49, C:0.15, G:0.29, T:0.07
Consensus pattern (8 bp):
GCTGAAAA
Found at i:39963349 original size:27 final size:27
Alignment explanation
Indices: 39963318--39963378 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
39963308 TCTAGGCTAA
39963318 ATGGGCCATATAGAGGTATAGGCCCAC
1 ATGGGCCATATAGAGGTATAGGCCCAC
*
39963345 ATGGGCCATATGGAGGTATAGGCCCAC
1 ATGGGCCATATAGAGGTATAGGCCCAC
39963372 ATGGGCC
1 ATGGGCC
39963379 CTTAATATGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.26, C:0.23, G:0.33, T:0.18
Consensus pattern (27 bp):
ATGGGCCATATAGAGGTATAGGCCCAC
Found at i:39967068 original size:47 final size:47
Alignment explanation
Indices: 39967015--39967144 Score: 145
Period size: 47 Copynumber: 2.8 Consensus size: 47
39967005 GTACGAATAA
* * *
39967015 TACCTTGATTTGGCTACGGGCCATGGTATAGATA-TTTTGAGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGATACTCTAGA-AGAAGT
* * * *
39967062 TACCTTGATTTGGCTACGAGACATGGTATAGGTACTCTAGAATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGATACTCTAGAAGAAGT
* * * *
39967109 TACCTAGATTTAGCTACGGGCAATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGATACT
39967145 TATCGATTAT
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
47 66 0.94
48 4 0.06
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGATACTCTAGAAGAAGT
Found at i:39972878 original size:18 final size:19
Alignment explanation
Indices: 39972855--39972893 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
39972845 GGGATTTATT
39972855 TGTGAAAA-TGTGA-AAATG
1 TGTGAAAAGT-TGATAAATG
39972873 TGTGAAAAGTTGATAAATG
1 TGTGAAAAGTTGATAAATG
39972892 TG
1 TG
39972894 GGCTGCTAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.31
Consensus pattern (19 bp):
TGTGAAAAGTTGATAAATG
Found at i:39976540 original size:43 final size:43
Alignment explanation
Indices: 39976390--39976542 Score: 175
Period size: 43 Copynumber: 3.6 Consensus size: 43
39976380 TAATATGTGT
* *
39976390 TTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGA
1 TTACATGTAAGACCATGTCTGGGACATTGGCATCGTATAGTGA
** *
39976433 TTATGTGTAAGACTATGTCTGGGACATTGGCATCGTTATA-TGA
1 TTACATGTAAGACCATGTCTGGGACATTGGCATCG-TATAGTGA
* * *
39976476 TTTCGTGTAAGATCATGTCTGGGACATTGGCATCG-ATAAGTGA
1 TTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT-AGTGA
* * *
39976519 TAACATGTAGGACCATATCTGGGA
1 TTACATGTAAGACCATGTCTGGGA
39976543 TATAGCATTG
Statistics
Matches: 92, Mismatches: 15, Indels: 6
0.81 0.13 0.05
Matches are distributed among these distances:
41 2 0.02
42 1 0.01
43 86 0.93
44 3 0.03
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (43 bp):
TTACATGTAAGACCATGTCTGGGACATTGGCATCGTATAGTGA
Found at i:39997841 original size:62 final size:62
Alignment explanation
Indices: 39997774--39997981 Score: 166
Period size: 69 Copynumber: 3.1 Consensus size: 62
39997764 TTTTAATTTT
39997774 ATGCTTGAGTTGAATGTGAACATTTGGATTGCATAAATGCATAAATATATGAGATTGACCAC
1 ATGCTTGAGTTGAATGTGAACATTTGGATTGCATAAATGCATAAATATATGAGATTGACCAC
* * * * * * *
39997836 ATGCTTGATAATGCTTGAAAGATGCTAA-ATTTTGTTTGAATAAATGAAAAATTAATGGATATGT
1 ATGCTTG---A-G-TTGAATG-TG--AACATTTGGATTGCATAAATG---CATAAAT--ATATGA
* ****
39997900 GATTTTAATTTT
53 GA--TTGACCAC
39997912 ATGCTTGAGTTGAATGTGAACATTTGGATTGCATAAATGCATAAATATATGAGATTGACCAC
1 ATGCTTGAGTTGAATGTGAACATTTGGATTGCATAAATGCATAAATATATGAGATTGACCAC
39997974 ATGCTTGA
1 ATGCTTGA
39997982 TAATGCTTGA
Statistics
Matches: 106, Mismatches: 24, Indels: 32
0.65 0.15 0.20
Matches are distributed among these distances:
62 18 0.17
64 7 0.07
65 1 0.01
66 6 0.06
67 6 0.06
68 4 0.04
69 30 0.28
70 4 0.04
71 6 0.06
72 6 0.06
73 1 0.01
74 7 0.07
76 10 0.09
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.36
Consensus pattern (62 bp):
ATGCTTGAGTTGAATGTGAACATTTGGATTGCATAAATGCATAAATATATGAGATTGACCAC
Found at i:39997922 original size:138 final size:138
Alignment explanation
Indices: 39997763--39998021 Score: 518
Period size: 138 Copynumber: 1.9 Consensus size: 138
39997753 AATGATAAAA
39997763 ATTTTAATTTTATGCTTGAGTTGAATGTGAACATTTGGATTGCATAAATGCATAAATATATGAGA
1 ATTTTAATTTTATGCTTGAGTTGAATGTGAACATTTGGATTGCATAAATGCATAAATATATGAGA
39997828 TTGACCACATGCTTGATAATGCTTGAAAGATGCTAAATTTTGTTTGAATAAATGAAAAATTAATG
66 TTGACCACATGCTTGATAATGCTTGAAAGATGCTAAATTTTGTTTGAATAAATGAAAAATTAATG
39997893 GATATGTG
131 GATATGTG
39997901 ATTTTAATTTTATGCTTGAGTTGAATGTGAACATTTGGATTGCATAAATGCATAAATATATGAGA
1 ATTTTAATTTTATGCTTGAGTTGAATGTGAACATTTGGATTGCATAAATGCATAAATATATGAGA
39997966 TTGACCACATGCTTGATAATGCTTGAAAGATGCTAAATTTTGTTTGAATAAATGAA
66 TTGACCACATGCTTGATAATGCTTGAAAGATGCTAAATTTTGTTTGAATAAATGAA
39998022 TACGGTCCTG
Statistics
Matches: 121, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
138 121 1.00
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.38
Consensus pattern (138 bp):
ATTTTAATTTTATGCTTGAGTTGAATGTGAACATTTGGATTGCATAAATGCATAAATATATGAGA
TTGACCACATGCTTGATAATGCTTGAAAGATGCTAAATTTTGTTTGAATAAATGAAAAATTAATG
GATATGTG
Found at i:39998017 original size:69 final size:69
Alignment explanation
Indices: 39997806--39998019 Score: 203
Period size: 69 Copynumber: 3.1 Consensus size: 69
39997796 TTTGGATTGC
39997806 ATAAATGCATAAATATATGAGATTGACCACATGCTTGATAATGCTTGAAAGATGCTAAATTTTGT
1 ATAAATGCATAAATATATGAGATTGACCACATGCTTGATAATGCTTGAAAGATGCTAAATTTTGT
39997871 TTGA
66 TTGA
* * ** **
39997875 ATAAATG-AAAAAT-TAATGGATATGTGATTTTA-AT--TT--T-ATGCTTGAGTTGAATG-TGA
1 ATAAATGCATAAATAT-AT-GAGAT-TGA--CCACATGCTTGATAATGCTTGA-AAG-ATGCT-A
* * *
39997931 ACATTTGGATTGC
58 A-ATTTTGTTTGA
39997944 ATAAATGCATAAATATATGAGATTGACCACATGCTTGATAATGCTTGAAAGATGCTAAATTTTGT
1 ATAAATGCATAAATATATGAGATTGACCACATGCTTGATAATGCTTGAAAGATGCTAAATTTTGT
39998009 TTGA
66 TTGA
39998013 ATAAATG
1 ATAAATG
39998020 AATACGGTCC
Statistics
Matches: 109, Mismatches: 18, Indels: 36
0.67 0.11 0.22
Matches are distributed among these distances:
66 9 0.08
67 6 0.06
68 15 0.14
69 49 0.45
70 15 0.14
71 6 0.06
72 9 0.08
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.36
Consensus pattern (69 bp):
ATAAATGCATAAATATATGAGATTGACCACATGCTTGATAATGCTTGAAAGATGCTAAATTTTGT
TTGA
Found at i:39999410 original size:45 final size:45
Alignment explanation
Indices: 39999359--39999449 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
39999349 TAATTAAAGT
* *
39999359 TAAAATTAATTGAAATAAAAGCCAAGTATCATCTTTTCTTCTTTC
1 TAAAATTAATTAAAATAAAAGCCAAGTATCACCTTTTCTTCTTTC
39999404 TAAAATTAATTAAAATAAAAGCCAAGTATCACCTTTTCTTCTTTC
1 TAAAATTAATTAAAATAAAAGCCAAGTATCACCTTTTCTTCTTTC
39999449 T
1 T
39999450 TCAACTGATT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.38, C:0.16, G:0.05, T:0.40
Consensus pattern (45 bp):
TAAAATTAATTAAAATAAAAGCCAAGTATCACCTTTTCTTCTTTC
Found at i:40000281 original size:25 final size:25
Alignment explanation
Indices: 40000230--40000289 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
40000220 CATCTCAAGA
*
40000230 GAGCTTACCAATATTTAGCTCACAT
1 GAGCTTACCAATATTCAGCTCACAT
* ***
40000255 GAGCTTACCGATATTCAGCTTGTAT
1 GAGCTTACCAATATTCAGCTCACAT
40000280 GAGCTTACCA
1 GAGCTTACCA
40000290 TTTATATCTC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (25 bp):
GAGCTTACCAATATTCAGCTCACAT
Found at i:40005135 original size:89 final size:89
Alignment explanation
Indices: 40005019--40005192 Score: 303
Period size: 89 Copynumber: 2.0 Consensus size: 89
40005009 CACCCGGATA
* *
40005019 ATGACAAGAGGATCCTATGCATTCCTCTCCCTCTTGAGGAAGAAGTGGATAGAATGGTATAGTGA
1 ATGACAAGAGGATCCTATGCATTCCTCTCCCTATTGAGGAAGAAGTGGATAGAATGGTATAGTAA
40005084 GGAAAAGCTTCAGGGACTTAGATG
66 GGAAAAGCTTCAGGGACTTAGATG
* *
40005108 ATGACAAGAGGATTCTATGCATTCCTCTCCCTATTGAGGAAGAAGTGGATAGAATGGTATGGTAA
1 ATGACAAGAGGATCCTATGCATTCCTCTCCCTATTGAGGAAGAAGTGGATAGAATGGTATAGTAA
*
40005173 GGAGAAGCTTCAGGGACTTA
66 GGAAAAGCTTCAGGGACTTA
40005193 CATGGTGTGG
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
89 80 1.00
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.25
Consensus pattern (89 bp):
ATGACAAGAGGATCCTATGCATTCCTCTCCCTATTGAGGAAGAAGTGGATAGAATGGTATAGTAA
GGAAAAGCTTCAGGGACTTAGATG
Found at i:40007199 original size:21 final size:20
Alignment explanation
Indices: 40007167--40007213 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
40007157 ATATAAATAA
* *
40007167 ATTTAATATCAATTTAATTC
1 ATTTCATATCAATTTAACTC
40007187 ATTTCATACTCAATTTAACTC
1 ATTTCATA-TCAATTTAACTC
*
40007208 AATTCA
1 ATTTCA
40007214 CATCCTAGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.38, C:0.17, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTTCATATCAATTTAACTC
Found at i:40008680 original size:18 final size:18
Alignment explanation
Indices: 40008652--40008688 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
40008642 TTAGGTTGCA
40008652 AGGTCTGTTGAAGAGGAGG
1 AGGTCTGTTGAAGA-GAGG
40008671 AGGT-TGTTGAAGAGAGG
1 AGGTCTGTTGAAGAGAGG
40008688 A
1 A
40008689 TGGTAAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.28
18 9 0.50
19 4 0.22
ACGTcount: A:0.30, C:0.03, G:0.46, T:0.22
Consensus pattern (18 bp):
AGGTCTGTTGAAGAGAGG
Found at i:40009133 original size:16 final size:16
Alignment explanation
Indices: 40009112--40009177 Score: 96
Period size: 16 Copynumber: 4.1 Consensus size: 16
40009102 GGTTGGGGTG
**
40009112 AATGGAATAGGGCTGT
1 AATGGAATAAAGCTGT
*
40009128 AATGGAATAAAGATGT
1 AATGGAATAAAGCTGT
*
40009144 AATGGAATATAGCTGT
1 AATGGAATAAAGCTGT
40009160 AATGGAATAAAGCTGT
1 AATGGAATAAAGCTGT
40009176 AA
1 AA
40009178 CTAGTAATTC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.42, C:0.05, G:0.27, T:0.26
Consensus pattern (16 bp):
AATGGAATAAAGCTGT
Found at i:40009419 original size:59 final size:59
Alignment explanation
Indices: 40009356--40009502 Score: 217
Period size: 59 Copynumber: 2.5 Consensus size: 59
40009346 TTTTAATAAG
* *
40009356 ATTATTACTAAATATAATTTAATAAAAATAATTATATAATTTAATAATATT-TTAACATA
1 ATTATTATTAAATATAATTTAATAAAAATAA-TATATAATTTAATAACATTCTTAACATA
*
40009415 ATTATTATTAAATATAATTTAAT-AAAATAATATATAATTTAATAACATTCTTAATATA
1 ATTATTATTAAATATAATTTAATAAAAATAATATATAATTTAATAACATTCTTAACATA
* *
40009473 ATTATTTTTAAAATATAAATTAATAAAAAT
1 ATTATTATT-AAATATAATTTAATAAAAAT
40009503 CATAATATGT
Statistics
Matches: 80, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
57 18 0.22
58 22 0.28
59 35 0.44
60 5 0.06
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (59 bp):
ATTATTATTAAATATAATTTAATAAAAATAATATATAATTTAATAACATTCTTAACATA
Found at i:40014028 original size:6 final size:6
Alignment explanation
Indices: 40014017--40014042 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
40014007 TGCGGTGCAT
40014017 ATAGTC ATAGTC ATAGTC ATAGTC AT
1 ATAGTC ATAGTC ATAGTC ATAGTC AT
40014043 GGTACAGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (6 bp):
ATAGTC
Found at i:40016108 original size:46 final size:46
Alignment explanation
Indices: 40016058--40016181 Score: 203
Period size: 46 Copynumber: 2.7 Consensus size: 46
40016048 GTTGAGCATT
* *
40016058 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
*
40016104 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
* *
40016150 CGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
40016182 GGGGCGGGTT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
Found at i:40023277 original size:93 final size:92
Alignment explanation
Indices: 40023119--40023288 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 92
40023109 GGATGGTTGA
* * *
40023119 GCATCCGAACTCGTTGAGTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCATTGAGTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
40023184 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
*
40023211 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAG-TGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
40023276 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
40023289 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 17 0.23
93 56 0.77
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCATTGAGTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:40023288 original size:46 final size:46
Alignment explanation
Indices: 40023123--40023293 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
40023113 GGTTGAGCAT
* *
40023123 CCGAACTCGTTGAG-TGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
40023168 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
*
40023213 ATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
40023261 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
40023294 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 11, Indels: 19
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 17 0.16
46 44 0.42
47 27 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:40027477 original size:46 final size:45
Alignment explanation
Indices: 40027420--40027545 Score: 148
Period size: 46 Copynumber: 2.8 Consensus size: 45
40027410 GGTGGTATGT
* * *
40027420 GAGCCACTGTAAGACTTGTCTGGGACATGCATCGGCCATATTATG-AA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CAT-TGA-GAAA
*
40027467 -AGCCAGTGTAAGACATGTCTGGGACATGCATTGGCATTGAGACAA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGA-AA
* *
40027512 GAGCTAGTGTAAGACATGTTTGGGACATGCATCG
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCG
40027546 ACCTTGGGAT
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
43 1 0.01
44 2 0.03
45 5 0.07
46 61 0.88
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.25
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGAAA
Found at i:40030967 original size:93 final size:93
Alignment explanation
Indices: 40030778--40031039 Score: 309
Period size: 93 Copynumber: 2.8 Consensus size: 93
40030768 TTTGTATGCT
* * * *
40030778 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATAATGAGAGCCAGTGCAAGACCATGTCTA
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTACGATGAT--GAGCCAGTGTAAGACCATGTCTG
*
40030842 GGACAT-GCATCGGCCTCGAGATGTAAGCC
64 GGACATGGCATCAGCCTCGAGATGTAAGCC
* * * *
40030871 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGTGTCATTGTAAGACCATGTCTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTACGATGATGAGCCAGTGTAAGACCATGTCTGGG
** *
40030935 ACATGGCATCAGCCTCGATTTCG-ATAGTC
66 ACATGGCATCAGCCTCGAGAT-GTA-AGCC
*
40030964 AGTGTAAGACCATGTCTGGGACATGGCATCACCTA-GATGGATGAGCCAGTGTAAGACCATGTCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCTACGAT-GATGAGCCAGTGTAAGACCATGTCT
40031028 GGGACATGGCAT
63 GGGACATGGCAT
40031040 TGGCATTACA
Statistics
Matches: 144, Mismatches: 17, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
91 24 0.17
92 14 0.10
93 47 0.33
94 17 0.12
95 8 0.06
96 34 0.24
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.23
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCTACGATGATGAGCCAGTGTAAGACCATGTCTGGG
ACATGGCATCAGCCTCGAGATGTAAGCC
Found at i:40031039 original size:47 final size:45
Alignment explanation
Indices: 40030778--40031035 Score: 233
Period size: 47 Copynumber: 5.6 Consensus size: 45
40030768 TTTGTATGCT
40030778 AGTGTAAGA-CATGTCTGGGACATGCATCAGCCACATA-ATGA-GAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCA--C-C-TAGATGATGAGCC
* * * *
40030824 AGTGCAAGACCATGTCTAGGACATGCATCGGCCTCGAGATG-TAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATC-ACCT--AGATGATGAGCC
** * *
40030871 AGTGTAAGA-CATGTCTGGGACATGCATCGGCTACGA-GATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCACCTA-GATGATGAGCC
* * *
40030915 ATTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATTTCGAT-AGTC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCA-CCTAGA--T-GATGAGCC
40030964 AGTGTAAGACCATGTCTGGGACATGGCATCACCTAGATGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCACCTAGAT-GATGAGCC
40031011 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
40031036 GCATTGGCAT
Statistics
Matches: 177, Mismatches: 19, Indels: 32
0.78 0.08 0.14
Matches are distributed among these distances:
43 2 0.01
44 14 0.08
45 18 0.10
46 40 0.23
47 62 0.35
48 5 0.03
49 33 0.19
50 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACCATGTCTGGGACATGCATCACCTAGATGATGAGCC
Found at i:40038370 original size:37 final size:37
Alignment explanation
Indices: 40038320--40038398 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
40038310 TTATTACGAA
* * *
40038320 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCAG
*
40038357 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCAG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCAG
40038394 GTCTT
1 GTCTT
40038399 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 35 0.95
38 2 0.05
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCAG
Found at i:40038595 original size:47 final size:47
Alignment explanation
Indices: 40038517--40038992 Score: 808
Period size: 47 Copynumber: 10.1 Consensus size: 47
40038507 CCCTTCGGGA
* * * * * * *
40038517 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
***
40038564 CCCGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
40038611 CTTATCACATATATACACTTTCATATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
40038658 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40038705 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40038752 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
40038799 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
40038846 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40038893 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40038942 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40038989 CTTA
1 CTTA
40038993 CTATCATTTC
Statistics
Matches: 406, Mismatches: 21, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 360 0.89
49 46 0.11
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:40042926 original size:49 final size:49
Alignment explanation
Indices: 40042817--40042988 Score: 220
Period size: 49 Copynumber: 3.5 Consensus size: 49
40042807 CTTGTTGTGT
* * * * * *
40042817 GTCAGTGTGAGACCAGTCTGGGACATGGCACCGGCAC-CAATAGATGGGA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGGC-CTCGATATATGGAA
* * * *
40042866 GCCAGTTTAAGACCTGTCTGGGACATGGCATCAGCCTCGATATATGAAA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGGAA
*
40042915 GTCAGTGTAAGATCTGTCTGGGACATGGCATCGGCCTCGATATATGGAA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGGAA
*
40042964 GTCAGTGTAAGATCTGTCTGGGACA
1 GTCAGTGTAAGACCTGTCTGGGACA
40042989 CAACATCGAC
Statistics
Matches: 107, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
48 1 0.01
49 106 0.99
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.23
Consensus pattern (49 bp):
GTCAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGGAA
Found at i:40046508 original size:40 final size:40
Alignment explanation
Indices: 40046452--40046730 Score: 369
Period size: 40 Copynumber: 7.0 Consensus size: 40
40046442 GAATACACAT
* * * **
40046452 CACCAGCATGATTGCTCTTCGGGACCTAGCTTGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
40046492 CACCAGAACGAATGCTCTTCGGGACTTAACCCTGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * * *
40046532 CTCTAGCACGAATGCTCTTTGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * * * *
40046572 CTCTAGCACGAATGCTCTTCGAGAATTAGCACGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
40046612 CACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
40046652 CACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
40046692 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
40046731 TAACTCTCAA
Statistics
Matches: 208, Mismatches: 31, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 208 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:40058369 original size:40 final size:41
Alignment explanation
Indices: 40058267--40058491 Score: 215
Period size: 40 Copynumber: 5.6 Consensus size: 41
40058257 TATTCGAATG
* * * *
40058267 ATATCCGGGCTAAGTCCCAAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGACT
* * ** * *
40058308 ATAACCGGACTAAGATTCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGACT
* * * * *
40058348 ATATCCGGGCTAAGACCCGAAGGTATTTCTGTTAG-CGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGACT
* * *
40058388 GTATCCGGGCTAAAACCCGAAGGCATTTGTGCTAG-CGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGACT
* * * *
40058428 ATATCCGGGTTAAGTCCCGAAGGCATTTATGCTAG-TGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGACT
*
40058468 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
40058492 CTTGTGCAAG
Statistics
Matches: 146, Mismatches: 37, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
39 1 0.01
40 117 0.80
41 28 0.19
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGACT
Found at i:40064206 original size:8 final size:8
Alignment explanation
Indices: 40064177--40064215 Score: 51
Period size: 8 Copynumber: 4.5 Consensus size: 8
40064167 ATGAGTCTAA
40064177 TATTATATT
1 TATTAT-TT
40064186 TATTAGCTTT
1 TATTA--TTT
40064196 TATTATTT
1 TATTATTT
40064204 TATTATTT
1 TATTATTT
40064212 TATT
1 TATT
40064216 TTCCTAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 15 0.54
9 5 0.18
10 7 0.25
11 1 0.04
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (8 bp):
TATTATTT
Found at i:40075596 original size:31 final size:31
Alignment explanation
Indices: 40075546--40075716 Score: 272
Period size: 31 Copynumber: 5.5 Consensus size: 31
40075536 TTTAACGGTT
*
40075546 ACTAGGCCAAAGCCTTTTCATAAATCATATC
1 ACTAGGCCGAAGCCTTTTCATAAATCATATC
* * *
40075577 ATTGGGCCGAAACCTTTTCATAAATCATATC
1 ACTAGGCCGAAGCCTTTTCATAAATCATATC
*
40075608 ACTAGGCCGAAGCCTTTTCATAAATCATTTC
1 ACTAGGCCGAAGCCTTTTCATAAATCATATC
40075639 ACTAGGCCGAAGCCTTTTCATAAATCATATC
1 ACTAGGCCGAAGCCTTTTCATAAATCATATC
*
40075670 ACTAGGCCGAAGCCTTTTCATAAATCATTTC
1 ACTAGGCCGAAGCCTTTTCATAAATCATATC
*
40075701 ACT-GGCCAAAGCCTTT
1 ACTAGGCCGAAGCCTTT
40075717 ACTGTAAACG
Statistics
Matches: 129, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
30 12 0.09
31 117 0.91
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (31 bp):
ACTAGGCCGAAGCCTTTTCATAAATCATATC
Found at i:40075786 original size:42 final size:42
Alignment explanation
Indices: 40075739--40075830 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
40075729 ATGACCATAG
* ** *
40075739 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
* *
40075781 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCGA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
40075823 GCCCATTT
1 GCCCATTT
40075831 AGGGAGACTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:40076021 original size:26 final size:26
Alignment explanation
Indices: 40075976--40076047 Score: 119
Period size: 26 Copynumber: 2.8 Consensus size: 26
40075966 CTCCTTTAAT
**
40075976 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
40076001 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
40076027 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
40076048 GCACTTCCTC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
25 10 0.23
26 34 0.77
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:40076162 original size:20 final size:20
Alignment explanation
Indices: 40076095--40076147 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
40076085 ATTTATGAAT
40076095 ATATCATGTGCATTTCATAC
1 ATATCATGTGCATTTCATAC
*
40076115 ATATCATGTGCATTTTATAC
1 ATATCATGTGCATTTCATAC
40076135 ATATCATGTGCAT
1 ATATCATGTGCAT
40076148 AGCATATCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.42
Consensus pattern (20 bp):
ATATCATGTGCATTTCATAC
Found at i:40076933 original size:27 final size:27
Alignment explanation
Indices: 40076872--40076935 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
40076862 GGCGTATTCA
40076872 TCATTTTACCATACAAGGGTATTACGG
1 TCATTTTACCATACAAGGGTATTACGG
* * *
40076899 TCACTTTACCCTACAGGGGCT-TTACGG
1 TCATTTTACCATACAAGGG-TATTACGG
*
40076926 TCTTTTTACC
1 TCATTTTACC
40076936 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (27 bp):
TCATTTTACCATACAAGGGTATTACGG
Found at i:40077019 original size:27 final size:27
Alignment explanation
Indices: 40076989--40077096 Score: 94
Period size: 27 Copynumber: 3.9 Consensus size: 27
40076979 GTGAATCTAC
40076989 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
* *
40077016 AAACCGATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* *
40077042 AGAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* * **
40077072 AAATCAGGGGTATTTTGGTAATTTT
1 AAACCAAGGGTATTTCAGTAATTTT
40077097 ACAAATTGAG
Statistics
Matches: 66, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.02
27 40 0.61
28 7 0.11
29 17 0.26
30 1 0.02
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:40077102 original size:27 final size:27
Alignment explanation
Indices: 40077052--40077202 Score: 191
Period size: 27 Copynumber: 5.6 Consensus size: 27
40077042 AGAAAGTCAA
**
40077052 GGGTATTTCT-GTAATTTTGTAAA-TCAG
1 GGGTATTT-TGGTAATTTTACAAACT-AG
*
40077079 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
40077105 AGGGTATTTCGGTAATTTCACAAACTAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
* *
40077133 TGGTATTTCGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
40077160 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
40077187 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
40077203 CTATCCTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
26 2 0.02
27 107 0.96
28 2 0.02
ACGTcount: A:0.28, C:0.08, G:0.23, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:40077138 original size:54 final size:54
Alignment explanation
Indices: 40077077--40077235 Score: 205
Period size: 54 Copynumber: 2.9 Consensus size: 54
40077067 TTTGTAAATC
*
40077077 AGGGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCGGTAATTTCACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTCGGTAATTTCACAAACT
* * * *
40077131 AGTGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTCACAAACT
* ** *
40077185 AGGGGTATTTTGGTAATTCTATCCTAC-AGGGGTATTTCAGTAATTTCACAA
1 AGGGGTATTTTGGTAATTTTA-CAAACTAGGGGTATTTCGGTAATTTCACAA
40077236 TCGAGGGTAA
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
54 85 0.94
55 5 0.06
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (54 bp):
AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTCACAAACT
Found at i:40077169 original size:81 final size:81
Alignment explanation
Indices: 40077053--40077202 Score: 223
Period size: 81 Copynumber: 1.9 Consensus size: 81
40077043 GAAAGTCAAG
* ** *
40077053 GGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCGG
1 GGTATTTCGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTCGG
40077117 TAATTTCACAAACTAGT
65 TAATTTCACAAACTAGT
*
40077134 GGTATTTCGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGG
1 GGTATTTCGGTAATTTTACAAATC-AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGG
40077198 TAATT
65 TAATT
40077203 CTATCCTACA
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
80 1 0.02
81 59 0.95
82 2 0.03
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.42
Consensus pattern (81 bp):
GGTATTTCGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGT
AATTTCACAAACTAGT
Found at i:40077219 original size:81 final size:81
Alignment explanation
Indices: 40077052--40077235 Score: 214
Period size: 81 Copynumber: 2.3 Consensus size: 81
40077042 AGAAAGTCAA
* ** *
40077052 GGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGG
1 GGGTATTTCAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGG
40077117 TAATTTCACAAACTAG
66 TAATTTCACAAACTAG
* * *
40077133 TGGTATTTCGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTT
1 GGGTATTTCAGTAATTTTACAAATC-AGGGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTC
**
40077196 GGTAA-TTCTATCCTAC-AG
64 GGTAATTTC-A-CAAACTAG
*
40077214 GGGTATTTCAGTAATTTCACAA
1 GGGTATTTCAGTAATTTTACAA
40077236 TCGAGGGTAA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
80 4 0.05
81 79 0.90
82 5 0.06
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.40
Consensus pattern (81 bp):
GGGTATTTCAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGG
TAATTTCACAAACTAG
Found at i:40077242 original size:27 final size:27
Alignment explanation
Indices: 40077073--40077242 Score: 136
Period size: 27 Copynumber: 6.3 Consensus size: 27
40077063 TAATTTTGTA
* *
40077073 AATC-AGGGGTATTTTGGTAATTTTAC
1 AATCTAGGGGTATTTCGGTAATTTCAC
40077099 AAAT-T-GAGGGTATTTCGGTAATTTCAC
1 -AATCTAG-GGGTATTTCGGTAATTTCAC
* * *
40077126 AAACTAGTGGTATTTCGGTAATTTTAC
1 AATCTAGGGGTATTTCGGTAATTTCAC
* * *
40077153 AAACTAGGGGTATTTTGGTAATTTTAC
1 AATCTAGGGGTATTTCGGTAATTTCAC
* *
40077180 AAACTAGGGGTATTTTGGTAA-TT--C
1 AATCTAGGGGTATTTCGGTAATTTCAC
* *
40077204 TATCCTACAGGGGTATTTCAGTAATTTCAC
1 AAT-CT--AGGGGTATTTCGGTAATTTCAC
*
40077234 AATCGAGGG
1 AATCTAGGG
40077243 TAAAATAGTA
Statistics
Matches: 120, Mismatches: 13, Indels: 20
0.78 0.08 0.13
Matches are distributed among these distances:
24 2 0.02
25 2 0.02
26 5 0.04
27 104 0.87
28 3 0.03
29 1 0.01
30 3 0.03
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38
Consensus pattern (27 bp):
AATCTAGGGGTATTTCGGTAATTTCAC
Found at i:40077268 original size:27 final size:27
Alignment explanation
Indices: 40077234--40077431 Score: 254
Period size: 27 Copynumber: 7.3 Consensus size: 27
40077224 GTAATTTCAC
* * *
40077234 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
40077261 AA-CTGAGGGTAAAATGGTAATTTTATA
1 AATC-GAGGGTAAAATGGTAATTCTATA
*
40077288 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
40077315 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * * *
40077342 AATTGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
40077369 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * *
40077396 AATTGAGGGTAAAATAGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTCTATA
40077423 AATCGAGGG
1 AATCGAGGG
40077432 CATTTCAGTA
Statistics
Matches: 150, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 148 0.99
28 1 0.01
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTATA
Done.