Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 52 of 250
Found at i:16645536 original size:49 final size:49
Alignment explanation
Indices: 16645478--16645667 Score: 227
Period size: 49 Copynumber: 3.8 Consensus size: 49
16645468 TAGCCAAAGC
* *
16645478 TATCTGGTACGCATAATAGCCTGCACTTAGTACTACACATGAGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGAGACCAAT
* ** * *
16645527 AATCTGGTACATGTAGTAGCCTGCACTTAGTAATACACATGTGATCACAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGAGA-C-CAAT
* * * *
16645578 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGAGACCAAT
* * * *
16645627 TATCCGATACACGTAGTAACCTGCACTTAGTACTACACATG
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATG
16645668 TGAGCTCACA
Statistics
Matches: 118, Mismatches: 21, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
49 76 0.64
50 2 0.02
51 40 0.34
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGAGACCAAT
Found at i:16645605 original size:100 final size:101
Alignment explanation
Indices: 16645483--16645679 Score: 306
Period size: 100 Copynumber: 2.0 Consensus size: 101
16645473 AAAGCTATCT
* * * *
16645483 GGTACGCATAATAGCCTGCACTTAGTACTACACATGAGACCAATAATCTGGTACATGTAGTAGCC
1 GGTACGCATAATAGCCTGCACTTAGTACTACACATGAGACCAATAATCCGATACACGTAGTAACC
16645548 TGCACTTAGTAATACACATGTGA-TCACAATTTTCG
66 TGCACTTAGTAATACACATGTGACTCACAATTTTCG
* * *
16645583 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGATACACGTAGTAACC
1 GGTACGCATAATAGCCTGCACTTAGTACTACACATGAGACCAATAATCCGATACACGTAGTAACC
*
16645648 TGCACTTAGTACTACACATGTGAGCTCACAAT
66 TGCACTTAGTAATACACATGTGA-CTCACAAT
16645680 AGTTTATTTG
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
100 80 0.92
102 7 0.08
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.26
Consensus pattern (101 bp):
GGTACGCATAATAGCCTGCACTTAGTACTACACATGAGACCAATAATCCGATACACGTAGTAACC
TGCACTTAGTAATACACATGTGACTCACAATTTTCG
Found at i:16647918 original size:11 final size:11
Alignment explanation
Indices: 16647902--16647926 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
16647892 ATTTTGTCCC
16647902 TTTTTGGCTCA
1 TTTTTGGCTCA
16647913 TTTTTGGCTCA
1 TTTTTGGCTCA
16647924 TTT
1 TTT
16647927 CCCTCTCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.16, G:0.16, T:0.60
Consensus pattern (11 bp):
TTTTTGGCTCA
Found at i:16650855 original size:46 final size:46
Alignment explanation
Indices: 16650805--16650933 Score: 170
Period size: 46 Copynumber: 2.8 Consensus size: 46
16650795 TGGCTGAGCA
* *
16650805 TCCGAGCTCGTTGAGTTGAGTCCTAATTCACTTATGGATGCGAATG
1 TCCGAGCTCGTTGAGTTGAGTCCTAGTTCACTTATGGATGCGAACG
* *
16650851 TCCGAACTCGTTGAGTTGAGT-CTGAGTTCACCTATGGATGCGAACG
1 TCCGAGCTCGTTGAGTTGAGTCCT-AGTTCACTTATGGATGCGAACG
* * * *
16650897 CCCAAGCTCTTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCTAGTTCACTTATGG
16650934 GTGGGTTACA
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
45 2 0.03
46 68 0.96
47 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCTAGTTCACTTATGGATGCGAACG
Found at i:16654302 original size:37 final size:37
Alignment explanation
Indices: 16654243--16654351 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
16654233 AGCTCAGACG
* *
16654243 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
16654280 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
16654317 TAATCTCCACACGTGGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
16654352 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:16654621 original size:48 final size:48
Alignment explanation
Indices: 16654497--16654681 Score: 309
Period size: 48 Copynumber: 3.8 Consensus size: 48
16654487 GCACATTGCC
*
16654497 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
16654547 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
16654595 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
16654643 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
16654682 TGCATGTTCA
Statistics
Matches: 128, Mismatches: 5, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
48 84 0.66
49 2 0.02
50 42 0.33
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:16654686 original size:98 final size:97
Alignment explanation
Indices: 16654497--16654680 Score: 318
Period size: 98 Copynumber: 1.9 Consensus size: 97
16654487 GCACATTGCC
*
16654497 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA-ATACATATTTCACATT
16654562 GACCATTCGGCTTTACCACATATGCATATCTCA
65 GACCATTCGGCTTTACCACATATGCATATCTCA
*
16654595 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC-ATACATATTTCACATT-
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTG
16654658 AGCCATTCGGCTTTACCACATAT
66 A-CCATTCGGCTTTACCACATAT
16654681 ATGCATGTTC
Statistics
Matches: 83, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
95 1 0.01
96 36 0.43
98 46 0.55
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (97 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTG
ACCATTCGGCTTTACCACATATGCATATCTCA
Found at i:16654787 original size:47 final size:47
Alignment explanation
Indices: 16654651--16654797 Score: 186
Period size: 47 Copynumber: 3.1 Consensus size: 47
16654641 CATACATATT
* * * *
16654651 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCATTATCACATATATGCATGTTCACATTCA
* * * *
16654698 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCATTATCACATATATGCATGTTCACATTCA
* * **
16654745 TCACATTGGCCATTCGGCATTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCATTATCACATATATGCATGTTCACATTCA
16654792 TCACAT
1 TCACAT
16654798 AAAATCCTAA
Statistics
Matches: 85, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 85 1.00
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCATTATCACATATATGCATGTTCACATTCA
Found at i:16668126 original size:28 final size:28
Alignment explanation
Indices: 16668094--16668216 Score: 165
Period size: 28 Copynumber: 4.4 Consensus size: 28
16668084 TCGATATTTT
*
16668094 GCACACTAAGTGCCATACCCAATGTCTC
1 GCACACTAAGTGCCATACTCAATGTCTC
** *
16668122 GCACACTAAGTGTTATATTCAATGTCTC
1 GCACACTAAGTGCCATACTCAATGTCTC
*
16668150 GCACACTAAGTGCCATGCTCAATGTCTC
1 GCACACTAAGTGCCATACTCAATGTCTC
* * * *
16668178 ACACACTAAGTGCCACAATCAATGTATC
1 GCACACTAAGTGCCATACTCAATGTCTC
16668206 GCACACTAAGT
1 GCACACTAAGT
16668217 TCCGCACATA
Statistics
Matches: 81, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 81 1.00
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (28 bp):
GCACACTAAGTGCCATACTCAATGTCTC
Found at i:16668269 original size:40 final size:40
Alignment explanation
Indices: 16668225--16668306 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 40
16668215 GTTCCGCACA
* * *
16668225 TAGCCGAAACTATCTCAAATCGCACACTACGTGCCAAATT
1 TAGCCGAAACTATATCAAACCGCACACTAAGTGCCAAATT
* ** *
16668265 TAGCCGAAGCTATATTGAACCGCACACTAAGTGCCACATT
1 TAGCCGAAACTATATCAAACCGCACACTAAGTGCCAAATT
16668305 TA
1 TA
16668307 ACTGATATGT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (40 bp):
TAGCCGAAACTATATCAAACCGCACACTAAGTGCCAAATT
Found at i:16680306 original size:44 final size:44
Alignment explanation
Indices: 16680241--16680328 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
16680231 ATTAAATGTA
* *
16680241 TCGCATCCATAATAAATTCGGACCAACTCAACGAGCTTGGATGC
1 TCGCATCCATAATAAACTCGGACCAACTCAACGAGCTTGAATGC
* *
16680285 TCGCATCCATAATGAACTCGGACCAACTCAACTAGCTTGAATGC
1 TCGCATCCATAATAAACTCGGACCAACTCAACGAGCTTGAATGC
16680329 CTCATACATA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (44 bp):
TCGCATCCATAATAAACTCGGACCAACTCAACGAGCTTGAATGC
Found at i:16686081 original size:39 final size:39
Alignment explanation
Indices: 16685982--16686164 Score: 174
Period size: 40 Copynumber: 4.6 Consensus size: 39
16685972 GAATGATGTC
* * * *
16685982 CGGGCTAAGTCCCGAAGGC-TTCGTGCTAAGTGACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-ATT
** *
16686022 CGAACTAAGAT-CCAAAGGCATTTGTGCGAGTTACTAATT
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATT
* * *
16686061 CCGGGCTAAG-CCCGAAGGCATTGGTACGAGTCACTAAATT
1 -CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AATT
* *
16686101 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATT
*
16686141 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
16686165 AACGAGTAGC
Statistics
Matches: 116, Mismatches: 20, Indels: 14
0.77 0.13 0.09
Matches are distributed among these distances:
39 31 0.27
40 78 0.67
41 7 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
Found at i:16686186 original size:79 final size:79
Alignment explanation
Indices: 16686036--16686187 Score: 202
Period size: 79 Copynumber: 1.9 Consensus size: 79
16686026 CTAAGATCCA
* *
16686036 AAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTACGAGTCACTAAATT
1 AAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGCCCGAAGGCATTGGAACGAGTCACTAAATT
*
16686101 CGGGTTAAGTCCCG
66 CCGGTTAAGTCCCG
* * *
16686115 AAGGCATTTGTGCGAGTTACTATAAT-CGGGCTATGTCCCGAAGGCATTTGAACGAGT-AGCTAT
1 AAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAG-CCCGAAGGCATTGGAACGAGTCA-CTAA
16686178 A-TCCGGTTAA
63 ATTCCGGTTAA
16686188 ATTTCGAAGG
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 39 0.61
80 25 0.39
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
AAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGCCCGAAGGCATTGGAACGAGTCACTAAATT
CCGGTTAAGTCCCG
Found at i:16688353 original size:28 final size:28
Alignment explanation
Indices: 16688287--16688414 Score: 175
Period size: 28 Copynumber: 4.5 Consensus size: 28
16688277 CATGAGATTG
* * **
16688287 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
16688316 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
16688344 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
16688373 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
16688401 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
16688415 GACTTACTAT
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 45 0.51
29 44 0.49
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:16688376 original size:57 final size:57
Alignment explanation
Indices: 16688287--16688414 Score: 186
Period size: 57 Copynumber: 2.2 Consensus size: 57
16688277 CATGAGATTG
*
16688287 GCACTAAGTGTGCGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
* * * *
16688344 GCACTAAGTGTGCGAGTTTGATTATGTA-AGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAAT-TGCATAGCACTAAGTGTGCAAGTTTGATTATATA
*
16688401 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
16688415 GACTTACTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
Found at i:16696402 original size:28 final size:28
Alignment explanation
Indices: 16696336--16696463 Score: 175
Period size: 28 Copynumber: 4.5 Consensus size: 28
16696326 CATGAGATTG
* * **
16696336 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
16696365 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
16696393 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
16696422 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
16696450 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
16696464 GACTTACTAT
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 45 0.51
29 44 0.49
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:16696425 original size:57 final size:57
Alignment explanation
Indices: 16696336--16696463 Score: 186
Period size: 57 Copynumber: 2.2 Consensus size: 57
16696326 CATGAGATTG
*
16696336 GCACTAAGTGTGCGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
* * * *
16696393 GCACTAAGTGTGCGAGTTTGATTATGTA-AGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAAT-TGCATAGCACTAAGTGTGCAAGTTTGATTATATA
*
16696450 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
16696464 GACTTACTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
Found at i:16697667 original size:40 final size:40
Alignment explanation
Indices: 16697584--16697845 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
16697574 TTGAATGCTG
* * * * * *
16697584 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
16697624 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
16697664 TCCGGGTTAAGT-CCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
16697703 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
16697743 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
16697783 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
16697822 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
16697846 TGAACGAGGA
Statistics
Matches: 198, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 70 0.35
40 120 0.61
41 8 0.04
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:16697720 original size:79 final size:80
Alignment explanation
Indices: 16697584--16697845 Score: 307
Period size: 79 Copynumber: 3.3 Consensus size: 80
16697574 TTGAATGCTG
* * * * * * *
16697584 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCCT
*
16697647 TTGTGCGAGATACTAAA
64 TTGTGCGAGTTACTAAA
* *
16697664 TCCGGGTTAAGT-CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
16697728 GTGCGAGTTATTAAA
66 GTGCGAGTTACTAAA
* * * *
16697743 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
16697807 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* * *
16697822 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
16697846 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
78 1 0.01
79 94 0.60
80 61 0.39
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:16697815 original size:119 final size:120
Alignment explanation
Indices: 16697584--16697845 Score: 316
Period size: 119 Copynumber: 2.2 Consensus size: 120
16697574 TTGAATGCTG
* * **
16697584 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCAGT
* *
16697648 TGTGCGAGATACTAAATCCGGGTTAAGTCCGAAGGCATTCGTGCGAGTTATTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCGAAGGCATTCGTGCGAGTTACTAAA
* * * * *
16697703 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAG
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGAT-CCGAAGGCAG
* ** * *
16697766 TCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
65 TCGTGCGAGATACTAAATCCGGGTTAAGT-CCGAAGGCATTCGTGCGAGTTACTAAA
* *
16697822 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
16697846 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
118 1 0.01
119 103 0.85
120 17 0.14
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCAGT
CGTGCGAGATACTAAATCCGGGTTAAGTCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:16697865 original size:79 final size:80
Alignment explanation
Indices: 16697623--16697880 Score: 229
Period size: 79 Copynumber: 3.3 Consensus size: 80
16697613 AAGTGAATAT
* * * * * * *
16697623 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGT-CCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAG
** * *
16697686 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
16697702 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
** ** *
16697767 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * * *
16697782 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
* *
16697846 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
16697861 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
16697881 TACGTGATTT
Statistics
Matches: 153, Mismatches: 23, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
78 15 0.10
79 92 0.60
80 46 0.30
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
CGAACGAGGAGCTAA
Found at i:16697865 original size:119 final size:119
Alignment explanation
Indices: 16697585--16697880 Score: 296
Period size: 119 Copynumber: 2.5 Consensus size: 119
16697575 TGAATGCTGT
* ** * * * **
16697585 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGAT-CCGAAGGCCTT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTATATCCGGGTTAAG-TCCCGAAGGCAGT
* * *
16697648 TGTGCGAGATACTAAATCCGGGTTAAGTCCGAAGGCATTCGTGCGAGTTATTAAAT
64 CGTGCGAGATACTAAATCCGGGTTAAGTCCGAAGGCATTCGTGCGAGTTACTAAAA
* ** * * *
16697704 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGTCG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTATATCCGGGTTAAGTCCCGAAGGCAGTCG
* ** * *
16697769 TGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAA
66 TGCGAGATACTAAATCCGGGTTAAGT-CCGAAGGCATTCGTGCGAGTTACTAAAA
* * *
16697823 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTATATCCGGGTTAAGTCCCGAAGG
16697881 TACGTGATTT
Statistics
Matches: 147, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
118 17 0.12
119 113 0.77
120 17 0.12
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTATATCCGGGTTAAGTCCCGAAGGCAGTCG
TGCGAGATACTAAATCCGGGTTAAGTCCGAAGGCATTCGTGCGAGTTACTAAAA
Found at i:16700215 original size:40 final size:40
Alignment explanation
Indices: 16700132--16700393 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
16700122 TTGAATGCTG
* * * * * *
16700132 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
16700172 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
16700212 TCCGGGTTAAGT-CCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
16700251 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
16700291 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
16700331 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
16700370 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
16700394 TGAACGAGGA
Statistics
Matches: 198, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 70 0.35
40 120 0.61
41 8 0.04
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:16700268 original size:79 final size:80
Alignment explanation
Indices: 16700132--16700393 Score: 307
Period size: 79 Copynumber: 3.3 Consensus size: 80
16700122 TTGAATGCTG
* * * * * * *
16700132 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCCT
*
16700195 TTGTGCGAGATACTAAA
64 TTGTGCGAGTTACTAAA
* *
16700212 TCCGGGTTAAGT-CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
16700276 GTGCGAGTTATTAAA
66 GTGCGAGTTACTAAA
* * * *
16700291 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
16700355 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* * *
16700370 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
16700394 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
78 1 0.01
79 94 0.60
80 61 0.39
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:16700363 original size:119 final size:120
Alignment explanation
Indices: 16700132--16700393 Score: 316
Period size: 119 Copynumber: 2.2 Consensus size: 120
16700122 TTGAATGCTG
* * **
16700132 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCAGT
* *
16700196 TGTGCGAGATACTAAATCCGGGTTAAGTCCGAAGGCATTCGTGCGAGTTATTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCGAAGGCATTCGTGCGAGTTACTAAA
* * * * *
16700251 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAG
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGAT-CCGAAGGCAG
* ** * *
16700314 TCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
65 TCGTGCGAGATACTAAATCCGGGTTAAGT-CCGAAGGCATTCGTGCGAGTTACTAAA
* *
16700370 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
16700394 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
118 1 0.01
119 103 0.85
120 17 0.14
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCAGT
CGTGCGAGATACTAAATCCGGGTTAAGTCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:16700413 original size:79 final size:80
Alignment explanation
Indices: 16700171--16700428 Score: 229
Period size: 79 Copynumber: 3.3 Consensus size: 80
16700161 AAGTGAATAT
* * * * * * *
16700171 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGT-CCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAG
** * *
16700234 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
16700250 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
** ** *
16700315 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * * *
16700330 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
* *
16700394 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
16700409 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
16700429 TACGTGATTT
Statistics
Matches: 153, Mismatches: 23, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
78 15 0.10
79 92 0.60
80 46 0.30
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
CGAACGAGGAGCTAA
Found at i:16700413 original size:119 final size:119
Alignment explanation
Indices: 16700133--16700428 Score: 296
Period size: 119 Copynumber: 2.5 Consensus size: 119
16700123 TGAATGCTGT
* ** * * * **
16700133 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGAT-CCGAAGGCCTT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTATATCCGGGTTAAG-TCCCGAAGGCAGT
* * *
16700196 TGTGCGAGATACTAAATCCGGGTTAAGTCCGAAGGCATTCGTGCGAGTTATTAAAT
64 CGTGCGAGATACTAAATCCGGGTTAAGTCCGAAGGCATTCGTGCGAGTTACTAAAA
* ** * * *
16700252 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGTCG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTATATCCGGGTTAAGTCCCGAAGGCAGTCG
* ** * *
16700317 TGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAA
66 TGCGAGATACTAAATCCGGGTTAAGT-CCGAAGGCATTCGTGCGAGTTACTAAAA
* * *
16700371 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTATATCCGGGTTAAGTCCCGAAGG
16700429 TACGTGATTT
Statistics
Matches: 147, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
118 17 0.12
119 113 0.77
120 17 0.12
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTATATCCGGGTTAAGTCCCGAAGGCAGTCG
TGCGAGATACTAAATCCGGGTTAAGTCCGAAGGCATTCGTGCGAGTTACTAAAA
Found at i:16714395 original size:80 final size:81
Alignment explanation
Indices: 16714233--16714421 Score: 260
Period size: 80 Copynumber: 2.4 Consensus size: 81
16714223 TTTTATACTA
* *
16714233 CACAAATGCCTTCGGGATCATAACCCGGATTTAACAACTCGCACGACTGCCTTCGGACTTTACCC
1 CACAAATGCCTTCGGGATCTTAACCCGGATTTAACAACTCGCACGACTGCCTTCGGACTTAACCC
16714298 GGATTTTAATAACTCG
66 GGATTTTAATAACTCG
* *
16714314 CACGAATGCCTTCGGGA-CTTAACCCGGATTTAATAACTCGCACGA-TGCCTTCGGGACTTAACC
1 CACAAATGCCTTCGGGATCTTAACCCGGATTTAACAACTCGCACGACTGCCTTC-GGACTTAACC
* *
16714377 CGGA-TTTAGTATCTTCG
65 CGGATTTTAATAAC-TCG
* *
16714394 CACAAAGGCCTTC-GGATCTTAATCCGGA
1 CACAAATGCCTTCGGGATCTTAACCCGGA
16714422 ATAATTCACT
Statistics
Matches: 96, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
79 17 0.18
80 63 0.66
81 16 0.17
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.26
Consensus pattern (81 bp):
CACAAATGCCTTCGGGATCTTAACCCGGATTTAACAACTCGCACGACTGCCTTCGGACTTAACCC
GGATTTTAATAACTCG
Found at i:16714396 original size:40 final size:39
Alignment explanation
Indices: 16714238--16714384 Score: 224
Period size: 40 Copynumber: 3.7 Consensus size: 39
16714228 TACTACACAA
* *
16714238 ATGCCTTCGGGATCATAACCCGGATTTAACAACTCGCACG
1 ATGCCTTCGGGA-CTTAACCCGGATTTAATAACTCGCACG
*
16714278 ACTGCCTTC-GGACTTTACCCGGATTTTAATAACTCGCACG
1 A-TGCCTTCGGGACTTAACCCGGA-TTTAATAACTCGCACG
16714318 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 -ATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
16714358 ATGCCTTCGGGACTTAACCCGGATTTA
1 ATGCCTTCGGGACTTAACCCGGATTTA
16714385 GTATCTTCGC
Statistics
Matches: 99, Mismatches: 4, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
39 36 0.36
40 42 0.42
41 21 0.21
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.27
Consensus pattern (39 bp):
ATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:16714421 original size:41 final size:39
Alignment explanation
Indices: 16714237--16714421 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 39
16714227 ATACTACACA
* *
16714237 AATGCCTTCGGGATCATAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAACTCGCAC
* *
16714277 GACTGCCTTC-GGACTTTACCCGGATTTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGA-TTTAATAACTCGCAC
16714317 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* * *
16714357 GATGCCTTCGGGACTTAACCCGGATTTAGTATCTTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
* *
16714397 AAAGGCCTTC-GGATCTTAATCCGGA
1 -AATGCCTTCGGGA-CTTAACCCGGA
16714422 ATAATTCACT
Statistics
Matches: 127, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
39 39 0.31
40 50 0.39
41 38 0.30
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
Found at i:16745311 original size:46 final size:46
Alignment explanation
Indices: 16745147--16745317 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
16745137 GGTTGAGCAT
* *
16745147 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-ATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
16745192 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
*
16745237 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
16745285 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
16745318 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 5 0.05
44 2 0.02
45 29 0.27
46 31 0.29
47 28 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:16745577 original size:19 final size:20
Alignment explanation
Indices: 16745540--16745577 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
16745530 ATAAGGTGGT
16745540 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
16745560 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
16745578 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:16751290 original size:30 final size:29
Alignment explanation
Indices: 16751241--16751301 Score: 95
Period size: 30 Copynumber: 2.1 Consensus size: 29
16751231 CAAGTAGCCG
16751241 AAGCTAGCTAAATCACACACTTAGTGCCA
1 AAGCTAGCTAAATCACACACTTAGTGCCA
* *
16751270 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAG-CTAAATCACACACTTAGTGCCA
16751300 AA
1 AA
16751302 ACTTTTGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 7 0.24
30 22 0.76
ACGTcount: A:0.38, C:0.25, G:0.15, T:0.23
Consensus pattern (29 bp):
AAGCTAGCTAAATCACACACTTAGTGCCA
Found at i:16753532 original size:20 final size:18
Alignment explanation
Indices: 16753479--16753519 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
16753469 GTTGCACATT
16753479 TACACTACATATATTTTA
1 TACACTACATATATTTTA
16753497 TACACTACATATATTTTA
1 TACACTACATATATTTTA
16753515 TACAC
1 TACAC
16753520 ATTAATCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.39, C:0.20, G:0.00, T:0.41
Consensus pattern (18 bp):
TACACTACATATATTTTA
Found at i:16756995 original size:48 final size:48
Alignment explanation
Indices: 16756924--16757063 Score: 217
Period size: 48 Copynumber: 2.9 Consensus size: 48
16756914 CATTGGGGAA
* *
16756924 TACATTGATTTGGCTTCGGGCCATGATATTGGTACTTCGGGTGTGAGT
1 TACATTGATTTGGCTTCGGGCCATGATATCGGTACTTCGGGTGCGAGT
* *
16756972 TACATTAATTTGGCTTTGGGCCATGATATCGGTACTTCGGGTGCGAGT
1 TACATTGATTTGGCTTCGGGCCATGATATCGGTACTTCGGGTGCGAGT
* * *
16757020 TACATTGATTTGGCTTCGAGCCATGATATCGGCACTACGGGTGC
1 TACATTGATTTGGCTTCGGGCCATGATATCGGTACTTCGGGTGC
16757064 AAGACACCAA
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 83 1.00
ACGTcount: A:0.19, C:0.18, G:0.29, T:0.34
Consensus pattern (48 bp):
TACATTGATTTGGCTTCGGGCCATGATATCGGTACTTCGGGTGCGAGT
Found at i:16765450 original size:47 final size:47
Alignment explanation
Indices: 16765396--16765589 Score: 298
Period size: 47 Copynumber: 4.1 Consensus size: 47
16765386 TTAGGATTTT
** * *
16765396 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
16765443 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
16765490 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
16765537 ATGTGATGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
16765584 ATGTGA
1 ATGTGA
16765590 AATATGTATG
Statistics
Matches: 135, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 135 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:16765496 original size:22 final size:22
Alignment explanation
Indices: 16765425--16765543 Score: 59
Period size: 22 Copynumber: 5.1 Consensus size: 22
16765415 GTATATATGA
16765425 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
16765447 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
16765472 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* *
16765494 GATGAATGTG-AGCAT-G-CATATGTGT
1 GAT-AA-G-GCCGAATGGCCA-A--TGT
16765519 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
16765541 GAT
1 GAT
16765544 GAATATGAAC
Statistics
Matches: 71, Mismatches: 10, Indels: 32
0.63 0.09 0.28
Matches are distributed among these distances:
22 20 0.28
23 17 0.24
24 17 0.24
25 17 0.24
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:16765900 original size:37 final size:37
Alignment explanation
Indices: 16765792--16765900 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
16765782 GGAAATATAT
*
16765792 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
16765829 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
16765866 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
16765901 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:16767490 original size:40 final size:40
Alignment explanation
Indices: 16767167--16767478 Score: 525
Period size: 40 Copynumber: 7.8 Consensus size: 40
16767157 GAGAATTGAG
16767167 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
16767207 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
16767247 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
16767287 AGTTATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
16767327 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
16767367 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
16767407 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
16767447 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
16767479 ATCATGCTGG
Statistics
Matches: 257, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 257 1.00
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:16771559 original size:47 final size:47
Alignment explanation
Indices: 16771505--16771743 Score: 356
Period size: 47 Copynumber: 5.1 Consensus size: 47
16771495 TTAGGATTTT
** * *
16771505 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
16771552 ATGTGATGAATGTGAACATGCATATATGTGAAAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
16771599 ATGTGATGAATGTGAACATGCATATATGTGA-AAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
16771645 ATGTGATGAATGTGAGCATGCATATGTGTGATAA-GCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
16771691 ATGTGATGAATATGAACATACATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
16771738 ATGTGA
1 ATGTGA
16771744 AAATGTATGA
Statistics
Matches: 177, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
46 85 0.48
47 92 0.52
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:16771580 original size:25 final size:25
Alignment explanation
Indices: 16771552--16771629 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
16771542 CGAATGGCCA
16771552 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
* * * *
16771577 ATGTGA-AAAGGCCG-A-ATGGC-CA-
1 ATGTGATGAATG-TGAACAT-GCATAT
16771599 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
16771624 ATGTGA
1 ATGTGA
16771630 AAGGCCGAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 14
0.63 0.13 0.23
Matches are distributed among these distances:
22 7 0.18
23 9 0.24
24 9 0.24
25 13 0.34
ACGTcount: A:0.36, C:0.10, G:0.27, T:0.27
Consensus pattern (25 bp):
ATGTGATGAATGTGAACATGCATAT
Found at i:16771657 original size:93 final size:92
Alignment explanation
Indices: 16771505--16771743 Score: 345
Period size: 93 Copynumber: 2.6 Consensus size: 92
16771495 TTAGGATTTT
** * *
16771505 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGTGA-AAGGCCGAATGGCCAATGTGATGAATGTGAACA
16771570 TGCATATATGTGAAAAGGCCGAATGGCCA
65 TGCATATATGTGAAAA-GCCGAATGGCCA
*
16771599 ATGTGATGAATGTGAACATGCATATATGTGAAAGGCCGAATGGCCAATGTGATGAATGTGAGCAT
1 ATGTGATGAATGTGAACATGCATATATGTGAAAGGCCGAATGGCCAATGTGATGAATGTGAACAT
* *
16771664 GCATATGTGTGATAAGCCGAATGGCCA
66 GCATATATGTGAAAAGCCGAATGGCCA
* * *
16771691 ATGTGATGAATATGAACATACATATATGTGGTAAA-GCCGAATGGCTAATGTGA
1 ATGTGATGAATGTGAACATGCATATATGT-G-AAAGGCCGAATGGCCAATGTGA
16771744 AAATGTATGA
Statistics
Matches: 133, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
92 39 0.29
93 64 0.48
94 30 0.23
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (92 bp):
ATGTGATGAATGTGAACATGCATATATGTGAAAGGCCGAATGGCCAATGTGATGAATGTGAACAT
GCATATATGTGAAAAGCCGAATGGCCA
Found at i:16771823 original size:51 final size:52
Alignment explanation
Indices: 16771712--16771823 Score: 140
Period size: 51 Copynumber: 2.2 Consensus size: 52
16771702 ATGAACATAC
* *
16771712 ATATATGTGGTAAAGCCGAATGGCTAATGTGAAAATGTATGAGATATGTATGT
1 ATAT-TGTGGTAAAGCCGAATGGCTAATGTGAAAATGTATGAGAGATGTACGT
* * *
16771765 ATA-TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA-G-GCGATGTGCGT
1 ATATTGTGGTAAAGCCGAATGGCTAATGTGAAA-ATGTATGAGAGATGTACGT
16771815 ATATTGTGG
1 ATATTGTGG
16771824 CCGAACGACC
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
50 10 0.19
51 34 0.65
52 5 0.10
53 3 0.06
ACGTcount: A:0.31, C:0.07, G:0.30, T:0.31
Consensus pattern (52 bp):
ATATTGTGGTAAAGCCGAATGGCTAATGTGAAAATGTATGAGAGATGTACGT
Found at i:16772094 original size:37 final size:37
Alignment explanation
Indices: 16771949--16772093 Score: 254
Period size: 37 Copynumber: 3.9 Consensus size: 37
16771939 GGAAATATAT
*
16771949 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATA
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
16771986 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
16772023 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
16772060 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
16772094 TCGTCTGAGC
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 104 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:16774778 original size:21 final size:20
Alignment explanation
Indices: 16774752--16774790 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
16774742 CATGTTTTTG
16774752 ATGTTTGATGATAGATTATGA
1 ATGTTTGATGATAG-TTATGA
16774773 ATGTTTGATGATAGTTAT
1 ATGTTTGATGATAGTTAT
16774791 ACAAGTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (20 bp):
ATGTTTGATGATAGTTATGA
Found at i:16774800 original size:21 final size:21
Alignment explanation
Indices: 16774752--16774798 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
16774742 CATGTTTTTG
*
16774752 ATGTTTGATGATAGATTATGA
1 ATGTTTGATGATAGATTATCA
16774773 ATGTTTGATGATAG-TTATACA
1 ATGTTTGATGATAGATTAT-CA
16774794 A-GTTT
1 ATGTTT
16774799 TGTTAAGTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.45
Consensus pattern (21 bp):
ATGTTTGATGATAGATTATCA
Found at i:16776846 original size:20 final size:20
Alignment explanation
Indices: 16776817--16776855 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16776807 TGATTAGTTG
* *
16776817 TGATTGAATTGTATTTGAAT
1 TGATTAAATTGTATGTGAAT
16776837 TGATTAAATTGTATGTGAA
1 TGATTAAATTGTATGTGAA
16776856 ATGTATGCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
TGATTAAATTGTATGTGAAT
Found at i:16777030 original size:10 final size:10
Alignment explanation
Indices: 16777015--16777042 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
16777005 TCATTGCGAC
16777015 TATATGTGAT
1 TATATGTGAT
16777025 TATATGTGAT
1 TATATGTGAT
16777035 TATATGTG
1 TATATGTG
16777043 GTTAATGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (10 bp):
TATATGTGAT
Found at i:16779392 original size:16 final size:16
Alignment explanation
Indices: 16779371--16779404 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
16779361 CCATAATAAG
16779371 AATATATATATATATA
1 AATATATATATATATA
*
16779387 AATATATATATATTTA
1 AATATATATATATATA
16779403 AA
1 AA
16779405 CTAATGTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATATATATATATATA
Found at i:16780830 original size:18 final size:18
Alignment explanation
Indices: 16780793--16780842 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
16780783 AAAAAATGAA
*
16780793 AAAAATTAAGAAATTATT
1 AAAAATTAAAAAATTATT
16780811 AAAAATTAAAAAATCT-TT
1 AAAAATTAAAAAAT-TATT
**
16780829 AAATTTTAAAAAAT
1 AAAAATTAAAAAAT
16780843 AAAAATGATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (18 bp):
AAAAATTAAAAAATTATT
Found at i:16780879 original size:20 final size:21
Alignment explanation
Indices: 16780829--16780880 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 21
16780819 AAAAATCTTT
* *
16780829 AAATTTTAAAAAATAAAAATG
1 AAATTTCAAAATATAAAAATG
* *
16780850 -ATTTTGAAAATATAAAAA-G
1 AAATTTCAAAATATAAAAATG
16780869 AAATTTCAAAAT
1 AAATTTCAAAAT
16780881 TCAATGTTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.31
Consensus pattern (21 bp):
AAATTTCAAAATATAAAAATG
Found at i:16781408 original size:32 final size:32
Alignment explanation
Indices: 16781335--16781419 Score: 84
Period size: 32 Copynumber: 2.6 Consensus size: 32
16781325 ATATATATAT
* *
16781335 ATTTTTTAAAATGAAAAAGTAAAAAAATAGAA
1 ATTTTTTAAAATTAAAAAATAAAAAAATAGAA
* *
16781367 ACTTATTAAAATTAAAAAATAAAAATAA-A-AA
1 ATTTTTTAAAATTAAAAAATAAAAA-AATAGAA
*
16781398 GATTTTTTAAAAATATAAAAAT
1 -ATTTTTTAAAATTA-AAAAAT
16781420 TTCAAAAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
31 2 0.05
32 33 0.77
33 8 0.19
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.31
Consensus pattern (32 bp):
ATTTTTTAAAATTAAAAAATAAAAAAATAGAA
Found at i:16787159 original size:13 final size:13
Alignment explanation
Indices: 16787141--16787168 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
16787131 AATATAGGGG
16787141 AAAATGTACCATT
1 AAAATGTACCATT
16787154 AAAATGTACCATT
1 AAAATGTACCATT
16787167 AA
1 AA
16787169 CGAATTTTCA
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:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (13 bp):
AAAATGTACCATT
Found at i:16795407 original size:19 final size:19
Alignment explanation
Indices: 16795341--16795398 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 19
16795331 GTTGGCATAT
* *
16795341 AAAGTGCATACTAACACAC
1 AAAGTGCATATTGACACAC
* ** *
16795360 GAAGCACATTATTGGCACAC
1 AAAGTGCA-TATTGACACAC
16795380 AAAGTGCATATTGACACAC
1 AAAGTGCATATTGACACAC
16795399 GAGGTGCATC
Statistics
Matches: 28, Mismatches: 10, Indels: 2
0.70 0.25 0.05
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.41, C:0.24, G:0.16, T:0.19
Consensus pattern (19 bp):
AAAGTGCATATTGACACAC
Found at i:16795457 original size:38 final size:38
Alignment explanation
Indices: 16795372--16795457 Score: 102
Period size: 38 Copynumber: 2.3 Consensus size: 38
16795362 AGCACATTAT
* * *
16795372 TGGCACACAAAGTGCATATTGACACACGAGGTGCATCG
1 TGGCACACAAAGTGCATATCGACACACGAAGTGCATCC
** *
16795410 TGGTGCACAAAGTGCATACTCG-CATACGAAGTGCATCC
1 TGGCACACAAAGTGCATA-TCGACACACGAAGTGCATCC
16795448 TGGCACACAA
1 TGGCACACAA
16795458 TCTGCATCCT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
38 37 0.95
39 2 0.05
ACGTcount: A:0.31, C:0.26, G:0.24, T:0.19
Consensus pattern (38 bp):
TGGCACACAAAGTGCATATCGACACACGAAGTGCATCC
Found at i:16798153 original size:50 final size:50
Alignment explanation
Indices: 16798024--16798319 Score: 245
Period size: 50 Copynumber: 5.9 Consensus size: 50
16798014 ATTGTGGGAG
* * * * *** * *
16798024 CACATGTGTAGTACTATGTGCAGGCTATTATGTGTTTAAGATGGTTTTAGGC
1 CACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAG--TTAGGT
* * *
16798076 CACGTGTGTAGTACTAATTGCAGGCTACTACGTGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAGTTAGGT
* * * * * * *
16798126 CGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCTGACAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGA-TAGTT-AGGT
* * * * *
16798177 CACGTGTGTAGTACTAAATGCATGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAGTTAGGT
** * *
16798227 CATGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATTGTT-GGT
1 CACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAGTTAGGT
* * * **
16798276 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATAG
1 CACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAG
16798320 CTTCGGTTAC
Statistics
Matches: 194, Mismatches: 47, Indels: 9
0.78 0.19 0.04
Matches are distributed among these distances:
49 39 0.20
50 82 0.42
51 37 0.19
52 36 0.19
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAGTTAGGT
Found at i:16798264 original size:101 final size:101
Alignment explanation
Indices: 16798076--16798264 Score: 297
Period size: 101 Copynumber: 1.9 Consensus size: 101
16798066 GGTTTTAGGC
* *
16798076 CACGTGTGTAGTACTAATTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTACT
*
16798141 AAGTGCAAGCTACTATGCGTACCTGACAACTTCAAT
66 AAGTGCAAGCTACTACGCGTACCTGACAACTTCAAT
* * * **
16798177 CACGTGTGTAGTACTAAATGCATGCTACTACGTGTATCAGATGGTTAGGTCATGTGTGTAGTACT
1 CACGTGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTACT
*
16798242 AAGTGCAAGCTACTACGTGTACC
66 AAGTGCAAGCTACTACGCGTACC
16798265 GGATTGTTGG
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
101 79 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.30
Consensus pattern (101 bp):
CACGTGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTACT
AAGTGCAAGCTACTACGCGTACCTGACAACTTCAAT
Found at i:16798538 original size:16 final size:15
Alignment explanation
Indices: 16798517--16798546 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
16798507 GAATGGAGTA
16798517 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
16798533 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
16798547 TAAAACAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:16800297 original size:40 final size:40
Alignment explanation
Indices: 16800238--16800445 Score: 265
Period size: 40 Copynumber: 5.2 Consensus size: 40
16800228 AGCATATATA
* * * *
16800238 TGCATTCAAAGGTATCGAAGTAGAAACAGTGGCACGTATG
1 TGCATTCAAGGGTACCGAAGTACAAACAGGGGCACGTATG
* *
16800278 TGCATTCAAGGGTACCGAAGTACTAACAAGGGCACGTATG
1 TGCATTCAAGGGTACCGAAGTACAAACAGGGGCACGTATG
* * * *
16800318 TGCTTTCACGGGTACCGAAGTACAAATAGGGGCACGTGTG
1 TGCATTCAAGGGTACCGAAGTACAAACAGGGGCACGTATG
* *
16800358 TACATTCAATGGTACCGAAGTACAAACAGGGGCACGTATG
1 TGCATTCAAGGGTACCGAAGTACAAACAGGGGCACGTATG
* * *
16800398 TTCATTCAAGGGTATCGAAGTACGAAA-AGGGGCACATATG
1 TGCATTCAAGGGTACCGAAGTAC-AAACAGGGGCACGTATG
16800438 TGCATTCA
1 TGCATTCA
16800446 GGCAATAATT
Statistics
Matches: 144, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
40 141 0.98
41 3 0.02
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.22
Consensus pattern (40 bp):
TGCATTCAAGGGTACCGAAGTACAAACAGGGGCACGTATG
Found at i:16806063 original size:46 final size:46
Alignment explanation
Indices: 16806013--16806188 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
16806003 TGGTTGAGCA
*
16806013 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
16806059 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
16806104 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
16806152 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
16806189 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 62 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:16806122 original size:93 final size:93
Alignment explanation
Indices: 16806010--16806181 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
16806000 GGATGGTTGA
* * *
16806010 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
16806075 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
16806103 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
16806168 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
16806182 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:16815132 original size:43 final size:42
Alignment explanation
Indices: 16815076--16815183 Score: 128
Period size: 42 Copynumber: 2.5 Consensus size: 42
16815066 ATGCCAACGT
16815076 CCCAGACATGGTCTTACATATAATCAAATATCGATGCC-ACTG
1 CCCAGACATGGTCTTACATATAATCAAATA-CGATGCCGACTG
* * * * * * *
16815118 CCTCAGACAGGGTCTTACAAAAAATTATATACGATGCCGATTT
1 CC-CAGACATGGTCTTACATATAATCAAATACGATGCCGACTG
16815161 CCCAGACATGGTCTTACATATAA
1 CCCAGACATGGTCTTACATATAA
16815184 ATCTCAAGTC
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
42 27 0.50
43 27 0.50
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (42 bp):
CCCAGACATGGTCTTACATATAATCAAATACGATGCCGACTG
Found at i:16815167 original size:42 final size:42
Alignment explanation
Indices: 16815066--16815178 Score: 120
Period size: 43 Copynumber: 2.6 Consensus size: 42
16815056 AGCTCGTACA
* * *
16815066 ATGCCAACGTCCCAGACATGGTCTTACATATAATCAAATATCG
1 ATGCC-ACTTCCCAGACATGGTCTTACAAAAAATCAAATATCG
* * * *
16815109 ATGCCACTGCCTCAGACAGGGTCTTACAAAAAATTATATA-CG
1 ATGCCACTTCC-CAGACATGGTCTTACAAAAAATCAAATATCG
*
16815151 ATGCCGATTTCCCAGACATGGTCTTACA
1 ATGCC-ACTTCCCAGACATGGTCTTACA
16815179 TATAAATCTC
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
42 26 0.45
43 32 0.55
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (42 bp):
ATGCCACTTCCCAGACATGGTCTTACAAAAAATCAAATATCG
Found at i:16818861 original size:43 final size:43
Alignment explanation
Indices: 16818760--16818882 Score: 149
Period size: 43 Copynumber: 2.9 Consensus size: 43
16818750 ATCGAGATGT
* * *
16818760 GATTATGTGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
1 GATTATGTGTAAGACCATGTTTGGGACATTGGCATCGTAATGA
* * *
16818803 GATTACGTGTTAGACCATGTTTGGGACATTGGCATCGTTAAT-C
1 GATTATGTGTAAGACCATGTTTGGGACATTGGCATCG-TAATGA
* * *
16818846 GATTTTGTGTAAGACCCTGTTTGGGACAGTGGCATCG
1 GATTATGTGTAAGACCATGTTTGGGACATTGGCATCG
16818883 ATATATGATA
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
43 65 0.96
44 3 0.04
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (43 bp):
GATTATGTGTAAGACCATGTTTGGGACATTGGCATCGTAATGA
Found at i:16818914 original size:86 final size:84
Alignment explanation
Indices: 16818760--16818922 Score: 184
Period size: 86 Copynumber: 1.9 Consensus size: 84
16818750 ATCGAGATGT
* * * * * * *
16818760 GATTATGTGTAAGACCATGTCTGGGACATTGGCATTGTATTGAGATTACGTGTTAGACCATGTTT
1 GATTATGTGTAAGACCATGTCTGGGACAGTGGCATCGTATT-AGATAACATGTAAGACCATATCT
16818825 GGGACATTGGCATCGTTAATC
65 GGGACA-TGGCATCGTTAATC
* * *
16818846 GATTTTGTGTAAGACCCTGTTTGGGACAGTGGCATCG-ATATATGATAACATGTAAGACCATATC
1 GATTATGTGTAAGACCATGTCTGGGACAGTGGCATCGTAT-TA-GATAACATGTAAGACCATATC
*
16818910 TGGGATATGGCAT
64 TGGGACATGGCAT
16818923 TGTAGGAGTT
Statistics
Matches: 64, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
85 9 0.14
86 55 0.86
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.33
Consensus pattern (84 bp):
GATTATGTGTAAGACCATGTCTGGGACAGTGGCATCGTATTAGATAACATGTAAGACCATATCTG
GGACATGGCATCGTTAATC
Found at i:16829388 original size:40 final size:40
Alignment explanation
Indices: 16829294--16829438 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
16829284 CTCGCACAAG
* * * * * *
16829294 GCCTTCGGGTCTTAACCCAGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
16829334 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * * * *
16829374 GCCTTC-GGATCTTAGTCTGGATGTAGTTGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
16829415 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
16829439 CATTCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
39 3 0.03
40 56 0.64
41 26 0.30
42 3 0.03
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:16837169 original size:39 final size:41
Alignment explanation
Indices: 16837068--16837250 Score: 204
Period size: 40 Copynumber: 4.6 Consensus size: 41
16837058 TCGAATGATG
* * *
16837068 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAATA
*
16837108 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATA
*
16837148 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
*
16837187 TCCGGGTTAAGTCCCGAAGGCA-TT-TGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
* * *
16837225 ACCGGGCTATGTCCCAAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
16837251 AATGAGTAGC
Statistics
Matches: 122, Mismatches: 12, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
37 1 0.01
38 30 0.25
39 38 0.31
40 43 0.35
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
Found at i:16837204 original size:79 final size:79
Alignment explanation
Indices: 16837068--16837248 Score: 201
Period size: 79 Copynumber: 2.3 Consensus size: 79
16837058 TCGAATGATG
* *
16837068 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCA-T
16837132 TGTGCGAGTTACTA-A
65 T-TGCGAGTTACTATA
* * * **
16837147 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
16837209 TTTGCGAGTTACTATA
64 TTTGCGAGTTACTATA
* * *
16837225 ACCGGGCTATGTCCCAAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
16837249 TGAATGAGTA
Statistics
Matches: 87, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
77 21 0.24
78 15 0.17
79 34 0.39
80 17 0.20
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGCGAGTTACTATA
Found at i:16841279 original size:46 final size:46
Alignment explanation
Indices: 16841211--16841379 Score: 248
Period size: 46 Copynumber: 3.7 Consensus size: 46
16841201 CCACCCCTAA
* *** ** *
16841211 GTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCACATCCATAA
1 GTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAG
* *
16841257 ATGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCATAG
1 GTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAG
*
16841303 GTGAACTCGGACTGAACTCAACGAGTTCGGACATTTGCATCCATAG
1 GTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAG
16841349 GTGAACTCGGACTCAACTCAACGAGTTCGGA
1 GTGAACTCGGACTCAACTCAACGAGTTCGGA
16841380 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 110 1.00
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (46 bp):
GTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAG
Found at i:16841836 original size:30 final size:30
Alignment explanation
Indices: 16841802--16841861 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
16841792 CTTTAATACG
16841802 AACTTTTGAAAAATTACACTTTTGCCCCTA
1 AACTTTTGAAAAATTACACTTTTGCCCCTA
* *
16841832 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTTGAAAAATTACACTTTTGCCCCTA
16841862 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTTGAAAAATTACACTTTTGCCCCTA
Found at i:16844959 original size:11 final size:11
Alignment explanation
Indices: 16844943--16844989 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
16844933 TACGAACTTG
*
16844943 TTCGACCATGA
1 TTCGACAATGA
16844954 TTCGACAATGA
1 TTCGACAATGA
* *
16844965 TTCGACAGTAA
1 TTCGACAATGA
*
16844976 TTC-AAAATGA
1 TTCGACAATGA
16844986 TTCG
1 TTCG
16844990 CTATGATTTG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
10 7 0.24
11 22 0.76
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (11 bp):
TTCGACAATGA
Found at i:16845188 original size:48 final size:48
Alignment explanation
Indices: 16845112--16845241 Score: 174
Period size: 48 Copynumber: 2.7 Consensus size: 48
16845102 GCTAGTTATG
* * * *
16845112 CCTTGATTTGGCTGT-GGGCCATGTTATAGGCACTTCAAAGGTAAATTT
1 CCTTGAGTTGGCT-TCGGGCTATGGTATAGGCACTTCAAAGGTAAATTA
**
16845160 CCTTGAGTTGGCTTCGGGCTATGGTATAGGCACTTCGGAGGTAAATTA
1 CCTTGAGTTGGCTTCGGGCTATGGTATAGGCACTTCAAAGGTAAATTA
16845208 CCTTGAGTTGGCTTCGGG-TCATGGTATAGGCACT
1 CCTTGAGTTGGCTTCGGGCT-ATGGTATAGGCACT
16845242 CCAGGGATAC
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
47 2 0.03
48 72 0.97
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.33
Consensus pattern (48 bp):
CCTTGAGTTGGCTTCGGGCTATGGTATAGGCACTTCAAAGGTAAATTA
Found at i:16845257 original size:48 final size:48
Alignment explanation
Indices: 16845112--16845268 Score: 149
Period size: 48 Copynumber: 3.3 Consensus size: 48
16845102 GCTAGTTATG
* * * * ** * *
16845112 CCTTGATTTGGCTGT-GGGCCATGTTATAGGCACTTCAAAGGTAAATTT
1 CCTTGAGTTGGCT-TCGGGCTATGGTATAGGCACTCCGGAGATAAATTA
* *
16845160 CCTTGAGTTGGCTTCGGGCTATGGTATAGGCACTTCGGAGGTAAATTA
1 CCTTGAGTTGGCTTCGGGCTATGGTATAGGCACTCCGGAGATAAATTA
**
16845208 CCTTGAGTTGGCTTCGGG-TCATGGTATAGGCACTCCAGG-GATACGTTA
1 CCTTGAGTTGGCTTCGGGCT-ATGGTATAGGCACTCC-GGAGATAAATTA
*
16845256 CCTTGATTTGGCT
1 CCTTGAGTTGGCT
16845269 ACAGGCCATC
Statistics
Matches: 95, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
47 2 0.02
48 91 0.96
49 2 0.02
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.33
Consensus pattern (48 bp):
CCTTGAGTTGGCTTCGGGCTATGGTATAGGCACTCCGGAGATAAATTA
Found at i:16855416 original size:24 final size:24
Alignment explanation
Indices: 16855370--16855434 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 24
16855360 ATGGGAGGTT
* *** *
16855370 GGAGTGATTTATGGAGTGTATCAT
1 GGAGAGATTTATGGAGAAAATCAA
16855394 GGAGAGATATTA-GGAGAAAATCAA
1 GGAGAGAT-TTATGGAGAAAATCAA
*
16855418 GGAGTGATTTATGGAGA
1 GGAGAGATTTATGGAGA
16855435 GATTTAATGA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
23 3 0.09
24 27 0.82
25 3 0.09
ACGTcount: A:0.35, C:0.03, G:0.34, T:0.28
Consensus pattern (24 bp):
GGAGAGATTTATGGAGAAAATCAA
Found at i:16856848 original size:27 final size:27
Alignment explanation
Indices: 16856758--16856840 Score: 139
Period size: 27 Copynumber: 3.1 Consensus size: 27
16856748 CTATTTAGAC
* *
16856758 TATCGAAATAACCCTAGTTTGTAAAAT
1 TATCGAAATACCCCCAGTTTGTAAAAT
16856785 TATCGAAATACCCCCAGTTTGTAAAAT
1 TATCGAAATACCCCCAGTTTGTAAAAT
*
16856812 TATCGAAATACCCCCAGTTTATAAAAT
1 TATCGAAATACCCCCAGTTTGTAAAAT
16856839 TA
1 TA
16856841 CCAAAATATT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
TATCGAAATACCCCCAGTTTGTAAAAT
Found at i:16856892 original size:27 final size:26
Alignment explanation
Indices: 16856779--16856959 Score: 119
Period size: 27 Copynumber: 6.7 Consensus size: 26
16856769 CCCTAGTTTG
* * * *
16856779 TAAAATTATCGAAATACCCCCAGTTTG
1 TAAAATTACCAAAATACCCCGA-TTTT
* * * *
16856806 TAAAATTATCGAAATACCCCCAGTTTA
1 TAAAATTACCAAAATACCCCGA-TTTT
** ** *
16856833 TAAAATTACCAAAATATTCTAATTTG
1 TAAAATTACCAAAATACCCCGATTTT
***
16856859 TAAAATTAATGAAATACCCTCGATTTT
1 TAAAATTACCAAAATACCC-CGATTTT
*
16856886 TAAAATTACCAAAATACTACCGATTTT
1 TAAAATTACCAAAATAC-CCCGATTTT
* * *
16856913 TAGAATTACTAAAACACCCCTGATTTT
1 TAAAATTACCAAAATACCCC-GATTTT
*
16856940 TCAAAATTACCGAAATACCC
1 T-AAAATTACCAAAATACCC
16856960 TTGTAGTGTA
Statistics
Matches: 122, Mismatches: 28, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
26 19 0.16
27 88 0.72
28 15 0.12
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (26 bp):
TAAAATTACCAAAATACCCCGATTTT
Found at i:16856972 original size:27 final size:27
Alignment explanation
Indices: 16856942--16857000 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
16856932 CTGATTTTTC
* * *
16856942 AAAATTACCGAAATACCCTTGTAGTGT
1 AAAATTACCGAAATACCCCTATAGGGT
* *
16856969 AAAATTTCTGAAATACCCCTATAGGGT
1 AAAATTACCGAAATACCCCTATAGGGT
16856996 AAAAT
1 AAAAT
16857001 GATTGTTTTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.29
Consensus pattern (27 bp):
AAAATTACCGAAATACCCCTATAGGGT
Found at i:16857463 original size:27 final size:27
Alignment explanation
Indices: 16857433--16857501 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 27
16857423 CCAATGGCAA
* *
16857433 TGTGCCTATCATATTTATCCATGACTC
1 TGTGCCGATCATATTTACCCATGACTC
* *
16857460 TGTGCCGATCATATTTACCCATGGCTG
1 TGTGCCGATCATATTTACCCATGACTC
*
16857487 TGTGCCGATTATATT
1 TGTGCCGATCATATT
16857502 ACCGTCGCTG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.39
Consensus pattern (27 bp):
TGTGCCGATCATATTTACCCATGACTC
Found at i:16871342 original size:43 final size:43
Alignment explanation
Indices: 16871289--16871371 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
16871279 TTCAAAACAG
16871289 GTAAGAATCATCAAATTTCATACACTCCATGGCCAAATACCAT
1 GTAAGAATCATCAAATTTCATACACTCCATGGCCAAATACCAT
* * * *
16871332 GTAAGCATCATCGAATTTCATACTCTTCATGGCCAAATAC
1 GTAAGAATCATCAAATTTCATACACTCCATGGCCAAATAC
16871372 TATCTCAAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (43 bp):
GTAAGAATCATCAAATTTCATACACTCCATGGCCAAATACCAT
Found at i:16877700 original size:47 final size:47
Alignment explanation
Indices: 16877648--16878057 Score: 615
Period size: 47 Copynumber: 8.6 Consensus size: 47
16877638 GATAATTGTG
* *
16877648 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
16877695 ATGTGAAAGTGTATATACATGTGATAAGGCCTAAAGGCCGATGTGATGA
1 ATGTGAAAGTGTATAT--ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
16877744 ATGTGAAAGTGTATATATATATGTGATAAGGTCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
16877795 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
16877842 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
16877891 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
16877938 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
16877985 ATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCGATGTGATGA
*
16878032 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
16878058 TCCCGAAGGG
Statistics
Matches: 336, Mismatches: 17, Indels: 19
0.90 0.05 0.05
Matches are distributed among these distances:
46 2 0.01
47 199 0.59
48 2 0.01
49 88 0.26
51 40 0.12
53 5 0.01
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:16877903 original size:96 final size:96
Alignment explanation
Indices: 16877648--16878057 Score: 636
Period size: 96 Copynumber: 4.3 Consensus size: 96
16877638 GATAATTGTG
16877648 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
16877711 ACATGTGATAAGGCCTAAAGGCCGATGTGATGA
66 --ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
16877744 ATGTGAAAGTGTATATATATATGTGATAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATGTGAAAGTG--TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
16877809 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
16877842 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
16877907 ATGTGATAAGGCCTAATAGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
16877938 ATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * * * *
16878001 ATGTGA-CAGAGCCGAGTGGCCAACGTGATGG
66 ATGTGATAAG-GCCTAATGGCCGATGTGATGA
16878032 ATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
16878058 TCCCGAAGGG
Statistics
Matches: 294, Mismatches: 13, Indels: 16
0.91 0.04 0.05
Matches are distributed among these distances:
93 2 0.01
94 92 0.31
95 1 0.00
96 101 0.34
97 2 0.01
98 43 0.15
100 53 0.18
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (96 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:16880848 original size:42 final size:43
Alignment explanation
Indices: 16880741--16880896 Score: 174
Period size: 43 Copynumber: 3.6 Consensus size: 43
16880731 GATCATACAG
* * * *
16880741 TGCCAACATCCTAGACATGGTCTTTCATGTAATCAAATATCGA
1 TGCCAACGTCCTAGACATGGTCTTACACGAAATCAAATATCGA
* *
16880784 TGCC-ACTGTCCCAGACAGGGTCTTACACGAAATCAAATA-CGA
1 TGCCAAC-GTCCTAGACATGGTCTTACACGAAATCAAATATCGA
*
16880826 TGCCAACGTCCTAAACATGGTCTTACACGTAAATACAAA-ATCGA
1 TGCCAACGTCCTAGACATGGTCTTACACG-AAAT-CAAATATCGA
* * *
16880870 TGCCAACGTCCCAGACGTGGCCTTACA
1 TGCCAACGTCCTAGACATGGTCTTACA
16880897 TGATTTCATA
Statistics
Matches: 95, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
42 28 0.29
43 37 0.39
44 30 0.32
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.23
Consensus pattern (43 bp):
TGCCAACGTCCTAGACATGGTCTTACACGAAATCAAATATCGA
Found at i:16885656 original size:43 final size:43
Alignment explanation
Indices: 16885501--16885657 Score: 140
Period size: 43 Copynumber: 3.7 Consensus size: 43
16885491 CATGTTATCG
* * * *
16885501 TGTAAGACCACGTCTAGGATGTTGGCATCGAGT-TATGATTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGA-TATTTGA-TTACA
* * * * * *
16885545 TGTAAGACCATGTCAGGGACATCGGCATC-ATACTTGATTTCA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
** * *
16885587 TGTAAGACCTTGTCTGGGA-GAGTGGCATCGATATTTGATAACA
1 TGTAAGACCACGTCTGGGACG-TTGGCATCGATATTTGATTACA
16885630 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
16885658 TGTACGAGCT
Statistics
Matches: 88, Mismatches: 21, Indels: 9
0.75 0.18 0.08
Matches are distributed among these distances:
42 27 0.31
43 37 0.42
44 24 0.27
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
Found at i:16890151 original size:29 final size:29
Alignment explanation
Indices: 16890111--16890216 Score: 167
Period size: 29 Copynumber: 3.7 Consensus size: 29
16890101 AATGATATTC
16890111 ATATGGCCCATTAGGCCCAAATCACCTCT
1 ATATGGCCCATTAGGCCCAAATCACCTCT
16890140 ATATGGCCCATTAGGCCCAAATCACCTCT
1 ATATGGCCCATTAGGCCCAAATCACCTCT
* *
16890169 ATATGGCCCATTAGGCCCAAATCACATTT
1 ATATGGCCCATTAGGCCCAAATCACCTCT
* **
16890198 ATATAGCCTGTTAGGCCCA
1 ATATGGCCCATTAGGCCCA
16890217 GTCACATTCA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 72 1.00
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.25
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACCTCT
Found at i:16898554 original size:43 final size:43
Alignment explanation
Indices: 16898399--16898555 Score: 124
Period size: 43 Copynumber: 3.7 Consensus size: 43
16898389 TGTGTTATCG
* * *
16898399 TGTAAGACCACATCTGGGATGTTGGCATCGACT-TATGATTTACG
1 TGTAAGACCATATCTGGGATGTTGGCATCGA-TATTTGA-TTACA
** * * *
16898443 TGTAAGACCATATCTGGGACATCGGCATC-ATACTTGATTTCA
1 TGTAAGACCATATCTGGGATGTTGGCATCGATATTTGATTACA
* * * *
16898485 TGTAAGACGC-TGTTTGAGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGAC-CATATCTGGGA-TGTTGGCATCGATATTTGATTACA
**
16898528 TGTAAGACCAGGTCTGGGATGTTGGCAT
1 TGTAAGACCATATCTGGGATGTTGGCAT
16898556 TGTACAAGCT
Statistics
Matches: 87, Mismatches: 20, Indels: 13
0.73 0.17 0.11
Matches are distributed among these distances:
42 26 0.30
43 36 0.41
44 25 0.29
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATATCTGGGATGTTGGCATCGATATTTGATTACA
Found at i:16901511 original size:36 final size:37
Alignment explanation
Indices: 16901448--16901522 Score: 134
Period size: 36 Copynumber: 2.1 Consensus size: 37
16901438 CCTAGTCGGG
*
16901448 AAGTGGTTTCGGGACCGCTAAATCGAGTCATAAAAAT
1 AAGTGGTTTCGGGACCGCTAAACCGAGTCATAAAAAT
16901485 AAGTGGTTTCGGGA-CGCTAAACCGAGTCATAAAAAT
1 AAGTGGTTTCGGGACCGCTAAACCGAGTCATAAAAAT
16901521 AA
1 AA
16901523 TTAACCGTCA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 23 0.62
37 14 0.38
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23
Consensus pattern (37 bp):
AAGTGGTTTCGGGACCGCTAAACCGAGTCATAAAAAT
Found at i:16903564 original size:40 final size:40
Alignment explanation
Indices: 16903326--16903550 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
16903316 TTGAATGATG
* * * *
16903326 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
16903366 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
16903406 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
16903445 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
16903485 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
16903526 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
16903551 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:16903572 original size:119 final size:119
Alignment explanation
Indices: 16903326--16903583 Score: 292
Period size: 119 Copynumber: 2.2 Consensus size: 119
16903316 TTGAATGATG
* *
16903326 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* **
16903391 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * **
16903445 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
16903508 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
16903565 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
16903584 TATGTGATTT
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
118 3 0.03
119 84 0.71
120 31 0.26
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:16911703 original size:79 final size:79
Alignment explanation
Indices: 16911567--16911790 Score: 292
Period size: 79 Copynumber: 2.8 Consensus size: 79
16911557 TTGAATGATG
* * * * *
16911567 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGCTAAG-TCCGAAGGCATT
*
16911631 TGTGCGAGATACTAAT
64 TGTGCGAGATACTAAA
* *
16911647 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGT-CCGAAGGCATTT
*
16911711 GTGCGAGTTACTAAA
65 GTGCGAGATACTAAA
* *
16911726 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCGAAGGCATTT
16911790 G
65 G
16911791 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
78 1 0.01
79 73 0.57
80 51 0.40
81 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:16911782 original size:119 final size:119
Alignment explanation
Indices: 16911567--16911788 Score: 297
Period size: 119 Copynumber: 1.9 Consensus size: 119
16911557 TTGAATGATG
*
16911567 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
*
16911632 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
* * * * **
16911686 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * *
16911749 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCGAAGGCATT
64 TTGTGCGAGATACTAAT-ACCGGGCTAAGCCCGAAGGCATT
16911789 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
118 3 0.03
119 79 0.89
120 7 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
Found at i:16911797 original size:39 final size:39
Alignment explanation
Indices: 16911567--16911790 Score: 272
Period size: 40 Copynumber: 5.6 Consensus size: 39
16911557 TTGAATGATG
* * * *
16911567 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
16911607 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
16911647 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
16911686 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAA
*
16911726 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
16911767 -CCGGGCTATGTCCGAAGGCATTTG
1 TCCGGGCTAAGTCCGAAGGCATTTG
16911791 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
39 47 0.29
40 106 0.65
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:16911797 original size:119 final size:119
Alignment explanation
Indices: 16911567--16911823 Score: 290
Period size: 119 Copynumber: 2.2 Consensus size: 119
16911557 TTGAATGATG
* *
16911567 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* **
16911632 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTA-CTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAG-TAGCTAAA
* * * **
16911686 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * *
16911749 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCGAAGGCATTTGAACGAGTAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAGCCCGAAGGCATTGGAACGAGTAGCTAAA
* *
16911805 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
16911824 TATGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
118 19 0.16
119 91 0.78
120 7 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTAGCTAAA
Found at i:16911820 original size:39 final size:40
Alignment explanation
Indices: 16911567--16911823 Score: 231
Period size: 40 Copynumber: 6.5 Consensus size: 40
16911557 TTGAATGATG
* * * * * *
16911567 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAATCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
16911607 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAA-ATCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
16911647 TCCGGGCT-AAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGTTAAATCCCGAAGGCATTTGTGCGAGTTACTAAA
*
16911686 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAATCCCGAAGGCATTTGTGCGAGTTACTAAA
*
16911726 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAATCCCGAAGGCATTTGTGCGAGTTACTA-AA
* ** ** *
16911767 -CCGGGCTATGT-CCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGTTAAATCCCGAAGGCATTTGTGCGAGTTA-CTAAA
*
16911805 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAATCCCGAAGG
16911824 TATGTGATTT
Statistics
Matches: 184, Mismatches: 25, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
38 9 0.05
39 61 0.33
40 104 0.57
41 10 0.05
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAAATCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:16915237 original size:38 final size:38
Alignment explanation
Indices: 16915170--16915477 Score: 458
Period size: 38 Copynumber: 8.1 Consensus size: 38
16915160 GTATTTGATG
*
16915170 TATATCCGGGTTTTATCCCGCAGGTTTAGTGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTAGTGCTGGTAT
* ** * **
16915208 TATATCCAGGTTAAATTCCGTTGGCTTAGTGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTAGTGCTGGTAT
*
16915246 TATATCCGGGTTTTATACCGCAGGCTTAGTGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTAGTGCTGGTAT
*
16915284 TATATCCGTGTTTTATCCCGCAGGCTTCA-TGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTT-AGTGCTGGTAT
*
16915322 TATATCCGGGTTTTATCCCGCAGGCTTAGTGCTGGTAC
1 TATATCCGGGTTTTATCCCGCAGGCTTAGTGCTGGTAT
*
16915360 TATATCCGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTAGTGCTGGTAT
* *
16915398 TATATCCGGG-TTTATCCCGCAAGCTTCGTGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTAGTGCTGGTAT
**
16915435 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTAGTGCTGGTAT
16915473 TATAT
1 TATAT
16915478 TCGAGCTTAA
Statistics
Matches: 243, Mismatches: 24, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
37 37 0.15
38 205 0.84
39 1 0.00
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.37
Consensus pattern (38 bp):
TATATCCGGGTTTTATCCCGCAGGCTTAGTGCTGGTAT
Found at i:16920010 original size:38 final size:38
Alignment explanation
Indices: 16919943--16920019 Score: 104
Period size: 38 Copynumber: 2.0 Consensus size: 38
16919933 GAGATTTACG
*
16919943 TGTAAGACCATGTCTGGGACATCGTCATCGTATATTTCA
1 TGTAAGACCATGTCTGGGACATCGGCATCG-ATATTTCA
*
16919982 TGTAAGACC-TGTTTGGGACAGT-GGCATCGATATTTCA
1 TGTAAGACCATGTCTGGGACA-TCGGCATCGATATTTCA
16920019 T
1 T
16920020 TACATGGACG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
37 9 0.26
38 16 0.46
39 10 0.29
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (38 bp):
TGTAAGACCATGTCTGGGACATCGGCATCGATATTTCA
Found at i:16928422 original size:15 final size:15
Alignment explanation
Indices: 16928402--16928431 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
16928392 CCAGACATGG
16928402 TCTTACACTAACTAT
1 TCTTACACTAACTAT
16928417 TCTTACACTAACTAT
1 TCTTACACTAACTAT
16928432 CGAAATCGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.27, G:0.00, T:0.40
Consensus pattern (15 bp):
TCTTACACTAACTAT
Found at i:16928578 original size:46 final size:47
Alignment explanation
Indices: 16928450--16928662 Score: 199
Period size: 46 Copynumber: 4.5 Consensus size: 47
16928440 AGGCCGACGC
* *
16928450 CATGTCCCAAACATGGTCTTACACTAGCTCTCACATATTCGT-GCCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCT-T-ACAT-CTCGTAGCCGATG
* *
16928499 CCATGTCCCAGACATGGTCTTACACTAAC--ACATCTAGTAGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTAGCTTACATCTCGTAGCCGATG
* * *
16928545 CATGTCCCATACAT-GTCTTACACTGGCTTACATCTCG-AGGCTGATG
1 CATGTCCCAGACATGGTCTTACACTAGCTTACATCTCGTA-GCCGATG
* * *
16928591 CATGTCCCAGACAT-GTCTTACACTAGCTCT-CGTCTC-AATGTCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCT-TACATCTCGTA-GCCGATG
*
16928637 CCATGTCCTAGACATGGTCTTACACT
1 -CATGTCCCAGACATGGTCTTACACT
16928663 GGGTCTCATA
Statistics
Matches: 139, Mismatches: 16, Indels: 18
0.80 0.09 0.10
Matches are distributed among these distances:
44 11 0.08
45 17 0.12
46 61 0.44
47 14 0.10
48 10 0.07
50 26 0.19
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTAGCTTACATCTCGTAGCCGATG
Found at i:16928685 original size:45 final size:47
Alignment explanation
Indices: 16928448--16928709 Score: 174
Period size: 45 Copynumber: 5.6 Consensus size: 47
16928438 CGAGGCCGAC
* *
16928448 GCCATGTCCCAAACATGGTCTTACACTAGCTCTC-A-CATATTCGTGCCGAT
1 GCCATGTCCTAGACATGGTCTTACACTAGCTCTCGATCA-A-T-GT--CGAT
* * * * *
16928498 GCCATGTCCCAGACATGGTCTTACACTA--ACAC-ATCTAGTAGCCGAT
1 GCCATGTCCTAGACATGGTCTTACACTAGCTCTCGATC-AAT-GTCGAT
* * * * *
16928544 G-CATGTCCCATACAT-GTCTTACACTGGCT-TAC-ATCTCGA-GGCTGAT
1 GCCATGTCCTAGACATGGTCTTACACTAGCTCT-CGA--TCAATGTC-GAT
* *
16928590 G-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAATGTCGAT
1 GCCATGTCCTAGACATGGTCTTACACTAGCTCTCG-ATCAATGTCGAT
* *
16928636 GCCATGTCCTAGACATGGTCTTACACTGGGTCTC-AT-AATGTCGAT
1 GCCATGTCCTAGACATGGTCTTACACTAGCTCTCGATCAATGTCGAT
16928681 GCCATGTCCTAGACATGGTCTTACACTAG
1 GCCATGTCCTAGACATGGTCTTACACTAG
16928710 TACACGAATA
Statistics
Matches: 175, Mismatches: 23, Indels: 33
0.76 0.10 0.14
Matches are distributed among these distances:
44 10 0.06
45 52 0.30
46 46 0.26
47 16 0.09
48 22 0.13
49 1 0.01
50 28 0.16
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (47 bp):
GCCATGTCCTAGACATGGTCTTACACTAGCTCTCGATCAATGTCGAT
Found at i:16933555 original size:49 final size:49
Alignment explanation
Indices: 16933500--16933722 Score: 243
Period size: 49 Copynumber: 4.5 Consensus size: 49
16933490 GTACGCATAC
* **
16933500 TAGCCTGCACTTAGTACTACACATGTGACCAATTATTTGGTACACGTAG
1 TAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACGTAG
** * * *
16933549 TAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTC-ATTCAGGTAG
1 TAGCCTGCACTTAGTACTACACACGTGACC-AATTATC-CGGTACACGTAG
* * * *
16933599 TAGCCTGCACTTTGTACTACACACGTGATCGAAGTTAT-CGTGTACGCATAG
1 TAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCG-GTACACGTAG
* * *
16933650 TAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAG
1 TAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACGTAG
*
16933699 TAGCCTGCGCTTAGTACTACACAC
1 TAGCCTGCACTTAGTACTACACAC
16933723 AGGATCTTAC
Statistics
Matches: 141, Mismatches: 26, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
49 63 0.45
50 45 0.32
51 33 0.23
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (49 bp):
TAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACGTAG
Found at i:16942113 original size:49 final size:49
Alignment explanation
Indices: 16942052--16942283 Score: 257
Period size: 49 Copynumber: 4.7 Consensus size: 49
16942042 CTGGTACGCA
* *
16942052 TAGTAGCTTGCACTTAGTACTACACATGTGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACG
* ** * *
16942101 TAGTAGCCTGCACTTAGTACTATACACGTGACCTAACGATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCAGTACACG
* ** ** *
16942151 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTATCGGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCAGTACACG
* * * * * * *
16942202 AAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACG
16942251 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
16942284 TCACAATAGA
Statistics
Matches: 148, Mismatches: 32, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
49 67 0.45
50 47 0.32
51 34 0.23
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACG
Found at i:16942274 original size:100 final size:99
Alignment explanation
Indices: 16942052--16942282 Score: 266
Period size: 100 Copynumber: 2.3 Consensus size: 99
16942042 CTGGTACGCA
* * * ** *
16942052 TAGTAGCTTGCACTTAGTACTACACATGTGACCAATTATCCAGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACAAATTATCCAGTACACAAAGTAGCCTACACTTA
* * * *
16942117 GTACTATACACGTGACCTAACGATCTAATACACG
66 GTACTACACACGCGACCTAACAATCCAATACACG
** **
16942151 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTATCGGGTATGCAAAGTAGCCTACACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CAAA-TTATCCAGTACACAAAGTAGCCTACACT
* * ** *
16942216 TAGTACTACACATGCGACC-AATAATCCGGTACATG
64 TAGTACTACACACGCGACCTAACAATCCAATACACG
16942251 TAGTAGCCTGCACTTAGTACTACACACGTGAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGAC
16942283 CTCACAATAG
Statistics
Matches: 111, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
99 30 0.27
100 44 0.40
101 37 0.33
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACAAATTATCCAGTACACAAAGTAGCCTACACTTA
GTACTACACACGCGACCTAACAATCCAATACACG
Found at i:16944790 original size:49 final size:50
Alignment explanation
Indices: 16944712--16944955 Score: 251
Period size: 49 Copynumber: 4.9 Consensus size: 50
16944702 TCCGTTGTGA
* * *
16944712 GTCACGTGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCGGACAATT-G
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAG
* * * * * * * *
16944761 GTCGCATGTGTAGTATTATGTACAGGCTACTATGCGTACCCGATAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TTAG
* * * **
16944812 ATCACATGTGTAGTA-TAAGTGCAGGCTACTACGTGTATCAGATGGTTAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAG
* *
16944861 GACACATGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATT-G
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAG
* * * * *
16944910 GTCGCATGTGTAATACTAAGTGCAGGCTACTATGCGTACCAGATAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA
16944956 CCTTGTCTAC
Statistics
Matches: 158, Mismatches: 34, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
49 93 0.59
50 51 0.32
51 14 0.09
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAG
Found at i:16944891 original size:100 final size:98
Alignment explanation
Indices: 16944713--16944952 Score: 257
Period size: 99 Copynumber: 2.4 Consensus size: 98
16944703 CCGTTGTGAG
* * * * *
16944713 TCACGTGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCGGACAATTGGTCGCATGTGTAGTATT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCAGACAATTGGACACATGTGTAGTACT
* *
16944778 ATGTACAGGCTACTATGCGTACCCGATAACTTCGA
66 AAGTACAGGCTACTACGCGTACCCGATAA-TT-GA
* * ***
16944813 TCACATGTGTAGTA-TAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGACACATGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCAGACAATT-GGACACATGTGTAGTAC
** * * *
16944877 TAAGTGTAGGCTACTACGTGTACCGGATAATTGG
65 TAAGTACAGGCTACTACGCGTACCCGATAATTGA
* * * *
16944911 TCGCATGTGTAATACTAAGTGCAGGCTACTATGCGTACCAGA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCAGA
16944953 TAACCTTGTC
Statistics
Matches: 116, Mismatches: 22, Indels: 5
0.81 0.15 0.03
Matches are distributed among these distances:
98 13 0.11
99 52 0.45
100 51 0.44
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (98 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCAGACAATTGGACACATGTGTAGTACT
AAGTACAGGCTACTACGCGTACCCGATAATTGA
Found at i:16950850 original size:49 final size:49
Alignment explanation
Indices: 16950667--16950856 Score: 179
Period size: 50 Copynumber: 3.8 Consensus size: 49
16950657 GTGAGTCATG
* * * * * *
16950667 TGTGTAGTACTAAGTGCAGGCTACTATGCGCACCCA-AAAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTA-CCAGATAA-TTAGGTC-CA
* * * **
16950718 TTTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT-CA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTAGGTCCA
* *
16950766 TGTGTATAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCGCA
1 TGTG--TAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTAGGTC-CA
*
16950817 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA
16950857 CCTTGTCTAC
Statistics
Matches: 115, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
48 4 0.03
49 36 0.31
50 40 0.35
51 35 0.30
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTAGGTCCA
Found at i:16950854 original size:99 final size:101
Alignment explanation
Indices: 16950661--16950854 Score: 248
Period size: 101 Copynumber: 1.9 Consensus size: 101
16950651 CCCGTTGTGA
* * * *
16950661 GTCATGTGTGTAGTACTAAGTGCAGGCTACTATGCGCACCCAAAAACTTCGATCACGTTTGTAGT
1 GTCATGTGTATAGTACTAAGTGCAGGCTACTACGCGCACCCAAAAACTTCGATCACATGTGTAGT
* *
16950726 ACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAG
66 ACTAAGTGCAGGCTACTACGCGTACCAGATGGTTAG
* * ** * * *
16950762 GTCATGTGTATAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT-GGTCGCATGTGTAGT
1 GTCATGTGTATAGTACTAAGTGCAGGCTACTACGCGCACCCAAAAACTTCGATCACATGTGTAGT
*
16950825 ACTAAGTGCAGGCTACTATGCGTACCAGAT
66 ACTAAGTGCAGGCTACTACGCGTACCAGAT
16950855 AACCTTGTCT
Statistics
Matches: 79, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
99 38 0.48
100 2 0.03
101 39 0.49
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (101 bp):
GTCATGTGTATAGTACTAAGTGCAGGCTACTACGCGCACCCAAAAACTTCGATCACATGTGTAGT
ACTAAGTGCAGGCTACTACGCGTACCAGATGGTTAG
Found at i:16958041 original size:40 final size:40
Alignment explanation
Indices: 16957986--16958071 Score: 154
Period size: 40 Copynumber: 2.1 Consensus size: 40
16957976 TTATTTGATG
* *
16957986 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTTGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCACAGGCTTCGTGC
16958026 TGGAATTGTATCCGGGCTTAAAGACCCACAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCACAGGCTTCGTGC
16958066 TGGAAT
1 TGGAAT
16958072 GACATCTGGG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (40 bp):
TGGAATTGTATCCGGGCTTAAAGACCCACAGGCTTCGTGC
Found at i:16958097 original size:39 final size:40
Alignment explanation
Indices: 16957986--16958098 Score: 140
Period size: 40 Copynumber: 2.9 Consensus size: 40
16957976 TTATTTGATG
* *
16957986 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTTGTGC
1 TGGAATTGCATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
* *
16958026 TGGAATTGTATCCGGGCTTAAAGACCCACAGGCTTCGTGC
1 TGGAATTGCATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
* * *
16958066 TGGAA-TGACATCTGGG-TTAAAAACCTGCAGGCT
1 TGGAATTG-CATCCGGGCTTAAAGACCCGCAGGCT
16958099 GTGCTAAATA
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
39 16 0.25
40 49 0.75
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TGGAATTGCATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
Found at i:16959377 original size:27 final size:27
Alignment explanation
Indices: 16959347--16959477 Score: 142
Period size: 27 Copynumber: 4.9 Consensus size: 27
16959337 ATTACCAAAG
*
16959347 TACCCCTGATTTACATAATTA-TCGTTT
1 TACCCCTGATTTACAGAATTACT-GTTT
* *
16959374 TA-CCCTCGATTTATAGAATTACCGTTT
1 TACCCCT-GATTTACAGAATTACTGTTT
* *
16959401 TA-CCCTCGATTTATAGAATTACTATTT
1 TACCCCT-GATTTACAGAATTACTGTTT
*
16959428 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCCTGATTTACAGAATTACTGTTT
* *
16959455 TACCCTTGATTTACAAAATTACT
1 TACCCCTGATTTACAGAATTACT
16959478 AAAATACCCT
Statistics
Matches: 92, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
26 4 0.04
27 85 0.92
28 3 0.03
ACGTcount: A:0.28, C:0.21, G:0.08, T:0.43
Consensus pattern (27 bp):
TACCCCTGATTTACAGAATTACTGTTT
Found at i:16959405 original size:54 final size:54
Alignment explanation
Indices: 16959347--16959478 Score: 160
Period size: 54 Copynumber: 2.4 Consensus size: 54
16959337 ATTACCAAAG
* * *
16959347 TACCCCTGATTTACATAATTA-TCGTTTTACCCTCGATTTATAGAATTACCGTTT
1 TACCCCTGATTTACAAAATTACT-ATTTTACCCTCGATTTACAGAATTACCGTTT
* * * *
16959401 TA-CCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTGTTT
1 TACCCCT-GATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCGTTT
*
16959455 TACCCTTGATTTACAAAATTACTA
1 TACCCCTGATTTACAAAATTACTA
16959479 AAATACCCTT
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
53 4 0.06
54 58 0.88
55 4 0.06
ACGTcount: A:0.29, C:0.20, G:0.08, T:0.42
Consensus pattern (54 bp):
TACCCCTGATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCGTTT
Found at i:16959485 original size:27 final size:27
Alignment explanation
Indices: 16959401--16959761 Score: 194
Period size: 27 Copynumber: 13.3 Consensus size: 27
16959391 ATTACCGTTT
* * ***
16959401 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTTGATTTATAAAATTACTAAAA
* * ****
16959428 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTTGATTTATAAAATTACTAAAA
*
16959455 TACCCTTGATTTACAAAATTACTAAAA
1 TACCCTTGATTTATAAAATTACTAAAA
* * *
16959482 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGATTTATAAAATTACTAAAA
* * * *
16959509 TACCCTCGA-TCAGTGAAATTACCAAAA
1 TACCCTTGATTTA-TAAAATTACTAAAA
* * * *
16959536 TACCCTAG-TCTATAAATTTGCTAAAA
1 TACCCTTGATTTATAAAATTACTAAAA
* * * * *
16959562 TGCCCCTGGTTTGTAAAATTACCAAAA
1 TACCCTTGATTTATAAAATTACTAAAA
* * *
16959589 TACCCCT-AGTTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTATAAAATTACTAAAA
* * * **
16959616 TACCACTAG-TTTGTGAAATTACCGAAA
1 TACC-CTTGATTTATAAAATTACTAAAA
** *
16959643 TACCCTCAATTTGTAAAATTACTAAAA
1 TACCCTTGATTTATAAAATTACTAAAA
* *
16959670 TACCAC-TGATTTATAAAATTGCAAAAA
1 TACC-CTTGATTTATAAAATTACTAAAA
*
16959697 TACCCTTAGACTTTCTAAAAATTA-TAGAAA
1 TACCCTT-GA-TTTAT-AAAATTACTA-AAA
* * * *
16959727 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTATAAAATTACTAAAA
16959754 TACCCTTG
1 TACCCTTG
16959762 GTTTGTAGAT
Statistics
Matches: 265, Mismatches: 55, Indels: 28
0.76 0.16 0.08
Matches are distributed among these distances:
26 20 0.08
27 216 0.82
28 8 0.03
29 6 0.02
30 15 0.06
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.33
Consensus pattern (27 bp):
TACCCTTGATTTATAAAATTACTAAAA
Found at i:16959486 original size:54 final size:54
Alignment explanation
Indices: 16959374--16959504 Score: 163
Period size: 54 Copynumber: 2.4 Consensus size: 54
16959364 ATTATCGTTT
* * * * ***
16959374 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACTATTT
1 TACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAA
* *
16959428 TACCCTTGATTTACAGAATTACTGTTTTACCCTTGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAA
* *
16959482 TACCCTTGGTTTACAAAATTACC
1 TACCCTTGATTTACAGAATTACC
16959505 AAAATACCCT
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (54 bp):
TACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAA
Found at i:16959513 original size:54 final size:54
Alignment explanation
Indices: 16959455--16959765 Score: 218
Period size: 54 Copynumber: 5.7 Consensus size: 54
16959445 ATTACTGTTT
* * * * *
16959455 TACCCTTGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGATTTATAAAATTACCAAAATACCCTTAGTTTATAAAATTACTAAAA
* * * * * *
16959509 TACCCTCGA-TCAGTGAAATTACCAAAATACCC-TAGTCTATAAATTTGCTAAAA
1 TACCCTTGATTTA-TAAAATTACCAAAATACCCTTAGTTTATAAAATTACTAAAA
* * * * * * *
16959562 TGCCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTTGATTTATAAAATTACCAAAATACCCTTAGTTTATAAAATTACTAAAA
* * * * * * *
16959616 TACCACTAG-TTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACTAAAA
1 TACC-CTTGATTTATAAAATTACCAAAATACCCTTAGTTTATAAAATTACTAAAA
* * *
16959670 TACCAC-TGATTTATAAAATTGCAAAAATACCCTTAGACTTTCTAAAAATTA-TAGAAA
1 TACC-CTTGATTTATAAAATTACCAAAATACCCTTAG--TTTAT-AAAATTACTA-AAA
* * * ** *
16959727 TACCATTGGTTTACAAAATTACTGAAATACCCTTGGTTT
1 TACCCTTGATTTATAAAATTACCAAAATACCCTTAGTTT
16959766 GTAGATTTAC
Statistics
Matches: 199, Mismatches: 48, Indels: 19
0.75 0.18 0.07
Matches are distributed among these distances:
53 41 0.21
54 109 0.55
55 5 0.03
56 6 0.03
57 38 0.19
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.32
Consensus pattern (54 bp):
TACCCTTGATTTATAAAATTACCAAAATACCCTTAGTTTATAAAATTACTAAAA
Found at i:16959513 original size:81 final size:81
Alignment explanation
Indices: 16959317--16959514 Score: 182
Period size: 81 Copynumber: 2.4 Consensus size: 81
16959307 CCAATTATTG
* ** * * *
16959317 AAATACCCTCGACTTGTAAAATTACCAAAGTACCCCTGATTTACATAATTATCGTTTTACCCTCG
1 AAATACCCTCGATTTACAAAATTACCAAAATACCCTTGATTTACAGAATTATCGTTTTACCCTCG
* * *
16959382 ATTTATAGAATTACCG
66 ATTTACAAAATTACCA
*** * * * *** *
16959398 TTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTA-CTGTTTTACCCTT
1 AAATACCCTCGATTTACAAAATTACCAAAATACCCTTGATTTACAGAATTATC-GTTTTACCCTC
*
16959462 GATTTACAAAATTACTA
65 GATTTACAAAATTACCA
* *
16959479 AAATACCCTTGGTTTACAAAATTACCAAAATACCCT
1 AAATACCCTCGATTTACAAAATTACCAAAATACCCT
16959515 CGATCAGTGA
Statistics
Matches: 88, Mismatches: 28, Indels: 2
0.75 0.24 0.02
Matches are distributed among these distances:
80 1 0.01
81 87 0.99
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (81 bp):
AAATACCCTCGATTTACAAAATTACCAAAATACCCTTGATTTACAGAATTATCGTTTTACCCTCG
ATTTACAAAATTACCA
Found at i:16959584 original size:80 final size:81
Alignment explanation
Indices: 16959476--16959625 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 81
16959466 TACAAAATTA
* *
16959476 CTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGA-TCAGTGAAATTACCAAAATACC
1 CTAAAATACCCCTGGTTTACAAAATTACCAAAATACCC-CGAGTCAGTAAAATTACCAAAATACC
16959540 -CTAGTCTATAAATTTG
65 ACTAGTCTATAAATTTG
* ** * **
16959556 CTAAAATGCCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCA
1 CTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAAAATACCA
16959621 CTAGT
66 CTAGT
16959626 TTGTGAAATT
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
79 2 0.03
80 53 0.88
81 5 0.08
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.29
Consensus pattern (81 bp):
CTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAAAATACCA
CTAGTCTATAAATTTG
Found at i:16959695 original size:107 final size:107
Alignment explanation
Indices: 16959461--16959701 Score: 268
Period size: 107 Copynumber: 2.2 Consensus size: 107
16959451 GTTTTACCCT
* * * * *
16959461 TGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGTGAA
1 TGATTTATAAAATTACAAAAATACCCCTAGTTTACAAAATTACCAAAATACCCTAGATCAGTGAA
* * * * *
16959526 ATTACCAAAATACCCTAGTCTATAAATTTGCTAAAATGCCCC
66 ATTACCAAAATACCCTAATCTATAAAATTACTAAAATACCAC
* * * ** **
16959568 TGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTAG-TTTGTGA
1 TGATTTATAAAATTACAAAAATACCCCTAGTTTACAAAATTACCAAAATACC-CTAGATCAGTGA
* * *
16959632 AATTACCGAAATACCCTCAATTTGTAAAATTACTAAAATACCAC
65 AATTACCAAAATACCCT-AATCTATAAAATTACTAAAATACCAC
*
16959676 TGATTTATAAAATTGCAAAAATACCC
1 TGATTTATAAAATTACAAAAATACCC
16959702 TTAGACTTTC
Statistics
Matches: 109, Mismatches: 23, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
107 65 0.60
108 44 0.40
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (107 bp):
TGATTTATAAAATTACAAAAATACCCCTAGTTTACAAAATTACCAAAATACCCTAGATCAGTGAA
ATTACCAAAATACCCTAATCTATAAAATTACTAAAATACCAC
Found at i:16959883 original size:27 final size:27
Alignment explanation
Indices: 16959819--16959883 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
16959809 ACCCCTATTA
* *
16959819 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAACCCCTGTAG
* * *
16959846 GGTAAAGTGACTGTAAAACCCCTGTAT
1 GGTAAAATGACCGTAAAACCCCTGTAG
16959873 GGTAAAATGAC
1 GGTAAAATGAC
16959884 GAATATGCCC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAACCCCTGTAG
Found at i:16960713 original size:25 final size:25
Alignment explanation
Indices: 16960675--16960768 Score: 136
Period size: 25 Copynumber: 3.8 Consensus size: 25
16960665 AGGAAGTGCT
* * *
16960675 AAAAAGGCTATGCCTCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
16960700 AAAAGGGCTTTGCCCCAGTTTACTG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
16960725 AAAAGGGCTTTGCCCCAGTTTATC-
1 AAAAGGGCTTTGCCCCAGTTTACCG
16960749 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
16960769 ATTAAAAGAG
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
24 20 0.32
25 43 0.68
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:16960757 original size:24 final size:24
Alignment explanation
Indices: 16960675--16960781 Score: 126
Period size: 25 Copynumber: 4.4 Consensus size: 24
16960665 AGGAAGTGCT
* * * *
16960675 AAAAAGGCTATGCCTCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
*
16960699 GAAAAGGGCTTTGCCCCAGTTTACTG
1 -AAAAGGGCTTTGCCCCAGTTTA-TC
16960725 AAAAGGGCTTTGCCCCAGTTTATC
1 AAAAGGGCTTTGCCCCAGTTTATC
*
16960749 AAAAGGGCTTTGCCCCAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATC
16960772 AAAAGAGGCT
1 AAAAG-GGCT
16960782 AGGCCTCCAG
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
23 9 0.12
24 23 0.32
25 41 0.56
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:16961024 original size:31 final size:31
Alignment explanation
Indices: 16960988--16961096 Score: 191
Period size: 31 Copynumber: 3.5 Consensus size: 31
16960978 ATTTACAGTA
*
16960988 AAGGCTTCGGCCTAGTGATATGATTTATGAT
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
16961019 AAGGCTTCGGCCCAGTGATATGATTTATGAT
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
* *
16961050 AAGGCTTCGGCCCAGTGATGTGATTTATGAA
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
16961081 AAGGCTTCGGCCCAGT
1 AAGGCTTCGGCCCAGT
16961097 AACCGTTAAA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 75 1.00
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (31 bp):
AAGGCTTCGGCCCAGTGATATGATTTATGAT
Found at i:16963421 original size:41 final size:40
Alignment explanation
Indices: 16963359--16963528 Score: 161
Period size: 41 Copynumber: 4.2 Consensus size: 40
16963349 AGTCCGACTC
*
16963359 TTAG-CACCGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
* * *
16963398 TTAGACTACTGGCTCGAAGGCCCTTCG-GAACTAAG-TCCGG-
1 TTAGAC-ACTGGCTCAAAAGCCCTTCGAG-ACCAAGCT-CGGA
* * *
16963438 TTATGACACTGGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTTA
1 TTA-GACACTGGCTC--AAAAGCCCTTCGAGACCAAGCTCGG--A
16963483 TTAG-CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
16963522 TTTAGAC
1 -TTAGAC
16963529 CCCGATTAGC
Statistics
Matches: 107, Mismatches: 10, Indels: 26
0.75 0.07 0.18
Matches are distributed among these distances:
39 5 0.05
40 18 0.17
41 51 0.48
42 19 0.18
43 10 0.09
44 1 0.01
45 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
Done.