Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 188 of 335
Found at i:56563891 original size:40 final size:40
Alignment explanation
Indices: 56563807--56563991 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
56563797 TCGAATGATG
* *
56563807 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
56563846 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
56563887 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
56563926 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
56563965 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
56563992 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
39 36 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:56563943 original size:79 final size:81
Alignment explanation
Indices: 56563807--56563989 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
56563797 TCGAATGATG
* *
56563807 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
56563871 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * **
56563886 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
56563948 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
56563966 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
56563990 TGAACGAGTA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 60 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:56564013 original size:79 final size:78
Alignment explanation
Indices: 56563808--56564024 Score: 237
Period size: 79 Copynumber: 2.7 Consensus size: 78
56563798 CGAATGATGT
* *
56563808 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAG-TCCGAAGGCATT
*
56563871 TGTGCGAGTTACTAATT
62 TGTGCGAGTTACTAATA
* *
56563888 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGT-CCGAAGGCATTT
56563951 GTGCGAGTTACT-ATAA
63 GTGCGAGTTACTAAT-A
* ** *
56563967 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTT-AAGTCCGAAGG
56564025 TACGTGATTC
Statistics
Matches: 117, Mismatches: 11, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
78 3 0.03
79 68 0.58
80 46 0.39
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGTCCGAAGGCATTTGTG
CGAGTTACTAATA
Found at i:56569774 original size:40 final size:40
Alignment explanation
Indices: 56569737--56569868 Score: 151
Period size: 40 Copynumber: 3.3 Consensus size: 40
56569727 GCTACTCGTT
*
56569737 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
* * *
56569777 CAGATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* ** *
56569817 CAAATGCCTTC-GGATCTTAGTCTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAACTCGCA
*
56569857 CGAATGCCTTCG
1 CAAATGCCTTCG
56569869 ATCTTAGTCC
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 3 0.04
40 74 0.94
41 2 0.03
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:56569905 original size:39 final size:39
Alignment explanation
Indices: 56569798--56569907 Score: 125
Period size: 39 Copynumber: 2.8 Consensus size: 39
56569788 GGGACTTAAC
*
56569798 CCGGATTTAGTAACTCA-CACAAATGCCTTCGGATCTTAGT
1 CCGGATTTAGTAACTTAGCACAAA-GCCTTC-GATCTTAGT
* * *
56569838 CTGGATTTAGTAAC-TCGCACGAATGCCTTCGATCTTAGT
1 CCGGATTTAGTAACTTAGCAC-AAAGCCTTCGATCTTAGT
* *
56569877 CCGGATATAGTCACTTAGCACAAAGCCTTCG
1 CCGGATTTAGTAACTTAGCACAAAGCCTTCG
56569908 GGACTTAGCC
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
39 29 0.50
40 27 0.47
41 2 0.03
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTAACTTAGCACAAAGCCTTCGATCTTAGT
Found at i:56575157 original size:39 final size:40
Alignment explanation
Indices: 56575049--56575233 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
56575039 TCGAATGATG
* *
56575049 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
56575088 ATCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
56575129 TCCGGGCTAAG-CTCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
56575168 TCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
56575207 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
56575234 AATGAGTAGC
Statistics
Matches: 120, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
39 33 0.28
40 77 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:56575255 original size:79 final size:79
Alignment explanation
Indices: 56575105--56575266 Score: 177
Period size: 79 Copynumber: 2.1 Consensus size: 79
56575095 CTAAGATCCA
* * * **
56575105 AAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCTCGAAGGCATTGGTGCGAGTTACTAAATC
1 AAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATC
*
56575170 CAGGTTAAGTCCCG
66 CAGGTTAAATCCCG
* * * *
56575184 AAGGCATTTGTGCGAGTGACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAATGAG-TAGCTAT
1 AAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAA
*
56575247 ATCC-GGTTAAATTCCG
63 ATCCAGGTTAAATCCCG
56575263 AAGG
1 AAGG
56575267 TACGTGATTC
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
78 2 0.03
79 45 0.65
80 22 0.32
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.27
Consensus pattern (79 bp):
AAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATC
CAGGTTAAATCCCG
Found at i:56577122 original size:2 final size:2
Alignment explanation
Indices: 56577115--56577142 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
56577105 ATCGGGTATG
56577115 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
56577143 GTATGCCCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:56577622 original size:24 final size:24
Alignment explanation
Indices: 56577590--56577796 Score: 324
Period size: 24 Copynumber: 8.6 Consensus size: 24
56577580 TATCTCAAAT
*
56577590 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTCACTATG
56577614 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTCACTATG
56577638 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTCACTATG
56577662 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTCACTATG
56577686 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTCACTATG
*
56577710 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTCACTATG
* * *
56577734 GCACTAAGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTCACTATG
* ** *
56577758 GCACTACGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTCACTATG
*
56577782 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
56577797 ACATAATAAG
Statistics
Matches: 175, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 175 1.00
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGATTCACTATG
Found at i:56584868 original size:2 final size:2
Alignment explanation
Indices: 56584861--56584886 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
56584851 ATCGGGTATG
56584861 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
56584887 AGTATGCCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:56585368 original size:24 final size:24
Alignment explanation
Indices: 56585336--56585518 Score: 285
Period size: 24 Copynumber: 7.6 Consensus size: 24
56585326 TATCTCAAAT
56585336 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
56585360 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
*
56585384 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
*
56585408 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
56585432 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
* *
56585456 GCACTAAGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
* * *
56585480 GCACTACGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
*
56585504 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
56585519 ACATAATAAG
Statistics
Matches: 151, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 151 1.00
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:56585531 original size:48 final size:48
Alignment explanation
Indices: 56585336--56585540 Score: 270
Period size: 48 Copynumber: 4.3 Consensus size: 48
56585326 TATCTCAAAT
* *
56585336 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATACACTATA
* * *
56585384 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATACACTATA
* **
56585432 GCACTATGTGTGCGATTTACTATGGCACTAAGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATACACTATA
* * * *
56585480 GCACTACGTGTGCGATTTGCTATAGCTCTATGTGTGCGA-ACA-TAATAA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATACACT-AT-A
56585528 GCACTATGTGTGC
1 GCACTATGTGTGC
56585541 CACATTCGGT
Statistics
Matches: 142, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
46 1 0.01
47 3 0.02
48 138 0.97
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATACACTATA
Found at i:56585532 original size:72 final size:72
Alignment explanation
Indices: 56585336--56585540 Score: 245
Period size: 72 Copynumber: 2.8 Consensus size: 72
56585326 TATCTCAAAT
*
56585336 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCACT-AT-GGCACTATGTGTGCGA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGA-ACA-TAATAGGCACTATGTGTGCGA
*
56585399 TTCACTATG
64 TTCACTATA
* ** * *
56585408 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCG-ATTTACTATGGCACTAAGTGTGCGAT
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA-GGCACTATGTGTGCGAT
*
56585472 TTACTATA
65 TCACTATA
* * * * *
56585480 GCACTACGTGTGCGATTTGCTATAGCTCTATGTGTGCGAACATAATAAGCACTATGTGTGC
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAGGCACTATGTGTGC
56585541 CACATTCGGT
Statistics
Matches: 111, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
69 1 0.01
70 1 0.01
72 104 0.94
73 5 0.05
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (72 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAGGCACTATGTGTGCGATT
CACTATA
Found at i:56588433 original size:40 final size:40
Alignment explanation
Indices: 56588378--56588565 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
56588368 TGAATGATAC
* * *
56588378 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
56588418 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * *
56588458 CTGGGCTAAGACCCGAAGGCATTCGTGAGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * *
56588498 CCGGGCTAAGACCCGAAGGCATTAGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
56588538 CCGGGTTAAGACCCGAAGGCAATTGTGC
1 CCGGGCTAAGACCCGAAGGCATTTGTGC
56588566 TTGTGGTTAT
Statistics
Matches: 133, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
40 131 0.98
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:56588575 original size:80 final size:80
Alignment explanation
Indices: 56588374--56588585 Score: 275
Period size: 80 Copynumber: 2.7 Consensus size: 80
56588364 CATTTGAATG
* * * *
56588374 ATACCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCA
* *
56588439 TTCGTGCGAGTTGTT
66 TTAGTGCGAGTTGCT
* * ** *
56588454 ATATCTGGGCTAAGACCCGAAGGC-ATTCGTGAGAGTTGTTATATCCGGGCTAAGACCCGAAGGC
1 ATACCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGC
56588518 ATTAGTGCGAGTTGCT
65 ATTAGTGCGAGTTGCT
* * *
56588534 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATTC-GGCTAA
1 ATACCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATATCCGGGCTAA
56588586 ATTCCAAAGA
Statistics
Matches: 111, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 8 0.07
80 100 0.90
81 3 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
ATACCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCA
TTAGTGCGAGTTGCT
Found at i:56588809 original size:24 final size:24
Alignment explanation
Indices: 56588788--56588840 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
56588778 GTTGATGAAG
56588788 TGTGAAGTAAGTATGATTATGAGAA
1 TGTGAAGTAA-TATGATTATGAGAA
* *
56588813 TGTGTATTAATATGATTATGAGAA
1 TGTGAAGTAATATGATTATGAGAA
56588837 TGTG
1 TGTG
56588841 TATTAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 18 0.69
25 8 0.31
ACGTcount: A:0.36, C:0.00, G:0.26, T:0.38
Consensus pattern (24 bp):
TGTGAAGTAATATGATTATGAGAA
Found at i:56588841 original size:24 final size:24
Alignment explanation
Indices: 56588799--56588848 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
56588789 GTGAAGTAAG
56588799 TATGATTATGAGAATGTGTATTAA
1 TATGATTATGAGAATGTGTATTAA
56588823 TATGATTATGAGAATGTGTATTAA
1 TATGATTATGAGAATGTGTATTAA
56588847 TA
1 TA
56588849 AAGTGATTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (24 bp):
TATGATTATGAGAATGTGTATTAA
Found at i:56592488 original size:40 final size:40
Alignment explanation
Indices: 56592433--56592640 Score: 258
Period size: 40 Copynumber: 5.2 Consensus size: 40
56592423 TGAATGATAC
* *
56592433 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
56592473 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
56592513 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
56592553 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
56592593 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
56592633 CC-GGCTAA
1 CCGGGCTAA
56592641 ATTCCGAAGA
Statistics
Matches: 146, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 6 0.04
40 138 0.95
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:56599246 original size:28 final size:27
Alignment explanation
Indices: 56599183--56599252 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
56599173 ATAGTGAGTC
56599183 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
56599210 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
56599238 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56599253 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:56607294 original size:28 final size:27
Alignment explanation
Indices: 56607231--56607300 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
56607221 ATAGTGAGTC
56607231 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
56607258 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
56607286 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56607301 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:56607781 original size:2 final size:2
Alignment explanation
Indices: 56607769--56607807 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
56607759 ACGAACGGGC
*
56607769 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
56607808 CACACTTCCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:56610051 original size:35 final size:35
Alignment explanation
Indices: 56610012--56610081 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
56610002 GTCTAGGATC
* * *
56610012 ACATATCTTTGAAGATCCCCTTCCATATTTTCCAA
1 ACATATCTTTAAAGATCACCTTCCACATTTTCCAA
* *
56610047 ACATATCTTTAAAGATTACTTTCCACATTTTCCAA
1 ACATATCTTTAAAGATCACCTTCCACATTTTCCAA
56610082 GCTCCGGAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.31, C:0.26, G:0.04, T:0.39
Consensus pattern (35 bp):
ACATATCTTTAAAGATCACCTTCCACATTTTCCAA
Found at i:56611290 original size:26 final size:27
Alignment explanation
Indices: 56611186--56611290 Score: 86
Period size: 27 Copynumber: 3.9 Consensus size: 27
56611176 AAACATATAT
* *** **
56611186 CACATAGGGGCAAAACAATCATTTTTC
1 CACATAAGGGCAAAATTGTCATTTTAA
* *
56611213 CACATAA-GGCAAAACTGCCATTTTAA
1 CACATAAGGGCAAAATTGTCATTTTAA
* * *
56611239 CACATAAGGGCAAAATAGTTATTTTTA
1 CACATAAGGGCAAAATTGTCATTTTAA
* *
56611266 TACATAAGGGAAAAATTGTCATTTT
1 CACATAAGGGCAAAATTGTCATTTT
56611291 GCCCTATAGG
Statistics
Matches: 62, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
26 21 0.34
27 41 0.66
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (27 bp):
CACATAAGGGCAAAATTGTCATTTTAA
Found at i:56611342 original size:27 final size:27
Alignment explanation
Indices: 56611283--56611335 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
56611273 GGGAAAAATT
* * *
56611283 GTCATTTTGCCCTATAGGGGTATTACA
1 GTCATTTTACCCGACAGGGGTATTACA
56611310 GTCATTTTACCCGACAGGGGTATTAC
1 GTCATTTTACCCGACAGGGGTATTAC
56611336 GATCATTCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCCGACAGGGGTATTACA
Found at i:56613538 original size:17 final size:18
Alignment explanation
Indices: 56613511--56613546 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
56613501 AATCAAATAT
56613511 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
56613529 ATGC-TATTAATTTATTA
1 ATGCATATTAAATTATTA
56613546 A
1 A
56613547 AACAAGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:56617399 original size:27 final size:26
Alignment explanation
Indices: 56617316--56617391 Score: 82
Period size: 27 Copynumber: 2.9 Consensus size: 26
56617306 TTCGATTTGG
* * *
56617316 AAAATTATCAAAATACCCTTGGTTTGA
1 AAAATTACCGAAATACCCTTGG-TTGT
*
56617343 AAAATTACCGAAATACCCCTGGTTCGT
1 AAAATTACCGAAATACCCTTGGTT-GT
*
56617370 AAAATTACTGAAATA-CCTTGGT
1 AAAATTACCGAAATACCCTTGGT
56617392 AGTGTAAATA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
26 8 0.19
27 34 0.81
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.30
Consensus pattern (26 bp):
AAAATTACCGAAATACCCTTGGTTGT
Found at i:56617530 original size:27 final size:27
Alignment explanation
Indices: 56617421--56617522 Score: 98
Period size: 27 Copynumber: 3.8 Consensus size: 27
56617411 CACTTGAAGT
* * * *
56617421 GTAAAATGACTGTAATGCCACTATAAG
1 GTAAAATGACCGTAATACCCCTATAGG
* * ** *
56617448 GT-AATTGACCGTAACACCTTTGTAGG
1 GTAAAATGACCGTAATACCCCTATAGG
* *
56617474 GTAAAATGATCGTAATGCCCCTATAGG
1 GTAAAATGACCGTAATACCCCTATAGG
56617501 GTAAAATGACCGTAATACCCCT
1 GTAAAATGACCGTAATACCCCT
56617523 GTGTGGTAGA
Statistics
Matches: 57, Mismatches: 17, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
26 18 0.32
27 39 0.68
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (27 bp):
GTAAAATGACCGTAATACCCCTATAGG
Found at i:56621272 original size:27 final size:26
Alignment explanation
Indices: 56621242--56621373 Score: 113
Period size: 27 Copynumber: 5.0 Consensus size: 26
56621232 AAATTATCAA
* *
56621242 AATACCCCGGTAGTGTAAAATGAGCGT
1 AATACCCCTGTAGGGTAAAATGA-CGT
* *
56621269 AATATCCTTGTAGGGTAAAATGACTGT
1 AATACCCCTGTAGGGTAAAATGAC-GT
* * *
56621296 AATGCCCCTGTAAGGT-AATTGATCGT
1 AATACCCCTGTAGGGTAAAATGA-CGT
* *
56621322 AATACCCTTGTAGGGTAAAATAACCGT
1 AATACCCCTGTAGGGTAAAATGA-CGT
* * *
56621349 AATACTCCTGTATGGTAGAATGACG
1 AATACCCCTGTAGGGTAAAATGACG
56621374 ATTATGCCCT
Statistics
Matches: 82, Mismatches: 20, Indels: 7
0.75 0.18 0.06
Matches are distributed among these distances:
26 23 0.28
27 59 0.72
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.28
Consensus pattern (26 bp):
AATACCCCTGTAGGGTAAAATGACGT
Found at i:56632512 original size:49 final size:49
Alignment explanation
Indices: 56632435--56633187 Score: 1182
Period size: 49 Copynumber: 15.4 Consensus size: 49
56632425 ATCAAGATTC
* *
56632435 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
56632484 GCGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * *
56632533 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGCGATGAAT
1 GTGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
56632582 GCGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * *
56632631 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGCGATGAAT
1 GTGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
56632680 GCGAAAATGTATGTATATGTGATCAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * *
56632729 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGCGATGAAT
1 GTGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
56632778 GCGAAAATGCATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * *
56632827 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGCGATGAAT
1 GTGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
56632876 GCGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * *
56632925 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGCGATGAAT
1 GTGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
56632974 GCGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTAATGAAT
1 GTGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * *
56633023 GTGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
1 GTGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * *
56633072 GTGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
1 GTGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
56633121 GCGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
56633170 GTGAAAGTGTATATATAT
1 GTGAAAATGTATGTATAT
56633188 ATGTGGTAAA
Statistics
Matches: 648, Mismatches: 56, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 648 1.00
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.29
Consensus pattern (49 bp):
GTGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:56632547 original size:98 final size:98
Alignment explanation
Indices: 56632435--56633187 Score: 1308
Period size: 98 Copynumber: 7.7 Consensus size: 98
56632425 ATCAAGATTC
*
56632435 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGCGAAAATGTATGTAT
1 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGCGATGAATGCGAAAATGTATGTAT
56632500 ATGTGATAAGGCCTAATGGCCGATGTGATGAAT
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAAT
56632533 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGCGATGAATGCGAAAATGTATGTAT
1 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGCGATGAATGCGAAAATGTATGTAT
56632598 ATGTGATAAGGCCTAATGGCCGATGTGATGAAT
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAAT
56632631 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGCGATGAATGCGAAAATGTATGTAT
1 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGCGATGAATGCGAAAATGTATGTAT
*
56632696 ATGTGATCAGGCCTAATGGCCGATGTGATGAAT
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
56632729 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGCGATGAATGCGAAAATGCATGTAT
1 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGCGATGAATGCGAAAATGTATGTAT
56632794 ATGTGATAAGGCCTAATGGCCGATGTGATGAAT
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAAT
56632827 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGCGATGAATGCGAAAATGTATGTAT
1 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGCGATGAATGCGAAAATGTATGTAT
56632892 ATGTGATAAGGCCTAATGGCCGATGTGATGAAT
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAAT
56632925 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGCGATGAATGCGAAAATGTATGTAT
1 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGCGATGAATGCGAAAATGTATGTAT
*
56632990 ATGTGATAAGGCCTAATGGCCGATGTAATGAAT
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * * * * * * * *
56633023 GTGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTATATGTAT
1 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGCGATGAATGCGAAAATGTATGTAT
*
56633088 ATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * * * * * * *
56633121 GCGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGCGATGAATGCGAAAATGTATGTAT
56633186 AT
66 AT
56633188 ATGTGGTAAA
Statistics
Matches: 633, Mismatches: 22, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 633 1.00
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.29
Consensus pattern (98 bp):
GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGCGATGAATGCGAAAATGTATGTAT
ATGTGATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:56633311 original size:37 final size:37
Alignment explanation
Indices: 56633256--56633342 Score: 131
Period size: 37 Copynumber: 2.3 Consensus size: 37
56633246 AACTTGGAAA
56633256 TATGTTCCGGGTGA-GACCCGATAACTACGTGTGGAGAT
1 TATG-TCCGGGT-ACGACCCGATAACTACGTGTGGAGAT
* *
56633294 TATGTCTGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTACGACCCGATAACTACGTGTGGAGAT
56633331 TATGTCCGGGTA
1 TATGTCCGGGTA
56633343 AGACTTCGTA
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
36 1 0.02
37 40 0.89
38 4 0.09
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (37 bp):
TATGTCCGGGTACGACCCGATAACTACGTGTGGAGAT
Found at i:56635251 original size:40 final size:40
Alignment explanation
Indices: 56635205--56635504 Score: 288
Period size: 40 Copynumber: 7.5 Consensus size: 40
56635195 TGAATGATAC
* *
56635205 CCGGGCTAAGTCCCGAAG-GCATTTATGCTAGTGAATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTTGTGCTAGTG-ATGTAT
* * * *
56635245 CCGGGCTAAGACCCGAAG-GCATTTGTG-TGAGTTGTTATAC
1 CCGGGCTAAGTCCCGAAGAGCATTTGTGCT-AG-TGATGTAT
* * * * * *
56635285 CCGGGTTAAGACCCGAAG-GCAATTGTGCTTGTGGTTTTAT
1 CCGGGCTAAGTCCCGAAGAGCATTTGTGCTAGT-GATGTAT
* *
56635325 CC-GGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTTGTGCTAGTGATGTAT
* * *
56635364 CCGGACTAAGTTCCGAAGAGCA-TTCTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTTGTGCTAGTGATGTAT
* * * *
56635403 CCGGACTAAGTTCCGAGGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTTGTGCTAGTGATGTAT
* * * *
56635443 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGCAT
1 CCGGGCTAAGTCCCGAAGAGCATTTGTGCTAGTGATGTAT
*
56635483 CCGGGCTAGGTCCCGAAGAGCA
1 CCGGGCTAAGTCCCGAAGAGCA
56635505 ATCATGCTGG
Statistics
Matches: 225, Mismatches: 28, Indels: 14
0.84 0.10 0.05
Matches are distributed among these distances:
39 57 0.25
40 165 0.73
41 3 0.01
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGAGCATTTGTGCTAGTGATGTAT
Found at i:56635412 original size:79 final size:79
Alignment explanation
Indices: 56635322--56635504 Score: 305
Period size: 79 Copynumber: 2.3 Consensus size: 79
56635312 CTTGTGGTTT
56635322 TATCCGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCAT
1 TATCCGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCAT
56635387 TC-TGCTAGTGATG
66 TCGTGCTAGTGATG
*
56635400 TATCCGGACTAAGTTCCGAGGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCA
1 TATCCGG-CTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCA
56635465 TTCGTGCTAGTGATG
65 TTCGTGCTAGTGATG
* * *
56635480 CATCCGGGCTAGGTCCCGAAGAGCA
1 TATCC-GGCTAAGTTCCGAAGAGCA
56635505 ATCATGCTGG
Statistics
Matches: 97, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
78 7 0.07
79 59 0.61
80 29 0.30
81 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
TATCCGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCAT
TCGTGCTAGTGATG
Found at i:56639421 original size:49 final size:49
Alignment explanation
Indices: 56639344--56639932 Score: 845
Period size: 49 Copynumber: 12.4 Consensus size: 49
56639334 ATCAAGATTC
* *
56639344 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
56639393 GTGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * *
56639442 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGCGATGAAT
1 GTGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
56639491 GCGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATG-GATGAAT
1 GTGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
56639539 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
56639588 GTGAAAATGTATGTATATGTGAT-AGGCCTAATGGCCGATG-GATGAAT
1 GTGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
56639635 GCG-AAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
56639683 GCG-AAA-GTA--TATATGTGAT-AGGCCTAATGGCCGA--TGATGAAT
1 GTGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * * *
56639725 GCGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGAATGAAC
1 GTGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTG-ATGAAT
* *
56639775 GTG-AAA-G-ATATATATGTGATGAGGCCTAATGGCCGA--TG-TGAAT
1 GTGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * *
56639818 GCG-AAATGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAAT
1 GTGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
56639866 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
56639915 GTGAAAGTGTATATATAT
1 GTGAAAATGTATGTATAT
56639933 ATGTGGTAAA
Statistics
Matches: 494, Mismatches: 29, Indels: 34
0.89 0.05 0.06
Matches are distributed among these distances:
42 11 0.02
43 11 0.02
44 18 0.04
45 40 0.08
46 29 0.06
47 73 0.15
48 82 0.17
49 223 0.45
50 7 0.01
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.29
Consensus pattern (49 bp):
GTGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:56640056 original size:37 final size:36
Alignment explanation
Indices: 56640001--56640087 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
56639991 AACTTGGAAA
56640001 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
56640039 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
56640076 TATGTCCGGGTA
1 TATGTCCGGGTA
56640088 AGACTTCGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 43 0.90
38 4 0.08
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:56641976 original size:13 final size:13
Alignment explanation
Indices: 56641958--56641982 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56641948 GATTCGGCTC
56641958 TAGCATATATATA
1 TAGCATATATATA
56641971 TAGCATATATAT
1 TAGCATATATAT
56641983 TGTATAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (13 bp):
TAGCATATATATA
Found at i:56642793 original size:40 final size:40
Alignment explanation
Indices: 56642738--56642904 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
56642728 TGAATGATAC
* *
56642738 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
56642778 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * **
56642818 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCA-AT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
56642857 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
56642897 CC-GGCTAA
1 CCGGGCTAA
56642905 ATTCCGAAGA
Statistics
Matches: 106, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
39 37 0.35
40 67 0.63
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:56642894 original size:79 final size:80
Alignment explanation
Indices: 56642738--56642904 Score: 214
Period size: 79 Copynumber: 2.1 Consensus size: 80
56642728 TGAATGATAC
* * **
56642738 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCATATCCGGGCTAAGACCCGAAGGCATTCG
*
56642803 TGCGAGTTGTTATAT
66 TGCGAGTGGTTATAT
* * *
56642818 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCA-ATCCGGGTTAAGACCCGAAGGCAATT-
1 CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCATATCCGGGCTAAGACCCGAAGGC-ATTC
**
56642881 GTGCTTGTGGTTATAT
65 GTGCGAGTGGTTATAT
56642897 CC-GGCTAA
1 CCGGGCTAA
56642905 ATTCCGAAGA
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
78 6 0.08
79 36 0.47
80 34 0.45
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCATATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTGGTTATAT
Found at i:56650862 original size:40 final size:41
Alignment explanation
Indices: 56650807--56650973 Score: 182
Period size: 40 Copynumber: 4.2 Consensus size: 41
56650797 GAATGATACT
* *
56650807 CGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCTAGCTGATTATATC
* * *
56650847 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCTAGCTGATTATATC
* ** *
56650887 CGGGCTAAGACCCGAAGGCATTTGTGCAAGCT-ACCAAATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCTAGCTGATTATATC
* * * *
56650927 CGGGTTAAGACCCGAAGGCAATTGTGCTTG-TGGTTATATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCTAGCTGATTATATC
56650967 C-GGCTAA
1 CGGGCTAA
56650974 ATTCCGAAGA
Statistics
Matches: 105, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
39 6 0.06
40 97 0.92
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (41 bp):
CGGGCTAAGACCCGAAGGCATTTGTGCTAGCTGATTATATC
Found at i:56650940 original size:80 final size:80
Alignment explanation
Indices: 56650807--56650973 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 80
56650797 GAATGATACT
* * ** *
56650807 CGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGC-ATTCG
1 CGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCAATT-G
*
56650871 TGCGAGTTGTTATATC
65 TGCGAGTGGTTATATC
* *
56650887 CGGGCTAAGACCCGAAGGCATTTGTGCAAGCT-ACCAAATCCGGGTTAAGACCCGAAGGCAATTG
1 CGGGCTAAGACCCGAAGGCATTTATGCAAG-TGACCAAATCCGGGCTAAGACCCGAAGGCAATTG
**
56650951 TGCTTGTGGTTATATC
65 TGCGAGTGGTTATATC
56650967 C-GGCTAA
1 CGGGCTAA
56650974 ATTCCGAAGA
Statistics
Matches: 75, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
79 6 0.08
80 65 0.87
81 4 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
CGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCAATTGT
GCGAGTGGTTATATC
Found at i:56652604 original size:40 final size:40
Alignment explanation
Indices: 56652559--56652726 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
56652549 CGGAATATAA
56652559 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
56652599 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
56652639 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
56652679 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
56652719 CCGGATAT
1 CCGGATAT
56652727 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:56657999 original size:27 final size:27
Alignment explanation
Indices: 56657961--56658040 Score: 90
Period size: 27 Copynumber: 3.0 Consensus size: 27
56657951 AAGCGTCCTG
56657961 GTGGCTATGCCACAATTATCTGTTCTA
1 GTGGCTATGCCACAATTATCTGTTCTA
* * * *
56657988 GTGGCTCTGCCACAAATATTTGTATCTT
1 GTGGCTATGCCACAATTATCTGT-TCTA
* *
56658016 GTGACTATGTCAC-ATTATCTGTTCT
1 GTGGCTATGCCACAATTATCTGTTCT
56658041 GGCAGCCATG
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
26 3 0.07
27 27 0.63
28 13 0.30
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.40
Consensus pattern (27 bp):
GTGGCTATGCCACAATTATCTGTTCTA
Found at i:56660225 original size:47 final size:45
Alignment explanation
Indices: 56660174--56660271 Score: 115
Period size: 46 Copynumber: 2.1 Consensus size: 45
56660164 GATTTCCATA
* * * *
56660174 TAAGACCATAGCTAGGCTACGGCATCGGTGTGATATGTGCTTCTGTG
1 TAAGACCATAGCT-GGCAACGGCATCAGTGTGATATGTG-ATCCGTG
* * *
56660221 TAAGACCATATCTGGGAATGGCATCAGTGTGATATGTGATCCGTG
1 TAAGACCATAGCTGGCAACGGCATCAGTGTGATATGTGATCCGTG
56660266 TAAGAC
1 TAAGAC
56660272 TGTGGCCGGG
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
45 11 0.25
46 21 0.48
47 12 0.27
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (45 bp):
TAAGACCATAGCTGGCAACGGCATCAGTGTGATATGTGATCCGTG
Found at i:56661638 original size:43 final size:43
Alignment explanation
Indices: 56661591--56661745 Score: 161
Period size: 43 Copynumber: 3.6 Consensus size: 43
56661581 ATTACTGAGA
* *
56661591 TGTGATTACATGTACGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* *
56661634 TGTGATTACGTGTAAGACCATGTCTGGAACATTGGCATCGTTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TAT
* * * ** *
56661678 T-CGATTTCATGTAAGACCCTGTCTATGACAGTGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * *
56661719 ATGTAATAACATGTAAGACCATATCTG
1 -TGTGATTACATGTAAGACCATGTCTG
56661746 AGATATGGCA
Statistics
Matches: 90, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
41 2 0.02
42 1 0.01
43 83 0.92
44 4 0.04
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:56677465 original size:28 final size:29
Alignment explanation
Indices: 56677398--56677468 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 29
56677388 ATAGTGAATC
*
56677398 CGCACACTTAGTGCTATATACATTCAGCT
1 CGCACACTTAGTGCTATATACATTCAACT
56677427 CGCACACTTAGTGCTATATA-A-TCAAACT
1 CGCACACTTAGTGCTATATACATTC-AACT
56677455 CGCACACTTAGTGC
1 CGCACACTTAGTGC
56677469 CGTACAATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 18 0.45
29 20 0.50
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATACATTCAACT
Found at i:56685240 original size:29 final size:28
Alignment explanation
Indices: 56685207--56685277 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 28
56685197 ATAGTGAATC
*
56685207 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-A-TCAAACT
56685236 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
56685264 CGCACA-TTAGTGCT
1 CGCACACTTAGTGCT
56685278 GTACAATTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
27 10 0.25
28 10 0.25
29 20 0.50
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:56689080 original size:8 final size:8
Alignment explanation
Indices: 56689067--56689098 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
56689057 CTAGATCGGC
56689067 AAAAGCCG
1 AAAAGCCG
56689075 AAAAGCCG
1 AAAAGCCG
*
56689083 AAATGCCG
1 AAAAGCCG
56689091 AAAAGCCG
1 AAAAGCCG
56689099 GTATTTTGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.25, G:0.25, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:56689383 original size:28 final size:28
Alignment explanation
Indices: 56689343--56689410 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
56689333 TAGATGTGCT
*
56689343 ATTATACCCCTATGTACGCAAAATTACC
1 ATTATACCCCTATGTACGCAAAATGACC
*
56689371 ATTATACCCCTATGTATGCAAAATGACC
1 ATTATACCCCTATGTACGCAAAATGACC
*
56689399 TTTATACCCCTA
1 ATTATACCCCTA
56689411 GGGTTAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.34, C:0.28, G:0.07, T:0.31
Consensus pattern (28 bp):
ATTATACCCCTATGTACGCAAAATGACC
Found at i:56689574 original size:27 final size:27
Alignment explanation
Indices: 56689516--56689605 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 27
56689506 AGGAAGCGTC
56689516 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
56689544 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
*
56689571 CTGGTGGCACTACCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
56689600 CTGGTG
1 CTGGTG
56689606 ACTCTGTCAG
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
27 22 0.41
28 25 0.46
29 7 0.13
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:56696318 original size:40 final size:40
Alignment explanation
Indices: 56696274--56696349 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
56696264 CGGCTAAGAA
*
56696274 TGGCACTTAGTGTGCGGTTTGAAATAGCTTCGGCTAAATG
1 TGGCACTTAGTGTGCGATTTGAAATAGCTTCGGCTAAATG
* *
56696314 TGGCACTTGGTGTGCGATTTGAGATAGCTTCGGCTA
1 TGGCACTTAGTGTGCGATTTGAAATAGCTTCGGCTA
56696350 TATATATGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.20, C:0.16, G:0.32, T:0.33
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTTGAAATAGCTTCGGCTAAATG
Found at i:56696394 original size:28 final size:28
Alignment explanation
Indices: 56696362--56696434 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 28
56696352 TATATGTATG
* * *
56696362 TGGCACTTAGTGTGTGAAATGTTGAGAA
1 TGGCACTTAGTGTGCGAAATATTAAGAA
* * *
56696390 TGGCACTTGGTGTGCGAGATATTAAGTA
1 TGGCACTTAGTGTGCGAAATATTAAGAA
*
56696418 TGGCACTGAGTGTGCGA
1 TGGCACTTAGTGTGCGA
56696435 GACATCGAAG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.25, C:0.11, G:0.34, T:0.30
Consensus pattern (28 bp):
TGGCACTTAGTGTGCGAAATATTAAGAA
Found at i:56699035 original size:37 final size:37
Alignment explanation
Indices: 56698978--56699106 Score: 192
Period size: 37 Copynumber: 3.5 Consensus size: 37
56698968 GGCAATACAT
56698978 GTGATA-CGTGTAAGACCATAGCTGGGCTATGGCATC
1 GTGATAGCGTGTAAGACCATAGCTGGGCTATGGCATC
* *
56699014 GTAATAGTGTGTAAGACCATAGCTGGGCTATGGCATC
1 GTGATAGCGTGTAAGACCATAGCTGGGCTATGGCATC
* *
56699051 GTGAT-GACATGTAAGACCATAGCTGGGCTATGGCATT
1 GTGATAG-CGTGTAAGACCATAGCTGGGCTATGGCATC
56699088 GTGATA-CGTGTAAGACCAT
1 GTGATAGCGTGTAAGACCAT
56699107 GTCTAGGACA
Statistics
Matches: 83, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
36 18 0.22
37 65 0.78
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.26
Consensus pattern (37 bp):
GTGATAGCGTGTAAGACCATAGCTGGGCTATGGCATC
Found at i:56699318 original size:42 final size:42
Alignment explanation
Indices: 56699094--56699318 Score: 148
Period size: 42 Copynumber: 5.2 Consensus size: 42
56699084 CATTGTGATA
* * * *
56699094 CGTGTAAGACCATGTCTAGGACATGGCATCAATATGAGA-TC
1 CGTGTAAGACCATGTCTGGGACACGGCATCGATATGAGACTT
*
56699135 CTGTGTAAGACCATGTCTAGGATATCGCATCGGCATCGATATGAGA-TT
1 C-GTGTAAGACCATGTCT-GG-GA---CA-CGGCATCGATATGAGACTT
* * * ** * * *
56699183 ACGTGTAAGACCATATCTGAGATATTGCTTCGGTATGAGATTT
1 -CGTGTAAGACCATGTCTGGGACACGGCATCGATATGAGACTT
* * ** * * *
56699226 TGTGTAAGACCGTGTCTGGGATGCGGCATCAATATGTGATTT
1 CGTGTAAGACCATGTCTGGGACACGGCATCGATATGAGACTT
* * * *
56699268 CATATAAGACCATGTCTGGGACACGGCATCGATGTGAGACAT
1 CGTGTAAGACCATGTCTGGGACACGGCATCGATATGAGACTT
56699310 CGTGTAAGA
1 CGTGTAAGA
56699319 TTGTAGTTGG
Statistics
Matches: 138, Mismatches: 37, Indels: 17
0.72 0.19 0.09
Matches are distributed among these distances:
41 1 0.01
42 97 0.70
43 4 0.03
44 1 0.01
46 1 0.01
47 3 0.02
48 30 0.22
49 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.28
Consensus pattern (42 bp):
CGTGTAAGACCATGTCTGGGACACGGCATCGATATGAGACTT
Found at i:56703124 original size:40 final size:40
Alignment explanation
Indices: 56703080--56703155 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
56703070 CGGCTAAGAA
*
56703080 TGGCACTTAGTGTGCGGTTTGAAATAGCTTCGGCTAAATG
1 TGGCACTTAGTGTGCGATTTGAAATAGCTTCGGCTAAATG
* *
56703120 TGGCACTTGGTGTGCGATTTGAGATAGCTTCGGCTA
1 TGGCACTTAGTGTGCGATTTGAAATAGCTTCGGCTA
56703156 TATATATATG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.20, C:0.16, G:0.32, T:0.33
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTTGAAATAGCTTCGGCTAAATG
Found at i:56703239 original size:28 final size:28
Alignment explanation
Indices: 56703166--56703240 Score: 96
Period size: 28 Copynumber: 2.7 Consensus size: 28
56703156 TATATATATG
* *
56703166 TGGCACTTAGTGTGTGAAATATTGAGAA
1 TGGCACTTAGTGTGCGAGATATTGAGAA
* *
56703194 TGGCACTTGGTGTGCGAGATATTGAGTA
1 TGGCACTTAGTGTGCGAGATATTGAGAA
* *
56703222 TGGCACTTTGTATGCGAGA
1 TGGCACTTAGTGTGCGAGA
56703241 CATCGAAGAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.25, C:0.11, G:0.32, T:0.32
Consensus pattern (28 bp):
TGGCACTTAGTGTGCGAGATATTGAGAA
Found at i:56703810 original size:18 final size:18
Alignment explanation
Indices: 56703787--56703821 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
56703777 AAACCTTAAT
56703787 AAATCTATTTTCAAAAAA
1 AAATCTATTTTCAAAAAA
56703805 AAATCTATTTTCAAAAA
1 AAATCTATTTTCAAAAA
56703822 CAACAAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.34
Consensus pattern (18 bp):
AAATCTATTTTCAAAAAA
Found at i:56717003 original size:27 final size:27
Alignment explanation
Indices: 56716948--56717306 Score: 295
Period size: 27 Copynumber: 13.3 Consensus size: 27
56716938 CGATACCAAT
56716948 GGTATTTCTGTAAGTTTTA-AAAGTCAAG
1 GGTATTTCTGTAA-TTTTACAAA-TCAAG
* *
56716976 GGTATTTCTGTAATTTTATAAATTAAG
1 GGTATTTCTGTAATTTTACAAATCAAG
* * *
56717003 GGTATTTCTATAATTTTCCAAATTAAG
1 GGTATTTCTGTAATTTTACAAATCAAG
* *
56717030 GGTATTTCGGTAATTTTCCAAATCAAG
1 GGTATTTCTGTAATTTTACAAATCAAG
* *
56717057 GGTATTTCAGTAATTTTCCAAATCAAG
1 GGTATTTCTGTAATTTTACAAATCAAG
* *
56717084 GGTATTT-TGGTAATTTTCCAAGTCAAG
1 GGTATTTCT-GTAATTTTACAAATCAAG
* **
56717111 GGTAGTTT-GGTAATTTTACAAATTGAG
1 GGTA-TTTCTGTAATTTTACAAATCAAG
** *
56717138 GGTATTTC-GATAATTTTACAGGTCGAG
1 GGTATTTCTG-TAATTTTACAAATCAAG
** *
56717165 GGTATTTC-GATAATTTTACAGGTCGAG
1 GGTATTTCTG-TAATTTTACAAATCAAG
* * *
56717192 GGTATTTCAGTAATTTTACAAATTAGG
1 GGTATTTCTGTAATTTTACAAATCAAG
*
56717219 GGTATTT-TGGTAATTTTACAAA-CTAGG
1 GGTATTTCT-GTAATTTTACAAATC-AAG
* * *
56717246 GGTATTT-TGGTAATTTTTCTAATCGAG
1 GGTATTTCT-GTAATTTTACAAATCAAG
** *
56717273 GGTATTT-TGGTAATTTTGTAAACCAAG
1 GGTATTTCT-GTAATTTTACAAATCAAG
56717300 GGTATTT
1 GGTATTT
56717307 AGTAATTCTA
Statistics
Matches: 288, Mismatches: 34, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
26 4 0.01
27 263 0.91
28 21 0.07
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (27 bp):
GGTATTTCTGTAATTTTACAAATCAAG
Found at i:56717112 original size:81 final size:81
Alignment explanation
Indices: 56716948--56717313 Score: 341
Period size: 81 Copynumber: 4.5 Consensus size: 81
56716938 CGATACCAAT
* * * *
56716948 GGTATTTCTGTAAGTTTTA-AAAGTCAAGGGTATTTCTGTAATTTTATAAATTAAGGGTATTTCT
1 GGTATTTCGGTAA-TTTTACAAA-TCAAGGGTATTTCAGTAATTTTACAAATCAAGGGTATTT-T
* *
56717012 -ATAATTTTCCAAATTAAG
63 GATAATTTTCCAAGTCAAG
* * *
56717030 GGTATTTCGGTAATTTTCCAAATCAAGGGTATTTCAGTAATTTTCCAAATCAAGGGTATTTTGGT
1 GGTATTTCGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAAATCAAGGGTATTTTGAT
56717095 AATTTTCCAAGTCAAG
66 AATTTTCCAAGTCAAG
** ** * *
56717111 GGTAGTTT-GGTAATTTTACAAATTGAGGGTATTTC-GATAATTTTACAGGTCGAGGGTATTTCG
1 GGTA-TTTCGGTAATTTTACAAATCAAGGGTATTTCAG-TAATTTTACAAATCAAGGGTATTTTG
* * *
56717174 ATAATTTTACAGGTCGAG
64 ATAATTTTCCAAGTCAAG
* * * ** * *
56717192 GGTATTTCAGTAATTTTACAAATTAGGGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGG
1 GGTATTTCGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAAATC-AAGGGTATTTTGA
* *
56717256 TAATTTTTCTAA-TCGAG
65 TAA-TTTTCCAAGTCAAG
* ** *
56717273 GGTATTTTGGTAATTTTGTAAACCAAGGGTATTT-AGTAATT
1 GGTATTTCGGTAATTTTACAAATCAAGGGTATTTCAGTAATT
56717314 CTACCCTACA
Statistics
Matches: 234, Mismatches: 42, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
80 12 0.05
81 198 0.85
82 24 0.10
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (81 bp):
GGTATTTCGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAAATCAAGGGTATTTTGAT
AATTTTCCAAGTCAAG
Found at i:56717339 original size:27 final size:27
Alignment explanation
Indices: 56717303--56717405 Score: 145
Period size: 27 Copynumber: 3.9 Consensus size: 27
56717293 AACCAAGGGT
56717303 ATTT-AGTAATTCTACCCTACAGGGGC
1 ATTTCAGTAATTCTACCCTACAGGGGC
* **
56717329 ATTTCAGTAATTCTATCCTACAATGGC
1 ATTTCAGTAATTCTACCCTACAGGGGC
*
56717356 ATTTCAGTAATTCTACCCTACAGGGGT
1 ATTTCAGTAATTCTACCCTACAGGGGC
* *
56717383 ATTTCAGTAATACTAGCCTACAG
1 ATTTCAGTAATTCTACCCTACAG
56717406 ATATGAGATT
Statistics
Matches: 67, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 4 0.06
27 63 0.94
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (27 bp):
ATTTCAGTAATTCTACCCTACAGGGGC
Found at i:56717370 original size:54 final size:53
Alignment explanation
Indices: 56717303--56717404 Score: 168
Period size: 54 Copynumber: 1.9 Consensus size: 53
56717293 AACCAAGGGT
* *
56717303 ATTTAGTAATTCTACCCTACAGGGGCATTTCAGTAATTCTATCCTACAATGGC
1 ATTTAGTAATTCTACCCTACAGGGGCATTTCAGTAATACTAGCCTACAATGGC
*
56717356 ATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATACTAGCCTACA
1 ATTT-AGTAATTCTACCCTACAGGGGCATTTCAGTAATACTAGCCTACA
56717405 GATATGAGAT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
53 4 0.09
54 41 0.91
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (53 bp):
ATTTAGTAATTCTACCCTACAGGGGCATTTCAGTAATACTAGCCTACAATGGC
Found at i:56729123 original size:40 final size:40
Alignment explanation
Indices: 56729068--56729191 Score: 149
Period size: 40 Copynumber: 3.1 Consensus size: 40
56729058 TGAATGATAC
* *
56729068 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * ** *
56729108 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
56729148 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
56729188 CCGG
1 CCGG
56729192 TTAAATTCCG
Statistics
Matches: 68, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 68 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:56730979 original size:24 final size:23
Alignment explanation
Indices: 56730938--56730982 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
56730928 TTAAACTAAA
*
56730938 TTCTTTTTTATTTCTTTTAATAT
1 TTCTTTTTTATTTATTTTAATAT
*
56730961 TTCTTTTTTTTGTTATTTTAAT
1 TTCTTTTTTAT-TTATTTTAAT
56730983 TGTAAATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.76
Consensus pattern (23 bp):
TTCTTTTTTATTTATTTTAATAT
Found at i:56734162 original size:26 final size:26
Alignment explanation
Indices: 56734126--56734211 Score: 145
Period size: 26 Copynumber: 3.3 Consensus size: 26
56734116 TTTCTCGAAT
56734126 CGAGTCGAGTGAGATGGAATTCAAAA
1 CGAGTCGAGTGAGATGGAATTCAAAA
56734152 CGAGTCGAGTGAGATGGAATTCAAAA
1 CGAGTCGAGTGAGATGGAATTCAAAA
* *
56734178 CGAGTCGAGTGAGATGAAATTCAAAT
1 CGAGTCGAGTGAGATGGAATTCAAAA
*
56734204 CGAATCGA
1 CGAGTCGA
56734212 ATCGAATATA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 57 1.00
ACGTcount: A:0.38, C:0.13, G:0.29, T:0.20
Consensus pattern (26 bp):
CGAGTCGAGTGAGATGGAATTCAAAA
Found at i:56735314 original size:19 final size:19
Alignment explanation
Indices: 56735292--56735328 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
56735282 AAAATTGGAG
* *
56735292 TTTGGGGGGAAGTAAAAGT
1 TTTGGGGGAAAGCAAAAGT
56735311 TTTGGGGGAAAGCAAAAG
1 TTTGGGGGAAAGCAAAAG
56735329 GAAAAAAGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.41, T:0.22
Consensus pattern (19 bp):
TTTGGGGGAAAGCAAAAGT
Found at i:56735339 original size:27 final size:28
Alignment explanation
Indices: 56735305--56735363 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 28
56735295 GGGGGGAAGT
56735305 AAAAGTTTTGGGG-GAAAGCAAAAGGAA
1 AAAAGTTTTGGGGAGAAAGCAAAAGGAA
*
56735332 AAAAGTTTTGGGGAGAAAGTAAAAGGAA
1 AAAAGTTTTGGGGAGAAAGCAAAAGGAA
56735360 AAAA
1 AAAA
56735364 ATTGTGGGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 13 0.43
28 17 0.57
ACGTcount: A:0.53, C:0.02, G:0.31, T:0.15
Consensus pattern (28 bp):
AAAAGTTTTGGGGAGAAAGCAAAAGGAA
Found at i:56735371 original size:28 final size:27
Alignment explanation
Indices: 56735313--56735371 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 27
56735303 GTAAAAGTTT
* *
56735313 TGGGGGAAAGCAAAAGGAAAAAAGTTT
1 TGGGGGAAAGCAAAAGGAAAAAAATTG
*
56735340 TGGGGAGAAAGTAAAAGGAAAAAAATTG
1 TGGGG-GAAAGCAAAAGGAAAAAAATTG
56735368 TGGG
1 TGGG
56735372 TTTGGAGGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 5 0.18
28 23 0.82
ACGTcount: A:0.47, C:0.02, G:0.36, T:0.15
Consensus pattern (27 bp):
TGGGGGAAAGCAAAAGGAAAAAAATTG
Found at i:56735415 original size:80 final size:77
Alignment explanation
Indices: 56735279--56735434 Score: 213
Period size: 80 Copynumber: 2.0 Consensus size: 77
56735269 TAAATTTGAA
* * *
56735279 AAAAAAATTGGAGTTTGGGGGGAAGTAAAAGTTTTGGGGGAAAGCAAAAGGAAAAAAGTTTTGGG
1 AAAAAAATTGGAGTTTGGAGGGAAGTAAAAGTTTTGGGAGAAAACAAAAGGAAAAAAGTTTT-GG
56735344 GAGAAAGTAAAAGG
65 G-GAAAGTAAAAGG
* * *
56735358 AAAAAAATTGTGGGTTTGGAGGGAAGTAACAGTTTTAGGGAGAAAATAAAAGGAAAAAAGTTTTG
1 AAAAAAATTG-GAGTTTGGAGGGAAGTAAAAGTTTT-GGGAGAAAACAAAAGGAAAAAAGTTTTG
*
56735423 TGGAAAGTAAAA
64 GGGAAAGTAAAA
56735435 TTTTTAAGAA
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
79 20 0.29
80 24 0.35
81 24 0.35
ACGTcount: A:0.46, C:0.01, G:0.32, T:0.21
Consensus pattern (77 bp):
AAAAAAATTGGAGTTTGGAGGGAAGTAAAAGTTTTGGGAGAAAACAAAAGGAAAAAAGTTTTGGG
GAAAGTAAAAGG
Found at i:56735538 original size:28 final size:28
Alignment explanation
Indices: 56735500--56735561 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
56735490 AAGGGGAAGT
* * *
56735500 AAAAGTTTTGGGGAGAAAGTAAAAGGAA
1 AAAAGTCTTGGGAAGAAAATAAAAGGAA
56735528 AAAAGTCTTGGGAAGAAAATAAAAGGAA
1 AAAAGTCTTGGGAAGAAAATAAAAGGAA
56735556 AAAAGT
1 AAAAGT
56735562 TTTGAGGGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.55, C:0.02, G:0.27, T:0.16
Consensus pattern (28 bp):
AAAAGTCTTGGGAAGAAAATAAAAGGAA
Found at i:56735957 original size:16 final size:16
Alignment explanation
Indices: 56735935--56735993 Score: 73
Period size: 16 Copynumber: 3.7 Consensus size: 16
56735925 ACGTTTGGTT
56735935 AGCTGTAATAAAATAG
1 AGCTGTAATAAAATAG
* **
56735951 GGCTGTAATGGAATAG
1 AGCTGTAATAAAATAG
**
56735967 AGCTGTAATGGAATAG
1 AGCTGTAATAAAATAG
56735983 AGCTGTAATAA
1 AGCTGTAATAA
56735994 GTAATTCAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.41, C:0.07, G:0.27, T:0.25
Consensus pattern (16 bp):
AGCTGTAATAAAATAG
Found at i:56741444 original size:11 final size:11
Alignment explanation
Indices: 56741428--56741452 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
56741418 TGAGGTAGAA
56741428 ATTATTATTTT
1 ATTATTATTTT
56741439 ATTATTATTTT
1 ATTATTATTTT
56741450 ATT
1 ATT
56741453 TTCTACAGCA
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:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
ATTATTATTTT
Found at i:56743914 original size:12 final size:12
Alignment explanation
Indices: 56743897--56743924 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
56743887 ACAGGTTTGG
56743897 CACGGCCTAGCA
1 CACGGCCTAGCA
56743909 CACGGCCTAGCA
1 CACGGCCTAGCA
56743921 CACG
1 CACG
56743925 AGTGTGTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.43, G:0.25, T:0.07
Consensus pattern (12 bp):
CACGGCCTAGCA
Found at i:56749649 original size:12 final size:12
Alignment explanation
Indices: 56749632--56749656 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56749622 ATGTAAGTGA
56749632 TCTTGATGATTT
1 TCTTGATGATTT
56749644 TCTTGATGATTT
1 TCTTGATGATTT
56749656 T
1 T
56749657 TACATTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:56752367 original size:25 final size:26
Alignment explanation
Indices: 56752339--56752395 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
56752329 CAGCTTTTAG
*
56752339 AGGAGAAAGAACCC-AAA-GCACAAAA
1 AGGAGAAACAACCCGAAATGC-CAAAA
*
56752364 AGGAAAAACAACCCGAAATGCCAAAA
1 AGGAGAAACAACCCGAAATGCCAAAA
56752390 A-GAGAA
1 AGGAGAA
56752396 TTCAACACCT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 16 0.59
26 9 0.33
27 2 0.07
ACGTcount: A:0.60, C:0.19, G:0.19, T:0.02
Consensus pattern (26 bp):
AGGAGAAACAACCCGAAATGCCAAAA
Found at i:56756555 original size:25 final size:26
Alignment explanation
Indices: 56756527--56756583 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
56756517 CAGCTTTTAG
*
56756527 AGGAGAAAGAACCC-AAA-GCACAAAA
1 AGGAGAAACAACCCGAAATGC-CAAAA
*
56756552 AGGAAAAACAACCCGAAATGCCAAAA
1 AGGAGAAACAACCCGAAATGCCAAAA
56756578 A-GAGAA
1 AGGAGAA
56756584 TTCAACACCT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 16 0.59
26 9 0.33
27 2 0.07
ACGTcount: A:0.60, C:0.19, G:0.19, T:0.02
Consensus pattern (26 bp):
AGGAGAAACAACCCGAAATGCCAAAA
Found at i:56759280 original size:33 final size:33
Alignment explanation
Indices: 56759237--56759339 Score: 188
Period size: 33 Copynumber: 3.1 Consensus size: 33
56759227 AATTAGCATA
*
56759237 ATTATAATCAAGTATTTTAGGCTTAGCTTACTC
1 ATTATCATCAAGTATTTTAGGCTTAGCTTACTC
*
56759270 ATTATCATCAAATATTTTAGGCTTAGCTTACTC
1 ATTATCATCAAGTATTTTAGGCTTAGCTTACTC
56759303 ATTATCATCAAGTATTTTAGGCTTAGCTTACTC
1 ATTATCATCAAGTATTTTAGGCTTAGCTTACTC
56759336 ATTA
1 ATTA
56759340 GCATTCTTAC
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 67 1.00
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.43
Consensus pattern (33 bp):
ATTATCATCAAGTATTTTAGGCTTAGCTTACTC
Found at i:56761717 original size:31 final size:31
Alignment explanation
Indices: 56761679--56761757 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
56761669 TTTAACGGTT
*
56761679 ACTGGGCCAAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
56761710 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
56761741 ACTCGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
56761758 ACTGTAAACG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:56761828 original size:42 final size:42
Alignment explanation
Indices: 56761781--56761872 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
56761771 TGGCCCTTAG
* ** *
56761781 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
56761823 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
56761865 GCCCATTT
1 GCCCATTT
56761873 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:56762054 original size:25 final size:25
Alignment explanation
Indices: 56762020--56762089 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
56762010 CTCTTTTAAT
* *
56762020 AACTTGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAGAGCCCTTTTC-GATA
*
56762045 AACTGGGGCAGAGCCCTTTTCGGTA
1 AACTGGGGCAGAGCCCTTTTCGATA
56762070 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAGAGCCCTTTT
56762090 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 37 0.90
26 4 0.10
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAGAGCCCTTTTCGATA
Found at i:56766720 original size:40 final size:39
Alignment explanation
Indices: 56766664--56766841 Score: 216
Period size: 40 Copynumber: 4.5 Consensus size: 39
56766654 ATGATACCCA
* **
56766664 GGCTAAGTCCCGAAGGCATTTATGGTAG-TGATTATATCCG
1 GGCTAAGACCCGAAGGCATTCGTGG-AGTTG-TTATATCCG
*
56766704 AGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATCCG
1 GGCTAAGACCCGAAGGCATTCGTG-GAGTTGTTATATCCG
*
56766744 GGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTATATCCG
1 GGCTAAGACCCGAAGGCATTCGTG-GAGTTGTTATATCCG
* *
56766784 GGCTAAGACCCGAAGGCATTAGTGCGAGTTGCTATA-CCTG
1 GGCTAAGACCCGAAGGCATTCGTG-GAGTTGTTATATCC-G
*
56766824 GGTTAAGACCCGAAGGCA
1 GGCTAAGACCCGAAGGCA
56766842 ATTGTTGTGG
Statistics
Matches: 125, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
39 2 0.02
40 120 0.96
41 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (39 bp):
GGCTAAGACCCGAAGGCATTCGTGGAGTTGTTATATCCG
Found at i:56766797 original size:80 final size:80
Alignment explanation
Indices: 56766664--56766841 Score: 243
Period size: 80 Copynumber: 2.2 Consensus size: 80
56766654 ATGATACCCA
* * ** *
56766664 GGCTAAGTCCCGAAGGCATTTATGGTAGTGATTATATCCGAGCTAAGACCCGAAGGCATTCGTGC
1 GGCTAAGACCCGAAGGCATTCATGCAAGTGATTATATCCGAGCTAAGACCCGAAGGCATTAGTGC
*
56766729 GAGTTGTTATATCC-G
66 GAGTTGCTATA-CCTG
* *
56766744 GGCTAAGACCCGAAGGCATTCGTGCAAGTTG-TTATATCCGGGCTAAGACCCGAAGGCATTAGTG
1 GGCTAAGACCCGAAGGCATTCATGCAAG-TGATTATATCCGAGCTAAGACCCGAAGGCATTAGTG
56766808 CGAGTTGCTATACCTG
65 CGAGTTGCTATACCTG
*
56766824 GGTTAAGACCCGAAGGCA
1 GGCTAAGACCCGAAGGCA
56766842 ATTGTTGTGG
Statistics
Matches: 87, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 2 0.02
80 83 0.95
81 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (80 bp):
GGCTAAGACCCGAAGGCATTCATGCAAGTGATTATATCCGAGCTAAGACCCGAAGGCATTAGTGC
GAGTTGCTATACCTG
Found at i:56767105 original size:24 final size:24
Alignment explanation
Indices: 56767078--56767127 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
56767068 GTCAAGTAAG
56767078 TATGATTATGAGAATGTGTATTAA
1 TATGATTATGAGAATGTGTATTAA
56767102 TATGATTATGAGAATGTGTATTAA
1 TATGATTATGAGAATGTGTATTAA
56767126 TA
1 TA
56767128 AAGTGATTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (24 bp):
TATGATTATGAGAATGTGTATTAA
Found at i:56774991 original size:40 final size:40
Alignment explanation
Indices: 56774936--56775143 Score: 260
Period size: 40 Copynumber: 5.2 Consensus size: 40
56774926 TGAATGATAC
* *
56774936 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATAT
*
56774976 CCGGGCTAAGACCCGAAGGCATTCGTG-TGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCT-AGTTGTTATAT
* *
56775016 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
* * * *
56775056 CCGGGCTAAGACCCGAAGGCATTAGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
* * * *
56775096 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
56775136 CC-GGCTAA
1 CCGGGCTAA
56775144 ATTCCAAAGA
Statistics
Matches: 149, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 6 0.04
40 141 0.95
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
Found at i:56775367 original size:24 final size:24
Alignment explanation
Indices: 56775346--56775398 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
56775336 GTTGATGAGG
56775346 TGTGAAGTAAGTATGATTATGAGAA
1 TGTGAAGTAA-TATGATTATGAGAA
* *
56775371 TGTGTATTAATATGATTATGAGAA
1 TGTGAAGTAATATGATTATGAGAA
56775395 TGTG
1 TGTG
56775399 TATTAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 18 0.69
25 8 0.31
ACGTcount: A:0.36, C:0.00, G:0.26, T:0.38
Consensus pattern (24 bp):
TGTGAAGTAATATGATTATGAGAA
Found at i:56775399 original size:24 final size:24
Alignment explanation
Indices: 56775357--56775406 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
56775347 GTGAAGTAAG
56775357 TATGATTATGAGAATGTGTATTAA
1 TATGATTATGAGAATGTGTATTAA
56775381 TATGATTATGAGAATGTGTATTAA
1 TATGATTATGAGAATGTGTATTAA
56775405 TA
1 TA
56775407 AAGTGATTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (24 bp):
TATGATTATGAGAATGTGTATTAA
Found at i:56780121 original size:37 final size:37
Alignment explanation
Indices: 56780063--56780170 Score: 162
Period size: 37 Copynumber: 2.9 Consensus size: 37
56780053 TAGCTCGAAT
* *
56780063 AATCCCCACACGTAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
* * * *
56780100 AATCTCCACACATAGTCATCGGATCTTACCTGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
56780137 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
56780171 ATATATTTCC
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
Found at i:56780363 original size:48 final size:48
Alignment explanation
Indices: 56780303--56781132 Score: 1273
Period size: 48 Copynumber: 17.2 Consensus size: 48
56780293 CGGCCACAAT
* * *
56780303 ATATACACATCTCATACATATTTCACATTAGCCATTCAGCTTTACCAC
1 ATATACATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCAC
* *
56780351 ATATACATATCTCATACATATTTCACATTAGCCATTCGGATTTACCAC
1 ATATACATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCAC
* *
56780399 ATATATATATCTAATACATATTTCATATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCAC
* *
56780447 ATATATATATATATCTCATACATATTTCATGTTAGCCATTCGGCTTTACCAC
1 ----ATATACATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCAC
* * * *
56780499 ATATACATATCTCATACCTATTTCACATTAGCCGTTCGGATTTACCAC
1 ATATACATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCAC
* * *
56780547 ATATACATATCTCATACATATTTCATGTTAGCCGTTCGGATTTACCAC
1 ATATACATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCAC
* * *
56780595 ATATACATATCTCATACATATTTCATGTTAGCCGTTCGACTTTACCAC
1 ATATACATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCAC
* *
56780643 ATATATATATCTCATACATATTTCATGTTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCAC
*
56780691 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCAC
* *
56780739 ATATACATATCTCATACATATTTCACATTAGACATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCAC
* * * *
56780787 ATATATATATCTCATACATATTTCACATTAGCCATTCGGATTTACCAT
1 ATATACATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCAC
* *
56780835 ATATATATATCTCATACATATTTCATGTTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCAC
* *
56780883 ATATATATATCTCATACATATTTCATGTTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCAC
* *
56780931 ATATACATATCTCATACATATTTCACATTAGCCATTCGGATTTACCAC
1 ATATACATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCAC
*
56780979 ATATATATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCAC
*
56781027 ATATATATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCAC
*
56781075 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCAC
* *
56781123 ACATATATAT
1 ATATACATAT
56781133 ATTTATCTTG
Statistics
Matches: 732, Mismatches: 46, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
48 686 0.94
52 46 0.06
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (48 bp):
ATATACATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCAC
Found at i:56784026 original size:13 final size:13
Alignment explanation
Indices: 56784008--56784037 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
56783998 ATAACTCAAC
56784008 GAATACTCTAATA
1 GAATACTCTAATA
56784021 GAATACTCTAATA
1 GAATACTCTAATA
56784034 GAAT
1 GAAT
56784038 TCTCAAGCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.47, C:0.13, G:0.10, T:0.30
Consensus pattern (13 bp):
GAATACTCTAATA
Found at i:56786425 original size:43 final size:42
Alignment explanation
Indices: 56786296--56786427 Score: 126
Period size: 43 Copynumber: 3.1 Consensus size: 42
56786286 AGATTACATT
* * *
56786296 TAAGACCACGTTTGGGGCATTGGCATTG-TATTGCAATTGT-GTG
1 TAAGACCATGTCTGGGACATTGGCATTGTTATTG--ATT-TCGTG
* * * *
56786339 TAAGACCATGTCAGGGACATTAGCATCGTTA-TGCTATTACGTG
1 TAAGACCATGTCTGGGACATTGGCATTGTTATTG--ATTTCGTG
56786382 TAAGACCATGTCTGGGACATTGGCATTGTTATATGATTTCGTG
1 TAAGACCATGTCTGGGACATTGGCATTGTTAT-TGATTTCGTG
56786425 TAA
1 TAA
56786428 AACCCTATTT
Statistics
Matches: 73, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
43 69 0.95
44 2 0.03
45 2 0.03
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (42 bp):
TAAGACCATGTCTGGGACATTGGCATTGTTATTGATTTCGTG
Found at i:56791694 original size:28 final size:28
Alignment explanation
Indices: 56791654--56791721 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
56791644 TAGATGTACT
*
56791654 ATTATACCCCTATGTATGCAAAATTACC
1 ATTATACCCCTATGTATGCAAAATGACC
56791682 ATTATACCCCTATGTATGCAAAATGACC
1 ATTATACCCCTATGTATGCAAAATGACC
*
56791710 TTTATACCCCTA
1 ATTATACCCCTA
56791722 GGGTTAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.34, C:0.26, G:0.07, T:0.32
Consensus pattern (28 bp):
ATTATACCCCTATGTATGCAAAATGACC
Found at i:56791868 original size:28 final size:27
Alignment explanation
Indices: 56791827--56791927 Score: 114
Period size: 28 Copynumber: 3.6 Consensus size: 27
56791817 AGGAAGCATC
56791827 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* **
56791855 CTGGTGGCCCTGCCACGTATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
56791882 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
* *
56791911 CTGGTGACACTGTCACA
1 CTGGTGGCACTGCCACA
56791928 TTTTCTGTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
27 23 0.37
28 24 0.39
29 15 0.24
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.31
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:56791885 original size:27 final size:28
Alignment explanation
Indices: 56791827--56791927 Score: 116
Period size: 27 Copynumber: 3.6 Consensus size: 28
56791817 AGGAAGCATC
*
56791827 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
56791855 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
56791882 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
* *
56791911 CTGGTGACACTGTCACA
1 CTGGTGGCACTGCCACA
56791928 TTTTCTGTAT
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
27 23 0.38
28 22 0.36
29 16 0.26
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.31
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:56791935 original size:55 final size:56
Alignment explanation
Indices: 56791827--56791941 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
56791817 AGGAAGCATC
* * * *
56791827 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACACTGCCACATATATCTGTAT
* *
56791882 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACACTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACACTGCCACATATATCTGTAT
56791938 CTGG
1 CTGG
56791942 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACACTGCCACATATATCTGTAT
Found at i:56792404 original size:19 final size:19
Alignment explanation
Indices: 56792380--56792418 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
56792370 TTTTAATTAT
* *
56792380 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
56792399 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
56792418 T
1 T
56792419 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:56798573 original size:29 final size:29
Alignment explanation
Indices: 56798540--56798671 Score: 210
Period size: 29 Copynumber: 4.6 Consensus size: 29
56798530 CCTTCGAGCT
** * *
56798540 CGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
56798569 TGCACACTTAGTGTCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
56798598 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
56798627 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
56798656 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
56798672 ATCTCGTCAC
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 95 1.00
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:56798574 original size:58 final size:58
Alignment explanation
Indices: 56798511--56798671 Score: 178
Period size: 58 Copynumber: 2.8 Consensus size: 58
56798501 AATTTAAGCC
* * * * * *
56798511 CGCACACATAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* * * * **
56798569 TGCACACTTAGTGTCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* * **
56798627 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCA
56798672 ATCTCGTCAC
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
58 89 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
Found at i:56812063 original size:40 final size:40
Alignment explanation
Indices: 56811825--56812040 Score: 281
Period size: 40 Copynumber: 5.4 Consensus size: 40
56811815 GATACCCAGA
* ** *
56811825 CTAAGTCCCGAAGGCATTTATGCTAG-TGATTATATCCGGG
1 CTAAGACCCGAAGGCATTCGTGCAAGTTG-TTATATCCGGG
* *
56811865 CTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATCTGGG
1 CTAAGACCCGAAGGCATTCGTGCAAGTTGTTATATCCGGG
*
56811905 CTAAGACCCAAAGGCATTCGTGCAAGTTGTTATATCCGGG
1 CTAAGACCCGAAGGCATTCGTGCAAGTTGTTATATCCGGG
* *
56811945 CTAAGACCCAAAGGCATTCGTGCGAGTTGTTATATCCGGG
1 CTAAGACCCGAAGGCATTCGTGCAAGTTGTTATATCCGGG
* *** *
56811985 CTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGG
1 CTAAGACCCGAAGGCATTCGTGCAAGTTGTTATATCCGGG
*
56812025 TTAAGACCCGAAGGCA
1 CTAAGACCCGAAGGCA
56812041 ATTGTGCTTG
Statistics
Matches: 158, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 156 0.99
41 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
CTAAGACCCGAAGGCATTCGTGCAAGTTGTTATATCCGGG
Found at i:56812063 original size:80 final size:80
Alignment explanation
Indices: 56811825--56812040 Score: 315
Period size: 80 Copynumber: 2.7 Consensus size: 80
56811815 GATACCCAGA
* * * *
56811825 CTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA
1 CTAAGACCCGAAGGCATTTGTGCAAGTTATTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA
*
56811890 GTTGTTATATCTGGG
66 GTTGTTATATCCGGG
* * * *
56811905 CTAAGACCCAAAGGCATTCGTGCAAGTTGTTATATCCGGGCTAAGACCCAAAGGCATTCGTGCGA
1 CTAAGACCCGAAGGCATTTGTGCAAGTTATTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA
56811970 GTTGTTATATCCGGG
66 GTTGTTATATCCGGG
** * *
56811985 CTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCA
1 CTAAGACCCGAAGGCATTTGTGCAAGTTATTATATCCGGGCTAAGACCCGAAGGCA
56812041 ATTGTGCTTG
Statistics
Matches: 119, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
80 119 1.00
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
CTAAGACCCGAAGGCATTTGTGCAAGTTATTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA
GTTGTTATATCCGGG
Found at i:56814331 original size:28 final size:28
Alignment explanation
Indices: 56814290--56814360 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
56814280 GATGTCTCGT
56814290 ACACTAAGTGCCATACTCAATATCTT-GC
1 ACACTAAGTGCCATACTCAATAT-TTGGC
* * * *
56814318 ACACCAAGTTCCATTCTTAATATTTGGC
1 ACACTAAGTGCCATACTCAATATTTGGC
56814346 ACACTAAGTGCCATA
1 ACACTAAGTGCCATA
56814361 TACATATAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
27 2 0.06
28 33 0.94
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.30
Consensus pattern (28 bp):
ACACTAAGTGCCATACTCAATATTTGGC
Found at i:56831064 original size:42 final size:42
Alignment explanation
Indices: 56831017--56831190 Score: 185
Period size: 42 Copynumber: 4.1 Consensus size: 42
56831007 TATTTTACTT
56831017 GATGCCATAGT-CCA-ACTATGGTCTTACAC-AAAGTCTCATATC
1 GATGCCATA-TCCCAGAC-ATGGTCTTACACGAAA-TCTCATATC
* * *
56831059 GATGCCATGTCCCAGACATGGTCTTATACGAAATCACATATC
1 GATGCCATATCCCAGACATGGTCTTACACGAAATCTCATATC
** * * *
56831101 GATGCCGCATCCTAGACACGGTCTTACACGAAATCTCATACC
1 GATGCCATATCCCAGACATGGTCTTACACGAAATCTCATATC
* * *
56831143 GAAGCCATATCCCAGATATGGTCTTGCAC-ATAATCTCATATC
1 GATGCCATATCCCAGACATGGTCTTACACGA-AATCTCATATC
56831185 GATGCC
1 GATGCC
56831191 GATGTCATAT
Statistics
Matches: 108, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
41 2 0.02
42 101 0.94
43 5 0.05
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (42 bp):
GATGCCATATCCCAGACATGGTCTTACACGAAATCTCATATC
Found at i:56831158 original size:84 final size:84
Alignment explanation
Indices: 56831036--56831191 Score: 217
Period size: 84 Copynumber: 1.9 Consensus size: 84
56831026 GTCCAACTAT
* * * *
56831036 GGTCTTACACAAAGTCTCATATCGATGCCATGTCCCAGACATGGTCTTATACGA-AATCACATAT
1 GGTCTTACACAAAGTCTCATACCGAAGCCATATCCCAGACATGGTCTTACAC-ATAATCACATAT
56831100 CGATGCCGCATCCTAGACAC
65 CGATGCCGCATCCTAGACAC
* * *
56831120 GGTCTTACACGAAA-TCTCATACCGAAGCCATATCCCAGATATGGTCTTGCACATAATCTCATAT
1 GGTCTTACAC-AAAGTCTCATACCGAAGCCATATCCCAGACATGGTCTTACACATAATCACATAT
56831184 CGATGCCG
65 CGATGCCG
56831192 ATGTCATATC
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
83 1 0.02
84 59 0.94
85 3 0.05
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (84 bp):
GGTCTTACACAAAGTCTCATACCGAAGCCATATCCCAGACATGGTCTTACACATAATCACATATC
GATGCCGCATCCTAGACAC
Found at i:56833062 original size:39 final size:38
Alignment explanation
Indices: 56833019--56833109 Score: 114
Period size: 37 Copynumber: 2.4 Consensus size: 38
56833009 ATAAAGCCTG
* * *
56833019 CGGGTTTTTAACCCGGATAAAATCTCAACACGTGGTCAT
1 CGGGTTCTT-ACCCGGACAAAATCTCAACACGTAGTCAT
* *
56833058 CGGG-TCTTACCCGGACAGAATCTCCACACGTAGTCAT
1 CGGGTTCTTACCCGGACAAAATCTCAACACGTAGTCAT
56833095 CGGG-TCTTACCCGGA
1 CGGGTTCTTACCCGGA
56833110 ATATATTTCC
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
37 40 0.85
38 3 0.06
39 4 0.09
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (38 bp):
CGGGTTCTTACCCGGACAAAATCTCAACACGTAGTCAT
Found at i:56833080 original size:37 final size:37
Alignment explanation
Indices: 56833029--56833109 Score: 126
Period size: 37 Copynumber: 2.2 Consensus size: 37
56833019 CGGGTTTTTA
* *
56833029 ACCCGGATAAAATCTCAACACGTGGTCATCGGGTCTT
1 ACCCGGACAAAATCTCAACACGTAGTCATCGGGTCTT
* *
56833066 ACCCGGACAGAATCTCCACACGTAGTCATCGGGTCTT
1 ACCCGGACAAAATCTCAACACGTAGTCATCGGGTCTT
56833103 ACCCGGA
1 ACCCGGA
56833110 ATATATTTCC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.26, C:0.31, G:0.22, T:0.21
Consensus pattern (37 bp):
ACCCGGACAAAATCTCAACACGTAGTCATCGGGTCTT
Found at i:56833320 original size:48 final size:48
Alignment explanation
Indices: 56833268--56833384 Score: 180
Period size: 48 Copynumber: 2.4 Consensus size: 48
56833258 TATTGCACAA
* *
56833268 TAGCCATTCGGCTTTACCAAATATACATCCCTCATACATATTTCATAT
1 TAGCCATTCGGCTTTACCAAATATACATACCTCATACATATCTCATAT
* * * *
56833316 TAGCCATTTGGCTTTACCACATATACATATCTCATACATGTCTCATAT
1 TAGCCATTCGGCTTTACCAAATATACATACCTCATACATATCTCATAT
56833364 TAGCCATTCGGCTTTACCAAA
1 TAGCCATTCGGCTTTACCAAA
56833385 CATATATATA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 61 1.00
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.35
Consensus pattern (48 bp):
TAGCCATTCGGCTTTACCAAATATACATACCTCATACATATCTCATAT
Found at i:56835878 original size:48 final size:48
Alignment explanation
Indices: 56835801--56835921 Score: 181
Period size: 48 Copynumber: 2.5 Consensus size: 48
56835791 GGGTGTCACA
* * *
56835801 CTTACACAAGATCTCATATCGAAGCTGATGTCATATCCCAGATATGGT
1 CTTACACAAGATCTCATATAGATGCTGATGCCATATCCCAGATATGGT
* *
56835849 CTTACACAAGATCTCATATTGATGTTGATGCCATATCCCAGATATGGT
1 CTTACACAAGATCTCATATAGATGCTGATGCCATATCCCAGATATGGT
56835897 CTTACAC-AGCATCTCATATAGATGC
1 CTTACACAAG-ATCTCATATAGATGC
56835922 CATGTCCCAT
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
47 2 0.03
48 64 0.97
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.31
Consensus pattern (48 bp):
CTTACACAAGATCTCATATAGATGCTGATGCCATATCCCAGATATGGT
Found at i:56837465 original size:53 final size:52
Alignment explanation
Indices: 56837315--56837481 Score: 169
Period size: 52 Copynumber: 3.2 Consensus size: 52
56837305 TGACGAAAAA
* **
56837315 GATGTGAT-ATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAC
1 GATGTGATAATGTG-TTCCGTATAAGACCATAGCTGGGCTATGGCATCGATGT
* * *
56837367 AATGTGATCCAA-GT-TCCCGTATAAAACCATAGCTGGGCTATGGCATCGATGT
1 GATGTGAT--AATGTGTTCCGTATAAGACCATAGCTGGGCTATGGCATCGATGT
* * *
56837419 GATGTGATAATGTGATTCTGTATAAGACCATATCTGGGATATGGCATCAGTATGT
1 GATGTGATAATGTG-TTCCGTATAAGACCATAGCTGGGCTATGGCATC-G-ATGT
*
56837474 TATGTGAT
1 GATGTGAT
56837482 TCGTGTAAGA
Statistics
Matches: 94, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
50 2 0.02
51 2 0.02
52 47 0.50
53 28 0.30
54 3 0.03
55 12 0.13
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (52 bp):
GATGTGATAATGTGTTCCGTATAAGACCATAGCTGGGCTATGGCATCGATGT
Found at i:56852314 original size:53 final size:52
Alignment explanation
Indices: 56852166--56852366 Score: 186
Period size: 52 Copynumber: 4.0 Consensus size: 52
56852156 TGACCGAATA
* * *
56852166 GATGTGATATGTGCTTCCATATAAGACCATAGCTGGGCTATGGCATCGGTAC
1 GATGTGATATGTGATTCCGTATAAGACCATATCTGGGCTATGGCATCGGTAC
* * **
56852218 AATGTGAT-T-CGAGTTCCCGTATAAGACCATAGT-TGGGCTATGGCATCGGTGT
1 GATGTGATATGTGA-TT-CCGTATAAGACCATA-TCTGGGCTATGGCATCGGTAC
*
56852270 GATGTGATAATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCGGT--
1 GATGTGAT-ATGTGATTCCGTATAAGACCATATCTGGGCTATGGCATCGGTAC
* ** * *
56852321 -ATGT--TATGTGA-TCCGTGTAAGACCATGGCAGGGCTATGGCTTCGGT
1 GATGTGATATGTGATTCCGTATAAGACCATATCTGGGCTATGGCATCGGT
56852367 GTGTGATGTG
Statistics
Matches: 126, Mismatches: 16, Indels: 20
0.78 0.10 0.12
Matches are distributed among these distances:
46 29 0.23
47 6 0.05
48 1 0.01
50 5 0.04
51 3 0.02
52 46 0.37
53 31 0.25
54 3 0.02
55 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (52 bp):
GATGTGATATGTGATTCCGTATAAGACCATATCTGGGCTATGGCATCGGTAC
Found at i:56852359 original size:46 final size:47
Alignment explanation
Indices: 56852173--56852376 Score: 178
Period size: 46 Copynumber: 4.1 Consensus size: 47
56852163 ATAGATGTGA
* *
56852173 TATGTGCTTCCATATAAGACCATAGCTGGGCTATGGCATCGGTACAATGT
1 TATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGT---ATGT
* *
56852223 GAT-TCGAGTTCCCGTATAAGACCATAGTTGGGCTATGGCATCGGTGTGATGT
1 TATGT-GA-TT-CCGTATAAGACCATAGCTGGGCTATGGCATC-G-GT-ATGT
* *
56852275 GATAATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCGGTATGT
1 --T-ATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATGT
* * * * *
56852325 TATGTGA-TCCGTGTAAGACCATGGCAGGGCTATGGCTTCGGTGTGT
1 TATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATGT
*
56852371 GATGTG
1 TATGTG
56852377 TGACAATGTG
Statistics
Matches: 128, Mismatches: 17, Indels: 22
0.77 0.10 0.13
Matches are distributed among these distances:
46 37 0.29
47 6 0.05
48 1 0.01
49 1 0.01
50 7 0.05
51 4 0.03
52 34 0.27
53 29 0.23
54 4 0.03
55 4 0.03
56 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (47 bp):
TATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATGT
Found at i:56854274 original size:40 final size:40
Alignment explanation
Indices: 56854187--56854336 Score: 123
Period size: 40 Copynumber: 3.8 Consensus size: 40
56854177 AATTGAATGA
* * * **
56854187 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* * *
56854227 TAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
56854268 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
56854307 TAT-CGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
56854337 AAATCGTGAT
Statistics
Matches: 89, Mismatches: 13, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
38 1 0.01
39 28 0.31
40 60 0.67
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:56854351 original size:79 final size:79
Alignment explanation
Indices: 56854231--56854377 Score: 179
Period size: 79 Copynumber: 1.9 Consensus size: 79
56854221 AAATTATAAC
* * * *
56854231 CGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCATTCGT
1 CGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCGT
56854296 GCGAGTCATTCTAT
66 GCGAGTCATTCTAT
* * * * * * *
56854310 CGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCCTTGG
1 CGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGCATTCG
56854374 TGCG
65 TGCG
56854378 GGTTACCATA
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
78 1 0.02
79 55 0.98
ACGTcount: A:0.22, C:0.24, G:0.31, T:0.23
Consensus pattern (79 bp):
CGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCGT
GCGAGTCATTCTAT
Found at i:56862464 original size:40 final size:39
Alignment explanation
Indices: 56862299--56862482 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
56862289 AAATTGAATG
* * *
56862299 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
56862339 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
56862379 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
56862419 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
56862458 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
56862483 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:56862507 original size:80 final size:81
Alignment explanation
Indices: 56862339--56862527 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
56862329 GCTGGAAATT
* * * *
56862339 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
56862404 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
56862420 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
56862483 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
56862499 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
56862528 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:56866168 original size:46 final size:46
Alignment explanation
Indices: 56866118--56866290 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
56866108 TGGTTGAGCA
56866118 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
56866164 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
56866209 CATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
56866257 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
56866291 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 59 0.57
47 28 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:56866274 original size:93 final size:93
Alignment explanation
Indices: 56866115--56866285 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
56866105 GGATGGTTGA
* *
56866115 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
56866180 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
56866208 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
56866273 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
56866286 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:56871560 original size:25 final size:24
Alignment explanation
Indices: 56871532--56871610 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 24
56871522 ACTCGGCCCT
56871532 ATCACATATATACACTTTCACATTC
1 ATCACATATATACAC-TTCACATTC
** * *
56871557 ATCACAT-TGGACA-TTCGGCCTT-
1 ATCACATATATACACTTC-ACATTC
56871579 ATCACATATATACACCTTCACATTC
1 ATCACATATATACA-CTTCACATTC
56871604 ATCACAT
1 ATCACAT
56871611 CGGCCATTAG
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
22 10 0.24
23 7 0.17
24 7 0.17
25 17 0.41
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (24 bp):
ATCACATATATACACTTCACATTC
Found at i:56871656 original size:49 final size:49
Alignment explanation
Indices: 56871482--56871753 Score: 360
Period size: 49 Copynumber: 5.7 Consensus size: 49
56871472 CCCTTCGGGA
* * * *
56871482 CTTATCACAT-T-TATACACTTTCACA-TCTATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTC-ATCACATCGGCCATTAGGC
* * * *
56871529 CCTATCAC--ATATATACACTTTCACATTCATCACATTGGACATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56871576 CTTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56871623 CTTATCACATATATATAGACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56871672 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
56871721 CTTATCTCATATTTATACACATTCACATTCATC
1 CTTATCACATATATATACACTTTCACATTCATC
56871754 GCGTAAAATC
Statistics
Matches: 204, Mismatches: 16, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
46 1 0.00
47 87 0.43
48 2 0.01
49 114 0.56
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56876420 original size:27 final size:29
Alignment explanation
Indices: 56876390--56876463 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 29
56876380 ATGTTTTAAT
*
56876390 TCAAGATATATCAATCAAAATCATAAATCAA
1 TCAAAATATATCAATCAAAATCAT-AA-CAA
*
56876421 TCAAAATTTATCAATCAAAATCATAAATCAA
1 TCAAAATATATCAATCAAAATCAT-AA-CAA
*
56876452 TCAAAATTTATC
1 TCAAAATATATC
56876464 CTAAATACGA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.53, C:0.16, G:0.01, T:0.30
Consensus pattern (29 bp):
TCAAAATATATCAATCAAAATCATAACAA
Found at i:56876421 original size:17 final size:17
Alignment explanation
Indices: 56876399--56876458 Score: 90
Period size: 17 Copynumber: 3.7 Consensus size: 17
56876389 TTCAAGATAT
56876399 ATCAATCAAAATCATAA
1 ATCAATCAAAATCATAA
*
56876416 ATCAATCAAAAT--T-T
1 ATCAATCAAAATCATAA
56876430 ATCAATCAAAATCATAA
1 ATCAATCAAAATCATAA
56876447 ATCAATCAAAAT
1 ATCAATCAAAAT
56876459 TTATCCTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
14 12 0.32
15 1 0.03
16 1 0.03
17 24 0.63
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.27
Consensus pattern (17 bp):
ATCAATCAAAATCATAA
Found at i:56876435 original size:14 final size:14
Alignment explanation
Indices: 56876416--56876463 Score: 60
Period size: 14 Copynumber: 3.2 Consensus size: 14
56876406 AAAATCATAA
56876416 ATCAATCAAAATTT
1 ATCAATCAAAATTT
*
56876430 ATCAATCAAAATCATAA
1 ATCAATCAAAAT--T-T
56876447 ATCAATCAAAATTT
1 ATCAATCAAAATTT
56876461 ATC
1 ATC
56876464 CTAAATACGA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
14 15 0.52
15 1 0.03
16 1 0.03
17 12 0.41
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.31
Consensus pattern (14 bp):
ATCAATCAAAATTT
Found at i:56876436 original size:31 final size:31
Alignment explanation
Indices: 56876398--56876463 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
56876388 ATTCAAGATA
56876398 TATCAATCAAAATCATAAATCAATCAAAATT
1 TATCAATCAAAATCATAAATCAATCAAAATT
56876429 TATCAATCAAAATCATAAATCAATCAAAATT
1 TATCAATCAAAATCATAAATCAATCAAAATT
56876460 TATC
1 TATC
56876464 CTAAATACGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (31 bp):
TATCAATCAAAATCATAAATCAATCAAAATT
Found at i:56887938 original size:28 final size:28
Alignment explanation
Indices: 56887883--56887939 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
56887873 ATCCTAGATG
* * *
56887883 TCCCGTACACTAAGTGTCATACTCAATA
1 TCCCGCACACCAAGTGCCATACTCAATA
* *
56887911 TCCCGCACACCAAGTGCCATTCTTAATA
1 TCCCGCACACCAAGTGCCATACTCAATA
56887939 T
1 T
56887940 TTTTCACACT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.30, C:0.32, G:0.11, T:0.28
Consensus pattern (28 bp):
TCCCGCACACCAAGTGCCATACTCAATA
Done.