Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 93 of 253
Found at i:28957713 original size:85 final size:83
Alignment explanation
Indices: 28957503--28957737 Score: 422
Period size: 85 Copynumber: 2.8 Consensus size: 83
28957493 GGCTAAATCT
28957503 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
28957568 AT---CCGGACTAAGTTC
66 ATCCGCCGGACTAAGTTC
28957583 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
28957648 ATCCGGACCGGACTAAGTTC
66 ATCC-G-CCGGACTAAGTTC
*
28957668 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
28957733 ATCCG
66 ATCCG
28957738 TGCTAAACCC
Statistics
Matches: 149, Mismatches: 1, Indels: 6
0.96 0.01 0.04
Matches are distributed among these distances:
80 67 0.45
84 1 0.01
85 81 0.54
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (83 bp):
CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
ATCCGCCGGACTAAGTTC
Found at i:28957804 original size:40 final size:40
Alignment explanation
Indices: 28957503--28957796 Score: 428
Period size: 40 Copynumber: 7.2 Consensus size: 40
28957493 GGCTAAATCT
28957503 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
28957543 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
28957583 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
28957623 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACCGGACTAAGTTC
1 CGAAGAGCATTCGTGCTAGTGATGTAT-----CCGGACTAAGTTC
28957668 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
* ***
28957708 CGAAGAGCATTCGTGCTAGTGATATATCCGTG-CTAAACCC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCG-GACTAAGTTC
** * * * * *
28957748 CGAAGAGCATTTATGCTAGTGTTATATCCGGGCTAGGTCC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
28957788 CGAAGAGCA
1 CGAAGAGCA
28957797 ATCATGCTGG
Statistics
Matches: 237, Mismatches: 10, Indels: 14
0.91 0.04 0.05
Matches are distributed among these distances:
39 1 0.00
40 195 0.82
41 1 0.00
45 40 0.17
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
Found at i:28961892 original size:47 final size:47
Alignment explanation
Indices: 28961841--28962480 Score: 1065
Period size: 47 Copynumber: 13.6 Consensus size: 47
28961831 TATTTGAATA
*
28961841 AATGTGAAAGTGTATATATATTGATAAGGCCTAATGGCC-ATGTGATG
1 AATGTGAAAGTGTATATAT-GTGATAAGGCCTAATGGCCGATGTGATG
* *
28961888 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
28961935 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
28961984 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC-ATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
28962030 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
28962079 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
28962126 AATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
28962172 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
28962219 AATGTGAAAGTGTATATATGTGATAAGG-CTAAT-GCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
28962264 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
28962313 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
28962360 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
28962407 AATGTGAAAGTGTATATATGCGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
28962454 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
28962481 TCCCGAAGGG
Statistics
Matches: 564, Mismatches: 18, Indels: 22
0.93 0.03 0.04
Matches are distributed among these distances:
45 24 0.04
46 88 0.16
47 333 0.59
48 30 0.05
49 89 0.16
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:28962319 original size:234 final size:236
Alignment explanation
Indices: 28961841--28962480 Score: 1099
Period size: 234 Copynumber: 2.7 Consensus size: 236
28961831 TATTTGAATA
*
28961841 AATGTGAAAGTGTATATATATTGATAAGGCCTAATGGCC-ATGTGATGAATGTGAAAGTGTATAT
1 AATGTGAAAGTGTATATAT-GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
28961905 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
65 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAA
28961970 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCATGTGATGAATGT
128 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCATGTGATGAATGT
28962035 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
193 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
28962079 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
28962144 TGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
*
28962208 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG-CTAAT-GCCGATGTGATGAATGTGA
131 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC-ATGTGATGAATGTGA
28962271 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
195 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
28962313 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * *
28962378 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGCGACAGGGCCGAGTGG
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
* * * *
28962443 CCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
131 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
28962481 TCCCGAAGGG
Statistics
Matches: 386, Mismatches: 13, Indels: 9
0.95 0.03 0.02
Matches are distributed among these distances:
233 3 0.01
234 142 0.37
235 140 0.36
237 41 0.11
238 60 0.16
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (236 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCATGTGATGAATGTGAA
AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:28962701 original size:37 final size:37
Alignment explanation
Indices: 28962599--28962701 Score: 161
Period size: 37 Copynumber: 2.8 Consensus size: 37
28962589 CCGAGCTCTA
*
28962599 AAGATCCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGA-CCCGATGACTACGTGTGGAGATTTTGTCCGGGT
28962637 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
* * *
28962674 AAGACCCGATAACTTCATGTGGAGATTT
1 AAGACCCGATGACTACGTGTGGAGATTT
28962702 CGTCTGAGCT
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
37 57 0.93
38 4 0.07
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.27
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
Found at i:28967729 original size:47 final size:47
Alignment explanation
Indices: 28967615--28967784 Score: 169
Period size: 45 Copynumber: 3.7 Consensus size: 47
28967605 GCCCCTAAGT
* * * *
28967615 GAACTCGGACTCAACTCAACGAGCTCGG--G-CGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCC--AAGC
28967661 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACATCTC-A-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACATC-CAAGC
* *
28967708 GAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCATCCATAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA-AGC
28967753 GAACTCGGACTCAACTCAACGAGTTCGGATGC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC
28967785 TCAACCATCC
Statistics
Matches: 105, Mismatches: 6, Indels: 24
0.78 0.04 0.18
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 2 0.02
45 29 0.28
46 27 0.26
47 29 0.28
48 2 0.02
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCAAGC
Found at i:28967784 original size:92 final size:93
Alignment explanation
Indices: 28967615--28967784 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
28967605 GCCCCTAAGT
* *
28967615 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
28967680 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
28967708 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
28967772 CGAGTTCGGATGC
66 CGAGTTCGGATGC
28967785 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 35 0.47
93 39 0.53
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:28978666 original size:46 final size:46
Alignment explanation
Indices: 28978616--28978741 Score: 216
Period size: 46 Copynumber: 2.7 Consensus size: 46
28978606 TGGTTGAGCA
* *
28978616 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACG
28978662 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACG
* *
28978708 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
28978742 GGGGTGGGTT
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACG
Found at i:28981668 original size:40 final size:40
Alignment explanation
Indices: 28981584--28981888 Score: 404
Period size: 40 Copynumber: 7.7 Consensus size: 40
28981574 TTGAATGATG
* * * * *
28981584 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
28981624 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
28981664 TCCGGGCTAAG-CCCGAAGG-ATTTGGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTT-GTGCGAGTTACTAAA
*
28981703 TCCGGGTTAAGTCCCGATGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
28981743 TCCGGGTTAAGTCCCGATGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
28981783 TCCGGGTTAAGTCCCGATGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
28981823 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
28981864 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
28981889 AACGAGGAGC
Statistics
Matches: 243, Mismatches: 15, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
38 4 0.02
39 30 0.12
40 195 0.80
41 14 0.06
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:28983596 original size:43 final size:43
Alignment explanation
Indices: 28983449--28983583 Score: 252
Period size: 43 Copynumber: 3.1 Consensus size: 43
28983439 GTTAAATCCT
*
28983449 GCAGGCTTCGTGCCGGTGATGTATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
28983492 GCAGGCTTCGTGCCAGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
28983535 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
28983578 GCAGGC
1 GCAGGC
28983584 GTAATGTCGG
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 89 1.00
ACGTcount: A:0.11, C:0.26, G:0.34, T:0.29
Consensus pattern (43 bp):
GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:28995670 original size:65 final size:65
Alignment explanation
Indices: 28995595--28995725 Score: 253
Period size: 65 Copynumber: 2.0 Consensus size: 65
28995585 AGTCCCATGC
28995595 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAAGTCAACCTT
1 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAAGTCAACCTT
*
28995660 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
1 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAAGTCAACCTT
28995725 A
1 A
28995726 ACCTTAGAGG
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.24
Consensus pattern (65 bp):
ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAAGTCAACCTT
Found at i:28999944 original size:65 final size:65
Alignment explanation
Indices: 28999819--28999946 Score: 220
Period size: 65 Copynumber: 2.0 Consensus size: 65
28999809 CTCATGCATT
* *
28999819 AGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTTAGGTCAACCTTATC
1 AGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAAGTCAACCTTATC
* *
28999884 AGATAATAATAACATTGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAAGTTAACCTTA
1 AGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAAGTCAACCTTA
28999947 ACCCTAGGGG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
65 59 1.00
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (65 bp):
AGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAAGTCAACCTTATC
Found at i:29000004 original size:26 final size:26
Alignment explanation
Indices: 28999949--29000004 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
28999939 TAACCTTAAC
* * * *
28999949 CCTAGGGGTATATCAGTAATTTTGCT
1 CCTAGGGGTAAATCAGAAATTTTCCA
*
28999975 CCTAGGGGTAAATCTGAAATTTTCCA
1 CCTAGGGGTAAATCAGAAATTTTCCA
29000001 CCTA
1 CCTA
29000005 TAAAGGTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGAAATTTTCCA
Found at i:29009769 original size:40 final size:40
Alignment explanation
Indices: 29009593--29009815 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
29009583 TCCTCGTTCA
* * * * *
29009593 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
29009632 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
29009672 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
29009712 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
29009752 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
29009792 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
29009816 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 37 0.23
40 113 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:29015803 original size:10 final size:10
Alignment explanation
Indices: 29015788--29015835 Score: 62
Period size: 10 Copynumber: 4.6 Consensus size: 10
29015778 TGGGGCTTAG
29015788 TTTTTTTGTT
1 TTTTTTTGTT
29015798 TTTTTTTGTT
1 TTTTTTTGTT
29015808 GTGGTTTTTTGTT
1 -T--TTTTTTGTT
29015821 TTTTTTT-TT
1 TTTTTTTGTT
29015830 TTTTTT
1 TTTTTT
29015836 AACCTTATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
9 8 0.23
10 16 0.46
11 1 0.03
12 1 0.03
13 9 0.26
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (10 bp):
TTTTTTTGTT
Found at i:29017703 original size:40 final size:40
Alignment explanation
Indices: 29017605--29017762 Score: 219
Period size: 40 Copynumber: 4.0 Consensus size: 40
29017595 TCCTCGTTCA
* * * *
29017605 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
29017644 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
* *
29017684 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
* * *
29017724 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
29017763 AAAGGCTTCG
Statistics
Matches: 107, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 34 0.32
40 73 0.68
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
Found at i:29017772 original size:79 final size:79
Alignment explanation
Indices: 29017608--29017826 Score: 226
Period size: 79 Copynumber: 2.8 Consensus size: 79
29017598 TCGTTCAAAT
* * * * * *
29017608 GCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATTTAA
1 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAATGCCTTCGGGACTTAACCCGGATTTAA
**
29017673 CAACTCGCACGACT
66 CAACTCGCACGAAA
29017687 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC-AATGCCTTCGGGACTTAACCCGGATTTA
** *
29017752 GTATCTCGCAC-AAA
65 ACAACTCGCACGAAA
* * * * * * * *
29017766 GGCTTC-GGATCTTAATCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACAATGCCTTCGGGACTTAACCCGGA
29017827 CAGCATTCAA
Statistics
Matches: 118, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
78 3 0.03
79 75 0.64
80 40 0.34
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAATGCCTTCGGGACTTAACCCGGATTTAA
CAACTCGCACGAAA
Found at i:29017786 original size:39 final size:40
Alignment explanation
Indices: 29017608--29017826 Score: 212
Period size: 40 Copynumber: 5.5 Consensus size: 40
29017598 TCGTTCAAAT
* * * * * *
29017608 GCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AAT
1 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAAA
* * **
29017647 GCCTTCGGGACATAACCCGGATTTAACAACTCGCACGACT
1 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAAA
*
29017687 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAAT
1 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAAA
* *
29017727 GCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC-AAA
1 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAAA
* * * * * *
29017766 GGCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-AAA
1 GCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACGAAA
*
29017806 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
29017827 CAGCATTCAA
Statistics
Matches: 154, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
38 3 0.02
39 53 0.34
40 95 0.62
41 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAAA
Found at i:29090172 original size:30 final size:30
Alignment explanation
Indices: 29090128--29090216 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
29090118 CAAAGATAAC
29090128 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
29090157 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
29090187 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
29090217 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:29090176 original size:15 final size:15
Alignment explanation
Indices: 29090128--29090207 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
29090118 CAAAGATAAC
*
29090128 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
29090142 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
29090157 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
29090172 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
29090187 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
29090202 AAGAAA
1 AAGAAA
29090208 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:29090216 original size:15 final size:15
Alignment explanation
Indices: 29090139--29090216 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
29090129 AGAAAACCGA
29090139 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
29090154 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
29090168 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
29090183 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
29090199 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
29090214 ATA
1 ATA
29090217 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:29093179 original size:46 final size:46
Alignment explanation
Indices: 29093112--29093285 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 46
29093102 TGTAACCCGC
*
29093112 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
* *
29093158 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GG-ATGCCCAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCA--T
* *** * * *
29093204 ACATCTCTCGAACTCGGACTCAACTCAATGAGTTCGGACATT-GCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
*
29093250 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
29093286 ATGCCCTAAC
Statistics
Matches: 106, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
44 4 0.04
45 29 0.27
46 44 0.42
47 24 0.23
48 3 0.03
49 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
Found at i:29093278 original size:92 final size:93
Alignment explanation
Indices: 29093120--29093291 Score: 292
Period size: 92 Copynumber: 1.9 Consensus size: 93
29093110 GCCCATAAGT
* *
29093120 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
29093185 CGAGCTCGGATGCCCAGTTACATCTCTC
66 CGAGCTCGGATGCCCAGTTACATCTCTC
* *
29093213 GAACTCGGACTCAACTCAATGAGTTCGGACATT-GCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
29093277 CGAGTTCGGATGCCC
66 CGAGCTCGGATGCCC
29093292 TAACATCCTA
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
92 45 0.61
93 29 0.39
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCCAGTTACATCTCTC
Found at i:29103361 original size:48 final size:48
Alignment explanation
Indices: 29103241--29103461 Score: 168
Period size: 48 Copynumber: 4.7 Consensus size: 48
29103231 CACATAGTAA
* * **
29103241 GATGCCAATGTCATATCCCAGATATGGTCCTACATTGGATCATC-TATC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACAAAGGATCA-CATATC
* * * * *
29103289 GAAGCC---G--ATAGCCCAGCTATGGTCTTACACAATG-TCTCATATC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACA-AAGGATCACATATC
* **
29103332 GATGCCAATGCCATATCCCTGATATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACAAAGGATCACATATC
* * ** * *
29103380 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATTACAGATC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACAAAGGATCACATATC
* * ** *
29103428 AATGCCAATGCCATGTCCGGGACATGGTCTTACA
1 GATGCCAATGCCATATCCCAGATATGGTCTTACA
29103462 TGGGATAACA
Statistics
Matches: 141, Mismatches: 24, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
42 1 0.01
43 30 0.21
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 106 0.75
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (48 bp):
GATGCCAATGCCATATCCCAGATATGGTCTTACAAAGGATCACATATC
Found at i:29103462 original size:48 final size:48
Alignment explanation
Indices: 29103333--29103467 Score: 198
Period size: 48 Copynumber: 2.8 Consensus size: 48
29103323 TCTCATATCG
* * * * *
29103333 ATGCCAATGCCATATCCCTGATATGGTCTTACATGGGATCACATATCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACAGATCA
*
29103381 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATTACAGATCA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACAGATCA
**
29103429 ATGCCAATGCCATGTCCGGGACATGGTCTTACATGGGAT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT
29103468 AACACATAAC
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 79 1.00
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (48 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACAGATCA
Found at i:29110420 original size:37 final size:37
Alignment explanation
Indices: 29110378--29110454 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
29110368 TGAATACATA
29110378 GATTGATGTTGTACGTTCGGCTATAGGTAAGCATATT
1 GATTGATGTTGTACGTTCGGCTATAGGTAAGCATATT
*
29110415 GATTGATGTTGTGCGTTCGGCTATAGGTAAGCATATT
1 GATTGATGTTGTACGTTCGGCTATAGGTAAGCATATT
29110452 GAT
1 GAT
29110455 GGCTTTATCT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.23, C:0.10, G:0.29, T:0.38
Consensus pattern (37 bp):
GATTGATGTTGTACGTTCGGCTATAGGTAAGCATATT
Found at i:29111079 original size:40 final size:40
Alignment explanation
Indices: 29111018--29111201 Score: 230
Period size: 40 Copynumber: 4.6 Consensus size: 40
29111008 TATTCGAATG
* *
29111018 ATATCTGGGCTAAG-TCTCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGATC-CGAAGGCATTTATGCTAGTGACT
* * *
29111058 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * *
29111098 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
29111138 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
29111178 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
29111202 CTTGTGCGAG
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 1 0.01
40 120 0.96
41 4 0.03
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:29115698 original size:33 final size:33
Alignment explanation
Indices: 29115661--29115728 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
29115651 TCATTATGCG
*
29115661 TTATGTTCTCAGATTTCTATTATGATATCATAT
1 TTATGTTCTCAGATTTCTAATATGATATCATAT
29115694 TTATGTTCTCAGATTTCTAATATGATATCATAT
1 TTATGTTCTCAGATTTCTAATATGATATCATAT
29115727 TT
1 TT
29115729 GGGTTTTCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.28, C:0.12, G:0.09, T:0.51
Consensus pattern (33 bp):
TTATGTTCTCAGATTTCTAATATGATATCATAT
Found at i:29118409 original size:56 final size:56
Alignment explanation
Indices: 29118322--29118458 Score: 231
Period size: 56 Copynumber: 2.4 Consensus size: 56
29118312 GACCATGGCA
*
29118322 TCGATATATGTGTGTGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGA-T
1 TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACT
*
29118377 TCCGATATATGTGTCCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACT
1 T-CGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACT
*
29118434 TCGATATATGTGTGCAAGTAAGACC
1 TCGATATATGTGTGCGAGTAAGACC
29118459 CTGTTTGGGA
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
55 1 0.01
56 73 0.96
57 2 0.03
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (56 bp):
TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACT
Found at i:29120911 original size:48 final size:48
Alignment explanation
Indices: 29120769--29120999 Score: 215
Period size: 48 Copynumber: 4.9 Consensus size: 48
29120759 CACATAGTAA
* *
29120769 GATGCCAATGCCATATCCCAAATATGGTCTTACATGGGATCACAGATC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATC
* * * * * *
29120817 GAAG-CAA----ATAGCCCAGCTATGGTCTTACA--CGATGCCTCATAGC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGAT--CACATATC
*
29120860 GATGCCAATGCCATATCCCTGATATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATC
* * * * * *
29120908 GATGCCAATGTCATGTCCCAAACATGATCTTACATAGGATCACATATC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATC
* * ** *
29120956 GGTGCCAATGCCATGTCTTAGACATGGTCTTACATGGGATCACA
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACA
29121000 CATAACCATA
Statistics
Matches: 145, Mismatches: 29, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
41 3 0.02
43 27 0.19
44 3 0.02
47 3 0.02
48 106 0.73
50 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATC
Found at i:29122294 original size:21 final size:20
Alignment explanation
Indices: 29122260--29122298 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
29122250 AAACTTGTAT
29122260 ATCTATCAGCAAGCATTCATA
1 ATCTATCAGCAAGC-TTCATA
29122281 ATCTATCAAG-AAGCTTCA
1 ATCTATC-AGCAAGCTTCA
29122299 AAATACACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.24
21 11 0.65
22 2 0.12
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.28
Consensus pattern (20 bp):
ATCTATCAGCAAGCTTCATA
Found at i:29130516 original size:12 final size:12
Alignment explanation
Indices: 29130496--29130527 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
29130486 TTTTGGATTA
*
29130496 TTTTGATGTTCC
1 TTTTTATGTTCC
29130508 TTTTTATGTTCC
1 TTTTTATGTTCC
29130520 TTTTTATG
1 TTTTTATG
29130528 CAATGTGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.09, C:0.12, G:0.12, T:0.66
Consensus pattern (12 bp):
TTTTTATGTTCC
Found at i:29132775 original size:22 final size:22
Alignment explanation
Indices: 29132750--29132798 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
29132740 TTTAGCTCTA
*
29132750 ATTTTAAAAATTATAAAAATAT
1 ATTTTAAAAATCATAAAAATAT
* *
29132772 ATTTAAAAAATCATTAAAATAT
1 ATTTTAAAAATCATAAAAATAT
29132794 -TTTTA
1 ATTTTA
29132799 TATTTACTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
ATTTTAAAAATCATAAAAATAT
Found at i:29132990 original size:17 final size:17
Alignment explanation
Indices: 29132968--29133000 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
29132958 TCAAATTGAG
*
29132968 TTGAGAAATTTATTTAA
1 TTGAGAAATTAATTTAA
29132985 TTGAGAAATTAATTTA
1 TTGAGAAATTAATTTA
29133001 GTTAATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (17 bp):
TTGAGAAATTAATTTAA
Found at i:29139974 original size:26 final size:27
Alignment explanation
Indices: 29139945--29140006 Score: 110
Period size: 26 Copynumber: 2.4 Consensus size: 27
29139935 TCTCTAGTTT
29139945 GAAAATCATCCTAACTAATCTCGC-TC
1 GAAAATCATCCTAACTAATCTCGCTTC
29139971 GAAAATCATCCTAACTAATCTCGCTTC
1 GAAAATCATCCTAACTAATCTCGCTTC
29139998 -AAAATCATC
1 GAAAATCATC
29140007 TTTCTCCGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
26 33 0.94
27 2 0.06
ACGTcount: A:0.37, C:0.29, G:0.06, T:0.27
Consensus pattern (27 bp):
GAAAATCATCCTAACTAATCTCGCTTC
Found at i:29141008 original size:35 final size:35
Alignment explanation
Indices: 29140959--29141038 Score: 142
Period size: 35 Copynumber: 2.3 Consensus size: 35
29140949 TAAGAAAAAG
* *
29140959 TAAATATAATATAACAAAATTTTAAAAAGCAAATA
1 TAAAAATATTATAACAAAATTTTAAAAAGCAAATA
29140994 TAAAAATATTATAACAAAATTTTAAAAAGCAAATA
1 TAAAAATATTATAACAAAATTTTAAAAAGCAAATA
29141029 TAAAAATATT
1 TAAAAATATT
29141039 TTAAAGCTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (35 bp):
TAAAAATATTATAACAAAATTTTAAAAAGCAAATA
Found at i:29143281 original size:20 final size:21
Alignment explanation
Indices: 29143258--29143300 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
29143248 ATAAGCATGT
*
29143258 ATTTTG-ATGTTTGATGATAG
1 ATTTTGAATGCTTGATGATAG
*
29143278 ATTTTGAATGCTTGTTGATAG
1 ATTTTGAATGCTTGATGATAG
29143299 AT
1 AT
29143301 ATACAAGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.26, C:0.02, G:0.23, T:0.49
Consensus pattern (21 bp):
ATTTTGAATGCTTGATGATAG
Found at i:29146346 original size:23 final size:23
Alignment explanation
Indices: 29146320--29146368 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
29146310 CTAAAAGTAT
29146320 TTAATAGCTATAGAACCTTAAAG
1 TTAATAGCTATAGAACCTTAAAG
29146343 TTAATAGCTATAGAACCTTAAAG
1 TTAATAGCTATAGAACCTTAAAG
29146366 TTA
1 TTA
29146369 GGGTCCTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (23 bp):
TTAATAGCTATAGAACCTTAAAG
Found at i:29150396 original size:39 final size:39
Alignment explanation
Indices: 29150272--29150359 Score: 176
Period size: 39 Copynumber: 2.3 Consensus size: 39
29150262 GAGATTGGAA
29150272 ATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAAT
1 ATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAAT
29150311 ATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAAT
1 ATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAAT
29150350 ATATCCGGAC
1 ATATCCGGAC
29150360 TTAAGGTCTG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.23
Consensus pattern (39 bp):
ATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAAT
Found at i:29154087 original size:27 final size:27
Alignment explanation
Indices: 29154056--29154107 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
29154046 AGGTGTATTT
29154056 ACCTCATTCAGAAATAGGTTCTTGTTC
1 ACCTCATTCAGAAATAGGTTCTTGTTC
29154083 ACCTCATTCAGAAATAGGTTCTTGT
1 ACCTCATTCAGAAATAGGTTCTTGT
29154108 GTAGCTGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (27 bp):
ACCTCATTCAGAAATAGGTTCTTGTTC
Found at i:29155502 original size:21 final size:22
Alignment explanation
Indices: 29155476--29155517 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
29155466 GTGTATTTTA
29155476 ATGTTTAATGG-TAGA-AAATGC
1 ATGTTT-ATGGTTAGAGAAATGC
29155497 ATGTTTATGGTTAGAGAAATG
1 ATGTTTATGGTTAGAGAAATG
29155518 ACTTTTACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 10 0.53
22 5 0.26
ACGTcount: A:0.36, C:0.02, G:0.26, T:0.36
Consensus pattern (22 bp):
ATGTTTATGGTTAGAGAAATGC
Found at i:29158316 original size:39 final size:40
Alignment explanation
Indices: 29158209--29158430 Score: 292
Period size: 39 Copynumber: 5.5 Consensus size: 40
29158199 ACCCAAGTAT
* *
29158209 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
29158248 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
29158288 CTTCGGGACTTAG-CCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
29158327 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
29158370 CTTCGGGACTTAGCCC-GATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
29158409 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
29158431 CATCCGAATA
Statistics
Matches: 162, Mismatches: 12, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 75 0.46
40 51 0.31
41 1 0.01
42 9 0.06
43 26 0.16
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:29158403 original size:82 final size:79
Alignment explanation
Indices: 29158209--29158430 Score: 311
Period size: 82 Copynumber: 2.8 Consensus size: 79
29158199 ACCCAAGTAT
* * * *
29158209 CTTCGGGATTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTC
1 CTTCGGGACTTAGCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTC
**
29158274 ACTAGCATGAATGC
66 ACTAGCACAAATGC
* *
29158288 CTTCGGGACTTAGCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-C
1 CTTCGGGACTTAGCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTC
29158352 AACTACTCGCACAAATGC
66 -ACTA---GCACAAATGC
* *
29158370 CTTCGGGACTTAGCCCGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
29158431 CATCCGAATA
Statistics
Matches: 127, Mismatches: 12, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
78 1 0.01
79 61 0.48
82 65 0.51
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (79 bp):
CTTCGGGACTTAGCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTC
ACTAGCACAAATGC
Found at i:29161315 original size:37 final size:37
Alignment explanation
Indices: 29161252--29161353 Score: 168
Period size: 37 Copynumber: 2.8 Consensus size: 37
29161242 AGCTCAGACG
* *
29161252 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
29161289 AAATCTCCACACGTAGTCATCAGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
29161326 TAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
29161354 TAGAGCTCGG
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:29161550 original size:47 final size:47
Alignment explanation
Indices: 29161472--29161782 Score: 496
Period size: 47 Copynumber: 6.6 Consensus size: 47
29161462 CCCTTCGGGA
* * * * * *
29161472 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
29161519 CCTGTCACATATATACACTTTCATATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29161566 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29161613 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29161660 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29161707 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29161756 CTTATCACATATATACACTTTCTCATT
1 CTTATCACATATATACACTTTCACATT
29161783 TATTCAAATA
Statistics
Matches: 247, Mismatches: 15, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
47 202 0.82
49 45 0.18
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:29170304 original size:40 final size:40
Alignment explanation
Indices: 29170226--29170449 Score: 283
Period size: 40 Copynumber: 5.5 Consensus size: 40
29170216 ACCCAAGTAT
* *
29170226 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
29170265 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
29170305 CTTCGGGACTTAGTCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
29170345 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* * *
29170388 CTTCGGGACTTAGCCCGAATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
29170428 CTTCGGGACTTAGCCCAGATAT
1 CTTCGGGACTTAGCCCGGATAT
29170450 CATCCGAATA
Statistics
Matches: 161, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
39 12 0.07
40 113 0.70
41 1 0.01
43 35 0.22
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:29170424 original size:83 final size:79
Alignment explanation
Indices: 29170226--29170449 Score: 288
Period size: 83 Copynumber: 2.8 Consensus size: 79
29170216 ACCCAAGTAT
* * * *
29170226 CTTCGGGATTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTC
1 CTTCGGGACTTAGCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTC
**
29170291 ACTAGCATGAATGC
66 ACTAGCACAAATGC
* *
29170305 CTTCGGGACTTAGTCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAG-CCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
29170369 CAACTACTCGCACAAATGC
65 C-ACTA---GCACAAATGC
* * *
29170388 CTTCGGGACTTAGCCCGAATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCAGATAT
1 CTTCGGGACTTAG-CCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
29170450 CATCCGAATA
Statistics
Matches: 126, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
79 13 0.10
80 49 0.39
83 64 0.51
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (79 bp):
CTTCGGGACTTAGCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTC
ACTAGCACAAATGC
Found at i:29178594 original size:27 final size:27
Alignment explanation
Indices: 29178564--29178741 Score: 119
Period size: 27 Copynumber: 6.6 Consensus size: 27
29178554 ATATTGAGCC
* *
29178564 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
29178591 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
29178618 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*** ** *
29178646 CGCACACTTAGTGCCGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
29178673 CGCACTCTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
29178700 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
29178727 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29178742 GTACAATTTA
Statistics
Matches: 117, Mismatches: 29, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
26 2 0.02
27 93 0.79
28 22 0.19
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:29178676 original size:55 final size:54
Alignment explanation
Indices: 29178564--29178741 Score: 150
Period size: 54 Copynumber: 3.3 Consensus size: 54
29178554 ATATTGAGCC
* * *
29178564 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
* * * *
29178618 CGCACACTTAGTGCTACATAGTTAGACTCGCACACTTAGTG-C-CGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCA-ACTCGCACACTTAGTGCCACGTA--ATCAAAT
* * ** * *
29178673 CGCACTCTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAAC-AAAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACGTAA-TCA-AAT
29178727 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29178742 GTACAATTTA
Statistics
Matches: 98, Mismatches: 17, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
53 5 0.05
54 52 0.53
55 40 0.41
56 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
Found at i:29186602 original size:27 final size:27
Alignment explanation
Indices: 29186572--29186749 Score: 119
Period size: 27 Copynumber: 6.6 Consensus size: 27
29186562 ATATTGAGCC
* *
29186572 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
29186599 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
29186626 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*** ** *
29186654 CGCACACTTAGTGCCGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
29186681 CGCACTCTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
29186708 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
29186735 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29186750 GTACAATTTA
Statistics
Matches: 117, Mismatches: 29, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
26 2 0.02
27 93 0.79
28 22 0.19
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:29186684 original size:55 final size:54
Alignment explanation
Indices: 29186572--29186749 Score: 150
Period size: 54 Copynumber: 3.3 Consensus size: 54
29186562 ATATTGAGCC
* * *
29186572 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
* * * *
29186626 CGCACACTTAGTGCTACATAGTTAGACTCGCACACTTAGTG-C-CGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCA-ACTCGCACACTTAGTGCCACGTA--ATCAAAT
* * ** * *
29186681 CGCACTCTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAAC-AAAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACGTAA-TCA-AAT
29186735 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29186750 GTACAATTTA
Statistics
Matches: 98, Mismatches: 17, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
53 5 0.05
54 52 0.53
55 40 0.41
56 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
Found at i:29190017 original size:46 final size:46
Alignment explanation
Indices: 29189942--29190113 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
29189932 TGTAACCCGC
* *
29189942 CCATAAGCGAACTCAGACTCAACTCAACGAGCTT-GGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGGCGTTCACAT
*
29189988 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCACAT
* * * * * *
29190038 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCACAT
29190081 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
29190114 TGGATGCTCA
Statistics
Matches: 105, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 4 0.04
46 55 0.52
47 27 0.26
48 3 0.03
49 2 0.02
50 4 0.04
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCACAT
Found at i:29190108 original size:93 final size:93
Alignment explanation
Indices: 29189949--29190120 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
29189939 CGCCCATAAG
* * * *
29189949 CGAACTCAGACTCAACTCAACGAGCTTGGGCGTTCACATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTTAGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
29190014 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
29190042 CGAACTCGGACTCAACTCAACGAG-TTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCAGACTCAACTCAACGAGCTT-AGACATTCACATCCATAAGTGAACTCGGACTCAACTC
*
29190106 AACGAGTTTGGATGC
65 AACGAGTTCGGATGC
29190121 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTTAGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:29210883 original size:47 final size:47
Alignment explanation
Indices: 29210832--29210928 Score: 149
Period size: 47 Copynumber: 2.1 Consensus size: 47
29210822 TTAGGATTTT
* *
29210832 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGAATATATGAGATAAGGCCAAATGGCCA
* * *
29210879 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCAAATGGCTA
1 ATGTGATGAATGTGAACATGAATATATGAGATAAGGCCAAATGGCCA
29210926 ATG
1 ATG
29210929 CGAAACGTGT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.36, C:0.10, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGAATATATGAGATAAGGCCAAATGGCCA
Found at i:29210991 original size:46 final size:46
Alignment explanation
Indices: 29210902--29210992 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
29210892 GAACATGAAT
* * *
29210902 ATATGTGGTAAGGCCAAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
29210948 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
29210993 TGTATATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.34, C:0.10, G:0.31, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:29211187 original size:37 final size:37
Alignment explanation
Indices: 29211137--29211207 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
29211127 GGAAATATAT
* *
29211137 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATAACTACATGTGGAGATTATG
*
29211174 TCCGGGTAAGACCCGATAACTTCATGTGGAGATT
1 TCCGGGTAAGACCCGATAACTACATGTGGAGATT
29211208 TCGTCTGAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACATGTGGAGATTATG
Found at i:29212502 original size:40 final size:40
Alignment explanation
Indices: 29212432--29212569 Score: 197
Period size: 40 Copynumber: 3.5 Consensus size: 40
29212422 AACCCAAGTA
* * *
29212432 CCTTCGGGATTTAG-CCGGATATAGAAACTCGCACAAATG
1 CCTTCGGAACTTAGCCCGGATATAGTAACTCGCACAAATG
*
29212471 CCTTCGGAACTTAGCCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGAACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
29212511 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGAACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
29212551 CCTTCGGATCTTAGTCCGG
1 CCTTCGGAACTTAGCCCGG
29212570 TTATCATCCG
Statistics
Matches: 88, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 12 0.14
40 76 0.86
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGAACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:29217343 original size:22 final size:22
Alignment explanation
Indices: 29217313--29217357 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
29217303 TACGAAACTC
29217313 CTTTGCTCCCATACT-AGCTTTT
1 CTTTGCT-CCATACTGAGCTTTT
* *
29217335 CTTTTCTCCTTACTGAGCTTTT
1 CTTTGCTCCATACTGAGCTTTT
29217357 C
1 C
29217358 GGCTTTGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.11, C:0.31, G:0.09, T:0.49
Consensus pattern (22 bp):
CTTTGCTCCATACTGAGCTTTT
Found at i:29219673 original size:40 final size:40
Alignment explanation
Indices: 29219610--29219742 Score: 173
Period size: 40 Copynumber: 3.4 Consensus size: 40
29219600 AACGCAAGTA
* * * *
29219610 CCTTCGGGATTTAG-TCGGATATAGCAACTCGCACAAATG
1 CCTTCGGAACTTAGCTCAGATATAGTAACTCGCACAAATG
29219649 CCTTCGGAACTTAGAC-CAGATATAGTAACTCGCACAAATG
1 CCTTCGGAACTTAG-CTCAGATATAGTAACTCGCACAAATG
* *
29219689 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATG
1 CCTTCGGAACTTAGCTCAGATATAGTAACTCGCACAAATG
29219729 CCTTC-GAATCTTAG
1 CCTTCGGAA-CTTAG
29219743 TCCGGTTATC
Statistics
Matches: 83, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
39 15 0.18
40 68 0.82
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (40 bp):
CCTTCGGAACTTAGCTCAGATATAGTAACTCGCACAAATG
Found at i:29225664 original size:79 final size:79
Alignment explanation
Indices: 29225528--29225751 Score: 292
Period size: 79 Copynumber: 2.8 Consensus size: 79
29225518 TTGAATGATG
* * * * *
29225528 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
*
29225591 TTGTGCGAGATACTAAT
63 TTGTGCGAGATACTAAA
*
29225608 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
*
29225673 TGCGAGTTACTAAA
66 TGCGAGATACTAAA
* * *
29225687 TCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTT
29225751 G
65 G
29225752 AACGAGGAGC
Statistics
Matches: 129, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
78 1 0.01
79 108 0.84
80 20 0.16
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:29225765 original size:40 final size:40
Alignment explanation
Indices: 29225528--29225751 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
29225518 TTGAATGATG
* * * *
29225528 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
29225568 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
29225608 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
29225647 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
29225687 TCCGGGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
29225727 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
29225752 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
39 69 0.42
40 88 0.53
41 8 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:29225769 original size:79 final size:79
Alignment explanation
Indices: 29225528--29225784 Score: 247
Period size: 79 Copynumber: 3.2 Consensus size: 79
29225518 TTGAATGATG
* * * * * *
29225528 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
** *
29225591 TTGTGCGAGAT-ACTAAT
63 TTGAACGAG-TGACTAAA
* * *
29225608 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
** *
29225673 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
29225687 TCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTT
*
29225751 GAACGAG-GAGCTATA
65 GAACGAGTGA-CTAAA
*
29225766 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTT-AAGTCCGAAGG
29225785 TACGTGATTT
Statistics
Matches: 154, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
78 7 0.05
79 127 0.82
80 20 0.13
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:29228563 original size:27 final size:28
Alignment explanation
Indices: 29228512--29228567 Score: 105
Period size: 27 Copynumber: 2.0 Consensus size: 28
29228502 CGCGATGCTT
29228512 CTTCGCCTGAAGTTTTTACCGGTCGTTA
1 CTTCGCCTGAAGTTTTTACCGGTCGTTA
29228540 CTTCGCCTGAAG-TTTTACCGGTCGTTA
1 CTTCGCCTGAAGTTTTTACCGGTCGTTA
29228567 C
1 C
29228568 GTGCTTGTCG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 16 0.57
28 12 0.43
ACGTcount: A:0.14, C:0.27, G:0.21, T:0.38
Consensus pattern (28 bp):
CTTCGCCTGAAGTTTTTACCGGTCGTTA
Found at i:29233409 original size:40 final size:39
Alignment explanation
Indices: 29233325--29233548 Score: 292
Period size: 40 Copynumber: 5.7 Consensus size: 39
29233315 TTGAATGATG
* * *
29233325 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-A
* *
29233365 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
29233404 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
*
29233443 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
*
29233483 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
29233523 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
29233549 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 11, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
38 10 0.06
39 52 0.31
40 96 0.58
41 8 0.05
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:29233570 original size:79 final size:79
Alignment explanation
Indices: 29233325--29233581 Score: 247
Period size: 79 Copynumber: 3.3 Consensus size: 79
29233315 TTGAATGATG
* * * * * *
29233325 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AACCGGGCTAAG-TCCCGAAGGCAT
** *
29233388 TTGTGCGAGAT-ACTAAT
63 TTGAACGAG-TGACTAAA
* * *
29233405 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAATCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAACCGGGCTAAGTCCCGAAGGCATTTG
** *
29233469 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
29233483 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AACCGGGCTAAGTCCCGAAGGCATTT
*
29233548 GAACGAG-GAGCTATA
65 GAACGAGTGA-CTAAA
* *
29233563 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
29233582 TACGTGATTT
Statistics
Matches: 155, Mismatches: 16, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
77 2 0.01
78 44 0.28
79 56 0.36
80 53 0.34
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAACCGGGCTAAGTCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:29240471 original size:25 final size:25
Alignment explanation
Indices: 29240442--29240489 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
29240432 TTATAAGATG
** *
29240442 AAAATGACTGTTTTGCCCCTAGGTA
1 AAAATGACCATTTTACCCCTAGGTA
29240467 AAAATGACCATTTTACCCCTAGG
1 AAAATGACCATTTTACCCCTAGG
29240490 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (25 bp):
AAAATGACCATTTTACCCCTAGGTA
Found at i:29240577 original size:18 final size:19
Alignment explanation
Indices: 29240540--29240577 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
29240530 GATTTGATAC
29240540 GATATGCACATGTTATGTAT
1 GATATGCACATG-TATGTAT
29240560 GATATGCACATG-ATGTAT
1 GATATGCACATGTATGTAT
29240578 TCATTTATGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
20 12 0.67
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.37
Consensus pattern (19 bp):
GATATGCACATGTATGTAT
Found at i:29240689 original size:26 final size:25
Alignment explanation
Indices: 29240620--29240715 Score: 156
Period size: 25 Copynumber: 3.8 Consensus size: 25
29240610 GAGGAAGTGC
*
29240620 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
29240645 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* *
29240670 AAAAGGGCTTTTGCCCCAGTTTATCA
1 AAAAGGGC-TTTGCCCCAGTTTACCG
29240696 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
29240716 ATTAAAAGAG
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
25 44 0.66
26 23 0.34
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:29240700 original size:51 final size:50
Alignment explanation
Indices: 29240620--29240715 Score: 156
Period size: 51 Copynumber: 1.9 Consensus size: 50
29240610 GAGGAAGTGC
*
29240620 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTACCG
* *
29240670 AAAAGGGCTTTTGCCCCAGTTTATCAAAAAGGGCTTTGCCCCAGTT
1 AAAAGGGC-TATGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTT
29240716 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
50 8 0.19
51 34 0.81
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:29242402 original size:27 final size:27
Alignment explanation
Indices: 29242343--29242720 Score: 318
Period size: 27 Copynumber: 14.0 Consensus size: 27
29242333 AAGACCCTGG
* *
29242343 TTTGTAAAATTACCAAAATACCCCTTGA
1 TTTGTAAAATTACCGAAATACCCC-TAA
* * **
29242371 TTTGTAAAATTACCAAAATACCCTTGG
1 TTTGTAAAATTACCGAAATACCCCTAA
*
29242398 TTTGTAAAA-TACCGAAATA-CCCTTA
1 TTTGTAAAATTACCGAAATACCCCTAA
* * *
29242423 TAGTGTAAAATTATCGAAATACCCAC-AG
1 T-TTGTAAAATTACCGAAATACCC-CTAA
*
29242451 TTTGTAAAATTACCAAAATA-CCCTAGA
1 TTTGTAAAATTACCGAAATACCCCTA-A
** *
29242478 TTTGTAAAATTATTGAAATACCCCTAG
1 TTTGTAAAATTACCGAAATACCCCTAA
* ** * *
29242505 TTTATAAAATTATTGAAATACCCCCAG
1 TTTGTAAAATTACCGAAATACCCCTAA
* *
29242532 TTTGTAAATTTATCGAAATA-CCCTCAA
1 TTTGTAAAATTACCGAAATACCCCT-AA
* **
29242559 TTTTTAAAATTACCGAAATACCCCCGA
1 TTTGTAAAATTACCGAAATACCCCTAA
** **
29242586 TTTGTAAAATTATTGAAATATCCCCCGA
1 TTTGTAAAATTACCGAAATA-CCCCTAA
** *
29242614 TTTGTAAAATTATTGAGATACCCCTAA
1 TTTGTAAAATTACCGAAATACCCCTAA
*
29242641 TTTGTAAAATTACTGAAATACCCCTAA
1 TTTGTAAAATTACCGAAATACCCCTAA
* **
29242668 TTTTTAAAATTACCGAAATA-CCCTTG
1 TTTGTAAAATTACCGAAATACCCCTAA
* *
29242694 TATTGTAAAATTATCAAAATACCCCTA
1 T-TTGTAAAATTACCGAAATACCCCTA
29242721 TAGGGTAAAA
Statistics
Matches: 292, Mismatches: 46, Indels: 24
0.81 0.13 0.07
Matches are distributed among these distances:
25 5 0.02
26 27 0.09
27 195 0.67
28 64 0.22
29 1 0.00
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (27 bp):
TTTGTAAAATTACCGAAATACCCCTAA
Found at i:29242419 original size:54 final size:55
Alignment explanation
Indices: 29242337--29242720 Score: 362
Period size: 54 Copynumber: 7.1 Consensus size: 55
29242327 GTTGTAAAGA
* * * *
29242337 CCCTGGTTTGTAAAATTACCAAAATACCCCTTGATTTGTAAAATTACCAAAATAC
1 CCCTAGTTTGTAAAATTACCGAAATACCCCTTGATTTGTAAAATTATCGAAATAC
* * *
29242392 CCTTGGTTTGTAAAA-TACCGAAATA-CCCTT-ATAGTGTAAAATTATCGAAATAC
1 CCCTAGTTTGTAAAATTACCGAAATACCCCTTGAT-TTGTAAAATTATCGAAATAC
* * *
29242445 CCAC-AGTTTGTAAAATTACCAAAATA-CCCTAGATTTGTAAAATTATTGAAATAC
1 CC-CTAGTTTGTAAAATTACCGAAATACCCCTTGATTTGTAAAATTATCGAAATAC
* ** ** *
29242499 CCCTAGTTTATAAAATTATTGAAATACCCCCAG-TTTGTAAATTTATCGAAATA-
1 CCCTAGTTTGTAAAATTACCGAAATACCCCTTGATTTGTAAAATTATCGAAATAC
* * * *
29242552 CCCTCAATTTTTAAAATTACCGAAATACCCC-CGATTTGTAAAATTATTGAAATATC
1 CCCT-AGTTTGTAAAATTACCGAAATACCCCTTGATTTGTAAAATTATCGAAATA-C
* ** * *
29242608 CCC-CGATTTGTAAAATTATTGAGATACCCC-TAATTTGTAAAATTA-CTGAAATAC
1 CCCTAG-TTTGTAAAATTACCGAAATACCCCTTGATTTGTAAAATTATC-GAAATAC
* * *
29242662 CCCTAATTTTTAAAATTACCGAAATA-CCCTTG-TATTGTAAAATTATCAAAATAC
1 CCCTAGTTTGTAAAATTACCGAAATACCCCTTGAT-TTGTAAAATTATCGAAATAC
29242716 CCCTA
1 CCCTA
29242721 TAGGGTAAAA
Statistics
Matches: 271, Mismatches: 42, Indels: 33
0.78 0.12 0.10
Matches are distributed among these distances:
52 2 0.01
53 44 0.16
54 161 0.59
55 61 0.23
56 3 0.01
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (55 bp):
CCCTAGTTTGTAAAATTACCGAAATACCCCTTGATTTGTAAAATTATCGAAATAC
Found at i:29242513 original size:81 final size:79
Alignment explanation
Indices: 29242337--29242717 Score: 363
Period size: 81 Copynumber: 4.7 Consensus size: 79
29242327 GTTGTAAAGA
* * * * * **
29242337 CCCTGGTTTGTAAAATTACCAAAATACCCCTTGATTTGTAAAATTACCAAAATACCCTTGGTTTG
1 CCCTAGTTTGTAAAATTATCGAAATACCCC-AG-TTTGTAAAATTATCAAAATACCC-TAATTTG
29242402 TAAAA-TACCGAAATAC
63 TAAAATTACCGAAATAC
* * *
29242418 CCTTA-TAGTGTAAAATTATCGAAATACCCACAGTTTGTAAAATTACCAAAATACCCTAGATTTG
1 CCCTAGT-TTGTAAAATTATCGAAATACCC-CAGTTTGTAAAATTATCAAAATACCCTA-ATTTG
**
29242482 TAAAATTATTGAAATAC
63 TAAAATTACCGAAATAC
* * * * *
29242499 CCCTAGTTTATAAAATTATTGAAATACCCCCAGTTTGTAAATTTATCGAAATACCCTCAATTTTT
1 CCCTAGTTTGTAAAATTATCGAAATA-CCCCAGTTTGTAAAATTATCAAAATACCCT-AATTTGT
29242564 AAAATTACCGAAATAC
64 AAAATTACCGAAATAC
* * * ** *
29242580 CCC-CGATTTGTAAAATTATTGAAATATCCCCCGATTTGTAAAATTATTGAGATACCCCTAATTT
1 CCCTAG-TTTGTAAAATTATCGAAATA-CCCCAG-TTTGTAAAATTATCAAAATA-CCCTAATTT
*
29242644 GTAAAATTACTGAAATAC
62 GTAAAATTACCGAAATAC
* * * **
29242662 CCCTAATTTTTAAAATTACCGAAATACCCTTGTATTGTAAAATTATCAAAATACCC
1 CCCTAGTTTGTAAAATTATCGAAATACCCCAGT-TTGTAAAATTATCAAAATACCC
29242718 CTATAGGGTA
Statistics
Matches: 249, Mismatches: 39, Indels: 25
0.80 0.12 0.08
Matches are distributed among these distances:
79 1 0.00
80 38 0.15
81 142 0.57
82 64 0.26
83 4 0.02
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (79 bp):
CCCTAGTTTGTAAAATTATCGAAATACCCCAGTTTGTAAAATTATCAAAATACCCTAATTTGTAA
AATTACCGAAATAC
Found at i:29243177 original size:27 final size:27
Alignment explanation
Indices: 29243086--29243188 Score: 73
Period size: 27 Copynumber: 3.8 Consensus size: 27
29243076 TATGTTGATT
* ** *
29243086 ATGGCTTTGTGCAAATCGTATTTAC-C
1 ATGGCTATGTGCCGATCATATTTACTC
* * *
29243112 AGTGGCTATGTGCCTATCATATTTATTG
1 A-TGGCTATGTGCCGATCATATTTACTC
* * *
29243140 ATGACTCTGTGTCGATCATATTTACTC
1 ATGGCTATGTGCCGATCATATTTACTC
* * *
29243167 ATGGCTGTGTGCCAATTATATT
1 ATGGCTATGTGCCGATCATATT
29243189 ACTATCGCTG
Statistics
Matches: 58, Mismatches: 17, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
26 1 0.02
27 56 0.97
28 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.41
Consensus pattern (27 bp):
ATGGCTATGTGCCGATCATATTTACTC
Found at i:29243210 original size:32 final size:32
Alignment explanation
Indices: 29243167--29243249 Score: 96
Period size: 32 Copynumber: 2.6 Consensus size: 32
29243157 ATATTTACTC
* * *
29243167 ATGGCTGTGTGCCAATTATATTACTATCGCTG
1 ATGGCTATGTGCCAATTATATTACTATCACCG
* *
29243199 ATGGCTATGTGCCGAATT-TATTACTGTTACCG
1 ATGGCTATGTGCC-AATTATATTACTATCACCG
*
29243231 ATGGCTTTGTGCCAATTAT
1 ATGGCTATGTGCCAATTAT
29243250 CATACCGTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
31 4 0.09
32 35 0.81
33 4 0.09
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.39
Consensus pattern (32 bp):
ATGGCTATGTGCCAATTATATTACTATCACCG
Found at i:29243260 original size:32 final size:32
Alignment explanation
Indices: 29243198--29243269 Score: 76
Period size: 32 Copynumber: 2.2 Consensus size: 32
29243188 TACTATCGCT
* *
29243198 GATGGCTATGTGCCGAATTTATTACTGTTACC
1 GATGGCTTTGTGCCGAATTTATTACCGTTACC
*
29243230 GATGGCTTTGTGCC-AA-TTATCATACCGTTACT
1 GATGGCTTTGTGCCGAATTTAT--TACCGTTACC
*
29243262 GAAGGCTT
1 GATGGCTT
29243270 GGAGCCTCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
30 4 0.12
31 2 0.06
32 28 0.82
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.36
Consensus pattern (32 bp):
GATGGCTTTGTGCCGAATTTATTACCGTTACC
Found at i:29244993 original size:52 final size:52
Alignment explanation
Indices: 29244899--29245098 Score: 136
Period size: 52 Copynumber: 3.8 Consensus size: 52
29244889 TTCTAAACTT
* * **
29244899 ACCATTTCCATGTCTTGACATGGTCTTATGTGGTATCCTTGCCTTATGACTC
1 ACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGACTC
* * * *
29244951 ACCATTGCCATGCCTTGGCATGGTCTTACATGAG-ATCTTTGCCTTATCGTAGTTT
1 ACCATTGCCATGCCTTGACATGGTCTTACATG-GTATCCTTGCCTTAT-G-A-CTC
* ** * * * * ** *
29245006 ATCAAAGCCATGTCTTGACTTGGTCTTACATGATTTCC-TGCCTTGTAAAACTT
1 ACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCC-T-TATGACTC
* *
29245059 ACCAATGCCATGCCTT-AGCATGGTCTTACTTGGTATCCTT
1 ACCATTGCCATGCCTTGA-CATGGTCTTACATGGTATCCTT
29245099 AAACCCTAAT
Statistics
Matches: 112, Mismatches: 27, Indels: 16
0.72 0.17 0.10
Matches are distributed among these distances:
52 40 0.36
53 33 0.29
54 7 0.06
55 30 0.27
56 2 0.02
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.38
Consensus pattern (52 bp):
ACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGACTC
Found at i:29248499 original size:42 final size:43
Alignment explanation
Indices: 29248427--29248530 Score: 120
Period size: 42 Copynumber: 2.4 Consensus size: 43
29248417 CATCGACTTA
* *
29248427 TGATTTACATGTAAGACCATGTTTGAGACATCGACATC-GTATT
1 TGATTT-CATGTAAGACCATGTCTGAGACATCGACATCAATATT
* * * * *
29248470 TGATTTCGTGTAAGACCCTGTCTGGGACATTGGCATCAATATT
1 TGATTTCATGTAAGACCATGTCTGAGACATCGACATCAATATT
*
29248513 TGATTACATGTAAGACCA
1 TGATTTCATGTAAGACCA
29248531 CATCTGGGAC
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 25 0.50
43 25 0.50
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (43 bp):
TGATTTCATGTAAGACCATGTCTGAGACATCGACATCAATATT
Found at i:29248513 original size:43 final size:43
Alignment explanation
Indices: 29248387--29248548 Score: 132
Period size: 43 Copynumber: 3.8 Consensus size: 43
29248377 CGATATGTGT
* * ** * *
29248387 TTTCGTGTAGGACCACGTCTGGGATGTTGGCATCGACT-TATGA
1 TTTCATGTAAGACCACGTCTGGGACATTGGCATC-AATATTTGA
* * * * * *
29248430 TTTACATGTAAGACCATGTTTGAGACATCGACATC-GTATTTGA
1 TTT-CATGTAAGACCACGTCTGGGACATTGGCATCAATATTTGA
*
29248473 TTTCGTGTAAGACC-CTGTCTGGGACATTGGCATCAATATTTGA
1 TTTCATGTAAGACCAC-GTCTGGGACATTGGCATCAATATTTGA
* * *
29248516 TTACATGTAAGACCACATCTGGGACGTTGGCAT
1 TTTCATGTAAGACCACGTCTGGGACATTGGCAT
29248549 TGTATGAGCT
Statistics
Matches: 92, Mismatches: 22, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
42 25 0.27
43 44 0.48
44 23 0.25
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.33
Consensus pattern (43 bp):
TTTCATGTAAGACCACGTCTGGGACATTGGCATCAATATTTGA
Found at i:29264666 original size:27 final size:27
Alignment explanation
Indices: 29264636--29264692 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
29264626 AGCATGGCTG
29264636 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
* *
29264663 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
29264690 CCA
1 CCA
29264693 AGACGCTTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.35, C:0.25, G:0.23, T:0.18
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:29264841 original size:26 final size:27
Alignment explanation
Indices: 29264799--29264872 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 27
29264789 AAAGTAACCT
* * *
29264799 TAGGGGTATAAT-GGTAATTT-TACACC
1 TAGGGGTAT-ATCAGTAATTTCCACACA
*
29264825 TAGGGGTATATCAGTAATTTCCATACA
1 TAGGGGTATATCAGTAATTTCCACACA
29264852 TAGGGGTAT-TCAAGTAATTTC
1 TAGGGGTATATC-AGTAATTTC
29264873 ACTATTCTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
25 2 0.05
26 18 0.44
27 21 0.51
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.35
Consensus pattern (27 bp):
TAGGGGTATATCAGTAATTTCCACACA
Found at i:29270602 original size:47 final size:47
Alignment explanation
Indices: 29270543--29270662 Score: 195
Period size: 47 Copynumber: 2.6 Consensus size: 47
29270533 ATTGGTACTG
*
29270543 AGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGGTA
1 AGACAAGGATACCATGTAAGACCATGTTTAGAACATGACATTTGGTA
*
29270590 AGACAAGGATACCATGTAAGACCATGTTTAGAACATGGCATTTGGTA
1 AGACAAGGATACCATGTAAGACCATGTTTAGAACATGACATTTGGTA
* * *
29270637 AGATAAAGATATCATGTAAGACCATG
1 AGACAAGGATACCATGTAAGACCATG
29270663 CCAAGGTATG
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (47 bp):
AGACAAGGATACCATGTAAGACCATGTTTAGAACATGACATTTGGTA
Found at i:29270675 original size:142 final size:140
Alignment explanation
Indices: 29270407--29270736 Score: 324
Period size: 142 Copynumber: 2.3 Consensus size: 140
29270397 ATTGACTGTT
* * *
29270407 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGACAAGGATCCCGTGTAAAACCA
1 AAGGATACCATGTAAGACCATGTCAAGACATGACATTGGTAAGACAAGGATACCATGTAAAACCA
* * * *
29270472 TGTCAAGACATGGCATCGGCATTGATTAAGGACTCCATGTAAGACCACATCAAGATGTGGCATTG
66 TGTCAAGACATGGCATCGGCATAGATTAAAGACTCCATGTAAGACCACACCAAGATATGGCATTG
29270537 GTACTGAGAC
131 GTACTGAGAC
*** *
29270547 AAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGGTAAGACAAGGATACCATGTAAGAC
1 AAGGATACCATGTAAGACCATGTCAAG-ACATGACA-TTGGTAAGACAAGGATACCATGTAAAAC
** * * * ** *
29270612 CATGTTTAGAACATGGCATTTGGTA-AGA-TAAAGA-TATCATGTAAGACCATGCCAAGGTATGG
64 CATGTCAAG-ACATGGCA-TCGGCATAGATTAAAGACT-CCATGTAAGACCACACCAAGATATGG
* *
29270674 CATTGGTGAGTTCATAAGGC
126 CATTGGT-A---C-TGAGAC
* * * *
29270694 AAGGATACCACGTAAGAACATGTCAAGACATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGTCAAGACATGACATTGGTAAG
29270737 TTCAAAAAGG
Statistics
Matches: 152, Mismatches: 28, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
140 24 0.16
141 8 0.05
142 64 0.42
143 11 0.07
144 4 0.03
145 7 0.05
146 8 0.05
147 26 0.17
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.23
Consensus pattern (140 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGACATTGGTAAGACAAGGATACCATGTAAAACCA
TGTCAAGACATGGCATCGGCATAGATTAAAGACTCCATGTAAGACCACACCAAGATATGGCATTG
GTACTGAGAC
Found at i:29279791 original size:30 final size:30
Alignment explanation
Indices: 29279735--29279791 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
29279725 TTTCGAGCCA
**
29279735 AGGGACAAAATGGTCATTTTGTCAAAGTCT
1 AGGGACAAAATGGTCATTTTACCAAAGTCT
* *
29279765 AGGGGCAAAATGGTCGTTTTACCAAAG
1 AGGGACAAAATGGTCATTTTACCAAAG
29279792 ATATGAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.26
Consensus pattern (30 bp):
AGGGACAAAATGGTCATTTTACCAAAGTCT
Found at i:29280240 original size:46 final size:45
Alignment explanation
Indices: 29280130--29280345 Score: 167
Period size: 46 Copynumber: 4.7 Consensus size: 45
29280120 ACACTTGTGT
* * * *
29280130 GAGCTAGTGTAAGACATGT-TGGGTCATGCATCGACCA-GATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATC-AGCATGA-GATGA
* *
29280175 GAGCCAATGTAAGACCATGT-TGGGATATGACATCAGCATTGAGATGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACATG-CATCAGCA-TGAGATGA
* * * * *
29280222 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCAT-GAGATGA
*
29280267 GAAGCCAGTGTAAGACATGTCTGGGACATGCATCGGC-T-AGA-GA
1 G-AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCATGAGATGA
* *
29280310 TGTGTCAGTGTAAGACCATGTCTGGGACATGGCATC
1 -GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
29280346 GGCACAAATA
Statistics
Matches: 143, Mismatches: 17, Indels: 22
0.79 0.09 0.12
Matches are distributed among these distances:
42 1 0.01
43 14 0.10
44 15 0.10
45 20 0.14
46 64 0.45
47 27 0.19
48 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.24
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCATGAGATGA
Found at i:29280273 original size:93 final size:91
Alignment explanation
Indices: 29280132--29280348 Score: 239
Period size: 93 Copynumber: 2.4 Consensus size: 91
29280122 ACTTGTGTGA
* * * *
29280132 GCTAGTGTAAGACATGT-TGGGTCATGCATCGACCAGATTATGAGAGCCAATGTAAGACCATGT-
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAGATGAGGAGAGCCAATGTAAGA-CATGTC
* *
29280195 TGGGATATGACATCAGCATTGAGATGAGT
65 TGGGACATG-CATCAGC-TAGAGATGAGT
* *
29280224 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGGA-AGCCAGTGTAAGACATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-AGATGA-GGAGAGCCAATGTAAGACATGT
* *
29280287 CTGGGACATGCATCGGCTAGAGATGTGT
64 CTGGGACATGCATCAGCTAGAGATGAGT
29280315 -C-AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
29280349 ACAAATATGC
Statistics
Matches: 109, Mismatches: 10, Indels: 13
0.83 0.08 0.10
Matches are distributed among these distances:
89 9 0.08
90 15 0.14
91 17 0.16
92 28 0.26
93 36 0.33
94 4 0.04
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (91 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAGATGAGGAGAGCCAATGTAAGACATGTCT
GGGACATGCATCAGCTAGAGATGAGT
Found at i:29281379 original size:13 final size:13
Alignment explanation
Indices: 29281361--29281385 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29281351 TGGGCATGTG
29281361 AGGGACACGGGCC
1 AGGGACACGGGCC
29281374 AGGGACACGGGC
1 AGGGACACGGGC
29281386 GTTTGCCAGG
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:0.24, C:0.28, G:0.48, T:0.00
Consensus pattern (13 bp):
AGGGACACGGGCC
Found at i:29289184 original size:43 final size:43
Alignment explanation
Indices: 29289136--29289221 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
29289126 ATCACATGTA
* * *
29289136 TCGCATCCATTATGAACTATGACCACTCAACGAGCTCGGATGC
1 TCGCATCCATAATGAACTAGGACCACTCAACAAGCTCGGATGC
*
29289179 TCGCATCCATAATGAACTCGGACCACTCAACAAGCTCGGATGC
1 TCGCATCCATAATGAACTAGGACCACTCAACAAGCTCGGATGC
29289222 CACATATATC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (43 bp):
TCGCATCCATAATGAACTAGGACCACTCAACAAGCTCGGATGC
Found at i:29299519 original size:48 final size:47
Alignment explanation
Indices: 29299448--29299713 Score: 187
Period size: 48 Copynumber: 5.6 Consensus size: 47
29299438 TAAAGTACCA
* * **
29299448 ATGCCATGT-TCTCGACATGGTCTTACAT-GAATCCACATATCATTGTTG
1 ATGCCATGTCCCT-GACATGGTCTTACATAGCA--CACATATCATCATTG
*
29299496 ATGCCATGTCCCTGACATGGTCTTACACTAGCACAGATATCATCATTG
1 ATGCCATGTCCCTGACATGGTCTTACA-TAGCACACATATCATCATTG
** * * * **
29299544 ATGCCATGTCCCAAACTTGGTCTTACATTGGCACATATATCATCACCG
1 ATGCCATGTCCCTGACATGGTCTTACA-TAGCACACATATCATCATTG
* ** * * ***
29299592 ATGCCATGTCTCAT-ACATGGTCTTACACGGCACATATATAATCGCCG
1 ATGCCATGTC-CCTGACATGGTCTTACATAGCACACATATCATCATTG
* * * * * ***
29299639 ATGCCATGTCCCAGACATGGTCTTACATTGGCACATATATAACCGCCG
1 ATGCCATGTCCCTGACATGGTCTTACA-TAGCACACATATCATCATTG
*
29299687 ATGCCATGTCCCAGACATGGTCTTACA
1 ATGCCATGTCCCTGACATGGTCTTACA
29299714 GAGGCACATT
Statistics
Matches: 189, Mismatches: 23, Indels: 12
0.84 0.10 0.05
Matches are distributed among these distances:
46 1 0.01
47 40 0.21
48 142 0.75
49 4 0.02
50 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (47 bp):
ATGCCATGTCCCTGACATGGTCTTACATAGCACACATATCATCATTG
Found at i:29299668 original size:95 final size:94
Alignment explanation
Indices: 29299495--29299722 Score: 285
Period size: 95 Copynumber: 2.4 Consensus size: 94
29299485 TATCATTGTT
* * * * **
29299495 GATGCCATGTCCCTGACATGGTCTTACACTAGCACAGATATCATCATTGATGCCATGTCCCAAAC
1 GATGCCATGTCCAT-ACATGGTCTTACAC-GGCACATATATAATCACCGATGCCATGTCCCAAAC
* * *
29299560 TTGGTCTTACATTGGCACATATATCATCACC
64 ATGGTCTTACATTGGCACATATATAACCACC
* *
29299591 GATGCCATGTCTCATACATGGTCTTACACGGCACATATATAATCGCCGATGCCATGTCCCAGACA
1 GATGCCATGTC-CATACATGGTCTTACACGGCACATATATAATCACCGATGCCATGTCCCAAACA
*
29299656 TGGTCTTACATTGGCACATATATAACCGCC
65 TGGTCTTACATTGGCACATATATAACCACC
* *
29299686 GATGCCATGTCCCAGACATGGTCTTACAGAGGCACAT
1 GATGCCATGT-CCATACATGGTCTTACA-CGGCACAT
29299723 TTAGCATGGT
Statistics
Matches: 115, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
95 80 0.70
96 33 0.29
97 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (94 bp):
GATGCCATGTCCATACATGGTCTTACACGGCACATATATAATCACCGATGCCATGTCCCAAACAT
GGTCTTACATTGGCACATATATAACCACC
Found at i:29299720 original size:48 final size:48
Alignment explanation
Indices: 29299495--29299722 Score: 280
Period size: 48 Copynumber: 4.8 Consensus size: 48
29299485 TATCATTGTT
* * * **
29299495 GATGCCATGTCCCTGACATGGTCTTACACTA-GCACAGATATCATCATT
1 GATGCCATGTCCCAGACATGGTCTTACA-TAGGCACATATATAATCACC
* * * *
29299543 GATGCCATGTCCCAAACTTGGTCTTACATTGGCACATATATCATCACC
1 GATGCCATGTCCCAGACATGGTCTTACATAGGCACATATATAATCACC
* * * *
29299591 GATGCCATGTCTCATACATGGTCTTACA-CGGCACATATATAATCGCC
1 GATGCCATGTCCCAGACATGGTCTTACATAGGCACATATATAATCACC
* * *
29299638 GATGCCATGTCCCAGACATGGTCTTACATTGGCACATATATAACCGCC
1 GATGCCATGTCCCAGACATGGTCTTACATAGGCACATATATAATCACC
*
29299686 GATGCCATGTCCCAGACATGGTCTTACAGAGGCACAT
1 GATGCCATGTCCCAGACATGGTCTTACATAGGCACAT
29299723 TTAGCATGGT
Statistics
Matches: 159, Mismatches: 19, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
47 43 0.27
48 116 0.73
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACATAGGCACATATATAATCACC
Found at i:29305217 original size:12 final size:14
Alignment explanation
Indices: 29305202--29305233 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
29305192 GTGAGAACAC
29305202 ATGTGTA-G-TACT
1 ATGTGTAGGCTACT
29305214 ATGTGTAGGCTACT
1 ATGTGTAGGCTACT
29305228 ATGTGT
1 ATGTGT
29305234 TTAAGATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 1 0.06
14 10 0.56
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.41
Consensus pattern (14 bp):
ATGTGTAGGCTACT
Found at i:29305439 original size:49 final size:50
Alignment explanation
Indices: 29305199--29305432 Score: 242
Period size: 50 Copynumber: 4.6 Consensus size: 50
29305189 ATTGTGAGAA
* * **
29305199 CACATGTGTAGTACTATGTGTAGGCTACTATGTGT-TTAAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAA-AT-GTTTT-GGT
** * *
29305251 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTGT-CCGAAA-ACTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTAT--GTGTACC-AAATGTTTTGGT
* * * * *
29305302 CACGTGTGTAGTACTAAGTCCAGGCTACTATGTGTATCAAATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAAATGTTTTGGT
* * *
29305352 CACGTGTATAGTACTAAGTGCAGGCTACTAAGTGTACCAAAT-TTTTGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAAATGTTTTGGT
29305401 CACATGTGTAGTACTAAGTGCAGGCTACTATG
1 CACATGTGTAGTACTAAGTGCAGGCTACTATG
29305433 CTTACCAGAT
Statistics
Matches: 153, Mismatches: 24, Indels: 13
0.81 0.13 0.07
Matches are distributed among these distances:
49 41 0.27
50 43 0.28
51 31 0.20
52 31 0.20
54 5 0.03
55 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAAATGTTTTGGT
Found at i:29308068 original size:15 final size:15
Alignment explanation
Indices: 29308048--29308077 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
29308038 ACCCGAGTGT
29308048 CAGCATTGTGGTAAG
1 CAGCATTGTGGTAAG
29308063 CAGCATTGTGGTAAG
1 CAGCATTGTGGTAAG
29308078 TGTTGGGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.33, T:0.27
Consensus pattern (15 bp):
CAGCATTGTGGTAAG
Found at i:29314792 original size:18 final size:18
Alignment explanation
Indices: 29314769--29314813 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
29314759 ATGTATTCAT
29314769 ATTCATATAATCCATGTA
1 ATTCATATAATCCATGTA
* *
29314787 ATTCATGTAATTCATGTA
1 ATTCATATAATCCATGTA
*
29314805 AGTCATATA
1 ATTCATATA
29314814 GCTCTTTTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (18 bp):
ATTCATATAATCCATGTA
Found at i:29314793 original size:9 final size:9
Alignment explanation
Indices: 29314769--29314810 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
29314759 ATGTATTCAT
*
29314769 ATTCATATA
1 ATTCATGTA
*
29314778 ATCCATGTA
1 ATTCATGTA
29314787 ATTCATGTA
1 ATTCATGTA
29314796 ATTCATGTA
1 ATTCATGTA
*
29314805 AGTCAT
1 ATTCAT
29314811 ATAGCTCTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (9 bp):
ATTCATGTA
Found at i:29319104 original size:33 final size:32
Alignment explanation
Indices: 29319067--29319130 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
29319057 CAATATTAGT
29319067 ACAGTCAAGGCCTTAGCCCTAAACAGTAACAGA
1 ACAGTCAAGGCCTTAGCCCTAAACA-TAACAGA
* * * *
29319100 ACAGTCTAGGCTTTAGTCCTATACATAACAG
1 ACAGTCAAGGCCTTAGCCCTAAACATAACAG
29319131 TGTGGGCCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 6 0.22
33 21 0.78
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.22
Consensus pattern (32 bp):
ACAGTCAAGGCCTTAGCCCTAAACATAACAGA
Found at i:29320959 original size:47 final size:47
Alignment explanation
Indices: 29320881--29321380 Score: 770
Period size: 47 Copynumber: 10.6 Consensus size: 47
29320871 CCCTTCGGGA
* * * * * *
29320881 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29320927 CTCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CT-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29320975 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29321022 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29321069 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29321118 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29321165 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29321212 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29321259 CTTATCACATATATATACACTTTCACATTCATCACA-CTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATC-GGCCATTAGGC
*
29321308 CTTATCACATATATACACTTTCACATTCATTACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29321355 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
29321381 CACAATTATC
Statistics
Matches: 421, Mismatches: 25, Indels: 15
0.91 0.05 0.03
Matches are distributed among these distances:
46 2 0.00
47 325 0.77
48 4 0.01
49 90 0.21
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:29321137 original size:143 final size:141
Alignment explanation
Indices: 29320881--29321380 Score: 770
Period size: 143 Copynumber: 3.5 Consensus size: 141
29320871 CCCTTCGGGA
* * * * * * *
29320881 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-CTCTGTCACATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT-TATCACATATATACA
*
29320945 CTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACAT
65 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
*
29321010 CGGCTATTAGGC
130 CGGCCATTAGGC
*
29321022 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
29321087 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
29321152 TCGGCCATTAGGC
129 TCGGCCATTAGGC
* *
29321165 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
29321230 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
*
29321295 -CTGGCCATTCGGC
129 TC-GGCCATTAGGC
* *
29321308 CTTATCACATATATACACTTTCACATTCATTACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
29321373 ATTCACAT
66 TTTCACAT
29321381 CACAATTATC
Statistics
Matches: 332, Mismatches: 21, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
141 91 0.27
142 3 0.01
143 238 0.72
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:29321215 original size:190 final size:190
Alignment explanation
Indices: 29320881--29321380 Score: 880
Period size: 190 Copynumber: 2.6 Consensus size: 190
29320871 CCCTTCGGGA
* * * *
29320881 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGG-CTCTGTCACATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCT-TATCACATATATA
29320943 CACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCAC
65 CACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCAC
*
29321008 ATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
130 ATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29321069 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
29321134 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
29321199 TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29321259 CTTATCACATATATATACACTTTCACATTCATCACACTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
* * * *
29321324 ACTTTCACATTCATTACATCGGCCATTAGGCCTTATCACATATATATACATTCACAT
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACAT
29321381 CACAATTATC
Statistics
Matches: 299, Mismatches: 10, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
188 10 0.03
189 1 0.00
190 286 0.96
191 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (190 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:29324029 original size:27 final size:25
Alignment explanation
Indices: 29323987--29324065 Score: 106
Period size: 27 Copynumber: 3.0 Consensus size: 25
29323977 GGGCTGTCAC
29323987 AATGTGGCA-AGCCACCAGTATCAGT
1 AATGTGGCATAGCCACCAGTA-CAGT
29324012 AATTGTGGCATAGCCACCAGTAACAGT
1 AA-TGTGGCATAGCCACCAGT-ACAGT
*
29324039 GAATGTGGCATAGTCACCAGTACAGT
1 -AATGTGGCATAGCCACCAGTACAGT
29324065 A
1 A
29324066 CTTCCTCCAT
Statistics
Matches: 49, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
25 3 0.06
26 12 0.24
27 31 0.63
28 3 0.06
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.22
Consensus pattern (25 bp):
AATGTGGCATAGCCACCAGTACAGT
Found at i:29324287 original size:26 final size:27
Alignment explanation
Indices: 29324234--29324292 Score: 95
Period size: 26 Copynumber: 2.2 Consensus size: 27
29324224 GACGATCATT
29324234 TTTTACCCTACAGAGGTATTACAGTCA
1 TTTTACCCTACAGAGGTATTACAGTCA
29324261 TTTTACCCTACAG-GGTATTAC-GCTCA
1 TTTTACCCTACAGAGGTATTACAG-TCA
29324287 TTTTAC
1 TTTTAC
29324293 AAATCTGAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
25 1 0.03
26 17 0.55
27 13 0.42
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (27 bp):
TTTTACCCTACAGAGGTATTACAGTCA
Found at i:29324316 original size:27 final size:27
Alignment explanation
Indices: 29324286--29324377 Score: 89
Period size: 27 Copynumber: 3.4 Consensus size: 27
29324276 TATTACGCTC
*
29324286 ATTTTACAAATCTGAGGTATTTTAGTA
1 ATTTCACAAATCTGAGGTATTTTAGTA
* * *
29324313 ATTTCACAAATCAGGGGTA-TTTCGATA
1 ATTTCACAAATCTGAGGTATTTTAG-TA
**
29324340 ATTTCACAAAT-TAGAGGTATTTCGGTA
1 ATTTCACAAATCT-GAGGTATTTTAGTA
*
29324367 ATTTTACAAAT
1 ATTTCACAAAT
29324378 ACGGGTCTTA
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
26 4 0.08
27 46 0.87
28 3 0.06
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (27 bp):
ATTTCACAAATCTGAGGTATTTTAGTA
Found at i:29328593 original size:33 final size:33
Alignment explanation
Indices: 29328556--29328639 Score: 96
Period size: 33 Copynumber: 2.5 Consensus size: 33
29328546 TCTAGGCTAA
* * * * *
29328556 AGCCCTATCCAATATCAGTACAGTCTGGGCCTT
1 AGCCCTATACAATAACAGAACAGTCCGAGCCTT
* *
29328589 AGCCCTAAACAATAACAGAACAGTCCGAGCTTT
1 AGCCCTATACAATAACAGAACAGTCCGAGCCTT
*
29328622 AGCCCTATACAGTAACAG
1 AGCCCTATACAATAACAG
29328640 TGTGGGCCTA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (33 bp):
AGCCCTATACAATAACAGAACAGTCCGAGCCTT
Found at i:29328855 original size:26 final size:27
Alignment explanation
Indices: 29328826--29328902 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
29328816 CTGCCAGAAA
*
29328826 CAGTAAATGTGGTA-AGCCACCAGTAT
1 CAGTAAATGTGGCATAGCCACCAGTAT
*
29328852 CAGTAATTGTGGCATAGCCACCAGTAAT
1 CAGTAAATGTGGCATAGCCACCAGT-AT
* * *
29328880 -AGTGAATGTGACATAGTCACCAG
1 CAGTAAATGTGGCATAGCCACCAG
29328903 AACAGTACTT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
26 12 0.28
27 29 0.67
28 2 0.05
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.23
Consensus pattern (27 bp):
CAGTAAATGTGGCATAGCCACCAGTAT
Found at i:29329093 original size:28 final size:29
Alignment explanation
Indices: 29329049--29329135 Score: 108
Period size: 26 Copynumber: 3.1 Consensus size: 29
29329039 CATAATCGTC
* * *
29329049 TTTTTACCATACAAGGGTATTACGGTCAT
1 TTTTTACCCTATAGGGGTATTACGGTCAT
*
29329078 TTTTTTCCCTATAGGGGTATTA-GGTCA-
1 TTTTTACCCTATAGGGGTATTACGGTCAT
*
29329105 -TTTTACCCTATAGGGGTATTACGGTTAT
1 TTTTTACCCTATAGGGGTATTACGGTCAT
29329133 TTT
1 TTT
29329136 ACAAATCGAG
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
26 20 0.41
27 4 0.08
28 5 0.10
29 20 0.41
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.44
Consensus pattern (29 bp):
TTTTTACCCTATAGGGGTATTACGGTCAT
Found at i:29329150 original size:27 final size:28
Alignment explanation
Indices: 29329116--29329305 Score: 167
Period size: 27 Copynumber: 7.0 Consensus size: 28
29329106 TTTACCCTAT
* *
29329116 AGGGGTATTACGGTTATTTTACAAATCG
1 AGGGGTATTTCGGTAATTTTACAAATCG
* * * *
29329144 A-GCGTATTTTGATAATTTTACAAAT-T
1 AGGGGTATTTCGGTAATTTTACAAATCG
*
29329170 AGGGGTATTTCGGTAATTTCACAAATC-
1 AGGGGTATTTCGGTAATTTTACAAATCG
*
29329197 AGGGGTATTTTGGTAATTTTACAAATCG
1 AGGGGTATTTCGGTAATTTTACAAATCG
** *
29329225 A-GGGTATTTCAATAATTTCACAAATC-
1 AGGGGTATTTCGGTAATTTTACAAATCG
* * *
29329251 AGTGATATTTCGATAATTTTACAAATCG
1 AGGGGTATTTCGGTAATTTTACAAATCG
* * * * *
29329279 -TGAGTATTTTGATAGTTTTACAAATCG
1 AGGGGTATTTCGGTAATTTTACAAATCG
29329306 GGGTCTTAAT
Statistics
Matches: 131, Mismatches: 26, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
26 2 0.02
27 127 0.97
28 2 0.02
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (28 bp):
AGGGGTATTTCGGTAATTTTACAAATCG
Found at i:29329178 original size:54 final size:53
Alignment explanation
Indices: 29329115--29329276 Score: 191
Period size: 54 Copynumber: 3.0 Consensus size: 53
29329105 TTTTACCCTA
* * *
29329115 TAGGGGTATTACGGTTATTTTACAAATCGAGCGTATTTTGATAATTTTACAAAT
1 TAGGGGTATTTCGGTAATTTCACAAATC-AGCGTATTTTGATAATTTTACAAAT
* *
29329169 TAGGGGTATTTCGGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAA-
1 TAGGGGTATTTCGGTAATTTCACAAATCA-GCGTATTTTGATAATTTTACAAAT
* ** * *
29329222 TCGAGGGTATTTCAATAATTTCACAAATCAGTGATATTTCGATAATTTTACAAAT
1 TAG-GGGTATTTCGGTAATTTCACAAATCAGCG-TATTTTGATAATTTTACAAAT
29329277 CGTGAGTATT
Statistics
Matches: 93, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
53 5 0.05
54 88 0.95
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (53 bp):
TAGGGGTATTTCGGTAATTTCACAAATCAGCGTATTTTGATAATTTTACAAAT
Found at i:29329218 original size:81 final size:81
Alignment explanation
Indices: 29329116--29329305 Score: 229
Period size: 81 Copynumber: 2.3 Consensus size: 81
29329106 TTTACCCTAT
** * ** * * *
29329116 AGGGGTATTACGGTTATTTTACAAATCGAGCGTATTTTGATAATTTTACAAATTAGGGGTATTTC
1 AGGGGTATTTTGGTAATTTTACAAATCGAGCGTATTTCAATAATTTCACAAATCAGGGATATTTC
*
29329181 GGTAATTTCACAAATC
66 GATAATTTCACAAATC
* *
29329197 AGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCAATAATTTCACAAATCAGTGATATTTC
1 AGGGGTATTTTGGTAATTTTACAAATCGAGCGTATTTCAATAATTTCACAAATCAGGGATATTTC
*
29329262 GATAATTTTACAAATC
66 GATAATTTCACAAATC
* * *
29329278 -GTGAGTATTTTGATAGTTTTACAAATCG
1 AG-GGGTATTTTGGTAATTTTACAAATCG
29329306 GGGTCTTAAT
Statistics
Matches: 93, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
80 1 0.01
81 92 0.99
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATCGAGCGTATTTCAATAATTTCACAAATCAGGGATATTTC
GATAATTTCACAAATC
Found at i:29329302 original size:54 final size:52
Alignment explanation
Indices: 29329117--29329304 Score: 187
Period size: 54 Copynumber: 3.5 Consensus size: 52
29329107 TTACCCTATA
* * * * *
29329117 GGGGTATTACGGTTATTTTACAAATCGAGCGTATTTTGATAATTTTACAAATTA
1 GGGGTATTTCGATAATTTCACAAATC-AGCGTATTTTGATAATTTTACAAA-TC
* * *
29329171 GGGGTATTTCGGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAATC
1 GGGGTATTTCGATAATTTCACAAATCA-GCGTATTTTGATAATTTTACAAATC
* * *
29329224 GAGGGTATTTCAATAATTTCACAAATCAGTGATATTTCGATAATTTTACAAATC
1 G-GGGTATTTCGATAATTTCACAAATCAGCG-TATTTTGATAATTTTACAAATC
* * * *
29329278 GTGAGTATTTTGATAGTTTTACAAATC
1 G-GGGTATTTCGATAATTTCACAAATC
29329305 GGGGTCTTAA
Statistics
Matches: 114, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
53 5 0.04
54 109 0.96
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (52 bp):
GGGGTATTTCGATAATTTCACAAATCAGCGTATTTTGATAATTTTACAAATC
Found at i:29331145 original size:27 final size:26
Alignment explanation
Indices: 29331089--29331145 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
29331079 CAACCTTAAC
* *
29331089 CCTAGGGGTATATCAGTAATTTTACT
1 CCTAGGGGTAAATCAGTAATTTTACG
* *
29331115 CCTAGGGGTAAATCTGTAAATTTTTCG
1 CCTAGGGGTAAATCAGT-AATTTTACG
29331142 CCTA
1 CCTA
29331146 TCAAGGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTACG
Found at i:29333438 original size:19 final size:18
Alignment explanation
Indices: 29333401--29333444 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
29333391 ATACATACAG
29333401 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
29333418 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
29333437 TACTAATT
1 TAATAATT
29333445 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:29336680 original size:30 final size:30
Alignment explanation
Indices: 29336646--29336706 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
29336636 TTCCCAAGCC
29336646 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * *
29336676 TAGGGGCAAAATTGTAATTTTGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
29336706 T
1 T
29336707 GAGTTAAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:29337491 original size:67 final size:65
Alignment explanation
Indices: 29337372--29337522 Score: 162
Period size: 67 Copynumber: 2.3 Consensus size: 65
29337362 AGACAGATAG
* * * *
29337372 TATGTAGCTAGGTCACATGTATGGTGCTAAGTGCACATCATGTGTACAAGAGAGCTACAAGACAT
1 TATGTAGCTAGGTCGCATGGATGATGCTAAGTGCACACCATGTGTACAAGAGAGCTAC-AGACA-
29337437 TA
64 TA
* * * * **
29337439 TGATGTAGCTAGGTCGCATGGGTGAT-CTATGTGTACACCATGTAG-ACAAGAGAGCTACGGGGA
1 T-ATGTAGCTAGGTCGCATGGATGATGCTAAGTGCACACCATGT-GTACAAGAGAGCTACAGACA
29337502 TA
64 TA
29337504 TATGTAGCTAGGTCGCATG
1 TATGTAGCTAGGTCGCATG
29337523 TGTAGTACTA
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
64 18 0.25
65 3 0.04
66 2 0.03
67 28 0.39
68 21 0.29
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.26
Consensus pattern (65 bp):
TATGTAGCTAGGTCGCATGGATGATGCTAAGTGCACACCATGTGTACAAGAGAGCTACAGACATA
Found at i:29337578 original size:51 final size:50
Alignment explanation
Indices: 29337521--29337710 Score: 267
Period size: 51 Copynumber: 3.8 Consensus size: 50
29337511 CTAGGTCGCA
29337521 TGTGTAGTACTAAGTGCAGGCTACTATGCGTATCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTA-CCGATAACTTCGATCACG
29337572 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTA-CCGATAACTTCGATCACG
* * * * * *
29337623 TGTGTAGTATTAAGTGCAGGCTACTACGTGTACCGGATAA-TT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACC-GATAACTTCGATCACG
*
29337672 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACC-GATA
29337711 GTTTGGCGAC
Statistics
Matches: 128, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
49 40 0.31
50 4 0.03
51 84 0.66
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.29
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGATAACTTCGATCACG
Found at i:29337705 original size:100 final size:102
Alignment explanation
Indices: 29337521--29337710 Score: 278
Period size: 100 Copynumber: 1.9 Consensus size: 102
29337511 CTAGGTCGCA
* *
29337521 TGTGTAGTACTAAGTGCAGGCTACTATGCGTATCCGATAACTTCGATCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTATCCGATAACTTCGATCACATGTGTAGTACTAAG
*
29337586 TGCAGGCTACTATGCGTACCCGATAACTTCGATCACG
66 TGCAGGCTACTATGCGTACCAGATAACTTCGATCACG
* * * *
29337623 TGTGTAGTATTAAGTGCAGGCTACTACGTGTA-CCGGATAA-TT-GGTCGCATGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTATCC-GATAACTTCGATCACATGTGTAGTACTAA
*
29337685 GTGCAGGCTACTATGTGTACCAGATA
65 GTGCAGGCTACTATGCGTACCAGATA
29337711 GTTTGGCGAC
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
100 41 0.52
101 4 0.05
102 34 0.43
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.29
Consensus pattern (102 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTATCCGATAACTTCGATCACATGTGTAGTACTAAG
TGCAGGCTACTATGCGTACCAGATAACTTCGATCACG
Found at i:29344039 original size:39 final size:39
Alignment explanation
Indices: 29343764--29344024 Score: 405
Period size: 39 Copynumber: 6.7 Consensus size: 39
29343754 CATGGAATTT
29343764 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
* *
29343803 GAAATATATCCGGACATGAGGTCTGCAGGCTATATGCTG
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
* *
29343842 GAAATATATCTGGACATGAAGTCCGCAAGCTATATGCTG
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
* * * *
29343881 GAAATATATCTGGACATGAGGTTCGCATGCTATATGCTG
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
29343920 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
* * * *
29343959 GGAATATATCCGGACATGAGGTCCACAGGCTAGATGCTG
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
*
29343998 GAAATATATCCGGACTTGAAGTCCGCA
1 GAAATATATCCGGACATGAAGTCCGCA
29344025 AGCCACGTGC
Statistics
Matches: 201, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 201 1.00
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (39 bp):
GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
Found at i:29351762 original size:39 final size:39
Alignment explanation
Indices: 29351719--29351963 Score: 382
Period size: 39 Copynumber: 6.3 Consensus size: 39
29351709 CATGGTATTT
** *
29351719 GAAATATATCCGGACATGAGGTCTACAGGCTATATGCTA
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
*
29351758 GAAATATATCCGGACATGAGGTCCACAGGCTATATGCTG
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
*
29351797 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
* *
29351836 GAAATATATCTGGACAAGAGGTCCGCAGGCTATATGCTG
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
* *
29351875 GAAATATATCCGGACATGAAGTTCGCAGGCTATATGCTG
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
* * *
29351914 GGAATATATTCGGACATGAGGTCCGCAGGCTATATACTG
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
29351953 GAAATATATCC
1 GAAATATATCC
29351964 AGACTTGAAG
Statistics
Matches: 188, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 188 1.00
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.24
Consensus pattern (39 bp):
GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
Found at i:29351991 original size:117 final size:117
Alignment explanation
Indices: 29351752--29351994 Score: 324
Period size: 117 Copynumber: 2.1 Consensus size: 117
29351742 TACAGGCTAT
* *
29351752 ATGCTAGAAATATATCCGGACATGAGGTCCACAGGCTATATGCTGGAAATATATCCGGACATGAA
1 ATGCTGGAAATATATCCGGACATGAAGTCCACAGGCTATATGCTGGAAATATATCCGGACATGAA
* ** * * * *
29351817 GTCCGCAGGCTATATGCTGGAAATATATCTGGACAAGAGGTCCGCAGGCTAT
66 GTCCGCAGGCTATATACTGGAAATATATCCAGACAAGAAGTCCGCAAGCCAC
* * * * *
29351869 ATGCTGGAAATATATCCGGACATGAAGTTCGCAGGCTATATGCTGGGAATATATTCGGACATGAG
1 ATGCTGGAAATATATCCGGACATGAAGTCCACAGGCTATATGCTGGAAATATATCCGGACATGAA
** *
29351934 GTCCGCAGGCTATATACTGGAAATATATCCAGACTTGAAGTTCGCAAGCCAC
66 GTCCGCAGGCTATATACTGGAAATATATCCAGACAAGAAGTCCGCAAGCCAC
*
29351986 GTGCTGGAA
1 ATGCTGGAA
29351995 TGGTATATGG
Statistics
Matches: 108, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
117 108 1.00
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (117 bp):
ATGCTGGAAATATATCCGGACATGAAGTCCACAGGCTATATGCTGGAAATATATCCGGACATGAA
GTCCGCAGGCTATATACTGGAAATATATCCAGACAAGAAGTCCGCAAGCCAC
Found at i:29353991 original size:30 final size:30
Alignment explanation
Indices: 29353957--29354017 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
29353947 TTCCCGAGCC
29353957 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * *
29353987 TAGGGGCAAAATTGTAATTTTGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
29354017 T
1 T
29354018 GAGTTAAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:29354801 original size:67 final size:64
Alignment explanation
Indices: 29354682--29354831 Score: 160
Period size: 67 Copynumber: 2.3 Consensus size: 64
29354672 AGACAGATAG
* * * *
29354682 TATGTAGCTAGGTCACATGTATGGTGCTAAGTGCACATCATGTGTACAAGAGAGCTACAAGACAT
1 TATGTAGCTAGGTCGCATGGATGATGCTAAGTGCACACCATGTGTACAAGAGAGCTAC--GACA-
29354747 TA
63 TA
* * * **
29354749 TGATGTAGCTAGGTCGCATGGGTGAT-CTAGGTGTACACCATGTAG-ACAAGAGAGCTACGGGAT
1 T-ATGTAGCTAGGTCGCATGGATGATGCTAAGTGCACACCATGT-GTACAAGAGAGCTACGACAT
29354812 A
64 A
29354813 TATGTAGCTAGGTCGCATG
1 TATGTAGCTAGGTCGCATG
29354832 TGTAGTACTA
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
63 18 0.25
64 3 0.04
65 2 0.03
67 28 0.39
68 21 0.29
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (64 bp):
TATGTAGCTAGGTCGCATGGATGATGCTAAGTGCACACCATGTGTACAAGAGAGCTACGACATA
Done.