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 168 of 253
Found at i:54604438 original size:37 final size:37
Alignment explanation
Indices: 54604382--54604460 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
54604372 CCGAGCTCTA
* *
54604382 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
54604419 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
54604456 AAGAC
1 AAGAC
54604461 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:54606356 original size:43 final size:43
Alignment explanation
Indices: 54606308--54606410 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
54606298 TTGGTTTTCA
54606308 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
54606351 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
54606394 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
54606411 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:54606427 original size:29 final size:29
Alignment explanation
Indices: 54606392--54606465 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
54606382 GTTGTGAGAT
* *
54606392 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
54606421 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
54606450 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
54606466 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:54606898 original size:40 final size:40
Alignment explanation
Indices: 54606854--54607130 Score: 482
Period size: 40 Copynumber: 6.9 Consensus size: 40
54606844 GAGTTACTAA
*
54606854 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
54606894 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
54606934 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
*
54606974 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
54607014 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* *
54607054 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * * *
54607094 ATCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
54607131 CGTGTATTCG
Statistics
Matches: 227, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 227 1.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
Found at i:54606912 original size:80 final size:80
Alignment explanation
Indices: 54606775--54607130 Score: 477
Period size: 80 Copynumber: 4.5 Consensus size: 80
54606765 TTGAATGATG
** ** *
54606775 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAG-GC
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TGTATCCGGGCTAAG-TCCCGAAGAGC
** * * *
54606836 ATTGGTGCGAGTTACTAAA
63 ATTCATGCTAGTGA-TATA
*
54606855 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTATCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
*
54606920 CATGCTAGTGATGTA
66 CATGCTAGTGATATA
54606935 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
* *
54607000 CATGCTAGCGATGTA
66 CATGCTAGTGATATA
54607015 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
*
54607080 CGTGCTAGTGATATA
66 CATGCTAGTGATATA
* * * *
54607095 TCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
54607131 CGTGTATTCG
Statistics
Matches: 251, Mismatches: 21, Indels: 8
0.90 0.08 0.03
Matches are distributed among these distances:
79 1 0.00
80 226 0.90
81 18 0.07
82 6 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
CATGCTAGTGATATA
Found at i:54606988 original size:120 final size:120
Alignment explanation
Indices: 54606775--54607125 Score: 503
Period size: 120 Copynumber: 2.9 Consensus size: 120
54606765 TTGAATGATG
** ** *
54606775 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAG-GC
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TGTATCCGGGCTAAG-TCCCGAAGAGC
** * * *
54606836 ATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
63 ATTCATGCTAGTGA-TATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
54606895 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
*
54606960 CATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
66 CATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
54607015 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
* * * *
54607080 CGTGCTAGTGATATATCCGTGCTAAATCCCGAAGAGCAATCATGCT
66 CATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
54607126 GGTGACGTGT
Statistics
Matches: 211, Mismatches: 16, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
119 1 0.00
120 185 0.88
121 19 0.09
122 6 0.03
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.24
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
CATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
Found at i:54610552 original size:47 final size:47
Alignment explanation
Indices: 54610500--54610835 Score: 456
Period size: 47 Copynumber: 7.3 Consensus size: 47
54610490 AGCCAAGACA
*
54610500 GTATATATGTGGTAAGGCCTAATAGCCGATGTGATGAATGTGAAAGT
1 GTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGT
*
54610547 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 GTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGT
54610594 GTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGT
1 GTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGT
*
54610641 GTATATATGTGATAAGGCCTAAT-----A-GT--CG-ATGTGAAAGT
1 GTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGT
* *
54610679 GTATAAATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 GTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGT
* * *
54610726 GTATATATGTGATAAGGCCTAATGGCCGTTGTGATTAATGTGAAAGT
1 GTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGT
* * * * * * *
54610773 GTATATATGTGACAGGGCCGAGTAGCCAACGTGATGGATGTGAAAGT
1 GTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGT
* *
54610820 GCATAAATGTGATAAG
1 GTATATATGTGATAAG
54610836 TCCCGAAGGG
Statistics
Matches: 257, Mismatches: 23, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
38 32 0.12
39 1 0.00
41 2 0.01
42 1 0.00
43 1 0.00
44 2 0.01
46 1 0.00
47 217 0.84
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
GTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGT
Found at i:54610694 original size:85 final size:85
Alignment explanation
Indices: 54610584--54610748 Score: 312
Period size: 85 Copynumber: 1.9 Consensus size: 85
54610574 GATGTGATGA
*
54610584 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATAAATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
54610649 GTGATAAGGCCTAATAGTCG
66 GTGATAAGGCCTAATAGTCG
*
54610669 ATGTGAAAGTGTATAAATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATAAATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
54610734 GTGATAAGGCCTAAT
66 GTGATAAGGCCTAAT
54610749 GGCCGTTGTG
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
85 78 1.00
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.30
Consensus pattern (85 bp):
ATGTGAAAGTGTATAAATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATAGTCG
Found at i:54610774 original size:132 final size:132
Alignment explanation
Indices: 54610537--54610784 Score: 460
Period size: 132 Copynumber: 1.9 Consensus size: 132
54610527 GATGTGATGA
*
54610537 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATAAATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
54610602 GTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGT
66 GTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGT
54610667 CG
131 CG
54610669 ATGTGAAAGTGTATAAATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATAAATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * *
54610734 GTGATAAGGCCTAATGGCCGTTGTGATTAATGTGAAAGTGTATATATGTGA
66 GTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
54610785 CAGGGCCGAG
Statistics
Matches: 112, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
132 112 1.00
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (132 bp):
ATGTGAAAGTGTATAAATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGT
CG
Found at i:54610816 original size:179 final size:179
Alignment explanation
Indices: 54610500--54610835 Score: 546
Period size: 179 Copynumber: 1.9 Consensus size: 179
54610490 AGCCAAGACA
* *
54610500 GTATATATGTGGTAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
1 GTATAAATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
* * * *
54610565 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
66 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATAGCCAACGTGATG
* *
54610630 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGTCGATGTGAAAGT
131 AATGTGAAAGTGCATAAATGTGATAAGGCCTAATAGTCGATGTGAAAGT
*
54610679 GTATAAATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
1 GTATAAATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
* * * *
54610744 CTAATGGCCGTTGTGATTAATGTGAAAGTGTATATATGTGACAGGGCCGAGTAGCCAACGTGATG
66 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATAGCCAACGTGATG
*
54610809 GATGTGAAAGTGCATAAATGTGATAAG
131 AATGTGAAAGTGCATAAATGTGATAAG
54610836 TCCCGAAGGG
Statistics
Matches: 143, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
179 143 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (179 bp):
GTATAAATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATAGCCAACGTGATG
AATGTGAAAGTGCATAAATGTGATAAGGCCTAATAGTCGATGTGAAAGT
Found at i:54611010 original size:37 final size:37
Alignment explanation
Indices: 54610954--54611032 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
54610944 CCGAGCTCTA
* *
54610954 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
54610991 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
54611028 AAGAC
1 AAGAC
54611033 TTTGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:54653613 original size:48 final size:48
Alignment explanation
Indices: 54653465--54653843 Score: 249
Period size: 48 Copynumber: 7.9 Consensus size: 48
54653455 GGTAAAATGT
** * *
54653465 CGATGCCATGTCCCGGACATGATTTTACACTGGCTCTCATAC-ATCGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATACAAT-GGC
*
54653513 GTCGATGCCATGTCCCAAACATGGTCTTACACT-GATACAT-ATAACAAT-GC
1 --CGATGCCATGTCCCAAACATGGTCTTACACTGGCT-C-TCAT-ACAATGGC
** **
54653563 CGATGCCATGTTGCAAACATGGTCTTACACTGGCTCTCATATTATGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATACAATGGC
* ** * *
54653611 CGATGACATGTCCCAGGCATGGTCTTACACTGGCTCACATAACAAT-GT
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAT-ACAATGGC
* * * * * * ** *
54653659 CGACGCCATGTTCCAAACATAGTCTTACACAGACTCACATATTGA-GGT
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATA-CAATGGC
* * *
54653707 CAATGCCATGTCCCAGACATGGTCTTACACTGGCT-TCCATA-AACCGGTGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCT-CATACAA--TG-GC
* * * *
54653757 TGATGCCATGTCCCAAACATGGTCTTACACT-G-ACACATATCGA-GGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATA-CAATGGC
** * * *
54653803 TAATGCCATGTCCCAGACATGGTATTACACTGACTCTCATA
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATA
54653844 TCACCATGGT
Statistics
Matches: 258, Mismatches: 51, Indels: 42
0.74 0.15 0.12
Matches are distributed among these distances:
46 31 0.12
47 6 0.02
48 145 0.56
49 9 0.03
50 62 0.24
51 3 0.01
52 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (48 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATACAATGGC
Found at i:54653657 original size:96 final size:96
Alignment explanation
Indices: 54653460--54653843 Score: 341
Period size: 96 Copynumber: 4.0 Consensus size: 96
54653450 AAAAGGGTAA
* * ** * * *
54653460 AATGTCGATGCCATGTCCCGGACATGATTTTACACTGGCTCTCATA-CATCGGCGTCGATGCCAT
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATTAT-GGC--CGATGCCAT
* * *
54653524 GTCCCAAACATGGTCTTACACT-GATACATATAAC
63 GTCCCAGACATGGTCTTACACTGGCT-CACATAAC
* *
54653558 AATGCCGATGCCATGTTGCAAACATGGTCTTACACTGGCTCTCATATTATGGCCGATGACATGTC
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATTATGGCCGATGCCATGTC
*
54653623 CCAGGCATGGTCTTACACTGGCTCACATAAC
66 CCAGACATGGTCTTACACTGGCTCACATAAC
* * * * * * * *
54653654 AATGTCGACGCCATGTTCCAAACATAGTCTTACACAGACTCACATATTGA-GGTCAATGCCATGT
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATT-ATGGCCGATGCCATGT
54653718 CCCAGACATGGTCTTACACTGGCTTC-CATAAACC
65 CCCAGACATGGTCTTACACTGGC-TCACAT-AA-C
** * * * * * **
54653752 GGTGCTGATGCCATGTCCCAAACATGGTCTTACACT-G-ACACATATCGA-GGCTAATGCCATGT
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAT-TATGGCCGATGCCATGT
* * *
54653814 CCCAGACATGGTATTACACTGACTCTCATA
65 CCCAGACATGGTCTTACACTGGCTCACATA
54653844 TCACCATGGT
Statistics
Matches: 239, Mismatches: 39, Indels: 19
0.80 0.13 0.06
Matches are distributed among these distances:
95 3 0.01
96 156 0.65
97 7 0.03
98 71 0.30
99 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27
Consensus pattern (96 bp):
AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATTATGGCCGATGCCATGTC
CCAGACATGGTCTTACACTGGCTCACATAAC
Found at i:54663671 original size:53 final size:54
Alignment explanation
Indices: 54663489--54663691 Score: 210
Period size: 53 Copynumber: 3.8 Consensus size: 54
54663479 ATTAGGGTTT
* * * * *
54663489 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCAATAAGGC
* * * * * * * *
54663543 AAGGAAATCATGTAAGACCATGTCAAGACATGACATTGATAAACTACAATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTCAATAAGGC
* * * *
54663598 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCAATAAGGC
* * *
54663651 AAGGATACCACGTAAAACCATGTCAAGACATGGCAATGGTA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTA
54663692 TGTTTAAAAA
Statistics
Matches: 118, Mismatches: 30, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
53 41 0.35
54 36 0.31
55 41 0.35
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.19
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCAATAAGGC
Found at i:54668029 original size:40 final size:40
Alignment explanation
Indices: 54667985--54668070 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 40
54667975 TGTATTTGCC
*
54667985 TTCAGGAGTGCCAAAGTACAAACAGGGGCACGAATGTGCA
1 TTCAGGAGTACCAAAGTACAAACAGGGGCACGAATGTGCA
* * * *
54668025 TTCAGGGGTATCGAAGTACAAACAGGGGCATGAATGTGCA
1 TTCAGGAGTACCAAAGTACAAACAGGGGCACGAATGTGCA
54668065 TTCAGG
1 TTCAGG
54668071 GAATAAATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.33, C:0.17, G:0.31, T:0.19
Consensus pattern (40 bp):
TTCAGGAGTACCAAAGTACAAACAGGGGCACGAATGTGCA
Found at i:54668032 original size:20 final size:20
Alignment explanation
Indices: 54668007--54668071 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
54667997 AAAGTACAAA
54668007 CAGGGGCACGAATGTGCATT
1 CAGGGGCACGAATGTGCATT
* * **
54668027 CAGGGGTATCGAA-GTACAAA
1 CAGGGGCA-CGAATGTGCATT
*
54668047 CAGGGGCATGAATGTGCATT
1 CAGGGGCACGAATGTGCATT
54668067 CAGGG
1 CAGGG
54668072 AATAAATATA
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
19 3 0.09
20 27 0.79
21 4 0.12
ACGTcount: A:0.29, C:0.17, G:0.35, T:0.18
Consensus pattern (20 bp):
CAGGGGCACGAATGTGCATT
Found at i:54679087 original size:39 final size:39
Alignment explanation
Indices: 54679012--54679245 Score: 236
Period size: 39 Copynumber: 5.7 Consensus size: 39
54679002 TCACCACAAC
* *
54679012 AAAGCATGCGGGACTTTAAGCCCGGATATAATACCAGCAC-
1 AAAGCCTGCGGGAC-TT-AGCCCGGATATAACACCAGCACG
54679052 AAAGCCTGCGGGACTTTAGCCCGGATATAACACCAGCACG
1 AAAGCCTGCGGGAC-TTAGCCCGGATATAACACCAGCACG
* * *
54679092 AATGCCTTCGGGACTTAGCCCGGATATAGCACCAGCACG
1 AAAGCCTGCGGGACTTAGCCCGGATATAACACCAGCACG
* *
54679131 AATGCCTTCGGGACTTAGCCCGGATATAATACCAGCACGAATGCACG
1 AAAGCCTGCGGGACTTAGCCCGGATAT-A-A-CA-C-C--A-GCACG
* * * *
54679178 AATGCCTTCGGGACTTAGCCTGGGTATAACACCAGCACG
1 AAAGCCTGCGGGACTTAGCCCGGATATAACACCAGCACG
* * *
54679217 AATGCCTTCAGGACTTAGCCCGGATATAA
1 AAAGCCTGCGGGACTTAGCCCGGATATAA
54679246 TTCTCCATTA
Statistics
Matches: 174, Mismatches: 11, Indels: 19
0.85 0.05 0.09
Matches are distributed among these distances:
39 103 0.59
40 30 0.17
42 3 0.02
43 2 0.01
44 3 0.02
45 1 0.01
46 2 0.01
47 30 0.17
ACGTcount: A:0.29, C:0.28, G:0.24, T:0.19
Consensus pattern (39 bp):
AAAGCCTGCGGGACTTAGCCCGGATATAACACCAGCACG
Found at i:54679186 original size:47 final size:46
Alignment explanation
Indices: 54679087--54679221 Score: 176
Period size: 47 Copynumber: 3.0 Consensus size: 46
54679077 TATAACACCA
*
54679087 GCACGAATGCCTTCGGGACTTAGCCCGG-AT-AT---AGCAC-CA-
1 GCACGAATGCCTTCGGGACTTAGCCCGGTATAATACCAGCACGAAT
54679126 GCACGAATGCCTTCGGGACTTAGCCCGGATATAATACCAGCACGAAT
1 GCACGAATGCCTTCGGGACTTAGCCCGG-TATAATACCAGCACGAAT
* *
54679173 GCACGAATGCCTTCGGGACTTAGCCTGGGTATAACACCAGCACGAAT
1 GCACGAATGCCTTCGGGACTTAGCC-CGGTATAATACCAGCACGAAT
54679220 GC
1 GC
54679222 CTTCAGGACT
Statistics
Matches: 84, Mismatches: 3, Indels: 10
0.87 0.03 0.10
Matches are distributed among these distances:
39 28 0.33
41 2 0.02
42 2 0.02
45 5 0.06
46 1 0.01
47 44 0.52
48 2 0.02
ACGTcount: A:0.27, C:0.29, G:0.25, T:0.19
Consensus pattern (46 bp):
GCACGAATGCCTTCGGGACTTAGCCCGGTATAATACCAGCACGAAT
Found at i:54679232 original size:86 final size:86
Alignment explanation
Indices: 54679087--54679246 Score: 284
Period size: 86 Copynumber: 1.9 Consensus size: 86
54679077 TATAACACCA
* *
54679087 GCACGAATGCCTTCGGGACTTAGCCCGGATATAGCACCAGCACGAATGCCTTCGGGACTTAGCCC
1 GCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCAGGACTTAGCCC
54679152 GGATATAATACCAGCACGAAT
66 GGATATAATACCAGCACGAAT
* *
54679173 GCACGAATGCCTTCGGGACTTAGCCTGGGTATAACACCAGCACGAATGCCTTCAGGACTTAGCCC
1 GCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCAGGACTTAGCCC
54679238 GGATATAAT
66 GGATATAAT
54679247 TCTCCATTAT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 70 1.00
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (86 bp):
GCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCAGGACTTAGCCC
GGATATAATACCAGCACGAAT
Found at i:54685194 original size:14 final size:14
Alignment explanation
Indices: 54685175--54685206 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
54685165 ATATTATTTA
54685175 AAATGTATATCACC
1 AAATGTATATCACC
54685189 AAATGTATATCACC
1 AAATGTATATCACC
54685203 AAAT
1 AAAT
54685207 CAATCTCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.19, G:0.06, T:0.28
Consensus pattern (14 bp):
AAATGTATATCACC
Found at i:54685559 original size:39 final size:39
Alignment explanation
Indices: 54685469--54685733 Score: 361
Period size: 39 Copynumber: 6.5 Consensus size: 39
54685459 ACAAAGCATG
* * * *
54685469 CGGGACTTTAAGCCCGGATATAATACCAACAC-AAAGCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
54685509 CGGGACTTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
54685549 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
54685588 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
54685627 TGGGACTTAGCTCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
54685666 CGGGACTTAGCCTGGATATAATACCAGCACGAATGCACGAATGCCTT
1 CGGGACTTAGCCCGGATAT-A-A-CA-C-C--A-GCACGAATGCCTT
54685713 CGGGACTTAGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
54685734 TTCTCCATTA
Statistics
Matches: 206, Mismatches: 10, Indels: 13
0.90 0.04 0.06
Matches are distributed among these distances:
39 145 0.70
40 22 0.11
41 1 0.00
42 2 0.01
43 1 0.00
44 1 0.00
45 1 0.00
46 2 0.01
47 31 0.15
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:54688808 original size:40 final size:40
Alignment explanation
Indices: 54688727--54688902 Score: 250
Period size: 40 Copynumber: 4.5 Consensus size: 40
54688717 AAACCAAGTA
** * *
54688727 CCTTCGGGGTTTAG-CCGGATATAGCT-TCTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
54688766 CCTTCGGGACTTAGCCCGGCTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
54688806 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
54688846 CCTTCGGGACTTAGCCTGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
54688886 CCTTCGGG-CTTAGCCCG
1 CCTTCGGGACTTAGCCCG
54688903 ATTATCAATT
Statistics
Matches: 124, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 21 0.17
40 103 0.83
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:54691497 original size:18 final size:18
Alignment explanation
Indices: 54691474--54691509 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
54691464 TATATGAATA
54691474 TATGGATAAATGTGGCTT
1 TATGGATAAATGTGGCTT
54691492 TATGGATAAATGTGGCTT
1 TATGGATAAATGTGGCTT
54691510 GAAATTGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.06, G:0.28, T:0.39
Consensus pattern (18 bp):
TATGGATAAATGTGGCTT
Found at i:54695627 original size:42 final size:43
Alignment explanation
Indices: 54695535--54695639 Score: 142
Period size: 43 Copynumber: 2.5 Consensus size: 43
54695525 CAAAGCTGAC
* * *
54695535 GTCCCAGACGTAGTCTTACATGTAACCAAATATCGATGCTACT
1 GTCCCAGACGTAGTCTTACATGAAACCAAATATCGATGCCAAT
*
54695578 GTCCCAGACAG-AGTCTTACATGAAATCAAATA-CGATGCCAAT
1 GTCCCAGAC-GTAGTCTTACATGAAACCAAATATCGATGCCAAT
*
54695620 GTCCCAGACGTGGTCTTACA
1 GTCCCAGACGTAGTCTTACA
54695640 CGTAAATCAT
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
41 1 0.02
42 25 0.45
43 28 0.51
44 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (43 bp):
GTCCCAGACGTAGTCTTACATGAAACCAAATATCGATGCCAAT
Found at i:54695647 original size:43 final size:43
Alignment explanation
Indices: 54695535--54695690 Score: 140
Period size: 43 Copynumber: 3.6 Consensus size: 43
54695525 CAAAGCTGAC
* * * *
54695535 GTCCCAGACGTAGTCTTACATGT-AACCAAATATCGATGCTACT
1 GTCCCAGACGTAGTCTTACACGTAAATCAAATA-CGATGCCAAT
*
54695578 GTCCCAGACAG-AGTCTTACATG-AAATCAAATACGATGCCAAT
1 GTCCCAGAC-GTAGTCTTACACGTAAATCAAATACGATGCCAAT
* * *
54695620 GTCCCAGACGTGGTCTTACACGTAAATCATAAGT-CCATGCCAAC
1 GTCCCAGACGTAGTCTTACACGTAAATCA-AA-TACGATGCCAAT
* * *
54695664 ATCCCAAACGTGGTCTTACACGATAAA
1 GTCCCAGACGTAGTCTTACACG-TAAA
54695691 ACATATCGGA
Statistics
Matches: 97, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
41 1 0.01
42 26 0.27
43 34 0.35
44 31 0.32
45 5 0.05
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (43 bp):
GTCCCAGACGTAGTCTTACACGTAAATCAAATACGATGCCAAT
Found at i:54697019 original size:18 final size:17
Alignment explanation
Indices: 54696998--54697042 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
54696988 GAACAAATTT
54696998 TTCTTCTTCCACAACAAC
1 TTCTTCTTCC-CAACAAC
* *
54697016 TTCTGCTTTTCCAACAAC
1 TTCTTC-TTCCCAACAAC
54697034 TTCTTCTTC
1 TTCTTCTTC
54697043 GGCAGCATCA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
17 2 0.09
18 17 0.77
19 3 0.14
ACGTcount: A:0.20, C:0.36, G:0.02, T:0.42
Consensus pattern (17 bp):
TTCTTCTTCCCAACAAC
Found at i:54717884 original size:28 final size:28
Alignment explanation
Indices: 54717818--54717945 Score: 175
Period size: 28 Copynumber: 4.5 Consensus size: 28
54717808 CATGAGATTG
* * **
54717818 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
54717847 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
54717875 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
54717904 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
54717932 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
54717946 GACTTACTAT
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 45 0.51
29 44 0.49
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:54717907 original size:57 final size:57
Alignment explanation
Indices: 54717818--54717945 Score: 186
Period size: 57 Copynumber: 2.2 Consensus size: 57
54717808 CATGAGATTG
*
54717818 GCACTAAGTGTGCGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
* * * *
54717875 GCACTAAGTGTGCGAGTTTGATTATGTA-AGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAAT-TGCATAGCACTAAGTGTGCAAGTTTGATTATATA
*
54717932 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
54717946 GACTTACTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
Found at i:54722354 original size:43 final size:42
Alignment explanation
Indices: 54722298--54722390 Score: 96
Period size: 42 Copynumber: 2.2 Consensus size: 42
54722288 CAGATGTGGA
* * * * *
54722298 CTTACATGTAATCAAACATCAATGCCACTGTCTCAGACAGGGT
1 CTTACACGAAATCAAACAT-AATGCCAATGTCCCAAACAGGGT
* * * *
54722341 CTTACACGAAATCATATATGATGCCAATGTCCCAAACATGGT
1 CTTACACGAAATCAAACATAATGCCAATGTCCCAAACAGGGT
54722383 CTTACACG
1 CTTACACG
54722391 CAAAACAGAA
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
42 26 0.63
43 15 0.37
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (42 bp):
CTTACACGAAATCAAACATAATGCCAATGTCCCAAACAGGGT
Found at i:54724254 original size:42 final size:42
Alignment explanation
Indices: 54724195--54724276 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
54724185 GGGAAAGTAG
*
54724195 TTCCCTTATTCTAATAAACTACTTAAACATAAAAGAAAATTT
1 TTCCCTTATTCTAATAAACTACTAAAACATAAAAGAAAATTT
* * *
54724237 TTCCCTTATTCTAATAAACTAGTAAAAGATAAAATAAAAT
1 TTCCCTTATTCTAATAAACTACTAAAACATAAAAGAAAAT
54724277 ATTCCTAGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.48, C:0.15, G:0.04, T:0.34
Consensus pattern (42 bp):
TTCCCTTATTCTAATAAACTACTAAAACATAAAAGAAAATTT
Found at i:54724321 original size:19 final size:18
Alignment explanation
Indices: 54724299--54724338 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
54724289 TGAATAAAAC
54724299 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
54724318 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
54724336 TTA
1 TTA
54724339 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:54729380 original size:27 final size:27
Alignment explanation
Indices: 54729349--54729405 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
54729339 ATCAAGGCAT
54729349 TACTCATAAGTTTAGTGTACATACTTG
1 TACTCATAAGTTTAGTGTACATACTTG
54729376 TACTCATAAGTTTAGTGTACATACTTG
1 TACTCATAAGTTTAGTGTACATACTTG
54729403 TAC
1 TAC
54729406 AATTTGTAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (27 bp):
TACTCATAAGTTTAGTGTACATACTTG
Found at i:54734983 original size:43 final size:42
Alignment explanation
Indices: 54734936--54735061 Score: 108
Period size: 42 Copynumber: 2.9 Consensus size: 42
54734926 TCCTAGACGT
* * *
54734936 GGTCTTGCATGTAATCAAACATCGATGCCATTGTCCCAGAAAG
1 GGTCTTGCACGAAATCAAACA-CGATGCCAATGTCCCAGAAAG
* * * * *
54734979 GGTCTTTCACGAAATCATATACGATGCCAATGTCCCAGACAT
1 GGTCTTGCACGAAATCAAACACGATGCCAATGTCCCAGAAAG
* * ** *
54735021 GGTCTTACACGCAAAACAGAAGTCGATGCCAACGTCCCAGA
1 GGTCTTGCACG-AAATCA-AACACGATGCCAATGTCCCAGA
54735062 CGTGGTCTCA
Statistics
Matches: 67, Mismatches: 14, Indels: 3
0.80 0.17 0.04
Matches are distributed among these distances:
42 28 0.42
43 21 0.31
44 18 0.27
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (42 bp):
GGTCTTGCACGAAATCAAACACGATGCCAATGTCCCAGAAAG
Found at i:54755647 original size:48 final size:47
Alignment explanation
Indices: 54755553--54755727 Score: 144
Period size: 48 Copynumber: 3.7 Consensus size: 47
54755543 GTTTCGATAT
* * * * *
54755553 CATGTCCAAACATGGTCTTACACTAGCACATCTAT-TC-ATGCCGATGC
1 CATGTCCTAAGATGGTCTTACACTGGCTC-TC-ATCTCAAGGCCGATGC
* *
54755600 CATGTCCTAAAGATGGTCTTACACTGGCT-TACATCTCGAGGCTGATG-
1 CATGTCCT-AAGATGGTCTTACACTGGCTCT-CATCTCAAGGCCGATGC
* *
54755647 CATGTCCT-AGACGTGTCTTACACTGGCTCTCATCTCAATGCCGATGC
1 CATGTCCTAAGATG-GTCTTACACTGGCTCTCATCTCAAGGCCGATGC
* * * *
54755694 CAAGTCCCAGACATGGTCTTATACTGGCTCTCAT
1 CATGTCCTA-AGATGGTCTTACACTGGCTCTCAT
54755728 AATGTAGCCG
Statistics
Matches: 104, Mismatches: 15, Indels: 17
0.76 0.11 0.12
Matches are distributed among these distances:
45 4 0.04
46 30 0.29
47 25 0.24
48 42 0.40
49 3 0.03
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (47 bp):
CATGTCCTAAGATGGTCTTACACTGGCTCTCATCTCAAGGCCGATGC
Found at i:54755672 original size:46 final size:45
Alignment explanation
Indices: 54755592--54755767 Score: 167
Period size: 46 Copynumber: 3.8 Consensus size: 45
54755582 ATCTATTCAT
* *
54755592 GCCGATGCCATGTCCTAAAGATGGTCTTACACTGGCT-TACATCTCGA
1 GCCGATG-CATGTCCTAGACAT-GTCTTACACTGGCTCT-CATCTCGA
* * *
54755639 GGCTGATGCATGTCCTAGACGTGTCTTACACTGGCTCTCATCTCAA
1 -GCCGATGCATGTCCTAGACATGTCTTACACTGGCTCTCATCTCGA
* * * *
54755685 TGCCGATGCCAAGTCCCAGACATGGTCTTATACTGGCTCTCATAAT-GTA
1 -GCCGATG-CATGTCCTAGACAT-GTCTTACACTGGCTCTCAT-CTCG-A
*
54755734 GCCGATGCATGTCCTAGACATGTCTTACATTGGC
1 GCCGATGCATGTCCTAGACATGTCTTACACTGGC
54755768 ACACAAATAA
Statistics
Matches: 106, Mismatches: 17, Indels: 12
0.79 0.13 0.09
Matches are distributed among these distances:
46 38 0.36
47 35 0.33
48 31 0.29
49 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (45 bp):
GCCGATGCATGTCCTAGACATGTCTTACACTGGCTCTCATCTCGA
Found at i:54755689 original size:94 final size:94
Alignment explanation
Indices: 54755590--54755767 Score: 227
Period size: 94 Copynumber: 1.9 Consensus size: 94
54755580 ACATCTATTC
* * * * *
54755590 ATGCCGATGCCATGTCCTAAAGATGGTCTTACACTGGCT-TACAT-CTCG-AGGCTGATGCATGT
1 ATGCCGATGCCAAGTCCCAAACATGGTCTTACACTGGCTCT-CATAAT-GTA-GCCGATGCATGT
*
54755652 CCTAGACGTGTCTTACACTGGCTCTCATCTCA
63 CCTAGACATGTCTTACACTGGCTCTCATCTCA
* *
54755684 ATGCCGATGCCAAGTCCCAGACATGGTCTTATACTGGCTCTCATAATGTAGCCGATGCATGTCCT
1 ATGCCGATGCCAAGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTAGCCGATGCATGTCCT
*
54755749 AGACATGTCTTACATTGGC
66 AGACATGTCTTACACTGGC
54755768 ACACAAATAA
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
94 69 0.96
95 3 0.04
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.29
Consensus pattern (94 bp):
ATGCCGATGCCAAGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTAGCCGATGCATGTCCT
AGACATGTCTTACACTGGCTCTCATCTCA
Found at i:54758454 original size:39 final size:40
Alignment explanation
Indices: 54758410--54758698 Score: 360
Period size: 40 Copynumber: 7.3 Consensus size: 40
54758400 CCTTCGAAGT
* *
54758410 TTAG-CCGGGTATAGCT-ACTAGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGGTATAG-TAACTCGCACAAATGCCTTCGGGAC
*
54758449 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGGTATAGTAACTCGCACAAATGCCTTCGGGAC
*
54758489 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGGTATAGTAACTCGCACAAATGCCTTCGGGAC
* *
54758529 TTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGG-C
1 TTAGCCCGGGTATAGTAACTCGCACAAATGCCTTCGGGAC
* *
54758568 TTAGCCC-GGAATTAGTCACTCGCACAAATGCCTTCGGG-C
1 TTAGCCCGGGTA-TAGTAACTCGCACAAATGCCTTCGGGAC
* * *
54758607 TTAG-CCTGGAATTAGTCACTCGCACAAATGCCTTCGGG-C
1 TTAGCCCGGGTA-TAGTAACTCGCACAAATGCCTTCGGGAC
* * *
54758646 TTAGCCCGAAGT-TAGTCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCG-GGTATAGTAACTCGCACAAATGCCTTCGGGAC
54758686 TTAGCCCGGGTAT
1 TTAGCCCGGGTAT
54758699 CAATCCGAAT
Statistics
Matches: 228, Mismatches: 14, Indels: 15
0.89 0.05 0.06
Matches are distributed among these distances:
38 4 0.02
39 105 0.46
40 118 0.52
41 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGGTATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:54758477 original size:40 final size:39
Alignment explanation
Indices: 54758410--54758694 Score: 364
Period size: 39 Copynumber: 7.2 Consensus size: 39
54758400 CCTTCGAAGT
* * *
54758410 TTAGCCGGGTATAGCT-ACTAGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGTATAG-TAACTCGCACAAATGCCTTCGGGAC
54758449 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGAC
54758489 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGAC
*
54758529 TTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGG-C
1 TTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGAC
* *
54758568 TTAGCCCGGAATTAGTCACTCGCACAAATGCCTTCGGG-C
1 TTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGAC
* * *
54758607 TTAGCCTGGAATTAGTCACTCGCACAAATGCCTTCGGG-C
1 TTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGAC
* *
54758646 TTAGCCCGAAGT-TAGTCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCG--GTATAGTAACTCGCACAAATGCCTTCGGGAC
54758686 TTAGCCCGG
1 TTAGCCCGG
54758695 GTATCAATCC
Statistics
Matches: 228, Mismatches: 12, Indels: 13
0.90 0.05 0.05
Matches are distributed among these distances:
38 2 0.01
39 114 0.50
40 111 0.49
41 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
TTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:54763316 original size:21 final size:21
Alignment explanation
Indices: 54763260--54763310 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
54763250 CTCCTATCCG
54763260 TCAACTCTTGCAACTGAGCTT
1 TCAACTCTTGCAACTGAGCTT
54763281 TCAACTCTTGCAACTGAGCTT
1 TCAACTCTTGCAACTGAGCTT
*
54763302 TGAACTCTT
1 TCAACTCTT
54763311 TTAACTCGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.35
Consensus pattern (21 bp):
TCAACTCTTGCAACTGAGCTT
Found at i:54766803 original size:40 final size:40
Alignment explanation
Indices: 54766759--54767020 Score: 358
Period size: 40 Copynumber: 6.6 Consensus size: 40
54766749 GCTACTAGCT
*
54766759 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
54766799 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
54766839 CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
54766879 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* *
54766918 CAAATGCCTTCGGG-CTTAGCCCGGAATTA-A-TCACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGG--TTATAGTAACTCGCA
* * *
54766957 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
54766996 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
54767021 GTATCAATCC
Statistics
Matches: 204, Mismatches: 10, Indels: 16
0.89 0.04 0.07
Matches are distributed among these distances:
36 1 0.00
38 2 0.01
39 97 0.48
40 103 0.50
42 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:54766976 original size:78 final size:80
Alignment explanation
Indices: 54766759--54767020 Score: 401
Period size: 78 Copynumber: 3.3 Consensus size: 80
54766749 GCTACTAGCT
*
54766759 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGTACAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCG
* *
54766823 G-TTATAGTAACTCGCA
65 GAAT-TAGTCACTCGCA
54766839 CAAATGCCTTCGGGACTTAGCCC-GATTATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGG
54766903 AATTAGTCACTCGCA
66 AATTAGTCACTCGCA
* *
54766918 CAAATGCCTTCGGG-CTTAGCCCGGAATTA-A-TCACTCACACAAATGCCTTCGGGCTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGG-ATTATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCG
*
54766980 GAATTAGTCACTAGCA
65 GAATTAGTCACTCGCA
54766996 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
54767021 GTATCAATCC
Statistics
Matches: 171, Mismatches: 6, Indels: 11
0.91 0.03 0.06
Matches are distributed among these distances:
78 67 0.39
79 48 0.28
80 56 0.33
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGG
AATTAGTCACTCGCA
Found at i:54774091 original size:18 final size:17
Alignment explanation
Indices: 54774063--54774096 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
54774053 TCATTTTCTG
54774063 TATTTTATTTGTTATAA
1 TATTTTATTTGTTATAA
54774080 TATTTATATTTGTTATA
1 TATTT-TATTTGTTATA
54774097 TTAAATGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (17 bp):
TATTTTATTTGTTATAA
Found at i:54774186 original size:36 final size:35
Alignment explanation
Indices: 54774107--54774192 Score: 102
Period size: 36 Copynumber: 2.4 Consensus size: 35
54774097 TTAAATGTAT
*
54774107 TTATTATATGTCTTTTAAATATTATGTTATATATA
1 TTATTATATGTATTTTAAATATTATGTTATATATA
* * *
54774142 -TATATATATGTATTTTCAATATTGTTGTTATATTTA
1 TTAT-TATATGTATTTTAAATATT-ATGTTATATATA
*
54774178 TTATTATATATATTT
1 TTATTATATGTATTT
54774193 GTTTAGTATA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
34 3 0.07
35 17 0.40
36 20 0.47
37 3 0.07
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (35 bp):
TTATTATATGTATTTTAAATATTATGTTATATATA
Found at i:54774645 original size:27 final size:27
Alignment explanation
Indices: 54774607--54774658 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
54774597 CTATGCATAC
* * *
54774607 ATACTTTTAACATTATATTTTATATGT
1 ATACTCTTAACATCATATTATATATGT
54774634 ATACTCTTAACATCATATTATATAT
1 ATACTCTTAACATCATATTATATAT
54774659 ATATCTTGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.37, C:0.12, G:0.02, T:0.50
Consensus pattern (27 bp):
ATACTCTTAACATCATATTATATATGT
Found at i:54786189 original size:38 final size:39
Alignment explanation
Indices: 54786123--54786199 Score: 95
Period size: 38 Copynumber: 2.0 Consensus size: 39
54786113 ATTATGCTTG
54786123 AAAAAAAAAATCAAGATGAAAACCCG-AAAGGGCATCTT
1 AAAAAAAAAATCAAGATGAAAACCCGAAAAGGGCATCTT
* ** *
54786161 AAAAAAAAGATCAATG-TGAAAATTCGAAAAGGGCGTCTT
1 AAAAAAAAAATCAA-GATGAAAACCCGAAAAGGGCATCTT
54786200 GATTAACACA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
38 21 0.64
39 12 0.36
ACGTcount: A:0.52, C:0.13, G:0.18, T:0.17
Consensus pattern (39 bp):
AAAAAAAAAATCAAGATGAAAACCCGAAAAGGGCATCTT
Found at i:54787368 original size:79 final size:78
Alignment explanation
Indices: 54787090--54787408 Score: 297
Period size: 79 Copynumber: 4.0 Consensus size: 78
54787080 TTAATTTATA
* ** * *
54787090 CTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGTACGTTGAGGTAATTTT
1 CTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
54787155 AATTTCTG-TT-T
66 AATTTCTGTTTCT
*** * * * **
54787166 -TTCAAAAAAATCAACTCACATTGCGAGAGATGAGTTGAACCTC-GGTTCACATACTGAGGT-AT
1 CTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAAT
*
54787228 TTCCAATTTCCGTTCTTTCAATTT
63 TT-CAATTT-C--TGTTTC----T
* *
54787252 ATGTTTCAAAAGAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
1 CT-TTTC-AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
54787317 TTCAATTTCTGTTTCT
63 TTCAATTTCTGTTTCT
* *
54787333 GCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTT
1 -CTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
*
54787398 CAATTTTTGTT
65 CAATTTCTGTT
54787409 CTTTCAATTT
Statistics
Matches: 195, Mismatches: 28, Indels: 37
0.75 0.11 0.14
Matches are distributed among these distances:
74 2 0.01
75 37 0.19
76 4 0.02
77 12 0.06
78 1 0.01
79 62 0.32
80 4 0.02
81 7 0.04
82 1 0.01
85 5 0.03
86 1 0.01
87 2 0.01
88 17 0.09
89 7 0.04
90 31 0.16
91 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.34
Consensus pattern (78 bp):
CTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
AATTTCTGTTTCT
Found at i:54787473 original size:178 final size:178
Alignment explanation
Indices: 54787247--54787786 Score: 800
Period size: 178 Copynumber: 3.0 Consensus size: 178
54787237 CCGTTCTTTC
* *
54787247 AATTTATG-TTTCAAAAGAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
1 AATTCATGTTTTC-AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
*
54787311 GGTAATTTCAATTTCTGTTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
64 GGTAATTTCAATTTCTATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
54787376 TCAAGACACGCTGAGGTATTTTCAATTTTTGTTCTTTCAATTTCTGTTTT
129 TCAGGACACGCTGAGGTATTTTCAATTTCTGTTCTTTCAATTTCTGTTTT
*
54787426 AATTCATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGA
1 AATTCATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
*
54787491 TAATTTCAATTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
66 TAATTTCAATTTCTATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
*
54787556 AGGACACGCTGAGGTATTTTCAATTTCTGTTCTTCCAATTTCTGTTTT
131 AGGACACGCTGAGGTATTTTCAATTTCTGTTCTTTCAATTTCTGTTTT
* *
54787604 AATTCATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCATGG-CACGCTGAT
1 AATTCATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GGACACGCTGAG
* * ** *
54787668 GTATTTTCAATTTTTGTCTTTAATTTTTATTTTTCCAAAATCAACTCATATTGCGAGAGGTGAGT
65 GTAATTTCAA---TT-TC--T-ATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGT
* * *
54787733 TGAGCCTCGGGGCACGCTGAGGTAATTTCAATTTCTG-T-TTTCAATTTCTGTTTT
123 TGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTCTTTCAATTTCTGTTTT
54787787 TCAAAAATCA
Statistics
Matches: 331, Mismatches: 21, Indels: 14
0.90 0.06 0.04
Matches are distributed among these distances:
178 222 0.67
179 12 0.04
180 4 0.01
181 2 0.01
182 2 0.01
183 15 0.05
184 1 0.00
185 73 0.22
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (178 bp):
AATTCATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
TAATTTCAATTTCTATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
AGGACACGCTGAGGTATTTTCAATTTCTGTTCTTTCAATTTCTGTTTT
Found at i:54787546 original size:79 final size:79
Alignment explanation
Indices: 54787434--54787582 Score: 280
Period size: 79 Copynumber: 1.9 Consensus size: 79
54787424 TTAATTCATG
54787434 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATAATTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATAATTTCA
54787499 ATTTCAATTTCTGC
66 ATTTCAATTTCTGC
* *
54787513 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATAATTTCA
54787578 ATTTC
66 ATTTC
54787583 TGTTCTTCCA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
79 68 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.32
Consensus pattern (79 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATAATTTCA
ATTTCAATTTCTGC
Found at i:54787762 original size:86 final size:86
Alignment explanation
Indices: 54787591--54787825 Score: 334
Period size: 86 Copynumber: 2.8 Consensus size: 86
54787581 TCTGTTCTTC
*
54787591 CAATTTCTGTTTT-AA-TTC-ATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCC
1 CAATTTCTGTTTTCAATTTCTAT-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* * *
54787653 TCATGGCACGCTGATGTATTTT
65 TCAGGGCACGCTGAGGTAATTT
* * *
54787675 CAATTTTTGTCTTT-AATTTTTATTTTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 CAATTTCTGT-TTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
54787739 TCGGGGCACGCTGAGGTAATTT
65 TCAGGGCACGCTGAGGTAATTT
* *
54787761 CAATTTCTGTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
1 CAATTTCTGTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
54787826 TTTAATTTCT
Statistics
Matches: 134, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
84 9 0.07
85 8 0.06
86 115 0.86
87 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (86 bp):
CAATTTCTGTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
CAGGGCACGCTGAGGTAATTT
Found at i:54787790 original size:14 final size:13
Alignment explanation
Indices: 54787758--54787786 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
54787748 GCTGAGGTAA
54787758 TTTCAATTTCTGT
1 TTTCAATTTCTGT
54787771 TTTCAATTTCTGT
1 TTTCAATTTCTGT
54787784 TTT
1 TTT
54787787 TCAAAAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (13 bp):
TTTCAATTTCTGT
Found at i:54787867 original size:55 final size:55
Alignment explanation
Indices: 54787770--54788097 Score: 489
Period size: 55 Copynumber: 6.0 Consensus size: 55
54787760 TCAATTTCTG
54787770 TTTTCAATTTCTGTTTTTCAAAAA-TCAACTCATATTGCGAGAAGTGAGTTGAGCC
1 TTTT-AATTTCTGTTTTTCAAAAAGTCAACTCATATTGCGAGAAGTGAGTTGAGCC
54787825 TTTTAATTTCTGTTTTTCAAAAAGTCAACTCATATTGCGAGAAGTGAGTTGAGCC
1 TTTTAATTTCTGTTTTTCAAAAAGTCAACTCATATTGCGAGAAGTGAGTTGAGCC
* * *
54787880 TTTTAATTTCTGTTTTTCAAAAAGTCAACTCATATTGCCAGAGGTGAGTTGAGTC
1 TTTTAATTTCTGTTTTTCAAAAAGTCAACTCATATTGCGAGAAGTGAGTTGAGCC
* * * *
54787935 TTTTAATTTTTATTTTTCAAAAAGTCAACTCATATTGCAAGAGGTGAGTTGAGCC
1 TTTTAATTTCTGTTTTTCAAAAAGTCAACTCATATTGCGAGAAGTGAGTTGAGCC
* * *
54787990 TTTTAATTTCTGTTTTTCAAAAAGTGAACTCATATTGTGAGAGGTGAGTTGAGCC
1 TTTTAATTTCTGTTTTTCAAAAAGTCAACTCATATTGCGAGAAGTGAGTTGAGCC
* * * * * *
54788045 TTTTAATATCTATTTTT-AAAGAGTCAATTCATATTGTGAGAAATGAGTTGAGC
1 TTTTAATTTCTGTTTTTCAAAAAGTCAACTCATATTGCGAGAAGTGAGTTGAGC
54788098 TCAAGATCAC
Statistics
Matches: 253, Mismatches: 19, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
54 50 0.20
55 203 0.80
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.40
Consensus pattern (55 bp):
TTTTAATTTCTGTTTTTCAAAAAGTCAACTCATATTGCGAGAAGTGAGTTGAGCC
Found at i:54789945 original size:18 final size:17
Alignment explanation
Indices: 54789917--54789950 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
54789907 TCATTTTTTT
54789917 TATTTTATTTGTTATAA
1 TATTTTATTTGTTATAA
54789934 TATTTATATTTGTTATA
1 TATTT-TATTTGTTATA
54789951 TTAAATGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (17 bp):
TATTTTATTTGTTATAA
Found at i:54790512 original size:27 final size:27
Alignment explanation
Indices: 54790468--54790519 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
54790458 CTATGCATAC
* * * *
54790468 ATACTTTTAATATTATATTTTATATGT
1 ATACTCTTAACATCATATTATATATGT
54790495 ATACTCTTAACATCATATTATATAT
1 ATACTCTTAACATCATATTATATAT
54790520 ATATCTTGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.37, C:0.10, G:0.02, T:0.52
Consensus pattern (27 bp):
ATACTCTTAACATCATATTATATATGT
Found at i:54792265 original size:22 final size:22
Alignment explanation
Indices: 54792240--54792281 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
54792230 AGAAATTACA
* *
54792240 TGAGTTTTTATAGGAAAAAAAT
1 TGAGTTTTTACAAGAAAAAAAT
54792262 TGAGTTTTTACAAGAAAAAA
1 TGAGTTTTTACAAGAAAAAA
54792282 TCAATTTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.02, G:0.17, T:0.33
Consensus pattern (22 bp):
TGAGTTTTTACAAGAAAAAAAT
Found at i:54793284 original size:16 final size:16
Alignment explanation
Indices: 54793259--54793291 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
54793249 ATATTTTTTA
54793259 TTAATTTTTTAA-AAT
1 TTAATTTTTTAACAAT
54793274 TTAATTTTTTTAACAAT
1 TTAA-TTTTTTAACAAT
54793291 T
1 T
54793292 ACATCATAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 8 0.50
17 4 0.25
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (16 bp):
TTAATTTTTTAACAAT
Found at i:54794139 original size:19 final size:19
Alignment explanation
Indices: 54794116--54794179 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
54794106 TTTTTTAAGG
* *
54794116 ATTTTTATA-ATTTTTATA
1 ATTTTTTTACATTTTAATA
54794134 ATTTTTTTACATTTTAATA
1 ATTTTTTTACATTTTAATA
***
54794153 ACTTTCACTAC-TTTTAATA
1 A-TTTTTTTACATTTTAATA
54794172 ATTTTTTT
1 ATTTTTTT
54794180 TTGTAATATT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
18 12 0.33
19 18 0.50
20 6 0.17
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTTTTTTACATTTTAATA
Found at i:54794147 original size:10 final size:9
Alignment explanation
Indices: 54794088--54794177 Score: 58
Period size: 9 Copynumber: 9.7 Consensus size: 9
54794078 TTAGTCATGT
54794088 ATTTTTAGTA
1 ATTTTTA-TA
54794098 ATTTTTAT-
1 ATTTTTATA
*
54794106 TTTTTTA-A
1 ATTTTTATA
54794114 GGATTTTTATA
1 --ATTTTTATA
54794125 ATTTTTATA
1 ATTTTTATA
*
54794134 ATTTTTTTA
1 ATTTTTATA
*
54794143 CATTTTAATA
1 -ATTTTTATA
* *
54794153 ACTTTCACTA
1 ATTTTTA-TA
* *
54794163 CTTTTAATA
1 ATTTTTATA
54794172 ATTTTT
1 ATTTTT
54794178 TTTTGTAATA
Statistics
Matches: 62, Mismatches: 12, Indels: 13
0.71 0.14 0.15
Matches are distributed among these distances:
8 6 0.10
9 29 0.47
10 26 0.42
11 1 0.02
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (9 bp):
ATTTTTATA
Found at i:54794590 original size:17 final size:17
Alignment explanation
Indices: 54794570--54794603 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
54794560 TTACATGTTT
* *
54794570 TAAAATCTTTATTAAAA
1 TAAAATCATTAATAAAA
54794587 TAAAATCATTAATAAAA
1 TAAAATCATTAATAAAA
54794604 AAATATACAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (17 bp):
TAAAATCATTAATAAAA
Found at i:54799799 original size:33 final size:29
Alignment explanation
Indices: 54799762--54799872 Score: 75
Period size: 28 Copynumber: 3.6 Consensus size: 29
54799752 TTTGGTACTA
*
54799762 TTATTATTAATCTATTATTGCTATTTTATTTAT
1 TTATTATTAAT-TATT-TTCCTA--TTATTTAT
* *
54799795 TTATTTTTAGTTATTTTCCTATTATTTAT
1 TTATTATTAATTATTTTCCTATTATTTAT
*
54799824 TGTATTATT--TT-TTTACACTATTATTTAT
1 T-TATTATTAATTATTTTC-CTATTATTTAT
*
54799852 TATACTTATTATATCATTTTC
1 T-TA-TTATTA-ATTATTTTC
54799873 GTTATTTTTT
Statistics
Matches: 63, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
27 4 0.06
28 16 0.25
29 14 0.22
30 6 0.10
31 5 0.08
32 5 0.08
33 13 0.21
ACGTcount: A:0.25, C:0.08, G:0.03, T:0.64
Consensus pattern (29 bp):
TTATTATTAATTATTTTCCTATTATTTAT
Found at i:54799821 original size:25 final size:28
Alignment explanation
Indices: 54799791--54799863 Score: 82
Period size: 28 Copynumber: 2.7 Consensus size: 28
54799781 GCTATTTTAT
54799791 TTATTTATT-T-TTAGTTATTTT-C-CTA
1 TTATTTATTGTATTA-TTATTTTACACTA
*
54799816 TTATTTATTGTATTATTTTTTTACACTA
1 TTATTTATTGTATTATTATTTTACACTA
*
54799844 TTATTTATTATACTTATTAT
1 TTATTTATTGTA-TTATTAT
54799864 ATCATTTTCG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
25 9 0.22
26 7 0.17
27 4 0.10
28 14 0.35
29 6 0.15
ACGTcount: A:0.25, C:0.07, G:0.03, T:0.66
Consensus pattern (28 bp):
TTATTTATTGTATTATTATTTTACACTA
Found at i:54799832 original size:15 final size:15
Alignment explanation
Indices: 54799783--54799863 Score: 53
Period size: 15 Copynumber: 5.6 Consensus size: 15
54799773 CTATTATTGC
54799783 TATT-TTATTTATT-
1 TATTATTATTTATTA
* * *
54799796 TATTTTTAGTTATTT
1 TATTATTATTTATTA
** *
54799811 TCCTATTATTTATTG
1 TATTATTATTTATTA
54799826 TATTATT-TTT-TTA
1 TATTATTATTTATTA
* *
54799839 CACTATTATTTATTA
1 TATTATTATTTATTA
54799854 TACTTATTAT
1 TA-TTATTAT
54799864 ATCATTTTCG
Statistics
Matches: 50, Mismatches: 13, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
13 11 0.22
14 14 0.28
15 19 0.38
16 6 0.12
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (15 bp):
TATTATTATTTATTA
Found at i:54799861 original size:16 final size:16
Alignment explanation
Indices: 54799814--54799863 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 16
54799804 GTTATTTTCC
*
54799814 TATTATTTATTGTA-T
1 TATTATTTATTATACT
*
54799829 TATT-TTT-TTACAC-
1 TATTATTTATTATACT
54799842 TATTATTTATTATACT
1 TATTATTTATTATACT
54799858 TATTAT
1 TATTAT
54799864 ATCATTTTCG
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
13 7 0.25
14 6 0.21
15 9 0.32
16 6 0.21
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (16 bp):
TATTATTTATTATACT
Found at i:54800144 original size:33 final size:33
Alignment explanation
Indices: 54800100--54800172 Score: 78
Period size: 33 Copynumber: 2.2 Consensus size: 33
54800090 TATTTTTAAA
* *
54800100 TTTTTTT-ATATATTTTATTAAAAGT-TAATAT
1 TTTTTTTAATATAGTCTATTAAAAGTATAATAT
* * *
54800131 TTTTTTTAAATATAGTCTATTATATGTATTATAT
1 TTTTTTT-AATATAGTCTATTAAAAGTATAATAT
54800165 TTTTTTTA
1 TTTTTTTA
54800173 TTTTTTTTAC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
31 7 0.21
33 15 0.44
34 12 0.35
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.63
Consensus pattern (33 bp):
TTTTTTTAATATAGTCTATTAAAAGTATAATAT
Found at i:54805654 original size:27 final size:28
Alignment explanation
Indices: 54805570--54805667 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
54805560 CATGAGATTG
* * * *
54805570 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
54805599 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
54805627 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
54805654 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
54805668 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:54805678 original size:27 final size:27
Alignment explanation
Indices: 54805598--54805680 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
54805588 TAAATTGTAC
* *
54805598 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
54805626 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
54805653 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
54805680 A
1 A
54805681 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:54805681 original size:29 final size:27
Alignment explanation
Indices: 54805570--54805681 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
54805560 CATGAGATTG
** * *
54805570 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
54805599 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
54805627 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
54805654 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
54805682 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:54813777 original size:27 final size:28
Alignment explanation
Indices: 54813693--54813790 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
54813683 CATCAGACTG
* * * *
54813693 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
54813722 GCACTACGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
54813750 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
54813777 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
54813791 GACTTAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 24 0.39
28 21 0.34
29 17 0.27
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:54813801 original size:27 final size:27
Alignment explanation
Indices: 54813721--54813803 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 27
54813711 TAAATTGTAC
* * *
54813721 AGCACTACGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
54813749 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
54813776 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
54813803 A
1 A
54813804 TTTTGAATCA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 30 0.61
28 19 0.39
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:54813804 original size:29 final size:27
Alignment explanation
Indices: 54813693--54813804 Score: 89
Period size: 28 Copynumber: 4.0 Consensus size: 27
54813683 CATCAGACTG
** * *
54813693 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* * *
54813722 GCACTACGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
54813750 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
54813777 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
54813805 TTTGAATCAC
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
27 23 0.33
28 27 0.39
29 20 0.29
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:54819279 original size:115 final size:116
Alignment explanation
Indices: 54819155--54819388 Score: 452
Period size: 116 Copynumber: 2.0 Consensus size: 116
54819145 TAATAATAAT
54819155 CATCTACTT-AATTTTTTTTATTAAGGGTACTTTGGTCATTTAAATATTTTTCCTTATGCTATTA
1 CATCTACTTAAATTTTTTTTATTAAGGGTACTTTGGTCATTTAAATATTTTTCCTTATGCTATTA
54819219 CAACATCTATTTCATTCAACCAAACACAAGAATACTATTACAACCCTATTC
66 CAACATCTATTTCATTCAACCAAACACAAGAATACTATTACAACCCTATTC
54819270 CATCTACTTAAATTTTTTTTATTAAGGGTACTTTGGTCATTTAAATATTTTTCCTTATGCTATTA
1 CATCTACTTAAATTTTTTTTATTAAGGGTACTTTGGTCATTTAAATATTTTTCCTTATGCTATTA
*
54819335 CAATATCTATTTCATTCAACCAAACACAAGAATACTATTACAACCCTATTC
66 CAACATCTATTTCATTCAACCAAACACAAGAATACTATTACAACCCTATTC
54819386 CAT
1 CAT
54819389 TCCCCTCAAC
Statistics
Matches: 117, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
115 9 0.08
116 108 0.92
ACGTcount: A:0.32, C:0.20, G:0.06, T:0.42
Consensus pattern (116 bp):
CATCTACTTAAATTTTTTTTATTAAGGGTACTTTGGTCATTTAAATATTTTTCCTTATGCTATTA
CAACATCTATTTCATTCAACCAAACACAAGAATACTATTACAACCCTATTC
Found at i:54819563 original size:18 final size:18
Alignment explanation
Indices: 54819540--54819575 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
54819530 TATAATAATT
*
54819540 TATATTATGTTATTTTTA
1 TATATTATGTAATTTTTA
54819558 TATATTATGTAATTTTTA
1 TATATTATGTAATTTTTA
54819576 ATACATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.64
Consensus pattern (18 bp):
TATATTATGTAATTTTTA
Found at i:54819583 original size:19 final size:18
Alignment explanation
Indices: 54819543--54819583 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
54819533 AATAATTTAT
* *
54819543 ATTATGTTATTTTTATAT
1 ATTATGTAATTTTTATAC
54819561 ATTATGTAATTTTTAATAC
1 ATTATGTAATTTTT-ATAC
54819580 ATTA
1 ATTA
54819584 AAAAAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (18 bp):
ATTATGTAATTTTTATAC
Found at i:54823232 original size:20 final size:20
Alignment explanation
Indices: 54823209--54823260 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
54823199 AAATTCAAAT
*
54823209 TAAAATACTGAAATTTAGGA
1 TAAAATACTGAAATTTAGAA
* *
54823229 TAAAATCCTAAAATTTAGAA
1 TAAAATACTGAAATTTAGAA
54823249 TAAGAATACTGA
1 TAA-AATACTGA
54823261 TGTGGCATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 20 0.77
21 6 0.23
ACGTcount: A:0.52, C:0.08, G:0.12, T:0.29
Consensus pattern (20 bp):
TAAAATACTGAAATTTAGAA
Found at i:54823352 original size:13 final size:13
Alignment explanation
Indices: 54823334--54823359 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
54823324 AGGTCTACAC
54823334 AGTAAGCTTGTAG
1 AGTAAGCTTGTAG
54823347 AGTAAGCTTGTAG
1 AGTAAGCTTGTAG
54823360 TTTTTGTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.31
Consensus pattern (13 bp):
AGTAAGCTTGTAG
Found at i:54823529 original size:29 final size:29
Alignment explanation
Indices: 54823492--54823548 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
54823482 AAAAATCATT
*
54823492 AATAAATTTTAAAAATAATTTAATTATAA
1 AATAAATTTTAAAAATAATTAAATTATAA
* **
54823521 AATATATTTTTTAAATAATTAAATTATA
1 AATAAATTTTAAAAATAATTAAATTATA
54823549 TTAATGTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (29 bp):
AATAAATTTTAAAAATAATTAAATTATAA
Found at i:54825118 original size:11 final size:11
Alignment explanation
Indices: 54825098--54825136 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
54825088 ACAAGAGTCT
*
54825098 TCTCATAATTC
1 TCTCAAAATTC
54825109 TCTCAAAATTC
1 TCTCAAAATTC
54825120 TCTCAAAATT-
1 TCTCAAAATTC
54825130 TCTCAAA
1 TCTCAAA
54825137 GCTCTCTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 7 0.26
11 20 0.74
ACGTcount: A:0.36, C:0.26, G:0.00, T:0.38
Consensus pattern (11 bp):
TCTCAAAATTC
Found at i:54825142 original size:21 final size:22
Alignment explanation
Indices: 54825098--54825143 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
54825088 ACAAGAGTCT
* *
54825098 TCTCATAATTCTCTCAAAATTC
1 TCTCAAAATTCTCTCAAAACTC
*
54825120 TCTCAAAATT-TCTCAAAGCTC
1 TCTCAAAATTCTCTCAAAACTC
54825141 TCT
1 TCT
54825144 TTAATTTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.30, C:0.28, G:0.02, T:0.39
Consensus pattern (22 bp):
TCTCAAAATTCTCTCAAAACTC
Found at i:54826872 original size:30 final size:30
Alignment explanation
Indices: 54826805--54826861 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
54826795 GATAACGATG
*
54826805 TGGGCCCATCAACAGCGCCCACACAATCAC
1 TGGGCCCATCAACAGCACCCACACAATCAC
54826835 TGGGCCCATCAACAGCACCCACACAAT
1 TGGGCCCATCAACAGCACCCACACAAT
54826862 TATCGGGCCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.42, G:0.16, T:0.11
Consensus pattern (30 bp):
TGGGCCCATCAACAGCACCCACACAATCAC
Found at i:54826949 original size:18 final size:18
Alignment explanation
Indices: 54826926--54826968 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
54826916 TGCCAGGTGC
*
54826926 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
54826944 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
54826962 GTTTCCT
1 GTATCCT
54826969 TTTCCCAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:54827255 original size:21 final size:21
Alignment explanation
Indices: 54827208--54827264 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
54827198 CCCAACACCC
54827208 ACAACCAAATCCCCTACCGGA
1 ACAACCAAATCCCCTACCGGA
**
54827229 GGAACCATAAT-CCCTACCGGA
1 ACAACCA-AATCCCCTACCGGA
54827250 ACAACCACAA-CCCCT
1 ACAACCA-AATCCCCT
54827265 GCTAGAAGCT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
21 26 0.90
22 3 0.10
ACGTcount: A:0.37, C:0.42, G:0.11, T:0.11
Consensus pattern (21 bp):
ACAACCAAATCCCCTACCGGA
Found at i:54830751 original size:126 final size:126
Alignment explanation
Indices: 54830526--54830792 Score: 363
Period size: 126 Copynumber: 2.1 Consensus size: 126
54830516 CTAAATAGGA
* * * * *
54830526 ACTACTGCAGAAAAGGAGCGTCCACATGGGAGCTTTTTTCAGTAATTTTGCTGACAATGTATCCT
1 ACTACTGTAGAAAAAGAGCATCCACATGGGAGCTTTTTTCAGCAATTTTGCTGACAATGTATCAT
* * *
54830591 GCTTGAAGCGTTTTGGACACTATTTGTTCAGAAACGTCCTCACAAAATTATTTTTTCAGAT
66 GCTTAAAGCGTTTTGGACACTATTTATTCAGAAACATCCTCACAAAATTATTTTTTCAGAT
* * * *
54830652 ACTACTGTAGAAAAATAGCATCCACGTGGGAGCTTTTTTCAGCAATTTTGCTGATAGTGTATCAT
1 ACTACTGTAGAAAAAGAGCATCCACATGGGAGCTTTTTTCAGCAATTTTGCTGACAATGTATCAT
* * ** * *
54830717 GTTTAAAGCGTTTTGGACACTATTTATTTAGAAACATTTTCTCAAAATTTTTTTTTCAGAT
66 GCTTAAAGCGTTTTGGACACTATTTATTCAGAAACATCCTCACAAAATTATTTTTTCAGAT
*
54830778 ACTACTATAGAAAAA
1 ACTACTGTAGAAAAA
54830793 AAAAACAAAA
Statistics
Matches: 122, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
126 122 1.00
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.36
Consensus pattern (126 bp):
ACTACTGTAGAAAAAGAGCATCCACATGGGAGCTTTTTTCAGCAATTTTGCTGACAATGTATCAT
GCTTAAAGCGTTTTGGACACTATTTATTCAGAAACATCCTCACAAAATTATTTTTTCAGAT
Found at i:54830983 original size:61 final size:61
Alignment explanation
Indices: 54830871--54830988 Score: 159
Period size: 61 Copynumber: 1.9 Consensus size: 61
54830861 AAATAAAACA
* *
54830871 TAATTTAATTAATTAACCCTAAAATCCTAAACCTTAATTTAATTGATTTTTTCATTAATAGT
1 TAATTTAATTAATTAACCCTAAAACCCTAAACCCTAATTTAATTGATTTTTTC-TTAATAGT
** *
54830933 TAATTTAATTAATTAA-GTTTAAACCCTAAACCCTAATTTAATT-ATTTTTTTCTTAA
1 TAATTTAATTAATTAACCCTAAAACCCTAAACCCTAATTTAATTGA-TTTTTTCTTAA
54830989 AAAACCCTAA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
60 5 0.10
61 29 0.58
62 16 0.32
ACGTcount: A:0.38, C:0.13, G:0.03, T:0.47
Consensus pattern (61 bp):
TAATTTAATTAATTAACCCTAAAACCCTAAACCCTAATTTAATTGATTTTTTCTTAATAGT
Found at i:54831022 original size:16 final size:15
Alignment explanation
Indices: 54830990--54831044 Score: 51
Period size: 16 Copynumber: 3.7 Consensus size: 15
54830980 TTTTCTTAAA
**
54830990 AAACCCTAAAATTAT
1 AAACCCTAAAACCAT
54831005 AAACCCTTAAAACCAT
1 AAACCC-TAAAACCAT
*
54831021 AAATCCT-AAACC-T
1 AAACCCTAAAACCAT
*
54831034 TAACCCTAAAA
1 AAACCCTAAAA
54831045 TTCTAAACCA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
13 6 0.18
14 8 0.24
15 7 0.21
16 12 0.36
ACGTcount: A:0.51, C:0.27, G:0.00, T:0.22
Consensus pattern (15 bp):
AAACCCTAAAACCAT
Found at i:54835621 original size:624 final size:625
Alignment explanation
Indices: 54834381--54836213 Score: 3391
Period size: 624 Copynumber: 2.9 Consensus size: 625
54834371 TTATTCAAGG
* * *
54834381 GTACCCATTAGGGAACTTAACCAAGAAACACTCTCTTAAGCCACATATTTTATAATAGAATTACC
1 GTACCCATTAGGGAACTTAACCAAGAAACACTCTCTTGAGCCACATATTTTATAACAGGATTACC
* * * *
54834446 AGTCCAGGCTAAATCATTTTTATATCGTATGCTCAAAAGAGCTCGATTAGGATTACTAGTCCAGG
66 AGTCCAGGCTAAATCCTTTTTATAACGTATGCTCAGAGGAGCTCGATTAGGATTACTAGTCCAGG
54834511 CTAAACCCTAATCATAACGTATAATCAAAAGATATTATATCAGCATTACCTGTCTGGGCTAAATC
131 CTAAACCCTAATCATAACGTATAATCAAAAGATATTATATCAGCATTACCTGTCTGGGCTAAATC
54834576 CTTTCTATAACAAGATCATTGGGATTACTCGTTCGAGCTAAATCCCGTCTGCAAC-AATGCAGGA
196 CTTTCTATAACAAGATCATTGGGATTACTCGTTCGAGCTAAATCCCGTCTGCAACAAATGCAGGA
*
54834640 CCTTAATTATTCCAAGAAAGCGTATACAATCATCGAAATTCAACATTCAATCAGGACTTAACCCT
261 CCTTAATTATTCCGAGAAAGCGTATACAATCATCGAAATTCAACATTCAATCAGGACTTAACCCT
*
54834705 TTATCACCAATTCAAGCATGTCTTAAGTTTCTCATTATAACATTTAAGTAATATACATAAATGTA
326 TTATCACCAATTCAAGCATGTATTAAGTTTCTCATTATAACATTTAAGTAATATACATAAATGTA
*
54834770 AATCACATTCCAAACAACACAATATTCAATTAAAAATATTTACATGTTGGATTAAGTTACACGAA
391 AATCACATTCCAAACAACACAATATTCAATTAAACATATTTACATGTTGGATTAAGTTACACGAA
54834835 CTTACCTTGACACTTGTTCGCGTAAAAGTCTACTAATCTGAAACATTTTTTTTCCTCGATCTAAC
456 CTTACCTTGACACTTGTTCGCGTAAAAGTCTACTAATCTGAAACATTTTTTTTCCTCGATCTAAC
54834900 CTCGAATTAGTGTTGTCCGGATCTATATAAATGAATTTAACAATCAATTTCATACATTTCATATT
521 CTCGAATTAGTGTTGTCCGGATCTATATAAATGAATTTAACAATCAATTTCATACATTTCATATT
54834965 TAAATGGACTTATTTACGTCCTAGGAAAAATTACCATTTT
586 TAAATGGACTTATTTACGTCCTAGGAAAAATTACCATTTT
54835005 GTACCCATTAGGGAACTTAACCAAGAAACACTCTCTTGAGCCACATATTTTATAACAGGATTACC
1 GTACCCATTAGGGAACTTAACCAAGAAACACTCTCTTGAGCCACATATTTTATAACAGGATTACC
*
54835070 AGTCCAGGCTAAATCCTTTTTATAACATATGCTCAGAGGAGCTCGATTAGGATTACTAGTCCAGG
66 AGTCCAGGCTAAATCCTTTTTATAACGTATGCTCAGAGGAGCTCGATTAGGATTACTAGTCCAGG
*
54835135 CTAAACCCTAATCATAACGTATAATCAAAAGATATTATATCAGCATTACCTGCCTGGGCTAAATC
131 CTAAACCCTAATCATAACGTATAATCAAAAGATATTATATCAGCATTACCTGTCTGGGCTAAATC
54835200 CTTTCTATAACAAGATCATTGGGATTACTCGTTCGAGCTAAATCCCGTCTGCAACAAATGCAGGA
196 CTTTCTATAACAAGATCATTGGGATTACTCGTTCGAGCTAAATCCCGTCTGCAACAAATGCAGGA
* *
54835265 CCTTAATTATTTCGAGAAAGCGTATACAATCATCAAAATTCAACATTCAATCAGGACTTAACCCT
261 CCTTAATTATTCCGAGAAAGCGTATACAATCATCGAAATTCAACATTCAATCAGGACTTAACCCT
*
54835330 TTATCACCAATTCAAGCATGTATTAAGTTTCTCATTATAACATTTAAGTAATATACATAAATCTA
326 TTATCACCAATTCAAGCATGTATTAAGTTTCTCATTATAACATTTAAGTAATATACATAAATGTA
54835395 AATCACATTCCAAACAACACAATATTCAATTAAACATATTTACATGTTGGATTAAGTTACACGAA
391 AATCACATTCCAAACAACACAATATTCAATTAAACATATTTACATGTTGGATTAAGTTACACGAA
54835460 CTTACCTTGACACTTGTTCGCGTAAAAGTCTACTAATCTGAAACATTTTTTTTCCTCGATCTAAC
456 CTTACCTTGACACTTGTTCGCGTAAAAGTCTACTAATCTGAAACATTTTTTTTCCTCGATCTAAC
54835525 CTCGAATTAGTGTTGTCCGGATCTATATAAATGAATTTAACAATCAATTTCATACATTTCATATT
521 CTCGAATTAGTGTTGTCCGGATCTATATAAATGAATTTAACAATCAATTTCATACATTTCATATT
54835590 TAAATGGACTTATTTACGTCCTAGG-AAAATTACCATTTT
586 TAAATGGACTTATTTACGTCCTAGGAAAAATTACCATTTT
54835629 GTACCCATTAGGGAACTTAACCAAGAAACACTCTCTTGAGCCACATATTTTATAACAGGATTACC
1 GTACCCATTAGGGAACTTAACCAAGAAACACTCTCTTGAGCCACATATTTTATAACAGGATTACC
* *
54835694 AGTCCAAGCTAAATCCTTTTTATAACGTATGCTCAGAGGAGCTCGATTAGGATTACTAGTCCAGA
66 AGTCCAGGCTAAATCCTTTTTATAACGTATGCTCAGAGGAGCTCGATTAGGATTACTAGTCCAGG
* *
54835759 CTAAACCCTAATCATAATGTATACTCAAAAGATATTATATCAGCATTACCTGTCTGGGCTAAATC
131 CTAAACCCTAATCATAACGTATAATCAAAAGATATTATATCAGCATTACCTGTCTGGGCTAAATC
54835824 CTTTCTATAACAAGATCATTGGGATTACTCGTTCGAGCTAAATCCCGTCTGCAACAAATGCAGGA
196 CTTTCTATAACAAGATCATTGGGATTACTCGTTCGAGCTAAATCCCGTCTGCAACAAATGCAGGA
* **
54835889 CCTTAATTGTTCCGAGAAAGCGTATACAATCATCGAAATTCAACATTCAATTGGGACTTAACCCT
261 CCTTAATTATTCCGAGAAAGCGTATACAATCATCGAAATTCAACATTCAATCAGGACTTAACCCT
* *
54835954 TTATCACCATTTCAAGCATGTATTAAGTTTCTTATTATAACATTTAAGTAATATACATAAATGTA
326 TTATCACCAATTCAAGCATGTATTAAGTTTCTCATTATAACATTTAAGTAATATACATAAATGTA
* *
54836019 AATCACATTCCATACAACACAATATTCAATTAAACATATTTACATGTTGGATTAAGTTACACAAA
391 AATCACATTCCAAACAACACAATATTCAATTAAACATATTTACATGTTGGATTAAGTTACACGAA
* * *
54836084 CTTACCTCGACACTTGTTCGCGTAAAAGTCTACTAATCTGAAATATTTTTTTTGCTCGATCTAAC
456 CTTACCTTGACACTTGTTCGCGTAAAAGTCTACTAATCTGAAACATTTTTTTTCCTCGATCTAAC
54836149 CTCGAATTAGTGTTGTCCGGATCTATATAAATGAATTTAACAATCAATTTCATACATTTCATATT
521 CTCGAATTAGTGTTGTCCGGATCTATATAAATGAATTTAACAATCAATTTCATACATTTCATATT
54836214 ACCATTTTGT
Statistics
Matches: 1174, Mismatches: 34, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
624 821 0.70
625 353 0.30
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.32
Consensus pattern (625 bp):
GTACCCATTAGGGAACTTAACCAAGAAACACTCTCTTGAGCCACATATTTTATAACAGGATTACC
AGTCCAGGCTAAATCCTTTTTATAACGTATGCTCAGAGGAGCTCGATTAGGATTACTAGTCCAGG
CTAAACCCTAATCATAACGTATAATCAAAAGATATTATATCAGCATTACCTGTCTGGGCTAAATC
CTTTCTATAACAAGATCATTGGGATTACTCGTTCGAGCTAAATCCCGTCTGCAACAAATGCAGGA
CCTTAATTATTCCGAGAAAGCGTATACAATCATCGAAATTCAACATTCAATCAGGACTTAACCCT
TTATCACCAATTCAAGCATGTATTAAGTTTCTCATTATAACATTTAAGTAATATACATAAATGTA
AATCACATTCCAAACAACACAATATTCAATTAAACATATTTACATGTTGGATTAAGTTACACGAA
CTTACCTTGACACTTGTTCGCGTAAAAGTCTACTAATCTGAAACATTTTTTTTCCTCGATCTAAC
CTCGAATTAGTGTTGTCCGGATCTATATAAATGAATTTAACAATCAATTTCATACATTTCATATT
TAAATGGACTTATTTACGTCCTAGGAAAAATTACCATTTT
Found at i:54851925 original size:40 final size:40
Alignment explanation
Indices: 54851877--54851956 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
54851867 GTGTGTCACA
*
54851877 CACGTCTAGACACATGCTCGTGTGGACAAAATGAAGCCAT
1 CACGTCTAGACACATGCCCGTGTGGACAAAATGAAGCCAT
54851917 CACGTCTAGACACATGCCCGTGTGGACAAAATGAAGCCAT
1 CACGTCTAGACACATGCCCGTGTGGACAAAATGAAGCCAT
54851957 TTCTAACTCC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.33, C:0.26, G:0.23, T:0.19
Consensus pattern (40 bp):
CACGTCTAGACACATGCCCGTGTGGACAAAATGAAGCCAT
Found at i:54855381 original size:39 final size:39
Alignment explanation
Indices: 54855331--54855488 Score: 262
Period size: 39 Copynumber: 4.1 Consensus size: 39
54855321 TTATATTACT
* *
54855331 AGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
1 AGCACGAAGCCTACGGGACTTTAGCCCGGATACATTTCC
* *
54855370 TGCACGAAGCCTACGGGACTTTAGCCCGAATACATTTCC
1 AGCACGAAGCCTACGGGACTTTAGCCCGGATACATTTCC
54855409 AGCACGAAGCCTACGGGACTTTAGCCCGGATACATTTCC
1 AGCACGAAGCCTACGGGACTTTAGCCCGGATACATTTCC
* *
54855448 AGCACGAAGCCTGCGGGACTTTAGCCTGGATACATTTCC
1 AGCACGAAGCCTACGGGACTTTAGCCCGGATACATTTCC
54855487 AG
1 AG
54855489 TATCTTGCAT
Statistics
Matches: 111, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 111 1.00
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.22
Consensus pattern (39 bp):
AGCACGAAGCCTACGGGACTTTAGCCCGGATACATTTCC
Found at i:54863258 original size:45 final size:45
Alignment explanation
Indices: 54863187--54863297 Score: 143
Period size: 45 Copynumber: 2.5 Consensus size: 45
54863177 GAAGGAAATG
* *
54863187 AATAAGACCATAGTTGAAAGACACTATGACATTATACT-GAAACTA
1 AATAAGACCATAGTTGAAAGAAACTATGACATCATACTGGAAAC-A
* * *
54863232 AATAAGACCATAGTTGGAAGAAACTATGGCATCATACTGGAAACG
1 AATAAGACCATAGTTGAAAGAAACTATGACATCATACTGGAAACA
* *
54863277 AGTAAGACCATAGCTGAAAGA
1 AATAAGACCATAGTTGAAAGA
54863298 TGTTATGGCA
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 52 0.91
46 5 0.09
ACGTcount: A:0.45, C:0.15, G:0.19, T:0.21
Consensus pattern (45 bp):
AATAAGACCATAGTTGAAAGAAACTATGACATCATACTGGAAACA
Found at i:54863305 original size:45 final size:45
Alignment explanation
Indices: 54863180--54863307 Score: 132
Period size: 45 Copynumber: 2.8 Consensus size: 45
54863170 TTGGCTTGAA
* * * * *
54863180 GGAAATGAATAAGACCATAGTTGAAAGACACTATGACATTATACT
1 GGAAACGAATAAGACCATAGCTGAAAGATACTATGGCATCATACT
* * * *
54863225 -GAAACTAAATAAGACCATAGTTGGAAGAAACTATGGCATCATACT
1 GGAAAC-GAATAAGACCATAGCTGAAAGATACTATGGCATCATACT
* **
54863270 GGAAACGAGTAAGACCATAGCTGAAAGATGTTATGGCA
1 GGAAACGAATAAGACCATAGCTGAAAGATACTATGGCA
54863308 CCACAATTCT
Statistics
Matches: 68, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
44 4 0.06
45 59 0.87
46 5 0.07
ACGTcount: A:0.43, C:0.14, G:0.21, T:0.22
Consensus pattern (45 bp):
GGAAACGAATAAGACCATAGCTGAAAGATACTATGGCATCATACT
Found at i:54870125 original size:11 final size:11
Alignment explanation
Indices: 54870109--54870133 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
54870099 CATACATCAA
54870109 TTACATCTCAT
1 TTACATCTCAT
54870120 TTACATCTCAT
1 TTACATCTCAT
54870131 TTA
1 TTA
54870134 TAATCTTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.24, G:0.00, T:0.48
Consensus pattern (11 bp):
TTACATCTCAT
Found at i:54870589 original size:37 final size:37
Alignment explanation
Indices: 54870548--54870619 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
54870538 CAATTTCCTT
*
54870548 AAATTTTTCCATTTTATTCAATTTAGTCCCTAAAACC
1 AAATTTTTCCAGTTTATTCAATTTAGTCCCTAAAACC
**
54870585 AAATTTTTTTAGTTTATTCAATTTAGTCCCTAAAA
1 AAATTTTTCCAGTTTATTCAATTTAGTCCCTAAAA
54870620 TCGAAGCTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.33, C:0.17, G:0.04, T:0.46
Consensus pattern (37 bp):
AAATTTTTCCAGTTTATTCAATTTAGTCCCTAAAACC
Found at i:54879988 original size:410 final size:410
Alignment explanation
Indices: 54879223--54880042 Score: 1159
Period size: 410 Copynumber: 2.0 Consensus size: 410
54879213 ACCCAAAATC
*
54879223 AAAACAACCTTCAATAAAAAATGAATTATGACCACAAAATACAACCACCGATAGTTATACAACTA
1 AAAACAACCTTCAATAAAAAATGAATTATGACCACAAAATACAACCACCAATAGTTATACAACTA
* * * *
54879288 TATTGAAGTTTTGAAGTACCCACGACTAGCAATGGAGTAAGAATTACCAATGTCACCTGAAGAAA
66 TATTGAAGTTTTGAAGCACCCACAACCAGCAATGGAGTAAAAATTACCAATGTCACCTGAAGAAA
* * * *
54879353 TCAAAATCTGGACAGTACTAAAACAAACGAACAAGGAATCACACATGAAATTAAGGAATAAACAA
131 TCAAAATCTGAACAGCACTAAAACAAACGAACAAGGAATCACACACGAAATTAAGGAACAAACAA
** * *
54879418 AATGAAAAGAAGATGAAGGAGAATCAGCAGAAAGGGAACAACAGAGAGAAAAATAGCCAATTGAG
196 AATGAAAAGAAGATGAAGGAGAATCAGCAGAAAGCAAACAACAGAGAGAAAAATACCCAATAGAG
* ** * *
54879483 AGGAAAATGGAAAATGGAAAAAAAATGGAGAAGATGGGGTAGTGGGGTAGTTGGATGGTAAACAG
261 AGGAAAATGGAAAATGGAAAAAAAATAGAGAAGATGGGGTAGTAAGGTAGTTGGACGGTAAACAA
* **
54879548 GAAAGGAATTTTAGGGATTTTTCCTTTTTTAAAAAAGAAAAGATAAAATAAAAATCATTCCAAAT
326 GAAAGGAATTTTAGGGATTTTTCCTTTTTTAAAAAAAAAAAGATAAAATAAAAATCACACCAAAT
*
54879613 TTTAACAAATTTGATTTGTT
391 TTTAAAAAATTTGATTTGTT
*
54879633 AAAACAACCTTCAATAACAAATGAATTATGACCACAAAATACAACCACCAATAGTTATACAACTA
1 AAAACAACCTTCAATAAAAAATGAATTATGACCACAAAATACAACCACCAATAGTTATACAACTA
*
54879698 TATTGAAGTTTTGAAGCACCCACAACCAGTAATGGAGTAAAAATTACCAATGTCACCAT-AAGAA
66 TATTGAAGTTTTGAAGCACCCACAACCAGCAATGGAGTAAAAATTACCAATGTCACC-TGAAGAA
* * ** * *
54879762 ATCAAATTTTGAAGGGCACTAAAA-AAATCGAACAAGGAATCGCCCACGAAATTAAGGAACAAAC
130 ATCAAAATCTGAACAGCACTAAAACAAA-CGAACAAGGAATCACACACGAAATTAAGGAACAAAC
* * ** *
54879826 AAAATGAAAAGAAGATTAAGGATAATCATTAGAGAGCAAATC-ACAGAGAGAAAAAT-CCCAATA
194 AAAATGAAAAGAAGATGAAGGAGAATCAGCAGAAAGCAAA-CAACAGAGAGAAAAATACCCAATA
* * * *
54879889 GCCA-ATTG-AGA-GGAAAATGGCAAAAAAATAGAGAATATGGGGTAGTAAGGTAGTTGGACGGT
258 G--AGA-GGAAAATGGAAAATGGAAAAAAAATAGAGAAGATGGGGTAGTAAGGTAGTTGGACGGT
* *
54879951 AAACAAGAGAGGAATTTTAGGGATTTTTCTTTTTTTTAAAAAAAAAAAGATAAAATAAAAATCAC
320 AAACAAGAAAGGAATTTTAGGGATTTTTC-CTTTTTTAAAAAAAAAAAGATAAAATAAAAATCAC
54880016 ACCAAATTTTAAAAAATTTGATTTGTT
384 ACCAAATTTTAAAAAATTTGATTTGTT
54880043 TCTTTCTTAT
Statistics
Matches: 362, Mismatches: 41, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
409 81 0.22
410 277 0.77
411 4 0.01
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.22
Consensus pattern (410 bp):
AAAACAACCTTCAATAAAAAATGAATTATGACCACAAAATACAACCACCAATAGTTATACAACTA
TATTGAAGTTTTGAAGCACCCACAACCAGCAATGGAGTAAAAATTACCAATGTCACCTGAAGAAA
TCAAAATCTGAACAGCACTAAAACAAACGAACAAGGAATCACACACGAAATTAAGGAACAAACAA
AATGAAAAGAAGATGAAGGAGAATCAGCAGAAAGCAAACAACAGAGAGAAAAATACCCAATAGAG
AGGAAAATGGAAAATGGAAAAAAAATAGAGAAGATGGGGTAGTAAGGTAGTTGGACGGTAAACAA
GAAAGGAATTTTAGGGATTTTTCCTTTTTTAAAAAAAAAAAGATAAAATAAAAATCACACCAAAT
TTTAAAAAATTTGATTTGTT
Found at i:54886744 original size:19 final size:19
Alignment explanation
Indices: 54886720--54886758 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
54886710 TATAAATAAT
*
54886720 AATGATGTTAGAAATATAC
1 AATGATATTAGAAATATAC
54886739 AATGATATTAGAAATATAC
1 AATGATATTAGAAATATAC
54886758 A
1 A
54886759 TAAAATAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.05, G:0.13, T:0.31
Consensus pattern (19 bp):
AATGATATTAGAAATATAC
Found at i:54886895 original size:32 final size:32
Alignment explanation
Indices: 54886836--54886916 Score: 96
Period size: 32 Copynumber: 2.6 Consensus size: 32
54886826 AATATTGAAA
*
54886836 ACATATATACATAATATATACTAAAAATATAT
1 ACATATATATATAATATATACTAAAAATATAT
* * *
54886868 AGATATATATATAATATAATA-TTAAAATATTT
1 ACATATATATATAATAT-ATACTAAAAATATAT
54886900 ACATA-ATATATAA-ATAT
1 ACATATATATATAATATAT
54886917 TAGGAATAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
29 2 0.05
30 2 0.05
31 8 0.19
32 28 0.65
33 3 0.07
ACGTcount: A:0.56, C:0.05, G:0.01, T:0.38
Consensus pattern (32 bp):
ACATATATATATAATATATACTAAAAATATAT
Found at i:54887148 original size:3 final size:3
Alignment explanation
Indices: 54887142--54887281 Score: 58
Period size: 3 Copynumber: 47.0 Consensus size: 3
54887132 ACATTATTAC
* *
54887142 ATA ATA ATA ATA AT- ATA TTA ATAA ATA A-A A-A ATTA ATA A-A AGGA
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA A-TA ATA ATA A-TA
* * * * * * * * *
54887186 ATA AAA ACA ATG TTA ATA ACA AGA ATA TTA ATA ATA GTA ATA ATA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
54887234 ATA AT- CTAA ATA ATA ATA TTA ATA ATA TTA GA-A ATG ATA ATA ATA
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
54887279 ATA
1 ATA
54887282 TTTAATAAAG
Statistics
Matches: 100, Mismatches: 27, Indels: 20
0.68 0.18 0.14
Matches are distributed among these distances:
2 10 0.10
3 82 0.82
4 8 0.08
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:54887245 original size:27 final size:27
Alignment explanation
Indices: 54887199--54887258 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
54887189 AAAACAATGT
* *
54887199 TAATAACAAGAATATTAATAATAGTAA
1 TAATAACAAGAATATAAATAATAATAA
* * *
54887226 TAATAACAATAATCTAAATAATAATAT
1 TAATAACAAGAATATAAATAATAATAA
54887253 TAATAA
1 TAATAA
54887259 TATTAGAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.32
Consensus pattern (27 bp):
TAATAACAAGAATATAAATAATAATAA
Found at i:54887293 original size:27 final size:29
Alignment explanation
Indices: 54887241--54887303 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 29
54887231 ACAATAATCT
* *
54887241 AAATAATAATATTAATAATATTAGAAATGA
1 AAATAATAATATT-ATAATATAAGAAACGA
*
54887271 TAATAATAATATT-TAATA-AAGAAACGA
1 AAATAATAATATTATAATATAAGAAACGA
54887298 AAATAA
1 AAATAA
54887304 AAAAAGGACT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 12 0.41
28 5 0.17
30 12 0.41
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (29 bp):
AAATAATAATATTATAATATAAGAAACGA
Found at i:54889087 original size:72 final size:72
Alignment explanation
Indices: 54889000--54889134 Score: 166
Period size: 72 Copynumber: 1.9 Consensus size: 72
54888990 ACCTCGCCAT
* * *
54889000 GTGACCCGAGGCTCAACACACCTCTTACAATATGAGT-TA-ATTTTATGAAACATAAATTGAAAA
1 GTGACCCGACGCTCAACACACCTCTCACAATATGAGTCGATATTTTA--AAACATAAATTGAAAA
54889063 CACCTCAAC
64 CACCTCAAC
* * * * *
54889072 GTGACCTGACGCTCAACTCATCTCTCGCAATATGAGTCGATATTTTAAAACATGAATTGAAAA
1 GTGACCCGACGCTCAACACACCTCTCACAATATGAGTCGATATTTTAAAACATAAATTGAAAA
54889135 GCAAAAATTG
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
72 46 0.87
73 1 0.02
74 6 0.11
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (72 bp):
GTGACCCGACGCTCAACACACCTCTCACAATATGAGTCGATATTTTAAAACATAAATTGAAAACA
CCTCAAC
Found at i:54889272 original size:161 final size:160
Alignment explanation
Indices: 54888922--54889384 Score: 622
Period size: 161 Copynumber: 2.9 Consensus size: 160
54888912 GTAAGCCAAT
* * * * * * * **
54888922 GCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTTGAAACTTAATTTGAAAGGCAGATTTTGAA
1 GCTCAACTCACCTCTCGCAATATGAGTCGATATTTTAAAACATAAATTGAAAAGCAGAAATTGAA
* * * * * *
54888987 AATACCTCGCCATGTGACCCGAGGCTCAACACACCTCTTACAATATGAGTTAATTTTATGAAACA
66 AATACCTTGGCATGTGACCCGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTGAAACA
54889052 TAAATTGAAAACACCTCAACGTGACCTGAC
131 TAAATTGAAAACACCTCAACGTGACCTGAC
* * *
54889082 GCTCAACTCATCTCTCGCAATATGAGTCGATATTTTAAAACATGAATTGAAAAGCAAAAATTGAA
1 GCTCAACTCACCTCTCGCAATATGAGTCGATATTTTAAAACATAAATTGAAAAGCAGAAATTGAA
* * *
54889147 AATACCTTGGCATGTGAACCAAGGCTCAACTCACCTCTTGTAATATGAGTTGATTTTTTGGAAAC
66 AATACCTTGGCATGTGACCCGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTT-GAAAC
* * *
54889212 ATAAATTGAAAACACTTCAGCGTGACCTGAG
130 ATAAATTGAAAACACCTCAACGTGACCTGAC
* *
54889243 GCTCAACTCACCTCTCGCAATAGGAGTCGATATTTTAAAACATAAATTGAAAAGCGGAAATTGAA
1 GCTCAACTCACCTCTCGCAATATGAGTCGATATTTTAAAACATAAATTGAAAAGCAGAAATTGAA
* * * *
54889308 AATACCTTGGCATGTGGCCCGAGGCTCAACTCATCTCTCGCAATATGAGTTGA-TTTTTGAAAAA
66 AATACCTTGGCATGTGACCCGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTGAAACA
54889372 TTGAAATTGAAAA
131 -T-AAATTGAAAA
54889385 AAAAAACAAA
Statistics
Matches: 264, Mismatches: 36, Indels: 5
0.87 0.12 0.02
Matches are distributed among these distances:
159 5 0.02
160 109 0.41
161 150 0.57
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (160 bp):
GCTCAACTCACCTCTCGCAATATGAGTCGATATTTTAAAACATAAATTGAAAAGCAGAAATTGAA
AATACCTTGGCATGTGACCCGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTGAAACA
TAAATTGAAAACACCTCAACGTGACCTGAC
Found at i:54889507 original size:73 final size:73
Alignment explanation
Indices: 54889388--54889609 Score: 313
Period size: 74 Copynumber: 3.0 Consensus size: 73
54889378 TTGAAAAAAA
* *
54889388 AAACAAAAATTGAAAATACCTCAGCGTGT-CTTAAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAACAGAAATTGAAAATACCTCAGCGTGTCCTGAA-GCTCAACTCACCTCTCGCAATATGAGTTG
54889452 ATTTTTGAC
65 ATTTTTGAC
* * *
54889461 AAACAGAAATTGAAATTACATCAGCGTGTCCTGAAGCCCAACTCACCTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTG-
54889526 ATTTTTGA-
65 ATTTTTGAC
* ** * *
54889534 AAAGCAGAAATTGAAAATACCTTAGCGTACCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTG
1 AAA-CAGAAATTGAAAATACCTCAGCGTGTCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTG
54889599 ATTTTTGAC
65 ATTTTTGAC
54889608 AA
1 AA
54889610 CAAAAATAAA
Statistics
Matches: 132, Mismatches: 13, Indels: 7
0.87 0.09 0.05
Matches are distributed among these distances:
73 65 0.49
74 67 0.51
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (73 bp):
AAACAGAAATTGAAAATACCTCAGCGTGTCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTGAC
Found at i:54890470 original size:44 final size:44
Alignment explanation
Indices: 54890403--54890515 Score: 120
Period size: 44 Copynumber: 2.6 Consensus size: 44
54890393 TAGAATGCCC
* * * *
54890403 TTTCGGGTTTTCATCCTAATCCTTTGTGT-TAATCAAGACACTCT
1 TTTCGGGTTTTCATCTTGATCCTTTAT-TATAATCAAGACACCCT
* * *
54890447 TTTTGGGTTTTCATCTTGATCCTTTATTATTATCAAGACGCCCT
1 TTTCGGGTTTTCATCTTGATCCTTTATTATAATCAAGACACCCT
* * *
54890491 TTTCGGATTTTCACCTTGATTCTTT
1 TTTCGGGTTTTCATCTTGATCCTTT
54890516 TTTTTTAGGC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
43 1 0.02
44 56 0.98
ACGTcount: A:0.18, C:0.21, G:0.13, T:0.48
Consensus pattern (44 bp):
TTTCGGGTTTTCATCTTGATCCTTTATTATAATCAAGACACCCT
Found at i:54901759 original size:17 final size:17
Alignment explanation
Indices: 54901721--54901759 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
54901711 GTAATGTTAG
*
54901721 AATATATACATAATATA
1 AATATATACATAAAATA
* *
54901738 TATATATATATAAAATA
1 AATATATACATAAAATA
54901755 AATAT
1 AATAT
54901760 TGAAAAATGT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
AATATATACATAAAATA
Found at i:54901880 original size:22 final size:21
Alignment explanation
Indices: 54901813--54901881 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 21
54901803 ATAATATTAA
*
54901813 AATAAA-ATAATAAGTGATAAT
1 AATAAATATAATATGT-ATAAT
*
54901834 AGTGAAA-ATAATATGTATAAT
1 AAT-AAATATAATATGTATAAT
54901855 AATAAATATAATGATGTATGAA-
1 AATAAATATAAT-ATGTAT-AAT
54901877 AATAA
1 AATAA
54901882 TACTATATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
20 3 0.07
21 14 0.34
22 22 0.54
23 2 0.05
ACGTcount: A:0.58, C:0.00, G:0.12, T:0.30
Consensus pattern (21 bp):
AATAAATATAATATGTATAAT
Found at i:54902243 original size:19 final size:19
Alignment explanation
Indices: 54902219--54902257 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
54902209 TATAAATAAT
*
54902219 AATGATGTTAGAAATATAC
1 AATGATATTAGAAATATAC
54902238 AATGATATTAGAAATATAC
1 AATGATATTAGAAATATAC
54902257 A
1 A
54902258 TAAATAGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.05, G:0.13, T:0.31
Consensus pattern (19 bp):
AATGATATTAGAAATATAC
Found at i:54902655 original size:3 final size:3
Alignment explanation
Indices: 54902649--54902786 Score: 84
Period size: 3 Copynumber: 45.0 Consensus size: 3
54902639 CATACTGATG
*
54902649 ATA ATA ATA ATA ATA ATA ATA ATAA ATA ATTA ATTA ATA A-A AGGA ATA
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA A-TA A-TA ATA ATA A-TA ATA
* * * * * * * *
54902697 AAA AAA ATG TTA ATA ACA AGA ATA TTA ATA ATA GTA ATA ATA ATA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
54902744 CTAA ATA ATA ATA TTA ATA ATA TTA GA-A ATG ATA ATA ATA ATA
1 AT-A ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
54902787 TTTAATAAAG
Statistics
Matches: 105, Mismatches: 22, Indels: 16
0.73 0.15 0.11
Matches are distributed among these distances:
2 4 0.04
3 88 0.84
4 13 0.12
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:54902798 original size:27 final size:29
Alignment explanation
Indices: 54902746--54902808 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 29
54902736 ATAATAATCT
* *
54902746 AAATAATAATATTAATAATATTAGAAATGA
1 AAATAATAATATT-ATAATATAAGAAACGA
*
54902776 TAATAATAATATT-TAATA-AAGAAACGA
1 AAATAATAATATTATAATATAAGAAACGA
54902803 AAATAA
1 AAATAA
54902809 AAAAAAGGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 12 0.41
28 5 0.17
30 12 0.41
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (29 bp):
AAATAATAATATTATAATATAAGAAACGA
Found at i:54903712 original size:13 final size:13
Alignment explanation
Indices: 54903668--54903716 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
54903658 TTGGAGGAGC
54903668 AGGTGGTGGCAGA
1 AGGTGGTGGCAGA
*
54903681 GGGTAGGTGGTC-GA
1 AGGT-GGTGG-CAGA
*
54903695 CGGTGGTGGCAGA
1 AGGTGGTGGCAGA
54903708 AGGTGGTGG
1 AGGTGGTGG
54903717 TAGGGCAGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 1 0.03
13 18 0.60
14 10 0.33
15 1 0.03
ACGTcount: A:0.16, C:0.08, G:0.57, T:0.18
Consensus pattern (13 bp):
AGGTGGTGGCAGA
Found at i:54903905 original size:34 final size:35
Alignment explanation
Indices: 54903850--54903918 Score: 113
Period size: 34 Copynumber: 2.0 Consensus size: 35
54903840 AATTGTAAAT
*
54903850 GGGTCATAGGACAAAATTGGGCTATAATATACTTC
1 GGGTCATAGGACAAAATTGGGCTATAACATACTTC
*
54903885 GGGTCATAGG-GAAAATTGGGCTATAACATACTTC
1 GGGTCATAGGACAAAATTGGGCTATAACATACTTC
54903919 TCACTAAGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 22 0.69
35 10 0.31
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (35 bp):
GGGTCATAGGACAAAATTGGGCTATAACATACTTC
Found at i:54915960 original size:5 final size:5
Alignment explanation
Indices: 54915950--54916005 Score: 60
Period size: 5 Copynumber: 11.2 Consensus size: 5
54915940 TATTTATATT
* * * *
54915950 AATAA AATAA AATAA AATAA AATAAA AATAT ATTAA ATTAA ATTAA AAT-A
1 AATAA AATAA AATAA AATAA AAT-AA AATAA AATAA AATAA AATAA AATAA
54916000 AATAA A
1 AATAA A
54916006 CACGTAAATA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
4 4 0.09
5 36 0.80
6 5 0.11
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (5 bp):
AATAA
Found at i:54917388 original size:23 final size:23
Alignment explanation
Indices: 54917360--54917403 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
54917350 GAGGGTTAAA
54917360 ATTGGTTGAATCTCTAAAAAATT
1 ATTGGTTGAATCTCTAAAAAATT
54917383 ATTGGTTGAATCTCTAAAAAA
1 ATTGGTTGAATCTCTAAAAAA
54917404 ATTTGTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (23 bp):
ATTGGTTGAATCTCTAAAAAATT
Found at i:54921767 original size:47 final size:46
Alignment explanation
Indices: 54921712--54921831 Score: 141
Period size: 47 Copynumber: 2.5 Consensus size: 46
54921702 GATTTTATGA
*
54921712 GATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAA-GTGTATATATGTGATAAGGCAGAATGGCCAATGT
* * * * *
54921759 GATGAATGTGAACATGCATATGTGTGATAAGGTAGAATGGCTAATGT
1 GATGAATGTGAA-GTGTATATATGTGATAAGGCAGAATGGCCAATGT
* *
54921806 GATAAACGTGGAAGTGTATATATGTG
1 GATGAATGT-GAAGTGTATATATGTG
54921832 GCGAAGCCAA
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
47 57 0.95
48 3 0.05
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (46 bp):
GATGAATGTGAAGTGTATATATGTGATAAGGCAGAATGGCCAATGT
Found at i:54936427 original size:38 final size:39
Alignment explanation
Indices: 54936385--54936479 Score: 111
Period size: 39 Copynumber: 2.5 Consensus size: 39
54936375 ATTCACTTTT
* * **
54936385 AAGCATATATCACATTACACATAT-ATTACATAATGTTC
1 AAGCATATATCACAATACACATATAATCACATAACATTC
* * * *
54936423 AAGCACATATCGCAATACTCATATAATCGCATAACATTC
1 AAGCATATATCACAATACACATATAATCACATAACATTC
54936462 AAGCATATATCACAATAC
1 AAGCATATATCACAATAC
54936480 TCAAAAACAT
Statistics
Matches: 46, Mismatches: 10, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
38 20 0.43
39 26 0.57
ACGTcount: A:0.43, C:0.22, G:0.06, T:0.28
Consensus pattern (39 bp):
AAGCATATATCACAATACACATATAATCACATAACATTC
Found at i:54938627 original size:21 final size:20
Alignment explanation
Indices: 54938599--54938640 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
54938589 TGTTAATAGG
*
54938599 ACCACTAACGTGGCAAGTTA
1 ACCACTAACATGGCAAGTTA
*
54938619 ACCAGCTAATATGGCAAGTTA
1 ACCA-CTAACATGGCAAGTTA
54938640 A
1 A
54938641 ATTTGTGTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.21
Consensus pattern (20 bp):
ACCACTAACATGGCAAGTTA
Found at i:54949292 original size:42 final size:42
Alignment explanation
Indices: 54949231--54949357 Score: 152
Period size: 42 Copynumber: 3.0 Consensus size: 42
54949221 CTTCGTTTTC
** *
54949231 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACAT-A
*
54949274 T-GATGCCATAGCCCAACTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
* * *
54949315 TCAATGCCATAGCCTAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAACTATGGTCTTACAC-ATATTCACATA
54949356 TC
1 TC
54949358 TCACTGATGC
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
41 10 0.14
42 62 0.84
43 2 0.03
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.31
Consensus pattern (42 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
Found at i:54949499 original size:31 final size:30
Alignment explanation
Indices: 54949464--54949581 Score: 150
Period size: 31 Copynumber: 3.8 Consensus size: 30
54949454 CTTGTCACTT
*
54949464 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACT-ATCAG
*
54949495 GTAGCCGGAGCTACCA-TTTGTCACTAATCAG
1 GTAGCCGAAGCTACCACTTT-TCACT-ATCAG
*
54949526 GTAGCCGGAGCTACCACTTTTCACTAGTCAG
1 GTAGCCGAAGCTACCACTTTTCACTA-TCAG
54949557 GTAGCCGGAA-CTACCACTTTTCACT
1 GTAGCC-GAAGCTACCACTTTTCACT
54949582 TGTCATTTGT
Statistics
Matches: 79, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
30 3 0.04
31 71 0.90
32 5 0.06
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.25
Consensus pattern (30 bp):
GTAGCCGAAGCTACCACTTTTCACTATCAG
Found at i:54949549 original size:62 final size:62
Alignment explanation
Indices: 54949464--54949581 Score: 177
Period size: 62 Copynumber: 1.9 Consensus size: 62
54949454 CTTGTCACTT
*
54949464 GTAGCCGAAGCTACCACTATTCACT-GATCAGGTAGCCGGAGCTACCA-TTTGTCACTAATCAG
1 GTAGCCGAAGCTACCACTATTCACTAG-TCAGGTAGCCGGAACTACCACTTT-TCACTAATCAG
* *
54949526 GTAGCCGGAGCTACCACTTTTCACTAGTCAGGTAGCCGGAACTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTATTCACTAGTCAGGTAGCCGGAACTACCACTTTTCACT
54949582 TGTCATTTGT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
62 47 0.92
63 4 0.08
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.25
Consensus pattern (62 bp):
GTAGCCGAAGCTACCACTATTCACTAGTCAGGTAGCCGGAACTACCACTTTTCACTAATCAG
Found at i:54949661 original size:50 final size:51
Alignment explanation
Indices: 54949557--54949685 Score: 192
Period size: 50 Copynumber: 2.5 Consensus size: 51
54949547 CACTAGTCAG
* *
54949557 GTAGCCGGAA-CTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCC-GAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
54949608 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
54949658 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
54949686 TGCCATGCTC
Statistics
Matches: 72, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
50 48 0.67
51 24 0.33
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:54954090 original size:42 final size:42
Alignment explanation
Indices: 54954027--54954141 Score: 151
Period size: 42 Copynumber: 2.7 Consensus size: 42
54954017 CTTTATTTTC
** *
54954027 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACAT-A
* *
54954070 T-GATGCCATAGCCCAGCTATGGTCTTACACATGTTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
* *
54954111 TCGATGCCATAGCCTAGTTATGGTCTTACAC
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC
54954142 GAATCACATA
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
41 2 0.03
42 61 0.95
43 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
Found at i:54954213 original size:47 final size:46
Alignment explanation
Indices: 54954112--54954235 Score: 158
Period size: 47 Copynumber: 2.7 Consensus size: 46
54954102 GTTCATATAT
* * * * * *
54954112 CGATGCCATAGCCTAGTTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
* * *
54954158 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATAC-GAAGCACATATCACAC
54954205 CGATGCCATATCCCAGATATGGTCTTATACG
1 CGATGCCATATCCCAGATATGGTCTTATACG
54954236 GAAATCACTT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
46 26 0.39
47 41 0.61
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
Found at i:54954295 original size:31 final size:31
Alignment explanation
Indices: 54954260--54954377 Score: 175
Period size: 31 Copynumber: 3.8 Consensus size: 31
54954250 CTTGTCACTT
*
54954260 GTAGCC-GACGCTACCACTATTCACTGATCAG
1 GTAGCCGGA-GCTACCACTTTTCACTGATCAG
* *
54954291 GTAGCCGGAGCTACCATTTTTCATTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
54954322 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
* *
54954353 GTAACCGGAACTACCACTTTTCACT
1 GTAGCCGGAGCTACCACTTTTCACT
54954378 TGTCATTTGT
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
31 77 0.97
32 2 0.03
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAGCCGGAGCTACCACTTTTCACTGATCAG
Found at i:54954450 original size:50 final size:51
Alignment explanation
Indices: 54954367--54954481 Score: 189
Period size: 50 Copynumber: 2.3 Consensus size: 51
54954357 CCGGAACTAC
*
54954367 CACTTTTCACTTGTCATTTGTCATTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCACTTGTCATTTGTCATTGATCAGATAAGTGTAGCCGAAGCTAT
*
54954418 CACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGTGTAGCCGAAGCTAT
54954468 CACTTATCACTTGT
1 CACTTATCACTTGT
54954482 TGCCATGGTC
Statistics
Matches: 60, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
50 45 0.75
51 15 0.25
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (51 bp):
CACTTATCACTTGTCATTTGTCATTGATCAGATAAGTGTAGCCGAAGCTAT
Done.