Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167826.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_1, whole genome shotgun sequence
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: 36299135
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Warning! 357000 characters in sequence are not A, C, G, or T
File 296 of 402
Found at i:28041979 original size:26 final size:26
Alignment explanation
Indices: 28041950--28042002 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
28041940 TTGGTTTGAT
28041950 CTTAAACTAGGAATGAACT-TCGTATG
1 CTTAAACTAGGAATGAACTCT-GTATG
* *
28041976 CTTAGACTAGGGATGAACTCTGTATG
1 CTTAAACTAGGAATGAACTCTGTATG
28042002 C
1 C
28042003 CTAAGTCAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 23 0.96
27 1 0.04
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (26 bp):
CTTAAACTAGGAATGAACTCTGTATG
Found at i:28042185 original size:26 final size:26
Alignment explanation
Indices: 28042146--28042224 Score: 133
Period size: 26 Copynumber: 3.0 Consensus size: 26
28042136 CTGGTCTGAT
*
28042146 CTTAGAC-TGTGAATGAACTTCGTATG
1 CTTAGACATG-GAATGAACTCCGTATG
28042172 CTTAGACATGGAATGAACTCCGTATG
1 CTTAGACATGGAATGAACTCCGTATG
28042198 CTTAGACATGGAATGAACTCCGTATG
1 CTTAGACATGGAATGAACTCCGTATG
28042224 C
1 C
28042225 CTAAGACAAC
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
26 49 0.96
27 2 0.04
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (26 bp):
CTTAGACATGGAATGAACTCCGTATG
Found at i:28042545 original size:159 final size:157
Alignment explanation
Indices: 28042197--28042599 Score: 364
Period size: 158 Copynumber: 2.5 Consensus size: 157
28042187 AACTCCGTAT
* * * *
28042197 GCTTAGACATGGAATGAACTCCGTATGCCTAAGACAACCCACAAAACGAGCATGCGGGTGCTCAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGACAACCCACGAAATGAGCGTGCGGGCGCTCAG
* * * ** * * *
28042262 CTGGTCGGAGAGGCAGAATGTGCAAGTTGGGGATCGGCTCGGTCCCCCCTGTGTGCTGTCGATCT
66 CTGCTCGAAGAGGCAGAATGCGCAAGCCGGGGATCGACTCGGTCCCCCCTGCGTGCTGCCGATCT
* *
28042327 TACTACCGCAACCCTCGGTCCGGTCTGA
131 CACTACCACAACCCTCGGTCC-GTCTGA
* * * * * * * *
28042355 TCTTAGAC-TGGGAATTAACTCTGTAAGCCTAAGTCAACCCACGAAATGAGCGTTCGGGCGTTGA
1 GCTTAGACAT-GGAATGAACTCCGTATGCCTAAGACAACCCACGAAATGAGCGTGCGGGCGCTCA
* *
28042419 GCTGACT-GAAGATGC-GTAATGCGCAAGCCGGGGATCGACTCGGTCCCCCTTTGCGTGCTGCCG
65 GCTG-CTCGAAGAGGCAG-AATGCGCAAGCCGGGGATCGACTCGGTCCCCC-CTGCGTGCTGCCG
* * * * *
28042482 GTCTCACTGCCACAACCCTCAGTTCC-TTTGGG
127 ATCTCACTACCACAACCCTC-GGTCCGTCT-GA
* * * * * **
28042514 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCATCCCATGAAATGGGCGTAAGGGCGCTCAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGACAACCCACGAAATGAGCGTGCGGGCGCTCAG
* * *
28042579 CCGGTCGAAGAGGTAGAATGC
66 CTGCTCGAAGAGGCAGAATGC
28042600 TGTCGATCGT
Statistics
Matches: 190, Mismatches: 46, Indels: 17
0.75 0.18 0.07
Matches are distributed among these distances:
157 2 0.01
158 91 0.48
159 91 0.48
160 6 0.03
ACGTcount: A:0.23, C:0.27, G:0.28, T:0.22
Consensus pattern (157 bp):
GCTTAGACATGGAATGAACTCCGTATGCCTAAGACAACCCACGAAATGAGCGTGCGGGCGCTCAG
CTGCTCGAAGAGGCAGAATGCGCAAGCCGGGGATCGACTCGGTCCCCCCTGCGTGCTGCCGATCT
CACTACCACAACCCTCGGTCCGTCTGA
Found at i:28042689 original size:26 final size:26
Alignment explanation
Indices: 28042638--28042690 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28042628 CCGATCCGAT
* *
28042638 CTTAGACTGGGAATGAACTTCGTATG
1 CTTAGACTGGGAATGAACTCCATATG
*
28042664 CTTAGACTGGGGATGAACTCCATATG
1 CTTAGACTGGGAATGAACTCCATATG
28042690 C
1 C
28042691 CTAAGTCAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCATATG
Found at i:28042973 original size:184 final size:184
Alignment explanation
Indices: 28042663--28043109 Score: 569
Period size: 184 Copynumber: 2.4 Consensus size: 184
28042653 AACTTCGTAT
* * *
28042663 GCTTAGAC-TGGGGATGAACTCCATATGCCTAAGTCAACCCACGAAACGAGCGTGC-AGGCGCTC
1 GCTTAGACAT-GGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGA-GCGCTC
* * * * ** *
28042726 AACCGGCCGGAGAGGCCGATCGGAGAGACACAATGCACAAGCCGGGGATCAGCCTGGTCCCCCTC
64 AGCCGGCCGGAGAGGCCGACCGAAAAGACACAACACACAAGCCGGGGATCAGCCTGATCCCCCTC
*
28042791 TACATGCTGTCGATCCTGCTACCGGTCCTGCTACCACAACCCTCAGTCTGGCTGGG
129 TACATGCTGTCGATCCCGCTACCGGTCCTGCTACCACAACCCTCAGTCTGGCTGGG
*
28042847 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACAAGCGTGCGAGCGCTCAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGAGCGCTCAG
* * *
28042912 CCGACCGGAGAGGCCGACCGAACAAG-CATAACACATAAGCCGGGGATCAG-CTCGATCCCCCTC
66 CCGGCCGGAGAGGCCGACCGAA-AAGACACAACACACAAGCCGGGGATCAGCCT-GATCCCCCTC
* ** * *
28042975 TACGTGCTGTCGATCCCGCTGTCGGTCCTTCTACCACAACCCTCGGTCTGGCTGGG
129 TACATGCTGTCGATCCCGCTACCGGTCCTGCTACCACAACCCTCAGTCTGGCTGGG
* * ** * * *
28043031 GCTTAGAAATGGAAGGAACTTTGTATGCCTAAGCCAACCCATGAAATGAGCGTGCGGGCGCTCAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGAGCGCTCAG
* *
28043096 TCGGCCGAAGAGGC
66 CCGGCCGGAGAGGC
28043110 AAAATGAGCA
Statistics
Matches: 228, Mismatches: 31, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
183 2 0.01
184 222 0.97
185 4 0.02
ACGTcount: A:0.24, C:0.31, G:0.28, T:0.17
Consensus pattern (184 bp):
GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGAGCGCTCAG
CCGGCCGGAGAGGCCGACCGAAAAGACACAACACACAAGCCGGGGATCAGCCTGATCCCCCTCTA
CATGCTGTCGATCCCGCTACCGGTCCTGCTACCACAACCCTCAGTCTGGCTGGG
Found at i:28043221 original size:26 final size:26
Alignment explanation
Indices: 28043192--28043244 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28043182 CCGGTTCGAT
28043192 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
* * *
28043218 CTTAGATTGGGGATGAACTTCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28043244 C
1 C
28043245 CTAAGTCAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28044727 original size:26 final size:26
Alignment explanation
Indices: 28044698--28044750 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28044688 CCAGTCCGAT
28044698 CTTAGACTAGGAATCAACTCCATATG
1 CTTAGACTAGGAATCAACTCCATATG
* * *
28044724 CTTAGACTAGGGATGAACTCCGTATG
1 CTTAGACTAGGAATCAACTCCATATG
28044750 C
1 C
28044751 CTAAGTCAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (26 bp):
CTTAGACTAGGAATCAACTCCATATG
Found at i:28045458 original size:26 final size:25
Alignment explanation
Indices: 28045419--28045470 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 25
28045409 GGCTCAAACT
28045419 CTTAGACTGGAATGAACTCCGTATG
1 CTTAGACTGGAATGAACTCCGTATG
28045444 CTTAGACGTGGAATGAACTCCGTATG
1 CTTAGAC-TGGAATGAACTCCGTATG
28045470 C
1 C
28045471 CTAAGCCAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 7 0.27
26 19 0.73
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (25 bp):
CTTAGACTGGAATGAACTCCGTATG
Found at i:28045572 original size:20 final size:21
Alignment explanation
Indices: 28045546--28045594 Score: 91
Period size: 20 Copynumber: 2.4 Consensus size: 21
28045536 AAGGATTGGC
28045546 CCAGTCCCCCTCTGTGTGCTG
1 CCAGTCCCCCTCTGTGTGCTG
28045567 -CAGTCCCCCTCTGTGTGCTG
1 CCAGTCCCCCTCTGTGTGCTG
28045587 CCAGTCCC
1 CCAGTCCC
28045595 GTTGCCACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 20 0.74
21 7 0.26
ACGTcount: A:0.06, C:0.45, G:0.22, T:0.27
Consensus pattern (21 bp):
CCAGTCCCCCTCTGTGTGCTG
Found at i:28045830 original size:26 final size:26
Alignment explanation
Indices: 28045781--28045833 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28045771 CTGGTTCGAT
**
28045781 CTTAGACTGGGAATGAACTTCGTATG
1 CTTAGACTGGGAATGAACACCGTATG
*
28045807 CTTAGACTGGGAATGTACACCGTATG
1 CTTAGACTGGGAATGAACACCGTATG
28045833 C
1 C
28045834 CTAAGTCAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACACCGTATG
Found at i:28046027 original size:26 final size:26
Alignment explanation
Indices: 28045989--28046041 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28045979 CTGGTCTGAT
28045989 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
*
28046015 CTTAGACAT-GGAATTAACTCCGTATG
1 CTTAGAC-TGGGAATGAACTCCGTATG
28046041 C
1 C
28046042 CTAAGCCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28046884 original size:159 final size:157
Alignment explanation
Indices: 28046538--28046906 Score: 413
Period size: 157 Copynumber: 2.3 Consensus size: 157
28046528 AACTCCATAT
* *
28046538 GCTTAGATATGGAATGAACTCCGTATGCCTAAGCCAATCCATGAAACGAGCGTACGGGTGCTCAA
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTACGGGTGCTCAA
* * * * * *
28046603 CTGACCGGAGAGGCAGAATGCGCAAGCCGGGATACGGCCCGATCCCCCCCGCTACTGTCGATCCT
66 CCGACCGAAAAGGCAAAATACGCAAGCCGGGATACGGCCCGATCCCCCCCGCTACTGTCGATCCC
* *
28046668 GCTATCGCAACCCTCGGTCCGGTCCAA
131 GCTACCACAACCCTCGGTCCGGTCCAA
* * *
28046695 TCTTAGAC-TGGGAATGAACTCCGTATGCCTAAGTCAACCCATGAAACGAGCGTACGGGTGCTGA
1 GCTTAGACAT-GGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTACGGGTGCTCA
* * * * * * * * **
28046759 GCCGGCCGAAAAGGTAAAATACGTAAGTCGAGGAT-CGGCTCGATCCTCCTCTGCGTGTTGTC-A
65 ACCGACCGAAAAGGCAAAATACGCAAGCCG-GGATACGGCCCGATCC-CCCCCGC-TACTGTCGA
* *
28046822 GTCCCGCTACCACAACCCTCGGTCCGG-CTAGG
127 -TCCCGCTACCACAACCCTCGGTCCGGTCCA-A
* *
28046854 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAACGGGCGT
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGT
28046907 GCACAAGCCG
Statistics
Matches: 176, Mismatches: 29, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
156 1 0.01
157 87 0.49
158 12 0.07
159 75 0.43
160 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.26, T:0.19
Consensus pattern (157 bp):
GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTACGGGTGCTCAA
CCGACCGAAAAGGCAAAATACGCAAGCCGGGATACGGCCCGATCCCCCCCGCTACTGTCGATCCC
GCTACCACAACCCTCGGTCCGGTCCAA
Found at i:28047011 original size:26 final size:26
Alignment explanation
Indices: 28046982--28047034 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28046972 CCGATCCGAT
28046982 CTTAGACT-GGGAATGAACTCCGTATG
1 CTTAGACTAGGG-ATGAACTCCGTATG
*
28047008 CTTAGACTAGGGATGAACTCTGTATG
1 CTTAGACTAGGGATGAACTCCGTATG
28047034 C
1 C
28047035 CTAAGTTAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (26 bp):
CTTAGACTAGGGATGAACTCCGTATG
Found at i:28047522 original size:170 final size:170
Alignment explanation
Indices: 28047143--28047532 Score: 400
Period size: 170 Copynumber: 2.3 Consensus size: 170
28047133 GATCCTACTA
* * * *
28047143 CCACAACCCTC-GTTTCGGTCTGATCTTAGACTGGGAATGAACACCGTATGCCTAAGTCAACCAC
1 CCACAACCCTCGGTTT-GGTCTTATCTTAGACTGGGAATGAACTCCGTATGACTAAGCCAACCAC
* * * * *
28047207 GAAACAAGCGTTCAGGCACTGAGTCGACTGGAGAGGCATAATGCCCAAGTCGGGGATCAGCCCGA
65 GAAACAAGCGTTCAAGCACTCAGTCGACCGGAGAGGCAGAATGCCCAAGTCGAGGATCAGCCCGA
*
28047272 TCCCCCTCTACGTGCTGTCGATCCCACTACAGGTCCTGCTG
130 TCCCCCTCTACATGCTGTCGATCCCACTACAGGTCCTGCTG
*
28047313 CCACAACCCTCGATTTGG-C-TAGGGT-TTAGACAT-GGAATGAACTCCGTATGACTAAGCCAAC
1 CCACAACCCTCGGTTTGGTCTTA---TCTTAGAC-TGGGAATGAACTCCGTATGACTAAGCCAA-
* * * * * *
28047374 CCACGAAACGAGCGTTCAAGCGCTCAG-CAGGCCGGAGAGGCAGAATGCGCAAGTTGAGGATCGG
61 CCACGAAACAAGCGTTCAAGCACTCAGTC-GACCGGAGAGGCAGAATGCCCAAGTCGAGGATCAG
* * *** * *
28047438 CCCTG-TCCCCC-CTGCATGCTGTTGATCCTGTTGCTGGTCCTGCTG
125 CCC-GATCCCCCTCTACATGCTGTCGATCCCACTACAGGTCCTGCTG
* * * *
28047483 CCGCAACCCTCGGTTTGGTCTTATCCTATACTGGGAATGAACTCCATATG
1 CCACAACCCTCGGTTTGGTCTTATCTTAGACTGGGAATGAACTCCGTATG
28047533 CTTAGATATG
Statistics
Matches: 179, Mismatches: 29, Indels: 24
0.77 0.12 0.10
Matches are distributed among these distances:
168 1 0.01
169 3 0.02
170 106 0.59
171 66 0.37
172 3 0.02
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (170 bp):
CCACAACCCTCGGTTTGGTCTTATCTTAGACTGGGAATGAACTCCGTATGACTAAGCCAACCACG
AAACAAGCGTTCAAGCACTCAGTCGACCGGAGAGGCAGAATGCCCAAGTCGAGGATCAGCCCGAT
CCCCCTCTACATGCTGTCGATCCCACTACAGGTCCTGCTG
Found at i:28047876 original size:159 final size:154
Alignment explanation
Indices: 28047532--28047900 Score: 393
Period size: 156 Copynumber: 2.4 Consensus size: 154
28047522 AACTCCATAT
* * * *
28047532 GCTTAGATATGGAATGAACTCCGTACGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAA
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGCCACTCAA
* * *
28047597 CCGCGCTAGAGCCAGAATGCGTAAGCCGGGATCCGACCCAATCCCCCCTGCGTGCTGTCGATCCT
66 CCGCGCAAGAGCCAGAATGCGTAAGCCGGGATCAGACCCAATCCCCCCTGCGTGCTGTCGATCCC
* * *
28047662 GCTGTCGCAACCTCGGTCTGGGCC
131 GCTGCCACAACCTCGGTCCGGGCC
* * * *
28047686 GATCTTAGAC-TGGGAATGAACTTCGTATGCCTAAGTCAACCTACGAAACGAGCGTGCTGCCACT
1 G--CTTAGACAT-GGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGCCACT
* * * * * * *
28047750 GAGCCG-GCCGAAGAGGCATAATGTGTAAGCCGGGGATCAG-CCCGATCCCCCACTGCGTGTTGT
63 CAACCGCG-C-AAGAGCCAGAATGCGTAAGCC-GGGATCAGACCCAATCCCCC-CTGCGTGCTGT
* *
28047813 CGGTCCCGCTGCCACAACCCTCGGTCCGGCTGTC
124 CGATCCCGCTGCCACAA-CCTCGGTCCGG--GCC
* * *
28047847 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAACGGGCGTG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTG
28047901 TGCAAGCCAG
Statistics
Matches: 175, Mismatches: 29, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
154 1 0.01
155 2 0.01
156 56 0.32
157 27 0.15
158 30 0.17
159 55 0.31
160 1 0.01
161 3 0.02
ACGTcount: A:0.22, C:0.32, G:0.27, T:0.18
Consensus pattern (154 bp):
GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGCCACTCAA
CCGCGCAAGAGCCAGAATGCGTAAGCCGGGATCAGACCCAATCCCCCCTGCGTGCTGTCGATCCC
GCTGCCACAACCTCGGTCCGGGCC
Found at i:28048004 original size:26 final size:26
Alignment explanation
Indices: 28047975--28048027 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28047965 CCGATCCGAT
*
28047975 CTTAGAC-AGGGAATGAACTCCGTATG
1 CTTAGACTAGGG-ATGAACTCCATATG
28048001 CTTAGACTAGGGATGAACTCCATATG
1 CTTAGACTAGGGATGAACTCCATATG
28048027 C
1 C
28048028 CTAAGTCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (26 bp):
CTTAGACTAGGGATGAACTCCATATG
Found at i:28048747 original size:26 final size:26
Alignment explanation
Indices: 28048709--28048760 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28048699 GGCTCAAACT
28048709 CTTAGACTGGGAATGAACTCCATATG
1 CTTAGACTGGGAATGAACTCCATATG
*
28048735 CTTAGACAT-GGAATGAACTCCGTATG
1 CTTAGAC-TGGGAATGAACTCCATATG
28048761 GCTAAGCCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 23 0.96
27 1 0.04
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCATATG
Found at i:28049679 original size:26 final size:26
Alignment explanation
Indices: 28049641--28049693 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28049631 CCAATCCGAT
28049641 CTTAGACTGGGAATGAACTTCGTATG
1 CTTAGACTGGGAATGAACTTCGTATG
*
28049667 CTTAGACAT-GGAATGAACTTTGTATG
1 CTTAGAC-TGGGAATGAACTTCGTATG
28049693 C
1 C
28049694 CTAAACCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTTCGTATG
Found at i:28049745 original size:393 final size:399
Alignment explanation
Indices: 28049062--28049788 Score: 902
Period size: 393 Copynumber: 1.8 Consensus size: 399
28049052 TCTTAGACTA
* * * * * *
28049062 GGGATGAACTCTGTATGCCTAAGTCAACCCATGAAAGAAGCCTGCAGGCGTTCAGTCGATCGGAG
1 GGGATGAACTCCGTATGCCTAAGTCAACCCATGAAACAAGCCTACAGGCGTTCAGCCGATCGAAA
* *
28049127 AGGCCGATCGAAGAGGCAGAATGCACAAGTCGAGGATCGACCCGATCCCCCCTACGTGCTATCGA
66 AGGCCGATCGAAGAGGCAGAATGCACAAGTCGAGGATCAACCCGATCCCCCCTACATGCTATCGA
* *
28049192 TCCTGTAGCTAGTTCTGCTACTAGTCCTGCTGCCATAACCCTCGGTCCGATCCGATCTTAGACTG
131 TCCTGTAGCTAGTTCT-CTACTA--CC-GCTG-C-TAACCCTCAGTCCAATCCGATCTTAGACTG
*
28049257 GGAATGAACTCCGTATGCTTAGACATGAAATGAACTCCCTATGCCTAAGCCAACCCACGAAACAG
190 GGAATGAACTCCGTATGCTTAGACATGAAATGAACTCCCTATGCCTAAACCAACCCACGAAACAG
* * * * *
28049322 GCGTGCGATCGTTCAGCCAGCCAAAGAGGTAGAATACGCAAGCCAGGGATTGGCTCGGTCCCCCT
255 CCGTGCGAGCGCTCAGCCAGCCAAAGAGGTAGAATACGCAAGCCAGGGATTGGCCCAGTCCCCCT
*
28049387 TGTGTGCTGCCGATCCTGCAGCCACAACCCTTGATCCGATTTGATCTTAGACTGGGAATGAACTC
320 TGCGTGCTGCCGATCCTGCAGCCACAACCCTTGATCCGATTTGATCTTAGACTGGGAATGAACTC
28049452 CGTATACTTAAACCG
385 CGTATACTTAAACCG
* * *
28049467 GGGATGAACTCCGTATGCCTAAGTCAACCCATGAAACAAGCGTACGGGTGCTT-AGCC-AGTCGA
1 GGGATGAACTCCGTATGCCTAAGTCAACCCATGAAACAAGCCTACAGGCG-TTCAGCCGA-TCGA
* * * * * *
28049530 AAAGGCTGGTCGAAGAGGCAGAATGCATAAGTCGGGGATCAACCC-AGTCCCCCCTATATGCTGT
64 AAAGGCCGATCGAAGAGGCAGAATGCACAAGTCGAGGATCAACCCGA-TCCCCCCTACATGCTAT
28049594 CGATCCTGCT-GCTAG-TCT-TACTA-C-C-G-TAACCCTCAGTCCAATCCGATCTTAGACTGGG
128 CGATCCTG-TAGCTAGTTCTCTACTACCGCTGCTAACCCTCAGTCCAATCCGATCTTAGACTGGG
* * ***
28049652 AATGAACTTCGTATGCTTAGACATGGAATGAACTTTGTATGCCTAAACCAACCCACGAAAC-GAC
192 AATGAACTCCGTATGCTTAGACATGAAATGAACTCCCTATGCCTAAACCAACCCACGAAACAG-C
* * ** * ** **
28049716 CGTGCGGGCGCTCAGCC-GATCGGAGAGGTAGAATGCTTAAGCTGGGGATTGGCCCAGTCCCCCT
256 CGTGCGAGCGCTCAGCCAG-CCAAAGAGGTAGAATACGCAAGCCAGGGATTGGCCCAGTCCCCCT
28049780 TGCGTGCTG
320 TGCGTGCTG
28049789 TTGATCCTAC
Statistics
Matches: 276, Mismatches: 40, Indels: 24
0.81 0.12 0.07
Matches are distributed among these distances:
392 2 0.01
393 142 0.51
396 1 0.00
397 1 0.00
399 1 0.00
402 5 0.02
404 5 0.02
405 116 0.42
406 3 0.01
ACGTcount: A:0.26, C:0.28, G:0.25, T:0.22
Consensus pattern (399 bp):
GGGATGAACTCCGTATGCCTAAGTCAACCCATGAAACAAGCCTACAGGCGTTCAGCCGATCGAAA
AGGCCGATCGAAGAGGCAGAATGCACAAGTCGAGGATCAACCCGATCCCCCCTACATGCTATCGA
TCCTGTAGCTAGTTCTCTACTACCGCTGCTAACCCTCAGTCCAATCCGATCTTAGACTGGGAATG
AACTCCGTATGCTTAGACATGAAATGAACTCCCTATGCCTAAACCAACCCACGAAACAGCCGTGC
GAGCGCTCAGCCAGCCAAAGAGGTAGAATACGCAAGCCAGGGATTGGCCCAGTCCCCCTTGCGTG
CTGCCGATCCTGCAGCCACAACCCTTGATCCGATTTGATCTTAGACTGGGAATGAACTCCGTATA
CTTAAACCG
Found at i:28055170 original size:26 final size:26
Alignment explanation
Indices: 28055134--28055184 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
28055124 TCCAATCGAT
28055134 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
*
28055160 CTTAGACTGGGGATGAACTCCGTAT
1 CTTAGACTGGGAATGAACTCCGTAT
28055185 TCCTAAGTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28058602 original size:159 final size:158
Alignment explanation
Indices: 28058229--28058676 Score: 397
Period size: 159 Copynumber: 2.8 Consensus size: 158
28058219 AACTTCGTCT
* * *
28058229 GCTTAGACATGGAATGAACTCTGTATGCCTAAGCCAACACATGAAACGAACGTGCGGGCGCTCAG
1 GCTTAGACATGGAATGAACTC-CTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCGCTCAG
* * * *
28058294 CCAGCTGGAGAGGCAGAATATGCAAGCTGGGGATCGACCCGGTCCCCCCCTGCGTGCTGTCGATC
65 CCAGCTGGAGAGGCAGAATACGCAAGCCGAGGATCGACCCGATCCCCCCCTGCGTGCTGTCGATC
* ** * * *
28058359 CTACTGTCGCAACCTTCGGTCTGGTCCGA
130 CCACTACCACAACCTTCGGTCCGGTCAGA
* * * * *
28058388 TCTTAGAC-TGGGAATGAACTCCGTATGCCTAAGTCAACCCATGAAAC-ATGTGTGCGGGCGTTG
1 GCTTAGACAT-GGAATGAACTCC-TATGCCTAAGCCAACCCATGAAACGA-GCGTGCGGGCGCTC
* * * * * *
28058451 AGCC-GATCGGAGAGGCATAATGCGCAAGCCGAGGATCGGCCCGATCCTCCGCTGCGTGCTGTCG
63 AGCCAGCT-GGAGAGGCAGAATACGCAAGCCGAGGATCGACCCGATCCCCCCCTGCGTGCTGTCG
* * * *
28058515 GTCCCGCTACCATAACCCTT-GGTCCGG-CTAGG
127 ATCCCACTACCACAA-CCTTCGGTCCGGTC-AGA
* * * *
28058547 GCTTAGACATGGAATGAACTCACTATGCCTAAGCCATCCCACGAAACGGGCGTGCGGGCCCTCAG
1 GCTTAGACATGGAATGAACTC-CTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCGCTCAG
* * ** * * * * *
28058612 TCGGCCAGAGAGGCAGAATGCGCAAGTCGGGGATTGACCCGGT-CCCCCCTAG-GTGCTGTCGAT
65 CCAGCTGGAGAGGCAGAATACGCAAGCCGAGGATCGACCCGATCCCCCCCT-GCGTGCTGTCGAT
28058675 CC
129 CC
28058677 TGCTATTGCA
Statistics
Matches: 228, Mismatches: 50, Indels: 23
0.76 0.17 0.08
Matches are distributed among these distances:
158 22 0.10
159 199 0.87
160 7 0.03
ACGTcount: A:0.22, C:0.30, G:0.29, T:0.19
Consensus pattern (158 bp):
GCTTAGACATGGAATGAACTCCTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCGCTCAGC
CAGCTGGAGAGGCAGAATACGCAAGCCGAGGATCGACCCGATCCCCCCCTGCGTGCTGTCGATCC
CACTACCACAACCTTCGGTCCGGTCAGA
Found at i:28060306 original size:26 final size:26
Alignment explanation
Indices: 28060277--28060329 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
28060267 CTGATCTGAT
28060277 CTTAGACTGGGAATGAACTCTGTATG
1 CTTAGACTGGGAATGAACTCTGTATG
*
28060303 CTTAGACTGGGGATGAACTCTGTATG
1 CTTAGACTGGGAATGAACTCTGTATG
28060329 C
1 C
28060330 CTAAGTCAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCTGTATG
Found at i:28060355 original size:345 final size:351
Alignment explanation
Indices: 28059687--28060556 Score: 995
Period size: 345 Copynumber: 2.5 Consensus size: 351
28059677 AGCCGGCCGA
* * * * * *
28059687 AGAGGCATAATGCGCAATCTGGGGTTCAGCCCGATCCCCCGCTGTGTGCTACCGATCC-CACTGC
1 AGAGGCATAATGCGCAAGCTGGGGATCAGCCCGATCCCCCTCTGCGTGCTGCCGATCCTCGCTGC
* * *
28059751 CACAACCCTCAGTCTGGCTGGGGCTTAGACATGGAATG-AACTCGCTAAGCCTAAGCCAACCCAT
66 CACAACCCTCGGTCTGGCTGGGGCTTAGACATGGAATGAAATTCG-TATGCCTAAGCCAACCCAT
* * *
28059815 GAAACGGGCGTGCGGGCGCTCAGTCGGCCCAAGAGGTAGAATGCGCAAGCCAGGGATCGGCCCGG
130 GAAACGAGCGTGCGGGCACTCAGTCGG-CCAAGAGGTA-AA--CGCAAG-C-GGGATCAGCCCGG
* * *
28059880 TCCCCCCTGTGTACAACCAATCCTGCTGCCGCAACCCTCGAACCGGTCCGATCTTAGACTGGGAA
189 TCCCCCCTGTATACAACCAATCCTACTGCCGCAACCCTCGAACCGATCCGATCTTAGACTGGGAA
*
28059945 TGAACTCCATATGCTTAGACTGGAGATGAACTCTGTGTGCCTAAGTCAACCCATGAAACGAGCGT
254 TGAACTCCATATGCTTAGACTGGAGATGAACTCTGTATGCCTAAGTCAACCCATGAAACGAGCGT
* ** *
28060010 GCGGGCGCTCAGTCGACCGGAGAGATC-GATCAG
319 GCGGGAGCTCAACCGACCGAAGAGATCAGA-CAG
* ** *
28060043 AGAGGCATAATGTGCAAGCCAGGGATCAGCCCGATCCCCCTCTGCGTGCTGCCGGTCCTC-CTGC
1 AGAGGCATAATGCGCAAGCTGGGGATCAGCCCGATCCCCCTCTGCGTGCTGCCGATCCTCGCTGC
* * * *
28060107 CACAACCCTCGGTCTGGCCGGGGCTTAAAGATGGAATGAAATTCGTATGGCTAAGCCAACCCATG
66 CACAACCCTCGGTCTGGCTGGGGCTTAGACATGGAATGAAATTCGTATGCCTAAGCCAACCCATG
* * *
28060172 AAACGAGCGTGCGGGCACTCAGTTGG-CAATGA-GT-AA-GC-TG-GGGATCAGCTCGGTCCCCC
131 AAACGAGCGTGCGGGCACTCAGTCGGCCAA-GAGGTAAACGCAAGCGGGATCAGCCCGGTCCCCC
* * * * * * * *
28060231 TTGTATGCTACCGATCCTACTGCCGTAACCCTCGATCTGATCTGATCTTAGACTGGGAATGAACT
195 CTGTATACAACCAATCCTACTGCCGCAACCCTCGAACCGATCCGATCTTAGACTGGGAATGAACT
** *
28060296 CTGTATGCTTAGACTGGGGATGAACTCTGTATGCCTAAGTCAACCCATGAAACGAGCGTGCGGGA
260 CCATATGCTTAGACTGGAGATGAACTCTGTATGCCTAAGTCAACCCATGAAACGAGCGTGCGGGA
* *
28060361 GCTCAACCGACCGAAGAGGTCAGACGG
325 GCTCAACCGACCGAAGAGATCAGACAG
* * * *
28060388 AGAGGCATAATGCGTAAGCTGGGGATCAGCTCGGTCCCCCTTTGCGTGCTGCCGATCCTGCTGTC
1 AGAGGCATAATGCGCAAGCTGGGGATCAGCCCGATCCCCCTCTGCGTGCTGCCGAT-C--C--TC
* * * * *
28060453 GGTCTTGCTGTCACAGCCCTCGGTCCGACTGGGGCTTAGACATGGAATGAACTCCGTATGCCTAA
61 -G-C-TGC---CACAACCCTCGGTCTGGCTGGGGCTTAGACATGGAATGAAATTCGTATGCCTAA
**
28060518 GCCAACCCATGAAACGAGCGTGCGGGTGCTCAGTCGGCC
120 GCCAACCCATGAAACGAGCGTGCGGGCACTCAGTCGGCC
28060557 GGAGAGGCGA
Statistics
Matches: 434, Mismatches: 63, Indels: 32
0.82 0.12 0.06
Matches are distributed among these distances:
345 198 0.46
346 3 0.01
348 2 0.00
349 2 0.00
350 2 0.00
352 2 0.00
353 1 0.00
354 8 0.02
355 2 0.00
356 128 0.29
357 85 0.20
358 1 0.00
ACGTcount: A:0.23, C:0.29, G:0.28, T:0.20
Consensus pattern (351 bp):
AGAGGCATAATGCGCAAGCTGGGGATCAGCCCGATCCCCCTCTGCGTGCTGCCGATCCTCGCTGC
CACAACCCTCGGTCTGGCTGGGGCTTAGACATGGAATGAAATTCGTATGCCTAAGCCAACCCATG
AAACGAGCGTGCGGGCACTCAGTCGGCCAAGAGGTAAACGCAAGCGGGATCAGCCCGGTCCCCCC
TGTATACAACCAATCCTACTGCCGCAACCCTCGAACCGATCCGATCTTAGACTGGGAATGAACTC
CATATGCTTAGACTGGAGATGAACTCTGTATGCCTAAGTCAACCCATGAAACGAGCGTGCGGGAG
CTCAACCGACCGAAGAGATCAGACAG
Found at i:28060736 original size:158 final size:156
Alignment explanation
Indices: 28060487--28060987 Score: 490
Period size: 159 Copynumber: 3.2 Consensus size: 156
28060477 CCGACTGGGG
* * * * **
28060487 CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGTGCTCAGT
1 CTTAGACATGGAATGAACTCCGTATGCCTAAGCTAACCCACGAAATGGGCGTGCGGGCACTCAGT
* * *
28060552 CGGCCGGAGAGGCGAAATGCATAAGCCGGGGATCGACTCGGTCCCCTCTACGTGCTGTCGATCTT
66 CGGCCGGAGAGGC-AAATGCACAAGCCGGGGATCGGC-CGGTCCCCTCTACGTGCTGTCGATCCT
** *
28060617 GCTGTTGCAACCCTTGGTCCGATCCGAT
129 GCTGCCGCAACCCTCGGTCCGATCCGAT
* * * * *
28060645 CTTAGAC-TGGGAATGAACTCCGTATGCCAAAGTTAACCCACGAAATGGGCATGCGGGCATTGAG
1 CTTAGACAT-GGAATGAACTCCGTATGCCTAAGCTAACCCACGAAATGGGCGTGCGGGCACTCAG
* * * *
28060709 CCGACCGGAGAGGCATAATGCACAAGCCGGGGATCGGCCTGGTCCCCTACTGCATGCTGTC-ACT
65 TCGGCCGGAGAGGCA-AATGCACAAGCCGGGGATCGGCC-GGTCCCCT-CTACGTGCTGTCGA-T
** * * * * **
28060773 CCCACTGCCACAACCCTCGATCCG-GCTGGGG
126 CCTGCTGCCGCAACCCTCGGTCCGATC-CGAT
* * * *
28060804 CTTAGACATGGAATGAACTCCCTATGCCTAAGCTAACCTACGAAATGGACGTGCGGGCCCTCAGT
1 CTTAGACATGGAATGAACTCCGTATGCCTAAGCTAACCCACGAAATGGGCGTGCGGGCACTCAGT
* * * **
28060869 CGGTCGGAGAGGCAGAATGCACAAGTCAGGGATCGGCCCGGTCCCC-CTACGTGCTACCGATCCT
66 CGGCCGGAGAGGCA-AATGCACAAGCCGGGGATCGG-CCGGTCCCCTCTACGTGCTGTCGATCCT
* * * *
28060933 GCTACCGTAACCCTCGGTCTGATCCAAT
129 GCTGCCGCAACCCTCGGTCCGATCCGAT
28060961 CTTAGAC-TGGGAATGAACTCCGTATGC
1 CTTAGACAT-GGAATGAACTCCGTATGC
28060988 TTAGACTAGG
Statistics
Matches: 271, Mismatches: 61, Indels: 23
0.76 0.17 0.06
Matches are distributed among these distances:
156 1 0.00
157 53 0.20
158 95 0.35
159 119 0.44
160 3 0.01
ACGTcount: A:0.23, C:0.30, G:0.27, T:0.20
Consensus pattern (156 bp):
CTTAGACATGGAATGAACTCCGTATGCCTAAGCTAACCCACGAAATGGGCGTGCGGGCACTCAGT
CGGCCGGAGAGGCAAATGCACAAGCCGGGGATCGGCCGGTCCCCTCTACGTGCTGTCGATCCTGC
TGCCGCAACCCTCGGTCCGATCCGAT
Found at i:28061002 original size:26 final size:26
Alignment explanation
Indices: 28060961--28061013 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
28060951 CTGATCCAAT
28060961 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28060987 CTTAGACTAGGG-ATGAACTCCGTATG
1 CTTAGACT-GGGAATGAACTCCGTATG
28061013 C
1 C
28061014 CTAAGTCAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 23 0.88
27 3 0.12
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28061382 original size:26 final size:25
Alignment explanation
Indices: 28061341--28061392 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 25
28061331 CTGGTCCAAT
28061341 CTTAGACTAGAATGAACTCCGTATG
1 CTTAGACTAGAATGAACTCCGTATG
*
28061366 CTTAGACATGGAATGAACTCCGTATG
1 CTTAGAC-TAGAATGAACTCCGTATG
28061392 C
1 C
28061393 CTAAGGCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (25 bp):
CTTAGACTAGAATGAACTCCGTATG
Found at i:28061672 original size:21 final size:21
Alignment explanation
Indices: 28061648--28061697 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
28061638 TGTGTGCTGC
28061648 CAGTCCAGCTGCCACAACCCT
1 CAGTCCAGCTGCCACAACCCT
28061669 CAGTCCAGCTGCCACAACCCT
1 CAGTCCAGCTGCCACAACCCT
28061690 CAGTCCAG
1 CAGTCCAG
28061698 TTGGGGCTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.24, C:0.46, G:0.16, T:0.14
Consensus pattern (21 bp):
CAGTCCAGCTGCCACAACCCT
Found at i:28063531 original size:26 final size:26
Alignment explanation
Indices: 28063495--28063547 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28063485 GGCTTAAAAT
*
28063495 CTTAGACTGGGAATGAACTCTGTATG
1 CTTAGACTGGGAATGAACTCTATATG
* *
28063521 CTTAGACTGGGGATGATCTCTATATG
1 CTTAGACTGGGAATGAACTCTATATG
28063547 C
1 C
28063548 CTAAGTCAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCTATATG
Found at i:28064399 original size:26 final size:26
Alignment explanation
Indices: 28064370--28064422 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28064360 CCGGTCTGAT
* *
28064370 CTTAGATTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCATATG
*
28064396 CTTAGACTGGGGATGAACTCCATATG
1 CTTAGACTGGGAATGAACTCCATATG
28064422 C
1 C
28064423 CTAAGTCAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCATATG
Found at i:28065314 original size:26 final size:26
Alignment explanation
Indices: 28065263--28065316 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
28065253 CCCGGTCTGA
* **
28065263 GCTTAGGCTGGGAATGAACTTTGTAT
1 GCTTAGACTGGGAATGAACTCCGTAT
*
28065289 GCTTAGACTGGGGATGAACTCCGTAT
1 GCTTAGACTGGGAATGAACTCCGTAT
28065315 GC
1 GC
28065317 CTAAGTCAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (26 bp):
GCTTAGACTGGGAATGAACTCCGTAT
Found at i:28066489 original size:26 final size:26
Alignment explanation
Indices: 28066438--28066490 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
28066428 TTGATCGGAT
* * *
28066438 CTTAGACTGGGAATTAACTCCTTATG
1 CTTAGACTGGGAATGAACTACGTATG
*
28066464 CTTAGACTGGGGATGAACTACGTATG
1 CTTAGACTGGGAATGAACTACGTATG
28066490 C
1 C
28066491 CTAATGTGCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTACGTATG
Found at i:28066783 original size:26 final size:26
Alignment explanation
Indices: 28066754--28066806 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28066744 CTGGTCCGAT
28066754 CTTAGAC-TGGGAATGAACTCCGCATG
1 CTTAGACAT-GGAATGAACTCCGCATG
*
28066780 CTTAGACATGGAATGAACTCCGTATG
1 CTTAGACATGGAATGAACTCCGCATG
28066806 C
1 C
28066807 CTAAGCGAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (26 bp):
CTTAGACATGGAATGAACTCCGCATG
Found at i:28068335 original size:26 final size:26
Alignment explanation
Indices: 28068297--28068349 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
28068287 GGCTTAAAAT
28068297 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28068323 CTTAGACAT-GGAATGAACTCCGTATG
1 CTTAGAC-TGGGAATGAACTCCGTATG
28068349 C
1 C
28068350 CTAAGCCAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 25 0.96
27 1 0.04
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28069289 original size:511 final size:513
Alignment explanation
Indices: 28068322--28069436 Score: 1325
Period size: 511 Copynumber: 2.2 Consensus size: 513
28068312 AACTCCGTAT
* * * * **
28068322 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGCTTGCGGGCCCTCAA
1 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGGGCGTGCGGGTGCTCAA
* * * *
28068387 CCAGCCGGAGAGGCAGAATGCACAAACTGAGGATCGACTCGATCCCCCCCTTCGTGCTGTCGATC
66 CCAGCCAGAGAGGCAGAATGCACAAACCGAGGATCGACTCGAT-CCCCCCTACGTGCTGCCGATC
* *
28068452 CTACGACTGGTCCTACTACCGCAACCCTCAGTCCGGTCCAATCTTAGACTGGGAATGAACTCTGT
130 CTACGACTGGTCCTACTACCGCAACCCTCAGTCCAGTCCAATCTTAAACTGGGAATGAACTCTGT
* * *
28068517 ATGCTTAGACATGGAATGAACTCCGTCCGCCTAAGCCAACTAGGAAACGAGCATGCGGGCGCTCA
195 ATGCTTAGACATGGAATGAACTCCGTACGCCTAAGCCAACCAGGAAACGAGCATGCGGGCACTCA
* * * ** *
28068582 ACCGGCCGAAGAGGCAGAATGCGCAAGTCGAGGATCGGCTCGATCCCCCTACATGCTGTCAATCC
260 ACCGACCGAAGAGGCAGAATGCACAAGCCGAGGATCAACCCGATCCCCCTACATGCTGTCAATCC
* * * * **
28068647 TGCTGCCATAAGCCTCAGTCCGATCCAATCTTAGATTGGGAATGAACTTCGTGTGCCTAAGTCAA
325 TGCTACCATAACCCTCACTCCGATCCAATCTTAGATTGGGAATGAACTCCGTAAGCCTAAGTCAA
* * ** * * *
28068712 CCCACGGAACGAGCGTGCGGGCACTAAGCCGGCAGAAGAGGCATAATGCGCAAGCTGGGTATCGA
390 CCCACGAAAAGAGCGTGCAAGCACTAAGCCGACAGAAGAGGCATAATACGCAAGCAGGGTATCGA
* * * *
28068777 CCCGGTCCCCCTCTGCGTGCTACCGATCCCG-CTG-CCACAAACCTTGGTCCGACTGGG
455 CCCGATCCCCCTCTACGTGCTACCGATCCCGACCGACCACAAACCTCGGTCCGACTGGG
* *
28068834 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACAAAACGGGCGTGCGGGTGCTCAG
1 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGGGCGTGCGGGTGCTCAA
* * * * *
28068899 TC-GACTAGAGAGGTAGAATGCACAAGCCGAGGATCAGCCT-GAT-CCCCCTACGTG-TGGCCGA
66 CCAG-CCAGAGAGGCAGAATGCACAAACCGAGGATC-GACTCGATCCCCCCTACGTGCT-GCCGA
* ** * *
28068960 TCCTACTG-TTGGTCCTACTGTCGCAACCCT-TGTTCCAGTCCGATCTTAAACTGGGAATGAACT
128 TCCTAC-GACTGGTCCTACTACCGCAACCCTCAG-TCCAGTCCAATCTTAAACTGGGAATGAACT
* * *
28069023 AC-GTATGCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGG
191 -CTGTATGCTTAGACATGGAATGAACTCCGTACGCCTAAGCCAA-CCAGGAAACGAGCATGCGGG
* * *
28069087 CACTCAACCGATCGGAGAGGCAGAATGCACAAGCCGGGGATCAACCCGATCCCCCTACATGCTGT
254 CACTCAACCGACCGAAGAGGCAGAATGCACAAGCCGAGGATCAACCCGATCCCCCTACATGCTGT
* * * * ** *
28069152 CGATCCTGCTACCGTAACCCTCACTTCGGTCTGATCTTAGGTTGGGAATGAACTCCGTAAGCCTA
319 CAATCCTGCTACCATAACCCTCACTCCGATCCAATCTTAGATTGGGAATGAACTCCGTAAGCCTA
** * * *
28069217 AGTCAACCCACGAAAAGAGCGTGCAAGTGCTGAA-CCGACCGGAGAGGCATATTACGCAAGTCAG
384 AGTCAACCCACGAAAAGAGCGTGCAAGCACT-AAGCCGACAGAAGAGGCATAATACGCAAG-CAG
* * * *
28069281 GG-ATCGACCTGATCCCCCTCTACGTGCTACCGGTCCCGCAACCGCAACCACAACCCTCGGTTCG
447 GGTATCGACCCGATCCCCCTCTACGTGCTACCGATCCCG--ACCG--ACCACAAACCTCGGTCCG
*
28069345 GCTGGG
508 ACTGGG
* * *
28069351 TCTTAGACATGGAATGAACTCTCTATGCCTAAGCCAACCCATGAAACGGGCGTGCGGGTGCTCAA
1 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGGGCGTGCGGGTGCTCAA
* *
28069416 CCGGTCAGAGAGGCAGAATGC
66 CCAGCCAGAGAGGCAGAATGC
28069437 GTAAGTCGAG
Statistics
Matches: 505, Mismatches: 82, Indels: 27
0.82 0.13 0.04
Matches are distributed among these distances:
509 2 0.00
510 105 0.21
511 205 0.41
512 93 0.18
513 3 0.01
514 2 0.00
517 94 0.19
518 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.25, T:0.19
Consensus pattern (513 bp):
GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGGGCGTGCGGGTGCTCAA
CCAGCCAGAGAGGCAGAATGCACAAACCGAGGATCGACTCGATCCCCCCTACGTGCTGCCGATCC
TACGACTGGTCCTACTACCGCAACCCTCAGTCCAGTCCAATCTTAAACTGGGAATGAACTCTGTA
TGCTTAGACATGGAATGAACTCCGTACGCCTAAGCCAACCAGGAAACGAGCATGCGGGCACTCAA
CCGACCGAAGAGGCAGAATGCACAAGCCGAGGATCAACCCGATCCCCCTACATGCTGTCAATCCT
GCTACCATAACCCTCACTCCGATCCAATCTTAGATTGGGAATGAACTCCGTAAGCCTAAGTCAAC
CCACGAAAAGAGCGTGCAAGCACTAAGCCGACAGAAGAGGCATAATACGCAAGCAGGGTATCGAC
CCGATCCCCCTCTACGTGCTACCGATCCCGACCGACCACAAACCTCGGTCCGACTGGG
Found at i:28069429 original size:165 final size:157
Alignment explanation
Indices: 28069030--28069434 Score: 395
Period size: 157 Copynumber: 2.5 Consensus size: 157
28069020 ACTACGTATG
**
28069030 CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCACTCAAC
1 CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGTGCTCAAC
* * *
28069095 CGATCGGAGAGGCAGAATGCACAAGCCGGGGATCAACCCGATCCCCCTACATGCTGTCGATCCTG
66 CGATCGGAGAGGCAGAATACACAAGCCAGGGATCAACCCGATCCCCCTACATGCTGTCGAACCTG
* **
28069160 CTACCGTAACCCTCACTTCGGTCTGAT
131 CAACCACAACCCTCACTTCGGTCTGAT
** * * * * ** *
28069187 CTTAG-GTTGGGAATGAACTCCGTAAGCCTAAGTCAACCCACGAAAAGAGCGTGCAAGTGCTGAA
1 CTTAGACAT-GGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGTGCTCAA
* * * * * * * *
28069251 CCGACCGGAGAGGCATATTACGCAAGTCAGGGATCGACCTGATCCCCCTCTACGTGCTACCGGTC
65 CCGATCGGAGAGGCAGAATACACAAGCCAGGGATCAACCCGAT-CCCC-CTACATGCT----GT-
** *
28069316 CCGCAACC-GCAACCACAACCCTCGGTTCGG-CTGGGT
123 -CG-AACCTGCAACCACAACCCTCACTTCGGTCT-GAT
*
28069352 CTTAGACATGGAATGAACTCTC-TATGCCTAAGCCAACCCATGAAACGGGCGTGCGGGTGCTCAA
1 CTTAGACATGGAATGAACTC-CGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGTGCTCAA
* *
28069416 CCGGTCAGAGAGGCAGAAT
65 CCGATCGGAGAGGCAGAAT
28069435 GCGTAAGTCG
Statistics
Matches: 192, Mismatches: 43, Indels: 18
0.76 0.17 0.07
Matches are distributed among these distances:
156 1 0.01
157 85 0.44
158 4 0.02
159 8 0.04
163 2 0.01
164 2 0.01
165 85 0.44
166 5 0.03
ACGTcount: A:0.26, C:0.30, G:0.25, T:0.18
Consensus pattern (157 bp):
CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGTGCTCAAC
CGATCGGAGAGGCAGAATACACAAGCCAGGGATCAACCCGATCCCCCTACATGCTGTCGAACCTG
CAACCACAACCCTCACTTCGGTCTGAT
Found at i:28069464 original size:165 final size:158
Alignment explanation
Indices: 28069030--28069481 Score: 400
Period size: 165 Copynumber: 2.8 Consensus size: 158
28069020 ACTACGTATG
**
28069030 CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCACTCAAC
1 CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGTGCTCAAC
* * * * *
28069095 CGATCGGAGAGGCAGAATGCACAAGCCGGGGATCAACCCGAT-CCCC-CTACATGCTGTCGATCC
66 CGATCGGAGAGGCAGAATGCGCAAGTCGAGGATC-GCCCGATCCCCCTCTACATGCTGTCGAACC
* **
28069158 TGCTACCGTAACCCTCACTTCGGTCTGAT
130 TGCAACCACAACCCTCACTTCGGTCTGAT
** * * * * ** *
28069187 CTTAG-GTTGGGAATGAACTCCGTAAGCCTAAGTCAACCCACGAAAAGAGCGTGCAAGTGCTGAA
1 CTTAGACAT-GGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGTGCTCAA
* * * * * *
28069251 CCGACCGGAGAGGCATATTACGCAAGTC-AGGGATCGACCTGATCCCCCTCTACGTGCTACCGGT
65 CCGATCGGAGAGGCAGAATGCGCAAGTCGA-GGATCG-CCCGATCCCCCTCTACATGCT----GT
** *
28069315 CCCGCAACC-GCAACCACAACCCTCGGTTCGG-CTGGGT
124 --CG-AACCTGCAACCACAACCCTCACTTCGGTCT-GAT
*
28069352 CTTAGACATGGAATGAACTCTC-TATGCCTAAGCCAACCCATGAAACGGGCGTGCGGGTGCTCAA
1 CTTAGACATGGAATGAACTC-CGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGTGCTCAA
* * * *
28069416 CCGGTCAGAGAGGCAGAATGCGTAAGTCGAGGATCGGCCC-AGTCCCCCT-TGCATGCTGTCGTA
65 CCGATCGGAGAGGCAGAATGCGCAAGTCGAGGATC-GCCCGA-TCCCCCTCTACATGCTGTCG-A
28069479 ACC
127 ACC
28069482 CTCGGTTCGG
Statistics
Matches: 228, Mismatches: 49, Indels: 35
0.73 0.16 0.11
Matches are distributed among these distances:
156 1 0.00
157 83 0.36
158 10 0.04
159 8 0.04
160 2 0.01
163 2 0.01
164 9 0.04
165 106 0.46
166 7 0.03
ACGTcount: A:0.25, C:0.31, G:0.26, T:0.18
Consensus pattern (158 bp):
CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGTGCTCAAC
CGATCGGAGAGGCAGAATGCGCAAGTCGAGGATCGCCCGATCCCCCTCTACATGCTGTCGAACCT
GCAACCACAACCCTCACTTCGGTCTGAT
Found at i:28069539 original size:26 final size:26
Alignment explanation
Indices: 28069498--28069550 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28069488 TCGGTCTGAT
28069498 CTTAGACTGGGAATGAACTCCATATG
1 CTTAGACTGGGAATGAACTCCATATG
*
28069524 CTTAGACTGAGG-ATGAACTCCGTATG
1 CTTAGACTG-GGAATGAACTCCATATG
28069550 C
1 C
28069551 CTAAGTCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 23 0.92
27 2 0.08
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCATATG
Found at i:28070106 original size:26 final size:26
Alignment explanation
Indices: 28070063--28070113 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
28070053 CTGGTCTGAT
*
28070063 CTTAGACTGGGAAAGAACTTTGTATC
1 CTTAGACTGGGAAAGAACTCTGTATC
*
28070089 CTTAGACTGTGG-ATGAACTCTGTAT
1 CTTAGACTG-GGAAAGAACTCTGTAT
28070114 GCCTAAGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (26 bp):
CTTAGACTGGGAAAGAACTCTGTATC
Found at i:28070469 original size:26 final size:26
Alignment explanation
Indices: 28070417--28070469 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
28070407 CTGGTCCAAT
*
28070417 CTTAGACTGGGAATGAACTTCGCATG
1 CTTAGACTGGGAATGAACTCCGCATG
* * *
28070443 CTTAGATTGGGGATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGCATG
28070469 C
1 C
28070470 CTAAGTCAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGCATG
Found at i:28071055 original size:26 final size:26
Alignment explanation
Indices: 28071017--28071069 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28071007 GGCTCAAAAT
*
28071017 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCATATG
28071043 CTTAGACAT-GGAATGAACTCCATATG
1 CTTAGAC-TGGGAATGAACTCCATATG
28071069 C
1 C
28071070 CTAAGCCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCATATG
Found at i:28071337 original size:159 final size:159
Alignment explanation
Indices: 28071043--28071344 Score: 335
Period size: 159 Copynumber: 1.9 Consensus size: 159
28071033 ACTCCGTATG
* *
28071043 CTTAGACATGGAATGAACTCCATATGCCTAAGCCAACCCATGAAATGAGCATGCGAGCGCTTAGC
1 CTTAGACATGGAATGAACTCCATACGCCTAAGCCAACCCACGAAATGAGCATGCGAGCGCTTAGC
* * * * * **
28071108 CGATCAGAGAGATACAATGCGCAAGCCGGGGATCAGCCTGATTCCCTCCTGTGTGCTGTCGATCC
66 CGATCAGAGAGACACAATGCGCAAGCCAGGGATCAACCCGATTCCCTCCTCTGTGCTACCGATCC
* *
28071173 TGCTACCGCAACCCTCAGACTGGTCCGAT
131 CGCTACCACAACCCTCAGACTGGTCCGAT
** * * * *
28071202 CTTAGAC-TGGGAATGAACTCTGTACGCCTAAGTCAACCCACGAAATGAGCGTGCGGGTG-TTGA
1 CTTAGACAT-GGAATGAACTCCATACGCCTAAGCCAACCCACGAAATGAGCATGCGAGCGCTT-A
* * * *
28071265 GCCGGTCAGAGAGGCATAATGCGCAAGCTAGGGATCAACCCGA-TCCC-CCTCTACGTGCTACC-
64 GCCGATCAGAGAGACACAATGCGCAAGCCAGGGATCAACCCGATTCCCTCCTCT--GTGCTACCG
28071327 AGTCCCGCTACCACAACC
127 A-TCCCGCTACCACAACC
28071345 ATGGGTCAAA
Statistics
Matches: 117, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
157 4 0.03
158 8 0.07
159 105 0.90
ACGTcount: A:0.26, C:0.30, G:0.25, T:0.20
Consensus pattern (159 bp):
CTTAGACATGGAATGAACTCCATACGCCTAAGCCAACCCACGAAATGAGCATGCGAGCGCTTAGC
CGATCAGAGAGACACAATGCGCAAGCCAGGGATCAACCCGATTCCCTCCTCTGTGCTACCGATCC
CGCTACCACAACCCTCAGACTGGTCCGAT
Found at i:28071914 original size:26 final size:26
Alignment explanation
Indices: 28071871--28071921 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
28071861 CTGGTCTGAT
*
28071871 CTTAGACTGGGAAAGAACTTTGTATC
1 CTTAGACTGGGAAAGAACTCTGTATC
*
28071897 CTTAGACTGTGG-ATGAACTCTGTAT
1 CTTAGACTG-GGAAAGAACTCTGTAT
28071922 GCCTAAGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (26 bp):
CTTAGACTGGGAAAGAACTCTGTATC
Found at i:28072277 original size:26 final size:26
Alignment explanation
Indices: 28072225--28072277 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
28072215 CTGGTCCAAT
*
28072225 CTTAGACTGGGAATGAACTTCGCATG
1 CTTAGACTGGGAATGAACTCCGCATG
* * *
28072251 CTTAGATTGGGGATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGCATG
28072277 C
1 C
28072278 CTAAGTCAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGCATG
Found at i:28072863 original size:26 final size:26
Alignment explanation
Indices: 28072825--28072877 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28072815 GGCTCAAAAT
*
28072825 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCATATG
28072851 CTTAGACAT-GGAATGAACTCCATATG
1 CTTAGAC-TGGGAATGAACTCCATATG
28072877 C
1 C
28072878 CTAAGCCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCATATG
Found at i:28073145 original size:159 final size:159
Alignment explanation
Indices: 28072851--28073152 Score: 335
Period size: 159 Copynumber: 1.9 Consensus size: 159
28072841 ACTCCGTATG
* *
28072851 CTTAGACATGGAATGAACTCCATATGCCTAAGCCAACCCATGAAATGAGCATGCGAGCGCTTAGC
1 CTTAGACATGGAATGAACTCCATACGCCTAAGCCAACCCACGAAATGAGCATGCGAGCGCTTAGC
* * * * * **
28072916 CGATCAGAGAGATACAATGCGCAAGCCGGGGATCAGCCTGATTCCCTCCTGTGTGCTGTCGATCC
66 CGATCAGAGAGACACAATGCGCAAGCCAGGGATCAACCCGATTCCCTCCTCTGTGCTACCGATCC
* *
28072981 TGCTACCGCAACCCTCAGACTGGTCCGAT
131 CGCTACCACAACCCTCAGACTGGTCCGAT
** * * * *
28073010 CTTAGAC-TGGGAATGAACTCTGTACGCCTAAGTCAACCCACGAAATGAGCGTGCGGGTG-TTGA
1 CTTAGACAT-GGAATGAACTCCATACGCCTAAGCCAACCCACGAAATGAGCATGCGAGCGCTT-A
* * * *
28073073 GCCGGTCAGAGAGGCATAATGCGCAAGCTAGGGATCAACCCGA-TCCC-CCTCTACGTGCTACC-
64 GCCGATCAGAGAGACACAATGCGCAAGCCAGGGATCAACCCGATTCCCTCCTCT--GTGCTACCG
28073135 AGTCCCGCTACCACAACC
127 A-TCCCGCTACCACAACC
28073153 ATGGGTCAAA
Statistics
Matches: 117, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
157 4 0.03
158 8 0.07
159 105 0.90
ACGTcount: A:0.26, C:0.30, G:0.25, T:0.20
Consensus pattern (159 bp):
CTTAGACATGGAATGAACTCCATACGCCTAAGCCAACCCACGAAATGAGCATGCGAGCGCTTAGC
CGATCAGAGAGACACAATGCGCAAGCCAGGGATCAACCCGATTCCCTCCTCTGTGCTACCGATCC
CGCTACCACAACCCTCAGACTGGTCCGAT
Found at i:28073377 original size:26 final size:25
Alignment explanation
Indices: 28073329--28073378 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
28073319 GTTTTGATCC
*
28073329 TAGACTGGGAATGAACTCGTATGCT
1 TAGACTGGGAATGAACTCCTATGCT
*
28073354 TAGACTGGGGATGAACTCCCTATGC
1 TAGACTGGGAATGAACT-CCTATGC
28073379 CTAAGTCAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (25 bp):
TAGACTGGGAATGAACTCCTATGCT
Found at i:28074540 original size:26 final size:26
Alignment explanation
Indices: 28074504--28074556 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
28074494 CCGATCCAAT
*
28074504 CTTAGACTGGGAATGAACTCTGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
*
28074530 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28074556 C
1 C
28074557 CTAAGTCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28074921 original size:26 final size:26
Alignment explanation
Indices: 28074882--28074933 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28074872 TCCGGTCCGA
*
28074882 TCTTAGACTGGGAATGAACTCTGTAT
1 TCTTAGACTGGGAATGAACTCCGTAT
28074908 TCTTAGACAT-GGAATGAACTCCGTAT
1 TCTTAGAC-TGGGAATGAACTCCGTAT
28074934 GCCTAAACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 23 0.96
27 1 0.04
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (26 bp):
TCTTAGACTGGGAATGAACTCCGTAT
Found at i:28075256 original size:159 final size:158
Alignment explanation
Indices: 28074909--28075446 Score: 448
Period size: 158 Copynumber: 3.4 Consensus size: 158
28074899 ACTCTGTATT
* *
28074909 CTTAGACATGGAATGAACTCCGTATGCCTAAACCAACCCACGAAATGAGCATGCGAGCGTTCAGC
1 CTTAGACATGGAATGAACTCCGTATGCCTAAACCAACCCACGAAACGAGCATGCGAGCGATCAGC
* * * *
28074974 TAACCAGAGAGGCAGAATGTGCAAGCCGGGGATCAGCCCGGTCCCCCCTGCGTGCTATCGATCCT
66 CAACCAAAGAGGCAGAATGTGCAAGCCGAGGATCAGCCCGGTCCCCCCTGCGTGCTATCGATCCC
** *
28075039 ACTACCGTAACCCTCGATCCCATCTGAT
131 ACTACCACAACCCTCGATCCCATCTGAG
* * * *
28075067 CTTAGAC-TAGGAATGAACTCCGTATGCCTAAATCAACCCACGAAGCGAG-AGTGCGGGCGATGA
1 CTTAGACAT-GGAATGAACTCCGTATGCCTAAACCAACCCACGAAACGAGCA-TGCGAGCGATCA
* * *
28075130 GCCAACCAAAGAGGCATAATGTGCAAGCCGAGGATCAGCCCGGTCCCCTTCTGCGTGCTGTCGAT
64 GCCAACCAAAGAGGCAGAATGTGCAAGCCGAGGATCAGCCCGGTCCCC-CCTGCGTGCTATCGAT
* * * *
28075195 CCCGCTACCACAACCCTCGGTCCGA-CTGGGG
128 CCCACTACCACAACCCTCGATCCCATCT-GAG
** * * * * * *
28075226 CTTAGACATTTAATGAACTCCCTATGCCTAAGCCAACCCACAAAACGGGCGTGCG-GGGACTCAG
1 CTTAGACATGGAATGAACTCCGTATGCCTAAACCAACCCACGAAACGAGCATGCGAGCGA-TCAG
** * * * * * * *
28075290 -CTGCCAGAA-AGGTATAATGCGTAAGCCGGGGATC-GACCCGATCTCCCCTGCGTGCTATCGAT
65 CCAACCA-AAGAGGCAGAATGTGCAAGCCGAGGATCAG-CCCGGTCCCCCCTGCGTGCTATCGAT
** * ** *
28075352 CCTGCTGCTGCAACCCTCGAT-CCAGT-TCGAT
128 CCCACTACCACAACCCTCGATCCCA-TCT-GAG
* * * ** * * * *
28075383 CTTAAAC-TGGGGATGAACTCTGTATGCCTAAGTCAACCCACGGAACGAGCGTGCGGGCGCTCAG
1 CTTAGACAT-GGAATGAACTCCGTATGCCTAAACCAACCCACGAAACGAGCATGCGAGCGATCAG
28075447 TCGACCAGCG
Statistics
Matches: 305, Mismatches: 62, Indels: 27
0.77 0.16 0.07
Matches are distributed among these distances:
156 3 0.01
157 82 0.27
158 137 0.45
159 82 0.27
160 1 0.00
ACGTcount: A:0.25, C:0.31, G:0.25, T:0.19
Consensus pattern (158 bp):
CTTAGACATGGAATGAACTCCGTATGCCTAAACCAACCCACGAAACGAGCATGCGAGCGATCAGC
CAACCAAAGAGGCAGAATGTGCAAGCCGAGGATCAGCCCGGTCCCCCCTGCGTGCTATCGATCCC
ACTACCACAACCCTCGATCCCATCTGAG
Found at i:28076117 original size:26 final size:26
Alignment explanation
Indices: 28076079--28076131 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28076069 GGCTCAAAAT
28076079 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
*
28076105 CTTAGACAT-GGAATGAACTTCGTATG
1 CTTAGAC-TGGGAATGAACTCCGTATG
28076131 C
1 C
28076132 CTAAGCTAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28076458 original size:26 final size:26
Alignment explanation
Indices: 28076422--28076474 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
28076412 CCGGTTTGAT
28076422 CTTAGACTGGGAATGAAC-TCTGTATG
1 CTTAGACTGGGAATGAACTTC-GTATG
* *
28076448 CTTAGATTGGGGATGAACTTCGTATG
1 CTTAGACTGGGAATGAACTTCGTATG
28076474 C
1 C
28076475 CTAAGTCAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 22 0.92
27 2 0.08
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTTCGTATG
Found at i:28077123 original size:26 final size:26
Alignment explanation
Indices: 28077087--28077139 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28077077 CTGATCTGAT
28077087 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
* * *
28077113 CTTAGATTGGGGATGAACTTCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28077139 C
1 C
28077140 CTAAGTCAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28077582 original size:368 final size:343
Alignment explanation
Indices: 28076772--28077584 Score: 768
Period size: 368 Copynumber: 2.3 Consensus size: 343
28076762 CAGTCTGATC
* * *
28076772 TAGACTGGGAATGAACTCCGTATGCCTAAGTCAACCCATGAAACGAGCGTGCGGGCACTGAGCCG
1 TAGAATGGGAATGAACTCCGTATGCCTAAGTCAACCCATGAAACGAGCGTGCGGGCGCTCAGCCG
* * * * * * *
28076837 ATCGGAGAGGCATAATACGTAAACCAAGGATCGGCCCGATCCCTTTTTGCGTGCTATTGGTCCTG
66 GTCGGAGAGGCATAATGCGTAAGCCAAGGATCAGCACGATCCCTTTTTGCGTGCTATCGGTCCTA
* * * * * *
28076902 CTGCCACAACCCTCAGTTCGGCTGGGGTTTAGACATGGACTGAACTCCCTATGCCTAAGCCAACC
131 CTACCACAACCCTCAGTCCGACTGGGGCTTAGACATGGAATGAACACCCTATGCCTAAGCCAACC
* *
28076967 CACAAAACAAACTTGCGGGTGCTCAGCCGACCGGAGAGGTAGAATGCTCAAGCTGGGGATCAGCC
196 CACAAAACAAACGTGCGGGCGCTCAGCCGACCGGAGAGGTAGAATGCTCAAGCTGGGGATCAGCC
* * *
28077032 CAGTACCCCCTGCTTGCTGCCAATCCTGCTATCGCAAAACTCGATCTGATCTGATCTTAGACTGG
261 CAGTACCCCCTGCATGCTGCCAATCCTGCTATCGCAAAACTCGATCTGATCAGATCTTAAACTGG
28077097 GAATGAACTCCGTATGCT
326 GAATGAACTCCGTATGCT
* * * * * * * *
28077115 TAGATTGGGGATGAACTTCGTATGCCTAAGTCAACCCATAAAACAAGCATGTGGGTGCTCAGCCG
1 TAGAATGGGAATGAACTCCGTATGCCTAAGTCAACCCATGAAACGAGCGTGCGGGCGCTCA---G
* *
28077180 ACCGGAGAGGCTGGCCTGAGAGGCATAATGCGTAAGCCGAGGATCAGCACGATCCCCCTTTACGT
63 -CC-----GG-T---CGGAGAGGCATAATGCGTAAGCCAAGGATCAGCACGAT--CCC-TT---T
* * **
28077245 GTTGTTGATCCCGCTGTCGGTCCTACTACCACAACCCTTGGTCCGACTGGGGCTTAGACATGGAA
112 -TTG-CG-T---GCTATCGGTCCTACTACCACAACCCTCAGTCCGACTGGGGCTTAGACATGGAA
* * * * * * * *
28077310 TGAACACCGTATGCCTAAGCTAACCCACGAAACGAGCGTGCGGGCGCTCGGTCGATCGGAGAGGT
171 TGAACACCCTATGCCTAAGCCAACCCACAAAACAAACGTGCGGGCGCTCAGCCGACCGGAGAGGT
* * *
28077375 AGAATGCGT-AAGCTGGGGATCAGCCCGGT-CCCCCTCCGCATGCTGTCGATCCTGCTGCTTGTC
236 AGAATGC-TCAAGCTGGGGATCAGCCCAGTACCCCCT--GCATGCTGCCAAT-C--CTGC---T-
* * *
28077438 CTACTGCCACAACCCTCGGTCTGATCAGATCTTAAACTGGGAATGAACTCCGTATGCT
291 AT-C-G-CA-AA-ACTCGATCTGATCAGATCTTAAACTGGGAATGAACTCCGTATGCT
* *
28077496 TAGACAT-GGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAGCC
1 TAGA-ATGGGAATGAACTCCGTATGCCTAAGTCAACCCATGAAACGAGCGTGCGGGCGCTCAGCC
*
28077560 GGTCGGAGAGGCAGAATGCGTAAGC
65 GGTCGGAGAGGCATAATGCGTAAGC
28077585 TGGGGATTGA
Statistics
Matches: 369, Mismatches: 60, Indels: 57
0.76 0.12 0.12
Matches are distributed among these distances:
343 51 0.14
346 1 0.00
347 2 0.01
352 1 0.00
353 1 0.00
356 32 0.09
358 3 0.01
359 2 0.01
362 1 0.00
363 3 0.01
364 1 0.00
365 1 0.00
367 6 0.02
368 143 0.39
369 11 0.03
370 1 0.00
371 1 0.00
372 6 0.02
375 1 0.00
376 1 0.00
377 3 0.01
378 2 0.01
379 2 0.01
380 2 0.01
381 90 0.24
382 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.27, T:0.21
Consensus pattern (343 bp):
TAGAATGGGAATGAACTCCGTATGCCTAAGTCAACCCATGAAACGAGCGTGCGGGCGCTCAGCCG
GTCGGAGAGGCATAATGCGTAAGCCAAGGATCAGCACGATCCCTTTTTGCGTGCTATCGGTCCTA
CTACCACAACCCTCAGTCCGACTGGGGCTTAGACATGGAATGAACACCCTATGCCTAAGCCAACC
CACAAAACAAACGTGCGGGCGCTCAGCCGACCGGAGAGGTAGAATGCTCAAGCTGGGGATCAGCC
CAGTACCCCCTGCATGCTGCCAATCCTGCTATCGCAAAACTCGATCTGATCAGATCTTAAACTGG
GAATGAACTCCGTATGCT
Found at i:28077930 original size:157 final size:157
Alignment explanation
Indices: 28077493--28077950 Score: 409
Period size: 158 Copynumber: 2.9 Consensus size: 157
28077483 AACTCCGTAT
* *
28077493 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCTAACCCATGAAACGAGCGTGCGGGCGCTCAG
* * * * * *
28077558 CCGGTCGGAGAGGCAGAATGCGTAAGCTGGGGATTGACCCGGTCCCCCCTGTGTGCTATCGATCC
66 CCGGCCGGAGAGGCAGAATGCGTAAGC-CGGGATTGGCCCGAT-CCCCCTGCGTGCTGTCGATCC
* * *
28077623 TGCT-ACTGCAACCCTTGGTCCATTTCAA
129 TGCTGACAGCAACCCTTCGTCCATCTCAA
* * * * *
28077651 TCTTAGA-ATGGGAATGAACTCTGTATGCCTAAG-TCAACCCATGAAATGAGCGTGCGGGCACTG
1 GCTTAGACAT-GGAATGAACTCCGTATGCCTAAGCT-AACCCATGAAACGAGCGTGCGGGCGCTC
* * * * * *
28077714 AGCCGACC-GAGAGGCATAATGCGCAAACCAGGCATTAGCCC-AGTCCCCCT-CTAGGTGCTGTC
64 AGCCGGCCGGAGAGGCAGAATGCGTAAGCC-GGGATTGGCCCGA-TCCCCCTGC---GTGCTGTC
* * * * ***
28077776 GGTCCCGCTGCCAG-AACCC-TCGTCTGA-CTGGG
124 GATCCTGCTGACAGCAACCCTTCGTC-CATCTCAA
* * *
28077808 GCTTAGACATGGAATGAACTCCCTATG-CTAAGCTAACCCATGAAAC-AGGCGTGCGGGTGTTCA
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCTAACCCATGAAACGA-GCGTGCGGGCGCTCA
28077871 GGCCGGCCGGAGAGGCAGAATGCGTAAGCCGGTGATTGGCCCGATCCCCCTGCGTTGCTGTCGAT
65 -GCCGGCCGGAGAGGCAGAATGCGTAAGCCGG-GATTGGCCCGATCCCCCTGCG-TGCTGTCGAT
*
28077936 CCTGCTGTC-GCAACC
127 CCTGCTGACAGCAACC
28077951 TTTGGTCTGA
Statistics
Matches: 235, Mismatches: 46, Indels: 39
0.73 0.14 0.12
Matches are distributed among these distances:
155 1 0.00
156 35 0.15
157 83 0.35
158 112 0.48
159 4 0.02
ACGTcount: A:0.22, C:0.29, G:0.28, T:0.20
Consensus pattern (157 bp):
GCTTAGACATGGAATGAACTCCGTATGCCTAAGCTAACCCATGAAACGAGCGTGCGGGCGCTCAG
CCGGCCGGAGAGGCAGAATGCGTAAGCCGGGATTGGCCCGATCCCCCTGCGTGCTGTCGATCCTG
CTGACAGCAACCCTTCGTCCATCTCAA
Found at i:28079989 original size:26 final size:26
Alignment explanation
Indices: 28079953--28080005 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
28079943 GTTGACTTAG
28079953 GCATACGGAGTTCATCCCCAGTCTAA
1 GCATACGGAGTTCATCCCCAGTCTAA
*
28079979 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATCCCCAGTCTAA
28080005 G
1 G
28080006 ATCGGATCAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (26 bp):
GCATACGGAGTTCATCCCCAGTCTAA
Found at i:28080361 original size:159 final size:156
Alignment explanation
Indices: 28079979--28080362 Score: 389
Period size: 159 Copynumber: 2.4 Consensus size: 156
28079969 CCCAGTCTAA
* ** * **
28079979 GCATACGGAGTTCATTCCCAGTCTAAGATCGGATCAGACCGAGGGTTGCAGCAGCAGGATCGACA
1 GCATACGGAGTTCATTCCCAGTCTAAGATCGGACCAGA-CGAGGGTTGTGGTAGCAGGATCGGTA
* *** * *
28080044 GCACGTAGAGGGATCGGGCCGATCCCTGGCTTGCGCATTCTACCTCTCCGACTGGTCGAGCACCC
65 GCACGTAGAGGGATCAGGCCGATCCCCAACTTGCACATTATACCTCTCCGACTGGTCGAGCACCC
* *
28080109 GTACGCCCGTTTCATGGGTTGCCTTAG
130 GTACGCCCATTTCATGGGTTGACTTAG
* ** * * * *
28080136 GCATACGGAGTTCATT-CCATGTCTAAG-CCCCAGCCAGATCAAGGGTTGTGGTAG-TGAGACCT
1 GCATACGGAGTTCATTCCCA-GTCTAAGATCGGA-CCAGA-CGAGGGTTGTGGTAGCAG-GATCG
* * *
28080198 GTAGCACGTAGAAGGGGATCAGGCTGATCCCCAACTTGTACATTATGCCTCTCCGACTGGCTC-A
62 GTAGCACGTAG-A-GGGATCAGGCCGATCCCCAACTTGCACATTATACCTCTCCGACTGG-TCGA
* * * *
28080262 GCGCTCGTACGCTCATTTTATGGGTTGACTTAG
124 GCACCCGTACGCCCATTTCATGGGTTGACTTAG
* *
28080295 GCATACGGAGTTCATTCCCAGTCTATGATCGGACCAGACGGAGGGTTGTGGTAGCAGGTTCGGTA
1 GCATACGGAGTTCATTCCCAGTCTAAGATCGGACCAGAC-GAGGGTTGTGGTAGCAGGATCGGTA
28080360 GCA
65 GCA
28080363 TGCAGGGGGG
Statistics
Matches: 179, Mismatches: 38, Indels: 18
0.76 0.16 0.08
Matches are distributed among these distances:
156 6 0.03
157 50 0.28
158 2 0.01
159 113 0.63
160 8 0.04
ACGTcount: A:0.21, C:0.26, G:0.29, T:0.24
Consensus pattern (156 bp):
GCATACGGAGTTCATTCCCAGTCTAAGATCGGACCAGACGAGGGTTGTGGTAGCAGGATCGGTAG
CACGTAGAGGGATCAGGCCGATCCCCAACTTGCACATTATACCTCTCCGACTGGTCGAGCACCCG
TACGCCCATTTCATGGGTTGACTTAG
Found at i:28080484 original size:26 final size:26
Alignment explanation
Indices: 28080454--28080506 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28080444 TTAGCTTAGG
*
28080454 GCATACGGAGTTCATT-CCATGTCTAA
1 GCATAAGGAGTTCATTCCCA-GTCTAA
28080480 GCATAAGGAGTTCATTCCCAGTCTAA
1 GCATAAGGAGTTCATTCCCAGTCTAA
28080506 G
1 G
28080507 ACCAGCAGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (26 bp):
GCATAAGGAGTTCATTCCCAGTCTAA
Found at i:28080645 original size:27 final size:27
Alignment explanation
Indices: 28080615--28080672 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
28080605 CATGGGTTAG
28080615 CTGAGGCATACAGAGTTCATT-CCATGT
1 CTGAGGCATACAGAGTTCATTCCCA-GT
**
28080642 CTGA-GCATATGGAGTTCATTCCCAGT
1 CTGAGGCATACAGAGTTCATTCCCAGT
28080668 CTGAG
1 CTGAG
28080673 ATCGGATCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 20 0.74
27 7 0.26
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.29
Consensus pattern (27 bp):
CTGAGGCATACAGAGTTCATTCCCAGT
Found at i:28081330 original size:159 final size:159
Alignment explanation
Indices: 28081040--28081450 Score: 412
Period size: 159 Copynumber: 2.6 Consensus size: 159
28081030 CCAATCCTCG
* * ** * * *** *
28081040 ACTTGTGCATTCTACGTCTCCGACTGGCTGAGCGCCCGCATGGTTGTTTCATGGGTTGGCTTAGG
1 ACTTGCGCATTCTACCTCTCCGACCAGCTCAGCGCCCGAACACTCGTTTCATGGGTTGGCTTAGG
* * * * * *
28081105 CATAGGGAGTTCATTCCATGTCTAAGCCCCAGCCGGATCGAGGGTTGTGGTAGCAGGACCGGCAG
66 CATACGGAGTTCATTCCATGTCTAAGCACCAGACGGAACGAGGGTTGTGGCAGCAGGACCGACAG
* * **
28081170 CATGCAGAAGGGGATCGGGTCGATCCCTG
131 CACGCAGAAGGGGATCGGGACGATCCCCA
* * * * * **
28081199 ACTTGCGCATTTTGCCTCTCCGATCGGCTCAGCGCCCGAACACTCGTTTCGTGGGTTCACTTAGG
1 ACTTGCGCATTCTACCTCTCCGACCAGCTCAGCGCCCGAACACTCGTTTCATGGGTTGGCTTAGG
* * * **
28081264 CATACGGAGTTCATTCCCA-GTCTAAG-ATCAGACTGAACTGAGGGTTGTGGCAGTAGGATTGAC
66 CATACGGAGTTCATT-CCATGTCTAAGCACCAGACGGAAC-GAGGGTTGTGGCAGCAGGACCGAC
** *
28081327 AGCACGCAGTGGGGGATCGGGACGGTCCCCA
129 AGCACGCAGAAGGGGATCGGGACGATCCCCA
* * * * * *
28081358 ACTTGTGCATTCTACCTCTCCGGCCAGCTGAGCGCCCGCACACTCGTTTCATTGGTTGGCTTAAG
1 ACTTGCGCATTCTACCTCTCCGACCAGCTCAGCGCCCGAACACTCGTTTCATGGGTTGGCTTAGG
*
28081423 CGTACGGAGTTCATTCCATGTCTAAGCA
66 CATACGGAGTTCATTCCATGTCTAAGCA
28081451 TTCGGAGTTC
Statistics
Matches: 201, Mismatches: 47, Indels: 7
0.79 0.18 0.03
Matches are distributed among these distances:
158 10 0.05
159 187 0.93
160 4 0.02
ACGTcount: A:0.19, C:0.27, G:0.29, T:0.25
Consensus pattern (159 bp):
ACTTGCGCATTCTACCTCTCCGACCAGCTCAGCGCCCGAACACTCGTTTCATGGGTTGGCTTAGG
CATACGGAGTTCATTCCATGTCTAAGCACCAGACGGAACGAGGGTTGTGGCAGCAGGACCGACAG
CACGCAGAAGGGGATCGGGACGATCCCCA
Found at i:28081474 original size:26 final size:26
Alignment explanation
Indices: 28081418--28081474 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
28081408 ATTGGTTGGC
*
28081418 TTAAGCGTACGGAGTTCATTCCATGT
1 TTAAGCATACGGAGTTCATTCCATGT
* *
28081444 CTAAGCATTCGGAGTTCATTCC-TAGT
1 TTAAGCATACGGAGTTCATTCCAT-GT
28081470 TTAAG
1 TTAAG
28081475 ATTGGACGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (26 bp):
TTAAGCATACGGAGTTCATTCCATGT
Found at i:28081803 original size:26 final size:26
Alignment explanation
Indices: 28081774--28081826 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
28081764 GTTGGCTTAG
28081774 GCATACGGAGTTCATT-CCATGTCTAA
1 GCATACGGAGTTCATTCCCA-GTCTAA
28081800 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
28081826 G
1 G
28081827 ATCAGATCAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 23 0.88
27 3 0.12
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAGTCTAA
Found at i:28082187 original size:26 final size:26
Alignment explanation
Indices: 28082156--28082206 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
28082146 TGACTTAGGC
28082156 ATATGGAGTTCATCCCCAGTATAAGT
1 ATATGGAGTTCATCCCCAGTATAAGT
* *
28082182 ATATGGAGTTCATTCCCAGTCTAAG
1 ATATGGAGTTCATCCCCAGTATAAG
28082207 ATCGGATCAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (26 bp):
ATATGGAGTTCATCCCCAGTATAAGT
Found at i:28086971 original size:159 final size:158
Alignment explanation
Indices: 28086692--28087087 Score: 393
Period size: 159 Copynumber: 2.5 Consensus size: 158
28086682 TTCTGTATTC
* * *
28086692 TGCCTCTCCGATCGGCTGAGCGCCCGCACGCCCATTTCGTGGGTTGGCTTAGGCATAGGGAGTTC
1 TGCCTCTCCGATCGGCTGAGCACCCGCACGCTCATTTCGTGGGTTGGCTTAGGCATACGGAGTTC
* * * * * * **
28086757 ATT-CCATGTCTAAGCCCTAGTCAGACTGAGGGTTGTGGTAGCGGGACTGGCAGCACGTAGAGGG
66 ATTCCCA-GTCTAAGCCCGAGTCAGACCGAGGGTTGCGGCAGCAGGACTGACAGCACACAG-GGG
* *
28086821 GGACTGAACCGATCCCCTGCTTGCGCATTA
129 GGACTGAACCGATCCCCGGCTTACGCATTA
* * *
28086851 TGCCTCTCCGATCGGCTCAACACCCGCACGCTCATTTCATGGGTTGGCTTAGGCATACGGAGTTC
1 TGCCTCTCCGATCGGCTGAGCACCCGCACGCTCATTTCGTGGGTTGGCTTAGGCATACGGAGTTC
** * *
28086916 ATTCCCAGTCTAAGATCG-GATCGGACCGAGGGTTGCGGCAGCAGGA-TCGATAGCACACAGGGG
66 ATTCCCAGTCTAAGCCCGAG-TCAGACCGAGGGTTGCGGCAGCAGGACT-GACAGCACACAGGGG
* ** * * * *
28086979 GGATTGCGCTGGTCCTCGGCTTACGCATTC
129 GGACTGAACCGATCCCCGGCTTACGCATTA
* * ** * * ** *
28087009 TACCTCTCCAATCGATTGAGCACCCGTACGCTCGTTTCGTGGGTTGGCTTAACCATACAGAGTTC
1 TGCCTCTCCGATCGGCTGAGCACCCGCACGCTCATTTCGTGGGTTGGCTTAGGCATACGGAGTTC
**
28087074 ATTCCTTGTCTAAG
66 ATTCCCAGTCTAAG
28087088 GATACGAAGT
Statistics
Matches: 193, Mismatches: 41, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
158 91 0.47
159 99 0.51
160 3 0.02
ACGTcount: A:0.19, C:0.28, G:0.29, T:0.25
Consensus pattern (158 bp):
TGCCTCTCCGATCGGCTGAGCACCCGCACGCTCATTTCGTGGGTTGGCTTAGGCATACGGAGTTC
ATTCCCAGTCTAAGCCCGAGTCAGACCGAGGGTTGCGGCAGCAGGACTGACAGCACACAGGGGGG
ACTGAACCGATCCCCGGCTTACGCATTA
Found at i:28087760 original size:159 final size:157
Alignment explanation
Indices: 28087455--28087956 Score: 416
Period size: 159 Copynumber: 3.2 Consensus size: 157
28087445 CCTAGCCTAA
* * * * * * *
28087455 GCATACAGAGTTCATTCC-TAATCTAAG-ATC-GAACCGGACCGAGGGTTGCGGTAGCAGGATTG
1 GCATACAGAGTTCATTCCAT-GTCTAAGCACCAG-ACCAGACCGAGGGTTACGGCAGTAGGATCG
* * * * * * *
28087517 ACATCACGCAG-GGGGGACCAGGCCGATCCCCGGCTTACGCATTCTGCTTCTCCGGCCAGTTAAG
64 AC-GCACGCAGAGGGGGACCGGGTCGATCCTCGGCTTGCGCATTCTGCCTCTCCGGCCAGCTAAG
* * * * *
28087581 CTCCCGCACACCCGTTTCGTGAGTTGGCTTAG
128 --CCCGAACGCTCATTTCGTGGGTTGGCTTAG
** * ** * *
28087613 GCATAGGGAGTTCATTCCATGTCTAAGCCCCAG-CCAGACCGAGGGTTGTGGCAGTGGGA-CTGG
1 GCATACAGAGTTCATTCCATGTCTAAGCACCAGACCAGACCGAGGGTTACGGCAGTAGGATC-GA
* *
28087676 CAGCACGCAGAGGGGGACCGGGTCGATCCTCGGCTTGCGCATTATGCCTCTCCGGCTAGCTCAAT
65 C-GCACGCAGAGGGGGACCGGGTCGATCCTCGGCTTGCGCATTCTGCCTCTCCGGCCAGCT-AA-
* *
28087741 GCCCGAACGCTCATTTCGTGGGTCGACTTAG
127 GCCCGAACGCTCATTTCGTGGGTTGGCTTAG
* * * *
28087772 GCATACAGAGTTCATTCCCA-ATCTAAG-ATCAGACCGGACTGAGGGTTACGGCAGTAGGATCGA
1 GCATACAGAGTTCATT-CCATGTCTAAGCACCAGACCAGACCGAGGGTTACGGCAGTAGGATCGA
* * * * *
28087835 CGCAC-CTA-A-GGGGATCGGGTCGATCCTCGGCATGCGTATTCTGCCTCTCCGGCCGGCTGAGC
65 CGCACGC-AGAGGGGGACCGGGTCGATCCTCGGCTTGCGCATTCTGCCTCTCCGGCCAGCTAAGC
* *
28087897 ACC-ATCACGCTCATTTTGTGGGTTGGCTTAT
129 -CCGA--ACGCTCATTTCGTGGGTTGGCTTAG
*
28087928 GAATACAGAGTTCATTCCATGTCTAAGCA
1 GCATACAGAGTTCATTCCATGTCTAAGCA
28087957 TACAGATTTC
Statistics
Matches: 276, Mismatches: 52, Indels: 33
0.76 0.14 0.09
Matches are distributed among these distances:
154 3 0.01
155 6 0.02
156 85 0.31
157 3 0.01
158 61 0.22
159 110 0.40
160 7 0.03
161 1 0.00
ACGTcount: A:0.21, C:0.28, G:0.29, T:0.23
Consensus pattern (157 bp):
GCATACAGAGTTCATTCCATGTCTAAGCACCAGACCAGACCGAGGGTTACGGCAGTAGGATCGAC
GCACGCAGAGGGGGACCGGGTCGATCCTCGGCTTGCGCATTCTGCCTCTCCGGCCAGCTAAGCCC
GAACGCTCATTTCGTGGGTTGGCTTAG
Found at i:28087978 original size:26 final size:26
Alignment explanation
Indices: 28087930--28087980 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
28087920 TGGCTTATGA
*
28087930 ATACAGAGTTCATTCCATGTCTAAGC
1 ATACAGAGTTCATTCCATATCTAAGC
*
28087956 ATACAGATTTCATTCCCA-ATCTAAG
1 ATACAGAGTTCATT-CCATATCTAAG
28087981 ATCAAACTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 19 0.86
27 3 0.14
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (26 bp):
ATACAGAGTTCATTCCATATCTAAGC
Found at i:28088155 original size:26 final size:26
Alignment explanation
Indices: 28088125--28088177 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 26
28088115 GTTGGCTTAG
28088125 GCATAC-AGAGTTCATTCC-ATGTCTAA
1 GCATACGA-AGTTCATTCCTA-GTCTAA
28088151 GCATACGAAGTTCATTCCTAGTCTAA
1 GCATACGAAGTTCATTCCTAGTCTAA
28088177 G
1 G
28088178 AGTTTGAGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 23 0.92
27 2 0.08
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (26 bp):
GCATACGAAGTTCATTCCTAGTCTAA
Found at i:28088668 original size:159 final size:158
Alignment explanation
Indices: 28088315--28088702 Score: 433
Period size: 159 Copynumber: 2.4 Consensus size: 158
28088305 AAGCATACAA
*
28088315 AGTTCATTCCCAGTCTAAGATCAGATCGGACCGAGGGTTACGGTAGCAGGATCGACAGCACGCAA
1 AGTTCATTCCCAGTCTAAGATCAGATCGGACCGAGGGTTGCGGTAGCAGGATCGACAGCACGCAA
** * * * * * *
28088380 GGGGGACCGGGCTGATCCCTGACTTGCGCATTCTTCCTCTTCGATAGACTGAGCACCCACACACC
66 GGGGGACCGAACCGATCCCTGACTTGCGCATTATGCCTCTCCGATAGACTCAACACCCACACACC
* *
28088445 CATTTCGTGGGTTGGCTTAGGCATAGGG
131 CATTTCATGGGTTGGCTTAGGCATACGG
** * * * * *
28088473 AGTTCATT-CCATGTCTAAGCCCTAG-TCAGACTGAGGGTTGTGGTAGCGGGA-CTGGCAGCACG
1 AGTTCATTCCCA-GTCTAAGATC-AGATCGGACCGAGGGTTGCGGTAGCAGGATC-GACAGCACG
* * * * *
28088535 TAGAGGGGGACTGAACCGATCCCCTG-CTTGCGCATTATGCCTCTCCGATCGGCTCAACACCCGC
63 CA-AGGGGGACCGAACCGAT-CCCTGACTTGCGCATTATGCCTCTCCGATAGACTCAACACCCAC
* *
28088599 ACGCTCATTTCATGGGTTGGCTTAGGCATACGG
126 ACACCCATTTCATGGGTTGGCTTAGGCATACGG
* * * * *
28088632 AGTTCATTCCCAGTCTAAGATCGGATCGGACCGAGGGTTGCGGCAGCAGGATCGATAGCACACAG
1 AGTTCATTCCCAGTCTAAGATCAGATCGGACCGAGGGTTGCGGTAGCAGGATCGACAGCACGCAA
28088697 GGGGGA
66 GGGGGA
28088703 TTGGGCTGGT
Statistics
Matches: 184, Mismatches: 38, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
157 4 0.02
158 53 0.29
159 118 0.64
160 9 0.05
ACGTcount: A:0.22, C:0.27, G:0.30, T:0.22
Consensus pattern (158 bp):
AGTTCATTCCCAGTCTAAGATCAGATCGGACCGAGGGTTGCGGTAGCAGGATCGACAGCACGCAA
GGGGGACCGAACCGATCCCTGACTTGCGCATTATGCCTCTCCGATAGACTCAACACCCACACACC
CATTTCATGGGTTGGCTTAGGCATACGG
Found at i:28088787 original size:158 final size:157
Alignment explanation
Indices: 28088315--28088808 Score: 499
Period size: 158 Copynumber: 3.1 Consensus size: 157
28088305 AAGCATACAA
* *
28088315 AGTTCATTCCCAGTCTAAGATCAGATCGGACCGAGGGTTACGGTAGCAGGATCGACAGCACGCAA
1 AGTTCATTCCCAGTCTAAGATCAGATCGGACCGAGGGTTGCGGTAGCAGGATCGACAGCACGCAG
* * * * * * * *
28088380 GGGGGACCGGGCTGATCCCTGACTTGCGCATTCTTCCTCTTCGATAGACTGAGCACCCACACACC
66 GGGGGACTGGGCTGATCCC-GGCTTGCGCATTCTACCTCTCCGATCGACTGAGCACCCGCACGCT
*
28088445 CATTTCGTGGGTTGGCTTAGGCATAGGG
130 CATTTCGTGGGTTGGCTTAGGCATACGG
** * * * * *
28088473 AGTTCATT-CCATGTCTAAGCCCTAG-TCAGACTGAGGGTTGTGGTAGCGGGA-CTGGCAGCACG
1 AGTTCATTCCCA-GTCTAAGATC-AGATCGGACCGAGGGTTGCGGTAGCAGGATC-GACAGCACG
* ** * * * * * * *
28088535 TAGAGGGGGACTGAACCGATCCCCTGCTTGCGCATTATGCCTCTCCGATCGGCTCAACACCCGCA
63 CAG-GGGGGACTGGGCTGAT-CCCGGCTTGCGCATTCTACCTCTCCGATCGACTGAGCACCCGCA
*
28088600 CGCTCATTTCATGGGTTGGCTTAGGCATACGG
126 CGCTCATTTCGTGGGTTGGCTTAGGCATACGG
* * * *
28088632 AGTTCATTCCCAGTCTAAGATCGGATCGGACCGAGGGTTGCGGCAGCAGGATCGATAGCACACAG
1 AGTTCATTCCCAGTCTAAGATCAGATCGGACCGAGGGTTGCGGTAGCAGGATCGACAGCACGCAG
* * * * * *
28088697 GGGGGATTGGGCTGGTCCTCGGCTTGCGCATTCTACCTCTCCAACCGATTGAGCACCCGTACGCT
66 GGGGGACTGGGCTGATCC-CGGCTTGCGCATTCTACCTCTCCGATCGACTGAGCACCCGCACGCT
* ** *
28088762 CGTTTCGTGGGTTGGCTTAACCATACAG
130 CATTTCGTGGGTTGGCTTAGGCATACGG
**
28088790 AGTTCATTCCTTGTCTAAG
1 AGTTCATTCCCAGTCTAAG
28088809 GATACGAAGT
Statistics
Matches: 265, Mismatches: 62, Indels: 18
0.77 0.18 0.05
Matches are distributed among these distances:
157 6 0.02
158 134 0.51
159 118 0.45
160 7 0.03
ACGTcount: A:0.20, C:0.27, G:0.29, T:0.24
Consensus pattern (157 bp):
AGTTCATTCCCAGTCTAAGATCAGATCGGACCGAGGGTTGCGGTAGCAGGATCGACAGCACGCAG
GGGGGACTGGGCTGATCCCGGCTTGCGCATTCTACCTCTCCGATCGACTGAGCACCCGCACGCTC
ATTTCGTGGGTTGGCTTAGGCATACGG
Found at i:28089479 original size:159 final size:157
Alignment explanation
Indices: 28089212--28089677 Score: 428
Period size: 159 Copynumber: 2.9 Consensus size: 157
28089202 GATCGAACCG
* * * * * * * * *
28089212 GACCGAGGGTTGCGGTAGCAGGATTGACATCACGCAG-GGGGGACCAGGCCGATCCCCGGCTTAC
1 GACCGAGGGTTACGGCAGTAGGATCGAC-GCACGCAGAGGGGGACCGGGTCGATCCTCGGCTTGC
* * * * * * *
28089276 GCATTCTGCCTCTCCGGCCAGTTAAGCTCCCGCACACCCGTTTCGTGAGTTGGCTTAGGCATAGG
65 GCATTCTGCCTCTCCGGCCAGCTAAG--CCCGAACGCTCATTTCGTGGGTTGGCTTAGGCATACG
*
28089341 GAGTTCATTCCATGTCTAAGCCCCAG-CCA
128 GAGTTCATTCCATGTCTAAGCACCAGACCA
** * *
28089370 GACCGAGGGTTGTGGCAGTGGGA-CTGGCAGCACGCAGAGGGGGACCGGGTCGATCCTCGGCTTG
1 GACCGAGGGTTACGGCAGTAGGATC-GAC-GCACGCAGAGGGGGACCGGGTCGATCCTCGGCTTG
* * * *
28089434 CGCATTATGCCTCTCCGGCTAGCTCAATGCCCGAACGCTCATTTCGTGGGTCGACTTAGGCATAC
64 CGCATTCTGCCTCTCCGGCCAGCT-AA-GCCCGAACGCTCATTTCGTGGGTTGGCTTAGGCATAC
* * *
28089499 GGAGTTCATTCCCA-ATCTAAG-ATCAGACCG
127 GGAGTTCATT-CCATGTCTAAGCACCAGACCA
* * *
28089529 GACTGAGGGTTACGGCAGTAGGATCGACGCAC-CTA-A-GGGGATCGGGTCGATCCTCGGCATGC
1 GACCGAGGGTTACGGCAGTAGGATCGACGCACGC-AGAGGGGGACCGGGTCGATCCTCGGCTTGC
* * * * *
28089591 GTATTCTGCCTCTCCGGCCGGCTGAGCACC-ATCACGCTCATTTTGTGGGTTGGCTTATGCATAC
65 GCATTCTGCCTCTCCGGCCAGCTAAGC-CCGA--ACGCTCATTTCGTGGGTTGGCTTAGGCATAC
*
28089655 AGAGTTCATTCCATGTCTAAGCA
127 GGAGTTCATTCCATGTCTAAGCA
28089678 TACAGATTTC
Statistics
Matches: 251, Mismatches: 44, Indels: 27
0.78 0.14 0.08
Matches are distributed among these distances:
154 3 0.01
155 6 0.02
156 85 0.34
157 3 0.01
158 37 0.15
159 110 0.44
160 6 0.02
161 1 0.00
ACGTcount: A:0.19, C:0.28, G:0.30, T:0.23
Consensus pattern (157 bp):
GACCGAGGGTTACGGCAGTAGGATCGACGCACGCAGAGGGGGACCGGGTCGATCCTCGGCTTGCG
CATTCTGCCTCTCCGGCCAGCTAAGCCCGAACGCTCATTTCGTGGGTTGGCTTAGGCATACGGAG
TTCATTCCATGTCTAAGCACCAGACCA
Found at i:28089521 original size:869 final size:867
Alignment explanation
Indices: 28086657--28089873 Score: 3795
Period size: 869 Copynumber: 3.7 Consensus size: 867
28086647 AACAGCACAT
* * * * ** * * *
28086657 AGGGGGGATCAGGCTGATCCCTGGCTT-CTGTATTCTGCCTCTCCGATCGGCTGAGCGCCCGCAC
1 AGGGGGGACCAGGCCGATCCCCGGCTTAC-GCATTCTGCCTCTCCGGCCAGCTAAGCTCCCGCAC
* * * * *
28086721 GCCCATTTCGTGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCCTAGTCAGACTGA
65 ACCCATTTCGTGAGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCCCAGCCAGACCGA
* * * *
28086786 GGGTTGTGGTAGCGGGACTGGCAGCACGTAGAGGGGGACTGAACCGATCCCCTGCTTGCGCATTA
130 GGGTTGTGGCAGCGGGACTGGCAGCACGCAGAGGGGGACCGAACCGATCCCCGGCTTGCGCATTA
* * * *
28086851 TGCCTCTCCGATCGGCTCAACACCCGCACGCTCATTTCATGGGTTGGCTTAGGCATACGGAGTTC
195 TGCCTCTCCGATCAGCTCAACACCCGAACGCTCATTTCATGGGTCGACTTAGGCATACGGAGTTC
* * * * *
28086916 ATTCCCAGTCTAAGATCGGATCGGACCGAGGGTTGCGGCAGCAGGATCGATAGCACAC-AGGGGG
260 ATTCCCAATCTAAGATCAGACCGGACCGAGGGTTACGGCAGCAGGATCGA-AGCAC-CTA-AGGG
* * * * * * * * *
28086980 GATTGCG-CTGGTCCTCGGCTTACGCATTCTACCTCTCCAATCGATTGAGCACCCGT-ACGCTCG
322 GATCGGGTC-GATCCTCGGCATGCGCATTCTACCTCTCCAACCGACTGAGCA-CCATCACGCTCA
* *
28087043 TTTCGTGGGTTGGCTTAACCATACAGAGTTCATTCCTTGTCTAAGGATAC-GAAGTTCATTCCCA
385 TTTCGTGGGTTGGCTTAACCATACAGAGTTCATTCCATGTCTAAGCATACAG-AGTTCATTCCCA
* **
28087107 ATCTAAGATCGAACCGGACCGAAGGTTACGGTAGTAAGACAAGCAGCAGGATCGACAGCACGCAG
449 ATCTAAGATCAAACCGGACCGAAGGTTACGACAGTAAGACAAGCAGCAGGATCGACAGCACGCAG
* ** * *
28087172 GGGGAGA-TCAGGCCAATCCCCGGCTTGCGCATTCTGCCTCTTTGGCCGGCTGAGCACCCGCACG
514 GGGGAGACT-AGGCCAATCCCCGACTTGCGCATTCTGCCTCTCCGACCGGCTGAACACCCGCACG
* **
28087236 CTCATTTCATTGGTTGGCTTAGGCATATGGAGTTCATTCCATGTCTAAGCCCCAACCGGATCGAG
578 CTCATTTCATGGGTTGGCTTAGGCATACAGAGTTCATTCCATGTCTAAGCCCCAACCGGATCGAG
28087301 GGTTGTGGTAGCAGGACCGACAGCGGGATCGACAGCACGTAGAAGGGGACCAGGCTGATCCCCGA
643 GGTTGTGGTAGCAGGACCGACAGCGGGATCGACAGCACGTAGAAGGGGACCAGGCTGATCCCCGA
*
28087366 CTTACGCATTACGCCTCTCCGGTCGACTGAACGTCCGTAGGCTCTTTTCGTGGGTTGACTTAGCC
708 CTTACGCATTATGCCTCTCCGGTCGACTGAACGTCCGTAGGCTCTTTTCGTGGGTTGACTTAGCC
28087431 ATACGTAGTTCATCCCTAGCCTAAGCATACAGAGTTCATTCCTAATCTAAGATCGAACCGGACCG
773 ATACGTAGTTCATCCCTAGCCTAAGCATACAGAGTTCATTCCTAATCTAAGATCGAACCGGACCG
28087496 AGGGTTGCGGTAGCAGGATTGACATCACGC
838 AGGGTTGCGGTAGCAGGATTGACATCACGC
* *
28087526 AGGGGGGACCAGGCCGATCCCCGGCTTACGCATTCTGCTTCTCCGGCCAGTTAAGCTCCCGCACA
1 AGGGGGGACCAGGCCGATCCCCGGCTTACGCATTCTGCCTCTCCGGCCAGCTAAGCTCCCGCACA
*
28087591 CCCGTTTCGTGAGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCCCAGCCAGACCGAG
66 CCCATTTCGTGAGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCCCAGCCAGACCGAG
* *** *
28087656 GGTTGTGGCAGTGGGACTGGCAGCACGCAGAGGGGGACCGGGTCGATCCTCGGCTTGCGCATTAT
131 GGTTGTGGCAGCGGGACTGGCAGCACGCAGAGGGGGACCGAACCGATCCCCGGCTTGCGCATTAT
* ** * *
28087721 GCCTCTCCG-GCTAGCTCAATGCCCGAACGCTCATTTCGTGGGTCGACTTAGGCATACAGAGTTC
196 GCCTCTCCGATC-AGCTCAACACCCGAACGCTCATTTCATGGGTCGACTTAGGCATACGGAGTTC
* * *
28087785 ATTCCCAATCTAAGATCAGACCGGACTGAGGGTTACGGCAGTAGGATCGACGCACCTAAGGGGAT
260 ATTCCCAATCTAAGATCAGACCGGACCGAGGGTTACGGCAGCAGGATCGAAGCACCTAAGGGGAT
* * ** * *
28087850 CGGGTCGATCCTCGGCATGCGTATTCTGCCTCTCCGGCCGGCTGAGCACCATCACGCTCATTTTG
325 CGGGTCGATCCTCGGCATGCGCATTCTACCTCTCCAACCGACTGAGCACCATCACGCTCATTTCG
*** *
28087915 TGGGTTGGCTTATGAATACAGAGTTCATTCCATGTCTAAGCATACAGATTTCATTCCCAATCTAA
390 TGGGTTGGCTTAACCATACAGAGTTCATTCCATGTCTAAGCATACAGAGTTCATTCCCAATCTAA
* * * * * * * * *
28087980 GATCAAACTGGATCGAGGGTTACGACAGTAGGACCAGCAGTAGGATCGGCAGCACGTAGGGGGGG
455 GATCAAACCGGACCGAAGGTTACGACAGTAAGACAAGCAGCAGGATCGACAGCACGCAGGGGGAG
* * * * *
28088045 ACTGGGCCGATCCCCGACTTGCGCATTCTGTCTCTCCGACCGGCTGAACGCCCGCACGCTCGTTT
520 ACTAGGCCAATCCCCGACTTGCGCATTCTGCCTCTCCGACCGGCTGAACACCCGCACGCTCATTT
* ***
28088110 CATGGGTTGGCTTAGGCATACAGAGTTCATTCCATGTCTAAG---CATA-CGAAGTTC-ATTCCT
585 CATGGGTTGGCTTAGGCATACAGAGTTCATTCCATGTCTAAGCCCCA-ACCG--GATCGA-GGGT
* * * * * * * *
28088170 AGT-CTAAG-AGTTTGA--GCCA-C-TG-T-G-CA-CATGTTG--GGCTCGG-GCATGTGCTGGT
646 TGTGGT-AGCAG---GACCGACAGCGGGATCGACAGCACGTAGAAGG---GGACCA-G-GCTGAT
* ** * * * * * **
28088222 -GCCGTA-TT---TTTTTTGCCTGGGGCACC-ATCG-CTAGAGCATCGCAG-AGAGC-C-TAAC-
702 CCCCG-ACTTACGCATTATGCCT----CTCCGGTCGACT-GAACGTC-C-GTAG-GCTCTTTTCG
* * * * ** * * *
28088276 -CGG-TGGCATT-G-GA-A---A-TTCATCCCCAATCTAAGCATACAAAGTTCATTCCCAGTCTA
758 TGGGTTGAC-TTAGCCATACGTAGTTCATCCCTAGCCTAAGCATACAGAGTTCATTCCTAATCTA
* * * *
28088332 AGATC-AGATCGGACCGAGGGTTACGGTAGCAGGATCGACAGCACGC
822 AGATCGA-ACCGGACCGAGGGTTGCGGTAGCAGGATTGACATCACGC
* * * * * * * * ** * * *
28088378 AAGGGGGACCGGGCTGATCCCTGACTTGCGCATTCTTCCTCTTC-GATAGACTGAGCACCCACAC
1 AGGGGGGACCAGGCCGATCCCCGGCTTACGCATTCTGCCTCTCCGGCCAG-CTAAGCTCCCGCAC
* * * *
28088442 ACCCATTTCGTGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCCTAGTCAGACTGA
65 ACCCATTTCGTGAGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCCCAGCCAGACCGA
* * * *
28088507 GGGTTGTGGTAGCGGGACTGGCAGCACGTAGAGGGGGACTGAACCGATCCCCTGCTTGCGCATTA
130 GGGTTGTGGCAGCGGGACTGGCAGCACGCAGAGGGGGACCGAACCGATCCCCGGCTTGCGCATTA
* * * *
28088572 TGCCTCTCCGATCGGCTCAACACCCGCACGCTCATTTCATGGGTTGGCTTAGGCATACGGAGTTC
195 TGCCTCTCCGATCAGCTCAACACCCGAACGCTCATTTCATGGGTCGACTTAGGCATACGGAGTTC
* * * * *
28088637 ATTCCCAGTCTAAGATCGGATCGGACCGAGGGTTGCGGCAGCAGGATCGATAGCACAC-AGGGGG
260 ATTCCCAATCTAAGATCAGACCGGACCGAGGGTTACGGCAGCAGGATCGA-AGCAC-CTA-AGGG
* * * * * *
28088701 GATTGGG-CTGGTCCTCGGCTTGCGCATTCTACCTCTCCAACCGATTGAGCACCCGT-ACGCTCG
322 GATCGGGTC-GATCCTCGGCATGCGCATTCTACCTCTCCAACCGACTGAGCA-CCATCACGCTCA
* *
28088764 TTTCGTGGGTTGGCTTAACCATACAGAGTTCATTCCTTGTCTAAGGATAC-GAAGTTCATTCCCA
385 TTTCGTGGGTTGGCTTAACCATACAGAGTTCATTCCATGTCTAAGCATACAG-AGTTCATTCCCA
* **
28088828 ATCTAAGATCGAACCGGACCGAAGGTTACGGTAGTAAGACAAGCAGCAGGATCGACAGCACGCAG
449 ATCTAAGATCAAACCGGACCGAAGGTTACGACAGTAAGACAAGCAGCAGGATCGACAGCACGCAG
* ** * *
28088893 GGGGAGA-TCAGGCCAATCCCCGGCTTGCGCATTCTGCCTCTTTGGCCGGCTGAGCACCCGCACG
514 GGGGAGACT-AGGCCAATCCCCGACTTGCGCATTCTGCCTCTCCGACCGGCTGAACACCCGCACG
* **
28088957 CTCATTTCATTGGTTGGCTTAGGCATATGGAGTTCATTCCATGTCTAAGCCCCAACCGGATCGAG
578 CTCATTTCATGGGTTGGCTTAGGCATACAGAGTTCATTCCATGTCTAAGCCCCAACCGGATCGAG
28089022 GGTTGTGGTAGCAGGACCGACAGCGGGATCGACAGCACGTAGAAGGGGACCAGGCTGATCCCCGA
643 GGTTGTGGTAGCAGGACCGACAGCGGGATCGACAGCACGTAGAAGGGGACCAGGCTGATCCCCGA
28089087 CTTACGCATTATGCCTCTCCGGTCGACTGAACGTCCGTAGGCTCTTTTCGTGGGTTGACTTAGCC
708 CTTACGCATTATGCCTCTCCGGTCGACTGAACGTCCGTAGGCTCTTTTCGTGGGTTGACTTAGCC
28089152 ATACGTAGTTCATCCCTAGCCTAAGCATACAGAGTTCATTCCTAATCTAAGATCGAACCGGACCG
773 ATACGTAGTTCATCCCTAGCCTAAGCATACAGAGTTCATTCCTAATCTAAGATCGAACCGGACCG
28089217 AGGGTTGCGGTAGCAGGATTGACATCACGC
838 AGGGTTGCGGTAGCAGGATTGACATCACGC
*
28089247 AGGGGGGACCAGGCCGATCCCCGGCTTACGCATTCTGCCTCTCCGGCCAGTTAAGCTCCCGCACA
1 AGGGGGGACCAGGCCGATCCCCGGCTTACGCATTCTGCCTCTCCGGCCAGCTAAGCTCCCGCACA
*
28089312 CCCGTTTCGTGAGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCCCAGCCAGACCGAG
66 CCCATTTCGTGAGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCCCAGCCAGACCGAG
* *** *
28089377 GGTTGTGGCAGTGGGACTGGCAGCACGCAGAGGGGGACCGGGTCGATCCTCGGCTTGCGCATTAT
131 GGTTGTGGCAGCGGGACTGGCAGCACGCAGAGGGGGACCGAACCGATCCCCGGCTTGCGCATTAT
* ** *
28089442 GCCTCTCCG-GCTAGCTCAATGCCCGAACGCTCATTTCGTGGGTCGACTTAGGCATACGGAGTTC
196 GCCTCTCCGATC-AGCTCAACACCCGAACGCTCATTTCATGGGTCGACTTAGGCATACGGAGTTC
* * *
28089506 ATTCCCAATCTAAGATCAGACCGGACTGAGGGTTACGGCAGTAGGATCGACGCACCTAAGGGGAT
260 ATTCCCAATCTAAGATCAGACCGGACCGAGGGTTACGGCAGCAGGATCGAAGCACCTAAGGGGAT
* * ** * *
28089571 CGGGTCGATCCTCGGCATGCGTATTCTGCCTCTCCGGCCGGCTGAGCACCATCACGCTCATTTTG
325 CGGGTCGATCCTCGGCATGCGCATTCTACCTCTCCAACCGACTGAGCACCATCACGCTCATTTCG
** *
28089636 TGGGTTGGCTTATGCATACAGAGTTCATTCCATGTCTAAGCATACAGATTTCATTCCCAATCTAA
390 TGGGTTGGCTTAACCATACAGAGTTCATTCCATGTCTAAGCATACAGAGTTCATTCCCAATCTAA
* * * * * * * *
28089701 GATCAAACTGGATCGAGGGTTACGACAGTAGGACCAGCAGTAGGATCGGCAGCACGCAGGGGGGG
455 GATCAAACCGGACCGAAGGTTACGACAGTAAGACAAGCAGCAGGATCGACAGCACGCAGGGGGAG
* * * * *
28089766 ACTGGGCCGATCCCCGACTTGCGCATTCTGTCTCTCCGACCGGCTGAACGCCCGCACGCTCGTTT
520 ACTAGGCCAATCCCCGACTTGCGCATTCTGCCTCTCCGACCGGCTGAACACCCGCACGCTCATTT
28089831 CATGGGTTGGCTTAGGCATACAGAGTTCATTCCATGTCTAAGC
585 CATGGGTTGGCTTAGGCATACAGAGTTCATTCCATGTCTAAGC
28089874 ATACGAAGTT
Statistics
Matches: 1928, Mismatches: 334, Indels: 174
0.79 0.14 0.07
Matches are distributed among these distances:
851 4 0.00
852 334 0.17
853 12 0.01
854 256 0.13
855 14 0.01
856 7 0.00
857 6 0.00
858 16 0.01
859 18 0.01
860 29 0.02
861 29 0.02
862 18 0.01
863 17 0.01
864 6 0.00
865 7 0.00
866 17 0.01
867 512 0.27
868 21 0.01
869 600 0.31
870 5 0.00
ACGTcount: A:0.21, C:0.27, G:0.28, T:0.23
Consensus pattern (867 bp):
AGGGGGGACCAGGCCGATCCCCGGCTTACGCATTCTGCCTCTCCGGCCAGCTAAGCTCCCGCACA
CCCATTTCGTGAGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCCCAGCCAGACCGAG
GGTTGTGGCAGCGGGACTGGCAGCACGCAGAGGGGGACCGAACCGATCCCCGGCTTGCGCATTAT
GCCTCTCCGATCAGCTCAACACCCGAACGCTCATTTCATGGGTCGACTTAGGCATACGGAGTTCA
TTCCCAATCTAAGATCAGACCGGACCGAGGGTTACGGCAGCAGGATCGAAGCACCTAAGGGGATC
GGGTCGATCCTCGGCATGCGCATTCTACCTCTCCAACCGACTGAGCACCATCACGCTCATTTCGT
GGGTTGGCTTAACCATACAGAGTTCATTCCATGTCTAAGCATACAGAGTTCATTCCCAATCTAAG
ATCAAACCGGACCGAAGGTTACGACAGTAAGACAAGCAGCAGGATCGACAGCACGCAGGGGGAGA
CTAGGCCAATCCCCGACTTGCGCATTCTGCCTCTCCGACCGGCTGAACACCCGCACGCTCATTTC
ATGGGTTGGCTTAGGCATACAGAGTTCATTCCATGTCTAAGCCCCAACCGGATCGAGGGTTGTGG
TAGCAGGACCGACAGCGGGATCGACAGCACGTAGAAGGGGACCAGGCTGATCCCCGACTTACGCA
TTATGCCTCTCCGGTCGACTGAACGTCCGTAGGCTCTTTTCGTGGGTTGACTTAGCCATACGTAG
TTCATCCCTAGCCTAAGCATACAGAGTTCATTCCTAATCTAAGATCGAACCGGACCGAGGGTTGC
GGTAGCAGGATTGACATCACGC
Found at i:28089699 original size:26 final size:26
Alignment explanation
Indices: 28089649--28089701 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
28089639 GTTGGCTTAT
*
28089649 GCATACAGAGTTCATTCCATGTCTAA
1 GCATACAGAGTTCATTCCATATCTAA
*
28089675 GCATACAGATTTCATTCCCA-ATCTAA
1 GCATACAGAGTTCATT-CCATATCTAA
28089701 G
1 G
28089702 ATCAAACTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 21 0.88
27 3 0.12
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.30
Consensus pattern (26 bp):
GCATACAGAGTTCATTCCATATCTAA
Found at i:28089876 original size:26 final size:26
Alignment explanation
Indices: 28089846--28089898 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 26
28089836 GTTGGCTTAG
28089846 GCATAC-AGAGTTCATTCC-ATGTCTAA
1 GCATACGA-AGTTCATTCCTA-GTCTAA
28089872 GCATACGAAGTTCATTCCTAGTCTAA
1 GCATACGAAGTTCATTCCTAGTCTAA
28089898 G
1 G
28089899 AGTTTGAGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 23 0.92
27 2 0.08
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (26 bp):
GCATACGAAGTTCATTCCTAGTCTAA
Found at i:28091584 original size:159 final size:158
Alignment explanation
Indices: 28091100--28091585 Score: 480
Period size: 159 Copynumber: 3.1 Consensus size: 158
28091090 TAAGCATGCA
* *
28091100 GAGTTCATTCCCAGTGTAAGATCAGACCAGACCGAGGGTTGTGGCAGTAGGATCGACAA-CACGT
1 GAGTTCATTCCCAGTCTAAGATCAGACCAGACCGAGGGTTGTGGCAGTAGGATCGA-AAGCACGC
* * * * * * *
28091164 AGGGGGGACCGGGCTGATCCCTGGTTTACGCATTCTACCTTTCCAGCTGGCTGAGCGCCCGCACG
65 AGGGGGGACCGGGCCGATCCCCGGCTTGCGCATTCTACCTCTCCGGCCGGCTGAGCGCCCGCACG
* *
28091229 -TCCGTTTCATGGGTTGGCTAAC-ACATAGG
130 CT-CGTTTCATGGGTTGGCT-TCGACATACG
* ** ** * * *
28091258 GAGTTCATT-ACATGTCTAAGCCCCAG-CCAGACCGAGGGTTGTGGCAGCGGGATCGACAGGACA
1 GAGTTCATTCCCA-GTCTAAG-ATCAGACCAGACCGAGGGTTGTGGCAGTAGGATCGAAAGCACG
* * * ** * *
28091321 CAGAGGGGGACCGGGCCGATCCCCAGCTTGCGCATTATGCCTCTCCGATCGGTTCAGCGCCCGCA
64 CAG-GGGGGACCGGGCCGATCCCCGGCTTGCGCATTCTACCTCTCCGGCCGGCTGAGCGCCCGCA
* * * * *
28091386 CGCTCATTTCATGGGTTGACTTAGGCATATG
128 CGCTCGTTTCATGGGTTGGCTTCGACATACG
* * * * *
28091417 AAGGTCATTCCCAGTCTAAGATCAGACCGGACCGAGTGTTGTGGTAGTAGGATCGAAAGCACGCA
1 GAGTTCATTCCCAGTCTAAGATCAGACCAGACCGAGGGTTGTGGCAGTAGGATCGAAAGCACGCA
* * * *
28091482 GGGGCAGATCGGGCCGGA-CCCCGGCTTGTGCATTCTACCTCTCCGGCCAGCTGAGCGCCCGCAC
66 GGGG-GGACCGGGCC-GATCCCCGGCTTGCGCATTCTACCTCTCCGGCCGGCTGAGCGCCCGCAC
* *
28091546 GCTCGTTTCGTGGGTTGGCTTCGCCATACG
129 GCTCGTTTCATGGGTTGGCTTCGACATACG
28091576 GAGTTCATTC
1 GAGTTCATTC
28091586 TGGAGTTCAT
Statistics
Matches: 256, Mismatches: 62, Indels: 19
0.76 0.18 0.06
Matches are distributed among these distances:
157 3 0.01
158 53 0.21
159 195 0.76
160 5 0.02
ACGTcount: A:0.20, C:0.28, G:0.30, T:0.22
Consensus pattern (158 bp):
GAGTTCATTCCCAGTCTAAGATCAGACCAGACCGAGGGTTGTGGCAGTAGGATCGAAAGCACGCA
GGGGGGACCGGGCCGATCCCCGGCTTGCGCATTCTACCTCTCCGGCCGGCTGAGCGCCCGCACGC
TCGTTTCATGGGTTGGCTTCGACATACG
Found at i:28092426 original size:158 final size:157
Alignment explanation
Indices: 28091948--28092449 Score: 481
Period size: 158 Copynumber: 3.2 Consensus size: 157
28091938 CCCAATTTAA
* * * * *
28091948 GCATACGGGGTTCATTCCCA-GTCTAAGATC-GCATCGGATCGAGGGTTACGGTAGCAGGATCAA
1 GCATACGGAGTTCATT-CCATGTCTAAGATCAG-ACCGGAACGAGGGTTGCGGTAGCAGGATCGA
* * * * * * * * *
28092011 CATCACGCAGGGGGGACCAAGCTGATCCCCGACTTGCACATTCTGCCTCTTCGGCCGGCTAAGCT
64 TAGCACGCAAGGGGGA-CAGGCCGATCCCCGGCTTGCGCATTCTGCCTCTTCGACCGGCTAAGCA
** * *
28092076 CCCGCATACCCATTTCATGGGTTGGCTTAG
128 CCCGCACGCTCATTTCGTGGGTTGGCTTAG
* ** * * * ** * *
28092106 GCATAGGGAGTTCATTCCATGTCTAAGCCCTAG-CCAGACCGAGGGTTGTGGTAGTGGGACCGGT
1 GCATACGGAGTTCATTCCATGTCTAAGATC-AGACCGGAACGAGGGTTGCGGTAGCAGGATCGAT
* * * * * *
28092170 AGCACGCAGAGGGGGACAGGGTCGATCCCCGGCTTGCGTATTATGCCTCTCCGACCGGCTCAGCG
65 AGCACGCA-AGGGGGACA-GGCCGATCCCCGGCTTGCGCATTCTGCCTCTTCGACCGGCTAAGCA
* * *
28092235 CCCGAACGCTCATTTCGTGGGTCGACTTAG
128 CCCGCACGCTCATTTCGTGGGTTGGCTTAG
*
28092265 GCATACGGAGTTCATTCCCA-GTCTAAGATCAGACCGGAACGAGGGTTGCGATAGCAGGATCGAT
1 GCATACGGAGTTCATT-CCATGTCTAAGATCAGACCGGAACGAGGGTTGCGGTAGCAGGATCGAT
* * * * * * *
28092329 AGCACGCAATGGGGATCAGGCCGGTCCCTGGCTTACGCATTCCGCCTCTTCGATCGGCTGAGCAC
65 AGCACGCAAGGGGGA-CAGGCCGATCCCCGGCTTGCGCATTCTGCCTCTTCGACCGGCTAAGCAC
*
28092394 CCTCACGCTCATTTCGTGGGTTGGCTTAG
129 CCGCACGCTCATTTCGTGGGTTGGCTTAG
*
28092423 GCATACAGAGTTCATTCCATGTCTAAG
1 GCATACGGAGTTCATTCCATGTCTAAG
28092450 CATACGGAGT
Statistics
Matches: 272, Mismatches: 63, Indels: 18
0.77 0.18 0.05
Matches are distributed among these distances:
157 6 0.02
158 142 0.52
159 120 0.44
160 4 0.01
ACGTcount: A:0.20, C:0.28, G:0.29, T:0.23
Consensus pattern (157 bp):
GCATACGGAGTTCATTCCATGTCTAAGATCAGACCGGAACGAGGGTTGCGGTAGCAGGATCGATA
GCACGCAAGGGGGACAGGCCGATCCCCGGCTTGCGCATTCTGCCTCTTCGACCGGCTAAGCACCC
GCACGCTCATTTCGTGGGTTGGCTTAG
Found at i:28092473 original size:26 final size:26
Alignment explanation
Indices: 28092423--28092475 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
28092413 GTTGGCTTAG
*
28092423 GCATACAGAGTTCATTCCATGTCTAA
1 GCATACAGAGTTCATTCCATATCTAA
*
28092449 GCATACGGAGTTCATTCCCA-ATCTAA
1 GCATACAGAGTTCATT-CCATATCTAA
28092475 G
1 G
28092476 ATCAGACCAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 21 0.88
27 3 0.12
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (26 bp):
GCATACAGAGTTCATTCCATATCTAA
Found at i:28092649 original size:26 final size:26
Alignment explanation
Indices: 28092619--28092671 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
28092609 GTTGGCTTAG
28092619 GCATACGGAGTTCATT-CCATGTCTAA
1 GCATACGGAGTTCATTCCCA-GTCTAA
28092645 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
28092671 G
1 G
28092672 AGTTTGAGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 23 0.88
27 3 0.12
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAGTCTAA
Found at i:28093155 original size:26 final size:26
Alignment explanation
Indices: 28093119--28093171 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28093109 GTTGGCTTAG
*
28093119 GCATACGGAGTTCATT-CCATGTCTAA
1 GCATACAGAGTTCATTCCCA-GTCTAA
28093145 GCATACAGAGTTCATTCCCAGTCTAA
1 GCATACAGAGTTCATTCCCAGTCTAA
28093171 G
1 G
28093172 AGTTTGAGCC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (26 bp):
GCATACAGAGTTCATTCCCAGTCTAA
Found at i:28093257 original size:11 final size:11
Alignment explanation
Indices: 28093241--28093273 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
28093231 CCTGGGGCAC
*
28093241 CATCGCTGGAG
1 CATCGCCGGAG
28093252 CATCGCCGGAG
1 CATCGCCGGAG
28093263 CATCGCCGGAG
1 CATCGCCGGAG
28093274 AGCGTAACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.18, C:0.33, G:0.36, T:0.12
Consensus pattern (11 bp):
CATCGCCGGAG
Found at i:28093899 original size:26 final size:26
Alignment explanation
Indices: 28093849--28093901 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
28093839 GTTGGCTTAG
*
28093849 GCATACAGAGTTCATTCCATGTCTAA
1 GCATACAGAGTTCATTCCATATCTAA
28093875 GCATAC-GAAGTTCATTCCCA-ATCTAA
1 GCATACAG-AGTTCATT-CCATATCTAA
28093901 G
1 G
28093902 ATCGGACCAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 1 0.04
26 20 0.83
27 3 0.12
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (26 bp):
GCATACAGAGTTCATTCCATATCTAA
Found at i:28094096 original size:26 final size:26
Alignment explanation
Indices: 28094046--28094098 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28094036 GTTGGCTTAG
*
28094046 GCATATGGAGTTCATTCCATTTCTAA
1 GCATATGGAGTTCATTCCATGTCTAA
28094072 GCATATGGAGTTCATTCCCA-GTCTAA
1 GCATATGGAGTTCATT-CCATGTCTAA
28094098 G
1 G
28094099 AGTTTGAGCC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (26 bp):
GCATATGGAGTTCATTCCATGTCTAA
Found at i:28094575 original size:26 final size:26
Alignment explanation
Indices: 28094546--28094598 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28094536 GTTGGCTTAG
28094546 GCATACAGAGTGCATT-CCATGTCTAA
1 GCATACAGAGTGCATTCCCA-GTCTAA
*
28094572 GCATACAGAGTTCATTCCCAGTCTAA
1 GCATACAGAGTGCATTCCCAGTCTAA
28094598 G
1 G
28094599 AGTTTAAGCC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (26 bp):
GCATACAGAGTGCATTCCCAGTCTAA
Found at i:28098447 original size:26 final size:26
Alignment explanation
Indices: 28098417--28098469 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28098407 GTTGGCTTAG
*
28098417 GCATACGGAGTTCATT-CCATGTCTAA
1 GCATACAGAGTTCATTCCCA-GTCTAA
28098443 GCATACAGAGTTCATTCCCAGTCTAA
1 GCATACAGAGTTCATTCCCAGTCTAA
28098469 G
1 G
28098470 ATCGGACCGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (26 bp):
GCATACAGAGTTCATTCCCAGTCTAA
Found at i:28098777 original size:171 final size:170
Alignment explanation
Indices: 28098512--28098836 Score: 391
Period size: 171 Copynumber: 1.9 Consensus size: 170
28098502 CCAGTAGCAG
* * * *
28098512 GATCGACAGCATGCAGGGGGGACCTGGCTGATCCTCGACTTGCGCATTCTGCCTCTCCGGTCGGC
1 GATCGACAGCACGCAGGGGGGACCTGGCTGATCCTCGACTTGCGCATTCTACCTCTCCAGCCGGC
* ** ** *
28098577 TGAGCCCCCGCACGCTCATTTTTTGGGTTGGCTTTGGCATACGGAGTTCATTCCATGTCTAAGCC
66 TGAGCCCCCGCACGCCCATTTCGTGGGTTGGCTAAGGCATACGGAGTTCATTCCATGCCTAAGCC
**
28098642 CCAGCTGGACCAAGAGTTGTGGTAGTTGGACTAGCAGCGA
131 CCAGCCAGACCAAGAGTTGTGGTAGTTGGACTAGCAGCGA
* * * ** * *
28098682 GATCGGCAGCACGCAGAGGGGGA-TTGGGCTGATCCTGGGTTTGCGCATTCTACGTCTCCAGCCT
1 GATCGACAGCACGCAG-GGGGGACCT-GGCTGATCCTCGACTTGCGCATTCTACCTCTCCAGCCG
* * * * *
28098746 GCTGAGCGCCTGCACGCCCGTTTCGTGGGTTGTCTAAGGCATAGGGAGTTCATTCCATGCCTAAG
64 GCTGAGCCCCCGCACGCCCATTTCGTGGGTTGGCTAAGGCATACGGAGTTCATTCCATGCCTAAG
* *
28098811 CCCCAGCCAGACCGAGGGTTGTGGTA
129 CCCCAGCCAGACCAAGAGTTGTGGTA
28098837 ACGGGATCGG
Statistics
Matches: 127, Mismatches: 26, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
170 15 0.12
171 112 0.88
ACGTcount: A:0.17, C:0.27, G:0.31, T:0.24
Consensus pattern (170 bp):
GATCGACAGCACGCAGGGGGGACCTGGCTGATCCTCGACTTGCGCATTCTACCTCTCCAGCCGGC
TGAGCCCCCGCACGCCCATTTCGTGGGTTGGCTAAGGCATACGGAGTTCATTCCATGCCTAAGCC
CCAGCCAGACCAAGAGTTGTGGTAGTTGGACTAGCAGCGA
Found at i:28098971 original size:26 final size:26
Alignment explanation
Indices: 28098941--28098993 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 26
28098931 GTTGGCTTAG
28098941 GCATAC-GAAGTTCATT-CCATGTCTAA
1 GCATACAG-AGTTCATTCCCA-GTCTAA
28098967 GCATACAGAGTTCATTCCCAGTCTAA
1 GCATACAGAGTTCATTCCCAGTCTAA
28098993 G
1 G
28098994 ATCGAATCGG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (26 bp):
GCATACAGAGTTCATTCCCAGTCTAA
Found at i:28099163 original size:524 final size:525
Alignment explanation
Indices: 28098164--28099235 Score: 1636
Period size: 524 Copynumber: 2.0 Consensus size: 525
28098154 TAGGATCGAT
* * * **
28098164 AGCACACAG-GGGGGATCGGGCCGATCCCTGGTTTGCGCATTCTACGTCTCTGGCCGACTGAGCG
1 AGCACGCAGAGGGGGATTGGGCTGATCCCTGGTTTGCGCATTCTACGTCTCCAGCCGACTGAGCG
* * *
28098228 CCCGCTCGCCCGTTTCATGGGTTGGCTAAGGCATAGGGAGTTCATTCCATGTCTAAGTCCCAGCC
66 CCCGCACGCCCGTTTCATGGGTTGGCTAAGGCATAGGGAGTTCATTCCATGCCTAAGCCCCAGCC
* *
28098293 GGACCGAGGGTTGTGGCAGCGGGATCGACAGGACGCAGAGGAGGACCGGGCCGATCCCCAGCTTA
131 AGACCGAGGGTTGTGGCAACGGGATCGACAGGACGCAGAGGAGGACCGGGCCGATCCCCAGCTTA
28098358 CGCATTTTGCCTCTCCAGCCAACTGAGTGCCTAAACGCTAGTTTCATGGGTTGGCTTAGGCATAC
196 CGCATTTTGCCTCTCCAGCCAACTGAG-GCCTAAACGCTAGTTTCATGGGTTGGCTTAGGCATAC
* * * *
28098423 GGAGTTCATTCCATGTCTAAGCATACAGAGTTCATTCCCAGTCTAAGATCGGACCGGGTCGAGGG
260 GAAGTTCATTCCATGTCTAAGCATACAGAGTTCATTCCCAGTCTAAGATCGAACCGGATCAAGGG
* * *
28098488 TTGCGGTAGCAGGACCAGTAGCAGGATCGACAGCATGCAGGGGGGACCTGGCTGATCCTCGACTT
325 TTACGGTAGCAGGACCAGTAGCAGGATCGACAGCATGCAGGGGGGACCTAGCCGATCCTCGACTT
* * **
28098553 GCGCATTCTGCCTCTCCGGTCGGCTGAGCCCCCGCACGCTCATTTTTTGGGTTGGCTTTGGCATA
390 GCGCATTCTGCCTCTCCGGTCGGCTAAGCACCCGCACGCTCATTTCGTGGGTTGGCTTTGGCATA
* * ** *
28098618 CGGAGTTCATTCCATGTCTAAGCCCCAGCTGGACCAAGAGTTGTGGTAGTTGGACTAGCAGCGAG
455 CGGAGTTCATTCCATGTCTAAGACCCAACTGGACCAAGAGTTGTGGTAGCCGGACCAGCAGCGAG
28098683 ATCGGC
520 ATCGGC
28098689 AGCACGCAGAGGGGGATTGGGCTGAT-CCTGGGTTTGCGCATTCTACGTCTCCAGCCTG-CTGAG
1 AGCACGCAGAGGGGGATTGGGCTGATCCCT-GGTTTGCGCATTCTACGTCTCCAGCC-GACTGAG
* * *
28098752 CGCCTGCACGCCCGTTTCGTGGGTTGTCTAAGGCATAGGGAGTTCATTCCATGCCTAAGCCCCAG
64 CGCCCGCACGCCCGTTTCATGGGTTGGCTAAGGCATAGGGAGTTCATTCCATGCCTAAGCCCCAG
* * *
28098817 CCAGACCGAGGGTTGTGGTAACGGGATCGGCAGGACGTAGAAGG-GGACCGGGCCGATCCCCAGC
129 CCAGACCGAGGGTTGTGGCAACGGGATCGACAGGACGCAG-AGGAGGACCGGGCCGATCCCCAGC
* ** ** *
28098881 TTGCGCATTTTGCCTCT-CAGGCCGTCTGA-GCCTGCACGCTCGTTTCATGGGTTGGCTTAGGCA
193 TTACGCATTTTGCCTCTCCA-GCCAACTGAGGCCTAAACGCTAGTTTCATGGGTTGGCTTAGGCA
*
28098944 TACGAAGTTCATTCCATGTCTAAGCATACAGAGTTCATTCCCAGTCTAAGATCGAATCGGATCAA
257 TACGAAGTTCATTCCATGTCTAAGCATACAGAGTTCATTCCCAGTCTAAGATCGAACCGGATCAA
*
28099009 GGGTTACGGTAGTAGGACCAGTAGCAGGATCGACAGCATGCAGGGGGGACCTAGCCGATCCTC-A
322 GGGTTACGGTAGCAGGACCAGTAGCAGGATCGACAGCATGCAGGGGGGACCTAGCCGATCCTCGA
* *
28099073 GCTTGCGCATTCTGCCTCTTCGGTCGGCTAAGCACCCGTACGCTCATTTCGTGGGTTGGCTTTGG
387 -CTTGCGCATTCTGCCTCTCCGGTCGGCTAAGCACCCGCACGCTCATTTCGTGGGTTGGCTTTGG
* * *
28099138 CATACGGAGTTCATTCCATGTCTAAGATCCAACTGGACCGAGGGTTGTGGTAGCCGGACCAGCAG
451 CATACGGAGTTCATTCCATGTCTAAGACCCAACTGGACCAAGAGTTGTGGTAGCCGGACCAGCAG
28099203 CGAGATCGGC
516 CGAGATCGGC
28099213 AGCACGCAGAGGGGGATTGGGCT
1 AGCACGCAGAGGGGGATTGGGCT
28099236 CTTGTGCATT
Statistics
Matches: 496, Mismatches: 45, Indels: 13
0.90 0.08 0.02
Matches are distributed among these distances:
523 1 0.00
524 298 0.60
525 13 0.03
526 180 0.36
527 4 0.01
ACGTcount: A:0.19, C:0.27, G:0.31, T:0.23
Consensus pattern (525 bp):
AGCACGCAGAGGGGGATTGGGCTGATCCCTGGTTTGCGCATTCTACGTCTCCAGCCGACTGAGCG
CCCGCACGCCCGTTTCATGGGTTGGCTAAGGCATAGGGAGTTCATTCCATGCCTAAGCCCCAGCC
AGACCGAGGGTTGTGGCAACGGGATCGACAGGACGCAGAGGAGGACCGGGCCGATCCCCAGCTTA
CGCATTTTGCCTCTCCAGCCAACTGAGGCCTAAACGCTAGTTTCATGGGTTGGCTTAGGCATACG
AAGTTCATTCCATGTCTAAGCATACAGAGTTCATTCCCAGTCTAAGATCGAACCGGATCAAGGGT
TACGGTAGCAGGACCAGTAGCAGGATCGACAGCATGCAGGGGGGACCTAGCCGATCCTCGACTTG
CGCATTCTGCCTCTCCGGTCGGCTAAGCACCCGCACGCTCATTTCGTGGGTTGGCTTTGGCATAC
GGAGTTCATTCCATGTCTAAGACCCAACTGGACCAAGAGTTGTGGTAGCCGGACCAGCAGCGAGA
TCGGC
Found at i:28099348 original size:26 final size:26
Alignment explanation
Indices: 28099299--28099351 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
28099289 GTTGGCTTAG
* *
28099299 GCATACAGAGTTCATTGCATGTCTAA
1 GCATACAAAGTTCATTCCATGTCTAA
28099325 GCATACAAAGTTCATTCCCA-GTCTAA
1 GCATACAAAGTTCATT-CCATGTCTAA
28099351 G
1 G
28099352 ACTTTGAGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 22 0.92
27 2 0.08
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (26 bp):
GCATACAAAGTTCATTCCATGTCTAA
Found at i:28100347 original size:159 final size:158
Alignment explanation
Indices: 28100085--28100390 Score: 409
Period size: 159 Copynumber: 1.9 Consensus size: 158
28100075 AGGACTGGAT
* * * *
28100085 CGAGGGTTGTGGCAGCAGGATCGACAGCACGCAGGGGGGACTGGGTCGATCCTCGTTTTACGCAT
1 CGAGGGTTATGGCAGCAGGATCGACAGCACGCAGGGGGGACCGGGTCGATCCCCGTCTTACGCAT
** * *
28100150 TTTGCCTCTCCGATCGGTTGAGCTCCCGCACGCCCGTTTCGTGGGTTGGCTAAGGCATAGGGAGC
66 TTTGCCTCTCCGATCGACTGAGCGCCCGCACGCCCGTTTCGTGGGTTGGCTAAGGCATACGGAGC
28100215 TCATTCCATGTCTAAGCCCCAGCCGGAC
131 TCATTCCATGTCTAAGCCCCAGCCGGAC
* ** * * *
28100243 CGAGGGTTATGGCAGCGGGATCGGTAGGACGCAGAGGGGGACCGGGTCGATCCCCAG-CTTGCGT
1 CGAGGGTTATGGCAGCAGGATCGACAGCACGCAG-GGGGGACCGGGTCGATCCCC-GTCTTACGC
* * *
28100307 ATTTTGCCTCTCCG-TCCGACTGAGCGCCCGCATGCTCGTTTCGTGGGTTGGCTTAGGCATACGG
64 ATTTTGCCTCTCCGAT-CGACTGAGCGCCCGCACGCCCGTTTCGTGGGTTGGCTAAGGCATACGG
*
28100371 AGTTCATTCCATGTCTAAGC
128 AGCTCATTCCATGTCTAAGC
28100391 ATATGGAGTT
Statistics
Matches: 127, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
158 30 0.24
159 96 0.76
160 1 0.01
ACGTcount: A:0.16, C:0.27, G:0.33, T:0.24
Consensus pattern (158 bp):
CGAGGGTTATGGCAGCAGGATCGACAGCACGCAGGGGGGACCGGGTCGATCCCCGTCTTACGCAT
TTTGCCTCTCCGATCGACTGAGCGCCCGCACGCCCGTTTCGTGGGTTGGCTAAGGCATACGGAGC
TCATTCCATGTCTAAGCCCCAGCCGGAC
Found at i:28100392 original size:26 final size:26
Alignment explanation
Indices: 28100363--28100415 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28100353 GTTGGCTTAG
28100363 GCATACGGAGTTCATT-CCATGTCTAA
1 GCATACGGAGTTCATTCCCA-GTCTAA
*
28100389 GCATATGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
28100415 G
1 G
28100416 ATCGGACCGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAGTCTAA
Found at i:28101645 original size:159 final size:158
Alignment explanation
Indices: 28101260--28101956 Score: 542
Period size: 159 Copynumber: 4.3 Consensus size: 158
28101250 GCGTCCGTAG
*
28101260 GCTCGTTTTGTGGGTTGACTTAGGCATACGGAGTTCATTCCCA-GTCTAAGATTAGATCAGACCG
1 GCTCGTTTCGTGGGTTGACTTAGGCATACGGAGTTCATT-CCATGTCTAAGATTAGATCAGACCG
* * * ** * * *
28101324 AGGGTTGCGACAGTAGGATCGGTATCACGCAGGGGGGACCGGGTCGATCCATGGCTTGCGCATTC
65 AGGGTTGCGGCAGCAGGATCGGTAGCACATAGGGGGGACCGGGCCGATCCATGACTTACGCATTC
* * * **
28101389 TACCTCTT-CGGCCGACCGAGTGCCCGCAC
130 TGCCT-TTCCGACCGACTGAGCACCCGCAC
* * * * * *** * *
28101418 ACTTGTTTCATGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCCCAG-CCGGACCG
1 GCTCGTTTCGTGGGTTGACTTAGGCATACGGAGTTCATTCCATGTCTAAG-ATTAGATCAGACCG
* * * * * *
28101482 AGGGTTGTGGCAGCGGGATTGGCAGCACATAGAGGGGGACCGGGCCGATCCTTGACTTACACATT
65 AGGGTTGCGGCAGCAGGATCGGTAGCACATAG-GGGGGACCGGGCCGATCCATGACTTACGCATT
* * * *
28101547 ATGCCTTTCCGATCGACTTAGCACCCACAC
129 CTGCCTTTCCGACCGACTGAGCACCCGCAC
* * ** *
28101577 GCTCATTTCGTGGGTTGACTTAGGCATACGGAGTTCATTCCCA-GTCTAAGATTGGATTGGATCG
1 GCTCGTTTCGTGGGTTGACTTAGGCATACGGAGTTCATT-CCATGTCTAAGATTAGATCAGACCG
* * * * * *
28101641 AGGGTAGCGGCAGCAGGATCGATAGCATGCAT-GGAGGGATCGGGCTGATCCCTGACTTACGCAT
65 AGGGTTGCGGCAGCAGGATCGGTAGCA--CATAGGGGGGACCGGGCCGATCCATGACTTACGCAT
* *
28101705 TCTGCCTCTCC-AGCCGGCTGAGCACCCGCAC
128 TCTGCCTTTCCGA-CCGACTGAGCACCCGCAC
* * * *
28101736 GCTTGTTTCGTGGGTTGGCTTAGGCATACGGAGTACATTCCATGTCTAAGATTAGATCAGATCGA
1 GCTCGTTTCGTGGGTTGACTTAGGCATACGGAGTTCATTCCATGTCTAAGATTAGATCAGACCGA
* * **
28101801 GGGTTGTGGCAGCAGGACTAGCTGCAGGATCGGTAGCACGTAGGGAGGGATCGGGCCGATCCCCG
66 GGG-T-T----GC-GG-C-A---GCAGGATCGGTAGCACATAGGG-GGGACCGGGCCGATCCATG
* * * * * ** * * * *
28101866 GCTTGCACATTCTACCTTTCCAATAGGCTGAGCGCTCGGAC
118 ACTTACGCATTCTGCCTTTCCGACCGACTGAGCACCCGCAC
* * *
28101907 GCTTGTTTTGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAG
1 GCTCGTTTCGTGGGTTGACTTAGGCATACGGAGTTCATTCCATGTCTAAG
28101957 CCCCAACCGA
Statistics
Matches: 425, Mismatches: 89, Indels: 37
0.77 0.16 0.07
Matches are distributed among these distances:
157 3 0.01
158 76 0.18
159 219 0.52
160 5 0.01
161 3 0.01
165 2 0.00
166 2 0.00
167 1 0.00
168 1 0.00
169 2 0.00
170 2 0.00
171 108 0.25
172 1 0.00
ACGTcount: A:0.20, C:0.25, G:0.31, T:0.25
Consensus pattern (158 bp):
GCTCGTTTCGTGGGTTGACTTAGGCATACGGAGTTCATTCCATGTCTAAGATTAGATCAGACCGA
GGGTTGCGGCAGCAGGATCGGTAGCACATAGGGGGGACCGGGCCGATCCATGACTTACGCATTCT
GCCTTTCCGACCGACTGAGCACCCGCAC
Found at i:28101975 original size:171 final size:171
Alignment explanation
Indices: 28101653--28102041 Score: 462
Period size: 171 Copynumber: 2.3 Consensus size: 171
28101643 GGTAGCGGCA
* * * * * * *
28101653 GCAGGATCGATAGCATGCATGGAGGGATCGGGCTGATCCCTGACTTACGCATTCTGCCTCTCCAG
1 GCAGGATCGATAGCATGCAGGGAGGGATCGGGCTGATCCCCGGCTTGCACATTCTACCTCTCCAA
*
28101718 CCGGCTGAGCACCCGCACGCTTGTTTCGTGGGTTGGCTTAGGCATACGGAGTACATTCCATGTCT
66 CAGGCTGAGCACCCGCACGCTTGTTTCGTGGGTTGGCTTAGGCATACGGAGTACATTCCATGTCT
** * *
28101783 AAGATTAGATCAGATCGAGGGTTGTGGCAGCAGGACTAG-CT
131 AAGACCAGACCAGACCGAGGGTTGTGGCAGCAGGAC-AGACT
* * * * *
28101824 GCAGGATCGGTAGCACGTAGGGAGGGATCGGGCCGATCCCCGGCTTGCACATTCTACCTTTCCAA
1 GCAGGATCGATAGCATGCAGGGAGGGATCGGGCTGATCCCCGGCTTGCACATTCTACCTCTCCAA
* * * * * *
28101889 TAGGCTGAGCGCTCGGACGCTTGTTTTGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCT
66 CAGGCTGAGCACCCGCACGCTTGTTTCGTGGGTTGGCTTAGGCATACGGAGTACATTCCATGTCT
* ** *
28101954 AAGCCCCA-ACC-GAACCGAGGGTTGTGGTGGCAGGACCGACT
131 AAG-ACCAGACCAG-ACCGAGGGTTGTGGCAGCAGGACAGACT
*
28101995 GCAGGATCGATAGCATGCAGAGG-GGGATCGGGCTGATCCCCAGCTTG
1 GCAGGATCGATAGCATGCAG-GGAGGGATCGGGCTGATCCCCGGCTTG
28102042 TGCATTATGC
Statistics
Matches: 182, Mismatches: 32, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
170 2 0.01
171 177 0.97
172 3 0.02
ACGTcount: A:0.20, C:0.25, G:0.32, T:0.23
Consensus pattern (171 bp):
GCAGGATCGATAGCATGCAGGGAGGGATCGGGCTGATCCCCGGCTTGCACATTCTACCTCTCCAA
CAGGCTGAGCACCCGCACGCTTGTTTCGTGGGTTGGCTTAGGCATACGGAGTACATTCCATGTCT
AAGACCAGACCAGACCGAGGGTTGTGGCAGCAGGACAGACT
Found at i:28102068 original size:171 final size:170
Alignment explanation
Indices: 28101653--28102094 Score: 453
Period size: 171 Copynumber: 2.6 Consensus size: 170
28101643 GGTAGCGGCA
* * * *
28101653 GCAGGATCGATAGCATGCATGGAGGGATCGGGCTGAT-CCCTGACTTACGCATTCTGCCTCTCCA
1 GCAGGATCGATAGCATGCA-GGGGGGATCGGGCTGATCCCCAG-CTTGCGCATTCTGCCTCTTCA
*
28101717 GCCGGCTGAGCACCCGCACGCTTGTTTCGTGGGTTGGCTTAGGCATACGGAGTACATTCCATGTC
64 GTCGGCTGAGCACCCGCACGCTTGTTTCGTGGGTTGGCTTAGGCATACGGAGTACATTCCATGTC
** * * *
28101782 TAAGATTAGATCAGATCGAGGGTTGTGGCAGCAGGACTAGCT
129 TAAGACCAGACCAGACCGAGGGTTGTGGCAGCAGGACGAGCT
* * * * * * *
28101824 GCAGGATCGGTAGCACGTAGGGAGGGATCGGGCCGATCCCCGGCTTGCACATTCTACCT-TTCCA
1 GCAGGATCGATAGCATGCAGGG-GGGATCGGGCTGATCCCCAGCTTGCGCATTCTGCCTCTT-CA
* * * * * * *
28101888 ATAGGCTGAGCGCTCGGACGCTTGTTTTGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTC
64 GTCGGCTGAGCACCCGCACGCTTGTTTCGTGGGTTGGCTTAGGCATACGGAGTACATTCCATGTC
* **
28101953 TAAGCCCCA-ACC-GAACCGAGGGTTGTGGTGGCAGGACCGA-CT
129 TAAG-ACCAGACCAG-ACCGAGGGTTGTGGCAGCAGGA-CGAGCT
* * **
28101995 GCAGGATCGATAGCATGCAGAGGGGGATCGGGCTGATCCCCAGCTTGTGCATTATGCCTCTTTGG
1 GCAGGATCGATAGCATGCAG-GGGGGATCGGGCTGATCCCCAGCTTGCGCATTCTGCCTCTTCAG
** * * *
28102060 TCGGCTGAGTGCCTGCACGCTCGTTTCATGGGTTG
65 TCGGCTGAGCACCCGCACGCTTGTTTCGTGGGTTG
28102095 ACTCAGCCAT
Statistics
Matches: 217, Mismatches: 46, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
170 4 0.02
171 202 0.93
172 11 0.05
ACGTcount: A:0.19, C:0.25, G:0.32, T:0.25
Consensus pattern (170 bp):
GCAGGATCGATAGCATGCAGGGGGGATCGGGCTGATCCCCAGCTTGCGCATTCTGCCTCTTCAGT
CGGCTGAGCACCCGCACGCTTGTTTCGTGGGTTGGCTTAGGCATACGGAGTACATTCCATGTCTA
AGACCAGACCAGACCGAGGGTTGTGGCAGCAGGACGAGCT
Found at i:28102442 original size:80 final size:79
Alignment explanation
Indices: 28102305--28102463 Score: 230
Period size: 80 Copynumber: 2.0 Consensus size: 79
28102295 TTCATTCCAT
* * *
28102305 GTCTAAGCCCCAGTCGGACCGAGGGTTGTCGTAACGGGACCGGCAGCACGCAGAGGGGGATCGAG
1 GTCTAAGCCCCAGTCGGACCGAGGGTTGTCGCAACGGGACCGACAGCACGCAGA-GGGGACCGAG
*
28102370 TCGATCCCCGACTTG
65 CCGATCCCCGACTTG
* * *
28102385 GTCTAAGCCCCAGTCGGACCGAGGGTTGTGGCAGCGGGACCGACAGCACGCTA-AGGGGACCGGG
1 GTCTAAGCCCCAGTCGGACCGAGGGTTGTCGCAACGGGACCGACAGCACGC-AGAGGGGACCGAG
28102449 CCGATCCCCGACTTG
65 CCGATCCCCGACTTG
28102464 TGCATTATGC
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
79 22 0.31
80 48 0.68
81 1 0.01
ACGTcount: A:0.19, C:0.30, G:0.36, T:0.14
Consensus pattern (79 bp):
GTCTAAGCCCCAGTCGGACCGAGGGTTGTCGCAACGGGACCGACAGCACGCAGAGGGGACCGAGC
CGATCCCCGACTTG
Found at i:28102673 original size:157 final size:158
Alignment explanation
Indices: 28102425--28102730 Score: 429
Period size: 157 Copynumber: 1.9 Consensus size: 158
28102415 GCAGCGGGAC
* * **
28102425 CGACAGCACGCTAAGGGGACCGGGCCGATCCCCGACTTGTGCATTATGCCTCTCCGATTGGCTCA
1 CGACAGCACGCTAAGGGGACCGAGCCAATCCCCGACTTGTGCATTATGCCTCTCCGACCGGCTCA
*
28102490 GCACCCGCACGCTCTTTTCGTGGGTTGACTTAGGCATACGGAGTTCATTCCCAGTCTAAGATCAG
66 GCACCCGCACGCTCTTTTCGTGGGTTGACTTAGGCATACGGAATTCATTCCCAGTCTAAGATCAG
*
28102555 ATCGAACCGAGGGTTGCGATAGTAGGAT
131 ACCGAACCGAGGGTTGCGATAGTAGGAT
* * * *
28102583 CGACAGCACGC-AGGGGGGACCGAGCCAAT-CCCGACTTGTGCATTCTGCCTCTCCGACCGGTTG
1 CGACAGCACGCTA-AGGGGACCGAGCCAATCCCCGACTTGTGCATTATGCCTCTCCGACCGGCTC
** * * *
28102646 AGTGCCCGCACGTTCGTTTT-GTGGGTTGGCTTAGGCATATGGAATTCATTCCCAGTCTAAGATC
65 AGCACCCGCACGCTC-TTTTCGTGGGTTGACTTAGGCATACGGAATTCATTCCCAGTCTAAGATC
*
28102710 AGACCGGACCGAGGGTTGCGA
129 AGACCGAACCGAGGGTTGCGA
28102731 CAGCAGGTCC
Statistics
Matches: 130, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
157 102 0.78
158 28 0.22
ACGTcount: A:0.20, C:0.28, G:0.29, T:0.23
Consensus pattern (158 bp):
CGACAGCACGCTAAGGGGACCGAGCCAATCCCCGACTTGTGCATTATGCCTCTCCGACCGGCTCA
GCACCCGCACGCTCTTTTCGTGGGTTGACTTAGGCATACGGAATTCATTCCCAGTCTAAGATCAG
ACCGAACCGAGGGTTGCGATAGTAGGAT
Found at i:28102747 original size:157 final size:158
Alignment explanation
Indices: 28102399--28102747 Score: 420
Period size: 157 Copynumber: 2.2 Consensus size: 158
28102389 AAGCCCCAGT
* * * * * *
28102399 CGGACCGAGGGTTGTGGCAGCGGGACC-GACAGCACGCTAAGGGGACCGGGCCGATCCCCGACTT
1 CGGACCGAGGGTTGCGACAGCAGGTCCAG-CAGCACGCTAAGGGGACCGAGCCAATCCCCGACTT
**
28102463 GTGCATTATGCCTCTCCGATTGGCTCAGCACCCGCACGCTCTTTTCGTGGGTTGACTTAGGCATA
65 GTGCATTATGCCTCTCCGACCGGCTCAGCACCCGCACGCTCTTTTCGTGGGTTGACTTAGGCATA
* *
28102528 CGGAGTTCATTCCCAGTCTAAGATCAGAT
130 CGGAATTCATTCCCAGTCTAAGATCAGAC
* * * * *
28102557 CGAACCGAGGGTTGCGATAGTAGGATCGA-CAGCACGC-AGGGGGGACCGAGCCAAT-CCCGACT
1 CGGACCGAGGGTTGCGACAGCAGG-TCCAGCAGCACGCTA-AGGGGACCGAGCCAATCCCCGACT
* * * ** * *
28102619 TGTGCATTCTGCCTCTCCGACCGGTTGAGTGCCCGCACGTTCGTTTT-GTGGGTTGGCTTAGGCA
64 TGTGCATTATGCCTCTCCGACCGGCTCAGCACCCGCACGCTC-TTTTCGTGGGTTGACTTAGGCA
*
28102683 TATGGAATTCATTCCCAGTCTAAGATCAGAC
128 TACGGAATTCATTCCCAGTCTAAGATCAGAC
28102714 CGGACCGAGGGTTGCGACAGCAGGTCCAGCAGCA
1 CGGACCGAGGGTTGCGACAGCAGGTCCAGCAGCA
28102748 GGATCGACAG
Statistics
Matches: 159, Mismatches: 27, Indels: 11
0.81 0.14 0.06
Matches are distributed among these distances:
156 3 0.02
157 112 0.70
158 43 0.27
159 1 0.01
ACGTcount: A:0.20, C:0.28, G:0.31, T:0.21
Consensus pattern (158 bp):
CGGACCGAGGGTTGCGACAGCAGGTCCAGCAGCACGCTAAGGGGACCGAGCCAATCCCCGACTTG
TGCATTATGCCTCTCCGACCGGCTCAGCACCCGCACGCTCTTTTCGTGGGTTGACTTAGGCATAC
GGAATTCATTCCCAGTCTAAGATCAGAC
Found at i:28102893 original size:170 final size:169
Alignment explanation
Indices: 28102578--28103034 Score: 393
Period size: 170 Copynumber: 2.7 Consensus size: 169
28102568 TTGCGATAGT
*
28102578 AGGATCGACAGCACGCAGGGGGGACCGAGCCAATCCCGACTTGTGCATTCTGCCTCTCCGACCGG
1 AGGATCGACAGCACGCAGGGGGGACCGAGCCAATCCCGACTTGCGCATTCTGCCTCTCCGACCGG
** * *
28102643 TTGAGTGCCCGCACGTTCGTTTTGTGGGTTGGCTTAGGCATATGGAATTCATTCCCAGTCTAAGA
66 TTGAGCACACGCACGTTCGTTTCGTGGGTTGGCTTAGGCATATGGAATTCATTCCCAGTCTAAGA
* *
28102708 TCAGACCGGACCGAGGGTTGCGACAGCAGGTCCAGCAGC
131 CCAGACCGAACCGAGGGTTGCGACAGCAGGTCCAGCAGC
* * * * * * * * *
28102747 AGGATCGACAGCACGGAGGGGGGACCGGGTCGATCCTTGGCTTGCGCATTCTGCCTCTTCGGCTG
1 AGGATCGACAGCACGCAGGGGGGACCGAGCCAATCC-CGACTTGCGCATTCTGCCTCTCCGACCG
* * * *
28102812 GTTGAGCACATGTACGCTT-GTTTCGTGGGTTGGCTTAGGCATATGGAGTTCGTT-CCATGTCTA
65 GTTGAGCACACGCACG-TTCGTTTCGTGGGTTGGCTTAGGCATATGGAATTCATTCCCA-GTCTA
* * * *
28102875 A-ACCCCAG-TCGAACCGAGGGTTGTGGCAGCAGGACC-GACAGC
128 AGA--CCAGACCGAACCGAGGGTTGCGACAGCAGGTCCAG-CAGC
* ** * * ** * * ** * * * **
28102917 GGGATCGGTAGCATGTAAAAGGTGACCGGGCTGATCCCCAACTTACGCATTATGCCTCTCCGGTC
1 AGGATCGACAGCACG-CAGGGGGGACCGAGCCAAT-CCCGACTTGCGCATTCTGCCTCTCCGACC
* * * * * *
28102982 GGTTGAGCACCCACACGCTCGTTTCGTGGGTTGACTTAGGCATACGGAGTTCA
64 GGTTGAGCACACGCACGTTCGTTTCGTGGGTTGGCTTAGGCATATGGAATTCA
28103035 GCCCCATTTT
Statistics
Matches: 229, Mismatches: 50, Indels: 16
0.78 0.17 0.05
Matches are distributed among these distances:
169 37 0.16
170 110 0.48
171 80 0.35
172 2 0.01
ACGTcount: A:0.19, C:0.26, G:0.31, T:0.23
Consensus pattern (169 bp):
AGGATCGACAGCACGCAGGGGGGACCGAGCCAATCCCGACTTGCGCATTCTGCCTCTCCGACCGG
TTGAGCACACGCACGTTCGTTTCGTGGGTTGGCTTAGGCATATGGAATTCATTCCCAGTCTAAGA
CCAGACCGAACCGAGGGTTGCGACAGCAGGTCCAGCAGC
Found at i:28103073 original size:58 final size:58
Alignment explanation
Indices: 28103003--28103120 Score: 200
Period size: 58 Copynumber: 2.0 Consensus size: 58
28102993 CACACGCTCG
* * *
28103003 TTTCGTGGGTTGACTTAGGCATACGGAGTTCAGCCCCATTTTAAGCATACGGAGTTCA
1 TTTCGTGGGTTGACTTAGGCATACGGAGTTCAGCCCCAGTCTAAGCATACAGAGTTCA
*
28103061 TTTCGTGGGTTGACTTAGGCATACGGAGTTCATCCCCAGTCTAAGCATACAGAGTTCA
1 TTTCGTGGGTTGACTTAGGCATACGGAGTTCAGCCCCAGTCTAAGCATACAGAGTTCA
28103119 TT
1 TT
28103121 CCCAGTCTAA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (58 bp):
TTTCGTGGGTTGACTTAGGCATACGGAGTTCAGCCCCAGTCTAAGCATACAGAGTTCA
Found at i:28103115 original size:26 final size:26
Alignment explanation
Indices: 28103079--28103131 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
28103069 GTTGACTTAG
*
28103079 GCATACGGAGTTCATCCCCAGTCTAA
1 GCATACAGAGTTCATCCCCAGTCTAA
*
28103105 GCATACAGAGTTCATTCCCAGTCTAA
1 GCATACAGAGTTCATCCCCAGTCTAA
28103131 G
1 G
28103132 ATCAGACCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (26 bp):
GCATACAGAGTTCATCCCCAGTCTAA
Found at i:28103434 original size:159 final size:159
Alignment explanation
Indices: 28103192--28103606 Score: 431
Period size: 159 Copynumber: 2.6 Consensus size: 159
28103182 GATCGGGCCG
* * * * * * * * * *
28103192 ATCCTCGGCTTGCATATTCTACCTTTTCGGCCGGTTGAGTGCCCGCACGCCCATTTCATGGGTTG
1 ATCCCCGGCTTACACATTATACCTCTTCGGCCAGCTGAGCGCCCGCACGCTCGTTTCATGGGTTG
* * * * *
28103257 GCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCCCGG-TCGGATCGAGGGTTGTGGCAGCGGG
66 GCTTAGGCATATGGAGTTCATTCCATGTCTAAGACCAGGCT-GGACCGAGGGTTGTGGCAGCAGG
* * * *
28103321 ACCGATAGCATGTAGAGGGGAAGC-GGGTCG
130 ACCGACAACACGTAGAGGGGAA-CTGGGTCA
* * * * * ** * * *
28103351 ATCCTCGGCTTGCGCATTATGCCTCTTTGGCTGGCTTAGCGCCCGCATGCTCGTTTCATGGGTTA
1 ATCCCCGGCTTACACATTATACCTCTTCGGCCAGCTGAGCGCCCGCACGCTCGTTTCATGGGTTG
* * *
28103416 ACTTATGCATATGGAGTTCATTCCCA-GTCTAAGATCAGGCTGGACCGAGGGTTGTGGCAGCAGG
66 GCTTAGGCATATGGAGTTCATT-CCATGTCTAAGACCAGGCTGGACCGAGGGTTGTGGCAGCAGG
* * *
28103480 ATCGACAACACGTAGGGGGGGACTGGGTCA
130 ACCGACAACACGTAGAGGGGAACTGGGTCA
* *
28103510 ATCCCCGGCTTACACATTCTACCTCTTCGGCCAGCTGAGCGCCCGCACGCTCGTTTCGTGGGTTG
1 ATCCCCGGCTTACACATTATACCTCTTCGGCCAGCTGAGCGCCCGCACGCTCGTTTCATGGGTTG
* *
28103575 GCTTAGGCTTATGAAGTTCATTCCATGTCTAA
66 GCTTAGGCATATGGAGTTCATTCCATGTCTAA
28103607 CCATATGGAG
Statistics
Matches: 207, Mismatches: 45, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
158 4 0.02
159 199 0.96
160 4 0.02
ACGTcount: A:0.18, C:0.26, G:0.30, T:0.27
Consensus pattern (159 bp):
ATCCCCGGCTTACACATTATACCTCTTCGGCCAGCTGAGCGCCCGCACGCTCGTTTCATGGGTTG
GCTTAGGCATATGGAGTTCATTCCATGTCTAAGACCAGGCTGGACCGAGGGTTGTGGCAGCAGGA
CCGACAACACGTAGAGGGGAACTGGGTCA
Found at i:28104337 original size:26 final size:26
Alignment explanation
Indices: 28104301--28104353 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28104291 GTTGACTTAG
28104301 GCATACAGAGTTCATCCCCAGTCTAA
1 GCATACAGAGTTCATCCCCAGTCTAA
* * *
28104327 GCATACGGAGTTCATTCCTAGTCTAA
1 GCATACAGAGTTCATCCCCAGTCTAA
28104353 G
1 G
28104354 TTTGAACCGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (26 bp):
GCATACAGAGTTCATCCCCAGTCTAA
Found at i:28104602 original size:25 final size:25
Alignment explanation
Indices: 28104568--28104620 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
28104558 AGGGGGATCG
28104568 GGCCGGTCCCCGGTGTCACGGACTA
1 GGCCGGTCCCCGGTGTCACGGACTA
28104593 GGCCGGTCCCCGGTGTCACGGACTA
1 GGCCGGTCCCCGGTGTCACGGACTA
28104618 GGC
1 GGC
28104621 TTTCTCTCAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.11, C:0.36, G:0.38, T:0.15
Consensus pattern (25 bp):
GGCCGGTCCCCGGTGTCACGGACTA
Found at i:28107715 original size:26 final size:26
Alignment explanation
Indices: 28107679--28107731 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28107669 GGCTCAAAAT
*
28107679 CTTAGACTGGGAATGAACTCTGTATG
1 CTTAGACTGGGAATGAACTCTATATG
* *
28107705 CTTAGACTGGGGATGATCTCTATATG
1 CTTAGACTGGGAATGAACTCTATATG
28107731 C
1 C
28107732 CTAAGTCAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCTATATG
Found at i:28109030 original size:26 final size:26
Alignment explanation
Indices: 28108979--28109031 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
28108969 GGCTCAAAAT
*
28108979 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCATATG
* * *
28109005 CTTAGACTGGGGATGATCTCTATATG
1 CTTAGACTGGGAATGAACTCCATATG
28109031 C
1 C
28109032 CTAAGTCAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCATATG
Found at i:28109409 original size:26 final size:26
Alignment explanation
Indices: 28109358--28109410 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
28109348 CCCGTCCAAT
*
28109358 CTTAGATCAGGAATGAACTCTATATG
1 CTTAGATCAGGAATGAACTCCATATG
*
28109384 CTTAGA-CATGGAATGAACTCCGTATG
1 CTTAGATCA-GGAATGAACTCCATATG
28109410 C
1 C
28109411 CTAAGCCAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 2 0.08
26 22 0.92
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (26 bp):
CTTAGATCAGGAATGAACTCCATATG
Found at i:28109883 original size:26 final size:26
Alignment explanation
Indices: 28109854--28109906 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
28109844 CCGGTCTGAT
*
28109854 CTTAGATTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
*
28109880 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28109906 C
1 C
28109907 CTAAGTCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28110614 original size:26 final size:26
Alignment explanation
Indices: 28110576--28110628 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28110566 GGCTCAAAAT
28110576 CTTAGACTGGGAATGAACTCCATATG
1 CTTAGACTGGGAATGAACTCCATATG
*
28110602 CTTAGACAT-GGAATGAACTCCGTATG
1 CTTAGAC-TGGGAATGAACTCCATATG
28110628 C
1 C
28110629 CTAAGCCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCATATG
Found at i:28110789 original size:26 final size:26
Alignment explanation
Indices: 28110753--28110806 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
28110743 CCCGGTCTGA
*
28110753 GCTTAGGCTGGGAATGAACTCCGTAT
1 GCTTAGACTGGGAATGAACTCCGTAT
*
28110779 GCTTAGACTGGGGATGAACTCCGTAT
1 GCTTAGACTGGGAATGAACTCCGTAT
28110805 GC
1 GC
28110807 CTAAGTCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.26
Consensus pattern (26 bp):
GCTTAGACTGGGAATGAACTCCGTAT
Found at i:28111977 original size:26 final size:26
Alignment explanation
Indices: 28111926--28111978 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
28111916 CTGATCGGAT
* * *
28111926 CTTAGACTGGGAATTAACTCCTTATG
1 CTTAGACTGGGAATGAACTACGTATG
*
28111952 CTTAGACTGGGGATGAACTACGTATG
1 CTTAGACTGGGAATGAACTACGTATG
28111978 C
1 C
28111979 CTAATGTGCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTACGTATG
Found at i:28112294 original size:26 final size:26
Alignment explanation
Indices: 28112242--28112294 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
28112232 CTGGTCCGAT
*
28112242 CTTAGACTAGGAATGAACTTCGCATG
1 CTTAGACTAGGAATGAACTCCGCATG
*
28112268 CTTAGAC-ATGGAATGAACTCCGTATG
1 CTTAGACTA-GGAATGAACTCCGCATG
28112294 C
1 C
28112295 CTAAGCCAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (26 bp):
CTTAGACTAGGAATGAACTCCGCATG
Found at i:28112819 original size:159 final size:156
Alignment explanation
Indices: 28112268--28112876 Score: 451
Period size: 159 Copynumber: 3.8 Consensus size: 156
28112258 ACTTCGCATG
* * * * * *
28112268 CTTAGAC-ATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGTGTACGGGTGTGCAC
1 CTTAGACTA-GGAATGAACTCCGTATGCCTAAGTCAACCCATGAAACGAGCGTGCAGG-CT-CAG
* * * * * * * * ** *
28112332 CCAG-TCGGAGAGGTAGAATGCACAAGTCGAGGATCGGCCCGATCCCCCCTGTGTAATATCGATC
63 CCGGCT-AGAGAGGCAGAATGCGCAAGCCGAGGATCGACCCGATCCCCTCTGCGTGCTACCGATC
* * *
28112396 CTGCTGCTGCAACCATC-AGTCCGGTCTGAT
127 CTGCTACTACAACCCTCGA-TCCGGTCTGAT
* * *
28112426 CTTAGACTGGGAATGAACTCTGTATGCCTAAGTCAACCCATGAAACGAGCGTGCGAGCGCTGAGC
1 CTTAGACTAGGAATGAACTCCGTATGCCTAAGTCAACCCATGAAACGAGCGTGC-AG-GCTCAGC
* * * * * * * * * * *
28112491 AGAC-CGAAAAGGTATAATGCGCAAGCCG-GGTATCGGCCCGGTCCCCCTCAGCATGCTACCGGT
64 CGGCTAG-AGAGGCAGAATGCGCAAGCCGAGG-ATCGACCCGAT-CCCCTCTGCGTGCTACCGAT
* * * * * **
28112554 CCTACTACAACAACCCTAGATTC-GACTGGGG
126 CCTGCTACTACAACCCTCGATCCGGTCT-GAT
* * * * * *
28112585 CTTAGAC-ATGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAACGGGTGTGCTGGCATTCAA
1 CTTAGACTA-GGAATGAACTCCGTATGCCTAAGTCAACCCATGAAACGAGCGTGCAGGC--TCAG
* * * * **
28112649 TCGG-TCGGAGAGCCAGAATGCGCAAGCCGAGGATCGACCCGGTTCCCCTCTGCGTGCTGTCGAT
63 CCGGCT-AGAGAGGCAGAATGCGCAAGCCGAGGATCGACCC-GATCCCCTCTGCGTGCTACCGAT
28112713 CCTGCTACTACAACCCTCGATCCGGTCTGAT
126 CCTGCTACTACAACCCTCGATCCGGTCTGAT
* *
28112744 CTTAGACTAGGAATGAACTCCGTATGCCTAAGTCAACCCACGAAATGAGCGTGCAAGAGCTCAGC
1 CTTAGACTAGGAATGAACTCCGTATGCCTAAGTCAACCCATGAAACGAGCGTGC-AG-GCTCAGC
* * * * * *
28112809 CGGCTAGAGAGGCATAATGCGCAAGCTGGGGATCAACCCGATCCCTTCTGCGTGCTGCCGATCCT
64 CGGCTAGAGAGGCAGAATGCGCAAGCCGAGGATCGACCCGATCCCCTCTGCGTGCTACCGATCCT
28112874 GCT
129 GCT
28112877 GTCGGTCCTG
Statistics
Matches: 345, Mismatches: 85, Indels: 42
0.73 0.18 0.09
Matches are distributed among these distances:
157 5 0.01
158 107 0.31
159 218 0.63
160 13 0.04
161 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.26, T:0.20
Consensus pattern (156 bp):
CTTAGACTAGGAATGAACTCCGTATGCCTAAGTCAACCCATGAAACGAGCGTGCAGGCTCAGCCG
GCTAGAGAGGCAGAATGCGCAAGCCGAGGATCGACCCGATCCCCTCTGCGTGCTACCGATCCTGC
TACTACAACCCTCGATCCGGTCTGAT
Found at i:28113818 original size:26 final size:26
Alignment explanation
Indices: 28113780--28113832 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
28113770 TGGTTAAAAT
28113780 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28113806 CTTAGACAT-GGAATGAACTCCGTATG
1 CTTAGAC-TGGGAATGAACTCCGTATG
28113832 C
1 C
28113833 CTAGCAACCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 25 0.96
27 1 0.04
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28114525 original size:26 final size:26
Alignment explanation
Indices: 28114487--28114539 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28114477 CCAGTCCGAT
28114487 CTTAGACTGGGAATGAACTACGTATG
1 CTTAGACTGGGAATGAACTACGTATG
*
28114513 CTTAGACAT-GGAATGAACTCCGTATG
1 CTTAGAC-TGGGAATGAACTACGTATG
28114539 C
1 C
28114540 CTAAGCCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTACGTATG
Found at i:28114772 original size:512 final size:511
Alignment explanation
Indices: 28113929--28114940 Score: 1219
Period size: 512 Copynumber: 2.0 Consensus size: 511
28113919 TTCGTGCTGT
*
28113929 CGATCCTACTACTGGTCCTACTACCGCAACCCTTGGTCCGGTCCAATCTTAGACTGGGAATGAAC
1 CGATCCTACTACTGGTCCTACTACCGCAACCCTTGGTCCAGTCCAATCTTAGACTGGGAATGAAC
* * * * *
28113994 TCTGTATGCACAGACATAGAATTAACTCCGTCCGCCTTAGCCAACTAGGAAACGAGCGTGCGGGC
66 TCTGTATGCACAGACATAGAATGAACTCCGTACGCCTAAGCCAACCAGGAAACGAGCGTGCAGGC
* * * ** * * ** * *
28114059 GCTCAGTCGGCCGAAGAGGTAGAATGCGCAAGTCGGGGATCGGCTCGATCCCCCTACATGCTGTC
131 ACTCAGCCGACCGAAGAGACAGAATGCACAAGCCGGGGATCAACCCGATCCCCCTACATGCTATC
* * * * *
28114124 AATCCTGCTGCCATAAGCCTCAGTCCGATCCAATCTTAGATTGGGAATGAACTTCGTGTGCCTAA
196 AATCCTGCTACCACAACCCTCACTCCGATCCAATCTTAGACTGGGAATGAACTTCGTGTGCCTAA
* * ** * *
28114189 GTCAACCCACGGAACGAGCGTGCGGGCACTAAGCCGGCAGAAGAGGCATAATGCGCAAGCTGGGT
261 GTCAACCCACGAAAAGAGCGTGCAAGCACTAAGCCGACAGAAGAGGCATAATGCGCAAGCTGGGG
** *
28114254 ATCGACCCGATCCCCCTCTACGTGCTACCGATCCCGCTGCCACAACCCTTGG-TCTGACTGGGGC
326 ATCGACCCGATCCCCCTCTACGTGCTACCGATCCCGCAACCACAACCCTCGGTTC-GACTGGGGC
**
28114318 TTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGGGCATACGGGTGCTCAGTC
390 TTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGGGCATACGGGTGCTCAACC
* *
28114383 GACT-AGAAAGGTAGAATGCACAAGTCGAGGATCAGCCTGATCCCCCCTACGTGTGGC
455 G-CTCAGAAAGGCAGAATGCACAAGTCGAGGATCAGCCCGATCCCCCCTACGTGTGGC
** ** * *
28114440 CGATCCTACTGTTGGTCCTACTGTCGCAACCCTTGTTCCAGTCCGATCTTAGACTGGGAATGAAC
1 CGATCCTACTACTGGTCCTACTACCGCAACCCTTGGTCCAGTCCAATCTTAGACTGGGAATGAAC
** * * **
28114505 TAC-GTATGCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATTAAACGAGCGTGCAG
66 T-CTGTATGCACAGACATAGAATGAACTCCGTACGCCTAAGCCAA-CCAGGAAACGAGCGTGCAG
* *
28114569 GCACTCAGCCGACTGGAGAGACAGAATGCACAAGCCGGGGATCAACCCGATCCCCCTACATGCTA
129 GCACTCAGCCGACCGAAGAGACAGAATGCACAAGCCGGGGATCAACCCGATCCCCCTACATGCTA
* * ** ** *
28114634 TCGATCTTGCTACTGCAACCCTCACTCCGATCTGATCTTAGGCTGGGAATGAAC-TC-TGTAAGC
194 TCAATCCTGCTACCACAACCCTCACTCCGATCCAATCTTAGACTGGGAATGAACTTCGTGT--GC
* ** * * * * *
28114697 CTAAGTCAACCCATGAAAAGAGCGTGCAAGTGCTGAA-TCGACCGGAGTGGCATATTGCGCAAG-
257 CTAAGTCAACCCACGAAAAGAGCGTGCAAGCACT-AAGCCGACAGAAGAGGCATAATGCGCAAGC
* * * *
28114760 TCGGGGATCGACCCGATCCCCCTCTGCGTGCTACCGGTCCTGCAACCACAACCCTCGGTTCGGCT
321 T-GGGGATCGACCCGATCCCCCTCTACGTGCTACCGATCCCGCAACCACAACCCTCGGTTCGACT
* * *
28114825 GGGTCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGGGCGTGCGGGTGCT
385 GGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGGGCATACGGGTGCT
* * ** *
28114890 CAACCGGTCAGAGAGGCAGAATGCGTAAGTCGAGGATCAGCCCGGTCCCCC
450 CAACCGCTCAGAAAGGCAGAATGCACAAGTCGAGGATCAGCCCGATCCCCC
28114941 TTGCATGCTG
Statistics
Matches: 417, Mismatches: 76, Indels: 15
0.82 0.15 0.03
Matches are distributed among these distances:
510 3 0.01
511 97 0.23
512 313 0.75
513 4 0.01
ACGTcount: A:0.25, C:0.30, G:0.25, T:0.20
Consensus pattern (511 bp):
CGATCCTACTACTGGTCCTACTACCGCAACCCTTGGTCCAGTCCAATCTTAGACTGGGAATGAAC
TCTGTATGCACAGACATAGAATGAACTCCGTACGCCTAAGCCAACCAGGAAACGAGCGTGCAGGC
ACTCAGCCGACCGAAGAGACAGAATGCACAAGCCGGGGATCAACCCGATCCCCCTACATGCTATC
AATCCTGCTACCACAACCCTCACTCCGATCCAATCTTAGACTGGGAATGAACTTCGTGTGCCTAA
GTCAACCCACGAAAAGAGCGTGCAAGCACTAAGCCGACAGAAGAGGCATAATGCGCAAGCTGGGG
ATCGACCCGATCCCCCTCTACGTGCTACCGATCCCGCAACCACAACCCTCGGTTCGACTGGGGCT
TAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGGGCATACGGGTGCTCAACCG
CTCAGAAAGGCAGAATGCACAAGTCGAGGATCAGCCCGATCCCCCCTACGTGTGGC
Found at i:28114866 original size:159 final size:157
Alignment explanation
Indices: 28114513--28114882 Score: 366
Period size: 157 Copynumber: 2.3 Consensus size: 157
28114503 ACTACGTATG
* * *
28114513 CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATTAAACGAGCGTGCAGGCACTCAGC
1 CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCAAGCACTCAAC
* * *
28114578 CGACTGGAGAGACAGAATGCACAAGCCGGGGATCAACCCGATCCCCCTACATGCTATCGATCTTG
66 CGACCGGAGAGACAGAATGCACAAGCCGGGGATCAACCCGATCCCCCTACATGCTACCGATCCTG
* ** *
28114643 CTACTGCAACCCTCACTCCGATCTGAT
131 CAACCACAACCCTCACTCCGAGCTGAT
* * * * * ** *
28114670 CTTAGGC-TGGGAATGAACTCTGTAAGCCTAAGTCAACCCATGAAAAGAGCGTGCAAGTGCTGAA
1 CTTAGACAT-GGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCAAGCACTCAA
* * * * * * * * * * *
28114734 TCGACCGGAGTGGCATATTGCGCAAGTCGGGGATCGACCCGATCCCCCTCTGCGTGCTACCGGTC
65 CCGACCGGAGAGACAGAATGCACAAGCCGGGGATCAACCCGAT-CCCC-CTACATGCTACCGATC
** * *
28114799 CTGCAACCACAACCCTCGGTTCG-GCTGGGT
128 CTGCAACCACAACCCTCACTCCGAGCT-GAT
* * *
28114829 CTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGGGCGTGC
1 CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGC
28114883 GGGTGCTCAA
Statistics
Matches: 167, Mismatches: 41, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
156 1 0.01
157 85 0.51
158 6 0.04
159 74 0.44
160 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.24, T:0.19
Consensus pattern (157 bp):
CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCAAGCACTCAAC
CGACCGGAGAGACAGAATGCACAAGCCGGGGATCAACCCGATCCCCCTACATGCTACCGATCCTG
CAACCACAACCCTCACTCCGAGCTGAT
Found at i:28114920 original size:159 final size:158
Alignment explanation
Indices: 28114513--28114949 Score: 402
Period size: 159 Copynumber: 2.8 Consensus size: 158
28114503 ACTACGTATG
* ** *
28114513 CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATTAAACGAGCGTGCAGGCACTCAGC
1 CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCAGGTGCTCAAC
* * * * *
28114578 C-GACTGGAGAGACAGAATGCACAAGCCGGGGATCAACCCGAT-CCCC-CTACATGCTATCGATC
66 CGGAC-GGAGAGGCAGAATGCGCAAGTCGGGGATC-ACCCGATCCCCCTCTGCATGCTACCGATC
* * ** *
28114640 TTGCTACTGCAACCCTCACTCCGATCTGAT
129 CTGCAACCACAACCCTCACTCCGAGCTGAT
* * * * * * *
28114670 CTTAGGC-TGGGAATGAACTCTGTAAGCCTAAGTCAACCCATGAAAAGAGCGTGCAAGTGCTGAA
1 CTTAGACAT-GGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCAGGTGCTCAA
* * * * * *
28114734 TC-GACCGGAGTGGCATATTGCGCAAGTCGGGGATCGACCCGATCCCCCTCTGCGTGCTACCGGT
65 CCGGA-CGGAGAGGCAGAATGCGCAAGTCGGGGATC-ACCCGATCCCCCTCTGCATGCTACCGAT
** * *
28114798 CCTGCAACCACAACCCTCGGTTCG-GCTGGGT
128 CCTGCAACCACAACCCTCACTCCGAGCT-GAT
* * * *
28114829 CTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGGGCGTGCGGGTGCTCAAC
1 CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCAGGTGCTCAAC
* * * * *
28114894 CGGTCAGAGAGGCAGAATGCGTAAGTCGAGGATCAGCCCGGTCCCCCT-TGCATGCT
66 CGGACGGAGAGGCAGAATGCGCAAGTCGGGGATCA-CCCGATCCCCCTCTGCATGCT
28114950 GTCGTAACCC
Statistics
Matches: 219, Mismatches: 53, Indels: 15
0.76 0.18 0.05
Matches are distributed among these distances:
156 1 0.00
157 84 0.38
158 15 0.07
159 117 0.53
160 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.26, T:0.19
Consensus pattern (158 bp):
CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCAGGTGCTCAAC
CGGACGGAGAGGCAGAATGCGCAAGTCGGGGATCACCCGATCCCCCTCTGCATGCTACCGATCCT
GCAACCACAACCCTCACTCCGAGCTGAT
Found at i:28115016 original size:26 final size:26
Alignment explanation
Indices: 28114975--28115027 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28114965 TCGGTCTGAT
28114975 CTTAGACTGGGAATGAACTCCATATG
1 CTTAGACTGGGAATGAACTCCATATG
*
28115001 CTTAGACTGAGG-ATGAACTCCGTATG
1 CTTAGACTG-GGAATGAACTCCATATG
28115027 C
1 C
28115028 CTAAGTCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 23 0.92
27 2 0.08
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCATATG
Found at i:28115583 original size:26 final size:26
Alignment explanation
Indices: 28115540--28115590 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
28115530 CTGGTCTGAT
*
28115540 CTTAGACTGGGAAAGAACTTTGTATC
1 CTTAGACTGGGAAAGAACTCTGTATC
*
28115566 CTTAGACTGTGG-ATGAACTCTGTAT
1 CTTAGACTG-GGAAAGAACTCTGTAT
28115591 GCCTAAGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (26 bp):
CTTAGACTGGGAAAGAACTCTGTATC
Found at i:28115946 original size:26 final size:26
Alignment explanation
Indices: 28115894--28115946 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28115884 CTGGTCCAAT
*
28115894 CTTAGACTGGGAATGAACTTCGCATG
1 CTTAGACTGGGAATGAACTCCGCATG
* *
28115920 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGCATG
28115946 C
1 C
28115947 CTAAGTTAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGCATG
Found at i:28116533 original size:26 final size:26
Alignment explanation
Indices: 28116495--28116547 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28116485 GGCTCAAAAT
*
28116495 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCATATG
28116521 CTTAGACAT-GGAATGAACTCCATATG
1 CTTAGAC-TGGGAATGAACTCCATATG
28116547 C
1 C
28116548 CTAAGCCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCATATG
Found at i:28116822 original size:159 final size:159
Alignment explanation
Indices: 28116521--28116822 Score: 335
Period size: 159 Copynumber: 1.9 Consensus size: 159
28116511 ACTCCGTATG
* *
28116521 CTTAGACATGGAATGAACTCCATATGCCTAAGCCAACCCATGAAATGAGCATGCGAGCGCTTAGC
1 CTTAGACATGGAATGAACTCCATACGCCTAAGCCAACCCACGAAATGAGCATGCGAGCGCTTAGC
* * * * * **
28116586 CGATCAGAGAGATACAATGCGCAAGCCGGGGATCAGCCTGATTCCCTCCTGTGTGCTGTCGATCC
66 CGATCAGAGAGACACAATGCGCAAGCCGGGGATCAACCCGAGTCCCTCCTCTGTGCTACCGATCC
* * *
28116651 TGCTATCGCAACCCTCAGACTGGTCCGAT
131 CGCTACCACAACCCTCAGACTGGTCCGAT
** * * *
28116680 CTTAGAC-TGGGAATGAACTCTGTACGCCTAAGTCAACCCACGAAATGAGCGTGCGAGTG-TTGA
1 CTTAGACAT-GGAATGAACTCCATACGCCTAAGCCAACCCACGAAATGAGCATGCGAGCGCTT-A
* * * *
28116743 GCCGGTCAGAGAGGCATAATGCGCAAGCTGGGGATCAACCCG-GTCCC-CCTCTACGTGCTACC-
64 GCCGATCAGAGAGACACAATGCGCAAGCCGGGGATCAACCCGAGTCCCTCCTCT--GTGCTACCG
28116805 AGTCCCGCTACCACAACC
127 A-TCCCGCTACCACAACC
28116823 ATGGGTCAAA
Statistics
Matches: 117, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
157 4 0.03
158 8 0.07
159 105 0.90
ACGTcount: A:0.25, C:0.30, G:0.25, T:0.20
Consensus pattern (159 bp):
CTTAGACATGGAATGAACTCCATACGCCTAAGCCAACCCACGAAATGAGCATGCGAGCGCTTAGC
CGATCAGAGAGACACAATGCGCAAGCCGGGGATCAACCCGAGTCCCTCCTCTGTGCTACCGATCC
CGCTACCACAACCCTCAGACTGGTCCGAT
Found at i:28117029 original size:26 final size:26
Alignment explanation
Indices: 28116999--28117049 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
28116989 GTTTTGATCC
*
28116999 TAGACTGGGAATGAACTCCGTATGCT
1 TAGACTGGGAATGAACTCCCTATGCT
*
28117025 TAGACTGGGGATGAACTCCCTATGC
1 TAGACTGGGAATGAACTCCCTATGC
28117050 CTAAGTCAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (26 bp):
TAGACTGGGAATGAACTCCCTATGCT
Done.