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 306 of 402
Found at i:28828096 original size:25 final size:26
Alignment explanation
Indices: 28828050--28828101 Score: 97
Period size: 25 Copynumber: 2.0 Consensus size: 26
28828040 CTGATCTGAT
28828050 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28828076 CTTAGACTGGG-ATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28828101 C
1 C
28828102 CTAAGTCAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 15 0.58
26 11 0.42
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28828821 original size:26 final size:26
Alignment explanation
Indices: 28828782--28828834 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28828772 GGCTCAAACT
28828782 CTTAGACTGAGAATGAACTCCGTATG
1 CTTAGACTGAGAATGAACTCCGTATG
*
28828808 CTTAGACATG-GAATGAACTCTGTATG
1 CTTAGAC-TGAGAATGAACTCCGTATG
28828834 C
1 C
28828835 CTAAGCCAAC
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:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (26 bp):
CTTAGACTGAGAATGAACTCCGTATG
Found at i:28829150 original size:158 final size:158
Alignment explanation
Indices: 28828807--28829150 Score: 370
Period size: 158 Copynumber: 2.2 Consensus size: 158
28828797 AACTCCGTAT
*
28828807 GCTTAGACATGGAATGAAC-TCTGTATGCCTAAGCCAACCCACGAAATGAGCATACGGGCACTCA
1 GCTTAGACATGGAATGAACTTC-GTATGCCTAAGCCAACCCACGAAACGAGCATACGGGCACTCA
* * * * * * *
28828871 GTTGGCCAGAGAGGTAGAATGCGCAAGCCAGGGAGCAGCTCGGTCCCCTCTACATGCTACCGGTC
65 GCTGGCCAGAGAGGCAGAATACGCAAGCCAGGGAGCAGCCCGATCCCCCCTACATGCTACCGATC
* *
28828936 CAACTACCAGAACCCTCGATCTGGCTGGG
130 CAACTACCACAACCCTCGATCTGGCTGGA
* * * * * *
28828965 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAACGGGCGTACGGGCTCTCAG
1 GCTTAGACATGGAATGAACTTCGTATGCCTAAGCCAACCCACGAAACGAGCATACGGGCACTCAG
** * ** *** *
28829030 CTGGCTGGAGAGGCAGAATACGTAAGCTGGGGATTGGCCCGATCCCCCCTACGTGCTACCGATCC
66 CTGGCCAGAGAGGCAGAATACGCAAGCCAGGGAGCAGCCCGATCCCCCCTACATGCTACCGATCC
* ** *
28829095 TACTGTCACAACCCTCGGTCTGGTCT-GA
131 AACTACCACAACCCTCGATCTGG-CTGGA
*
28829123 TCTTAGAC-TGGGAATGAACTTCGTATGC
1 GCTTAGACAT-GGAATGAACTTCGTATGC
28829151 TTAATCTGGG
Statistics
Matches: 151, Mismatches: 32, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
157 1 0.01
158 147 0.97
159 3 0.02
ACGTcount: A:0.25, C:0.29, G:0.26, T:0.20
Consensus pattern (158 bp):
GCTTAGACATGGAATGAACTTCGTATGCCTAAGCCAACCCACGAAACGAGCATACGGGCACTCAG
CTGGCCAGAGAGGCAGAATACGCAAGCCAGGGAGCAGCCCGATCCCCCCTACATGCTACCGATCC
AACTACCACAACCCTCGATCTGGCTGGA
Found at i:28829968 original size:26 final size:26
Alignment explanation
Indices: 28829927--28829979 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
28829917 TCGATCCGAT
28829927 CTTAGATTGGGAATGAACTCCATATG
1 CTTAGATTGGGAATGAACTCCATATG
28829953 CTTAGATTAGGG-ATGAACTCCATATG
1 CTTAGATT-GGGAATGAACTCCATATG
28829979 C
1 C
28829980 CAAAGTCAAC
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:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (26 bp):
CTTAGATTGGGAATGAACTCCATATG
Found at i:28830647 original size:158 final size:157
Alignment explanation
Indices: 28830148--28830647 Score: 399
Period size: 158 Copynumber: 3.2 Consensus size: 157
28830138 ACTCCATATG
* * * *
28830148 CTTAGACATGGAATGAACTCTGTATGGCTAAGCCAACACATGAAACGAGGGTGTGGGCACTCAAC
1 CTTAGACATGGAATGAACTCTGTATGCCTAAGCCAACCCATGAAACG-GGGTGCGGGCACTCAGC
* * * * * *
28830213 TG-GCTGAAGAGGTAGAATGTGCAAGCCGGGGA-CTAGC-CCAGTCCACCC-TGCGTGCTGTCGA
65 CGATC-GAAGAGGCAGAATGCGCAAGCCGGGGATC-GGCTCGA-TCC-CCCTTGCGTGCTGTCGA
* ** *
28830274 TCCTGCTGCCGCAACTCTCAATCCGGTTCAAT
126 TCCTGCTGCCGCAACCCTCGGTCCGGTCCAAT
* ** * * ** * *
28830306 CTTAGAC-TGGGAATGAACT-TTTATGCCTAAGTTAACCCACGAAATGAGCATTCGGGCACTGAG
1 CTTAGACAT-GGAATGAACTCTGTATGCCTAAGCCAACCCATGAAACG-GGGTGCGGGCACTCAG
* * * * * * * * * * *
28830369 -CGAGTTGGAGAGGCATAATGCACAAGTCGAGGATTGGCTTG-TTCCCCTCTGCGTGCTGCCAAT
64 CCGA-TCGAAGAGGCAGAATGCGCAAGCCGGGGATCGGCTCGATCCCCCT-TGCGTGCTGTCGAT
* * ****
28830432 CCCGCTGCCACAACCCTCGGTCCGG-CTGGGG
127 CCTGCTGCCGCAACCCTCGGTCCGGTC-CAAT
** *
28830463 CTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAACGGGTGTGCGGGCGCTCAGC
1 CTTAGACATGGAATGAACTCTGTATGCCTAAGCCAACCCATGAAACGGG-GTGCGGGCACTCAGC
*
28830528 CGATCGAAGAGGCAGAATGCGCAAGCCGGGGATCGGCTCGATCCCCCTTACGTGCTGTCGATCCT
65 CGATCGAAGAGGCAGAATGCGCAAGCCGGGGATCGGCTCGATCCCCCTTGCGTGCTGTCGATCCT
* *
28830593 GTTGTCGCAACCCTCGGTCCGGTCCAAT
130 GCTGCCGCAACCCTCGGTCCGGTCCAAT
*
28830621 CTTAGAC-TGGGAATGAACTTTGTATGC
1 CTTAGACAT-GGAATGAACTCTGTATGC
28830648 TTAGACTGGG
Statistics
Matches: 253, Mismatches: 74, Indels: 30
0.71 0.21 0.08
Matches are distributed among these distances:
155 3 0.01
156 3 0.01
157 105 0.42
158 132 0.52
159 10 0.04
ACGTcount: A:0.23, C:0.27, G:0.28, T:0.22
Consensus pattern (157 bp):
CTTAGACATGGAATGAACTCTGTATGCCTAAGCCAACCCATGAAACGGGGTGCGGGCACTCAGCC
GATCGAAGAGGCAGAATGCGCAAGCCGGGGATCGGCTCGATCCCCCTTGCGTGCTGTCGATCCTG
CTGCCGCAACCCTCGGTCCGGTCCAAT
Found at i:28830673 original size:26 final size:26
Alignment explanation
Indices: 28830621--28830673 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28830611 CCGGTCCAAT
* *
28830621 CTTAGACTGGGAATGAACTTTGTATG
1 CTTAGACTGGGAATGAACTTCGCATG
*
28830647 CTTAGACTGGGGATGAACTTCGCATG
1 CTTAGACTGGGAATGAACTTCGCATG
28830673 C
1 C
28830674 CTCAAGTCAA
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):
CTTAGACTGGGAATGAACTTCGCATG
Found at i:28831531 original size:26 final size:26
Alignment explanation
Indices: 28831495--28831547 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28831485 CCGATCTGAT
28831495 CTTAGACTGGGAATGAACT-TGGTATG
1 CTTAGACTGGGAATGAACTCT-GTATG
*
28831521 CTTAGACTGGGGATGAACTCTGTATG
1 CTTAGACTGGGAATGAACTCTGTATG
28831547 C
1 C
28831548 CTAAGTCAAC
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:0.25, C:0.15, G:0.30, T:0.30
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCTGTATG
Found at i:28831910 original size:26 final size:26
Alignment explanation
Indices: 28831874--28831926 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
28831864 CCAGTCCGAT
*
28831874 CTTAGACTGGGAATGAACTTTGTATG
1 CTTAGACTGGGAATGAACTCTGTATG
*
28831900 CTTAGACTGGGGATGAACTCTGTATG
1 CTTAGACTGGGAATGAACTCTGTATG
28831926 C
1 C
28831927 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:0.15, G:0.28, T:0.32
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCTGTATG
Found at i:28832044 original size:184 final size:179
Alignment explanation
Indices: 28831672--28832261 Score: 578
Period size: 184 Copynumber: 3.2 Consensus size: 179
28831662 CTGCTATCGT
* * *
28831672 AACCCTCGATTCGGTCTGATCTTAGACTGGGAATGAACTCAGTATGCTTAGAGATGGAATGAA-T
1 AACCCTCGATCCAGTCTGATCTTAGACTGGGAATGAACTCAGTATGCTTAGA-CTGGAATGAACT
** * * * *
28831736 CCATATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGTTCAACCGGCGGAGAGGCAAAATGA
65 CTGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTC-ACTGGCGAAGAGGCAGAATGA
* * *
28831801 GCAAGCCGGGGACCGACCTGACCCCCC-CTACGTGCTGTCGATCCTGCTATCGC
129 GTAAGCCGGGGACCGACCTGACCCCCCTGTA--TGCTGTCGATCCTGCTCT-GC
* * ** *
28831854 AACCCTCGGTCCAGTCCGATCTTAGACTGGGAATGAACTTTGTATGCTTAGACTGGGGATGAACT
1 AACCCTCGATCCAGTCTGATCTTAGACTGGGAATGAACTCAGTATGCTTAGACT-GGAATGAACT
* * * * *
28831919 CTGTATGCCTAAGTCAACCTACGAAATGAGCGTGCAGGAGCTCAGCTGGCCGAAGAGGCAGAATG
65 CTGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCA-CTGG-CGAAGAGGCAGAATG
* * * * *
28831984 TGTAAGCCGGGGATCGACCCTGTCCCCCCTGTATGCTGTCAATCCTGCTGCTGT
128 AGTAAGCCGGGGACCGA-CCTGACCCCCCTGTATGCTGTCGATCCTGCT-CTGC
* *
28832038 AACCCTCGATCC-GATCTAATCTTAGACTGGGAATGAACTCAGTATGCTTAGACATGGAATAAAC
1 AACCCTCGATCCAG-TCTGATCTTAGACTGGGAATGAACTCAGTATGCTTAGAC-TGGAATGAAC
* * *
28832102 TCTGTATGTCTAAGCCAACCCATGAAACGAGCGTGCGGGCGCTCAATCGGTC-AGAGAGGCAGAA
64 TCTGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCACT-GG-CGA-AGAGGCAGAA
* * * * ** * * *
28832166 TGCGTAAGTCGGGGACCGACTTGGCCCCCCTTGCGTGCTATCGATCCTACTACCGC
126 TGAGTAAGCCGGGGACCGACCTGACCCCCC-TGTATGCTGTCGATCCTGCT-CTGC
* * * *
28832222 AGCCCTC-AGTCCAGTCAGATCTTAAACTGGGAATGCACTC
1 AACCCTCGA-TCCAGTCTGATCTTAGACTGGGAATGAACTC
28832262 CGTGTGCCTA
Statistics
Matches: 333, Mismatches: 61, Indels: 26
0.79 0.15 0.06
Matches are distributed among these distances:
181 1 0.00
182 54 0.16
183 52 0.16
184 211 0.63
185 13 0.04
186 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.26, T:0.22
Consensus pattern (179 bp):
AACCCTCGATCCAGTCTGATCTTAGACTGGGAATGAACTCAGTATGCTTAGACTGGAATGAACTC
TGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCACTGGCGAAGAGGCAGAATGAGT
AAGCCGGGGACCGACCTGACCCCCCTGTATGCTGTCGATCCTGCTCTGC
Found at i:28832096 original size:26 final size:26
Alignment explanation
Indices: 28832058--28832109 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
28832048 CCGATCTAAT
*
28832058 CTTAGACTGGGAATGAACTCAGTATG
1 CTTAGACTGGGAATAAACTCAGTATG
*
28832084 CTTAGACAT-GGAATAAACTCTGTATG
1 CTTAGAC-TGGGAATAAACTCAGTATG
28832110 TCTAAGCCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 22 0.96
27 1 0.04
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (26 bp):
CTTAGACTGGGAATAAACTCAGTATG
Found at i:28832438 original size:159 final size:158
Alignment explanation
Indices: 28832083--28832770 Score: 530
Period size: 159 Copynumber: 4.3 Consensus size: 158
28832073 AACTCAGTAT
* * * * * * *
28832083 GCTTAGACATGGAATAAACTCTGTATGTCTAAGCCAACCCATGAAACGAGCGTGCGGGCGCTCAA
1 GCTTAGAC-TGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCACTGAG
* ** * * * ** * ** ** *
28832148 TCGGTCAGAGAGGCAGAATGCGTAAGTCGGGGA-CCGACTTGGCCCCCCT-TGCGTGCTATCGAT
65 CCGACCGGAGAGGCATAATGCGCAACCCGGGGATCAG-CCCGATCCCCCTCTACGTGCTATCGAT
* * * * * ** *
28832211 CCTACTACCGCAGCCCTCAGTCCAG-TCAGA
129 CCTGCTGCCACAACCCTCGGTCTGGCT-AGG
* * * * * * *
28832241 TCTTAAACTGGGAATGCACTCCGTGTGCCTAAGTCAACCCATGAAACGAGCGTACGGGCACTGAG
1 GCTTAGACT-GGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCACTGAG
* * * *
28832306 CAGACCGTAGAGGCATAATGCGCAACCCGGGGGTCAGCCCGATCCCCCTCTACGTGCTACCGATC
65 CCGACCGGAGAGGCATAATGCGCAACCCGGGGATCAGCCCGATCCCCCTCTACGTGCTATCGATC
* **
28832371 CTGCTGCCACAACCATCGGTCCAGCTAGG
130 CTGCTGCCACAACCCTCGGTCTGGCTAGG
* * *
28832400 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCGCTCAG
1 GCTTAGAC-TGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCACTGAG
* * ** * *
28832465 CCGACCGGAGGGGCAGAATGCATAAGCCC-GAGATCATCCC-AGT-CCCC-CTACGTGCTATCGA
65 CCGACCGGAGAGGCATAATGCGCAA-CCCGGGGATCAGCCCGA-TCCCCCTCTACGTGCTATCGA
* * ** *
28832526 TCCTGCTACCGCAACCCTCGGTCTGGCCCGA
128 TCCTGCTGCCACAACCCTCGGTCTGGCTAGG
* * * ** *
28832557 TCTTAAACTAGGAATGAACTCCGTATGCATAAGTTAACCCACGAAATGAGCGTGCGGGCACTGAG
1 GCTTAGACT-GGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCACTGAG
* ** * * * *
28832622 CCGGCCGGAGAGGCATAATGCGCAAGTCGGGGATCGGCCCGATCTCCCTCTGCGTGC-AGTCGGT
65 CCGACCGGAGAGGCATAATGCGCAACCCGGGGATCAGCCCGATCCCCCTCTACGTGCTA-TCGAT
* ** *
28832686 -CTCACTGCCACAACCCTTAGTCTGGCTGGG
129 CCT-GCTGCCACAACCCTCGGTCTGGCTAGG
* *
28832716 GCTTAGACGTGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGGGCGTGC
1 GCTTAGAC-TGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGC
28832771 AAGCGCTCAG
Statistics
Matches: 414, Mismatches: 101, Indels: 29
0.76 0.19 0.05
Matches are distributed among these distances:
156 2 0.00
157 120 0.29
158 93 0.22
159 193 0.47
160 6 0.01
ACGTcount: A:0.24, C:0.31, G:0.27, T:0.18
Consensus pattern (158 bp):
GCTTAGACTGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCACTGAGC
CGACCGGAGAGGCATAATGCGCAACCCGGGGATCAGCCCGATCCCCCTCTACGTGCTATCGATCC
TGCTGCCACAACCCTCGGTCTGGCTAGG
Found at i:28832664 original size:316 final size:315
Alignment explanation
Indices: 28832083--28832901 Score: 969
Period size: 316 Copynumber: 2.6 Consensus size: 315
28832073 AACTCAGTAT
* * * *
28832083 GCTTAGACATGGAATAAACTCTGTATGTCTAAGCCAACCCATGAAACGAGCGTGCGGGCGCTCAA
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCGCTCAG
* * * ** * *
28832148 TCGGTCAGAGAGGCAGAATGCGTAAGTCGGGGACCGACTTGGCCCCCCTTGCGTGCTATCGATCC
66 TCGGCCAGAGAGGCAGAATGCGTAAG-CCGAGACCGACCCGGTCCCCC-TACGTGCTATCGATCC
* * * * * * * *
28832213 TACTACCGCAGCCCTCAGTCCAGTCAGATCTTAAACTGGGAATGCACTCCGTGTGCCTAAGTCAA
129 TGCTACCGCAACCCTCAGTCCGGCCCGATCTTAAACTGGGAATGAACTCCGTATGCATAAGTCAA
* * *
28832278 CCCATGAAACGAGCGTACGGGCACTGAGCAGACCGTAGAGGCATAATGCGCAACCCGGGGGTCAG
194 CCCACGAAACGAGCGTACGGGCACTGAGCAGACCGGAGAGGCATAATGCGCAACCCGGGGATCAG
* *
28832343 CCCGATCCCCCTCTACGTGCTA-CCGATC-CTGCTGCCACAACCATCGGTCCAGCTAGG
259 CCCGATCCCCCTCTACGTGC-AGCCGATCTC-ACTGCCACAACCATCAGTCCAGCTAGG
28832400 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCGCTCAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCGCTCAG
* * * * * * *
28832465 CCGACCGGAGGGGCAGAATGCATAAGCCCGAGATC-ATCCCAGTCCCCCTACGTGCTATCGATCC
66 TCGGCCAGAGAGGCAGAATGCGTAAG-CCGAGACCGA-CCCGGTCCCCCTACGTGCTATCGATCC
* * * *
28832529 TGCTACCGCAACCCTCGGTCTGGCCCGATCTTAAACTAGGAATGAACTCCGTATGCATAAGTTAA
129 TGCTACCGCAACCCTCAGTCCGGCCCGATCTTAAACTGGGAATGAACTCCGTATGCATAAGTCAA
* * * * ** *
28832594 CCCACGAAATGAGCGTGCGGGCACTGAGCCGGCCGGAGAGGCATAATGCGCAAGTCGGGGATCGG
194 CCCACGAAACGAGCGTACGGGCACTGAGCAGACCGGAGAGGCATAATGCGCAACCCGGGGATCAG
* * * * * * ** *
28832659 CCCGATCTCCCTCTGCGTGCAGTCGGTCTCACTGCCACAACCCTTAGTCTGGCTGGG
259 CCCGATCCCCCTCTACGTGCAGCCGATCTCACTGCCACAACCATCAGTCCAGCTAGG
* * * * **
28832716 GCTTAGACGTGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGGGCGTGCAAGCGCTCAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCGCTCAG
* * * *
28832781 TCGGCCAGAGAGGTAGAATGCGTAAGCCAAGGACCGACCCGGTCCCTCCCACGTGCTGTCGATCC
66 TCGGCCAGAGAGGCAGAATGCGTAAGCCGA-GACCGACCCGGTCCC-CCTACGTGCTATCGATCC
* * *
28832846 TGCTGCCGTAACCCTCAGTCCGGCCCGATCTTAGACTGGGAATGAACTCCGTATGC
129 TGCTACCGCAACCCTCAGTCCGGCCCGATCTTAAACTGGGAATGAACTCCGTATGC
28832902 TTAGACTGGG
Statistics
Matches: 421, Mismatches: 75, Indels: 12
0.83 0.15 0.02
Matches are distributed among these distances:
315 4 0.01
316 256 0.61
317 161 0.38
ACGTcount: A:0.24, C:0.31, G:0.27, T:0.18
Consensus pattern (315 bp):
GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCGCTCAG
TCGGCCAGAGAGGCAGAATGCGTAAGCCGAGACCGACCCGGTCCCCCTACGTGCTATCGATCCTG
CTACCGCAACCCTCAGTCCGGCCCGATCTTAAACTGGGAATGAACTCCGTATGCATAAGTCAACC
CACGAAACGAGCGTACGGGCACTGAGCAGACCGGAGAGGCATAATGCGCAACCCGGGGATCAGCC
CGATCCCCCTCTACGTGCAGCCGATCTCACTGCCACAACCATCAGTCCAGCTAGG
Found at i:28832904 original size:26 final size:26
Alignment explanation
Indices: 28832875--28832927 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28832865 CCGGCCCGAT
*
28832875 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACCCCGTATG
* *
28832901 CTTAGACTGGGGATGCACCCCGTATG
1 CTTAGACTGGGAATGAACCCCGTATG
28832927 C
1 C
28832928 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:0.23, C:0.25, G:0.28, T:0.25
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACCCCGTATG
Found at i:28834515 original size:26 final size:26
Alignment explanation
Indices: 28834463--28834515 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
28834453 GGCTCAAAAT
*
28834463 CTTAGACTGGGAATGAACTTCGTATG
1 CTTAGACTGGGAATGAACTTAGTATG
28834489 CTTAGACAT-GGAATGAACTCTAG-ATG
1 CTTAGAC-TGGGAATGAACT-TAGTATG
28834515 C
1 C
28834516 CTAAGCCAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 21 0.88
27 3 0.12
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTTAGTATG
Found at i:28834788 original size:158 final size:158
Alignment explanation
Indices: 28834488--28834789 Score: 365
Period size: 158 Copynumber: 1.9 Consensus size: 158
28834478 AACTTCGTAT
* * * * * * * *
28834488 GCTTAGACATGGAATGAACTCTAGATGCCTAAGCCAACCCATGAAATGAGCGTGCGGGTGCTCAG
1 GCTTAGACAAGGAATGAACTCCAGATGCCTAAGCCAACCAACGAAACGAGCGTACAGGTGCTCAA
* * * *
28834553 CCGATCGAAGAGGCAGAATGCGCAAGCCGGGGATCGGCCCGGTCCCCCCTGCATGCTACCGGTCT
66 CCGACCGAAGAGGCAGAATGCGCAAGCCGGGGATCGACCCGGTCCCCCATGCATGCTACCGATCT
* *
28834618 CGTTCCCACAACCTGTTGTCCAGTTGGG
131 CGCTACCACAACCTGTTGTCCAGTTGGG
** *
28834646 GCTTAGACAAGGAATGAACTCCCTATGCCTAAGCCAACCAACGAAACGGGCGTACAGGTGCTCAA
1 GCTTAGACAAGGAATGAACTCCAGATGCCTAAGCCAACCAACGAAACGAGCGTACAGGTGCTCAA
* * ** *
28834711 CCGGCC-AGAGAGGCAGAATGCGCAAGTCGGGGATCGACCCGGTCCCTTATGCGTGCTACCGATC
66 CCGACCGA-AGAGGCAGAATGCGCAAGCCGGGGATCGACCCGGTCCCCCATGCATGCTACCGATC
*
28834775 -CTGCTACCGCAACCT
130 TC-GCTACCACAACCT
28834790 CGGTCCAGTT
Statistics
Matches: 119, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
157 2 0.02
158 117 0.98
ACGTcount: A:0.24, C:0.30, G:0.28, T:0.18
Consensus pattern (158 bp):
GCTTAGACAAGGAATGAACTCCAGATGCCTAAGCCAACCAACGAAACGAGCGTACAGGTGCTCAA
CCGACCGAAGAGGCAGAATGCGCAAGCCGGGGATCGACCCGGTCCCCCATGCATGCTACCGATCT
CGCTACCACAACCTGTTGTCCAGTTGGG
Found at i:28834833 original size:26 final size:26
Alignment explanation
Indices: 28834804--28834856 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
28834794 CCAGTTCAAT
28834804 CTTAGACTGGGAATGAACTCCATATG
1 CTTAGACTGGGAATGAACTCCATATG
* *
28834830 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCATATG
28834856 C
1 C
28834857 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:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCATATG
Found at i:28835239 original size:26 final size:26
Alignment explanation
Indices: 28835187--28835239 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
28835177 GGAACAAAAT
*
28835187 CTTAGACTGGGAATGAACCCCGTATG
1 CTTAGACTGGGAATGAACCCCGGATG
* *
28835213 CTTAGACAT-GGAATGAACTCTGGATG
1 CTTAGAC-TGGGAATGAACCCCGGATG
28835239 C
1 C
28835240 CTAAGCCAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 22 0.96
27 1 0.04
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACCCCGGATG
Found at i:28835403 original size:26 final size:26
Alignment explanation
Indices: 28835373--28835424 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
28835363 CGGTCCAGTA
28835373 TTAGAC-TGGGAATGAACTCCGTATGC
1 TTAGACAT-GGAATGAACTCCGTATGC
28835399 TTAGACATGGAATGAACTCCGTATGC
1 TTAGACATGGAATGAACTCCGTATGC
28835425 CTAAGCCAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (26 bp):
TTAGACATGGAATGAACTCCGTATGC
Found at i:28835876 original size:26 final size:26
Alignment explanation
Indices: 28835840--28835892 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28835830 CCGGTCTGAT
* *
28835840 CTTAGACTGGGAATGGACTTCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
*
28835866 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28835892 C
1 C
28835893 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:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28836060 original size:26 final size:26
Alignment explanation
Indices: 28836024--28836076 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
28836014 CCAATTTGAT
28836024 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
*
28836050 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28836076 C
1 C
28836077 CTAAGCCAAC
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:0.21, G:0.28, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28836147 original size:184 final size:182
Alignment explanation
Indices: 28835829--28836437 Score: 601
Period size: 199 Copynumber: 3.2 Consensus size: 182
28835819 CAACTTTTGA
* * *
28835829 TCCGGTCTGATCTTAGACTGGGAATGGACTTCGTATGCTTAGACTGGGGATGAACTCCGTATGCC
1 TCCGATCTGATCTTAGACTGGGAATGAACTCCGTATGCTTAGACTGGGGATGAACTCCGTATGCC
* * * * * * * *
28835894 TAAGTCAACCCATGAAACGAGCATACGGGCACTCAGCCGACTGAAGAGGTAGAATGAGCAAGCCG
66 TAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAGCGGAC-GGAGAGGCAGAATGA-CAAGCCG
28835959 GGGATCGGCCCGATCCCCCCTGCGTGCTGCCGATCCTGCTGCCACCACCCTCGG
129 GGGATCGGCCCGATCCCCCCTGCGTGCTGCCGATCCTGCTGCCACCACCCTCGG
* *
28836013 TCCAATTTGATCTTAGACTGGGAATGAACTCCGTATGCTTAGACTGGGGATGAACTCCGTATGCC
1 TCCGATCTGATCTTAGACTGGGAATGAACTCCGTATGCTTAGACTGGGGATGAACTCCGTATGCC
* *
28836078 TAAGCCAACCCACGAAAC-ATGCGTGCGGGCGCTCAGCTGGTCGGAGAGGCAGAATGCACAAGTC
66 TAAGCCAACCCACGAAACGA-GCGTGCGGGCGCTCAGC-GGACGGAGAGGCAGAATG-ACAAGCC
* * * * * *
28836142 GGGGATTGGCTCGGTCCCCCCCTTACGTGCTACTGATCCTGCTGTTGGTCCTACTGTCGTAACCC
128 GGGGATCGGCCCGAT-CCCCCC-TGCGTGCTGCCGATCCTGC---T-G-CC-AC---C---ACCC
28836207 TCGGG
179 TC-GG
* * * *
28836212 TTCGATCTGATCTTAGATTGGGAATGAACTCCATATGCTTAGACAT-GGAATGAACTCCGTATGC
1 TCCGATCTGATCTTAGACTGGGAATGAACTCCGTATGCTTAGAC-TGGGGATGAACTCCGTATGC
* * * * *
28836276 CTAAGCCAACTCACGAAACGAGCGTGCGGGTGCTTAGCCGACCGGAGAGGCAGAATGTGCAAGCC
65 CTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAGCGGA-CGGAGAGGCAGAATG-ACAAGCC
* * * * * ** * *
28836341 AGGGATCGACCCAATCCCCTCCTGCGTGCTGTCGATCCTACTATCGCAACCCTCGG
128 GGGGATCGGCCCGATCCCC-CCTGCGTGCTGCCGATCCTGCTGCCACCACCCTCGG
* * * *
28836397 TCTGGTCCGATCTTAGACTGGTAATGAACTCCGTATGCTTA
1 TCCGATCTGATCTTAGACTGGGAATGAACTCCGTATGCTTA
28836438 AGTCAACCCA
Statistics
Matches: 346, Mismatches: 57, Indels: 43
0.78 0.13 0.10
Matches are distributed among these distances:
183 1 0.00
184 119 0.34
185 45 0.13
186 22 0.06
189 1 0.00
190 1 0.00
191 2 0.01
192 3 0.01
193 1 0.00
195 2 0.01
198 25 0.07
199 122 0.35
200 2 0.01
ACGTcount: A:0.22, C:0.28, G:0.27, T:0.22
Consensus pattern (182 bp):
TCCGATCTGATCTTAGACTGGGAATGAACTCCGTATGCTTAGACTGGGGATGAACTCCGTATGCC
TAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAGCGGACGGAGAGGCAGAATGACAAGCCGGG
GATCGGCCCGATCCCCCCTGCGTGCTGCCGATCCTGCTGCCACCACCCTCGG
Found at i:28836507 original size:159 final size:156
Alignment explanation
Indices: 28836249--28836750 Score: 521
Period size: 159 Copynumber: 3.2 Consensus size: 156
28836239 ACTCCATATG
*
28836249 CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACTCACGAAACGAGCGTGCGGGTGCTTAGC
1 CTTAGAC-TGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGTG-TTAGC
* * * *
28836314 CGACCGGAGAGGCAGAATGTGCAAGCCAGGGATCGACCCAATCCCCTCCTGCGTGCTGTCGATCC
64 TGACCGGAGAGGCAGAATG-CCAAGCCAGGGATCGGCCCGATCCCCTCCTGCGTGCTGTCGATCC
*
28836379 TACTATCGCAACCCTCGGTCTGGTCCGAT
128 TACTACCGCAACCCTCGGTCTGGTCCGAT
* * * *
28836408 CTTAGACTGGTAATGAACTCCGTATGCTTAAGTCAACCCACGAAATGAGCGTGCGGGCGTTGAGC
1 CTTAGACTGG-AATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGTGTT-AGC
* * * * * * * * **
28836473 TGACCGAAGTGGCATAATGCCTAAGCCGGGGATCGGCCTGGTCACCCT-CTACATGCTACCGATC
64 TGACCGGAGAGGCAGAATGCC-AAGCCAGGGATCGGCCCGATC-CCCTCCTGCGTGCTGTCGATC
* * * * *
28836537 CCACTACCACAACCCTTGGTCTGGCTGCG-G
127 CTACTACCGCAACCCTCGGTCTGG-TCCGAT
* * * * * *
28836567 CTTAGATATGGAATGAACTCCCTATGCCTAAGCCAACCCA-TAAACGGGCGTGTGGGTGCTCAG-
1 CTTAGA-CTGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGTG-TTAGC
* * *
28836630 TCGGCCGGAGAGGCAGAATGCGCAAGTCAGGGATTGGCCCGAT-CCCTCCTGCGTGCTGTCGATC
64 T-GACCGGAGAGGCAGAATGC-CAAGCCAGGGATCGGCCCGATCCCCTCCTGCGTGCTGTCGATC
*
28836694 CTGCTACCGCAACCCTCGGTTCT-GTCCGAT
127 CTACTACCGCAACCCTCGG-TCTGGTCCGAT
28836724 CTTAGACTGGAAATGAACTCCGTATGC
1 CTTAGACTGG-AATGAACTCCGTATGC
28836751 TTAGACTTGG
Statistics
Matches: 274, Mismatches: 56, Indels: 28
0.77 0.16 0.08
Matches are distributed among these distances:
156 10 0.04
157 50 0.18
158 54 0.20
159 150 0.55
160 10 0.04
ACGTcount: A:0.23, C:0.30, G:0.27, T:0.21
Consensus pattern (156 bp):
CTTAGACTGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGTGTTAGCTG
ACCGGAGAGGCAGAATGCCAAGCCAGGGATCGGCCCGATCCCCTCCTGCGTGCTGTCGATCCTAC
TACCGCAACCCTCGGTCTGGTCCGAT
Found at i:28836753 original size:26 final size:26
Alignment explanation
Indices: 28836724--28836776 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28836714 TCTGTCCGAT
28836724 CTTAGAC-TGGAAATGAACTCCGTATG
1 CTTAGACTTGG-AATGAACTCCGTATG
*
28836750 CTTAGACTTGGGATGAACTCCGTATG
1 CTTAGACTTGGAATGAACTCCGTATG
28836776 C
1 C
28836777 CTAAGTCAGC
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:0.25, T:0.28
Consensus pattern (26 bp):
CTTAGACTTGGAATGAACTCCGTATG
Found at i:28837131 original size:26 final size:26
Alignment explanation
Indices: 28837094--28837144 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
28837084 TGATCTAATC
*
28837094 TTAGACTGGGAATGAACTCCGTATGT
1 TTAGACTGGGAATAAACTCCGTATGT
*
28837120 TTAGACAT-GGAATAAACTTCGTATG
1 TTAGAC-TGGGAATAAACTCCGTATG
28837145 CCTAAGCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 21 0.95
27 1 0.05
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (26 bp):
TTAGACTGGGAATAAACTCCGTATGT
Found at i:28837978 original size:26 final size:26
Alignment explanation
Indices: 28837949--28838001 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
28837939 CCAGTCTGAT
28837949 CTTAGACTGGGAATGAACTCCATATG
1 CTTAGACTGGGAATGAACTCCATATG
* *
28837975 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCATATG
28838001 C
1 C
28838002 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:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCATATG
Found at i:28838527 original size:159 final size:158
Alignment explanation
Indices: 28838117--28838576 Score: 471
Period size: 158 Copynumber: 2.9 Consensus size: 158
28838107 CAGTTGATCC
* * **
28838117 TGCTGCCGGTCCTACTGCCACAACCCTCGATCCAACTGGGGCTTAGACATGGAATGAACTCTGTA
1 TGCTGTCGGTCCTGCTGCCACAACCCTCGATCCAGTTGGGGCTTAGACATGGAATGAACTCTGTA
***
28838182 TGCCTAAGCCAACCCATGAAACGAGCGTGGGGGCACTCAACCGACCGGAGAGGCAGAATGCGCAA
66 TGCCTAAGCCAACCCATGAAACGAGCGTGCAAGCACTCAACCGACCGGAGAGGCAGAATGCGCAA
*
28838247 GTCGGGGATCGACTCGGTCCCCCCTACA
131 GTCGGGGATCGACTCGATCCCCCCTACA
* * * * * * ** *
28838275 TGCTGTTGATCCTGCTACCATAACCCTCGGTCTAGTCT-GATCTTAGAC-TGGGAATGAACACTG
1 TGCTGTCGGTCCTGCTGCCACAACCCTCGATCCAGT-TGGGGCTTAGACAT-GGAATGAACTCTG
* * * * *
28838338 TATGCCTAAGTCAACCCATGAAACGAGCGTGCAAGCGCTGAGCCTG-CCGGAGAGGCATAATGCG
64 TATGCCTAAGCCAACCCATGAAACGAGCGTGCAAGCACTCAACC-GACCGGAGAGGCAGAATGCG
* * * *
28838402 CAAG-CTGGGGATCGGCTCGATCTCCCTCTGCG
128 CAAGTC-GGGGATCGACTCGATC-CCCCCTACA
* * * **
28838434 TGCTGTCGGTCCCGCTGCCACAACCCTCGATCCGGTTGGGGCTTAGACATTGAATGAACTCCCTA
1 TGCTGTCGGTCCTGCTGCCACAACCCTCGATCCAGTTGGGGCTTAGACATGGAATGAACTCTGTA
* * * * ** * *
28838499 TGCCTAAGCCAAACCACGAAATGGGCGTGCGGGCGCTCAACCGACCTGG-GAGGTAGAATGCGCA
66 TGCCTAAGCCAACCCATGAAACGAGCGTGCAAGCACTCAACCGACC-GGAGAGGCAGAATGCGCA
*
28838563 AGCCGGGGATCGAC
130 AGTCGGGGATCGAC
28838577 CTGGTCCCCC
Statistics
Matches: 240, Mismatches: 52, Indels: 19
0.77 0.17 0.06
Matches are distributed among these distances:
157 2 0.01
158 120 0.50
159 114 0.47
160 4 0.02
ACGTcount: A:0.23, C:0.30, G:0.28, T:0.19
Consensus pattern (158 bp):
TGCTGTCGGTCCTGCTGCCACAACCCTCGATCCAGTTGGGGCTTAGACATGGAATGAACTCTGTA
TGCCTAAGCCAACCCATGAAACGAGCGTGCAAGCACTCAACCGACCGGAGAGGCAGAATGCGCAA
GTCGGGGATCGACTCGATCCCCCCTACA
Found at i:28838732 original size:317 final size:317
Alignment explanation
Indices: 28838117--28838732 Score: 722
Period size: 317 Copynumber: 1.9 Consensus size: 317
28838107 CAGTTGATCC
* **
28838117 TGCTGCCGGTCCTACTGCCACAACCCTCGATCCAACTGGGGCTTAGACATGGAATGAACTCTGTA
1 TGCTGCCGGTCCCACTGCCACAACCCTCGATCCAACTGGGGCTTAGACATGGAATGAACTCCCTA
* * *
28838182 TGCCTAAGCCAACCCATGAAACGAGCGTGGGGGCACTCAACCGACCGGAGAGGCAGAATGCGCAA
66 TGCCTAAGCCAAACCACGAAACGAGCGTGCGGGCACTCAACCGACCGGAGAGGCAGAATGCGCAA
* ** * *
28838247 GTCGGGGATCGACTCGGTCCCCCCTACATGCTGTTGATCCTGCTACCATAACCCTCGGTCTAGTC
131 GCCGGGGATCGACTCGGTCCCCCCTACATGCTGTCAATCCTACTACCATAACCCTCGGTCGAGTC
* * **
28838312 TGATCTTAGACTGGGAATGAACACTGTATGCCTAAGTCAACCCATGAAACGAGCGTGCAAGCGCT
196 TGATCTTAAACTGGGAATGAACACCGTATGCCTAAGTCAACCCACAAAACGAGCGTGCAAGCGCT
* * * * **
28838377 GAGCCTGCCGGAGAGGCATAATGCGCAAGCTGGGGATCGGCTCGATCTCCCTCTGCG
261 CAGCCAGCCAGAGAGGCAGAATGCGCAAGCCAGGGATCGGCTCGATCTCCCTCTGCG
* * *** *
28838434 TGCTGTCGGTCCCGCTGCCACAACCCTCGATCCGGTTGGGGCTTAGACATTGAATGAACTCCCTA
1 TGCTGCCGGTCCCACTGCCACAACCCTCGATCCAACTGGGGCTTAGACATGGAATGAACTCCCTA
* * * *
28838499 TGCCTAAGCCAAACCACGAAATGGGCGTGCGGGCGCTCAACCGACCTGG-GAGGTAGAATGCGCA
66 TGCCTAAGCCAAACCACGAAACGAGCGTGCGGGCACTCAACCGACC-GGAGAGGCAGAATGCGCA
*** * *
28838563 AGCCGGGGATCGAC-CTGGTCCCCCCTGTGTGCTGTCAATCCTACTACCGTAACCCTCAGTTCGA
130 AGCCGGGGATCGACTC-GGTCCCCCCTACATGCTGTCAATCCTACTACCATAACCCTC-GGTCGA
* * * * * *
28838627 -TTTGATCTTAAACTAGGG-ATGAACTCCGTATGCCTAAGTTAACCCACAAAATGAGTGTGC-GG
193 GTCTGATCTTAAACT-GGGAATGAACACCGTATGCCTAAGTCAACCCACAAAACGAGCGTGCAAG
* * * *
28838689 ATGCTCAG-CAGACCAGAGAGGCCGGATGCGTAAGCCAGGGATCG
257 -CGCTCAGCCAG-CCAGAGAGGCAGAATGCGCAAGCCAGGGATCG
28838733 AACGGGTGGT
Statistics
Matches: 247, Mismatches: 46, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
316 4 0.02
317 234 0.95
318 9 0.04
ACGTcount: A:0.24, C:0.29, G:0.27, T:0.20
Consensus pattern (317 bp):
TGCTGCCGGTCCCACTGCCACAACCCTCGATCCAACTGGGGCTTAGACATGGAATGAACTCCCTA
TGCCTAAGCCAAACCACGAAACGAGCGTGCGGGCACTCAACCGACCGGAGAGGCAGAATGCGCAA
GCCGGGGATCGACTCGGTCCCCCCTACATGCTGTCAATCCTACTACCATAACCCTCGGTCGAGTC
TGATCTTAAACTGGGAATGAACACCGTATGCCTAAGTCAACCCACAAAACGAGCGTGCAAGCGCT
CAGCCAGCCAGAGAGGCAGAATGCGCAAGCCAGGGATCGGCTCGATCTCCCTCTGCG
Found at i:28839391 original size:26 final size:26
Alignment explanation
Indices: 28839340--28839392 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
28839330 GGCTCAAACT
*
28839340 CTTAGACTGGGAATGAACTTCGTATG
1 CTTAGACTGGGAATGAACTTCATATG
28839366 CTTAGACAT-GGAATGAAC-TCTATATG
1 CTTAGAC-TGGGAATGAACTTC-ATATG
28839392 C
1 C
28839393 CTAAGCCAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 2 0.08
26 21 0.88
27 1 0.04
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTTCATATG
Found at i:28839713 original size:26 final size:26
Alignment explanation
Indices: 28839684--28839734 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
28839674 GATTCGATCA
*
28839684 TAGACTAGGAATGAACTTCGTATGCT
1 TAGACTAGGAATGAACTCCGTATGCT
* *
28839710 TAGACTGGGGATGAACTCCGTATGC
1 TAGACTAGGAATGAACTCCGTATGC
28839735 CTAAGTCAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (26 bp):
TAGACTAGGAATGAACTCCGTATGCT
Found at i:28840429 original size:26 final size:26
Alignment explanation
Indices: 28840393--28840445 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28840383 CCAATCCGAT
*
28840393 CTTAGACTGGGAATAAACTTCGTATG
1 CTTAGACTGGGAATAAACTCCGTATG
* *
28840419 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTGGGAATAAACTCCGTATG
28840445 C
1 C
28840446 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):
CTTAGACTGGGAATAAACTCCGTATG
Found at i:28840642 original size:171 final size:170
Alignment explanation
Indices: 28840433--28840745 Score: 383
Period size: 171 Copynumber: 1.8 Consensus size: 170
28840423 GACTGGGGAT
* * **
28840433 GAACTCCGTATGCCTAAGTCAACCCATAAAATGAGCGTATTGGCACTCAGCCAGTCGAAAAGGCA
1 GAACTCCGTATGCCTAAGCCAACCCATAAAACGAGCGTACGGGCACTCAGCCAGTCGAAAAGGCA
* * * * *
28840498 TAATGCGTAAGCCGGGGATCAACTCAATCCCCCTCCGCGTGCTATCGATCCCGCTGCTGGTCCTG
66 AAATGCGCAAGCCGGGGATCAACCCAATCCCCC-CCACGTGCTACCGATCCCGCTGCTGGTCCTG
28840563 CTACCACAACCCTCGATCTGGTTAGGGCTTAGACATGGAAC
130 CTACCACAACCCTCGATCTGGTTAGGGCTTAGACATGGAAC
* ** ** * * *
28840604 GAACTCTGTATGCCTAAGCCAACCCATGGAACGAGCGTACGGGTGCTCAGTCGGTCGAAGAGGCA
1 GAACTCCGTATGCCTAAGCCAACCCATAAAACGAGCGTACGGGCACTCAGCCAGTCGAAAAGGCA
* * ** * * * *
28840669 AAATGCGCAAGTCGGGGATCGACCCGGTCCCCCCTACGTTCTGCCGATCCTGCTGCTGGTCCTGC
66 AAATGCGCAAGCCGGGGATCAACCCAATCCCCCCCACGTGCTACCGATCCCGCTGCTGGTCCTGC
*
28840734 TATCACAACCCT
131 TACCACAACCCT
28840746 TAGTTTGGTC
Statistics
Matches: 116, Mismatches: 26, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
170 37 0.32
171 79 0.68
ACGTcount: A:0.24, C:0.31, G:0.25, T:0.20
Consensus pattern (170 bp):
GAACTCCGTATGCCTAAGCCAACCCATAAAACGAGCGTACGGGCACTCAGCCAGTCGAAAAGGCA
AAATGCGCAAGCCGGGGATCAACCCAATCCCCCCCACGTGCTACCGATCCCGCTGCTGGTCCTGC
TACCACAACCCTCGATCTGGTTAGGGCTTAGACATGGAAC
Found at i:28841274 original size:158 final size:156
Alignment explanation
Indices: 28840794--28841286 Score: 477
Period size: 158 Copynumber: 3.1 Consensus size: 156
28840784 TGCTTATACA
* * * *
28840794 TGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGTGTGCGGGCGCTTAGCCGGTCAGA
1 TGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCGCTCAGCCGGTCAGA
* * * * * **
28840859 GAGGCAGAATGCGTAAGCCAGGTACCAGCCCGATCCCTCCTGCATGCTACCGATCCTGCTGTCGT
66 GAGGCAGAATGCGCAAGCCAGGGATCGGCCCGATCCCCCCTGCATGCTGTCGATCCTGCTGTCGT
* * *
28840924 AACCCTCAGTCTAATCTAACCCTAGAC
131 AACCCTCGGTCTAGTCT-ACCTTAGAC
* * ** * * ** *
28840951 TGGGAATGAACTCAGTGTGCCTAAGTTAACCCATGAAACGAGCGTGCGGGCGTTGAGCCGACCAA
1 T-GGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCGCTCAGCCGGTCAG
* * * * *
28841016 AGAGGCATAATGTC-CAAGCCAGGGATTGGCCCGGTCCCCCTCTGCATGCTGTCGATCCCGCTGC
65 AGAGGCAGAATG-CGCAAGCCAGGGATCGGCCCGATCCCCC-CTGCATGCTGTCGATCCTGCTGT
** * * ** *
28841080 CACAACCCTCGCTCCAG-CTAGGGTTAGGC
128 CGTAACCCTCGGTCTAGTCTA-CCTTAGAC
* * * *
28841109 ATGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAACGGGCGTGCGGGTGCTCAGTCGGTCAG
1 -TGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCGCTCAGCCGGTCAG
* * * * *
28841174 AGAGGCGGAATGCGCAAGCCGGGGATCGGCCTGATCCCCCCTGCTTGCTGTCGATCCTGCTATCG
65 AGAGGCAGAATGCGCAAGCCAGGGATCGGCCCGATCCCCCCTGCATGCTGTCGATCCTGCTGTCG
* *
28841239 TAACCCTCGGTCTGGTCTGATCTTAGAC
130 TAACCCTCGGTCTAGTCT-ACCTTAGAC
*
28841267 TGAGAATGAACTCCATATGC
1 TG-GAATGAACTCCGTATGC
28841287 TTAGACTGGG
Statistics
Matches: 261, Mismatches: 66, Indels: 17
0.76 0.19 0.05
Matches are distributed among these distances:
157 36 0.14
158 192 0.74
159 33 0.13
ACGTcount: A:0.23, C:0.30, G:0.27, T:0.20
Consensus pattern (156 bp):
TGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCGCTCAGCCGGTCAGA
GAGGCAGAATGCGCAAGCCAGGGATCGGCCCGATCCCCCCTGCATGCTGTCGATCCTGCTGTCGT
AACCCTCGGTCTAGTCTACCTTAGAC
Found at i:28841301 original size:26 final size:26
Alignment explanation
Indices: 28841260--28841312 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28841250 CTGGTCTGAT
28841260 CTTAGACTGAGAATGAACTCCATATG
1 CTTAGACTGAGAATGAACTCCATATG
* * *
28841286 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTGAGAATGAACTCCATATG
28841312 C
1 C
28841313 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:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (26 bp):
CTTAGACTGAGAATGAACTCCATATG
Found at i:28842370 original size:26 final size:26
Alignment explanation
Indices: 28842326--28842378 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
28842316 CCGATTCGAT
* *
28842326 CTTAGACTGGGAATGAACTCTGTATG
1 CTTAGACTGGGAATAAACTCCGTATG
28842352 CTTAGACTGGTG-ATAAACTCCGTATG
1 CTTAGACTGG-GAATAAACTCCGTATG
28842378 C
1 C
28842379 CCCCATTGCA
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:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (26 bp):
CTTAGACTGGGAATAAACTCCGTATG
Found at i:28842783 original size:26 final size:26
Alignment explanation
Indices: 28842747--28842799 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
28842737 CTGGTTCGAT
*
28842747 CTTAGATTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
*
28842773 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28842799 C
1 C
28842800 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:28842972 original size:26 final size:26
Alignment explanation
Indices: 28842943--28842995 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28842933 CTGGTCCGAT
*
28842943 CTTAGAC-TGAGAATGAACTCTGTATG
1 CTTAGACATG-GAATGAACTCCGTATG
28842969 CTTAGACATGGAATGAACTCCGTATG
1 CTTAGACATGGAATGAACTCCGTATG
28842995 C
1 C
28842996 CTAAGCCAAC
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:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (26 bp):
CTTAGACATGGAATGAACTCCGTATG
Found at i:28843579 original size:158 final size:157
Alignment explanation
Indices: 28842968--28843586 Score: 484
Period size: 158 Copynumber: 3.9 Consensus size: 157
28842958 AACTCTGTAT
* * *
28842968 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACT-AAATGAGCATGCGGGCACTCA
1 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCA-TGAAACGAGCGTGCGGGCACTCA
** * * * * * * * **
28843032 ACCGGCCGGAGAGGCAGAATGCATAAG-CCAGGGATTGGCTCAGTCCCCTTCTGCGCGGTACCGG
65 GTCGACCGGAGAGGCAGAATGCGTAAGTCGA-GGATCGCCTCAGTCCCC--CTGCGTGCTACCAA
* *
28843096 TCCCACTGCCACAACCCTCGGTCCGGCTGGG
127 TCCCACTGCCACAACCCTCGGTCTGGTTGGG
* ** **
28843127 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAACGGGCGTATGGGTGCTCAG
1 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCACTCAG
* ** * ** ****
28843192 TCGGCCGGAGAGGCAGAACATGC--AAACCGGGGATCGACC-GGGTCCCCCCTGCGTGCTGTTGA
66 TCGACCGGAGAGGCAG-A-ATGCGTAAGTCGAGGATCG-CCTCAGT-CCCCCTGCGTGCTACCAA
** * * *
28843254 TCGTACTGTCACAACCCTCGGTCTGGTTCGA
127 TCCCACTGCCACAACCCTCGGTCTGGTTGGG
* ** * * * * ** *
28843285 TCTTAGAC-TGGGAATGAACTCTGTATGCCTAAGTCAA-CCATGAAATGAACGTTCGGGCGTTGA
1 GCTTAGACAT-GGAATGAACTCCCTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCACTCA
* * * * ***
28843348 G-CTGATCGGAGAGGCATAATGCGTAAGTCGGGGATC-CGCTCGGTCCCCCTTTGCGTGCCGTCA
65 GTC-GACCGGAGAGGCAGAATGCGTAAGTCGAGGATCGC-CTCAGTCCCCC--TGCGTGCTACCA
* *
28843411 GTCCCACTGCCACAACCCTCGGTCTGATTGGG
126 ATCCCACTGCCACAACCCTCGGTCTGGTTGGG
* * *
28843443 GCTTAGACATGGAATGAACTCCCTTTGCCTAAGCCAACCCAAGAAACGGGCGTGCGGGCACTCAG
1 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCACTCAG
*
28843508 TCGACCGGAGAGGCAGAATGCGTAAGTCGAGGATCGACCT-AGTCCCCGCTGCATGCTACCAATC
66 TCGACCGGAGAGGCAGAATGCGTAAGTCGAGGATCG-CCTCAGTCCCC-CTGCGTGCTACCAATC
**
28843572 CTGCTGCCACAACCC
129 CCACTGCCACAACCC
28843587 AAGGTCCAGT
Statistics
Matches: 358, Mismatches: 82, Indels: 41
0.74 0.17 0.09
Matches are distributed among these distances:
155 5 0.01
156 8 0.02
157 44 0.12
158 151 0.42
159 134 0.37
160 11 0.03
161 5 0.01
ACGTcount: A:0.23, C:0.30, G:0.28, T:0.19
Consensus pattern (157 bp):
GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCACTCAG
TCGACCGGAGAGGCAGAATGCGTAAGTCGAGGATCGCCTCAGTCCCCCTGCGTGCTACCAATCCC
ACTGCCACAACCCTCGGTCTGGTTGGG
Found at i:28844851 original size:25 final size:26
Alignment explanation
Indices: 28844807--28844858 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
28844797 CCGATCTGAT
28844807 CTTAGACTCGGAATGAACTTCATATG
1 CTTAGACTCGGAATGAACTTCATATG
* *
28844833 CTTAGACT-GGAATGCACTTCGTATG
1 CTTAGACTCGGAATGAACTTCATATG
28844858 C
1 C
28844859 CTAAGCAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 16 0.67
26 8 0.33
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (26 bp):
CTTAGACTCGGAATGAACTTCATATG
Found at i:28845842 original size:26 final size:26
Alignment explanation
Indices: 28845792--28845844 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28845782 TCTGGCTGAT
**
28845792 CTTAGACTGGGAATGAACTTTGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
*
28845818 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28845844 C
1 C
28845845 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:28846955 original size:159 final size:155
Alignment explanation
Indices: 28846528--28846955 Score: 466
Period size: 159 Copynumber: 2.7 Consensus size: 155
28846518 AACTCCGTAT
* *
28846528 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAATAAGCGTGCGGGCGCTCAA
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAATGAGCGTGCGGGCGCTCAG
* * *
28846593 CCGATAGGAGAGGCAGAATGCGCAAGCCAGGGATCAGGCTGGTCCCCCTACGTGCTGTCGATCCT
66 CCGGTAGGAGAGGCAGAATGCGCAAG-CAGGGATC-GGCTGGTCCCCCTACATGCTGTCGATCCC
* *
28846658 ACTGCCATAACCCTCGATCTGGTCTGA
129 ACTGCCACAACCCTCAATCTGGTCTGA
* * * * * * * *
28846685 TCTTAGAC-TGGGAATGAACTCCGTATGCATAAGTCAACCTACGAAACGAGCGTTCGGGCGCTGA
1 GCTTAGACAT-GGAATGAACTCCGTATGCCTAAGCCAACCCATGAAATGAGCGTGCGGGCGCTCA
* * * * * * *
28846749 GCCGGTTGAAGAGGCATAATGCGCAAGCTGGGTATCAGCCCGATCCCCCTATGCATGCTGTCTG-
65 GCCGGTAGGAGAGGCAGAATGCGCAAGCAGGG-ATC-GGCTGGTCCCCCTA--CATGCTGTC-GA
*
28846813 TCCCACTGCCACAACCCTCAATCTGG-CTAGG
125 TCCCACTGCCACAACCCTCAATCTGGTCT-GA
* * *
28846844 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAATGGGCGTGCGGGCGCTTAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAATGAGCGTGCGGGCGCTCAG
** * *
28846909 CCGGCCGGAGAGGTAGAATGCGTAAGTCAGGGATCGGTCTGGTCCCC
66 CCGGTAGGAGAGGCAGAATGCGCAAG-CAGGGATCGG-CTGGTCCCC
28846956 TCTGTGTGCT
Statistics
Matches: 219, Mismatches: 43, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
156 5 0.02
157 90 0.41
158 3 0.01
159 115 0.53
160 6 0.03
ACGTcount: A:0.24, C:0.28, G:0.28, T:0.20
Consensus pattern (155 bp):
GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAATGAGCGTGCGGGCGCTCAG
CCGGTAGGAGAGGCAGAATGCGCAAGCAGGGATCGGCTGGTCCCCCTACATGCTGTCGATCCCAC
TGCCACAACCCTCAATCTGGTCTGA
Found at i:28847037 original size:25 final size:26
Alignment explanation
Indices: 28847003--28847054 Score: 88
Period size: 25 Copynumber: 2.0 Consensus size: 26
28846993 CTGATCCGAT
28847003 CTTAGACTGGGAATGAACTC-CTATG
1 CTTAGACTGGGAATGAACTCGCTATG
*
28847028 CTTAGACTGGGGATGAACTCGCTATG
1 CTTAGACTGGGAATGAACTCGCTATG
28847054 C
1 C
28847055 CTAAGTCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 19 0.76
26 6 0.24
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCGCTATG
Found at i:28847409 original size:26 final size:26
Alignment explanation
Indices: 28847371--28847423 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28847361 CTGGTCCAAT
*
28847371 CTTAGACTGGGAATGTACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28847397 CTTAGACAT-GGAATGAACTCCGTATG
1 CTTAGAC-TGGGAATGAACTCCGTATG
28847423 C
1 C
28847424 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:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28848051 original size:12 final size:12
Alignment explanation
Indices: 28848034--28848059 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
28848024 CTGTGTGCTA
28848034 CCGATCCCACTG
1 CCGATCCCACTG
28848046 CCGATCCCACTG
1 CCGATCCCACTG
28848058 CC
1 CC
28848060 AGTCCTGCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.54, G:0.15, T:0.15
Consensus pattern (12 bp):
CCGATCCCACTG
Found at i:28848876 original size:26 final size:26
Alignment explanation
Indices: 28848838--28848890 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28848828 GGCTCAAAAT
*
28848838 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCATATG
28848864 CTTAGACAT-GGAATGAACTCCATATG
1 CTTAGAC-TGGGAATGAACTCCATATG
28848890 C
1 C
28848891 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:28849304 original size:26 final size:26
Alignment explanation
Indices: 28849266--28849318 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28849256 CCGATCCGTT
28849266 CTTAGACTGGGAATGAACTTCGTATG
1 CTTAGACTGGGAATGAACTTCGTATG
*
28849292 CTTAGACAT-GGAATGAACTTTGTATG
1 CTTAGAC-TGGGAATGAACTTCGTATG
28849318 C
1 C
28849319 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:0.15, G:0.25, T:0.32
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTTCGTATG
Found at i:28850500 original size:159 final size:158
Alignment explanation
Indices: 28850313--28850700 Score: 402
Period size: 159 Copynumber: 2.4 Consensus size: 158
28850303 ATCCGCCCCT
** *
28850313 GCGTGCTGTCGATCCTGCTGCCACAACCCTCGGTCCGATCTGATCTTAGACTGGGAATGAACTCC
1 GCGTGCTACCGATCCTGCTACCACAACCCTCGGTCCGATCTGATCTTAGACTGGGAATGAACTCC
* * * * *
28850378 GTATGCATAAGTCAACTCACAAAATGAATGTGCGGGCACTGAGCCGACCGAAGAGGCATAATACA
66 GTATGCATAAGCCAACCCACAAAATGAACGTGCGGGCACTCAGCCGACCGAAGAGGCAGAATACA
*
28850443 CAAGTCAGGGACCAGCCTGATCCCCATC
131 CAAGTCAGGGACCAGCCCGATCCCCATC
* * * * **
28850471 TGCGTGTTACCGATCCTGCTACCACAACCCCCGATCC-AGCTGGGGCTTAGACAT-GGAATGAAC
1 -GCGTGCTACCGATCCTGCTACCACAACCCTCGGTCCGATCT-GATCTTAGAC-TGGGAATGAAC
* * * ** * *
28850534 TCCCTATGCCTAAGCCAACCCACCAAATGGGCGTGCGGGCGCTCAGCCGACCGGAGAGGCAGAAT
63 TCCGTATGCATAAGCCAACCCACAAAATGAACGTGCGGGCACTCAGCCGACCGAAGAGGCAGAAT
** * * *
28850599 ATGCAAGTCGGGGATCGGCCCGATCCCCATC
128 ACACAAGTCAGGGACCAGCCCGATCCCCATC
** * * * * ** * *
28850630 GCGTGCTGTCAATCTTGCTACCGCAACCCTCTGTTTGGTCTGATCTTAGACTGGGAATGAACTCT
1 GCGTGCTACCGATCCTGCTACCACAACCCTCGGTCCGATCTGATCTTAGACTGGGAATGAACTCC
28850695 GTATGC
66 GTATGC
28850701 TTAGACTGGG
Statistics
Matches: 181, Mismatches: 44, Indels: 9
0.77 0.19 0.04
Matches are distributed among these distances:
157 1 0.01
158 52 0.29
159 127 0.70
160 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.25, T:0.21
Consensus pattern (158 bp):
GCGTGCTACCGATCCTGCTACCACAACCCTCGGTCCGATCTGATCTTAGACTGGGAATGAACTCC
GTATGCATAAGCCAACCCACAAAATGAACGTGCGGGCACTCAGCCGACCGAAGAGGCAGAATACA
CAAGTCAGGGACCAGCCCGATCCCCATC
Found at i:28850723 original size:25 final size:26
Alignment explanation
Indices: 28850674--28850725 Score: 88
Period size: 25 Copynumber: 2.0 Consensus size: 26
28850664 TTGGTCTGAT
*
28850674 CTTAGACTGGGAATGAACTCTGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28850700 CTTAGACTGGG-ATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28850725 C
1 C
28850726 CTAAGTCAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28851040 original size:170 final size:171
Alignment explanation
Indices: 28850699--28851077 Score: 426
Period size: 170 Copynumber: 2.2 Consensus size: 171
28850689 AACTCTGTAT
* * * *
28850699 GCTTAGAC-TGGGATGAACTCCGTATGCCTAAGTCAATCCATGAAACCAGCGAGTGAGTGCTCAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATAAAACCAGCGAGTGAGTGCTCAG
* * * ** *
28850763 CCAGCCGGAGAGGCATAATGTGCAAGCCGGGGATCAGCTTGGTCCCCCTCTGCGTGCCATCGATC
66 CCAACCGGAGAGGCATAACGCGCAAGCCGGGGATCAGCCCGGTCCCCCTCTGCGTGCCATCAATC
* * * * * *
28850828 ACGCTGTCGGTCCTGCTGCCGCAACCCTCGATCCGGCTGGG
131 ACGCTGCCGATCCTACTACCACAACCCTCGATCCGACTGGG
* ** *
28850869 GCTTAGACATGGAATGAACTCCCTATGCCTAAG-CAACCCATAAAACGGGCTTACG-G-GTGCTC
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATAAAACCAGC-GA-GTGAGTGCTC
* * **
28850931 AGCCAACCGGAGAGGCATAACGCGCAAGCCGGGGATCAGCCCGGTCCCTCTCTGTGTGCTGTCAA
64 AGCCAACCGGAGAGGCATAACGCGCAAGCCGGGGATCAGCCCGGTCCCCCTCTGCGTGCCATCAA
* * * *
28850996 TCTCGCTGCCGATCTTACTACCATAACCTTCTG-TCCGACTGGG
129 TCACGCTGCCGATCCTACTACCACAACCCTC-GATCCGACTGGG
* *
28851039 GCTTAGACATTGAATGAACTTCGTATGCCTAAGCCAACC
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACC
28851078 TGCGAAATGA
Statistics
Matches: 174, Mismatches: 30, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
170 143 0.82
171 30 0.17
172 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.26, T:0.21
Consensus pattern (171 bp):
GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATAAAACCAGCGAGTGAGTGCTCAG
CCAACCGGAGAGGCATAACGCGCAAGCCGGGGATCAGCCCGGTCCCCCTCTGCGTGCCATCAATC
ACGCTGCCGATCCTACTACCACAACCCTCGATCCGACTGGG
Found at i:28852478 original size:159 final size:158
Alignment explanation
Indices: 28852116--28852618 Score: 470
Period size: 158 Copynumber: 3.2 Consensus size: 158
28852106 AACTCCGTAT
* * * * * * *
28852116 GCTTAGACATGGAACGAACTCCGTTTGCCTAAGCCATCCCACGAAACAAGCGTGCGGGGGCTCAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAATCTAACCCACGAAACGAGCGTGCGGGCGCTCAG
* * * *
28852181 CC-AGCTGGAGAGGCAAAATGCGCAAGCCGAGGATCGACCTGGTCCCCC-ATGTGTGCTGTCCAT
66 CCGA-CTGGAGAGGCAAAATGCGCAAGCCG-GGATCGGCCCGGTCCCCCTATGCGTGCTATCCAT
*
28852244 CCTGCTGCCACAACCCTCCGTCCGGTCTGA
129 CCTGCTACCACAACCCTCCGTCCGGTCTGA
* * * * *
28852274 TCTTACAC-TGGGAATGAACTCCGTATGCATAAGT-TAACCCACGAAACGACCGTGCGGGCGCTG
1 GCTTAGACAT-GGAATGAACTCCGTATGCCTAA-TCTAACCCACGAAACGAGCGTGCGGGCGCTC
* * * * * *
28852337 AACCGACTGAAGAGGCATAATGCGCAAGCCAGGGATCGGCCCGATCCCCCTCTGCGTGCTATCGA
64 AGCCGACTGGAGAGGCAAAATGCGCAAGCC-GGGATCGGCCCGGTCCCCCTATGCGTGCTATCCA
* *
28852402 T-CTCGCTACCACAACCCTCGGTCCGG-CTGGG
128 TCCT-GCTACCACAACCCTCCGTCCGGTCT-GA
* * * * *
28852433 GCTTAGACATGGAATGAAATCCCTATGCCTAATCTAACCCACGAAATGGGCGTGTGGGCGCTCAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAATCTAACCCACGAAACGAGCGTGCGGGCGCTCAG
* * * * *
28852498 CCGACTGGAGAGGCAGAATGCGCAAGTCGGGGATTGGCCCGGT-CCCCTTTGCGTGCTA-CTGAT
66 CCGACTGGAGAGGCAAAATGCGCAAG-CCGGGATCGGCCCGGTCCCCCTATGCGTGCTATC-CAT
* * *
28852561 CCTGCTACCGCAAACCT-TGATCCGGT-TCGA
129 CCTGCTACCACAACCCTCCG-TCCGGTCT-GA
*
28852591 TCTTAGAC-TGGGAATGAACTCCGTATGC
1 GCTTAGACAT-GGAATGAACTCCGTATGC
28852619 TTAGACTAGG
Statistics
Matches: 280, Mismatches: 50, Indels: 30
0.78 0.14 0.08
Matches are distributed among these distances:
157 4 0.01
158 152 0.54
159 122 0.44
160 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.27, T:0.20
Consensus pattern (158 bp):
GCTTAGACATGGAATGAACTCCGTATGCCTAATCTAACCCACGAAACGAGCGTGCGGGCGCTCAG
CCGACTGGAGAGGCAAAATGCGCAAGCCGGGATCGGCCCGGTCCCCCTATGCGTGCTATCCATCC
TGCTACCACAACCCTCCGTCCGGTCTGA
Found at i:28852621 original size:26 final size:26
Alignment explanation
Indices: 28852592--28852644 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28852582 CCGGTTCGAT
28852592 CTTAGACT-GGGAATGAACTCCGTATG
1 CTTAGACTAGGG-ATGAACTCCGTATG
*
28852618 CTTAGACTAGGGATGAACTTCGTATG
1 CTTAGACTAGGGATGAACTCCGTATG
28852644 C
1 C
28852645 CTAAGTCAAC
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:28852951 original size:355 final size:343
Alignment explanation
Indices: 28852284--28853033 Score: 880
Period size: 355 Copynumber: 2.2 Consensus size: 343
28852274 TCTTACACTG
* * * * *
28852284 GGAATGAACTCCGTATGCATAAGTTAACCCACGAAACGACCGTGCGGGCGCTGAACCGACTGAAG
1 GGAATGAACTTCGTATGCCTAAGTCAACCCATGAAACGAACGTGCGGGCGCTGAACCGACTGAAG
* * *
28852349 AGGCATAATGCGCAAGCCAGGGATCGGCCCGATCCCCCTCTGCGTGCTATCGATCTCGCTACCAC
66 AGGCATAATGCGCAAGCCAGGGATCAGCCCGATCCCCCTCTACGTGCTATCCATCTCGCTACCAC
** * *
28852414 AACCCTCGGTCCGGCTGGGGCTTAGACATGGAATGAAATCCCTATGCCTAATCTAACCCACGAAA
131 AACCCTCAATCCGGCTGGGGCTTAGACATGGAATGAAATCCCTATGCCTAAGCCAACCCACGAAA
* * * * * * * * *
28852479 TGGGCGTGTGGGCGCTCAGCCGACTGGAGAGGCAGAATGCGCAAGTCGGGGATTGGCCCGGTCCC
196 CGAGCGTGCGAGCGCTCAACCGACCGGAGAAGCAGAATGCGCAAGTCGAGGATCGGCCCGGTCCC
** * * * *
28852544 CTTTGCGTGCTACTGATCCTGCTACCGCAAACCTTGATCCGGTTCGATCTTAGACTGGGAATGAA
261 CCCTACGTGCTACCGATCCTGCTACCACAAACCTCGATCCGGTTCGATCTTAGACTGGGAATGAA
*
28852609 CTCCGTATGCTTAGAC-T
326 CTCCATATGCTTAGACAT
* * * * *
28852626 AGGGATGAACTTCGTATGCCTAAGTCAACCCATGAAACGAGCGTGCGGGCGCTTAGCCTG-CTGG
1 -GGAATGAACTTCGTATGCCTAAGTCAACCCATGAAACGAACGTGCGGGCGCTGAACC-GACTGA
*
28852690 AGAGGCATAATGCGTAAGCC-GAGGATCAGCCCGATCCCCCTCTACGTGCTGTCGATCCCACTGC
64 AGAGGCATAATGCGCAAGCCAG-GGATCAGCCCGATCCCCCTCTACGTGC--T--AT-CCA-T--
* * * *
28852754 CAGTCCTGCTGCCACAGCCCTCAATCCGGCTGGGGCTTAGACATGGAATGAACTCCGTATGCCTA
120 C--T-C-GCTACCACAACCCTCAATCCGGCTGGGGCTTAGACATGGAATGAAATCCCTATGCCTA
* * *
28852819 AGCCAACCCATGAAACGAGCGTGCGAGTGCTCAACCGGCCGGAGAAGCAGAATGCGCAAGTCGAG
181 AGCCAACCCACGAAACGAGCGTGCGAGCGCTCAACCGACCGGAGAAGCAGAATGCGCAAGTCGAG
* * * * *
28852884 GATCGGCCTGGTCCCCCCTACGTGCTGCCGATCCTGCTGCCACAACCCTCGGTCC-GTTCGAATC
246 GATCGGCCCGGTCCCCCCTACGTGCTACCGATCCTGCTACCACAAACCTCGATCCGGTTCG-ATC
28852948 TTAGACTGGGAATGAACTCCATATGCTTAGACAT
310 TTAGACTGGGAATGAACTCCATATGCTTAGACAT
* *
28852982 GGAATGAA-ATCTGTATGCCTAAGCCAACCCATGAAACGAACGTGCGGGCGCT
1 GGAATGAACTTC-GTATGCCTAAGTCAACCCATGAAACGAACGTGCGGGCGCT
28853034 CAGTTGGCCG
Statistics
Matches: 341, Mismatches: 49, Indels: 22
0.83 0.12 0.05
Matches are distributed among these distances:
342 1 0.00
343 96 0.28
344 1 0.00
345 1 0.00
347 2 0.01
348 2 0.01
349 1 0.00
351 1 0.00
353 1 0.00
354 8 0.02
355 226 0.66
356 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.27, T:0.20
Consensus pattern (343 bp):
GGAATGAACTTCGTATGCCTAAGTCAACCCATGAAACGAACGTGCGGGCGCTGAACCGACTGAAG
AGGCATAATGCGCAAGCCAGGGATCAGCCCGATCCCCCTCTACGTGCTATCCATCTCGCTACCAC
AACCCTCAATCCGGCTGGGGCTTAGACATGGAATGAAATCCCTATGCCTAAGCCAACCCACGAAA
CGAGCGTGCGAGCGCTCAACCGACCGGAGAAGCAGAATGCGCAAGTCGAGGATCGGCCCGGTCCC
CCCTACGTGCTACCGATCCTGCTACCACAAACCTCGATCCGGTTCGATCTTAGACTGGGAATGAA
CTCCATATGCTTAGACAT
Found at i:28853083 original size:355 final size:355
Alignment explanation
Indices: 28852423--28853102 Score: 884
Period size: 355 Copynumber: 1.9 Consensus size: 355
28852413 CAACCCTCGG
* * * * *
28852423 TCCGGCTGGGGCTTAGACATGGAATGAAATCCCTATGCCTAATCTAACCCACGAAATGGGCGTGT
1 TCCGGCTGGGGCTTAGACATGGAATGAAATCCCTATGCCTAAGCCAACCCACGAAACGAGCGTGC
* * * * * * ** *
28852488 GGGCGCTCAGCCGACTGGAGAGGCAGAATGCGCAAGTCGGGGATTGGCCCGGTCCCCTTTGCGTG
66 GAGCGCTCAACCGACCGGAGAAGCAGAATGCGCAAGTCGAGGATCGGCCCGGTCCCCCCTACGTG
* * * *
28852553 CTACTGATCCTGCTACCGCAAACCTTGATCCGGTTCGATCTTAGACTGGGAATGAACTCCGTATG
131 CTACCGATCCTGCTACCACAAACCTCGATCCGGTTCGATCTTAGACTGGGAATGAACTCCATATG
* * * * *
28852618 CTTAGACTAGGGATGAACTTCGTATGCCTAAGTCAACCCATGAAACGAGCGTGCGGGCGCTTAGC
196 CTTAGACTAGGAATGAAATTCGTATGCCTAAGCCAACCCATGAAACGAACGTGCGGGCGCTCAGC
* * * * * *
28852683 CTGCTGGAGAGGCATAATGCGTAAGCCGAGGATCAGCCCGATCCCCCTCTACGTGCTGTCGATCC
261 CTGCCGGAGAGGCAGAATGCGCAAGCCGAGGATCAGCCCGATCCCCCCCTACATGCTATCGATCC
28852748 CACTGCCAGTCCTGCTGCCACAGCCCTCAA
326 CACTGCCAGTCCTGCTGCCACAGCCCTCAA
* * *
28852778 TCCGGCTGGGGCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGC
1 TCCGGCTGGGGCTTAGACATGGAATGAAATCCCTATGCCTAAGCCAACCCACGAAACGAGCGTGC
* * *
28852843 GAGTGCTCAACCGGCCGGAGAAGCAGAATGCGCAAGTCGAGGATCGGCCTGGTCCCCCCTACGTG
66 GAGCGCTCAACCGACCGGAGAAGCAGAATGCGCAAGTCGAGGATCGGCCCGGTCCCCCCTACGTG
* * * *
28852908 CTGCCGATCCTGCTGCCACAACCCTCGGTCC-GTTCGAATCTTAGACTGGGAATGAACTCCATAT
131 CTACCGATCCTGCTACCACAAACCTCGATCCGGTTCG-ATCTTAGACTGGGAATGAACTCCATAT
28852972 GCTTAGAC-ATGGAATGAAA-TCTGTATGCCTAAGCCAACCCATGAAACGAACGTGCGGGCGCTC
195 GCTTAGACTA-GGAATGAAATTC-GTATGCCTAAGCCAACCCATGAAACGAACGTGCGGGCGCTC
* * * * *
28853035 AG-TTGGCCGGAGAGGCAGAATGCGCAAGCTGGGGATC-GACCTGATCCCCCCCTGCATGCTATC
258 AGCCT-GCCGGAGAGGCAGAATGCGCAAGCCGAGGATCAG-CCCGATCCCCCCCTACATGCTATC
28853098 GATCC
321 GATCC
28853103 TGCTGTCATA
Statistics
Matches: 276, Mismatches: 44, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
354 10 0.04
355 266 0.96
ACGTcount: A:0.23, C:0.29, G:0.28, T:0.20
Consensus pattern (355 bp):
TCCGGCTGGGGCTTAGACATGGAATGAAATCCCTATGCCTAAGCCAACCCACGAAACGAGCGTGC
GAGCGCTCAACCGACCGGAGAAGCAGAATGCGCAAGTCGAGGATCGGCCCGGTCCCCCCTACGTG
CTACCGATCCTGCTACCACAAACCTCGATCCGGTTCGATCTTAGACTGGGAATGAACTCCATATG
CTTAGACTAGGAATGAAATTCGTATGCCTAAGCCAACCCATGAAACGAACGTGCGGGCGCTCAGC
CTGCCGGAGAGGCAGAATGCGCAAGCCGAGGATCAGCCCGATCCCCCCCTACATGCTATCGATCC
CACTGCCAGTCCTGCTGCCACAGCCCTCAA
Found at i:28853480 original size:26 final size:25
Alignment explanation
Indices: 28853451--28853500 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 25
28853441 GGTCCGATCA
28853451 TAGACTGGGAATGAACTCCGTATGCT
1 TAGACTGGGAATGAACT-CGTATGCT
*
28853477 TAGACTGGGGATGAACTCGTATGC
1 TAGACTGGGAATGAACTCGTATGC
28853501 CTAAGTTAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (25 bp):
TAGACTGGGAATGAACTCGTATGCT
Found at i:28853732 original size:26 final size:26
Alignment explanation
Indices: 28853694--28853746 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
28853684 GGCTCAAAAT
28853694 CTTAGACTGGGAATGAACATCATATG
1 CTTAGACTGGGAATGAACATCATATG
* *
28853720 CTTAGACAT-GGAATGAACTTCGTATG
1 CTTAGAC-TGGGAATGAACATCATATG
28853746 C
1 C
28853747 CTAAGCTAAC
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:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACATCATATG
Found at i:28854235 original size:26 final size:26
Alignment explanation
Indices: 28854194--28854246 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28854184 TTGGCTCAAT
*
28854194 CTTAGACTAGGAATGAACTCTGTATG
1 CTTAGACTAGGAATGAACTCCGTATG
* *
28854220 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTAGGAATGAACTCCGTATG
28854246 C
1 C
28854247 CTAAGTCACC
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):
CTTAGACTAGGAATGAACTCCGTATG
Found at i:28854603 original size:26 final size:26
Alignment explanation
Indices: 28854574--28854626 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
28854564 CCGATCCGAT
28854574 CTTAGAC-TGGGAATGAACTCCGTATG
1 CTTAGACAT-GGAATGAACTCCGTATG
28854600 CTTAGACATGGAATGAACTCCGTATG
1 CTTAGACATGGAATGAACTCCGTATG
28854626 C
1 C
28854627 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):
CTTAGACATGGAATGAACTCCGTATG
Found at i:28855104 original size:26 final size:26
Alignment explanation
Indices: 28855075--28855127 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
28855065 CCGGTCCAAT
28855075 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
*
28855101 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28855127 C
1 C
28855128 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:0.21, G:0.28, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28855598 original size:879 final size:877
Alignment explanation
Indices: 28853692--28855979 Score: 2706
Period size: 879 Copynumber: 2.6 Consensus size: 877
28853682 GTGGCTCAAA
* * *
28853692 ATCTTAGACTGGGAATGAACAT-CATATGCTTAGACATGGAATGAACTTCGTATGCCTAAGCTAA
1 ATCTTAGACTGGGAATGAAC-TCCGTATGCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAA
* * * * *
28853756 CCCACGAAACAAGCGTACGGGCGCTCAGGCAGTCGGAGAGGCAGAATGCACAAGCCGGGGATTGG
65 CCCACGAAACGAGCATACGGGCGCTCAGCCAGTCGGAGAGGCAGAATGCACAAGCCGGGGATCGA
* *
28853821 CTCGGTCCTCCCCTTCGTGCTGTCGATCCTGCAACTGCAACCCTCGGTCTGGTCTGATCTTAGAC
130 C-CGGTCC-CCCCTGCGTGCTGTCGATCCTGCTACTGCAACCCTCGGTCTGGTCTGATCTTAGAC
* *
28853886 TGGGAATGAACT-CGTATGCAAAAGTCAACCCACGAAATGAGCGTGCGGGCGTTGAGCCGACCGA
193 TGGGAATGAACTCCGTATGCATAAGTCAACCCACGAAACGAGCGTGCGGGCGTTGAGCCGACCGA
* * * * * *
28853950 AAAGGTATAATGCGCAAG-CTGGGGATCGGCCAGGTCCCCCTCTGCGTGCTGTCGGTCTCGCTGC
258 AGAGGCATAATACGCAAGTC-AGGGATCGGCCAGATCCCCCTCTGCGTGCTGTCGGTCCCGCTGC
* * *
28854014 CACAACCCTTGGTCTGGCTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACGCAAG
322 CACAACCCTCGGTCCGGCTAGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAAC-CAAG
* * * * * * * * * *
28854079 AAATGGGCATACGGGTGCTCAACTGGCCGAAGAGGTAGAACGCGCAAGCCGGGGATCGGCCCGGT
386 AAATGGGCGTGCGGGTGCTCATC-GGTCGGAGAGGCAAAACACGAAAGCCGAGGATCGGCCCGGT
* * ** * **
28854144 CCCCCTGCGTGCTATCGATCCTGCTGTCGTAACCCTCGGTTTGGCTCAATCTTAGACTAGGAATG
450 CCCCCTGCGTGCTACCGATCCTACTGTCACAACCCTCGATCCGGCTCAATCTTAGACTAGGAATG
* *
28854209 AACTCTGTATGCTTAGACTGGGGATGAACTCCGTATGCCTAAGTCACCCACGAAACGAGATTACG
515 AACTCCGTATGCTTAGACTGGGGATGAACTCCGTATGCCTAAGTCACCCACGAAACGAGAGTACG
* ** * *
28854274 GGTGCTCAGTTGGCCAGAGAGGCCGATTGAAGAGGCATAATGTGCAAGCCAGGGATCAGCTCGGT
580 GGTGCTCAGTCGGCCAGAGAGGCCGACCGAAGAGGCATAATGTGCAAGCCAGGGATCAGCCCGAT
* * * * * *
28854339 CCCCCTTTGCGTGCTGTCGATCACACTGCCGGTCCTGTAGTCACAACCCTCGGTCCGACTGGGGC
645 CCCCCTTTGCATGCTGCCAATCACACTACCAGTCCTGTAGCCACAACCCTCGGTCCGACTGGGGC
* *
28854404 TTAGACATGGAATGAAATCCGTATGCCTAAGCCAACCCACGAAATGAGCGTGCGGGCGCTCAGTC
710 TTAGACATGGAATGAAATCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAATC
* * *
28854469 GGCCGGAGAGGCAGAATGCGCAAGCCGAGGATCGACCCGGTCCCCCCCTGTGTGCTACGGATCCT
775 GGCCGGAGAGGCAGAATACGCAAGCCGAGGAACGACCCGATCCCCCCCTGTGTGCTACGGATCCT
*
28854534 ACTGCTGGTCCTGCTACCACAACCCTCGGTCCGATCCG
840 ACTGCTGGTCCTACTACCACAACCCTCGGTCCGATCCG
28854572 ATCTTAGACTGGGAATGAACTCCGTATGCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAAC
1 ATCTTAGACTGGGAATGAACTCCGTATGCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAAC
* * * * * **
28854637 CCACGAAATGAGCATGCAGGCGCTCAGTC-GATCGGAGAGGCAGAAAGTGCAAGCCGGGGATC-A
66 CCACGAAACGAGCATACGGGCGCTCAGCCAG-TCGGAGAGGCAGAATGCACAAGCCGGGGATCGA
* * * ** * * *
28854700 TTCCGGTCCCCCTTGCGTGCTATCGATCTTGCTGTTGCAACCTTCAGTTTGGTCTGATCTTAGAC
130 --CCGGTCCCCCCTGCGTGCTGTCGATCCTGCTACTGCAACCCTCGGTCTGGTCTGATCTTAGAC
** * * *
28854765 TAAGAATGAACTCCGTATGCATAAGTCAACCCACGAAACGAGCGTGCAGGCGTTGAGTCGATCGA
193 TGGGAATGAACTCCGTATGCATAAGTCAACCCACGAAACGAGCGTGCGGGCGTTGAGCCGACCGA
* * ** * *
28854830 AGAGGCATAATACGCAAGTCAGGGATCGACCTGATCCCCCTCTGCGTGCTACCGGTCCCGTTACC
258 AGAGGCATAATACGCAAGTCAGGGATCGGCCAGATCCCCCTCTGCGTGCTGTCGGTCCCGCTGCC
* * * * *
28854895 ATAACTCTCGGTCCGACTAGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCTAAGCCACGA
323 ACAACCCTCGGTCCGGCTAGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAA-CCAAGA
* * *
28854960 AATGGGCGTGCGGGTGCTCAGTCGATCGGAGAGGCAAAATACGAAAGCCGAGGATCGGCTCGGTC
387 AATGGGCGTGCGGGTGCTCA-TCGGTCGGAGAGGCAAAACACGAAAGCCGAGGATCGGCCCGGTC
* * * *
28855025 CCCCTTGCGTGCTCCCGATCCTACTGTCACAACTCTCTATCCGG-TCCAATCTTAGACTGGGAAT
451 CCCC-TGCGTGCTACCGATCCTACTGTCACAACCCTCGATCCGGCT-CAATCTTAGACTAGGAAT
* * *
28855089 GAACTCCGTATGCTTAGACTGGGGATGAACTCCGTATGCCTAAGTCAACCCATGAAACGAGCGTG
514 GAACTCCGTATGCTTAGACTGGGGATGAACTCCGTATGCCTAAGTC-ACCCACGAAACGAGAGTA
* * * * *
28855154 CGGGTGCTCAGTCGGTCGGAGAGGCCGACCGAAGAGGCATAATGTGCAAGTCGGGGATTAGCCCG
578 CGGGTGCTCAGTCGGCCAGAGAGGCCGACCGAAGAGGCATAATGTGCAAGCCAGGGATCAGCCCG
* ** *
28855219 ATCCCCCTTTGCATGCTGCCAATTC-GACTACCAGTCCTGCT-GCCACAACCCTCGGTTTGGCTG
643 ATCCCCCTTTGCATGCTGCCAA-TCACACTACCAGTCCTG-TAGCCACAACCCTCGGTCCGACTG
* * *
28855282 GGGCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAA-CCATGAAACGAGCGTGCGGGTGCTC
706 GGGCTTAGACATGGAATGAAATCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTC
* * * *
28855346 AATTGGTCGGAGAGGCAGAATACGTAA-CCGGGGAAC-AGCCCGAT-CCCCCCT-TCGTGCTATC
771 AATCGGCCGGAGAGGCAGAATACGCAAGCCGAGGAACGA-CCCGATCCCCCCCTGT-GTGCTA-C
** * * *
28855407 -GATCCTACTGCTGGTCCTACTGTCGCAACCCTCGGTCCGGTCTG
833 GGATCCTACTGCTGGTCCTACTACCACAACCCTCGGTCCGATCCG
*
28855451 ATCTTAGACTGGGAATGAACTCCGTATGCTTAGACATGGAATGAACTCCGTTTGCCTAAGCCAAC
1 ATCTTAGACTGGGAATGAACTCCGTATGCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAAC
* * * * * * **
28855516 CCATGAAACGAGCATTCGGGCACTCAGCCAGCCGGAGAGGTAGAATGCACAAACCGATGATCGAC
66 CCACGAAACGAGCATACGGGCGCTCAGCCAGTCGGAGAGGCAGAATGCACAAGCCGGGGATCGAC
* *
28855581 CGGATCCCCCCTGCGTGCTGTCGATCCTGCTACCGCAACCCTCGGTCTGGTCTGATCTTAGATTG
131 CGG-TCCCCCCTGCGTGCTGTCGATCCTGCTACTGCAACCCTCGGTCTGGTCTGATCTTAGACTG
* ** ** *
28855646 GGAATGAACTCCGTATGCCTAAGTCAACCCATAAAATC-AGCGTGCGGGCACTGAGCCGACCGGA
195 GGAATGAACTCCGTATGCATAAGTCAACCCACGAAA-CGAGCGTGCGGGCGTTGAGCCGACCGAA
** * * * ** *
28855710 GAGGCATAATACAAAAATTAGGGATCGGCCCGAT-CCCCTCTATGTGCTGTCGGTCCCACTGCCA
259 GAGGCATAATACGCAAGTCAGGGATCGGCCAGATCCCCCTCTGCGTGCTGTCGGTCCCGCTGCCA
* *
28855774 CAACCCTCGGTCCGGCTAGGGCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAA
324 CAACCCTCGGTCCGGCTAGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAA-CCAAGAA
** ** * *** * * *
28855839 ATGAACGTGCGGGCCCTCAATCGGTCGGAGA-GAAAGAATGTGCAAA-CTGGGGATCGGCCTGGT
388 ATGGGCGTGCGGGTGCTC-ATCGGTCGGAGAGGCAA-AACACG-AAAGCCGAGGATCGGCCCGGT
* * * * * * * *
28855902 CCCTCCTGCGTGCTATCGATCCTGCTGCCACAACCTTCGGTCCGG-TCTGATCTTAGACTTGGAG
450 CCC-CCTGCGTGCTACCGATCCTACTGTCACAACCCTCGATCCGGCTC-AATCTTAGACTAGGAA
*
28855966 TGAACTACGTATGC
513 TGAACTCCGTATGC
28855980 CTAAGTCAAC
Statistics
Matches: 1185, Mismatches: 198, Indels: 52
0.83 0.14 0.04
Matches are distributed among these distances:
877 4 0.00
878 188 0.16
879 356 0.30
880 340 0.29
881 139 0.12
882 155 0.13
883 3 0.00
ACGTcount: A:0.24, C:0.28, G:0.27, T:0.21
Consensus pattern (877 bp):
ATCTTAGACTGGGAATGAACTCCGTATGCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAAC
CCACGAAACGAGCATACGGGCGCTCAGCCAGTCGGAGAGGCAGAATGCACAAGCCGGGGATCGAC
CGGTCCCCCCTGCGTGCTGTCGATCCTGCTACTGCAACCCTCGGTCTGGTCTGATCTTAGACTGG
GAATGAACTCCGTATGCATAAGTCAACCCACGAAACGAGCGTGCGGGCGTTGAGCCGACCGAAGA
GGCATAATACGCAAGTCAGGGATCGGCCAGATCCCCCTCTGCGTGCTGTCGGTCCCGCTGCCACA
ACCCTCGGTCCGGCTAGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCAAGAAATG
GGCGTGCGGGTGCTCATCGGTCGGAGAGGCAAAACACGAAAGCCGAGGATCGGCCCGGTCCCCCT
GCGTGCTACCGATCCTACTGTCACAACCCTCGATCCGGCTCAATCTTAGACTAGGAATGAACTCC
GTATGCTTAGACTGGGGATGAACTCCGTATGCCTAAGTCACCCACGAAACGAGAGTACGGGTGCT
CAGTCGGCCAGAGAGGCCGACCGAAGAGGCATAATGTGCAAGCCAGGGATCAGCCCGATCCCCCT
TTGCATGCTGCCAATCACACTACCAGTCCTGTAGCCACAACCCTCGGTCCGACTGGGGCTTAGAC
ATGGAATGAAATCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAATCGGCCGG
AGAGGCAGAATACGCAAGCCGAGGAACGACCCGATCCCCCCCTGTGTGCTACGGATCCTACTGCT
GGTCCTACTACCACAACCCTCGGTCCGATCCG
Found at i:28855778 original size:158 final size:157
Alignment explanation
Indices: 28855479--28856290 Score: 523
Period size: 158 Copynumber: 5.1 Consensus size: 157
28855469 ACTCCGTATG
* * * *
28855479 CTTAGACATGGAATGAACTCCGTTTGCCTAAGCCAACCCATGAAA-CGAGCATTCGGGCACTCAG
1 CTTAGACTTGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAATC-AGCGTGCGGGCACTCAG
* ** * * * *
28855543 CC-AGCCGGAGAGGTAGAATGCACAAACCGATGATCGACCGGATCCCCCCTGCGTGCTGTCGATC
65 CCGA-CCGGAGAGGAAGAATGCACAAATAG-GGATCGGCCCGATCCCCTCTGCGTGCTGTCGATC
* * *
28855607 CTGCTACCGCAACCCTCGGTCTGGTCTGAT
128 CTGCTGCCACAACCCTCGGTCCGGTCTGAT
* * *
28855637 CTTAGA-TTGGGAATGAACTCCGTATGCCTAAGTCAACCCATAAAATCAGCGTGCGGGCACTGAG
1 CTTAGACTT-GGAATGAACTCCGTATGCCTAAGCCAACCCATGAAATCAGCGTGCGGGCACTCAG
* * * * ** *
28855701 CCGACCGGAGAGGCATAATACAAAAATTAGGGATCGGCCCGATCCCCTCTATGTGCTGTCGGTCC
65 CCGACCGGAGAGGAAGAATGCACAAA-TAGGGATCGGCCCGATCCCCTCTGCGTGCTGTCGATCC
** **
28855766 CACTGCCACAACCCTCGGTCCGG-CTAGGG
129 TGCTGCCACAACCCTCGGTCCGGTCT-GAT
* * * * **
28855795 CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAATGAACGTGCGGGCCCTCAAT
1 CTTAGACTTGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAATCAGCGTGCGGGCACTCAGC
** * ** * * * *
28855860 CGGTCGGAGAGAAAGAATGTGCAAACTGGGGATCGGCCTGGT-CCCTCCTGCGTGCTATCGATCC
66 CGACCGGAGAGGAAGAATGCACAAA-TAGGGATCGGCCCGATCCCCT-CTGCGTGCTGTCGATCC
*
28855924 TGCTGCCACAACCTTCGGTCCGGTCTGAT
129 TGCTGCCACAACCCTCGGTCCGGTCTGAT
* * * * ** * * * *
28855953 CTTAGACTTGGAGTGAACTACGTATGCCTAAGTCAACCCACGAAA-CGAGTTTACAGGCATTGAG
1 CTTAGACTTGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAATC-AGCGTGCGGGCACTCAG
* * * ** *** * *
28856017 CCAACCGGAGAGGCATAATGCGTAAGCCGAGGATCGGCCC-AGTCCCC-CATTACGTGCTGTCGG
65 CCGACCGGAGAGGAAGAATGCACAAATAG-GGATCGGCCCGA-TCCCCTC--TGCGTGCTGTCGA
* * **
28856080 T-CTCGCTGCCACAACCCTCGATCC-GACTAGGG
126 TCCT-GCTGCCACAACCCTCGGTCCGGTCT-GAT
* * ** * ** *
28856112 CTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAATGGGCGTGCAGGTGCTCAGT
1 CTTAGACTTGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAATCAGCGTGCGGGCACTCAGC
* * * ** * * ** * * **
28856177 TGACTGGAGAGGCAGAATGCGTAAGTCGGGGATCGTTCCAATCCCC-CTTGTGTGCTACCGATCC
66 CGACCGGAGAGGAAGAATGCACAAAT-AGGGATCGGCCCGATCCCCTC-TGCGTGCTGTCGATCC
* * * * *
28856241 TACTGTCGCAACCCTCAGTTCGGT-TCGAT
129 TGCTGCCACAACCCTCGGTCCGGTCT-GAT
*
28856270 CTTAGACTAGGAATGAACTCC
1 CTTAGACTTGGAATGAACTCC
28856291 ATCTACTTAG
Statistics
Matches: 497, Mismatches: 136, Indels: 42
0.74 0.20 0.06
Matches are distributed among these distances:
157 9 0.02
158 361 0.73
159 125 0.25
160 2 0.00
ACGTcount: A:0.24, C:0.29, G:0.26, T:0.21
Consensus pattern (157 bp):
CTTAGACTTGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAATCAGCGTGCGGGCACTCAGC
CGACCGGAGAGGAAGAATGCACAAATAGGGATCGGCCCGATCCCCTCTGCGTGCTGTCGATCCTG
CTGCCACAACCCTCGGTCCGGTCTGAT
Found at i:28856053 original size:316 final size:316
Alignment explanation
Indices: 28855478--28856158 Score: 843
Period size: 316 Copynumber: 2.2 Consensus size: 316
28855468 AACTCCGTAT
* * * * *
28855478 GCTTAGACATGGAATGAACTCCGTTTGCCTAAGCCAACCCATGAAACGAGCATTCGGGCACTCAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAATGAACATGCGGGCACTCAA
** * *
28855543 CCAGCCGGAGAGGTAGAATGCACAAACCGATGATCGACCGGATCCCCCCTGCGTGCTGTCGATCC
66 CCAGCCGGAGAGAAAGAATGCACAAACCGAGGATCGACCGGATCCCCCCTGCGTGCTATCGATCC
* * *
28855608 TGCTACCGCAACCCTCGGTCTGGTCTGATCTTAGATTGGGAATGAACTCCGTATGCCTAAGTCAA
131 TGCTACCACAACCCTCGGTCCGGTCTGATCTTAGATTGGGAATGAACTACGTATGCCTAAGTCAA
* * * * **
28855673 CCCATAAAATCAGCGTGCGGGCACTGAGCCGACCGGAGAGGCATAATACAAAAATTAGGGATCGG
196 CCCACAAAATCAGCGTACAGGCACTGAGCCAACCGGAGAGGCATAATACAAAAACGAGGGATCGG
* * *
28855738 CCC-GATCCCCTC-TATGTGCTGTCGGTCCCACTGCCACAACCCTCGGTCCGGCTAGG
261 CCCAG-TCCCC-CATACGTGCTGTCGGTCCCACTGCCACAACCCTCGATCCGACTAGG
* *
28855794 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAATGAACGTGCGGGCCCTCAA
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAATGAACATGCGGGCACTCAA
* * * ** * * * *
28855859 TCGGTCGGAGAGAAAGAATGTGCAAACTGGGGATCGGCCTGG-TCCCTCCTGCGTGCTATCGATC
66 CCAGCCGGAGAGAAAGAATGCACAAACCGAGGATCGACC-GGATCCCCCCTGCGTGCTATCGATC
* * *
28855923 CTGCTGCCACAACCTTCGGTCCGGTCTGATCTTAGACTT-GGAGTGAACTACGTATGCCTAAGTC
130 CTGCTACCACAACCCTCGGTCCGGTCTGATCTTAGA-TTGGGAATGAACTACGTATGCCTAAGTC
* ** * * * **
28855987 AACCCACGAAA-CGAGTTTACAGGCATTGAGCCAACCGGAGAGGCATAATGCGTAAGCCGA-GGA
194 AACCCACAAAATC-AGCGTACAGGCACTGAGCCAACCGGAGAGGCATAATAC-AAAAACGAGGGA
* *
28856050 TCGGCCCAGTCCCCCATTACGTGCTGTCGGTCTCGCTGCCACAACCCTCGATCCGACTAGG
257 TCGGCCCAGTCCCCCA-TACGTGCTGTCGGTCCCACTGCCACAACCCTCGATCCGACTAGG
*
28856111 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAATG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAATG
28856159 GGCGTGCAGG
Statistics
Matches: 312, Mismatches: 46, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
315 2 0.01
316 216 0.69
317 94 0.30
ACGTcount: A:0.25, C:0.30, G:0.25, T:0.20
Consensus pattern (316 bp):
GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAATGAACATGCGGGCACTCAA
CCAGCCGGAGAGAAAGAATGCACAAACCGAGGATCGACCGGATCCCCCCTGCGTGCTATCGATCC
TGCTACCACAACCCTCGGTCCGGTCTGATCTTAGATTGGGAATGAACTACGTATGCCTAAGTCAA
CCCACAAAATCAGCGTACAGGCACTGAGCCAACCGGAGAGGCATAATACAAAAACGAGGGATCGG
CCCAGTCCCCCATACGTGCTGTCGGTCCCACTGCCACAACCCTCGATCCGACTAGG
Found at i:28856210 original size:317 final size:315
Alignment explanation
Indices: 28855478--28856288 Score: 832
Period size: 316 Copynumber: 2.6 Consensus size: 315
28855468 AACTCCGTAT
* * * *
28855478 GCTTAGACATGGAATGAACTCCGTTTGCCTAAGCCAACCCATGAAACGAGCATTCGGGCACTCAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAATGAGCGTGCGGGCACTCAG
* * * * ** *
28855543 -CCAGCCGGAGAGGTAGAATGCACAAACCGATGATCGACCGGATCCCCCCTGCGTGCTGTCGATC
66 TCGA-CTGGAGAGGAAGAATGCGCAAA-CGGGGATCGACCGGATCCCCCCTGCGTGCTATCGATC
* * *
28855607 CTGCTACCGCAACCCTCGGTCTGGTCTGATCTTAGATTGGGAATGAACTCCGTATGCCTAAGTCA
129 CTGCTACCACAACCCTCGGTCCGGTCTGATCTTAGATTGGGAATGAACTACGTATGCCTAAGTCA
* * * * **
28855672 ACCCATAAAATCAGCGTGCGGGCACTGAGCCGACCGGAGAGGCATAATACAAAAATTAGGGATCG
194 ACCCACAAAATCAGCGTACAGGCACTGAGCCAACCGGAGAGGCATAATACAAAAACGAGGGATCG
* * *
28855737 GCCCGATCCCCTCTATGTGCTGTCGGTCCCACTGCCACAACCCTCGGTCCGGCTAGG
259 GCCCGATCCCCTCTACGTGCTGTCGGTCCCACTGCCACAACCCTCGATCCGACTAGG
* * *
28855794 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAATGAACGTGCGGGCCCTCAA
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAATGAGCGTGCGGGCACTCAG
* * * * *
28855859 TCG-GTCGGAGAGAAAGAATGTGCAAACTGGGGATCGGCCTGG-TCCCTCCTGCGTGCTATCGAT
66 TCGACT-GGAGAGGAAGAATGCGCAAAC-GGGGATCGACC-GGATCCCCCCTGCGTGCTATCGAT
* * *
28855922 CCTGCTGCCACAACCTTCGGTCCGGTCTGATCTTAGACTT-GGAGTGAACTACGTATGCCTAAGT
128 CCTGCTACCACAACCCTCGGTCCGGTCTGATCTTAGA-TTGGGAATGAACTACGTATGCCTAAGT
* ** * * * **
28855986 CAACCCACGAAA-CGAGTTTACAGGCATTGAGCCAACCGGAGAGGCATAATGCGTAAGCCGA-GG
192 CAACCCACAAAATC-AGCGTACAGGCACTGAGCCAACCGGAGAGGCATAATAC-AAAAACGAGGG
* *
28856049 ATCGGCCC-AGTCCCC-CATTACGTGCTGTCGGTCTCGCTGCCACAACCCTCGATCCGACTAGG
255 ATCGGCCCGA-TCCCCTC--TACGTGCTGTCGGTCCCACTGCCACAACCCTCGATCCGACTAGG
* * * **
28856111 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAATGGGCGTGCAGGTGCTCAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAATGAGCGTGCGGGCACTCAG
* * * * * * * * *
28856176 TTGACTGGAGAGGCAGAATGCGTAAGTCGGGGATCGTTCC-AATCCCCCTTGTGTGCTACCGATC
66 TCGACTGGAGAGGAAGAATGCGCAA-ACGGGGATCG-ACCGGATCCCCCCTGCGTGCTATCGATC
* ** * * * * *
28856240 CTACTGTCGCAACCCTCAGTTCGGT-TCGATCTTAGACTAGGAATGAACT
129 CTGCTACCACAACCCTCGGTCCGGTCT-GATCTTAGATTGGGAATGAACT
28856289 CCATCTACTT
Statistics
Matches: 407, Mismatches: 72, Indels: 31
0.80 0.14 0.06
Matches are distributed among these distances:
315 4 0.01
316 214 0.53
317 185 0.45
318 4 0.01
ACGTcount: A:0.24, C:0.29, G:0.26, T:0.21
Consensus pattern (315 bp):
GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAATGAGCGTGCGGGCACTCAG
TCGACTGGAGAGGAAGAATGCGCAAACGGGGATCGACCGGATCCCCCCTGCGTGCTATCGATCCT
GCTACCACAACCCTCGGTCCGGTCTGATCTTAGATTGGGAATGAACTACGTATGCCTAAGTCAAC
CCACAAAATCAGCGTACAGGCACTGAGCCAACCGGAGAGGCATAATACAAAAACGAGGGATCGGC
CCGATCCCCTCTACGTGCTGTCGGTCCCACTGCCACAACCCTCGATCCGACTAGG
Found at i:28856325 original size:26 final size:26
Alignment explanation
Indices: 28856270--28856348 Score: 97
Period size: 26 Copynumber: 3.0 Consensus size: 26
28856260 TCGGTTCGAT
* * * *
28856270 CTTAGACTAGGAATGAACTCCATCTA
1 CTTAGACTGGGGATGAACTCCATATG
*
28856296 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTGGGGATGAACTCCATATG
28856322 CTTAGA-TGGGGGATGAACTCCATATG
1 CTTAGACT-GGGGATGAACTCCATATG
28856348 C
1 C
28856349 CTAAGTCAAC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 1 0.02
26 45 0.98
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (26 bp):
CTTAGACTGGGGATGAACTCCATATG
Found at i:28857529 original size:158 final size:156
Alignment explanation
Indices: 28857028--28857529 Score: 432
Period size: 158 Copynumber: 3.2 Consensus size: 156
28857018 ACTCCGTATG
* * *
28857028 CTTAGACATAGAATGAACTCTGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCGCTCAGC
1 CTTAGAC-TGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAGC
* * * * * * * * * *
28857093 CGATCGGAAAGGTAGAATGCGCAAGTCGAGGATCTGCCTGGTCCCCCCTGTGTGCTGTTGATCTT
65 GGA-CGGAGAGGCAGAATGCACAAGTCGGGGATCAGCCTGATCCCCCCTGCGTGCTGTCGATCCT
* * * * *
28857158 GCTGCTGCAACCCAT-GGTCCGTTCCGAT
129 ACTACCGCAACCC-TCGATCCGGTCCGAT
* ** * * * * *
28857186 CTTAGACTAGGAATGAACTCCGTATGCATAAGTTAACCCACGAAATGAGCATGCAGGCACTGAGC
1 CTTAGACT-GGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAGC
* * * * * * **
28857251 TGGTCGAAGAGGCATAATGCATAAGTCGGGAATCAGCCCGATCCTCCTTTGCGTGCTGTCGATCC
65 -GGACGGAGAGGCAGAATGCACAAGTCGGGGATCAGCCTGATCC-CCCCTGCGTGCTGTCGATCC
* * * * * **
28857316 CACTATCACAACCCTCGATCTGG-CTGGGG
128 TACTACCGCAACCCTCGATCCGGTC-CGAT
* *
28857345 CTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGGGCGTGCGGGCGCTCAGT
1 CTTAGAC-TGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAG-
* * * * * **
28857410 CGGACGGAGAGGCAGAATGCCCAAGTTGGGGATCGGCTTGATCCCCCCTACGTGCTACCGATCCT
64 CGGACGGAGAGGCAGAATGCACAAGTCGGGGATCAGCCTGATCCCCCCTGCGTGCTGTCGATCCT
28857475 ACTACCGCAACCCTCGATCCGGTCCGAT
129 ACTACCGCAACCCTCGATCCGGTCCGAT
* *
28857503 CTTAGACTGCAAATGAACTCTGTATGC
1 CTTAGACTG-GAATGAACTCCGTATGC
28857530 TTAGACTGGG
Statistics
Matches: 259, Mismatches: 76, Indels: 18
0.73 0.22 0.05
Matches are distributed among these distances:
157 3 0.01
158 139 0.54
159 115 0.44
160 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.26, T:0.21
Consensus pattern (156 bp):
CTTAGACTGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAGCG
GACGGAGAGGCAGAATGCACAAGTCGGGGATCAGCCTGATCCCCCCTGCGTGCTGTCGATCCTAC
TACCGCAACCCTCGATCCGGTCCGAT
Found at i:28857900 original size:26 final size:26
Alignment explanation
Indices: 28857871--28857923 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
28857861 CCGATCCGAT
*
28857871 CTTAGATTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
*
28857897 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28857923 C
1 C
28857924 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:28858007 original size:368 final size:368
Alignment explanation
Indices: 28857317--28858118 Score: 1013
Period size: 368 Copynumber: 2.2 Consensus size: 368
28857307 TGTCGATCCC
* * * *
28857317 ACTATCACAACCCTCGATCTGGCTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAAC
1 ACTACCACAACCCTCGGTCTGGCTGAGGCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAAC
* * *
28857382 CCACGAAACGGGCGTGCGGGCGCTCAGTCGGACGGAGAGGCAGAATGCCCAAGTTGGGGATCGGC
66 CCACGAAACGAGCGTGCGGGCACTCAGTCGGACGGAGAGGCAGAATGCCCAAGCTGGGGATCGGC
* * * *
28857447 TTGATCCCCCCTACGTGCTACCGATCCTACTACCGCAACCCTCGATCCGGTCCGATCTTAGACTG
131 TCGATCCCCCATACATGCTACCGATCCTACTACCGCAACCCTCGATCCGATCCGATCTTAGACTG
*
28857512 CAAATGAACTCTGTATGCTTAGACTGGGGATGAACTCCGTATGCCTAAGTCAACCCACAAAACGA
196 CAAATGAACTCCGTATGCTTAGACTGGGGATGAACTCCGTATGCCTAAGTCAACCCACAAAACGA
*** * * **
28857577 GCGTGTGGGCGCTCAGCCAGTCGGAGAGGTCGGCCGAAGAGGCATAATGTGCAAGCCGGGGATCA
261 GCGTACAGGCGCTCAGCCAGCCGGAGAGGTCGGCCGAAGAGACATAATGCACAAGCCGGGGATCA
* * * * *
28857642 GCCTAGTCCCCCTCT-GCGTGCTGCCGATCCCGCTGTCAGTCCT
326 GCCTAGTCACCCTCTAG-ATGCTGCCAATCCCACTATCAGTCCT
* * *
28857685 ACTACCACAACCCTCGGTCTAGCTGAGGCTTAGACATGGAATGAACTCTGTATGCCTAAGCCTAC
1 ACTACCACAACCCTCGGTCTGGCTGAGGCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAAC
* * * *
28857750 CCATGAAACGAGCGTGCGGGCACTCAGTCGG-CTGGAGAGGTAGAATGCGCAAGCCT-GGGATTG
66 CCACGAAACGAGCGTGCGGGCACTCAGTCGGAC-GGAGAGGCAGAATGCCCAAG-CTGGGGATCG
* * ** * * *
28857813 GCTCGGTCCCCCATGCATGCTGTCGATCCTATTATCGTAACCCTC-AGTCCGATCCGATCTTAGA
129 GCTCGATCCCCCATACATGCTACCGATCCTACTACCGCAACCCTCGA-TCCGATCCGATCTTAGA
* ** *
28857877 TTGGGAATGAACTCCGTATGCTTAGACTGGGGATGAACTCCGTATGCCTAAGTCAACCCACGAAA
193 CTGCAAATGAACTCCGTATGCTTAGACTGGGGATGAACTCCGTATGCCTAAGTCAACCCACAAAA
* * * *
28857942 CGAGCGTACAGGCGCTCAGTC-GACCGGAGAGGTCGGCCGGAGAGACATAATGCACAGGTCGGGG
258 CGAGCGTACAGGCGCTCAGCCAG-CCGGAGAGGTCGGCCGAAGAGACATAATGCACAAGCCGGGG
* * * * *
28858006 ATCAGCTTGGTCACCCTCTAGATGCTGTCAATCCCATTATCGGTCCT
322 ATCAGCCTAGTCACCCTCTAGATGCTGCCAATCCCACTATCAGTCCT
** * *
28858053 GTTACCACAGCCCTCGGTCCGGCT-AGGGCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAA
1 ACTACCACAACCCTCGGTCTGGCTGA-GGCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAA
28858117 CC
65 CC
28858119 TGTAAAAAGA
Statistics
Matches: 370, Mismatches: 58, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
367 4 0.01
368 364 0.98
369 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.27, T:0.20
Consensus pattern (368 bp):
ACTACCACAACCCTCGGTCTGGCTGAGGCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAAC
CCACGAAACGAGCGTGCGGGCACTCAGTCGGACGGAGAGGCAGAATGCCCAAGCTGGGGATCGGC
TCGATCCCCCATACATGCTACCGATCCTACTACCGCAACCCTCGATCCGATCCGATCTTAGACTG
CAAATGAACTCCGTATGCTTAGACTGGGGATGAACTCCGTATGCCTAAGTCAACCCACAAAACGA
GCGTACAGGCGCTCAGCCAGCCGGAGAGGTCGGCCGAAGAGACATAATGCACAAGCCGGGGATCA
GCCTAGTCACCCTCTAGATGCTGCCAATCCCACTATCAGTCCT
Found at i:28858190 original size:368 final size:365
Alignment explanation
Indices: 28857317--28858353 Score: 965
Period size: 368 Copynumber: 2.8 Consensus size: 365
28857307 TGTCGATCCC
* * ** * *
28857317 ACTATCACAACCCTCGATCTGGCTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAAC
1 ACTACCACAACCCTCGGTCCAGCTGAGGCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAAC
** * ** * * * * * * *
28857382 CCACGAAACGGGCGTGCGGGCGCTCAGTCGGACGGAGAGGCAGAATGCCCAAG-TTGGGGATCGG
66 CCATAAAAAGAACGTGCGGG-ACTCAGTCGGCCAGAGAGGCAGAATACACAAGCCT-GGGATCAG
** * * * * * * * *
28857446 CTTGATCCCCCCTACGTGCTACCGATCCTACTACCGCAACCCTCGATCCGGTCCGATCTTAGACT
129 CCCGGTCCCTCCTGCATGCT-GCGATCCTATTATCGCAACCCTCGATCCGATCCGATCTTAGACT
** * *
28857511 GCAAATGAACTCTGTATGCTTAGACTGGGGATGAACTCCGTATGCCTAAGTCAACCCACAAAACG
193 GGGAATGAACTCCGTATGCTTAGACTGGGGATGAACTCCGTATGCCTAAGTCAACCCACGAAACG
* * * **
28857576 AGCGTGTGGGCGCTCAGCCAGTCGGAGAGGTCGGCCGAAGAGGCATAATGTGCAAGCCGGGGATC
258 AGCGTGCGGGCGCTCAGCGA-TCGGAGAGGTCGGCCGAAGAGACATAATGCACAAGCCGGGGATC
* * * * *
28857641 AGCCTAGTCCCCCTCTGCGTGCTGCCGATCCCGCTGTCAGTCCT
322 AGCCTAGTCACCCTCTGCATGCTGCCAATCCCACTATCAGTCCT
* * *
28857685 ACTACCACAACCCTCGGTCTAGCTGAGGCTTAGACATGGAATGAACTCTGTATGCCTAAGCCTAC
1 ACTACCACAACCCTCGGTCCAGCTGAGGCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAAC
* * * ** * * * **
28857750 CCATGAAACGAGCGTGCGGGCACTCAGTCGGCTGGAGAGGTAGAATGCGCAAGCCTGGGATTGGC
66 CCATAAAAAGAACGTGCGGG-ACTCAGTCGGCCAGAGAGGCAGAATACACAAGCCTGGGATCAGC
* * *
28857815 TCGGTCCC-CCATGCATGCTGTCGATCCTATTATCGTAACCCTC-AGTCCGATCCGATCTTAGAT
130 CCGGTCCCTCC-TGCATGCTG-CGATCCTATTATCGCAACCCTCGA-TCCGATCCGATCTTAGAC
28857878 TGGGAATGAACTCCGTATGCTTAGACTGGGGATGAACTCCGTATGCCTAAGTCAACCCACGAAAC
192 TGGGAATGAACTCCGTATGCTTAGACTGGGGATGAACTCCGTATGCCTAAGTCAACCCACGAAAC
* * * * * *
28857943 GAGCGTACAGGCGCTCAGTCGACCGGAGAGGTCGGCCGGAGAGACATAATGCACAGGTCGGGGAT
257 GAGCGTGCGGGCGCTCAG-CGATCGGAGAGGTCGGCCGAAGAGACATAATGCACAAGCCGGGGAT
* * * * *
28858008 CAGCTTGGTCACCCTCTAG-ATGCTGTCAATCCCATTATCGGTCCT
321 CAGCCTAGTCACCCTCT-GCATGCTGCCAATCCCACTATCAGTCCT
** * *
28858053 GTTACCACAGCCCTCGGTCCGGCT-AGGGCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAA
1 ACTACCACAACCCTCGGTCCAGCTGA-GGCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAA
** * * * *
28858117 CCTGTAAAAAGAACATTTC-GGAGCTCAGTCGGCCAGAGAGGCAGAATACATAAGTC-GAGGATC
65 CCCATAAAAAGAAC-GTGCGGGA-CTCAGTCGGCCAGAGAGGCAGAATACACAAGCCTG-GGATC
*
28858180 AGCCCGGTCCCTCCTGCATGCTGCTGATCCTGCTGCTGGTCCTACTGCTGCAACCCTCGATCCGA
127 AGCCCGGTCCCTCCTGCATGCTGC-GA---T-C--CT-AT--TA-T-C-GCAACCCTCGATCCGA
* **
28858245 TCCAATCTTAGACTGGGAATGAACTCCGTATGCTTAGAC-GTGAAATGAACTCCGTATGCCTAAG
179 TCCGATCTTAGACTGGGAATGAACTCCGTATGCTTAGACTG-GGGATGAACTCCGTATGCCTAAG
* * * * *
28858309 CCAACCCATGAAATGAGTGTGCGGGCGCTCAACCGATCGGAGAGG
243 TCAACCCACGAAACGAGCGTGCGGGCGCTC-AGCGATCGGAGAGG
28858354 CAGAATGTGT
Statistics
Matches: 553, Mismatches: 89, Indels: 42
0.81 0.13 0.06
Matches are distributed among these distances:
367 7 0.01
368 420 0.76
369 8 0.01
371 1 0.00
372 1 0.00
374 2 0.00
375 1 0.00
377 2 0.00
378 1 0.00
379 2 0.00
380 106 0.19
381 2 0.00
ACGTcount: A:0.24, C:0.29, G:0.27, T:0.21
Consensus pattern (365 bp):
ACTACCACAACCCTCGGTCCAGCTGAGGCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAAC
CCATAAAAAGAACGTGCGGGACTCAGTCGGCCAGAGAGGCAGAATACACAAGCCTGGGATCAGCC
CGGTCCCTCCTGCATGCTGCGATCCTATTATCGCAACCCTCGATCCGATCCGATCTTAGACTGGG
AATGAACTCCGTATGCTTAGACTGGGGATGAACTCCGTATGCCTAAGTCAACCCACGAAACGAGC
GTGCGGGCGCTCAGCGATCGGAGAGGTCGGCCGAAGAGACATAATGCACAAGCCGGGGATCAGCC
TAGTCACCCTCTGCATGCTGCCAATCCCACTATCAGTCCT
Found at i:28858569 original size:157 final size:157
Alignment explanation
Indices: 28858288--28858660 Score: 485
Period size: 157 Copynumber: 2.4 Consensus size: 157
28858278 TTAGACGTGA
* * * *
28858288 AATGAACTCCGTATGCCTAAGCCAACCCATGAAATGAGTGTGCGGGCGCTCAACCGATCGGAGAG
1 AATGAACTCCGTATGCCTAAGCCAACCCATGAAATGAGTGTGC-GGTGCTCAGCCGACCAGAGAG
* * * * * **
28858353 GCAGAATGTGTAAGCGGGGGACCAACCCGATCCCCCCTACGTGGTGTCGATCCTGCTGCCGTAAC
65 GCAGAATGCGCAAGCGAGGGACCAACCCGATCCCCCCTACGTGCTGTCGATCCTACTGCCACAAC
*
28858418 CTTCAGTCCGATCCAATCTTAGACTGGG
130 CCTCAGTCCGATCCAATCTTAGACTGGG
* *
28858446 AATGAACTCCGTATGCCTAAGCCAAACCACGAAATGAGTGTGCGGTGCTCAGCCGACCAGAGAGG
1 AATGAACTCCGTATGCCTAAGCCAACCCATGAAATGAGTGTGCGGTGCTCAGCCGACCAGAGAGG
* ** *
28858511 CAGAATGCGCAAGCTAGGGACTGACCCGATCCCCCCTCCGTGCTGTCGATCCTACTGCCACAACC
66 CAGAATGCGCAAGCGAGGGACCAACCCGATCCCCCCTACGTGCTGTCGATCCTACTGCCACAACC
* * **
28858576 CTCGGTCTGATCTGATCTTAGACTGGG
131 CTCAGTCCGATCCAATCTTAGACTGGG
* * * * *
28858603 AATGAACTTCGTATGCCTAAGTCAACCCATGAAATGCGTGTTCGAGTGCTCAGTCGAC
1 AATGAACTCCGTATGCCTAAGCCAACCCATGAAATGAGTGTGCG-GTGCTCAGCCGAC
28858661 TGGAGAGGTC
Statistics
Matches: 185, Mismatches: 29, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
157 132 0.71
158 53 0.29
ACGTcount: A:0.25, C:0.29, G:0.26, T:0.20
Consensus pattern (157 bp):
AATGAACTCCGTATGCCTAAGCCAACCCATGAAATGAGTGTGCGGTGCTCAGCCGACCAGAGAGG
CAGAATGCGCAAGCGAGGGACCAACCCGATCCCCCCTACGTGCTGTCGATCCTACTGCCACAACC
CTCAGTCCGATCCAATCTTAGACTGGG
Found at i:28858975 original size:26 final size:26
Alignment explanation
Indices: 28858946--28858998 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28858936 CCGATCCAAT
28858946 CTTAGAC-TAGGAATGAACTCCATATG
1 CTTAGACAT-GGAATGAACTCCATATG
*
28858972 CTTAGACATGGAATGAACTCCGTATG
1 CTTAGACATGGAATGAACTCCATATG
28858998 C
1 C
28858999 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:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (26 bp):
CTTAGACATGGAATGAACTCCATATG
Found at i:28859243 original size:196 final size:196
Alignment explanation
Indices: 28858775--28859256 Score: 572
Period size: 196 Copynumber: 2.5 Consensus size: 196
28858765 TCCAGCTGGG
* *
28858775 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAAAGAGCGTGCAGGCGCTCAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAG
* * * * * ** * *
28858840 TCGGGT-GGAGAGGCAGAATGCATAAACCGGGGATCAGCTCGATCCTTCCTGCATGTTATCGATC
66 -CCGGTCGAAGAGGTAGAATGCACAAACCGGGGATCAGCCCGATCCCCCCTACATGCTATCGATC
* * *
28858904 TTACTGCTGGTTCTGCTGTCGTAACTCTCGATCCGATCCAATCTTAGACTAGGAATGAACTCCAT
130 CTACTGCTGGTTCTGCTATCGCAACTCTCGATCCGATCCAATCTTAGACTAGGAATGAACTCCAT
28858969 AT
195 AT
* * * * * *
28858971 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACAAGCGTACGAGCACTTAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAG
* * * ** * * *
28859036 CTGGCCGAAGAGGTAGAATGCGCAAGTCGGGGATCAGCCCGGTCCCCCCTACGTGCTGTCGATCC
66 CCGGTCGAAGAGGTAGAATGCACAAACCGGGGATCAGCCCGATCCCCCCTACATGCTATCGATCC
** * * * * *
28859101 TGTTGCTGGTTTTGCTATCGCAACTCTCGGTCC-AGTCCGATCTTAGACTGGGAATGAACTCTAT
131 TACTGCTGGTTCTGCTATCGCAACTCTCGATCCGA-TCCAATCTTAGACTAGGAATGAACTCCAT
28859165 AT
195 AT
* * *
28859167 GCTTAGACATGGAATGAACCCCGTCTGCCTAAGCCAACCCACGAAACGAGCGTGCGGGTGCTCAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAG
* *
28859232 CCAGTCGAAGAGGTAGAAAGCACAA
66 CCGGTCGAAGAGGTAGAATGCACAA
28859257 GCCGAGCATT
Statistics
Matches: 236, Mismatches: 48, Indels: 4
0.82 0.17 0.01
Matches are distributed among these distances:
195 4 0.02
196 232 0.98
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.22
Consensus pattern (196 bp):
GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAG
CCGGTCGAAGAGGTAGAATGCACAAACCGGGGATCAGCCCGATCCCCCCTACATGCTATCGATCC
TACTGCTGGTTCTGCTATCGCAACTCTCGATCCGATCCAATCTTAGACTAGGAATGAACTCCATA
T
Found at i:28859557 original size:159 final size:158
Alignment explanation
Indices: 28859286--28859635 Score: 360
Period size: 159 Copynumber: 2.2 Consensus size: 158
28859276 CTTCCCTGCA
** * * * * * ** *
28859286 TGCTGTCGATCCTACTACCGCAACCCTCGGTCCGGTTCGATCTTAGACTGGGAATGAACTCCGTA
1 TGCTGTCGATCCCGCTGCCACAACCCTCGGTCTGGCTCGAGCTTAGACAAGGAATGAACTCCCTA
* * * ** * * *
28859351 TGCCTAAGTCAACCCATGAAACGAGCGTGCGGGCACTGAGTCGGTCGAAAAGGCATAATGCGCAA
66 TGCCTAAGCCAACCCATGAAACGAGCGTCCGGGCACTCAACCCGTCGAAAAGGCAAAATACGCAA
* * **
28859416 GCTGGGGATCGACCCGATCCCCCTCTGTG
131 GCCGAGGATCGACCCGAT-CCCCTCTACG
* * *
28859445 TGCTGTTGGTCCCGCTGCCACAACCCTCGGTCTGGCTGGAGCTTAGACAAGGAATGAACTCCCTA
1 TGCTGTCGATCCCGCTGCCACAACCCTCGGTCTGGCTCGAGCTTAGACAAGGAATGAACTCCCTA
* ** *
28859510 TGCCTAGGCCAACCCATGAAAC-AGGCGTCCGGGTGCTCAACCCGTCGAAGAGGCAAAATACGCA
66 TGCCTAAGCCAACCCATGAAACGA-GCGTCCGGGCACTCAACCCGTCGAAAAGGCAAAATACGCA
* * *
28859574 AGCCGAGGATCGGCCTGGTCCCCTCTACG
130 AGCCGAGGATCGACCCGATCCCCTCTACG
* * *
28859603 TGCTGTCGATCCTGCTGTCGCAACCCTCGGTCT
1 TGCTGTCGATCCCGCTGCCACAACCCTCGGTCT
28859636 AGTCTGATCT
Statistics
Matches: 153, Mismatches: 37, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
158 37 0.24
159 116 0.76
ACGTcount: A:0.21, C:0.31, G:0.27, T:0.20
Consensus pattern (158 bp):
TGCTGTCGATCCCGCTGCCACAACCCTCGGTCTGGCTCGAGCTTAGACAAGGAATGAACTCCCTA
TGCCTAAGCCAACCCATGAAACGAGCGTCCGGGCACTCAACCCGTCGAAAAGGCAAAATACGCAA
GCCGAGGATCGACCCGATCCCCTCTACG
Found at i:28861235 original size:26 final size:26
Alignment explanation
Indices: 28861196--28861247 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28861186 GCTCAAAATA
*
28861196 TTAGACTGGCAATGAACTCCGTATGC
1 TTAGACTGGCAATGAACTCCATATGC
28861222 TTAGACATGG-AATGAACTCCATATGC
1 TTAGAC-TGGCAATGAACTCCATATGC
28861248 CTAAGCCAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 21 0.88
27 3 0.12
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (26 bp):
TTAGACTGGCAATGAACTCCATATGC
Found at i:28861415 original size:26 final size:26
Alignment explanation
Indices: 28861379--28861431 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
28861369 TTGGTTCGAT
28861379 CTTAGACTAGGAATGAACTCCGTATG
1 CTTAGACTAGGAATGAACTCCGTATG
28861405 CTTAGACTAGGAATGAACTCCGTATG
1 CTTAGACTAGGAATGAACTCCGTATG
28861431 C
1 C
28861432 CTAAGTTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (26 bp):
CTTAGACTAGGAATGAACTCCGTATG
Found at i:28861770 original size:26 final size:26
Alignment explanation
Indices: 28861732--28861784 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
28861722 CTGATCTGAT
*
28861732 CTTAGACCGGGAATGAACTCCGTATG
1 CTTAGACAGGGAATGAACTCCGTATG
*
28861758 CTTAGACATGGAATGAACTCCGTATG
1 CTTAGACAGGGAATGAACTCCGTATG
28861784 C
1 C
28861785 CTAAGCGAAA
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:0.23, G:0.25, T:0.25
Consensus pattern (26 bp):
CTTAGACAGGGAATGAACTCCGTATG
Found at i:28862043 original size:353 final size:353
Alignment explanation
Indices: 28861376--28862024 Score: 765
Period size: 353 Copynumber: 1.8 Consensus size: 353
28861366 AGTTTGGTTC
* **
28861376 GATCTTAGACTAGGAATGAACTCCGTATGCTTAGACTAGGAATGAACTCCGTATGCCTAAGTTAA
1 GATCTTAGACCAGGAATGAACTCCGTATGCTTAGACTAGGAATGAACTCCGTATGCCTAAGCGAA
* * * * **
28861441 CCCATGAAATGAGCATACGGGCGCTCAGCCGACCAGAAAGACATAATGCGTAAGCCGGGGATAAG
66 ACCACGAAAAGAGCATACGGGCGCTCAGCCGACCAGAAAGACAGAATGCACAAGCCGGGGATAAG
* * * * * * *
28861506 CCTGGTCTATCGATCCCACTGTCGATCCTGCTGCCACAACCCTCGGTCTGGCTTGGGCTTAGACA
131 CCTGGGCCACCGATCCCACTGTCGATCCTGCTACCACAACCCTCGGTCAGGCTCGAGCTTAGACA
** * * * *
28861571 TGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAATGTGCGTACGGGCGCTCAATCGATCGAA
196 TGGAATGAACTCCGTATGCCTAAGCCAACCCACAAAATGAGCGTACGGGCACTCAACCAATCGAA
* * *
28861636 GAGGCAGAATGCGCAAGCCGAGGATCGGTCCGGTCCCCCTACGTGATGTCGATCCTGCTGTTGGT
261 GAGGCAGAATGCGCAAGCCGAGGATCGGCCCGATCCCCCTACGTGATGTCGATCCCGCTGTTGGT
28861701 CTTGTTACTGCAACACTCGGTCTGATCT
326 CTTGTTACTGCAACACTCGGTCTGATCT
*
28861729 GATCTTAGACCGGGAATGAACTCCGTATGCTTAGAC-ATGGAATGAACTCCGTATGCCTAAGCGA
1 GATCTTAGACCAGGAATGAACTCCGTATGCTTAGACTA-GGAATGAACTCCGTATGCCTAAGCGA
* * * *
28861793 AACCACGAAAAGAGCGTGCGGGCGCTCAGCC-AGCCAGAGAGGCAGAATGCACAAGCCGGGGAT-
65 AACCACGAAAAGAGCATACGGGCGCTCAGCCGA-CCAGAAAGACAGAATGCACAAGCCGGGGATA
* * * *** * * *
28861856 CGACCTGGGCCCCCTA-CGTGCTGTCGATCCTGCTACCACAA-CCTTGGTCCAGTC-CGATCTTA
129 AG-CCTGGGCCACCGATCCCACTGTCGATCCTGCTACCACAACCCTCGGT-CAGGCTCGAGCTTA
* * * * *
28861918 GAC-TGGGAATGAACTCCGTATGCCTAAGTCAACCCACAAAATGAGCGTGCGGGCATTGAGCCAA
192 GACAT-GGAATGAACTCCGTATGCCTAAGCCAACCCACAAAATGAGCGTACGGGCACTCAACCAA
* * *
28861982 TCGGAGAGGCATAATGTGCAAGCCCG-GGATCGGCCCGATCCCC
256 TCGAAGAGGCAGAATGCGCAAG-CCGAGGATCGGCCCGATCCCC
28862025 TTTTGTGTGC
Statistics
Matches: 244, Mismatches: 46, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
350 1 0.00
351 96 0.39
352 30 0.12
353 117 0.48
ACGTcount: A:0.26, C:0.28, G:0.27, T:0.20
Consensus pattern (353 bp):
GATCTTAGACCAGGAATGAACTCCGTATGCTTAGACTAGGAATGAACTCCGTATGCCTAAGCGAA
ACCACGAAAAGAGCATACGGGCGCTCAGCCGACCAGAAAGACAGAATGCACAAGCCGGGGATAAG
CCTGGGCCACCGATCCCACTGTCGATCCTGCTACCACAACCCTCGGTCAGGCTCGAGCTTAGACA
TGGAATGAACTCCGTATGCCTAAGCCAACCCACAAAATGAGCGTACGGGCACTCAACCAATCGAA
GAGGCAGAATGCGCAAGCCGAGGATCGGCCCGATCCCCCTACGTGATGTCGATCCCGCTGTTGGT
CTTGTTACTGCAACACTCGGTCTGATCT
Found at i:28863465 original size:26 final size:26
Alignment explanation
Indices: 28863424--28863476 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28863414 CCAGTCTGAT
28863424 CTTAGACCAGGAATGAACTCCGTATG
1 CTTAGACCAGGAATGAACTCCGTATG
* * *
28863450 CTTAGACTAGGGATGAACTCTGTATG
1 CTTAGACCAGGAATGAACTCCGTATG
28863476 C
1 C
28863477 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:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (26 bp):
CTTAGACCAGGAATGAACTCCGTATG
Found at i:28863807 original size:26 final size:26
Alignment explanation
Indices: 28863755--28863807 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
28863745 TTGGTCTGAT
*
28863755 CTTAGACTGAGAATGAACTCCATATG
1 CTTAGACTGAGAATGAACTCCACATG
*
28863781 CTTAGACATG-GAATGAACTCCGCATG
1 CTTAGAC-TGAGAATGAACTCCACATG
28863807 C
1 C
28863808 CTAAGCCAAC
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:0.21, T:0.25
Consensus pattern (26 bp):
CTTAGACTGAGAATGAACTCCACATG
Found at i:28864207 original size:159 final size:158
Alignment explanation
Indices: 28863780--28864209 Score: 422
Period size: 159 Copynumber: 2.7 Consensus size: 158
28863770 AACTCCATAT
* * * * *
28863780 GCTTAGACATGGAATGAACTCCGC-ATGCCTAAGCCAACCCATGAAACGAGCATACAGGTGCTCA
1 GCTTAGACACGGAATGAACTCC-CTATGCCTAATCCAACCCAAGAAACGAGCGTACGGGTGCTCA
* * *
28863844 GCCGATCGGAGAGGCAGAATGCGAAAGC-CAGGGATCGACCTGGTCCCCCCTACATGCTGTCGAT
65 GCCGATCGGAGAGGCAGAATGCGCAAGCTGA-GGATCGACCTGGTCCCCCCGACATGCTGTCGAT
* * *
28863908 CCTGTTGCCACAACCCTCGGTCCGATCTGA
129 CCCGCTGCCACAACCCTCAGTCCGATCTGA
* ** * ** * ** * *
28863938 TCTTAGACTGGGAATAAACTCAGTATGCCTAAGT-CAACCCACGAAATAAGTGTACGGGTGCTGA
1 GCTTAGACACGGAATGAACTCCCTATGCCTAA-TCCAACCCAAGAAACGAGCGTACGGGTGCTCA
* * * * * ** * *
28864002 GTCAATCGAAGAGGCATAATGCGCAAG-TCGGGGATCGACCCAGTCCCACTCGACGTGCTGTCGA
65 GCCGATCGGAGAGGCAGAATGCGCAAGCT-GAGGATCGACCTGGTCCC-CCCGACATGCTGTCGA
*
28864066 TCCCGCTGCCACAACCCTCAGTCCGAT-TGGG
128 TCCCGCTGCCACAACCCTCAGTCCGATCT-GA
* *
28864097 GCTTAGACACGGAATGAACTCCCTATGCCTAATCCAACCCAAGAAACGGGCGTACGGGCGCTCAG
1 GCTTAGACACGGAATGAACTCCCTATGCCTAATCCAACCCAAGAAACGAGCGTACGGGTGCTCAG
* * *
28864162 CCGA-CTGGAGAGGCAGAATGCGCAAGCTGAAGATCGGCTTGGTCCCCC
66 CCGATC-GGAGAGGCAGAATGCGCAAGCTGAGGATCGACCTGGTCCCCC
28864210 TACGTGCTAC
Statistics
Matches: 209, Mismatches: 54, Indels: 18
0.74 0.19 0.06
Matches are distributed among these distances:
158 88 0.42
159 120 0.57
160 1 0.00
ACGTcount: A:0.26, C:0.30, G:0.26, T:0.18
Consensus pattern (158 bp):
GCTTAGACACGGAATGAACTCCCTATGCCTAATCCAACCCAAGAAACGAGCGTACGGGTGCTCAG
CCGATCGGAGAGGCAGAATGCGCAAGCTGAGGATCGACCTGGTCCCCCCGACATGCTGTCGATCC
CGCTGCCACAACCCTCAGTCCGATCTGA
Found at i:28864284 original size:26 final size:26
Alignment explanation
Indices: 28864255--28864307 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
28864245 TCGGTCCGAT
28864255 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
*
28864281 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28864307 C
1 C
28864308 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:0.21, G:0.28, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28865003 original size:159 final size:154
Alignment explanation
Indices: 28864620--28865061 Score: 413
Period size: 159 Copynumber: 2.8 Consensus size: 154
28864610 ATGCTTAACA
* * * * * *
28864620 TGGAATGAACTCTGTATGCCTAAGCCAACCGACGAAATAAGCGTGCGGGCGCTCAGTCGACCGGA
1 TGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGCGTGCAGG-GCTTAGTCG-GCGGA
** * * ** *
28864685 GAGGCAGAATGAACGAGTCGGGGATCGACCCGGTCCCCCCTGTGTGCTGTCGATCCTGCTACCGC
64 GAGGCAGAATGCGCAAGTCGGGGATCGACCCGATCCCCCCTGTGTGCTACCGATCCTGCTACCAC
*
28864750 AACCCATGGTCCGGTCTGATCTTAGTC
129 AACCCA-GGTCCGGTCTGAGCTTAGTC
* * * *
28864777 TGGGAATGAACTCCGTATGCCTAAGTCAACCCACGAAACGAGCGTGCA-GGCATTGAGCCAGCTG
1 T-GGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGCGTGCAGGGC-TT-AGTCGGC-G
* ** *
28864841 GAGAGGCATAATGCGCAAGTCGGGGATCGACCCGATCCTCCTTTGTGTGCTACCGGTCCTGCTAC
62 GAGAGGCAGAATGCGCAAGTCGGGGATCGACCCGATCC-CCCCTGTGTGCTACCGATCCTGCTAC
* * *
28864906 TACAACCTTCA-GTCCGG-CTGGGGCTTAGATG
126 CACAACC--CAGGTCCGGTCT-GAGCTTAG-TC
* * * *
28864937 TGGAATGAACTCCCTATGGCTAAGCCAACCCACGAAATGGGCGTACAGGTGCTTAGTCGGTCGGA
1 TGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGCGTGCAGG-GCTTAGTCGG-CGGA
* * * ** **
28865002 GAGGCAGAATGCGCAAGTTGGGAATCGACCTGATCCCCCCTACGTGCTGTCGATCCTGCT
64 GAGGCAGAATGCGCAAGTCGGGGATCGACCCGATCCCCCCTGTGTGCTACCGATCCTGCT
28865062 GTCGTAACTC
Statistics
Matches: 229, Mismatches: 44, Indels: 23
0.77 0.15 0.08
Matches are distributed among these distances:
156 2 0.01
157 4 0.02
158 96 0.42
159 117 0.51
160 6 0.03
161 4 0.02
ACGTcount: A:0.22, C:0.28, G:0.29, T:0.21
Consensus pattern (154 bp):
TGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGCGTGCAGGGCTTAGTCGGCGGAGA
GGCAGAATGCGCAAGTCGGGGATCGACCCGATCCCCCCTGTGTGCTACCGATCCTGCTACCACAA
CCCAGGTCCGGTCTGAGCTTAGTC
Found at i:28865831 original size:26 final size:26
Alignment explanation
Indices: 28865793--28865845 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
28865783 GGCTCAAAAT
*
28865793 CTTAGACTGGGAATGAACTCTGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
*
28865819 CTTAGACTTGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28865845 C
1 C
28865846 CTAAGCCAAC
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:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28867946 original size:26 final size:26
Alignment explanation
Indices: 28867917--28867967 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
28867907 CCGGTCTGAT
28867917 CTTAGACTAGGAATGAACTCCGTATA
1 CTTAGACTAGGAATGAACTCCGTATA
* * *
28867943 CTTAGACTGGGGATGAACTCTGTAT
1 CTTAGACTAGGAATGAACTCCGTAT
28867968 GCCTAAGTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (26 bp):
CTTAGACTAGGAATGAACTCCGTATA
Found at i:28868677 original size:26 final size:26
Alignment explanation
Indices: 28868648--28868700 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28868638 AGCTCAAAAT
28868648 CTTAGAC-TGTGAATGAACTCCGTATG
1 CTTAGACATG-GAATGAACTCCGTATG
*
28868674 CTTAGACATGGAATGAACTCTGTATG
1 CTTAGACATGGAATGAACTCCGTATG
28868700 C
1 C
28868701 CTAAGCCAAC
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:0.19, G:0.23, T:0.30
Consensus pattern (26 bp):
CTTAGACATGGAATGAACTCCGTATG
Found at i:28869193 original size:26 final size:26
Alignment explanation
Indices: 28869152--28869201 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
28869142 GTCCGATCTC
28869152 AGACTGGGAATGAACT-TCGTATGCTT
1 AGACTGGGAATGAACTCT-GTATGCTT
* *
28869178 AGACTGGGGATTAACTCTGTATGC
1 AGACTGGGAATGAACTCTGTATGC
28869202 CTAAGTCAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 20 0.95
27 1 0.05
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (26 bp):
AGACTGGGAATGAACTCTGTATGCTT
Found at i:28869934 original size:26 final size:26
Alignment explanation
Indices: 28869884--28869936 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
28869874 GGCTCAAAAT
*
28869884 CTTAGACTGGAAATGAACTCCGTATG
1 CTTAGACTGGAAATGAACTCAGTATG
*
28869910 CTTAGACATGG-AATGAACTTAGTATG
1 CTTAGAC-TGGAAATGAACTCAGTATG
28869936 C
1 C
28869937 CTAAGCCAAC
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:0.17, G:0.23, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGAAATGAACTCAGTATG
Found at i:28870212 original size:158 final size:158
Alignment explanation
Indices: 28869919--28870409 Score: 497
Period size: 158 Copynumber: 3.1 Consensus size: 158
28869909 GCTTAGACAT
** * * *
28869919 GGAATGAACTTAGTATGCCTAAGCCAACCCATGAAATGAGCGTGCTGGCGCTCAGCCGATCGGAG
1 GGAATGAACTCCGTATGCCTAAGCCAACCCATGAAATGAGCGTGCGGGCGTTCAGCCG-TCGAAG
* * * * * **
28869984 AGGCAGAATGCGCAAGACGGGGATC-ACCCCGGTCCCCC-CTTGTGAGCTGTCAATCCTGCTGTC
65 AGGCAGAATGCGCAAGTCGGGGATCGA-CCCGGTCCCCCTC-TGCGTGCTGCCGATCCTGCTACC
*
28870047 GCAACCCTCGGTCCGGTCCGATCTGAGACTG
128 GCAACCCTCGGTCCGGTCCGATCTCAGACTG
* * * * *
28870078 GGAATGAACTCCGTATGCATAAGTCAACCCATGAAATGAGCGTGCGGGCGTTGAGCTGTCGAAAA
1 GGAATGAACTCCGTATGCCTAAGCCAACCCATGAAATGAGCGTGCGGGCGTTCAGCCGTCGAAGA
* * * * *
28870143 GGCATAATGCGCAAGTCGGGGATCGACCCAGTCCCCCTCTGCGTGCTACCGATCCCGCTACCACA
66 GGCAGAATGCGCAAGTCGGGGATCGACCCGGTCCCCCTCTGCGTGCTGCCGATCCTGCTACCGCA
* * **
28870208 ACCCTCTGTCCGG-CTGGGGCTCAGACAT-
131 ACCCTCGGTCCGGTC-CGATCTCAGAC-TG
* * * * * *
28870236 GGAATGAACTCCCTATGCCTAAGCCAACCCATGAAACGGGCATGCGGGCATTCAGCCGGCCGAAG
1 GGAATGAACTCCGTATGCCTAAGCCAACCCATGAAATGAGCGTGCGGGCGTTCAGCC-GTCGAAG
* ** * * * *
28870301 AGGCAGAATACGCAAGTTAGGGATCGGCCCGGTCCCCCT-TACGTGCTGGCGATCCTGCTACTGC
65 AGGCAGAATGCGCAAGTCGGGGATCGACCCGGTCCCCCTCTGCGTGCTGCCGATCCTGCTACCGC
** * *
28870365 AACCCTCGGTTTGGTCTGATCTTAGACTG
130 AACCCTCGGTCCGGTCCGATCTCAGACTG
28870394 GGAATGAACTCCGTAT
1 GGAATGAACTCCGTAT
28870410 CTTAGATTGA
Statistics
Matches: 267, Mismatches: 58, Indels: 15
0.79 0.17 0.04
Matches are distributed among these distances:
157 2 0.01
158 173 0.65
159 92 0.34
ACGTcount: A:0.23, C:0.30, G:0.28, T:0.20
Consensus pattern (158 bp):
GGAATGAACTCCGTATGCCTAAGCCAACCCATGAAATGAGCGTGCGGGCGTTCAGCCGTCGAAGA
GGCAGAATGCGCAAGTCGGGGATCGACCCGGTCCCCCTCTGCGTGCTGCCGATCCTGCTACCGCA
ACCCTCGGTCCGGTCCGATCTCAGACTG
Found at i:28870425 original size:25 final size:25
Alignment explanation
Indices: 28870383--28870434 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
28870373 GTTTGGTCTG
28870383 ATCTTAGACTGGGAATGAACTCCGT
1 ATCTTAGACTGGGAATGAACTCCGT
*
28870408 ATCTTAGATTGAGG-ATGAACTCCGT
1 ATCTTAGACTG-GGAATGAACTCCGT
28870433 AT
1 AT
28870435 GCCTAAGTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 23 0.92
26 2 0.08
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (25 bp):
ATCTTAGACTGGGAATGAACTCCGT
Found at i:28870828 original size:158 final size:158
Alignment explanation
Indices: 28870594--28871094 Score: 407
Period size: 158 Copynumber: 3.2 Consensus size: 158
28870584 TCAACTCTGT
* * * * ** * * * * *
28870594 ATAAGCCAACCCACAAAATGAGCGTACGGGTGGTCAGCCGGCCAGAGAGGCAGAATACGCTAG-T
1 ATAAGTCAACCCACAAAACGAGCGTGCAGGTGCCCAACCGGTCAAAGAGGCAGAATACACAAGCT
* * * *
28870658 CGAGGATTGACCCGGTCCCCCCTACGTGCTATCGATCCTGCTGCCATAACCCTCTGTCTGGTCCG
66 -GAGGATCGACCCGGTCCCCCTTACGTGCTATCGATCCTGCTGCCACAACCCTCGGTCTGGTCCG
* *
28870723 ATCTTTGACTGGGAATAAACTTCATATCC
130 ATCTTAGACTGGGAATAAACTCCATATCC
* ** * * * * *
28870752 ATAAGTCAACCCACAAAACGAGCGTGCGGGTGCTGAGCCGGTCGAAGTGGCATAATGCACAAGCT
1 ATAAGTCAACCCACAAAACGAGCGTGCAGGTGCCCAACCGGTCAAAGAGGCAGAATACACAAGCT
* * * ** * * * **
28870817 GAGGATCGACCCGATCCCCCTTTGCGTGTTGCCGGTCCCGCTGCCACAACCCTCGGTCCTGCTAA
66 GAGGATCGACCCGGTCCCCC-TTACGTGCTATCGATCCTGCTGCCACAACCCTCGGT-CTGGTCC
* * *
28870882 G-GCTTAGACAT-GGAATGAACTCCCTATGCC
129 GATCTTAGAC-TGGGAATAAACTCCATAT-CC
* * * * *
28870912 -TAAGCCAACCCACAAAACGGGCGTGCAGGTGCCCAACTGGTCAAAGAGGTAGAATACGCAAGCT
1 ATAAGTCAACCCACAAAACGAGCGTGCAGGTGCCCAACCGGTCAAAGAGGCAGAATACACAAGCT
* * * * * ** *
28870976 GGGGATCGGCCCGGTCCCCCTTACGTGCTATCGATCCTACTGTCGCAACCCTCGGTCCAGTCCAA
66 GAGGATCGACCCGGTCCCCCTTACGTGCTATCGATCCTGCTGCCACAACCCTCGGTCTGGTCCGA
* ** *
28871041 TCTTAGATTGCAAATAAACTCCATATGC
131 TCTTAGACTGGGAATAAACTCCATATCC
* * *
28871069 ATACGTCAACCCACGAAATGAGCGTG
1 ATAAGTCAACCCACAAAACGAGCGTG
28871095 TAGGCACTGA
Statistics
Matches: 260, Mismatches: 75, Indels: 16
0.74 0.21 0.05
Matches are distributed among these distances:
157 4 0.02
158 133 0.51
159 115 0.44
160 8 0.03
ACGTcount: A:0.25, C:0.30, G:0.24, T:0.20
Consensus pattern (158 bp):
ATAAGTCAACCCACAAAACGAGCGTGCAGGTGCCCAACCGGTCAAAGAGGCAGAATACACAAGCT
GAGGATCGACCCGGTCCCCCTTACGTGCTATCGATCCTGCTGCCACAACCCTCGGTCTGGTCCGA
TCTTAGACTGGGAATAAACTCCATATCC
Found at i:28871011 original size:317 final size:315
Alignment explanation
Indices: 28870531--28871251 Score: 797
Period size: 317 Copynumber: 2.3 Consensus size: 315
28870521 TGTCGATCTC
* *
28870531 GCTACCGGTCCTGCTGCCACAACCCTCGGTCCGGCTGGGGCTTAGACATGGAATCAACT--C--T
1 GCTACCGGTCCCGCTGCCACAACCCTCGGTCC-GCTGGGGCTTAGACATGGAATGAACTCCCTAT
** * * ** * * *
28870592 GTATAAGCCAACCCACAAAATGAGCGTACGGGTGGTCAGCCGGCCAGAGAGGCAGAATACGCTAG
65 GCCTAAGCCAACCCACAAAATGGGCGTACAGGTGCCCAACCGGCCAAAGAGGCAGAATACGCAAG
* * * * **
28870657 TCGAGGATTGACCCGGTCCCCCCTACGTGCTATCGATCCTGCTGCCATAACCCTCTGTCTGGTCC
130 TCGAGGATCGACCCGGTCCCCCCTACGTGCTATCGATCCTACTGCCACAACCCTCGGTCCAGTCC
* * ** * * **
28870722 GATCTTTGACTGGGAATAAACTTCATATCCATAAGTCAACCCACAAAACGAGCGTGCGGGTGCTG
195 AATCTTAGACTGCAAATAAACTCCATATCCATAAGTCAACCCACAAAACGAGCGTGCAGGCACTG
* ** * * * *
28870787 AGCCGGTCGAAGTGGCATAATGCACAAG-CTGAGGATCGACCCGATCCCCCTTTGCGT
260 AACCGACCGAAGAGCCATAATGCACAAGCCAG-GGAT-GACCCGATCCCCCTCTGCGT
* * **
28870844 GTTGCCGGTCCCGCTGCCACAACCCTCGGTCCTGCTAAGGCTTAGACATGGAATGAACTCCCTAT
1 GCTACCGGTCCCGCTGCCACAACCCTCGGTCC-GCTGGGGCTTAGACATGGAATGAACTCCCTAT
* * * * *
28870909 GCCTAAGCCAACCCACAAAACGGGCGTGCAGGTGCCCAACTGGTCAAAGAGGTAGAATACGCAAG
65 GCCTAAGCCAACCCACAAAATGGGCGTACAGGTGCCCAACCGGCCAAAGAGGCAGAATACGCAAG
* * * * *
28870974 -CTGGGGATCGGCCCGGTCCCCCTTACGTGCTATCGATCCTACTGTCGCAACCCTCGGTCCAGTC
130 TC-GAGGATCGACCCGGTCCCCCCTACGTGCTATCGATCCTACTGCCACAACCCTCGGTCCAGTC
* * * * * *
28871038 CAATCTTAGATTGCAAATAAACTCCATATGCATACGTCAACCCACGAAATGAGCGTGTAGGCACT
194 CAATCTTAGACTGCAAATAAACTCCATATCCATAAGTCAACCCACAAAACGAGCGTGCAGGCACT
* * **
28871103 GAACCGACCGAAGAGCCATAATGCGCAAGCCAGGGATTAGTCGATCCCCCTCTGCGT
259 GAACCGACCGAAGAGCCATAATGCACAAGCCAGGGATGACCCGATCCCCCTCTGCGT
* * * *
28871160 GCTACCGATCCCGCTGCCATAACCCTCGGTCCGACTGGGGCTTAGACATGAAATGAACTCCTTAT
1 GCTACCGGTCCCGCTGCCACAACCCTCGGTCCG-CTGGGGCTTAGACATGGAATGAACTCCCTAT
*
28871225 GCCTAAGCCAACCCACGAAATGGGCGT
65 GCCTAAGCCAACCCACAAAATGGGCGT
28871252 CCGGGCACAC
Statistics
Matches: 334, Mismatches: 67, Indels: 11
0.81 0.16 0.03
Matches are distributed among these distances:
313 52 0.16
315 2 0.01
316 97 0.29
317 181 0.54
318 2 0.01
ACGTcount: A:0.25, C:0.31, G:0.25, T:0.20
Consensus pattern (315 bp):
GCTACCGGTCCCGCTGCCACAACCCTCGGTCCGCTGGGGCTTAGACATGGAATGAACTCCCTATG
CCTAAGCCAACCCACAAAATGGGCGTACAGGTGCCCAACCGGCCAAAGAGGCAGAATACGCAAGT
CGAGGATCGACCCGGTCCCCCCTACGTGCTATCGATCCTACTGCCACAACCCTCGGTCCAGTCCA
ATCTTAGACTGCAAATAAACTCCATATCCATAAGTCAACCCACAAAACGAGCGTGCAGGCACTGA
ACCGACCGAAGAGCCATAATGCACAAGCCAGGGATGACCCGATCCCCCTCTGCGT
Found at i:28871632 original size:159 final size:158
Alignment explanation
Indices: 28871293--28871642 Score: 350
Period size: 159 Copynumber: 2.2 Consensus size: 158
28871283 ATGCAAGCCA
* * ** * *
28871293 ACCGGAGAGGC-GAAATGCGAAAGCCGGGGATCGACCTGGTCCCCCCTACATGCTATCGATCCTG
1 ACCGAAGAGGCAG-AATGCGCAAGCCGGGGATCGACCAAGTCCCCCCGACATGCTATCGATCCCG
* * * *
28871357 CTACCACAACCCTCGGTCCGGTCCGATCTTAGATTGGGAATGAACTCTGTATGCCTAAGTCAACC
65 CTACCACAACCCTCGGTCCGCTCCGAGCTTAGAATGGGAATGAACTCTCTATGCCTAAGTCAACC
* * *
28871422 CACGAAATGAGTGTACGGGCACTGAGTCG
130 CACGAAACGAGCGTACGGGCACTCAGTCG
* * * *
28871451 ATCGAAGAGGCATAATGCGCAAGCCGGGGATCGACCAAGTCCCACTCGACGTGCTATCGATCCCG
1 ACCGAAGAGGCAGAATGCGCAAGCCGGGGATCGACCAAGTCCC-CCCGACATGCTATCGATCCCG
* * *
28871516 CTGCCACAACCCTCGGTCCGACT-GGGGCTTAGACAT-GGAATGAACTCTCTATGCCTAA-TCCA
65 CTACCACAACCCTCGGTCCG-CTCCGAGCTTAGA-ATGGGAATGAACTCTCTATGCCTAAGT-CA
* * * ** *
28871578 ACCCAGGAAACGGGCGTGCGGGGGCTCAGTCT
127 ACCCACGAAACGAGCGTACGGGCACTCAGTCG
* * *
28871610 ACC-AGGGAGGTAGAATGCGCAAGCCGAGGATCG
1 ACCGA-AGAGGCAGAATGCGCAAGCCGGGGATCG
28871643 GCTCGATCCC
Statistics
Matches: 155, Mismatches: 31, Indels: 11
0.79 0.16 0.06
Matches are distributed among these distances:
158 38 0.25
159 115 0.74
160 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.28, T:0.18
Consensus pattern (158 bp):
ACCGAAGAGGCAGAATGCGCAAGCCGGGGATCGACCAAGTCCCCCCGACATGCTATCGATCCCGC
TACCACAACCCTCGGTCCGCTCCGAGCTTAGAATGGGAATGAACTCTCTATGCCTAAGTCAACCC
ACGAAACGAGCGTACGGGCACTCAGTCG
Found at i:28872085 original size:26 final size:26
Alignment explanation
Indices: 28872056--28872108 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 26
28872046 CTAGTCTGAT
28872056 CTTAGAC-TGGGAATGAAC-TCTGTATG
1 CTTAGACAT-GGAATGAACTTC-GTATG
28872082 CTTAGACATGGAATGAACTTCGTATG
1 CTTAGACATGGAATGAACTTCGTATG
28872108 C
1 C
28872109 CTAAGCCAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (26 bp):
CTTAGACATGGAATGAACTTCGTATG
Found at i:28872259 original size:201 final size:198
Alignment explanation
Indices: 28871884--28872404 Score: 643
Period size: 201 Copynumber: 2.6 Consensus size: 198
28871874 TTCGACAGGG
* * * *
28871884 GCTTAGACATGGAATGAACTTCGTATGCCGAAGCCAAGCCACG-AAACGAGCGTGCAGGCACTCA
1 GCTTAGACATGGAATGAACTTCGTATGCCTAAGCCAACCCACGAAAACGAGTGTGCAGGCGCTCA
* *** * * * * *
28871948 ACCGGCCGAAGAGGTAGAATGCGCAAGCCAAGGAACGACCCGATCCCCCCCTGTGGGCTATCAAT
66 ACCGACCGAAGAGGTAGAATGCGCAAGCTGGGGATCGACCCGGTCCCCCCCTGCGTGCTACCAAT
* * * * * * *
28872013 CCTGCTGCAGGTCCTGCTGCCGCAACCCTCGATCTAGTCTGATCTTAGACTGGGAATGAACTCTG
131 CCTACTGCAGGTCCTACTACCGCAACCCTCGATCCAGTCTGATCTTAGAATGGGAAAGAACTCCG
28872078 TAT
196 TAT
*
28872081 GCTTAGACATGGAATGAACTTCGTATGCCTAAGCCAACCCACGAAATAAACGTGTGTGCAGGCGC
1 GCTTAGACATGGAATGAACTTCGTATGCCTAAGCCAACCCACG--A-AAACGAGTGTGCAGGCGC
* * *
28872146 TCAACCGACCGAAGAGGTAGAATGTGCAAGCTGGGGATCGACCTGGTCCCCCCCTACGTGCTACC
63 TCAACCGACCGAAGAGGTAGAATGCGCAAGCTGGGGATCGACCCGGTCCCCCCCTGCGTGCTACC
* * ** * * * *
28872211 GATCCTACTGCTGGTCCTACTATTGCAAGCCTTGGTCCAGTTTGATCTTAGAATGGGAAAGAACT
128 AATCCTACTGCAGGTCCTACTACCGCAACCCTCGATCCAGTCTGATCTTAGAATGGGAAAGAACT
28872276 CCGTAT
193 CCGTAT
* * *
28872282 GGTTAGACATGGAACGAACTCCGTATGCCTAAGCCAACCCAC-AAAACGAGTGTGC-GGCCGCTC
1 GCTTAGACATGGAATGAACTTCGTATGCCTAAGCCAACCCACGAAAACGAGTGTGCAGG-CGCTC
* * *
28872345 AGCCGACCGGAGAGGTAGAATGCGCAAGCTGGGGATCAACCCGGTCCCCCCCTGCGTGCT
65 AACCGACCGAAGAGGTAGAATGCGCAAGCTGGGGATCGACCCGGTCCCCCCCTGCGTGCT
28872405 GTCGATCTTG
Statistics
Matches: 277, Mismatches: 42, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
196 2 0.01
197 111 0.40
198 1 0.00
201 163 0.59
ACGTcount: A:0.26, C:0.29, G:0.26, T:0.19
Consensus pattern (198 bp):
GCTTAGACATGGAATGAACTTCGTATGCCTAAGCCAACCCACGAAAACGAGTGTGCAGGCGCTCA
ACCGACCGAAGAGGTAGAATGCGCAAGCTGGGGATCGACCCGGTCCCCCCCTGCGTGCTACCAAT
CCTACTGCAGGTCCTACTACCGCAACCCTCGATCCAGTCTGATCTTAGAATGGGAAAGAACTCCG
TAT
Found at i:28872295 original size:26 final size:26
Alignment explanation
Indices: 28872258--28872308 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
28872248 CAGTTTGATC
28872258 TTAGAATGGGAAAGAACTCCGTATGG
1 TTAGAATGGGAAAGAACTCCGTATGG
*
28872284 TTAGACAT-GGAACGAACTCCGTATG
1 TTAGA-ATGGGAAAGAACTCCGTATG
28872309 CCTAAGCCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 21 0.91
27 2 0.09
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (26 bp):
TTAGAATGGGAAAGAACTCCGTATGG
Found at i:28872787 original size:26 final size:26
Alignment explanation
Indices: 28872737--28872789 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
28872727 CCAGTCTGAT
* **
28872737 CTTAGACTGGGAATGCACTTTGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
*
28872763 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28872789 C
1 C
28872790 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:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28873837 original size:26 final size:26
Alignment explanation
Indices: 28873801--28873853 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28873791 CCGATTCGAT
28873801 CTTAGACTGGGAATGAACTCCATATG
1 CTTAGACTGGGAATGAACTCCATATG
* * *
28873827 CTTAGACTGGGGATGAATTCCGTATG
1 CTTAGACTGGGAATGAACTCCATATG
28873853 C
1 C
28873854 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:28873986 original size:84 final size:84
Alignment explanation
Indices: 28873835--28873988 Score: 220
Period size: 84 Copynumber: 1.8 Consensus size: 84
28873825 TGCTTAGACT
* * * *
28873835 GGGGATGAATTCCGTATGCCTAAGTCAACCCACGAAACGAGCATGCAGGCGCTCAACCGACCAGA
1 GGGGATGAAATCCGTATGCCTAAGTCAACCCACAAAACGAGCATGCAGACGCTCAACCGAACAGA
28873900 GAGGCAGAATGCGCAAGCC
66 GAGGCAGAATGCGCAAGCC
* * * *
28873919 GGGGATGAAATCTGTATGCCTAATTCAACCCACAAAACGAGCATGC-GTACGCTCAATCGAACGG
1 GGGGATGAAATCCGTATGCCTAAGTCAACCCACAAAACGAGCATGCAG-ACGCTCAACCGAACAG
28873983 AGAGGC
65 AGAGGC
28873989 TGGTCGAAGA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
83 1 0.02
84 60 0.98
ACGTcount: A:0.32, C:0.27, G:0.27, T:0.14
Consensus pattern (84 bp):
GGGGATGAAATCCGTATGCCTAAGTCAACCCACAAAACGAGCATGCAGACGCTCAACCGAACAGA
GAGGCAGAATGCGCAAGCC
Found at i:28874317 original size:183 final size:183
Alignment explanation
Indices: 28874094--28874454 Score: 469
Period size: 183 Copynumber: 2.0 Consensus size: 183
28874084 TCCGGCTAGG
* *
28874094 GCTTAGACATTGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCCTGC-GAGCACTCA
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCCTGCTG-GCACTCA
* * * * *
28874158 ACCGGTC-AGAGAGGTTGAATGCGCAAGCCCTGGA-TCGGCCCGGTCCCCCTGCACGCTGCCGAT
65 ACCGATCGA-AGAGGTAGAATGCGCAAGCCCGGGACT-GACCCGATCCCCCTGCACGCTGCCGAT
* *
28874221 CCTGCTGCCACAACCCTC-GATCTGATCCGATCTTAGACTAGGAATGAACTCCATAT
128 CCTACTGCCACAACCCTCAG-TCCGATCCGATCTTAGACTAGGAATGAACTCCATAT
* * * * * *
28874277 GCTTAGAGATGGAATGAACTCCGTATGGCTAAGCCAACCCACGAAACGAGCGTGCTGGCGCTTAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCCTGCTGGCACTCAA
* *** *
28874342 CCGATCGAAGAGGTAGAATGCGCAAGCCGGGGACTGACCCGATCCCCCTGTGTGCTGTCGATCCT
66 CCGATCGAAGAGGTAGAATGCGCAAGCCCGGGACTGACCCGATCCCCCTGCACGCTGCCGATCCT
*
28874407 ACTGCCGCAACCCTCAGTCCGATCCGATCTTAGACTAGGAATGAACTC
131 ACTGCCACAACCCTCAGTCCGATCCGATCTTAGACTAGGAATGAACTC
28874455 TGTATGCCTA
Statistics
Matches: 153, Mismatches: 21, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
183 149 0.97
184 4 0.03
ACGTcount: A:0.25, C:0.31, G:0.25, T:0.19
Consensus pattern (183 bp):
GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCCTGCTGGCACTCAA
CCGATCGAAGAGGTAGAATGCGCAAGCCCGGGACTGACCCGATCCCCCTGCACGCTGCCGATCCT
ACTGCCACAACCCTCAGTCCGATCCGATCTTAGACTAGGAATGAACTCCATAT
Found at i:28874781 original size:26 final size:26
Alignment explanation
Indices: 28874752--28874801 Score: 84
Period size: 26 Copynumber: 1.9 Consensus size: 26
28874742 CCGATCCGAT
28874752 CTTAGACTG-GGAATGAACTCCGTATG
1 CTTAGACTGAGG-ATGAACTCCGTATG
28874778 CTTAGACTGAGGATGAACTCCGTA
1 CTTAGACTGAGGATGAACTCCGTA
28874802 GGCCTAAGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 21 0.91
27 2 0.09
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (26 bp):
CTTAGACTGAGGATGAACTCCGTATG
Found at i:28875452 original size:159 final size:159
Alignment explanation
Indices: 28875158--28875461 Score: 362
Period size: 159 Copynumber: 1.9 Consensus size: 159
28875148 ACTCCATATG
* *
28875158 CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGTGGGGGCTCAGC
1 CTTAGACATGGAATGAACTCCGTAAGCCTAAGCCAACCCACGAAACGAGCGTGCGGGGGCTCAGC
* * * * * *
28875223 CAGTAGGAGAGGCAGAATATGCAAGCCAGGGACCGACCCGGTCCCCTTCTGCGTGCTATCGATCC
66 AAGCAGAAGAGGCAGAATACGCAAGCCAGGGACCGACCCGATCCCCTTCTGCGCGCTATCGATCC
* *
28875288 TGCTACCGCAACCCTCGATCCGATCTGAT
131 CGCTACCACAACCCTCGATCCGATCTGAT
** * *
28875317 CTTAGAC-TAGGAATGAACTCCGTAAGCCTAAGTTAACCCACGAAACGAGCGTGCGGGTGCTGAG
1 CTTAGACAT-GGAATGAACTCCGTAAGCCTAAGCCAACCCACGAAACGAGCGTGCGGGGGCTCAG
* * * * * * * *
28875381 CAAGCCGAAGAGGCATAATGCGCAAGCC-GAGGATCGACCTGATCTTCC-TCTGCGCGCTGTCGG
65 CAAGCAGAAGAGGCAGAATACGCAAGCCAG-GGACCGACCCGATC-CCCTTCTGCGCGCTATCGA
28875444 TCCCGCTACCACAACCCT
128 TCCCGCTACCACAACCCT
28875462 TGGTTCAGTT
Statistics
Matches: 120, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
158 2 0.02
159 116 0.97
160 2 0.02
ACGTcount: A:0.25, C:0.31, G:0.26, T:0.18
Consensus pattern (159 bp):
CTTAGACATGGAATGAACTCCGTAAGCCTAAGCCAACCCACGAAACGAGCGTGCGGGGGCTCAGC
AAGCAGAAGAGGCAGAATACGCAAGCCAGGGACCGACCCGATCCCCTTCTGCGCGCTATCGATCC
CGCTACCACAACCCTCGATCCGATCTGAT
Found at i:28875663 original size:867 final size:855
Alignment explanation
Indices: 28873980--28875628 Score: 1772
Period size: 867 Copynumber: 1.9 Consensus size: 855
28873970 CTCAATCGAA
* * * * **
28873980 CGGAGAGGCTGGTCGAAGAGACATAATGCACAAGCCGGGGATTAGCTTGATCCCCCTCTGCATGC
1 CGGAGAGGCTAGCCGAAGAGACATAATGCACAAGCCGGAGATCAGCTCAATCCCCCTCTGCATGC
* ** * * * * * *
28874045 TGTCGATCCTGCTGTCAGTCCTACTGCTATAACTCTCGGTCCGGCTAGGGCTTAGACATTGAATG
66 TATCGATCCCACTGTCAGTCCTACTACCACAACCCTCGGTCCGACTAGGGCTTAGACATGGAATG
* * ** ***
28874110 AACTCCGTATGCCTAAGCCAACCCATGAAACGAGCCTGCGAGCACTCAACCGGTCAGAGAGGTTG
131 AACTCCGTATGCCTAAGCCAACCCACGAAACGAGCATGCGAGCACTCAACCACTCAGAGAGGCAA
* * *
28874175 AATGCGCAAGCCCTGGATCGGCCCGGTCCCCCTGCACGCTGCCGATCCTGCTGCCACAACCCTCG
196 AATGCACAAGCCCGGGATCGGCCCGGTCCCCCTGCACGCTGCCGATCCTGCTACCACAACCCTCG
* * *
28874240 ATCTGATCCGATCTTAGACTAGGAATGAACTCCATATGCTTAGAGATGGAATGAACTCCGTATGG
261 ATCCGATCCGATCTTAGACTAGGAATGAACTCCATATGCTTAGACATGGAATGAACTCCGTATGC
* * * *
28874305 CTAAGCCAACCCACGAAACGAGCGTGCTGGCGCTTAGCCGATCGAAGAGGTAGAATGCGCAAGCC
326 CTAAGCCAACCCACGAAACGAGCGTGCTGGCGCTCAGCCGATAGAAGAGGCAGAATACGCAAGCC
* * * * *
28874370 GGGGACTGACCCGATCCCCCTGTGTGCTGTCGATCCTACTGCCGCAACCCTCAGTCCGATCCGAT
391 AGGGACCGACCCGATCCCCCTGCGTGCTATCGATCCTACTACCGCAACCCTCAGTCCGATCCGAT
* * * * **
28874435 CTTAGACTAGGAATGAACTCTGTATGCCTAAGTCAACCCATGAAATGAGAGTTTGGGCACTGAGC
456 CTTAGACTAGGAATGAACTCCGTAAGCCTAAGTCAACCCACGAAACGAGAGTGCGGGCACTGAGC
* * * * * **
28874500 CAACCGGAGAGGCATAATGTGCAAGTCGGGGATAAGCCCGGTCCCCATCTGCTTGCTATCGGTCC
521 CAACCGAAGAGGCATAATGCGCAAGCCGAGGATAAGCCCGATCCCCATCTGCGCGCTATCGGTCC
* * *
28874565 TGCTGCGACAACCCTCCATCCAGCTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAA
586 CGCTACCACAACCCTCCATCCAGCTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAA
* * * *
28874630 CCCACGAAACGGGCATGCGGGTGCTCAGCAGGCCGGAGAGGTAGAATGCGTAAGTCGGGGATCAG
651 CCCACGAAACGGGCATACGGGCGCTCAGCAGGCCGGAGAGGCAGAATGCGTAAGTCGAGGATCAG
* * * * * *
28874695 CCTGGTCCACCTTGCATGCTGTCGATCTTGCTGCCGCAGCCCTCGATCCGATCCGATCTTAGACT
716 CCTAGTCCACCTTACATGCTGTCGATCCTACAGCCGCAACCCTC-ATCCG---CGATCTT--A-T
28874760 GGGAATGAACTCCGTATGCTTAGACTGAGGATGAACTCCGTAGGCCTAAGTCAACCCATGACACG
774 -GG-AT--A-TCCGTATGCTTAGACTGAGGATGAACTCCGTAGGCCTAAGTCAACCCATGACACG
28874825 AACGTACGGGTGCTCATCCGGT
834 AACGTACGGGTGCTCATCCGGT
* *
28874847 CGGAGAGGCTAGCCGAAGAGACATAATGCCCAAGCCTGAGATCAGCTCAATCCCCCTCTGCATGC
1 CGGAGAGGCTAGCCGAAGAGACATAATGCACAAGCCGGAGATCAGCTCAATCCCCCTCTGCATGC
* * *
28874912 TATCGATCCCACTGTCGGTCCTACTACCACAACCCTCGGTCCGACTGGGGCTTTGACATGGAATG
66 TATCGATCCCACTGTCAGTCCTACTACCACAACCCTCGGTCCGACTAGGGCTTAGACATGGAATG
* * * ** *
28874977 AATTCCGTATGCCTAAGCTAAGCCACGAAACGAGCATGCGAGTGCTCAACCAACTGA-AGAGGCA
131 AACTCCGTATGCCTAAGCCAACCCACGAAACGAGCATGCGAGCACTCAACC-ACTCAGAGAGGCA
* * * *
28875041 AAATGCACAATCCGGGGAAT-GGCCCGGTCCCCCATGCCTGTTGTCGATCCTGCTACTGGTCCTG
195 AAATGCACAAGCCCGGG-ATCGGCCCGGTCCCCC-TG-C-----ACG---CTGC--C-GATCCTG
* * * *
28875105 CTACCACAACCGTCGATCCGATTCGATCTTAGATTGGGAATGAACTCCATATGCTTAGACATGGA
246 CTACCACAACCCTCGATCCGATCCGATCTTAGACTAGGAATGAACTCCATATGCTTAGACATGGA
* *
28875170 ATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTG-TGGGGGCTCAGCC-AGTAGGAGA
311 ATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCT-GGCGCTCAGCCGA-TAGAAGA
* * *
28875233 GGCAGAATATGCAAGCCAGGGACCGACCCGGTCCCCTTCTGCGTGCTATCGATCCTGCTACCGCA
374 GGCAGAATACGCAAGCCAGGGACCGACCCGATCCCC--CTGCGTGCTATCGATCCTACTACCGCA
* *
28875298 ACCCTC-GATCCGATCTGATCTTAGACTAGGAATGAACTCCGTAAGCCTAAGTTAACCCACGAAA
437 ACCCTCAG-TCCGATCCGATCTTAGACTAGGAATGAACTCCGTAAGCCTAAGTCAACCCACGAAA
* ** * *
28875362 CGAGCGTGCGGGTGCTGAG-CAAGCCGAAGAGGCATAATGCGCAAGCCGAGGAT-CGACCTGATC
501 CGAGAGTGCGGGCACTGAGCCAA-CCGAAGAGGCATAATGCGCAAGCCGAGGATAAG-CCCGATC
* * *** * *
28875425 TTCC-TCTGCGCGCTGTCGGTCCCGCTACCACAACCCTTGGTTCAGTTGGGGCTTAGACATGGAA
564 -CCCATCTGCGCGCTATCGGTCCCGCTACCACAACCCTCCATCCAGCTGGGGCTTAGACATGG-A
* * * *
28875489 ATGGAAACGTTCCCTAGTGCCTTAAGCCAACCCACG-AACGGGGCGTACTGGGCGTTCAGCCGTC
627 AT-G-AAC--TCCCTA-TGCC-TAAGCCAACCCACGAAAC-GGGCATAC-GGGCGCTCAGCAGGC
** * * * * *
28875553 TTGAGAGGCAGGAATGCG-CAG-CTGAGGATCGGCCTAGTCCCCCTCTACGTGCTTTCGATCCTA
684 CGGAGAGGCA-GAATGCGTAAGTC-GAGGATCAGCCTAGTCCACCT-TACATGCTGTCGATCCTA
*
28875616 CAAGCTGCAACCC
746 C-AGCCGCAACCC
28875629 CTCGGTCTTT
Statistics
Matches: 633, Mismatches: 113, Indels: 47
0.80 0.14 0.06
Matches are distributed among these distances:
867 184 0.29
868 6 0.01
869 1 0.00
874 2 0.00
877 4 0.01
879 3 0.00
880 148 0.23
881 5 0.01
882 171 0.27
883 5 0.01
884 1 0.00
885 3 0.00
887 6 0.01
888 7 0.01
889 21 0.03
890 37 0.06
891 21 0.03
892 8 0.01
ACGTcount: A:0.24, C:0.30, G:0.26, T:0.20
Consensus pattern (855 bp):
CGGAGAGGCTAGCCGAAGAGACATAATGCACAAGCCGGAGATCAGCTCAATCCCCCTCTGCATGC
TATCGATCCCACTGTCAGTCCTACTACCACAACCCTCGGTCCGACTAGGGCTTAGACATGGAATG
AACTCCGTATGCCTAAGCCAACCCACGAAACGAGCATGCGAGCACTCAACCACTCAGAGAGGCAA
AATGCACAAGCCCGGGATCGGCCCGGTCCCCCTGCACGCTGCCGATCCTGCTACCACAACCCTCG
ATCCGATCCGATCTTAGACTAGGAATGAACTCCATATGCTTAGACATGGAATGAACTCCGTATGC
CTAAGCCAACCCACGAAACGAGCGTGCTGGCGCTCAGCCGATAGAAGAGGCAGAATACGCAAGCC
AGGGACCGACCCGATCCCCCTGCGTGCTATCGATCCTACTACCGCAACCCTCAGTCCGATCCGAT
CTTAGACTAGGAATGAACTCCGTAAGCCTAAGTCAACCCACGAAACGAGAGTGCGGGCACTGAGC
CAACCGAAGAGGCATAATGCGCAAGCCGAGGATAAGCCCGATCCCCATCTGCGCGCTATCGGTCC
CGCTACCACAACCCTCCATCCAGCTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAA
CCCACGAAACGGGCATACGGGCGCTCAGCAGGCCGGAGAGGCAGAATGCGTAAGTCGAGGATCAG
CCTAGTCCACCTTACATGCTGTCGATCCTACAGCCGCAACCCTCATCCGCGATCTTATGGATATC
CGTATGCTTAGACTGAGGATGAACTCCGTAGGCCTAAGTCAACCCATGACACGAACGTACGGGTG
CTCATCCGGT
Found at i:28876885 original size:158 final size:157
Alignment explanation
Indices: 28876384--28876878 Score: 472
Period size: 158 Copynumber: 3.1 Consensus size: 157
28876374 ACTCCGTATG
* * * * *
28876384 CTTAGACATGGAATGAACTCCATATGCCTAAGCCAACCCACGAAACGAGTGTGCGGGCACTCAGC
1 CTTAGACATGGAATGAACTCCATATGCCTAAGCCAACCAATGAAATGAGCGTGCGGGCGCTCAGC
** * *
28876449 CGGTCGGAGAGGCAGAATGCGCAAGCCGAGGATCGGCCCTGTCCCCCCTACATGCTGTCGATCTT
66 CGACCGGAGAGGCAGAATGCGCAAGTCGAGGATCGGCCCTATCCCCCCTACATGCTGTCGATCTT
* *
28876514 GCTACCATAACCCTCGGTCCGGTCTGAT
131 GCTACCATAACCCTC-GTTCGGTCCGAT
* * * * * * *
28876542 CTTAGAC-TGGCAATGAACTTCGTATGCATAAGTCAACCTATGAAATGAGCGTGCGGGTGCTGAG
1 CTTAGACATGG-AATGAACTCCATATGCCTAAGCCAACCAATGAAATGAGCGTGCGGGCGCTCAG
* ** * * * * * * * *
28876606 TCGACCTAAGAGGCATAATGCACAAGTTGAGGATCGGCCCGATCTCCCTCTTCGTGCTGCCGATC
65 CCGACCGGAGAGGCAGAATGCGCAAGTCGAGGATCGGCCCTATC-CCCCCTACATGCTGTCGATC
** * ** * * * * **
28876671 CCGCTGCCGCAACCCTCGGTCCGACTGGGG
129 TTGCTACCATAACCCTCGTTCGGTC-CGAT
* * * * **
28876701 CTTAGACTTGGAATGAACTCCCTATGCCTAAGCCAACAAATGAAATGGGCGTGTTGGCGCTCAGC
1 CTTAGACATGGAATGAACTCCATATGCCTAAGCCAACCAATGAAATGAGCGTGCGGGCGCTCAGC
* * * *
28876766 CGACCGGAGAGCCAGAATGTGCAAGTCGGGGATCGGCCCTATCCCCCCTGCATGCTGTCGATCTT
66 CGACCGGAGAGGCAGAATGCGCAAGTCGAGGATCGGCCCTATCCCCCCTACATGCTGTCGATCTT
28876831 GCTACCATAACCCTCAGTTCGGTCCGAT
131 GCTACCATAACCCTC-GTTCGGTCCGAT
28876859 CTTAGAC-TGAGAATGAACTC
1 CTTAGACATG-GAATGAACTC
28876879 TTTATGCTTA
Statistics
Matches: 257, Mismatches: 74, Indels: 12
0.75 0.22 0.03
Matches are distributed among these distances:
157 5 0.02
158 132 0.51
159 117 0.46
160 3 0.01
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.21
Consensus pattern (157 bp):
CTTAGACATGGAATGAACTCCATATGCCTAAGCCAACCAATGAAATGAGCGTGCGGGCGCTCAGC
CGACCGGAGAGGCAGAATGCGCAAGTCGAGGATCGGCCCTATCCCCCCTACATGCTGTCGATCTT
GCTACCATAACCCTCGTTCGGTCCGAT
Found at i:28877421 original size:157 final size:157
Alignment explanation
Indices: 28877045--28877452 Score: 446
Period size: 157 Copynumber: 2.6 Consensus size: 157
28877035 GATCTTGCTA
* * * * *
28877045 CCACAACCTTCAGTCTGGCTAGGGCTTAGACATGGAATGAACTCTGTATGCCTAAGCCAACCAAT
1 CCACAACCCTCGGTCCGGCT-GGGTTTAGACATGGAATGAACTCTGTATGCCTAAGCCAACCCAT
* * * *
28877110 GAAACGAGCGTGCGGGTGCTCAACCGGCCGAAGAGGTAGAATACGTAAACCGAGGATCAACCCGG
65 GAAACGAGCGTGCGGGTGCTCAACCGGCCGAAAAGGCAGAATACGCAAACCGAAGATCAACCCGG
*
28877175 TCCCCCCTGCGTGCTATCGATCCTGCTG
130 TCCCCCCTGCGTGCTATCGATCCCGCTG
* * * * *
28877203 CCACAACCCTCGATCCGATCT-GATCTTAGAC-TAGGAAAGAACTCTGTATGCCTAAGTCAACCC
1 CCACAACCCTCGGTCCG-GCTGGGT-TTAGACAT-GGAATGAACTCTGTATGCCTAAGCCAACCC
* * * * * * *
28877266 ATGAAACGAGCGTGCGGGTGCTGAACCGGCC-AAAAGGCATAATGCGCAAATC-AAGTTCAGCCT
63 ATGAAACGAGCGTGCGGGTGCTCAACCGGCCGAAAAGGCAGAATACGCAAACCGAAGATCAACCC
* * * *
28877329 GGTCCCCCTTTGTGTGCTATCGGTCCCGTTG
128 GGTCCCCC-CTGCGTGCTATCGATCCCGCTG
**
28877360 CCACAACCCTCGGTCCGGCTGGGGTTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCAT
1 CCACAACCCTCGGTCCGGCT-GGGTTTAGACATGGAATGAACTCTGTATGCCTAAGCCAACCCAT
* * * *
28877425 AAAACGGGCGTGCGGGCGCTCAGCCGGC
65 GAAACGAGCGTGCGGGTGCTCAACCGGC
28877453 TGGAGAGGTA
Statistics
Matches: 205, Mismatches: 38, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
156 17 0.08
157 107 0.52
158 79 0.39
159 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.25, T:0.20
Consensus pattern (157 bp):
CCACAACCCTCGGTCCGGCTGGGTTTAGACATGGAATGAACTCTGTATGCCTAAGCCAACCCATG
AAACGAGCGTGCGGGTGCTCAACCGGCCGAAAAGGCAGAATACGCAAACCGAAGATCAACCCGGT
CCCCCCTGCGTGCTATCGATCCCGCTG
Found at i:28877560 original size:158 final size:155
Alignment explanation
Indices: 28877069--28877568 Score: 456
Period size: 158 Copynumber: 3.2 Consensus size: 155
28877059 CTGGCTAGGG
* *
28877069 CTTAGACATGGAATGAACTCTGTATGCCTAAGCCAACCAATGAAACGAGCGTGCGGGTGCTCAAC
1 CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGTGCTCAAC
* * * * * *
28877134 CGGCCGAAGAGGTAGAATACGTAAACCGAGGATCAACCCGGTCCCCCCTGCGTGCT-ATCGATCC
66 CGG-CGAAGAGGTAGAATGC-TCAACTGAGGATC-AGCCGGTCCCCCCTGCGTGCTGCT-AATCC
*
28877198 TGCTGCCACAACCCTCGATCCGATCTGAT
127 TGCTGCCACAACCCTCGGTCCGATCTGAT
* * * *
28877227 CTTAGAC-TAGGAAAGAACTCTGTATGCCTAAGTCAACCCATGAAACGAGCGTGCGGGTGCTGAA
1 CTTAGACAT-GGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGTGCTCAA
* * * * * * * * * ** *
28877291 CCGGCCAAAAGGCATAATGCGCAAATCAAGTTCAGCCTGGT-CCCCCTTTGTG-TGCTATCGGTC
65 CCGGCGAAGAGGTAGAATGCTCAACTGAGGATCAGCC-GGTCCCCCCTGCGTGCTGCTA---ATC
* * * *
28877354 CCGTTGCCACAACCCTCGGTCCG-GCTGGGGT
126 CTGCTGCCACAACCCTCGGTCCGATCT--GAT
* * * * *
28877385 -TTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCATAAAACGGGCGTGCGGGCGCTCAGC
1 CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGTGCTCAAC
* *
28877449 CGGCTGGAGAGGTAGAATGCTCTAGCTGAGGATCAGCTCGGTCCCCCCTGCGTGCTGCTAATCCT
66 CGGC-GAAGAGGTAGAATGCTC-AACTGAGGATCAGC-CGGTCCCCCCTGCGTGCTGCTAATCCT
* * *
28877514 GCTGTCGCAACCCTTGGTCCGATCTGAT
128 GCTGCCACAACCCTCGGTCCGATCTGAT
*
28877542 CTTAGAC-TGGGAATGAACTCCATATGC
1 CTTAGACAT-GGAATGAACTCCGTATGC
28877569 TTGACTCAGG
Statistics
Matches: 267, Mismatches: 58, Indels: 34
0.74 0.16 0.09
Matches are distributed among these distances:
154 1 0.00
155 13 0.05
156 11 0.04
157 94 0.35
158 119 0.45
159 14 0.05
160 10 0.04
161 5 0.02
ACGTcount: A:0.24, C:0.29, G:0.26, T:0.21
Consensus pattern (155 bp):
CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGTGCTCAAC
CGGCGAAGAGGTAGAATGCTCAACTGAGGATCAGCCGGTCCCCCCTGCGTGCTGCTAATCCTGCT
GCCACAACCCTCGGTCCGATCTGAT
Found at i:28878303 original size:21 final size:21
Alignment explanation
Indices: 28878279--28878332 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
28878269 CTGCGTGCTG
28878279 TCGGTCCCACTGCTACAACCC
1 TCGGTCCCACTGCTACAACCC
28878300 TCGGTCCCACTGCTACAACCC
1 TCGGTCCCACTGCTACAACCC
*
28878321 TCGGTCCGACTG
1 TCGGTCCCACTG
28878333 AGGCTTAGAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.17, C:0.44, G:0.19, T:0.20
Consensus pattern (21 bp):
TCGGTCCCACTGCTACAACCC
Found at i:28878882 original size:26 final size:26
Alignment explanation
Indices: 28878846--28878898 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
28878836 CAGGTTCGAT
28878846 CTTAGACTGGGAATGAACTCCATATG
1 CTTAGACTGGGAATGAACTCCATATG
* *
28878872 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCATATG
28878898 C
1 C
28878899 CTAAGTGAAC
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:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCATATG
Found at i:28878885 original size:353 final size:352
Alignment explanation
Indices: 28878156--28879319 Score: 1206
Period size: 353 Copynumber: 3.3 Consensus size: 352
28878146 CCGGTTCGAT
* * *** * * * * * *
28878156 CTTAGACTGGGAATGAACTCTGTATGTAGAAGTCAACCCACGAAACGAGTGTGCGGGCGCTGAGC
1 CTTAGACTGGGGATGAACTCCGTATGCCTAAGTCAACCCATGAAATGAGCGTGCAGGCGCTCAAC
* ** * * * * * *
28878221 CGACCAAAGAGGCATAATGTGTAAGCCAGG-GATCAGCCCGGTCCCTCTCTGCGTGCTGTCGGTC
66 CAACCGGAGAGGCACAATGCGTAAGCC-GGAGATCAGCCCGATCCCCCTCTGCATGCTGTCGAT-
* ** * * *
28878285 CCACTGCTACAACCCTCGGTCCCACTGCTACAACCCTCGGTCCGACTGAGGCTTAGACATGGAAT
129 CC-C-GCT---A--C-CAGTCCTGCTGCCACAACCCTCGGTCCGGCTGGGGCTTAGACATGGAAT
* * * *
28878350 GAACTCTCTATGCCTAAGCCAACCCATGAAACGGGCGTGCGGGCGCTCAACCGGCCGAAGAGGCA
186 GAACTCCCTATGCCTAAGCCAACCCATGAAACGGGTGTGC-GGCGCTCAGCCGGCCGGAGAGGCA
** * * * * *
28878415 GAATGTACAAGCTGGGA-TCGACTCGATCCCCCCTGCGTGCTGCCGATCCTACTGTCGCAACCCT
250 GAATGCGCAAGCTGGGATTGGCCTAG-TCCCCCCTGCGTGCTGCCGATCCT-GTGCCGCAACCCT
* * *
28878479 CAATCTGGTTCGATCTTAGGCTGGGAATGAACTCCGTATG
313 CGATCAGGTTCGATCTTAGACTGGGAATGAACTCCGTATG
* * *
28878519 CTTACACTGGGGATGAACTCCGTATGCCTATGTCAACCCATGAAATGAGCGTACAGGCGCTCAAC
1 CTTAGACTGGGGATGAACTCCGTATGCCTAAGTCAACCCATGAAATGAGCGTGCAGGCGCTCAAC
** * * *
28878584 CAACCGGAGAGGCACAATGCGTAAGTTGGAGATCAGCCCGATCCTCCTCTGCATGCTGTTGATCT
66 CAACCGGAGAGGCACAATGCGTAAGCCGGAGATCAGCCCGATCCCCCTCTGCATGCTGTCGATCC
* ** * *
28878649 CGCTACCGGTTGTGCTGCCACAACCCTCAGTCCGGTTGGGGCTTAGACATGGAATGAACTCCCTA
131 CGCTACCAGTCCTGCTGCCACAACCCTCGGTCCGGCTGGGGCTTAGACATGGAATGAACTCCCTA
* * *
28878714 TGCCTAAGCCAACCCACGAAACGGGTGTGCGGCACTCAGTCGGCCGGAGAGGCAGAATGCGCAAG
196 TGCCTAAGCCAACCCATGAAACGGGTGTGCGGCGCTCAGCCGGCCGGAGAGGCAGAATGCGCAAG
* * *
28878779 CTGCGGATTGGCCTAGTCCCCCCTACGTGCTACCGATCCTGTGCCGCAACCCTCGGTCAGGTTCG
261 CTG-GGATTGGCCTAGTCCCCCCTGCGTGCTGCCGATCCTGTGCCGCAACCCTCGATCAGGTTCG
*
28878844 ATCTTAGACTGGGAATGAACTCCATATG
325 ATCTTAGACTGGGAATGAACTCCGTATG
* * *
28878872 CTTAGACTGGGGATGAACTCCGTATGCCTAAGTGAACCCATGATATGAGCGTGCAGGTGCT-AAG
1 CTTAGACTGGGGATGAACTCCGTATGCCTAAGTCAACCCATGAAATGAGCGTGCAGGCGCTCAA-
* * * * *
28878936 CCGACCGGAGAGGCATAATGCGTAAGCCGGGGATCAGCTCGATCCCCCTCTGCGTGCTGTCGATC
65 CCAACCGGAGAGGCACAATGCGTAAGCCGGAGATCAGCCCGATCCCCCTCTGCATGCTGTCGATC
* * * *
28879001 CCGCTGCCAGTCCTGCTACCATAACCCTCGGTCCGGCTGGGGCTTAGACATGGAATGAACTCCAT
130 CCGCTACCAGTCCTGCTGCCACAACCCTCGGTCCGGCTGGGGCTTAGACATGGAATGAACTCCCT
* * * * * *
28879066 ATGCCTAAGCCAACCCATGAAACGAACGTGT-AGGTGCTCAGCCAGTCGGAGAGGCAAAATGCGC
195 ATGCCTAAGCCAACCCATGAAACG--GGTGTGCGGCGCTCAGCCGGCCGGAGAGGCAGAATGCGC
* * * * * * *
28879130 AAGTCAGGGATCGGCCCAGTCCCCCCATGTGTGCTGTCGATCCTGCTGCCGTAACCCTCGATTAG
258 AAG-CTGGGATTGGCCTAGTCCCCCC-TGCGTGCTGCCGATCCTG-TGCCGCAACCCTCGATCAG
* *
28879195 G-TCTGATCTTAGACTGGGAATGAACTCTGCATG
320 GTTC-GATCTTAGACTGGGAATGAACTCCGTATG
* * * * * *
28879228 CTTAGACAT-GGAATGAACTCCGTATGCATAAGCCAACCCATGAAACGAGCGTGCAGACGCTCAG
1 CTTAGAC-TGGGGATGAACTCCGTATGCCTAAGTCAACCCATGAAATGAGCGTGCAGGCGCTCAA
* * * * *
28879292 CTAGCCGGAAAGGCAGAATGTGTAAGCC
65 CCAACCGGAGAGGCACAATGCGTAAGCC
28879320 AGGGATTGGC
Statistics
Matches: 669, Mismatches: 120, Indels: 31
0.82 0.15 0.04
Matches are distributed among these distances:
352 2 0.00
353 267 0.40
354 148 0.22
355 28 0.04
356 116 0.17
357 3 0.00
360 3 0.00
361 1 0.00
362 3 0.00
363 98 0.15
ACGTcount: A:0.24, C:0.29, G:0.27, T:0.20
Consensus pattern (352 bp):
CTTAGACTGGGGATGAACTCCGTATGCCTAAGTCAACCCATGAAATGAGCGTGCAGGCGCTCAAC
CAACCGGAGAGGCACAATGCGTAAGCCGGAGATCAGCCCGATCCCCCTCTGCATGCTGTCGATCC
CGCTACCAGTCCTGCTGCCACAACCCTCGGTCCGGCTGGGGCTTAGACATGGAATGAACTCCCTA
TGCCTAAGCCAACCCATGAAACGGGTGTGCGGCGCTCAGCCGGCCGGAGAGGCAGAATGCGCAAG
CTGGGATTGGCCTAGTCCCCCCTGCGTGCTGCCGATCCTGTGCCGCAACCCTCGATCAGGTTCGA
TCTTAGACTGGGAATGAACTCCGTATG
Found at i:28879166 original size:171 final size:171
Alignment explanation
Indices: 28878871--28879179 Score: 392
Period size: 171 Copynumber: 1.8 Consensus size: 171
28878861 AACTCCATAT
* * ** * * *
28878871 GCTTAGACTGGGGATGAACTCCGTATGCCTAAGTGAACCCATGATATGAGCGTGCAGGTGCTAAG
1 GCTTAGACTGGGAATGAACTCCATATGCCTAAGCCAACCCATGAAACGAACGTGCAGGTGCTAAG
* * * *
28878936 CCGACCGGAGAGGCATAATGCGTAAGCCGGGGATCAGCTCGATCCCCCTCTGCGTGCTGTCGATC
66 CCGACCGGAGAGGCAAAATGCGCAAGCCAGGGATCAGCCCGATCCCCCTCTGCGTGCTGTCGATC
28879001 CCGCTGCCAGTCCTGCTACCATAACCCTCGGTCCGGCTGGG
131 CCGCTGCCAGTCCTGCTACCATAACCCTCGGTCCGGCTGGG
* *
28879042 GCTTAGACAT-GGAATGAACTCCATATGCCTAAGCCAACCCATGAAACGAACGTGTAGGTGCTCA
1 GCTTAGAC-TGGGAATGAACTCCATATGCCTAAGCCAACCCATGAAACGAACGTGCAGGTGCTAA
* * * *
28879106 GCC-AGTCGGAGAGGCAAAATGCGCAAGTCAGGGATCGGCCC-AGTCCCCC-CATGTGTGCTGTC
65 GCCGA-CCGGAGAGGCAAAATGCGCAAGCCAGGGATCAGCCCGA-TCCCCCTC-TGCGTGCTGTC
*
28879168 GATCCTGCTGCC
127 GATCCCGCTGCC
28879180 GTAACCCTCG
Statistics
Matches: 116, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
170 3 0.03
171 112 0.97
172 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.28, T:0.20
Consensus pattern (171 bp):
GCTTAGACTGGGAATGAACTCCATATGCCTAAGCCAACCCATGAAACGAACGTGCAGGTGCTAAG
CCGACCGGAGAGGCAAAATGCGCAAGCCAGGGATCAGCCCGATCCCCCTCTGCGTGCTGTCGATC
CCGCTGCCAGTCCTGCTACCATAACCCTCGGTCCGGCTGGG
Found at i:28879254 original size:26 final size:26
Alignment explanation
Indices: 28879202--28879254 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
28879192 TAGGTCTGAT
*
28879202 CTTAGACTGGGAATGAACTCTGCATG
1 CTTAGACTGGGAATGAACTCCGCATG
*
28879228 CTTAGACAT-GGAATGAACTCCGTATG
1 CTTAGAC-TGGGAATGAACTCCGCATG
28879254 C
1 C
28879255 ATAAGCCAAC
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:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGCATG
Found at i:28879359 original size:185 final size:185
Alignment explanation
Indices: 28879042--28879405 Score: 503
Period size: 185 Copynumber: 2.0 Consensus size: 185
28879032 TCCGGCTGGG
* * **
28879042 GCTTAGACATGGAATGAACTCCATATGCCTAAGCCAACCCATGAAACGAACGTGTAGGTGCTCAG
1 GCTTAGACATGGAATGAACTCCATATGCATAAGCCAACCCATGAAACGAACGTGCAGACGCTCAG
* * * *
28879107 CCAGTCGGAGAGGCAAAATGCGCAAGTCAGGGATCGGCCCAGTCCCCCCATGTGTGCTGTCGATC
66 CCAGCCGGAAAGGCAAAATGCGCAAGCCAGGGATCGGCCCAGTCCCCCCATGCGTGCTGTCGATC
* * *
28879172 CTGCTGCCGTAACCCTCGATTAGGTCTGATCTTAGACTGGGAATGAACTCTGCAT
131 CTGCTGCCGTAACCCTCGATCAGATCCGATCTTAGACTGGGAATGAACTCTGCAT
* *
28879227 GCTTAGACATGGAATGAACTCCGTATGCATAAGCCAACCCATGAAACGAGCGTGCAGACGCTCAG
1 GCTTAGACATGGAATGAACTCCATATGCATAAGCCAACCCATGAAACGAACGTGCAGACGCTCAG
* * * * * * * * *
28879292 CTAGCCGGAAAGGCAGAATGTGTAAGCCAGGGATTGGCTCGGTCCCCCCCTGCGTGCTGTTGATC
66 CCAGCCGGAAAGGCAAAATGCGCAAGCCAGGGATCGGCCCAGTCCCCCCATGCGTGCTGTCGATC
* * *
28879357 CTGCTGTCGTAACCCTCGGTCCGATCCGATCTTAGACTGGGAATGAACT
131 CTGCTGCCGTAACCCTCGATCAGATCCGATCTTAGACTGGGAATGAACT
28879406 TCGTATGGCT
Statistics
Matches: 154, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
185 154 1.00
ACGTcount: A:0.25, C:0.27, G:0.27, T:0.21
Consensus pattern (185 bp):
GCTTAGACATGGAATGAACTCCATATGCATAAGCCAACCCATGAAACGAACGTGCAGACGCTCAG
CCAGCCGGAAAGGCAAAATGCGCAAGCCAGGGATCGGCCCAGTCCCCCCATGCGTGCTGTCGATC
CTGCTGCCGTAACCCTCGATCAGATCCGATCTTAGACTGGGAATGAACTCTGCAT
Found at i:28879643 original size:158 final size:158
Alignment explanation
Indices: 28879228--28879644 Score: 484
Period size: 158 Copynumber: 2.6 Consensus size: 158
28879218 ACTCTGCATG
* * * * *
28879228 CTTAGACATGGAATGAACTCCGTATGCATAAGCCAACCCATGAAACGAGCGTGCAGACGCTCAG-
1 CTTAGAC-TGGAATGAACTCTGTATGCCTAAGTCAACCCACGAAACGAGCGTGCAGGCGCTCAGC
* *
28879292 CTAGCCGGAA-AGGCAGAATGTGTAAGCC-AGGGATTGGCTCGGTCCCCCCCTGCGTGCTGTTGA
65 CTA-CC-GAAGAGGCAGAATGTGTAAGCCGA-GGATCGGCTCGGTCCCCCCCTGCGTGCTGTCGA
* *
28879355 TCCTGCTGTCGTAACCCTCGGTCCGATCCGAT
127 TCCTGCTGCCGCAACCCTCGGTCCGATCCGAT
* * * *
28879387 CTTAGACTGGGAATGAACT-TCGTATGGCTAAGTCAACCCACGAAACGAGCGTACAGGCGTTGAG
1 CTTAGACT-GGAATGAACTCT-GTATGCCTAAGTCAACCCACGAAACGAGCGTGCAGGCGCTCAG
* * * * *
28879451 CCTATCGGAGAGGCAGAATGTGCAAGTCGGGGATCGGCTCGGT-CCCCCCTGCGTGCTGTCGATC
64 CCTACCGAAGAGGCAGAATGTGTAAGCCGAGGATCGGCTCGGTCCCCCCCTGCGTGCTGTCGATC
** * *
28879515 CTGCTGCCGCAACCCTCGGTTTGGTCTGAT
129 CTGCTGCCGCAACCCTCGGTCCGATCCGAT
* *
28879545 CTTAGACTGGAAATAAACTCTGTATGCCTAAGTCAACCCACGAAACGAGCGTGCGGGCGCTCAGC
1 CTTAGACTGG-AATGAACTCTGTATGCCTAAGTCAACCCACGAAACGAGCGTGCAGGCGCTCAGC
* * * *
28879610 CGACCAAAGAGGCAGGATGCGTAAGCCGAGGATCG
65 CTACCGAAGAGGCAGAATGTGTAAGCCGAGGATCG
28879645 AACGGGTGGT
Statistics
Matches: 214, Mismatches: 37, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
157 2 0.01
158 127 0.59
159 82 0.38
160 3 0.01
ACGTcount: A:0.24, C:0.28, G:0.29, T:0.20
Consensus pattern (158 bp):
CTTAGACTGGAATGAACTCTGTATGCCTAAGTCAACCCACGAAACGAGCGTGCAGGCGCTCAGCC
TACCGAAGAGGCAGAATGTGTAAGCCGAGGATCGGCTCGGTCCCCCCCTGCGTGCTGTCGATCCT
GCTGCCGCAACCCTCGGTCCGATCCGAT
Found at i:28888075 original size:26 final size:26
Alignment explanation
Indices: 28888046--28888095 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
28888036 GTCCGATCTA
28888046 AGACTGGGAATGAACTCCGTATGCTT
1 AGACTGGGAATGAACTCCGTATGCTT
* *
28888072 AGACTGGGGATGAACTTCGTATGC
1 AGACTGGGAATGAACTCCGTATGC
28888096 CTAAGTCAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (26 bp):
AGACTGGGAATGAACTCCGTATGCTT
Found at i:28888152 original size:13 final size:13
Alignment explanation
Indices: 28888134--28888172 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
28888124 GGCACTCAGT
*
28888134 CGATCGGAGAGGC
1 CGATCGAAGAGGC
28888147 CGATCGAAGAGGC
1 CGATCGAAGAGGC
*
28888160 CGATCAAAGAGGC
1 CGATCGAAGAGGC
28888173 ATAATATGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.31, C:0.23, G:0.38, T:0.08
Consensus pattern (13 bp):
CGATCGAAGAGGC
Found at i:28888394 original size:26 final size:26
Alignment explanation
Indices: 28888343--28888395 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
28888333 TCGGTCTGAT
*
28888343 CTTAGACTGGGAATGAACTCTATATG
1 CTTAGACTGGGAATGAACTCCATATG
*
28888369 CTTAGACAT-GGAATGAACTCCGTATG
1 CTTAGAC-TGGGAATGAACTCCATATG
28888395 C
1 C
28888396 CTAAGCCAAC
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:0.19, G:0.23, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCATATG
Found at i:28888776 original size:26 final size:26
Alignment explanation
Indices: 28888747--28888799 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28888737 CTGATCCGAT
*
28888747 CTTAGACTGGGAATGAACTCTGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
**
28888773 CTTAGACTGGGGGTGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28888799 C
1 C
28888800 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:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28889165 original size:26 final size:26
Alignment explanation
Indices: 28889128--28889179 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
28889118 CGGTCCGATT
28889128 TTAGACTAGGAACGAACTCCATATGC
1 TTAGACTAGGAACGAACTCCATATGC
* *
28889154 TTAGAC-ATGGAATGAACTCCGTATGC
1 TTAGACTA-GGAACGAACTCCATATGC
28889180 CTAAGCCAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 1 0.04
26 22 0.96
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (26 bp):
TTAGACTAGGAACGAACTCCATATGC
Found at i:28889510 original size:159 final size:159
Alignment explanation
Indices: 28889152--28889648 Score: 400
Period size: 159 Copynumber: 3.1 Consensus size: 159
28889142 AACTCCATAT
* * *
28889152 GCTTAGACAT-GGAATGAACTCCGTATGCCTAAGCCAACCCA-AGAAATCAACGTGCGGGCACTC
1 GCTTAGAC-TGGGAATGAACTCCGTATGCCTAAGCCAACCCACA-AAATGAACGTGAGGGCGCTC
* * * * * * * * * * *
28889215 AGCCGACTGGAGAGGTAGAATGCGCAAG-CAGGGGATCGACCCGGTCCCCCCTGCGTCCTATCGA
64 AGCCGGCCGAAGAGGAAGAATGCGCAAGAC-GAGGATCGGCCCGATCCCCCCTACGTGCTACCAA
* * * * ** ***
28889279 TCCTGCTACCG-TAACCCTCTGTTTGA-TCCAA
128 TCCCGATACCGACAACCCTCGGTCCGACT-GGG
* * * * *
28889310 TCTTAGACTGGGAATGAACTCCGTATGCCTAAGTCAACCCACAAAATGAACGTGCGGGTGCTGAG
1 GCTTAGACTGGGAATGAACTCCGTATGCCTAAGCCAACCCACAAAATGAACGTGAGGGCGCTCAG
* * * * *
28889375 CCGGCC-AGAGAGGAATAATGCGCAAGACGGGGATTGGCTCGATCCCCCTCTGCGTGCTACCAAT
66 CCGGCCGA-AGAGGAAGAATGCGCAAGACGAGGATCGGCCCGATCCCCC-CTACGTGCTACCAAT
*
28889439 CCCGATGCC-ACAACCCTCGGTCCGACTGGG
129 CCCGATACCGACAACCCTCGGTCCGACTGGG
* * * *
28889469 GCTTAGACAT-GGAATGAACTTCGTATGCCTAAGCCAGCCCACGAAATGAGCGTGAGGGCGCTCA
1 GCTTAGAC-TGGGAATGAACTCCGTATGCCTAAGCCAACCCACAAAATGAACGTGAGGGCGCTCA
* * * * * *
28889533 GTCGGCCGAAGAGGCAGAATGCGTAAGCCGAGGATCGGCCCGATCCCTCCTACGTGCTACCGATC
65 GCCGGCCGAAGAGGAAGAATGCGCAAGACGAGGATCGGCCCGATCCCCCCTACGTGCTACCAATC
* * * ** **
28889598 CTGCTACCGGCAACCCTCGGTCCGGTTTGAT
130 CCGATACCGACAACCCTCGGTCC-GACTGGG
28889629 G-TTAGACTGGGAATGAACTC
1 GCTTAGACTGGGAATGAACTC
28889649 TGTAAGCTTA
Statistics
Matches: 270, Mismatches: 57, Indels: 23
0.77 0.16 0.07
Matches are distributed among these distances:
157 1 0.00
158 111 0.41
159 151 0.56
160 7 0.03
ACGTcount: A:0.24, C:0.30, G:0.27, T:0.19
Consensus pattern (159 bp):
GCTTAGACTGGGAATGAACTCCGTATGCCTAAGCCAACCCACAAAATGAACGTGAGGGCGCTCAG
CCGGCCGAAGAGGAAGAATGCGCAAGACGAGGATCGGCCCGATCCCCCCTACGTGCTACCAATCC
CGATACCGACAACCCTCGGTCCGACTGGG
Found at i:28890549 original size:869 final size:869
Alignment explanation
Indices: 28888564--28890659 Score: 2460
Period size: 869 Copynumber: 2.4 Consensus size: 869
28888554 TCGGTCCCCC
* * * *
28888564 TGCCACAACCCTTAGTCCGGCT-GGGCTTACACATCGAATAAACTCCCTATGCCTAAGCCAACCA
1 TGCCACAACCCTCAGTCCGACTGGGGCTTAGACATGGAATAAACTCCCTATGCCTAAGCCAACCA
* * * * ** * *
28888628 ATGAAACGGGCGTGCGGGTGCTCAGTCAACCGGAGAGGCAGAATGCGCAAGCTGAGGATCGGCCT
66 ACGAAATGAGCGTGCGGGCGCTCAGTCGGCCGGAGAGGCAGAATGCGCAAGCAGAGGATCGGCCC
* * * * *
28888693 AGT-CCTCCTTGCTAACTACCGATCTTGCTATCTCAACCCTCGAT-CTGATCCGATCTTAGACTG
131 GGTCCCTCCTTGCT-GCTACCGATCTTGCTATCGCAACCCTCGATCCAG-TCTGATCTTAGACTG
28888756 GGAATGAACTCTGTATGCTTAGACTGGGGGTGAACTCCGTATGCCTAAGTCAACCCACGAAACGA
194 GGAATGAACTCTGTATGCTTAGACTGGGGGTGAACTCCGTATGCCTAAGTCAACCCACGAAACGA
* * *
28888821 GCGTACGGGTGCTCAGCCGATCGGAAAGGCCGACTGGAGAGGCATAATGCGTAAGTCGGGGATCA
259 GCGTACGGGCGCTCA----ATC------G--GTC-GGAGAGGCATAATGCGTAAGTCGAGGATCA
* * * * * *
28888886 GCCCGGTCCCCCTCTACATGCTATCGATCCCGCTG-CTGTCCTGCTGCCAAAACCCTCGGTCCGG
311 GCCCGGTCCCCCTCTACGTGCTGTCGATCCTGCTGCCAGTCCTGCTGCCAAAACCCTCAGTCCGA
* ** * *
28888950 CTGGGGCTTAGACATGGAATGAACTCCGCATGCTTAAGCCAACCCATTAAATGAGCATGCGGGCA
376 CTGGGGCTTAGACATGGAATGAACTCCGCATGCCTAAGCCAACCCACGAAACGAGCATGCAGGCA
* * * * *
28889015 CTCAACCGACCGAAGAGGTAGAATGTACAAGCCGAGGATCGGCCCGATCTCCTCCTACGTGCTAT
441 CTCAACCGACCGAAGAGGCAGAATGCACAAGCAGAGGATCGGCCCGATCTCCCCCTACATGCTAT
* ** * *
28889080 CGATCTTGTTGCTGGTCCTGCTACTGCAACCCTTGGTTCGGTCCGATTTTAGACTAGGAACGAAC
506 CGATCCTACTGCTGGTCCTGCTACCGCAACCCTTGGTTCGGTCCGATCTTAGACTAGGAACGAAC
* *
28889145 TCCATATGCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCAAGAAATCAACGTGCGGG
571 TCCATATGCTTAGACATCGAATGAACTCCATATGCCTAAGCCAACCCAAGAAATCAACGTGCGGG
* *** * *
28889210 CACTCAGCCGACTGGAGAGGTAGAATGCGCAAGCAGGGGATCGACCCGGTCCCCCCTGCGTCCTA
636 CACTCAACCGAAAAGAGAGGTAGAATGCGCAAGCAGGAGATCGACCCGATCCCCCCTGCGTCCTA
* *
28889275 TCGATCCTGCTACCGTAACCCTCTGTTTGATCCAATCTTAGACTGGGAATGAACTCCGTATGCCT
701 TCGATCCTGCTACCGTAACCCTCGGTCTGATCCAATCTTAGACTGGGAATGAACTCCGTATGCCT
* * ** *
28889340 AAGTCAACCCACAAAATGAACGTGCGGGTGCTGAGCCGGCCAGAGAGGAATAATGCGCAAGACGG
766 AAGTCAACCCACAAAATCAACATGCGGGCACTGAGCCGGCCAGAGAGGAATAATACGCAAGACGG
* * * *
28889405 GGATTGGCTCGATCCCCCTCTGCGTGCTACCAATCCCGA
831 GGATCGACCCAATCCCCCTCTGCGTGCTACCAATCCCGA
* * * * * *
28889444 TGCCACAACCCTCGGTCCGACTGGGGCTTAGACATGGAATGAACTTCGTATGCCTAAGCCAGCCC
1 TGCCACAACCCTCAGTCCGACTGGGGCTTAGACATGGAATAAACTCCCTATGCCTAAGCCAACCA
* * * *
28889509 ACGAAATGAGCGTGAGGGCGCTCAGTCGGCCGAAGAGGCAGAATGCGTAAGCCGAGGATCGGCCC
66 ACGAAATGAGCGTGCGGGCGCTCAGTCGGCCGGAGAGGCAGAATGCGCAAGCAGAGGATCGGCCC
* * * * * * * *
28889574 GATCCCTCC-TACGTGCTACCGATCCTGCTACCGGCAACCCTCGGTCCGGTTTGATGTTAGACTG
131 GGTCCCTCCTTGC-TGCTACCGATCTTGCTATC-GCAACCCTCGATCCAGTCTGATCTTAGACTG
* * * *
28889638 GGAATGAACTCTGTAAGCTTAGACTGGGGATGAACTCCGTATGCCTAAGTCAACCCACAAAATGA
194 GGAATGAACTCTGTATGCTTAGACTGGGGGTGAACTCCGTATGCCTAAGTCAACCCACGAAACGA
* *
28889703 GCGTACGGGCGCTCAATCGGTCGGAAAGGTATAATGCGTAAGTCGAGGATCAGCCCGGTCCCCCT
259 GCGTACGGGCGCTCAATCGGTCGGAGAGGCATAATGCGTAAGTCGAGGATCAGCCCGGTCCCCCT
** * *
28889768 CTGTGTGCTGTCGATCCTGCTGCCAGTCCTGCTGCCACAACCCTCAGTCCGACTGGGGCTTAGAT
324 CTACGTGCTGTCGATCCTGCTGCCAGTCCTGCTGCCAAAACCCTCAGTCCGACTGGGGCTTAGAC
* * * * *
28889833 GTGGAATGAACTCTGTATGCCTAAGCCAACCCACGAAACGAGCGTGCAGGCACTCAGCC-AGCCG
389 ATGGAATGAACTCCGCATGCCTAAGCCAACCCACGAAACGAGCATGCAGGCACTCAACCGA-CCG
* * * * * * * *
28889897 GAGAGGCAGAATGCACAAGTAGGGGATCGGTCCGGTC-CCCCCTTCATGCTGTTGATCCTACTGC
453 AAGAGGCAGAATGCACAAGCAGAGGATCGGCCCGATCTCCCCCTACATGCTATCGATCCTACTGC
* * * * *
28889961 TGGTCTTGCTGCCGCAACCCTCT-G-TCTGGTCTGATCTTAGACTGGGAATGAACTCCATATGCT
518 TGGTCCTGCTACCGCAACCCT-TGGTTC-GGTCCGATCTTAGACTAGGAACGAACTCCATATGCT
* ** * *
28890024 TAGACATCGAATGAACTCCATATGCCTAAGCCAACCCATGAAA-CGAGTGTGGGGGCGCTCAACC
581 TAGACATCGAATGAACTCCATATGCCTAAGCCAACCCAAGAAATC-AACGTGCGGGCACTCAACC
* * * * *
28890088 GAAAAGAGAGGTAGAATGCGTAAGTCA-GAGATCGACCCGATCCCCCCTGTGTGCTGTTGATCCT
645 GAAAAGAGAGGTAGAATGCGCAAG-CAGGAGATCGACCCGATCCCCCCTGCGTCCTATCGATCCT
* * * * * *
28890152 GCTGCCGTAACCTTCGGTCTGGTTCGATCTTAGACTGGGAATGAACTCTGTATGCCTAAGTCAAC
709 GCTACCGTAACCCTCGGTCTGATCCAATCTTAGACTGGGAATGAACTCCGTATGCCTAAGTCAAC
* * * *
28890217 CCACGAAA-CAAGCATGCGGGCATTGAGCCGGCCAGAGAGGCATAATACGCAAGTCGGGGATCGA
774 CCACAAAATCAA-CATGCGGGCACTGAGCCGGCCAGAGAGGAATAATACGCAAGACGGGGATCGA
* * ** *
28890281 CCCAATCCCCTTCTGGGTGCTACCGGTCCCGC
838 CCCAATCCCCCTCTGCGTGCTACCAATCCCGA
* ** * *
28890313 TGCCGCAACCCTCAGTTTGATTGGGGCTTAGACATGGAATAAACTCCCTATGCCTAGGCCAACCA
1 TGCCACAACCCTCAGTCCGACTGGGGCTTAGACATGGAATAAACTCCCTATGCCTAAGCCAACCA
*
28890378 ACGAAATGAGCGTGCGGGCGCTCAGTCGGCCGGAGAGGCAGAATGTGCAAGCA-AGGGATCGGCC
66 ACGAAATGAGCGTGCGGGCGCTCAGTCGGCCGGAGAGGCAGAATGCGCAAGCAGA-GGATCGGCC
* * * * * *
28890442 CGGTCCCCCCTTGCATGCTGCCGATCTTGCTGTCGCAACCCTCGATCCAGTGTAATCTTAGACTA
130 CGGTCCCTCCTTGC-TGCTACCGATCTTGCTATCGCAACCCTCGATCCAGTCTGATCTTAGACTG
* *
28890507 GGAATGAACTCTGTATGCTTAGACTGGGGGTGAACACCGTATGCCTAAGTCAACCCATGAAACGA
194 GGAATGAACTCTGTATGCTTAGACTGGGGGTGAACTCCGTATGCCTAAGTCAACCCACGAAACGA
** * * * *
28890572 GCGTGTGGGCACTCAATCGGTCGGAGAGGCAGAATGCGCAAG-CTGAGGATC-GACCCGAT-CCC
259 GCGTACGGGCGCTCAATCGGTCGGAGAGGCATAATGCGTAAGTC-GAGGATCAG-CCCGGTCCCC
* *
28890634 CTCTACGTACTGTCGATCTTGCTGCC
322 CTCTACGTGCTGTCGATCCTGCTGCC
28890660 GCAACCCTTA
Statistics
Matches: 1023, Mismatches: 177, Indels: 44
0.82 0.14 0.04
Matches are distributed among these distances:
868 33 0.03
869 615 0.60
870 140 0.14
872 1 0.00
878 3 0.00
880 19 0.02
881 107 0.10
882 103 0.10
883 2 0.00
ACGTcount: A:0.24, C:0.29, G:0.27, T:0.21
Consensus pattern (869 bp):
TGCCACAACCCTCAGTCCGACTGGGGCTTAGACATGGAATAAACTCCCTATGCCTAAGCCAACCA
ACGAAATGAGCGTGCGGGCGCTCAGTCGGCCGGAGAGGCAGAATGCGCAAGCAGAGGATCGGCCC
GGTCCCTCCTTGCTGCTACCGATCTTGCTATCGCAACCCTCGATCCAGTCTGATCTTAGACTGGG
AATGAACTCTGTATGCTTAGACTGGGGGTGAACTCCGTATGCCTAAGTCAACCCACGAAACGAGC
GTACGGGCGCTCAATCGGTCGGAGAGGCATAATGCGTAAGTCGAGGATCAGCCCGGTCCCCCTCT
ACGTGCTGTCGATCCTGCTGCCAGTCCTGCTGCCAAAACCCTCAGTCCGACTGGGGCTTAGACAT
GGAATGAACTCCGCATGCCTAAGCCAACCCACGAAACGAGCATGCAGGCACTCAACCGACCGAAG
AGGCAGAATGCACAAGCAGAGGATCGGCCCGATCTCCCCCTACATGCTATCGATCCTACTGCTGG
TCCTGCTACCGCAACCCTTGGTTCGGTCCGATCTTAGACTAGGAACGAACTCCATATGCTTAGAC
ATCGAATGAACTCCATATGCCTAAGCCAACCCAAGAAATCAACGTGCGGGCACTCAACCGAAAAG
AGAGGTAGAATGCGCAAGCAGGAGATCGACCCGATCCCCCCTGCGTCCTATCGATCCTGCTACCG
TAACCCTCGGTCTGATCCAATCTTAGACTGGGAATGAACTCCGTATGCCTAAGTCAACCCACAAA
ATCAACATGCGGGCACTGAGCCGGCCAGAGAGGAATAATACGCAAGACGGGGATCGACCCAATCC
CCCTCTGCGTGCTACCAATCCCGA
Found at i:28890698 original size:184 final size:185
Alignment explanation
Indices: 28890361--28890708 Score: 414
Period size: 185 Copynumber: 1.9 Consensus size: 185
28890351 ATAAACTCCC
* * * * *
28890361 TATGCCTAGGCCAACCAACGAAATGAGCGTGCGGGCGCTCAGTCGGCCGGAGAGGCAGAATGTGC
1 TATGCCTAAGCCAACCAACGAAACGAGCGTGCGGGCACTCAATCGGCCGGAGAGGCAGAATGCGC
* * * * * *
28890426 AAGCAAGGGATCGGCCCGGTCCCCCCTTGCATGCTGCCGATCTTGCTGTCGCAACCCTCGATCCA
66 AAGCAAGGGATCGACCCGATCCCCCCTTACATACTGCCGATCTTGCTGCCGCAACCCTAGATCCA
** *
28890491 GTGTAATCTTAGACTAGGAATGAACTCTGTATGCTTAGACTGGGGGTGAACACCG
131 GTCCAATCTTAGACTAGGAATGAACTCCGTATGCTTAGACTGGGGGTGAACACCG
* * * * *
28890546 TATGCCTAAGTCAACCCATGAAACGAGCGTGTGGGCACTCAATCGGTCGGAGAGGCAGAATGCGC
1 TATGCCTAAGCCAACCAACGAAACGAGCGTGCGGGCACTCAATCGGCCGGAGAGGCAGAATGCGC
* * * * *
28890611 AAGC-TGAGGATCGACCCGATCCCCTC-TACGTACTGTCGATCTTGCTGCCGCAACCCTTAG-TT
66 AAGCAAG-GGATCGACCCGATCCCCCCTTACATACTGCCGATCTTGCTGCCGCAACCC-TAGATC
* * *
28890673 CGGTCCGATCTTAGACTGGGAATGAACTCCGTATGC
129 CAGTCCAATCTTAGACTAGGAATGAACTCCGTATGC
28890709 ATAAGTCAAC
Statistics
Matches: 134, Mismatches: 27, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
184 57 0.43
185 77 0.57
ACGTcount: A:0.23, C:0.28, G:0.28, T:0.21
Consensus pattern (185 bp):
TATGCCTAAGCCAACCAACGAAACGAGCGTGCGGGCACTCAATCGGCCGGAGAGGCAGAATGCGC
AAGCAAGGGATCGACCCGATCCCCCCTTACATACTGCCGATCTTGCTGCCGCAACCCTAGATCCA
GTCCAATCTTAGACTAGGAATGAACTCCGTATGCTTAGACTGGGGGTGAACACCG
Found at i:28890766 original size:502 final size:503
Alignment explanation
Indices: 28889655--28893093 Score: 1932
Period size: 502 Copynumber: 6.7 Consensus size: 503
28889645 ACTCTGTAAG
* * * * *
28889655 CTTAGACTGGGGATGAACTCCGTATGCCTAAGTCAACCCACAAAATGAGCGTACGGGCGCTCAAT
1 CTTAGACTGGGAATGAACTCCGTATGCCTAAGTCAACCCACAAAACGAGCGTACGGGCACTGAAC
* * * * *
28889720 CGGTCGGAA-AGGTATAATGCGTAAGTCGAGGATC-AGCCCGGTCCCCCTCTGTGTGCTGTCGAT
66 CGGTC-GAAGAGGCATAATACGCAAGTCGGGGATCGA-CCCGAT--CCC-C--T-T-CTG-CG--
* * * ** * **
28889783 CCTGCTGCCAGTCCTGCTGCCACAACCCTCAGTCCGACTGGGGCTTAGATGTGGAATGAACTCTG
119 --TGCTGCCGGTCCCGCTGCCACAACCCTCAGTCTGACTGGGGCTTAGACATGGAATAAACTCCC
* * * * *
28889848 TATGCCTAAGCCAACCCACGAAACGAGCGTGCAGGCACTCAGCCAGCCGGAGAGGCAGAATGCAC
182 TATGCCTAAGCCAACCAACGAAACGAGCGTGCGGGCACTCAGTCGGCCGGAGAGGCAGAATGTAC
* * * *
28889913 AAGTAGGGGATCGGTCCGGTCCCCCCTT-CATGCTGTTGATCCTACTGCTGGTCTTGCTGCCGCA
247 AAGCAAGGGATCGGCCCGGTCCCCCCTTGCATGC---TG------C--C-GATCTTGCTGCCGCA
* ** * *
28889977 ACCCTCTGTCTGGTCTGATCTTAGACTGGGAATGAACTCCATATGCTTAGACATCGAATGAACTC
300 ACCCTCAGTCCAGTCTAATCTTAGACTGGGAATGAACTCCATATGCTTAGACATGGAATGAACTC
* * * **** *
28890042 CATATGCCTAAGCCAACCCATGAAACGAGTGTGGGGGCGCTCAACCGAAAAGAGAGGTAGAATGC
365 CGTATGCCTAAGCCAACCCATGAAACGAGCGTGTGGGCGCTCAACCGGTCGGAGAGGCAGAATGC
* * * *
28890107 GTAAG-TCAGAGATCGACCCGATCCCCCCTGTGTGCTGTTGATCCTGCTGCCGTAA-CCTTCGGT
430 GCAAGCTGAG-GATCGACCCGATCCCCCCTGCGTGCTGTCGATCCTGCTGCCGTAACCCTTCGGT
*
28890170 CTGGTTCGAT
494 CTGGTCCGAT
* * * * * * *
28890180 CTTAGACTGGGAATGAACTCTGTATGCCTAAGTCAACCCACGAAACAAGCATGCGGGCATTGAGC
1 CTTAGACTGGGAATGAACTCCGTATGCCTAAGTCAACCCACAAAACGAGCGTACGGGCACTGAAC
* * * *
28890245 CGG-CCAGAGAGGCATAATACGCAAGTCGGGGATCGACCCAATCCCCTTCTGGGTGCTACCGGTC
66 CGGTCGA-AGAGGCATAATACGCAAGTCGGGGATCGACCCGATCCCCTTCTGCGTGCTGCCGGTC
* * * *
28890309 CCGCTGCCGCAACCCTCAGTTTGATTGGGGCTTAGACATGGAATAAACTCCCTATGCCTAGGCCA
130 CCGCTGCCACAACCCTCAGTCTGACTGGGGCTTAGACATGGAATAAACTCCCTATGCCTAAGCCA
* * *
28890374 ACCAACGAAATGAGCGTGCGGGCGCTCAGTCGGCCGGAGAGGCAGAATGTGCAAGCAAGGGATCG
195 ACCAACGAAACGAGCGTGCGGGCACTCAGTCGGCCGGAGAGGCAGAATGTACAAGCAAGGGATCG
* *
28890439 GCCCGGTCCCCCCTTGCATGCTGCCGATCTTGCTGTCGCAACCCTC-GATCCAGTGTAATCTTAG
260 GCCCGGTCCCCCCTTGCATGCTGCCGATCTTGCTGCCGCAACCCTCAG-TCCAGTCTAATCTTAG
* ** ** * *
28890503 ACTAGGAATGAACTCTGTATGCTTAGAC-TGGGGGTGAACACCGTATGCCTAAGTCAACCCATGA
324 ACTGGGAATGAACTCCATATGCTTAGACAT-GGAATGAACTCCGTATGCCTAAGCCAACCCATGA
* *
28890567 AACGAGCGTGTGGGCACTCAATCGGTCGGAGAGGCAGAATGCGCAAGCTGAGGATCGACCCGATC
388 AACGAGCGTGTGGGCGCTCAACCGGTCGGAGAGGCAGAATGCGCAAGCTGAGGATCGACCCGATC
* * * * * * *
28890632 CCCTCTACGTACTGTCGATCTTGCTGCCGCAACCCTTAGTTC-GGTCCGAT
453 CCCCCTGCGTGCTGTCGATCCTGCTGCCGTAACCCTTCGGTCTGGTCCGAT
* * * *
28890682 CTTAGACTGGGAATGAACTCCGTATGCATAAGTCAACCCACAAAATGAGCGTGCGGGCACTGAGC
1 CTTAGACTGGGAATGAACTCCGTATGCCTAAGTCAACCCACAAAACGAGCGTACGGGCACTGAAC
* * * * * * * *
28890747 CGGTCGAAGAGGAATAATACGCACGACGGGGATCGACCTGGT-CCCTCCCTACGTGCTGCCAGTC
66 CGGTCGAAGAGGCATAATACGCAAGTCGGGGATCGACCCGATCCCCT-TCTGCGTGCTGCCGGTC
* * * **
28890811 TCGATGCCACAACCCTC-GATCTGACTGGGGCTTAGACATGGAATGAACTCCGGATGCCTAAGCC
130 CCGCTGCCACAACCCTCAG-TCTGACTGGGGCTTAGACATGGAATAAACTCCCTATGCCTAAGCC
* * * * * * *
28890875 AACCCATGAAACGAACGTGCGGGCACTCAGTCGGCCGGAAAGGTATAATGCT-CAAGCCAGGGAT
194 AACCAACGAAACGAGCGTGCGGGCACTCAGTCGGCCGGAGAGGCAGAATG-TACAAGCAAGGGAT
* *
28890939 CGGCCCGGT-CCCCCTTGCATGCTGTCGATCCTACTGCTTATCCTACTGTCGTAACCCTCAGTCC
258 CGGCCCGGTCCCCCCTTGCATGCTGCCGAT-CT--TGC---TGC--C-G-C--AACCCTCAGTCC
*
28891003 AGTCTGATCTTAGACTGGGAATGAACTCCATATGCTTAGACATGGAATGAACTCCGTATGCCTAA
311 AGTCTAATCTTAGACTGGGAATGAACTCCATATGCTTAGACATGGAATGAACTCCGTATGCCTAA
* * * * *
28891068 GCCAACACCCA--AAACGAGCGTGTGGGCGCTTAGCCGGTCGAAGAGGCAGAATGCGCAAGCCGG
376 GCC-A-ACCCATGAAACGAGCGTGTGGGCGCTCAACCGGTCGGAGAGGCAGAATGCGCAAGCTGA
* * * * * *
28891131 GGACCGACCCGGTCCCCCCTGCGTGCTGTCGATCCTACTGTCGTAACCC-TCGGTCTAGTCTGAT
439 GGATCGACCCGATCCCCCCTGCGTGCTGTCGATCCTGCTGCCGTAACCCTTCGGTCTGGTCCGAT
* ** *
28891195 CTTAGACTGGGAATGAACTTCGTATGCCTAAGTCAACCCATGAAACGAGTGTACGGGCACTGAAC
1 CTTAGACTGGGAATGAACTCCGTATGCCTAAGTCAACCCACAAAACGAGCGTACGGGCACTGAAC
* * * * * * * * *
28891260 CGGACGGAGAGGCATAATGCGCAAGCCAGAGATTGGCCCGATCGCCC-TCTGCGTGCTGTCGGTC
66 CGGTCGAAGAGGCATAATACGCAAGTCGGGGATCGACCCGATC-CCCTTCTGCGTGCTGCCGGTC
* * * * *
28891324 CCGCTACCACAACCCTCGGTTTGGCTGGGGCTTAGACATGGAATAAACTCCCTATGCCTATGCCA
130 CCGCTGCCACAACCCTCAGTCTGACTGGGGCTTAGACATGGAATAAACTCCCTATGCCTAAGCCA
* * ** * **
28891389 ACCAACGAAAC-AGGCATGTC-GGCGCTCAGTCGATCGAAGAGGCAGAAT-TCACAAGCCCGGGG
195 ACCAACGAAACGA-GCGTG-CGGGCACTCAGTCGGCCGGAGAGGCAGAATGT-ACAAG-CAAGGG
* * * * * *
28891451 ATCGGCCCAGTCCCCCC-TACATGCTGCTGATCCTGCTGCCGTAACCCTCAGTCCGATTC-AATC
256 ATCGGCCCGGTCCCCCCTTGCATGCTGCCGATCTTGCTGCCGCAACCCTCAGTCC-AGTCTAATC
* * * * * *
28891514 TTAGACTGGGAATGAACTCTATATACTTAGA-TTGGGATGAACTTCGTATGCCTAAGTCAACCCA
320 TTAGACTGGGAATGAACTCCATATGCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCA
* * * * * * * * *
28891578 CGAAATGAGCGTGCGGGTGCCCAGCC-GTCCGGAGAGGCA-AATGCGTAAGCCGGGGATCGACCC
385 TGAAACGAGCGTGTGGGCGCTCAACCGGT-CGGAGAGGCAGAATGCGCAAGCTGAGGATCGACCC
* * * *
28891641 -AGTCCCCCCTGCATGCTGTCAATCCTACTGCCGCAACCCTCGATCCGGTCTGATCATGGACTAG
449 GA-TCCCCCCTGCGTGCTGTCGATCCTGCTGCCGTAACCCT---T-C-G---G----T---CT-G
28891705 GCATGAACTCTGTAT
497 G--T---C-C-G-AT
** * * * * *
28891720 GCTTAGACAAGGAATAAACTCCGTATGCCTAAGCCAACCCACAAAACGAGCATATGGGCACTCAA
1 -CTTAGACTGGGAATGAACTCCGTATGCCTAAGTCAACCCACAAAACGAGCGTACGGGCACTGAA
* * * ** * * * * * * *
28891785 CTGGTCAAAGAGGCAGAATAAACAAGCCGGGGACCGACTCGGTCCCC-CCTTGCGTGCTGTCGAT
65 CCGGTCGAAGAGGCATAATACGCAAGTCGGGGATCGACCCGATCCCCTTC-TGCGTGCTGCCGGT
* * * * * **** * * *
28891849 CCTGCTGTCGCAACCCT-TGATCCGATCT-CATATTAGAC-TGGGAATGAGCTCCGTATGCCTAA
129 CCCGCTGCCACAACCCTCAG-TCTGA-CTGGGGCTTAGACAT-GGAATAAACTCCCTATGCCTAA
* * * * * * * ** * * *** **
28891911 GTCAACCCATGAAACGAGCGTGTGGGCGCTGAGCCAACCGAAGAGGCATAATGCGTAAGCCGGGG
191 GCCAACCAACGAAACGAGCGTGCGGGCACTCAGTCGGCCGGAGAGGCAGAATGTACAAGCAAGGG
* * * * ** *
28891976 ATCGGGCCGGT-CCCCCTCTGCGTGCTGTC-AGTCCTGCTGCCATAACCCT---T--TGTC----
256 ATCGGCCCGGTCCCCCCT-TGCATGCTGCCGA-TCTTGCTGCCGCAACCCTCAGTCCAGTCTAAT
* * *
28892030 C---GGCTGGG---G--CT---TA-G-ATAG----GGAATGAACTCCCTATGCCTAAGCCAACCC
319 CTTAGACTGGGAATGAACTCCATATGCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCC
* ** * * ** *
28892078 ACGAAAC-AGGCGTGCAGACGCTCAGCCGGTCGGAGAGATAGAATGCGCAAG-TCG-GGCATCGG
384 ATGAAACGA-GCGTGTGGGCGCTCAACCGGTCGGAGAGGCAGAATGCGCAAGCT-GAGG-ATCGA
* * * * **
28892140 CCCGGTCCCCCTTGTGTGCT-ACGGATCCTGCTATCGTAACCCTCGGTACGATCCGATCTTAGAC
446 CCCGATCCCCCCTGCGTGCTGTC-GATCCTGCTGCCGTAACCCT---T-CG----G----T---C
28892204 TGGGAATGAACTCCTGAT
495 T--G---G---TCC-GAT
* * * * * * *
28892222 GCTTAGACTAGGG-ATGAACTCCGTATGCCTAAATCACCCCACAAAACGAGTGTGCGAGCGCTCA
1 -CTTAGACT-GGGAATGAACTCCGTATGCCTAAGTCAACCCACAAAACGAGCGTACGGGCACTGA
* * * *** * * *
28892286 GCTGGTCGGAGAGGCATAATGTACAAGTCAGGGATC-AGCCTAGTCCCCCTCTGTGTGCTGTCGG
64 ACCGGTCGAAGAGGCATAATACGCAAGTCGGGGATCGACCCGA-T--CCC-C--T-T-CTG-C-G
* * * * * * *
28892350 TCCTACTGTCGGTCCTGCTGCCACAACTCTCAGTCCGACTAGGGCTTAGACATGGAATGAACTCC
119 ---TGCTGCCGGTCCCGCTGCCACAACCCTCAGTCTGACTGGGGCTTAGACATGGAATAAACTCC
* * * * * * * * * ***
28892415 GTATGCCTAAGCCAACCCATGAAACAAGCGTGCGGGCGCTCAGCCGGCCTGAGAAGAAGAATACG
181 CTATGCCTAAGCCAACCAACGAAACGAGCGTGCGGGCACTCAGTCGGCCGGAGAGGCAGAATGTA
*** * *
28892480 CAAGTTGGGGATCAGCCCGGTTCCCCCCTGTG--TGCTGTCGATCCTGCTGCTGGTCCTGCTATC
246 CAAGCAAGGGATCGGCCCGG-TCCCCCCT-TGCATGCTGCCGAT-CT--TGCT-G-CC-G-----
* * ** *
28892543 ACAACCCTCTGTTC-GATCCGATCTTAGACTGGGAATGAACTCCGTATGCTTAGACATGGAATGA
298 -CAACCCTCAGTCCAG-TCTAATCTTAGACTGGGAATGAACTCCATATGCTTAGACATGGAATGA
* * * *
28892607 ACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCACTCACCCAGTCGGAGAGGCAGA
361 ACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGTGGGCGCTCAACCGGTCGGAGAGGCAGA
* * * * * * * *
28892672 ATGCGCAAG-TCGGGGATCGGCCCGGTCCCCCCTTGCGTGCTATCGATCCTGCTACTGCAA-CCA
426 ATGCGCAAGCT-GAGGATCGACCCGATCCCCCC-TGCGTGCTGTCGATCCTGCTGCCGTAACCCT
* * *
28892735 TCAGTCCGGTCTGAT
489 TCGGTCTGGTCCGAT
* * ** * *
28892750 CTTAGACTGAGAATGAACTCTGTATGCCTAAGTCAACCCATGAAACGAGCGTACGGGTACTGAGC
1 CTTAGACTGGGAATGAACTCCGTATGCCTAAGTCAACCCACAAAACGAGCGTACGGGCACTGAAC
* ** * * * *
28892815 AGACCGAAAAGGCATAATGCGCAAGCCGGGGATCGACCCGATTCCCC-TCTGCGTGCTACCGGTC
66 CGGTCGAAGAGGCATAATACGCAAGTCGGGGATCGACCCGA-TCCCCTTCTGCGTGCTGCCGGTC
* * *
28892879 CCGCTGCAACAACCCTTCA-TCTAACTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCC
130 CCGCTGCCACAACCC-TCAGTCTGACTGGGGCTTAGACATGGAATAAACTCCCTATGCCTAAGCC
* * * * ** ** * * * *
28892943 AACCCACAAAACGGGTGTGCGGGTGCTCAACCGGTCAGAGAGGCAGAATGCACAAGTC-GGGGAT
194 AACCAACGAAACGAGCGTGCGGGCACTCAGTCGGCCGGAGAGGCAGAATGTACAAG-CAAGGGAT
* * * * * * * * * * **
28893007 CGGCCCGGTGCCCCC-TACGTACAGTCGATCCTGCTGTCGCGACCCTCGGTCC-GATCCGATCTT
258 CGGCCCGGTCCCCCCTTGCATGCTGCCGATCTTGCTGCCGCAACCCTCAGTCCAG-TCTAATCTT
* *
28893070 AGACTAGGAATGAACTCCGTATGC
322 AGACTGGGAATGAACTCCATATGC
28893094 CTAAGTCAAC
Statistics
Matches: 2289, Mismatches: 463, Indels: 347
0.74 0.15 0.11
Matches are distributed among these distances:
499 5 0.00
500 59 0.03
501 137 0.06
502 613 0.27
503 23 0.01
504 11 0.00
505 4 0.00
506 5 0.00
507 2 0.00
508 3 0.00
509 7 0.00
510 4 0.00
511 13 0.01
512 6 0.00
513 486 0.21
514 176 0.08
515 135 0.06
516 13 0.01
517 7 0.00
518 5 0.00
519 5 0.00
520 6 0.00
521 1 0.00
522 2 0.00
523 5 0.00
524 8 0.00
525 106 0.05
526 212 0.09
527 78 0.03
528 8 0.00
529 3 0.00
530 1 0.00
531 2 0.00
532 1 0.00
535 2 0.00
537 1 0.00
538 6 0.00
540 1 0.00
541 1 0.00
543 2 0.00
544 1 0.00
546 2 0.00
547 1 0.00
548 4 0.00
549 1 0.00
552 91 0.04
553 23 0.01
554 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.27, T:0.21
Consensus pattern (503 bp):
CTTAGACTGGGAATGAACTCCGTATGCCTAAGTCAACCCACAAAACGAGCGTACGGGCACTGAAC
CGGTCGAAGAGGCATAATACGCAAGTCGGGGATCGACCCGATCCCCTTCTGCGTGCTGCCGGTCC
CGCTGCCACAACCCTCAGTCTGACTGGGGCTTAGACATGGAATAAACTCCCTATGCCTAAGCCAA
CCAACGAAACGAGCGTGCGGGCACTCAGTCGGCCGGAGAGGCAGAATGTACAAGCAAGGGATCGG
CCCGGTCCCCCCTTGCATGCTGCCGATCTTGCTGCCGCAACCCTCAGTCCAGTCTAATCTTAGAC
TGGGAATGAACTCCATATGCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAAC
GAGCGTGTGGGCGCTCAACCGGTCGGAGAGGCAGAATGCGCAAGCTGAGGATCGACCCGATCCCC
CCTGCGTGCTGTCGATCCTGCTGCCGTAACCCTTCGGTCTGGTCCGAT
Found at i:28891040 original size:26 final size:26
Alignment explanation
Indices: 28891011--28891063 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28891001 CCAGTCTGAT
28891011 CTTAGAC-TGGGAATGAACTCCATATG
1 CTTAGACAT-GGAATGAACTCCATATG
*
28891037 CTTAGACATGGAATGAACTCCGTATG
1 CTTAGACATGGAATGAACTCCATATG
28891063 C
1 C
28891064 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):
CTTAGACATGGAATGAACTCCATATG
Found at i:28891818 original size:684 final size:685
Alignment explanation
Indices: 28890978--28892277 Score: 1662
Period size: 685 Copynumber: 1.9 Consensus size: 685
28890968 CCTACTGCTT
* * * *
28890978 ATCCTACTGTCGTAACCCTCAGTCCAGTCTGATCTTAGACTGGGAATGAACTCCATATGCTTAGA
1 ATCCTACTGCCGCAACCCTCAGTCCAGTCTGATCATAGACTAGGAATGAACTCCATATGCTTAGA
* * * * * * * *
28891043 CATGGAATGAACTCCGTATGCCTAAGCCAACACCCAAAACGAGCGTGTGGGCGCTTAGCCGGTCG
66 CAAGGAATAAACTCCGTATGCCTAAGCCAACACCCAAAACGAGCATATGGGCACTCAACCGGTCA
***
28891108 AAGAGGCAGAATGCGCAAGCCGGGGACCGACCCGGTCCCCCC-TGCGTGCTGTCGATCCTACTGT
131 AAGAGGCAGAATAAACAAGCCGGGGACCGACCCGGTCCCCCCTTGCGTGCTGTCGATCCTACTGT
* * * * *
28891172 CGTAACCCTCGGTCTAG-TCTGATCTTAGACTGGGAATGAACTTCGTATGCCTAAGTCAACCCAT
196 CGCAACCCTCGATC-AGATCTCATATTAGACTGGGAATGAACTCCGTATGCCTAAGTCAACCCAT
* * * *
28891236 GAAACGAGTGTACGGGCACTGAACCGGA-CGGAGAGGCATAATGCGCAAGCCAGAGATTGGCCCG
260 GAAACGAGCGTACGGGCACTGAACC-AACCGAAGAGGCATAATGCGCAAGCCAGAGATCGGCCCG
* * ** *
28891300 ATCGCCCTCTGCGTGCTGTCGGTCCCGCTACCACAACCCTCGGTTTGGCTGGGGCTTAGACATGG
324 ATCCCCCTCTGCGTGCTGTCAGTCCCGCTACCACAACCCTCGGTCCGGCTGGGGCTTAGACAGGG
* * *
28891365 AATAAACTCCCTATGCCTATGCCAACCAACGAAACAGGCATGTC-GGCGCTCAGTCGATCGAAGA
389 AATAAACTCCCTATGCCTAAGCCAACCAACGAAACAGGCATG-CAGACGCTCAGCCGATCGAAGA
* * * * * *
28891429 GGCAGAATTCACAAGCCCGGGGATCGGCCCAGTCCCCCCTACATGCTGCTGATCCTGCTGCCGTA
453 GACAGAATGCACAAG-CCGGGCATCGGCCCAGTCCCCCCTACATGCTACGGATCCTGCTACCGTA
* * * *
28891494 ACCCTCAGTCCGATTCAATCTTAGACTGGGAATGAACT-CTATATACTTAGA-TTGGGATGAACT
517 ACCCTCAGTACGATCCAATCTTAGACTGGGAATGAACTCCT-GATACTTAGACTAGGGATGAACT
* * * *
28891557 TCGTATGCCTAAGTCAACCCACGAAATGAGCGTGCGGGTGCCCAGCCGTCCGGAGAGGCAAATGC
581 CCGTATGCCTAAATCAACCCACAAAACGAGCGTGCGGGTGCCCAGCCGTCCGGAGAGGCAAATGC
28891622 GTAAGCCGGGGATCGACCCAGTCCCCCCTGCATGCTGTCA
646 GTAAGCCGGGGATCGACCCAGTCCCCCCTGCATGCTGTCA
* * * **
28891662 ATCCTACTGCCGCAACCCTC-GATCCGGTCTGATCATGGACTAGGCATGAACTCTGTATGCTTAG
1 ATCCTACTGCCGCAACCCTCAG-TCCAGTCTGATCATAGACTAGGAATGAACTCCATATGCTTAG
*
28891726 ACAAGGAATAAACTCCGTATGCCTAAGCCAAC-CCACAAAACGAGCATATGGGCACTCAACTGGT
65 ACAAGGAATAAACTCCGTATGCCTAAGCCAACACC-CAAAACGAGCATATGGGCACTCAACCGGT
* *
28891790 CAAAGAGGCAGAATAAACAAGCCGGGGACCGACTCGGTCCCCCCTTGCGTGCTGTCGATCCTGCT
129 CAAAGAGGCAGAATAAACAAGCCGGGGACCGACCCGGTCCCCCCTTGCGTGCTGTCGATCCTACT
* * *
28891855 GTCGCAACCCTTGATCCGATCTCATATTAGACTGGGAATGAGCTCCGTATGCCTAAGTCAACCCA
194 GTCGCAACCCTCGATCAGATCTCATATTAGACTGGGAATGAACTCCGTATGCCTAAGTCAACCCA
** * * * * * *
28891920 TGAAACGAGCGTGTGGGCGCTGAGCCAACCGAAGAGGCATAATGCGTAAGCCGGGGATCGGGCCG
259 TGAAACGAGCGTACGGGCACTGAACCAACCGAAGAGGCATAATGCGCAAGCCAGAGATCGGCCCG
* * * * ** *
28891985 GTCCCCCTCTGCGTGCTGTCAGTCCTGCTGCCATAACCCTTTGTCCGGCTGGGGCTTAGATAGGG
324 ATCCCCCTCTGCGTGCTGTCAGTCCCGCTACCACAACCCTCGGTCCGGCTGGGGCTTAGACAGGG
* * * * *
28892050 AATGAACTCCCTATGCCTAAGCCAACCCACGAAACAGGCGTGCAGACGCTCAGCCGGTCGGAGAG
389 AATAAACTCCCTATGCCTAAGCCAACCAACGAAACAGGCATGCAGACGCTCAGCCGATCGAAGAG
* * * * * *** *
28892115 ATAGAATGCGCAAGTCGGGCATCGGCCCGGTCCCCCTTGTGTGCTACGGATCCTGCTATCGTAAC
454 ACAGAATGCACAAGCCGGGCATCGGCCCAGTCCCCCCTACATGCTACGGATCCTGCTACCGTAAC
* * *
28892180 CCTCGGTACGATCCGATCTTAGACTGGGAATGAACTCCTGATGCTTAGACTAGGGATGAACTCCG
519 CCTCAGTACGATCCAATCTTAGACTGGGAATGAACTCCTGATACTTAGACTAGGGATGAACTCCG
* *
28892245 TATGCCTAAATCACCCCACAAAACGAGTGTGCG
584 TATGCCTAAATCAACCCACAAAACGAGCGTGCG
28892278 AGCGCTCAGC
Statistics
Matches: 517, Mismatches: 91, Indels: 15
0.83 0.15 0.02
Matches are distributed among these distances:
683 3 0.01
684 228 0.44
685 286 0.55
ACGTcount: A:0.24, C:0.29, G:0.26, T:0.20
Consensus pattern (685 bp):
ATCCTACTGCCGCAACCCTCAGTCCAGTCTGATCATAGACTAGGAATGAACTCCATATGCTTAGA
CAAGGAATAAACTCCGTATGCCTAAGCCAACACCCAAAACGAGCATATGGGCACTCAACCGGTCA
AAGAGGCAGAATAAACAAGCCGGGGACCGACCCGGTCCCCCCTTGCGTGCTGTCGATCCTACTGT
CGCAACCCTCGATCAGATCTCATATTAGACTGGGAATGAACTCCGTATGCCTAAGTCAACCCATG
AAACGAGCGTACGGGCACTGAACCAACCGAAGAGGCATAATGCGCAAGCCAGAGATCGGCCCGAT
CCCCCTCTGCGTGCTGTCAGTCCCGCTACCACAACCCTCGGTCCGGCTGGGGCTTAGACAGGGAA
TAAACTCCCTATGCCTAAGCCAACCAACGAAACAGGCATGCAGACGCTCAGCCGATCGAAGAGAC
AGAATGCACAAGCCGGGCATCGGCCCAGTCCCCCCTACATGCTACGGATCCTGCTACCGTAACCC
TCAGTACGATCCAATCTTAGACTGGGAATGAACTCCTGATACTTAGACTAGGGATGAACTCCGTA
TGCCTAAATCAACCCACAAAACGAGCGTGCGGGTGCCCAGCCGTCCGGAGAGGCAAATGCGTAAG
CCGGGGATCGACCCAGTCCCCCCTGCATGCTGTCA
Done.