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 302 of 402
Found at i:28525325 original size:159 final size:159
Alignment explanation
Indices: 28525134--28525985 Score: 506
Period size: 159 Copynumber: 5.3 Consensus size: 159
28525124 CGCAAGCCCG
* * * *
28525134 TTTCATGGGTTGGCTTAGGCATAGGGAGTTCATTCCATTTTTAAGCCCCAGTCGGACCGAGGGTT
1 TTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCCCCAGTCGGACCGAGGGTT
* * * * * *
28525199 GTGGCAGTGGGACCGGCAGCACGTAGAGGGGGATCGCGCCGATCCCCAGCTTGCGCGTTATACCC
66 GTGGTAGCGGGATCGGCAGCACGTAGAGGGGGATCGAGCCGATCCCCAGCTTGCGCATTATACCT
**
28525264 CTCCAGTCGACTCAGCGCCCGAATGCTCA
131 CTCCAGTCGACTCAGCGCCCGAACACTCA
* * * * ** * * *
28525293 TTTCGTTGGTTGACTAAGGCATACGCAGTTCATTCCCA-GTCTAAG-ATCAGACCGAACTGAGGG
1 TTTCGTGGGTTGGCTTAGGCATACGGAGTTCATT-CCATGTCTAAGCCCCAG-TCGGACCGAGGG
* ** * * * *
28525356 TTGCGGTAGCAAGATCGACAGCACGTAG-GGGGGATCGGGCCGATCCCCAGCTTGCTCATTCTAC
64 TTGTGGTAGCGGGATCGGCAGCACGTAGAGGGGGATCGAGCCGATCCCCAGCTTGCGCATTATAC
* ** * * *
28525420 CTCTTCTTTCGACTGAGCGCCCGCACACTCG
129 CTCTCCAGTCGACTCAGCGCCCGAACACTCA
* * * * * *
28525451 TTTCGTGGGTTGGCTTAGGCATATGGAGTTCATTCCATGTCTAAGCCCTAATAGGATCGGGGGTT
1 TTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCCCCAGTCGGACCGAGGGTT
* * * ** *
28525516 GTGGTAGCGGGATCGGCAGTACGCAGAGGGGGATCGAGCTGATCCCTGGCTTGCGCATTATGCCT
66 GTGGTAGCGGGATCGGCAGCACGTAGAGGGGGATCGAGCCGATCCCCAGCTTGCGCATTATACCT
* * * *
28525581 CTCCAATCGGCATCTCTGGCCGGCAGAGCGCCC-ACACGCCCG
131 CTCCAGTC-G-A---CT------C--AGCGCCCGA-ACACTCA
* * * * *
28525623 TTTCATGGGTTGGCTGAGGTATAGGGAGTTCATTCCATGTCTAAGCCCCA-ACAGGACCGAGGGT
1 TTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCCCCAGTC-GGACCGAGGGT
* ** * * * * ** * * *
28525687 TGT-GCAGCGGGA-CTAACATCATGCAGAGGGGGA-CCAGGTTGATCCTCGGCTTGCGCATTATG
65 TGTGGTAGCGGGATC-GGCAGCACGTAGAGGGGGATCGA-GCCGATCCCCAGCTTGCGCATTATA
* * * *
28525749 CCTCTCC-GGCTAGCTCAACGCCCGAACGCTCA
128 CCTCTCCAGTCGA-CTCAGCGCCCGAACACTCA
* * ** * *
28525781 TTTCGTGGGTTGACTTAGGCATACGAAGTTCATTCCCA-GTCTAAG-ATCAGACCGGACCGAGTG
1 TTTCGTGGGTTGGCTTAGGCATACGGAGTTCATT-CCATGTCTAAGCCCCAG-TCGGACCGAGGG
* * * ** * * ** * ** * * *
28525844 TTGCGGCAGCAGGATCGATAGCACGTAG-GAGGGGATTGGGTTGGTCCCTGGCTTACGCATTCTG
64 TTGTGGTAGCGGGATCGGCAGCACGTAGAG-GGGGATCGAGCCGATCCCCAGCTTGCGCATTATA
* * * * * *
28525908 CCTCT-CTGATCGGCTGAGCGCCCGCACGCTCG
128 CCTCTCCAG-TCGACTCAGCGCCCGAACACTCA
*
28525940 TTTCATGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGC
1 TTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGC
28525986 ATATGGAGTT
Statistics
Matches: 530, Mismatches: 129, Indels: 67
0.73 0.18 0.09
Matches are distributed among these distances:
157 5 0.01
158 184 0.35
159 204 0.38
160 7 0.01
161 1 0.00
164 2 0.00
166 2 0.00
168 1 0.00
170 4 0.01
171 51 0.10
172 69 0.13
ACGTcount: A:0.19, C:0.27, G:0.30, T:0.24
Consensus pattern (159 bp):
TTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCCCCAGTCGGACCGAGGGTT
GTGGTAGCGGGATCGGCAGCACGTAGAGGGGGATCGAGCCGATCCCCAGCTTGCGCATTATACCT
CTCCAGTCGACTCAGCGCCCGAACACTCA
Found at i:28525988 original size:26 final size:26
Alignment explanation
Indices: 28525958--28526010 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28525948 GTTGGCTTAG
28525958 GCATACGGAGTTCATT-CCATGTCTAA
1 GCATACGGAGTTCATTCCCA-GTCTAA
*
28525984 GCATATGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
28526010 G
1 G
28526011 ATCGAATCGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAGTCTAA
Found at i:28526681 original size:18 final size:18
Alignment explanation
Indices: 28526658--28526693 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
28526648 CTCGTTTCGT
28526658 GGGTTGGCTTAGGCATAC
1 GGGTTGGCTTAGGCATAC
*
28526676 GGGTTGGTTTAGGCATAC
1 GGGTTGGCTTAGGCATAC
28526694 AGTAGTCATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.14, G:0.39, T:0.31
Consensus pattern (18 bp):
GGGTTGGCTTAGGCATAC
Found at i:28528645 original size:26 final size:26
Alignment explanation
Indices: 28528603--28528659 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
28528593 GTTGACTTAG
*
28528603 GCATACGGAGGTTATCCCCAGTCTAA
1 GCATACGGAGCTTATCCCCAGTCTAA
28528629 GCATACGGA-CTTCATCCCCAGTCTAA
1 GCATACGGAGCTT-ATCCCCAGTCTAA
28528655 GCATA
1 GCATA
28528660 TAGAGTTCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 2 0.07
26 27 0.93
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (26 bp):
GCATACGGAGCTTATCCCCAGTCTAA
Found at i:28528668 original size:26 final size:26
Alignment explanation
Indices: 28528616--28528681 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
28528606 TACGGAGGTT
*
28528616 ATCCCCAGTCTAAGCATACGGACTTC
1 ATCCCCAGTCTAAGCATACAGACTTC
* *
28528642 ATCCCCAGTCTAAGCATATAGAGTTC
1 ATCCCCAGTCTAAGCATACAGACTTC
* *
28528668 ATTCCTAGTCTAAG
1 ATCCCCAGTCTAAG
28528682 ATTGGATCAG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (26 bp):
ATCCCCAGTCTAAGCATACAGACTTC
Found at i:28529170 original size:158 final size:157
Alignment explanation
Indices: 28528745--28529314 Score: 388
Period size: 158 Copynumber: 3.5 Consensus size: 157
28528735 GGCTTGCACT
* * * * *
28528745 TTCTGCCTCTCCGATCGACTGAGCGCCCGCACGCTCGTTTTGTGCGTTGGCTTAGGCATAGGGAG
1 TTCTGCCTCTCCGACCG-CTGAGCGCCCGCACGCTCGTTTTATGGGTTGGATTAGGCATACGGAG
* * * * * * * *
28528810 TTCATTCGATGTCTAAGCCCCAACCGGATCGAGGGTTGTGGCAGCGGGACCGACAGCACGTAGAG
65 TTCATTCCATGTCTAAGCCCTAGCCGAACCGAGGGTTGTGGCAGCAGGA-CGGCAGCACGCAGAG
* *
28528875 GGGGATCGGGCCGATCTCCGGCTTACGCA
129 GGGGACCGGGCCGATCTCCAGCTTACGCA
* * * * * * * * *
28528904 TTAC-GCCTCTTCGACCGGCTCAGCGACCGTACGCTCATTTCATGGG-TAGACTTATGCATACAG
1 TT-CTGCCTCTCCGACC-GCTGAGCGCCCGCACGCTCGTTTTATGGGTTGGA-TTAGGCATACGG
* * * ** ** *
28528967 AGTTAATTCCCA-GTCTAAG--ATGGGACC-AGACCGAGGAATACGGCAGCAGGATCGGCTGCAC
63 AGTTCATT-CCATGTCTAAGCCCT-AG-CCGA-ACCGAGGGTTGTGGCAGCAGGA-CGGCAGCAC
**
28529028 GCAG-GGGGGACCGGGCCGATC-CTCAGCTTGTGCA
123 GCAGAGGGGGACCGGGCCGATCTC-CAGCTTACGCA
* *
28529062 TTCTGCCTCTCCGGCCAGCTGAGCGCCCGCACGCTCGTTTTATGGGTTGGATTAGGCGTACGGAG
1 TTCTGCCTCTCCGACC-GCTGAGCGCCCGCACGCTCGTTTTATGGGTTGGATTAGGCATACGGAG
*
28529127 TTCACTCCATGTCTAAGCCCTAGCCGAACCGAGGGTTGTGGCAGCAGGACGGCAACGGGATTGGC
65 TTCATTCCATGTCTAAGCCCTAGCCGAACCGAGGGTTGTGGCAGCAGGACGG---C---A---GC
* ** * * *
28529192 AGCACATAGAGGGGGACTAGGCTGATCCCCGGCTTACGCA
121 A-CGC--AGAGGGGGACCGGGCCGATCTCCAGCTTACGCA
* * *
28529232 TTATGCCTCTCC-AGCCAGCTGAGCGCCCGCACGCTCGTTTCATGGGTT-GACTTCGGCATACGG
1 TTCTGCCTCTCCGA-CC-GCTGAGCGCCCGCACGCTCGTTTTATGGGTTGGA-TTAGGCATACGG
*
28529295 AGTTCA-TCCCTAGTCTAAGC
63 AGTTCATTCCAT-GTCTAAGC
28529315 ATACGAAGTT
Statistics
Matches: 311, Mismatches: 69, Indels: 51
0.72 0.16 0.12
Matches are distributed among these distances:
157 8 0.03
158 104 0.33
159 89 0.29
160 6 0.02
166 3 0.01
167 2 0.01
169 8 0.03
170 90 0.29
171 1 0.00
ACGTcount: A:0.19, C:0.29, G:0.30, T:0.22
Consensus pattern (157 bp):
TTCTGCCTCTCCGACCGCTGAGCGCCCGCACGCTCGTTTTATGGGTTGGATTAGGCATACGGAGT
TCATTCCATGTCTAAGCCCTAGCCGAACCGAGGGTTGTGGCAGCAGGACGGCAGCACGCAGAGGG
GGACCGGGCCGATCTCCAGCTTACGCA
Found at i:28530000 original size:26 final size:26
Alignment explanation
Indices: 28529970--28530022 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
28529960 GTTGACTTAG
28529970 GCATACGGAGTTCATCCCTAGTCTAA
1 GCATACGGAGTTCATCCCTAGTCTAA
*
28529996 GCATACGGAGTTCATTCCTAGTCTAA
1 GCATACGGAGTTCATCCCTAGTCTAA
28530022 G
1 G
28530023 ATTGAACCAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (26 bp):
GCATACGGAGTTCATCCCTAGTCTAA
Found at i:28530679 original size:26 final size:26
Alignment explanation
Indices: 28530642--28530694 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
28530632 GTTGACTTAG
28530642 GCATACGAAGTTCATCCCCAGTCTAA
1 GCATACGAAGTTCATCCCCAGTCTAA
* *
28530668 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACGAAGTTCATCCCCAGTCTAA
28530694 G
1 G
28530695 ATCGGACCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (26 bp):
GCATACGAAGTTCATCCCCAGTCTAA
Found at i:28531007 original size:671 final size:669
Alignment explanation
Indices: 28528706--28531168 Score: 2586
Period size: 671 Copynumber: 3.7 Consensus size: 669
28528696 AGGGTTACGA
* * * * * * * * * *
28528706 CAGCACGCAAAGGGACCAGGCAGGTCCCCGGCTTGCACTTTCTGCCTCTCC-GATCGACTGAGCG
1 CAGCACGTAAGGGGATCAGGCCGATCCCCGGCTTGCGCATTCTACCTCTCCAG-TCGGCTGAGCA
* * * *
28528770 CCCGCACGCTCGTTTTGTGCGTTGGCTTAGGCATAGGGAGTTCATTCGATGTCTAAGCCCCAACC
65 CCCGCACGCCCGTTTCGTGCGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCCCAGCC
* * * * * *
28528835 GGATCGAGGGTTGTGGCAGCGGGACCGACAGCACGTAGAGGGGGATCGGGCCGAT-CTCCGGCTT
130 GGACCGAGGGTTGTGGCAGCGGGACTGGCAGCACGCAGAGGGGGACCGGGCCGATCCT-CGACTT
* * *
28528899 ACGCATTACGCCTCTTCGACCGGCTCAGCGACCGTACGCTCATTTCATGGGTAGACTTATGCATA
194 ACGCATTATGCCTCTTCGACCGGCTCAGCGCCCGTACGCTCATTTCATGGGTTGACTTATGCATA
* ** * * ** * *
28528964 CAGAGTTAATTCCCAGTCTAAGATGGGACCAGACCGAGGAATACGGCAGCAGGATCGGCTGCACG
259 CAGAGTTCATTCCCAGTCTAAGATCAGACCGGATCGAGGGTTACGGCAGCAGGATCGACAGCACG
* * *
28529029 CAGGGGGGACCGGGCCGATCCTCAGCTTGTGCATTCTGCCTCTCCGGCCAGCTGAGCGCCCGCAC
324 CAGGGGGGACCGGGCTGATCCTCAGCTTGCGCATTCTGCCTCTCCGGTCAGCTGAGCGCCCGCAC
* ** * * * * *
28529094 GCTCGTTTTATGGGTTGGATTAGGCGTACGGAGTTCACTCCATGTCTAAG-CCCTAGCCGAACCG
389 ACTCGTTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCCCCT-GTCGGACCG
* * * * * * *
28529158 AGGGTTGTGGCAGCAGGA-CGGCAACGGGATTGGCAGCACATAGAGGGGGA-CTAGGCTGATCCC
453 AGGGTTGTGGCAGCAGGACCAGCAGCGGGATCGACAGCACACAGAAGGGGATC-GGGCTGATCCC
* * *
28529221 CGGCTTACGCATTATGCCTCTCCAGCCAGCTGAGCGCCCGCACGCTCGTTTCATGGGTTGACTTC
517 CGGCTTACGCATTATGCCTCTCCA-CCAGTTGAGCACCCGCACGCTCGTTTCATGGGTTGACTTA
* * *
28529286 GGCATACGGAGTTCATCCCTAGTCTAAGCATACGAAGTTCATTCTCAGTTTAAGATCGGACCAGA
581 GGCATACGGAGTTCATCCCTAGTCTAAGCATACGGAGTTCATTCCCAGTCTAAGATCGGACCAGA
* *
28529351 CCGACA-GTTACGGCAGCAAGATCGG
646 CCGA-AGGTTGC-GCAGCAGGATCGG
* * * *
28529376 CAGCACGTAGAGGGGATCAGGCCGATCCCCGGCTTACGTATTCTGCCTCTCCCA-TCGACTGAGC
1 CAGCACGTA-AGGGGATCAGGCCGATCCCCGGCTTGCGCATTCTACCTCT-CCAGTCGGCTGAGC
* * * *
28529440 GCCCGCACGCCCATTTCGTGGGTTGGCTTAGGCATAGGGTGTTCATTCCATGTCTAAGCCCCAGC
64 ACCCGCACGCCCGTTTCGTGCGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCCCAGC
* * * *
28529505 CGGACCGACGGTTGTGGCAGCGGGACCT-GCAGCATGCAGA--GGGATCGGGCCGATCC-CCAGC
129 CGGACCGAGGGTTGTGGCAGCGGGA-CTGGCAGCACGCAGAGGGGGACCGGGCCGATCCTCGA-C
* ** ** * ** * ***
28529566 TTGCGCATTATTACTCTTCGGTC-TCTCAATGCCCGTACGTTCATTTCGCAGGTTGACTTATGCA
192 TTACGCATTATGCCTCTTCGACCGGCTCAGCGCCCGTACGCTCATTTCATGGGTTGACTTATGCA
* * ** *
28529630 TACAGAGTTCATTCCCAGTGTAAGATCAGACAGGA-CTGAGGGTTGTGGCAGTAGGATCGACAGC
257 TACAGAGTTCATTCCCAGTCTAAGATCAGACCGGATC-GAGGGTTACGGCAGCAGGATCGACAGC
* * * * * *
28529694 ACGCAGTGGGGGATCGGGCTGATCC-CTGGCTTGCACATTCTGCCTCTCTGGTTAGCTGAGCGCT
321 ACGCAG-GGGGGACCGGGCTGATCCTC-AGCTTGCGCATTCTGCCTCTCCGGTCAGCTGAGCGCC
* * * *
28529758 CGCGCACTCGATTCGTGGGTCGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCCCCAGTCGG
384 CGCACACTCGTTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCCCCTGTCGG
* * * ** * * *
28529823 ACCGAGGGTTGTGGCAGCAGGACTAGCAGTGGGATCGACGGCATGCAAAAAGGGATCGGGCTAAT
449 ACCGAGGGTTGTGGCAGCAGGACCAGCAGCGGGATCGACAGCACACAGAAGGGGATCGGGCTGAT
* * * * *
28529888 CCCCGACTTGCGCATTATGCCTCTCCAACCGGCCTCTCCGGCTGACTGAGCGCTCGCACGCTCAT
514 CCCCGGCTTACGCATTATGCCTCTCC-ACCAG--T-T---G-AG-C--A-C-C-CGCACGCTCGT
*
28529953 TTCATGGGTTGACTTAGGCATACGGAGTTCATCCCTAGTCTAAGCATACGGAGTTCATTCCTAGT
565 TTCATGGGTTGACTTAGGCATACGGAGTTCATCCCTAGTCTAAGCATACGGAGTTCATTCCCAGT
* * * *
28530018 CTAAGATTGAACCAGACCGAGGGTTGCGTCAGTAGGATCGG
630 CTAAGATCGGACCAGACCGAAGGTTGCG-CAGCAGGATCGG
* * * * * *
28530059 TAGCACGTAAGGGGGACCGGGCTGATCCCCGGCTTGCGCATTCTACC-CTTCCAGCCGGCTGAGT
1 CAGCACGTAA-GGGGATCAGGCCGATCCCCGGCTTGCGCATTCTACCTC-TCCAGTCGGCTGAGC
*
28530123 ACCCGCACACCCGTTTCGTGCGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCCCAGC
64 ACCCGCACGCCCGTTTCGTGCGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCCCAGC
* * * * * * * *
28530188 CGGACCGAGGGTTATGACAGCGAGA-TAGGCAGTACGTAGAGGGGGGCCGGGCCGATCCCCGGCT
129 CGGACCGAGGGTTGTGGCAGCGGGACT-GGCAGCACGCAGAGGGGGACCGGGCCGATCCTCGACT
* * * ** * * * * *
28530252 TACGCATTATGCCTCTTCTACCGGCTTAGAGCTTGAACGCTCGTTTCGTTGGTTGACTTTTGCAT
193 TACGCATTATGCCTCTTCGACCGGCTCAGCGCCCGTACGCTCATTTCATGGGTTGACTTATGCAT
* * ** * * ** *
28530317 ACGGAGTTCATTGCCAGTCTAAGATCAGATGGGATCAACGGTTACGATAGCAGGATCTACAGCAC
258 ACAGAGTTCATTCCCAGTCTAAGATCAGACCGGATCGAGGGTTACGGCAGCAGGATCGACAGCAC
* * * * * * * *
28530382 GCAGGGAGGACCGGACTGATCCTCGGCTTACGCATTCTGCCTCTCCAGTCGGCCGAGCGCCCTCA
323 GCAGGGGGGACCGGGCTGATCCTCAGCTTGCGCATTCTGCCTCTCCGGTCAGCTGAGCGCCCGCA
* * *
28530447 CACTCGTTTCGTGGGTTGGCTTAGGTATACAGAGTTCATTCCATGTCTAAGCCCCTGTCGGACTG
388 CACTCGTTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCCCCTGTCGGACCG
* *
28530512 AGGGTTGGGGTAGCAGGACCAGCAGCGGGATCGACAGCACACAGAAGGGGATCGGGCTGATCCCC
453 AGGGTTGTGGCAGCAGGACCAGCAGCGGGATCGACAGCACACAGAAGGGGATCGGGCTGATCCCC
* *
28530577 GGCTTACGCATTATGCCTCTCCGACCAGTTGAGCACCCGCTCGCTCGTTTCTTGGGTTGACTTAG
518 GGCTTACGCATTATGCCTCTCC-ACCAGTTGAGCACCCGCACGCTCGTTTCATGGGTTGACTTAG
* * * *
28530642 GCATACGAAGTTCATCCCCAGTCTAAGCATACGGAGTTCATTCCCAGTCTAAGATCGGACCGGAT
582 GCATACGGAGTTCATCCCTAGTCTAAGCATACGGAGTTCATTCCCAGTCTAAGATCGGACCAGAC
**
28530707 CGAAGGTTGCAGCAGCAGGATCAA
647 CGAAGGTTGC-GCAGCAGGATCGG
* ** * * *
28530731 CGGCACCCAAGGGGATCAAGCCGATCCCCGGCTTGTGCATTCTACCTCTCCAGTCGGTTGAGCAC
1 CAGCACGTAAGGGGATCAGGCCGATCCCCGGCTTGCGCATTCTACCTCTCCAGTCGGCTGAGCAC
** * * * **
28530796 CCGCACGCTTGTTTCATGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCGAAGCCCCAGCTA
66 CCGCACGCCCGTTTCGTGCGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCCCAGCCG
* * * * *
28530861 GACCGAAGGTTGTGGCAGCAGGATTGGTAGCACGCAGAGGGGGACCGGGCCGATCCTCGACTTGC
131 GACCGAGGGTTGTGGCAGCGGGACTGGCAGCACGCAGAGGGGGACCGGGCCGATCCTCGACTTAC
* * ** * * *
28530926 GCATTATGCTTCTTTGGTCGGCTCAGCCCCCGCACACTCATTTCATGGGTTGACTTATGCATAC-
196 GCATTATGCCTCTTCGACCGGCTCAGCGCCCGTACGCTCATTTCATGGGTTGACTTATGCATACA
* * * * * *
28530990 GAAGTTCATTCCCAGTCTAAGATCGGACC-GATCGAGGGTTGCGGCAGAAGGATTGATAGCATGC
261 G-AGTTCATTCCCAGTCTAAGATCAGACCGGATCGAGGGTTACGGCAGCAGGATCGACAGCACGC
* * * * * * *
28531054 CGGGGGGACCAGGCTGATCCTCAGCTTGTGCATTCTACCTCTCCGGTCGGCTGAGCACCCGCACG
325 AGGGGGGACCGGGCTGATCCTCAGCTTGCGCATTCTGCCTCTCCGGTCAGCTGAGCGCCCGCACA
* * *
28531119 CTCATTTCGTGGGTTGGCTTAGGCATATGGAGTTCATTCCTTGTCTAAGC
390 CTCGTTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGC
28531169 ATACAGAGTT
Statistics
Matches: 1459, Mismatches: 291, Indels: 86
0.79 0.16 0.05
Matches are distributed among these distances:
667 1 0.00
668 89 0.06
669 149 0.10
670 187 0.13
671 358 0.25
672 112 0.08
673 3 0.00
674 1 0.00
675 1 0.00
676 1 0.00
677 2 0.00
678 2 0.00
679 1 0.00
681 2 0.00
682 8 0.01
683 239 0.16
685 216 0.15
686 86 0.06
687 1 0.00
ACGTcount: A:0.20, C:0.28, G:0.29, T:0.23
Consensus pattern (669 bp):
CAGCACGTAAGGGGATCAGGCCGATCCCCGGCTTGCGCATTCTACCTCTCCAGTCGGCTGAGCAC
CCGCACGCCCGTTTCGTGCGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCCCAGCCG
GACCGAGGGTTGTGGCAGCGGGACTGGCAGCACGCAGAGGGGGACCGGGCCGATCCTCGACTTAC
GCATTATGCCTCTTCGACCGGCTCAGCGCCCGTACGCTCATTTCATGGGTTGACTTATGCATACA
GAGTTCATTCCCAGTCTAAGATCAGACCGGATCGAGGGTTACGGCAGCAGGATCGACAGCACGCA
GGGGGGACCGGGCTGATCCTCAGCTTGCGCATTCTGCCTCTCCGGTCAGCTGAGCGCCCGCACAC
TCGTTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCCCCTGTCGGACCGAGG
GTTGTGGCAGCAGGACCAGCAGCGGGATCGACAGCACACAGAAGGGGATCGGGCTGATCCCCGGC
TTACGCATTATGCCTCTCCACCAGTTGAGCACCCGCACGCTCGTTTCATGGGTTGACTTAGGCAT
ACGGAGTTCATCCCTAGTCTAAGCATACGGAGTTCATTCCCAGTCTAAGATCGGACCAGACCGAA
GGTTGCGCAGCAGGATCGG
Found at i:28531116 original size:157 final size:155
Alignment explanation
Indices: 28530668--28531167 Score: 491
Period size: 157 Copynumber: 3.2 Consensus size: 155
28530658 CCCAGTCTAA
* ** **
28530668 GCATACGGAGTTCATTCCCAGTCTAAGATCGGACCGGATCGAAGGTTGCAGCAGCAGGATCAACG
1 GCATACGGAGTTCATTCCCAGTCTAAGATCGGACC-GATCGAAGGTTGCGGCAGCAGGATTGATA
* ** * * * * *
28530733 GCACCCAAGGGGATCAAGCCGATCCCCGGCTTGTGCATTCTACCTCTCCAGTCGGTTGAGCACCC
65 GCAGCCGGGGGGACCAGGCCGATCCTC-GCTTGTGCATTCTACCTCTCCGGTCGGCTGAGCACCC
**
28530798 GCACGCTTGTTTCATGGGTTGGCTTAG
129 GCACGCTCATTTCATGGGTTGGCTTAG
* * * ** * * * *
28530825 GCATAGGGAGTTCATT-CCATGTCGAAG-CCCCAGCTAGACCGAAGGTTGTGGCAGCAGGATTGG
1 GCATACGGAGTTCATTCCCA-GTCTAAGATCGGA-C-CGATCGAAGGTTGCGGCAGCAGGATTGA
* * * * * * ** *
28530888 TAGCACGCAGAGGGGGACCGGGCCGATCCTCGACTTGCGCATTATGCTTCTTTGGTCGGCTCAGC
63 TAGCA-GCCG-GGGGGACCAGGCCGATCCTCG-CTTGTGCATTCTACCTCTCCGGTCGGCTGAGC
* * * *
28530953 CCCCGCACACTCATTTCATGGGTTGACTTAT
125 ACCCGCACGCTCATTTCATGGGTTGGCTTAG
* * *
28530984 GCATACGAAGTTCATTCCCAGTCTAAGATCGGACCGATCGAGGGTTGCGGCAGAAGGATTGATAG
1 GCATACGGAGTTCATTCCCAGTCTAAGATCGGACCGATCGAAGGTTGCGGCAGCAGGATTGATAG
*
28531049 CATGCCGGGGGGACCAGGCTGATCCTCAGCTTGTGCATTCTACCTCTCCGGTCGGCTGAGCACCC
66 CA-GCCGGGGGGACCAGGCCGATCCTC-GCTTGTGCATTCTACCTCTCCGGTCGGCTGAGCACCC
*
28531114 GCACGCTCATTTCGTGGGTTGGCTTAG
129 GCACGCTCATTTCATGGGTTGGCTTAG
* **
28531141 GCATATGGAGTTCATTCCTTGTCTAAG
1 GCATACGGAGTTCATTCCCAGTCTAAG
28531168 CATACAGAGT
Statistics
Matches: 265, Mismatches: 69, Indels: 18
0.75 0.20 0.05
Matches are distributed among these distances:
156 5 0.02
157 138 0.52
158 33 0.12
159 84 0.32
160 5 0.02
ACGTcount: A:0.20, C:0.27, G:0.29, T:0.24
Consensus pattern (155 bp):
GCATACGGAGTTCATTCCCAGTCTAAGATCGGACCGATCGAAGGTTGCGGCAGCAGGATTGATAG
CAGCCGGGGGGACCAGGCCGATCCTCGCTTGTGCATTCTACCTCTCCGGTCGGCTGAGCACCCGC
ACGCTCATTTCATGGGTTGGCTTAG
Found at i:28533046 original size:157 final size:156
Alignment explanation
Indices: 28532585--28533069 Score: 465
Period size: 159 Copynumber: 3.1 Consensus size: 156
28532575 CTAAGCGTAT
* *
28532585 GGAGTTCATTCCCAGTCTAAGATCGGATCAGATCGATGGTTGCGATAGCAGGATCGCCAGCACGC
1 GGAGTTCATTCCCAGTCTAAGATCGGATCAGATCGAGGGTTGC-ATAGCAGGATCGACAGCACGC
** ** * * * *
28532650 AGGGGGGATTGGGTCGATCCCTAGCTTGCT-CATTCTGCCTCTCCGATCGGCTGAGCGCCCGTAT
65 AGGGGGGA-CCGGTCGATCCCCGGCTTG-TGCATTCTGCCTCTTCGGTCGGCTGAGCGCCAGTAC
* * *
28532714 GCCCGTTTCATGGGTTGGTTTAGGCATAG
128 GCTCGTTTCATGGGTTGGCTTAGGCATAC
* ** * ** * * *
28532743 GGAGTTCATT-CCATGTCTAAG-CCCCAGCCAGATCGAGGGTTGTGGTAACGGGA-CTGGCAGCA
1 GGAGTTCATTCCCA-GTCTAAGATCGGA-TCAGATCGAGGGTTG-CATAGCAGGATC-GACAGCA
* * * * * * * * *
28532805 CGTAAAGGGGGACCGGGCCGATCCTCGACTTGCGCATTATGCCTCTTCGGTCGGCTCAGCACCAG
62 CG-CAGGGGGGACC-GGTCGATCCCCGGCTTGTGCATTCTGCCTCTTCGGTCGGCTGAGCGCCAG
* * *
28532870 TACGCTCATTTCATGGGTTGACTTATGCATAC
125 TACGCTCGTTTCATGGGTTGGCTTAGGCATAC
* * *
28532902 GGAGTTCATTCCCAGTCTAAGATCGGATCAGACCGAGGGTTGCACAGCAGGATCGACAGCACACA
1 GGAGTTCATTCCCAGTCTAAGATCGGATCAGATCGAGGGTTGCATAGCAGGATCGACAGCACGCA
* * * * *
28532967 GGGGGGGACCAGTCGATCCCCGGCTTGTGCATTCTGCCTCTTCGGCCGGTTGAGCGCCTGCACGC
66 -GGGGGGACCGGTCGATCCCCGGCTTGTGCATTCTGCCTCTTCGGTCGGCTGAGCGCCAGTACGC
*
28533032 TCGTTTCATGGGTTGGCTTAGGCATAT
130 TCGTTTCATGGGTTGGCTTAGGCATAC
28533059 GGAGTTCATTC
1 GGAGTTCATTC
28533070 AATGTATAAG
Statistics
Matches: 253, Mismatches: 63, Indels: 23
0.75 0.19 0.07
Matches are distributed among these distances:
157 84 0.33
158 64 0.25
159 100 0.40
160 5 0.02
ACGTcount: A:0.19, C:0.26, G:0.30, T:0.25
Consensus pattern (156 bp):
GGAGTTCATTCCCAGTCTAAGATCGGATCAGATCGAGGGTTGCATAGCAGGATCGACAGCACGCA
GGGGGGACCGGTCGATCCCCGGCTTGTGCATTCTGCCTCTTCGGTCGGCTGAGCGCCAGTACGCT
CGTTTCATGGGTTGGCTTAGGCATAC
Found at i:28533919 original size:159 final size:153
Alignment explanation
Indices: 28533541--28533939 Score: 354
Period size: 159 Copynumber: 2.5 Consensus size: 153
28533531 TAGTCTAAGT
* * *
28533541 ATACCGAGTTAATTCCCAGTCTAAGATCGGGTCGGA-TGGAGGGTTAC-AGCAGCAGGATCGACA
1 ATACGGAGTTCATTCCCAGTCTAAGATC-AGTCGGACT--AGGGTT-CGA-CAG-AGGATCGACA
* * * * * * *
28533604 ACACGTAGGGGGGACCGGGCCAATCCTCGACTTGCACATTCTGCCTCTCCTGCCGCTGAGTGCCC
60 GCACGCAGGGGGGACCGGGCCAAACCCCGACTTGCACATTATGCCTCTCCGGCCGCTCAGTGCCC
** * **
28533669 GTACGCCCGTTTCATGTGTTGGCTTAGGC
125 ACACGCCCGTTTCATGGGTTGAATTAGGC
* * ** ** *
28533698 GTAGGGAGTTCATT-CCATGTCTAAGCCCCAGTCGGACTGAGGGTTCTGGTAGAGGGACCGACAG
1 ATACGGAGTTCATTCCCA-GTCTAAG-ATCAGTCGGACT-AGGGTTC-GACAGA-GGATCGACAG
* ** * *
28533762 CACGCAGATGGGGACCGGGCCAAACCCCGACTTGCACATTATGGGTTTTCGGCTCGCTCAGTGCC
61 CACGCAG-GGGGGACCGGGCCAAACCCCGACTTGCACATTATGCCTCTCCGGC-CGCTCAGTGCC
*
28533827 CACACGCTCGTTTCATGGGTTGAATTAGGC
124 CACACGCCCGTTTCATGGGTTGAATTAGGC
28533857 ATACGGAGTTCATTCCCAGTCTAAGATCAGATCGGACCTAGGGTTGCGACAGTAGGATCGACAGC
1 ATACGGAGTTCATTCCCAGTCTAAGATCAG-TCGGA-CTAGGGTT-CGACAG-AGGATCGACAGC
*
28533922 ACGCAGGGGAGGATCGGG
62 ACGCAGGGG-GGACCGGG
28533940 GTGATCTCTG
Statistics
Matches: 191, Mismatches: 37, Indels: 26
0.75 0.15 0.10
Matches are distributed among these distances:
156 5 0.03
157 46 0.24
158 43 0.23
159 90 0.47
160 7 0.04
ACGTcount: A:0.21, C:0.26, G:0.31, T:0.22
Consensus pattern (153 bp):
ATACGGAGTTCATTCCCAGTCTAAGATCAGTCGGACTAGGGTTCGACAGAGGATCGACAGCACGC
AGGGGGGACCGGGCCAAACCCCGACTTGCACATTATGCCTCTCCGGCCGCTCAGTGCCCACACGC
CCGTTTCATGGGTTGAATTAGGC
Found at i:28534045 original size:26 final size:26
Alignment explanation
Indices: 28534015--28534067 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
28534005 GTTTGCTTAG
* *
28534015 GCATACGGAGTTTATT-CCATGTCTAA
1 GCATACAGAGTTCATTCCCA-GTCTAA
28534041 GCATACAGAGTTCATTCCCAGTCTAA
1 GCATACAGAGTTCATTCCCAGTCTAA
28534067 G
1 G
28534068 ATCAGATCGG
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:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (26 bp):
GCATACAGAGTTCATTCCCAGTCTAA
Found at i:28540580 original size:26 final size:26
Alignment explanation
Indices: 28540550--28540602 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28540540 GTTAGCTTAG
*
28540550 GCATATGGAGTTCATT-CCATGTCTAA
1 GCATACGGAGTTCATTCCCA-GTCTAA
28540576 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
28540602 G
1 G
28540603 ATCAAACCAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAGTCTAA
Found at i:28540965 original size:26 final size:26
Alignment explanation
Indices: 28540929--28540981 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28540919 GTTGACTTAG
28540929 GCATACAGAGTTCATCTCC-AGTCTAA
1 GCATACAGAGTTCAT-TCCAAGTCTAA
*
28540955 GCATACGGAGTTCATTCCAAGTCTAA
1 GCATACAGAGTTCATTCCAAGTCTAA
28540981 G
1 G
28540982 ATCAGACTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 3 0.12
26 22 0.88
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (26 bp):
GCATACAGAGTTCATTCCAAGTCTAA
Found at i:28541317 original size:159 final size:156
Alignment explanation
Indices: 28540955--28541318 Score: 365
Period size: 159 Copynumber: 2.3 Consensus size: 156
28540945 TCCAGTCTAA
* * *
28540955 GCATACGGAGTTCATTCCAAGTCTAAGATCAGACTAGACTGAGGGTTGCGACAGCAAGATCGACA
1 GCATACAGAGTTCATTCC-AGTCTAAGATCAGAC-AGACTGAGGGTTGCGACAACAAGACCGACA
* * * * *
28541020 ACACGCAGGGGGGATCGGGCCTATCCTCGGCTTACGCATTCTGCCTCTCCGACCGACTGAGCGCC
64 ACACACAGGGGGGATCGGGCCGATCCTCGACTTACGCATTATGCCTCTCCGACCGACTCAGCGCC
*
28541085 CGCACGCCCGTTTCGTGGGTTAGCTTAG
129 CGCACGCCCATTTCGTGGGTTAGCTTAG
** * * * ** *
28541113 GCATA-AGGAGTTCATTCCATGTCTAAGCCCCAGCCAGACTGAGGGTTGTGGCAACGGGACCGAT
1 GCATACA-GAGTTCATTCCA-GTCTAAG-ATCAGACAGACTGAGGGTTGCGACAACAAGACCGAC
* * * * *
28541177 AGAC-CACAGAGGGGGATTGGGTCGATCCTCGACTTACGCATTATGCCTCTTCGACCGGCTCAGT
63 A-ACACACAG-GGGGGATCGGGCCGATCCTCGACTTACGCATTATGCCTCTCCGACCGACTCAGC
* ** * *
28541241 GCCTGTGCGCTCATTTCGTGGGTT-GACTTAT
126 GCCCGCACGCCCATTTCGTGGGTTAG-CTTAG
*
28541272 GCATACAGAGTTCATTCCTAGTCTAAGATCAGATCAGACCGAGGGTT
1 GCATACAGAGTTCATTCC-AGTCTAAGATCAGA-CAGACTGAGGGTT
28541319 ACGGTAGTAG
Statistics
Matches: 166, Mismatches: 31, Indels: 17
0.78 0.14 0.08
Matches are distributed among these distances:
157 1 0.01
158 54 0.33
159 109 0.66
160 2 0.01
ACGTcount: A:0.22, C:0.27, G:0.28, T:0.23
Consensus pattern (156 bp):
GCATACAGAGTTCATTCCAGTCTAAGATCAGACAGACTGAGGGTTGCGACAACAAGACCGACAAC
ACACAGGGGGGATCGGGCCGATCCTCGACTTACGCATTATGCCTCTCCGACCGACTCAGCGCCCG
CACGCCCATTTCGTGGGTTAGCTTAG
Found at i:28541466 original size:26 final size:26
Alignment explanation
Indices: 28541430--28541482 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
28541420 GTTGGCTTAG
28541430 GCATATGGAGTTCATTC-CATGTCTAA
1 GCATATGGAGTTCATTCACA-GTCTAA
28541456 GCATATGGAGTTCATTCACAGTCTAA
1 GCATATGGAGTTCATTCACAGTCTAA
28541482 G
1 G
28541483 ATTTTGAGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 24 0.92
27 2 0.08
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (26 bp):
GCATATGGAGTTCATTCACAGTCTAA
Found at i:28542187 original size:25 final size:26
Alignment explanation
Indices: 28542152--28542203 Score: 88
Period size: 25 Copynumber: 2.0 Consensus size: 26
28542142 GTTGACTTAG
*
28542152 GCATACGGAGTTCA-TCCCAGTCTAA
1 GCATACAGAGTTCATTCCCAGTCTAA
28542177 GCATACAGAGTTCATTCCCAGTCTAA
1 GCATACAGAGTTCATTCCCAGTCTAA
28542203 G
1 G
28542204 ATTAGACCGA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 13 0.52
26 12 0.48
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (26 bp):
GCATACAGAGTTCATTCCCAGTCTAA
Found at i:28542525 original size:26 final size:26
Alignment explanation
Indices: 28542495--28542547 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
28542485 GTTGGCTTAG
28542495 GCATACGGAGTTCATT-CCATGTCTAA
1 GCATACGGAGTTCATTCCCA-GTCTAA
28542521 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
28542547 G
1 G
28542548 ATCGGATCGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 23 0.88
27 3 0.12
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAGTCTAA
Found at i:28542761 original size:354 final size:344
Alignment explanation
Indices: 28542080--28542876 Score: 795
Period size: 354 Copynumber: 2.3 Consensus size: 344
28542070 CCACCCGTTT
* * * * * * * *
28542080 GATCCCCGGCTTGCGCA-TCTTGTCTCTCTGGTCGGCTGAGCGGCCGCACGCTCATTTCGTTGGT
1 GATCCCTGGCTTGTGCATTC-TGCCTCTCTGATCGACTGAGCGCCCGCACGCTCATTTCATGGGT
*
28542144 TGACTTAGGCATACGGAGTTCATCCCAGTCTAAGCATACAGAGTTCATTCCCAGTCTAAGATTAG
65 TGACTTAGGCATACGGAGTTCATCCCAGTCTAAGCATACAGAGTTCATTCCCAGTCTAAGATCAG
*
28542209 ACCGAACTGAGGGTTGCGGCAGCAGGATCGACAGCATGTAGAGGGGGATCAGACCGATCCCCGGG
130 ACCGAACTGAGGGTTGCGGCAGCAGGATCGACAACATGTAGAGGGGGATCAGACCGATCCCCGGG
* * ** * *
28542274 CTTGCACATTATGCCTCTCCGACTGGCTCAGTGCCCGCACGCTCGTTTCGTGGGTTGACTTAGGC
195 CTTGCACATTATACCTCTCCGACTGGCTAAGCACCCGCACGCCCATTTCGTGGGTTGACTTAGGC
* * * ** *
28542339 ATACGAAGTTCATTCCTAGTTTAAGATCAGACCAGACCGAGGGTTGCGGCAACAGGATTGATAGC
260 ATACGAAGTTCATTCATAGTCTAAGACCAGACCAGACCGAGGGTTGCGGCAACAGGACCGACAGC
28542404 ACGCAGA-AGGGACCAGGTC
325 ACGCAGAGAGGGACCAGGTC
*
28542423 GATCCCTGGCTTGTGCATTCTGCCTCTCTGATCGATTGAGCGCCCGCACGCTCATTTCATGGGTT
1 GATCCCTGGCTTGTGCATTCTGCCTCTCTGATCGACTGAGCGCCCGCACGCTCATTTCATGGGTT
* * * *
28542488 GGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCATACGGAGTTCATTCCCAGTCTAAGATCGG
66 GACTTAGGCATACGGAGTTCATCCCA-GTCTAAGCATACAGAGTTCATTCCCAGTCTAAGATCAG
* *
28542553 ATCGGA-TCGAGGGTTGCGATAGTAGGACCAGCAGTAGGATCGACAACATGTAG-GGGGGA-CAA
130 ACCGAACT-GAGGGTTGC-------GG--CAGC---AGGATCGACAACATGTAGAGGGGGATC-A
** * * ** * *
28542615 GGTCGATCCCC-GGCTTGCGCATTCTACCTCTTTGGCTGGCTAAGCACCTGCACGCCCATTTCGT
181 GACCGATCCCCGGGCTTGCACATTATACCTCTCCGACTGGCTAAGCACCCGCACGCCCATTTCGT
* * * * * * *
28542679 GGGTTGGCTTAGGCATAGGGAGTTCATTCA-ATGTCTAAGCCCCAG-CCGGATCGAGGGTTGTGG
246 GGGTTGACTTAGGCATACGAAGTTCATTCATA-GTCTAAG-ACCAGACCAGACCGAGGGTTGCGG
* * **
28542742 CAGC-GAGACCGACAGCACGCAGAGGGGGACTGGGTC
309 CAACAG-GACCGACAGCACGCAGAGAGGGACCAGGTC
* * * * * * * ** *
28542778 GATCCCTGGCTTGTGCATTATGCCTCTCTG-GCAGGCTCAGCACCCGAATGCTTGTTTCGTGGGT
1 GATCCCTGGCTTGTGCATTCTGCCTCTCTGATC-GACTGAGCGCCCGCACGCTCATTTCATGGGT
* *
28542842 TGACTTAGGCATACGAAGTTCATTTCCAGTCTAAG
65 TGACTTAGGCATACGGAGTTCA-TCCCAGTCTAAG
28542877 ATCAAACCAC
Statistics
Matches: 371, Mismatches: 61, Indels: 32
0.80 0.13 0.07
Matches are distributed among these distances:
343 78 0.21
344 50 0.13
351 2 0.01
353 6 0.02
354 107 0.29
355 106 0.29
356 22 0.06
ACGTcount: A:0.21, C:0.26, G:0.29, T:0.25
Consensus pattern (344 bp):
GATCCCTGGCTTGTGCATTCTGCCTCTCTGATCGACTGAGCGCCCGCACGCTCATTTCATGGGTT
GACTTAGGCATACGGAGTTCATCCCAGTCTAAGCATACAGAGTTCATTCCCAGTCTAAGATCAGA
CCGAACTGAGGGTTGCGGCAGCAGGATCGACAACATGTAGAGGGGGATCAGACCGATCCCCGGGC
TTGCACATTATACCTCTCCGACTGGCTAAGCACCCGCACGCCCATTTCGTGGGTTGACTTAGGCA
TACGAAGTTCATTCATAGTCTAAGACCAGACCAGACCGAGGGTTGCGGCAACAGGACCGACAGCA
CGCAGAGAGGGACCAGGTC
Found at i:28543052 original size:158 final size:160
Alignment explanation
Indices: 28542673--28543055 Score: 415
Period size: 158 Copynumber: 2.4 Consensus size: 160
28542663 TGCACGCCCA
* * * *
28542673 TTTCGTGGGTTGGCTTAGGCATAGGGAGTTCATTCAATGTCTAAGCCCCAGCCGGA-TCGAGGGT
1 TTTCGTGGGTTGGCTTAGGCATACGAAGTTCATTCCATGTCTAAGCCCCAACCGGACTCGAGGGT
* * * * *
28542737 TGTGGCAGCGAGACCGACAGCACGCAGAGGGGGACTGGGTCGATCCCTGGCTTGTGCATTATGCC
66 TGCGACAGCAAGACCGACAGCACGCAGAGGGGGACTGGGTCGATCCCTAGCTTGCGCATTATGCC
** * *
28542802 TCTCTGGCAGGCTCAGCACCCGAATGCTTG
131 TCTCCAGCAGGCTCAGCACCCGAACGCTCG
* ** *
28542832 TTTCGTGGGTTGACTTAGGCATACGAAGTTCATTTCCA-GTCTAAGATCAAACC--ACATCGAGG
1 TTTCGTGGGTTGGCTTAGGCATACGAAGTTCA-TTCCATGTCTAAGCCCCAACCGGAC-TCGAGG
* * * * *
28542894 GTTGCGATAGCAAGATCGATAGCACGCA-AGGGGGACTGGGTCGGTCCAC-AGCTTGCGCATTTT
64 GTTGCGACAGCAAGACCGACAGCACGCAGAGGGGGACTGGGTCGATCC-CTAGCTTGCGCATTAT
* ** *
28542957 GCCTCTCCAGCCGGC-CGAG-TGCCTACACGCTCG
128 GCCTCTCCAGCAGGCTC-AGCACCCGA-ACGCTCG
*
28542990 TTTCATGGGTTGGCTTAGGCATACGAAGTTCATTCCATGTCTAAGCCCCAACCGGACT-GAGGGT
1 TTTCGTGGGTTGGCTTAGGCATACGAAGTTCATTCCATGTCTAAGCCCCAACCGGACTCGAGGGT
28543054 TG
66 TG
28543056 TGGCAGTAGG
Statistics
Matches: 184, Mismatches: 31, Indels: 19
0.79 0.13 0.08
Matches are distributed among these distances:
157 10 0.05
158 98 0.53
159 70 0.38
160 6 0.03
ACGTcount: A:0.20, C:0.25, G:0.30, T:0.24
Consensus pattern (160 bp):
TTTCGTGGGTTGGCTTAGGCATACGAAGTTCATTCCATGTCTAAGCCCCAACCGGACTCGAGGGT
TGCGACAGCAAGACCGACAGCACGCAGAGGGGGACTGGGTCGATCCCTAGCTTGCGCATTATGCC
TCTCCAGCAGGCTCAGCACCCGAACGCTCG
Found at i:28543239 original size:26 final size:25
Alignment explanation
Indices: 28543192--28543243 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
28543182 GTTGACTTAG
28543192 GCATACGAGTTCATCCCCAGTCTAA
1 GCATACGAGTTCATCCCCAGTCTAA
* * *
28543217 GCATACGGAGTTTATTCCTAGTCTAA
1 GCATAC-GAGTTCATCCCCAGTCTAA
28543243 G
1 G
28543244 ATCGGACTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (25 bp):
GCATACGAGTTCATCCCCAGTCTAA
Found at i:28543729 original size:26 final size:26
Alignment explanation
Indices: 28543691--28543743 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
28543681 GTTGGCTTAG
*
28543691 GCATACAGTGTTCATT-CCATGTCTAA
1 GCATACAGAGTTCATTCCCA-GTCTAA
*
28543717 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACAGAGTTCATTCCCAGTCTAA
28543743 G
1 G
28543744 ATCAGACTAG
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:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (26 bp):
GCATACAGAGTTCATTCCCAGTCTAA
Found at i:28543758 original size:183 final size:190
Alignment explanation
Indices: 28543534--28543893 Score: 459
Period size: 196 Copynumber: 1.9 Consensus size: 190
28543524 GTTGACTTTG
** * *
28543534 GCATACGAAGTTCATTCCCAGTCTAAGATTGGATCAGACTGAGGGTTGCGGTAGC-A-AG-ATCA
1 GCATACGAAGTTCATTCCCAGTCTAAGATCAGATCAGACTGAGGGTTGCGGCAGCGACAGTAACA
* * **
28543596 -A-CAG-CACGTAGG-GGGATCGGGTCAG-TCCCCAGCTTGCGCATTCTGCCTCTCTGGTCGACT
66 GATCAGACACGTAGGAGGGACCAGG-CAGATCCCCAGCTTGCGCATTCTGCCTCTCTGACCGACT
* * *
28543656 GAGCGCCCGCACGCTCGTTTTGTGGGTTGGCTTAGGCATACAGTGTTCATTCCATGTCTAA
130 GAGCGCCCGCACGCTCGTGTCGTGGGTTGACTTAGGCATACAGTGTTCATTCCATGTCTAA
*
28543717 GCATACGGAGTTCATTCCCAGTCTAAGATCAGA-CTAGACTGAGGGTTGCGGCAGCAGGACCAGT
1 GCATACGAAGTTCATTCCCAGTCTAAGATCAGATC-AGACTGAGGGTTGCGGCAGC--GA-CAGT
*
28543781 AACAGGATCAGCAACACGTAGGAGGGACCAGGCCGATCCCCAGCTTGCGCATTCTGCCTCTCTGA
62 AACA-GATCAG--ACACGTAGGAGGGACCAGGCAGATCCCCAGCTTGCGCATTCTGCCTCTCTGA
*
28543846 CCGATTGAGCGCCCGCACGCTCGTGTCGTGGGTTGACTTAGGCATACA
124 CCGACTGAGCGCCCGCACGCTCGTGTCGTGGGTTGACTTAGGCATACA
28543894 AAGTTCATCC
Statistics
Matches: 148, Mismatches: 14, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
182 1 0.01
183 49 0.33
186 1 0.01
188 2 0.01
189 3 0.02
191 1 0.01
192 3 0.02
195 10 0.07
196 78 0.53
ACGTcount: A:0.22, C:0.27, G:0.29, T:0.23
Consensus pattern (190 bp):
GCATACGAAGTTCATTCCCAGTCTAAGATCAGATCAGACTGAGGGTTGCGGCAGCGACAGTAACA
GATCAGACACGTAGGAGGGACCAGGCAGATCCCCAGCTTGCGCATTCTGCCTCTCTGACCGACTG
AGCGCCCGCACGCTCGTGTCGTGGGTTGACTTAGGCATACAGTGTTCATTCCATGTCTAA
Found at i:28544095 original size:26 final size:26
Alignment explanation
Indices: 28544045--28544097 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28544035 GATGGCTTAG
*
28544045 GCATACGGAGTTCATTCCTTATCTAA
1 GCATACGGAGTTCATTCCTCATCTAA
28544071 GCATACGGAGTTCATTCC-CAGTCTAA
1 GCATACGGAGTTCATTCCTCA-TCTAA
28544097 G
1 G
28544098 ATCTGATCGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 1 0.04
26 24 0.96
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCTCATCTAA
Found at i:28544132 original size:354 final size:353
Alignment explanation
Indices: 28543518--28544161 Score: 855
Period size: 354 Copynumber: 1.8 Consensus size: 353
28543508 AATGCTTCTT
* * * ** * *
28543518 TCGTGGGTTGACTTTGGCATACGAAGTTCATTCCCAGTCTAAGATTGGATCAGACTGAGGGTTGC
1 TCGTGGGTTGACTTAGGCATACAAAGTTCATCCCCAGTCTAAGATCAGATCAGAATGAAGGTTGC
** * * * *
28543583 GGTAGCAAGATCAACAGCACGTAGGGGGATCGGGTCAGTCCCCAGCTTGCGCATTCTGCCTCTCT
66 GACAGCAAGATCAACAGCACGTAGGGGGACCGGGTCAGACCCCAGCTTACGCATTCTGCCTCTCC
** * * ** * * *
28543648 GGTCGACTGAGCGCCCGCACGCTCGTTTTGTGGGTTGGCTTAGGCATACAGTGTTCATTCCATGT
131 GACCGACTGAGCGCCAGCACACTCGTTTCATGGGATGGCTTAGGCATACAGAGTTCATTCCATAT
* * * *
28543713 CTAAGCATACGGAGTTCATTCCCAGTCTAAGATCAGACTAGACTGAGGGTTGCGGCAGCAGGACC
196 CTAAGCATACGGAGTTCATTCCCAGTCTAAGATCAGACGAGACCGAGGCTTACGGCAGCAGGACC
28543778 AGTAACAGGATC-AGCAACACGTAGGAGGGACCAGGCCGATCCCCAGCTTGCGCATTCTGCCTCT
261 AGTAACAGGATCGA-CAACACGTAGGAGGGACCAGGCCGATCCCCAGCTTGCGCATTCTGCCTCT
28543842 CTGACCGATTGAGCGCCCGCACGCTCGTG
325 CTGACCGATTGAGCGCCCGCACGCTCGTG
*
28543871 TCGTGGGTTGACTTAGGCATACAAAGTTCATCCCCAGTCTAAGATCAGA-CCGAATCGAAGGTTG
1 TCGTGGGTTGACTTAGGCATACAAAGTTCATCCCCAGTCTAAGATCAGATCAGAAT-GAAGGTTG
* *
28543935 CGACAGTAGGATCAACAGCACGTAGGGGGGACCGGGTC-GAACCCCAGCTTACGCATTCTGCCTC
65 CGACAGCAAGATCAACAGCACGTA-GGGGGACCGGGTCAG-ACCCCAGCTTACGCATTCTGCCTC
* * * * *
28543999 TCCGACCGGCTTAGCGCTAGCACACTCGTTTCATGGGATGGCTTAGGCATACGGAGTTCATTCCT
128 TCCGACCGACTGAGCGCCAGCACACTCGTTTCATGGGATGGCTTAGGCATACAGAGTTCATTCCA
* * *
28544064 TATCTAAGCATACGGAGTTCATTCCCAGTCTAAGATCTGATCGA-ACCGAGGCTTACGGCCGTAG
193 TATCTAAGCATACGGAGTTCATTCCCAGTCTAAGATCAGA-CGAGACCGAGGCTTACGGCAGCAG
* * *
28544128 GACCAGTAGCAGGATCGACAGCACGTAGGGGGGA
257 GACCAGTAACAGGATCGACAACACGTAGGAGGGA
28544162 TTGGGCTGAT
Statistics
Matches: 246, Mismatches: 40, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
352 4 0.02
353 72 0.29
354 167 0.68
355 3 0.01
ACGTcount: A:0.23, C:0.26, G:0.28, T:0.23
Consensus pattern (353 bp):
TCGTGGGTTGACTTAGGCATACAAAGTTCATCCCCAGTCTAAGATCAGATCAGAATGAAGGTTGC
GACAGCAAGATCAACAGCACGTAGGGGGACCGGGTCAGACCCCAGCTTACGCATTCTGCCTCTCC
GACCGACTGAGCGCCAGCACACTCGTTTCATGGGATGGCTTAGGCATACAGAGTTCATTCCATAT
CTAAGCATACGGAGTTCATTCCCAGTCTAAGATCAGACGAGACCGAGGCTTACGGCAGCAGGACC
AGTAACAGGATCGACAACACGTAGGAGGGACCAGGCCGATCCCCAGCTTGCGCATTCTGCCTCTC
TGACCGATTGAGCGCCCGCACGCTCGTG
Found at i:28544581 original size:159 final size:159
Alignment explanation
Indices: 28544280--28544623 Score: 450
Period size: 159 Copynumber: 2.2 Consensus size: 159
28544270 CCCAATCTAA
* *
28544280 GCATACGA-AGTTCATTCC-TAGTCTAAGATCAAACCAGACTGAGGGTTGCGACAGGAGGATCGG
1 GCATACGAGAGTTCATTCCAT-GTCTAAGACCAAACCAGACTGAGGGTTGCGACAGGAGGATCAG
* * * **
28544343 TAGCACATAGGGGGCACCGGGCCGATCCTCGACTTGCGCATTCTGCCTCTCCGGCCGTTTGAGCA
65 CAGCACAGAGGGGGCACCGGGCCGATCCCCGACTTGCGCATTCTGCCTCTCCGGCCGACTGAGCA
28544408 CCCGCACGCCCGTTTCGTGGGTTGGCTTAG
130 CCCGCACGCCCGTTTCGTGGGTTGGCTTAG
* * * *
28544438 GCATA-GAGAGTTCATTCCATGTCTAAGACCCAGCCAGACTGAGGGTTGTGGCAGTG-GGATCAG
1 GCATACGAGAGTTCATTCCATGTCTAAGACCAAACCAGACTGAGGGTTGCGACAG-GAGGATCAG
* * *
28544501 CAGCACGCAGAGGGGGC-CCGGGTCGATCCCCGGCTTGTGCATTCTGCCTCTCCGGCCGACTGAG
65 CAGCA--CAGAGGGGGCACCGGGCCGATCCCCGACTTGCGCATTCTGCCTCTCCGGCCGACTGAG
* *
28544565 CGA-TCGCACGCTCGTTTCGTGGGTTGGCTTAG
128 C-ACCCGCACGCCCGTTTCGTGGGTTGGCTTAG
28544597 GCATACG-GAGTTCATTCCATGTCTAAG
1 GCATACGAGAGTTCATTCCATGTCTAAG
28544624 CATACAGAGT
Statistics
Matches: 163, Mismatches: 16, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
157 2 0.01
158 54 0.33
159 96 0.59
160 11 0.07
ACGTcount: A:0.19, C:0.28, G:0.31, T:0.23
Consensus pattern (159 bp):
GCATACGAGAGTTCATTCCATGTCTAAGACCAAACCAGACTGAGGGTTGCGACAGGAGGATCAGC
AGCACAGAGGGGGCACCGGGCCGATCCCCGACTTGCGCATTCTGCCTCTCCGGCCGACTGAGCAC
CCGCACGCCCGTTTCGTGGGTTGGCTTAG
Found at i:28544633 original size:26 final size:26
Alignment explanation
Indices: 28544597--28544649 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28544587 GTTGGCTTAG
*
28544597 GCATACGGAGTTCATT-CCATGTCTAA
1 GCATACAGAGTTCATTCCCA-GTCTAA
28544623 GCATACAGAGTTCATTCCCAGTCTAA
1 GCATACAGAGTTCATTCCCAGTCTAA
28544649 G
1 G
28544650 AGTTTGAGCC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (26 bp):
GCATACAGAGTTCATTCCCAGTCTAA
Found at i:28545661 original size:158 final size:159
Alignment explanation
Indices: 28545362--28545822 Score: 468
Period size: 158 Copynumber: 2.9 Consensus size: 159
28545352 CTAGATCGAG
* * ** ** * * *
28545362 GGTTGCAGTAGTAGGATCGGCAGCACACAGGGGGGATCGGGCCGATCCCCGGCTTACGTATTCTA
1 GGTTGCAGTAGCAGGACCGAAAGCATGCAGGGGGGATCGGGTCGATCCCCGGCTTACGCATTCTG
*** * * * **
28545427 CCTCTCCGGTTAGCTGAGCGCCCGCACATTCGTTTCGTGGGTTGGCTTAGGCATAGGGAGTTCAT
66 CCTCTCCGGCCGGCTCAGAGCCCACACATTCGTTTCGTGGGTTGGCTTAGGCATACAGAGTTCAT
* * *
28545492 TCCATGGCTAAGCCCCAG-CCGAACCGAG
131 TCCATGTCTAAGCACCAGACCGAACCGAA
** * * *
28545520 GGTTGTGGTAGCAGGACCGACAGCATGCAGAGGGGGATTGGGTCGATCCCCGGCTT-CGCATTAT
1 GGTTGCAGTAGCAGGACCGAAAGCATGCAG-GGGGGATCGGGTCGATCCCCGGCTTACGCATTCT
* *
28545584 GCCTCTCCGGCCGGCTCAGAGCCCACACATTCATTTCGTGGGTTGACTTAGGCATACAGAGTTCA
65 GCCTCTCCGGCCGGCTCAGAGCCCACACATTCGTTTCGTGGGTTGGCTTAGGCATACAGAGTTCA
* *
28545649 TTCCCA-GTCTAAG-ATCAGACCGAACTGAA
130 TT-CCATGTCTAAGCACCAGACCGAACCGAA
** * * * * *
28545678 GGTTGCAGTAGCAGGATTGAAAGTATGCAGGGGTGGACCGGGTC-AGTGCCCAGCTTATGCATTC
1 GGTTGCAGTAGCAGGACCGAAAGCATGCAGGGG-GGATCGGGTCGA-TCCCCGGCTTACGCATTC
* * *
28545742 TGCCTCTCCGACCGGCTCA-ACGCCCATACGCTT-GTTTCGTGGGTTGGCTTAGGCATACAGAGT
64 TGCCTCTCCGGCCGGCTCAGA-GCCCACAC-ATTCGTTTCGTGGGTTGGCTTAGGCATACAGAGT
28545805 TCATTCCATGTCTAAGCA
127 TCATTCCATGTCTAAGCA
28545823 TATGGAGTTC
Statistics
Matches: 249, Mismatches: 44, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
157 7 0.03
158 143 0.57
159 96 0.39
160 3 0.01
ACGTcount: A:0.20, C:0.26, G:0.30, T:0.24
Consensus pattern (159 bp):
GGTTGCAGTAGCAGGACCGAAAGCATGCAGGGGGGATCGGGTCGATCCCCGGCTTACGCATTCTG
CCTCTCCGGCCGGCTCAGAGCCCACACATTCGTTTCGTGGGTTGGCTTAGGCATACAGAGTTCAT
TCCATGTCTAAGCACCAGACCGAACCGAA
Found at i:28545824 original size:26 final size:26
Alignment explanation
Indices: 28545794--28545846 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
28545784 GTTGGCTTAG
28545794 GCATACAGAGTTCATT-CCATGTCTAA
1 GCATACAGAGTTCATTCCCA-GTCTAA
**
28545820 GCATATGGAGTTCATTCCCAGTCTAA
1 GCATACAGAGTTCATTCCCAGTCTAA
28545846 G
1 G
28545847 ATCAAACCGG
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:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (26 bp):
GCATACAGAGTTCATTCCCAGTCTAA
Found at i:28546215 original size:26 final size:26
Alignment explanation
Indices: 28546163--28546215 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28546153 GTTGACTTAG
* *
28546163 GCATACGAAGTTCATCCCCAGTGTAA
1 GCATACGAAGTTCATCCCCAATCTAA
*
28546189 GCATACGAAGTTCATTCCCAATCTAA
1 GCATACGAAGTTCATCCCCAATCTAA
28546215 G
1 G
28546216 ATCAGACCGG
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:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (26 bp):
GCATACGAAGTTCATCCCCAATCTAA
Found at i:28546714 original size:26 final size:26
Alignment explanation
Indices: 28546664--28546716 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28546654 GTTGGCTTAG
*
28546664 GCATACGGAGTTCATTCCATGTCTAA
1 GCATACGGAGTTCATTCCATATCTAA
28546690 GCATACGGAGTTCATTCCCA-ATCTAA
1 GCATACGGAGTTCATT-CCATATCTAA
28546716 G
1 G
28546717 ATCAAACCGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCATATCTAA
Found at i:28546844 original size:183 final size:183
Alignment explanation
Indices: 28546600--28547265 Score: 601
Period size: 183 Copynumber: 3.5 Consensus size: 183
28546590 TCGATCCCCA
* ** * ** * * *
28546600 GCTTGCGAATTCTGCCTCTCTGGCCGACTGAGCACCCGCACGCTCGTTTCGTGGGTTGGCTTAGG
1 GCTTGTGAATTCTGCCTCTCCAGCCGGCTGAGTGCCCGTACGCTCATTTCATGGGTTGGCTTAGG
*
28546665 CATACGGAGTTCATTCCATGTCTAAGCATACGGAGTTCATTCCCAATCTAAGATCAAACCGGACT
66 CATACGGAGTTCATTCCATGTCTAAGCATACGGAGTTCATTCCCAGTCTAAGATCAAACCGGACT
* *
28546730 AAGGGTTGC-GACAGCAGGATCGGTACACACAGGGGGGATCGGGCCGGTCCTCG
131 AAGGGTTGCAGACAGCAGGATCGGTACACACAGGGGGGATCGGGCTGATCC-CG
* *
28546783 GCTTGTGAATTCTGCCTCTCCAGCTGGCTGAGTGCCCGTACGCTCATTTCATGGCTTGGCTTAGG
1 GCTTGTGAATTCTGCCTCTCCAGCCGGCTGAGTGCCCGTACGCTCATTTCATGGGTTGGCTTAGG
* * * *
28546848 CGTACGGAATTCATTCCATGTCTAAGCATACGGAGTTCATTCCTAGTCTAAGATCAGACCGGA-T
66 CATACGGAGTTCATTCCATGTCTAAGCATACGGAGTTCATTCCCAGTCTAAGATCAAACCGGACT
* *
28546912 CGAGGGTTACAGTAGCAGACCAGCAGTAGCATC-G-ACAGCACGTAGGGGGGATCGAGCTGATCC
131 -AAGGG-T----T-GCAGA-CAGCAG--G-ATCGGTACA-CAC--AGGGGGGATCGGGCTGAT-C
*
28546975 CCA
181 CCG
* * * *
28546978 GCTTGTGCATTCTGCCTCTCCGGCCGACCTCTCCGACTGGATGAGTGCCCGAACGCTCGTTTCAT
1 GCTTGTGAATTCTGCCTCTCCAGCCG--------G-C----TGAGTGCCCGTACGCTCATTTCAT
* ** *
28547043 GGGTTGACTTAGGCATACGGAGTTCAACCCCA-GTCTAAGCATACAGAGTTCATTCCCAGTCTAA
53 GGGTTGGCTTAGGCATACGGAGTTC-ATTCCATGTCTAAGCATACGGAGTTCATTCCCAGTCTAA
* * * * **
28547107 GATCGAACTGGAC-CAGGGTTGCAGTA-A-CAGGATCGATAGCATGCAGGGGGGATCGGGCTGAT
117 GATCAAACCGGACTAAGGGTTGCAG-ACAGCAGGATCGGTA-CACACAGGGGGGATCGGGCTGAT
28547169 CCCTG
180 CCC-G
* * * * * *
28547174 GCTTGTGTATTCTGCCTCTTCGGCCGGTTGAGTGCCCGTACGCCCATTTCGTGGGTTGGCTTAGG
1 GCTTGTGAATTCTGCCTCTCCAGCCGGCTGAGTGCCCGTACGCTCATTTCATGGGTTGGCTTAGG
*
28547239 CATAGGGAGTTCATTCCATGTCTAAGC
66 CATACGGAGTTCATTCCATGTCTAAGC
28547266 CCCAACCGGA
Statistics
Matches: 392, Mismatches: 54, Indels: 74
0.75 0.10 0.14
Matches are distributed among these distances:
182 5 0.01
183 167 0.43
184 1 0.00
188 2 0.01
189 2 0.01
190 2 0.01
191 6 0.02
192 3 0.01
193 5 0.01
194 3 0.01
195 42 0.11
196 46 0.12
197 1 0.00
198 2 0.01
199 5 0.01
200 1 0.00
201 4 0.01
202 2 0.01
203 1 0.00
204 1 0.00
206 1 0.00
207 4 0.01
208 82 0.21
209 4 0.01
ACGTcount: A:0.20, C:0.26, G:0.28, T:0.25
Consensus pattern (183 bp):
GCTTGTGAATTCTGCCTCTCCAGCCGGCTGAGTGCCCGTACGCTCATTTCATGGGTTGGCTTAGG
CATACGGAGTTCATTCCATGTCTAAGCATACGGAGTTCATTCCCAGTCTAAGATCAAACCGGACT
AAGGGTTGCAGACAGCAGGATCGGTACACACAGGGGGGATCGGGCTGATCCCG
Found at i:28546881 original size:26 final size:26
Alignment explanation
Indices: 28546850--28546899 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
28546840 GGCTTAGGCG
28546850 TACGGAATTCATTCC-ATGTCTAAGCA
1 TACGGAATTCATTCCTA-GTCTAAGCA
*
28546876 TACGGAGTTCATTCCTAGTCTAAG
1 TACGGAATTCATTCCTAGTCTAAG
28546900 ATCAGACCGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 21 0.95
27 1 0.05
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (26 bp):
TACGGAATTCATTCCTAGTCTAAGCA
Found at i:28547084 original size:26 final size:26
Alignment explanation
Indices: 28547055--28547107 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28547045 GTTGACTTAG
*
28547055 GCATACGGAGTTCAACCCCAGTCTAA
1 GCATACAGAGTTCAACCCCAGTCTAA
**
28547081 GCATACAGAGTTCATTCCCAGTCTAA
1 GCATACAGAGTTCAACCCCAGTCTAA
28547107 G
1 G
28547108 ATCGAACTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (26 bp):
GCATACAGAGTTCAACCCCAGTCTAA
Found at i:28547437 original size:26 final size:26
Alignment explanation
Indices: 28547397--28547449 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28547387 GTTGGCTTAG
28547397 GCATACGGAGATCATT-CCATGTCTAA
1 GCATACGGAGATCATTCCCA-GTCTAA
*
28547423 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGATCATTCCCAGTCTAA
28547449 G
1 G
28547450 ATTTGAGCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (26 bp):
GCATACGGAGATCATTCCCAGTCTAA
Found at i:28548148 original size:26 final size:26
Alignment explanation
Indices: 28548118--28548170 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
28548108 GTTGACTTAG
28548118 GCATACAGAGTTCA-TCACCAGTCTAA
1 GCATACAGAGTTCATTC-CCAGTCTAA
**
28548144 GCATATGGAGTTCATTCCCAGTCTAA
1 GCATACAGAGTTCATTCCCAGTCTAA
28548170 G
1 G
28548171 TTCAGACCAG
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:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (26 bp):
GCATACAGAGTTCATTCCCAGTCTAA
Found at i:28549168 original size:26 final size:26
Alignment explanation
Indices: 28549138--28549190 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28549128 GTTAACTTAG
*
28549138 GCATACGGAGTTCATCCCCAGTCTAA
1 GCATACAGAGTTCATCCCCAGTCTAA
* *
28549164 GCATACAGAGTTCATTCCTAGTCTAA
1 GCATACAGAGTTCATCCCCAGTCTAA
28549190 G
1 G
28549191 ATCAAATCGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (26 bp):
GCATACAGAGTTCATCCCCAGTCTAA
Found at i:28551412 original size:26 final size:26
Alignment explanation
Indices: 28551374--28551426 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28551364 GTTGGCTTAG
*
28551374 GCATACGGGGTTCATT-CCATGTCTAA
1 GCATACGGAGTTCATTCCCA-GTCTAA
28551400 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
28551426 G
1 G
28551427 ATCAGACCAG
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:0.25, C:0.25, G:0.23, T:0.28
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAGTCTAA
Found at i:28552263 original size:26 final size:26
Alignment explanation
Indices: 28552214--28552266 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
28552204 GTTGGCTTAG
*
28552214 GCATACAGAGTTCATTGCATGTCTAA
1 GCATACAGAGTTCATTCCATGTCTAA
*
28552240 GCATACGGAGTTCATTCCCA-GTCTAA
1 GCATACAGAGTTCATT-CCATGTCTAA
28552266 G
1 G
28552267 ATCGGATCGG
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:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (26 bp):
GCATACAGAGTTCATTCCATGTCTAA
Found at i:28552600 original size:26 final size:26
Alignment explanation
Indices: 28552570--28552622 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28552560 GTTGACTTAG
*
28552570 GCATACGGAGTTCATCCCCAGTCTAA
1 GCATACGAAGTTCATCCCCAGTCTAA
* *
28552596 GCATACGAAGTTTATTCCCAGTCTAA
1 GCATACGAAGTTCATCCCCAGTCTAA
28552622 G
1 G
28552623 ATCAAACCTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (26 bp):
GCATACGAAGTTCATCCCCAGTCTAA
Found at i:28552601 original size:356 final size:343
Alignment explanation
Indices: 28552124--28552803 Score: 815
Period size: 356 Copynumber: 1.9 Consensus size: 343
28552114 TCGATAGCAT
* * * * * *
28552124 GCAGGGGGGGATTGGGCCGATCCCTGGCTTGCGCATTCTGTCTCTCCGGCCGGCTGAGTGCCCGT
1 GCAGAGGGGGATCGGGCCGATCCCCGGCTTGCGCAATATGCCTCTCCGGCCGGCTGAGTGCCCGT
* ** *
28552189 ACACTCGTTTCATGGGTTGGCTTAGGCATACAGAGTTCATTGCATGTCTAAGCATACGGAGTTCA
66 ACACTCGTTTCATGGGTTGACTTAGGCATACAGAGTTCATCCCATGTCTAAGCATACGAAGTTCA
** * * *
28552254 TTCCCAGTCTAAGATCGGATCGGATCGAGGGTTGCGGTAGCAGGATCGACAGCACGTAAGGAGGG
131 TTCCCAGTCTAAGATCAAACCGGATCGAGGGTTACGATAGC---AT-----GCA---AA-G-GGG
* * * * * * *
28552319 ACCAGGCTGATCCTCGGCTTGCGCATTCTGCCTCTTCG-GTCGACTAAGCGCCTGCACGCTCATT
183 ACCAGGCCGATCCTCGGCTTACACATTCTGCCTCTTCGACT-GACTAAGCGCCCGCACACCCATT
* * * * *
28552383 TCGTGGGTTGGGTTAGGCATACGGAGTTCATTCCATGTCTAAGCCCTAGCCGGACTGAGGGTTGT
247 TCATGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCCCCAGCCGGACCGAGGGTTCT
*
28552448 GGTAGCAGGACCGGTAACGGGATCAACAACCC
312 GGCAGCAGGACCGGTAACGGGATCAACAACCC
** * *
28552480 GCAGAGGGGGATCGGGCTTATCCCCGGTTTGCGCAATATGCCTCTCCGGCCTGCTGAGTGCCCGT
1 GCAGAGGGGGATCGGGCCGATCCCCGGCTTGCGCAATATGCCTCTCCGGCCGGCTGAGTGCCCGT
* * * *
28552545 ACGCTCTTTTCATGGGTTGACTTAGGCATACGGAGTTCATCCCCA-GTCTAAGCATACGAAGTTT
66 ACACTCGTTTCATGGGTTGACTTAGGCATACAGAGTTCAT-CCCATGTCTAAGCATACGAAGTTC
* *
28552609 ATTCCCAGTCTAAGATCAAACCTGATCGAGGGTTACGATAGCATGCAAAGGGGACCGGGCCGATC
130 ATTCCCAGTCTAAGATCAAACCGGATCGAGGGTTACGATAGCATGCAAAGGGGACCAGGCCGATC
* * *
28552674 CTCGGCTTACACATTCTGCCTCTTCGACTGGCTGAGTGCCCGCACACCCATTTCATGGGTTGGCT
195 CTCGGCTTACACATTCTGCCTCTTCGACTGACTAAGCGCCCGCACACCCATTTCATGGGTTGGCT
* * *
28552739 TAGGCATAGGGAGTTCATTCCATGTCTAATCCCCAGCTGGACCGAGGGTTCTGGCAGCAGGACCG
260 TAGGCATACGGAGTTCATTCCATGTCTAAGCCCCAGCCGGACCGAGGGTTCTGGCAGCAGGACCG
28552804 ACAACACGCA
Statistics
Matches: 278, Mismatches: 44, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
343 123 0.44
344 2 0.01
345 2 0.01
348 3 0.01
353 2 0.01
356 144 0.52
357 2 0.01
ACGTcount: A:0.19, C:0.27, G:0.30, T:0.24
Consensus pattern (343 bp):
GCAGAGGGGGATCGGGCCGATCCCCGGCTTGCGCAATATGCCTCTCCGGCCGGCTGAGTGCCCGT
ACACTCGTTTCATGGGTTGACTTAGGCATACAGAGTTCATCCCATGTCTAAGCATACGAAGTTCA
TTCCCAGTCTAAGATCAAACCGGATCGAGGGTTACGATAGCATGCAAAGGGGACCAGGCCGATCC
TCGGCTTACACATTCTGCCTCTTCGACTGACTAAGCGCCCGCACACCCATTTCATGGGTTGGCTT
AGGCATACGGAGTTCATTCCATGTCTAAGCCCCAGCCGGACCGAGGGTTCTGGCAGCAGGACCGG
TAACGGGATCAACAACCC
Found at i:28552958 original size:159 final size:158
Alignment explanation
Indices: 28552795--28553085 Score: 338
Period size: 158 Copynumber: 1.8 Consensus size: 158
28552785 GGTTCTGGCA
* * *
28552795 GCAGGACCGACAACACGCAGAGGGGGACCGGACCAATCCCC-GACTTGTGCGTTATGCCTCTCAG
1 GCAGGACCGACAACACGCAG-GGGGGACCGGACCAATCCCCAG-CTAGCGCATTATGCCTCTCAG
28552859 ATCGGCTCAGCACCCGAACGCTCA-TTCCGT-GGGTTGACTTAGGCATACAGAGTTCATTCCCA-
64 ATCGGCTCAGCACCCGAACGCTCATTTCC-TAGGGTTG-CTTAGGCATACAGAGTTCATT-CCAT
28552921 GTCTAAGATAGGACTGGACCAAGGGATGCAGTC
126 GTCTAAGATAGGACTGGACCAAGGGATGCAGTC
* * * * * ** * * *
28552954 GCAGGATCGATAGCACGCAGGGGGGACTGGGCCGGTCCCCAGCTAGCGCATTCTGCCTCTCCGGT
1 GCAGGACCGACAACACGCAGGGGGGACCGGACCAATCCCCAGCTAGCGCATTATGCCTCTCAGAT
* * * * * *
28553019 TGGCTGAGCGCCCGCACGCTCATTTCCTAGGTTTGCTTAGGCATGCAGAGTTCATTCCATGTCTA
66 CGGCTCAGCACCCGAACGCTCATTTCCTAGGGTTGCTTAGGCATACAGAGTTCATTCCATGTCTA
28553084 AG
131 AG
28553086 CATACGGAGT
Statistics
Matches: 109, Mismatches: 19, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
157 3 0.03
158 79 0.72
159 27 0.25
ACGTcount: A:0.21, C:0.29, G:0.29, T:0.21
Consensus pattern (158 bp):
GCAGGACCGACAACACGCAGGGGGGACCGGACCAATCCCCAGCTAGCGCATTATGCCTCTCAGAT
CGGCTCAGCACCCGAACGCTCATTTCCTAGGGTTGCTTAGGCATACAGAGTTCATTCCATGTCTA
AGATAGGACTGGACCAAGGGATGCAGTC
Found at i:28553501 original size:26 final size:26
Alignment explanation
Indices: 28553465--28553517 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
28553455 GTTGACTTAG
*
28553465 GCATACAGAGTTCATCCCCAGTGTAA
1 GCATACAGAGTTCATCCCCAGTCTAA
*
28553491 GCATACAGAGTTCATTCCCAGTCTAA
1 GCATACAGAGTTCATCCCCAGTCTAA
28553517 G
1 G
28553518 AGTGAATTGG
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:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (26 bp):
GCATACAGAGTTCATCCCCAGTCTAA
Found at i:28554867 original size:159 final size:158
Alignment explanation
Indices: 28554513--28554889 Score: 395
Period size: 159 Copynumber: 2.4 Consensus size: 158
28554503 TAAGCATGTA
* * * ** *
28554513 GAGTTCATTCCCAGTCTAAGATCGAATCGGACTGAGGGTTGCGACAGTAGGATCGGTAGCATGAA
1 GAGTTCATTCCCAGTCTAAGATCGAATCAGACTGAGGGTTGCGACAGCAGGACCGACAGCACGAA
* * *
28554578 AGGGGGATCGGGCCGATCCCCGGCTTGCGCATTCTACCTCTCCGATCGGTTGAGCACCCGCACAC
66 AGGGGGATCGGGCCGATCCCCGGCTTGCGCATTATACCTCTCCGATCGGCTCAGCACCCGCACAC
*
28554643 CTGTTTCATGGGTTAGCTTAGGCATAGG
131 CTGTTTCATGGGTTAGCTTAGGCATACG
* ** * * * * * *
28554671 GAGTTCATT-CCATGTCTAAG-CCCCAGCCGAACCGAGGGTTGTGGCAGCGGGACCGACAGCACG
1 GAGTTCATTCCCA-GTCTAAGATCGAATCAG-ACTGAGGGTTGCGACAGCAGGACCGACAGCACG
* * * * * * *
28554734 TAGAGGGGGATCGGGCCGGTCCCTGGCTTGTGCATTATGCCTCTCCG-GCTGGCTCAGCACGCGC
64 -AAAGGGGGATCGGGCCGATCCCCGGCTTGCGCATTATACCTCTCCGATC-GGCTCAGCACCCGC
*
28554798 ACGCACT-TTTCATGGGTT-GACTTAGGCATACG
127 ACAC-CTGTTTCATGGGTTAG-CTTAGGCATACG
* * *
28554830 GAGTTCATTCCCAGTCTAAGATCGGATCAGACTGAGGGTTGCGACAGTAGGATCGACAGC
1 GAGTTCATTCCCAGTCTAAGATCGAATCAGACTGAGGGTTGCGACAGCAGGACCGACAGC
28554890 CCATAGGGGG
Statistics
Matches: 174, Mismatches: 37, Indels: 15
0.77 0.16 0.07
Matches are distributed among these distances:
157 7 0.04
158 42 0.24
159 116 0.67
160 9 0.05
ACGTcount: A:0.20, C:0.26, G:0.31, T:0.22
Consensus pattern (158 bp):
GAGTTCATTCCCAGTCTAAGATCGAATCAGACTGAGGGTTGCGACAGCAGGACCGACAGCACGAA
AGGGGGATCGGGCCGATCCCCGGCTTGCGCATTATACCTCTCCGATCGGCTCAGCACCCGCACAC
CTGTTTCATGGGTTAGCTTAGGCATACG
Found at i:28554993 original size:26 final size:26
Alignment explanation
Indices: 28554943--28554995 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
28554933 GTTGGCTTAG
* *
28554943 GCATATGGAGTTCATTCCATGTCTAA
1 GCATATAGAGTTCATTCCATATCTAA
28554969 GCATATAGAGTTCATTCCCA-ATCTAA
1 GCATATAGAGTTCATT-CCATATCTAA
28554995 G
1 G
28554996 ATCAGACCGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 21 0.88
27 3 0.12
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (26 bp):
GCATATAGAGTTCATTCCATATCTAA
Found at i:28555849 original size:26 final size:26
Alignment explanation
Indices: 28555811--28555863 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
28555801 GTTGGTTTAG
*
28555811 GCATACGGTGTTCATT-CCATGTCTAA
1 GCATACGGAGTTCATTCCCA-GTCTAA
* *
28555837 GCATATGGAGTTCCTTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
28555863 G
1 G
28555864 ATCGGACTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 20 0.87
27 3 0.13
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.32
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAGTCTAA
Found at i:28556154 original size:272 final size:272
Alignment explanation
Indices: 28555635--28556173 Score: 706
Period size: 272 Copynumber: 2.0 Consensus size: 272
28555625 CGAATGTTCA
** * * * *
28555635 TTTCATGGGTTGACTTAGGCATATGGAGTTCATTCCTAGTCTAAGATCAGACTGGACCGAGGGTT
1 TTTCATGGGTTGACTTAGGCATACAGAGTTCAATCCCAGTCTAAGATCAGACCGAACCGAGGGTT
* * * *
28555700 ATGGTAGCAAGATCGACAGCACGCCTGGGGGATCGGGCCGATCCATGGCTTGCGCATTCTACCTC
66 ACGGCAGCAAGATCGACAGCACG-CTGGGGGATCGAGCCGAGCCATGGCTTGCGCATTCTACCTC
* * * **
28555765 TCCGATCGACTGAGCACCCGGACACTCATTTTGGGGGTTGGTTTAGGCATACGGTGTTCATTCCA
130 TCCGATCGACTGAGCACCCGCACACTCATTTTAGGGGTTGGCTTAGGCATACGAAGTTCATTCCA
* * ** ** **
28555830 TGTCTAAGCATATGGAGTTCCTTCCCAGTCTAAGATCGGACTGGACCGAGGGTAGCGGCAGCAGG
195 TGTCTAAGCATATGGAGTTCATTCCCAGTCCAAGATCAAACCAGACCGAGGGTAGCAACAGCAGG
28555895 ACCAGCATGCTCG
260 ACCAGCATGCTCG
28555908 TTTCATGGGTTGACTTAGGCATACAGAGTTCAATCCCAGTCTAAGATCAGACCGAACCGAGGGTT
1 TTTCATGGGTTGACTTAGGCATACAGAGTTCAATCCCAGTCTAAGATCAGACCGAACCGAGGGTT
* * *
28555973 ACGGCAGTAGGATCGACAGCACG-TAGGGGGATCGAGCC-AGGCCATGGCTTGTGCATTCTACCT
66 ACGGCAGCAAGATCGACAGCACGCT-GGGGGATCGAGCCGA-GCCATGGCTTGCGCATTCTACCT
** * * * *
28556036 CTCCGA-CTGACTGAGTGCCTGCACGCTCGTTTTATGGGTTGGCTTAGGCATACGAAGTTCATTC
129 CTCCGATC-GACTGAGCACCCGCACACTCATTTTAGGGGTTGGCTTAGGCATACGAAGTTCATTC
* * *
28556100 CATGTCTAAGCATATGGAGTTCATTCGCAGTCCAAGATCAAACCAGATCGAGGGTTGCAACAGCA
193 CATGTCTAAGCATATGGAGTTCATTCCCAGTCCAAGATCAAACCAGACCGAGGGTAGCAACAGCA
28556165 GGACCAGCA
258 GGACCAGCA
28556174 GCAAGATCGA
Statistics
Matches: 228, Mismatches: 35, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
271 3 0.01
272 147 0.64
273 78 0.34
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.24
Consensus pattern (272 bp):
TTTCATGGGTTGACTTAGGCATACAGAGTTCAATCCCAGTCTAAGATCAGACCGAACCGAGGGTT
ACGGCAGCAAGATCGACAGCACGCTGGGGGATCGAGCCGAGCCATGGCTTGCGCATTCTACCTCT
CCGATCGACTGAGCACCCGCACACTCATTTTAGGGGTTGGCTTAGGCATACGAAGTTCATTCCAT
GTCTAAGCATATGGAGTTCATTCCCAGTCCAAGATCAAACCAGACCGAGGGTAGCAACAGCAGGA
CCAGCATGCTCG
Found at i:28556494 original size:26 final size:26
Alignment explanation
Indices: 28556464--28556516 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28556454 GTTGACTTAG
*
28556464 GCATACAGAGTTCATCCCCAGTCTAA
1 GCATACAGAGTTCATCCCCAATCTAA
* *
28556490 GCATACGGAGTTCATTCCCAATCTAA
1 GCATACAGAGTTCATCCCCAATCTAA
28556516 G
1 G
28556517 ATTGAACCAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (26 bp):
GCATACAGAGTTCATCCCCAATCTAA
Found at i:28557172 original size:183 final size:180
Alignment explanation
Indices: 28556826--28557372 Score: 587
Period size: 183 Copynumber: 3.0 Consensus size: 180
28556816 TAGGCATATC
* * *
28556826 GGAGTTCATTCCCAGTCTAAGATCGGACCGGATTGAGGGTTGTGGTAGCAGGATCGATAGCATGC
1 GGAGTTCATTCCCAGTCTAAGATC-GACCGGATTGAGGGTTGCGGTAGAAGGATCG-CAGCATGC
** * * * * *
28556891 ATGGGGGATCAAGTCGGTCCCCGGTTTGCGCATTCTGCCTCTCTGGCCGGCTGAGTGCCCGCACG
64 A-GGGGGATCGGGCCGATCCCC-GCTTGCGCATTCTGCCTCTCCGGCCGACTGAGTGCCCGCACG
* * *
28556956 CTCGTTTCATGGGTTGACTTAGGCTTACGGAGTTCATCCCCAGTCTAAGCAAAT
127 CTCATTTCGTGGGTTGACTTAGGCATACGGAGTTCATCCCCAGTCTAAGCAAAT
* ** * * *
28557010 GGAGTTCATTCCCAGTCTAAGATCAGACCGAACCGAGGGTTGCAGTAGTAGGACCAGCAGCATGC
1 GGAGTTCATTCCCAGTCTAAGATC-GACCGGATTGAGGGTTGCGGTAGAAGGATC-GCAGCATGC
* * * *
28557075 AGGAGGGATTGGGCCGATCCCCGCTTGCGCATT-TCGCCTCTCCGACCGACTGAGCGCCCGTACG
64 AGG-GGGATCGGGCCGATCCCCGCTTGCGCATTCT-GCCTCTCCGGCCGACTGAGTGCCCGCACG
* * *
28557139 CTCATTTCGTGGGTTGACTTAGGCATACGGAGTTCATCCCCAGTCAAAACATAT
127 CTCATTTCGTGGGTTGACTTAGGCATACGGAGTTCATCCCCAGTCTAAGCAAAT
* * * * * *
28557193 GGAGCTT-ATTCCCAGTCTAATATCGAATCGGGTTGAGGGTTGCGGCAGAAGCATCGGCAGCACG
1 GGAG-TTCATTCCCAGTCTAAGATCG-ACCGGATTGAGGGTTGCGGTAGAAGGATC-GCAGCATG
* * * *
28557257 CAGGGGGGACCGGGCCGTTCCCTGGCTTGCGCATTCTGCCTCTCCGGTCGACTGAGTGCCCGCAC
63 CA-GGGGGATCGGGCCGATCCC-CGCTTGCGCATTCTGCCTCTCCGGCCGACTGAGTGCCCGCAC
* * * *
28557322 GCCCATTTCGTGGGTTGGCTTAGGCATAGGGAGTTCAT-TCCATGTCTAAGC
126 GCTCATTTCGTGGGTTGACTTAGGCATACGGAGTTCATCCCCA-GTCTAAGC
28557373 CCCAGCTGGA
Statistics
Matches: 301, Mismatches: 53, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
182 2 0.01
183 149 0.50
184 148 0.49
185 2 0.01
ACGTcount: A:0.19, C:0.27, G:0.30, T:0.24
Consensus pattern (180 bp):
GGAGTTCATTCCCAGTCTAAGATCGACCGGATTGAGGGTTGCGGTAGAAGGATCGCAGCATGCAG
GGGGATCGGGCCGATCCCCGCTTGCGCATTCTGCCTCTCCGGCCGACTGAGTGCCCGCACGCTCA
TTTCGTGGGTTGACTTAGGCATACGGAGTTCATCCCCAGTCTAAGCAAAT
Found at i:28557487 original size:157 final size:158
Alignment explanation
Indices: 28557250--28557688 Score: 524
Period size: 157 Copynumber: 2.8 Consensus size: 158
28557240 GAAGCATCGG
* **
28557250 CAGCACGCAGGGGGGACCGGGCCGTTCCCTGGCTTGCGCATTCTGCCTCTCCGGTCGACTGAGTG
1 CAGCACGCAGGGGGGACCGGGCCGATCCC-GGCTTGCGCATTCTGCCTCTCCGACCGACTGAGTG
* * * *
28557315 CCCGCACGCCCATTTCGTGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCCCAGCT
65 CCCGCACGCTCATTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCACCAGAT
* ** * *
28557380 -GGACCGAGGGATGTGGCAGCGGGACCGA
130 CGAACCGAGGGATACGACAGCAGGACCGA
* * * * *
28557408 CGGCACGCAGGGGGGACCTGGCCGATCCCGGCTTGCGCATTATGCCTCTCCGACCGACTCAGCGC
1 CAGCACGCAGGGGGGACCGGGCCGATCCCGGCTTGCGCATTCTGCCTCTCCGACCGACTGAGTGC
* * *
28557473 CCGCACGCTCATTTCGTGGGTTGACTTAGGCATACGGAGTTAATTCACA-GTCTAAG-ATCAGAT
66 CCGCACGCTCATTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTC-CATGTCTAAGCACCAGAT
** * * *
28557536 CGAAGTGAGGGTTACGACAGTAGGATCGA
130 CGAACCGAGGGATACGACAGCAGGACCGA
* * * * *
28557565 TAGCACGCAGGGGGGACCGGGCCGATCCCCAGCTTGCGCATTCTACCTCTCCGACGGGCTGAGTG
1 CAGCACGCAGGGGGGACCGGGCCGAT-CCCGGCTTGCGCATTCTGCCTCTCCGACCGACTGAGTG
* * * *
28557630 CCCGCACACTCGTTTCATGGGTTGGCTTAGGCATACGTAGTTCATTCCATGTCTAAGCA
65 CCCGCACGCTCATTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCA
28557689 TACATAGTTC
Statistics
Matches: 235, Mismatches: 41, Indels: 9
0.82 0.14 0.03
Matches are distributed among these distances:
156 4 0.02
157 123 0.52
158 107 0.46
159 1 0.00
ACGTcount: A:0.18, C:0.29, G:0.31, T:0.21
Consensus pattern (158 bp):
CAGCACGCAGGGGGGACCGGGCCGATCCCGGCTTGCGCATTCTGCCTCTCCGACCGACTGAGTGC
CCGCACGCTCATTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCACCAGATC
GAACCGAGGGATACGACAGCAGGACCGA
Found at i:28557690 original size:26 final size:26
Alignment explanation
Indices: 28557660--28557712 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28557650 GTTGGCTTAG
*
28557660 GCATACGTAGTTCATT-CCATGTCTAA
1 GCATACATAGTTCATTCCCA-GTCTAA
28557686 GCATACATAGTTCATTCCCAGTCTAA
1 GCATACATAGTTCATTCCCAGTCTAA
28557712 G
1 G
28557713 ATCGGACTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (26 bp):
GCATACATAGTTCATTCCCAGTCTAA
Found at i:28558305 original size:26 final size:26
Alignment explanation
Indices: 28558269--28558321 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28558259 GTTGGCTTAG
28558269 GCATACGGAGTTCATTCC-ATGTCTAA
1 GCATACGGAGTTCATTCCTA-GTCTAA
*
28558295 GCATGCGGAGTTCATTCCTAGTCTAA
1 GCATACGGAGTTCATTCCTAGTCTAA
28558321 G
1 G
28558322 ATTGGTTCAG
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:0.23, G:0.23, T:0.30
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCTAGTCTAA
Found at i:28558514 original size:26 final size:26
Alignment explanation
Indices: 28558478--28558530 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
28558468 GTTCACTTAG
28558478 GCATACGAAGTTCA-TCCTCAGTCTAA
1 GCATACGAAGTTCATTCC-CAGTCTAA
28558504 GCATACGAAGTTCATTCCCAGTCTAA
1 GCATACGAAGTTCATTCCCAGTCTAA
28558530 G
1 G
28558531 ATCAGATTGG
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:0.26, G:0.17, T:0.26
Consensus pattern (26 bp):
GCATACGAAGTTCATTCCCAGTCTAA
Found at i:28558778 original size:197 final size:197
Alignment explanation
Indices: 28558441--28558815 Score: 470
Period size: 197 Copynumber: 1.9 Consensus size: 197
28558431 CTCCGGTCGA
* *
28558441 CTGAGCGCCCGCACGTCCCTTTCGTGGGTTCACTTAGGCATACGAAGTTCATCCTCAGTCTAAGC
1 CTGAGCGCCCGCACGTCCCTTTCATGGGTTCACTTAGGCATACGAAGTTCATCCCCAGTCTAAGC
* *
28558506 ATACGAAGTTCATTCCCAGTCTAAGATCAGATTGGATCAAGGGTTGCGACAATAGGACCAACAGC
66 ATACGAAGTTCATTCCCAGTCTAAGATCAGATTGGATCAAGGGTTACGACAACAGGACCAACAGC
* * * *
28558571 ACGTAGGGGGGACTGGGTCGATCCCCTACTTACGCATTCTGCCTCTCTAGTCGGTGCTTCCGACT
131 ACGCAGGGGGGACCGGGTCGATCCCCAACTTACGCATTCTACCTCTCTAGTCGGTGCTTCCGACT
28558636 GG
196 GG
* * * * *
28558638 CTGAGCGCCTGCACG-CTCGTTTCATGGGTTGACTTAGGCATTCGAAGTTCATCCCCCGTCTAAG
1 CTGAGCGCCCGCACGTC-CCTTTCATGGGTTCACTTAGGCATACGAAGTTCATCCCCAGTCTAAG
* * * * * **
28558702 CATAC-AGAGTTCATTCCCAGTCTAATATCGGATT-GATCCGAGGGTTAC-AGCAGCAGGATCGG
65 CATACGA-AGTTCATTCCCAGTCTAAGATCAGATTGGAT-CAAGGGTTACGA-CAACAGGACCAA
* * * *
28558764 TAGCACGCAGGGGGGACCGGGTCGTTCCTCAACTTGCGCATTCTACCTCTCT
127 CAGCACGCAGGGGGGACCGGGTCGATCCCCAACTTACGCATTCTACCTCTCT
28558816 GAACTGCTGA
Statistics
Matches: 150, Mismatches: 24, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
196 6 0.04
197 144 0.96
ACGTcount: A:0.21, C:0.28, G:0.26, T:0.25
Consensus pattern (197 bp):
CTGAGCGCCCGCACGTCCCTTTCATGGGTTCACTTAGGCATACGAAGTTCATCCCCAGTCTAAGC
ATACGAAGTTCATTCCCAGTCTAAGATCAGATTGGATCAAGGGTTACGACAACAGGACCAACAGC
ACGCAGGGGGGACCGGGTCGATCCCCAACTTACGCATTCTACCTCTCTAGTCGGTGCTTCCGACT
GG
Found at i:28559537 original size:146 final size:150
Alignment explanation
Indices: 28559252--28559679 Score: 371
Period size: 146 Copynumber: 2.8 Consensus size: 150
28559242 GCAGGATCGA
* ** **
28559252 TAGCA-GCAGGGGTGGATC-GGTCCGATCCCCGGCTTGCGCATTCTGCCTCTCCAATCGGCTGAG
1 TAGCACGCAGGGG-GGATCGGGT-CGATCCCCGACTTGCATATTCTGCCTCTCCGGTCGGCTGAG
* * * ** *
28559315 TGCCCGA-ACGCTCATTTTGTGGGTTGACTTAGGCATACGGAGTTCATTCCCA-GTCTAAGATCG
64 CGCCC-ACACGCTCATTTCGTGGGTTGGCTTAGGCATACGGAGTTCATT-CCATGTCTAAGCCCA
28559378 GACCAGATCGAGGG-T-T-A-CGG
127 GACCAGATCGAGGGTTGTGAGCGG
* * *
28559398 TAGCACGCAGGGGGGATCGGGTCGATCCTCGACTTGCATATTCTGCCTCTCCGGTCGACTGAGCA
1 TAGCACGCAGGGGGGATCGGGTCGATCCCCGACTTGCATATTCTGCCTCTCCGGTCGGCTGAGCG
*
28559463 CCCACACGCCCATTTCGTGGGTTGGCTTAGGCATA-GGTAGTTCATTCCATGTCTAAGCCCTAG-
66 CCCACACGCTCATTTCGTGGGTTGGCTTAGGCATACGG-AGTTCATTCCATGTCTAAGCCC-AGA
**
28559526 CTGGA-CTGAGGGTTGTGGCAGCGG
129 CCAGATC-GAGGGTTGT-G-AGCGG
* *
28559550 GACCGGCCGCACGCAGAGGGGGATCGGGCCGATCCCCGACTTACGCAT-TT-TGCCTCTCCGG-C
1 TA------GCACGCAG-GGGGGATCGGGTCGATCCCCGACTT--GCATATTCTGCCTCTCCGGTC
* * * * *
28559612 TGGCTGAGCGCCCGCACGCTCGTTTCATGGGTTGGATTAGGCATACGGAGTTCATTCAATGTCTA
57 -GGCTGAGCGCCCACACGCTCATTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTA
28559677 AGC
121 AGC
28559680 ATACGGAGTT
Statistics
Matches: 230, Mismatches: 28, Indels: 35
0.78 0.10 0.12
Matches are distributed among these distances:
145 7 0.03
146 98 0.43
147 12 0.05
148 1 0.00
151 1 0.00
152 4 0.02
158 9 0.04
159 90 0.39
160 4 0.02
161 4 0.02
ACGTcount: A:0.18, C:0.28, G:0.31, T:0.24
Consensus pattern (150 bp):
TAGCACGCAGGGGGGATCGGGTCGATCCCCGACTTGCATATTCTGCCTCTCCGGTCGGCTGAGCG
CCCACACGCTCATTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCCCAGACC
AGATCGAGGGTTGTGAGCGG
Found at i:28560410 original size:26 final size:26
Alignment explanation
Indices: 28560374--28560426 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
28560364 GTTCACTTAG
*
28560374 GCATACGGAGTTCATCCCCAGTCTAA
1 GCATACGGAGTACATCCCCAGTCTAA
*
28560400 GCATACGGAGTACATTCCCAGTCTAA
1 GCATACGGAGTACATCCCCAGTCTAA
28560426 G
1 G
28560427 ATCAAATCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (26 bp):
GCATACGGAGTACATCCCCAGTCTAA
Found at i:28560912 original size:26 final size:26
Alignment explanation
Indices: 28560876--28560928 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28560866 GTTGGCTTAG
* *
28560876 GCATACGGAGTTCATTCCATGTCTAA
1 GCATACAGAGTTAATTCCATGTCTAA
*
28560902 GCATACAGAGTTAATTCCCTGTCTAA
1 GCATACAGAGTTAATTCCATGTCTAA
28560928 G
1 G
28560929 ATCGGACTGG
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:0.23, G:0.19, T:0.30
Consensus pattern (26 bp):
GCATACAGAGTTAATTCCATGTCTAA
Found at i:28561260 original size:26 final size:26
Alignment explanation
Indices: 28561231--28561283 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28561221 GTTGACTTAG
28561231 GCATACGAAGTTCATCCCCAGTCTAA
1 GCATACGAAGTTCATCCCCAGTCTAA
* * *
28561257 GCATACGGAGTTCATTCCTAGTCTAA
1 GCATACGAAGTTCATCCCCAGTCTAA
28561283 G
1 G
28561284 ATCAAACCGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (26 bp):
GCATACGAAGTTCATCCCCAGTCTAA
Found at i:28561635 original size:26 final size:26
Alignment explanation
Indices: 28561599--28561651 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28561589 GTTGACTTAG
28561599 GCATACAGAGTTCA-TCCGCAGTCTAA
1 GCATACAGAGTTCATTCC-CAGTCTAA
*
28561625 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACAGAGTTCATTCCCAGTCTAA
28561651 G
1 G
28561652 ATCAGCCCAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (26 bp):
GCATACAGAGTTCATTCCCAGTCTAA
Found at i:28561819 original size:26 final size:26
Alignment explanation
Indices: 28561783--28561860 Score: 131
Period size: 26 Copynumber: 3.0 Consensus size: 26
28561773 GTTGGCTTAG
28561783 GCATACGGAGTTCATTCCATGTCTAA
1 GCATACGGAGTTCATTCCATGTCTAA
*
28561809 GCATATGGAGTTCATTCCATGTCTAA
1 GCATACGGAGTTCATTCCATGTCTAA
28561835 GCATACGGAGTTCATTCCCA-GTCTAA
1 GCATACGGAGTTCATT-CCATGTCTAA
28561861 AATTTTGAGC
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
26 46 0.94
27 3 0.06
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCATGTCTAA
Found at i:28563052 original size:26 final size:26
Alignment explanation
Indices: 28563022--28563077 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
28563012 GTTGACTTAG
28563022 GCATAC-AGAGTTCATCC-CTAGTCTAA
1 GCATACGA-AGTTCATCCTC-AGTCTAA
*
28563048 GCATACGAAGTTCATCCTCAGTGTAA
1 GCATACGAAGTTCATCCTCAGTCTAA
28563074 GCAT
1 GCAT
28563078 TGGGGGTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 25 0.93
27 2 0.07
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (26 bp):
GCATACGAAGTTCATCCTCAGTCTAA
Found at i:28568472 original size:159 final size:158
Alignment explanation
Indices: 28568202--28568853 Score: 493
Period size: 159 Copynumber: 4.1 Consensus size: 158
28568192 CCGACTGGGG
*
28568202 CTTAGACAT-GGAATGAACTCCCTATGCCTAAGCCACCCCACGAAAC-AGGCGTGCGGG-AGCTC
1 CTTAGAC-TGGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGA-GCGTGCGGGCA-CTC
* * * *
28568264 AGTAGGCCGGAGAGGCAGAATGCGCAAGTCGGGGATCGACTCGAGCCCCCCCTGTGTGCTACCGA
63 AGTCGGCCGGAGAGGCAGAATGCGCAAGTCGAGGATCG-CCCGATCCCCCCCTGTGTGCTACCGA
** * *
28568329 TCCTACTGCTGTAACCCTCGATCTGGTTCGAT
127 TCCCGCTGCTGCAACCCTCGGTCTGGTTCGAT
* * * *
28568361 CTTAGGCTGGGAATGAACTCCGTATGCCTAAGCCATCCCACGAAACGAGCGTACGGGCACTCAGT
1 CTTAGACTGGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCACTCAGT
* * * * * *
28568426 CGGTCGGAGAGGCAGAATGTGTAAGCCGAGGACCAGCCCGATCCCCCCC-GTGCTG-T--CTATC
66 CGGCCGGAGAGGCAGAATGCGCAAGTCGAGGATC-GCCCGATCCCCCCCTGTG-TGCTACCGATC
* * *
28568487 CCGCAG-TCGCAACCCTCGGTCTGGTCCAAT
129 CCGCTGCT-GCAACCCTCGGTCTGGTTCGAT
** ** * * * *
28568517 CTTAGACTGGGAATGAACTCTGTATGCCTAAATCAACCCACAAAATGAGCGTTCGGGCACTGAG-
1 CTTAGACTGGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCACTCAGT
* * * * * * * * * *
28568581 CTGGTCAGAGAGACATAATACGCAAGTTGAGGATCGGCCCGGTCCCCCTCTGCGTGCTACCGGTC
66 C-GGCCGGAGAGGCAGAATGCGCAAGTCGAGGATC-GCCCGATCCCCCCCTGTGTGCTACCGATC
* ** * * * **
28568646 CGGCTGCCACAACCCTCGGTCCGGCTGGGG
129 CCGCTGCTGCAACCCTCGGTCTGGTTCGAT
* **
28568676 CTTAGACAT-GGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGGGCGTGCGGGTGCTCAG
1 CTTAGAC-TGGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCACTCAG
* * * * * * * * * *
28568740 CCGGCCGGATAGGCAGAATGCACAAGCCGGGGATCGGCCTGA-CCCTCTCTGCGTGCTGCCGATC
65 TCGGCCGGAGAGGCAGAATGCGCAAGTCGAGGATC-GCCCGATCCCCCCCTGTGTGCTACCGATC
* * * * *
28568804 CTGTTG-TCACAACCCTCGATCCGG-TCTGAT
129 CCGCTGCT-GCAACCCTCGGTCTGGTTC-GAT
*
28568834 CTTAGATTGGGAATGAACTC
1 CTTAGACTGGGAATGAACTC
28568854 TGTACACTTA
Statistics
Matches: 386, Mismatches: 90, Indels: 35
0.76 0.18 0.07
Matches are distributed among these distances:
155 2 0.01
156 118 0.31
157 5 0.01
158 61 0.16
159 195 0.51
160 5 0.01
ACGTcount: A:0.22, C:0.31, G:0.28, T:0.19
Consensus pattern (158 bp):
CTTAGACTGGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCACTCAGT
CGGCCGGAGAGGCAGAATGCGCAAGTCGAGGATCGCCCGATCCCCCCCTGTGTGCTACCGATCCC
GCTGCTGCAACCCTCGGTCTGGTTCGAT
Found at i:28568863 original size:26 final size:26
Alignment explanation
Indices: 28568834--28568883 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
28568824 CCGGTCTGAT
*
28568834 CTTAGATTGGGAATGAACTCTGTACA
1 CTTAGACTGGGAATGAACTCTGTACA
*
28568860 CTTAGACTGGGGATGAACTCTGTA
1 CTTAGACTGGGAATGAACTCTGTA
28568884 TGCCTAAGTC
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:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCTGTACA
Found at i:28569439 original size:159 final size:156
Alignment explanation
Indices: 28569010--28569498 Score: 446
Period size: 158 Copynumber: 3.1 Consensus size: 156
28569000 CTTGCTGCCC
* * *
28569010 CAACCCTCGATCCGACTGGGGCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAA
1 CAACCCTCGGTCCGATTGGGGCTTAGACATGGAATGAACTCCATATGCCTAAGCCAACCCACGAA
* * * * ** * * ** *
28569075 ACGAGTGTGCGGGCGCTCAACCAATCGGAGAGGCAGAATGTGTAAGCCAAGGACCGGCCCGGTCC
66 ACGAGCGTGCGGGCGCTCAGCCGA-CCGAGAGGCAGAATG-CAAAGTCGAGGATTGGCCCGATCC
* * **
28569140 CTCCTGCGTGCTATCGATCTTAC-AGTTG
129 CCCCTGCGTGCTATCGATCCTACTA-CCG
* * ** *
28569168 CAACCCTTGGTCCGGTCT-GATCTTAGAC-TAGGAATGAACTCCATATGCCTAAGTCAACCCACG
1 CAACCCTCGGTCCGAT-TGGGGCTTAGACAT-GGAATGAACTCCATATGCCTAAGCCAACCCACG
* ** * * * * * *
28569231 AAACGAGCGTTCGAACACTGAGCCAGTCAGAGAGGCATAATACGAAAGTCGAGGATTGGCCCGAT
64 AAACGAGCGTGCGGGCGCTCAGCC-GACCGAGAGGCAGAATGC-AAAGTCGAGGATTGGCCCGAT
* * *
28569296 CCCCCTCTGCGTGCTATCGGTCCTGCTACCA
127 CCCCC-CTGCGTGCTATCGATCCTACTACCG
* *
28569327 CAACCCTCGGTCCGATTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCATGAA
1 CAACCCTCGGTCCGATTGGGGCTTAGACATGGAATGAACTCCATATGCCTAAGCCAACCCACGAA
* * * *
28569392 AC-AGGCGTGCGGGTGCTCAGTCGACCGAATAGGCAGAATGCACAAGTCGGGGATTGGCCCGATC
66 ACGA-GCGTGCGGGCGCTCAGCCGACCG-AGAGGCAGAATGCA-AAGTCGAGGATTGGCCCGATC
* * **
28569456 CTCCCTGCGTGCTGTCGATCCTACTGTCG
128 CCCCCTGCGTGCTATCGATCCTACTACCG
28569485 CAACCCTCGGTCCG
1 CAACCCTCGGTCCG
28569499 GTCTGATCTT
Statistics
Matches: 259, Mismatches: 61, Indels: 22
0.76 0.18 0.06
Matches are distributed among these distances:
157 1 0.00
158 138 0.53
159 118 0.46
160 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.26, T:0.20
Consensus pattern (156 bp):
CAACCCTCGGTCCGATTGGGGCTTAGACATGGAATGAACTCCATATGCCTAAGCCAACCCACGAA
ACGAGCGTGCGGGCGCTCAGCCGACCGAGAGGCAGAATGCAAAGTCGAGGATTGGCCCGATCCCC
CCTGCGTGCTATCGATCCTACTACCG
Found at i:28569477 original size:672 final size:676
Alignment explanation
Indices: 28568370--28569806 Score: 1934
Period size: 672 Copynumber: 2.1 Consensus size: 676
28568360 TCTTAGGCTG
* * * ** *
28568370 GGAATGAACTCCGTATGCCTAAGCCATCCCACGAAACGAGCGTACGGGCACTCAGTCGGTCGGAG
1 GGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAACCGATCGGAG
* * * *
28568435 AGGCAGAATGTGTAAGCCGAGGACCAGCCCGATCCCCCCCGTGCTGTCTATCCCGCAGTCGCAAC
66 AGGCAGAATGTGTAAGCCAAGGACCAGCCCGATCCCCCCCGTGCTATCGATCCCACAGTCGCAAC
* * ** *
28568500 CCTCGGTCTGGTCCAATCTTAGACTGGGAATGAACTCTGTATGCCTAAATCAACCCACAAAATGA
131 CCTCGGTCCGGTCCAATCTTAGACTAGGAATGAACTCCATATGCCTAAATCAACCCACAAAACGA
** ** * * *
28568565 GCGTTCGGGCACTGAGCTGGTCAGAGAGACATAATACGCAAGTTGAGGATCGGCCCGGTCCCCCT
196 GCGTTCGAACACTGAGCCAGTCAGAGAGACATAATACGAAAGTCGAGGATCGGCCCGATCCCCCT
* *
28568630 CTGCGTGCTACCGGTCCGGCTGCCACAACCCTCGGTCCGGCTGGGGCTTAGACATGGAATGAACT
261 CTGCGTGCTACCGGTCCGGCTACCACAACCCTCGGTCCGACTGGGGCTTAGACATGGAATGAACT
* * *
28568695 CCCTATGCCTAAGCCAACCCACGAAACGGGCGTGCGGGTGCTCAGCCGGCCGGATAGGCAGAATG
326 CCCTATGCCTAAGCCAACCCACGAAACAGGCGTGCGGGTGCTCAGCCGACCGAATAGGCAGAATG
* * **
28568760 CACAAGCCGGGGATCGGCCTGACCCTCTCTGCGTGCTGCCGATCCTGTTGTCACAACCCTCGATC
391 CACAAGCCGGGGATCGGCCCGACCCTCCCTGCGTGCTGCCGATCCTACTGTCACAACCCTCGATC
* *
28568825 CGGTCTGATCTTAGATTGGGAATGAACTCTGTACACTTAGACTGGGGATGAACTCTGTATGCCTA
456 CGGTCTGATCTTAGACTGGGAATGAACTCTGTACACTTAGACTGGGGATGAACTCCGTATGCCTA
* * *
28568890 AGTCAACCCACAAAATAAACGTGC-G-G-A-CGTTC-A-GCTGACCGGAGAGGCATAATGCATAA
521 AGTCAACCCACAAAACAAACGTGCGGTGCACCGGTCGAGGCCGACCGGAGAGGCATAATGCATAA
* * * ** ** * * *
28568949 GCCGGGGATCAGCCTAG-TCCCCCTCTACGTCCTGCCGATCCTGCTGTCGGTCTTGCTGCCCCAA
586 GCCGAGGATCA-ACTAGATCCCCCTCTACGTCATGCCGATCCCACTACCGGTCCTGCTACCACAA
*
28569013 CCCTCGATCCGACTGGGGCTTAGACAT
650 CCCTCAATCCGACTGGGGCTTAGACAT
* *
28569040 GGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGTGTGCGGGCGCTCAACCAATCGGAG
1 GGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAACCGATCGGAG
* * * ** *
28569105 AGGCAGAATGTGTAAGCCAAGGACCGGCCCGGTCCCTCCTGCGTGCTATCGATCTTACAGTTGCA
66 AGGCAGAATGTGTAAGCCAAGGACCAGCCCGATCCC-CC-CCGTGCTATCGATCCCACAGTCGCA
* ** * *
28569170 ACCCTTGGTCCGGTCTGATCTTAGACTAGGAATGAACTCCATATGCCTAAGTCAACCCACGAAAC
129 ACCCTCGGTCCGGTCCAATCTTAGACTAGGAATGAACTCCATATGCCTAAATCAACCCACAAAAC
* *
28569235 GAGCGTTCGAACACTGAGCCAGTCAGAGAGGCATAATACGAAAGTCGAGGATTGGCCCGATCCCC
194 GAGCGTTCGAACACTGAGCCAGTCAGAGAGACATAATACGAAAGTCGAGGATCGGCCCGATCCCC
* * *
28569300 CTCTGCGTGCTATCGGTCCTGCTACCACAACCCTCGGTCCGATTGGGGCTTAGACATGGAATGAA
259 CTCTGCGTGCTACCGGTCCGGCTACCACAACCCTCGGTCCGACTGGGGCTTAGACATGGAATGAA
* *
28569365 CTCCCTATGCCTAAGCCAACCCATGAAACAGGCGTGCGGGTGCTCAGTCGACCGAATAGGCAGAA
324 CTCCCTATGCCTAAGCCAACCCACGAAACAGGCGTGCGGGTGCTCAGCCGACCGAATAGGCAGAA
* * * * * *
28569430 TGCACAAGTCGGGGATTGGCCCGATCCTCCCTGCGTGCTGTCGATCCTACTGTCGCAACCCTCGG
389 TGCACAAGCCGGGGATCGGCCCGACCCTCCCTGCGTGCTGCCGATCCTACTGTCACAACCCTCGA
*
28569495 TCCGGTCTGATCTTAGACTGGGAATGAACTCTGTATACTTAGACTGGGGATGAACTCCGTATGCC
454 TCCGGTCTGATCTTAGACTGGGAATGAACTCTGTACACTTAGACTGGGGATGAACTCCGTATGCC
** * * **
28569560 TAAGTCAACCCATTAAACGAGCGTGCGGGTGCTCAACCGGTCGGTAGGCCGGTCGGAGAGGCATA
519 TAAGTCAACCCACAAAACAAACGTGC-GGTG--C-ACCGGTC-G-AGGCCGACCGGAGAGGCATA
* * * * *
28569625 ATGCGTAAGCCGAGGATCAACTCGATCCCTCTTTACGTTATGCCGATCCCACTACCGGTCCTGCT
578 ATGCATAAGCCGAGGATCAACTAGATCCCCCTCTACGTCATGCCGATCCCACTACCGGTCCTGCT
*
28569690 ACCACAACCCTCAATCCGGCTGGGGCTTAGACAT
643 ACCACAACCCTCAATCCGACTGGGGCTTAGACAT
* * *
28569724 GGACTGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCAGGCGCTCAACCGATCGAAG
1 GGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAACCGATCGGAG
*
28569789 AGGCAGAATGCGTAAGCC
66 AGGCAGAATGTGTAAGCC
28569807 GGGGATCAGT
Statistics
Matches: 660, Mismatches: 92, Indels: 16
0.86 0.12 0.02
Matches are distributed among these distances:
670 90 0.14
671 2 0.00
672 387 0.59
674 1 0.00
675 1 0.00
679 1 0.00
680 4 0.01
683 4 0.01
684 170 0.26
ACGTcount: A:0.24, C:0.30, G:0.27, T:0.20
Consensus pattern (676 bp):
GGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAACCGATCGGAG
AGGCAGAATGTGTAAGCCAAGGACCAGCCCGATCCCCCCCGTGCTATCGATCCCACAGTCGCAAC
CCTCGGTCCGGTCCAATCTTAGACTAGGAATGAACTCCATATGCCTAAATCAACCCACAAAACGA
GCGTTCGAACACTGAGCCAGTCAGAGAGACATAATACGAAAGTCGAGGATCGGCCCGATCCCCCT
CTGCGTGCTACCGGTCCGGCTACCACAACCCTCGGTCCGACTGGGGCTTAGACATGGAATGAACT
CCCTATGCCTAAGCCAACCCACGAAACAGGCGTGCGGGTGCTCAGCCGACCGAATAGGCAGAATG
CACAAGCCGGGGATCGGCCCGACCCTCCCTGCGTGCTGCCGATCCTACTGTCACAACCCTCGATC
CGGTCTGATCTTAGACTGGGAATGAACTCTGTACACTTAGACTGGGGATGAACTCCGTATGCCTA
AGTCAACCCACAAAACAAACGTGCGGTGCACCGGTCGAGGCCGACCGGAGAGGCATAATGCATAA
GCCGAGGATCAACTAGATCCCCCTCTACGTCATGCCGATCCCACTACCGGTCCTGCTACCACAAC
CCTCAATCCGACTGGGGCTTAGACAT
Found at i:28569535 original size:26 final size:26
Alignment explanation
Indices: 28569506--28569556 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
28569496 CCGGTCTGAT
*
28569506 CTTAGACTGGGAATGAACTCTGTATA
1 CTTAGACTGGGAATGAACTCCGTATA
*
28569532 CTTAGACTGGGGATGAACTCCGTAT
1 CTTAGACTGGGAATGAACTCCGTAT
28569557 GCCTAAGTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATA
Found at i:28570108 original size:26 final size:26
Alignment explanation
Indices: 28570079--28570131 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28570069 CCGATCTGAT
*
28570079 CTTAGAC-TGGGAATGAACTCTGTATG
1 CTTAGACAT-GGAATGAACTCCGTATG
28570105 CTTAGACATGGAATGAACTCCGTATG
1 CTTAGACATGGAATGAACTCCGTATG
28570131 C
1 C
28570132 CCAAGCCTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (26 bp):
CTTAGACATGGAATGAACTCCGTATG
Found at i:28570288 original size:390 final size:390
Alignment explanation
Indices: 28569714--28570618 Score: 1054
Period size: 390 Copynumber: 2.3 Consensus size: 390
28569704 TCCGGCTGGG
* *
28569714 GCTTAGACATGGACTGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCAGGCGCTCAA
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACAAAACGAGCGTGCAGGCGCTCAA
* ** * * * * *
28569779 CCGATCGAAGAGGCAGAATGCGTAAGCCGGGGATCAGTCTGATCCCCCCTGCGTGTTGTCGATCC
66 CCGATCGAAGAGGCAGAACGCACAAGCCGGGGATCAGACCGATCCCCCCTACGTGCTATCGATCC
* * *
28569844 TGCTGCTGGTCCTACTGCCTAACCCTTGGTCCGATCTGATCTTAGATTGGAATGAACTCTGTATG
131 TGCTACTGGTCCTACTGCCTAACCCTTGATCCGATCTGATCTTAGATGGGAATGAACTCTGTATG
* * * * *
28569909 CTTAGACATGGAATGAACTCTGTATGCCTAAGCCAACCCATAAAATGAGAGTGCGGGTGCTCAGC
196 CTTAGACATGGAATAAACTCCGTATGCCTAAGCCAACCCACAAAACGAGAGTGCGGGCGCTCAGC
* * ** * * *
28569974 CGGCCTG-AGAGGTAGAATGCATAAG-CTGGGGATTGACCCGGCTCCC-GCTGCATGCTGTCGAT
261 CAGCC-GAAGAGGTAGAATGCATAAGTC-GAGGACCGACCC-GATCCCTCCTACATGCTGTCGAT
* * **
28570036 CCTGCTACTGGTCCTACTGCCGCAACCCTCGGTCCGATCTGATCTTAGACTGGGAATGAACTCTG
323 CCTACTACTGGTCCTACTGCCGCAACCCTCAGTCCGATCCAATCTTAGACTGGGAATGAACTCTG
28570101 TAT
388 TAT
* * * *
28570104 GCTTAGACATGGAATGAACTCCGTATGCCCAAGCCTACCCACAAAACGAGCGTGC-GGTGCTCGA
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACAAAACGAGCGTGCAGGCGCTCAA
* * * *
28570168 CCGATCGAAGAGGTAGAACGCACAAGTCGGGGAT-TGAACCGGT-CCCCCTACGTGCTATCGATC
66 CCGATCGAAGAGGCAGAACGCACAAGCCGGGGATCAG-ACCGATCCCCCCTACGTGCTATCGATC
** * * *
28570231 CTGCTACTGGTCCTGGTATCGC-AACCCTTGATCCAGTTC-GATCTTTGACTGGGAATGAACTCT
130 CTGCTACTGGTCCTACT-GC-CTAACCCTTGATCC-GATCTGATCTTAGA-TGGGAATGAACTCT
* * *
28570294 GTATTCTTAGACATGGAATAAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGC
191 GTATGCTTAGACATGGAATAAACTCCGTATGCCTAAGCCAACCCACAAAACGAGAGTGCGGGCGC
* * *
28570359 TCAGCCAGTCGAAGAGGTAGAATGCGTAAGTCGAGGACCGACCCGATCCCTCCTACGTGCTGTCG
256 TCAGCCAGCCGAAGAGGTAGAATGCATAAGTCGAGGACCGACCCGATCCCTCCTACATGCTGTCG
** * * *
28570424 ATCCTACTGTTGGTCCTGCTGTCGTAACCCTCAGTCCGATCCAATCTTAGACTGGGAATGAACTC
321 ATCCTACTACTGGTCCTACTGCCGCAACCCTCAGTCCGATCCAATCTTAGACTGGGAATGAACTC
28570489 TGTAT
386 TGTAT
** * * *
28570494 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATTAAACGAGCGTTCGGGCATGCTG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACAAAACGAGCGTGCAGGC--GCTC
* * * * * * *
28570559 AGCCAATCGGAGAGGCATAATGCACAAGCAGGGGATC-GACCCGATCCCCCTCTATGTGCT
64 AACCGATCGAAGAGGCAGAACGCACAAGCCGGGGATCAGA-CCGATCCCCC-CTACGTGCT
28570619 GCTGGTCCCG
Statistics
Matches: 429, Mismatches: 71, Indels: 25
0.82 0.14 0.05
Matches are distributed among these distances:
388 32 0.07
389 65 0.15
390 281 0.66
391 3 0.01
392 1 0.00
393 35 0.08
394 4 0.01
395 8 0.02
ACGTcount: A:0.24, C:0.28, G:0.26, T:0.22
Consensus pattern (390 bp):
GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACAAAACGAGCGTGCAGGCGCTCAA
CCGATCGAAGAGGCAGAACGCACAAGCCGGGGATCAGACCGATCCCCCCTACGTGCTATCGATCC
TGCTACTGGTCCTACTGCCTAACCCTTGATCCGATCTGATCTTAGATGGGAATGAACTCTGTATG
CTTAGACATGGAATAAACTCCGTATGCCTAAGCCAACCCACAAAACGAGAGTGCGGGCGCTCAGC
CAGCCGAAGAGGTAGAATGCATAAGTCGAGGACCGACCCGATCCCTCCTACATGCTGTCGATCCT
ACTACTGGTCCTACTGCCGCAACCCTCAGTCCGATCCAATCTTAGACTGGGAATGAACTCTGTAT
Found at i:28570491 original size:196 final size:195
Alignment explanation
Indices: 28569714--28570609 Score: 995
Period size: 194 Copynumber: 4.6 Consensus size: 195
28569704 TCCGGCTGGG
* * * *
28569714 GCTTAGACATGGACTGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCAGGCGCTCAA
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACAAAACGAGCGTGCGGGCGCTCAG
* * * * * * *
28569779 CCGATCGAAGAGGCAGAATGCGTAAGCCGGGGATC-AGTCTGATCCCCCCTGCGTGTTGTCGATC
66 CCGATCGAAGAGGTAGAATGCATAAGTCGGGGATCGA-CCCGAT-CCCCCTACGTGCTGTCGATC
* * * *
28569843 CTGCTGCTGGTCCTACTG-C-CTAACCCTTGGTCCGATCTGATCTTAGA-TTGGAATGAACTCTG
129 CTGCTACTGGTCCTACTGTCGC-AACCCTCGGTCCGATCCGATCTTAGACTGGGAATGAACTCTG
28569905 TAT
193 TAT
* * * * *
28569908 GCTTAGACATGGAATGAACTCTGTATGCCTAAGCCAACCCATAAAATGAGAGTGCGGGTGCTCAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACAAAACGAGCGTGCGGGCGCTCAG
** * * * * *
28569973 CCGGCCTG-AGAGGTAGAATGCATAAG-CTGGGGATTGACCCGGCTCCCGCTGCATGCTGTCGAT
66 CCGATC-GAAGAGGTAGAATGCATAAGTC-GGGGATCGACCC-GATCCCCCTACGTGCTGTCGAT
* *
28570036 CCTGCTACTGGTCCTACTGCCGCAACCCTCGGTCCGATCTGATCTTAGACTGGGAATGAACTCTG
128 CCTGCTACTGGTCCTACTGTCGCAACCCTCGGTCCGATCCGATCTTAGACTGGGAATGAACTCTG
28570101 TAT
193 TAT
* * *
28570104 GCTTAGACATGGAATGAACTCCGTATGCCCAAGCCTACCCACAAAACGAGCGTGC-GGTGCTC-G
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACAAAACGAGCGTGCGGGCGCTCAG
* * * * * *
28570167 ACCGATCGAAGAGGTAGAACGCACAAGTCGGGGATTGAACCGGTCCCCCTACGTGCTATCGATCC
66 -CCGATCGAAGAGGTAGAATGCATAAGTCGGGGATCGACCCGATCCCCCTACGTGCTGTCGATCC
** * * * * *
28570232 TGCTACTGGTCCTGGTATCGCAACCCTTGATCC-AGTTCGATCTTTGACTGGGAATGAACTCTGT
130 TGCTACTGGTCCTACTGTCGCAACCCTCGGTCCGA-TCCGATCTTAGACTGGGAATGAACTCTGT
28570296 AT
194 AT
* * *
28570298 TCTTAGACATGGAATAAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACAAAACGAGCGTGCGGGCGCTCAG
* * *
28570363 CC-AGTCGAAGAGGTAGAATGCGTAAGTCGAGGACCGACCCGATCCCTCCTACGTGCTGTCGATC
66 CCGA-TCGAAGAGGTAGAATGCATAAGTCGGGGATCGACCCGATCCC-CCTACGTGCTGTCGATC
* ** * * * *
28570427 CTACTGTTGGTCCTGCTGTCGTAACCCTCAGTCCGATCCAATCTTAGACTGGGAATGAACTCTGT
129 CTGCTACTGGTCCTACTGTCGCAACCCTCGGTCCGATCCGATCTTAGACTGGGAATGAACTCTGT
28570492 AT
194 AT
** * *
28570494 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATTAAACGAGCGTTCGGGCATGCTG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACAAAACGAGCGTGCGGGC--GCTC
* * * * *
28570559 AGCCAATCGGAGAGGCATAATGCACAAG-CAGGGGATCGACCCGATCCCCCT
64 AGCCGATCGAAGAGGTAGAATGCATAAGTC-GGGGATCGACCCGATCCCCCT
28570610 CTATGTGCTG
Statistics
Matches: 594, Mismatches: 88, Indels: 37
0.83 0.12 0.05
Matches are distributed among these distances:
193 2 0.00
194 244 0.41
195 110 0.19
196 192 0.32
197 5 0.01
198 40 0.07
199 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.26, T:0.22
Consensus pattern (195 bp):
GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACAAAACGAGCGTGCGGGCGCTCAG
CCGATCGAAGAGGTAGAATGCATAAGTCGGGGATCGACCCGATCCCCCTACGTGCTGTCGATCCT
GCTACTGGTCCTACTGTCGCAACCCTCGGTCCGATCCGATCTTAGACTGGGAATGAACTCTGTAT
Found at i:28570507 original size:26 final size:26
Alignment explanation
Indices: 28570469--28570521 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28570459 CCGATCCAAT
*
28570469 CTTAGACTGGGAATGAACTCTGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28570495 CTTAGACAT-GGAATGAACTCCGTATG
1 CTTAGAC-TGGGAATGAACTCCGTATG
28570521 C
1 C
28570522 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:0.19, G:0.25, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28570840 original size:158 final size:160
Alignment explanation
Indices: 28570494--28570840 Score: 384
Period size: 158 Copynumber: 2.2 Consensus size: 160
28570484 AACTCTGTAT
* * *
28570494 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATTAAACGAGCGTTCGGGCATGCTG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAACCCAACCCATGAAACGAGCGTTCGGG-ATGCTC
* * *
28570559 AGCCAATCGGAGAGGCATAATGCACAAGCAGGGGATCGACCCGATCCCCCTCTATGTGCTGCTGG
65 AGCCAATCGGAGAGGCAGAATGCACAAGCAGGGGATCGACCCGATCCCCCTCTACGTGCTGCTGA
* ** *
28570624 TCCCGCTGCCACAACCCTCGATCCAGTTGGG
130 TCCCGCTACCACAACCCTCGATCCAGTCCGA
* * * *
28570655 GGTTAGACATGGAATGAACTCCCTATGCCTAACCCAACCCATGAAATGGGC-TTGCGGG-TGCTC
1 GCTTAGACATGGAATGAACTCCGTATGCCTAACCCAACCCATGAAACGAGCGTT-CGGGATGCTC
* * *
28570718 AGCCAA-CTGGAGAGGCAGAATGCGCAAGTC-GGGGATCGACCCGAT-CCCCTCTACGTTCT-TT
65 AGCCAATC-GGAGAGGCAGAATGCACAAG-CAGGGGATCGACCCGATCCCCCTCTACGTGCTGCT
* * * * *
28570779 CGATCCTGCTATCGCAACCCTCGCTCCGGTCCGA
128 -GATCCCGCTACCACAACCCTCGATCCAGTCCGA
*
28570813 TCTTAGAC-TGGGAATGAACTCCGTATGC
1 GCTTAGACAT-GGAATGAACTCCGTATGC
28570841 TTAGACTGGG
Statistics
Matches: 156, Mismatches: 25, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
157 2 0.01
158 59 0.38
159 43 0.28
160 3 0.02
161 49 0.31
ACGTcount: A:0.23, C:0.30, G:0.26, T:0.21
Consensus pattern (160 bp):
GCTTAGACATGGAATGAACTCCGTATGCCTAACCCAACCCATGAAACGAGCGTTCGGGATGCTCA
GCCAATCGGAGAGGCAGAATGCACAAGCAGGGGATCGACCCGATCCCCCTCTACGTGCTGCTGAT
CCCGCTACCACAACCCTCGATCCAGTCCGA
Found at i:28570844 original size:26 final size:26
Alignment explanation
Indices: 28570814--28570864 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
28570804 CCGGTCCGAT
28570814 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
*
28570840 CTTAGACTGGGGATGAACTCCGTAT
1 CTTAGACTGGGAATGAACTCCGTAT
28570865 ACCTAAGTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28572011 original size:26 final size:26
Alignment explanation
Indices: 28571982--28572034 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28571972 CTGGTCCGAT
*
28571982 CTTAGACT-GGGAATGAACTCTGTATG
1 CTTAGACTAGGG-ATGAACTCCGTATG
28572008 CTTAGACTAGGGATGAACTCCGTATG
1 CTTAGACTAGGGATGAACTCCGTATG
28572034 C
1 C
28572035 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:28572292 original size:171 final size:171
Alignment explanation
Indices: 28572007--28572417 Score: 474
Period size: 171 Copynumber: 2.4 Consensus size: 171
28571997 AACTCTGTAT
* * ** * *
28572007 GCTTAGAC-TAGGGATGAACTCCGTATGCCTAAGTCAACCCATGAAATGAGCATACGGGTGCTCA
1 GCTTAGACAT-GGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACAAGCGTGCGGGTGCTCA
** * * ** * *
28572071 ACCGGTCGGAGAGACATATTGTGAAAGCCAGGGATCAGCCCAGTCCCCCTCTACGTGCTG-CTGA
65 ACCGACCGGAGAGACAAAATGACAAAACCAGGGATCAGCCCAGCCCCCCTCTACGTGCTGCCT-A
* **
28572135 TC-CTGCTGCCGGTCCTGCTGCCACAACCCTCGGTCCGGTTGGG
129 TCTC-GCTGCCAGTCCTGCTGCCACAACCCTCGGTCCGACTGGG
28572178 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACAAGCGTGCGGGTGCTCAA
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACAAGCGTGCGGGTGCTCAA
* * *
28572243 CCGACC-GAGAAGGCAAAAT-ACACAAACC-GAGGATCAGCCCCGCCCCCCTCTATGTGCTGCCT
66 CCGACCGGAG-AGACAAAATGACA-AAACCAG-GGATCAGCCCAGCCCCCCTCTACGTGCTGCCT
28572305 ATCTCGCTGCCAGTCCTGCTGCCACAACCCTCGGTCCGACTGGG
128 ATCTCGCTGCCAGTCCTGCTGCCACAACCCTCGGTCCGACTGGG
* * * ** * * *
28572349 GCTTAGACATGGAATGAACTTCGTACGCCTAAGCCAACCAACAAAACAAGCGTGCAGGCGCTCAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACAAGCGTGCGGGTGCTCAA
28572414 CCGA
66 CCGA
28572418 TCGAAGAGGC
Statistics
Matches: 206, Mismatches: 28, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
170 5 0.02
171 197 0.96
172 4 0.02
ACGTcount: A:0.25, C:0.32, G:0.25, T:0.18
Consensus pattern (171 bp):
GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACAAGCGTGCGGGTGCTCAA
CCGACCGGAGAGACAAAATGACAAAACCAGGGATCAGCCCAGCCCCCCTCTACGTGCTGCCTATC
TCGCTGCCAGTCCTGCTGCCACAACCCTCGGTCCGACTGGG
Found at i:28573770 original size:26 final size:26
Alignment explanation
Indices: 28573733--28573784 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28573723 GCTCAAAATA
*
28573733 TTAGACTGGGAATGAACTTCGTATGC
1 TTAGACTGGGAATGAACTCCGTATGC
28573759 TTAGACAT-GGAATGAACTCCGTATGC
1 TTAGAC-TGGGAATGAACTCCGTATGC
28573785 CTAAGCCAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 23 0.96
27 1 0.04
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (26 bp):
TTAGACTGGGAATGAACTCCGTATGC
Found at i:28574112 original size:159 final size:157
Alignment explanation
Indices: 28573757--28574146 Score: 419
Period size: 158 Copynumber: 2.5 Consensus size: 157
28573747 AACTTCGTAT
* * * *
28573757 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCAATGAAATGAGCGTGCGGGCGCTAAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCG-TTAG
* * **
28573822 CCGGTCGAAGAGGCACAATACGTAAGACAGGGATCGACCCGGTCCCCCCTGCGTGCTGTCGATCC
65 CCGGCCGAAGAGGCACAATACGTAAGACAGGGATCGACCCGATCCCCCCTGCGTGCTACCGATCC
*
28573887 TGCTGCCATAACCCTCGATCTGGTCTGA
130 TGCTGCCATAACCCTCGATCTGGACTGA
* * * *
28573915 TCTTAGAC-TGGGAATGAACTCCGTATGCATAAGTCAACCCACGAAACCAGCGTGCGGGCGTTGA
1 GCTTAGACAT-GGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGTT-A
* * * * * * *
28573979 GCCGGCCGAAGAGGCATAATGCGTAAGTC-GAGGATCGGCTCGATCCCCCTCTGTGTGCTACCGG
64 GCCGGCCGAAGAGGCACAATACGTAAGACAG-GGATCGACCCGATCCCCC-CTGCGTGCTACCGA
* * * *
28574043 TTCTGCTGGCATAACCCTC-AGT-TTGACTGGG
127 TCCTGCTGCCATAACCCTCGA-TCTGGACT-GA
* * * * *
28574074 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACAAAACGGGCATGCGGGTGCTTAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCG-TTAG
28574139 CCGGCCGA
65 CCGGCCGA
28574147 GAGCAGAAAT
Statistics
Matches: 191, Mismatches: 33, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
157 3 0.02
158 97 0.51
159 88 0.46
160 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.28, T:0.20
Consensus pattern (157 bp):
GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGTTAGC
CGGCCGAAGAGGCACAATACGTAAGACAGGGATCGACCCGATCCCCCCTGCGTGCTACCGATCCT
GCTGCCATAACCCTCGATCTGGACTGA
Found at i:28576084 original size:26 final size:26
Alignment explanation
Indices: 28576046--28576098 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28576036 TCGGTCCAAT
*
28576046 CTTAGACTGGGAATGAACTCTATATG
1 CTTAGACTGGGAATGAACTCCATATG
28576072 CTTAGACAT-GGAATGAACTCCATATG
1 CTTAGAC-TGGGAATGAACTCCATATG
28576098 C
1 C
28576099 CTAATCCAAC
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:0.19, G:0.21, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCATATG
Found at i:28576588 original size:26 final size:26
Alignment explanation
Indices: 28576550--28576599 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
28576540 GTCTGATCTT
28576550 AGACTGGGAATGAACTTCGTATGCTC
1 AGACTGGGAATGAACTTCGTATGCTC
*
28576576 AGACTGGGGATGAACTTCGTATGC
1 AGACTGGGAATGAACTTCGTATGC
28576600 CTAAGACAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (26 bp):
AGACTGGGAATGAACTTCGTATGCTC
Found at i:28576606 original size:27 final size:26
Alignment explanation
Indices: 28576550--28576606 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
28576540 GTCTGATCTT
*
28576550 AGACTGGGAATGAACTTCGTATGCTC
1 AGACTGGGAATGAACTTCGTATGCTA
*
28576576 AGACTGGGGATGAACTTCGTATGCCTA
1 AGACTGGGAATGAACTTCGTATG-CTA
28576603 AGAC
1 AGAC
28576607 AACCCACGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
26 22 0.79
27 6 0.21
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (26 bp):
AGACTGGGAATGAACTTCGTATGCTA
Found at i:28576711 original size:12 final size:12
Alignment explanation
Indices: 28576694--28576719 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
28576684 CCTCTGCATG
28576694 CTACCGATCCTA
1 CTACCGATCCTA
28576706 CTACCGATCCTA
1 CTACCGATCCTA
28576718 CT
1 CT
28576720 GCCACAACCC
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:0.23, C:0.42, G:0.08, T:0.27
Consensus pattern (12 bp):
CTACCGATCCTA
Found at i:28576955 original size:26 final size:26
Alignment explanation
Indices: 28576904--28576956 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
28576894 CGATTCCGAT
**
28576904 CTTAGACTGGGAATGAACTCTGTATG
1 CTTAGACTGGGAATGAACTCCATATG
28576930 CTTAGACAT-GGAATGAACTCCATATG
1 CTTAGAC-TGGGAATGAACTCCATATG
28576956 C
1 C
28576957 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:28577387 original size:157 final size:157
Alignment explanation
Indices: 28576929--28577429 Score: 526
Period size: 157 Copynumber: 3.2 Consensus size: 157
28576919 AACTCTGTAT
* * * * *
28576929 GCTTAGACATGGAATGAACTCCATATGCCTAAGCCAACCCACGAAACGAGCGTGCAGGCGCTCAA
1 GCTTAGACATGGAATGAACTCCATATGCCTAAGCCAACCCATGAAACGAGCATGCGGGCACTCAG
* * * * * *
28576994 TCGGTCGGAGAGGCAGAATGCGCAAGCCAGGGATCGGCCTGGTCCCCCCCTGTATGATGTCGATC
66 CCGGCCGGAGAGGCAGAATGCGCAAGCCGGGGATCGGCC-GGT-CCCCCCTGTGTGCTGCCGATC
*
28577059 CTACTACTGTAACCCTCGATCCGGTCTGA
129 CTACTGCTGTAACCCTCGATCCGGTCTGA
* * * * * *
28577088 TCTTAGAC-TGGAATGAACTCCGTATGCCTAAGTCAACCCATGAAATGAGCATCCGGGCACTGAG
1 GCTTAGACATGGAATGAACTCCATATGCCTAAGCCAACCCATGAAACGAGCATGCGGGCACTCAG
* *
28577152 CCGGCCGGA-AGGGCATAATGCGCAAGCCGGGG-TCGGCCCGGTCCCCCTCTGTGTGCTGCTGAT
66 CCGGCCGGAGA-GGCAGAATGCGCAAGCCGGGGATCGG-CCGGTCCCCC-CTGTGTGCTGCCGAT
** *** * *
28577215 CCCGCTGCCACAACCCTCGGTCCGGT-TGG
128 CCTACTGCTGTAACCCTCGATCCGGTCTGA
* *
28577244 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAACGGGCATGCGGGCACTCAG
1 GCTTAGACATGGAATGAACTCCATATGCCTAAGCCAACCCATGAAACGAGCATGCGGGCACTCAG
* * * * * * *
28577309 CCGGCCGGAGAGGTAGAATGCGTAAGCCGGGGATCAGCTCGGTTCCCCCTGCGCGCTACCGATCC
66 CCGGCCGGAGAGGCAGAATGCGCAAGCCGGGGATCGGC-CGGTCCCCCCTGTGTGCTGCCGATCC
* * * *
28577374 TACTGTTGTAACCCTCGATCTGGACCGA
130 TACTGCTGTAACCCTCGATCCGGTCTGA
* *
28577402 TCTTAGAC-TGGGAATGAACTCCGTATGC
1 GCTTAGACAT-GGAATGAACTCCATATGC
28577430 TTAGATTGGG
Statistics
Matches: 277, Mismatches: 56, Indels: 19
0.79 0.16 0.05
Matches are distributed among these distances:
156 14 0.05
157 145 0.52
158 111 0.40
159 7 0.03
ACGTcount: A:0.22, C:0.31, G:0.28, T:0.19
Consensus pattern (157 bp):
GCTTAGACATGGAATGAACTCCATATGCCTAAGCCAACCCATGAAACGAGCATGCGGGCACTCAG
CCGGCCGGAGAGGCAGAATGCGCAAGCCGGGGATCGGCCGGTCCCCCCTGTGTGCTGCCGATCCT
ACTGCTGTAACCCTCGATCCGGTCTGA
Found at i:28577439 original size:26 final size:26
Alignment explanation
Indices: 28577403--28577455 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28577393 CTGGACCGAT
28577403 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
* * *
28577429 CTTAGATTGGGGATGAACTTCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28577455 C
1 C
28577456 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:28577807 original size:26 final size:26
Alignment explanation
Indices: 28577769--28577821 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28577759 CCAATCCGAT
*
28577769 CTTAGACTGGGAATGAACTTCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28577795 CTTAGACAT-GGAATGAACTCCGTATG
1 CTTAGAC-TGGGAATGAACTCCGTATG
28577821 C
1 C
28577822 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:0.19, G:0.25, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28577822 original size:185 final size:185
Alignment explanation
Indices: 28577609--28577979 Score: 492
Period size: 185 Copynumber: 2.0 Consensus size: 185
28577599 TCCGACTGGG
* * *
28577609 GCTTAGACATGGAATGAACTCAGTATGCCTAAGCCAACCCCCGAAACGAGCGTGCGGGCGCTCAG
1 GCTTAGACATGGAATGAACTCAGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGAGCTCAA
* ** * ** * * *
28577674 TCAGCCGGAGAGGCAGAATGTGCAAGCCGGGGATTGGCCTGGTCCCCCCCTACGTGCTGTCGATC
66 CCAGCCGGAGAGGCAGAATGCACAAGCCAGGGATCAGCCCGATCCCCCCCTACATGCTGTCGATC
* * *
28577739 CTGCTGCCGCAACCCTCGGTCCAATCCGATCTTAG-ACTGGGAATGAACTTCGTAT
131 CTGCTGCCACAACCCTCAGTCCAATCCGATCTTAGTA-TGGGAATGAACTCCGTAT
* *
28577794 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGCGTGCGGGAGCTCAA
1 GCTTAGACATGGAATGAACTCAGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGAGCTCAA
* ** * *
28577859 CCGGTTGGAGAGGCAGAATGCACAAGCCAGGGATCAGCCCGATCCTCCCCTGCATGCTGTCGATC
66 CCAGCCGGAGAGGCAGAATGCACAAGCCAGGGATCAGCCCGATCCCCCCCTACATGCTGTCGATC
** **
28577924 CTGCTGCCACAACCCTCAGTCCGGTTTGATCTTAGTATGGGAATGAACTCCGTAT
131 CTGCTGCCACAACCCTCAGTCCAATCCGATCTTAGTATGGGAATGAACTCCGTAT
28577979 G
1 G
28577980 AACAAGTCAA
Statistics
Matches: 159, Mismatches: 26, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
185 158 0.99
186 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.27, T:0.20
Consensus pattern (185 bp):
GCTTAGACATGGAATGAACTCAGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGAGCTCAA
CCAGCCGGAGAGGCAGAATGCACAAGCCAGGGATCAGCCCGATCCCCCCCTACATGCTGTCGATC
CTGCTGCCACAACCCTCAGTCCAATCCGATCTTAGTATGGGAATGAACTCCGTAT
Found at i:28578149 original size:158 final size:159
Alignment explanation
Indices: 28577795--28578297 Score: 427
Period size: 158 Copynumber: 3.2 Consensus size: 159
28577785 ACTTCGTATG
* *
28577795 CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGCGTGCGGGAGCTCAAC
1 CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGACCTCAAC
* * *
28577860 CGGTTGGAGAGGCAGAATGCACAAGCCAGGGATCAGCCCGATCCTCCCCTGCATGCTGTCGATCC
66 CGATCGAAGAGGCAGAATGCACAAGCCAGGGATCAGCCCGATCCTCCCCTGCATGCTGTCGATCC
* ** *
28577925 TGCTGCCACAACCCTCAGTCCGGTTTGAT
131 TGCTACCACAACCCTCAGTCCGACTGGAT
* * * * *
28577954 CTTAG-TATGGGAATGAACTCCGTATGAAC-AAGTCAACCCACGAAACGAGCGTGCGGGCCCTGA
1 CTTAGACAT-GGAATGAACTCCGTATG-CCTAAGCCAACCCACGAAACGAGCGTGCGGGACCTCA
* * ** * * * *
28578017 GCCGATCGAAGAGGCATAATGTGCAAGTC-GAGGAT-GGCTCGATCC-CCCTCTGCGTG-T-TAC
64 ACCGATCGAAGAGGCAGAATGCACAAGCCAG-GGATCAGCCCGATCCTCCC-CTGCATGCTGT-C
* *
28578077 AGGTCTTGCTACCACAACCCTCAGTCCGACTGGAGT
126 -GATCCTGCTACCACAACCCTCAGTCCGACTGGA-T
* * * * * **
28578113 -TTAGACATGGAATGAACTCCCTACGCCTAAGCCAACCCATGAAACGGGTGTGCGGGTGCTCAAC
1 CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGACCTCAAC
* * * * * * * *
28578177 CGAGCGGAGAGGTAGAATGCGCAAGCCAGGGATCAGCCCGGTCC-CCCCTGCGTGCTGCCAATCC
66 CGATCGAAGAGGCAGAATGCACAAGCCAGGGATCAGCCCGATCCTCCCCTGCATGCTGTCGATCC
* * * *
28578241 TACTGCCCATAACCCTC-GATCCGA-TCCGAT
131 TGCT-ACCACAACCCTCAG-TCCGACT-GGAT
*
28578271 CTTAGAC-TGGGAATGAACTCCTTATGC
1 CTTAGACAT-GGAATGAACTCCGTATGC
28578298 TTAGACTGGG
Statistics
Matches: 271, Mismatches: 55, Indels: 36
0.75 0.15 0.10
Matches are distributed among these distances:
156 1 0.00
157 6 0.02
158 132 0.49
159 131 0.48
160 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.26, T:0.19
Consensus pattern (159 bp):
CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGACCTCAAC
CGATCGAAGAGGCAGAATGCACAAGCCAGGGATCAGCCCGATCCTCCCCTGCATGCTGTCGATCC
TGCTACCACAACCCTCAGTCCGACTGGAT
Found at i:28578322 original size:26 final size:26
Alignment explanation
Indices: 28578271--28578323 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28578261 CCGATCCGAT
*
28578271 CTTAGACTGGGAATGAACTCCTTATG
1 CTTAGACTGGGAATGAACTCCGTATG
* *
28578297 CTTAGACTGGGGATGAACTTCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28578323 C
1 C
28578324 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:0.19, G:0.26, T:0.30
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28578652 original size:868 final size:864
Alignment explanation
Indices: 28575163--28578846 Score: 3929
Period size: 881 Copynumber: 4.2 Consensus size: 864
28575153 NNNNNNATCT
* * * * * * *
28575163 GATCTTAGACTAGGAATGAACCCCATAAGCTTAG-CATGAAATGAACTCCGTATGGCTAAGCCAA
1 GATCTTAGACTGGGAATGAA-CTCGTATGCTTAGACATGGAATGAACTCCATATGCCTAAGCCAA
* * * * * * * *
28575227 CCCACAAAACGAGGGTGCGGGTGCTCAGCCAGCCAGAGAGGCAAAATGCGCAAGCCGGGGATCGG
65 CCCACGAAACGAGCGTGCGGGAGCTCAGCCGGTCGGAGAGGCAGAATGCGCAAGCCAGGGATCGG
* * * *
28575292 CCCGATCCCCCCTACGTGCTGTCGATCCTGCTGTCGCAACCCTCGGTCCGGCCCGATCTTAGACT
130 CCCGATCCCCCCTGCGTGCTGTCGATCCTGCTGCCGCAACCCTCGGTCCGGTCTGATCTTAGACT
* * * * * * *
28575357 GGGAATAAACTCCGTACGTATAAGTCAACGCACGAAATGAGTGTGCGGGCGCTGAGCCG-GCTGA
195 GGGAATGAACTCCGTATG-ACAAGTCAACCCACGAAATGAGCGTGCGGGCGCTGAGCCGATCGGA
* * * * * *
28575421 AGAGGCATAATGGGCAAGACGGCGATCGACCTGGTCCCTCTCTGCATGCTACCGATCCCGCTACC
259 AGAGGCATAATGCGCAAGTCGG-GATCGACCCGGTCCCCCTCTGCGTGCTACAGATCCCGCTACC
* * * *
28575486 ATAACCCTTGGTCCGGCTAGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGA
323 ACAACCCTCGGTCCGGCT-GGGCTTAGACATGGAATGAACTCCCTACGCCTAAGCCAACCCATGA
* * * ** * * *
28575551 AACGGGTGTGCGGGTGCTCAACCGATCGGAGAGACAGATTGCGCAAGCCGGGGATCAACCCGATC
387 AACGGGCGTGCGGGCGCTCAACCGAGCGGAGAGGTAGAATGCGCAAGCCGGGGATCAGCCCGGTC
* * * * *
28575616 CCCCTTACGTGCTGTCGATCCTACTGTCGTAACCCTCGGTCCAGACCGATCTTAGACTGGGAATG
452 CCCCCTGCGTGCTGCCGATCCTACTGCCGTAACCCTCGATCC-GACCGATCTTAGACTGGGAATG
* * **
28575681 AACTCCGTATGCTTAGATTGGGGATGAACTTTGTATGCCTAAGTCAACCCATAAAACGAGCA-TG
516 AACTCCGTATGCTTAGACTGGGGATGAACTTCGTATGCCTAAGTCAACCCACGAAACGAG-AGTG
* *
28575745 CGGGCACTCAGTCAGTTGGAGAGGCCGGTCGAAGAGGCATAATGCGCAAGCCGGGGATCAGCTCG
580 CGGGCACTCA--C----GGCGAGGCC-G--G-AGAGGCATAATGCGCAAGCCGGGGATCAGCCCG
* * * * * ** * *
28575810 GTCCCCCTTTGCGTGCTATCGATCCTGCTACCAGTCCTGCTGTCACAACCCTCGGTTCGGCTGGG
635 GTCCCCCTCTGCATGCTATCGATCCCGCT-GCAGTCCTACTACCACAACCCTCGGTCCGACTGGG
* * * * * *
28575875 GCTTAGACATGGAATGAACTCCGTATGCCTAAGTCAACCCTCGAAATGAGCGTGCTGGCACTCAG
699 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAA
* * * * * ** * * *
28575940 CCGATCAGAA-AGGCAGAATGCGCAAGCTGGGGGTCGATCCGATCCCCCTTGCATGCTACCGATC
764 CCGAGCCGAAGAGGCAGAATGCGCAAGCCGAGGATCGGCCCGGTCCCCCCTGCGTGCTACCGATC
* * * *
28576004 TTGCTACGGGTCCTACTGCCGCAACCCTCGGTTCGGTCC
829 CTG-T-C-GGTCCTGCTGCCGCAACCCTCGGTCCGATCC
* * *
28576043 AATCTTAGACTGGGAATGAACTCTATATGCTTAGACATGGAATGAACTCCATATGCCTAATCCAA
1 GATCTTAGACTGGGAATGAACTC-GTATGCTTAGACATGGAATGAACTCCATATGCCTAAGCCAA
* * * * *
28576108 CCCACGGAACGAGCGTGCGGGCGTTCAGCCGGTCGGAGAGGCAGAATGCGTAAGTC-GAGGATCG
65 CCCACGAAACGAGCGTGCGGGAGCTCAGCCGGTCGGAGAGGCAGAATGCGCAAGCCAG-GGATCG
** * * * * * *
28576172 GCTTGGTCCCCCCTGCGTGTTGTCGATCTTGTTGTCGCAACCCTCGGTCCGGTCTGATCTTAGTC
129 GCCCGATCCCCCCTGCGTGCTGTCGATCCTGCTGCCGCAACCCTCGGTCCGGTCTGATCTTAGAC
* * * *
28576237 TGGGAATGAACTTCGTATGCATAAGTCAACCCATGAAATGAGCGTGCGGGCGTTGAGCCGATC-G
194 TGGGAATGAACTCCGTATG-ACAAGTCAACCCACGAAATGAGCGTGCGGGCGCTGAGCCGATCGG
* * * * * ** * *
28576301 AAGAGGCATAATACACAAGTTGGGGATCGACCCGGTCCACCTCTGTGTGCTGTAGGTCCCGCTGC
258 AAGAGGCATAATGCGCAAG-TCGGGATCGACCCGGTCCCCCTCTGCGTGCTACAGATCCCGCTAC
* * * * *
28576366 CACAACCCTCGATCCGGTTGGGGCATAGACATGGAATGAACTCCCTACACCTAAGCCAACGCATG
322 CACAACCCTCGGTCCGGCT-GGGCTTAGACATGGAATGAACTCCCTACGCCTAAGCCAACCCATG
* * * * * *
28576431 AAACGGGCGTGCGGGCGCTCAGCCGA-CTGGAGAGGTAGAATACGCAAGCCGAGGACCGGCCTGG
386 AAACGGGCGTGCGGGCGCTCAACCGAGC-GGAGAGGTAGAATGCGCAAGCCGGGGATCAGCCCGG
* * * * * *
28576495 TCCCCCTTGCGTGCTGCCGATCCTGCTACCGCAACCCTCGATCCGGTCTGATCTTAGACTGGGAA
450 TCCCCCCTGCGTGCTGCCGATCCTACTGCCGTAACCCTCGATCC-GACCGATCTTAGACTGGGAA
* * * *
28576560 TGAACTTCGTATGCTCAGACTGGGGATGAACTTCGTATGCCTAAGACAACCCACGAAACGAGCGT
514 TGAACTCCGTATGCTTAGACTGGGGATGAACTTCGTATGCCTAAGTCAACCCACGAAACGAGAGT
* * * * *
28576625 GTGGGCGCTCA--GC-TGGCCGGAGAGGCATAACT-CACAAGCTGGGGAAT-AGCCCTGGTCCCC
579 GCGGGCACTCACGGCGAGGCCGGAGAGGCATAA-TGCGCAAGCCGGGG-ATCAGCCC-GGTCCCC
* ** * * * *
28576685 CTCTGCATGCTACCGATCCTACTACCGATCCTACTGCCACAACCCTCTGTCCG-CTGGGGCTTAG
641 CTCTGCATGCTATCGATCCCGCTGCAG-TCCTACTACCACAACCCTCGGTCCGACTGGGGCTTAG
* * *
28576749 ACATGGAAGGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTC-AGCTAGC
705 ACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAACCGAGC
28576813 CGAAGAGGCAGAATGCGCAAGCC-AGGGATCGGCCCGGTCCCCCCTGCGTGCTACCGAT-C---C
770 CGAAGAGGCAGAATGCGCAAGCCGA-GGATCGGCCCGGTCCCCCCTGCGTGCTACCGATCCTGTC
* *
28576873 --TACTGCTG-C-AAACCCT-GGATCCGATTCC
834 GGTCCTGCTGCCGCAACCCTCGG-TCCGA-TCC
28576901 GATCTTAGACTGGGAATGAACTCTGTATGCTTAGACATGGAATGAACTCCATATGCCTAAGCCAA
1 GATCTTAGACTGGGAATGAACTC-GTATGCTTAGACATGGAATGAACTCCATATGCCTAAGCCAA
* * **
28576966 CCCACGAAACGAGCGTGCAGGCGCTCAATCGGTCGGAGAGGCAGAATGCGCAAGCCAGGGATCGG
65 CCCACGAAACGAGCGTGCGGGAGCTCAGCCGGTCGGAGAGGCAGAATGCGCAAGCCAGGGATCGG
* * ** * * * * * *
28577031 CCTGGTCCCCCCCTGTATGATGTCGATCCTACTACTGTAACCCTCGATCCGGTCTGATCTTAGAC
130 CCCGAT-CCCCCCTGCGTGCTGTCGATCCTGCTGCCGCAACCCTCGGTCCGGTCTGATCTTAGAC
* * * * * **
28577096 T-GGAATGAACTCCGTATGCCTAAGTCAACCCATGAAATGAGCATCCGGGCACTGAGCCGGCCGG
194 TGGGAATGAACTCCGTATGAC-AAGTCAACCCACGAAATGAGCGTGCGGGCGCTGAGCCGATCGG
* * * * * * *
28577160 AAG-GGCATAATGCGCAAGCCGGGGTCGGCCCGGTCCCCCTCTGTGTGCTGCTGATCCCGCTGCC
258 AAGAGGCATAATGCGCAAGTCGGGATCGACCCGGTCCCCCTCTGCGTGCTACAGATCCCGCTACC
* *
28577224 ACAACCCTCGGTCCGGTTGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCATGAA
323 ACAACCCTCGGTCCGGCTGGGCTTAGACATGGAATGAACTCCCTACGCCTAAGCCAACCCATGAA
* * * * * *
28577289 ACGGGCATGCGGGCACTCAGCCG-GCCGGAGAGGTAGAATGCGTAAGCCGGGGATCAGCTCGGTT
388 ACGGGCGTGCGGGCGCTCAACCGAG-CGGAGAGGTAGAATGCGCAAGCCGGGGATCAGCCCGGTC
* * ** *
28577353 CCCCCTGCGCGCTACCGATCCTACTGTTGTAACCCTCGATCTGGACCGATCTTAGACTGGGAATG
452 CCCCCTGCGTGCTGCCGATCCTACTGCCGTAACCCTCGATC-CGACCGATCTTAGACTGGGAATG
* * *
28577418 AACTCCGTATGCTTAGATTGGGGATGAACTTCGTATGCCTAAGTCAACCCACGAAACGAGCGTGA
516 AACTCCGTATGCTTAGACTGGGGATGAACTTCGTATGCCTAAGTCAACCCACGAAACGAGAGTGC
* * * * * *
28577483 AGGCACTCAGTCGGCAGAAGAGGTCGGTCGGAGAGGCATAATGTGTAAGTCGGGGACCAACCCGG
581 GGGCACTCA--CGGC----GAGG-C---CGGAGAGGCATAATGCGCAAGCCGGGGATCAGCCCGG
* * * *
28577548 TCCCCCTCTGCGTGCTGTCGATCCCGTTGCCGGT-C--CTACCACAACCCTCGGTCCGACTGGGG
636 TCCCCCTCTGCATGCTATCGATCCCGCTG-CAGTCCTACTACCACAACCCTCGGTCCGACTGGGG
* * **
28577610 CTTAGACATGGAATGAACTCAGTATGCCTAAGCCAACCCCCGAAACGAGCGTGCGGGCGCTCAGT
700 CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAAC
* * * * * *
28577675 C-AGCCGGAGAGGCAGAATGTGCAAGCCGGGGATTGGCCTGGT-CCCCC--C---CTA-CG-TGC
765 CGAGCCGAAGAGGCAGAATGCGCAAGCCGAGGATCGGCCCGGTCCCCCCTGCGTGCTACCGATCC
* *
28577731 TGTCGATCCTGCTGCCGCAACCCTCGGTCCAATCC
830 TGTCGGTCCTGCTGCCGCAACCCTCGGTCCGATCC
*
28577766 GATCTTAGACTGGGAATGAACTTCGTATGCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAA
1 GATCTTAGACTGGGAATGAAC-TCGTATGCTTAGACATGGAATGAACTCCATATGCCTAAGCCAA
* * * * *
28577831 CCCACGAAATGAGCGTGCGGGAGCTCAACCGGTTGGAGAGGCAGAATGCACAAGCCAGGGATCAG
65 CCCACGAAACGAGCGTGCGGGAGCTCAGCCGGTCGGAGAGGCAGAATGCGCAAGCCAGGGATCGG
* * * *
28577896 CCCGATCCTCCCCTGCATGCTGTCGATCCTGCTGCCACAACCCTCAGTCCGGTTTGATCTTAGTA
130 CCCGATCC-CCCCTGCGTGCTGTCGATCCTGCTGCCGCAACCCTCGGTCCGGTCTGATCTTAG-A
* *
28577961 -TGGGAATGAACTCCGTATGAACAAGTCAACCCACGAAACGAGCGTGCGGGCCCTGAGCCGATC-
193 CTGGGAATGAACTCCGTATG-ACAAGTCAACCCACGAAATGAGCGTGCGGGCGCTGAGCCGATCG
* * * * * * **
28578024 GAAGAGGCATAATGTGCAAGTCGAGGAT-GGCTCGATCCCCCTCTGCGTGTTACAGGTCTTGCTA
257 GAAGAGGCATAATGCGCAAGTCG-GGATCGACCCGGTCCCCCTCTGCGTGCTACAGATCCCGCTA
* * *
28578088 CCACAACCCTCAGTCCGACTGGAGTTTAGACATGGAATGAACTCCCTACGCCTAAGCCAACCCAT
321 CCACAACCCTCGGTCCGGCTGG-GCTTAGACATGGAATGAACTCCCTACGCCTAAGCCAACCCAT
* * *
28578153 GAAACGGGTGTGCGGGTGCTCAACCGAGCGGAGAGGTAGAATGCGCAAGCCAGGGATCAGCCCGG
385 GAAACGGGCGTGCGGGCGCTCAACCGAGCGGAGAGGTAGAATGCGCAAGCCGGGGATCAGCCCGG
* *
28578218 TCCCCCCTGCGTGCTGCCAATCCTACTGCCCATAACCCTCGATCCGATCCGATCTTAGACTGGGA
450 TCCCCCCTGCGTGCTGCCGATCCTACTG-CCGTAACCCTCGATCCGA-CCGATCTTAGACTGGGA
* *
28578283 ATGAACTCCTTATGCTTAGACTGGGGATGAACTTCGTATGCCTAAGTCAACCCACGAAATGAGAG
513 ATGAACTCCGTATGCTTAGACTGGGGATGAACTTCGTATGCCTAAGTCAACCCACGAAACGAGAG
* * * *
28578348 TGCGGGCGCTC-C-GCCA-GCCGGAGAGGCATAATGCGTAAGCCGGGGATCAGCCCGAT-CCCCT
578 TGCGGGCACTCACGGCGAGGCCGGAGAGGCATAATGCGCAAGCCGGGGATCAGCCCGGTCCCCCT
* * * *
28578409 CTACACGCTATCGATCCCGCTGTCAGTCGTACAACCACAACCCTCGGTCCGACTGGGGCTTAGAC
643 CTGCATGCTATCGATCCCGCTG-CAGTCCTACTACCACAACCCTCGGTCCGACTGGGGCTTAGAC
* * * * * *
28578474 ATGGCATGAACTCCGTATGCCTAAGCCAACCCATGAAATGAACGTGTGGGTGCTCAACCGA-CCG
707 ATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAACCGAGCCG
* * *
28578538 AAGAGGCAGAATGCGTAAGCCGAGGATCGGCCCGGTCCCCCCTGTGTGTTACCGATCCTGTTGCT
772 AAGAGGCAGAATGCGCAAGCCGAGGATCGGCCCGGTCCCCCCTGCGTGCTACCGATCCTG-T-C-
* *
28578603 GGTCCTGCTGGCGCAACCCTCGGTCCGATCT
834 GGTCCTGCTGCCGCAACCCTCGGTCCGATCC
* *
28578634 GATCTTAGATTGGGAATGAACTCCGTATGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAA
1 GATCTTAGACTGGGAATGAACT-CGTATGCTTAGACATGGAATGAACTCCATATGCCTAAGCCAA
* * * *
28578699 CCCATGAAGCG-GACGTGCGGGAGCTCAGCCAGTCGGAGAGGCAGAATGCGCAAGCCGGGGATCG
65 CCCACGAAACGAG-CGTGCGGGAGCTCAGCCGGTCGGAGAGGCAGAATGCGCAAGCCAGGGATCG
* * * * * *
28578763 ACCCGATCCCCCTTGCGTGCTGCCAATCCTGCTGCCGTAACCCTCGGTCTGGT-TCGATCTTAGA
129 GCCCGATCCCCCCTGCGTGCTGTCGATCCTGCTGCCGCAACCCTCGGTCCGGTCT-GATCTTAGA
*
28578827 CTGGGAATGAACTCTGTATG
193 CTGGGAATGAACTCCGTATG
28578847 CTTAGACTGG
Statistics
Matches: 2354, Mismatches: 370, Indels: 173
0.81 0.13 0.06
Matches are distributed among these distances:
854 25 0.01
855 33 0.01
856 216 0.09
857 180 0.08
858 199 0.08
859 62 0.03
860 6 0.00
862 2 0.00
863 3 0.00
864 13 0.01
865 206 0.09
866 229 0.10
867 200 0.08
868 407 0.17
869 77 0.03
871 1 0.00
872 4 0.00
873 1 0.00
879 2 0.00
880 29 0.01
881 456 0.19
882 3 0.00
ACGTcount: A:0.23, C:0.30, G:0.28, T:0.20
Consensus pattern (864 bp):
GATCTTAGACTGGGAATGAACTCGTATGCTTAGACATGGAATGAACTCCATATGCCTAAGCCAAC
CCACGAAACGAGCGTGCGGGAGCTCAGCCGGTCGGAGAGGCAGAATGCGCAAGCCAGGGATCGGC
CCGATCCCCCCTGCGTGCTGTCGATCCTGCTGCCGCAACCCTCGGTCCGGTCTGATCTTAGACTG
GGAATGAACTCCGTATGACAAGTCAACCCACGAAATGAGCGTGCGGGCGCTGAGCCGATCGGAAG
AGGCATAATGCGCAAGTCGGGATCGACCCGGTCCCCCTCTGCGTGCTACAGATCCCGCTACCACA
ACCCTCGGTCCGGCTGGGCTTAGACATGGAATGAACTCCCTACGCCTAAGCCAACCCATGAAACG
GGCGTGCGGGCGCTCAACCGAGCGGAGAGGTAGAATGCGCAAGCCGGGGATCAGCCCGGTCCCCC
CTGCGTGCTGCCGATCCTACTGCCGTAACCCTCGATCCGACCGATCTTAGACTGGGAATGAACTC
CGTATGCTTAGACTGGGGATGAACTTCGTATGCCTAAGTCAACCCACGAAACGAGAGTGCGGGCA
CTCACGGCGAGGCCGGAGAGGCATAATGCGCAAGCCGGGGATCAGCCCGGTCCCCCTCTGCATGC
TATCGATCCCGCTGCAGTCCTACTACCACAACCCTCGGTCCGACTGGGGCTTAGACATGGAATGA
ACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAACCGAGCCGAAGAGGCAG
AATGCGCAAGCCGAGGATCGGCCCGGTCCCCCCTGCGTGCTACCGATCCTGTCGGTCCTGCTGCC
GCAACCCTCGGTCCGATCC
Found at i:28578850 original size:26 final size:26
Alignment explanation
Indices: 28578821--28578873 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
28578811 CTGGTTCGAT
*
28578821 CTTAGACTGGGAATGAACTCTGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
*
28578847 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28578873 C
1 C
28578874 CTAAGTCAGC
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:28578934 original size:184 final size:184
Alignment explanation
Indices: 28578605--28578947 Score: 442
Period size: 184 Copynumber: 1.9 Consensus size: 184
28578595 CTGTTGCTGG
* *
28578605 TCCTGCTGGCGCAACCCTCGGTCCGATCTGATCTTAGATTGGGAATGAACTCCGTATGCTTAGAC
1 TCCTGCTGCCGCAACCCTCGGTCCGATCTGATCTTAGACTGGGAATGAACTCCGTATGCTTAGAC
* * * *
28578670 ATGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAGCGGACGTGCGGGAGCTCAGCCAGTCGG
66 ATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGGACGTGCGGGAGCTCAGCCAGCCAG
28578735 AGAGGCAGAATGCGCAAGCCGGGGATCGACCCGATCCCCCTTGCGTGCTGCCAA
131 AGAGGCAGAATGCGCAAGCCGGGGATCGACCCGATCCCCCTTGCGTGCTGCCAA
* * * *
28578789 TCCTGCTGCCGTAACCCTCGGTCTGGT-TCGATCTTAGACTGGGAATGAACTCTGTATGCTTAGA
1 TCCTGCTGCCGCAACCCTCGGTCCGATCT-GATCTTAGACTGGGAATGAACTCCGTATGCTTAGA
* * * * * *
28578853 C-TGGGGATGAACTCCGTATGCCTAAGTCAGCCCACGAAAC-GAGCGTGCGGGCGCTCAG-CTGA
65 CAT-GGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGGA-CGTGCGGGAGCTCAGCCAG-
* * * *
28578915 CCAGAGGGGCAGGATGCGCAAGTCGGTGATCGA
127 CCAGAGAGGCAGAATGCGCAAGCCGGGGATCGA
28578948 ACGGGAGGTA
Statistics
Matches: 135, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
183 6 0.04
184 129 0.96
ACGTcount: A:0.22, C:0.28, G:0.30, T:0.20
Consensus pattern (184 bp):
TCCTGCTGCCGCAACCCTCGGTCCGATCTGATCTTAGACTGGGAATGAACTCCGTATGCTTAGAC
ATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGGACGTGCGGGAGCTCAGCCAGCCAG
AGAGGCAGAATGCGCAAGCCGGGGATCGACCCGATCCCCCTTGCGTGCTGCCAA
Found at i:28580302 original size:26 final size:26
Alignment explanation
Indices: 28580264--28580317 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
28580254 CCAGTCTGAT
*
28580264 CTTAGACTGGGAATTAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28580290 CTTAGACAT-GGAATGAACTCCGTATG
1 CTTAGAC-TGGGAATGAACTCCGTATG
28580316 CT
1 CT
28580318 AAGCCAACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 25 0.96
27 1 0.04
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28580805 original size:26 final size:26
Alignment explanation
Indices: 28580764--28580816 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28580754 CCGATCTGAT
28580764 CTTAGACTGGAAATGAACTCCATATG
1 CTTAGACTGGAAATGAACTCCATATG
** *
28580790 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTGGAAATGAACTCCATATG
28580816 C
1 C
28580817 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):
CTTAGACTGGAAATGAACTCCATATG
Found at i:28587162 original size:26 final size:26
Alignment explanation
Indices: 28587112--28587164 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
28587102 CCGATCCGAT
** *
28587112 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACAAGGAATGAACTACGTATG
*
28587138 CTTAGACAAGGAATGAACTATGTATG
1 CTTAGACAAGGAATGAACTACGTATG
28587164 C
1 C
28587165 CTAATCCAAC
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:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (26 bp):
CTTAGACAAGGAATGAACTACGTATG
Found at i:28587512 original size:159 final size:158
Alignment explanation
Indices: 28587305--28587603 Score: 338
Period size: 159 Copynumber: 1.9 Consensus size: 158
28587295 TCTTAGATTG
* * * * * * **
28587305 GGAATGAACTCCGTTTGCCTAAGTCAACCCACAAAACGAGCGTACGGGCGT-TGAGTCGGCTGGA
1 GGAATGAACTCCCTATGCCGAAGCCAACCCACAAAACGAGCGTACGGGC-TCTCAGTCAGCCAGA
* * * *
28587369 GAGGCATAATGTGCAAGCCGAGGATC-GATCGGGTCCCCCTCTACGTGCTATCGATCCTGCTGCC
65 GAGACAGAATGCGCAAGCCGAGGATCAG-TCCGGTCCCCCT-TACGTGCTATCGATCCTGCTG-C
28587433 A-CAACCCTCGGTCTGGTTGGGGCTTAGACAT
127 AGCAACCCTCGGTCTGGTTGGGGCTTAGACAT
*
28587464 GGAATGAACTCCCTATGCCGAAGCCAACCCA-AGAAAC-AGGCGTGCGGGCTCTCAGTCAGCCAG
1 GGAATGAACTCCCTATGCCGAAGCCAACCCACA-AAACGA-GCGTACGGGCTCTCAGTCAGCCAG
* * * * * *
28587527 AGAGACAGCATGCGTAAGCCGGGGATCAGTCCGGTCCCCCTTGCGTGCTGTCGATCCTGCTGTAG
64 AGAGACAGAATGCGCAAGCCGAGGATCAGTCCGGTCCCCCTTACGTGCTATCGATCCTGCTGCAG
28587592 CAACCCTCGGTC
129 CAACCCTCGGTC
28587604 CAGCCTGATC
Statistics
Matches: 116, Mismatches: 19, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
157 1 0.01
158 34 0.29
159 80 0.69
160 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.29, T:0.19
Consensus pattern (158 bp):
GGAATGAACTCCCTATGCCGAAGCCAACCCACAAAACGAGCGTACGGGCTCTCAGTCAGCCAGAG
AGACAGAATGCGCAAGCCGAGGATCAGTCCGGTCCCCCTTACGTGCTATCGATCCTGCTGCAGCA
ACCCTCGGTCTGGTTGGGGCTTAGACAT
Found at i:28587649 original size:26 final size:26
Alignment explanation
Indices: 28587613--28587665 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
28587603 CCAGCCTGAT
28587613 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
*
28587639 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28587665 C
1 C
28587666 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:28588708 original size:159 final size:158
Alignment explanation
Indices: 28588359--28588860 Score: 589
Period size: 158 Copynumber: 3.2 Consensus size: 158
28588349 AACTCCGTAT
* *
28588359 GCTTAGACATGGAATGAACTCCGTATGCCTAA-TCCAATCAACGAAACGAGCGTGCGGGCGCTCA
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGT-CAACCCACGAAACGAGCGTGCGGGCGCTCA
* * * ** * *
28588423 GCCGACCGGAGAGGTAGAATGCGCAAGCTAGGGATCGGCCCGGTCCCCCCTATGTGATGTCGATC
65 GTCGACCGGAGAGGCAGAATGCGCAAGCTGGGGATCGGCCCGGTCCCCCCTGCGTGCTGACGATC
* *
28588488 CTGCTGCCATAGCCCTCGGTCTGGTTTGA
130 CTGCTGCCACAGCCCTCGGTCTGGTTGGA
* * * * *
28588517 TCTTAGAC-TGGGAATGAACTCCGTATGCCTAAGTCAACCCACGGAACGAGCATGCGGGCGTTGA
1 GCTTAGACAT-GGAATGAACTCCGTATGCCTAAGTCAACCCACGAAACGAGCGTGCGGGCGCTCA
** * * * * * * *
28588581 GTCGACTAGAGAGGCATAATGTGCAAGCCGGGGATCGACCGGGTCCCCCACTGCGTGCTGCCGGT
65 GTCGACCGGAGAGGCAGAATGCGCAAGCTGGGGATCGGCCCGGTCCCCC-CTGCGTGCTGACGAT
* *
28588646 CCTGCTGCCACAGCCCTCGGTTTGGTTGGG
129 CCTGCTGCCACAGCCCTCGGTCTGGTTGGA
* * * * * *
28588676 GCTTAGACATGGAATGAACTCCCTATGGCTAAGCCAACCCATGAAACGGGCGTACGGGCGCTCAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGTCAACCCACGAAACGAGCGTGCGGGCGCTCAG
*
28588741 TCGACCGGAGAGGCAGAATGCGCAAGCTGGGGATCGGCCCGGTCCCCCCTGCGTGCTGACTATCC
66 TCGACCGGAGAGGCAGAATGCGCAAGCTGGGGATCGGCCCGGTCCCCCCTGCGTGCTGACGATCC
* * *
28588806 TGCTGTCACAACCCTCGGTCCGGTCT-GA
131 TGCTGCCACAGCCCTCGGTCTGGT-TGGA
*
28588834 TCTTAGAC-TGGGAATGAACTCCGTATG
1 GCTTAGACAT-GGAATGAACTCCGTATG
28588861 TTTAGACTGG
Statistics
Matches: 284, Mismatches: 54, Indels: 12
0.81 0.15 0.03
Matches are distributed among these distances:
157 2 0.01
158 150 0.53
159 131 0.46
160 1 0.00
ACGTcount: A:0.21, C:0.29, G:0.30, T:0.20
Consensus pattern (158 bp):
GCTTAGACATGGAATGAACTCCGTATGCCTAAGTCAACCCACGAAACGAGCGTGCGGGCGCTCAG
TCGACCGGAGAGGCAGAATGCGCAAGCTGGGGATCGGCCCGGTCCCCCCTGCGTGCTGACGATCC
TGCTGCCACAGCCCTCGGTCTGGTTGGA
Found at i:28588883 original size:25 final size:26
Alignment explanation
Indices: 28588836--28588885 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
28588826 CGGTCTGATC
28588836 TTAGACTGGGAATGAACTCCGTATGT
1 TTAGACTGGGAATGAACTCCGTATGT
*
28588862 TTAGACTGGG-ATGAACTTCGTATG
1 TTAGACTGGGAATGAACTCCGTATG
28588886 CCTAAGTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (26 bp):
TTAGACTGGGAATGAACTCCGTATGT
Found at i:28590084 original size:26 final size:26
Alignment explanation
Indices: 28590042--28590094 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
28590032 CCGGTCTGAT
28590042 CTTAGACTAGGAGTGAACTCCATATG
1 CTTAGACTAGGAGTGAACTCCATATG
* *
28590068 CTTAGACT-GGGGATGAACTCCGTATG
1 CTTAGACTAGGAG-TGAACTCCATATG
28590094 C
1 C
28590095 CTAAGTCAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 3 0.12
26 21 0.88
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (26 bp):
CTTAGACTAGGAGTGAACTCCATATG
Found at i:28590803 original size:26 final size:26
Alignment explanation
Indices: 28590765--28590817 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
28590755 GGCTCAAAAT
28590765 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28590791 CTTAGACAT-GGAATGAACTCCGTATG
1 CTTAGAC-TGGGAATGAACTCCGTATG
28590817 C
1 C
28590818 CTAAGCCAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 25 0.96
27 1 0.04
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28591153 original size:159 final size:158
Alignment explanation
Indices: 28590793--28591223 Score: 379
Period size: 159 Copynumber: 2.7 Consensus size: 158
28590783 TCCGTATGCT
*
28590793 TAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCCAGCGGGCGCTCAGCCG
1 TAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCCAGCGGGCACTCAGCCG
* * * * * * *
28590858 GCAGGAGAGGCAGAATGTGCAAGCCGGGGATCAGCTCGATCCCCCCTGTATGCTATCGATCCTAT
66 ACAGAAGAGGCAGAATGCGCAAGCCGGGGATCACCTCGATCCCCCCTGCATGCTATCCATCCTAC
* * * * *
28590923 TGCCACAACCCTTGGTCTGGTCTGATCT
131 TGCCACAACCCTCGATCCGGTCTGAGCA
* * * * * ** *
28590951 TAGAC-TGGGAATGAACTTCGTATGCATAGGTCAACCCACGAAACTAGCGTGCGGGCACTGAGCC
1 TAGACAT-GGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCCAGCGGGCACTCAGCC
* * * * *
28591015 GACCGAAGAGGCATAATGCGCAAGCCGTGGATCGACCT-GGTCCCCCTCTGCATGCTA-CCATTC
65 GACAGAAGAGGCAGAATGCGCAAGCCGGGGATC-ACCTCGATCCCCC-CTGCATGCTATCCATCC
* *
28591078 TCGCTGCCACAACCCTCGATCCGG-CTGGGGCA
128 T-ACTGCCACAACCCTCGATCCGGTCT-GAGCA
* * * * ** *
28591110 TAGACATGGAATGAACTCCCTATACCTAAGCCAACCCATGAAAC-AGAC-GTACGGGTGCTCAGT
1 TAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCCAG--CGGGCACTCAGC
* * * * * * *
28591173 CGGCGGGAGAGGGAGAATGCGTAAGCCGGGGATCAGCTCGGTCCCCCCTGC
64 CGACAGAAGAGGCAGAATGCGCAAGCCGGGGATCACCTCGATCCCCCCTGC
28591224 GTTCTGCCAA
Statistics
Matches: 215, Mismatches: 49, Indels: 18
0.76 0.17 0.06
Matches are distributed among these distances:
157 2 0.01
158 103 0.48
159 109 0.51
160 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.28, T:0.18
Consensus pattern (158 bp):
TAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCCAGCGGGCACTCAGCCG
ACAGAAGAGGCAGAATGCGCAAGCCGGGGATCACCTCGATCCCCCCTGCATGCTATCCATCCTAC
TGCCACAACCCTCGATCCGGTCTGAGCA
Found at i:28591296 original size:26 final size:26
Alignment explanation
Indices: 28591267--28591317 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
28591257 CAGTCCGATC
28591267 TTAGACTGAGAATGAACTCCGTATGG
1 TTAGACTGAGAATGAACTCCGTATGG
* *
28591293 TTAGACTGGGGATGAACTCCGTATG
1 TTAGACTGAGAATGAACTCCGTATG
28591318 TCAAAGTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.27
Consensus pattern (26 bp):
TTAGACTGAGAATGAACTCCGTATGG
Found at i:28591674 original size:26 final size:26
Alignment explanation
Indices: 28591645--28591697 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28591635 CCGGTCCGAT
28591645 CTTAGAC-TAGGAATGAACTCCGTATG
1 CTTAGACAT-GGAATGAACTCCGTATG
*
28591671 CTTAGACATGGATTGAACTCCGTATG
1 CTTAGACATGGAATGAACTCCGTATG
28591697 C
1 C
28591698 CTAAGCCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (26 bp):
CTTAGACATGGAATGAACTCCGTATG
Found at i:28593696 original size:159 final size:159
Alignment explanation
Indices: 28593394--28593823 Score: 409
Period size: 159 Copynumber: 2.7 Consensus size: 159
28593384 GAACTTGTAT
* * * * *
28593394 GCTTAGACATTGAATGAACTCCGTATGCCTAAGCCAACCCACAAAACGAGCGTGTGGGCGCTCAG
1 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACAAAACGGGCGTGCGGGCACTCAG
* * ** * * ** * * ***
28593459 CCGATCGGAGAGGCA-AACTATGCAAGCCGGGGATCGGCCCAGTCCCCCCCTGCCTGCT-GTTGA
66 CCGACCAGAGAGGCAGAA-TGCGCAAGCCGGGGATCGACCCAATCCCCATCTACGTGCTACCAG-
** * ** * *
28593522 TCCTGCTACTGCAACCCTCAGTCCGGTTTGA
129 TCCCACTGCCACAACCCTCAGTCCGGCTGGA
* ** * * *
28593553 TCTTAGAC-TGGGAATGAACTCTGTATGCCTAAGTCAACCCACAAAA-GGAGCTTGCGGGCACTG
1 GCTTAGACAT-GGAATGAACTCCCTATGCCTAAGCCAACCCACAAAACGG-GCGTGCGGGCACTC
* * *
28593616 AGCCGACTAGAGAGGCATAATGCGCAAGCCGGGGATCGACCCGATCCCCATCTACGTGCTACCAG
64 AGCCGACCAGAGAGGCAGAATGCGCAAGCCGGGGATCGACCCAATCCCCATCTACGTGCTACCAG
* * *
28593681 TCCCACTGCCACAACCCTCGGTCTGGCTGGG
129 TCCCACTGCCACAACCCTCAGTCCGGCTGGA
* *
28593712 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCACCCCACAAAACGGGCGTGCGGGCGCTCAG
1 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACAAAACGGGCGTGCGGGCACTCAG
* * * *
28593777 CCGACCGGAGGGGCAGAATGTGCAAGCCGGGGATCGGCCCAATCCCC
66 CCGACCAGAGAGGCAGAATGCGCAAGCCGGGGATCGACCCAATCCCC
28593824 CCTGTGTGCT
Statistics
Matches: 216, Mismatches: 49, Indels: 12
0.78 0.18 0.04
Matches are distributed among these distances:
158 2 0.01
159 208 0.96
160 6 0.03
ACGTcount: A:0.24, C:0.32, G:0.27, T:0.17
Consensus pattern (159 bp):
GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACAAAACGGGCGTGCGGGCACTCAG
CCGACCAGAGAGGCAGAATGCGCAAGCCGGGGATCGACCCAATCCCCATCTACGTGCTACCAGTC
CCACTGCCACAACCCTCAGTCCGGCTGGA
Found at i:28593907 original size:26 final size:26
Alignment explanation
Indices: 28593871--28593923 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
28593861 CTAGTCCAAT
* *
28593871 CTTAGGCTGGGAATGAACTACGTATG
1 CTTAGACTGGGAATGAAATACGTATG
* *
28593897 CTTAGACTGGGGATGAAATCCGTATG
1 CTTAGACTGGGAATGAAATACGTATG
28593923 C
1 C
28593924 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:0.26, C:0.17, G:0.30, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAAATACGTATG
Found at i:28594960 original size:26 final size:26
Alignment explanation
Indices: 28594931--28594983 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28594921 CCGGTCCGAT
* *
28594931 CTTAGACTAGGAATGAACTCCGTATG
1 CTTAGACAAGGAATGAACTCCATATG
*
28594957 CTTAGACAAGGGATGAACTCCATATG
1 CTTAGACAAGGAATGAACTCCATATG
28594983 C
1 C
28594984 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:0.32, C:0.21, G:0.23, T:0.25
Consensus pattern (26 bp):
CTTAGACAAGGAATGAACTCCATATG
Found at i:28595088 original size:184 final size:192
Alignment explanation
Indices: 28594769--28595227 Score: 569
Period size: 196 Copynumber: 2.4 Consensus size: 192
28594759 TCATTCTAAC
* * * * * *
28594769 TATGGTTAGACATGAAATGAACT-CACTATGCCTAAGCCAACCCACGAAACGGGCGTGCGGGCGC
1 TATGCTTAGACAAGGAATGAACTCCA-TATGCCTAAGCCAACCCACGAAACGAGCGTACGGGAGC
* * * ** * *
28594833 TCAGCCGGCCGGAGAGGCAGAATGCGTAAGCGGGGGATCGGTTTGGTCCCCCTTGCGTGCTGTCA
65 TCAGTCGGTCGGAGAGGCAGAATGCGCAAGCGGGGGATCGACTTGGTCCCCCCTGCGTGCTATCA
28594898 A-T-CT-T-G-CTA-T-C-GCAACCCTC-GATCCGGTCCGATCTTAGACTAGGAATGAACTCCG
130 ATTGCTATAGCCTACTACTGCAACCCTCAG-TCCGGTCCGATCTTAGACTAGGAATGAACTCCG
* * *
28594953 TATGCTTAGACAAGGGATGAACTCCATATGCCTAAGTCAACCCACGAAACGATCGTACGGGAGCT
1 TATGCTTAGACAAGGAATGAACTCCATATGCCTAAGCCAACCCACGAAACGAGCGTACGGGAGCT
* *
28595018 CAGTCGGTCGGAGAGGCTGAATGCGCAAGCGGGGGATCGACTTGGTCCCCCCTGTGTGCTATCGA
66 CAGTCGGTCGGAGAGGCAGAATGCGCAAGCGGGGGATCGACTTGGTCCCCCCTGCGTGCTATC-A
* * * *
28595083 TCTTGCTACTAGTCCTACTACTGCAACCCTCAGTCCGGTCTGATCTTAGACTGGGAATGAACTCT
130 -ATTGCTA-TAG-CCTACTACTGCAACCCTCAGTCCGGTCCGATCTTAGACTAGGAATGAACTCC
28595148 G
192 G
* *
28595149 TATGCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTACGGGAGCT
1 TATGCTTAGACAAGGAATGAACTCCATATGCCTAAGCCAACCCACGAAACGAGCGTACGGGAGCT
*
28595214 CAGTCGATCGGAGA
66 CAGTCGGTCGGAGA
28595228 AGTAAAATGT
Statistics
Matches: 233, Mismatches: 28, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
184 107 0.46
185 3 0.01
187 1 0.00
188 2 0.01
190 1 0.00
191 1 0.00
193 3 0.01
194 1 0.00
195 1 0.00
196 112 0.48
197 1 0.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.21
Consensus pattern (192 bp):
TATGCTTAGACAAGGAATGAACTCCATATGCCTAAGCCAACCCACGAAACGAGCGTACGGGAGCT
CAGTCGGTCGGAGAGGCAGAATGCGCAAGCGGGGGATCGACTTGGTCCCCCCTGCGTGCTATCAA
TTGCTATAGCCTACTACTGCAACCCTCAGTCCGGTCCGATCTTAGACTAGGAATGAACTCCG
Found at i:28595156 original size:26 final size:26
Alignment explanation
Indices: 28595127--28595179 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28595117 CCGGTCTGAT
*
28595127 CTTAGAC-TGGGAATGAACTCTGTATG
1 CTTAGACAT-GGAATGAACTCCGTATG
28595153 CTTAGACATGGAATGAACTCCGTATG
1 CTTAGACATGGAATGAACTCCGTATG
28595179 C
1 C
28595180 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:0.19, G:0.25, T:0.28
Consensus pattern (26 bp):
CTTAGACATGGAATGAACTCCGTATG
Found at i:28596516 original size:26 final size:26
Alignment explanation
Indices: 28596477--28596530 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
28596467 TGTTTGATCT
28596477 TAGACTGGGAATGAACTTCGTATGCC
1 TAGACTGGGAATGAACTTCGTATGCC
*
28596503 TAGACTGGGGATGAACTTCGTATGCC
1 TAGACTGGGAATGAACTTCGTATGCC
28596529 TA
1 TA
28596531 AGTCAACCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (26 bp):
TAGACTGGGAATGAACTTCGTATGCC
Found at i:28604357 original size:26 final size:26
Alignment explanation
Indices: 28604328--28604380 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28604318 GGCTCAAAAT
28604328 CTTAGAC-TGTGAAGGAACTCCGTATG
1 CTTAGACATG-GAAGGAACTCCGTATG
*
28604354 CTTAGACATGGAATGAACTCCGTATG
1 CTTAGACATGGAAGGAACTCCGTATG
28604380 C
1 C
28604381 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:0.21, G:0.25, T:0.26
Consensus pattern (26 bp):
CTTAGACATGGAAGGAACTCCGTATG
Found at i:28604786 original size:157 final size:155
Alignment explanation
Indices: 28604353--28604800 Score: 424
Period size: 156 Copynumber: 2.9 Consensus size: 155
28604343 AACTCCGTAT
* *
28604353 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACT-AACCGAGCGTGCGAGCGCTCA
1 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCA-TGAAACGAGCGTGCG-GCGCTCA
* ** * * * *
28604417 GTCGGTTAGAG-GGCATAATGCGCAAGCTAGGGATCAGGCCAGTCCCCCCTGTGTGCTGTCGATC
64 GCCGGTCGGAGAGGAATAATTCGCAAGCTAGGGATC-GGCCAGTCCCCCTTGCGTGCTGTCGATC
*
28604481 CTGCTGTCACAACCATCGGTCCGGTCCAA
128 CTGCTGCCACAACCATCGGTCC-GTCCAA
* * * * * * *
28604510 TCTTAGA-GTGGGAATGAACT-CCTATGCATAAGTCAACCCACGAAACGAGCGTGCGGGCACTGA
1 GCTTAGACAT-GGAATGAACTCCCTATGCCTAAGCCAACCCATGAAACGAGCGTGC-GGCGCTCA
* * * * * *
28604573 GCCGGTCGAAGAGGAATAA-TCGCAAGCTGGGGATTAGCCCGGTCCCCCTCTACGTGCT-TCGAT
64 GCCGGTCGGAGAGGAATAATTCGCAAGCTAGGGA-TCGGCCAGTCCCCCT-TGCGTGCTGTCGAT
* * * * *
28604636 CCCGCTGCCATAACCCTCGGTCC-TACTAGG
127 CCTGCTGCCACAACCATCGGTCCGT-CCA-A
* * *
28604666 GCTTAGACATGGAATGAACTCCCTATGCCCAAGCCAACCCATGAAACGGGCATGCAGGCGCTCAG
1 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAACGAGCGTGC-GGCGCTCAG
* * * *
28604731 CCGGCCGGAGAGGTAGAATTCGCAAGCCAGGGATCGGCCTAGTCCCCCTTGCGTGCTGTCGATCC
65 CCGGTCGGAGAGGAATAATTCGCAAGCTAGGGATCGGCC-AGTCCCCCTTGCGTGCTGTCGATCC
28604796 TGCTG
129 TGCTG
28604801 TGGCAACCCT
Statistics
Matches: 228, Mismatches: 50, Indels: 25
0.75 0.17 0.08
Matches are distributed among these distances:
154 1 0.00
155 2 0.01
156 103 0.45
157 91 0.40
158 31 0.14
ACGTcount: A:0.23, C:0.30, G:0.27, T:0.19
Consensus pattern (155 bp):
GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGCGCTCAGC
CGGTCGGAGAGGAATAATTCGCAAGCTAGGGATCGGCCAGTCCCCCTTGCGTGCTGTCGATCCTG
CTGCCACAACCATCGGTCCGTCCAA
Found at i:28604880 original size:26 final size:26
Alignment explanation
Indices: 28604824--28604880 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
28604814 TCCGATCTGA
*
28604824 TCTTAGACTAGGAATGAACTCCGTAC
1 TCTTAGACTAGGAATGAACTCCGCAC
* * * *
28604850 GCTTAGACTGGGGATGAACTCCGCAT
1 TCTTAGACTAGGAATGAACTCCGCAC
28604876 TCTTA
1 TCTTA
28604881 AGTCAACCCA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (26 bp):
TCTTAGACTAGGAATGAACTCCGCAC
Found at i:28605235 original size:26 final size:26
Alignment explanation
Indices: 28605193--28605245 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
28605183 CTGGTCTGAT
28605193 CTTAGAATGGGAATGAACTCCGTATG
1 CTTAGAATGGGAATGAACTCCGTATG
* *
28605219 CTTAGACAT-GGATTGAACTCTGTATG
1 CTTAGA-ATGGGAATGAACTCCGTATG
28605245 C
1 C
28605246 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:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (26 bp):
CTTAGAATGGGAATGAACTCCGTATG
Found at i:28605711 original size:157 final size:157
Alignment explanation
Indices: 28605219--28605718 Score: 474
Period size: 158 Copynumber: 3.2 Consensus size: 157
28605209 ACTCCGTATG
* * * * **
28605219 CTTAGACATGGATTGAACTCTGTATGCCTAAGCCAACCCACAAAACGAGCGAACGGGCACTCAAC
1 CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCG-TCGGGTGCTCAAC
* * * * *
28605284 CGACCAGAGAGGCAAAATACGCATGCCAGGGA-CCGACCCGATCCCCCCTGCGTGCTGTCGATCC
65 CGACCAGAGAGGCAAAATGCGCAAGCCGGGGATCAG-CCCGATCCCCCCTGCATGCTGTCGATCC
* * **
28605348 TACTGCCGTAACCCTC-ATTCAAGTCTGAT
129 TACTACCATAACCCTCGA-TCCGGTCTGAT
** * * * * *
28605377 CTTAGAC-TGGGAATGAACTTTGTATGCCTAAGTCAACCCATGAAACGAGCGTCGGGTGTTGAGC
1 CTTAGACAT-GGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTCGGGTGCTCAAC
* * * * * *
28605441 CGACCGGAGACGCATAATGCGCAAGCCGGGGATCGGCCTGATCCCCCTCTGCATGCTGTCGGT-C
65 CGACCAGAGAGGCAAAATGCGCAAGCCGGGGATCAGCCCGATCCCCC-CTGCATGCTGTCGATCC
* * * * * **
28605505 TCACTATCACAACCCTTGGTTCGGT-TGGGG
129 T-ACTACCATAACCCTCGATCCGGTCT-GAT
* * *
28605535 ATTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGGGCGTGCGGGTGCTCAAC
1 CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGT-CGGGTGCTCAAC
* * * * *
28605600 CGGCTAGAGAGGCAGAATGCGCAAGCCGGGGATCAGCCCGGT-CCCCCTGCATGCTATCGATCCT
65 CGACCAGAGAGGCAAAATGCGCAAGCCGGGGATCAGCCCGATCCCCCCTGCATGCTGTCGATCCT
*
28605664 GCTACCATAACCCTCGATCCGGTCTGAT
130 ACTACCATAACCCTCGATCCGGTCTGAT
28605692 CTTAGAC-TAGGAATGAACTCCGTATGC
1 CTTAGACAT-GGAATGAACTCCGTATGC
28605719 TTAGATTGTA
Statistics
Matches: 269, Mismatches: 62, Indels: 23
0.76 0.18 0.06
Matches are distributed among these distances:
156 1 0.00
157 101 0.38
158 123 0.46
159 44 0.16
ACGTcount: A:0.25, C:0.30, G:0.25, T:0.20
Consensus pattern (157 bp):
CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTCGGGTGCTCAACC
GACCAGAGAGGCAAAATGCGCAAGCCGGGGATCAGCCCGATCCCCCCTGCATGCTGTCGATCCTA
CTACCATAACCCTCGATCCGGTCTGAT
Found at i:28606462 original size:26 final size:26
Alignment explanation
Indices: 28606424--28606476 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28606414 GGCTCAAAAT
28606424 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
*
28606450 CTTAGACAT-GGAATGGACTCCGTATG
1 CTTAGAC-TGGGAATGAACTCCGTATG
28606476 C
1 C
28606477 CTACGCCAAC
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:0.26, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28606806 original size:25 final size:26
Alignment explanation
Indices: 28606768--28606817 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
28606758 CGGTCTGATC
28606768 TAGACTAGGAATGAACT-CGTATGCT
1 TAGACTAGGAATGAACTCCGTATGCT
* *
28606793 TAGACTGGGGATGAACTCCGTATGC
1 TAGACTAGGAATGAACTCCGTATGC
28606818 CTAAGTCAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (26 bp):
TAGACTAGGAATGAACTCCGTATGCT
Found at i:28607125 original size:26 final size:26
Alignment explanation
Indices: 28607096--28607148 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28607086 TCGGTCCGAT
*
28607096 CTTAGAC-TGGGAATGAACTCCGTATG
1 CTTAGACAT-GGAATGAACTCCCTATG
28607122 CTTAGACATGGAATGAACTCCCTATG
1 CTTAGACATGGAATGAACTCCCTATG
28607148 C
1 C
28607149 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:0.23, G:0.23, T:0.26
Consensus pattern (26 bp):
CTTAGACATGGAATGAACTCCCTATG
Found at i:28608616 original size:159 final size:157
Alignment explanation
Indices: 28608314--28608817 Score: 436
Period size: 159 Copynumber: 3.2 Consensus size: 157
28608304 AACTCCGTAT
*
28608314 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCTAACCTATGAAACGAGCGTGCGGGCGCTCAG
1 GCTTAGACATGGAATGAACTCCATATGCCTAAGC-AACC-ATGAAACGAGCGTGCGGGCGCTCAG
* * * *
28608379 CCAGTCGAAGAGGCAGAATGCGTAAGTC-GGGGATCGGCCCAGTCCCACCCTGCGTGCTGTCGAT
64 CCA-CCGAAGAGGCAGAATGCGCAAGCCAGGGGATCGACCCAGTCCCACCCTGCGTGCTGTCGAT
* ** * *
28608443 CCTGCTACTGCAACCCTCAGTTCGGTCT-GA
128 CCCGCTACCACAACCCTCAGTCCAG-CTGGA
* * * * * *
28608473 TCTTAGAC-TGGGAATGAACTCCATATGCATAAGTCAACTCACGAAACGAGCGTACGGGTGCTGA
1 GCTTAGACAT-GGAATGAACTCCATATGCCTAAG-CAAC-CATGAAACGAGCGTGCGGGCGCTCA
* * * *
28608537 GCCGACCGAAGAGGCATAATGCGCAAG-CAGGGGATCGACCTAGTCCC-CTTCTGTGTGCTGTC-
63 GCC-ACCGAAGAGGCAGAATGCGCAAGCCAGGGGATCGACCCAGTCCCAC-CCTGCGTGCTGTCG
* * *
28608599 AGTCCCGCTGCCACAACCCTCGGTCCAGCTGGG
126 A-TCCCGCTACCACAACCCTCAGTCCAGCTGGA
* *
28608632 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAACGGGCGTGCGGGCGCTCAG
1 GCTTAGACATGGAATGAACTCCATATGCCTAAG-CAA-CCATGAAACGAGCGTGCGGGCGCTCAG
* * * * * * *
28608697 CCAACCGGAGAGGTAGAATGCACAAGCCA-GGGATCGGCCCGGTCCC-CCCTGCATGTTGTCGAT
64 CC-ACCGAAGAGGCAGAATGCGCAAGCCAGGGGATCGACCCAGTCCCACCCTGCGTGCTGTCGAT
* * * * *
28608760 CCTG-TAGCCGCAATCCTCGGTCCAG-TCCGA
128 CCCGCTA-CCACAACCCTCAGTCCAGCT-GGA
* *
28608790 TCTTAGAC-TGGGAATGAACTTCATATGC
1 GCTTAGACAT-GGAATGAACTCCATATGC
28608818 TTAGACTGGG
Statistics
Matches: 278, Mismatches: 52, Indels: 31
0.77 0.14 0.09
Matches are distributed among these distances:
157 3 0.01
158 59 0.21
159 209 0.75
160 7 0.03
ACGTcount: A:0.23, C:0.29, G:0.28, T:0.20
Consensus pattern (157 bp):
GCTTAGACATGGAATGAACTCCATATGCCTAAGCAACCATGAAACGAGCGTGCGGGCGCTCAGCC
ACCGAAGAGGCAGAATGCGCAAGCCAGGGGATCGACCCAGTCCCACCCTGCGTGCTGTCGATCCC
GCTACCACAACCCTCAGTCCAGCTGGA
Found at i:28608842 original size:26 final size:26
Alignment explanation
Indices: 28608791--28608843 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28608781 CCAGTCCGAT
*
28608791 CTTAGACTGGGAATGAACTTCATATG
1 CTTAGACTGGGAATGAACTCCATATG
* *
28608817 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCATATG
28608843 C
1 C
28608844 CTAAATCAAC
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:28609551 original size:26 final size:26
Alignment explanation
Indices: 28609513--28609565 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
28609503 GGCTCAAAAT
28609513 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28609539 CTTAGACAT-GGAATGAACTCCGTATG
1 CTTAGAC-TGGGAATGAACTCCGTATG
28609565 C
1 C
28609566 CTAAGCTAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 25 0.96
27 1 0.04
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Done.