Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009587.1 Hibiscus syriacus cultivar Beakdansim tig00116965_pilon, 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: 6483253
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 29
Found at i:500609 original size:28 final size:28
Alignment explanation
Indices: 500550--500609 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
500540 TTTTTCATTC
* * * *
500550 TTTTTCTTTTTCTTTTTTTCCTTTTTCC
1 TTTTCCTTTTCCTTTTTTTACTTTTTCA
* *
500578 TTTTCCTTTTCCTTTTTTTATTTTTTTA
1 TTTTCCTTTTCCTTTTTTTACTTTTTCA
500606 TTTT
1 TTTT
500610 TTTCTTCTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (28 bp):
TTTTCCTTTTCCTTTTTTTACTTTTTCA
Found at i:500618 original size:61 final size:60
Alignment explanation
Indices: 500477--500622 Score: 156
Period size: 61 Copynumber: 2.4 Consensus size: 60
500467 TTGAACCCTC
* * **
500477 TTTTTTATTTATTCTTTCTTTTTCTTTTCTTTCGTTTTTTTTTCTTTTTTTTCATTTTTCAT
1 TTTTTTATTTTTTC-TTCTTTTTCTTTTCTTTCCTTTTTTTTTCTTTTCCTT-ATTTTTCAT
*
500539 TTTTTTCATTCTTT-TTCTTTTTCTTTT-TTTCCTTTTTCCTTTTCCTTTTCCTT-TTTTT-AT
1 TTTTTT-ATTTTTTCTTCTTTTTCTTTTCTTTCCTTTTT--TTTT-CTTTTCCTTATTTTTCAT
500599 TTTTTTATTTTTTTCTTCTTTTTC
1 TTTTTTA-TTTTTTCTTCTTTTTC
500623 AGGCAAAGTA
Statistics
Matches: 72, Mismatches: 6, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
59 1 0.01
60 22 0.31
61 27 0.38
62 10 0.14
63 12 0.17
ACGTcount: A:0.05, C:0.16, G:0.01, T:0.79
Consensus pattern (60 bp):
TTTTTTATTTTTTCTTCTTTTTCTTTTCTTTCCTTTTTTTTTCTTTTCCTTATTTTTCAT
Found at i:511126 original size:51 final size:51
Alignment explanation
Indices: 511067--511179 Score: 208
Period size: 51 Copynumber: 2.2 Consensus size: 51
511057 CGAAAACTTA
*
511067 TAAAATTTAAAGAATGAAAATAAATTTATAATAAAAAATATATAATAATAT
1 TAAAATTTAAAGAATGAAAATAAATTTATAATAAAAAATATAAAATAATAT
511118 TAAAATTTAAAGAATGAAAATAAATTTATAATAAAAAATATAAAATAATAT
1 TAAAATTTAAAGAATGAAAATAAATTTATAATAAAAAATATAAAATAATAT
*
511169 TAAAATATAAA
1 TAAAATTTAAA
511180 ATAATATAAG
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.32
Consensus pattern (51 bp):
TAAAATTTAAAGAATGAAAATAAATTTATAATAAAAAATATAAAATAATAT
Found at i:511173 original size:18 final size:18
Alignment explanation
Indices: 511152--511186 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
511142 TTTATAATAA
511152 AAAATATAAAATAATATT
1 AAAATATAAAATAATATT
511170 AAAATATAAAATAATAT
1 AAAATATAAAATAATAT
511187 AAGCAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAATATAAAATAATATT
Found at i:511174 original size:11 final size:10
Alignment explanation
Indices: 511148--511188 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
511138 TAAATTTATA
511148 ATAAAA-AAT
1 ATAAAATAAT
511157 ATAAAATAAT
1 ATAAAATAAT
*
511167 AT-TAA-AAT
1 ATAAAATAAT
511175 ATAAAATAAT
1 ATAAAATAAT
511185 ATAA
1 ATAA
511189 GCAAAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
8 5 0.19
9 10 0.37
10 12 0.44
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
ATAAAATAAT
Found at i:511564 original size:23 final size:23
Alignment explanation
Indices: 511538--511585 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
511528 ATAAAGTACA
*
511538 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
511561 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
511584 AT
1 AT
511586 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:511992 original size:21 final size:22
Alignment explanation
Indices: 511967--512018 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
511957 ACACTTTACA
*
511967 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
511990 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
512013 ATATAA
1 ATATAA
512019 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:512003 original size:23 final size:23
Alignment explanation
Indices: 511977--512039 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
511967 ATATAACCAC
511977 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
512000 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
512023 TACCTATTACATCATAT
1 TACCTATTACATTATAT
512040 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:512497 original size:39 final size:39
Alignment explanation
Indices: 512443--512529 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
512433 TCAAGTTGTA
*
512443 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
512482 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
512521 GATTTTGAT
1 GATTTTGAT
512530 GAGCATCGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:512809 original size:18 final size:18
Alignment explanation
Indices: 512786--512822 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
512776 CGAAATATAT
512786 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
512804 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
512822 A
1 A
512823 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:513099 original size:25 final size:25
Alignment explanation
Indices: 513071--513121 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
513061 TTAATCCAAA
*
513071 TAATGTACCCATAACAATGTTCAAT
1 TAATGTACCCACAACAATGTTCAAT
*
513096 TAATGTACCCACAACAATGTTTAAT
1 TAATGTACCCACAACAATGTTCAAT
513121 T
1 T
513122 GATTTGTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (25 bp):
TAATGTACCCACAACAATGTTCAAT
Found at i:513413 original size:21 final size:22
Alignment explanation
Indices: 513388--513439 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
513378 ACACTTTACA
*
513388 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
513411 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
513434 ATATAA
1 ATATAA
513440 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:513424 original size:23 final size:23
Alignment explanation
Indices: 513398--513460 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
513388 ATATAACCAC
513398 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
513421 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
513444 TACCTATTACATCATAT
1 TACCTATTACATTATAT
513461 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:513755 original size:21 final size:22
Alignment explanation
Indices: 513730--513781 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
513720 ACACTTTACA
*
513730 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
513753 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
513776 ATATAA
1 ATATAA
513782 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:513766 original size:23 final size:23
Alignment explanation
Indices: 513740--513802 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
513730 ATATAACCAC
513740 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
513763 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
513786 TACCTATTACATCATAT
1 TACCTATTACATTATAT
513803 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:514532 original size:184 final size:184
Alignment explanation
Indices: 514223--514750 Score: 939
Period size: 184 Copynumber: 2.9 Consensus size: 184
514213 TTCAAATTAC
* * *
514223 CGACACTTTTTTAAATGGTATCGACACATTTTTATTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
* * *
514288 ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTT
514353 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGT
*
514407 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGTCATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
514472 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTT
514537 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGT
*
514591 CGACACTTTTTTAAATCGTATCGACATATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
514656 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTT
* * * **
514721 ATATTGCAAATTTACCTATTTTATTATAAT
131 ATATTACAAAATTATCTATTACATTATAAT
514751 ATGTTGAAAG
Statistics
Matches: 330, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
184 330 1.00
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (184 bp):
CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTT
ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGT
Found at i:516206 original size:9 final size:9
Alignment explanation
Indices: 516192--516277 Score: 93
Period size: 9 Copynumber: 9.6 Consensus size: 9
516182 CTTGTTTGGA
*
516192 TCATCATCT
1 TCATCATCG
516201 TCATCATCG
1 TCATCATCG
*
516210 TCATCATCT
1 TCATCATCG
**
516219 TCATCGCCAG
1 TCATCATC-G
*
516229 -CTTCATCG
1 TCATCATCG
*
516237 TCATCATCA
1 TCATCATCG
516246 TCATCATCG
1 TCATCATCG
*
516255 TCATCATCA
1 TCATCATCG
516264 TCATCATCG
1 TCATCATCG
516273 TCATC
1 TCATC
516278 TTCATCGTCA
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
8 1 0.02
9 61 0.98
ACGTcount: A:0.23, C:0.35, G:0.07, T:0.35
Consensus pattern (9 bp):
TCATCATCG
Found at i:516208 original size:12 final size:12
Alignment explanation
Indices: 516204--516295 Score: 85
Period size: 12 Copynumber: 7.4 Consensus size: 12
516194 ATCATCTTCA
516204 TCATCGTCATCATCT
1 TCATCGTCATC---T
* *
516219 TCATCGCCAGCT
1 TCATCGTCATCT
*
516231 TCATCGTCATCA
1 TCATCGTCATCT
* *
516243 TCATCATCATCG
1 TCATCGTCATCT
* *
516255 TCATCATCATCA
1 TCATCGTCATCT
516267 TCATCGTCATCT
1 TCATCGTCATCT
*
516279 TCATCGTCAGCT
1 TCATCGTCATCT
516291 TCATC
1 TCATC
516296 TTCTGCGACC
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
12 57 0.86
15 9 0.14
ACGTcount: A:0.22, C:0.35, G:0.09, T:0.35
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:516215 original size:18 final size:18
Alignment explanation
Indices: 516191--516283 Score: 114
Period size: 18 Copynumber: 5.2 Consensus size: 18
516181 ACTTGTTTGG
*
516191 ATCATCATCTTCATCATC
1 ATCATCATCGTCATCATC
* * **
516209 GTCATCATCTTCATCGCC
1 ATCATCATCGTCATCATC
* *
516227 AGCTTCATCGTCATCATC
1 ATCATCATCGTCATCATC
516245 ATCATCATCGTCATCATC
1 ATCATCATCGTCATCATC
*
516263 ATCATCATCGTCATCTTC
1 ATCATCATCGTCATCATC
516281 ATC
1 ATC
516284 GTCAGCTTCA
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.24, C:0.34, G:0.06, T:0.35
Consensus pattern (18 bp):
ATCATCATCGTCATCATC
Found at i:516294 original size:18 final size:18
Alignment explanation
Indices: 516195--516298 Score: 66
Period size: 18 Copynumber: 5.4 Consensus size: 18
516185 GTTTGGATCA
*
516195 TCATCTTCATCATC-GTCA
1 TCATCTTCATCATCAG-CT
**
516213 TCATCTTCATCGCCAGCT
1 TCATCTTCATCATCAGCT
*
516231 TCATCGTCATCATCATCATCAT
1 TCATC-T--TCATCATCAGC-T
* * *
516253 CGTCATCATCATCATCATCG
1 --TCATCTTCATCATCAGCT
*
516273 TCATCTTCATCGTCAGCT
1 TCATCTTCATCATCAGCT
516291 TCATCTTC
1 TCATCTTC
516299 TGCGACCGCT
Statistics
Matches: 67, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
18 40 0.60
19 2 0.03
21 19 0.28
22 1 0.01
24 5 0.07
ACGTcount: A:0.21, C:0.35, G:0.08, T:0.37
Consensus pattern (18 bp):
TCATCTTCATCATCAGCT
Found at i:516298 original size:6 final size:6
Alignment explanation
Indices: 516191--516283 Score: 87
Period size: 6 Copynumber: 15.5 Consensus size: 6
516181 ACTTGTTTGG
* * * ** * * *
516191 ATCATC ATCTTC ATCATC GTCATC ATCTTC ATCGCC AGCTTC ATCGTC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC
* * *
516239 ATCATC ATCATC ATCGTC ATCATC ATCATC ATCGTC ATCTTC ATC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATC
516284 GTCAGCTTCA
Statistics
Matches: 70, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 70 1.00
ACGTcount: A:0.24, C:0.34, G:0.06, T:0.35
Consensus pattern (6 bp):
ATCATC
Found at i:518741 original size:198 final size:198
Alignment explanation
Indices: 517750--519161 Score: 2572
Period size: 198 Copynumber: 7.1 Consensus size: 198
517740 TTTAAATTAG
517750 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
517815 ATTGTATCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
517880 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG-AA
517945 AAAAA
194 AAAAA
517950 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
518015 ATTGTACCGGTTAGATT-AAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
518079 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG--A
518144 AAAAAA
193 AAAAAA
518150 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
518215 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
518280 CGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
*
518345 TAA
196 AAA
*
518348 TATCGACACAAAC--TATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAGCCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
518411 ATTGTACCGGTTAGATTGAAAAATGACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
518476 CGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
518541 AAA
196 AAA
*
518544 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
518609 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
518674 CGACACTTTTT-TATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG-AAA
518738 AAAA
195 AAAA
*
518742 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGG--TA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
518805 ATTGTACCGGTTAGATT-AAAAATTACATATTACATTATACTTTT-GGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
518868 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTT-ATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
518932 AAA
196 AAA
*
518935 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
519000 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
519065 CGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAGA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
519130 AAA
196 AAA
*
519133 TATCGACACAAACTATATTAGTATCGACA
1 TATCGACACAAACTATATTAGTGTCGACA
519162 TGACCCTTAA
Statistics
Matches: 1184, Mismatches: 17, Indels: 24
0.97 0.01 0.02
Matches are distributed among these distances:
193 68 0.06
194 41 0.03
195 82 0.07
196 238 0.20
197 115 0.10
198 253 0.21
199 109 0.09
200 225 0.19
201 53 0.04
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (198 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
AAA
Found at i:519286 original size:19 final size:19
Alignment explanation
Indices: 519239--519286 Score: 71
Period size: 18 Copynumber: 2.6 Consensus size: 19
519229 TTATATTCAC
*
519239 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
519258 ATAC-AAATTATAAATCTT
1 ATACAAAATTATAAATCGT
519276 ATACAAAATTA
1 ATACAAAATTA
519287 ACTCGACATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 16 0.62
19 10 0.38
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:521100 original size:33 final size:32
Alignment explanation
Indices: 521063--521127 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
521053 CATCTTAATA
*
521063 TCACCCCTTAACACCGAAACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAAC-TCTTTCACCACT
***
521096 TCACCCCTCAACACCTCTACTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTCTTTCACCACT
521128 CCATCTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.25, C:0.46, G:0.02, T:0.28
Consensus pattern (32 bp):
TCACCCCTCAACACCGAAACTCTTTCACCACT
Found at i:523454 original size:20 final size:19
Alignment explanation
Indices: 523408--523454 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
523398 TCCGGTATCA
*
523408 TTTTACCGTTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
523427 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
523448 TTTTACC
1 TTTTACC
523455 TGTTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.19, C:0.17, G:0.09, T:0.55
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:523600 original size:20 final size:20
Alignment explanation
Indices: 523574--523619 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
523564 CACTTTTAAA
523574 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
523593 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
523614 TTTACC
1 TTTACC
523620 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:524580 original size:15 final size:15
Alignment explanation
Indices: 524560--524601 Score: 84
Period size: 15 Copynumber: 2.8 Consensus size: 15
524550 GTAAAATGAT
524560 TGTATTAATTTATAA
1 TGTATTAATTTATAA
524575 TGTATTAATTTATAA
1 TGTATTAATTTATAA
524590 TGTATTAATTTA
1 TGTATTAATTTA
524602 AAGTGAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (15 bp):
TGTATTAATTTATAA
Found at i:524844 original size:52 final size:52
Alignment explanation
Indices: 524766--524921 Score: 294
Period size: 52 Copynumber: 3.0 Consensus size: 52
524756 TTACCTATTC
*
524766 GATTATCTGGTTAAAATTGATATATGTTCACATGTTCAAATTTAGAAAAAAA
1 GATTACCTGGTTAAAATTGATATATGTTCACATGTTCAAATTTAGAAAAAAA
*
524818 GATTACCTGGTTAAAATTGATATATGTTAACATGTTCAAATTTAGAAAAAAA
1 GATTACCTGGTTAAAATTGATATATGTTCACATGTTCAAATTTAGAAAAAAA
524870 GATTACCTGGTTAAAATTGATATATGTTCACATGTTCAAATTTAGAAAAAAA
1 GATTACCTGGTTAAAATTGATATATGTTCACATGTTCAAATTTAGAAAAAAA
524922 AGGTGTAGCT
Statistics
Matches: 101, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 101 1.00
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.35
Consensus pattern (52 bp):
GATTACCTGGTTAAAATTGATATATGTTCACATGTTCAAATTTAGAAAAAAA
Found at i:525861 original size:19 final size:19
Alignment explanation
Indices: 525821--525862 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
525811 GTTTGAATGC
*
525821 TAATTTAGAATGATAATCA
1 TAATTTAGAATGAAAATCA
*
525840 TAATTTAGATAT-AAAATTA
1 TAATTTAGA-ATGAAAATCA
525859 TAAT
1 TAAT
525863 ATTTAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 18 0.90
20 2 0.10
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.40
Consensus pattern (19 bp):
TAATTTAGAATGAAAATCA
Found at i:526008 original size:71 final size:71
Alignment explanation
Indices: 525928--526069 Score: 284
Period size: 71 Copynumber: 2.0 Consensus size: 71
525918 AAATATGGAT
525928 GAATTACTAATAGATTATCACCAAAATATTATAAAAAATGAACGTTTGATCATTATTTTGTTTAA
1 GAATTACTAATAGATTATCACCAAAATATTATAAAAAATGAACGTTTGATCATTATTTTGTTTAA
525993 ATCGAA
66 ATCGAA
525999 GAATTACTAATAGATTATCACCAAAATATTATAAAAAATGAACGTTTGATCATTATTTTGTTTAA
1 GAATTACTAATAGATTATCACCAAAATATTATAAAAAATGAACGTTTGATCATTATTTTGTTTAA
526064 ATCGAA
66 ATCGAA
526070 ATAAATTGAT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.37
Consensus pattern (71 bp):
GAATTACTAATAGATTATCACCAAAATATTATAAAAAATGAACGTTTGATCATTATTTTGTTTAA
ATCGAA
Found at i:526831 original size:30 final size:31
Alignment explanation
Indices: 526791--526848 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
526781 TGTAATATAG
*
526791 TCCCCTAACATTTAGTCCGTTTGCAATACAA
1 TCCCCTAACATTTAGTCCATTTGCAATACAA
526822 TCCCC-AACATTTAGTCCATTTGCAATA
1 TCCCCTAACATTTAGTCCATTTGCAATA
526849 TGGTCCCAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (31 bp):
TCCCCTAACATTTAGTCCATTTGCAATACAA
Found at i:527656 original size:55 final size:55
Alignment explanation
Indices: 527595--527704 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
527585 TAGGATTTAA
527595 ATACCCCATTATAGCATTGAGGGAACCCTAACCTTCATTATACTCTTCCTATTTT
1 ATACCCCATTATAGCATTGAGGGAACCCTAACCTTCATTATACTCTTCCTATTTT
527650 ATACCCCATTATAGCATTGAGGGAACCCTAACCTTCATTATACTCTTCCTATTTT
1 ATACCCCATTATAGCATTGAGGGAACCCTAACCTTCATTATACTCTTCCTATTTT
527705 CGACGTCGTT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.27, C:0.27, G:0.09, T:0.36
Consensus pattern (55 bp):
ATACCCCATTATAGCATTGAGGGAACCCTAACCTTCATTATACTCTTCCTATTTT
Found at i:528556 original size:3 final size:3
Alignment explanation
Indices: 528550--528629 Score: 79
Period size: 3 Copynumber: 26.7 Consensus size: 3
528540 AACAAAACAA
* * * * * **
528550 AAT AAT AAC ATT ATT AAT AAC AAT AAT AAT AAT ATT AAT AAT TTT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
**
528598 AAT GTT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
528630 ACTTGGACGA
Statistics
Matches: 61, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:529151 original size:41 final size:42
Alignment explanation
Indices: 529118--529212 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
529108 TATGGATGGT
*
529118 CCGAAGGACTT-ATCATCTTGCTCGAGAGGCTTATAGATGAA
1 CCGAAGGACTTAATCATCATGCTCGAGAGGCTTATAGATGAA
* * * **
529159 CCGAAGGATTTAATCATCATGCTCGAAAGACTTACCGATG-A
1 CCGAAGGACTTAATCATCATGCTCGAGAGGCTTATAGATGAA
529200 CTCGAAGGACTTA
1 C-CGAAGGACTTA
529213 CTAATTTTGG
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
41 12 0.27
42 33 0.73
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (42 bp):
CCGAAGGACTTAATCATCATGCTCGAGAGGCTTATAGATGAA
Found at i:529327 original size:255 final size:255
Alignment explanation
Indices: 528876--529412 Score: 792
Period size: 255 Copynumber: 2.1 Consensus size: 255
528866 TGCATGAACG
* *
528876 CATCTTGC-CTGA-AGGTCTTATAGATGACCCAAAGGATTAATCATCTTGCTCGAAAGACTAAAA
1 CATCTTGCTC-GAGAGG-CTTATAGATGAACCAAAGGATTAATCATCATGCTCGAAAGACTAAAA
* *
528939 GATGGCCCAAAGAACTTACTAATTTTGGAAGTAGTTTACAAGGTAAGAAACTTTGGAAATCATTT
64 GATGACCCAAAGAACTTACTAATTTTGGAAATAGTTTACAAGGTAAGAAACTTTGGAAATCATTT
* * * *
529004 CTTTTAGTTTTCAAAAATTTCAATTTGCATATTTAAATGAGAAACTTTAGAAATCGTTTTCTCAT
129 CTCTTACTTTTCAAAAAATTCAATTTGAATATTTAAATGAGAAACTTTAGAAATCGTTTTCTCAT
*
529069 TTTTCAAAAAACATGTGAAAACATCATGCCCAAAGGTCTTATGGATGGTCCGAAGGACTTAT
194 TTTTCAAAAAACATGTGAAAACATCATGCCCAAAGGTCTTATGGATGGCCCGAAGGACTTAT
* * **
529131 CATCTTGCTCGAGAGGCTTATAGATGAACCGAAGGATTTAATCATCATGCTCGAAAGACTTACCG
1 CATCTTGCTCGAGAGGCTTATAGATGAACCAAAGGA-TTAATCATCATGCTCGAAAGACTAAAAG
* * * * *
529196 ATGACTCGAAGGACTTACTAATTTTGGAAATAGTTTACTATGTAAGAAACTTTGGAAATCATTT-
65 ATGACCCAAAGAACTTACTAATTTTGGAAATAGTTTACAAGGTAAGAAACTTTGGAAATCATTTC
* * *
529260 TCTTACTTTTCAAAAAATTCAATTTTAATATTTAAATGAGGAACTTTGGAAATCGTTTTCTCATT
130 TCTTACTTTTCAAAAAATTCAATTTGAATATTTAAATGAGAAACTTTAGAAATCGTTTTCTCATT
* * **
529325 TTTCAAAACACATGTGAAAACATCTTGCCTGAAGGTCTTATGGATGGCCCGAAGGACTTAT
195 TTTCAAAAAACATGTGAAAACATCATGCCCAAAGGTCTTATGGATGGCCCGAAGGACTTAT
*
529386 CATCTTGCTCGAGAGGTTTATAGATGA
1 CATCTTGCTCGAGAGGCTTATAGATGA
529413 CTGATCGCTT
Statistics
Matches: 253, Mismatches: 26, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
255 168 0.66
256 85 0.34
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (255 bp):
CATCTTGCTCGAGAGGCTTATAGATGAACCAAAGGATTAATCATCATGCTCGAAAGACTAAAAGA
TGACCCAAAGAACTTACTAATTTTGGAAATAGTTTACAAGGTAAGAAACTTTGGAAATCATTTCT
CTTACTTTTCAAAAAATTCAATTTGAATATTTAAATGAGAAACTTTAGAAATCGTTTTCTCATTT
TTCAAAAAACATGTGAAAACATCATGCCCAAAGGTCTTATGGATGGCCCGAAGGACTTAT
Found at i:536348 original size:27 final size:27
Alignment explanation
Indices: 536318--536378 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
536308 AATTATAGAG
*
536318 ATGATTTGTTACCATTCCTATAAAGTT
1 ATGATTTGTTACCATTCCTATAAAGAT
* *
536345 ATGACTTGTTACCATTCCTATAGAGAT
1 ATGATTTGTTACCATTCCTATAAAGAT
536372 ATGATTT
1 ATGATTT
536379 TGTAAATAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.43
Consensus pattern (27 bp):
ATGATTTGTTACCATTCCTATAAAGAT
Found at i:539869 original size:20 final size:21
Alignment explanation
Indices: 539831--539869 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
539821 CATCAAGGTC
*
539831 TTTGTTGAGGCCATGAAATCT
1 TTTGTCGAGGCCATGAAATCT
539852 TTTGTCGAGGCCAT-AAAT
1 TTTGTCGAGGCCATGAAAT
539870 TCCTGCAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (21 bp):
TTTGTCGAGGCCATGAAATCT
Found at i:543486 original size:41 final size:42
Alignment explanation
Indices: 543428--543527 Score: 116
Period size: 42 Copynumber: 2.4 Consensus size: 42
543418 TGAAAACATT
*
543428 ATGCTCG-AAGAATTTATAGATTG-CTCAAAGGACTT-ATCATC
1 ATGCTCGAAAG-ACTTATAGA-TGACTCAAAGGACTTAATCATC
* * * *
543469 TTGCTCGAAAGGCTTATAGATGACTCGAAGGATTTAATCATC
1 ATGCTCGAAAGACTTATAGATGACTCAAAGGACTTAATCATC
543511 ATGCTCGAAAGACTTAT
1 ATGCTCGAAAGACTTAT
543528 TCATGTCCCG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
40 2 0.04
41 23 0.47
42 24 0.49
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (42 bp):
ATGCTCGAAAGACTTATAGATGACTCAAAGGACTTAATCATC
Found at i:543531 original size:22 final size:21
Alignment explanation
Indices: 543449--543527 Score: 65
Period size: 21 Copynumber: 3.8 Consensus size: 21
543439 ATTTATAGAT
*
543449 TGCTC-AAAGGACTTATCATCT
1 TGCTCGAAA-GACTTATCATCA
* *
543470 TGCTCGAAAGGCTTAT-A-GA
1 TGCTCGAAAGACTTATCATCA
* *
543489 TGACTCGAAGGATTTAATCATCA
1 TG-CTCGAAAGACTT-ATCATCA
543512 TGCTCGAAAGACTTAT
1 TGCTCGAAAGACTTAT
543528 TCATGTCCCG
Statistics
Matches: 44, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
19 2 0.05
20 10 0.23
21 15 0.34
22 14 0.32
23 3 0.07
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (21 bp):
TGCTCGAAAGACTTATCATCA
Found at i:543540 original size:42 final size:41
Alignment explanation
Indices: 543455--543546 Score: 112
Period size: 42 Copynumber: 2.2 Consensus size: 41
543445 AGATTGCTCA
* * * *
543455 AAGGACTTATCATCTTGCTCGAAAGGCTTATAGATGACTCG
1 AAGGACTTATCATCATGCTCGAAAGACTTATACATGACCCG
* * *
543496 AAGGATTTAATCATCATGCTCGAAAGACTTATTCATGTCCCG
1 AAGGACTT-ATCATCATGCTCGAAAGACTTATACATGACCCG
543538 AAGGACTTA
1 AAGGACTTA
543547 CTAAGTAAGA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
41 8 0.19
42 34 0.81
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.29
Consensus pattern (41 bp):
AAGGACTTATCATCATGCTCGAAAGACTTATACATGACCCG
Found at i:543545 original size:254 final size:253
Alignment explanation
Indices: 542979--543547 Score: 754
Period size: 255 Copynumber: 2.2 Consensus size: 253
542969 AGAGTTATCA
* * * * *
542979 ATGACCCGAAGGTTTTAATCATCATGCTCGAAAGACTTACTGATGGACCAAAGCACTTACCAATT
1 ATGACTCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGAT-GTCCGAAGGACTTACCAATT
* *
543044 TTGGAAATAGTTTACTAGGTAAGAAACTTTGAAAATCGTTTTCTTACTTTTCAAAAGTTTCAATT
65 TTGGAAATAGTTTACTAGGTAAGAAACTTTGAAAATCATTTTCTTACTTTTCAAAAATTTCAATT
*
543109 TTCAGATTTAAATGAGAAACTTTAGAAATCATTTTCAGATTTTTTGAAAAACATGTGAAAACATC
130 TTCAGATTTAAATGAGAAACTTTAGAAATCATTTTCA-ATTTTTCGAAAAACATGTGAAAACATC
* * * *
543174 CTCCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGGATTATAG
194 ATCCCCGAAGATCTTATAGATGGCCCAAAGGACTTATCATCTTGCTCGAAAGGATTATAG
* * * * *
543234 ATGA-TCTGAAAGATTTAATAATCTTGCTCGAAAGACTTACTGATGGATCTG-AGGACTTATCAA
1 ATGACTC-GAAGGATTTAATCATCATGCTCGAAAGACTTACTGAT-G-TCCGAAGGACTTACCAA
*
543297 -TTTGAGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCATTTTCTTACTTTTCAAAAATTTCA
63 TTTTG-GAAATAGTTTACTAGGTAAGAAACTTTGAAAATCATTTTCTTACTTTTCAAAAATTTCA
* *
543361 ATTTTCA-AGTTTAAATTAGAAACTTTGGAAATCATTTCTC-ATTTTTCGAAAAACATGTGAAAA
127 ATTTTCAGA-TTTAAATGAGAAACTTTAGAAATCATTT-TCAATTTTTCGAAAAACATGTGAAAA
* * * * * *
543424 CATTATGCTCGAAGAAT-TTATAGATTGCTCAAAGGACTTATCATCTTGCTCGAAAGGCTTATAG
190 CATCATCCCCGAAG-ATCTTATAGATGGCCCAAAGGACTTATCATCTTGCTCGAAAGGATTATAG
* *
543488 ATGACTCGAAGGATTTAATCATCATGCTCGAAAGACTTATTCATGTCCCGAAGGACTTAC
1 ATGACTCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGT-CCGAAGGACTTAC
543548 TAAGTAAGAA
Statistics
Matches: 272, Mismatches: 33, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
252 1 0.00
253 3 0.01
254 124 0.46
255 141 0.52
256 3 0.01
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (253 bp):
ATGACTCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGTCCGAAGGACTTACCAATTT
TGGAAATAGTTTACTAGGTAAGAAACTTTGAAAATCATTTTCTTACTTTTCAAAAATTTCAATTT
TCAGATTTAAATGAGAAACTTTAGAAATCATTTTCAATTTTTCGAAAAACATGTGAAAACATCAT
CCCCGAAGATCTTATAGATGGCCCAAAGGACTTATCATCTTGCTCGAAAGGATTATAG
Found at i:553215 original size:27 final size:27
Alignment explanation
Indices: 553177--553266 Score: 162
Period size: 27 Copynumber: 3.3 Consensus size: 27
553167 ATTCAAAGCC
553177 CTTTTTAAGCTTGGCCACCAATATCGG
1 CTTTTTAAGCTTGGCCACCAATATCGG
553204 CTTTTTAAGCTTGGCCACCAATATCGG
1 CTTTTTAAGCTTGGCCACCAATATCGG
*
553231 TTTTTTAAGCTTGGCCACCAATATCGG
1 CTTTTTAAGCTTGGCCACCAATATCGG
*
553258 TTTTTTAAG
1 CTTTTTAAG
553267 TCATGATAAA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (27 bp):
CTTTTTAAGCTTGGCCACCAATATCGG
Found at i:555826 original size:414 final size:416
Alignment explanation
Indices: 555169--556002 Score: 1245
Period size: 414 Copynumber: 2.0 Consensus size: 416
555159 ATATTTTAAT
* *
555169 TATAGTGATAAAATATATTGTCACAAAGATTTTCCTCCATTTTTTTGCGCCAAAAAAGTCATATA
1 TATAGTAACAAAATATATTGTCACAAAGATTTTCCTCCATTTTTTTGCGCCAAAAAAGTCATATA
* *
555234 GTGACAAATTTTGTAACTATAAGTGTTAATAATTATTACAAAAAAACATTGTCACAAAAATTAAT
66 GTAACAAATTTTGTAACTATAAGTGTTAATAATTATTACAAAAAAACATTGTCACAAAAAATAAT
* * *
555299 GATATTCACGTTTTTGTGATAAATTATATTTGTAGTTATAAATTTTAACTATAGTGATAGTATAT
131 GATATTCACATTTTTGTGACAAATTATAATTGTAGTTATAAATTTTAACTATAGTGATAGTATAT
* * * *
555364 ATTGTCATAACTATTTTTCTCCACTTTTTTGTTTCAAAAGTTATATTGACAATTTTTATAATTAA
196 ATTGTCATAAATATTTTTCTCCACTTTTTTGTTTAAAAAGTGATATTGACAAGTTTTATAATTAA
*
555429 AATTTATAGTTATTT-TTATAGAAAAAAATTATAACATCAAA-ATATAAAATTCAAGTTTTTTGT
261 AATTTATAGTT-TTTGTTATAGAAAAAAATTATAACATCAAATA-ATAAAATTAAAGTTTTTTGT
* *
555492 AATAAATTATTTTTGTACTTATATATTTTAATCATTATGAAAAATTATACTATCAGAACCATTTT
324 AATAAATTATTTTTGTACTTATATATTTTAATCATTATGAAAAATTATACTATCAAAACCATTTC
* *
555557 TTCATATTTTTTAGTG-TAAAAATGTTA
389 TCCATATTTTTTAGTGCCAAAAATGTTA
* *
555584 TATAGTAACAAAATATATTGTCATAAAGATTTTCCTCCATATTTTTTTGCTCC-AAAAA-TCATA
1 TATAGTAACAAAATATATTGTCACAAAGATTTTCCTCC--ATTTTTTTGCGCCAAAAAAGTCATA
* *
555647 TAGTAAC-AATTTTAGTAACTTTAAGTGTTTATAATTATTAC-AAAAAACATTGTCACAAAAAAT
64 TAGTAACAAATTTT-GTAACTATAAGTGTTAATAATTATTACAAAAAAACATTGTCACAAAAAAT
*
555710 AATGATATTCACATTTTTGTGACAAATTATAATTGTAGTTATAAATTTTAATTATAGTGAT-GAT
128 AATGATATTCACATTTTTGTGACAAATTATAATTGTAGTTATAAATTTTAACTATAGTGATAG-T
* * * *
555774 ATCTATTGTGATAAATA-TTTTCTCCACTTTTTTGTTTTAAAAAGTGATATTGATAAGTTTTGTA
192 ATATATTGTCATAAATATTTTTCTCCACTTTTTTG-TTTAAAAAGTGATATTGACAAGTTTTATA
* * *
555838 ATTATAATTTATAGTTTTTGTTATAGAAAAAAATTATCACATCATATAATAAAATTAAAGTTTTT
256 ATTAAAATTTATAGTTTTTGTTATAGAAAAAAATTATAACATCAAATAATAAAATTAAAGTTTTT
* * *
555903 TGTAATCAATTATTTTTGTAGTTATATATTTTAATTATTATGAAAAATTATACTATCAAAACCAT
321 TGTAATAAATTATTTTTGTACTTATATATTTTAATCATTATGAAAAATTATACTATCAAAACCAT
* *
555968 TTCTCCCTATTTTTTTGTGCCAAAAATGTTA
386 TTCTCCATATTTTTTAGTGCCAAAAATGTTA
555999 TATA
1 TATA
556003 ATAAAAGGTT
Statistics
Matches: 378, Mismatches: 33, Indels: 16
0.89 0.08 0.04
Matches are distributed among these distances:
413 21 0.06
414 254 0.67
415 86 0.23
416 5 0.01
417 12 0.03
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (416 bp):
TATAGTAACAAAATATATTGTCACAAAGATTTTCCTCCATTTTTTTGCGCCAAAAAAGTCATATA
GTAACAAATTTTGTAACTATAAGTGTTAATAATTATTACAAAAAAACATTGTCACAAAAAATAAT
GATATTCACATTTTTGTGACAAATTATAATTGTAGTTATAAATTTTAACTATAGTGATAGTATAT
ATTGTCATAAATATTTTTCTCCACTTTTTTGTTTAAAAAGTGATATTGACAAGTTTTATAATTAA
AATTTATAGTTTTTGTTATAGAAAAAAATTATAACATCAAATAATAAAATTAAAGTTTTTTGTAA
TAAATTATTTTTGTACTTATATATTTTAATCATTATGAAAAATTATACTATCAAAACCATTTCTC
CATATTTTTTAGTGCCAAAAATGTTA
Found at i:558802 original size:17 final size:17
Alignment explanation
Indices: 558770--558807 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
558760 GAGTAAAGTT
*
558770 ATTTTATATTTGTTTTTC
1 ATTTTATATATG-TTTTC
558788 ATTTTA-ATATGTTTTC
1 ATTTTATATATGTTTTC
558804 ATTT
1 ATTT
558808 CTGTATCTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 9 0.47
17 4 0.21
18 6 0.32
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.68
Consensus pattern (17 bp):
ATTTTATATATGTTTTC
Found at i:559305 original size:192 final size:190
Alignment explanation
Indices: 558978--559359 Score: 746
Period size: 192 Copynumber: 2.0 Consensus size: 190
558968 TGTGCTGGTG
558978 CTTTACATTTTGGGTGGTTTGATCCTCAAGATTGGTTCAGTTTCTAAATCTTTGAAAAATTTTAT
1 CTTTACATTTTGGGTGGTTTGATCCTCAAGATTGGTTCAGTTTCTAAATCTTTGAAAAATTTTAT
559043 AATTGCCAGGAAACATTTGCTGATAATAATGGCGGGTCAGAGGAATAGCTATGGGAAGCGAGCTC
66 AATTGCCAGGAAACATTTGCTGATAATAATGGCGGGTCAGAGGAATAGCTATGGGAAGCGAGCTC
559108 ATTCTCAGTCTGATTTTTCTGAGAATGGATAAAATAAGAGAGAAGAAATACAGGTGATGACA
131 ATTCTCAGTCTGATTTTTCTGAGAATGGATAAAAT-A-AGAGAAGAAATACAGGTGATGACA
559170 CTTTACATTTTGGGTGGTTTGATCCTCAAGATTGGTTCAGTTTCTAAATCTTTGAAAAATTTTAT
1 CTTTACATTTTGGGTGGTTTGATCCTCAAGATTGGTTCAGTTTCTAAATCTTTGAAAAATTTTAT
559235 AATTGCCAGGAAACATTTGCTGATAATAATGGCGGGTCAGAGGAATAGCTATGGGAAGCGAGCTC
66 AATTGCCAGGAAACATTTGCTGATAATAATGGCGGGTCAGAGGAATAGCTATGGGAAGCGAGCTC
559300 ATTCTCAGTCTGATTTTTCTGAGAATGGATAAAATAAGAGAAGAAATACAGGTGATGACA
131 ATTCTCAGTCTGATTTTTCTGAGAATGGATAAAATAAGAGAAGAAATACAGGTGATGACA
559360 GGTAACAATT
Statistics
Matches: 190, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
190 24 0.13
191 1 0.01
192 165 0.87
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (190 bp):
CTTTACATTTTGGGTGGTTTGATCCTCAAGATTGGTTCAGTTTCTAAATCTTTGAAAAATTTTAT
AATTGCCAGGAAACATTTGCTGATAATAATGGCGGGTCAGAGGAATAGCTATGGGAAGCGAGCTC
ATTCTCAGTCTGATTTTTCTGAGAATGGATAAAATAAGAGAAGAAATACAGGTGATGACA
Found at i:559800 original size:33 final size:32
Alignment explanation
Indices: 559527--559820 Score: 136
Period size: 32 Copynumber: 9.2 Consensus size: 32
559517 TTAGTCAAAA
* *
559527 TATTTTATCAAAATAACAAATTATGACAAATT
1 TATTTTTTCAAAATAAAAAATTATGACAAATT
* ** * * * *
559559 TAAATAGTT-ATAATAACAAATTATAATAAATAT
1 T-ATTTTTTCAAAATAAAAAATTATGACAAAT-T
* * * * *
559592 TAATTTCTCAATATAAAAAGTTATGGA-AAATAA
1 TATTTTTTCAAAATAAAAAATTAT-GACAAAT-T
* *
559625 TATTTTTTTCACAAT----AATTATAACAAATT
1 TA-TTTTTTCAAAATAAAAAATTATGACAAATT
* **
559654 TATTTATTCAAAAT-AAAAATTAATGTTAAATT
1 TATTTTTTCAAAATAAAAAATT-ATGACAAATT
* * *
559686 TATTTTGTCAAAATAACAAATTTTGACAAATT
1 TATTTTTTCAAAATAAAAAATTATGACAAATT
** * * *
559718 TATTTAATCAAAATAACAATTTATAACAAATAT
1 TATTTTTTCAAAATAAAAAATTATGACAAAT-T
* ** *
559751 TAATTTCTT-ATTATAAAAAATTATGACAAATAA
1 T-ATTTTTTCAAAATAAAAAATTATGACAAAT-T
* * * *
559784 TATTTTTTCACAATAAAAAATTGTAACAAAAT
1 TATTTTTTCAAAATAAAAAATTATGACAAATT
559816 TATTT
1 TATTT
559821 AGTCACAGTA
Statistics
Matches: 194, Mismatches: 54, Indels: 28
0.70 0.20 0.10
Matches are distributed among these distances:
28 10 0.05
29 3 0.02
30 9 0.05
31 4 0.02
32 87 0.45
33 67 0.35
34 14 0.07
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (32 bp):
TATTTTTTCAAAATAAAAAATTATGACAAATT
Found at i:562142 original size:28 final size:29
Alignment explanation
Indices: 562099--562289 Score: 140
Period size: 29 Copynumber: 6.6 Consensus size: 29
562089 TAAAAATATT
* *
562099 TTTTTGATATATTACAATAAAGACCAAAAC
1 TTTTT-ATAAATTACAACAAAGACCAAAAC
562129 -TTTTATAAATTACAAACAAATG-CC-AAAC
1 TTTTTATAAATTAC-AACAAA-GACCAAAAC
*
562157 TTTTTATAAATTACAAGCAAATACCAAAAC
1 TTTTTATAAATTACAA-CAAAGACCAAAAC
* *
562187 TTTTTATAAATTACAACAAATG-CAAAAAA
1 TTTTTATAAATTACAACAAA-GACCAAAAC
*** * ** ***
562216 AAATTAAAAATTACAACAAATTCCAATTG
1 TTTTTATAAATTACAACAAAGACCAAAAC
*
562245 TTTTTATAAATTACAATCAAAGA-AAAAAC
1 TTTTTATAAATTACAA-CAAAGACCAAAAC
* *
562274 TTCTAATAAATTACAA
1 TTTTTATAAATTACAA
562290 TAATGACTTG
Statistics
Matches: 125, Mismatches: 27, Indels: 19
0.73 0.16 0.11
Matches are distributed among these distances:
28 14 0.11
29 86 0.69
30 25 0.20
ACGTcount: A:0.52, C:0.14, G:0.04, T:0.31
Consensus pattern (29 bp):
TTTTTATAAATTACAACAAAGACCAAAAC
Found at i:562285 original size:58 final size:58
Alignment explanation
Indices: 562121--562289 Score: 168
Period size: 58 Copynumber: 2.9 Consensus size: 58
562111 TACAATAAAG
** *
562121 ACCAAAAC-TTTTATAAATTACAAACAAATG-CCAAACTTTTTATAAATTACAAGCAAAT
1 ACCAAAACTTTTTATAAATTAC-AACAAATGAAAAAAC-TTTAATAAATTACAAGCAAAT
**
562179 ACCAAAACTTTTTATAAATTACAACAAATGCAAAAAAAAATTAA-AAATTACAA-CAAAT
1 ACCAAAACTTTTTATAAATTACAACAAATG--AAAAAACTTTAATAAATTACAAGCAAAT
* ***
562237 TCCAATTGTTTTTATAAATTACAATCAAA-GAAAAAACTTCTAATAAATTACAA
1 ACCAAAACTTTTTATAAATTACAA-CAAATGAAAAAACTT-TAATAAATTACAA
562290 TAATGACTTG
Statistics
Matches: 93, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
56 7 0.08
57 3 0.03
58 51 0.55
59 26 0.28
60 3 0.03
61 3 0.03
ACGTcount: A:0.53, C:0.15, G:0.03, T:0.29
Consensus pattern (58 bp):
ACCAAAACTTTTTATAAATTACAACAAATGAAAAAACTTTAATAAATTACAAGCAAAT
Found at i:563411 original size:45 final size:45
Alignment explanation
Indices: 563384--563602 Score: 312
Period size: 45 Copynumber: 4.9 Consensus size: 45
563374 ATTCTAACAT
563384 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATA
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATA
* * *
563429 CTTTTATGTTGATAATGTACCCATATACATTTCAACTATAGTATA
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATA
* * * * *
563474 CTTTTCTGTTGATAATGTACTCATATACATTTCAACTCTAGTATG
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATA
* * * * *
563519 TTTTTCTGTTGATAATGCAACCATATGCATTTAAACTTTAGCATA
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATA
*
563564 CTTTTCTATTGATAATGCACCCATATGCATTTCAACTAT
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTAT
563603 GGCATCCATT
Statistics
Matches: 153, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 153 1.00
ACGTcount: A:0.30, C:0.18, G:0.10, T:0.42
Consensus pattern (45 bp):
CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATA
Found at i:563624 original size:90 final size:90
Alignment explanation
Indices: 563362--563635 Score: 302
Period size: 90 Copynumber: 3.0 Consensus size: 90
563352 AATACTTCAT
*
563362 TATGCATTTTAAA-TTCTAACAT-CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAG
1 TATGCA-TTTAAACTT-TAGCATACTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAG
* *
563425 TATACTTTTATGTTGATAATGTACCCA
64 TATACTTTCATGTTGATAATGCACCCA
* * * * * * * *
563452 TATACATTTCAACTATAGTATACTTTTCTGTTGATAATGTACTCATATACATTTCAACTCTAGTA
1 TATGCATTTAAACTTTAGCATACTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTA
** *
563517 TGTTTTTC-TGTTGATAATGCAACCA
66 T-ACTTTCATGTTGATAATGCACCCA
* * *
563542 TATGCATTTAAACTTTAGCATACTTTTCTATTGATAATGCACCCATATGCATTTCAACTATGGCA
1 TATGCATTTAAACTTTAGCATACTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTA
* * ***
563607 TCCATTCATGCCAATAATGCACCCA
66 TACTTTCATGTTGATAATGCACCCA
563632 TATG
1 TATG
563636 TATTATTCTT
Statistics
Matches: 148, Mismatches: 32, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
89 12 0.08
90 133 0.90
91 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.10, T:0.40
Consensus pattern (90 bp):
TATGCATTTAAACTTTAGCATACTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTA
TACTTTCATGTTGATAATGCACCCA
Found at i:563624 original size:135 final size:135
Alignment explanation
Indices: 563385--563634 Score: 331
Period size: 135 Copynumber: 1.9 Consensus size: 135
563375 TTCTAACATC
* * * * *
563385 TTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTATGTTGATAATGTACC
1 TTTTCTGTTGATAATGCAACCATATGCATTTAAACTATAGCATACTTTTATATTGATAATGCACC
* ** *** * *
563450 CATATACATTTCAACTATAGTATACTTTTCTGTTGATAATGTACTCATATACATTTCAACTCTAG
66 CATATACATTTCAACTATAGCATACCATTCTGCCAATAATGCACCCATATACATTTCAACTCTAG
563515 TATGT
131 TATGT
* *
563520 TTTTCTGTTGATAATGCAACCATATGCATTTAAACTTTAGCATACTTTTCTATTGATAATGCACC
1 TTTTCTGTTGATAATGCAACCATATGCATTTAAACTATAGCATACTTTTATATTGATAATGCACC
* *
563585 CATATGCATTTCAACTATGGCAT-CCATTCATGCCAATAATGCACCCATAT
66 CATATACATTTCAACTATAGCATACCATTC-TGCCAATAATGCACCCATAT
563635 GTATTATTCT
Statistics
Matches: 97, Mismatches: 17, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
134 4 0.04
135 93 0.96
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (135 bp):
TTTTCTGTTGATAATGCAACCATATGCATTTAAACTATAGCATACTTTTATATTGATAATGCACC
CATATACATTTCAACTATAGCATACCATTCTGCCAATAATGCACCCATATACATTTCAACTCTAG
TATGT
Found at i:563695 original size:79 final size:79
Alignment explanation
Indices: 563577--563727 Score: 232
Period size: 79 Copynumber: 1.9 Consensus size: 79
563567 TTCTATTGAT
* * *
563577 AATGCACCCATATGCATTTCAACTATGGCATCCATTCATGCCAATAATGCACCCATATGTATTAT
1 AATGCACCCATATACATTTCAACTATGACATCCATTCATGCCAATAATGCACCCATATGCATTAT
563642 TCTTTTATGCTGAC
66 TCTTTTATGCTGAC
* * *
563656 AATGTACCCATATACATTT-AAGCTATGACATCCTTTCATGCCCATAATGCACCCATATGCATTA
1 AATGCACCCATATACATTTCAA-CTATGACATCCATTCATGCCAATAATGCACCCATATGCATTA
563720 TTCTTTTA
65 TTCTTTTA
563728 CGTTCGTTTT
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
78 2 0.03
79 63 0.97
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (79 bp):
AATGCACCCATATACATTTCAACTATGACATCCATTCATGCCAATAATGCACCCATATGCATTAT
TCTTTTATGCTGAC
Found at i:570281 original size:20 final size:20
Alignment explanation
Indices: 570256--570316 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
570246 ATTTTGGTGC
570256 AGAGGGAATCGATACCCCCA
1 AGAGGGAATCGATACCCCCA
* * *
570276 AGAGGGAACCGATTCCCCTTTGA
1 AGAGGGAATCGATACCCC---CA
570299 AG-GGGAATCGATACCCCC
1 AGAGGGAATCGATACCCCC
570317 TGGGGTTTTG
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
20 16 0.50
22 13 0.41
23 3 0.09
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.15
Consensus pattern (20 bp):
AGAGGGAATCGATACCCCCA
Found at i:575612 original size:35 final size:35
Alignment explanation
Indices: 575566--575635 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
575556 CTTTTTGACC
575566 ATCTTGATTCCCAGGTTTCTCAATTGGATAAGTGA
1 ATCTTGATTCCCAGGTTTCTCAATTGGATAAGTGA
575601 ATCTTGATTCCCAGGTTTCTCAATTGGATAAGTGA
1 ATCTTGATTCCCAGGTTTCTCAATTGGATAAGTGA
575636 CGGAGGTCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (35 bp):
ATCTTGATTCCCAGGTTTCTCAATTGGATAAGTGA
Found at i:576223 original size:12 final size:12
Alignment explanation
Indices: 576195--576231 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
576185 TTATTATAAT
576195 ATTT-AAAAA-A
1 ATTTAAAAAATA
576205 A-TTAAAAAATA
1 ATTTAAAAAATA
576216 ATTTAAAAAATA
1 ATTTAAAAAATA
576228 ATTT
1 ATTT
576232 TTTTAATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.08
10 6 0.25
11 2 0.08
12 14 0.58
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
ATTTAAAAAATA
Found at i:579533 original size:25 final size:25
Alignment explanation
Indices: 579503--579591 Score: 160
Period size: 25 Copynumber: 3.5 Consensus size: 25
579493 ATGAAAAAGG
579503 TAAAAGCAAAAGAGCTCATCAGTCA
1 TAAAAGCAAAAGAGCTCATCAGTCA
579528 TAAAAGCAAAAGAGCTCATCAGTCA
1 TAAAAGCAAAAGAGCTCATCAGTCA
*
579553 TAAAAGCAAAAGAGCTCATCAGTTA
1 TAAAAGCAAAAGAGCTCATCAGTCA
579578 TAAAAGCTAAAAGA
1 TAAAAGC-AAAAGA
579592 ATCACAACCA
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
25 56 0.90
26 6 0.10
ACGTcount: A:0.51, C:0.17, G:0.16, T:0.17
Consensus pattern (25 bp):
TAAAAGCAAAAGAGCTCATCAGTCA
Found at i:583521 original size:40 final size:40
Alignment explanation
Indices: 583454--583544 Score: 123
Period size: 40 Copynumber: 2.3 Consensus size: 40
583444 GCATTTTTGG
* *
583454 TATCGATACT-CATAGAGGTATTGATACTTAACCCTAGTT
1 TATCGATACTACATAGAGGTATCGATACTTAACCCTAGGT
* *
583493 TATTGATACTACAGTAGA-GTATCGATACTTGACCCTAGGT
1 TATCGATACTACA-TAGAGGTATCGATACTTAACCCTAGGT
583533 TATCGATACTAC
1 TATCGATACTAC
583545 TCACCTTGGT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
39 9 0.20
40 32 0.71
41 4 0.09
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (40 bp):
TATCGATACTACATAGAGGTATCGATACTTAACCCTAGGT
Found at i:584690 original size:32 final size:32
Alignment explanation
Indices: 584640--584725 Score: 95
Period size: 32 Copynumber: 2.7 Consensus size: 32
584630 CACATCAGGC
* *
584640 TCAGTGTTGCATTCAGATAATGCACA-ATAG-A
1 TCAGTATTACATTCAGATAATGCACAGA-AGCA
* *
584671 CTCATTATTACATTCAGATAGTGCACAGAAGCA
1 -TCAGTATTACATTCAGATAATGCACAGAAGCA
*
584704 TCAGTATTACATTTAGATAATG
1 TCAGTATTACATTCAGATAATG
584726 TGCAGTAGAG
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
32 43 0.96
33 2 0.04
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.31
Consensus pattern (32 bp):
TCAGTATTACATTCAGATAATGCACAGAAGCA
Found at i:585488 original size:246 final size:246
Alignment explanation
Indices: 585054--585546 Score: 986
Period size: 246 Copynumber: 2.0 Consensus size: 246
585044 TCTTCTAGTA
585054 TATCCTTTAGAGTATTATACTGTACCCTATATGTATTTATATTGTAACATCCGTCTATCATACAC
1 TATCCTTTAGAGTATTATACTGTACCCTATATGTATTTATATTGTAACATCCGTCTATCATACAC
585119 CCTTCCGTACACGAGATATGGATGTCACATCACCTTAAAATAATGTTTTTCATTTTAAAACTCGT
66 CCTTCCGTACACGAGATATGGATGTCACATCACCTTAAAATAATGTTTTTCATTTTAAAACTCGT
585184 ATCGGTACTTCTAAGATGATTTAACATAATTTTTGCCTATGGTATCGGTACTGTTATATAGGTAC
131 ATCGGTACTTCTAAGATGATTTAACATAATTTTTGCCTATGGTATCGGTACTGTTATATAGGTAC
585249 CGATACCTCTACATAGATTTTCCAGTTTTTAACCTGAAATATACCCAACTT
196 CGATACCTCTACATAGATTTTCCAGTTTTTAACCTGAAATATACCCAACTT
585300 TATCCTTTAGAGTATTATACTGTACCCTATATGTATTTATATTGTAACATCCGTCTATCATACAC
1 TATCCTTTAGAGTATTATACTGTACCCTATATGTATTTATATTGTAACATCCGTCTATCATACAC
585365 CCTTCCGTACACGAGATATGGATGTCACATCACCTTAAAATAATGTTTTTCATTTTAAAACTCGT
66 CCTTCCGTACACGAGATATGGATGTCACATCACCTTAAAATAATGTTTTTCATTTTAAAACTCGT
585430 ATCGGTACTTCTAAGATGATTTAACATAATTTTTGCCTATGGTATCGGTACTGTTATATAGGTAC
131 ATCGGTACTTCTAAGATGATTTAACATAATTTTTGCCTATGGTATCGGTACTGTTATATAGGTAC
585495 CGATACCTCTACATAGATTTTCCAGTTTTTAACCTGAAATATACCCAACTT
196 CGATACCTCTACATAGATTTTCCAGTTTTTAACCTGAAATATACCCAACTT
585546 T
1 T
585547 GGCCAATTTT
Statistics
Matches: 247, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
246 247 1.00
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (246 bp):
TATCCTTTAGAGTATTATACTGTACCCTATATGTATTTATATTGTAACATCCGTCTATCATACAC
CCTTCCGTACACGAGATATGGATGTCACATCACCTTAAAATAATGTTTTTCATTTTAAAACTCGT
ATCGGTACTTCTAAGATGATTTAACATAATTTTTGCCTATGGTATCGGTACTGTTATATAGGTAC
CGATACCTCTACATAGATTTTCCAGTTTTTAACCTGAAATATACCCAACTT
Found at i:588794 original size:120 final size:123
Alignment explanation
Indices: 588578--588820 Score: 465
Period size: 120 Copynumber: 2.0 Consensus size: 123
588568 TTAAAATAAT
588578 GTTTGTCATTTGAAAACCCGTAAAAATTTGTTTCAATTCAATTAACCATAAAATAAAATTTTTTT
1 GTTTGTCATTTGAAAACCCGTAAAAATTTGTTTCAATTCAATTAACCATAAAATAAAATTTTTTT
588643 AAAAGCAACATACAAAAATTTTCATTTAATTACATTACAAAACGTTTACCATAAATTA
66 AAAAGCAACATACAAAAATTTTCATTTAATTACATTACAAAACGTTTACCATAAATTA
588701 GTTTGTCATTTGAAAACCCGT-AAAATTTGTTTCAATTCAATTAA-CAT-AAATAAAATTTTTTT
1 GTTTGTCATTTGAAAACCCGTAAAAATTTGTTTCAATTCAATTAACCATAAAATAAAATTTTTTT
588763 AAAAGCAACATACAAAAATTTTCATTTAATTACATTACAAAACGTTTACCATAAATTA
66 AAAAGCAACATACAAAAATTTTCATTTAATTACATTACAAAACGTTTACCATAAATTA
588821 ATTACATGCC
Statistics
Matches: 120, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
120 73 0.61
121 3 0.03
122 23 0.19
123 21 0.17
ACGTcount: A:0.44, C:0.14, G:0.06, T:0.37
Consensus pattern (123 bp):
GTTTGTCATTTGAAAACCCGTAAAAATTTGTTTCAATTCAATTAACCATAAAATAAAATTTTTTT
AAAAGCAACATACAAAAATTTTCATTTAATTACATTACAAAACGTTTACCATAAATTA
Found at i:590175 original size:44 final size:42
Alignment explanation
Indices: 589976--590183 Score: 187
Period size: 44 Copynumber: 5.0 Consensus size: 42
589966 CCATAGTTTA
*
589976 AATATACCGTTCTGTTGATAATGTACCATATACATTTCAACTCT
1 AATATA-CTTTCTGTTGATAA-GTACCATATACATTTCAACTCT
* * * *
590020 AGTATGCTTT-TG-TGATAATGCACC-CATACATTTCAAC-C-
1 AATATACTTTCTGTTGATAA-GTACCATATACATTTCAACTCT
* * *
590058 ACATATA--TTCTGTTGATAATTACCATCTGCATTTCAACTCT
1 A-ATATACTTTCTGTTGATAAGTACCATATACATTTCAACTCT
** * *
590099 AGCATACTTTCTGTTGATATTGTACCATATACATTTCACCATCT
1 AATATACTTTCTGTTGATA-AGTACCATATACATTTCAAC-TCT
*
590143 ATATATATTTTCTGTTGATAAGTACCATATACATTTCAACT
1 A-ATATACTTTCTGTTGATAAGTACCATATACATTTCAACT
590184 ATACATTTTC
Statistics
Matches: 129, Mismatches: 24, Indels: 23
0.73 0.14 0.13
Matches are distributed among these distances:
37 2 0.02
38 6 0.05
39 20 0.16
40 16 0.12
41 12 0.09
42 13 0.10
43 19 0.15
44 26 0.20
45 15 0.12
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.40
Consensus pattern (42 bp):
AATATACTTTCTGTTGATAAGTACCATATACATTTCAACTCT
Found at i:590178 original size:87 final size:79
Alignment explanation
Indices: 589985--590183 Score: 229
Period size: 87 Copynumber: 2.4 Consensus size: 79
589975 AAATATACCG
* *
589985 TTCTGTTGATAATGTACCATATACATTTCAACTCTAGTATGCTTTTGTGATAATGCACCCATACA
1 TTCTGTTGATAA-GTACCATATACATTTCAACTCTAGCATACTTTTGTGATAATGCACCCATACA
590050 TTTCAACCACATATA
65 TTTCAACCACATATA
* * * * * *
590065 TTCTGTTGATAATTACCATCTGCATTTCAACTCTAGCATACTTTCTGTTGATATTGTACCATATA
1 TTCTGTTGATAAGTACCATATACATTTCAACTCTAGCATACTTT-TG-TGATAATGCACC-CATA
590130 CATTTC-ACCATCTATATATA
63 CATTTCAACCA-C---ATATA
590150 TTTTCTGTTGATAAGTACCATATACATTTCAACT
1 --TTCTGTTGATAAGTACCATATACATTTCAACT
590184 ATACATTTTC
Statistics
Matches: 99, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
79 27 0.27
80 14 0.14
81 14 0.14
82 10 0.10
85 5 0.05
87 29 0.29
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.41
Consensus pattern (79 bp):
TTCTGTTGATAAGTACCATATACATTTCAACTCTAGCATACTTTTGTGATAATGCACCCATACAT
TTCAACCACATATA
Found at i:594367 original size:5 final size:5
Alignment explanation
Indices: 594357--594382 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
594347 TATTATTATT
594357 TCGGG TCGGG TCGGG TCGGG TCGGG T
1 TCGGG TCGGG TCGGG TCGGG TCGGG T
594383 TTCTAAGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.58, T:0.23
Consensus pattern (5 bp):
TCGGG
Found at i:594408 original size:5 final size:5
Alignment explanation
Indices: 594398--594423 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
594388 AGTCATATAT
594398 TCGGG TCGGG TCGGG TCGGG TCGGG T
1 TCGGG TCGGG TCGGG TCGGG TCGGG T
594424 GAAACCTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.58, T:0.23
Consensus pattern (5 bp):
TCGGG
Found at i:594493 original size:39 final size:35
Alignment explanation
Indices: 594403--594493 Score: 103
Period size: 39 Copynumber: 2.5 Consensus size: 35
594393 TATATTCGGG
* *
594403 TCGGGTCGGGTCGGGTCGGGTGAAACCTTAATTTTG
1 TCGGGTCGGGTCGGGTCGGGTGAAACCTT-ATCTTC
594439 TCGGGTCGGGTCGGGTCACGGGTGAAAAATCCTT-TCTTC
1 TCGGGTCGGGTCGGGT--CGGGTG--AAA-CCTTATCTTC
594478 TCGGGTCGGGTCGGGT
1 TCGGGTCGGGTCGGGT
594494 GGCCCAAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
36 16 0.33
38 6 0.12
39 19 0.40
40 3 0.06
41 4 0.08
ACGTcount: A:0.12, C:0.20, G:0.40, T:0.29
Consensus pattern (35 bp):
TCGGGTCGGGTCGGGTCGGGTGAAACCTTATCTTC
Found at i:595749 original size:45 final size:44
Alignment explanation
Indices: 595686--596006 Score: 345
Period size: 45 Copynumber: 7.2 Consensus size: 44
595676 CACTTTAAAT
* * * *
595686 TATAGCATATTTTCTGTTGATAATGCACTCATATGCATTTCATC
1 TATAGCATATTTTCTGTTGATAATGTACCCATATACATTTCAAC
*
595730 TATAGTATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
1 TATAGCATA-TTTTCTGTTGATAATGTACCCATATACATTTCAAC
* * * *
595775 CATTGTATATCGTTCTGTTGATAATGTACCCATATACATTTCAAC
1 TATAGCATAT-TTTCTGTTGATAATGTACCCATATACATTTCAAC
* * * * * * *
595820 TCTAGCATGCTCTTCTCTTGATAATGCACCCATTTGCATTTCAAC
1 TATAGCAT-ATTTTCTGTTGATAATGTACCCATATACATTTCAAC
* * * * *
595865 TCTAGCATACATTTCTGTTAATAATGCACCCATATGCATTTCAAC
1 TATAGCATA-TTTTCTGTTGATAATGTACCCATATACATTTCAAC
* *
595910 TCTAGCATATTTTTTGTTGATAATGTACCCATATACATTTCAAC
1 TATAGCATATTTTCTGTTGATAATGTACCCATATACATTTCAAC
* * * *
595954 CATAGTATATTTTTCTGTTGATAATGTACCCATATATATTTGAAC
1 TATAGCATA-TTTTCTGTTGATAATGTACCCATATACATTTCAAC
*
595999 TATGGCAT
1 TATAGCAT
596007 CCTTTCATGC
Statistics
Matches: 234, Mismatches: 38, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
44 45 0.19
45 188 0.80
46 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.41
Consensus pattern (44 bp):
TATAGCATATTTTCTGTTGATAATGTACCCATATACATTTCAAC
Found at i:595889 original size:135 final size:134
Alignment explanation
Indices: 595697--596038 Score: 375
Period size: 134 Copynumber: 2.5 Consensus size: 134
595687 ATAGCATATT
* * * * * * *
595697 TTCTGTTGATAATGCACTCATATGCATTTCATCTATAGTATACTTTTCTGTTGATAATGTACCCA
1 TTCTCTTGATAATGCACCCATATGCATTTCAACTATAGCATACATTTCTGTTAATAATGCACCCA
* *
595762 TATACATTTCAAC-CATTGTATATCGTTCTGTTGATAATGTACCCATATACATTTCAACTCTAGC
66 TATACATTTCAACTC-TAGCATAT-GTTCTGTTGATAATGTACCCATATACATTTCAACTCTAGC
595826 ATGCTC
129 ATGCTC
* *
595832 TTCTCTTGATAATGCACCCATTTGCATTTCAACTCTAGCATACATTTCTGTTAATAATGCACCCA
1 TTCTCTTGATAATGCACCCATATGCATTTCAACTATAGCATACATTTCTGTTAATAATGCACCCA
* * * *
595897 TATGCATTTCAACTCTAGCATATTTTTTGTTGATAATGTACCCATATACATTTCAAC-CATAGTA
66 TATACATTTCAACTCTAGCATATGTTCTGTTGATAATGTACCCATATACATTTCAACTC-TAGCA
** *
595961 TATTT
130 TGCTC
* * ** * * * **
595966 TTCTGTTGATAATGTACCCATATATATTTGAACTATGGCAT-CCTTTCATGCCAATAATGCACCC
1 TTCTCTTGATAATGCACCCATATGCATTTCAACTATAGCATACATTTC-TGTTAATAATGCACCC
*
596030 ATATGCATT
65 ATATACATT
596039 AGTATTTTCA
Statistics
Matches: 175, Mismatches: 29, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
133 6 0.03
134 94 0.54
135 74 0.42
136 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.40
Consensus pattern (134 bp):
TTCTCTTGATAATGCACCCATATGCATTTCAACTATAGCATACATTTCTGTTAATAATGCACCCA
TATACATTTCAACTCTAGCATATGTTCTGTTGATAATGTACCCATATACATTTCAACTCTAGCAT
GCTC
Found at i:596025 original size:179 final size:179
Alignment explanation
Indices: 595688--596038 Score: 494
Period size: 179 Copynumber: 2.0 Consensus size: 179
595678 CTTTAAATTA
* * * * *
595688 TAGCATATTTTCTGTTGATAATGCACTCATATGCATTTCATCTATAGTATACTTTTCTGTTGATA
1 TAGCATAATTTCTGTTAATAATGCACCCATATGCATTTCAACTATAGCATACTTTTCTGTTGATA
*
595753 ATGTACCCATATACATTTCAACCATTGTATATCGTTCTGTTGATAATGTACCCATATACATTTCA
66 ATGTACCCATATACATTTCAACCATAGTATATCGTTCTGTTGATAATGTACCCATATACATTTCA
* * *
595818 ACTCTAGCATGCTCTTCTCTTGATAATGCACCCATTTGCATTTCAACTC
131 ACTATAGCATGCTCTTCTCATGATAATGCACCCATATGCATTTCAACTC
* *
595867 TAGCATACATTTCTGTTAATAATGCACCCATATGCATTTCAACTCTAGCATA-TTTTTTGTTGAT
1 TAGCATA-ATTTCTGTTAATAATGCACCCATATGCATTTCAACTATAGCATACTTTTCTGTTGAT
** * *
595931 AATGTACCCATATACATTTCAACCATAGTATATTTTTCTGTTGATAATGTACCCATATATATTTG
65 AATGTACCCATATACATTTCAACCATAGTATATCGTTCTGTTGATAATGTACCCATATACATTTC
*
595996 AACTATGGCAT-C-CTT-TCATGCCAATAATGCACCCATATGCATT
130 AACTATAGCATGCTCTTCTCATG---ATAATGCACCCATATGCATT
596039 AGTATTTTCA
Statistics
Matches: 152, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
176 4 0.03
177 3 0.02
178 1 0.01
179 106 0.70
180 38 0.25
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.40
Consensus pattern (179 bp):
TAGCATAATTTCTGTTAATAATGCACCCATATGCATTTCAACTATAGCATACTTTTCTGTTGATA
ATGTACCCATATACATTTCAACCATAGTATATCGTTCTGTTGATAATGTACCCATATACATTTCA
ACTATAGCATGCTCTTCTCATGATAATGCACCCATATGCATTTCAACTC
Found at i:598216 original size:31 final size:32
Alignment explanation
Indices: 598176--598239 Score: 112
Period size: 31 Copynumber: 2.0 Consensus size: 32
598166 TAGAAAGAGA
*
598176 GAAATAACACCAAACCATTCTCATTTAAAGTT
1 GAAATAACACCAAACCATTCTCATTCAAAGTT
598208 GAAA-AACACCAAACCATTCTCATTCAAAGTT
1 GAAATAACACCAAACCATTCTCATTCAAAGTT
598239 G
1 G
598240 CATCATACCT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 27 0.87
32 4 0.13
ACGTcount: A:0.44, C:0.23, G:0.08, T:0.25
Consensus pattern (32 bp):
GAAATAACACCAAACCATTCTCATTCAAAGTT
Found at i:602235 original size:20 final size:20
Alignment explanation
Indices: 602199--602237 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
602189 TTGTTAACCT
*
602199 TTGATTGTTGACTTTGACCA
1 TTGATTGTTGACATTGACCA
602219 TTGATT-TTGATCATTGACC
1 TTGATTGTTGA-CATTGACC
602238 CTTAATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.21, C:0.15, G:0.18, T:0.46
Consensus pattern (20 bp):
TTGATTGTTGACATTGACCA
Found at i:613272 original size:45 final size:45
Alignment explanation
Indices: 613197--613521 Score: 381
Period size: 45 Copynumber: 7.3 Consensus size: 45
613187 CACTTTAAAT
* * *
613197 TATAACAT-CTTTTCTGTTGATAATGAACCCATATGCATTTCAAC
1 TATAGCATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
* * *
613241 TATAGTATATTTTTCTGTTGAAAATGTACCCATATACATTTCAAC
1 TATAGCATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
* **
613286 CATAATATA-TTGTTCTGTTGATAATGTACCCATATACATTTCAAC
1 TATAGCATACTT-TTCTGTTGATAATGTACCCATATACATTTCAAC
* * * * *
613331 TCTAGCATGCTCTTCTGTTGATAATGCACCC--ATGCATTTCAAC
1 TATAGCATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
* * * *
613374 TCTAGCATACATTTCTGTTGATAATGCACCCATATGCATTTCAAC
1 TATAGCATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
613419 -ACTAGCATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
1 TA-TAGCATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
* * * *
613464 CATAGTATATTTTTTTGTTGATAATGTACCCATATACATTTCAAC
1 TATAGCATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
* *
613509 TATGGCATCCTTT
1 TATAGCATACTTT
613522 CATGCCAATA
Statistics
Matches: 242, Mismatches: 32, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
43 39 0.16
44 8 0.03
45 193 0.80
46 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (45 bp):
TATAGCATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
Found at i:613535 original size:178 final size:178
Alignment explanation
Indices: 613207--613541 Score: 521
Period size: 178 Copynumber: 1.9 Consensus size: 178
613197 TATAACATCT
* *
613207 TTTCTGTTGATAATGAACCCATATGCATTTCAACTATAGTATATTTTTCTGTTGAAAATGTACCC
1 TTTCTGTTGATAATGAACCCATATGCATTTCAACTATAGCATACTTTTCTGTTGAAAATGTACCC
*
613272 ATATACATTTCAACCATAATATATTGTTCTGTTGATAATGTACCCATATACATTTCAACTCTAGC
66 ATATACATTTCAACCATAATATATTGTTCTGTTGATAATGTACCCATATACATTTCAACTATAGC
* ***
613337 ATGCTCTTCTGTTGATAATGCACCCATGCATTTCAACTCTAGCATACA
131 ATCCTCTTCTGCCAATAATGCACCCATGCATTTCAACTCTAGCATACA
* *
613385 TTTCTGTTGATAATGCACCCATATGCATTTCAAC-ACTAGCATACTTTTCTGTTGATAATGTACC
1 TTTCTGTTGATAATGAACCCATATGCATTTCAACTA-TAGCATACTTTTCTGTTGAAAATGTACC
* * * *
613449 CATATACATTTCAACCATAGTATATTTTTTTGTTGATAATGTACCCATATACATTTCAACTATGG
65 CATATACATTTCAACCATAATATATTGTTCTGTTGATAATGTACCCATATACATTTCAACTATAG
613514 CATCCT-TTCATGCCAATAATGCACCCAT
130 CATCCTCTTC-TGCCAATAATGCACCCAT
613542 ATGCATTAGT
Statistics
Matches: 142, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
177 4 0.03
178 138 0.97
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.38
Consensus pattern (178 bp):
TTTCTGTTGATAATGAACCCATATGCATTTCAACTATAGCATACTTTTCTGTTGAAAATGTACCC
ATATACATTTCAACCATAATATATTGTTCTGTTGATAATGTACCCATATACATTTCAACTATAGC
ATCCTCTTCTGCCAATAATGCACCCATGCATTTCAACTCTAGCATACA
Found at i:614050 original size:95 final size:94
Alignment explanation
Indices: 613898--614089 Score: 246
Period size: 95 Copynumber: 2.0 Consensus size: 94
613888 ACCGATACTT
* *
613898 CTATACTATGGTACCGATACCCCCTTCAGGTATCGATACCAAAAATAGTTTCAATGTTGCCCGGT
1 CTATACTATGGTACCGATA-CCCCTTCAGGTATCGATACCAAAAATAGTTTCAATGTTACCAGGT
* * *
613963 ATCGATACCCTTACCATAGGTATCGATACCA
65 ATCGATACACTCACCAT-GGTATCAATACCA
* * *
613994 CTATACTGTGGTACCGATA-CCCTAT-ATGGTATCGATACCAAAATTAGGTTT-GATGTTACCAG
1 CTATACTATGGTACCGATACCCCT-TCA-GGTATCGATACCAAAAATA-GTTTCAATGTTACCAG
614056 GTATCGATACACTCACCATGGTATCAATACCA
63 GTATCGATACACTCACCATGGTATCAATACCA
614088 CT
1 CT
614090 TCTCAGATGA
Statistics
Matches: 85, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
94 19 0.22
95 44 0.52
96 22 0.26
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (94 bp):
CTATACTATGGTACCGATACCCCTTCAGGTATCGATACCAAAAATAGTTTCAATGTTACCAGGTA
TCGATACACTCACCATGGTATCAATACCA
Found at i:615647 original size:18 final size:18
Alignment explanation
Indices: 615599--615650 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
615589 TTTTGTCAAA
* *
615599 GTCAAAGTCAACGGGCAT
1 GTCAAAGTCAACGGTCAG
**
615617 GTCAGCGGTCAACGGTCAG
1 GTCA-AAGTCAACGGTCAG
615636 GTCAAAGTCAACGGT
1 GTCAAAGTCAACGGT
615651 TCGGGTTAAG
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.29, C:0.23, G:0.31, T:0.17
Consensus pattern (18 bp):
GTCAAAGTCAACGGTCAG
Found at i:616108 original size:14 final size:14
Alignment explanation
Indices: 616090--616122 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
616080 CATACAGTGT
616090 ATAAAAATA-TACA
1 ATAAAAATATTACA
*
616103 ATTAAAATATTACA
1 ATAAAAATATTACA
616117 ATAAAA
1 ATAAAA
616123 TTTTTGTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (14 bp):
ATAAAAATATTACA
Found at i:616440 original size:15 final size:15
Alignment explanation
Indices: 616429--616458 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
616419 AATTCAGATA
*
616429 TCAGATAATCAGTAT
1 TCAGAGAATCAGTAT
616444 TCAGAGAATCAGTAT
1 TCAGAGAATCAGTAT
616459 AAAATACCGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (15 bp):
TCAGAGAATCAGTAT
Found at i:617280 original size:29 final size:29
Alignment explanation
Indices: 617242--617320 Score: 140
Period size: 29 Copynumber: 2.7 Consensus size: 29
617232 TTTTTTAAAA
617242 TAATTACCAAAATAGCACCCATTTCGAAT
1 TAATTACCAAAATAGCACCCATTTCGAAT
*
617271 TAATTCCCAAAATAGCACCCATTTCGAAT
1 TAATTACCAAAATAGCACCCATTTCGAAT
*
617300 TAATTTCCAAAATAGCACCCA
1 TAATTACCAAAATAGCACCCA
617321 GTCAACGATC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.41, C:0.27, G:0.06, T:0.27
Consensus pattern (29 bp):
TAATTACCAAAATAGCACCCATTTCGAAT
Found at i:624297 original size:2 final size:2
Alignment explanation
Indices: 624290--624320 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
624280 TAATAACAAT
624290 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
624321 TAAATCTAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:627155 original size:14 final size:15
Alignment explanation
Indices: 627136--627164 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
627126 GGAGTGTTTG
627136 GTGAGGTT-TTTTTT
1 GTGAGGTTATTTTTT
627150 GTGAGGTTATTTTTT
1 GTGAGGTTATTTTTT
627165 ATTAATTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.10, C:0.00, G:0.28, T:0.62
Consensus pattern (15 bp):
GTGAGGTTATTTTTT
Found at i:636162 original size:15 final size:15
Alignment explanation
Indices: 636142--636175 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
636132 ATAGAGCGAA
636142 TTCCCTTAGCACTTC
1 TTCCCTTAGCACTTC
636157 TTCCCTTAGCACTTC
1 TTCCCTTAGCACTTC
636172 TTCC
1 TTCC
636176 TCGTCCCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.12, C:0.41, G:0.06, T:0.41
Consensus pattern (15 bp):
TTCCCTTAGCACTTC
Found at i:640939 original size:21 final size:21
Alignment explanation
Indices: 640913--640952 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
640903 AGAACCCCAG
*
640913 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
640934 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
640953 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:640987 original size:20 final size:21
Alignment explanation
Indices: 640933--640995 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
640923 GATTCCCCTG
640933 TGGGGGGAATCGGTTCCCCTTCAA
1 TGGGGGG-ATCGGTT-CCC-TCAA
* *
640957 AGGGGGAATCGGTTCCCTC-A
1 TGGGGGGATCGGTTCCCTCAA
*
640977 TGGGGGGATCGATTCCCTC
1 TGGGGGGATCGGTTCCCTC
640996 TGCACCAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 7 0.21
24 5 0.15
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.24
Consensus pattern (21 bp):
TGGGGGGATCGGTTCCCTCAA
Found at i:644838 original size:22 final size:21
Alignment explanation
Indices: 644796--644835 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
644786 GAGTTTGTTT
*
644796 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
644817 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
644836 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:668329 original size:21 final size:21
Alignment explanation
Indices: 668305--668358 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
668295 CCATAATAGG
* *
668305 TTCAGATGCCATAGTCGCTGA
1 TTCAGATGCCACACTCGCTGA
668326 TTCAGATGCCACACTCGCTGA
1 TTCAGATGCCACACTCGCTGA
668347 TTCAGATGCCAC
1 TTCAGATGCCAC
668359 CATCGTATGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (21 bp):
TTCAGATGCCACACTCGCTGA
Found at i:670095 original size:171 final size:169
Alignment explanation
Indices: 669622--670144 Score: 536
Period size: 171 Copynumber: 3.1 Consensus size: 169
669612 TTTCCCTGAC
* * * *
669622 TGCCAACATCATAACTTCAACATAATTTTGTAAGGCATGCAGATAAAATCTAACAAAAAGGAAAT
1 TGCCAACATCATAACTTCAACATAATTTAGTGAGGCATGCAAATAAAATCTAA-AAAAAGGAAAG
* * * * * * **
669687 GCTCATTCCAAGGGAAGCGTTTTTCCTTTGCTCAGAGAATCTCTGCCATGTCATAATGTCTTATC
65 GCTCATTCC-AGAGAAGCGCTTTTCCTTTCCTCAGAGAATCTATGTCATGTCATAGTGTCTCGTC
* * * * * *
669752 CCATAAAACATAAATTTGGTTGATGGGAATTGTTCCAT-GAC
129 CCATCAAACATAAATTCGATTGACGGGAATAGTTCC-TCGAA
* * * * *
669793 T-CCTAACATAATAACTTAAACATAAGTTAGTGAGGAATGCAAATAAAATCTAAAAAAAGGAGAG
1 TGCC-AACATCATAACTTCAACATAATTTAGTGAGGCATGCAAATAAAATCTAAAAAAAGGAAAG
* * * * *
669857 GCTTATTCCAGATGAAGTGC-TTTCTTTTTCTCATAGAATCTATGTCATGTCATAGTGTCTCGTC
65 GCTCATTCCAGA-GAAGCGCTTTTCCTTTCCTCAGAGAATCTATGTCATGTCATAGTGTCTCGTC
* *
669921 CCATCAAACATTAATTCGATGGACGGGAATAGTTCCTCGAA
129 CCATCAAACATAAATTCGATTGACGGGAATAGTTCCTCGAA
*
669962 TGCCAACATCATAACTTCAAC-TAAATTTAGTGAGGCATGCATATAAAATCTAATAAAAAGGAAA
1 TGCCAACATCATAACTTCAACAT-AATTTAGTGAGGCATGCAAATAAAATCTAA-AAAAAGGAAA
* * * * * * * *
670026 GGCTCATCCCATGAGAAACACTTTTCCTTTCCTTAGAGAATCTTTTTCATGTCATAGTATCGCGT
64 GGCTCATTCCA-GAGAAGCGCTTTTCCTTTCCTCAGAGAATCTATGTCATGTCATAGTGTCTCGT
* * *
670091 CCCATCGAACATCAATTCGATTGACGAGAATAGTTCC-CTG-A
128 CCCATCAAACATAAATTCGATTGACGGGAATAGTTCCTC-GAA
670132 TGGCCAACATCAT
1 T-GCCAACATCAT
670145 TTCTTCTTTT
Statistics
Matches: 290, Mismatches: 52, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
168 2 0.01
169 112 0.39
170 51 0.18
171 125 0.43
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (169 bp):
TGCCAACATCATAACTTCAACATAATTTAGTGAGGCATGCAAATAAAATCTAAAAAAAGGAAAGG
CTCATTCCAGAGAAGCGCTTTTCCTTTCCTCAGAGAATCTATGTCATGTCATAGTGTCTCGTCCC
ATCAAACATAAATTCGATTGACGGGAATAGTTCCTCGAA
Found at i:680719 original size:40 final size:40
Alignment explanation
Indices: 680674--680784 Score: 195
Period size: 40 Copynumber: 2.8 Consensus size: 40
680664 AAGGACACTA
680674 AGTGTATATGGTGGGCACGACCTTATGTGTAATACACTTT
1 AGTGTATATGGTGGGCACGACCTTATGTGTAATACACTTT
* * *
680714 GGTGTATATAGTGGGCACGACCTTATGTATAATACACTTT
1 AGTGTATATGGTGGGCACGACCTTATGTGTAATACACTTT
680754 AGTGTATATGGTGGGCACGACCTTATGTGTA
1 AGTGTATATGGTGGGCACGACCTTATGTGTA
680785 GCATTACGGT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 65 1.00
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.34
Consensus pattern (40 bp):
AGTGTATATGGTGGGCACGACCTTATGTGTAATACACTTT
Found at i:683582 original size:19 final size:18
Alignment explanation
Indices: 683534--683653 Score: 74
Period size: 19 Copynumber: 6.7 Consensus size: 18
683524 TTTATCTAAC
683534 CCCTAAACCA-TTAAAAA
1 CCCTAAACCATTTAAAAA
* *
683551 -GCTAATACAATTTTAAAAA
1 CCCTAA-ACCA-TTTAAAAA
* *
683570 CTCTTAACCATTTAAAAA
1 CCCTAAACCATTTAAAAA
*
683588 CCCTAAACCACTTTAAATA
1 CCCTAAACCA-TTTAAAAA
683607 -CCTCAAACCA-TT-AAAA
1 CCCT-AAACCATTTAAAAA
*
683623 CCCTTAAAAACCACTT--AAA
1 CCC-T--AAACCATTTAAAAA
683642 CCCTAAACCATT
1 CCCTAAACCATT
683654 CTAACATAAA
Statistics
Matches: 82, Mismatches: 11, Indels: 21
0.72 0.10 0.18
Matches are distributed among these distances:
16 14 0.17
17 7 0.09
18 21 0.26
19 35 0.43
20 5 0.06
ACGTcount: A:0.47, C:0.28, G:0.01, T:0.25
Consensus pattern (18 bp):
CCCTAAACCATTTAAAAA
Found at i:683583 original size:18 final size:19
Alignment explanation
Indices: 683562--683604 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
683552 CTAATACAAT
* *
683562 TTTAAAAACTCTTAACCA-
1 TTTAAAAACCCTAAACCAC
683580 TTTAAAAACCCTAAACCAC
1 TTTAAAAACCCTAAACCAC
683599 TTTAAA
1 TTTAAA
683605 TACCTCAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (19 bp):
TTTAAAAACCCTAAACCAC
Found at i:685297 original size:3 final size:3
Alignment explanation
Indices: 685289--685314 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
685279 CCTTTTCACC
685289 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
685315 TACTCATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:685714 original size:43 final size:42
Alignment explanation
Indices: 685606--685739 Score: 117
Period size: 43 Copynumber: 3.1 Consensus size: 42
685596 ATGGGTTCGG
* *
685606 ACATTTAGCAACATTTTTTTACAAACACCACAATAGATTAAG
1 ACATTTAGCGACATTTTTTTACAAACACCACAATAGATTAAC
* * * * ** * *
685648 ACATGTAGCGGCGTTTTTCTTACAAATACCGTAATAGGTTCAC
1 ACATTTAGCGACATTTTT-TTACAAACACCACAATAGATTAAC
* * *
685691 ACATTTAGCGACATTTATTTTACAAACGCCGCAATA-AGTTAAG
1 ACATTTAGCGACATTT-TTTTACAAACACCACAATAGA-TTAAC
685734 ACATTT
1 ACATTT
685740 TCCGGCATGT
Statistics
Matches: 70, Mismatches: 19, Indels: 5
0.74 0.20 0.05
Matches are distributed among these distances:
42 14 0.20
43 54 0.77
44 2 0.03
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (42 bp):
ACATTTAGCGACATTTTTTTACAAACACCACAATAGATTAAC
Found at i:688538 original size:33 final size:33
Alignment explanation
Indices: 688491--688557 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
688481 TCTACAGACA
* *
688491 AATTGCAACGATAATGACCACAAAAAAACTTAG
1 AATTGCAACGATAATGACAAAAAAAAAACTTAG
* *
688524 AATTTCAACGATAATGATAAAAAAAAAACTTAG
1 AATTGCAACGATAATGACAAAAAAAAAACTTAG
688557 A
1 A
688558 TCCCAAGCTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.55, C:0.13, G:0.10, T:0.21
Consensus pattern (33 bp):
AATTGCAACGATAATGACAAAAAAAAAACTTAG
Found at i:690095 original size:2 final size:2
Alignment explanation
Indices: 690088--690119 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
690078 AAATAATTTA
690088 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
690120 CATTTTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:690892 original size:24 final size:21
Alignment explanation
Indices: 690829--690890 Score: 106
Period size: 21 Copynumber: 3.0 Consensus size: 21
690819 ATTATCCAAT
*
690829 AAACTTGACATCCATAATAAC
1 AAACTTGAAATCCATAATAAC
*
690850 AAACTTGAAATCCATAATAAG
1 AAACTTGAAATCCATAATAAC
690871 AAACTTGAAATCCATAATAA
1 AAACTTGAAATCCATAATAA
690891 TAAATCAAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.52, C:0.18, G:0.06, T:0.24
Consensus pattern (21 bp):
AAACTTGAAATCCATAATAAC
Found at i:693011 original size:21 final size:21
Alignment explanation
Indices: 692987--693026 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
692977 AAATGAAAAG
692987 TACATTTCTAAATTATCATGA
1 TACATTTCTAAATTATCATGA
*
693008 TACATTTCTAATTTATCAT
1 TACATTTCTAAATTATCAT
693027 AATCATGTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.15, G:0.03, T:0.47
Consensus pattern (21 bp):
TACATTTCTAAATTATCATGA
Found at i:693941 original size:41 final size:41
Alignment explanation
Indices: 693878--694029 Score: 175
Period size: 41 Copynumber: 3.7 Consensus size: 41
693868 GTAAACTTGT
**
693878 GGCGTTTGTATAAAAATACCACTAAAGTACGAGTTTATAGA
1 GGCGTTTGTATAAAAACGCCACTAAAGTACGAGTTTATAGA
* * *
693919 GGTGTTTGTATAAAAACGCCACTAAAGTACAAGTCTATAGCA
1 GGCGTTTGTATAAAAACGCCACTAAAGTACGAGTTTATAG-A
** * *
693961 -GCGTTTGTATAAAAATTCCACAAAAGTACGAGTCTT-TAGC
1 GGCGTTTGTATAAAAACGCCACTAAAGTACGAGT-TTATAGA
*
694001 GGCGTTTGTATAAAAACG-CACTAATGTAC
1 GGCGTTTGTATAAAAACGCCACTAAAGTAC
694030 TGATAAGTTG
Statistics
Matches: 92, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
40 9 0.10
41 81 0.88
42 2 0.02
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (41 bp):
GGCGTTTGTATAAAAACGCCACTAAAGTACGAGTTTATAGA
Found at i:694016 original size:82 final size:81
Alignment explanation
Indices: 693879--694029 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
693869 TAAACTTGTG
* *
693879 GCGTTTGTATAAAAATACCACTAAAGTACGAGTTTATAGAGGTGTTTGTATAAAAACGCCACTAA
1 GCGTTTGTATAAAAATACCACAAAAGTACGAGTTTATAGAGGCGTTTGTATAAAAACG-CACTAA
693944 AGTACAAGTCTATAGCA
65 AGTACAAGTCTATAGCA
* *
693961 GCGTTTGTATAAAAATTCCACAAAAGTACGAGTCTT-TAGCGGCGTTTGTATAAAAACGCACTAA
1 GCGTTTGTATAAAAATACCACAAAAGTACGAGT-TTATAGAGGCGTTTGTATAAAAACGCACTAA
*
694025 TGTAC
65 AGTAC
694030 TGATAAGTTG
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 10 0.16
82 51 0.81
83 2 0.03
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (81 bp):
GCGTTTGTATAAAAATACCACAAAAGTACGAGTTTATAGAGGCGTTTGTATAAAAACGCACTAAA
GTACAAGTCTATAGCA
Found at i:694889 original size:69 final size:69
Alignment explanation
Indices: 694807--694942 Score: 193
Period size: 69 Copynumber: 2.0 Consensus size: 69
694797 ATCAATCTAA
* * *
694807 TCCTCTGGGGCTCCCATGCGAGTCACCCAT-AATTAATATGATTTGGTGCTCCCGTGCTAGTCAC
1 TCCTCTGGAGCTCCCATGCGAGTCA-CCATAAATTAATATGATTAGGTGCTCCCGTGCGAGTCAC
694871 TCTTT
65 TCTTT
* * * *
694876 TCCTTTGGAGCTCCCATGTGAGTCACCATAAATTAATATGATTAGTTGCTCTCGTGCGAGTCACT
1 TCCTCTGGAGCTCCCATGCGAGTCACCATAAATTAATATGATTAGGTGCTCCCGTGCGAGTCACT
694941 CT
66 CT
694943 AATATTTTGG
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
68 4 0.07
69 55 0.93
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.34
Consensus pattern (69 bp):
TCCTCTGGAGCTCCCATGCGAGTCACCATAAATTAATATGATTAGGTGCTCCCGTGCGAGTCACT
CTTT
Found at i:695266 original size:76 final size:76
Alignment explanation
Indices: 695186--695492 Score: 237
Period size: 76 Copynumber: 4.1 Consensus size: 76
695176 CAGTGAAATA
* * * * *
695186 AACACCTAATTTCATTAGTGAAACTTAACATAGATTTACATCGATGATATTAACACTTAATTTCA
1 AACACATAATTCCATCAGTGAAACTTAACATAGACTTACATCGATGAAATTAACACTTAATTTCA
695251 ACACTGAACTT
66 ACACTGAACTT
** * * * * * * * * *
695262 AACACATAATTTTAT-ATTTAAACTTAGCATATACTTACA-CTAGTGAAATTGACACCTGATTTT
1 AACACATAATTCCATCAGTGAAACTTAACATAGACTTACATCGA-TGAAATTAACACTTAATTTC
* *
695325 AGCTCTGAACTT
65 AACACTGAACTT
* * * * *
695337 AACGCATAATCCCATCAGTGAAACTTAACATAGACTTATA-CTGGTGAAATTGACACTTAA-TTC
1 AACACATAATTCCATCAGTGAAACTTAACATAGACTTACATC-GATGAAATTAACACTTAATTTC
** *
695400 TAGGATTGAACTT
65 -AACACTGAACTT
* * * * * * * *
695413 AACACATAA-TCCTACCACTAAAACTTAACATAGGCTTACATCGGTGAAATTAACACATGATTCC
1 AACACATAATTCC-ATCAGTGAAACTTAACATAGACTTACATCGATGAAATTAACACTTAATTTC
695477 AACACTGAACTT
65 AACACTGAACTT
695489 AACA
1 AACA
695493 TCTTGCCTAT
Statistics
Matches: 178, Mismatches: 46, Indels: 14
0.75 0.19 0.06
Matches are distributed among these distances:
74 2 0.01
75 59 0.33
76 114 0.64
77 3 0.02
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (76 bp):
AACACATAATTCCATCAGTGAAACTTAACATAGACTTACATCGATGAAATTAACACTTAATTTCA
ACACTGAACTT
Found at i:697310 original size:24 final size:26
Alignment explanation
Indices: 697258--697314 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
697248 AGGATTCATA
* *
697258 ATTTTATTTTAAATATTATTTTTAGGT
1 ATTTTAGTTTAAATA-TATTTTTAAGT
697285 ATTTTAGTTTAAATA-A-TTTTAAGT
1 ATTTTAGTTTAAATATATTTTTAAGT
697309 ATTTTA
1 ATTTTA
697315 ATTAGGATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 13 0.46
25 1 0.04
27 14 0.50
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (26 bp):
ATTTTAGTTTAAATATATTTTTAAGT
Found at i:699969 original size:25 final size:25
Alignment explanation
Indices: 699935--699986 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
699925 TTTGCATTAC
* *
699935 AAAGAGGAAATTAATAAGGCACTAA
1 AAAGAAGAAATTAATAAGGCACGAA
699960 AAAGAAGAAATTAATAAGGCACGAA
1 AAAGAAGAAATTAATAAGGCACGAA
699985 AA
1 AA
699987 GGTAAATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.60, C:0.08, G:0.19, T:0.13
Consensus pattern (25 bp):
AAAGAAGAAATTAATAAGGCACGAA
Found at i:703569 original size:11 final size:11
Alignment explanation
Indices: 703550--703586 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
703540 TTCGTTCTAT
* *
703550 TTTTTATTTCA
1 TTTTCATTTTA
703561 TTTTCATTTTA
1 TTTTCATTTTA
703572 TTTTCATTTTA
1 TTTTCATTTTA
703583 TTTT
1 TTTT
703587 TTAGCAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTCATTTTA
Found at i:703570 original size:17 final size:17
Alignment explanation
Indices: 703550--703587 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
703540 TTCGTTCTAT
703550 TTTTTA-TTTCATTTTCA
1 TTTTTATTTTCATTTT-A
703567 -TTTTATTTTCATTTTA
1 TTTTTATTTTCATTTTA
703583 TTTTT
1 TTTTT
703588 TAGCAAACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTATTTTCATTTTA
Found at i:706280 original size:12 final size:11
Alignment explanation
Indices: 706254--706290 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 11
706244 TTTATCTCAA
706254 TTTATTT-A-T
1 TTTATTTAATT
706263 TTTATTTAATT
1 TTTATTTAATT
706274 GTTTATTTAATT
1 -TTTATTTAATT
706286 TTTAT
1 TTTAT
706291 CTCATTACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 7 0.28
10 1 0.04
11 6 0.24
12 11 0.44
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (11 bp):
TTTATTTAATT
Found at i:710270 original size:2 final size:2
Alignment explanation
Indices: 710263--710287 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
710253 AAAAATATTT
710263 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
710288 TTCTGTATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:713199 original size:18 final size:19
Alignment explanation
Indices: 713172--713216 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
713162 GGACTGATTA
713172 GAAAAG-AATGAA-GAATTG
1 GAAAAGAAATGAATGAA-TG
713190 G-AAAGAAATGAATGAATG
1 GAAAAGAAATGAATGAATG
713208 GAAAAGAAA
1 GAAAAGAAA
713217 AAAATATAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 4 0.17
18 10 0.42
19 10 0.42
ACGTcount: A:0.60, C:0.00, G:0.27, T:0.13
Consensus pattern (19 bp):
GAAAAGAAATGAATGAATG
Found at i:724108 original size:35 final size:35
Alignment explanation
Indices: 724058--724162 Score: 149
Period size: 35 Copynumber: 3.0 Consensus size: 35
724048 TTATCCTCTA
* *
724058 AAGTAGAAC-AGAAGGAAGCATCGCACTTTTGATTC
1 AAGTAGAACGA-AAGGAGGCATAGCACTTTTGATTC
724093 AAGTAGAACGAAAGGAGGCATAGCACTTTTGATTC
1 AAGTAGAACGAAAGGAGGCATAGCACTTTTGATTC
* * *
724128 AAGTTGAAAGAACGGAGGCATAGCACTTTTGATTC
1 AAGTAGAACGAAAGGAGGCATAGCACTTTTGATTC
724163 TCGTTGACAG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
35 63 0.98
36 1 0.02
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (35 bp):
AAGTAGAACGAAAGGAGGCATAGCACTTTTGATTC
Found at i:725614 original size:18 final size:18
Alignment explanation
Indices: 725591--725635 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
725581 TAAAAGGAAT
725591 GAATAAAAGATAAAGTTA
1 GAATAAAAGATAAAGTTA
725609 GAATAAAAGATAAAGTTA
1 GAATAAAAGATAAAGTTA
725627 GAATAAAAG
1 GAATAAAAG
725636 TATTTAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.18, T:0.20
Consensus pattern (18 bp):
GAATAAAAGATAAAGTTA
Found at i:726611 original size:100 final size:100
Alignment explanation
Indices: 726434--726628 Score: 318
Period size: 100 Copynumber: 1.9 Consensus size: 100
726424 CATTCAAGTA
* * * *
726434 ATAAAGTGAAGACTTATAAAGTATCGATTGTCGAACCTTCATAGACTAGTTACTTGAAAAGTAGA
1 ATAAAGTGAAGACTTATAAAATATCGAATGACGAACCATCATAGACTAGTTACTTGAAAAGTAGA
*
726499 TCTAATATAACAAGTTAGAATTAACAAATGAATTG
66 TCTAATACAACAAGTTAGAATTAACAAATGAATTG
* *
726534 ATAAAGTGAAGACTTATAAAATTTCGAATGACGAACCATCATAGACTAGTTACTTGAAAATTAGA
1 ATAAAGTGAAGACTTATAAAATATCGAATGACGAACCATCATAGACTAGTTACTTGAAAAGTAGA
*
726599 TCTAATGCAACAAGTTAGAATTAACAAATG
66 TCTAATACAACAAGTTAGAATTAACAAATG
726629 GATAGATTAA
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 87 1.00
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (100 bp):
ATAAAGTGAAGACTTATAAAATATCGAATGACGAACCATCATAGACTAGTTACTTGAAAAGTAGA
TCTAATACAACAAGTTAGAATTAACAAATGAATTG
Found at i:727496 original size:23 final size:22
Alignment explanation
Indices: 727470--727536 Score: 63
Period size: 19 Copynumber: 3.1 Consensus size: 22
727460 AGCGTTAGTT
727470 TTTTTTGTTAGAATGGTTTAGGG
1 TTTTTTGTTA-AATGGTTTAGGG
727493 ---TTT-TTAAAGTGGTTTA-GG
1 TTTTTTGTTAAA-TGGTTTAGGG
727511 TTTATTTGGTTAAATGGTTTAGGG
1 TTT-TTT-GTTAAATGGTTTAGGG
727535 TT
1 TT
727537 AGATTAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 15
0.71 0.00 0.29
Matches are distributed among these distances:
18 4 0.11
19 10 0.28
20 3 0.08
22 3 0.08
23 7 0.19
24 9 0.25
ACGTcount: A:0.19, C:0.00, G:0.28, T:0.52
Consensus pattern (22 bp):
TTTTTTGTTAAATGGTTTAGGG
Found at i:730530 original size:8 final size:8
Alignment explanation
Indices: 730505--730573 Score: 59
Period size: 8 Copynumber: 8.6 Consensus size: 8
730495 TATGAGCCAT
730505 TTTGAGAG
1 TTTGAGAG
**
730513 AATGAGAG
1 TTTGAGAG
*
730521 TTTGATAG
1 TTTGAGAG
*
730529 TTTGATAG
1 TTTGAGAG
*
730537 TTTGAGAA
1 TTTGAGAG
730545 TTTGAGAG
1 TTTGAGAG
*
730553 TTTAAGAG
1 TTTGAGAG
*
730561 -ATGTAGAG
1 TTTG-AGAG
730569 TTTGA
1 TTTGA
730574 TAATTTTAGT
Statistics
Matches: 47, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
7 1 0.02
8 44 0.94
9 2 0.04
ACGTcount: A:0.32, C:0.00, G:0.30, T:0.38
Consensus pattern (8 bp):
TTTGAGAG
Found at i:730905 original size:158 final size:158
Alignment explanation
Indices: 730666--730951 Score: 421
Period size: 158 Copynumber: 1.8 Consensus size: 158
730656 AGACAATACT
* * *
730666 ACATGGTATAGATTATATGAAAAAGGGGAAAGTGCTTCTTGTGGAATAAGCCTTTCCTTTTTGTC
1 ACATGGCATAGATTATATGAAAAAGGGGAAAATGCTTCTTGTGGAACAAGCCTTTCCTTTTTGTC
* *
730731 AGATGTTATCTACATGTCTCAATCAATTATGTTAAGATATGATGTTGGCA-TTAGAGGAACTATT
66 AGATGTTATCTACATGTCTCAATCAATTATGTGAAGATATGATGTTGGCAGTTAG-GAAACTATT
730795 CCCCATCAACTCTATTTATGTGACACAAG
130 CCCCATCAACTCTATTTATGTGACACAAG
* * * * * *
730824 ACATGGCATAGATTCTCTGAAGAATGGGAAAATGCTTCTTGTGGAACGAGCCTTTCTTTTTTGTC
1 ACATGGCATAGATTATATGAAAAAGGGGAAAATGCTTCTTGTGGAACAAGCCTTTCCTTTTTGTC
* * * *
730889 ATATTTTATTTGCATGTCTCAATCAATTATGTGAAGATATGATGTTGGCAGTTAGGAAACTAT
66 AGATGTTATCTACATGTCTCAATCAATTATGTGAAGATATGATGTTGGCAGTTAGGAAACTAT
730952 ATATATGAAA
Statistics
Matches: 112, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
158 108 0.96
159 4 0.04
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (158 bp):
ACATGGCATAGATTATATGAAAAAGGGGAAAATGCTTCTTGTGGAACAAGCCTTTCCTTTTTGTC
AGATGTTATCTACATGTCTCAATCAATTATGTGAAGATATGATGTTGGCAGTTAGGAAACTATTC
CCCATCAACTCTATTTATGTGACACAAG
Found at i:732468 original size:21 final size:24
Alignment explanation
Indices: 732443--732489 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
732433 TAATATAAAG
732443 ACTTAATA-AAA-A-AACAAAGAA
1 ACTTAATATAAACATAACAAAGAA
*
732464 ACTTAATATAAACATAATAAAGAA
1 ACTTAATATAAACATAACAAAGAA
732488 AC
1 AC
732490 AAAATTCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 8 0.36
22 3 0.14
23 1 0.05
24 10 0.45
ACGTcount: A:0.66, C:0.11, G:0.04, T:0.19
Consensus pattern (24 bp):
ACTTAATATAAACATAACAAAGAA
Found at i:732482 original size:32 final size:34
Alignment explanation
Indices: 732428--732492 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 34
732418 CATGATACAA
*
732428 AAACTTAATATAAAGACTTAATAAAAAAACAAAG
1 AAACTTAATATAAAGACATAATAAAAAAACAAAG
*
732462 AAACTTAATAT-AA-ACATAATAAAGAAACAAA
1 AAACTTAATATAAAGACATAATAAAAAAACAAA
732493 ATTCATTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 16 0.55
33 2 0.07
34 11 0.38
ACGTcount: A:0.66, C:0.09, G:0.05, T:0.20
Consensus pattern (34 bp):
AAACTTAATATAAAGACATAATAAAAAAACAAAG
Found at i:733642 original size:13 final size:14
Alignment explanation
Indices: 733611--733645 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
733601 AATAAGAATC
*
733611 TAATTATATAAAGA
1 TAATTAAATAAAGA
733625 TAATTAAATAAA-A
1 TAATTAAATAAAGA
733638 TAATTAAA
1 TAATTAAA
733646 ATTTAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (14 bp):
TAATTAAATAAAGA
Found at i:733819 original size:20 final size:20
Alignment explanation
Indices: 733790--733839 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
733780 AAGAATAAAA
733790 AAAAATAAATATAAATTTAGT
1 AAAAA-AAATATAAATTTAGT
* *
733811 AAAAAAAATATATATTTATT
1 AAAAAAAATATAAATTTAGT
733831 ATAAAAAAA
1 A-AAAAAAA
733840 ATTACATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (20 bp):
AAAAAAAATATAAATTTAGT
Found at i:733819 original size:24 final size:22
Alignment explanation
Indices: 733787--733841 Score: 65
Period size: 24 Copynumber: 2.4 Consensus size: 22
733777 TATAAGAATA
733787 AAAAAAAATAAATATAAATTTAGT
1 AAAAAAAATAAATATAAA-TTA-T
* **
733811 AAAAAAAATATATATTTATTAT
1 AAAAAAAATAAATATAAATTAT
733833 AAAAAAAAT
1 AAAAAAAAT
733842 TACATTAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 10 0.36
23 3 0.11
24 15 0.54
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (22 bp):
AAAAAAAATAAATATAAATTAT
Found at i:735632 original size:46 final size:46
Alignment explanation
Indices: 735564--735885 Score: 446
Period size: 46 Copynumber: 7.0 Consensus size: 46
735554 TAAACCAAAT
* *
735564 CCATAATTAAAGTGCATTAACGAATGCACTAAGGAATGAAAGGATG
1 CCATAATTAAAGTGCATGAACGAATGCACTAAGGCATGAAAGGATG
* *
735610 CCATAATTAAAGTGCATGAACGAATGCATTAAGGAATGAAAGGATG
1 CCATAATTAAAGTGCATGAACGAATGCACTAAGGCATGAAAGGATG
* * * * * ** *
735656 CCATAACTAAAATGCATGAAGGGATACGTTAAGGCATGAAATGATG
1 CCATAATTAAAGTGCATGAACGAATGCACTAAGGCATGAAAGGATG
* *
735702 CCATAATTAAAGTGCATGAATGGATGCACTAAGGCATGAAAGGATG
1 CCATAATTAAAGTGCATGAACGAATGCACTAAGGCATGAAAGGATG
* * * *
735748 CCATAATTAAAATGCATGAACGGATACATTAAGGCATGAAAGGATG
1 CCATAATTAAAGTGCATGAACGAATGCACTAAGGCATGAAAGGATG
*
735794 CCATAATTAAAGTGCATGAACGGATGCACTAAGGCATGAAAGGATG
1 CCATAATTAAAGTGCATGAACGAATGCACTAAGGCATGAAAGGATG
* * *
735840 CCATAATTGAAGTGCATGAACTAATGCACTAAAGCATGAAAGGATG
1 CCATAATTAAAGTGCATGAACGAATGCACTAAGGCATGAAAGGATG
735886 TCGTAACTAA
Statistics
Matches: 248, Mismatches: 28, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 248 1.00
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (46 bp):
CCATAATTAAAGTGCATGAACGAATGCACTAAGGCATGAAAGGATG
Found at i:735656 original size:20 final size:20
Alignment explanation
Indices: 735587--735656 Score: 50
Period size: 20 Copynumber: 3.2 Consensus size: 20
735577 GCATTAACGA
*
735587 ATGCACTAAGGAATGAAAGG
1 ATGCATTAAGGAATGAAAGG
* * *
735607 ATGCCATAATTAAAGTGCATGAACGA
1 ATG-C---ATT-AAG-GAATGAAAGG
735633 ATGCATTAAGGAATGAAAGG
1 ATGCATTAAGGAATGAAAGG
735653 ATGC
1 ATGC
735657 CATAACTAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 12
0.66 0.12 0.21
Matches are distributed among these distances:
20 14 0.38
21 4 0.11
22 3 0.08
24 2 0.05
25 4 0.11
26 10 0.27
ACGTcount: A:0.43, C:0.11, G:0.26, T:0.20
Consensus pattern (20 bp):
ATGCATTAAGGAATGAAAGG
Found at i:735719 original size:26 final size:25
Alignment explanation
Indices: 735599--735859 Score: 151
Period size: 26 Copynumber: 11.2 Consensus size: 25
735589 GCACTAAGGA
735599 ATGAAAGGATGCCATAATTAAAGTGC
1 ATGAAAGGATGCCATAATT-AAGTGC
* * *
735625 ATGAACGAATG-C---ATTAAG-GA
1 ATGAAAGGATGCCATAATTAAGTGC
* *
735645 ATGAAAGGATGCCATAACTAAAATGC
1 ATGAAAGGATGCCATAA-TTAAGTGC
*
735671 ATG-AAGG--G--ATACGTTAAG-GC
1 ATGAAAGGATGCCATA-ATTAAGTGC
*
735691 ATGAAATGATGCCATAATTAAAGTGC
1 ATGAAAGGATGCCATAATT-AAGTGC
* *
735717 ATGAATGGATG-C---ACTAAG-GC
1 ATGAAAGGATGCCATAATTAAGTGC
*
735737 ATGAAAGGATGCCATAATTAAAATGC
1 ATGAAAGGATGCCATAATT-AAGTGC
* *
735763 ATGAACGGAT---A-CATTAAG-GC
1 ATGAAAGGATGCCATAATTAAGTGC
735783 ATGAAAGGATGCCATAATTAAAGTGC
1 ATGAAAGGATGCCATAATT-AAGTGC
* *
735809 ATGAACGGATG-C---ACTAAG-GC
1 ATGAAAGGATGCCATAATTAAGTGC
735829 ATGAAAGGATGCCATAATTGAAGTGC
1 ATGAAAGGATGCCATAATT-AAGTGC
735855 ATGAA
1 ATGAA
735860 CTAATGCACT
Statistics
Matches: 175, Mismatches: 28, Indels: 64
0.66 0.10 0.24
Matches are distributed among these distances:
20 50 0.29
21 23 0.13
22 10 0.06
23 4 0.02
24 10 0.06
25 24 0.14
26 54 0.31
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.21
Consensus pattern (25 bp):
ATGAAAGGATGCCATAATTAAGTGC
Found at i:735812 original size:138 final size:138
Alignment explanation
Indices: 735564--735944 Score: 512
Period size: 138 Copynumber: 2.8 Consensus size: 138
735554 TAAACCAAAT
* * * *
735564 CCATAATTAAAGTGCATTAACGAATGCACTAAGGAATGAAAGGATGCCATAATTAAAGTGCATGA
1 CCATAATTAAAGTGCATGAATGAATGCACTAAGGCATGAAAGGATGCCATAATTAAAATGCATGA
* * **
735629 ACGAATGCATTAAGGAATGAAAGGATGCCATAACTAAAATGCATGAAGGGATACGTTAAGGCATG
66 ACGGATGCATTAAGGAATGAAAGGATGCCATAACTAAAATGCATGAACGGATACACTAAGGCATG
*
735694 AAATGATG
131 AAAGGATG
*
735702 CCATAATTAAAGTGCATGAATGGATGCACTAAGGCATGAAAGGATGCCATAATTAAAATGCATGA
1 CCATAATTAAAGTGCATGAATGAATGCACTAAGGCATGAAAGGATGCCATAATTAAAATGCATGA
* * * * *
735767 ACGGATACATTAAGGCATGAAAGGATGCCATAATTAAAGTGCATGAACGGATGCACTAAGGCATG
66 ACGGATGCATTAAGGAATGAAAGGATGCCATAACTAAAATGCATGAACGGATACACTAAGGCATG
735832 AAAGGATG
131 AAAGGATG
* * * * * **
735840 CCATAATTGAAGTGCATGAACT-AATGCACTAAAGCATGAAAGGATGTCGTAACTAAAATATATG
1 CCATAATTAAAGTGCATGAA-TGAATGCACTAAGGCATGAAAGGATGCCATAATTAAAATGCATG
* ** *
735904 AACAGATGCATTAAGGAATGAAAATATACCATAACTAAAAT
65 AACGGATGCATTAAGGAATGAAAGGATGCCATAACTAAAAT
735945 ATATTAACGA
Statistics
Matches: 211, Mismatches: 31, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
138 210 1.00
139 1 0.00
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.22
Consensus pattern (138 bp):
CCATAATTAAAGTGCATGAATGAATGCACTAAGGCATGAAAGGATGCCATAATTAAAATGCATGA
ACGGATGCATTAAGGAATGAAAGGATGCCATAACTAAAATGCATGAACGGATACACTAAGGCATG
AAAGGATG
Done.