Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009074.1 Hibiscus syriacus cultivar Beakdansim tig00112507_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: 2143704
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 11
Found at i:229712 original size:138 final size:138
Alignment explanation
Indices: 229460--231207 Score: 2699
Period size: 138 Copynumber: 12.7 Consensus size: 138
229450 CCATCCATCT
* * * *
229460 ATAGTTCCTCGGGGGATATGAGTGACATAAGAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 ATAGTTCCCCAGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * *
229525 CGAAGGCGCGCCCCTGGGAACGTGCTTTCACCACTTTGCCAAGTACCCTCAGAAATAATAGGTAC
66 CGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTAC
*
229590 TAACATGA
131 TGACATGA
*
229598 ATAGTTCCCCAGGAGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 ATAGTTCCCCAGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* *
229663 CGAAGGCGTGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTTCCCTCAGAAATAATAGGTAC
66 CGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTAC
229728 TGACATGA
131 TGACATGA
* * *
229736 ATTGTT-CCCTGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGATAAAATAA
1 ATAGTTCCCCAG-GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAA
* * *
229800 T--AAGGCGCCCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCTTCAGAAATAATAAGTA
65 TCGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTA
* *
229863 CTAACATAA
130 CTGACATGA
*
229872 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 ATAGTTCCCCAGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * *
229937 CGAAGGCGCGCCCCCGGGAACGCACTTTCACCACTTTGCCAAGTCCCCTCAGAATTAATAGGTGC
66 CGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTAC
230002 TGACATGA
131 TGACATGA
* * * *
230010 ATAGTTCCTC-GGATGACATGAGAGACATAATAGGGCAATAATAACATATTCTCTGACAAAATAA
1 ATAGTTCCCCAGG-GGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAA
* *
230074 TCGAAGGCGCTCCCCCGGGAACGCACTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTA
65 TCGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTA
230139 CTGACATGA
130 CTGACATGA
* * *
230148 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATAATAACATACTCTCTGACAAAATAAT
1 ATAGTTCCCCAGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * * * *
230213 CGAAGGCACGCCACCGGGAACGCGCTTTCACCACTTTTCCAAATCCCCTCAGAAATAATAGATAC
66 CGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTAC
230278 TGACATGA
131 TGACATGA
230286 ATAGTTCCCC-GAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAA
1 ATAGTTCCCCAG-GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAA
* * *
230350 TCGAAGGCGCGCCCCCGGGAATGCGCTTTCACCACTTTACCAAGTCCCCTCAGAAATAATACGTA
65 TCGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTA
* *
230415 CTAACATAA
130 CTGACATGA
*
230424 ATAGTTCCCC-GGGGACATGAGTAACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 ATAGTTCCCCAGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* *
230488 CGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAATTAATAGGTGC
66 CGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTAC
230553 TGACATGA
131 TGACATGA
* * *
230561 ATAGTTCCTC-GGATGACATGAGTGACATAATAGGGCAATAATAACATATTCTCTGACAAAATAA
1 ATAGTTCCCCAGG-GGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAA
* * *
230625 TCGAAGGCGCTCCCCCGAGAACGCACTTTCA-CACTTTGCCAAGTCCCCTCAGAAATAATAGGTA
65 TCGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTA
*
230689 CTGATATGA
130 CTGACATGA
* * * *
230698 ATAGTTCCCCGGGGGACATGAGTGATATAATAGGGTAATGATAACATACTCTCTGACAAAATAAT
1 ATAGTTCCCCAGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
*
230763 CGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAATCCCCTCAGAAATAATAGGTAC
66 CGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTAC
230828 TGACATGA
131 TGACATGA
*
230836 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 ATAGTTCCCCAGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* *
230901 CGAAGGCGCGCCCCCTGGGTACGCGCTTTCACCACTTTGCCAAGTCCCCTCAAAAATAATAGGTA
66 CGAAGGCGCGCCCCC-GGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTA
230966 CTGACATGA
130 CTGACATGA
* *
230975 ATAG-TACCCTGAGGG-CATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAA
1 ATAGTTCCCCAG-GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAA
** * * *
231038 TCGAAGGCGCGCCCCCGGGAACATGCTTTCACCACTTTGCCAAGTCCTCTCAGAAATACTAGATA
65 TCGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTA
231103 CTGACATGA
130 CTGACATGA
* * *
231112 ATAGTTCCCC-GAGGGACATGAGTGACATAATAAGGCAATGATAACATATTCTCTAATAAAATAA
1 ATAGTTCCCCAG-GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAA
* * *
231176 TCGAAGGCACACCCCCGGGAACGCGCCTTCAC
65 TCGAAGGCGCGCCCCCGGGAACGCGCTTTCAC
231208 ATGAATAGTA
Statistics
Matches: 1482, Mismatches: 114, Indels: 28
0.91 0.07 0.02
Matches are distributed among these distances:
136 121 0.08
137 322 0.22
138 975 0.66
139 64 0.04
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.22
Consensus pattern (138 bp):
ATAGTTCCCCAGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
CGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTAC
TGACATGA
Found at i:230779 original size:688 final size:689
Alignment explanation
Indices: 229460--231207 Score: 2835
Period size: 688 Copynumber: 2.5 Consensus size: 689
229450 CCATCCATCT
* * *
229460 ATAGTTCCTCGGGGGATATGAGTGACATAAGAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* *
229525 CGAAGGCGCGCCCCTGGGAACGTGCTTTCACCACTTTGCCAAGTACCCTCAGAAATAATAGGTAC
66 CGAAGGCGCGCCCCTGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTAC
*
229590 TAACATGAATAGTTCCCC-AGGAGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
131 TGACATGAATAGTTCCCCGAGG-GACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
* *
229654 CAAAATAATCGAAGGCGTGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTTCCCTCAGAAAT
195 CAAAATAATCGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAAT
* *
229719 AATAGGTACTGACATGAATTGTTCCCTGAGGGACATGAGTGACATAATAGGGCAATGATAACATA
260 AATA-GTACTGACATGAATAGTTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATA
* *
229784 TTCTCTGATAAAATAAT--AAGGCGCCCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCT
324 TTCTCTGATAAAATAATCGAAGGCGCACCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCC
* *
229847 TCAGAAATAATAAGTACTAACATAAATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATG
389 TCAGAAATAATAAGTACTAACATAAATAGTTCCCCGGAGGACATGAGTGACATAATAGGGCAATA
*
229912 ATAACATATTCTCTGACAAAATAATCGAAGGCGCGCCCCCGGGAACGCACTTTCACCACTTTGCC
454 ATAACATATTCTCTGACAAAATAATCGAAGGCGCGCCCCCGAGAACGCACTTTCACCACTTTGCC
* * * *
229977 AAGTCCCCTCAGAATTAATAGGTGCTGACATGAATAGTTCCTCGGATGACATGAGAGACATAATA
519 AAGTCCCCTCAGAAATAATAGGTACTGACATGAATAGTTCCCCGGAGGACATGAGAGACATAATA
* *
230042 GGGCAATAATAACATATTCTCTGACAAAATAATCGAAGGCGCTCCCCCGGGAACGCACTTTCACC
584 GGGCAATAATAACATACTCTCTGACAAAATAATCGAAGGCGCGCCCCCGGGAACGCACTTTCACC
*
230107 ACTTTGCCAAGTCCCCTCAGAAATAATAGGTACTGACATGA
649 ACTTTGCCAAATCCCCTCAGAAATAATAGGTACTGACATGA
* *
230148 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATAATAACATACTCTCTGACAAAATAAT
1 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * * *
230213 CGAAGGCACGCCACC-GGGAACGCGCTTTCACCACTTTTCCAAATCCCCTCAGAAATAATAGATA
66 CGAAGGCGCGCC-CCTGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTA
230277 CTGACATGAATAGTTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
130 CTGACATGAATAGTTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
* *
230342 CAAAATAATCGAAGGCGCGCCCCCGGGAATGCGCTTTCACCACTTTACCAAGTCCCCTCAGAAAT
195 CAAAATAATCGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAAT
* * *
230407 AATACGTACTAACATAAATAGTTCCCCG-GGGACATGAGTAACATAATAGGGCAATGATAACATA
260 AATA-GTACTGACATGAATAGTTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATA
* *
230471 TTCTCTGACAAAATAATCGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCC
324 TTCTCTGATAAAATAATCGAAGGCGCACCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCC
* * * * * * *
230536 TCAGAATTAATAGGTGCTGACATGAATAGTTCCTCGGATGACATGAGTGACATAATAGGGCAATA
389 TCAGAAATAATAAGTACTAACATAAATAGTTCCCCGGAGGACATGAGTGACATAATAGGGCAATA
*
230601 ATAACATATTCTCTGACAAAATAATCGAAGGCGCTCCCCCGAGAACGCACTTTCA-CACTTTGCC
454 ATAACATATTCTCTGACAAAATAATCGAAGGCGCGCCCCCGAGAACGCACTTTCACCACTTTGCC
* * * *
230665 AAGTCCCCTCAGAAATAATAGGTACTGATATGAATAGTTCCCCGGGGGACATGAGTGATATAATA
519 AAGTCCCCTCAGAAATAATAGGTACTGACATGAATAGTTCCCCGGAGGACATGAGAGACATAATA
* * *
230730 GGGTAATGATAACATACTCTCTGACAAAATAATCGAAGGCGCGCCCCCGGGAACGCGCTTTCACC
584 GGGCAATAATAACATACTCTCTGACAAAATAATCGAAGGCGCGCCCCCGGGAACGCACTTTCACC
230795 ACTTTGCCAAATCCCCTCAGAAATAATAGGTACTGACATGA
649 ACTTTGCCAAATCCCCTCAGAAATAATAGGTACTGACATGA
230836 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* *
230901 CGAAGGCGCGCCCCCTGGGTACGCGCTTTCACCACTTTGCCAAGTCCCCTCAAAAATAATAGGTA
66 CGAAGGCGCG-CCCCTGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTA
* *
230966 CTGACATGAATAGTACCCTGAGGG-CATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
130 CTGACATGAATAGTTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
** *
231030 CAAAATAATCGAAGGCGCGCCCCCGGGAACATGCTTTCACCACTTTGCCAAGTCCTCTCAGAAAT
195 CAAAATAATCGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAAT
* *
231095 ACTAGATACTGACATGAATAGTTCCCCGAGGGACATGAGTGACATAATAAGGCAATGATAACATA
260 AATAG-TACTGACATGAATAGTTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATA
* * *
231160 TTCTCTAATAAAATAATCGAAGGCACACCCCCGGGAACGCGCCTTCAC
324 TTCTCTGATAAAATAATCGAAGGCGCACCCCCGGGAACGCGCTTTCAC
231208 ATGAATAGTA
Statistics
Matches: 977, Mismatches: 75, Indels: 15
0.92 0.07 0.01
Matches are distributed among these distances:
687 52 0.05
688 622 0.64
689 303 0.31
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.22
Consensus pattern (689 bp):
ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
CGAAGGCGCGCCCCTGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTAC
TGACATGAATAGTTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGAC
AAAATAATCGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATA
ATAGTACTGACATGAATAGTTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATT
CTCTGATAAAATAATCGAAGGCGCACCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTC
AGAAATAATAAGTACTAACATAAATAGTTCCCCGGAGGACATGAGTGACATAATAGGGCAATAAT
AACATATTCTCTGACAAAATAATCGAAGGCGCGCCCCCGAGAACGCACTTTCACCACTTTGCCAA
GTCCCCTCAGAAATAATAGGTACTGACATGAATAGTTCCCCGGAGGACATGAGAGACATAATAGG
GCAATAATAACATACTCTCTGACAAAATAATCGAAGGCGCGCCCCCGGGAACGCACTTTCACCAC
TTTGCCAAATCCCCTCAGAAATAATAGGTACTGACATGA
Found at i:234314 original size:25 final size:25
Alignment explanation
Indices: 234281--234360 Score: 72
Period size: 25 Copynumber: 3.1 Consensus size: 25
234271 ATGTACACCT
* *
234281 AAATAATTTTTTAATTTTTATTTAA
1 AAATAATTTTATAATATTTATTTAA
* *
234306 AAATTATTTTATGATATTTATTTAA
1 AAATAATTTTATAATATTTATTTAA
* *
234331 TATAATAA-TTAATATTATTTATTATAA
1 -A-AATAATTTTATAATATTTATT-TAA
234358 AAA
1 AAA
234361 ATTAATTATT
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
25 23 0.52
26 14 0.32
27 7 0.16
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (25 bp):
AAATAATTTTATAATATTTATTTAA
Found at i:234370 original size:21 final size:21
Alignment explanation
Indices: 234344--234385 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
234334 AATAATTAAT
*
234344 ATTATTTATTATAAAAAATTA
1 ATTATTAATTATAAAAAATTA
* *
234365 ATTATTAATTTTAAAATATTA
1 ATTATTAATTATAAAAAATTA
234386 TAATAATTCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTATTAATTATAAAAAATTA
Found at i:239526 original size:75 final size:76
Alignment explanation
Indices: 239357--239558 Score: 257
Period size: 74 Copynumber: 2.7 Consensus size: 76
239347 ACGTTGTACA
* * * * *
239357 AGGGGGGAATCGGTACCCCCT-TGGGGGGGATCGGTTCCCTCTGAGCATACT-GAATTCTCAGAA
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCATTCTGGAAATCTCAGAA
** *
239420 CAAAACTGTTT
66 CAAAACCATTC
* * *
239431 AGGGGGGAATCGGTTCCTCCTAT-GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCATTCTGGAAATCTCAGAA
*
239495 CCAAACCATTC
66 CAAAACCATTC
* *
239506 AGGGGGGAATTGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCAATCTG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCATTCTG
239559 TAATTTTTGG
Statistics
Matches: 110, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
74 44 0.40
75 39 0.35
76 27 0.25
ACGTcount: A:0.21, C:0.24, G:0.31, T:0.24
Consensus pattern (76 bp):
AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCATTCTGGAAATCTCAGAA
CAAAACCATTC
Found at i:240173 original size:17 final size:17
Alignment explanation
Indices: 240151--240194 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
240141 TTCATAAATC
240151 CAAAATCCAACAATCCA
1 CAAAATCCAACAATCCA
*
240168 CAAAATCAAACAATCCA
1 CAAAATCCAACAATCCA
240185 -AAATATCCAA
1 CAAA-ATCCAA
240195 AATGTTGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.57, C:0.30, G:0.00, T:0.14
Consensus pattern (17 bp):
CAAAATCCAACAATCCA
Found at i:240186 original size:9 final size:8
Alignment explanation
Indices: 240146--240196 Score: 52
Period size: 9 Copynumber: 6.2 Consensus size: 8
240136 CACTATTCAT
240146 AAATCC-A
1 AAATCCAA
240153 AAATCCAA
1 AAATCCAA
*
240161 CAATCCACA
1 AAATCCA-A
240170 AAAT-CAA
1 AAATCCAA
240177 ACAATCCAA
1 A-AATCCAA
240186 AATATCCAA
1 AA-ATCCAA
240195 AA
1 AA
240197 TGTTGAAACA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
7 8 0.22
8 13 0.35
9 16 0.43
ACGTcount: A:0.59, C:0.27, G:0.00, T:0.14
Consensus pattern (8 bp):
AAATCCAA
Found at i:247984 original size:75 final size:76
Alignment explanation
Indices: 247897--248090 Score: 275
Period size: 75 Copynumber: 2.6 Consensus size: 76
247887 CCGTTGTACA
* * * *
247897 AGGGGGGAATCGGTACCCCCT-TGGGGGGGATCGGTTCCCTCTGAGCATACTGGAATTCTCGGAA
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCATACTGGAAATCTCGGAA
** *
247961 CAAAACTGTTT
66 CAAAACCATTC
* * *
247972 AGGGGGGAATCGGTTCCTCCTAT-GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCATACTGGAAATCTCGGAA
*
248036 CCAAACCATTC
66 CAAAACCATTC
248047 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTG
248091 GGCAATCTGT
Statistics
Matches: 105, Mismatches: 12, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
75 85 0.81
76 20 0.19
ACGTcount: A:0.20, C:0.24, G:0.32, T:0.24
Consensus pattern (76 bp):
AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCATACTGGAAATCTCGGAA
CAAAACCATTC
Found at i:249296 original size:17 final size:18
Alignment explanation
Indices: 249257--249330 Score: 82
Period size: 17 Copynumber: 4.2 Consensus size: 18
249247 ATGTTTATAA
* *
249257 TTATCAGATGATTTTCAG
1 TTATTAGATGATTTACAG
249275 TTATTAGAT-ATTTACAG
1 TTATTAGATGATTTACAG
*
249292 ATATTAGATGA-TTACAG
1 TTATTAGATGATTTACAG
*
249309 TTATAAGAT-ATTTTACAG
1 TTATTAGATGA-TTTACAG
249327 TTAT
1 TTAT
249331 CAGACACATA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
16 1 0.02
17 28 0.58
18 19 0.40
ACGTcount: A:0.35, C:0.07, G:0.14, T:0.45
Consensus pattern (18 bp):
TTATTAGATGATTTACAG
Found at i:254156 original size:20 final size:20
Alignment explanation
Indices: 254133--254182 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
254123 TTTGAGTTAA
* *
254133 TTAAAATATTTTTAAAG-TGT
1 TTAAAATATGTATAAAGCT-T
*
254153 TTAAAATGTGTATAAAGCTT
1 TTAAAATATGTATAAAGCTT
254173 TTAAAATATG
1 TTAAAATATG
254183 AAAAATTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 24 0.96
21 1 0.04
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.44
Consensus pattern (20 bp):
TTAAAATATGTATAAAGCTT
Found at i:255703 original size:18 final size:18
Alignment explanation
Indices: 255680--255720 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
255670 CCAAAAAGGC
255680 TTTCTTTCTTC-TTCTCTT
1 TTTCTTTC-TCATTCTCTT
255698 TTTCTTTCTCATTCTCTT
1 TTTCTTTCTCATTCTCTT
255716 TTTCT
1 TTTCT
255721 CCATTCAAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTCTTTCTCATTCTCTT
Found at i:257723 original size:2 final size:2
Alignment explanation
Indices: 257716--257744 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
257706 ATCTAATGTG
257716 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 T
257745 GATAAATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:257838 original size:23 final size:23
Alignment explanation
Indices: 257812--257880 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
257802 GCATTATGTA
257812 TCAGTGCTAAGGCACTTTGGTAT
1 TCAGTGCTAAGGCACTTTGGTAT
* *
257835 TCAGTGCCAAGGCACTTTAGTA-
1 TCAGTGCTAAGGCACTTTGGTAT
* * *
257857 CCAATGCTAAGGCATTTTAGGTAT
1 TCAGTGCTAAGGCACTTT-GGTAT
257881 ATGACGACAT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
22 14 0.38
23 23 0.62
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (23 bp):
TCAGTGCTAAGGCACTTTGGTAT
Found at i:257875 original size:22 final size:22
Alignment explanation
Indices: 257773--257876 Score: 93
Period size: 22 Copynumber: 4.7 Consensus size: 22
257763 CTCTAATTGG
*
257773 TGCTAAGACATTTTAGTATCAA
1 TGCTAAGGCATTTTAGTATCAA
* * * *
257795 TGTTAATGCATTAT-GTATCAG
1 TGCTAAGGCATTTTAGTATCAA
* * *
257816 TGCTAAGGCACTTTGGTATTCAG
1 TGCTAAGGCATTTTAGTA-TCAA
* * *
257839 TGCCAAGGCACTTTAGTACCAA
1 TGCTAAGGCATTTTAGTATCAA
257861 TGCTAAGGCATTTTAG
1 TGCTAAGGCATTTTAG
257877 GTATATGACG
Statistics
Matches: 65, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
21 16 0.25
22 29 0.45
23 20 0.31
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (22 bp):
TGCTAAGGCATTTTAGTATCAA
Found at i:258996 original size:24 final size:23
Alignment explanation
Indices: 258964--259025 Score: 70
Period size: 24 Copynumber: 2.7 Consensus size: 23
258954 ACGTTAAACA
* *
258964 AACGCTAAATGAACATGTTCATG
1 AACGTTAAATGAACATGTTCACG
** *
258987 AACGATTAAAACAGCATGTTCACG
1 AACG-TTAAATGAACATGTTCACG
259011 AACGTTAAATGAACA
1 AACGTTAAATGAACA
259026 CTAACACCTT
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
23 12 0.40
24 18 0.60
ACGTcount: A:0.44, C:0.18, G:0.16, T:0.23
Consensus pattern (23 bp):
AACGTTAAATGAACATGTTCACG
Found at i:259050 original size:30 final size:32
Alignment explanation
Indices: 259016--259088 Score: 105
Period size: 33 Copynumber: 2.3 Consensus size: 32
259006 TCACGAACGT
259016 TAAATGAACAC-T-AACACCTTCAAAAATAAA
1 TAAATGAACACATGAACACCTTCAAAAATAAA
* *
259046 TAAATGAACAACATGAACACTTTTAAAAATAAA
1 TAAATGAAC-ACATGAACACCTTCAAAAATAAA
259079 TAAATGAACA
1 TAAATGAACA
259089 TGAACATAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
30 9 0.24
31 2 0.05
32 2 0.05
33 25 0.66
ACGTcount: A:0.58, C:0.15, G:0.05, T:0.22
Consensus pattern (32 bp):
TAAATGAACACATGAACACCTTCAAAAATAAA
Found at i:263668 original size:3 final size:3
Alignment explanation
Indices: 263660--263697 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
263650 GCATGTAAAT
263660 TAA TAA TAA TAA TAA TTAA TAA TAA TAA TAA TAA -AA TA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TA
263698 TTAAAAGACA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:263678 original size:16 final size:16
Alignment explanation
Indices: 263657--263691 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
263647 CCTGCATGTA
263657 AATTAATAATAATAAT
1 AATTAATAATAATAAT
263673 AATTAATAATAATAAT
1 AATTAATAATAATAAT
263689 AAT
1 AAT
263692 AAAATATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
AATTAATAATAATAAT
Found at i:265217 original size:25 final size:25
Alignment explanation
Indices: 265179--265235 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
265169 TTGTTGTTCG
**
265179 TGTTCGTTCGTTAAGAAATATAACT
1 TGTTCGTTAATTAAGAAATATAACT
* *
265204 TGTTCGTTAATTAAGGAATGTAACT
1 TGTTCGTTAATTAAGAAATATAACT
265229 TGTTCGT
1 TGTTCGT
265236 GTTCGTTCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.42
Consensus pattern (25 bp):
TGTTCGTTAATTAAGAAATATAACT
Found at i:265571 original size:24 final size:24
Alignment explanation
Indices: 265539--265669 Score: 104
Period size: 24 Copynumber: 5.5 Consensus size: 24
265529 GATTGGGCTT
**
265539 AACATAAATGAACGAACGTAAACG
1 AACATAAATGAACGAACACAAACG
*
265563 AACATAAATGAACAAACACAAACG
1 AACATAAATGAACGAACACAAACG
* * ** *
265587 AACATAAACGAACGGATGCAAATG
1 AACATAAATGAACGAACACAAACG
* * * *
265611 AACAT-AATAAATGAATATAAACG
1 AACATAAATGAACGAACACAAACG
** * *
265634 AATGTAAACGAACCAA-ACAAACG
1 AACATAAATGAACGAACACAAACG
265657 AACATAAATGAAC
1 AACATAAATGAAC
265670 ATAATCACAA
Statistics
Matches: 80, Mismatches: 26, Indels: 3
0.73 0.24 0.03
Matches are distributed among these distances:
23 30 0.38
24 50 0.62
ACGTcount: A:0.57, C:0.17, G:0.13, T:0.13
Consensus pattern (24 bp):
AACATAAATGAACGAACACAAACG
Found at i:265971 original size:10 final size:10
Alignment explanation
Indices: 265937--266003 Score: 53
Period size: 10 Copynumber: 6.4 Consensus size: 10
265927 AACAAACATG
*
265937 ATAAATGAAC
1 ATAAACGAAC
* *
265947 ATAAACCAAT
1 ATAAACGAAC
*
265957 GTAAACGAAC
1 ATAAACGAAC
*
265967 ATAAATGAAC
1 ATAAACGAAC
265977 TATACAAACGAAC
1 -AT--AAACGAAC
*
265990 ATAAATGAAC
1 ATAAACGAAC
266000 ATAA
1 ATAA
266004 TCAAAACAAC
Statistics
Matches: 44, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
10 33 0.75
11 2 0.05
12 2 0.05
13 7 0.16
ACGTcount: A:0.58, C:0.15, G:0.09, T:0.18
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:266201 original size:14 final size:14
Alignment explanation
Indices: 266182--266224 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
266172 AGATTGGGCT
266182 AAACATAAACGAAC
1 AAACATAAACGAAC
*
266196 AAACATAAACGAAT
1 AAACATAAACGAAC
* *
266210 AAACACAGACGAAC
1 AAACATAAACGAAC
266224 A
1 A
266225 TAAACGAACA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.63, C:0.21, G:0.09, T:0.07
Consensus pattern (14 bp):
AAACATAAACGAAC
Found at i:266524 original size:3 final size:3
Alignment explanation
Indices: 266516--266544 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
266506 GACAGTCACT
266516 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
266545 TCCATTTCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:266948 original size:2 final size:2
Alignment explanation
Indices: 266941--266968 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
266931 GACCTTGCTT
266941 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
266969 ATTCCTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:272746 original size:28 final size:28
Alignment explanation
Indices: 272703--272774 Score: 108
Period size: 28 Copynumber: 2.5 Consensus size: 28
272693 GGCCCGATTA
*
272703 TATATATATATATAATATTTTATATTTTT
1 TATATAT-TATATAATATTTCATATTTTT
272732 TATATATTATATAATATTTCATATTTTT
1 TATATATTATATAATATTTCATATTTTT
272760 TATATTAATTATATA
1 TATA-T-ATTATATA
272775 TAAAATATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
28 24 0.60
29 8 0.20
30 8 0.20
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (28 bp):
TATATATTATATAATATTTCATATTTTT
Found at i:275199 original size:40 final size:42
Alignment explanation
Indices: 275139--275327 Score: 148
Period size: 44 Copynumber: 4.4 Consensus size: 42
275129 CGTCTTTCGG
* * *
275139 ATACAAATGTCGTAATAGGTCTGGTATATAGCG-GTTTTT-T
1 ATACAAACGTCGCAAAAGGTCTGGTATATAGCGCGTTTTTAT
* **
275179 ATACAAACGTCGCAAAAGGTCTTGTATATAGCGGCGTTTGTTGG
1 ATACAAACGTCGCAAAAGGTCTGGTATATAGC-GCGTTT-TTAT
* * * * * *
275223 ATATAAACGCCGCTAAAGGCCTTGTATATAGTGGCGTTTTTCAT
1 ATACAAACGTCGCAAAAGGTCTGGTATATAG-CGCGTTTTT-AT
* * * * *
275267 ATATAAACGTCGCGAAAGGTCTGGTATATAGTGGCATTTTTAGG
1 ATACAAACGTCGCAAAAGGTCTGGTATATAG-CGCGTTTTTA-T
*
275311 ATACAAACGCCGCAAAA
1 ATACAAACGTCGCAAAA
275328 TATCTACACT
Statistics
Matches: 121, Mismatches: 21, Indels: 10
0.80 0.14 0.07
Matches are distributed among these distances:
40 28 0.23
41 1 0.01
42 4 0.03
43 5 0.04
44 83 0.69
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.31
Consensus pattern (42 bp):
ATACAAACGTCGCAAAAGGTCTGGTATATAGCGCGTTTTTAT
Found at i:275247 original size:44 final size:44
Alignment explanation
Indices: 275183--275327 Score: 168
Period size: 44 Copynumber: 3.3 Consensus size: 44
275173 TTTTTTATAC
* *
275183 AAACGTCGCAAAAGGTCTTGTATATAGCGGCGTTTGTT-GGATAT
1 AAACGCCGCAAAAGGTCTTGTATATAGTGGCGTTT-TTAGGATAT
* * *
275227 AAACGCCGCTAAAGGCCTTGTATATAGTGGCGTTTTTCA-TATAT
1 AAACGCCGCAAAAGGTCTTGTATATAGTGGCGTTTTT-AGGATAT
* * * * *
275271 AAACGTCGCGAAAGGTCTGGTATATAGTGGCATTTTTAGGATAC
1 AAACGCCGCAAAAGGTCTTGTATATAGTGGCGTTTTTAGGATAT
275315 AAACGCCGCAAAA
1 AAACGCCGCAAAA
275328 TATCTACACT
Statistics
Matches: 84, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
43 3 0.04
44 81 0.96
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (44 bp):
AAACGCCGCAAAAGGTCTTGTATATAGTGGCGTTTTTAGGATAT
Found at i:275749 original size:21 final size:21
Alignment explanation
Indices: 275725--275777 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
275715 GCTGATATGT
*
275725 TGCTTCTCTCTGTGCTTCCGC
1 TGCTGCTCTCTGTGCTTCCGC
* *
275746 TGCTGCTCTATGTGCTTCTGC
1 TGCTGCTCTCTGTGCTTCCGC
275767 TGCTGCTCTCT
1 TGCTGCTCTCT
275778 CTTCTTCTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.02, C:0.34, G:0.21, T:0.43
Consensus pattern (21 bp):
TGCTGCTCTCTGTGCTTCCGC
Found at i:275784 original size:21 final size:21
Alignment explanation
Indices: 275729--275785 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
275719 ATATGTTGCT
*
275729 TCTCTCTGTGCTTCCGCTGCTGC
1 TCTCTCT-T-CTTCTGCTGCTGC
* * *
275752 TCTATGTGCTTCTGCTGCTGC
1 TCTCTCTTCTTCTGCTGCTGC
275773 TCTCTCTTCTTCT
1 TCTCTCTTCTTCT
275786 CGGCTTTTAT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
21 22 0.81
23 5 0.19
ACGTcount: A:0.02, C:0.35, G:0.18, T:0.46
Consensus pattern (21 bp):
TCTCTCTTCTTCTGCTGCTGC
Found at i:285469 original size:21 final size:22
Alignment explanation
Indices: 285443--285500 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 22
285433 TGTTCACTAG
285443 GTATCGATACCCCC-TCAACGT
1 GTATCGATACCCCCTTCAACGT
* *
285464 GTATCGATACCCCCTTTGAATGT
1 GTATCGATACCCCC-TTCAACGT
285487 GTATCGATACCCCC
1 GTATCGATACCCCC
285501 ATCAGATTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
21 14 0.42
23 19 0.58
ACGTcount: A:0.22, C:0.34, G:0.16, T:0.28
Consensus pattern (22 bp):
GTATCGATACCCCCTTCAACGT
Found at i:287036 original size:10 final size:10
Alignment explanation
Indices: 287021--287053 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
287011 TGTTAAAAGC
287021 TTTTTGGATG
1 TTTTTGGATG
287031 TTTTTGGAT-
1 TTTTTGGATG
287040 TGTTTTGGATG
1 T-TTTTGGATG
287051 TTT
1 TTT
287054 GAATTGTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 1 0.05
10 19 0.90
11 1 0.05
ACGTcount: A:0.09, C:0.00, G:0.27, T:0.64
Consensus pattern (10 bp):
TTTTTGGATG
Found at i:295189 original size:42 final size:42
Alignment explanation
Indices: 294958--295209 Score: 132
Period size: 41 Copynumber: 6.1 Consensus size: 42
294948 ACAGATGCTG
* *
294958 CTAAATTACTACTCTATTGCAGCGTTTGGGCTAAAAAC-CCA
1 CTAAATTACTACTCTATTGCGGCGTTTGTGCTAAAAACGCCA
* * * * *
294999 CAAAATTACTACTCTATTGCAGTGTTTGTAC-AAGAAACACCA
1 CTAAATTACTACTCTATTGCGGCGTTTGTGCTAA-AAACGCCA
* * * * * * * * *
295041 CT--ATGTATTAACCCGACTGTGGCATTT-TTCTAAAAACGACG
1 CTAAAT-TACT-ACTCTATTGCGGCGTTTGTGCTAAAAACGCCA
* * * *
295082 CTAAAGTA-TTCTTTATTGCGGTGTTTGTTGGC--AAAACGCCA
1 CTAAATTACTACTCTATTGCGGCGTTTG-T-GCTAAAAACGCCA
* * *
295123 CTATAA-AAAT-CT-TATTGCGGCGTTTGTGCTAAAAACGCCG
1 CTA-AATTACTACTCTATTGCGGCGTTTGTGCTAAAAACGCCA
* *
295163 CTAAATTACTACTCTATTGCGGCGTTTGT-ATAAAAAACGCTA
1 CTAAATTACTACTCTATTGCGGCGTTTGTGCT-AAAAACGCCA
295205 CTAAA
1 CTAAA
295210 GTATCAAATT
Statistics
Matches: 156, Mismatches: 37, Indels: 35
0.68 0.16 0.15
Matches are distributed among these distances:
38 2 0.01
39 3 0.02
40 39 0.25
41 60 0.38
42 50 0.32
43 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (42 bp):
CTAAATTACTACTCTATTGCGGCGTTTGTGCTAAAAACGCCA
Found at i:295200 original size:82 final size:83
Alignment explanation
Indices: 294971--295207 Score: 196
Period size: 82 Copynumber: 2.9 Consensus size: 83
294961 AATTACTACT
* * * * * * *
294971 CTATTGCAGCGTTTGGGCTAAAAAC-CCACAAAATTACTACTCTATTGCAGTGTTTGTACAAGAA
1 CTATTGCGGCGTTTGTGCTAAAAACGCCGCTAAATTACTACTCTATTGCGGTGTTTGTATAAAAA
* **
295035 ACACCACTATGTATTAACC
66 ACGCCACTA-GTAAAAACC
* * * * * * * * * **
295054 CGACTGTGGCATTT-TTCTAAAAACGACGCTAAAGTA-TTCTTTATTGCGGTGTTTGT-TGGCAA
1 CTATTGCGGCGTTTGTGCTAAAAACGCCGCTAAATTACTACTCTATTGCGGTGTTTGTAT-AAAA
*
295116 AACGCCACTA-TAAAAATC
65 AACGCCACTAGTAAAAACC
* *
295134 TTATTGCGGCGTTTGTGCTAAAAACGCCGCTAAATTACTACTCTATTGCGGCGTTTGTATAAAAA
1 CTATTGCGGCGTTTGTGCTAAAAACGCCGCTAAATTACTACTCTATTGCGGTGTTTGTATAAAAA
*
295199 ACGCTACTA
66 ACGCCACTA
295208 AAGTATCAAA
Statistics
Matches: 113, Mismatches: 36, Indels: 11
0.71 0.22 0.07
Matches are distributed among these distances:
80 14 0.12
81 19 0.17
82 63 0.56
83 17 0.15
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (83 bp):
CTATTGCGGCGTTTGTGCTAAAAACGCCGCTAAATTACTACTCTATTGCGGTGTTTGTATAAAAA
ACGCCACTAGTAAAAACC
Found at i:301682 original size:3 final size:3
Alignment explanation
Indices: 301674--301785 Score: 203
Period size: 3 Copynumber: 38.3 Consensus size: 3
301664 CTAAAAACTA
301674 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
301721 ATT ATT ATT ATT ATT ATT A-T ATT ATT ATT ATT ATT ATT A-T ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
301767 ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT A
301786 CTACTACTAC
Statistics
Matches: 106, Mismatches: 0, Indels: 6
0.95 0.00 0.05
Matches are distributed among these distances:
2 6 0.06
3 100 0.94
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:304250 original size:13 final size:13
Alignment explanation
Indices: 304232--304261 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
304222 TGATCGACCG
304232 AATTAACCGAATT
1 AATTAACCGAATT
*
304245 AATTAATCGAATT
1 AATTAACCGAATT
304258 AATT
1 AATT
304262 CGATTTAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.37
Consensus pattern (13 bp):
AATTAACCGAATT
Found at i:309132 original size:29 final size:29
Alignment explanation
Indices: 309090--309147 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
309080 TCACTGAAAT
309090 CGCCAATTACCAACCATGAAATATTCGAC
1 CGCCAATTACCAACCATGAAATATTCGAC
*
309119 CGCCTATTACCAACCATGAAATATTCGAC
1 CGCCAATTACCAACCATGAAATATTCGAC
309148 AAATCATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.36, C:0.31, G:0.10, T:0.22
Consensus pattern (29 bp):
CGCCAATTACCAACCATGAAATATTCGAC
Found at i:309690 original size:82 final size:82
Alignment explanation
Indices: 309587--309819 Score: 252
Period size: 82 Copynumber: 2.8 Consensus size: 82
309577 AAATGGTAAA
* * * *
309587 TTTAGCGGCGTTTTTAAACAAATGTTGCAATAGGGTTCATATATAGTGGCATTTTTTCAACAAAT
1 TTTAGC-GCGTTTTTATACAAATGCTGCAATAGGATTCATATATAGTGGCATTTTTACAACAAAT
* *
309652 GCCGTAACAGA-CAGTAC
65 GCCGCAACAGATAAGTAC
* * * ** *
309669 TTTAGCGACGTTTTTATACAAACGCTACAATAGGATTCATATATAGTGGCGTCGTTACAACAAAC
1 TTTAGCG-CGTTTTTATACAAATGCTGCAATAGGATTCATATATAGTGGCATTTTTACAACAAAT
* *
309734 GTCGCAATAGATAAGTAC
65 GCCGCAACAGATAAGTAC
* * * * * *
309752 TTTAGCTGCGTTTGTCTACAAATACCGTAATAGGATTCATATATAGTGGCATTTTTCCAACAAAT
1 TTTAGC-GCGTTTTTATACAAATGCTGCAATAGGATTCATATATAGTGGCATTTTTACAACAAAT
309817 GCC
65 GCC
309820 TCAATGATTA
Statistics
Matches: 121, Mismatches: 27, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
81 1 0.01
82 61 0.50
83 58 0.48
84 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (82 bp):
TTTAGCGCGTTTTTATACAAATGCTGCAATAGGATTCATATATAGTGGCATTTTTACAACAAATG
CCGCAACAGATAAGTAC
Found at i:309813 original size:83 final size:82
Alignment explanation
Indices: 309614--309815 Score: 217
Period size: 83 Copynumber: 2.5 Consensus size: 82
309604 ACAAATGTTG
* * * * *
309614 CAATAGGGTTCATATATAGTGGCATTTTTTCAACAAATGCCGTAACAGACAGTACTTTAGCGACG
1 CAATAGGATTCATATATAGTGGCATTTTTACAACAAACGCCGCAACAGAAAGTACTTTAGCGACG
* * *
309679 TTTTTATACAAACGCTA
66 TTTGTATACAAACACCA
* ** * *
309696 CAATAGGATTCATATATAGTGGCGTCGTTACAACAAACGTCGCAATAGATAAGTACTTTAGCTG-
1 CAATAGGATTCATATATAGTGGCATTTTTACAACAAACGCCGCAACAGA-AAGTACTTTAGC-GA
* * *
309760 CGTTTGTCTACAAATACCG
64 CGTTTGTATACAAACACCA
* *
309779 TAATAGGATTCATATATAGTGGCATTTTTCCAACAAA
1 CAATAGGATTCATATATAGTGGCATTTTTACAACAAA
309816 TGCCTCAATG
Statistics
Matches: 97, Mismatches: 21, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
82 40 0.41
83 56 0.58
84 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (82 bp):
CAATAGGATTCATATATAGTGGCATTTTTACAACAAACGCCGCAACAGAAAGTACTTTAGCGACG
TTTGTATACAAACACCA
Found at i:310056 original size:41 final size:41
Alignment explanation
Indices: 310011--310089 Score: 117
Period size: 41 Copynumber: 1.9 Consensus size: 41
310001 CGTTTGTAAA
310011 CAAACACTGCTATATACT-A-GTACTTTAGTGGCGTTTTTGTT
1 CAAACACTGC-A-ATACTCATGTACTTTAGTGGCGTTTTTGTT
*
310052 CAAACACTGCAATAGTCATGTACTTTAGTGGCGTTTTT
1 CAAACACTGCAATACTCATGTACTTTAGTGGCGTTTTT
310090 TTAATAAACG
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
39 4 0.11
40 2 0.06
41 29 0.83
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (41 bp):
CAAACACTGCAATACTCATGTACTTTAGTGGCGTTTTTGTT
Found at i:310115 original size:42 final size:41
Alignment explanation
Indices: 310030--310142 Score: 122
Period size: 42 Copynumber: 2.7 Consensus size: 41
310020 CTATATACTA
* * *
310030 GTACTTTAGTGGCGTTTTTGTTCAA-ACAC-TGCAATAGTCAT
1 GTACTTTAGTGGCGTTTTT-TT-AATAAACGTACAATAATCAT
*
310071 GTACTTTAGTGGCGTTTTTTTAATAAACGTAACAATAATTAT
1 GTACTTTAGTGGCGTTTTTTTAATAAACGT-ACAATAATCAT
* *
310113 GTAATTTAGTGGCATTTTTTGTAATAAACG
1 GTACTTTAGTGGCGTTTTTT-TAATAAACG
310143 CCGCAATAGT
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
39 2 0.03
40 5 0.08
41 20 0.32
42 26 0.42
43 9 0.15
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.42
Consensus pattern (41 bp):
GTACTTTAGTGGCGTTTTTTTAATAAACGTACAATAATCAT
Found at i:310158 original size:43 final size:42
Alignment explanation
Indices: 310060--310158 Score: 117
Period size: 42 Copynumber: 2.3 Consensus size: 42
310050 TTCAAACACT
* * *
310060 GCAATAGTCATGTACTTTAGTGGCGTTTTTTTAATAAACGTA
1 GCAATAGTCATGTAATTTAGTGGCATTTTTTTAATAAACGCA
* * * *
310102 ACAATAATTATGTAATTTAGTGGCATTTTTTGTAATAAACGCC
1 GCAATAGTCATGTAATTTAGTGGCATTTTTT-TAATAAACGCA
*
310145 GCAATAGTGATGTA
1 GCAATAGTCATGTA
310159 CCTGGTGGGT
Statistics
Matches: 46, Mismatches: 10, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
42 26 0.57
43 20 0.43
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.38
Consensus pattern (42 bp):
GCAATAGTCATGTAATTTAGTGGCATTTTTTTAATAAACGCA
Found at i:310984 original size:12 final size:12
Alignment explanation
Indices: 310967--310997 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
310957 GAAAATAAAG
310967 AAAACTTAATGA
1 AAAACTTAATGA
310979 AAAACTTAATGA
1 AAAACTTAATGA
*
310991 AAGACTT
1 AAAACTT
310998 GATTGCCCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.26
Consensus pattern (12 bp):
AAAACTTAATGA
Found at i:320254 original size:21 final size:21
Alignment explanation
Indices: 320230--320277 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
320220 ATTTATTATA
320230 ATGGATTTAAAGTTGGTTGTT
1 ATGGATTTAAAGTTGGTTGTT
* *
320251 ATGGAATTAAAGTTTGTTGTT
1 ATGGATTTAAAGTTGGTTGTT
320272 ATGGAT
1 ATGGAT
320278 GTCATGTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (21 bp):
ATGGATTTAAAGTTGGTTGTT
Found at i:333426 original size:22 final size:22
Alignment explanation
Indices: 333401--333530 Score: 116
Period size: 22 Copynumber: 5.9 Consensus size: 22
333391 TCAGTCCATG
* *
333401 AAAGTGCCTTAGCACTGGTACT
1 AAAGTGCCTTGGCACTGATACT
* **
333423 AAAGTTCCTTGGCACTGATAAA
1 AAAGTGCCTTGGCACTGATACT
** * *
333445 AAAGTGTGTTCGCAATGATACT
1 AAAGTGCCTTGGCACTGATACT
* **
333467 AAAGTTCCTTGGCACTGATAAA
1 AAAGTGCCTTGGCACTGATACT
*** *
333489 AAAGTATGTTTGCACTGATACT
1 AAAGTGCCTTGGCACTGATACT
333511 AAAGTGCCTTGGCACTGATA
1 AAAGTGCCTTGGCACTGATA
333531 AAAAAACTGG
Statistics
Matches: 79, Mismatches: 29, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
22 79 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (22 bp):
AAAGTGCCTTGGCACTGATACT
Found at i:333468 original size:44 final size:44
Alignment explanation
Indices: 333419--333535 Score: 198
Period size: 44 Copynumber: 2.7 Consensus size: 44
333409 TTAGCACTGG
*
333419 TACTAAAGTTCCTTGGCACTGATAAAAAAGTGTGTTCGCAATGA
1 TACTAAAGTTCCTTGGCACTGATAAAAAAGTATGTTCGCAATGA
* *
333463 TACTAAAGTTCCTTGGCACTGATAAAAAAGTATGTTTGCACTGA
1 TACTAAAGTTCCTTGGCACTGATAAAAAAGTATGTTCGCAATGA
*
333507 TACTAAAGTGCCTTGGCACTGATAAAAAA
1 TACTAAAGTTCCTTGGCACTGATAAAAAA
333536 ACTGGTACAA
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 69 1.00
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (44 bp):
TACTAAAGTTCCTTGGCACTGATAAAAAAGTATGTTCGCAATGA
Found at i:339657 original size:26 final size:24
Alignment explanation
Indices: 339609--339670 Score: 72
Period size: 26 Copynumber: 2.5 Consensus size: 24
339599 CATAGTATTA
339609 TTTATATTAACTTTAAAAATAATT
1 TTTATATTAACTTTAAAAATAATT
* *
339633 TTTATATTAGCTTATTAAATATAATT
1 TTTATATTAAC-T-TTAAAAATAATT
*
339659 TAT-TATTAACTT
1 TTTATATTAACTT
339671 AGTTTTAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
23 1 0.03
24 11 0.34
25 7 0.22
26 13 0.41
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (24 bp):
TTTATATTAACTTTAAAAATAATT
Found at i:339871 original size:31 final size:29
Alignment explanation
Indices: 339794--339875 Score: 83
Period size: 31 Copynumber: 2.7 Consensus size: 29
339784 AGTAAATTAA
*
339794 GATAAAATATATACTTTAAAAAGTTAAAAT
1 GATAAAATATATA-TTTTAAAAGTTAAAAT
* * * *
339824 AATAATAAAATATATTTTTAAAGTTTAGATAT
1 GATAA-AATATATATTTTAAAAG-TTA-AAAT
339856 GATAAAATATATATTTTAAA
1 GATAAAATATATATTTTAAA
339876 TTACAATAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
30 11 0.27
31 23 0.56
32 7 0.17
ACGTcount: A:0.54, C:0.01, G:0.06, T:0.39
Consensus pattern (29 bp):
GATAAAATATATATTTTAAAAGTTAAAAT
Found at i:339873 original size:30 final size:31
Alignment explanation
Indices: 339786--339884 Score: 98
Period size: 29 Copynumber: 3.3 Consensus size: 31
339776 ATATATTTAG
* *
339786 TAAATTAA-GATAAAATATATACTTTAAAAAGT
1 TAAAATAATGATAAAATATATA-TTT-TAAAGT
*
339818 TAAAATAATAATAAAATATAT-TTTTAAAGT
1 TAAAATAATGATAAAATATATATTTTAAAGT
* *
339848 TTAGAT-ATGATAAAATATATATTTTAAA-T
1 TAAAATAATGATAAAATATATATTTTAAAGT
*
339877 TACAATAA
1 TAAAATAA
339885 AAAGAAAATA
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
29 17 0.31
30 17 0.31
31 3 0.05
32 7 0.13
33 11 0.20
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (31 bp):
TAAAATAATGATAAAATATATATTTTAAAGT
Found at i:339961 original size:24 final size:25
Alignment explanation
Indices: 339905--339980 Score: 91
Period size: 25 Copynumber: 3.1 Consensus size: 25
339895 TTTTTAAAAT
*
339905 TAAGTTAATATTAAAATATATTTAA
1 TAAGTTAATATAAAAATATATTTAA
* *
339930 TAATTTAATATAAAAATATATTTTA
1 TAAGTTAATATAAAAATATATTTAA
* * *
339955 -AAGTTAATATATATATATATATAA
1 TAAGTTAATATAAAAATATATTTAA
339979 TA
1 TA
339981 TTATGAATTT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
24 19 0.45
25 23 0.55
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (25 bp):
TAAGTTAATATAAAAATATATTTAA
Found at i:340454 original size:31 final size:31
Alignment explanation
Indices: 340411--340493 Score: 105
Period size: 30 Copynumber: 2.7 Consensus size: 31
340401 GATGACCACG
* * * * *
340411 TCTTAATCAAATAAAAACGAAAGTGATCTTA
1 TCTTAATTAAATAAAAATGAAAGAGACCATA
340442 TCTTAATTAAAT-AAAATGAAAGAGACCATA
1 TCTTAATTAAATAAAAATGAAAGAGACCATA
*
340472 TATTAATTAAATAAAAATGAAA
1 TCTTAATTAAATAAAAATGAAA
340494 TCAATCATAT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 25 0.56
31 20 0.44
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.29
Consensus pattern (31 bp):
TCTTAATTAAATAAAAATGAAAGAGACCATA
Found at i:340503 original size:31 final size:30
Alignment explanation
Indices: 340413--340507 Score: 93
Period size: 31 Copynumber: 3.1 Consensus size: 30
340403 TGACCACGTC
* * * * *
340413 TTAATCAAATAAAAACGAAAGTGATCTTATC
1 TTAATTAAATAAAAATGAAA-TAATCATATA
* *
340444 TTAATTAAAT-AAAATGAAAGAGACCATATA
1 TTAATTAAATAAAAATGAAATA-ATCATATA
340474 TTAATTAAATAAAAATGAAATCAATCATATA
1 TTAATTAAATAAAAATGAAAT-AATCATATA
340505 TTA
1 TTA
340508 TGTTTTTTGA
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
30 23 0.44
31 28 0.54
32 1 0.02
ACGTcount: A:0.54, C:0.08, G:0.07, T:0.31
Consensus pattern (30 bp):
TTAATTAAATAAAAATGAAATAATCATATA
Found at i:342230 original size:99 final size:100
Alignment explanation
Indices: 342117--342358 Score: 396
Period size: 99 Copynumber: 2.4 Consensus size: 100
342107 ACAATTCCTA
* *
342117 GAATGAATGGCTGAGATCAAAAGATTCCTTTCTTAATCAATGGGTAGAATTATTTTCACATGGAT
1 GAATGAATGGCTGAGATCGAAAGATTCCTTTCTTTATCAATGGGTAGAATTATTTTCACATGGAT
342182 TGTGTTTT-TTGCAAGCACAATTCACAAGAATTGT
66 TGTGTTTTGTTGCAAGCACAATTCACAAGAATTGT
* *
342216 GAATGAATGGCTGAGATCGAAAGATTCATTTCTTTATCAATGGGTAGAATTGTTTTCACATGGAT
1 GAATGAATGGCTGAGATCGAAAGATTCCTTTCTTTATCAATGGGTAGAATTATTTTCACATGGAT
* *
342281 TGTGTTTTGTTGCAAGCACAATTCACATGGATTGT
66 TGTGTTTTGTTGCAAGCACAATTCACAAGAATTGT
* * *
342316 GAATGAACGCCTGAGATTGAAAGATTCCTTTCTTTATCAATGG
1 GAATGAATGGCTGAGATCGAAAGATTCCTTTCTTTATCAATGG
342359 TTGTAATCCA
Statistics
Matches: 132, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
99 69 0.52
100 63 0.48
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (100 bp):
GAATGAATGGCTGAGATCGAAAGATTCCTTTCTTTATCAATGGGTAGAATTATTTTCACATGGAT
TGTGTTTTGTTGCAAGCACAATTCACAAGAATTGT
Found at i:342374 original size:100 final size:98
Alignment explanation
Indices: 342117--342384 Score: 367
Period size: 100 Copynumber: 2.7 Consensus size: 98
342107 ACAATTCCTA
* * *
342117 GAATGAATGGCTGAGATCAAAAGATTCCTTTCTTAATCAATGGGTAGAATTATTTTCACATGGAT
1 GAATGAATGGCTGAGATCGAAAGATTCCTTTCTTTATCAATGGGTAGAATCA-TTTCACATGGAT
342182 TGTGTTTTTTGCAAGCACAATTCACAAGAATTGT
65 TGTGTTTTTTGCAAGCACAATTCACAAGAATTGT
* **
342216 GAATGAATGGCTGAGATCGAAAGATTCATTTCTTTATCAATGGGTAGAATTGTTTTCACATGGAT
1 GAATGAATGGCTGAGATCGAAAGATTCCTTTCTTTATCAATGGGTAGAA-TCATTTCACATGGAT
* *
342281 TGTGTTTTGTTGCAAGCACAATTCACATGGATTGT
65 TGTGTTTT-TTGCAAGCACAATTCACAAGAATTGT
* * * * *
342316 GAATGAACGCCTGAGATTGAAAGATTCCTTTCTTTATCAAT-GGTTGTAATCCAATTCACATGGA
1 GAATGAATGGCTGAGATCGAAAGATTCCTTTCTTTATCAATGGGTAG-AAT-CATTTCACATGGA
342380 TTGTG
64 TTGTG
342385 AATGAATGAC
Statistics
Matches: 150, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
99 71 0.47
100 79 0.53
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (98 bp):
GAATGAATGGCTGAGATCGAAAGATTCCTTTCTTTATCAATGGGTAGAATCATTTCACATGGATT
GTGTTTTTTGCAAGCACAATTCACAAGAATTGT
Found at i:342408 original size:68 final size:68
Alignment explanation
Indices: 342299--342452 Score: 263
Period size: 68 Copynumber: 2.3 Consensus size: 68
342289 GTTGCAAGCA
* ** *
342299 CAATTCACATGGATTGTGAATGAACGCCTGAGATTGAAAGATTCCTTTCTTTATCAATGGTTGTA
1 CAATTCACATGGATTGTGAATGAACGACTGAGATCAAAAGATTCATTTCTTTATCAATGGTTGTA
342364 ATC
66 ATC
*
342367 CAATTCACATGGATTGTGAATGAATGACTGAGATCAAAAGATTCATTTCTTTATCAATGGTTGTA
1 CAATTCACATGGATTGTGAATGAACGACTGAGATCAAAAGATTCATTTCTTTATCAATGGTTGTA
342432 ATC
66 ATC
342435 CAATTCACATGGATTGTG
1 CAATTCACATGGATTGTG
342453 TTTTCTTAAA
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 81 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (68 bp):
CAATTCACATGGATTGTGAATGAACGACTGAGATCAAAAGATTCATTTCTTTATCAATGGTTGTA
ATC
Found at i:362984 original size:20 final size:20
Alignment explanation
Indices: 362947--362984 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
362937 TAGTTGAAAA
**
362947 TCGCGTTGCGATTTTCTATT
1 TCGCGTTGCGATAGTCTATT
362967 TCGCGTTGCGATAGTCTA
1 TCGCGTTGCGATAGTCTA
362985 CAGTTGTCGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.21, G:0.24, T:0.42
Consensus pattern (20 bp):
TCGCGTTGCGATAGTCTATT
Found at i:363039 original size:20 final size:20
Alignment explanation
Indices: 363014--363121 Score: 63
Period size: 20 Copynumber: 5.3 Consensus size: 20
363004 TGAAATCGCG
363014 TTTCGCAATGCGATTTTCCA
1 TTTCGCAATGCGATTTTCCA
** * **
363034 TTTCGCGTTGCGATAGTTGAA
1 TTTCGCAATGCGAT-TTTCCA
**
363055 AATCGCAATGCGATTTTCCA
1 TTTCGCAATGCGATTTTCCA
** * **
363075 TTTCGCGTTGCGATAGTTGAA
1 TTTCGCAATGCGAT-TTTCCA
** *
363096 AATCGCAACGCGATTTTCCA
1 TTTCGCAATGCGATTTTCCA
363116 TTTCGC
1 TTTCGC
363122 GTTGCGATAG
Statistics
Matches: 57, Mismatches: 29, Indels: 4
0.63 0.32 0.04
Matches are distributed among these distances:
20 32 0.56
21 25 0.44
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.35
Consensus pattern (20 bp):
TTTCGCAATGCGATTTTCCA
Found at i:363066 original size:21 final size:21
Alignment explanation
Indices: 363042--363109 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
363032 CATTTCGCGT
363042 TGCGATAGTTGAAAATCGCAA
1 TGCGATAGTTGAAAATCGCAA
* ** ** **
363063 TGCGAT-TTTCCATTTCGCGT
1 TGCGATAGTTGAAAATCGCAA
363083 TGCGATAGTTGAAAATCGCAA
1 TGCGATAGTTGAAAATCGCAA
*
363104 CGCGAT
1 TGCGAT
363110 TTTCCATTTC
Statistics
Matches: 31, Mismatches: 15, Indels: 2
0.65 0.31 0.04
Matches are distributed among these distances:
20 13 0.42
21 18 0.58
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (21 bp):
TGCGATAGTTGAAAATCGCAA
Found at i:363073 original size:41 final size:41
Alignment explanation
Indices: 363016--363132 Score: 225
Period size: 41 Copynumber: 2.9 Consensus size: 41
363006 AAATCGCGTT
363016 TCGCAATGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
1 TCGCAATGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
363057 TCGCAATGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
1 TCGCAATGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
*
363098 TCGCAACGCGATTTTCCATTTCGCGTTGCGATAGT
1 TCGCAATGCGATTTTCCATTTCGCGTTGCGATAGT
363133 CTATAGTTGT
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
41 75 1.00
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.34
Consensus pattern (41 bp):
TCGCAATGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
Found at i:363914 original size:22 final size:22
Alignment explanation
Indices: 363887--363939 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
363877 AATTTGGAAA
* *
363887 ATCGCAACGACAACTGTAGATT
1 ATCGCAACGACAACTATAGACT
*
363909 ATCGCAACAACAACTATAGACT
1 ATCGCAACGACAACTATAGACT
363931 ATCGCAACG
1 ATCGCAACG
363940 CGTAATGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.40, C:0.26, G:0.15, T:0.19
Consensus pattern (22 bp):
ATCGCAACGACAACTATAGACT
Found at i:363956 original size:20 final size:20
Alignment explanation
Indices: 363931--364104 Score: 204
Period size: 20 Copynumber: 8.6 Consensus size: 20
363921 ACTATAGACT
*
363931 ATCGCAACGCGTAATGGAAA
1 ATCGCAACGCGAAATGGAAA
*
363951 ATCGCAACGCGAAATGTAAA
1 ATCGCAACGCGAAATGGAAA
363971 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
363991 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
364011 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
*
364032 ATCGCAACGCGAAATGAAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
364052 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
364073 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
*
364093 ATCGCAATGCGA
1 ATCGCAACGCGA
364105 TTTTCAACTA
Statistics
Matches: 128, Mismatches: 24, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
20 98 0.77
21 30 0.23
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:363979 original size:40 final size:41
Alignment explanation
Indices: 363931--364126 Score: 218
Period size: 41 Copynumber: 4.8 Consensus size: 41
363921 ACTATAGACT
* *
363931 ATCGCAACGCG-TAATGGAA-AATCGCAACGCGAAATGTAAA
1 ATCGCAACGCGAT-ATGCAACAATCGCAACGCGAAATGGAAA
* *
363971 ATCGCAACGCGAAATGGAA-AATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGATATGCAACAATCGCAACGCGAAATGGAAA
* * * *
364011 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGAAAA
1 ATCGCAACGCGATATGCAACAATCGCAACGCGAAATGGAAA
* * *
364052 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGATATGCAACAATCGCAACGCGAAATGGAAA
* * * * *
364093 ATCGCAATGCGATTTTCAACTATCTCAACGCGAA
1 ATCGCAACGCGATATGCAACAATCGCAACGCGAA
364127 TATGTGATAG
Statistics
Matches: 143, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
40 52 0.36
41 91 0.64
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.18
Consensus pattern (41 bp):
ATCGCAACGCGATATGCAACAATCGCAACGCGAAATGGAAA
Found at i:364037 original size:21 final size:21
Alignment explanation
Indices: 364011--364125 Score: 108
Period size: 21 Copynumber: 5.6 Consensus size: 21
364001 GAAATGGAAA
364011 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
** * **
364032 ATCGCAACGCGA-AATGAAAA
1 ATCGCAACGCGATTTTCAACT
364052 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
** ** *
364073 ATCGCAACGCGAAATGGAA-A
1 ATCGCAACGCGATTTTCAACT
*
364093 ATCGCAATGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
*
364114 ATCTCAACGCGA
1 ATCGCAACGCGA
364126 ATATGTGATA
Statistics
Matches: 69, Mismatches: 23, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
20 29 0.42
21 40 0.58
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.22
Consensus pattern (21 bp):
ATCGCAACGCGATTTTCAACT
Found at i:364046 original size:41 final size:41
Alignment explanation
Indices: 363951--364126 Score: 264
Period size: 41 Copynumber: 4.3 Consensus size: 41
363941 GTAATGGAAA
* ** ** *
363951 ATCGCAACGCGAAATGTAAAATCGCAACGCGAAATGGAA-A
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
363991 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
*
364032 ATCGCAACGCGAAATGAAAAATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
*
364073 ATCGCAACGCGAAATGGAAAATCGCAATGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
*
364114 ATCTCAACGCGAA
1 ATCGCAACGCGAA
364127 TATGTGATAG
Statistics
Matches: 125, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
40 34 0.27
41 91 0.73
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.18
Consensus pattern (41 bp):
ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
Found at i:364097 original size:61 final size:60
Alignment explanation
Indices: 363931--364104 Score: 195
Period size: 61 Copynumber: 2.9 Consensus size: 60
363921 ACTATAGACT
* * * *
363931 ATCGCAACGCGTAATGGAAAATCGCAACGCGAAATGTAAAATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGCAAAATCGCAACGCGAAATGCAAAATCGCAACGCGAAATGAAAA
* ** * *
363991 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGAAAA
1 ATCGCAACGCGAAATGCAAAATCGCAACGCGAAATGCAA-AATCGCAACGCGAAATGAAAA
** * * * *
364052 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAATCGCAATGCGA
1 ATCGCAACGCGAAATGCAA-AATCGCAACGCGAAATGCAAAATCGCAACGCGA
364105 TTTTCAACTA
Statistics
Matches: 94, Mismatches: 18, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
60 34 0.36
61 45 0.48
62 15 0.16
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.16
Consensus pattern (60 bp):
ATCGCAACGCGAAATGCAAAATCGCAACGCGAAATGCAAAATCGCAACGCGAAATGAAAA
Found at i:364923 original size:131 final size:131
Alignment explanation
Indices: 364781--365043 Score: 526
Period size: 131 Copynumber: 2.0 Consensus size: 131
364771 TAAAATTTTA
364781 TTTTTTTTCAAAAATCATAATTGATGTTTAGTTTTTATTTTATTTTGACACACCTTTAAAAACTT
1 TTTTTTTTCAAAAATCATAATTGATGTTTAGTTTTTATTTTATTTTGACACACCTTTAAAAACTT
364846 AACATTAAGTTTTGAAAAAAAATTTGAAAGCTTAGATATAAAATAGACCAAAATTGATAATCTAG
66 AACATTAAGTTTTGAAAAAAAATTTGAAAGCTTAGATATAAAATAGACCAAAATTGATAATCTAG
364911 G
131 G
364912 TTTTTTTTCAAAAATCATAATTGATGTTTAGTTTTTATTTTATTTTGACACACCTTTAAAAACTT
1 TTTTTTTTCAAAAATCATAATTGATGTTTAGTTTTTATTTTATTTTGACACACCTTTAAAAACTT
364977 AACATTAAGTTTTGAAAAAAAATTTGAAAGCTTAGATATAAAATAGACCAAAATTGATAATCTAG
66 AACATTAAGTTTTGAAAAAAAATTTGAAAGCTTAGATATAAAATAGACCAAAATTGATAATCTAG
365042 G
131 G
365043 T
1 T
365044 ACTAAATGCG
Statistics
Matches: 132, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
131 132 1.00
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.41
Consensus pattern (131 bp):
TTTTTTTTCAAAAATCATAATTGATGTTTAGTTTTTATTTTATTTTGACACACCTTTAAAAACTT
AACATTAAGTTTTGAAAAAAAATTTGAAAGCTTAGATATAAAATAGACCAAAATTGATAATCTAG
G
Found at i:366446 original size:3 final size:3
Alignment explanation
Indices: 366438--366464 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
366428 GTCCTTTATC
366438 TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA
366465 GATAACTTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:368158 original size:30 final size:30
Alignment explanation
Indices: 368106--368189 Score: 87
Period size: 30 Copynumber: 2.8 Consensus size: 30
368096 TTAAATTGTT
* * *
368106 TTCCAATTTGGTGCCCAACCTTTATCTCGG
1 TTCCAGTTTGATGTCCAACCTTTATCTCGG
* * * *
368136 TTCTAGTTTGATGTCTAACCTTTGTCTTGG
1 TTCCAGTTTGATGTCCAACCTTTATCTCGG
* *
368166 TTCCAGTTTGGTGTCCAAACTTTA
1 TTCCAGTTTGATGTCCAACCTTTA
368190 ATATTTATTT
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.43
Consensus pattern (30 bp):
TTCCAGTTTGATGTCCAACCTTTATCTCGG
Found at i:374801 original size:79 final size:79
Alignment explanation
Indices: 374670--374815 Score: 292
Period size: 79 Copynumber: 1.8 Consensus size: 79
374660 TAAAATACTA
374670 TTTGATAGCCATAAATGGAAATTAATCAAAGGTTGATGAATAATATATAAATATATATATATATA
1 TTTGATAGCCATAAATGGAAATTAATCAAAGGTTGATGAATAATATATAAATATATATATATATA
374735 TAATTAGAGATTTT
66 TAATTAGAGATTTT
374749 TTTGATAGCCATAAATGGAAATTAATCAAAGGTTGATGAATAATATATAAATATATATATATATA
1 TTTGATAGCCATAAATGGAAATTAATCAAAGGTTGATGAATAATATATAAATATATATATATATA
374814 TA
66 TA
374816 TATATAATTT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 67 1.00
ACGTcount: A:0.47, C:0.04, G:0.12, T:0.37
Consensus pattern (79 bp):
TTTGATAGCCATAAATGGAAATTAATCAAAGGTTGATGAATAATATATAAATATATATATATATA
TAATTAGAGATTTT
Found at i:374804 original size:2 final size:2
Alignment explanation
Indices: 374791--374821 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
374781 TTGATGAATA
*
374791 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
374822 ATTTAGAGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:376560 original size:14 final size:14
Alignment explanation
Indices: 376536--376589 Score: 53
Period size: 14 Copynumber: 4.0 Consensus size: 14
376526 TATAATTACA
*
376536 AATAAGGATAAAA-
1 AATAAGAATAAAAT
376549 AGATAAGAATAAAAT
1 A-ATAAGAATAAAAT
376564 AATAA-AAT-AAAT
1 AATAAGAATAAAAT
376576 AATAA-AATATAAAT
1 AATAAGAATA-AAAT
376590 TGTTTTAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
12 12 0.33
13 4 0.11
14 19 0.53
15 1 0.03
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.22
Consensus pattern (14 bp):
AATAAGAATAAAAT
Found at i:376577 original size:12 final size:12
Alignment explanation
Indices: 376560--376584 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
376550 GATAAGAATA
376560 AAATAATAAAAT
1 AAATAATAAAAT
376572 AAATAATAAAAT
1 AAATAATAAAAT
376584 A
1 A
376585 TAAATTGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAATAATAAAAT
Found at i:378654 original size:22 final size:22
Alignment explanation
Indices: 378624--378712 Score: 117
Period size: 22 Copynumber: 4.0 Consensus size: 22
378614 TCGACTGATG
*
378624 GTGCTGACTGGATATTCTAGAA
1 GTGCTGACTGGATCTTCTAGAA
*
378646 GCGCTGACTGGATCTTCTAGAA
1 GTGCTGACTGGATCTTCTAGAA
*
378668 GTGTTGACTGGA-CTTTCTAGAA
1 GTGCTGACTGGATC-TTCTAGAA
* *
378690 GTGTTGACTGGACCTTCTAGAA
1 GTGCTGACTGGATCTTCTAGAA
378712 G
1 G
378713 GTGTTGGCTT
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
21 1 0.02
22 59 0.97
23 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (22 bp):
GTGCTGACTGGATCTTCTAGAA
Found at i:378698 original size:44 final size:45
Alignment explanation
Indices: 378623--378718 Score: 133
Period size: 44 Copynumber: 2.2 Consensus size: 45
378613 CTCGACTGAT
* *
378623 GGTGCTGACTGGATATTCTAGAAGCGCTGACTGGATCTTCTAGAA
1 GGTGTTGACTGGATATTCTAGAAGCGCTGACTGGACCTTCTAGAA
* *
378668 -GTGTTGACTGGACT-TTCTAGAAGTGTTGACTGGACCTTCTAGAA
1 GGTGTTGACTGGA-TATTCTAGAAGCGCTGACTGGACCTTCTAGAA
378712 GGTGTTG
1 GGTGTTG
378719 GCTTCATCCC
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
44 38 0.84
45 7 0.16
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (45 bp):
GGTGTTGACTGGATATTCTAGAAGCGCTGACTGGACCTTCTAGAA
Found at i:379519 original size:27 final size:27
Alignment explanation
Indices: 379489--379553 Score: 85
Period size: 28 Copynumber: 2.4 Consensus size: 27
379479 CTTTTTTTTT
* *
379489 CATTTTTTTTCTGTTCAAAACAATGAA
1 CATTTTTTTTCCGTTCAAAACAATAAA
* *
379516 CATTTTGTTTGCCGTTCGAAACAATAAA
1 CATTTT-TTTTCCGTTCAAAACAATAAA
379544 CATTTTTTTT
1 CATTTTTTTT
379554 TTGACTTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 9 0.28
28 23 0.72
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.46
Consensus pattern (27 bp):
CATTTTTTTTCCGTTCAAAACAATAAA
Found at i:387101 original size:8 final size:8
Alignment explanation
Indices: 387090--387120 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
387080 ATAAAAAGAT
387090 AATAATAA
1 AATAATAA
387098 AATAATAA
1 AATAATAA
387106 AATAAT-A
1 AATAATAA
387113 AATAATAA
1 AATAATAA
387121 TTATAAGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
AATAATAA
Found at i:387126 original size:16 final size:16
Alignment explanation
Indices: 387090--387120 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
387080 ATAAAAAGAT
387090 AATAATAAAATAATAA
1 AATAATAAAATAATAA
387106 AATAAT-AAATAATAA
1 AATAATAAAATAATAA
387121 TTATAAGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AATAATAAAATAATAA
Found at i:388083 original size:94 final size:94
Alignment explanation
Indices: 387922--388111 Score: 380
Period size: 94 Copynumber: 2.0 Consensus size: 94
387912 ATGACTATGA
387922 GAACCTAGTCGCTGACATCATCGCCGAAGGGATGCAAATGTGCGAGGTGCTGTAAGCCAATATTC
1 GAACCTAGTCGCTGACATCATCGCCGAAGGGATGCAAATGTGCGAGGTGCTGTAAGCCAATATTC
387987 TCATTGAGAAGCTGCCCAAGTCCTGGTCT
66 TCATTGAGAAGCTGCCCAAGTCCTGGTCT
388016 GAACCTAGTCGCTGACATCATCGCCGAAGGGATGCAAATGTGCGAGGTGCTGTAAGCCAATATTC
1 GAACCTAGTCGCTGACATCATCGCCGAAGGGATGCAAATGTGCGAGGTGCTGTAAGCCAATATTC
388081 TCATTGAGAAGCTGCCCAAGTCCTGGTCT
66 TCATTGAGAAGCTGCCCAAGTCCTGGTCT
388110 GA
1 GA
388112 CTACCGCAAC
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 96 1.00
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (94 bp):
GAACCTAGTCGCTGACATCATCGCCGAAGGGATGCAAATGTGCGAGGTGCTGTAAGCCAATATTC
TCATTGAGAAGCTGCCCAAGTCCTGGTCT
Found at i:399491 original size:124 final size:125
Alignment explanation
Indices: 399271--399520 Score: 493
Period size: 124 Copynumber: 2.0 Consensus size: 125
399261 CTTCAACCAA
399271 ATTGCTTCTTTACTGGCTTGTGTAGCTACTACATATTCTGCATCTGTTGTGGACGTAGCCACAAC
1 ATTGCTTCTTTACTGGCTTGTGTAGCTACTACATATTCTGCATCTGTTGTGGACGTAGCCACAAC
399336 TGACTGCAATTTTGAAACCCAGCTTACAGCTCCACCAGTAACTTTG-ACACATATCCTGT
66 TGACTGCAATTTTGAAACCCAGCTTACAGCTCCACCAGTAACTTTGAACACATATCCTGT
399395 ATTGCTTCTTTACTGGCTTGTGTAGCTACTACATATTCTGCATCTGTTGTGGACGTAGCCACAAC
1 ATTGCTTCTTTACTGGCTTGTGTAGCTACTACATATTCTGCATCTGTTGTGGACGTAGCCACAAC
399460 TGACTGCAATTTTGAAACCCAGCTTACAGCTCCACCAGTAACTTTGAACACATATCCTGT
66 TGACTGCAATTTTGAAACCCAGCTTACAGCTCCACCAGTAACTTTGAACACATATCCTGT
399520 A
1 A
399521 GTAGATTTGC
Statistics
Matches: 125, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
124 111 0.89
125 14 0.11
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.33
Consensus pattern (125 bp):
ATTGCTTCTTTACTGGCTTGTGTAGCTACTACATATTCTGCATCTGTTGTGGACGTAGCCACAAC
TGACTGCAATTTTGAAACCCAGCTTACAGCTCCACCAGTAACTTTGAACACATATCCTGT
Found at i:404211 original size:22 final size:23
Alignment explanation
Indices: 404160--404212 Score: 54
Period size: 22 Copynumber: 2.2 Consensus size: 23
404150 ATAAGAATAA
404160 AATATATATTTCTAAATAAAAAAT
1 AATA-ATATTTCTAAATAAAAAAT
* *
404184 AA-AATATTTTTAAATTAAATTAAT
1 AATAATATTTCTAAA-TAAA-AAAT
404208 AATAA
1 AATAA
404213 AATATATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
22 10 0.42
23 5 0.21
24 7 0.29
25 2 0.08
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
AATAATATTTCTAAATAAAAAAT
Found at i:404211 original size:27 final size:27
Alignment explanation
Indices: 404172--404223 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
404162 TATATATTTC
*
404172 TAAATAAAAAATAAAATATTTTTAAAT
1 TAAATAAAAAATAAAATATATTTAAAT
* *
404199 TAAATTAATAATAAAATATATTTAA
1 TAAATAAAAAATAAAATATATTTAA
404224 TAAGTTAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (27 bp):
TAAATAAAAAATAAAATATATTTAAAT
Found at i:405836 original size:132 final size:132
Alignment explanation
Indices: 405644--406122 Score: 649
Period size: 132 Copynumber: 3.6 Consensus size: 132
405634 CACCGGTAAA
* * *
405644 GCTTCTGAATATACAGATTATGCAGC-C-GACAGAGCTAAGGACGCAAAGGATGCTACAATGGAA
1 GCTTCAGAATATACAGATTATGCAGCACAGA-A-AGCTAAGGATGCAAAGGATGCTACAATGGAG
* * *
405707 AAAGCTACTGAATATAAGGATTATACAGCTGAGAAAGCCAAGCAGCCAAAAGATACCACAGGGAA
64 AAAGCCACTGAATATAAGGATTATACAGCTGAGAAAGCCAAGCAGACAAAAGATACCACAGGGCA
405772 AAAG
129 AAAG
* *
405776 GCTTCAGAGTATACAGATTATGCAGCACAGAAAGCTAAGGATGCCAAGGATGCTACAATGGAGAA
1 GCTTCAGAATATACAGATTATGCAGCACAGAAAGCTAAGGATGCAAAGGATGCTACAATGGAGAA
* * * *
405841 AGCCACTGAATATAAGGATTATACAGCTGAGAAAGCCAATCAGGCAAGAGACACCACAGGGCAAA
66 AGCCACTGAATATAAGGATTATACAGCTGAGAAAGCCAAGCAGACAAAAGATACCACAGGGCAAA
405906 AG
131 AG
* * * * * *
405908 GCTTCCGAATATGCGGATCATGCAGCACAGAAAGCTAAGAATGCCAAGGATGCTACAATGGAGAA
1 GCTTCAGAATATACAGATTATGCAGCACAGAAAGCTAAGGATGCAAAGGATGCTACAATGGAGAA
* * * * * * *
405973 GGCCAC-CAAGTATAAGGACTATGCCGCCGAGAAAGCCAAGCAGACAAAAGATACCACTGGGCAA
66 AGCCACTGAA-TATAAGGATTATACAGCTGAGAAAGCCAAGCAGACAAAAGATACCACAGGGCAA
406037 AAG
130 AAG
* *
406040 GCTTCAGAATATACAGATTATGCAGCACAGAAAGCTAGGGATGCAAAGGATTCTACAATGGAGAA
1 GCTTCAGAATATACAGATTATGCAGCACAGAAAGCTAAGGATGCAAAGGATGCTACAATGGAGAA
* *
406105 GGCGACTGAATATAAGGA
66 AGCCACTGAATATAAGGA
406123 CTATGCGGCG
Statistics
Matches: 305, Mismatches: 38, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
131 2 0.01
132 297 0.97
133 4 0.01
134 2 0.01
ACGTcount: A:0.41, C:0.19, G:0.25, T:0.15
Consensus pattern (132 bp):
GCTTCAGAATATACAGATTATGCAGCACAGAAAGCTAAGGATGCAAAGGATGCTACAATGGAGAA
AGCCACTGAATATAAGGATTATACAGCTGAGAAAGCCAAGCAGACAAAAGATACCACAGGGCAAA
AG
Found at i:406116 original size:66 final size:66
Alignment explanation
Indices: 405648--406118 Score: 252
Period size: 66 Copynumber: 7.1 Consensus size: 66
405638 GGTAAAGCTT
* * * *
405648 CTGAATATACAGATTATGCAGC-C-GACAGAGCTAAGGACGCAAAGGATGCTACAATGGAAAAAG
1 CTGAATATACAGATTATGCAGCACAGA-A-AGCTAAGCATGCAAAGGATACTACAATGGAAAAGG
405711 CTA
64 CTA
* ** * * * *
405714 CTGAATATA-AGGATTATACAGCTGAGAAAGCCAAGCA-GCCAAAAGATACCAC-AGGGAAAAAG
1 CTGAATATACA-GATTATGCAGCACAGAAAGCTAAGCATG-CAAAGGATACTACAATGG-AAAAG
*
405776 GCTT
63 GCTA
* * * * *
405780 CAGAGTATACAGATTATGCAGCACAGAAAGCTAAGGATGCCAAGGATGCTACAATGGAGAAA-GC
1 CTGAATATACAGATTATGCAGCACAGAAAGCTAAGCATGCAAAGGATACTACAATGGA-AAAGGC
*
405844 CA
65 TA
* ** * * * * * *
405846 CTGAATATA-AGGATTATACAGCTGAGAAAGCCAATCAGGC-AAGAGACACCAC-AGGGCAAAAG
1 CTGAATATACA-GATTATGCAGCACAGAAAGCTAAGCATGCAAAG-GATACTACAATGG-AAAAG
*
405908 GCTT
63 GCTA
* * * * * * * * *
405912 CCGAATATGCGGATCATGCAGCACAGAAAGCTAAGAATGCCAAGGATGCTACAATGGAGAAGGCC
1 CTGAATATACAGATTATGCAGCACAGAAAGCTAAGCATGCAAAGGATACTACAATGGAAAAGGCT
405977 A
66 A
* * * * * *
405978 C-CAAGTATA-AGGACTATGCCGC-CGAGAAAGCCAAGCA-GACAAAAGATAC--CACTGGGCAA
1 CTGAA-TATACA-GATTATGCAGCAC-AGAAAGCTAAGCATG-CAAAGGATACTACAAT-GG-AA
*
406037 AAGGCTT
60 AAGGCTA
* * * * * *
406044 CAGAATATACAGATTATGCAGCACAGAAAGCTAGGGATGCAAAGGATTCTACAATGGAGAAGGCG
1 CTGAATATACAGATTATGCAGCACAGAAAGCTAAGCATGCAAAGGATACTACAATGGAAAAGGCT
406109 A
66 A
406110 CTGAATATA
1 CTGAATATA
406119 AGGACTATGC
Statistics
Matches: 292, Mismatches: 85, Indels: 56
0.67 0.20 0.13
Matches are distributed among these distances:
64 3 0.01
65 21 0.07
66 241 0.83
67 22 0.08
68 5 0.02
ACGTcount: A:0.41, C:0.19, G:0.25, T:0.15
Consensus pattern (66 bp):
CTGAATATACAGATTATGCAGCACAGAAAGCTAAGCATGCAAAGGATACTACAATGGAAAAGGCT
A
Found at i:407948 original size:22 final size:23
Alignment explanation
Indices: 407914--407962 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
407904 AAAATAAAAT
407914 AAAACAAACAAAAAGG-ATGTTA
1 AAAACAAACAAAAAGGAATGTTA
* * *
407936 AAAATAAATAAAAAGGAATTTTA
1 AAAACAAACAAAAAGGAATGTTA
407959 AAAA
1 AAAA
407963 ATTAAAAGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.67, C:0.04, G:0.10, T:0.18
Consensus pattern (23 bp):
AAAACAAACAAAAAGGAATGTTA
Found at i:408093 original size:18 final size:19
Alignment explanation
Indices: 408053--408093 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
408043 TCAAATTAGT
**
408053 GTGAAATAATAATGTAAAA
1 GTGAAATAATAATAAAAAA
408072 -TGAAATAA-AATAAAAAA
1 GTGAAATAATAATAAAAAA
408089 GTGAA
1 GTGAA
408094 TGAACGAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.63, C:0.00, G:0.15, T:0.22
Consensus pattern (19 bp):
GTGAAATAATAATAAAAAA
Found at i:409374 original size:18 final size:18
Alignment explanation
Indices: 409351--409389 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
409341 ATTAGACCTG
409351 AAATAAAA-ATAAATAAAT
1 AAATAAAATAT-AATAAAT
*
409369 AAATAATATATAATAAAT
1 AAATAAAATATAATAAAT
409387 AAA
1 AAA
409390 AAGAAAGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
AAATAAAATATAATAAAT
Found at i:409452 original size:21 final size:22
Alignment explanation
Indices: 409426--409479 Score: 83
Period size: 21 Copynumber: 2.5 Consensus size: 22
409416 TATATGTATT
409426 AAAACTATATAATATA-TTTCA
1 AAAACTATATAATATATTTTCA
409447 AAAACTATATAATATATTTTCA
1 AAAACTATATAATATATTTTCA
* *
409469 AAGATTATATA
1 AAAACTATATA
409480 TATTATATAC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 16 0.53
22 14 0.47
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (22 bp):
AAAACTATATAATATATTTTCA
Found at i:409482 original size:21 final size:22
Alignment explanation
Indices: 409426--409487 Score: 74
Period size: 21 Copynumber: 2.8 Consensus size: 22
409416 TATATGTATT
409426 AAAACTATATA-ATATATTTCA
1 AAAACTATATATATATATTTCA
409447 AAAACTATATA-ATATATTTTCA
1 AAAACTATATATATATA-TTTCA
* *
409469 AAGATTATATATATTATAT
1 AAAACTATATATA-TATAT
409488 ACGTTTTCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.44
22 14 0.39
23 2 0.06
24 4 0.11
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (22 bp):
AAAACTATATATATATATTTCA
Found at i:409610 original size:24 final size:24
Alignment explanation
Indices: 409538--409599 Score: 124
Period size: 24 Copynumber: 2.6 Consensus size: 24
409528 TTTCAAAATA
409538 ATATGTTTTCAAAAACTATATTAT
1 ATATGTTTTCAAAAACTATATTAT
409562 ATATGTTTTCAAAAACTATATTAT
1 ATATGTTTTCAAAAACTATATTAT
409586 ATATGTTTTCAAAA
1 ATATGTTTTCAAAA
409600 CCATTTTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (24 bp):
ATATGTTTTCAAAAACTATATTAT
Found at i:409625 original size:39 final size:38
Alignment explanation
Indices: 409573--409713 Score: 146
Period size: 37 Copynumber: 3.7 Consensus size: 38
409563 TATGTTTTCA
*
409573 AAAACTATAT-TATATATGTTTTCAAAACCATTTTTAT
1 AAAACAATATATATATATGTTTTCAAAACCATTTTTAT
** ** *
409610 AAAACAATATAT-TATATGTTTTCAAAAATATGCATTAA
1 AAAACAATATATATATATGTTTTCAAAACCAT-TTTTAT
*
409648 AAAACAATAT-TATATATGTTTTCAAAAACCGTTTTT-T
1 AAAACAATATATATATATGTTTTC-AAAACCATTTTTAT
* *
409685 AAAAGACTATATATTATATGTTTTCAAAA
1 AAAACAATATATA-TATATGTTTTCAAAA
409714 ATATGTTTTC
Statistics
Matches: 84, Mismatches: 14, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
37 35 0.42
38 33 0.39
39 16 0.19
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (38 bp):
AAAACAATATATATATATGTTTTCAAAACCATTTTTAT
Found at i:409714 original size:39 final size:37
Alignment explanation
Indices: 409567--409714 Score: 140
Period size: 38 Copynumber: 3.9 Consensus size: 37
409557 ATTATATATG
* * *
409567 TTTTCAAAAACTATATTATATATGTTTTC-AAAACCA
1 TTTTTAAAAACAATATTATATATGTTTTCAAAAACCT
**
409603 TTTTTATAAAACAATA-TATTATATGTTTTCAAAAATAT
1 TTTTTA-AAAACAATATTA-TATATGTTTTCAAAAACCT
** *
409641 GCATTAAAAAACAATATTATATATGTTTTCAAAAACCGT
1 -TTTTTAAAAACAATATTATATATGTTTTCAAAAACC-T
*
409680 TTTTTAAAAGACTATA-TATTATATGTTTTCAAAAA
1 TTTTTAAAA-ACAATATTA-TATATGTTTTCAAAAA
409715 TATGTTTTCA
Statistics
Matches: 90, Mismatches: 14, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
36 7 0.08
37 19 0.21
38 37 0.41
39 27 0.30
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.42
Consensus pattern (37 bp):
TTTTTAAAAACAATATTATATATGTTTTCAAAAACCT
Found at i:409719 original size:14 final size:14
Alignment explanation
Indices: 409700--409728 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
409690 ACTATATATT
409700 ATATGTTTTCAAAA
1 ATATGTTTTCAAAA
409714 ATATGTTTTCAAAA
1 ATATGTTTTCAAAA
409728 A
1 A
409729 CTATACTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (14 bp):
ATATGTTTTCAAAA
Found at i:409728 original size:77 final size:75
Alignment explanation
Indices: 409562--409739 Score: 259
Period size: 77 Copynumber: 2.3 Consensus size: 75
409552 ACTATATTAT
409562 ATATGTTTTCAAAAACTATATTATATATGTTTTCAAAACCATTTTTATAAAACAATATATTATAT
1 ATATGTTTTCAAAAACTATATTATATATGTTTTCAAAACCATTTTTATAAAACAATATATTATAT
409627 GTTTTCAAAA
66 GTTTTCAAAA
** * * * *
409637 ATATGCATTAAAAAACAATATTATATATGTTTTCAAAAACCGTTTTT-TAAAAGACTATATATTA
1 ATATGTTTTCAAAAACTATATTATATATGTTTTC-AAAACCATTTTTAT-AAA-ACAATATATTA
409701 TATGTTTTCAAAA
63 TATGTTTTCAAAA
*
409714 ATATGTTTTCAAAAACTATACTATAT
1 ATATGTTTTCAAAAACTATATTATAT
409740 CTTCAAAAAC
Statistics
Matches: 89, Mismatches: 11, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
75 31 0.35
76 14 0.16
77 44 0.49
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.42
Consensus pattern (75 bp):
ATATGTTTTCAAAAACTATATTATATATGTTTTCAAAACCATTTTTATAAAACAATATATTATAT
GTTTTCAAAA
Found at i:412190 original size:24 final size:24
Alignment explanation
Indices: 412162--412225 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
412152 CATCGATGCA
*
412162 TAAGGAGTGCATCGATGCACACGT
1 TAAGGAGTGCATCGATGCACACGG
*
412186 TAAGG-GATGCATTGAT--ACACGG
1 TAAGGAG-TGCATCGATGCACACGG
412208 T-AGGA-TGCATCGATGCAC
1 TAAGGAGTGCATCGATGCAC
412226 TTCAAGGGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
20 8 0.24
21 3 0.09
22 8 0.24
23 1 0.03
24 13 0.39
ACGTcount: A:0.30, C:0.19, G:0.30, T:0.22
Consensus pattern (24 bp):
TAAGGAGTGCATCGATGCACACGG
Found at i:418723 original size:13 final size:13
Alignment explanation
Indices: 418707--418740 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
418697 GATACAAATA
*
418707 AAAAAATGGAAAG
1 AAAAAATGAAAAG
418720 AAAAAATGAAAAG
1 AAAAAATGAAAAG
418733 AAATAAAT
1 AAA-AAAT
418741 TAGTAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.12
Consensus pattern (13 bp):
AAAAAATGAAAAG
Found at i:420296 original size:21 final size:21
Alignment explanation
Indices: 420272--420319 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 21
420262 AAAGACCATA
*
420272 TAGATATCCTGAATGACCGCG
1 TAGATATCCCGAATGACCGCG
*
420293 TAGAAATGTCCCGAATGACCGCG
1 TAG--ATATCCCGAATGACCGCG
420316 TAGA
1 TAGA
420320 ACCCTTAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 4 0.17
23 19 0.83
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.21
Consensus pattern (21 bp):
TAGATATCCCGAATGACCGCG
Found at i:422463 original size:14 final size:15
Alignment explanation
Indices: 422441--422479 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
422431 TTTCAATCAA
*
422441 AATTAACTCAGCA-C
1 AATTTACTCAGCAGC
422455 AATTTACTCAGCAGC
1 AATTTACTCAGCAGC
422470 AATTTACTCA
1 AATTTACTCA
422480 ACTTATCAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.38, C:0.26, G:0.08, T:0.28
Consensus pattern (15 bp):
AATTTACTCAGCAGC
Found at i:425299 original size:23 final size:22
Alignment explanation
Indices: 425265--425307 Score: 52
Period size: 23 Copynumber: 1.9 Consensus size: 22
425255 AATTAGTGTG
425265 AAATAATAATGTAAAATGAAATA
1 AAATAATAATGT-AAATGAAATA
*
425288 AAATAA-ATATGTGAATGAAA
1 AAATAATA-ATGTAAATGAAA
425308 GAATTAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.63, C:0.00, G:0.12, T:0.26
Consensus pattern (22 bp):
AAATAATAATGTAAATGAAATA
Found at i:426665 original size:22 final size:21
Alignment explanation
Indices: 426618--426666 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
426608 AACTATATAA
426618 TATATAATATATTTCAAAAAC
1 TATATAATATATTTCAAAAAC
* * *
426639 AATATAATATATTTTCAAAGAT
1 TATATAATATA-TTTCAAAAAC
426661 TATATA
1 TATATA
426667 TATTATATAC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.41
Consensus pattern (21 bp):
TATATAATATATTTCAAAAAC
Found at i:426790 original size:76 final size:76
Alignment explanation
Indices: 426677--426895 Score: 252
Period size: 76 Copynumber: 2.9 Consensus size: 76
426667 TATTATATAC
* * * *
426677 GTTTTCAAAAACCTTTTTTCAAA-ACTATAAATT-TATGTTTTCAAAATAATGTGTTTTCAAAAA
1 GTTTTCAAAATCCATTTTTAAAATACTATATATTATATGTTTTCAAAA-AAT-TGTTTTCAAAAA
426740 CTATATTAAACAT
64 CTATATTAAACAT
** *
426753 GTTTTC-AAATCCATTTTT-TTATACTATATATTATATGTTTTC-AAAAATATATTTTCAAAAAC
1 GTTTTCAAAATCCATTTTTAAAATACTATATATTATATGTTTTCAAAAAAT-TGTTTTCAAAAAC
* *
426815 TATATTATATAT
65 TATATTAAACAT
** *
426827 GTTTTCAAAAATCGGTTTTTAAAATACTATATATTATATGTTTTCAAAACA-TGTTTTCAAAAAC
1 GTTTTC-AAAATCCATTTTTAAAATACTATATATTATATGTTTTCAAAAAATTGTTTTCAAAAAC
426891 TATAT
65 TATAT
426896 ATATTATATA
Statistics
Matches: 122, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
74 32 0.26
75 22 0.18
76 42 0.34
77 22 0.18
78 4 0.03
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (76 bp):
GTTTTCAAAATCCATTTTTAAAATACTATATATTATATGTTTTCAAAAAATTGTTTTCAAAAACT
ATATTAAACAT
Found at i:426818 original size:15 final size:14
Alignment explanation
Indices: 426785--426820 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
426775 ACTATATATT
*
426785 ATATGTTTTCAAAA
1 ATATATTTTCAAAA
426799 ATATATTTTCAAAA
1 ATATATTTTCAAAA
426813 ACTATATT
1 A-TATATT
426821 ATATATGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.44
Consensus pattern (14 bp):
ATATATTTTCAAAA
Found at i:426867 original size:39 final size:38
Alignment explanation
Indices: 426663--426897 Score: 182
Period size: 38 Copynumber: 6.2 Consensus size: 38
426653 TCAAAGATTA
*
426663 TATATATTATATACGTTTTCAAAAA-CCTTTTTTC-AAAAC
1 TATATATTATAT--GTTTTCAAAAATCC-GTTTTCAAAAAC
* **
426702 TATAAATT-TATGTTTTCAAAATAATGTGTTTTCAAAAAC
1 TATATATTATATGTTTTC-AAA-AATCCGTTTTCAAAAAC
* * * *** *
426741 TATAT-TAAACATGTTTTC--AAATCCATTTTTTTATAC
1 TATATAT-TATATGTTTTCAAAAATCCGTTTTCAAAAAC
***
426777 TATATATTATATGTTTTCAAAAATATATTTTCAAAAAC
1 TATATATTATATGTTTTCAAAAATCCGTTTTCAAAAAC
* *
426815 TATAT-TATATATGTTTTCAAAAATCGGTTTTTAAAATAC
1 TATATAT-TATATGTTTTCAAAAATCCGTTTTCAAAA-AC
426854 TATATATTATATGTTTTCAAAACAT--GTTTTCAAAAAC
1 TATATATTATATGTTTTCAAAA-ATCCGTTTTCAAAAAC
426891 TATATAT
1 TATATAT
426898 ATTATATATT
Statistics
Matches: 156, Mismatches: 27, Indels: 28
0.74 0.13 0.13
Matches are distributed among these distances:
36 30 0.19
37 15 0.10
38 62 0.40
39 38 0.24
40 11 0.07
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.46
Consensus pattern (38 bp):
TATATATTATATGTTTTCAAAAATCCGTTTTCAAAAAC
Found at i:426882 original size:13 final size:13
Alignment explanation
Indices: 426864--426888 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
426854 TATATATTAT
426864 ATGTTTTCAAAAC
1 ATGTTTTCAAAAC
426877 ATGTTTTCAAAA
1 ATGTTTTCAAAA
426889 ACTATATATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (13 bp):
ATGTTTTCAAAAC
Found at i:426898 original size:39 final size:39
Alignment explanation
Indices: 426650--426909 Score: 181
Period size: 39 Copynumber: 6.8 Consensus size: 39
426640 ATATAATATA
* * * *
426650 TTTTCAAAGATTATATATATTATATACGTTTTCAAAAACCTT
1 TTTTCAAAAACTATATATATTATAT--GTTTTC-AAAACATG
*
426692 TTTTC-AAAACTATA-A-ATT-TATGTTTTCAAAATAATGTG
1 TTTTCAAAAACTATATATATTATATGTTTTCAAAA-CA--TG
* * *
426730 TTTTCAAAAACTATAT-TA-AACATGTTTTCAAATCCAT-
1 TTTTCAAAAACTATATATATTATATGTTTTCAAA-ACATG
** * * *
426767 TTTT-TTATAC--TATATATTATATGTTTTCAAAAATATA
1 TTTTCAAAAACTATATATATTATATGTTTTC-AAAACATG
426804 TTTTCAAAAACTATAT-TA-TATATGTTTTCAAAA-ATCGG
1 TTTTCAAAAACTATATATATTATATGTTTTCAAAACAT--G
*
426842 TTTT-TAAAA-TACTATATATTATATGTTTTCAAAACATG
1 TTTTCAAAAACTA-TATATATTATATGTTTTCAAAACATG
*
426880 TTTTCAAAAACTATATATATTATATATTTT
1 TTTTCAAAAACTATATATATTATATGTTTT
426910 TTAAATTATT
Statistics
Matches: 172, Mismatches: 23, Indels: 49
0.70 0.09 0.20
Matches are distributed among these distances:
34 3 0.02
35 6 0.03
36 24 0.14
37 22 0.13
38 35 0.20
39 49 0.28
40 21 0.12
41 7 0.04
42 5 0.03
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.47
Consensus pattern (39 bp):
TTTTCAAAAACTATATATATTATATGTTTTCAAAACATG
Found at i:427635 original size:42 final size:42
Alignment explanation
Indices: 427564--427683 Score: 134
Period size: 42 Copynumber: 2.8 Consensus size: 42
427554 GCTAAAGTTC
*
427564 GCGGCGTTTGTTAACGAAAAACGCCGCAATAGGTGACGATATATA
1 GCGGCGTTTGTT-A--AAAAATGCCGCAATAGGTGACGATATATA
** * *
427609 GCGGCGTTTGTTGAAAAAATG-CGCAATAGGTGTTGCTATTTA
1 GCGGCGTTTGTT-AAAAAATGCCGCAATAGGTGACGATATATA
*
427651 GCGGCGTTTGTCTTAAAAATGCCGCAATAGGTG
1 GCGGCGTTTGT-TAAAAAATGCCGCAATAGGTG
427684 TTGTCGTTTA
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
42 35 0.53
43 18 0.27
45 13 0.20
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (42 bp):
GCGGCGTTTGTTAAAAAATGCCGCAATAGGTGACGATATATA
Found at i:427683 original size:43 final size:43
Alignment explanation
Indices: 427580--427787 Score: 213
Period size: 42 Copynumber: 4.9 Consensus size: 43
427570 TTTGTTAACG
* ** * * * ***
427580 AAAAACGCCGCAATAGGTGACGATATATAGCGGCGTTTGTTGA
1 AAAAATGCCGCAATAGGTGTTGTTGTTTAGCGGCGTTTGTCCC
* * **
427623 AAAAATG-CGCAATAGGTGTTGCTATTTAGCGGCGTTTGTCTT
1 AAAAATGCCGCAATAGGTGTTGTTGTTTAGCGGCGTTTGTCCC
* * *
427665 AAAAATGCCGCAATAGGTGTTGTCGTTTAGCGGCATTTTTCCC
1 AAAAATGCCGCAATAGGTGTTGTTGTTTAGCGGCGTTTGTCCC
* * * * *
427708 CAAAACGCCGCAGTAGGTATCGTTGTTTAGCGGCGTTT-TCCC
1 AAAAATGCCGCAATAGGTGTTGTTGTTTAGCGGCGTTTGTCCC
427750 AAAAATGCCGCAATAGGTGTTGTTGTTTAGCGGCGTTT
1 AAAAATGCCGCAATAGGTGTTGTTGTTTAGCGGCGTTT
427788 TTCAAACAAG
Statistics
Matches: 137, Mismatches: 27, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
42 72 0.53
43 65 0.47
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
AAAAATGCCGCAATAGGTGTTGTTGTTTAGCGGCGTTTGTCCC
Found at i:427760 original size:42 final size:42
Alignment explanation
Indices: 427623--427788 Score: 208
Period size: 43 Copynumber: 3.9 Consensus size: 42
427613 CGTTTGTTGA
* * **
427623 AAAAATG-CGCAATAGGTGTTGCTATTTAGCGGCGTTTGTCTT
1 AAAAATGCCGCAATAGGTGTTGTTGTTTAGCGGCGTTT-TCCC
* *
427665 AAAAATGCCGCAATAGGTGTTGTCGTTTAGCGGCATTTTTCCC
1 AAAAATGCCGCAATAGGTGTTGTTGTTTAGCGGC-GTTTTCCC
* * * * *
427708 CAAAACGCCGCAGTAGGTATCGTTGTTTAGCGGCGTTTTCCC
1 AAAAATGCCGCAATAGGTGTTGTTGTTTAGCGGCGTTTTCCC
427750 AAAAATGCCGCAATAGGTGTTGTTGTTTAGCGGCGTTTT
1 AAAAATGCCGCAATAGGTGTTGTTGTTTAGCGGCGTTTT
427789 TCAAACAAGC
Statistics
Matches: 104, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
42 48 0.46
43 53 0.51
44 3 0.03
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (42 bp):
AAAAATGCCGCAATAGGTGTTGTTGTTTAGCGGCGTTTTCCC
Found at i:427802 original size:85 final size:85
Alignment explanation
Indices: 427647--427804 Score: 230
Period size: 85 Copynumber: 1.8 Consensus size: 85
427637 GGTGTTGCTA
** *
427647 TTTAGCGGCGTTTGTCTTAAAAATGCCGCAATAGGTGTTGTCGTTTAGCGGCATTTTTCCCCAAA
1 TTTAGCGGCGTTTGTCCCAAAAATGCCGCAATAGGTGTTGTCGTTTAGCGGCATTTTT-CCAAAA
427712 ACGCCGCAGTAGGTATCGTTG
65 ACGCCGCAGTAGGTATCGTTG
* *
427733 TTTAGCGGCGTTT-TCCCAAAAATGCCGCAATAGGTGTTGTTGTTTAGCGGCGTTTTT-CAAACA
1 TTTAGCGGCGTTTGTCCCAAAAATGCCGCAATAGGTGTTGTCGTTTAGCGGCATTTTTCCAAA-A
427796 AGCGCCGCA
65 A-CGCCGCA
427805 ATAAGCATTG
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
83 3 0.05
84 2 0.03
85 47 0.72
86 13 0.20
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.32
Consensus pattern (85 bp):
TTTAGCGGCGTTTGTCCCAAAAATGCCGCAATAGGTGTTGTCGTTTAGCGGCATTTTTCCAAAAA
CGCCGCAGTAGGTATCGTTG
Found at i:427822 original size:85 final size:85
Alignment explanation
Indices: 427646--427831 Score: 225
Period size: 85 Copynumber: 2.2 Consensus size: 85
427636 AGGTGTTGCT
** *
427646 ATTTAGCGGCGTTTGTCTTAAAAATGCCGCAATAGGTGTTGTCGTTTAGCGGCATTTTTCCCCAA
1 ATTTAGCGGCGTTT-TCCCAAAAATGCCGCAATAGGTGTTGTCGTTTAGCGGCATTTTT-CCAAA
* * * *
427711 AACGCCGCAGTAGGTATCGTTG
64 AACGCCGCAATAAGCATCGTAG
* *
427733 -TTTAGCGGCGTTTTCCCAAAAATGCCGCAATAGGTGTTGTTGTTTAGCGGCGTTTTT-CAAACA
1 ATTTAGCGGCGTTTTCCCAAAAATGCCGCAATAGGTGTTGTCGTTTAGCGGCATTTTTCCAAA-A
*
427796 AGCGCCGCAATAAGCATTG-AG
65 A-CGCCGCAATAAGCATCGTAG
427817 ATTTAGCGGCGTTTT
1 ATTTAGCGGCGTTTT
427832 AAAACGCCGC
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
83 3 0.03
84 3 0.03
85 67 0.78
86 13 0.15
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (85 bp):
ATTTAGCGGCGTTTTCCCAAAAATGCCGCAATAGGTGTTGTCGTTTAGCGGCATTTTTCCAAAAA
CGCCGCAATAAGCATCGTAG
Found at i:429630 original size:22 final size:22
Alignment explanation
Indices: 429602--429648 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
429592 TTTACAAAAA
429602 AAGTAAACATTCAAGGATCAAG
1 AAGTAAACATTCAAGGATCAAG
429624 AAGTAAACATTCAAGGATCAAG
1 AAGTAAACATTCAAGGATCAAG
429646 AAG
1 AAG
429649 GCTTTACAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.51, C:0.13, G:0.19, T:0.17
Consensus pattern (22 bp):
AAGTAAACATTCAAGGATCAAG
Found at i:433728 original size:41 final size:41
Alignment explanation
Indices: 433683--434025 Score: 289
Period size: 41 Copynumber: 8.4 Consensus size: 41
433673 CGTTTATTCA
* * *
433683 AAAAAAGCCACTAAAGTACGGGTCTTTGGCGACATTTGTAT
1 AAAAACGCCACTAAAGTACGGGTCTTTGGCGGCGTTTGTAT
*
433724 AAAAACGCCACGAAAGTACGGGTCTTTGGCGGCGTTTGTAT
1 AAAAACGCCACTAAAGTACGGGTCTTTGGCGGCGTTTGTAT
* *
433765 AAAAATGCCACGAAAGTACGGGTCTTTGGCGGCGTTTGTAT
1 AAAAACGCCACTAAAGTACGGGTCTTTGGCGGCGTTTGTAT
* * ** * **
433806 AGAAACGCCACTAAAGAACAAGTATTTACCGGCGTTTGTAT
1 AAAAACGCCACTAAAGTACGGGTCTTTGGCGGCGTTTGTAT
* * *
433847 AAAAACGCCACTACAA-TACGGGTATTTAGCGGCGTTTGTTT
1 AAAAACGCCACTA-AAGTACGGGTCTTTGGCGGCGTTTGTAT
* * * ** * *
433888 AGAAACACCACTAAAGTATGACTCTTTGGCGGCGTTTTTGCT
1 AAAAACGCCACTAAAGTACGGGTCTTTGGCGGCGTTTGT-AT
* ** * * * *
433930 -TAAACGCCACTAAAGTAC-ATTATTTAGCGGCGTTTATAC
1 AAAAACGCCACTAAAGTACGGGTCTTTGGCGGCGTTTGTAT
* * ** * * * *
433969 AAACATGCCACTAAAGTAC-TATCTTTTAGCAGCGTTTATAC
1 AAAAACGCCACTAAAGTACGGGTC-TTTGGCGGCGTTTGTAT
434010 AAAAACGCCACTAAAG
1 AAAAACGCCACTAAAG
434026 AACAAGTATT
Statistics
Matches: 250, Mismatches: 47, Indels: 10
0.81 0.15 0.03
Matches are distributed among these distances:
40 33 0.13
41 214 0.86
42 3 0.01
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (41 bp):
AAAAACGCCACTAAAGTACGGGTCTTTGGCGGCGTTTGTAT
Found at i:434046 original size:41 final size:41
Alignment explanation
Indices: 433669--434066 Score: 244
Period size: 41 Copynumber: 9.7 Consensus size: 41
433659 CTAATAAATT
* * * ** * *
433669 GCGGCGTTTATTCAAAAAAAGCCACTAAAGTACGGGTCTTTG
1 GCGGCGTTTGTAC-AAAAACGCCACTAAAGTACAAGTATTTA
* * * * ** * *
433711 GCGACATTTGTATAAAAACGCCACGAAAGTACGGGTCTTTG
1 GCGGCGTTTGTACAAAAACGCCACTAAAGTACAAGTATTTA
* * * ** * *
433752 GCGGCGTTTGTATAAAAATGCCACGAAAGTACGGGTCTTTG
1 GCGGCGTTTGTACAAAAACGCCACTAAAGTACAAGTATTTA
* * *
433793 GCGGCGTTTGTATAGAAACGCCACTAAAGAACAAGTATTTA
1 GCGGCGTTTGTACAAAAACGCCACTAAAGTACAAGTATTTA
* * **
433834 CCGGCGTTTGTATAAAAACGCCACTACAA-TACGGGTATTTA
1 GCGGCGTTTGTACAAAAACGCCACTA-AAGTACAAGTATTTA
** * * ** * * *
433875 GCGGCGTTTGTTTAGAAACACCACTAAAGTATGACTCTTTG
1 GCGGCGTTTGTACAAAAACGCCACTAAAGTACAAGTATTTA
* * ** *
433916 GCGGCGTTTTTGCTTAAACGCCACTAAAGTAC-ATTATTTA
1 GCGGCGTTTGTACAAAAACGCCACTAAAGTACAAGTATTTA
* * * * *
433956 GCGGCGTTTATACAAACATGCCACTAAAGTACTA-TCTTTTA
1 GCGGCGTTTGTACAAAAACGCCACTAAAGTACAAGT-ATTTA
* * *
433997 GCAGCGTTTATACAAAAACGCCACTAAAGAACAAGTATTTA
1 GCGGCGTTTGTACAAAAACGCCACTAAAGTACAAGTATTTA
* * * *
434038 CCGACGTTTGTTCAAAAAACGCCGCTAAA
1 GCGGCGTTTGTAC-AAAAACGCCACTAAA
434067 AGTGTCGCTA
Statistics
Matches: 289, Mismatches: 61, Indels: 12
0.80 0.17 0.03
Matches are distributed among these distances:
40 34 0.12
41 230 0.80
42 25 0.09
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (41 bp):
GCGGCGTTTGTACAAAAACGCCACTAAAGTACAAGTATTTA
Found at i:434831 original size:29 final size:30
Alignment explanation
Indices: 434789--434860 Score: 119
Period size: 29 Copynumber: 2.4 Consensus size: 30
434779 GTCCCCATAT
434789 AGGTCGCCATGCACGCCCAGCGACCTA-CC
1 AGGTCGCCATGCACGCCCAGCGACCTAGCC
**
434818 AGGTCGCCATGCACGCCCAGCGACCTAGGT
1 AGGTCGCCATGCACGCCCAGCGACCTAGCC
434848 AGGTCGCCATGCA
1 AGGTCGCCATGCA
434861 ATCCATGCAG
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 27 0.68
30 13 0.32
ACGTcount: A:0.21, C:0.39, G:0.28, T:0.12
Consensus pattern (30 bp):
AGGTCGCCATGCACGCCCAGCGACCTAGCC
Found at i:434993 original size:33 final size:33
Alignment explanation
Indices: 434946--435025 Score: 115
Period size: 33 Copynumber: 2.4 Consensus size: 33
434936 CGAAAGCATC
* *
434946 CGAGAGCATCCGAGGCCATTCGAACGAGCTATG
1 CGAGGGCATCCGAGGCCAATCGAACGAGCTATG
* *
434979 CGAGGGCATCCGAGGGCAATCGAGCGAGCTATG
1 CGAGGGCATCCGAGGCCAATCGAACGAGCTATG
*
435012 CGAGGGAATCCGAG
1 CGAGGGCATCCGAG
435026 CAACCGAGCG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.26, C:0.25, G:0.36, T:0.12
Consensus pattern (33 bp):
CGAGGGCATCCGAGGCCAATCGAACGAGCTATG
Found at i:435037 original size:31 final size:32
Alignment explanation
Indices: 434970--435037 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 32
434960 GCCATTCGAA
* *
434970 CGAGCTATGCGAGGGCATCCGAGGGCAATCGAG
1 CGAGCTATGCGAGGGAATCCGA-GGCAACCGAG
435003 CGAGCTATGCGAGGGAATCCGA-GCAACCGAG
1 CGAGCTATGCGAGGGAATCCGAGGCAACCGAG
435034 CGAG
1 CGAG
435038 GGTAGGTCAC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 12 0.36
33 21 0.64
ACGTcount: A:0.26, C:0.25, G:0.38, T:0.10
Consensus pattern (32 bp):
CGAGCTATGCGAGGGAATCCGAGGCAACCGAG
Found at i:435105 original size:29 final size:30
Alignment explanation
Indices: 435059--435127 Score: 104
Period size: 29 Copynumber: 2.3 Consensus size: 30
435049 CGGAGTGCAT
*
435059 GGCGACCTACGTAGGTCGCCATGTACTCCG
1 GGCGACCTACGTAGGTCGCCATGCACTCCG
* *
435089 GGCGACCT-TGTAGGTCGCCATGCACTCTG
1 GGCGACCTACGTAGGTCGCCATGCACTCCG
435118 GGCGACCTAC
1 GGCGACCTAC
435128 CCTCGCTCGG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 26 0.76
30 8 0.24
ACGTcount: A:0.16, C:0.33, G:0.30, T:0.20
Consensus pattern (30 bp):
GGCGACCTACGTAGGTCGCCATGCACTCCG
Found at i:435179 original size:33 final size:32
Alignment explanation
Indices: 435133--435202 Score: 95
Period size: 33 Copynumber: 2.2 Consensus size: 32
435123 CCTACCCTCG
* *
435133 CTCGGTTGCCTCGCATAGCTCGCTCGGTTGCC
1 CTCGGATGCCTCGCATAGCTCGCTCGGATGCC
* *
435165 CTCGGATGCCCTCGCATAGCTCGTTCGGATGGC
1 CTCGGATG-CCTCGCATAGCTCGCTCGGATGCC
435198 CTCGG
1 CTCGG
435203 TCGGATGGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
32 7 0.21
33 26 0.79
ACGTcount: A:0.09, C:0.36, G:0.30, T:0.26
Consensus pattern (32 bp):
CTCGGATGCCTCGCATAGCTCGCTCGGATGCC
Found at i:435206 original size:14 final size:14
Alignment explanation
Indices: 435184--435230 Score: 67
Period size: 14 Copynumber: 3.4 Consensus size: 14
435174 CCTCGCATAG
*
435184 CTCGTTCGGATGGC
1 CTCGGTCGGATGGC
435198 CTCGGTCGGATGGC
1 CTCGGTCGGATGGC
* *
435212 CTCGGTTGGATGGT
1 CTCGGTCGGATGGC
435226 CTCGG
1 CTCGG
435231 ATGCCCAGCG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.06, C:0.26, G:0.40, T:0.28
Consensus pattern (14 bp):
CTCGGTCGGATGGC
Found at i:437287 original size:31 final size:30
Alignment explanation
Indices: 437238--437343 Score: 81
Period size: 31 Copynumber: 3.5 Consensus size: 30
437228 AGGATTTAAC
* **
437238 AGTTTAGTGATACGATTGAAACGAAAATCAA
1 AGTTCAGTGATATAATTGAAAC-AAAATCAA
* *
437269 AGTTCAGTGATATAATTGAAATAAAAATCGA
1 AGTTCAGTGATATAATTGAAA-CAAAATCAA
* * * *
437300 AGTTTAGTGTTGTAATTG--ACAAAATTAAA
1 AGTTCAGTGATATAATTGAAACAAAA-TCAA
*
437329 AGTTCAGTGGTATAA
1 AGTTCAGTGATATAA
437344 ACGATATAAC
Statistics
Matches: 59, Mismatches: 14, Indels: 6
0.75 0.18 0.08
Matches are distributed among these distances:
28 4 0.07
29 15 0.25
31 40 0.68
ACGTcount: A:0.43, C:0.07, G:0.19, T:0.31
Consensus pattern (30 bp):
AGTTCAGTGATATAATTGAAACAAAATCAA
Found at i:440103 original size:15 final size:15
Alignment explanation
Indices: 440083--440111 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
440073 TACACTATTT
440083 TAGGTTTATTTTATG
1 TAGGTTTATTTTATG
440098 TAGGTTTATTTTAT
1 TAGGTTTATTTTAT
440112 ATAATATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.17, T:0.62
Consensus pattern (15 bp):
TAGGTTTATTTTATG
Found at i:444518 original size:24 final size:23
Alignment explanation
Indices: 444487--444533 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
444477 TGTGAGGAGG
*
444487 TATGGAAAGCGAAAAAAGAAAAA
1 TATGGAAAGAGAAAAAAGAAAAA
**
444510 TATGAGAAAGAGGCAAAAGAAAAA
1 TATG-GAAAGAGAAAAAAGAAAAA
444534 GAGGTCACTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.64, C:0.04, G:0.23, T:0.09
Consensus pattern (23 bp):
TATGGAAAGAGAAAAAAGAAAAA
Done.