Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007823.1 Hibiscus syriacus cultivar Beakdansim tig00110160_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: 6287495
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 33
Found at i:728883 original size:19 final size:19
Alignment explanation
Indices: 728859--728909 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
728849 TATTAATGGG
728859 ATGCATCGATGCATGCCTT
1 ATGCATCGATGCATGCCTT
728878 ATGCATCGATGCATGCCTT
1 ATGCATCGATGCATGCCTT
*
728897 ATGCATTGATGCA
1 ATGCATCGATGCA
728910 CTAATTGCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.31
Consensus pattern (19 bp):
ATGCATCGATGCATGCCTT
Found at i:729030 original size:21 final size:21
Alignment explanation
Indices: 729004--729060 Score: 114
Period size: 21 Copynumber: 2.7 Consensus size: 21
728994 TTTAACCTTG
729004 ATGCATCGATGCACTATGAAT
1 ATGCATCGATGCACTATGAAT
729025 ATGCATCGATGCACTATGAAT
1 ATGCATCGATGCACTATGAAT
729046 ATGCATCGATGCACT
1 ATGCATCGATGCACT
729061 CTGCCCAGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (21 bp):
ATGCATCGATGCACTATGAAT
Found at i:730544 original size:31 final size:32
Alignment explanation
Indices: 730506--730572 Score: 93
Period size: 31 Copynumber: 2.1 Consensus size: 32
730496 TGGAGTGGTC
*
730506 ATTTTGTTGCAAATCT-ATAACGTTAGTGACT-
1 ATTTTGTTACAAAT-TGATAACGTTAGTGACTG
*
730537 ATTTTGTTACAAATTGATATCGTTAGTGACTG
1 ATTTTGTTACAAATTGATAACGTTAGTGACTG
730569 ATTT
1 ATTT
730573 CTTACTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
30 1 0.03
31 27 0.84
32 4 0.12
ACGTcount: A:0.28, C:0.10, G:0.16, T:0.45
Consensus pattern (32 bp):
ATTTTGTTACAAATTGATAACGTTAGTGACTG
Found at i:731369 original size:2 final size:2
Alignment explanation
Indices: 731362--731386 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
731352 TTCTATTCTT
731362 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
731387 TTCAAGAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:732779 original size:26 final size:25
Alignment explanation
Indices: 732744--732796 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
732734 CACGAAAAAG
732744 ATAAAATAAAT-AGTA-ATAAAATTAT
1 ATAAAATAAATCA-TATA-AAAATTAT
732769 ATAAATATAAATCATATAAAAATTAT
1 ATAAA-ATAAATCATATAAAAATTAT
732795 AT
1 AT
732797 GGAAACAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 5 0.20
26 18 0.72
27 2 0.08
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (25 bp):
ATAAAATAAATCATATAAAAATTAT
Found at i:733308 original size:6 final size:6
Alignment explanation
Indices: 733299--733324 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
733289 CTACTACTAC
733299 TAATAG TAATAG TAATAG TAATAG TA
1 TAATAG TAATAG TAATAG TAATAG TA
733325 CAGCTAGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (6 bp):
TAATAG
Found at i:740977 original size:17 final size:17
Alignment explanation
Indices: 740955--740988 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
740945 TCATATCATT
740955 TAATAAAAAATAATTAC
1 TAATAAAAAATAATTAC
740972 TAATAAAAAATAATTAC
1 TAATAAAAAATAATTAC
740989 ATTATTTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
TAATAAAAAATAATTAC
Found at i:743610 original size:22 final size:22
Alignment explanation
Indices: 743585--743627 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
743575 TAATTGAGCG
743585 TTTGTTATCAATTGATTGAGAA
1 TTTGTTATCAATTGATTGAGAA
743607 TTTGTTATCAATTGATTGAGA
1 TTTGTTATCAATTGATTGAGA
743628 GTATTTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.05, G:0.19, T:0.47
Consensus pattern (22 bp):
TTTGTTATCAATTGATTGAGAA
Found at i:744452 original size:18 final size:18
Alignment explanation
Indices: 744429--744493 Score: 51
Period size: 18 Copynumber: 3.3 Consensus size: 18
744419 ATTTCTCCTT
744429 TTAATACATTGAACTATA
1 TTAATACATTGAACTATA
* *
744447 TTAATA-ATTTATCTAAAATAA
1 TTAATACATTGAACT---AT-A
744468 TTTTAATACATTGAACTATA
1 --TTAATACATTGAACTATA
744488 TTAATA
1 TTAATA
744494 ATTTGGCGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
17 6 0.17
18 12 0.33
20 3 0.08
21 3 0.08
23 6 0.17
24 6 0.17
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (18 bp):
TTAATACATTGAACTATA
Found at i:744801 original size:30 final size:30
Alignment explanation
Indices: 744765--744858 Score: 161
Period size: 30 Copynumber: 3.1 Consensus size: 30
744755 AAATGATACG
*
744765 CTCTCAATCCGTAAACATCACACAACAATC
1 CTCTCAACCCGTAAACATCACACAACAATC
744795 CTCTCAACCCGTAAACATCACACAACAATC
1 CTCTCAACCCGTAAACATCACACAACAATC
* *
744825 CTCTCAACCCGTAAACATCACCCGACAATC
1 CTCTCAACCCGTAAACATCACACAACAATC
744855 CTCT
1 CTCT
744859 TATCTTTGAT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 61 1.00
ACGTcount: A:0.36, C:0.40, G:0.04, T:0.19
Consensus pattern (30 bp):
CTCTCAACCCGTAAACATCACACAACAATC
Found at i:749437 original size:10 final size:10
Alignment explanation
Indices: 749422--749451 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
749412 TTGTTCACAG
749422 TACTGTTCAT
1 TACTGTTCAT
749432 TACTGTTCAT
1 TACTGTTCAT
*
749442 TAATGTTCAT
1 TACTGTTCAT
749452 ACCGTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.17, G:0.10, T:0.50
Consensus pattern (10 bp):
TACTGTTCAT
Found at i:754721 original size:171 final size:172
Alignment explanation
Indices: 754436--754779 Score: 681
Period size: 171 Copynumber: 2.0 Consensus size: 172
754426 AAATTCTTTC
754436 AATGTTACTACAAAATTCATATATGCAACATGAATATCAAATGTGGTAGAGATCACCAAAAAGAT
1 AATGTTACTACAAAATTCATATATGCAACATGAATATCAAATGTGGTAGAGATCACCAAAAAGAT
754501 TACATATCTCCGATAATTCTCTCCAATAATTTTAAAAGTTAATACATATTCTATAAATATTTTTA
66 TACATATCTCCGATAATTCTCTCCAATAATTTTAAAAGTTAATACATATTCTATAAATATTTTTA
754566 TTTTACAAATATTTTT-CCTACCTAGTGGCACATGCAAAGCA
131 TTTTACAAATATTTTTACCTACCTAGTGGCACATGCAAAGCA
754607 AATGTTACTACAAAATTCATATATGCAACATGAATATCAAATGTGGTAGAGATCACCAAAAAGAT
1 AATGTTACTACAAAATTCATATATGCAACATGAATATCAAATGTGGTAGAGATCACCAAAAAGAT
754672 TACATATCTCCGATAATTCTCTCCAATAATTTTAAAAGTTAATACATATTCTATAAATATTTTTA
66 TACATATCTCCGATAATTCTCTCCAATAATTTTAAAAGTTAATACATATTCTATAAATATTTTTA
754737 TTTTACAAATATTTTTACCTACCTAGTGGCACATGCAAAGCA
131 TTTTACAAATATTTTTACCTACCTAGTGGCACATGCAAAGCA
754779 A
1 A
754780 GGTCAGGGAG
Statistics
Matches: 172, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
171 146 0.85
172 26 0.15
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.34
Consensus pattern (172 bp):
AATGTTACTACAAAATTCATATATGCAACATGAATATCAAATGTGGTAGAGATCACCAAAAAGAT
TACATATCTCCGATAATTCTCTCCAATAATTTTAAAAGTTAATACATATTCTATAAATATTTTTA
TTTTACAAATATTTTTACCTACCTAGTGGCACATGCAAAGCA
Found at i:758217 original size:23 final size:23
Alignment explanation
Indices: 758182--758229 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
758172 ATAAAGTATA
*
758182 ATAATATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
* *
758205 ATAATGTAATAGGTAGCGTTTAT
1 ATAATATAATAGGTAGCGCTTAT
758228 AT
1 AT
758230 TGACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.40
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:758722 original size:22 final size:21
Alignment explanation
Indices: 758664--758723 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 21
758654 TCACACTGAA
*
758664 AAAAATATGGACAC-TTTTAT
1 AAAAATATGAACACTTTTTAT
*
758684 AAAAATGAT-AGATACTTTTTAT
1 AAAAAT-ATGA-ACACTTTTTAT
758706 AAAAAGTATGAACACTTT
1 AAAAA-TATGAACACTTT
758724 CAATATAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
20 6 0.19
21 5 0.16
22 19 0.59
23 2 0.06
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (21 bp):
AAAAATATGAACACTTTTTAT
Found at i:758772 original size:23 final size:23
Alignment explanation
Indices: 758741--758813 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
758731 ATAGGTAAAA
* *
758741 ATATTATGTAATAGGTGGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
758764 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
758787 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
758810 ATAT
1 ATAT
758814 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.33, C:0.05, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:762222 original size:120 final size:120
Alignment explanation
Indices: 762009--762255 Score: 431
Period size: 120 Copynumber: 2.1 Consensus size: 120
761999 TTTTTCTTCT
*
762009 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
762074 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
66 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
*
762129 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
* * * * *
762194 CATAAAACTGGTATATTTATACCGGTTATATTATAAAATTATCTATTACATTATA
66 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
762249 ATTCTGG
1 ATTCTGG
762256 GTTCCAATGT
Statistics
Matches: 120, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 120 1.00
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (120 bp):
ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
Found at i:762391 original size:303 final size:303
Alignment explanation
Indices: 761845--762735 Score: 1599
Period size: 303 Copynumber: 3.0 Consensus size: 303
761835 TTAAAATTAG
** *
761845 CGACACAGTATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCAT-AAACCGATATATTT
1 CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
*
761909 ATACCGGTTATATTACAAAATTATCTATTACATTAAAATTCTGGGTTCCGATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
*
761974 CACTTTTTGACAAGGTATCGACACATTTTTCTTCTATTCTGGACATAAAGTACCGACACAATATT
131 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
* *
762039 AAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATA
196 AAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATACTTATACCGGTTATA
762104 TTACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
261 TTACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
*
762147 CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACTGGTATATTT
1 CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
* *
762212 ATACCGGTTATATTATAAAATTATCTATTACATTATAATTCTGGGTTCCAATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
*
762277 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATACT
131 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
*
762342 AAAAAGTGTCGATATAGGTTGTAGACCTATTCACTCATAAAACCGGTATACTTATACCGGTTATA
196 AAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATACTTATACCGGTTATA
762407 TTACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
261 TTACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
762450 CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
1 CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
*
762515 ATACCTGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
762580 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCT-GACATAAA-TACCGACACAATATT
131 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
* * *
762643 AAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTTTACCGATTATA
196 AAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATACTTATACCGGTTATA
* *
762708 TTACAAAAGTATCTATTACATTATAATT
261 TTACAAAATTATCTAGTACATTATAATT
762736 ATGGGTTCCG
Statistics
Matches: 565, Mismatches: 23, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
301 101 0.18
302 56 0.10
303 408 0.72
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (303 bp):
CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
AAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATACTTATACCGGTTATA
TTACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
Found at i:762525 original size:120 final size:120
Alignment explanation
Indices: 762312--762558 Score: 440
Period size: 120 Copynumber: 2.1 Consensus size: 120
762302 TTTTTCTTCC
*
762312 ATTCTGGACATAAAGTACCGACACAATACTAAAAAGTGTCGATATAGGTTGTAGACCTATTCACT
1 ATTCTGGACATAAAGTACCGACACAAAACTAAAAAGTGTCGATATAGGTTGTAGACCTATTCACT
762377 CATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
66 CATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
* *
762432 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAAAACTAAAAAGTGTCGATATAGGTTGTAGACCTATTCACT
* * *
762497 CATAAAACCGGTATATTTATACCTGTTATATTACAAAATTATCTATTACATTATA
66 CATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
762552 ATTCTGG
1 ATTCTGG
762559 GTTCCGATGT
Statistics
Matches: 121, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
120 121 1.00
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (120 bp):
ATTCTGGACATAAAGTACCGACACAAAACTAAAAAGTGTCGATATAGGTTGTAGACCTATTCACT
CATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
Found at i:762801 original size:182 final size:182
Alignment explanation
Indices: 762432--762835 Score: 663
Period size: 181 Copynumber: 2.2 Consensus size: 182
762422 GTACATTATA
*
762432 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
* *
762497 CATAAAACCGGTATATTTATACCTGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
66 CATAAAACCGGTATATTTATACCTGTTATATTACAAAAGTATCTATTACATTATAATTATGGGTT
*
762562 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
131 CCGATGTGTAAA-GTCGACACTTTTTGAAAAGGTATCGACACATTTTTCTTCC
762615 ATTCT-GACATAAA-TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
*
762678 CATAAAACCGGTATATTTTTACC-GATTATATTACAAAAGTATCTATTACATTATAATTATGGGT
66 CATAAAACCGGTATATTTATACCTG-TTATATTACAAAAGTATCTATTACATTATAATTATGGGT
* * *
762742 TCCGATATTTTTTCAA-TCGACACTTTTTGAAAAGGTATCGACACATTTTTCTTCC
130 TCCG--A-TGTGTAAAGTCGACACTTTTTGAAAAGGTATCGACACATTTTTCTTCC
762797 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGT
762836 GAAAACTTTG
Statistics
Matches: 207, Mismatches: 8, Indels: 11
0.92 0.04 0.05
Matches are distributed among these distances:
180 1 0.00
181 112 0.54
182 51 0.25
183 14 0.07
184 29 0.14
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (182 bp):
ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
CATAAAACCGGTATATTTATACCTGTTATATTACAAAAGTATCTATTACATTATAATTATGGGTT
CCGATGTGTAAAGTCGACACTTTTTGAAAAGGTATCGACACATTTTTCTTCC
Found at i:764069 original size:18 final size:18
Alignment explanation
Indices: 764042--764087 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
764032 CTTGTTTGGA
* *
764042 TCATCATCATCATCATCG
1 TCATCTTCATCATCAGCG
* *
764060 TCATCTTCATCGTCAGCT
1 TCATCTTCATCATCAGCG
764078 TCATCTTCAT
1 TCATCTTCAT
764088 TGACCGCTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.22, C:0.33, G:0.07, T:0.39
Consensus pattern (18 bp):
TCATCTTCATCATCAGCG
Found at i:764071 original size:12 final size:12
Alignment explanation
Indices: 764042--764087 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
764032 CTTGTTTGGA
* *
764042 TCATCATCATCA
1 TCATCGTCATCT
764054 TCATCGTCATCT
1 TCATCGTCATCT
*
764066 TCATCGTCAGCT
1 TCATCGTCATCT
*
764078 TCATCTTCAT
1 TCATCGTCAT
764088 TGACCGCTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.22, C:0.33, G:0.07, T:0.39
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:766100 original size:200 final size:200
Alignment explanation
Indices: 765581--766337 Score: 1233
Period size: 200 Copynumber: 3.8 Consensus size: 200
765571 AAACATTAAC
* * * * *
765581 AGTGTCGATATA-TATTATATACCAATTCTC-CATAAAATCGGTATACTTATACCGGTTAGATTG
1 AGTGTCGATACATTATT-TAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTG
* * *
765644 AAAAATTACCTAATACATTATACTTTTGGGTTTCCATGTTTAT--GATCGACAC-TTTTATATAT
65 AAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATAT
* *
765706 GGATCGACACTTT-TGGTTGCACCCTGTTTGCCATTCATTCTGGATCAAAATTATCGACACAAAC
130 GGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
765770 TACAAA
195 TACAAA
*
765776 AGTGTCGACACATTATTTAGACCTATTCTCTCAT-AAACC-GTATACTTGTACCGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
765839 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
* * *
765904 AATCAACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
765969 ACAAA
196 ACAAA
*
765974 AGTGTCTATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
* *
766039 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTCTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
* *
766104 GATCGACACTTTATTGTTGCACCCTGTTTGACATTCATTCTGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
766169 ACAAA
196 ACAAA
* *
766174 AATGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGATTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
*
766239 AAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
* *
766304 GATCGATACTTTATGGTTGCACCCTGTTTACCAT
131 GATCGACACTTTATGGTTGCACCCTGTTTGCCAT
766338 ATTGTAAATT
Statistics
Matches: 523, Mismatches: 31, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
194 62 0.12
195 25 0.05
196 16 0.03
197 21 0.04
198 86 0.16
199 5 0.01
200 308 0.59
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.37
Consensus pattern (200 bp):
AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
GATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
ACAAA
Found at i:766597 original size:18 final size:18
Alignment explanation
Indices: 766571--766617 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
766561 TTATATTCAC
766571 ATACAAAATTATAAATCGT
1 ATAC-AAATTATAAATCGT
*
766590 ATACAAATTATAAATCTT
1 ATACAAATTATAAATCGT
*
766608 ATAAAAATTA
1 ATACAAATTA
766618 ACCCTACATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 22 0.85
19 4 0.15
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (18 bp):
ATACAAATTATAAATCGT
Found at i:768360 original size:33 final size:33
Alignment explanation
Indices: 768323--768388 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
768313 CATCTTAATA
*
768323 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
768356 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
768389 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:768446 original size:21 final size:21
Alignment explanation
Indices: 768421--768486 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
768411 CCCCCTTATG
* *
768421 TCTCTCAAGTGTATCTTCGAC
1 TCTCTCAAGTTTCTCTTCGAC
768442 TCTCTCAAGTTTCTCTTCGAC
1 TCTCTCAAGTTTCTCTTCGAC
* *
768463 TCTATCAAGTTTCTCTTCAAC
1 TCTCTCAAGTTTCTCTTCGAC
768484 TCT
1 TCT
768487 TGATTGTCTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.18, C:0.30, G:0.09, T:0.42
Consensus pattern (21 bp):
TCTCTCAAGTTTCTCTTCGAC
Found at i:770935 original size:177 final size:180
Alignment explanation
Indices: 770635--771103 Score: 656
Period size: 177 Copynumber: 2.6 Consensus size: 180
770625 CGTACTTACG
*
770635 AAAGTATCGACACTTTCAATATATCCGGTATCGTTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTC-A-ATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * **
770700 TATCATATTTTTACATGTTATATCGTTGTGGATCGATATTTTTTTTTAAAGTATCGACACATTAT
64 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTTAAAGTATCGACACATTAT
* *
770765 AGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
129 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTATCGATCCTTATATT
*
770816 AAAGTATCAACACTTTCAATATCCGGTAACGTTTTACCGG-TTT-TCATTTTGATACCGGTTTTA
1 AAAGTATCGACACTTTCAATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTTTA
* *
770879 TCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTTAAAGTATCGACACTTTATAG
66 TCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTTAAAGTATCGACACATTATAG
** *
770944 GATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTATCGATCCTTATATT
131 GAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTATCGATCCTTATATT
* * * * * ** *
770994 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTTATCGGTTTTATCATTTCAATACCGTTTT
1 AAAGTATCGACACTTTCAA--TATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * * *
771059 TGTCATAGTTTTACCTGTTATATCGTTTTGGACCGACACATTTTT
64 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
771104 AATTTGGATC
Statistics
Matches: 256, Mismatches: 27, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
177 122 0.48
178 20 0.08
179 21 0.08
180 19 0.07
181 19 0.07
182 55 0.21
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.42
Consensus pattern (180 bp):
AAAGTATCGACACTTTCAATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTTTA
TCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTTAAAGTATCGACACATTATAG
GAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTATCGATCCTTATATT
Found at i:773416 original size:11 final size:11
Alignment explanation
Indices: 773400--773433 Score: 52
Period size: 10 Copynumber: 3.1 Consensus size: 11
773390 AAACCTAATC
773400 TAAAATAAAAA
1 TAAAATAAAAA
773411 TAAAAT-AAAA
1 TAAAATAAAAA
773421 TAAAATAAGAAA
1 TAAAATAA-AAA
773433 T
1 T
773434 CAAGTCATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.48
11 7 0.33
12 4 0.19
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (11 bp):
TAAAATAAAAA
Found at i:774845 original size:20 final size:20
Alignment explanation
Indices: 774801--775113 Score: 156
Period size: 20 Copynumber: 15.6 Consensus size: 20
774791 AATGACCAAC
*
774801 AAAATCGCAATGCGAAATA--
1 AAAATCGCAACGCG-AATACG
*
774820 AAAATCGCAACGCGAATATG
1 AAAATCGCAACGCGAATACG
* *
774840 AAAATCGCAACGCGAACA-T
1 AAAATCGCAACGCGAATACG
* *
774859 ATAAATCGCAACGCGAACA-T
1 A-AAATCGCAACGCGAATACG
* *
774879 ATAAATCGTAACGCG-ATTCTG
1 A-AAATCGCAACGCGAATAC-G
** * * *
774900 ACTATCGCAACGAGTATCCG
1 AAAATCGCAACGCGAATACG
* *
774920 TAAAATCGCAACGCGTATCCG
1 -AAAATCGCAACGCGAATACG
* **
774941 TAAATCGCAACGATAATACG
1 AAAATCGCAACGCGAATACG
* * *
774961 TAAAATCGCAACGTGTATCCG
1 -AAAATCGCAACGCGAATACG
* *
774982 TAAATCGCAACGAGAATACG
1 AAAATCGCAACGCGAATACG
* * * *
775002 TAAATCGCAATGCGTAT-CT
1 AAAATCGCAACGCGAATACG
775021 ATAAATCGCAACGAC-AATACG
1 A-AAATCGCAACG-CGAATACG
* * * *
775042 TAAATCGCAATGCGTATCCG
1 AAAATCGCAACGCGAATACG
* *
775062 TAAATCGCAATGCGAATACG
1 AAAATCGCAACGCGAATACG
* * *
775082 TAAATCGCAATGTGAAT-CTG
1 AAAATCGCAACGCGAATAC-G
*
775102 TAAATCGCAACG
1 AAAATCGCAACG
775114 AGATTCTGAC
Statistics
Matches: 236, Mismatches: 45, Indels: 25
0.77 0.15 0.08
Matches are distributed among these distances:
18 4 0.02
19 18 0.08
20 176 0.75
21 38 0.16
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (20 bp):
AAAATCGCAACGCGAATACG
Found at i:775019 original size:40 final size:40
Alignment explanation
Indices: 774903--775116 Score: 284
Period size: 40 Copynumber: 5.3 Consensus size: 40
774893 GATTCTGACT
* * *
774903 ATCGCAACGAGTATCCGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGT-AAATCGCAATGCGTATCCGTAA
* * *
774944 ATCGCAACGATAATACGTAAAATCGCAACGTGTATCCGTAA
1 ATCGCAACGAGAATACGT-AAATCGCAATGCGTATCCGTAA
**
774985 ATCGCAACGAGAATACGTAAATCGCAATGCGTATCTATAA
1 ATCGCAACGAGAATACGTAAATCGCAATGCGTATCCGTAA
*
775025 ATCGCAACGACAATACGTAAATCGCAATGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAATCGCAATGCGTATCCGTAA
* * * * *
775065 ATCGCAATGCGAATACGTAAATCGCAATGTGAATCTGTAA
1 ATCGCAACGAGAATACGTAAATCGCAATGCGTATCCGTAA
775105 ATCGCAACGAGA
1 ATCGCAACGAGA
775117 TTCTGACTAT
Statistics
Matches: 153, Mismatches: 20, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
40 99 0.65
41 54 0.35
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (40 bp):
ATCGCAACGAGAATACGTAAATCGCAATGCGTATCCGTAA
Found at i:778462 original size:19 final size:19
Alignment explanation
Indices: 778438--778685 Score: 131
Period size: 19 Copynumber: 13.7 Consensus size: 19
778428 GCAACGAGAT
778438 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
778457 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
778471 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
778490 AATCGCAA--CG-AA-G-G
1 AATCGCAATGCGAAATGAA
778504 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* * * * *
778523 AATTGCAACGCGAATTTAG
1 AATCGCAATGCGAAATGAA
** **
778542 TTTCGCGTTGCGATTTTAGAATGAA
1 AATCGCAATGCG-----A-AATGAA
778567 AATCGCAA--CG---TGAA
1 AATCGCAATGCGAAATGAA
* *
778581 AATCGCAACGCAGAAATGAC
1 AATCGCAATGC-GAAATGAA
* *
778601 TATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
*
778620 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
778634 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
778653 AATCGCAATGCGAAATAAA
1 AATCGCAATGCGAAATGAA
*
778672 AATCGCAACGCGAA
1 AATCGCAATGCGAA
778686 TTTAGTTTCG
Statistics
Matches: 170, Mismatches: 32, Indels: 54
0.66 0.12 0.21
Matches are distributed among these distances:
14 40 0.24
15 3 0.02
16 9 0.05
17 9 0.05
18 3 0.02
19 85 0.50
20 11 0.06
23 2 0.01
24 1 0.01
25 7 0.04
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.17
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:778462 original size:33 final size:33
Alignment explanation
Indices: 778425--778532 Score: 182
Period size: 33 Copynumber: 3.3 Consensus size: 33
778415 GGAAATTACT
*
778425 ATCGCAACGAGATAATCGCAATGCGAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
778458 ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
778491 ATCGCAACGA-AGGAATCGCAATGCGAAATGAAA
1 ATCGCAACGAGA-GAATCGCAATGCGAAATGAAA
*
778524 ATTGCAACG
1 ATCGCAACG
778533 CGAATTTAGT
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
32 1 0.01
33 71 0.99
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.14
Consensus pattern (33 bp):
ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
Found at i:778582 original size:14 final size:14
Alignment explanation
Indices: 778563--778590 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
778553 GATTTTAGAA
778563 TGAAAATCGCAACG
1 TGAAAATCGCAACG
778577 TGAAAATCGCAACG
1 TGAAAATCGCAACG
778591 CAGAAATGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.21, G:0.21, T:0.14
Consensus pattern (14 bp):
TGAAAATCGCAACG
Found at i:778674 original size:52 final size:53
Alignment explanation
Indices: 778565--778681 Score: 164
Period size: 52 Copynumber: 2.2 Consensus size: 53
778555 TTTTAGAATG
* ** *
778565 AAAATCGCAACGTGAAAATCGCAACGCAGAAATGACTATCGCAATACGAAATG
1 AAAATCGCAACGAGAAAATCGCAACGCAGAAATGAAAATCGCAATACGAAATA
* * *
778618 AAAATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAATGCGAAATA
1 AAAATCGCAACGAGAAAATCGCAACGCAGAAATGAAAATCGCAATACGAAATA
778670 AAAATCGCAACG
1 AAAATCGCAACG
778682 CGAATTTAGT
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
52 33 0.58
53 24 0.42
ACGTcount: A:0.47, C:0.20, G:0.20, T:0.14
Consensus pattern (53 bp):
AAAATCGCAACGAGAAAATCGCAACGCAGAAATGAAAATCGCAATACGAAATA
Found at i:778713 original size:13 final size:13
Alignment explanation
Indices: 778695--778720 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
778685 ATTTAGTTTC
778695 GCGTTGCGATTTT
1 GCGTTGCGATTTT
778708 GCGTTGCGATTTT
1 GCGTTGCGATTTT
778721 AATTTCGCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (13 bp):
GCGTTGCGATTTT
Found at i:780258 original size:104 final size:103
Alignment explanation
Indices: 780065--780271 Score: 380
Period size: 104 Copynumber: 2.0 Consensus size: 103
780055 GGTCTTAGCC
780065 CAAAGGGTGTATCCAGAATTGTGTCCGGTAGTTATCTCCTCTCCACTTCAGATACCGGATGTACT
1 CAAAGGGTGTATCCAGAATTGTGTCCGGTAGTTATCTCCTCTCCACTTCAGATACCGGATGTACT
*
780130 GGCCGGTAATTATACAAGAGCAACTCTCATCCATCATG
66 GGCCGGTAACTATACAAGAGCAACTCTCATCCATCATG
780168 CAAAGGGTGTTATCCAGAATTGTGTCCGGTAGTTATCTCCTCTCCACTTCAGATACCGGA-GTAC
1 CAAAGGGTG-TATCCAGAATTGTGTCCGGTAGTTATCTCCTCTCCACTTCAGATACCGGATGTAC
780232 TGGCCGGTAACTATACAAGAGCCAACTCTCATCCATCATG
65 TGGCCGGTAACTATACAAGAG-CAACTCTCATCCATCATG
780272 TCCGGCACGT
Statistics
Matches: 101, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
103 33 0.33
104 68 0.67
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (103 bp):
CAAAGGGTGTATCCAGAATTGTGTCCGGTAGTTATCTCCTCTCCACTTCAGATACCGGATGTACT
GGCCGGTAACTATACAAGAGCAACTCTCATCCATCATG
Found at i:782181 original size:20 final size:20
Alignment explanation
Indices: 782156--782218 Score: 92
Period size: 20 Copynumber: 3.1 Consensus size: 20
782146 TTTTAGTTGA
782156 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
782176 AATGAAAATCGCAACGCAGA-
1 AATGAAAATCGCAACG-AGAG
**
782196 AATGACTATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
782216 AAT
1 AAT
782219 CACAACGCGA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.08
20 33 0.85
21 3 0.08
ACGTcount: A:0.48, C:0.17, G:0.22, T:0.13
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:782232 original size:33 final size:33
Alignment explanation
Indices: 782154--782280 Score: 146
Period size: 33 Copynumber: 3.6 Consensus size: 33
782144 TCTTTTAGTT
782154 GAAATGAAAATCGCAACGAGAGAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAAC--GAG-A-G--AATCGCAACGC
** *
782193 AGAAATGACTATCGCAACGAGAGAATCACAACGC
1 -GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
782227 GAAATGAAAATTGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
782260 GAAATTAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
782281 AATTAAAATC
Statistics
Matches: 78, Mismatches: 9, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
33 48 0.62
34 10 0.13
36 1 0.01
37 1 0.01
38 3 0.04
40 15 0.19
ACGTcount: A:0.47, C:0.19, G:0.22, T:0.12
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:782273 original size:19 final size:19
Alignment explanation
Indices: 782249--782294 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
782239 GCAACGAGAG
*
782249 AATCGCAACGCGAAATTAA
1 AATCGCAACGAGAAATTAA
782268 AATCGCAACGAGAAATTAA
1 AATCGCAACGAGAAATTAA
782287 AATCGCAA
1 AATCGCAA
782295 TGGGATTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.50, C:0.20, G:0.15, T:0.15
Consensus pattern (19 bp):
AATCGCAACGAGAAATTAA
Found at i:782353 original size:21 final size:20
Alignment explanation
Indices: 782306--782403 Score: 117
Period size: 21 Copynumber: 4.8 Consensus size: 20
782296 GGGATTTTGG
782306 TTTCGCGTTGCGATTTTCA-
1 TTTCGCGTTGCGATTTTCAT
782325 TTTCGCGTTGCGATTTTCAT
1 TTTCGCGTTGCGATTTTCAT
* **
782345 TTCTCGCGTTGCAATAGTCAT
1 TT-TCGCGTTGCGATTTTCAT
*
782366 TTTCGTGTTGCGATTTTTCAT
1 TTTCGCGTTGCGA-TTTTCAT
**
782387 TTTCATGTTGCGATTTT
1 TTTCGCGTTGCGATTTT
782404 AAGTTTATAA
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
19 19 0.28
20 15 0.22
21 34 0.50
ACGTcount: A:0.12, C:0.18, G:0.19, T:0.50
Consensus pattern (20 bp):
TTTCGCGTTGCGATTTTCAT
Found at i:782967 original size:20 final size:20
Alignment explanation
Indices: 782942--783054 Score: 138
Period size: 20 Copynumber: 5.5 Consensus size: 20
782932 CTTTAAAAAT
782942 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
782962 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
* *
782982 TGTCGTTGCGAATTACGGATA
1 CG-CGTTGCGATTTACGGATA
* *
783003 CACATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
783023 CGCGTTGCGATTTTACGGATA
1 CGCGTTGCGA-TTTACGGATA
*
783044 CTCGTTGCGAT
1 CGCGTTGCGAT
783055 AGTCAGAATC
Statistics
Matches: 78, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
20 43 0.55
21 35 0.45
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:783068 original size:41 final size:39
Alignment explanation
Indices: 782939--783077 Score: 145
Period size: 41 Copynumber: 3.4 Consensus size: 39
782929 GCGCTTTAAA
*
782939 AATCGCGTTGCGATTTACGGATACGCGTTGCGATTTTACG
1 AATCGCGTTGCGATTTACGGATACACGTTGCGA-TTTACG
* * * *
782979 TATTGTCGTTGCGAATTACGGATACACATTGCGATTTACG
1 AATCG-CGTTGCGATTTACGGATACACGTTGCGATTTACG
* * *
783019 GATACGCGTTGCGATTTTACGGATACTCGTTGCGATAGT-CAG
1 AAT-CGCGTTGCGA-TTTACGGATACACGTTGCGAT-TTAC-G
783061 AATCGCGTTGCGATTTA
1 AATCGCGTTGCGATTTA
783078 TATGTTTGCG
Statistics
Matches: 82, Mismatches: 12, Indels: 10
0.79 0.12 0.10
Matches are distributed among these distances:
40 23 0.28
41 55 0.67
42 4 0.05
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (39 bp):
AATCGCGTTGCGATTTACGGATACACGTTGCGATTTACG
Found at i:783072 original size:61 final size:60
Alignment explanation
Indices: 782939--783077 Score: 181
Period size: 61 Copynumber: 2.3 Consensus size: 60
782929 GCGCTTTAAA
* ** *
782939 AATCGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGAATTACG
1 AATCGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACTCGTTGCGAATCACG
* * *
782999 GATACACATTGCGATTTACGGATACGCGTTGCGATTTTACGGATACTCGTTGCGATAGTCA-G
1 AAT-CGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACTCGTTGCGA-A-TCACG
783061 AATCGCGTTGCGATTTA
1 AATCGCGTTGCGATTTA
783078 TATGTTTGCG
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
60 2 0.03
61 58 0.88
62 4 0.06
63 2 0.03
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (60 bp):
AATCGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACTCGTTGCGAATCACG
Found at i:783193 original size:20 final size:20
Alignment explanation
Indices: 783130--783197 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
783120 AAAATCACAA
783130 TGCGATTCTTCGTA-ATCGCGT
1 TGCGATTC-T-GTAGATCGCGT
* * **
783151 TGCGATTCTG-GGAACTGATT
1 TGCGATTCTGTAGATC-GCGT
783171 TGCGATTCTGTAGATCGCGT
1 TGCGATTCTGTAGATCGCGT
783191 TGCGATT
1 TGCGATT
783198 TTTATTTCGC
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
19 3 0.08
20 22 0.61
21 11 0.31
ACGTcount: A:0.16, C:0.19, G:0.28, T:0.37
Consensus pattern (20 bp):
TGCGATTCTGTAGATCGCGT
Found at i:784326 original size:2 final size:2
Alignment explanation
Indices: 784319--784345 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
784309 AAAATAAAAT
784319 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 T
784346 TAATTTTAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:799443 original size:386 final size:387
Alignment explanation
Indices: 798708--799481 Score: 1496
Period size: 386 Copynumber: 2.0 Consensus size: 387
798698 TGACAAGCAT
798708 AAACGTAAAACTAAAATATAATTATGATATTTTTCTATTACCATAGAGACAAAAACTAGCCACCT
1 AAACGTAAAACTAAAATATAATTATGATATTTTTCTATTACCATAGAGACAAAAACTAGCCACCT
798773 AGATCATATAATGACTAAAGAATGAAAAGGTTAAAAAACCTAACCATAATGCTCGAACAAAATAA
66 AGATCATATAATGACTAAAGAATGAAAAGGTTAAAAAACCTAACCATAATGCTCGAACAAAATAA
*
798838 AGATACGAACAAATCTGACTGCATCGGTAAAAGAACCACAAAAGGGGATAAAACTATTGAAAAAC
131 AGATACGAACAAATCTGACTGCATCGGTAAAAAAACCACAAAAGGGGATAAAACTATTGAAAAAC
798903 CACCGAAAAATCGCAAATCAAAGTCGAGCGACGTGAGAAAACTATACACGAACATAAAATGCGTA
196 CACCGAAAAATCGCAAATCAAAGTCGAGCGACGTGAGAAAACTATACACGAACATAAAATGCGTA
*
798968 TTCAAATTAATCTAAGTGTCCAAAGCAGAGAAGATCAACATGATAACAAATAAGCGCATTCTTGA
261 TTCAAATCAATCTAAGTGTCCAAAGCAGAGAAGATCAACATGATAACAAATAAGCGCATTCTTGA
*
799033 TCAGTCGTGGCGATATCAAATCCAACCCTGAGAAAAGAGATGAACGAAAACAACGACAAAAA
326 TCAGTCGTGACGATATCAAATCCAACCCTGAGAAAAGAGATGAACGAAAACAACGACAAAAA
799095 AAACGTAAAACTAAAATATAATTATGATATTTTTCTATTACCATAGAGACAAAAACTAGCCACCT
1 AAACGTAAAACTAAAATATAATTATGATATTTTTCTATTACCATAGAGACAAAAACTAGCCACCT
*
799160 AGATCATATAATGACTAAAGAATGAAAAGGTTAAAAAACCTAACTATAATGCTCGAACAAAATAA
66 AGATCATATAATGACTAAAGAATGAAAAGGTTAAAAAACCTAACCATAATGCTCGAACAAAATAA
799225 AGATACGAACAAATCTGACTGCATCGGTAAAAAAACCACAAAA-GGGATAAAACTATTGAAAAAC
131 AGATACGAACAAATCTGACTGCATCGGTAAAAAAACCACAAAAGGGGATAAAACTATTGAAAAAC
799289 CACCGAAAAATCGCAAATCAAAGTCGAGCGACGTGAGAAAACTATACACGAACATAAAATGCGTA
196 CACCGAAAAATCGCAAATCAAAGTCGAGCGACGTGAGAAAACTATACACGAACATAAAATGCGTA
799354 TTCAAATCAATCTAAGTGTCCAAAGCAGAGAAGATCAACATGATAACAAATAAGCGCATTCTTGA
261 TTCAAATCAATCTAAGTGTCCAAAGCAGAGAAGATCAACATGATAACAAATAAGCGCATTCTTGA
*
799419 TCAGTCGTGACGATATCAAATCCAACCTTGAGAAAAGAGATGAACGAAAACAACGACAAAAA
326 TCAGTCGTGACGATATCAAATCCAACCCTGAGAAAAGAGATGAACGAAAACAACGACAAAAA
799481 A
1 A
799482 CCATAAGCTA
Statistics
Matches: 382, Mismatches: 5, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
386 211 0.55
387 171 0.45
ACGTcount: A:0.48, C:0.18, G:0.15, T:0.20
Consensus pattern (387 bp):
AAACGTAAAACTAAAATATAATTATGATATTTTTCTATTACCATAGAGACAAAAACTAGCCACCT
AGATCATATAATGACTAAAGAATGAAAAGGTTAAAAAACCTAACCATAATGCTCGAACAAAATAA
AGATACGAACAAATCTGACTGCATCGGTAAAAAAACCACAAAAGGGGATAAAACTATTGAAAAAC
CACCGAAAAATCGCAAATCAAAGTCGAGCGACGTGAGAAAACTATACACGAACATAAAATGCGTA
TTCAAATCAATCTAAGTGTCCAAAGCAGAGAAGATCAACATGATAACAAATAAGCGCATTCTTGA
TCAGTCGTGACGATATCAAATCCAACCCTGAGAAAAGAGATGAACGAAAACAACGACAAAAA
Found at i:799552 original size:23 final size:23
Alignment explanation
Indices: 799501--799562 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
799491 ACTAAAATGT
* *
799501 AAAGAAAAACGTGTCACAAAGAA
1 AAAGATAAACGTGCCACAAAGAA
* * *
799524 AAAGATTAATGTGCCACAAAGAC
1 AAAGATAAACGTGCCACAAAGAA
*
799547 AGAGATAAACGTGCCA
1 AAAGATAAACGTGCCA
799563 TAAATGCAGA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.52, C:0.16, G:0.19, T:0.13
Consensus pattern (23 bp):
AAAGATAAACGTGCCACAAAGAA
Found at i:800062 original size:20 final size:20
Alignment explanation
Indices: 800037--800078 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
800027 CGAAAATATA
*
800037 AAAAAAATTAATGTTTT-AGT
1 AAAAAAA-TAATATTTTAAGT
800057 AAAAAAATAATATTTTAAGT
1 AAAAAAATAATATTTTAAGT
800077 AA
1 AA
800079 TCTTTATCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (20 bp):
AAAAAAATAATATTTTAAGT
Found at i:801936 original size:90 final size:88
Alignment explanation
Indices: 801822--801991 Score: 304
Period size: 90 Copynumber: 1.9 Consensus size: 88
801812 TCTCGAATAT
*
801822 TTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGATTAG
1 TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-CCCTAATATGATTAG
801887 GGTAACTTGGATATAAGAGGATTA
65 GGTAACTTGGATATAAGAGGATTA
801911 TTAAATTCTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATTAG
1 TTAAATTC-AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATTAG
*
801976 GGTAACTTGGCTATAA
65 GGTAACTTGGATATAA
801992 AAGAGTGTGT
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
89 37 0.47
90 41 0.53
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.38
Consensus pattern (88 bp):
TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATTAGG
GTAACTTGGATATAAGAGGATTA
Found at i:808384 original size:35 final size:34
Alignment explanation
Indices: 808314--808384 Score: 81
Period size: 35 Copynumber: 2.0 Consensus size: 34
808304 TATTATTTTC
** *
808314 AATTTATATATTTTTTATTAAATTTAAATTCATAA
1 AATTTATATATTTTTTACAAAATTTAAA-TAATAA
808349 AATTTATATAATTCTTTTACAAAATTTAAA-AATAA
1 AATTTATAT-ATT-TTTTACAAAATTTAAATAATAA
808384 A
1 A
808385 TGGGTAGATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
35 14 0.45
36 3 0.10
37 14 0.45
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (34 bp):
AATTTATATATTTTTTACAAAATTTAAATAATAA
Found at i:813697 original size:21 final size:23
Alignment explanation
Indices: 813683--813729 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
813673 TTATTATATT
813683 TTTAATATTTTTTATTTAATTTA
1 TTTAATATTTTTTATTTAATTTA
813706 TTTAATATTTTACTTATTTAATTT
1 TTTAATATTTT--TTATTTAATTT
813730 TTTTGCAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 11 0.50
25 11 0.50
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (23 bp):
TTTAATATTTTTTATTTAATTTA
Found at i:813707 original size:25 final size:26
Alignment explanation
Indices: 813669--813733 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 26
813659 TTCTAATGTA
*
813669 TATTTTATTATATTTTTAATATTTT-T
1 TATTTAATT-TATTTTTAATATTTTAT
813695 TATTTAATTTA--TTTAATATTTTACT
1 TATTTAATTTATTTTTAATATTTTA-T
813720 TATTTAATTT-TTTT
1 TATTTAATTTATTTT
813734 GCAGATATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
23 11 0.32
25 13 0.38
26 10 0.29
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.71
Consensus pattern (26 bp):
TATTTAATTTATTTTTAATATTTTAT
Found at i:816234 original size:10 final size:10
Alignment explanation
Indices: 816219--816253 Score: 70
Period size: 10 Copynumber: 3.5 Consensus size: 10
816209 TCTCTTTTAT
816219 TATAATCACA
1 TATAATCACA
816229 TATAATCACA
1 TATAATCACA
816239 TATAATCACA
1 TATAATCACA
816249 TATAA
1 TATAA
816254 CGCAAATTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.31
Consensus pattern (10 bp):
TATAATCACA
Found at i:821162 original size:157 final size:156
Alignment explanation
Indices: 820875--821253 Score: 490
Period size: 157 Copynumber: 2.4 Consensus size: 156
820865 CCTGATTTCA
* * * **
820875 TTATTTCTTCAATTCCTCCTTCGTTTTAAGTCCAGTTTTTACCAAATTTGAACCACATGCTCCTA
1 TTATTACTTCAATTCGTCATTTATTTTAAGT-CAGTTTTTACCAAATTTGAACCACATGCTCCTA
* *
820940 AAACATAGTAAAATACATGTGTACTGTCAATTTCTCATTTTGGTAACAAATTATTTATTTTTCAA
65 AAACATAGTAAAATACATGTGTACTGTCAATTCCTCATTTTGATAACAAATTATTTATTTTTCAA
821005 TTTAGTCATTCAATTTTTCATAATCTCC
130 TTTAG-CATTCAATTTTTCATAATCTCC
* * * *
821033 TTATTCCTTCAATTCGTCATTTATTTTAAGTCA-TTTTTAATCAAATTTGAGCCATATGCTCCTA
1 TTATTACTTCAATTCGTCATTTATTTTAAGTCAGTTTTT-ACCAAATTTGAACCACATGCTCCTA
* * * * *
821097 AACCATAGTAGAATACATGTGTACTTTCAATTCCTCTTTTTGATAACAAATTTTTTATTTTTCAA
65 AAACATAGTAAAATACATGTGTACTGTCAATTCCTCATTTTGATAACAAATTATTTATTTTTCAA
*
821162 TTTAGCCTTCAATTTTTCATAATCTCC
130 TTTAGCATTCAATTTTTCATAATCTCC
* * * **
821189 TTGTTACTTCAATTTGTGATTTATTTTAAGTCCCTTTTTTTTTACCAAATTTGAACCACATGCTC
1 TTATTACTTCAATTCGTCATTTATTTTAAGT--C--AGTTTTTACCAAATTTGAACCACATGCTC
821254 ATATACCACA
Statistics
Matches: 191, Mismatches: 24, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
156 53 0.28
157 87 0.46
158 27 0.14
160 19 0.10
161 5 0.03
ACGTcount: A:0.28, C:0.19, G:0.08, T:0.46
Consensus pattern (156 bp):
TTATTACTTCAATTCGTCATTTATTTTAAGTCAGTTTTTACCAAATTTGAACCACATGCTCCTAA
AACATAGTAAAATACATGTGTACTGTCAATTCCTCATTTTGATAACAAATTATTTATTTTTCAAT
TTAGCATTCAATTTTTCATAATCTCC
Found at i:825867 original size:35 final size:36
Alignment explanation
Indices: 825828--825905 Score: 140
Period size: 36 Copynumber: 2.2 Consensus size: 36
825818 TGATTTTCGG
*
825828 GATTTTT-CTATTTTTGGCAAAATTCGAATAAATAC
1 GATTTTTGCTATTTTTGGCAAAATTCGAATAAAGAC
825863 GATTTTTGCTATTTTTGGCAAAATTCGAATAAAGAC
1 GATTTTTGCTATTTTTGGCAAAATTCGAATAAAGAC
825899 GATTTTT
1 GATTTTT
825906 TTTTGCTATA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
35 7 0.17
36 34 0.83
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.44
Consensus pattern (36 bp):
GATTTTTGCTATTTTTGGCAAAATTCGAATAAAGAC
Found at i:833579 original size:2 final size:2
Alignment explanation
Indices: 833572--833644 Score: 146
Period size: 2 Copynumber: 36.5 Consensus size: 2
833562 ACTTATAAAT
833572 TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA
833614 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
833645 GTCATTAAAG
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:833862 original size:71 final size:66
Alignment explanation
Indices: 833785--833930 Score: 220
Period size: 71 Copynumber: 2.1 Consensus size: 66
833775 ATATATAAAA
833785 TTTTGAAAACATATATAATATATAGTTTTTGAAAATATTTTGAAAACATATATATATATATAATA
1 TTTTGAAAACATATATAATATATAGTTTTTGAAAATATTTT---AA-ATATATATATATAT-ATA
*
833850 TTTAGT
61 TATAGT
* *
833856 TTTTGAAAATATATATAATATATAGTTTTTGACAATATTTTAAATATATATATATATATATATAG
1 TTTTGAAAACATATATAATATATAGTTTTTGAAAATATTTTAAATATATATATATATATATATAG
833921 T
66 T
833922 TTTTGAAAA
1 TTTTGAAAA
833931 TATTTTGAAA
Statistics
Matches: 72, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
66 17 0.24
67 14 0.19
68 2 0.03
71 39 0.54
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.47
Consensus pattern (66 bp):
TTTTGAAAACATATATAATATATAGTTTTTGAAAATATTTTAAATATATATATATATATATATAG
T
Found at i:833867 original size:28 final size:27
Alignment explanation
Indices: 833836--833905 Score: 92
Period size: 26 Copynumber: 2.7 Consensus size: 27
833826 GAAAACATAT
*
833836 ATATATATATAATATTTAGTTTTTGAA
1 ATATATATATAATATATAGTTTTTGAA
833863 A-ATATATATAATATATAGTTTTTGACA
1 ATATATATATAATATATAGTTTTTGA-A
*
833890 ATAT-TTTA-AATATATA
1 ATATATATATAATATATA
833906 TATATATATA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
26 31 0.79
27 6 0.15
28 2 0.05
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (27 bp):
ATATATATATAATATATAGTTTTTGAA
Found at i:833905 original size:26 final size:26
Alignment explanation
Indices: 833838--833893 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
833828 AAACATATAT
*
833838 ATATATATAATATTTAGTTTTTGAAA
1 ATATATATAATATATAGTTTTTGAAA
*
833864 ATATATATAATATATAGTTTTTGACA
1 ATATATATAATATATAGTTTTTGAAA
833890 ATAT
1 ATAT
833894 TTTAAATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (26 bp):
ATATATATAATATATAGTTTTTGAAA
Found at i:833964 original size:23 final size:21
Alignment explanation
Indices: 833933--833975 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
833923 TTTGAAAATA
833933 TTTTGAAAATATATATTATATAG
1 TTTTGAAAA-ATAT-TTATATAG
*
833956 TTTTTAAAAATATTTATATA
1 TTTTGAAAAATATTTATATA
833976 TTATATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 4 0.21
23 8 0.42
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (21 bp):
TTTTGAAAAATATTTATATAG
Found at i:835231 original size:16 final size:17
Alignment explanation
Indices: 835200--835231 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
835190 GTCCTTTCTT
835200 TATTTAATTCATGTTTC
1 TATTTAATTCATGTTTC
835217 TATTTAATT-ATGTTT
1 TATTTAATTCATGTTT
835232 AAAGAGTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.62
Consensus pattern (17 bp):
TATTTAATTCATGTTTC
Found at i:835292 original size:18 final size:18
Alignment explanation
Indices: 835273--835313 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
835263 CTACATTTAT
835273 TTTA-TTTATTTTTATTA
1 TTTATTTTATTTTTATTA
*
835290 TTTATTTTATTTTTAGT-
1 TTTATTTTATTTTTATTA
835307 TTTATTT
1 TTTATTT
835314 AACTGATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (18 bp):
TTTATTTTATTTTTATTA
Found at i:835295 original size:17 final size:16
Alignment explanation
Indices: 835268--835314 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 16
835258 TGATCCTACA
835268 TTTA-TTTTATTTATT
1 TTTAGTTTTATTTATT
*
835283 TTTATTATTTATTTTATT
1 TTTAGT-TTTA-TTTATT
835301 TTTAGTTTTATTTA
1 TTTAGTTTTATTTA
835315 ACTGATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 4 0.14
16 5 0.18
17 8 0.29
18 11 0.39
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (16 bp):
TTTAGTTTTATTTATT
Found at i:835313 original size:12 final size:11
Alignment explanation
Indices: 835268--835313 Score: 58
Period size: 12 Copynumber: 4.1 Consensus size: 11
835258 TGATCCTACA
835268 TTTATTTTATT
1 TTTATTTTATT
*
835279 TAT-TTTTATT
1 TTTATTTTATT
835289 ATTTATTTTATT
1 -TTTATTTTATT
835301 TTTAGTTTTATT
1 TTTA-TTTTATT
835313 T
1 T
835314 AACTGATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
10 7 0.23
11 8 0.27
12 15 0.50
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:839032 original size:19 final size:20
Alignment explanation
Indices: 839010--839055 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
839000 AAATACAATA
839010 TGAACA-ATGAACAGTACCG
1 TGAACATATGAACAGTACCG
*
839029 TGAACAATATGAACATTACCG
1 TGAAC-ATATGAACAGTACCG
839050 TGAACA
1 TGAACA
839056 GTACACGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 5 0.21
20 2 0.08
21 17 0.71
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (20 bp):
TGAACATATGAACAGTACCG
Found at i:839042 original size:21 final size:21
Alignment explanation
Indices: 839016--839055 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
839006 AATATGAACA
839016 ATGAACAGTACCGTGAACAAT
1 ATGAACAGTACCGTGAACAAT
*
839037 ATGAACATTACCGTGAACA
1 ATGAACAGTACCGTGAACA
839056 GTACACGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.20
Consensus pattern (21 bp):
ATGAACAGTACCGTGAACAAT
Found at i:839131 original size:235 final size:227
Alignment explanation
Indices: 838703--839167 Score: 858
Period size: 235 Copynumber: 2.0 Consensus size: 227
838693 TTTTAAGAAA
838703 ATACGATAATATTGTTGAATCATGTTTGTTATAACAATTTAAGAAAATATACTTTTATGAACAGT
1 ATACGATAATATTGTTGAATCATGTTTGTTATAACAATTTAAGAAAATATACTTTTATGAACAGT
838768 AAAATACATATGAACAATGAACAGTACCGTGAACAATATGAACATTACCGTGACAGTACACGAAT
66 AAAATACATATGAACAATGAACAGTACCGTGAACAATATGAACATTACCGTGACAGTACACGAAT
838833 GTTAAAATTTTTCCAGAATTAGAGAGGAACCGATTCCCCTGCTACAGGGAACCGATACCATACTA
131 GTTAAAATTTTTCCAGAATTAGAGAGGAACCGATTCCCCTGCTACAGGGAACCGATACCATACTA
838898 TAGTACTGCTACAGTACTTCCGCAAAATACGT
196 TAGTACTGCTACAGTACTTCCGCAAAATACGT
838930 ATACGATAATATATTGTTGAATCATGTTTGTTATAACCAATTTAAGAAAATATACCTTTTATGAA
1 ATACGAT-A-ATATTGTTGAATCATGTTTGTTATAA-CAATTTAAGAAAATATA-CTTTTATGAA
838995 CAGTAAAATACAATATGAACAATGAACAGTACCGTGAACAATATGAACATTACCGTGAACAGTAC
62 CAGTAAAATAC-ATATGAACAATGAACAGTACCGTGAACAATATGAACATTACCGTG-ACAGTAC
839060 ACGAATGTTAAAATTTTTCCAGAATGTTAGAGAGGAACCGATTCCCCTGCTACAGGGAACCGATA
125 ACGAATGTTAAAATTTTTCCAGAA--TTAGAGAGGAACCGATTCCCCTGCTACAGGGAACCGATA
839125 CCATACTATAGTACTGCTACAGTACTTCCGCAAAATACGT
188 CCATACTATAGTACTGCTACAGTACTTCCGCAAAATACGT
839165 ATA
1 ATA
839168 AATTCATAAA
Statistics
Matches: 230, Mismatches: 0, Indels: 8
0.97 0.00 0.03
Matches are distributed among these distances:
227 7 0.03
228 1 0.00
229 26 0.11
230 17 0.07
231 21 0.09
232 45 0.20
233 31 0.13
235 82 0.36
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (227 bp):
ATACGATAATATTGTTGAATCATGTTTGTTATAACAATTTAAGAAAATATACTTTTATGAACAGT
AAAATACATATGAACAATGAACAGTACCGTGAACAATATGAACATTACCGTGACAGTACACGAAT
GTTAAAATTTTTCCAGAATTAGAGAGGAACCGATTCCCCTGCTACAGGGAACCGATACCATACTA
TAGTACTGCTACAGTACTTCCGCAAAATACGT
Found at i:839944 original size:31 final size:31
Alignment explanation
Indices: 839906--840030 Score: 155
Period size: 31 Copynumber: 4.0 Consensus size: 31
839896 TCCGAAGGAC
** * *
839906 CAGTCCATAGATTACGAAGAACCTAGGTAAT
1 CAGTCCATAGATCCCGAAGAACATAGGTAAA
*
839937 CAGTCCATATG-TCCTGAAGAACATAGGTAAA
1 CAGTCCATA-GATCCCGAAGAACATAGGTAAA
*
839968 CAGTCCATATG-TCCCGAAGAACATAAGTAAA
1 CAGTCCATA-GATCCCGAAGAACATAGGTAAA
*
839999 CAGTCCATATATCCCGAAGAACATAGGTAAA
1 CAGTCCATAGATCCCGAAGAACATAGGTAAA
840030 C
1 C
840031 CCTCGCCCTT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
31 82 0.99
32 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.21
Consensus pattern (31 bp):
CAGTCCATAGATCCCGAAGAACATAGGTAAA
Found at i:843664 original size:19 final size:20
Alignment explanation
Indices: 843642--843687 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
843632 AAATACAATA
843642 TGAACA-ATGAACAGTACCG
1 TGAACATATGAACAGTACCG
*
843661 TGAACAATATGAACATTACCG
1 TGAAC-ATATGAACAGTACCG
843682 TGAACA
1 TGAACA
843688 GTACACAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 5 0.21
20 2 0.08
21 17 0.71
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (20 bp):
TGAACATATGAACAGTACCG
Found at i:843674 original size:21 final size:21
Alignment explanation
Indices: 843648--843687 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
843638 AATATGAACA
843648 ATGAACAGTACCGTGAACAAT
1 ATGAACAGTACCGTGAACAAT
*
843669 ATGAACATTACCGTGAACA
1 ATGAACAGTACCGTGAACA
843688 GTACACAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.20
Consensus pattern (21 bp):
ATGAACAGTACCGTGAACAAT
Found at i:844581 original size:31 final size:31
Alignment explanation
Indices: 844543--844667 Score: 155
Period size: 31 Copynumber: 4.0 Consensus size: 31
844533 TCCGAAGGAC
** * *
844543 CAGTCCATAGATTACGAAGAACCTAGGTAAT
1 CAGTCCATAGATCCCGAAGAACATAGGTAAA
*
844574 CAGTCCATATG-TCCTGAAGAACATAGGTAAA
1 CAGTCCATA-GATCCCGAAGAACATAGGTAAA
*
844605 CAGTCCATATG-TCCCGAAGAACATAAGTAAA
1 CAGTCCATA-GATCCCGAAGAACATAGGTAAA
*
844636 CAGTCCATATATCCCGAAGAACATAGGTAAA
1 CAGTCCATAGATCCCGAAGAACATAGGTAAA
844667 C
1 C
844668 CCTCGCCCTT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
31 82 0.99
32 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.21
Consensus pattern (31 bp):
CAGTCCATAGATCCCGAAGAACATAGGTAAA
Found at i:848305 original size:19 final size:20
Alignment explanation
Indices: 848283--848328 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
848273 AAATACAATA
848283 TGAACA-ATGAACAGTACCG
1 TGAACATATGAACAGTACCG
*
848302 TGAACAATATGAACATTACCG
1 TGAAC-ATATGAACAGTACCG
848323 TGAACA
1 TGAACA
848329 GTACACAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 5 0.21
20 2 0.08
21 17 0.71
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (20 bp):
TGAACATATGAACAGTACCG
Found at i:848315 original size:21 final size:21
Alignment explanation
Indices: 848289--848328 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
848279 AATATGAACA
848289 ATGAACAGTACCGTGAACAAT
1 ATGAACAGTACCGTGAACAAT
*
848310 ATGAACATTACCGTGAACA
1 ATGAACAGTACCGTGAACA
848329 GTACACAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.20
Consensus pattern (21 bp):
ATGAACAGTACCGTGAACAAT
Found at i:849221 original size:31 final size:31
Alignment explanation
Indices: 849183--849307 Score: 155
Period size: 31 Copynumber: 4.0 Consensus size: 31
849173 TCCGAAGGAC
** * *
849183 CAGTCCATAGATTACGAAGAACCTAGGTAAT
1 CAGTCCATAGATCCCGAAGAACATAGGTAAA
*
849214 CAGTCCATATG-TCCTGAAGAACATAGGTAAA
1 CAGTCCATA-GATCCCGAAGAACATAGGTAAA
*
849245 CAGTCCATATG-TCCCGAAGAACATAAGTAAA
1 CAGTCCATA-GATCCCGAAGAACATAGGTAAA
*
849276 CAGTCCATATATCCCGAAGAACATAGGTAAA
1 CAGTCCATAGATCCCGAAGAACATAGGTAAA
849307 C
1 C
849308 CCTCGCCCTT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
31 82 0.99
32 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.21
Consensus pattern (31 bp):
CAGTCCATAGATCCCGAAGAACATAGGTAAA
Found at i:854025 original size:34 final size:34
Alignment explanation
Indices: 853980--854045 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
853970 ATTTCATTTC
853980 TTTTGAACTCAATTTTCTTTCATTCAGTACTTTT
1 TTTTGAACTCAATTTTCTTTCATTCAGTACTTTT
* *
854014 TTTTTAACTCAATTTTCTTTTATTCAGTACTT
1 TTTTGAACTCAATTTTCTTTCATTCAGTACTT
854046 CATTTCATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.21, C:0.17, G:0.05, T:0.58
Consensus pattern (34 bp):
TTTTGAACTCAATTTTCTTTCATTCAGTACTTTT
Found at i:858993 original size:27 final size:29
Alignment explanation
Indices: 858944--859000 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
858934 ATTATTTAAT
858944 ATATATAATATATACAAAA-TTTTGAAAAC
1 ATATATAATATATA-AAAATTTTTGAAAAC
* *
858973 ATATATAATATAT-ATAGTTTTTGAAAAC
1 ATATATAATATATAAAAATTTTTGAAAAC
859001 GTTTTGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 2 0.08
28 10 0.40
29 13 0.52
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.39
Consensus pattern (29 bp):
ATATATAATATATAAAAATTTTTGAAAAC
Found at i:859012 original size:39 final size:39
Alignment explanation
Indices: 858962--859095 Score: 216
Period size: 39 Copynumber: 3.4 Consensus size: 39
858952 TATATACAAA
858962 ATTTTGAAAACATATATA-ATATATATAGTTTTTGAAAAC
1 ATTTTGAAAACATATATATA-ATATATAGTTTTTGAAAAC
*
859001 GTTTTGAAAACATATATATAATATATAGTTTTTGAAAAC
1 ATTTTGAAAACATATATATAATATATAGTTTTTGAAAAC
* *
859040 ATTTTGAAAATATATATATAATATATAGTTTTTGAAAAT
1 ATTTTGAAAACATATATATAATATATAGTTTTTGAAAAC
*
859079 ATTTTGAAAATATATAT
1 ATTTTGAAAACATATAT
859096 TTTTTAAAAA
Statistics
Matches: 90, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
39 89 0.99
40 1 0.01
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (39 bp):
ATTTTGAAAACATATATATAATATATAGTTTTTGAAAAC
Found at i:859051 original size:28 final size:28
Alignment explanation
Indices: 859002--859055 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
858992 TTTGAAAACG
*
859002 TTTTGAAAACATATATATAATATATAGT
1 TTTTGAAAACATATATAAAATATATAGT
*
859030 TTTTGAAAACAT-TTTGAAAATATATA
1 TTTTGAAAACATATAT-AAAATATATA
859056 TATAATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 2 0.09
28 21 0.91
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (28 bp):
TTTTGAAAACATATATAAAATATATAGT
Found at i:859123 original size:28 final size:28
Alignment explanation
Indices: 859041--859129 Score: 99
Period size: 28 Copynumber: 3.2 Consensus size: 28
859031 TTTGAAAACA
* * *
859041 TTTTGAAAATATATATATAATATATAGT
1 TTTTAAAAATATTTATATAATATATATT
* *
859069 TTTTGAAAATATTT-TGAAAATATATATT
1 TTTTAAAAATATTTAT-ATAATATATATT
*
859097 TTTTAAAAATATTTATATATTATATATT
1 TTTTAAAAATATTTATATAATATATATT
*
859125 ATTTA
1 TTTTA
859130 TTTATTATGT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
27 1 0.02
28 50 0.96
29 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (28 bp):
TTTTAAAAATATTTATATAATATATATT
Found at i:859177 original size:16 final size:17
Alignment explanation
Indices: 859147--859179 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
859137 TGTTATTGTA
859147 ATTTATTATTGATTTTC
1 ATTTATTATTGATTTTC
*
859164 ATTT-TTATTTATTTTC
1 ATTTATTATTGATTTTC
859180 TTTCTTTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.21, C:0.06, G:0.03, T:0.70
Consensus pattern (17 bp):
ATTTATTATTGATTTTC
Found at i:860413 original size:16 final size:17
Alignment explanation
Indices: 860382--860413 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
860372 GTTCTTTCTT
860382 TATTTAATTCATGTTTC
1 TATTTAATTCATGTTTC
860399 TATTTAATT-ATGTTT
1 TATTTAATTCATGTTT
860414 AAAGAGTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.62
Consensus pattern (17 bp):
TATTTAATTCATGTTTC
Found at i:860463 original size:10 final size:10
Alignment explanation
Indices: 860448--860478 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
860438 CTTGATCCTA
860448 TATTTTTATT
1 TATTTTTATT
860458 TATTTTTA-T
1 TATTTTTATT
860467 TATTTTTATT
1 TATTTTTATT
860477 TA
1 TA
860479 ACTGATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (10 bp):
TATTTTTATT
Found at i:861624 original size:15 final size:15
Alignment explanation
Indices: 861595--861646 Score: 86
Period size: 15 Copynumber: 3.4 Consensus size: 15
861585 TTCAATAGTG
*
861595 TTTTTAGTATTTTTAA
1 TTTTTAGTA-ATTTAA
861611 TTTTTAGTAATTTAA
1 TTTTTAGTAATTTAA
861626 TTTTTAGTAATTTAA
1 TTTTTAGTAATTTAA
861641 TTTTTA
1 TTTTTA
861647 TTTTTATTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
15 26 0.74
16 9 0.26
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (15 bp):
TTTTTAGTAATTTAA
Found at i:861658 original size:15 final size:15
Alignment explanation
Indices: 861595--861666 Score: 78
Period size: 15 Copynumber: 4.8 Consensus size: 15
861585 TTCAATAGTG
861595 TTTTTAGTATTTTTAA
1 TTTTTAGTA-TTTTAA
*
861611 TTTTTAGTAATTTAA
1 TTTTTAGTATTTTAA
*
861626 TTTTTAGTAATTTAA
1 TTTTTAGTATTTTAA
861641 TTTTTA-T-TTTTATTA
1 TTTTTAGTATTTTA--A
861656 TTTTTA-TATTT
1 TTTTTAGTATTT
861667 AAAATAATTT
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
13 4 0.08
14 1 0.02
15 34 0.67
16 12 0.24
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.69
Consensus pattern (15 bp):
TTTTTAGTATTTTAA
Found at i:864145 original size:9 final size:9
Alignment explanation
Indices: 864133--864229 Score: 73
Period size: 9 Copynumber: 11.1 Consensus size: 9
864123 GTAGAAATTA
864133 AATAAATAT
1 AATAAATAT
864142 AATAAATAT
1 AATAAATAT
864151 AAT-AATAAT
1 AATAAAT-AT
864160 AAT-AATAAT
1 AATAAAT-AT
* *
864169 TATTAATAAT
1 AATAAAT-AT
864179 AAT-AAT-T
1 AATAAATAT
*
864186 ATTAAATAT
1 AATAAATAT
864195 AATAAATA-
1 AATAAATAT
*
864203 ATTAAAATAT
1 AAT-AAATAT
864213 AAT-AATAT
1 AATAAATAT
864221 -ATAAATAT
1 AATAAATAT
864229 A
1 A
864230 GTAATTAAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
7 5 0.07
8 18 0.24
9 41 0.55
10 10 0.14
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
AATAAATAT
Found at i:864155 original size:3 final size:3
Alignment explanation
Indices: 864140--864224 Score: 63
Period size: 3 Copynumber: 28.3 Consensus size: 3
864130 TTAAATAAAT
* *
864140 ATA ATA A-A TATA ATA ATA ATA ATA ATA ATTA TTA ATA ATA ATA ATT
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA
*
864186 ATT A-A AT- ATA ATAA ATA ATTA A-A AT- ATA ATA ATA TATA A
1 ATA ATA ATA ATA AT-A ATA A-TA ATA ATA ATA ATA ATA -ATA A
864225 ATATAGTAAT
Statistics
Matches: 68, Mismatches: 4, Indels: 20
0.74 0.04 0.22
Matches are distributed among these distances:
2 8 0.12
3 48 0.71
4 12 0.18
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:864177 original size:16 final size:16
Alignment explanation
Indices: 864156--864236 Score: 76
Period size: 16 Copynumber: 4.9 Consensus size: 16
864146 AATATAATAA
864156 TAATAATAATAATTAT
1 TAATAATAATAATTAT
864172 TAATAATAATAATTAT
1 TAATAATAATAATTAT
*
864188 TAA-ATATAATAAATAAT
1 TAATA-ATAAT-AATTAT
*
864205 TAAAATATAATAATATAT
1 TAATA-ATAATAAT-TAT
* *
864223 AAAT-ATAGTAATTA
1 TAATAATAATAATTA
864237 AAATAGATAT
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
15 3 0.05
16 31 0.55
17 11 0.20
18 11 0.20
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (16 bp):
TAATAATAATAATTAT
Found at i:864192 original size:53 final size:50
Alignment explanation
Indices: 864135--864236 Score: 134
Period size: 50 Copynumber: 2.0 Consensus size: 50
864125 AGAAATTAAA
*
864135 TAAATATAATAAATATAATAATAATAATAATAAT-TATTAATAATAATAATTAT
1 TAAATATAATAAATA-AATAA-AAT-ATAATAATATATAAAT-ATAATAATTAT
* *
864188 TAAATATAATAAATAATTAAAATATAATAATATATAAATATAGTAATTA
1 TAAATATAATAAATAAATAAAATATAATAATATATAAATATAATAATTA
864237 AAATAGATAT
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
50 17 0.38
51 9 0.20
52 4 0.09
53 15 0.33
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (50 bp):
TAAATATAATAAATAAATAAAATATAATAATATATAAATATAATAATTAT
Found at i:881952 original size:27 final size:29
Alignment explanation
Indices: 881916--881989 Score: 91
Period size: 30 Copynumber: 2.6 Consensus size: 29
881906 ATTTATTTAG
* * *
881916 AATTACCAAATAATTTTTT-A-ATAGTAA
1 AATTATCAAATAATTTTTTGAGAAACTAA
881943 AATTATCAAATACATTTTTTGAGAAACTAA
1 AATTATCAAATA-ATTTTTTGAGAAACTAA
881973 AATTATCAAAT-ATTTTT
1 AATTATCAAATAATTTTT
881990 AAAATATAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
27 11 0.27
28 13 0.32
29 1 0.02
30 16 0.39
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (29 bp):
AATTATCAAATAATTTTTTGAGAAACTAA
Found at i:881976 original size:30 final size:27
Alignment explanation
Indices: 881916--881993 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
881906 ATTTATTTAG
* * *
881916 AATTACCAAATAATTTTTTAATAGTAA
1 AATTATCAAATAATTTTTTAAAACTAA
881943 AATTATCAAATACATTTTTTGAGAAACTAA
1 AATTATCAAATA-ATTTTTT-A-AAACTAA
881973 AATTATCAAAT-A-TTTTTAAAA
1 AATTATCAAATAATTTTTTAAAA
881994 TATAATAATA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
25 3 0.07
26 1 0.02
27 16 0.36
28 8 0.18
29 1 0.02
30 16 0.36
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.40
Consensus pattern (27 bp):
AATTATCAAATAATTTTTTAAAACTAA
Found at i:888052 original size:16 final size:16
Alignment explanation
Indices: 888014--888052 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
888004 AACTGATCAG
888014 ATATTTACATGACTTC
1 ATATTTACATGACTTC
* *
888030 ATGTTTACATGACTTT
1 ATATTTACATGACTTC
888046 ATATTTA
1 ATATTTA
888053 TCTGACTTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.31, C:0.13, G:0.08, T:0.49
Consensus pattern (16 bp):
ATATTTACATGACTTC
Found at i:888381 original size:20 final size:21
Alignment explanation
Indices: 888343--888386 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
888333 TTATGATCAT
888343 AATATTAAAAAATACTTA-TA
1 AATATTAAAAAATACTTATTA
*
888363 AATATTAAATTAATA-TTATTA
1 AATATTAAA-AAATACTTATTA
888384 AAT
1 AAT
888387 GATTCATCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
AATATTAAAAAATACTTATTA
Found at i:889761 original size:26 final size:26
Alignment explanation
Indices: 889697--889799 Score: 143
Period size: 26 Copynumber: 3.9 Consensus size: 26
889687 AGAGTCGAGG
*
889697 GTTCTACGTGGTCTTTCGGGACATATGT
1 GTTCTACGTGGTCCTTCGGGA-A-ATGT
889725 GTTCTACGTGGTCCTTCGGGAAATGT
1 GTTCTACGTGGTCCTTCGGGAAATGT
* *
889751 GTTCTATGTGGTCCTTCGGGACATGT
1 GTTCTACGTGGTCCTTCGGGAAATGT
* *
889777 GTTCTATGTGGTTCTTCGGGAAA
1 GTTCTACGTGGTCCTTCGGGAAA
889800 AATTTCTATG
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
26 49 0.70
27 1 0.01
28 20 0.29
ACGTcount: A:0.15, C:0.17, G:0.30, T:0.38
Consensus pattern (26 bp):
GTTCTACGTGGTCCTTCGGGAAATGT
Found at i:894128 original size:20 final size:21
Alignment explanation
Indices: 894086--894128 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
894076 AACATAATGT
894086 CCAGAGGGTACCGATTCCCTC
1 CCAGAGGGTACCGATTCCCTC
*
894107 CCAGGGGGTACCGATT-CCTC
1 CCAGAGGGTACCGATTCCCTC
894127 CC
1 CC
894129 TGTGTAACGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.16, C:0.40, G:0.26, T:0.19
Consensus pattern (21 bp):
CCAGAGGGTACCGATTCCCTC
Found at i:897304 original size:19 final size:20
Alignment explanation
Indices: 897265--897304 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
897255 TAAGTGTTAA
*
897265 TGAATTTTAAGATTTTATAT
1 TGAATTTTAAGATTATATAT
897285 TGAATTTTAA-ATTATATAT
1 TGAATTTTAAGATTATATAT
897304 T
1 T
897305 CGATTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (20 bp):
TGAATTTTAAGATTATATAT
Found at i:897587 original size:18 final size:20
Alignment explanation
Indices: 897547--897586 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
897537 AACAGAATGT
897547 CCAGAGGGTACCGATTCCCC
1 CCAGAGGGTACCGATTCCCC
*
897567 CCAG-GGGTACTGATTCCCC
1 CCAGAGGGTACCGATTCCCC
897586 C
1 C
897587 ATGTGTAACG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.17, C:0.40, G:0.25, T:0.17
Consensus pattern (20 bp):
CCAGAGGGTACCGATTCCCC
Found at i:899882 original size:20 final size:20
Alignment explanation
Indices: 899844--899899 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
899834 CACGAGTGAG
* * * *
899844 TACCAATACTAAAGTGTTAT
1 TACCGATACTCAAGGGTTAA
899864 TACCGATACTCAAGGGTTAA
1 TACCGATACTCAAGGGTTAA
**
899884 TGTCGATACTCAAGGG
1 TACCGATACTCAAGGG
899900 CTTAGTATCG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.29
Consensus pattern (20 bp):
TACCGATACTCAAGGGTTAA
Found at i:901201 original size:29 final size:29
Alignment explanation
Indices: 901155--901218 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
901145 GATTCAATAT
*
901155 TATTTTAATCTAAAAATAA-ATAAATTAAA
1 TATTTAAATCTAAAAATAACA-AAATTAAA
* * *
901184 TATTTAAATTTAATAATAACAAATTTAAA
1 TATTTAAATCTAAAAATAACAAAATTAAA
901213 T-TTTAA
1 TATTTAA
901219 CGTTTTTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 5 0.17
29 24 0.80
30 1 0.03
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (29 bp):
TATTTAAATCTAAAAATAACAAAATTAAA
Found at i:901759 original size:5 final size:5
Alignment explanation
Indices: 901749--901785 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
901739 TTTGATAAAA
901749 AACCG AACCG AACCG AACCG AACCG AACCG AACCG AA
1 AACCG AACCG AACCG AACCG AACCG AACCG AACCG AA
901786 TACACCCCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.43, C:0.38, G:0.19, T:0.00
Consensus pattern (5 bp):
AACCG
Found at i:901937 original size:16 final size:17
Alignment explanation
Indices: 901911--901942 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
901901 CTAATAGTCG
901911 AAAATTAATAATTTTTT
1 AAAATTAATAATTTTTT
901928 AAAA-TAATAATTTTT
1 AAAATTAATAATTTTT
901943 CAATCGCGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AAAATTAATAATTTTTT
Found at i:902444 original size:17 final size:16
Alignment explanation
Indices: 902412--902446 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
902402 ACTAATATAT
*
902412 ATTCTTTGAATAAAAA
1 ATTCTTTAAATAAAAA
*
902428 ATTCTTTAAATTAAAA
1 ATTCTTTAAATAAAAA
902444 ATT
1 ATT
902447 ATTAATTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.43
Consensus pattern (16 bp):
ATTCTTTAAATAAAAA
Found at i:911315 original size:18 final size:20
Alignment explanation
Indices: 911284--911324 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
911274 ACTTGAAAAT
911284 AATTTGATTTTG-AAAGCAA
1 AATTTGATTTTGAAAAGCAA
911303 AATTTGA-TTTGAAAAGCAA
1 AATTTGATTTTGAAAAGCAA
911322 AAT
1 AAT
911325 GAAATTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.46, C:0.05, G:0.15, T:0.34
Consensus pattern (20 bp):
AATTTGATTTTGAAAAGCAA
Found at i:911351 original size:19 final size:20
Alignment explanation
Indices: 911310--911356 Score: 78
Period size: 19 Copynumber: 2.4 Consensus size: 20
911300 CAAAATTTGA
*
911310 TTTGAAAAGCAAAATGAAAT
1 TTTGAAGAGCAAAATGAAAT
911330 TTTGAAGAG-AAAATGAAAT
1 TTTGAAGAGCAAAATGAAAT
911349 TTTGAAGA
1 TTTGAAGA
911357 ATGATTTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 18 0.69
20 8 0.31
ACGTcount: A:0.51, C:0.02, G:0.19, T:0.28
Consensus pattern (20 bp):
TTTGAAGAGCAAAATGAAAT
Found at i:916352 original size:10 final size:10
Alignment explanation
Indices: 916337--916366 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
916327 GAATACTTAC
916337 TTTATTTTAA
1 TTTATTTTAA
916347 TTTATTTTAA
1 TTTATTTTAA
*
916357 TTTAATTTAA
1 TTTATTTTAA
916367 CAAAGCAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTATTTTAA
Found at i:918494 original size:16 final size:16
Alignment explanation
Indices: 918473--918523 Score: 79
Period size: 16 Copynumber: 3.2 Consensus size: 16
918463 TCTTTCAAAT
918473 TTTTTATTACTTATTA
1 TTTTTATTACTTATTA
918489 TTTTTATTACTTATTA
1 TTTTTATTACTTATTA
918505 TTTTTTATT--TTATTA
1 -TTTTTATTACTTATTA
918520 TTTT
1 TTTT
918524 ATTCAAGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.12
15 6 0.18
16 16 0.47
17 8 0.24
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTTATTACTTATTA
Found at i:918512 original size:7 final size:8
Alignment explanation
Indices: 918474--918526 Score: 58
Period size: 7 Copynumber: 6.9 Consensus size: 8
918464 CTTTCAAATT
918474 TTTTATTA
1 TTTTATTA
*
918482 -CTTATTA
1 TTTTATTA
918489 TTTTTATTA
1 -TTTTATTA
*
918498 -CTTATTA
1 TTTTATTA
918505 TTTT-TTA
1 TTTTATTA
918512 TTTTATTA
1 TTTTATTA
918520 TTTTATT
1 TTTTATT
918527 CAAGAAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
7 19 0.51
8 12 0.32
9 6 0.16
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTTATTA
Found at i:918512 original size:23 final size:21
Alignment explanation
Indices: 918476--918526 Score: 59
Period size: 23 Copynumber: 2.4 Consensus size: 21
918466 TTCAAATTTT
*
918476 TTATTACTTATTATTTTTATTA
1 TTATTATTTATTA-TTTTATTA
*
918498 CTTATTATTTTTTATTTTATTA
1 -TTATTATTTATTATTTTATTA
918520 TT-TTATT
1 TTATTATT
918527 CAAGAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 5 0.19
21 2 0.08
22 8 0.31
23 11 0.42
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.73
Consensus pattern (21 bp):
TTATTATTTATTATTTTATTA
Found at i:920143 original size:15 final size:14
Alignment explanation
Indices: 920092--920130 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
920082 ATTTTAAATA
*
920092 ATTTACATTTACAT
1 ATTTACATTTGCAT
* *
920106 TTTTATATTTGCAT
1 ATTTACATTTGCAT
920120 ATTTACATTTG
1 ATTTACATTTG
920131 GCATCTTTGC
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.28, C:0.10, G:0.05, T:0.56
Consensus pattern (14 bp):
ATTTACATTTGCAT
Found at i:920693 original size:84 final size:85
Alignment explanation
Indices: 920551--920719 Score: 331
Period size: 84 Copynumber: 2.0 Consensus size: 85
920541 ACCTGTTCAT
920551 ATTCCTGAGTTCACCTCTGTACCCAGGAAATTCAATCACCAATTTACTTCGCTGTTAAGAACTCA
1 ATTCCTGAGTTCACCTCTGTACCCAGGAAATTCAATCACCAATTTACTTCGCTGTTAAGAACTCA
920616 CCATATCAAGCTGGAGCATC
66 CCATATCAAGCTGGAGCATC
920636 ATTCCTGAG-TCACCTCTGTACCCAGGAAATTCAATCACCAATTTACTTCGCTGTTAAGAACTCA
1 ATTCCTGAGTTCACCTCTGTACCCAGGAAATTCAATCACCAATTTACTTCGCTGTTAAGAACTCA
920700 CCATATCAAGCTGGAGCATC
66 CCATATCAAGCTGGAGCATC
920720 GTTCGCCACT
Statistics
Matches: 84, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
84 75 0.89
85 9 0.11
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (85 bp):
ATTCCTGAGTTCACCTCTGTACCCAGGAAATTCAATCACCAATTTACTTCGCTGTTAAGAACTCA
CCATATCAAGCTGGAGCATC
Found at i:923097 original size:18 final size:18
Alignment explanation
Indices: 923067--923131 Score: 69
Period size: 18 Copynumber: 3.6 Consensus size: 18
923057 AGAAAAAGGA
* *
923067 AAAAAGGGAAAAATAAAC
1 AAAAAGGAAAAAAAAAAC
*
923085 AAAAAGGAAAAAAAAAAG
1 AAAAAGGAAAAAAAAAAC
* *
923103 GAAAAGGAAAAAAAAGGA-
1 AAAAAGGAAAAAAAA-AAC
923121 AAAAAGGAAAA
1 AAAAAGGAAAA
923132 TTGAATCAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
18 39 0.98
19 1 0.03
ACGTcount: A:0.77, C:0.02, G:0.20, T:0.02
Consensus pattern (18 bp):
AAAAAGGAAAAAAAAAAC
Found at i:923098 original size:10 final size:10
Alignment explanation
Indices: 923085--923125 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
923075 AAAAATAAAC
923085 AAAAAGGAAA
1 AAAAAGGAAA
*
923095 AAAAA--AAG
1 AAAAAGGAAA
*
923103 GAAAAGGAAA
1 AAAAAGGAAA
923113 AAAAAGGAAA
1 AAAAAGGAAA
923123 AAA
1 AAA
923126 GGAAAATTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
8 6 0.24
10 19 0.76
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (10 bp):
AAAAAGGAAA
Found at i:923107 original size:28 final size:29
Alignment explanation
Indices: 923066--923125 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
923056 AAGAAAAAGG
* *
923066 AAAAAAGGGAAAAA-TAAACAAAAAGGAAA
1 AAAAAAAGGAAAAAGGAAA-AAAAAGGAAA
923095 AAAAAAAGG-AAAAGGAAAAAAAAGGAAA
1 AAAAAAAGGAAAAAGGAAAAAAAAGGAAA
923123 AAA
1 AAA
923126 GGAAAATTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 17 0.61
29 11 0.39
ACGTcount: A:0.78, C:0.02, G:0.18, T:0.02
Consensus pattern (29 bp):
AAAAAAAGGAAAAAGGAAAAAAAAGGAAA
Found at i:923108 original size:36 final size:36
Alignment explanation
Indices: 923059--923131 Score: 87
Period size: 36 Copynumber: 2.0 Consensus size: 36
923049 GCAAAGAAAG
*
923059 AAAAAGGAAAAAAGGGAAAAATAAA-CAAAAAGGAAAAA
1 AAAAAGG-AAAAA-GGAAAAA-AAAGAAAAAAGGAAAAA
923097 AAAAAGG-AAAAGGAAAAAAAAGGAAAAAAGGAAAA
1 AAAAAGGAAAAAGGAAAAAAAA-GAAAAAAGGAAAA
923132 TTGAATCAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
34 3 0.09
35 7 0.22
36 15 0.47
38 7 0.22
ACGTcount: A:0.77, C:0.01, G:0.21, T:0.01
Consensus pattern (36 bp):
AAAAAGGAAAAAGGAAAAAAAAGAAAAAAGGAAAAA
Found at i:925637 original size:115 final size:115
Alignment explanation
Indices: 925392--925616 Score: 321
Period size: 115 Copynumber: 2.0 Consensus size: 115
925382 CATGTTCTCG
* *
925392 TAGTAGAAATAA-AGAGCCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
1 TAGTAGAAATAAGA-AGACCCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTT
* * * * *
925456 TTGGTATAAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTGCTCA
65 TCGGTAGAAACCCCAAAACCAATCATTAGAATTGAAAGATGAATCTACTCA
*
925507 TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTATTCTTTGTGTTATCTGATCTGG-TT
1 TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTT
* * *
925571 CGGTAGGAACCCCAGAACCAATCATTGGAATTGAAAGATGAA-CTAC
66 CGGTAGAAACCCCAAAACCAATCATTAGAATTGAAAGATGAATCTAC
925617 ATGATCGTCT
Statistics
Matches: 98, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
113 2 0.02
114 38 0.39
115 57 0.58
116 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (115 bp):
TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTT
CGGTAGAAACCCCAAAACCAATCATTAGAATTGAAAGATGAATCTACTCA
Found at i:926846 original size:76 final size:75
Alignment explanation
Indices: 926698--926868 Score: 198
Period size: 76 Copynumber: 2.3 Consensus size: 75
926688 AACAAGAAGC
* * * *
926698 AAATGTTGGGGCATACTAAAAACCCTTTTCAATCAGAATCAGGAATATTGATGTATCCTGAATGT
1 AAATGTTGGGGCATGCTGAAAACCCTTTTCAATCAGAATCAAGAATATTGATGTATCCTGAACGT
*
926763 TTATATCAGCA
66 TCATATCAG-A
* * * * * **
926774 AAATGTTGGGACATGCTGAAAGCCTTTTTCAATCAGAATGAAGAATGTTGATGTATTTTGAACGT
1 AAATGTTGGGGCATGCTGAAAACCCTTTTCAATCAGAATCAAGAATATTGATGTATCCTGAACGT
* *
926839 TCGTATCAGT
66 TCATATCAGA
*
926849 AATTGTTGGGGCATGCTGAA
1 AAATGTTGGGGCATGCTGAA
926869 GGCCCACATC
Statistics
Matches: 79, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
75 18 0.23
76 61 0.77
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33
Consensus pattern (75 bp):
AAATGTTGGGGCATGCTGAAAACCCTTTTCAATCAGAATCAAGAATATTGATGTATCCTGAACGT
TCATATCAGA
Found at i:927836 original size:54 final size:54
Alignment explanation
Indices: 927754--927905 Score: 241
Period size: 54 Copynumber: 2.8 Consensus size: 54
927744 AGAAATCTTG
* * *
927754 GCAGAAACCAAAGGAAATGATGAATGTGTTGTCAAACGTTTTACGAACGTCTGA
1 GCAGAAACCAAAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGA
927808 GCAGAAACCAAAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGA
1 GCAGAAACCAAAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGA
* * * *
927862 GCAGAAGCCACAGGAAAGGATGAATGCGCTGTCAAATGTTTTAC
1 GCAGAAACCAAAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
927906 AAACCTGCTA
Statistics
Matches: 91, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 91 1.00
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (54 bp):
GCAGAAACCAAAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGA
Found at i:928261 original size:22 final size:23
Alignment explanation
Indices: 928230--928284 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 23
928220 ATCTACACTC
928230 TTCAAAGATGAT-AGATTCCCTT
1 TTCAAAGATGATCAGATTCCCTT
* *
928252 TTTAAAGATG-TCAGATTCTCTT
1 TTCAAAGATGATCAGATTCCCTT
928274 TTCAAAGATGA
1 TTCAAAGATGA
928285 ATGCTTTATC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.04
22 27 0.96
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38
Consensus pattern (23 bp):
TTCAAAGATGATCAGATTCCCTT
Found at i:928921 original size:113 final size:113
Alignment explanation
Indices: 928691--930033 Score: 2169
Period size: 113 Copynumber: 11.9 Consensus size: 113
928681 AGTTCAAATC
* *
928691 CATCATTCAATGGATCAACATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAG-AGGA
1 CATCATTCGATGGATCAGCATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
928755 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCACTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATT
* * *
928803 CATCATTTGATGGATCAACATTACCAGGTCGAGTTCATAATGAGAAGAGCTCATCTGAAGAAGGA
1 CATCATTCGATGGATCAGCATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* **
928868 AGAAGAAGTTCATAATGAGAAGAACTTTTTCAACTTTTTTCTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATT
* *
928916 CATCATTCGATAGATCAGTATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTCGATGGATCAGCATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
928981 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATT
*
929029 CATCATTCGATGGATCAGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTCGATGGATCAGCATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
929094 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATT
929142 CATCATTCGATGGATCAGCATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTCGATGGATCAGCATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
929207 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATT
* *
929255 CATCATTCGATGGATCAGCATTGCCAGGTCGAGTTTATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTCGATGGATCAGCATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
929320 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTCTCTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATT
* *
929368 CAACATTCGATGGATCAACATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAG-AGGA
1 CATCATTCGATGGATCAGCATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
929432 AGAAGAAGTTCATAATGAGACGAATTTGTTCAACTTTTCGCTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATT
929480 CATCATTCGATGGATCAGCATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAG-AGGA
1 CATCATTCGATGGATCAGCATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
929544 AGAAGAAGTTCATAATGAGAAGAACTTATTCAACTTTTCACTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATT
* *
929592 CATCATTTGATGGATCAGCATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTCGATGGATCAGCATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
929657 AGAATAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATT
* * *
929705 CATCACTCGATGGATCAACTTTACCAGGTCGAGTTCATAATGAGAAGAACTCA-CTTGAAGAAGG
1 CATCATTCGATGGATCAGCATTACCAGGTCGAGTTCATAATGAGAAGAACTCATC-TGAAGAAGG
*
929769 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGTTTGAATT
65 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATT
* * * * *
929818 TATCATTCGATGGATCAGTATTGCCAGGGT-GAGTTCATAATGAGAAGAACTCATATGAAGAAAG
1 CATCATTCGATGGATCAGCATTACCA-GGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
* * *
929882 AATAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCGAATT
65 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATT
* * * * * ** * *
929931 CATCATTCGATGGATCAACTTTTTCAAAG-AAAGTTCATAATAAGAAGAACTTATCTGAAG-AGG
1 CATCATTCGATGGATCAGC-ATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
929994 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTT
65 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTT
930034 GCATGATTCT
Statistics
Matches: 1148, Mismatches: 75, Indels: 15
0.93 0.06 0.01
Matches are distributed among these distances:
112 307 0.27
113 834 0.73
114 7 0.01
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (113 bp):
CATCATTCGATGGATCAGCATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATT
Found at i:930350 original size:35 final size:38
Alignment explanation
Indices: 930286--930364 Score: 87
Period size: 35 Copynumber: 2.2 Consensus size: 38
930276 TTCATTTGTT
* *
930286 TTATT-TATTATTATTATTTTGTTTTAAT-AATAA-TA
1 TTATTATATTATTATTATTTTGATTAAATAAATAATTA
930321 TTATTATATTA-TATTATTATT-ATTAAATAAATAATTA
1 TTATTATATTATTATTATT-TTGATTAAATAAATAATTA
*
930358 ATATTAT
1 TTATTAT
930365 TAAAAACAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
35 17 0.46
36 12 0.32
37 8 0.22
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (38 bp):
TTATTATATTATTATTATTTTGATTAAATAAATAATTA
Found at i:930362 original size:21 final size:20
Alignment explanation
Indices: 930310--930368 Score: 68
Period size: 19 Copynumber: 3.0 Consensus size: 20
930300 TATTTTGTTT
*
930310 TAATAA-TAATATTATTATA
1 TAATAATTAATATTATTAAA
* *
930329 TTAT-ATTATTATTATTAAA
1 TAATAATTAATATTATTAAA
930348 TAAATAATTAATATTATTAAA
1 T-AATAATTAATATTATTAAA
930369 AACAAGCCCA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
18 1 0.03
19 15 0.47
20 2 0.06
21 14 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TAATAATTAATATTATTAAA
Found at i:935500 original size:65 final size:65
Alignment explanation
Indices: 935378--935531 Score: 184
Period size: 65 Copynumber: 2.4 Consensus size: 65
935368 ACCCATTTCG
* * * * **
935378 AATGCATTTTATGTACCGATGCACAAGCCATGCATCGATGTACTCTTGAATATTTTGAAACATCA
1 AATGCATTTTGTGTACCGATGCACAAACCATGCAACGATGCACTCCAGAATATTTTGAAACATCA
**
935443 AATGCATTTTGTGTACCGATGCACAAACCATGCAACGATGCACTCCAGGCT-TGTTTGAAACATC
1 AATGCATTTTGTGTACCGATGCACAAACCATGCAACGATGCACTCCAGAATAT-TTTGAAACATC
*
935507 G
65 A
* * *
935508 AATGTAATTAGTGTACCGATGCAC
1 AATGCATTTTGTGTACCGATGCAC
935532 CCCTAGTGTT
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
64 1 0.01
65 75 0.99
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.29
Consensus pattern (65 bp):
AATGCATTTTGTGTACCGATGCACAAACCATGCAACGATGCACTCCAGAATATTTTGAAACATCA
Done.