Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009134.1 Hibiscus syriacus cultivar Beakdansim tig00112634_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: 270421
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 1 of 2
Found at i:2687 original size:179 final size:184
Alignment explanation
Indices: 2365--3186 Score: 1436
Period size: 179 Copynumber: 4.6 Consensus size: 184
2355 TTTTAAATGG
*
2365 TATGGACATAAA-TACCGACACAAT-TT--AAAGTGTCGATATAGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
2426 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTAC-TTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
2490 GATGTGTAAAATGTCGACACTTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACAC-TTTTTTAAATCGTATCGACACATTTTTCTTCCAA
2545 TATGGACATAAAGTACCGACACAATA-TAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
2609 TAAGACCGGTATA-TT-TACC-GTTATATTAC-AAATTATCTATTACATTAT-ATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
*
2669 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
2723 TATGGACATAAAGTACCG--ACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
2786 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
*
2851 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
2905 TATGGACAT-AAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTA-TCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
2968 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTAC---ATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
3030 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
*
3084 TATGGAC-TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTT-TAGACCTATTCCCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
3147 TAAGACCGGTATATTTATACCGG-TATATTAC-AAATTATCT
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCT
3187 TTTTATTATA
Statistics
Matches: 622, Mismatches: 5, Indels: 33
0.94 0.01 0.05
Matches are distributed among these distances:
176 6 0.01
177 60 0.10
178 70 0.11
179 192 0.31
180 36 0.06
181 44 0.07
182 131 0.21
183 83 0.13
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (184 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
Found at i:3137 original size:361 final size:362
Alignment explanation
Indices: 2365--3186 Score: 1440
Period size: 360 Copynumber: 2.3 Consensus size: 362
2355 TTTTAAATGG
*
2365 TATGGACATAAA-TACCGACACAAT-TT--AAAGTGTCGATATAGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
2426 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACTTATAATTATGGGTTCCG
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACTTATAATTATGGGTTCCG
2491 ATGTGTAAAATGTCGACACTTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAA
131 ATGTGTAAAATGTCGACACTTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAA
2556 AGTACCGACACAATATAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTAT
196 AGTACCGACACAATATAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTAT
2621 ATTTACCGTTATATTACAAATTATCTATTACATTATATTATGGGTTCCGATGTGTAAAATGTCGA
261 ATTTACCGTTATATTACAAATTATCTATTACATTATATTATGGGTTCCGATGTGTAAAATGTCGA
*
2686 CACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
326 CACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
2723 TATGGACATAAAGTACCG--ACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
2786 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTAC-TTATAATTATGGGTTCC
*
2851 GATGTGTAAAATGTCGACAC-TTTTTTAAATTGTATCGACACATTTTTCTTCCAATATGGACAT-
130 GATGTGTAAAATGTCGACACTTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATA
2914 AAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTA-TCGCGCATAAGACCGGT
195 AAGTACCGACACAATA-TAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGT
2978 ATATTTATACCGGTTATATTACAAAATTATCTATTACA-TA-ATTATGGGTTCCGATGTGTAAAA
259 ATA-TT-TACC-GTTATATTAC-AAATTATCTATTACATTATATTATGGGTTCCGATGTGTAAAA
3041 TGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
320 TGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
*
3084 TATGGAC-TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTT-TAGACCTATTCCCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
3147 TAAGACCGGTATATTTATACCGG-TATATTAC-AAATTATCT
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCT
3187 TTTTATTATA
Statistics
Matches: 447, Mismatches: 5, Indels: 23
0.94 0.01 0.05
Matches are distributed among these distances:
357 5 0.01
358 14 0.03
359 50 0.11
360 172 0.38
361 151 0.34
362 40 0.09
363 15 0.03
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (362 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACTTATAATTATGGGTTCCG
ATGTGTAAAATGTCGACACTTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAA
AGTACCGACACAATATAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTAT
ATTTACCGTTATATTACAAATTATCTATTACATTATATTATGGGTTCCGATGTGTAAAATGTCGA
CACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
Found at i:4545 original size:3 final size:3
Alignment explanation
Indices: 4537--4623 Score: 84
Period size: 3 Copynumber: 29.0 Consensus size: 3
4527 ACTTGTTTGG
* * * **
4537 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * * *
4585 AGC TTC ATC GTC ATC ATC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
4624 GTCAGCTTCA
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.24, C:0.34, G:0.06, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:4560 original size:18 final size:18
Alignment explanation
Indices: 4537--4638 Score: 87
Period size: 18 Copynumber: 5.7 Consensus size: 18
4527 ACTTGTTTGG
4537 ATCATCATCTTCATCATC
1 ATCATCATCTTCATCATC
* *
4555 ATCATCATCATCGTCATC
1 ATCATCATCTTCATCATC
* ** * *
4573 ATCTTCATCGCCAGCTTC
1 ATCATCATCTTCATCATC
* *
4591 ATCGTCATCATCATCATC
1 ATCATCATCTTCATCATC
* *
4609 ATCGTCATCTTCATCGTC
1 ATCATCATCTTCATCATC
* *
4627 AGCTTCATCTTC
1 ATCATCATCTTC
4639 TGCGACCGAT
Statistics
Matches: 67, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 67 1.00
ACGTcount: A:0.23, C:0.34, G:0.07, T:0.36
Consensus pattern (18 bp):
ATCATCATCTTCATCATC
Found at i:4604 original size:42 final size:42
Alignment explanation
Indices: 4545--4635 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
4535 GGATCATCAT
*
4545 CTTCATCATCATCATCATCATCGTCATCATCTTCATCGCCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
* * *
4587 CTTCATCGTCATCATCATCATCATCGTCATCTTCATCGTCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
4629 CTTCATC
1 CTTCATC
4636 TTCTGCGACC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.22, C:0.35, G:0.08, T:0.35
Consensus pattern (42 bp):
CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
Found at i:6477 original size:197 final size:197
Alignment explanation
Indices: 6095--6715 Score: 1113
Period size: 198 Copynumber: 3.1 Consensus size: 197
6085 TTTAAATTAG
* *
6095 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATT
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
6160 ATTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
6224 CGACACGTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
6289 AAA
195 AAA
6292 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
6357 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
6422 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTT-ATTCATTCTGGGAAA
131 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCT-GGAAA
6486 AAAA
194 AAAA
* *
6490 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTTATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
6555 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
6620 CGACACTTTT-TATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAAA
131 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG-AAAA
6684 AAA
195 AAA
*
6687 TATCGACACAAACTATATTAGTATCGACA
1 TATCGACACAAACTATATTAGTGTCGACA
6716 TGACCCTTAA
Statistics
Matches: 411, Mismatches: 9, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
196 37 0.09
197 138 0.34
198 236 0.57
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (197 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAAA
AA
Found at i:6824 original size:19 final size:19
Alignment explanation
Indices: 6797--6841 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
6787 ATTCACATAA
*
6797 AAAAATATAAATCGTATAC
1 AAAATTATAAATCGTATAC
*
6816 AAAATTATAAATCTTATAC
1 AAAATTATAAATCGTATAC
6835 AAAATTA
1 AAAATTA
6842 ACTCGACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAATTATAAATCGTATAC
Found at i:8663 original size:33 final size:33
Alignment explanation
Indices: 8626--8691 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
8616 CATCTTAATA
*
8626 TCACCCCTTAACACCGAAACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
***
8659 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
8692 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.45, G:0.02, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCGAAACTTCTTTCACCACT
Found at i:11178 original size:20 final size:20
Alignment explanation
Indices: 11151--11197 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
11141 ACACTTTTAA
11151 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
11170 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
11191 TTTTACC
1 TTTTACC
11198 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:12077 original size:20 final size:20
Alignment explanation
Indices: 12052--12102 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
12042 GTGGTTTCGG
*
12052 TGAATTTATATTTTGATATT
1 TGAATTTATATTTTAATATT
*
12072 TGAATTT-TATTTTAATGTT
1 TGAATTTATATTTTAATATT
12091 T-AATTTGATATT
1 TGAATTT-ATATT
12103 GAATTGTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 5 0.19
19 11 0.41
20 11 0.41
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (20 bp):
TGAATTTATATTTTAATATT
Found at i:15847 original size:16 final size:16
Alignment explanation
Indices: 15826--15875 Score: 91
Period size: 16 Copynumber: 3.1 Consensus size: 16
15816 TTATAGACTG
*
15826 AAAGTTAAAATCTATA
1 AAAGTTGAAATCTATA
15842 AAAGTTGAAATCTATA
1 AAAGTTGAAATCTATA
15858 AAAGTTGAAATCTATA
1 AAAGTTGAAATCTATA
15874 AA
1 AA
15876 CATTAGTGGC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.54, C:0.06, G:0.10, T:0.30
Consensus pattern (16 bp):
AAAGTTGAAATCTATA
Found at i:17214 original size:80 final size:80
Alignment explanation
Indices: 17036--17215 Score: 297
Period size: 80 Copynumber: 2.2 Consensus size: 80
17026 TTGAATATAA
* * *
17036 TCGAACTCGAATGTCTTTAGCAGATAGCCCTTCTCGACTTAAGCCATGCTGCAAATGATGTGCCT
1 TCGAACTCAAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCCATGCTGCAAATGATGTGCCT
17101 TGGAGCTGAGCGTAG
66 TGGAGCTGAGCGTAG
* ** *
17116 TCGAACTCATAGGTCTTTGGCAGATAGCCCTTCTCGACTTATTCTATGCTGCAAATGATGTGCCT
1 TCGAACTCAAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCCATGCTGCAAATGATGTGCCT
17181 TGGAGCTGAGCGTAG
66 TGGAGCTGAGCGTAG
17196 TCGAACTCAAAGGTCTTTGG
1 TCGAACTCAAAGGTCTTTGG
17216 TTGGGCACGA
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
80 92 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (80 bp):
TCGAACTCAAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCCATGCTGCAAATGATGTGCCT
TGGAGCTGAGCGTAG
Found at i:17932 original size:105 final size:106
Alignment explanation
Indices: 17269--18457 Score: 1938
Period size: 106 Copynumber: 11.3 Consensus size: 106
17259 CCCATTCTTT
* * * * * * **
17269 GTGAGGTTGAACTTGCGTTGTCTTGAATCCAATATCCTTTGCTATGAAGTTGAAATTAACTCTGA
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
* * * *
17334 AATTGGGAAATTATTTATTGACAACCAGCGGTCCCTTCGTC
66 AATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC
* * *
17375 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATGTCCTTTGCTGTGAAGTTGAAATTGGCTCTGA
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
17440 AATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC
66 AATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC
17481 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
*
17546 AATTGAGAAGTTGTTTGTTGACTACCAGCGGTCCCTTCGTC
66 AATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC
* * *
17587 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAGTATCCTTCGTTGTAAAGTTGAAATTGGCTCTGG
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
* *
17652 ATTTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTC
66 AATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC
*
17693 GTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
17758 AATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC
66 AATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC
* ***
17799 GTGAAGTTGAACATGCGTTGTAAAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
*
17864 AATTGGGAAGTTG-TTGTTGACAACCAGCGGTCCCTTCGTC
66 AATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC
* ** *
17904 GTGAAGTTGAACATGCGTTGTCAAGAGTCCAATATCCTTCGTTGCGAAGTTGAAATTGGCTCTGA
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
*
17969 AATTGGGAAGTTG-TTGTTGACAACCAGCGGTCCCTTCGTC
66 AATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC
* ** *
18009 GTGAAGTTGAACATGCGTTGTCAAGAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGA
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
*
18074 AATTGGGAAGTTG-TTGTTGACAACCAGCGGTCCCTTCGTC
66 AATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC
*
18114 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
18179 AATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC
66 AATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC
*
18220 GTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
*
18285 AATTGAGAA-ATGTTTGTTGACAACCAGCGGTCCCTTCGTC
66 AATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC
* *
18325 GTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGA
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
* *
18390 AATCGAGAA-ATGTTTGTTGACAACCAGCGGTCCCTTCGTC
66 AATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC
*
18430 GTGAAGTTGAACTTGCGTTGTCTCGAGT
1 GTGAAGTTGAACTTGCGTTGTCTGGAGT
18458 GGCACGATAC
Statistics
Matches: 1032, Mismatches: 50, Indels: 3
0.95 0.05 0.00
Matches are distributed among these distances:
105 462 0.45
106 570 0.55
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (106 bp):
GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
AATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC
Found at i:18193 original size:421 final size:424
Alignment explanation
Indices: 17269--21071 Score: 2575
Period size: 421 Copynumber: 8.9 Consensus size: 424
17259 CCCATTCTTT
* * * * * **
17269 GTGAGGTTGAACTTGCGTTGTCTTGAATCCAATATCCTTTGCTATGAAGTTGAAATTAACTCTGA
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA
* * * * *
17334 AATTGGGAAATTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 AATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTG
* * *
17399 GAGTCCAATGTCCTTTGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
131 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
17464 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
196 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
*
17529 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACTACCAGCGGTCCCTTCGTCGTGAAGT
261 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
** * * * *
17594 TGAACTTGCGTTGTCTGGAGTCCAGTATCCTTCGTTGTAAAGTTGAAATTGGCTCTGGATTTGAG
326 TGAACTTGCGTTGTCAAGAGTCCAATATCATTCGTTGTAAAGTTGAAATTGGCTCTGAAATTGAG
17659 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTC
391 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTC
* *
17693 GTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA
***
17758 AATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTAAA
66 AATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTG
*
17823 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAA
131 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
* ** *
17887 CCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAGAGTCCAATATCCTTCGTTGCGAA
196 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
*
17952 GTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
261 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
* * *
18016 TGAACATGCGTTGTCAAGAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGG
326 TGAACTTGCGTTGTCAAGAGTCCAATATCATTCGTTGTAAAGTTGAAATTGGCTCTGAAATTGAG
*
18081 AAGTTG-TTGTTGACAACCAGCGGTCCCTTCGTC
391 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTC
18114 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA
18179 AATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTG
66 AATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTG
*
18244 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATGTTTGTTGACAA
131 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
*
18308 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
196 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
* * *
18373 GTTGAAATTGACTCTGAAATCGAGAA-ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
261 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
** * * * * * ** *
18437 TGAACTTGCGTTGTCTCGAGTGGCACGATACCCTCCGTCGTGGAGTTGAAATCGCGGATGGCCCT
326 TGAACTTGCGTTGTCAAGAGT--C-CAATATCATTCGTTGTAAAGTTGAAAT------TGGCTCT
**** ** **** *** ***
18502 TTCGTTTTGAAGTTGAGCCTTGAC-TTGA-ATAT-CCTTCGTC
382 GAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTC
* * * *
18542 GTGAAGTTGAAATTG-GCTCTGGATTTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCG-TC
1 GTGAAGTTGAACTTGCG-T-T-G-TCTG-G-A---G-----T-CCAA-TA----T-CCTTCGCT-
* * * ** ** * ** ** *** *
18605 GTGAAGTTGAACA-TGCGTTGTCTGGAGTCCA-ATA-TCCTTCGTTG-TGA--AGTTG-AAATTG
44 GTGAAGTTGAA-ATTG-G--CTCTGAAATTGAGA-AGTTGTTTGTTGACAACCAGCGGTCCCTTC
* * ** *** *
18663 GCTC-TGAAATTGAGA-A---GTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
104 G-TCGTGAAGTTGA-ACATGCGTTGTCTG--GA-GTCCA-ATAT-CCTTCGTTGTGAAGTTGAA-
* * ** ** *** *
18723 A-T-GCGT-TGTAAA--GAGTCCAA-TATCCTTCGTTG-TGA--AGTTG-AAATTGGCTC-TGAA
161 ATTGGC-TCTG-AAATTGAG---AAGT-T-GTTTGTTGACAACCAGCGGTCCCTTCG-TCGTGAA
* * ** *** * * *
18777 ATTGGGAAGTT--GTTGT-T-GACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACA-TGCGTTGT
218 GTT--GAACTTGCGTTGTCTGGA-GTCCA-ATAT-CCTTCGTTGTGAAGTTGAA-ATTG-GCTCT
* ** ** * * ** *** * * *
18837 CAAGAGTCCA-ATA-TCCTTCGTTG-CGA--AGTTG-AAATTGGCTC-TGAAATTGGGAAGTTGT
276 GAA-A-TTGAGA-AGTTGTTTGTTGACAACCAGCGGTCCCTTCG-TCGTGAAGTT--GAACTTG-
* * * ** * * * * * * * **
18895 TGTTGACAACCAG--CGGT-CCCTTCGTCGTGAAGTTGAACA-TGCGTTGTCAAGAGTCCA-ATA
334 CGTTGTCAA-GAGTCCAATATCATTCGTTGTAAAGTTGAA-ATTG-GCTCTGAA-A-TTGAGA-A
** ** ** ** *** *
18955 -TCATTCGTTG-TGA--AGTTG-AAATTGGCTC
393 GTTGTTTATTGACAACCAGCGGTCCCTTCG-TC
* * * * ** * **
18983 -TGAAATTGGGAAGTT--GTTGT-T-GA---CAACCAGCGGTCCCT-TCGTCG-TG-AA---G-T
1 GTGAAGTT--GAACTTGCGTTGTCTGGAGTCCAA-TATCCTTCGCTGT-GAAGTTGAAATTGGCT
* * * ** ***
19033 -TGAACTT--G-CGTTGTCTG--GA-GTCCA-ATAT-CCTTCG-CTGTGAAGTTGAA-ATTG-G-
62 CTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC-GTGAAGTTGAACA-TGCGT
* * * ** ** * ** ** *** * *
19085 -CTCTGAAATTGAGA-AGTTGTTTGTTGACAACCAGCGGTCCCTTCG-TCGTGAAGTTGA-ACA-
125 TGTCTGGAGTCCA-ATA-TCCTTCGTTG-TGA--AGTTG-AAATTGGCTC-TGAAATTGAGA-AG
* ** *** * * * * * **
19145 -TGCGTTGTCTGGA-GTCCA-ATAT-CCTTCGTTGTGAAGTTGAAATTG-G--CTCTGAAATTGA
182 TTG-TTTGT-T-GACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * * ** ** *** * * *
19203 GAAAT-GTTTGTTGACAACCAGCGGTCCCTTCG-TCGTGAAGTT--GAACTTACG-TTGTCTGGA
244 -ATATCCTTCGTTG-TGA--AGTTG-AAATTGGCTC-TGAAATTGAGAAGTT--GTTTGT-T-GA
** *** * * * * * *
19263 -GTCCA-ATAT-CCTTCGTTGTGAAGTTGAAATTGAC-TCTG--AA-A-TCGAGAAAT-GTTTGT
299 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG-CGT-TGTCAAGAGTCCA-ATATCATTCGT
* ** *** * * * * * **** *
19319 TGACAACCAGCGGTCCCTTCG-TCGTGAAGTT--GAACTTGCGTTGTCTCGAGTGGCA-CGATAC
361 TG-TAA--AGTTG-AAATTGGCTC-TGAAATTGAGAAGTT--GTT-TATTGACAACCAGCGGT-C
*
19380 CCTCCGTC
417 CCTTCGTC
* * * * * * ** ** *
19388 GTGGAGTTGAAATCGCGGATGGCCCTTTCGTTTTGAAGTTGAGCCTT-GACT-TGAATATCCTTC
1 GTGAAGTTGAACTTGC-G-TTG---TCTGGAGTCCAA--T-ATCCTTCG-CTGTG-A-A------
* * * *
19451 GTCGTGAAGTTGAAATTGGCTCTGGATTTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGT
49 GT--TGAAATT------GGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGT
19516 CGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
106 CGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
* **
19581 AAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTAA
171 AAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
19646 AGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACA
236 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACA
* * **
19710 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAGAGTCCAATATCCTTCGTTGCGA
301 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCAAGAGTCCAATATCATTCGTTGTAA
* *
19775 AGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAACCAGCGGTCCCTTCGTC
366 AGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTC
* ** * *
19833 GTGAAGTTGAACATGCGTTGTCAAGAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGA
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA
* * *
19898 AATTGGGAAGTTG-TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAATTGAACTTGCGTTGTCTG
66 AATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTG
*
19962 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
131 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
*
20027 CCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
196 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
*
20092 GTTGAAATTGGCTCTGAAATTGAGAA-ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
261 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
* ** * * * *
20156 TGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAG
326 TGAACTTGCGTTGTCAAGAGTCCAATATCATTCGTTGTAAAGTTGAAATTGGCTCTGAAATTGAG
* *
20221 AA-ATGTTTGTTGACAACCAGCGGTCCCTTCGTC
391 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTC
*
20254 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA
* *
20319 AATTGAGAAGTTG-TTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 AATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTG
* *
20383 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA---GTTTGTTGACAA
131 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
* * *
20445 CCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTGGAGTCCAATATCCTTCGATGTGAA
196 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
* *
20510 GTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
261 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
** * *
20575 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
326 TGAACTTGCGTTGTCAAGAGTCCAATATCATTCGTTGTAAAGTTGAAATTGGCTCTGAAATTGAG
* *
20640 AAGTTGTTTGTTGACAACCAGTGGTCCCTTCGTC
391 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTC
* *
20674 GTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA
* * *
20739 AATTGAGAAGTTGTTTGTTGACAACCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
66 AATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTG
* * * * *
20804 GAGTCCACTATCCTTCGCTGTGAAGTTGAAATTGACTCT-ACAATTG-GAAAATTGTTTATTGAC
131 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA-AATTGAG-AAGTTGTTTGTTGAC
20867 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTG
194 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTG
20932 AAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAA
259 AAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAA
* * * *
20997 GTTGAACATGCGTTGTCAAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTG
324 GTTGAACTTGCGTTGTCAAGAGTCCAATATCATTCGTTGTAAAGTTGAAATTGGCTCTGAAATTG
*
21062 GGAAGTTGTT
389 AGAAGTTGTT
21072 GAGGTGTAGC
Statistics
Matches: 2658, Mismatches: 474, Indels: 494
0.73 0.13 0.14
Matches are distributed among these distances:
397 1 0.00
398 2 0.00
399 21 0.01
400 18 0.01
401 27 0.01
402 33 0.01
403 40 0.02
404 13 0.00
405 6 0.00
406 11 0.00
407 2 0.00
408 2 0.00
410 1 0.00
411 1 0.00
412 1 0.00
413 2 0.00
414 1 0.00
415 3 0.00
416 7 0.00
417 2 0.00
418 107 0.04
419 100 0.04
420 116 0.04
421 933 0.35
422 113 0.04
423 101 0.04
424 388 0.15
425 1 0.00
427 1 0.00
428 31 0.01
429 3 0.00
430 19 0.01
431 8 0.00
432 1 0.00
433 2 0.00
434 1 0.00
436 3 0.00
437 7 0.00
438 6 0.00
439 5 0.00
440 23 0.01
441 10 0.00
442 11 0.00
443 16 0.01
444 1 0.00
445 54 0.02
446 53 0.02
447 77 0.03
448 144 0.05
449 39 0.01
450 37 0.01
451 53 0.02
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (424 bp):
GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA
AATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTG
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
TGAACTTGCGTTGTCAAGAGTCCAATATCATTCGTTGTAAAGTTGAAATTGGCTCTGAAATTGAG
AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTC
Found at i:18844 original size:105 final size:106
Alignment explanation
Indices: 18529--19369 Score: 1413
Period size: 105 Copynumber: 8.0 Consensus size: 106
18519 CCTTGACTTG
* * * *
18529 AATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGGATTTGAGAAGTTGTTTATTGACAACCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
18594 GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
66 GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
18635 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
***
18700 GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTAAAGAGTCC
66 GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
*
18741 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAACCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
**
18805 GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAGAGTCC
66 GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
* *
18846 AATATCCTTCGTTGCGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAACCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
**
18910 GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAGAGTCC
66 GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
* *
18951 AATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAACCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
*
19015 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
66 GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
*
19056 AATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
19121 GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
66 GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
*
19162 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATGTTTGTTGACAACCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
* *
19226 GTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCC
66 GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
* * *
19267 AATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAA-ATGTTTGTTGACAACCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
* *
19331 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGT
66 GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGT
19370 GGCACGATAC
Statistics
Matches: 707, Mismatches: 27, Indels: 3
0.96 0.04 0.00
Matches are distributed among these distances:
105 462 0.65
106 245 0.35
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.32
Consensus pattern (106 bp):
AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
Found at i:18936 original size:316 final size:318
Alignment explanation
Indices: 18529--19362 Score: 1417
Period size: 316 Copynumber: 2.6 Consensus size: 318
18519 CCTTGACTTG
* * * *
18529 AATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGGATTTGAGAAGTTGTTTATTGACAACCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
18594 GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
66 GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
*
18659 ATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACA
131 ATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
* *
18724 TGCGTTGTAAAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG
196 TGCGTTGTAAAGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG
18789 -TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAGAGTCC
261 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAGAGTCC
* *
18846 AATATCCTTCGTTGCGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAACCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
** *
18910 GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAGAGTCCAATATCATTCGTTGTGAAGTTGAA
66 GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
*
18975 ATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
131 ATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
***
19039 TGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG
196 TGCGTTGTAAAGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG
**
19104 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
261 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAGAGTCC
*
19162 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATGTTTGTTGACAACCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
* *
19226 GTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
66 GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
* * *
19291 ATTGACTCTGAAATCGAGAA-ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
131 ATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
19355 TGCGTTGT
196 TGCGTTGT
19363 CTCGAGTGGC
Statistics
Matches: 484, Mismatches: 30, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
315 103 0.21
316 338 0.70
317 43 0.09
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (318 bp):
AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
ATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
TGCGTTGTAAAGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG
TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAGAGTCC
Found at i:19381 original size:912 final size:912
Alignment explanation
Indices: 17619--21061 Score: 5975
Period size: 912 Copynumber: 3.7 Consensus size: 912
17609 TGGAGTCCAG
* *
17619 TATCCTTCGTTGTAAAGTTGAAATTGGCTCTGGATTTGAGAAGTTGTTTATTGACAACCAGCGGT
1 TATCCTTCGTCGTGAAGTTGAAATTGGCTCTGGATTTGAGAAGTTGTTTATTGACAACCAGCGGT
17684 CCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAAT
66 CCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAAT
17749 TGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATG
131 TGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATG
17814 CGTTGTAAAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTT
196 CGTTGTAAAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTT
17879 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAGAGTCCAATATCCTTC
261 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAGAGTCCAATATCCTTC
17944 GTTGCGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTC
326 GTTGCGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTC
18009 GTGAAGTTGAACATGCGTTGTCAAGAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGA
391 GTGAAGTTGAACATGCGTTGTCAAGAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGA
18074 AATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
456 AATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
18139 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
521 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
18204 CAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
586 CAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
18269 TTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
651 TTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
18334 AACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAA
716 AACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAA
18399 ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTGGCACG
781 ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTGGCACG
18464 ATACCCTCCGTCGTGGAGTTGAAATCGCGGATGGCCCTTTCGTTTTGAAGTTGAGCCTTGACTTG
846 ATACCCTCCGTCGTGGAGTTGAAATCGCGGATGGCCCTTTCGTTTTGAAGTTGAGCCTTGACTTG
18529 AA
911 AA
18531 TATCCTTCGTCGTGAAGTTGAAATTGGCTCTGGATTTGAGAAGTTGTTTATTGACAACCAGCGGT
1 TATCCTTCGTCGTGAAGTTGAAATTGGCTCTGGATTTGAGAAGTTGTTTATTGACAACCAGCGGT
18596 CCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAAT
66 CCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAAT
18661 TGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATG
131 TGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATG
18726 CGTTGTAAAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTT
196 CGTTGTAAAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTT
18791 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAGAGTCCAATATCCTTC
261 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAGAGTCCAATATCCTTC
18856 GTTGCGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTC
326 GTTGCGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTC
18921 GTGAAGTTGAACATGCGTTGTCAAGAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGA
391 GTGAAGTTGAACATGCGTTGTCAAGAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGA
18986 AATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
456 AATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
19051 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
521 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
19116 CAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
586 CAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
19181 TTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
651 TTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
19246 AACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAA
716 AACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAA
19311 ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTGGCACG
781 ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTGGCACG
19376 ATACCCTCCGTCGTGGAGTTGAAATCGCGGATGGCCCTTTCGTTTTGAAGTTGAGCCTTGACTTG
846 ATACCCTCCGTCGTGGAGTTGAAATCGCGGATGGCCCTTTCGTTTTGAAGTTGAGCCTTGACTTG
19441 AA
911 AA
19443 TATCCTTCGTCGTGAAGTTGAAATTGGCTCTGGATTTGAGAAGTTGTTTATTGACAACCAGCGGT
1 TATCCTTCGTCGTGAAGTTGAAATTGGCTCTGGATTTGAGAAGTTGTTTATTGACAACCAGCGGT
19508 CCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAAT
66 CCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAAT
19573 TGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATG
131 TGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATG
19638 CGTTGTAAAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTT
196 CGTTGTAAAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTT
19703 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAGAGTCCAATATCCTTC
261 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAGAGTCCAATATCCTTC
19768 GTTGCGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTC
326 GTTGCGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTC
19833 GTGAAGTTGAACATGCGTTGTCAAGAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGA
391 GTGAAGTTGAACATGCGTTGTCAAGAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGA
*
19898 AATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAATTGAACTTGCGTTGTCTGG
456 AATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
19963 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
521 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
20028 CAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
586 CAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
20093 TTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
651 TTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
20158 AACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAA
716 AACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAA
* *
20223 ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT--C-CA
781 ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTGGCACG
* * * * *
20285 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGGT
846 ATACCCTCCGTCGTGGAGTTGAAA-----TC-G----CG-G-A-----TG--G-C---C--C--T
** * * *
20350 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAA
884 ---TTCGTTTTGAAGTTG-A---GCCTTGACT----T-GAA
* * * *
20391 TATCCTTCG-CTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA---GTTTGTTGACAACCAGCGG
1 TATCCTTCGTC-GTGAAGTTGAAATTGGCTCTGGATTTGAGAAGTTGTTTATTGACAACCAGCGG
* *
20452 TCCCTTCGTCGTGAAGTTGAACATACGTTGTCTGGAGTCCAATATCCTTCGATGTGAAGTTGAAA
65 TCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
* * *
20517 TTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
130 TTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACAT
*** *
20582 GCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGT
195 GCGTTGTAAAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-
* * * **
20647 TTGTTGACAACCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCT
259 TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAGAGTCCAATATCCT
* * *
20712 TCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGTGGTCCCTTC
324 TCGTTGCGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAACCAGCGGTCCCTTC
* * ** * * * *
20777 GTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCACTATCCTTCGCTGTGAAGTTGAAATTGACTC
388 GTCGTGAAGTTGAACATGCGTTGTCAAGAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTC
* * *
20842 T-ACAATTGGAAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
453 TGA-AATTGGGAAGTTG-TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
*
20906 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTG
516 TCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTG
**
20971 ACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAGAGTCCAATATCCTTCGTTG
581 ACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTG
*
21036 TGAAGTTGAAATTGGCTCTAAAATTG
646 TGAAGTTGAAATTGGCTCTGAAATTG
21062 GGAAGTTGTT
Statistics
Matches: 2435, Mismatches: 52, Indels: 52
0.96 0.02 0.02
Matches are distributed among these distances:
909 21 0.01
910 1 0.00
912 1747 0.72
914 2 0.00
915 1 0.00
919 1 0.00
920 1 0.00
921 1 0.00
926 2 0.00
928 1 0.00
929 1 0.00
932 1 0.00
934 1 0.00
936 1 0.00
939 13 0.01
940 1 0.00
943 7 0.00
945 203 0.08
946 99 0.04
947 94 0.04
948 236 0.10
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (912 bp):
TATCCTTCGTCGTGAAGTTGAAATTGGCTCTGGATTTGAGAAGTTGTTTATTGACAACCAGCGGT
CCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAAT
TGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATG
CGTTGTAAAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTT
GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAGAGTCCAATATCCTTC
GTTGCGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTC
GTGAAGTTGAACATGCGTTGTCAAGAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGA
AATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
TTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
AACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAA
ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTGGCACG
ATACCCTCCGTCGTGGAGTTGAAATCGCGGATGGCCCTTTCGTTTTGAAGTTGAGCCTTGACTTG
AA
Found at i:19756 original size:105 final size:106
Alignment explanation
Indices: 19441--21071 Score: 2717
Period size: 106 Copynumber: 15.5 Consensus size: 106
19431 CCTTGACTTG
* * * *
19441 AATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGGATTTGAGAAGTTGTTTATTGACAACCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
*
19506 GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
66 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
19547 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
* ***
19612 GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTAAAGAGTCC
66 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
*
19653 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAACCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
* **
19717 GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAGAGTCC
66 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
* *
19758 AATATCCTTCGTTGCGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAACCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
* **
19822 GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAGAGTCC
66 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
* *
19863 AATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAACCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
*
19927 GTCCCTTCGTCGTGAAATTGAACTTGCGTTGTCTGGAGTCC
66 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
*
19968 AATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
*
20033 GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
66 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
*
20074 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATGTTTGTTGACAACCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
*
20138 GTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCC
66 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
* * *
20179 AATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAA-ATGTTTGTTGACAACCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
20243 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
66 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
*
20284 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAAGCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
20348 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
66 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
* *
20389 AATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA---GTTTGTTGACAACCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
* *
20451 GTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTGGAGTCC
66 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
* * *
20492 AATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
20557 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
66 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
*
20598 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGTG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
*
20663 GTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCC
66 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
*
20704 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGTG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
*
20769 GTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCC
66 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
* * * * *
20810 ACTATCCTTCGCTGTGAAGTTGAAATTGACTCT-ACAATTG-GAAAATTGTTTATTGACAACCAG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA-AATTGAG-AAGTTGTTTGTTGACAACCAG
20873 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
64 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
20916 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
* **
20981 GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAGAGTCC
66 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
* *
21022 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGGGAAGTTGTT
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTT
21072 GAGGTGTAGC
Statistics
Matches: 1452, Mismatches: 63, Indels: 20
0.95 0.04 0.01
Matches are distributed among these distances:
102 1 0.00
103 97 0.07
105 606 0.42
106 746 0.51
107 2 0.00
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (106 bp):
AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
Found at i:24894 original size:16 final size:16
Alignment explanation
Indices: 24873--24915 Score: 86
Period size: 16 Copynumber: 2.7 Consensus size: 16
24863 TGAAAGTTAA
24873 AAATCTATAAAAGTTG
1 AAATCTATAAAAGTTG
24889 AAATCTATAAAAGTTG
1 AAATCTATAAAAGTTG
24905 AAATCTATAAA
1 AAATCTATAAA
24916 CATTAGTGGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.53, C:0.07, G:0.09, T:0.30
Consensus pattern (16 bp):
AAATCTATAAAAGTTG
Found at i:25777 original size:37 final size:37
Alignment explanation
Indices: 25705--25788 Score: 102
Period size: 37 Copynumber: 2.3 Consensus size: 37
25695 ACATAATTTA
* *
25705 TTATTATATATATATATATATATATATTCGATATATT
1 TTATTATATATATATATATATATATAATAGATATATT
*
25742 TTATTAAATATATAT-TAATATATATAAATAG-TATATT
1 TTATTATATATATATAT-ATATATAT-AATAGATATATT
25779 TT-TTATATAT
1 TTATTATATAT
25789 GGATATAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
36 8 0.20
37 30 0.73
38 3 0.07
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (37 bp):
TTATTATATATATATATATATATATAATAGATATATT
Found at i:26438 original size:3 final size:3
Alignment explanation
Indices: 26430--26520 Score: 110
Period size: 3 Copynumber: 29.7 Consensus size: 3
26420 TTCATTTAAA
* * *
26430 TAT TAT TAT TAT TAT TAT TAT TAT AAT TAT TAT TAT TAT AAT TAT AAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
26478 TACT AAT TAT TAT TAT TAC TAA TAT TAT TAT TAAT TAT TAT TA
1 TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TA
26521 CAAACGGGCC
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
3 70 0.93
4 5 0.07
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:27840 original size:13 final size:13
Alignment explanation
Indices: 27824--27863 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
27814 ATATAATAAA
27824 TAAATATTTATTT
1 TAAATATTTATTT
*
27837 TAAATAAATTATTT
1 TAAAT-ATTTATTT
27851 T-AATATTTATTT
1 TAAATATTTATTT
27863 T
1 T
27864 TCAATATCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 8 0.33
13 8 0.33
14 8 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:42608 original size:20 final size:20
Alignment explanation
Indices: 42580--42664 Score: 100
Period size: 20 Copynumber: 4.2 Consensus size: 20
42570 GCGGAAATCA
*
42580 CAACGCGAATATGACTATCG
1 CAACGCGAAAATGACTATCG
*
42600 CAACACGAAAATGACTATCG
1 CAACGCGAAAATGACTATCG
* * * *
42620 CAATGTGGAATTGACTATCG
1 CAACGCGAAAATGACTATCG
42640 CAACGC-ATAAATGACTATCG
1 CAACGCGA-AAATGACTATCG
42660 CAACG
1 CAACG
42665 AGAGAATCGC
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.20
Consensus pattern (20 bp):
CAACGCGAAAATGACTATCG
Found at i:42652 original size:40 final size:41
Alignment explanation
Indices: 42586--42662 Score: 122
Period size: 40 Copynumber: 1.9 Consensus size: 41
42576 ATCACAACGC
42586 GAATATGACTATCGCAACACGAAAATGACTATCGCAATGTG
1 GAATATGACTATCGCAACACGAAAATGACTATCGCAATGTG
*
42627 GAAT-TGACTATCGCAACGC-ATAAATGACTATCGCAA
1 GAATATGACTATCGCAACACGA-AAATGACTATCGCAA
42663 CGAGAGAATC
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
39 1 0.03
40 29 0.85
41 4 0.12
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.22
Consensus pattern (41 bp):
GAATATGACTATCGCAACACGAAAATGACTATCGCAATGTG
Found at i:42693 original size:19 final size:20
Alignment explanation
Indices: 42669--42715 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
42659 GCAACGAGAG
*
42669 AATCGCAATG-GGAAATGAA
1 AATCGCAATGCGAAAATGAA
42688 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCGAAAATGAA
42708 AATCGCAA
1 AATCGCAA
42716 CGCAAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.49, C:0.15, G:0.21, T:0.15
Consensus pattern (20 bp):
AATCGCAATGCGAAAATGAA
Found at i:42705 original size:53 final size:54
Alignment explanation
Indices: 42616--42717 Score: 127
Period size: 53 Copynumber: 1.9 Consensus size: 54
42606 GAAAATGACT
* ** **
42616 ATCGCAATGTGGAATTGACTATCGCAACGCATAAATGACTATCGCAACGAGAGA
1 ATCGCAATGTGGAAATGAAAATCGCAACGCATAAATGAAAATCGCAACGAGAGA
*
42670 ATCGCAATG-GGAAATGAAAATCGCAATGCGA-AAATGAAAATCGCAACG
1 ATCGCAATGTGGAAATGAAAATCGCAACGC-ATAAATGAAAATCGCAACG
42718 CAAAATTAGT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
53 31 0.76
54 10 0.24
ACGTcount: A:0.41, C:0.19, G:0.23, T:0.18
Consensus pattern (54 bp):
ATCGCAATGTGGAAATGAAAATCGCAACGCATAAATGAAAATCGCAACGAGAGA
Found at i:42795 original size:33 final size:33
Alignment explanation
Indices: 42737--42827 Score: 101
Period size: 33 Copynumber: 2.7 Consensus size: 33
42727 TTTCGCATTA
* **
42737 CGATTTTCATTTTCGTATTATGATTCACTCGTTG
1 CGATTTTCA-TTTCGCATTGCGATTCACTCGTTG
*
42771 CGATTTTCATTTCGCATTGCGATTCTCTCGTTG
1 CGATTTTCATTTCGCATTGCGATTCACTCGTTG
** *
42804 CGATAGTCATTTCCGCGTTGCGAT
1 CGATTTTCATTT-CGCATTGCGAT
42828 AGTCTGTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
33 30 0.61
34 19 0.39
ACGTcount: A:0.15, C:0.22, G:0.19, T:0.44
Consensus pattern (33 bp):
CGATTTTCATTTCGCATTGCGATTCACTCGTTG
Found at i:43007 original size:34 final size:34
Alignment explanation
Indices: 42969--43064 Score: 131
Period size: 33 Copynumber: 2.9 Consensus size: 34
42959 ATTAGTTTCA
42969 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
*
43003 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
* ** * *
43036 CGTTACGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
43065 AGTCTGTTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
33 29 0.53
34 26 0.47
ACGTcount: A:0.15, C:0.24, G:0.20, T:0.42
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
Found at i:43113 original size:237 final size:237
Alignment explanation
Indices: 42698--43172 Score: 860
Period size: 237 Copynumber: 2.0 Consensus size: 237
42688 AATCGCAATG
* * *
42698 CGAAAATGAAAATCGCAACGCAAAATTAGTTTCGCATTACGATTTTCATTTTCGTATTATGATTC
1 CGAAAATGAAAATCGCAACGCAAAATTAGTTTCACATTACGATTTTCATTTTCGCATTACGATTC
*
42763 ACTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTCATTTCCGCGTTGCGAT
66 ACTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTACGATAGTCATTTCCGCGTTGCGAT
*
42828 AGTCTGTTTTGCATTCAATATAATGCAGATTGAAATCAACAAATCAACTATTACATTTCAATCAA
131 AGTCTGTTTTGCATTCAACATAATGCAGATTGAAATCAACAAATCAACTATTACATTTCAATCAA
42893 TTAAACAAGCACAAATATTATGTACACATCAATTAAACAAAT
196 TTAAACAAGCACAAATATTATGTACACATCAATTAAACAAAT
** * * *
42935 CGAAAATGAAAATCGCAACGTGAAATTAGTTTCACGTTGCGATTTTCATTTTCGCATTGCGATTC
1 CGAAAATGAAAATCGCAACGCAAAATTAGTTTCACATTACGATTTTCATTTTCGCATTACGATTC
43000 ACTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTACGATAGTCATTTCCGCGTTGCGAT
66 ACTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTACGATAGTCATTTCCGCGTTGCGAT
43065 AGTCTGTTTTGCATTCAACATAATGCAGATTGAAATCAACAAATCAACTATTACATTTCAATCAA
131 AGTCTGTTTTGCATTCAACATAATGCAGATTGAAATCAACAAATCAACTATTACATTTCAATCAA
43130 TTAAACAAGCACAAATATTATGTACACATCAATTAAACAAAT
196 TTAAACAAGCACAAATATTATGTACACATCAATTAAACAAAT
43172 C
1 C
43173 AACATTTACA
Statistics
Matches: 228, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
237 228 1.00
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.34
Consensus pattern (237 bp):
CGAAAATGAAAATCGCAACGCAAAATTAGTTTCACATTACGATTTTCATTTTCGCATTACGATTC
ACTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTACGATAGTCATTTCCGCGTTGCGAT
AGTCTGTTTTGCATTCAACATAATGCAGATTGAAATCAACAAATCAACTATTACATTTCAATCAA
TTAAACAAGCACAAATATTATGTACACATCAATTAAACAAAT
Found at i:44650 original size:42 final size:42
Alignment explanation
Indices: 44571--44663 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
44561 CCTCTTCAAC
* * *
44571 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGATGGGAGAGGACTCTTGAGG
* * **
44613 GATGATAGGGGCCTCTTGAACGATAGGG-GAGGCCTCTTGAAC
1 GATGACAGGGGCCTCTTGAACGAT-GGGAGAGGACTCTTGAGG
44655 GATGACAGG
1 GATGACAGG
44664 TGAGTCGGTC
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 39 0.93
43 3 0.07
ACGTcount: A:0.23, C:0.17, G:0.40, T:0.20
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGATGGGAGAGGACTCTTGAGG
Found at i:45166 original size:20 final size:20
Alignment explanation
Indices: 45143--45189 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
45133 GAAACTTAAA
45143 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
**
45163 ATCGCAATGCGAATTTGACT
1 ATCGCAATGCGAAAATGACT
45183 ATCGCAA
1 ATCGCAA
45190 CGAGAGAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.23
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:45265 original size:20 final size:20
Alignment explanation
Indices: 45236--45359 Score: 152
Period size: 20 Copynumber: 6.5 Consensus size: 20
45226 GATTCTTTCG
**
45236 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
*
45256 TTGTGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
45276 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
* *
45296 TTGC-A-ATTC--TCTCG--
1 TTGCGATAGTCATTTTCGCA
*
45310 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
45330 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
45350 TTGCGATAGT
1 TTGCGATAGT
45360 AAACTATTAT
Statistics
Matches: 89, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
14 4 0.04
15 1 0.01
16 7 0.08
18 7 0.08
19 1 0.01
20 69 0.78
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.40
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:45318 original size:74 final size:73
Alignment explanation
Indices: 45198--45359 Score: 225
Period size: 74 Copynumber: 2.2 Consensus size: 73
45188 AACGAGAGAA
* ** * * * *
45198 TCGCAATGCGATTTTCATTTCGTATTGCGATTCTTTCGTTGCGATAGTCAAATTCGCATTGTGAT
1 TCGCATTGCGATAGTCATTTCGCATTGCAATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGAT
45263 AGTCATTT
66 AGTCATTT
** *
45271 TCGCATTGCGATAGTCATTTTCGCATTGCAATTCTCTCGTTGCGATAGTCATTTTCGCGTTGCGA
1 TCGCATTGCGATAGTCA-TTTCGCATTGCAATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGA
45336 TAGTCATTT
65 TAGTCATTT
45345 TCGCATTGCGATAGT
1 TCGCATTGCGATAGT
45360 AAACTATTAT
Statistics
Matches: 78, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
73 14 0.18
74 64 0.82
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.41
Consensus pattern (73 bp):
TCGCATTGCGATAGTCATTTCGCATTGCAATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGAT
AGTCATTT
Found at i:47296 original size:20 final size:20
Alignment explanation
Indices: 47238--47307 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 20
47228 GAAACTTTAA
* **
47238 ATCGCAACACGAAAATGAAA
1 ATCGCAACGCGAAAATGACT
*
47258 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
47278 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
47298 ATCGCAACGC
1 ATCGCAACGC
47308 AAGAATCGCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.41, C:0.26, G:0.17, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:47376 original size:20 final size:20
Alignment explanation
Indices: 47351--47397 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
47341 GATTCTCTCG
47351 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
** *
47371 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
47391 TTGCGAT
1 TTGCGAT
47398 TCACTCGTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:47790 original size:22 final size:22
Alignment explanation
Indices: 47729--47790 Score: 62
Period size: 18 Copynumber: 3.0 Consensus size: 22
47719 TGACCGTGAA
* *
47729 TGATTTCGCCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGGGAC
47751 TG-TTATCGTC---G-TGGGGAC
1 TGATT-TCGTCGGAGATGGGGAC
47769 TGATTTCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
47791 GGATGTCGCC
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
18 13 0.41
19 3 0.09
21 3 0.09
22 13 0.41
ACGTcount: A:0.18, C:0.16, G:0.39, T:0.27
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:47991 original size:20 final size:20
Alignment explanation
Indices: 47966--48042 Score: 154
Period size: 20 Copynumber: 3.9 Consensus size: 20
47956 TCGCTATGTA
47966 AATCGCATTGCGATTTACGT
1 AATCGCATTGCGATTTACGT
47986 AATCGCATTGCGATTTACGT
1 AATCGCATTGCGATTTACGT
48006 AATCGCATTGCGATTTACGT
1 AATCGCATTGCGATTTACGT
48026 AATCGCATTGCGATTTA
1 AATCGCATTGCGATTTA
48043 AGAAAATCGT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 57 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (20 bp):
AATCGCATTGCGATTTACGT
Found at i:48070 original size:21 final size:21
Alignment explanation
Indices: 48046--48101 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
48036 CGATTTAAGA
*
48046 AAATCGTAACGCGAATTTGGG
1 AAATCGCAACGCGAATTTGGG
*
48067 AAATCACAACGCGAATTTGGG
1 AAATCGCAACGCGAATTTGGG
*
48088 AAATCGCAATGCGA
1 AAATCGCAACGCGA
48102 TAGTCAGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.20
Consensus pattern (21 bp):
AAATCGCAACGCGAATTTGGG
Found at i:54422 original size:15 final size:17
Alignment explanation
Indices: 54402--54438 Score: 60
Period size: 15 Copynumber: 2.3 Consensus size: 17
54392 TGAAGAGTCG
54402 AAAAATCATT-A-GGAA
1 AAAAATCATTCATGGAA
54417 AAAAATCATTCATGGAA
1 AAAAATCATTCATGGAA
54434 AAAAA
1 AAAAA
54439 ACACATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 10 0.50
16 1 0.05
17 9 0.45
ACGTcount: A:0.62, C:0.08, G:0.11, T:0.19
Consensus pattern (17 bp):
AAAAATCATTCATGGAA
Found at i:58593 original size:20 final size:20
Alignment explanation
Indices: 58565--58608 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
58555 CACAATGATC
*
58565 ATTTTATAA-TAATTTGATAA
1 ATTTAATAACTAATTTG-TAA
*
58585 ATTTAATAACTATTTTGTAA
1 ATTTAATAACTAATTTGTAA
58605 ATTT
1 ATTT
58609 TAAAACTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (20 bp):
ATTTAATAACTAATTTGTAA
Found at i:58809 original size:20 final size:20
Alignment explanation
Indices: 58770--58806 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
58760 CCTAACTAAT
*
58770 TTTTTCAATTATACTATTAA
1 TTTTTCAATTAGACTATTAA
58790 TTTTT-AATTAGACTATT
1 TTTTTCAATTAGACTATT
58807 TAACTATTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.57
Consensus pattern (20 bp):
TTTTTCAATTAGACTATTAA
Found at i:73236 original size:42 final size:42
Alignment explanation
Indices: 73189--73284 Score: 192
Period size: 42 Copynumber: 2.3 Consensus size: 42
73179 TAGGGATTGC
73189 TGCTGCTGTTGATTTAAAGGAGTCTGCAATAACTGCTGAAGT
1 TGCTGCTGTTGATTTAAAGGAGTCTGCAATAACTGCTGAAGT
73231 TGCTGCTGTTGATTTAAAGGAGTCTGCAATAACTGCTGAAGT
1 TGCTGCTGTTGATTTAAAGGAGTCTGCAATAACTGCTGAAGT
73273 TGCTGCTGTTGA
1 TGCTGCTGTTGA
73285 GCCCATGTAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (42 bp):
TGCTGCTGTTGATTTAAAGGAGTCTGCAATAACTGCTGAAGT
Found at i:76779 original size:2 final size:2
Alignment explanation
Indices: 76772--76808 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
76762 TGAACTTGAC
76772 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
76809 TGATGCATGT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:79988 original size:30 final size:30
Alignment explanation
Indices: 79952--80038 Score: 174
Period size: 30 Copynumber: 2.9 Consensus size: 30
79942 TGTATTAATC
79952 TTATTTTTCATATTAGTCCTAGATCTTATT
1 TTATTTTTCATATTAGTCCTAGATCTTATT
79982 TTATTTTTCATATTAGTCCTAGATCTTATT
1 TTATTTTTCATATTAGTCCTAGATCTTATT
80012 TTATTTTTCATATTAGTCCTAGATCTT
1 TTATTTTTCATATTAGTCCTAGATCTT
80039 GTTAAAAAAG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 57 1.00
ACGTcount: A:0.23, C:0.14, G:0.07, T:0.56
Consensus pattern (30 bp):
TTATTTTTCATATTAGTCCTAGATCTTATT
Found at i:82214 original size:35 final size:35
Alignment explanation
Indices: 82168--82237 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
82158 TTTATCATCA
82168 CGAAACACAGCATATGCTGCTATAATTGTACATGT
1 CGAAACACAGCATATGCTGCTATAATTGTACATGT
82203 CGAAACACAGCATATGCTGCTATAATTGTACATGT
1 CGAAACACAGCATATGCTGCTATAATTGTACATGT
82238 TTCCCGGTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (35 bp):
CGAAACACAGCATATGCTGCTATAATTGTACATGT
Found at i:82346 original size:21 final size:21
Alignment explanation
Indices: 82320--82375 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
82310 ATTTACCGTG
*
82320 ATTGCGGCCGTCGCGGGCGCT
1 ATTGCGGCCGTCGCGGACGCT
**
82341 ATTGCGGCTATCGCGGACGCT
1 ATTGCGGCCGTCGCGGACGCT
82362 ATTGCGGCCGTCGC
1 ATTGCGGCCGTCGC
82376 AGATAACTCG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.09, C:0.32, G:0.38, T:0.21
Consensus pattern (21 bp):
ATTGCGGCCGTCGCGGACGCT
Found at i:91350 original size:34 final size:34
Alignment explanation
Indices: 91307--91372 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
91297 TTGACCTAAG
*
91307 ACATGTATGGATGTGTGTATATATAAACATATAT
1 ACATGTATGGATGCGTGTATATATAAACATATAT
*
91341 ACATGTATGGATGCGTGTATATATACACATAT
1 ACATGTATGGATGCGTGTATATATAAACATAT
91373 GCACACAAAC
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:0.36, C:0.09, G:0.18, T:0.36
Consensus pattern (34 bp):
ACATGTATGGATGCGTGTATATATAAACATATAT
Found at i:94344 original size:30 final size:27
Alignment explanation
Indices: 94310--94370 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 27
94300 ATTATTCTTA
*
94310 AATATTTAAGAATAATTATATTATTATCCT
1 AATATTTAA-AA-AATCA-ATTATTATCCT
* *
94340 AATATTTCAAAACTCAATTATTATCCT
1 AATATTTAAAAAATCAATTATTATCCT
94367 AATA
1 AATA
94371 ATTATTCTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 15 0.54
28 3 0.11
29 2 0.07
30 8 0.29
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.43
Consensus pattern (27 bp):
AATATTTAAAAAATCAATTATTATCCT
Found at i:94762 original size:20 final size:18
Alignment explanation
Indices: 94726--94768 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
94716 ATGTTATGAT
*
94726 ATATTTTTCTATCTTTTA
1 ATATTTTTCGATCTTTTA
94744 ATATGTTTTCGATCGTTTTA
1 ATAT-TTTTCGATC-TTTTA
*
94764 TTATT
1 ATATT
94769 ATTTGTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 4 0.19
19 9 0.43
20 8 0.38
ACGTcount: A:0.21, C:0.09, G:0.07, T:0.63
Consensus pattern (18 bp):
ATATTTTTCGATCTTTTA
Found at i:95058 original size:51 final size:49
Alignment explanation
Indices: 95003--95103 Score: 132
Period size: 49 Copynumber: 2.0 Consensus size: 49
94993 GATGTTGTCA
* *
95003 AATTTTTTAGTATTTAT-CTTTTATTCAAACTTTTGATTGGATTTTTTTAAT
1 AATTTTTTAATATTT-TCCTTCTA-T-AAACTTTTGATTGGATTTTTTTAAT
* *
95054 AATTTTTTAATATTTTCCTTCTATGATCTTTTGATTGGATTTTTTTAAT
1 AATTTTTTAATATTTTCCTTCTATAAACTTTTGATTGGATTTTTTTAAT
95103 A
1 A
95104 TTATATTTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
49 24 0.53
50 2 0.04
51 19 0.42
ACGTcount: A:0.25, C:0.07, G:0.08, T:0.60
Consensus pattern (49 bp):
AATTTTTTAATATTTTCCTTCTATAAACTTTTGATTGGATTTTTTTAAT
Found at i:95214 original size:29 final size:29
Alignment explanation
Indices: 95169--95234 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 29
95159 TAAAATGTAA
**
95169 GAGAAAACGAATTAATAAAATTATAGGAG
1 GAGAAAACGAACCAATAAAATTATAGGAG
95198 GAGAAAACGAACCAATAAAATTATAGGAG
1 GAGAAAACGAACCAATAAAATTATAGGAG
*
95227 GCGAAAAC
1 GAGAAAAC
95235 ATACTATCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.55, C:0.09, G:0.21, T:0.15
Consensus pattern (29 bp):
GAGAAAACGAACCAATAAAATTATAGGAG
Found at i:95376 original size:21 final size:21
Alignment explanation
Indices: 95339--95378 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
95329 CTTATTATAA
*
95339 TTATTTTTTAAATAAAAATGG
1 TTATTTTTCAAATAAAAATGG
95360 TTATTTTTGCAAA-AAAAAT
1 TTATTTTT-CAAATAAAAAT
95379 ATTTAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (21 bp):
TTATTTTTCAAATAAAAATGG
Found at i:96706 original size:18 final size:18
Alignment explanation
Indices: 96680--96718 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
96670 TTATAACCCA
* *
96680 ACCCAACCCGACCGGTTG
1 ACCCAACCCAACCCGTTG
*
96698 ACCCGACCCAACCCGTTG
1 ACCCAACCCAACCCGTTG
96716 ACC
1 ACC
96719 GACGTTGACC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.23, C:0.49, G:0.18, T:0.10
Consensus pattern (18 bp):
ACCCAACCCAACCCGTTG
Found at i:99231 original size:24 final size:24
Alignment explanation
Indices: 99204--99315 Score: 161
Period size: 24 Copynumber: 4.7 Consensus size: 24
99194 TTCTATTATA
* *
99204 ATACATGACCTAGATTCTGATCGG
1 ATACTTGACCTGGATTCTGATCGG
99228 ATACTTGACCTGGATTCTGATCGG
1 ATACTTGACCTGGATTCTGATCGG
* *
99252 ATACTTGACATGGATTCTGATCGA
1 ATACTTGACCTGGATTCTGATCGG
* * *
99276 ATACTTGACCTGGATTTTGACCTG
1 ATACTTGACCTGGATTCTGATCGG
99300 ATACTTGACCTGGATT
1 ATACTTGACCTGGATT
99316 ATGTTTTGAT
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 79 1.00
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (24 bp):
ATACTTGACCTGGATTCTGATCGG
Found at i:99531 original size:2 final size:2
Alignment explanation
Indices: 99524--99578 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
99514 CGGATGAGGG
99524 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
99566 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
99579 GTTTTAAAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:101110 original size:2 final size:2
Alignment explanation
Indices: 101103--101130 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
101093 AATAAGATCT
101103 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
101131 AACAAAAACA
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:103532 original size:20 final size:20
Alignment explanation
Indices: 103487--103532 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
103477 GACCAACAAA
*
103487 ATCGCAATGCGATCGCTAAT
1 ATCGCAACGCGATCGCTAAT
* *
103507 -TCGCAACGCGATCTCTATT
1 ATCGCAACGCGATCGCTAAT
103526 ATCGCAA
1 ATCGCAA
103533 ATTCGCGTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
ATCGCAACGCGATCGCTAAT
Found at i:103636 original size:20 final size:21
Alignment explanation
Indices: 103611--103662 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
103601 TTTTCCCAAT
*
103611 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
103631 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
103652 TCGCAATGCGA
1 TCGCAATGCGA
103663 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:103675 original size:41 final size:41
Alignment explanation
Indices: 103648--103781 Score: 130
Period size: 41 Copynumber: 3.3 Consensus size: 41
103638 GCGAATTGGG
* *
103648 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAC
1 AAAATCGCAATGAGATACTGACTATCGCAACGCGATAATAC
* * *
103689 AAAATCGCAATGAGATACTTACTTTCGCAACGCGATACTGAC
1 AAAATCGCAATGAGATACTGACTATCGCAACGCGATAAT-AC
** * * *
103731 --TTTCGCAA-CACGATTCTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAATGA-GATACTGACTATCGCAACGCGATAATAC
*
103770 ATAATCGCAATG
1 AAAATCGCAATG
103782 CGATTTTCAA
Statistics
Matches: 74, Mismatches: 14, Indels: 9
0.76 0.14 0.09
Matches are distributed among these distances:
39 3 0.04
40 29 0.39
41 40 0.54
42 2 0.03
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (41 bp):
AAAATCGCAATGAGATACTGACTATCGCAACGCGATAATAC
Found at i:103676 original size:20 final size:20
Alignment explanation
Indices: 103651--103785 Score: 103
Period size: 20 Copynumber: 6.7 Consensus size: 20
103641 AATTGGGAAA
103651 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
* *
103671 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
103692 ATCGCAATGAGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
103712 TTCGCAACGCGATACTGACT
1 ATCGCAATGCGATACTGACT
* ** *
103732 TTCGCAACACGATTCTGACT
1 ATCGCAATGCGATACTGACT
* * *
103752 TTCGCAACGCGATAAT-ACAT
1 ATCGCAATGCGATACTGAC-T
103772 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
103786 TTTCAAAGCG
Statistics
Matches: 94, Mismatches: 16, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
19 4 0.04
20 63 0.67
21 25 0.27
22 2 0.02
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:103981 original size:22 final size:22
Alignment explanation
Indices: 103953--103996 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
103943 CACTCTCTCA
103953 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
103975 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
103997 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:104312 original size:20 final size:20
Alignment explanation
Indices: 104258--104316 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
104248 GCGATTCTAT
**
104258 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
104278 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* **
104298 TGTTGCGATTTTCATTTTC
1 CGTTGCGATAGTCATTTTC
104317 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:105657 original size:18 final size:18
Alignment explanation
Indices: 105636--105680 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
105626 TCCACTTCGG
*
105636 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
105654 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
105672 GAGCCATCA
1 GAGCCATCA
105681 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:106187 original size:20 final size:20
Alignment explanation
Indices: 106162--106207 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
106152 TATTTTACTT
106162 TCGCAACAC-GAAAATGACTA
1 TCGCAACACAG-AAATGACTA
* *
106182 TCGCAACGCAGAAATGGCTA
1 TCGCAACACAGAAATGACTA
106202 TCGCAA
1 TCGCAA
106208 TGTGAAATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.39, C:0.26, G:0.20, T:0.15
Consensus pattern (20 bp):
TCGCAACACAGAAATGACTA
Found at i:106255 original size:19 final size:19
Alignment explanation
Indices: 106162--106264 Score: 63
Period size: 19 Copynumber: 5.6 Consensus size: 19
106152 TATTTTACTT
* **
106162 TCGCAACACGAAAATGACTA
1 TCGCAACGCG-AAATGAAAA
***
106182 TCGCAACGCAGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
* *
106202 TCGCAATGTGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
106221 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
106235 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
106254 TCGCAATGCGA
1 TCGCAACGCGA
106265 TTTGTGTTTC
Statistics
Matches: 66, Mismatches: 11, Indels: 13
0.73 0.12 0.14
Matches are distributed among these distances:
14 10 0.15
15 1 0.02
16 2 0.03
17 1 0.02
18 1 0.02
19 27 0.41
20 23 0.35
21 1 0.02
ACGTcount: A:0.43, C:0.22, G:0.20, T:0.15
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:106295 original size:14 final size:14
Alignment explanation
Indices: 106276--106330 Score: 65
Period size: 14 Copynumber: 3.6 Consensus size: 14
106266 TTGTGTTTCG
106276 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
106290 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
106306 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
106322 CGTTGCGAT
1 CGTTGCGAT
106331 AGTCATTTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
14 18 0.51
16 8 0.23
18 9 0.26
ACGTcount: A:0.11, C:0.18, G:0.25, T:0.45
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:106314 original size:32 final size:34
Alignment explanation
Indices: 106271--106353 Score: 134
Period size: 32 Copynumber: 2.5 Consensus size: 34
106261 GCGATTTGTG
*
106271 TTTCGCGTTGCGATTTTGTCGTTGCGAT-TTCA-
1 TTTCGCGTTGCGATTTTGTCGTTGCGATAGTCAT
*
106303 TTTCGCATTGCGATTTTGTCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATTTTGTCGTTGCGATAGTCAT
106337 TTTCGCGTTGCGATTTT
1 TTTCGCGTTGCGATTTT
106354 AAGTTTCGTG
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
32 27 0.59
33 3 0.07
34 16 0.35
ACGTcount: A:0.11, C:0.18, G:0.24, T:0.47
Consensus pattern (34 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATAGTCAT
Found at i:108245 original size:14 final size:14
Alignment explanation
Indices: 108226--108261 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
108216 ATTGTTTAAT
108226 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
108240 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
108254 TGATTTGT
1 TGATTTGT
108262 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:108406 original size:19 final size:19
Alignment explanation
Indices: 108384--108432 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
108374 ATCGCAACGA
108384 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
108403 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
*
108422 AAAAATCGCAA
1 GAAAATCGCAA
108433 CGAGAAAATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.51, C:0.16, G:0.18, T:0.14
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:108495 original size:20 final size:20
Alignment explanation
Indices: 108470--108527 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
108460 TCGCATTGCG
*
108470 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
108490 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
108510 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
108528 TCAAATGAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:108788 original size:33 final size:33
Alignment explanation
Indices: 108751--108825 Score: 96
Period size: 33 Copynumber: 2.3 Consensus size: 33
108741 ATTAAGTGAG
* * *
108751 ATCGCAACGCGAAAAGAAAATCGCAACGAGATA
1 ATCGCAACGCGAAAAGAAAACCGCAACGACAAA
* * *
108784 ATCGCAATGCGAAATGAAAACCGCAATGACAAA
1 ATCGCAACGCGAAAAGAAAACCGCAACGACAAA
108817 ATCGCAACG
1 ATCGCAACG
108826 ATTTTAATTT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.47, C:0.23, G:0.20, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAAAGAAAACCGCAACGACAAA
Found at i:108878 original size:33 final size:33
Alignment explanation
Indices: 108823--108946 Score: 158
Period size: 33 Copynumber: 3.7 Consensus size: 33
108813 CAAAATCGCA
* * *
108823 ACGATTTTAATTTTCGCTTTGCGATTCCCTCGTT
1 ACGATTTTCA-TTTCGCATTGCGATTCTCTCGTT
108857 ACGATTTTCATTTCGCATTGCGATTCTCTCGTT
1 ACGATTTTCATTTCGCATTGCGATTCTCTCGTT
* ** *
108890 GCCTTTTTCATTTCGCATTGCGATTCTATCGTT
1 ACGATTTTCATTTCGCATTGCGATTCTCTCGTT
* *
108923 GCGATTTGCATTTCGCATTGCGAT
1 ACGATTTTCATTTCGCATTGCGAT
108947 GGTCAAATGA
Statistics
Matches: 80, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
33 71 0.89
34 9 0.11
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.45
Consensus pattern (33 bp):
ACGATTTTCATTTCGCATTGCGATTCTCTCGTT
Found at i:109745 original size:24 final size:24
Alignment explanation
Indices: 109718--109771 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
109708 GTATTCGAAA
* *
109718 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
109742 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
109766 TTTGAT
1 TTTGAT
109772 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:109963 original size:12 final size:12
Alignment explanation
Indices: 109946--109970 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
109936 ATATAATCCT
109946 GAAGAAGAAAAA
1 GAAGAAGAAAAA
109958 GAAGAAGAAAAA
1 GAAGAAGAAAAA
109970 G
1 G
109971 TCCCCGAATA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:112261 original size:20 final size:19
Alignment explanation
Indices: 112231--112286 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
112221 CAATCATCTT
*
112231 AATGTCTATCGCAACGCGGA
1 AATGACTATCGCAACGC-GA
* *
112251 AATTACTATCGCAATGCGA
1 AATGACTATCGCAACGCGA
**
112270 AATGAAAATCGCAACGC
1 AATGACTATCGCAACGC
112287 TAATTTCGCA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (19 bp):
AATGACTATCGCAACGCGA
Found at i:112280 original size:19 final size:19
Alignment explanation
Indices: 112258--112355 Score: 72
Period size: 19 Copynumber: 5.7 Consensus size: 19
112248 GGAAATTACT
112258 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
112277 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
112291 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
112310 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
112324 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
112343 ATCGCAACGCGAA
1 ATCGCAATGCGAA
112356 TTTAATTTCT
Statistics
Matches: 58, Mismatches: 11, Indels: 20
0.65 0.12 0.22
Matches are distributed among these distances:
14 17 0.29
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 29 0.50
ACGTcount: A:0.42, C:0.20, G:0.22, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:112301 original size:33 final size:33
Alignment explanation
Indices: 112259--112358 Score: 150
Period size: 33 Copynumber: 3.0 Consensus size: 33
112249 GAAATTACTA
*
112259 TCGCAATGCGAAATGAAAATCGCAACGCTAATT
1 TCGCAATGCGAAATGAAAATCGCAACGCGAATT
*
112292 TCGCAATGCGAAATGAAAATCGCAACGAGGGAA--
1 TCGCAATGCGAAATGAAAATCGCAAC--GCGAATT
112325 TCGCAATGCGAAATGAAAATCGCAACGCGAATT
1 TCGCAATGCGAAATGAAAATCGCAACGCGAATT
112358 T
1 T
112359 AATTTCTCGT
Statistics
Matches: 60, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
31 4 0.07
33 53 0.88
35 3 0.05
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.18
Consensus pattern (33 bp):
TCGCAATGCGAAATGAAAATCGCAACGCGAATT
Found at i:112373 original size:19 final size:19
Alignment explanation
Indices: 112351--112392 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
112341 AAATCGCAAC
*
112351 GCGAATTTAATTTCTCGTT
1 GCGAATTTAATTTCGCGTT
* *
112370 GCGATTTTCATTTCGCGTT
1 GCGAATTTAATTTCGCGTT
112389 GCGA
1 GCGA
112393 TTCTCTCGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.43
Consensus pattern (19 bp):
GCGAATTTAATTTCGCGTT
Found at i:112393 original size:19 final size:19
Alignment explanation
Indices: 112360--112417 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
112350 CGCGAATTTA
*
112360 ATTTCTCGTTGCGATTTTC
1 ATTTCGCGTTGCGATTTTC
112379 ATTTCGCGTTGCGA--TTC
1 ATTTCGCGTTGCGATTTTC
*
112396 ---TCTCGTTGCGATTTTC
1 ATTTCGCGTTGCGATTTTC
112412 ATTTCG
1 ATTTCG
112418 TATTACGATA
Statistics
Matches: 31, Mismatches: 3, Indels: 10
0.70 0.07 0.23
Matches are distributed among these distances:
14 10 0.32
16 3 0.10
17 3 0.10
19 15 0.48
ACGTcount: A:0.10, C:0.22, G:0.19, T:0.48
Consensus pattern (19 bp):
ATTTCGCGTTGCGATTTTC
Found at i:112551 original size:14 final size:14
Alignment explanation
Indices: 112532--112568 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
112522 CATCAATTAA
112532 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
112546 ACAAATCACCTTTT
1 ACAAATCAACTTTT
112560 ACAAATCAA
1 ACAAATCAA
112569 TTAACCAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:114030 original size:42 final size:42
Alignment explanation
Indices: 113962--114041 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
113952 CGATGACAGT
* * *
113962 GGCCTCTTGAACGGTGGGATGAGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGATGAGACTCTCGAGGAATGATAGG
* *
114004 GGCCTCTTCAACGATAGGAGTG-GACTCTTGAGGGATGA
1 GGCCTCTTCAACGATAGGA-TGAGACTCTCGAGGAATGA
114042 CAGGCGAGTC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
42 30 0.94
43 2 0.06
ACGTcount: A:0.24, C:0.17, G:0.36, T:0.23
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGATGAGACTCTCGAGGAATGATAGG
Found at i:114488 original size:94 final size:94
Alignment explanation
Indices: 114327--114541 Score: 351
Period size: 94 Copynumber: 2.3 Consensus size: 94
114317 TAATAGTTTC
*
114327 AATTGGCAGCAAACGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTC
1 AATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTC
* *
114392 ACAATGTTAAAGAATACACAGTTTAGCAG
66 ACAATGATAAAGAACACACAGTTTAGCAG
* *
114421 AATTGGCAGGAACCGAACAAATTTACTTTCAACCAAAAGATAAATA-AAAGACAAATACTAACTT
1 AATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAA-ACAAAGACAAATACTAACTT
*
114485 CACAGTGATAAAGAACACACAGTTTAGCAG
65 CACAATGATAAAGAACACACAGTTTAGCAG
*
114515 AATTGGCAGCAACCGAATAAATTTACT
1 AATTGGCAGCAACCGAACAAATTTACT
114542 AAGCAATCTA
Statistics
Matches: 112, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
94 111 0.99
95 1 0.01
ACGTcount: A:0.47, C:0.19, G:0.13, T:0.21
Consensus pattern (94 bp):
AATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTC
ACAATGATAAAGAACACACAGTTTAGCAG
Found at i:116307 original size:33 final size:33
Alignment explanation
Indices: 116249--116383 Score: 153
Period size: 33 Copynumber: 3.9 Consensus size: 33
116239 ACGAGATAAT
116249 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
* *
116283 GAGAATCGCAACGCAAAATGACTATCGCGACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
**
116316 GAGAATCGCAACGCGAAATGAAAATCGCAACGCGAAA
1 GAGAATCGCAACGCGAAATGACTATCGCAA--CG--A
* **
116353 TGAAAATCGCAACGCGAAATGAAAATCGCAA
1 -GAGAATCGCAACGCGAAATGACTATCGCAA
116384 TGCGATTTTG
Statistics
Matches: 89, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
33 43 0.48
34 14 0.16
35 2 0.02
37 1 0.01
38 29 0.33
ACGTcount: A:0.43, C:0.22, G:0.24, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:116376 original size:19 final size:19
Alignment explanation
Indices: 116224--116388 Score: 143
Period size: 19 Copynumber: 9.1 Consensus size: 19
116214 TCTTTTGGTT
*
116224 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
116243 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
116263 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
116281 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
* ** *
116297 AAAATGACTATCGCGA--C
1 GAAATGAAAATCGCAACGC
*
116314 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
116330 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
116349 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
116368 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
116387 GA
1 GA
116389 TTTTGGTTTC
Statistics
Matches: 118, Mismatches: 16, Indels: 24
0.75 0.10 0.15
Matches are distributed among these distances:
14 17 0.14
15 2 0.02
16 3 0.03
17 2 0.02
18 3 0.03
19 62 0.53
20 27 0.23
21 2 0.02
ACGTcount: A:0.44, C:0.21, G:0.24, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:116977 original size:20 final size:20
Alignment explanation
Indices: 116952--117004 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
116942 GCGCTATGTA
116952 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
116972 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
116992 TATCTCGTTGCGA
1 AATCGCGTTGCGA
117005 TTTTGTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:117046 original size:20 final size:20
Alignment explanation
Indices: 117013--117066 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
117003 GATTTTGTAT
*
117013 TATCGCATTGCGATAGTAAG
1 TATCGCATTACGATAGTAAG
* *
117033 TATCGTATTACGATAGTCAG
1 TATCGCATTACGATAGTAAG
* *
117053 TATCACATTGCGAT
1 TATCGCATTACGAT
117067 TTTCCCAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (20 bp):
TATCGCATTACGATAGTAAG
Found at i:124987 original size:22 final size:23
Alignment explanation
Indices: 124962--125014 Score: 63
Period size: 25 Copynumber: 2.3 Consensus size: 23
124952 TTCAAAAATA
124962 ATAATTT-ATTTTATAGTAAAAG
1 ATAATTTGATTTTATAGTAAAAG
* *
124984 ATAATTTGGGCTTTTATAGTAAGAG
1 ATAATTT--GATTTTATAGTAAAAG
125009 ATAATT
1 ATAATT
125015 ATAATGTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 7 0.27
25 19 0.73
ACGTcount: A:0.40, C:0.02, G:0.15, T:0.43
Consensus pattern (23 bp):
ATAATTTGATTTTATAGTAAAAG
Found at i:131915 original size:18 final size:18
Alignment explanation
Indices: 131892--131937 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
131882 TACTAGAAAA
131892 ATGATGTCCC-CCTCAAAC
1 ATGATG-CCCTCCTCAAAC
131910 ATGATGCCCTCCTCAAAC
1 ATGATGCCCTCCTCAAAC
*
131928 ATGCTGCCCT
1 ATGATGCCCT
131938 AGACTAAGGC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 3 0.12
18 23 0.88
ACGTcount: A:0.24, C:0.39, G:0.13, T:0.24
Consensus pattern (18 bp):
ATGATGCCCTCCTCAAAC
Found at i:136779 original size:18 final size:18
Alignment explanation
Indices: 136756--136799 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
136746 TTACAAGACC
136756 GACCTATTGAAACTGAAA
1 GACCTATTGAAACTGAAA
136774 GACCTATTGAAACTGAAA
1 GACCTATTGAAACTGAAA
136792 GACCTATT
1 GACCTATT
136800 AAGGAATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (18 bp):
GACCTATTGAAACTGAAA
Found at i:144090 original size:19 final size:20
Alignment explanation
Indices: 144058--144109 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
144048 AATAAATACG
*
144058 AAAATAAATTAATT-AGTTGA
1 AAAATAAA-AAATTGAGTTGA
*
144078 AAAATAAAAAATTGTGTTGA
1 AAAATAAAAAATTGAGTTGA
*
144098 TAAATAAAAAAT
1 AAAATAAAAAAT
144110 ACAAATAGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 4 0.14
20 24 0.86
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.31
Consensus pattern (20 bp):
AAAATAAAAAATTGAGTTGA
Found at i:144373 original size:20 final size:20
Alignment explanation
Indices: 144348--144387 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
144338 TTGGTTCACG
144348 GAATGTAACATTACCAGTGA
1 GAATGTAACATTACCAGTGA
*
144368 GAATGTAAGATTACCAGTGA
1 GAATGTAACATTACCAGTGA
144388 ATAGGATTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.25
Consensus pattern (20 bp):
GAATGTAACATTACCAGTGA
Found at i:150840 original size:21 final size:21
Alignment explanation
Indices: 150814--150892 Score: 97
Period size: 21 Copynumber: 3.8 Consensus size: 21
150804 CTCAGTTTCC
**
150814 AAAATCGTAGTGTGAATAGTA
1 AAAATCGTAACGTGAATAGTA
*
150835 AAAATCGCAACGTGAATAGTA
1 AAAATCGTAACGTGAATAGTA
*
150856 AAAATCGTAACGTGAATTG-A
1 AAAATCGTAACGTGAATAGTA
* *
150876 AAAATCGCAACGCGAAT
1 AAAATCGTAACGTGAAT
150893 TTAGAAAATC
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
20 16 0.31
21 35 0.69
ACGTcount: A:0.46, C:0.13, G:0.20, T:0.22
Consensus pattern (21 bp):
AAAATCGTAACGTGAATAGTA
Found at i:150880 original size:20 final size:21
Alignment explanation
Indices: 150825--150906 Score: 105
Period size: 21 Copynumber: 4.0 Consensus size: 21
150815 AAATCGTAGT
150825 GTGAATAGTAAAAATCGCAAC
1 GTGAATAGTAAAAATCGCAAC
*
150846 GTGAATAGTAAAAATCGTAAC
1 GTGAATAGTAAAAATCGCAAC
*
150867 GTGAATTG-AAAAATCGCAAC
1 GTGAATAGTAAAAATCGCAAC
* *
150887 GCGAAT-TTAGAAAATCGCAA
1 GTGAATAGTA-AAAATCGCAA
150907 AATCTTATTG
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
20 17 0.31
21 37 0.69
ACGTcount: A:0.46, C:0.13, G:0.20, T:0.21
Consensus pattern (21 bp):
GTGAATAGTAAAAATCGCAAC
Found at i:150903 original size:41 final size:42
Alignment explanation
Indices: 150814--150892 Score: 115
Period size: 41 Copynumber: 1.9 Consensus size: 42
150804 CTCAGTTTCC
** *
150814 AAAATCGTAGTGTGAATAGTAAAAATCGCAACGTGAATAGTA
1 AAAATCGTAACGTGAATAGTAAAAATCGCAACGCGAATAGTA
*
150856 AAAATCGTAACGTGAATTG-AAAAATCGCAACGCGAAT
1 AAAATCGTAACGTGAATAGTAAAAATCGCAACGCGAAT
150893 TTAGAAAATC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
41 17 0.52
42 16 0.48
ACGTcount: A:0.46, C:0.13, G:0.20, T:0.22
Consensus pattern (42 bp):
AAAATCGTAACGTGAATAGTAAAAATCGCAACGCGAATAGTA
Found at i:151310 original size:21 final size:20
Alignment explanation
Indices: 151256--151322 Score: 89
Period size: 20 Copynumber: 3.3 Consensus size: 20
151246 CATATAGATT
*
151256 CGTTGCGATTATACTATTCA
1 CGTTGCGATTTTACTATTCA
** *
151276 TATTGCGCTTTTACTATTCA
1 CGTTGCGATTTTACTATTCA
151296 CGTTGCGATTTTTACTATTCA
1 CGTTGCGA-TTTTACTATTCA
151317 CGTTGC
1 CGTTGC
151323 AAAATTGGAG
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
20 21 0.54
21 18 0.46
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.45
Consensus pattern (20 bp):
CGTTGCGATTTTACTATTCA
Found at i:151356 original size:20 final size:20
Alignment explanation
Indices: 151333--151393 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
151323 AAAATTGGAG
**
151333 TTCGCGTTATGAATTTGACT
1 TTCGCGTTGCGAATTTGACT
*
151353 TTCGCATTGCGAATTTGA-T
1 TTCGCGTTGCGAATTTGACT
*
151372 TTCTGTGTTGCGAATTTGACT
1 TTC-GCGTTGCGAATTTGACT
151393 T
1 T
151394 ATGTGTTGTG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
19 4 0.12
20 28 0.82
21 2 0.06
ACGTcount: A:0.18, C:0.15, G:0.21, T:0.46
Consensus pattern (20 bp):
TTCGCGTTGCGAATTTGACT
Found at i:151398 original size:20 final size:20
Alignment explanation
Indices: 151359--151401 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
151349 GACTTTCGCA
* *
151359 TTGCGAATTTGATTTCTGTG
1 TTGCGAATTTGACTTATGTG
151379 TTGCGAATTTGACTTATGTG
1 TTGCGAATTTGACTTATGTG
151399 TTG
1 TTG
151402 TGATTTACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.16, C:0.09, G:0.26, T:0.49
Consensus pattern (20 bp):
TTGCGAATTTGACTTATGTG
Found at i:151428 original size:20 final size:20
Alignment explanation
Indices: 151403--151444 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
151393 TATGTGTTGT
151403 GATTTACAAATTCGCGTCGC
1 GATTTACAAATTCGCGTCGC
* *
151423 GATTTACAGATTCGCGTTGC
1 GATTTACAAATTCGCGTCGC
151443 GA
1 GA
151445 ATTTGGAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (20 bp):
GATTTACAAATTCGCGTCGC
Found at i:159168 original size:31 final size:32
Alignment explanation
Indices: 159132--159201 Score: 99
Period size: 31 Copynumber: 2.2 Consensus size: 32
159122 TAACATAGAT
* * *
159132 TATCATCATTATCAGTTTATCAGTCGAACTA-
1 TATCATCATTATCAGTGTAACAGTCAAACTAC
159163 TATCATCATTATCAGTGTAACAGTCAAACTAC
1 TATCATCATTATCAGTGTAACAGTCAAACTAC
159195 TA-CATCA
1 TATCATCA
159202 GTTGAATAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
31 33 0.94
32 2 0.06
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (32 bp):
TATCATCATTATCAGTGTAACAGTCAAACTAC
Found at i:162092 original size:22 final size:22
Alignment explanation
Indices: 162067--162112 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
162057 TGAGACGAGC
162067 TAAAGAAATGGGAATTGAACAG
1 TAAAGAAATGGGAATTGAACAG
162089 TAAAGAAATGGGAATTGAACAG
1 TAAAGAAATGGGAATTGAACAG
162111 TA
1 TA
162113 GAAATCTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.50, C:0.04, G:0.26, T:0.20
Consensus pattern (22 bp):
TAAAGAAATGGGAATTGAACAG
Found at i:166495 original size:54 final size:53
Alignment explanation
Indices: 166431--166723 Score: 399
Period size: 54 Copynumber: 5.5 Consensus size: 53
166421 ATAAGTTCTC
* * * * * *
166431 TGGGGTGCACACGTAGTGCCAATATGGTTATTCATCAACAAATGATGAATTACG
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATT-CG
*
166485 TAGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTACG
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATT-CG
* * *
166539 TGGGTTGTACACTTAGTACCTATTCGGTTGTTCATCAACATATGATG-ATTCCG
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATT-CG
* * *
166592 TGGGTTGCACACTTAATGCATATACGGTTGTTCTTCAACATATGATGAATTCTG
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTC-G
*
166646 TGGGTTGCACACTTAGTGCTTATACGGTTGTTCATCAACATATGATGAATTCTG
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTC-G
*
166700 TGGGTTGCACATTTAGTGCCTATA
1 TGGGTTGCACACTTAGTGCCTATA
166724 GTACACATAG
Statistics
Matches: 214, Mismatches: 23, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
53 47 0.22
54 167 0.78
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (53 bp):
TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCG
Found at i:166605 original size:107 final size:108
Alignment explanation
Indices: 166426--166723 Score: 402
Period size: 107 Copynumber: 2.8 Consensus size: 108
166416 ACATTATAAG
* * * * * * * * * *
166426 TTCTCTGGGGTGCACACGTAGTGCCAATATGGTTATTCATCAACAAATGATGAATTACGTAGGTT
1 TTCTGTGGGTTGCACACTTAGTACCTATACGGTTGTTCATCAACATATGATGAATTCCGTGGGTT
166491 GCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAA
66 GCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAA
* *
166534 TTAC-GTGGGTTGTACACTTAGTACCTATTCGGTTGTTCATCAACATATGATG-ATTCCGTGGGT
1 TT-CTGTGGGTTGCACACTTAGTACCTATACGGTTGTTCATCAACATATGATGAATTCCGTGGGT
* * *
166597 TGCACACTTAATGCATATACGGTTGTTCTTCAACATATGATGAA
65 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAA
* * *
166641 TTCTGTGGGTTGCACACTTAGTGCTTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGTT
1 TTCTGTGGGTTGCACACTTAGTACCTATACGGTTGTTCATCAACATATGATGAATTCCGTGGGTT
*
166706 GCACATTTAGTGCCTATA
66 GCACACTTAGTGCCTATA
166724 GTACACATAG
Statistics
Matches: 164, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
106 1 0.01
107 96 0.59
108 66 0.40
109 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (108 bp):
TTCTGTGGGTTGCACACTTAGTACCTATACGGTTGTTCATCAACATATGATGAATTCCGTGGGTT
GCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAA
Found at i:172685 original size:2 final size:2
Alignment explanation
Indices: 172678--172711 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
172668 AGAAAATCCA
* *
172678 AT AT AT AT TT AT AT TT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
172712 TAGATAGAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
AT
Found at i:172928 original size:23 final size:23
Alignment explanation
Indices: 172868--172932 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 23
172858 TGTACTTCTG
* *
172868 TGCTAAATCA-TCCAGCACTGTTT
1 TGCTAAATCAGT-CAGTACTATTT
*
172891 TGCTAAATCATTCAGTACTATTT
1 TGCTAAATCAGTCAGTACTATTT
*
172914 TGCTGAATCAGTCAGTACT
1 TGCTAAATCAGTCAGTACT
172933 GAATCATTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
23 36 0.97
24 1 0.03
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.37
Consensus pattern (23 bp):
TGCTAAATCAGTCAGTACTATTT
Found at i:173020 original size:44 final size:44
Alignment explanation
Indices: 172970--173061 Score: 139
Period size: 44 Copynumber: 2.1 Consensus size: 44
172960 CGCTGAATGT
* *
172970 TGAACGGTTCAGCATTCAGCACTGAATGATTCAGCATTCAGCAC
1 TGAACGGTTCAACATTCAGCACTGAACGATTCAGCATTCAGCAC
* * *
173014 TGAACGGTTCAACATTCAGCACTGAACGGTTCCGCATTCAGCGC
1 TGAACGGTTCAACATTCAGCACTGAACGATTCAGCATTCAGCAC
173058 TGAA
1 TGAA
173062 TGATTCCATT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (44 bp):
TGAACGGTTCAACATTCAGCACTGAACGATTCAGCATTCAGCAC
Found at i:173068 original size:22 final size:22
Alignment explanation
Indices: 172970--173067 Score: 124
Period size: 22 Copynumber: 4.5 Consensus size: 22
172960 CGCTGAATGT
*
172970 TGAACGGTTCAGCATTCAGCAC
1 TGAACGATTCAGCATTCAGCAC
*
172992 TGAATGATTCAGCATTCAGCAC
1 TGAACGATTCAGCATTCAGCAC
* *
173014 TGAACGGTTCAACATTCAGCAC
1 TGAACGATTCAGCATTCAGCAC
* * *
173036 TGAACGGTTCCGCATTCAGCGC
1 TGAACGATTCAGCATTCAGCAC
*
173058 TGAATGATTC
1 TGAACGATTC
173068 CATTAAGAGG
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 66 1.00
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (22 bp):
TGAACGATTCAGCATTCAGCAC
Found at i:173109 original size:2 final size:2
Alignment explanation
Indices: 173102--173131 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
173092 CTTAACTTCG
173102 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
173132 TTACTCGGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:177054 original size:20 final size:22
Alignment explanation
Indices: 177008--177057 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
176998 GTATTTCTTG
177008 AAATTTATTAATAAAAATTTAAA
1 AAATTTATT-ATAAAAATTTAAA
*
177031 AAATTTATT-TAAAAATTT-AC
1 AAATTTATTATAAAAATTTAAA
177051 AAATTTA
1 AAATTTA
177058 ACCCAACAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 8 0.31
21 9 0.35
23 9 0.35
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
AAATTTATTATAAAAATTTAAA
Found at i:188120 original size:58 final size:60
Alignment explanation
Indices: 187987--188156 Score: 152
Period size: 59 Copynumber: 2.9 Consensus size: 60
187977 GGTACTACAT
* * ** * * *
187987 ATCCTCATACTATGATCTTCATTCTAAATTGATCTCTTGAACTTTTGAACATTTCAGTTTT
1 ATCCTCAAACTATGA-CTTCATTCTAAAATGATCTCTCAAACTTTTAAACATTTCAGATTC
* * *
188048 ATCCCCAAATTATGAC-TCTTTCTAAAATGATC-CTCAAACTTTTAAACATTTTCA-ATTC
1 ATCCTCAAACTATGACTTCATTCTAAAATGATCTCTCAAACTTTTAAACA-TTTCAGATTC
* * * *
188106 ATCCTCAAACTATGACCTTCATTC-AAACTGGTCCCT-AAACTTTTGAACATT
1 ATCCTCAAACTATGA-CTTCATTCTAAAATGATCTCTCAAACTTTTAAACATT
188157 CCAATTATAT
Statistics
Matches: 89, Mismatches: 16, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
58 30 0.34
59 39 0.44
60 8 0.09
61 12 0.13
ACGTcount: A:0.31, C:0.24, G:0.06, T:0.39
Consensus pattern (60 bp):
ATCCTCAAACTATGACTTCATTCTAAAATGATCTCTCAAACTTTTAAACATTTCAGATTC
Found at i:195797 original size:4 final size:4
Alignment explanation
Indices: 195779--195822 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
195769 CATTTTTTGT
* *
195779 TGTA TGCA TGCA TGTA TG-- TGTA TGTA TGTA TGTA TGTA TGTA TG
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG
195823 ACAAATGGTC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
4 34 0.94
ACGTcount: A:0.23, C:0.05, G:0.27, T:0.45
Consensus pattern (4 bp):
TGTA
Found at i:195802 original size:18 final size:18
Alignment explanation
Indices: 195779--195815 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
195769 CATTTTTTGT
195779 TGTATGCATGCATGTATG
1 TGTATGCATGCATGTATG
* *
195797 TGTATGTATGTATGTATG
1 TGTATGCATGCATGTATG
195815 T
1 T
195816 ATGTATGACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.05, G:0.27, T:0.46
Consensus pattern (18 bp):
TGTATGCATGCATGTATG
Found at i:213553 original size:56 final size:53
Alignment explanation
Indices: 213467--213573 Score: 178
Period size: 56 Copynumber: 2.0 Consensus size: 53
213457 AATATCACCA
*
213467 CTAACCTCCGACCACATGGCCGATTCAAGGTCTGTGAACCATTTATAAAACTGCTT
1 CTAACCTCCGACAACATGGCCGATTCAAGGTC--TGAACCATTT-TAAAACTGCTT
213523 CTAACCTCCGACAACATGGCCGATTCAAGGTCTGAACCATTTTAAAACTGC
1 CTAACCTCCGACAACATGGCCGATTCAAGGTCTGAACCATTTTAAAACTGC
213574 ACAGAAAGAG
Statistics
Matches: 50, Mismatches: 1, Indels: 3
0.93 0.02 0.06
Matches are distributed among these distances:
53 9 0.18
54 10 0.20
56 31 0.62
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (53 bp):
CTAACCTCCGACAACATGGCCGATTCAAGGTCTGAACCATTTTAAAACTGCTT
Found at i:214401 original size:77 final size:77
Alignment explanation
Indices: 214234--214390 Score: 269
Period size: 78 Copynumber: 2.0 Consensus size: 77
214224 CACAAAACAA
* *
214234 AATAAGTGAATCAAATTAAAGAAAAAAAATCTAAAACAGCGCATTCAGTTCCACACCTCAGATCC
1 AATAAGTGAATCAAATTAAAGAAAAAAAATCTAAAACAGCGCATTCAATTCCACACATCAGATCC
214299 GATCTTCAAACG
66 GATCTTCAAACG
*
214311 AATAAGTGAATCAAATTAAAGAAACAAAAATCTAAAACAGCGCATTCAATTCCACACATCAGATT
1 AATAAGTGAATCAAATTAAAGAAA-AAAAATCTAAAACAGCGCATTCAATTCCACACATCAGATC
*
214376 CGATTTTCAAACG
65 CGATCTTCAAACG
214389 AA
1 AA
214391 AGAGTTATCA
Statistics
Matches: 75, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
77 24 0.32
78 51 0.68
ACGTcount: A:0.47, C:0.20, G:0.11, T:0.22
Consensus pattern (77 bp):
AATAAGTGAATCAAATTAAAGAAAAAAAATCTAAAACAGCGCATTCAATTCCACACATCAGATCC
GATCTTCAAACG
Found at i:215609 original size:94 final size:93
Alignment explanation
Indices: 215448--215634 Score: 365
Period size: 94 Copynumber: 2.0 Consensus size: 93
215438 CAATCTATAT
215448 AGACAGTGACAAGATTGTACTTAGTGGTAGCTTTCAAAGAAAAAGTAGTTTGGAGAGAAGGGATA
1 AGACAGTGACAAGATTGTACTTAGTGGTAGCTTTCAAAGAAAAAGTAGTTTGGAGAGAAGGGATA
215513 AATTTGGCCTTTCAGTTTCCATGACAAAC
66 AATTTGGCC-TTCAGTTTCCATGACAAAC
215542 AGACAGTGACAAGATTGTACTTAGTGGTAGCTTTCAAAGAAAAAGTAGTTTGGAGAGAAGGGATA
1 AGACAGTGACAAGATTGTACTTAGTGGTAGCTTTCAAAGAAAAAGTAGTTTGGAGAGAAGGGATA
215607 AATTTGGCCTTCAGTTTCCATGACAAAC
66 AATTTGGCCTTCAGTTTCCATGACAAAC
215635 CTTGTTGTGG
Statistics
Matches: 93, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
93 19 0.20
94 74 0.80
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (93 bp):
AGACAGTGACAAGATTGTACTTAGTGGTAGCTTTCAAAGAAAAAGTAGTTTGGAGAGAAGGGATA
AATTTGGCCTTCAGTTTCCATGACAAAC
Found at i:216205 original size:32 final size:32
Alignment explanation
Indices: 216164--216227 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
216154 AGGCCACATT
216164 CTCCAATACATCGGCACCATTCAGACCAAACC
1 CTCCAATACATCGGCACCATTCAGACCAAACC
216196 CTCCAATACATCGGCACCATTCAGACCAAACC
1 CTCCAATACATCGGCACCATTCAGACCAAACC
216228 TGCAACATTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.41, G:0.09, T:0.16
Consensus pattern (32 bp):
CTCCAATACATCGGCACCATTCAGACCAAACC
Found at i:221030 original size:21 final size:21
Alignment explanation
Indices: 221006--221049 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
220996 ATATAGAGAA
221006 TTATTGGAGAGATGCAATCAT
1 TTATTGGAGAGATGCAATCAT
*
221027 TTATTGGAGAGATGTAATCAT
1 TTATTGGAGAGATGCAATCAT
221048 TT
1 TT
221050 CGAGATCTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.39
Consensus pattern (21 bp):
TTATTGGAGAGATGCAATCAT
Found at i:222336 original size:6 final size:6
Alignment explanation
Indices: 222325--222355 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
222315 CATCTTGTGC
222325 GATGTT GATGTT GATGTT GATGTT GATGTT G
1 GATGTT GATGTT GATGTT GATGTT GATGTT G
222356 CTCTGTTACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.00, G:0.35, T:0.48
Consensus pattern (6 bp):
GATGTT
Found at i:222439 original size:3 final size:3
Alignment explanation
Indices: 222431--222466 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
222421 TTTCATTCCC
222431 TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
222467 TACTTTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:225581 original size:12 final size:12
Alignment explanation
Indices: 225564--225588 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
225554 ATTGCAATTG
225564 TTTATCTTAGGA
1 TTTATCTTAGGA
225576 TTTATCTTAGGA
1 TTTATCTTAGGA
225588 T
1 T
225589 ATAGTGATGT
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:0.24, C:0.08, G:0.16, T:0.52
Consensus pattern (12 bp):
TTTATCTTAGGA
Found at i:231612 original size:2 final size:2
Alignment explanation
Indices: 231605--231678 Score: 148
Period size: 2 Copynumber: 37.0 Consensus size: 2
231595 TTTATTTGTA
231605 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
231647 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
231679 GTTAAGACTC
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 72 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.