Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007916.1 Hibiscus syriacus cultivar Beakdansim tig00110319_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: 3725575
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 16
Found at i:2905922 original size:3 final size:3
Alignment explanation
Indices: 2905849--2905911 Score: 67
Period size: 3 Copynumber: 21.0 Consensus size: 3
2905839 TCATTTAAAT
* *
2905849 TTA TTA TTA TTA TTA -AA TTTA TTA TTA TTA TTA TTA TTAA ATA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TT-A TTA TTA
*
2905895 TTA GTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA
2905912 AATAATTATT
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
2 3 0.06
3 45 0.88
4 3 0.06
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:2906730 original size:14 final size:14
Alignment explanation
Indices: 2906711--2906737 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2906701 ACCGTTACGG
2906711 TGGCCGGCGGCGGT
1 TGGCCGGCGGCGGT
2906725 TGGCCGGCGGCGG
1 TGGCCGGCGGCGG
2906738 AGTACGGTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.30, G:0.59, T:0.11
Consensus pattern (14 bp):
TGGCCGGCGGCGGT
Found at i:2921195 original size:17 final size:17
Alignment explanation
Indices: 2921169--2921204 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
2921159 CCTTTGTTAA
2921169 GCCTGAAAGTAGATTTT
1 GCCTGAAAGTAGATTTT
* *
2921186 GCCTGGAAGTAGCTTTT
1 GCCTGAAAGTAGATTTT
2921203 GC
1 GC
2921205 TCCACAAGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (17 bp):
GCCTGAAAGTAGATTTT
Found at i:2924114 original size:30 final size:30
Alignment explanation
Indices: 2924074--2924131 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
2924064 TTTTATTGAA
2924074 TTTTCTAATAATT-AATAGTTATAAAATAAT
1 TTTTCTAATAATTGAA-AGTTATAAAATAAT
* *
2924104 TTTTTTAATAATTGAAAGTTATAGAATA
1 TTTTCTAATAATTGAAAGTTATAAAATA
2924132 TTATGTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.47
Consensus pattern (30 bp):
TTTTCTAATAATTGAAAGTTATAAAATAAT
Found at i:2927781 original size:60 final size:59
Alignment explanation
Indices: 2927687--2927798 Score: 172
Period size: 60 Copynumber: 1.9 Consensus size: 59
2927677 ATAATCGAGT
* *
2927687 GATCATTTTGTAACTTTAATAGTTGAGGTACTCAATAAAGCAATGTCCTATAGTTGGGA
1 GATCATTTTGTAACTTTAATAGTTGAGGTACTCAACAAAGCAACGTCCTATAGTTGGGA
*
2927746 GATCATTTTGTAACTTTTAATAGTTG-GATGACTCAACAAAGCAACGTCCTATA
1 GATCATTTTGTAAC-TTTAATAGTTGAGGT-ACTCAACAAAGCAACGTCCTATA
2927799 AGGCCATCTC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
59 16 0.33
60 32 0.67
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (59 bp):
GATCATTTTGTAACTTTAATAGTTGAGGTACTCAACAAAGCAACGTCCTATAGTTGGGA
Found at i:2928626 original size:9 final size:9
Alignment explanation
Indices: 2928604--2928654 Score: 59
Period size: 9 Copynumber: 5.4 Consensus size: 9
2928594 CTTGAATTTA
*
2928604 AAAAAATCAT
1 AAAAAAT-AC
2928614 AAAAAATAC
1 AAAAAATAC
2928623 AAAAAATAC
1 AAAAAATAC
2928632 AAAAAAT-C
1 AAAAAATAC
2928640 AGAAAAATTAC
1 A-AAAAA-TAC
2928651 AAAA
1 AAAA
2928655 CAATTAGTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
8 2 0.05
9 22 0.59
10 11 0.30
11 2 0.05
ACGTcount: A:0.75, C:0.10, G:0.02, T:0.14
Consensus pattern (9 bp):
AAAAAATAC
Found at i:2928651 original size:19 final size:18
Alignment explanation
Indices: 2928604--2928654 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
2928594 CTTGAATTTA
*
2928604 AAAAAATCATAAAAAATAC
1 AAAAAAT-ACAAAAAATAC
2928623 AAAAAATACAAAAAAT-C
1 AAAAAATACAAAAAATAC
2928640 AGAAAAATTACAAAA
1 A-AAAAA-TACAAAA
2928655 CAATTAGTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 2 0.07
18 13 0.45
19 14 0.48
ACGTcount: A:0.75, C:0.10, G:0.02, T:0.14
Consensus pattern (18 bp):
AAAAAATACAAAAAATAC
Found at i:2928939 original size:43 final size:42
Alignment explanation
Indices: 2928891--2928992 Score: 150
Period size: 43 Copynumber: 2.4 Consensus size: 42
2928881 ATGATAGAGA
*
2928891 TAGCGCAGGATTGGAGCGCGCTATAATAAAAATATCTCCACTG
1 TAGCGCAGG-TTGGAGCGCGCTACAATAAAAATATCTCCACTG
* *
2928934 TAGCGCAGGGTTGGAGCGCGCTACAGTGAAAATATCTCCACTG
1 TAGCGCA-GGTTGGAGCGCGCTACAATAAAAATATCTCCACTG
2928977 TAGCGCAGCGTTGGAG
1 TAGCGCAG-GTTGGAG
2928993 ATGGTCTAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
42 1 0.02
43 51 0.94
44 2 0.04
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (42 bp):
TAGCGCAGGTTGGAGCGCGCTACAATAAAAATATCTCCACTG
Found at i:2929220 original size:23 final size:23
Alignment explanation
Indices: 2929194--2929241 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
2929184 ATAAAGTACA
*
2929194 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
2929217 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
2929240 AT
1 AT
2929242 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:2929982 original size:18 final size:18
Alignment explanation
Indices: 2929959--2929995 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2929949 CGAAATATAT
2929959 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
2929977 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
2929995 A
1 A
2929996 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:2930225 original size:23 final size:23
Alignment explanation
Indices: 2930199--2930262 Score: 85
Period size: 22 Copynumber: 2.8 Consensus size: 23
2930189 ATGCGAGATA
2930199 GATACCTATTACATTATATAAAC
1 GATACCTATTACATTATATAAAC
**
2930222 GATACCTATTACA-TATATAAGG
1 GATACCTATTACATTATATAAAC
* *
2930244 GCTACCTATTACATCATAT
1 GATACCTATTACATTATAT
2930263 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
22 19 0.53
23 17 0.47
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.34
Consensus pattern (23 bp):
GATACCTATTACATTATATAAAC
Found at i:2930654 original size:23 final size:23
Alignment explanation
Indices: 2930628--2930690 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
2930618 ATATAACCAC
2930628 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
2930651 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
2930674 TACCTATTACATCATAT
1 TACCTATTACATTATAT
2930691 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:2933849 original size:181 final size:184
Alignment explanation
Indices: 2933226--2933891 Score: 1200
Period size: 183 Copynumber: 3.7 Consensus size: 184
2933216 TTTTAAATGG
* *
2933226 TATGGACATAAAGTACCGACACAATATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
2933291 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
*
2933356 GATGTGTAAAATTTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
2933410 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
2933475 TAAGACCGGTATATTT-TACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
*
2933539 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
* *
2933593 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTGGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
2933658 TAAAACCGGTATA-TTATACCGGTTATA-TACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
2933721 GATGTGTAAAATGTCGACACTTTTTT-AATCGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
2933774 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
* **
2933839 TAAGACCGGTATATTTATACCGG-T-TATTACAAAATTATCTATTTTATTATAAT
66 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAT
2933892 ATGTTGAAAG
Statistics
Matches: 465, Mismatches: 14, Indels: 9
0.95 0.03 0.02
Matches are distributed among these distances:
180 2 0.00
181 126 0.27
182 73 0.16
183 186 0.40
184 78 0.17
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (184 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
Found at i:2935352 original size:3 final size:3
Alignment explanation
Indices: 2935344--2935426 Score: 78
Period size: 3 Copynumber: 28.0 Consensus size: 3
2935334 ACTTGTTTGG
* * **
2935344 ATC ATC ATC -TC 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
* * * * *
2935391 AGC TTC ATC GTC ATC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
2935427 GTCAGCTTCA
Statistics
Matches: 62, Mismatches: 17, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
2 2 0.03
3 60 0.97
ACGTcount: A:0.24, C:0.35, G:0.06, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:2935427 original size:12 final size:12
Alignment explanation
Indices: 2935348--2935438 Score: 76
Period size: 12 Copynumber: 7.4 Consensus size: 12
2935338 GTTTGGATCA
*
2935348 TCATC-TCATCA
1 TCATCGTCATCT
* *
2935359 TCATCATCATCA
1 TCATCGTCATCT
* *
2935371 TCGTCATCATCT
1 TCATCGTCATCT
* *
2935383 TCATCGCCAGCT
1 TCATCGTCATCT
2935395 TCATCGTCATCAT
1 TCATCGTCATC-T
2935408 CATCATCGTCATCT
1 --TCATCGTCATCT
*
2935422 TCATCGTCAGCT
1 TCATCGTCATCT
2935434 TCATC
1 TCATC
2935439 TTCTGCGACC
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
11 5 0.07
12 49 0.73
13 1 0.01
14 1 0.01
15 11 0.16
ACGTcount: A:0.22, C:0.35, G:0.08, T:0.35
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:2935438 original size:27 final size:27
Alignment explanation
Indices: 2935348--2935430 Score: 114
Period size: 27 Copynumber: 3.1 Consensus size: 27
2935338 GTTTGGATCA
* *
2935348 TCATC-TCATCATCATCATCATCATCG
1 TCATCATCATCATCGTCATCTTCATCG
* * *
2935374 TCATCATCTTCATCGCCAGCTTCATCG
1 TCATCATCATCATCGTCATCTTCATCG
2935401 TCATCATCATCATCGTCATCTTCATCG
1 TCATCATCATCATCGTCATCTTCATCG
2935428 TCA
1 TCA
2935431 GCTTCATCTT
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
26 5 0.10
27 43 0.90
ACGTcount: A:0.23, C:0.35, G:0.07, T:0.35
Consensus pattern (27 bp):
TCATCATCATCATCGTCATCTTCATCG
Found at i:2937400 original size:193 final size:197
Alignment explanation
Indices: 2936988--2937683 Score: 1211
Period size: 193 Copynumber: 3.6 Consensus size: 197
2936978 GATGATTTTG
* *
2936988 GGATCGACACTTTATTGGTGCACCTTGTTTTT-ATTCATTCTGGGAAAAAAATATCGAAACAAAC
1 GGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAAAAAATATCGACACAAAC
*
2937052 -TATTAGTGTCGACACATTA-TTAGACATATTCTCTCATAAAACCGGTATTATTGTACCGGTTAG
66 ATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAG
*
2937115 ATTGAAAAATTACATATTACATTATACTTTGGGTTCGATGATTTTGGGATCGACACGTTTTATAT
131 ATTGAAAAATTACATATTACATTATACTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATAT
2937180 AT
196 AT
2937182 GGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCT-GG-AAAAAA-ATCGACACAAAC
1 GGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAAAAAATATCGACACAAAC
2937244 TATATTAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACCGGTATAATTGTACCGGTTA
66 -ATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTA
2937308 GATTG-AAAATTACATATTAC-TTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTAT
130 GATTGAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGGGATCGACACTTTTTAT
2937371 ATAT
194 ATAT
2937375 GGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAAAAAATA-CGACACAAAC
1 GGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAAAAAATATCGACACAAAC
2937439 ATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAA-CGGTATAA-TGTACCGGTTAG
66 ATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAG
2937502 A-TGAAAAATTACATATTACATTATACTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATAT
131 ATTGAAAAATTACATATTACATTATACTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATAT
2937566 AT
196 AT
* *
2937568 GGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAAAAAATATCGACACAAAC
*
2937633 TATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTAT
66 -ATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
2937684 GATTTTGGGA
Statistics
Matches: 481, Mismatches: 7, Indels: 26
0.94 0.01 0.05
Matches are distributed among these distances:
192 19 0.04
193 222 0.46
194 145 0.30
195 88 0.18
196 7 0.01
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (197 bp):
GGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAAAAAATATCGACACAAAC
ATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAG
ATTGAAAAATTACATATTACATTATACTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATAT
AT
Found at i:2937581 original size:386 final size:370
Alignment explanation
Indices: 2936865--2937683 Score: 1282
Period size: 386 Copynumber: 2.2 Consensus size: 370
2936855 ATTAAATTAG
2936865 TATCGACACAAA-TATA-TAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
2936928 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTGGGTTCGATGATTTTGGGATC
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTGGGTTCGATGATTTTGGGATC
2936993 GACACTTTATTGGTGCACCTTGTTTTTATTCATTCTGGGAAAAAAATATCGAAACAAACTATTAG
131 GACACTTTATTGGTGCACCTTGTTTTTATTCATTCTGGGAAAAAAATATCGAAACAAACTATTAG
*
2937058 TGTCGACACATTATTAGACATATTCTCTCATAAAACCGGTATTATTGTACCGGTTAGATTGAAAA
196 TGTCGACACATTATTAGACATATTCTCTCATAAAACCGGTATTAATGTACCGGTTAGATTGAAAA
2937123 ATTACATATTACATTATACTTTGGGTTCGATGATTTTGGGATCGACACGTTTTATATATGGATCG
261 ATTACATATTACATTATACTTTGGGTTCGATGATTTTGGGATCGACACGTTTTATATATGGATCG
2937188 ACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG-AAAAAA
326 ACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAAAAA
2937232 -ATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
2937295 ATTGTACCGGTTAGATTG-AAAATTACATATTAC-TTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGGGAT
2937358 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAA
130 CGACAC--------T-T---T----A---T-T-GGTGCACCTTGTTTTT-ATTCATTCTGGGAAA
*
2937423 AAAATA-CGACACAAACATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAA-CGGT
173 AAAATATCGAAACAAAC-TATTAGTGTCGACACATTA-TTAGACATATTCTCTCATAAAACCGGT
2937486 A-TAATGTACCGGTTAGA-TGAAAAATTACATATTACATTATACTTTGGGTTCGATGATTTTGGG
236 ATTAATGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTGGGTTCGATGATTTTGGG
* *
2937549 ATCGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAA
301 ATCGACACGTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG-A
2937614 AAAAAA
365 AAAAAA
*
2937620 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTAT
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
2937684 GATTTTGGGA
Statistics
Matches: 416, Mismatches: 5, Indels: 39
0.90 0.01 0.08
Matches are distributed among these distances:
365 6 0.01
366 55 0.13
367 33 0.08
368 35 0.08
374 1 0.00
375 1 0.00
378 1 0.00
382 1 0.00
385 1 0.00
386 108 0.26
387 40 0.10
388 51 0.12
389 73 0.18
390 10 0.02
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (370 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTGGGTTCGATGATTTTGGGATC
GACACTTTATTGGTGCACCTTGTTTTTATTCATTCTGGGAAAAAAATATCGAAACAAACTATTAG
TGTCGACACATTATTAGACATATTCTCTCATAAAACCGGTATTAATGTACCGGTTAGATTGAAAA
ATTACATATTACATTATACTTTGGGTTCGATGATTTTGGGATCGACACGTTTTATATATGGATCG
ACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAAAAA
Found at i:2937772 original size:337 final size:336
Alignment explanation
Indices: 2937345--2938019 Score: 1177
Period size: 340 Copynumber: 2.0 Consensus size: 336
2937335 TTTGGGTTCG
2937345 ATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAAT
1 ATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAAT
2937410 TCATTCTGGGAAAAAAATACGACACAAAC-ATATTAGTGTCGACACATTATTTAGACATATTCTC
66 TCATTCTGGGAAAAAAATACGACACAAACTATATTAGTGTCGACACA-TATTTAGACATATTCTC
*
2937474 TCATAAAA-CGGTATAA-TGTACCGGTTAGA-TGAAAAATTACATATTACATTATAC-TTTGGGT
130 TCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACAGA-TACATTATACTTTTGGGT
*
2937535 TCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTT
194 TCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTT
2937600 AATTCATTCTGG-AAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTA
259 AATTCATTCTGGAAAAAAAAATATCGACACAAACTATATTAGTGTCGAC-CATTA-TTAGAC-TA
2937664 TTCTCTCATAAAACCGGT
321 -TCTCTCATAAAA-CGGT
2937682 ATGATTTTGGGATCGACACTTTTTTATATATGGATCGACACTTTATGGG-GCACCTTGTTTTTAA
1 ATGATTTTGGGATCGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAA
*
2937746 TTCATTCT-GGAAAAAAATATCGACACAAACTATATTAGTGTCGACACATATTTAGACTTATTCT
65 TTCATTCTGGGAAAAAAATA-CGACACAAACTATATTAGTGTCGACACATATTTAGACATATTCT
2937810 CTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACAGATACATTATACTTTTGGGT
129 CTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACAGATACATTATACTTTTGGGT
2937875 TCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTT
194 TCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTT
*
2937940 AATTCATTCTGGAAAAAAAAATATCGACACAAACTATATTAGTTTCGACCATTATTAGACTATCT
259 AATTCATTCTGGAAAAAAAAATATCGACACAAACTATATTAGTGTCGACCATTATTAGACTATCT
2938005 CTCATAAAACGGT
324 CTCATAAAACGGT
2938018 AT
1 AT
2938020 AATTGTACCG
Statistics
Matches: 326, Mismatches: 4, Indels: 17
0.94 0.01 0.05
Matches are distributed among these distances:
336 17 0.05
337 88 0.27
338 56 0.17
339 29 0.09
340 101 0.31
341 35 0.11
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (336 bp):
ATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAAT
TCATTCTGGGAAAAAAATACGACACAAACTATATTAGTGTCGACACATATTTAGACATATTCTCT
CATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACAGATACATTATACTTTTGGGTTC
GATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAA
TTCATTCTGGAAAAAAAAATATCGACACAAACTATATTAGTGTCGACCATTATTAGACTATCTCT
CATAAAACGGT
Found at i:2938136 original size:192 final size:197
Alignment explanation
Indices: 2937682--2938180 Score: 838
Period size: 192 Copynumber: 2.6 Consensus size: 197
2937672 TAAAACCGGT
**
2937682 ATGATTTTGGGATCGACACTTTTTTATATATGGATCGACACTTTA-TGGGGCACCTTGTTTTTAA
1 ATGATTTTGGGATCGACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAA
*
2937746 TTCATTCTGG-AAAAAAATATCGACACAAACTATATTAGTGTCGACACATATTTAGACTTATTCT
65 TTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTATCGACACATATTTAGACTTATTCT
*
2937810 CTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACAGATACATTATACTTTTGGGT
130 CTCATAAAACCGGTATAATTGTACCGGTTAGATTAAAAAATTACAGATACATTATACTTTTGGGT
2937875 TCG
195 TCG
2937878 ATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAAT
1 ATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAAT
*
2937943 TCATTCTGGAAAAAAAAATATCGACACAAACTATATTAGTTTCGAC-CAT-TATTAGAC-TA-TC
66 TCATTCTGG-AAAAAAAATATCGACACAAACTATATTAGTATCGACACATAT-TTAGACTTATTC
*
2938004 TCTCATAAAA-CGGTATAATTGTACCGGTT-GATTAAAAAATTACATATTACATTATACTTTTGG
129 TCTCATAAAACCGGTATAATTGTACCGGTTAGATTAAAAAATTACAGA-TACATTATACTTTTGG
2938067 GTTCG
193 GTTCG
2938072 ATGA-TTTGGGATCGACAC-TTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAAT
1 ATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAAT
2938135 TCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTATCGACA
66 TCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTATCGACA
2938181 GACCCTTAAT
Statistics
Matches: 291, Mismatches: 6, Indels: 16
0.93 0.02 0.05
Matches are distributed among these distances:
191 35 0.12
192 54 0.19
193 29 0.10
194 44 0.15
195 37 0.13
196 49 0.17
197 9 0.03
198 34 0.12
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (197 bp):
ATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAAT
TCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTATCGACACATATTTAGACTTATTCTC
TCATAAAACCGGTATAATTGTACCGGTTAGATTAAAAAATTACAGATACATTATACTTTTGGGTT
CG
Found at i:2938288 original size:19 final size:19
Alignment explanation
Indices: 2938261--2938305 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
2938251 TATTCACATA
*
2938261 AAAAATATAAATCGTATAC
1 AAAATTATAAATCGTATAC
*
2938280 AAAATTATAAATCTTATAC
1 AAAATTATAAATCGTATAC
2938299 AAAATTA
1 AAAATTA
2938306 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:2942492 original size:17 final size:17
Alignment explanation
Indices: 2942470--2942518 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 17
2942460 ATATATCCGG
*
2942470 TATCATTTTACCGTTTT
1 TATCATTTTACCGGTTT
2942487 TATCATTTTGATACCGGTTT
1 TATCA-TTT--TACCGGTTT
2942507 TATCATTTTACC
1 TATCATTTTACC
2942519 TGTTATAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
17 9 0.32
18 3 0.11
19 3 0.11
20 13 0.46
ACGTcount: A:0.20, C:0.18, G:0.08, T:0.53
Consensus pattern (17 bp):
TATCATTTTACCGGTTT
Found at i:2942507 original size:20 final size:20
Alignment explanation
Indices: 2942478--2942515 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2942468 GGTATCATTT
*
2942478 TACCGTTTTTATCATTTTGA
1 TACCGGTTTTATCATTTTGA
2942498 TACCGGTTTTATCATTTT
1 TACCGGTTTTATCATTTT
2942516 ACCTGTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.11, T:0.55
Consensus pattern (20 bp):
TACCGGTTTTATCATTTTGA
Found at i:2942675 original size:20 final size:21
Alignment explanation
Indices: 2942641--2942687 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
2942631 CACTTTTAAA
2942641 TTTACCGGTTTTTATCAT-TT
1 TTTACCGGTTTTTATCATATT
2942661 TGTTACCGG-TTTTATCATATT
1 T-TTACCGGTTTTTATCATATT
2942682 TTTACC
1 TTTACC
2942688 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (21 bp):
TTTACCGGTTTTTATCATATT
Found at i:2943145 original size:222 final size:226
Alignment explanation
Indices: 2942755--2943189 Score: 699
Period size: 222 Copynumber: 1.9 Consensus size: 226
2942745 AACTGCTTTT
2942755 AAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATATTAAT
1 AAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATATTAAT
**
2942820 TTAATAATTTAATTTACACAAAATTTTATTTGATTGTTTTTGATATTTTATAAAATATTATTTAG
66 TTAATAATTTAATTTACACAAAAAATTATTTGATTGTTTTTGATATTTTATAAAATATTATTTAG
* *
2942885 CATTTAATTTAACATATTAACCAATATAATAATAAATATGTTTTCAACAGTGAAAT-AGTATGGA
131 CATTTAATTTAACATATTAACCAAGATAATAATAAATATATTTTC-ACAGTGAAATAAGTATGGA
*
2942949 CACTTTTATAAAAATGATATATACTTTTTTGA
195 CACTTTTATAAAAAGGATATATACTTTTTTGA
2942981 AAGTTATGTAATTTATGTTTCAAATTT-TTT-ATAGTGTTTCATG-TTTCCACCT-CAATATTAA
1 AAGTTATGTAATTTATGTTTC-AATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATATTAA
*
2943042 TTTAATAATTTCATTTACACAAAAAATTATTTGATTG-TTTTGATATTTTATAAAATATTA-TTA
65 TTTAATAATTTAATTTACACAAAAAATTATTTGATTGTTTTTGATATTTTATAAAATATTATTTA
*
2943105 G-ATTTTAAATTTAACAATATT-ACTAAGATAATAATAAATATATTTTCACAGTGAAATAAGTAT
130 GCA-TTT-AATTTAAC-ATATTAACCAAGATAATAATAAATATATTTTCACAGTGAAATAAGTAT
2943168 GGACACTTTTATAAAAAGGATA
192 GGACACTTTTATAAAAAGGATA
2943190 GATAATTTAC
Statistics
Matches: 197, Mismatches: 7, Indels: 14
0.90 0.03 0.06
Matches are distributed among these distances:
220 1 0.01
221 17 0.09
222 80 0.41
223 48 0.24
224 9 0.05
225 13 0.07
226 24 0.12
227 5 0.03
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (226 bp):
AAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATATTAAT
TTAATAATTTAATTTACACAAAAAATTATTTGATTGTTTTTGATATTTTATAAAATATTATTTAG
CATTTAATTTAACATATTAACCAAGATAATAATAAATATATTTTCACAGTGAAATAAGTATGGAC
ACTTTTATAAAAAGGATATATACTTTTTTGA
Found at i:2946190 original size:37 final size:37
Alignment explanation
Indices: 2946140--2946215 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
2946130 CTGTTATGAA
*
2946140 AGTACACACAATATGAATGAGAAAATATGTAAAAGAG
1 AGTACACACAATATGAACGAGAAAATATGTAAAAGAG
*
2946177 AGTACACATAATATGAACGAGAAAATATGTAAAAGAG
1 AGTACACACAATATGAACGAGAAAATATGTAAAAGAG
2946214 AG
1 AG
2946216 GAGTTAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.54, C:0.08, G:0.20, T:0.18
Consensus pattern (37 bp):
AGTACACACAATATGAACGAGAAAATATGTAAAAGAG
Found at i:2954554 original size:22 final size:24
Alignment explanation
Indices: 2954506--2954557 Score: 81
Period size: 22 Copynumber: 2.2 Consensus size: 24
2954496 AATGCCAATC
*
2954506 TTTTCTTTATCTTTCTTTTACCCT
1 TTTTCTTCATCTTTCTTTTACCCT
2954530 TTTTCTTCAT-TTTCTTTT-CCCT
1 TTTTCTTCATCTTTCTTTTACCCT
2954552 TTTTCT
1 TTTTCT
2954558 CTTGCTACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 10 0.37
23 8 0.30
24 9 0.33
ACGTcount: A:0.06, C:0.25, G:0.00, T:0.69
Consensus pattern (24 bp):
TTTTCTTCATCTTTCTTTTACCCT
Found at i:2965242 original size:15 final size:14
Alignment explanation
Indices: 2965222--2965261 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
2965212 TTTACCGGAT
2965222 AAAAAACCGGTTTGA
1 AAAAAACCGGTTT-A
2965237 AAAAAACCGG-TTA
1 AAAAAACCGGTTTA
2965250 AAAAAA-CGGTTT
1 AAAAAACCGGTTT
2965262 TTATCCGGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.12
13 9 0.38
14 2 0.08
15 10 0.42
ACGTcount: A:0.50, C:0.12, G:0.17, T:0.20
Consensus pattern (14 bp):
AAAAAACCGGTTTA
Found at i:2967586 original size:21 final size:21
Alignment explanation
Indices: 2967562--2967601 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2967552 TTTATTTTAT
2967562 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
2967583 AACTTTGTTTCAATTATCG
1 AACTTTATTTCAATTATCG
2967602 AACTTGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:2967649 original size:33 final size:33
Alignment explanation
Indices: 2967596--2967694 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
2967586 TTTGTTTCAA
*
2967596 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCAAACTTGGAAGTTTTTAAGTATTTGAAT
2967628 TTATCAAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCAAACTTGGAAGTTTTTAAGTATTTGAAT
* *
2967661 TTATCAAACTTGGAAGTATTTAAGTATTTCAAT
1 TTATCAAACTTGGAAGTTTTTAAGTATTTGAAT
2967694 T
1 T
2967695 ATGTTGAGTT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 10 0.16
33 53 0.84
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.45
Consensus pattern (33 bp):
TTATCAAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:2967723 original size:13 final size:13
Alignment explanation
Indices: 2967680--2967729 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
2967670 TTGGAAGTAT
2967680 TTAAGTATTTCAA
1 TTAAGTATTTCAA
* *
2967693 TTATGTTGAGTT-AA
1 TTAAG-T-ATTTCAA
2967707 TTAAGTATTTCAA
1 TTAAGTATTTCAA
2967720 TTAAGTATTT
1 TTAAGTATTT
2967730 GATTTTATCG
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
12 3 0.10
13 17 0.57
14 7 0.23
15 3 0.10
ACGTcount: A:0.34, C:0.04, G:0.12, T:0.50
Consensus pattern (13 bp):
TTAAGTATTTCAA
Found at i:2968162 original size:14 final size:14
Alignment explanation
Indices: 2968132--2968185 Score: 63
Period size: 14 Copynumber: 3.6 Consensus size: 14
2968122 ATGTGGAATA
*
2968132 TTAAAATCGGTTTTT
1 TTAAAACCGG-TTTT
*
2968147 TTATAACCGGTTTT
1 TTAAAACCGGTTTT
2968161 TTAAAAAACCGGTTTT
1 TT--AAAACCGGTTTT
2968177 TTAAAACCG
1 TTAAAACCG
2968186 AAACCGGTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
14 13 0.38
15 8 0.24
16 13 0.38
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (14 bp):
TTAAAACCGGTTTT
Found at i:2968170 original size:16 final size:16
Alignment explanation
Indices: 2968151--2968182 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
2968141 GTTTTTTTAT
2968151 AACCGGTTTTTTAAAA
1 AACCGGTTTTTTAAAA
2968167 AACCGGTTTTTTAAAA
1 AACCGGTTTTTTAAAA
2968183 CCGAAACCGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (16 bp):
AACCGGTTTTTTAAAA
Found at i:2968302 original size:15 final size:17
Alignment explanation
Indices: 2968276--2968307 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
2968266 TTCTATGAGA
2968276 AAAAACCGGAT-CGGAT
1 AAAAACCGGATCCGGAT
2968292 AAAAACC-GATCCGGAT
1 AAAAACCGGATCCGGAT
2968308 CGGATTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (17 bp):
AAAAACCGGATCCGGAT
Found at i:2968944 original size:16 final size:16
Alignment explanation
Indices: 2968923--2968953 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2968913 TAAACTCTTA
2968923 TTTTAATTTTAAATAC
1 TTTTAATTTTAAATAC
*
2968939 TTTTAATTTTTAATA
1 TTTTAATTTTAAATA
2968954 AGACTAGCGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTTAATTTTAAATAC
Found at i:2975409 original size:27 final size:27
Alignment explanation
Indices: 2975371--2975423 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
2975361 GATTGGCAAA
2975371 ATCTAACAAAATATATAACTAAAATAT
1 ATCTAACAAAATATATAACTAAAATAT
2975398 ATCTAACAAAATATATAACTAAAATA
1 ATCTAACAAAATATATAACTAAAATA
2975424 CATAAAATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.28
Consensus pattern (27 bp):
ATCTAACAAAATATATAACTAAAATAT
Found at i:2975410 original size:14 final size:14
Alignment explanation
Indices: 2975371--2975413 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
2975361 GATTGGCAAA
2975371 ATCTAACAAAATAT
1 ATCTAACAAAATAT
2975385 A--TAACTAAAATAT
1 ATCTAAC-AAAATAT
2975398 ATCTAACAAAATAT
1 ATCTAACAAAATAT
2975412 AT
1 AT
2975414 AACTAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 4 0.15
13 8 0.31
14 10 0.38
15 4 0.15
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (14 bp):
ATCTAACAAAATAT
Found at i:2975416 original size:12 final size:13
Alignment explanation
Indices: 2975374--2975428 Score: 69
Period size: 13 Copynumber: 4.2 Consensus size: 13
2975364 TGGCAAAATC
2975374 TAAC-AAAATATA
1 TAACTAAAATATA
2975386 TAACTAAAATATA
1 TAACTAAAATATA
2975399 TCTAAC-AAAATATA
1 --TAACTAAAATATA
*
2975413 TAACTAAAATACA
1 TAACTAAAATATA
2975426 TAA
1 TAA
2975429 AATAGTTTGA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
12 8 0.21
13 18 0.47
14 8 0.21
15 4 0.11
ACGTcount: A:0.62, C:0.11, G:0.00, T:0.27
Consensus pattern (13 bp):
TAACTAAAATATA
Found at i:2975592 original size:22 final size:22
Alignment explanation
Indices: 2975550--2975592 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
2975540 AAATAATAAT
*
2975550 ATTATAAAAAAATATTGATTTG
1 ATTATAAAAAAATATTAATTTG
*
2975572 ATTATAATATAAAT-TTAATTT
1 ATTATAA-AAAAATATTAATTT
2975593 TTTGGTACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (22 bp):
ATTATAAAAAAATATTAATTTG
Found at i:2981946 original size:15 final size:15
Alignment explanation
Indices: 2981926--2981982 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
2981916 TGATTTTTCA
2981926 GAAAATGAATTACTG
1 GAAAATGAATTACTG
2981941 GAAAATGAATTACTG
1 GAAAATGAATTACTG
* **
2981956 TAATTTGAATT-CTG
1 GAAAATGAATTACTG
2981970 GAAAATGAATTAC
1 GAAAATGAATTAC
2981983 ATTTCTGAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
14 11 0.31
15 24 0.69
ACGTcount: A:0.44, C:0.07, G:0.18, T:0.32
Consensus pattern (15 bp):
GAAAATGAATTACTG
Found at i:2982012 original size:19 final size:20
Alignment explanation
Indices: 2981965--2982013 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
2981955 GTAATTTGAA
*
2981965 TTCTGGAAAATGAATTACAT
1 TTCTGAAAAATGAATTACAT
2981985 TTCTGAAAAATGAATTACAT
1 TTCTGAAAAATGAATTACAT
2982005 TTCT-AAAAA
1 TTCTGAAAAA
2982014 ACGTTTTATG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 5 0.18
20 23 0.82
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (20 bp):
TTCTGAAAAATGAATTACAT
Found at i:2982346 original size:28 final size:28
Alignment explanation
Indices: 2982306--2982409 Score: 115
Period size: 28 Copynumber: 3.6 Consensus size: 28
2982296 CTTTACTAAA
2982306 ATATTATTTAAATATAAAAATAATATTAT
1 ATATTA-TTAAATATAAAAATAATATTAT
*
2982335 -TCATTATTAAATATATAAAAAAAATTATTAT
1 AT-ATTATT-AA-ATATAAAAATAA-TATTAT
2982366 ATATTATTAAA-ATAAAAATAATATCT-T
1 ATATTATTAAATATAAAAATAATAT-TAT
2982393 ATATTATTATAATATAA
1 ATATTATTA-AATATAA
2982410 TTGATTATAT
Statistics
Matches: 65, Mismatches: 2, Indels: 16
0.78 0.02 0.19
Matches are distributed among these distances:
27 13 0.20
28 15 0.23
29 11 0.17
30 13 0.20
31 12 0.18
32 1 0.02
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (28 bp):
ATATTATTAAATATAAAAATAATATTAT
Found at i:2983568 original size:24 final size:23
Alignment explanation
Indices: 2983536--2983591 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
2983526 TGTAGATTAT
2983536 AATTAATTATTGTAATCAATATAA
1 AATT-ATTATTGTAATCAATATAA
* * *
2983560 AATTGATTATTTTATTTAATATAA
1 AATT-ATTATTGTAATCAATATAA
2983584 AATTATTA
1 AATTATTA
2983592 CTACGAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 4 0.14
24 24 0.86
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (23 bp):
AATTATTATTGTAATCAATATAA
Found at i:2984060 original size:20 final size:20
Alignment explanation
Indices: 2984035--2984127 Score: 96
Period size: 21 Copynumber: 4.5 Consensus size: 20
2984025 TTTTCCCAAT
2984035 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
2984055 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
*
2984075 TTTGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
* * *
2984096 TCGCAACGCGAATTGAGAAAA
1 TCGCAATGCGAA-TAAGTAAA
2984117 TCGCAATGCGA
1 TCGCAATGCGA
2984128 TACTGACTAT
Statistics
Matches: 57, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 26 0.46
21 31 0.54
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.19
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:2984094 original size:41 final size:41
Alignment explanation
Indices: 2984032--2984127 Score: 165
Period size: 41 Copynumber: 2.3 Consensus size: 41
2984022 CGATTTTCCC
*
2984032 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
*
2984073 AATTTGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
*
2984114 AAATCGCAATGCGA
1 AATTCGCAATGCGA
2984128 TACTGACTAT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.41, C:0.17, G:0.23, T:0.20
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
Found at i:2984140 original size:41 final size:41
Alignment explanation
Indices: 2984054--2984188 Score: 105
Period size: 41 Copynumber: 3.3 Consensus size: 41
2984044 GAATAAGTAA
* * * * *
2984054 ATCGCAACGCGAATTGGGAAATTTGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGAGAAAATCGCAATGCG-ATACTG-ACT
2984095 ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTGACT
* * * * * * *
2984136 ATCGCAATGCGATAAT-AAAAAATCGTAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGAGAAAATCGCAATGCGATACTGACT
*
2984177 TTCGCAACGCGA
1 ATCGCAACGCGA
2984189 TACTGACTTT
Statistics
Matches: 77, Mismatches: 14, Indels: 6
0.79 0.14 0.06
Matches are distributed among these distances:
40 4 0.05
41 71 0.92
42 2 0.03
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (41 bp):
ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTGACT
Found at i:2984141 original size:20 final size:20
Alignment explanation
Indices: 2984116--2984210 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
2984106 AATTGAGAAA
*
2984116 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
2984136 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* * *
2984157 ATCGTAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
2984177 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
2984197 TTCGCAACGCGATA
1 ATCGCAACGCGATA
2984211 ATACATAATC
Statistics
Matches: 59, Mismatches: 15, Indels: 2
0.78 0.20 0.03
Matches are distributed among these distances:
20 46 0.78
21 13 0.22
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:2984426 original size:22 final size:22
Alignment explanation
Indices: 2984398--2984441 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
2984388 CACTCTCTCA
2984398 CCCATCTCTGACGAAATCCGTC
1 CCCATCTCTGACGAAATCCGTC
*
2984420 CCCATCTCTGGCGAAATCCGTC
1 CCCATCTCTGACGAAATCCGTC
2984442 TATCTAAATC
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:0.41, G:0.16, T:0.23
Consensus pattern (22 bp):
CCCATCTCTGACGAAATCCGTC
Found at i:2984730 original size:20 final size:20
Alignment explanation
Indices: 2984705--2984742 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2984695 CGATTCTCTC
2984705 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
2984725 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
2984743 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:2986077 original size:18 final size:18
Alignment explanation
Indices: 2986056--2986100 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
2986046 TCCACTTCGG
*
2986056 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* *
2986074 GAGCTATCACCTCACCTA
1 GAGCCATCACCTCACCCA
2986092 GAGCCATCA
1 GAGCCATCA
2986101 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:2986623 original size:19 final size:20
Alignment explanation
Indices: 2986569--2986635 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
2986559 TAGTTTACTT
* *
2986569 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
2986589 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
2986609 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
2986628 TCGCAACG
1 TCGCAACG
2986636 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:2986643 original size:14 final size:14
Alignment explanation
Indices: 2986624--2986681 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
2986614 ATGCGAAATG
2986624 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
2986638 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
2986654 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
2986670 AAAATCGCAACG
1 AAAATCGCAACG
2986682 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:2986666 original size:32 final size:33
Alignment explanation
Indices: 2986608--2986698 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
2986598 GGAAATGGCT
*
2986608 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
2986641 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
2986673 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAACGCGAAATGAAAATCGCAA
2986699 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:2986692 original size:19 final size:19
Alignment explanation
Indices: 2986569--2986703 Score: 85
Period size: 19 Copynumber: 7.6 Consensus size: 19
2986559 TAGTTTACTT
* **
2986569 TCGCAACACGAAAATGACTA
1 TCGCAACGCG-AAATGAAAA
***
2986589 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
2986609 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
2986628 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
2986642 TCGCAACGCGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
*
2986660 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
2986674 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
2986693 TCGCAATGCGA
1 TCGCAACGCGA
2986704 TTTGTGTTTC
Statistics
Matches: 92, Mismatches: 11, Indels: 25
0.72 0.09 0.20
Matches are distributed among these distances:
14 20 0.22
15 1 0.01
16 6 0.07
17 2 0.02
18 11 0.12
19 27 0.29
20 24 0.26
21 1 0.01
ACGTcount: A:0.43, C:0.24, G:0.21, T:0.13
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:2986734 original size:14 final size:14
Alignment explanation
Indices: 2986715--2986772 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
2986705 TTGTGTTTCG
2986715 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
2986729 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
2986745 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
2986761 CGTTGCGATTTT
1 CGTTGCGATTTT
2986773 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:2986749 original size:32 final size:33
Alignment explanation
Indices: 2986710--2986788 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
2986700 GCGATTTGTG
2986710 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
2986742 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
2986775 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
2986789 AGCCATTTTC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 27 0.60
33 18 0.40
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:2986787 original size:19 final size:19
Alignment explanation
Indices: 2986729--2986846 Score: 95
Period size: 20 Copynumber: 6.4 Consensus size: 19
2986719 GCGATTTTGT
2986729 CGTTGCGA-TTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
2986747 CGTTGCGA-TTT--TGT--
1 CGTTGCGATTTTCATTTCG
2986761 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
* ***
2986780 CATTGCGATAGCCATTTTCG
1 CGTTGCGATTTTCA-TTTCG
**
2986800 CGTTGCGATAGTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
2986819 CGTTGCGATTTTAAGTTTCG
1 CGTTGCGATTTTCA-TTTCG
*
2986839 TGTTGCGA
1 CGTTGCGA
2986847 AAGTAAACTA
Statistics
Matches: 81, Mismatches: 12, Indels: 12
0.77 0.11 0.11
Matches are distributed among these distances:
14 8 0.10
15 3 0.04
16 2 0.02
17 2 0.02
18 11 0.14
19 26 0.32
20 29 0.36
ACGTcount: A:0.14, C:0.19, G:0.25, T:0.42
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:2986838 original size:39 final size:37
Alignment explanation
Indices: 2986710--2986846 Score: 105
Period size: 39 Copynumber: 3.9 Consensus size: 37
2986700 GCGATTTGTG
2986710 TTTCGCGTTGCGATTTT-G--T--CGTTGCGATTTCA
1 TTTCGCGTTGCGATTTTAGTTTCGCGTTGCGATTTCA
2986742 TTTCGCGTTGCGATTTT-G--T--CGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTAGTTTCGCGTTGCGA-TTTCA
* *** * *
2986775 TTTCGCATTGCGATAGCCATTTTCGCGTTGCGATAGTCA
1 TTTCGCGTTGCGAT-TTTAGTTTCGCGTTGCGAT-TTCA
*
2986814 TTTCGCGTTGCGATTTTAAGTTTCGTGTTGCGA
1 TTTCGCGTTGCGATTTT-AGTTTCGCGTTGCGA
2986847 AAGTAAACTA
Statistics
Matches: 84, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
32 27 0.32
33 18 0.21
37 1 0.01
38 1 0.01
39 37 0.44
ACGTcount: A:0.12, C:0.19, G:0.25, T:0.44
Consensus pattern (37 bp):
TTTCGCGTTGCGATTTTAGTTTCGCGTTGCGATTTCA
Found at i:2988707 original size:14 final size:14
Alignment explanation
Indices: 2988688--2988723 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
2988678 ATTGTTTAAT
2988688 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
2988702 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
2988716 TGATTTGT
1 TGATTTGT
2988724 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:2989295 original size:14 final size:14
Alignment explanation
Indices: 2989276--2989311 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
2989266 ATTGTTTAAT
2989276 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
2989290 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
2989304 TGATTTGT
1 TGATTTGT
2989312 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:2991691 original size:23 final size:23
Alignment explanation
Indices: 2991636--2991681 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
2991626 AGTCAGTATT
* *
2991636 CGAAATTGATCTTGGTCAATACC
1 CGAACTTGATATTGGTCAATACC
*
2991659 CGGACTTGATATTGGTCAATACC
1 CGAACTTGATATTGGTCAATACC
2991682 GAATTTTGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (23 bp):
CGAACTTGATATTGGTCAATACC
Found at i:2994153 original size:22 final size:19
Alignment explanation
Indices: 2994128--2994248 Score: 62
Period size: 19 Copynumber: 6.7 Consensus size: 19
2994118 CTTAATGTCC
2994128 ATCGCAACGCGGAAACGACAAA
1 ATCGCAACGC-GAAACG--AAA
* *
2994150 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAACGAAA
*
2994169 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAACGAAA
* *
2994183 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAACGAAA
* **
2994202 ATCGCAA-ACG--A-GGGA
1 ATCGCAACGCGAAACGAAA
* *
2994217 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAACGAAA
2994236 ATCGCAACGCGAA
1 ATCGCAACGCGAA
2994249 TTTAATTTCG
Statistics
Matches: 79, Mismatches: 11, Indels: 21
0.71 0.10 0.19
Matches are distributed among these distances:
14 10 0.13
15 10 0.13
16 5 0.06
17 2 0.03
18 4 0.05
19 34 0.43
21 5 0.06
22 9 0.11
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.11
Consensus pattern (19 bp):
ATCGCAACGCGAAACGAAA
Found at i:2994186 original size:33 final size:33
Alignment explanation
Indices: 2994149--2994244 Score: 174
Period size: 34 Copynumber: 2.9 Consensus size: 33
2994139 GAAACGACAA
2994149 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
*
2994182 AATCGCAATGCGAAATGAAAATCGCAAACGAGGG
1 AATCGCAATGCGAAATGAAAATCGC-AACGAGAG
2994216 AATCGCAATGCGAAATGAAAATCGCAACG
1 AATCGCAATGCGAAATGAAAATCGCAACG
2994245 CGAATTTAAT
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
33 29 0.48
34 32 0.52
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.12
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:2994266 original size:19 final size:20
Alignment explanation
Indices: 2994244--2994286 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
2994234 AAATCGCAAC
2994244 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
2994263 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
2994283 GCGA
1 GCGA
2994287 TTCTCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:2994442 original size:14 final size:14
Alignment explanation
Indices: 2994423--2994459 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2994413 CATCAATTAA
2994423 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
2994437 ACAAATCACCTTTT
1 ACAAATCAACTTTT
2994451 ACAAATCAA
1 ACAAATCAA
2994460 TTAAACAATA
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:2995860 original size:21 final size:21
Alignment explanation
Indices: 2995794--2995860 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
2995784 GTGAATCGGG
*
2995794 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
2995814 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
2995836 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
2995857 CTCT
1 CTCT
2995861 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:2995879 original size:42 final size:41
Alignment explanation
Indices: 2995794--2995916 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
2995784 GTGAATCGGG
* * * * *
2995794 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
2995836 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
2995878 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
2995917 CGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 58 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:2997922 original size:20 final size:20
Alignment explanation
Indices: 2997893--2997954 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
2997883 TTTTGGTTGA
*
2997893 AATGAAAATCGCAACGAGAT
1 AATGAAAATCGCAACGAGAG
* *
2997913 AATGAGAATCGCAACGCG-G
1 AATGAAAATCGCAACGAGAG
**
2997932 AATGACTATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
2997952 AAT
1 AAT
2997955 CGCAACGCGA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 15 0.43
20 20 0.57
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:2997936 original size:39 final size:37
Alignment explanation
Indices: 2997891--2998074 Score: 150
Period size: 33 Copynumber: 5.1 Consensus size: 37
2997881 TCTTTTGGTT
*
2997891 GAAATGAAAATCGCAACGAGATAATGAGAATCGCAACGC
1 GAAATGAAAATCGCAACG-GA-AATGAAAATCGCAACGC
* ** *
2997930 GGAATGACTATCGCAAC-G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGGAAATGAAAATCGCAACGC
** * * *
2997963 GAAATGACTATCGCGAC---CA-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGGAAATGAAAATCGCAACGC
*
2997996 GAAATGAAAATCGCAACCGCGAAATTAAAATCGCAACGC
1 GAAATGAAAATCGCAA-CG-GAAATGAAAATCGCAACGC
* *
2998035 GAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACG-GAAATGAAAATCGCAACGC
2998073 GA
1 GA
2998075 TTTTGGTTCG
Statistics
Matches: 123, Mismatches: 15, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
33 56 0.46
34 2 0.02
37 1 0.01
38 22 0.18
39 42 0.34
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.13
Consensus pattern (37 bp):
GAAATGAAAATCGCAACGGAAATGAAAATCGCAACGC
Found at i:2998007 original size:19 final size:19
Alignment explanation
Indices: 2997891--2998074 Score: 163
Period size: 19 Copynumber: 10.1 Consensus size: 19
2997881 TCTTTTGGTT
*
2997891 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
2997910 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
* **
2997930 GGAATGACTATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
2997947 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
2997963 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
2997981 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
2997996 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
2998016 GAAATTAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
2998035 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
*
2998054 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
2998073 GA
1 GA
2998075 TTTTGGTTCG
Statistics
Matches: 137, Mismatches: 16, Indels: 24
0.77 0.09 0.14
Matches are distributed among these distances:
14 19 0.14
15 3 0.02
16 2 0.01
17 2 0.01
18 3 0.02
19 74 0.54
20 34 0.25
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:2998091 original size:18 final size:19
Alignment explanation
Indices: 2998070--2998133 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
2998060 AAAATCGCAA
*
2998070 TGCGATTTT-GGTTCGCGT
1 TGCGATTTTAAGTTCGCGT
*
2998088 TGCGATTTTAATTTCGCGT
1 TGCGATTTTAAGTTCGCGT
** * *
2998107 TGCGATAGTCATTTCGCGT
1 TGCGATTTTAAGTTCGCGT
2998126 TGCGATTT
1 TGCGATTT
2998134 CATTCTCGAA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
18 9 0.24
19 29 0.76
ACGTcount: A:0.12, C:0.17, G:0.27, T:0.44
Consensus pattern (19 bp):
TGCGATTTTAAGTTCGCGT
Found at i:2998105 original size:19 final size:19
Alignment explanation
Indices: 2998081--2998133 Score: 79
Period size: 19 Copynumber: 2.8 Consensus size: 19
2998071 GCGATTTTGG
2998081 TTCGCGTTGCGATTTTAAT
1 TTCGCGTTGCGATTTTAAT
** *
2998100 TTCGCGTTGCGATAGTCAT
1 TTCGCGTTGCGATTTTAAT
2998119 TTCGCGTTGCGATTT
1 TTCGCGTTGCGATTT
2998134 CATTCTCGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.13, C:0.19, G:0.25, T:0.43
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTAAT
Found at i:2998741 original size:20 final size:20
Alignment explanation
Indices: 2998648--2998741 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
2998638 GGCTAAGTAA
*
2998648 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
* *
2998668 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTCAGT
* ** * *
2998688 ATCTCGTTGCGATTTTTTATT
1 ATCGCGTTGCGA-TAGTCAGT
*
2998709 ATCGCATTGCGATAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
*
2998729 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
2998742 TTTCCCAATT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGT
Found at i:2998759 original size:21 final size:21
Alignment explanation
Indices: 2998730--2998804 Score: 89
Period size: 21 Copynumber: 3.6 Consensus size: 21
2998720 ATAGTCAGTA
2998730 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
2998751 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
*
2998771 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
*
2998792 TCGCGTTGCGATT
1 TCGCATTGCGATT
2998805 ACTTATTTCG
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 16 0.37
21 27 0.63
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.39
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:2998760 original size:41 final size:41
Alignment explanation
Indices: 2998669--2998803 Score: 130
Period size: 41 Copynumber: 3.3 Consensus size: 41
2998659 AAAGTCAGTA
* * * ** *
2998669 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* *
2998709 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* ** *
2998751 TCGCGTTGCGAT-TTACTTATTCGCATTGCGAATTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
2998792 TCGCGTTGCGAT
1 TCGCGTTGCGAT
2998804 TACTTATTTC
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
40 3 0.04
41 73 0.94
42 2 0.03
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:2998774 original size:20 final size:20
Alignment explanation
Indices: 2998730--2998822 Score: 80
Period size: 20 Copynumber: 4.5 Consensus size: 20
2998720 ATAGTCAGTA
* **
2998730 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
2998751 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
2998771 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTTAT
*
2998792 TCGCGTTGCGA-TTACTTATT
1 TCGCATTGCGATTTACTTA-T
2998812 TCGCATTGCGA
1 TCGCATTGCGA
2998823 ATTGGGAAAA
Statistics
Matches: 57, Mismatches: 13, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
19 4 0.07
20 27 0.47
21 26 0.46
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:2998804 original size:41 final size:41
Alignment explanation
Indices: 2998730--2998825 Score: 167
Period size: 41 Copynumber: 2.3 Consensus size: 41
2998720 ATAGTCAGTA
*
2998730 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTA-T
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGA-TTACTTATT
2998771 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTACTTATT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTACTTATT
2998812 TCGCATTGCGAATT
1 TCGCATTGCGAATT
2998826 GGGAAAATCG
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
40 7 0.13
41 46 0.87
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTACTTATT
Found at i:3002518 original size:18 final size:18
Alignment explanation
Indices: 3002486--3002520 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3002476 CTCATAATTC
**
3002486 TAAATTTTAGTTAAATAA
1 TAAATTTTAAATAAATAA
3002504 TAAATTTTAAATAAATA
1 TAAATTTTAAATAAATA
3002521 TTATTGATGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (18 bp):
TAAATTTTAAATAAATAA
Found at i:3006076 original size:119 final size:120
Alignment explanation
Indices: 3005921--3006166 Score: 469
Period size: 119 Copynumber: 2.1 Consensus size: 120
3005911 ACCTAATTTG
*
3005921 ATGAT-AAGACATGTCAATAATTAAGTACATATAAAAATTTCATATGTTAATTGTTAGTCAACAT
1 ATGATCAAGACATGTCAACAATTAAGTACATATAAAAATTTCATATGTTAATTGTTAGTCAACAT
3005985 ACGATTTTCATCTAACACGGGTTATTTTAATCAAAAACTAAAATGCGAAGTTAAA
66 ACGATTTTCATCTAACACGGGTTATTTTAATCAAAAACTAAAATGCGAAGTTAAA
3006040 ATGATCAAGAC-TGTCAACAATTAAGTACATATAAAAATTTCATATGTTAATTGTTAGTCAACAT
1 ATGATCAAGACATGTCAACAATTAAGTACATATAAAAATTTCATATGTTAATTGTTAGTCAACAT
3006104 ACGATTTTCATCTAACACGGGTTATTTTAATCAAAAACTAAAATGCGAAGTTAAA
66 ACGATTTTCATCTAACACGGGTTATTTTAATCAAAAACTAAAATGCGAAGTTAAA
3006159 ATGATCAA
1 ATGATCAA
3006167 AGAGAAAATA
Statistics
Matches: 125, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
119 120 0.96
120 5 0.04
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.33
Consensus pattern (120 bp):
ATGATCAAGACATGTCAACAATTAAGTACATATAAAAATTTCATATGTTAATTGTTAGTCAACAT
ACGATTTTCATCTAACACGGGTTATTTTAATCAAAAACTAAAATGCGAAGTTAAA
Found at i:3009252 original size:18 final size:18
Alignment explanation
Indices: 3009219--3009253 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
3009209 AACGTATTGA
3009219 TTAAATTATAACAATCAT
1 TTAAATTATAACAATCAT
3009237 TTAAGATTATAA-AATCA
1 TTAA-ATTATAACAATCA
3009254 GATTTTATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.51, C:0.09, G:0.03, T:0.37
Consensus pattern (18 bp):
TTAAATTATAACAATCAT
Found at i:3013083 original size:59 final size:59
Alignment explanation
Indices: 3012987--3013117 Score: 167
Period size: 59 Copynumber: 2.2 Consensus size: 59
3012977 TATAATTTGA
* ** *
3012987 ATAAAATTGGAATG-TTCAAAAAGTTTGAGGATCAATTTAGAATGA-AGTTATAGTTTAGG
1 ATAAAATTGAAATGCTT--AAAAGTTTGAGGATCAATTTAGAATGATAGCCATAGTTAAGG
* *
3013046 AATGAAATTGAAATGCTTAAAAGTTTGAGGATTAATTTAGAATGATAGCCATAGTTAAGG
1 -ATAAAATTGAAATGCTTAAAAGTTTGAGGATCAATTTAGAATGATAGCCATAGTTAAGG
3013106 ATAAAATTGAAA
1 ATAAAATTGAAA
3013118 CATTTAAAAG
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
59 37 0.60
60 23 0.37
61 2 0.03
ACGTcount: A:0.44, C:0.04, G:0.21, T:0.32
Consensus pattern (59 bp):
ATAAAATTGAAATGCTTAAAAGTTTGAGGATCAATTTAGAATGATAGCCATAGTTAAGG
Found at i:3013089 original size:29 final size:30
Alignment explanation
Indices: 3013005--3013090 Score: 72
Period size: 29 Copynumber: 2.9 Consensus size: 30
3012995 GGAATGTTCA
*
3013005 AAAAGTTTGAGGATCAATTTAGAATGAAGTT
1 AAAAGTTTGAGGATCAATTTAGAATG-ACTT
* * *
3013036 -ATAGTTT-AGGAATGAAATT-GAAATG-CTT
1 AAAAGTTTGAGG-ATCAATTTAG-AATGACTT
*
3013064 AAAAGTTTGAGGATTAATTTAGAATGA
1 AAAAGTTTGAGGATCAATTTAGAATGA
3013091 TAGCCATAGT
Statistics
Matches: 42, Mismatches: 7, Indels: 13
0.68 0.11 0.21
Matches are distributed among these distances:
28 2 0.05
29 20 0.48
30 20 0.48
ACGTcount: A:0.42, C:0.02, G:0.22, T:0.34
Consensus pattern (30 bp):
AAAAGTTTGAGGATCAATTTAGAATGACTT
Found at i:3013125 original size:59 final size:59
Alignment explanation
Indices: 3013005--3013130 Score: 164
Period size: 59 Copynumber: 2.1 Consensus size: 59
3012995 GGAATGTTCA
** * * **
3013005 AAAAGTTTGAGGATCAATTTAGAATGAAGTTATAGTTTAGGAATGAAATTGAAATGCTT
1 AAAAGTTTGAGGATCAATTTAGAATGAAGCCATAGTTAAGGAATAAAATTGAAACACTT
* *
3013064 AAAAGTTTGAGGATTAATTTAGAATGATAGCCATAGTTAAGG-ATAAAATTGAAACATTT
1 AAAAGTTTGAGGATCAATTTAGAATGA-AGCCATAGTTAAGGAATAAAATTGAAACACTT
3013123 AAAAGTTT
1 AAAAGTTT
3013131 AGGGTCCAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
59 47 0.81
60 11 0.19
ACGTcount: A:0.43, C:0.04, G:0.20, T:0.33
Consensus pattern (59 bp):
AAAAGTTTGAGGATCAATTTAGAATGAAGCCATAGTTAAGGAATAAAATTGAAACACTT
Found at i:3017363 original size:17 final size:18
Alignment explanation
Indices: 3017333--3017366 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3017323 GATATCGATT
*
3017333 TTTTTTCAAGAACTTTGG
1 TTTTTGCAAGAACTTTGG
3017351 TTTTTGCAA-AACTTTG
1 TTTTTGCAAGAACTTTG
3017367 ACCTTAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.24, C:0.12, G:0.15, T:0.50
Consensus pattern (18 bp):
TTTTTGCAAGAACTTTGG
Found at i:3020664 original size:21 final size:21
Alignment explanation
Indices: 3020611--3020670 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
3020601 TTTAGTGCAG
3020611 AGGGAATCGATACCCCCTTGA
1 AGGGAATCGATACCCCCTTGA
* * *
3020632 AGGGGAACCGATTCCCTCCTT-T
1 A-GGGAATCGATACCC-CCTTGA
3020654 AGGGAATCGATACCCCC
1 AGGGAATCGATACCCCC
3020671 ACGGGTTCTT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 2 0.06
21 13 0.41
22 13 0.41
23 4 0.12
ACGTcount: A:0.25, C:0.32, G:0.23, T:0.20
Consensus pattern (21 bp):
AGGGAATCGATACCCCCTTGA
Found at i:3022186 original size:15 final size:16
Alignment explanation
Indices: 3022166--3022199 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
3022156 TTGATGTTCA
3022166 TGGATT-ATTTTACTT
1 TGGATTGATTTTACTT
*
3022181 TGGATTGTTTTTACTT
1 TGGATTGATTTTACTT
3022197 TGG
1 TGG
3022200 TTGTTGGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.15, C:0.06, G:0.21, T:0.59
Consensus pattern (16 bp):
TGGATTGATTTTACTT
Found at i:3022203 original size:15 final size:16
Alignment explanation
Indices: 3022173--3022204 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
3022163 TCATGGATTA
3022173 TTTTACTTTGGATTGT
1 TTTTACTTTGGATTGT
3022189 TTTTACTTTGG-TTGT
1 TTTTACTTTGGATTGT
3022204 T
1 T
3022205 GGATATTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.09, C:0.06, G:0.19, T:0.66
Consensus pattern (16 bp):
TTTTACTTTGGATTGT
Found at i:3022879 original size:22 final size:22
Alignment explanation
Indices: 3022854--3022895 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
3022844 CTAGATTGCT
*
3022854 AAGAGGGAATAGATTCCCCCCC
1 AAGAAGGAATAGATTCCCCCCC
* *
3022876 AAGAAGGTATCGATTCCCCC
1 AAGAAGGAATAGATTCCCCC
3022896 TGAATGGTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.31, C:0.31, G:0.21, T:0.17
Consensus pattern (22 bp):
AAGAAGGAATAGATTCCCCCCC
Found at i:3024336 original size:23 final size:23
Alignment explanation
Indices: 3024275--3024339 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
3024265 AGTCGAGGGT
* * *
3024275 TCTATGCGGTCATTCAGGATAAT
1 TCTATGTGGTCATTCGGGATAAA
* *
3024298 TATATGTGGTCCTTCGGGATAAA
1 TCTATGTGGTCATTCGGGATAAA
3024321 TCTATGTGGTCATTCGGGA
1 TCTATGTGGTCATTCGGGA
3024340 CATTTTTATG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.35
Consensus pattern (23 bp):
TCTATGTGGTCATTCGGGATAAA
Found at i:3025890 original size:15 final size:15
Alignment explanation
Indices: 3025872--3025908 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
3025862 TCAATTATGT
3025872 ATTTAATACATTATA
1 ATTTAATACATTATA
*
3025887 ATTTAATATATTATA
1 ATTTAATACATTATA
*
3025902 AATTAAT
1 ATTTAAT
3025909 TTAATATTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (15 bp):
ATTTAATACATTATA
Found at i:3026426 original size:30 final size:29
Alignment explanation
Indices: 3026381--3026481 Score: 111
Period size: 29 Copynumber: 3.6 Consensus size: 29
3026371 TTTTTATCTG
* *
3026381 AATATTTAAAATATTTTTTTATCAAAATA
1 AATATATAAAGTATTTTTTTATCAAAATA
* *
3026410 AATATATGAAGT-TATTTTTTAGTTAAAATA
1 AATATATAAAGTAT-TTTTTTA-TCAAAATA
*
3026440 AATAT-TTAA-T-TTTTTTTATCAAAATA
1 AATATATAAAGTATTTTTTTATCAAAATA
3026466 AATATATAAAGTATTT
1 AATATATAAAGTATTT
3026482 AATCTTTAGA
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
26 12 0.20
27 10 0.17
28 4 0.07
29 22 0.37
30 12 0.20
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.49
Consensus pattern (29 bp):
AATATATAAAGTATTTTTTTATCAAAATA
Found at i:3026453 original size:26 final size:27
Alignment explanation
Indices: 3026394--3026472 Score: 106
Period size: 26 Copynumber: 2.9 Consensus size: 27
3026384 ATTTAAAATA
3026394 TTTTTTTATCAAAATAAATATATGAAGT
1 TTTTTTTATCAAAATAAATATATGAA-T
* *
3026422 TATTTTTTAGTTAAAATAAATAT-TTAAT
1 T-TTTTTTA-TCAAAATAAATATATGAAT
3026450 TTTTTTTATCAAAATAAATATAT
1 TTTTTTTATCAAAATAAATATAT
3026473 AAAGTATTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
26 12 0.27
27 8 0.18
28 3 0.07
29 10 0.22
30 12 0.27
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.51
Consensus pattern (27 bp):
TTTTTTTATCAAAATAAATATATGAAT
Found at i:3026598 original size:23 final size:23
Alignment explanation
Indices: 3026562--3026620 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
3026552 TTTTTTAAAT
3026562 ATTATA-TTTTAATTAAATTACA
1 ATTATATTTTTAATTAAATTACA
** *
3026584 ATTATATTTTTAATTACTTTATA
1 ATTATATTTTTAATTAAATTACA
*
3026607 ATTATATATTTAAT
1 ATTATATTTTTAAT
3026621 ATTTAATATT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 6 0.19
23 26 0.81
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (23 bp):
ATTATATTTTTAATTAAATTACA
Found at i:3026635 original size:15 final size:16
Alignment explanation
Indices: 3026610--3026639 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
3026600 CTTTATAATT
3026610 ATATATTTAATATTTA
1 ATATATTTAATATTTA
3026626 ATAT-TTTAATATTT
1 ATATATTTAATATTT
3026640 TATAAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
ATATATTTAATATTTA
Found at i:3026944 original size:2 final size:2
Alignment explanation
Indices: 3026937--3026964 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3026927 AGTTAAAAGA
3026937 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
3026965 TGTTTGATGA
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):
AT
Found at i:3027025 original size:17 final size:17
Alignment explanation
Indices: 3027003--3027049 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
3026993 CAATTAACAA
3027003 TATTATTGATATGATTT
1 TATTATTGATATGATTT
3027020 TATTA-T-ATAT-ATTT
1 TATTATTGATATGATTT
* *
3027034 AATTGTTGATATGATT
1 TATTATTGATATGATT
3027050 GTGTCACGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 7 0.28
15 5 0.20
16 5 0.20
17 8 0.32
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (17 bp):
TATTATTGATATGATTT
Found at i:3029267 original size:6 final size:7
Alignment explanation
Indices: 3029250--3029275 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
3029240 AAATTTATAA
3029250 AAAAAAT
1 AAAAAAT
3029257 AAAAAAT
1 AAAAAAT
3029264 AAAAAAT
1 AAAAAAT
3029271 AAAAA
1 AAAAA
3029276 CAGGGATCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:3032016 original size:19 final size:19
Alignment explanation
Indices: 3031985--3032021 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
3031975 TTTATCGAAC
3031985 TTTGAGTCATTTGAAATTT
1 TTTGAGTCATTTGAAATTT
3032004 TTTGAAGTC-TTTGAAATT
1 TTTG-AGTCATTTGAAATT
3032022 CTATATCCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.27, C:0.05, G:0.16, T:0.51
Consensus pattern (19 bp):
TTTGAGTCATTTGAAATTT
Found at i:3032735 original size:25 final size:23
Alignment explanation
Indices: 3032699--3032744 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
3032689 TTACTCTAAT
3032699 ATTTTTAAAAATAATAATATTAA
1 ATTTTTAAAAATAATAATATTAA
*
3032722 ATTTTCTAATAAATAATATTATT
1 ATTTT-TAA-AAATAATAATATT
3032745 TATTGTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 3 0.15
25 12 0.60
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
ATTTTTAAAAATAATAATATTAA
Found at i:3034063 original size:347 final size:347
Alignment explanation
Indices: 3033427--3036896 Score: 6494
Period size: 347 Copynumber: 10.0 Consensus size: 347
3033417 CGCTCCTTGG
3033427 TCCTCTTCTTCATCTCCCTCTTTTCACTCAAATTTGAAGGCACTAAAAGTGAGAGCTTTATTGTC
1 TCCTCTTCTTCATCTCCCTCTTTTCACTCAAATTTGAAGGCACTAAAAGTGAGAGCTTTATTGTC
3033492 CATCGTCCTTAGTCTGAATTTTATAAAGTAAGATCCATGATCTACATCGCTACAACTTTCATTCA
66 CATCGTCCTTAGTCTGAATTTTATAAAGTAAGATCCATGATCTACATCGCTACAACTTTCATTCA
3033557 AGTTCTTATTCTCAAGG-TTGGCTATAGTGGCCATGGTTGAGGGTTTAGAGGAATTTTAAAAACC
131 AGTTCTTATTCTCAAGGTTTGGCTATAGTGGCCATGGTTGAGGGTTTAGAGGAATTTTAAAAACC
3033621 TTGTGTAATCAGCTTATTTTGGATGGGTTTTAGCATGTAAGAAACTTCTCTAACTTCCTTTTTAG
196 TTGTGTAATCAGCTTATTTTGGATGGGTTTTAGCATGTAAGAAACTTCTCTAACTTCCTTTTTAG
3033686 TTATTAGATGAATTAGTAACTCATTCCTTGTTAAGTGATTAGTGAAAGAAATGGGTGAAAACTTC
261 TTATTAGATGAATTAGTAACTCATTCCTTGTTAAGTGATTAGTGAAAGAAATGGGTGAAAACTTC
3033751 AAAGACAAGAATAAGGAGAAGC
326 AAAGACAAGAATAAGGAGAAGC
3033773 TCCTCTTCTTCATCTCCCTCTTTTCACTCAAATTTGAAGGCACTAAAAGTGAGAGCTTTATTGTC
1 TCCTCTTCTTCATCTCCCTCTTTTCACTCAAATTTGAAGGCACTAAAAGTGAGAGCTTTATTGTC
* *
3033838 CATCGTCCTTGGTCTAAATTTTATAAAGTAAGATCCATGATCTACATCGCTACAACTTTCATTCA
66 CATCGTCCTTAGTCTGAATTTTATAAAGTAAGATCCATGATCTACATCGCTACAACTTTCATTCA
3033903 AGTTCTTATTCTCAAGGTTTGGCTATAGTGGCCATGGTTGAGGGTTTAGAGGAATTTTAAAAACC
131 AGTTCTTATTCTCAAGGTTTGGCTATAGTGGCCATGGTTGAGGGTTTAGAGGAATTTTAAAAACC
3033968 TTGTGTAATCAGCTTATTTTGGATGGGTTTTAGCATGTAAGAAACTTCTCTAACTTCCTTTTTAG
196 TTGTGTAATCAGCTTATTTTGGATGGGTTTTAGCATGTAAGAAACTTCTCTAACTTCCTTTTTAG
3034033 TTATTAGATGAATTAGTAACTCATTCCTTGTTAAGTGATTAGTGAAAGAAATGGGTGAAAACTTC
261 TTATTAGATGAATTAGTAACTCATTCCTTGTTAAGTGATTAGTGAAAGAAATGGGTGAAAACTTC
3034098 AAAGACAAGAATAAGGAGAAGC
326 AAAGACAAGAATAAGGAGAAGC
* * *
3034120 TCATCTTCTTCATCGCCCTCTTTTCACTCAAATTTAAAGGCACTAAAAGTGAGAGCTTTATTGTC
1 TCCTCTTCTTCATCTCCCTCTTTTCACTCAAATTTGAAGGCACTAAAAGTGAGAGCTTTATTGTC
*
3034185 CATCGTCCTTAGTCTGAATTTTATAAAGTAAGATCCATGAACTACATCGCTACAACTTTCATTCA
66 CATCGTCCTTAGTCTGAATTTTATAAAGTAAGATCCATGATCTACATCGCTACAACTTTCATTCA
* *
3034250 AGTTCTTATTCACAAGGCTTGGCTATAGTGGCCATGGTTGAGGGTTTAGAGGAATTTTAAAAACC
131 AGTTCTTATTCTCAAGGTTTGGCTATAGTGGCCATGGTTGAGGGTTTAGAGGAATTTTAAAAACC
3034315 TTGTGTAATCAGCTTATTTTGGATGGGTTTTAGCATGTAAGAAACTTCTCTAACTTCCTTTTTAG
196 TTGTGTAATCAGCTTATTTTGGATGGGTTTTAGCATGTAAGAAACTTCTCTAACTTCCTTTTTAG
* *
3034380 TTATTGGATGAATTAGTAACTCATTCCTTGTTAAGTGATTAGTGAAAGAAATGGGTGAAAACTTT
261 TTATTAGATGAATTAGTAACTCATTCCTTGTTAAGTGATTAGTGAAAGAAATGGGTGAAAACTTC
*
3034445 AAAGACAAGAATAATGAGAAGC
326 AAAGACAAGAATAAGGAGAAGC
* *
3034467 TTCTCTTCTTCATCTCCCTCTTTTCACTCAAGTTTGAAGGCACTAAAAGTGAGAGCTTTATTGTC
1 TCCTCTTCTTCATCTCCCTCTTTTCACTCAAATTTGAAGGCACTAAAAGTGAGAGCTTTATTGTC
* * *
3034532 CATCGTCCTTAATATGAATTTTTTAAAGTAAGATCCATGATCTACATCGCTACAACTTTCATTCA
66 CATCGTCCTTAGTCTGAATTTTATAAAGTAAGATCCATGATCTACATCGCTACAACTTTCATTCA
*
3034597 AGTTCTTATTCTCAAGGTTTGGCTATAGTGGCCATGGTTGAGGGTTTAGAAGAATTTTAAAAACC
131 AGTTCTTATTCTCAAGGTTTGGCTATAGTGGCCATGGTTGAGGGTTTAGAGGAATTTTAAAAACC
* *
3034662 ATGTATAATCAGCTTATTTTGGATGGGTTTTAGCATGTAAGAAACTTCTCTAACTTCCTTTTTAG
196 TTGTGTAATCAGCTTATTTTGGATGGGTTTTAGCATGTAAGAAACTTCTCTAACTTCCTTTTTAG
3034727 TTATTAGATGAATTAGTAACTCATTCCTTGTTAAGTGATTAGTGAAAGAAATGGGTGAAAACTTC
261 TTATTAGATGAATTAGTAACTCATTCCTTGTTAAGTGATTAGTGAAAGAAATGGGTGAAAACTTC
*
3034792 AAAGACAAGAACAAGGAGAAGC
326 AAAGACAAGAATAAGGAGAAGC
*
3034814 TCCTCTTCTTCATCTCCCTCTTTTCACTCAAGTTTGAAGGCACTAAAAGTGAGAGCTTTATTGTC
1 TCCTCTTCTTCATCTCCCTCTTTTCACTCAAATTTGAAGGCACTAAAAGTGAGAGCTTTATTGTC
*
3034879 CATCGTCCTTAGTCTGAATTTTATAAAGTAAGATTCATGATCTACATCGCTACAACTTTCATTCA
66 CATCGTCCTTAGTCTGAATTTTATAAAGTAAGATCCATGATCTACATCGCTACAACTTTCATTCA
3034944 AGTTCTTATTCTCAAGGTTTGGCTATAGTGGCCATGGTTGAGGGTTTAGAGGAATTTTAAAAACC
131 AGTTCTTATTCTCAAGGTTTGGCTATAGTGGCCATGGTTGAGGGTTTAGAGGAATTTTAAAAACC
*
3035009 CTGTGTAATCAGCTTATTTTGGATGGGTTTTAGCATGTAAGAAACTTCTCTAACTTCCTTTTTAG
196 TTGTGTAATCAGCTTATTTTGGATGGGTTTTAGCATGTAAGAAACTTCTCTAACTTCCTTTTTAG
*
3035074 TTATTAGATGAATTAGTAACTCATTCCTTGTTAAGTGATTAGTGAAAGAAATGGGTGAAAACTTT
261 TTATTAGATGAATTAGTAACTCATTCCTTGTTAAGTGATTAGTGAAAGAAATGGGTGAAAACTTC
3035139 AAAGACAAGAATAAGGAGAAGC
326 AAAGACAAGAATAAGGAGAAGC
*
3035161 TCCTCTTCTTCATCTCCCTCTTTTCACTCAAGTTTGAAGGCACTAAAAGTGAGAGCTTTATTGTC
1 TCCTCTTCTTCATCTCCCTCTTTTCACTCAAATTTGAAGGCACTAAAAGTGAGAGCTTTATTGTC
* *
3035226 CATCGTCCTTAGTATGAATTTTTTAAAGTAAGATCCATGATCTACATCGCTACAACTTTCATTCA
66 CATCGTCCTTAGTCTGAATTTTATAAAGTAAGATCCATGATCTACATCGCTACAACTTTCATTCA
3035291 AGTTCTTATTCTCAAGGTTTGGCTATAGTGGCCATGGTTGAGGGTTTAGAGGAATTTTAAAAACC
131 AGTTCTTATTCTCAAGGTTTGGCTATAGTGGCCATGGTTGAGGGTTTAGAGGAATTTTAAAAACC
*
3035356 CTGTGTAATCAGCTTATTTTGGATGGGTTTTAGCATGTAAGAAACTTCTCTAACTTCCTTTTTAG
196 TTGTGTAATCAGCTTATTTTGGATGGGTTTTAGCATGTAAGAAACTTCTCTAACTTCCTTTTTAG
*
3035421 TTGTTAGATGAATTAGTAACTCATTCCTTGTTAAGTGATTAGTGAAAGAAATGGGTGAAAACTTC
261 TTATTAGATGAATTAGTAACTCATTCCTTGTTAAGTGATTAGTGAAAGAAATGGGTGAAAACTTC
3035486 AAAGACAAGAATAAGGAGAAGC
326 AAAGACAAGAATAAGGAGAAGC
* *
3035508 TCATCTTCTTCATCTCCCTCTTTTCACTCAAGTTTGAAGGCACTAAAAGTGAGAGCTTTATTGTC
1 TCCTCTTCTTCATCTCCCTCTTTTCACTCAAATTTGAAGGCACTAAAAGTGAGAGCTTTATTGTC
3035573 CATCGTCCTTAGTCTGAATTTTATAAAGTAAGATCCATGATCTACATCGCTACAACTTTCATTCA
66 CATCGTCCTTAGTCTGAATTTTATAAAGTAAGATCCATGATCTACATCGCTACAACTTTCATTCA
3035638 AGTTCTTATTCTCAAGGTTTGGCTATAGTGGCCATGGTTGAGGGTTTAGAGGAATTTTAAAAACC
131 AGTTCTTATTCTCAAGGTTTGGCTATAGTGGCCATGGTTGAGGGTTTAGAGGAATTTTAAAAACC
* *
3035703 CTGTGTAATCAGCTTATTTTGGATGGGTTTTAGCATGTAAGAAACTTCTCTAACTTCCGTTTTAG
196 TTGTGTAATCAGCTTATTTTGGATGGGTTTTAGCATGTAAGAAACTTCTCTAACTTCCTTTTTAG
*
3035768 TTATTAGATGAATTAGTAACTCATTCCTTGTTAAGTGATTAGTGAAAGAAATGGGTGGAAACTTC
261 TTATTAGATGAATTAGTAACTCATTCCTTGTTAAGTGATTAGTGAAAGAAATGGGTGAAAACTTC
3035833 AAAGACAAGAATAAGGAGAAGC
326 AAAGACAAGAATAAGGAGAAGC
*
3035855 TCCTCTTCTTCATCTCCCTCTTTTCACTCAAGTTTGAAGGCACTAAAAGTGAGAGCTTTATTGTC
1 TCCTCTTCTTCATCTCCCTCTTTTCACTCAAATTTGAAGGCACTAAAAGTGAGAGCTTTATTGTC
3035920 CATCGTCCTTAGTCTGAATTTTATAAAGTAAGATCCATGATCTACATCGCTACAACTTTCATTCA
66 CATCGTCCTTAGTCTGAATTTTATAAAGTAAGATCCATGATCTACATCGCTACAACTTTCATTCA
3035985 AGTTCTTATTC-CTAAGGTTTGGCTATAGTGGCCATGGTTGAGGGTTTAGAGGAATTTTAAAAAC
131 AGTTCTTATTCTC-AAGGTTTGGCTATAGTGGCCATGGTTGAGGGTTTAGAGGAATTTTAAAAAC
*
3036049 CCTGTGTAATCAGCTTATTTTGGATGGGTTTTAGCATGTAAGAAACTTCTCTAACTTCCTTTTTA
195 CTTGTGTAATCAGCTTATTTTGGATGGGTTTTAGCATGTAAGAAACTTCTCTAACTTCCTTTTTA
*
3036114 GTTATTAGATGAATTAGTAACTCGTTCCTTGTTAAGTGATTAGTGAAAGAAATGGGTGAAAACTT
260 GTTATTAGATGAATTAGTAACTCATTCCTTGTTAAGTGATTAGTGAAAGAAATGGGTGAAAACTT
3036179 CAAAGACAAGAATAAGGAGAAGC
325 CAAAGACAAGAATAAGGAGAAGC
*
3036202 TCCTCTTCTTCATCTCCCTCTTTTCACTCAAATTTGAAGGCACTAAAAGTGAGAGCTTTATTTTC
1 TCCTCTTCTTCATCTCCCTCTTTTCACTCAAATTTGAAGGCACTAAAAGTGAGAGCTTTATTGTC
*
3036267 CATCGTCCTTAGTTTGAATTTTATAAAGTAAGATCCATGATCTACATCGCTACAACTTTCATTCA
66 CATCGTCCTTAGTCTGAATTTTATAAAGTAAGATCCATGATCTACATCGCTACAACTTTCATTCA
*
3036332 AGTTCTTATTCTCAAGGTTTGGCTATAGTGGCCATGGTTAAGGGTTTAGAGGAATTTTAAAAACC
131 AGTTCTTATTCTCAAGGTTTGGCTATAGTGGCCATGGTTGAGGGTTTAGAGGAATTTTAAAAACC
3036397 TTGTGTAATCAGCTTATTTTGGATGGGTTTTAGCATGTAAGAAACTTCTCTAACTTCCTTTTTAG
196 TTGTGTAATCAGCTTATTTTGGATGGGTTTTAGCATGTAAGAAACTTCTCTAACTTCCTTTTTAG
* * * *
3036462 TTATTGGATGAATTAGTAACTCGTTCCTTGTTAAGTTATTAGTGAAAGAAATGGGTGATAACTTC
261 TTATTAGATGAATTAGTAACTCATTCCTTGTTAAGTGATTAGTGAAAGAAATGGGTGAAAACTTC
3036527 AAAGACAAGAATAAGGAGAAGC
326 AAAGACAAGAATAAGGAGAAGC
* *
3036549 TCCTCTTCTTCATCTCCCTCTTTTCACTCAAATTTGAATGCACTAAGAGTGAGAGCTTTATTGTC
1 TCCTCTTCTTCATCTCCCTCTTTTCACTCAAATTTGAAGGCACTAAAAGTGAGAGCTTTATTGTC
*
3036614 CATCGTCCTTAGGCTGAATTTTATAAAGTAAGATCCATGATCTACATCGCTACAACTTTCATTCA
66 CATCGTCCTTAGTCTGAATTTTATAAAGTAAGATCCATGATCTACATCGCTACAACTTTCATTCA
3036679 AGTTCTTATTCTCAAGGTTTGGCTATAGTGGCCATGGTTGAGGGTTTAGAGGAATTTTAAAAACC
131 AGTTCTTATTCTCAAGGTTTGGCTATAGTGGCCATGGTTGAGGGTTTAGAGGAATTTTAAAAACC
3036744 TTGTGTAATCAGCTTATTTTGGATGGGTTTTAGCATGTAAGAAACTTCTCTAACTTCCTTTTTAG
196 TTGTGTAATCAGCTTATTTTGGATGGGTTTTAGCATGTAAGAAACTTCTCTAACTTCCTTTTTAG
3036809 TTATTAGATGAATTAGTAACTCATTCCTTGTTAAGTGATTAGTGAAAGAAATGGGTGAAAACTTC
261 TTATTAGATGAATTAGTAACTCATTCCTTGTTAAGTGATTAGTGAAAGAAATGGGTGAAAACTTC
3036874 AAAGACAAGAATAAGGAGAAGC
326 AAAGACAAGAATAAGGAGAAGC
3036896 T
1 T
3036897 TATGCTTAGG
Statistics
Matches: 3047, Mismatches: 74, Indels: 5
0.97 0.02 0.00
Matches are distributed among these distances:
346 146 0.05
347 2900 0.95
348 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (347 bp):
TCCTCTTCTTCATCTCCCTCTTTTCACTCAAATTTGAAGGCACTAAAAGTGAGAGCTTTATTGTC
CATCGTCCTTAGTCTGAATTTTATAAAGTAAGATCCATGATCTACATCGCTACAACTTTCATTCA
AGTTCTTATTCTCAAGGTTTGGCTATAGTGGCCATGGTTGAGGGTTTAGAGGAATTTTAAAAACC
TTGTGTAATCAGCTTATTTTGGATGGGTTTTAGCATGTAAGAAACTTCTCTAACTTCCTTTTTAG
TTATTAGATGAATTAGTAACTCATTCCTTGTTAAGTGATTAGTGAAAGAAATGGGTGAAAACTTC
AAAGACAAGAATAAGGAGAAGC
Found at i:3040395 original size:24 final size:24
Alignment explanation
Indices: 3040363--3040411 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
3040353 ATTGTCGGTT
*
3040363 TGTTCTTAAAATATACTGAAACTA
1 TGTTCTTAAAATAGACTGAAACTA
3040387 TGTTCTTAAAATAGACTGAAACTA
1 TGTTCTTAAAATAGACTGAAACTA
3040411 T
1 T
3040412 CTCCTTGGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (24 bp):
TGTTCTTAAAATAGACTGAAACTA
Found at i:3043619 original size:51 final size:50
Alignment explanation
Indices: 3043562--3043664 Score: 161
Period size: 51 Copynumber: 2.0 Consensus size: 50
3043552 TATTGATAGA
3043562 TTTGTTAACATTTTAATAGTTGATAATCCAAAAATAAAATCAACACATAAC
1 TTTGTTAACATTTTAATAGTTGATAA-CCAAAAATAAAATCAACACATAAC
* * * *
3043613 TTTGTTAACATTTTAATAGTTGATAACCCAACATGAAATCAACATATAAC
1 TTTGTTAACATTTTAATAGTTGATAACCAAAAATAAAATCAACACATAAC
3043663 TT
1 TT
3043665 AGATATGATT
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
50 22 0.46
51 26 0.54
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.35
Consensus pattern (50 bp):
TTTGTTAACATTTTAATAGTTGATAACCAAAAATAAAATCAACACATAAC
Found at i:3043676 original size:50 final size:51
Alignment explanation
Indices: 3043567--3043678 Score: 145
Period size: 50 Copynumber: 2.2 Consensus size: 51
3043557 ATAGATTTGT
* *
3043567 TAACATTTTAATAGTTGATAATCCAAAAATAAAATCAACACATAACTTTGT
1 TAACATTTTAATAGTTGATAATCCAAAAATAAAATCAACACATAACTTAGA
* * * *
3043618 TAACATTTTAATAGTTGATAA-CCCAACATGAAATCAACATATAACTTAGA
1 TAACATTTTAATAGTTGATAATCCAAAAATAAAATCAACACATAACTTAGA
**
3043668 TATGATTTTAA
1 TAACATTTTAA
3043679 AAAACAATTA
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
50 32 0.60
51 21 0.40
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.34
Consensus pattern (51 bp):
TAACATTTTAATAGTTGATAATCCAAAAATAAAATCAACACATAACTTAGA
Found at i:3044105 original size:20 final size:20
Alignment explanation
Indices: 3044080--3044128 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
3044070 AATAAATATT
*
3044080 AATATATTAAATATTATTTA
1 AATATATTAAATATTATTAA
*
3044100 AATATA-TACATTATTATTAA
1 AATATATTA-AATATTATTAA
3044120 AATAT-TTAA
1 AATATATTAA
3044129 TAAATTTGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 3 0.12
20 22 0.88
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (20 bp):
AATATATTAAATATTATTAA
Found at i:3044181 original size:141 final size:148
Alignment explanation
Indices: 3044028--3044319 Score: 490
Period size: 151 Copynumber: 2.0 Consensus size: 148
3044018 AAATCATTCA
*
3044028 CTCTAAGTAACATTCAATCTCACCATATAACCTAT-AA-ATT-TAAATA-AATA-T-T-AATATA
1 CTCTAAGCAACATTCAATCTCACCATATAACCTATAAATATTATAAATATAATATTATAAATATA
*
3044086 TTAAATATTATTTAAATATATACATTATTATTAAAATATTTAATAAATTTGTACTACAAACAATT
66 TTAAATATTATTTAAATATATACATAATTATTAAAATATTTAATAAATTTGTACTACAAACAATT
3044151 AGTTATCTAATTAAAAAT
131 AGTTATCTAATTAAAAAT
3044169 CTCTAAGCAACATTCAATCTCACCATATAACCTATAAATATTATAAATATAATATTAATAAAAAT
1 CTCTAAGCAACATTCAATCTCACCATATAACCTATAAATATTATAAATATAATATT-AT--AAAT
3044234 ATATTAAATATTATTTAAATATATACATAATTATTAAAATATTTAATAAATTTGTACTACAAACA
63 ATATTAAATATTATTTAAATATATACATAATTATTAAAATATTTAATAAATTTGTACTACAAACA
3044299 ATTAGTTATCTAATTAAAAAT
128 ATTAGTTATCTAATTAAAAAT
3044320 ACATCAAATG
Statistics
Matches: 139, Mismatches: 2, Indels: 10
0.92 0.01 0.07
Matches are distributed among these distances:
141 34 0.24
142 2 0.01
143 3 0.02
144 6 0.04
145 4 0.03
146 1 0.01
148 1 0.01
151 88 0.63
ACGTcount: A:0.49, C:0.11, G:0.02, T:0.39
Consensus pattern (148 bp):
CTCTAAGCAACATTCAATCTCACCATATAACCTATAAATATTATAAATATAATATTATAAATATA
TTAAATATTATTTAAATATATACATAATTATTAAAATATTTAATAAATTTGTACTACAAACAATT
AGTTATCTAATTAAAAAT
Found at i:3044255 original size:20 final size:21
Alignment explanation
Indices: 3044229--3044279 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
3044219 AATATTAATA
3044229 AAAATATATTAAAT-ATTATT
1 AAAATATATTAAATAATTATT
* *
3044249 TAAATATA-TACATAATTATT
1 AAAATATATTAAATAATTATT
3044269 AAAATAT-TTAA
1 AAAATATATTAA
3044280 TAAATTTGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
AAAATATATTAAATAATTATT
Found at i:3044285 original size:20 final size:20
Alignment explanation
Indices: 3044229--3044285 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
3044219 AATATTAATA
*
3044229 AAAATATATTAA-ATATTATT
1 AAAATAT-TTAATAAATTATT
* *
3044249 TAAATATATACAT-AATTATT
1 AAAATATTTA-ATAAATTATT
3044269 AAAATATTTAATAAATT
1 AAAATATTTAATAAATT
3044286 TGTACTACAA
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
19 4 0.14
20 25 0.86
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
AAAATATTTAATAAATTATT
Found at i:3046330 original size:23 final size:23
Alignment explanation
Indices: 3046287--3046332 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
3046277 TGTAATGAGG
* *
3046287 TCATTAAGTTTTATATAATTTTA
1 TCATTAAATTTTAAATAATTTTA
3046310 TCATTAAATTTTAAA-ATATTTTA
1 TCATTAAATTTTAAATA-ATTTTA
3046333 ATTGTAGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.54
Consensus pattern (23 bp):
TCATTAAATTTTAAATAATTTTA
Found at i:3046662 original size:73 final size:73
Alignment explanation
Indices: 3046543--3046688 Score: 292
Period size: 73 Copynumber: 2.0 Consensus size: 73
3046533 AATGAAAATA
3046543 CATCTTAATATTCGATGTTCTCATACTCCAATCTCATATGACGATGGTATGATGAGATTAGTTTT
1 CATCTTAATATTCGATGTTCTCATACTCCAATCTCATATGACGATGGTATGATGAGATTAGTTTT
3046608 GAGATGTT
66 GAGATGTT
3046616 CATCTTAATATTCGATGTTCTCATACTCCAATCTCATATGACGATGGTATGATGAGATTAGTTTT
1 CATCTTAATATTCGATGTTCTCATACTCCAATCTCATATGACGATGGTATGATGAGATTAGTTTT
3046681 GAGATGTT
66 GAGATGTT
3046689 TTTTTTATTA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (73 bp):
CATCTTAATATTCGATGTTCTCATACTCCAATCTCATATGACGATGGTATGATGAGATTAGTTTT
GAGATGTT
Found at i:3055576 original size:2 final size:2
Alignment explanation
Indices: 3055569--3055603 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
3055559 CATTGTATTA
3055569 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3055604 AAACTCAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3058347 original size:18 final size:18
Alignment explanation
Indices: 3058324--3058374 Score: 93
Period size: 18 Copynumber: 2.8 Consensus size: 18
3058314 TTTTTTCACC
3058324 ACAAATAATTCTAAATAT
1 ACAAATAATTCTAAATAT
3058342 ACAAATAATTCTAAATAT
1 ACAAATAATTCTAAATAT
*
3058360 ACAAATAAATCTAAA
1 ACAAATAATTCTAAA
3058375 AATATACAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (18 bp):
ACAAATAATTCTAAATAT
Found at i:3058673 original size:7 final size:7
Alignment explanation
Indices: 3058650--3058738 Score: 58
Period size: 7 Copynumber: 12.9 Consensus size: 7
3058640 AACTTTATTA
*
3058650 TTAATTT
1 TTAAATT
3058657 TTATAATT
1 TTA-AATT
3058665 TTAAATT
1 TTAAATT
*
3058672 TTAAA-C
1 TTAAATT
3058678 TTAAATT
1 TTAAATT
*
3058685 CTAAATT
1 TTAAATT
* *
3058692 CTAAACT
1 TTAAATT
*
3058699 ATAAATT
1 TTAAATT
3058706 TTAAA-T
1 TTAAATT
* *
3058712 CTGAATT
1 TTAAATT
3058719 TT-AATT
1 TTAAATT
*
3058725 TCTAAATC
1 T-TAAATT
3058733 TTAAAT
1 TTAAAT
3058739 AAAATCCTAA
Statistics
Matches: 65, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
6 14 0.22
7 41 0.63
8 10 0.15
ACGTcount: A:0.42, C:0.08, G:0.01, T:0.49
Consensus pattern (7 bp):
TTAAATT
Found at i:3058689 original size:20 final size:21
Alignment explanation
Indices: 3058661--3058711 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 21
3058651 TAATTTTTAT
*
3058661 AATTTTAAATTTTAAACT-TA
1 AATTTTAAATTCTAAACTATA
*
3058681 AATTCTAAATTCTAAACTATA
1 AATTTTAAATTCTAAACTATA
3058702 AATTTTAAAT
1 AATTTTAAAT
3058712 CTGAATTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (21 bp):
AATTTTAAATTCTAAACTATA
Found at i:3058691 original size:27 final size:28
Alignment explanation
Indices: 3058661--3058738 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 28
3058651 TAATTTTTAT
3058661 AATTTTAAATTTTAAA-CTTAAATTCTA
1 AATTTTAAATTTTAAATCTTAAATTCTA
* * * * *
3058688 AATTCTAAACTATAAATTTTAAA-TCTG
1 AATTTTAAATTTTAAATCTTAAATTCTA
3058715 AATTTT-AATTTCTAAATCTTAAAT
1 AATTTTAAATTT-TAAATCTTAAAT
3058739 AAAATCCTAA
Statistics
Matches: 39, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
26 3 0.08
27 31 0.79
28 5 0.13
ACGTcount: A:0.44, C:0.09, G:0.01, T:0.46
Consensus pattern (28 bp):
AATTTTAAATTTTAAATCTTAAATTCTA
Found at i:3058728 original size:34 final size:34
Alignment explanation
Indices: 3058665--3058738 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
3058655 TTTTATAATT
3058665 TTAAATTTTAAACTTAAATTCTAAATTCTAAA-C
1 TTAAATTTTAAACTTAAATTCTAAATTCTAAATC
* * *
3058698 TATAAATTTTAAA-TCTGAATTTTAATTTCTAAATC
1 T-TAAATTTTAAACT-TAAATTCTAAATTCTAAATC
3058733 TTAAAT
1 TTAAAT
3058739 AAAATCCTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
33 2 0.06
34 31 0.89
35 2 0.06
ACGTcount: A:0.43, C:0.09, G:0.01, T:0.46
Consensus pattern (34 bp):
TTAAATTTTAAACTTAAATTCTAAATTCTAAATC
Found at i:3061982 original size:22 final size:22
Alignment explanation
Indices: 3061921--3061982 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
3061911 ATGGAAAATG
*
3061921 AGGGA-AAGATGAAACAAGAAA
1 AGGGAGAAGAAGAAACAAGAAA
**
3061942 A-GGAGATTAAGGAAA-AAGAAA
1 AGGGAGAAGAA-GAAACAAGAAA
3061963 AGGGAGAAGAAGAAACAAGA
1 AGGGAGAAGAAGAAACAAGA
3061983 CATACCTGAG
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
20 3 0.09
21 14 0.44
22 15 0.47
ACGTcount: A:0.61, C:0.03, G:0.31, T:0.05
Consensus pattern (22 bp):
AGGGAGAAGAAGAAACAAGAAA
Found at i:3062906 original size:23 final size:23
Alignment explanation
Indices: 3062876--3062972 Score: 90
Period size: 23 Copynumber: 4.2 Consensus size: 23
3062866 ATCTTCACAG
3062876 TTATGTATGTATATATGTATAAT
1 TTATGTATGTATATATGTATAAT
*
3062899 TTATGTATGTATA-ATTTATTAAT
1 TTATGTATGTATATATGTA-TAAT
** ** *
3062922 GCATGTATGTATGCATGTATCAT
1 TTATGTATGTATATATGTATAAT
* *
3062945 GTT-TGTATTTATGTATGTATAAT
1 -TTATGTATGTATATATGTATAAT
3062968 TTATG
1 TTATG
3062973 ATTTATTAAT
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
22 6 0.10
23 49 0.83
24 4 0.07
ACGTcount: A:0.30, C:0.03, G:0.15, T:0.52
Consensus pattern (23 bp):
TTATGTATGTATATATGTATAAT
Found at i:3062909 original size:15 final size:15
Alignment explanation
Indices: 3062889--3062917 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
3062879 TGTATGTATA
3062889 TATGTATAATTTATG
1 TATGTATAATTTATG
3062904 TATGTATAATTTAT
1 TATGTATAATTTAT
3062918 TAATGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (15 bp):
TATGTATAATTTATG
Found at i:3063003 original size:23 final size:23
Alignment explanation
Indices: 3062932--3063003 Score: 65
Period size: 23 Copynumber: 3.0 Consensus size: 23
3062922 GCATGTATGT
*
3062932 ATGCATGTATCATGT-TTGTATTT
1 ATGCATGTATCATGTATT-TATTA
* * *
3062955 ATGTATGTATAATTTATGATTTATTA
1 ATGCATGTATCA--TGT-ATTTATTA
3062981 ATGCATGTATCATGTATTTATTA
1 ATGCATGTATCATGTATTTATTA
3063004 GTCCTTAAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
23 18 0.47
24 2 0.05
25 2 0.05
26 14 0.37
27 2 0.05
ACGTcount: A:0.29, C:0.06, G:0.14, T:0.51
Consensus pattern (23 bp):
ATGCATGTATCATGTATTTATTA
Found at i:3063594 original size:291 final size:284
Alignment explanation
Indices: 3063001--3063653 Score: 786
Period size: 289 Copynumber: 2.3 Consensus size: 284
3062991 CATGTATTTA
* * *
3063001 TTAGTCCTTAAAATTATATTTTTA-ATAGAAATTACCTCAAAATTATTTCTATATTTTT-TAATT
1 TTAGTCCTTAAAATTATATTTTTATAT-GAAATTGCCT-ATAATTATTTCTATTTTTTTGTAATT
* **
3063064 TACTCCAAACCATATAGATTACATCATAAACTTTAAACCCTATAAATTATATCATAAATTCATAA
64 TACTCCAAACCATATAAACCACATCATAAACTTTAAACCCTATAAATTATATCATAAATTCATAA
**
3063129 TCTCCAAATCCTATAAACTTTTGTTCACCAACTTTTCAAATGAATTTAATTTAGTCCATTATCAT
129 --TCC--A-CCTATAAACTTTTGTTCACCAACTTTTCAAATGAATACAATTTAGTCCATTATCAT
3063194 ATTAATTTCAACTTTATATTTTACAATTGTTTCAATTTAATCCACGTGTTGTTTAATTTATTTAA
189 ATTAATTTCAACTTTATATTTTACAATTGTTTCAATTTAATCCACGTGTTGTTTAATTTATTTAA
* * *
3063259 ATTTTGGTTTTTAATTTCATGTTTGTTCAAT
254 ATTTTAGCTTGTAATTTCATGTTTGTTCAAT
* * * *
3063290 TTACTCCTTAAAATTGTATTTTTATTTCGAAATTGGCCTATAATCATTTCTATTTTTTTGTAATT
1 TTAGTCCTTAAAATTATATTTTTATAT-GAAATT-GCCTATAATTATTTCTATTTTTTTGTAATT
* *
3063355 TACTCCAAACCATATAAACCACATCATGAACTTCATTTCAAACCCTATAAATTATATCATAATCT
64 TACTCCAAACCATATAAACCACATCAT-AA--AC-TTT-AAACCCTATAAATTATATCATAA-AT
* * *
3063420 TCAT-A-CC-CC-ATAAACTTTTGTTCACCAACCTTTTCAAATGAATACAATTTAGTTCATTTTG
123 TCATAATCCACCTATAAACTTTTGTTCACCAA-CTTTTCAAATGAATACAATTTAGTCCATTATC
** * *
3063481 ATATTAATTTCAGTTTTATATTTTACAATTGTTTCGATTTGATCGATTCAC-T-TTGTTTAATTT
187 ATATTAATTTCAACTTTATATTTTACAATTGTTTCAATTT-A---ATCCACGTGTTGTTTAATTT
3063544 ATTTAAATTTTAGCTTGTAATTTCATGATTT-TTCAAT
248 ATTTAAATTTTAGCTTGTAATTTCATG-TTTGTTCAAT
* * *
3063581 TTAGTCATTAAAATTATA-TTTTATATGAAATTAGCCCATAATTATTTATATTTTTTTGTAATTT
1 TTAGTCCTTAAAATTATATTTTTATATGAAATT-GCCTATAATTATTTCTATTTTTTTGTAATTT
*
3063645 ACTTCAAAC
65 ACTCCAAAC
3063654 TCTATGCAAT
Statistics
Matches: 315, Mismatches: 34, Indels: 30
0.83 0.09 0.08
Matches are distributed among these distances:
288 19 0.06
289 130 0.41
290 32 0.10
291 88 0.28
292 6 0.02
293 7 0.02
294 1 0.00
295 3 0.01
296 24 0.08
297 5 0.02
ACGTcount: A:0.33, C:0.15, G:0.06, T:0.46
Consensus pattern (284 bp):
TTAGTCCTTAAAATTATATTTTTATATGAAATTGCCTATAATTATTTCTATTTTTTTGTAATTTA
CTCCAAACCATATAAACCACATCATAAACTTTAAACCCTATAAATTATATCATAAATTCATAATC
CACCTATAAACTTTTGTTCACCAACTTTTCAAATGAATACAATTTAGTCCATTATCATATTAATT
TCAACTTTATATTTTACAATTGTTTCAATTTAATCCACGTGTTGTTTAATTTATTTAAATTTTAG
CTTGTAATTTCATGTTTGTTCAAT
Done.