Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_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: 7662336
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 16 of 38
Found at i:3475178 original size:9 final size:9
Alignment explanation
Indices: 3475154--3475184 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
3475144 CCACTAACTT
3475154 TTTATTTTA
1 TTTATTTTA
3475163 TTTTATTTTA
1 -TTTATTTTA
3475173 TTTATTTTA
1 TTTATTTTA
3475182 TTT
1 TTT
3475185 TTATATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:3475178 original size:14 final size:15
Alignment explanation
Indices: 3475153--3475185 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
3475143 ACCACTAACT
3475153 TTTTATTTTATTTTA
1 TTTTATTTTATTTTA
3475168 TTTTA-TTTATTTTA
1 TTTTATTTTATTTTA
3475182 TTTT
1 TTTT
3475186 TATATATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTATTTTATTTTA
Found at i:3475186 original size:15 final size:15
Alignment explanation
Indices: 3475152--3475194 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
3475142 AACCACTAAC
3475152 TTTTTATTTTATTTTA
1 TTTTTA-TTTATTTTA
3475168 -TTTTATTTATTTTA
1 TTTTTATTTATTTTA
*
3475182 TTTTTATATATTT
1 TTTTTATTTATTT
3475195 GTTTGCAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 9 0.36
15 16 0.64
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTATTTATTTTA
Found at i:3475193 original size:19 final size:19
Alignment explanation
Indices: 3475154--3475194 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
3475144 CCACTAACTT
*
3475154 TTTATTTTATTTTATTTTA
1 TTTATTTTATTTTATTATA
3475173 TTTATTTTATTTT-TATATA
1 TTTATTTTATTTTAT-TATA
3475192 TTT
1 TTT
3475195 GTTTGCAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTATTTTATTTTATTATA
Found at i:3475246 original size:129 final size:121
Alignment explanation
Indices: 3475082--3475401 Score: 421
Period size: 120 Copynumber: 2.6 Consensus size: 121
3475072 CACTTATTAC
*
3475082 TCGACCTTGTTGTGACCCGATCC-AGGGTAAGATCCACATTATTATGGTTCGGACTCTGCTAACC
1 TCGACCTTGTGGTGACCCGATCCGA-GGTAAGATCCACATTATTATGGTTCGGACTCTGCTAACC
*
3475146 ACTAACTTTTTATTTTATTTTATTTTATTTATTTTATTTTTATATATTTGTTTGCAATATTCAAT
65 ACTAAC-TTTT-TTTTA--TT-TTTTA-TT-TTAT-TTTTTATATATTTGTTTGCAATATTCAAT
* * * * *
3475211 TCGACTTTGTGGTGACCCGATCCGAGGTAAAATCCATATTATTATAGTTCGAACTCTGCTAACCA
1 TCGACCTTGTGGTGACCCGATCCGAGGTAAGATCCACATTATTATGGTTCGGACTCTGCTAACCA
* *
3475276 CTAAC-TTTTTTTATTTTTTATTTTATTTTTTATATATTTGTTTGCATTATTCGAT
66 CTAACTTTTTTTTATTTTTTATTTTATTTTTTATATATTTGTTTGCAATATTCAAT
* * *
3475331 TCGACCTTGTGGTGACCCAATCCGGGGTAAGATCCACATTATTATGGTAT-GGACTCTACTAACC
1 TCGACCTTGTGGTGACCCGATCCGAGGTAAGATCCACATTATTATGGT-TCGGACTCTGCTAACC
3475395 ACTAACT
65 ACTAACT
3475402 GGTAACTTTT
Statistics
Matches: 171, Mismatches: 17, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
120 87 0.51
121 4 0.02
122 2 0.01
123 5 0.03
124 2 0.01
126 5 0.03
127 3 0.02
129 62 0.36
130 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.43
Consensus pattern (121 bp):
TCGACCTTGTGGTGACCCGATCCGAGGTAAGATCCACATTATTATGGTTCGGACTCTGCTAACCA
CTAACTTTTTTTTATTTTTTATTTTATTTTTTATATATTTGTTTGCAATATTCAAT
Found at i:3475301 original size:12 final size:12
Alignment explanation
Indices: 3475284--3475308 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3475274 CACTAACTTT
3475284 TTTTATTTTTTA
1 TTTTATTTTTTA
3475296 TTTTATTTTTTA
1 TTTTATTTTTTA
3475308 T
1 T
3475309 ATATTTGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:3475454 original size:32 final size:32
Alignment explanation
Indices: 3475418--3475512 Score: 84
Period size: 32 Copynumber: 2.9 Consensus size: 32
3475408 TTTTCTAACT
3475418 TACTAACATTCTAACTTTTATTTTATTGTTCA
1 TACTAACATTCTAACTTTTATTTTATTGTTCA
* ** * *
3475450 TACTAACATACTGGCTTTTTTATTTTTATTTTTCT
1 TACTAACATTCTAAC--TTTTA-TTTTATTGTTCA
* *
3475485 TATTAAC-TTACTAACATTTATTTTATTG
1 TACTAACATT-CTAACTTTTATTTTATTG
3475513 CACAAACTAA
Statistics
Matches: 48, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
32 19 0.40
33 4 0.08
34 6 0.12
35 19 0.40
ACGTcount: A:0.26, C:0.14, G:0.04, T:0.56
Consensus pattern (32 bp):
TACTAACATTCTAACTTTTATTTTATTGTTCA
Found at i:3476243 original size:16 final size:16
Alignment explanation
Indices: 3476218--3476275 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 16
3476208 TTCGATTGTC
3476218 TTTTTT-TTTTTACAT
1 TTTTTTATTTTTACAT
*
3476233 TTTTTTATTTTTACCT
1 TTTTTTATTTTTACAT
** *
3476249 CGTTTTATTTTTA-TT
1 TTTTTTATTTTTACAT
3476264 TTATTTTATTTT
1 TT-TTTTATTTT
3476276 CATTTTTATC
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
15 7 0.20
16 28 0.80
ACGTcount: A:0.14, C:0.07, G:0.02, T:0.78
Consensus pattern (16 bp):
TTTTTTATTTTTACAT
Found at i:3476265 original size:11 final size:11
Alignment explanation
Indices: 3476251--3476284 Score: 52
Period size: 10 Copynumber: 3.1 Consensus size: 11
3476241 TTTTACCTCG
3476251 TTTTATTTTTA
1 TTTTATTTTTA
3476262 TTTTA-TTTTA
1 TTTTATTTTTA
3476272 TTTTCATTTTTA
1 TTTT-ATTTTTA
3476284 T
1 T
3476285 CTTTGATATG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 9 0.43
11 6 0.29
12 6 0.29
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:3478824 original size:23 final size:23
Alignment explanation
Indices: 3478754--3478818 Score: 103
Period size: 23 Copynumber: 2.8 Consensus size: 23
3478744 AATAACATAT
*
3478754 TAGGTAGAACTTATATAATGTAA
1 TAGGTAGCACTTATATAATGTAA
*
3478777 TAGATAGCACTTATATAATGTAA
1 TAGGTAGCACTTATATAATGTAA
*
3478800 TAGGTAGCGCTTATATAAT
1 TAGGTAGCACTTATATAAT
3478819 AAAATAAGCA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.35
Consensus pattern (23 bp):
TAGGTAGCACTTATATAATGTAA
Found at i:3479265 original size:198 final size:198
Alignment explanation
Indices: 3478920--3479597 Score: 878
Period size: 198 Copynumber: 3.4 Consensus size: 198
3478910 TTTTCTAACT
* * *
3478920 AAACCGATATATTTATACCGGTAACATTGCAAATTTACGTATTACATTATAATTATTAGTTTCGA
1 AAACCGGTATATTTATACCGGTAACATTGCAAATTTACCTATTACATTATAATTATCAGTTTCGA
* * * *
3478985 TGTTTTTTGGATCGATACAATTTTAAATGTATCGACACTTTATGCTTGCACGTCGTTGGGTATTC
66 TGTTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACATCGTTGGGCATTC
* *
3479050 ATTTTGGAAAAAAGTATCGACACAAATTTAAAAATTGTCGATATATTATGTTGACCTATTCTCTC
131 ATTTTGGAAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTCTCTC
3479115 ATA
196 ATA
* * *
3479118 AAACCGGTATATTTATACCGGTAATATTACAAATTTACCTATTACATTATAATTATCGGTTTCGA
1 AAACCGGTATATTTATACCGGTAACATTGCAAATTTACCTATTACATTATAATTATCAGTTTCGA
* * *
3479183 TGTTTTTGGGATTGATGCAATTTTAAATGTATCGACACTTTATGCGTGCACATCGTTGGCCATTC
66 TGTTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACATCGTTGGGCATTC
*
3479248 ATTTTGGAAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACATATTCTCTC
131 ATTTTGGAAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTCTCTC
3479313 ATA
196 ATA
* * *
3479316 AAA-CGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
1 AAACCGGTATATTTATACCGGTAACATTGCAAATTTACCTATTACATTATAATTATCAGTTTCGA
* * * *
3479380 TGTTTTTGGGATCGATAC-TTTTAATAAATGTAT-TAGCACTTTATGCGTACACCTCGTTTGGGC
66 TGTTTTTGGGATCGATACAATTT--TAAATGTATCGA-CACTTTATGCGTGCACATCG-TTGGGC
* * * * * * * *
3479443 ATTCATTCTAGACAATAAGTATCGACACAAATTCAACAAGTGTTGATACATTCTGTTGACCTGTT
127 ATTCATTTTGGA-AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATT
* **
3479508 GGT-AGATA
191 -CTCTCATA
* * * * *** *
3479516 TATACCGGTATTTTTATACCAGTTACATTTTTAATTTACCTATTACATTATAATTATTAGTTTCG
1 -AAACCGGTATATTTATACCGGTAACATTGCAAATTTACCTATTACATTATAATTATCAGTTTCG
*
3479581 ATGTTTTTGGGGTCGAT
65 ATGTTTTTGGGATCGAT
3479598 GCTTTTAGAA
Statistics
Matches: 425, Mismatches: 47, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
196 3 0.01
197 74 0.17
198 212 0.50
199 15 0.04
200 48 0.11
201 3 0.01
202 70 0.16
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.40
Consensus pattern (198 bp):
AAACCGGTATATTTATACCGGTAACATTGCAAATTTACCTATTACATTATAATTATCAGTTTCGA
TGTTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACATCGTTGGGCATTC
ATTTTGGAAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTCTCTC
ATA
Found at i:3480841 original size:90 final size:90
Alignment explanation
Indices: 3480688--3480863 Score: 280
Period size: 90 Copynumber: 2.0 Consensus size: 90
3480678 TAACACACCT
* * * *
3480688 TTTTATAGCCAAGTTACCCTAGTCATATTAGGGTTTTTATTATTTCAAATTAATTAAATATATAT
1 TTTTATAGCCAAGTTACCCTAATCATATCAAGGATTTTATTATTTCAAATTAATTAAATATATAT
* * *
3480753 TTAATTAATTGGAATTTAATAATCC
66 TTAATGAATTGAAATTAAATAATCC
*
3480778 TTTTATATCCAAGTTACCCTAATCATATCAAGGATTTTATTATTTCAAATTAATTAAATATATAT
1 TTTTATAGCCAAGTTACCCTAATCATATCAAGGATTTTATTATTTCAAATTAATTAAATATATAT
3480843 TTAATGAATTGAAATTAAATA
66 TTAATGAATTGAAATTAAATA
3480864 TTCGAGATTA
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 78 1.00
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (90 bp):
TTTTATAGCCAAGTTACCCTAATCATATCAAGGATTTTATTATTTCAAATTAATTAAATATATAT
TTAATGAATTGAAATTAAATAATCC
Found at i:3487689 original size:90 final size:90
Alignment explanation
Indices: 3487533--3487710 Score: 293
Period size: 90 Copynumber: 2.0 Consensus size: 90
3487523 CCTAACACAC
* * *
3487533 CCTTTTATAGCCAAGTTACCCTAGTCATATTAGGGTTTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
* *
3487598 ATTTAATTAATTGGAATTTAATAAT
66 ATTTAATTAATTGAAATTAAATAAT
* *
3487623 CCTTTTATATCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATTTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
3487688 ATTTAATTAATTGAAATTAAATA
66 ATTTAATTAATTGAAATTAAATA
3487711 TTCGGGATTA
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 81 1.00
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.45
Consensus pattern (90 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
ATTTAATTAATTGAAATTAAATAAT
Found at i:3490739 original size:19 final size:19
Alignment explanation
Indices: 3490715--3490762 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
3490705 TTACATTCAA
3490715 ATACAAAATTATAAATTGT
1 ATACAAAATTATAAATTGT
*
3490734 ATACAAAATTATGAATTGT
1 ATACAAAATTATAAATTGT
3490753 ATACAAAATT
1 ATACAAAATT
3490763 TCCCTTACAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.35
Consensus pattern (19 bp):
ATACAAAATTATAAATTGT
Found at i:3492681 original size:200 final size:197
Alignment explanation
Indices: 3492331--3493082 Score: 933
Period size: 200 Copynumber: 3.8 Consensus size: 197
3492321 AAACACGCGT
* * * *
3492331 TATCGATACAAATTTAAAAAGTGTCGATACATTATGTTGATCTATTTTCTAATTATACAT--GTA
1 TATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAA-TA-AAATCGGTA
*** * * * *
3492394 TGCTTCTACTGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTCTATGG
64 AATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGG
* * *
3492459 GATCGATA-AATATAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCTTTCATTTTGG
129 GATCGATACAAT-T-TTAAATGTATCGACACTTTATGCGTGCACCTCG-TTGGCATTCATTCTGG
3492523 ACAACAAG
191 ACAA-AAG
* * * *
3492531 TATCGACACAAATTTAAAAAGTGTTGATACATTATGTACACATATTTTCTCATAAAATCGGTAAA
1 TATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATAAAATCGGTAAA
* * * *
3492596 TTTCTACCGGTTACATTG-ATAATTTACATATTATATTGTAATTATCGGTTTCGATGTTTTTTTG
66 TTTCTACCGGTTACATTGTA-AATTTACCTATTACATTATAATTATCGGTTTCGATG-TTTTTGG
* ***
3492660 GATCGATACAATTTTAAATGTATCGACACTTTATGCGCGCACCTCGACAAGCATTCATTCTGGAC
129 GATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTCG-TTGGCATTCATTCTGGAC
3492725 AAAAG
193 AAAAG
* * * *
3492730 TTATCGACAAAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAAT-TAACCGGTAT
1 -TATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATAAAATCGGTAA
* *
3492794 ATTTCTACCGGTTACATTGTAAAGTTACCTATTACATTATAATCATCGGTTTCGATGTTTTTGGG
65 ATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGG
* *
3492859 AT-GTATACAATTTTAAATGCATCGATACTTTATGCGTGCACCTCGTTGGCATTCATTCTGGACA
130 ATCG-ATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTCGTTGGCATTCATTCTGGACA
3492923 AAACG
194 AAA-G
* * * *
3492928 TATCGACACAAATTTAAAACGTGTCGATACATTATGTAGACCTATTTTATAAAAAAATCGGTTAA
1 TATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATAAAATCGGTAAA
* * ** *
3492993 TATCTACCGGTTACATTGTAAATTTACCTATTACATTTTAATTATCTATTTCAATGTTTTTGGGA
66 TTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGA
*
3493058 TCGATAC-TTTTAATAAATGTATCGA
131 TCGATACAATTT--TAAATGTATCGA
3493083 TACATTTGTT
Statistics
Matches: 475, Mismatches: 64, Indels: 27
0.84 0.11 0.05
Matches are distributed among these distances:
197 72 0.15
198 121 0.25
199 75 0.16
200 191 0.40
201 13 0.03
202 3 0.01
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.38
Consensus pattern (197 bp):
TATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATAAAATCGGTAAA
TTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGA
TCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTCGTTGGCATTCATTCTGGACAAA
AG
Found at i:3493001 original size:397 final size:399
Alignment explanation
Indices: 3492329--3493082 Score: 1065
Period size: 397 Copynumber: 1.9 Consensus size: 399
3492319 AAAAACACGC
* * * * *
3492329 GTTATCGATACAAATTTAAAAAGTGTCGATACATTATGTTGATCTATTTTCTAATTATACATGTA
1 GTTATCGACAAAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTATACAGGTA
* * * * *
3492394 TGCTTCTACTGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTCTATGG
66 TACTTCTACCGGTTACATTGTAAAGTTACCTATTACATTATAATCATCGGTTTCGATGTCTATGG
* * *
3492459 GATCGATAAATATAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCTTTCATTTTGGA
131 GATCGATAAATATAATAAATGCATCGACACTTTATGCGTGCACCTCGTTTGGCATTCATTCTGGA
* * * *
3492524 CAACAAGTATCGACACAAATTTAAAAAGTGTTGATACATTATGTACACATATTTTCTCATAAAAT
196 CAACAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTACACATATTTTATAAAAAAAT
* * * *
3492589 CGGTAAATTTCTACCGGTTACATTG-ATAATTTACATATTATATTGTAATTATCGGTTTCGATGT
261 CGGTAAATATCTACCGGTTACATTGTA-AATTTACATATTACATTGTAATTATCGATTTCAATG-
*
3492653 TTTTTTGGATCGATACAATTT-TAAATGTATCGACACTTTATGCGCGCACCTCGACAAGCATTCA
324 TTTTTGGGATCGATAC-ATTTATAAATGTATCGACACTTTATGCGCGCACCTCGACAAGCATTCA
3492717 TTCTGGACAAAA
388 TTCTGGACAAAA
*
3492729 GTTATCGACAAAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTA-ACCGGTA
1 GTTATCGACAAAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTATACAGGTA
* * *
3492793 TATTTCTACCGGTTACATTGTAAAGTTACCTATTACATTATAATCATCGGTTTCGATGTTTTTGG
66 TACTTCTACCGGTTACATTGTAAAGTTACCTATTACATTATAATCATCGGTTTCGATGTCTATGG
* *
3492858 GAT-GTATACAAT-T-TTAAATGCATCGATACTTTATGCGTGCACCTCG-TTGGCATTCATTCTG
131 GATCG-ATA-AATATAATAAATGCATCGACACTTTATGCGTGCACCTCGTTTGGCATTCATTCTG
* * *
3492919 GACAA-AACGTATCGACACAAATTTAAAACGTGTCGATACATTATGTAGACCTATTTTATAAAAA
194 GACAACAA-GTATCGACACAAATTTAAAAAGTGTCGATACATTATGTACACATATTTTATAAAAA
* * * *
3492983 AATCGGTTAATATCTACCGGTTACATTGTAAATTTACCTATTACATTTTAATTATCTATTTCAAT
258 AATCGGTAAATATCTACCGGTTACATTGTAAATTTACATATTACATTGTAATTATCGATTTCAAT
*
3493048 GTTTTTGGGATCGATACTTTTAATAAATGTATCGA
323 GTTTTTGGGATCGATACATTT-ATAAATGTATCGA
3493083 TACATTTGTT
Statistics
Matches: 312, Mismatches: 36, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
395 3 0.01
396 17 0.05
397 135 0.43
398 32 0.10
399 69 0.22
400 56 0.18
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.38
Consensus pattern (399 bp):
GTTATCGACAAAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTATACAGGTA
TACTTCTACCGGTTACATTGTAAAGTTACCTATTACATTATAATCATCGGTTTCGATGTCTATGG
GATCGATAAATATAATAAATGCATCGACACTTTATGCGTGCACCTCGTTTGGCATTCATTCTGGA
CAACAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTACACATATTTTATAAAAAAAT
CGGTAAATATCTACCGGTTACATTGTAAATTTACATATTACATTGTAATTATCGATTTCAATGTT
TTTGGGATCGATACATTTATAAATGTATCGACACTTTATGCGCGCACCTCGACAAGCATTCATTC
TGGACAAAA
Found at i:3495685 original size:13 final size:13
Alignment explanation
Indices: 3495667--3495695 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
3495657 ATCAAGTTTG
3495667 AATGTTAACATTT
1 AATGTTAACATTT
3495680 AATGTTAACATTT
1 AATGTTAACATTT
3495693 AAT
1 AAT
3495696 TGTATATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (13 bp):
AATGTTAACATTT
Found at i:3496997 original size:14 final size:14
Alignment explanation
Indices: 3496980--3497015 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
3496970 TGAGTCATTG
* *
3496980 ATATTCATTCATAT
1 ATATTCATTAACAT
3496994 ATATTCATTAACAT
1 ATATTCATTAACAT
3497008 ATATTCAT
1 ATATTCAT
3497016 GTATATCACA
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:0.39, C:0.14, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATTCATTAACAT
Found at i:3499948 original size:331 final size:331
Alignment explanation
Indices: 3499440--3500107 Score: 1264
Period size: 331 Copynumber: 2.0 Consensus size: 331
3499430 ACATATTCTT
3499440 TTTATTTCCCTTATATTTATCCTTGATCATCAATCTTTATAACATTTTCACAACTCTGATAGTCA
1 TTTATTTCCCTTATATTTATCCTTGATCATCAATCTTTATAACATTTTCACAACTCTGATAGTCA
*
3499505 ACACTCTTTGCACAAATCTTATTCTTTGTAAAATCCTTGTTCGAATCACAATACATAACCATTTA
66 ACACTCTTTGCACAAATCTTATTCTTTGTAAAATCCTTGTTCGAATCAAAATACATAACCATTTA
3499570 CAAATTCTACGCCATACCTTGTTAGCTTAACTTGACATCATCTTTAATCCTTTAACTCTAATACA
131 CAAATTCTACGCCATACCTTGTTAGCTTAACTTGACATCATCTTTAATCCTTTAACTCTAATACA
*
3499635 TTCATCATCACTTACCCTTGTCAGTTAGCAACAGTTCTTCTAATCATATACACTCTTATTCATAC
196 TTCATCATCACTTACCCTTGTCAGTCAGCAACAGTTCTTCTAATCATATACACTCTTATTCATAC
3499700 ACGTTATGATTCCCCTGTTTCAAATTCATAATCTCTGGCTTTATACATCTTATACGCTTGTCACT
261 ACGTTATGATTCCCCTGTTTCAAATTCATAATCTCTGGCTTTATACATCTTATACGCTTGTCACT
3499765 AATACA
326 AATACA
* * *
3499771 TTTATTTCCCTTATATTTATCCTTTATCATTAATCTTTATAACATTTTCATAACTCTGATAGTCA
1 TTTATTTCCCTTATATTTATCCTTGATCATCAATCTTTATAACATTTTCACAACTCTGATAGTCA
3499836 ACACTCTTTGCACAAATCTTATTCTTTGTAAAATCCTTGTTCGAATCAAAATACATAACCATTTA
66 ACACTCTTTGCACAAATCTTATTCTTTGTAAAATCCTTGTTCGAATCAAAATACATAACCATTTA
*
3499901 CAAATTCTATGCCATACCTTGTTAGCTTAACTTGACATCATCTTTAATCCTTTAACTCTAATACA
131 CAAATTCTACGCCATACCTTGTTAGCTTAACTTGACATCATCTTTAATCCTTTAACTCTAATACA
*
3499966 TTCATCATCACTTACCCTTGTCAGTCAGTAACAGTTCTTCTAATCATATACACTCTTATTCATAC
196 TTCATCATCACTTACCCTTGTCAGTCAGCAACAGTTCTTCTAATCATATACACTCTTATTCATAC
*
3500031 ACGTTATGATTCCCCTGTTTCAAATTCATAATCTTTGGCTTTATACATCTTATACGCTTGTCACT
261 ACGTTATGATTCCCCTGTTTCAAATTCATAATCTCTGGCTTTATACATCTTATACGCTTGTCACT
3500096 AATACA
326 AATACA
3500102 TTTATT
1 TTTATT
3500108 CTTGAACTCT
Statistics
Matches: 329, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
331 329 1.00
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.41
Consensus pattern (331 bp):
TTTATTTCCCTTATATTTATCCTTGATCATCAATCTTTATAACATTTTCACAACTCTGATAGTCA
ACACTCTTTGCACAAATCTTATTCTTTGTAAAATCCTTGTTCGAATCAAAATACATAACCATTTA
CAAATTCTACGCCATACCTTGTTAGCTTAACTTGACATCATCTTTAATCCTTTAACTCTAATACA
TTCATCATCACTTACCCTTGTCAGTCAGCAACAGTTCTTCTAATCATATACACTCTTATTCATAC
ACGTTATGATTCCCCTGTTTCAAATTCATAATCTCTGGCTTTATACATCTTATACGCTTGTCACT
AATACA
Found at i:3501777 original size:23 final size:23
Alignment explanation
Indices: 3501751--3501795 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
3501741 CACCACAGCT
*
3501751 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
3501774 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
3501796 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:3502044 original size:149 final size:149
Alignment explanation
Indices: 3501774--3502077 Score: 599
Period size: 149 Copynumber: 2.0 Consensus size: 149
3501764 CGAAGTGCCC
*
3501774 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCATAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
3501839 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATA
66 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATA
3501904 CATATGTCCTAAAGAACCG
131 CATATGTCCTAAAGAACCG
3501923 CGTAGAATTGCACCATAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCATAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
3501988 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATA
66 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATA
3502053 CATATGTCCTAAAGAACCG
131 CATATGTCCTAAAGAACCG
3502072 CGTAGA
1 CGTAGA
3502078 CCCTCTACCC
Statistics
Matches: 154, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 154 1.00
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (149 bp):
CGTAGAATTGCACCATAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATA
CATATGTCCTAAAGAACCG
Found at i:3502316 original size:29 final size:29
Alignment explanation
Indices: 3502246--3502317 Score: 108
Period size: 29 Copynumber: 2.5 Consensus size: 29
3502236 TTTTCTGCAT
* *
3502246 ATTCATGTCATGCAATACATATAATATGA
1 ATTCATGTCATGTAATACATATAATATAA
* *
3502275 ATTCATGTCATGTAATACATTTTATATAA
1 ATTCATGTCATGTAATACATATAATATAA
3502304 ATTCATGTCATGTA
1 ATTCATGTCATGTA
3502318 TCATAATATG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (29 bp):
ATTCATGTCATGTAATACATATAATATAA
Found at i:3502623 original size:13 final size:14
Alignment explanation
Indices: 3502587--3502623 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
3502577 TATAGCTTAG
3502587 TCTTTCTT-TCTTT
1 TCTTTCTTCTCTTT
3502600 TCTTTCTTCTCTTT
1 TCTTTCTTCTCTTT
*
3502614 T-TTTTTTCTC
1 TCTTTCTTCTC
3502624 ATGGGGGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (14 bp):
TCTTTCTTCTCTTT
Found at i:3508506 original size:23 final size:23
Alignment explanation
Indices: 3508480--3508524 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
3508470 CACCACAGCT
*
3508480 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
3508503 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
3508525 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:3508773 original size:149 final size:149
Alignment explanation
Indices: 3508503--3508806 Score: 590
Period size: 149 Copynumber: 2.0 Consensus size: 149
3508493 CGAAGTGCCC
3508503 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
3508568 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATA
66 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATA
3508633 CATATGTCCTAAAGAACCG
131 CATATGTCCTAAAGAACCG
3508652 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
*
3508717 CATATACATATATTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATA
66 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATA
*
3508782 CATATGTCCTAAAGAACTG
131 CATATGTCCTAAAGAACCG
3508801 CGTAGA
1 CGTAGA
3508807 CCCTCTACCC
Statistics
Matches: 153, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 153 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATA
CATATGTCCTAAAGAACCG
Found at i:3509045 original size:29 final size:29
Alignment explanation
Indices: 3508975--3509046 Score: 108
Period size: 29 Copynumber: 2.5 Consensus size: 29
3508965 TTTTCTGCAT
* *
3508975 ATTCATGTCATGCAATACATATAATATGA
1 ATTCATGTCATGTAATACATATAATATAA
* *
3509004 ATTCATGTCATGTAATACATTTTATATAA
1 ATTCATGTCATGTAATACATATAATATAA
3509033 ATTCATGTCATGTA
1 ATTCATGTCATGTA
3509047 TCATAATATG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (29 bp):
ATTCATGTCATGTAATACATATAATATAA
Found at i:3512307 original size:13 final size:14
Alignment explanation
Indices: 3512271--3512307 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
3512261 TATAGCTTAG
3512271 TCTTTCTT-TCTTT
1 TCTTTCTTCTCTTT
3512284 TCTTTCTTCTCTTT
1 TCTTTCTTCTCTTT
*
3512298 T-TTTTTTCTC
1 TCTTTCTTCTC
3512308 ATGGGGGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (14 bp):
TCTTTCTTCTCTTT
Found at i:3514120 original size:19 final size:19
Alignment explanation
Indices: 3514096--3514164 Score: 111
Period size: 19 Copynumber: 3.6 Consensus size: 19
3514086 CCATTTGTGT
*
3514096 ATCGATACACTCCCTATGC
1 ATCGATGCACTCCCTATGC
* *
3514115 ATCGATGCTCTCCCTATTC
1 ATCGATGCACTCCCTATGC
3514134 ATCGATGCACTCCCTATGC
1 ATCGATGCACTCCCTATGC
3514153 ATCGATGCACTC
1 ATCGATGCACTC
3514165 ATTGCATTTG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 45 1.00
ACGTcount: A:0.22, C:0.36, G:0.13, T:0.29
Consensus pattern (19 bp):
ATCGATGCACTCCCTATGC
Found at i:3517256 original size:13 final size:14
Alignment explanation
Indices: 3517231--3517263 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
3517221 CATATTCATA
*
3517231 TCACATAGTTC-TT
1 TCACATAGCTCTTT
3517244 TCACATAGCTCTTT
1 TCACATAGCTCTTT
3517258 TCACAT
1 TCACAT
3517264 TATTCATCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.24, C:0.27, G:0.06, T:0.42
Consensus pattern (14 bp):
TCACATAGCTCTTT
Found at i:3517982 original size:19 final size:19
Alignment explanation
Indices: 3517958--3518004 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
3517948 TCGATGTATT
3517958 GATGCACTCCCTATGCATC
1 GATGCACTCCCTATGCATC
3517977 GATGCACTCCCTATGCATC
1 GATGCACTCCCTATGCATC
*
3517996 AATGCACTC
1 GATGCACTC
3518005 ATTGCATTCG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.23, C:0.36, G:0.15, T:0.26
Consensus pattern (19 bp):
GATGCACTCCCTATGCATC
Found at i:3520095 original size:16 final size:17
Alignment explanation
Indices: 3520070--3520103 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
3520060 CTGAGGTGTC
3520070 ACATTGACTTTT-CAAA
1 ACATTGACTTTTACAAA
*
3520086 ACATTTACTTTTACAAA
1 ACATTGACTTTTACAAA
3520103 A
1 A
3520104 TACCCAAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.41, C:0.18, G:0.03, T:0.38
Consensus pattern (17 bp):
ACATTGACTTTTACAAA
Found at i:3520973 original size:18 final size:18
Alignment explanation
Indices: 3520939--3520992 Score: 72
Period size: 18 Copynumber: 3.0 Consensus size: 18
3520929 ATATAACACA
* *
3520939 TATATCCCGAAGAACCAC
1 TATATCCCAAAGGACCAC
*
3520957 TATGTCCCAAAGGACCAC
1 TATATCCCAAAGGACCAC
*
3520975 TATATCCCGAAGGACCAC
1 TATATCCCAAAGGACCAC
3520993 GTAAACCCTC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.35, C:0.33, G:0.15, T:0.17
Consensus pattern (18 bp):
TATATCCCAAAGGACCAC
Found at i:3524832 original size:18 final size:19
Alignment explanation
Indices: 3524805--3524853 Score: 75
Period size: 18 Copynumber: 2.7 Consensus size: 19
3524795 TAACACATAT
*
3524805 GTCCCAAAGGACCACTA-A
1 GTCCCGAAGGACCACTATA
3524823 GTCCCGAAGGACCACTATA
1 GTCCCGAAGGACCACTATA
3524842 -TCCCGAAGGACC
1 GTCCCGAAGGACC
3524854 GCGTAGACCC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 28 0.97
19 1 0.03
ACGTcount: A:0.33, C:0.35, G:0.20, T:0.12
Consensus pattern (19 bp):
GTCCCGAAGGACCACTATA
Found at i:3526404 original size:201 final size:198
Alignment explanation
Indices: 3526059--3527015 Score: 1186
Period size: 201 Copynumber: 4.8 Consensus size: 198
3526049 TAAAAAAATG
* * * * * *
3526059 TCGACACAAATTTATAAAGTGTCGATACATTATGATAACATGTTTTCTAATTAAA-CTGATACAT
1 TCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTGTTTTCTAATTAAACCAG-TATAT
* * * *
3526123 TTATACCGGTTATATTGAAAAATTACATATTATATTATAATTATGGGTTTCTATGTTTTTGGGAT
65 TTATACC-GTTACATTGAAAAATTACCTATTACATTATAATTAT-GGTTTCGATGTTTTTGGGAT
* * * **
3526188 CGATATTTTTTATAAATGTATAGACACTTTATACGTGCACCTCTTTTGGGCATTCATTCTGGACA
128 CGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCTAGTTT-GGCATTCATTCTGGACA
3526253 AAAAGTA
192 AAAAGTA
*
3526260 TCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTGTTTTCTAATTAAACCAGTCTATT
1 TCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTGTTTTCTAATTAAACCAGTATATT
* *
3526325 TATATCGTTTACATTGCAAAATTACCTATTACATTATAATTATAGGTTTCGATGTTTTTGGGATA
66 TATACCG-TTACATTGAAAAATTACCTATTACATTATAATTAT-GGTTTCGATGTTTTTGGGAT-
* *
3526390 C-ATACTTTTTATAAATGTATTGACACTTTATGCGTGCACCTAGTTTGGCATTCATTCTGAACAA
128 CGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGCATTCATTCTGGACAA
*
3526454 AATGTA
193 AAAGTA
* * * * *
3526460 TCGACACCAATTTTAAAAGTGTCGATACATTATGTAT-ACCTATTCTCTAA-TAAAACATGTATA
1 TCGACACAAATTTAAAAAGTGTCGATACATTATGT-TGACCTGTTTTCTAATTAAACCA-GTATA
* * * * * *
3526523 TTTACACCAGTTACATTGCAAATTTACCTATTACATTGTAATTATCGGTTTCAATGTTATTGGGA
64 TTTATACC-GTTACATTGAAAAATTACCTATTACATTATAATTAT-GGTTTCGATGTTTTTGGGA
* * *
3526588 TCGATACTTTTAATAAATGTATCGACATTTTATGCGTGCACCTCGTTT-GCATTCATTCTGGACA
127 TCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGCATTCATTCTGGACA
**
3526652 AAATCTA
192 AAAAGTA
* * ** ** *
3526659 TCGACACAAATTTCAAAAGTGTCGATACATTATTTTGATATGTTTTCTAATTAAACTGGTATATA
1 TCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTGTTTTCTAATTAAACCAGTATATT
* * *
3526724 TATACCAGTTACATTGTAAAATTACCTATTATATTATAATTATGAGTTTCGATATTTTTGGGATC
66 TATACC-GTTACATTGAAAAATTACCTATTACATTATAATTATG-GTTTCGATGTTTTTGGGATC
* * * *
3526789 TATACTTTTTATAAATGTATCTACACTTTATGCGTGCACCTAGTTTGGGCATTCATTATGGAAAA
129 GATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCTAGTTT-GGCATTCATTCTGGACAA
3526854 AAAGTA
193 AAAGTA
* * * * * * * **
3526860 TCGAAACAAATTTCAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACTGGTATATT
1 TCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTGTTTTCTAATTAAACCAGTATATT
*
3526925 TATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATTGGCTTCGATGTTTTTGGGATC
66 TATACC-GTTACATTGAAAAATTACCTATTACATTATAATTA-TGGTTTCGATGTTTTTGGGATC
3526990 GATACTTTTTATAAATGTATCGACAC
129 GATACTTTTTATAAATGTATCGACAC
3527016 ACTTTTTTGG
Statistics
Matches: 658, Mismatches: 85, Indels: 26
0.86 0.11 0.03
Matches are distributed among these distances:
198 2 0.00
199 171 0.26
200 173 0.26
201 307 0.47
202 5 0.01
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (198 bp):
TCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTGTTTTCTAATTAAACCAGTATATT
TATACCGTTACATTGAAAAATTACCTATTACATTATAATTATGGTTTCGATGTTTTTGGGATCGA
TACTTTTTATAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGCATTCATTCTGGACAAAAA
GTA
Found at i:3526796 original size:399 final size:400
Alignment explanation
Indices: 3526050--3527015 Score: 1331
Period size: 399 Copynumber: 2.4 Consensus size: 400
3526040 CGCGTAATTT
* * * * * *
3526050 AAAAAAA-TGTCGACA-CAAATTTATAAAGTGTCGATACATTATG-ATAACATGTTTTCTAATTA
1 AAAAAAAGTATCGACACCAATTTTA-AAAGTGTCGATACATTATGTAT-ACCTATTCTCTAATAA
* * * * * *
3526112 AACTGATACATTTATACCGGTTATATTGAAAAATTACATATTATATTATAATTATGGGTTTCTAT
64 AACTG-TATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATCGGTTTCAAT
* * *
3526177 GTTTTTGGGATCGATATTTTTTATAAATGTATAGACACTTTATACGTGCACCTCTTTTGGGCATT
128 GTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATACGTGCACCTCGTTT-GGCATT
* *
3526242 CATTCTGGACAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTGTTTTC
192 CATTCTGGACAAAAACTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACATGTTTTC
* * *
3526307 TAATTAAACCAGTCTATTTATATCGTTTACATTGCAAAATTACCTATTACATTATAATTATAGGT
257 TAATTAAACCAGTATATATATACCGTTTACATTGCAAAATTACCTATTACATTATAATTATAGGT
*
3526372 TTCGATGTTTTTGGGATACATACTTTTTATAAATGTAT-TGACACTTTATGCGTGCACCTAGTTT
322 TTCGATATTTTTGGGATACATACTTTTTATAAATGTATCT-ACACTTTATGCGTGCACCTAGTTT
*
3526436 -GGCATTCATTCT-G
386 GGGCATTCATTATGG
*
3526449 AACAAAATGTATCGACACCAATTTTAAAAGTGTCGATACATTATGTATACCTATTCTCTAATAAA
1 AA-AAAAAGTATCGACACCAATTTTAAAAGTGTCGATACATTATGTATACCTATTCTCTAATAAA
* * * * *
3526514 ACATGTATATTTACACCAGTTACATTGCAAATTTACCTATTACATTGTAATTATCGGTTTCAATG
65 AC-TGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATCGGTTTCAATG
* * * *
3526579 TTATTGGGATCGATACTTTTAATAAATGTATCGACATTTTATGCGTGCACCTCGTTT-GCATTCA
129 TTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATACGTGCACCTCGTTTGGCATTCA
* * * *
3526643 TTCTGGACAAAATCTATCGACACAAATTTCAAAAGTGTCGATACATTATTTTGATATGTTTTCTA
194 TTCTGGACAAAAACTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACATGTTTTCTA
** * *
3526708 ATTAAACTGGTATATATATACCAG-TTACATTGTAAAATTACCTATTATATTATAATTAT-GAGT
259 ATTAAACCAGTATATATATACC-GTTTACATTGCAAAATTACCTATTACATTATAATTATAG-GT
3526771 TTCGATATTTTTGGGAT-CTATACTTTTTATAAATGTATCTACACTTTATGCGTGCACCTAGTTT
322 TTCGATATTTTTGGGATAC-ATACTTTTTATAAATGTATCTACACTTTATGCGTGCACCTAGTTT
3526835 GGGCATTCATTATGG
386 GGGCATTCATTATGG
* * * * *
3526850 AAAAAAAGTATCGAAACAAATTTCAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAA
1 AAAAAAAGTATCGACACCAATTTTAAAAGTGTCGATACATTATGTATACCTATTCTCTAATAAAA
* * *
3526915 CTGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATTGGCTTCGATGT
66 CT-GTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATCGGTTTCAATGT
3526980 TTTTGGGATCGATACTTTTTATAAATGTATCGACAC
130 TTTTGGGATCGATACTTTTTATAAATGTATCGACAC
3527016 ACTTTTTTGG
Statistics
Matches: 498, Mismatches: 57, Indels: 23
0.86 0.10 0.04
Matches are distributed among these distances:
398 2 0.00
399 180 0.36
400 162 0.33
401 143 0.29
402 11 0.02
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.39
Consensus pattern (400 bp):
AAAAAAAGTATCGACACCAATTTTAAAAGTGTCGATACATTATGTATACCTATTCTCTAATAAAA
CTGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATCGGTTTCAATGTT
TTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATACGTGCACCTCGTTTGGCATTCATT
CTGGACAAAAACTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACATGTTTTCTAAT
TAAACCAGTATATATATACCGTTTACATTGCAAAATTACCTATTACATTATAATTATAGGTTTCG
ATATTTTTGGGATACATACTTTTTATAAATGTATCTACACTTTATGCGTGCACCTAGTTTGGGCA
TTCATTATGG
Found at i:3527381 original size:19 final size:19
Alignment explanation
Indices: 3527357--3527405 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
3527347 TTACATTCAC
3527357 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
3527376 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
3527395 ATACAAAATTA
1 ATACAAAATTA
3527406 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:3529685 original size:22 final size:23
Alignment explanation
Indices: 3529657--3529712 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
3529647 AACATGCATT
*
3529657 TATAATAAAAT-TTATCATTTTA
1 TATAATAAAATACTATCATTTTA
*
3529679 TATAATAACTATACTATCATTTTA
1 TATAATAA-AATACTATCATTTTA
*
3529703 TATAAAAAAA
1 TATAATAAAA
3529713 CAAAAATGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 8 0.29
23 3 0.11
24 17 0.61
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (23 bp):
TATAATAAAATACTATCATTTTA
Found at i:3532316 original size:182 final size:182
Alignment explanation
Indices: 3531703--3532301 Score: 903
Period size: 182 Copynumber: 3.3 Consensus size: 182
3531693 ATAGCGCTTT
* *
3531703 ACCGGTTTTGTCATATTTTTATCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGA
1 ACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGA
* * *
3531768 CACTTTATAGGCGCTATTATTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAATGT
66 CACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATATTTATATTAAAGT
* * * * ** *
3531833 ATCGACACTTTCAACATATCCGATAGCGTTTTACCGATTTTGTTGTTTCGAG
131 ATCGACACTTTCAACATATCAGGTAGCGCTTTACCGGTTTTGTCATTTTGAG
* *
3531885 ACCGATTTTGTCATATTTTTACCTGTTATATTATTATGGATCGATACATTTTTATAAATTATCGA
1 ACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGA
** * * * *
3531950 CACTTTATAGGCATTATTACTGCTTGTCTTTTAAATTTCATAAGTGTCGATATTTATACTAAAGT
66 CACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATATTTATATTAAAGT
*
3532015 ATCGACACTTTCAACATATCCA-GTAGCTCTTTACCGGTTTTGTCATTTTGAG
131 ATCGACACTTTCAACATAT-CAGGTAGCGCTTTACCGGTTTTGTCATTTTGAG
** * *
3532067 ACATATTTTATCATATTTTTACTTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGA
1 ACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGA
*
3532132 CACTTTATAGACGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATATTTATATTAAAGT
66 CACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATATTTATATTAAAGT
* * *
3532197 ATCGACACTTTGAACATGTCAGGTAGCGCTTTACCGGTTTGGTCATTTTGAG
131 ATCGACACTTTCAACATATCAGGTAGCGCTTTACCGGTTTTGTCATTTTGAG
* *
3532249 ACCGGTTTTGTCATATTTTTACCTGTTATATTGCTATGGATCGATACATTTTT
1 ACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
3532302 TATTTGTATC
Statistics
Matches: 371, Mismatches: 44, Indels: 4
0.89 0.11 0.01
Matches are distributed among these distances:
181 2 0.01
182 368 0.99
183 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.44
Consensus pattern (182 bp):
ACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGA
CACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATATTTATATTAAAGT
ATCGACACTTTCAACATATCAGGTAGCGCTTTACCGGTTTTGTCATTTTGAG
Found at i:3535529 original size:3 final size:3
Alignment explanation
Indices: 3535517--3535589 Score: 69
Period size: 3 Copynumber: 24.7 Consensus size: 3
3535507 TAATATATGT
*
3535517 TAA T-A TAA TAA TAA TAA TTAA TAA TAA TAA T-A TAA TAA TAA TTA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
3535561 TTA TTA TAA TAA TTA TTA TTA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
3535590 TGTTTTTGAG
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
2 4 0.06
3 56 0.89
4 3 0.05
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (3 bp):
TAA
Found at i:3535571 original size:15 final size:15
Alignment explanation
Indices: 3535520--3535588 Score: 86
Period size: 15 Copynumber: 4.6 Consensus size: 15
3535510 TATATGTTAA
* *
3535520 TATAATAATAATAAT
1 TATAATAATTATTAT
*
3535535 TAATAATAA-TAATAT
1 T-ATAATAATTATTAT
*
3535550 AATAATAATTATTAT
1 TATAATAATTATTAT
3535565 TATAATAATTATTAT
1 TATAATAATTATTAT
3535580 TATAATAAT
1 TATAATAAT
3535589 ATGTTTTTGA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
14 7 0.15
15 32 0.70
16 7 0.15
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATAATAATTATTAT
Found at i:3536075 original size:42 final size:40
Alignment explanation
Indices: 3536007--3536117 Score: 118
Period size: 42 Copynumber: 2.7 Consensus size: 40
3535997 ATCTTTAAGA
* *
3536007 AGGGCGATAACACGGTTCCTACGTGATGAGGACGACTGGTTATC
1 AGGG-GATGACACGGCTCCTACGTGATGAGGACGACTGG---TC
* *
3536051 TA-GGG-TGACACGGCTCCTACGTGATGAGGAGGTCTGGTC
1 -AGGGGATGACACGGCTCCTACGTGATGAGGACGACTGGTC
*
3536090 AGGGGATGACACGGCTCATACGTGATGA
1 AGGGGATGACACGGCTCCTACGTGATGA
3536118 AGAGTTCTGG
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
38 1 0.02
39 5 0.08
40 21 0.36
42 28 0.47
43 1 0.02
44 2 0.03
45 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.35, T:0.22
Consensus pattern (40 bp):
AGGGGATGACACGGCTCCTACGTGATGAGGACGACTGGTC
Found at i:3536119 original size:133 final size:134
Alignment explanation
Indices: 3535748--3536272 Score: 660
Period size: 134 Copynumber: 3.9 Consensus size: 134
3535738 TGGGGGACGC
* * * * * ** * *
3535748 CACGGCTCATACGTGATGAAGAGGTCTGGTCGTCTAAGGGTGACACAACTCCTACGTGATGAGGA
1 CACGGTTCCTACGTGATGAGGATGACTGGTTATCTATGGGTGACACGACTCCTACGTGATGAGGA
* * * * *
3535813 GATCTGGT-TGAGGGATGACACTGCTCATACGTGATGAAGAGTTCTTGGCCATCTTTAGGAATGA
66 GGTCTGGTCAG-GGGATGACACGGCTCATACGTGATGAAGAGTTC-TGGCCATCTTTAGGAAGGG
*
3535877 TGATAA
129 CGATAA
** * * *
3535883 CTTGGTTCCTACGCGATGAGGATGACTGGTTATCTATGGGTGACACGACTCCTACGTAATGAGAA
1 CACGGTTCCTACGTGATGAGGATGACTGGTTATCTATGGGTGACACGACTCCTACGTGATGAGGA
* * * * *
3535948 GGTCTGGTC-GGGGAATGGCACGGCTCATATGCGATGAAGAGTTCTTGCCATCTTTAAGAAGGGC
66 GGTCTGGTCAGGGG-ATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTTTAGGAAGGGC
3536012 GATAA
130 GATAA
* *
3536017 CACGGTTCCTACGTGATGAGGACGACTGGTTATCTA-GGGTGACACGGCTCCTACGTGATGAGGA
1 CACGGTTCCTACGTGATGAGGATGACTGGTTATCTATGGGTGACACGACTCCTACGTGATGAGGA
3536081 GGTCTGGTCAGGGGATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTTTAGGAAGGGCG
66 GGTCTGGTCAGGGGATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTTTAGGAAGGGCG
3536146 ATAA
131 ATAA
* * *** ** *
3536150 CACGGTTCCTACGTGATGAGGATGGCTGGTTATCTATGGTTGATGTGGTTCCTACGCGATGAGGA
1 CACGGTTCCTACGTGATGAGGATGACTGGTTATCTATGGGTGACACGACTCCTACGTGATGAGGA
* * *
3536215 GTTCTGGTCAGGAGATGACACGACTCATACGTGATGAAGAGTTCTGGCCATCTTTAGG
66 GGTCTGGTCAGGGGATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTTTAGG
3536273 GATACTGGTT
Statistics
Matches: 339, Mismatches: 47, Indels: 9
0.86 0.12 0.02
Matches are distributed among these distances:
133 118 0.35
134 136 0.40
135 85 0.25
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.26
Consensus pattern (134 bp):
CACGGTTCCTACGTGATGAGGATGACTGGTTATCTATGGGTGACACGACTCCTACGTGATGAGGA
GGTCTGGTCAGGGGATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTTTAGGAAGGGCG
ATAA
Found at i:3536267 original size:267 final size:269
Alignment explanation
Indices: 3535748--3536270 Score: 685
Period size: 267 Copynumber: 2.0 Consensus size: 269
3535738 TGGGGGACGC
* * *
3535748 CACGGCTCATACGTGATGAAGAGGTCTGGTCGTCTAAGGGTGACACAACTCCTACGTGATGAGGA
1 CACGGCTCATACGTGATGAAGACGACTGGTCATCTAAGGGTGACACAACTCCTACGTGATGAGGA
* * * *
3535813 GATCTGGTTGAGGGATGACACTGCTCATACGTGATGAAGAGTTCTTGGCCATCTTTAGGAATGAT
66 GATCTGGTAGAGGGATGACACGGCTCATACGTGATGAAGAGTTCTTGGCCATCTTTAGGAAGGAC
** *
3535878 GATAACTTGGTTCCTACGCGATGAGGATGACTGGTTATCTATGGGTGACACGACTCCTACGTAAT
131 GATAACACGGTTCCTACGCGATGAGGATGACTGGTTATCTATGGGTGACACGACTCCTACGCAAT
* * * * *
3535943 GAGAAGGTCTGGTCGGGGAATGGCACGGCTCATATGCGATGAAGAGTTCTTGCCATCTTTAAGAA
196 GAGAAGGTCTGGTCGGAGAATGACACGACTCATACGCGATGAAGAGTTCTGGCCATCTTTAAGAA
3536008 GGGCGATAA
261 GGGCGATAA
* * * * **
3536017 CACGGTTCCTACGTGATGAGGACGACTGGTTATCT-AGGGTGACACGGCTCCTACGTGATGAGGA
1 CACGGCTCATACGTGATGAAGACGACTGGTCATCTAAGGGTGACACAACTCCTACGTGATGAGGA
* *
3536081 GGTCTGGTCAG-GGGATGACACGGCTCATACGTGATGAAGAGTTC-TGGCCATCTTTAGGAAGGG
66 GATCTGGT-AGAGGGATGACACGGCTCATACGTGATGAAGAGTTCTTGGCCATCTTTAGGAAGGA
* * * *** ** *
3536144 CGATAACACGGTTCCTACGTGATGAGGATGGCTGGTTATCTATGGTTGATGTGGTTCCTACGCGA
130 CGATAACACGGTTCCTACGCGATGAGGATGACTGGTTATCTATGGGTGACACGACTCCTACGCAA
* * *
3536209 TGAGGAGTTCTGGTCAGGAG-ATGACACGACTCATACGTGATGAAGAGTTCTGGCCATCTTTA
195 TGAGAAGGTCTGGTC-GGAGAATGACACGACTCATACGCGATGAAGAGTTCTGGCCATCTTTA
3536271 GGGATACTGG
Statistics
Matches: 217, Mismatches: 35, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
267 119 0.55
268 69 0.32
269 29 0.13
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (269 bp):
CACGGCTCATACGTGATGAAGACGACTGGTCATCTAAGGGTGACACAACTCCTACGTGATGAGGA
GATCTGGTAGAGGGATGACACGGCTCATACGTGATGAAGAGTTCTTGGCCATCTTTAGGAAGGAC
GATAACACGGTTCCTACGCGATGAGGATGACTGGTTATCTATGGGTGACACGACTCCTACGCAAT
GAGAAGGTCTGGTCGGAGAATGACACGACTCATACGCGATGAAGAGTTCTGGCCATCTTTAAGAA
GGGCGATAA
Found at i:3536992 original size:106 final size:104
Alignment explanation
Indices: 3536785--3537193 Score: 464
Period size: 106 Copynumber: 3.8 Consensus size: 104
3536775 TTTGAAAATA
* * * ** ** **
3536785 TCAAGTGATATTAATTTTGTTTCAAGT-ACAACAACTTTGAAATTTGTAT-TCTGAGGGAAAATG
1 TCAAGTGAGATTAATTTTGTTTCAAGTGA-AGCAAATTCAAAATTTGT-TCTCAAAGAAAAAATG
* * *
3536848 TCTCAAGTGAGACGAAATTTGTTTTGAAATAAACAACAATC
64 TCTCAAGCGAGACGAAATTTGTTTTAAAAGAAACAACAATC
3536889 TCAAGTGAGATTAATTTTGTTTCAAGTGAAGCAAATTCAAAATTTGTTTCTCAAAGAAAAAAATG
1 TCAAGTGAGATTAATTTTGTTTCAAGTGAAGCAAATTCAAAATTTG-TTCTCAAAG-AAAAAATG
*
3536954 TCCCAAGCGAGACGAAATTTGTTTTAAAAGAAACAACAATC
64 TCTCAAGCGAGACGAAATTTGTTTTAAAAGAAACAACAATC
* * *
3536995 TCAAATGAGATTAATTTTATTTCAAGTGAAGCAAATTCAAAATTTG-TATCAAAGGAAAAAATGT
1 TCAAGTGAGATTAATTTTGTTTCAAGTGAAGCAAATTCAAAATTTGTTCTCAAA-GAAAAAATGT
* * *** * *
3537059 CTCAAGCGAGATGAAGTTTGTTTTTTTTTTTTGAGATATAACAATC
65 CTCAAGCGAGACGAAATTTG------TTTTAAAAGAAACAACAATC
* *
3537105 TCAAGTGAGATTAATTTTGTTTCAAGTGAAACAAATTCAAAATTTGTATCTCAAAGGAAAAATGT
1 TCAAGTGAGATTAATTTTGTTTCAAGTGAAGCAAATTCAAAATTTGT-TCTCAAAGAAAAAATGT
3537170 CTCAAGCGAGACGAAATTTGTTTT
65 CTCAAGCGAGACGAAATTTGTTTT
3537194 GAAATAAATT
Statistics
Matches: 261, Mismatches: 31, Indels: 25
0.82 0.10 0.08
Matches are distributed among these distances:
104 72 0.28
105 11 0.04
106 87 0.33
110 58 0.22
111 27 0.10
112 6 0.02
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (104 bp):
TCAAGTGAGATTAATTTTGTTTCAAGTGAAGCAAATTCAAAATTTGTTCTCAAAGAAAAAATGTC
TCAAGCGAGACGAAATTTGTTTTAAAAGAAACAACAATC
Found at i:3537132 original size:110 final size:110
Alignment explanation
Indices: 3536988--3537193 Score: 342
Period size: 110 Copynumber: 1.9 Consensus size: 110
3536978 TAAAAGAAAC
*
3536988 AACAATCTCAAATGAGATTAATTTTATTTCAAGTGAAGCAAATTCAAAATTTGTA-TCAAAGGAA
1 AACAATCTCAAATGAGATTAATTTTATTTCAAGTGAAACAAATTCAAAATTTGTACTCAAAGG-A
* *
3537052 AAAATGTCTCAAGCGAGATGAAGTTTGTTTTTTTTTTTTGAGATAT
65 AAAATGTCTCAAGCGAGACGAAATTTGTTTTTTTTTTTTGAGATAT
* *
3537098 AACAATCTCAAGTGAGATTAATTTTGTTTCAAGTGAAACAAATTCAAAATTTGTATCTCAAAGGA
1 AACAATCTCAAATGAGATTAATTTTATTTCAAGTGAAACAAATTCAAAATTTGTA-CTCAAAGGA
3537163 AAAATGTCTCAAGCGAGACGAAATTTGTTTT
65 AAAATGTCTCAAGCGAGACGAAATTTGTTTT
3537194 GAAATAAATT
Statistics
Matches: 89, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
110 52 0.58
111 30 0.34
112 7 0.08
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (110 bp):
AACAATCTCAAATGAGATTAATTTTATTTCAAGTGAAACAAATTCAAAATTTGTACTCAAAGGAA
AAATGTCTCAAGCGAGACGAAATTTGTTTTTTTTTTTTGAGATAT
Found at i:3537251 original size:34 final size:34
Alignment explanation
Indices: 3537167--3537268 Score: 107
Period size: 36 Copynumber: 3.0 Consensus size: 34
3537157 AAAGGAAAAA
* ** * *
3537167 TGTCTCAAGCGAGACGAAATTTGTTTTGAAATAAAT
1 TGTCTCAAGCGAGACAAAATTTGTTTT-TCA-AGAC
* *
3537203 TGTCTTAAGTGAGACAAAATTTGTTTTTCAAGAC
1 TGTCTCAAGCGAGACAAAATTTGTTTTTCAAGAC
*
3537237 TGTCTCAAGCGAGACAAAATTT-TGTTTCAAGA
1 TGTCTCAAGCGAGACAAAATTTGTTTTTCAAGA
3537269 AAACAACATC
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
33 9 0.16
34 22 0.39
35 1 0.02
36 24 0.43
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (34 bp):
TGTCTCAAGCGAGACAAAATTTGTTTTTCAAGAC
Found at i:3544548 original size:18 final size:18
Alignment explanation
Indices: 3544527--3544623 Score: 69
Period size: 18 Copynumber: 5.3 Consensus size: 18
3544517 CAAAATAGTG
*
3544527 TAATATATGTTAATATAA
1 TAATATATATTAATATAA
3544545 TAATA-ATAATTAATAATAA
1 TAATATAT-ATTAAT-ATAA
*
3544564 TAATTAATAATAATAATATAA
1 TAA-T-AT-ATATTAATATAA
*
3544585 TAAT-TATTATTATTATAA
1 TAATATA-TATTAATATAA
*
3544603 T-A-AT-TATTATTATAA
1 TAATATATATTAATATAA
3544618 TAATAT
1 TAATAT
3544624 GTTTTCGAGA
Statistics
Matches: 65, Mismatches: 4, Indels: 21
0.72 0.04 0.23
Matches are distributed among these distances:
15 12 0.18
16 1 0.02
17 7 0.11
18 21 0.32
19 7 0.11
20 2 0.03
21 8 0.12
22 5 0.08
23 2 0.03
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (18 bp):
TAATATATATTAATATAA
Found at i:3544549 original size:3 final size:3
Alignment explanation
Indices: 3544537--3544622 Score: 77
Period size: 3 Copynumber: 28.7 Consensus size: 3
3544527 TAATATATGT
3544537 TAA T-A TAA TAA TAA TAA TTAA TAA TAA TAA TTAA TAA TAA TAA T-A
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA -TAA TAA TAA TAA TAA
* * * * * * *
3544582 TAA TAA TTA TTA TTA TTA TAA TAA TTA TTA TTA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
3544623 TGTTTTCGAG
Statistics
Matches: 75, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
2 4 0.05
3 65 0.87
4 6 0.08
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (3 bp):
TAA
Found at i:3544560 original size:13 final size:13
Alignment explanation
Indices: 3544537--3544608 Score: 92
Period size: 13 Copynumber: 5.5 Consensus size: 13
3544527 TAATATATGT
3544537 TAATATAATAATAA
1 TAAT-TAATAATAA
3544551 TAATTAATAATAA
1 TAATTAATAATAA
3544564 TAATTAATAATAA
1 TAATTAATAATAA
*
3544577 TAATATAATAATTA
1 TAAT-TAATAATAA
* *
3544591 TTATT-ATTATAA
1 TAATTAATAATAA
3544603 TAATTA
1 TAATTA
3544609 TTATTATAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
12 9 0.18
13 27 0.53
14 15 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
TAATTAATAATAA
Found at i:3548642 original size:2 final size:2
Alignment explanation
Indices: 3548635--3548667 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3548625 TAATATGGAA
3548635 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 A
3548668 AATAAAAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3553124 original size:20 final size:20
Alignment explanation
Indices: 3553101--3553150 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
3553091 GCTAGTTCAG
*
3553101 GTTGACTTAGTTTGGTCCAA
1 GTTGACTCAGTTTGGTCCAA
*
3553121 GTTGACTCAGTTTGGTTCAA
1 GTTGACTCAGTTTGGTCCAA
3553141 GTTGACTCAG
1 GTTGACTCAG
3553151 ACCGATTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.20, C:0.16, G:0.26, T:0.38
Consensus pattern (20 bp):
GTTGACTCAGTTTGGTCCAA
Found at i:3555268 original size:32 final size:32
Alignment explanation
Indices: 3555232--3555304 Score: 146
Period size: 32 Copynumber: 2.3 Consensus size: 32
3555222 TTTTGACAAT
3555232 CGAACCCGACCTGCATCCGACTGATATGAACC
1 CGAACCCGACCTGCATCCGACTGATATGAACC
3555264 CGAACCCGACCTGCATCCGACTGATATGAACC
1 CGAACCCGACCTGCATCCGACTGATATGAACC
3555296 CGAACCCGA
1 CGAACCCGA
3555305 GATTAACCTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.29, C:0.38, G:0.19, T:0.14
Consensus pattern (32 bp):
CGAACCCGACCTGCATCCGACTGATATGAACC
Found at i:3555490 original size:27 final size:26
Alignment explanation
Indices: 3555452--3555502 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
3555442 AAGTTACAAT
*
3555452 TAATATAATTATGATATTTTAAATTTA
1 TAATATAATTATGATA-ATTAAATTTA
3555479 TAATA-AACTTATGATAATTAAATT
1 TAATATAA-TTATGATAATTAAATT
3555503 AATATGATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (26 bp):
TAATATAATTATGATAATTAAATTTA
Found at i:3555548 original size:18 final size:18
Alignment explanation
Indices: 3555521--3555603 Score: 71
Period size: 18 Copynumber: 4.6 Consensus size: 18
3555511 TACTTTTTGA
3555521 AATT-TAATTTTTATATT
1 AATTATAATTTTTATATT
*
3555538 AATTATAATTTGTATATTAT
1 AATTATAATTTTTATA-T-T
* **
3555558 AATTTTGGTTTTTATATT
1 AATTATAATTTTTATATT
**
3555576 -ATTACGATTCTTTATATT
1 AATTATAATT-TTTATATT
3555594 AATTATAATT
1 AATTATAATT
3555604 CACATATTAT
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
17 10 0.20
18 19 0.37
19 9 0.18
20 13 0.25
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (18 bp):
AATTATAATTTTTATATT
Found at i:3556248 original size:23 final size:23
Alignment explanation
Indices: 3556213--3556268 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
3556203 AACCAACAAA
* *
3556213 CATCACTGTATCAATTTAGAAAG
1 CATCACTGCATCAATTCAGAAAG
* *
3556236 CATCATTGCATCAATTCAGCAAG
1 CATCACTGCATCAATTCAGAAAG
3556259 CATC-CTGCAT
1 CATCACTGCAT
3556269 TCAGAAATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 5 0.18
23 23 0.82
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.29
Consensus pattern (23 bp):
CATCACTGCATCAATTCAGAAAG
Found at i:3556380 original size:20 final size:21
Alignment explanation
Indices: 3556355--3556432 Score: 92
Period size: 20 Copynumber: 3.9 Consensus size: 21
3556345 AACCCTTACA
*
3556355 AATATCAAGA-AGAATCAAGC
1 AATATCAAGACAGAATCAAAC
* *
3556375 AATATCAA-ACATAAACAAAC
1 AATATCAAGACAGAATCAAAC
*
3556395 AATAT-AAAACAGAATCAAAC
1 AATATCAAGACAGAATCAAAC
3556415 AATATCAAG-CAGAATCAA
1 AATATCAAGACAGAATCAA
3556433 GCACCAACTA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
19 3 0.06
20 44 0.90
21 2 0.04
ACGTcount: A:0.60, C:0.17, G:0.08, T:0.15
Consensus pattern (21 bp):
AATATCAAGACAGAATCAAAC
Found at i:3556381 original size:10 final size:10
Alignment explanation
Indices: 3556368--3556422 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
3556358 ATCAAGAAGA
*
3556368 ATCAAGCAAT
1 ATCAAACAAT
3556378 ATCAAAC-AT
1 ATCAAACAAT
*
3556387 AAACAAACAAT
1 -ATCAAACAAT
*
3556398 ATAAAACAGA-
1 ATCAAACA-AT
3556408 ATCAAACAAT
1 ATCAAACAAT
3556418 ATCAA
1 ATCAA
3556423 GCAGAATCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
9 3 0.08
10 30 0.83
11 3 0.08
ACGTcount: A:0.62, C:0.18, G:0.04, T:0.16
Consensus pattern (10 bp):
ATCAAACAAT
Found at i:3558836 original size:24 final size:24
Alignment explanation
Indices: 3558778--3558851 Score: 85
Period size: 24 Copynumber: 3.0 Consensus size: 24
3558768 CTTCTTTTAG
**
3558778 AATATCAGTAACCATACTTAAATCATA
1 AATATCAGTAACCATACACAAA--A-A
*
3558805 AATATCAGTAACTATACACAAAAA
1 AATATCAGTAACCATACACAAAAA
*
3558829 AATATCAGTAACCATACTCAAAA
1 AATATCAGTAACCATACACAAAA
3558852 TCTCAAATCA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
24 22 0.52
25 1 0.02
27 19 0.45
ACGTcount: A:0.53, C:0.19, G:0.04, T:0.24
Consensus pattern (24 bp):
AATATCAGTAACCATACACAAAAA
Found at i:3558895 original size:59 final size:59
Alignment explanation
Indices: 3558797--3558961 Score: 213
Period size: 59 Copynumber: 2.9 Consensus size: 59
3558787 AACCATACTT
* *
3558797 AAATCATAAATATCAGTAACTATACACA-AAAAAATATCAGTAACCATACTCAAAATCTC
1 AAATCATAAATATCAGTAACAATACACACACAAAATATCAGTAACCATACTCAAAA-CTC
*
3558856 AAATCATAAATATCAGTAACCATACACACACAAAA-ATCAGTAACC--A-T----ACTC
1 AAATCATAAATATCAGTAACAATACACACACAAAATATCAGTAACCATACTCAAAACTC
* *
3558907 AAATCATAAACATCAATAACAATACACACACAAAATATCAGTAACCATACTCAAA
1 AAATCATAAATATCAGTAACAATACACACACAAAATATCAGTAACCATACTCAAA
3558962 CCATAAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 18
0.80 0.04 0.16
Matches are distributed among these distances:
51 35 0.38
52 11 0.12
54 1 0.01
55 1 0.01
56 1 0.01
57 1 0.01
59 37 0.40
60 5 0.05
ACGTcount: A:0.53, C:0.23, G:0.03, T:0.21
Consensus pattern (59 bp):
AAATCATAAATATCAGTAACAATACACACACAAAATATCAGTAACCATACTCAAAACTC
Found at i:3558897 original size:24 final size:25
Alignment explanation
Indices: 3558867--3558956 Score: 110
Period size: 24 Copynumber: 3.6 Consensus size: 25
3558857 AATCATAAAT
3558867 ATCAGTAACCATACACACACAAAA-
1 ATCAGTAACCATACACACACAAAAC
* *
3558891 ATCAGTAACCATACTCAAATCATAAAC
1 ATCAGTAACCATACACACA-CA-AAAC
* * *
3558918 ATCAATAACAATACACACACAAAAT
1 ATCAGTAACCATACACACACAAAAC
3558943 ATCAGTAACCATAC
1 ATCAGTAACCATAC
3558957 TCAAACCATA
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
24 17 0.31
25 17 0.31
26 5 0.09
27 15 0.28
ACGTcount: A:0.52, C:0.27, G:0.03, T:0.18
Consensus pattern (25 bp):
ATCAGTAACCATACACACACAAAAC
Found at i:3558932 original size:51 final size:52
Alignment explanation
Indices: 3558853--3558968 Score: 189
Period size: 51 Copynumber: 2.2 Consensus size: 52
3558843 TACTCAAAAT
* * *
3558853 CTCAAATCATAAATATCAGTAACCATACACACACAAAA-ATCAGTAACCATA
1 CTCAAATCATAAACATCAATAACAATACACACACAAAATATCAGTAACCATA
3558904 CTCAAATCATAAACATCAATAACAATACACACACAAAATATCAGTAACCATA
1 CTCAAATCATAAACATCAATAACAATACACACACAAAATATCAGTAACCATA
*
3558956 CTCAAACCATAAA
1 CTCAAATCATAAA
3558969 TATAAGAAAC
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
51 35 0.58
52 25 0.42
ACGTcount: A:0.53, C:0.26, G:0.03, T:0.19
Consensus pattern (52 bp):
CTCAAATCATAAACATCAATAACAATACACACACAAAATATCAGTAACCATA
Found at i:3558984 original size:52 final size:51
Alignment explanation
Indices: 3558853--3558984 Score: 194
Period size: 52 Copynumber: 2.6 Consensus size: 51
3558843 TACTCAAAAT
*
3558853 CTCAAATCATAAATATCAGTAACCATACACACACAAAAATCAGTAACCATA
1 CTCAAATCATAAATATAAGTAACCATACACACACAAAAATCAGTAACCATA
* *
3558904 CTCAAATCATAAACATCAA-TAACAATACACACACAAAATATCAGTAACCATA
1 CTCAAATCATAAATAT-AAGTAACCATACACACACAAAA-ATCAGTAACCATA
* *
3558956 CTCAAACCATAAATATAAGAAACCATACA
1 CTCAAATCATAAATATAAGTAACCATACA
3558985 AAAAATAGTA
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
51 35 0.49
52 36 0.51
ACGTcount: A:0.53, C:0.25, G:0.03, T:0.19
Consensus pattern (51 bp):
CTCAAATCATAAATATAAGTAACCATACACACACAAAAATCAGTAACCATA
Found at i:3560301 original size:12 final size:12
Alignment explanation
Indices: 3560284--3560342 Score: 54
Period size: 12 Copynumber: 5.1 Consensus size: 12
3560274 TCCCTATGTT
*
3560284 TTTAATATTTTA
1 TTTAATACTTTA
3560296 TTTAATACTTTA
1 TTTAATACTTTA
3560308 --TACATA-TTTA
1 TTTA-ATACTTTA
*
3560318 TAT-ATACTTGTA
1 TTTAATACTT-TA
3560330 TTTAATACTTTA
1 TTTAATACTTTA
3560342 T
1 T
3560343 ACATATTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
10 9 0.23
11 5 0.13
12 19 0.49
13 6 0.15
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.58
Consensus pattern (12 bp):
TTTAATACTTTA
Found at i:3560343 original size:24 final size:24
Alignment explanation
Indices: 3560311--3560369 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
3560301 TACTTTATAC
*
3560311 ATATTTATATATACTTGTATTTA-
1 ATATTTATATATACTTATATTTAT
* * *
3560334 ATACTTTATACATATTTATTTTTAT
1 ATA-TTTATATATACTTATATTTAT
3560359 ATATTTATATA
1 ATATTTATATA
3560370 GTTTATGTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
23 3 0.10
24 23 0.79
25 3 0.10
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.58
Consensus pattern (24 bp):
ATATTTATATATACTTATATTTAT
Found at i:3560367 original size:8 final size:8
Alignment explanation
Indices: 3560345--3560626 Score: 75
Period size: 7 Copynumber: 36.5 Consensus size: 8
3560335 TACTTTATAC
3560345 ATATTTAT
1 ATATTTAT
3560353 -T-TTTAT
1 ATATTTAT
3560359 ATATTTAT
1 ATATTTAT
*
3560367 ATAGTT-T
1 ATATTTAT
*
3560374 ATGTTTA-
1 ATATTTAT
*
3560381 ATAATTA-
1 ATATTTAT
*
3560388 ATACTT-T
1 ATATTTAT
*
3560395 ATATTAAT
1 ATATTTAT
*
3560403 ATA-CT-T
1 ATATTTAT
*
3560409 ATACTTAT
1 ATATTTAT
3560417 ATAGTTATAT
1 ATA-TT-TAT
*
3560427 ATACTT-T
1 ATATTTAT
*
3560434 ATACTT-T
1 ATATTTAT
3560441 ATATTTA-
1 ATATTTAT
*
3560448 ATACTTAT
1 ATATTTAT
3560456 ATACTTATAT
1 ATA-TT-TAT
3560466 ATATTT-T
1 ATATTTAT
3560473 ATACTTTAT
1 ATA-TTTAT
*
3560482 -TAATTAT
1 ATATTTAT
* *
3560489 -TAATGAT
1 ATATTTAT
3560496 -TACTTATAT
1 ATA-TT-TAT
*
3560505 ATATATAT
1 ATATTTAT
*
3560513 ATACTT-T
1 ATATTTAT
3560520 ATA-TTAT
1 ATATTTAT
*
3560527 ATACTTAT
1 ATATTTAT
*
3560535 ATACTTAT
1 ATATTTAT
*
3560543 A-GTTTAT
1 ATATTTAT
* *
3560550 ACACTTAT
1 ATATTTAT
*
3560558 ACA-TTAT
1 ATATTTAT
*
3560565 AGTTTTTAT
1 A-TATTTAT
**
3560574 ATATAAACTT
1 ATATTTA--T
*
3560584 ATACTTAT
1 ATATTTAT
3560592 ATAGTTTAT
1 ATA-TTTAT
3560601 ATATTTAT
1 ATATTTAT
*
3560609 ACA-TTAT
1 ATATTTAT
*
3560616 A-GTTTAT
1 ATATTTAT
3560623 ATAT
1 ATAT
3560627 ATATGCATAC
Statistics
Matches: 207, Mismatches: 39, Indels: 56
0.69 0.13 0.19
Matches are distributed among these distances:
6 11 0.05
7 85 0.41
8 71 0.34
9 21 0.10
10 19 0.09
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (8 bp):
ATATTTAT
Found at i:3560435 original size:39 final size:37
Alignment explanation
Indices: 3560388--3560535 Score: 127
Period size: 39 Copynumber: 3.6 Consensus size: 37
3560378 TTAATAATTA
3560388 ATACTTTATATTAATATACTTATACTTATATAGTTATAT
1 ATACTTTATATT-ATATACTTATACTTATATA-TTATAT
*
3560427 ATACTTTATACTT-TATATTTAATACTTATATACTTATAT
1 ATACTTTATA-TTATATACTT-ATACTTATATA-TTATAT
* *
3560466 ATATTTTATACTTTATTAATTATTAATGATTACTTATATATATATAT
1 ATACTTTATA--TTA-T-A-TACT--T-A-TACTTATATAT-TATAT
3560513 ATACTTTATATTATATACTTATA
1 ATACTTTATATTATATACTTATA
3560536 TACTTATAGT
Statistics
Matches: 91, Mismatches: 7, Indels: 23
0.75 0.06 0.19
Matches are distributed among these distances:
38 8 0.09
39 37 0.41
40 5 0.05
42 4 0.04
43 2 0.02
44 5 0.05
45 3 0.03
46 3 0.03
47 24 0.26
ACGTcount: A:0.38, C:0.07, G:0.01, T:0.53
Consensus pattern (37 bp):
ATACTTTATATTATATACTTATACTTATATATTATAT
Found at i:3560484 original size:96 final size:93
Alignment explanation
Indices: 3560384--3561113 Score: 257
Period size: 88 Copynumber: 8.0 Consensus size: 93
3560374 ATGTTTAATA
3560384 ATTAATACTTTATATTAATATACTTATACTTATATAGTTATATATACTTTATACTTTATA-TTTA
1 ATTAATACTTTATATT-ATATACTTATA-TTATATAGTT-T-TATACTTTATACTTTATACTTTA
3560448 ATACTTATATACTTATATATATTTTATACTTT
62 ATACTTATATACTTATATATATTTTATACTTT
* *
3560480 ATTAAT--TATTA-ATGAT-TACTTATA-TATATA--TATATACTTTATA-TTATATAC-TTATA
1 ATTAATACT-TTATATTATATACTTATATTATATAGTTTTATACTTTATACTT-TATACTTTA-A
* * * *
3560536 TAC-T-TATAGTT-TATACA-CTTATACATT
63 TACTTATATACTTATATATATTTTATACTTT
* * * * *
3560563 A-TAGT-TTTTATA-TATAAACTTATACTTATATAGTTTATATA-TTTATACATTATAGTTTATA
1 ATTAATACTTTATATTATATACTTATA-TTATATAGTTT-TATACTTTATACTTTATACTTTA-A
*
3560624 TA-TATATGCATACTT-T-TATACTTTCATACTTCT
63 TACT-TAT--ATACTTATATATA-TTTTATACTT-T
* * * * *
3560657 ATTCTATAATTTTATACTT-TAATACTTTAATACTTATACA-CTTTAGTAC-TTATA-TTACATA
1 ATT-AAT-ACTTTATA-TTAT-ATAC-TT-ATA-TTATATAGTTTTA-TACTTTATACTT-TATA
* * * *
3560718 GTTTTATACTT-TATAC-TATATA-CTTTAATAC-TT
57 CTTTAATACTTATATACTTATATATATTTTATACTTT
* * * * * * *
3560751 A-T-ACACTTTAATACTTATAT-TTTATAGTTTTATACTTTAATATTTTAATACTTATACACTTT
1 ATTAATACTTT-ATA-TTATATACTTATA-TTATATAGTTTTATACTTT-ATACTT-TATACTTT
*
3560813 AATAC-T-TATA-TTATATA-GTTTTATACTTT
61 AATACTTATATACTTATATATATTTTATACTTT
* * *
3560842 A-TACTA-TATACT-TTA-ATACTTATATTCTATAGTTTTATACTTTAATAC-TTATACATTTTA
1 ATTAATACTTTA-TATTATATACTTATATTATATAGTTTTATACTTT-ATACTTTATAC--TTTA
*
3560902 ATAC-T-TATA-TTATATA-GTTTTATACTTT
62 ATACTTATATACTTATATATATTTTATACTTT
* * *
3560930 A-TACTA-TATACT-TTA-ATACTTATATTCTATAGTTTTATACTTTAATACTTTTATACTTTTT
1 ATTAATACTTTA-TATTATATACTTATATTATATAGTTTTATACTTT-ATAC-TTTATAC--TTT
3560991 CAAT--TTA-ATACATATATTATATAGTTTTATACTTT
61 -AATACTTATATAC-T-TA-TATATA-TTTTATACTTT
** * * * *
3561026 A-TCGTA-TATACT-TTA-ATACTTGTATTATATAGTTTTATACTTTATAGTATATACTTTAATA
1 ATTAATACTTTA-TATTATATACTTATATTATATAGTTTTATACTTTATACTTTATACTTTAATA
*
3561087 C-T-TATA-TTATATA-GTTTTATACTTT
65 CTTATATACTTATATATATTTTATACTTT
3561112 AT
1 AT
3561114 AGTATCTATT
Statistics
Matches: 509, Mismatches: 60, Indels: 139
0.72 0.08 0.20
Matches are distributed among these distances:
82 8 0.02
83 18 0.04
84 5 0.01
85 14 0.03
86 35 0.07
87 16 0.03
88 129 0.25
89 18 0.04
90 48 0.09
91 37 0.07
92 24 0.05
93 11 0.02
94 17 0.03
95 8 0.02
96 65 0.13
97 5 0.01
98 9 0.02
99 2 0.00
100 11 0.02
101 19 0.04
102 10 0.02
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (93 bp):
ATTAATACTTTATATTATATACTTATATTATATAGTTTTATACTTTATACTTTATACTTTAATAC
TTATATACTTATATATATTTTATACTTT
Found at i:3560488 original size:25 final size:25
Alignment explanation
Indices: 3560440--3560537 Score: 75
Period size: 25 Copynumber: 4.1 Consensus size: 25
3560430 CTTTATACTT
*
3560440 TATATTTAATACTTATATACTTATA
1 TATATTTAATACTTATATAATTATA
*
3560465 TATATTTTATACTT-TATTAATTAT-
1 TATATTTAATACTTATA-TAATTATA
* *
3560489 TA-A-TGATTACTTATAT-ATATATA
1 TATATTTAATACTTATATAAT-TATA
*
3560512 TATACTTT-ATA-TTATATACTTATA
1 TATA-TTTAATACTTATATAATTATA
3560536 TA
1 TA
3560538 CTTATAGTTT
Statistics
Matches: 57, Mismatches: 8, Indels: 17
0.70 0.10 0.21
Matches are distributed among these distances:
21 2 0.04
22 10 0.18
23 5 0.09
24 17 0.30
25 22 0.39
26 1 0.02
ACGTcount: A:0.39, C:0.06, G:0.01, T:0.54
Consensus pattern (25 bp):
TATATTTAATACTTATATAATTATA
Found at i:3560731 original size:22 final size:22
Alignment explanation
Indices: 3560670--3560978 Score: 111
Period size: 22 Copynumber: 13.9 Consensus size: 22
3560660 CTATAATTTT
* *
3560670 ATACTTTAATACTTTAATACT-T
1 ATACTTTTATACTTT-ATACTAC
* *
3560692 ATACACTTTAGTAC-TTATATTAC
1 ATAC-TTTTA-TACTTTATACTAC
* *
3560715 ATAGTTTTATACTTTATACTAT
1 ATACTTTTATACTTTATACTAC
* *
3560737 ATACTTTAATACTTATACACTTTA-
1 ATACTTTTATACTT-TATAC--TAC
* * **
3560761 ATAC--TTATATTTTATAGTTTT
1 ATACTTTTATACTTTATA-CTAC
* * *
3560782 ATACTTTAATATTTTAATACTTAT
1 ATACTTTTATACTTT-ATAC-TAC
* * * *
3560806 ACACTTTAATAC-TTATATTAT
1 ATACTTTTATACTTTATACTAC
* *
3560827 ATAGTTTTATACTTTATACTAT
1 ATACTTTTATACTTTATACTAC
* *
3560849 ATACTTTAATAC-TTATA-TTC
1 ATACTTTTATACTTTATACTAC
* *
3560869 TATAGTTTTATACTTTAATACT-T
1 -ATACTTTTATACTTT-ATACTAC
* *
3560892 ATACATTTTAATAC-TTATATTAT
1 ATAC-TTTT-ATACTTTATACTAC
* *
3560915 ATAGTTTTATACTTTATACTAT
1 ATACTTTTATACTTTATACTAC
* *
3560937 ATACTTTAATAC-TTATA-TTC
1 ATACTTTTATACTTTATACTAC
*
3560957 TATAGTTTTATACTTTAATACT
1 -ATACTTTTATACTTT-ATACT
3560979 TTTATACTTT
Statistics
Matches: 218, Mismatches: 43, Indels: 50
0.70 0.14 0.16
Matches are distributed among these distances:
20 3 0.01
21 56 0.26
22 91 0.42
23 38 0.17
24 28 0.13
25 2 0.01
ACGTcount: A:0.34, C:0.11, G:0.02, T:0.52
Consensus pattern (22 bp):
ATACTTTTATACTTTATACTAC
Found at i:3560765 original size:112 final size:112
Alignment explanation
Indices: 3560633--3561092 Score: 388
Period size: 112 Copynumber: 4.1 Consensus size: 112
3560623 ATATATATGC
* * * *
3560633 ATACTTTTATACTTTCATACTTCTATTCTATAATTTTATACTTTAATACTTTAATACTTATACAC
1 ATACTTATACACTTTAATACTTATATTCTATAATTTTATACTTTAATACTTTAATACTTATACAC
*
3560698 TTTAGTACTTATATTACATAGTTTTATACTTTATACTATATACTTTA
66 TTTAATACTTATATTACATAGTTTTATACTTTATACTATATACTTTA
* * *
3560745 ATACTTATACACTTTAATACTTATATTTTATAGTTTTATACTTTAATATTTTAATACTTATACAC
1 ATACTTATACACTTTAATACTTATATTCTATAATTTTATACTTTAATACTTTAATACTTATACAC
*
3560810 TTTAATACTTATATTATATAGTTTTATACTTTATACTATATACTTTA
66 TTTAATACTTATATTACATAGTTTTATACTTTATACTATATACTTTA
* * * * *
3560857 ATACTTAT--A-TTCT-ATAGTTTTATACTTTAATACTTATACATTTTAATAC-TT-ATA-TTAT
1 ATACTTATACACTT-TAATACTTATATTCTATAAT-TTTATAC--TTTAATACTTTAATACTTAT
* * * * * * * *
3560915 ATAGTTTTATACTTTATACTATATACTTTAATACTTATATTCTATAGTTTTATACTTTA
62 ACACTTTAATAC-TTATATTACATAGTTTTATACTT-TATAC--TA----TATACTTTA
** * * * * *
3560974 ATACTTTTATACTTTTTCAAT--TTA-ATAC-ATATATTATATAGTTTTATACTTT-AT-CGTAT
1 ATAC--TTATACACTTT-AATACTTATATTCTATA-ATTTTATACTTTAATACTTTAATACTTAT
* * * *
3561033 ATACTTTAATACTTGTATTATATAGTTTTATACTTTATAGTATATACTTTA
62 ACACTTTAATACTTATATTACATAGTTTTATACTTTATACTATATACTTTA
3561084 ATACTTATA
1 ATACTTATA
3561093 TTATATAGTT
Statistics
Matches: 286, Mismatches: 40, Indels: 48
0.76 0.11 0.13
Matches are distributed among these distances:
108 5 0.02
109 27 0.09
110 44 0.15
111 6 0.02
112 118 0.41
113 2 0.01
114 2 0.01
116 3 0.01
117 39 0.14
118 17 0.06
119 10 0.03
120 6 0.02
121 3 0.01
122 2 0.01
123 2 0.01
ACGTcount: A:0.33, C:0.11, G:0.03, T:0.53
Consensus pattern (112 bp):
ATACTTATACACTTTAATACTTATATTCTATAATTTTATACTTTAATACTTTAATACTTATACAC
TTTAATACTTATATTACATAGTTTTATACTTTATACTATATACTTTA
Found at i:3560855 original size:43 final size:43
Alignment explanation
Indices: 3560798--3561189 Score: 439
Period size: 43 Copynumber: 8.7 Consensus size: 43
3560788 TAATATTTTA
*
3560798 ATACTTATACACTTTAATACTTATATTATATAGTTTTATACTTT
1 ATAC-TATATACTTTAATACTTATATTATATAGTTTTATACTTT
*
3560842 ATACTATATACTTTAATACTTATATTCTATAGTTTTATACTTT
1 ATACTATATACTTTAATACTTATATTATATAGTTTTATACTTT
3560885 AATACT-TATACATTTTAATACTTATATTATATAGTTTTATACTTT
1 -ATACTATATAC--TTTAATACTTATATTATATAGTTTTATACTTT
*
3560930 ATACTATATACTTTAATACTTATATTCTATAGTTTTATACTTT
1 ATACTATATACTTTAATACTTATATTATATAGTTTTATACTTT
* *
3560973 AATACTTTTATACTTTTTCAATTTAATACATATATTATATAGTTTTATACTTT
1 -ATAC---TATA-----T-ACTTTAATACTTATATTATATAGTTTTATACTTT
*
3561026 AT-CGTATATACTTTAATACTTGTATTATATAGTTTTATACTTT
1 ATAC-TATATACTTTAATACTTATATTATATAGTTTTATACTTT
*
3561069 ATAGTATATACTTTAATACTTATATTATATAGTTTTATACTTT
1 ATACTATATACTTTAATACTTATATTATATAGTTTTATACTTT
* * * * * *
3561112 ATAGTATCTATTTTAATACTTATATACTTATATACTTTAATATTTT
1 ATACTATATACTTTAATAC-T-TATA-TTATATAGTTTTATACTTT
* * *
3561158 ATATTATATTCTTTATAGAC-TATATATATATA
1 ATACTATATACTTTA-ATACTTATAT-TATATA
3561190 AACTATATAT
Statistics
Matches: 305, Mismatches: 23, Indels: 40
0.83 0.06 0.11
Matches are distributed among these distances:
43 162 0.53
44 30 0.10
45 40 0.13
46 27 0.09
47 7 0.02
49 4 0.01
51 1 0.00
52 3 0.01
53 31 0.10
ACGTcount: A:0.34, C:0.09, G:0.03, T:0.53
Consensus pattern (43 bp):
ATACTATATACTTTAATACTTATATTATATAGTTTTATACTTT
Found at i:3560892 original size:88 final size:88
Alignment explanation
Indices: 3560794--3561136 Score: 494
Period size: 88 Copynumber: 3.8 Consensus size: 88
3560784 ACTTTAATAT
3560794 TTTAATACTTATACACTTTAATACTTATATTATATAGTTTTATACTTTATACTATATACTTTAAT
1 TTTAATACTTATACACTTTAATACTTATATTATATAGTTTTATACTTTATACTATATACTTTAAT
3560859 ACTTATATTCTATAGTTTTATAC
66 ACTTATATTCTATAGTTTTATAC
*
3560882 TTTAATACTTATACATTTTAATACTTATATTATATAGTTTTATACTTTATACTATATACTTTAAT
1 TTTAATACTTATACACTTTAATACTTATATTATATAGTTTTATACTTTATACTATATACTTTAAT
3560947 ACTTATATTCTATAGTTTTATAC
66 ACTTATATTCTATAGTTTTATAC
* *
3560970 TTTAATACTTTTATACTTTTTCAATTTAATACATATATTATATAGTTTTATACTTTAT-CGTATA
1 TTTAATAC--TTATA------CACTTTAATACTTATATTATATAGTTTTATACTTTATAC-TATA
* *
3561034 TACTTTAATACTTGTATTATATAGTTTTATAC
57 TACTTTAATACTTATATTCTATAGTTTTATAC
* * * * *
3561066 TTT-ATA-GTATATACTTTAATACTTATATTATATAGTTTTATACTTTATAGTATCTATTTTAAT
1 TTTAATACTTATACACTTTAATACTTATATTATATAGTTTTATACTTTATACTATATACTTTAAT
3561129 ACTTATAT
66 ACTTATAT
3561137 ACTTATATAC
Statistics
Matches: 232, Mismatches: 13, Indels: 22
0.87 0.05 0.08
Matches are distributed among these distances:
86 52 0.22
88 95 0.41
90 5 0.02
92 4 0.02
95 4 0.02
96 72 0.31
ACGTcount: A:0.34, C:0.10, G:0.03, T:0.54
Consensus pattern (88 bp):
TTTAATACTTATACACTTTAATACTTATATTATATAGTTTTATACTTTATACTATATACTTTAAT
ACTTATATTCTATAGTTTTATAC
Found at i:3560990 original size:9 final size:8
Alignment explanation
Indices: 3560633--3561160 Score: 149
Period size: 8 Copynumber: 70.4 Consensus size: 8
3560623 ATATATATGC
3560633 ATACTTTT
1 ATACTTTT
*
3560641 ATACTTTC
1 ATACTTTT
3560649 ATAC--TT
1 ATACTTTT
* *
3560655 CTA-TTCT
1 ATACTTTT
*
3560662 ATAATTTT
1 ATACTTTT
*
3560670 ATACTTTA
1 ATACTTTT
*
3560678 ATACTTTA
1 ATACTTTT
*
3560686 ATACTTAT
1 ATACTTTT
*
3560694 ACAC-TTT
1 ATACTTTT
3560701 AGTAC--TT
1 A-TACTTTT
**
3560708 ATA-TTAC
1 ATACTTTT
*
3560715 ATAGTTTT
1 ATACTTTT
3560723 ATAC-TTT
1 ATACTTTT
*
3560730 ATAC-TAT
1 ATACTTTT
*
3560737 ATACTTTA
1 ATACTTTT
*
3560745 ATACTTAT
1 ATACTTTT
* *
3560753 ACACTTTA
1 ATACTTTT
3560761 ATAC--TT
1 ATACTTTT
3560767 ATA-TTTT
1 ATACTTTT
*
3560774 ATAGTTTT
1 ATACTTTT
*
3560782 ATACTTTA
1 ATACTTTT
3560790 ATA-TTTT
1 ATACTTTT
*
3560797 AATACTTAT
1 -ATACTTTT
* *
3560806 ACACTTTA
1 ATACTTTT
3560814 ATAC--TT
1 ATACTTTT
*
3560820 ATA-TTAT
1 ATACTTTT
*
3560827 ATAGTTTT
1 ATACTTTT
3560835 ATAC-TTT
1 ATACTTTT
*
3560842 ATAC-TAT
1 ATACTTTT
*
3560849 ATACTTTA
1 ATACTTTT
3560857 ATAC--TT
1 ATACTTTT
*
3560863 ATA-TTCT
1 ATACTTTT
*
3560870 ATAGTTTT
1 ATACTTTT
*
3560878 ATACTTTA
1 ATACTTTT
3560886 ATAC--TT
1 ATACTTTT
3560892 ATACATTTT
1 ATAC-TTTT
3560901 AATAC--TT
1 -ATACTTTT
*
3560908 ATA-TTAT
1 ATACTTTT
*
3560915 ATAGTTTT
1 ATACTTTT
3560923 ATAC-TTT
1 ATACTTTT
*
3560930 ATAC-TAT
1 ATACTTTT
*
3560937 ATACTTTA
1 ATACTTTT
3560945 ATAC--TT
1 ATACTTTT
*
3560951 ATA-TTCT
1 ATACTTTT
*
3560958 ATAGTTTT
1 ATACTTTT
*
3560966 ATACTTTA
1 ATACTTTT
3560974 ATACTTTT
1 ATACTTTT
3560982 ATACTTTT
1 ATACTTTT
* *
3560990 -TCAATTTA
1 AT-ACTTTT
*
3560998 ATAC--AT
1 ATACTTTT
*
3561004 ATA-TTAT
1 ATACTTTT
*
3561011 ATAGTTTT
1 ATACTTTT
3561019 ATAC-TTT
1 ATACTTTT
* *
3561026 AT-CGTAT
1 ATACTTTT
*
3561033 ATACTTTA
1 ATACTTTT
3561041 ATAC--TT
1 ATACTTTT
* *
3561047 GTA-TTAT
1 ATACTTTT
*
3561054 ATAGTTTT
1 ATACTTTT
3561062 ATAC-TTT
1 ATACTTTT
* *
3561069 ATA-GTAT
1 ATACTTTT
*
3561076 ATACTTTA
1 ATACTTTT
3561084 ATAC--TT
1 ATACTTTT
*
3561090 ATA-TTAT
1 ATACTTTT
*
3561097 ATAGTTTT
1 ATACTTTT
3561105 ATACTTTAT
1 ATACTTT-T
3561114 AGTATCTATTTT
1 A-TA-C--TTTT
*
3561126 AATACTTAT
1 -ATACTTTT
*
3561135 ATACTTAT
1 ATACTTTT
*
3561143 ATACTTTA
1 ATACTTTT
3561151 ATA-TTTT
1 ATACTTTT
3561158 ATA
1 ATA
3561161 TTATATTCTT
Statistics
Matches: 378, Mismatches: 90, Indels: 105
0.66 0.16 0.18
Matches are distributed among these distances:
6 40 0.11
7 116 0.31
8 196 0.52
9 11 0.03
10 6 0.02
11 2 0.01
12 3 0.01
13 4 0.01
ACGTcount: A:0.34, C:0.11, G:0.03, T:0.53
Consensus pattern (8 bp):
ATACTTTT
Found at i:3561040 original size:21 final size:22
Alignment explanation
Indices: 3560965--3561189 Score: 163
Period size: 22 Copynumber: 10.2 Consensus size: 22
3560955 TCTATAGTTT
* *
3560965 TATACTTTAATACTTTTATACTT
1 TATACTTTAATAC-TTTATAGTA
* * * *
3560988 TTTCAATTTAATAC-ATATATTA
1 TAT-ACTTTAATACTTTATAGTA
* * *
3561010 TATAGTTTTATACTTTATCGTA
1 TATACTTTAATACTTTATAGTA
3561032 TATACTTTAATACTTGTAT--TA
1 TATACTTTAATACTT-TATAGTA
* *
3561053 TATAGTTTTATACTTTATAGTA
1 TATACTTTAATACTTTATAGTA
*
3561075 TATACTTTAATAC-TTATATTA
1 TATACTTTAATACTTTATAGTA
* *
3561096 TATAGTTTTATACTTTATAGTA
1 TATACTTTAATACTTTATAGTA
* * *
3561118 TCTATTTTAATACTTATATACTTA
1 TATACTTTAATACTT-TATA-GTA
* *
3561142 TATACTTTAATATTTTATATTA
1 TATACTTTAATACTTTATAGTA
* * *
3561164 TATTCTTTATAGACTATATA-TA
1 TATACTTTA-ATACTTTATAGTA
3561186 TATA
1 TATA
3561190 AACTATATAT
Statistics
Matches: 160, Mismatches: 33, Indels: 19
0.75 0.16 0.09
Matches are distributed among these distances:
20 3 0.02
21 41 0.26
22 73 0.46
23 20 0.12
24 23 0.14
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.54
Consensus pattern (22 bp):
TATACTTTAATACTTTATAGTA
Found at i:3561138 original size:30 final size:29
Alignment explanation
Indices: 3561066--3561175 Score: 82
Period size: 30 Copynumber: 3.7 Consensus size: 29
3561056 AGTTTTATAC
* *
3561066 TTTATAGTATATACTTTA-A-TACTTATAT
1 TTTATATTATATACTTTATAGTA-TAATAT
* * *
3561094 TATATAGTTTTATACTTTATAGTAT-CTAT
1 TTTATA-TTATATACTTTATAGTATAATAT
* *
3561123 TTTAATACTTATATACTTATATACTTTAATAT
1 TTT-ATA-TTATATACTT-TATAGTATAATAT
*
3561155 TTTATATTATATTCTTTATAG
1 TTTATATTATATACTTTATAG
3561176 ACTATATATA
Statistics
Matches: 64, Mismatches: 12, Indels: 11
0.74 0.14 0.13
Matches are distributed among these distances:
28 5 0.08
29 19 0.30
30 23 0.36
31 11 0.17
32 6 0.09
ACGTcount: A:0.34, C:0.07, G:0.04, T:0.55
Consensus pattern (29 bp):
TTTATATTATATACTTTATAGTATAATAT
Found at i:3561145 original size:139 final size:131
Alignment explanation
Indices: 3560722--3561150 Score: 443
Period size: 139 Copynumber: 3.1 Consensus size: 131
3560712 TACATAGTTT
* * * *
3560722 TATACTTTATACTATATACTTTAATACTTATACACTTTAATACTTATATTTTATAGTTTTATACT
1 TATACTATATA-TTTATACTTTAATACTTATACATTTTAATACTTATATTATATAGTTTTATAC-
* *
3560787 TTAATATTTTAATACTTATACACTTTAATACTTATATTATATAGTTTTATACTTTATACTATATA
64 -------TTT-ATAC-TATATACTTTAATACTTATATTATATAGTTTTATACTTTATACTATCTA
*
3560852 CTTTAATACTTA
120 TTTTAATACTTA
*
3560864 TATTCTATAGT-TTTATACTTTAATACTTATACATTTTAATACTTATATTATATAGTTTTATACT
1 TATACTATA-TATTTATACTTTAATACTTATACATTTTAATACTTATATTATATAGTTTTATACT
*
3560928 TTATACTATATACTTTAATACTTATATTCTATAGTTTTATACTTTAATACTTTTATACT-TTTTC
65 TTATACTATATACTTTAATACTTATATTATATAGTTTTATACTTT-ATAC---TAT-CTATTTT-
* *
3560992 AATTTAATACA
124 AA--TACT-TA
* * * * *
3561003 TATATTATATAGTTTTATACTTT-AT-CGTATATACTTTAATACTTGTATTATATAGTTTTATAC
1 TATACTATATA--TTTATACTTTAATACTTATACATTTTAATACTTATATTATATAGTTTTATAC
* *
3561066 TTTATAGTATATACTTTAATACTTATATTATATAGTTTTATACTTTATAGTATCTATTTTAATAC
64 TTTATACTATATACTTTAATACTTATATTATATAGTTTTATACTTTATACTATCTATTTTAATAC
3561131 TTA
129 TTA
3561134 TATACTTATATACTTTA
1 TATAC-TATATA-TTTA
3561151 ATATTTTATA
Statistics
Matches: 248, Mismatches: 24, Indels: 41
0.79 0.08 0.13
Matches are distributed among these distances:
131 46 0.19
132 17 0.07
133 3 0.01
134 4 0.02
135 13 0.05
136 3 0.01
138 7 0.03
139 86 0.35
140 2 0.01
141 59 0.24
142 7 0.03
143 1 0.00
ACGTcount: A:0.34, C:0.10, G:0.03, T:0.53
Consensus pattern (131 bp):
TATACTATATATTTATACTTTAATACTTATACATTTTAATACTTATATTATATAGTTTTATACTT
TATACTATATACTTTAATACTTATATTATATAGTTTTATACTTTATACTATCTATTTTAATACTT
A
Found at i:3561154 original size:10 final size:8
Alignment explanation
Indices: 3560388--3561148 Score: 134
Period size: 8 Copynumber: 101.8 Consensus size: 8
3560378 TTAATAATTA
3560388 ATACTT-T
1 ATACTTAT
3560395 ATA-TTAAT
1 ATACTT-AT
3560403 ATAC-T-T
1 ATACTTAT
3560409 ATACTTAT
1 ATACTTAT
*
3560417 ATAGTTATAT
1 ATA-CT-TAT
3560427 ATACTT-T
1 ATACTTAT
3560434 ATACTT-T
1 ATACTTAT
*
3560441 ATATTTA-
1 ATACTTAT
3560448 ATACTTAT
1 ATACTTAT
3560456 ATACTTAT
1 ATACTTAT
* *
3560464 ATATATTTT
1 ATA-CTTAT
3560473 ATACTT-T
1 ATACTTAT
*
3560480 ATTAATTAT
1 A-TACTTAT
* *
3560489 -TAATGAT
1 ATACTTAT
3560496 -TACTTAT
1 ATACTTAT
*
3560503 ATATATATAT
1 ATA-CT-TAT
3560513 ATACTT-T
1 ATACTTAT
3560520 ATA-TTAT
1 ATACTTAT
3560527 ATACTTAT
1 ATACTTAT
3560535 ATACTTAT
1 ATACTTAT
3560543 AGT--TTAT
1 A-TACTTAT
*
3560550 ACACTTAT
1 ATACTTAT
*
3560558 ACA-TTAT
1 ATACTTAT
*
3560565 AGT--TTTT
1 A-TACTTAT
3560572 ATA--TAT
1 ATACTTAT
*
3560578 AAAC-T-T
1 ATACTTAT
3560584 ATACTTAT
1 ATACTTAT
*
3560592 ATAGTTTAT
1 ATA-CTTAT
3560601 ATA-TT-T
1 ATACTTAT
3560607 ATACATTAT
1 ATAC-TTAT
3560616 AGT--TTAT
1 A-TACTTAT
3560623 ATA-TATAT
1 ATACT-TAT
*
3560631 GCATACTTTT
1 --ATACTTAT
3560641 ATACTT-T
1 ATACTTAT
*
3560648 CATACTTCT
1 -ATACTTAT
*
3560657 ATTC-TAT
1 ATACTTAT
*
3560664 A-A-TTTT
1 ATACTTAT
3560670 ATACTT-T
1 ATACTTAT
3560677 AATACTT-T
1 -ATACTTAT
3560685 AATACTTAT
1 -ATACTTAT
*
3560694 ACACTT-T
1 ATACTTAT
3560701 AGTAC-T-T
1 A-TACTTAT
*
3560708 ATA-TTAC
1 ATACTTAT
* *
3560715 ATAGTTTT
1 ATACTTAT
3560723 ATACTT-T
1 ATACTTAT
3560730 ATAC-TAT
1 ATACTTAT
3560737 ATACTT-T
1 ATACTTAT
3560744 AATACTTAT
1 -ATACTTAT
*
3560753 ACACTT-T
1 ATACTTAT
3560760 AATACTTAT
1 -ATACTTAT
3560769 AT--TT-T
1 ATACTTAT
* *
3560774 ATAGTTTT
1 ATACTTAT
3560782 ATACTT-T
1 ATACTTAT
*
3560789 AATA-TTTT
1 -ATACTTAT
3560797 AATACTTAT
1 -ATACTTAT
*
3560806 ACACTT-T
1 ATACTTAT
3560813 AATAC-T-T
1 -ATACTTAT
3560820 ATA-TTAT
1 ATACTTAT
* *
3560827 ATAGTTTT
1 ATACTTAT
3560835 ATACTT-T
1 ATACTTAT
3560842 ATAC-TAT
1 ATACTTAT
3560849 ATACTT-T
1 ATACTTAT
3560856 AATACTTAT
1 -ATACTTAT
*
3560865 ATTC-TAT
1 ATACTTAT
3560872 AGT--TT-T
1 A-TACTTAT
3560878 ATACTT-T
1 ATACTTAT
3560885 AATACTTAT
1 -ATACTTAT
* *
3560894 ACA-TTTT
1 ATACTTAT
3560901 AATAC-T-T
1 -ATACTTAT
3560908 ATA-TTAT
1 ATACTTAT
* *
3560915 ATAGTTTT
1 ATACTTAT
3560923 ATACTT-T
1 ATACTTAT
3560930 ATAC-TAT
1 ATACTTAT
3560937 ATACTT-T
1 ATACTTAT
3560944 AATACTTAT
1 -ATACTTAT
*
3560953 ATTC-TAT
1 ATACTTAT
3560960 AGT--TT-T
1 A-TACTTAT
3560966 ATACTT-T
1 ATACTTAT
*
3560973 AATACTTTT
1 -ATACTTAT
3560982 ATACTT-T
1 ATACTTAT
* *
3560989 TTCAATT-T
1 AT-ACTTAT
3560997 AATAC--AT
1 -ATACTTAT
3561004 ATA-TTAT
1 ATACTTAT
* *
3561011 ATAGTTTT
1 ATACTTAT
3561019 ATACTT-T
1 ATACTTAT
*
3561026 AT-CGTAT
1 ATACTTAT
3561033 ATACTT-T
1 ATACTTAT
3561040 AATAC-T-T
1 -ATACTTAT
*
3561047 GTA-TTAT
1 ATACTTAT
* *
3561054 ATAGTTTT
1 ATACTTAT
3561062 ATACTT-T
1 ATACTTAT
*
3561069 ATA-GTAT
1 ATACTTAT
3561076 ATACTT-T
1 ATACTTAT
3561083 AATAC-T-T
1 -ATACTTAT
3561090 ATA-TTAT
1 ATACTTAT
* *
3561097 ATAGTTTT
1 ATACTTAT
3561105 ATACTT-T
1 ATACTTAT
*
3561112 ATA-GTAT
1 ATACTTAT
* *
3561119 CTA-TTTT
1 ATACTTAT
3561126 AATACTTAT
1 -ATACTTAT
3561135 ATACTTAT
1 ATACTTAT
3561143 ATACTT
1 ATACTT
3561149 TAATATTTTA
Statistics
Matches: 578, Mismatches: 68, Indels: 215
0.67 0.08 0.25
Matches are distributed among these distances:
5 5 0.01
6 60 0.10
7 196 0.34
8 262 0.45
9 36 0.06
10 18 0.03
11 1 0.00
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (8 bp):
ATACTTAT
Found at i:3561171 original size:22 final size:22
Alignment explanation
Indices: 3561003--3561189 Score: 173
Period size: 22 Copynumber: 8.5 Consensus size: 22
3560993 ATTTAATACA
* *
3561003 TATATTATATAGTTTTATACTT
1 TATATTATATACTTTAATACTT
**
3561025 TATCGTATATACTTTAATAC-T
1 TATATTATATACTTTAATACTT
* * *
3561046 TGTATTATATAGTTTTATACTT
1 TATATTATATACTTTAATACTT
*
3561068 TATAGTATATACTTTAATAC-T
1 TATATTATATACTTTAATACTT
* *
3561089 TATATTATATAGTTTTATACTT
1 TATATTATATACTTTAATACTT
* * *
3561111 TATAGTATCTATTTTAATACTT
1 TATATTATATACTTTAATACTT
*
3561133 ATATACTTATATACTTTAATATTT
1 -TATA-TTATATACTTTAATACTT
* * *
3561157 TATATTATATTCTTTATAGACTA
1 TATATTATATACTTTA-ATACTT
3561180 TATA-TATATA
1 TATATTATATA
3561190 AACTATATAT
Statistics
Matches: 131, Mismatches: 29, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
21 34 0.26
22 68 0.52
23 15 0.11
24 14 0.11
ACGTcount: A:0.34, C:0.07, G:0.04, T:0.54
Consensus pattern (22 bp):
TATATTATATACTTTAATACTT
Found at i:3561185 original size:2 final size:2
Alignment explanation
Indices: 3561178--3561214 Score: 56
Period size: 2 Copynumber: 18.0 Consensus size: 2
3561168 CTTTATAGAC
*
3561178 TA TA TA TA TA TA AA CTA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
3561215 AACTATAGTC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 31 0.97
3 1 0.03
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:3561228 original size:14 final size:13
Alignment explanation
Indices: 3561180--3561244 Score: 78
Period size: 14 Copynumber: 4.9 Consensus size: 13
3561170 TTATAGACTA
3561180 TATATATATAAAC
1 TATATATATAAAC
*
3561193 TATATATATATA-
1 TATATATATAAAC
3561205 TATATATATAAAC
1 TATATATATAAAC
* *
3561218 TATAGTCTATAAAG
1 TATA-TATATAAAC
3561232 TATATAATATAAA
1 TATAT-ATATAAA
3561245 GTATTAAATA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
12 11 0.25
13 16 0.36
14 17 0.39
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (13 bp):
TATATATATAAAC
Found at i:3561245 original size:14 final size:14
Alignment explanation
Indices: 3561178--3561287 Score: 71
Period size: 14 Copynumber: 8.4 Consensus size: 14
3561168 CTTTATAGAC
*
3561178 TATATATATATAAAC
1 TATATA-ATATAAAG
*
3561193 TATAT-ATATATA-
1 TATATAATATAAAG
*
3561205 TATAT-ATATAAAC
1 TATATAATATAAAG
*
3561218 TATAGT-CTATAAAG
1 TATA-TAATATAAAG
3561232 TATATAATATAAAG
1 TATATAATATAAAG
3561246 TAT-TAA-ATAAA-
1 TATATAATATAAAG
3561257 -A-AGT-AT-TAAAG
1 TATA-TAATATAAAG
*
3561268 TATATAATATAAAA
1 TATATAATATAAAG
3561282 TATATA
1 TATATA
3561288 CTTTATAGAC
Statistics
Matches: 78, Mismatches: 6, Indels: 23
0.73 0.06 0.21
Matches are distributed among these distances:
10 6 0.08
11 1 0.01
12 18 0.23
13 17 0.22
14 31 0.40
15 5 0.06
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.38
Consensus pattern (14 bp):
TATATAATATAAAG
Found at i:3561305 original size:15 final size:16
Alignment explanation
Indices: 3561282--3561358 Score: 79
Period size: 17 Copynumber: 4.8 Consensus size: 16
3561272 TAATATAAAA
3561282 TATATACTTTATAGAC
1 TATATACTTTATAGAC
3561298 TA-ATACTTTATATGTA-
1 TATATACTTTATA-G-AC
*
3561314 TATATACTTT-TATAC
1 TATATACTTTATAGAC
* *
3561329 TATATAATTTATATAC
1 TATATACTTTATAGAC
3561345 TTATATACTTTATA
1 -TATATACTTTATA
3561359 TTATATACTT
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
14 1 0.02
15 19 0.37
16 12 0.23
17 20 0.38
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.51
Consensus pattern (16 bp):
TATATACTTTATAGAC
Found at i:3561321 original size:32 final size:34
Alignment explanation
Indices: 3561281--3561358 Score: 101
Period size: 32 Copynumber: 2.4 Consensus size: 34
3561271 ATAATATAAA
* *
3561281 ATATATACTTTATAGACTA-ATACTTTATAT-GT
1 ATATATACTTTATAGACTATATAATTTATATACT
*
3561313 ATATATACTTT-TATACTATATAATTTATATACT
1 ATATATACTTTATAGACTATATAATTTATATACT
3561346 -TATATACTTTATA
1 ATATATACTTTATA
3561359 TTATATACTT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
31 6 0.15
32 31 0.77
33 3 0.08
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.50
Consensus pattern (34 bp):
ATATATACTTTATAGACTATATAATTTATATACT
Found at i:3561322 original size:17 final size:16
Alignment explanation
Indices: 3561281--3561365 Score: 72
Period size: 15 Copynumber: 5.3 Consensus size: 16
3561271 ATAATATAAA
*
3561281 ATATATACTTTATA-G
1 ATATATACTTTATATT
3561296 ACTA-ATACTTTATATGT
1 A-TATATACTTTATAT-T
3561313 ATATATACTTT-TA-T
1 ATATATACTTTATATT
*
3561327 ACTATATAATTTATA-T
1 A-TATATACTTTATATT
3561343 ACTTATATACTTTATATT
1 A--TATATACTTTATATT
3561361 ATATA
1 ATATA
3561366 CTTATATCCT
Statistics
Matches: 58, Mismatches: 4, Indels: 15
0.75 0.05 0.19
Matches are distributed among these distances:
14 2 0.03
15 20 0.34
16 14 0.24
17 20 0.34
18 2 0.03
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATATACTTTATATT
Found at i:3561327 original size:8 final size:8
Alignment explanation
Indices: 3561314--3561372 Score: 70
Period size: 8 Copynumber: 7.6 Consensus size: 8
3561304 TTTATATGTA
3561314 TATATACT
1 TATATACT
*
3561322 TTTATAC-
1 TATATACT
*
3561329 TATATAATT
1 TATAT-ACT
3561338 TATATACT
1 TATATACT
3561346 TATATACT
1 TATATACT
3561354 T-TATA-T
1 TATATACT
3561360 TATATACT
1 TATATACT
3561368 TATAT
1 TATAT
3561373 CCTTTTGTCT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
6 2 0.05
7 12 0.28
8 24 0.56
9 5 0.12
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.54
Consensus pattern (8 bp):
TATATACT
Found at i:3561346 original size:24 final size:22
Alignment explanation
Indices: 3561314--3561470 Score: 89
Period size: 22 Copynumber: 7.2 Consensus size: 22
3561304 TTTATATGTA
*
3561314 TATATACTTTTATACTATATAATT
1 TATATACTTATATACTATAT-A-T
*
3561338 TATATACTTATATACTTTATAT
1 TATATACTTATATACTATATAT
* * *
3561360 TATATACTTATATCCT-TTTGT
1 TATATACTTATATACTATATAT
* *
3561381 CTTTATAATTAATATA-TATATAT
1 -TATATACTT-ATATACTATATAT
3561404 ATATATA-TATATATA-TATATAT
1 -TATATACT-TATATACTATATAT
* * *
3561426 ATACATACATACATACT-TATAT
1 -TATATACTTATATACTATATAT
3561448 T-TATA--TATA-ACTATATACT
1 TATATACTTATATACTATATA-T
3561467 TATA
1 TATA
3561471 ATGTATTAAT
Statistics
Matches: 107, Mismatches: 17, Indels: 22
0.73 0.12 0.15
Matches are distributed among these distances:
17 3 0.03
18 7 0.07
19 2 0.02
20 5 0.05
21 4 0.04
22 53 0.50
23 15 0.14
24 18 0.17
ACGTcount: A:0.40, C:0.09, G:0.01, T:0.50
Consensus pattern (22 bp):
TATATACTTATATACTATATAT
Found at i:3561399 original size:4 final size:4
Alignment explanation
Indices: 3561392--3561456 Score: 78
Period size: 4 Copynumber: 16.2 Consensus size: 4
3561382 TTTATAATTA
* * *
3561392 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ACAT ACAT ACAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
*
3561440 ACT-T ATAT TTAT ATAT A
1 A-TAT ATAT ATAT ATAT A
3561457 ACTATATACT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
3 1 0.02
4 54 0.98
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (4 bp):
ATAT
Found at i:3561403 original size:6 final size:6
Alignment explanation
Indices: 3561392--3561456 Score: 78
Period size: 6 Copynumber: 10.8 Consensus size: 6
3561382 TTTATAATTA
* * *
3561392 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ACATAC ATACAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
*
3561440 ACT-TAT ATTTAT ATATA
1 A-TATAT ATATAT ATATA
3561457 ACTATATACT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
5 1 0.02
6 48 0.96
7 1 0.02
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (6 bp):
ATATAT
Found at i:3562422 original size:21 final size:21
Alignment explanation
Indices: 3562379--3562427 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
3562369 ACTTAAAAAT
***
3562379 GACCCGAACTGATTTGGTTTA
1 GACCCGAACTGATTTGACATA
3562400 GACCCGAACTGATTTGACATA
1 GACCCGAACTGATTTGACATA
3562421 GACCCGA
1 GACCCGA
3562428 CATGATCTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.24
Consensus pattern (21 bp):
GACCCGAACTGATTTGACATA
Found at i:3569253 original size:42 final size:42
Alignment explanation
Indices: 3569125--3569330 Score: 295
Period size: 42 Copynumber: 4.8 Consensus size: 42
3569115 CTGTACACTA
* * * ** *
3569125 GTAAGGCTTAACCTGTGCACAAAGCAGAGAAACCTAGGAAAACT
1 GTAAGGCTT-ACCTTTGCACACAGCAAAGGGACCT-GGGAAACT
* *
3569169 TTAAGGCTTACCCTTGCACACAGCAAAAGGGACCTGGGAAACT
1 GTAAGGCTTACCTTTGCACACAGC-AAAGGGACCTGGGAAACT
3569212 GTAAGGCTTACCTTTGCACACAGCAAAGGGACCTGGGAAACT
1 GTAAGGCTTACCTTTGCACACAGCAAAGGGACCTGGGAAACT
*
3569254 GTAAGGCTTACCTTTGCACACAGCAAAGGGACCTGGGAAACA
1 GTAAGGCTTACCTTTGCACACAGCAAAGGGACCTGGGAAACT
*
3569296 GAAAGGCTTACCTTTGCACACAGCAAAGGGACCTG
1 GTAAGGCTTACCTTTGCACACAGCAAAGGGACCTG
3569331 ATAATACTTC
Statistics
Matches: 149, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
42 93 0.62
43 41 0.28
44 15 0.10
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.17
Consensus pattern (42 bp):
GTAAGGCTTACCTTTGCACACAGCAAAGGGACCTGGGAAACT
Found at i:3569329 original size:21 final size:21
Alignment explanation
Indices: 3569263--3569329 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
3569253 TGTAAGGCTT
3569263 ACCTTTGCACACAGCAAAGGG
1 ACCTTTGCACACAGCAAAGGG
* * * *
3569284 ACC-TGGGAAACAG-AAAGGCTT
1 ACCTTTGCACACAGCAAAGG--G
3569305 ACCTTTGCACACAGCAAAGGG
1 ACCTTTGCACACAGCAAAGGG
3569326 ACCT
1 ACCT
3569330 GATAATACTT
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
19 5 0.15
20 7 0.21
21 10 0.29
22 7 0.21
23 5 0.15
ACGTcount: A:0.34, C:0.27, G:0.24, T:0.15
Consensus pattern (21 bp):
ACCTTTGCACACAGCAAAGGG
Found at i:3570187 original size:29 final size:29
Alignment explanation
Indices: 3570150--3570218 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
3570140 ATCAACCATT
*
3570150 TTACGAAAATAGCA-TCATTTTCAAAATAA
1 TTACCAAAATAGCACT-ATTTTCAAAATAA
* *
3570179 TTACCAAAATATCACTATTTTCCAAATAA
1 TTACCAAAATAGCACTATTTTCAAAATAA
3570208 TTACCAAAATA
1 TTACCAAAATA
3570219 CCACCCGGTC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 35 0.97
30 1 0.03
ACGTcount: A:0.48, C:0.17, G:0.03, T:0.32
Consensus pattern (29 bp):
TTACCAAAATAGCACTATTTTCAAAATAA
Found at i:3570261 original size:18 final size:18
Alignment explanation
Indices: 3570238--3570284 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
3570228 CAACGGTCAA
*
3570238 CGGGTCGGTTCAACAGGT
1 CGGGTCGGGTCAACAGGT
*
3570256 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACAGGT
3570274 CGGGTCGGGTC
1 CGGGTCGGGTC
3570285 GTAACCAGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.11, C:0.23, G:0.47, T:0.19
Consensus pattern (18 bp):
CGGGTCGGGTCAACAGGT
Found at i:3572388 original size:21 final size:21
Alignment explanation
Indices: 3572346--3572388 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
3572336 TTTCTGGGCT
* *
3572346 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
3572367 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
3572388 A
1 A
3572389 CGAATATGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:3573153 original size:103 final size:103
Alignment explanation
Indices: 3572928--3573145 Score: 427
Period size: 103 Copynumber: 2.1 Consensus size: 103
3572918 GTAGAGGGTC
*
3572928 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAT
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
3572993 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
3573031 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
3573096 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
3573134 TATGTGGTCCTT
1 TATGTGGTCCTT
3573146 ATGGACATTA
Statistics
Matches: 114, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 114 1.00
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:3573195 original size:23 final size:23
Alignment explanation
Indices: 3573162--3573224 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
3573152 ATTATTATAT
*
3573162 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACAC
* *
3573185 GGCACTCCGGTGCAATTCTACAT
1 GGCACTACGGTGCAATTCTACAC
3573208 GGCACTTA-GGTGCAATT
1 GGCAC-TACGGTGCAATT
3573225 ATATGAGTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 34 0.97
24 1 0.03
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACAC
Found at i:3579322 original size:21 final size:21
Alignment explanation
Indices: 3579280--3579322 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
3579270 TTTTTGGGCT
* *
3579280 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
3579301 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
3579322 A
1 A
3579323 CGAATATGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:3580024 original size:23 final size:23
Alignment explanation
Indices: 3579998--3580042 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
3579988 ATATGGCATA
*
3579998 CGGTGCAATTCTACGCGGCACTC
1 CGGTACAATTCTACGCGGCACTC
*
3580021 CGGTACAATTCTACGTGGCACT
1 CGGTACAATTCTACGCGGCACT
3580043 TAGGTGCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.20, C:0.31, G:0.24, T:0.24
Consensus pattern (23 bp):
CGGTACAATTCTACGCGGCACTC
Found at i:3585482 original size:42 final size:42
Alignment explanation
Indices: 3585350--3585555 Score: 288
Period size: 42 Copynumber: 4.8 Consensus size: 42
3585340 CTGTATACCA
* * * *
3585350 GTAAGGCTTAACCTGTGCACAAAGCAGA-GGAGCCTAGGAAAACT
1 GTAAGGCTT-ACCTTTGCACACAGCAAAGGGA-CCT-GGGAAACT
* * *
3585394 GTAAGGCTTACCCTTGCACACAGTAAAAGGGACCTGGGAAATT
1 GTAAGGCTTACCTTTGCACACAG-CAAAGGGACCTGGGAAACT
3585437 GTAAGGCTTACCTTTGCACACAGCAAAGGGACCTGGGAAACT
1 GTAAGGCTTACCTTTGCACACAGCAAAGGGACCTGGGAAACT
* *
3585479 GTAAGACTTACCTTTGCACACAGCAAAGGGAGCTGGGAAACT
1 GTAAGGCTTACCTTTGCACACAGCAAAGGGACCTGGGAAACT
3585521 GTAAGGCTTACCTTTGCACACAGCAAAGGGACCTG
1 GTAAGGCTTACCTTTGCACACAGCAAAGGGACCTG
3585556 ATAATACTTC
Statistics
Matches: 146, Mismatches: 14, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
42 90 0.62
43 39 0.27
44 14 0.10
45 3 0.02
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (42 bp):
GTAAGGCTTACCTTTGCACACAGCAAAGGGACCTGGGAAACT
Found at i:3586427 original size:29 final size:29
Alignment explanation
Indices: 3586390--3586458 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 29
3586380 ATCAACCATT
*
3586390 TTACGAAAATATCATC-ATTTTCAAAATAA
1 TTACCAAAATATCA-CAATTTTCAAAATAA
*
3586419 TTACCAAAATATCACAATTTTCCAAATAA
1 TTACCAAAATATCACAATTTTCAAAATAA
3586448 TTACCAAAATA
1 TTACCAAAATA
3586459 CCACCCGATC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 1 0.03
29 36 0.97
ACGTcount: A:0.49, C:0.17, G:0.01, T:0.32
Consensus pattern (29 bp):
TTACCAAAATATCACAATTTTCAAAATAA
Found at i:3591947 original size:25 final size:25
Alignment explanation
Indices: 3591912--3591959 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
3591902 CAGATTGTCT
*
3591912 AGGGGGTACAGATTCCCCCCCCCCA
1 AGGGGGAACAGATTCCCCCCCCCCA
3591937 AGGGGGAACAGATTCCCCCCCCC
1 AGGGGGAACAGATTCCCCCCCCC
3591960 AGGGGTACCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.21, C:0.44, G:0.25, T:0.10
Consensus pattern (25 bp):
AGGGGGAACAGATTCCCCCCCCCCA
Found at i:3591964 original size:22 final size:24
Alignment explanation
Indices: 3591912--3591977 Score: 91
Period size: 22 Copynumber: 2.8 Consensus size: 24
3591902 CAGATTGTCT
3591912 AGGGGGTACAGATTCCCCCCCCCCA
1 AGGGGGTACAGATT-CCCCCCCCCA
*
3591937 AGGGGGAACAGATTCCCCCCCCC-
1 AGGGGGTACAGATTCCCCCCCCCA
*
3591960 A-GGGGTACCGATTCCCCC
1 AGGGGGTACAGATTCCCCC
3591978 TTGTCTAACG
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
22 15 0.39
23 1 0.03
24 9 0.24
25 13 0.34
ACGTcount: A:0.20, C:0.42, G:0.26, T:0.12
Consensus pattern (24 bp):
AGGGGGTACAGATTCCCCCCCCCA
Found at i:3596199 original size:2 final size:2
Alignment explanation
Indices: 3596192--3596233 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
3596182 ATCTTCGAAT
3596192 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3596234 GTGCACAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3597373 original size:2 final size:2
Alignment explanation
Indices: 3597366--3597396 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
3597356 GTTTCTACTC
3597366 AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
3597397 GATCCGTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3606012 original size:28 final size:29
Alignment explanation
Indices: 3605981--3606040 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
3605971 GTATGAGAGA
3605981 TTTTATATCTCTT-ATTTCATCTTCTTCC
1 TTTTATATCTCTTCATTTCATCTTCTTCC
* * *
3606009 TTTTATTTCTCTTCATTTCTTCTTCTTTC
1 TTTTATATCTCTTCATTTCATCTTCTTCC
3606038 TTT
1 TTT
3606041 CTCCACCATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 12 0.43
29 16 0.57
ACGTcount: A:0.10, C:0.23, G:0.00, T:0.67
Consensus pattern (29 bp):
TTTTATATCTCTTCATTTCATCTTCTTCC
Found at i:3606063 original size:25 final size:25
Alignment explanation
Indices: 3606022--3606069 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
3606012 TATTTCTCTT
* * *
3606022 CATTTCTTCTTCTTTCTTTCTCCAC
1 CATTTCTTCTCCATTCTTCCTCCAC
3606047 CATTTCTTCTCCATTCTTCCTCC
1 CATTTCTTCTCCATTCTTCCTCC
3606070 TAAGTATCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.08, C:0.40, G:0.00, T:0.52
Consensus pattern (25 bp):
CATTTCTTCTCCATTCTTCCTCCAC
Found at i:3606454 original size:21 final size:21
Alignment explanation
Indices: 3606428--3606482 Score: 110
Period size: 21 Copynumber: 2.6 Consensus size: 21
3606418 ATACTCATAG
3606428 GGGTATCGATACTTAACCCTA
1 GGGTATCGATACTTAACCCTA
3606449 GGGTATCGATACTTAACCCTA
1 GGGTATCGATACTTAACCCTA
3606470 GGGTATCGATACT
1 GGGTATCGATACT
3606483 GCAAGTAGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (21 bp):
GGGTATCGATACTTAACCCTA
Found at i:3609787 original size:3 final size:3
Alignment explanation
Indices: 3609773--3609810 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
3609763 TGAAAAAATA
*
3609773 AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
3609811 GCTGACTCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:3617455 original size:16 final size:16
Alignment explanation
Indices: 3617436--3617489 Score: 90
Period size: 16 Copynumber: 3.3 Consensus size: 16
3617426 GTTAACTTTA
3617436 ACTTTGACCAATATTG
1 ACTTTGACCAATATTG
3617452 ACTTTGACCAATATTG
1 ACTTTGACCAATATTG
*
3617468 ACTTTGACCAAAAGTTG
1 ACTTTGACCAATA-TTG
3617485 ACTTT
1 ACTTT
3617490 TTCCAAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
16 28 0.78
17 8 0.22
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (16 bp):
ACTTTGACCAATATTG
Found at i:3620036 original size:23 final size:23
Alignment explanation
Indices: 3619979--3620036 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
3619969 AAAAAAAAAG
*
3619979 TTAATTATTAAGAGATCCAAGAC
1 TTAATTATTAAGAGATCCAACAC
*
3620002 TCCT-ATTA-TAAGAGATCCTACAC
1 T--TAATTATTAAGAGATCCAACAC
3620025 TTAATTATTAAG
1 TTAATTATTAAG
3620037 TTAAATTAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
21 1 0.03
22 4 0.14
23 19 0.66
24 4 0.14
25 1 0.03
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (23 bp):
TTAATTATTAAGAGATCCAACAC
Found at i:3629432 original size:20 final size:20
Alignment explanation
Indices: 3629407--3629452 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
3629397 AGTAATGACC
3629407 CTCTCTCTCTCACCCACTCT
1 CTCTCTCTCTCACCCACTCT
3629427 CTCTCTCTCTCACCCACTCT
1 CTCTCTCTCTCACCCACTCT
3629447 CTCTCT
1 CTCTCT
3629453 GACTCTCTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.09, C:0.54, G:0.00, T:0.37
Consensus pattern (20 bp):
CTCTCTCTCTCACCCACTCT
Found at i:3636588 original size:2 final size:2
Alignment explanation
Indices: 3636581--3636605 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3636571 ATCGTGTTTA
3636581 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 A
3636606 CACACATTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3640454 original size:24 final size:24
Alignment explanation
Indices: 3640422--3640469 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
3640412 TCAGGTAAAA
3640422 ACCCTCACTCTCATCTCTTTTTCT
1 ACCCTCACTCTCATCTCTTTTTCT
*
3640446 ACCCTCACTCTTATCTCTTTTTCT
1 ACCCTCACTCTCATCTCTTTTTCT
3640470 TTCTCTTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.12, C:0.40, G:0.00, T:0.48
Consensus pattern (24 bp):
ACCCTCACTCTCATCTCTTTTTCT
Found at i:3641781 original size:29 final size:28
Alignment explanation
Indices: 3641747--3641828 Score: 119
Period size: 29 Copynumber: 2.9 Consensus size: 28
3641737 ACGAACCAGC
3641747 ATAGGTCGCCATGCACGCCCGGCGTCCTT
1 ATAGGTCGCCATGCACGCCCGGCGTCC-T
*
3641776 ATAGGTCGCCATGCACGCCCGACGTCCT
1 ATAGGTCGCCATGCACGCCCGGCGTCCT
* *
3641804 ATAAGGACGCCATACACGCCCGGCG
1 AT-AGGTCGCCATGCACGCCCGGCG
3641829 ACCAACGTTC
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 3 0.06
29 45 0.94
ACGTcount: A:0.20, C:0.38, G:0.27, T:0.16
Consensus pattern (28 bp):
ATAGGTCGCCATGCACGCCCGGCGTCCT
Found at i:3642005 original size:12 final size:11
Alignment explanation
Indices: 3641985--3642019 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
3641975 GAATTCAACT
3641985 GCATTATTGCA
1 GCATTATTGCA
*
3641996 GCACTTATTGCT
1 GCA-TTATTGCA
3642008 GCATTATTGCA
1 GCATTATTGCA
3642019 G
1 G
3642020 TCCTTCAGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (11 bp):
GCATTATTGCA
Found at i:3642419 original size:35 final size:31
Alignment explanation
Indices: 3642356--3642448 Score: 84
Period size: 29 Copynumber: 2.9 Consensus size: 31
3642346 TGAATTTATA
3642356 TTATATAAAAAAATTAGTTAATTAGTTTAAG
1 TTATATAAAAAAATTAGTTAATTAGTTTAAG
*
3642387 TTATATAAAAGAATAATTATTTAAATTAGTTT-A-
1 TTATAT-AAA-AA-AATTAGTT-AATTAGTTTAAG
* **
3642420 TTGT-TATAAATTATTAGTTAATTAGTTTA
1 TTATATA-AAAAAATTAGTTAATTAGTTTA
3642449 TTATTATAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
29 9 0.18
30 6 0.12
31 8 0.16
32 6 0.12
33 5 0.10
34 8 0.16
35 9 0.18
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (31 bp):
TTATATAAAAAAATTAGTTAATTAGTTTAAG
Found at i:3642431 original size:18 final size:18
Alignment explanation
Indices: 3642408--3642462 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
3642398 AATAATTATT
3642408 TAAATTAGTTTATTGTTA
1 TAAATTAGTTTATTGTTA
3642426 TAAATTA--TTA--G-T-
1 TAAATTAGTTTATTGTTA
*
3642438 T-AATTAGTTTATTATTA
1 TAAATTAGTTTATTGTTA
3642455 TAAATTAG
1 TAAATTAG
3642463 GGTAAAACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 14
0.66 0.02 0.32
Matches are distributed among these distances:
11 5 0.17
12 1 0.03
13 4 0.14
14 1 0.03
16 4 0.14
17 1 0.03
18 13 0.45
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (18 bp):
TAAATTAGTTTATTGTTA
Found at i:3642766 original size:28 final size:29
Alignment explanation
Indices: 3642726--3642802 Score: 104
Period size: 29 Copynumber: 2.6 Consensus size: 29
3642716 TAGTAATAAA
3642726 TTATAATTAAAAATCA-TTTATTAGTTTAA-G
1 TTAT-ATTAAAAAT-AGTTTATTAG-TTAACG
3642756 TTATATTAAAAATAGTTTATTAGTTAACG
1 TTATATTAAAAATAGTTTATTAGTTAACG
3642785 TTATATTAAAGAATAGTT
1 TTATATTAAA-AATAGTT
3642803 AAAGTTATAT
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
28 5 0.11
29 28 0.64
30 11 0.25
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (29 bp):
TTATATTAAAAATAGTTTATTAGTTAACG
Found at i:3642802 original size:22 final size:22
Alignment explanation
Indices: 3642776--3642824 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
3642766 AATAGTTTAT
*
3642776 TAGTTAACGTTATATTAAAGAA
1 TAGTTAAAGTTATATTAAAGAA
3642798 TAGTTAAAGTTATATTAAAGAA
1 TAGTTAAAGTTATATTAAAGAA
3642820 TAGTT
1 TAGTT
3642825 TATTAGTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.45, C:0.02, G:0.14, T:0.39
Consensus pattern (22 bp):
TAGTTAAAGTTATATTAAAGAA
Found at i:3645245 original size:59 final size:59
Alignment explanation
Indices: 3645110--3645245 Score: 156
Period size: 59 Copynumber: 2.3 Consensus size: 59
3645100 AATATTTAGT
* * *
3645110 AATTCGACTATTTTAAATCATTAGTATCAAATAATTAAATATTAATAATAAATCATTATT
1 AATTCAACTATTATAAATCATTAGTATCAAATAATTAAATATT-ATAATAAATCATTATA
*
3645170 AA-T-AA-TAATTAGTAAATCATTAGTATCAAATCATTAAATATT-TAA-AAATCATTAATA
1 AATTCAACT-ATTA-TAAATCATTAGTATCAAATAATTAAATATTATAATAAATCATT-ATA
3645227 AATTCAACTATGTATAAAT
1 AATTCAACTAT-TATAAAT
3645246 TTAAACTCGA
Statistics
Matches: 65, Mismatches: 4, Indels: 15
0.77 0.05 0.18
Matches are distributed among these distances:
56 8 0.12
57 8 0.12
58 5 0.08
59 39 0.60
60 5 0.08
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.39
Consensus pattern (59 bp):
AATTCAACTATTATAAATCATTAGTATCAAATAATTAAATATTATAATAAATCATTATA
Done.