Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold211
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: 2157208
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 20444 characters in sequence are not A, C, G, or T
File 6 of 15
Found at i:637219 original size:2 final size:2
Alignment explanation
Indices: 637212--637251 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
637202 TTATAGATTT
637212 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
637252 GACAATAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:638377 original size:24 final size:25
Alignment explanation
Indices: 638350--638399 Score: 84
Period size: 24 Copynumber: 2.0 Consensus size: 25
638340 AATTTTTTTA
638350 TAAAAAAAATTAT-AATATGAAAAT
1 TAAAAAAAATTATAAATATGAAAAT
*
638374 TAAAAAAAATTATAAATATTAAAAT
1 TAAAAAAAATTATAAATATGAAAAT
638399 T
1 T
638400 TAAATTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (25 bp):
TAAAAAAAATTATAAATATGAAAAT
Found at i:641542 original size:29 final size:27
Alignment explanation
Indices: 641471--641548 Score: 70
Period size: 27 Copynumber: 2.8 Consensus size: 27
641461 CATTGTAAAT
*
641471 AAATTTAATTATATTT-ATTTAATATTA
1 AAATTTAATT-TATTTAATTTAAAATTA
* **
641498 AAAATTAATCCAATTTAAATTTAAAATATA
1 AAATTTAAT-TTATTT-AATTTAAAAT-TA
641528 AAATTTAATTTATTT-ATTTAA
1 AAATTTAATTTATTTAATTTAA
641549 CAAAATATTC
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
27 18 0.45
29 12 0.30
30 10 0.25
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (27 bp):
AAATTTAATTTATTTAATTTAAAATTA
Found at i:648776 original size:27 final size:27
Alignment explanation
Indices: 648746--648805 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
648736 TTTGTTTCTA
*
648746 AAAAATAGTAGTTACTTTGTGTTTGTC
1 AAAAATAGTAGTTACTTTGTATTTGTC
* * * *
648773 AAAAATGGTGGTTTCTTTTTATTTGTC
1 AAAAATAGTAGTTACTTTGTATTTGTC
648800 AAAAAT
1 AAAAAT
648806 GGTGGCATGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.32, C:0.07, G:0.17, T:0.45
Consensus pattern (27 bp):
AAAAATAGTAGTTACTTTGTATTTGTC
Found at i:648821 original size:24 final size:25
Alignment explanation
Indices: 648765--648827 Score: 74
Period size: 27 Copynumber: 2.5 Consensus size: 25
648755 AGTTACTTTG
* *
648765 TGTTTGTCAAAAATGGTGGTTTCTTTT
1 TGTTTGTCAAAAATGGTGG--TCATGT
*
648792 TATTTGTCAAAAATGGTGG-CATGT
1 TGTTTGTCAAAAATGGTGGTCATGT
648816 TGTTTGTCAAAA
1 TGTTTGTCAAAA
648828 TTTGTGGCTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 14 0.44
27 18 0.56
ACGTcount: A:0.25, C:0.08, G:0.22, T:0.44
Consensus pattern (25 bp):
TGTTTGTCAAAAATGGTGGTCATGT
Found at i:648911 original size:13 final size:13
Alignment explanation
Indices: 648893--648923 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
648883 TCCCTCCTCG
648893 CTCTCAAGCATCC
1 CTCTCAAGCATCC
648906 CTCTCAAGCATCC
1 CTCTCAAGCATCC
648919 CTCTC
1 CTCTC
648924 TTGTATGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.19, C:0.48, G:0.06, T:0.26
Consensus pattern (13 bp):
CTCTCAAGCATCC
Found at i:649862 original size:20 final size:20
Alignment explanation
Indices: 649837--649885 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
649827 GACAAACAAG
649837 GAAGCTTTGATAAAGATACA
1 GAAGCTTTGATAAAGATACA
649857 GAAGCTTTGATAAAGATACA
1 GAAGCTTTGATAAAGATACA
649877 GAAGCTTTG
1 GAAGCTTTG
649886 GTAGTCAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (20 bp):
GAAGCTTTGATAAAGATACA
Found at i:653261 original size:26 final size:28
Alignment explanation
Indices: 653210--653277 Score: 88
Period size: 26 Copynumber: 2.5 Consensus size: 28
653200 AGACACTCTT
*
653210 TGTTTGTCAAAAAT-AGTGGTTATTTTG
1 TGTTTGTCAAAAATGAGTGATTATTTTG
*
653237 TGTTTGTCAAAAATGA-TGATT-TTTTT
1 TGTTTGTCAAAAATGAGTGATTATTTTG
*
653263 TATTTGTCAAAAATG
1 TGTTTGTCAAAAATG
653278 GTGGCATATT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
26 18 0.49
27 18 0.49
28 1 0.03
ACGTcount: A:0.29, C:0.04, G:0.18, T:0.49
Consensus pattern (28 bp):
TGTTTGTCAAAAATGAGTGATTATTTTG
Found at i:661632 original size:20 final size:21
Alignment explanation
Indices: 661609--661647 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
661599 CAAATTAATA
661609 TGTATCGATAC-TTCTAGGCT
1 TGTATCGATACTTTCTAGGCT
661629 TGTATCGATACTTTCTAGG
1 TGTATCGATACTTTCTAGG
661648 GTTTTGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.41
Consensus pattern (21 bp):
TGTATCGATACTTTCTAGGCT
Found at i:663623 original size:32 final size:32
Alignment explanation
Indices: 663582--663682 Score: 157
Period size: 32 Copynumber: 3.2 Consensus size: 32
663572 CAACGATTTT
* *
663582 TATCGATACATAAGTGTTGTATTGATACAAGG
1 TATCGATACATAAGTGTTGTATCGATACAATG
*
663614 TATCGATACATAAGTGTTTTATCGATACAATG
1 TATCGATACATAAGTGTTGTATCGATACAATG
* *
663646 TATCGATACATAAATTTTGTATCGATACAATG
1 TATCGATACATAAGTGTTGTATCGATACAATG
663678 TATCG
1 TATCG
663683 CTACGAAGCT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 63 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.37
Consensus pattern (32 bp):
TATCGATACATAAGTGTTGTATCGATACAATG
Found at i:663638 original size:19 final size:19
Alignment explanation
Indices: 663579--663642 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
663569 TTTCAACGAT
663579 TTTTATCGATACATAAGTG
1 TTTTATCGATACATAAGTG
* *
663598 TTGTATTGATAC--AAG-G
1 TTTTATCGATACATAAGTG
663614 ---TATCGATACATAAGTG
1 TTTTATCGATACATAAGTG
663630 TTTTATCGATACA
1 TTTTATCGATACA
663643 ATGTATCGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
13 8 0.22
15 3 0.08
16 2 0.06
17 3 0.08
19 20 0.56
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (19 bp):
TTTTATCGATACATAAGTG
Found at i:672055 original size:63 final size:62
Alignment explanation
Indices: 671924--672170 Score: 216
Period size: 63 Copynumber: 3.9 Consensus size: 62
671914 TACCTTTTTG
* * * * * * *
671924 AAGTCCACGACTCAATGGCAATCTCTTC-TCAAAGCCCACGACTTAGTGGTAT-TTTGTC-TCA
1 AAGTCCATGACTCAGTGGC-ATCTCATCTTCAAAGTCCACGACTCAATGGCATCTTT-TCTTCA
* *
671985 AAGTCCATGACTCAGTGGCATCATCATCTT-TAAGTCCATGACTCAATGGCATCCTTTTCTTCA
1 AAGTCCATGACTCAGTGGCATC-TCATCTTCAAAGTCCACGACTCAATGGCAT-CTTTTCTTCA
** *
672048 AAGTCCATGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCA
1 AAGTCCATGACTCAGTGGCATCTCATCTTCAAAGTCCACGACTCAATGGCATCTTTTCTTCA
* * * * * *
672110 AAGTCCACGACGCCGTGGCACCTTTTTC-TCTTCAAAGTCCACAACTCTATGGCACTCTTTT
1 AAGTCCATGACTCAGTGGCA----TCTCATCTTCAAAGTCCACGACTCAATGGCA-TCTTTT
672171 TAAAGCCCAC
Statistics
Matches: 153, Mismatches: 22, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
60 3 0.02
61 37 0.24
62 35 0.23
63 47 0.31
65 23 0.15
66 8 0.05
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.32
Consensus pattern (62 bp):
AAGTCCATGACTCAGTGGCATCTCATCTTCAAAGTCCACGACTCAATGGCATCTTTTCTTCA
Found at i:672137 original size:94 final size:92
Alignment explanation
Indices: 671952--672226 Score: 253
Period size: 94 Copynumber: 3.0 Consensus size: 92
671942 CAATCTCTTC
* * * * *
671952 TCAAAGCCCACGACTTAGTGGTAT-TTTGTC-TCAAAGTCCATGACTCAGTGGCATCATCATCTT
1 TCAAAGTCCACGACTCAGTGGCATCTTT-TCTTCAAAGTCCACGACTCAGTGGCATC-TCTTC-T
* * **
672015 TAAGTCCATGACTCAATGGCATCC-TTTTCT
63 TAAGTCCACGACGCCGTGGCA-CCTTTTTCT
* *
672045 TCAAAGTCCATGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCA
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTCTT--
672110 AAGTCCACGACGCCGTGGCACCTTTTTCTCT
64 AAGTCCACGACGCCGTGGCACC-TTTT-TCT
* * * * *
672141 TCAAAGTCCACAACTCTA-TGGCA-CTCTTT-TT-AAAGCCCACAACTCCGTGGCAAC-CTT-TT
1 TCAAAGTCCACGACTC-AGTGGCATCT-TTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTCTT
672200 AAGTCCACGACGCCGTGGCACCTTTTT
64 AAGTCCACGACGCCGTGGCACCTTTTT
672227 TCCCTTTTAA
Statistics
Matches: 155, Mismatches: 18, Indels: 23
0.79 0.09 0.12
Matches are distributed among these distances:
88 1 0.01
89 4 0.03
90 22 0.14
92 4 0.03
93 29 0.19
94 62 0.40
95 7 0.05
96 25 0.16
97 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.31
Consensus pattern (92 bp):
TCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTCTTAA
GTCCACGACGCCGTGGCACCTTTTTCT
Found at i:672147 original size:34 final size:31
Alignment explanation
Indices: 671924--672170 Score: 234
Period size: 31 Copynumber: 7.8 Consensus size: 31
671914 TACCTTTTTG
* *
671924 AAGTCCACGACTCAATGGCAATCTCTTC-TCA
1 AAGTCCACGACTCAGTGGC-ATCTTTTCTTCA
* * *
671955 AAGCCCACGACTTAGTGGTAT-TTTGTC-TCA
1 AAGTCCACGACTCAGTGGCATCTTT-TCTTCA
* ** *
671985 AAGTCCATGACTCAGTGGCATCATCATCTT-T
1 AAGTCCACGACTCAGTGGCATC-TTTTCTTCA
* *
672016 AAGTCCATGACTCAATGGCATCCTTTTCTTCA
1 AAGTCCACGACTCAGTGGCAT-CTTTTCTTCA
*
672048 AAGTCCATGACTCAGTGGCATCTTTTCTTCA
1 AAGTCCACGACTCAGTGGCATCTTTTCTTCA
672079 AAGTCCACGACTCAGTGGCATCTTTTCTTCA
1 AAGTCCACGACTCAGTGGCATCTTTTCTTCA
* * *
672110 AAGTCCACGACGCCGTGGCACCTTTTTCTCTTCA
1 AAGTCCACGACTCAGTGGCA--TCTTT-TCTTCA
*
672144 AAGTCCACAACTCTA-TGGCACTCTTTT
1 AAGTCCACGACTC-AGTGGCA-TCTTTT
672171 TAAAGCCCAC
Statistics
Matches: 181, Mismatches: 25, Indels: 19
0.80 0.11 0.08
Matches are distributed among these distances:
29 2 0.01
30 24 0.13
31 100 0.55
32 24 0.13
33 9 0.05
34 22 0.12
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.32
Consensus pattern (31 bp):
AAGTCCACGACTCAGTGGCATCTTTTCTTCA
Found at i:672226 original size:27 final size:28
Alignment explanation
Indices: 672159--672226 Score: 77
Period size: 27 Copynumber: 2.4 Consensus size: 28
672149 CACAACTCTA
*
672159 TGGCACTCTTTTTAAAGCCCACAACTCCG
1 TGGCAC-CTTTTTAAAGCCCACAACGCCG
* *
672188 TGGCAACC-TTTT-AAGTCCACGACGCCG
1 TGGC-ACCTTTTTAAAGCCCACAACGCCG
672215 TGGCACCTTTTT
1 TGGCACCTTTTT
672227 TCCCTTTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
26 3 0.09
27 20 0.59
28 4 0.12
29 5 0.15
30 2 0.06
ACGTcount: A:0.21, C:0.32, G:0.18, T:0.29
Consensus pattern (28 bp):
TGGCACCTTTTTAAAGCCCACAACGCCG
Found at i:672251 original size:35 final size:36
Alignment explanation
Indices: 672194--672262 Score: 97
Period size: 35 Copynumber: 1.9 Consensus size: 36
672184 TCCGTGGCAA
*
672194 CCTTTTAAGTCCACGACGCCGTGGCAC-CTTTTTTC
1 CCTTTTAAGTCCACAACGCCGTGGCACTCTTTTTTC
*
672229 CCTTTTAAG-CCTACAACTCCGTGGCACTCTTTTT
1 CCTTTTAAGTCC-ACAACGCCGTGGCACTCTTTTT
672263 AAAGCCCATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
34 2 0.07
35 22 0.73
36 6 0.20
ACGTcount: A:0.16, C:0.33, G:0.14, T:0.36
Consensus pattern (36 bp):
CCTTTTAAGTCCACAACGCCGTGGCACTCTTTTTTC
Found at i:672264 original size:91 final size:91
Alignment explanation
Indices: 672110--672346 Score: 336
Period size: 91 Copynumber: 2.6 Consensus size: 91
672100 CTTTTCTTCA
* ** **
672110 AAGTCCACGACGCCGTGGCACC-TTTTTCTCTTCAAAGTCCACAACTCTATGGCACTCTTTTTAA
1 AAGTCCACGACGCCGTGGCACCTTTTTTCCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTTAA
*
672174 AGCCCACAACTCCGTGGCAACCTTTT
66 AGCCCACAACTCCGTGACAACCTTTT
672200 AAGTCCACGACGCCGTGGCACCTTTTTTCCCTTTTAAG-CCTACAACTCCGTGGCACTCTTTTTA
1 AAGTCCACGACGCCGTGGCACCTTTTTTCCCTTTTAAGTCC-ACAACTCCGTGGCACTCTTTTTA
* * *
672264 AAGCCCATAACTCTGTGACACCCTTTT
65 AAGCCCACAACTCCGTGACAACCTTTT
* *
672291 AAGTCCACGACTCCGTGACACCCTTTTTT-CCTTTTAAGTCCACAACTCCGTGGCAC
1 AAGTCCACGACGCCGTGGCA-CCTTTTTTCCCTTTTAAGTCCACAACTCCGTGGCAC
672347 CCTTGTTCCT
Statistics
Matches: 132, Mismatches: 11, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
90 24 0.18
91 98 0.74
92 10 0.08
ACGTcount: A:0.22, C:0.34, G:0.14, T:0.30
Consensus pattern (91 bp):
AAGTCCACGACGCCGTGGCACCTTTTTTCCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTTAA
AGCCCACAACTCCGTGACAACCTTTT
Found at i:672308 original size:27 final size:26
Alignment explanation
Indices: 672228--672317 Score: 90
Period size: 27 Copynumber: 3.3 Consensus size: 26
672218 CACCTTTTTT
*
672228 CCCTTTTAAGCCTACAACTCCGTGGCA
1 CCCTTTTAAGCC-ACAACTCCGTGACA
* * *
672255 CTCTTTTTAAAGCCCATAACTCTGTGACA
1 C-CCTTTT-AAG-CCACAACTCCGTGACA
*
672284 CCCTTTTAAGTCCACGACTCCGTGACA
1 CCCTTTTAAG-CCACAACTCCGTGACA
672311 CCCTTTT
1 CCCTTTT
672318 TTCCTTTTAA
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
27 24 0.47
28 10 0.20
29 15 0.29
30 2 0.04
ACGTcount: A:0.22, C:0.34, G:0.12, T:0.31
Consensus pattern (26 bp):
CCCTTTTAAGCCACAACTCCGTGACA
Found at i:672331 original size:35 final size:34
Alignment explanation
Indices: 672285--672449 Score: 249
Period size: 35 Copynumber: 4.8 Consensus size: 34
672275 TCTGTGACAC
* * *
672285 CCTTTTAAGTCCACGACTCCGTGACACCCTTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCC-TTGTT
672320 CCTTTTAAGTCCACAACTCCGTGGCACCCTTGTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTGTT
672354 CCTTTTTAAGTCCACAACTCCGTGGCACCCTTGTT
1 CC-TTTTAAGTCCACAACTCCGTGGCACCCTTGTT
* * *
672389 CCTTTTTAAGTCCACAACTCTGTGGCAGCTTTGTT
1 CC-TTTTAAGTCCACAACTCCGTGGCACCCTTGTT
672424 CCTTTTAAGTCCACAACTCCGTGGCA
1 CCTTTTAAGTCCACAACTCCGTGGCA
672450 TCTTTCTCCT
Statistics
Matches: 122, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
34 29 0.24
35 93 0.76
ACGTcount: A:0.18, C:0.33, G:0.15, T:0.35
Consensus pattern (34 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCCTTGTT
Found at i:672647 original size:48 final size:48
Alignment explanation
Indices: 672575--672958 Score: 525
Period size: 48 Copynumber: 7.9 Consensus size: 48
672565 GTGGCATCTT
** *
672575 CTTTAAGTCCAATGCAGCTGGCCTTGAATCAGCACATTAGCACCTCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCAC
* * * * *
672623 CTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC-TCAC
*
672672 CTTTAAGTCCAATATAGCTGGCCTTGACTCAGCACATTGGCACCTCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCAC
* * *
672720 CTTTAAGTCCAATATAGCTGGCCTTAAATCAGCATATTGGCACCTTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC-TCAC
* * *
672769 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTAGCACCTCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCAC
* * * *
672817 TTTTAAGTCCAATATAGCTGGCCTTGAATTAGCATATTGGCACCTTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC-TCAC
*
672866 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCAC
* * * *
672914 CTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATAGTGGCACCT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCT
672959 TCGTCATCTT
Statistics
Matches: 292, Mismatches: 41, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
48 165 0.57
49 127 0.43
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (48 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCAC
Found at i:672744 original size:97 final size:97
Alignment explanation
Indices: 672574--672960 Score: 639
Period size: 97 Copynumber: 4.0 Consensus size: 97
672564 GGTGGCATCT
* *
672574 TCTTTAAGTCCAATGCAGCTGGCCTTGAATCAGCACATTAGCACCTCACCTTTAAGTCCAATATC
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTAGCACCTCACCTTTAAGTCCAATATA
* *
672639 GCTAGCCTTGAATCAGCATATTGGCACCTTTA
66 GCTGGCCTTGAATCAGCATATTGGCACCTTCA
* * *
672671 TCTTTAAGTCCAATATAGCTGGCCTTGACTCAGCACATTGGCACCTCACCTTTAAGTCCAATATA
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTAGCACCTCACCTTTAAGTCCAATATA
*
672736 GCTGGCCTTAAATCAGCATATTGGCACCTTCA
66 GCTGGCCTTGAATCAGCATATTGGCACCTTCA
* *
672768 TCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTAGCACCTCACTTTTAAGTCCAATATA
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTAGCACCTCACCTTTAAGTCCAATATA
*
672833 GCTGGCCTTGAATTAGCATATTGGCACCTTCA
66 GCTGGCCTTGAATCAGCATATTGGCACCTTCA
* * *
672865 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCTAATATC
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTAGCACCTCACCTTTAAGTCCAATATA
*
672930 GCTGGCCTTGAATCAGCATAGTGGCACCTTC
66 GCTGGCCTTGAATCAGCATATTGGCACCTTC
672961 GTCATCTTTA
Statistics
Matches: 270, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
97 270 1.00
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (97 bp):
TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTAGCACCTCACCTTTAAGTCCAATATA
GCTGGCCTTGAATCAGCATATTGGCACCTTCA
Found at i:675629 original size:10 final size:10
Alignment explanation
Indices: 675614--675647 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
675604 GTAATGATGT
675614 AAATTTGAAG
1 AAATTTGAAG
*
675624 AAATTTGAAA
1 AAATTTGAAG
675634 AAGATTTGAAG
1 AA-ATTTGAAG
675645 AAA
1 AAA
675648 AAAAGATTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.56, C:0.00, G:0.18, T:0.26
Consensus pattern (10 bp):
AAATTTGAAG
Found at i:679736 original size:21 final size:21
Alignment explanation
Indices: 679712--679758 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
679702 ATTCAATTGT
*
679712 TTTTCTAATTTGACCAA-TTTC
1 TTTTCTAATTCGA-CAATTTTC
* *
679733 TTTTTTAGTTCGACAATTTTC
1 TTTTCTAATTCGACAATTTTC
679754 TTTTC
1 TTTTC
679759 AAGAATTTCA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.19, C:0.17, G:0.06, T:0.57
Consensus pattern (21 bp):
TTTTCTAATTCGACAATTTTC
Found at i:679765 original size:15 final size:16
Alignment explanation
Indices: 679745--679782 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
679735 TTTTAGTTCG
679745 ACAATTTTC-TTTTCA
1 ACAATTTTCATTTTCA
*
679760 AGAA-TTTCATTTTCA
1 ACAATTTTCATTTTCA
679775 ACAATTTT
1 ACAATTTT
679783 TGATTTATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
14 4 0.21
15 12 0.63
16 3 0.16
ACGTcount: A:0.32, C:0.16, G:0.03, T:0.50
Consensus pattern (16 bp):
ACAATTTTCATTTTCA
Found at i:680218 original size:3 final size:3
Alignment explanation
Indices: 680210--680249 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
680200 CGAGTCAACT
* *
680210 TCA TCA TCA TCA TCA TCA TCA TCA TCA TTA TCA TCT TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
680250 TATCTTTGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.40
Consensus pattern (3 bp):
TCA
Found at i:684691 original size:8 final size:8
Alignment explanation
Indices: 684680--684707 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
684670 TTTTTAACAT
684680 GTTAAAGA
1 GTTAAAGA
684688 GTTAAAGA
1 GTTAAAGA
684696 GTTAAAGA
1 GTTAAAGA
684704 GTTA
1 GTTA
684708 GGCACGATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.25, T:0.29
Consensus pattern (8 bp):
GTTAAAGA
Found at i:685075 original size:38 final size:38
Alignment explanation
Indices: 685033--685113 Score: 162
Period size: 38 Copynumber: 2.1 Consensus size: 38
685023 AGATGTTTTT
685033 AAATGACTTTTCAATTAAATAGTTGTGTTTGAGATGAA
1 AAATGACTTTTCAATTAAATAGTTGTGTTTGAGATGAA
685071 AAATGACTTTTCAATTAAATAGTTGTGTTTGAGATGAA
1 AAATGACTTTTCAATTAAATAGTTGTGTTTGAGATGAA
685109 AAATG
1 AAATG
685114 GTCGTCTTTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.38
Consensus pattern (38 bp):
AAATGACTTTTCAATTAAATAGTTGTGTTTGAGATGAA
Found at i:685409 original size:15 final size:15
Alignment explanation
Indices: 685389--685422 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
685379 GTAGGAAAAG
*
685389 AAAAGAGAAAAGAAA
1 AAAAGAAAAAAGAAA
685404 AAAAGAAAAAAGAAA
1 AAAAGAAAAAAGAAA
685419 AAAA
1 AAAA
685423 AAATAAAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAAGAAA
Found at i:685409 original size:20 final size:19
Alignment explanation
Indices: 685384--685425 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
685374 TTTAAGTAGG
*
685384 AAAAGAAAAGAGAAAAGAAA
1 AAAAGAAAAAAGAAAA-AAA
685404 AAAAGAAAAAAGAAAAAAA
1 AAAAGAAAAAAGAAAAAAA
685423 AAA
1 AAA
685426 TAAAAGCAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (19 bp):
AAAAGAAAAAAGAAAAAAA
Found at i:685430 original size:7 final size:7
Alignment explanation
Indices: 685384--685425 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
685374 TTTAAGTAGG
685384 AAAAGAA
1 AAAAGAA
*
685391 AAGAGAA
1 AAAAGAA
*
685398 AAGA-AA
1 AAAAGAA
685404 AAAAGAA
1 AAAAGAA
685411 AAAAGAA
1 AAAAGAA
685418 AAAA-AA
1 AAAAGAA
685424 AA
1 AA
685426 TAAAAGCAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
6 9 0.28
7 23 0.72
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:694877 original size:32 final size:34
Alignment explanation
Indices: 694841--694908 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 34
694831 TATCCTTTTC
694841 AACAAGTC-AAAAA-TTAAAATTGTATCTTTCTA
1 AACAAGTCAAAAAAGTTAAAATTGTATCTTTCTA
**
694873 AACAAGTCAAAAAAGTTAAGCTTGTATCTTTCTA
1 AACAAGTCAAAAAAGTTAAAATTGTATCTTTCTA
694907 AA
1 AA
694909 TAGTGTCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 8 0.25
33 5 0.16
34 19 0.59
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.32
Consensus pattern (34 bp):
AACAAGTCAAAAAAGTTAAAATTGTATCTTTCTA
Found at i:700099 original size:14 final size:14
Alignment explanation
Indices: 700061--700105 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
700051 TTAGATTTTA
700061 TTAAAATGTAATATT
1 TTAAAATGTAAT-TT
**
700076 TTTTAA-GTAATTT
1 TTAAAATGTAATTT
700089 TTAAAATGTAATTT
1 TTAAAATGTAATTT
700103 TTA
1 TTA
700106 TATTGATTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
13 6 0.24
14 15 0.60
15 4 0.16
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (14 bp):
TTAAAATGTAATTT
Found at i:702321 original size:2 final size:2
Alignment explanation
Indices: 702314--702362 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
702304 TTTTATAAAT
702314 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
702356 TA TA TA T
1 TA TA TA T
702363 CAGGAATGGG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:704287 original size:18 final size:20
Alignment explanation
Indices: 704248--704292 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 20
704238 ATTATATCAG
704248 TTATATTTAAATAAATTATA
1 TTATATTTAAATAAATTATA
*
704268 TTATATTT-ATTAAA-TATA
1 TTATATTTAAATAAATTATA
704286 TTATATT
1 TTATATT
704293 CATATTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 11 0.46
19 5 0.21
20 8 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTATATTTAAATAAATTATA
Found at i:704288 original size:23 final size:24
Alignment explanation
Indices: 704254--704298 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
704244 TCAGTTATAT
704254 TTAAATAAATTATATT-ATATTTA
1 TTAAATAAATTATATTCATATTTA
*
704277 TTAAATATATTATATTCATATT
1 TTAAATAAATTATATTCATATT
704299 AAAAATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (24 bp):
TTAAATAAATTATATTCATATTTA
Found at i:707892 original size:13 final size:13
Alignment explanation
Indices: 707874--707952 Score: 52
Period size: 13 Copynumber: 5.7 Consensus size: 13
707864 TTTTAAAAGA
707874 TAAAAAATTATTT
1 TAAAAAATTATTT
707887 TAAAAAATT-TTAT
1 TAAAAAATTATT-T
707900 GTATGAAAAATTATTT
1 -TA--AAAAATTATTT
* * *
707916 TTAATAATCATTT
1 TAAAAAATTATTT
**
707929 TTTAAAATTATGTT
1 TAAAAAATTAT-TT
707943 TATAAAAATT
1 TA-AAAAATT
707953 TTGATAATTA
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
12 2 0.04
13 27 0.53
14 5 0.10
15 7 0.14
16 8 0.16
17 2 0.04
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (13 bp):
TAAAAAATTATTT
Found at i:711047 original size:2 final size:2
Alignment explanation
Indices: 711040--711096 Score: 78
Period size: 2 Copynumber: 28.5 Consensus size: 2
711030 CGTTAGATGC
* * *
711040 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CT AT GT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
711082 GT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
711097 GTAAGGTGTT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:711239 original size:20 final size:21
Alignment explanation
Indices: 711204--711245 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
711194 CTTAAACTTG
711204 ATATAAAATATGATCTTTTAA
1 ATATAAAATATGATCTTTTAA
*
711225 ATATATAAT-TGATCTTTTAA
1 ATATAAAATATGATCTTTTAA
711245 A
1 A
711246 AAATAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (21 bp):
ATATAAAATATGATCTTTTAA
Found at i:712234 original size:31 final size:33
Alignment explanation
Indices: 712171--712236 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 33
712161 AATGAACCTC
**
712171 TTGATTACAAGATAAGATTGGTTCTTTAAAAAAT
1 TTGATTACAAGATAAGATT-GTTAATTAAAAAAT
712205 TTGATTACAAGATAAGA-T-TTAATTAAAAAAT
1 TTGATTACAAGATAAGATTGTTAATTAAAAAAT
712236 T
1 T
712237 AAAAATTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
31 12 0.40
33 1 0.03
34 17 0.57
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (33 bp):
TTGATTACAAGATAAGATTGTTAATTAAAAAAT
Found at i:713106 original size:28 final size:27
Alignment explanation
Indices: 713075--713133 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
713065 AAGAACACAT
*
713075 TTTTGAATAAGTTAAGGATTTAAAAACA
1 TTTTG-ATAAGTTAAAGATTTAAAAACA
* *
713103 TTTTGGTAAGTTAAAGATTTAAAAATA
1 TTTTGATAAGTTAAAGATTTAAAAACA
713130 TTTT
1 TTTT
713134 AGTATTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 23 0.82
28 5 0.18
ACGTcount: A:0.42, C:0.02, G:0.14, T:0.42
Consensus pattern (27 bp):
TTTTGATAAGTTAAAGATTTAAAAACA
Found at i:713115 original size:27 final size:27
Alignment explanation
Indices: 713082--713133 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
713072 CATTTTTGAA
*
713082 TAAGTTAAGGATTTAAAAACATTTTGG
1 TAAGTTAAAGATTTAAAAACATTTTGG
*
713109 TAAGTTAAAGATTTAAAAATATTTT
1 TAAGTTAAAGATTTAAAAACATTTT
713134 AGTATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.44, C:0.02, G:0.13, T:0.40
Consensus pattern (27 bp):
TAAGTTAAAGATTTAAAAACATTTTGG
Found at i:717121 original size:10 final size:10
Alignment explanation
Indices: 717106--717145 Score: 53
Period size: 10 Copynumber: 3.7 Consensus size: 10
717096 TGAATTTTCA
717106 AAAAAAAAAG
1 AAAAAAAAAG
717116 AAAAAAAAAG
1 AAAAAAAAAG
717126 AAAATGAAAAATG
1 AAAA--AAAAA-G
717139 AAAAAAA
1 AAAAAAA
717146 TGAAATGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 14 0.52
11 3 0.11
12 5 0.19
13 5 0.19
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.05
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:717541 original size:7 final size:7
Alignment explanation
Indices: 717529--717568 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
717519 TTAGGATAAG
717529 AAGAAAA
1 AAGAAAA
717536 AAG--AA
1 AAGAAAA
717541 AAGAAAA
1 AAGAAAA
717548 AAG-AAA
1 AAGAAAA
717554 AAGAAAGA
1 AAGAAA-A
717562 AAGAAAA
1 AAGAAAA
717569 CAGCAAAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
5 5 0.17
6 6 0.21
7 11 0.38
8 7 0.24
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:717546 original size:12 final size:12
Alignment explanation
Indices: 717529--717568 Score: 62
Period size: 13 Copynumber: 3.2 Consensus size: 12
717519 TTAGGATAAG
717529 AAGAAAAAAGAA
1 AAGAAAAAAGAA
717541 AAGAAAAAAGAAA
1 AAGAAAAAAG-AA
717554 AAGAAAGAAAGAA
1 AAGAAA-AAAGAA
717567 AA
1 AA
717569 CAGCAAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 10 0.38
13 12 0.46
14 4 0.15
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (12 bp):
AAGAAAAAAGAA
Found at i:717551 original size:22 final size:21
Alignment explanation
Indices: 717526--717590 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
717516 TATTTAGGAT
717526 AAGAAGAAAAAAGAAAAGAAAA
1 AAGAA-AAAAAAGAAAAGAAAA
717548 AAGAAAAAGAAAG-AAAGAAAA
1 AAGAAAAA-AAAGAAAAGAAAA
* * *
717569 CAGCAAAAACAAGAAATGAAAA
1 AAG-AAAAAAAAGAAAAGAAAA
717591 GAAAAATGCA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
21 16 0.43
22 21 0.57
ACGTcount: A:0.77, C:0.05, G:0.17, T:0.02
Consensus pattern (21 bp):
AAGAAAAAAAAGAAAAGAAAA
Found at i:717566 original size:21 final size:20
Alignment explanation
Indices: 717526--717590 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 20
717516 TATTTAGGAT
717526 AAGAAGAAAAAAGAAAAGAAAA
1 AAGAA-AAAAAAG-AAAGAAAA
717548 AAGAAAAAGAAAGAAAGAAAA
1 AAGAAAAA-AAAGAAAGAAAA
* *
717569 CAGCAAAAACAAGAAATGAAAA
1 AAG-AAAAAAAAGAAA-GAAAA
717591 GAAAAATGCA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
21 19 0.50
22 19 0.50
ACGTcount: A:0.77, C:0.05, G:0.17, T:0.02
Consensus pattern (20 bp):
AAGAAAAAAAAGAAAGAAAA
Found at i:722889 original size:11 final size:11
Alignment explanation
Indices: 722869--722911 Score: 77
Period size: 11 Copynumber: 3.9 Consensus size: 11
722859 ACTAGATTAG
*
722869 GTTCATGTTTA
1 GTTCAAGTTTA
722880 GTTCAAGTTTA
1 GTTCAAGTTTA
722891 GTTCAAGTTTA
1 GTTCAAGTTTA
722902 GTTCAAGTTT
1 GTTCAAGTTT
722912 CTTACTTTCC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.23, C:0.09, G:0.19, T:0.49
Consensus pattern (11 bp):
GTTCAAGTTTA
Found at i:723015 original size:81 final size:81
Alignment explanation
Indices: 722918--723074 Score: 219
Period size: 81 Copynumber: 1.9 Consensus size: 81
722908 GTTTCTTACT
* * * * *
722918 TTCCGTAGAAATCAAGTCTTTTAGGCTTAGG-TTAGTGCTTTAC-GTTGAGATCGAGTCTAGTTT
1 TTCCGTAGAAACCAAGTCTTGTAAGCTTAGGTTTA-TACTTTACAG-CGAGATCGAGTCTAGTTT
722981 TAATTTAGGTTTCCTATG
64 TAATTTAGGTTTCCTATG
* *
722999 TTCCTTAGAAACCAAGTCTTGTAAGCTTAGGTTTATACTTTCCAGCGAGATCGAGTCTAGTTTTA
1 TTCCGTAGAAACCAAGTCTTGTAAGCTTAGGTTTATACTTTACAGCGAGATCGAGTCTAGTTTTA
723064 ATTTAGGTTTC
66 ATTTAGGTTTC
723075 TTACCTTTTG
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
81 63 0.94
82 4 0.06
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (81 bp):
TTCCGTAGAAACCAAGTCTTGTAAGCTTAGGTTTATACTTTACAGCGAGATCGAGTCTAGTTTTA
ATTTAGGTTTCCTATG
Found at i:724868 original size:25 final size:25
Alignment explanation
Indices: 724840--724892 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
724830 ACCTATTTGA
724840 TTCATTTATAACTTAATTATTTTCT
1 TTCATTTATAACTTAATTATTTTCT
** *
724865 TTCATTTATAGTTTGATTATTTTCT
1 TTCATTTATAACTTAATTATTTTCT
724890 TTC
1 TTC
724893 TATGTATCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.23, C:0.11, G:0.04, T:0.62
Consensus pattern (25 bp):
TTCATTTATAACTTAATTATTTTCT
Found at i:725878 original size:17 final size:18
Alignment explanation
Indices: 725858--725894 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
725848 TATACCATTA
725858 AAATAATTTTATAT-TTT
1 AAATAATTTTATATATTT
*
725875 AAATTATTTTATATATTT
1 AAATAATTTTATATATTT
725893 AA
1 AA
725895 TGCTTCTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
AAATAATTTTATATATTT
Found at i:726367 original size:20 final size:18
Alignment explanation
Indices: 726344--726387 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 18
726334 TAAATTATTA
*
726344 AATATTATATTTAATATAAT
1 AATATTAT-TATAA-ATAAT
726364 AATATTATTATAAATAAT
1 AATATTATTATAAATAAT
726382 -ATATTA
1 AATATTA
726388 ATTAATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 6 0.26
18 5 0.22
19 4 0.17
20 8 0.35
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
AATATTATTATAAATAAT
Found at i:726381 original size:23 final size:23
Alignment explanation
Indices: 726346--726389 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
726336 AATTATTAAA
**
726346 TATTATATTTAATATAATAATAT
1 TATTATAAATAATATAATAATAT
*
726369 TATTATAAATAATATATTAAT
1 TATTATAAATAATATAATAAT
726390 TAATTTAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TATTATAAATAATATAATAATAT
Found at i:728700 original size:3 final size:3
Alignment explanation
Indices: 728694--728728 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
728684 GTTTTTTTTT
728694 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
728729 CTTGGAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:728871 original size:23 final size:23
Alignment explanation
Indices: 728804--728872 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 23
728794 TTAAATATAA
*
728804 TATTTATTAAATATATTATA-TC
1 TATTTATTAAATATATTATATTT
* *
728826 AATTATATTTAAA-AAATTATATTT
1 TATT-TA-TTAAATATATTATATTT
728850 TATTTATTAAATATATTATATTT
1 TATTTATTAAATATATTATATTT
728873 ATGTTAAACT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
22 8 0.21
23 21 0.55
24 9 0.24
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (23 bp):
TATTTATTAAATATATTATATTT
Found at i:732203 original size:34 final size:34
Alignment explanation
Indices: 732164--732254 Score: 173
Period size: 34 Copynumber: 2.7 Consensus size: 34
732154 TATATACATG
732164 TTAACACACCTAACATTCTCACCAAATACATCAC
1 TTAACACACCTAACATTCTCACCAAATACATCAC
732198 TTAACACACCTAACATTCTCACCAAATACATCAC
1 TTAACACACCTAACATTCTCACCAAATACATCAC
*
732232 CTAACACACCTAACATTCTCACC
1 TTAACACACCTAACATTCTCACC
732255 TAACACACCT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 56 1.00
ACGTcount: A:0.40, C:0.37, G:0.00, T:0.23
Consensus pattern (34 bp):
TTAACACACCTAACATTCTCACCAAATACATCAC
Found at i:732256 original size:22 final size:22
Alignment explanation
Indices: 732228--732283 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
732218 ACCAAATACA
732228 TCACCTAACACACCTAACATTC
1 TCACCTAACACACCTAACATTC
*
732250 TCACCTAACACACCTAATATTC
1 TCACCTAACACACCTAACATTC
*
732272 TCACCAAACACA
1 TCACCTAACACA
732284 TCACCTAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.21
Consensus pattern (22 bp):
TCACCTAACACACCTAACATTC
Found at i:732263 original size:56 final size:56
Alignment explanation
Indices: 732194--732310 Score: 207
Period size: 56 Copynumber: 2.1 Consensus size: 56
732184 ACCAAATACA
* *
732194 TCACTTAACACACCTAACATTCTCACCAAATACATCACCTAACACACCTAACATTC
1 TCACCTAACACACCTAACATTCTCACCAAACACATCACCTAACACACCTAACATTC
*
732250 TCACCTAACACACCTAATATTCTCACCAAACACATCACCTAACACACCTAACATTC
1 TCACCTAACACACCTAACATTCTCACCAAACACATCACCTAACACACCTAACATTC
732306 TCACC
1 TCACC
732311 AAATACATCA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.38, C:0.39, G:0.00, T:0.22
Consensus pattern (56 bp):
TCACCTAACACACCTAACATTCTCACCAAACACATCACCTAACACACCTAACATTC
Found at i:732290 original size:34 final size:34
Alignment explanation
Indices: 732250--732352 Score: 188
Period size: 34 Copynumber: 3.0 Consensus size: 34
732240 CCTAACATTC
* *
732250 TCACCTAACACACCTAATATTCTCACCAAACACA
1 TCACCTAACACACCTAACATTCTCACCAAATACA
732284 TCACCTAACACACCTAACATTCTCACCAAATACA
1 TCACCTAACACACCTAACATTCTCACCAAATACA
732318 TCACCTAACACACCTAACATTCTCACCAAATACA
1 TCACCTAACACACCTAACATTCTCACCAAATACA
732352 T
1 T
732353 TTAACAAAGA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 67 1.00
ACGTcount: A:0.41, C:0.38, G:0.00, T:0.21
Consensus pattern (34 bp):
TCACCTAACACACCTAACATTCTCACCAAATACA
Found at i:732318 original size:90 final size:90
Alignment explanation
Indices: 732165--732344 Score: 333
Period size: 90 Copynumber: 2.0 Consensus size: 90
732155 ATATACATGT
* *
732165 TAACACACCTAACATTCTCACCAAATACATCACTTAACACACCTAACATTCTCACCAAATACATC
1 TAACACACCTAACATTCTCACCAAACACATCACCTAACACACCTAACATTCTCACCAAATACATC
732230 ACCTAACACACCTAACATTCTCACC
66 ACCTAACACACCTAACATTCTCACC
*
732255 TAACACACCTAATATTCTCACCAAACACATCACCTAACACACCTAACATTCTCACCAAATACATC
1 TAACACACCTAACATTCTCACCAAACACATCACCTAACACACCTAACATTCTCACCAAATACATC
732320 ACCTAACACACCTAACATTCTCACC
66 ACCTAACACACCTAACATTCTCACC
732345 AAATACATTT
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
90 87 1.00
ACGTcount: A:0.40, C:0.38, G:0.00, T:0.22
Consensus pattern (90 bp):
TAACACACCTAACATTCTCACCAAACACATCACCTAACACACCTAACATTCTCACCAAATACATC
ACCTAACACACCTAACATTCTCACC
Found at i:737082 original size:13 final size:13
Alignment explanation
Indices: 737030--737085 Score: 52
Period size: 13 Copynumber: 4.7 Consensus size: 13
737020 CATGTTAACA
737030 CACCTAACATTCT
1 CACCTAACATTCT
*
737043 CACC-AA-ATACAT
1 CACCTAACATTC-T
737055 CACCTAACA----
1 CACCTAACATTCT
737064 CACCTAACATTCT
1 CACCTAACATTCT
737077 CACCTAACA
1 CACCTAACA
737086 CACCTAATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 14
0.70 0.02 0.28
Matches are distributed among these distances:
9 9 0.26
11 3 0.09
12 7 0.20
13 15 0.43
14 1 0.03
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.21
Consensus pattern (13 bp):
CACCTAACATTCT
Found at i:737082 original size:22 final size:22
Alignment explanation
Indices: 737054--737109 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
737044 ACCAAATACA
737054 TCACCTAACACACCTAACATTC
1 TCACCTAACACACCTAACATTC
*
737076 TCACCTAACACACCTAATATTC
1 TCACCTAACACACCTAACATTC
*
737098 TCACCAAACACA
1 TCACCTAACACA
737110 TCACCTAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.21
Consensus pattern (22 bp):
TCACCTAACACACCTAACATTC
Found at i:737111 original size:56 final size:56
Alignment explanation
Indices: 737025--737136 Score: 197
Period size: 56 Copynumber: 2.0 Consensus size: 56
737015 ATATACATGT
*
737025 TAACACACCTAACATTCTCACCAAATACATCACCTAACACACCTAACATTCTCACC
1 TAACACACCTAACATTCTCACCAAACACATCACCTAACACACCTAACATTCTCACC
* *
737081 TAACACACCTAATATTCTCACCAAACACATCACCTAACACACCTAATATTCTCACC
1 TAACACACCTAACATTCTCACCAAACACATCACCTAACACACCTAACATTCTCACC
737137 AAATACATCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.39, C:0.38, G:0.00, T:0.22
Consensus pattern (56 bp):
TAACACACCTAACATTCTCACCAAACACATCACCTAACACACCTAACATTCTCACC
Found at i:737116 original size:34 final size:34
Alignment explanation
Indices: 737076--737178 Score: 179
Period size: 34 Copynumber: 3.0 Consensus size: 34
737066 CCTAACATTC
*
737076 TCACCTAACACACCTAATATTCTCACCAAACACA
1 TCACCTAACACACCTAATATTCTCACCAAATACA
737110 TCACCTAACACACCTAATATTCTCACCAAATACA
1 TCACCTAACACACCTAATATTCTCACCAAATACA
* *
737144 TCACCTAACACATCTAACATTCTCACCAAATACA
1 TCACCTAACACACCTAATATTCTCACCAAATACA
737178 T
1 T
737179 TTAACAAAGA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 66 1.00
ACGTcount: A:0.41, C:0.36, G:0.00, T:0.23
Consensus pattern (34 bp):
TCACCTAACACACCTAATATTCTCACCAAATACA
Found at i:738039 original size:46 final size:46
Alignment explanation
Indices: 737970--738066 Score: 158
Period size: 46 Copynumber: 2.1 Consensus size: 46
737960 TTTAGATTCA
* *
737970 GGAAATCTTGTTTTGCTTCAGAATGAAGCCAAAAGGGCGGTGTTGT
1 GGAAATCTTGTTTTGCTTCAGAATGAAGCCAAAAGGGCGGTATCGT
* *
738016 GGAAATCTTGTTTTGCTTTAGAATGATGCCAAAAGGGCGGTATCGT
1 GGAAATCTTGTTTTGCTTCAGAATGAAGCCAAAAGGGCGGTATCGT
738062 GGAAA
1 GGAAA
738067 AGTTTTGATT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.28, C:0.12, G:0.30, T:0.30
Consensus pattern (46 bp):
GGAAATCTTGTTTTGCTTCAGAATGAAGCCAAAAGGGCGGTATCGT
Found at i:738702 original size:21 final size:22
Alignment explanation
Indices: 738659--738705 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
738649 AAATATTATT
*
738659 TTTTATATTAATATTTATAAAA
1 TTTTATATTAATATTTAAAAAA
738681 TTTTA-ATTAA-ATTTAAATAAA
1 TTTTATATTAATATTTAAA-AAA
738702 TTTT
1 TTTT
738706 TTTATTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 6 0.26
21 12 0.52
22 5 0.22
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTTATATTAATATTTAAAAAA
Found at i:738714 original size:23 final size:21
Alignment explanation
Indices: 738656--738715 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 21
738646 TTAAAATATT
738656 ATTTTTTATATTAATATTTATAA
1 ATTTTTT-TATTAA-ATTTATAA
* *
738679 A-ATTTTAATTAAATTTAAATAA
1 ATTTTTTTATTAAATTT--ATAA
738701 ATTTTTTTATTAAAT
1 ATTTTTTTATTAAAT
738716 AAATATAATC
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
20 4 0.13
21 5 0.17
22 9 0.30
23 12 0.40
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTTTTTTATTAAATTTATAA
Found at i:739286 original size:27 final size:25
Alignment explanation
Indices: 739228--739275 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
739218 ATTTTTTAGT
*
739228 ATTTTTATTCAATATTTGTGTGATA
1 ATTTTTATCCAATATTTGTGTGATA
739253 ATTTTTATCCAATATTTGTGTGA
1 ATTTTTATCCAATATTTGTGTGA
739276 CATACATTTT
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:0.27, C:0.06, G:0.12, T:0.54
Consensus pattern (25 bp):
ATTTTTATCCAATATTTGTGTGATA
Found at i:741252 original size:2 final size:2
Alignment explanation
Indices: 741239--741276 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
741229 TCCCAAATTC
741239 AT AT AT -T A- AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
741277 GATTTGTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 3 0.09
2 30 0.91
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:742876 original size:10 final size:10
Alignment explanation
Indices: 742861--742890 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
742851 TAGATTTTTT
742861 ATTTGAATTA
1 ATTTGAATTA
*
742871 ATTTGATTTA
1 ATTTGAATTA
742881 ATTTGAATTA
1 ATTTGAATTA
742891 TTTTTTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (10 bp):
ATTTGAATTA
Found at i:742951 original size:21 final size:22
Alignment explanation
Indices: 742918--742962 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
742908 AATTTTATTT
742918 AAATTTAATTATAAAA-TATAA
1 AAATTTAATTATAAAATTATAA
742939 AAATATTAA-TATAAAATTATAA
1 AAAT-TTAATTATAAAATTATAA
742961 AA
1 AA
742963 TTAAGATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
AAATTTAATTATAAAATTATAA
Found at i:744584 original size:26 final size:26
Alignment explanation
Indices: 744532--744584 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
744522 TTATGTTAAC
* * * * *
744532 ATTTTTTTTCATATGAATTTTTTATT
1 ATTTTTTATCACATAAATATTTAATT
744558 ATTTTTTATCACATAAATATTTAATT
1 ATTTTTTATCACATAAATATTTAATT
744584 A
1 A
744585 ATAATATTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (26 bp):
ATTTTTTATCACATAAATATTTAATT
Found at i:748437 original size:21 final size:22
Alignment explanation
Indices: 748408--748453 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
748398 TGTTCAGACA
** *
748408 AGTAGTACTCCGCAGCAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
748430 AGTA-TACTCCAAAACAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
748451 AGT
1 AGT
748454 TTCAACAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (22 bp):
AGTAGTACTCCAAAACAGGTGG
Found at i:750392 original size:28 final size:27
Alignment explanation
Indices: 750337--750407 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
750327 GCCACTCATT
750337 TGTTTGTCAAAAATGGTGGTTATTTTG
1 TGTTTGTCAAAAATGGTGGTTATTTTG
750364 TGTTTGTCAAAAATGGTGGTT-TCCTTTG
1 TGTTTGTCAAAAATGGTGGTTAT--TTTG
* *
750392 TATTTGTCAAATATGG
1 TGTTTGTCAAAAATGG
750408 AGGCTTGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
26 1 0.03
27 21 0.52
28 18 0.45
ACGTcount: A:0.23, C:0.07, G:0.24, T:0.46
Consensus pattern (27 bp):
TGTTTGTCAAAAATGGTGGTTATTTTG
Found at i:760976 original size:13 final size:13
Alignment explanation
Indices: 760960--761000 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
760950 GTTCTAAGTC
760960 AAAGGAGAGTACA
1 AAAGGAGAGTACA
* *
760973 AAAGAAAAGT-CA
1 AAAGGAGAGTACA
760985 AAA-GAGAGTACA
1 AAAGGAGAGTACA
760997 AAAG
1 AAAG
761001 AAAAGAGACA
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
11 4 0.18
12 10 0.45
13 8 0.36
ACGTcount: A:0.61, C:0.07, G:0.24, T:0.07
Consensus pattern (13 bp):
AAAGGAGAGTACA
Found at i:760982 original size:24 final size:24
Alignment explanation
Indices: 760955--761005 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
760945 TCAAAGTTCT
*
760955 AAGTCAAAGGAGAGTACAAAAGAA
1 AAGTCAAAAGAGAGTACAAAAGAA
760979 AAGTCAAAAGAGAGTACAAAAGAA
1 AAGTCAAAAGAGAGTACAAAAGAA
761003 AAG
1 AAG
761006 AGACAACTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.61, C:0.08, G:0.24, T:0.08
Consensus pattern (24 bp):
AAGTCAAAAGAGAGTACAAAAGAA
Found at i:760986 original size:12 final size:13
Alignment explanation
Indices: 760967--761005 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 13
760957 GTCAAAGGAG
760967 AGTACAAAAGAAA
1 AGTACAAAAGAAA
*
760980 AGT-CAAAAG-AG
1 AGTACAAAAGAAA
760991 AGTACAAAAGAAA
1 AGTACAAAAGAAA
761004 AG
1 AG
761006 AGACAACTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 4 0.18
12 12 0.55
13 6 0.27
ACGTcount: A:0.64, C:0.08, G:0.21, T:0.08
Consensus pattern (13 bp):
AGTACAAAAGAAA
Found at i:777343 original size:20 final size:20
Alignment explanation
Indices: 777290--777353 Score: 60
Period size: 20 Copynumber: 3.0 Consensus size: 20
777280 ATCGATATAA
777290 TGAGAAATGTATCTATACAATT
1 TGAG-AATGTATCTATAC-ATT
*
777312 GTGAGCATGTATCTATACATT
1 -TGAGAATGTATCTATACATT
777333 T-AGTAATGTAT-TGATACATT
1 TGAG-AATGTATCT-ATACATT
777353 T
1 T
777354 CCTTGATAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 3 0.08
20 15 0.41
21 3 0.08
22 12 0.32
23 4 0.11
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (20 bp):
TGAGAATGTATCTATACATT
Found at i:778852 original size:18 final size:19
Alignment explanation
Indices: 778804--778853 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
778794 AGTGAATATC
*
778804 TTTTTTAATTTATGATTTCA
1 TTTTTT-ATTTATGATGTCA
778824 TTTTCTT-TTTATG-TGTCA
1 TTTT-TTATTTATGATGTCA
778842 TTTTTTATTTAT
1 TTTTTTATTTAT
778854 TATTAATAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 2 0.07
18 13 0.48
19 6 0.22
20 4 0.15
21 2 0.07
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.70
Consensus pattern (19 bp):
TTTTTTATTTATGATGTCA
Found at i:780125 original size:31 final size:30
Alignment explanation
Indices: 780090--780157 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
780080 ATTTATCGGT
*
780090 ATTTAGAATA-AATATTTATAAATTAAGTTTG
1 ATTTA-AATATAAT-TTTATAAATTAAATTTG
* * *
780121 ATTTAAATATAATTTTTTTATTTAAATTTG
1 ATTTAAATATAATTTTATAAATTAAATTTG
780151 ATTTAAA
1 ATTTAAA
780158 AATTTTAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 24 0.75
31 8 0.25
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (30 bp):
ATTTAAATATAATTTTATAAATTAAATTTG
Found at i:780224 original size:21 final size:21
Alignment explanation
Indices: 780205--780247 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
780195 TAATTTAATT
780205 TTATATT-AA-TATTTTATAA
1 TTATATTAAATTATTTTATAA
*
780224 TTATATTAAATTATTTTATTA
1 TTATATTAAATTATTTTATAA
780245 TTA
1 TTA
780248 AATAATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.33
20 2 0.10
21 12 0.57
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTATATTAAATTATTTTATAA
Found at i:780736 original size:8 final size:8
Alignment explanation
Indices: 780712--780762 Score: 66
Period size: 8 Copynumber: 6.0 Consensus size: 8
780702 TTAAATATAT
780712 ATATAAAAA
1 ATAT-AAAA
780721 ATATTAAAA
1 ATA-TAAAA
*
780730 ATCTAAAA
1 ATATAAAA
780738 ATATAAAA
1 ATATAAAA
780746 ATATAAAA
1 ATATAAAA
780754 ATAATAAAA
1 AT-ATAAAA
780763 TTATTTTATC
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
8 22 0.58
9 15 0.39
10 1 0.03
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (8 bp):
ATATAAAA
Found at i:788956 original size:2 final size:2
Alignment explanation
Indices: 788949--788980 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
788939 TAGTTGAAGA
*
788949 AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
788981 TTACTTATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:791684 original size:22 final size:21
Alignment explanation
Indices: 791656--791697 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
791646 AAAAATAAAA
791656 ATAT-TTTTAT-ATTAATATTT
1 ATATATTTTATAATTAA-ATTT
791676 ATATATTTTATAATTAAATTT
1 ATATATTTTATAATTAAATTT
791697 A
1 A
791698 AATAAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 11 0.55
22 5 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATATATTTTATAATTAAATTT
Found at i:792148 original size:15 final size:16
Alignment explanation
Indices: 792125--792165 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
792115 AGTATTATTG
792125 TTAGAAAAAGTTTTGA
1 TTAGAAAAAGTTTTGA
*
792141 TT-GAAAAA-TTTTGG
1 TTAGAAAAAGTTTTGA
792155 TTAGAAAAAGT
1 TTAGAAAAAGT
792166 GTGATTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 7 0.32
15 12 0.55
16 3 0.14
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.37
Consensus pattern (16 bp):
TTAGAAAAAGTTTTGA
Found at i:804556 original size:15 final size:14
Alignment explanation
Indices: 804532--804581 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 14
804522 TGTAGCTGAG
804532 AATTTTTTAAATTT
1 AATTTTTTAAATTT
*
804546 AATTATTTTAAGTTT
1 AATT-TTTTAAATTT
*
804561 AAAATTTTT--ATTT
1 -AATTTTTTAAATTT
804574 AATTTTTT
1 AATTTTTT
804582 TTATTAGAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
12 7 0.23
13 3 0.10
14 4 0.13
15 13 0.43
16 3 0.10
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (14 bp):
AATTTTTTAAATTT
Found at i:804669 original size:27 final size:26
Alignment explanation
Indices: 804616--804713 Score: 83
Period size: 28 Copynumber: 3.5 Consensus size: 26
804606 GTTAAATTAA
* *
804616 TATTTT-ATATTTTTAAAAGATATAAT
1 TATTTTAATATTTTTTAAATATA-AAT
804642 TATTTTAATGATTTTTTAAATATAAAT
1 TATTTTAAT-ATTTTTTAAATATAAAT
*
804669 TATTTTAAAATTAAATTTTTTATAT-TAAAT
1 TATTTT--AA-T--ATTTTTTAAATATAAAT
804699 TATTTTAATTATTTT
1 TATTTTAA-TATTTT
804714 ATCTTAAATT
Statistics
Matches: 62, Mismatches: 4, Indels: 12
0.79 0.05 0.15
Matches are distributed among these distances:
26 11 0.18
27 11 0.18
28 16 0.26
29 2 0.03
30 12 0.19
31 10 0.16
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (26 bp):
TATTTTAATATTTTTTAAATATAAAT
Found at i:804695 original size:14 final size:15
Alignment explanation
Indices: 804655--804732 Score: 72
Period size: 14 Copynumber: 5.2 Consensus size: 15
804645 TTTAATGATT
804655 TTTTAAATATAAATTA
1 TTTTAAAT-TAAATTA
804671 TTTTAAAATTAAATT-
1 TTTT-AAATTAAATTA
*
804686 TTTTATATTAAATTA
1 TTTTAAATTAAATTA
**
804701 TTTT-AATTATTTTA
1 TTTTAAATTAAATTA
*
804715 TCTTAAATTTAAA-TA
1 TTTTAAA-TTAAATTA
804730 TTT
1 TTT
804733 AATTTTTTAT
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
14 19 0.38
15 14 0.28
16 13 0.26
17 4 0.08
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTTAAATTAAATTA
Found at i:804711 original size:17 final size:16
Alignment explanation
Indices: 804655--804707 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
804645 TTTAATGATT
804655 TTTTAA-ATATAAATTA
1 TTTTAATAT-TAAATTA
*
804671 TTTTAAAATTAAATT-
1 TTTTAATATTAAATTA
804686 TTTT-ATATTAAATTA
1 TTTTAATATTAAATTA
804701 TTTTAAT
1 TTTTAAT
804708 TATTTTATCT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
14 9 0.27
15 8 0.24
16 14 0.42
17 2 0.06
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTTAATATTAAATTA
Found at i:807030 original size:13 final size:13
Alignment explanation
Indices: 807012--807037 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
807002 TATTTACATT
807012 CGATAATCATATC
1 CGATAATCATATC
807025 CGATAATCATATC
1 CGATAATCATATC
807038 TGACACATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (13 bp):
CGATAATCATATC
Found at i:808974 original size:6 final size:7
Alignment explanation
Indices: 808957--808983 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
808947 ACATTTCTCA
808957 AAAAAAT
1 AAAAAAT
808964 AAAAAAT
1 AAAAAAT
808971 AAAAAAT
1 AAAAAAT
808978 AAAAAA
1 AAAAAA
808984 GAGAAAACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (7 bp):
AAAAAAT
Found at i:808990 original size:14 final size:14
Alignment explanation
Indices: 808957--808990 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
808947 ACATTTCTCA
*
808957 AAAAAATAAAAAAT
1 AAAAAATAAAAAAG
808971 AAAAAATAAAAAAG
1 AAAAAATAAAAAAG
808985 AGAAAA
1 A-AAAA
808991 CATTGGATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.85, C:0.00, G:0.06, T:0.09
Consensus pattern (14 bp):
AAAAAATAAAAAAG
Found at i:814594 original size:79 final size:79
Alignment explanation
Indices: 814319--815140 Score: 617
Period size: 79 Copynumber: 10.4 Consensus size: 79
814309 TTCATGTTTA
* * * * * * * *
814319 TATTTCTGAAATACCGATTTTTCACCATCAGGGATACTCTAACCCCCGTTGTTTCCGAAGG-GAT
1 TATTTCTAAAACATCGATTTTCCACAATCAGGGATACTCCAA-CCCCGTTATTTTCG-AGGAGAT
* * *
814383 AC-TCTAGCCCTAGTTT
64 ACTTCAACCCCGA-TTT
* * * *
814399 TATTT-TCAAAACA-CTGATTGTT-CACAATC-GGAGATATTCTAACCCTGTTATTTTCAAGGAG
1 TATTTCT-AAAACATC-GATT-TTCCACAATCAGG-GATACTCCAACCCCGTTATTTTCGAGGAG
814460 ATAC-TCTAACCCCGATTTT
62 ATACTTC-AACCCCGA-TTT
* ** *
814479 TATTTCTAAAACATCAATTTTCCACAATCAGGGATACTCCAACCCTTTTATTTTCGAGGTGATAC
1 TATTTCTAAAACATCGATTTTCCACAATCAGGGATACTCCAACCCCGTTATTTTCGAGGAGATAC
814544 TTCAACCCCGATTT
66 TTCAACCCCGATTT
* * * * * *
814558 TATTTCTAAAACATTGATTTTCCACCATCATGGATACTCCAACCTCATTA-TTTCTGAGGGGATA
1 TATTTCTAAAACATCGATTTTCCACAATCAGGGATACTCCAACCCCGTTATTTTC-GAGGAGATA
*
814622 C-TCTAACCCCAGTTTT
65 CTTC-AACCCC-GATTT
* * * *
814638 TATTTCTAAAAGCA---ATTTTTCACAATAAGGGATACTCTAACCCCGTTA-TTTCTGAGAAGAT
1 TATTTCTAAAA-CATCGATTTTCCACAATCAGGGATACTCCAACCCCGTTATTTTC-GAGGAGAT
* **
814699 ACTCCAACCCCGGCTT
64 ACTTCAACCCCGATTT
* * * * *
814715 TATTTCTAAAACATCAATTTTCCATAATC-GAGGATACTTCAACCCCATTATTTTCGAGG-GTGT
1 TATTTCTAAAACATCGATTTTCCACAATCAG-GGATACTCCAACCCCGTTATTTTCGAGGAG-AT
* *
814778 ACTCCAACCCCGGTTT
64 ACTTCAACCCCGATTT
* * * * *
814794 TATTTCTAAAACATTGATTTT-CACCATCGGGGATACTCCAACCACGTTA-TTTCTGAGAAGATA
1 TATTTCTAAAACATCGATTTTCCACAATCAGGGATACTCCAACCCCGTTATTTTC-GAGGAGATA
814857 CTTCAACCCCGATTTT
65 CTTCAACCCCGA-TTT
* * * * ** * * * *
814873 TATTTCTAAAAAATCAATTTTTCATAATTGGGGATATTCCAACCTCGTTATTTTTGAGGGGATAC
1 TATTTCTAAAACATCGATTTTCCACAATCAGGGATACTCCAACCCCGTTATTTTCGAGGAGATAC
* *
814938 TTTAACCCCTATTT
66 TTCAACCCCGATTT
* * * *
814952 TATTTCTAAAATACCGATTTTCCACTATCGGGGATACTCCAACCCCGTTA-TTTCTGA-GAGAAT
1 TATTTCTAAAACATCGATTTTCCACAATCAGGGATACTCCAACCCCGTTATTTTC-GAGGAG-AT
* *
815015 AC-TCAAACCCTGGTTTT
64 ACTTC-AACCC-CGATTT
* * * * *
815032 TATTTCTAAAACATCGATTTTTCATAATC-GAGAATACTTCAACCCCGTTATTTTTGAGG-GATA
1 TATTTCTAAAACATCGATTTTCCACAATCAG-GGATACTCCAACCCCGTTATTTTCGAGGAGATA
* *
815095 CTCCAACCTCGATTTT
65 CTTCAACCCCGA-TTT
* * *
815111 TATTTCTAAAACACCGATTGTCCATAATCA
1 TATTTCTAAAACATCGATTTTCCACAATCA
815141 AGGCACGGAT
Statistics
Matches: 602, Mismatches: 102, Indels: 76
0.77 0.13 0.10
Matches are distributed among these distances:
76 2 0.00
77 18 0.03
78 100 0.17
79 265 0.44
80 200 0.33
81 17 0.03
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.35
Consensus pattern (79 bp):
TATTTCTAAAACATCGATTTTCCACAATCAGGGATACTCCAACCCCGTTATTTTCGAGGAGATAC
TTCAACCCCGATTT
Found at i:814718 original size:157 final size:155
Alignment explanation
Indices: 814459--815123 Score: 696
Period size: 157 Copynumber: 4.2 Consensus size: 155
814449 TTTTCAAGGA
814459 GATACTCTAACCCCGATTTTTATTTCTAAAACATCAATTTTCCACAATCAGGGATACTCCAACCC
1 GATACTCTAACCCCG-TTTTTATTTCT-AAA-A-CAATTTTCCACAATCAGGGATACTCCAACCC
** ** * * ** **
814524 TTTTATTT-TCGAGGTGATACTTCAACCCCGATTTTATTTCTAAAACATTGATTTTCCACCATC-
62 CGTTATTTCT-GAGAAGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTCCATAATCG
* *
814587 ATGGATACTCCAACCTCATTATTTCTGAGGG
126 A-GGATACTCCAACCCCATTATTTTTGAGGG
* * *
814618 GATACTCTAACCCCAGTTTTTATTTCTAAAAGCAATTTTTCACAATAAGGGATACTCTAACCCCG
1 GATACTCTAACCCC-GTTTTTATTTCTAAAA-CAATTTTCCACAATCAGGGATACTCCAACCCCG
*
814683 TTATTTCTGAGAAGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTTCCATAATCGAGG
64 TTATTTCTGAGAAGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTCCATAATCGAGG
* *
814748 ATACTTCAACCCCATTATTTTCGAGGG
129 ATACTCCAACCCCATTATTTTTGAGGG
* * * * *
814775 TG-TACTCCAACCCCGGTTTTATTTCTAAAACATTGATTTT-CACCATCGGGGATACTCCAACCA
1 -GATACTCTAACCCCGTTTTTATTTCTAAAACA---ATTTTCCACAATCAGGGATACTCCAACCC
* * * * *
814838 CGTTATTTCTGAGAAGATACTTCAACCCCGATTTTTATTTCTAAAAAATCAATTTTTCATAATTG
62 CGTTATTTCTGAGAAGATACTCCAACCCCG-GTTTTATTTCTAAAACATCAATTTTCCATAATCG
* * * *
814903 GGGATATTCCAACCTCGTTATTTTTGAGGG
126 AGGATACTCCAACCCCATTATTTTTGAGGG
* * * *
814933 GATACTTTAACCCC-TATTTTATTTCTAAAATACCGATTTTCCACTATCGGGGATACTCCAACCC
1 GATACTCTAACCCCGT-TTTTATTTCT-AAA-A-CAATTTTCCACAATCAGGGATACTCCAACCC
* * * *
814997 CGTTATTTCTGAG-AGAATACTCAAACCCTGGTTTTTATTTCTAAAACATCGATTTTTCATAATC
62 CGTTATTTCTGAGAAG-ATACTCCAACCCCGG-TTTTATTTCTAAAACATCAATTTTCCATAATC
* * *
815061 GAGAATACTTCAACCCCGTTATTTTTGA-GG
125 GAGGATACTCCAACCCCATTATTTTTGAGGG
* *
815091 GATACTCCAACCTCGATTTTTATTTCTAAAACA
1 GATACTCTAACCCCG-TTTTTATTTCTAAAACA
815124 CCGATTGTCC
Statistics
Matches: 428, Mismatches: 60, Indels: 39
0.81 0.11 0.07
Matches are distributed among these distances:
155 2 0.00
156 16 0.04
157 164 0.38
158 107 0.25
159 135 0.32
160 3 0.01
161 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (155 bp):
GATACTCTAACCCCGTTTTTATTTCTAAAACAATTTTCCACAATCAGGGATACTCCAACCCCGTT
ATTTCTGAGAAGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTCCATAATCGAGGAT
ACTCCAACCCCATTATTTTTGAGGG
Found at i:815127 original size:159 final size:157
Alignment explanation
Indices: 814319--815140 Score: 726
Period size: 159 Copynumber: 5.2 Consensus size: 157
814309 TTCATGTTTA
* * * * * * * *
814319 TATTTCTGAAATACCGATTTTTCACCATCAGGGATACTCTAACCCCCGTTGTTTCCGA-AGGGAT
1 TATTTCTAAAACACCGATTTTCCACAATCAGGGATACTCCAA-CCCCGTTATTTCTGAGA-GAAT
* ** * *
814383 ACTCTAGCCCTAGTTTTATTT-TCAAAACA-CTGATTGTTCACAATCG-GAGATA-TTCTAACCC
64 ACTC-AACCCCGGTTTTATTTCT-AAAACATC-GATTTTTCATAATCGAG-GATACTTC-AACCC
* **
814444 TGTTATTTTCAAGGAGATACTCTAACCCCGATTTT
124 CGTTATTTTTGAGG-GATACTCTAACCCCGATTTT
* * ** *
814479 TATTTCTAAAACATCAATTTTCCACAATCAGGGATACTCCAACCCTTTTATTT-TCGAG-GTGAT
1 TATTTCTAAAACACCGATTTTCCACAATCAGGGATACTCCAACCCCGTTATTTCT-GAGAG-AAT
* * * ** * * *
814542 ACTTCAACCCCGATTTTATTTCTAAAACATTGATTTTCCACCATC-ATGGATACTCCAACCTCAT
64 AC-TCAACCCCGGTTTTATTTCTAAAACATCGATTTTTCATAATCGA-GGATACTTCAACCCCGT
*
814606 TATTTCTGAGGGGATACTCTAACCCC-AGTTTT
127 TATTTTTGA-GGGATACTCTAACCCCGA-TTTT
* * *
814638 TATTTCTAAAAGCA---ATTTTTCACAATAAGGGATACTCTAACCCCGTTATTTCTGAGA-AGAT
1 TATTTCTAAAA-CACCGATTTTCCACAATCAGGGATACTCCAACCCCGTTATTTCTGAGAGA-AT
* * * *
814699 ACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTTCCATAATCGAGGATACTTCAACCCCATT
64 ACT-CAACCCCGGTTTTATTTCTAAAACATCGATTTTTCATAATCGAGGATACTTCAACCCCGTT
* * * *
814764 ATTTTCGAGGGTGTACTCCAACCCCG-GTTT
128 ATTTTTGAGGG-ATACTCTAACCCCGATTTT
** * * *
814794 TATTTCTAAAACATTGATTTT-CACCATCGGGGATACTCCAACCACGTTATTTCTGAGA-AGATA
1 TATTTCTAAAACACCGATTTTCCACAATCAGGGATACTCCAACCCCGTTATTTCTGAGAGA-ATA
* * * * * *
814857 CTTCAACCCCGATTTTTATTTCTAAAAAATCAATTTTTCATAATTGGGGATA-TTCCAACCTCGT
65 C-TCAACCCCG-GTTTTATTTCTAAAACATCGATTTTTCATAATCGAGGATACTT-CAACCCCGT
* *
814921 TATTTTTGAGGGGATACTTTAACCCCTA-TTT
127 TATTTTTGA-GGGATACTCTAACCCCGATTTT
* * *
814952 TATTTCTAAAATACCGATTTTCCACTATCGGGGATACTCCAACCCCGTTATTTCTGAGAGAATAC
1 TATTTCTAAAACACCGATTTTCCACAATCAGGGATACTCCAACCCCGTTATTTCTGAGAGAATAC
* *
815017 TCAAACCCTGGTTTTTATTTCTAAAACATCGATTTTTCATAATCGAGAATACTTCAACCCCGTTA
66 TC-AACCCCGG-TTTTATTTCTAAAACATCGATTTTTCATAATCGAGGATACTTCAACCCCGTTA
* *
815082 TTTTTGAGGGATACTCCAACCTCGATTTT
129 TTTTTGAGGGATACTCTAACCCCGATTTT
* *
815111 TATTTCTAAAACACCGATTGTCCATAATCA
1 TATTTCTAAAACACCGATTTTCCACAATCA
815141 AGGCACGGAT
Statistics
Matches: 544, Mismatches: 85, Indels: 67
0.78 0.12 0.10
Matches are distributed among these distances:
155 2 0.00
156 18 0.03
157 155 0.28
158 106 0.19
159 215 0.40
160 48 0.09
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.35
Consensus pattern (157 bp):
TATTTCTAAAACACCGATTTTCCACAATCAGGGATACTCCAACCCCGTTATTTCTGAGAGAATAC
TCAACCCCGGTTTTATTTCTAAAACATCGATTTTTCATAATCGAGGATACTTCAACCCCGTTATT
TTTGAGGGATACTCTAACCCCGATTTT
Found at i:815423 original size:80 final size:80
Alignment explanation
Indices: 815258--815688 Score: 408
Period size: 80 Copynumber: 5.4 Consensus size: 80
815248 TTCATTCATC
* * * * * *
815258 TTTTTATTTCTAAAATATCGATTTTTCACCATCGGGGATACTCCAACCCCATTGTTTCCT-ATAG
1 TTTTTATTTCTAAAACACCGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTT-CTGAGA-
* * **
815322 GGGTACTCTAGGCTCGA
64 GGATACTCAAACCTCGA
* * * * *
815339 -TTTTATTTCCAAAACATCGA-TTGTCTACAATCGGGGATACTCCAACCACGTTATTTCTGAGAA
1 TTTTTATTTCTAAAACACCGATTTTTC-ACAATCGGGGATACTCCAACCCCGTTATTTCTGAGAG
*
815402 GATACTTC-AATCTCGA
65 GATAC-TCAAACCTCGA
* * * * * * * *
815418 TTTTTATTTCTAAAAAATCAATTTTTCATAATTGGGGATATTCCAACCCCGTTATTTTTGAGGGG
1 TTTTTATTTCTAAAACACCGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCTGAGAGG
* * *
815483 ATACTCTAACCCCTA
66 ATACTCAAACCTCGA
* * * *
815498 -TTTTATTTCTAAAATACCGATTTTTCACTATCGGGGATACTCCAATCTCGTTATTTCTGAGAGG
1 TTTTTATTTCTAAAACACCGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCTGAGAGG
* *
815562 ATACTCCAA-CTCTGG
66 ATACTCAAACCTC-GA
* * * * *
815577 TTTTTATTTCTAAAACACCGATTTTTCATAATCGAGAATACTCCAACCCCGTTATTTTTTAG-GG
1 TTTTTATTTCTAAAACACCGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCTGAGAGG
815641 ATACTCAAACCTCGA
66 ATACTCAAACCTCGA
* *
815656 TTTTTATTTCTAAAACACCGATTGTCCACAATC
1 TTTTTATTTCTAAAACACCGATTTTTCACAATC
815689 AAGGCACAGA
Statistics
Matches: 286, Mismatches: 55, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
78 2 0.01
79 120 0.42
80 160 0.56
81 4 0.01
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (80 bp):
TTTTTATTTCTAAAACACCGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCTGAGAGG
ATACTCAAACCTCGA
Found at i:815441 original size:549 final size:546
Alignment explanation
Indices: 814713--816236 Score: 2150
Period size: 549 Copynumber: 2.8 Consensus size: 546
814703 CAACCCCGGC
* * * ** * * * * *
814713 TTTATTTCTAAAACATCAATTTTCCATAATCGAGGATACTTCAACCCCATTATTTTC-GAGGGTG
1 TTTATTTCTAAAATATCGATTTTTCACCATCGGGGATACTCCAACCCCATTGTTTCCATAGGG-G
* * * * * * *
814777 TACTCCA-ACCCCGGTTTTATTTCTAAAACATTGATTTTC-ACCATCGGGGATACTCCAACCACG
65 TACTCTAGA-CTCGATTTTATTTCCAAAACATCGATTGTCTACAATCGGGGATACTCCAACCACG
814840 TTATTTCTGAGAAGATACTTCAACCCCGATTTTTATTTCTAAAAAATCAATTTTTCATAATTGGG
129 TTATTTCTGAGAAGATACTTCAA-CCCGATTTTTATTTCTAAAAAATCAATTTTTCATAATTGGG
* *
814905 GATATTCCAACCTCGTTATTTTTGAGGGGATACTTTAACCCCTATTTTATTTCTAAAATACCGAT
193 GATATTCCAACCCCGTTATTTTTGAGGGGATACTCTAACCCCTATTTTATTTCTAAAATACCGAT
* *
814970 TTTCCACTATCGGGGATACTCCAACCCCGTTATTTCTGAGAGAATACTCAAACCCTGGTTTTTAT
258 TTTTCACTATCGGGGATACTCCAACCCCGTTATTTCTGAGAGGATACTCAAACCCTGGTTTTTAT
* * *
815035 TTCTAAAACATCGATTTTTCATAATCGAGAATACTTCAACCCCGTTATTTTTGAGGGATACTCCA
323 TTCTAAAACA-CGATTTTTCATAATCGAGAATACTCCAACCCCGTTATTTTTAAGGGATACTCAA
*
815100 ACCTCGATTTTTATTTCTAAAACACCGATTGTCCATAATCAAGGCACGGATACCTTTACATCTTA
387 ACCTCGATTTTTATTTCTAAAACACCGATTGTCCATAATCAAGGCACAGATACCTTTACATCTTA
* *
815165 GGACCCTCTCTAGACCACATCAAGGCACGCATACTTTTACATCTTTACTATCTTCGCTCACGTCA
452 GGACCCTCTCTAGACCACATCAAGGCACGCATACCTTTACATCTTTACTATCTTCGCTCACGCCA
815230 ATTTTCTTCACAAAAACTTTCATTCATCTT
517 ATTTTCTTCACAAAAACTTTCATTCATCTT
815260 TTTATTTCTAAAATATCGATTTTTCACCATCGGGGATACTCCAACCCCATTGTTTCCTATAGGGG
1 TTTATTTCTAAAATATCGATTTTTCACCATCGGGGATACTCCAACCCCATTGTTTCC-ATAGGGG
*
815325 TACTCTAGGCTCGATTTTATTTCCAAAACATCGATTGTCTACAATCGGGGATACTCCAACCACGT
65 TACTCTAGACTCGATTTTATTTCCAAAACATCGATTGTCTACAATCGGGGATACTCCAACCACGT
*
815390 TATTTCTGAGAAGATACTTCAATCTCGATTTTTATTTCTAAAAAATCAATTTTTCATAATTGGGG
130 TATTTCTGAGAAGATACTTCAA-CCCGATTTTTATTTCTAAAAAATCAATTTTTCATAATTGGGG
815455 ATATTCCAACCCCGTTATTTTTGAGGGGATACTCTAACCCCTATTTTATTTCTAAAATACCGATT
194 ATATTCCAACCCCGTTATTTTTGAGGGGATACTCTAACCCCTATTTTATTTCTAAAATACCGATT
* * * *
815520 TTTCACTATCGGGGATACTCCAATCTCGTTATTTCTGAGAGGATACTCCAACTCTGGTTTTTATT
259 TTTCACTATCGGGGATACTCCAACCCCGTTATTTCTGAGAGGATACTCAAACCCTGGTTTTTATT
*
815585 TCTAAAACACCGATTTTTCATAATCGAGAATACTCCAACCCCGTTATTTTTTAGGGATACTCAAA
324 TCTAAAACA-CGATTTTTCATAATCGAGAATACTCCAACCCCGTTATTTTTAAGGGATACTCAAA
*
815650 CCTCGATTTTTATTTCTAAAACACCGATTGTCCACAATCAAGGCACAGATACCTTTACATCTTAG
388 CCTCGATTTTTATTTCTAAAACACCGATTGTCCATAATCAAGGCACAGATACCTTTACATCTTAG
815715 GACCCTCTCTAGACCACATCAAGGCACGCATACCTTTACATCTTTACTATCTTCGCTCACGCCAA
453 GACCCTCTCTAGACCACATCAAGGCACGCATACCTTTACATCTTTACTATCTTCGCTCACGCCAA
*
815780 TTTTCTTCACAAAAACTTTTATTCATCTT
518 TTTTCTTCACAAAAACTTTCATTCATCTT
* *
815809 TTTATTTCTAAAATATCGATTTTTCACCATTGGGGATACTCCAACCCCATTGTTTCCATGGGGGT
1 TTTATTTCTAAAATATCGATTTTTCACCATCGGGGATACTCCAACCCCATTGTTTCCATAGGGGT
815874 ACTCTAGACTCGATTTTATTTCCAAAACATCGATTGTCTACAATCGGGGATACTCCAACC-CTGT
66 ACTCTAGACTCGATTTTATTTCCAAAACATCGATTGTCTACAATCGGGGATACTCCAACCAC-GT
* * * * * * * * ** *
815938 TATTTCTAAG-GGAATACTCCAACCCTG-GTTGTATTTTTAAAACACCAATTTTTCACCATCGGG
130 TATTTCTGAGAAG-ATACTTCAACCC-GATTTTTATTTCTAAAAAATCAATTTTTCATAATTGGG
* * * * * ** *
816001 GATACTCCAACCCCGTTATTTCTGAAGGTATACTCCAACCCC-AGTTTTTATTTCTAAAGCATCG
193 GATATTCCAACCCCGTTATTTTTGAGGGGATACTCTAACCCCTA--TTTTATTTCTAAAATACCG
* * * * * *
816065 ATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTAAGGGGATACTCGAACCTTGG-TTTT
256 ATTTTTCACTATCGGGGATACTCCAACCCCGTTATTTCTGAGAGGATACTCAAACCCTGGTTTTT
* * ** * ** *
816129 ATTTCAAAAACACTGATTTTTTACCATC-AGAAATACTCCAAACTTGTTATTTCTAAGGGGATAC
321 ATTTCTAAAACAC-GATTTTTCATAATCGAG-AATACTCCAACCCCGTTATTTTTAA-GGGATAC
* * * * * *
816193 TCTAACCCCAATTTTT-TTTCTAAAACATCGATTTTTCATAATCA
383 TCAAACCTCGATTTTTATTTCTAAAACACCGATTGTCCATAATCA
816237 GGGATACTCT
Statistics
Matches: 880, Mismatches: 85, Indels: 24
0.89 0.09 0.02
Matches are distributed among these distances:
546 4 0.00
547 187 0.21
548 205 0.23
549 484 0.55
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (546 bp):
TTTATTTCTAAAATATCGATTTTTCACCATCGGGGATACTCCAACCCCATTGTTTCCATAGGGGT
ACTCTAGACTCGATTTTATTTCCAAAACATCGATTGTCTACAATCGGGGATACTCCAACCACGTT
ATTTCTGAGAAGATACTTCAACCCGATTTTTATTTCTAAAAAATCAATTTTTCATAATTGGGGAT
ATTCCAACCCCGTTATTTTTGAGGGGATACTCTAACCCCTATTTTATTTCTAAAATACCGATTTT
TCACTATCGGGGATACTCCAACCCCGTTATTTCTGAGAGGATACTCAAACCCTGGTTTTTATTTC
TAAAACACGATTTTTCATAATCGAGAATACTCCAACCCCGTTATTTTTAAGGGATACTCAAACCT
CGATTTTTATTTCTAAAACACCGATTGTCCATAATCAAGGCACAGATACCTTTACATCTTAGGAC
CCTCTCTAGACCACATCAAGGCACGCATACCTTTACATCTTTACTATCTTCGCTCACGCCAATTT
TCTTCACAAAAACTTTCATTCATCTT
Found at i:815542 original size:79 final size:79
Alignment explanation
Indices: 815259--816434 Score: 464
Period size: 79 Copynumber: 14.9 Consensus size: 79
815249 TCATTCATCT
* * * *
815259 TTTTATTTCTAAAATATCGATTTTTCACCATCGGGGATACTCCAACCCCATTGTTTCCTAT-AGG
1 TTTTATTTCTAAAACATCGATTTTTCACTATCGGGGATACTCCAACCCCGTTATTT--T-TGAGG
** * *
815323 GG-TACTCTAGGCTCGA
63 GGATACTCTAACCCCTA
* * * * * **
815339 TTTTATTTCCAAAACATCGA-TTGTCTACAATCGGGGATACTCCAACCACGTTATTTCTGAGAAG
1 TTTTATTTCTAAAACATCGATTTTTC-ACTATCGGGGATACTCCAACCCCGTTATTTTTGAGGGG
* * *
815403 ATACT-TCAATCTCGA
65 ATACTCT-AACCCCTA
* * * *
815418 TTTTTATTTCTAAAAAATCAATTTTTCA-TAATTGGGGATATTCCAACCCCGTTATTTTTGAGGG
1 -TTTTATTTCTAAAACATCGATTTTTCACT-ATCGGGGATACTCCAACCCCGTTATTTTTGAGGG
815482 GATACTCTAACCCCTA
64 GATACTCTAACCCCTA
* * * * * *
815498 TTTTATTTCTAAAATACCGATTTTTCACTATCGGGGATACTCCAATCTCGTTATTTCTGAGAGGA
1 TTTTATTTCTAAAACATCGATTTTTCACTATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGA
* * *
815563 TACTCCAA-CTCTGGT
66 TACTCTAACCCCT--A
* * * *
815578 TTTTATTTCTAAAACACCGATTTTTCA-TAATCGAGAATACTCCAACCCCGTTATTTTTTA-GGG
1 TTTTATTTCTAAAACATCGATTTTTCACT-ATCGGGGATACTCCAACCCCGTTATTTTTGAGGGG
* * *
815641 ATACTCAAACCTCGA
65 ATACTCTAACCCCTA
* * * * ** * ** * * *
815656 TTTTTATTTCTAAAACACCGATTGTCCACAATCAAGG---C-ACAGATACCTTTACATCTT-AGG
1 -TTTTATTTCTAAAACATCGATTTTTCACTATCGGGGATACTCCA-ACCCCGTTA-TTTTTGAGG
*** *
815716 ACCCT-CTCTAGACCAC-A
63 -GGATACTCTA-ACCCCTA
** *** * * * * * *** ** * *
815733 -TCAAGGCACGCATACCTTTAC-ATCTTT-ACTATCTTCG---CT-C-ACGCCAATT-TTCTTCA
1 TTTTA-TTTC-TAAAAC-AT-CGATTTTTCACTATCGGGGATACTCCAAC-CCCGTTATTTTTGA
*** * * * **
815789 -CAAAAACTTTTATTCATCT-
61 GGGGATAC-TCTA-ACCCCTA
* * * * * *
815808 TTTTATTTCTAAAATATCGATTTTTCACCATTGGGGATACTCCAACCCCATTGTTTCCATG-GGG
1 TTTTATTTCTAAAACATCGATTTTTCACTATCGGGGATACTCCAACCCCGTTATTT--TTGAGGG
* *
815872 G-TACTCTAGA-CTCGA
64 GATACTCTA-ACCCCTA
* * * * * * *
815887 TTTTATTTCCAAAACATCGA-TTGTCTACAATCGGGGATACTCCAACCCTGTTATTTCTAAGGGA
1 TTTTATTTCTAAAACATCGATTTTTC-ACTATCGGGGATACTCCAACCCCGTTATTTTTGAGGGG
* *
815951 ATACTCCAA-CCCTGG
65 ATACTCTAACCCCT-A
* * * * * * * *
815966 TTGTATTTTTAAAACACCAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTCTGAAGGTA
1 TTTTATTTCTAAAACATCGATTTTTCACTATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGA
*
816031 TACTCCAACCCC-A
66 TACTCTAACCCCTA
* * *
816044 GTTTTTATTTCTAAAGCATCGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTAAGGG
1 --TTTTATTTCTAAAACATCGATTTTTCACTATCGGGGATACTCCAACCCCGTTATTTTTGAGGG
* * *
816109 GATACTCGAA-CCTTGG
64 GATACTCTAACCCCT-A
* * * * ** * ** * *
816125 TTTTATTTCAAAAACA-CTGATTTTTTACCATCAGAAATACTCCAAACTTGTTATTTCTAAGGGG
1 TTTTATTTCTAAAACATC-GATTTTTCACTATCGGGGATACTCCAACCCCGTTATTTTTGAGGGG
*
816189 ATACTCTAACCCCAA
65 ATACTCTAACCCCTA
* * * **
816204 TTTTTTTTCTAAAACATCGATTTTTCA-TAATCAGGGATACTCTAACCCCGTTATTTTCAAGGGG
1 TTTTATTTCTAAAACATCGATTTTTCACT-ATCGGGGATACTCCAACCCCGTTATTTTTGAGGGG
* *
816268 ATATTCCAA-CCCTA
65 ATACTCTAACCCCTA
* * * * * * * **
816282 GCTTTATTACTAAAACATCGATTTTTCACAATCGTGGATACTCTAACCCCATTATTTCTGAAAGG
1 -TTTTATTTCTAAAACATCGATTTTTCACTATCGGGGATACTCCAACCCCGTTATTTTTGAGGGG
* **
816347 ATACTCCAACCCCGG
65 ATACTCTAACCCCTA
* * * * * *
816362 TTTTATTTCCAAGATATTGATTTTTCACTATTGGGGATACT-CAACCCCGTTATTTTTGAGAGGA
1 TTTTATTTCTAAAACATCGATTTTTCACTATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGA
816426 TACTCTAAC
66 TACTCTAAC
816435 TCTGTTTTTA
Statistics
Matches: 811, Mismatches: 225, Indels: 122
0.70 0.19 0.11
Matches are distributed among these distances:
72 1 0.00
73 6 0.01
74 12 0.01
75 12 0.01
76 14 0.02
77 24 0.03
78 65 0.08
79 438 0.54
80 233 0.29
81 6 0.01
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (79 bp):
TTTTATTTCTAAAACATCGATTTTTCACTATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGA
TACTCTAACCCCTA
Found at i:815550 original size:159 final size:159
Alignment explanation
Indices: 815258--815688 Score: 505
Period size: 159 Copynumber: 2.7 Consensus size: 159
815248 TTCATTCATC
* ** * *
815258 TTTTTATTTCTAAAATATCGATTTTTCACCATCGGGGATACTCCAACCCCATTGTTTCCTATAGG
1 TTTTTATTTCTAAAAAATCGATTTTTCATAATCGGGGATACTCCAACCCCGTTATTT--T-TAGG
** * *
815323 GG-TACTCTAGGCTCGATTTTATTTCCAAAACATCGA-TTGTCTACAATCGGGGATACTCCAACC
63 GGATACTCTAACCTCGATTTTATTTCTAAAACACCGATTTGTCTACAATCGGGGATACTCCAACC
*
815386 ACGTTATTTCTGAGAAGATACTTCAA-TCTCGA
128 ACGTTATTTCTGAGAAGATACTCCAACTCT-GA
* * *
815418 TTTTTATTTCTAAAAAATCAATTTTTCATAATTGGGGATATTCCAACCCCGTTATTTTTGAGGGG
1 TTTTTATTTCTAAAAAATCGATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTT-AGGGG
* * * * * * *
815483 ATACTCTAACCCCTATTTTATTTCTAAAATACCGATTTTTC-ACTATCGGGGATACTCCAATCTC
65 ATACTCTAACCTCGATTTTATTTCTAAAACACCGATTTGTCTACAATCGGGGATACTCCAACCAC
* *
815547 GTTATTTCTGAGAGGATACTCCAACTCTGG
130 GTTATTTCTGAGAAGATACTCCAACTCTGA
* * * *
815577 TTTTTATTTCTAAAACACCGATTTTTCATAATCGAGAATACTCCAACCCCGTTATTTTTTA-GGG
1 TTTTTATTTCTAAAAAATCGATTTTTCATAATCGGGGATACTCCAACCCCGTTA-TTTTTAGGGG
* *
815641 ATACTCAAACCTCGATTTTTATTTCTAAAACACCGA-TTGTCCACAATC
65 ATACTCTAACCTCGA-TTTTATTTCTAAAACACCGATTTGTCTACAATC
815689 AAGGCACAGA
Statistics
Matches: 229, Mismatches: 35, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
157 1 0.00
158 25 0.11
159 142 0.62
160 61 0.27
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (159 bp):
TTTTTATTTCTAAAAAATCGATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTTAGGGGA
TACTCTAACCTCGATTTTATTTCTAAAACACCGATTTGTCTACAATCGGGGATACTCCAACCACG
TTATTTCTGAGAAGATACTCCAACTCTGA
Found at i:816084 original size:238 final size:238
Alignment explanation
Indices: 815807--816370 Score: 618
Period size: 238 Copynumber: 2.4 Consensus size: 238
815797 TTTATTCATC
* * * * *
815807 TTTTTATTTCTAAAATATCGATTTTTCACCATTGGGGATACTCCAACCCCATTGTTTCCATGGGG
1 TTTTTATTTCTAAAACATCGATTTTTCACAATCGGGGATACTCCAACCCCATTATTTCCAAGGGG
* * * * ** *
815872 GTACTCTAGA-CTCGATTTTATTTCCAAAACA-TCGATTGTCTACAATCGGGGATACTCCAACCC
66 ATACTCGA-ACCTCGATTTTATTTCAAAAACACT-GATTGTCTACAATCAGAAATACTCCAAACC
*** * *
815935 TGTTATTTCTAAGGGAATACTCCAACCCTGGTTGTATTTT-TAAAACACCAATTTTTCACCATCG
129 TGTTATTTCTAAGGGAATACTCCAACCCCAATT-TATTTTCTAAAACACCAATTTTTCACAATCA
* *
815999 GGGATACTCCAACCCCGTTATTTCTGAA-GGTATACTCCAACCCCAG
193 GGGATACTCCAACCCCGTTATTT-TCAAGGGGATACTCCAACCCCAG
* * **
816045 TTTTTATTTCTAAAGCATCGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTAAGGGG
1 TTTTTATTTCTAAAACATCGATTTTTCACAATCGGGGATACTCCAACCCCATTATTTCCAAGGGG
* * * * * *
816110 ATACTCGAACCTTGGTTTTATTTCAAAAACACTGATTTTTTACCATCAGAAATACTCCAAACTTG
66 ATACTCGAACCTCGATTTTATTTCAAAAACACTGATTGTCTACAATCAGAAATACTCCAAACCTG
* * * * * *
816175 TTATTTCTAAGGGGATACTCTAACCCCAATTTTTTTTCTAAAACATCGATTTTTCATAATCAGGG
131 TTATTTCTAAGGGAATACTCCAACCCCAATTTATTTTCTAAAACACCAATTTTTCACAATCAGGG
* * *
816240 ATACTCTAACCCCGTTATTTTCAAGGGGATATTCCAACCCTAG
196 ATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCAG
* * * * * *
816283 -CTTTATTACTAAAACATCGATTTTTCACAATCGTGGATACTCTAACCCCATTATTTCTGAA-AG
1 TTTTTATTTCTAAAACATCGATTTTTCACAATCGGGGATACTCCAACCCCATTATTTC-CAAGGG
* * *
816346 GATACTCCAACCCCGGTTTTATTTC
65 GATACTCGAACCTCGATTTTATTTC
816371 CAAGATATTG
Statistics
Matches: 271, Mismatches: 50, Indels: 11
0.82 0.15 0.03
Matches are distributed among these distances:
237 82 0.30
238 188 0.69
239 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (238 bp):
TTTTTATTTCTAAAACATCGATTTTTCACAATCGGGGATACTCCAACCCCATTATTTCCAAGGGG
ATACTCGAACCTCGATTTTATTTCAAAAACACTGATTGTCTACAATCAGAAATACTCCAAACCTG
TTATTTCTAAGGGAATACTCCAACCCCAATTTATTTTCTAAAACACCAATTTTTCACAATCAGGG
ATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCAG
Found at i:816323 original size:158 final size:157
Alignment explanation
Indices: 815809--816417 Score: 604
Period size: 158 Copynumber: 3.9 Consensus size: 157
815799 TATTCATCTT
* * *
815809 TTTATTTCTAAAATATCGATTTTTCACCATTGGGGATACTCCAACCCCATTGTTTCCATG--GGG
1 TTTATTTCTAAAACATCGATTTTTCACCATCGGGGATACTCCAACCCCATTATTT-C-TGAAGGG
* * * * *
815872 GTACTCTAGA-CTCGATTTTATTTCCAAAACATCGA-TTGTCTACAATCGGGGATACTCCAACCC
64 ATACTCCA-ACCCCAATTTTATTTCCAAAACATCGATTTTTC-ACAATCGGGGATACTCCAACCC
* * *
815935 TGTTA-TTTCTAAGGGAATACTCCAACCCTGG
127 CGTTATTTTC-AAGGGGATACTCCAACCCTGC
* * * * *
815966 TTGTATTTTTAAAACACCAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTCTGAAGGTA
1 TT-TATTTCTAAAACATCGATTTTTCACCATCGGGGATACTCCAACCCCATTATTTCTGAAGGGA
* * *
816031 TACTCCAACCCCAGTTTTTATTTCTAAAGCATCGATTTTTCACAATCGGGGATACTCCAACCCCG
65 TACTCCAACCCCA-ATTTTATTTCCAAAACATCGATTTTTCACAATCGGGGATACTCCAACCCCG
* * * *
816096 TTATTTTTAAGGGGATACTCGAACCTTGGT
129 TTATTTTCAAGGGGATACTCCAACCCT-GC
* * * ** * ***
816126 TTTATTTCAAAAACA-CTGATTTTTTACCATCAGAAATACTCCAAACTTGTTATTTCT-AAGGGG
1 TTTATTTCTAAAACATC-GATTTTTCACCATCGGGGATACTCCAACCCCATTATTTCTGAA-GGG
* * * * * *
816189 ATACTCTAACCCCAATTTTTTTTCTAAAACATCGATTTTTCATAATCAGGGATACTCTAACCCCG
64 ATACTCCAACCCCAATTTTATTTCCAAAACATCGATTTTTCACAATCGGGGATACTCCAACCCCG
*
816254 TTATTTTCAAGGGGATATTCCAACCCTAGC
129 TTATTTTCAAGGGGATACTCCAACCCT-GC
* * * * *
816284 TTTATTACTAAAACATCGATTTTTCACAATCGTGGATACTCTAACCCCATTATTTCTGAAAGGAT
1 TTTATTTCTAAAACATCGATTTTTCACCATCGGGGATACTCCAACCCCATTATTTCTGAAGGGAT
** * * * * *
816349 ACTCCAACCCCGGTTTTATTTCCAAGATATTGATTTTTCACTATTGGGGATACT-CAACCCCGTT
66 ACTCCAACCCCAATTTTATTTCCAAAACATCGATTTTTCACAATCGGGGATACTCCAACCCCGTT
816413 ATTTT
131 ATTTT
816418 TGAGAGGATA
Statistics
Matches: 367, Mismatches: 73, Indels: 24
0.79 0.16 0.05
Matches are distributed among these distances:
156 2 0.01
157 18 0.05
158 216 0.59
159 121 0.33
160 10 0.03
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.35
Consensus pattern (157 bp):
TTTATTTCTAAAACATCGATTTTTCACCATCGGGGATACTCCAACCCCATTATTTCTGAAGGGAT
ACTCCAACCCCAATTTTATTTCCAAAACATCGATTTTTCACAATCGGGGATACTCCAACCCCGTT
ATTTTCAAGGGGATACTCCAACCCTGC
Found at i:816466 original size:237 final size:238
Alignment explanation
Indices: 815809--816468 Score: 516
Period size: 238 Copynumber: 2.8 Consensus size: 238
815799 TATTCATCTT
* * * * * ** * * *
815809 TTTATTTCTAAAATATCGATTTTTCACCATTGGGGATACTCCAACCCCATTGTTTCCATGGGGGT
1 TTTATTACTAAAACATCGATTTTTCACAATCGGGGATACTCCAACCCCATTATTTTGAAGAGGAT
* * * * * * * **
815874 ACTCTAGA-CTCGATTTTATTTCCAAAACA-TCGA-TTGTCTACAATCGGGGATACTCC-AACCC
66 ACTCCA-ACCCCGGTTTTATTTCAAAAACACT-GATTTTTC-ACCATCAGAAATACTCCAAACCC
* *** * ** **
815935 TGTTATTTCTAAG-GGAATACTCCAACCCTGGTTGTATTT-T-TAAAACACCAATTTTTCACCAT
128 -GTTATTTCTAAGAGG-ATACTCTAACCCCAATT-T-TTTCTCCAAAACATAAATTTTTCATAAT
* * * *
815997 CGGGGATACTCCAACCCCGTTATTTCTGAAGGTATACTCCAACCCCAGTT
189 CAGGGATACTCCAACCCCGTTATTTCTCAAGGGATACTCCAACCCCAGTC
* * * * *
816047 TTTATTTCTAAAGCATCGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTAAGGGGAT
1 TTTATTACTAAAACATCGATTTTTCACAATCGGGGATACTCCAACCCCATTATTTTGAAGAGGAT
* ** * **
816112 ACTCGAACCTTGGTTTTATTTCAAAAACACTGATTTTTTACCATCAGAAATACTCCAAACTTGTT
66 ACTCCAACCCCGGTTTTATTTCAAAAACACTGATTTTTCACCATCAGAAATACTCCAAACCCGTT
* * * **
816177 ATTTCTAAGGGGATACTCTAACCCCAATTTTTTTTCTAAAACATCGATTTTTCATAATCAGGGAT
131 ATTTCTAAGAGGATACTCTAACCCCAATTTTTTCTCCAAAACATAAATTTTTCATAATCAGGGAT
* * *
816242 ACTCTAACCCCGTTATTT-TCAAGGGGATATTCCAACCCTAG-C
196 ACTCCAACCCCGTTATTTCTCAA-GGGATACTCCAACCCCAGTC
* *
816284 TTTATTACTAAAACATCGATTTTTCACAATCGTGGATACTCTAACCCCATTATTTCTGAA-AGGA
1 TTTATTACTAAAACATCGATTTTTCACAATCGGGGATACTCCAACCCCATTATTT-TGAAGAGGA
* * * * * ** ** *
816348 TACTCCAACCCCGGTTTTATTTCCAAGATATTGATTTTTCACTATTGGGGATACT-CAACCCCGT
65 TACTCCAACCCCGGTTTTATTTCAAAAACACTGATTTTTCACCATCAGAAATACTCCAAACCCGT
* * * ** *
816412 TATTTTTGAGAGGATACTCTAA-CTCTGTTTTTATCTCCAAAATACTAAATTTTTCAT
130 TATTTCTAAGAGGATACTCTAACCCCAATTTTT-TCTCCAAAACA-TAAATTTTTCAT
816469 CAGGGAATGT
Statistics
Matches: 340, Mismatches: 71, Indels: 23
0.78 0.16 0.05
Matches are distributed among these distances:
235 7 0.02
236 36 0.11
237 111 0.33
238 177 0.52
239 9 0.03
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (238 bp):
TTTATTACTAAAACATCGATTTTTCACAATCGGGGATACTCCAACCCCATTATTTTGAAGAGGAT
ACTCCAACCCCGGTTTTATTTCAAAAACACTGATTTTTCACCATCAGAAATACTCCAAACCCGTT
ATTTCTAAGAGGATACTCTAACCCCAATTTTTTCTCCAAAACATAAATTTTTCATAATCAGGGAT
ACTCCAACCCCGTTATTTCTCAAGGGATACTCCAACCCCAGTC
Found at i:823323 original size:37 final size:37
Alignment explanation
Indices: 823273--823388 Score: 216
Period size: 37 Copynumber: 3.2 Consensus size: 37
823263 AGAGTACCAA
823273 TGATTACGGTCTGGCAAATCCTAATACAAGTCAAGTT
1 TGATTACGGTCTGGCAAATCCTAATACAAGTCAAGTT
823310 TGATTACGGTCTGGCAAATCCTAATACAAGTCAAGTT
1 TGATTACGGTCTGGCAAATCCTAATACAAGTCAAGTT
*
823347 TGATTACGGTCTAGCAAATCCTAATACAAGTCAAG-T
1 TGATTACGGTCTGGCAAATCCTAATACAAGTCAAGTT
823383 TGATTA
1 TGATTA
823389 GTGGGGTTAA
Statistics
Matches: 78, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
36 7 0.09
37 71 0.91
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (37 bp):
TGATTACGGTCTGGCAAATCCTAATACAAGTCAAGTT
Found at i:829820 original size:61 final size:61
Alignment explanation
Indices: 829711--830274 Score: 592
Period size: 61 Copynumber: 9.3 Consensus size: 61
829701 TTATCCTTGC
* * * *
829711 AGTCCTCAAAGAGCAAGA--CATTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACATTTT
1 AGTCCTCAAAGAGTAGGACGCATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
* * * * *
829770 AGTCCTCAAAGAGCAAGACGTATTCTCCTTTTAAAGCCCACAAAAGTTGGTGGCA-CTTTCT
1 AGTCCTCAAAGAGTAGGACGCATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT-T
* * * ** * *
829831 AGTCCTCAAAGAGTAAGATGCCTTTTCCTTTTAAAGAGCACACAAGTTGTTGGCACTTTTT
1 AGTCCTCAAAGAGTAGGACGCATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
* * *
829892 AGTCCTTAAAGAGCAGGACGCATTTTCCTTTTAAAACCCACACAAGTTGGTGGCACCTTTT
1 AGTCCTCAAAGAGTAGGACGCATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
* * * * * *
829953 AGTCCTCAAAAAGCAGGATGCCTTTTTCTTTTAAAGCTCACACAAGTTGGTGGCA-CTTTT
1 AGTCCTCAAAGAGTAGGACGCATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
* * * * *
830013 CAGTCCTTAAAGAGTAGGACACCTTCTT-TTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 -AGTCCTCAAAGAGTAGGACGCATT-TTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
* * * *
830075 AATCCTCAAAGAGTATGA--CACTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTT
1 AGTCCTCAAAGAGTAGGACGCATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
* * * * * *
830134 AGTCTTCAAAGAGTAGGACGTC-TTTCCCTTTTAAAGCCCATATAAGTGGGTGGCACCTTCT
1 AGTCCTCAAAGAGTAGGACG-CATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
* * * * * *
830195 AGTCCCCAAAGAGTAGGACAC-TTCTT--TTTTAAAGCCCATACAAGCTGGTGGCATCTTCT
1 AGTCCTCAAAGAGTAGGACGCATT-TTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
830254 AGTCCTCAAAGAGTAGGACGC
1 AGTCCTCAAAGAGTAGGACGC
830275 CTCTCACTTT
Statistics
Matches: 425, Mismatches: 68, Indels: 24
0.82 0.13 0.05
Matches are distributed among these distances:
58 2 0.00
59 114 0.27
60 11 0.03
61 288 0.68
62 10 0.02
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (61 bp):
AGTCCTCAAAGAGTAGGACGCATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
Found at i:833327 original size:79 final size:79
Alignment explanation
Indices: 833182--833808 Score: 519
Period size: 79 Copynumber: 7.9 Consensus size: 79
833172 TTATTCATGT
* * * * * * * * **
833182 TTTTATTTCTAAAATATCGATTTTCCACCATCGGGGATACTCTAATCCCGTTGTTTCTAAAAGGA
1 TTTTATTTCTAAAACACCGATTTTCCACAATCAGGGATACTCTAAACCCATTATTTCTGAGGGGA
* *
833247 TACTCTAACCCCAA
66 TACTCCAACCCCAG
* * * ** *
833261 TTTTATTTCCAAAACACCAATTATCCACAATTGGGGATACTCTAAACCCATTATTTTTGAGGGGA
1 TTTTATTTCTAAAACACCGATTTTCCACAATCAGGGATACTCTAAACCCATTATTTCTGAGGGGA
*
833326 TACTCCAACCCTAG
66 TACTCCAACCCCAG
** * * * *
833340 TTTTATTTCTAAAACATTGATTTTCTACCATCAGGGATACTCTAACCCCGTTATTTCTGAGGGGA
1 TTTTATTTCTAAAACACCGATTTTCCACAATCAGGGATACTCTAAACCCATTATTTCTGAGGGGA
833405 TACTCCAACCCCAG
66 TACTCCAACCCCAG
* * * * * * * * *
833419 TTTTTATTTCTAAAATACTGATTTTTCACAATCAGAGATGCTCCAACCCCGTTATTTCTGAGAGG
1 -TTTTATTTCTAAAACACCGATTTTCCACAATCAGGGATACTCTAAACCCATTATTTCTGAGGGG
* *
833484 ATACTCAAACCTCAG
65 ATACTCCAACCCCAG
* * * * * *
833499 TTTTATTTCTAAAACACCTATTTTTCACCATCGGGGATACTC-CAACCTCGTTATTTCTGAGGGG
1 TTTTATTTCTAAAACACCGATTTTCCACAATCAGGGATACTCTAAACC-CATTATTTCTGAGGGG
* *
833563 ATACTCCAACCCTAT
65 ATACTCCAACCCCAG
* * * * * * *
833578 TTTTCATTTTTAAAATATCGATTTTTCACGATCAGAGATACT-TCAACCCCATTATTT-TCGAGG
1 TTTT-ATTTCTAAAACACCGATTTTCCACAATCAGGGATACTCT-AAACCCATTATTTCT-GAGG
* * *
833641 GGATACTCTAATCCCGG
63 GGATACTCCAACCCCAG
* * ** *
833658 TTTTATTTCTAAAACATCAATTTTCCACAATTGGGGATACTCTAAACCCATTATTTTTGAGGGGA
1 TTTTATTTCTAAAACACCGATTTTCCACAATCAGGGATACTCTAAACCCATTATTTCTGAGGGGA
* **
833723 TACTCTAACCCTGG
66 TACTCCAACCCCAG
* ** * * * * *
833737 TATTATTT-TCAAAACATTGATTTTCCACCATCGGGGATATTC-CAACCCTATTATTT-TAAGGG
1 TTTTATTTCT-AAAACACCGATTTTCCACAATCAGGGATACTCTAAACCC-ATTATTTCTGAGGG
833799 GATACTCCAA
64 GATACTCCAA
833809 TTTCGTTTTT
Statistics
Matches: 448, Mismatches: 90, Indels: 21
0.80 0.16 0.04
Matches are distributed among these distances:
78 23 0.05
79 295 0.66
80 127 0.28
81 3 0.01
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (79 bp):
TTTTATTTCTAAAACACCGATTTTCCACAATCAGGGATACTCTAAACCCATTATTTCTGAGGGGA
TACTCCAACCCCAG
Found at i:833522 original size:159 final size:156
Alignment explanation
Indices: 833182--833805 Score: 624
Period size: 159 Copynumber: 3.9 Consensus size: 156
833172 TTATTCATGT
* * * * * **
833182 TTTTATTTCTAAAATATCGATTTTCCACCATCGGGGATACTCTAATCCCGTTGTTTCTAAAAGGA
1 TTTTATTTCTAAAACATCTATTTTCCACCATCGGGGATACTCTAACCCCGTTATTTCTGAGGGGA
* * * * ** * * ** * * *
833247 TACTCTAACCCCAATTTTATTTCCAAAACACCAATTATCCACAATTGGGGATACTCTAAACCCAT
66 TACTCCAACCCCATTTTTATTTCTAAAATACTGATTTTTCACAATCAGAGATACTCCAACCCCAT
*
833312 TATTTTTGAGGGGATACTCCAACCCTAG
131 TA-TTTTGAGGGGATACTCAAACCC-AG
* *
833340 TTTTATTTCTAAAACAT-TGATTTTCTACCATCAGGGATACTCTAACCCCGTTATTTCTGAGGGG
1 TTTTATTTCTAAAACATCT-ATTTTCCACCATCGGGGATACTCTAACCCCGTTATTTCTGAGGGG
*
833404 ATACTCCAACCCCAGTTTTTATTTCTAAAATACTGATTTTTCACAATCAGAGATGCTCCAACCCC
65 ATACTCCAACCCCA-TTTTTATTTCTAAAATACTGATTTTTCACAATCAGAGATACTCCAACCCC
* *
833469 GTTATTTCTGAGAGGATACTCAAACCTCAG
129 ATTATTT-TGAGGGGATACTCAAACC-CAG
* * * *
833499 TTTTATTTCTAAAACACCTATTTTTCACCATCGGGGATACTCCAACCTCGTTATTTCTGAGGGGA
1 TTTTATTTCTAAAACATCTATTTTCCACCATCGGGGATACTCTAACCCCGTTATTTCTGAGGGGA
* * * *
833564 TACTCCAACCCTATTTTTCATTTTTAAAATA-TCGATTTTTCACGATCAGAGATACTTCAACCCC
66 TACTCCAACCCCATTTTT-ATTTCTAAAATACT-GATTTTTCACAATCAGAGATACTCCAACCCC
* *
833628 ATTATTTTCGAGGGGATACTCTAATCCCGG
129 ATTATTTT-GAGGGGATACTC-AAACCCAG
* * * * * *
833658 TTTTATTTCTAAAACATCAATTTTCCACAATTGGGGATACTCTAAACCCATTATTTTTGAGGGGA
1 TTTTATTTCTAAAACATCTATTTTCCACCATCGGGGATACTCTAACCCCGTTATTTCTGAGGGGA
* *** * * * * * * * * *
833723 TACTCTAACCCTGGTATTATTT-TCAAAACATTGATTTTCCACCATCGGGGATATTCCAACCCTA
66 TACTCCAACCCCATTTTTATTTCT-AAAATACTGATTTTTCACAATCAGAGATACTCCAACCCCA
*
833787 TTATTTTAAGGGGATACTC
130 TTATTTTGAGGGGATACTC
833806 CAATTTCGTT
Statistics
Matches: 391, Mismatches: 64, Indels: 23
0.82 0.13 0.05
Matches are distributed among these distances:
157 12 0.03
158 118 0.30
159 255 0.65
160 6 0.02
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (156 bp):
TTTTATTTCTAAAACATCTATTTTCCACCATCGGGGATACTCTAACCCCGTTATTTCTGAGGGGA
TACTCCAACCCCATTTTTATTTCTAAAATACTGATTTTTCACAATCAGAGATACTCCAACCCCAT
TATTTTGAGGGGATACTCAAACCCAG
Found at i:833664 original size:238 final size:235
Alignment explanation
Indices: 833182--833808 Score: 692
Period size: 238 Copynumber: 2.6 Consensus size: 235
833172 TTATTCATGT
* * * * *
833182 TTTTATTTCTAAAATATCGATTTTCCACCATCGGGGATACTCTAATCCCGTTGTTTCTAAAAGGA
1 TTTTATTTCTAAAATATCGATTTTCCACAATCGGGGATACTCTAAACCCGTTATTTCTGAGAGGA
* * * * * * *
833247 TACTCTAACCCCAATTTTATTTCCAAAACACCAATTATCCACAATTGGGGATACTCTAAACCCAT
66 TACTCTAA-CCCAGTTTTATTTCTAAAACACCTATTTTCCACCATCGGGGATACTC-CAACCCAT
* *
833312 TATTTTTGAGGGGATACTCCAACCCTAGTTTTATTTCTAAAACATTGATTTTCTACCATCAGGGA
129 TA-TTTTGAGGGGATACTCCAACCCTAGTTTTATTTCTAAAACATCGATTTTCTACCATCAGAGA
* *
833377 TACTCTAACCCCGTTATTTCTGAGGGGATACTCCAACCCCAGT
193 TACTCTAACCCCATTATTTCTGAGGGGATACTCCAACCCCAGG
* * * * * *
833420 TTTTATTTCTAAAATA-CTGATTTTTCACAATCAGAGATGCTCCAACCCCGTTATTTCTGAGAGG
1 TTTTATTTCTAAAATATC-GATTTTCCACAATCGGGGATACTCTAAACCCGTTATTTCTGAGAGG
* * *
833484 ATACTCAAACCTCAGTTTTATTTCTAAAACACCTATTTTTCACCATCGGGGATACTCCAACCTCG
65 ATACTCTAACC-CAGTTTTATTTCTAAAACACCTATTTTCCACCATCGGGGATACTCCAACC-CA
* * * *
833549 TTATTTCTGAGGGGATACTCCAACCCTATTTTTCATTTTTAAAATATCGATTTT-TCACGATCAG
128 TTATTT-TGAGGGGATACTCCAACCCTAGTTTT-ATTTCTAAAACATCGATTTTCT-ACCATCAG
* *
833613 AGATACT-TCAACCCCATTATTT-TCGAGGGGATACTCTAATCCC-GG
190 AGATACTCT-AACCCCATTATTTCT-GAGGGGATACTCCAACCCCAGG
* * * * * *
833658 TTTTATTTCTAAAACATCAATTTTCCACAATTGGGGATACTCTAAACCCATTATTTTTGAGGGGA
1 TTTTATTTCTAAAATATCGATTTTCCACAATCGGGGATACTCTAAACCCGTTATTTCTGAGAGGA
* * * *
833723 TACTCTAACCCTGGTATTATTT-TCAAAACA-TTGATTTTCCACCATCGGGGATATTCCAACCCT
66 TACTCTAACCC-AGTTTTATTTCT-AAAACACCT-ATTTTCCACCATCGGGGATACTCCAACCC-
*
833786 ATTATTTTAAGGGGATACTCCAA
127 ATTATTTTGAGGGGATACTCCAA
833809 TTTCGTTTTT
Statistics
Matches: 326, Mismatches: 50, Indels: 27
0.81 0.12 0.07
Matches are distributed among these distances:
237 29 0.09
238 237 0.73
239 60 0.18
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (235 bp):
TTTTATTTCTAAAATATCGATTTTCCACAATCGGGGATACTCTAAACCCGTTATTTCTGAGAGGA
TACTCTAACCCAGTTTTATTTCTAAAACACCTATTTTCCACCATCGGGGATACTCCAACCCATTA
TTTTGAGGGGATACTCCAACCCTAGTTTTATTTCTAAAACATCGATTTTCTACCATCAGAGATAC
TCTAACCCCATTATTTCTGAGGGGATACTCCAACCCCAGG
Found at i:836648 original size:63 final size:63
Alignment explanation
Indices: 836539--836677 Score: 260
Period size: 63 Copynumber: 2.2 Consensus size: 63
836529 ATTACAGTTG
836539 ATTCATATAGATGTCTCAAGCCCTCAAAGAATACTTTCTCTAAAAAGTATTCTTTATTATATTGC
1 ATTCAT-TA-ATGTCTCAAGCCCTCAAAGAATACTTTCTCTAAAAAGTATTCTTTATTATATTGC
836604 ATTCATTAATGTCTCAAGCCCTCAAAGAATACTTTCTCTAAAAAGTATTCTTTATTATATTGC
1 ATTCATTAATGTCTCAAGCCCTCAAAGAATACTTTCTCTAAAAAGTATTCTTTATTATATTGC
836667 ATTCATTAATG
1 ATTCATTAATG
836678 ACTTCACCTG
Statistics
Matches: 74, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
63 66 0.89
64 2 0.03
65 6 0.08
ACGTcount: A:0.34, C:0.18, G:0.09, T:0.40
Consensus pattern (63 bp):
ATTCATTAATGTCTCAAGCCCTCAAAGAATACTTTCTCTAAAAAGTATTCTTTATTATATTGC
Found at i:842257 original size:13 final size:13
Alignment explanation
Indices: 842239--842265 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
842229 ACATTATGCT
842239 TTGTATCGATACA
1 TTGTATCGATACA
842252 TTGTATCGATACA
1 TTGTATCGATACA
842265 T
1 T
842266 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:842295 original size:20 final size:19
Alignment explanation
Indices: 842249--842304 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
842239 TTGTATCGAT
*
842249 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
* *
842268 TCATTGTATCAATACATGG
1 ACATTGTATCGATACATGG
842287 ACAATTGTATCGATACAT
1 AC-ATTGTATCGATACAT
842305 AAAATTGGCA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:848569 original size:12 final size:13
Alignment explanation
Indices: 848545--848583 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
848535 ACAACATTCC
848545 TTGTATCGATACA
1 TTGTATCGATACA
848558 TTGTAT-GATACA
1 TTGTATCGATACA
848570 TTGTATCGATACA
1 TTGTATCGATACA
848583 T
1 T
848584 GGGTTACTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 12 0.48
13 13 0.52
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:849552 original size:13 final size:13
Alignment explanation
Indices: 849534--849559 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
849524 CAATTTTTTG
849534 TGTATCGATACAT
1 TGTATCGATACAT
849547 TGTATCGATACAT
1 TGTATCGATACAT
849560 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:852120 original size:13 final size:13
Alignment explanation
Indices: 852102--852140 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
852092 ATAATCACCC
*
852102 TGTATCGATACAG
1 TGTATCGATACAA
852115 TGTATCGATACAA
1 TGTATCGATACAA
852128 TGTATCGATACAA
1 TGTATCGATACAA
852141 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:852151 original size:20 final size:20
Alignment explanation
Indices: 852126--852204 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
852116 GTATCGATAC
852126 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
852146 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
852171 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
852191 CATGTATCGATACA
1 AATGTATCGATACA
852205 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:856081 original size:21 final size:21
Alignment explanation
Indices: 856052--856096 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
856042 AAGTTTTCAT
*
856052 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
856072 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
856094 TTT
1 TTT
856097 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:858328 original size:13 final size:13
Alignment explanation
Indices: 858310--858335 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
858300 CAATTTTTTG
858310 TGTATCGATACAT
1 TGTATCGATACAT
858323 TGTATCGATACAT
1 TGTATCGATACAT
858336 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:860439 original size:17 final size:17
Alignment explanation
Indices: 860417--860450 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
860407 GAGAAATGCT
860417 TTGATTAAGGGGGAGAA
1 TTGATTAAGGGGGAGAA
860434 TTGATTAAGGGGGAGAA
1 TTGATTAAGGGGGAGAA
860451 AAACAAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.41, T:0.24
Consensus pattern (17 bp):
TTGATTAAGGGGGAGAA
Found at i:861047 original size:20 final size:19
Alignment explanation
Indices: 860997--861050 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
860987 ACATTATGCT
**
860997 TTGTATCGATACATGTTCA
1 TTGTATCGATACATGGACA
* *
861016 TTCTATCAATACATGGACAA
1 TTGTATCGATACATGGAC-A
861036 TTGTATCGATACATG
1 TTGTATCGATACATG
861051 AAATTGGCAG
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATGGACA
Found at i:862661 original size:79 final size:80
Alignment explanation
Indices: 862543--863047 Score: 348
Period size: 79 Copynumber: 6.3 Consensus size: 80
862533 ATTTTTGGTG
* * * ** * *
862543 AAAACCAGGGTTGGAGTATCCCCTCA-AGGATAATAGGGTTGGAGTATCCCCAGAGATAAAAAAA
1 AAAAACAGGGTTAGAGTATCCCTTCAGA-GATGGTGGGGTTGGAGTATCCCCAAAGATAAAAAAA
*
862607 TCGATGTTTTAAAAGT
65 TCGATGTTTTAGAAGT
** * * * * * * *
862623 AAAAATGGGGTT-GAGTATCCCTTCGGAGATGGTGGGGTTGAAGTATCCTCAGAGATGAAATATT
1 AAAAACAGGGTTAGAGTATCCCTTCAGAGATGGTGGGGTTGGAGTATCCCCAAAGATAAAAAAAT
* * *
862687 TGGTGTTTTGGAAGT
66 CGATGTTTTAGAAGT
* * * ** * * *
862702 AAAAAC-GAGATTAGAGTATCCCTTCAGAGATAGTAGGGTTAAAGCATCTCGAAAGATAAAAAAA
1 AAAAACAG-GGTTAGAGTATCCCTTCAGAGATGGTGGGGTTGGAGTATCCCCAAAGAT---AAAA
*
862766 AAAT-GACGTTTTAGAAG-
62 AAATCGATGTTTTAGAAGT
* ***
862783 AAAAACAGGGTTAGAGTATCCCTTCAAAGATGGTGGGGTTGGAGTATCCCCAAAGATGAAAATTT
1 AAAAACAGGGTTAGAGTATCCCTTCAGAGATGGTGGGGTTGGAGTATCCCCAAAGAT-AAAAAAA
* *
862848 TGGCA-G-TTTGGAAGT
65 TCG-ATGTTTTAGAAGT
* * * * * * * *
862863 AAAAACGGGGTTGGAGTAT-CCTCTCGGAGA-GGTAGGGTTTGAGTATCCCCAAATATGAAAAAT
1 AAAAACAGGGTTAGAGTATCCCT-TCAGAGATGGTGGGGTTGGAGTATCCCCAAAGATAAAAAAA
*
862926 TC-ATCATTTTAGAAGT
65 TCGAT-GTTTTAGAAGT
* * * * * **
862942 AAAAACAGGATTGGTGTATCCCCTCAGAGATGGTGGGGTTGGAGTATCCTCGGAGATAAAAAAAT
1 AAAAACAGGGTTAGAGTATCCCTTCAGAGATGGTGGGGTTGGAGTATCCCCAAAGATAAAAAAA-
863007 TC-AGTGTTTTAGAAGT
65 TCGA-TGTTTTAGAAGT
* *
863023 GAAAACTAGGGTTAGAGTACCCCTT
1 AAAAAC-AGGGTTAGAGTATCCCTT
863048 TTGATGTTTT
Statistics
Matches: 325, Mismatches: 81, Indels: 36
0.74 0.18 0.08
Matches are distributed among these distances:
76 1 0.00
78 6 0.02
79 127 0.39
80 96 0.30
81 65 0.20
82 25 0.08
83 5 0.02
ACGTcount: A:0.34, C:0.13, G:0.27, T:0.26
Consensus pattern (80 bp):
AAAAACAGGGTTAGAGTATCCCTTCAGAGATGGTGGGGTTGGAGTATCCCCAAAGATAAAAAAAT
CGATGTTTTAGAAGT
Found at i:862817 original size:161 final size:160
Alignment explanation
Indices: 862600--863003 Score: 424
Period size: 161 Copynumber: 2.5 Consensus size: 160
862590 CCCCAGAGAT
* * ** * *
862600 AAAAAAATCGATGTTTTAAAAGTAAAAATGGGGTTGAGTATCCCTTCGGAGATGGTGGGGTTGAA
1 AAAAAAAT-GACGTTTTAGAAGTAAAAACAGGGTTGAGTATCCCTTCAGAGATGGTGGGGTTGGA
*
862665 GTATCCTCAGAGATG-AAATATTTGG-TGTTTTGGAAGTAAAAACGAGATTAGAGTATCC-CTTC
65 GTATCCTCAGAGATGAAAAT-TTTGGCAG-TTTGGAAGTAAAAACGAGATTAGAGTATCCTC-TC
* *
862727 AGAGATAGTAGGGTTAAAGCATCTCGAAAGATAAA
127 AGAGA-AGTAGGGTTAAAGCATCCCCAAAGATAAA
*
862762 AAAAAAATGACGTTTTAGAAG-AAAAACAGGGTTAGAGTATCCCTTCAAAGATGGTGGGGTTGGA
1 AAAAAAATGACGTTTTAGAAGTAAAAACAGGGTT-GAGTATCCCTTCAGAGATGGTGGGGTTGGA
* * * * * *
862826 GTATCCCCAAAGATGAAAATTTTGGCAGTTTGGAAGTAAAAACGGGGTTGGAGTATCCTCTCGGA
65 GTATCCTCAGAGATGAAAATTTTGGCAGTTTGGAAGTAAAAACGAGATTAGAGTATCCTCTCAGA
* ** * * *
862891 GAGGTAGGGTTTGAGTATCCCCAAATATGAA
130 GAAGTAGGGTTAAAGCATCCCCAAAGATAAA
*** * * * *
862922 AAATTCAT--CATTTTAGAAGTAAAAACAGGATTGGTGTATCCCCTCAGAGATGGTGGGGTTGGA
1 AAAAAAATGACGTTTTAGAAGTAAAAACAGGGTT-GAGTATCCCTTCAGAGATGGTGGGGTTGGA
* *
862985 GTATCCTCGGAGATAAAAA
65 GTATCCTCAGAGATGAAAA
863004 AATTCAGTGT
Statistics
Matches: 202, Mismatches: 35, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
158 10 0.05
159 53 0.26
160 36 0.18
161 89 0.44
162 14 0.07
ACGTcount: A:0.35, C:0.12, G:0.27, T:0.26
Consensus pattern (160 bp):
AAAAAAATGACGTTTTAGAAGTAAAAACAGGGTTGAGTATCCCTTCAGAGATGGTGGGGTTGGAG
TATCCTCAGAGATGAAAATTTTGGCAGTTTGGAAGTAAAAACGAGATTAGAGTATCCTCTCAGAG
AAGTAGGGTTAAAGCATCCCCAAAGATAAA
Found at i:865496 original size:51 final size:50
Alignment explanation
Indices: 865405--865503 Score: 137
Period size: 51 Copynumber: 2.0 Consensus size: 50
865395 GTAATTGATA
* * * *
865405 AATTTGGGTCAAAAACCAAAATGTATCGATACTATGAAAAATGTATAGAT
1 AATTTGAGTCAAAAACCAAAATGTATCGATAATATAAAAAATGCATAGAT
865455 AATTTGAGTCAAAAACCCAAAATGTATCGA-AATAATAAAAAATGCATAG
1 AATTTGAGTCAAAAA-CCAAAATGTATCGATAAT-ATAAAAAATGCATAG
865504 GTACATTTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
50 16 0.37
51 27 0.63
ACGTcount: A:0.49, C:0.11, G:0.14, T:0.25
Consensus pattern (50 bp):
AATTTGAGTCAAAAACCAAAATGTATCGATAATATAAAAAATGCATAGAT
Done.