Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold349
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: 1036866
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 3 of 6
Found at i:362597 original size:13 final size:13
Alignment explanation
Indices: 362579--362603 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
362569 ATTACTCACA
362579 TGTATCGATACAT
1 TGTATCGATACAT
362592 TGTATCGATACA
1 TGTATCGATACA
362604 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:362740 original size:52 final size:52
Alignment explanation
Indices: 362612--362732 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
362602 CACTGATCTT
*
362612 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
362664 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
362716 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
362733 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:368647 original size:21 final size:20
Alignment explanation
Indices: 368621--368668 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
368611 GATGTGCTTA
368621 AAAAGAAAGAAGAAGAATTAG
1 AAAAGAAAGAAG-AGAATTAG
* *
368642 AAAAGAAAATAAGTGAATTAG
1 AAAAG-AAAGAAGAGAATTAG
368663 AAAAGA
1 AAAAGA
368669 TGATAATTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.71
22 6 0.25
ACGTcount: A:0.67, C:0.00, G:0.21, T:0.12
Consensus pattern (20 bp):
AAAAGAAAGAAGAGAATTAG
Found at i:372663 original size:13 final size:13
Alignment explanation
Indices: 372645--372669 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
372635 TGTGTTCGTA
372645 GTATCGATACAAT
1 GTATCGATACAAT
372658 GTATCGATACAA
1 GTATCGATACAA
372670 AGGCACTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (13 bp):
GTATCGATACAAT
Found at i:373007 original size:19 final size:19
Alignment explanation
Indices: 372983--373050 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
372973 AATTCAACGA
372983 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
373002 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
373017 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
373034 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
373051 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:373021 original size:32 final size:32
Alignment explanation
Indices: 372985--373047 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
372975 TTCAACGATT
*
372985 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
373017 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
373048 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:373022 original size:13 final size:13
Alignment explanation
Indices: 373004--373028 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
372994 ACATAAGTTT
373004 TGTATCGATACAA
1 TGTATCGATACAA
373017 TGTATCGATACA
1 TGTATCGATACA
373029 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:373108 original size:13 final size:13
Alignment explanation
Indices: 373090--373116 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
373080 CATTTTTCTG
373090 TGTATCGATACAT
1 TGTATCGATACAT
373103 TGTATCGATACAT
1 TGTATCGATACAT
373116 T
1 T
373117 TGGAAATTTT
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):
TGTATCGATACAT
Found at i:375577 original size:54 final size:50
Alignment explanation
Indices: 375451--375794 Score: 157
Period size: 52 Copynumber: 6.6 Consensus size: 50
375441 TTGAGTTTAT
* * *
375451 CAATTCTCCACAATCGAGGATATTCCAACTCCGATTTTATTTTCAAAACAC
1 CAATTCTTCACAATCG-GGATACTCCAACTCCGATTTTATTTCCAAAACAC
* * *
375502 TAATT-TTCTATAATCAGGGATACTCTAACTCCGATTTTATTTCCAAAAAAACAC
1 CAATTCTTC-ACAATC-GGGATACTCCAACTCCGATTTTATTTCC---AAAACAC
* * ** * *
375556 CAATTTCTTCACAATCGGGATACTCCAAC-CCG--TTAATCATCGGGGATACTC
1 CAA-TTCTTCACAATCGGGATACTCCAACTCCGATTTTAT-TTC--CAAAACAC
* * * * ** *
375607 CAACCCCGTTATTTC-CGA-GGGGATACTCCAACTCCGGTTTTATCGCTAAAACAC
1 CAA-----TT-CTTCACAATCGGGATACTCCAACTCCGATTTTATTTCCAAAACAC
* * * * *
375661 TAATTTTTCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGC
1 CAATTCTT-CACAATC-GGGATACTCCAACTCC-GATTTTATTTCCAAAACAC
*
375713 CAATT-TTC-CTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATAC
1 CAATTCTTCAC---AATC-GGGATACTCCAACTCCGATTTTATTTCC-AAAACAC
* *
375766 CAATTTTTCACAATCGAGGATGCTCCAAC
1 CAATTCTTCACAATCG-GGATACTCCAAC
375795 CTCGTTATTT
Statistics
Matches: 222, Mismatches: 40, Indels: 61
0.69 0.12 0.19
Matches are distributed among these distances:
48 3 0.01
49 4 0.02
50 5 0.02
51 50 0.23
52 75 0.34
53 16 0.07
54 43 0.19
55 15 0.07
56 7 0.03
57 4 0.02
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (50 bp):
CAATTCTTCACAATCGGGATACTCCAACTCCGATTTTATTTCCAAAACAC
Found at i:375637 original size:28 final size:27
Alignment explanation
Indices: 375572--375638 Score: 82
Period size: 28 Copynumber: 2.5 Consensus size: 27
375562 CTTCACAATC
**
375572 GGGATACTCCAA-CCCGTTAATCATCG
1 GGGATACTCCAACCCCGTTAATCAGAG
* *
375598 GGGATACTCCAACCCCGTTATTTCCGAG
1 GGGATACTCCAACCCCGTTA-ATCAGAG
375626 GGGATACTCCAAC
1 GGGATACTCCAAC
375639 TCCGGTTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 12 0.34
27 7 0.20
28 16 0.46
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.22
Consensus pattern (27 bp):
GGGATACTCCAACCCCGTTAATCAGAG
Found at i:375689 original size:52 final size:51
Alignment explanation
Indices: 375625--375794 Score: 166
Period size: 52 Copynumber: 3.3 Consensus size: 51
375615 TTATTTCCGA
*
375625 GGGGATACTCCAACTCCGGTTTTATCGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACTCCGGTTTTATC-CTAAAACACCAATTTTTCCACAATC
** * **
375677 GGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAACTCC-GGTTTTATCCT-AAAACACCAATTTTTCC-ACAATC
* * *
375729 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAACTCCGGTTTTA--TCCTAAAACACCAATTTTTCCACAATC
* *
375781 GAGGATGCTCCAAC
1 GGGGATACTCCAAC
375795 CTCGTTATTT
Statistics
Matches: 95, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
51 10 0.11
52 68 0.72
53 12 0.13
54 5 0.05
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACTCCGGTTTTATCCTAAAACACCAATTTTTCCACAATC
Found at i:375819 original size:28 final size:28
Alignment explanation
Indices: 375783--375854 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
375773 TCACAATCGA
* * * **
375783 GGATGCTCCAACCTCGTTATTTCATTGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
*
375811 GGATACTCCAACCCCGTTACTTCCGAGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
375839 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
375855 GCTTTATTCC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.21, C:0.33, G:0.21, T:0.25
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTCAGAGG
Found at i:375823 original size:212 final size:210
Alignment explanation
Indices: 375457--375861 Score: 600
Period size: 212 Copynumber: 1.9 Consensus size: 210
375447 TTATCAATTC
* *
375457 TCCACAATCGAGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCAGGGA
1 TCCACAATCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCAGGGA
*
375522 TACTCTAACTCCGATTTTATTTCCAAAAAAACACCAATTTCTTCACAATCGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCC-AAAAAACACCAATTTCTTCACAATCGGGATACTCCAACCC
* * *
375587 GTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACTCCGGTTTTATCG
130 GTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATCG
375652 CTAAAACACTAATTTT
195 CTAAAACACTAATTTT
* * * * *
375668 TCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGG
1 TCCACAATCGAGGATACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCAGG
* *
375732 GATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATGCTCCAAC
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCG-GGATACTCCAAC
* *
375795 CTCGTTATTTCATTGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTT
128 C-CGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTT
375860 AT
191 AT
375862 TCCCAAAATA
Statistics
Matches: 174, Mismatches: 15, Indels: 9
0.88 0.08 0.05
Matches are distributed among these distances:
209 10 0.06
210 28 0.16
211 48 0.28
212 88 0.51
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.31
Consensus pattern (210 bp):
TCCACAATCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCAGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGATACTCCAACCCG
TTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATCGC
TAAAACACTAATTTT
Found at i:390802 original size:11 final size:10
Alignment explanation
Indices: 390786--390853 Score: 57
Period size: 11 Copynumber: 6.5 Consensus size: 10
390776 CCTTCATACC
390786 AAAAAAAACA
1 AAAAAAAACA
390796 GAAAAAAAAC-
1 -AAAAAAAACA
*
390806 AAAAAAACCAA
1 AAAAAAAAC-A
390817 AAAAAAAACTA
1 AAAAAAAAC-A
* *
390828 AAAAACTAAGA
1 AAAAA-AAACA
*
390839 AAAAATAACA
1 AAAAAAAACA
390849 AAAAA
1 AAAAA
390854 CAGAAAGGGG
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
9 8 0.17
10 9 0.19
11 29 0.60
12 2 0.04
ACGTcount: A:0.82, C:0.10, G:0.03, T:0.04
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:390811 original size:19 final size:19
Alignment explanation
Indices: 390787--390859 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
390777 CTTCATACCA
390787 AAAAAAACAGAAAAAAAAC
1 AAAAAAACAGAAAAAAAAC
*
390806 AAAAAAACCAAAAAAAAAAC
1 AAAAAAA-CAGAAAAAAAAC
*
390826 TAAAAAACTAAGAAAAAATAAC
1 AAAAAAAC--AGAAAAAA-AAC
390848 -AAAAAACAGAAA
1 AAAAAAACAGAAA
390860 GGGGTCCAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
19 13 0.28
20 17 0.36
21 14 0.30
22 3 0.06
ACGTcount: A:0.81, C:0.11, G:0.04, T:0.04
Consensus pattern (19 bp):
AAAAAAACAGAAAAAAAAC
Found at i:392094 original size:28 final size:28
Alignment explanation
Indices: 392054--392921 Score: 1024
Period size: 28 Copynumber: 30.6 Consensus size: 28
392044 ACGTTCATCT
*
392054 TTTCAAAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
392082 TTTTAAATCCCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
392110 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
392138 TTTCAAAGCCCACAAGTTAATGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
392166 TTTCAAAGCCCACAAGTCAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
392194 TTTCAAAG-CCATAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
392221 TTTCAAAGCCCACACAAGTCAGTGGCACCC
1 TTTCAAAG-CC-CACAAGTCAGTGGCACCC
* *
392251 TTTCAAAGCCCATAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
** *
392280 TTTCAAAGCATACAAGTCAGTGGCACCA
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * **
392308 TTTCAAAGCCCACAAGTCAATGACACTTT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
*
392337 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
392365 TTTCAAAGCCCACAAGTGAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
392393 TTTCAAAGCCCACAAGTTAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
** *
392421 TTTCAAAGCCCATGAGTCAGTGGCAACTCT
1 TTTCAAAGCCCACAAGTCAGTGGC-AC-CC
*
392451 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
392479 TTTCAAGGCCCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
392507 TTTCAAAGCCTACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
392535 TTTCAAAGCCCACGAGTCAGTGGCAACTCT
1 TTTCAAAGCCCACAAGTCAGTGGC-AC-CC
392565 TTTCAAAGCCCACAAGTCAGTGG-ACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
392592 -TTCGAAAGCCCATAAGTCAGTGGCATCC
1 TTTC-AAAGCCCACAAGTCAGTGGCACCC
** * **
392620 TTTCAAAGCCCATGAGTGAGTGGCAACTTT
1 TTTCAAAGCCCACAAGTCAGTGGC-AC-CC
* * * *
392650 TTTCAAAGCTCACAGGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
392678 TTTC-AAGCCCACAAGTGAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
392705 TTTCAAAGCCCACGCAAGTTAGTGGCACCC
1 TTTCAAAGCCCA--CAAGTCAGTGGCACCC
* * *
392735 TTTCAAAGCCCACAAGTCTGTAGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
*
392764 TTTCAAAGCCCACAAGTCAATGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
392792 TTTCAAAGCCCACAAGTTAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* * *
392821 TTTCAAAGCCCACAAGTTAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
**
392849 TTTCAAAGCCCACAAGTTTGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
392877 TTTCGAAGCCAACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
392906 TTTCAAAGCCCACAAG
1 TTTCAAAGCCCACAAG
392922 CTAGTGGTAA
Statistics
Matches: 726, Mismatches: 94, Indels: 39
0.85 0.11 0.05
Matches are distributed among these distances:
26 3 0.00
27 67 0.09
28 415 0.57
29 123 0.17
30 118 0.16
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCC
Found at i:392927 original size:85 final size:85
Alignment explanation
Indices: 392054--392945 Score: 1034
Period size: 85 Copynumber: 10.4 Consensus size: 85
392044 ACGTTCATCT
* * *
392054 TTTCAAAGCCCACAAGTTAGTGGCACCCTTTT-AAATCCCACAAGTCAGTGGCATCCTTTCAAAG
1 TTTCAAAGCCCACAAGTTAGTGGCA-TCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
392118 CCCACAAGTCAGTGGCAC-CC
65 CCCACAAGTCAGTGGCACTCC
* * * *
392138 TTTCAAAGCCCACAAGTTAATGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAG-
1 TTTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
*
392202 CCATAAGTCAGTGGCAC-CC
66 CCACAAGTCAGTGGCACTCC
* * * * *
392221 TTTCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAGCCCATAAGTCAGTGGCACTCTTTTCAA
1 TTTCAAAG-CC-CACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAA
** *
392286 AGCATACAAGTCAGTGGCAC-CA
63 AGCCCACAAGTCAGTGGCACTCC
* * * * *
392308 TTTCAAAGCCCACAAGTCAATGACACTTTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAG
1 TTTCAAAGCCCACAAGTTAGTGGCA-TCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
*
392373 CCCACAAGTGAGTGGCA-TCC
65 CCCACAAGTCAGTGGCACTCC
** *
392393 TTTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCATGAGTCAGTGGCAACTCTTTTCAAA
1 TTTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGC-AC-CCTTTCAAA
392458 GCCCACAAGTCAGTGGCA-TCC
64 GCCCACAAGTCAGTGGCACTCC
* * * * *
392479 TTTCAAGGCCCACAAGTCAGTGGCATCCTTTCAAAGCCTACAAGTCAGTGGCATCCTTTCAAAGC
1 TTTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* *
392544 CCACGAGTCAGTGGCAACTCT
66 CCACAAGTCAGTGGC-ACTCC
* ** * *
392565 TTTCAAAGCCCACAAGTCAGTGG-A-CCCTTCGAAAGCCCATAAGTCAGTGGCATCCTTTCAAAG
1 TTTCAAAGCCCACAAGTTAGTGGCATCTTTTC-AAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
** * **
392628 CCCATGAGTGAGTGGCAACTTT
65 CCCACAAGTCAGTGGC-ACTCC
* * * *
392650 TTTCAAAGCTCACAGGTTAGTGGCATCCTTTC-AAGCCCACAAGTGAGTGGCACCCTTTCAAAGC
1 TTTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
*
392714 CCACGCAAGTTAGTGGCAC-CC
66 CCA--CAAGTCAGTGGCACTCC
* *
392735 TTTCAAAGCCCACAAGTCT-GTAGCACTCTTTTCAAAGCCCACAAGTCAATGGCACCCTTTCAAA
1 TTTCAAAGCCCACAAGT-TAGTGGCA-TCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
* *
392799 GCCCACAAGTTAGTGGCACTCT
64 GCCCACAAGTCAGTGGCACTCC
** *
392821 TTTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTTTGTGGCACCCTTTCGAAGC
1 TTTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* *
392886 CAACAAGTCAGTGGCACTCT
66 CCACAAGTCAGTGGCACTCC
* *
392906 TTTCAAAGCCCACAAGCTAGTGGTAACTCTTTTCAAAGCC
1 TTTCAAAGCCCACAAGTTAGTGG-CA-TCTTTTCAAAGCC
392946 TACACGAGTC
Statistics
Matches: 704, Mismatches: 81, Indels: 43
0.85 0.10 0.05
Matches are distributed among these distances:
83 31 0.04
84 108 0.15
85 316 0.45
86 166 0.24
87 83 0.12
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.24
Consensus pattern (85 bp):
TTTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
CCACAAGTCAGTGGCACTCC
Found at i:392928 original size:114 final size:113
Alignment explanation
Indices: 392049--392921 Score: 1069
Period size: 114 Copynumber: 7.7 Consensus size: 113
392039 CTAGAACGTT
* * * *
392049 CATCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTTAAATCCCACAAGTCAGTGGCA-TCCTTT
1 CATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTT
* *
392113 CAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAATGG
66 CAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGG
* * *
392161 CACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAG-CCATAAGTCAGTGGCAC-CCTTT
1 CATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTT
*
392224 CAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAGCCCATAAGTCAGTGG
66 CAAAG-CC-CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGG
* ** * * * **
392274 CACTCTTTTCAAAGCATACAAGTCAGTGGCACCATTTCAAAGCCCACAAGTCAATGACACTTTTT
1 CA-TCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTT
* *
392339 TCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTGAGTGG
65 TCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGG
* * * ** *
392388 CATCCTTTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCATGAGTCAGTGGCAACTCTTT
1 CATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC-ACTCCTT
* *
392453 TCAAAGCCCACAAGTCAGTGGCATCCTTTCAAGGCCCACAAGTCAGTGG
65 TCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGG
* * * *
392502 CATCCTTTCAAAGCCTACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGTCAGTGGCAACTCTTT
1 CATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC-ACTCCTT
*
392567 TCAAAGCCCACAAGTCAGTGG-ACCC-TTCGAAAGCCCATAAGTCAGTGG
65 TCAAAGCCCACAAGTCAGTGGCACCCTTTC-AAAGCCCACAAGTCAGTGG
** * ** * * *
392615 CATCCTTTCAAAGCCCATGAGTGAGTGGCAACTTTTTTCAAAGCTCACAGGTTAGTGGCA-TCCT
1 CATCCTTTCAAAGCCCACAAGTCAGTGGC-AC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCT
* *
392679 TTC-AAGCCCACAAGTGAGTGGCACCCTTTCAAAGCCCACGCAAGTTAGTGG
64 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCA--CAAGTCAGTGG
* * * * *
392730 CACCCTTTCAAAGCCCACAAGTCTGTAGCACTCTTTTCAAAGCCCACAAGTCAATGGCAC-CCTT
1 CATCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTT
* * *
392794 TCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGG
65 TCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGG
* ** * * *
392844 CATCTTTTCAAAGCCCACAAGTTTGTGGCACCCTTTCGAAGCCAACAAGTCAGTGGCACTCTTTT
1 CATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTT
392909 CAAAGCCCACAAG
66 CAAAGCCCACAAG
392922 CTAGTGGTAA
Statistics
Matches: 662, Mismatches: 81, Indels: 34
0.85 0.10 0.04
Matches are distributed among these distances:
111 25 0.04
112 57 0.09
113 172 0.26
114 299 0.45
115 88 0.13
116 21 0.03
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (113 bp):
CATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTT
CAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGG
Found at i:392971 original size:32 final size:31
Alignment explanation
Indices: 392705--392992 Score: 143
Period size: 28 Copynumber: 9.8 Consensus size: 31
392695 AGTGGCACCC
* * * *
392705 TTTCAAAGCCCACGCAAGTTAGTGG-CAC-CC
1 TTTCAAAG-CCACACAAGCTAGTGGAAACTCT
* *
392735 TTTCAAAGCC-CACAAGTCT-GTAG-CACTCT
1 TTTCAAAGCCACACAAG-CTAGTGGAAACTCT
* * *
392764 TTTCAAAGCC-CACAAG-TCAATGG-CAC-CC
1 TTTCAAAGCCACACAAGCT-AGTGGAAACTCT
* *
392792 TTTCAAAGCC-CACAAGTTAGTGG-CACTCT
1 TTTCAAAGCCACACAAGCTAGTGGAAACTCT
* *
392821 TTTCAAAGCC-CACAAGTTAGTGG-CA-TCT
1 TTTCAAAGCCACACAAGCTAGTGGAAACTCT
* * * *
392849 TTTCAAAGCC-CACAAGTTTGTGG-CAC-CC
1 TTTCAAAGCCACACAAGCTAGTGGAAACTCT
* *
392877 TTTCGAAGCCA-ACAAG-TCAGTGG-CACTCT
1 TTTCAAAGCCACACAAGCT-AGTGGAAACTCT
*
392906 TTTCAAAGCC-CACAAGCTAGTGGTAACTCT
1 TTTCAAAGCCACACAAGCTAGTGGAAACTCT
* *
392936 TTTCAAAGCCTACACGAG-TCGGTGGAAACTCT
1 TTTCAAAGCC-ACACAAGCT-AGTGGAAACTCT
* *
392968 TTTCAAGGCCCACACAAGTTAGTGG
1 TTTCAAAG-CCACACAAGCTAGTGG
392993 CACAACTTTT
Statistics
Matches: 218, Mismatches: 22, Indels: 34
0.80 0.08 0.12
Matches are distributed among these distances:
27 2 0.01
28 84 0.39
29 72 0.33
30 24 0.11
31 1 0.00
32 32 0.15
33 3 0.01
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (31 bp):
TTTCAAAGCCACACAAGCTAGTGGAAACTCT
Found at i:393903 original size:20 final size:20
Alignment explanation
Indices: 393880--393954 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
393870 AAGTATCCAG
*
393880 ATGTATCGATACATTTTTTA
1 ATGTATCGATACATTTTTCA
* * * *
393900 ATGTATTGATACATGTGTGA
1 ATGTATCGATACATTTTTCA
*
393920 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
*
393940 ATATATCGATACATT
1 ATGTATCGATACATT
393955 CTACCTTTTG
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:400890 original size:13 final size:13
Alignment explanation
Indices: 400872--400897 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
400862 TACACCAAGT
400872 ATGTATCGATACA
1 ATGTATCGATACA
400885 ATGTATCGATACA
1 ATGTATCGATACA
400898 CAAAAACTTG
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:404990 original size:15 final size:15
Alignment explanation
Indices: 404962--405001 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
404952 ATAAAAATGT
* *
404962 TCAAATTGAGGAAGC
1 TCAAAATGAAGAAGC
404977 TCAAAATGAAGAAGC
1 TCAAAATGAAGAAGC
*
404992 TCCAAATGAA
1 TCAAAATGAA
405002 ATTGATGAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.47, C:0.15, G:0.20, T:0.17
Consensus pattern (15 bp):
TCAAAATGAAGAAGC
Found at i:407231 original size:20 final size:20
Alignment explanation
Indices: 407188--407234 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
407178 AAATCTTTTG
407188 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
407209 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
407229 CAAAAT
1 CAAAAT
407235 CAGCATCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.32, C:0.19, G:0.04, T:0.45
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:412278 original size:13 final size:13
Alignment explanation
Indices: 412260--412285 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
412250 GCAGGGTGGT
412260 TTGTATCGATACA
1 TTGTATCGATACA
412273 TTGTATCGATACA
1 TTGTATCGATACA
412286 AAACATATGT
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):
TTGTATCGATACA
Found at i:413065 original size:61 final size:61
Alignment explanation
Indices: 412990--413131 Score: 164
Period size: 61 Copynumber: 2.3 Consensus size: 61
412980 GGACATAAAG
* **
412990 ATGAT-AAGAGTGCCAATGTGCTGATTCA-AGGTTAGCAACATTGGACTTAAAGAT-ACGAAAA
1 ATGATAAAG-GTGCCAATATGCTGATTCACA-GCCAGCAACATTGGACTTAAAGATGA-GAAAA
* * * *
413051 ATGATAAAGGTGCCAATATTCTGATTCACAGCCAGCAATATTGGGCTTGAAGATGAGAAAA
1 ATGATAAAGGTGCCAATATGCTGATTCACAGCCAGCAACATTGGACTTAAAGATGAGAAAA
*
413112 ATGGTAAAGGTGCCAATATG
1 ATGATAAAGGTGCCAATATG
413132 TTTGTAGACA
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
61 64 0.93
62 5 0.07
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.25
Consensus pattern (61 bp):
ATGATAAAGGTGCCAATATGCTGATTCACAGCCAGCAACATTGGACTTAAAGATGAGAAAA
Found at i:413528 original size:33 final size:33
Alignment explanation
Indices: 413486--413549 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
413476 CAAGGAAATG
***
413486 TATCGATACATTTTTCTGTGTATCGATACATTA
1 TATCGATACATCGATCTGTGTATCGATACATTA
*
413519 TATCGATACATCGATCTTTGTATCGATACAT
1 TATCGATACATCGATCTGTGTATCGATACAT
413550 CTAGGAAGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.42
Consensus pattern (33 bp):
TATCGATACATCGATCTGTGTATCGATACATTA
Found at i:416140 original size:51 final size:51
Alignment explanation
Indices: 416013--416181 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
416003 TATTTTTTGA
* * *
416013 GGGGATACTCCAACCCCGATTTTATTTTTAAAATACCAATTTTCCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTCCACAATT
* *
416064 GGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAA-TTTCTCACAATT
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTC-CACAATT
** * * *
416115 GGGGATACTCCAACCCC-AGCCTTATTTCTAAAGCATCGATTTTCCACAATT
1 GGGGATACTCCAACCCCGA-TTTTATTTCTAAAACACCAATTTTCCACAATT
* *
416166 AGAGATACTCCAACCC
1 GGGGATACTCCAACCC
416182 TGTTATTTTC
Statistics
Matches: 101, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
50 5 0.05
51 92 0.91
52 4 0.04
ACGTcount: A:0.31, C:0.28, G:0.11, T:0.30
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTCCACAATT
Found at i:417243 original size:52 final size:52
Alignment explanation
Indices: 417186--417312 Score: 130
Period size: 52 Copynumber: 2.4 Consensus size: 52
417176 GCGACAATGT
* * * * *
417186 TGATTCAAAGCCAGCGATATTGGGC-TGAAAAATGCGAAGAATGCCAATGTGC
1 TGATTCAAAGCCAGCAACATTAGCCGTG-AAAATGAGAAGAATGCCAATGTGC
** * *
417238 TGATTCACGGCCAGCAACATTAGCCGTGAAGATGAGAAGAATGCCAATTTGC
1 TGATTCAAAGCCAGCAACATTAGCCGTGAAAATGAGAAGAATGCCAATGTGC
* * *
417290 TAATTCAAGGTCAGCAACATTAG
1 TGATTCAAAGCCAGCAACATTAG
417313 GCTTAGGAAG
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
52 60 0.97
53 2 0.03
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (52 bp):
TGATTCAAAGCCAGCAACATTAGCCGTGAAAATGAGAAGAATGCCAATGTGC
Found at i:417334 original size:52 final size:52
Alignment explanation
Indices: 417221--417410 Score: 163
Period size: 52 Copynumber: 3.7 Consensus size: 52
417211 TGAAAAATGC
* *
417221 GAAGAATGCCAATGTGCTGATTCACGGCCAGCAACATTAGCCGTGAAGATGA
1 GAAGAATGCCAATATGCTGATTCAAGGCCAGCAACATTAGCCGTGAAGATGA
* * * * *
417273 GAAGAATGCCAATTTGCTAATTCAAGGTCAGCAACATTAGGCTTAGGAAGAAT-A
1 GAAGAATGCCAATATGCTGATTCAAGGCCAGCAACATTAGCCGT--GAAG-ATGA
* * * * * *
417327 -AAG-ATGCCAATATGCTGATTCAAGGCTAGCAATATCAGACTTAAAGATGA
1 GAAGAATGCCAATATGCTGATTCAAGGCCAGCAACATTAGCCGTGAAGATGA
* * * *
417377 CAA-AGGTGCCAATATGCTTATTCAAGGCTAGCAA
1 GAAGA-ATGCCAATATGCTGATTCAAGGCCAGCAA
417411 TATCGAGTTT
Statistics
Matches: 115, Mismatches: 16, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
49 2 0.02
50 4 0.03
51 2 0.02
52 97 0.84
53 3 0.03
54 5 0.04
55 2 0.02
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.23
Consensus pattern (52 bp):
GAAGAATGCCAATATGCTGATTCAAGGCCAGCAACATTAGCCGTGAAGATGA
Found at i:417358 original size:104 final size:104
Alignment explanation
Indices: 417226--417564 Score: 319
Period size: 104 Copynumber: 3.3 Consensus size: 104
417216 AATGCGAAGA
* * * * * * *
417226 ATGCCAATGTGCTGATTCACGGCCAGCAACATTAGCCGTGAAGATGAGAAGAATGCCAATTTGCT
1 ATGCCAATATGCTGATTCAAGGCCAGCAACATTAGACTTGAAGATGAAAAGAGTGCCAATATGCT
417291 AATTCAAGGTCAGCAACATTAGGCTTAGGAAGAATAAAG
66 AATTCAAGGTCAGCAACATTAGGCTTAGGAAGAATAAAG
* * * *
417330 ATGCCAATATGCTGATTCAAGGCTAGCAATATCAGACTTAAAGATGACAAAG-GTGCCAATATGC
1 ATGCCAATATGCTGATTCAAGGCCAGCAACATTAGACTTGAAGATGA-AAAGAGTGCCAATATGC
* * * * * *
417394 TTATTCAAGG-CTAGCAATA-TCGAGTTTAAGAAAGAAAAAAG
65 TAATTCAAGGTC-AGCAACATTAG-GCTT-AGGAAGAATAAAG
* * * ** * * * *
417435 -TGCTAATGTGTTGATTCAAGGCCAGTGACATTGGATTTGAAGATAAAAAGAGCGCCAATATGCT
1 ATGCCAATATGCTGATTCAAGGCCAGCAACATTAGACTTGAAGATGAAAAGAGTGCCAATATGCT
* * *
417499 AATTCAAGGTCAGCGACATTGGGCTTAAGAATG-ATAAAG
66 AATTCAAGGTCAGCAACATTAGGCTTAGGAA-GAATAAAG
* *
417538 ACGCCAATATGCTGATTCAAAGCCAGC
1 ATGCCAATATGCTGATTCAAGGCCAGC
417565 GATATCAGAC
Statistics
Matches: 182, Mismatches: 44, Indels: 18
0.75 0.18 0.07
Matches are distributed among these distances:
103 15 0.08
104 150 0.82
105 17 0.09
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.24
Consensus pattern (104 bp):
ATGCCAATATGCTGATTCAAGGCCAGCAACATTAGACTTGAAGATGAAAAGAGTGCCAATATGCT
AATTCAAGGTCAGCAACATTAGGCTTAGGAAGAATAAAG
Found at i:417504 original size:52 final size:52
Alignment explanation
Indices: 417280--417566 Score: 167
Period size: 52 Copynumber: 5.5 Consensus size: 52
417270 TGAGAAGAAT
* * * * *
417280 GCCAATTTGCTAATTCAAGGTCAGCAACATTAGG-CTTAGGAA-GAATAAAGAT
1 GCCAATATGCTAATTCAAGGCCAGCGACATT-GGACTTAAGAATGAA-AAAGAC
* * * * ** * **
417332 GCCAATATGCTGATTCAAGGCTAGCAATATCAGACTTAA-AGATGACAAAGGT
1 GCCAATATGCTAATTCAAGGCCAGCGACATTGGACTTAAGA-ATGAAAAAGAC
* * * * * *
417384 GCCAATATGCTTATTCAAGGCTAGC-A-ATATCGAGTTTAAGAAAGAAAAA-AGT
1 GCCAATATGCTAATTCAAGGCCAGCGACAT-TGGA-CTTAAGAATGAAAAAGA-C
* * * * * *
417436 GCTAATGTGTTGATTCAAGGCCAGTGACATTGGATTTGAAG-AT-AAAAAGAGC
1 GCCAATATGCTAATTCAAGGCCAGCGACATTGGACTT-AAGAATGAAAAAGA-C
* * *
417488 GCCAATATGCTAATTCAAGGTCAGCGACATTGGGCTTAAGAATGATAAAGAC
1 GCCAATATGCTAATTCAAGGCCAGCGACATTGGACTTAAGAATGAAAAAGAC
* *
417540 GCCAATATGCTGATTCAAAGCCAGCGA
1 GCCAATATGCTAATTCAAGGCCAGCGA
417567 TATCAGACTC
Statistics
Matches: 184, Mismatches: 38, Indels: 26
0.74 0.15 0.10
Matches are distributed among these distances:
50 2 0.01
51 13 0.07
52 151 0.82
53 16 0.09
54 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (52 bp):
GCCAATATGCTAATTCAAGGCCAGCGACATTGGACTTAAGAATGAAAAAGAC
Found at i:419181 original size:21 final size:21
Alignment explanation
Indices: 419155--419195 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
419145 CACACTTTTA
419155 AGGAAAAAT-GTTATAAAATTC
1 AGGAAAAATCGTT-TAAAATTC
*
419176 AGGAAAATTCGTTTAAAATT
1 AGGAAAAATCGTTTAAAATT
419196 TTAAAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.49, C:0.05, G:0.15, T:0.32
Consensus pattern (21 bp):
AGGAAAAATCGTTTAAAATTC
Found at i:419541 original size:24 final size:24
Alignment explanation
Indices: 419514--419589 Score: 143
Period size: 24 Copynumber: 3.2 Consensus size: 24
419504 ATTCAAGATT
419514 CCAAACCTAGAAATTAAATTTACC
1 CCAAACCTAGAAATTAAATTTACC
*
419538 CCAAACCTTGAAATTAAATTTACC
1 CCAAACCTAGAAATTAAATTTACC
419562 CCAAACCTAGAAATTAAATTTACC
1 CCAAACCTAGAAATTAAATTTACC
419586 CCAA
1 CCAA
419590 GATTGTGTTG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.45, C:0.26, G:0.04, T:0.25
Consensus pattern (24 bp):
CCAAACCTAGAAATTAAATTTACC
Found at i:424289 original size:21 final size:21
Alignment explanation
Indices: 424258--424310 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
424248 ACAAGCTTGT
*
424258 GTATTAATACAAGCTCATGAA
1 GTATCAATACAAGCTCATGAA
*
424279 GTGTCAATACAAGCTCATGAA
1 GTATCAATACAAGCTCATGAA
*
424300 GTATCGATACA
1 GTATCAATACA
424311 TATTTTTGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (21 bp):
GTATCAATACAAGCTCATGAA
Found at i:426893 original size:105 final size:107
Alignment explanation
Indices: 426709--427168 Score: 390
Period size: 105 Copynumber: 4.3 Consensus size: 107
426699 TTGACTTCGG
* * * * *
426709 GGAAACTCCAA-CCTCACTACTCTGAGGGGATACTCTAACCTTATTCTTCA-CAAAAAGTCAAAA
1 GGAAACTCCAACCCTCACTACTCTAAGGGGATACTCTAATCTTATTCTTCATAAAAAAATCAAAT
**
426772 TTTCTCTTTGCCCCTAAA-AGTTTTCATAATTTTATCTTTGGA
66 TTTCTCTTTGTTCCTAAATA-TTTTCATAATTTTATCTTTGGA
* * * *
426814 GGAATCTCCAACCCT-ACAACTCTAAGGGGATACTCTAATCTTGTTCTTCATAAAAGAATC-AAT
1 GGAAACTCCAACCCTCACTACTCTAAGGGGATACTCTAATCTTATTCTTCATAAAAAAATCAAAT
* *
426877 TTTTTTTTTGTTCCTAAATATTTTCATAATTTTATCTTTGG-
66 TTTCTCTTTGTTCCTAAATATTTTCATAATTTTATCTTTGGA
* * * * *
426918 GGAAACTCTAA-CCTCACTACTCTGAA-GGAATACTCCAATCCTATTTTTCATAAAAAAATCAAA
1 GGAAACTCCAACCCTCACTACTCT-AAGGGGATACTCTAATCTTATTCTTCATAAAAAAATCAAA
** * **
426981 TCAAATTCTCTCTTTG-TCCTTAGGTGTTTTCATAATTTTAT-TTTCAA
65 T----TT-TCTCTTTGTTCC-TAAATATTTTCATAATTTTATCTTTGGA
* * * * ** ** *
427028 GGAAAACTCTAACCCT-ATTACTCTAAAGGGACACTCTAGGCGTCGTTCTTCATAAAAAAAT-AT
1 GG-AAACTCCAACCCTCACTACTCTAAGGGGATACTCTAATC-TTATTCTTCATAAAAAAATCAA
*
427091 ATTTTCTCTTTGTTCCTAAATATTTTCATAATTTTATCTTTAG-
64 ATTTTCTCTTTGTTCCTAAATATTTTCATAATTTTATCTTTGGA
** * * *
427134 GGATGCTCCAACCC-CACTTCTCTAATGAGATACTC
1 GGAAACTCCAACCCTCACTACTCTAAGGGGATACTC
427169 CAGCCCTGCT
Statistics
Matches: 282, Mismatches: 53, Indels: 40
0.75 0.14 0.11
Matches are distributed among these distances:
103 3 0.01
104 44 0.16
105 107 0.38
106 38 0.13
107 8 0.03
109 8 0.03
110 28 0.10
111 28 0.10
112 18 0.06
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (107 bp):
GGAAACTCCAACCCTCACTACTCTAAGGGGATACTCTAATCTTATTCTTCATAAAAAAATCAAAT
TTTCTCTTTGTTCCTAAATATTTTCATAATTTTATCTTTGGA
Found at i:427123 original size:216 final size:209
Alignment explanation
Indices: 426707--427170 Score: 513
Period size: 216 Copynumber: 2.2 Consensus size: 209
426697 TCTTGACTTC
* * * * *
426707 GGGGAAACTCCAACCTCACTACTCTGAGGGGATACTCTAACCTTATTCTTCACAAAAAGTCAAAA
1 GGGGAAACTCCAACCTCACTACTCTGAAGGAATACTCCAACCTTATTCTTCAAAAAAAATCAAAA
** *
426772 TTTCTCTTTGCCCCTAAAAGTTTTCATAATTTTATCTTTGGAGGAATCTCCAACCCTACAACTCT
66 TTTCTCTTTGCCCCTAAAAGTTTTCATAATTTTATCTTTCAAGGAAACTCCAACCCTACAACTCT
* * * * * * *
426837 AAGGGGATACTCTAATCTTGTTCTTCATAAAAGAATCAATTTTTTTTTTGTTCCTAAATATTTTC
131 AAAGGGACACTCTAAGCTCGTTCTTCATAAAAAAATCAATTTTCTCTTTGTTCCTAAATATTTTC
426902 ATAATTTTATCTTT
196 ATAATTTTATCTTT
* *
426916 GGGGAAACTCTAACCTCACTACTCTGAAGGAATACTCCAATCC-TATTTTTCATAAAAAAATCAA
1 GGGGAAACTCCAACCTCACTACTCTGAAGGAATACTCCAA-CCTTATTCTTCA-AAAAAAATC--
* * *** *
426980 ATCAAATTCTCTCTTTGTCCTTAGGTGTTTTCATAATTTTAT-TTTCAAGGAAAACTCTAACCCT
62 A--AAATT-TCTCTTTGCCCCTAAAAGTTTTCATAATTTTATCTTTCAAGG-AAACTCCAACCCT
** *
427044 ATTACTCTAAAGGGACACTCTAGGCGTCGTTCTTCATAAAAAAAT-ATATTTTCTCTTTGTTCCT
123 ACAACTCTAAAGGGACACTCTAAGC-TCGTTCTTCATAAAAAAATCA-ATTTTCTCTTTGTTCCT
427108 AAATATTTTCATAATTTTATCTTT
186 AAATATTTTCATAATTTTATCTTT
* ** * * *
427132 AGGGATGCTCCAACCCCACTTCTCT-AATGAGATACTCCA
1 GGGGAAACTCCAACCTCACTACTCTGAAGGA-ATACTCCA
427171 GCCCTGCTTT
Statistics
Matches: 211, Mismatches: 33, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
209 44 0.21
210 9 0.04
212 1 0.00
214 11 0.05
215 63 0.30
216 83 0.39
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (209 bp):
GGGGAAACTCCAACCTCACTACTCTGAAGGAATACTCCAACCTTATTCTTCAAAAAAAATCAAAA
TTTCTCTTTGCCCCTAAAAGTTTTCATAATTTTATCTTTCAAGGAAACTCCAACCCTACAACTCT
AAAGGGACACTCTAAGCTCGTTCTTCATAAAAAAATCAATTTTCTCTTTGTTCCTAAATATTTTC
ATAATTTTATCTTT
Found at i:430248 original size:20 final size:23
Alignment explanation
Indices: 430223--430275 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
430213 AAAAATGTGT
430223 ATAATTA-TT-ATAAATA-TAAA
1 ATAATTATTTAATAAATAGTAAA
430243 ATAATTATTTAATAAATAGTAAA
1 ATAATTATTTAATAAATAGTAAA
*
430266 ATAATCATTT
1 ATAATTATTT
430276 TATTCACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 7 0.24
21 2 0.07
22 7 0.24
23 13 0.45
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
ATAATTATTTAATAAATAGTAAA
Found at i:443356 original size:13 final size:13
Alignment explanation
Indices: 443338--443362 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
443328 CATGGCACAT
443338 TGTATCGATACAA
1 TGTATCGATACAA
443351 TGTATCGATACA
1 TGTATCGATACA
443363 TGATGAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:452549 original size:45 final size:45
Alignment explanation
Indices: 452498--452589 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 45
452488 TTACATTGCT
452498 TATTCAAACCAACAAATCGGATTTCTATCTTGTTGGTATATTCTC
1 TATTCAAACCAACAAATCGGATTTCTATCTTGTTGGTATATTCTC
*
452543 TATTCAAACCAACAAATCGGATTTCTATCTTGTTGGTATATTTTC
1 TATTCAAACCAACAAATCGGATTTCTATCTTGTTGGTATATTCTC
452588 TA
1 TA
452590 ATCTTTTCAC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.41
Consensus pattern (45 bp):
TATTCAAACCAACAAATCGGATTTCTATCTTGTTGGTATATTCTC
Found at i:455862 original size:44 final size:44
Alignment explanation
Indices: 455799--455886 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
455789 TTTGGATATG
* *
455799 CTGTTATGCTATCCGATTGACCGTAGAATTTTGTCAATAAGCGA
1 CTGTTATGCTACCCGATTGACCGTAGAATTTTATCAATAAGCGA
* *
455843 CTGTTATGCTGCCCGATTGACTGTAGAATTTTATCAATAAGCGA
1 CTGTTATGCTACCCGATTGACCGTAGAATTTTATCAATAAGCGA
455887 GTGATGGCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.34
Consensus pattern (44 bp):
CTGTTATGCTACCCGATTGACCGTAGAATTTTATCAATAAGCGA
Found at i:465897 original size:33 final size:33
Alignment explanation
Indices: 465852--465924 Score: 96
Period size: 34 Copynumber: 2.2 Consensus size: 33
465842 TCCTTCGTAC
* *
465852 CAAAAAAAAAAAAAAAA-CCAAAAA-AAACCAA
1 CAAAAAAAAAAAAAAAAGACAAAAACAAACAAA
*
465883 GAAAAAAAACAAAAAAAAGACAAAAACAAACAAA
1 CAAAAAAAA-AAAAAAAAGACAAAAACAAACAAA
465917 CAAAAAAA
1 CAAAAAAA
465925 GGGTCCAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 8 0.23
32 8 0.23
33 6 0.17
34 13 0.37
ACGTcount: A:0.84, C:0.14, G:0.03, T:0.00
Consensus pattern (33 bp):
CAAAAAAAAAAAAAAAAGACAAAAACAAACAAA
Found at i:465897 original size:34 final size:33
Alignment explanation
Indices: 465853--465924 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
465843 CCTTCGTACC
* * *
465853 AAAAAAAAAAAAAAAACCAAAAA-AAACCAAGA
1 AAAAAAAAAAAAAAAAACAAAAACAAACAAACA
*
465885 AAAAAAACAAAAAAAAGACAAAAACAAACAAACA
1 AAAAAAA-AAAAAAAAAACAAAAACAAACAAACA
465919 AAAAAA
1 AAAAAA
465925 GGGTCCAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 7 0.21
33 14 0.41
34 13 0.38
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.00
Consensus pattern (33 bp):
AAAAAAAAAAAAAAAAACAAAAACAAACAAACA
Found at i:467157 original size:28 final size:28
Alignment explanation
Indices: 467125--467610 Score: 313
Period size: 28 Copynumber: 16.7 Consensus size: 28
467115 CTAGAACGTT
* * *
467125 CATCTCTTCAAAGCCCATAGGTTAGTGG
1 CATCTCTTCAAAGCCCACAAGTCAGTGG
*
467153 CATCTTTTCAAAGCCCACAAGTCAGTGG
1 CATCTCTTCAAAGCCCACAAGTCAGTGG
**
467181 CATCTCTTCAAAAAACCACAAGTC-GATGG
1 CATCTCTTC-AAAGCCCACAAGTCAG-TGG
*
467210 CA-CCCTTTCAAAGCCCACACAAGTC-GATGG
1 CATCTC-TTCAAAG-CC-CACAAGTCAG-TGG
* * * *
467240 CAATTTTTTTCAAAGCCCACAATTCAATGG
1 C-A-TCTCTTCAAAGCCCACAAGTCAGTGG
467270 CATCTCTTCAAAAGCCCACAAGTCAGTGG
1 CATCTCTTC-AAAGCCCACAAGTCAGTGG
* *
467299 CA-CCCTTTTAAAGCCCACACAAGTC-GATGG
1 CATCTC-TTCAAAG-CC-CACAAGTCAG-TGG
* * *
467329 CAACTCTTTTTAAAGCCCACAAGTTAGTGG
1 C-A-TCTCTTCAAAGCCCACAAGTCAGTGG
* *
467359 CATCTCTTCAAAAGACCACAAGTTAGTGG
1 CATCTCTTC-AAAGCCCACAAGTCAGTGG
*
467388 CATC-CTTTCAAAGCCCACAAGTTAGTGG
1 CATCTC-TTCAAAGCCCACAAGTCAGTGG
* * * * *
467416 CATACCCTTCCAAAGCCTATAAATTAGTGG
1 CAT-CTCTT-CAAAGCCCACAAGTCAGTGG
* * *
467446 CA-CCCTTTCAAAGCCCACACAAATCCGTGG
1 CATCTC-TTCAAAG-CC-CACAAGTCAGTGG
* *
467476 CAACTGTTTTCAAAGCCCACAAGTCAGTGG
1 C-A-TCTCTTCAAAGCCCACAAGTCAGTGG
* *
467506 CA-CCCTTTCAAAGCCCACAAGTCAGTGA
1 CATCTC-TTCAAAGCCCACAAGTCAGTGG
* * * * *
467534 TAGCTTTTCACAGCCCACAAGTTAGTGG
1 CATCTCTTCAAAGCCCACAAGTCAGTGG
* * *
467562 AACCTCTTCAAAGCCCACAAGTCAGTGA
1 CATCTCTTCAAAGCCCACAAGTCAGTGG
*
467590 CATCCCCTTTCAAAGCCCACA
1 CAT-CTC-TTCAAAGCCCACA
467611 CAAGTTGGTA
Statistics
Matches: 366, Mismatches: 59, Indels: 64
0.75 0.12 0.13
Matches are distributed among these distances:
28 148 0.40
29 83 0.23
30 103 0.28
31 10 0.03
32 21 0.06
33 1 0.00
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (28 bp):
CATCTCTTCAAAGCCCACAAGTCAGTGG
Found at i:467233 original size:30 final size:28
Alignment explanation
Indices: 467158--467610 Score: 189
Period size: 30 Copynumber: 15.5 Consensus size: 28
467148 AGTGGCATCT
*
467158 TTTCAAAGCCCACAAGTC-AGTGGCA-TC
1 TTTCAAAGCCCACAAGTCGA-TGGCACCC
**
467185 TCTTCAAAAAACCACAAGTCGATGGCACCC
1 T-TTC-AAAGCCCACAAGTCGATGGCACCC
***
467215 TTTCAAAGCCCACACAAGTCGATGGCAATTTT
1 TTTCAAAG-CC-CACAAGTCGATGGC-A-CCC
* * *
467247 TTTCAAAGCCCACAATTCAATGGCA-TC
1 TTTCAAAGCCCACAAGTCGATGGCACCC
467274 TCTTCAAAAGCCCACAAGTC-AGTGGCACCC
1 T-TTC-AAAGCCCACAAGTCGA-TGGCACCC
* *
467304 TTTTAAAGCCCACACAAGTCGATGGCAACTCT
1 TTTCAAAG-CC-CACAAGTCGATGGC-AC-CC
* * *
467336 TTTTAAAGCCCACAAGT-TAGTGGCA-TC
1 TTTCAAAGCCCACAAGTCGA-TGGCACCC
* * *
467363 TCTTCAAAAGACCACAAGT-TAGTGGCATCC
1 T-TTC-AAAGCCCACAAGTCGA-TGGCACCC
*
467393 TTTCAAAGCCCACAAGT-TAGTGGCATACCC
1 TTTCAAAGCCCACAAGTCGA-TGGC--ACCC
* * * * *
467423 TTCCAAAGCCTATAAAT-TAGTGGCACCC
1 TTTCAAAGCCCACAAGTCGA-TGGCACCC
* **
467451 TTTCAAAGCCCACACAAATCCG-TGGCAACTGT
1 TTTCAAAG-CC-CACAAGT-CGATGGC-AC-CC
467483 TTTCAAAGCCCACAAGTC-AGTGGCACCC
1 TTTCAAAGCCCACAAGTCGA-TGGCACCC
** * *
467511 TTTCAAAGCCCACAAGTC-AGTGATAGCT
1 TTTCAAAGCCCACAAGTCGA-TGGCACCC
* * *
467539 TTTCACAGCCCACAAGT-TAGTGG-AACC
1 TTTCAAAGCCCACAAGTCGA-TGGCACCC
*
467566 TCTTCAAAGCCCACAAGTC-AGTGACATCCCC
1 T-TTCAAAGCCCACAAGTCGA-TGGCA--CCC
467597 TTTCAAAGCCCACA
1 TTTCAAAGCCCACA
467611 CAAGTTGGTA
Statistics
Matches: 342, Mismatches: 47, Indels: 71
0.74 0.10 0.15
Matches are distributed among these distances:
27 7 0.02
28 109 0.32
29 75 0.22
30 111 0.32
31 15 0.04
32 25 0.07
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCGATGGCACCC
Found at i:467257 original size:89 final size:90
Alignment explanation
Indices: 467157--467406 Score: 389
Period size: 89 Copynumber: 2.8 Consensus size: 90
467147 TAGTGGCATC
*
467157 TTTTCAAAGCCCACAAGTCAGTGGCATCTCTTCAAAAAACCACAAGTC-GATGGCACCCTTTCAA
1 TTTTCAAAGCCCACAAGTCAGTGGCATCTCTTCAAAAGACCACAAGTCAG-TGGCACCCTTTCAA
*
467221 AGCCCACACAAGTCGATGGCAA-TTT
65 AGCCCACACAAGTCGATGGCAACTCT
* * * *
467246 TTTTCAAAGCCCACAATTCAATGGCATCTCTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTAAA
1 TTTTCAAAGCCCACAAGTCAGTGGCATCTCTTCAAAAGACCACAAGTCAGTGGCACCCTTTCAAA
467311 GCCCACACAAGTCGATGGCAACTCT
66 GCCCACACAAGTCGATGGCAACTCT
* * *
467336 TTTT-AAAGCCCACAAGTTAGTGGCATCTCTTCAAAAGACCACAAGTTAGTGGCATCCTTTCAAA
1 TTTTCAAAGCCCACAAGTCAGTGGCATCTCTTCAAAAGACCACAAGTCAGTGGCACCCTTTCAAA
467400 GCCCACA
66 GCCCACA
467407 AGTTAGTGGC
Statistics
Matches: 146, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
89 139 0.95
90 7 0.05
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (90 bp):
TTTTCAAAGCCCACAAGTCAGTGGCATCTCTTCAAAAGACCACAAGTCAGTGGCACCCTTTCAAA
GCCCACACAAGTCGATGGCAACTCT
Found at i:467401 original size:146 final size:144
Alignment explanation
Indices: 467125--467615 Score: 451
Period size: 146 Copynumber: 3.4 Consensus size: 144
467115 CTAGAACGTT
* * * * * *
467125 CATCTCTTCAAAGCCCATAGGTTAGTGGCATCTTTTCAAAG-CC-CACAAGTCAGTGGC-A-TCT
1 CATCTCTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCCGTGGCAACTCT
* ** * * ***
467186 CTTCAAAAAACCACAAGTC-GATGGCACCCTTTCAAAGCCCACACAAGTC-GATGGCAATTTTTT
66 TTTC-AAAGCCCACAAGTCAG-TGGCACCCTTTCAAAG-AC-CACAAGTCAG-TGAC-A-GCCTT
*
467249 TCAAAGCCCACAA-TTCAATGG
124 TCAAAGCCCACAAGTT-AGTGG
*
467270 CATCTCTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACACAAGT-CGATGGCAACT
1 CATCTCTTC-AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCCG-TGGCAACT
* * * * * *
467334 CTTTTTAAAGCCCACAAGTTAGTGGCA-TCTCTTCAAAAGACCACAAGTTAGTGGCATCCTTTCA
64 CTTTTCAAAGCCCACAAGTCAGTGGCACCCT-TTC-AAAGACCACAAGTCAGTGACAGCCTTTCA
467398 AAGCCCACAAGTTAGTGG
127 AAGCCCACAAGTTAGTGG
* * * * * *
467416 CATACCCTTCCAAAGCCTATAAATTAGTGGCACCCTTTCAAAGCCCACACAAATCCGTGGCAACT
1 CAT-CTCTT-CAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCCGTGGCAACT
* * * * *
467481 GTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGATAGCTTTTCACA
64 CTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGACCACAAGTCAGTGACAGCCTTTCAAA
467546 GCCCACAAGTTAGTGG
129 GCCCACAAGTTAGTGG
* * *
467562 AACCTCTTCAAAGCCCACAAGTCAGTGACATCCCCTTTCAAAGCCCACACAAGT
1 CATCTCTTCAAAGCCCACAAGTCAGTGGCA--CCCTTTCAAAGCCCACACAAGT
467616 TGGTAGCTTC
Statistics
Matches: 284, Mismatches: 45, Indels: 33
0.78 0.12 0.09
Matches are distributed among these distances:
144 17 0.06
145 13 0.05
146 111 0.39
147 82 0.29
148 29 0.10
149 22 0.08
150 10 0.04
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (144 bp):
CATCTCTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCCGTGGCAACTCT
TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGACCACAAGTCAGTGACAGCCTTTCAAAGC
CCACAAGTTAGTGG
Found at i:467505 original size:60 final size:58
Alignment explanation
Indices: 467131--467610 Score: 342
Period size: 60 Copynumber: 8.2 Consensus size: 58
467121 CGTTCATCTC
* * * * * *
467131 TTCAAAGCCCATAGGTTAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGC-A-TCTC
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAACTCTT
** * *
467187 TTCAAAAAACCACAAGTC-GATGGCACCCTTTCAAAGCCCACACAAGTC-GATGGCAATTTTT
1 TTC-AAAGCCCACAAGTCAG-TGGCACCCTTTCAAAG-CC-CACAAGTCAG-TGGCAACTCTT
* * * *
467248 TTCAAAGCCCACAATTCAATGGCA-TCTCTTCAAAAGCCCACAAGTCAGTGGC-ACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT-TTC-AAAGCCCACAAGTCAGTGGCAACTCTT
* * * *
467306 TT-AAAGCCCACACAAGTC-GATGGCAACTCTTTTTAAAGCCCACAAGTTAGTGGC-A-TCTC
1 TTCAAAG-CC-CACAAGTCAG-TGGC-AC-CCTTTCAAAGCCCACAAGTCAGTGGCAACTCTT
* * * * *
467365 TTCAAAAGACCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATAC-CCT
1 TTC-AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-ACTCTT
* * * * * * * *
467424 TCCAAAGCCTATAAATTAGTGGCACCCTTTCAAAGCCCACACAAATCCGTGGCAACTGTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG-CC-CACAAGTCAGTGGCAACTCTT
*
467484 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGT-G-ATA-GCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-ACTCTT
* * * * * * *
467540 TTCACAGCCCACAAGTTAGTGG-AACCTCTTCAAAGCCCACAAGTCAGTGACATCCCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT-TTCAAAGCCCACAAGTCAGTGGCAACTCTT
467598 TTCAAAGCCCACA
1 TTCAAAGCCCACA
467611 CAAGTTGGTA
Statistics
Matches: 333, Mismatches: 60, Indels: 60
0.74 0.13 0.13
Matches are distributed among these distances:
55 4 0.01
56 47 0.14
57 53 0.16
58 62 0.19
59 62 0.19
60 89 0.27
61 15 0.05
62 1 0.00
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (58 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAACTCTT
Found at i:467635 original size:25 final size:25
Alignment explanation
Indices: 467598--467647 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
467588 GACATCCCCT
*
467598 TTCAAAGCCCACACAAGTTGGTAGC
1 TTCAAAGCCCACACAAGTTAGTAGC
* *
467623 TTCAAAGCTCACATAAGTTAGTAGC
1 TTCAAAGCCCACACAAGTTAGTAGC
467648 ACCTTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (25 bp):
TTCAAAGCCCACACAAGTTAGTAGC
Found at i:467809 original size:46 final size:46
Alignment explanation
Indices: 467729--467926 Score: 220
Period size: 48 Copynumber: 4.2 Consensus size: 46
467719 CCGATATTGC
* * * * * *
467729 TGGCATTGAATCAGCATATTG-GCACCTTTATTAGCTCAATGTCTT
1 TGGCCTTGAATCAGCACATTGTCCACTTTTCTTAGCTCAATGTCGT
467774 TGGCCTTGAATCAGCACATTGTCCACCTTTT-TTAGCTCAATGTCGT
1 TGGCCTTGAATCAGCACATTGTCCA-CTTTTCTTAGCTCAATGTCGT
* * * *
467820 TAGCCTTGAATCAACACATTGCCCACTTTTCCCTTAGCTCAATGTCGC
1 TGGCCTTGAATCAGCACATTGTCCACTTTT--CTTAGCTCAATGTCGT
* **
467868 TGGCCTTGAATCAGTACATTGTCCACTTTTCCCTTAGCTTGATGTCGT
1 TGGCCTTGAATCAGCACATTGTCCACTTTT--CTTAGCTCAATGTCGT
467916 TGGCCTTGAAT
1 TGGCCTTGAAT
467927 TGGCACATGG
Statistics
Matches: 132, Mismatches: 16, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
45 24 0.18
46 38 0.29
47 4 0.03
48 66 0.50
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (46 bp):
TGGCCTTGAATCAGCACATTGTCCACTTTTCTTAGCTCAATGTCGT
Found at i:467874 original size:48 final size:48
Alignment explanation
Indices: 467759--467926 Score: 234
Period size: 48 Copynumber: 3.5 Consensus size: 48
467749 GGCACCTTTA
*
467759 TTAGCTCAATGTCTTTGGCCTTGAATCAGCACATTGTCCACCTTTT---
1 TTAGCTCAATGTCGTTGGCCTTGAATCAGCACATTGTCCA-CTTTTCCC
* * *
467805 TTAGCTCAATGTCGTTAGCCTTGAATCAACACATTGCCCACTTTTCCC
1 TTAGCTCAATGTCGTTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
* *
467853 TTAGCTCAATGTCGCTGGCCTTGAATCAGTACATTGTCCACTTTTCCC
1 TTAGCTCAATGTCGTTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
**
467901 TTAGCTTGATGTCGTTGGCCTTGAAT
1 TTAGCTCAATGTCGTTGGCCTTGAAT
467927 TGGCACATGG
Statistics
Matches: 107, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
45 5 0.05
46 36 0.34
48 66 0.62
ACGTcount: A:0.20, C:0.27, G:0.17, T:0.37
Consensus pattern (48 bp):
TTAGCTCAATGTCGTTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
Found at i:468695 original size:20 final size:20
Alignment explanation
Indices: 468670--468707 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
468660 TTTTTACCTA
468670 AATGTATCGATACATTCTTC
1 AATGTATCGATACATTCTTC
468690 AATGTATCGATACATTCT
1 AATGTATCGATACATTCT
468708 ATCTTTTCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTCTTC
Found at i:468783 original size:20 final size:20
Alignment explanation
Indices: 468760--468797 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
468750 CACAAGTATA
468760 AATGTATCGATACATTCTTC
1 AATGTATCGATACATTCTTC
468780 AATGTATCGATACATTCT
1 AATGTATCGATACATTCT
468798 ATCTTTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTCTTC
Found at i:472798 original size:13 final size:13
Alignment explanation
Indices: 472760--472799 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
472750 ACATTATGCT
*
472760 TTGTATCGATACT
1 TTGTATCGATACA
472773 TTGTATCGATACA
1 TTGTATCGATACA
472786 TTGTATCGATACA
1 TTGTATCGATACA
472799 T
1 T
472800 GGACAATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:472888 original size:13 final size:13
Alignment explanation
Indices: 472870--472894 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
472860 CATGGCGCAT
472870 TGTATCGATACAA
1 TGTATCGATACAA
472883 TGTATCGATACA
1 TGTATCGATACA
472895 TTGCTTCAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:476032 original size:21 final size:21
Alignment explanation
Indices: 475981--476033 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
475971 ACAAGCTTGT
**
475981 GTATCGATACAAGCTCATGAA
1 GTATCGATACAAGCTCACAAA
* ** *
476002 GTGTTAATACAAGTTCACAAA
1 GTATCGATACAAGCTCACAAA
476023 GTATCGATACA
1 GTATCGATACA
476034 TATTTCTAAG
Statistics
Matches: 23, Mismatches: 9, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (21 bp):
GTATCGATACAAGCTCACAAA
Found at i:478639 original size:102 final size:102
Alignment explanation
Indices: 478431--478848 Score: 280
Period size: 102 Copynumber: 4.0 Consensus size: 102
478421 GTCTTCGAGG
* *
478431 AAACTCCAACCCTACTTCTTCGAAGGGATACTCTAACCCATTTTTCATAAAAATTAAATTTTCTC
1 AAACTCCAACCCTACTACTTCGAAGGGATACTCTAACCCATTTTTCATAAAAATCAAATTTTCTC
* * * **
478496 TTTGTCCTAAATGTTTTCATAATTTTATCTTTGGGTG
66 TTTGTCCTAAATATTTGCATAATCTTATCTTTGGGAA
* *
478533 AAACTCCAACCCTACTACTAT-GAAGGGATACTTTAACCTTATTTTTCATGAAAAATCAAA-TTT
1 AAACTCCAACCCTACTACT-TCGAAGGGATACTCTAACC-CATTTTTCAT-AAAAATCAAATTTT
** *
478596 -TCTTTGTTTTTTAATATTTGCATAATCTTATCTTT-GGAA
63 CTCTTTG-TCCTAAATATTTGCATAATCTTATCTTTGGGAA
* * * * * *
478635 AAACTTCAAACCC-ACTACTCCG-AGAGATACTCCAATCTCGTTTTTCATAAAAAAATCAAATCA
1 AAAC-TCCAACCCTACTACTTCGAAGGGATACTCTAA-CCCATTTTTCAT--AAAAATCAAAT--
** * * * **
478698 AATTCTCTCTTTGTCCTTAGGTGTTTTCATAATTTTATC-TT-CAAA
60 --TT-TCTCTTTGTCC-TAAATATTTGCATAATCTTATCTTTGGGAA
* * * * *
478743 GGAAACTCCAACCCTATTAC-TCTAAGAGGACACTCTAACTCCATTCTTCATAAAAAATCATATT
1 --AAACTCCAACCCTACTACTTCGAAG-GGATACTCTAAC-CCATTTTTCAT-AAAAATCAAATT
* * *
478807 TTCTCTTTGTTTCTAAATATTT-CACAATTTTATCTTTAGGGA
61 TTCTCTTTG-TCCTAAATATTTGCATAATCTTATCTTT-GGGA
478849 TGCTCTAGCC
Statistics
Matches: 241, Mismatches: 49, Indels: 47
0.72 0.15 0.14
Matches are distributed among these distances:
101 18 0.07
102 64 0.27
103 42 0.17
104 20 0.08
105 16 0.07
106 4 0.02
107 3 0.01
108 6 0.02
109 30 0.12
110 22 0.09
111 16 0.07
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.39
Consensus pattern (102 bp):
AAACTCCAACCCTACTACTTCGAAGGGATACTCTAACCCATTTTTCATAAAAATCAAATTTTCTC
TTTGTCCTAAATATTTGCATAATCTTATCTTTGGGAA
Found at i:483449 original size:61 final size:62
Alignment explanation
Indices: 483347--483595 Score: 186
Period size: 61 Copynumber: 3.9 Consensus size: 62
483337 CTCAAACTTT
*
483347 GGTGCCACCAGCTTGTGTGGACTTTGACTCAAGTGTCGCCAACTCATGCGGGCTTATACTCA
1 GGTGCCACCAGCTTGTGTGGACTTTGACTCAAGTGTCGCCAACTCATGCGGGCTTAGACTCA
* * * * * *
483409 GGTGCCACTAGCTT-TGTGGGCTTTGACTCAGGTGTTGCCAACTCGTGGGGGCTTAGACTC-
1 GGTGCCACCAGCTTGTGTGGACTTTGACTCAAGTGTCGCCAACTCATGCGGGCTTAGACTCA
* ** * * * * ** *
483469 GAGTGTCACCAGCTTGTACAGG-CTTTGACT-AGGGTGCCACTAACTTGTGTGGGCTTAGACTTA
1 G-GTGCCACCAGCTTGT-GTGGACTTTGACTCA-AGTGTCGCCAACTCATGCGGGCTTAGAC-T-
483532 GACTTA
61 --C--A
* *
483538 GGTGCCACCAGCTTGTGTGAAC-TTGAACTCAAGTG-CTGCCAACTCATGTGGGCTTAGA
1 GGTGCCACCAGCTTGTGTGGACTTTG-ACTCAAGTGTC-GCCAACTCATGCGGGCTTAGA
483596 GTTAGATTTA
Statistics
Matches: 146, Mismatches: 26, Indels: 24
0.74 0.13 0.12
Matches are distributed among these distances:
60 1 0.01
61 52 0.36
62 44 0.30
63 3 0.02
66 1 0.01
67 5 0.03
68 38 0.26
69 2 0.01
ACGTcount: A:0.19, C:0.24, G:0.29, T:0.29
Consensus pattern (62 bp):
GGTGCCACCAGCTTGTGTGGACTTTGACTCAAGTGTCGCCAACTCATGCGGGCTTAGACTCA
Found at i:483648 original size:68 final size:68
Alignment explanation
Indices: 483342--483759 Score: 187
Period size: 68 Copynumber: 6.4 Consensus size: 68
483332 TTTGACTCAA
* * * * * * * *
483342 ACTTTGGTGCCACCAGCTTGTGTGGACTTTGACTCAAGTGTCGCCAACTCATGCGGGCTT--A--
1 ACTTAGGTGCAACCAGCTTGTGTGGGCTTTGACTTAGGTGCCACCAACTCATGTGGGCTTAGACT
483403 T--
66 TAG
* * * * *** * *
483404 ACTCAGGTGCCACTAGCTT-TGTGGGCTTTGACTCAGGTGTTGCCAACTCGTGGGGGCTTAGAC-
1 ACTTAGGTGCAACCAGCTTGTGTGGGCTTTGACTTAGGTGCCACCAACTCATGTGGGCTTAGACT
*
483467 TCG
66 TAG
* *** * **
483470 A-GT--GT-C-ACCAGCTTGTACAGGCTTTGAC-TAGGGTGCCACTAACTTGTGTGGGCTTAGAC
1 ACTTAGGTGCAACCAGCTTGTGTGGGCTTTGACTTA-GGTGCCACCAACTCATGTGGGCTTAGAC
483529 TTAG
65 TTAG
* ** * * ** *
483533 ACTTAGGTGCCACCAGCTTGTGTGAAC-TTGAACTCAAGTGCTGCCAACTCATGTGGGCTTAGAG
1 ACTTAGGTGCAACCAGCTTGTGTGGGCTTTG-ACTTAGGTGCCACCAACTCATGTGGGCTTAGAC
483597 TTAG
65 TTAG
* * * * *
483601 ATTTAGGTGCAATCAGTTTGTGTGGGCTTTGACTTAGGTGCCACCAACTC--GT--GC-GAG-CC
1 ACTTAGGTGCAACCAGCTTGTGTGGGCTTTGACTTAGGTGCCACCAACTCATGTGGGCTTAGACT
483660 TAG
66 TAG
*** * * ** * * *
483663 ACTCTA-GTGTTGCCAGCTTGTGCGGGCTTTGGCTGGGGTGCCACCAACTCGTATGGGCTTAAAC
1 ACT-TAGGTGCAACCAGCTTGTGTGGGCTTTGACTTAGGTGCCACCAACTCATGTGGGCTTAGAC
483727 TTAG
65 TTAG
* * * *
483731 ATTTAAGTGCCACCAGCTTGTATGGGCTT
1 ACTTAGGTGCAACCAGCTTGTGTGGGCTT
483760 ATAAAAGAGG
Statistics
Matches: 263, Mismatches: 69, Indels: 42
0.70 0.18 0.11
Matches are distributed among these distances:
61 43 0.16
62 89 0.34
63 10 0.04
64 5 0.02
66 7 0.03
67 7 0.03
68 98 0.37
69 4 0.02
ACGTcount: A:0.19, C:0.23, G:0.28, T:0.30
Consensus pattern (68 bp):
ACTTAGGTGCAACCAGCTTGTGTGGGCTTTGACTTAGGTGCCACCAACTCATGTGGGCTTAGACT
TAG
Found at i:483704 original size:198 final size:191
Alignment explanation
Indices: 483342--483751 Score: 466
Period size: 198 Copynumber: 2.1 Consensus size: 191
483332 TTTGACTCAA
* *
483342 ACTTTGGTGCCACCAGCTTGTGTGGACTTTGACTCAAGTGTCGCCAACTCATGCGGGCTTATACT
1 ACTTAGGTGCCACCAGCTTGTGTGAACTTTGACTCAAGTGTCGCCAACTCATGCGGGCTTATACT
* *** * * *
483407 CAGGTGCCACTAGCTTTGTGGGCTTTGACTCAGGTGTTGCCAACTCGTGGGGGCTTAGACTCGAG
66 CAGGTGCAACTAGCTTTGTGGGCTTTGACTCAGGTGCCACCAACTCGTGCGAGCCTAGACTCGAG
* * * *
483472 TGTCACCAGCTTGTACAGGCTTTGACTAGGGTGCCACTAACTTGTGTGGGCTTAGACTTAG
131 TGTCACCAGCTTGTACAGGCTTTGACTAGGGTGCCACCAACTCGTATGGGCTTAAACTTAG
*
483533 ACTTAGGTGCCACCAGCTTGTGTGAAC-TTGAACTCAAGTG-CTGCCAACTCATGTGGGCTTAGA
1 ACTTAGGTGCCACCAGCTTGTGTGAACTTTG-ACTCAAGTGTC-GCCAACTCATGCGGGCTT--A
* * * *
483596 GTTAGATTTAGGTGCAA-TCAGTTTGTGTGGGCTTTGACTTAGGTGCCACCAACTCGTGCGAGCC
62 --T--ACTCAGGTGCAACT-AGCTT-TGTGGGCTTTGACTCAGGTGCCACCAACTCGTGCGAGCC
* ** * * * *
483660 TAGACTCTAGTGTTGCCAGCTTGTGCGGGCTTTGGCTGGGGTGCCACCAACTCGTATGGGCTTAA
121 TAGACTCGAGTGTCACCAGCTTGTACAGGCTTTGACTAGGGTGCCACCAACTCGTATGGGCTTAA
483725 ACTTAG
186 ACTTAG
* *
483731 ATTTAAGTGCCACCAGCTTGT
1 ACTTAGGTGCCACCAGCTTGT
483752 ATGGGCTTAT
Statistics
Matches: 182, Mismatches: 27, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
190 4 0.02
191 51 0.28
193 1 0.01
195 1 0.01
196 1 0.01
197 13 0.07
198 111 0.61
ACGTcount: A:0.19, C:0.23, G:0.28, T:0.30
Consensus pattern (191 bp):
ACTTAGGTGCCACCAGCTTGTGTGAACTTTGACTCAAGTGTCGCCAACTCATGCGGGCTTATACT
CAGGTGCAACTAGCTTTGTGGGCTTTGACTCAGGTGCCACCAACTCGTGCGAGCCTAGACTCGAG
TGTCACCAGCTTGTACAGGCTTTGACTAGGGTGCCACCAACTCGTATGGGCTTAAACTTAG
Found at i:483828 original size:35 final size:35
Alignment explanation
Indices: 483786--483852 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
483776 AAGGAGTGGG
*
483786 CATCCTACTTTTTGAGGACAAAAGAAAAAAAAGTA
1 CATCCTACTCTTTGAGGACAAAAGAAAAAAAAGTA
*
483821 CATCCTACTCTTTGAGGACAAAGGAAAAAAAA
1 CATCCTACTCTTTGAGGACAAAAGAAAAAAAA
483853 AATAAAGTGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.48, C:0.16, G:0.15, T:0.21
Consensus pattern (35 bp):
CATCCTACTCTTTGAGGACAAAAGAAAAAAAAGTA
Found at i:483871 original size:41 final size:42
Alignment explanation
Indices: 483800--483897 Score: 128
Period size: 41 Copynumber: 2.4 Consensus size: 42
483790 CTACTTTTTG
* *
483800 AGGACAAAAGAAAAA-AAAGTACATCCTACTCTTTGAGGACAA
1 AGGA-AAAAGAAAAATAAAGTACATCATACTCTTTAAGGACAA
* *
483842 AGGAAAAA-AAAAATAAAGTGCGTCATACTCTTTAAGGACAA
1 AGGAAAAAGAAAAATAAAGTACATCATACTCTTTAAGGACAA
*
483883 AGAAAAAAGAAAAAT
1 AGGAAAAAGAAAAAT
483898 GAAATGGGTC
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
40 5 0.10
41 34 0.69
42 10 0.20
ACGTcount: A:0.55, C:0.12, G:0.16, T:0.16
Consensus pattern (42 bp):
AGGAAAAAGAAAAATAAAGTACATCATACTCTTTAAGGACAA
Found at i:483968 original size:35 final size:34
Alignment explanation
Indices: 483929--484044 Score: 81
Period size: 35 Copynumber: 3.1 Consensus size: 34
483919 AGATAAGGGG
483929 AAAAGAAGTACATCTTGCTCTTCAAGGACAAAGGA
1 AAAAGAAGTACATCTTGCTCTT-AAGGACAAAGGA
* * *
483964 AAAAGGAAATGA-AGTGCGTCCTGCTCCTTAAAGACAAAGGG
1 AAAA-GAAGT-ACA-T-C-T--TGCT-CTTAAGGACAAAGGA
* * *
484005 AAAAGAAGTACATCCTGCTCTTTGAGGGCAAAGGA
1 AAAAGAAGTACATCTTGCTC-TTAAGGACAAAGGA
484040 AAAAG
1 AAAAG
484045 GAAATGAAGT
Statistics
Matches: 62, Mismatches: 9, Indels: 20
0.68 0.10 0.22
Matches are distributed among these distances:
34 1 0.02
35 23 0.37
36 5 0.08
37 2 0.03
38 2 0.03
39 3 0.05
40 5 0.08
41 18 0.29
42 3 0.05
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.18
Consensus pattern (34 bp):
AAAAGAAGTACATCTTGCTCTTAAGGACAAAGGA
Found at i:483989 original size:41 final size:41
Alignment explanation
Indices: 483927--484084 Score: 141
Period size: 41 Copynumber: 4.0 Consensus size: 41
483917 GAAGATAAGG
* * *
483927 GGAAAAGAAGTACATCTTGCT-CTTCAAGGACAAAGGAAAAA
1 GGAAATGAAGTGCATCCTGCTCCTT-AAGGACAAAGGAAAAA
* *
483968 GGAAATGAAGTGCGTCCTGCTCCTTAAAGACAAA-G-----
1 GGAAATGAAGTGCATCCTGCTCCTTAAGGACAAAGGAAAAA
* * * * *
484003 GGAAAAGAAGTACATCCTGCTCTTTGAGGGCAAAGGAAAAA
1 GGAAATGAAGTGCATCCTGCTCCTTAAGGACAAAGGAAAAA
* * *
484044 GGAAATGAAGTGCATCCTGTTCCTTGAGGACAATGGAAAAA
1 GGAAATGAAGTGCATCCTGCTCCTTAAGGACAAAGGAAAAA
484085 TCAGAAAAAT
Statistics
Matches: 92, Mismatches: 18, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
35 27 0.29
36 1 0.01
40 1 0.01
41 60 0.65
42 3 0.03
ACGTcount: A:0.40, C:0.16, G:0.25, T:0.19
Consensus pattern (41 bp):
GGAAATGAAGTGCATCCTGCTCCTTAAGGACAAAGGAAAAA
Found at i:484012 original size:76 final size:76
Alignment explanation
Indices: 483869--484068 Score: 265
Period size: 76 Copynumber: 2.6 Consensus size: 76
483859 GTGCGTCATA
* * * * * * * *
483869 CTCTTTAAGGACAAAGAAAAAAGAAAAATGAAATGGGTCTTGCTCCTTGAAGATAAGGGGAAAAG
1 CTCTTTAAGGACAAAGGAAAAAG-GAAATGAAGTGCGTCCTGCTCCTTAAAGACAAAGGGAAAAG
*
483934 AAGTACATCTTG
65 AAGTACATCCTG
*
483946 CTCTTCAAGGACAAAGGAAAAAGGAAATGAAGTGCGTCCTGCTCCTTAAAGACAAAGGGAAAAGA
1 CTCTTTAAGGACAAAGGAAAAAGGAAATGAAGTGCGTCCTGCTCCTTAAAGACAAAGGGAAAAGA
484011 AGTACATCCTG
66 AGTACATCCTG
* * * *
484022 CTCTTTGAGGGCAAAGGAAAAAGGAAATGAAGTGCATCCTGTTCCTT
1 CTCTTTAAGGACAAAGGAAAAAGGAAATGAAGTGCGTCCTGCTCCTT
484069 GAGGACAATG
Statistics
Matches: 108, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
76 87 0.81
77 21 0.19
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (76 bp):
CTCTTTAAGGACAAAGGAAAAAGGAAATGAAGTGCGTCCTGCTCCTTAAAGACAAAGGGAAAAGA
AGTACATCCTG
Found at i:488908 original size:20 final size:20
Alignment explanation
Indices: 488883--489006 Score: 104
Period size: 20 Copynumber: 5.7 Consensus size: 20
488873 TTTTTCCTAG
488883 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
488903 ATGTATCGATACATTCTGTCTTTTACCCA
1 ATGTATCGATACA-----T-TTTT---CA
*
488932 GATGTATCAATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
* * *
488953 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
488973 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
488993 ATGTATCGATACAT
1 ATGTATCGATACAT
489007 CTAGTTAAAA
Statistics
Matches: 83, Mismatches: 11, Indels: 20
0.73 0.10 0.18
Matches are distributed among these distances:
20 57 0.69
21 2 0.02
24 4 0.05
25 2 0.02
26 4 0.05
29 2 0.02
30 12 0.14
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:493080 original size:60 final size:60
Alignment explanation
Indices: 493007--493138 Score: 255
Period size: 60 Copynumber: 2.2 Consensus size: 60
492997 ATAAATGAAT
*
493007 GTATCGATACATGCTTAAAATGTTTTGAGACAAAACTACCCTGCATATTGCCAAGGAAAA
1 GTATCGATACATGCTTAAAATGTTTTGAGACAAAACTACCCTGCATACTGCCAAGGAAAA
493067 GTATCGATACATGCTTAAAATGTTTTGAGACAAAACTACCCTGCATACTGCCAAGGAAAA
1 GTATCGATACATGCTTAAAATGTTTTGAGACAAAACTACCCTGCATACTGCCAAGGAAAA
493127 GTATCGATACAT
1 GTATCGATACAT
493139 AAGTAAATGT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
60 71 1.00
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.27
Consensus pattern (60 bp):
GTATCGATACATGCTTAAAATGTTTTGAGACAAAACTACCCTGCATACTGCCAAGGAAAA
Found at i:495611 original size:79 final size:78
Alignment explanation
Indices: 495487--495855 Score: 357
Period size: 79 Copynumber: 4.7 Consensus size: 78
495477 AAATATCAGT
* * ** * * * * * *
495487 TTTTCATCTCGGGGATATTCCAACCTTGTT-ATTTCTGATGAGATACTCTAACCTCGTATTTATT
1 TTTTCATCTCGGGGATACTCCTACCTCATTAATTTC-GAGGGGATACTCCAACCCCATTTTTATT
495551 TCAAAAATATTAAAA
65 TC-AAAATATTAAAA
* *
495566 TTTTCATCTCGGGGATACTCCTACCTCATCAATTTCAAGGGGATACTCCAACCCCATTTTTATTT
1 TTTTCATCTCGGGGATACTCCTACCTCATTAATTTCGAGGGGATACTCCAACCCCATTTTTATTT
* *
495631 CTAAAATATTTAAT
66 C-AAAATATTAAAA
* * * * * * *
495645 TTTTCATCCCGGGGATCCT-CTAACCCCGTTATTTTCGAGGGGATACTCAAACCCCATTTTTCTT
1 TTTTCATCTCGGGGATACTCCT-ACCTCATTAATTTCGAGGGGATACTCCAACCCCATTTTTATT
495709 TCCAAAATATTAAAA
65 T-CAAAATATTAAAA
* * * *
495724 TTTTCATCTTGGGGATACTCC-AACTCCATTAATTCCGAGGGGATACTCCAACCCCTTTTTTATT
1 TTTTCATCTCGGGGATACTCCTACCT-CATTAATTTCGAGGGGATACTCCAACCCCATTTTTA-T
* *
495788 TTCAAAATATTGAAT
64 TTCAAAATATTAAAA
* ** * * *
495803 TTTTTATCTTAGGGATACTCCAACCTCGTTATTTTCGAGGGGATACTCCAACC
1 TTTTCATCTCGGGGATACTCCTACCTCATTAATTTCGAGGGGATACTCCAACC
495856 TCGTTATTTC
Statistics
Matches: 238, Mismatches: 45, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
78 4 0.02
79 221 0.93
80 13 0.05
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.37
Consensus pattern (78 bp):
TTTTCATCTCGGGGATACTCCTACCTCATTAATTTCGAGGGGATACTCCAACCCCATTTTTATTT
CAAAATATTAAAA
Found at i:495765 original size:158 final size:158
Alignment explanation
Indices: 495486--495855 Score: 440
Period size: 158 Copynumber: 2.3 Consensus size: 158
495476 AAAATATCAG
* * * ** * * * * * * *
495486 TTTTTCATCTCGGGGATATTCCAACCTTGTTA-TTTCTGATGAGATACTCTAACCTCGTATTTAT
1 TTTTTCATCCCAGGGATACTCCAACCCCGTTATTTTC-GAGGGGATACTCAAACCCCATTTTTCT
* *
495550 TTCAAAAATATTAAAATTTTCATCTCGGGGATACTCCTACCTCATCAATTTCAAGGGGATACTCC
65 TTCAAAAATATTAAAATTTTCATCTCGGGGATACTCCAACCTCATCAATTCCAAGGGGATACTCC
*
495615 AACCCCATTTTTA-TTTCTAAAATATTTAA
130 AACCCCATTTTTATTTTC-AAAATATTGAA
* * *
495644 TTTTTCATCCCGGGGATCCTCTAACCCCGTTATTTTCGAGGGGATACTCAAACCCCATTTTTCTT
1 TTTTTCATCCCAGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCAAACCCCATTTTTCTT
* * * *
495709 TCCAAAATATTAAAATTTTCATCTTGGGGATACTCCAA-CTCCATTAATTCCGAGGGGATACTCC
66 TCAAAAATATTAAAATTTTCATCTCGGGGATACTCCAACCT-CATCAATTCCAAGGGGATACTCC
*
495773 AACCCCTTTTTTATTTTCAAAATATTGAA
130 AACCCCATTTTTATTTTCAAAATATTGAA
* ** * *
495802 TTTTTTATCTTAGGGATACTCCAACCTCGTTATTTTCGAGGGGATACTCCAACC
1 TTTTTCATCCCAGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCAAACC
495856 TCGTTATTTC
Statistics
Matches: 180, Mismatches: 29, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
157 2 0.01
158 170 0.94
159 8 0.04
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (158 bp):
TTTTTCATCCCAGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCAAACCCCATTTTTCTT
TCAAAAATATTAAAATTTTCATCTCGGGGATACTCCAACCTCATCAATTCCAAGGGGATACTCCA
ACCCCATTTTTATTTTCAAAATATTGAA
Found at i:495845 original size:28 final size:28
Alignment explanation
Indices: 495814--495883 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
495804 TTTTATCTTA
495814 GGGATACTCCAACCTCGTTATTT-TCGAG
1 GGGATACTCCAACCTCGTTATTTCT-GAG
495842 GGGATACTCCAACCTCGTTATTTCTGAG
1 GGGATACTCCAACCTCGTTATTTCTGAG
*
495870 GGGAAACTCCAACC
1 GGGATACTCCAACC
495884 CTGTTTTATT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
28 39 0.98
29 1 0.03
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (28 bp):
GGGATACTCCAACCTCGTTATTTCTGAG
Found at i:498109 original size:9 final size:9
Alignment explanation
Indices: 498097--498130 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
498087 TCACTTTTCT
498097 TTTTTTTAA
1 TTTTTTTAA
498106 TTTTTTT-A
1 TTTTTTTAA
*
498114 TTTTTTTTA
1 TTTTTTTAA
498123 TTTTTTTA
1 TTTTTTTA
498131 CAATTGCCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:498117 original size:17 final size:17
Alignment explanation
Indices: 498097--498130 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
498087 TCACTTTTCT
498097 TTTTTTTAATTTTTTTA
1 TTTTTTTAATTTTTTTA
*
498114 TTTTTTTTATTTTTTTA
1 TTTTTTTAATTTTTTTA
498131 CAATTGCCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTTTAATTTTTTTA
Found at i:506436 original size:78 final size:77
Alignment explanation
Indices: 506205--506482 Score: 276
Period size: 79 Copynumber: 3.6 Consensus size: 77
506195 TAACCTGTCA
* * * *
506205 TGGGGATACTCCAACCCCATCAATTTCGAGGGGATACTCCAACCTTGCTTTTATTTATAAAATAT
1 TGGGGATACTCCAACCCCAT-TATTTAGAGGGGATACTCCAACC-CGCTTTTATTTCTAAAATAT
*
506270 TAATTTTTTCA-CC
64 TAAATTTTTCATCC
* * * * * **
506283 TTGAGAATATTCTAACCTCATTATTTTTA-AGGGGATACTCCAACCCAATTTTTATTTCTAAAAT
1 -TGGGGATACTCCAACCCCATTA--TTTAGAGGGGATACTCCAACCC-GCTTTTATTTCTAAAAT
*
506347 ATTAAAATTTTCATCC
62 ATTAAATTTTTCATCC
* * * *
506363 TGGGGATACTCCAACCCCATTATTTAGAGGGGATACTCTAATCCCGCTCTTATTTCCAAAATACT
1 TGGGGATACTCCAACCCCATTATTTAGAGGGGATACTCCAA-CCCGCTTTTATTTCTAAAATATT
506428 AAATTTTTCAT-C
65 AAATTTTTCATCC
* * * *
506440 TCGGGATACTCCAACCCC-CTATTCAGAGGGGATACTCTAACCC
1 TGGGGATACTCCAACCCCATTATTTAGAGGGGATACTCCAACCC
506483 TGTTTCTTTT
Statistics
Matches: 165, Mismatches: 28, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
75 3 0.02
76 20 0.12
77 22 0.13
78 39 0.24
79 76 0.46
80 5 0.03
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (77 bp):
TGGGGATACTCCAACCCCATTATTTAGAGGGGATACTCCAACCCGCTTTTATTTCTAAAATATTA
AATTTTTCATCC
Found at i:506509 original size:77 final size:78
Alignment explanation
Indices: 506334--506479 Score: 210
Period size: 78 Copynumber: 1.9 Consensus size: 78
506324 AACCCAATTT
* * * *
506334 TTATTTCTAAAATA-TTAAAATTTTCATCCTGGGGATACTCCAACCCCATTATTTAGAGGGGATA
1 TTATTTC-AAAATACTTAAATTTTTCATCCTCGGGATACTCCAACCCCACTATTCAGAGGGGATA
506398 CTCTAATCCCGCTC
65 CTCTAATCCCGCTC
506412 TTATTTCCAAAATAC-TAAATTTTTCAT-CTCGGGATACTCCAACCCC-CTATTCAGAGGGGATA
1 TTATTT-CAAAATACTTAAATTTTTCATCCTCGGGATACTCCAACCCCACTATTCAGAGGGGATA
506474 CTCTAA
65 CTCTAA
506480 CCCTGTTTCT
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
76 20 0.32
77 18 0.29
78 23 0.37
79 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (78 bp):
TTATTTCAAAATACTTAAATTTTTCATCCTCGGGATACTCCAACCCCACTATTCAGAGGGGATAC
TCTAATCCCGCTC
Found at i:510756 original size:20 final size:21
Alignment explanation
Indices: 510719--510757 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
510709 AGCCTTTGAC
**
510719 CATGCATTTTTTTTTATGTTT
1 CATGCATTTTTTAATATGTTT
510740 CATGCA-TTTTTAATATGT
1 CATGCATTTTTTAATATGT
510758 CCAGCATCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.21, C:0.10, G:0.10, T:0.59
Consensus pattern (21 bp):
CATGCATTTTTTAATATGTTT
Found at i:512165 original size:97 final size:95
Alignment explanation
Indices: 512006--512245 Score: 313
Period size: 97 Copynumber: 2.5 Consensus size: 95
511996 AATTTTATTT
* * *
512006 ATCGAGGATACTCCAACCCTATTCCTCCGAGGGGATACTCTAACCCCACTTTTAAACACATCAAA
1 ATCGAGGACACTCCAACCC-ATTCCTCCAAGGGGATACTCCAA-CCCACTTTTAAACACATCAAA
*
512071 GTTTAAATCTTATTC-CGACTTAAATTGTCATC
64 ATTTAAATCTTATTCTC-ACTTAAATTGTCATC
* *
512103 ATCGAGGACACTTCAACTCCATTCCTCCAAGGGGATACTCCAACCCAGCTTTTAAACGCATCAAA
1 ATCGAGGACACTCCAAC-CCATTCCTCCAAGGGGATACTCCAACCCA-CTTTTAAACACATCAAA
*
512168 ATTTAAATTTTATTCTCACTTAAATTGTCATC
64 ATTTAAATCTTATTCTCACTTAAATTGTCATC
* * *
512200 ATCGGGGACACTCCAACCCCATTCCTTCGAA-GGCATACTCCAACCC
1 ATCGAGGACACTCCAA-CCCATTCC-TCCAAGGGGATACTCCAACCC
512246 CGTTTTTCAA
Statistics
Matches: 127, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
96 4 0.03
97 115 0.91
98 8 0.06
ACGTcount: A:0.30, C:0.30, G:0.12, T:0.28
Consensus pattern (95 bp):
ATCGAGGACACTCCAACCCATTCCTCCAAGGGGATACTCCAACCCACTTTTAAACACATCAAAAT
TTAAATCTTATTCTCACTTAAATTGTCATC
Found at i:513874 original size:19 final size:19
Alignment explanation
Indices: 513832--513907 Score: 109
Period size: 19 Copynumber: 4.0 Consensus size: 19
513822 TTTCAATGAT
*
513832 TTGTATCAATACATAAAGTA
1 TTGTATCGATACAT-AAGTA
*
513852 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTA
*
513871 TTGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTA
513890 TTGTATCGATACA-AAGTA
1 TTGTATCGATACATAAGTA
513908 AGCTACTGCC
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
18 4 0.08
19 35 0.67
20 13 0.25
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATAAGTA
Found at i:513963 original size:13 final size:13
Alignment explanation
Indices: 513945--513969 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
513935 AATACTCAAA
513945 TGTATCGATACAT
1 TGTATCGATACAT
513958 TGTATCGATACA
1 TGTATCGATACA
513970 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:514071 original size:52 final size:52
Alignment explanation
Indices: 513978--514105 Score: 195
Period size: 52 Copynumber: 2.5 Consensus size: 52
513968 CACTGATCTT
513978 TGTATCGATACAT-CAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* * *
514029 TGTATCAATACATGCAGGCAAATTTGCCCAGATGTATTGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* * *
514081 TGTATCGACACATGTAGACAAATTT
1 TGTATCGATACATGCAGGCAAATTT
514106 TCATATTTCG
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
51 12 0.17
52 57 0.83
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:521000 original size:18 final size:18
Alignment explanation
Indices: 520960--521008 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 18
520950 TCGAAACAGT
* *
520960 CAAAAGTAAACACACAAA
1 CAAAAGTAAACAAAAAAA
520978 CAAAAGTAAA-AAAAAAA
1 CAAAAGTAAACAAAAAAA
520995 CAAAA--AAACAAAAA
1 CAAAAGTAAACAAAAA
521009 CACACACAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 3 0.11
16 5 0.18
17 10 0.36
18 10 0.36
ACGTcount: A:0.78, C:0.14, G:0.04, T:0.04
Consensus pattern (18 bp):
CAAAAGTAAACAAAAAAA
Found at i:521442 original size:1 final size:1
Alignment explanation
Indices: 521344--521435 Score: 85
Period size: 1 Copynumber: 92.0 Consensus size: 1
521334 TAATCTTCAC
* * * * * * * *
521344 AAAAAAAACAAAAACAAAAAAAACAAAAACAAAAAAAACAAAAACAAACAAAAAAAAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
521409 AAAAACAAAAAAAACAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
521436 GGAAAAACCC
Statistics
Matches: 69, Mismatches: 22, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 69 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:521442 original size:15 final size:15
Alignment explanation
Indices: 521342--521434 Score: 143
Period size: 15 Copynumber: 6.1 Consensus size: 15
521332 CCTAATCTTC
521342 ACAAAAAAAACAAAA
1 ACAAAAAAAACAAAA
521357 ACAAAAAAAACAAAA
1 ACAAAAAAAACAAAA
521372 ACAAAAAAAACAAAA
1 ACAAAAAAAACAAAA
*
521387 ACAAACAAAAAAAAAA
1 ACAAA-AAAAACAAAA
521403 ACAAAAAAAAACAAAA
1 AC-AAAAAAAACAAAA
521419 A-AAACAAAAACAAAA
1 ACAAA-AAAAACAAAA
521434 A
1 A
521435 AGGAAAAACC
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
14 3 0.04
15 46 0.63
16 21 0.29
17 3 0.04
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (15 bp):
ACAAAAAAAACAAAA
Found at i:521442 original size:41 final size:40
Alignment explanation
Indices: 521342--521432 Score: 148
Period size: 41 Copynumber: 2.3 Consensus size: 40
521332 CCTAATCTTC
* *
521342 ACAAAAA-AAACAAAAACAAAAAAAACAAAAACAAAAAAA
1 ACAAAAACAAACAAAAAAAAAAAAAAAAAAAACAAAAAAA
521381 ACAAAAACAAACAAAAAAAAAAACAAAAAAAAACAAAAAAA
1 ACAAAAACAAACAAAAAAAAAAA-AAAAAAAAACAAAAAAA
521422 ACAAAAACAAA
1 ACAAAAACAAA
521433 AAAGGAAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
39 7 0.15
40 14 0.29
41 27 0.56
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (40 bp):
ACAAAAACAAACAAAAAAAAAAAAAAAAAAAACAAAAAAA
Found at i:522445 original size:33 final size:32
Alignment explanation
Indices: 522403--522526 Score: 128
Period size: 33 Copynumber: 3.8 Consensus size: 32
522393 CCCACGGCTC
522403 AGTGGCATCTTTCCTTCTTAAAGTCCACAATTT
1 AGTGGCATCTTTCCTTC-TAAAGTCCACAATTT
* * * *** *
522436 AGTGGCATC--TCTTTCCAAAGCCCACGGCTC
1 AGTGGCATCTTTCCTTCTAAAGTCCACAATTT
522466 AGTGGCATCTTTCCTTCTTAAAGTCCACAATTT
1 AGTGGCATCTTTCCTTC-TAAAGTCCACAATTT
522499 AGTGGCATCTTTTTCCTTCT-AAGTCCAC
1 AGTGGCATC--TTTCCTTCTAAAGTCCAC
522527 GACTCCGTGG
Statistics
Matches: 72, Mismatches: 14, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
30 18 0.25
31 5 0.07
32 5 0.07
33 35 0.49
34 1 0.01
35 8 0.11
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (32 bp):
AGTGGCATCTTTCCTTCTAAAGTCCACAATTT
Found at i:522472 original size:30 final size:30
Alignment explanation
Indices: 522379--522475 Score: 104
Period size: 30 Copynumber: 3.1 Consensus size: 30
522369 AATTCTTCAA
522379 ATCTCTTTCCAAAGCCCACGGCTCAGTGGC
1 ATCTCTTTCCAAAGCCCACGGCTCAGTGGC
* * * *** *
522409 ATCTTTCCTTCTTAAAGTCCACAATTTAGTGGC
1 ATC--TCTTTC-CAAAGCCCACGGCTCAGTGGC
522442 ATCTCTTTCCAAAGCCCACGGCTCAGTGGC
1 ATCTCTTTCCAAAGCCCACGGCTCAGTGGC
522472 ATCT
1 ATCT
522476 TTCCTTCTTA
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
30 22 0.44
31 5 0.10
32 5 0.10
33 18 0.36
ACGTcount: A:0.22, C:0.32, G:0.16, T:0.30
Consensus pattern (30 bp):
ATCTCTTTCCAAAGCCCACGGCTCAGTGGC
Found at i:522478 original size:63 final size:63
Alignment explanation
Indices: 522379--522514 Score: 263
Period size: 63 Copynumber: 2.2 Consensus size: 63
522369 AATTCTTCAA
522379 ATCTCTTTCCAAAGCCCACGGCTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTGGC
1 ATCTCTTTCCAAAGCCCACGGCTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTGGC
522442 ATCTCTTTCCAAAGCCCACGGCTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTGGC
1 ATCTCTTTCCAAAGCCCACGGCTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTGGC
*
522505 ATCTTTTTCC
1 ATCTCTTTCC
522515 TTCTAAGTCC
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 72 1.00
ACGTcount: A:0.21, C:0.30, G:0.15, T:0.34
Consensus pattern (63 bp):
ATCTCTTTCCAAAGCCCACGGCTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTGGC
Found at i:522634 original size:34 final size:33
Alignment explanation
Indices: 522475--522938 Score: 455
Period size: 34 Copynumber: 14.0 Consensus size: 33
522465 CAGTGGCATC
* ** *
522475 TTTCCTTCTTAAAGTCCACAATTTAGTGGCATCTT
1 TTTCCTTC-T-AAGTCCACAACTCCGTGGCACCTT
*
522510 TTTCCTTCTAAGTCCACGACTCCGTGGCACCTT
1 TTTCCTTCTAAGTCCACAACTCCGTGGCACCTT
* *
522543 CTT--TTCAAAGTCCACAACTCCGTGGCACCTT
1 TTTCCTTCTAAGTCCACAACTCCGTGGCACCTT
* *
522574 TTT-CTTTTAAGCCCACAACTCCGTGGCACTCTT
1 TTTCCTTCTAAGTCCACAACTCCGTGGCAC-CTT
*
522607 TTTCCTTCTAAGTCCACAACTCTGTGGCA-C--
1 TTTCCTTCTAAGTCCACAACTCCGTGGCACCTT
* *
522637 ---CCTTTTAAGCCCACAACTCCGTGGCACTCTT
1 TTTCCTTCTAAGTCCACAACTCCGTGGCAC-CTT
522668 TTTCCTTCTAAGTCCACAACTCCGTGGCACCTT
1 TTTCCTTCTAAGTCCACAACTCCGTGGCACCTT
* * *
522701 TTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTT
1 TTTCCTTCT-AAGTCCACAACTCCGTGGCAC-CTT
*
522736 TTTCCTTCTAAGCCCACAACTCCGTGGCACTCTT
1 TTTCCTTCTAAGTCCACAACTCCGTGGCAC-CTT
* * *
522770 TTCCCCTTTTAAAGTCCACAACCCCGTGGCACCTT
1 TT-TCCTTCT-AAGTCCACAACTCCGTGGCACCTT
* * *
522805 GTTCCTTTTAAGTCCACGACTCCGTGGCACCTT
1 TTTCCTTCTAAGTCCACAACTCCGTGGCACCTT
* * * *
522838 CTT--TTCAAAGCCCACAACTCCGTGGCATTCTT
1 TTTCCTTCTAAGTCCACAACTCCGTGGCA-CCTT
* *
522870 TTTCCCTTTTAAAGTCCACAACTTCGTGGCACCTT
1 TTT-CCTTCT-AAGTCCACAACTCCGTGGCACCTT
* * * *
522905 GTTCCTTTTAAGTCCACAACTTCGTGGCATCTT
1 TTTCCTTCTAAGTCCACAACTCCGTGGCACCTT
522938 T
1 T
522939 CACCCTTTCT
Statistics
Matches: 362, Mismatches: 48, Indels: 40
0.80 0.11 0.09
Matches are distributed among these distances:
27 23 0.06
29 1 0.00
31 48 0.13
32 28 0.08
33 84 0.23
34 107 0.30
35 34 0.09
36 37 0.10
ACGTcount: A:0.19, C:0.34, G:0.13, T:0.34
Consensus pattern (33 bp):
TTTCCTTCTAAGTCCACAACTCCGTGGCACCTT
Found at i:522645 original size:27 final size:27
Alignment explanation
Indices: 522610--522669 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
522600 CACTCTTTTT
* * *
522610 CCTTCTAAGTCCACAACTCTGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
522637 CCTTTTAAGCCCACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
*
522664 TCTTTT
1 CCTTTT
522670 TCCTTCTAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.20, C:0.37, G:0.13, T:0.30
Consensus pattern (27 bp):
CCTTTTAAGCCCACAACTCCGTGGCAC
Found at i:522651 original size:61 final size:63
Alignment explanation
Indices: 522523--522903 Score: 416
Period size: 61 Copynumber: 5.8 Consensus size: 63
522513 CCTTCTAAGT
* * *
522523 CCACGACTCCGTGGCAC-CTTCTT--TTCAAAGTCCACAACTCCGTGGCACCTTTTTCTTTT-AA
1 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACC----TCTTTTAAA
522584 GC
62 GC
*
522586 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCTGTGGCACC-CTTTT-AAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTCTTTTAAAGC
522647 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAA
1 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACC----TC-TTTTAA
522712 AGC
61 AGC
*
522715 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCACTCTTTTCCCCTTTT
1 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCAC-C---T---CTTTT
*
522780 AAAGT
59 AAAGC
* * * *
522785 CCACAACCCCGTGGCAC-CTTGTTCCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACC-TCTTTT-AAAGC
* * *
522849 CCACAACTCCGTGGCATTCTTTTTCCCTTTTAAAGTCCACAACTTCGTGGCACCT
1 CCACAACTCCGTGGCACTCTTTTT-CCTTCT-AAGTCCACAACTCCGTGGCACCT
522904 TGTTCCTTTT
Statistics
Matches: 282, Mismatches: 18, Indels: 33
0.85 0.05 0.10
Matches are distributed among these distances:
61 60 0.21
63 21 0.07
64 24 0.09
65 5 0.02
66 34 0.12
67 24 0.09
68 59 0.21
69 30 0.11
70 24 0.09
71 1 0.00
ACGTcount: A:0.19, C:0.36, G:0.13, T:0.32
Consensus pattern (63 bp):
CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTCTTTTAAAGC
Found at i:522742 original size:129 final size:128
Alignment explanation
Indices: 522513--522902 Score: 481
Period size: 129 Copynumber: 3.0 Consensus size: 128
522503 GCATCTTTTT
* * *
522513 CCTTCTAAGTCCACGACTCCGTGGCACCTTCTT--TTCAAAGTCCACAACTCCGTGGCACCTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTCTTCCTTCTAAGTCCACAACTCCGTGGCACCTTTT
522576 TC-TTTT-AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCTGTGGCAC
66 TCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCTGTGGCAC
* *
522637 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTTT
1 CCTTTTAAGTCCACAACTCCGTGGCAC-CTTCTTCCTTCTAAGTCCACAACTCCGTGGCACCTTT
* *
522702 TTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCACT
65 TTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCTGTGGCA--
522767 CTTTTCC
128 ------C
* * * *
522774 CCTTTTAAAGTCCACAACCCCGTGGCACCTTGTTCCTTTTAAGTCCACGACTCCGTGGCACC---
1 CCTTTT-AAGTCCACAACTCCGTGGCACCTTCTTCCTTCTAAGTCCACAACTCCGTGGCACCTTT
* * *
522836 TTCTTTTCAAAGCCCACAACTCCGTGGCATTCTTTTTCCCTTTTAAAGTCCACAACT-TCGTGGC
65 TTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTCT-AAGTCCACAACTCT-GTGGC
522900 AC
127 AC
522902 C
1 C
522903 TTGTTCCTTT
Statistics
Matches: 232, Mismatches: 17, Indels: 30
0.83 0.06 0.11
Matches are distributed among these distances:
124 24 0.10
125 5 0.02
127 31 0.13
128 6 0.03
129 52 0.22
134 35 0.15
135 5 0.02
136 17 0.07
137 38 0.16
138 19 0.08
ACGTcount: A:0.19, C:0.36, G:0.13, T:0.32
Consensus pattern (128 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCTTCTTCCTTCTAAGTCCACAACTCCGTGGCACCTTTT
TCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCTGTGGCAC
Found at i:522880 original size:100 final size:98
Alignment explanation
Indices: 522412--522933 Score: 578
Period size: 100 Copynumber: 5.3 Consensus size: 98
522402 CAGTGGCATC
* ** * * ** *
522412 TTTCCTTCTTAAAGTCCACAATTTAGTGGCATC-TCTTTCCAAAGCCCACGGCTCAGTGGCATC-
1 TTTCCTT-TT-AAGTCCACAACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCATCT
* ** *
522475 -TTTCCTTCTTAAAGTCCACAATTTAGTGGCATCTT
64 TTTTCCTT-TTAAAGTCCACAACTCCGTGGCACCTT
* * * *
522510 TTTCCTTCTAAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGTCCACAACTCCGTGGCACCTTT
1 TTTCCTTTTAAGTCCACAACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCATCTTT
*
522575 TT-CTTTT-AAGCCCACAACTCCGTGGCACTCTT
66 TTCCTTTTAAAGTCCACAACTCCGTGGCAC-CTT
* *
522607 TTTCCTTCTAAGTCCACAACTCTGTGGCACC--CTTTT--AAGCCCACAACTCCGTGGCACTCTT
1 TTTCCTTTTAAGTCCACAACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCA-TCTT
*
522668 TTTCCTTCT-AAGTCCACAACTCCGTGGCACCTT
65 TTTCCTTTTAAAGTCCACAACTCCGTGGCACCTT
* * * *
522701 TTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCAC
1 TTTCCTTTT-AAGTCCACAACTCCGTGGCAC-CTTCTT--TTCAAAGCCCACAACTCCGTGGCA-
* *
522766 TCTTTTCCCCTTTTAAAGTCCACAACCCCGTGGCACCTT
61 TCTTTT-TCCTTTTAAAGTCCACAACTCCGTGGCACCTT
* *
522805 GTTCCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCATTCTT
1 TTTCCTTTTAAGTCCACAACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCA-TCTT
*
522870 TTTCCCTTTTAAAGTCCACAACTTCGTGGCACCTT
65 TTT-CCTTTTAAAGTCCACAACTCCGTGGCACCTT
* *
522905 GTTCCTTTTAAGTCCACAACTTCGTGGCA
1 TTTCCTTTTAAGTCCACAACTCCGTGGCA
522934 TCTTTCACCC
Statistics
Matches: 364, Mismatches: 43, Indels: 32
0.83 0.10 0.07
Matches are distributed among these distances:
93 19 0.05
94 16 0.04
95 48 0.13
96 34 0.09
97 59 0.16
98 12 0.03
99 3 0.01
100 87 0.24
102 32 0.09
103 24 0.07
104 30 0.08
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.34
Consensus pattern (98 bp):
TTTCCTTTTAAGTCCACAACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCATCTTT
TTCCTTTTAAAGTCCACAACTCCGTGGCACCTT
Found at i:523057 original size:63 final size:64
Alignment explanation
Indices: 522940--523270 Score: 449
Period size: 63 Copynumber: 5.1 Consensus size: 64
522930 GGCATCTTTC
522940 ACCCTT-TCTAAAGCCCACACACAAGTCGGTGGCAACCCTTTTCTAAAGCCCACACAAGTCGGTG
1 ACCCTTCTCTAAAG-CC-CACACAAGTCGGTGGCAACCC--TTCTAAAGCCCACACAAGTCGGTG
523004 GCA
62 GCA
*
523007 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGTAA-CCTTCTAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTAAAGCCCACACAAGTCGGTGGCA
* *
523070 ACCCTTCTC-AAAGCCCACACAAGTCGGT-GCAACCCTCTTTAAAGCCCACACAAGTCAGTGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCCT-TCTAAAGCCCACACAAGTCGGTGGCA
* * *
523133 ACCTTTTTC-AAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACATAAGTCGGTGGC
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACC--CTTCTAAAGCCCACACAAGTCGGTGGC
523197 A
64 A
** * *
523198 ACCC-TCTCTAAAGCCCACACAAGTTAGTGGCAACCATTCTCTAAAGCCCACACAAGTCGGTGGT
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACC-CT-TCTAAAGCCCACACAAGTCGGTGGC
523262 A
64 A
523263 ACCCTTCT
1 ACCCTTCT
523271 AAGCCCAATA
Statistics
Matches: 238, Mismatches: 17, Indels: 19
0.87 0.06 0.07
Matches are distributed among these distances:
61 3 0.01
62 22 0.09
63 86 0.36
64 10 0.04
65 80 0.34
66 22 0.09
67 8 0.03
68 7 0.03
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.20
Consensus pattern (64 bp):
ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTAAAGCCCACACAAGTCGGTGGCA
Found at i:523088 original size:32 final size:33
Alignment explanation
Indices: 522940--523270 Score: 466
Period size: 33 Copynumber: 10.2 Consensus size: 33
522930 GGCATCTTTC
522940 ACCCTT-TCTAAAGCCCACACACAAGTCGGTGGCA
1 ACCCTTCTCTAAAG-CC-CACACAAGTCGGTGGCA
*
522974 ACCCTTTTCTAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
*
523007 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGTA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
523040 A-CC-T-TCTAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
523070 ACCCTTCTC-AAAGCCCACACAAGTCGGT-GCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
* *
523101 ACCC-TCTTTAAAGCCCACACAAGTCAGTGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
* *
523133 ACCTTTTTC-AAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
*
523165 A-CCTTCTTCTAAAGCCCACATAAGTCGGTGGCA
1 ACCCTTC-TCTAAAGCCCACACAAGTCGGTGGCA
**
523198 ACCC-TCTCTAAAGCCCACACAAGTTAGTGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
* *
523230 ACCATTCTCTAAAGCCCACACAAGTCGGTGGTA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
523263 ACCCTTCT
1 ACCCTTCT
523271 AAGCCCAATA
Statistics
Matches: 266, Mismatches: 20, Indels: 23
0.86 0.06 0.07
Matches are distributed among these distances:
30 29 0.11
31 31 0.12
32 79 0.30
33 110 0.41
34 10 0.04
35 7 0.03
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.20
Consensus pattern (33 bp):
ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
Found at i:523334 original size:49 final size:49
Alignment explanation
Indices: 523270--523609 Score: 362
Period size: 49 Copynumber: 7.1 Consensus size: 49
523260 GTAACCCTTC
* * *
523270 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * *
523319 TAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
523362 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCACCATCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * *
523411 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAAC-TC--C--
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
**
523455 -AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTTGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--T-TCATCTT
* *
523506 TAAGTCCAATATCGCAGGCCTTGAATCAGCATATTGGCATCTTTGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-C-CT-TCATCTT
* * *
523558 TAATTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
523607 TAA
1 TAA
523610 CATTCCTAAG
Statistics
Matches: 245, Mismatches: 29, Indels: 34
0.80 0.09 0.11
Matches are distributed among these distances:
43 71 0.29
45 1 0.00
46 1 0.00
47 3 0.01
48 2 0.01
49 85 0.35
50 1 0.00
51 1 0.00
52 79 0.32
53 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
Found at i:523383 original size:43 final size:43
Alignment explanation
Indices: 523316--523600 Score: 210
Period size: 52 Copynumber: 6.1 Consensus size: 43
523306 GCACCTTCTT
* * *
523316 CTTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* *
523359 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCACCATC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATT-G--GCA-C
* * *
523406 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAA
1 --CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
** * *
523451 CTCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACA-T--TG-----G-CAC
* *
523503 CTTTAAGTCCAATATCGCAGGCCTTGAATCAGCATATTGGCATCTTTGTC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA-------C
* *
523553 ATCTTTAATTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
523598 CTT
1 CTT
523601 CATCTTTAAC
Statistics
Matches: 194, Mismatches: 24, Indels: 48
0.73 0.09 0.18
Matches are distributed among these distances:
43 70 0.36
44 3 0.02
45 1 0.01
46 6 0.03
47 1 0.01
48 1 0.01
49 37 0.19
51 2 0.01
52 73 0.38
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (43 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:523432 original size:92 final size:92
Alignment explanation
Indices: 523265--523609 Score: 411
Period size: 92 Copynumber: 3.6 Consensus size: 92
523255 CGGTGGTAAC
* * *
523265 CCTTCTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
*
523330 TAGCTAGCCTTGAATCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
* *
523358 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCACCATCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
523423 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* ** **
523450 ACTCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTTGTCATCTTTAAGTCCAA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--T-TCATCTTTAAGTCCAA
* * * *
523515 TATCGCAGGCCTTGAATCAGCATATTGGCA
63 TGTAGCTGGCCTTGAATCAGCACATTGGCA
* * *
523545 TCTTTGTCATCTTTAATTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAA
1 -------C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAA
523610 CATTCCTAAG
Statistics
Matches: 215, Mismatches: 25, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
92 121 0.56
93 4 0.02
95 42 0.20
101 10 0.05
102 1 0.00
104 37 0.17
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (92 bp):
CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCA
Found at i:523533 original size:52 final size:52
Alignment explanation
Indices: 523455--523600 Score: 229
Period size: 52 Copynumber: 2.8 Consensus size: 52
523445 TGGCAACTCC
**
523455 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTTGTCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTT
* *
523507 AAGTCCAATATCGCAGGCCTTGAATCAGCATATTGGCATCTTTGTCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTT
* * *
523559 AATTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
523601 CATCTTTAAC
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 85 1.00
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (52 bp):
AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTT
Found at i:524466 original size:19 final size:19
Alignment explanation
Indices: 524442--524505 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
524432 TTTCAACGAT
524442 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
524461 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
*
524475 -TGTATTGATACATAAGTG
1 TTGTATCGATACATAAGTG
*
524493 TTGTACCGATACA
1 TTGTATCGATACA
524506 ATGTATCGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
13 10 0.28
15 2 0.06
17 2 0.06
19 22 0.61
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:524479 original size:32 final size:32
Alignment explanation
Indices: 524443--524518 Score: 134
Period size: 32 Copynumber: 2.4 Consensus size: 32
524433 TTCAACGATT
*
524443 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTACCGATACAA
*
524475 TGTATTGATACATAAGTGTTGTACCGATACAA
1 TGTATCGATACATAAGTGTTGTACCGATACAA
524507 TGTATCGATACA
1 TGTATCGATACA
524519 ATGTATCGAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTACCGATACAA
Found at i:524484 original size:13 final size:13
Alignment explanation
Indices: 524462--524531 Score: 68
Period size: 13 Copynumber: 4.9 Consensus size: 13
524452 ACATAAGTGT
524462 TGTATCGATACAA
1 TGTATCGATACAA
*
524475 TGTATTGATACATAA
1 TGTATCGATAC--AA
*
524490 GTGTTGTACCGATACAA
1 ----TGTATCGATACAA
524507 TGTATCGATACAA
1 TGTATCGATACAA
524520 TGTATCGATACA
1 TGTATCGATACA
524532 TAAGTTTTGT
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
13 34 0.72
15 2 0.04
17 2 0.04
19 9 0.19
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:524530 original size:45 final size:45
Alignment explanation
Indices: 524462--524551 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
524452 ACATAAGTGT
*
524462 TGTATCGATACAATGTATTGATACATAAGTGTTGTACCGATACAA
1 TGTATCGATACAATGTATCGATACATAAGTGTTGTACCGATACAA
* *
524507 TGTATCGATACAATGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACAATGTATCGATACATAAGTGTTGTACCGATACAA
524552 AGTAAGCTAC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (45 bp):
TGTATCGATACAATGTATCGATACATAAGTGTTGTACCGATACAA
Found at i:524721 original size:52 final size:52
Alignment explanation
Indices: 524626--524753 Score: 195
Period size: 52 Copynumber: 2.5 Consensus size: 52
524616 CACTGATCTT
* *
524626 TGTATCAATACAT-CAGGCAAATTTTCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* * *
524677 TGTATCGATACATGCAGGTAAATTTGCCTAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
524729 TGTATCGATACATGTAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
524754 TCATATTTCG
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
51 12 0.17
52 57 0.83
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.31
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:528058 original size:52 final size:52
Alignment explanation
Indices: 527973--528097 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
527963 ATATGAAAAG
* *
527973 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
528025 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
528077 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
528098 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:528110 original size:52 final size:51
Alignment explanation
Indices: 527973--528117 Score: 211
Period size: 52 Copynumber: 2.8 Consensus size: 51
527963 ATATGAAAAG
*
527973 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
528025 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
528077 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
528118 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 83 0.98
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:528124 original size:13 final size:13
Alignment explanation
Indices: 528106--528130 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
528096 CAAAGATCAG
528106 TGTATCGATACAA
1 TGTATCGATACAA
528119 TGTATCGATACA
1 TGTATCGATACA
528131 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:528228 original size:33 final size:33
Alignment explanation
Indices: 528171--528237 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
528161 AGTAGCTTAA
*
528171 ATTGTATCGATACAAAAAAATATGTATTGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
528204 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
528237 A
1 A
528238 AGTCATTGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:529225 original size:49 final size:47
Alignment explanation
Indices: 529145--529500 Score: 378
Period size: 49 Copynumber: 7.7 Consensus size: 47
529135 GATGTCAACG
529145 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAA-ATGAAG-TGCCAATA
* * * * *
529194 TGCTGATTCAAGGCTAGCGATATCAGG-CTT-AAA-G--GTGCCAATG
1 TGCTGATTCAAGGCCAGCTACAT-TGGACTTAAAATGAAGTGCCAATA
*
529237 TGCTGATTCAAGGCCATCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAA-ATGAAG-TGCCAATA
* * *
529286 TGCTGATTCAAGGCCAGCGATATTGGACTT-AAA-G--GTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAATGAAGTGCCAATA
*
529329 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAAATAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTT-AAAATGAA-GTGCCAATA
* * * *
529378 TGCTGATTCAAGGCCAACGATATTGGACTT-AAA-G--GTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAATGAAGTGCCAATA
* *
529421 TGCTGATTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAA-ATGAA-GTGCCAATA
* *
529470 TGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTA
529501 GAAGGGTTGC
Statistics
Matches: 255, Mismatches: 32, Indels: 40
0.78 0.10 0.12
Matches are distributed among these distances:
42 2 0.01
43 98 0.38
44 6 0.02
45 5 0.02
46 3 0.01
47 5 0.02
48 5 0.02
49 129 0.51
50 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (47 bp):
TGCTGATTCAAGGCCAGCTACATTGGACTTAAAATGAAGTGCCAATA
Found at i:529258 original size:92 final size:92
Alignment explanation
Indices: 529144--529505 Score: 591
Period size: 92 Copynumber: 3.9 Consensus size: 92
529134 GGATGTCAAC
* *
529144 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGCCAATATGCTGATTCAAGGCC
*
529209 AGCGATATCAGG-CTTAAAGGTGCCAAT
66 AGCGATAT-TGGACTTAAAGGTGCCAAT
* *
529236 GTGCTGATTCAAGGCCATCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGCCAATATGCTGATTCAAGGCC
529301 AGCGATATTGGACTTAAAGGTGCCAAT
66 AGCGATATTGGACTTAAAGGTGCCAAT
* *
529328 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAATAAAGGTGCCAATATGCTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGCCAATATGCTGATTCAAGGCC
*
529393 AACGATATTGGACTTAAAGGTGCCAAT
66 AGCGATATTGGACTTAAAGGTGCCAAT
* *
529420 GTGCTGATTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGCCAATATGCTGATTCAAGGCC
* *
529485 AGCTATATTGGGCTTAGAAGG
66 AGCGATATTGGACTTA-AAGG
529506 GTTGCCACCG
Statistics
Matches: 255, Mismatches: 13, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
91 2 0.01
92 249 0.98
93 4 0.02
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (92 bp):
GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGCCAATATGCTGATTCAAGGCC
AGCGATATTGGACTTAAAGGTGCCAAT
Found at i:529544 original size:33 final size:35
Alignment explanation
Indices: 529500--529569 Score: 126
Period size: 33 Copynumber: 2.1 Consensus size: 35
529490 TATTGGGCTT
529500 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT-GGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
529534 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTAGGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
529568 AG
1 AG
529570 GGAGAAAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 26 0.74
34 9 0.26
ACGTcount: A:0.20, C:0.17, G:0.37, T:0.26
Consensus pattern (35 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
Found at i:529797 original size:97 final size:98
Alignment explanation
Indices: 529579--530033 Score: 537
Period size: 97 Copynumber: 4.6 Consensus size: 98
529569 GGGAGAAAGA
* * * *
529579 TGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAGAAA
1 TGCCACGGAGTTGTGGGCTTTAAA--G-AAAA-AGTGCCACGGAGTCGTGGGCTTTGAAAAGAAG
* * * *
529643 AAAGTGCCACGAAGTTATGGGCTTTGAAAAGGGAAAAAGAG
62 AAGGTGCCACGGAGTTGTGGGCTTT-AAAA--GAAGAAG-G
* *
529684 TGCCATGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGA
1 TGCCACGGAGTTGTGGGCTTT-AA-AGAAAAA-GTGCCACGGAGTCGTGGGCTTTGAAAAGAAGA
529749 AGGTGCCACGGAGTTGTGGGCTTT-AAA-AAG-A-G
63 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGG
* * *
529781 TGCCACGGAGTCGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGA
1 TGCCACGGAGTTGTGGGCTTT--AAAGAA-AAAGTGCCACGGAGTCGTGGGCTTTGAAAAGAAGA
*
529846 AGGTGCCACGGAGTTGTGGGTTTTAAAAAGAAGAAGG
63 AGGTGCCACGGAGTTGTGGGCTTT-AAAAGAAGAAGG
* *
529883 TGCCACGGAGTTGTGGGCTTT-AA-AAAGAGTGCCACGGAGTCATGGGCTTTGAAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTAAAGAAAAAGTGCCACGGAGTCGTGGGCTTTGAAAAGAAGAAGG
529946 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
66 TGCCACGGAGTTGTGGGCTTT-AAAAGAAGAAGG
* * * *
529980 TGCCACGGAGTTGTGGGCTTTAACGAAAAAATGCCACTGAGTCGTGGACTTTGA
1 TGCCACGGAGTTGTGGGCTTTAAAGAAAAAGTGCCACGGAGTCGTGGGCTTTGA
530034 GACAAAATGC
Statistics
Matches: 312, Mismatches: 25, Indels: 32
0.85 0.07 0.09
Matches are distributed among these distances:
97 166 0.53
98 8 0.03
99 30 0.10
100 5 0.02
101 1 0.00
102 21 0.07
103 4 0.01
104 26 0.08
105 48 0.15
106 2 0.01
107 1 0.00
ACGTcount: A:0.31, C:0.13, G:0.35, T:0.21
Consensus pattern (98 bp):
TGCCACGGAGTTGTGGGCTTTAAAGAAAAAGTGCCACGGAGTCGTGGGCTTTGAAAAGAAGAAGG
TGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGG
Found at i:529851 original size:131 final size:132
Alignment explanation
Indices: 529579--530067 Score: 620
Period size: 131 Copynumber: 3.7 Consensus size: 132
529569 GGGAGAAAGA
* *
529579 TGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAA
1 TGCCACGGAGTTGTGGGCTTTAAAA--GAAGAAG-GTGCCACGGAGTTGTGGGCTTT--AAGAAA
* * * * *
529643 AAAGTGCCACGAAGTTATGGGCTTTGAAAAGGGAAAAAGAGTGCCATGGAGTTGTGGGCTTT-AA
61 AGAGTGCCACGGAGTCATGGGCTTTGAAAA--GAAGAAG-GTGCCACGGAGTTGTGGGCTTTGAA
*
529707 ACAGAAAAAGG
123 A-AGAAGAAGG
529718 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT-A-AAAAGAG
1 TGCCACGGAGTTGTGGGCTTT-AAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAGAAAAGAG
*
529781 TGCCACGGAGTCGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGA
65 TGCCACGGAGTCATGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGA
529846 AGG
130 AGG
*
529849 TGCCACGGAGTTGTGGGTTTTAAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT-A-AAAAGAG
1 TGCCACGGAGTTGTGGGCTTT-AAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAGAAAAGAG
529912 TGCCACGGAGTCATGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGA
65 TGCCACGGAGTCATGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGA
529977 AGG
130 AGG
* ** * * * *
529980 TGCCACGGAGTTGTGGGCTTT-AACGAA-AAAATGCCACTGAGTCGTGGACTTTGAGACAAA-A-
1 TGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAGA-AAAGAG
* * *
530041 TGCCACTGAGTCGTGGACTTTGAAAAG
65 TGCCACGGAGTCATGGGCTTTGAAAAG
530068 GTATTTGAAG
Statistics
Matches: 322, Mismatches: 22, Indels: 22
0.88 0.06 0.06
Matches are distributed among these distances:
128 20 0.06
129 30 0.09
130 2 0.01
131 180 0.56
132 9 0.03
134 29 0.09
135 1 0.00
138 22 0.07
139 23 0.07
140 2 0.01
141 4 0.01
ACGTcount: A:0.31, C:0.13, G:0.34, T:0.21
Consensus pattern (132 bp):
TGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAGAAAAGAGT
GCCACGGAGTCATGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAA
GG
Found at i:530008 original size:37 final size:34
Alignment explanation
Indices: 529579--530000 Score: 557
Period size: 34 Copynumber: 12.6 Consensus size: 34
529569 GGGAGAAAGA
* *
529579 TGCCACGGAGTTGTGGAC-TT-AAAAGGGAAAAAGAG
1 TGCCACGGAGTTGTGGGCTTTGAAAA--GAAGAAG-G
* *
529614 TGCCACGGAGTTGTGGGCTTT-AAAAGAAAAAAG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
* * *
529647 TGCCACGAAGTTATGGGCTTTGAAAAGGGAAAAAGAG
1 TGCCACGGAGTTGTGGGCTTTGAAAA--GAAGAAG-G
* *
529684 TGCCATGGAGTTGTGGGCTTT-AAACAGAAAAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAA-AGAAGAAGG
529718 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
529752 TGCCACGGAGTTGTGGGCTTT--AAA-AAG-A-G
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
*
529781 TGCCACGGAGTCGTGGGCTTTGAAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
529815 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
* *
529849 TGCCACGGAGTTGTGGGTTTTAAAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
529883 TGCCACGGAGTTGTGGGCTTT--AAA-AAG-A-G
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
**
529912 TGCCACGGAGTCATGGGCTTTGAAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
529946 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
529980 TGCCACGGAGTTGTGGGCTTT
1 TGCCACGGAGTTGTGGGCTTT
530001 AACGAAAAAA
Statistics
Matches: 351, Mismatches: 19, Indels: 35
0.87 0.05 0.09
Matches are distributed among these distances:
29 41 0.12
30 2 0.01
31 12 0.03
32 12 0.03
33 22 0.06
34 200 0.57
35 27 0.08
36 15 0.04
37 20 0.06
ACGTcount: A:0.31, C:0.13, G:0.35, T:0.21
Consensus pattern (34 bp):
TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
Found at i:530042 original size:30 final size:31
Alignment explanation
Indices: 529980--530063 Score: 116
Period size: 30 Copynumber: 2.7 Consensus size: 31
529970 AAGAAGAAGG
* * * *
529980 TGCCACGGAGTTGTGGGCTTTAACGAAAAAA
1 TGCCACTGAGTCGTGGACTTTGACGAAAAAA
*
530011 TGCCACTGAGTCGTGGACTTTGA-GACAAAA
1 TGCCACTGAGTCGTGGACTTTGACGAAAAAA
530041 TGCCACTGAGTCGTGGACTTTGA
1 TGCCACTGAGTCGTGGACTTTGA
530064 AAAGGTATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 29 0.60
31 19 0.40
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGACGAAAAAA
Found at i:531358 original size:7 final size:7
Alignment explanation
Indices: 531348--531426 Score: 96
Period size: 7 Copynumber: 11.6 Consensus size: 7
531338 TTTGCACTTT
531348 TTTTTTG
1 TTTTTTG
531355 -TTTTTG
1 TTTTTTG
531361 -TTTTTG
1 TTTTTTG
531367 TTTTTTG
1 TTTTTTG
531374 TTTTTTG
1 TTTTTTG
531381 TTTTTTG
1 TTTTTTG
531388 TTTTTT-
1 TTTTTTG
531394 TTTGTGTT-
1 TTT-T-TTG
531402 TTTTTTG
1 TTTTTTG
531409 TTTGTTTG
1 TTT-TTTG
531417 TTTTTT-
1 TTTTTTG
531423 TTTT
1 TTTT
531427 CATCACTTTT
Statistics
Matches: 67, Mismatches: 0, Indels: 11
0.86 0.00 0.14
Matches are distributed among these distances:
6 21 0.31
7 34 0.51
8 12 0.18
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (7 bp):
TTTTTTG
Found at i:531364 original size:13 final size:12
Alignment explanation
Indices: 531348--531424 Score: 91
Period size: 13 Copynumber: 5.9 Consensus size: 12
531338 TTTGCACTTT
531348 TTTTTTGTTTTTG
1 TTTTTT-TTTTTG
531361 TTTTTGTTTTTTG
1 TTTTT-TTTTTTG
531374 TTTTTTGTTTTTTG
1 -TTTTT-TTTTTTG
*
531388 TTTTTTTTTGTG
1 TTTTTTTTTTTG
531400 TTTTTTTTGTTTG
1 TTTTTTTT-TTTG
531413 TTTGTTTTTTTT
1 TTT-TTTTTTTT
531425 TTCATCACTT
Statistics
Matches: 58, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
12 14 0.24
13 25 0.43
14 19 0.33
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (12 bp):
TTTTTTTTTTTG
Found at i:531384 original size:19 final size:18
Alignment explanation
Indices: 531345--531426 Score: 105
Period size: 19 Copynumber: 4.5 Consensus size: 18
531335 GCCTTTGCAC
531345 TTTTTTTTTG-TTTTTGTT
1 TTTTTTTTTGTTTTTTG-T
531363 TTTGTTTTTTGTTTTTTGT
1 TTT-TTTTTTGTTTTTTGT
*
531382 TTTTTGTTT-TTTTTTGT
1 TTTTTTTTTGTTTTTTGT
*
531399 GTTTTTTTTGTTTGTTTGT
1 TTTTTTTTTGTTT-TTTGT
531418 TTTTTTTTT
1 TTTTTTTTT
531427 CATCACTTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
17 15 0.27
18 11 0.20
19 24 0.43
20 6 0.11
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (18 bp):
TTTTTTTTTGTTTTTTGT
Found at i:531390 original size:33 final size:35
Alignment explanation
Indices: 531348--531426 Score: 112
Period size: 33 Copynumber: 2.3 Consensus size: 35
531338 TTTGCACTTT
531348 TTTTTTGTTTTTGTTTT-TG-TTTTTTGTTT-TTTG
1 TTTTTTGTTTTT-TTTTGTGTTTTTTTGTTTGTTTG
531381 TTTTTTGTTTTTTTTTGTGTTTTTTTTGTTTGTTTG
1 TTTTTTGTTTTTTTTTGTG-TTTTTTTGTTTGTTTG
531417 TTTTTT-TTTT
1 TTTTTTGTTTT
531427 CATCACTTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
32 4 0.10
33 14 0.33
35 14 0.33
36 10 0.24
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (35 bp):
TTTTTTGTTTTTTTTTGTGTTTTTTTGTTTGTTTG
Found at i:531392 original size:43 final size:42
Alignment explanation
Indices: 531345--531426 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 42
531335 GCCTTTGCAC
*
531345 TTTTTTTTTGTTTTTGTTTTTGTTT-TTTGTTTTTTGTTTTTTG
1 TTTTTTTTTGTGTTT-TTTTTGTTTGTTTGTTTTTT-TTTTTTG
531388 TTTTTTTTTGTGTTTTTTTTGTTTGTTTGTTTTTTTTTT
1 TTTTTTTTTGTGTTTTTTTTGTTTGTTTGTTTTTTTTTT
531427 CATCACTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
42 13 0.35
43 24 0.65
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (42 bp):
TTTTTTTTTGTGTTTTTTTTGTTTGTTTGTTTTTTTTTTTTG
Found at i:531437 original size:43 final size:43
Alignment explanation
Indices: 531347--531439 Score: 109
Period size: 43 Copynumber: 2.2 Consensus size: 43
531337 CTTTGCACTT
* * ***
531347 TTTTTTTGTTTTTGTTTTTGTTTTTTGTTTTTTGTTTTTTGTT
1 TTTTTTTGTGTTTGTTTTTGTTTTTTGTTTTTTGTTTTATCAC
531390 TTTTTTTGTGTTT-TTTTTGTTTGTTTGTTTTTT-TTTTCATCAC
1 TTTTTTTGTGTTTGTTTTTGTTT-TTTGTTTTTTGTTTT-ATCAC
531433 TTTTTTT
1 TTTTTTT
531440 AAGGGAACTC
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
42 13 0.30
43 30 0.70
ACGTcount: A:0.02, C:0.03, G:0.12, T:0.83
Consensus pattern (43 bp):
TTTTTTTGTGTTTGTTTTTGTTTTTTGTTTTTTGTTTTATCAC
Found at i:531439 original size:1 final size:1
Alignment explanation
Indices: 531345--531426 Score: 65
Period size: 1 Copynumber: 82.0 Consensus size: 1
531335 GCCTTTGCAC
* * * * * * * * *
531345 TTTTTTTTTGTTTTTGTTTTTGTTTTTTGTTTTTTGTTTTTTGTTTTTTTTTGTGTTTTTTTTGT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
531410 TTGTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTT
531427 CATCACTTTT
Statistics
Matches: 59, Mismatches: 22, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 59 1.00
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (1 bp):
T
Found at i:540950 original size:16 final size:18
Alignment explanation
Indices: 540929--540965 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
540919 TAAAAATATA
*
540929 ATATATTTA-AATA-TTT
1 ATATATTAATAATAGTTT
540945 ATATATTAATAATAGTTT
1 ATATATTAATAATAGTTT
540963 ATA
1 ATA
540966 AGAGATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 4 0.22
18 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
ATATATTAATAATAGTTT
Done.