Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold30
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: 2650045
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.30
Warning! 144233 characters in sequence are not A, C, G, or T
File 13 of 17
Found at i:2003922 original size:32 final size:32
Alignment explanation
Indices: 2003881--2003943 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2003871 TTCAACGATT
*
2003881 TGTATCGATACATAAGTGTTGTATCTATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
2003913 TGTATCGATACATAAGTGTTGTATCGATACA
1 TGTATCGATACATAAGTGTTGTATCGATACA
2003944 TATAAAGCTA
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:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:2004005 original size:13 final size:13
Alignment explanation
Indices: 2003987--2004011 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2003977 ATTACTCAAA
2003987 TGTATCGATACAT
1 TGTATCGATACAT
2004000 TGTATCGATACA
1 TGTATCGATACA
2004012 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:2013728 original size:28 final size:28
Alignment explanation
Indices: 2013624--2014165 Score: 488
Period size: 28 Copynumber: 19.2 Consensus size: 28
2013614 TAGAACGTTT
*
2013624 ATCCCTTCAAAGCCCACAAGTCAGTGGC
1 ATCCTTTCAAAGCCCACAAGTCAGTGGC
* * **
2013652 ATCTTTTAAAAAAACCACAAGTCAGTGGC
1 ATCCTTT-CAAAGCCCACAAGTCAGTGGC
*
2013681 ATCCTTCTCAAAGCTCACAAGTCAGTGGC
1 ATCCTT-TCAAAGCCCACAAGTCAGTGGC
* *
2013710 ATCCTTTCAAAACCCACAAGTTAGTGGC
1 ATCCTTTCAAAGCCCACAAGTCAGTGGC
* *
2013738 ATCCTTTCAAAGCCCATAAATCAGTGGC
1 ATCCTTTCAAAGCCCACAAGTCAGTGGC
2013766 ATCCTTTCAAAGCCCACAAGTCAGTGGC
1 ATCCTTTCAAAGCCCACAAGTCAGTGGC
*
2013794 ATCCTTCTCAACGCCCACAAGTCA---G-
1 ATCCTT-TCAAAGCCCACAAGTCAGTGGC
* * *
2013819 -----TTCAAAGCCTACAAGCCTA-TGGA
1 ATCCTTTCAAAGCCCACAAGTC-AGTGGC
**
2013842 ATCCTTTCAAAGCCCATTAGTCAGTGGC
1 ATCCTTTCAAAGCCCACAAGTCAGTGGC
* *
2013870 ATCCTTTCAAAGCCCACAAGTTAATGGC
1 ATCCTTTCAAAGCCCACAAGTCAGTGGC
*
2013898 A-CTCTTTCAAAG-CC-CAAGTTAGTGGC
1 ATC-CTTTCAAAGCCCACAAGTCAGTGGC
*
2013924 ATCCTTCTCAAATCCCACAAGTCAGTGGC
1 ATCCTT-TCAAAGCCCACAAGTCAGTGGC
*
2013953 ATCCTTTTCAAAGCCCATAAGTCAGTGGC
1 ATCC-TTTCAAAGCCCACAAGTCAGTGGC
* *
2013982 ATCTTTTCAAA-CCCACAAGTCAGTGTC
1 ATCCTTTCAAAGCCCACAAGTCAGTGGC
* *
2014009 ACCCTTTCAAAGCCCACAAGTCAATGGC
1 ATCCTTTCAAAGCCCACAAGTCAGTGGC
*
2014037 A-CCTTTTTCAAAGCCCACAAG-CTAGTGGTA
1 ATCC--TTTCAAAGCCCACAAGTC-AGTGG-C
* * *
2014067 ACTCTTTTCAAAGCCCACAAGTTAGTGGT
1 A-TCCTTTCAAAGCCCACAAGTCAGTGGC
* *
2014096 AACACTTTTCAAAGCCCACACAAGTCGGTGGC
1 ATC-C-TTTCAAAG-CC-CACAAGTCAGTGGC
* *
2014128 AACACTTTTCAAAGCCCACACAAGTTAGTGGC
1 ATC-C-TTTCAAAG-CC-CACAAGTCAGTGGC
2014160 A-CCTTT
1 ATCCTTT
2014166 TTTTAAAAGC
Statistics
Matches: 427, Mismatches: 56, Indels: 61
0.78 0.10 0.11
Matches are distributed among these distances:
19 13 0.03
20 2 0.00
22 1 0.00
26 16 0.04
27 35 0.08
28 156 0.37
29 124 0.29
30 34 0.08
31 3 0.01
32 43 0.10
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (28 bp):
ATCCTTTCAAAGCCCACAAGTCAGTGGC
Found at i:2013846 original size:48 final size:47
Alignment explanation
Indices: 2013771--2013866 Score: 113
Period size: 48 Copynumber: 2.0 Consensus size: 47
2013761 GTGGCATCCT
* * *
2013771 TTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAACGCCCACAAGTCAG
1 TTCAAAGCCCACAAGCCAGTGGAATCCTT-TCAAAGCCCACAAGTCAG
* **
2013819 TTCAAAGCCTACAAGCCTA-TGGAATCCTTTCAAAGCCCATTAGTCAG
1 TTCAAAGCCCACAAGCC-AGTGGAATCCTTTCAAAGCCCACAAGTCAG
2013866 T
1 T
2013867 GGCATCCTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
47 16 0.39
48 24 0.59
49 1 0.02
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.23
Consensus pattern (47 bp):
TTCAAAGCCCACAAGCCAGTGGAATCCTTTCAAAGCCCACAAGTCAG
Found at i:2014077 original size:30 final size:30
Alignment explanation
Indices: 2013846--2014205 Score: 300
Period size: 29 Copynumber: 12.2 Consensus size: 30
2013836 TATGGAATCC
** *
2013846 TTTCAAAGCCCATTAGTCAGTGGC-A-TCC
1 TTTCAAAGCCCACAAGTCAGTGGCAACTCT
* *
2013874 TTTCAAAGCCCACAAGTTAATGGC-ACTC-
1 TTTCAAAGCCCACAAGTCAGTGGCAACTCT
* *
2013902 TTTCAAAG-CC-CAAGTTAGTGGCATC-CT
1 TTTCAAAGCCCACAAGTCAGTGGCAACTCT
* * *
2013929 TCTCAAATCCCACAAGTCAGTGGCATC-CT
1 TTTCAAAGCCCACAAGTCAGTGGCAACTCT
*
2013958 TTTCAAAGCCCATAAGTCAGTGGC-A-TCT
1 TTTCAAAGCCCACAAGTCAGTGGCAACTCT
* *
2013986 TTTCAAA-CCCACAAGTCAGTGTC-AC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCAACTCT
* *
2014013 TTTCAAAGCCCACAAGTCAATGGCACCT-T
1 TTTCAAAGCCCACAAGTCAGTGGCAACTCT
*
2014042 TTTCAAAGCCCACAAG-CTAGTGGTAACTCT
1 TTTCAAAGCCCACAAGTC-AGTGGCAACTCT
* * *
2014072 TTTCAAAGCCCACAAGTTAGTGGTAACACT
1 TTTCAAAGCCCACAAGTCAGTGGCAACTCT
* *
2014102 TTTCAAAGCCCACACAAGTCGGTGGCAACACT
1 TTTCAAAG-CC-CACAAGTCAGTGGCAACTCT
* * *
2014134 TTTCAAAGCCCACACAAGTTAGTGGCACCTTTT
1 TTTCAAAG-CC-CACAAGTCAGTGGCAAC-TCT
* * *
2014167 TTTAAAAGCCCACGTAAGTCGGTGGCAACACT
1 TTTCAAAGCCCAC--AAGTCAGTGGCAACTCT
2014199 TTTCAAA
1 TTTCAAA
2014206 TCACCACTTT
Statistics
Matches: 274, Mismatches: 40, Indels: 32
0.79 0.12 0.09
Matches are distributed among these distances:
26 12 0.04
27 32 0.12
28 55 0.20
29 63 0.23
30 36 0.13
31 5 0.02
32 52 0.19
33 19 0.07
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (30 bp):
TTTCAAAGCCCACAAGTCAGTGGCAACTCT
Found at i:2014132 original size:32 final size:29
Alignment explanation
Indices: 2013846--2014205 Score: 301
Period size: 28 Copynumber: 12.2 Consensus size: 29
2013836 TATGGAATCC
** *
2013846 TTTCAAAGCCCATTAGTCAGTGGCATCC-
1 TTTCAAAGCCCACAAGTCAGTGGCAACCT
* *
2013874 TTTCAAAGCCCACAAGTTAATGGC-A-CT
1 TTTCAAAGCCCACAAGTCAGTGGCAACCT
* *
2013901 CTTTCAAAG-CC-CAAGTTAGTGGCATCCT
1 -TTTCAAAGCCCACAAGTCAGTGGCAACCT
* * *
2013929 TCTCAAATCCCACAAGTCAGTGGCATCCT
1 TTTCAAAGCCCACAAGTCAGTGGCAACCT
* *
2013958 TTTCAAAGCCCATAAGTCAGTGGC-ATCT
1 TTTCAAAGCCCACAAGTCAGTGGCAACCT
* *
2013986 TTTCAAA-CCCACAAGTCAGTGTC-ACCC
1 TTTCAAAGCCCACAAGTCAGTGGCAACCT
*
2014013 TTTCAAAGCCCACAAGTCAATGGC-ACCTT
1 TTTCAAAGCCCACAAGTCAGTGGCAACC-T
*
2014042 TTTCAAAGCCCACAAG-CTAGTGGTAACTCT
1 TTTCAAAGCCCACAAGTC-AGTGGCAAC-CT
* *
2014072 TTTCAAAGCCCACAAGTTAGTGGTAACACT
1 TTTCAAAGCCCACAAGTCAGTGGCAAC-CT
*
2014102 TTTCAAAGCCCACACAAGTCGGTGGCAACACT
1 TTTCAAAG-CC-CACAAGTCAGTGGCAAC-CT
*
2014134 TTTCAAAGCCCACACAAGTTAGTGGC-ACCTTTT
1 TTTCAAAG-CC-CACAAGTCAGTGGCAACC---T
* *
2014167 TTTAAAAGCCCACGTAAGTCGGTGGCAACACT
1 TTTCAAAGCCCAC--AAGTCAGTGGCAAC-CT
2014199 TTTCAAA
1 TTTCAAA
2014206 TCACCACTTT
Statistics
Matches: 276, Mismatches: 35, Indels: 38
0.79 0.10 0.11
Matches are distributed among these distances:
26 12 0.04
27 31 0.11
28 59 0.21
29 57 0.21
30 39 0.14
31 8 0.03
32 50 0.18
33 17 0.06
34 2 0.01
35 1 0.00
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (29 bp):
TTTCAAAGCCCACAAGTCAGTGGCAACCT
Found at i:2014193 original size:65 final size:59
Alignment explanation
Indices: 2013846--2014205 Score: 289
Period size: 55 Copynumber: 6.1 Consensus size: 59
2013836 TATGGAATCC
** * *** *
2013846 TTTCAAAGCCCATTAGTCAGTGGCATCC--TTTCAAAGCCCACAAGTTAATGGC-ACTC-
1 TTTCAAAGCCCACAAGTTAGTGGCA-CCTTTTTCAAAGCCCACAAGTCGGTGGCAACACT
* * * *
2013902 TTTCAAAG-CC-CAAGTTAGTGGCATCC-TTCTCAAATCCCACAAGTCAGTGGCATC-CT
1 TTTCAAAGCCCACAAGTTAGTGGCA-CCTTTTTCAAAGCCCACAAGTCGGTGGCAACACT
* * * * * *
2013958 TTTCAAAGCCCATAAGTCAGTGGCATC-TTTTCAAA-CCCACAAGTCAGTGTC-AC-CC
1 TTTCAAAGCCCACAAGTTAGTGGCACCTTTTTCAAAGCCCACAAGTCGGTGGCAACACT
* * * * *
2014013 TTTCAAAGCCCACAAGTCAATGGCACCTTTTTCAAAGCCCACAAG-CTAGTGGTAACTCT
1 TTTCAAAGCCCACAAGTTAGTGGCACCTTTTTCAAAGCCCACAAGTC-GGTGGCAACACT
*
2014072 TTTCAAAGCCCACAAGTTAGTGGTAACAC-TTTTCAAAGCCCACACAAGTCGGTGGCAACACT
1 TTTCAAAGCCCACAAGTTAGTGG-CAC-CTTTTTCAAAG-CC-CACAAGTCGGTGGCAACACT
*
2014134 TTTCAAAGCCCACACAAGTTAGTGGCACCTTTTTTTAAAAGCCCACGTAAGTCGGTGGCAACACT
1 TTTCAAAG-CC-CACAAGTTAGTGGCACC--TTTTTCAAAGCCCAC--AAGTCGGTGGCAACACT
2014199 TTTCAAA
1 TTTCAAA
2014206 TCACCACTTT
Statistics
Matches: 253, Mismatches: 29, Indels: 35
0.80 0.09 0.11
Matches are distributed among these distances:
54 13 0.05
55 49 0.19
56 41 0.16
57 22 0.09
58 13 0.05
59 22 0.09
60 11 0.04
61 3 0.01
62 24 0.09
63 8 0.03
64 15 0.06
65 32 0.13
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (59 bp):
TTTCAAAGCCCACAAGTTAGTGGCACCTTTTTCAAAGCCCACAAGTCGGTGGCAACACT
Found at i:2014530 original size:19 final size:19
Alignment explanation
Indices: 2014506--2014573 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
2014496 AATTCAACAA
2014506 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
2014525 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
2014540 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
2014557 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
2014574 TTAGCTACTA
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:2014545 original size:13 final size:13
Alignment explanation
Indices: 2014527--2014551 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2014517 ACATAAGTTT
2014527 TGTATCGATACAA
1 TGTATCGATACAA
2014540 TGTATCGATACA
1 TGTATCGATACA
2014552 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:2014549 original size:32 final size:32
Alignment explanation
Indices: 2014508--2014570 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2014498 TTCAACAATT
*
2014508 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
2014540 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
2014571 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:2014631 original size:13 final size:13
Alignment explanation
Indices: 2014613--2014638 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2014603 CATTTTTCTG
2014613 TGTATCGATACAT
1 TGTATCGATACAT
2014626 TGTATCGATACAT
1 TGTATCGATACAT
2014639 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2014635 original size:33 final size:33
Alignment explanation
Indices: 2014593--2014659 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2014583 ATCAAGGAAA
***
2014593 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
2014626 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
2014659 T
1 T
2014660 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:2017176 original size:28 final size:27
Alignment explanation
Indices: 2017109--2017181 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
2017099 CTTCACAATC
*
2017109 GGGGATACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
2017136 GGGGATACTCCAACCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
*
2017164 GGGGATACTCCAATCCCG
1 GGGGATACTCCAACCCCG
2017182 ACTTTATTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.23, C:0.32, G:0.22, T:0.23
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:2017227 original size:51 final size:50
Alignment explanation
Indices: 2017164--2017386 Score: 205
Period size: 52 Copynumber: 4.3 Consensus size: 50
2017154 TTATTTCTGA
* * *** *
2017164 GGGGATACTCCAATCCCGACTTTATTTCCAAAATATTTATTTTTCATAATC
1 GGGGATACTCCAA-CCCGATTTTATTTCCAAAACACCAATTTTTCACAATC
* * * * *
2017215 GGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTCCACAATT
1 GGGGATACTCCAA-CCCGATTTTATTTCCAAAACACCAATTTTT-CACAATC
* * *
2017267 GGGGATACTCCAACCTCGGTTTTATTTTCAAAACACCAA-TTTTCCCTTTAATC
1 GGGGATACTCCAACC-CGATTTTATTTCCAAAACACCAATTTTTCAC---AATC
* *
2017320 GGGGATACTCCAACTTCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAAC-CCGATTTTATTTCC-AAAACACCAATTTTTCACAATC
*
2017372 GAGGATACTCCAACC
1 GGGGATACTCCAACC
2017387 TCGTTATTTC
Statistics
Matches: 141, Mismatches: 23, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
50 2 0.01
51 42 0.30
52 54 0.38
53 28 0.20
54 9 0.06
55 6 0.04
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.34
Consensus pattern (50 bp):
GGGGATACTCCAACCCGATTTTATTTCCAAAACACCAATTTTTCACAATC
Found at i:2017406 original size:28 final size:28
Alignment explanation
Indices: 2017374--2017445 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
2017364 TCACAATCGA
* *
2017374 GGATACTCCAACCTCGTTATTTCATC-A-G
1 GGATACTCCAACCCCGTTACTTC--CGAGG
2017402 GGATACTCCAACCCCGTTACTTCCGAGG
1 GGATACTCCAACCCCGTTACTTCCGAGG
2017430 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
2017446 GCTTTATTCC
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
26 1 0.03
27 1 0.03
28 38 0.95
ACGTcount: A:0.24, C:0.35, G:0.18, T:0.24
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTCCGAGG
Found at i:2017464 original size:264 final size:263
Alignment explanation
Indices: 2016995--2017496 Score: 758
Period size: 264 Copynumber: 1.9 Consensus size: 263
2016985 TTCTCAATTC
* * * *
2016995 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAGAACACTAATTTTCTATAGTCGGGGA
1 TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
*
2017060 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
* * * *
2017125 CGTTAATCATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAATCCCGACTTTATT
131 CGTTAATCATCAGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATT
* * *
2017190 TCCAAAATATTTATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAAT
196 CCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAAT
2017255 TTT
261 TTT
* * *
2017258 TCCACAATTGGGGATACTCCAAC-CTCGGTTTTATTTTCAAAACACCAATTTTCCCTTTAATCGG
1 TCCACAATCGGGGATACTCCAACTC-CGATTTTATTTTCAAAACACCAATTTT--CTATAATCGG
* *
2017322 GGATACTCCAACTTCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAA
63 GGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAA
* * *
2017385 CCTCGTTATTTCATCAGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTT
128 CCCCGTTA-ATCATCAGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTT
*
2017450 TATTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAACCCCG
192 TATTCCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCG
2017497 TTATTTTCAA
Statistics
Matches: 214, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
262 1 0.00
263 73 0.34
264 106 0.50
265 34 0.16
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (263 bp):
TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTAATCATCAGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATT
CCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAAT
TTT
Found at i:2019683 original size:4 final size:4
Alignment explanation
Indices: 2019674--2019707 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
2019664 TTTTGAGGTG
* *
2019674 TTAT TTAT TTAT TTAT TTAT ATAT CTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
2019708 TGTTTTTTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (4 bp):
TTAT
Found at i:2024353 original size:17 final size:17
Alignment explanation
Indices: 2024331--2024364 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2024321 CAGAGGTAAG
*
2024331 AAGGAAGGCAAAGTCAA
1 AAGGAAGCCAAAGTCAA
*
2024348 AAGGAAGCCATAGTCAA
1 AAGGAAGCCAAAGTCAA
2024365 GAATCGATGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.15, G:0.26, T:0.09
Consensus pattern (17 bp):
AAGGAAGCCAAAGTCAA
Found at i:2029428 original size:1 final size:1
Alignment explanation
Indices: 2029422--2029484 Score: 72
Period size: 1 Copynumber: 63.0 Consensus size: 1
2029412 CCTTCCCTTC
* * * * * *
2029422 AAAAAAAGAAAAAAAACAAAAACAAAAAAACAAAAAAACAAAAAAAAAAAAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2029485 TCTGCTTAAG
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.90, C:0.06, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:2029448 original size:22 final size:20
Alignment explanation
Indices: 2029422--2029478 Score: 87
Period size: 21 Copynumber: 2.8 Consensus size: 20
2029412 CCTTCCCTTC
*
2029422 AAAAAAAGAAAAAAAACAAA
1 AAAAAAAAAAAAAAAACAAA
2029442 AACAAAAAAACAAAAAAACAAA
1 AA-AAAAAAA-AAAAAAACAAA
2029464 AAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAA
2029479 GAAAAATCTG
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
20 8 0.24
21 13 0.38
22 13 0.38
ACGTcount: A:0.91, C:0.07, G:0.02, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAAAAAAAACAAA
Found at i:2029449 original size:16 final size:15
Alignment explanation
Indices: 2029422--2029484 Score: 83
Period size: 15 Copynumber: 4.1 Consensus size: 15
2029412 CCTTCCCTTC
*
2029422 AAAAAAAGAAAAAAA
1 AAAAAAACAAAAAAA
*
2029437 ACAAAAACAAAAAAA
1 AAAAAAACAAAAAAA
2029452 CAAAAAAACAAAAAAA
1 -AAAAAAACAAAAAAA
2029468 AAAAAAA-AAAAGAAA
1 AAAAAAACAAAA-AAA
2029483 AA
1 AA
2029485 TCTGCTTAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
14 4 0.09
15 25 0.58
16 14 0.33
ACGTcount: A:0.90, C:0.06, G:0.03, T:0.00
Consensus pattern (15 bp):
AAAAAAACAAAAAAA
Found at i:2030638 original size:61 final size:61
Alignment explanation
Indices: 2030454--2031511 Score: 1198
Period size: 55 Copynumber: 18.2 Consensus size: 61
2030444 GCTTTTTAGC
* * * *
2030454 CCTCAAAGAGCAAGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCTGT
1 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
* *
2030515 CCCCAAAGAGCAGGA---C--C-CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCCAGT
1 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-TCAGT
*
2030570 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCCGT
1 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
* * *
2030631 CCCCAAAGAGCAGGA------CACCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGT
1 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
* *
2030685 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTCTCAAT
1 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-TCAGT
*
2030746 CCTCAAAGAGCAGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCTCAGT
1 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-TCAGT
*
2030807 CCTCAAAGAGCAGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA--TTTCCCAGT
1 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT--CAGT
*
2030868 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCTAGT
1 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC-AGT
* * * *
2030929 CCTCAAAGAGCGGGACGCCTT-TTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCCGT
1 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
* *
2030989 CCCCAAAGAGCAGGA---C--C-CCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGT
1 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT-CAGT
* * * *
2031044 CCTCAAAGAGCGGGATGCCTT-TTCTCTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGT
1 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
* * *
2031103 CCTCAAAGAGCGGGATGCCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
1 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
* * *
2031163 CCCCAAAGAGTAGGA------CACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
1 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
* *
2031218 CCTCAAAGAGCGGGACGCCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
1 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
* *
2031278 CCCCAAAGAGCAGGA------CACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
1 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
* * * *
2031333 CCCCAAAGAGCAGGACACCTT-T-C----AAAACCCACACAAGTTGGTGGCA-TTTTCCAGT
1 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT-CAGT
* *
2031388 CCTCAAAGAGCGGGAC-AC--CT-C--TTAAAGCCCACACAAG-TGGTGGCACCTTTCAGT
1 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
* * * *
2031442 CTTCAAAGAGCAGGACGCCTT-T-C----AAAGCCCACACGAGTTGGTGGCACTTTTTAGT
1 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
2031497 CCTCAAAGAGCAGGA
1 CCTCAAAGAGCAGGA
2031512 TACACTTTAT
Statistics
Matches: 877, Mismatches: 67, Indels: 112
0.83 0.06 0.11
Matches are distributed among these distances:
53 2 0.00
54 69 0.08
55 306 0.35
56 2 0.00
57 1 0.00
58 3 0.00
59 58 0.07
60 176 0.20
61 254 0.29
62 6 0.01
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (61 bp):
CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
Found at i:2030753 original size:115 final size:117
Alignment explanation
Indices: 2030454--2031511 Score: 1157
Period size: 115 Copynumber: 9.1 Consensus size: 117
2030444 GCTTTTTAGC
* * *
2030454 CCTCAAAGAGCAAGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCT--GTCC
1 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCTCAGTCC
*
2030517 CCAAAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCCAGT
65 TCAAAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCATCTT-CCAGT
2030570 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC-C-GTCC
1 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCTCAGTCC
* *
2030633 CCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGT
65 TCAAAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCATCTTCCAGT
*
2030685 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTCTCAATCCT
1 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTCAGTCCT
2030749 CAAAGAGCAGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCTCAGT
66 CAAAGAGCAGGA---C--C-CCTTTTAAAGCCCACACAAGTTGGTGGCATCTTC-CAGT
* *
2030807 CCTCAAAGAGCAGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTCCCAGTCCT
1 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTCAGTCCT
* *
2030871 CAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGT
66 CAAAGAGCAGGA---C--C-CCTTTTAAAGCCCACACAAGTTGGTGGCATCTTCCAGT
* * *
2030929 CCTCAAAGAGCGGGACGCCTT-TTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-C-GTCC
1 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCTCAGTCC
* *
2030991 CCAAAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGT
65 TCAAAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCATCTTCCAGT
* * * * *
2031044 CCTCAAAGAGCGGGATGCCTT-TTCTCTTAAAGCCCACACAAGTTGGTGGCAC-CT-TCAGTCCT
1 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTCAGTCCT
* * * *
2031106 CAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
66 CAAAGAGCAGGA--CC---CCTTTTAAAGCCCACACAAGTTGGTGGCATCTTCCAGT
* * * *
2031163 CCCCAAAGAGTAGGA------CACCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-TCAGTCCT
1 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTCAGTCCT
* * *
2031221 CAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
66 CAAAGAGCAGGAC-CC----CTTTTAAAGCCCACACAAGTTGGTGGCATCTTCCAGT
* * * *
2031278 CCCCAAAGAGCAGGA------CACCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-TCAGTCCC
1 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTCAGTCCT
* * * *
2031336 CAAAGAGCAGGACACCTTTCAAAACCCACACAAGTTGGTGGCATTTTCCAGT
66 CAAAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCATCTTCCAGT
* * * *
2031388 CCTCAAAGAGCGGGAC-AC--CT-C--TTAAAGCCCACACAAG-TGGTGGCACCTT-TCAGTCTT
1 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTCAGTCCT
* * * **
2031445 CAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA-CTTTTTAGT
66 CAAAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCATC-TTCCAGT
2031497 CCTCAAAGAGCAGGA
1 CCTCAAAGAGCAGGA
2031512 TACACTTTAT
Statistics
Matches: 853, Mismatches: 58, Indels: 69
0.87 0.06 0.07
Matches are distributed among these distances:
109 77 0.09
110 61 0.07
112 1 0.00
113 8 0.01
114 47 0.06
115 283 0.33
116 108 0.13
118 2 0.00
119 46 0.05
121 77 0.09
122 136 0.16
123 7 0.01
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (117 bp):
CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTCAGTCCT
CAAAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCATCTTCCAGT
Found at i:2031337 original size:29 final size:29
Alignment explanation
Indices: 2031250--2031337 Score: 76
Period size: 29 Copynumber: 3.1 Consensus size: 29
2031240 TCTTTTAAAG
2031250 CCCACACAAGTTGGTGGCACCTTTCAGTC
1 CCCACACAAGTTGGTGGCACCTTTCAGTC
** * * ***
2031279 CCCA-A-AGAG-CAG-GACACCTTTTAAAG
1 CCCACACA-AGTTGGTGGCACCTTTCAGTC
2031305 CCCACACAAGTTGGTGGCACCTTTCAGTC
1 CCCACACAAGTTGGTGGCACCTTTCAGTC
2031334 CCCA
1 CCCA
2031338 AAGAGCAGGA
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
26 13 0.32
27 5 0.12
28 5 0.12
29 17 0.43
ACGTcount: A:0.26, C:0.34, G:0.19, T:0.20
Consensus pattern (29 bp):
CCCACACAAGTTGGTGGCACCTTTCAGTC
Found at i:2032315 original size:19 final size:19
Alignment explanation
Indices: 2032291--2032358 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
2032281 AATTCAACAA
2032291 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
2032310 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
2032325 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
2032342 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
2032359 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:2032330 original size:13 final size:13
Alignment explanation
Indices: 2032312--2032336 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2032302 ACATAAGTTT
2032312 TGTATCGATACAA
1 TGTATCGATACAA
2032325 TGTATCGATACA
1 TGTATCGATACA
2032337 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:2032334 original size:32 final size:32
Alignment explanation
Indices: 2032293--2032355 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2032283 TTCAACAATT
*
2032293 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
2032325 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
2032356 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:2032416 original size:13 final size:13
Alignment explanation
Indices: 2032398--2032423 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2032388 CATTTTTCTG
2032398 TGTATCGATACAT
1 TGTATCGATACAT
2032411 TGTATCGATACAT
1 TGTATCGATACAT
2032424 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2032435 original size:33 final size:33
Alignment explanation
Indices: 2032378--2032444 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
2032368 GCCAAGGAAA
***
2032378 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
* *
2032411 TGTATCGATACATGGATCTTTGTATTGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
2032444 T
1 T
2032445 TGGAAATTTT
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:0.25, C:0.13, G:0.16, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:2034875 original size:51 final size:52
Alignment explanation
Indices: 2034791--2034916 Score: 166
Period size: 51 Copynumber: 2.4 Consensus size: 52
2034781 CTCAATTCTC
* * * *
2034791 CACAATCTGGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAATT-TT
1 CACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTATT
*
2034841 CTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTACTT
1 C-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAATTA-TT
2034896 CACAATCGGGGATACTCCAAC
1 CACAATCGGGGATACTCCAAC
2034917 CCCGTTATTT
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
50 1 0.02
51 31 0.48
53 11 0.17
54 19 0.29
55 3 0.05
ACGTcount: A:0.33, C:0.25, G:0.10, T:0.31
Consensus pattern (52 bp):
CACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTATT
Found at i:2035007 original size:82 final size:81
Alignment explanation
Indices: 2034849--2034999 Score: 207
Period size: 82 Copynumber: 1.9 Consensus size: 81
2034839 TTCTATAATC
* *
2034849 GGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTACTTCACAATCGGGGATACTCC
1 GGGGATACTCCAACCCCGAATTTATTTCC-AAAAACACCAATTACTTCACAATCGGGGATACTCC
2034914 AACCCCGTTATTTCCGA
65 AACCCCGTTATTTCCGA
* *** * *
2034931 GGGGATACTCCAACCCCGAATTTATTTCC-AAAATATTGATT-TTTCATAATCGGGGATACTCCA
1 GGGGATACTCCAACCCCGAATTTATTTCCAAAAACACCAATTACTTCACAATCGGGGATACTCCA
2034994 ACCCCG
66 ACCCCG
2035000 GTTTTATTGC
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
79 26 0.43
80 8 0.13
82 27 0.44
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
GGGGATACTCCAACCCCGAATTTATTTCCAAAAACACCAATTACTTCACAATCGGGGATACTCCA
ACCCCGTTATTTCCGA
Found at i:2035110 original size:53 final size:53
Alignment explanation
Indices: 2034931--2035153 Score: 222
Period size: 52 Copynumber: 4.3 Consensus size: 53
2034921 TTATTTCCGA
** * *** *
2034931 GGGGATACTCCAACCCCGAATTTATTTCC-AAAATATTGATTTT-TCATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAAACACCAATTTTCCCATAATC
* * * * *
2034982 GGGGATACTCCAACCCCGGTTTTA-TTGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAAACACCAATTTTCCCATAATC
* *
2035034 GGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTTCCCTTTAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAAACACCAATTTTCCC-ATAATC
* * * * *
2035087 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTT-TCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAAACACCAATTTTCCCATAATC
*
2035139 GAGGATACTCCAACC
1 GGGGATACTCCAACC
2035154 TCGTTACTTC
Statistics
Matches: 145, Mismatches: 22, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
50 3 0.02
51 33 0.23
52 62 0.43
53 34 0.23
54 13 0.09
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (53 bp):
GGGGATACTCCAACCCCGGTTTTATTTCCAAAAACACCAATTTTCCCATAATC
Found at i:2035202 original size:236 final size:236
Alignment explanation
Indices: 2034789--2035235 Score: 693
Period size: 236 Copynumber: 1.9 Consensus size: 236
2034779 TTCTCAATTC
* * * *
2034789 TCCACAATCTGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
*
2034854 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTACTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTACTTCACAATCGAGGATACTCCAACCC
* * *
2034919 CGTTATTTCCGAGGGGATACTCCAACCCCGAATTTATTTCCAAAATATTGATTTTTCATAATCGG
131 CGTTACTTCCGAGGGGATACTCCAACCCCGAATTTATTTCCAAAATATTGATTTCTCATAATCAG
2034984 GGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTT
196 GGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTT
* *
2035025 TCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCCTTTAATCGGG
1 TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTT--CTATAATCGGG
* *
2035090 GATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATT-TTTCACAATCGAGGATACTCCAAC
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTACTTCACAATCGAGGATACTCCAAC
* * **
2035153 CTCGTTACTTCCGCGGGGATACTCCAACCCCGGCTTTA-TTCCTAAAATATTGATTTCTCATAAT
129 CCCGTTACTTCCGAGGGGATACTCCAACCCCGAATTTATTTCC-AAAATATTGATTTCTCATAAT
*
2035217 TAGGGATACTCCAACCCCG
193 CAGGGATACTCCAACCCCG
2035236 TTATTTTTGA
Statistics
Matches: 191, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
235 4 0.02
236 139 0.73
237 12 0.06
238 36 0.19
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (236 bp):
TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTACTTCACAATCGAGGATACTCCAACCC
CGTTACTTCCGAGGGGATACTCCAACCCCGAATTTATTTCCAAAATATTGATTTCTCATAATCAG
GGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTT
Found at i:2040091 original size:97 final size:97
Alignment explanation
Indices: 2039980--2040178 Score: 326
Period size: 97 Copynumber: 2.1 Consensus size: 97
2039970 TGCAACCCCA
2039980 CTTTTAAACACATCAAAGTTTAAATCTTATTCCCACTTAAATTGTCACCATCGGGGACATTTCAA
1 CTTTTAAACACATCAAAGTTTAAATCTTATTCCCACTTAAATTGTCACCATCGGGGACATTTCAA
*
2040045 CTCCATTCCTCTGAGGGGATACTCCAACCTCG
66 CTCCATTCCTCTGAGGGGATACCCCAACCTCG
* ** * *
2040077 CTTTTAAACGCATCAAAGTTTAAATCTTATTCTTATTTAAATTGTCATCATCGGGGACATTTCAA
1 CTTTTAAACACATCAAAGTTTAAATCTTATTCCCACTTAAATTGTCACCATCGGGGACATTTCAA
*
2040142 CTCCATTCTTCTGAGGGGATACCCCAACCTCG
66 CTCCATTCCTCTGAGGGGATACCCCAACCTCG
*
2040174 TTTTT
1 CTTTT
2040179 CAATAAAAAA
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
97 94 1.00
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.35
Consensus pattern (97 bp):
CTTTTAAACACATCAAAGTTTAAATCTTATTCCCACTTAAATTGTCACCATCGGGGACATTTCAA
CTCCATTCCTCTGAGGGGATACCCCAACCTCG
Found at i:2050270 original size:13 final size:13
Alignment explanation
Indices: 2050252--2050276 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2050242 CAAAGATCAG
2050252 TGTATCGATACAA
1 TGTATCGATACAA
2050265 TGTATCGATACA
1 TGTATCGATACA
2050277 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:2050360 original size:33 final size:33
Alignment explanation
Indices: 2050318--2050384 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
2050308 AGTAGCTTAA
*
2050318 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGACACAAAAAAATATGTATCGATAC
* ***
2050351 ATTGTATCGACACAACACTTTATGTATCGATAC
1 ATTGTATCGACACAAAAAAATATGTATCGATAC
2050384 A
1 A
2050385 AATCGTTGAA
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:0.16, G:0.12, T:0.31
Consensus pattern (33 bp):
ATTGTATCGACACAAAAAAATATGTATCGATAC
Found at i:2051209 original size:169 final size:171
Alignment explanation
Indices: 2050929--2051302 Score: 425
Period size: 169 Copynumber: 2.2 Consensus size: 171
2050919 CCACTGTGCA
* * * * * *
2050929 GATTCAAGGCCTGCCACACTGGACCTAAAGATGATGAGGATGGAGAGTGATAAAAGGACCAATAC
1 GATTCAAGGCCAGCCACATTGGACTTAAAGATGAAGAGGATGAAAAGTGATAAAAGGACCAATAC
* *
2050994 ATTGATTCACGGCCAACGATATTGGGTTTAGAGATGAGAAAAAGGA-TAAAGGAGCCAATATGC-
66 ATTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGAGTAAAGGAGCCAAT-T-CA
* * *
2051057 GGCTAGCGATATTGGACTTAAAGAT-AAAGGTGTCAATGTACT
129 GGCTAGCGATATTGAACTTAAAGATGAAAGGTGCCAATATACT
* * *
2051099 GATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGA-GAAAAGTGATAAAGATG-CCAATA
1 GATTCAAGGCCAGCCACATTGGACTTAAAGATGAAGAGGATGAAAAGTGATAAA-AGGACCAATA
** * * * **
2051162 TGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCA
65 CATTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGA-GTAAAGGAGCCAATTC-
* *
2051227 AGGCTAGCTATATTGAACTTAAAGATGGAAAAGGTGCCAATATGCT
128 AGGCTAGCGATATTGAACTTAAAGAT-G-AAAGGTGCCAATATACT
* *
2051273 GATTCAAGGCCAGCTATATTGGACTTAAAG
1 GATTCAAGGCCAGCCACATTGGACTTAAAG
2051303 GTGGAAAATG
Statistics
Matches: 171, Mismatches: 25, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
169 61 0.36
170 37 0.22
171 31 0.18
174 42 0.25
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (171 bp):
GATTCAAGGCCAGCCACATTGGACTTAAAGATGAAGAGGATGAAAAGTGATAAAAGGACCAATAC
ATTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGAGTAAAGGAGCCAATTCAGG
CTAGCGATATTGAACTTAAAGATGAAAGGTGCCAATATACT
Found at i:2051288 original size:52 final size:51
Alignment explanation
Indices: 2051141--2051590 Score: 440
Period size: 52 Copynumber: 9.1 Consensus size: 51
2051131 GAAGATGAGA
* * * * * *
2051141 AAAG-TGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTT
1 AAAGATGA-AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * * *
2051192 AAAGATGAGAAAAAGGATGTCAATGTGCTGATTCAAGGCTAGCTATATTGAACTT
1 AAAGAT--G-AAAAGG-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
2051247 AAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGAT-GAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
2051299 AAAGGTGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGAT-GAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * * *
2051351 AAAGGTGGAAAAGGTGGCAATATGCTAATTCAAGGCCAGCAATATTGGAC-T
1 AAAGAT-GAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
2051402 -----T--AAAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTT
1 AAAGATGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
2051446 AAAGATG--AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTT
1 AAAGATGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
2051495 AGAGGTGAAAA--TG------TGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGATGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
2051538 AAAGA--AGAAGGTGCCAATATGCTGATTCTAA-GCCAGCGATATTGGACTT
1 AAAGATGAAAAGGTGCCAATATGCTGATTC-AAGGCCAGCTATATTGGACTT
2051587 AAAG
1 AAAG
2051591 GTGCCAATGT
Statistics
Matches: 336, Mismatches: 40, Indels: 48
0.79 0.09 0.11
Matches are distributed among these distances:
41 3 0.01
43 68 0.20
44 1 0.00
46 1 0.00
49 75 0.22
50 2 0.01
51 7 0.02
52 131 0.39
53 6 0.02
54 6 0.02
55 36 0.11
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (51 bp):
AAAGATGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
Found at i:2051425 original size:43 final size:43
Alignment explanation
Indices: 2051360--2051635 Score: 275
Period size: 43 Copynumber: 6.1 Consensus size: 43
2051350 TAAAGGTGGA
* * * *
2051360 AAAGGTGGCAATATGCTAATTCAAGGCCAGCAATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
2051403 AAAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
2051446 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTT
1 ----A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* ** *
2051495 AGAGGTGAAAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
2051538 AAAGAAGAAGGTGCCAATATGCTGATTCTAA-GCCAGCGATATTGGACTT
1 -----A-AAGGTGCCAATATGCTGATTC-AAGGCCAGCTACATTGGACTT
* *
2051587 AAAGGTGCCAATGTGCTGATTCAATGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
2051630 AGAAGG
1 A-AAGG
2051636 GTTGCCACCG
Statistics
Matches: 193, Mismatches: 25, Indels: 29
0.78 0.10 0.12
Matches are distributed among these distances:
42 2 0.01
43 110 0.57
44 5 0.03
45 1 0.01
47 1 0.01
48 1 0.01
49 71 0.37
50 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.26
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
Found at i:2051501 original size:92 final size:92
Alignment explanation
Indices: 2051312--2051630 Score: 469
Period size: 92 Copynumber: 3.4 Consensus size: 92
2051302 GGTGGAAAAT
* * * *
2051312 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGGAAAAGGTGGCAATATGCT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAATATGCT
*
2051377 AATTCAAGGCCAGCAATATTGGACTTAAAG
63 GATTCAAGGCCAGCAATATTGGACTTAAAG
*
2051407 GTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGAT
* * *
2051472 TCAAGGCCAGCTATATTGGGCTTAGAG
66 TCAAGGCCAGCAATATTGGACTTAAAG
** *
2051499 GTGAAAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGAT
*
2051564 TCTAA-GCCAGCGATATTGGACTTAAAG
66 TC-AAGGCCAGCAATATTGGACTTAAAG
*
2051591 GTGCCAATGTGCTGATTCAATGCCAGCTACATTGGACTTA
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
2051631 GAAGGGTTGC
Statistics
Matches: 204, Mismatches: 19, Indels: 5
0.89 0.08 0.02
Matches are distributed among these distances:
92 160 0.78
93 2 0.01
94 1 0.00
95 41 0.20
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.26
Consensus pattern (92 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGAT
TCAAGGCCAGCAATATTGGACTTAAAG
Found at i:2051669 original size:32 final size:32
Alignment explanation
Indices: 2051628--2051829 Score: 304
Period size: 32 Copynumber: 6.3 Consensus size: 32
2051618 TACATTGGAC
2051628 TTAGA-AGGGTTGCCACCGACTTGTGTGGGCT
1 TTAGAGAGGGTTGCCACCGACTTGTGTGGGCT
2051659 TTAGAGAGGGTTGCCACCGACTTGTGTGGGCT
1 TTAGAGAGGGTTGCCACCGACTTGTGTGGGCT
2051691 TT-GAGAAGGGTTGCCACCGACTTGTGTGGGCT
1 TTAGAG-AGGGTTGCCACCGACTTGTGTGGGCT
* *
2051723 TTAAAG-GGGATTGCCACCAACTTGTGTGGGCT
1 TTAGAGAGGG-TTGCCACCGACTTGTGTGGGCT
*
2051755 TTAGAAGAAGGTTGCCACCGACTTGTGTGGGCT
1 TTAG-AGAGGGTTGCCACCGACTTGTGTGGGCT
2051788 TT-GAGAAGGGTTGCCACCGACTTGTGTGGGCT
1 TTAGAG-AGGGTTGCCACCGACTTGTGTGGGCT
2051820 TTAGAAGAGG
1 TTAG-AGAGG
2051830 AGAAAGATGC
Statistics
Matches: 156, Mismatches: 6, Indels: 16
0.88 0.03 0.09
Matches are distributed among these distances:
31 13 0.08
32 108 0.69
33 31 0.20
34 4 0.03
ACGTcount: A:0.19, C:0.18, G:0.36, T:0.28
Consensus pattern (32 bp):
TTAGAGAGGGTTGCCACCGACTTGTGTGGGCT
Found at i:2051802 original size:97 final size:96
Alignment explanation
Indices: 2051637--2051822 Score: 345
Period size: 97 Copynumber: 1.9 Consensus size: 96
2051627 CTTAGAAGGG
* *
2051637 TTGCCACCGACTTGTGTGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGGGT
1 TTGCCACCAACTTGTGTGGGCTTTAGAGAAGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGGGT
2051702 TGCCACCGACTTGTGTGGGCTTTAAAGGGGA
66 TGCCACCGACTTGTGTGGGCTTTAAAGGGGA
2051733 TTGCCACCAACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGGG
1 TTGCCACCAACTTGTGTGGGCTTTAG-AGAAGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGGG
2051798 TTGCCACCGACTTGTGTGGGCTTTA
65 TTGCCACCGACTTGTGTGGGCTTTA
2051823 GAAGAGGAGA
Statistics
Matches: 87, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
96 25 0.29
97 62 0.71
ACGTcount: A:0.17, C:0.19, G:0.34, T:0.29
Consensus pattern (96 bp):
TTGCCACCAACTTGTGTGGGCTTTAGAGAAGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGGGT
TGCCACCGACTTGTGTGGGCTTTAAAGGGGA
Found at i:2051867 original size:27 final size:27
Alignment explanation
Indices: 2051837--2051890 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
2051827 AGGAGAAAGA
* *
2051837 TGCCACGGAGTTGTAGACTTAAAAGGG
1 TGCCACGGAATTATAGACTTAAAAGGG
* *
2051864 TGCCATGGAATTATGGACTTAAAAGGG
1 TGCCACGGAATTATAGACTTAAAAGGG
2051891 AAAAAGAGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.24
Consensus pattern (27 bp):
TGCCACGGAATTATAGACTTAAAAGGG
Found at i:2052034 original size:68 final size:68
Alignment explanation
Indices: 2051857--2052765 Score: 1321
Period size: 68 Copynumber: 13.4 Consensus size: 68
2051847 TTGTAGACTT
* * * * * * *
2051857 AAAAGGGTGCCATGGAATTATGGACTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGA
1 AAAAAGGTGCCACGGAGTTGTGGACTTAGAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
2051922 AAAG
65 AAAG
* *
2051926 ---AAGATGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
2051988 AAG
66 AAG
* * *
2051991 AAAAAGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTAAAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
2052056 AAG
66 AAG
* * * *
2052059 AAAAAGGTGTCACGGAGTTGTGGACTTAGAAGGAAAAAGAATGCCACGAAGTTGTGGGCTTTGAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
2052124 AAG
66 AAG
* * * * *
2052127 AAAAAGGTGCCACGAAGTTGTGGGCTTTAAAAAGAAAAAG-GTGCCACGAAGTTGTGGGCTTTAA
1 AAAAAGGTGCCACGGAGTTGTGGAC-TTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
2052191 AAAG
65 AAAG
2052195 AAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
2052260 AAG
66 AAG
* * * * *
2052263 AAAAAGGTGCCACGAAGGTGTGGGCTTTAAAAAGAAAAAG-GTGCCAC-GACGTTGTGGGCTTTA
1 AAAAAGGTGCCACGGAGTTGTGGAC-TTAGAAGGAAAAAGAGTGCCACGGA-GTTGTGGGCTTTA
2052326 AAAAG
64 AAAAG
* *
2052331 AAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGTCACGGAGTTGTGGGCTTTGAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
2052396 AAG
66 AAG
*
2052399 AAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
2052464 AAG
66 AAG
* * * * *
2052467 AAAAAGGTGCCACGAAGTTGTGGGCTTTAAAAAGAAAAAG-GTGCCACGAAGTTGTGGGCTTTAA
1 AAAAAGGTGCCACGGAGTTGTGGAC-TTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
2052531 AAAG
65 AAAG
2052535 AAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
2052600 AAG
66 AAG
* * * * * **
2052603 AAAAAGGTGCCACGAAGGTGTGGGCTTTAAAAAGAAAAAG-GTGCCACTAAGTTGTGGGCTTTAA
1 AAAAAGGTGCCACGGAGTTGTGGAC-TTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
2052667 AAAG
65 AAAG
*
2052671 AAAAAGGTGCCATGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
2052736 AAG
66 AAG
*
2052739 AAAAAGGTGCCACGGAGTTGTGTACTT
1 AAAAAGGTGCCACGGAGTTGTGGACTT
2052766 TAAGAAGGTA
Statistics
Matches: 755, Mismatches: 72, Indels: 27
0.88 0.08 0.03
Matches are distributed among these distances:
65 35 0.05
66 23 0.03
67 50 0.07
68 597 0.79
69 50 0.07
ACGTcount: A:0.36, C:0.12, G:0.32, T:0.20
Consensus pattern (68 bp):
AAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
AAG
Found at i:2052768 original size:34 final size:34
Alignment explanation
Indices: 2051890--2052760 Score: 1145
Period size: 34 Copynumber: 25.7 Consensus size: 34
2051880 ACTTAAAAGG
* *
2051890 GAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAA
1 GAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAA
* * *
2051925 G---AAGATGCCACGGAGTTGTGGAC-TTAAAAG
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAA
2051955 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
1 GAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAA
* * * *
2051990 GAAAAAGGTGCCACAGAGTTGTGGAC-TTAGAAG
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAA
* *
2052023 GAAAAAGAGTGCCACAGAGTTGTGGGCTTAAAAAA
1 GAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAA
* * * *
2052058 GAAAAAGGTGTCACGGAGTTGTGGAC-TTAGAAG
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAA
* * *
2052091 GAAAAAGAATGCCACGAAGTTGTGGGCTTTGAAAA
1 GAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAA
*
2052126 GAAAAAGGTGCCACGAAGTTGTGGGCTTTAAAAA
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAA
*
2052160 GAAAAAGGTGCCACGAAGTTGTGGGCTTTAAAAA
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAA
* * *
2052194 GAAAAAGGTGCCACGGAGTTGTGGAC-TTAGAAG
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAA
2052227 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
1 GAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAA
* *
2052262 GAAAAAGGTGCCACGAAGGTGTGGGCTTTAAAAA
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAA
2052296 GAAAAAGGTGCCAC-GACGTTGTGGGCTTTAAAAA
1 GAAAAAGGTGCCACGGA-GTTGTGGGCTTTAAAAA
* * *
2052330 GAAAAAGGTGCCACGGAGTTGTGGAC-TTAGAAG
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAA
* *
2052363 GAAAAAGAGTGTCACGGAGTTGTGGGCTTTGAAAA
1 GAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAA
* * *
2052398 GAAAAAGGTGCCACGGAGTTGTGGAC-TTAGAAG
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAA
*
2052431 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA
1 GAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAA
*
2052466 GAAAAAGGTGCCACGAAGTTGTGGGCTTTAAAAA
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAA
*
2052500 GAAAAAGGTGCCACGAAGTTGTGGGCTTTAAAAA
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAA
* * *
2052534 GAAAAAGGTGCCACGGAGTTGTGGAC-TTAGAAG
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAA
2052567 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
1 GAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAA
* *
2052602 GAAAAAGGTGCCACGAAGGTGTGGGCTTTAAAAA
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAA
**
2052636 GAAAAAGGTGCCACTAAGTTGTGGGCTTTAAAAA
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAA
* * * *
2052670 GAAAAAGGTGCCATGGAGTTGTGGAC-TTAGAAG
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAA
2052703 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
1 GAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAA
2052738 GAAAAAGGTGCCACGGAGTTGTG
1 GAAAAAGGTGCCACGGAGTTGTG
2052761 TACTTTAAGA
Statistics
Matches: 733, Mismatches: 82, Indels: 43
0.85 0.10 0.05
Matches are distributed among these distances:
30 6 0.01
31 16 0.02
32 3 0.00
33 86 0.12
34 526 0.72
35 96 0.13
ACGTcount: A:0.36, C:0.12, G:0.32, T:0.20
Consensus pattern (34 bp):
GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAA
Found at i:2052899 original size:8 final size:8
Alignment explanation
Indices: 2052888--2052916 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
2052878 TATTGATGGT
2052888 ATGATGTC
1 ATGATGTC
2052896 ATGATGTC
1 ATGATGTC
2052904 ATGATGTC
1 ATGATGTC
2052912 ATGAT
1 ATGAT
2052917 AACAGCACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.28, C:0.10, G:0.24, T:0.38
Consensus pattern (8 bp):
ATGATGTC
Found at i:2053782 original size:26 final size:27
Alignment explanation
Indices: 2053745--2053807 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
2053735 CTTCTTCTTC
*
2053745 TTCTTTTGTTTTT-TTTGTTTG-TTTGT
1 TTCTTTT-TTTTTCTTTTTTTGTTTTGT
2053771 TTCTTTTTTTTTCTTTTTTTGTTTTGT
1 TTCTTTTTTTTTCTTTTTTTGTTTTGT
2053798 TTCTTTTTTT
1 TTCTTTTTTT
2053808 GGAAAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
25 5 0.15
26 14 0.41
27 15 0.44
ACGTcount: A:0.00, C:0.06, G:0.10, T:0.84
Consensus pattern (27 bp):
TTCTTTTTTTTTCTTTTTTTGTTTTGT
Found at i:2053800 original size:17 final size:17
Alignment explanation
Indices: 2053745--2053808 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
2053735 CTTCTTCTTC
*
2053745 TTCTTTTGTTTTTTTTGT
1 TTCTTTT-TTTGTTTTGT
* *
2053763 TTGTTTGTTTCT-TTTTTT
1 TTCTTT-TTT-TGTTTTGT
2053781 TTCTTTTTTTGTTTTGT
1 TTCTTTTTTTGTTTTGT
2053798 TTCTTTTTTTG
1 TTCTTTTTTTG
2053809 GAAAAAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
16 1 0.03
17 19 0.49
18 17 0.44
19 2 0.05
ACGTcount: A:0.00, C:0.06, G:0.11, T:0.83
Consensus pattern (17 bp):
TTCTTTTTTTGTTTTGT
Found at i:2053804 original size:22 final size:22
Alignment explanation
Indices: 2053748--2053805 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
2053738 CTTCTTCTTC
*
2053748 TTTTGTTTTTTTTGTTTGTTTG
1 TTTTGTTTTTTTTCTTTGTTTG
*
2053770 TTTCT-TTTTTTTTCTTTTTTTG
1 TTT-TGTTTTTTTTCTTTGTTTG
2053792 TTTTGTTTCTTTTT
1 TTTTGTTT-TTTTT
2053806 TTGGAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 1 0.03
22 24 0.77
23 6 0.19
ACGTcount: A:0.00, C:0.05, G:0.10, T:0.84
Consensus pattern (22 bp):
TTTTGTTTTTTTTCTTTGTTTG
Found at i:2054575 original size:52 final size:51
Alignment explanation
Indices: 2054431--2054880 Score: 431
Period size: 52 Copynumber: 9.1 Consensus size: 51
2054421 GAAGATGAGA
* * * * * * *
2054431 AAAG-TGATAAAGATGCCAATATGTTGATTCACGACCAACGATATTGGGCTT
1 AAAGATGA-AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
2054482 AAAGATGAGAAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTATATTGAACTT
1 AAAGAT--G-AAAAGG-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
2054537 AAAGATGGAAAAGGTGCCAATATGCTGAATCAAGGCCAGCTATATTGGACTT
1 AAAGAT-GAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
2054589 AAAGGTGGAAAAGGTGCCAATATGTTGATTCAAGGCCAACTATATTGGACTT
1 AAAGAT-GAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
2054641 AAAGGTGGAAAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGAC-T
1 AAAGAT-GAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
2054692 -----T--AAAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTT
1 AAAGATGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
2054736 AAAGATG--AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTT
1 AAAGATGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
2054785 ----A-G---AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTAGACTT
1 AAAGATGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
2054828 AAAGA--AGAAGGTGCCAATATGCTGATTCTAA-GCCAGCGATATTGGACTT
1 AAAGATGAAAAGGTGCCAATATGCTGATTC-AAGGCCAGCTATATTGGACTT
2054877 AAAG
1 AAAG
2054881 GTGCTAATGT
Statistics
Matches: 339, Mismatches: 40, Indels: 42
0.81 0.10 0.10
Matches are distributed among these distances:
43 73 0.22
44 2 0.01
45 1 0.00
46 1 0.00
47 1 0.00
49 77 0.23
50 2 0.01
51 5 0.01
52 129 0.38
53 6 0.02
54 6 0.02
55 36 0.11
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (51 bp):
AAAGATGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
Found at i:2054715 original size:43 final size:43
Alignment explanation
Indices: 2054650--2054925 Score: 293
Period size: 43 Copynumber: 6.1 Consensus size: 43
2054640 TAAAGGTGGA
* * *
2054650 AAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
2054693 AAAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
2054736 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTT
1 ----A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
2054785 AGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTAGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
2054828 AAAGAAGAAGGTGCCAATATGCTGATTCTAA-GCCAGCGATATTGGACTT
1 -----A-AAGGTGCCAATATGCTGATTC-AAGGCCAGCTACATTGGACTT
* *
2054877 AAAGGTGCTAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
2054920 AGAAGG
1 A-AAGG
2054926 GTTACCACCG
Statistics
Matches: 195, Mismatches: 23, Indels: 29
0.79 0.09 0.12
Matches are distributed among these distances:
42 2 0.01
43 111 0.57
44 5 0.03
45 1 0.01
47 1 0.01
48 1 0.01
49 72 0.37
50 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.26
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
Found at i:2054780 original size:92 final size:92
Alignment explanation
Indices: 2054598--2054920 Score: 486
Period size: 92 Copynumber: 3.5 Consensus size: 92
2054588 TAAAGGTGGA
* * * * *
2054598 AAAGGTGCCAATATGTTGATTCAAGGCCAACTATATTGGACTTAAAGGTGGAAAAGGTGCCAATA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAATA
*
2054663 TGCTAATTCAAGGCCAGCGATATTGGACTT
63 TGCTGATTCAAGGCCAGCGATATTGGACTT
*
2054693 AAAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* *
2054758 TGATTCAAGGCCAGCTATATTGGGCTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* * *
2054785 AGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
2054850 TGATTCTAA-GCCAGCGATATTGGACTT
66 TGATTC-AAGGCCAGCGATATTGGACTT
*
2054877 AAAGGTGCTAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
2054921 GAAGGGTTAC
Statistics
Matches: 209, Mismatches: 18, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
92 163 0.78
93 2 0.01
94 1 0.00
95 43 0.21
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.26
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
TGATTCAAGGCCAGCGATATTGGACTT
Found at i:2054959 original size:32 final size:32
Alignment explanation
Indices: 2054918--2055087 Score: 247
Period size: 32 Copynumber: 5.3 Consensus size: 32
2054908 TACATTGGAC
*
2054918 TTAGA-AGGGTTACCACCGACTTGTGTGGGCT
1 TTAGAGAGGGTTGCCACCGACTTGTGTGGGCT
*
2054949 TTAGAGAGGGTTGCCACCGACTTGTGTGGGAT
1 TTAGAGAGGGTTGCCACCGACTTGTGTGGGCT
2054981 TT-GAGAAGGGTTGCCACCGACTTGTGTGGGCT
1 TTAGAG-AGGGTTGCCACCGACTTGTGTGGGCT
*
2055013 TTAGAG-GGGATTGCCACCAACTTGTGTGGGCT
1 TTAGAGAGGG-TTGCCACCGACTTGTGTGGGCT
*
2055045 TTAGAAGAAGGTTGCCACCGACTTGTGTGGGCT
1 TTAG-AGAGGGTTGCCACCGACTTGTGTGGGCT
2055078 TTAGAAGAGG
1 TTAG-AGAGG
2055088 AGAAAGATGC
Statistics
Matches: 126, Mismatches: 7, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
31 11 0.09
32 78 0.62
33 35 0.28
34 2 0.02
ACGTcount: A:0.20, C:0.17, G:0.35, T:0.28
Consensus pattern (32 bp):
TTAGAGAGGGTTGCCACCGACTTGTGTGGGCT
Found at i:2055125 original size:27 final size:27
Alignment explanation
Indices: 2055095--2055148 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
2055085 AGGAGAAAGA
* *
2055095 TGCCACGGAGTTATAGACTTAAAAGGG
1 TGCCACGGAATTATAGACATAAAAGGG
*
2055122 TGCCACGGAATTATGGACATAAAAGGG
1 TGCCACGGAATTATAGACATAAAAGGG
2055149 AAAAAGAGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.35, C:0.15, G:0.30, T:0.20
Consensus pattern (27 bp):
TGCCACGGAATTATAGACATAAAAGGG
Found at i:2059693 original size:12 final size:13
Alignment explanation
Indices: 2059676--2059704 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
2059666 CGTCATTCTT
2059676 AAAAAAAA-CAAA
1 AAAAAAAACCAAA
2059688 AAAAAAAACCAAA
1 AAAAAAAACCAAA
2059701 AAAA
1 AAAA
2059705 CACAAAAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAACCAAA
Found at i:2061157 original size:28 final size:28
Alignment explanation
Indices: 2060997--2061453 Score: 546
Period size: 28 Copynumber: 16.1 Consensus size: 28
2060987 ATACGACCCT
* *
2060997 TTTTAAAGTCCACAAGTTAGTGGCATCC
1 TTTTAAAGCCCACAAGTCAGTGGCATCC
2061025 TTTTTAAAGCCCACAAGTCAGTGGCATCC
1 -TTTTAAAGCCCACAAGTCAGTGGCATCC
2061054 TTTTTAAAGCCCACAAGTCAGTGGCATCC
1 -TTTTAAAGCCCACAAGTCAGTGGCATCC
* *
2061083 TTTCAAAAGCCCACAAGTCAGTAGCATCC
1 TTT-TAAAGCCCACAAGTCAGTGGCATCC
* *
2061112 TTTCAAAAGCCCACAAGTTAGTGGCATCC
1 TTT-TAAAGCCCACAAGTCAGTGGCATCC
2061141 TTTTAAAGCCCACAAGTCAGTGGCATCC
1 TTTTAAAGCCCACAAGTCAGTGGCATCC
2061169 TTTTAAAGCCCACAAGTCAGTGGCATCC
1 TTTTAAAGCCCACAAGTCAGTGGCATCC
* *
2061197 TTTCAAAGCCCACAAGTCAGTAGCATCC
1 TTTTAAAGCCCACAAGTCAGTGGCATCC
* * *
2061225 TTTCAAAAGCCCACAAGTTAGTAGCATCC
1 TTT-TAAAGCCCACAAGTCAGTGGCATCC
*
2061254 TTTTAAAGCCCACAAGTCAGTGGTATCC
1 TTTTAAAGCCCACAAGTCAGTGGCATCC
*
2061282 TTTCAAAGCCCACAAGTCAGTGGCA-CC
1 TTTTAAAGCCCACAAGTCAGTGGCATCC
* * *
2061309 TTTCAAAGCCCACAAGTTAATGGCA-CC
1 TTTTAAAGCCCACAAGTCAGTGGCATCC
* * *
2061336 TTTCAAAAGCCAACAAGTTAGTGGCA-CC
1 TTT-TAAAGCCCACAAGTCAGTGGCATCC
* ** * *
2061364 TTTAAAAAGCTAACAAGTCAATGGCA-CA
1 TTT-TAAAGCCCACAAGTCAGTGGCATCC
* *
2061392 TTTTCAAAAGCCAACAAGTCAATGGCA-CC
1 TTTT--AAAGCCCACAAGTCAGTGGCATCC
*
2061421 TTTTCAAAGCCCACAAGTCAGTGGCAACC
1 TTTT-AAAGCCCACAAGTCAGTGGCATCC
2061450 TTTT
1 TTTT
2061454 TCAAAGCGCA
Statistics
Matches: 388, Mismatches: 34, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
27 30 0.08
28 193 0.50
29 165 0.43
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (28 bp):
TTTTAAAGCCCACAAGTCAGTGGCATCC
Found at i:2061234 original size:85 final size:85
Alignment explanation
Indices: 2060997--2061470 Score: 566
Period size: 85 Copynumber: 5.5 Consensus size: 85
2060987 ATACGACCCT
* * * **
2060997 TTTTAAAGTCCACAAGTTAGTGGCATCCTTTTTAAAGCCCACAAGTCAGTGGCATCCTTTTTAAA
1 TTTTAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAA
2061062 GCCCACAAGTCAGTGGCATCC
65 GCCCACAAGTCAGTGGCATCC
* * * *
2061083 TTTCAAAAGCCCACAAGTCAGTAGCATCCTTTCAAAAGCCCACAAGTTAGTGGCATCCTTT-TAA
1 TTT-TAAAGCCCACAAGTCAGTGGCATCCTTTC-AAAGCCCACAAGTCAGTGGCATCCTTTCAAA
2061147 AGCCCACAAGTCAGTGGCATCC
64 AGCCCACAAGTCAGTGGCATCC
*
2061169 TTTTAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTAGCATCCTTTCAAAAG
1 TTTTAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAAG
* *
2061234 CCCACAAGTTAGTAGCATCC
66 CCCACAAGTCAGTGGCATCC
*
2061254 TTTTAAAGCCCACAAGTCAGTGGTATCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTC-AAAG
1 TTTTAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAAG
* *
2061317 CCCACAAGTTAATGGCA-CC
66 CCCACAAGTCAGTGGCATCC
* * * * ** * *
2061336 TTTCAAAAGCCAACAAGTTAGTGGCA-CCTTTAAAAAGCTAACAAGTCAATGGCA-CATTTTCAA
1 TTT-TAAAGCCCACAAGTCAGTGGCATCCTTT-CAAAGCCCACAAGTCAGTGGCATC-CTTTCAA
* *
2061399 AAGCCAACAAGTCAATGGCA-CC
63 AAGCCCACAAGTCAGTGGCATCC
*
2061421 TTTTCAAAGCCCACAAGTCAGTGGCAACCTTTTTCAAAGCGCACACAAGT
1 TTTT-AAAGCCCACAAGTCAGTGGCATCC--TTTCAAAGC-C-CACAAGT
2061471 TGGTGGCACC
Statistics
Matches: 341, Mismatches: 34, Indels: 23
0.86 0.09 0.06
Matches are distributed among these distances:
82 10 0.03
83 56 0.16
84 35 0.10
85 143 0.42
86 36 0.11
87 52 0.15
88 3 0.01
89 6 0.02
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (85 bp):
TTTTAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAAG
CCCACAAGTCAGTGGCATCC
Found at i:2062482 original size:18 final size:19
Alignment explanation
Indices: 2062467--2062503 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
2062457 AGTCAAAAGT
2062467 AAAAACACAAAAAAAA-CAA
1 AAAAAC-CAAAAAAAAGCAA
2062486 AAAAACCAAAAAAAAGCA
1 AAAAACCAAAAAAAAGCA
2062504 CACAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.81, C:0.16, G:0.03, T:0.00
Consensus pattern (19 bp):
AAAAACCAAAAAAAAGCAA
Found at i:2062485 original size:9 final size:9
Alignment explanation
Indices: 2062467--2062500 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
2062457 AGTCAAAAGT
*
2062467 AAAAACACA
1 AAAAAAACA
2062476 AAAAAAACA
1 AAAAAAACA
*
2062485 AAAAAACCA
1 AAAAAAACA
2062494 AAAAAAA
1 AAAAAAA
2062501 GCACACAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAACA
Found at i:2063652 original size:8 final size:8
Alignment explanation
Indices: 2063635--2063673 Score: 51
Period size: 9 Copynumber: 4.6 Consensus size: 8
2063625 TTGTGCTGTA
*
2063635 ATCATGAC
1 ATCATAAC
2063643 ATCATAAC
1 ATCATAAC
2063651 ATCAATAAC
1 ATC-ATAAC
2063660 ATCAATAAC
1 ATC-ATAAC
2063669 ATCAT
1 ATCAT
2063674 CAGCACATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
8 12 0.41
9 17 0.59
ACGTcount: A:0.49, C:0.23, G:0.03, T:0.26
Consensus pattern (8 bp):
ATCATAAC
Found at i:2063660 original size:9 final size:9
Alignment explanation
Indices: 2063641--2063672 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
2063631 TGTAATCATG
2063641 ACATC-ATA
1 ACATCAATA
2063649 ACATCAATA
1 ACATCAATA
2063658 ACATCAATA
1 ACATCAATA
2063667 ACATCA
1 ACATCA
2063673 TCAGCACATG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 5 0.22
9 18 0.78
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.22
Consensus pattern (9 bp):
ACATCAATA
Found at i:2063887 original size:31 final size:30
Alignment explanation
Indices: 2063746--2064049 Score: 308
Period size: 30 Copynumber: 10.0 Consensus size: 30
2063736 TCTTCAAATC
* *
2063746 TCTCTTCTCAAAATCTATGACTCAGTGGCA
1 TCTCTTCTCAAAGTCCATGACTCAGTGGCA
* * *
2063776 TCTCTTCTCAAAATCCATAACTCAGTGCCA
1 TCTCTTCTCAAAGTCCATGACTCAGTGGCA
* * *
2063806 TCTTTTCTCAAAGTCCACGACTTAGTGGCA
1 TCTCTTCTCAAAGTCCATGACTCAGTGGCA
* ** *
2063836 TCTTTTTTCTTTGAAGTCCACGACTCAGTGGCAA
1 TC--TCTTC-TCAAAGTCCATGACTCAGTGGC-A
* *
2063870 TCTCTTGTCAAAGTCCACGACTCAGTGGCA
1 TCTCTTCTCAAAGTCCATGACTCAGTGGCA
* *
2063900 TCT-TGTCCCAAATTCCATGACTCAGTGGCA
1 TCTCT-TCTCAAAGTCCATGACTCAGTGGCA
* *
2063930 TCTTTTTCTCAAAGTCCATGACTTAGTGGCA
1 TC-TCTTCTCAAAGTCCATGACTCAGTGGCA
* *
2063961 TCT-TT-TCAAAGTCCACGACTTAGTGGCAA
1 TCTCTTCTCAAAGTCCATGACTCAGTGGC-A
*
2063990 TCTCTTCTCAAAGTCCAAGACTCAGTGGCA
1 TCTCTTCTCAAAGTCCATGACTCAGTGGCA
* * *
2064020 TCCCTTCCCAAAGTCCATGACTCTGTGGCA
1 TCTCTTCTCAAAGTCCATGACTCAGTGGCA
2064050 CCTTTTTCTT
Statistics
Matches: 234, Mismatches: 30, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
28 21 0.09
29 7 0.03
30 110 0.47
31 65 0.28
32 9 0.04
33 19 0.08
34 3 0.01
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.32
Consensus pattern (30 bp):
TCTCTTCTCAAAGTCCATGACTCAGTGGCA
Found at i:2063927 original size:94 final size:89
Alignment explanation
Indices: 2063750--2064049 Score: 307
Period size: 94 Copynumber: 3.3 Consensus size: 89
2063740 CAAATCTCTC
* * * * ** *
2063750 TTCTCAAAATCTATGACTCAGTGGCATCTCTTCTCAAAATCCATAACTCAGTGCCATCTTTTCTC
1 TTCTCAAAGTCCACGACTCAGTGGCATCTCTT-TCAAAGTCCACGACTCAGTGGCATC-TTTCTC
* *
2063815 AAAGTCCACGACTTAGTGGCATCTTTT
64 AAAGTCCAAGACTCAGTGGCATC-TTT
**
2063842 TTCTTTGAAGTCCACGACTCAGTGGCAATCTCTTGTCAAAGTCCACGACTCAGTGGCATCTTGTC
1 TTC-TCAAAGTCCACGACTCAGTGGC-ATCTCTT-TCAAAGTCCACGACTCAGTGGCATCTT-TC
* * *
2063907 CCAAATTCCATGACTCAGTGGCATCTTT
62 TCAAAGTCCAAGACTCAGTGGCATCTTT
* * *
2063935 TTCTCAAAGTCCATGACTTAGTGGCATCT-TTTCAAAGTCCACGACTTAGTGGCAATCTCTTCTC
1 TTCTCAAAGTCCACGACTCAGTGGCATCTCTTTCAAAGTCCACGACTCAGTGGC-ATCT-TTCTC
**
2063999 AAAGTCCAAGACTCAGTGGCATC-CC
64 AAAGTCCAAGACTCAGTGGCATCTTT
* * *
2064024 TTCCCAAAGTCCATGACTCTGTGGCA
1 TTCTCAAAGTCCACGACTCAGTGGCA
2064050 CCTTTTTCTT
Statistics
Matches: 176, Mismatches: 27, Indels: 13
0.81 0.12 0.06
Matches are distributed among these distances:
89 44 0.25
90 30 0.17
91 5 0.03
92 21 0.12
93 25 0.14
94 51 0.29
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (89 bp):
TTCTCAAAGTCCACGACTCAGTGGCATCTCTTTCAAAGTCCACGACTCAGTGGCATCTTTCTCAA
AGTCCAAGACTCAGTGGCATCTTT
Found at i:2064006 original size:120 final size:121
Alignment explanation
Indices: 2063746--2064058 Score: 407
Period size: 120 Copynumber: 2.6 Consensus size: 121
2063736 TCTTCAAATC
* * * * * *
2063746 TCTCTTCTCAAAATCTATGACTCAGTGGCATCTCTTCTCAAAATCCATAACTCAGTGCCATC-TT
1 TCTCTTCTCAAAGTCCAAGACTCAGTGGCATCT-TTCCCAAAATCCATGACTCAGTGGCATCTTT
*
2063810 TTCTCAAAGTCCACGACTTAGTGGCATCTTTTTTCTTTGAAGTCCACGACTCAGTGGCAA
65 TTCTCAAAGTCCACGACTTAGTGGCATC-TTTTTC--TAAAGTCCACGACTCAGTGGCAA
* * *
2063870 TCTCTTGTCAAAGTCCACGACTCAGTGGCATCTTGTCCCAAATTCCATGACTCAGTGGCATCTTT
1 TCTCTTCTCAAAGTCCAAGACTCAGTGGCATCTT-TCCCAAAATCCATGACTCAGTGGCATCTTT
* *
2063935 TTCTCAAAGTCCATGACTTAGTGGCATC-TTTTC-AAAGTCCACGACTTAGTGGCAA
65 TTCTCAAAGTCCACGACTTAGTGGCATCTTTTTCTAAAGTCCACGACTCAGTGGCAA
* * * *
2063990 TCTCTTCTCAAAGTCCAAGACTCAGTGGCATCCCTTCCCAAAGTCCATGACTCTGTGGCACCTTT
1 TCTCTTCTCAAAGTCCAAGACTCAGTGGCAT-CTTTCCCAAAATCCATGACTCAGTGGCATCTTT
2064055 TTCT
65 TTCT
2064059 TTTCAAAGTG
Statistics
Matches: 169, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
120 80 0.47
121 2 0.01
123 6 0.04
124 52 0.31
125 29 0.17
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.33
Consensus pattern (121 bp):
TCTCTTCTCAAAGTCCAAGACTCAGTGGCATCTTTCCCAAAATCCATGACTCAGTGGCATCTTTT
TCTCAAAGTCCACGACTTAGTGGCATCTTTTTCTAAAGTCCACGACTCAGTGGCAA
Found at i:2064110 original size:20 final size:20
Alignment explanation
Indices: 2064085--2064123 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2064075 TCTGTGGCAC
*
2064085 CCTTTTAAGTCCACAACTCA
1 CCTTTTAAGTCCAAAACTCA
2064105 CCTTTTAAGTCCAAAACTC
1 CCTTTTAAGTCCAAAACTC
2064124 CGTGGCACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.33, G:0.05, T:0.31
Consensus pattern (20 bp):
CCTTTTAAGTCCAAAACTCA
Found at i:2064203 original size:27 final size:27
Alignment explanation
Indices: 2064173--2064225 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
2064163 TACTCTTTTT
*
2064173 CCTTTTAAGTCCATAACTCCATGGCAC
1 CCTTTTAAGTCCACAACTCCATGGCAC
*
2064200 CCTTTTAAGTCCACAACTCCGTGGCA
1 CCTTTTAAGTCCACAACTCCATGGCA
2064226 TCTTTTTCGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.34, G:0.13, T:0.28
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCCATGGCAC
Found at i:2064244 original size:33 final size:33
Alignment explanation
Indices: 2064105--2064530 Score: 386
Period size: 33 Copynumber: 12.7 Consensus size: 33
2064095 CCACAACTCA
* *
2064105 CCTTTTAAGTCCAAAACTCCGTGGCACCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTT
* * *
2064138 CTTTTTAAAGCCCACAACTCCGTGGTACTCTTTTT
1 CCTTTT-AAGTCCACAACTCCGTGGCA-TCTTTTT
* *
2064173 CCTTTTAAGTCCATAACTCCATGGCA-C-----
1 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTT
2064200 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTT
*
2064233 CGTTTTAAGTCCACAACTCCGTGGCATCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTT
*
2064266 CGTTTTAAGTCCACAACTCCGTGGCATCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTT
*
2064299 CCTTTTAAGTCTACAACTCCGTGGCATCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTT
* * * ** *
2064332 CATTTTAAGTCCGCAACTAAGTCCATAACTCCGTGGCATCTTTT
1 CCTTTTAAGT-C-C-AC-AACTCCGT---GGCAT--C-T-TTTT
** *
2064376 CCTTTTAAGTCCACAACTCCGTGGCGCCTTGTT
1 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTT
* *
2064409 CCTTTTAAGTCCACAACTCCATGGCA-CCTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTT
* *
2064441 CTTTTTAAGTCCACAACTCCGTGGCA-CTATTTGC
1 CCTTTTAAGTCCACAACTCCGTGGCATCT-TTT-T
* *
2064475 CCTTTTAAG-CCTACACCTTCGTGGCATCCTTTTTT
1 CCTTTTAAGTCC-ACAACTCCGTGGCAT-C-TTTTT
*
2064510 CC-TGTAAGTCCACAACTCCGT
1 CCTTTTAAGTCCACAACTCCGT
2064531 ACCACCTTTA
Statistics
Matches: 323, Mismatches: 44, Indels: 51
0.77 0.11 0.12
Matches are distributed among these distances:
27 24 0.07
28 1 0.00
32 30 0.09
33 142 0.44
34 68 0.21
35 16 0.05
36 6 0.02
37 9 0.03
40 8 0.02
41 2 0.01
42 2 0.01
43 2 0.01
44 13 0.04
ACGTcount: A:0.20, C:0.30, G:0.13, T:0.37
Consensus pattern (33 bp):
CCTTTTAAGTCCACAACTCCGTGGCATCTTTTT
Found at i:2064385 original size:176 final size:172
Alignment explanation
Indices: 2064178--2064508 Score: 470
Period size: 176 Copynumber: 1.9 Consensus size: 172
2064168 TTTTTCCTTT
* * *
2064178 TAAGTCCATAACTCCATGGCACCCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCGTTTTAAGT
1 TAAGTCCATAACTCCATGGCACCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGT
* * *
2064243 CCACAACTCCGTGGCATCTTTTTCGTTTTAAGTCCACAACTCCGTGGCATCT-TTT-TCCTTTTA
66 CCACAACTCCATGGCA-CCTTTTCGTTTTAAGTCCACAACTCCGTGGCA-CTATTTGCCCTTTTA
*
2064306 AGTCTACAACTCCGTGGCAT-CTTTTTCATTTTAAGTCCGCAAC
129 AGCCTACAACTCCGTGGCATCCTTTTTCATTTTAAGTCCGCAAC
* *
2064349 TAAGTCCATAACTCCGTGGCATCTTTTCCTTTTAAGTCCACAACTCCGTGGCGCCTTGTTCCTTT
1 TAAGTCCATAACTCCATGGCA-C----CCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTT
*
2064414 TAAGTCCACAACTCCATGGCACCTTTTCTTTTTAAGTCCACAACTCCGTGGCACTATTTGCCCTT
61 TAAGTCCACAACTCCATGGCACCTTTTCGTTTTAAGTCCACAACTCCGTGGCACTATTTGCCCTT
* *
2064479 TTAAGCCTACACCTTCGTGGCATCCTTTTT
126 TTAAGCCTACAACTCCGTGGCATCCTTTTT
2064509 TCCTGTAAGT
Statistics
Matches: 140, Mismatches: 12, Indels: 10
0.86 0.07 0.06
Matches are distributed among these distances:
171 20 0.14
172 1 0.01
174 2 0.01
175 33 0.24
176 78 0.56
177 6 0.04
ACGTcount: A:0.20, C:0.30, G:0.14, T:0.37
Consensus pattern (172 bp):
TAAGTCCATAACTCCATGGCACCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGT
CCACAACTCCATGGCACCTTTTCGTTTTAAGTCCACAACTCCGTGGCACTATTTGCCCTTTTAAG
CCTACAACTCCGTGGCATCCTTTTTCATTTTAAGTCCGCAAC
Found at i:2064393 original size:44 final size:45
Alignment explanation
Indices: 2064304--2064393 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 45
2064294 TTTTTCCTTT
* *
2064304 TAAGTCTACAACTCCGTGGCATCTTTTTCATTTTAAGTCCGCAAC
1 TAAGTCCACAACTCCGTGGCATCTTTTTCATTTTAAGTCCACAAC
* *
2064349 TAAGTCCATAACTCCGTGGCATC-TTTTCCTTTTAAGTCCACAAC
1 TAAGTCCACAACTCCGTGGCATCTTTTTCATTTTAAGTCCACAAC
2064393 T
1 T
2064394 CCGTGGCGCC
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 20 0.49
45 21 0.51
ACGTcount: A:0.24, C:0.28, G:0.12, T:0.36
Consensus pattern (45 bp):
TAAGTCCACAACTCCGTGGCATCTTTTTCATTTTAAGTCCACAAC
Found at i:2064394 original size:32 final size:32
Alignment explanation
Indices: 2064349--2064539 Score: 199
Period size: 32 Copynumber: 5.8 Consensus size: 32
2064339 AGTCCGCAAC
* *
2064349 TAAGTCCATAACTCCGTGGCATCTTTTCCTTT
1 TAAGTCCACAACTCCGTGGCACCTTTTCCTTT
*
2064381 TAAGTCCACAACTCCGTGGCGCCTTGTTCCTTT
1 TAAGTCCACAACTCCGTGGCACCTT-TTCCTTT
* *
2064414 TAAGTCCACAACTCCATGGCACCTTTTCTTTT
1 TAAGTCCACAACTCCGTGGCACCTTTTCCTTT
2064446 TAAGTCCACAACTCCGTGGCA-CTATTTGCCCTTT
1 TAAGTCCACAACTCCGTGGCACCT-TTT--CCTTT
* * *
2064480 TAAG-CCTACACCTTCGTGGCATCCTTTTTTCC-TG
1 TAAGTCC-ACAACTCCGTGGCA-CC--TTTTCCTTT
**
2064514 TAAGTCCACAACTCCGTACCACCTTT
1 TAAGTCCACAACTCCGTGGCACCTTT
2064540 AAGTCCAATA
Statistics
Matches: 134, Mismatches: 15, Indels: 21
0.79 0.09 0.12
Matches are distributed among these distances:
31 5 0.04
32 51 0.38
33 34 0.25
34 35 0.26
35 4 0.03
36 1 0.01
37 3 0.02
38 1 0.01
ACGTcount: A:0.19, C:0.32, G:0.13, T:0.35
Consensus pattern (32 bp):
TAAGTCCACAACTCCGTGGCACCTTTTCCTTT
Found at i:2064399 original size:77 final size:78
Alignment explanation
Indices: 2064271--2064426 Score: 242
Period size: 77 Copynumber: 2.0 Consensus size: 78
2064261 TTTTTCGTTT
* * *
2064271 TAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCTACAACTCCGTGGCATCTTTTTCATT
1 TAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCATT
*
2064336 TTAAGTCCGCAAC
66 TTAAGTCCACAAC
* * *
2064349 TAAGTCCATAACTCCGTGGCATC-TTTTCCTTTTAAGTCCACAACTCCGTGGCGCCTTGTTCCTT
1 TAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCATT
2064413 TTAAGTCCACAAC
66 TTAAGTCCACAAC
2064426 T
1 T
2064427 CCATGGCACC
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
77 49 0.69
78 22 0.31
ACGTcount: A:0.21, C:0.29, G:0.13, T:0.36
Consensus pattern (78 bp):
TAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCATT
TTAAGTCCACAAC
Found at i:2064434 original size:110 final size:110
Alignment explanation
Indices: 2064238--2064458 Score: 336
Period size: 110 Copynumber: 2.0 Consensus size: 110
2064228 TTTTTCGTTT
* * *
2064238 TAAGTCCACAACTCCGTGGCATCTTTTTCGTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTT
1 TAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTT
* * * *
2064303 TTAAGTCTACAACTCCGTGGCATCTTTTTCATTTTAAGTCCGCAAC
66 TTAAGTCCACAACTCCATGGCA-CCTTTTCATTTTAAGTCCACAAC
* *
2064349 TAAGTCCATAACTCCGTGGCATC-TTTTCCTTTTAAGTCCACAACTCCGTGGCGCCTTGTTCCTT
1 TAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTT
*
2064413 TTAAGTCCACAACTCCATGGCACCTTTTCTTTTTAAGTCCACAAC
66 TTAAGTCCACAACTCCATGGCACCTTTTCATTTTAAGTCCACAAC
2064458 T
1 T
2064459 CCGTGGCACT
Statistics
Matches: 100, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
109 21 0.21
110 57 0.57
111 22 0.22
ACGTcount: A:0.21, C:0.29, G:0.13, T:0.37
Consensus pattern (110 bp):
TAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTT
TTAAGTCCACAACTCCATGGCACCTTTTCATTTTAAGTCCACAAC
Found at i:2064481 original size:143 final size:144
Alignment explanation
Indices: 2064205--2064483 Score: 411
Period size: 143 Copynumber: 1.9 Consensus size: 144
2064195 GGCACCCTTT
* * * *
2064205 TAAGTCCACAACTCCGTGGCATCTTTTTCGTTTTAAGTCCACAACTCCGTGGCATCTTTTTCGTT
1 TAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTT
* * * *
2064270 TTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCTACAACTCCGTGGCATCTTTTTCAT
66 TTAAGTCCACAACTCCATGGCATCCTTTTCCTTTTAAGTCCACAACTCCGTGGCATCTTTTCCAT
2064335 TTTAAGTCCGCAAC
131 TTTAAGTCCGCAAC
* *
2064349 TAAGTCCATAACTCCGTGGCATC-TTTTCCTTTTAAGTCCACAACTCCGTGGCGCCTTGTTCCTT
1 TAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTT
*
2064413 TTAAGTCCACAACTCCATGGCA-CCTTTTCTTTTTAAGTCCACAACTCCGTGGCA-CTATTTGCC
66 TTAAGTCCACAACTCCATGGCATCCTTTTCCTTTTAAGTCCACAACTCCGTGGCATCT-TTT-CC
*
2064476 CTTTTAAG
129 ATTTTAAG
2064484 CCTACACCTT
Statistics
Matches: 121, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
141 2 0.02
142 32 0.26
143 65 0.54
144 22 0.18
ACGTcount: A:0.20, C:0.29, G:0.14, T:0.37
Consensus pattern (144 bp):
TAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTT
TTAAGTCCACAACTCCATGGCATCCTTTTCCTTTTAAGTCCACAACTCCGTGGCATCTTTTCCAT
TTTAAGTCCGCAAC
Found at i:2064609 original size:49 final size:48
Alignment explanation
Indices: 2064536--2065360 Score: 580
Period size: 49 Copynumber: 17.9 Consensus size: 48
2064526 TCCGTACCAC
*
2064536 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTAT
* * * *
2064585 CTTTAAGACCAATGTCGCTAGCCTTGAATTAGCACATTGGCA-C----
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAT
* *
2064628 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTACCTTTAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTAT
* * *
2064677 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGGACATTGGCA-C----
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAT
* * * * *
2064720 CTTTAAGTCCAGTATCGTTGGCCTTAAATCAGCATATTGGCACCTTTAC
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTAT
* * *
2064769 CATCTTGAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGT
1 C-T-TTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAT
* * * *
2064819 CTCTAAGACCAATGTCACTGGCCTTGAATCAGCACATTGG---C--A-
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAT
*
2064861 ---TAAG-CTCAATATCGCTGGCCTTGAATCAGCATTTTGGCACCTTAT
1 CTTTAAGAC-CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAT
* * *
2064906 CTCTAAGACCAATATCGCTGGCCTTGAATCAACACATTGG---C--A-
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAT
* * *
2064948 ---TAAGCCCAATATCACTGGCCTTGAATCAGCACATTGG---C--A-
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAT
* *
2064987 ---TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAT
* * *
2065032 CTTTAAGACCAATTTCGCTGGCTTTGAATCAGCACATTGGCA-C--A-
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAT
* *
2065076 ----AA-CCCAATATCGCTGGCCTT-ATATCAGTATATTGGCACCTTCAT
1 CTTTAAGACCAATATCGCTGGCCTTGA-ATCAGCATATTGGCACCTT-AT
* * * * * *
2065120 CTTTACGACCGATGTTGTTGGCCTTGAATCAGCACT-TTGGCACCTGAACCAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCA-TATTGGCACCT----TAT
* * * * * * *
2065172 CTTTAAGTCCAATGTTG-TCGACCTTGAATTAGCATATTAGCATCTTCAT
1 CTTTAAGACCAATATCGCT-GGCCTTGAATCAGCATATTGGCACCTT-AT
* * * *
2065221 CTTTAAGTCCGATATCACTGGCCTTGAATCAGCATATTGGTACCTTTAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTAT
* * * * *
2065270 CTTTAAGACCAATGTCTCTGGCCTTGAATCAGCACATTGGCTCCTTCTT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-AT
* * * * *
2065319 CTTTAAGTCCAATAACGTTAGCCTTAAATCAGCATATTGGCA
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCA
2065361 TCTTTAACAT
Statistics
Matches: 618, Mismatches: 101, Indels: 114
0.74 0.12 0.14
Matches are distributed among these distances:
38 2 0.00
39 130 0.21
40 3 0.00
42 2 0.00
43 73 0.12
44 3 0.00
45 2 0.00
47 1 0.00
48 104 0.17
49 213 0.34
50 9 0.01
51 40 0.06
52 36 0.06
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (48 bp):
CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAT
Found at i:2064690 original size:92 final size:92
Alignment explanation
Indices: 2064533--2065367 Score: 602
Period size: 87 Copynumber: 9.1 Consensus size: 92
2064523 AACTCCGTAC
2064533 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAAT
1 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAAT
* * *
2064598 GTCGCTAGCCTTGAATTAGCACATTGG
66 ATCGCTGGCCTTGAATCAGCACATTGG
*
2064625 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTACCTTTATCTTTAAGACCAAT
1 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAAT
* *
2064690 GTCGCTGGCCTTGAATCAGGACATTGG
66 ATCGCTGGCCTTGAATCAGCACATTGG
* * * * * *
2064717 CACCTTTAAGTCCAGTATCGTTGGCCTTAAATCAGCATATTGGCACCTTTACCATCTTGAGTCCA
1 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC-T-TTAAGACCA
*
2064782 ATATCGCTGGCCTTGAATCAGCATATTGG
64 ATATCGCTGGCCTTGAATCAGCACATTGG
* * * *
2064811 CACCTTGTCTCTAAGACCAATGTCACTGGCCTTGAATCAGCACATTGG---C---A----TAAG-
1 CACC---T-T-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGA
**
2064865 CTCAATATCGCTGGCCTTGAATCAGCATTTTGG
61 C-CAATATCGCTGGCCTTGAATCAGCACATTGG
* * * *
2064898 CACCTTATCTCTAAGACCAATATCGCTGGCCTTGAATCAACACATTGG---C---A----TAAGC
1 CACC---T-T-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGA
*
2064953 CCAATATCACTGGCCTTGAATCAGCACATTGG
61 CCAATATCGCTGGCCTTGAATCAGCACATTGG
* *
2064985 CA----TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGTCTTTAAGACCAAT
1 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAAT
* *
2065045 TTCGCTGGCTTTGAATCAGCACATTGG
66 ATCGCTGGCCTTGAATCAGCACATTGG
** * * * *
2065072 CA-C---AAACCCAATATCGCTGGCCTT-ATATCAGTATATTGGCACCTTCATCTTTACGACCGA
1 CACCTTTAAGTCCAATATCGCTGGCCTTGA-ATCAGCATATTGGCACCTTTATCTTTAAGACCAA
* * * *
2065132 TGTTGTTGGCCTTGAATCAGCACTTTGG
65 TATCGCTGGCCTTGAATCAGCACATTGG
* * * * * * *
2065160 CACCTGAACCATCTTTAAGTCCAATGTTG-TCGACCTTGAATTAGCATATTAGCATCTTCATCTT
1 ---C---A-C--CTTTAAGTCCAATATCGCT-GGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * * *
2065224 TAAGTCCGATATCACTGGCCTTGAATCAGCATATTGG
56 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGG
* * * * * *
2065261 TACCTTTATCTTTAAGACCAATGTCTCTGGCCTTGAATCAGCACATTGGCTCCTTCT-TCTTTAA
1 ---C---ACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-TATCTTTAA
* * * * * *
2065325 GTCCAATAACGTTAGCCTTAAATCAGCATATTGG
59 GACCAATATCGCTGGCCTTGAATCAGCACATTGG
*
2065359 CATCTTTAA
1 CACCTTTAA
2065368 CATTCCTAAG
Statistics
Matches: 619, Mismatches: 86, Indels: 76
0.79 0.11 0.10
Matches are distributed among these distances:
78 34 0.05
81 1 0.00
86 2 0.00
87 184 0.30
88 36 0.06
91 1 0.00
92 144 0.23
93 2 0.00
94 38 0.06
95 1 0.00
96 1 0.00
97 1 0.00
98 72 0.12
99 31 0.05
100 1 0.00
101 69 0.11
102 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.31
Consensus pattern (92 bp):
CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAAT
ATCGCTGGCCTTGAATCAGCACATTGG
Found at i:2064890 original size:39 final size:39
Alignment explanation
Indices: 2064822--2065112 Score: 251
Period size: 39 Copynumber: 7.0 Consensus size: 39
2064812 ACCTTGTCTC
* * *
2064822 TAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCA
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* **
2064861 TAAGCTCAATATCGCTGGCCTTGAATCAGCATTTTGGCACCTTA
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGG---C--A
* *
2064905 TCTCTAAGACCAATATCGCTGGCCTTGAATCAACACATTGGCA
1 ----TAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
*
2064948 TAAGCCCAATATCACTGGCCTTGAATCAGCACATTGGCA
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
*
2064987 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* * *
2065026 CCTTGTCTTTAAGACCAATTTCGCTGGCTTTGAATCAGCACATTGGCA
1 ---------TAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* * * *
2065074 CAAACCCAATATCGCTGGCCTT-ATATCAGTATATTGGCA
1 TAAGCCCAATATCGCTGGCCTTGA-ATCAGCACATTGGCA
2065113 CCTTCATCTT
Statistics
Matches: 206, Mismatches: 27, Indels: 38
0.76 0.10 0.14
Matches are distributed among these distances:
38 1 0.00
39 134 0.65
42 1 0.00
43 1 0.00
44 1 0.00
45 1 0.00
48 67 0.33
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.27
Consensus pattern (39 bp):
TAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
Found at i:2065052 original size:126 final size:126
Alignment explanation
Indices: 2064822--2065112 Score: 440
Period size: 126 Copynumber: 2.3 Consensus size: 126
2064812 ACCTTGTCTC
* * *
2064822 TAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCATAAGCTCAATATCGCTGGCCTTGAAT
1 TAAGCCCAATATCACTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAAT
*
2064887 CAGCATTTTGGCACCTTATCTCTAAGACCAATATCGCTGGCCTTGAATCAACACATTGGCA
66 CAGCATATTGGCACCTTATCTCTAAGACCAATATCGCTGGCCTTGAATCAACACATTGGCA
2064948 TAAGCCCAATATCACTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAAT
1 TAAGCCCAATATCACTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAAT
* * * * *
2065013 CAGCATATTGGCACCTTGTCTTTAAGACCAATTTCGCTGGCTTTGAATCAGCACATTGGCA
66 CAGCATATTGGCACCTTATCTCTAAGACCAATATCGCTGGCCTTGAATCAACACATTGGCA
* * * * *
2065074 CAAACCCAATATCGCTGGCCTT-ATATCAGTATATTGGCA
1 TAAGCCCAATATCACTGGCCTTGA-ATCAGCACATTGGCA
2065113 CCTTCATCTT
Statistics
Matches: 150, Mismatches: 14, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
125 1 0.01
126 149 0.99
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.27
Consensus pattern (126 bp):
TAAGCCCAATATCACTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAAT
CAGCATATTGGCACCTTATCTCTAAGACCAATATCGCTGGCCTTGAATCAACACATTGGCA
Found at i:2065326 original size:98 final size:98
Alignment explanation
Indices: 2065170--2065421 Score: 247
Period size: 98 Copynumber: 2.5 Consensus size: 98
2065160 CACCTGAACC
* * * * * * * *
2065170 ATCTTTAAGTCCAATGT-TGTCGACCTTGAATTAGCATATTAGCATCTTCATCTTTAAGTCCGAT
1 ATCTTTAAGACCAATGTCTCT-GGCCTTGAATCAGCACATTGGCATCTTCTTCTTTAAGTCCAAT
* * * *
2065234 ATCACTGGCCTTGAATCAGCATATTGGTACCTTT
65 AACACTAGCCTTAAATCAGCATATTGGCACCTTT
2065268 ATCTTTAAGACCAATGTCTCTGGCCTTGAATCAGCACATTGGC-TCCTTCTTCTTTAAGTCCAAT
1 ATCTTTAAGACCAATGTCTCTGGCCTTGAATCAGCACATTGGCAT-CTTCTTCTTTAAGTCCAAT
** *
2065332 AACGTTAGCCTTAAATCAGCATATTGGCATCTTT
65 AACACTAGCCTTAAATCAGCATATTGGCACCTTT
* * * * **
2065366 AACATTCCTAAGCCCAATGTCGCTAGCCTTGTCTCAGCACATTGGCATTCTTCTTC
1 ATC-TT--TAAGACCAATGTCTCTGGCCTTGAATCAGCACATTGGCA-TCTTCTTC
2065422 AAGTCTAATG
Statistics
Matches: 126, Mismatches: 21, Indels: 10
0.80 0.13 0.06
Matches are distributed among these distances:
97 1 0.01
98 80 0.63
99 4 0.03
101 33 0.26
102 7 0.06
103 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.36
Consensus pattern (98 bp):
ATCTTTAAGACCAATGTCTCTGGCCTTGAATCAGCACATTGGCATCTTCTTCTTTAAGTCCAATA
ACACTAGCCTTAAATCAGCATATTGGCACCTTT
Found at i:2066249 original size:13 final size:13
Alignment explanation
Indices: 2066231--2066256 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2066221 ACATAAGTGT
2066231 TGTATCGATACAA
1 TGTATCGATACAA
2066244 TGTATCGATACAA
1 TGTATCGATACAA
2066257 AGTTGCCTTG
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):
TGTATCGATACAA
Found at i:2066333 original size:20 final size:21
Alignment explanation
Indices: 2066281--2066362 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 21
2066271 CTGCTAAGGA
*
2066281 AATGTATCGATACATTAAAATTCCC
1 AATGTATCGATACATT--GATT--C
2066306 AGATGTATCGATACATT-ATTC
1 A-ATGTATCGATACATTGATTC
2066327 AATGTATCGATACATTGA-TC
1 AATGTATCGATACATTGATTC
**
2066347 TTTGTATCGATACATT
1 AATGTATCGATACATT
2066363 TGGGAATTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
20 31 0.58
21 3 0.06
23 3 0.06
25 1 0.02
26 15 0.28
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (21 bp):
AATGTATCGATACATTGATTC
Found at i:2074078 original size:97 final size:97
Alignment explanation
Indices: 2073927--2074160 Score: 303
Period size: 97 Copynumber: 2.4 Consensus size: 97
2073917 CGGAGATACC
* *
2073927 CCAACCCTATTCCTCCGAAGGGATACTCCAACCCCGCTTTTAAATACATAAAAGTTTAAATTTTA
1 CCAACCCTATTCCTCCGAAGGGATACTCCAACCCCGCTTTTAAACACATAAAAGTTTAAATCTTA
2073992 TTCTCACTTAAATTGTCACCATCGAGGACACT
66 TTCTCACTTAAATTGTCACCATCGAGGACACT
* * * ** * *
2074024 TCAACTCTATTCCTCC-AAGGAGATACTCTAACCTTGCTTTTAAACGCATCAAAGTTTAAATCTT
1 CCAACCCTATTCCTCCGAAGG-GATACTCCAACCCCGCTTTTAAACACATAAAAGTTTAAATCTT
* *
2074088 ATTCTCACTTAAATTGTCATCATCGGGGACACT
65 ATTCTCACTTAAATTGTCACCATCGAGGACACT
* * *
2074121 CCAACCCTATTCCTTCG--GTGGATACTCCAATCCCGTTTTT
1 CCAACCCTATTCCTCCGAAG-GGATACTCCAACCCCGCTTTT
2074161 CAATAAAAAA
Statistics
Matches: 115, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
96 20 0.17
97 95 0.83
ACGTcount: A:0.29, C:0.28, G:0.11, T:0.32
Consensus pattern (97 bp):
CCAACCCTATTCCTCCGAAGGGATACTCCAACCCCGCTTTTAAACACATAAAAGTTTAAATCTTA
TTCTCACTTAAATTGTCACCATCGAGGACACT
Found at i:2075444 original size:16 final size:16
Alignment explanation
Indices: 2075423--2075453 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2075413 CAACATTTCC
*
2075423 TCTATTAAAACTTTTT
1 TCTATTAAAAATTTTT
2075439 TCTATTAAAAATTTT
1 TCTATTAAAAATTTT
2075454 GAAAGCTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (16 bp):
TCTATTAAAAATTTTT
Found at i:2080207 original size:20 final size:20
Alignment explanation
Indices: 2080182--2080234 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
2080172 ATTGGGCATA
*
2080182 ATGTATCGATACAAT-TCTTC
1 ATGTATCGATACAATGTC-CC
2080202 ATGTATC-AGTACAATGTCCC
1 ATGTATCGA-TACAATGTCCC
2080222 ATGTATCGATACA
1 ATGTATCGATACA
2080235 TTTCACTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 1 0.03
20 25 0.86
21 3 0.10
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACAATGTCCC
Found at i:2080302 original size:13 final size:13
Alignment explanation
Indices: 2080284--2080308 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2080274 ACAATTGAGC
2080284 ATGTATCGATACA
1 ATGTATCGATACA
2080297 ATGTATCGATAC
1 ATGTATCGATAC
2080309 TAGGCATAAT
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):
ATGTATCGATACA
Found at i:2082944 original size:33 final size:33
Alignment explanation
Indices: 2082902--2082964 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
2082892 ACTGTTTGTA
* *
2082902 TCGATACATGGCGCATTATATCGATACATTATC
1 TCGATACATGACGAATTATATCGATACATTATC
* *
2082935 TCGATACATGATGAATTGTATCGATACATT
1 TCGATACATGACGAATTATATCGATACATT
2082965 GCTTCTAACG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (33 bp):
TCGATACATGACGAATTATATCGATACATTATC
Found at i:2086916 original size:13 final size:13
Alignment explanation
Indices: 2086900--2086925 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2086890 CAGGGCAACT
2086900 TTGTATCGATACA
1 TTGTATCGATACA
2086913 TTGTATCGATACA
1 TTGTATCGATACA
2086926 ATACTTATGT
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:2086938 original size:19 final size:20
Alignment explanation
Indices: 2086914--2086966 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
2086904 ATCGATACAT
2086914 TGTATCGATACAATACT-TA
1 TGTATCGATACAATACTGTA
* *
2086933 TGTATCGATACATTTACTGTT
1 TGTATCGATACA-ATACTGTA
2086954 TGTATCGATACAA
1 TGTATCGATACAA
2086967 ATTATTGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 12 0.41
20 4 0.14
21 13 0.45
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (20 bp):
TGTATCGATACAATACTGTA
Found at i:2087449 original size:3 final size:3
Alignment explanation
Indices: 2087435--2087473 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
2087425 ACCATCAAAA
*
2087435 ATG ATG AAG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
2087474 GTGACTCGGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.36, C:0.00, G:0.33, T:0.31
Consensus pattern (3 bp):
ATG
Found at i:2093949 original size:23 final size:22
Alignment explanation
Indices: 2093923--2093965 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
2093913 CTTTTTAACC
*
2093923 TTTTATCAAGGGGAGAAATTTAT
1 TTTTATCAAAGGGA-AAATTTAT
*
2093946 TTTTATTAAAGGGAAAATTT
1 TTTTATCAAAGGGAAAATTT
2093966 TTTAACGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.37, C:0.02, G:0.19, T:0.42
Consensus pattern (22 bp):
TTTTATCAAAGGGAAAATTTAT
Found at i:2093949 original size:31 final size:31
Alignment explanation
Indices: 2093892--2093950 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
2093882 GAAAATAAAT
*
2093892 TTTTATCAAGAGGGAGAAAATCTTTTTAACC
1 TTTTATCAAGAGGGAGAAAATATTTTTAACC
*
2093923 TTTTATCAAG-GGGAGAAATTTATTTTTA
1 TTTTATCAAGAGGGAGAAA-ATATTTTTA
2093951 TTAAAGGGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 8 0.32
31 17 0.68
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.41
Consensus pattern (31 bp):
TTTTATCAAGAGGGAGAAAATATTTTTAACC
Found at i:2094538 original size:13 final size:13
Alignment explanation
Indices: 2094520--2094577 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 13
2094510 GACACACCTT
2094520 TGTATCGATACAA
1 TGTATCGATACAA
2094533 TGTATCGATAC-A
1 TGTATCGATACAA
**
2094545 T-TAT-G---CTT
1 TGTATCGATACAA
2094553 TGTATCGATACAA
1 TGTATCGATACAA
2094566 TGTATCGATACA
1 TGTATCGATACA
2094578 TGTTCATTGT
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.08
10 2 0.06
11 3 0.08
12 2 0.06
13 24 0.67
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2094559 original size:33 final size:32
Alignment explanation
Indices: 2094517--2094596 Score: 126
Period size: 33 Copynumber: 2.5 Consensus size: 32
2094507 CGAGACACAC
2094517 CTTTGTATCGATACAATGTATCGATACAT-TAT
1 CTTTGTATCGATACAATGTATCGATACATGT-T
2094549 GCTTTGTATCGATACAATGTATCGATACATGTT
1 -CTTTGTATCGATACAATGTATCGATACATGTT
*
2094582 CATTGTATCGATACA
1 CTTTGTATCGATACA
2094597 TGGACAATTG
Statistics
Matches: 45, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
32 14 0.31
33 30 0.67
34 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (32 bp):
CTTTGTATCGATACAATGTATCGATACATGTT
Found at i:2094608 original size:20 final size:20
Alignment explanation
Indices: 2094562--2094618 Score: 82
Period size: 19 Copynumber: 3.0 Consensus size: 20
2094552 TTGTATCGAT
*
2094562 ACAA-TGTATCGATACATGT
1 ACAATTGTATCGATACATGG
*
2094581 TC-ATTGTATCGATACATGG
1 ACAATTGTATCGATACATGG
2094600 ACAATTGTATCGATACATG
1 ACAATTGTATCGATACATG
2094619 AAACTGGCAG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 1 0.03
19 16 0.48
20 16 0.48
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (20 bp):
ACAATTGTATCGATACATGG
Found at i:2096025 original size:32 final size:32
Alignment explanation
Indices: 2095964--2096026 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
2095954 AGCTTTCCCG
* *
2095964 AGTTTTGAGCTTTTTCAAACTTGAGTTTTTTC
1 AGTTTTGAGCTTTTTCAAACTCGAATTTTTTC
2095996 AGTTTT-AGGCTTTTT-AGAACTCGAATTTTTT
1 AGTTTTGA-GCTTTTTCA-AACTCGAATTTTTT
2096027 TGGATTCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 2 0.07
32 25 0.93
ACGTcount: A:0.21, C:0.11, G:0.16, T:0.52
Consensus pattern (32 bp):
AGTTTTGAGCTTTTTCAAACTCGAATTTTTTC
Found at i:2098851 original size:26 final size:26
Alignment explanation
Indices: 2098815--2098867 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
2098805 GCAATCAAGT
2098815 AAGAACAATAACAGACAAGAAGGAAA
1 AAGAACAATAACAGACAAGAAGGAAA
**
2098841 AAGAACAATAATGGACAAGAAGGAAA
1 AAGAACAATAACAGACAAGAAGGAAA
2098867 A
1 A
2098868 GAATAGGTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.64, C:0.09, G:0.21, T:0.06
Consensus pattern (26 bp):
AAGAACAATAACAGACAAGAAGGAAA
Found at i:2099677 original size:58 final size:57
Alignment explanation
Indices: 2099615--2099833 Score: 240
Period size: 58 Copynumber: 3.8 Consensus size: 57
2099605 AAAACGTATG
* * * *
2099615 AAATTACATGAAAATCCTTAGATTATGGAAAATGCCCTAAATGACATCAAAATCCATA
1 AAATTACAT-CAAATCCTTAGATCATGGAAAATGACCTAAATGACATCAAAATTCATA
* * * *
2099673 AAATTACATTCAATTCCCTAGATCATGGAAGATGACTTAAATGACATCAAAATTCATA
1 AAATTACA-TCAAATCCTTAGATCATGGAAAATGACCTAAATGACATCAAAATTCATA
* * * * *
2099731 AAATTAGATCAAATTCTCTAGATCATGGAAAATGATCTAAAAGACAACAAAATTCATA
1 AAATTACATCAAATCCT-TAGATCATGGAAAATGACCTAAATGACATCAAAATTCATA
* * * * *
2099789 AGATTGCATCTATATCCTTAAATCATAGAAAATGACCTAAATGAC
1 AAATTACATC-AAATCCTTAGATCATGGAAAATGACCTAAATGAC
2099834 CCAATATACG
Statistics
Matches: 132, Mismatches: 26, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
57 6 0.05
58 120 0.91
59 6 0.05
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.27
Consensus pattern (57 bp):
AAATTACATCAAATCCTTAGATCATGGAAAATGACCTAAATGACATCAAAATTCATA
Found at i:2099886 original size:65 final size:64
Alignment explanation
Indices: 2099810--2099931 Score: 190
Period size: 65 Copynumber: 1.9 Consensus size: 64
2099800 ATATCCTTAA
*
2099810 ATCATAGAAAATGACCTAAATGACCCAATATACGAGGAATTTGCATAAAAGTCCCTAGTCCCTAG
1 ATCATAGAAAATGACCTAAATGACCCAACATACGAGGAATTTGCAT-AAAGTCCCTAGTCCCTAG
* * * *
2099875 ATCATGGAAAATGACCTAAATGACCTAACATGCGTGGAATTTGCATAAAGTCCCTAG
1 ATCATAGAAAATGACCTAAATGACCCAACATACGAGGAATTTGCATAAAGTCCCTAG
2099932 ATCATGAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
64 11 0.21
65 41 0.79
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (64 bp):
ATCATAGAAAATGACCTAAATGACCCAACATACGAGGAATTTGCATAAAGTCCCTAGTCCCTAG
Found at i:2103163 original size:21 final size:20
Alignment explanation
Indices: 2103104--2103187 Score: 64
Period size: 21 Copynumber: 4.0 Consensus size: 20
2103094 AACAAGAAAG
*
2103104 AAAAAGAAAGAGAAAAG-AGA
1 AAAAATAAAGA-AAAAGAAGA
*
2103124 AATAATGAAAGGAAAAAAGAAGA
1 AAAAAT-AAA-G-AAAAAGAAGA
2103147 AAAAAGTAAAGAAAAAGAA-A
1 AAAAA-TAAAGAAAAAGAAGA
*
2103167 AAAACAAAATAGAAAAAGAAG
1 AAAA-ATAA-AGAAAAAGAAG
2103188 TGAAAAATCC
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
20 11 0.21
21 22 0.42
22 7 0.13
23 11 0.21
24 1 0.02
ACGTcount: A:0.75, C:0.01, G:0.19, T:0.05
Consensus pattern (20 bp):
AAAAATAAAGAAAAAGAAGA
Found at i:2104147 original size:57 final size:58
Alignment explanation
Indices: 2103899--2104148 Score: 222
Period size: 58 Copynumber: 4.3 Consensus size: 58
2103889 CCATCTTGGT
* * * * * * * * *
2103899 AATTTTCATATATTTTAGGGCTATTTAGGTTATTTCACGTAATTTAGGGTC-TTTTAAC
1 AATTTTCAT-CATTTTAAGGCCATTTAAGTTATTTTACATAATCTAAGGTCATTTTAGC
* * * *
2103957 AA-TTTCAATGCATTTTAGGGCCACTTAACTTATTTTACATAATCTAGGGTCATTTTAGC
1 AATTTTC-AT-CATTTTAAGGCCATTTAAGTTATTTTACATAATCTAAGGTCATTTTAGC
* * * * * *
2104016 AATTTCCAACATTTTAGGGCCATTTAAGTTATCTTACATACTCTAAGGTCTTTTTAGC
1 AATTTTCATCATTTTAAGGCCATTTAAGTTATTTTACATAATCTAAGGTCATTTTAGC
* * *
2104074 AATTTTTATCATTTTAAGGCC-TTT-AGATTATTTTAAATAATATAAGGTCATTTTAGC
1 AATTTTCATCATTTTAAGGCCATTTAAG-TTATTTTACATAATCTAAGGTCATTTTAGC
2104131 AATTTTCATC-TCTTTAAG
1 AATTTTCATCAT-TTTAAG
2104149 AGCATATTGT
Statistics
Matches: 159, Mismatches: 28, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
56 3 0.02
57 47 0.30
58 97 0.61
59 9 0.06
60 3 0.02
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (58 bp):
AATTTTCATCATTTTAAGGCCATTTAAGTTATTTTACATAATCTAAGGTCATTTTAGC
Found at i:2104363 original size:78 final size:76
Alignment explanation
Indices: 2104249--2104706 Score: 329
Period size: 78 Copynumber: 6.0 Consensus size: 76
2104239 ATGTCGGTAT
* * * * * * *
2104249 ATGTCCATTAAGGTCATTTAAGTAATGCTACT-TTAAAACTGAGTCTTTAGGGTCATGTAGGTGT
1 ATGTCCATT-AGGGCATTTAGGTAATGATA-TATTAAAA-TGAGTCTCTAGGATCATGTGGGTAT
*
2104313 TCTCATGTCAATAC
63 TTTCATGTCAATAC
* *
2104327 ATGTCCATTAGGGCTATTTAGGTAATGATATATTAAAATCGAGTCTGTAGGATCATATGGGTATT
1 ATGTCCATTAGGGC-ATTTAGGTAATGATATATTAAAAT-GAGTCTCTAGGATCATGTGGGTATT
** *
2104392 TTCATACCGATAC
64 TTCATGTCAATAC
* * * * * * * * *
2104405 ATGTCTATTAGGGACATTTAGGTAATAATACAATAAAATTAAGTCTCTAAGTTCATATGGGTACT
1 ATGTCCATTAGGG-CATTTAGGTAATGATATATTAAAA-TGAGTCTCTAGGATCATGTGGGTATT
*
2104470 TTCATGTCAATAT
64 TTCATGTCAATAC
* * * * * * *
2104483 ATTTCTATTTGGTCATTTAGGTAATGGTAAATTAAAATCGAGTCTCTAGG-TCATGTAGGTATTT
1 ATGTCCATTAGGGCATTTAGGTAATGATATATTAAAAT-GAGTCTCTAGGATCATGTGGGTATTT
**
2104547 TCATGTTGATAC
65 TCATGTCAATAC
** * * * *
2104559 AT-TAGATT----CATTTAGGTGATAGA-ACATTAAAATTAAGTCTCTAGGATCATGTGGGTGTT
1 ATGTCCATTAGGGCATTTAGGTAAT-GATATATTAAAA-TGAGTCTCTAGGATCATGTGGGTATT
*
2104618 TTCATGTCAATAT
64 TTCATGTCAATAC
* * * * * *
2104631 ATGTCCATTAGGGTCATTTAGGTAATGGTATATTAAAACCGAGTCGCTGGGGTCATGTTGGTATT
1 ATGTCCATTAGGG-CATTTAGGTAATGATATATTAAAA-TGAGTCTCTAGGATCATGTGGGTATT
* *
2104696 TCCATATCAAT
64 TTCATGTCAAT
2104707 TAATGTCTTT
Statistics
Matches: 298, Mismatches: 66, Indels: 32
0.75 0.17 0.08
Matches are distributed among these distances:
71 29 0.10
72 25 0.08
73 4 0.01
75 4 0.01
76 23 0.08
77 36 0.12
78 175 0.59
79 2 0.01
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (76 bp):
ATGTCCATTAGGGCATTTAGGTAATGATATATTAAAATGAGTCTCTAGGATCATGTGGGTATTTT
CATGTCAATAC
Found at i:2104937 original size:21 final size:21
Alignment explanation
Indices: 2104911--2104950 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
2104901 ATGTTTTTGT
2104911 TTAAATGTATCGATACATTTC
1 TTAAATGTATCGATACATTTC
2104932 TTAAATGTATCGATACATT
1 TTAAATGTATCGATACATT
2104951 AGGTCCCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.42
Consensus pattern (21 bp):
TTAAATGTATCGATACATTTC
Found at i:2105044 original size:20 final size:20
Alignment explanation
Indices: 2105019--2105063 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
2105009 TCCTAAGTTT
2105019 TGTATCGATACATTATACAA
1 TGTATCGATACATTATACAA
*
2105039 TGTATCGATACATTATTCAA
1 TGTATCGATACATTATACAA
2105059 TGTAT
1 TGTAT
2105064 TGAAATATGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (20 bp):
TGTATCGATACATTATACAA
Found at i:2111112 original size:29 final size:29
Alignment explanation
Indices: 2111074--2111131 Score: 82
Period size: 31 Copynumber: 2.0 Consensus size: 29
2111064 ATTTTGTTGG
*
2111074 AAATAAACC-ATCATCTTTTTTGTCAAAT
1 AAATAAACCAATCATCTTTATTGTCAAAT
2111102 AAATCAAACCATATCATCTTTATTGTCAAA
1 AAAT-AAACCA-ATCATCTTTATTGTCAAA
2111132 CAAGCCCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 4 0.15
29 5 0.19
31 17 0.65
ACGTcount: A:0.41, C:0.19, G:0.03, T:0.36
Consensus pattern (29 bp):
AAATAAACCAATCATCTTTATTGTCAAAT
Found at i:2111872 original size:33 final size:33
Alignment explanation
Indices: 2111834--2112388 Score: 215
Period size: 33 Copynumber: 16.8 Consensus size: 33
2111824 TTTTCTAAAC
* *
2111834 GTCCACTACTCAGTGGCATCCTTTTTCTTCCAA
1 GTCCACAACTCAGTGGCATCCTTTTTCTTCTAA
*
2111867 GTCCACGACTCAGTGGCATCCTTTTTCTTCTAA
1 GTCCACAACTCAGTGGCATCCTTTTTCTTCTAA
* *
2111900 GACCATC-ACTCAATGGCAT-CTCTTTTC--C-AA
1 GTCCA-CAACTCAGTGGCATCCT-TTTTCTTCTAA
* * * * **
2111930 GACCACTACTTAGTGGTATCCTTTTTCTTAAAA
1 GTCCACAACTCAGTGGCATCCTTTTTCTTCTAA
* * *
2111963 GTCCACAACTCCGTGGCAT-CATTTTCTTTTAA
1 GTCCACAACTCAGTGGCATCCTTTTTCTTCTAA
* * * *
2111995 GTCCACAATTCCGTGGCA-CCTTGTTCCTTTTAA
1 GTCCACAACTCAGTGGCATCCTT-TTTCTTCTAA
* *
2112028 GTCCACAATTTC-GTGGCAT-CTTTTTCTTTTAAGTCCACAAA
1 GTCCACAA-CTCAGTGGCATCCTTTTTC---T---T---CTAA
* *
2112069 GTCCACAACTCCA-TGGCA-CCTTGTTCCTTTTAA
1 GTCCACAACT-CAGTGGCATCCTT-TTTCTTCTAA
* *
2112102 GTCCACAACTCCA-TGGCA-CCTTTTTCTCCACAAA
1 GTCCACAACT-CAGTGGCATCCTTTTTCT--TCTAA
* * * *
2112136 GTCCCCAACTCTGTGGCA-CCTTGTTCCTTTTAA
1 GTCCACAACTCAGTGGCATCCTT-TTTCTTCTAA
* *
2112169 GTCCACAACTCTGTGGCA-CCTTTTTCTTTTTAAA
1 GTCCACAACTCAGTGGCATCCTTTTTC-TTCT-AA
* * * *
2112203 GTCCATAACTCCGTGGCA-CCTTGTTCTTTTCAA
1 GTCCACAACTCAGTGGCATCCTTTTTCTTCT-AA
* * * *
2112236 GTCCACAACTCCA-TGACA-CATTTTCTTTTCAAA
1 GTCCACAACT-CAGTGGCATCCTTTT-TCTTCTAA
* * * * *
2112269 GCCCAC-ACTCCGTCGCAT-CTTTTCCTTTTAA
1 GTCCACAACTCAGTGGCATCCTTTTTCTTCTAA
* * * *
2112300 GTCCACAACTCCA-TGACA-CATTTTCTTTTCAAA
1 GTCCACAACT-CAGTGGCATCCTTTT-TCTTCTAA
* * * * *
2112333 GCCCAC-ACTCCGTCGCAT-CTTTTCCTTTTAA
1 GTCCACAACTCAGTGGCATCCTTTTTCTTCTAA
*
2112364 GTCCACAACTTC-GTGGCACCCTTTT
1 GTCCACAAC-TCAGTGGCATCCTTTT
2112389 AAGTTCACAA
Statistics
Matches: 399, Mismatches: 80, Indels: 86
0.71 0.14 0.15
Matches are distributed among these distances:
29 1 0.00
30 21 0.05
31 23 0.06
32 78 0.20
33 192 0.48
34 53 0.13
35 5 0.01
36 1 0.00
38 1 0.00
39 1 0.00
40 1 0.00
41 19 0.05
42 3 0.01
ACGTcount: A:0.22, C:0.31, G:0.12, T:0.35
Consensus pattern (33 bp):
GTCCACAACTCAGTGGCATCCTTTTTCTTCTAA
Found at i:2111980 original size:63 final size:64
Alignment explanation
Indices: 2111824--2111990 Score: 162
Period size: 63 Copynumber: 2.6 Consensus size: 64
2111814 TCATAGCACC
* * *
2111824 TTTTC-TAAACGTCCACTACTCAGTGGCATCCTTTTTCTTCCAAGTCCACGACTCAGTGGCATCC
1 TTTTCTTAAAAGTCCAC-ACTCAGTGGCAT-CTTCTTCTTCCAAGACCACGACTCAGTGGCATCC
2111888 T
64 T
** * * * * *
2111889 TTTTCTTCTAAGACCATCACTCAATGGCATC-TCTT-TTCCAAGACCACTACTTAGTGGTATCCT
1 TTTTCTTAAAAGTCCA-CACTCAGTGGCATCTTCTTCTTCCAAGACCACGACTCAGTGGCATCCT
*
2111952 TTTTCTTAAAAGTCCACAACTCCGTGGCATCATT-TTCTT
1 TTTTCTTAAAAGTCCAC-ACTCAGTGGCATC-TTCTTCTT
2111991 TTAAGTCCAC
Statistics
Matches: 81, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
62 1 0.01
63 48 0.59
64 5 0.06
65 9 0.11
66 17 0.21
67 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.12, T:0.37
Consensus pattern (64 bp):
TTTTCTTAAAAGTCCACACTCAGTGGCATCTTCTTCTTCCAAGACCACGACTCAGTGGCATCCT
Found at i:2111997 original size:32 final size:30
Alignment explanation
Indices: 2111952--2112508 Score: 296
Period size: 33 Copynumber: 17.0 Consensus size: 30
2111942 GTGGTATCCT
**
2111952 TTTTCTTAAAAGTCCACAACTCCGTGGCATC
1 TTTTCTTTTAAGTCCACAACTCCGTGGCA-C
*
2111983 ATTTTCTTTTAAGTCCACAATTCCGTGGCACC
1 -TTTTCTTTTAAGTCCACAACTCCGTGGCA-C
* *
2112015 TTGTTCCTTTTAAGTCCACAATTTCGTGGCATC
1 TT-TT-CTTTTAAGTCCACAACTCCGTGGCA-C
*
2112048 TTTTTCTTTTAAGTCCACAAAGTCCACAACTCCATGGCACC
1 -TTTTC-TTT---T-----AAGTCCACAACTCCGTGGCA-C
*
2112089 TTGTTCCTTTTAAGTCCACAACTCCATGGCACC
1 TT-TT-CTTTTAAGTCCACAACTCCGTGGCA-C
*** * *
2112122 TTTTTCTCCACAAAGTCCCCAACTCTGTGGCACC
1 -TTTTCT--TTTAAGTCCACAACTCCGTGGCA-C
*
2112156 TTGTTCCTTTTAAGTCCACAACTCTGTGGCACC
1 TT-TT-CTTTTAAGTCCACAACTCCGTGGCA-C
*
2112189 TTTTTCTTTTTAAAGTCCATAACTCCGTGGCACC
1 -TTTTC-TTTT-AAGTCCACAACTCCGTGGCA-C
* *
2112223 TTGTTCTTTTCAAGTCCACAACTCCATGACAC
1 TT-TTCTTTT-AAGTCCACAACTCCGTGGCAC
* *
2112255 ATTTTCTTTTCAAAGCCCAC-ACTCCGTCGCATC
1 -TTTTCTTTT--AAGTCCACAACTCCGTGGCA-C
* *
2112288 TTTTCCTTTTAAGTCCACAACTCCATGACAC
1 TTTT-CTTTTAAGTCCACAACTCCGTGGCAC
* *
2112319 ATTTTCTTTTCAAAGCCCAC-ACTCCGTCGCATC
1 -TTTTCTTTT--AAGTCCACAACTCCGTGGCA-C
*
2112352 TTTTCCTTTTAAGTCCACAACTTCGTGGCAC
1 TTTT-CTTTTAAGTCCACAACTCCGTGGCAC
* * * *
2112383 ---CCTTTTAAGTTCACAACTCCATAGCACC
1 TTTTCTTTTAAGTCCACAACTCCGTGGCA-C
* *
2112411 TTTTTCTTTTCAAAGCCCACAACTCCATGGCATC
1 -TTTTCTTTT--AAGTCCACAACTCCGTGGCA-C
* * * *
2112445 TTTTCCTTTAAAGTCCATAACTCTGTGGTAC
1 TTTT-CTTTTAAGTCCACAACTCCGTGGCAC
**
2112476 ATTGTTCTTTTTAAACCCACAACTCCGTGGCAC
1 -TT-TTC-TTTTAAGTCCACAACTCCGTGGCAC
2112509 CTTCCTCTAA
Statistics
Matches: 416, Mismatches: 64, Indels: 89
0.73 0.11 0.16
Matches are distributed among these distances:
27 21 0.05
28 1 0.00
31 24 0.06
32 109 0.26
33 159 0.38
34 72 0.17
35 2 0.00
36 1 0.00
38 1 0.00
40 2 0.00
41 23 0.06
42 1 0.00
ACGTcount: A:0.23, C:0.31, G:0.11, T:0.35
Consensus pattern (30 bp):
TTTTCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:2112086 original size:41 final size:42
Alignment explanation
Indices: 2112026--2112109 Score: 116
Period size: 41 Copynumber: 2.0 Consensus size: 42
2112016 TGTTCCTTTT
* * * * *
2112026 AAGTCCACAATTTCGTGGCATCTT-TTTCTTTTAAGTCCACA
1 AAGTCCACAACTCCATGGCACCTTGTTCCTTTTAAGTCCACA
2112067 AAGTCCACAACTCCATGGCACCTTGTTCCTTTTAAGTCCACA
1 AAGTCCACAACTCCATGGCACCTTGTTCCTTTTAAGTCCACA
2112109 A
1 A
2112110 CTCCATGGCA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 20 0.54
42 17 0.46
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (42 bp):
AAGTCCACAACTCCATGGCACCTTGTTCCTTTTAAGTCCACA
Found at i:2112169 original size:67 final size:67
Alignment explanation
Indices: 2112065--2112511 Score: 415
Period size: 67 Copynumber: 6.9 Consensus size: 67
2112055 TTTAAGTCCA
* *
2112065 CAAAGTCCACAACTCCATGGCACCTTGTTCCTTTTAAGTCCACAACTCCATGGCACCTTTTTCTC
1 CAAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCATGGCACCTTTTTCTT
**
2112130 CA
66 TT
* * **
2112132 CAAAGTCCCCAACTCTGTGGCACCTTGTTCCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCTT
1 CAAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCATGGCACCTTTTTCTT
2112197 TT
66 TT
* * * *
2112199 TAAAGTCCATAACTCCGTGGCACCTTGTT-CTTTTCAAGTCCACAACTCCATGACA-CATTTTCT
1 CAAAGTCCACAACTCCGTGGCACCTTGTTCCTTTT-AAGTCCACAACTCCATGGCACCTTTTTCT
2112262 TTT
65 TTT
* * * * *
2112265 CAAAGCCCAC-ACTCCGTCGCATCTT-TTCCTTTTAAGTCCACAACTCCATGACA-CATTTTCTT
1 CAAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCATGGCACCTTTTTCTT
2112327 TT
66 TT
* * * * *
2112329 CAAAGCCCAC-ACTCCGTCGCATCTT-TTCCTTTTAAGTCCACAACTTCGTGGCACC-----CTT
1 CAAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCATGGCACCTTTTTCTT
2112387 TT
66 TT
* * * * * *
2112389 --AAGTTCACAACTCCATAGCACCTT-TTTCTTTTCAAAGCCCACAACTCCATGGCATC-TTTTC
1 CAAAGTCCACAACTCCGTGGCACCTTGTTCCTTTT--AAGTCCACAACTCCATGGCACCTTTTTC
*
2112450 CTTT
64 TTTT
* * * * * ** *
2112454 -AAAGTCCATAACTCTGTGGTACATTGTTCTTTTTAAACCCACAACTCCGTGGCACCTT
1 CAAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCATGGCACCTT
2112512 CCTCTAAAGC
Statistics
Matches: 320, Mismatches: 47, Indels: 27
0.81 0.12 0.07
Matches are distributed among these distances:
58 6 0.02
59 19 0.06
60 5 0.02
61 18 0.06
64 83 0.26
65 42 0.13
66 40 0.12
67 107 0.33
ACGTcount: A:0.23, C:0.32, G:0.11, T:0.34
Consensus pattern (67 bp):
CAAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCATGGCACCTTTTTCTT
TT
Found at i:2112409 original size:27 final size:27
Alignment explanation
Indices: 2112356--2112415 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
2112346 CGCATCTTTT
* * *
2112356 CCTTTTAAGTCCACAACTTCGTGGCAC
1 CCTTTTAAGTCCACAACTCCATAGCAC
*
2112383 CCTTTTAAGTTCACAACTCCATAGCAC
1 CCTTTTAAGTCCACAACTCCATAGCAC
*
2112410 CTTTTT
1 CCTTTT
2112416 CTTTTCAAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.23, C:0.32, G:0.10, T:0.35
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCCATAGCAC
Found at i:2112727 original size:32 final size:31
Alignment explanation
Indices: 2112641--2112834 Score: 171
Period size: 32 Copynumber: 6.0 Consensus size: 31
2112631 CCAGTGGAGA
*
2112641 AACCTTCTTCAAAGCCTACACAAGTTGGTGGC
1 AACCTTCTTCAAAGCCCACACAAGTT-GTGGC
* *
2112673 AACCCTCTTCAAAAGCCTACACAAGTCTGTGGC
1 AACCTTCTTC-AAAGCCCACACAAGT-TGTGGC
* *
2112706 AACCTTCCTT-AAAGCCCACACAAGTCGGTGCC
1 AACCTT-CTTCAAAGCCCACACAAGT-TGTGGC
* *
2112738 AACCCT-TTCAAAAGCCCACACAAGTTGATAGC
1 AACCTTCTTC-AAAGCCCACACAAGTTG-TGGC
*
2112770 AACCCTTCTTCAAA-CCCACACAAGTCGGTGGC
1 AA-CCTTCTTCAAAGCCCACACAAGT-TGTGGC
* *
2112802 GACCCTT-TTAAAAGCCCACACAAGTTGGTGGC
1 -AACCTTCTTCAAAGCCCACACAAGTT-GTGGC
2112834 A
1 A
2112835 TCTCCTTCTA
Statistics
Matches: 135, Mismatches: 15, Indels: 25
0.77 0.09 0.14
Matches are distributed among these distances:
30 2 0.01
31 7 0.05
32 86 0.64
33 33 0.24
34 7 0.05
ACGTcount: A:0.30, C:0.32, G:0.16, T:0.21
Consensus pattern (31 bp):
AACCTTCTTCAAAGCCCACACAAGTTGTGGC
Found at i:2112788 original size:64 final size:63
Alignment explanation
Indices: 2112641--2112828 Score: 254
Period size: 64 Copynumber: 2.9 Consensus size: 63
2112631 CCAGTGGAGA
* * * *
2112641 AACCTTCTTCAAAGCCTACACAAGTTGGTGGCAACCCTCTTCAAAAGCCTACACAAGTCTGTGGC
1 AACCTTCTTCAAAGCCCACACAAGTCGGTGGCAACCCT-TTCAAAAGCCCACACAAGT-TGTAGC
*
2112706 AACCTTCCTT-AAAGCCCACACAAGTCGGTGCCAACCCTTTCAAAAGCCCACACAAGTTGATAGC
1 AACCTT-CTTCAAAGCCCACACAAGTCGGTGGCAACCCTTTCAAAAGCCCACACAAGTTG-TAGC
* *
2112770 AACCCTTCTTCAAA-CCCACACAAGTCGGTGGCGACCCTTTTAAAAGCCCACACAAGTTG
1 AA-CCTTCTTCAAAGCCCACACAAGTCGGTGGCAACCCTTTCAAAAGCCCACACAAGTTG
2112829 GTGGCATCTC
Statistics
Matches: 111, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
63 2 0.02
64 68 0.61
65 38 0.34
66 3 0.03
ACGTcount: A:0.31, C:0.33, G:0.15, T:0.21
Consensus pattern (63 bp):
AACCTTCTTCAAAGCCCACACAAGTCGGTGGCAACCCTTTCAAAAGCCCACACAAGTTGTAGC
Found at i:2112816 original size:96 final size:96
Alignment explanation
Indices: 2112651--2112831 Score: 242
Period size: 96 Copynumber: 1.9 Consensus size: 96
2112641 AACCTTCTTC
* * * * *
2112651 AAAGCCTACACAAGTTGGTGGCAACCCTCTTCAAAAGCCTACACAAGTCTGTGGCAACCTTCCTT
1 AAAGCCCACACAAGTTGATAGCAACCCTCTTCAAAAGCCCACACAAGTCGGTGGCAACCTT-CTT
2112716 AAAGCCCACACAAGTCGGTGCCAACCCTTTCA
65 AAAGCCCACACAAGTCGGTGCCAACCCTTTCA
*
2112748 AAAGCCCACACAAGTTGATAGCAACCCTTCTTC-AAA-CCCACACAAGTCGGTGGCGACCCTT-T
1 AAAGCCCACACAAGTTGATAGCAACCC-TCTTCAAAAGCCCACACAAGTCGGTGGC-AACCTTCT
*
2112810 TAAAAGCCCACACAAGTTGGTG
64 T-AAAGCCCACACAAGTCGGTG
2112832 GCATCTCCTT
Statistics
Matches: 74, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
95 2 0.03
96 35 0.47
97 32 0.43
98 5 0.07
ACGTcount: A:0.31, C:0.32, G:0.17, T:0.20
Consensus pattern (96 bp):
AAAGCCCACACAAGTTGATAGCAACCCTCTTCAAAAGCCCACACAAGTCGGTGGCAACCTTCTTA
AAGCCCACACAAGTCGGTGCCAACCCTTTCA
Found at i:2112909 original size:43 final size:43
Alignment explanation
Indices: 2112838--2113241 Score: 340
Period size: 43 Copynumber: 8.7 Consensus size: 43
2112828 GGTGGCATCT
* * * *
2112838 CCTTCTAAGCCCAATGTCGTTGGCCTTGAATCAGCACATTGGTA
1 CCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* *
2112882 CCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGTGCCTTTGTCA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACA-T--TG-----G-CA
* * * *
2112934 TCTTTAAGTCCAATGTCGTTGGCCTTGAATAAGCACATTGGCA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
*
2112977 CCTTTAAGTCCAATATCGCTGGCCTTGAATAAGCACATTGGCA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
*
2113020 CCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* * **
2113063 CCTTTAAGTCCAATATCGCTAGCCTTGAATTAGCATATTAGCACCTTTACCA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAA-T--C-----AGCA-CATTGGCA
* *
2113115 CCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTTA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGG---C---A
* * *
2113164 CCATCTTTAAGTCCAATGTTGCTGGCCTTGAATTAGCACATTGGCA
1 -C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* * *
2113210 CCTTCAAGTCCTATATCGTTGGCCTTGAATCA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCA
2113242 ACATATTTGC
Statistics
Matches: 296, Mismatches: 37, Indels: 55
0.76 0.10 0.14
Matches are distributed among these distances:
43 166 0.56
44 11 0.04
45 1 0.00
46 5 0.02
49 5 0.02
50 1 0.00
51 7 0.02
52 100 0.34
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (43 bp):
CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
Found at i:2112961 original size:52 final size:47
Alignment explanation
Indices: 2112838--2113300 Score: 284
Period size: 43 Copynumber: 9.8 Consensus size: 47
2112828 GGTGGCATCT
* * *
2112838 CCTTCTAAGCCCAATGTCGTTGGCCTTGAATCAGCACA-TTG---GTA
1 CCTT-TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTTGTTTGCA
* * *
2112882 CCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGTGCCTTTGTCA
1 CCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATT--TG--TTTG-CA
* * *
2112934 TCTTTAAGTCCAATGTCGTTGGCCTTGAATAAGCACA-TTG---GCA
1 CCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTTGTTTGCA
* *
2112977 CCTTTAAGTCCAATATCGCTGGCCTTGAATAAGCACA-TTG---GCA
1 CCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTTGTTTGCA
2113020 CCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACA-TTG---GCA
1 CCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTTGTTTGCA
* * * * * *
2113063 CCTTTAAGTCCAATATCGCTAGCCTTGAATTAGCATATTAGCACCTTTACCA
1 CCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTTG----TTT-GCA
* * *
2113115 CCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTTACCA
1 CCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTTG----TTT-GCA
* * *
2113167 TCTTTAAGTCCAATGTTGCTGGCCTTGAATTAGCACA-TTG---GCA
1 CCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTTGTTTGCA
* * * * * * **
2113210 CCTTCAAGTCCTATATCGTTGGCCTTGAATCAACATATTTGCATTTTTAA
1 CCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTTG---TTTGCA
* *
2113260 CATTCTTAAG-CCTAATGTCGCTGGCCTTAAATCAGCACATT
1 C-CT-TTAAGTCC-AATGTCGCTGGCCTTGAATCAGCACATT
2113301 GGTAGTCTTT
Statistics
Matches: 337, Mismatches: 54, Indels: 48
0.77 0.12 0.11
Matches are distributed among these distances:
43 174 0.52
44 11 0.03
46 2 0.01
49 2 0.01
50 2 0.01
51 7 0.02
52 139 0.41
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.32
Consensus pattern (47 bp):
CCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTTGTTTGCA
Found at i:2113017 original size:95 final size:93
Alignment explanation
Indices: 2112838--2113163 Score: 423
Period size: 95 Copynumber: 3.5 Consensus size: 93
2112828 GGTGGCATCT
* * * *
2112838 CCTTCTAAGCCCAATGTCGTTGGCCTTGAATCAGCACATTGGTACCTTTAAGTCCAATATTGCTG
1 CCTT-TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTG
*
2112903 GCCTTGAATCAGCATATTGGTGCCTTTGTCA
65 GCCTTGAATAAGCATATT-GTGCCTTTG-CA
* * *
2112934 TCTTTAAGTCCAATGTCGTTGGCCTTGAATAAGCACATTGGCACCTTTAAGTCCAATATCGCTGG
1 CCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGG
*
2112999 CCTTGAATAAGCACA-T-TG-----GCA
66 CCTTGAATAAGCATATTGTGCCTTTGCA
*
2113020 CCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTAG
1 CCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGG
* ** *
2113085 CCTTGAATTAGCATATTAGCACCTTTACCA
66 CCTTGAATAAGCATATT-GTGCCTTT-GCA
*
2113115 CCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTTA
1 CCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
2113164 CCATCTTTAA
Statistics
Matches: 204, Mismatches: 17, Indels: 19
0.85 0.07 0.08
Matches are distributed among these distances:
86 76 0.37
87 2 0.01
92 2 0.01
94 1 0.00
95 120 0.59
96 3 0.01
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (93 bp):
CCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGG
CCTTGAATAAGCATATTGTGCCTTTGCA
Found at i:2113080 original size:86 final size:86
Alignment explanation
Indices: 2112935--2113241 Score: 326
Period size: 95 Copynumber: 3.4 Consensus size: 86
2112925 CCTTTGTCAT
* *
2112935 CTTTAAGTCCAATGTCGTTGGCCTTGAATAAGCACATTGGCACCTTTAAGTCCAATATCGCTGGC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGC
2113000 CTTGAATAAGCACATTGGCAC
66 CTTGAATAAGCACATTGGCAC
*
2113021 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTAGC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGC
* **
2113086 CTTGAATTAGCATATTAGCACCTTTACCAC
66 CTTG----A--ATA--AGCA-CATTGGCAC
*
2113116 CTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTTACCATCTTTAAGTCCAAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG---C---A-C--CTTTAAGTCCAAT
* * *
2113181 GTTGCTGGCCTTGAATTAGCACATTGGCAC
57 ATCGCTGGCCTTGAATAAGCACATTGGCAC
* * * *
2113211 CTTCAAGTCCTATATCGTTGGCCTTGAATCA
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCA
2113242 ACATATTTGC
Statistics
Matches: 184, Mismatches: 19, Indels: 27
0.80 0.08 0.12
Matches are distributed among these distances:
86 66 0.36
90 1 0.01
92 3 0.02
94 4 0.02
95 77 0.42
96 4 0.02
98 3 0.02
100 1 0.01
101 1 0.01
102 1 0.01
104 23 0.12
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (86 bp):
CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGC
CTTGAATAAGCACATTGGCAC
Found at i:2113212 original size:95 final size:93
Alignment explanation
Indices: 2112935--2113302 Score: 309
Period size: 95 Copynumber: 4.0 Consensus size: 93
2112925 CCTTTGTCAT
* *
2112935 CTTTAAGTCCAATGTCGTTGGCCTTGAATAAGCACATTGG--C---AC--CTTTAAGTCCAATAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTTACATCTTTAAGTCCAATAT
*
2112993 CGCTGGCCTTGAATAAGCACATTGGCAC
66 CGCTGGCCTTGAATTAGCACATTGGCAC
2113021 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG--C---AC--CTTTAAGTCCAATAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTTACATCTTTAAGTCCAATAT
* **
2113079 CGCTAGCCTTGAATTAGCATATTAGCACCTTTACCAC
66 CGCTGGCCTTGAATTAGC-----A-CA---TTGGCAC
*
2113116 CTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTTACCATCTTTAAGTCCAAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CTTTA-CATCTTTAAGTCCAAT
* *
2113181 GTTGCTGGCCTTGAATTAGCACATTGGCAC
64 ATCGCTGGCCTTGAATTAGCACATTGGCAC
* * * * * * * *
2113211 CTTCAAGTCCTATATCGTTGGCCTTGAATCAACATATTTGCATTTTTAACAT-TCTTAAG-CCTA
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CTTT-ACATCT-TTAAGTCC-A
* * *
2113274 ATGTCGCTGGCCTTAAATCAGCACATTGG
62 ATATCGCTGGCCTTGAATTAGCACATTGG
2113303 TAGTCTTTTC
Statistics
Matches: 236, Mismatches: 25, Indels: 33
0.80 0.09 0.11
Matches are distributed among these distances:
86 72 0.31
91 1 0.00
92 2 0.01
94 3 0.01
95 121 0.51
96 1 0.00
98 3 0.01
99 1 0.00
101 1 0.00
102 1 0.00
104 30 0.13
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (93 bp):
CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTTACATCTTTAAGTCCAATAT
CGCTGGCCTTGAATTAGCACATTGGCAC
Found at i:2113293 original size:147 final size:147
Alignment explanation
Indices: 2113021--2113348 Score: 410
Period size: 147 Copynumber: 2.2 Consensus size: 147
2113011 ACATTGGCAC
*
2113021 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTAGC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAAGTCCAATATCGCTAGC
* * * *
2113086 CTTGAATTAGCATATTAGCACCTTTACCACCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCAC
66 CTTGAATCAACATATTAGCACCTTTAACACCTTTAAGTCCAATGTCACTGGCCTTAAATCAGCAC
2113151 ATTGGCACCTTTACCAT
131 ATTGGCACCTTTACCAT
* * * * *
2113168 CTTTAAGTCCAATGTTGCTGGCCTTGAATTAGCACATTGGCACCTTCAAGTCCTATATCGTTGGC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAAGTCCAATATCGCTAGC
* ** * *
2113233 CTTGAATCAACATATTTGCATTTTTAACA-TTCTTAAG-CCTAATGTCGCTGGCCTTAAATCAGC
66 CTTGAATCAACATATTAGCACCTTTAACACCT-TTAAGTCC-AATGTCACTGGCCTTAAATCAGC
* * *
2113296 ACATTGGTAGTCTTT-TCAT
129 ACATTGGCA-CCTTTACCAT
* * * *
2113315 CTTCAAGTCTAATGTCACTGGCCGTGAATCAGCA
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCA
2113349 TATTAACATT
Statistics
Matches: 154, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
146 3 0.02
147 147 0.95
148 4 0.03
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.33
Consensus pattern (147 bp):
CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAAGTCCAATATCGCTAGC
CTTGAATCAACATATTAGCACCTTTAACACCTTTAAGTCCAATGTCACTGGCCTTAAATCAGCAC
ATTGGCACCTTTACCAT
Found at i:2115385 original size:32 final size:34
Alignment explanation
Indices: 2115344--2115406 Score: 96
Period size: 32 Copynumber: 1.9 Consensus size: 34
2115334 CTTAACTGCT
2115344 TGTATCGATACAT-A-CAAGA-TGTATCGATATAA
1 TGTATCGATACATGACCAA-ATTGTATCGATATAA
2115376 TGTATCGATACATGACCAAATTGTATCGATA
1 TGTATCGATACATGACCAAATTGTATCGATA
2115407 CATTGGCTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 13 0.46
33 2 0.07
34 13 0.46
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (34 bp):
TGTATCGATACATGACCAAATTGTATCGATATAA
Found at i:2116996 original size:3 final size:3
Alignment explanation
Indices: 2116982--2117012 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
2116972 CATCAAGGAC
*
2116982 GAT GAA GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
2117013 GTGACTCAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.29
Consensus pattern (3 bp):
GAT
Done.