Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold32
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: 5587194
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.26
Warning! 895791 characters in sequence are not A, C, G, or T
File 20 of 33
Found at i:3050202 original size:92 final size:92
Alignment explanation
Indices: 3050092--3050335 Score: 398
Period size: 92 Copynumber: 2.6 Consensus size: 92
3050082 TCACTTTTCT
*
3050092 CATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGCCCGAT
1 CATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGCCCAAT
*
3050157 ATTGCTGGCCTTGAATCAGCATATTGG
66 ATAGCTGGCCTTGAATCAGCATATTGG
*
3050184 CATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAAT
1 CATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGCCCAAT
3050249 ATAGCTGGCCTTGAATCAGCATATTGG
66 ATAGCTGGCCTTGAATCAGCATATTGG
* * *
3050276 CACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTT
1 CA--TCTT-CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CCTTT
3050336 TTCTCATCTT
Statistics
Matches: 142, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
92 91 0.64
94 3 0.02
95 43 0.30
96 5 0.04
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.33
Consensus pattern (92 bp):
CATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGCCCAAT
ATAGCTGGCCTTGAATCAGCATATTGG
Found at i:3050562 original size:169 final size:173
Alignment explanation
Indices: 3050236--3050622 Score: 455
Period size: 169 Copynumber: 2.2 Consensus size: 173
3050226 ACATTGGCAC
* * * *
3050236 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTTT-CATCTTTAAGTCCAAT
* * *
3050301 GTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
65 ATAGCTAGCC-TGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAACCCAATATCGTTGGCC
* *
3050366 GTGAATCAACATATTGGCATCTTTATCACT-TTTCTCATCTTCAT
129 GTGAATCAACATATTGGCATCTTTATCACTCTTTATCATCATCAT
3050410 CTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACC-TTT-ATCTTTAAGTCCAATA
1 CTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTTTCATCTTTAAGTCCAATA
* ** * ** * *
3050473 TCGCTAGCC-GCATATTGGC-TATT-TTATCCTTTTTCTCATCTTTAAACCCAATTTTGTTGGCC
66 TAGCTAGCCTG-A-ATCAGCACATTGACATCCTTTTTCTCATCTTTAAACCCAATATCGTTGGCC
* * *
3050535 GTGAATCAACGTATTGGTCCT-TTTATCACTCTTTATCCTCATCAT
129 GTGAATCAACATATTGG-CATCTTTATCACTCTTTATCATCATCAT
* * * * *
3050580 CTTTAAGACCAGTGTTGCAGGCCTTGAATCTGCACAGTGGCAC
1 CTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCAC
3050623 ATTGCAAAAT
Statistics
Matches: 184, Mismatches: 25, Indels: 12
0.83 0.11 0.05
Matches are distributed among these distances:
169 60 0.33
170 55 0.30
171 25 0.14
173 3 0.02
174 41 0.22
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (173 bp):
CTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTTTCATCTTTAAGTCCAATA
TAGCTAGCCTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAACCCAATATCGTTGGCCGT
GAATCAACATATTGGCATCTTTATCACTCTTTATCATCATCAT
Found at i:3051324 original size:13 final size:13
Alignment explanation
Indices: 3051306--3051330 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3051296 ATCACTTAAA
3051306 TGTATCGATACAT
1 TGTATCGATACAT
3051319 TGTATCGATACA
1 TGTATCGATACA
3051331 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:3054707 original size:10 final size:9
Alignment explanation
Indices: 3054688--3054724 Score: 56
Period size: 10 Copynumber: 3.9 Consensus size: 9
3054678 GCTAGCTTGG
3054688 TTTTTTCTA
1 TTTTTTCTA
3054697 TTTTTTCCTA
1 TTTTTT-CTA
3054707 TTTTCTTCTA
1 TTTT-TTCTA
3054717 TTTTTTCT
1 TTTTTTCT
3054725 CTTGCTTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 10 0.38
10 14 0.54
11 2 0.08
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTTTCTA
Found at i:3055538 original size:161 final size:163
Alignment explanation
Indices: 3055337--3055657 Score: 454
Period size: 162 Copynumber: 2.0 Consensus size: 163
3055327 AAAATGGGAG
* * *
3055337 TTTCAAAGAAAAAAATAAAAAACTTATGAAAATCAATGAATTTTTGAAAAC-TGAATTAATATCA
1 TTTCAAAGAAAAAAATAAAAAACTCATGAAAATCAATGAATTTTTAAAAACGTAAATTAATATCA
*
3055401 AATAAATGATAATGTTTGATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCCCG-AAAAAAT
66 AATAAATGATAATGTTTGATGAATTTTAAAAATTAAAAACCAAGAAAAAT-CCCCCGAAAAAAAT
*
3055465 TTACGGAGTAGAAAACAT-CGT-ATTTCGAAAAAAA
130 TTACGGAGAAGAAAA-ATGCGTAATTT-GAAAAAAA
* * * * *
3055499 TTTC-AAGGAAAAAATCAAAAGCTCATGAAAATGAATGAATTTTTAAAAACGTAAATTAATATGA
1 TTTCAAAGAAAAAAATAAAAAACTCATGAAAATCAATGAATTTTTAAAAACGTAAATTAATATCA
* ** *
3055563 GATAAATGATAATGTTTGATGAATTTTAAAAATTAAAAATTAAGAAAAATCCTCCGAAAAAAATT
66 AATAAATGATAATGTTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCGAAAAAAATT
3055628 TACGGAGAAGAAAAATGCGTAATTTGAAAA
131 TACGGAGAAGAAAAATGCGTAATTTGAAAA
3055658 TAGGAGAAAT
Statistics
Matches: 141, Mismatches: 14, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
161 47 0.33
162 90 0.64
163 4 0.03
ACGTcount: A:0.52, C:0.09, G:0.12, T:0.27
Consensus pattern (163 bp):
TTTCAAAGAAAAAAATAAAAAACTCATGAAAATCAATGAATTTTTAAAAACGTAAATTAATATCA
AATAAATGATAATGTTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCGAAAAAAATT
TACGGAGAAGAAAAATGCGTAATTTGAAAAAAA
Found at i:3059349 original size:37 final size:37
Alignment explanation
Indices: 3059308--3059378 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
3059298 TTTAACTCAG
* *
3059308 ACTAGGTTGCCACCAGCTTGTGTGGGCTTTGACTCGA
1 ACTAGGTTGCCACCAGCTTGTGTGAGCCTTGACTCGA
*
3059345 ACTAGGTTGCCACCTGCTTGTGTGAGCCTTGACT
1 ACTAGGTTGCCACCAGCTTGTGTGAGCCTTGACT
3059379 TAGGTGCTGC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.15, C:0.25, G:0.28, T:0.31
Consensus pattern (37 bp):
ACTAGGTTGCCACCAGCTTGTGTGAGCCTTGACTCGA
Found at i:3062759 original size:20 final size:21
Alignment explanation
Indices: 3062734--3062787 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
3062724 CATTTTAGGC
3062734 ATGTATCGATACATTCACT-T
1 ATGTATCGATACATTCACTGT
*
3062754 ATGTATCGATACATTTACTGT
1 ATGTATCGATACATTCACTGT
* *
3062775 TTATATCGATACA
1 ATGTATCGATACA
3062788 AATTGTAAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATTCACTGT
Found at i:3063545 original size:88 final size:87
Alignment explanation
Indices: 3063270--3063611 Score: 484
Period size: 87 Copynumber: 4.0 Consensus size: 87
3063260 AGTTTTGGTT
* * * *
3063270 TTCTAAGGCTTGACCTCCTCAGACAGGTGCCAACTAATGTGGACTTGACTCGGACTTAAGTGCCA
1 TTCTAAGGCTTAACCTCCTTAGACAGGTGCCAACTAATGTGGACTTGACTCGAACTTAGGTGCCA
*
3063335 CCAACTCGTGTGGGCTTTGACA
66 CCAACTCATGTGGGCTTTGACA
* * * *
3063357 TTCTAAGGCTTAACCTTCTTAGACAGGTGCTAACTAACGTGGACTTGACTCAAACTTAGGT-CCA
1 TTCTAAGGCTTAACCTCCTTAGACAGGTGCCAACTAATGTGGACTTGACTCGAACTTAGGTGCCA
3063421 CCAAC-C-TGTGTAGGCTTTGACA
66 CCAACTCATGTG--GGCTTTGACA
*
3063443 ATCTAAGGCTTAACCTCCTTAGACAGGTGCCAACTAATGTGGACTTGAACTCGAACTTAGGTGCC
1 TTCTAAGGCTTAACCTCCTTAGACAGGTGCCAACTAATGTGGACTTG-ACTCGAACTTAGGTGCC
**
3063508 ACCGTCTCATGTGGGCTTTGACA
65 ACCAACTCATGTGGGCTTTGACA
*
3063531 TTCTAAGGCTTAACCTCCTTAGACAGGTGCCAACTAATTTGGAC-T---T-GAACTTAGGTGCCA
1 TTCTAAGGCTTAACCTCCTTAGACAGGTGCCAACTAATGTGGACTTGACTCGAACTTAGGTGCCA
3063591 CCAACTCATGTGGGCTTTGAC
66 CCAACTCATGTGGGCTTTGAC
3063612 TCGGGTGTCG
Statistics
Matches: 230, Mismatches: 19, Indels: 17
0.86 0.07 0.06
Matches are distributed among these distances:
82 33 0.14
83 1 0.00
84 4 0.02
85 1 0.00
86 61 0.27
87 67 0.29
88 58 0.25
89 1 0.00
90 4 0.02
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (87 bp):
TTCTAAGGCTTAACCTCCTTAGACAGGTGCCAACTAATGTGGACTTGACTCGAACTTAGGTGCCA
CCAACTCATGTGGGCTTTGACA
Found at i:3063626 original size:31 final size:31
Alignment explanation
Indices: 3063584--3063673 Score: 126
Period size: 31 Copynumber: 2.9 Consensus size: 31
3063574 CTTGAACTTA
** *
3063584 GGTGCCACCAACTCATGTGGGCTTTGACTCG
1 GGTGCCACCAACTTGTGTGGGCTTTGACTAG
* * *
3063615 GGTGTCGCCAACTTGTGCGGGCTTTGACTAG
1 GGTGCCACCAACTTGTGTGGGCTTTGACTAG
3063646 GGTGCCACCAACTTGTGTGGGCTTTGAC
1 GGTGCCACCAACTTGTGTGGGCTTTGAC
3063674 ATTCTAAGGC
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.14, C:0.26, G:0.32, T:0.28
Consensus pattern (31 bp):
GGTGCCACCAACTTGTGTGGGCTTTGACTAG
Found at i:3063788 original size:31 final size:31
Alignment explanation
Indices: 3063733--3063884 Score: 146
Period size: 31 Copynumber: 4.9 Consensus size: 31
3063723 CTCAAACTTA
*
3063733 GGTGCCACCAACTCATGTG-G-GCTTTTACTCG
1 GGTGCCACCAACT--TGTGCGAGCTTTGACTCG
** * *
3063764 GGTGCTGCCAACTTGTACGAGCTTTGACTTG
1 GGTGCCACCAACTTGTGCGAGCTTTGACTCG
**
3063795 GGTGCCACCAACTTGTGCGAGAATTGACTCG
1 GGTGCCACCAACTTGTGCGAGCTTTGACTCG
* * *
3063826 GGTACCACCAACTTGTGCGGGCTTTGACTAG
1 GGTGCCACCAACTTGTGCGAGCTTTGACTCG
* * * *
3063857 GGTGCCACTAACTCGTGTGGGCTTTGAC
1 GGTGCCACCAACTTGTGCGAGCTTTGAC
3063885 ATTCTAAGGC
Statistics
Matches: 99, Mismatches: 20, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
29 3 0.03
30 1 0.01
31 95 0.96
ACGTcount: A:0.18, C:0.26, G:0.29, T:0.28
Consensus pattern (31 bp):
GGTGCCACCAACTTGTGCGAGCTTTGACTCG
Found at i:3063798 original size:149 final size:144
Alignment explanation
Indices: 3063517--3063811 Score: 466
Period size: 149 Copynumber: 2.0 Consensus size: 144
3063507 CACCGTCTCA
* **
3063517 TGTGGGCTTTGACATTCTAAGGCTTAACCTCCTTAGACAGGTGCCAACTAATTTGGACTTGAACT
1 TGTGGGCTTTGACATTCTAAGGCTTAACCTCCTTAGACAAGTGCCAACTAACGTGGACTTGAACT
* *
3063582 TAGGTGCCACCAACTCATGTGGGCTTTGACTCGGGTGTCGCCAACTTGTGCGGGCTTTGACTAGG
66 TAGGTGCCACCAACTCATGTGGGCTTTGACTCGGGTGTCGCCAACTTGTACGAGCTTTGACTAGG
3063647 GTGCCACCAACTTG
131 GTGCCACCAACTTG
3063661 TGTGGGCTTTGACATTCTAAGGCTTAACCTCCTTAGACAAGTGCCAACTAACGTGGACTTGACTC
1 TGTGGGCTTTGACATTCTAAGGCTTAACCTCCTTAGACAAGTGCCAACTAACGTGGACTTG----
*
3063726 AAACTTAGGTGCCACCAACTCATGTGGGCTTTTACTCGGGTG-CTGCCAACTTGTACGAGCTTTG
62 -AACTTAGGTGCCACCAACTCATGTGGGCTTTGACTCGGGTGTC-GCCAACTTGTACGAGCTTTG
*
3063790 ACTTGGGTGCCACCAACTTG
125 ACTAGGGTGCCACCAACTTG
3063810 TG
1 TG
3063812 CGAGAATTGA
Statistics
Matches: 138, Mismatches: 7, Indels: 7
0.91 0.05 0.05
Matches are distributed among these distances:
144 58 0.42
148 1 0.01
149 79 0.57
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (144 bp):
TGTGGGCTTTGACATTCTAAGGCTTAACCTCCTTAGACAAGTGCCAACTAACGTGGACTTGAACT
TAGGTGCCACCAACTCATGTGGGCTTTGACTCGGGTGTCGCCAACTTGTACGAGCTTTGACTAGG
GTGCCACCAACTTG
Found at i:3063806 original size:62 final size:61
Alignment explanation
Indices: 3063728--3063884 Score: 172
Period size: 62 Copynumber: 2.5 Consensus size: 61
3063718 CTTGACTCAA
* * * **
3063728 ACTTAGGTGCCACCAACTCATGTGGGCTTTTACTCGGGTGCTGCCAACTTGTACGAGCTTTG
1 ACTTGGGTGCCACCAACTC-TGTGGGCTTTGACTCGGGTACCACCAACTTGTACGAGCTTTG
** * *
3063790 ACTTGGGTGCCACCAACT-TGTGCGAGAATTGACTCGGGTACCACCAACTTGTGCGGGCTTTG
1 ACTTGGGTGCCACCAACTCTGTG-G-GCTTTGACTCGGGTACCACCAACTTGTACGAGCTTTG
* *
3063852 ACTAGGGTGCCACTAACTCGTGTGGGCTTTGAC
1 ACTTGGGTGCCACCAACTC-TGTGGGCTTTGAC
3063885 ATTCTAAGGC
Statistics
Matches: 78, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
60 4 0.05
61 1 0.01
62 68 0.87
63 1 0.01
64 4 0.05
ACGTcount: A:0.18, C:0.25, G:0.28, T:0.28
Consensus pattern (61 bp):
ACTTGGGTGCCACCAACTCTGTGGGCTTTGACTCGGGTACCACCAACTTGTACGAGCTTTG
Found at i:3063922 original size:211 final size:211
Alignment explanation
Indices: 3063607--3064018 Score: 601
Period size: 211 Copynumber: 2.0 Consensus size: 211
3063597 CATGTGGGCT
** * *
3063607 TTGACTCGGGTGTCGCCAACTTGTGCGGGCTTTGACTAGGGTGCCACCAACTTGTGTGGGCTTTG
1 TTGACTCGGGTACCACCAACTTGTGCGGGCTTTGACTAGGGTGCCACCAACTCGTGTGGGCTTTG
3063672 ACATTCTAAGGCTTAACCTCCTTAGACAAGTGCCAACTAACGTGGACTTGAC-TCAAACTTAGGT
66 ACATTCTAAGGCTTAACCTCCTTAGACAAGTGCCAACTAACGTGGACTTGACTTC-AACTTAGGT
* * * ** *
3063736 GCCACCAACTCATGTGGGCTTTTACTCGGGTGCTGCCAACTTGTACGAGCTTTGACTTGGGTGCC
130 GCCACCAACTCATGTAGGCTTTGACTCGGGAGCCACCAACTTGTACGAGCTTTGACTAGGGTGCC
3063801 ACCAACTTGTGCGAGAA
195 ACCAACTTGTGCGAGAA
*
3063818 TTGACTCGGGTACCACCAACTTGTGCGGGCTTTGACTAGGGTGCCACTAACTCGTGTGGGCTTTG
1 TTGACTCGGGTACCACCAACTTGTGCGGGCTTTGACTAGGGTGCCACCAACTCGTGTGGGCTTTG
* * * * **
3063883 ACATTCTAAGGCTTAACCTTCTTAGATAGGTGGCAACTAATTTGGACTTGACTTCAACTTAGGTG
66 ACATTCTAAGGCTTAACCTCCTTAGACAAGTGCCAACTAACGTGGACTTGACTTCAACTTAGGTG
* * ** * *
3063948 CCACTAACTTATGTAGGCTTTGACTCGGGAGCCACCAACTTGTGTGGGTTTTGACTAGGGTGCCA
131 CCACCAACTCATGTAGGCTTTGACTCGGGAGCCACCAACTTGTACGAGCTTTGACTAGGGTGCCA
3064013 CCAACT
196 CCAACT
3064019 CGTGTGGGCT
Statistics
Matches: 177, Mismatches: 23, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
211 175 0.99
212 2 0.01
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.29
Consensus pattern (211 bp):
TTGACTCGGGTACCACCAACTTGTGCGGGCTTTGACTAGGGTGCCACCAACTCGTGTGGGCTTTG
ACATTCTAAGGCTTAACCTCCTTAGACAAGTGCCAACTAACGTGGACTTGACTTCAACTTAGGTG
CCACCAACTCATGTAGGCTTTGACTCGGGAGCCACCAACTTGTACGAGCTTTGACTAGGGTGCCA
CCAACTTGTGCGAGAA
Found at i:3063982 original size:31 final size:31
Alignment explanation
Indices: 3063947--3064033 Score: 111
Period size: 31 Copynumber: 2.8 Consensus size: 31
3063937 CAACTTAGGT
* * * *
3063947 GCCACTAACTTATGTAGGCTTTGACTCGGGA
1 GCCACCAACTTGTGTGGGCTTTGACTAGGGA
* *
3063978 GCCACCAACTTGTGTGGGTTTTGACTAGGGT
1 GCCACCAACTTGTGTGGGCTTTGACTAGGGA
*
3064009 GCCACCAACTCGTGTGGGCTTTGAC
1 GCCACCAACTTGTGTGGGCTTTGAC
3064034 ATTCTAAGGA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.18, C:0.24, G:0.29, T:0.29
Consensus pattern (31 bp):
GCCACCAACTTGTGTGGGCTTTGACTAGGGA
Found at i:3064069 original size:149 final size:149
Alignment explanation
Indices: 3063818--3064149 Score: 445
Period size: 149 Copynumber: 2.2 Consensus size: 149
3063808 TGTGCGAGAA
*
3063818 TTGACTCGGGTACCACCAACTTGTGCGGGCTTTGACTAGGGTGCCACTAACTCGTGTGGGCTTTG
1 TTGACTCGGGTACCACCAACTTGTGCGGGCTTTGACTAGGGTGCCACCAACTCGTGTGGGCTTTG
* * * * * *
3063883 ACATTCTAAGGCTTAACCTTCTTAGATAGGTGGCAACTAATTTGGACTTGACTTC-AACTTAGGT
66 ACATTCTAAGGATTAACCTTCTTAAACAAGTGCCAACTAATGTGGACTTGAC-TCAAACTTAGGT
* *
3063947 GCCACTAACTTATGTAGGCT
130 GCCACCAACTCATGTAGGCT
* *
3063967 TTGACTCGGG-AGCCACCAACTTGTGTGGGTTTTGACTAGGGTGCCACCAACTCGTGTGGGCTTT
1 TTGACTCGGGTA-CCACCAACTTGTGCGGGCTTTGACTAGGGTGCCACCAACTCGTGTGGGCTTT
*
3064031 GACATTCTAAGGATTAACC-TCTTCAAACAAGTGCCAACTAATGTGGCCTTGACTCAAACTTAGG
65 GACATTCTAAGGATTAACCTTCTT-AAACAAGTGCCAACTAATGTGGACTTGACTCAAACTTAGG
* *
3064095 TGCCACCAACTCGTGTGGGCT
129 TGCCACCAACTCATGTAGGCT
**** *
3064116 TTGACTCGGGTGTTGCCAACTTGTGCCGGCTTTG
1 TTGACTCGGGTACCACCAACTTGTGCGGGCTTTG
3064150 GAAAGGTTAG
Statistics
Matches: 158, Mismatches: 21, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
148 7 0.04
149 151 0.96
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.30
Consensus pattern (149 bp):
TTGACTCGGGTACCACCAACTTGTGCGGGCTTTGACTAGGGTGCCACCAACTCGTGTGGGCTTTG
ACATTCTAAGGATTAACCTTCTTAAACAAGTGCCAACTAATGTGGACTTGACTCAAACTTAGGTG
CCACCAACTCATGTAGGCT
Found at i:3064340 original size:14 final size:15
Alignment explanation
Indices: 3064315--3064343 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
3064305 CTTGCTCCTT
3064315 AAGGACAAAAGAAAA
1 AAGGACAAAAGAAAA
3064330 AAGGA-AAAAGAAAA
1 AAGGACAAAAGAAAA
3064344 GCGTCCTGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (15 bp):
AAGGACAAAAGAAAA
Found at i:3064441 original size:42 final size:42
Alignment explanation
Indices: 3064380--3064866 Score: 309
Period size: 42 Copynumber: 11.7 Consensus size: 42
3064370 AAAATCAGTA
* *
3064380 CGTCCTGCTTTTTGAGGACAAAGGAAAAAAGAGAATAAAATG
1 CGTCCTGCTCTTTGAGGACAAAGGAAAAAAGAGAATAAAGTG
* *
3064422 CGTCCTGCTCTTTGTGGACAAAGGAAAAAAG-GAAATGAAGTG
1 CGTCCTGCTCTTTGAGGACAAAGGAAAAAAGAG-AATAAAGTG
* *
3064464 TGTCCTACTCTTTGATGG-CAAAGGAGAAAAAGA-AATAAAGTG
1 CGTCCTGCTCTTTGA-GGACAAAGGA-AAAAAGAGAATAAAGTG
* * * * *
3064506 CATCTTGCTCTTTGAGGATAAAAGAGAAAAG-GAAATAAAGTG
1 CGTCCTGCTCTTTGAGGACAAAGGAAAAAAGAG-AATAAAGTG
* * *
3064548 CATCCTACTCTTTAAGGACAAAGGAAAAAAGGAGAATGAAA-TG
1 CGTCCTGCTCTTTGAGGACAAAGGAAAAAA-GAGAAT-AAAGTG
* * ** *
3064591 -GATCCTGCTCCTTAAGG--AAAGG--AAAA-AGAAGGAATTG
1 CG-TCCTGCTCTTTGAGGACAAAGGAAAAAAGAGAATAAAGTG
**
3064628 CGTCCTGCTCTTTGAGGACTAAAAGGTGAAAAG-GAAATAAAGTG
1 CGTCCTGCTCTTTGAGGAC--AAAGGAAAAAAGAG-AATAAAGTG
* * * **
3064672 CGTCTTGCTCTTTGAGGACAAAGG-GAATAGA-AGGAAA-TG
1 CGTCCTGCTCTTTGAGGACAAAGGAAAAAAGAGAATAAAGTG
* * **
3064711 CATCCTCCTCTTTGAGGACTAAAAGGTGAAAAG-GAAATAAAGTG
1 CGTCCTGCTCTTTGAGGAC--AAAGGAAAAAAGAG-AATAAAGTG
*
3064755 CGTCATGCTCTTTGAGGACAAAAGGAAAAGAAG-G---AAA-TG
1 CGTCCTGCTCTTTGAGGAC-AAAGGAAAA-AAGAGAATAAAGTG
* ** * *
3064794 CATTTTGCTCTTTGAGGGCTTAAA-GATGAAAAG-GAAATAAAGTG
1 CGTCCTGCTCTTTGAGGAC--AAAGGA-AAAAAGAG-AATAAAGTG
*
3064838 CGTCCTGCTCTTTGAGGACAAAGGGAAAA
1 CGTCCTGCTCTTTGAGGACAAAGGAAAAA
3064867 GAAGGAAATA
Statistics
Matches: 350, Mismatches: 58, Indels: 74
0.73 0.12 0.15
Matches are distributed among these distances:
36 2 0.01
37 19 0.05
38 1 0.00
39 45 0.13
40 12 0.03
41 28 0.08
42 128 0.37
43 48 0.14
44 67 0.19
ACGTcount: A:0.39, C:0.13, G:0.26, T:0.22
Consensus pattern (42 bp):
CGTCCTGCTCTTTGAGGACAAAGGAAAAAAGAGAATAAAGTG
Found at i:3064706 original size:83 final size:82
Alignment explanation
Indices: 3064380--3064904 Score: 483
Period size: 83 Copynumber: 6.3 Consensus size: 82
3064370 AAAATCAGTA
* * * * *
3064380 CGTCCTGCTTTTTGAGGAC-AAAGG-AAAAAAGAGAATAAAATGCGTCCTGCTCTTTGTGGACAA
1 CGTCCTGCTCTTTGAGGACTAAAGGTGAAAAGGA-AATAAAGTGCGTCCTGCTCTTTGAGGACAA
* * *
3064443 AGGAAAAAAGGAAATGAAGTG
65 AGG-GAAAA-G-AAGGAAATG
* * * * * * *
3064464 TGTCCTACTCTTTGATGG-C-AAAGGAGAAAAAGAAATAAAGTGCATCTTGCTCTTTGAGGATAA
1 CGTCCTGCTCTTTGA-GGACTAAAGGTGAAAAGGAAATAAAGTGCGTCCTGCTCTTTGAGGA-CA
* **
3064527 AAGAGAAAAGGAAATAAAGTG
64 AAGGGAAAA-GAAGGAAA-TG
* * * ** * *
3064548 CATCCTACTCTTTAAGGAC-AAAGGAAAAAAGGAGAATGAAA-TG-GATCCTGCTCCTTAAGG--
1 CGTCCTGCTCTTTGAGGACTAAAGGTGAAAAGGA-AAT-AAAGTGCG-TCCTGCTCTTTGAGGAC
* *
3064608 AAAGGAAAAAGAAGGAATTG
63 AAAGGGAAAAGAAGGAAATG
*
3064628 CGTCCTGCTCTTTGAGGACTAAAAGGTGAAAAGGAAATAAAGTGCGTCTTGCTCTTTGAGGACAA
1 CGTCCTGCTCTTTGAGGACT-AAAGGTGAAAAGGAAATAAAGTGCGTCCTGCTCTTTGAGGACAA
*
3064693 AGGGAATAGAAGGAAATG
65 AGGGAAAAGAAGGAAATG
* * *
3064711 CATCCTCCTCTTTGAGGACTAAAAGGTGAAAAGGAAATAAAGTGCGTCATGCTCTTTGAGGACAA
1 CGTCCTGCTCTTTGAGGACT-AAAGGTGAAAAGGAAATAAAGTGCGTCCTGCTCTTTGAGGACAA
*
3064776 AAGGAAAAGAAGGAAATG
65 AGGGAAAAGAAGGAAATG
* ** * *
3064794 CATTTTGCTCTTTGAGGGCTTAAAGATGAAAAGGAAATAAAGTGCGTCCTGCTCTTTGAGGACAA
1 CGTCCTGCTCTTTGAGGAC-TAAAGGTGAAAAGGAAATAAAGTGCGTCCTGCTCTTTGAGGACAA
*
3064859 AGGGAAAAGAAGGAAATA
65 AGGGAAAAGAAGGAAATG
* *
3064877 TGTCCTGTTCTTTGAGGACTAAAAGGTG
1 CGTCCTGCTCTTTGAGGACT-AAAGGTG
3064905 TCATGGAGTT
Statistics
Matches: 366, Mismatches: 59, Indels: 33
0.80 0.13 0.07
Matches are distributed among these distances:
80 21 0.06
81 22 0.06
82 22 0.06
83 193 0.53
84 75 0.20
85 30 0.08
86 3 0.01
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.23
Consensus pattern (82 bp):
CGTCCTGCTCTTTGAGGACTAAAGGTGAAAAGGAAATAAAGTGCGTCCTGCTCTTTGAGGACAAA
GGGAAAAGAAGGAAATG
Found at i:3064745 original size:39 final size:39
Alignment explanation
Indices: 3064619--3064904 Score: 186
Period size: 44 Copynumber: 6.9 Consensus size: 39
3064609 AAGGAAAAAG
*
3064619 AAGGAATTGCGTCCTGCTCTTTGAGGACTAAAAGGTGAA
1 AAGGAAATGCGTCCTGCTCTTTGAGGACTAAAAGGTGAA
*
3064658 AAGGAAATAAAGTGCGTCTTGCTCTTTGAGGAC--AAAGG-GAATA
1 AAGG----AAA-TGCGTCCTGCTCTTTGAGGACTAAAAGGTG-A-A
* *
3064701 GAAGGAAATGCATCCTCCTCTTTGAGGACTAAAAGGTGAA
1 -AAGGAAATGCGTCCTGCTCTTTGAGGACTAAAAGGTGAA
* **
3064741 AAGGAAATAAAGTGCGTCATGCTCTTTGAGGAC-AAAAGGAAAA
1 AAGG----AAA-TGCGTCCTGCTCTTTGAGGACTAAAAGGTGAA
* ** * * *
3064784 GAAGGAAATGCATTTTGCTCTTTGAGGGCTTAAAGATGAA
1 -AAGGAAATGCGTCCTGCTCTTTGAGGACTAAAAGGTGAA
* **
3064824 AAGGAAATAAAGTGCGTCCTGCTCTTTGAGGAC-AAAGGGAAAA
1 AAGG----AAA-TGCGTCCTGCTCTTTGAGGACTAAAAGGTGAA
** *
3064867 GAAGGAAATATGTCCTGTTCTTTGAGGACTAAAAGGTG
1 -AAGGAAATGCGTCCTGCTCTTTGAGGACTAAAAGGTG
3064905 TCATGGAGTT
Statistics
Matches: 189, Mismatches: 33, Indels: 49
0.70 0.12 0.18
Matches are distributed among these distances:
39 65 0.34
40 21 0.11
41 7 0.04
42 7 0.04
43 22 0.12
44 67 0.35
ACGTcount: A:0.36, C:0.13, G:0.27, T:0.24
Consensus pattern (39 bp):
AAGGAAATGCGTCCTGCTCTTTGAGGACTAAAAGGTGAA
Found at i:3064954 original size:33 final size:34
Alignment explanation
Indices: 3064897--3064967 Score: 92
Period size: 33 Copynumber: 2.1 Consensus size: 34
3064887 TTTGAGGACT
* *
3064897 AAAA-GGTGTCATGGAGTTATGGAC-TTAAAAGA
1 AAAAGGGTGCCATGAAGTTATGGACTTTAAAAGA
* *
3064929 AAAAGGGTGCCATGAAGTTGTGGACTTTAAAAGG
1 AAAAGGGTGCCATGAAGTTATGGACTTTAAAAGA
3064963 AAAAG
1 AAAAG
3064968 TGCCACTGGG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 4 0.12
33 17 0.52
34 12 0.36
ACGTcount: A:0.41, C:0.07, G:0.30, T:0.23
Consensus pattern (34 bp):
AAAAGGGTGCCATGAAGTTATGGACTTTAAAAGA
Found at i:3073712 original size:20 final size:21
Alignment explanation
Indices: 3073687--3073739 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
3073677 ATTTTAAGCC
3073687 TGTATCGATACATTCACT-TA
1 TGTATCGATACATTCACTATA
* *
3073707 TGTATCGATACATTTACTATT
1 TGTATCGATACATTCACTATA
*
3073728 TATATCGATACA
1 TGTATCGATACA
3073740 AATTGTAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.32, C:0.17, G:0.09, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATTCACTATA
Found at i:3075264 original size:166 final size:168
Alignment explanation
Indices: 3074848--3075295 Score: 460
Period size: 168 Copynumber: 2.7 Consensus size: 168
3074838 TTCGAAAGGA
* * * * * * * * * *
3074848 TTTTCATCGGTTTAAATTTTTTAAAATTCATCAAATATTATTATCTAA-TCACCATTAAATTAGT
1 TTTTC-TCGGTTCAAAATTTTTAATATTCATCAAATATCATCATTTAATTCA-TAATAAATCAAT
* * * * * * * * * *
3074912 GTTGAAAAATTCCTTT-TATTTCATCAAATTTT-CTTTTTTTTCCTTGACATTTTCTGTTTTTGA
64 TTTGAAAAATTCATTTAT-TTTCAT-GACTTTTGCATTTTTTTCCTTGAAATTCTCTGCTTCTAA
* *
3074975 AAAACCGAGTTATTTCATTCCATAAAGGTTTTTTGGGGGGGG
127 AAAACCGAGTTATTTCATTCCATAAAGGTTTTTCGGGAGGGG
* * *
3075017 TTTTCTCGGTTCAAAATTTTTAATATTCATCAAATATTATCATTTAATTCATAATAAATTAGTTT
1 TTTTCTCGGTTCAAAATTTTTAATATTCATCAAATATCATCATTTAATTCATAATAAATCAATTT
3075082 TGAAAAATTCATTTATTTTCATGACTTTTGCATTTTTTTCCTTGAAATTCTCTCGCTTCTAAAAA
66 TGAAAAATTCATTTATTTTCATGACTTTTGCATTTTTTTCCTTGAAATTCTCT-GCTTCTAAAAA
* *
3075147 ACTGAG-T-TTTCTATTCCATAAAGG-TTTTCGGGAGGGT
130 ACCGAGTTATTTC-ATTCCATAAAGGTTTTTCGGGAGGGG
* * * * * *
3075184 TTTTCTCTGTTCTAAATTTTTGATATTTATTAAATATCATCA-TTAATTCATAGTAAATCAATTT
1 TTTTCTCGGTTCAAAATTTTTAATATTCATCAAATATCATCATTTAATTCATAATAAATCAATTT
* * * *
3075248 TGAAAAATTTATTTATTTTCATGAGTTTTTCATTTTCTTCCTTGAAAT
66 TGAAAAATTCATTTATTTTCATGACTTTTGCATTTTTTTCCTTGAAAT
3075296 GCCTATGTTT
Statistics
Matches: 240, Mismatches: 34, Indels: 13
0.84 0.12 0.05
Matches are distributed among these distances:
166 63 0.26
167 55 0.23
168 100 0.42
169 22 0.09
ACGTcount: A:0.29, C:0.13, G:0.10, T:0.48
Consensus pattern (168 bp):
TTTTCTCGGTTCAAAATTTTTAATATTCATCAAATATCATCATTTAATTCATAATAAATCAATTT
TGAAAAATTCATTTATTTTCATGACTTTTGCATTTTTTTCCTTGAAATTCTCTGCTTCTAAAAAA
CCGAGTTATTTCATTCCATAAAGGTTTTTCGGGAGGGG
Found at i:3075331 original size:166 final size:168
Alignment explanation
Indices: 3074714--3075443 Score: 467
Period size: 166 Copynumber: 4.4 Consensus size: 168
3074704 AAAATTCTTT
* * ** * * *
3074714 AAATATCATCATTTAATT-ATCATCAAATCAGTTTCAAAAAATTCATTT-TTTCCATGAGTTTTT
1 AAATATCATCATTTAATTCATAAT-AAATCAATTTTGAAAAATTCATTTATTTTCATGACTTTTG
* * * * * **
3074777 TATTTTCTT--TTGAAATTCCTCTTG-TTTTCAAAATACGAGATTTT-CTTCTCCAT-AATTTGT
65 CATTTTCTTCCTTGAAA-TGCTCTTGTTTTTGAAAAAACGAG-TTTTCCAT-TCCATAAAGGT-T
* * * * * *
3074837 TTTC-GAAAGGATTTTCATCGGTTTAAATTTTTTAAAATTCATC
126 TTTCGGGAGGGGTTTTC-TCGGTTCAAAATTTTTAATATTCATC
* * * * * * * * * * *
3074880 AAATATTATTATCTAA-TCACCATTAAATTAGTGTTGAAAAATTCCTTT-TATTTCATCAAATTT
1 AAATATCATCATTTAATTCA-TAATAAATCAATTTTGAAAAATTCATTTAT-TTTCAT-GACTTT
* * * ** * *
3074943 T-CTTTTTTTTCCTTGACATTTTC-TGTTTTTGAAAAACCGAGTTATTTCATTCCATAAAGGTTT
63 TGCATTTTCTTCCTTGAAATGCTCTTGTTTTTGAAAAAACGAGTT-TTCCATTCCATAAAGGTTT
* *
3075006 TTTGGGGGGGGTTTTCTCGGTTCAAAATTTTTAATATTCATC
127 TTCGGGAGGGGTTTTCTCGGTTCAAAATTTTTAATATTCATC
* * *
3075048 AAATATTATCATTTAATTCATAATAAATTAGTTTTGAAAAATTCATTTATTTTCATGACTTTTGC
1 AAATATCATCATTTAATTCATAATAAATCAATTTTGAAAAATTCATTTATTTTCATGACTTTTGC
* * * * * *
3075113 ATTTTTTTCCTTGAAATTCTCTCGCTTCT-AAAAAACTGAGTTTTCTATTCCATAAAGG-TTTTC
66 ATTTTCTTCCTTGAAATGCTCTTGTTTTTGAAAAAAC-GAGTTTTCCATTCCATAAAGGTTTTTC
* * * * * *
3075176 GGGAGGGTTTTTCTCTGTTCTAAATTTTTGATATTTATT
130 GGGAGGGGTTTTCTCGGTTCAAAATTTTTAATATTCATC
* * * *
3075215 AAATATCATCA-TTAATTCATAGTAAATCAATTTTGAAAAATTTATTTATTTTCATGAGTTTTTC
1 AAATATCATCATTTAATTCATAATAAATCAATTTTGAAAAATTCATTTATTTTCATGACTTTTGC
* **
3075279 ATTTTCTTCCTTGAAATGC-CTATGTTTTTGAAAAATCGAACTTTCCATTCCATAAA--TATTTT
66 ATTTTCTTCCTTGAAATGCTCT-TGTTTTTGAAAAAACGAGTTTTCCATTCCATAAAGGT-TTTT
** * * *
3075341 C-AAAGGGATTTTCTTCGGTTTAAAATTTTTAGA-ACTCATC
129 CGGGAGGGGTTTTC-TCGGTTCAAAATTTTTA-ATATTCATC
* ** * * * ** * * *
3075381 TAATATTGTTATTAAACTCCCATTAAATCAGTTTTGAAAAATTCAATTTATTTT-ATGAATTTT
1 AAATATCATCATTTAATTCATAATAAATCAATTTTGAAAAATTC-ATTTATTTTCATGACTTTT
3075444 ATTTTTTTTA
Statistics
Matches: 443, Mismatches: 97, Indels: 47
0.75 0.17 0.08
Matches are distributed among these distances:
165 12 0.03
166 147 0.33
167 107 0.24
168 146 0.33
169 31 0.07
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.47
Consensus pattern (168 bp):
AAATATCATCATTTAATTCATAATAAATCAATTTTGAAAAATTCATTTATTTTCATGACTTTTGC
ATTTTCTTCCTTGAAATGCTCTTGTTTTTGAAAAAACGAGTTTTCCATTCCATAAAGGTTTTTCG
GGAGGGGTTTTCTCGGTTCAAAATTTTTAATATTCATC
Found at i:3075990 original size:22 final size:22
Alignment explanation
Indices: 3075941--3075997 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
3075931 GAAGAAGTCA
*
3075941 AGAGAAAAAGGAAGAAGAAAAG
1 AGAGAAAAAGAAAGAAGAAAAG
*
3075963 AAAGAAAAAGAAAGAA-AGAAAG
1 AGAGAAAAAGAAAGAAGA-AAAG
*
3075985 GGAGAAAATAGAA
1 AGAGAAAA-AGAA
3075998 CAAATAAGCC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 1 0.03
22 24 0.83
23 4 0.14
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (22 bp):
AGAGAAAAAGAAAGAAGAAAAG
Found at i:3077241 original size:142 final size:139
Alignment explanation
Indices: 3076953--3077268 Score: 411
Period size: 142 Copynumber: 2.3 Consensus size: 139
3076943 ATAGGTATCC
* * * *
3076953 GTGGGGGTAT-GAAAATTTTCAAAACTTTTCGTATTTTTTTAGTTCTCCATTAAGGTCGAAATGT
1 GTGGGGGTATAG-AAATTTTCAAAACTTTTCGTATCTTTTCAGTTCTCCATTAAGCTCGAAATGA
* * *
3077017 ATTTTTGGAAATTAAAAATTAAATAAAAATTATTATCCTAATTTTTCAAGATTTCTAATATTCCC
65 ATTTTTGGAAATTAAAAATTAAATAAAAATTATTATCCTAAATTTTCAAGATTTCTAATAATCAC
3077082 ATGGTCTTCG
130 ATGGTCTTCG
* * * *
3077092 GTAGGGGTATAGAAATTTTCAAAAGTTTTCGTATCTTTTCGGTTCTCTATTAAGCTACGAAATGA
1 GTGGGGGTATAGAAATTTTCAAAACTTTTCGTATCTTTTCAGTTCTCCATTAAGCT-CGAAATGA
**
3077157 ATTTTTTGGAAATTAGAAAATTAAATAAAAATTATTATTTTAAATTTTCAAGATTTCTAATAATC
65 A-TTTTTGGAAATTA-AAAATTAAATAAAAATTATTATCCTAAATTTTCAAGATTTCTAATAATC
** *
3077222 ATGTGGTTCTT-T
128 ACATGG-TCTTCG
* *
3077234 GTGGGGGTATAGAAATTTTTAAAACTTTTTGTATC
1 GTGGGGGTATAGAAATTTTCAAAACTTTTCGTATC
3077269 CTATGGTTTT
Statistics
Matches: 152, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
139 47 0.31
140 9 0.06
141 13 0.09
142 79 0.52
143 4 0.03
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.43
Consensus pattern (139 bp):
GTGGGGGTATAGAAATTTTCAAAACTTTTCGTATCTTTTCAGTTCTCCATTAAGCTCGAAATGAA
TTTTTGGAAATTAAAAATTAAATAAAAATTATTATCCTAAATTTTCAAGATTTCTAATAATCACA
TGGTCTTCG
Found at i:3088940 original size:87 final size:86
Alignment explanation
Indices: 3088845--3089079 Score: 247
Period size: 87 Copynumber: 2.7 Consensus size: 86
3088835 CAACTCAATG
* * **
3088845 GCACCCTTCTCAAAGTCCACAACTTAGTGGCACCTTTTTCAAAGTCTACGACTCAATGGCATTCT
1 GCACCCTTCTCAAAGTCCAC-ACTTAGTGGCACCTTTTT-AAAGTCCATGACTCAATGGCACACT
* *
3088910 TTTCAAAGTCTATGACATAGTGA
64 TCTCAAAGTCCATGACATAGTGA
* * * * * *
3088933 -CATCCTTCTCAAAGTCCATCACTCAGTAGCACCTTTCTTAAAGTCCATGACTCAGTGCCCCACT
1 GCACCCTTCTCAAAGTCCA-CACTTAGTGGCACCTTT-TTAAAGTCCATGACTCAATGGCACACT
* * *
3088997 TCTCGAAGTCCATGACTTAGTTA
64 TCTCAAAGTCCATGACATAGTGA
* **
3089020 GCACCCTTCTCAAAGTTCAGGGCTTAGTGGCACCCTTTTTAAAGTCCATGACTCAATGGC
1 GCACCCTTCTCAAAGTCCA-CACTTAGTGGCA-CCTTTTTAAAGTCCATGACTCAATGGC
3089080 CCACGACTTA
Statistics
Matches: 119, Mismatches: 24, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
87 67 0.56
88 47 0.39
89 5 0.04
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (86 bp):
GCACCCTTCTCAAAGTCCACACTTAGTGGCACCTTTTTAAAGTCCATGACTCAATGGCACACTTC
TCAAAGTCCATGACATAGTGA
Found at i:3089079 original size:29 final size:29
Alignment explanation
Indices: 3088785--3089079 Score: 164
Period size: 29 Copynumber: 10.1 Consensus size: 29
3088775 CTCTAGTGGA
* ** *
3088785 GGCACTCTTTTGCAAAGTCCACAACTCAAT
1 GGCACCCTTTT-CAAAGTCCATGACTCAGT
* * * * ** *
3088815 GTCACCTTTTTTAAGGTCCACAACTCAAT
1 GGCACCCTTTTCAAAGTCCATGACTCAGT
* ** *
3088844 GGCACCCTTCTCAAAGTCCACAACTTAGT
1 GGCACCCTTTTCAAAGTCCATGACTCAGT
* * * *
3088873 GGCACCTTTTTCAAAGTCTACGACTCAAT
1 GGCACCCTTTTCAAAGTCCATGACTCAGT
** *
3088902 GGCATTCTTTTCAAAGTCTATGACAT-AGT
1 GGCACCCTTTTCAAAGTCCATGAC-TCAGT
* * * *
3088931 GACATCCTTCTCAAAGTCCATCACTCAGT
1 GGCACCCTTTTCAAAGTCCATGACTCAGT
* *
3088960 AGCA-CCTTTCTTAAAGTCCATGACTCAGT
1 GGCACCCTTT-TCAAAGTCCATGACTCAGT
* * * *
3088989 -GCCCCACTTCTCGAAGTCCATGACTTAGTT
1 GGCACC-CTTTTCAAAGTCCATGACTCAG-T
* * * * * *
3089019 AGCACCCTTCTCAAAGTTCAGGGCTTAGT
1 GGCACCCTTTTCAAAGTCCATGACTCAGT
* *
3089048 GGCACCCTTTTTAAAGTCCATGACTCAAT
1 GGCACCCTTTTCAAAGTCCATGACTCAGT
3089077 GGC
1 GGC
3089080 CCACGACTTA
Statistics
Matches: 207, Mismatches: 51, Indels: 15
0.76 0.19 0.05
Matches are distributed among these distances:
28 7 0.03
29 165 0.80
30 31 0.15
31 4 0.02
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (29 bp):
GGCACCCTTTTCAAAGTCCATGACTCAGT
Found at i:3089130 original size:29 final size:29
Alignment explanation
Indices: 3089084--3089223 Score: 137
Period size: 29 Copynumber: 5.0 Consensus size: 29
3089074 AATGGCCCAC
*
3089084 GACTTAGTGG-AACCCTTCTCAAAGTCCAT
1 GACTCAGTGGCAA-CCTTCTCAAAGTCCAT
* *
3089113 AACTCAATGGCAACCTTCTCAAAGTCC--
1 GACTCAGTGGCAACCTTCTCAAAGTCCAT
* *
3089140 -ACTTAGTGGC-ATCTTCTCAAAGTCCAT
1 GACTCAGTGGCAACCTTCTCAAAGTCCAT
* * * *
3089167 GACTTAGTGGCACCCTTTTCAATGTCCAT
1 GACTCAGTGGCAACCTTCTCAAAGTCCAT
* *
3089196 GACTCAGTGGCACCCTTTTCAAAGTCCA
1 GACTCAGTGGCAACCTTCTCAAAGTCCA
3089224 CAAAGCTGGT
Statistics
Matches: 94, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
25 14 0.15
26 8 0.09
28 10 0.11
29 60 0.64
30 2 0.02
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (29 bp):
GACTCAGTGGCAACCTTCTCAAAGTCCAT
Found at i:3089326 original size:32 final size:32
Alignment explanation
Indices: 3089202--3089414 Score: 173
Period size: 32 Copynumber: 7.0 Consensus size: 32
3089192 CCATGACTCA
*
3089202 GTGGCACCCTTT-TCAAAGTC--CACAAAGCTG
1 GTGGCATCCTTTCTCAAAGTCTGCAC-AAGCTG
* * *
3089232 GTGGCATCCTTTCTCAAAGCCTGCACGAGCTA
1 GTGGCATCCTTTCTCAAAGTCTGCACAAGCTG
** * * **
3089264 GCAGCA-CC---C-AAAAGCCCACACAAGCTG
1 GTGGCATCCTTTCTCAAAGTCTGCACAAGCTG
*
3089291 GTGGCATCCTTTCTCAAAGTCTGCATAAGCTG
1 GTGGCATCCTTTCTCAAAGTCTGCACAAGCTG
*
3089323 GTGGCATCCTTTCTCAAAGTCTGCACGAGCTG
1 GTGGCATCCTTTCTCAAAGTCTGCACAAGCTG
* * *
3089355 GTGGCA--C---CTAAAAGCCTACACAAGCTG
1 GTGGCATCCTTTCTCAAAGTCTGCACAAGCTG
**
3089382 GTGGCATCCTTTCTCAAAGTCCACACAAGCTG
1 GTGGCATCCTTTCTCAAAGTCTGCACAAGCTG
3089414 G
1 G
3089415 CGAAACCCAA
Statistics
Matches: 143, Mismatches: 27, Indels: 24
0.74 0.14 0.12
Matches are distributed among these distances:
27 39 0.27
28 3 0.02
29 1 0.01
30 12 0.08
31 10 0.07
32 75 0.52
33 3 0.02
ACGTcount: A:0.26, C:0.31, G:0.22, T:0.22
Consensus pattern (32 bp):
GTGGCATCCTTTCTCAAAGTCTGCACAAGCTG
Found at i:3089330 original size:91 final size:90
Alignment explanation
Indices: 3089202--3089414 Score: 320
Period size: 91 Copynumber: 2.4 Consensus size: 90
3089192 CCATGACTCA
*
3089202 GTGGCACCCTTT-TCAAAGTCCACAAAGCTGGTGGCATCCTTTCTCAAAGCCTGCACGAGCTAGC
1 GTGGCATCCTTTCTCAAAGTCCACAAAGCTGGTGGCATCCTTTCTCAAAGCCTGCACGAGCTAGC
3089266 AGCACCCAAAAGCCCACACAAGCTG
66 AGCACCCAAAAGCCCACACAAGCTG
** * *
3089291 GTGGCATCCTTTCTCAAAGTCTGCATAAGCTGGTGGCATCCTTTCTCAAAGTCTGCACGAGCTGG
1 GTGGCATCCTTTCTCAAAGTCCACA-AAGCTGGTGGCATCCTTTCTCAAAGCCTGCACGAGCTAG
** * *
3089356 TGGCACCTAAAAGCCTACACAAGCTG
65 CAGCACCCAAAAGCCCACACAAGCTG
3089382 GTGGCATCCTTTCTCAAAGTCCACACAAGCTGG
1 GTGGCATCCTTTCTCAAAGTCCACA-AAGCTGG
3089415 CGAAACCCAA
Statistics
Matches: 110, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
89 11 0.10
90 10 0.09
91 89 0.81
ACGTcount: A:0.26, C:0.31, G:0.22, T:0.22
Consensus pattern (90 bp):
GTGGCATCCTTTCTCAAAGTCCACAAAGCTGGTGGCATCCTTTCTCAAAGCCTGCACGAGCTAGC
AGCACCCAAAAGCCCACACAAGCTG
Found at i:3089413 original size:59 final size:59
Alignment explanation
Indices: 3089317--3089437 Score: 170
Period size: 59 Copynumber: 2.1 Consensus size: 59
3089307 AAGTCTGCAT
** * * ** * *
3089317 AAGCTGGTGGCATCCTTTCTCAAAGTCTGCACGAGCTGGTGGCACCTAAAAGCCTACAC
1 AAGCTGGTGGCATCCTTTCTCAAAGTCCACACAAGCTGGCGAAACCCAAAAGCCCACAC
3089376 AAGCTGGTGGCATCCTTTCTCAAAGTCCACACAAGCTGGCGAAACCCAAAAGCCCACAC
1 AAGCTGGTGGCATCCTTTCTCAAAGTCCACACAAGCTGGCGAAACCCAAAAGCCCACAC
3089435 AAG
1 AAG
3089438 TCGATGGCAT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.30, C:0.31, G:0.21, T:0.18
Consensus pattern (59 bp):
AAGCTGGTGGCATCCTTTCTCAAAGTCCACACAAGCTGGCGAAACCCAAAAGCCCACAC
Found at i:3089730 original size:52 final size:51
Alignment explanation
Indices: 3089599--3089845 Score: 196
Period size: 52 Copynumber: 4.7 Consensus size: 51
3089589 TCTCCCAAGC
* * * * * *
3089599 CCAATGTCACTAGCCTTTAATCAGCACATTGGCACCCTTCT-TTC-TCAAG
1 CCAATGTCATTGGCCTTGAATCAGCACATTGGCACCCTTATCATCTTTAAG
* * *
3089648 CCTAATGTCATTGGTCATGAATCAACACATTGGCACCCTTATCATCTTTAAG
1 CC-AATGTCATTGGCCTTGAATCAGCACATTGGCACCCTTATCATCTTTAAG
* * * *
3089700 TCCAATGTCACTGGCCTTGAATTAGTACATTGGCA--CTTGTCAAACCTTCTTTCTCAAG
1 -CCAATGTCATTGGCCTTGAATCAGCACATTGGCACCCTTATC--A---TC-TT-T-AAG
* * * *
3089758 CCTAATGTTATTGGCCATGAATCAACACATTGGCACCTTTATCATCTTTAAG
1 CC-AATGTCATTGGCCTTGAATCAGCACATTGGCACCCTTATCATCTTTAAG
*
3089810 TCCAATGTCATTGGCCTTGAATTAGCACATTGGCAC
1 -CCAATGTCATTGGCCTTGAATCAGCACATTGGCAC
3089846 TTGTCAAACC
Statistics
Matches: 154, Mismatches: 28, Indels: 29
0.73 0.13 0.14
Matches are distributed among these distances:
49 2 0.01
50 37 0.24
51 2 0.01
52 63 0.41
53 5 0.03
54 2 0.01
55 4 0.03
56 2 0.01
57 3 0.02
58 30 0.19
60 4 0.03
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (51 bp):
CCAATGTCATTGGCCTTGAATCAGCACATTGGCACCCTTATCATCTTTAAG
Found at i:3089779 original size:58 final size:58
Alignment explanation
Indices: 3089703--3089873 Score: 187
Period size: 58 Copynumber: 3.1 Consensus size: 58
3089693 CTTTAAGTCC
* *
3089703 AATGTCACTGGCCTTGAATTAGTACATTGGCACTTGTCAAACCTTCTTTCTCAAGCCT
1 AATGTCATTGGCCTTGAATTAGCACATTGGCACTTGTCAAACCTTCTTTCTCAAGCCT
* * * * * *
3089761 AATGTTATTGGCCATGAATCAACACATTGGCACCTT-T---ATCATC-TT-T-AAGTCC-
1 AATGTCATTGGCCTTGAATTAGCACATTGGCA-CTTGTCAAACCTTCTTTCTCAAG-CCT
*
3089813 AATGTCATTGGCCTTGAATTAGCACATTGGCACTTGTCAAACCTTTTTTCTCAAGCCT
1 AATGTCATTGGCCTTGAATTAGCACATTGGCACTTGTCAAACCTTCTTTCTCAAGCCT
3089871 AAT
1 AAT
3089874 TTTACTATCA
Statistics
Matches: 88, Mismatches: 15, Indels: 20
0.72 0.12 0.16
Matches are distributed among these distances:
51 3 0.03
52 32 0.36
53 3 0.03
54 2 0.02
55 7 0.08
56 2 0.02
57 3 0.03
58 33 0.38
59 3 0.03
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (58 bp):
AATGTCATTGGCCTTGAATTAGCACATTGGCACTTGTCAAACCTTCTTTCTCAAGCCT
Found at i:3089827 original size:110 final size:110
Alignment explanation
Indices: 3089634--3089917 Score: 471
Period size: 110 Copynumber: 2.6 Consensus size: 110
3089624 ACATTGGCAC
*
3089634 CCTTCTTTCTCAAGCCTAATGTCATTGGTCATGAATCAACACATTGGCACCCTTATCATCTTTAA
1 CCTTCTTTCTCAAGCCTAATGTTATTGGTCATGAATCAACACATTGGCACCCTTATCATCTTTAA
*
3089699 GTCCAATGTCACTGGCCTTGAATTAGTACATTGGCACTTGTCAAA
66 GTCCAATGTCACTGGCCTTGAATTAGCACATTGGCACTTGTCAAA
* *
3089744 CCTTCTTTCTCAAGCCTAATGTTATTGGCCATGAATCAACACATTGGCACCTTTATCATCTTTAA
1 CCTTCTTTCTCAAGCCTAATGTTATTGGTCATGAATCAACACATTGGCACCCTTATCATCTTTAA
*
3089809 GTCCAATGTCATTGGCCTTGAATTAGCACATTGGCACTTGTCAAA
66 GTCCAATGTCACTGGCCTTGAATTAGCACATTGGCACTTGTCAAA
* * * * *
3089854 CCTTTTTTCTCAAGCCTAATTTTACT-ATCATGAATCAGCACATTGGCACCCTTATCATCTTTAA
1 CCTTCTTTCTCAAGCCTAATGTTATTGGTCATGAATCAACACATTGGCACCCTTATCATCTTTAA
3089918 ATCTAATATT
Statistics
Matches: 162, Mismatches: 12, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
109 34 0.21
110 128 0.79
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.35
Consensus pattern (110 bp):
CCTTCTTTCTCAAGCCTAATGTTATTGGTCATGAATCAACACATTGGCACCCTTATCATCTTTAA
GTCCAATGTCACTGGCCTTGAATTAGCACATTGGCACTTGTCAAA
Found at i:3093902 original size:30 final size:31
Alignment explanation
Indices: 3093868--3093930 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
3093858 CCTTACAACA
3093868 CTATCTTTT-A-AGGCTAAAATAGAAACCTCT
1 CTATCTTTTCACAGGCTAAAATAG-AACCTCT
* *
3093898 CTATCTTTTCACGGGCTAAGATAGAACCTCT
1 CTATCTTTTCACAGGCTAAAATAGAACCTCT
3093929 CT
1 CT
3093931 CCCTATCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 9 0.31
31 10 0.34
32 10 0.34
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (31 bp):
CTATCTTTTCACAGGCTAAAATAGAACCTCT
Found at i:3097788 original size:21 final size:21
Alignment explanation
Indices: 3097763--3097807 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
3097753 ATTTTGTAAC
*
3097763 TCATTTCTTTTCTCCTCTAAT
1 TCATTTATTTTCTCCTCTAAT
**
3097784 TCATTTATTTTCTTTTCTAAT
1 TCATTTATTTTCTCCTCTAAT
3097805 TCA
1 TCA
3097808 CTTAATATCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.18, C:0.22, G:0.00, T:0.60
Consensus pattern (21 bp):
TCATTTATTTTCTCCTCTAAT
Found at i:3097818 original size:21 final size:21
Alignment explanation
Indices: 3097778--3097821 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
3097768 TCTTTTCTCC
* * *
3097778 TCTAATTCATTTATTTTCTTT
1 TCTAATTCACTTAATATCTTT
3097799 TCTAATTCACTTAATATCTTT
1 TCTAATTCACTTAATATCTTT
3097820 TC
1 TC
3097822 AAGAATATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.18, G:0.00, T:0.59
Consensus pattern (21 bp):
TCTAATTCACTTAATATCTTT
Found at i:3103855 original size:13 final size:13
Alignment explanation
Indices: 3103837--3103862 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3103827 AATTAATTTA
3103837 TAAGCAAGCTTTG
1 TAAGCAAGCTTTG
3103850 TAAGCAAGCTTTG
1 TAAGCAAGCTTTG
3103863 AAGAATAAAG
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:0.23, T:0.31
Consensus pattern (13 bp):
TAAGCAAGCTTTG
Found at i:3106938 original size:31 final size:31
Alignment explanation
Indices: 3106900--3106962 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
3106890 GAGCATTGCC
3106900 TTTGTTTTATAAAAATATTAGAATTTTTAAT
1 TTTGTTTTATAAAAATATTAGAATTTTTAAT
3106931 TTTGTTTTATAAAAATATTAGAATTTTTAAT
1 TTTGTTTTATAAAAATATTAGAATTTTTAAT
3106962 T
1 T
3106963 AAGAGAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (31 bp):
TTTGTTTTATAAAAATATTAGAATTTTTAAT
Found at i:3107586 original size:22 final size:23
Alignment explanation
Indices: 3107558--3107619 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 23
3107548 ACTGCCAAGG
*
3107558 GAATGTATCGATACAT-TTTTCT
1 GAATGTATCGATACATCTATTCT
*
3107580 GAATGTATCAATACATCTATTCT
1 GAATGTATCGATACATCTATTCT
*
3107603 --TTGTATCGATACATCTA
1 GAATGTATCGATACATCTA
3107620 GGAAGTTTAC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 15 0.43
22 15 0.43
23 5 0.14
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.42
Consensus pattern (23 bp):
GAATGTATCGATACATCTATTCT
Found at i:3108154 original size:10 final size:10
Alignment explanation
Indices: 3108128--3108156 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
3108118 CCTTTGGCAA
3108128 AAAAAAAC-C
1 AAAAAAACAC
3108137 AAAAAAACAC
1 AAAAAAACAC
3108147 AAAAAAACAC
1 AAAAAAACAC
3108157 TATTCCATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.42
10 11 0.58
ACGTcount: A:0.79, C:0.21, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAACAC
Found at i:3110131 original size:28 final size:27
Alignment explanation
Indices: 3110061--3110136 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
3110051 TTTCTTCACA
*
3110061 ATCGGGGATACTCCAACCCCGTTAATC
1 ATCGGGGATACTCCAACCCCATTAATC
*
3110088 ATCGGGGATACTCCAACCCCATT-ATT
1 ATCGGGGATACTCCAACCCCATTAATC
*
3110114 TTCGAGGGGATACTCCAACCCCA
1 ATC--GGGGATACTCCAACCCCA
3110137 ACTTTATTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 4 0.09
27 22 0.50
28 18 0.41
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.22
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCATTAATC
Found at i:3110267 original size:53 final size:53
Alignment explanation
Indices: 3109950--3110290 Score: 202
Period size: 52 Copynumber: 6.5 Consensus size: 53
3109940 TTCTCAATTC
* * * *
3109950 TCCATAATGGGGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-TTT
1 TCCATAATCGGGGATACTCCAACCCCGATTTTATTTTCGAAAACACCAATTTT
* * * * *
3110001 TCTATAATCGGGGATATTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCT
1 TCCATAATCGGGGATACTCCAACCCCGATTTTATTTTC-GAAAACACCAATTT-T
* * ** * * * *
3110056 T-CACAATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAA---C
1 TCCATAATCGGGGATACTCCAACCCCGATTTTATTTTC--GAAAACACCAATTTT
* * * * * * ***
3110105 CCCATTATTTTCGAGGGGATACTCCAACCCCAACTTTA-TTTCCAAAATATTGATTTT
1 TCCA-TA--ATC--GGGGATACTCCAACCCCGATTTTATTTTCGAAAACACCAATTTT
* * * * *
3110162 T-CATAATCGGGGGATACTCCAACTCCGGTTTTA-TTGCTAAAACACTAATTTT
1 TCCATAATC-GGGGATACTCCAACCCCGATTTTATTTTCGAAAACACCAATTTT
3110214 TCCATAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACACCAATTTTT
1 TCCATAATCGGGGATACTCCAACCCCGATTTTATTTTCGAAAACACCAA-TTTT
**
3110267 TCTTTAATCGGGGATACTCCAACC
1 TCCATAATCGGGGATACTCCAACC
3110291 TCGTTATCTC
Statistics
Matches: 219, Mismatches: 52, Indels: 36
0.71 0.17 0.12
Matches are distributed among these distances:
50 2 0.01
51 36 0.16
52 71 0.32
53 56 0.26
54 26 0.12
55 21 0.10
56 4 0.02
57 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.33
Consensus pattern (53 bp):
TCCATAATCGGGGATACTCCAACCCCGATTTTATTTTCGAAAACACCAATTTT
Found at i:3110336 original size:28 final size:28
Alignment explanation
Indices: 3110276--3110349 Score: 91
Period size: 28 Copynumber: 2.6 Consensus size: 28
3110266 TTCTTTAATC
*
3110276 GGGGATACTCCAACCTCGTTATCTCATCA
1 GGGGATACTCCAACCCCGTTATCTCA-CA
3110305 -GGGATACTCCAACCCCGTTA-CTTC-CGA
1 GGGGATACTCCAACCCCGTTATC-TCAC-A
3110332 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
3110350 GCTTTATTCC
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
26 1 0.02
27 2 0.05
28 38 0.93
ACGTcount: A:0.23, C:0.35, G:0.20, T:0.22
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATCTCACA
Found at i:3110394 original size:212 final size:210
Alignment explanation
Indices: 3109947--3110396 Score: 634
Period size: 213 Copynumber: 2.1 Consensus size: 210
3109937 AGTTTCTCAA
* * *
3109947 TTCTCCATAATGGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGG
1 TTCT-CATAATGGGGGATACTCCAACTCCGATTTTATTCTCAAAACACTAATTTTCCATAATCGG
* *
3110012 GGATATTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAA
65 GGATACTCCAACCCCGATTTTATTTCC-AAAAACACCAATTTCTTCACAATCGGGGATACTCCAA
* * *
3110077 CCCCGTTAATCATCGGGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCCAACTTT
129 CCCCGTTAATCATCAGGGATACTCCAACCCCATTACTTCCGAGGGGATACTCCAACCCCAACTTT
*
3110142 ATTTCCAAAATATTGAT
194 ATTCCCAAAATATTGAT
* *
3110159 TTTTCATAATCGGGGGATACTCCAACTCCGGTTTTATTGCT-AAAACACTAATTTTTCCATAATC
1 TTCTCATAAT-GGGGGATACTCCAACTCCGATTTTATT-CTCAAAACACTAA-TTTTCCATAATC
* * **
3110223 GGGGATACTCCAACCCCGATTTTATTTTC-AAAACACCAATTTTTTCTTTAATCGGGGATACTCC
63 GGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTCTTC-ACAATCGGGGATACTCC
* * * **
3110287 AACCTCGTTATCTCATCAGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGC
127 AACCCCGTTA-ATCATCAGGGATACTCCAACCCCATTACTTCCGAGGGGATACTCCAACCCCAAC
3110352 TTTATTCCCAAAATATTGAT
191 TTTATTCCCAAAATATTGAT
*
3110372 TTCTCATAATTGGGGATACTCCAAC
1 TTCTCATAATGGGGGATACTCCAAC
3110397 CCCGTTATTT
Statistics
Matches: 211, Mismatches: 22, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
211 22 0.10
212 76 0.36
213 113 0.54
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.32
Consensus pattern (210 bp):
TTCTCATAATGGGGGATACTCCAACTCCGATTTTATTCTCAAAACACTAATTTTCCATAATCGGG
GATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACC
CCGTTAATCATCAGGGATACTCCAACCCCATTACTTCCGAGGGGATACTCCAACCCCAACTTTAT
TCCCAAAATATTGAT
Found at i:3111952 original size:154 final size:152
Alignment explanation
Indices: 3111700--3112665 Score: 852
Period size: 154 Copynumber: 6.3 Consensus size: 152
3111690 GGCCCTAAGG
* * * ** *
3111700 GACCCGGTGATAACCAAAGACTCGGTT-T-TGAAAAAATACAAAAATGCCTTTAGTGGATACTTT
1 GACCCAGTGATAACCTAAGACTC--TTATCTAAAAAAATACAAAAATGCCCCTAGGGGATACTTT
* * * *
3111763 CTACGTAGAAGTACCCGATACCTTTAAAGGACTAAAAATGGATGTGGATGGCGTGAAGCTATCCT
64 CTACCTAGAAGTACCCGATACC-CTAAAGGACTAAAAA-GGATGTGGATGGCATGAACCTATCCT
3111828 AAATGCCCACCTTCGGCATAAAAGCA
127 AAATGCCCACCTTCGGCATAAAAGCA
* * * * * *
3111854 GACCCAATGATAACTTAGGGCTCTTATCTAAAAAAATATAAAAATGCCCTTAGGGGATACTTTCT
1 GACCCAGTGATAACCTAAGACTCTTATCTAAAAAAATACAAAAATGCCCCTAGGGGATACTTTCT
* *
3111919 ACCTAGAAGTACCTGATACCCTTAAAGGACTAAAAAATGATGTGGATGGCATGAACCTATCCTAA
66 ACCTAGAAGTACCCGATACCC-TAAAGGACT-AAAAAGGATGTGGATGGCATGAACCTATCCTAA
**
3111984 ATGCCCACCTTCAACATAAAAGCA
129 ATGCCCACCTTCGGCATAAAAGCA
** * * * * ** *
3112008 GACCTGGTGATTACCTAAGACTC-GATTCTCAAAAATTACAAAAATGCCCCTAGGAAACACTTTC
1 GACCCAGTGATAACCTAAGACTCTTA-TCTAAAAAAATACAAAAATGCCCCTAGGGGATACTTTC
* * * *
3112072 GACGTAGAAGTACCCGAGACCCGTAAAGGACTAAAAAAGGCTGTGGATCGG-ATGAACCTATCCT
65 TACCTAGAAGTACCCGATACCC-TAAAGGACT-AAAAAGGATGTGGAT-GGCATGAACCTATCCT
* *
3112136 AAATGCCCACCTTCGGCAAAAAAAC-
127 AAATGCCCACCTTCGGCATAAAAGCA
* * * * *
3112161 GAACCTAGTGATAACCTAGGACTCAATT-T-TAAAAAATTACAAAAATACCCCGAGGGGATACTT
1 G-ACCCAGTGATAACCTAAGACTC--TTATCTAAAAAAATACAAAAATGCCCCTAGGGGATACTT
* * **
3112224 T-TGACCCAGAAGTACCCGATACCCCTAAAGGACTAAAAAAAGATGTGGATGGTGTGAACGC-AT
63 TCT-ACCTAGAAGTACCCGATA-CCCTAAAGGACT-AAAAAGGATGTGGATGGCATGAAC-CTAT
* * * * *
3112287 CCTAAATGCCCA-TTTTGACATAAACGTA
124 CCTAAATGCCCACCTTCGGCATAAAAGCA
* * * * * *
3112315 GACCCGGTAATAACCTAAGACTC-GATTCT-AAAAATTATAAAAATGCCCCTAGGAGATACTTTC
1 GACCCAGTGATAACCTAAGACTCTTA-TCTAAAAAAATACAAAAATGCCCCTAGGGGATACTTTC
* * * *
3112378 AACGTAGAAGTACTCGATGCTCCTAAAGGACTAAAGAAGGATGTGGATGGCATGAACCTATCCTA
65 TACCTAGAAGTACCCGATAC-CCTAAAGGACTAAA-AAGGATGTGGATGGCATGAACCTATCCTA
**
3112443 AATGCCCACCTTTAGCATAAAAGCA
128 AATGCCCACCTTCGGCATAAAAGCA
** * * *
3112468 GAATCAGGTGATAACCTAAGACTCGATT-T-TTAAAAAATACAAAAATGCCCTTAGGGGATACAT
1 GACCCA-GTGATAACCTAAGACTC--TTATCTAAAAAAATACAAAAATGCCCCTAGGGGATACTT
* * * * ** * **
3112531 TCGACGC-AGAAGTACCTGATACCCTAAAGAAGTAAAAAAAATGTGGATGGCGTGAACGAATCCT
63 TCTAC-CTAGAAGTACCCGATACCCTAAAGGACTAAAAAGGATGTGGATGGCATGAACCTATCCT
*
3112595 AAATGCCCACCTTCGGCATAAAAGCGG
127 AAATGCCCACCTTCGGCATAAAAGC-A
* * *
3112622 GCCCCA-TGATAACCCAAGACTCGATT-T-TAAAAAATTACAAAAAT
1 GACCCAGTGATAACCTAAGACTC--TTATCTAAAAAAATACAAAAAT
3112666 ACCCTTAAAG
Statistics
Matches: 661, Mismatches: 121, Indels: 62
0.78 0.14 0.07
Matches are distributed among these distances:
151 5 0.01
152 124 0.19
153 92 0.14
154 384 0.58
155 56 0.08
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.22
Consensus pattern (152 bp):
GACCCAGTGATAACCTAAGACTCTTATCTAAAAAAATACAAAAATGCCCCTAGGGGATACTTTCT
ACCTAGAAGTACCCGATACCCTAAAGGACTAAAAAGGATGTGGATGGCATGAACCTATCCTAAAT
GCCCACCTTCGGCATAAAAGCA
Found at i:3112643 original size:306 final size:302
Alignment explanation
Indices: 3111700--3112711 Score: 1133
Period size: 308 Copynumber: 3.3 Consensus size: 302
3111690 GGCCCTAAGG
* * * **
3111700 GACCCGGTGATAACCAAAGACTCGGTTTTGAAAAAA-TACAAAAATGCCTTTAGTG-GATACTTT
1 GACCCGGTGATAACCTAAGACTCGATTCT-AAAAAATTACAAAAATGCCCCTAG-GAGATACTTT
* * * * *
3111763 CTACGTAGAAGTACCCGATACCTTTAAAGGACTAAAAATGGATGTGGATGGCGTGAAGCTATCCT
64 CAACGTAGAAGTACCCGATGCC-CTAAAGGACTAAAAA-GGATGTGGATGGCATGAACCTATCCT
* * * * *
3111828 AAATGCCCACCTTCGGCATAAAAGCAGACCCAATGATAACTTAGGGCTC-TTATCTAAAAAAATA
127 AAATGCCCACCTTCGGCATAAAAGCAGAACCAGTGATAACCTAGGACTCATT-T-TTAAAAAATA
* *
3111892 TAAAAATGCCCTTAGGGGATACTTTCTACCTAGAAGTACCTGATACCCTTAAAGGACTAAAAAAT
190 CAAAAATGCCCTTAGGGGATACTTTCGACC-AGAAGTACCTGATACCC-TAAAGGACTAAAAAA-
* * ** *
3111957 GATGTGGATGGCATGAACCTATCCTAAATGCCCACCTTCAACATAAAAGCA
252 AATGTGGATGGCGTGAACGAATCCTAAATGCCCACCTTCGACATAAAAGCA
* * * * * *
3112008 GACCTGGTGATTACCTAAGACTCGATTCTCAAAAATTACAAAAATGCCCCTAGGAAACACTTTCG
1 GACCCGGTGATAACCTAAGACTCGATTCTAAAAAATTACAAAAATGCCCCTAGGAGATACTTTCA
*
3112073 ACGTAGAAGTACCCGA-GACCCGTAAAGGACTAAAAAAGGCTGTGGATCGG-ATGAACCTATCCT
66 ACGTAGAAGTACCCGATG-CCC-TAAAGGACT-AAAAAGGATGTGGAT-GGCATGAACCTATCCT
* * *
3112136 AAATGCCCACCTTCGGCAAAAAAAC-GAACCTAGTGATAACCTAGGACTCAATTTTAAAAAATTA
127 AAATGCCCACCTTCGGCATAAAAGCAGAACC-AGTGATAACCTAGGACTCATTTTTAAAAAA-TA
* ** * *
3112200 CAAAAATACCCCGAGGGGATACTTTTGACCCAGAAGTACCCGATACCCCTAAAGGACTAAAAAAA
190 CAAAAATGCCCTTAGGGGATACTTTCGA-CCAGAAGTACCTGATA-CCCTAAAGGACTAAAAAAA
* * * * * *
3112265 GATGTGGATGGTGTGAACGCATCCTAAATGCCCA-TTTTGACATAAACGTA
253 -ATGTGGATGGCGTGAACGAATCCTAAATGCCCACCTTCGACATAAAAGCA
* *
3112315 GACCCGGTAATAACCTAAGACTCGATTCT-AAAAATTATAAAAATGCCCCTAGGAGATACTTTCA
1 GACCCGGTGATAACCTAAGACTCGATTCTAAAAAATTACAAAAATGCCCCTAGGAGATACTTTCA
*
3112379 ACGTAGAAGTACTCGATGCTCCTAAAGGACTAAAGAAGGATGTGGATGGCATGAACCTATCCTAA
66 ACGTAGAAGTACCCGATGC-CCTAAAGGACTAAA-AAGGATGTGGATGGCATGAACCTATCCTAA
** * *
3112444 ATGCCCACCTTTAGCATAAAAGCAGAATCAGGTGATAACCTAAGACTCGATTTTTAAAAAATACA
129 ATGCCCACCTTCGGCATAAAAGCAGAACCA-GTGATAACCTAGGACTC-ATTTTTAAAAAATACA
* * *
3112509 AAAATGCCCTTAGGGGATACATTCGACGCAGAAGTACCTGATACCCTAAAGAAGTAAAAAAAATG
192 AAAATGCCCTTAGGGGATACTTTCGAC-CAGAAGTACCTGATACCCTAAAGGACTAAAAAAAATG
* *
3112574 TGGATGGCGTGAACGAATCCTAAATGCCCACCTTCGGCATAAAAGCG
256 TGGATGGCGTGAACGAATCCTAAATGCCCACCTTCGACATAAAAGCA
* ** * * * * *
3112621 GGCCCCATGATAACCCAAGACTCGATTTTAAAAAATTACAAAAATACCCTTA-AAGAATACTTTC
1 GACCCGGTGATAACCTAAGACTCGATTCTAAAAAATTACAAAAATGCCCCTAGGAG-ATACTTTC
* * * *
3112685 GACGCAAAAGTATCCGATGCCCGTAAA
65 AACGTAGAAGTACCCGATGCCC-TAAA
3112712 AGATTTAAAG
Statistics
Matches: 592, Mismatches: 88, Indels: 49
0.81 0.12 0.07
Matches are distributed among these distances:
305 36 0.06
306 157 0.27
307 162 0.27
308 224 0.38
309 13 0.02
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (302 bp):
GACCCGGTGATAACCTAAGACTCGATTCTAAAAAATTACAAAAATGCCCCTAGGAGATACTTTCA
ACGTAGAAGTACCCGATGCCCTAAAGGACTAAAAAGGATGTGGATGGCATGAACCTATCCTAAAT
GCCCACCTTCGGCATAAAAGCAGAACCAGTGATAACCTAGGACTCATTTTTAAAAAATACAAAAA
TGCCCTTAGGGGATACTTTCGACCAGAAGTACCTGATACCCTAAAGGACTAAAAAAAATGTGGAT
GGCGTGAACGAATCCTAAATGCCCACCTTCGACATAAAAGCA
Found at i:3113170 original size:152 final size:152
Alignment explanation
Indices: 3112978--3113255 Score: 430
Period size: 152 Copynumber: 1.8 Consensus size: 152
3112968 TTATTTATTT
* * * * *
3112978 ATTTAATTTTGAAAAATATTATTTCGTACTTTAATAGAAGCACGAAAAGATATGAAAAGATTTTG
1 ATTTAATTTCGAAAAATATCATTTCGTACCTTAATAGAAGCACGAAAAGATACGAAAAGATTTTA
* *
3113043 AAAATCTTTTATACCCCTACGGATGCCCATAGGAATATAAAAGATTAAAAAAGATGATTAAAATT
66 AAAATCTTTTATACCCCTACGGATGCCCATAGGAATATAAAAAATTAAAAAAGATAATTAAAATT
3113108 TATTTTGGTTATGAAATTGTTA
131 TATTTTGGTTATGAAATTGTTA
* * * **
3113130 ATTTAATTTCGAAAAATATCATTTCGTACCTTAATGGAAGCCCGAAAAGATACGAAGATTTTTTA
1 ATTTAATTTCGAAAAATATCATTTCGTACCTTAATAGAAGCACGAAAAGATACGAAAAGATTTTA
* *
3113195 AAAATCTTTTATACCGCTGCGGATGCCCATAGGAATATAAAAAATTAAAAAAGATAATTAA
66 AAAATCTTTTATACCCCTACGGATGCCCATAGGAATATAAAAAATTAAAAAAGATAATTAA
3113256 TATAGAAATA
Statistics
Matches: 112, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
152 112 1.00
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (152 bp):
ATTTAATTTCGAAAAATATCATTTCGTACCTTAATAGAAGCACGAAAAGATACGAAAAGATTTTA
AAAATCTTTTATACCCCTACGGATGCCCATAGGAATATAAAAAATTAAAAAAGATAATTAAAATT
TATTTTGGTTATGAAATTGTTA
Found at i:3115160 original size:167 final size:165
Alignment explanation
Indices: 3114855--3115509 Score: 707
Period size: 167 Copynumber: 3.9 Consensus size: 165
3114845 TAGACTGAAG
* * * * * *
3114855 AAAATCCCTCAAAAAATATTTACGGAGAAGAAAAC-TCG-ATTTCTCGAAAAAATGAGAATTTCA
1 AAAATCCCCCCAAAAA-ATTTACGAAGTAGAAAACAACGTA-TT-TCGAAAAAAGGA-AATTTCA
* ** * * *
3114918 A-TAAAAATGTCCAAAA-CTCATGAAAATAAATTAATTTTTTAAAAATAAATTAATATG-AATCA
62 AGGAAAAAAAT-CAAAAGCTCATGAAAATGAATGAATTTTTGAAAAATAAATTAATATGAAAT-A
** * * * *
3114980 AATTTTGATGTTTGATGAATTCTAAAAATTTAAAACCGAGA
125 AATGATAATGTTTGATGAATTTTAAAAATTGAAAACCAAGA
* * * * *
3115021 AAAAGCCCCTCGAAAAAATTTACGAAGTAGAAAACATCGTATTTAGGAAAAAATGG-AGTTTCAA
1 AAAATCCCC-CCAAAAAATTTACGAAGTAGAAAACAACGTATTT-CGAAAAAA-GGAAATTTCAA
* ** * * * *
3115085 AGAAAAAAAT-AAAAAATGAATGAAAATGAATGAATTTTTGAAAAGTGAATTACTATGAAATAAA
63 GGAAAAAAATCAAAAGCT-CATGAAAATGAATGAATTTTTGAAAAATAAATTAATATGAAATAAA
*
3115149 TGATAATGTTTGATGAATTTTGAAAATTGAAAACCAAGA
127 TGATAATGTTTGATGAATTTTAAAAATTGAAAACCAAGA
* *
3115188 AAAATCCCCCCCAAAAAATTTAC-AGAGTAGAAAATAACGTATTTTGAGAAAAAGGAAATTTCAA
1 AAAAT-CCCCCCAAAAAATTTACGA-AGTAGAAAACAACGTATTTCGA-AAAAAGGAAATTTCAA
* * * *
3115252 GGAAAAAAATCAAAAGCTCATGAAAATGATTGAATTTTTGAAAAATTATTTAATATGAGATAAAT
63 GGAAAAAAATCAAAAGCTCATGAAAATGAATGAATTTTTGAAAAATAAATTAATATGAAATAAAT
*
3115317 TATAATGTTTGATGAATTTTAAAAATTGAAAACCAAGA
128 GATAATGTTTGATGAATTTTAAAAATTGAAAACCAAGA
*
3115355 AAAATCCCCCCAGAAAAATTTACGAAGTAG-AAACACCGTATTTCGAAAAAAGGGAAATTTCAAG
1 AAAATCCCCCCA-AAAAATTTACGAAGTAGAAAACAACGTATTTCGAAAAAA-GGAAATTTCAAG
* * * * *
3115419 GAAAAAATTCCAAAGCTCATGAAAATGAATGAATTTTTGAAAACTAAATTAATATGAGATAAACG
64 GAAAAAAATCAAAAGCTCATGAAAATGAATGAATTTTTGAAAAATAAATTAATATGAAATAAATG
*
3115484 ATAATGTTTTATGAATTTTAAAAATT
129 ATAATGTTTGATGAATTTTAAAAATT
3115510 AAGAAAAATC
Statistics
Matches: 416, Mismatches: 56, Indels: 34
0.82 0.11 0.07
Matches are distributed among these distances:
165 9 0.02
166 151 0.36
167 241 0.58
168 15 0.04
ACGTcount: A:0.49, C:0.10, G:0.13, T:0.28
Consensus pattern (165 bp):
AAAATCCCCCCAAAAAATTTACGAAGTAGAAAACAACGTATTTCGAAAAAAGGAAATTTCAAGGA
AAAAAATCAAAAGCTCATGAAAATGAATGAATTTTTGAAAAATAAATTAATATGAAATAAATGAT
AATGTTTGATGAATTTTAAAAATTGAAAACCAAGA
Found at i:3116629 original size:43 final size:42
Alignment explanation
Indices: 3116568--3116681 Score: 120
Period size: 42 Copynumber: 2.7 Consensus size: 42
3116558 GAGCCGACGA
* *
3116568 GCAGATGATTGATAAAGAAAGTCTCCCAGGACTAAGCCAACAG
1 GCAGATGATGGATGAAG-AAGTCTCCCAGGACTAAGCCAACAG
* * * * * *
3116611 GCAGATAATGGATGAAGAAGCCTTCCAGGCCTAAGCCGATAG
1 GCAGATGATGGATGAAGAAGTCTCCCAGGACTAAGCCAACAG
* * *
3116653 GCATACGATGGATGAAGAAGTCTCTCAGG
1 GCAGATGATGGATGAAGAAGTCTCCCAGG
3116682 TTTGAGTCGA
Statistics
Matches: 57, Mismatches: 14, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
42 43 0.75
43 14 0.25
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (42 bp):
GCAGATGATGGATGAAGAAGTCTCCCAGGACTAAGCCAACAG
Found at i:3116902 original size:84 final size:85
Alignment explanation
Indices: 3116789--3116954 Score: 190
Period size: 84 Copynumber: 2.0 Consensus size: 85
3116779 AATAGACGAT
* ** ** * *
3116789 TGATAAAGAAAATCTCCCGGGTCTAAGCCGATGGGCAAAAGATTGAT-TAGAAGTCTCCCAGGTC
1 TGATAAAGAAAATCTCCCGGGACTAAGCCGACAGGCAAAAGAAAGATAAAAAAGTCTCCCAGGTC
*
3116853 TAAGCCTACGGCCAGACAAC
66 TAAGCCGACGGCCAGACAAC
* ** * * * *
3116873 TGATAAAGGAAATCTCTTGGGACTGAGCCGACAGGTAGAGGAAAGATAAAAAAGTCTCCCAGGTC
1 TGATAAAGAAAATCTCCCGGGACTAAGCCGACAGGCAAAAGAAAGATAAAAAAGTCTCCCAGGTC
3116938 TAAGCCGACGGCCAGAC
66 TAAGCCGACGGCCAGAC
3116955 GAAAGATGAA
Statistics
Matches: 66, Mismatches: 15, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
84 35 0.53
85 31 0.47
ACGTcount: A:0.34, C:0.22, G:0.26, T:0.17
Consensus pattern (85 bp):
TGATAAAGAAAATCTCCCGGGACTAAGCCGACAGGCAAAAGAAAGATAAAAAAGTCTCCCAGGTC
TAAGCCGACGGCCAGACAAC
Found at i:3116939 original size:126 final size:126
Alignment explanation
Indices: 3116790--3117328 Score: 440
Period size: 126 Copynumber: 4.3 Consensus size: 126
3116780 ATAGACGATT
* * * * *
3116790 GATAAAGAAAATCTCCCGGGTCTAAGCCGATGGGCAAAAGATTGAT-TAGAAGTCTCCCAGGTCT
1 GATAAA-AAAGTCTCCCGGGTCTAAGCCGACGGGCAGATGATTGATGAAGAAGTCTCCCAGGTCT
* * * * *
3116854 AAGCCTACGGCCAGACAACTGATAAAGGAAATCTCTTGGGACTGAGCCGACAGGTAGAGGAAA
65 AAGCCGACGG-CAGACAATTGATAAAGGAAATCTCTTGAGACTGAGCCGACAGGCAGATGAAA
* * * ** * * * **
3116917 GATAAAAAAGTCTCCCAGGTCTAAGCCGACGGCCAGACGAAAGATGAAGAGGTTTACTGGGTCTA
1 GATAAAAAAGTCTCCCGGGTCTAAGCCGACGGGCAGATGATTGATGAAGAAGTCTCCCAGGTCTA
* ** * * * * * ** *
3116982 AGCCGACGGGCAGATAAAAGATGAA-GAAGTCTCTCGAGTCTAAGCCGATGGGCAGATG-AC
66 AGCCGAC-GGCAGACAATTGATAAAGGAAATCTCTTGAGACTGAGCCGACAGGCAGATGAAA
* * * * * *
3117042 GAAAGAAAAAGTCTCCTGGGTCTAAGCCAACGGGCAGATGATGGATGAAGAAGTCTCCCAAGACT
1 GATA-AAAAAGTCTCCCGGGTCTAAGCCGACGGGCAGATGATTGATGAAGAAGTCTCCCAGGTCT
* * * * * * *
3117107 GAGCCGATGAGCAAACAATTGATAAAGGAAGTCTCCT-AGGACTGAACCGATAGGCAGATGAAA
65 AAGCCGACG-GCAGACAATTGATAAAGGAAATCTCTTGA-GACTGAGCCGACAGGCAGATGAAA
* * * * * *
3117170 AATAAAAAAGTCTCCCAGGTCTAAGTCTACGGACAGATGATTGATGAA-AAGTCTCCCGGGTCTA
1 GATAAAAAAGTCTCCCGGGTCTAAGCCGACGGGCAGATGATTGATGAAGAAGTCTCCCAGGTCTA
* ** * * * * *
3117234 AGCAGACGGACAGATGATTGATAAAGGAAATCTCTTGAGATTGAGCTGACGGGCAAACGAAA
66 AGCCGACGG-CAGACAATTGATAAAGGAAATCTCTTGAGACTGAGCCGACAGGCAGATGAAA
* *
3117296 GATGAAAAAGTCTCCCGGGTCTCAGCCGACGGG
1 GATAAAAAAGTCTCCCGGGTCTAAGCCGACGGG
3117329 TAGGCGAAAG
Statistics
Matches: 312, Mismatches: 91, Indels: 19
0.74 0.22 0.05
Matches are distributed among these distances:
125 6 0.02
126 201 0.64
127 100 0.32
128 5 0.02
ACGTcount: A:0.35, C:0.20, G:0.28, T:0.18
Consensus pattern (126 bp):
GATAAAAAAGTCTCCCGGGTCTAAGCCGACGGGCAGATGATTGATGAAGAAGTCTCCCAGGTCTA
AGCCGACGGCAGACAATTGATAAAGGAAATCTCTTGAGACTGAGCCGACAGGCAGATGAAA
Found at i:3116959 original size:42 final size:42
Alignment explanation
Indices: 3116898--3117572 Score: 200
Period size: 42 Copynumber: 16.0 Consensus size: 42
3116888 CTTGGGACTG
* * *
3116898 AGCCGACAGGTAGAGGAAAGATAAAAAAGTCTCCCAGGTCTA
1 AGCCGACGGGCAGATGAAAGATAAAAAAGTCTCCCAGGTCTA
* * * * * * * **
3116940 AGCCGACGGCCAGACGAAAGATGAAGAGGTTTACTGGGTCTA
1 AGCCGACGGGCAGATGAAAGATAAAAAAGTCTCCCAGGTCTA
* * * *
3116982 AGCCGACGGGCAGATAAAAGATGAAGAAGTCTCTC-GAGTCTA
1 AGCCGACGGGCAGATGAAAGATAAAAAAGTCTCCCAG-GTCTA
* * * **
3117024 AGCCGATGGGCAGATG-ACGAAAGAAAAAGTCTCCTGGGTCTA
1 AGCCGACGGGCAGATGAAAGATA-AAAAAGTCTCCCAGGTCTA
* ** * * * * *
3117066 AGCCAACGGGCAGATGATGGATGAAGAAGTCTCCCAAGACTG
1 AGCCGACGGGCAGATGAAAGATAAAAAAGTCTCCCAGGTCTA
* * ** * * * *
3117108 AGCCGATGAGCA-AACAATTGATAAAGGAAGTCTCCTAGGACTGA
1 AGCCGACGGGCAGATGAA-AGATAAA-AAAGTCTCCCAGGTCT-A
** *
3117152 A-CCGATAGGCAGATGAAAAATAAAAAAGTCTCCCAGGTCTA
1 AGCCGACGGGCAGATGAAAGATAAAAAAGTCTCCCAGGTCTA
* * * ** * *
3117193 AGTCTACGGACAGATGATTGAT-GAAAAGTCTCCCGGGTCTA
1 AGCCGACGGGCAGATGAAAGATAAAAAAGTCTCCCAGGTCTA
* * ** ** * *
3117234 AGCAGACGGACAGATGATTGATAAAGGAAA-TCTCTTGAGAT-TG
1 AGCCGACGGGCAGATGAAAGATAAA--AAAGTCTC-CCAGGTCTA
* * * * * *
3117277 AGCTGACGGGCAAACGAAAGATGAAAAAGTCTCCCGGGTCTC
1 AGCCGACGGGCAGATGAAAGATAAAAAAGTCTCCCAGGTCTA
* ** * * * * * * *
3117319 AGCCGACGGGTAGGCGAAAGATGAAAAGGTTTGCTAAGTTTA
1 AGCCGACGGGCAGATGAAAGATAAAAAAGTCTCCCAGGTCTA
* * * * * * * *
3117361 AGCGGATGGGTAAACGAAAGATGAAGAAGTCTCCCTGGTCTA
1 AGCCGACGGGCAGATGAAAGATAAAAAAGTCTCCCAGGTCTA
* * * * ** * * *
3117403 AGTCAATGGGTAGACAAAAGATGAAGAAGTCTCCTAGGTCTA
1 AGCCGACGGGCAGATGAAAGATAAAAAAGTCTCCCAGGTCTA
* * ** * * ** * * * *
3117445 AGTCAATAGGTAGACGATGGATGAAGAAGTCTCCC-GAGACTG
1 AGCCGACGGGCAGATGAAAGATAAAAAAGTCTCCCAG-GTCTA
** * *
3117487 AGCCGACGGGCAGATGATTGATAAAAGAAGTCTCCCAAGACTGA
1 AGCCGACGGGCAGATGAAAGATAAAA-AAGTCTCCCAGGTCT-A
* * * *
3117531 A-CCGATGGGCAGATGAAA-AAAAAAGAAGTCTTCCGGGTCTA
1 AGCCGACGGGCAGATGAAAGATAAAA-AAGTCTCCCAGGTCTA
3117572 A
1 A
3117573 ACTGACAAGT
Statistics
Matches: 467, Mismatches: 147, Indels: 39
0.72 0.23 0.06
Matches are distributed among these distances:
41 52 0.11
42 325 0.70
43 80 0.17
44 10 0.02
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.18
Consensus pattern (42 bp):
AGCCGACGGGCAGATGAAAGATAAAAAAGTCTCCCAGGTCTA
Found at i:3117232 original size:41 final size:41
Alignment explanation
Indices: 3117175--3117255 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 41
3117165 TGAAAAATAA
*
3117175 AAAAGTCTCCCAGGTCTAAGTC-TACGGACAGATGATTGATG
1 AAAAGTCTCCCAGGTCTAAG-CAGACGGACAGATGATTGATG
*
3117216 AAAAGTCTCCCGGGTCTAAGCAGACGGACAGATGATTGAT
1 AAAAGTCTCCCAGGTCTAAGCAGACGGACAGATGATTGAT
3117256 AAAGGAAATC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 1 0.03
41 36 0.97
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (41 bp):
AAAAGTCTCCCAGGTCTAAGCAGACGGACAGATGATTGATG
Found at i:3117305 original size:253 final size:252
Alignment explanation
Indices: 3116793--3117328 Score: 548
Period size: 253 Copynumber: 2.1 Consensus size: 252
3116783 GACGATTGAT
* * * * * * * * *
3116793 AAAG-AAAA-TCTCCCGGGTCTAAGCCGATGGGCAAAAGATTGAT-TAGAAGTCTCCCAGGTCTA
1 AAAGAAAAAGTCTCCCGGGTCTAAGCCAACGGGCAGATGATGGATGAAGAAGTCTCCCAAGACTG
* * * * * * * *
3116855 AGCCTACG-GCCAGACAACTGATAAAGGAAATCTCTTGGGACTGAGCCGACAGGTAGAGGAAAGA
66 AGCCGATGAG-CAAACAACTGATAAAGGAAATCTCCTAGGACTGAACCGACAGGCAGAGGAAAAA
* * * *
3116919 TAAAAAAGTCTCCCAGGTCTAAGCCGACGGCCAGACGAAAGATGAAGAGGTTTACTGGGTCTAAG
130 TAAAAAAGTCTCCCAGGTCTAAGCCGACGGACAGACGAAAGATGAAGAAGTCTACCGGGTCTAAG
* * * * *
3116984 CCGACGGGCAGATAAAAGATGAAGAAGTCTCTCGAGTCTAAGCCGATGGGCAGATGACG
195 CAGACGGACAGATAAAAGATAAAGAAATCTCTCGAGTCTAAGCCGACGGGCAGA-GACG
*
3117043 AAAGAAAAAGTCTCCTGGGTCTAAGCCAACGGGCAGATGATGGATGAAGAAGTCTCCCAAGACTG
1 AAAGAAAAAGTCTCCCGGGTCTAAGCCAACGGGCAGATGATGGATGAAGAAGTCTCCCAAGACTG
* * * *
3117108 AGCCGATGAGCAAACAATTGATAAAGGAAGTCTCCTAGGACTGAACCGATAGGCAGATGAAAAAT
66 AGCCGATGAGCAAACAACTGATAAAGGAAATCTCCTAGGACTGAACCGACAGGCAGAGGAAAAAT
* * * ** *
3117173 AAAAAAGTCTCCCAGGTCTAAGTCTACGGACAGATGATTGATGAA-AAGTCTCCCGGGTCTAAGC
131 AAAAAAGTCTCCCAGGTCTAAGCCGACGGACAGACGAAAGATGAAGAAGTCTACCGGGTCTAAGC
* ** * * *
3117237 AGACGGACAGATGATTGATAAAGGAAATCTCTTGAGAT-TGAGCTGACGGGCA-A-ACG
196 AGACGGACAGATAAAAGATAAA-GAAATCTCTCGAG-TCTAAGCCGACGGGCAGAGACG
* *
3117293 AAAGATGAAAAAGTCTCCCGGGTCTCAGCCGACGGG
1 -AA-A-GAAAAAGTCTCCCGGGTCTAAGCCAACGGG
3117329 TAGGCGAAAG
Statistics
Matches: 231, Mismatches: 46, Indels: 15
0.79 0.16 0.05
Matches are distributed among these distances:
250 7 0.03
251 6 0.03
252 62 0.27
253 154 0.67
254 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.28, T:0.18
Consensus pattern (252 bp):
AAAGAAAAAGTCTCCCGGGTCTAAGCCAACGGGCAGATGATGGATGAAGAAGTCTCCCAAGACTG
AGCCGATGAGCAAACAACTGATAAAGGAAATCTCCTAGGACTGAACCGACAGGCAGAGGAAAAAT
AAAAAAGTCTCCCAGGTCTAAGCCGACGGACAGACGAAAGATGAAGAAGTCTACCGGGTCTAAGC
AGACGGACAGATAAAAGATAAAGAAATCTCTCGAGTCTAAGCCGACGGGCAGAGACG
Found at i:3117306 original size:379 final size:378
Alignment explanation
Indices: 3116829--3117572 Score: 902
Period size: 379 Copynumber: 2.0 Consensus size: 378
3116819 ATGGGCAAAA
* * ** * *
3116829 GATTGATTAGAAGTCTCCCAGGTCTAAGCCTACGGCCAGACAACTGATAAAGGAAATCTCTTGGG
1 GATTGATGAAAAGTCTCCCAGGTCTAAGCAGACGGACAGACAACTGATAAAGGAAATCTCTTGAG
* * *
3116894 ACTGAGCCGACAGGTAGAGGAAAGATAAAAAAGTCTCCCAGGTCTAAGCCGACGGCCAGACGAAA
66 ACTGAGCCGACAGGCAAACGAAAGATAAAAAAGTCTCCCAGGTCTAAGCCGACGGCCAGACGAAA
* ** * * *
3116959 GATGAAGAGGTTTACTGGGTCTAAGCCGACGGGCAGATAAAAGATGAAGAAGTCTCTC-GAGTCT
131 GATGAAAAGGTTTACTAAGTCTAAGCCGACGGGCAAACAAAAGATGAAGAAGTCTCCCTG-GTCT
* * * * *
3117023 AAGCCGATGGGCAGATGACGAAAGA-AA-AAGTCTCCTGGGTCTAAGCCAACGGGCAGATGATGG
195 AAGCCAATGGG--GA-GACAAAAGAGAAGAAGTCTCCTAGGTCTAAGCCAACAGGCAGACGATGG
* * * *
3117086 ATGAAGAAGTCTCCCAAGACTGAGCCGATGAGCAAACAATTGATAAAGGAAGTCTCCTAGGACTG
257 ATGAAGAAGTCTCCCAAGACTGAGCCGACGAGCAAACAATTGATAAAAGAAGTCTCCCAAGACTG
3117151 AACCGATAGGCAGATGAAAAATAAAA-AAGTCTCCCAGGTCTAAGTCTACGGACAGAT
322 AACCGATAGGCAGATGAAAAA-AAAAGAAGTCTCCCAGGTCTAAGTCTACGGACAGAT
* ** *
3117208 GATTGATGAAAAGTCTCCCGGGTCTAAGCAGACGGACAGATGATTGATAAAGGAAATCTCTTGAG
1 GATTGATGAAAAGTCTCCCAGGTCTAAGCAGACGGACAGACAACTGATAAAGGAAATCTCTTGAG
* * * * * * ** *
3117273 ATTGAGCTGACGGGCAAACGAAAGATGAAAAAGTCTCCCGGGTCTCAGCCGACGGGTAGGCGAAA
66 ACTGAGCCGACAGGCAAACGAAAGATAAAAAAGTCTCCCAGGTCTAAGCCGACGGCCAGACGAAA
* * * * * *
3117338 GATGAAAAGGTTTGCTAAGTTTAAGCGGATGGGTAAACGAAAGATGAAGAAGTCTCCCTGGTCTA
131 GATGAAAAGGTTTACTAAGTCTAAGCCGACGGGCAAACAAAAGATGAAGAAGTCTCCCTGGTCTA
* * * * *
3117403 AGTCAATGGGTAGACAAAAGATGAAGAAGTCTCCTAGGTCTAAGTCAATAGGTAGACGATGGATG
196 AGCCAATGGGGAGACAAAAGA-GAAGAAGTCTCCTAGGTCTAAGCCAACAGGCAGACGATGGATG
* * * **
3117468 AAGAAGTCTCCCGAGACTGAGCCGACGGGCAGATGATTGATAAAAGAAGTCTCCCAAGACTGAAC
260 AAGAAGTCTCCCAAGACTGAGCCGACGAGCAAACAATTGATAAAAGAAGTCTCCCAAGACTGAAC
* * *
3117533 CGATGGGCAGATGAAAAAAAAAGAAGTCTTCCGGGTCTAA
325 CGATAGGCAGATGAAAAAAAAAGAAGTCTCCCAGGTCTAA
3117573 ACTGACAAGT
Statistics
Matches: 304, Mismatches: 56, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
376 8 0.03
377 1 0.00
378 6 0.02
379 288 0.95
380 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (378 bp):
GATTGATGAAAAGTCTCCCAGGTCTAAGCAGACGGACAGACAACTGATAAAGGAAATCTCTTGAG
ACTGAGCCGACAGGCAAACGAAAGATAAAAAAGTCTCCCAGGTCTAAGCCGACGGCCAGACGAAA
GATGAAAAGGTTTACTAAGTCTAAGCCGACGGGCAAACAAAAGATGAAGAAGTCTCCCTGGTCTA
AGCCAATGGGGAGACAAAAGAGAAGAAGTCTCCTAGGTCTAAGCCAACAGGCAGACGATGGATGA
AGAAGTCTCCCAAGACTGAGCCGACGAGCAAACAATTGATAAAAGAAGTCTCCCAAGACTGAACC
GATAGGCAGATGAAAAAAAAAGAAGTCTCCCAGGTCTAAGTCTACGGACAGAT
Found at i:3118044 original size:42 final size:42
Alignment explanation
Indices: 3117998--3118606 Score: 254
Period size: 42 Copynumber: 14.5 Consensus size: 42
3117988 CTAAATCGAC
*
3117998 GGGTAGACGAAAGATGAAGAAGTCTTCTAGGTCTAAGCCGAT
1 GGGTAGACGAAAGATGAAGAAGTCTCCTAGGTCTAAGCCGAT
* * * *
3118040 GGGTAGATGAAAGATGAAGAAGTCT-ATCGGGTCTAAGCCGAC
1 GGGTAGACGAAAGATGAAGAAGTCTCCT-AGGTCTAAGCCGAT
* * * * * *
3118082 GGGCAAATGAAAGATGATGAGGTCT-CTCAGGTCTAAGCCGAC
1 GGGTAGACGAAAGATGAAGAAGTCTCCT-AGGTCTAAGCCGAT
** * * * * * *
3118124 GGCCAGATGATTA-ATAAAGGAAGTCT-CTCGAGACTAAGGCGAT
1 GGGTAGACGA-AAGATGAA-GAAGTCTCCTAG-GTCTAAGCCGAT
* ** * * *
3118167 AGACAGATGAAAGATGAAGAAGTCCCCTGGGTCTAAGCCGAT
1 GGGTAGACGAAAGATGAAGAAGTCTCCTAGGTCTAAGCCGAT
** * *
3118209 GGGTAGACGATTGATG-AGAAGTCTCCCAAGTCTAAGCCGACT
1 GGGTAGACGAAAGATGAAGAAGTCTCCTAGGTCTAAGCCGA-T
* ** * * *
3118251 -AGTAGACGATTGAT-AAGAAGTCTCCCAAGTTTAAGCCGACT
1 GGGTAGACGAAAGATGAAGAAGTCTCCTAGGTCTAAGCCGA-T
* * * * * * * *
3118292 -AGTAGAC-AATTGATAAAAGAAATCTCCTAGGACTGAGCTGAC
1 GGGTAGACGAA-AGAT-GAAGAAGTCTCCTAGGTCTAAGCCGAT
* * * * * * *
3118334 GGTTAAACGAAAGATAAAGAAGTCTCCCAGGTTTAAGTCAAT
1 GGGTAGACGAAAGATGAAGAAGTCTCCTAGGTCTAAGCCGAT
* ** *
3118376 GGGTAGACGAAAGATGAAGAGGT-TAATAGGTCTAAGCCGAC
1 GGGTAGACGAAAGATGAAGAAGTCTCCTAGGTCTAAGCCGAT
* * * * * *
3118417 AGGCAGACGAAAGATAAAGAGGTCTCCTAGGTTTGAGCCGAT
1 GGGTAGACGAAAGATGAAGAAGTCTCCTAGGTCTAAGCCGAT
* * ** * * * *
3118459 GGGCAGATGATGGATAAAG-AGTCTCCCAAGTCTAAACCGAT
1 GGGTAGACGAAAGATGAAGAAGTCTCCTAGGTCTAAGCCGAT
** * * * * *
3118500 GGGTA-AATAATGGATGAAGAGGTCTCTTGGGAT-TGAGCCGAT
1 GGGTAGACGAA-AGATGAAGAAGTCTCCTAGG-TCTAAGCCGAT
* * * ** * * * *
3118542 AGGCAGATGATGGATGAAGAGGTCTCCAAGGTCTAAGCTGAC
1 GGGTAGACGAAAGATGAAGAAGTCTCCTAGGTCTAAGCCGAT
* *
3118584 GGGTAGATGAAAGATTAAGAAGT
1 GGGTAGACGAAAGATGAAGAAGT
3118607 TTTCTGGGTT
Statistics
Matches: 428, Mismatches: 120, Indels: 38
0.73 0.20 0.06
Matches are distributed among these distances:
40 3 0.01
41 129 0.30
42 233 0.54
43 61 0.14
44 2 0.00
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.21
Consensus pattern (42 bp):
GGGTAGACGAAAGATGAAGAAGTCTCCTAGGTCTAAGCCGAT
Found at i:3118242 original size:41 final size:41
Alignment explanation
Indices: 3118197--3118307 Score: 170
Period size: 41 Copynumber: 2.7 Consensus size: 41
3118187 AGTCCCCTGG
* *
3118197 GTCTAAGCCGA-TGGGTAGACGATTGATGAGAAGTCTCCCAA
1 GTCTAAGCCGACT-AGTAGACGATTGATAAGAAGTCTCCCAA
3118238 GTCTAAGCCGACTAGTAGACGATTGATAAGAAGTCTCCCAA
1 GTCTAAGCCGACTAGTAGACGATTGATAAGAAGTCTCCCAA
* *
3118279 GTTTAAGCCGACTAGTAGACAATTGATAA
1 GTCTAAGCCGACTAGTAGACGATTGATAA
3118308 AAGAAATCTC
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
41 64 0.98
42 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.23
Consensus pattern (41 bp):
GTCTAAGCCGACTAGTAGACGATTGATAAGAAGTCTCCCAA
Found at i:3118492 original size:83 final size:84
Alignment explanation
Indices: 3118403--3118622 Score: 230
Period size: 83 Copynumber: 2.6 Consensus size: 84
3118393 AGAGGTTAAT
* * * * *
3118403 AGGTCTAAGCCGACAGGCAGACGAAAGATAAAGAGGTCTCCTAGGTTTGAGCCGATGGGCAGATG
1 AGGTCTAAGCCGACGGGTAGAAGAAAGATAAAGAGGTCTCCTGGGTTTGAGCCGATAGGCAGATG
3118468 ATGGATAAAGA-GTCTCCCA
66 ATGGATAAAGAGGTCT-CCA
* * * * * * *
3118487 A-GTCTAAACCGATGGGTA-AATAATGGATGAAGAGGTCTCTTGGGATTGAGCCGATAGGCAGAT
1 AGGTCTAAGCCGACGGGTAGAAGAA-AGATAAAGAGGTCTCCTGGGTTTGAGCCGATAGGCAGAT
*
3118550 GATGGATGAAGAGGTCTCCA
65 GATGGATAAAGAGGTCTCCA
* * * * * *
3118570 AGGTCTAAGCTGACGGGTAGATGAAAGATTAAGAAGTTTTCTGGGTTTGAGCC
1 AGGTCTAAGCCGACGGGTAGAAGAAAGATAAAGAGGTCTCCTGGGTTTGAGCC
3118623 AACATGTAGA
Statistics
Matches: 107, Mismatches: 25, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
82 3 0.03
83 61 0.57
84 40 0.37
85 3 0.03
ACGTcount: A:0.31, C:0.15, G:0.32, T:0.22
Consensus pattern (84 bp):
AGGTCTAAGCCGACGGGTAGAAGAAAGATAAAGAGGTCTCCTGGGTTTGAGCCGATAGGCAGATG
ATGGATAAAGAGGTCTCCA
Found at i:3118864 original size:44 final size:44
Alignment explanation
Indices: 3118807--3118961 Score: 129
Period size: 44 Copynumber: 3.5 Consensus size: 44
3118797 GGCAGATTTA
*
3118807 ACCATGGTGGTAACCATACGTCAAATCAGAATGAAAAGAATATG
1 ACCAGGGTGGTAACCATACGTCAAATCAGAATGAAAAGAATATG
* * * * * * *
3118851 ACCAGGGTCGTAACCATATGTTAGA-CAAGAAGGAAGCAG-ATTTG
1 ACCAGGGTGGTAACCATACGTCAAATC-AGAATGAA-AAGAATATG
* * *
3118895 ACAAGGGTGATAACCA-ATCGTCAAATC-GAAATGAAAAGAATCTG
1 ACCAGGGTGGTAACCATA-CGTCAAATCAG-AATGAAAAGAATATG
* *
3118939 ACTAGGGTGGTAGCCATACGTCA
1 ACCAGGGTGGTAACCATACGTCA
3118962 GACTAAAATT
Statistics
Matches: 84, Mismatches: 20, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
43 5 0.06
44 75 0.89
45 4 0.05
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (44 bp):
ACCAGGGTGGTAACCATACGTCAAATCAGAATGAAAAGAATATG
Found at i:3118867 original size:88 final size:88
Alignment explanation
Indices: 3118761--3118964 Score: 259
Period size: 88 Copynumber: 2.3 Consensus size: 88
3118751 GCAAATTGTT
* * * * *
3118761 TGACCAGGGTGGTAACCATAAGTCAGGCAAGAAGGAGGCAGATTTAACCATGGTGGTAACC-ATA
1 TGACCAGGGTGGTAACCATAAGTCAGACAAGAAGGAAGCAGATTTAACAAGGGTGATAACCAAT-
3118825 CGTCAAATC-AGAATGAAAAGAATA
65 CGTCAAATCGA-AATGAAAAGAATA
* * * *
3118849 TGACCAGGGTCGTAACCATATGTTAGACAAGAAGGAAGCAGATTTGACAAGGGTGATAACCAATC
1 TGACCAGGGTGGTAACCATAAGTCAGACAAGAAGGAAGCAGATTTAACAAGGGTGATAACCAATC
*
3118914 GTCAAATCGAAATGAAAAGAATC
66 GTCAAATCGAAATGAAAAGAATA
* * *
3118937 TGACTAGGGTGGTAGCCATACGTCAGAC
1 TGACCAGGGTGGTAACCATAAGTCAGAC
3118965 TAAAATTAAA
Statistics
Matches: 99, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
88 96 0.97
89 3 0.03
ACGTcount: A:0.38, C:0.17, G:0.26, T:0.19
Consensus pattern (88 bp):
TGACCAGGGTGGTAACCATAAGTCAGACAAGAAGGAAGCAGATTTAACAAGGGTGATAACCAATC
GTCAAATCGAAATGAAAAGAATA
Found at i:3119040 original size:48 final size:48
Alignment explanation
Indices: 3118969--3119084 Score: 151
Period size: 48 Copynumber: 2.4 Consensus size: 48
3118959 TCAGACTAAA
* * *
3118969 ATTAAAAGAGTTTGACCAAGTCCTAACACCAATACAATTAAATGAGGG
1 ATTAAAAAAGTTTGACCAAGTCCTAACACCAATACAATCAAACGAGGG
* *
3119017 ATTAAAAAAGTTTGACCAAGTCCTAACATCAATACAGTCAAACGAGGG
1 ATTAAAAAAGTTTGACCAAGTCCTAACACCAATACAATCAAACGAGGG
** *
3119065 AAGAAAAAGAGTTTAACCAA
1 ATTAAAAA-AGTTTGACCAA
3119085 ATACAGTCAA
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
48 49 0.83
49 10 0.17
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.21
Consensus pattern (48 bp):
ATTAAAAAAGTTTGACCAAGTCCTAACACCAATACAATCAAACGAGGG
Found at i:3119481 original size:92 final size:92
Alignment explanation
Indices: 3119324--3119556 Score: 308
Period size: 92 Copynumber: 2.5 Consensus size: 92
3119314 CTTATGGTCA
* ** ** * *
3119324 TGTAATGCATTAGTACCATCTAGTGGGAGGGAAAAAGGG-GTATGATTGGGAATAAGTGGTCAGG
1 TGTAATGCATCAGTACCATCTAGTGGTTGGG-TGAAGGGAATATGATTGGAAATAAGTGGTCAGG
*
3119388 ATATCCTTGCCCCAAGGAT-TTCAGGCTT
65 ATATCCTTGCCCCAAGGATATT-AGGATT
* * *
3119416 TGTAATGCATCAGTACCATTTAGTGGTTGGGTGAAGGGAATATTATTGGAAATAAGTGGTTAGGA
1 TGTAATGCATCAGTACCATCTAGTGGTTGGGTGAAGGGAATATGATTGGAAATAAGTGGTCAGGA
*
3119481 TATCCTTGCCCCAAGGATATTGGGATT
66 TATCCTTGCCCCAAGGATATTAGGATT
* *
3119508 TGTGATGCATCAGTACCATCTAATGGTTGGGTGAAGGGAATATGATTGG
1 TGTAATGCATCAGTACCATCTAGTGGTTGGGTGAAGGGAATATGATTGG
3119557 GAATGTGGGG
Statistics
Matches: 123, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
91 5 0.04
92 116 0.94
93 2 0.02
ACGTcount: A:0.28, C:0.12, G:0.30, T:0.30
Consensus pattern (92 bp):
TGTAATGCATCAGTACCATCTAGTGGTTGGGTGAAGGGAATATGATTGGAAATAAGTGGTCAGGA
TATCCTTGCCCCAAGGATATTAGGATT
Found at i:3120209 original size:22 final size:23
Alignment explanation
Indices: 3120182--3120224 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
3120172 TGGCAAATTC
3120182 ATATTAAATG-ATGCAAATGCCA
1 ATATTAAATGAATGCAAATGCCA
**
3120204 ATATTATTTGAATGCAAATGC
1 ATATTAAATGAATGCAAATGC
3120225 ATGTAAAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.33
Consensus pattern (23 bp):
ATATTAAATGAATGCAAATGCCA
Found at i:3120489 original size:6 final size:6
Alignment explanation
Indices: 3120473--3120506 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
3120463 AGTATTCTGT
3120473 TTTTTG TTTTTTG TTTTT- TTTTTG TTTTTG TTTT
1 TTTTTG -TTTTTG TTTTTG TTTTTG TTTTTG TTTT
3120507 ATTTTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.19
6 15 0.58
7 6 0.23
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (6 bp):
TTTTTG
Found at i:3120494 original size:17 final size:16
Alignment explanation
Indices: 3120472--3120516 Score: 63
Period size: 17 Copynumber: 2.7 Consensus size: 16
3120462 AAGTATTCTG
*
3120472 TTTTTTGTTTTTTGTT
1 TTTTTTTTTTTTTGTT
3120488 TTTTTTTTGTTTTTGTT
1 TTTTTTTT-TTTTTGTT
3120505 TTATTTTTTTTT
1 TT-TTTTTTTTT
3120517 CTTTTGTAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 7 0.27
17 13 0.50
18 6 0.23
ACGTcount: A:0.02, C:0.00, G:0.09, T:0.89
Consensus pattern (16 bp):
TTTTTTTTTTTTTGTT
Found at i:3120495 original size:11 final size:11
Alignment explanation
Indices: 3120474--3120516 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
3120464 GTATTCTGTT
3120474 TTTTGTTTTTTG
1 TTTT-TTTTTTG
3120486 TTTTTTTTTTG
1 TTTTTTTTTTG
* *
3120497 TTTTTGTTTTA
1 TTTTTTTTTTG
3120508 TTTTTTTTT
1 TTTTTTTTT
3120517 CTTTTGTAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
11 24 0.86
12 4 0.14
ACGTcount: A:0.02, C:0.00, G:0.09, T:0.88
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:3123273 original size:20 final size:20
Alignment explanation
Indices: 3123248--3123293 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
3123238 TCCTCTAAAT
3123248 AAGAAAAGCAA-AAAAGAAA
1 AAGAAAAGCAAGAAAAGAAA
*
3123267 AA-AGAAATCAAGAAAAGAAA
1 AAGA-AAAGCAAGAAAAGAAA
3123287 AAGAAAA
1 AAGAAAA
3123294 AAGAAAAAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 1 0.04
19 8 0.35
20 13 0.57
21 1 0.04
ACGTcount: A:0.78, C:0.04, G:0.15, T:0.02
Consensus pattern (20 bp):
AAGAAAAGCAAGAAAAGAAA
Found at i:3123295 original size:13 final size:13
Alignment explanation
Indices: 3123258--3123302 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
3123248 AAGAAAAGCA
3123258 AAAAAGAAAAAAG
1 AAAAAGAAAAAAG
3123271 AAATCAAG--AAAAG
1 AAA--AAGAAAAAAG
3123284 AAAAAGAAAAAAG
1 AAAAAGAAAAAAG
3123297 AAAAAG
1 AAAAAG
3123303 CATGAGAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
11 3 0.11
13 22 0.79
15 3 0.11
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (13 bp):
AAAAAGAAAAAAG
Found at i:3123316 original size:28 final size:26
Alignment explanation
Indices: 3123248--3123299 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 26
3123238 TCCTCTAAAT
*
3123248 AAGAAAAGCAAAAAAGAAAAAAGAAATC
1 AAGAAAAG--AAAAAGAAAAAAGAAAGC
3123276 AAGAAAAGAAAAAGAAAAAAGAAA
1 AAGAAAAGAAAAAGAAAAAAGAAA
3123300 AAGCATGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 16 0.67
28 8 0.33
ACGTcount: A:0.79, C:0.04, G:0.15, T:0.02
Consensus pattern (26 bp):
AAGAAAAGAAAAAGAAAAAAGAAAGC
Found at i:3123319 original size:7 final size:7
Alignment explanation
Indices: 3123251--3123301 Score: 54
Period size: 7 Copynumber: 7.4 Consensus size: 7
3123241 TCTAAATAAG
3123251 AAAAGCAA
1 AAAAG-AA
3123259 AAAAGAA
1 AAAAGAA
3123266 AAAAGAA
1 AAAAGAA
*
3123273 ATCAAG--
1 A-AAAGAA
3123279 AAAAG-A
1 AAAAGAA
3123285 AAAAGAA
1 AAAAGAA
3123292 AAAAGAA
1 AAAAGAA
3123299 AAA
1 AAA
3123302 GCATGAGAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
5 3 0.08
6 6 0.16
7 21 0.55
8 8 0.21
ACGTcount: A:0.80, C:0.04, G:0.14, T:0.02
Consensus pattern (7 bp):
AAAAGAA
Found at i:3124554 original size:153 final size:151
Alignment explanation
Indices: 3124340--3124807 Score: 528
Period size: 153 Copynumber: 3.1 Consensus size: 151
3124330 CCAGTGGCAG
* ** * * * * *
3124340 CCTAAGAGTTAGTTTTAAAATAA-ACGAAAATGCCGCTAGAGGATACCTTTGACGTAAAAGTACC
1 CCTAAGACTTAGTTCCAAAAAAATACAAAAATGCCCCTAG-GGATACTTTTGACGTAGAAGTACC
* * *
3124404 TGATACCCCTAAAAGACTTAAAAAGGATGTGGATGGGGTGAACCTATCCTAAATGCCACCTTTAG
65 TGATACCCCTAAAGGACTTAAAAAGGATGTGGATGGCGTGAACCTATCCTAAATGCCACCTTCAG
* * * *
3124469 CATGAAAGCGGACTTGGTGATAA
130 CATAAAAACAGAC-CGGTGATAA
* *** *
3124492 TCTAAGACTT-GATTTTGAAAAATTACAAAAATGCCCCTAAGGGATACTTTTGACGTAGAAGTAC
1 CCTAAGACTTAG-TTCCAAAAAAATACAAAAATGCCCCT-AGGGATACTTTTGACGTAGAAGTAC
* *
3124556 CTGATACCCCTAAAGGACTAAAAAAGGATGTGGATGGCGTGAATCTATCCTAAATGCCCACCTTC
64 CTGATACCCCTAAAGGACTTAAAAAGGATGTGGATGGCGTGAACCTATCCTAAATG-CCACCTTC
* *
3124621 GGCATAAAAATAGACCGGTGATAA
128 AGCATAAAAACAGACCGGTGATAA
* * *
3124645 CCTAGGACTTAGTTCCAAAAAAATACAAAAATGCCCCTAGGAGATACTTTCGACATAGAAGTACC
1 CCTAAGACTTAGTTCCAAAAAAATACAAAAATGCCCCTAGG-GATACTTTTGACGTAGAAGTACC
* *
3124710 TGATACCCCTAAAGGAC-TAAAATAGGATGTGGATGGTGTGAACCTATCCTAAATGCCCCCCTTC
65 TGATACCCCTAAAGGACTTAAAA-AGGATGTGGATGGCGTGAACCTATCCTAAATG-CCACCTTC
* * * *
3124774 GGCATAAAAGCAGACCCGATAATAA
128 AGCATAAAAACAGA-CCGGTGATAA
*
3124799 CCTAGGACT
1 CCTAAGACT
3124808 CGATTCTCGC
Statistics
Matches: 272, Mismatches: 36, Indels: 14
0.84 0.11 0.04
Matches are distributed among these distances:
151 1 0.00
152 23 0.08
153 211 0.78
154 37 0.14
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (151 bp):
CCTAAGACTTAGTTCCAAAAAAATACAAAAATGCCCCTAGGGATACTTTTGACGTAGAAGTACCT
GATACCCCTAAAGGACTTAAAAAGGATGTGGATGGCGTGAACCTATCCTAAATGCCACCTTCAGC
ATAAAAACAGACCGGTGATAA
Found at i:3124954 original size:116 final size:117
Alignment explanation
Indices: 3124712--3124954 Score: 276
Period size: 116 Copynumber: 2.1 Consensus size: 117
3124702 GAAGTACCTG
* * ** *
3124712 ATACCCCTAAAGGACTAAAATAGGATGTGGATGGTGTGAACCTATCCTAAATGCCCCCCTTCGGC
1 ATACCCCTAAAGGACTAAAAAAGGATGTGGAAGGCATGAACCTATCCTAAATGCCCACCTTCGGC
* ** * ***
3124777 ATAAAAGCAGACCCGATAATAACCTAGGACTCGATTCTCGCAAAAGTACCCG
66 ATAAAAGCAGACCCGATAATAACCTAGGACTCGATTATCAAAAAAATACAAA
*
3124829 ATACGCCTAAAGGACTAAAAAAGGATGTGGAAGGCATGAACCTATCCT-AATGCCCACCTTCGGC
1 ATACCCCTAAAGGACTAAAAAAGGATGTGGAAGGCATGAACCTATCCTAAATGCCCACCTTCGGC
* * * * *
3124893 ATAAAAGC-GAACCTGGTGATAACCTAGGACTTGGTTAT-AAAAAAATACAAAA
66 ATAAAAGCAG-ACCCGATAATAACCTAGGACTCGATTATCAAAAAAATAC-AAA
*
3124945 ATGCCCCTAA
1 ATACCCCTAA
3124955 GGGATACTTT
Statistics
Matches: 104, Mismatches: 20, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
115 8 0.08
116 53 0.51
117 43 0.41
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (117 bp):
ATACCCCTAAAGGACTAAAAAAGGATGTGGAAGGCATGAACCTATCCTAAATGCCCACCTTCGGC
ATAAAAGCAGACCCGATAATAACCTAGGACTCGATTATCAAAAAAATACAAA
Found at i:3125031 original size:270 final size:271
Alignment explanation
Indices: 3124550--3125085 Score: 819
Period size: 270 Copynumber: 2.0 Consensus size: 271
3124540 TTTGACGTAG
* * * *
3124550 AAGTACCTGATACCCCTAAAGGACTAAAAAAGGATGTGGATGGCGTGAATCTATCCTAAATGCCC
1 AAGTACCCGATACCCCTAAAGGACTAAAAAAGGATGTGGAAGGCATGAACCTATCCTAAATGCCC
* *
3124615 ACCTTCGGCATAAAAATAGACCGGTGATAACCTAGGACTTAGTTCCAAAAAAATACAAAAATGCC
66 ACCTTCGGCATAAAAAGAGACCGGTGATAACCTAGGACTTAGTTACAAAAAAATACAAAAATGCC
* * *
3124680 CCTAGGAGATACTTTCGACATAGAAGTACCTGATACCCCTAAAGGACTAAAATAGGATGTGGATG
131 CCTAGGAGATACTTTCAACATAGAAGTACCCGATACCCCTAAAGGACTAAAAAAGGATGTGGATG
** *
3124745 GTGTGAACCTATCCTAAATGCCCCCCTTCGGCAT-AAAAGCAGACCCGATAATAACCTAGGACTC
196 GCATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAAGCAGACCCGATAATAACCTAGGACTC
3124809 GATTCTCGCAA
261 GATTCTCGCAA
*
3124820 AAGTACCCGATACGCCTAAAGGACTAAAAAAGGATGTGGAAGGCATGAACCTATCCT-AATGCCC
1 AAGTACCCGATACCCCTAAAGGACTAAAAAAGGATGTGGAAGGCATGAACCTATCCTAAATGCCC
* * *
3124884 ACCTTCGGCAT-AAAAGCGAACCTGGTGATAACCTAGGACTTGGTTATAAAAAAATACAAAAATG
66 ACCTTCGGCATAAAAAGAG-ACC-GGTGATAACCTAGGACTTAGTTACAAAAAAATACAAAAATG
*
3124948 CCCCTAAGG-GATACTTTCAACGTAGAAGTACCCGATACCCCTAAAGGACTAAAAAAGGATGTGG
129 CCCCT-AGGAGATACTTTCAACATAGAAGTACCCGATACCCCTAAAGGACTAAAAAAGGATGTGG
* * * * *
3125012 ATGGCATGAACCTATCCTAAATGCTCAGCTTCGGCATAAAAAGCAGACTCGGTGATAACCTAGGA
193 ATGGCATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAAGCAGACCCGATAATAACCTAGGA
3125077 CTCGATTCT
258 CTCGATTCT
3125086 GAAAAATACA
Statistics
Matches: 240, Mismatches: 22, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
268 5 0.02
269 21 0.09
270 178 0.74
271 36 0.15
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (271 bp):
AAGTACCCGATACCCCTAAAGGACTAAAAAAGGATGTGGAAGGCATGAACCTATCCTAAATGCCC
ACCTTCGGCATAAAAAGAGACCGGTGATAACCTAGGACTTAGTTACAAAAAAATACAAAAATGCC
CCTAGGAGATACTTTCAACATAGAAGTACCCGATACCCCTAAAGGACTAAAAAAGGATGTGGATG
GCATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAAGCAGACCCGATAATAACCTAGGACTC
GATTCTCGCAA
Found at i:3125294 original size:154 final size:153
Alignment explanation
Indices: 3124820--3125269 Score: 645
Period size: 154 Copynumber: 2.9 Consensus size: 153
3124810 ATTCTCGCAA
* *
3124820 AAGTACCCGATACGCCTAAAGGACTAAAAAAGGATGTGGAAGGCATGAACCTATCCT-AATGCCC
1 AAGTACCCGATACCCCTAAAGGACTAAAAAAGGATGTGGATGGCATGAACCTATCCTAAATGCCC
* * *
3124884 ACCTTCGGCATAAAAGCGAACCTGGTGATAACCTAGGACTTGGTTATAAAAAAATACAAAAATGC
66 ACCTTCGGCATAAAAGCGGACCTGGTGATAACCTAGGACTTGATTAT-GAAAAATACAAAAATGC
* *
3124949 CCCTAAGGGATACTTTCAACGTAG
130 CCTTAGGGGATACTTTCAACGTAG
*
3124973 AAGTACCCGATACCCCTAAAGGACTAAAAAAGGATGTGGATGGCATGAACCTATCCTAAATGCTC
1 AAGTACCCGATACCCCTAAAGGACTAAAAAAGGATGTGGATGGCATGAACCTATCCTAAATGCCC
* * * *
3125038 AGCTTCGGCATAAAAAGCAGA-CTCGGTGATAACCTAGGACTCGATTCTGAAAAATACAAAAATG
66 ACCTTCGGCAT-AAAAGCGGACCT-GGTGATAACCTAGGACTTGATTATGAAAAATACAAAAATG
*
3125102 CCGTT-GGGGAATACTTTCAACGTAG
129 CCCTTAGGGG-ATACTTTCAACGTAG
** *
3125127 AAGTACCCGATACCTTTAAAGGACTAAAAAAAGATGTGGATGGCATGAACCTATCCTAAATGCCC
1 AAGTACCCGATACCCCTAAAGGACTAAAAAAGGATGTGGATGGCATGAACCTATCCTAAATGCCC
* * * * *
3125192 ACCTTTGGCATAAAAGTGGACCTAGTGATAACCTAAGACTTGATTATGAAAAATTAAAAAAATGC
66 ACCTTCGGCATAAAAGCGGACCTGGTGATAACCTAGGACTTGATTATGAAAAA-TACAAAAATGC
3125257 CCTTAGGGGATAC
130 CCTTAGGGGATAC
3125270 CATCGATATA
Statistics
Matches: 263, Mismatches: 27, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
153 91 0.35
154 140 0.53
155 32 0.12
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (153 bp):
AAGTACCCGATACCCCTAAAGGACTAAAAAAGGATGTGGATGGCATGAACCTATCCTAAATGCCC
ACCTTCGGCATAAAAGCGGACCTGGTGATAACCTAGGACTTGATTATGAAAAATACAAAAATGCC
CTTAGGGGATACTTTCAACGTAG
Found at i:3125625 original size:148 final size:152
Alignment explanation
Indices: 3125452--3125905 Score: 639
Period size: 168 Copynumber: 2.9 Consensus size: 152
3125442 AAAAAGATAT
* *
3125452 GAAAAGTTTTGAAAATCTTATATACCCCTACAGATGCCCATAGGAATATAAAAGATTAAAAAAGA
1 GAAAAGTTTTGAAAATCTTTTATACCCCTACGGATGCCCATAGGAATATAAAAGATTAAAAAAGA
3125517 TGATTAAAATTTATTTTGATTATGAAAATGTTAATTTAATTATTTATTTATTTAATTTCGAAAAA
66 TGATTAAAATTTATTTTGATTATGAAAATGTTAATTTAATTATTTATTTATTTAATTTCGAAAAA
3125582 TATCATTTC-A-T-ACA-TA-C
131 TATCATTTCGACTAACAGTACC
*
3125599 GAAAAGTTTTTGGAAATCTTTTATACCCCTACGGATGCCCATAGGAATATAAAAGATTAAAAAAG
1 GAAAAG-TTTTGAAAATCTTTTATACCCCTACGGATGCCCATAGGAATATAAAAGATTAAAAAAG
3125664 ATGATTAAAATTTATTTTGATTATGAAAATGTTAATTTAATTATTTATTTATTTAATTTCGAAAA
65 ATGATTAAAATTTATTTTGATTATGAAAATGTTAATTTAATTATTTATTTATTTAATTTCGAAAA
*
3125729 ATATCATTTCGTACCTTAATAGTAGCCCGAAAAGATAC
130 ATATCATTTCG-A-C-TAACAGTA---C---------C
* *
3125767 GAAAAGTTTTTGAAAATCTTTTATACCCCTATGGATGCTCATAGGAATATAAAAGATTAAAAAAG
1 GAAAAG-TTTTGAAAATCTTTTATACCCCTACGGATGCCCATAGGAATATAAAAGATTAAAAAAG
* *
3125832 ATGATTAAAATTTATTTTGGTTATGAAAGTGTTAATTTAATTATTTATTTATTTAATTTCGAAAA
65 ATGATTAAAATTTATTTTGATTATGAAAATGTTAATTTAATTATTTATTTATTTAATTTCGAAAA
*
3125897 ATATTATTT
130 ATATCATTT
3125906 TGTACCTTAA
Statistics
Matches: 276, Mismatches: 10, Indels: 21
0.90 0.03 0.07
Matches are distributed among these distances:
147 6 0.02
148 130 0.47
150 1 0.00
153 1 0.00
154 2 0.01
155 2 0.01
168 134 0.49
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (152 bp):
GAAAAGTTTTGAAAATCTTTTATACCCCTACGGATGCCCATAGGAATATAAAAGATTAAAAAAGA
TGATTAAAATTTATTTTGATTATGAAAATGTTAATTTAATTATTTATTTATTTAATTTCGAAAAA
TATCATTTCGACTAACAGTACC
Found at i:3125786 original size:168 final size:168
Alignment explanation
Indices: 3125595--3126006 Score: 691
Period size: 168 Copynumber: 2.5 Consensus size: 168
3125585 CATTTCATAC
*
3125595 ATACGAAAAGTTTTTGGAAATCTTTTATACCCCTACGGATGCCCATAGGAATATAAAAGATTAAA
1 ATACGAAAAGTTTTTGAAAATCTTTTATACCCCTACGGATGCCCATAGGAATATAAAAGATTAAA
3125660 AAAGATGATTAAAATTTATTTTGATTATGAAAATGTTAATTTAATTATTTATTTATTTAATTTCG
66 AAAGATGATTAAAATTTATTTTGATTATGAAAATGTTAATTTAATTATTTATTTATTTAATTTCG
*
3125725 AAAAATATCATTTCGTACCTTAATAGTAGCCCGAAAAG
131 AAAAATATCATTTCGTACCTTAATAGAAGCCCGAAAAG
* *
3125763 ATACGAAAAGTTTTTGAAAATCTTTTATACCCCTATGGATGCTCATAGGAATATAAAAGATTAAA
1 ATACGAAAAGTTTTTGAAAATCTTTTATACCCCTACGGATGCCCATAGGAATATAAAAGATTAAA
* *
3125828 AAAGATGATTAAAATTTATTTTGGTTATGAAAGTGTTAATTTAATTATTTATTTATTTAATTTCG
66 AAAGATGATTAAAATTTATTTTGATTATGAAAATGTTAATTTAATTATTTATTTATTTAATTTCG
* * *
3125893 AAAAATATTATTTTGTACCTTAATGGAAGCCCGAAAAG
131 AAAAATATCATTTCGTACCTTAATAGAAGCCCGAAAAG
* * * *
3125931 ATACGAAAAGTTTTTGAAAATCTTTTA-ATCCCTACGGATGCCAATAAGAATGTAAAAGATTAAA
1 ATACGAAAAGTTTTTGAAAATCTTTTATACCCCTACGGATGCCCATAGGAATATAAAAGATTAAA
*
3125995 AAAGATAATTAA
66 AAAGATGATTAA
3126007 TATGGAAATA
Statistics
Matches: 228, Mismatches: 16, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
167 42 0.18
168 186 0.82
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (168 bp):
ATACGAAAAGTTTTTGAAAATCTTTTATACCCCTACGGATGCCCATAGGAATATAAAAGATTAAA
AAAGATGATTAAAATTTATTTTGATTATGAAAATGTTAATTTAATTATTTATTTATTTAATTTCG
AAAAATATCATTTCGTACCTTAATAGAAGCCCGAAAAG
Found at i:3127483 original size:17 final size:19
Alignment explanation
Indices: 3127447--3127484 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
3127437 TTAGTGTAAG
*
3127447 AAATTCAACATTTGTAAAA
1 AAATTCAACAATTGTAAAA
3127466 AAATTCAA-AATT-TAAAA
1 AAATTCAACAATTGTAAAA
3127483 AA
1 AA
3127485 TAATTTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 3 0.17
19 8 0.44
ACGTcount: A:0.61, C:0.08, G:0.03, T:0.29
Consensus pattern (19 bp):
AAATTCAACAATTGTAAAA
Found at i:3127484 original size:19 final size:19
Alignment explanation
Indices: 3127447--3127489 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
3127437 TTAGTGTAAG
* **
3127447 AAATTCAACATTTGTAAAA
1 AAATTCAAAATTTAAAAAA
3127466 AAATTCAAAATTTAAAAAA
1 AAATTCAAAATTTAAAAAA
*
3127485 TAATT
1 AAATT
3127490 TGAATTTCTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (19 bp):
AAATTCAAAATTTAAAAAA
Found at i:3127899 original size:167 final size:165
Alignment explanation
Indices: 3127611--3128087 Score: 557
Period size: 167 Copynumber: 2.9 Consensus size: 165
3127601 GTTTCTCAAG
* * * * *
3127611 AATTTCAA-TAAAAAATCCAAAACTCATGAAAATGAATTAATTTTTTAAAAAAGAATTAATATG-
1 AATTTCAAGAAAAAAATCAAAAACTCATGAAAATGAA-TAAATTTTTGAAAACGAATTAATATGA
* * * * * *
3127674 AATCCAATGATGATGTTTGATGAATTCTAAAAGTTGAAAACTGAGAAAAATGCCCTCAAAAAAAT
65 AAT-AAATGATAATGTTTGATGAATTTTAAAAATTGAAAACTAAGAAAAATCCCCTCAAAAAAAT
* * * * **
3127739 TTACGAAGTAGAAAATACCATATTTAGGAAAAATG-GG
129 TTACGGAGTAGAAAACACCATATTT-CGAAAAAAGAAA
* * *
3127776 AGTTTCAAAGAAAAAAATAAAAAACTCATGAAAATGAATGAATTTTTGAAAACTGAATTAATATG
1 AATTTC-AAGAAAAAAATCAAAAACTCATGAAAATGAATAAATTTTTGAAAAC-GAATTAATATG
*
3127841 AAATAAATGATAATGTTTGATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTCAAAAAAAT
64 AAATAAATGATAATGTTTGATGAATTTTAAAAATTGAAAACTAAGAAAAATCCCCTCAAAAAAAT
* *
3127906 TTACGGAGTAGAAAACATCGTATTTCGAAAAAAGAAA
129 TTACGGAGTAGAAAACACCATATTTCGAAAAAAGAAA
* * *
3127943 AATTTCAAGGAAAAAATCAAAAGCTCTTGAAAATGAATAAATTTTTGAAAACGCAAATTAATATG
1 AATTTCAAGAAAAAAATCAAAAACTCATGAAAATGAATAAATTTTTGAAAACG--AATTAATATG
* * * * * *
3128008 AGATAAATGATAATGTTTTATGAGTTTTAAAAATTAAAAATTAAGAAAAATCCTCC-GAAAAAAA
64 AAATAAATGATAATGTTTGATGAATTTTAAAAATTGAAAACTAAGAAAAATCC-CCTCAAAAAAA
*
3128072 TTTACGGAGAAGAAAA
128 TTTACGGAGTAGAAAA
3128088 ATGCGTAATT
Statistics
Matches: 267, Mismatches: 37, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
165 6 0.02
166 61 0.23
167 195 0.73
168 5 0.02
ACGTcount: A:0.51, C:0.09, G:0.13, T:0.27
Consensus pattern (165 bp):
AATTTCAAGAAAAAAATCAAAAACTCATGAAAATGAATAAATTTTTGAAAACGAATTAATATGAA
ATAAATGATAATGTTTGATGAATTTTAAAAATTGAAAACTAAGAAAAATCCCCTCAAAAAAATTT
ACGGAGTAGAAAACACCATATTTCGAAAAAAGAAA
Found at i:3129619 original size:31 final size:31
Alignment explanation
Indices: 3129584--3129723 Score: 120
Period size: 31 Copynumber: 4.5 Consensus size: 31
3129574 TACCACCAAT
** *
3129584 TTGTGTGGGCTTTGACTCAA-GTGCCGTCGAC
1 TTGTGTGGGCTTTGACT-AAGGTGCCAACAAC
* * *
3129615 TTGTGCGGGCATTGACTAAGGTGTCAACAAC
1 TTGTGTGGGCTTTGACTAAGGTGCCAACAAC
* ** *
3129646 TTGTGTGGGCTTTGATTTGGGTGCCACCAAC
1 TTGTGTGGGCTTTGACTAAGGTGCCAACAAC
* * * * *
3129677 TTGTGCGAGCTTTGAATAGGGTGCCACCAAC
1 TTGTGTGGGCTTTGACTAAGGTGCCAACAAC
*
3129708 TCGTGTGGGCTTTGAC
1 TTGTGTGGGCTTTGAC
3129724 ATTCTAAGGC
Statistics
Matches: 87, Mismatches: 21, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
30 2 0.02
31 85 0.98
ACGTcount: A:0.17, C:0.21, G:0.31, T:0.31
Consensus pattern (31 bp):
TTGTGTGGGCTTTGACTAAGGTGCCAACAAC
Found at i:3129867 original size:31 final size:31
Alignment explanation
Indices: 3129787--3129872 Score: 93
Period size: 31 Copynumber: 2.8 Consensus size: 31
3129777 AACTTATGTG
* *
3129787 CCACCAACTCGAGTGGGCTTTGACTCGGGTA
1 CCACCAACTCGTGTGGGCTTTGACTCGGGCA
*** * *
3129818 CTGTCAACAT-GTGCGGGCTTTGACTGGGGCA
1 CCACCAAC-TCGTGTGGGCTTTGACTCGGGCA
3129849 CCACCAACTCGTGTGGGCTTTGAC
1 CCACCAACTCGTGTGGGCTTTGAC
3129873 ATTTTATGGC
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
30 1 0.02
31 40 0.95
32 1 0.02
ACGTcount: A:0.17, C:0.28, G:0.30, T:0.24
Consensus pattern (31 bp):
CCACCAACTCGTGTGGGCTTTGACTCGGGCA
Found at i:3129912 original size:149 final size:149
Alignment explanation
Indices: 3129649--3130483 Score: 516
Period size: 149 Copynumber: 5.6 Consensus size: 149
3129639 CAACAACTTG
* * * * * *
3129649 TGTGGGCTTTGATTTGGGTGCCA-CCAACTTGTGCGAGCTTTGAATAGGGTGCCACCAACTCGTG
1 TGTGGGCTTTGACTCGGGT-ACAGCCAACATGTGCGGGCTTTGACTAGGGTGCCACCAACTCGTG
3129713 TGGGCTTTGACATTCTAAGGCTTAACCAACTTACACAGGGGCCAACTAATGTGGACTTGACTCAA
65 TGGGCTTTGACATTCTAAGGCTTAACCAACTTACACAGGGGCCAACTAATGTGGACTTGACTCAA
*
3129778 ACTTA-TGTGCCACCAACTCGA
130 ACTTAGT-TACCACCAACTC-A
* * * **
3129799 -GTGGGCTTTGACTCGGGTACTGTCAACATGTGCGGGCTTTGACTGGGGCACCACCAACTCGTGT
1 TGTGGGCTTTGACTCGGGTACAGCCAACATGTGCGGGCTTTGACTAGGGTGCCACCAACTCGTGT
* * * * * **
3129863 GGGCTTTGACATTTTATGGCTTAA-CATCCTTAGACAGGTGCCAACTAATGTGGACTTGACTCGG
66 GGGCTTTGACATTCTAAGGCTTAACCA-ACTTACACAGGGGCCAACTAATGTGGACTTGACTCAA
3129927 ACTTAGTTACCACCAACTCA
130 ACTTAGTTACCACCAACTCA
* * * * **
3129947 TGTGGGCTTTGTCTCGGGTGCAGCCAACAAGTGTGGGCTTCAACTAGGGTGCCACCAACTCGTGT
1 TGTGGGCTTTGACTCGGGTACAGCCAACATGTGCGGGCTTTGACTAGGGTGCCACCAACTCGTGT
* * * * * * * * ** * *
3130012 AGGCTTTAACATCCTAGGGCTTGACC-TCTTTAGAAAAAGGCCATC-AA-GTTCAGACTTGACTC
66 GGGCTTTGACATTCTAAGGCTTAACCAAC-TTACACAGGGGCCAACTAATG-T-GGACTTGACTC
* * ** *
3130074 GAACGTAAATGCCACCAACTCA
128 AAACTTAGTTACCACCAACTCA
** ** * * * *
3130096 AATAAGCTTTGACTCGGGTGCCA-CCAACTTGTGCGGGCTTTGACTAGGTTGCCACCAACTCGTA
1 TGTGGGCTTTGACTCGGGT-ACAGCCAACATGTGCGGGCTTTGACTAGGGTGCCACCAACTCGTG
* * * * ** * * * * * * *
3130160 TGGGCATTGATATTCCCAA-AC-TAAGCCTCCTCAGATAAGTGG-CTACTAATCTAGG-CATGAC
65 TGGGCTTTGACATT-CTAAGGCTTAA-CCAACTTACA-CAGGGGCCAACTAATGT-GGACTTGAC
* * * * *
3130221 TCGAGCCTAGTTGCCACCAACTCG
126 TCAAACTTAGTTACCACCAACTCA
* * * * * * *
3130245 TGCGGGCATTGACTC-AGTGCCA-CCAACATGTGTGGGCTTTGACTACGGTGCCACCAACTCGGG
1 TGTGGGCTTTGACTCGGGT-ACAGCCAACATGTGCGGGCTTTGACTAGGGTGCCACCAACTCGTG
* * * ** * * * *
3130308 TGGGTTTTAACATTCTAAGGCTTAACCACCTTAGGCAGGTGCTAACTAATTTGGACTTGACTCAT
65 TGGGCTTTGACATTCTAAGGCTTAACCAACTTACACAGGGGCCAACTAATGTGGACTTGACTCAA
* *
3130373 ACGTAAG-TGCCACCAACTCA
130 AC-TTAGTTACCACCAACTCA
* * ** * ** * * * * *
3130393 TGTGGGCTTTGACTCAGGTGCCA-CCAATTTGTGCAGGCAATAAGT-GCAGCGCCACTAACTCGT
1 TGTGGGCTTTGACTCGGGT-ACAGCCAACATGTGCGGGCTTTGACTAG-GGTGCCACCAACTCGT
*
3130456 GTGGGCTTTGACATTCGAAGGCTTAACC
64 GTGGGCTTTGACATTCTAAGGCTTAACC
3130484 TCCTTTGAAA
Statistics
Matches: 524, Mismatches: 139, Indels: 45
0.74 0.20 0.06
Matches are distributed among these distances:
147 9 0.02
148 109 0.21
149 391 0.75
150 15 0.03
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.26
Consensus pattern (149 bp):
TGTGGGCTTTGACTCGGGTACAGCCAACATGTGCGGGCTTTGACTAGGGTGCCACCAACTCGTGT
GGGCTTTGACATTCTAAGGCTTAACCAACTTACACAGGGGCCAACTAATGTGGACTTGACTCAAA
CTTAGTTACCACCAACTCA
Found at i:3130311 original size:31 final size:30
Alignment explanation
Indices: 3130232--3130311 Score: 99
Period size: 30 Copynumber: 2.6 Consensus size: 30
3130222 CGAGCCTAGT
*
3130232 TGCCACCAACTCGTGCGGGCATTGACTCAG
1 TGCCACCAACTCGTGTGGGCATTGACTCAG
* *
3130262 TGCCACCAACAT-GTGTGGGCTTTGACTACGG
1 TGCCACCAAC-TCGTGTGGGCATTGACT-CAG
*
3130293 TGCCACCAACTCGGGTGGG
1 TGCCACCAACTCGTGTGGG
3130312 TTTTAACATT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
30 24 0.56
31 19 0.44
ACGTcount: A:0.19, C:0.30, G:0.30, T:0.21
Consensus pattern (30 bp):
TGCCACCAACTCGTGTGGGCATTGACTCAG
Found at i:3130793 original size:31 final size:31
Alignment explanation
Indices: 3130741--3130827 Score: 83
Period size: 31 Copynumber: 2.8 Consensus size: 31
3130731 CTCGACCTTA
3130741 GGTGCCACCAATTCATGTGGGCTTTG-CT-T
1 GGTGCCACCAATTCATGTGGGCTTTGACTAT
3130770 CGGGTGCCACCAA-T-ATGTTTGGGCTTTGACTAT
1 --GGTGCCACCAATTCATG--TGGGCTTTGACTAT
* * *
3130803 GGTGCCACCAACTCGTGTTGGCTTT
1 GGTGCCACCAATTCATGTGGGCTTT
3130828 AACATTCTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
29 3 0.06
30 1 0.02
31 38 0.79
32 3 0.06
33 3 0.06
ACGTcount: A:0.15, C:0.24, G:0.28, T:0.33
Consensus pattern (31 bp):
GGTGCCACCAATTCATGTGGGCTTTGACTAT
Found at i:3130864 original size:149 final size:149
Alignment explanation
Indices: 3130646--3131215 Score: 594
Period size: 149 Copynumber: 3.8 Consensus size: 149
3130636 TGTGCTGGCT
* * * **
3130646 TTGACTAGGGTGCCACCAAATCGTGTGGGCTTTGACATTCTAAGGCTTAACCTCCTTAGATTGGT
1 TTGACTAGGGTGCCACCAACTCGTGTTGGCTTTAACATTCTAAGGCTTAACCTCCTTAGACAGGT
* *
3130711 GCCAACT-ATTGTGGACTTGACTCGACCTTAGGTGCCACCAATTCATGTGGGCTTTG-CTTCGGG
66 GCCAACTAATT-TGGACTTGACTCGAACTTAGGTGCCACCAACTCATGTGGGCTTTGAC-TCGGG
* *
3130774 TGCCACCAATATGTTTGGGCT
129 TGCCACCAATATGTGTGGGCG
* * * **
3130795 TTGACTATGGTGCCACCAACTCGTGTTGGCTTTAACATTCTAAGGCTTGACCTCCTTAGAAAAAT
1 TTGACTAGGGTGCCACCAACTCGTGTTGGCTTTAACATTCTAAGGCTTAACCTCCTTAGACAGGT
* * ** ****
3130860 GCCAACTAATTTGGACTTGACTCAAACGTAAATGCCACCAACTCGA-AAAAGCTTTGACTCGGGT
66 GCCAACTAATTTGGACTTGACTCGAACTTAGGTGCCACCAACTC-ATGTGGGCTTTGACTCGGGT
* *
3130924 GCCACCAACT-TCTGCGGGCG
130 GCCACCAA-TATGTGTGGGCG
* * * *
3130944 TTGACTAGGGTGCCACCAACTCAT-TTGGGCATTGACATTCTAAGGCTTAACCTCTTTAGACAGG
1 TTGACTAGGGTGCCACCAACTCGTGTT-GGCTTTAACATTCTAAGGCTTAACCTCCTTAGACAGG
*** * * * * * **
3131008 TGCCTGTTAATGTGCACTTTACTCGAGCTTAGGTGCCACCAACTCATGTGGGCATTGACTAAGGT
65 TGCCAACTAATTTGGACTTGACTCGAACTTAGGTGCCACCAACTCATGTGGGCTTTGACTCGGGT
* * *
3131073 GCCGCCAACATGTGTAGGCG
130 GCCACCAATATGTGTGGGCG
* * * * * * *
3131093 TTGACCAGGGTGGCACCAACTCGTGTAGGCTTTAACATTCTAAGGCTTGACATCCTCAGGCAGGT
1 TTGACTAGGGTGCCACCAACTCGTGTTGGCTTTAACATTCTAAGGCTTAACCTCCTTAGACAGGT
* *
3131158 GCCAACTAATTTGGACTTGACTC-AAATCTATGTGCCACCAACTCATGTGGGCTTTGAC
66 GCCAACTAATTTGGACTTGACTCGAACT-TAGGTGCCACCAACTCATGTGGGCTTTGAC
3131216 ATTCTAAGGC
Statistics
Matches: 336, Mismatches: 76, Indels: 18
0.78 0.18 0.04
Matches are distributed among these distances:
148 5 0.01
149 324 0.96
150 7 0.02
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (149 bp):
TTGACTAGGGTGCCACCAACTCGTGTTGGCTTTAACATTCTAAGGCTTAACCTCCTTAGACAGGT
GCCAACTAATTTGGACTTGACTCGAACTTAGGTGCCACCAACTCATGTGGGCTTTGACTCGGGTG
CCACCAATATGTGTGGGCG
Found at i:3131215 original size:298 final size:298
Alignment explanation
Indices: 3130630--3131201 Score: 770
Period size: 298 Copynumber: 1.9 Consensus size: 298
3130620 GTGCCACCCG
* * * * *
3130630 CCAACTTGTGCTGGCTTTGACTAGGGTGCCACCAAATCGTGTGGGCTTTGACATTCTAAGGCTTA
1 CCAACTTCTGCGGGCGTTGACTAGGGTGCCACCAAATCATGTGGGCATTGACATTCTAAGGCTTA
** * * *
3130695 ACCTCCTTAGATTGGTGCCAACTATTGTGGACTTGACTCGACCTTAGGTGCCACCAATTCATGTG
66 ACCTCCTTAGACAGGTGCCAACTAATGTGCACTTGACTCGACCTTAGGTGCCACCAACTCATGTG
* ** * * * * * * *
3130760 GGCTTTGCTTCGGGTGCCACCAATATGTTTGGGCTTTGACTATGGTGCCACCAACTCGTGTTGGC
131 GGCATTGCTTAAGGTGCCACCAACATGTGTAGGCGTTGACCAGGGTGCCACCAACTCGTGTAGGC
* *
3130825 TTTAACATTCTAAGGCTTGACCTCCTTAGAAAAATGCCAACTAATTTGGACTTGACTCAAACGTA
196 TTTAACATTCTAAGGCTTGACATCCTCAGAAAAATGCCAACTAATTTGGACTTGACTCAAACGTA
3130890 AATGCCACCAACTCGAAAAAGCTTTGACTCGGGTGCCA
261 AATGCCACCAACTCGAAAAAGCTTTGACTCGGGTGCCA
* *
3130928 CCAACTTCTGCGGGCGTTGACTAGGGTGCCACCAACTCATTTGGGCATTGACATTCTAAGGCTTA
1 CCAACTTCTGCGGGCGTTGACTAGGGTGCCACCAAATCATGTGGGCATTGACATTCTAAGGCTTA
* *** * *
3130993 ACCTCTTTAGACAGGTGCCTGTTAATGTGCACTTTACTCGAGCTTAGGTGCCACCAACTCATGTG
66 ACCTCCTTAGACAGGTGCCAACTAATGTGCACTTGACTCGACCTTAGGTGCCACCAACTCATGTG
* *
3131058 GGCATTGAC-TAAGGTGCCGCCAACATGTGTAGGCGTTGACCAGGGTGGCACCAACTCGTGTAGG
131 GGCATTG-CTTAAGGTGCCACCAACATGTGTAGGCGTTGACCAGGGTGCCACCAACTCGTGTAGG
** **
3131122 CTTTAACATTCTAAGGCTTGACATCCTCAGGCAGGTGCCAACTAATTTGGACTTGACTCAAATC-
195 CTTTAACATTCTAAGGCTTGACATCCTCAGAAAAATGCCAACTAATTTGGACTTGACTCAAA-CG
**
3131186 TATGTGCCACCAACTC
259 TAAATGCCACCAACTC
3131202 ATGTGGGCTT
Statistics
Matches: 234, Mismatches: 38, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
298 232 0.99
299 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.28
Consensus pattern (298 bp):
CCAACTTCTGCGGGCGTTGACTAGGGTGCCACCAAATCATGTGGGCATTGACATTCTAAGGCTTA
ACCTCCTTAGACAGGTGCCAACTAATGTGCACTTGACTCGACCTTAGGTGCCACCAACTCATGTG
GGCATTGCTTAAGGTGCCACCAACATGTGTAGGCGTTGACCAGGGTGCCACCAACTCGTGTAGGC
TTTAACATTCTAAGGCTTGACATCCTCAGAAAAATGCCAACTAATTTGGACTTGACTCAAACGTA
AATGCCACCAACTCGAAAAAGCTTTGACTCGGGTGCCA
Found at i:3131218 original size:87 final size:87
Alignment explanation
Indices: 3131106--3131302 Score: 234
Period size: 87 Copynumber: 2.3 Consensus size: 87
3131096 ACCAGGGTGG
* * * * * *
3131106 CACCAACTCGTGTAGGCTTTAACATTCTAAGGCTTGACATCCTCAGGCAGGTGCCAACTAATTTG
1 CACCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAACACCCTCAGACAGGTGCCAACTAATGTG
* * **
3131171 GACTTGACTCAAA-TCTATGTGC
66 GACCTGACTCAAACT-TAGGCAC
* * * *
3131193 CACCAACTCATGTGGGCTTTGACATTCTAAGGCTTAACCCCCTTAGATAGGTGCCAACTAATGTG
1 CACCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAACACCCTCAGACAGGTGCCAACTAATGTG
*
3131258 GACCTGACTCGAACTTAGGCAC
66 GACCTGACTCAAACTTAGGCAC
*
3131280 CACCAACTCGTATGGGCTTTGAC
1 CACCAACTCGTGTGGGCTTTGAC
3131303 TAGGATGCTG
Statistics
Matches: 92, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
87 91 0.99
88 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (87 bp):
CACCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAACACCCTCAGACAGGTGCCAACTAATGTG
GACCTGACTCAAACTTAGGCAC
Found at i:3131257 original size:236 final size:236
Alignment explanation
Indices: 3130952--3131451 Score: 614
Period size: 236 Copynumber: 2.1 Consensus size: 236
3130942 CGTTGACTAG
* * * * ***
3130952 GGTGCCACCAACTCATTTGGGCATTGACATTCTAAGGCTTAACCTCTTTAGACAGGTGCCTGTTA
1 GGTGCCACCAACTCATGTGGGCTTTGACATTCTAAGGCTTAACCCCCTTAGACAGGTGCCAACTA
* * * ** * *
3131017 ATGTGCACTTTACTCGAGCTTAGGTGCCACCAACTCATGTGGGCATTGACTAAGG-TGCCGCCAA
66 ATGTGCACCTGACTCGAACTTAGGCACCACCAACTCATATGGGCATTGACT-AGGATGCCGCAAA
*
3131081 CAT-GTGTAGGCGTTGACCAGGGTGGC-ACCAACTCGTGTAGGCTTTAACATTCTAAGGCTTGA-
130 C-TCGTGTAGGCGTTGACCAGGGT-GCTACCAACTCGTGTAGGCTTTAACATTCTAAGGCTTAAC
* *
3131143 CATCCTCAGGCAGGTGCCAACTAATTTGGACTTGACTCAAATCTAT
193 CA-CCTCAGACAAGTGCCAACTAATTTGGACTTGACTCAAATCT-T
*
3131189 -GTGCCACCAACTCATGTGGGCTTTGACATTCTAAGGCTTAACCCCCTTAGATAGGTGCCAACTA
1 GGTGCCACCAACTCATGTGGGCTTTGACATTCTAAGGCTTAACCCCCTTAGACAGGTGCCAACTA
* * * *
3131253 ATGTGGACCTGACTCGAACTTAGGCACCACCAACTCGTATGGGCTTTGACTAGGATGCTGCAAAC
66 ATGTGCACCTGACTCGAACTTAGGCACCACCAACTCATATGGGCATTGACTAGGATGCCGCAAAC
* * * * *
3131318 TCGTGTGGGCTTTGACTAGGGTGCTACCAACTCTTGTGGGCTTTAACATTCTAAGGCTTAACCAC
131 TCGTGTAGGCGTTGACCAGGGTGCTACCAACTCGTGTAGGCTTTAACATTCTAAGGCTTAACCAC
* * * * *
3131383 CTTAGACAAGTGCCAACTATTTTTGACTTGACTCGAATGTT
196 CTCAGACAAGTGCCAACTAATTTGGACTTGACTCAAATCTT
* *
3131424 GGTGCCTCCAACTCGTGTGGGCTTTGAC
1 GGTGCCACCAACTCATGTGGGCTTTGAC
3131452 TCGAGTGCCC
Statistics
Matches: 224, Mismatches: 34, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
235 7 0.03
236 215 0.96
237 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.28
Consensus pattern (236 bp):
GGTGCCACCAACTCATGTGGGCTTTGACATTCTAAGGCTTAACCCCCTTAGACAGGTGCCAACTA
ATGTGCACCTGACTCGAACTTAGGCACCACCAACTCATATGGGCATTGACTAGGATGCCGCAAAC
TCGTGTAGGCGTTGACCAGGGTGCTACCAACTCGTGTAGGCTTTAACATTCTAAGGCTTAACCAC
CTCAGACAAGTGCCAACTAATTTGGACTTGACTCAAATCTT
Found at i:3131327 original size:31 final size:31
Alignment explanation
Indices: 3131284--3131361 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
3131274 AGGCACCACC
* *
3131284 AACTCGTATGGGCTTTGACTAGGATGCTGCA
1 AACTCGTGTGGGCTTTGACTAGGATGCTACA
* *
3131315 AACTCGTGTGGGCTTTGACTAGGGTGCTACC
1 AACTCGTGTGGGCTTTGACTAGGATGCTACA
*
3131346 AACTCTTGTGGGCTTT
1 AACTCGTGTGGGCTTT
3131362 AACATTCTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.18, C:0.21, G:0.29, T:0.32
Consensus pattern (31 bp):
AACTCGTGTGGGCTTTGACTAGGATGCTACA
Found at i:3131390 original size:385 final size:384
Alignment explanation
Indices: 3130798--3131600 Score: 920
Period size: 385 Copynumber: 2.1 Consensus size: 384
3130788 TTGGGCTTTG
* * * *
3130798 ACTATGGTGCCACCAACTCGTGTTGGCTTTAACATTCTAAGGCTTGACCTCCTTAGAAAAATGCC
1 ACTAT-GTGCCACCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAACCCCCTTAGAAAAATGCC
* * ** * *
3130863 AACTAATTTGGACTTGACTCAAACGTAAATGCCACCAACTCGAAAAAGCTTTGACTCGGGTGCCA
65 AACTAATGTGGACCTGACTCAAACGTAAACACCACCAACTCGAAAAAGCTTTGACTAGGATGCCA
* *
3130928 CCAACTTCTGCGGGCGTTGACTAGGGTGCCACCAACTCATTTGGGCATTGACATTCTAAGGCTTA
130 CAAACTTCTGCGGGCGTTGACTAGGGTGCCACCAACTCATTTGGGCATTAACATTCTAAGGCTTA
* * * *** *
3130993 ACCTCTTTAGACAGGTGCCTGTTA-ATGTGCACTTTACTCG-A-GCTTAGGTGCCACCAACTCAT
195 ACCACCTTAGACAAGTGCCAACTATATGTG-ACTTGACTCGAATG-TT-GGTGCCACCAACTCAT
* *
3131055 GTGGGCATTGACTA-AGGTGCCGCCAACATGTGTAG-GCGTTGACCAGGGTGGCACCAACTCGTG
257 GTGGGCATTGACTAGA-GTGCCCCCAACATGTG-AGAGCGTTGACCAGGGTGCCACCAACTCGTG
* * * * *
3131118 TAGGCTTTAACATTCTAAGGCTTGA-CATCCTCAGGCAGGTGCCAACTAATTTGGACTTGACTCA
320 TAGGCTTTAACATTCTAAGGCTTAACCA-ACTCAGACAGGGGCCAACTAATGTGGACTTGACTCA
3131182 A
384 A
* * **
3131183 ATCTATGTGCCACCAACTCATGTGGGCTTTGACATTCTAAGGCTTAACCCCCTTAGATAGGTGCC
1 A-CTATGTGCCACCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAACCCCCTTAGAAAAATGCC
* * ** * *** **
3131248 AACTAATGTGGACCTGACTCGAACTTAGGCACCACCAACTCGTATGGGCTTTGACTAGGATGCTG
65 AACTAATGTGGACCTGACTCAAACGTAAACACCACCAACTCGAAAAAGCTTTGACTAGGATGCCA
* * * *
3131313 CAAAC-TCGTGTGGGCTTTGACTAGGGTGCTACCAACTC-TTGTGGGCTTTAACATTCTAAGGCT
130 CAAACTTC-TGCGGGCGTTGACTAGGGTGCCACCAACTCATT-TGGGCATTAACATTCTAAGGCT
* * * *
3131376 TAACCACCTTAGACAAGTGCCAACTATTTTTGACTTGACTCGAATGTTGGTGCCTCCAACTCGTG
193 TAACCACCTTAGACAAGTGCCAACTATATGTGACTTGACTCGAATGTTGGTGCCACCAACTCATG
* * * * * * *
3131441 TGGGCTTTGACTCGAGTGCCCCCAACTTGTGCGAGCTTTGACTAGGGTGCCACCAACTCGTGTGG
258 TGGGCATTGACTAGAGTGCCCCCAACATGTGAGAGCGTTGACCAGGGTGCCACCAACTCGTGTAG
*
3131506 GCTTTAACATTCTAAGGCTTAACCAACTTAGACAGGGGCCAACTAATGTGGACTTGACTCAA
323 GCTTTAACATTCTAAGGCTTAACCAACTCAGACAGGGGCCAACTAATGTGGACTTGACTCAA
* * *
3131568 ACTTACGTCCCACCAACTCGTGAGGGCTTTGAC
1 AC-TATGTGCCACCAACTCGTGTGGGCTTTGAC
3131601 TCAGGTACTG
Statistics
Matches: 348, Mismatches: 60, Indels: 20
0.81 0.14 0.05
Matches are distributed among these distances:
384 6 0.02
385 328 0.94
386 13 0.04
387 1 0.00
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (384 bp):
ACTATGTGCCACCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAACCCCCTTAGAAAAATGCCA
ACTAATGTGGACCTGACTCAAACGTAAACACCACCAACTCGAAAAAGCTTTGACTAGGATGCCAC
AAACTTCTGCGGGCGTTGACTAGGGTGCCACCAACTCATTTGGGCATTAACATTCTAAGGCTTAA
CCACCTTAGACAAGTGCCAACTATATGTGACTTGACTCGAATGTTGGTGCCACCAACTCATGTGG
GCATTGACTAGAGTGCCCCCAACATGTGAGAGCGTTGACCAGGGTGCCACCAACTCGTGTAGGCT
TTAACATTCTAAGGCTTAACCAACTCAGACAGGGGCCAACTAATGTGGACTTGACTCAA
Found at i:3131460 original size:31 final size:31
Alignment explanation
Indices: 3131425--3131510 Score: 109
Period size: 31 Copynumber: 2.8 Consensus size: 31
3131415 TCGAATGTTG
* *
3131425 GTGCCTCCAACTCGTGTGGGCTTTGACTCGA
1 GTGCCACCAACTCGTGTGGGCTTTGACTAGA
* * * * *
3131456 GTGCCCCCAACTTGTGCGAGCTTTGACTAGG
1 GTGCCACCAACTCGTGTGGGCTTTGACTAGA
3131487 GTGCCACCAACTCGTGTGGGCTTT
1 GTGCCACCAACTCGTGTGGGCTTT
3131511 AACATTCTAA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.14, C:0.29, G:0.29, T:0.28
Consensus pattern (31 bp):
GTGCCACCAACTCGTGTGGGCTTTGACTAGA
Found at i:3131479 original size:149 final size:148
Alignment explanation
Indices: 3131189--3132312 Score: 933
Period size: 149 Copynumber: 7.6 Consensus size: 148
3131179 TCAAATCTAT
* * * * *
3131189 GTGCCACCAACTCATGTGGGCTTTGACATTCTAAGGCTTAACCCCCTTAGATAGGTGCCAACTAA
1 GTGCCACCAACTCGTGTGGGCTTTAACATTCTAAGGCTTAACCACCTTAGACAAGTGCCAACTAA
* ** * * ** *
3131254 TGTGGACCTGACTCGAACTTAGGCACCACCAACTCGTATGGGCTTTGACTAG-GATGCTGCAAAC
66 TGTGGACTTGACTCGAA-TTAGGTGCCACCAACTCGTGTGGGCTTTGACTCGAG-TGCCACCAAC
*
3131318 TCGTGTGGGCTTTGACTAGG
129 TTGTGTGGGCTTTGACTAGG
* * *
3131338 GTGCTACCAACTCTTGTGGGCTTTAACATTCTAAGGCTTAACCACCTTAGACAAGTGCCAACTAT
1 GTGCCACCAACTCGTGTGGGCTTTAACATTCTAAGGCTTAACCACCTTAGACAAGTGCCAACTAA
* * * * *
3131403 TTTTGACTTGACTCGAATGTTGGTGCCTCCAACTCGTGTGGGCTTTGACTCGAGTGCCCCCAACT
66 TGTGGACTTGACTCGAAT-TAGGTGCCACCAACTCGTGTGGGCTTTGACTCGAGTGCCACCAACT
* *
3131468 TGTGCGAGCTTTGACTAGG
130 TGTGTGGGCTTTGACTAGG
* * *
3131487 GTGCCACCAACTCGTGTGGGCTTTAACATTCTAAGGCTTAACCAACTTAGACAGGGGCCAACTAA
1 GTGCCACCAACTCGTGTGGGCTTTAACATTCTAAGGCTTAACCACCTTAGACAAGTGCCAACTAA
* * * * * ** *
3131552 TGTGGACTTGACTCAAACTTACGTCCCACCAACTCGTGAGGGCTTTGACTC-AGGTACTGCTAAC
66 TGTGGACTTGACTCGAA-TTAGGTGCCACCAACTCGTGTGGGCTTTGACTCGA-GTGCCACCAAC
* * *
3131616 ATGGGTGCGCTTTGACTAGG
129 TTGTGTGGGCTTTGACTAGG
* * * *
3131636 GTGCCACCAAGC-CGTGTGGGCTTTGACATTCTATGGCTTAA-CATCCTTAGATAGGTGCCAACT
1 GTGCCACCAA-CTCGTGTGGGCTTTAACATTCTAAGGCTTAACCA-CCTTAGACAAGTGCCAACT
* ** * ** * *
3131699 AATGTGGACTTGACTCAGACTTAGGCACCACAAACTAATGTGGGCTTTAACTCGGGTGCCACCAA
64 AATGTGGACTTGACTC-GAATTAGGTGCCACCAACTCGTGTGGGCTTTGACTCGAGTGCCACCAA
**
3131764 CAAGTGTGGGCTTTGACTAGG
128 CTTGTGTGGGCTTTGACTAGG
* * * * * * *
3131785 GTGCCACCAACTCGTGTAGGCTTTAACGTTCTAAGGCTTGACCTCCTTAGAAAAATGCCATCTAA
1 GTGCCACCAACTCGTGTGGGCTTTAACATTCTAAGGCTTAACCACCTTAGACAAGTGCCAACTAA
* * ** *** ** *
3131850 TTTGGACTTGACTCGAACGTAAATGCCACCAACTCAAATAAGCTTTGACTCGGGTGCCACCAACT
66 TGTGGACTTGACTCGAA-TTAGGTGCCACCAACTCGTGTGGGCTTTGACTCGAGTGCCACCAACT
*
3131915 TGTGCGGGCTTTGACTAGG
130 TGTGTGGGCTTTGACTAGG
* * * * * * * * * * * * *
3131934 TTGCCACCAACTCGTATGCGCATTGATATTCCCAA-AC-TAAGCCTCCTCAGATAAGTGGCTACT
1 GTGCCACCAACTCGTGTGGGCTTTAACATT-CTAAGGCTTAA-CCACCTTAGACAAGTGCCAACT
* * ** * * *
3131997 AATCTAGG-CATGACTCGAGCCTAGTTGCCACCAACTCGTGCGGGCATTGACTCG-GTGCCACCA
64 AATGT-GGACTTGACTCGA-ATTAGGTGCCACCAACTCGTGTGGGCTTTGACTCGAGTGCCACCA
* *
3132060 ACATGTGTGGGCTTTGACTACG
127 ACTTGTGTGGGCTTTGACTAGG
* * * * * *
3132082 GTGCCACCAACTCGGGTGGGTTTTAACATTCTAAGGCTTAACCACCATAGGCAGGTGCTAACTAA
1 GTGCCACCAACTCGTGTGGGCTTTAACATTCTAAGGCTTAACCACCTTAGACAAGTGCCAACTAA
* * * * *
3132147 TTTGGACTTGACTC-ATACATAAGTGCCACCAACTCATGTGGGCTTTGACTC-AGGTGCCGCCAA
66 TGTGGACTTGACTCGA-A-TTAGGTGCCACCAACTCGTGTGGGCTTTGACTCGA-GTGCCACCAA
* ** * *
3132210 CTTGTGCGGGCAATGAGT-GCA
128 CTTGTGTGGGCTTTGACTAG-G
* * * * * * *
3132231 GCGCCACTAACTCGTGTGGGCTTTGACATTCGAAGGCTTAACCTCCTTTGA-AAGGTGCCCACTA
1 GTGCCACCAACTCGTGTGGGCTTTAACATTCTAAGGCTTAACCACCTTAGACAA-GTGCCAACTA
* *
3132295 TTACT-GACTTGACTCGAA
65 AT-GTGGACTTGACTCGAA
3132313 CATAGGAGCT
Statistics
Matches: 771, Mismatches: 179, Indels: 50
0.77 0.18 0.05
Matches are distributed among these distances:
147 6 0.01
148 112 0.15
149 641 0.83
150 12 0.02
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.27
Consensus pattern (148 bp):
GTGCCACCAACTCGTGTGGGCTTTAACATTCTAAGGCTTAACCACCTTAGACAAGTGCCAACTAA
TGTGGACTTGACTCGAATTAGGTGCCACCAACTCGTGTGGGCTTTGACTCGAGTGCCACCAACTT
GTGTGGGCTTTGACTAGG
Found at i:3131630 original size:298 final size:294
Alignment explanation
Indices: 3131189--3132312 Score: 1044
Period size: 298 Copynumber: 3.8 Consensus size: 294
3131179 TCAAATCTAT
* * * *
3131189 GTGCCACCAACTCATGTGGGCTTTGACATTCTAAGGCTTAACCCCCTTAGATAGGTGCCAACTAA
1 GTGCCACCAACTCGTGTGGGCTTTAACATTCTAAGGCTTAACCACCTTAGACAGGTGCCAACTAA
* * * *
3131254 TGTGGACCTGACTCGAACTT-AGGCACCACCAACTCGTATGGGCTTTGACT-AGGATGCTGCAAA
66 TGTGGACTTGACTCAAACTTAAGTC-CCACCAACTCATA-GGGCTTTGACTCAGG-TGCTGCAAA
* * *
3131317 CTCGTGTGGGCTTTGACTAGGGTGCTACCAACTCTTGTGGGCTTTAACATTCTAAGGCTTAACCA
128 CT-GTGTGGGCTTTGACTAGGGTGCCACCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAACCA
* * * * * *
3131382 CCTTAGACAAGTGCCAACTATTTTTGACTTGACTCGAATGTTGGTGCCTCCAACTCGTGTGGGCT
192 CCTTAGATAAGTGCCAACTAATCTAGACTTGACTCGAAT-TAGGTGCCACCAACTCGTGTGGGCT
* * * *
3131447 TTGACTCGAGTGCCCCCAACTTGTGCGAGCTTTGACTAGG
256 TTGACTCG-GTGCCACCAACATGTGTGGGCTTTGACTAGG
* *
3131487 GTGCCACCAACTCGTGTGGGCTTTAACATTCTAAGGCTTAACCAACTTAGACAGGGGCCAACTAA
1 GTGCCACCAACTCGTGTGGGCTTTAACATTCTAAGGCTTAACCACCTTAGACAGGTGCCAACTAA
* * * *
3131552 TGTGGACTTGACTCAAACTTACGTCCCACCAACTCGTGAGGGCTTTGACTCAGGTACTGCTAACA
66 TGTGGACTTGACTCAAACTTAAGTCCCACCAACTCAT-AGGGCTTTGACTCAGGTGCTGCAAAC-
* * *
3131617 TGGGTGCGCTTTGACTAGGGTGCCACCAAGC-CGTGTGGGCTTTGACATTCTATGGCTTAA-CAT
129 TGTGTGGGCTTTGACTAGGGTGCCACCAA-CTCGTGTGGGCTTTGACATTCTAAGGCTTAACCA-
* * * * ** * **
3131680 CCTTAGATAGGTGCCAACTAATGTGGACTTGACTCAGACTTAGGCACCACAAACTAATGTGGGCT
192 CCTTAGATAAGTGCCAACTAATCTAGACTTGACTC-GAATTAGGTGCCACCAACTCGTGTGGGCT
* *
3131745 TTAACTCGGGTGCCACCAACAAGTGTGGGCTTTGACTAGG
256 TTGACTC-GGTGCCACCAACATGTGTGGGCTTTGACTAGG
* * * * * ** *
3131785 GTGCCACCAACTCGTGTAGGCTTTAACGTTCTAAGGCTTGACCTCCTTAGAAAAATGCCATCTAA
1 GTGCCACCAACTCGTGTGGGCTTTAACATTCTAAGGCTTAACCACCTTAGACAGGTGCCAACTAA
* * * * * * * ** *
3131850 TTTGGACTTGACTCGAACGTAAATGCCACCAACTCAAATA-AGCTTTGACTCGGGTGCCACCAAC
66 TGTGGACTTGACTCAAACTTAAGTCCCACCAACTC--ATAGGGCTTTGACTCAGGTGCTGCAAAC
* * * * * * * *
3131914 TTGTGCGGGCTTTGACTAGGTTGCCACCAACTCGTATGCGCATTGATATTCCCAA-AC-TAAGCC
129 -TGTGTGGGCTTTGACTAGGGTGCCACCAACTCGTGTGGGCTTTGACATT-CTAAGGCTTAA-CC
* * * * * * ** * *
3131977 TCCTCAGATAAGTGGCTACTAATCTAGGCATGACTCGAGCCTAGTTGCCACCAACTCGTGCGGGC
191 ACCTTAGATAAGTGCCAACTAATCTAGACTTGACTCGA-ATTAGGTGCCACCAACTCGTGTGGGC
* *
3132042 ATTGACTCGGTGCCACCAACATGTGTGGGCTTTGACTACG
255 TTTGACTCGGTGCCACCAACATGTGTGGGCTTTGACTAGG
* * * * *
3132082 GTGCCACCAACTCGGGTGGGTTTTAACATTCTAAGGCTTAACCACCATAGGCAGGTGCTAACTAA
1 GTGCCACCAACTCGTGTGGGCTTTAACATTCTAAGGCTTAACCACCTTAGACAGGTGCCAACTAA
* * * * * * *
3132147 TTTGGACTTGACTCATACATAAGTGCCACCAACTCATGTGGGCTTTGACTCAGGTGCCGCCAACT
66 TGTGGACTTGACTCAAACTTAAGTCCCACCAACTCAT-AGGGCTTTGACTCAGGTGCTGCAAAC-
* ** * * * * * *
3132212 TGTGCGGGCAATGAGT-GCAGCGCCACTAACTCGTGTGGGCTTTGACATTCGAAGGCTTAACCTC
129 TGTGTGGGCTTTGACTAG-GGTGCCACCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAACCAC
* * *
3132276 CTTTGA-AAGGTGCCCACTATTACT-GACTTGACTCGAA
193 CTTAGATAA-GTGCCAACTAAT-CTAGACTTGACTCGAA
3132313 CATAGGAGCT
Statistics
Matches: 669, Mismatches: 135, Indels: 46
0.79 0.16 0.05
Matches are distributed among these distances:
295 2 0.00
296 6 0.01
297 207 0.31
298 437 0.65
299 16 0.02
300 1 0.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.27
Consensus pattern (294 bp):
GTGCCACCAACTCGTGTGGGCTTTAACATTCTAAGGCTTAACCACCTTAGACAGGTGCCAACTAA
TGTGGACTTGACTCAAACTTAAGTCCCACCAACTCATAGGGCTTTGACTCAGGTGCTGCAAACTG
TGTGGGCTTTGACTAGGGTGCCACCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAACCACCTT
AGATAAGTGCCAACTAATCTAGACTTGACTCGAATTAGGTGCCACCAACTCGTGTGGGCTTTGAC
TCGGTGCCACCAACATGTGTGGGCTTTGACTAGG
Found at i:3131667 original size:534 final size:534
Alignment explanation
Indices: 3130655--3131715 Score: 1333
Period size: 534 Copynumber: 2.0 Consensus size: 534
3130645 TTTGACTAGG
* * * *
3130655 GTGCCACCAAATCGTGTGGGCTTTGACATTCTAAGGCTTAACCTCCTTAGATTGGTGCCAACTAT
1 GTGCCACCAAATCATGTGGGCTTTGACATTCTAAGGCTTAACCCCCTTAGATAGGTGCCAACTAA
* * ** * * * *
3130720 TGTGGACTTGACTCGACCTTAGGTGCCACCAATTCATGTGGGCTTTGCTTCGGGTGCCACCAATA
66 TGTGGACCTGACTCGAACTTAGGCACCACCAACTCATATGGGCTTTGCTTAGGATGCCACCAATA
* * * * *
3130785 TGTTTGGGCTTTGACTATGGTGCCACCAACTCGTGTTGGCTTTAACATTCTAAGGCTTGACCTCC
131 TGTGTGGGCTTTGACTAGGGTGCCACCAACTCGTGTGGGCTTTAACATTCTAAGGCTTAACCACC
3130850 TTAGAAAAATGCCAACTAATTTGGACTTGACTCAAACGTAAATGCCACCAACTCGAAAAAGCTTT
196 TTAGAAAAATGCCAACTAATTTGGACTTGACTCAAACGTAAATGCCACCAACTCGAAAAAGCTTT
* * * *
3130915 GACTCGGGTGCCACCAACTTCTGCGGGCGTTGACTAGGGTGCCACCAACTCATTTGGGCATTGAC
261 GACTCGAGTGCCACCAACTTCTGCGAGCGTTGACTAGGGTGCCACCAACTCATGTGGGCATTAAC
* * *** * * * * *
3130980 ATTCTAAGGCTTAACCTCTTTAGACAGGTGCCTGTTAATGTGCACTTTACTCGAGCTTAGGTGCC
326 ATTCTAAGGCTTAACCACTTTAGACAGGGGCCAACTAATGTGCACTTGACTCAAACTTACGTCCC
* * * *
3131045 ACCAACTCATGTGGGCATTGACTAAGGTGCCGCCAACATGTGTAGGCGTTGACCAGGGTGGCACC
391 ACCAACTCATGAGGGCATTGACTAAGGTACCGCCAACATGGGTAGGCGTTGACCAGGGTGCCACC
* * *
3131110 AACTCGTGTAGGCTTTAACATTCTAAGGCTTGACATCCTCAGGCAGGTGCCAACTAATTTGGACT
456 AACTCGTGTAGGCTTTAACATTCTAAGGCTTAACATCCTCAGACAGGTGCCAACTAATGTGGACT
3131175 TGACTCAAATCTAT
521 TGACTCAAATCTAT
*
3131189 GTGCCACCAACTCATGTGGGCTTTGACATTCTAAGGCTTAACCCCCTTAGATAGGTGCCAACTAA
1 GTGCCACCAAATCATGTGGGCTTTGACATTCTAAGGCTTAACCCCCTTAGATAGGTGCCAACTAA
* **
3131254 TGTGGACCTGACTCGAACTTAGGCACCACCAACTCGTATGGGCTTTGAC-TAGGATG-CTGCAA-
66 TGTGGACCTGACTCGAACTTAGGCACCACCAACTCATATGGGCTTTG-CTTAGGATGCCACCAAT
* *
3131316 ACTCGTGTGGGCTTTGACTAGGGTGCTACCAACTCTTGTGGGCTTTAACATTCTAAGGCTTAACC
130 A-T-GTGTGGGCTTTGACTAGGGTGCCACCAACTCGTGTGGGCTTTAACATTCTAAGGCTTAACC
* * * * * * *** * *****
3131381 ACCTTAGACAAGTGCCAACTATTTTTGACTTGACTCGAATGTTGGTGCCTCCAACTCGTGTGGGC
193 ACCTTAGAAAAATGCCAACTAATTTGGACTTGACTCAAACGTAAATGCCACCAACTCGAAAAAGC
* * * * *
3131446 TTTGACTCGAGTGCCCCCAACTTGTGCGAGCTTTGACTAGGGTGCCACCAACTCGTGTGGGCTTT
258 TTTGACTCGAGTGCCACCAACTTCTGCGAGCGTTGACTAGGGTGCCACCAACTCATGTGGGCATT
*
3131511 AACATTCTAAGGCTTAACCAAC-TTAGACAGGGGCCAACTAATGTGGACTTGACTCAAACTTACG
323 AACATTCTAAGGCTTAACC-ACTTTAGACAGGGGCCAACTAATGTGCACTTGACTCAAACTTACG
* * * * * * *
3131575 TCCCACCAACTCGTGAGGGCTTTGACTCAGGTACTGCTAACATGGGT-GCGCTTTGACTAGGGTG
387 TCCCACCAACTCATGAGGGCATTGACTAAGGTACCGCCAACATGGGTAG-GCGTTGACCAGGGTG
* * * * *
3131639 CCACCAAGC-CGTGTGGGCTTTGACATTCTATGGCTTAACATCCTTAGATAGGTGCCAACTAATG
451 CCACCAA-CTCGTGTAGGCTTTAACATTCTAAGGCTTAACATCCTCAGACAGGTGCCAACTAATG
3131703 TGGACTTGACTCA
515 TGGACTTGACTCA
3131716 GACTTAGGCA
Statistics
Matches: 444, Mismatches: 77, Indels: 12
0.83 0.14 0.02
Matches are distributed among these distances:
532 1 0.00
533 6 0.01
534 434 0.98
535 3 0.01
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.28
Consensus pattern (534 bp):
GTGCCACCAAATCATGTGGGCTTTGACATTCTAAGGCTTAACCCCCTTAGATAGGTGCCAACTAA
TGTGGACCTGACTCGAACTTAGGCACCACCAACTCATATGGGCTTTGCTTAGGATGCCACCAATA
TGTGTGGGCTTTGACTAGGGTGCCACCAACTCGTGTGGGCTTTAACATTCTAAGGCTTAACCACC
TTAGAAAAATGCCAACTAATTTGGACTTGACTCAAACGTAAATGCCACCAACTCGAAAAAGCTTT
GACTCGAGTGCCACCAACTTCTGCGAGCGTTGACTAGGGTGCCACCAACTCATGTGGGCATTAAC
ATTCTAAGGCTTAACCACTTTAGACAGGGGCCAACTAATGTGCACTTGACTCAAACTTACGTCCC
ACCAACTCATGAGGGCATTGACTAAGGTACCGCCAACATGGGTAGGCGTTGACCAGGGTGCCACC
AACTCGTGTAGGCTTTAACATTCTAAGGCTTAACATCCTCAGACAGGTGCCAACTAATGTGGACT
TGACTCAAATCTAT
Found at i:3131772 original size:31 final size:31
Alignment explanation
Indices: 3131737--3131811 Score: 105
Period size: 31 Copynumber: 2.4 Consensus size: 31
3131727 CACAAACTAA
*
3131737 TGTGGGCTTTAACTCGGGTGCCACCAACAAG
1 TGTGGGCTTTAACTAGGGTGCCACCAACAAG
* **
3131768 TGTGGGCTTTGACTAGGGTGCCACCAACTCG
1 TGTGGGCTTTAACTAGGGTGCCACCAACAAG
*
3131799 TGTAGGCTTTAAC
1 TGTGGGCTTTAAC
3131812 GTTCTAAGGC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (31 bp):
TGTGGGCTTTAACTAGGGTGCCACCAACAAG
Found at i:3132030 original size:447 final size:445
Alignment explanation
Indices: 3131189--3132313 Score: 1154
Period size: 447 Copynumber: 2.5 Consensus size: 445
3131179 TCAAATCTAT
* *
3131189 GTGCCACCAACTCATGTGGGCTTTGACATTCTAAGGCTTAACCCCCTTAGATAGGTGCCAACTAA
1 GTGCCACCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAA-CACCTTAGATAGGTGCCAACTAA
* * * * * * *
3131254 TGTGGACCTGACTC-GAACTTAGGCACCACCAACTCGTATGGGCTTTGACTAGGATGCTGCAAAC
65 TGTGGACTTGACTCAG-ACTTAGGCACCACCAACTCATGTGGGCTTTGACTCGGGTGCCGCCAAC
** * * *
3131318 TCGTGTGGGCTTTGACTAGGGTGCTACCAACTCTTGTGGGCTTTAACATTCTAAGGCTTAACCAC
129 AAGTGTGGGCTTTGACTAGGGTGCCACCAACTCGTGTAGGCTTTAACATTCTAAGGCTTAACCAC
* * * * * *** * *** **
3131383 CTTAGACAAGTGCCAACTATTTTTGACTTGACTCGAATGTTGGTGCCTCCAACTCGTGTGGGCTT
194 CTTAGAAAAATGCCAACTAATTTGGACTTGACTCGAACGTAAATGCCACCAACTCAAATAAGCTT
* * * *
3131448 TGACTCGAGTGCCCCCAACTTGTGCGAGCTTTGACTAGGGTGCCACCAACTCGTGTGGGCTTTAA
259 TGACTCGAGTGCCACCAACTTGTGCGAGCTTTGACTAGGGTGCCACCAACTCGTATGCGCATTAA
* * * * * * *
3131513 CATTCTAAGGCTTAACCAACTTAGACAGGGGCCAACTAATGTGGACTTGACTCAAACTTACGTCC
324 CATTCCAAGACTTAACCAACTCAGAAAGGGGCCAACTAATCTGGACATGACTCAAACCTACGTCC
* ** * *
3131578 CACCAACTCGTGAGGGCTTTGACTCAGGTACTGCTAACATGGGTGCGCTTTGACTAGG
389 CACCAACTCGTGAGGGCATTGACTC-GGTACCACCAACATGGGTGCGCTTTGACTACG
*
3131636 GTGCCACCAAGC-CGTGTGGGCTTTGACATTCTATGGCTTAACATCCTTAGATAGGTGCCAACTA
1 GTGCCACCAA-CTCGTGTGGGCTTTGACATTCTAAGGCTTAACA-CCTTAGATAGGTGCCAACTA
* * * *
3131700 ATGTGGACTTGACTCAGACTTAGGCACCACAAACTAATGTGGGCTTTAACTCGGGTGCCACCAAC
64 ATGTGGACTTGACTCAGACTTAGGCACCACCAACTCATGTGGGCTTTGACTCGGGTGCCGCCAAC
* * *
3131765 AAGTGTGGGCTTTGACTAGGGTGCCACCAACTCGTGTAGGCTTTAACGTTCTAAGGCTTGACCTC
129 AAGTGTGGGCTTTGACTAGGGTGCCACCAACTCGTGTAGGCTTTAACATTCTAAGGCTTAACCAC
*
3131830 CTTAGAAAAATGCCATCTAATTTGGACTTGACTCGAACGTAAATGCCACCAACTCAAATAAGCTT
194 CTTAGAAAAATGCCAACTAATTTGGACTTGACTCGAACGTAAATGCCACCAACTCAAATAAGCTT
* * * *
3131895 TGACTCGGGTGCCACCAACTTGTGCGGGCTTTGACTAGGTTGCCACCAACTCGTATGCGCATTGA
259 TGACTCGAGTGCCACCAACTTGTGCGAGCTTTGACTAGGGTGCCACCAACTCGTATGCGCATTAA
* ** * * * *
3131960 TATTCCCAA-AC-TAAGCCTCCTCAGATAAGTGG-CTACTAATCTAGG-CATGACTCGAGCCTA-
324 CATT-CCAAGACTTAA-CCAACTCAGA-AAGGGGCCAACTAATCT-GGACATGACTCAAACCTAC
* * * * *
3132020 GTTGCCACCAACTCGTGCGGGCATTGACTCGGTGCCACCAACATGTGTGGGCTTTGACTACG
385 G-TCCCACCAACTCGTGAGGGCATTGACTCGGTACCACCAACATGGGTGCGCTTTGACTACG
* * * * ** *
3132082 GTGCCACCAACTCGGGTGGGTTTTAACATTCTAAGGCTTAACCACCATAGGCAGGTGCTAACTAA
1 GTGCCACCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAA-CACCTTAGATAGGTGCCAACTAA
* * * * ** * *
3132147 TTTGGACTTGACTCATACATAAGTGCCACCAACTCATGTGGGCTTTGACTCAGGTGCCGCCAACT
65 TGTGGACTTGACTCAGACTTAGGCACCACCAACTCATGTGGGCTTTGACTCGGGTGCCGCCAACA
* * ** * * * * * * * *
3132212 TGTGCGGGCAATGAGT-GCAGCGCCACTAACTCGTGTGGGCTTTGACATTCGAAGGCTTAACCTC
130 AGTGTGGGCTTTGACTAG-GGTGCCACCAACTCGTGTAGGCTTTAACATTCTAAGGCTTAACCAC
* ** *
3132276 CTTTGAAAGGTGCCCACT-ATTACT-GACTTGACTCGAAC
194 CTTAGAAAAATGCCAACTAATT--TGGACTTGACTCGAAC
3132314 ATAGGAGCTG
Statistics
Matches: 558, Mismatches: 107, Indels: 27
0.81 0.15 0.04
Matches are distributed among these distances:
445 5 0.01
446 211 0.38
447 331 0.59
448 11 0.02
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.27
Consensus pattern (445 bp):
GTGCCACCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAACACCTTAGATAGGTGCCAACTAAT
GTGGACTTGACTCAGACTTAGGCACCACCAACTCATGTGGGCTTTGACTCGGGTGCCGCCAACAA
GTGTGGGCTTTGACTAGGGTGCCACCAACTCGTGTAGGCTTTAACATTCTAAGGCTTAACCACCT
TAGAAAAATGCCAACTAATTTGGACTTGACTCGAACGTAAATGCCACCAACTCAAATAAGCTTTG
ACTCGAGTGCCACCAACTTGTGCGAGCTTTGACTAGGGTGCCACCAACTCGTATGCGCATTAACA
TTCCAAGACTTAACCAACTCAGAAAGGGGCCAACTAATCTGGACATGACTCAAACCTACGTCCCA
CCAACTCGTGAGGGCATTGACTCGGTACCACCAACATGGGTGCGCTTTGACTACG
Found at i:3132101 original size:31 final size:30
Alignment explanation
Indices: 3132022--3132101 Score: 108
Period size: 30 Copynumber: 2.6 Consensus size: 30
3132012 CGAGCCTAGT
*
3132022 TGCCACCAACTCGTGCGGGCATTGACTCGG
1 TGCCACCAACTCGTGTGGGCATTGACTCGG
*
3132052 TGCCACCAACAT-GTGTGGGCTTTGACTACGG
1 TGCCACCAAC-TCGTGTGGGCATTGACT-CGG
*
3132083 TGCCACCAACTCGGGTGGG
1 TGCCACCAACTCGTGTGGG
3132102 TTTTAACATT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
30 24 0.55
31 20 0.45
ACGTcount: A:0.17, C:0.30, G:0.31, T:0.21
Consensus pattern (30 bp):
TGCCACCAACTCGTGTGGGCATTGACTCGG
Found at i:3132616 original size:31 final size:30
Alignment explanation
Indices: 3132531--3132617 Score: 79
Period size: 31 Copynumber: 2.8 Consensus size: 30
3132521 CTCGACCTTA
* * *
3132531 GGTGCCACCAATTCATGTGGGCTTTGCTTC
1 GGTGCCACCAACTCGTGTTGGCTTTGCTTC
**
3132561 GGGTGCCACCAACAAGT-TTGGGCTTTGACTAT-
1 -GGTGCCACCAACTCGTGTT-GGCTTTG-CT-TC
3132593 GGTGCCACCAACTCGTGTTGGCTTT
1 GGTGCCACCAACTCGTGTTGGCTTT
3132618 AACATTCTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
30 1 0.02
31 39 0.87
32 4 0.09
33 1 0.02
ACGTcount: A:0.16, C:0.25, G:0.28, T:0.31
Consensus pattern (30 bp):
GGTGCCACCAACTCGTGTTGGCTTTGCTTC
Found at i:3132654 original size:149 final size:149
Alignment explanation
Indices: 3132420--3133005 Score: 597
Period size: 149 Copynumber: 3.9 Consensus size: 149
3132410 GTGCCACCCG
* * * * *
3132420 CCAACTTGTGCTGGCTTTGACTAGGGTGCCACCAAATCGTGTGGGCTTTGACATTCTAAGGCTTA
1 CCAACATGTGCGGGCTTTGACTAGGGTGCCACCAACTCGTGTTGGCTTTAACATTCTAAGGCTTA
** * *
3132485 ACCTCCTTAGATTGGTGCCAACT-ATTGTGGACTTGACTCGACCTTAGGTGCCACCAATTCATGT
66 ACCTCCTTAGACAGGTGCCAACTAATT-TGGACTTGACTCGAACTTAGGTGCCACCAACTCATGT
3132549 GGGCTTTG-CTTCGGGTGCCA
130 GGGCTTTGAC-TCGGGTGCCA
* ** * *
3132569 CCAACAAGTTTGGGCTTTGACTATGGTGCCACCAACTCGTGTTGGCTTTAACATTCTAAGGCTTG
1 CCAACATGTGCGGGCTTTGACTAGGGTGCCACCAACTCGTGTTGGCTTTAACATTCTAAGGCTTA
* ** * * ** **
3132634 ACCTCCTTAGAAAAATGCCAACTAATTTGGACTTGACTCAAACGTAAATGCCACCAACTCGA-AA
66 ACCTCCTTAGACAGGTGCCAACTAATTTGGACTTGACTCGAACTTAGGTGCCACCAACTC-ATGT
**
3132698 AAGCTTTGACTCGGGTGCCA
130 GGGCTTTGACTCGGGTGCCA
* * * * * *
3132718 CCAACTTCTGCGGGCATTGACTAGGGTGCCACCAACTCAT-TTGGGCATTGACATTCTAAGGCTT
1 CCAACATGTGCGGGCTTTGACTAGGGTGCCACCAACTCGTGTT-GGCTTTAACATTCTAAGGCTT
* *** * * * *
3132782 AACCTCTTTAGACAGGTGCCTGTTAATGTGCACTTTACTCGAGCTTAGGTGCCACCAACTCATGT
65 AACCTCCTTAGACAGGTGCCAACTAATTTGGACTTGACTCGAACTTAGGTGCCACCAACTCATGT
* ** *
3132847 GGGCATTGACTAAGGTGCCG
130 GGGCTTTGACTCGGGTGCCA
* * * * * *
3132867 CCAACATGTGCAGGCGTTGACCAGGGTGGCACCAACTCGTGTAGGCTTTAACATTCTAAGGCTTG
1 CCAACATGTGCGGGCTTTGACTAGGGTGCCACCAACTCGTGTTGGCTTTAACATTCTAAGGCTTA
* * * * * *
3132932 ACATCCTCAGGCAGGTGCCAACTAATTTGGACTTGACTC-AAATCTATGTGCCACCAACTCGTGT
66 ACCTCCTTAGACAGGTGCCAACTAATTTGGACTTGACTCGAACT-TAGGTGCCACCAACTCATGT
3132996 GGGCTTTGAC
130 GGGCTTTGAC
3133006 ATTCTAAGGC
Statistics
Matches: 346, Mismatches: 84, Indels: 14
0.78 0.19 0.03
Matches are distributed among these distances:
148 5 0.01
149 335 0.97
150 6 0.02
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.28
Consensus pattern (149 bp):
CCAACATGTGCGGGCTTTGACTAGGGTGCCACCAACTCGTGTTGGCTTTAACATTCTAAGGCTTA
ACCTCCTTAGACAGGTGCCAACTAATTTGGACTTGACTCGAACTTAGGTGCCACCAACTCATGTG
GGCTTTGACTCGGGTGCCA
Found at i:3133005 original size:298 final size:298
Alignment explanation
Indices: 3132420--3132992 Score: 763
Period size: 298 Copynumber: 1.9 Consensus size: 298
3132410 GTGCCACCCG
* * * * *
3132420 CCAACTTGTGCTGGCTTTGACTAGGGTGCCACCAAATCGTGTGGGCTTTGACATTCTAAGGCTTA
1 CCAACTTCTGCGGGCATTGACTAGGGTGCCACCAAATCATGTGGGCATTGACATTCTAAGGCTTA
** * * *
3132485 ACCTCCTTAGATTGGTGCCAACTATTGTGGACTTGACTCGACCTTAGGTGCCACCAATTCATGTG
66 ACCTCCTTAGACAGGTGCCAACTAATGTGCACTTGACTCGACCTTAGGTGCCACCAACTCATGTG
* ** *** * * * *
3132550 GGCTTTGCTTCGGGTGCCACCAACAAGTTTGGGCTTTGACTATGGTGCCACCAACTCGTGTTGGC
131 GGCATTGCTTAAGGTGCCACCAACAAGTGCAGGCGTTGACCAGGGTGCCACCAACTCGTGTAGGC
* *
3132615 TTTAACATTCTAAGGCTTGACCTCCTTAGAAAAATGCCAACTAATTTGGACTTGACTCAAACGTA
196 TTTAACATTCTAAGGCTTGACATCCTCAGAAAAATGCCAACTAATTTGGACTTGACTCAAACGTA
3132680 AATGCCACCAACTCGAAAAAGCTTTGACTCGGGTGCCA
261 AATGCCACCAACTCGAAAAAGCTTTGACTCGGGTGCCA
* *
3132718 CCAACTTCTGCGGGCATTGACTAGGGTGCCACCAACTCATTTGGGCATTGACATTCTAAGGCTTA
1 CCAACTTCTGCGGGCATTGACTAGGGTGCCACCAAATCATGTGGGCATTGACATTCTAAGGCTTA
* *** * *
3132783 ACCTCTTTAGACAGGTGCCTGTTAATGTGCACTTTACTCGAGCTTAGGTGCCACCAACTCATGTG
66 ACCTCCTTAGACAGGTGCCAACTAATGTGCACTTGACTCGACCTTAGGTGCCACCAACTCATGTG
* * *
3132848 GGCATTGAC-TAAGGTGCCGCCAACATGTGCAGGCGTTGACCAGGGTGGCACCAACTCGTGTAGG
131 GGCATTG-CTTAAGGTGCCACCAACAAGTGCAGGCGTTGACCAGGGTGCCACCAACTCGTGTAGG
** **
3132912 CTTTAACATTCTAAGGCTTGACATCCTCAGGCAGGTGCCAACTAATTTGGACTTGACTCAAATC-
195 CTTTAACATTCTAAGGCTTGACATCCTCAGAAAAATGCCAACTAATTTGGACTTGACTCAAA-CG
**
3132976 TATGTGCCACCAACTCG
259 TAAATGCCACCAACTCG
3132993 TGTGGGCTTT
Statistics
Matches: 234, Mismatches: 39, Indels: 4
0.84 0.14 0.01
Matches are distributed among these distances:
298 232 0.99
299 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (298 bp):
CCAACTTCTGCGGGCATTGACTAGGGTGCCACCAAATCATGTGGGCATTGACATTCTAAGGCTTA
ACCTCCTTAGACAGGTGCCAACTAATGTGCACTTGACTCGACCTTAGGTGCCACCAACTCATGTG
GGCATTGCTTAAGGTGCCACCAACAAGTGCAGGCGTTGACCAGGGTGCCACCAACTCGTGTAGGC
TTTAACATTCTAAGGCTTGACATCCTCAGAAAAATGCCAACTAATTTGGACTTGACTCAAACGTA
AATGCCACCAACTCGAAAAAGCTTTGACTCGGGTGCCA
Found at i:3133042 original size:87 final size:86
Alignment explanation
Indices: 3132896--3133092 Score: 236
Period size: 87 Copynumber: 2.3 Consensus size: 86
3132886 ACCAGGGTGG
* * * * * *
3132896 CACCAACTCGTGTAGGCTTTAACATTCTAAGGCTTGACATCCTCAGGCAGGTGCCAACTAATTTG
1 CACCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAACACCCTCAGACAGGTGCCAACTAATGTG
*
3132961 GACTTGACTCAAA-TCTATGTGC-
66 GACCTGACTCAAACT-TA-G-GCA
* * *
3132983 CACCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAACCCCCTTAGATAGGTGCCAACTAATGTG
1 CACCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAACACCCTCAGACAGGTGCCAACTAATGTG
*
3133048 GACCTGACTCGAACTTAGGCA
66 GACCTGACTCAAACTTAGGCA
*
3133069 CTACCAACTCGTATGGGCTTTGAC
1 C-ACCAACTCGTGTGGGCTTTGAC
3133093 TAGGATGCTG
Statistics
Matches: 95, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
85 2 0.02
86 2 0.02
87 90 0.95
88 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (86 bp):
CACCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAACACCCTCAGACAGGTGCCAACTAATGTG
GACCTGACTCAAACTTAGGCA
Found at i:3133077 original size:236 final size:236
Alignment explanation
Indices: 3132742--3133241 Score: 596
Period size: 236 Copynumber: 2.1 Consensus size: 236
3132732 CATTGACTAG
* * * * * ***
3132742 GGTGCCACCAACTCATTTGGGCATTGACATTCTAAGGCTTAACCTCTTTAGACAGGTGCCTGTTA
1 GGTGCCACCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAACCCCCTTAGACAGGTGCCAACTA
* * * ** * *
3132807 ATGTGCACTTTACTCGAGCTTAGGTGCCACCAACTCATGTGGGCATTGACTAAGG-TGCCGCCAA
66 ATGTGCACCTGACTCGAACTTAGGCACCACCAACTCATATGGGCATTGACT-AGGATGCCGCAAA
*
3132871 CAT-GTGCAGGCGTTGACCAGGGTGGC-ACCAACTCGTGTAGGCTTTAACATTCTAAGGCTTGA-
130 C-TCGTGCAGGCGTTGACCAGGGT-GCTACCAACTCGTGTAGGCTTTAACATTCTAAGGCTTAAC
* *
3132933 CATCCTCAGGCAGGTGCCAACTAATTTGGACTTGACTCAAATCTAT
193 CA-CCTCAGACAAGTGCCAACTAATTTGGACTTGACTCAAATCT-T
*
3132979 -GTGCCACCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAACCCCCTTAGATAGGTGCCAACTA
1 GGTGCCACCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAACCCCCTTAGACAGGTGCCAACTA
* * * * *
3133043 ATGTGGACCTGACTCGAACTTAGGCACTACCAACTCGTATGGGCTTTGACTAGGATGCTGCAAAC
66 ATGTGCACCTGACTCGAACTTAGGCACCACCAACTCATATGGGCATTGACTAGGATGCCGCAAAC
** * * * *
3133108 TCGTGTGGGCTTTGACTAGGGTGCTACCAACTCTTGTGGGCTTTAACATTCTAAGGCTTAACCAC
131 TCGTGCAGGCGTTGACCAGGGTGCTACCAACTCGTGTAGGCTTTAACATTCTAAGGCTTAACCAC
* * * * *
3133173 CTTAGACAAGTGCCAACTATTTTTGACTTGACTCGAATGTT
196 CTCAGACAAGTGCCAACTAATTTGGACTTGACTCAAATCTT
*
3133214 GGTGCCTCCAACTCGTGTGGGCTTTGAC
1 GGTGCCACCAACTCGTGTGGGCTTTGAC
3133242 TCGAGTGCCC
Statistics
Matches: 222, Mismatches: 36, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
235 7 0.03
236 213 0.96
237 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.28
Consensus pattern (236 bp):
GGTGCCACCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAACCCCCTTAGACAGGTGCCAACTA
ATGTGCACCTGACTCGAACTTAGGCACCACCAACTCATATGGGCATTGACTAGGATGCCGCAAAC
TCGTGCAGGCGTTGACCAGGGTGCTACCAACTCGTGTAGGCTTTAACATTCTAAGGCTTAACCAC
CTCAGACAAGTGCCAACTAATTTGGACTTGACTCAAATCTT
Found at i:3133117 original size:31 final size:31
Alignment explanation
Indices: 3133069--3133151 Score: 112
Period size: 31 Copynumber: 2.7 Consensus size: 31
3133059 AACTTAGGCA
* *
3133069 CTACCAACTCGTATGGGCTTTGACTAGGATG
1 CTACAAACTCGTGTGGGCTTTGACTAGGATG
* *
3133100 CTGCAAACTCGTGTGGGCTTTGACTAGGGTG
1 CTACAAACTCGTGTGGGCTTTGACTAGGATG
* *
3133131 CTACCAACTCTTGTGGGCTTT
1 CTACAAACTCGTGTGGGCTTT
3133152 AACATTCTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.18, C:0.23, G:0.28, T:0.31
Consensus pattern (31 bp):
CTACAAACTCGTGTGGGCTTTGACTAGGATG
Found at i:3133169 original size:385 final size:384
Alignment explanation
Indices: 3132588--3133390 Score: 915
Period size: 385 Copynumber: 2.1 Consensus size: 384
3132578 TTGGGCTTTG
* * * *
3132588 ACTATGGTGCCACCAACTCGTGTTGGCTTTAACATTCTAAGGCTTGACCTCCTTAGAAAAATGCC
1 ACTAT-GTGCCACCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAACCCCCTTAGAAAAATGCC
* * * * *
3132653 AACTAATTTGGACTTGACTCAAACGTAAATGCCACCAACTCGAAAAAGCTTTGACTCGGGTGCCA
65 AACTAATGTGGACCTGACTCAAACGTAAAGGCCACCAACTCGAAAAAGCTTTGACTAGGATGCCA
* *
3132718 CCAACTTCTGCGGGCATTGACTAGGGTGCCACCAACTCATTTGGGCATTGACATTCTAAGGCTTA
130 CAAACTTCTGCGGGCATTGACTAGGGTGCCACCAACTCATTTGGGCATTAACATTCTAAGGCTTA
* * * *** *
3132783 ACCTCTTTAGACAGGTGCCTGTTA-ATGTGCACTTTACTCG-A-GCTTAGGTGCCACCAACTCAT
195 ACCACCTTAGACAAGTGCCAACTATATGTG-ACTTGACTCGAATG-TT-GGTGCCACCAACTCAT
* *
3132845 GTGGGCATTGACTA-AGGTGCCGCCAACATGTGCAG-GCGTTGACCAGGGTGGCACCAACTCGTG
257 GTGGGCATTGACTAGA-GTGCCCCCAACATGT-CAGAGCGTTGACCAGGGTGCCACCAACTCGTG
* * * * *
3132908 TAGGCTTTAACATTCTAAGGCTTGA-CATCCTCAGGCAGGTGCCAACTAATTTGGACTTGACTCA
320 TAGGCTTTAACATTCTAAGGCTTAACCA-ACTCAGACAGGGGCCAACTAATGTGGACTTGACTCA
3132972 A
384 A
* **
3132973 ATCTATGTGCCACCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAACCCCCTTAGATAGGTGCC
1 A-CTATGTGCCACCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAACCCCCTTAGAAAAATGCC
* * * ***
3133038 AACTAATGTGGACCTGACTCGAAC-T-TAGGCACTACCAACTCGTATGGGCTTTGACTAGGATGC
65 AACTAATGTGGACCTGACTCAAACGTAAAGGC-C-ACCAACTCGAAAAAGCTTTGACTAGGATGC
** * * * *
3133101 TGCAAAC-TCGTGTGGGCTTTGACTAGGGTGCTACCAACTC-TTGTGGGCTTTAACATTCTAAGG
128 CACAAACTTC-TGCGGGCATTGACTAGGGTGCCACCAACTCATT-TGGGCATTAACATTCTAAGG
* * * *
3133164 CTTAACCACCTTAGACAAGTGCCAACTATTTTTGACTTGACTCGAATGTTGGTGCCTCCAACTCG
191 CTTAACCACCTTAGACAAGTGCCAACTATATGTGACTTGACTCGAATGTTGGTGCCACCAACTCA
* * * * * *
3133229 TGTGGGCTTTGACTCGAGTGCCCCCAACTTGTCCGAGCTTTGACTAGGGTGCCACCAACTCGTGT
256 TGTGGGCATTGACTAGAGTGCCCCCAACATGTCAGAGCGTTGACCAGGGTGCCACCAACTCGTGT
* * *
3133294 GGGCTTTAACATTCTAAGGCTTAACCAACTTAGATAGGGGCCAACTAATGTGGACTTGACTCAA
321 AGGCTTTAACATTCTAAGGCTTAACCAACTCAGACAGGGGCCAACTAATGTGGACTTGACTCAA
* * *
3133358 ACTTACGTCCCACCAACTCGTGAGGGCTTTGAC
1 AC-TATGTGCCACCAACTCGTGTGGGCTTTGAC
3133391 TCAGGTACTG
Statistics
Matches: 350, Mismatches: 56, Indels: 24
0.81 0.13 0.06
Matches are distributed among these distances:
383 3 0.01
384 9 0.03
385 324 0.93
386 13 0.04
387 1 0.00
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (384 bp):
ACTATGTGCCACCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAACCCCCTTAGAAAAATGCCA
ACTAATGTGGACCTGACTCAAACGTAAAGGCCACCAACTCGAAAAAGCTTTGACTAGGATGCCAC
AAACTTCTGCGGGCATTGACTAGGGTGCCACCAACTCATTTGGGCATTAACATTCTAAGGCTTAA
CCACCTTAGACAAGTGCCAACTATATGTGACTTGACTCGAATGTTGGTGCCACCAACTCATGTGG
GCATTGACTAGAGTGCCCCCAACATGTCAGAGCGTTGACCAGGGTGCCACCAACTCGTGTAGGCT
TTAACATTCTAAGGCTTAACCAACTCAGACAGGGGCCAACTAATGTGGACTTGACTCAA
Found at i:3133250 original size:31 final size:31
Alignment explanation
Indices: 3133215--3133300 Score: 100
Period size: 31 Copynumber: 2.8 Consensus size: 31
3133205 TCGAATGTTG
* *
3133215 GTGCCTCCAACTCGTGTGGGCTTTGACTCGA
1 GTGCCACCAACTCGTGTGGGCTTTGACTAGA
* * ** * *
3133246 GTGCCCCCAACTTGTCCGAGCTTTGACTAGG
1 GTGCCACCAACTCGTGTGGGCTTTGACTAGA
3133277 GTGCCACCAACTCGTGTGGGCTTT
1 GTGCCACCAACTCGTGTGGGCTTT
3133301 AACATTCTAA
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.14, C:0.30, G:0.28, T:0.28
Consensus pattern (31 bp):
GTGCCACCAACTCGTGTGGGCTTTGACTAGA
Found at i:3133457 original size:534 final size:533
Alignment explanation
Indices: 3132445--3133505 Score: 1304
Period size: 534 Copynumber: 2.0 Consensus size: 533
3132435 TTTGACTAGG
* * *
3132445 GTGCCACCAAATCGTGTGGGCTTTGACATTCTAAGGCTTAACCTCCTTAGATTGGTGCCAACTAT
1 GTGCCACCAAATCGTGTGGGCTTTGACATTCTAAGGCTTAACCCCCTTAGATAGGTGCCAACTAA
* * ** * * * * *
3132510 TGTGGACTTGACTCGACCTTAGGTGCCACCAATTCATGTGGGCTTTGCTTCGGGTGCCACCAACA
66 TGTGGACCTGACTCGAACTTAGGCACCACCAACTCATATGGGCTTTGCTTAGGATGCCACAAACA
* * * * *
3132575 AGTTTGGGCTTTGACTATGGTGCCACCAACTCGTGTTGGCTTTAACATTCTAAGGCTTGACCTCC
131 AGTGTGGGCTTTGACTAGGGTGCCACCAACTCGTGTGGGCTTTAACATTCTAAGGCTTAACCACC
3132640 TTAGAAAAATGCCAACTAATTTGGACTTGACTCAAACGTAAATGCCACCAACTCGAAAAAGCTTT
196 TTAGAAAAATGCCAACTAATTTGGACTTGACTCAAACGTAAATGCCACCAACTCGAAAAAGCTTT
* * * * *
3132705 GACTCGGGTGCCACCAACTTCTGCGGGCATTGACTAGGGTGCCACCAACTCATTTGGGCATTGAC
261 GACTCGAGTGCCACCAACTTCTCCGAGCATTGACTAGGGTGCCACCAACTCATGTGGGCATTAAC
* * *** * * * * *
3132770 ATTCTAAGGCTTAACCTCTTTAGACAGGTGCCTGTTAATGTGCACTTTACTCGAGCTTAGGTGCC
326 ATTCTAAGGCTTAACCACTTTAGACAGGGGCCAACTAATGTGCACTTGACTCAAACTTACGTCCC
* * *
3132835 ACCAACTCATGTGGGCATTGACTAAGGTGCCGCCAACATGTGCAGGCGTTGACCAGGGTGGCACC
391 ACCAACTCATGAGGGCATTGACTAAGGTACCGCCAACATGTG-AGGCGTTGACCAGGGTGCCACC
* * *
3132900 AACTCGTGTAGGCTTTAACATTCTAAGGCTTGACATCCTCAGGCAGGTGCCAACTAATTTGGACT
455 AACTCGTGTAGGCTTTAACATTCTAAGGCTTAACATCCTCAGACAGGTGCCAACTAATGTGGACT
3132965 TGACTCAAATCTAT
520 TGACTCAAATCTAT
*
3132979 GTGCCACCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAACCCCCTTAGATAGGTGCCAACTAA
1 GTGCCACCAAATCGTGTGGGCTTTGACATTCTAAGGCTTAACCCCCTTAGATAGGTGCCAACTAA
* * **
3133044 TGTGGACCTGACTCGAACTTAGGCACTACCAACTCGTATGGGCTTTGAC-TAGGATGCTGCAAAC
66 TGTGGACCTGACTCGAACTTAGGCACCACCAACTCATATGGGCTTTG-CTTAGGATGCCACAAAC
** * *
3133108 TCGTGTGGGCTTTGACTAGGGTGCTACCAACTCTTGTGGGCTTTAACATTCTAAGGCTTAACCAC
130 AAGTGTGGGCTTTGACTAGGGTGCCACCAACTCGTGTGGGCTTTAACATTCTAAGGCTTAACCAC
* * * * * * *** * *****
3133173 CTTAGACAAGTGCCAACTATTTTTGACTTGACTCGAATGTTGGTGCCTCCAACTCGTGTGGGCTT
195 CTTAGAAAAATGCCAACTAATTTGGACTTGACTCAAACGTAAATGCCACCAACTCGAAAAAGCTT
* * * * *
3133238 TGACTCGAGTGCCCCCAACTTGTCCGAGCTTTGACTAGGGTGCCACCAACTCGTGTGGGCTTTAA
260 TGACTCGAGTGCCACCAACTTCTCCGAGCATTGACTAGGGTGCCACCAACTCATGTGGGCATTAA
* *
3133303 CATTCTAAGGCTTAACCAAC-TTAGATAGGGGCCAACTAATGTGGACTTGACTCAAACTTACGTC
325 CATTCTAAGGCTTAACC-ACTTTAGACAGGGGCCAACTAATGTGCACTTGACTCAAACTTACGTC
* * * * * *
3133367 CCACCAACTCGTGAGGGCTTTGACTCAGGTACTGCTAACATG-G-GTGCGTTTTGACTAGGGTGC
389 CCACCAACTCATGAGGGCATTGACTAAGGTACCGCCAACATGTGAG-GCG--TTGACCAGGGTGC
* * * * *
3133430 CACCAAGC-CGTGTGGGCTTTGACATTCTATGGCTTAACATCCTTAGATAGGTGCCAACTAATGT
451 CACCAA-CTCGTGTAGGCTTTAACATTCTAAGGCTTAACATCCTCAGACAGGTGCCAACTAATGT
3133494 GGACTTGACTCA
515 GGACTTGACTCA
3133506 GACTTAGGCA
Statistics
Matches: 441, Mismatches: 80, Indels: 12
0.83 0.15 0.02
Matches are distributed among these distances:
531 1 0.00
532 3 0.01
533 1 0.00
534 433 0.98
535 3 0.01
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (533 bp):
GTGCCACCAAATCGTGTGGGCTTTGACATTCTAAGGCTTAACCCCCTTAGATAGGTGCCAACTAA
TGTGGACCTGACTCGAACTTAGGCACCACCAACTCATATGGGCTTTGCTTAGGATGCCACAAACA
AGTGTGGGCTTTGACTAGGGTGCCACCAACTCGTGTGGGCTTTAACATTCTAAGGCTTAACCACC
TTAGAAAAATGCCAACTAATTTGGACTTGACTCAAACGTAAATGCCACCAACTCGAAAAAGCTTT
GACTCGAGTGCCACCAACTTCTCCGAGCATTGACTAGGGTGCCACCAACTCATGTGGGCATTAAC
ATTCTAAGGCTTAACCACTTTAGACAGGGGCCAACTAATGTGCACTTGACTCAAACTTACGTCCC
ACCAACTCATGAGGGCATTGACTAAGGTACCGCCAACATGTGAGGCGTTGACCAGGGTGCCACCA
ACTCGTGTAGGCTTTAACATTCTAAGGCTTAACATCCTCAGACAGGTGCCAACTAATGTGGACTT
GACTCAAATCTAT
Found at i:3133562 original size:31 final size:31
Alignment explanation
Indices: 3133527--3133601 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
3133517 CACAAACTAA
*
3133527 TGTGGGCTTTAACTCGGGTGCCACCAACAAG
1 TGTGGGCTTTAACTAGGGTGCCACCAACAAG
* * **
3133558 TGTGGGCTTTGACTAGGGTGCGACCAACTCG
1 TGTGGGCTTTAACTAGGGTGCCACCAACAAG
*
3133589 TGTAGGCTTTAAC
1 TGTGGGCTTTAAC
3133602 ATTCTAAGGC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.20, C:0.23, G:0.31, T:0.27
Consensus pattern (31 bp):
TGTGGGCTTTAACTAGGGTGCCACCAACAAG
Found at i:3133839 original size:447 final size:444
Alignment explanation
Indices: 3132979--3134106 Score: 1187
Period size: 447 Copynumber: 2.5 Consensus size: 444
3132969 TCAAATCTAT
*
3132979 GTGCCACCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAACCCCCTTAGATAGGTGCCAACTAA
1 GTGCCACCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAA-CACCTTAGATAGGTGCCAACTAA
* * * * * * * *
3133044 TGTGGACCTGACTC-GAACTTAGGCACTACCAACTCGTATGGGCTTTGACTAGGATGCTGCAAAC
65 TGTGGACTTGACTCAG-ACTTAGGCACCACCAACTCATGTGGGCTTTGACTCGGGTGCCGCCAAC
* * * *
3133108 TCGTGTGGGCTTTGACTAGGGTGCTACCAACTCTTGTGGGCTTTAACATTCTAAGGCTTAACCAC
129 TAGTGTGGGCTTTGACTAGGGTGCCACCAACTCGTGTGGGCTTTAACATTCTAAGGCTTAACCTC
* * * * *** * *** **
3133173 CTTAGACAAGTGCCAACTATTTTTGACTTGACTCGAATGTTGGTGCCTCCAACTCGTGTGGGCTT
194 CTTAGAAAAGTGCC-ACTAATTTGGACTTGACTCGAACGTAAATGCCACCAACTCAAATAAGCTT
* * *
3133238 TGACTCGAGTGCCCCCAACTTGTCCGAGCTTTGACTAGGGTGCCACCAACTCGTGTGGGCTTTAA
258 TGACTCGAGTGCCACCAACTTGTCCGAGCTTTGACTAGGGTGCCACCAACTCGTATGGGCATTAA
* * * * * *
3133303 CATTCTAAGGCTTAACCAACTTAGATAGGGGCCAACTAATGTGGACTTGACTCAAACTTACGTCC
323 CATTCCAAGACTTAACCAACTAAGATAGGGGCCAACTAATCTGGACATGACTCAAACCTACGTCC
* ** * * *
3133368 CACCAACTCGTGAGGGCTTTGACTCAGGTACTGCTAACATGGGTGCGTTTTGACTAGG
388 CACCAACTCGTGAGGGCATTGACTC-GGTACCACCAACATGGATGCGCTTTGACTAGG
*
3133426 GTGCCACCAAGC-CGTGTGGGCTTTGACATTCTATGGCTTAACATCCTTAGATAGGTGCCAACTA
1 GTGCCACCAA-CTCGTGTGGGCTTTGACATTCTAAGGCTTAACA-CCTTAGATAGGTGCCAACTA
* * * *
3133490 ATGTGGACTTGACTCAGACTTAGGCACCACAAACTAATGTGGGCTTTAACTCGGGTGCCACCAAC
64 ATGTGGACTTGACTCAGACTTAGGCACCACCAACTCATGTGGGCTTTGACTCGGGTGCCGCCAAC
* * * *
3133555 AAGTGTGGGCTTTGACTAGGGTGCGACCAACTCGTGTAGGCTTTAACATTCTAAGGCTTGACCTC
129 TAGTGTGGGCTTTGACTAGGGTGCCACCAACTCGTGTGGGCTTTAACATTCTAAGGCTTAACCTC
*
3133620 CTTAGAAAAATGCCATCTAATTTGGACTTGACTCGAACGTAAATGCCACCAACTCAAATAAGCTT
194 CTTAGAAAAGTGCCA-CTAATTTGGACTTGACTCGAACGTAAATGCCACCAACTCAAATAAGCTT
* * * * * *
3133685 TGACTCGGGTGCCACCAACTTGTGCGGGCTTTGACTAGGTTGCCACCAACTCTTATGGGCATTGA
258 TGACTCGAGTGCCACCAACTTGTCCGAGCTTTGACTAGGGTGCCACCAACTCGTATGGGCATTAA
* ** * * * * *
3133750 TATTCCCAA-AC-TAAGCCTCCTAAGATCAGTGG-CTACTAATCTGGGCATGACTCGAGCCTA-G
323 CATT-CCAAGACTTAA-CCAACTAAGAT-AGGGGCCAACTAATCTGGACATGACTCAAACCTACG
* * * * *
3133811 TTGCCA-CAACCTCGTGTGGGCATTGACTCGGTGCCACCAACATGTATGGGCTTTGACTAGG
385 -TCCCACCAA-CTCGTGAGGGCATTGACTCGGTACCACCAACATGGATGCGCTTTGACTAGG
* * * ** *
3133872 GTGCCACCAACTCGGGTGGGTTTTAACATTCTAAGGCTTAACCACCTTAGGCAGGTGCTAACTAA
1 GTGCCACCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAA-CACCTTAGATAGGTGCCAACTAA
* * * * ** *
3133937 TTTGGACTTGACTCATACGTAAGTGCCACCAACTCATGTGGGCTTTGACTCAGGTGCCGCCAACT
65 TGTGGACTTGACTCAGACTTAGGCACCACCAACTCATGTGGGCTTTGACTCGGGTGCCGCCAACT
* * ** * * * * *
3134002 TGTGCGGGCAATGACT-GCAGCGCCACCAACTCGTGTGGGCTTTGACCTTCGAAGGCTTAACCTC
130 AGTGTGGGCTTTGACTAG-GGTGCCACCAACTCGTGTGGGCTTTAACATTCTAAGGCTTAACCTC
* *
3134066 CTTTGAAAGGTGCCCACT-A-TTGCTGACTTGACTCGAACGTA
194 CTTAGAAAAGTG-CCACTAATTTG--GACTTGACTCGAACGTA
3134107 GGAGCTGCCA
Statistics
Matches: 563, Mismatches: 103, Indels: 31
0.81 0.15 0.04
Matches are distributed among these distances:
444 3 0.01
445 3 0.01
446 217 0.39
447 331 0.59
448 9 0.02
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (444 bp):
GTGCCACCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAACACCTTAGATAGGTGCCAACTAAT
GTGGACTTGACTCAGACTTAGGCACCACCAACTCATGTGGGCTTTGACTCGGGTGCCGCCAACTA
GTGTGGGCTTTGACTAGGGTGCCACCAACTCGTGTGGGCTTTAACATTCTAAGGCTTAACCTCCT
TAGAAAAGTGCCACTAATTTGGACTTGACTCGAACGTAAATGCCACCAACTCAAATAAGCTTTGA
CTCGAGTGCCACCAACTTGTCCGAGCTTTGACTAGGGTGCCACCAACTCGTATGGGCATTAACAT
TCCAAGACTTAACCAACTAAGATAGGGGCCAACTAATCTGGACATGACTCAAACCTACGTCCCAC
CAACTCGTGAGGGCATTGACTCGGTACCACCAACATGGATGCGCTTTGACTAGG
Found at i:3134000 original size:31 final size:31
Alignment explanation
Indices: 3133958--3134047 Score: 101
Period size: 31 Copynumber: 2.9 Consensus size: 31
3133948 CTCATACGTA
*
3133958 AGTGCCACCAACTCATGTGGGCTTTGACT-C
1 AGTGCCACCAACTCGTGTGGGCTTTGACTGC
* * * **
3133988 AGGTGCCGCCAACTTGTGCGGGCAATGACTGC
1 A-GTGCCACCAACTCGTGTGGGCTTTGACTGC
*
3134020 AGCGCCACCAACTCGTGTGGGCTTTGAC
1 AGTGCCACCAACTCGTGTGGGCTTTGAC
3134048 CTTCGAAGGC
Statistics
Matches: 46, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
30 1 0.02
31 43 0.93
32 2 0.04
ACGTcount: A:0.19, C:0.30, G:0.29, T:0.22
Consensus pattern (31 bp):
AGTGCCACCAACTCGTGTGGGCTTTGACTGC
Found at i:3134118 original size:149 final size:149
Alignment explanation
Indices: 3132979--3134166 Score: 1004
Period size: 149 Copynumber: 8.0 Consensus size: 149
3132969 TCAAATCTAT
* * *
3132979 GTGCCACCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAACCCCCTTAGATAGGTGCCAACTAA
1 GTGCCACCAACTCGTGTGGGCTTTAACATTCTAAGGCTTAACCTCCTTAGAAAGGTGCCAACTAA
* * * * ** *
3133044 TGTGGACCTGACTCGAACTTAGGCA-CTACCAACTCGTATGGGCTTTGACT-AGGATGCTGCAAA
66 TGTGGACTTGACTCGAACGTAGG-AGCCACCAACTCGTGTGGGCTTTGACTCAGG-TGCCACCAA
*
3133107 CTCGTGTGGGCTTTGACTAGG
129 CTTGTGTGGGCTTTGACTAGG
* * *
3133128 GTGCTACCAACTCTTGTGGGCTTTAACATTCTAAGGCTTAACCACCTTAGACAA-GTGCCAACTA
1 GTGCCACCAACTCGTGTGGGCTTTAACATTCTAAGGCTTAACCTCCTTAGA-AAGGTGCCAACTA
* * * * * * * *
3133192 TTTTTGACTTGACTCGAATGTTGGTGCCTCCAACTCGTGTGGGCTTTGACTC-GAGTGCCCCCAA
65 ATGTGGACTTGACTCGAACGTAGGAGCCACCAACTCGTGTGGGCTTTGACTCAG-GTGCCACCAA
** *
3133256 CTTGTCCGAGCTTTGACTAGG
129 CTTGTGTGGGCTTTGACTAGG
** * *
3133277 GTGCCACCAACTCGTGTGGGCTTTAACATTCTAAGGCTTAACCAACTTAGATAGGGGCCAACTAA
1 GTGCCACCAACTCGTGTGGGCTTTAACATTCTAAGGCTTAACCTCCTTAGAAAGGTGCCAACTAA
* * * ** * * ** * *
3133342 TGTGGACTTGACTCAAACTTACGTCCCACCAACTCGTGAGGGCTTTGACTCAGGTACTGCTAACA
66 TGTGGACTTGACTCGAACGTAGGAGCCACCAACTCGTGTGGGCTTTGACTCAGGTGCCACCAACT
* * *
3133407 TGGGTGCGTTTTGACTAGG
131 TGTGTGGGCTTTGACTAGG
* * * *
3133426 GTGCCACCAAGC-CGTGTGGGCTTTGACATTCTATGGCTTAACATCCTTAGATAGGTGCCAACTA
1 GTGCCACCAA-CTCGTGTGGGCTTTAACATTCTAAGGCTTAACCTCCTTAGAAAGGTGCCAACTA
* * ** * *
3133490 ATGTGGACTTGACTC-AGACTTAGGCA-CCACAAACTAATGTGGGCTTTAACTCGGGTGCCACCA
65 ATGTGGACTTGACTCGA-ACGTAGG-AGCCACCAACTCGTGTGGGCTTTGACTCAGGTGCCACCA
**
3133553 ACAAGTGTGGGCTTTGACTAGG
128 ACTTGTGTGGGCTTTGACTAGG
* * * ** *
3133575 GTGCGACCAACTCGTGTAGGCTTTAACATTCTAAGGCTTGACCTCCTTAGAAAAATGCCATCTAA
1 GTGCCACCAACTCGTGTGGGCTTTAACATTCTAAGGCTTAACCTCCTTAGAAAGGTGCCAACTAA
* * *** ** *
3133640 TTTGGACTTGACTCGAACGTA-AATGCCACCAACTCAAATAAGCTTTGACTCGGGTGCCACCAAC
66 TGTGGACTTGACTCGAACGTAGGA-GCCACCAACTCGTGTGGGCTTTGACTCAGGTGCCACCAAC
*
3133704 TTGTGCGGGCTTTGACTAGG
130 TTGTGTGGGCTTTGACTAGG
* * * * * * * * * * * *
3133724 TTGCCACCAACTCTTATGGGCATTGATATTCCCAA-AC-TAAGCCTCCTAAGATCA-GTGGCTAC
1 GTGCCACCAACTCGTGTGGGCTTTAACATT-CTAAGGCTTAA-CCTCCTTAGA-AAGGTGCCAAC
* * * * * ** *
3133786 TAATCTGGGCATGACTCGAGCCTAGTTGCCA-CAACCTCGTGTGGGCATTGACTC-GGTGCCACC
63 TAATGTGGACTTGACTCGAACGTAGGAGCCACCAA-CTCGTGTGGGCTTTGACTCAGGTGCCACC
* *
3133849 AACATGTATGGGCTTTGACTAGG
127 AACTTGTGTGGGCTTTGACTAGG
* * * ** *
3133872 GTGCCACCAACTCGGGTGGGTTTTAACATTCTAAGGCTTAACCACCTTAGGCAGGTGCTAACTAA
1 GTGCCACCAACTCGTGTGGGCTTTAACATTCTAAGGCTTAACCTCCTTAGAAAGGTGCCAACTAA
* * * * *
3133937 TTTGGACTTGACTC-ATACGTAAGTGCCACCAACTCATGTGGGCTTTGACTCAGGTGCCGCCAAC
66 TGTGGACTTGACTCGA-ACGTAGGAGCCACCAACTCGTGTGGGCTTTGACTCAGGTGCCACCAAC
* ** *
3134001 TTGTGCGGGCAATGACT-GCA
130 TTGTGTGGGCTTTGACTAG-G
* * * * * * *
3134021 GCGCCACCAACTCGTGTGGGCTTTGACCTTCGAAGGCTTAACCTCCTTTGAAAGGTGCCCACTAT
1 GTGCCACCAACTCGTGTGGGCTTTAACATTCTAAGGCTTAACCTCCTTAGAAAGGTGCCAACTAA
** * * * * * ** *
3134086 TGCT-GACTTGACTCGAACGTAGGAGCTGCCAACTCTTGCGGGCTTTGGCTCTGGTGTCGGCAAT
66 TG-TGGACTTGACTCGAACGTAGGAGCCACCAACTCGTGTGGGCTTTGACTCAGGTGCCACCAAC
*
3134150 TTGGGTGGGCTTTGACT
130 TTGTGTGGGCTTTGACT
3134167 CAGGTGCTGC
Statistics
Matches: 824, Mismatches: 188, Indels: 54
0.77 0.18 0.05
Matches are distributed among these distances:
147 7 0.01
148 112 0.14
149 694 0.84
150 11 0.01
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.27
Consensus pattern (149 bp):
GTGCCACCAACTCGTGTGGGCTTTAACATTCTAAGGCTTAACCTCCTTAGAAAGGTGCCAACTAA
TGTGGACTTGACTCGAACGTAGGAGCCACCAACTCGTGTGGGCTTTGACTCAGGTGCCACCAACT
TGTGTGGGCTTTGACTAGG
Found at i:3134444 original size:149 final size:148
Alignment explanation
Indices: 3134226--3134793 Score: 600
Period size: 149 Copynumber: 3.8 Consensus size: 148
3134216 TTTGCTGGCT
* * * **
3134226 TTGACTAGGGGGCCACCAAATCGTGTGGGCTTTGACATTCTAAGGCTTAACCTCCTTAGATTGGT
1 TTGACTAGGGTGCCACCAACTCGTGTGGGCTTTAACATTCTAAGGCTTAACCTCCTTAGACAGGT
* * *
3134291 GCCAACT-ATTGTGGACTTGACTCGACCTTAGGTGCCACCAATTCATGTGGGCTTTGCTTCGGGT
66 GCCAACTAATT-TGGACTTGACTCAAACTTAGGTGCCACCAACTCATGTGGGCTTTGC-TCGGGT
* *
3134355 GCCACCAATATGTTTGGGCT
129 GCCACCAATATGTGTGGGCG
* * * * * **
3134375 TTGACTATGGTGCCGCCAACTCGTGTTGGCTTTAACATTCTAAGGCTTGACCTCCTTAGAAAAAT
1 TTGACTAGGGTGCCACCAACTCGTGTGGGCTTTAACATTCTAAGGCTTAACCTCCTTAGACAGGT
* ** * **
3134440 GCCAACTAATTTGGACTTGACTCAAACGTAAATGCCACCAACTCGA-ATAAGCTTTGACTCGGGT
66 GCCAACTAATTTGGACTTGACTCAAACTTAGGTGCCACCAACTC-ATGTGGGCTTTG-CTCGGGT
* * *
3134504 GCCACCAATTTCTGCGGGCG
129 GCCACCAATATGTGTGGGCG
* * * * *
3134524 TTGACTAGGGTGCCACCAACTCATTTGGGCATTGACATTCTAAGGCTTAACCTCTTTAGACAGGT
1 TTGACTAGGGTGCCACCAACTCGTGTGGGCTTTAACATTCTAAGGCTTAACCTCCTTAGACAGGT
* * * * * * * * * *
3134589 GCCTATTAATGTGGACTTTACTCGAGCTTAGGTGCCACCAATTCATGTGGGCATTGAGTAGGGTG
66 GCCAACTAATTTGGACTTGACTCAAACTTAGGTGCCACCAACTCATGTGGGCTTTG-CTCGGGTG
** *
3134654 CTGCCAACATGTGTGGGCG
130 CCACCAATATGTGTGGGCG
* * * * *
3134673 TTGACCAGGGTGGCACCAACTCGTGTGGGCTTTAACATTCTAAGGCTTGACATCCTCAGACAGGT
1 TTGACTAGGGTGCCACCAACTCGTGTGGGCTTTAACATTCTAAGGCTTAACCTCCTTAGACAGGT
* * * *
3134738 CCCAACTAATTTGGACTTGACTCAAACATATGTGCCACCCACTCATGTGGGCTTTG
66 GCCAACTAATTTGGACTTGACTCAAACTTAGGTGCCACCAACTCATGTGGGCTTTG
3134794 ACATTCTAAG
Statistics
Matches: 334, Mismatches: 81, Indels: 8
0.79 0.19 0.02
Matches are distributed among these distances:
148 1 0.00
149 328 0.98
150 5 0.01
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (148 bp):
TTGACTAGGGTGCCACCAACTCGTGTGGGCTTTAACATTCTAAGGCTTAACCTCCTTAGACAGGT
GCCAACTAATTTGGACTTGACTCAAACTTAGGTGCCACCAACTCATGTGGGCTTTGCTCGGGTGC
CACCAATATGTGTGGGCG
Found at i:3134559 original size:31 final size:31
Alignment explanation
Indices: 3134493--3134559 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 31
3134483 CGAATAAGCT
* * *
3134493 TTGACTCGGGTGCCACCAATTTCTGCGGGCG
1 TTGACTAGGGTGCCACCAATCTCTGCGGGCA
**
3134524 TTGACTAGGGTGCCACCAA-CTCATTTGGGCA
1 TTGACTAGGGTGCCACCAATCTC-TGCGGGCA
3134555 TTGAC
1 TTGAC
3134560 ATTCTAAGGC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 2 0.07
31 28 0.93
ACGTcount: A:0.18, C:0.27, G:0.28, T:0.27
Consensus pattern (31 bp):
TTGACTAGGGTGCCACCAATCTCTGCGGGCA
Found at i:3134574 original size:298 final size:298
Alignment explanation
Indices: 3134207--3134764 Score: 785
Period size: 298 Copynumber: 1.9 Consensus size: 298
3134197 AGGGTGCCAC
* * * *
3134207 CCACCAACTTTTGCTGGCTTTGACTAGGGGGCCACCAAATCGTGTGGGCTTTGACATTCTAAGGC
1 CCACCAACTTTTGCGGGCGTTGACTAGGGGGCCACCAAATCATGTGGGCATTGACATTCTAAGGC
** *
3134272 TTAACCTCCTTAGATTGGTGCCAACTATTGTGGACTTGACTCGACCTTAGGTGCCACCAATTCAT
66 TTAACCTCCTTAGACAGGTGCCAACTAATGTGGACTTGACTCGACCTTAGGTGCCACCAATTCAT
* ** * * * * * * * *
3134337 GTGGGCTTTGCTTCGGGTGCCACCAATATGTTTGGGCTTTGACTATGGTGCCGCCAACTCGTGTT
131 GTGGGCATTGAGTAGGGTGCCACCAACATGTGTGGGCGTTGACCAGGGTGCCACCAACTCGTGTG
* * *
3134402 GGCTTTAACATTCTAAGGCTTGACCTCCTTAGAAAAATGCCAACTAATTTGGACTTGACTCAAAC
196 GGCTTTAACATTCTAAGGCTTGACATCCTCAGAAAAATCCCAACTAATTTGGACTTGACTCAAAC
3134467 GTAAATGCCACCAACTCGAATAAGCTTTGACTCGGGTG
261 GTAAATGCCACCAACTCGAATAAGCTTTGACTCGGGTG
* * *
3134505 CCACCAA-TTTCTGCGGGCGTTGACTAGGGTGCCACCAACTCATTTGGGCATTGACATTCTAAGG
1 CCACCAACTTT-TGCGGGCGTTGACTAGGGGGCCACCAAATCATGTGGGCATTGACATTCTAAGG
* * * * *
3134569 CTTAACCTCTTTAGACAGGTGCCTATTAATGTGGACTTTACTCGAGCTTAGGTGCCACCAATTCA
65 CTTAACCTCCTTAGACAGGTGCCAACTAATGTGGACTTGACTCGACCTTAGGTGCCACCAATTCA
** *
3134634 TGTGGGCATTGAGTAGGGTGCTGCCAACATGTGTGGGCGTTGACCAGGGTGGCACCAACTCGTGT
130 TGTGGGCATTGAGTAGGGTGCCACCAACATGTGTGGGCGTTGACCAGGGTGCCACCAACTCGTGT
* **
3134699 GGGCTTTAACATTCTAAGGCTTGACATCCTCAGACAGGTCCCAACTAATTTGGACTTGACTCAAA
195 GGGCTTTAACATTCTAAGGCTTGACATCCTCAGAAAAATCCCAACTAATTTGGACTTGACTCAAA
3134764 C
260 C
3134765 ATATGTGCCA
Statistics
Matches: 224, Mismatches: 35, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
297 3 0.01
298 221 0.99
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (298 bp):
CCACCAACTTTTGCGGGCGTTGACTAGGGGGCCACCAAATCATGTGGGCATTGACATTCTAAGGC
TTAACCTCCTTAGACAGGTGCCAACTAATGTGGACTTGACTCGACCTTAGGTGCCACCAATTCAT
GTGGGCATTGAGTAGGGTGCCACCAACATGTGTGGGCGTTGACCAGGGTGCCACCAACTCGTGTG
GGCTTTAACATTCTAAGGCTTGACATCCTCAGAAAAATCCCAACTAATTTGGACTTGACTCAAAC
GTAAATGCCACCAACTCGAATAAGCTTTGACTCGGGTG
Found at i:3134876 original size:87 final size:87
Alignment explanation
Indices: 3134686--3134882 Score: 207
Period size: 87 Copynumber: 2.3 Consensus size: 87
3134676 ACCAGGGTGG
* * *
3134686 CACCAACTCGTGTGGGCTTTAACATTCTAAGGCTTGACATCCTCAGACAGGTCCCAACTAATTTG
1 CACCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAACACCCTCAGACAGGTCCCAACTAATTTG
* * *
3134751 GACTTGACTCAAACATATGTGC
66 GACCTGACTCAAACATAGGCGC
* * * * ** ** *
3134773 CACCCACTCATGTGGGCTTTGACATTCTAAGGCTTAACCCCCTTAGGTAGGTGTCGACT-ATTGT
1 CACCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAACACCCTCAGACAGGTCCCAACTAATT-T
*
3134837 GGACCTGACTCAAACTTAGGCGC
65 GGACCTGACTCAAACATAGGCGC
* * *
3134860 CACCAACTTGTATGGGCATTGAC
1 CACCAACTCGTGTGGGCTTTGAC
3134883 TAGGGTGCTA
Statistics
Matches: 88, Mismatches: 21, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
86 3 0.03
87 85 0.97
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (87 bp):
CACCAACTCGTGTGGGCTTTGACATTCTAAGGCTTAACACCCTCAGACAGGTCCCAACTAATTTG
GACCTGACTCAAACATAGGCGC
Found at i:3134913 original size:31 final size:31
Alignment explanation
Indices: 3134872--3134933 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
3134862 CCAACTTGTA
*
3134872 TGGGCATTGACTAGGGTGCTACAAACTCATG
1 TGGGCATTGACTAGGGGGCTACAAACTCATG
* *
3134903 TGGGCTTTGACTAGGGGGCTACCAACTCATG
1 TGGGCATTGACTAGGGGGCTACAAACTCATG
3134934 GGCATTTAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.26
Consensus pattern (31 bp):
TGGGCATTGACTAGGGGGCTACAAACTCATG
Found at i:3135099 original size:235 final size:235
Alignment explanation
Indices: 3134533--3135118 Score: 547
Period size: 235 Copynumber: 2.5 Consensus size: 235
3134523 GTTGACTAGG
* * * * * * * * * *
3134533 GTGCCACCAACTCATTTGGGCATTGACATTCTAAGGCTTAACCTCTTTAGACAGGTGCCTATTAA
1 GTGCCACCAACCCATGTGGGCTTTGACATTCTAAGCCTTAACCCCCTTAGACAGCTGACGACTAA
* * * * * * * * * *
3134598 TGTGGACTTTACTCGAGCTTAGGTGCCACCAA-TTCATGTGGGCATTGAGTAGGGTGCTGCCAAC
66 TGTGCACCTGACTCAAACCTAGGTGCCACCAACTT-GTGTGGGCATTGACTAGGGTGCTACAAAC
* *
3134662 ATGTGTGGGCGTTGACCAGGGTGGCACCAACTCGTGTGGGCTTTAACATTCTAAGGCTTGACATC
130 ATATGTGGGCGTTGACCAGGGTGGCACCAACTCG-ATGGGCTTTAACATTCTAAGGCTTGACATC
* *
3134727 CTCAGACAGGTCCCAACTAATTTGGACTTGACTCAAACATAT
194 CTCAAACAGGTCCCAACTAATTTGGACATGACTCAAACATAT
* * * ** * * *
3134769 GTGCCACCCACTCATGTGGGCTTTGACATTCTAAGGCTTAACCCCCTTAGGTAGGTGTCGACTAT
1 GTGCCACCAACCCATGTGGGCTTTGACATTCTAAGCCTTAACCCCCTTAGACAGCTGACGACTAA
* * * *
3134834 TGTGGACCTGACTCAAACTTAGGCGCCACCAACTTGTATGGGCATTGACTAGGGTGCTACAAAC-
66 TGTGCACCTGACTCAAACCTAGGTGCCACCAACTTGTGTGGGCATTGACTAGGGTGCTACAAACA
* * * *
3134898 TCATGTGGGCTTTGACTAGGG-GGCTACCAACTC-ATGGGCATTTAACATTCTAGGGCTTGACCT
131 T-ATGTGGGCGTTGACCAGGGTGGC-ACCAACTCGATGGGC-TTTAACATTCTAAGGCTTGACAT
* * **
3134961 CC-CTAAACAGGTGCCAACTAATTTGGACATGACTCGAATGT-T
193 CCTC-AAACAGGTCCCAACTAATTTGGACATGACTCAAACATAT
* * * * *
3135003 GATGCCATCAACCCGTTTGGGCTTTGATATTCTAAGCCTTAACCTCCTTAGACAGCT-ACGAACT
1 G-TGCCACCAACCCATGTGGGCTTTGACATTCTAAGCCTTAACCCCCTTAGACAGCTGACG-ACT
** * ** * *
3135067 AATGTGCAGTTGATTTGAACCTAGGTGCCACCAACTCGTGTGGGCTTTGACT
64 AATGTGCACCTGACTCAAACCTAGGTGCCACCAACTTGTGTGGGCATTGACT
3135119 TTAGTGCCGC
Statistics
Matches: 286, Mismatches: 57, Indels: 15
0.80 0.16 0.04
Matches are distributed among these distances:
234 10 0.03
235 145 0.51
236 129 0.45
237 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (235 bp):
GTGCCACCAACCCATGTGGGCTTTGACATTCTAAGCCTTAACCCCCTTAGACAGCTGACGACTAA
TGTGCACCTGACTCAAACCTAGGTGCCACCAACTTGTGTGGGCATTGACTAGGGTGCTACAAACA
TATGTGGGCGTTGACCAGGGTGGCACCAACTCGATGGGCTTTAACATTCTAAGGCTTGACATCCT
CAAACAGGTCCCAACTAATTTGGACATGACTCAAACATAT
Found at i:3135126 original size:31 final size:32
Alignment explanation
Indices: 3135088--3135236 Score: 121
Period size: 31 Copynumber: 4.8 Consensus size: 32
3135078 GATTTGAACC
3135088 TAGGTGCCACCAACTCGTGTGGGCTTTGACTT
1 TAGGTGCCACCAACTCGTGTGGGCTTTGACTT
* * *
3135120 TA-GTGCCGCCAACTTGTGCGGGCTTTGAC--
1 TAGGTGCCACCAACTCGTGTGGGCTTTGACTT
* * * *
3135149 TAGGGCGCCATCAACTAGTGTGGGTTTTGAC-T
1 TA-GGTGCCACCAACTCGTGTGGGCTTTGACTT
* * * * *
3135181 CAGGTGCCTCCAACTTGTGCGGGCTTT-A-AT
1 TAGGTGCCACCAACTCGTGTGGGCTTTGACTT
*
3135211 TAGGGTGCCACCAACTCATGTGGGCT
1 TA-GGTGCCACCAACTCGTGTGGGCT
3135237 ATAACATTCT
Statistics
Matches: 91, Mismatches: 21, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
29 2 0.02
30 3 0.03
31 83 0.91
32 3 0.03
ACGTcount: A:0.17, C:0.25, G:0.30, T:0.29
Consensus pattern (32 bp):
TAGGTGCCACCAACTCGTGTGGGCTTTGACTT
Found at i:3135170 original size:62 final size:62
Alignment explanation
Indices: 3135093--3135236 Score: 184
Period size: 62 Copynumber: 2.3 Consensus size: 62
3135083 GAACCTAGGT
* * *
3135093 GCCACCAACTCGTGTGGGCTTTGACTTTA-GTGCCGCCAACTTGTGCGGGCTTTGACTAGGGC
1 GCCACCAACTAGTGTGGGCTTTGAC-TCAGGTGCCGCCAACTTGTGCGGGCTTTAACTAGGGC
* * * * *
3135155 GCCATCAACTAGTGTGGGTTTTGACTCAGGTGCCTCCAACTTGTGCGGGCTTTAATTAGGGT
1 GCCACCAACTAGTGTGGGCTTTGACTCAGGTGCCGCCAACTTGTGCGGGCTTTAACTAGGGC
3135217 GCCACCAACTCA-TGTGGGCT
1 GCCACCAACT-AGTGTGGGCT
3135237 ATAACATTCT
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
61 2 0.03
62 67 0.96
63 1 0.01
ACGTcount: A:0.17, C:0.26, G:0.29, T:0.28
Consensus pattern (62 bp):
GCCACCAACTAGTGTGGGCTTTGACTCAGGTGCCGCCAACTTGTGCGGGCTTTAACTAGGGC
Found at i:3135506 original size:31 final size:31
Alignment explanation
Indices: 3135468--3135632 Score: 154
Period size: 31 Copynumber: 5.3 Consensus size: 31
3135458 CAACTCGAAC
* *
3135468 GGGCTTTGACTTAGGTACCACCAATTTGTGT
1 GGGCTTTGACTTAGGTGCCACCAACTTGTGT
* ** * *
3135499 GGGCTTTGACTCAGGTGCCGTCGACTTGTGC
1 GGGCTTTGACTTAGGTGCCACCAACTTGTGT
* * * *
3135530 GGGCATTGACTAAGGTGTCACCAACTCGTGT
1 GGGCTTTGACTTAGGTGCCACCAACTTGTGT
* *
3135561 GGGCTTTGA-TTCGGGTGCCACCAACTTGTGC
1 GGGCTTTGACTT-AGGTGCCACCAACTTGTGT
* * *
3135592 GAGCTTTGA-ATAGGGTGCCACCAACTCGTGT
1 GGGCTTTGACTTA-GGTGCCACCAACTTGTGT
3135623 GGGCTTTGAC
1 GGGCTTTGAC
3135633 ATTCTAAGGC
Statistics
Matches: 104, Mismatches: 27, Indels: 5
0.76 0.20 0.04
Matches are distributed among these distances:
30 1 0.01
31 103 0.99
ACGTcount: A:0.17, C:0.23, G:0.31, T:0.29
Consensus pattern (31 bp):
GGGCTTTGACTTAGGTGCCACCAACTTGTGT
Done.