Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold111
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: 1194829
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.25
Warning! 272571 characters in sequence are not A, C, G, or T
File 3 of 6
Found at i:340145 original size:20 final size:20
Alignment explanation
Indices: 340120--340173 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
340110 GTTTGAGTCA
*
340120 ATGTATCGATACAAT-TCTTC
1 ATGTATCGATACAATGT-GTC
*
340140 ATGTATTGATACAATGTGTC
1 ATGTATCGATACAATGTGTC
340160 ATGTATCGATACAA
1 ATGTATCGATACAA
340174 ATAGTGGTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACAATGTGTC
Found at i:342786 original size:13 final size:13
Alignment explanation
Indices: 342750--342786 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
342740 GTAACTCATT
*
342750 TATCGATACATTG
1 TATCGATACAATG
342763 TATCGATACAATG
1 TATCGATACAATG
342776 TATCGATACAA
1 TATCGATACAA
342787 AGAACATTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:344167 original size:13 final size:13
Alignment explanation
Indices: 344149--344174 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
344139 ACACAAAGTA
344149 TGTATCGATACAT
1 TGTATCGATACAT
344162 TGTATCGATACAT
1 TGTATCGATACAT
344175 ATTTAAAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:344206 original size:20 final size:20
Alignment explanation
Indices: 344159--344211 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
344149 TGTATCGATA
*
344159 CATTGTATCGATACATATTT
1 CATTGTATCGATACATATTG
* ** *
344179 AAAAGTATCGATACATGTTG
1 CATTGTATCGATACATATTG
344199 CATTGTATCGATA
1 CATTGTATCGATA
344212 TATGAAAAAG
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (20 bp):
CATTGTATCGATACATATTG
Found at i:344272 original size:137 final size:137
Alignment explanation
Indices: 344026--344331 Score: 544
Period size: 137 Copynumber: 2.2 Consensus size: 137
344016 ACTCTGAAAA
344026 GTATCGATACACATTTAAAAGTATCGATACATGTTGCATTGTATCGATACATGAAAAAGATGTAT
1 GTATCGATACACATTTAAAAGTATCGATACATGTTGCATTGTATCGATACATGAAAAAGATGTAT
* *
344091 CGATACATGTCTTTGGGATTTCTTGGCAGTAGCCAAACTTGTATCGATACACAAAGTATGTATCG
66 CGATAAATGTCATTGGGATTTCTTGGCAGTAGCCAAACTTGTATCGATACACAAAGTATGTATCG
344156 ATACATT
131 ATACATT
* *
344163 GTATCGATACATATTTAAAAGTATCGATACATGTTGCATTGTATCGATATATGAAAAAGATGTAT
1 GTATCGATACACATTTAAAAGTATCGATACATGTTGCATTGTATCGATACATGAAAAAGATGTAT
344228 CGATAAATGTCATTGGGATTTCTTGGCAGTAGCCAAACTTGTATCGATACACAAAGTATGTATCG
66 CGATAAATGTCATTGGGATTTCTTGGCAGTAGCCAAACTTGTATCGATACACAAAGTATGTATCG
344293 ATACATT
131 ATACATT
344300 GTATCGATACACCA--TAAAATGTATCGATACAT
1 GTATCGATACA-CATTTAAAA-GTATCGATACAT
344332 TGGCTTGCAA
Statistics
Matches: 162, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
136 5 0.03
137 156 0.96
138 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.33
Consensus pattern (137 bp):
GTATCGATACACATTTAAAAGTATCGATACATGTTGCATTGTATCGATACATGAAAAAGATGTAT
CGATAAATGTCATTGGGATTTCTTGGCAGTAGCCAAACTTGTATCGATACACAAAGTATGTATCG
ATACATT
Found at i:344304 original size:13 final size:13
Alignment explanation
Indices: 344286--344310 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
344276 ACACAAAGTA
344286 TGTATCGATACAT
1 TGTATCGATACAT
344299 TGTATCGATACA
1 TGTATCGATACA
344311 CCATAAAATG
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:344307 original size:32 final size:33
Alignment explanation
Indices: 344266--344333 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
344256 GTAGCCAAAC
*
344266 TTGTATCGATACA-CA-AAGTATGTATCGATACA
1 TTGTATCGATACACCATAA-AATGTATCGATACA
344298 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCATAAAATGTATCGATACA
344331 TTG
1 TTG
344334 GCTTGCAACG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 13 0.39
33 18 0.55
34 2 0.06
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACACCATAAAATGTATCGATACA
Found at i:350441 original size:13 final size:13
Alignment explanation
Indices: 350423--350461 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
350413 ACATCATTCT
350423 TTGTATCGATACA
1 TTGTATCGATACA
350436 TTGTATCGATACA
1 TTGTATCGATACA
*
350449 CTGTATCGATACA
1 TTGTATCGATACA
350462 GGGGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:352936 original size:65 final size:65
Alignment explanation
Indices: 352861--353075 Score: 163
Period size: 65 Copynumber: 3.2 Consensus size: 65
352851 ACATGTTGCA
352861 TTGTATCGATACATGAAAAAGATGTATCGATACATGTCTTTGGGATTTCTTGGCAGTAGCCAAAC
1 TTGTATCGATACATGAAAAAGATGTATCGATACATGTCTTTGGGATTTCTTGGCAGTAGCCAAAC
* ** * *** *
352926 TTGTATCGATAC---ACAAAGTATGTATCGATACAT-TCTATCAAT-ACATAT-TTAAAAGTATC
1 TTGTATCGATACATGAAAAAG-ATGTATCGATACATGTCT-T---TGGGATTTCTTGGCAGTAGC
*
352985 GATACATGTTGC
61 CA-A-A-----C
* * *
352997 ATTATATCGATACATGAAAAAGATGTATCGATACAGGTCATTGGGATTTCTTGGCAGTAGCCAAA
1 -TTGTATCGATACATGAAAAAGATGTATCGATACATGTCTTTGGGATTTCTTGGCAGTAGCCAAA
353062 C
65 C
353063 TTGTATCGATACA
1 TTGTATCGATACA
353076 CAAAGTATGT
Statistics
Matches: 109, Mismatches: 22, Indels: 38
0.64 0.13 0.22
Matches are distributed among these distances:
62 8 0.07
63 15 0.14
64 8 0.07
65 28 0.26
66 3 0.03
71 3 0.03
72 15 0.14
73 8 0.07
74 14 0.13
75 7 0.06
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (65 bp):
TTGTATCGATACATGAAAAAGATGTATCGATACATGTCTTTGGGATTTCTTGGCAGTAGCCAAAC
Found at i:353075 original size:137 final size:137
Alignment explanation
Indices: 352824--353094 Score: 497
Period size: 137 Copynumber: 2.0 Consensus size: 137
352814 CCTTGAAAAG
* *
352824 TATCGATACACATTTAAAAGTATCGATACATGTTGCATTGTATCGATACATGAAAAAGATGTATC
1 TATCAATACACATTTAAAAGTATCGATACATGTTGCATTATATCGATACATGAAAAAGATGTATC
* *
352889 GATACATGTCTTTGGGATTTCTTGGCAGTAGCCAAACTTGTATCGATACACAAAGTATGTATCGA
66 GATACAGGTCATTGGGATTTCTTGGCAGTAGCCAAACTTGTATCGATACACAAAGTATGTATCGA
352954 TACATTC
131 TACATTC
*
352961 TATCAATACATATTTAAAAGTATCGATACATGTTGCATTATATCGATACATGAAAAAGATGTATC
1 TATCAATACACATTTAAAAGTATCGATACATGTTGCATTATATCGATACATGAAAAAGATGTATC
353026 GATACAGGTCATTGGGATTTCTTGGCAGTAGCCAAACTTGTATCGATACACAAAGTATGTATCGA
66 GATACAGGTCATTGGGATTTCTTGGCAGTAGCCAAACTTGTATCGATACACAAAGTATGTATCGA
353091 TACA
131 TACA
353095 CCATAAAATG
Statistics
Matches: 129, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 129 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.32
Consensus pattern (137 bp):
TATCAATACACATTTAAAAGTATCGATACATGTTGCATTATATCGATACATGAAAAAGATGTATC
GATACAGGTCATTGGGATTTCTTGGCAGTAGCCAAACTTGTATCGATACACAAAGTATGTATCGA
TACATTC
Found at i:353088 original size:19 final size:20
Alignment explanation
Indices: 353064--353114 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
353054 TAGCCAAACT
*
353064 TGTATCGATACA-CA-AAGTA
1 TGTATCGATACACCATAA-AA
353083 TGTATCGATACACCATAAAA
1 TGTATCGATACACCATAAAA
353103 TGTATCGATACA
1 TGTATCGATACA
353115 TTGGCTTGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 12 0.41
20 15 0.52
21 2 0.07
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (20 bp):
TGTATCGATACACCATAAAA
Found at i:355971 original size:33 final size:33
Alignment explanation
Indices: 355914--355977 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
355904 GCCAAGGAAA
*
355914 TGTATCGATACATTATTCAATGTATTGATACAT
1 TGTATCGATACATTATTCAATGTATCGATACAT
**
355947 TGTATCGATACATTGA-TCTTTGTATCGATAC
1 TGTATCGATACATT-ATTCAATGTATCGATAC
355978 TTCTGGGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 26 0.96
34 1 0.04
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATTATTCAATGTATCGATACAT
Found at i:362687 original size:13 final size:13
Alignment explanation
Indices: 362669--362693 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
362659 CAATTCTTGA
362669 TGTATCGATACAT
1 TGTATCGATACAT
362682 TGTATCGATACA
1 TGTATCGATACA
362694 ATGTGCCATA
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:365724 original size:30 final size:29
Alignment explanation
Indices: 365676--365735 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
365666 TCTTTATATG
*
365676 ATAAAATTACATAATATATAAATATAAAT
1 ATAAAATTACATAATATATAAATAAAAAT
* *
365705 ATAAAATTAACATATTATATAACTAAAAAT
1 ATAAAATT-ACATAATATATAAATAAAAAT
365735 A
1 A
365736 AATCAAGTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 8 0.30
30 19 0.70
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (29 bp):
ATAAAATTACATAATATATAAATAAAAAT
Found at i:366315 original size:49 final size:49
Alignment explanation
Indices: 366260--366357 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
366250 TATTTGCTAA
366260 TTTTATAAAATTATTTTTAATTTTAATTTTTTTCCTTTAATAAATAGAT
1 TTTTATAAAATTATTTTTAATTTTAATTTTTTTCCTTTAATAAATAGAT
366309 TTTTATAAAATTATTTTTAATTTTAATTTTTTTCCTTTAATAAATAGAT
1 TTTTATAAAATTATTTTTAATTTTAATTTTTTTCCTTTAATAAATAGAT
366358 AAAAAAATAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (49 bp):
TTTTATAAAATTATTTTTAATTTTAATTTTTTTCCTTTAATAAATAGAT
Found at i:366704 original size:17 final size:18
Alignment explanation
Indices: 366677--366717 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
366667 AATAAAATAT
366677 TTTATATTTTACAA-ATT-A
1 TTTA-ATTTTA-AATATTAA
366695 TTTAATTTTAAATATTAA
1 TTTAATTTTAAATATTAA
366713 TTTAA
1 TTTAA
366718 ATTATGAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 2 0.10
17 9 0.43
18 10 0.48
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTAATTTTAAATATTAA
Found at i:373372 original size:156 final size:155
Alignment explanation
Indices: 372893--373744 Score: 626
Period size: 155 Copynumber: 5.5 Consensus size: 155
372883 AAAAGGCTAA
* * * * * * * * * *
372893 GTTCAAAAAAATTACGAAAATGCCCCAAGGGGATGA-CTCCGACGTAAAAGT-GCCTGATACCCC
1 GTTCTAAAAAATTACAAAAATACCCCTAGGGGAT-ACCTTCGACGTGAAAGTATCCCGGTAACCC
* * * * * * * * * **
372956 TAAATGACTTAAAAAGGATTATAGATGAGACGAACCTATCCGAAATATCTACCTTCAGCAT-AAA
65 TAAAGGACTT-AAAAGGACTATAAAAGGGATGAACCTATCCTAAATACCCACCTTTGGCATAAAA
373020 -CATGGACAC-GGTGACAACCTAGGACTTG
129 GCA--GAC-CTGGTGACAACCTAGGACTTG
* * * * * *
373048 ATTCTAAAAAATTACCAAAATGCCCCTAGGGGGTACCTTCGACGTAAAAGTAT-CCGG-CACCCT
1 GTTCTAAAAAATTACAAAAATACCCCTAGGGGATACCTTCGACGTGAAAGTATCCCGGTAACCC-
* * * *
373111 TAAAAGACTTAAAGAGGA-TAATAGAAA-GGATGAACCTA-CCTTAAATATCCACTTTTGGCACA
65 TAAAGGACTTAAA-AGGACT-ATA-AAAGGGATGAACCTATCC-TAAATACCCACCTTTGGCATA
** * * * *
373173 AAAGTGGACCCGGTGATAACCTAAGACTCG
126 AAAGCAGACCTGGTGACAACCTAGGACTTG
* * * *
373203 GTTCTAAAAAATTACAAAAATATCCCTAGGGGATATCTTTGACGTGAAAGTATCCCGGTACCCCT
1 GTTCTAAAAAATTACAAAAATACCCCTAGGGGATACCTTCGACGTGAAAGTATCCCGGTAACCCT
* * ** *
373268 AAAGGACTTTCAAAGGACTATAAAAGGGAAGGGCCTATCCTAAATGCCCACCTTTGGCATAAAAG
66 AAAGGAC-TTAAAAGGACTATAAAAGGGATGAACCTATCCTAAATACCCACCTTTGGCATAAAAG
*
373333 CAGACCTGGTGATAACCTAGGACTTG
130 CAGACCTGGTGACAACCTAGGACTTG
* * ** * ** * *
373359 GTTTTGAAAAATTACGTAAATGCCTATAAGGGATACCTTCGACGTGAAAGTATCCCAGTAACCCT
1 GTTCTAAAAAATTACAAAAATACCCCTAGGGGATACCTTCGACGTGAAAGTATCCCGGTAACCCT
* * **
373424 AAAGGACTTAAAAAGACT-TAAAAAGGG-TGAACCTATCCTAAATACCCAACTTCAGCATAAAAG
66 AAAGGACTTAAAAGGACTAT-AAAAGGGATGAACCTATCCTAAATACCCACCTTTGGCATAAAAG
* * *
373487 CGGA-CTCGGTGACAACTTAGGAGTTG
130 CAGACCT-GGTGACAACCTAGGACTTG
** * * ***
373513 GTTCT-AAAAATTATGAAAATACCCCTATGGG-TACACTTTCAACGTGAAAGTATCTTAGTAACC
1 GTTCTAAAAAATTACAAAAATACCCCTAGGGGATAC-C-TTCGACGTGAAAGTATCCCGGTAACC
* * * **
373576 CTAAAGTACTTAAAATGACTATAAAAGGGGTGAACCTATCCTAAATACTGACCTTTGGCA-AAAA
64 CTAAAGGACTTAAAAGGACTATAAAAGGGATGAACCTATCCTAAATACCCACCTTTGGCATAAAA
** * * * *
373640 AAAGGACCTGCTGACAACTTAGAAGTTG
129 GCA-GACCTGGTGACAACCTAGGACTTG
* * * * * *
373668 GTTCTCAAAAATTACAAAAATACCCTTGGGGGATATCTTCGACGT-AGAAGTA-CCCGATATCCC
1 GTTCTAAAAAATTACAAAAATACCCCTAGGGGATACCTTCGACGTGA-AAGTATCCCGGTAACCC
373731 TAAAAGG-CTTAAAA
65 T-AAAGGACTTAAAA
373745 AAGATTTTAG
Statistics
Matches: 557, Mismatches: 112, Indels: 57
0.77 0.15 0.08
Matches are distributed among these distances:
152 3 0.01
153 23 0.04
154 131 0.24
155 233 0.42
156 155 0.28
157 12 0.02
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (155 bp):
GTTCTAAAAAATTACAAAAATACCCCTAGGGGATACCTTCGACGTGAAAGTATCCCGGTAACCCT
AAAGGACTTAAAAGGACTATAAAAGGGATGAACCTATCCTAAATACCCACCTTTGGCATAAAAGC
AGACCTGGTGACAACCTAGGACTTG
Found at i:375276 original size:22 final size:24
Alignment explanation
Indices: 375248--375295 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
375238 AGCTTCCTTT
*
375248 TTGTTTCC-TTT-TCTTTTGCTTA
1 TTGTTTCCATTTATCTATTGCTTA
*
375270 TTGTTTCCATTTATCTATTGTTTA
1 TTGTTTCCATTTATCTATTGCTTA
375294 TT
1 TT
375296 CTTCCACCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 8 0.36
23 3 0.14
24 11 0.50
ACGTcount: A:0.10, C:0.15, G:0.08, T:0.67
Consensus pattern (24 bp):
TTGTTTCCATTTATCTATTGCTTA
Found at i:375500 original size:22 final size:22
Alignment explanation
Indices: 375456--375501 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
375446 TCATTTGCTC
* *
375456 TTGCTGCTATTATGTATGTTAT
1 TTGCTGCTATTATGCATGCTAT
375478 TTGCTGCTATCT-TGCATGCTAT
1 TTGCTGCTAT-TATGCATGCTAT
375500 TT
1 TT
375502 CCTTTAAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.15, C:0.15, G:0.17, T:0.52
Consensus pattern (22 bp):
TTGCTGCTATTATGCATGCTAT
Found at i:376005 original size:16 final size:16
Alignment explanation
Indices: 375986--376029 Score: 79
Period size: 16 Copynumber: 2.8 Consensus size: 16
375976 GTGGGGATGA
375986 ATTCTTGATGGGATTT
1 ATTCTTGATGGGATTT
376002 ATTCTTGATGGGATTT
1 ATTCTTGATGGGATTT
*
376018 ATTCGTGATGGG
1 ATTCTTGATGGG
376030 GAAATCTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.18, C:0.07, G:0.30, T:0.45
Consensus pattern (16 bp):
ATTCTTGATGGGATTT
Found at i:378400 original size:14 final size:14
Alignment explanation
Indices: 378381--378411 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
378371 AGAAACCATG
378381 TTTCGTCAAGAAAT
1 TTTCGTCAAGAAAT
*
378395 TTTCGTCAAGAACT
1 TTTCGTCAAGAAAT
378409 TTT
1 TTT
378412 GTTTTGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (14 bp):
TTTCGTCAAGAAAT
Found at i:378774 original size:32 final size:31
Alignment explanation
Indices: 378701--378818 Score: 130
Period size: 32 Copynumber: 3.7 Consensus size: 31
378691 AACCCTTCGT
*
378701 AAAGCCCACAAAAGTCGGTGGCAACCCCTTC
1 AAAGCCCACACAAGTCGGTGGCAACCCCTTC
* *
378732 AAAGCCCACACAAGTTGGTGGCAACCTTTCTTC
1 AAAGCCCACACAAGTCGGTGGCAACC--CCTTC
** *
378765 -AAGCCCACACAAGTCAATGGCAACCCTTTC
1 AAAGCCCACACAAGTCGGTGGCAACCCCTTC
* *
378795 AAAAGACCACACAAGCCGGTGGCA
1 -AAAGCCCACACAAGTCGGTGGCA
378819 TCTCCTTCTA
Statistics
Matches: 71, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
30 3 0.04
31 24 0.34
32 40 0.56
33 4 0.06
ACGTcount: A:0.33, C:0.33, G:0.19, T:0.15
Consensus pattern (31 bp):
AAAGCCCACACAAGTCGGTGGCAACCCCTTC
Found at i:379039 original size:104 final size:104
Alignment explanation
Indices: 378895--379178 Score: 378
Period size: 104 Copynumber: 2.7 Consensus size: 104
378885 TATCTCTAGC
* * * *
378895 CCTT-AATCAGCACATTGGCACCTTTTTTTTTCTCATGTCCAATATCGTTGGCCTTGAATTGGCA
1 CCTTGAATCAGCACATTGGCACATTTTTCTTTCTCAAGTCCAATATCGTTGGCCTTGAATTAGCA
*
378959 TATTAGCACCTTTGTCATCTTTAAGTCTAATGTTGCTGG
66 TATTAGCACCTTTGCCATCTTTAAGTCTAATGTTGCTGG
* * * * *
378998 CCTTGAATCAGCATATTTGCACATTTTTCTTTCTCAAGTCCAATATCGCTGTCCTTGAATCAGCA
1 CCTTGAATCAGCACATTGGCACATTTTTCTTTCTCAAGTCCAATATCGTTGGCCTTGAATTAGCA
*
379063 TATTAGCACCTTTGCCATCTTTAAGTCTAATGTTGTTGG
66 TATTAGCACCTTTGCCATCTTTAAGTCTAATGTTGCTGG
* *
379102 CCTTGAATTAGCACATTGGCATATTTTGTCATCTT-T-AAG-CCGAATATCGTTGGCCTTGAATT
1 CCTTGAATCAGCACATTGGCACATTTT-TC-T-TTCTCAAGTCC-AATATCGTTGGCCTTGAATT
*
379164 AGCATATTGGCACCT
62 AGCATATTAGCACCT
379179 CTATCATTCT
Statistics
Matches: 157, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
103 4 0.03
104 113 0.72
105 36 0.23
106 2 0.01
107 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (104 bp):
CCTTGAATCAGCACATTGGCACATTTTTCTTTCTCAAGTCCAATATCGTTGGCCTTGAATTAGCA
TATTAGCACCTTTGCCATCTTTAAGTCTAATGTTGCTGG
Found at i:379089 original size:52 final size:52
Alignment explanation
Indices: 378827--379178 Score: 281
Period size: 52 Copynumber: 6.8 Consensus size: 52
378817 CATCTCCTTC
** *
378827 TAAGTCCAACGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTC--C-T
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
* * * * * *
378876 TAAGACCAATATCTCTAGCCCTT-AATCAGCACATTGGCACCTTT-T-TTTTT
1 TAAGTCCAATATCGCT-GGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
* * ** *
378926 CTCATGTCCAATATCGTTGGCCTTGAATTGGCATATTAGCACCTTTGTCATCTT
1 -T-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
* * * * * *
378980 TAAGTCTAATGTTGCTGGCCTTGAATCAGCATATTTGCACATTTTTC-T-TT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
* * *
379030 CTCAAGTCCAATATCGCTGTCCTTGAATCAGCATATTAGCACCTTTGCCATCTT
1 -T-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
* * * * * * **
379084 TAAGTCTAATGTTGTTGGCCTTGAATTAGCACATTGGCATATTTTGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CCTTTGTCATCTT
* *
379137 TAAG-CCGAATATCGTTGGCCTTGAATTAGCATATTGGCACCT
1 TAAGTCC-AATATCGCTGGCCTTGAATCAGCATATTGGCACCT
379179 CTATCATTCT
Statistics
Matches: 236, Mismatches: 52, Indels: 27
0.75 0.17 0.09
Matches are distributed among these distances:
48 1 0.00
49 33 0.14
50 8 0.03
51 8 0.03
52 134 0.57
53 47 0.20
54 5 0.02
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (52 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
Found at i:379284 original size:61 final size:60
Alignment explanation
Indices: 379131--379298 Score: 151
Period size: 61 Copynumber: 2.8 Consensus size: 60
379121 CATATTTTGT
* * * * * *
379131 CATCTTTAAGCCGAATATCGTTGGCCTTGAATTAGCATATTGGCACCTCTATCATTCTTCT
1 CATCTTCAAGCCCAACATTGTT-GCCTTGAATCAGCATATTGGCACCTCTATCATTCTTCG
* * ** * * *
379192 CATCTTCAAGCCTAATATTACTGGCTGTGAATCAGCATATTGGCACCTTTATCATTTTTCG
1 CATCTTCAAGCCCAACATTGTTGCCT-TGAATCAGCATATTGGCACCTCTATCATTCTTCG
*
379253 CATCCTT-AAGCCCAACGTTGTTGACCTTGAATCAGCACT-TTGGCAC
1 CAT-CTTCAAGCCCAACATTGTTG-CCTTGAATCAGCA-TATTGGCAC
379299 TCTTCTCATC
Statistics
Matches: 87, Mismatches: 16, Indels: 8
0.78 0.14 0.07
Matches are distributed among these distances:
60 3 0.03
61 78 0.90
62 6 0.07
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (60 bp):
CATCTTCAAGCCCAACATTGTTGCCTTGAATCAGCATATTGGCACCTCTATCATTCTTCG
Found at i:379323 original size:61 final size:61
Alignment explanation
Indices: 379219--379346 Score: 134
Period size: 61 Copynumber: 2.1 Consensus size: 61
379209 TTACTGGCTG
* * *
379219 TGAATCAGCATATTGGCACCTTTATCATTTTTCGCATCCTTAAGCCCAACGTTGTTGACCT
1 TGAATCAGCATATTGGCACCTTTATCATCTTTAGCATCCTTAAGCCCAACGTTGTAGACCT
* * * * ** *
379280 TGAATCAGCACT-TTGGCA-CTCTTCTCATCTTTATCATCTTTAAGTCCAGTGTTGTAGGCCT
1 TGAATCAGCA-TATTGGCACCT-TTATCATCTTTAGCATCCTTAAGCCCAACGTTGTAGACCT
379341 TGAATC
1 TGAATC
379347 TACACACTGG
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
60 2 0.04
61 52 0.95
62 1 0.02
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.38
Consensus pattern (61 bp):
TGAATCAGCATATTGGCACCTTTATCATCTTTAGCATCCTTAAGCCCAACGTTGTAGACCT
Found at i:386647 original size:13 final size:13
Alignment explanation
Indices: 386629--386658 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
386619 AGGTGATCAT
386629 CGAATTATAGGAA
1 CGAATTATAGGAA
386642 CGAATTATAGGAA
1 CGAATTATAGGAA
386655 CGAA
1 CGAA
386659 ATGGGTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.47, C:0.10, G:0.23, T:0.20
Consensus pattern (13 bp):
CGAATTATAGGAA
Found at i:388827 original size:13 final size:13
Alignment explanation
Indices: 388809--388833 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
388799 CATAAAATGT
388809 TGTATCGATACAA
1 TGTATCGATACAA
388822 TGTATCGATACA
1 TGTATCGATACA
388834 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:388831 original size:33 final size:33
Alignment explanation
Indices: 388789--388855 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
388779 TTCAACGATT
388789 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
388822 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
388855 T
1 T
388856 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:388903 original size:21 final size:21
Alignment explanation
Indices: 388877--388954 Score: 156
Period size: 21 Copynumber: 3.7 Consensus size: 21
388867 CCAAAAAAAA
388877 ATGTATCGATACATTACTCAC
1 ATGTATCGATACATTACTCAC
388898 ATGTATCGATACATTACTCAC
1 ATGTATCGATACATTACTCAC
388919 ATGTATCGATACATTACTCAC
1 ATGTATCGATACATTACTCAC
388940 ATGTATCGATACATT
1 ATGTATCGATACATT
388955 GTATCGATAC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 57 1.00
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.35
Consensus pattern (21 bp):
ATGTATCGATACATTACTCAC
Found at i:388959 original size:13 final size:13
Alignment explanation
Indices: 388941--388965 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
388931 ATTACTCACA
388941 TGTATCGATACAT
1 TGTATCGATACAT
388954 TGTATCGATACA
1 TGTATCGATACA
388966 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:389030 original size:52 final size:52
Alignment explanation
Indices: 388974--389098 Score: 232
Period size: 52 Copynumber: 2.4 Consensus size: 52
388964 CACTGATCTT
388974 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
*
389026 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
*
389078 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
389099 CTTTTCATAT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
Found at i:394630 original size:13 final size:13
Alignment explanation
Indices: 394612--394636 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
394602 CATGGCATAT
394612 TGTATCGATACAA
1 TGTATCGATACAA
394625 TGTATCGATACA
1 TGTATCGATACA
394637 TGATGAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:394636 original size:33 final size:32
Alignment explanation
Indices: 394594--394656 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 32
394584 CCACTGTTTA
394594 TATCGATACATGGCAT-ATTGTATCGATACAATG
1 TATCGATACAT-G-ATAATTGTATCGATACAATG
394627 TATCGATACATGATGAATTGTATCGATACA
1 TATCGATACATGAT-AATTGTATCGATACA
394657 TTGCGTCTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
31 2 0.07
32 1 0.04
33 25 0.89
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.33
Consensus pattern (32 bp):
TATCGATACATGATAATTGTATCGATACAATG
Found at i:400928 original size:31 final size:31
Alignment explanation
Indices: 400893--400987 Score: 138
Period size: 31 Copynumber: 3.0 Consensus size: 31
400883 AAACCTTTGT
*
400893 AAAGCCCACACAAGTCGGTGGCAACCCTTTC
1 AAAGCCCACACAAGTCGGTGGTAACCCTTTC
* *
400924 AAAGCCTACACAAG-CTGGTGGTAACCCTTCTT
1 AAAGCCCACACAAGTC-GGTGGTAACCCTT-TC
400956 AAAGCCCACACAAGTCGGTGGTAACCCTTTC
1 AAAGCCCACACAAGTCGGTGGTAACCCTTTC
400987 A
1 A
400988 TCATCATCAG
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
30 1 0.02
31 27 0.48
32 27 0.48
33 1 0.02
ACGTcount: A:0.29, C:0.32, G:0.19, T:0.20
Consensus pattern (31 bp):
AAAGCCCACACAAGTCGGTGGTAACCCTTTC
Found at i:400967 original size:32 final size:31
Alignment explanation
Indices: 400886--400985 Score: 139
Period size: 32 Copynumber: 3.2 Consensus size: 31
400876 GTGGAGAAAA
*
400886 CCTTTGTAAAGCCCACACAAGTCGGTGGCAAC
1 CCTTT-TAAAGCCCACACAAGTCGGTGGTAAC
* *
400918 CCTTTCAAAGCCTACACAAG-CTGGTGGTAAC
1 CCTTTTAAAGCCCACACAAGTC-GGTGGTAAC
400949 CCTTCTTAAAGCCCACACAAGTCGGTGGTAAC
1 CCTT-TTAAAGCCCACACAAGTCGGTGGTAAC
400981 CCTTT
1 CCTTT
400986 CATCATCATC
Statistics
Matches: 60, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
30 1 0.02
31 26 0.43
32 32 0.53
33 1 0.02
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (31 bp):
CCTTTTAAAGCCCACACAAGTCGGTGGTAAC
Found at i:402999 original size:155 final size:154
Alignment explanation
Indices: 402683--403191 Score: 544
Period size: 155 Copynumber: 3.3 Consensus size: 154
402673 CTAAGTTTAA
* * * * * *
402683 AAAAAATTATGAAAATGCCCTTAGGGGTTAACTTCGACGTAAAAGTA-CTTGATACCCCTAAAGG
1 AAAAAATTATGAAAATACCCCTAGGGGATACCTTCGACGTGAAAGTATC-CGATACCCCTAAAGG
* * ** **
402747 ATTTAAAAAGGATTACAAACTGGGATGAACCTATCCTAAATACTCACCTTCAACATAAAAGCAGA
65 ACTTAAAAA-GATTA-AAAATGGGATGAACCTATCCTAAATACTCATTTTCGGCATAAAAGCAGA
* * *
402812 CCCGATGATGACCTAGGAGTTA-GTTTT
128 CCCGATGATAACCTAGGA-CTAGGTTCT
* * * * *
402839 GAAAAATTATGAAATTACCCCTAGGGGATACCTTCGACATGGAAGTATCCGATACTCCTAAAGGA
1 AAAAAATTATGAAAATACCCCTAGGGGATACCTTCGACGTGAAAGTATCCGATACCCCTAAAGGA
* *
402904 CTTAAAAAGAATTATAAATGGGATGAACCTATCCTAAATACCCATTTTCGGCATAAAAGCAGACC
66 CTTAAAAAG-ATTAAAAATGGGATGAACCTATCCTAAATACTCATTTTCGGCATAAAAGCAGACC
* *
402969 CGATGATAACCTAAGACTAGGCTCT
130 CGATGATAACCTAGGACTAGGTTCT
* * * * * * *
402994 AAAAAATTACGAAAATGCTCTTAGGGGCTACCTTTGACGTGAAAGTATCCCGGTACCCCTAAAGG
1 AAAAAATTATGAAAATACCCCTAGGGGATACCTTCGACGTGAAAGTAT-CCGATACCCCTAAAGG
* *
403059 ACTTAAAAAG-TCTAAAAAAGGGA-GAACCTATCCTAAATACTCATTTTCGGCATAAAAAC-GAG
65 ACTTAAAAAGAT-TAAAAATGGGATGAACCTATCCTAAATACTCATTTTCGGCATAAAAGCAGA-
* *
403121 CTC-AGTGATAACCTAGGACTCGGTTCT
128 CCCGA-TGATAACCTAGGACTAGGTTCT
** * *
403148 AAAAAATTATGAAAATATTCCTAAGGGATACCTTTGACGTGAAA
1 AAAAAATTATGAAAATACCCCTAGGGGATACCTTCGACGTGAAA
403192 ATGCTAGGAG
Statistics
Matches: 296, Mismatches: 50, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
153 3 0.01
154 96 0.32
155 109 0.37
156 87 0.29
157 1 0.00
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (154 bp):
AAAAAATTATGAAAATACCCCTAGGGGATACCTTCGACGTGAAAGTATCCGATACCCCTAAAGGA
CTTAAAAAGATTAAAAATGGGATGAACCTATCCTAAATACTCATTTTCGGCATAAAAGCAGACCC
GATGATAACCTAGGACTAGGTTCT
Found at i:406126 original size:167 final size:163
Alignment explanation
Indices: 405525--406126 Score: 706
Period size: 167 Copynumber: 3.6 Consensus size: 163
405515 TCAATTTCTC
* * *
405525 GAAAAAAGGAGAA-TTTCAACAAAAAAATCCAAAACTCATGAAAATGAATTAATTTTTTAAAACT
1 GAAAAAAGG-GAAGTTTCAAGAAAAAAAT-CAAAACTCATGAAAATGAATGAATTTTTGAAAACT
* *
405589 AAATTAATATAAATCAAATGATGATGTTCGATGAATTCTAAAAATTGAAAACCAAGAAAAATCAC
64 AAATTAATATAAAT-AAATGATGATGTTTGATGAATTTTAAAAATTGAAAACCAAGAAAAATC-C
* * *
405654 CTC-AAAAAATTTATGGAGCAGAAAACACCATATTTA
127 CTCAAAAAAATTTACGGAGTAGAAAACACTATATTTA
* * * * *
405690 GAAAAAAGGGGAGTTTCAAAGAAAAAAATCAAAAATGAATTAAAATGAATGAATTTTTGAAAACC
1 GAAAAAAGGGAAGTTTC-AAGAAAAAAATCAAAACT-CATGAAAATGAATGAATTTTTGAAAACT
* * * * * *
405755 AAATTAATGTAAATAAATAATGATGTTTGATGAATTTAAAAAATTAAAAACTAAGAAAAAACCCC
64 AAATTAATATAAATAAATGATGATGTTTGATGAATTTTAAAAATTGAAAACCAAG-AAAAATCCC
* * * *
405820 TAGAGAAAAAATTTACGAAGTAGAAAACA-TCTATTTC
128 T-CA-AAAAAATTTACGGAGTAGAAAACACTATATTTA
* * * *
405857 GGAAAAAGGGAAGTTTCAAGGAAAAAATCAAAAACTCATGAAAGTGAATGAATTTTTGAAAACTG
1 GAAAAAAGGGAAGTTTCAAGAAAAAAATC-AAAACTCATGAAAATGAATGAATTTTTGAAAACTA
* *
405922 AATTAATATGAAATAAATGATTATGTTTGATGAATTTTAAAAATTGAAAACCAAGAAAAATTCTC
65 AATTAATAT-AAATAAATGATGATGTTTGATGAATTTTAAAAATTGAAAACCAAGAAAAA-TCCC
*
405987 TCAAAAAAATTTACGGAGTAGAAAATACTATATTTTA
128 TCAAAAAAATTTACGGAGTAGAAAACACTATA-TTTA
* * * * *
406024 GAAAAAAAGGTAGTTTCAAGAAAAAAATCAAAAGCTCATGAAAATGAATGAATTATTGAAAAATG
1 GAAAAAAGGGAAGTTTCAAGAAAAAAATCAAAA-CTCATGAAAATGAATGAATTTTTGAAAACTA
* * *
406089 AATTAATACAAAATAAATGATAATATTTGATGAATTTT
65 AATTAATA-TAAATAAATGATGATGTTTGATGAATTTT
406127 GATGCATATA
Statistics
Matches: 368, Mismatches: 55, Indels: 26
0.82 0.12 0.06
Matches are distributed among these distances:
164 2 0.01
165 79 0.21
166 108 0.29
167 158 0.43
168 21 0.06
ACGTcount: A:0.52, C:0.08, G:0.13, T:0.27
Consensus pattern (163 bp):
GAAAAAAGGGAAGTTTCAAGAAAAAAATCAAAACTCATGAAAATGAATGAATTTTTGAAAACTAA
ATTAATATAAATAAATGATGATGTTTGATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCTCA
AAAAAATTTACGGAGTAGAAAACACTATATTTA
Found at i:407570 original size:84 final size:84
Alignment explanation
Indices: 407507--407852 Score: 370
Period size: 84 Copynumber: 4.1 Consensus size: 84
407497 GGTGAATGAA
* *
407507 GGATAAAGGTTGATCAGAGACTGAGCTGACAAGTCACCATAAGGGTAATGGGCTTACCGGGGACT
1 GGATAAAGGTTGACCAGAGACTGAGCTGACAAGTCACCATAAGGGTAATGGGTTTACCGGGGACT
* *
407572 AAGCGAGCAGGTAAACAAT
66 AAGCCAACAGGTAAACAAT
** * ** *
407591 GGATAAAGGTTGACTGGAGAGTGAGCTGATGAGTCACCATAAGGGTAATGGGTTTACCGAGGACT
1 GGATAAAGGTTGACCAGAGACTGAGCTGACAAGTCACCATAAGGGTAATGGGTTTACCGGGGACT
* * *
407656 AAGCCGACAAGTAAACAAA
66 AAGCCAACAGGTAAACAAT
* * ** * * **
407675 GGATGACGGTTGACCAGAGACTGAGCTGACGGGTCACCATGAGGGTAATAGGTTTACTAGGGACT
1 GGATAAAGGTTGACCAGAGACTGAGCTGACAAGTCACCATAAGGGTAATGGGTTTACCGGGGACT
* * *
407740 AAGCCGATAGGCAAACAAT
66 AAGCCAACAGGTAAACAAT
* * * * **
407759 GGATGAAGGTTGACCAGAGATTGAGCTGACAGGTC-CCATAAGGGTAATGGGTTTACTGATGACT
1 GGATAAAGGTTGACCAGAGACTGAGCTGACAAGTCACCATAAGGGTAATGGGTTTACCGGGGACT
* * * *
407823 AAGTCGACAAGTAAATAAT
66 AAGCCAACAGGTAAACAAT
*
407842 GGATGAAGGTT
1 GGATAAAGGTT
407853 ATTTCCTAGG
Statistics
Matches: 220, Mismatches: 42, Indels: 1
0.84 0.16 0.00
Matches are distributed among these distances:
83 49 0.22
84 171 0.78
ACGTcount: A:0.34, C:0.15, G:0.31, T:0.20
Consensus pattern (84 bp):
GGATAAAGGTTGACCAGAGACTGAGCTGACAAGTCACCATAAGGGTAATGGGTTTACCGGGGACT
AAGCCAACAGGTAAACAAT
Found at i:407598 original size:169 final size:167
Alignment explanation
Indices: 407279--407598 Score: 362
Period size: 169 Copynumber: 1.9 Consensus size: 167
407269 TTGGGATCCA
* * ** * * *
407279 ACCGACAAGTCAACAGAGGATAAAAGATTTACCGGAGACTAAGCCGATAGGTAAATGATGGATAA
1 ACCGACAAGTCAACAAAAGATAAAAGAAATACCGGAGACCAAGCCAATAGGTAAATGAAGGATAA
* * * **
407344 AAAGTTTATCGAGACTGAACTGACAAGTCAATAAGGGATAAAGGATTTACCTGGGACTGGGCTGA
66 AAAGTTGATCGAGACTGAACTGACAAGTCAATAAGGGATAAAGGACTTACCGGGGACTAAGCTGA
*
407409 TCGGTAAACAAAATGATAAAGAAGTTAACCGGGATTAG
131 GCGGTAAAC-AAATGATAAAGAAGTTAACCGGGATTAG
* *
407447 ACCGACAAGTCAACAAAAGATAAAAAGAAATACCTGG-GACCAAGTCAATAGGTGAATGAAGGAT
1 ACCGACAAGTCAACAAAAGAT-AAAAGAAATACC-GGAGACCAAGCCAATAGGTAAATGAAGGAT
* * * *
407511 -AAAGGTTGATCAGAGACTGAGCTGACAAGTCACCATAAGGG-TAATGGGCTTACCGGGGACTAA
64 AAAAAGTTGATC-GAGACTGAACTGACAAGTCA--ATAAGGGATAAAGGACTTACCGGGGACTAA
407574 GC-GAGCAGGTAAAC-AATGGATAAAG
126 GCTGAGC-GGTAAACAAAT-GATAAAG
407599 GTTGACTGGA
Statistics
Matches: 126, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
168 31 0.25
169 61 0.48
170 27 0.21
171 7 0.06
ACGTcount: A:0.41, C:0.15, G:0.26, T:0.18
Consensus pattern (167 bp):
ACCGACAAGTCAACAAAAGATAAAAGAAATACCGGAGACCAAGCCAATAGGTAAATGAAGGATAA
AAAGTTGATCGAGACTGAACTGACAAGTCAATAAGGGATAAAGGACTTACCGGGGACTAAGCTGA
GCGGTAAACAAATGATAAAGAAGTTAACCGGGATTAG
Found at i:407713 original size:168 final size:167
Alignment explanation
Indices: 407505--407852 Score: 457
Period size: 168 Copynumber: 2.1 Consensus size: 167
407495 TAGGTGAATG
* * * *
407505 AAGGATAAAGGTTGATCAGAGACTGAGCTGACAAGTCACCATAAGGGTAATGGGCTTACCGGGGA
1 AAGGATGAAGGTTGACCAGAGACTGAGCTGACAAGTCACCATAAGGGTAATAGGCTTACCAGGGA
* ** *
407570 CTAAG-CGAGCAGGTAAACAATGGATAAAGGTTGACTGGAGAGTGAGCTGA-TGAGTCACCATAA
66 CTAAGCCGA-CAGGCAAACAATGGATAAAGGTTGACCAGAGAGTGAGCTGACAG-GTC-CCATAA
407633 GGGTAATGGGTTTACCGAGGACTAAGCCGACAAGTAAACA
128 GGGTAATGGGTTTACCGAGGACTAAGCCGACAAGTAAACA
* ** * * *
407673 AAGGATGACGGTTGACCAGAGACTGAGCTGACGGGTCACCATGAGGGTAATAGGTTTACTAGGGA
1 AAGGATGAAGGTTGACCAGAGACTGAGCTGACAAGTCACCATAAGGGTAATAGGCTTACCAGGGA
* * *
407738 CTAAGCCGATAGGCAAACAATGGATGAAGGTTGACCAGAGATTGAGCTGACAGGTCCCATAAGGG
66 CTAAGCCGACAGGCAAACAATGGATAAAGGTTGACCAGAGAGTGAGCTGACAGGTCCCATAAGGG
* * * *
407803 TAATGGGTTTACTGATGACTAAGTCGACAAGTAAATA
131 TAATGGGTTTACCGAGGACTAAGCCGACAAGTAAACA
*
407840 ATGGATGAAGGTT
1 AAGGATGAAGGTT
407853 ATTTCCTAGG
Statistics
Matches: 155, Mismatches: 23, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
167 53 0.34
168 98 0.63
169 4 0.03
ACGTcount: A:0.34, C:0.15, G:0.31, T:0.20
Consensus pattern (167 bp):
AAGGATGAAGGTTGACCAGAGACTGAGCTGACAAGTCACCATAAGGGTAATAGGCTTACCAGGGA
CTAAGCCGACAGGCAAACAATGGATAAAGGTTGACCAGAGAGTGAGCTGACAGGTCCCATAAGGG
TAATGGGTTTACCGAGGACTAAGCCGACAAGTAAACA
Found at i:408062 original size:85 final size:84
Alignment explanation
Indices: 407973--408164 Score: 188
Period size: 84 Copynumber: 2.3 Consensus size: 84
407963 CATACAATGG
* * * * *
407973 ATGAAGAAGTCTTTCGGGTCTTAGCCGACAAGTAGACAGTTGATAAAGGAAGTCTCTCAGGACTG
1 ATGAAAAAGTCTCTCGAGTCTAAGCCGACAAGTAGACAGTTAATAAA-GAAGTCTCTCAGGACTG
408038 AGCTGACGAGCAGATGAAAA
65 AGCTGACGAGCAGATGAAAA
* *** * * * *
408058 ATGAAAAAGTCTCTCGAGTCTAAGTCGATGGGTAGACGGTTAATAAAGAAGTCTTTCGGGTCTGA
1 ATGAAAAAGTCTCTCGAGTCTAAGCCGACAAGTAGACAGTTAATAAAGAAGTCTCTCAGGACTGA
* * ***
408123 GCTGAC-AGGTAGACGATTG
66 GCTGACGA-GCAGATGAAAA
*
408142 ATGAAAAAGTCTCCCGAGTCTAA
1 ATGAAAAAGTCTCTCGAGTCTAA
408165 ATCGATGGGC
Statistics
Matches: 87, Mismatches: 19, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
83 1 0.01
84 49 0.56
85 37 0.43
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (84 bp):
ATGAAAAAGTCTCTCGAGTCTAAGCCGACAAGTAGACAGTTAATAAAGAAGTCTCTCAGGACTGA
GCTGACGAGCAGATGAAAA
Found at i:408110 original size:42 final size:42
Alignment explanation
Indices: 408064--412296 Score: 641
Period size: 43 Copynumber: 100.2 Consensus size: 42
408054 AAAAATGAAA
* * *
408064 AAGTCTCTCGAGTCTAAGTCGATGGGTAGACGGTTAATAAAG
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGATAAAG
* * * ** *
408106 AAGTCTTTCGGGTCTGAG-CTGACAGGTAGACGATTGATGAAA-
1 AAGTCTCTCGAGTCTAAGTC-GATGGGCAGACGATTGAT-AAAG
* * * *
408148 AAGTCTCCCGAGTCTAAATCGATGGGCAGACGATGGATGAAG
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGATAAAG
* * * * * * *
408190 AAGTCT-TCCAGGTCTAAGCCGATAGGCAAATGATGGATGAAG
1 AAGTCTCTCGA-GTCTAAGTCGATGGGCAGACGATTGATAAAG
* * *
408232 AAGTCTCTCGGGTCTAAGTCGATGGGCAGATGATTGATAAAT
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGATAAAG
* * * ** * * ** *
408274 AAGTCTC-CTAGGTCTGAGCCGACAGGTAGATGACGGATGAAG
1 AAGTCTCTCGA-GTCTAAGTCGATGGGCAGACGATTGATAAAG
* * * * * * *
408316 AAGTCTCTCAAGTTTGAG-CTGACGGGTAGACGATTAACAAATG
1 AAGTCTCTCGAGTCTAAGTC-GATGGGCAGACGATTGATAAA-G
* * * *
408359 AAGTCTCTCGAGTTTAAG-CTGACGGGCACATGATTGATGGAAA-
1 AAGTCTCTCGAGTCTAAGTC-GATGGGCAGACGATTGAT--AAAG
* * * *
408402 AA-TCTCCCGGGTCTAAGTCGACT-GGTAGACGATTGACAAAAG
1 AAGTCTCTCGAGTCTAAGTCGA-TGGGCAGACGATTGA-TAAAG
* * * ***
408444 AAGTCTCTC-AGGTCTGAG-CTGACT-GGTAGATGAAAAATGAAAG
1 AAGTCTCTCGA-GTCTAAGTC-GA-TGGGCAGACGATTGAT-AAAG
* * * * ** * *
408487 AAGCCTCCCGGGTCTAAGCCGACAGGCAGATGATTGACAAAGG
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGATAAA-G
* * * ** * *
408530 AAGTCTCTTGGGTTTAAACCGATGGGCAGATGATTGATGGAA-
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGAT-AAAG
* * * * *
408572 AAGTCTC-CTAGGTCTAAGCCGATGGACAGACAATTGACAAAAG
1 AAGTCTCTCGA-GTCTAAGTCGATGGGCAGACGATTGA-TAAAG
* * * * * * *
408615 AAGTCTCTCGGGTCTAAGCCAACGGGTAAATGATTGATGAAA-
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGAT-AAAG
* * * *
408657 AAGTCTCTTG-GTCTAAGCCGATGGGCAGACGATAGACAAAGG
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGATAAA-G
* * * *
408699 AAGTCTCCCGAGTCTAAGCCGATAGGCAGACAATTGAT----
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGATAAAG
* * * * * * *
408737 AAGTCTCCCAAGTCTAAGCCAACGGGCAGACGATGGATGAAG
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGATAAAG
* * * * * *
408779 AAAGTCTCCCAAGTTTAAGGT-GACGGGCAAATGATTGATGGAAA-
1 -AAGTCTCTCGAGTCTAA-GTCGATGGGCAGACGATTGAT--AAAG
* * * * * * *
408823 AA-TCTCAC-AGGCCTAAGCCAACGGGCAGACCATTGATGGAA-
1 AAGTCTCTCGA-GTCTAAGTCGATGGGCAGACGATTGAT-AAAG
* * * * * *
408864 AAGTCTCCCGGGTCCAAGCCGATGGGC-GTATGATGGATAAAAG
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAG-ACGATTGAT-AAAG
* * * * * * * * *
408907 AAGTCTCCCAAGTCTGAGCCAACGGGTAGACGATTGACGAAGG
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGA-TAAAG
* * * *
408950 AAGTTTCTCGAGTCTAAGCCAATAGGCAGACGATTGATAAAGG
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGATAAA-G
* * * * * * *
408993 AAGTCTCTTGGGTCTAAGCCGACGAGCAGATGATTGACAAAGG
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGATAAA-G
* * * *
409036 AAGTCTCCCGAGTCTAAGCCGAT-------TGA-TGGTAAAG
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGATAAAG
* * * * * **
409070 TA-TC-CT-GGGTTTAAG-CTGACGGGCAAACGATTGCCAAAG
1 AAGTCTCTCGAGTCTAAGTC-GATGGGCAGACGATTGATAAAG
* * *** *
409109 AAAGTCTCTC-AGGTCTAAGCCAACAAGAAGACGATTGATAAAG
1 -AAGTCTCTCGA-GTCTAAGTCGATGGGCAGACGATTGATAAAG
* * * ** * * *
409152 AAAGTCTCCCGAATCTAAGCCGACAGGCAGATGATTAACAAAAG
1 -AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGA-TAAAG
* * * * *
409196 AAGTCTCCCGGGTCTAAGCCGATAGGCAGACGATTGACAAAGG
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGATAAA-G
* * * * * * *
409239 AAGTCAC-CCAGGTCTAAGCCGACGAGTAGACAATTGATAAAGG
1 AAGTCTCTCGA-GTCTAAGTCGATGGGCAGACGATTGATAAA-G
* * * * * *
409282 AATTCTC-CTAGGTCTGAGCCGATAGGCAGACGATTGATAAAAA
1 AAGTCTCTCGA-GTCTAAGTCGATGGGCAGACGATTGAT-AAAG
* * ** * * * *
409325 AAGTCTC-CTAGGTCTAAGCCGACAGACAAATGATTGATGGAA-
1 AAGTCTCTCGA-GTCTAAGTCGATGGGCAGACGATTGAT-AAAG
* * * *
409367 AAGTCTCTTGGGTCTAAGCCGATGGGCAGACGATTGACAAAAG
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGA-TAAAG
* * * *
409410 AAGTCTC-CTGAGTCTAAG-CTGACGAGCAAACTATT-A-AAAG
1 AAGTCTCTC-GAGTCTAAGTC-GATGGGCAGACGATTGATAAAG
* * * * * *
409450 AATAGTCTC-CCAGGTTTAAGCCGATGGGCAGGCAATTGACAAAGG
1 -A-AGTCTCTCGA-GTCTAAGTCGATGGGCAGACGATTGATAAA-G
* * * * * * * * * *** **
409495 TAGTCTCCCGAGTTTAAGGCAACGAGTAGATGAAAAATGAGGG
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGAT-AAAG
* * * * *
409538 AAGTCTC-CCAGATCTAAGCCGATGGGCAGATGAATGATGGAA-
1 AAGTCTCTCGAG-TCTAAGTCGATGGGCAGACGATTGAT-AAAG
* * * * * *
409580 AAGTCTCTCGGGTTTAAATCGACGGGCAGACAATTGAGAAAGG
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGATAAA-G
* * * * *
409623 AAGTCTCTCAAGTTTAAGTAGACGGGCAGACGATTGATGGAA-
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGAT-AAAG
* * * * ***
409665 AAGCCTCTCGAGTCTAAGCCGACGGGCAGATGAAAAATAAAG
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGATAAAG
* * * * *
409707 AAGTCTC-CTGGGTCTGAG-CTAAGGGGCAGACGATTGATGGAA-
1 AAGTCTCTC-GAGTCTAAGTC-GATGGGCAGACGATTGAT-AAAG
* * * * * * * * *
409749 AAGTCTTTCGGGTTTAAG-CTGACGAGCAAACAATTCACAAAGG
1 AAGTCTCTCGAGTCTAAGTC-GATGGGCAGACGATTGATAAA-G
* * * *
409792 AAGTCTCCCAAGTCTAAGCTCGACGGGCAGACGATTGATAGAGG
1 AAGTCTCTCGAGTCTAAG-TCGATGGGCAGACGATTGATA-AAG
* * * * *
409836 AAGTCTCTC-AGGTCTGAGTTGAGGGGCAGATGATTGACAAAG
1 AAGTCTCTCGA-GTCTAAGTCGATGGGCAGACGATTGATAAAG
* * * *
409878 AAAGTCTCCCGAGTCTAAG-CTGACGGGCAGACAATTGATGGAA-
1 -AAGTCTCTCGAGTCTAAGTC-GATGGGCAGACGATTGAT-AAAG
* * * ** * * * *
409921 AAGTCTC-CCAGGTCTATGCCGACAGGCAAATGATGGATGAAG
1 AAGTCTCTCGA-GTCTAAGTCGATGGGCAGACGATTGATAAAG
* * *
409963 AAGTCTCTCGGGTCTAAGTCAATGGGCAGATGATTGATAAAG
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGATAAAG
* * * ** * * **
410005 AAGTCTC-CTAGGTCTGAGCCGACAGGTAGATGACGGATAAAG
1 AAGTCTCTCGA-GTCTAAGTCGATGGGCAGACGATTGATAAAG
* * * * * *
410047 AAGTCTCTC-AGGTTTGAG-CTGACGGGTAGACGATTAACAAATG
1 AAGTCTCTCGA-GTCTAAGTC-GATGGGCAGACGATTGATAAA-G
* * * *
410090 AAGTCTCTCGAGTTTAAG-CTGACGGGCACATGATTGATGGAAA-
1 AAGTCTCTCGAGTCTAAGTC-GATGGGCAGACGATTGAT--AAAG
* * *
410133 AA-TCTC-CCAGGTCTAAGTCGACT-GGTAGACGATTGACAAAAG
1 AAGTCTCTCGA-GTCTAAGTCGA-TGGGCAGACGATTGA-TAAAG
* * * ***
410175 AAGTCTCTC-AGGTCTGAG-CTGACT-GGTAGATGAAAAATGAAAG
1 AAGTCTCTCGA-GTCTAAGTC-GA-TGGGCAGACGATTGAT-AAAG
* * * * ** * *
410218 AAGCCTCCCGGGTCTAAGCCGACAGGCAGATGATTGACAAAGG
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGATAAA-G
* * * ** * *
410261 AAGTCTCTTGGGTTTAAACCGATGGGCAGATGATTGATGGAA-
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGAT-AAAG
* * * * * * *
410303 AAGTCTC-CTAGGTCTAAGCCAATGGACAGACAATTAACAAAAG
1 AAGTCTCTCGA-GTCTAAGTCGATGGGCAGACGATTGA-TAAAG
* * * * * *
410346 AAGTCTCTCGGGTCTAAGCCGACGGGTAAATGATTGATGAAA-
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGAT-AAAG
* * * *
410388 AAGTCTCTTG-GTCTAAGCCGATGGGCAGACGATAGACAAAGG
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGATAAA-G
* * * *
410430 AAGTCTCCCGAGTCTAAGCCGATAGGCAGACAATTGAT----
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGATAAAG
* * * * * * *
410468 AAGTCTCCCAAGTCTAAGCCAACGGGCAGACGATGGATGAAG
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGATAAAG
* * * * * *
410510 AAAGTCTCCCAAGTTTAAGGT-GACGGGCAAATGATTGATGGAAA-
1 -AAGTCTCTCGAGTCTAA-GTCGATGGGCAGACGATTGAT--AAAG
* * * * * * *
410554 AA-TCTCAC-AGGCCTAAGCCAACGGGCAGACCATTGATGGAA-
1 AAGTCTCTCGA-GTCTAAGTCGATGGGCAGACGATTGAT-AAAG
* * * * * *
410595 AAGTCTCCCGGGTCCAAGCCGACGGGC-GTACGATGGATAAAAG
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAG-ACGATTGAT-AAAG
* * * * * * * * *
410638 AAGTCTCCCAAGTCTGAGCCAACGGGTAGACGATTGACGAAGG
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGA-TAAAG
* * * ** *
410681 AAGTTTCTCGAGTCTAAGCCAACAGGCGGACGATTGATAAAGG
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGATAAA-G
* * * * * *
410724 AAGTCTCT-TAGGTCTAAGCCGACGAGCAGATGATTGACAAAGG
1 AAGTCTCTCGA-GTCTAAGTCGATGGGCAGACGATTGATAAA-G
* * * * *
410767 AAGTCTCCCGGGTCTAAGCCGAT-------TGA-TGGTAAAG
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGATAAAG
* * * * * **
410801 TA-TC-CT-GGGTTTAAG-CTGACGGGCAAACGATTGCCAAAG
1 AAGTCTCTCGAGTCTAAGTC-GATGGGCAGACGATTGATAAAG
* * *** *
410840 AAAGTCTCTC-AGGTCTAAGCCAACAAGAAGACGATTGATAAAG
1 -AAGTCTCTCGA-GTCTAAGTCGATGGGCAGACGATTGATAAAG
* * * ** * * *
410883 AAAGTCTCCCGAATCTAAGCCGACAGGCAGATGATTAACAAAAG
1 -AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGA-TAAAG
* * * * *
410927 AAGTCTCCCGGGTCTAAGCCGATAGGCAGACGATTGACAAAGG
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGATAAA-G
* * * * * * *
410970 AAGTCAC-CCAGGTCTAAGCCGACGAGTAGACAATTGATAAAGG
1 AAGTCTCTCGA-GTCTAAGTCGATGGGCAGACGATTGATAAA-G
* * * * * *
411013 AATTCTC-CTAGGTCTGAGCCGATAGGCAGACGATTGATAAAAA
1 AAGTCTCTCGA-GTCTAAGTCGATGGGCAGACGATTGAT-AAAG
* * ** * * * *
411056 AAGTCTC-CTAGGTCTAAGCCGACAGACAAATGATTGATGGAA-
1 AAGTCTCTCGA-GTCTAAGTCGATGGGCAGACGATTGAT-AAAG
* * * *
411098 AAGTCTCTTGGGTCTAAGCCGATGGGCAGACGATTGACAAAAG
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGA-TAAAG
* * * *
411141 AAGTCTC-CTGAGTCTAAG-CTGACGAGCAAACTATT-A-AAAG
1 AAGTCTCTC-GAGTCTAAGTC-GATGGGCAGACGATTGATAAAG
* * * * * *
411181 AATAGTCTC-CCAGGTTTAAGCCGATGGGCAGGCAATTGACAAAGG
1 -A-AGTCTCTCGA-GTCTAAGTCGATGGGCAGACGATTGATAAA-G
* * * * * * * * * ** **
411226 TAGTCTCCCGAGTTTAAGGCAACGAGTAGATGGA-AAATGAGGG
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAGA-CGATTGAT-AAAG
* * * * *
411269 AAGTCTC-CCAGATCTAAGCCGATGGGCAGATGAATGATGGAA-
1 AAGTCTCTCGAG-TCTAAGTCGATGGGCAGACGATTGAT-AAAG
* * * * * *
411311 AAGTCTCTCGGGTTTAAATCGACGGGCAGACAATTGAGAAAAG
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGA-TAAAG
* * * * *
411354 AAGTCTCTCAAGTTTAAGTAGACGGGCAGACGATTGATGGAA-
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGAT-AAAG
* * * * * ***
411396 AAGCCTCTCGCGTCTAAGCCGACGGGCAGATGAAAAATAAAG
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGATAAAG
* * * * *
411438 AAGTCTC-CTGGGTCTGAG-CTAAGGGGCAGACGATTGATGGAA-
1 AAGTCTCTC-GAGTCTAAGTC-GATGGGCAGACGATTGAT-AAAG
* * * * * * * *
411480 AAGTCTTTCGGGTCTAAG-CTGACGAGCAAACAATTCACAAAGG
1 AAGTCTCTCGAGTCTAAGTC-GATGGGCAGACGATTGATAAA-G
* * * *
411523 AAGTCTCCCAAGTCTAAGCTCGACGGGCAGACGATTGATAGAGG
1 AAGTCTCTCGAGTCTAAG-TCGATGGGCAGACGATTGATA-AAG
* * * * *
411567 AAGTCTCTC-AGGTCTGAGTTGAGGGGCAGATGATTGACAAAG
1 AAGTCTCTCGA-GTCTAAGTCGATGGGCAGACGATTGATAAAG
* * * *
411609 AAAGTCTCCCGAGTCTAAG-CTGACGGGCAGACAATTGATGGAA-
1 -AAGTCTCTCGAGTCTAAGTC-GATGGGCAGACGATTGAT-AAAG
* * * ** * *
411652 AAGTCTC-CCAGGTCTATGCCGACAGGCAAACGATTAATATAA-
1 AAGTCTCTCGA-GTCTAAGTCGATGGGCAGACGATTGATA-AAG
* * * *
411694 AAGTCTCTTGAGTCTGAGCCGATGGGCAGACGATTGACAAATG
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGATAAA-G
* * * * * ** *
411737 AGGTCTCTTGGGTCTATGTTGATGGATAGACGATTGATAAAA
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGATAAAG
* * * * * *
411779 AAGTCTCCCGAGTCTAAGCCAATGGGCAGACCATTAACAAAGG
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGATAAA-G
* * * * **
411822 AAGTCTC-CCAGGTCTGAGTCGACGGGTAGACGAAAGATGAAAG
1 AAGTCTCTCGA-GTCTAAGTCGATGGGCAGACGATTGAT-AAAG
* * * ** * * * *
411865 AAATCTC-CTTAGTCTAAGCCGACAGGTAGAGGAATGATGGAA-
1 AAGTCTCTC-GAGTCTAAGTCGATGGGCAGACGATTGAT-AAAG
* *
411907 AAGTCTCTCGGGTCTAAG-CTGATGGGCAGACGATTGACAAAGG
1 AAGTCTCTCGAGTCTAAGTC-GATGGGCAGACGATTGATAAA-G
* * * ** *
411950 AAGTCT-TCCAGGTCTAAG-CTGATGGGAAGACAATTTTTGGAA-
1 AAGTCTCTCGA-GTCTAAGTC-GATGGGCAGACGATTGAT-AAAG
* * * * * * *
411992 AAGTCTCCCAAGTCTAAGCCAATAGGCAGATGATTGACAAAGG
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGATAAA-G
* * * * *
412035 ATGTCTCTCGAGTCTAAGTCGATGGGCAAACGACTAATGGAA-
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGAT-AAAG
* * * ** *
412077 AAGTCTCTTGGGTCTGAG-CTGATGGGTTGACGATTGACAAATG
1 AAGTCTCTCGAGTCTAAGTC-GATGGGCAGACGATTGATAAA-G
* * * * *
412120 AAGTCTCTTGTGTCTAAGTTGATGGGTAGACGATTGATGGAA-
1 AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGAT-AAAG
* * * * * * *
412162 AATTTTCTC-AGGTCTAAGCCAATGGGTAGACGAATGACAAAG
1 AAGTCTCTCGA-GTCTAAGTCGATGGGCAGACGATTGATAAAG
* * * ** * ** *
412204 AAAGTCTCTCGGGTTTGAG-CTGACAGGTAGACGAAAGATGAAGG
1 -AAGTCTCTCGAGTCTAAGTC-GATGGGCAGACGATTGAT-AAAG
* * *
412248 AAGTCTTTCAAGTCTAAG-CTGATGGGCAGACGAATGATAAAG
1 AAGTCTCTCGAGTCTAAGTC-GATGGGCAGACGATTGATAAAG
*
412290 GAGTCTC
1 AAGTCTC
412297 CCAGGTCTAA
Statistics
Matches: 3060, Mismatches: 887, Indels: 488
0.69 0.20 0.11
Matches are distributed among these distances:
30 2 0.00
31 19 0.01
32 2 0.00
33 4 0.00
34 4 0.00
35 10 0.00
36 6 0.00
38 68 0.02
39 12 0.00
40 16 0.01
41 115 0.04
42 1090 0.36
43 1572 0.51
44 124 0.04
45 16 0.01
ACGTcount: A:0.32, C:0.19, G:0.28, T:0.21
Consensus pattern (42 bp):
AAGTCTCTCGAGTCTAAGTCGATGGGCAGACGATTGATAAAG
Found at i:408415 original size:127 final size:128
Alignment explanation
Indices: 408231--408473 Score: 278
Period size: 127 Copynumber: 1.9 Consensus size: 128
408221 GATGGATGAA
* * * * *
408231 GAAGTCTCTCGGGTCTAAGTCGATGGGCAGATGATTGATAAATAAGTCTCCTAGGTCTGAGCCGA
1 GAAGTCTCTCGAGTCTAAGTCGACGGGCACATGATTGATAAATAAGTCTCCCAGGTCTAAGCCGA
* ** *
408296 CAGGTAGATGACGGA-TGAAGAAGTCTCTCAAGTTTGAGCTGACGGGTAGACGATTAACAAAT
66 CAGGTAGACGACGGACAAAAGAAGTCTCTCAAGTCTGAGCTGACGGGTAGACGATTAACAAAT
* * *
408358 GAAGTCTCTCGAGTTTAAG-CTGACGGGCACATGATTGATGGAAA-AA-TCTCCCGGGTCTAAGT
1 GAAGTCTCTCGAGTCTAAGTC-GACGGGCACATGATTGAT--AAATAAGTCTCCCAGGTCTAAGC
* ** * *
408420 CGACTGGTAGACGATTGACAAAAGAAGTCTCTCAGGTCTGAGCTGACTGGTAGA
63 CGACAGGTAGACGACGGACAAAAGAAGTCTCTCAAGTCTGAGCTGACGGGTAGA
408474 TGAAAAATGA
Statistics
Matches: 95, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
126 1 0.01
127 59 0.62
128 32 0.34
129 3 0.03
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (128 bp):
GAAGTCTCTCGAGTCTAAGTCGACGGGCACATGATTGATAAATAAGTCTCCCAGGTCTAAGCCGA
CAGGTAGACGACGGACAAAAGAAGTCTCTCAAGTCTGAGCTGACGGGTAGACGATTAACAAAT
Found at i:408588 original size:171 final size:169
Alignment explanation
Indices: 408343--408720 Score: 425
Period size: 171 Copynumber: 2.2 Consensus size: 169
408333 GCTGACGGGT
* * * *
408343 AGACGATTAACAAATGAAGTCTCTCGAGTTTAAGCTGACGGGCACATGATTGATGGAAAAATCTC
1 AGACGATTGACAAAGGAAGTCTCTCGAGTTTAAACCGACGGGCACATGATTGATGGAAAAATCTC
* * * * * ** *
408408 CCGGGTCTAAGTCGACTGG-TAGACGATTGACAAAAGAAGTCTCTCAGGTCTGAGCTGACTGGTA
66 CCAGGTCTAAGCCGA-TGGACAGACAATTGACAAAAGAAGTCTCTCAGGTCTAAGCCAACGGGTA
*
408472 GATGAAAAATGAAAGAAGCCTCCCGGGTCTAAGCCGACAGGC
130 AATGAAAAATGAAA-AAGCCT-CCGGGTCTAAGCCGACAGGC
* * * * * *
408514 AGATGATTGACAAAGGAAGTCTCTTGGGTTTAAACCGATGGGCAGATGATTGATGGAAAAGTCTC
1 AGACGATTGACAAAGGAAGTCTCTCGAGTTTAAACCGACGGGCACATGATTGATGGAAAAATCTC
* *
408579 CTAGGTCTAAGCCGATGGACAGACAATTGACAAAAGAAGTCTCTCGGGTCTAAGCCAACGGGTAA
66 CCAGGTCTAAGCCGATGGACAGACAATTGACAAAAGAAGTCTCTCAGGTCTAAGCCAACGGGTAA
*** * ** **
408644 ATGATTGATGAAAAAGTCTCTTGGTCTAAGCCGATGGGC
131 ATGAAAAATGAAAAAGCCTCCGGGTCTAAGCCGACAGGC
* * * *
408683 AGACGATAGACAAAGGAAGTCTCCCGAGTCTAAGCCGA
1 AGACGATTGACAAAGGAAGTCTCTCGAGTTTAAACCGA
408721 TAGGCAGACA
Statistics
Matches: 170, Mismatches: 36, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
169 47 0.28
170 8 0.05
171 115 0.68
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (169 bp):
AGACGATTGACAAAGGAAGTCTCTCGAGTTTAAACCGACGGGCACATGATTGATGGAAAAATCTC
CCAGGTCTAAGCCGATGGACAGACAATTGACAAAAGAAGTCTCTCAGGTCTAAGCCAACGGGTAA
ATGAAAAATGAAAAAGCCTCCGGGTCTAAGCCGACAGGC
Found at i:408618 original size:85 final size:85
Alignment explanation
Indices: 407972--411943 Score: 911
Period size: 85 Copynumber: 47.0 Consensus size: 85
407962 GCATACAATG
* ** * ** * * * * *
407972 GATGAAGAAGTCTTTCGGGTCTTAGCCGACAAGTAGAC-AGTTGATAAAGGAAGTCTCTCAGGAC
1 GATGAAAAAGTCTCCCGGGTCTAAGCCGACTGGCAGACGA-TTGACAAAAGAAGTCTCTCGGGTC
* * * **
408036 TGAGCTGACGAGCAGATGAAA
65 TAAGCCGACGGGCAGATGATT
* * * * * * *
408057 AATGAAAAAGTCTCTCGAGTCTAAGTCGA-TGGGTAGACGGTT-A-ATAAAGAAGTCTTTCGGGT
1 GATGAAAAAGTCTCCCGGGTCTAAGCCGACT-GGCAGACGATTGACA-AAAGAAGTCTCTCGGGT
* * * * *
408119 CTGAGCTGACAGGTAGACGATT
64 CTAAGCCGACGGGCAGATGATT
* ** * ** *
408141 GATGAAAAAGTCTCCCGAGTCTAAATCGA-TGGGCAGACGATGGA-TGAAGAAGTCT-TCCAGGT
1 GATGAAAAAGTCTCCCGGGTCTAAGCCGACT-GGCAGACGATTGACAAAAGAAGTCTCT-CGGGT
** * *
408203 CTAAGCCGATAGGCAAATGATG
64 CTAAGCCGACGGGCAGATGATT
* * * * * * *
408225 GATGAAGAAGTCTCTCGGGTCTAAGTCGA-TGGGCAGATGATTGA-TAAATAAGTCTC-CTAGGT
1 GATGAAAAAGTCTCCCGGGTCTAAGCCGACT-GGCAGACGATTGACAAAAGAAGTCTCTC-GGGT
* * * **
408287 CTGAGCCGACAGGTAGATGACG
64 CTAAGCCGACGGGCAGATGATT
* * ** * * * * * * * * *
408309 GATGAAGAAGTCTCTCAAGTTTGAGCTGACGGGTAGACGATTAACAAATGAAGTCTCTCGAGTTT
1 GATGAAAAAGTCTCCCGGGTCTAAGCCGACTGGCAGACGATTGACAAAAGAAGTCTCTCGGGTCT
* *
408374 AAGCTGACGGGCACATGATT
66 AAGCCGACGGGCAGATGATT
* * *
408394 GATGGAAAAA-TCTCCCGGGTCTAAGTCGACTGGTAGACGATTGACAAAAGAAGTCTCTCAGGTC
1 GAT-GAAAAAGTCTCCCGGGTCTAAGCCGACTGGCAGACGATTGACAAAAGAAGTCTCTCGGGTC
* * * * **
408458 TGAGCTGACTGGTAGATGAAA
65 TAAGCCGACGGGCAGATGATT
* * * * * * *
408479 AATGAAAGAAGCCTCCCGGGTCTAAGCCGACAGGCAGATGATTGACAAAGGAAGTCTCTTGGGTT
1 GATGAAA-AAGTCTCCCGGGTCTAAGCCGACTGGCAGACGATTGACAAAAGAAGTCTCTCGGGTC
* *
408544 TAAACCGATGGGCAGATGATT
65 TAAGCCGACGGGCAGATGATT
* ** *
408565 GATGGAAAAGTCTCCTAGGTCTAAGCCGA-TGGACAGACAATTGACAAAAGAAGTCTCTCGGGTC
1 GATGAAAAAGTCTCCCGGGTCTAAGCCGACTGG-CAGACGATTGACAAAAGAAGTCTCTCGGGTC
* * *
408629 TAAGCCAACGGGTAAATGATT
65 TAAGCCGACGGGCAGATGATT
** * * * *
408650 GATGAAAAAGTCT-CTTGGTCTAAGCCGA-TGGGCAGACGATAGACAAAGGAAGTCTCCCGAGTC
1 GATGAAAAAGTCTCCCGGGTCTAAGCCGACT-GGCAGACGATTGACAAAAGAAGTCTCTCGGGTC
** **
408713 TAAGCCGATAGGCAGACAATT
65 TAAGCCGACGGGCAGATGATT
** * * * ** * ** *
408734 GAT----AAGTCTCCCAAGTCTAAGCCAACGGGCAGACGATGGA-TGAAGAAAGTCTCCCAAGTT
1 GATGAAAAAGTCTCCCGGGTCTAAGCCGACTGGCAGACGATTGACAAAAG-AAGTCTCTCGGGTC
** *
408794 TAAGGTGACGGGCAAATGATT
65 TAAGCCGACGGGCAGATGATT
* * * * * * *** *
408815 GATGGAAAAA-TCTCACAGGCCTAAGCCAACGGGCAGACCATTGATGGAA-AAGTCTCCCGGGTC
1 GAT-GAAAAAGTCTCCCGGGTCTAAGCCGACTGGCAGACGATTGACAAAAGAAGTCTCTCGGGTC
* * *
408878 CAAGCCGATGGGC-GTATGATG
65 TAAGCCGACGGGCAG-ATGATT
* ** * * * * * * * *
408899 GATAAAAGAAGTCTCCCAAGTCTGAGCCAACGGGTAGACGATTGACGAAGGAAGTTTCTCGAGTC
1 GATGAAA-AAGTCTCCCGGGTCTAAGCCGACTGGCAGACGATTGACAAAAGAAGTCTCTCGGGTC
* ** *
408964 TAAGCCAATAGGCAGACGATT
65 TAAGCCGACGGGCAGATGATT
** * * * *
408985 GAT-AAAGGAAGTCTCTTGGGTCTAAGCCGAC-GAGCAGATGATTGACAAAGGAAGTCTCCCGAG
1 GATGAAA--AAGTCTCCCGGGTCTAAGCCGACTG-GCAGACGATTGACAAAAGAAGTCTCTCGGG
409048 TCTAA---G-C---C----GATT
63 TCTAAGCCGACGGGCAGATGATT
** * * * * * * * *
409060 GATGGTAAAGTATCCTGGGTTTAAGCTGACGGGCAAACGATTG-CCAAAGAAAGTCTCTCAGGTC
1 GATGAAAAAGTCTCCCGGGTCTAAGCCGACTGGCAGACGATTGACAAAAG-AAGTCTCTCGGGTC
* ** * *
409124 TAAGCCAACAAGAAGACGATT
65 TAAGCCGACGGGCAGATGATT
* ** * * * *
409145 GATAAAGAAAGTCTCCCGAATCTAAGCCGACAGGCAGATGATTAACAAAAGAAGTCTCCCGGGTC
1 GATGAA-AAAGTCTCCCGGGTCTAAGCCGACTGGCAGACGATTGACAAAAGAAGTCTCTCGGGTC
** *
409210 TAAGCCGATAGGCAGACGATT
65 TAAGCCGACGGGCAGATGATT
* * * * * * * * *
409231 GA-CAAAGGAAGTCACCCAGGTCTAAGCCGAC-GAGTAGACAATTGATAAAGGAATTCTC-CTAG
1 GATGAAA--AAGTCTCCCGGGTCTAAGCCGACTG-GCAGACGATTGACAAAAGAAGTCTCTC-GG
* ** *
409293 GTCTGAGCCGATAGGCAGACGATT
62 GTCTAAGCCGACGGGCAGATGATT
* ** * * * * *** *
409317 GATAAAAAAAGTCTCCTAGGTCTAAGCCGACAGACAAATGATTGATGGAA-AAGTCTCTTGGGTC
1 GAT-GAAAAAGTCTCCCGGGTCTAAGCCGACTGGCAGACGATTGACAAAAGAAGTCTCTCGGGTC
* *
409381 TAAGCCGATGGGCAGACGATT
65 TAAGCCGACGGGCAGATGATT
** * * * * * * *
409402 GACAAAAGAAGTCTCCTGAGTCTAAGCTGAC-GAGCAAACTATT---AAAAGAATAGTCTCCCAG
1 GATGAAA-AAGTCTCCCGGGTCTAAGCCGACTG-GCAGACGATTGACAAAAG-A-AGTCTCTCGG
* * ***
409463 GTTTAAGCCGATGGGCAGGCAATT
62 GTCTAAGCCGACGGGCAGATGATT
* * * * * * * *
409487 GA-CAAAGGTAGTCTCCCGAGTTTAAGGCAAC--G-AGTA-GA-TGAAAAATGAGGGAAGTCTCC
1 GATGAAA--AAGTCTCCCGGGTCTAAGCCGACTGGCAG-ACGATTGACAAA--A--GAAGTCTCT
* * * *
409546 CAGATCTAAGCCGATGGGCAGATGAAT
59 CGGGTCTAAGCCGACGGGCAGATGATT
* * * ** * * * * ** *
409573 GATGGAAAAGTCTCTCGGGTTTAAATCGACGGGCAGACAATTGAGAAAGGAAGTCTCTCAAGTTT
1 GATGAAAAAGTCTCCCGGGTCTAAGCCGACTGGCAGACGATTGACAAAAGAAGTCTCTCGGGTCT
** *
409638 AAGTAGACGGGCAGACGATT
66 AAGCCGACGGGCAGATGATT
* * * * * * * *
409658 GATGGAAAAGCCTCTCGAGTCTAAGCCGACGGGCAGATGA--AAAATAAAGAAGTCTC-CTGGGT
1 GATGAAAAAGTCTCCCGGGTCTAAGCCGACTGGCAGACGATTGACA-AAAGAAGTCTCTC-GGGT
* ** * *
409720 CTGAGCTAAGGGGCAGACGATT
64 CTAAGCCGACGGGCAGATGATT
* ** * * * * * * * **
409742 GATGGAAAAGTCTTTCGGGTTTAAGCTGAC-GAGCAAACAATTCACAAAGGAAGTCTCCCAAGTC
1 GATGAAAAAGTCTCCCGGGTCTAAGCCGACTG-GCAGACGATTGACAAAAGAAGTCTCTCGGGTC
*
409806 TAAGCTCGACGGGCAGACGATT
65 TAAGC-CGACGGGCAGATGATT
** * * * ** ** * * *
409828 GATAGAGGAAGTCTCTCAGGTCTGAGTTGAGGGGCAGATGATTGAC-AAAGAAAGTCTCCCGAGT
1 GAT-GAAAAAGTCTCCCGGGTCTAAGCCGACTGGCAGACGATTGACAAAAG-AAGTCTCTCGGGT
* **
409892 CTAAGCTGACGGGCAGACAATT
64 CTAAGCCGACGGGCAGATGATT
* * * * * * * **
409914 GATGGAAAAGTCTCCCAGGTCTATGCCGACAGGCAAATGATGGA-TGAAGAAGTCTCTCGGGTCT
1 GATGAAAAAGTCTCCCGGGTCTAAGCCGACTGGCAGACGATTGACAAAAGAAGTCTCTCGGGTCT
* * *
409978 AAGTCAATGGGCAGATGATT
66 AAGCCGACGGGCAGATGATT
** * * * * ** * * *
409998 GAT-AAAGAAGTCTCCTAGGTCTGAGCCGACAGGTAGATGACGGA-TAAAGAAGTCTCTCAGGTT
1 GATGAAA-AAGTCTCCCGGGTCTAAGCCGACTGGCAGACGATTGACAAAAGAAGTCTCTCGGGTC
* * * *
410061 TGAGCTGACGGGTAGACGATT
65 TAAGCCGACGGGCAGATGATT
** * * * * * * * ** * *
410082 -AACAAATGAAGTCTCTCGAGTTTAAGCTGACGGGCACATGATTGATGGAAA-AA-TCTCCCAGG
1 GATGAAA--AAGTCTCCCGGGTCTAAGCCGACTGGCAGACGATTGA-CAAAAGAAGTCTCTCGGG
* * * *
410144 TCTAAGTCGACTGGTAGACGATT
63 TCTAAGCCGACGGGCAGATGATT
** * * * * * * *** ** * *
410167 GACAAAAGAAGTCTCTCAGGTCTGAGCTGACTGGTAGATGAAAAATGAAAGAAGCCTCCCGGGTC
1 GATGAAA-AAGTCTCCCGGGTCTAAGCCGACTGGCAGACGATTGACAAAAGAAGTCTCTCGGGTC
*
410232 TAAGCCGACAGGCAGATGATT
65 TAAGCCGACGGGCAGATGATT
* ** * * * *** *
410253 GA-CAAAGGAAGTCTCTTGGGTTTAAACCGA-TGGGCAGATGATTGATGGAA-AAGTCTC-CTAG
1 GATGAAA--AAGTCTCCCGGGTCTAAGCCGACT-GGCAGACGATTGACAAAAGAAGTCTCTC-GG
* * * **
410314 GTCTAAGCCAATGGACAGACAATT
62 GTCTAAGCCGACGGGCAGATGATT
* ** * * * * * ** *
410338 AACAAAAGAAGTCTCTCGGGTCTAAGCCGACGGGTAAATGATTGATGAAA-AAGTCTCT-TGGTC
1 GATGAAA-AAGTCTCCCGGGTCTAAGCCGACTGGCAGACGATTGACAAAAGAAGTCTCTCGGGTC
* * *
410401 TAAGCCGATGGGCAGACGATA
65 TAAGCCGACGGGCAGATGATT
* * * * * **
410422 GA-CAAAGGAAGTCTCCCGAGTCTAAGCCGA-TAGGCAGACAATTG-----ATAAGTCTCCCAAG
1 GATGAAA--AAGTCTCCCGGGTCTAAGCCGACT-GGCAGACGATTGACAAAAGAAGTCTCTCGGG
* * *
410480 TCTAAGCCAACGGGCAGACGATG
63 TCTAAGCCGACGGGCAGATGATT
** * ** * * * ** * * *
410503 GATGAAGAAAGTCTCCCAAGTTTAAGGTGACGGGCAAATGATTGATGGAAA-AA-TCTCACAGGC
1 GATGAA-AAAGTCTCCCGGGTCTAAGCCGACTGGCAGACGATTGA-CAAAAGAAGTCTCTCGGGT
* **
410566 CTAAGCCAACGGGCAGACCATT
64 CTAAGCCGACGGGCAGATGATT
* * * * * * **
410588 GATGGAAAAGTCTCCCGGGTCCAAGCCGACGGGC-GTACGATGGATAAAAGAAGTCTCCCAAGTC
1 GATGAAAAAGTCTCCCGGGTCTAAGCCGACTGGCAG-ACGATTGACAAAAGAAGTCTCTCGGGTC
* * * *
410652 TGAGCCAACGGGTAGACGATT
65 TAAGCCGACGGGCAGATGATT
* * * * * * * * * * **
410673 GACGAAGGAAGTTTCTCGAGTCTAAGCCAACAGGCGGACGATTGATAAAGGAAGTCTCTTAGGTC
1 GATGAA-AAAGTCTCCCGGGTCTAAGCCGACTGGCAGACGATTGACAAAAGAAGTCTCTCGGGTC
*
410738 TAAGCCGACGAGCAGATGATT
65 TAAGCCGACGGGCAGATGATT
* * *
410759 GA-CAAAGGAAGTCTCCCGGGTCTAAGCCGA-TTG-ATG--G--T----AAAGTA-TC-CT-GGG
1 GATGAAA--AAGTCTCCCGGGTCTAAGCCGACTGGCA-GACGATTGACAAAAGAAGTCTCTCGGG
* * * *
410810 TTTAAGCTGACGGGCAAACGATT
63 TCTAAGCCGACGGGCAGATGATT
*** * * * ** * * * **
410833 GCCAAAGAAAGTCTCTCAGGTCTAAGCCAACAAGAAGACGATTGA-TAAAGAAAGTCTCCCGAAT
1 GATGAA-AAAGTCTCCCGGGTCTAAGCCGACTGGCAGACGATTGACAAAAG-AAGTCTCTCGGGT
*
410897 CTAAGCCGACAGGCAGATGATT
64 CTAAGCCGACGGGCAGATGATT
* ** * * * *
410919 AACAAAAGAAGTCTCCCGGGTCTAAGCCGA-TAGGCAGACGATTGACAAAGGAAGTCACCCAGGT
1 GATGAAA-AAGTCTCCCGGGTCTAAGCCGACT-GGCAGACGATTGACAAAAGAAGTCTCTCGGGT
* * **
410983 CTAAGCCGACGAGTAGACAATT
64 CTAAGCCGACGGGCAGATGATT
* ** * * * *
411005 GAT-AAAGGAATTCTCCTAGGTCTGAGCCGA-TAGGCAGACGATTGATAAAAAAAGTCTC-CTAG
1 GATGAAA--AAGTCTCCCGGGTCTAAGCCGACT-GGCAGACGATTGACAAAAGAAGTCTCTC-GG
* * *
411067 GTCTAAGCCGACAGACAAATGATT
62 GTCTAAGCCGACGGGCAGATGATT
* ** *
411091 GATGGAAAAGTCTCTTGGGTCTAAGCCGA-TGGGCAGACGATTGACAAAAGAAGTCTC-CTGAGT
1 GATGAAAAAGTCTCCCGGGTCTAAGCCGACT-GGCAGACGATTGACAAAAGAAGTCTCTC-GGGT
* * *
411154 CTAAGCTGACGAGCAAACT-ATT
64 CTAAGCCGACGGGCAGA-TGATT
* * * * * * * * *
411176 -A-AAAGAATAGTCTCCCAGGTTTAAGCCGA-TGGGCAGGCAATTGACAAAGGTAGTCTCCCGAG
1 GATGAA-AA-AGTCTCCCGGGTCTAAGCCGACT-GGCAGACGATTGACAAAAGAAGTCTCTCGGG
* * * * * *
411238 TTTAAGGCAACGAGTAGATGGA-A
63 TCTAAGCCGACGGGCAGAT-GATT
* ** * * * * ***
411261 AATGAGGGAAGTCTCCCAGATCTAAGCCGA-TGGGCAGATGAATGATGGAA-AAGTCTCTCGGGT
1 GATGA-AAAAGTCTCCCGGGTCTAAGCCGACT-GGCAGACGATTGACAAAAGAAGTCTCTCGGGT
* ** **
411324 TTAAATCGACGGGCAGACAATT
64 CTAAGCCGACGGGCAGATGATT
* ** * ** * *** * *
411346 GA-GAAAAGAAGTCTCTCAAGTTTAAGTAGACGGGCAGACGATTGATGGAA-AAGCCTCTCGCGT
1 GATG-AAA-AAGTCTCCCGGGTCTAAGCCGACTGGCAGACGATTGACAAAAGAAGTCTCTCGGGT
**
411409 CTAAGCCGACGGGCAGATGAAA
64 CTAAGCCGACGGGCAGATGATT
* * * ** ** *** *
411431 AAT-AAAGAAGTCTCCTGGGTCTGAGCTAAGGGGCAGACGATTGATGGAA-AAGTCTTTCGGGTC
1 GATGAAA-AAGTCTCCCGGGTCTAAGCCGACTGGCAGACGATTGACAAAAGAAGTCTCTCGGGTC
* * * **
411494 TAAGCTGACGAGCAAACAATT
65 TAAGCCGACGGGCAGATGATT
* * ** * * * * *
411515 CA-CAAAGGAAGTCTCCCAAGTCTAAGCTCGACGGGCAGACGATTGATAGAGGAAGTCTCTCAGG
1 GATGAAA--AAGTCTCCCGGGTCTAAGC-CGACTGGCAGACGATTGACAAAAGAAGTCTCTCGGG
* ** *
411579 TCTGAGTTGAGGGGCAGATGATT
63 TCTAAGCCGACGGGCAGATGATT
** * * * * *** * *
411602 GACAAAGAAAGTCTCCCGAGTCTAAGCTGACGGGCAGACAATTGATGGAA-AAGTCTCCCAGGTC
1 GATGAA-AAAGTCTCCCGGGTCTAAGCCGACTGGCAGACGATTGACAAAAGAAGTCTCTCGGGTC
* * * *
411666 TATGCCGACAGGCAAACGATT
65 TAAGCCGACGGGCAGATGATT
* ** * * * * *
411687 AAT-ATAAAAGTCTCTTGAGTCTGAGCCGA-TGGGCAGACGATTGACAAATGAGGTCTCTTGGGT
1 GATGA-AAAAGTCTCCCGGGTCTAAGCCGACT-GGCAGACGATTGACAAAAGAAGTCTCTCGGGT
* ** * ** *
411750 CTATGTTGATGGATAGACGATT
64 CTAAGCCGACGGGCAGATGATT
* * * * * * * *
411772 GATAAAAAAGTCTCCCGAGTCTAAGCC-AATGGGCAGACCATTAACAAAGGAAGTCTCCCAGGTC
1 GATGAAAAAGTCTCCCGGGTCTAAGCCGACT-GGCAGACGATTGACAAAAGAAGTCTCTCGGGTC
* * * * **
411836 TGAGTCGACGGGTAGACGAAA
65 TAAGCCGACGGGCAGATGATT
* *** * * * * ***
411857 GATGAAAGAAATCTCCTTAGTCTAAGCCGACAGGTAGAGGAATGATGGAA-AAGTCTCTCGGGTC
1 GATGAAA-AAGTCTCCCGGGTCTAAGCCGACTGGCAGACGATTGACAAAAGAAGTCTCTCGGGTC
* * *
411921 TAAGCTGATGGGCAGACGATT
65 TAAGCCGACGGGCAGATGATT
411942 GA
1 GA
411944 CAAAGGAAGT
Statistics
Matches: 2905, Mismatches: 813, Indels: 338
0.72 0.20 0.08
Matches are distributed among these distances:
73 4 0.00
74 82 0.03
75 14 0.00
76 5 0.00
77 5 0.00
78 1 0.00
79 3 0.00
80 15 0.01
81 104 0.04
82 10 0.00
83 25 0.01
84 647 0.22
85 1094 0.38
86 764 0.26
87 115 0.04
88 10 0.00
89 7 0.00
ACGTcount: A:0.33, C:0.19, G:0.28, T:0.21
Consensus pattern (85 bp):
GATGAAAAAGTCTCCCGGGTCTAAGCCGACTGGCAGACGATTGACAAAAGAAGTCTCTCGGGTCT
AAGCCGACGGGCAGATGATT
Found at i:408702 original size:84 final size:83
Alignment explanation
Indices: 408058--409232 Score: 461
Period size: 84 Copynumber: 14.0 Consensus size: 83
408048 CAGATGAAAA
* * * * * * * *
408058 ATGAAAAAGTCTCTCGAGTCTAAGTCGATGGGTAGACGGTTAATAAAGAAGTCTTTCGGGTCTGA
1 ATGAAAAAGTCTCT-GGGTCTAAGCCGATGGGCAGACGATTGACAAAGAAGTCTCTCGGGTCTAA
* *
408123 GCTGACAGGTAGACGATTG
65 GCCGACAGGTAGATGATTG
* * ** * ** *
408142 ATGAAAAAGTCTCCCGAGTCTAAATCGATGGGCAGACGATGGATGAAGAAGTCT-TCCAGGTCTA
1 ATGAAAAAGTCT-CTGGGTCTAAGCCGATGGGCAGACGATTGACAAAGAAGTCTCT-CGGGTCTA
* * * *
408206 AGCCGATAGGCAAATGATGG
64 AGCCGACAGGTAGATGATTG
* * * * * * *
408226 ATGAAGAAGTCTCTCGGGTCTAAGTCGATGGGCAGATGATTGATAAATAAGTCTC-CTAGGTCTG
1 ATGAAAAAGTCTCT-GGGTCTAAGCCGATGGGCAGACGATTGACAAAGAAGTCTCTC-GGGTCTA
**
408290 AGCCGACAGGTAGATGACGG
64 AGCCGACAGGTAGATGATTG
* ** * * * * * * * *
408310 ATGAAGAAGTCTCTCAAGTTTGAGCTGACGGGTAGACGATTAACAAATGAAGTCTCTCGAGTTTA
1 ATGAAAAAGTCTCT-GGGTCTAAGCCGATGGGCAGACGATTGACAAA-GAAGTCTCTCGGGTCTA
* * * *
408375 AGCTGACGGGCACATGATTG
64 AGCCGACAGGTAGATGATTG
* * * *
408395 ATGGAAAAA-TCTCCCGGGTCTAAGTCGACT-GGTAGACGATTGACAAAAGAAGTCTCTCAGGTC
1 AT-GAAAAAGTCT-CTGGGTCTAAGCCGA-TGGGCAGACGATTGAC-AAAGAAGTCTCTCGGGTC
* * * ***
408458 TGAGCTGACTGGTAGATGAAAA
62 TAAGCCGACAGGTAGATGATTG
* * ** * * *
408480 ATGAAAGAAGCCTCCCGGGTCTAAGCCGACAGGCAGATGATTGACAAAGGAAGTCTCTTGGGTTT
1 ATGAAA-AAGTCT-CTGGGTCTAAGCCGATGGGCAGACGATTGACAAA-GAAGTCTCTCGGGTCT
* ** *
408545 AAACCGATGGGCAGATGATTG
63 AAGCCGACAGGTAGATGATTG
* * * *
408566 ATGGAAAAGTCTCCTAGGTCTAAGCCGATGGACAGACAATTGACAAAAGAAGTCTCTCGGGTCTA
1 ATGAAAAAGTCT-CTGGGTCTAAGCCGATGGGCAGACGATTGAC-AAAGAAGTCTCTCGGGTCTA
* * *
408631 AGCCAACGGGTAAATGATTG
64 AGCCGACAGGTAGATGATTG
* * * *
408651 ATGAAAAAGTCTCTTGGTCTAAGCCGATGGGCAGACGATAGACAAAGGAAGTCTCCCGAGTCTAA
1 ATGAAAAAGTCTCTGGGTCTAAGCCGATGGGCAGACGATTGACAAA-GAAGTCTCTCGGGTCTAA
* * **
408716 GCCGATAGGCAGACAATTG
65 GCCGACAGGTAGATGATTG
*** * * * ** * ** *
408735 AT----AAGTCTCCCAAGTCTAAGCCAACGGGCAGACGATGGATGAAGAAAGTCTCCCAAGTTTA
1 ATGAAAAAGTCT-CTGGGTCTAAGCCGATGGGCAGACGATTGACAAAG-AAGTCTCTCGGGTCTA
** * * *
408796 AGGTGACGGGCAAATGATTG
64 AGCCGACAGGTAGATGATTG
** * * * * ** * *
408816 ATGGAAAAA-TCTCACAGGCCTAAGCCAACGGGCAGACCATTGATGGAA-AAGTCTCCCGGGTCC
1 AT-GAAAAAGTCTC-TGGGTCTAAGCCGATGGGCAGACGATTGA-CAAAGAAGTCTCTCGGGTCT
* ** *
408879 AAGCCGA-TGGGCGTATGATGG
63 AAGCCGACAGGTAG-ATGATTG
* *** * * * * * * *
408900 ATAAAAGAAGTCTCCCAAGTCTGAGCCAACGGGTAGACGATTGACGAAGGAAGTTTCTCGAGTCT
1 ATGAAA-AAGTCT-CTGGGTCTAAGCCGATGGGCAGACGATTGAC-AAAGAAGTCTCTCGGGTCT
* * * *
408965 AAGCCAATAGGCAGACGATTG
63 AAGCCGACAGGTAGATGATTG
* * * * *
408986 AT-AAAGGAAGTCTCTTGGGTCTAAGCCGACGAGCAGATGATTGACAAAGGAAGTCTCCCGAGTC
1 ATGAAA--AAGTCTC-TGGGTCTAAGCCGATGGGCAGACGATTGACAAA-GAAGTCTCTCGGGTC
409050 TAAGCCG--A--T---TGA-TG
62 TAAGCCGACAGGTAGATGATTG
* * * * * * * *
409064 --G-TAAAGTATCCTGGGTTTAAGCTGACGGGCAAACGATTGCCAAAGAAAGTCTCTCAGGTCTA
1 ATGAAAAAGTCT-CTGGGTCTAAGCCGATGGGCAGACGATTGACAAAG-AAGTCTCTCGGGTCTA
* * * *
409126 AGCCAACAAGAAGACGATTG
64 AGCCGACAGGTAGATGATTG
* * ** ** * * *
409146 ATAAAGAAAGTCTCCCGAATCTAAGCCGACAGGCAGATGATTAACAAAAGAAGTCTCCCGGGTCT
1 ATGAA-AAAGTCT-CTGGGTCTAAGCCGATGGGCAGACGATTGAC-AAAGAAGTCTCTCGGGTCT
* * *
409211 AAGCCGATAGGCAGACGATTG
63 AAGCCGACAGGTAGATGATTG
409232 A
1 A
409233 CAAAGGAAGT
Statistics
Matches: 823, Mismatches: 216, Indels: 102
0.72 0.19 0.09
Matches are distributed among these distances:
73 1 0.00
74 49 0.06
75 1 0.00
76 2 0.00
78 2 0.00
79 2 0.00
80 7 0.01
81 57 0.07
82 2 0.00
83 11 0.01
84 256 0.31
85 217 0.26
86 209 0.25
87 7 0.01
ACGTcount: A:0.32, C:0.19, G:0.28, T:0.21
Consensus pattern (83 bp):
ATGAAAAAGTCTCTGGGTCTAAGCCGATGGGCAGACGATTGACAAAGAAGTCTCTCGGGTCTAAG
CCGACAGGTAGATGATTG
Found at i:409966 original size:256 final size:254
Alignment explanation
Indices: 409536--410000 Score: 553
Period size: 256 Copynumber: 1.8 Consensus size: 254
409526 GAAAAATGAG
* * * * *
409536 GGAAGTCTCCCAGATCTAAGCCGATGGGCAGATGAATGATGGAAAAGTCTCTCGGGTTTAAATCG
1 GGAAGTCTCCCAGATCTAAGCCGACGGGCAGACGAATGATAGAAAAGTCTCTCAGGTCTAAATCG
* * * * *
409601 ACGGGCAGACAATTGAGAAAGGAAGTCTCTCAAGTTTAAGTAGACGGGCAGACGATTGATGGAAA
66 ACGGGCAGACAATTGACAAAGAAAGTCTCCCAAGTCTAAGTAGACGGGCAGACAATTGATGGAAA
* * * *
409666 AGCCTCTCGAGTCTAAGCCGACGGGCAGATGAAAAATAAAGAAGTCTC-CTGGGTCTGAG-CTAA
131 AGCCTCCCGAGTCTAAGCCGACAGGCAAATGAAAAATAAAGAAGTCTCTC-GGGTCTAAGTC-AA
409729 GGGGCAGACGATTGATGGAAAAGTCTTTCGGGTTTAAGCTGACGAGCAAACAATTCACAAA
194 GGGGCAGACGATTGATGGAAAAGTCTTTCGGGTTTAAGCTGACGAGCAAACAATTCACAAA
* * * *
409790 GGAAGTCTCCCA-AGTCTAAGCTCGACGGGCAGACGATTGATAGAGGAAGTCTCTCAGGTCTGAG
1 GGAAGTCTCCCAGA-TCTAAGC-CGACGGGCAGACGAATGATAGA-AAAGTCTCTCAGGTCTAAA
* * ** *
409854 TTGAGGGGCAGATGATTGACAAAGAAAGTCTCCCGAGTCTAAGCT-GACGGGCAGACAATTGATG
63 TCGACGGGCAGACAATTGACAAAGAAAGTCTCCCAAGTCTAAG-TAGACGGGCAGACAATTGATG
* * *** *
409918 GAAAAGTCTCCC-AGGTCTATGCCGACAGGCAAATGATGGATGAAGAAGTCTCTCGGGTCTAAGT
127 GAAAAGCCTCCCGA-GTCTAAGCCGACAGGCAAATGAAAAATAAAGAAGTCTCTCGGGTCTAAGT
* *
409982 CAATGGGCAGATGATTGAT
191 CAAGGGGCAGACGATTGAT
410001 AAAGAAGTCT
Statistics
Matches: 173, Mismatches: 31, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
253 1 0.01
254 19 0.11
255 19 0.11
256 131 0.76
257 3 0.02
ACGTcount: A:0.31, C:0.18, G:0.29, T:0.21
Consensus pattern (254 bp):
GGAAGTCTCCCAGATCTAAGCCGACGGGCAGACGAATGATAGAAAAGTCTCTCAGGTCTAAATCG
ACGGGCAGACAATTGACAAAGAAAGTCTCCCAAGTCTAAGTAGACGGGCAGACAATTGATGGAAA
AGCCTCCCGAGTCTAAGCCGACAGGCAAATGAAAAATAAAGAAGTCTCTCGGGTCTAAGTCAAGG
GGCAGACGATTGATGGAAAAGTCTTTCGGGTTTAAGCTGACGAGCAAACAATTCACAAA
Found at i:409994 original size:127 final size:127
Alignment explanation
Indices: 409538--410012 Score: 394
Period size: 127 Copynumber: 3.7 Consensus size: 127
409528 AAAATGAGGG
* * * * * *
409538 AAGTCTCCCAGATCTAAGCCGATGGGCAGATGAATGATGGAA-AAGTCTCTCGGGTTTAAATCGA
1 AAGTCTCCCAGGTCTAAGCCGACGGGCAGATG-ATGATAGAAGAAGTCTCTCGGGTCTAAGTCAA
* * * * * * *
409602 CGGGCAGACAATTGAGAAAGGAAGTCTCTCAAGTTTAAG-TAGACGGGCAGACGATTGATGGAA
65 GGGGCAGACGATTGATAAAGAAAGTCTCCCGAGTTTAAGCT-GACGGGCAGACAATTGATGGAA
* * ** *
409665 AAGCCTCTC-GAGTCTAAGCCGACGGGCAGATGAAAAATA-AAGAAGTCTC-CTGGGTCTGAG-C
1 AAGTCTCCCAG-GTCTAAGCCGACGGGCAGATG-ATGATAGAAGAAGTCTCTC-GGGTCTAAGTC
** ** * * * * **
409726 TAAGGGGCAGACGATTGATGGA-AAAGTCTTTCGGGTTTAAGCTGACGAGCAAACAATTCA-CAA
63 -AAGGGGCAGACGATTGATAAAGAAAGTCTCCCGAGTTTAAGCTGACGGGCAGACAATTGATGGA
409789 A
127 A
* * * * *
409790 GGAAGTCTCCCAAGTCTAAGCTCGACGGGCAGACGATTGATAGAGGAAGTCTCTCAGGTCTGAGT
1 --AAGTCTCCCAGGTCTAAGC-CGACGGGCAGATGA-TGATAGAAGAAGTCTCTCGGGTCTAAGT
** * * *
409855 TGAGGGGCAGATGATTGACAAAGAAAGTCTCCCGAGTCTAAGCTGACGGGCAGACAATTGATGGA
62 CAAGGGGCAGACGATTGATAAAGAAAGTCTCCCGAGTTTAAGCTGACGGGCAGACAATTGATGGA
409920 A
127 A
* * *
409921 AAGTCTCCCAGGTCTATGCCGACAGGCAAATGATGGAT-GAAGAAGTCTCTCGGGTCTAAGTCAA
1 AAGTCTCCCAGGTCTAAGCCGACGGGCAGATGAT-GATAGAAGAAGTCTCTCGGGTCTAAGTCAA
* *
409985 TGGGCAGATGATTGATAAAG-AAGTCTCC
65 GGGGCAGACGATTGATAAAGAAAGTCTCC
410013 TAGGTCTGAG
Statistics
Matches: 271, Mismatches: 61, Indels: 33
0.74 0.17 0.09
Matches are distributed among these distances:
125 2 0.01
126 41 0.15
127 115 0.42
128 29 0.11
129 50 0.18
130 32 0.12
131 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.29, T:0.21
Consensus pattern (127 bp):
AAGTCTCCCAGGTCTAAGCCGACGGGCAGATGATGATAGAAGAAGTCTCTCGGGTCTAAGTCAAG
GGGCAGACGATTGATAAAGAAAGTCTCCCGAGTTTAAGCTGACGGGCAGACAATTGATGGAA
Found at i:410303 original size:171 final size:171
Alignment explanation
Indices: 410001--410451 Score: 471
Period size: 171 Copynumber: 2.7 Consensus size: 171
409991 GATGATTGAT
** * * *
410001 AAAGAAGTCTC-CTAGGTCTGAGCCGACAGGTAGATGACGGAT-AAAGAAGTCTCTCAGGTTTGA
1 AAAGAAGTCTCTC-AGGTCTGAGCCGACAGGTAGATGAAAGATGAAAGAAGTCTCCCAGGTCTAA
* * * * * *
410064 GCTGACGGGTAGACGATTAACAAATGAAGTCTCTCGAGTTTAAGCTGACGGGCACATGATTGATG
65 GCCGACGGGCAGACGATTGACAAAGGAAGTCTCTCGAGTTTAAACCGACGGGCACATGATTGATG
* * * * *
410129 GAAAAATCTCCCAGGTCTAAGTCGACTGG-TAGACGATTGACA
130 GAAAAATCTCCCAGGTCTAAG-CCAATGGACAGACAATTAACA
* * * * *
410171 AAAGAAGTCTCTCAGGTCTGAGCTGACTGGTAGATGAAAAATGAAAGAAGCCTCCCGGGTCTAAG
1 AAAGAAGTCTCTCAGGTCTGAGCCGACAGGTAGATGAAAGATGAAAGAAGTCTCCCAGGTCTAAG
* * * * * *
410236 CCGACAGGCAGATGATTGACAAAGGAAGTCTCTTGGGTTTAAACCGATGGGCAGATGATTGATGG
66 CCGACGGGCAGACGATTGACAAAGGAAGTCTCTCGAGTTTAAACCGACGGGCACATGATTGATGG
* *
410301 AAAAGTCTCCTAGGTCTAAGCCAATGGACAGACAATTAACA
131 AAAAATCTCCCAGGTCTAAGCCAATGGACAGACAATTAACA
* * * * ** **
410342 AAAGAAGTCTCTCGGGTCTAAGCCGACGGGTAAATGATTGATGAAA-AAGTCT-CTTGGTCTAAG
1 AAAGAAGTCTCTCAGGTCTGAGCCGACAGGTAGATGAAAGATGAAAGAAGTCTCCCAGGTCTAAG
* * * * *
410405 CCGATGGGCAGACGATAGACAAAGGAAGTCTCCCGAGTCTAAGCCGA
66 CCGACGGGCAGACGATTGACAAAGGAAGTCTCTCGAGTTTAAACCGA
410452 TAGGCAGACA
Statistics
Matches: 229, Mismatches: 49, Indels: 7
0.80 0.17 0.02
Matches are distributed among these distances:
169 47 0.21
170 45 0.20
171 137 0.60
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.22
Consensus pattern (171 bp):
AAAGAAGTCTCTCAGGTCTGAGCCGACAGGTAGATGAAAGATGAAAGAAGTCTCCCAGGTCTAAG
CCGACGGGCAGACGATTGACAAAGGAAGTCTCTCGAGTTTAAACCGACGGGCACATGATTGATGG
AAAAATCTCCCAGGTCTAAGCCAATGGACAGACAATTAACA
Found at i:411575 original size:256 final size:254
Alignment explanation
Indices: 411267--411730 Score: 551
Period size: 256 Copynumber: 1.8 Consensus size: 254
411257 GGAAAATGAG
* * * * *
411267 GGAAGTCTCCCAGATCTAAGCCGATGGGCAGATGAATGATGGAAAAGTCTCTCGGGTTTAAATCG
1 GGAAGTCTCCCAGATCTAAGCCGACGGGCAGACGAATGATAGAAAAGTCTCTCAGGTCTAAATCG
* * *
411332 ACGGGCAGACAATTGAGAAAAG-AAGTCTCTCAAGTTTAAG-TAGACGGGCAGACGATTGATGGA
66 ACGGGCAGACAATTGA-AAAAGAAAGTCTCCCAAGTCTAAGCT-GACGGGCAGACAATTGATGGA
* * * * * *
411395 AAAGCCTCTC-GCGTCTAAGCCGACGGGCAGATGAAAAATA-AAGAAGTCTCCTGGGTCTGAGCT
129 AAAGCCTCCCAG-GTCTAAGCCGACAGGCAAACGAAAAATATAA-AAGTCTCCTGAGTCTGAGCC
411458 AAGGGGCAGACGATTGATGGAAAAGTCTTTCGGGTCTAAGCTGACGAGCAAACAATTCACAAA
192 AAGGGGCAGACGATTGATGGAAAAGTCTTTCGGGTCTAAGCTGACGAGCAAACAATTCACAAA
* * * *
411521 GGAAGTCTCCCA-AGTCTAAGCTCGACGGGCAGACGATTGATAGAGGAAGTCTCTCAGGTCTGAG
1 GGAAGTCTCCCAGA-TCTAAGC-CGACGGGCAGACGAATGATAGA-AAAGTCTCTCAGGTCTAAA
* * ** * *
411585 TTGAGGGGCAGATGATTGACAAAGAAAGTCTCCCGAGTCTAAGCTGACGGGCAGACAATTGATGG
63 TCGACGGGCAGACAATTGAAAAAGAAAGTCTCCCAAGTCTAAGCTGACGGGCAGACAATTGATGG
* * ** * *
411650 AAAAGTCTCCCAGGTCTATGCCGACAGGCAAACGATTAATATAAAAGTCTCTTGAGTCTGAGCCG
128 AAAAGCCTCCCAGGTCTAAGCCGACAGGCAAACGAAAAATATAAAAGTCTCCTGAGTCTGAGCCA
*
411715 ATGGGCAGACGATTGA
193 AGGGGCAGACGATTGA
411731 CAAATGAGGT
Statistics
Matches: 172, Mismatches: 31, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
253 1 0.01
254 19 0.11
255 22 0.13
256 126 0.73
257 4 0.02
ACGTcount: A:0.32, C:0.19, G:0.29, T:0.20
Consensus pattern (254 bp):
GGAAGTCTCCCAGATCTAAGCCGACGGGCAGACGAATGATAGAAAAGTCTCTCAGGTCTAAATCG
ACGGGCAGACAATTGAAAAAGAAAGTCTCCCAAGTCTAAGCTGACGGGCAGACAATTGATGGAAA
AGCCTCCCAGGTCTAAGCCGACAGGCAAACGAAAAATATAAAAGTCTCCTGAGTCTGAGCCAAGG
GGCAGACGATTGATGGAAAAGTCTTTCGGGTCTAAGCTGACGAGCAAACAATTCACAAA
Found at i:411965 original size:85 final size:85
Alignment explanation
Indices: 411267--412320 Score: 376
Period size: 85 Copynumber: 12.4 Consensus size: 85
411257 GGAAAATGAG
* * * * * * * *
411267 GGAAGTCTCCCAGATCTAAGCCGATGGGCAGATGAATGATGGAAAAGTCTCTCGGGTTTAA-ATC
1 GGAAGTCTTCCAGGTCTAAGCCGACGGGTAGACGAATGATGGAAAAGTCTCTCAGGTCTAAGCT-
* * *
411331 GACGGGCAGACAATTGAGAAA
65 GATGGGCAGACGATTGACAAA
* * * ** * * *
411352 AGAAGTC-TCTCAAGTTTAAGTAGACGGGCAGACGATTGATGGAAAAGCCTCTC-GCGTCTAAGC
1 GGAAGTCTTC-CAGGTCTAAGCCGACGGGTAGACGAATGATGGAAAAGTCTCTCAG-GTCTAAGC
* * * *** *
411415 CGACGGGCAGATGAAAAATAAA
64 TGATGGGCAGACGATTGACAAA
* * ** * * * * *
411437 -GAAGTC-TCCTGGGTCTGAGCTAAGGGGCAGACGATTGATGGAAAAGTCTTTCGGGTCTAAGCT
1 GGAAGTCTTCC-AGGTCTAAGCCGACGGGTAGACGAATGATGGAAAAGTCTCTCAGGTCTAAGCT
* * * * *
411500 GACGAGCAAACAATTCACAAA
65 GATGGGCAGACGATTGACAAA
* * * * * * * *
411521 GGAAGTCTCCCAAGTCTAAGCTCGACGGGCAGACGATTGATAGAGGAAGTCTCTCAGGTCTGAGT
1 GGAAGTCTTCCAGGTCTAAGC-CGACGGGTAGACGAATGATGGA-AAAGTCTCTCAGGTCTAAGC
* *
411586 TGAGGGGCAGATGATTGACAAA
64 TGATGGGCAGACGATTGACAAA
* * * * * *
411608 GAAAGTC-TCCCGAGTCTAAGCTGACGGGCAGAC-AATTGATGGAAAAGTCTCCCAGGTCTATGC
1 GGAAGTCTTCCAG-GTCTAAGCCGACGGGTAGACGAA-TGATGGAAAAGTCTCTCAGGTCTAAGC
* ** * * *
411671 CGACAGGCAAACGATTAATATAA
64 TGATGGGCAGACGATTGACA-AA
** * * * * * ** *
411694 --AAGTC-TCTTGAGTCTGAGCCGATGGGCAGACGATTGA--CAAATGAGGTCTCTTGGGTCTAT
1 GGAAGTCTTCCAG-GTCTAAGCCGACGGGTAGACGAATGATGGAAA--A-GTCTCTCAGGTCTAA
* ** *
411754 GTTGATGGATAGACGATTGATAAA
62 GCTGATGGGCAGACGATTGACAAA
* * * * * * * *** * *
411778 -AAAGTC-TCCCGAGTCTAAGCCAATGGGCAGAC-CATTAACAAAGGAAGTCTCCCAGGTCTGAG
1 GGAAGTCTTCCAG-GTCTAAGCCGACGGGTAGACGAATGATGGAA--AAGTCTCTCAGGTCTAAG
* * ** *
411840 -TCGACGGGTAGACGAAAGATGAAA
63 CT-GATGGGCAGACGATTGA-CAAA
* * * *
411864 -GAAATC-TCCTTA-GTCTAAGCCGACAGGTAGAGGAATGATGGAAAAGTCTCTCGGGTCTAAGC
1 GGAAGTCTTCC--AGGTCTAAGCCGACGGGTAGACGAATGATGGAAAAGTCTCTCAGGTCTAAGC
411926 TGATGGGCAGACGATTGACAAA
64 TGATGGGCAGACGATTGACAAA
* * * ** * * *
411948 GGAAGTCTTCCAGGTCTAAGCTGATGGGAAGAC-AATTTTTGGAAAAGTCTCCCAAGTCTAAGCC
1 GGAAGTCTTCCAGGTCTAAGCCGACGGGTAGACGAA-TGATGGAAAAGTCTCTCAGGTCTAAGCT
* * *
412012 AATAGGCAGATGATTGACAAA
65 GATGGGCAGACGATTGACAAA
* * * * * * * * ** *
412033 GGATGTCTCTCGA-GTCTAAGTCGATGGGCAAACGACTAATGGAAAAGTCTCTTGGGTCTGAGCT
1 GGAAGTCT-TCCAGGTCTAAGCCGACGGGTAGACGAATGATGGAAAAGTCTCTCAGGTCTAAGCT
**
412097 GATGGGTTGACGATTGACAAA
65 GATGGGCAGACGATTGACAAA
* ** ** * * * * *
412118 TGAAGTC-TCTTGTGTCTAAGTTGATGGGTAGACGATTGATGGAAAATTTTCTCAGGTCTAAGCC
1 GGAAGTCTTCCAG-GTCTAAGCCGACGGGTAGACGAATGATGGAAAAGTCTCTCAGGTCTAAGCT
* * *
412182 AATGGGTAGACGAATGACAAA
65 GATGGGCAGACGATTGACAAA
* * * * * * * * *
412203 GAAAGTC-TCTCGGGTTTGAGCTGACAGGTAGACGAAAGAT-GAAGGAAGTCTTTCAAGTCTAAG
1 GGAAGTCTTC-CAGGTCTAAGCCGACGGGTAGACGAATGATGGAA--AAGTCTCTCAGGTCTAAG
* *
412266 CTGATGGGCAGACGAATGATAAA
63 CTGATGGGCAGACGATTGACAAA
* *
412289 GG-AGTCTCCCAGGTCTAAGCCAACGGGTAGAC
1 GGAAGTCTTCCAGGTCTAAGCCGACGGGTAGAC
412321 AAAAGATGAA
Statistics
Matches: 716, Mismatches: 214, Indels: 78
0.71 0.21 0.08
Matches are distributed among these distances:
82 3 0.00
83 3 0.00
84 107 0.15
85 439 0.61
86 113 0.16
87 50 0.07
88 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.22
Consensus pattern (85 bp):
GGAAGTCTTCCAGGTCTAAGCCGACGGGTAGACGAATGATGGAAAAGTCTCTCAGGTCTAAGCTG
ATGGGCAGACGATTGACAAA
Found at i:412077 original size:170 final size:170
Alignment explanation
Indices: 411516--412214 Score: 435
Period size: 170 Copynumber: 4.1 Consensus size: 170
411506 CAAACAATTC
* * * * * * * * * *
411516 ACAAAGGAAGTCTCCCAAGTCTAAGCTCGACGGGCAGACGATTGATAGAGGAAGTCTCTCAGGTC
1 ACAAAGAAAGTCTCTCGAGTCTAAG-TCGATGGGCAAACGACTAATGGA-AAAGTCTCTCGGGTC
* * * * * * * * *
411581 TGAGTTGAGGGGCAGATGATTGACAAAGAAAGTCTCCCGAGTCTAAGCTGACGGGCAGACAATTG
64 TAAGCTGATGGGCAGACGATTGACAAAGGAAGTCTCCAGTGTCTAAGCTGATGGGAAGACAATTG
* * * * * * *
411646 ATGGAAAAGTCTCCCAGGTCTATGCCGACAGGCAAACGATTA
129 ATGGAAAAGTCTCCCAAGTCTAAGCCAATAGGCAGACGAATG
* * * * * * * *
411688 ATATA-AAAGTCTCTTGAGTCTGAGCCGATGGGCAGACGA-T--TGACAAATGAGGTCTCTTGGG
1 ACAAAGAAAGTCTCTCGAGTCTAAGTCGATGGGCAAACGACTAATG-GAAA--A-GTCTCTCGGG
* * ** * * * * ** * *
411749 TCTATGTTGATGGATAGACGATTGATAAA-AAAGTCTCCCGAGTCTAAGCCAATGGGCAGACCAT
62 TCTAAGCTGATGGGCAGACGATTGACAAAGGAAGTCTCCAGTGTCTAAGCTGATGGGAAGACAAT
*** * * * * ** * *
411813 T-AACAAAGGAAGTCTCCCAGGTCTGAGTCGACGGGTAGACGAAAG
127 TGATGGAA--AAGTCTCCCAAGTCTAAGCCAATAGGCAGACGAATG
* * * ** * * * * *
411858 ATGAAAGAAA-TCTC-CTTAGTCTAAGCCGACAGGTAGAGGAATGATGGAAAAGTCTCTCGGGTC
1 A-CAAAGAAAGTCTCTC-GAGTCTAAGTCGATGGGCAAACGACTAATGGAAAAGTCTCTCGGGTC
411921 TAAGCTGATGGGCAGACGATTGACAAAGGAAGTCTTCCAG-GTCTAAGCTGATGGGAAGACAATT
64 TAAGCTGATGGGCAGACGATTGACAAAGGAAGTC-TCCAGTGTCTAAGCTGATGGGAAGACAATT
** * *
411985 TTTGGAAAAGTCTCCCAAGTCTAAGCCAATAGGCAGATGATTG
128 GATGGAAAAGTCTCCCAAGTCTAAGCCAATAGGCAGACGAATG
* * * *
412028 ACAAAGGATGTCTCTCGAGTCTAAGTCGATGGGCAAACGACTAATGGAAAAGTCTCTTGGGTCTG
1 ACAAAGAAAGTCTCTCGAGTCTAAGTCGATGGGCAAACGACTAATGGAAAAGTCTCTCGGGTCTA
** * ** * * *
412093 AGCTGATGGGTTGACGATTGACAAATGAAGTCTCTTGTGTCTAAGTTGATGGGTAGACGATTGAT
66 AGCTGATGGGCAGACGATTGACAAAGGAAGTCTCCAGTGTCTAAGCTGATGGGAAGACAATTGAT
* * * * * *
412158 GGAAAATTTTCTCAGGTCTAAGCCAATGGGTAGACGAATG
131 GGAAAAGTCTCCCAAGTCTAAGCCAATAGGCAGACGAATG
412198 ACAAAGAAAGTCTCTCG
1 ACAAAGAAAGTCTCTCG
412215 GGTTTGAGCT
Statistics
Matches: 402, Mismatches: 107, Indels: 38
0.73 0.20 0.07
Matches are distributed among these distances:
167 2 0.00
168 4 0.01
169 42 0.10
170 271 0.67
171 65 0.16
172 13 0.03
173 3 0.01
174 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (170 bp):
ACAAAGAAAGTCTCTCGAGTCTAAGTCGATGGGCAAACGACTAATGGAAAAGTCTCTCGGGTCTA
AGCTGATGGGCAGACGATTGACAAAGGAAGTCTCCAGTGTCTAAGCTGATGGGAAGACAATTGAT
GGAAAAGTCTCCCAAGTCTAAGCCAATAGGCAGACGAATG
Found at i:413294 original size:10 final size:11
Alignment explanation
Indices: 413268--413296 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
413258 GAAGTTTTTA
413268 TGAAAAATGTT
1 TGAAAAATGTT
413279 TGAAAAATGTT
1 TGAAAAATGTT
413290 T-AAAAAT
1 TGAAAAAT
413297 CATCTAGTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (11 bp):
TGAAAAATGTT
Found at i:415001 original size:20 final size:20
Alignment explanation
Indices: 414972--415066 Score: 138
Period size: 20 Copynumber: 4.8 Consensus size: 20
414962 AAAAAGATAA
414972 AATGTATCGATACATTGAAG
1 AATGTATCGATACATTGAAG
*
414992 AATGTTTCGATACATTGAAG
1 AATGTATCGATACATTGAAG
*
415012 AATGTATCGATACATTCATA-
1 AATGTATCGATACATTGA-AG
* *
415032 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTGAAG
415052 AATGTATCGATACAT
1 AATGTATCGATACAT
415067 CTAGGTAAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
19 1 0.01
20 65 0.97
21 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTGAAG
Found at i:416521 original size:28 final size:28
Alignment explanation
Indices: 415996--416516 Score: 609
Period size: 28 Copynumber: 18.5 Consensus size: 28
415986 CACCAACTTG
* *
415996 TGTGGGCTTTGAAAGGGTGTCACCGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
416024 TGTGGGCTTTGAAAGGGTATGCCACTGACT
1 TGTGGGCTTTGAAAGGG--TGCCACTGACT
* * *
416054 TGTGGGCTTGGAAAGCGTGCCACTCACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
416082 TGTGGGCTTTGAAGGGGTACCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
416110 TATGGGCTTTTAAAGGGTGCCACTGGCT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
416138 TGTGGGCATTGAAAGGGTGCCACTGATT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
416166 TGTGGGCTTTGGAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
416194 TGTGGGCTTTGGAAGAGTGCCATTGATT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
416222 TGTGTAGGCTTTTAAAGGGTGCCACTGAC-
1 TGTG--GGCTTTGAAAGGGTGCCACTGACT
416251 T-TGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
416278 TGTGGGCTTTGGAAGGGTGTCACTGATT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
416306 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
416334 TGTGGTCTTTTG-AAGAGATGCCACTGACT
1 TGTGGGC-TTTGAAAG-GGTGCCACTGACT
** * *
416363 TGTGGGCTTTGAAAGAATGGCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
416391 TGTGGGTTTTGAAAGGATACCGCTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
416419 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
416447 TGTGGGCTTTAAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
416475 TGTGGGCTTTAAAAGGATGCCACTGACC
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
416503 TGTGGGCTTT-AAAG
1 TGTGGGCTTTGAAAG
416517 AGATGAACGT
Statistics
Matches: 425, Mismatches: 59, Indels: 19
0.84 0.12 0.04
Matches are distributed among these distances:
26 22 0.05
27 5 0.01
28 329 0.77
29 27 0.06
30 42 0.10
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:417783 original size:1 final size:1
Alignment explanation
Indices: 417765--417849 Score: 53
Period size: 1 Copynumber: 85.0 Consensus size: 1
417755 TCTGGACCCC
* * * * * * * * * **
417765 TTTTTGTTTATTTGTTTTTTGTTTGTTTTTTTGTTTTTTTTTGTGTTTTTTTTCTTGGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
417830 TTGTTTTTTTATTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTT
417850 GGTACAAAGG
Statistics
Matches: 60, Mismatches: 24, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 60 1.00
ACGTcount: A:0.02, C:0.01, G:0.12, T:0.85
Consensus pattern (1 bp):
T
Found at i:417791 original size:11 final size:11
Alignment explanation
Indices: 417775--417838 Score: 71
Period size: 11 Copynumber: 5.9 Consensus size: 11
417765 TTTTTGTTTA
417775 TTTGTTTTTTG
1 TTTGTTTTTTG
417786 TTTGTTTTTTTG
1 TTTG-TTTTTTG
417798 TTT-TTTTTTG
1 TTTGTTTTTTG
*
417808 TGTT-TTTTTTC
1 T-TTGTTTTTTG
*
417819 TTGGTTTTTT-
1 TTTGTTTTTTG
417829 TTTGTTTTTT
1 TTTGTTTTTT
417839 TATTTTTTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
10 18 0.38
11 19 0.40
12 10 0.21
ACGTcount: A:0.00, C:0.02, G:0.14, T:0.84
Consensus pattern (11 bp):
TTTGTTTTTTG
Found at i:417839 original size:11 final size:11
Alignment explanation
Indices: 417765--417849 Score: 91
Period size: 12 Copynumber: 7.5 Consensus size: 11
417755 TCTGGACCCC
* *
417765 TTTTTGTTTAT
1 TTTTTTTTTGT
*
417776 TTGTTTTTTGT
1 TTTTTTTTTGT
417787 TTGTTTTTTTGT
1 TT-TTTTTTTGT
417799 TTTTTTTTGTGT
1 TTTTTTTT-TGT
*
417811 TTTTTTTCTTGG
1 TTTTTTT-TTGT
417823 TTTTTTTTTGT
1 TTTTTTTTTGT
417834 TTTTTTATTT-T
1 TTTTTT-TTTGT
417845 TTTTT
1 TTTTT
417850 GGTACAAAGG
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
11 31 0.48
12 32 0.50
13 1 0.02
ACGTcount: A:0.02, C:0.01, G:0.12, T:0.85
Consensus pattern (11 bp):
TTTTTTTTTGT
Found at i:428027 original size:22 final size:23
Alignment explanation
Indices: 428002--428055 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 23
427992 AAAAAAGGTC
** * *
428002 AAAAGCAAAAGTACAAAATATG-
1 AAAAGCAAAAACAAAAAAAATGC
428024 AAAAG-AAAAACAAAAAAAATGC
1 AAAAGCAAAAACAAAAAAAATGC
428046 AAAAGCAAAA
1 AAAAGCAAAA
428056 TGAAAAAGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 12 0.46
22 10 0.38
23 4 0.15
ACGTcount: A:0.72, C:0.09, G:0.11, T:0.07
Consensus pattern (23 bp):
AAAAGCAAAAACAAAAAAAATGC
Found at i:428061 original size:22 final size:21
Alignment explanation
Indices: 427991--428062 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 21
427981 TAAAATGACA
*
427991 AAAAAAAGGTCAAAAGCAAAAG
1 AAAAAAATG-CAAAAGCAAAAG
* * *
428013 TACAAAATATG-AAAAGAAAAACA
1 -A-AAAAAATGCAAAAGCAAAA-G
428036 AAAAAAATGCAAAAGCAAAATG
1 AAAAAAATGCAAAAGCAAAA-G
428058 AAAAA
1 AAAAA
428063 GGAACAACAA
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
21 7 0.18
22 24 0.63
23 1 0.03
24 6 0.16
ACGTcount: A:0.71, C:0.08, G:0.12, T:0.08
Consensus pattern (21 bp):
AAAAAAATGCAAAAGCAAAAG
Found at i:429518 original size:110 final size:109
Alignment explanation
Indices: 429322--429885 Score: 539
Period size: 110 Copynumber: 5.1 Consensus size: 109
429312 CTGTGACCTC
* * * * * *
429322 TTCAAAGTCCACGATTCAGTGGCATTTCTTTTCAAAGTCCACAACTCCGTGGTA-TCTTTTCAAG
1 TTCAAAGTCCACAACTCTGTGGCA-TCCTTTT-AAA-TCCACAACTCCGTGGCACCCTTTT-AAG
** * * *
429386 TCCACAACTCCATGACATCCTTTTAAAGTCCACAACTCTGTGGCACCCT
62 TCCACAACTCTGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCT
* *
429435 TTCAAAGTCCACCACTCTGTGGCATCCTTTTAAATCCACAACTCCGTGGCACCCTTTAAAGTCCA
1 TTCAAAGTCCACAACTCTGTGGCATCCTTTTAAATCCACAACTCCGTGGCACCCTTTTAAGTCCA
*
429500 CAACTCTGTGGCACCCTTTTAAAGTCCACCACTCCGTGGCACCCT
66 CAACTCTGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCT
* * * * *
429545 TTCAAAGTCCACCATTCTGTGGCA-CCTTTTTAAATTCACAACTCTGTGGCATCCTTTTAAGTCC
1 TTCAAAGTCCACAACTCTGTGGCATCC-TTTTAAATCCACAACTCCGTGGCACCCTTTTAAGTCC
* *
429609 ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCGT
65 ACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCT
** * * * *
429655 TTC-AAGTCCACAACTCCATGGCGTTCTTTTAAAGTCCACAACTCCATGGTACCCTTTTAAGTCC
1 TTCAAAGTCCACAACTCTGTGGCATCCTTTTAAA-TCCACAACTCCGTGGCACCCTTTTAAGTCC
* * * *
429719 ACAACT-TCATGGCACTCTTTTAAGTCCACAACTCCGTGACA-TCT
65 ACAACTCT-GTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCT
** ** * ** **
429763 TTTTAAGTCCACAACT-TCGTGGCATCCTTTTTAAGCCCACAAGTTAGTGGCACCCTTCCGAAGT
1 TTCAAAGTCCACAACTCT-GTGGCATCC-TTTTAAATCCACAACTCCGTGGCACCCTT-TTAAGT
* * * *
429827 CCACAACT-TCGTGGCATCCTTTTTAAGCCCACAAGTCAGTGGCACCCT
63 CCACAACTCT-GTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCT
*
429875 TCCAAAGTCCA
1 TTCAAAGTCCA
429886 TAAGTCAGTG
Statistics
Matches: 376, Mismatches: 63, Indels: 25
0.81 0.14 0.05
Matches are distributed among these distances:
108 3 0.01
109 77 0.20
110 231 0.61
111 28 0.07
112 16 0.04
113 21 0.06
ACGTcount: A:0.24, C:0.32, G:0.14, T:0.29
Consensus pattern (109 bp):
TTCAAAGTCCACAACTCTGTGGCATCCTTTTAAATCCACAACTCCGTGGCACCCTTTTAAGTCCA
CAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCT
Found at i:429610 original size:137 final size:137
Alignment explanation
Indices: 429355--429849 Score: 559
Period size: 137 Copynumber: 3.6 Consensus size: 137
429345 ATTTCTTTTC
* * * *
429355 AAAGTCCACAACTCCGTGGTAT-CTTTTCAAGTCCACAACTCCATGACATCCTTTTAAAGTCCAC
1 AAAGTCCACAACTCCGTGGCATCCTTTTCAAGTCCACAACTCCATGGCACCCTTTCAAAGTCCAC
* * *
429419 AACTCTGTGGCACCCTTTCAAAGTCCACCACTCTGTGGCATCCTTTTAAATCCACAACTCCGTGG
66 AACTCTGTGGCACCCTTTTAAA-TCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGG
429484 CACCCTTT
130 CACCCTTT
* * * * *
429492 AAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACCACTCCGTGGCACCCTTTCAAAGTCCAC
1 AAAGTCCACAACTCCGTGGCATCCTTTTCAAGTCCACAACTCCATGGCACCCTTTCAAAGTCCAC
* * * *
429557 CATTCTGTGGCACCTTTTTAAATTCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGC
66 AACTCTGTGGCACCCTTTTAAATCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGC
429622 ACCCTTT
131 ACCCTTT
* * *** *
429629 TAAGTCCACAACTCCGTGGCATCCGTTTCAAGTCCACAACTCCATGGCGTTCTTTTAAAGTCCAC
1 AAAGTCCACAACTCCGTGGCATCCTTTTCAAGTCCACAACTCCATGGCACCCTTTCAAAGTCCAC
** * * *
429694 AACTCCATGGTACCCTTTTAAGTCCACAACT-TCATGGCA-CTCTTTTAAGTCCACAACTCCGTG
66 AACTCTGTGGCACCCTTTTAAATCCACAACTCT-GTGGCATC-CTTTTAAGTCCACAACTCCGTG
* * *
429757 ACATCTTTT
129 GCACCCTTT
* * * * * * * *
429766 TAAGTCCACAACTTCGTGGCATCCTTTTTAAGCCCACAAGT-TAGTGGCACCCTTCCGAAGTCCA
1 AAAGTCCACAACTCCGTGGCATCCTTTTCAAGTCCACAACTCCA-TGGCACCCTTTCAAAGTCCA
*
429830 CAACT-TCGTGGCATCCTTTT
65 CAACTCT-GTGGCACCCTTTT
429850 TAAGCCCACA
Statistics
Matches: 298, Mismatches: 55, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
136 3 0.01
137 241 0.81
138 54 0.18
ACGTcount: A:0.24, C:0.33, G:0.14, T:0.29
Consensus pattern (137 bp):
AAAGTCCACAACTCCGTGGCATCCTTTTCAAGTCCACAACTCCATGGCACCCTTTCAAAGTCCAC
AACTCTGTGGCACCCTTTTAAATCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGC
ACCCTTT
Found at i:429812 original size:28 final size:28
Alignment explanation
Indices: 429781--430615 Score: 628
Period size: 28 Copynumber: 28.4 Consensus size: 28
429771 CCACAACTTC
** *
429781 GTGGCATCCTTTTTAAGCCCACAAGTTA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* * * * *
429809 GTGGCACCCTTCCGAAGTCCACAACTTC-
1 GTGGCATCCTTTCAAAGCCCACAA-GTCA
**
429837 GTGGCATCCTTTTTAAGCCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* * * *
429865 GTGGCACCCTTCCAAAGTCCATAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* **
429893 GTGGCACCCCTTTTTAAGCCCACAAGTCA
1 GTGGCA-TCCTTTCAAAGCCCACAAGTCA
**
429922 GTGGCATTATTTCAAAGCCCACACAAGTCA
1 GTGGCATCCTTTCAAAG-CC-CACAAGTCA
* * *
429952 ATGGCAACTCATTTGAAAGCCCACAAAAGTCA
1 GTGGC-A-TCCTTTCAAAGCCCAC--AAGTCA
* * *
429984 GTGGCAACCCATTTCAAAGCCAACATAAGTCG
1 GTGGC-ATCC-TTTCAAAGCC--CACAAGTCA
* * *
430016 GTGGCAACCCATTTGAAAGCCCACACAAGTCG
1 GTGGC-ATCC-TTTCAAAG-CC-CACAAGTCA
* * *
430048 GTGGTAACCCATTTCAAAGCCGACAAGTCA
1 GTGG-CATCC-TTTCAAAGCCCACAAGTCA
*
430078 GTGGCATCCTTCTCAAAGCCCATAAGTCA
1 GTGGCATCCTT-TCAAAGCCCACAAGTCA
*
430107 GTGGCATCCTTCTCAAAGCCCACACAAATCA
1 GTGGCATCCTT-TCAAAG-CC-CACAAGTCA
*
430138 GTGGCATCCTTTCAAAGCCCATAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
*
430166 ATGGCATCCTTTCAAAGCCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
430194 GTGGCATCCTTCTCAAAGCCCACAAGTCA
1 GTGGCATCCTT-TCAAAGCCCACAAGTCA
* *
430223 ATGGCATCCTTCTCAAAGCCCACAAATCA
1 GTGGCATCCTT-TCAAAGCCCACAAGTCA
*
430252 GTGGCATCTTTTCAAAGCCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* *
430280 GTGGCATCCTTCTTAAAGCCCACACAAGTCG
1 GTGGCATCCTT-TCAAAG-CC-CACAAGTCA
* * *
430311 GTGGCAACTCTTTTCAAAGCCCATAAGTTA
1 GTGGC-A-TCCTTTCAAAGCCCACAAGTCA
*
430341 GTGACAT-CTCTTCAAAAGCCCAC-A---A
1 GTGGCATCCT-TTC-AAAGCCCACAAGTCA
* *
430366 GTGGCACCCTTTCAAAGCCCACACAAGTCG
1 GTGGCATCCTTTCAAAG-CC-CACAAGTCA
* * *
430396 GTGGCAACTCTTTTCAAAGCCCATAAGTTA
1 GTGGC-A-TCCTTTCAAAGCCCACAAGTCA
*
430426 GTGGCAT-CTCTTCAAAAGACCC-CAAGTTA
1 GTGGCATCCT-TTC-AAAG-CCCACAAGTCA
*
430455 GTGGCATCCTTTCAAAGCCCACAAGTCG
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* *
430483 GTCGCATACCTTTTCAAAGCCCATAAGTC-
1 GTGGCAT-CC-TTTCAAAGCCCACAAGTCA
* * *
430512 GATGGCACCCTTTGAAAGCCCACATAAGTCG
1 G-TGGCATCCTTTCAAAGCCCAC--AAGTCA
*
430543 GTGGCAACTCTTTTCAAAGCCCACAAGTCA
1 GTGGC-A-TCCTTTCAAAGCCCACAAGTCA
* *
430573 GTGCCATCCCCTTTCAAAGCCCACATAAGTTA
1 GTGGCAT--CCTTTCAAAGCCCAC--AAGTCA
430605 GTGGCA-CCTTT
1 GTGGCATCCTTT
430616 TTTTAAAGCC
Statistics
Matches: 659, Mismatches: 97, Indels: 101
0.77 0.11 0.12
Matches are distributed among these distances:
24 4 0.01
25 11 0.02
26 5 0.01
27 8 0.01
28 179 0.27
29 163 0.25
30 121 0.18
31 44 0.07
32 116 0.18
33 6 0.01
34 2 0.00
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.23
Consensus pattern (28 bp):
GTGGCATCCTTTCAAAGCCCACAAGTCA
Found at i:429919 original size:29 final size:28
Alignment explanation
Indices: 429404--430612 Score: 608
Period size: 28 Copynumber: 42.0 Consensus size: 28
429394 TCCATGACAT
* * * *
429404 CCTTTTAAAGTCCACAACTCTGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * * * *
429432 CCTTTCAAAGTCCACCACTCTGTGGCAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * * *
429460 CCTTTTAAA-TCCACAACTCCGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
429487 CCTTT-AAAGTCCACAACTCTGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * * * *
429514 CCTTTTAAAGTCCACCACTCCGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * * *
429542 CCTTTCAAAGTCCACCATTCTGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * ** * * *
429570 CTTTTTAAA-TTCACAACTCTGTGGCAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * * *
429597 CCTTT-TAAGTCCACAACTCCGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * * *
429624 CCTTT-TAAGTCCACAACTCCGTGGCATC
1 CCTTTCAAAGCCCACAAGTCAGTGGCA-C
* * * **
429652 CGTTTC-AAGTCCACAACTCCA-TGGCGT
1 CCTTTCAAAGCCCACAAGT-CAGTGGCAC
* * * * *
429679 TCTTTTAAAGTCCACAACTCCA-TGGTAC
1 CCTTTCAAAGCCCACAAGT-CAGTGGCAC
* * *
429707 CCTTT-TAAGTCCACAACTTCA-TGGCAC
1 CCTTTCAAAGCCCACAA-GTCAGTGGCAC
* * * * * *
429734 TCTTT-TAAGTCCACAACTCCGTGACA-
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* ** * * *
429760 TCTTTTTAAGTCCACAACTTC-GTGGCAT
1 CCTTTCAAAGCCCACAA-GTCAGTGGCAC
** *
429788 CCTTTTTAAGCCCACAAGTTAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * * * *
429816 CCTTCCGAAGTCCACAACTTC-GTGGCAT
1 CCTTTCAAAGCCCACAA-GTCAGTGGCAC
**
429844 CCTTTTTAAGCCCACAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
429872 CCTTCCAAAGTCCATAAGTCAGTGGCACC
1 CCTTTCAAAGCCCACAAGTCAGTGGCA-C
** *
429901 CCTTTTTAAGCCCACAAGTCAGTGGCAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
** *
429929 TATTTCAAAGCCCACACAAGTCAATGGCAAC
1 CCTTTCAAAG-CC-CACAAGTCAGTGGC-AC
* *
429960 TCATTTGAAAGCCCACAAAAGTCAGTGGCAAC
1 -CCTTTCAAAGCCCAC--AAGTCAGTGGC-AC
* *
429992 CCATTTCAAAGCCAACATAAGTCGGTGGCAAC
1 CC-TTTCAAAGCC--CACAAGTCAGTGGC-AC
* * *
430024 CCATTTGAAAGCCCACACAAGTCGGTGGTAAC
1 CC-TTTCAAAG-CC-CACAAGTCAGTGG-CAC
* *
430056 CCATTTCAAAGCCGACAAGTCAGTGGCAT
1 CC-TTTCAAAGCCCACAAGTCAGTGGCAC
* *
430085 CCTTCTCAAAGCCCATAAGTCAGTGGCAT
1 CCTT-TCAAAGCCCACAAGTCAGTGGCAC
* *
430114 CCTTCTCAAAGCCCACACAAATCAGTGGCAT
1 CCTT-TCAAAG-CC-CACAAGTCAGTGGCAC
* * *
430145 CCTTTCAAAGCCCATAAGTCAATGGCAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
*
430173 CCTTTCAAAGCCCACAAGTCAGTGGCAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* *
430201 CCTTCTCAAAGCCCACAAGTCAATGGCAT
1 CCTT-TCAAAGCCCACAAGTCAGTGGCAC
* *
430230 CCTTCTCAAAGCCCACAAATCAGTGGCAT
1 CCTT-TCAAAGCCCACAAGTCAGTGGCAC
* *
430259 CTTTTCAAAGCCCACAAGTCAGTGGCAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* *
430287 CCTTCTTAAAGCCCACACAAGTCGGTGGCAAC
1 CCTT-TCAAAG-CC-CACAAGTCAGTGGC-AC
* * * *
430319 TCTTTTCAAAGCCCATAAGTTAGTGACA-
1 -CCTTTCAAAGCCCACAAGTCAGTGGCAC
*
430347 TCTCTTCAAAAGCCCAC-A---AGTGGCAC
1 CCT-TTC-AAAGCCCACAAGTCAGTGGCAC
*
430373 CCTTTCAAAGCCCACACAAGTCGGTGGCAAC
1 CCTTTCAAAG-CC-CACAAGTCAGTGGC-AC
* * *
430404 TCTTTTCAAAGCCCATAAGTTAGTGGCA-
1 -CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
430432 TCTCTTCAAAAGACCC-CAAGTTAGTGGCAT
1 CCT-TTC-AAAG-CCCACAAGTCAGTGGCAC
* *
430462 CCTTTCAAAGCCCACAAGTCGGTCGCATAC
1 CCTTTCAAAGCCCACAAGTCAGTGGC--AC
* *
430492 CTTTTCAAAGCCCATAAGTC-GATGGCAC
1 CCTTTCAAAGCCCACAAGTCAG-TGGCAC
* *
430520 CCTTTGAAAGCCCACATAAGTCGGTGGCAAC
1 CCTTTCAAAGCCCAC--AAGTCAGTGGC-AC
* *
430551 TCTTTTCAAAGCCCACAAGTCAGTGCCATCC
1 -CCTTTCAAAGCCCACAAGTCAGTGGCA--C
*
430582 CCTTTCAAAGCCCACATAAGTTAGTGGCAC
1 CCTTTCAAAGCCCAC--AAGTCAGTGGCAC
430612 C
1 C
430613 TTTTTTTAAA
Statistics
Matches: 968, Mismatches: 149, Indels: 126
0.78 0.12 0.10
Matches are distributed among these distances:
24 4 0.00
25 11 0.01
26 17 0.02
27 165 0.17
28 323 0.33
29 154 0.16
30 124 0.13
31 47 0.05
32 116 0.12
33 5 0.01
34 2 0.00
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.25
Consensus pattern (28 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCAC
Found at i:429976 original size:32 final size:30
Alignment explanation
Indices: 429781--430615 Score: 511
Period size: 29 Copynumber: 28.4 Consensus size: 30
429771 CCACAACTTC
** *
429781 GTGGCATCCTTTTTAAG-CC-CACAAGTTA
1 GTGGCATCCTTTCAAAGCCCACACAAGTCA
* * * * **
429809 GTGGCACCCTTCCGAAGTCCACA-ACTTC-
1 GTGGCATCCTTTCAAAGCCCACACAAGTCA
**
429837 GTGGCATCCTTTTTAAG-CC-CACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACACAAGTCA
* * * *
429865 GTGGCACCCTTCCAAAG-TC-CATAAGTCA
1 GTGGCATCCTTTCAAAGCCCACACAAGTCA
* **
429893 GTGGCACCCCTTTTTAAG-CC-CACAAGTCA
1 GTGGCA-TCCTTTCAAAGCCCACACAAGTCA
**
429922 GTGGCATTATTTCAAAGCCCACACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACACAAGTCA
* * * *
429952 ATGGCAACTCATTTGAAAGCCCACAAAAGTCA
1 GTGGC-A-TCCTTTCAAAGCCCACACAAGTCA
* * * *
429984 GTGGCAACCCATTTCAAAGCCAACATAAGTCG
1 GTGGC-ATCC-TTTCAAAGCCCACACAAGTCA
* * *
430016 GTGGCAACCCATTTGAAAGCCCACACAAGTCG
1 GTGGC-ATCC-TTTCAAAGCCCACACAAGTCA
* * *
430048 GTGGTAACCCATTTCAAAG-CC-GACAAGTCA
1 GTGG-CATCC-TTTCAAAGCCCACACAAGTCA
*
430078 GTGGCATCCTTCTCAAAG-CC-CATAAGTCA
1 GTGGCATCCTT-TCAAAGCCCACACAAGTCA
*
430107 GTGGCATCCTTCTCAAAGCCCACACAAATCA
1 GTGGCATCCTT-TCAAAGCCCACACAAGTCA
*
430138 GTGGCATCCTTTCAAAG-CC-CATAAGTCA
1 GTGGCATCCTTTCAAAGCCCACACAAGTCA
*
430166 ATGGCATCCTTTCAAAG-CC-CACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACACAAGTCA
430194 GTGGCATCCTTCTCAAAG-CC-CACAAGTCA
1 GTGGCATCCTT-TCAAAGCCCACACAAGTCA
*
430223 ATGGCATCCTTCTCAAAGCCCACA-AA-TCA
1 GTGGCATCCTT-TCAAAGCCCACACAAGTCA
*
430252 GTGGCATCTTTTCAAAG-CC-CACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACACAAGTCA
* *
430280 GTGGCATCCTTCTTAAAGCCCACACAAGTCG
1 GTGGCATCCTT-TCAAAGCCCACACAAGTCA
* * *
430311 GTGGCAACTCTTTTCAAAG-CC-CATAAGTTA
1 GTGGC-A-TCCTTTCAAAGCCCACACAAGTCA
*
430341 GTGACAT-CTCTTCAAAAG-CC-CAC-A---A
1 GTGGCATCCT-TTC-AAAGCCCACACAAGTCA
* *
430366 GTGGCACCCTTTCAAAGCCCACACAAGTCG
1 GTGGCATCCTTTCAAAGCCCACACAAGTCA
* * *
430396 GTGGCAACTCTTTTCAAAG-CC-CATAAGTTA
1 GTGGC-A-TCCTTTCAAAGCCCACACAAGTCA
* *
430426 GTGGCAT-CTCTTCAAAAGACC-C-CAAGTTA
1 GTGGCATCCT-TTC-AAAGCCCACACAAGTCA
*
430455 GTGGCATCCTTTCAAAG-CC-CACAAGTCG
1 GTGGCATCCTTTCAAAGCCCACACAAGTCA
* *
430483 GTCGCATACCTTTTCAAAG-CC-CATAAGTC-
1 GTGGCAT-CC-TTTCAAAGCCCACACAAGTCA
* * * *
430512 GATGGCACCCTTTGAAAGCCCACATAAGTCG
1 G-TGGCATCCTTTCAAAGCCCACACAAGTCA
*
430543 GTGGCAACTCTTTTCAAAG-CC-CACAAGTCA
1 GTGGC-A-TCCTTTCAAAGCCCACACAAGTCA
* * *
430573 GTGCCATCCCCTTTCAAAGCCCACATAAGTTA
1 GTGGCAT--CCTTTCAAAGCCCACACAAGTCA
430605 GTGGCA-CCTTT
1 GTGGCATCCTTT
430616 TTTTAAAGCC
Statistics
Matches: 656, Mismatches: 99, Indels: 103
0.76 0.12 0.12
Matches are distributed among these distances:
24 4 0.01
25 11 0.02
26 9 0.01
27 15 0.02
28 156 0.24
29 161 0.25
30 124 0.19
31 48 0.07
32 124 0.19
33 4 0.01
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.23
Consensus pattern (30 bp):
GTGGCATCCTTTCAAAGCCCACACAAGTCA
Found at i:430462 original size:232 final size:226
Alignment explanation
Indices: 429891--430597 Score: 606
Period size: 232 Copynumber: 3.0 Consensus size: 226
429881 GTCCATAAGT
** * ** *
429891 CAGTGGCACCCCTTTTTAAGCCCACAAGTCAGTGGCATTATTTCAAAGCCCACACAAGTCAATGG
1 CAGTGGCA-CCCTTTCAAAGCCCACAAGTCAATGGCATCCTTTCAAAG-CC-CACAAGTCAGTGG
* * * * * * *
429956 CAACTCATT-TGAAAGCCCACAAAAGTCAGTGGCAACCCATTTCAAAGCCAACATAAGTCGGTGG
63 C-A-TCCTTCTAAAAGCCCAC--AAGTCAATGGC-ATCC-TTTCAAAGCCCACA-AA-TCAGTCG
* * * * * * *
430020 CA-ACCCATTTGAAAGCCCACACAAGTCGGTGGTAACCCATTTCAAAG-CC-GACAAGTCAGTGG
120 CATA--CTTTTCAAAG-CC-CACAAGTCGATGG-CACCC-TTTGAAAGCCCACACAAGTCGGTGG
* * *
430082 CATC-CTTCTCAAAGCCCATAAGTCAGTGGCATCCTTCTCAAAGCCCACACAAA
179 CAACTCTTTTCAAAGCCCATAAGTCAGTGACATCC-T-TCAAAG-CC-CAC--A
* *
430135 TCAGTGGCATCCTTTCAAAGCCCATAAGTCAATGGCATCCTTTCAAAGCCCACAAGTCAGTGGCA
1 -CAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGCATCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
430200 TCCTTCTCAAAGCCCACAAGTCAATGGCATCCTTCTCAAAGCCCACAAATCAGTGGCAT-CTTTT
65 TCCTTCTAAAAGCCCACAAGTCAATGGCATCCTT-TCAAAGCCCACAAATCAGTCGCATACTTTT
* *
430264 CAAAGCCCACAAGTC-AGTGGCATCCTTCTTAAAGCCCACACAAGTCGGTGGCAACTCTTTTCAA
129 CAAAGCCCACAAGTCGA-TGGCACCCTT-TGAAAGCCCACACAAGTCGGTGGCAACTCTTTTCAA
*
430328 AGCCCATAAGTTAGTGACATCTCTTCAAAAGCCCACA
192 AGCCCATAAGTCAGTGACATC-CTTC-AAAGCCCACA
** * * *
430365 -AGTGGCACCCTTTCAAAGCCCACACAAGTCGGTGGCAACTCTTTTCAAAGCCCATAAGTTAGTG
1 CAGTGGCACCCTTTCAAAG-CC-CACAAGTCAATGGC-A-TCCTTTCAAAGCCCACAAGTCAGTG
* * * *
430429 GCATCTCTTC-AAAAGACCC-CAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCGGTCGCATAC
62 GCATC-CTTCTAAAAG-CCCACAAGTCAATGGCATCCTTTCAAAGCCCACAAATCAGTCGCATA-
* *
430492 CTTTTCAAAGCCCATAAGTCGATGGCACCCTTTGAAAGCCCACATAAGTCGGTGGCAACTCTTTT
124 CTTTTCAAAGCCCACAAGTCGATGGCACCCTTTGAAAGCCCACACAAGTCGGTGGCAACTCTTTT
* *
430557 CAAAGCCCACAAGTCAGTGCCATCCCCTTTCAAAGCCCACA
189 CAAAGCCCATAAGTCAGTGACAT--CC-TTCAAAGCCCACA
430598 TAAGTTAGTG
Statistics
Matches: 394, Mismatches: 46, Indels: 56
0.79 0.09 0.11
Matches are distributed among these distances:
228 17 0.04
229 2 0.01
230 14 0.04
231 30 0.08
232 114 0.29
233 66 0.17
234 44 0.11
235 1 0.00
236 8 0.02
237 4 0.01
238 14 0.04
239 10 0.03
240 4 0.01
241 11 0.03
242 13 0.03
243 2 0.01
244 32 0.08
245 8 0.02
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (226 bp):
CAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGCATCCTTTCAAAGCCCACAAGTCAGTGGCAT
CCTTCTAAAAGCCCACAAGTCAATGGCATCCTTTCAAAGCCCACAAATCAGTCGCATACTTTTCA
AAGCCCACAAGTCGATGGCACCCTTTGAAAGCCCACACAAGTCGGTGGCAACTCTTTTCAAAGCC
CATAAGTCAGTGACATCCTTCAAAGCCCACA
Found at i:430541 original size:147 final size:146
Alignment explanation
Indices: 429856--430615 Score: 576
Period size: 147 Copynumber: 5.1 Consensus size: 146
429846 TTTTTAAGCC
* * * * * *
429856 CACAAGTCAGTGGCACCCTTCCAAAGTCCATAAGTCAGTGGCACCCCTTTT-TAAGCCCACAAGT
1 CACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGT-GCA-TCCTTTTCAAAGCCCACAAGT
*** ** * *
429920 C-AGTGGCATTATTTCAAAGCCCACACAAGTCAATGGCAACTCATTTGAAAGCCCACAAAAGTCA
64 CGA-TGGCACCCTTTCAAAGCCCACA-AAGTCGGTGGCAACTCTTTTCAAAGCCCAC--AAGTCA
* *
429984 GTGGCAACCCATT-TCAAAG-CCAA
125 GTGGC-ATCC-TTCTAAAAGACC-A
* * * * * * * * *
430007 CATAAGTCGGTGGCAACCCATTTGAAAGCCCACACAAGTCGGTGGTAACCCATTTCAAAGCCGAC
1 CACAAGTCAGTGGC-ATCC-TTTCAAAG-CC-CACAAGTCAGT-G-CATCCTTTTCAAAGCCCAC
* * * * *
430072 AAGTC-AGTGGCATCCTTCTCAAAGCCCA-TAAGTCAGTGGCATC-CTTCTCAAAGCCCACACAA
60 AAGTCGA-TGGCACCCTT-TCAAAGCCCACAAAGTCGGTGGCAACTCTTTTCAAAG-CC-CACAA
* *
430134 ATCAGTGGCATCCTT-TCAAAG-CC-
121 GTCAGTGGCATCCTTCTAAAAGACCA
* * *
430157 CATAAGTCAATGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTC
1 CACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGT-GCATCCTTTTCAAAGCCCACAAGTC
* * *
430222 AATGGCATCCTTCTCAAAGCCCACAAA-TCAGTGGC-A-TCTTTTCAAAGCCCACAAGTCAGTGG
65 GATGGCACCCTT-TCAAAGCCCACAAAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGG
* *
430284 CATCCTTCTTAAAGCCCA
129 CATCCTTCTAAAAGACCA
* * * * *
430302 CACAAGTCGGTGGCAACTCTTTTCAAAGCCCATAAGTTAGTGACAT-CTCTTCAAAAGCCCACAA
1 CACAAGTCAGTGGC-A-TCCTTTCAAAGCCCACAAGTCAGTG-CATCCTTTTC-AAAGCCCACAA
* *
430366 ---G-TGGCACCCTTTCAAAGCCCACACAAGTCGGTGGCAACTCTTTTCAAAGCCCATAAGTTAG
62 GTCGATGGCACCCTTTCAAAGCCCACA-AAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAG
430427 TGGCATCTCTTC-AAAAGACC-
126 TGGCATC-CTTCTAAAAGACCA
* * *
430447 C-CAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCGGTCGCATACCTTTTCAAAGCCCATAAGT
1 CACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGT-GCAT-CCTTTTCAAAGCCCACAAGT
*
430511 CGATGGCACCCTTTGAAAGCCCACATAAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTG
64 CGATGGCACCCTTTCAAAGCCCACA-AAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTG
* * *
430576 CCATCCCCTT-TCAAAGCCCA
128 GCAT--CCTTCTAAAAGACCA
* *
430596 CATAAGTTAGTGGCA-CCTTT
1 CACAAGTCAGTGGCATCCTTT
430616 TTTTAAAGCC
Statistics
Matches: 506, Mismatches: 67, Indels: 74
0.78 0.10 0.11
Matches are distributed among these distances:
142 54 0.11
143 30 0.06
144 33 0.07
145 61 0.12
146 56 0.11
147 102 0.20
148 16 0.03
149 10 0.02
150 24 0.05
151 12 0.02
152 14 0.03
153 9 0.02
154 18 0.04
155 31 0.06
156 26 0.05
157 10 0.02
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.22
Consensus pattern (146 bp):
CACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGCATCCTTTTCAAAGCCCACAAGTCG
ATGGCACCCTTTCAAAGCCCACAAAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCA
TCCTTCTAAAAGACCA
Found at i:430647 original size:62 final size:61
Alignment explanation
Indices: 429851--430653 Score: 469
Period size: 57 Copynumber: 13.5 Consensus size: 61
429841 CATCCTTTTT
* * * * *
429851 AAGCCCACAAGTC-AGTGGC-ACCCTTCCAAAG-TC-CATAAGTCAGTGGCACCCCTTTT-T
1 AAGCCCACAAGTCGA-TGGCAACCCTTTCAAAGCCCACATAAGTCAGTGGCAACTCTTTTCA
*** * * * *
429908 AAGCCCACAAGTC-AGTGGC-ATTATTTCAAAGCCCACACAAGTCAATGGCAACTCATTTGA
1 AAGCCCACAAGTCGA-TGGCAACCCTTTCAAAGCCCACATAAGTCAGTGGCAACTCTTTTCA
* * * * *
429968 AAGCCCACAAAAGTC-AGTGGCAACCCATTTCAAAGCCAACATAAGTCGGTGGCAACCCATTTGA
1 AAGCCCAC--AAGTCGA-TGGCAACCC-TTTCAAAGCCCACATAAGTCAGTGGCAACTCTTTTCA
* * * * *
430032 AAGCCCACACAAGTCGGTGGTAACCCATTTCAAAGCCGAC--AAGTCAGTGGCATC-CTTCTCA
1 AAG-CC-CACAAGTCGATGGCAACCC-TTTCAAAGCCCACATAAGTCAGTGGCAACTCTTTTCA
* * * * *
430093 AAGCCCATAAGTC-AGTGGC-ATCCTTCTCAAAGCCCACACAAATCAGTGGC-A-TCCTTTCA
1 AAGCCCACAAGTCGA-TGGCAACCCTT-TCAAAGCCCACATAAGTCAGTGGCAACTCTTTTCA
* * * * *
430152 AAGCCCATAAGTCAATGGC-ATCCTTTCAAAGCCCAC--AAGTCAGTGGCATC-CTTCTCA
1 AAGCCCACAAGTCGATGGCAACCCTTTCAAAGCCCACATAAGTCAGTGGCAACTCTTTTCA
* *
430209 AAGCCCACAAGTCAATGGC-ATCCTTCTCAAAGCCCACA-AA-TCAGTGGC-A-TCTTTTCA
1 AAGCCCACAAGTCGATGGCAACCCTT-TCAAAGCCCACATAAGTCAGTGGCAACTCTTTTCA
* * * *
430266 AAGCCCACAAGTC-AGTGGC-ATCCTTCTTAAAGCCCACACAAGTCGGTGGCAACTCTTTTCA
1 AAGCCCACAAGTCGA-TGGCAACCCTT-TCAAAGCCCACATAAGTCAGTGGCAACTCTTTTCA
* * * * * *
430327 AAGCCCATAAGT-TAGTGACATCTC-TTCAAAAGCCCAC---A---AGTGGC-AC-CCTTTCA
1 AAGCCCACAAGTCGA-TGGCAACCCTTTC-AAAGCCCACATAAGTCAGTGGCAACTCTTTTCA
* * * *
430380 AAGCCCACACAAGTCGGTGGCAACTCTTTTCAAAG-CC-CATAAGTTAGTGGC-A-TCTCTTCAA
1 AAG-CC-CACAAGTCGATGGCAAC-CCTTTCAAAGCCCACATAAGTCAGTGGCAACTCTTTTC-A
* * * *
430441 AAGACCC-CAAGT-TAGTGGC-ATCCTTTCAAAGCCCAC--AAGTCGGTCGCATAC-CTTTTCA
1 AAG-CCCACAAGTCGA-TGGCAACCCTTTCAAAGCCCACATAAGTCAGTGGCA-ACTCTTTTCA
* * *
430499 AAGCCCATAAGTCGATGGC-ACCCTTTGAAAGCCCACATAAGTCGGTGGCAACTCTTTTCA
1 AAGCCCACAAGTCGATGGCAACCCTTTCAAAGCCCACATAAGTCAGTGGCAACTCTTTTCA
* * * * * *
430559 AAGCCCACAAGTC-AGTGCCATCCCCTTTCAAAGCCCACATAAGTTAGTGGCACCTTTTTTTA
1 AAGCCCACAAGTCGA-TGGCA-ACCCTTTCAAAGCCCACATAAGTCAGTGGCAACTCTTTTCA
*
430621 AAGCCTAGCAAGTCGATGGCAACCCTTTTCAAA
1 AAGCCCA-CAAGTCGATGGCAACCC-TTTCAAA
430654 TCACCACTTT
Statistics
Matches: 599, Mismatches: 88, Indels: 112
0.75 0.11 0.14
Matches are distributed among these distances:
53 9 0.02
54 5 0.01
55 18 0.03
56 15 0.03
57 123 0.21
58 77 0.13
59 85 0.14
60 68 0.11
61 47 0.08
62 67 0.11
63 18 0.03
64 62 0.10
65 2 0.00
66 3 0.01
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (61 bp):
AAGCCCACAAGTCGATGGCAACCCTTTCAAAGCCCACATAAGTCAGTGGCAACTCTTTTCA
Found at i:430945 original size:48 final size:48
Alignment explanation
Indices: 430688--430933 Score: 318
Period size: 48 Copynumber: 5.2 Consensus size: 48
430678 CCGATACCGT
* * * * * *
430688 TGGCCTTGAATCAGCATATTG-GCACCTTT--ATTAGCTCATTGTAGC
1 TGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATGTCGC
* * * * * * *
430733 TAGCCTTAAATCAACACATTATCCACGTTTCCCTCAGCTCAATGTCAC
1 TGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATGTCGC
*
430781 TGGCCTTGAATCAGCACATTATCCACTTTTCCCTTAGCTCAATGTCGC
1 TGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATGTCGC
430829 TGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATGTCGC
1 TGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATGTCGC
* *
430877 TGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCGATGTCGT
1 TGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATGTCGC
*
430925 TAGCCTTGA
1 TGGCCTTGA
430934 TTTGGTACAT
Statistics
Matches: 176, Mismatches: 22, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
45 16 0.09
46 6 0.03
48 154 0.88
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (48 bp):
TGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATGTCGC
Found at i:431681 original size:20 final size:20
Alignment explanation
Indices: 431656--431709 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
431646 TACCCAGATA
*
431656 TATCGATACATTTTTCAATG
1 TATCGATACATTCTTCAATG
431676 TATCGATACATTCTTCAATG
1 TATCGATACATTCTTCAATG
*
431696 TATCGATAAATTCT
1 TATCGATACATTCT
431710 GTCTTTTTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.31, C:0.17, G:0.09, T:0.43
Consensus pattern (20 bp):
TATCGATACATTCTTCAATG
Found at i:431751 original size:20 final size:20
Alignment explanation
Indices: 431726--431763 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
431716 TTACCTAGAA
431726 AATGTATCGATACATTCTTC
1 AATGTATCGATACATTCTTC
431746 AATGTATCGATACATTCT
1 AATGTATCGATACATTCT
431764 GTCTTTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTCTTC
Found at i:431754 original size:54 final size:52
Alignment explanation
Indices: 431672--431794 Score: 203
Period size: 54 Copynumber: 2.3 Consensus size: 52
431662 TACATTTTTC
431672 AATGTATCGATACATTCTTCAATGTATCGATAAATTCTGTCTTTTTACCTAG
1 AATGTATCGATACATTCTTCAATGTATCGATAAATTCTGTCTTTTTACCTAG
* *
431724 AAAATGTATCGATACATTCTTCAATGTATCGATACATTCTGTCTTTTTTCCTAG
1 --AATGTATCGATACATTCTTCAATGTATCGATAAATTCTGTCTTTTTACCTAG
431778 -ATGTATCGATACATTCT
1 AATGTATCGATACATTCT
431795 GTCTTTTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
51 17 0.25
54 50 0.75
ACGTcount: A:0.28, C:0.18, G:0.11, T:0.42
Consensus pattern (52 bp):
AATGTATCGATACATTCTTCAATGTATCGATAAATTCTGTCTTTTTACCTAG
Found at i:431785 original size:31 final size:31
Alignment explanation
Indices: 431747--431823 Score: 145
Period size: 31 Copynumber: 2.5 Consensus size: 31
431737 ACATTCTTCA
431747 ATGTATCGATACATTCTGTCTTTTTTCCTAG
1 ATGTATCGATACATTCTGTCTTTTTTCCTAG
431778 ATGTATCGATACATTCTGTCTTTTTTCCTAG
1 ATGTATCGATACATTCTGTCTTTTTTCCTAG
*
431809 ATGTATTGATACATT
1 ATGTATCGATACATT
431824 TTTCAATGCA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.22, C:0.17, G:0.13, T:0.48
Consensus pattern (31 bp):
ATGTATCGATACATTCTGTCTTTTTTCCTAG
Found at i:432282 original size:21 final size:21
Alignment explanation
Indices: 432258--432311 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
432248 CTAGCTCCCT
*
432258 ATTTTCTTTAACCTATCCCAC
1 ATTTTCTTCAACCTATCCCAC
432279 ATTTTCTTCAACCTATCCCAC
1 ATTTTCTTCAACCTATCCCAC
432300 ATTTTCTTCAAC
1 ATTTTCTTCAAC
432312 AACATCATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.24, C:0.33, G:0.00, T:0.43
Consensus pattern (21 bp):
ATTTTCTTCAACCTATCCCAC
Found at i:434316 original size:95 final size:95
Alignment explanation
Indices: 434077--434309 Score: 376
Period size: 95 Copynumber: 2.5 Consensus size: 95
434067 TTTATTCATT
* *
434077 GGGGACACTCCAACCCCATGCCTCTGAGGGGATACTCCTACCCCATTTTTAAACTTGCCAAGATC
1 GGGGACACTCCAACCCCATGCCTCCGAGGGGATACTCCAACCCCATTTTTAAACTTGCCAAGATC
*
434142 ATCCTTACTTTTACCTAAATTATCATTTTC
66 ATCCTTACTTTTACCTAAATTATCATTGTC
* *
434172 GGGGACATTCCAACCACATGCCTCCGAGGGGATACTCCAACCCCATTTTTAAACTTGCCAAGATC
1 GGGGACACTCCAACCCCATGCCTCCGAGGGGATACTCCAACCCCATTTTTAAACTTGCCAAGATC
* *
434237 ATTCTTATTTTTACCTAAATTATCATTGTC
66 ATCCTTACTTTTACCTAAATTATCATTGTC
* * *
434267 GGGGACACTCCAACCCCATTCCTCCAAGGGGATACTACAACCC
1 GGGGACACTCCAACCCCATGCCTCCGAGGGGATACTCCAACCC
434310 TGTTTTTCGA
Statistics
Matches: 126, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
95 126 1.00
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.28
Consensus pattern (95 bp):
GGGGACACTCCAACCCCATGCCTCCGAGGGGATACTCCAACCCCATTTTTAAACTTGCCAAGATC
ATCCTTACTTTTACCTAAATTATCATTGTC
Found at i:436230 original size:9 final size:9
Alignment explanation
Indices: 436216--436253 Score: 76
Period size: 9 Copynumber: 4.2 Consensus size: 9
436206 TTTGACTTGA
436216 CATTGGTTT
1 CATTGGTTT
436225 CATTGGTTT
1 CATTGGTTT
436234 CATTGGTTT
1 CATTGGTTT
436243 CATTGGTTT
1 CATTGGTTT
436252 CA
1 CA
436254 ACTTGATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.13, C:0.13, G:0.21, T:0.53
Consensus pattern (9 bp):
CATTGGTTT
Found at i:438413 original size:31 final size:31
Alignment explanation
Indices: 438375--438451 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
438365 TACATTGTTT
*
438375 AATGTATCGATACA-CATGGGTAAAAAGACAG
1 AATGTATCGATACATC-TGGATAAAAAGACAG
* *
438406 AATGTATCGATATATCTGGATAAAAAGACAT
1 AATGTATCGATACATCTGGATAAAAAGACAG
*
438437 AATATATCGATACAT
1 AATGTATCGATACAT
438452 TCATACATGT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
31 39 0.98
32 1 0.03
ACGTcount: A:0.45, C:0.12, G:0.17, T:0.26
Consensus pattern (31 bp):
AATGTATCGATACATCTGGATAAAAAGACAG
Found at i:439367 original size:89 final size:87
Alignment explanation
Indices: 439228--439391 Score: 213
Period size: 89 Copynumber: 1.9 Consensus size: 87
439218 CGGACATGCA
*** * *
439228 TGAAATGATGCAAATGCAAGCATCAATAAAGTTGGAAATGCCTATGAAATGATGCAAATACCAAT
1 TGAAATGATGCAAATGCAAGCATCAATAAAAAAGCAAATGCCTATGAAATGATGCAAATACAAAT
439293 GTCATCTAAAATGCAACTATAGG
66 GTCATC-AAAATGCAACTATAGG
* * *
439316 TGAAATGATGCAAATGTAGGGATCAATAAAAAAAGCAAATGCAC-ATGAAATGATGCAAATACAA
1 TGAAATGATGCAAATGCAAGCATCAAT-AAAAAAGCAAATGC-CTATGAAATGATGCAAATACAA
*
439380 ATGTTATCAAAA
64 ATGTCATCAAAA
439392 CTATGAATGT
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
88 28 0.43
89 36 0.55
90 1 0.02
ACGTcount: A:0.47, C:0.13, G:0.18, T:0.23
Consensus pattern (87 bp):
TGAAATGATGCAAATGCAAGCATCAATAAAAAAGCAAATGCCTATGAAATGATGCAAATACAAAT
GTCATCAAAATGCAACTATAGG
Found at i:439409 original size:89 final size:88
Alignment explanation
Indices: 439223--439445 Score: 204
Period size: 89 Copynumber: 2.5 Consensus size: 88
439213 TGGTGCGGAC
*** *
439223 ATGCATGAAATGATGCAAATGCAAGCATCAATAAAGTTGGAAATGCCTATGAAATGATGCAAATA
1 ATGCATGAAATGATGCAAATGCAAGCATCAATAAAAAAGCAAATGCCTATGAAATGATGCAAATA
* *
439288 CCAATGTCATCTAAAATGCAACT
66 CAAATGTCATCAAAAATGCAACT
* * * *
439311 ATAG-GTGAAATGATGCAAATGTAGGGATCAATAAAAAAAGCAAATGCAC-ATGAAATGATGCAA
1 AT-GCATGAAATGATGCAAATGCAAGCATCAAT-AAAAAAGCAAATGC-CTATGAAATGATGCAA
*
439374 ATACAAATGTTATCAAAACTATG-AA-T
63 ATACAAATGTCATCAAAA--ATGCAACT
* * * * **
439400 GTGCATGAAATGACGTAATTGCGAA-CATCAATAAAAGGGCAAATGC
1 ATGCATGAAATGATGCAAATGC-AAGCATCAATAAAAAAGCAAATGC
439446 ATATTAAAAT
Statistics
Matches: 107, Mismatches: 21, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
88 39 0.36
89 61 0.57
90 4 0.04
91 3 0.03
ACGTcount: A:0.45, C:0.13, G:0.19, T:0.22
Consensus pattern (88 bp):
ATGCATGAAATGATGCAAATGCAAGCATCAATAAAAAAGCAAATGCCTATGAAATGATGCAAATA
CAAATGTCATCAAAAATGCAACT
Found at i:440766 original size:19 final size:18
Alignment explanation
Indices: 440742--440805 Score: 53
Period size: 18 Copynumber: 3.6 Consensus size: 18
440732 TATTTCCTCG
440742 TCTTTTTCTTTCATTTTTC
1 TCTTTTTCTTTCA-TTTTC
* *
440761 TCTTTTT-TTGCACTTTC
1 TCTTTTTCTTTCATTTTC
* *
440778 T-TTTTTATTTGAGTTTT-
1 TCTTTTTCTTTCA-TTTTC
440795 TCTTTTTCTTT
1 TCTTTTTCTTT
440806 TTCTTCTTCT
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
16 5 0.14
17 9 0.25
18 15 0.42
19 7 0.19
ACGTcount: A:0.06, C:0.16, G:0.05, T:0.73
Consensus pattern (18 bp):
TCTTTTTCTTTCATTTTC
Found at i:440802 original size:6 final size:6
Alignment explanation
Indices: 440791--440840 Score: 52
Period size: 6 Copynumber: 8.8 Consensus size: 6
440781 TTTATTTGAG
* * *
440791 TTTTTC TTTTTC TTTTTC TTCTTC -TTTTG TTTTTG TTTTT- TTTTT-
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
440836 TTTTT
1 TTTTT
440841 GGGTTTGTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
5 13 0.32
6 27 0.68
ACGTcount: A:0.00, C:0.10, G:0.04, T:0.86
Consensus pattern (6 bp):
TTTTTC
Found at i:444623 original size:155 final size:155
Alignment explanation
Indices: 444327--444625 Score: 359
Period size: 155 Copynumber: 1.9 Consensus size: 155
444317 CTAAGTTCAA
* * * **
444327 AAAAATTACGAAAATACCCTTAGGGATAACTTCGACGTAAAAGTACCTGATATCCCTAAACGATT
1 AAAAATTACGAAAATACCCTAAGCGATAACTTCGACGTAAAAGTACCTGATACCCCTAAACGACA
* * * *
444392 TAAAAAAGATTACAAACTGGGATGAACCTATCCTAAATGCCCACATTCAACATAAAAGCAGACCT
66 TAAAAAAGATTACAAACTGGGATGAACCTATCCTAAATACCCACAGTCAACATAAAAGCAAACCC
*
444457 GATGACGACCTAGGAGTTGGTTTTG
131 GATGACAACCTAGGAGTTGGTTTTG
* * * ** *
444482 AAAAATTATGAAAATGCCCCTAAGCGATACCTTCGACGTGGAAGTACCTGATACCCCTAAAGGAC
1 AAAAATTACGAAAAT-ACCCTAAGCGATAACTTCGACGTAAAAGTACCTGATACCCCTAAACGAC
* * * **
444547 AT-AAAAAGAATTATAGA-TGGGATGACCCTATCCTAAATACCCACAGTCGGCATAAAAGCAAAC
65 ATAAAAAAG-ATTACAAACTGGGATGAACCTATCCTAAATACCCACAGTCAACATAAAAGCAAAC
* *
444610 CCGGTGATAACCTAGG
129 CCGATGACAACCTAGG
444626 CTCTACTCTA
Statistics
Matches: 119, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
155 72 0.61
156 47 0.39
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.22
Consensus pattern (155 bp):
AAAAATTACGAAAATACCCTAAGCGATAACTTCGACGTAAAAGTACCTGATACCCCTAAACGACA
TAAAAAAGATTACAAACTGGGATGAACCTATCCTAAATACCCACAGTCAACATAAAAGCAAACCC
GATGACAACCTAGGAGTTGGTTTTG
Found at i:444694 original size:155 final size:153
Alignment explanation
Indices: 444482--444826 Score: 363
Period size: 154 Copynumber: 2.2 Consensus size: 153
444472 GTTGGTTTTG
** * * * * * *
444482 AAAAATTATGAAAATGCCCCTAAGCGATACCTTCGACGTGGAAGTACCTGATACCCCTAAAGGAC
1 AAAAATTACAAAAATACCCCTGAGGGATACCTTCGACATGGAACTACCCGATACCCCTAAAGGAC
* * * ***
444547 ATAAAAAGAATTA-TAGATGGGATGACCCTATCCTAAATACCCACAGTCGGCATAAAAGCAAACC
66 ATAAAAAG-ACTAGAAAAT-GG-TGAAAATATCCTAAATACCCACAGTCGGCATAAAAGCAAACC
** *
444611 CGGTGATAACCTAGG-CTCTACTCTA
128 CAATGATAACCTAGGACTCGACTCTA
* * * *
444636 AAAAATTACAAAAATA-CTCTTAGGGAATACCTTCGACATGTAACTATCCCGATTCCCCTAAAGG
1 AAAAATTACAAAAATACCCCTGAGGG-ATACCTTCGACATGGAACTA-CCCGATACCCCTAAAGG
* ** ** *
444700 ACTTAAAAAGACTAGAAAATGGTGAAAATATCCTAAATACCCACCTTCGGCATAAAAGCGGACTC
64 ACATAAAAAGACTAGAAAATGGTGAAAATATCCTAAATACCCACAGTCGGCATAAAAGCAAACCC
* *
444765 AATGATAACCTAGGACTCGATTTTA
129 AATGATAACCTAGGACTCGACTCTA
444790 AAAAATTACAAAAATACCCCTGAGGGATACCTTCGAC
1 AAAAATTACAAAAATACCCCTGAGGGATACCTTCGAC
444827 GTGAAAGTGC
Statistics
Matches: 156, Mismatches: 30, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
153 53 0.34
154 69 0.44
155 34 0.22
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.22
Consensus pattern (153 bp):
AAAAATTACAAAAATACCCCTGAGGGATACCTTCGACATGGAACTACCCGATACCCCTAAAGGAC
ATAAAAAGACTAGAAAATGGTGAAAATATCCTAAATACCCACAGTCGGCATAAAAGCAAACCCAA
TGATAACCTAGGACTCGACTCTA
Found at i:447357 original size:20 final size:20
Alignment explanation
Indices: 447334--447376 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
447324 GAGTTTCAAA
447334 GAAAA-AAATCAAAAATGAAT
1 GAAAATAAAT-AAAAATGAAT
* *
447354 GAAAATGAATGAAAATGAAT
1 GAAAATAAATAAAAATGAAT
447374 GAA
1 GAA
447377 TTTTTGAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 17 0.85
21 3 0.15
ACGTcount: A:0.65, C:0.02, G:0.16, T:0.16
Consensus pattern (20 bp):
GAAAATAAATAAAAATGAAT
Found at i:447358 original size:10 final size:10
Alignment explanation
Indices: 447345--447376 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
447335 AAAAAAATCA
447345 AAAATGAATG
1 AAAATGAATG
447355 AAAATGAATG
1 AAAATGAATG
447365 AAAATGAATG
1 AAAATGAATG
447375 AA
1 AA
447377 TTTTTGAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.62, C:0.00, G:0.19, T:0.19
Consensus pattern (10 bp):
AAAATGAATG
Found at i:447574 original size:170 final size:168
Alignment explanation
Indices: 447169--447763 Score: 650
Period size: 170 Copynumber: 3.5 Consensus size: 168
447159 GAATTTCAAC
* * * *
447169 AAAAAAATCCAAAACTCATGAAAATTAATTAATTTTTTAAAACTAAATTAATATG-AATCAAATG
1 AAAAAAATCAAAAACTCATGAAAATGAATGAATTTTTGAAAACTAAATTAATATGAAAT-AAATG
** *
447233 ATGATGTTTGATGAATTCTAAAAATTGAAAACTGAGAAAAAT-CATCTC-AAAAAATTTACGGAG
65 ATGATGTTTGATGAATT-TAAAAATTGAAAACCAAGAAAAATCCCT-TCAAAAAAATTTACGGAG
** * * * *
447296 CGGAAAACACCATATTTAGG-AAAAAAGGGAGTTTCAAAGAAAAA
128 TAGAAAATACCGTATTTAGGAAAAAAAGGAAGTTTC-AAG---GA
* * * * *
447340 AATCAAAAATGAATGAAAATGAATGAAAATGAATGAATTTTTGAGAACTAAATTAATGTGAAATA
1 AA--AAAAATCAA--AAACT-CATGAAAATGAATGAATTTTTGAAAACTAAATTAATATGAAATA
* *
447405 AATAATGATGTTTGATGAATTTAAAAAATTAAAAACCAAGAAAAATCCCTTCGAAAAAAATTTAC
61 AATGATGATGTTTGATGAATTT-AAAAATTGAAAACCAAGAAAAATCCCTTC-AAAAAAATTTAC
* * *
447470 GGAGTAAAAAATACCGTATTTCGGAAAAAAAGAAAGTTTCAAGGA
124 GGAGTAGAAAATACCGTATTTAGGAAAAAAAGGAAGTTTCAAGGA
*
447515 AAAAAAATCAAAAACTCATGAAAGTGAATGAATTTTTGAAAACTAAATTAATATGAAATAAATGA
1 AAAAAAATCAAAAACTCATGAAAATGAATGAATTTTTGAAAACTAAATTAATATGAAATAAATGA
* * *
447580 TTATGTTTAATGAATTTTAAAAATTGAAAACCAAGAAAAATTCCC-TCAAAAAAATTTACGGAAT
66 TGATGTTTGATGAA-TTTAAAAATTGAAAACCAAGAAAAA-TCCCTTCAAAAAAATTTACGGAGT
* *
447644 AGAAAATACTGTATTTTA-GAAAAAAAGGGCAGTTTCAA-G-
129 AGAAAATACCGTA-TTTAGGAAAAAAA-GGAAGTTTCAAGGA
* * * *
447683 -AAAAAATCAAAAGCTCATGAAAATGAATGAATTATTGAAAAATGAATTAATATGAAATAAATGA
1 AAAAAAATCAAAAACTCATGAAAATGAATGAATTTTTGAAAACTAAATTAATATGAAATAAATGA
* *
447747 TAATATTTGATGAATTT
66 TGATGTTTGATGAATTT
447764 TGATGCATAA
Statistics
Matches: 362, Mismatches: 47, Indels: 35
0.82 0.11 0.08
Matches are distributed among these distances:
166 3 0.01
167 70 0.19
169 36 0.10
170 91 0.25
171 13 0.04
173 15 0.04
175 8 0.02
176 76 0.21
177 5 0.01
178 32 0.09
179 13 0.04
ACGTcount: A:0.52, C:0.08, G:0.13, T:0.27
Consensus pattern (168 bp):
AAAAAAATCAAAAACTCATGAAAATGAATGAATTTTTGAAAACTAAATTAATATGAAATAAATGA
TGATGTTTGATGAATTTAAAAATTGAAAACCAAGAAAAATCCCTTCAAAAAAATTTACGGAGTAG
AAAATACCGTATTTAGGAAAAAAAGGAAGTTTCAAGGA
Found at i:451446 original size:16 final size:16
Alignment explanation
Indices: 451427--451463 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
451417 AACATCATTT
*
451427 TTTTGAAACATGTATA
1 TTTTGAAACATGAATA
*
451443 TTTTGAATCATGAATA
1 TTTTGAAACATGAATA
451459 TTTTG
1 TTTTG
451464 GTAAGACAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.49
Consensus pattern (16 bp):
TTTTGAAACATGAATA
Found at i:452449 original size:15 final size:15
Alignment explanation
Indices: 452429--452463 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
452419 AATTTCCTCT
*
452429 AAAAAAGAAAAAAGA
1 AAAAAACAAAAAAGA
*
452444 AAAAAACAAAAATGA
1 AAAAAACAAAAAAGA
452459 AAAAA
1 AAAAA
452464 TGCAAAAGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.86, C:0.03, G:0.09, T:0.03
Consensus pattern (15 bp):
AAAAAACAAAAAAGA
Found at i:453222 original size:112 final size:111
Alignment explanation
Indices: 453017--453232 Score: 258
Period size: 112 Copynumber: 1.9 Consensus size: 111
453007 ATTTTTTAGC
* * *
453017 CCTACAACATCAGATTTGCTTGATTTTAGAAGAAACTCACACTTTATACATTTCGATCCATTCAT
1 CCTACAACATCAAATTTGATTGATTTTAGAAGAAACTCACACTTTATACATTTCGACCCATTCAT
* * * *
453082 GTCTAGGAAATAGAGCACGTATCTTATCAATTTTGAAATCTTTGAG
66 GCCTAGGAAATAGAGCACGCACCCTATCAATTTTGAAATCTTTGAG
* * *
453128 CCTAGCAACATCAAATTT-ATTGGATTTT-GAAGGAAACTTATATTTTATACA-TTCTGACCCAT
1 CCTA-CAACATCAAATTTGATT-GATTTTAGAA-GAAACTCACACTTTATACATTTC-GACCCAT
* * *
453190 TCATGCCTAGGAAATGGGGCATGCACCCTATCAATTTTGAAAT
62 TCATGCCTAGGAAATAGAGCACGCACCCTATCAATTTTGAAAT
453233 TTCTAAGCCC
Statistics
Matches: 88, Mismatches: 13, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
111 12 0.14
112 76 0.86
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.34
Consensus pattern (111 bp):
CCTACAACATCAAATTTGATTGATTTTAGAAGAAACTCACACTTTATACATTTCGACCCATTCAT
GCCTAGGAAATAGAGCACGCACCCTATCAATTTTGAAATCTTTGAG
Found at i:454322 original size:90 final size:90
Alignment explanation
Indices: 454144--454710 Score: 714
Period size: 90 Copynumber: 6.3 Consensus size: 90
454134 TTATTAACTC
* *
454144 CTAGATGGTATTGATGCATCACAAAGTCTAATTTCCATGAGGCAAGGTGCAGCCCACACACTT-C
1 CTAGATGGTATTGATGCATCACAAAGCCTAATTTCCATGGGGCAAGGTGCAGCCCACACA-TTCC
* * *
454208 TAATCGTATCCCC-TCTTTCTCAACCA
65 CAATCATATCCCCTTC-ATCTCAACCA
* * *
454234 CTAGATGGTATTGATGCATCACAAAGCCTAATTTCCTTTGGGGTAAGGTGCAGCCCACATATTCC
1 CTAGATGGTATTGATGCATCACAAAGCCTAATTTCC-ATGGGGCAAGGTGCAGCCCACACATTCC
*
454299 TAATCATATCCCCTTCATC-CAACCA
65 CAATCATATCCCCTTCATCTCAACCA
* * * *
454324 CTAGATGGTATTGATGCATCACAAAGTCTAATTTCCATGGGGAAAGGTGCAGCCTACACACTCCC
1 CTAGATGGTATTGATGCATCACAAAGCCTAATTTCCATGGGGCAAGGTGCAGCCCACACATTCCC
* ** *
454389 AATCGTATCCCCTTTTTCTTAACCA
66 AATCATATCCCCTTCATCTCAACCA
* * *
454414 CTAGATGGTATTGATGCATCATAAAGCCTGATTTCCTTTGGGGCAAGGTGCAGCCCACACATTCC
1 CTAGATGGTATTGATGCATCACAAAGCCTAATTTCC-ATGGGGCAAGGTGCAGCCCACACATTCC
* *
454479 CAATCACATCTCCTTCATC-CAACCA
65 CAATCATATCCCCTTCATCTCAACCA
* * * * *
454504 CTAGATAGTATTGATGCATCACAAAGTCTAATTTCCATGGGGCAAGGTGTAGCCCATACACTCCC
1 CTAGATGGTATTGATGCATCACAAAGCCTAATTTCCATGGGGCAAGGTGCAGCCCACACATTCCC
* *
454569 AATCGTATCCCC-TCTTTCTCAACCA
66 AATCATATCCCCTTC-ATCTCAACCA
* * * * * *
454594 CTAGATGGTATTGATGCATCACAAAACCTGATTTCCTTTGAGGTAAGGTGCAACCCACACATTCC
1 CTAGATGGTATTGATGCATCACAAAGCCTAATTTCC-ATGGGGCAAGGTGCAGCCCACACATTCC
454659 CAATCATATCCCCTTCATCT-AACCA
65 CAATCATATCCCCTTCATCTCAACCA
*
454684 CTAGATGGTTTTGATGCATCACAAAGC
1 CTAGATGGTATTGATGCATCACAAAGC
454711 TGATATACTT
Statistics
Matches: 410, Mismatches: 58, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
88 2 0.00
89 74 0.18
90 221 0.54
91 109 0.27
92 4 0.01
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (90 bp):
CTAGATGGTATTGATGCATCACAAAGCCTAATTTCCATGGGGCAAGGTGCAGCCCACACATTCCC
AATCATATCCCCTTCATCTCAACCA
Found at i:454450 original size:180 final size:180
Alignment explanation
Indices: 454144--454709 Score: 934
Period size: 180 Copynumber: 3.1 Consensus size: 180
454134 TTATTAACTC
* * *
454144 CTAGATGGTATTGATGCATCACAAAGTCTAATTTCCATGAGGCAAGGTGCAGCCCACACACTTCT
1 CTAGATGGTATTGATGCATCACAAAGTCTAATTTCCATGGGGCAAGGTGCAGCCCACACACTCCC
*
454209 AATCGTATCCCCTCTTTCTCAACCACTAGATGGTATTGATGCATCACAAAGCCTAATTTCCTTTG
66 AATCGTATCCCCTCTTTCTCAACCACTAGATGGTATTGATGCATCACAAAGCCTGATTTCCTTTG
* *
454274 GGGTAAGGTGCAGCCCACATATTCCTAATCATATCCCCTTCATCCAACCA
131 GGGTAAGGTGCAGCCCACACATTCCCAATCATATCCCCTTCATCCAACCA
* *
454324 CTAGATGGTATTGATGCATCACAAAGTCTAATTTCCATGGGGAAAGGTGCAGCCTACACACTCCC
1 CTAGATGGTATTGATGCATCACAAAGTCTAATTTCCATGGGGCAAGGTGCAGCCCACACACTCCC
* * *
454389 AATCGTATCCCCTTTTTCTTAACCACTAGATGGTATTGATGCATCATAAAGCCTGATTTCCTTTG
66 AATCGTATCCCCTCTTTCTCAACCACTAGATGGTATTGATGCATCACAAAGCCTGATTTCCTTTG
* * *
454454 GGGCAAGGTGCAGCCCACACATTCCCAATCACATCTCCTTCATCCAACCA
131 GGGTAAGGTGCAGCCCACACATTCCCAATCATATCCCCTTCATCCAACCA
* * *
454504 CTAGATAGTATTGATGCATCACAAAGTCTAATTTCCATGGGGCAAGGTGTAGCCCATACACTCCC
1 CTAGATGGTATTGATGCATCACAAAGTCTAATTTCCATGGGGCAAGGTGCAGCCCACACACTCCC
*
454569 AATCGTATCCCCTCTTTCTCAACCACTAGATGGTATTGATGCATCACAAAACCTGATTTCCTTTG
66 AATCGTATCCCCTCTTTCTCAACCACTAGATGGTATTGATGCATCACAAAGCCTGATTTCCTTTG
* * *
454634 AGGTAAGGTGCAACCCACACATTCCCAATCATATCCCCTTCATCTAACCA
131 GGGTAAGGTGCAGCCCACACATTCCCAATCATATCCCCTTCATCCAACCA
*
454684 CTAGATGGTTTTGATGCATCACAAAG
1 CTAGATGGTATTGATGCATCACAAAG
454710 CTGATATACT
Statistics
Matches: 355, Mismatches: 31, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
180 355 1.00
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (180 bp):
CTAGATGGTATTGATGCATCACAAAGTCTAATTTCCATGGGGCAAGGTGCAGCCCACACACTCCC
AATCGTATCCCCTCTTTCTCAACCACTAGATGGTATTGATGCATCACAAAGCCTGATTTCCTTTG
GGGTAAGGTGCAGCCCACACATTCCCAATCATATCCCCTTCATCCAACCA
Found at i:455062 original size:36 final size:36
Alignment explanation
Indices: 455014--455094 Score: 101
Period size: 36 Copynumber: 2.3 Consensus size: 36
455004 ACCGTTTAAT
* * ** *
455014 TGTATCTTGTCAAACTTTTTTTGTCCCTTATTTGAC
1 TGTATCTGGTCAAACTCTTTTCATCCCTCATTTGAC
*
455050 TGTATCTGGTCAAACTCTTTTCATCCCTCGTTTGAC
1 TGTATCTGGTCAAACTCTTTTCATCCCTCATTTGAC
455086 TGTAT-TGGT
1 TGTATCTGGT
455095 GTTAGGGCTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
35 4 0.10
36 35 0.90
ACGTcount: A:0.16, C:0.21, G:0.15, T:0.48
Consensus pattern (36 bp):
TGTATCTGGTCAAACTCTTTTCATCCCTCATTTGAC
Found at i:455132 original size:48 final size:48
Alignment explanation
Indices: 455056--455165 Score: 159
Period size: 48 Copynumber: 2.3 Consensus size: 48
455046 TGACTGTATC
* *
455056 TGGTCAAACTCTTTTCATCCCTCGTTTGACTGTATTGGTGTTAGGGCT
1 TGGTCAAACTCTTCTCATCCCTCGTTTGACTGTATTGGTCTTAGGGCT
* * *
455104 TGGTTAAACTCTTCTCATCCCTCGTTTGACTGTATTGGTCTTAGGACC
1 TGGTCAAACTCTTCTCATCCCTCGTTTGACTGTATTGGTCTTAGGGCT
*
455152 TAGTCAAACT-TTCT
1 TGGTCAAACTCTTCT
455166 TTCTTTCTAT
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
47 4 0.07
48 51 0.93
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.41
Consensus pattern (48 bp):
TGGTCAAACTCTTCTCATCCCTCGTTTGACTGTATTGGTCTTAGGGCT
Found at i:455230 original size:44 final size:44
Alignment explanation
Indices: 455179--455291 Score: 113
Period size: 44 Copynumber: 2.6 Consensus size: 44
455169 TTTCTATCTA
* **
455179 ACGTATGGTTACCACCCTGGTCAGATTCT-TTTCATTT-CAATTTG
1 ACGTATGGTTACCACCCTGGTCA-AATCTGCCTC-TTTCCAATTTG
* * * * *
455223 ATGTATGGTTGCCACTCTAGTCAAATCTGCCTCTTTCCTATTTG
1 ACGTATGGTTACCACCCTGGTCAAATCTGCCTCTTTCCAATTTG
*
455267 ACGTATGGTTATCACCCTGGTCAAA
1 ACGTATGGTTACCACCCTGGTCAAA
455292 CAATTTGCAT
Statistics
Matches: 54, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
43 7 0.13
44 47 0.87
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (44 bp):
ACGTATGGTTACCACCCTGGTCAAATCTGCCTCTTTCCAATTTG
Found at i:455531 original size:42 final size:43
Alignment explanation
Indices: 455369--455537 Score: 135
Period size: 43 Copynumber: 4.0 Consensus size: 43
455359 ATACTTTAAT
* * * * ** *
455369 CTTAAGTCTGCCTATTAGCTTTAATCTTGGAGACTT-TCTCACC
1 CTTAAGTCTGCCCATCAGCTTTGACCCGGGAGACTTCT-TTACC
* * * *
455412 CTTAAGTTTGCCCATCGGCTTTGACCCTGGAGACTTCTTCACC
1 CTTAAGTCTGCCCATCAGCTTTGACCCGGGAGACTTCTTTACC
** * **
455455 CTTAAGTCTGCCCATCAGCTCAGACCTGAAAGACTTCTTTA-C
1 CTTAAGTCTGCCCATCAGCTTTGACCCGGGAGACTTCTTTACC
** * *
455497 CTTTTGTCTGCCCGTTAGCTTTGACCCGGGAGACTTCTTTA
1 CTTAAGTCTGCCCATCAGCTTTGACCCGGGAGACTTCTTTA
455538 TTTTTTATCT
Statistics
Matches: 100, Mismatches: 25, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
42 33 0.33
43 66 0.66
44 1 0.01
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.35
Consensus pattern (43 bp):
CTTAAGTCTGCCCATCAGCTTTGACCCGGGAGACTTCTTTACC
Found at i:455633 original size:84 final size:84
Alignment explanation
Indices: 455472--455676 Score: 200
Period size: 84 Copynumber: 2.4 Consensus size: 84
455462 CTGCCCATCA
* **
455472 GCTCAGACCTGAAAGACTTCTTTACCTTTTGTCTGCCCGTTAGCTTTGACCCGGGAGACTTCTTT
1 GCTCAGACCTGAAAGACTTCTTCACCTTTTGTCTGCCCGTTAGCTCAGACCCGGGAGACTTCTTT
* *
455537 ATTTTTTATCTACCTATCG
66 ATATTCTATCTACCTATCG
* ** * * *
455556 GCTCAGA-CTCGAGAGACTTCTTCATTTTTTGTCTGCCCGTTGGCTCAGACCTGGGAGACTTTTT
1 GCTCAGACCT-GAAAGACTTCTTCACCTTTTGTCTGCCCGTTAGCTCAGACCCGGGAGACTTCTT
*
455620 TATCATTCT-TCTACC-ATCA
65 TAT-ATTCTATCTACCTATCG
* ** * * *
455639 GCTTAGACCTGGGAGGCTTCCTTCATCTTTCGTCTGCC
1 GCTCAGACCTGAAAGACTT-CTTCACCTTTTGTCTGCC
455677 TATCGACTTA
Statistics
Matches: 100, Mismatches: 17, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
83 18 0.18
84 79 0.79
85 3 0.03
ACGTcount: A:0.17, C:0.27, G:0.19, T:0.38
Consensus pattern (84 bp):
GCTCAGACCTGAAAGACTTCTTCACCTTTTGTCTGCCCGTTAGCTCAGACCCGGGAGACTTCTTT
ATATTCTATCTACCTATCG
Found at i:456021 original size:42 final size:42
Alignment explanation
Indices: 455420--456090 Score: 171
Period size: 42 Copynumber: 16.0 Consensus size: 42
455410 CCCTTAAGTT
** * * * *
455420 TGCCCATCGGCTTTGACCCTGG-AGACTTCTTCACCCTTAAGTC
1 TGCCCATCGGCTCAGACTC-GGAAGACTTCTTCATCTTTCA-TC
* * * * **
455463 TGCCCATCAGCTCAGAC-CTGAAAGACTTCTTTACCTTTTGTC
1 TGCCCATCGGCTCAGACTC-GGAAGACTTCTTCATCTTTCATC
* ** ** * * * * *
455505 TGCCCGTTAGCTTTGACCCGGGAGACTTCTTTATTTTTTATC
1 TGCCCATCGGCTCAGACTCGGAAGACTTCTTCATCTTTCATC
* * * **
455547 TACCTATCGGCTCAGACTC-GAGAGACTTCTTCATTTTTTGTC
1 TGCCCATCGGCTCAGACTCGGA-AGACTTCTTCATCTTTCATC
* * * * * * *
455589 TGCCCGTTGGCTCAGAC-CTGGGAGACTTTTTTATCATTCTTC
1 TGCCCATCGGCTCAGACTC-GGAAGACTTCTTCATCTTTCATC
* * * * * *
455631 T-ACCATCAGCTTAGAC-CTGGGAGGCTTCCTTCATCTTTCGTC
1 TGCCCATCGGCTCAGACTC-GGAAGACTT-CTTCATCTTTCATC
* * * * ** * **
455673 TGCCTATCGACTTAG-CCCGGGTGACTTCTTTATCTTTTGTC
1 TGCCCATCGGCTCAGACTCGGAAGACTTCTTCATCTTTCATC
* * ** * **
455714 T-ACCGTCGGCTTTGAC-CTGAAGACTTCCTTCATCAATCATC
1 TGCCCATCGGCTCAGACTCGGAAGACTT-CTTCATCTTTCATC
* * * *
455755 TGCCCGTCGGCTCAGACTCGAAAGATTTCTTCATCTTTCGTC
1 TGCCCATCGGCTCAGACTCGGAAGACTTCTTCATCTTTCATC
* * * * ** * * *
455797 TACCCGTCAGCTCAAAC-CCAAGAGACTCCTTTATCATTCATC
1 TGCCCATCGGCTCAGACTCGGA-AGACTTCTTCATCTTTCATC
** * * ** *
455839 TGCCCATCAACTTAGACCTAC-G-AGACTTTCTTCATTTTTTGTT
1 TGCCCATCGGCTCAGA-CT-CGGAAGAC-TTCTTCATCTTTCATC
** * * * * * *** *
455882 TGCCTGTTGGTTTAGACTTGGGAGACTTCTTCATCCACCGTC
1 TGCCCATCGGCTCAGACTCGGAAGACTTCTTCATCTTTCATC
* * * * *
455924 TGCTCATCGGTTTAGACCCCGG-AGACTTCTTCATTTTTCATC
1 TGCCCATCGGCTCAGA-CTCGGAAGACTTCTTCATCTTTCATC
* * * * *
455966 TGCCCGTCAGCTCAAACTTGGAAGACTTCTTCATCTTTCTTC
1 TGCCCATCGGCTCAGACTCGGAAGACTTCTTCATCTTTCATC
* * ** * *
456008 TACCCATTGGCTCAGACTCGGTTGATTTCTTCATCTTTCGTC
1 TGCCCATCGGCTCAGACTCGGAAGACTTCTTCATCTTTCATC
* * *
456050 TGTCCATCGGCTTAGACTCGGGAGACTTCCTTCATCTTTCA
1 TGCCCATCGGCTCAGACTCGGAAGACTT-CTTCATCTTTCA
456091 GTTTAGACCT
Statistics
Matches: 453, Mismatches: 153, Indels: 44
0.70 0.24 0.07
Matches are distributed among these distances:
40 15 0.03
41 52 0.11
42 300 0.66
43 85 0.19
45 1 0.00
ACGTcount: A:0.18, C:0.29, G:0.17, T:0.36
Consensus pattern (42 bp):
TGCCCATCGGCTCAGACTCGGAAGACTTCTTCATCTTTCATC
Found at i:456277 original size:42 final size:42
Alignment explanation
Indices: 456231--456328 Score: 117
Period size: 42 Copynumber: 2.3 Consensus size: 42
456221 TAAACCTGGA
* * *
456231 AGACTTCTTCATCTC-TGAACTACCCGTCAGTTTAGACTCAGG
1 AGACTTCTTCATCTCTTG-ACTACCCATCAGTTTAGACCCAAG
**
456273 AGACTTCTTCATCTCTTGACTGTCCATCAGTTTAGACCCAAG
1 AGACTTCTTCATCTCTTGACTACCCATCAGTTTAGACCCAAG
*
456315 AAACTTCCTTCATC
1 AGACTT-CTTCATC
456329 AATCGTCTGC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
42 39 0.81
43 9 0.19
ACGTcount: A:0.24, C:0.30, G:0.13, T:0.33
Consensus pattern (42 bp):
AGACTTCTTCATCTCTTGACTACCCATCAGTTTAGACCCAAG
Found at i:456760 original size:84 final size:85
Alignment explanation
Indices: 456543--456964 Score: 320
Period size: 84 Copynumber: 5.0 Consensus size: 85
456533 TCATCCATTG
* * * * * *
456543 TTCACCTGTCAGCTTGGT-CTCAGGTACTTCCTTTTATCTTTTGTTAACTTGTTGATCCAATC-C
1 TTCACCCGTCGGCTTGGTCCT-AGGTAATTCCTTTTATCTTTTGTTGACTTGTCGATCTAATCTC
* *
456606 GGTTAACTTCTTTATCTTTTA
65 GGTCAACTTCTTTATCCTTTA
* * * * * * * * ** * *
456627 TTTAGCCGTCGACCTAGTCATGGGTAAAT-CTTTTATCCCTCGTTGACTTGTCGATTTAATCTCG
1 TTCACCCGTCGGCTTGGTCCTAGGTAATTCCTTTTATCTTTTGTTGACTTGTCGATCTAATCTCG
*
456691 ATCAACTT-TTTATCCTTTA
66 GTCAACTTCTTTATCCTTTA
** * *
456710 TTCACTTGTCGGCTTGGTCCTAGGTACTTCCTTTTATCTTTTGTTAACTTGTC-AGTCTAATCTC
1 TTCACCCGTCGGCTTGGTCCTAGGTAATTCCTTTTATCTTTTGTTGACTTGTCGA-TCTAATCTC
* *
456774 GATCAACTTCTTTATCCTTTG
65 GGTCAACTTCTTTATCCTTTA
* * * * * * * ** * * * * *
456795 TTTACCCATCAGCCTAGT-CTCGGGTAAATCC-TTTATCCCTCGTTGACTTGTAGGTTTAATCTT
1 TTCACCCGTCGGCTTGGTCCT-AGGTAATTCCTTTTATCTTTTGTTGACTTGTCGATCTAATCTC
*
456858 GGTCAACTT-TTTATCCTTCA
65 GGTCAACTTCTTTATCCTTTA
* * * * * * *
456878 TTCACCCGTTGGCTTGGTCTTAGGTATTTCCTTTTATATTTTATTGACTTGTCCATCCAATCTCG
1 TTCACCCGTCGGCTTGGTCCTAGGTAATTCCTTTTATCTTTTGTTGACTTGTCGATCTAATCTCG
456943 GTCAACTTCTTTATCCTTTA
66 GTCAACTTCTTTATCCTTTA
456963 TT
1 TT
456965 TACTTGTAGG
Statistics
Matches: 247, Mismatches: 81, Indels: 19
0.71 0.23 0.05
Matches are distributed among these distances:
83 82 0.33
84 124 0.50
85 41 0.17
ACGTcount: A:0.18, C:0.23, G:0.14, T:0.45
Consensus pattern (85 bp):
TTCACCCGTCGGCTTGGTCCTAGGTAATTCCTTTTATCTTTTGTTGACTTGTCGATCTAATCTCG
GTCAACTTCTTTATCCTTTA
Found at i:456992 original size:168 final size:166
Alignment explanation
Indices: 456543--457039 Score: 561
Period size: 168 Copynumber: 3.0 Consensus size: 166
456533 TCATCCATTG
* * * *
456543 TTCACCTGTCAGCTTGGTCTCAGGTACTTCCTTTTATCTTTTGTTAACTTGTTGATCCAATC-CG
1 TTCACCCGTCGGCTTGGTCTTAGGTACTTCCTTTTATCTTTTGTTAACTTG-TCATCCAATCTCG
* * * * *
456607 GTTAACTTCTTTATCTTTTATTTAGCCGTCGACCTAGTCATGGGTAAATCTTTTATCCCTCGTTG
65 GTCAACTTCTTTATCCTTTATTTA-CCGTAGGCCTAGTCTTGGGTAAATCTTTTATCCCTCGTTG
* *
456672 ACTTGTCGATTTAATCTCGATCAACTTTTTATCCTTTA
129 ACTTGTAGATTTAATCTCGATCAACTTTTTATCCTTCA
** * *
456710 TTCACTTGTCGGCTTGGTCCTAGGTACTTCCTTTTATCTTTTGTTAACTTGTCAGTCTAATCTCG
1 TTCACCCGTCGGCTTGGTCTTAGGTACTTCCTTTTATCTTTTGTTAACTTGTCA-TCCAATCTCG
* * * * *
456775 ATCAACTTCTTTATCCTTTGTTTACCCATCA-GCCTAGTCTCGGGTAAATCCTTTATCCCTCGTT
65 GTCAACTTCTTTATCCTTTATTTA-CCGT-AGGCCTAGTCTTGGGTAAATCTTTTATCCCTCGTT
* * *
456839 GACTTGTAGGTTTAATCTTGGTCAACTTTTTATCCTTCA
128 GACTTGTAGATTTAATCTCGATCAACTTTTTATCCTTCA
* * * * *
456878 TTCACCCGTTGGCTTGGTCTTAGGTATTTCCTTTTATATTTTATTGACTTGTCCATCCAATCTCG
1 TTCACCCGTCGGCTTGGTCTTAGGTACTTCCTTTTATCTTTTGTTAACTTGT-CATCCAATCTCG
* * * * *
456943 GTCAACTTCTTTATCCTTTATTTACTTGTAGGCTTAGTCTTGAGTAAATCTTTTATCCATTGTTG
65 GTCAACTTCTTTATCCTTTATTTAC-CGTAGGCCTAGTCTTGGGTAAATCTTTTATCCCTCGTTG
* * *
457008 A-TTCGTCA-ATTCAGTCTCGATCAACCTTTTAT
129 ACTT-GT-AGATTTAATCTCGATCAACTTTTTAT
457040 ACTTTGCTTA
Statistics
Matches: 275, Mismatches: 47, Indels: 15
0.82 0.14 0.04
Matches are distributed among these distances:
166 2 0.01
167 57 0.21
168 213 0.77
169 3 0.01
ACGTcount: A:0.18, C:0.23, G:0.14, T:0.45
Consensus pattern (166 bp):
TTCACCCGTCGGCTTGGTCTTAGGTACTTCCTTTTATCTTTTGTTAACTTGTCATCCAATCTCGG
TCAACTTCTTTATCCTTTATTTACCGTAGGCCTAGTCTTGGGTAAATCTTTTATCCCTCGTTGAC
TTGTAGATTTAATCTCGATCAACTTTTTATCCTTCA
Found at i:456996 original size:84 final size:84
Alignment explanation
Indices: 456573--457086 Score: 292
Period size: 84 Copynumber: 6.1 Consensus size: 84
456563 CAGGTACTTC
* * * * * * *
456573 CTTTTATCTTTTGTTAACTTGTTGATCCAATC-CGGTTAACTTCTTTATCTTTTATTTAGCCGTC
1 CTTTTATCTTTTGTTGACTTGTCGATCTAATCTCGGTCAACTTCTTTATCCTTTATTTACCCGTA
* * * *
456637 GACCTAGTCATGGGTAAAT
66 GGCTTAGTCTTGAGTAAAT
** * * * * ** *
456656 CTTTTATCCCTCGTTGACTTGTCGATTTAATCTCGATCAACTT-TTTATCCTTTATTCACTTGTC
1 CTTTTATCTTTTGTTGACTTGTCGATCTAATCTCGGTCAACTTCTTTATCCTTTATTTACCCGTA
* * **
456720 GGCTTGGTCCT-AGGTACTT
66 GGCTTAGTCTTGA-GTAAAT
* * * *
456739 CCTTTTATCTTTTGTTAACTTGTC-AGTCTAATCTCGATCAACTTCTTTATCCTTTGTTTACCCA
1 -CTTTTATCTTTTGTTGACTTGTCGA-TCTAATCTCGGTCAACTTCTTTATCCTTTATTTACCCG
* * *
456803 TCA-GCCTAGTCTCGGGTAAAT
64 T-AGGCTTAGTCTTGAGTAAAT
* ** * * * * * * * *
456824 CCTTTATCCCTCGTTGACTTGTAGGTTTAATCTTGGTCAACTT-TTTATCCTTCATTCACCCGTT
1 CTTTTATCTTTTGTTGACTTGTCGATCTAATCTCGGTCAACTTCTTTATCCTTTATTTACCCGTA
* **
456888 GGCTTGGTCTT-AGGTATTT
66 GGCTTAGTCTTGA-GTAAAT
* * * * **
456907 CCTTTTATATTTTATTGACTTGTCCATCCAATCTCGGTCAACTTCTTTATCCTTTATTTACTTGT
1 -CTTTTATCTTTTGTTGACTTGTCGATCTAATCTCGGTCAACTTCTTTATCCTTTATTTACCCGT
456972 AGGCTTAGTCTTGAGTAAAT
65 AGGCTTAGTCTTGAGTAAAT
** * * * * * ** **
456992 CTTTTATCCATTGTTGA-TTCGTCAAT-TCAGTCTCGATCAACCT-TTTATACTTTGCTTACCTA
1 CTTTTATCTTTTGTTGACTT-GTCGATCT-AATCTCGGTCAACTTCTTTATCCTTTATTTACCCG
* * * *
457054 TTGGCTTGGTCTCGGGTAAAT
64 TAGGCTTAGTCTTGAGTAAAT
457075 CTTTTATCTTTT
1 CTTTTATCTTTT
457087 CAGTCCCGGT
Statistics
Matches: 316, Mismatches: 100, Indels: 30
0.71 0.22 0.07
Matches are distributed among these distances:
83 123 0.39
84 137 0.43
85 55 0.17
86 1 0.00
ACGTcount: A:0.18, C:0.22, G:0.14, T:0.46
Consensus pattern (84 bp):
CTTTTATCTTTTGTTGACTTGTCGATCTAATCTCGGTCAACTTCTTTATCCTTTATTTACCCGTA
GGCTTAGTCTTGAGTAAAT
Found at i:458805 original size:10 final size:11
Alignment explanation
Indices: 458776--458804 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
458766 TTTAAATTTT
458776 TCAAAAAATTC
1 TCAAAAAATTC
458787 TCAAAAAATTC
1 TCAAAAAATTC
458798 TCAAAAA
1 TCAAAAA
458805 TAGAAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.59, C:0.17, G:0.00, T:0.24
Consensus pattern (11 bp):
TCAAAAAATTC
Found at i:460880 original size:21 final size:21
Alignment explanation
Indices: 460802--460880 Score: 61
Period size: 21 Copynumber: 3.8 Consensus size: 21
460792 ATGATCTTTC
* *
460802 ATTTTGATATGATTTTGATAAC
1 ATTTT-ATATGAATTTGATAAT
* * **
460824 CTTTTATATAAATTCAATAAT
1 ATTTTATATGAATTTGATAAT
* *
460845 CTTTAATAT-AATTTGATAAT
1 ATTTTATATGAATTTGATAAT
*
460865 ATTTTATATGATTTTG
1 ATTTTATATGAATTTG
460881 TTAACCTTTA
Statistics
Matches: 44, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
20 16 0.36
21 24 0.55
22 4 0.09
ACGTcount: A:0.35, C:0.05, G:0.08, T:0.52
Consensus pattern (21 bp):
ATTTTATATGAATTTGATAAT
Found at i:460990 original size:21 final size:21
Alignment explanation
Indices: 460964--461003 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
460954 TTTTATGACC
460964 TTTAATATAATTTTAGTAATG
1 TTTAATATAATTTTAGTAATG
* *
460985 TTTAATATGATTTTTGTAA
1 TTTAATATAATTTTAGTAA
461004 CAATTAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (21 bp):
TTTAATATAATTTTAGTAATG
Found at i:461864 original size:13 final size:13
Alignment explanation
Indices: 461846--461871 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
461836 CAATTTTTTG
461846 TGTATCGATACAT
1 TGTATCGATACAT
461859 TGTATCGATACAT
1 TGTATCGATACAT
461872 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:461936 original size:21 final size:21
Alignment explanation
Indices: 461910--461985 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
461900 CTGCCAAGAA
*
461910 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
461931 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
461951 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
461972 ATGTATCGATACAT
1 ATGTATCGATACAT
461986 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:461956 original size:20 final size:20
Alignment explanation
Indices: 461931--462003 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
461921 CATCTTTTTT
461931 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
461951 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
461972 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
461992 ATGTATCGATAC
1 ATGTATCGATAC
462004 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:461967 original size:41 final size:41
Alignment explanation
Indices: 461910--462003 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
461900 CTGCCAAGAA
*
461910 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
461951 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
461992 ATGTATCGATAC
1 ATGTATCGATAC
462004 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:464460 original size:13 final size:13
Alignment explanation
Indices: 464442--464480 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
464432 ATAATCACCC
*
464442 TGTATCGATACAG
1 TGTATCGATACAA
464455 TGTATCGATACAA
1 TGTATCGATACAA
464468 TGTATCGATACAA
1 TGTATCGATACAA
464481 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:464491 original size:20 final size:20
Alignment explanation
Indices: 464466--464544 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
464456 GTATCGATAC
464466 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
464486 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
464511 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
464531 CATGTATCGATACA
1 AATGTATCGATACA
464545 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:466581 original size:15 final size:15
Alignment explanation
Indices: 466561--466591 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
466551 ATTTCGTTTG
*
466561 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
466576 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
466591 G
1 G
466592 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:470672 original size:13 final size:13
Alignment explanation
Indices: 470654--470679 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
470644 CAATTTTTTG
470654 TGTATCGATACAT
1 TGTATCGATACAT
470667 TGTATCGATACAT
1 TGTATCGATACAT
470680 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:470744 original size:21 final size:21
Alignment explanation
Indices: 470718--470793 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
470708 CTGCCAAGAA
*
470718 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
470739 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
470759 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
470780 ATGTATCGATACAT
1 ATGTATCGATACAT
470794 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:470764 original size:20 final size:20
Alignment explanation
Indices: 470739--470811 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
470729 CATCTTTTTT
470739 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
470759 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
470780 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
470800 ATGTATCGATAC
1 ATGTATCGATAC
470812 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:470775 original size:41 final size:41
Alignment explanation
Indices: 470718--470811 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
470708 CTGCCAAGAA
*
470718 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
470759 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
470800 ATGTATCGATAC
1 ATGTATCGATAC
470812 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:471802 original size:21 final size:20
Alignment explanation
Indices: 471778--471822 Score: 72
Period size: 21 Copynumber: 2.2 Consensus size: 20
471768 CTTTGACATG
471778 ATTTTGATAATATTTTATATA
1 ATTTTGATAATA-TTTATATA
*
471799 ATTTTGATAATATTTATATG
1 ATTTTGATAATATTTATATA
471819 ATTT
1 ATTT
471823 AAGTAACTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.58
Consensus pattern (20 bp):
ATTTTGATAATATTTATATA
Found at i:471839 original size:23 final size:22
Alignment explanation
Indices: 471813--471862 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
471803 TGATAATATT
**
471813 TATATGATTTAAGTAACTTTTGA
1 TATAT-ATTTAAGTAACCCTTGA
*
471836 TATAATTTTTAAGTAACCCTTGA
1 TAT-ATATTTAAGTAACCCTTGA
471859 TATA
1 TATA
471863 ATTGTGAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
22 1 0.04
23 20 0.87
24 2 0.09
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.46
Consensus pattern (22 bp):
TATATATTTAAGTAACCCTTGA
Found at i:471863 original size:23 final size:23
Alignment explanation
Indices: 471820--471865 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
471810 ATTTATATGA
**
471820 TTTAAGTAACTTTTGATATAATT
1 TTTAAGTAACCCTTGATATAATT
471843 TTTAAGTAACCCTTGATATAATT
1 TTTAAGTAACCCTTGATATAATT
471866 GTGAATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.48
Consensus pattern (23 bp):
TTTAAGTAACCCTTGATATAATT
Found at i:472096 original size:21 final size:21
Alignment explanation
Indices: 472052--472122 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
472042 CAACGTTACA
* **
472052 TAATTTTGATAA-TTTTTATA
1 TAATTTTGATAACTTTTGACG
472072 TAATTTTGATAACTTTTGACG
1 TAATTTTGATAACTTTTGACG
* * *
472093 TAATTTTAACAACCTTTGACG
1 TAATTTTGATAACTTTTGACG
472114 TAATTTTGA
1 TAATTTTGA
472123 CAACCTTGAC
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
20 12 0.28
21 31 0.72
ACGTcount: A:0.32, C:0.08, G:0.10, T:0.49
Consensus pattern (21 bp):
TAATTTTGATAACTTTTGACG
Done.