Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003264.1 Hibiscus syriacus cultivar Beakdansim tig00006861_pilon, whole genome shotgun sequence
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: 95646
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:1482 original size:37 final size:38
Alignment explanation
Indices: 1440--1514 Score: 116
Period size: 37 Copynumber: 2.0 Consensus size: 38
1430 TAAGTGTATG
1440 GTGGGCACAACCTTATGT-AATGTACTTCGATGCATAT
1 GTGGGCACAACCTTATGTGAATGTACTTCGATGCATAT
* * *
1477 GTGGGCACAACTTTATGTGTATGTACTTCGGTGCATAT
1 GTGGGCACAACCTTATGTGAATGTACTTCGATGCATAT
1515 ATTACTCGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 17 0.50
38 17 0.50
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (38 bp):
GTGGGCACAACCTTATGTGAATGTACTTCGATGCATAT
Found at i:12710 original size:19 final size:18
Alignment explanation
Indices: 12686--12729 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
12676 TCTTGAGTAC
12686 AGCCTTGAGCAACAAGTCT
1 AGCCTTGAGCAA-AAGTCT
***
12705 AGCCTTGTTTAAAAGTCT
1 AGCCTTGAGCAAAAGTCT
12723 AGCCTTG
1 AGCCTTG
12730 TTTCTCACTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (18 bp):
AGCCTTGAGCAAAAGTCT
Found at i:16947 original size:20 final size:19
Alignment explanation
Indices: 16922--16972 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 19
16912 AAAAAACTGA
16922 GTGCATCGATGCATGGTATT
1 GTGCATCGATGCATGGTA-T
16942 GTGCATCGATGCATGGTAT
1 GTGCATCGATGCATGGTAT
*
16961 ATGCATCGATGC
1 GTGCATCGATGC
16973 TTAAAATGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (19 bp):
GTGCATCGATGCATGGTAT
Found at i:17027 original size:20 final size:20
Alignment explanation
Indices: 17002--17039 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
16992 TGAAAAATTA
17002 ATTGGTACATCGATGCATGG
1 ATTGGTACATCGATGCATGG
* *
17022 ATTGGTGCATCGGTGCAT
1 ATTGGTACATCGATGCAT
17040 CACTTTGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.16, G:0.32, T:0.32
Consensus pattern (20 bp):
ATTGGTACATCGATGCATGG
Found at i:17039 original size:84 final size:85
Alignment explanation
Indices: 16877--17039 Score: 233
Period size: 84 Copynumber: 1.9 Consensus size: 85
16867 ACACTAAGAG
*
16877 TGCATCGATGCATAAAATGCATTCAATGTTTTGAAAAAAAACTGAGTGCATCGATGCATGGTATT
1 TGCATCGATGCATAAAATGCATTCAATGTTTTGAAAAAAAACTGAGTACATCGATGCATGGTATT
16942 GTGCATCGATGCATGGTATA
66 GTGCATCGATGCATGGTATA
* * * *
16962 TGCATCGATGCTTAAAATGCATTCGATG-TTTGAAAAATTAATTG-GTACATCGATGCATGG-AT
1 TGCATCGATGCATAAAATGCATTCAATGTTTTGAAAAA-AAACTGAGTACATCGATGCATGGTAT
*
17024 TGGTGCATCGGTGCAT
65 T-GTGCATCGATGCAT
17040 CACTTTGAAA
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
83 3 0.04
84 37 0.53
85 30 0.43
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (85 bp):
TGCATCGATGCATAAAATGCATTCAATGTTTTGAAAAAAAACTGAGTACATCGATGCATGGTATT
GTGCATCGATGCATGGTATA
Found at i:19129 original size:23 final size:21
Alignment explanation
Indices: 19091--19172 Score: 78
Period size: 21 Copynumber: 3.8 Consensus size: 21
19081 ATACGCAGTC
*
19091 CTTC-GGACATATATGTGGTT
1 CTTCAGGACATCTATGTGGTT
*
19111 CTTCAGGACAACTCTATGTGGTC
1 CTTCAGGAC-A-TCTATGTGGTT
*
19134 CTTCGGGACATCTATGTGG-T
1 CTTCAGGACATCTATGTGGTT
*
19154 CTATCAGGGCATTCTATGT
1 CT-TCAGGACA-TCTATGT
19173 TGCACTTTGG
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
20 6 0.12
21 19 0.37
22 9 0.18
23 17 0.33
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.35
Consensus pattern (21 bp):
CTTCAGGACATCTATGTGGTT
Found at i:19172 original size:22 final size:21
Alignment explanation
Indices: 19088--19154 Score: 82
Period size: 23 Copynumber: 3.1 Consensus size: 21
19078 GTTATACGCA
*
19088 GTCCTTC-GGACATATATGTG
1 GTCCTTCGGGACATCTATGTG
* *
19108 GTTCTTCAGGACAACTCTATGTG
1 GTCCTTCGGGAC-A-TCTATGTG
19131 GTCCTTCGGGACATCTATGTG
1 GTCCTTCGGGACATCTATGTG
19152 GTC
1 GTC
19155 TATCAGGGCA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 6 0.15
21 15 0.38
22 2 0.05
23 17 0.43
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.34
Consensus pattern (21 bp):
GTCCTTCGGGACATCTATGTG
Found at i:20187 original size:56 final size:56
Alignment explanation
Indices: 20096--20310 Score: 229
Period size: 56 Copynumber: 3.8 Consensus size: 56
20086 GAAGTAAAGA
* * * *
20096 GTTTAACATATCCAAGTTGTTACATTTAAAGATGGAAGTTTGGATAGTGTTATAGAT
1 GTTTAACTTATCCAAGTTGTTACATTCAAAAATGGAAGTTTGAATAGTGTTATA-AT
* * *
20153 -TTTAACTTATCGAAGTTGTTGCATTCAAAAATGGAAGTTTGAATAATGTTATAAT
1 GTTTAACTTATCCAAGTTGTTACATTCAAAAATGGAAGTTTGAATAGTGTTATAAT
** * * * *
20208 GTTTAACTTGCCCAAGTTGTTACATTCAAAGACT-GAAGCTTGTATAGTGTTGTAAT
1 GTTTAACTTATCCAAGTTGTTACATTCAAA-AATGGAAGTTTGAATAGTGTTATAAT
** * *
20264 GTTTAACTTATCCAAGTTAATCCATT-AAAAGATGGAATTTTGAATAG
1 GTTTAACTTATCCAAGTTGTTACATTCAAAA-ATGGAAGTTTGAATAG
20311 CATTAAAATG
Statistics
Matches: 129, Mismatches: 25, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
54 1 0.01
55 6 0.05
56 120 0.93
57 2 0.02
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (56 bp):
GTTTAACTTATCCAAGTTGTTACATTCAAAAATGGAAGTTTGAATAGTGTTATAAT
Found at i:20299 original size:112 final size:112
Alignment explanation
Indices: 20107--20309 Score: 277
Period size: 112 Copynumber: 1.8 Consensus size: 112
20097 TTTAACATAT
* * * **
20107 CCAAGTTGTTACATTTAAAGATGGAAGTTTGGATAGTGTTATAGATTTTAACTTATCGAAGTTGT
1 CCAAGTTGTTACATTCAAAGATGGAAGCTTGGATAGTGTTATAGATTTTAACTTATCCAAGTTAA
*
20172 TGCATTCAAAAATGGAAGTTTGAATAATGTTATAATGTTTAACTTGC
66 TCCATTCAAAAATGGAAGTTTGAATAATGTTATAATGTTTAACTTGC
* *
20219 CCAAGTTGTTACATTCAAAGACT-GAAGCTTGTATAGTGTTGTA-ATGTTTAACTTATCCAAGTT
1 CCAAGTTGTTACATTCAAAGA-TGGAAGCTTGGATAGTGTTATAGAT-TTTAACTTATCCAAGTT
*
20282 AATCCATT-AAAAGATGGAATTTTGAATA
64 AATCCATTCAAAA-ATGGAAGTTTGAATA
20310 GCATTAAAAT
Statistics
Matches: 79, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
111 6 0.08
112 72 0.91
113 1 0.01
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (112 bp):
CCAAGTTGTTACATTCAAAGATGGAAGCTTGGATAGTGTTATAGATTTTAACTTATCCAAGTTAA
TCCATTCAAAAATGGAAGTTTGAATAATGTTATAATGTTTAACTTGC
Found at i:20476 original size:149 final size:149
Alignment explanation
Indices: 20178--20464 Score: 371
Period size: 149 Copynumber: 1.9 Consensus size: 149
20168 TTGTTGCATT
* * * *
20178 CAAAAATGGAAGTTTGAATAATGTTATAATGTTTAACTTGCCCAAGTTGTTACATTCAAAGACTG
1 CAAAAATGAAAGTTTGAATAATGTTATAAAGTTTAACTTACCCAAGTTGATACATTCAAAGACTG
* ** * *
20243 AAGCTTGTATAGTGTTGTAATGTTTAACTTATCCAAGTTAATCCATTAAAAGATGGAATTTTGAA
66 AAACTTGTATAGCATTGTAATGTTTAACTTATCCAAATTAATACATTAAAAGATGGAATTTTGAA
*
20308 TAGCATTAAAATGTCTTAA
131 TAACATTAAAATGTCTTAA
* * *
20327 CAAATATGAAAGTTTGAATAATGTTGTAAAGTTTAACTTATCCAAGTTGATACATTCAAAGA-TG
1 CAAAAATGAAAGTTTGAATAATGTTATAAAGTTTAACTTACCCAAGTTGATACATTCAAAGACT-
* ** * *
20391 GAAATTTGTATAGCATTGTAATGTCTTAACTTATCCAAATTTTTACATTCAAATATGGAAGTTTT
65 GAAACTTGTATAGCATTGTAATGT-TTAACTTATCCAAATTAATACATTAAAAGATGGAA-TTTT
20456 -AATAACATT
128 GAATAACATT
20465 GTAATGTTTA
Statistics
Matches: 117, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
148 1 0.01
149 75 0.64
150 37 0.32
151 4 0.03
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (149 bp):
CAAAAATGAAAGTTTGAATAATGTTATAAAGTTTAACTTACCCAAGTTGATACATTCAAAGACTG
AAACTTGTATAGCATTGTAATGTTTAACTTATCCAAATTAATACATTAAAAGATGGAATTTTGAA
TAACATTAAAATGTCTTAA
Found at i:20500 original size:56 final size:56
Alignment explanation
Indices: 20327--20834 Score: 511
Period size: 56 Copynumber: 9.2 Consensus size: 56
20317 AATGTCTTAA
* ** * *
20327 CAAATATGAAAGTTTGAATAATGTTGTAAAGTTTAACTTATCCAAGTTGATACATT
1 CAAATATGGAAGTTTGAATAACATTGTAATGTTTAACTTATCCAAGTTGTTACATT
* * * * * *
20383 CAAAGATGGAAATTTGTATAGCATTGTAATGTCTTAACTTATCCAAATTTTTACATT
1 CAAATATGGAAGTTTGAATAACATTGTAATGT-TTAACTTATCCAAGTTGTTACATT
* *
20440 CAAATATGGAAGTTTTAATAACATTGTAATGTTTAACTTATCCCAGTTGTTACATT
1 CAAATATGGAAGTTTGAATAACATTGTAATGTTTAACTTATCCAAGTTGTTACATT
* * ***
20496 CAAATATGAAAGTTTAAATAGTGTTGTAGAT-TTTAACTTATCCAAGTTGTTACATT
1 CAAATATGGAAGTTTGAATAACATTGTA-ATGTTTAACTTATCCAAGTTGTTACATT
* * * * *
20552 AAAATATGTAAGTTTGAATAGCATTATAGA-GTTTAACTTATCTAAGTTGTTACATT
1 CAAATATGGAAGTTTGAATAACATTGTA-ATGTTTAACTTATCCAAGTTGTTACATT
* * *
20608 CAAAGATGGAAGTTTGAATAAAATT-TAAATGTTTAACTTATCCAAGTTGTTACAAT
1 CAAATATGGAAGTTTGAATAACATTGT-AATGTTTAACTTATCCAAGTTGTTACATT
* * * * *
20664 CAAATATGAAAGTTT---TAATAGTGT--TG--T-ACTTATCTAAGTTGTTGCATT
1 CAAATATGGAAGTTTGAATAACATTGTAATGTTTAACTTATCCAAGTTGTTACATT
* * * *
20712 CAAATATGGAAGTTTGAATAATATTGTAATGTTTTACTTATCCAATTTATTACATT
1 CAAATATGGAAGTTTGAATAACATTGTAATGTTTAACTTATCCAAGTTGTTACATT
* * * *
20768 CAAATATGGAAATTTGAA-AAGAATTATAGA-GTTTAACTTATCCAAGTTGTTACTTT
1 CAAATATGGAAGTTTGAATAA-CATTGTA-ATGTTTAACTTATCCAAGTTGTTACATT
*
20824 CAAAAATGGAA
1 CAAATATGGAA
20835 CAACTTGGAT
Statistics
Matches: 376, Mismatches: 60, Indels: 32
0.80 0.13 0.07
Matches are distributed among these distances:
48 32 0.09
49 1 0.00
51 10 0.03
53 7 0.02
54 1 0.00
55 5 0.01
56 269 0.72
57 51 0.14
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (56 bp):
CAAATATGGAAGTTTGAATAACATTGTAATGTTTAACTTATCCAAGTTGTTACATT
Found at i:20570 original size:262 final size:261
Alignment explanation
Indices: 20095--20577 Score: 641
Period size: 262 Copynumber: 1.8 Consensus size: 261
20085 CGAAGTAAAG
* * * **
20095 AGTTTAACATATCCAAGTTGTTACATTTAAAGATGGAAGTTTGGATAGTGTTATAGATTTTAACT
1 AGTTTAACATATCCAAGTTGATACATTCAAAGATGGAAATTTGGATAGCATTATAGATTTTAACT
* * * **
20160 TATCGAAGTTGTTGCATTCAAAAATGGAAGTTTGAATAATGTTATAATGTTTAACTTGCCCAAGT
66 TATCCAAATTGTTACATTCAAAAATGGAAGTTTGAATAACATTATAATGTTTAACTTGCCCAAGT
** *
20225 TGTTACATTCAAAGACTGAAGCTTGTATAGTGTTGTAATGTTTAACTTATCCAAGTTAATCCATT
131 TGTTACATTCAAAGACTGAAGCTTAAATAGTGTTGTAATGTTTAACTTATCCAAGTTAATACATT
*
20290 AAAAGATGGAATTTTGAATAGCATTAAAATGTCTTAACAAATATGAAAGTTTGAATAATGTTGTA
196 AAAAGATGGAAGTTTGAATAGCATTAAAATGTCTTAACAAATATGAAAGTTTGAATAATGTTGTA
20355 A
261 A
* * *
20356 AGTTTAACTTATCCAAGTTGATACATTCAAAGATGGAAATTTGTATAGCATTGTA-ATGTCTTAA
1 AGTTTAACATATCCAAGTTGATACATTCAAAGATGGAAATTTGGATAGCATTATAGAT-T-TTAA
* * * * *
20420 CTTATCCAAATTTTTACATTCAAATATGGAAGTTTTAATAACATTGTAATGTTTAACTTATCCC-
64 CTTATCCAAATTGTTACATTCAAAAATGGAAGTTTGAATAACATTATAATGTTTAACTT-GCCCA
* * **
20484 AGTTGTTACATTCAAATA-TGAAAGTTTAAATAGTGTTGTAGAT-TTTAACTTATCCAAGTTGTT
128 AGTTGTTACATTCAAAGACTG-AAGCTTAAATAGTGTTGTA-ATGTTTAACTTATCCAAGTTAAT
* *
20547 ACATTAAAATATGTAAGTTTGAATAGCATTA
191 ACATTAAAAGATGGAAGTTTGAATAGCATTA
20578 TAGAGTTTAA
Statistics
Matches: 189, Mismatches: 28, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
260 2 0.01
261 50 0.26
262 132 0.70
263 5 0.03
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (261 bp):
AGTTTAACATATCCAAGTTGATACATTCAAAGATGGAAATTTGGATAGCATTATAGATTTTAACT
TATCCAAATTGTTACATTCAAAAATGGAAGTTTGAATAACATTATAATGTTTAACTTGCCCAAGT
TGTTACATTCAAAGACTGAAGCTTAAATAGTGTTGTAATGTTTAACTTATCCAAGTTAATACATT
AAAAGATGGAAGTTTGAATAGCATTAAAATGTCTTAACAAATATGAAAGTTTGAATAATGTTGTA
A
Found at i:20728 original size:104 final size:104
Alignment explanation
Indices: 20587--20775 Score: 299
Period size: 104 Copynumber: 1.8 Consensus size: 104
20577 ATAGAGTTTA
20587 ACTTATCTAAGTTGTTACATTCAAAGATGGAAGTTTGAATAAAATT-TAAATGTTTAACTTATCC
1 ACTTATCTAAGTTGTTACATTCAAAGATGGAAGTTTGAATAAAATTGT-AATGTTTAACTTATCC
*
20651 AAGTTGTTACAATCAAATATGAAAGTTTTAATAGTGTTGT
65 AAGTTATTACAATCAAATATGAAAGTTTTAATAGTGTTGT
* * * *
20691 ACTTATCTAAGTTGTTGCATTCAAATATGGAAGTTTGAATAATATTGTAATGTTTTACTTATCCA
1 ACTTATCTAAGTTGTTACATTCAAAGATGGAAGTTTGAATAAAATTGTAATGTTTAACTTATCCA
* *
20756 ATTTATTACATTCAAATATG
66 AGTTATTACAATCAAATATG
20776 GAAATTTGAA
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
104 76 0.99
105 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (104 bp):
ACTTATCTAAGTTGTTACATTCAAAGATGGAAGTTTGAATAAAATTGTAATGTTTAACTTATCCA
AGTTATTACAATCAAATATGAAAGTTTTAATAGTGTTGT
Found at i:20739 original size:48 final size:48
Alignment explanation
Indices: 20643--20739 Score: 131
Period size: 48 Copynumber: 2.0 Consensus size: 48
20633 TAAATGTTTA
* * *
20643 ACTTATCCAAGTTGTTACAATCAAATATGAAAGTTTTAATAGTGTTGT
1 ACTTATCCAAGTTGTTACAATCAAATATGAAAGTTTGAATAATATTGT
* * * *
20691 ACTTATCTAAGTTGTTGCATTCAAATATGGAAGTTTGAATAATATTGT
1 ACTTATCCAAGTTGTTACAATCAAATATGAAAGTTTGAATAATATTGT
20739 A
1 A
20740 ATGTTTTACT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.40
Consensus pattern (48 bp):
ACTTATCCAAGTTGTTACAATCAAATATGAAAGTTTGAATAATATTGT
Found at i:20775 original size:216 final size:221
Alignment explanation
Indices: 20327--20834 Score: 611
Period size: 216 Copynumber: 2.3 Consensus size: 221
20317 AATGTCTTAA
* * * *
20327 CAAATATGAAAGTTTGAATA-ATGTTGTAAAGTTTAACTTATCCAAGTTGATACATTCAAAGATG
1 CAAATATGAAAGTTTGAATAGA-ATTATAGAGTTTAACTTATCCAAGTTGTTACATTCAAAGATG
* ** * * *
20391 GAAATTTGTATAGCATTGTAATGTCTTAACTTATCCAAATTTTTACATTCAAATATGGAAGTTTT
65 GAAATTTGAATAAAATTGTAATGTCTTAACTTATCCAAATTGTTACAATCAAATATGAAAGTTTT
* * * *
20456 AATAACATTGTAATGTTTAACTTATCCCAGTTGTTACATTCAAATATGAAAGTTTAAATAGTGTT
130 AAT-A-AGTGT-ATG-TTAACTTATCCAAGTTGTTACATTCAAATATGAAAGTTTAAATAATATT
*
20521 GTAGATTTTAACTTATCCAAGTTGTTACATT
191 GTAGATTTTAACTTATCCAAGTTATTACATT
* * * *
20552 AAAATATGTAAGTTTGAATAGCATTATAGAGTTTAACTTATCTAAGTTGTTACATTCAAAGATGG
1 CAAATATGAAAGTTTGAATAGAATTATAGAGTTTAACTTATCCAAGTTGTTACATTCAAAGATGG
* *
20617 AAGTTTGAATAAAATT-TAAATGT-TTAACTTATCCAAGTTGTTACAATCAAATATGAAAGTTTT
66 AAATTTGAATAAAATTGT-AATGTCTTAACTTATCCAAATTGTTACAATCAAATATGAAAGTTTT
* * * *
20680 AAT-AGTGT-TG-T-ACTTATCTAAGTTGTTGCATTCAAATATGGAAGTTTGAATAATATTGTA-
130 AATAAGTGTATGTTAACTTATCCAAGTTGTTACATTCAAATATGAAAGTTTAAATAATATTGTAG
* *
20740 ATGTTTTACTTATCCAATTTATTACATT
195 AT-TTTAACTTATCCAAGTTATTACATT
* * *
20768 CAAATATGGAAA-TTTGAAAAGAATTATAGAGTTTAACTTATCCAAGTTGTTACTTTCAAAAATG
1 CAAATAT-GAAAGTTTGAATAGAATTATAGAGTTTAACTTATCCAAGTTGTTACATTCAAAGATG
20832 GAA
65 GAA
20835 CAACTTGGAT
Statistics
Matches: 245, Mismatches: 34, Indels: 17
0.83 0.11 0.06
Matches are distributed among these distances:
215 2 0.01
216 120 0.49
217 4 0.02
219 2 0.01
221 4 0.02
224 40 0.16
225 73 0.30
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (221 bp):
CAAATATGAAAGTTTGAATAGAATTATAGAGTTTAACTTATCCAAGTTGTTACATTCAAAGATGG
AAATTTGAATAAAATTGTAATGTCTTAACTTATCCAAATTGTTACAATCAAATATGAAAGTTTTA
ATAAGTGTATGTTAACTTATCCAAGTTGTTACATTCAAATATGAAAGTTTAAATAATATTGTAGA
TTTTAACTTATCCAAGTTATTACATT
Found at i:20924 original size:56 final size:56
Alignment explanation
Indices: 20828--20972 Score: 193
Period size: 56 Copynumber: 2.6 Consensus size: 56
20818 TACTTTCAAA
* * *
20828 AATGGAACAACTTGGATAATTTAAAC-TCTACAATGCTATTCAAAATTCCATATTTG
1 AATGTAACAACTTGGATAAGTTAAACAT-TACAACGCTATTCAAAATTCCATATTTG
* * * *
20884 AATGTATCAACTTGGATAAGTTAAACATTACAACGTTATTCAAACTTCCATCTTTG
1 AATGTAACAACTTGGATAAGTTAAACATTACAACGCTATTCAAAATTCCATATTTG
*
20940 AATGTAACAACTTGGATAAGTTAAGAAATTACA
1 AATGTAACAACTTGGATAAGTTAA-ACATTACA
20973 TCACCTACTT
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
56 70 0.90
57 8 0.10
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (56 bp):
AATGTAACAACTTGGATAAGTTAAACATTACAACGCTATTCAAAATTCCATATTTG
Found at i:24408 original size:46 final size:44
Alignment explanation
Indices: 24346--24461 Score: 124
Period size: 45 Copynumber: 2.5 Consensus size: 44
24336 ATAACATCCA
* * *
24346 TTCATGTTTATGATGCACCATTATGAATTTTCAATTATAGCATACT
1 TTCATGTTGATAATGCACCA-TATGAA-TTTCAACTATAGCATACT
* * *
24392 TTTATGTTGATAATGCACCCATATGCATTTCAACTATAGCATCCT
1 TTCATGTTGATAATGCA-CCATATGAATTTCAACTATAGCATACT
* *
24437 TTCATGATGAAAATGCACCCATATG
1 TTCATGTTGATAATGCA-CCATATG
24462 TATTATTATT
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
45 38 0.63
46 19 0.32
47 3 0.05
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (44 bp):
TTCATGTTGATAATGCACCATATGAATTTCAACTATAGCATACT
Found at i:24431 original size:45 final size:45
Alignment explanation
Indices: 24378--24557 Score: 193
Period size: 45 Copynumber: 4.0 Consensus size: 45
24368 ATGAATTTTC
* * *
24378 AATTATAGCATACTTTTATGTTGATAATGCACCCATATGCATT-T
1 AATTATAGCATCCTTTCATGTCGATAATGCACCCATATGCATTAT
* * *
24422 CAACTATAGCATCCTTTCATGAT-GAAAATGCACCCATATGTATTAT
1 -AATTATAGCATCCTTTCATG-TCGATAATGCACCCATATGCATTAT
* * * * *
24468 TATTTTGGCATCTTTTCATGTCGATAATGCACCCATTTGCATTAT
1 AATTATAGCATCCTTTCATGTCGATAATGCACCCATATGCATTAT
* * * *
24513 TATTTTGGCATCCTTTCATATCGATAATGCACCCATATGCATTAT
1 AATTATAGCATCCTTTCATGTCGATAATGCACCCATATGCATTAT
24558 TATTTTGGAA
Statistics
Matches: 116, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
44 1 0.01
45 113 0.97
46 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (45 bp):
AATTATAGCATCCTTTCATGTCGATAATGCACCCATATGCATTAT
Found at i:24524 original size:90 final size:90
Alignment explanation
Indices: 24385--24565 Score: 242
Period size: 90 Copynumber: 2.0 Consensus size: 90
24375 TTCAATTATA
*
24385 GCATACTTTTATGTTGATAATGCACCCATATGCATTTCAACTATAGCATCCTTTCATGAT-GAAA
1 GCATACTTTTATGTCGATAATGCACCCATATGCATTTCAACTATAGCATCCTTTCAT-ATCGAAA
*
24449 ATGCACCCATATGTATTATTATTTTG
65 ATGCACCCATATGCATTATTATTTTG
* * * * * *
24475 GCAT-CTTTTCATGTCGATAATGCACCCATTTGCATTAT-TATTTTGGCATCCTTTCATATCGAT
1 GCATACTTTT-ATGTCGATAATGCACCCATATGCATT-TCAACTATAGCATCCTTTCATATCGAA
24538 AATGCACCCATATGCATTATTATTTTG
64 AATGCACCCATATGCATTATTATTTTG
24565 G
1 G
24566 AATTCGTTTT
Statistics
Matches: 80, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
89 7 0.09
90 72 0.90
91 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (90 bp):
GCATACTTTTATGTCGATAATGCACCCATATGCATTTCAACTATAGCATCCTTTCATATCGAAAA
TGCACCCATATGCATTATTATTTTG
Found at i:24558 original size:45 final size:45
Alignment explanation
Indices: 24400--24565 Score: 219
Period size: 45 Copynumber: 3.7 Consensus size: 45
24390 CTTTTATGTT
* * * *
24400 GATAATGCACCCATATGCATT-TCAACTATAGCATCCTTTCATGAT-
1 GATAATGCACCCATATGCATTAT-TATTTTGGCATCCTTTCAT-ATC
* * * *
24445 GAAAATGCACCCATATGTATTATTATTTTGGCATCTTTTCATGTC
1 GATAATGCACCCATATGCATTATTATTTTGGCATCCTTTCATATC
*
24490 GATAATGCACCCATTTGCATTATTATTTTGGCATCCTTTCATATC
1 GATAATGCACCCATATGCATTATTATTTTGGCATCCTTTCATATC
24535 GATAATGCACCCATATGCATTATTATTTTGG
1 GATAATGCACCCATATGCATTATTATTTTGG
24566 AATTCGTTTT
Statistics
Matches: 105, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
44 1 0.01
45 103 0.98
46 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (45 bp):
GATAATGCACCCATATGCATTATTATTTTGGCATCCTTTCATATC
Found at i:25028 original size:19 final size:19
Alignment explanation
Indices: 25001--25044 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
24991 ATATCGATAC
25001 TACCATACTATGATACCGA
1 TACCATACTATGATACCGA
* * *
25020 TACCTTACTATGGTATCGA
1 TACCATACTATGATACCGA
25039 TACCAT
1 TACCAT
25045 TTTTGAATTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.32
Consensus pattern (19 bp):
TACCATACTATGATACCGA
Found at i:31069 original size:14 final size:13
Alignment explanation
Indices: 31036--31077 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
31026 TTAACTTTTT
31036 GGTCAAAGTCAAC
1 GGTCAAAGTCAAC
31049 GGTCAAAGTCAAC
1 GGTCAAAGTCAAC
*
31062 ATGTCAAAGTCAAC
1 -GGTCAAAGTCAAC
31076 GG
1 GG
31078 GTTGACTCGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 14 0.54
14 12 0.46
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (13 bp):
GGTCAAAGTCAAC
Found at i:31097 original size:14 final size:14
Alignment explanation
Indices: 31078--31112 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
31068 AAGTCAACGG
*
31078 GTTGACTCGGGCAA
1 GTTGACTCGGACAA
*
31092 GTTGACTCGGACGA
1 GTTGACTCGGACAA
31106 GTTGACT
1 GTTGACT
31113 AAGATGAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.20, C:0.20, G:0.34, T:0.26
Consensus pattern (14 bp):
GTTGACTCGGACAA
Found at i:32081 original size:20 final size:22
Alignment explanation
Indices: 32042--32084 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
32032 ACTAAGCCTT
32042 TTAGTATTGGTACATTTGAGTA
1 TTAGTATTGGTACATTTGAGTA
*
32064 TTAGTATT-G-ACCTTTGAGTA
1 TTAGTATTGGTACATTTGAGTA
32084 T
1 T
32085 CATTACTCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 11 0.55
21 1 0.05
22 8 0.40
ACGTcount: A:0.26, C:0.07, G:0.21, T:0.47
Consensus pattern (22 bp):
TTAGTATTGGTACATTTGAGTA
Found at i:34008 original size:2 final size:2
Alignment explanation
Indices: 34001--34031 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
33991 CTATTCTCTA
34001 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
34032 ATTATAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:43178 original size:8 final size:8
Alignment explanation
Indices: 43165--43191 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
43155 GTATTTCTTC
43165 TTTCTTTT
1 TTTCTTTT
43173 TTTCTTTT
1 TTTCTTTT
43181 TTTCTTTT
1 TTTCTTTT
43189 TTT
1 TTT
43192 TTTCTTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTCTTTT
Found at i:52771 original size:30 final size:30
Alignment explanation
Indices: 52721--52794 Score: 103
Period size: 30 Copynumber: 2.5 Consensus size: 30
52711 AGGTAGCTAT
* * * *
52721 CTAGTTAAATAGTAGGTAGGTAGACTCAAG
1 CTAGCTAACTAGTAGCTAGGTAAACTCAAG
*
52751 TTAGCTAACTAGTAGCTAGGTAAACTCAAG
1 CTAGCTAACTAGTAGCTAGGTAAACTCAAG
52781 CTAGCTAACTAGTA
1 CTAGCTAACTAGTA
52795 ACACTCTAGC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (30 bp):
CTAGCTAACTAGTAGCTAGGTAAACTCAAG
Found at i:55505 original size:56 final size:56
Alignment explanation
Indices: 55353--56017 Score: 523
Period size: 56 Copynumber: 11.9 Consensus size: 56
55343 TCCTAGAATC
* * * * * *
55353 AATAATGTTGTAAAGTTTAACTTATCCTAGTTTTTACAATCAAATATCGAAGTTTG
1 AATAATGTTGTAATGTTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTG
* * * * *
55409 AACAGTGTTGTAATGTTTTAACTTATCCAAGTTATTACATTCAAAGATGAAAGTCTG
1 AATAATGTTGTAATG-TTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTG
** * * *
55466 AATAATGTTGTAATGTTTAACTTATAAAAGTTGTCACATTCAACGATGGAATTTTG
1 AATAATGTTGTAATGTTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTG
** *
55522 AATAGCGTTGT-ATAGTTTAACTTATCCAAGTTGTTACATTCAAAGATGGAATTTTG
1 AATAATGTTGTAAT-GTTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTG
* * *
55578 AAT-ATCGTTGTAGA-GTTTAACTTATCCAAGTTGTTACATTCTCAA-ATGGAAATTTT
1 AATAAT-GTTGTA-ATGTTTAACTTATCCAAGTTGTTACATTC-AAAGATGGAAGTTTG
* * * *
55634 AAT-ATAG-TGTAAAGTTTAACTTATCAAATTTGTTACATTCAAAGATGGAAGTTTA
1 AATAAT-GTTGTAATGTTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTG
*** * * *
55689 AATAGCATTGTAATGTTTAACTTATCCAAGTTATTACATT-AAA-ATGAAAGTTTA
1 AATAATGTTGTAATGTTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTG
* ** * *
55743 AATAATATTAAAATTTCTTAACTTATCCAAGTTGTTACAATCAAAGATGGAAGTTTG
1 AATAATGTTGTAATGT-TTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTG
* * * * *
55800 AAT-A-G-TGCTACATAGTTCAACTTATCCAAGTTGTTATATTAAAAAAATGAAAGTTT-
1 AATAATGTTG-TA-AT-GTTTAACTTATCCAAGTTGTTACATT-CAAAGATGGAAGTTTG
** * * **
55856 ACATAGCGTTGTAATGTCTTAACATAACCAA---GTTACATTCAAAGATAAAAGTTTG
1 A-ATAATGTTGTAATGT-TTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTG
** * * * * * * * *
55911 AATAACATTTTTATGTTTAACTTATCCAAGTTGTTACACTAAAAAATAGAAGATTA
1 AATAATGTTGTAATGTTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTG
* * ** * *
55967 AATAGTTTTGTAATGTCTTAACTTATCCATTTTGTTGCATTAAAAGATGGA
1 AATAATGTTGTAATGT-TTAACTTATCCAAGTTGTTACATTCAAAGATGGA
56018 TAAGTTAGAA
Statistics
Matches: 487, Mismatches: 95, Indels: 53
0.77 0.15 0.08
Matches are distributed among these distances:
53 11 0.02
54 48 0.10
55 77 0.16
56 227 0.47
57 106 0.22
58 13 0.03
59 3 0.01
60 2 0.00
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (56 bp):
AATAATGTTGTAATGTTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTG
Found at i:55580 original size:112 final size:109
Alignment explanation
Indices: 55353--55948 Score: 460
Period size: 111 Copynumber: 5.3 Consensus size: 109
55343 TCCTAGAATC
* * * * * * * *
55353 AATAATGTTGTAAAGTTTAACTTATCCTAGTTTTTACAATCAAATATCGAAGTTTGAACAGTGTT
1 AATAATGTTGTAATGTTTAACTTATCCAAGTTGTTACATTC-AA-ATGGAATTTTGAATAGAGTT
* * *
55418 GTAATGTTTTAACTTATCCAAGTTATTACATTCAAAGATGAAAGTCTG
64 GTAA-G-TTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTG
** * *
55466 AATAATGTTGTAATGTTTAACTTATAAAAGTTGTCACATTCAACGATGGAATTTTGAATAGCGTT
1 AATAATGTTGTAATGTTTAACTTATCCAAGTTGTTACATTCAA--ATGGAATTTTGAATAGAGTT
*
55531 GTATAGTTTAACTTATCCAAGTTGTTACATTCAAAGATGGAATTTTG
64 GTA-AGTTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTG
*
55578 AAT-ATCGTTGTAGA-GTTTAACTTATCCAAGTTGTTACATTCTCAAATGGAAATTTT-AATATA
1 AATAAT-GTTGTA-ATGTTTAACTTATCCAAGTTGTTACA-T-TCAAATGG-AATTTTGAATAGA
* * *
55640 G-TGTAAAGTTTAACTTATCAAATTTGTTACATTCAAAGATGGAAGTTTA
61 GTTGT-AAGTTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTG
*** * * * * * * *
55689 AATAGCATTGTAATGTTTAACTTATCCAAGTTATTACATTAAAATGAAAGTTTAAATA-ATATTA
1 AATAATGTTGTAATGTTTAACTTATCCAAGTTGTTACATTCAAATGGAATTTTGAATAGA-GTTG
* * *
55753 AAATTTCTTAACTTATCCAAGTTGTTACAATCAAAGATGGAAGTTTG
65 TAA-GT-TTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTG
* * * * *
55800 AAT-A-G-TGCTACATAGTTCAACTTATCCAAGTTGTTATATTAAAAAAATGAAAGTTT-ACATA
1 AATAATGTTG-TA-AT-GTTTAACTTATCCAAGTTGTTACATT---CAAATGGAATTTTGA-ATA
* * * **
55861 GCGTTGTAATGTCTTAACATAACCAA---GTTACATTCAAAGATAAAAGTTTG
59 GAGTTGTAA-GT-TTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTG
** * *
55911 AATAACATTTTTATGTTTAACTTATCCAAGTTGTTACA
1 AATAATGTTGTAATGTTTAACTTATCCAAGTTGTTACA
55949 CTAAAAAATA
Statistics
Matches: 397, Mismatches: 60, Indels: 54
0.78 0.12 0.11
Matches are distributed among these distances:
108 8 0.02
109 14 0.04
110 6 0.02
111 183 0.46
112 82 0.21
113 64 0.16
114 40 0.10
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (109 bp):
AATAATGTTGTAATGTTTAACTTATCCAAGTTGTTACATTCAAATGGAATTTTGAATAGAGTTGT
AAGTTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTG
Found at i:55824 original size:222 final size:222
Alignment explanation
Indices: 55538--55954 Score: 520
Period size: 222 Copynumber: 1.9 Consensus size: 222
55528 GTTGTATAGT
* * * ** *
55538 TTAACTTATCCAAGTTGTTACATTCAAAGATGGAATTTTGAATATCGTTGTAGAGTTTAACTTAT
1 TTAACTTATCCAAGTTGTTACAATCAAAGATGGAAGTTTGAATATCGCTACAGAGTTCAACTTAT
*** * * * *
55603 CCAAGTTGTTACATT-CTCAAATGGAAATTTTA-ATATAG-TGTAAAGT-TTAACTTATCAAATT
66 CCAAGTTGTTACATTAAAAAAAT-GAAAGTTTACATAGAGTTGTAAAGTCTTAACATAACAAA--
** * *
55664 TGTTACATTCAAAGATGGAAGTTTAAATAGCATTGTAATGTTTAACTTATCCAAGTTATTACATT
128 -GTTACATTCAAAGATAAAAGTTTAAATAACATTGTAATGTTTAACTTATCCAAGTTATTACACT
55729 AAAATGAAAGTTTAAATAATATTAAAATTTC
192 AAAATGAAAGTTTAAATAATATTAAAATTTC
*
55760 TTAACTTATCCAAGTTGTTACAATCAAAGATGGAAGTTTGAATAGT-GCTACATAGTTCAACTTA
1 TTAACTTATCCAAGTTGTTACAATCAAAGATGGAAGTTTGAATA-TCGCTACAGAGTTCAACTTA
* * * *
55824 TCCAAGTTGTTATATTAAAAAAATGAAAGTTTACATAGCGTTGTAATGTCTTAACATAACCAAGT
65 TCCAAGTTGTTACATTAAAAAAATGAAAGTTTACATAGAGTTGTAAAGTCTTAACATAACAAAGT
* * * *
55889 TACATTCAAAGATAAAAGTTTGAATAACATTTTTATGTTTAACTTATCCAAGTTGTTACACTAAA
130 TACATTCAAAGATAAAAGTTTAAATAACATTGTAATGTTTAACTTATCCAAGTTATTACACTAAA
55954 A
195 A
55955 AATAGAAGAT
Statistics
Matches: 164, Mismatches: 26, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
222 138 0.84
223 9 0.05
224 7 0.04
225 10 0.06
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (222 bp):
TTAACTTATCCAAGTTGTTACAATCAAAGATGGAAGTTTGAATATCGCTACAGAGTTCAACTTAT
CCAAGTTGTTACATTAAAAAAATGAAAGTTTACATAGAGTTGTAAAGTCTTAACATAACAAAGTT
ACATTCAAAGATAAAAGTTTAAATAACATTGTAATGTTTAACTTATCCAAGTTATTACACTAAAA
TGAAAGTTTAAATAATATTAAAATTTC
Found at i:56400 original size:56 final size:56
Alignment explanation
Indices: 56332--56516 Score: 205
Period size: 56 Copynumber: 3.3 Consensus size: 56
56322 AAGTAAAGAG
* * * *
56332 TTTAACCTATCCAAGTTGTTACATTTAAAGATGGAAGTTTGGATAGCGTTATAGAT
1 TTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAGCGTTGTAGAT
* * * **
56388 TTTAACTTATCCAAGTCGTTGCATTCAAAAATGGAAGTTTGAATAATGTTGTA-AT
1 TTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAGCGTTGTAGAT
** * *
56443 GTTTAACTTGCCCAAGTTGTTACATTCAAAGACT-GAAGCTTGTAA-AGCGTTGTAGAG
1 -TTTAACTTATCCAAGTTGTTACATTCAAAGA-TGGAAGTTTG-AATAGCGTTGTAGAT
56500 TTTAACTTATCCAAGTT
1 TTTAACTTATCCAAGTT
56517 AATATATTAC
Statistics
Matches: 105, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
55 2 0.02
56 99 0.94
57 4 0.04
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (56 bp):
TTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAGCGTTGTAGAT
Found at i:56541 original size:112 final size:112
Alignment explanation
Indices: 56342--56544 Score: 248
Period size: 112 Copynumber: 1.8 Consensus size: 112
56332 TTTAACCTAT
* * * * **
56342 CCAAGTTGTTACATTTAAAGATGGAAGTTTGGATAGCGTTATAGATTTTAACTTATCCAAGTCGT
1 CCAAGTTGTTACATTCAAAGATGGAAGCTTGGAAAGCGTTATAGAGTTTAACTTATCCAAGTCAA
* *
56407 TGCATTCAAAAATGGAAGTTTGAATAATGTTGTAATGTTTAACTTGC
66 TACATTCAAAAATGAAAGTTTGAATAATGTTGTAATGTTTAACTTGC
* * *
56454 CCAAGTTGTTACATTCAAAGACT-GAAGCTTGTAAAGCGTTGTAGAGTTTAACTTATCCAAGTTA
1 CCAAGTTGTTACATTCAAAGA-TGGAAGCTTGGAAAGCGTTATAGAGTTTAACTTATCCAAGTCA
* * *
56518 ATATATT-ACAAGATGAAATTTTGAATA
65 ATACATTCA-AAAATGAAAGTTTGAATA
56545 GCATTAAAAT
Statistics
Matches: 75, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
111 1 0.01
112 73 0.97
113 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.36
Consensus pattern (112 bp):
CCAAGTTGTTACATTCAAAGATGGAAGCTTGGAAAGCGTTATAGAGTTTAACTTATCCAAGTCAA
TACATTCAAAAATGAAAGTTTGAATAATGTTGTAATGTTTAACTTGC
Found at i:56680 original size:149 final size:149
Alignment explanation
Indices: 56413--56698 Score: 355
Period size: 149 Copynumber: 1.9 Consensus size: 149
56403 TCGTTGCATT
* * * *
56413 CAAAAATGGAAGTTTGAATAATGTTGTAATGTTTAACTTGCCCAAGTTGTTACATTCAAAGACTG
1 CAAAAATGGAAGTTTGAATAACGTTGTAAAGTTTAACTTACCCAAGTTGATACATTCAAAGACTG
* *
56478 AAGCTTGTAAAGCGTTGTAGAGTTTAACTTATCCAAGTTAATATATTACAAGATGAAATTTTGAA
66 AAGCTTGTAAAGCGTTGTAGAGTTTAACTTATCCAAGTTAATACATTACAAGATGAAAGTTTGAA
*
56543 TAGCATTAAAATGTCTTAA
131 TAACATTAAAATGTCTTAA
* * *
56562 CAAAGATGGAAGTTTGAATAACGTTGTAAAGTTTAACTTATCGAAGTTGATACATTC-AAGA-TG
1 CAAAAATGGAAGTTTGAATAACGTTGTAAAGTTTAACTTACCCAAGTTGATACATTCAAAGACT-
* * * * ** *
56625 GAAGTTTGTATATCGTTGTA-ATGTCTTAGCTTATCCAAGTTTTTACATT-CGAAGATGGAAGTT
65 GAAGCTTGTAAAGCGTTGTAGA-GT-TTAACTTATCCAAGTTAATACATTAC-AAGATGAAAGTT
56688 TGAATAACATT
127 TGAATAACATT
56699 GTAATGTTTA
Statistics
Matches: 116, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
147 2 0.02
148 24 0.21
149 90 0.78
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (149 bp):
CAAAAATGGAAGTTTGAATAACGTTGTAAAGTTTAACTTACCCAAGTTGATACATTCAAAGACTG
AAGCTTGTAAAGCGTTGTAGAGTTTAACTTATCCAAGTTAATACATTACAAGATGAAAGTTTGAA
TAACATTAAAATGTCTTAA
Found at i:56714 original size:56 final size:56
Alignment explanation
Indices: 56562--56827 Score: 324
Period size: 56 Copynumber: 4.8 Consensus size: 56
56552 AATGTCTTAA
* * *
56562 CAAAGATGGAAGTTTGAATAACGTTGTAAAGTTTAACTTATCGAAGTTGATACATT
1 CAAAGATGGAAGTTTGAATAACGTTGTAATGTTTAACTTATCCAAGTTGTTACATT
* * * *
56618 C-AAGATGGAAGTTTGTATATCGTTGTAATGTCTTAGCTTATCCAAGTTTTTACATT
1 CAAAGATGGAAGTTTGAATAACGTTGTAATGT-TTAACTTATCCAAGTTGTTACATT
* * *
56674 CGAAGATGGAAGTTTGAATAACATTGTAATGTTTAACTTATCCCAGTTGTTACATT
1 CAAAGATGGAAGTTTGAATAACGTTGTAATGTTTAACTTATCCAAGTTGTTACATT
*
56730 CAAAGATGGAAGTTTAAATAGA-GTTGTAGAT-TTTAACTTATCCAAGTTGTTACATT
1 CAAAGATGGAAGTTTGAATA-ACGTTGTA-ATGTTTAACTTATCCAAGTTGTTACATT
* * * * *
56786 AAAATATGTAAGTTTGAATAGCATTGTAGA-GTTTAACTTATC
1 CAAAGATGGAAGTTTGAATAACGTTGTA-ATGTTTAACTTATC
56828 TAGTTTAAGG
Statistics
Matches: 181, Mismatches: 23, Indels: 12
0.84 0.11 0.06
Matches are distributed among these distances:
55 27 0.15
56 124 0.69
57 30 0.17
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (56 bp):
CAAAGATGGAAGTTTGAATAACGTTGTAATGTTTAACTTATCCAAGTTGTTACATT
Found at i:56804 original size:261 final size:261
Alignment explanation
Indices: 56330--56810 Score: 641
Period size: 261 Copynumber: 1.8 Consensus size: 261
56320 CGAAGTAAAG
*
56330 AGTTTAACCTATCCAAGTTGTTACATTTAAAGATGGAAGTTTGGATAGCGTTATAGATTTTAACT
1 AGTTTAACCTATCCAAGTTGATACATTTAAAGATGGAAGTTTGGATAGCGTTATAGATTTTAACT
* **
56395 TATCCAAGTCGTTGCATTCAAAAATGGAAGTTTGAATAATGTTGTAATGTTTAACTTGCCCAAGT
66 TATCCAAGTCGTTACATTCAAAAATGGAAGTTTGAATAACATTGTAATGTTTAACTTGCCCAAGT
* *
56460 TGTTACATTCAAAGACTGAAGCTTGTAAAGCGTTGTAGAGTTTAACTTATCCAAGTTAATATATT
131 TGTTACATTCAAAGACTGAAGCTTGTAAAGAGTTGTAGAGTTTAACTTATCCAAGTTAATACATT
* *
56525 ACAAGATGAAATTTTGAATAGCATTAAAATGTCTTAACAAAGATGGAAGTTTGAATAACGTTGTA
196 AAAAGATGAAAGTTTGAATAGCATTAAAATGTCTTAACAAAGATGGAAGTTTGAATAACGTTGTA
56590 A
261 A
* * * * * * *
56591 AGTTTAACTTATCGAAGTTGATACA-TTCAAGATGGAAGTTTGTATATCGTTGTA-ATGTCTTAG
1 AGTTTAACCTATCCAAGTTGATACATTTAAAGATGGAAGTTTGGATAGCGTTATAGAT-T-TTAA
** * * *
56654 CTTATCCAAGTTTTTACATTCGAAGATGGAAGTTTGAATAACATTGTAATGTTTAACTTATCCC-
64 CTTATCCAAGTCGTTACATTCAAAAATGGAAGTTTGAATAACATTGTAATGTTTAACTT-GCCCA
* **
56718 AGTTGTTACATTCAAAGA-TGGAAG-TT-TAAATAGAGTTGTAGATTTTAACTTATCCAAGTTGT
128 AGTTGTTACATTCAAAGACT-GAAGCTTGT-AA-AGAGTTGTAGAGTTTAACTTATCCAAGTTAA
* *
56780 TACATTAAAATATGTAAGTTTGAATAGCATT
190 TACATTAAAAGATGAAAGTTTGAATAGCATT
56811 GTAGAGTTTA
Statistics
Matches: 189, Mismatches: 25, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
259 3 0.02
260 31 0.16
261 152 0.80
262 3 0.02
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.37
Consensus pattern (261 bp):
AGTTTAACCTATCCAAGTTGATACATTTAAAGATGGAAGTTTGGATAGCGTTATAGATTTTAACT
TATCCAAGTCGTTACATTCAAAAATGGAAGTTTGAATAACATTGTAATGTTTAACTTGCCCAAGT
TGTTACATTCAAAGACTGAAGCTTGTAAAGAGTTGTAGAGTTTAACTTATCCAAGTTAATACATT
AAAAGATGAAAGTTTGAATAGCATTAAAATGTCTTAACAAAGATGGAAGTTTGAATAACGTTGTA
A
Found at i:56886 original size:15 final size:15
Alignment explanation
Indices: 56866--56924 Score: 93
Period size: 15 Copynumber: 4.0 Consensus size: 15
56856 AATTGGTTTT
56866 CTGGAAAATGAATTA
1 CTGGAAAATGAATTA
56881 CTGGAAAATGAATTA
1 CTGGAAAATGAATTA
**
56896 CTGGAATTTGAATT-
1 CTGGAAAATGAATTA
56910 CTGGAAAATGAATTA
1 CTGGAAAATGAATTA
56925 TATTTCTGGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
14 12 0.31
15 27 0.69
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.31
Consensus pattern (15 bp):
CTGGAAAATGAATTA
Found at i:57154 original size:27 final size:27
Alignment explanation
Indices: 57115--57166 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
57105 ATCATAAAAC
57115 ATAATATTATTATT-TTAAAATATTAAA
1 ATAATATTATTATTATT-AAATATTAAA
57142 ATAAT-TTATTTATTATTAAATATTA
1 ATAATATTA-TTATTATTAAATATTA
57167 TTTTATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 3 0.13
27 18 0.78
28 2 0.09
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
ATAATATTATTATTATTAAATATTAAA
Found at i:57272 original size:23 final size:21
Alignment explanation
Indices: 57226--57293 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 21
57216 AAAATATTAT
*
57226 AAATTATATTAAT-TATTTATTA
1 AAATAATATTAATATA-TT-TTA
*
57248 AAGTAATAGTTTAATATATTTTA
1 AAATAATA--TTAATATATTTTA
* *
57271 AAATATTATTAGTATATTTTA
1 AAATAATATTAATATATTTTA
57292 AA
1 AA
57294 TATCTTTATT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
21 14 0.37
22 6 0.16
23 9 0.24
24 7 0.18
25 2 0.05
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (21 bp):
AAATAATATTAATATATTTTA
Found at i:57281 original size:34 final size:35
Alignment explanation
Indices: 57242--57315 Score: 84
Period size: 34 Copynumber: 2.2 Consensus size: 35
57232 TATTAATTAT
57242 TTATTAAAGTAATAGTTT-AATAT-ATT-TTAAAATA
1 TTATT-AAGT-ATAGTTTAAATATCATTATTAAAATA
* *
57276 TTATT-AGTATATTTTAAATATCTTTATTAAAATA
1 TTATTAAGTATAGTTTAAATATCATTATTAAAATA
57310 TTATTA
1 TTATTA
57316 GATTATTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
31 6 0.18
32 8 0.24
33 2 0.06
34 18 0.53
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (35 bp):
TTATTAAGTATAGTTTAAATATCATTATTAAAATA
Found at i:57310 original size:23 final size:21
Alignment explanation
Indices: 57258--57311 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
57248 AAGTAATAGT
57258 TTAATATATTTTAAAATATTA
1 TTAATATATTTTAAAATATTA
* *
57279 TTAGTATATTTTAAATATCTTTA
1 TTAATATATTTTAAA-AT-ATTA
*
57302 TTAAAATATT
1 TTAATATATT
57312 ATTAGATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 14 0.52
22 2 0.07
23 11 0.41
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (21 bp):
TTAATATATTTTAAAATATTA
Found at i:57323 original size:19 final size:19
Alignment explanation
Indices: 57299--57369 Score: 63
Period size: 19 Copynumber: 3.6 Consensus size: 19
57289 TTAAATATCT
*
57299 TTATTAAAATATTATTAGA
1 TTATTAAAATATTATTAAA
* *
57318 TTATTATATTATTATTAAA
1 TTATTAAAATATTATTAAA
* *
57337 TATATAAATAATATTATT-CA
1 T-TATTAA-AATATTATTAAA
57357 TTATTAAATATAT
1 TTATTAAA-ATAT
57370 AAAATTTTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
18 1 0.02
19 26 0.63
20 6 0.15
21 8 0.20
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (19 bp):
TTATTAAAATATTATTAAA
Found at i:57351 original size:29 final size:29
Alignment explanation
Indices: 57319--57422 Score: 97
Period size: 29 Copynumber: 3.5 Consensus size: 29
57309 ATTATTAGAT
57319 TATTATATTATTATTAAATATATAAATAA
1 TATTATATTATTATTAAATATATAAATAA
* **
57348 TATTAT-TCATTATTAAATATATAAAATTT
1 TATTATATTATTATTAAATATAT-AAATAA
*
57377 TATTATA-TATTTATTAAA-ATAAAAATATAA
1 TATTATATTA-TTATTAAATAT-ATAA-ATAA
57407 TATCTTATATTATTAT
1 TA--TTATATTATTAT
57423 ATATTGATTA
Statistics
Matches: 60, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
28 15 0.25
29 21 0.35
30 13 0.22
32 9 0.15
33 2 0.03
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (29 bp):
TATTATATTATTATTAAATATATAAATAA
Found at i:57458 original size:14 final size:14
Alignment explanation
Indices: 57439--57492 Score: 51
Period size: 14 Copynumber: 4.0 Consensus size: 14
57429 ATTATTTTAT
57439 TATAATATTAAAAA
1 TATAATATTAAAAA
**
57453 TATAATATT-ATTA
1 TATAATATTAAAAA
57466 TA-AATATTAATAAA
1 TATAATATTAA-AAA
*
57480 TAT-ATTTTAAAAA
1 TATAATATTAAAAA
57493 GTTTAATAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
12 6 0.19
13 8 0.25
14 18 0.56
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TATAATATTAAAAA
Found at i:57470 original size:17 final size:18
Alignment explanation
Indices: 57444--57477 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
57434 TTTATTATAA
57444 TATTAAAAATA-TAATAT
1 TATTAAAAATATTAATAT
*
57461 TATTATAAATATTAATA
1 TATTAAAAATATTAATA
57478 AATATATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TATTAAAAATATTAATAT
Found at i:58389 original size:56 final size:56
Alignment explanation
Indices: 58321--58505 Score: 205
Period size: 56 Copynumber: 3.3 Consensus size: 56
58311 AAGTAAAGAG
* * * *
58321 TTTAACCTATCCAAGTTGTTACATTTAAAGATGGAAGTTTGGATAGCGTTATAGAT
1 TTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAGCGTTGTAGAT
* * * **
58377 TTTAACTTATCCAAGTCGTTGCATTCAAAAATGGAAGTTTGAATAATGTTGTA-AT
1 TTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAGCGTTGTAGAT
** * *
58432 GTTTAACTTGCCCAAGTTGTTACATTCAAAGACT-GAAGCTTGTAA-AGCGTTGTAGAG
1 -TTTAACTTATCCAAGTTGTTACATTCAAAGA-TGGAAGTTTG-AATAGCGTTGTAGAT
58489 TTTAACTTATCCAAGTT
1 TTTAACTTATCCAAGTT
58506 AATATATTAC
Statistics
Matches: 105, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
55 2 0.02
56 99 0.94
57 4 0.04
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (56 bp):
TTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAGCGTTGTAGAT
Found at i:58530 original size:112 final size:112
Alignment explanation
Indices: 58331--58533 Score: 248
Period size: 112 Copynumber: 1.8 Consensus size: 112
58321 TTTAACCTAT
* * * * **
58331 CCAAGTTGTTACATTTAAAGATGGAAGTTTGGATAGCGTTATAGATTTTAACTTATCCAAGTCGT
1 CCAAGTTGTTACATTCAAAGATGGAAGCTTGGAAAGCGTTATAGAGTTTAACTTATCCAAGTCAA
* *
58396 TGCATTCAAAAATGGAAGTTTGAATAATGTTGTAATGTTTAACTTGC
66 TACATTCAAAAATGAAAGTTTGAATAATGTTGTAATGTTTAACTTGC
* * *
58443 CCAAGTTGTTACATTCAAAGACT-GAAGCTTGTAAAGCGTTGTAGAGTTTAACTTATCCAAGTTA
1 CCAAGTTGTTACATTCAAAGA-TGGAAGCTTGGAAAGCGTTATAGAGTTTAACTTATCCAAGTCA
* * *
58507 ATATATT-ACAAGATGAAATTTTGAATA
65 ATACATTCA-AAAATGAAAGTTTGAATA
58534 GCATTAAAAT
Statistics
Matches: 75, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
111 1 0.01
112 73 0.97
113 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.36
Consensus pattern (112 bp):
CCAAGTTGTTACATTCAAAGATGGAAGCTTGGAAAGCGTTATAGAGTTTAACTTATCCAAGTCAA
TACATTCAAAAATGAAAGTTTGAATAATGTTGTAATGTTTAACTTGC
Found at i:58669 original size:149 final size:149
Alignment explanation
Indices: 58402--58687 Score: 355
Period size: 149 Copynumber: 1.9 Consensus size: 149
58392 TCGTTGCATT
* * * *
58402 CAAAAATGGAAGTTTGAATAATGTTGTAATGTTTAACTTGCCCAAGTTGTTACATTCAAAGACTG
1 CAAAAATGGAAGTTTGAATAACGTTGTAAAGTTTAACTTACCCAAGTTGATACATTCAAAGACTG
* *
58467 AAGCTTGTAAAGCGTTGTAGAGTTTAACTTATCCAAGTTAATATATTACAAGATGAAATTTTGAA
66 AAGCTTGTAAAGCGTTGTAGAGTTTAACTTATCCAAGTTAATACATTACAAGATGAAAGTTTGAA
*
58532 TAGCATTAAAATGTCTTAA
131 TAACATTAAAATGTCTTAA
* * *
58551 CAAAGATGGAAGTTTGAATAACGTTGTAAAGTTTAACTTATCGAAGTTGATACATTC-AAGA-TG
1 CAAAAATGGAAGTTTGAATAACGTTGTAAAGTTTAACTTACCCAAGTTGATACATTCAAAGACT-
* * * * ** *
58614 GAAGTTTGTATATCGTTGTA-ATGTCTTAGCTTATCCAAGTTTTTACATT-CGAAGATGGAAGTT
65 GAAGCTTGTAAAGCGTTGTAGA-GT-TTAACTTATCCAAGTTAATACATTAC-AAGATGAAAGTT
58677 TGAATAACATT
127 TGAATAACATT
58688 GTAATGTTTA
Statistics
Matches: 116, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
147 2 0.02
148 24 0.21
149 90 0.78
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (149 bp):
CAAAAATGGAAGTTTGAATAACGTTGTAAAGTTTAACTTACCCAAGTTGATACATTCAAAGACTG
AAGCTTGTAAAGCGTTGTAGAGTTTAACTTATCCAAGTTAATACATTACAAGATGAAAGTTTGAA
TAACATTAAAATGTCTTAA
Found at i:58692 original size:261 final size:261
Alignment explanation
Indices: 58319--58799 Score: 641
Period size: 261 Copynumber: 1.8 Consensus size: 261
58309 CGAAGTAAAG
*
58319 AGTTTAACCTATCCAAGTTGTTACATTTAAAGATGGAAGTTTGGATAGCGTTATAGATTTTAACT
1 AGTTTAACCTATCCAAGTTGATACATTTAAAGATGGAAGTTTGGATAGCGTTATAGATTTTAACT
* **
58384 TATCCAAGTCGTTGCATTCAAAAATGGAAGTTTGAATAATGTTGTAATGTTTAACTT-GCCCAAG
66 TATCCAAGTCGTTACATTCAAAAATGGAAGTTTGAATAACATTGTAATGTTTAACTTAGCCC-AG
*
58448 TTGTTACATTCAAAGACT-GAAGCTTGT-AA-AGCGTTGTAGAGTTTAACTTATCCAAGTTAATA
130 TTGTTACATTCAAAGA-TGGAAG-TT-TAAATAGAGTTGTAGAGTTTAACTTATCCAAGTTAATA
* * *
58510 TATTACAAGATGAAATTTTGAATAGCATTAAAATGTCTTAACAAAGATGGAAGTTTGAATAACGT
192 CATTAAAAGATGAAAGTTTGAATAGCATTAAAATGTCTTAACAAAGATGGAAGTTTGAATAACGT
58575 TGTAA
257 TGTAA
* * * * * * *
58580 AGTTTAACTTATCGAAGTTGATACA-TTCAAGATGGAAGTTTGTATATCGTTGTA-ATGTCTTAG
1 AGTTTAACCTATCCAAGTTGATACATTTAAAGATGGAAGTTTGGATAGCGTTATAGAT-T-TTAA
** * * *
58643 CTTATCCAAGTTTTTACATTCGAAGATGGAAGTTTGAATAACATTGTAATGTTTAACTTATCCCA
64 CTTATCCAAGTCGTTACATTCAAAAATGGAAGTTTGAATAACATTGTAATGTTTAACTTAGCCCA
* **
58708 GTTGTTACATTCAAAGATGGAAGTTTAAATAGAGTTGTAGATTTTAACTTATCCAAGTTGTTACA
129 GTTGTTACATTCAAAGATGGAAGTTTAAATAGAGTTGTAGAGTTTAACTTATCCAAGTTAATACA
* *
58773 TTAAAATATGTAAGTTTGAATAGCATT
194 TTAAAAGATGAAAGTTTGAATAGCATT
58800 GTAGAGTTTA
Statistics
Matches: 189, Mismatches: 25, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
259 3 0.02
260 31 0.16
261 152 0.80
262 3 0.02
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.37
Consensus pattern (261 bp):
AGTTTAACCTATCCAAGTTGATACATTTAAAGATGGAAGTTTGGATAGCGTTATAGATTTTAACT
TATCCAAGTCGTTACATTCAAAAATGGAAGTTTGAATAACATTGTAATGTTTAACTTAGCCCAGT
TGTTACATTCAAAGATGGAAGTTTAAATAGAGTTGTAGAGTTTAACTTATCCAAGTTAATACATT
AAAAGATGAAAGTTTGAATAGCATTAAAATGTCTTAACAAAGATGGAAGTTTGAATAACGTTGTA
A
Found at i:58703 original size:56 final size:56
Alignment explanation
Indices: 58551--58816 Score: 324
Period size: 56 Copynumber: 4.8 Consensus size: 56
58541 AATGTCTTAA
* * *
58551 CAAAGATGGAAGTTTGAATAACGTTGTAAAGTTTAACTTATCGAAGTTGATACATT
1 CAAAGATGGAAGTTTGAATAACGTTGTAATGTTTAACTTATCCAAGTTGTTACATT
* * * *
58607 C-AAGATGGAAGTTTGTATATCGTTGTAATGTCTTAGCTTATCCAAGTTTTTACATT
1 CAAAGATGGAAGTTTGAATAACGTTGTAATGT-TTAACTTATCCAAGTTGTTACATT
* * *
58663 CGAAGATGGAAGTTTGAATAACATTGTAATGTTTAACTTATCCCAGTTGTTACATT
1 CAAAGATGGAAGTTTGAATAACGTTGTAATGTTTAACTTATCCAAGTTGTTACATT
*
58719 CAAAGATGGAAGTTTAAATAGA-GTTGTAGAT-TTTAACTTATCCAAGTTGTTACATT
1 CAAAGATGGAAGTTTGAATA-ACGTTGTA-ATGTTTAACTTATCCAAGTTGTTACATT
* * * * *
58775 AAAATATGTAAGTTTGAATAGCATTGTAGA-GTTTAACTTATC
1 CAAAGATGGAAGTTTGAATAACGTTGTA-ATGTTTAACTTATC
58817 TAGTTTAAGG
Statistics
Matches: 181, Mismatches: 23, Indels: 12
0.84 0.11 0.06
Matches are distributed among these distances:
55 27 0.15
56 124 0.69
57 30 0.17
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (56 bp):
CAAAGATGGAAGTTTGAATAACGTTGTAATGTTTAACTTATCCAAGTTGTTACATT
Found at i:58875 original size:15 final size:15
Alignment explanation
Indices: 58855--58928 Score: 123
Period size: 15 Copynumber: 5.0 Consensus size: 15
58845 AATTGGTTTT
58855 CTGGAAAATGAATTA
1 CTGGAAAATGAATTA
58870 CTGGAAAATGAATTA
1 CTGGAAAATGAATTA
58885 CTGGAAAATGAATTA
1 CTGGAAAATGAATTA
**
58900 CTGGAATTTGAATT-
1 CTGGAAAATGAATTA
58914 CTGGAAAATGAATTA
1 CTGGAAAATGAATTA
58929 TATTTCTGGA
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
14 12 0.22
15 42 0.78
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (15 bp):
CTGGAAAATGAATTA
Found at i:59115 original size:27 final size:28
Alignment explanation
Indices: 59079--59131 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
59069 ATCATAAAAC
*
59079 ATAATATTA-TTATTTTTAAAATATTAAA
1 ATAATATTATTTATTATT-AAATATTAAA
59107 ATAAT-TTATTTATTATTAAATATTA
1 ATAATATTATTTATTATTAAATATTA
59132 TTTTTATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
ATAATATTATTTATTATTAAATATTAAA
Found at i:59284 original size:23 final size:23
Alignment explanation
Indices: 59235--59294 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 23
59225 GTGTAATATT
* **
59235 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAATATATTAATTAAA
* *
59258 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAATATATTAATTAAA
*
59281 ATATTATTAGATAT
1 ATATT-TTAAATAT
59295 TATATTATTA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 23 0.77
24 7 0.23
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (23 bp):
ATATTTTAAATATATTAATTAAA
Found at i:59360 original size:27 final size:26
Alignment explanation
Indices: 59297--59360 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 26
59287 TTAGATATTA
59297 TATTATTATTAAATATAAAATAATAT
1 TATTATTATTAAATATAAAATAATAT
*
59323 TATTCATTATTAAATATATAAA-AATTT
1 TATT-ATTATTAAATATA-AAATAATAT
59350 TATTATATATT
1 TATTAT-TATT
59361 TATTAAAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
26 6 0.18
27 25 0.74
28 3 0.09
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (26 bp):
TATTATTATTAAATATAAAATAATAT
Found at i:59373 original size:27 final size:28
Alignment explanation
Indices: 59291--59402 Score: 83
Period size: 27 Copynumber: 3.9 Consensus size: 28
59281 ATATTATTAG
59291 ATATTATAT-TATTATTAAATATAAAATA
1 ATATTATATAT-TTATTAAATATAAAATA
59319 ATATTAT-TCA-TTATTAAATATATAAA-A
1 ATATTATAT-ATTTATTAAATATA-AAATA
*
59346 ATTTTATTATATATTTATTAAAATAAAAATATA
1 A---TATTATATATTTATT-AAATATAAA-ATA
59379 ATATCT-TATA-TTATTATAATATAA
1 ATAT-TATATATTTATTA-AATATAA
59403 TTGATTATTT
Statistics
Matches: 69, Mismatches: 2, Indels: 25
0.72 0.02 0.26
Matches are distributed among these distances:
27 15 0.22
28 11 0.16
29 11 0.16
30 14 0.20
31 9 0.13
32 7 0.10
33 2 0.03
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (28 bp):
ATATTATATATTTATTAAATATAAAATA
Found at i:59424 original size:8 final size:8
Alignment explanation
Indices: 59413--59455 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
59403 TTGATTATTT
59413 TATTATAA
1 TATTATAA
59421 TATTA-AA
1 TATTATAA
*
59428 -AATATAA
1 TATTATAA
*
59435 TATTATAT
1 TATTATAA
59443 TATTATAA
1 TATTATAA
59451 TATTA
1 TATTA
59456 ATAAATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
6 3 0.10
7 4 0.14
8 22 0.76
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (8 bp):
TATTATAA
Found at i:59446 original size:30 final size:30
Alignment explanation
Indices: 59293--59464 Score: 113
Period size: 30 Copynumber: 5.9 Consensus size: 30
59283 ATTATTAGAT
*
59293 ATTATATTATTATTAA-A-TATAAA-ATAAT
1 ATTATATTATTA-TAATATTAAAAATATAAT
*
59321 ATTATTCATTATTA-AATATATAAAAAT-T-TT
1 ATTA-T-ATTATTATAATAT-TAAAAATATAAT
*
59351 ATTATA-TATTTATTAA-AATAAAAATATAAT
1 ATTATATTA-TTA-TAATATTAAAAATATAAT
*
59381 ATCTTATATTATTATAATA-T---AAT-T--G
1 A--TTATATTATTATAATATTAAAAATATAAT
*
59406 ATTATTTTATTATAATATTAAAAATATAAT
1 ATTATATTATTATAATATTAAAAATATAAT
59436 ATTATATTATTATAATATTAATAAATATA
1 ATTATATTATTATAATATTAA-AAATATA
59465 TTTTAAAAGT
Statistics
Matches: 113, Mismatches: 8, Indels: 43
0.69 0.05 0.26
Matches are distributed among these distances:
23 15 0.13
24 1 0.01
25 1 0.01
27 6 0.05
28 21 0.19
29 5 0.04
30 36 0.32
31 17 0.15
32 9 0.08
33 2 0.02
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (30 bp):
ATTATATTATTATAATATTAAAAATATAAT
Found at i:60058 original size:56 final size:57
Alignment explanation
Indices: 59967--60087 Score: 136
Period size: 56 Copynumber: 2.1 Consensus size: 57
59957 CATTAAAAGA
* * * ** ** *
59967 TGGATAAGTTAAAACATTACAACGCTATTTGAACTTCCATATTTGAATGTAGCAGCT
1 TGGATAAGCTAAAACATTACAACCCTACTCAAACTTCCATATGAGAATGTAGCAACT
* * *
60024 TGGATAAGCT-AAACATTACAACCCTACTCAAACTTCTATCTGAGAATGTATCAACT
1 TGGATAAGCTAAAACATTACAACCCTACTCAAACTTCCATATGAGAATGTAGCAACT
60080 TGGATAAG
1 TGGATAAG
60088 TTTATGGAAG
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
56 44 0.83
57 9 0.17
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (57 bp):
TGGATAAGCTAAAACATTACAACCCTACTCAAACTTCCATATGAGAATGTAGCAACT
Found at i:60368 original size:56 final size:56
Alignment explanation
Indices: 60300--60484 Score: 205
Period size: 56 Copynumber: 3.3 Consensus size: 56
60290 AAGTAAAGAG
* * * *
60300 TTTAACCTATCCAAGTTGTTACATTTAAAGATGGAAGTTTGGATAGCGTTATAGAT
1 TTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAGCGTTGTAGAT
* * * **
60356 TTTAACTTATCCAAGTCGTTGCATTCAAAAATGGAAGTTTGAATAATGTTGTA-AT
1 TTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAGCGTTGTAGAT
** * *
60411 GTTTAACTTGCCCAAGTTGTTACATTCAAAGACT-GAAGCTTGTAA-AGCGTTGTAGAG
1 -TTTAACTTATCCAAGTTGTTACATTCAAAGA-TGGAAGTTTG-AATAGCGTTGTAGAT
60468 TTTAACTTATCCAAGTT
1 TTTAACTTATCCAAGTT
60485 AATATATTAC
Statistics
Matches: 105, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
55 2 0.02
56 99 0.94
57 4 0.04
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (56 bp):
TTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAGCGTTGTAGAT
Found at i:60509 original size:112 final size:112
Alignment explanation
Indices: 60310--60512 Score: 248
Period size: 112 Copynumber: 1.8 Consensus size: 112
60300 TTTAACCTAT
* * * * **
60310 CCAAGTTGTTACATTTAAAGATGGAAGTTTGGATAGCGTTATAGATTTTAACTTATCCAAGTCGT
1 CCAAGTTGTTACATTCAAAGATGGAAGCTTGGAAAGCGTTATAGAGTTTAACTTATCCAAGTCAA
* *
60375 TGCATTCAAAAATGGAAGTTTGAATAATGTTGTAATGTTTAACTTGC
66 TACATTCAAAAATGAAAGTTTGAATAATGTTGTAATGTTTAACTTGC
* * *
60422 CCAAGTTGTTACATTCAAAGACT-GAAGCTTGTAAAGCGTTGTAGAGTTTAACTTATCCAAGTTA
1 CCAAGTTGTTACATTCAAAGA-TGGAAGCTTGGAAAGCGTTATAGAGTTTAACTTATCCAAGTCA
* * *
60486 ATATATT-ACAAGATGAAATTTTGAATA
65 ATACATTCA-AAAATGAAAGTTTGAATA
60513 GCATTAAAAT
Statistics
Matches: 75, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
111 1 0.01
112 73 0.97
113 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.36
Consensus pattern (112 bp):
CCAAGTTGTTACATTCAAAGATGGAAGCTTGGAAAGCGTTATAGAGTTTAACTTATCCAAGTCAA
TACATTCAAAAATGAAAGTTTGAATAATGTTGTAATGTTTAACTTGC
Found at i:60648 original size:149 final size:149
Alignment explanation
Indices: 60381--60666 Score: 355
Period size: 149 Copynumber: 1.9 Consensus size: 149
60371 TCGTTGCATT
* * * *
60381 CAAAAATGGAAGTTTGAATAATGTTGTAATGTTTAACTTGCCCAAGTTGTTACATTCAAAGACTG
1 CAAAAATGGAAGTTTGAATAACGTTGTAAAGTTTAACTTACCCAAGTTGATACATTCAAAGACTG
* *
60446 AAGCTTGTAAAGCGTTGTAGAGTTTAACTTATCCAAGTTAATATATTACAAGATGAAATTTTGAA
66 AAGCTTGTAAAGCGTTGTAGAGTTTAACTTATCCAAGTTAATACATTACAAGATGAAAGTTTGAA
*
60511 TAGCATTAAAATGTCTTAA
131 TAACATTAAAATGTCTTAA
* * *
60530 CAAAGATGGAAGTTTGAATAACGTTGTAAAGTTTAACTTATCGAAGTTGATACATTC-AAGA-TG
1 CAAAAATGGAAGTTTGAATAACGTTGTAAAGTTTAACTTACCCAAGTTGATACATTCAAAGACT-
* * * * ** *
60593 GAAGTTTGTATATCGTTGTA-ATGTCTTAGCTTATCCAAGTTTTTACATT-CGAAGATGGAAGTT
65 GAAGCTTGTAAAGCGTTGTAGA-GT-TTAACTTATCCAAGTTAATACATTAC-AAGATGAAAGTT
60656 TGAATAACATT
127 TGAATAACATT
60667 GTAATGTTTA
Statistics
Matches: 116, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
147 2 0.02
148 24 0.21
149 90 0.78
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (149 bp):
CAAAAATGGAAGTTTGAATAACGTTGTAAAGTTTAACTTACCCAAGTTGATACATTCAAAGACTG
AAGCTTGTAAAGCGTTGTAGAGTTTAACTTATCCAAGTTAATACATTACAAGATGAAAGTTTGAA
TAACATTAAAATGTCTTAA
Found at i:60671 original size:261 final size:261
Alignment explanation
Indices: 60298--60778 Score: 641
Period size: 261 Copynumber: 1.8 Consensus size: 261
60288 CGAAGTAAAG
*
60298 AGTTTAACCTATCCAAGTTGTTACATTTAAAGATGGAAGTTTGGATAGCGTTATAGATTTTAACT
1 AGTTTAACCTATCCAAGTTGATACATTTAAAGATGGAAGTTTGGATAGCGTTATAGATTTTAACT
* **
60363 TATCCAAGTCGTTGCATTCAAAAATGGAAGTTTGAATAATGTTGTAATGTTTAACTT-GCCCAAG
66 TATCCAAGTCGTTACATTCAAAAATGGAAGTTTGAATAACATTGTAATGTTTAACTTAGCCC-AG
*
60427 TTGTTACATTCAAAGACT-GAAGCTTGT-AA-AGCGTTGTAGAGTTTAACTTATCCAAGTTAATA
130 TTGTTACATTCAAAGA-TGGAAG-TT-TAAATAGAGTTGTAGAGTTTAACTTATCCAAGTTAATA
* * *
60489 TATTACAAGATGAAATTTTGAATAGCATTAAAATGTCTTAACAAAGATGGAAGTTTGAATAACGT
192 CATTAAAAGATGAAAGTTTGAATAGCATTAAAATGTCTTAACAAAGATGGAAGTTTGAATAACGT
60554 TGTAA
257 TGTAA
* * * * * * *
60559 AGTTTAACTTATCGAAGTTGATACA-TTCAAGATGGAAGTTTGTATATCGTTGTA-ATGTCTTAG
1 AGTTTAACCTATCCAAGTTGATACATTTAAAGATGGAAGTTTGGATAGCGTTATAGAT-T-TTAA
** * * *
60622 CTTATCCAAGTTTTTACATTCGAAGATGGAAGTTTGAATAACATTGTAATGTTTAACTTATCCCA
64 CTTATCCAAGTCGTTACATTCAAAAATGGAAGTTTGAATAACATTGTAATGTTTAACTTAGCCCA
* **
60687 GTTGTTACATTCAAAGATGGAAGTTTAAATAGAGTTGTAGATTTTAACTTATCCAAGTTGTTACA
129 GTTGTTACATTCAAAGATGGAAGTTTAAATAGAGTTGTAGAGTTTAACTTATCCAAGTTAATACA
* *
60752 TTAAAATATGTAAGTTTGAATAGCATT
194 TTAAAAGATGAAAGTTTGAATAGCATT
60779 GTAGAGTTTA
Statistics
Matches: 189, Mismatches: 25, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
259 3 0.02
260 31 0.16
261 152 0.80
262 3 0.02
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.37
Consensus pattern (261 bp):
AGTTTAACCTATCCAAGTTGATACATTTAAAGATGGAAGTTTGGATAGCGTTATAGATTTTAACT
TATCCAAGTCGTTACATTCAAAAATGGAAGTTTGAATAACATTGTAATGTTTAACTTAGCCCAGT
TGTTACATTCAAAGATGGAAGTTTAAATAGAGTTGTAGAGTTTAACTTATCCAAGTTAATACATT
AAAAGATGAAAGTTTGAATAGCATTAAAATGTCTTAACAAAGATGGAAGTTTGAATAACGTTGTA
A
Found at i:60682 original size:56 final size:56
Alignment explanation
Indices: 60530--60795 Score: 324
Period size: 56 Copynumber: 4.8 Consensus size: 56
60520 AATGTCTTAA
* * *
60530 CAAAGATGGAAGTTTGAATAACGTTGTAAAGTTTAACTTATCGAAGTTGATACATT
1 CAAAGATGGAAGTTTGAATAACGTTGTAATGTTTAACTTATCCAAGTTGTTACATT
* * * *
60586 C-AAGATGGAAGTTTGTATATCGTTGTAATGTCTTAGCTTATCCAAGTTTTTACATT
1 CAAAGATGGAAGTTTGAATAACGTTGTAATGT-TTAACTTATCCAAGTTGTTACATT
* * *
60642 CGAAGATGGAAGTTTGAATAACATTGTAATGTTTAACTTATCCCAGTTGTTACATT
1 CAAAGATGGAAGTTTGAATAACGTTGTAATGTTTAACTTATCCAAGTTGTTACATT
*
60698 CAAAGATGGAAGTTTAAATAGA-GTTGTAGAT-TTTAACTTATCCAAGTTGTTACATT
1 CAAAGATGGAAGTTTGAATA-ACGTTGTA-ATGTTTAACTTATCCAAGTTGTTACATT
* * * * *
60754 AAAATATGTAAGTTTGAATAGCATTGTAGA-GTTTAACTTATC
1 CAAAGATGGAAGTTTGAATAACGTTGTA-ATGTTTAACTTATC
60796 TAGTTTAAGG
Statistics
Matches: 181, Mismatches: 23, Indels: 12
0.84 0.11 0.06
Matches are distributed among these distances:
55 27 0.15
56 124 0.69
57 30 0.17
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (56 bp):
CAAAGATGGAAGTTTGAATAACGTTGTAATGTTTAACTTATCCAAGTTGTTACATT
Found at i:60854 original size:15 final size:15
Alignment explanation
Indices: 60834--60892 Score: 93
Period size: 15 Copynumber: 4.0 Consensus size: 15
60824 AATTGGTTTT
60834 CTGGAAAATGAATTA
1 CTGGAAAATGAATTA
60849 CTGGAAAATGAATTA
1 CTGGAAAATGAATTA
**
60864 CTGGAATTTGAATT-
1 CTGGAAAATGAATTA
60878 CTGGAAAATGAATTA
1 CTGGAAAATGAATTA
60893 TATTTCTGGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
14 12 0.31
15 27 0.69
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.31
Consensus pattern (15 bp):
CTGGAAAATGAATTA
Found at i:61120 original size:27 final size:28
Alignment explanation
Indices: 61084--61136 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
61074 ATCATAAAAC
*
61084 ATAATATTA-TTATTTTTAAAATATTAAA
1 ATAATATTATTTATTATT-AAATATTAAA
61112 ATAAT-TTATTTATTATTAAATATTA
1 ATAATATTATTTATTATTAAATATTA
61137 TTTTTATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
ATAATATTATTTATTATTAAATATTAAA
Found at i:61289 original size:23 final size:23
Alignment explanation
Indices: 61240--61290 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
61230 GTGTAATATT
**
61240 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAAAATATTAATTAAA
* * *
61263 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAAAATATTAATTAAA
61286 ATATT
1 ATATT
61291 ATTAGATTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAAAATATTAATTAAA
Found at i:61302 original size:19 final size:19
Alignment explanation
Indices: 61278--61348 Score: 63
Period size: 19 Copynumber: 3.6 Consensus size: 19
61268 TTAAATATCT
*
61278 TTATTAAAATATTATTAGA
1 TTATTAAAATATTATTAAA
* *
61297 TTATTATATTATTATTAAA
1 TTATTAAAATATTATTAAA
* *
61316 TATATAAATAATATTATT-CA
1 T-TATTAA-AATATTATTAAA
61336 TTATTAAATATAT
1 TTATTAAA-ATAT
61349 AAAAATTTTA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
18 1 0.02
19 26 0.63
20 6 0.15
21 8 0.20
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (19 bp):
TTATTAAAATATTATTAAA
Found at i:61346 original size:28 final size:26
Alignment explanation
Indices: 61303--61367 Score: 94
Period size: 28 Copynumber: 2.4 Consensus size: 26
61293 TAGATTATTA
61303 TATTATTATTAAATATATAAATAATAT
1 TATTATTATTAAATATATAAA-AATAT
*
61330 TATTCATTATTAAATATATAAAAATTT
1 TATT-ATTATTAAATATATAAAAATAT
61357 TATTATATATT
1 TATTAT-TATT
61368 TATTAAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
26 2 0.06
27 16 0.46
28 17 0.49
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (26 bp):
TATTATTATTAAATATATAAAAATAT
Found at i:62362 original size:56 final size:56
Alignment explanation
Indices: 62294--62478 Score: 205
Period size: 56 Copynumber: 3.3 Consensus size: 56
62284 AAGTAAAGAG
* * * *
62294 TTTAACCTATCCAAGTTGTTACATTTAAAGATGGAAGTTTGGATAGCGTTATAGAT
1 TTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAGCGTTGTAGAT
* * * **
62350 TTTAACTTATCCAAGTCGTTGCATTCAAAAATGGAAGTTTGAATAATGTTGTA-AT
1 TTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAGCGTTGTAGAT
** * *
62405 GTTTAACTTGCCCAAGTTGTTACATTCAAAGACT-GAAGCTTGTAA-AGCGTTGTAGAG
1 -TTTAACTTATCCAAGTTGTTACATTCAAAGA-TGGAAGTTTG-AATAGCGTTGTAGAT
62462 TTTAACTTATCCAAGTT
1 TTTAACTTATCCAAGTT
62479 AATATATTAC
Statistics
Matches: 105, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
55 2 0.02
56 99 0.94
57 4 0.04
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (56 bp):
TTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAGCGTTGTAGAT
Found at i:62503 original size:112 final size:112
Alignment explanation
Indices: 62304--62506 Score: 248
Period size: 112 Copynumber: 1.8 Consensus size: 112
62294 TTTAACCTAT
* * * * **
62304 CCAAGTTGTTACATTTAAAGATGGAAGTTTGGATAGCGTTATAGATTTTAACTTATCCAAGTCGT
1 CCAAGTTGTTACATTCAAAGATGGAAGCTTGGAAAGCGTTATAGAGTTTAACTTATCCAAGTCAA
* *
62369 TGCATTCAAAAATGGAAGTTTGAATAATGTTGTAATGTTTAACTTGC
66 TACATTCAAAAATGAAAGTTTGAATAATGTTGTAATGTTTAACTTGC
* * *
62416 CCAAGTTGTTACATTCAAAGACT-GAAGCTTGTAAAGCGTTGTAGAGTTTAACTTATCCAAGTTA
1 CCAAGTTGTTACATTCAAAGA-TGGAAGCTTGGAAAGCGTTATAGAGTTTAACTTATCCAAGTCA
* * *
62480 ATATATT-ACAAGATGAAATTTTGAATA
65 ATACATTCA-AAAATGAAAGTTTGAATA
62507 GCATTAAAAT
Statistics
Matches: 75, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
111 1 0.01
112 73 0.97
113 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.36
Consensus pattern (112 bp):
CCAAGTTGTTACATTCAAAGATGGAAGCTTGGAAAGCGTTATAGAGTTTAACTTATCCAAGTCAA
TACATTCAAAAATGAAAGTTTGAATAATGTTGTAATGTTTAACTTGC
Found at i:62642 original size:149 final size:149
Alignment explanation
Indices: 62375--62660 Score: 355
Period size: 149 Copynumber: 1.9 Consensus size: 149
62365 TCGTTGCATT
* * * *
62375 CAAAAATGGAAGTTTGAATAATGTTGTAATGTTTAACTTGCCCAAGTTGTTACATTCAAAGACTG
1 CAAAAATGGAAGTTTGAATAACGTTGTAAAGTTTAACTTACCCAAGTTGATACATTCAAAGACTG
* *
62440 AAGCTTGTAAAGCGTTGTAGAGTTTAACTTATCCAAGTTAATATATTACAAGATGAAATTTTGAA
66 AAGCTTGTAAAGCGTTGTAGAGTTTAACTTATCCAAGTTAATACATTACAAGATGAAAGTTTGAA
*
62505 TAGCATTAAAATGTCTTAA
131 TAACATTAAAATGTCTTAA
* * *
62524 CAAAGATGGAAGTTTGAATAACGTTGTAAAGTTTAACTTATCGAAGTTGATACATTC-AAGA-TG
1 CAAAAATGGAAGTTTGAATAACGTTGTAAAGTTTAACTTACCCAAGTTGATACATTCAAAGACT-
* * * * ** *
62587 GAAGTTTGTATATCGTTGTA-ATGTCTTAGCTTATCCAAGTTTTTACATT-CGAAGATGGAAGTT
65 GAAGCTTGTAAAGCGTTGTAGA-GT-TTAACTTATCCAAGTTAATACATTAC-AAGATGAAAGTT
62650 TGAATAACATT
127 TGAATAACATT
62661 GTAATGTTTA
Statistics
Matches: 116, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
147 2 0.02
148 24 0.21
149 90 0.78
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (149 bp):
CAAAAATGGAAGTTTGAATAACGTTGTAAAGTTTAACTTACCCAAGTTGATACATTCAAAGACTG
AAGCTTGTAAAGCGTTGTAGAGTTTAACTTATCCAAGTTAATACATTACAAGATGAAAGTTTGAA
TAACATTAAAATGTCTTAA
Found at i:62665 original size:261 final size:261
Alignment explanation
Indices: 62292--62772 Score: 641
Period size: 261 Copynumber: 1.8 Consensus size: 261
62282 CGAAGTAAAG
*
62292 AGTTTAACCTATCCAAGTTGTTACATTTAAAGATGGAAGTTTGGATAGCGTTATAGATTTTAACT
1 AGTTTAACCTATCCAAGTTGATACATTTAAAGATGGAAGTTTGGATAGCGTTATAGATTTTAACT
* **
62357 TATCCAAGTCGTTGCATTCAAAAATGGAAGTTTGAATAATGTTGTAATGTTTAACTT-GCCCAAG
66 TATCCAAGTCGTTACATTCAAAAATGGAAGTTTGAATAACATTGTAATGTTTAACTTAGCCC-AG
*
62421 TTGTTACATTCAAAGACT-GAAGCTTGT-AA-AGCGTTGTAGAGTTTAACTTATCCAAGTTAATA
130 TTGTTACATTCAAAGA-TGGAAG-TT-TAAATAGAGTTGTAGAGTTTAACTTATCCAAGTTAATA
* * *
62483 TATTACAAGATGAAATTTTGAATAGCATTAAAATGTCTTAACAAAGATGGAAGTTTGAATAACGT
192 CATTAAAAGATGAAAGTTTGAATAGCATTAAAATGTCTTAACAAAGATGGAAGTTTGAATAACGT
62548 TGTAA
257 TGTAA
* * * * * * *
62553 AGTTTAACTTATCGAAGTTGATACA-TTCAAGATGGAAGTTTGTATATCGTTGTA-ATGTCTTAG
1 AGTTTAACCTATCCAAGTTGATACATTTAAAGATGGAAGTTTGGATAGCGTTATAGAT-T-TTAA
** * * *
62616 CTTATCCAAGTTTTTACATTCGAAGATGGAAGTTTGAATAACATTGTAATGTTTAACTTATCCCA
64 CTTATCCAAGTCGTTACATTCAAAAATGGAAGTTTGAATAACATTGTAATGTTTAACTTAGCCCA
* **
62681 GTTGTTACATTCAAAGATGGAAGTTTAAATAGAGTTGTAGATTTTAACTTATCCAAGTTGTTACA
129 GTTGTTACATTCAAAGATGGAAGTTTAAATAGAGTTGTAGAGTTTAACTTATCCAAGTTAATACA
* *
62746 TTAAAATATGTAAGTTTGAATAGCATT
194 TTAAAAGATGAAAGTTTGAATAGCATT
62773 GTAGAGTTTA
Statistics
Matches: 189, Mismatches: 25, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
259 3 0.02
260 31 0.16
261 152 0.80
262 3 0.02
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.37
Consensus pattern (261 bp):
AGTTTAACCTATCCAAGTTGATACATTTAAAGATGGAAGTTTGGATAGCGTTATAGATTTTAACT
TATCCAAGTCGTTACATTCAAAAATGGAAGTTTGAATAACATTGTAATGTTTAACTTAGCCCAGT
TGTTACATTCAAAGATGGAAGTTTAAATAGAGTTGTAGAGTTTAACTTATCCAAGTTAATACATT
AAAAGATGAAAGTTTGAATAGCATTAAAATGTCTTAACAAAGATGGAAGTTTGAATAACGTTGTA
A
Found at i:62676 original size:56 final size:56
Alignment explanation
Indices: 62524--62789 Score: 324
Period size: 56 Copynumber: 4.8 Consensus size: 56
62514 AATGTCTTAA
* * *
62524 CAAAGATGGAAGTTTGAATAACGTTGTAAAGTTTAACTTATCGAAGTTGATACATT
1 CAAAGATGGAAGTTTGAATAACGTTGTAATGTTTAACTTATCCAAGTTGTTACATT
* * * *
62580 C-AAGATGGAAGTTTGTATATCGTTGTAATGTCTTAGCTTATCCAAGTTTTTACATT
1 CAAAGATGGAAGTTTGAATAACGTTGTAATGT-TTAACTTATCCAAGTTGTTACATT
* * *
62636 CGAAGATGGAAGTTTGAATAACATTGTAATGTTTAACTTATCCCAGTTGTTACATT
1 CAAAGATGGAAGTTTGAATAACGTTGTAATGTTTAACTTATCCAAGTTGTTACATT
*
62692 CAAAGATGGAAGTTTAAATAGA-GTTGTAGAT-TTTAACTTATCCAAGTTGTTACATT
1 CAAAGATGGAAGTTTGAATA-ACGTTGTA-ATGTTTAACTTATCCAAGTTGTTACATT
* * * * *
62748 AAAATATGTAAGTTTGAATAGCATTGTAGA-GTTTAACTTATC
1 CAAAGATGGAAGTTTGAATAACGTTGTA-ATGTTTAACTTATC
62790 TAGTTTAAGG
Statistics
Matches: 181, Mismatches: 23, Indels: 12
0.84 0.11 0.06
Matches are distributed among these distances:
55 27 0.15
56 124 0.69
57 30 0.17
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (56 bp):
CAAAGATGGAAGTTTGAATAACGTTGTAATGTTTAACTTATCCAAGTTGTTACATT
Found at i:62848 original size:15 final size:15
Alignment explanation
Indices: 62828--62871 Score: 63
Period size: 14 Copynumber: 3.0 Consensus size: 15
62818 AATTGGTTTT
62828 CTGGAAAATGAATTA
1 CTGGAAAATGAATTA
**
62843 CTGGAATTTGAATT-
1 CTGGAAAATGAATTA
62857 CTGGAAAATGAATTA
1 CTGGAAAATGAATTA
62872 TATTTCTGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (15 bp):
CTGGAAAATGAATTA
Found at i:63100 original size:27 final size:27
Alignment explanation
Indices: 63061--63112 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
63051 ATCATAAAAC
63061 ATAATATTATTATT-TTAAAATATTAAA
1 ATAATATTATTATTATT-AAATATTAAA
63088 ATAAT-TTATTTATTATTAAATATTA
1 ATAATATTA-TTATTATTAAATATTA
63113 TTTTTATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 3 0.13
27 18 0.78
28 2 0.09
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
ATAATATTATTATTATTAAATATTAAA
Found at i:63423 original size:22 final size:23
Alignment explanation
Indices: 63395--63441 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
63385 TTGATTATTT
63395 TATTATAATATTAAAAATA-TAA
1 TATTATAATATTAAAAATATTAA
* *
63417 TATTATATTATTATAAATATTAA
1 TATTATAATATTAAAAATATTAA
63440 TA
1 TA
63442 AATATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
TATTATAATATTAAAAATATTAA
Found at i:63428 original size:30 final size:28
Alignment explanation
Indices: 63271--63446 Score: 109
Period size: 28 Copynumber: 6.1 Consensus size: 28
63261 ATATTATTAG
63271 ATTATTATATTATTATTAAATATATAAATAAT
1 ATTATTATATTATTA-T-AATAT-TAAA-AAT
*
63303 ATTATT-CATTATTA-AATATATAAAAAT
1 ATTATTATATTATTATAATAT-TAAAAAT
* *
63330 TTTATTATA-TATTTATTAA-AATAAAAAT
1 ATTATTATATTA-TTA-TAATATTAAAAAT
63358 ATAATATCTTATATTATTATAATA-T---AAT
1 AT--TA--TTATATTATTATAATATTAAAAAT
* *
63386 -TGATTATTTTATTATAATATTAAAAAT
1 ATTATTATATTATTATAATATTAAAAAT
63413 ATAATATTATATTATTATAAATATTAATAAAT
1 AT--TATTATATTATTAT-AATATTAA-AAAT
63445 AT
1 AT
63447 ATTTTAAAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 38
0.71 0.06 0.23
Matches are distributed among these distances:
23 15 0.13
24 1 0.01
25 1 0.01
27 14 0.12
28 26 0.22
29 1 0.01
30 16 0.14
31 19 0.16
32 21 0.18
33 2 0.02
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (28 bp):
ATTATTATATTATTATAATATTAAAAAT
Found at i:63446 original size:22 final size:21
Alignment explanation
Indices: 63402--63454 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
63392 TTTTATTATA
* *
63402 ATATTAAAAATATAATATTAT
1 ATATTATAAATATAATATAAT
63423 ATTATTATAAATATTAATA-AAT
1 A-TATTATAAATA-TAATATAAT
*
63445 ATATTTTAAA
1 ATATTATAAA
63455 AAGTTTAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 9 0.33
22 13 0.48
23 5 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
ATATTATAAATATAATATAAT
Found at i:63447 original size:24 final size:23
Alignment explanation
Indices: 63420--63511 Score: 73
Period size: 24 Copynumber: 3.8 Consensus size: 23
63410 AATATAATAT
63420 TATATTATTATAAATATTAATAAA
1 TATATT-TTATAAATATTAATAAA
* *
63444 TATATTTTAAAAAGT-TTAATAAT
1 TATATTTTATAAA-TATTAATAAA
63467 TAATATTTTGATGAAA-ATTATATTAAA
1 T-ATATTTT-AT-AAATATTA-A-TAAA
*
63494 -ATATTTTATTAATATTAA
1 TATATTTTATAAATATTAA
63512 ATTCATAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 17
0.71 0.06 0.22
Matches are distributed among these distances:
23 17 0.31
24 20 0.36
25 11 0.20
26 4 0.07
27 3 0.05
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (23 bp):
TATATTTTATAAATATTAATAAA
Found at i:64042 original size:56 final size:57
Alignment explanation
Indices: 63951--64071 Score: 136
Period size: 56 Copynumber: 2.1 Consensus size: 57
63941 CATTAAAAGA
* * * ** ** *
63951 TGGATAAGTTAAAACATTACAACGCTATTTGAACTTCCATATTTGAATGTAGCAGCT
1 TGGATAAGCTAAAACATTACAACCCTACTCAAACTTCCATATGAGAATGTAGCAACT
* * *
64008 TGGATAAGCT-AAACATTACAACCCTACTCAAACTTCTATCTGAGAATGTATCAACT
1 TGGATAAGCTAAAACATTACAACCCTACTCAAACTTCCATATGAGAATGTAGCAACT
64064 TGGATAAG
1 TGGATAAG
64072 TTTATGGAAG
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
56 44 0.83
57 9 0.17
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (57 bp):
TGGATAAGCTAAAACATTACAACCCTACTCAAACTTCCATATGAGAATGTAGCAACT
Found at i:64352 original size:56 final size:56
Alignment explanation
Indices: 64284--64468 Score: 196
Period size: 56 Copynumber: 3.3 Consensus size: 56
64274 AAGTAAATAG
* * * *
64284 TTTAACCTATCCAAGTTGTTACATTTAAAGATGGAAGTTTGGATAGCGTTATAGAT
1 TTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAGCGTTGTAGAT
* * * **
64340 TTTAACTTATCCAAGTCGTTGCATTCAAAAATGGAAGTTTGAATAATGTTGTA-AT
1 TTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAGCGTTGTAGAT
** * *
64395 GTTTAACTTGCCCAAGTTGTTACATTCAAAGACT-GAAGCTTGTAA-AGCGTTGTAGAG
1 -TTTAACTTATCCAAGTTGTTACATTCAAAGA-TGGAAGTTTG-AATAGCGTTGTAGAT
*
64452 TTTAACTTATCGAAGTT
1 TTTAACTTATCCAAGTT
64469 TGAATAACGT
Statistics
Matches: 104, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
55 2 0.02
56 98 0.94
57 4 0.04
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (56 bp):
TTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAGCGTTGTAGAT
Found at i:64482 original size:90 final size:90
Alignment explanation
Indices: 64373--64559 Score: 236
Period size: 90 Copynumber: 2.1 Consensus size: 90
64363 TTCAAAAATG
* * * *
64373 GAAGTTTGAATAATGTTGTAATGTTTAACTTGCCCAAGTTGTTACATTCAAAGACT-GAAGCTTG
1 GAAGTTTGAATAACGTTGTAAAGTTTAACTTACCCAAGTTGATACATTC-AAGA-TGGAAGCTTG
64437 TAAAGCGTTGTAGA-GT-TTAACTTATC
64 TAAAGCGTTGTA-ATGTCTTAACTTATC
* * *
64463 GAAGTTTGAATAACGTTGTAAAGTTTAACTTATCGAAGTTGATACATTCAAGATGGAAGTTTGTA
1 GAAGTTTGAATAACGTTGTAAAGTTTAACTTACCCAAGTTGATACATTCAAGATGGAAGCTTGTA
* *
64528 TATCGTTGTAATGTCTTAACTTATC
66 AAGCGTTGTAATGTCTTAACTTATC
*
64553 CAAGTTT
1 GAAGTTT
64560 TTACATTCGA
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
88 2 0.02
89 23 0.27
90 59 0.70
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (90 bp):
GAAGTTTGAATAACGTTGTAAAGTTTAACTTACCCAAGTTGATACATTCAAGATGGAAGCTTGTA
AAGCGTTGTAATGTCTTAACTTATC
Found at i:64549 original size:202 final size:202
Alignment explanation
Indices: 64282--64670 Score: 493
Period size: 202 Copynumber: 1.9 Consensus size: 202
64272 CGAAGTAAAT
*
64282 AGTTTAACCTATCCAAGTTGTTACATTTAAAGATGGAAGTTTGGATAGCGTTATAGATTTTAACT
1 AGTTTAACCTATCCAAGTTGATACATTTAAAGATGGAAGTTTGGATAGCGTTATAGATTTTAACT
* **
64347 TATCCAAGTCGTTGCATTCAAAAATGGAAGTTTGAATAATGTTGTAATGTTTAACTT-GCCCAAG
66 TATCCAAGTCGTTACATTCAAAAATGGAAGTTTGAATAACATTGTAATGTTTAACTTAGCCC-AG
* *
64411 TTGTTACATTCAAAGACT-GAAGCTTGT-AA-AGCGTTGTAGAGTTTAACTTATCGAAGTTTGAA
130 TTGTTACATTCAAAGA-TGGAAG-TT-TAAATAGAGTTGTAGAGTTTAACTTATCCAAGTTTGAA
64473 TAACGTTGTAA
192 TAACGTTGTAA
* * * * * *
64484 AGTTTAACTTATCGAAGTTGATACA-TTCAAGATGGAAGTTTGTATATCGTTGTA-ATGTCTTAA
1 AGTTTAACCTATCCAAGTTGATACATTTAAAGATGGAAGTTTGGATAGCGTTATAGAT-T-TTAA
** * * * * *
64547 CTTATCCAAGTTTTTACATTCGAAGATGGTAGTTTGAATAACATTGTAATGTTTAACTTATCCCG
64 CTTATCCAAGTCGTTACATTCAAAAATGGAAGTTTGAATAACATTGTAATGTTTAACTTAGCCCA
* *
64612 GTTTTTACATTCAAAGATGGAAGTTTAAATAGAGTTGTAGATTTTAACTTATCCAAGTT
129 GTTGTTACATTCAAAGATGGAAGTTTAAATAGAGTTGTAGAGTTTAACTTATCCAAGTT
64671 GTTACATTAA
Statistics
Matches: 160, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
200 3 0.02
201 31 0.19
202 123 0.77
203 3 0.02
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (202 bp):
AGTTTAACCTATCCAAGTTGATACATTTAAAGATGGAAGTTTGGATAGCGTTATAGATTTTAACT
TATCCAAGTCGTTACATTCAAAAATGGAAGTTTGAATAACATTGTAATGTTTAACTTAGCCCAGT
TGTTACATTCAAAGATGGAAGTTTAAATAGAGTTGTAGAGTTTAACTTATCCAAGTTTGAATAAC
GTTGTAA
Found at i:64565 original size:56 final size:56
Alignment explanation
Indices: 64463--64720 Score: 290
Period size: 56 Copynumber: 4.6 Consensus size: 56
64453 TTAACTTATC
* * *
64463 GAAGTTTGAATAACGTTGTAAAGTTTAACTTATCGAAGTTGATACATTC-AAGATG
1 GAAGTTTGAATAACGTTGTAATGTTTAACTTATCCAAGTTGTTACATTCAAAGATG
* * * *
64518 GAAGTTTGTATATCGTTGTAATGTCTTAACTTATCCAAGTTTTTACATTCGAAGATG
1 GAAGTTTGAATAACGTTGTAATGT-TTAACTTATCCAAGTTGTTACATTCAAAGATG
* * ** *
64575 GTAGTTTGAATAACATTGTAATGTTTAACTTATCCCGGTTTTTACATTCAAAGATG
1 GAAGTTTGAATAACGTTGTAATGTTTAACTTATCCAAGTTGTTACATTCAAAGATG
* * *
64631 GAAGTTTAAATAGA-GTTGTAGAT-TTTAACTTATCCAAGTTGTTACATTAAAATATG
1 GAAGTTTGAATA-ACGTTGTA-ATGTTTAACTTATCCAAGTTGTTACATTCAAAGATG
* * *
64687 TAAGTTTGAATAGCATTGTAGA-GTTTAACTTATC
1 GAAGTTTGAATAACGTTGTA-ATGTTTAACTTATC
64721 TAGTTTAAGG
Statistics
Matches: 172, Mismatches: 25, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
55 21 0.12
56 122 0.71
57 29 0.17
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (56 bp):
GAAGTTTGAATAACGTTGTAATGTTTAACTTATCCAAGTTGTTACATTCAAAGATG
Found at i:64594 original size:146 final size:146
Alignment explanation
Indices: 64317--64608 Score: 333
Period size: 146 Copynumber: 2.0 Consensus size: 146
64307 TTTAAAGATG
* * * * * *
64317 GAAGTTTGGATAGCGTTATAGATTTTAACTTATCCAAGTCGTTGCATTCAAAAATGGAAGTTTGA
1 GAAGTTTGAATAACGTTATAAAGTTTAACTTATCCAAGTCGATACATTCAAAAATGGAAGTTTGA
* * *
64382 ATAATGTTGTAATGTTTAACTTGCCCAAGTTGTTACATTCAAAGACTGAAGCTTGTAAAGCGTTG
66 ATAATGTTGTAATGTTTAACTTACCCAAGTTGTTACATTCAAAGACTGAAGCTTGTAAAACATTG
64447 TAGA-GTTTAACTTATC
131 TA-ATGTTTAACTTATC
* * * * *
64463 GAAGTTTGAATAACGTTGTAAAGTTTAACTTATCGAAGTTGATACATTC-AAGATGGAAGTTTGT
1 GAAGTTTGAATAACGTTATAAAGTTTAACTTATCCAAGTCGATACATTCAAAAATGGAAGTTTGA
* * * * *
64527 AT-ATCGTTGTAATGTCTTAACTTATCCAAGTTTTTACATTCGAAGA-TGGTAGTTTG-AATAAC
66 ATAAT-GTTGTAATGT-TTAACTTACCCAAGTTGTTACATTCAAAGACT-GAAGCTTGTAA-AAC
64589 ATTGTAATGTTTAACTTATC
127 ATTGTAATGTTTAACTTATC
64609 CCGGTTTTTA
Statistics
Matches: 122, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
144 2 0.02
145 29 0.24
146 91 0.75
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (146 bp):
GAAGTTTGAATAACGTTATAAAGTTTAACTTATCCAAGTCGATACATTCAAAAATGGAAGTTTGA
ATAATGTTGTAATGTTTAACTTACCCAAGTTGTTACATTCAAAGACTGAAGCTTGTAAAACATTG
TAATGTTTAACTTATC
Found at i:64779 original size:15 final size:15
Alignment explanation
Indices: 64759--64832 Score: 96
Period size: 15 Copynumber: 5.0 Consensus size: 15
64749 AATTGGTTTT
64759 CTGGAAAATGAATTA
1 CTGGAAAATGAATTA
64774 CTGGAAAATGAATTA
1 CTGGAAAATGAATTA
**
64789 CTGGAATTTGAATTA
1 CTGGAAAATGAATTA
* **
64804 TTGGAATTTGAATT-
1 CTGGAAAATGAATTA
64818 CTGGAAAATGAATTA
1 CTGGAAAATGAATTA
64833 TATTTTTGGA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
14 11 0.21
15 41 0.79
ACGTcount: A:0.41, C:0.05, G:0.20, T:0.34
Consensus pattern (15 bp):
CTGGAAAATGAATTA
Found at i:65062 original size:27 final size:27
Alignment explanation
Indices: 65023--65074 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
65013 ATCATAAAAC
65023 ATAATATTATTATT-TTAAAATATTAAA
1 ATAATATTATTATTATT-AAATATTAAA
65050 ATAAT-TTATTTATTATTAAATATTA
1 ATAATATTA-TTATTATTAAATATTA
65075 TTTTTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 3 0.13
27 18 0.78
28 2 0.09
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
ATAATATTATTATTATTAAATATTAAA
Found at i:65227 original size:23 final size:23
Alignment explanation
Indices: 65178--65228 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
65168 GTGTTATATT
**
65178 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAAAATATTAATTAAA
* * *
65201 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAAAATATTAATTAAA
65224 ATATT
1 ATATT
65229 ATTAGATTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAAAATATTAATTAAA
Found at i:65240 original size:19 final size:19
Alignment explanation
Indices: 65216--65286 Score: 63
Period size: 19 Copynumber: 3.6 Consensus size: 19
65206 TTAAATATCT
*
65216 TTATTAAAATATTATTAGA
1 TTATTAAAATATTATTAAA
* *
65235 TTATTATATTATTATTAAA
1 TTATTAAAATATTATTAAA
* *
65254 TATATAAATAATATTATT-CA
1 T-TATTAA-AATATTATTAAA
65274 TTATTAAATATAT
1 TTATTAAA-ATAT
65287 AAAAATTTTA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
18 1 0.02
19 26 0.63
20 6 0.15
21 8 0.20
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (19 bp):
TTATTAAAATATTATTAAA
Found at i:65284 original size:28 final size:26
Alignment explanation
Indices: 65241--65305 Score: 94
Period size: 28 Copynumber: 2.4 Consensus size: 26
65231 TAGATTATTA
65241 TATTATTATTAAATATATAAATAATAT
1 TATTATTATTAAATATATAAA-AATAT
*
65268 TATTCATTATTAAATATATAAAAATTT
1 TATT-ATTATTAAATATATAAAAATAT
65295 TATTATATATT
1 TATTAT-TATT
65306 TATTAAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
26 2 0.06
27 16 0.46
28 17 0.49
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (26 bp):
TATTATTATTAAATATATAAAAATAT
Found at i:65377 original size:31 final size:32
Alignment explanation
Indices: 65329--65407 Score: 101
Period size: 31 Copynumber: 2.5 Consensus size: 32
65319 ATAATATCTT
*
65329 ATATTATTATAATATAATTGATTAT-TTATTAT-A
1 ATATTAATA-AATATAA-T-ATTATATTATTATAA
65362 ATATTAA-AAATATAATATTATATTATTATAA
1 ATATTAATAAATATAATATTATATTATTATAA
65393 ATATTAATAAATATA
1 ATATTAATAAATATA
65408 TTTTAAAAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
29 5 0.12
30 8 0.19
31 15 0.36
32 8 0.19
33 6 0.14
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (32 bp):
ATATTAATAAATATAATATTATATTATTATAA
Found at i:65380 original size:22 final size:23
Alignment explanation
Indices: 65355--65401 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
65345 ATTGATTATT
65355 TATTATAATATTAAAAATA-TAA
1 TATTATAATATTAAAAATATTAA
* *
65377 TATTATATTATTATAAATATTAA
1 TATTATAATATTAAAAATATTAA
65400 TA
1 TA
65402 AATATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
TATTATAATATTAAAAATATTAA
Found at i:65392 original size:30 final size:30
Alignment explanation
Indices: 65217--65407 Score: 100
Period size: 30 Copynumber: 6.4 Consensus size: 30
65207 TAAATATCTT
*
65217 TATT-AAAATAT--TATTAGATTATTATATTA
1 TATTAAAAATATAATATTATATTATTATA--A
* *
65246 TTATTAAATATATAA-ATAATATTATTCAT--
1 -TATTAAAAATATAATATTATATTATT-ATAA
* * * *
65275 TATTAAATATATAAAAATTTTATTA-TATATT
1 TATTAAAAATAT-AATATTATATTATTATA-A
* * * *
65306 TATT-AAAATA-AAAATAATA-TCTTATAT
1 TATTAAAAATATAATATTATATTATTATAA
*
65333 TATT-ATAATATAATTGATTAT-TTATTATAA
1 TATTAAAAATATAA-T-ATTATATTATTATAA
65363 TATTAAAAATATAATATTATATTATTATAAA
1 TATTAAAAATATAATATTATATTATTAT-AA
65394 TATTAATAAATATA
1 TATTAA-AAATATA
65408 TTTTAAAAAG
Statistics
Matches: 128, Mismatches: 15, Indels: 34
0.72 0.08 0.19
Matches are distributed among these distances:
27 11 0.09
28 27 0.21
29 8 0.06
30 38 0.30
31 26 0.20
32 16 0.12
33 2 0.02
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (30 bp):
TATTAAAAATATAATATTATATTATTATAA
Found at i:65402 original size:26 final size:24
Alignment explanation
Indices: 65373--65435 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 24
65363 TATTAAAAAT
*
65373 ATAATATTATATTATTATAAA-TATTA
1 ATAATA-TATATT-TTAAAAAGT-TTA
65399 ATAA-ATATATTTTAAAAAGTTTA
1 ATAATATATATTTTAAAAAGTTTA
65422 ATAAT-TAATATTTT
1 ATAATAT-ATATTTT
65436 GATGAAAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
23 14 0.42
24 14 0.42
25 1 0.03
26 4 0.12
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (24 bp):
ATAATATATATTTTAAAAAGTTTA
Found at i:65406 original size:22 final size:21
Alignment explanation
Indices: 65362--65414 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
65352 ATTTATTATA
* *
65362 ATATTAAAAATATAATATTAT
1 ATATTATAAATATAATATAAT
65383 ATTATTATAAATATTAATA-AAT
1 A-TATTATAAATA-TAATATAAT
*
65405 ATATTTTAAA
1 ATATTATAAA
65415 AAGTTTAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 9 0.33
22 13 0.48
23 5 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
ATATTATAAATATAATATAAT
Found at i:65407 original size:24 final size:23
Alignment explanation
Indices: 65380--65471 Score: 73
Period size: 24 Copynumber: 3.8 Consensus size: 23
65370 AATATAATAT
65380 TATATTATTATAAATATTAATAAA
1 TATATT-TTATAAATATTAATAAA
* *
65404 TATATTTTAAAAAGT-TTAATAAT
1 TATATTTTATAAA-TATTAATAAA
65427 TAATATTTTGATGAAA-ATTATATTAAA
1 T-ATATTTT-AT-AAATATTA-A-TAAA
*
65454 -ATATTTTATTAATATTAA
1 TATATTTTATAAATATTAA
65472 ATTCATAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 17
0.71 0.06 0.22
Matches are distributed among these distances:
23 17 0.31
24 20 0.36
25 11 0.20
26 4 0.07
27 3 0.05
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (23 bp):
TATATTTTATAAATATTAATAAA
Found at i:65851 original size:56 final size:56
Alignment explanation
Indices: 65779--66016 Score: 286
Period size: 56 Copynumber: 4.3 Consensus size: 56
65769 AACAGACCCT
*
65779 AAGTTGTTACATTCAAAGATGAAAGTTTGAATAACATTTTAATGTTTAACTTATCC
1 AAGTTGTTACATTCAAAGATGAAAGTTTGAATAACATTGTAATGTTTAACTTATCC
* * * * * *
65835 AAGTTGTTACAATCAAAAATGAAAGTTTTAACAACGTTGTAATGTTTAACTTATCT
1 AAGTTGTTACATTCAAAGATGAAAGTTTGAATAACATTGTAATGTTTAACTTATCC
* * **
65891 AAGTTGTTGCATTCAAAGATGGAAGTTTGAATATTATTGTAATGTTT-ACTTATCC
1 AAGTTGTTACATTCAAAGATGAAAGTTTGAATAACATTGTAATGTTTAACTTATCC
* * *
65946 AATTTATTACATTCAAAGATGGAAA-TTTGAA-AAGAGTTGTAGA-GTTTAACTTATCC
1 AAGTTGTTACATTCAAAGAT-GAAAGTTTGAATAACA-TTGTA-ATGTTTAACTTATCC
*
66002 AATTTGTTACATTCA
1 AAGTTGTTACATTCA
66017 TAAATGGAAT
Statistics
Matches: 154, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
54 2 0.01
55 39 0.25
56 113 0.73
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (56 bp):
AAGTTGTTACATTCAAAGATGAAAGTTTGAATAACATTGTAATGTTTAACTTATCC
Found at i:66009 original size:111 final size:112
Alignment explanation
Indices: 65779--66025 Score: 306
Period size: 111 Copynumber: 2.2 Consensus size: 112
65769 AACAGACCCT
* * *
65779 AAGTTGTTACATTCAAAGATGAAAGTTTGAATAACATTTTAATGTTTAACTTATCCAAGTTGTTA
1 AAGTTGTTACATTCAAAGATGGAAGTTTGAATAACATTGTAATGTTTAACTTATCCAAGTTATTA
* * *
65844 CAATCAAAAATGAAAGTTTTAACAACGTTGTAATGTTTAACTTATCT
66 CAATCAAAAATGAAAGTTTGAACAAAGTTGTAATGTTTAACTTATCC
* ** *
65891 AAGTTGTTGCATTCAAAGATGGAAGTTTGAATATTATTGTAATGTTT-ACTTATCCAATTTATTA
1 AAGTTGTTACATTCAAAGATGGAAGTTTGAATAACATTGTAATGTTTAACTTATCCAAGTTATTA
* *
65955 CATTCAAAGATGGAAA-TTTGAA-AAGAGTTGTAGA-GTTTAACTTATCC
66 CAATCAAAAAT-GAAAGTTTGAACAA-AGTTGTA-ATGTTTAACTTATCC
*
66002 AATTTGTTACATTCATAA-ATGGAA
1 AAGTTGTTACATTCA-AAGATGGAA
66026 TAACTTGGAT
Statistics
Matches: 117, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
110 2 0.02
111 66 0.56
112 49 0.42
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (112 bp):
AAGTTGTTACATTCAAAGATGGAAGTTTGAATAACATTGTAATGTTTAACTTATCCAAGTTATTA
CAATCAAAAATGAAAGTTTGAACAAAGTTGTAATGTTTAACTTATCC
Found at i:66094 original size:56 final size:56
Alignment explanation
Indices: 66027--66163 Score: 186
Period size: 56 Copynumber: 2.4 Consensus size: 56
66017 TAAATGGAAT
*
66027 AACTTGGATAAGTTAAAC-TCTACAATGCTATTAAAAATTCAATCTTTGAATGTATC
1 AACTTGGATAAGTTAAACAT-TACAATGCTATTAAAAATTCAATCTTTGAATGTAAC
* * * *
66083 AACTTGGATAAGTTAAACATTACAATGTTATTCAAACTTCCATCTTTGAATGTAAC
1 AACTTGGATAAGTTAAACATTACAATGCTATTAAAAATTCAATCTTTGAATGTAAC
* *
66139 AACATGGATAAGTTAATGCATTACA
1 AACTTGGATAAGTTAA-ACATTACA
66164 TCCCCTACTT
Statistics
Matches: 72, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
56 64 0.89
57 8 0.11
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (56 bp):
AACTTGGATAAGTTAAACATTACAATGCTATTAAAAATTCAATCTTTGAATGTAAC
Found at i:74867 original size:2 final size:2
Alignment explanation
Indices: 74860--74922 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
74850 TCACTTATGG
74860 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
74902 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
74923 ACGTTAATTT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:87452 original size:18 final size:17
Alignment explanation
Indices: 87398--87446 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
87388 TTTGACCCTT
* *
87398 AGTGCATCGCTGCACTAA
1 AGTGCATCGATGCA-TCA
87416 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
87434 AGTGCATTCGATG
1 AGTGCA-TCGATG
87447 ATTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:88299 original size:14 final size:15
Alignment explanation
Indices: 88280--88309 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
88270 TTCAAACATT
88280 AAACAATCCA-AAAC
1 AAACAATCCAGAAAC
88294 AAACAATCCAGAAAC
1 AAACAATCCAGAAAC
88309 A
1 A
88310 TCAAAATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.63, C:0.27, G:0.03, T:0.07
Consensus pattern (15 bp):
AAACAATCCAGAAAC
Found at i:94013 original size:20 final size:21
Alignment explanation
Indices: 93976--94014 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
93966 AAGTTTTAAT
* *
93976 ATCATCAATTTTCTTTTGATG
1 ATCATCAATTTACCTTTGATG
93997 ATCATC-ATTTACCTTTGA
1 ATCATCAATTTACCTTTGA
94015 AAGTAAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.26, C:0.18, G:0.08, T:0.49
Consensus pattern (21 bp):
ATCATCAATTTACCTTTGATG
Found at i:94779 original size:17 final size:17
Alignment explanation
Indices: 94757--94789 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
94747 TTGCCATGAT
94757 TTGGAAGTGAGTAAACG
1 TTGGAAGTGAGTAAACG
94774 TTGGAAGTGAGTAAAC
1 TTGGAAGTGAGTAAAC
94790 TAACTTCTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.06, G:0.33, T:0.24
Consensus pattern (17 bp):
TTGGAAGTGAGTAAACG
Done.