Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_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: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 38 of 91
Found at i:8211102 original size:24 final size:23
Alignment explanation
Indices: 8211075--8211148 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
8211065 GGTATGAAAG
8211075 GATGCCATAAATGAAATGTATAAC
1 GATGCCATAAATGAAATG-ATAAC
* * *
8211099 GATG-CAT-TATCGACATGA-AAG
1 GATGCCATAAAT-GAAATGATAAC
*
8211120 GATGCCATAAATGAAGTGCATAAC
1 GATGCCATAAATGAAATG-ATAAC
8211144 GATGC
1 GATGC
8211149 ATTATCGGCA
Statistics
Matches: 38, Mismatches: 7, Indels: 10
0.69 0.13 0.18
Matches are distributed among these distances:
21 6 0.16
22 10 0.26
23 11 0.29
24 11 0.29
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.23
Consensus pattern (23 bp):
GATGCCATAAATGAAATGATAAC
Found at i:8215344 original size:21 final size:21
Alignment explanation
Indices: 8215315--8215364 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
8215305 GTCCTTTGAT
*
8215315 GATGCATCTAGGTGGGAATAA
1 GATGTATCTAGGTGGGAATAA
8215336 GATGTATCTAGGTGGGAATAA
1 GATGTATCTAGGTGGGAATAA
8215357 GATGTATC
1 GATGTATC
8215365 ATGATTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.28
Consensus pattern (21 bp):
GATGTATCTAGGTGGGAATAA
Found at i:8217525 original size:95 final size:97
Alignment explanation
Indices: 8217410--8217613 Score: 279
Period size: 97 Copynumber: 2.1 Consensus size: 97
8217400 TCTGCTGTGG
* *
8217410 GTATCGATACCAAGAGAAAGGTATCGATACCAGGGATTCCAGAATGT-CA-AAATGGTATCGATA
1 GTATCGATACCAAGAGAAAGGTATCGATACCAGGAATTACAGAATGTGCAGAAATGGTATCGATA
* *
8217473 CTGAAAGGGA-GTATCGACACCATAGTATAGAA
66 CTGAAA-CGACATATCGACACCATAGTATAGAA
* * * * *
8217505 GTGTCGATACTAAGAGAAAGGTATCGATACCATGAATTACATAATGTGTAGAAATGGTATCGATA
1 GTATCGATACCAAGAGAAAGGTATCGATACCAGGAATTACAGAATGTGCAGAAATGGTATCGATA
**
8217570 CTGAAACGACATATCGGTACCATAGTATAGAA
66 CTGAAACGACATATCGACACCATAGTATAGAA
8217602 GTATCGATACCA
1 GTATCGATACCA
8217614 TGGTAAAGGT
Statistics
Matches: 93, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
95 41 0.44
96 3 0.03
97 49 0.53
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.24
Consensus pattern (97 bp):
GTATCGATACCAAGAGAAAGGTATCGATACCAGGAATTACAGAATGTGCAGAAATGGTATCGATA
CTGAAACGACATATCGACACCATAGTATAGAA
Found at i:8218093 original size:45 final size:45
Alignment explanation
Indices: 8218036--8218406 Score: 517
Period size: 45 Copynumber: 8.2 Consensus size: 45
8218026 AAATGAATGA
* *
8218036 ATAAGTGAAATGCATAACGGTGCATTATCGGCATGAAAGAATGCC
1 ATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* **
8218081 ATAAAAGAAATGCATAACGGTGCATTATCGATATGAAAGGATGCC
1 ATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
*
8218126 ATAAATGAAATGCAAAACGGTGCATTATCGGCATGAAAGGATGCC
1 ATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
*
8218171 ATAAATGAAATGCATAACGGTGCATTATCGACATGAAAGGATGCC
1 ATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* * ** *
8218216 ATAAATGAAATGCATAACGATGTATTATCGATATGAAAGGATTCC
1 ATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* * *
8218261 ATAAATGAAATACATAATGGTGCATTATCGGCATGAAAGGATACC
1 ATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
** * *
8218306 ATAAATGAAATGTGTAACGGTGCGTTATCAGCATGAAAGGATGCC
1 ATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* ** *
8218351 ATAAATGAAAATGCATAATGGTGCATTATAAGCATGAACGGATGCC
1 ATAAATG-AAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
*
8218397 ATCAATGAAA
1 ATAAATGAAA
8218407 ATAAAGAATA
Statistics
Matches: 289, Mismatches: 36, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 251 0.87
46 38 0.13
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.23
Consensus pattern (45 bp):
ATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
Found at i:8219647 original size:2 final size:2
Alignment explanation
Indices: 8219640--8219766 Score: 254
Period size: 2 Copynumber: 63.5 Consensus size: 2
8219630 GAAATGCACG
8219640 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
8219682 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
8219724 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
8219766 A
1 A
8219767 CCTACATATT
Statistics
Matches: 125, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 125 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8220017 original size:24 final size:23
Alignment explanation
Indices: 8219973--8220028 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
8219963 TTAATATGAA
* *
8219973 AAATAATATATATGTATATATAG
1 AAATAATATATATGAAAATATAG
*
8219996 AAATTATATGATATGAAAATATATG
1 AAATAATAT-ATATGAAAATATA-G
*
8220021 TAATAATA
1 AAATAATA
8220029 AGGAAAAAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 8 0.31
24 11 0.42
25 7 0.27
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.38
Consensus pattern (23 bp):
AAATAATATATATGAAAATATAG
Found at i:8222114 original size:79 final size:80
Alignment explanation
Indices: 8221963--8222114 Score: 184
Period size: 79 Copynumber: 1.9 Consensus size: 80
8221953 TCATCGAATG
* * *
8221963 AGTTCTTCTCATTACGAACCATTCCATTGTAAATGTTGATCCTCCTTCTTCTGTGATGGAATCGA
1 AGTTCTTCTCATTAAGAACCATTCCATTGGAAATGTTGATCCTCCTCCTTCTGTGATGGAATCGA
***
8222028 GTGAAATGTTGAACA
66 ACAAAATGTTGAACA
* * *
8222043 AGTTCTTCTCATTAAGAACTC-TT-CATTGGAAGTGTTGAT-CTACCTCCTTTTGTGATGGATTC
1 AGTTCTTCTCATTAAGAAC-CATTCCATTGGAAATGTTGATCCT-CCTCCTTCTGTGATGGAATC
8222105 GAACAAAATG
64 GAACAAAATG
8222115 ATGATGCTGA
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 38 0.62
80 20 0.33
81 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (80 bp):
AGTTCTTCTCATTAAGAACCATTCCATTGGAAATGTTGATCCTCCTCCTTCTGTGATGGAATCGA
ACAAAATGTTGAACA
Found at i:8222497 original size:283 final size:282
Alignment explanation
Indices: 8221913--8222475 Score: 760
Period size: 283 Copynumber: 2.0 Consensus size: 282
8221903 GAATCGAACC
*
8221913 AAGGTTG-AACAAATTCTTCTCATTATGAACTTTTTCTCCCTCATCGAATGAGTTCTTCTCATTA
1 AAGGTTGAAAC-AATTCTTCTCATTATGAACTTTTTCTACCTCATCGAATGAGTTCTTCTCATTA
* * * ** ** * *
8221977 CGAACCATTCCATTGTAAATGTTGATCCTCCTTCTTCTGTGATGGAATCGAGTGAAATGTTGAAC
65 CGAACCATTCCATTGAAAATGTTGATCCACCTACTAATGTGATAAAATCAAATGAAATGTTGAAC
* * * * *
8222042 AAGTTCTTCTCATTAAGAACTCTTCATTGGAAGTGTTGATCTACCTCCTTTTGTGATGGATTCGA
130 AAGTTCTTCTCACTAAGAACTCTTCATTGGAAATGTTGATCCACCTCCTTCTATGATGGATTCGA
** * *
8222107 ACAAAATGATGATGCTGATCCAACTCCTTATGCGATGGATGAGCCAAGATCGGTGATGTTCCCAC
195 ACAAAATGATGATGCAAATCCAACTCCTTATGCGATGGATGAGCCAAGATCGATGATGTTCCAAC
* *
8222172 TGCTTATGTGATGGAATCGAGAT
260 TGCTTATATGATGGAATCAAGAT
*
8222195 AAGGTTGAAACAATTCTTCTTATTATGAACTTATTT-TACCTCATC-AGATGAGTTCTTCTCATT
1 AAGGTTGAAACAATTCTTCTCATTATGAACTT-TTTCTACCTCATCGA-ATGAGTTCTTCTCATT
*
8222258 ACGAACCATTCCATTGGAAAAT-TTGTTCCACCTACTAATGTGATAAAATCAAATGAAATGTTGA
64 ACGAACCATTCCATT-GAAAATGTTGATCCACCTACTAATGTGATAAAATCAAATGAAATGTTGA
* *
8222322 ACAAGTTCTTCTCACTAGGAACTTTTTCATTGGAAATGTTGATCCACCGT-CTTCTATGATGGAT
128 ACAAGTTCTTCTCACTAAGAAC-TCTTCATTGGAAATGTTGATCCACC-TCCTTCTATGATGGAT
* * *
8222386 TCGAACAAAATGATGATGCAAATCCAACTCCTTATGTGATGGATGAGCCAAGGTCGATGTTGTTC
191 TCGAACAAAATGATGATGCAAATCCAACTCCTTATGCGATGGATGAGCCAAGATCGATGATGTTC
*
8222451 CAACT-CTTTTTATGATGGAATCAAG
256 CAACTGC-TTATATGATGGAATCAAG
8222476 TAAATGTTAA
Statistics
Matches: 245, Mismatches: 29, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
281 1 0.00
282 120 0.49
283 123 0.50
284 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (282 bp):
AAGGTTGAAACAATTCTTCTCATTATGAACTTTTTCTACCTCATCGAATGAGTTCTTCTCATTAC
GAACCATTCCATTGAAAATGTTGATCCACCTACTAATGTGATAAAATCAAATGAAATGTTGAACA
AGTTCTTCTCACTAAGAACTCTTCATTGGAAATGTTGATCCACCTCCTTCTATGATGGATTCGAA
CAAAATGATGATGCAAATCCAACTCCTTATGCGATGGATGAGCCAAGATCGATGATGTTCCAACT
GCTTATATGATGGAATCAAGAT
Found at i:8223696 original size:22 final size:23
Alignment explanation
Indices: 8223648--8223696 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
8223638 AGTCTACCCG
** *
8223648 TTGACTATTGATCGGTCTGACTG
1 TTGACTATTGATCGGTCAAACTA
8223671 TTGACT-TTGATCGGTCAAACTA
1 TTGACTATTGATCGGTCAAACTA
8223693 TTGA
1 TTGA
8223697 TCGTTGACTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.39
Consensus pattern (23 bp):
TTGACTATTGATCGGTCAAACTA
Found at i:8224440 original size:21 final size:21
Alignment explanation
Indices: 8224414--8224472 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
8224404 TCCTTAAGGA
*
8224414 GTGGTCCTTCAGGATATATAT
1 GTGGTCCTTCAGGACATATAT
* *
8224435 GTGGTCATTCGGGACATATAT
1 GTGGTCCTTCAGGACATATAT
*
8224456 GTGGTCCTTCGGGACAT
1 GTGGTCCTTCAGGACAT
8224473 CTCAAATTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.20, C:0.17, G:0.29, T:0.34
Consensus pattern (21 bp):
GTGGTCCTTCAGGACATATAT
Found at i:8226861 original size:24 final size:23
Alignment explanation
Indices: 8226817--8226871 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
8226807 TAATATGAAA
* *
8226817 AAATAATATATATGTATATATAG
1 AAATAATATATATGAAAATATAG
*
8226840 AAATTATATGATATGAAAATATATG
1 AAATAATAT-ATATGAAAATATA-G
*
8226865 TAATAAT
1 AAATAAT
8226872 CAGGAAAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
23 8 0.32
24 11 0.44
25 6 0.24
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (23 bp):
AAATAATATATATGAAAATATAG
Found at i:8236590 original size:13 final size:13
Alignment explanation
Indices: 8236572--8236623 Score: 50
Period size: 13 Copynumber: 3.7 Consensus size: 13
8236562 AGTTAACGTC
8236572 AGTCAACGGTTAA
1 AGTCAACGGTTAA
8236585 AGTCAACACTGGTTAA
1 AGTC-A-AC-GGTTAA
* *
8236601 CAGTCAACGGTGAC
1 -AGTCAACGGTTAA
8236615 AGTCAACGG
1 AGTCAACGG
8236624 CTTGGTTTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
13 13 0.39
14 5 0.15
15 4 0.12
16 7 0.21
17 4 0.12
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (13 bp):
AGTCAACGGTTAA
Found at i:8247321 original size:18 final size:18
Alignment explanation
Indices: 8247295--8247337 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
8247285 GATATCTTAA
*
8247295 TATTATTAA-ATAATATTT
1 TATTTTTAATATAAT-TTT
8247313 TATTTTTAATATAATTTT
1 TATTTTTAATATAATTTT
*
8247331 AATTTTT
1 TATTTTT
8247338 TTAAAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TATTTTTAATATAATTTT
Found at i:8248206 original size:20 final size:20
Alignment explanation
Indices: 8248192--8248230 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
8248182 CCATTATATT
*
8248192 TTTACCGGTTACATTGTAAA
1 TTTACCGGTTACATTATAAA
* *
8248212 TTTACCTGTTACATAATAA
1 TTTACCGGTTACATTATAA
8248231 TTATCGATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.41
Consensus pattern (20 bp):
TTTACCGGTTACATTATAAA
Found at i:8248925 original size:182 final size:182
Alignment explanation
Indices: 8248605--8249242 Score: 1035
Period size: 182 Copynumber: 3.5 Consensus size: 182
8248595 ACTTTTTTAC
* * *
8248605 TACCGATTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATTGA
1 TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
* * * * *
8248670 TACATTTTTATAAAGTATCAATACTTTATTGGCGCTATAACTTCTTTTCTTTTAAATTCTAAAAG
66 TACATTTTTATAAAGTATCGACACTTTATTGACGCTATAACTTCTTCTCTTTTAAATTCCAAAAG
*
8248735 TATCGATACTTATAATAAAGTATCGACACTTTCAACATATCTGGTAGCTCTT
131 TGTCGATACTTATAATAAAGTATCGACACTTTCAACATATCTGGTAGCTCTT
*
8248787 TACCGGTTTTGTCATTTCGAGACCGGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGA
1 TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
*
8248852 TACATTTATATAAAGTATCGACACTTTATTGACGCTATAACTTCTTCTCTTTTAAATTCCAAAAG
66 TACATTTTTATAAAGTATCGACACTTTATTGACGCTATAACTTCTTCTCTTTTAAATTCCAAAAG
*
8248917 TGTCGATACTTATAATAAAGTATCGACACTTTCAATATATCTGGTAGCTCTT
131 TGTCGATACTTATAATAAAGTATCGACACTTTCAACATATCTGGTAGCTCTT
* * *
8248969 TACCGGTTTTATCATTTCGAGATCGGTTTTGTCATATTTTTACCTGTTATATTATTATGGATCGA
1 TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
* *
8249034 TATATTTTTATAAAGTATCGACACTTTATT-AGCTCTATAACTTCTTCTCTTTTAAATTCCAAAA
66 TACATTTTTATAAAGTATCGACACTTTATTGA-CGCTATAACTTCTTCTCTTTTAAATTCCAAAA
* * * *
8249098 GTGTCGATACTTATAATAATGTATCGACACTATCAACATATCCGGTAGCGCTT
130 GTGTCGATACTTATAATAAAGTATCGACACTTTCAACATATCTGGTAGCTCTT
* ** *
8249151 TACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGA
1 TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
8249216 TACATTTTTATAAAGTATCGACACTTT
66 TACATTTTTATAAAGTATCGACACTTT
8249243 CAATATATCC
Statistics
Matches: 423, Mismatches: 32, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
181 1 0.00
182 422 1.00
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (182 bp):
TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
TACATTTTTATAAAGTATCGACACTTTATTGACGCTATAACTTCTTCTCTTTTAAATTCCAAAAG
TGTCGATACTTATAATAAAGTATCGACACTTTCAACATATCTGGTAGCTCTT
Found at i:8249315 original size:112 final size:112
Alignment explanation
Indices: 8249113--8249391 Score: 513
Period size: 112 Copynumber: 2.5 Consensus size: 112
8249103 GATACTTATA
* * *
8249113 ATAATGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
8249178 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
8249225 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
8249290 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
* *
8249337 ATAAAGTATCGACACTTTCAATATATCCTGTAGCGCTTTACCTGATTTGTCATTT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTT
8249392 TTTTACCTGT
Statistics
Matches: 162, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
112 162 1.00
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.44
Consensus pattern (112 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
Found at i:8257768 original size:14 final size:14
Alignment explanation
Indices: 8257748--8257780 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
8257738 GTAATTAATA
8257748 TTTTA-TTTTAAAT
1 TTTTATTTTTAAAT
8257761 TATTTATTTTTAAAT
1 T-TTTATTTTTAAAT
8257776 TTTTA
1 TTTTA
8257781 ATTAATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.06
14 8 0.44
15 9 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTATTTTTAAAT
Found at i:8259109 original size:19 final size:17
Alignment explanation
Indices: 8259085--8259122 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
8259075 TTTTTAATAA
8259085 AAATATA-CATAATTTTT
1 AAATATATCATAA-TTTT
*
8259102 AAATATATGATAATTTT
1 AAATATATCATAATTTT
8259119 AAAT
1 AAAT
8259123 TTTGAGAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (17 bp):
AAATATATCATAATTTT
Found at i:8260877 original size:10 final size:10
Alignment explanation
Indices: 8260862--8260895 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
8260852 TTAGACAGAA
8260862 CCGAGTCAAC
1 CCGAGTCAAC
8260872 CCGAGTCAAC
1 CCGAGTCAAC
*
8260882 CTGAGTCAAC
1 CCGAGTCAAC
8260892 CCGA
1 CCGA
8260896 ATCGGTCAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.29, C:0.38, G:0.21, T:0.12
Consensus pattern (10 bp):
CCGAGTCAAC
Found at i:8265180 original size:18 final size:18
Alignment explanation
Indices: 8265157--8265193 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
8265147 TCGAGGGATT
8265157 ATAGTGGTCCATCGGGAC
1 ATAGTGGTCCATCGGGAC
*
8265175 ATAGTGGTCCTTCGGGAC
1 ATAGTGGTCCATCGGGAC
8265193 A
1 A
8265194 AATATTCAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.22, G:0.32, T:0.24
Consensus pattern (18 bp):
ATAGTGGTCCATCGGGAC
Found at i:8266516 original size:19 final size:19
Alignment explanation
Indices: 8266492--8266542 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
8266482 ACCAACTAAA
*
8266492 TCGCAATGCGATCGATAAT
1 TCGCAACGCGATCGATAAT
8266511 TCGCAACGCGATCGATAAT
1 TCGCAACGCGATCGATAAT
8266530 TCGCAACGCGATC
1 TCGCAACGCGATC
8266543 TCCGGTATCG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (19 bp):
TCGCAACGCGATCGATAAT
Found at i:8266640 original size:21 final size:21
Alignment explanation
Indices: 8266610--8266717 Score: 89
Period size: 21 Copynumber: 5.1 Consensus size: 21
8266600 GATTTACATA
*
8266610 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
8266631 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
* *
8266654 TT--CGTTGCGATAGTCGAAA
1 TTCGCGTTGCGATAGTCCAAG
* *
8266673 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
*
8266696 TT--TGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
8266715 TTC
1 TTC
8266718 ATTGCGATTT
Statistics
Matches: 70, Mismatches: 10, Indels: 15
0.74 0.11 0.16
Matches are distributed among these distances:
19 17 0.24
21 34 0.49
23 19 0.27
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.36
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:8266667 original size:42 final size:42
Alignment explanation
Indices: 8266616--8266753 Score: 217
Period size: 42 Copynumber: 3.3 Consensus size: 42
8266606 CATATTCGCA
*
8266616 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
* * *
8266658 TTGCGATAGTCGAAATTCGCGTTGCGATTTATTCCAAATTTG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
*
8266700 TTGCGATAGTCCAAGTT--CATTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
8266740 TTGCGATAGTCCAA
1 TTGCGATAGTCCAA
8266754 AATCGCAACG
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
40 35 0.40
42 53 0.60
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (42 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
Found at i:8266743 original size:21 final size:21
Alignment explanation
Indices: 8266635--8266746 Score: 115
Period size: 21 Copynumber: 5.4 Consensus size: 21
8266625 TCCAAGTTCG
*
8266635 CGTTGCGATTTATTCCAAGTT
1 CGTTGCGATTTATTCCAAATT
* *
8266656 CGTTGCGA--TAGTCGAAATT
1 CGTTGCGATTTATTCCAAATT
8266675 CGCGTTGCGATTTATTCCAAATT
1 --CGTTGCGATTTATTCCAAATT
* * *
8266698 TGTTGCGA--TAGTCCAAGTT
1 CGTTGCGATTTATTCCAAATT
*
8266717 CATTGCGATTTATTCCAAATT
1 CGTTGCGATTTATTCCAAATT
8266738 CGTTGCGAT
1 CGTTGCGAT
8266747 AGTCCAAAAT
Statistics
Matches: 72, Mismatches: 13, Indels: 12
0.74 0.13 0.12
Matches are distributed among these distances:
19 23 0.32
21 40 0.56
23 9 0.12
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (21 bp):
CGTTGCGATTTATTCCAAATT
Found at i:8267597 original size:21 final size:20
Alignment explanation
Indices: 8267482--8267754 Score: 113
Period size: 21 Copynumber: 12.7 Consensus size: 20
8267472 CGTTGCGATT
8267482 TTGGACTATCGCAACGCGAAC
1 TTGGACTATCGCAA-GCGAAC
* * *
8267503 TTCGACTATCACAA-CGAAT
1 TTGGACTATCGCAAGCGAAC
*
8267522 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA-GCGAAC
* *
8267545 TTCGACTATCGCAA-CGAAT
1 TTGGACTATCGCAAGCGAAC
* *
8267564 TTGGAATAAATCGCAATGCGAAA
1 TTGGACT--ATCGCAA-GCGAAC
8267587 TTGGACTATCGCAATGCGAA-
1 TTGGACTATCGCAA-GCGAAC
* * *
8267607 TATGTA-AATCGCAATGCGATAG
1 T-TGGACTATCGCAA-GCGA-AC
* * ** *
8267629 TCGAAGTTCGCGTCGCGATAGTCGAAT
1 TTG--G-AC-TATCGC-A-AG-CGAAC
*
8267656 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA-GCGAAC
* *
8267679 TTCGACTATCGCAATGCAAAC
1 TTGGACTATCGCAA-GCGAAC
*
8267700 TTGGACTATCGCAATGCAAAC
1 TTGGACTATCGCAA-GCGAAC
8267721 TTGGACTATCGCAATGCGAAC
1 TTGGACTATCGCAA-GCGAAC
*
8267742 TTCGACTATCGCA
1 TTGGACTATCGCA
8267755 TTGCGATTTA
Statistics
Matches: 195, Mismatches: 35, Indels: 44
0.71 0.13 0.16
Matches are distributed among these distances:
19 18 0.09
20 13 0.07
21 114 0.58
22 1 0.01
23 29 0.15
24 2 0.01
25 5 0.03
26 4 0.02
27 5 0.03
28 4 0.02
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (20 bp):
TTGGACTATCGCAAGCGAAC
Found at i:8267597 original size:42 final size:42
Alignment explanation
Indices: 8267489--8267692 Score: 193
Period size: 42 Copynumber: 4.7 Consensus size: 42
8267479 ATTTTGGACT
*
8267489 ATCGCAACGCGAACTTCGACTATCACAACGAATTTGGAATAA
1 ATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAA
8267531 ATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAA
1 ATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAA
* * * *
8267573 ATCGCAATGCGAAATTGGACTATCGCAATGCGAATAT-G--TAA
1 ATCGCAACGCGAACTTCGACTATCGCAA--CGAATTTGGAATAA
* *
8267614 ATCGCAATGCGATAGTCGAAGTTCG-C-GTCGCGATAGTCGAATTTGGAATAA
1 ATCGCAA--C----G-CGAACTTCGACTATCGC-A-A--CGAATTTGGAATAA
8267665 ATCGCAACGCGAACTTCGACTATCGCAA
1 ATCGCAACGCGAACTTCGACTATCGCAA
8267693 TGCAAACTTG
Statistics
Matches: 132, Mismatches: 14, Indels: 30
0.75 0.08 0.17
Matches are distributed among these distances:
41 10 0.08
42 66 0.50
43 1 0.01
44 15 0.11
45 3 0.02
46 8 0.06
47 3 0.02
48 14 0.11
49 2 0.02
51 10 0.08
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (42 bp):
ATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAA
Found at i:8267619 original size:20 final size:20
Alignment explanation
Indices: 8267570--8267625 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
8267560 GAATTTGGAA
8267570 TAAATCGCAATGCGAAATTG
1 TAAATCGCAATGCGAAATTG
* *
8267590 GACTATCGCAATGCG-AATATG
1 TA-AATCGCAATGCGAAAT-TG
8267611 TAAATCGCAATGCGA
1 TAAATCGCAATGCGA
8267626 TAGTCGAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (20 bp):
TAAATCGCAATGCGAAATTG
Found at i:8267759 original size:21 final size:21
Alignment explanation
Indices: 8267665--8267760 Score: 138
Period size: 21 Copynumber: 4.6 Consensus size: 21
8267655 TTTGGAATAA
*
8267665 ATCGCAACGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
* *
8267686 ATCGCAATGCAAACTTGGACT
1 ATCGCAATGCGAACTTCGACT
* *
8267707 ATCGCAATGCAAACTTGGACT
1 ATCGCAATGCGAACTTCGACT
8267728 ATCGCAATGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
*
8267749 ATCGCATTGCGA
1 ATCGCAATGCGA
8267761 TTTACATATT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 69 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (21 bp):
ATCGCAATGCGAACTTCGACT
Found at i:8267798 original size:21 final size:21
Alignment explanation
Indices: 8267769--8267814 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
8267759 GATTTACATA
*
8267769 TTCGCATTGCGATAGTCCAAG
1 TTCGAATTGCGATAGTCCAAG
**
8267790 TTCGAATTGCGATAGTTGAAG
1 TTCGAATTGCGATAGTCCAAG
8267811 TTCG
1 TTCG
8267815 CGTTGTGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (21 bp):
TTCGAATTGCGATAGTCCAAG
Found at i:8270780 original size:81 final size:81
Alignment explanation
Indices: 8270645--8272363 Score: 2429
Period size: 81 Copynumber: 21.2 Consensus size: 81
8270635 TGATTTTTAG
* * * * * *
8270645 TGGCCTAGTTGTGCATTTGAAATAAATGCGTAAATTATGCCAGTTAGATGAAAGGTTAAATACTT
1 TGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCT
8270710 TTGAGTAAAAGATTAA
66 TTGAGTAAAAGATTAA
** * * * * *
8270726 TGGCCTAAATGTGCATTCGATATAAATGTGTCAATTATGCAAGTTATATGAAAGGTTAAATACCT
1 TGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCT
*
8270791 TTGAGTAAAATATTAA
66 TTGAGTAAAAGATTAA
* * *
8270807 TGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGTCAGTTATATGAAAGGTTAAGTACCT
1 TGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCT
8270872 TTGAGTAAAAGATTAA
66 TTGAGTAAAAGATTAA
* * * *
8270888 TGACCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGTCAGTTATACGAAAGGTTAAATACCT
1 TGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCT
*
8270953 TTGAGTAAAATATTAA
66 TTGAGTAAAAGATTAA
* * *
8270969 TGACCTAGCTGTGCATTTGATAGAAA-GATGTTAATTATGCCAGTT-GAATGAAAGGTTAAATAC
1 TGGCCTAGCTGTGCATTTGACAGAAATG-TGTCAATTATGCCAGTTAG-ATGAAAGGTTAAATAC
8271032 CTTTGAGTAAAAGATTAA
64 CTTTGAGTAAAAGATTAA
* * * * * *
8271050 TGGCCTACCTGTGGATTTGACCGAAAGGTTTCAATTATGCCAGTTAGATGAAAAGTTAAATACCT
1 TGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCT
8271115 TTGAGTAAAAGATTAA
66 TTGAGTAAAAGATTAA
* * * * * * * *
8271131 TTGCCAAGCTGTGCATTTGACAAAAATATGTCAATTATCCCAGTTAAATGAAATGTTGAATACCT
1 TGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCT
8271196 TTGAGTAAAAGATTAA
66 TTGAGTAAAAGATTAA
* * * *
8271212 TGGCCTAGCTATGCATTTGACAGAAAGGTGTCAATTATGCTAGTTAGATGAAAGGTTAAGTACCT
1 TGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCT
*
8271277 TTGAGTAAAATATTAA
66 TTGAGTAAAAGATTAA
* * *
8271293 TGACCTAGCTGTGCATTTGATAGAAATGTGTCAATTATTCCAGTTAGATGAAAGGTTAAATACCT
1 TGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCT
8271358 TTGAGTAAAAGATTAA
66 TTGAGTAAAAGATTAA
* * * * *
8271374 TGGCCTAGCTATGCATTTGATAGAAAGGTGTCAATTATGCAAGTTAGATGAAAGGTTAAATACAT
1 TGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCT
*
8271439 TTGTGTAAAAGATTAA
66 TTGAGTAAAAGATTAA
* * * *
8271455 TGGCCTAGTTGTGCATTTGACAAAAATGTGTCAATTATGCCAGTTAGATGAAAGCTTAAATACAT
1 TGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCT
8271520 TTGAGTAAAAGATTAA
66 TTGAGTAAAAGATTAA
* * * *
8271536 TGGCCTAGCTATGCATTTGATAGAAA-GATGTCAATTATTCCAATTAGATGAAAGGTTAAATACC
1 TGGCCTAGCTGTGCATTTGACAGAAATG-TGTCAATTATGCCAGTTAGATGAAAGGTTAAATACC
*
8271600 TTTGAGTAAAATATTAA
65 TTTGAGTAAAAGATTAA
* * * *
8271617 TGGCCTAGTTGTGCATTTGACAGTAAGGTGTTAATTATGCCAGTTAGATGAAAGGTTAAATACCT
1 TGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCT
*
8271682 TTGAGTAAAAGTTTAA
66 TTGAGTAAAAGATTAA
* * *
8271698 TGTCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCTAGTTAGATGAAAGATTAAATACCT
1 TGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCT
**
8271763 TTGAGTAAAAGACAAAA
66 TTGAGTAAAAGA-TTAA
* * ** * *
8271780 T-GCTTAACAATGCATTTGATAGAAATGTGTCAATTATGCCAATTAGATGAAAGGTTAAATACCT
1 TGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCT
8271844 TTGAGTAAAAGATTAA
66 TTGAGTAAAAGATTAA
* * * *
8271860 TGGCCTAGTTGTGCTTTTGACAGAAAAGTGTCAATTATGCTAGTTAGATGAAAGGTTAAATACCT
1 TGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCT
8271925 TTGAGTAAAAGATTAA
66 TTGAGTAAAAGATTAA
* * * * * * *
8271941 TGGTCTAGCTGTGCATTTCACAGAAAGGTGTCAATTGTGACAGTTAAATGAAAGGTTAAATATCT
1 TGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCT
*
8272006 TTAAGTAAAAGATTAA
66 TTGAGTAAAAGATTAA
* *
8272022 TGGCCTAGCTGTGCATTTGACAGAAAGGTGACAATTATGCCAGTTAGATGAAAGGTTAAATACCT
1 TGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCT
*
8272087 TTGAGTAAAATATTAA
66 TTGAGTAAAAGATTAA
* * * *
8272103 TGGTCTAGTTGTGCATTTGACAGAAATATGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCG
1 TGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCT
8272168 TTGAGTAAAAGATTAA
66 TTGAGTAAAAGATTAA
* * * *
8272184 TGGCATAGCTGTGCATTTGACATAAATGTGTTAATTATGCCAGTTAGATGAAAGGTTAAATACAT
1 TGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCT
*
8272249 TTGAGTAAAATATTAA
66 TTGAGTAAAAGATTAA
* **
8272265 TGGCCTAGCTGTGCATTTGACAAAAATGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATATAT
1 TGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCT
8272330 TTGAGTAAAAGATTAA
66 TTGAGTAAAAGATTAA
8272346 TGGCCTAGCTGTGCATTT
1 TGGCCTAGCTGTGCATTT
8272364 TGATATAAAC
Statistics
Matches: 1454, Mismatches: 176, Indels: 16
0.88 0.11 0.01
Matches are distributed among these distances:
80 5 0.00
81 1443 0.99
82 6 0.00
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (81 bp):
TGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCT
TTGAGTAAAAGATTAA
Found at i:8280004 original size:20 final size:20
Alignment explanation
Indices: 8279979--8280043 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
8279969 CGATGCATCC
8279979 CTTGAATATGCATCGATACA
1 CTTGAATATGCATCGATACA
* * * *
8279999 CTTGAAGATGTACCGATGCA
1 CTTGAATATGCATCGATACA
*
8280019 TGCCTTGAATGTGCATCGATACA
1 ---CTTGAATATGCATCGATACA
8280042 CT
1 CT
8280044 ATGCAGTGCA
Statistics
Matches: 33, Mismatches: 9, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
20 18 0.55
23 15 0.45
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (20 bp):
CTTGAATATGCATCGATACA
Found at i:8280025 original size:23 final size:22
Alignment explanation
Indices: 8279964--8280027 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 22
8279954 ACTATAAAAG
*
8279964 TGTACCGATGCATCCCTTGAATA
1 TGTACCGATGCAT-CCTTGAAGA
* * *
8279987 TGCATCGATACA--CTTGAAGA
1 TGTACCGATGCATCCTTGAAGA
8280007 TGTACCGATGCATGCCTTGAA
1 TGTACCGATGCAT-CCTTGAA
8280028 TGTGCATCGA
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
20 16 0.52
23 15 0.48
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (22 bp):
TGTACCGATGCATCCTTGAAGA
Found at i:8280025 original size:43 final size:44
Alignment explanation
Indices: 8279941--8280045 Score: 160
Period size: 43 Copynumber: 2.4 Consensus size: 44
8279931 TTTTGTACAC
8279941 TATGCATCGATACACTATAAAAGTGTACCGATGCATCCCTTGAA
1 TATGCATCGATACACTATAAAAGTGTACCGATGCATCCCTTGAA
* *
8279985 TATGCATCGATACACT-T-GAAGATGTACCGATGCATGCCTTGAA
1 TATGCATCGATACACTATAAAAG-TGTACCGATGCATCCCTTGAA
*
8280028 TGTGCATCGATACACTAT
1 TATGCATCGATACACTAT
8280046 GCAGTGCATC
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
42 3 0.05
43 36 0.64
44 17 0.30
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (44 bp):
TATGCATCGATACACTATAAAAGTGTACCGATGCATCCCTTGAA
Found at i:8280038 original size:23 final size:22
Alignment explanation
Indices: 8279969--8280038 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 22
8279959 AAAAGTGTAC
*
8279969 CGATGCATCCCTTGAATATGCAT
1 CGATGCAT-CCTTGAATGTGCAT
* * *
8279992 CGATACA--CTTGAA-GATGTAC
1 CGATGCATCCTTGAATG-TGCAT
8280012 CGATGCATGCCTTGAATGTGCAT
1 CGATGCAT-CCTTGAATGTGCAT
8280035 CGAT
1 CGAT
8280039 ACACTATGCA
Statistics
Matches: 35, Mismatches: 7, Indels: 10
0.67 0.13 0.19
Matches are distributed among these distances:
20 15 0.43
23 19 0.54
24 1 0.03
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (22 bp):
CGATGCATCCTTGAATGTGCAT
Found at i:8286373 original size:2 final size:2
Alignment explanation
Indices: 8286366--8286460 Score: 181
Period size: 2 Copynumber: 47.0 Consensus size: 2
8286356 TTATTTGTCA
8286366 AT AT AT AT AT AT AT AT CAT 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
8286409 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
8286451 AT AT AT AT AT
1 AT AT AT AT AT
8286461 TTAAATATAA
Statistics
Matches: 92, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 90 0.98
3 2 0.02
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8286648 original size:13 final size:13
Alignment explanation
Indices: 8286612--8286666 Score: 65
Period size: 13 Copynumber: 4.2 Consensus size: 13
8286602 AATGACGCTC
*
8286612 AATGCGCGTCAAA
1 AATGCGCGTCATA
* * *
8286625 AAAGTGAGTCATA
1 AATGCGCGTCATA
*
8286638 AATGCGTGTCATA
1 AATGCGCGTCATA
8286651 AATGCGCGTCATA
1 AATGCGCGTCATA
8286664 AAT
1 AAT
8286667 TTATGACACA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (13 bp):
AATGCGCGTCATA
Found at i:8287006 original size:17 final size:17
Alignment explanation
Indices: 8286984--8287041 Score: 102
Period size: 17 Copynumber: 3.5 Consensus size: 17
8286974 ATTTAACAAA
8286984 AAGGGGGAGAATATAGT
1 AAGGGGGAGAATATAGT
8287001 AAGGGGGAGAATATAGT
1 AAGGGGGAGAATATAGT
8287018 AA-GGGG-GAATATAGT
1 AAGGGGGAGAATATAGT
8287033 AAGGGGGAG
1 AAGGGGGAG
8287042 TAATTTTCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
15 11 0.28
16 8 0.21
17 20 0.51
ACGTcount: A:0.40, C:0.00, G:0.45, T:0.16
Consensus pattern (17 bp):
AAGGGGGAGAATATAGT
Found at i:8287066 original size:13 final size:13
Alignment explanation
Indices: 8287044--8287077 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
8287034 AGGGGGAGTA
*
8287044 ATTTTCAAAATTG
1 ATTTTCAAAAATG
8287057 A-TTTCAAAAATG
1 ATTTTCAAAAATG
8287069 ATTTTCAAA
1 ATTTTCAAA
8287078 GAAAATCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (13 bp):
ATTTTCAAAAATG
Found at i:8287575 original size:21 final size:21
Alignment explanation
Indices: 8287549--8287591 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
8287539 TTTTACACAT
*
8287549 AGTGTACCGATGCACCCTTGA
1 AGTGTAACGATGCACCCTTGA
8287570 AGTGTAACGATGCACCCTTGA
1 AGTGTAACGATGCACCCTTGA
8287591 A
1 A
8287592 CCCTTGAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (21 bp):
AGTGTAACGATGCACCCTTGA
Found at i:8287595 original size:29 final size:29
Alignment explanation
Indices: 8287562--8287620 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
8287552 GTACCGATGC
8287562 ACCCTTGAAGTGTAACGATGCACCCTTGA
1 ACCCTTGAAGTGTAACGATGCACCCTTGA
*
8287591 ACCCTTGAAGTGTACCGATGCACCCTTGA
1 ACCCTTGAAGTGTAACGATGCACCCTTGA
8287620 A
1 A
8287621 GTGTACTGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (29 bp):
ACCCTTGAAGTGTAACGATGCACCCTTGA
Found at i:8287617 original size:21 final size:21
Alignment explanation
Indices: 8287591--8287635 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
8287581 GCACCCTTGA
8287591 ACCCTTGAAGTGTACCGATGC
1 ACCCTTGAAGTGTACCGATGC
*
8287612 ACCCTTGAAGTGTACTGATGC
1 ACCCTTGAAGTGTACCGATGC
8287633 ACC
1 ACC
8287636 TACACTCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.24
Consensus pattern (21 bp):
ACCCTTGAAGTGTACCGATGC
Found at i:8288321 original size:18 final size:19
Alignment explanation
Indices: 8288298--8288351 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 19
8288288 ATGCAAAAAT
8288298 GATATCGATACCATA-ATA
1 GATATCGATACCATAGATA
8288316 GATATC-AGTACCATAGTATA
1 GATATCGA-TACCATAG-ATA
8288336 GTAGTATCGATACCAT
1 G-A-TATCGATACCAT
8288352 GGTAGGGGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 1 0.03
18 13 0.43
20 4 0.13
21 1 0.03
22 10 0.33
23 1 0.03
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.30
Consensus pattern (19 bp):
GATATCGATACCATAGATA
Found at i:8288782 original size:55 final size:55
Alignment explanation
Indices: 8288712--8289171 Score: 662
Period size: 55 Copynumber: 8.4 Consensus size: 55
8288702 GTGCAAAAAG
* * * *
8288712 TTAAAAAATTCATACTAAATGGATGAGTTTTCGTATGGGCACTTTATATGTAAAC
1 TTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGTAAAC
* * *
8288767 TTAAGAAATTCATACTAAGTTGATGAATTTCCGTATGGGCACTTTATATGTAAAC
1 TTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGTAAAC
*
8288822 TTAAGAAATTCATACTAAGTGGATGAA-TTTCTGTATGGGCACTTTATATGTAAAC
1 TTAAGAAATTCATACTAAGTGGATGAATTTTC-GTATGGGCACTTTATGTGTAAAC
*
8288877 TTAAGAATTTCATACTAAGTGGATGAATTTTCGTATGGGCA-TTGTATGTGTAAAC
1 TTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTT-TATGTGTAAAC
* *
8288932 TTAATAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGTAAAC
1 TTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGTAAAC
* *
8288987 TTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGACACTTTATGTGCAAA-
1 TTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGTAAAC
* *
8289041 TGTAAGAAATTCATACTAAGTGGATGAATTTCCGTAT-GACACTTTATGTGTAAAC
1 T-TAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGTAAAC
* * *
8289096 TTATGGAATTCATACTAAGTGGATGAA-TTTCTGTATGGGCACTTTATGTGAAAAAC
1 TTAAGAAATTCATACTAAGTGGATGAATTTTC-GTATGGGCACTTTATGTG-TAAAC
*
8289152 -TAGGAAATTCATACTAAGTG
1 TTAAGAAATTCATACTAAGTG
8289172 TATAAAGTTT
Statistics
Matches: 371, Mismatches: 25, Indels: 18
0.90 0.06 0.04
Matches are distributed among these distances:
53 3 0.01
54 50 0.13
55 308 0.83
56 10 0.03
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (55 bp):
TTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGTAAAC
Found at i:8294422 original size:52 final size:51
Alignment explanation
Indices: 8294360--8294464 Score: 192
Period size: 52 Copynumber: 2.0 Consensus size: 51
8294350 TGCTTTTTAC
8294360 TGATTTGTTGATTGTTTAGTTATTTCTTTGGGTAGTTGATGGAAAAGTTAAA
1 TGATTTGTTGATTGTTTAGTTATTTCTTTGGGTAGTTGATGG-AAAGTTAAA
*
8294412 TGATTTGTTGATTGTTTAGTTATTTCTTTGGGTTGTTGATGGAAAGTTAAA
1 TGATTTGTTGATTGTTTAGTTATTTCTTTGGGTAGTTGATGGAAAGTTAAA
8294463 TG
1 TG
8294465 TGAGAAGTGG
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
51 11 0.21
52 41 0.79
ACGTcount: A:0.23, C:0.02, G:0.26, T:0.50
Consensus pattern (51 bp):
TGATTTGTTGATTGTTTAGTTATTTCTTTGGGTAGTTGATGGAAAGTTAAA
Found at i:8294796 original size:21 final size:21
Alignment explanation
Indices: 8294749--8294796 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
8294739 CATATATATT
*
8294749 AATTTTGTTAAGAAAACAATA
1 AATTTTGTTAAAAAAACAATA
* * *
8294770 AGTTTTGTTAAAAAAATAGTA
1 AATTTTGTTAAAAAAACAATA
8294791 AATTTT
1 AATTTT
8294797 CAAGTTAGTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (21 bp):
AATTTTGTTAAAAAAACAATA
Found at i:8302788 original size:23 final size:23
Alignment explanation
Indices: 8302762--8302808 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
8302752 GGTAACTGTT
8302762 GGAAGTCAAAATTGGAGGCTTTG
1 GGAAGTCAAAATTGGAGGCTTTG
* *
8302785 GGAAGTTAAAATTGGGGGCTTTG
1 GGAAGTCAAAATTGGAGGCTTTG
8302808 G
1 G
8302809 AATTCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.28, C:0.06, G:0.38, T:0.28
Consensus pattern (23 bp):
GGAAGTCAAAATTGGAGGCTTTG
Found at i:8305276 original size:24 final size:24
Alignment explanation
Indices: 8305246--8305293 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
8305236 GGAGATTGTT
8305246 GGAAGTCAAAATTGGAGGCTTTGG
1 GGAAGTCAAAATTGGAGGCTTTGG
*
8305270 GGAAGTCAAAATTGGGGGCTTTGG
1 GGAAGTCAAAATTGGAGGCTTTGG
8305294 AATTTATCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.08, G:0.40, T:0.25
Consensus pattern (24 bp):
GGAAGTCAAAATTGGAGGCTTTGG
Found at i:8305816 original size:50 final size:50
Alignment explanation
Indices: 8305741--8305866 Score: 234
Period size: 50 Copynumber: 2.5 Consensus size: 50
8305731 CCTCCACTAC
8305741 CTGCATGATTAGCTTATGGATTAGTCATATATATATTCAAAGCTTATCTA
1 CTGCATGATTAGCTTATGGATTAGTCATATATATATTCAAAGCTTATCTA
8305791 CTGCATGATTAGCTTATGGATTAGTCATATATATATTCAAAGCTTATCTA
1 CTGCATGATTAGCTTATGGATTAGTCATATATATATTCAAAGCTTATCTA
* *
8305841 TTGCATGATAAGCTTATGGATTAGTC
1 CTGCATGATTAGCTTATGGATTAGTC
8305867 TCATCCATCC
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
50 74 1.00
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (50 bp):
CTGCATGATTAGCTTATGGATTAGTCATATATATATTCAAAGCTTATCTA
Found at i:8307010 original size:20 final size:21
Alignment explanation
Indices: 8306970--8307015 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
8306960 TAAATACAAT
*
8306970 AAATAATATTATTTATTAGAA
1 AAATAATATTATATATTAGAA
8306991 AAATAATATTATAT-TTAGAA
1 AAATAATATTATATATTAGAA
8307011 AAATA
1 AAATA
8307016 TTAGAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (21 bp):
AAATAATATTATATATTAGAA
Found at i:8312748 original size:18 final size:18
Alignment explanation
Indices: 8312717--8312751 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8312707 CCTTCATTAT
**
8312717 CACCACCATGATCATCAG
1 CACCACCACCATCATCAG
8312735 CACCACCACCATCATCA
1 CACCACCACCATCATCA
8312752 TCATCACTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.46, G:0.06, T:0.14
Consensus pattern (18 bp):
CACCACCACCATCATCAG
Found at i:8316934 original size:26 final size:26
Alignment explanation
Indices: 8316898--8316951 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
8316888 ACTAAGTGCA
* *
8316898 TATGGTGGGCACGATCTTATGTGTAT
1 TATGGTGGGCACAACCTTATGTGTAT
8316924 TATGGTGGGCACAACCTTATGTGTAT
1 TATGGTGGGCACAACCTTATGTGTAT
8316950 TA
1 TA
8316952 GAACTTCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.22, C:0.13, G:0.28, T:0.37
Consensus pattern (26 bp):
TATGGTGGGCACAACCTTATGTGTAT
Found at i:8317990 original size:16 final size:16
Alignment explanation
Indices: 8317969--8318007 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
8317959 CAAACATAAA
*
8317969 AAACATTTCCATTAAG
1 AAACATATCCATTAAG
8317985 AAACATATCCATTAAG
1 AAACATATCCATTAAG
8318001 AAACATA
1 AAACATA
8318008 ATAAAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.51, C:0.18, G:0.05, T:0.26
Consensus pattern (16 bp):
AAACATATCCATTAAG
Found at i:8319244 original size:9 final size:9
Alignment explanation
Indices: 8319230--8319256 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
8319220 GTATATGCAA
8319230 GAATTACCT
1 GAATTACCT
8319239 GAATTACCT
1 GAATTACCT
8319248 GAATTACCT
1 GAATTACCT
8319257 TTAGATGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (9 bp):
GAATTACCT
Found at i:8320527 original size:19 final size:19
Alignment explanation
Indices: 8320500--8320560 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
8320490 ATTTCTTTTA
*
8320500 TTTTA-TTTTCTTTTCAATT
1 TTTTATTTTTATTTTC-ATT
*
8320519 TTTTGTTTTTATTTTCA-T
1 TTTTATTTTTATTTTCATT
*
8320537 TTTTATTTTAAGTTTTC-TT
1 TTTTATTTTTA-TTTTCATT
8320556 TTTTA
1 TTTTA
8320561 AACATGATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
18 10 0.29
19 16 0.46
20 9 0.26
ACGTcount: A:0.15, C:0.07, G:0.03, T:0.75
Consensus pattern (19 bp):
TTTTATTTTTATTTTCATT
Found at i:8320551 original size:25 final size:25
Alignment explanation
Indices: 8320500--8320552 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
8320490 ATTTCTTTTA
**
8320500 TTTTATTTTCTTTTCAATTTTTTGT
1 TTTTATTTTCTTTTCAATTTTAAGT
*
8320525 TTTTATTTTCATTTT-TATTTTAAGT
1 TTTTATTTTC-TTTTCAATTTTAAGT
8320550 TTT
1 TTT
8320553 CTTTTTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 20 0.83
26 4 0.17
ACGTcount: A:0.15, C:0.06, G:0.04, T:0.75
Consensus pattern (25 bp):
TTTTATTTTCTTTTCAATTTTAAGT
Found at i:8332912 original size:20 final size:17
Alignment explanation
Indices: 8332878--8332922 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
8332868 TATAAAGTTA
8332878 TTTCTTTTCTTTTCATGT
1 TTTCTTTTCTTTTCAT-T
8332896 TTTCGTTTTCGTTTTCATT
1 TTTC-TTTTC-TTTTCATT
*
8332915 TTTATTTT
1 TTTCTTTT
8332923 AAGTTTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 8 0.33
19 9 0.38
20 7 0.29
ACGTcount: A:0.07, C:0.13, G:0.07, T:0.73
Consensus pattern (17 bp):
TTTCTTTTCTTTTCATT
Found at i:8337847 original size:26 final size:26
Alignment explanation
Indices: 8337814--8337919 Score: 149
Period size: 26 Copynumber: 4.1 Consensus size: 26
8337804 ACTAAGTGGA
8337814 TATGGTGGGCACAACCTTATGTGTAT
1 TATGGTGGGCACAACCTTATGTGTAT
* * *
8337840 GATGGTGGGAACGACCTTATGTGTAT
1 TATGGTGGGCACAACCTTATGTGTAT
** *
8337866 TACAGTGGGCACGACCTTATGTGTAT
1 TATGGTGGGCACAACCTTATGTGTAT
*
8337892 TCTGGTGGGCACAACCTTATGTGTAT
1 TATGGTGGGCACAACCTTATGTGTAT
8337918 TA
1 TA
8337920 GCACTTCGGT
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 68 1.00
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (26 bp):
TATGGTGGGCACAACCTTATGTGTAT
Found at i:8345567 original size:67 final size:68
Alignment explanation
Indices: 8345459--8345610 Score: 236
Period size: 68 Copynumber: 2.2 Consensus size: 68
8345449 CAACACAAGC
* * *
8345459 TCAACTTCATAGCGAAGAGGCGACTGACTGTCAACAAACAAC-TTTTCAGTTTCATTCAGAGTCA
1 TCAACTTCACAGCGAAGAGGCGACTGACTATCAACAAACAACTTTTTCAATTTCATTCAGAGTCA
8345523 ATT
66 ATT
* *
8345526 TCAACTTCACAGCGAATG-GGCGGCTGACTATCAACAAACAACTTTTTCAATTTCATTTAGAGTC
1 TCAACTTCACAGCGAA-GAGGCGACTGACTATCAACAAACAACTTTTTCAATTTCATTCAGAGTC
8345590 AATT
65 AATT
8345594 TCAACTTCACAGCGAAG
1 TCAACTTCACAGCGAAG
8345611 GATATTGGAC
Statistics
Matches: 78, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
67 38 0.49
68 40 0.51
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (68 bp):
TCAACTTCACAGCGAAGAGGCGACTGACTATCAACAAACAACTTTTTCAATTTCATTCAGAGTCA
ATT
Found at i:8345679 original size:111 final size:106
Alignment explanation
Indices: 8345526--8345723 Score: 272
Period size: 111 Copynumber: 1.8 Consensus size: 106
8345516 AGAGTCAATT
* * *
8345526 TCAACTTCACAGCGAATGGGCGGCTGACTATCAACAAACAACTTTTTCAATTTCATTTAGAGTCA
1 TCAACTTCACAGCGAAGGGGCAGCTGACTATCAACAAACAACTTTCT-AATTTCA--T--AGTCA
8345591 ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGC
61 ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGC
* *
8345637 TCAACTTCACAGCGAAGGGGCAGCTCG-CTGTCAACAAACAACTTTCTAGTTTCATAGTCAATTT
1 TCAACTTCACAGCGAAGGGGCAGCT-GACTATCAACAAACAACTTTCTAATTTCATAGTCAATTT
* *
8345701 CAACTTCACGGTGAAGGATATTG
65 CAACTTCACAGCGAAGGATATTG
8345724 ACCTTGAAAC
Statistics
Matches: 79, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
106 30 0.38
108 1 0.01
110 6 0.08
111 41 0.52
112 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.26
Consensus pattern (106 bp):
TCAACTTCACAGCGAAGGGGCAGCTGACTATCAACAAACAACTTTCTAATTTCATAGTCAATTTC
AACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGC
Found at i:8346118 original size:17 final size:18
Alignment explanation
Indices: 8346096--8346135 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
8346086 GTCTACAAAA
8346096 ATATTTTATTA-TATTAT
1 ATATTTTATTATTATTAT
8346113 ATA-TTTATTATTATTAT
1 ATATTTTATTATTATTAT
8346130 -TATTTT
1 ATATTTT
8346136 TGTAGGCCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
ATATTTTATTATTATTAT
Found at i:8346121 original size:16 final size:17
Alignment explanation
Indices: 8346096--8346134 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
8346086 GTCTACAAAA
8346096 ATAT-TTTATTA-TATT
1 ATATATTTATTATTATT
8346111 ATATATTTATTATTATT
1 ATATATTTATTATTATT
8346128 AT-TATTT
1 ATATATTT
8346135 TTGTAGGCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.18
16 12 0.55
17 6 0.27
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
ATATATTTATTATTATT
Found at i:8347176 original size:3 final size:3
Alignment explanation
Indices: 8347163--8347208 Score: 53
Period size: 3 Copynumber: 16.0 Consensus size: 3
8347153 AGGTTAGACA
*
8347163 ATT AGT ATT ATT ATT -TCT ATT ATT -TT ATT -TT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT
8347206 ATT
1 ATT
8347209 TTTAATTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
2 5 0.14
3 31 0.84
4 1 0.03
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:8351782 original size:13 final size:13
Alignment explanation
Indices: 8351752--8351776 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8351742 CAACTAAGTC
8351752 AATATAATTTATT
1 AATATAATTTATT
8351765 AATATAATTTAT
1 AATATAATTTAT
8351777 ACATATTTTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATATAATTTATT
Found at i:8352403 original size:99 final size:100
Alignment explanation
Indices: 8352260--8352456 Score: 324
Period size: 99 Copynumber: 2.0 Consensus size: 100
8352250 AAGAGTATAT
* *
8352260 ATAAGTTAAAGTCAGATTCAATACTTTAGTTTCAAAATAGAATATTCAACTTTAAAAGCAGACGA
1 ATAAGTTAAAGTCA-ATTCAATAATTGAGTTTCAAAATAGAATATTCAACTTTAAAAGCAGACGA
*
8352325 ATTTTATATCATTTAATAAAAATTTACAGTCAATAC
65 ATTTTAAATCATTTAATAAAAATTTACAGTCAATAC
** *
8352361 ATAAGTTAAAGTC-ATTTGATAATTGAGTTTCGAAATAGAATATTCAACTTTAAAAGCAGACGAA
1 ATAAGTTAAAGTCAATTCAATAATTGAGTTTCAAAATAGAATATTCAACTTTAAAAGCAGACGAA
8352425 TTTTAAATCATTTAATAAAAATTTACAGTCAA
66 TTTTAAATCATTTAATAAAAATTTACAGTCAA
8352457 AGCTGGTTTT
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
99 77 0.86
101 13 0.14
ACGTcount: A:0.45, C:0.11, G:0.10, T:0.35
Consensus pattern (100 bp):
ATAAGTTAAAGTCAATTCAATAATTGAGTTTCAAAATAGAATATTCAACTTTAAAAGCAGACGAA
TTTTAAATCATTTAATAAAAATTTACAGTCAATAC
Found at i:8353124 original size:24 final size:26
Alignment explanation
Indices: 8353089--8353137 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
8353079 TCCGAGACTT
8353089 TATGTAATATATAT-AT-ATATATAG
1 TATGTAATATATATGATAATATATAG
8353113 TATGTAGA-ATATATGATAATATATA
1 TATGTA-ATATATATGATAATATATA
8353138 ATATATAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 12 0.55
25 3 0.14
26 7 0.32
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (26 bp):
TATGTAATATATATGATAATATATAG
Found at i:8353163 original size:23 final size:22
Alignment explanation
Indices: 8353135--8353200 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 22
8353125 ATGATAATAT
8353135 ATAATATATAGTTCTATAAAAAA
1 ATAATATATAGTT-TATAAAAAA
* * * *
8353158 ATAATATATGGTTTTTGAAAAT
1 ATAATATATAGTTTATAAAAAA
8353180 AT-ATAATATAGTTTTATAAAA
1 ATAAT-ATATAG-TTTATAAAA
8353201 CATATAGTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 13 0.38
23 19 0.56
ACGTcount: A:0.50, C:0.02, G:0.08, T:0.41
Consensus pattern (22 bp):
ATAATATATAGTTTATAAAAAA
Found at i:8353188 original size:22 final size:20
Alignment explanation
Indices: 8353155--8353217 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
8353145 GTTCTATAAA
*
8353155 AAAATAATATATGGTTTTTG
1 AAAATAATATATAGTTTTTG
8353175 AAAATATATAATATAG-TTTT-
1 AAAATA-AT-ATATAGTTTTTG
* *
8353195 ATAA-AACATATAGTTTTTG
1 AAAATAATATATAGTTTTTG
8353214 AAAA
1 AAAA
8353218 CATATTATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
17 6 0.17
18 5 0.14
19 4 0.11
20 9 0.26
21 6 0.17
22 5 0.14
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.41
Consensus pattern (20 bp):
AAAATAATATATAGTTTTTG
Found at i:8353189 original size:24 final size:23
Alignment explanation
Indices: 8353130--8353489 Score: 129
Period size: 24 Copynumber: 15.6 Consensus size: 23
8353120 AATATATGAT
*
8353130 AATATATAATATATAGTTCTAT-AA
1 AATATATAATATAT-GTT-TTTGAA
*
8353154 AA-AAATAATATATGGTTTTTGAA
1 AATATATAATATAT-GTTTTTGAA
*
8353177 AATATATAATATA-G-TTTT-AT
1 AATATATAATATATGTTTTTGAA
*
8353197 AA-A-A-CATATA-GTTTTTGAA
1 AATATATAATATATGTTTTTGAA
* * * **
8353216 AACATATTATATA-ATTTTAAAA
1 AATATATAATATATGTTTTTGAA
* *
8353238 AACATATAATGTATAGTTTTTGAA
1 AATATATAATATAT-GTTTTTGAA
* ** * *
8353262 AATATGTAGCAGA-G-TTTTAAA
1 AATATATAATATATGTTTTTGAA
* * *
8353283 AACATATAGTATAGTTTTTTTTGAA
1 AATATATAATATA--TGTTTTTGAA
* * **
8353308 AACATATTATATA-GTTTTAAAAA
1 AATATATAATATATGTTTT-TGAA
8353331 GAATATATAATATATAGTTTTTGAA
1 -AATATATAATATAT-GTTTTTGAA
* ** *
8353356 AATATATAGTATA-ACTTTTAAA
1 AATATATAATATATGTTTTTGAA
* ** **
8353378 AACATATTGTTATATAATTTTGAA
1 AATATA-TAATATATGTTTTTGAA
*
8353402 AACATATAATATATAGTTTTTGAA
1 AATATATAATATAT-GTTTTTGAA
* * *
8353426 AA-ACATATTATATGATTTTGAA
1 AATATATAATATATGTTTTTGAA
*
8353448 AATATTATATATTATATAGTTTTTTAA
1 AATA-TATA-A-TATAT-GTTTTTGAA
*
8353475 TATATATATATATAT
1 AATATATA-ATATAT
8353490 ATATATATAT
Statistics
Matches: 252, Mismatches: 59, Indels: 49
0.70 0.16 0.14
Matches are distributed among these distances:
17 6 0.02
18 5 0.02
19 4 0.02
20 4 0.02
21 20 0.08
22 51 0.20
23 40 0.16
24 72 0.29
25 24 0.10
26 16 0.06
27 10 0.04
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (23 bp):
AATATATAATATATGTTTTTGAA
Found at i:8353207 original size:17 final size:17
Alignment explanation
Indices: 8353185--8353222 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
8353175 AAAATATATA
8353185 ATATAGTTTTAT-AAAAC
1 ATATAGTTTT-TGAAAAC
8353202 ATATAGTTTTTGAAAAC
1 ATATAGTTTTTGAAAAC
8353219 ATAT
1 ATAT
8353223 TATATAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 1 0.05
17 19 0.95
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (17 bp):
ATATAGTTTTTGAAAAC
Found at i:8353214 original size:39 final size:39
Alignment explanation
Indices: 8353163--8353245 Score: 121
Period size: 39 Copynumber: 2.1 Consensus size: 39
8353153 AAAAAATAAT
* * * *
8353163 ATATGGTTTTTGAAAATATATAATATAGTTTTATAAAAC
1 ATATAGTTTTTGAAAACATATAATATAATTTTAAAAAAC
*
8353202 ATATAGTTTTTGAAAACATATTATATAATTTTAAAAAAC
1 ATATAGTTTTTGAAAACATATAATATAATTTTAAAAAAC
8353241 ATATA
1 ATATA
8353246 ATGTATAGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (39 bp):
ATATAGTTTTTGAAAACATATAATATAATTTTAAAAAAC
Found at i:8353227 original size:22 final size:22
Alignment explanation
Indices: 8353139--8353458 Score: 139
Period size: 22 Copynumber: 14.3 Consensus size: 22
8353129 TAATATATAA
* * * *
8353139 TATATAGTTCTATAAAAAAATAA
1 TATATAGTT-TTTGAAAACATAT
* *
8353162 TATATGGTTTTTGAAAATATAT
1 TATATAGTTTTTGAAAACATAT
*
8353184 AATATAGTTTTAT-AAAAC----
1 TATATAGTTTT-TGAAAACATAT
8353202 -ATATAGTTTTTGAAAACATAT
1 TATATAGTTTTTGAAAACATAT
* **
8353223 TATATAATTTTAAAAAACATAT
1 TATATAGTTTTTGAAAACATAT
*
8353245 AATGTATAGTTTTTG-AAA-ATAT
1 --TATATAGTTTTTGAAAACATAT
* * *
8353267 GTAGCAGAG-TTTTAAAAACATA-
1 -TA-TATAGTTTTTGAAAACATAT
8353289 TAGTATAGTTTTTTTTGAAAACATAT
1 TA-TATAG---TTTTTGAAAACATAT
** *
8353315 TATATAGTTTTAAAAAGAATATAT
1 TATATAGTTTT-TGAA-AACATAT
*
8353339 AATATATAGTTTTTGAAAATATA-
1 --TATATAGTTTTTGAAAACATAT
** *
8353362 TAGTATAACTTTTAAAAACATATTGT
1 TA-TATAGTTTTTGAAAACATA---T
*
8353388 TATATA-ATTTTGAAAACATAT
1 TATATAGTTTTTGAAAACATAT
8353409 AATATATAGTTTTTGAAAAACATAT
1 --TATATAGTTTTTG-AAAACATAT
*
8353434 TATAT-GATTTTG-AAA-ATAT
1 TATATAGTTTTTGAAAACATAT
8353453 TATATA
1 TATATA
8353459 TTATATAGTT
Statistics
Matches: 230, Mismatches: 36, Indels: 65
0.69 0.11 0.20
Matches are distributed among these distances:
16 1 0.00
17 15 0.07
19 9 0.04
20 3 0.01
21 14 0.06
22 75 0.33
23 28 0.12
24 38 0.17
25 32 0.14
26 15 0.07
ACGTcount: A:0.46, C:0.03, G:0.09, T:0.42
Consensus pattern (22 bp):
TATATAGTTTTTGAAAACATAT
Found at i:8353253 original size:46 final size:44
Alignment explanation
Indices: 8353203--8353458 Score: 172
Period size: 46 Copynumber: 5.6 Consensus size: 44
8353193 TTATAAAACA
8353203 TATAGTTTTTGAAAACATATTATATAATTTTAAAAAACATATAATG
1 TATAGTTTTTGAAAACATATTATATAATTTT-AAAAACATAT-ATG
* * *
8353249 TATAGTTTTTG-AAA-ATATGTAGCAGAGTTTTAAAAACATATA-G
1 TATAGTTTTTGAAAACATAT-TA-TATAATTTTAAAAACATATATG
* * *
8353292 TATAGTTTTTTTTGAAAACATATTATATAGTTTTAAAAAGAATATATAATA
1 TATAG---TTTTTGAAAACATATTATATAATTTT--AAA-AACATAT-ATG
*
8353343 TATAGTTTTTGAAAATATA-TAGTATAACTTTTAAAAACATAT-TG
1 TATAGTTTTTGAAAACATATTA-TATAA-TTTTAAAAACATATATG
* *
8353387 TTATA-TAATTTTGAAAACATATAATATATAGTTTTTGAAAAACATAT-TA
1 -TATAGT--TTTTGAAAACATAT--TATATA-ATTTT-AAAAACATATATG
*
8353436 TAT-GATTTTG-AAA-ATATTATATA
1 TATAGTTTTTGAAAACATATTATATA
8353459 TTATATAGTT
Statistics
Matches: 172, Mismatches: 15, Indels: 50
0.73 0.06 0.21
Matches are distributed among these distances:
42 6 0.03
43 6 0.03
44 11 0.06
45 22 0.13
46 53 0.31
47 10 0.06
48 35 0.20
49 23 0.13
50 1 0.01
51 5 0.03
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.43
Consensus pattern (44 bp):
TATAGTTTTTGAAAACATATTATATAATTTTAAAAACATATATG
Found at i:8353309 original size:25 final size:25
Alignment explanation
Indices: 8353276--8353325 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
8353266 TGTAGCAGAG
8353276 TTTTAAAAACATA-TAGTATAGTTTT
1 TTTTAAAAACATATTA-TATAGTTTT
*
8353301 TTTTGAAAACATATTATATAGTTTT
1 TTTTAAAAACATATTATATAGTTTT
8353326 AAAAAGAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 21 0.91
26 2 0.09
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (25 bp):
TTTTAAAAACATATTATATAGTTTT
Found at i:8353404 original size:94 final size:91
Alignment explanation
Indices: 8353139--8353452 Score: 285
Period size: 94 Copynumber: 3.5 Consensus size: 91
8353129 TAATATATAA
* * ** * *
8353139 TATATAGTTCTATAAAAA-A-ATAATATATGGTTTTTGAAAATATATAATATAGTTTTATAAAAC
1 TATATAGTTTTA-AAAAACATATAATATATAGTTTTTGAAAATATATAGCAAACTTTTA-AAAAC
8353202 ----A-TATAGT--TTTTGAAAACATAT
64 ATATAGTATAGTAATTTTGAAAACATAT
* * * * *
8353223 TATATAATTTTAAAAAACATATAATGTATAGTTTTTGAAAATATGTAGCAGAGTTTTAAAAACAT
1 TATATAGTTTTAAAAAACATATAATATATAGTTTTTGAAAATATATAGCAAACTTTTAAAAACAT
**
8353288 ATAGTATAGTTTTTTTTGAAAACATAT
66 ATAGTATAG-TAATTTTGAAAACATAT
* *
8353315 TATATAGTTTTAAAAAGAATATATAATATATAGTTTTTGAAAATATATAGTATAACTTTTAAAAA
1 TATATAGTTTT-AAAA-AACATATAATATATAGTTTTTGAAAATATATAGCA-AACTTTTAAAAA
*
8353380 CATATTGTTATA-TAATTTTGAAAACATAT
63 CATATAG-TATAGTAATTTTGAAAACATAT
* *
8353409 AATATATAGTTTTTGAAAAACATAT--TATAT-GATTTTGAAAATAT
1 --TATATAG-TTTTAAAAAACATATAATATATAGTTTTTGAAAATAT
8353453 TATATATTAT
Statistics
Matches: 192, Mismatches: 21, Indels: 26
0.80 0.09 0.11
Matches are distributed among these distances:
83 5 0.03
84 16 0.08
85 32 0.17
88 1 0.01
89 5 0.03
90 1 0.01
92 37 0.19
93 9 0.05
94 46 0.24
95 22 0.11
96 14 0.07
97 4 0.02
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.42
Consensus pattern (91 bp):
TATATAGTTTTAAAAAACATATAATATATAGTTTTTGAAAATATATAGCAAACTTTTAAAAACAT
ATAGTATAGTAATTTTGAAAACATAT
Found at i:8353479 original size:2 final size:2
Alignment explanation
Indices: 8353474--8353500 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8353464 TAGTTTTTTA
8353474 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 A
8353501 AAGCTTATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8353532 original size:15 final size:15
Alignment explanation
Indices: 8353508--8353537 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8353498 ATAAAGCTTA
8353508 TTATTATTATTATTT
1 TTATTATTATTATTT
*
8353523 TTATTTTTATTATTT
1 TTATTATTATTATTT
8353538 ATTTTTCTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTATTATTATTATTT
Found at i:8353549 original size:14 final size:13
Alignment explanation
Indices: 8353505--8353543 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 13
8353495 TATATAAAGC
*
8353505 TTATTA-TTATTA
1 TTATTATTTATTT
8353517 TTATT-TTTATTT
1 TTATTATTTATTT
8353529 TTATTATTTATTT
1 TTATTATTTATTT
8353542 TT
1 TT
8353544 CTTTATGTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 15 0.62
13 9 0.38
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTATTATTTATTT
Found at i:8354764 original size:14 final size:14
Alignment explanation
Indices: 8354747--8354788 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
8354737 ATTTTAAATC
8354747 TTTTTATTTATTTA
1 TTTTTATTTATTTA
*
8354761 TTTTTATAT-TTTA
1 TTTTTATTTATTTA
8354774 TATTTTATATTATTT
1 T-TTTTAT-TTATTT
8354789 TATTCTATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 5 0.22
14 14 0.61
15 1 0.04
16 3 0.13
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTTATTTATTTA
Found at i:8354787 original size:17 final size:15
Alignment explanation
Indices: 8354736--8354791 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
8354726 ATTTGAATTT
*
8354736 TATTTTAAATCTTTT-
1 TATTTTATAT-TTTTA
*
8354751 TATTTATTTATTTTTA
1 TATTT-TATATTTTTA
8354767 TATTTTATATTTTATA
1 TATTTTATATTTT-TA
8354783 TTATTTTAT
1 -TATTTTAT
8354792 TCTATTGTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 16 0.47
16 10 0.29
17 8 0.24
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (15 bp):
TATTTTATATTTTTA
Found at i:8355828 original size:20 final size:20
Alignment explanation
Indices: 8355785--8355822 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8355775 AGTCAACAGG
8355785 TCAAAGTCAACAGTCAACTA
1 TCAAAGTCAACAGTCAACTA
* *
8355805 TCAAAGTTAACATTCAAC
1 TCAAAGTCAACAGTCAAC
8355823 ACTCAATGGT
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:0.45, C:0.24, G:0.08, T:0.24
Consensus pattern (20 bp):
TCAAAGTCAACAGTCAACTA
Found at i:8357366 original size:63 final size:63
Alignment explanation
Indices: 8357238--8357359 Score: 156
Period size: 64 Copynumber: 1.9 Consensus size: 63
8357228 CCCTCTTGAT
* * * * *
8357238 AAAATGTGAATCGAATATAAATAAAATTGACGTTTGCATACAACAAAATAAATTGATTAACTA
1 AAAATGTGAATCGAATACAAATAAAATTGACATTTACATAAAACAAAATAAATTGACTAACTA
* * *
8357301 AAAATGTGAATTGAATACAAATGCAAATTGACATTTACATAAAATAAAATAAATT-ACTA
1 AAAATGTGAATCGAATACAAAT-AAAATTGACATTTACATAAAACAAAATAAATTGACTA
8357360 TTTAAAATAA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
63 23 0.46
64 27 0.54
ACGTcount: A:0.52, C:0.09, G:0.10, T:0.29
Consensus pattern (63 bp):
AAAATGTGAATCGAATACAAATAAAATTGACATTTACATAAAACAAAATAAATTGACTAACTA
Found at i:8357568 original size:24 final size:25
Alignment explanation
Indices: 8357536--8357583 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
8357526 GACAATATTT
8357536 AAATAAGAAAAATG-GAAATAAATAG
1 AAATAAG-AAAATGTGAAATAAATAG
*
8357561 AAAT-AGAATATGTGAAATAAATA
1 AAATAAGAAAATGTGAAATAAATA
8357584 TTTACAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 5 0.24
24 12 0.57
25 4 0.19
ACGTcount: A:0.65, C:0.00, G:0.15, T:0.21
Consensus pattern (25 bp):
AAATAAGAAAATGTGAAATAAATAG
Found at i:8359505 original size:3 final size:3
Alignment explanation
Indices: 8359497--8359543 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
8359487 ATTTGTAAAT
* **
8359497 TAA TAA TAA TAG TAA TAA TAA TAA T-A TAA CGA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8359544 CGATAAAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:8359511 original size:17 final size:16
Alignment explanation
Indices: 8359491--8359539 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 16
8359481 TGTAATATTT
8359491 GTAAATTAATAATAATA
1 GTAAA-TAATAATAATA
8359508 GT-AATAATAATAATA
1 GTAAATAATAATAATA
8359523 -TAACGATAATAATAATA
1 GTAA--ATAATAATAATA
8359540 ATAACGATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
14 1 0.03
15 12 0.41
16 2 0.07
17 14 0.48
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.33
Consensus pattern (16 bp):
GTAAATAATAATAATA
Found at i:8359758 original size:43 final size:42
Alignment explanation
Indices: 8359697--8360120 Score: 315
Period size: 43 Copynumber: 9.8 Consensus size: 42
8359687 TGTTGGGGAC
* * * *
8359697 GACACTGCTCATACGTGATGAAGAGTTTGGGTCGTCTAAAGGT
1 GACACGGCTCCTACGTGATGAAGAGTCT-GGTCATCTAAAGGT
*
8359740 GACACGGCTCCTACGTGATGAAGAGTTCTTGGCCATCTAAAGGT
1 GACACGGCTCCTACGTGATGAAGAG-TC-TGGTCATCTAAAGGT
* * * * * *
8359784 GATAACACAGTTCCTACGTGATGAGGACGGCTGGTTATCTAAGGGT
1 G---ACACGGCTCCTACGTGATGAAGA-GTCTGGTCATCTAAAGGT
* * *
8359830 GACACGGCTCCTACGTGATGAGGAGATCTGGTCAGCT---GAT
1 GACACGGCTCCTACGTGATGAAGAG-TCTGGTCATCTAAAGGT
* *
8359870 GACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGT
1 GACACGGCTCCTACGTGATGAAGAG-TCTGGTCATCTAAAGGT
* * * * *
8359913 GATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCT-ATGGTT
1 G---ACACGGCTCCTACGTGATGAAGA-GTCTGGTCATCTAAAGG-T
* * *
8359959 GACACGGCTCCTACGTGATGAGGAGATCTGGTCAGCT---GAT
1 GACACGGCTCCTACGTGATGAAGAG-TCTGGTCATCTAAAGGT
* *
8359999 GACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGT
1 GACACGGCTCCTACGTGATGAAGAG-TCTGGTCATCTAAAGGT
* * * * *
8360042 GATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCT-ATGGTT
1 G---ACACGGCTCCTACGTGATGAAGA-GTCTGGTCATCTAAAGG-T
8360088 GACACGGCTCCTACGTGATGAAGAGATCTGGTC
1 GACACGGCTCCTACGTGATGAAGAG-TCTGGTC
8360121 TGGGGATGAC
Statistics
Matches: 303, Mismatches: 53, Indels: 50
0.75 0.13 0.12
Matches are distributed among these distances:
40 67 0.22
41 1 0.00
42 3 0.01
43 114 0.38
44 14 0.05
45 7 0.02
46 73 0.24
47 23 0.08
48 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (42 bp):
GACACGGCTCCTACGTGATGAAGAGTCTGGTCATCTAAAGGT
Found at i:8359885 original size:40 final size:40
Alignment explanation
Indices: 8359829--8360151 Score: 218
Period size: 40 Copynumber: 7.6 Consensus size: 40
8359819 TATCTAAGGG
8359829 TGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGCTGA
1 TGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGCTGA
* * * *
8359869 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGA
1 TGACACGGCTCCTACGTGATGAGGAGATCTGG---TC---AGCTGA
* * * * * *
8359915 TAACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCTATGGT
1 TGACACGGCTCCTACGTGATGAGGA-GATCTGGTCAGC--T-GA
8359958 TGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGCTGA
1 TGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGCTGA
* * * *
8359998 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGA
1 TGACACGGCTCCTACGTGATGAGGAGATCTGG---TC---AGCTGA
* * * * * *
8360044 TAACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCTATGGT
1 TGACACGGCTCCTACGTGATGAGGA-GATCTGGTCAGC--T-GA
* * **
8360087 TGACACGGCTCCTACGTGATGAAGAGATCTGGTCTGGGGA
1 TGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGCTGA
* *
8360127 TGACACGGTTCCTACATGATGAGGA
1 TGACACGGCTCCTACGTGATGAGGA
8360152 CGGCTGGCCA
Statistics
Matches: 216, Mismatches: 45, Indels: 44
0.71 0.15 0.14
Matches are distributed among these distances:
40 84 0.39
41 1 0.00
42 4 0.02
43 65 0.30
46 60 0.28
47 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (40 bp):
TGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGCTGA
Found at i:8360164 original size:129 final size:129
Alignment explanation
Indices: 8359739--8360148 Score: 712
Period size: 129 Copynumber: 3.2 Consensus size: 129
8359729 CGTCTAAAGG
* *
8359739 TGACACGGCTCCTACGTGATGAAGAGTTCTTGGCCATCTAAAGGTGATAACACAGTTCCTACGTG
1 TGACACGGCTCATACGTGATGAAGAGTTC-TGGCCATCTAAAGGTGATAACACGGTTCCTACGTG
* *
8359804 ATGAGGACGGCTGGTTATCTAAGGGTGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGCTGA
65 ATGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGCTGA
8359869 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGA
1 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGA
8359934 TGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGCTGA
66 TGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGCTGA
8359998 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGA
1 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGA
* * **
8360063 TGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGATCTGGTCTGGGGA
66 TGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGCTGA
* * *
8360127 TGACACGGTTCCTACATGATGA
1 TGACACGGCTCATACGTGATGA
8360149 GGACGGCTGG
Statistics
Matches: 269, Mismatches: 11, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
129 241 0.90
130 28 0.10
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.25
Consensus pattern (129 bp):
TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGA
TGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGCTGA
Found at i:8360581 original size:15 final size:15
Alignment explanation
Indices: 8360557--8360600 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
8360547 AAGATGATCT
*
8360557 TGTTTTAAGAGAAAA
1 TGTTTCAAGAGAAAA
8360572 TGTTTCAAGAGAAAA
1 TGTTTCAAGAGAAAA
*
8360587 TGTTTCAAGTGAAA
1 TGTTTCAAGAGAAA
8360601 CGACTCAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.43, C:0.05, G:0.20, T:0.32
Consensus pattern (15 bp):
TGTTTCAAGAGAAAA
Found at i:8360869 original size:64 final size:63
Alignment explanation
Indices: 8360757--8360960 Score: 275
Period size: 65 Copynumber: 3.2 Consensus size: 63
8360747 AAGGTTGGTA
* ** *
8360757 TTTTCAAAAGAAGTTGTCTCGAGAGACAAAATTTTGTTTCAAAGGAAACAAACTCAAAGATTT
1 TTTTCAAAAGAAATTGTCTTAAGAGACAAAATTTTGTTTCAAAAGAAACAAACTCAAAGATTT
* * *
8360820 TTTTCAAAAGAAATTGTCTTTAATAGATAAAATTTTGTTTCAAAAGAAACATACTCAAAGATTTT
1 TTTTCAAAAGAAATTGTC-TTAAGAGACAAAATTTTGTTTCAAAAGAAACAAACTCAAAGA-TTT
* * * *
8360885 TGTTTTAAAAGAAACTATCTTAAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGA-TT
1 T-TTTCAAAAGAAATTGTCTTAAGAGACAAAATTTTGTTTCAAAAGAAACAAACTCAAAGATTT
8360948 TTTTCAAAAGAAA
1 TTTTCAAAAGAAA
8360961 CAATCTCAAA
Statistics
Matches: 123, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
62 11 0.09
63 20 0.16
64 36 0.29
65 42 0.34
66 14 0.11
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (63 bp):
TTTTCAAAAGAAATTGTCTTAAGAGACAAAATTTTGTTTCAAAAGAAACAAACTCAAAGATTT
Found at i:8360955 original size:26 final size:27
Alignment explanation
Indices: 8360922--8360978 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
8360912 CAAAATTTTG
*
8360922 TTTCCAAAGAAACAAACTCAAAGATTT
1 TTTCAAAAGAAACAAACTCAAAGATTT
*
8360949 TTTCAAAAGAAACAATCTCAAAGATTT
1 TTTCAAAAGAAACAAACTCAAAGATTT
8360976 TTT
1 TTT
8360979 TTTTTTTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.46, C:0.16, G:0.07, T:0.32
Consensus pattern (27 bp):
TTTCAAAAGAAACAAACTCAAAGATTT
Found at i:8361100 original size:26 final size:25
Alignment explanation
Indices: 8361071--8361307 Score: 105
Period size: 29 Copynumber: 8.5 Consensus size: 25
8361061 CAAAACTTTG
* *
8361071 TTTCAAAATAAATAGACTCAAAGATT
1 TTTCAAAAGAAACA-ACTCAAAGATT
8361097 TTTCAAAAGAAACAACTCAAAGATATT
1 TTTCAAAAGAAACAACTCAAAG--ATT
* *
8361124 TATTCAAAAGGAACAAACTCCAAGATTTT
1 T-TTCAAAAGAAAC-AACTCAAAGA--TT
* *
8361153 TATTTAAAAGGAACAAACTCAAAGATTTT
1 T-TTCAAAAGAAAC-AACTCAAAGA--TT
* *
8361182 TATTTAAAAGGAACAAACTCAAAGATTTT
1 T-TTCAAAAGAAAC-AACTCAAAGA--TT
* *
8361211 TATTTAAAAGGAACAAACTCAAAGATTTT
1 T-TTCAAAAGAAAC-AACTCAAAGA--TT
* *
8361240 TATTTAAAAGGAACAAACTCAAAGATTTT
1 T-TTCAAAAGAAAC-AACTCAAAGA--TT
* *
8361269 TATTTAAAAGGAACAAACTCAAAGATT
1 T-TTCAAAAGAAAC-AACTCAAAGATT
* *
8361296 TTTTAAGAGAAA
1 TTTCAAAAGAAA
8361308 TTATCTCAAG
Statistics
Matches: 197, Mismatches: 8, Indels: 12
0.91 0.04 0.06
Matches are distributed among these distances:
25 8 0.04
26 21 0.11
27 8 0.04
28 11 0.06
29 149 0.76
ACGTcount: A:0.49, C:0.11, G:0.10, T:0.30
Consensus pattern (25 bp):
TTTCAAAAGAAACAACTCAAAGATT
Found at i:8361154 original size:29 final size:29
Alignment explanation
Indices: 8361086--8361298 Score: 353
Period size: 29 Copynumber: 7.5 Consensus size: 29
8361076 AAATAAATAG
* *
8361086 ACTCAAAGA--TTT-TTCAAAAGAAAC-A
1 ACTCAAAGATTTTTATTTAAAAGGAACAA
* *
8361111 ACTCAAAGATATTTATTCAAAAGGAACAA
1 ACTCAAAGATTTTTATTTAAAAGGAACAA
*
8361140 ACTCCAAGATTTTTATTTAAAAGGAACAA
1 ACTCAAAGATTTTTATTTAAAAGGAACAA
8361169 ACTCAAAGATTTTTATTTAAAAGGAACAA
1 ACTCAAAGATTTTTATTTAAAAGGAACAA
8361198 ACTCAAAGATTTTTATTTAAAAGGAACAA
1 ACTCAAAGATTTTTATTTAAAAGGAACAA
8361227 ACTCAAAGATTTTTATTTAAAAGGAACAA
1 ACTCAAAGATTTTTATTTAAAAGGAACAA
8361256 ACTCAAAGATTTTTATTTAAAAGGAACAA
1 ACTCAAAGATTTTTATTTAAAAGGAACAA
8361285 ACTCAAAGATTTTT
1 ACTCAAAGATTTTT
8361299 TAAGAGAAAT
Statistics
Matches: 179, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
25 9 0.05
27 3 0.02
28 11 0.06
29 156 0.87
ACGTcount: A:0.48, C:0.12, G:0.10, T:0.30
Consensus pattern (29 bp):
ACTCAAAGATTTTTATTTAAAAGGAACAA
Found at i:8361964 original size:4 final size:4
Alignment explanation
Indices: 8361948--8361993 Score: 62
Period size: 4 Copynumber: 12.2 Consensus size: 4
8361938 ATACAAATTT
*
8361948 TATG TAT- TATG TATG TATG --TG TATA TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
8361993 T
1 T
8361994 TTTCTCGATC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 3 0.08
4 32 0.86
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:8361978 original size:18 final size:17
Alignment explanation
Indices: 8361950--8361985 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
8361940 ACAAATTTTA
8361950 TGTATTATGTATGTATG
1 TGTATTATGTATGTATG
8361967 TGTATATATGTATGTATG
1 TGTAT-TATGTATGTATG
8361985 T
1 T
8361986 ATGTATGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.25, C:0.00, G:0.22, T:0.53
Consensus pattern (17 bp):
TGTATTATGTATGTATG
Found at i:8367371 original size:63 final size:63
Alignment explanation
Indices: 8367243--8367364 Score: 156
Period size: 64 Copynumber: 1.9 Consensus size: 63
8367233 CCCTCTTGAT
* * * * *
8367243 AAAATGTGAATCGAATATAAATAAAATTGACGTTTGCATACAACAAAATAAATTGATTAACTA
1 AAAATGTGAATCGAATACAAATAAAATTGACATTTACATAAAACAAAATAAATTGACTAACTA
* * *
8367306 AAAATGTGAATTGAATACAAATGCAAATTGACATTTACATAAAATAAAATAAATT-ACTA
1 AAAATGTGAATCGAATACAAAT-AAAATTGACATTTACATAAAACAAAATAAATTGACTA
8367365 TTTAAAATAA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
63 23 0.46
64 27 0.54
ACGTcount: A:0.52, C:0.09, G:0.10, T:0.29
Consensus pattern (63 bp):
AAAATGTGAATCGAATACAAATAAAATTGACATTTACATAAAACAAAATAAATTGACTAACTA
Found at i:8369512 original size:3 final size:3
Alignment explanation
Indices: 8369504--8369559 Score: 78
Period size: 3 Copynumber: 19.0 Consensus size: 3
8369494 ATTTGTAAAT
* **
8369504 TAA TAA TAA TAA TAG TAA TAA TAA TAA T-A TAA CGA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8369551 TAA TAA TAA
1 TAA TAA TAA
8369560 CGATAAAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:8373967 original size:15 final size:15
Alignment explanation
Indices: 8373947--8373976 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
8373937 AAATTTTCTT
8373947 ATTAGTGGCATCTAG
1 ATTAGTGGCATCTAG
8373962 ATTAGTGGCATCTAG
1 ATTAGTGGCATCTAG
8373977 TGTATTGTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (15 bp):
ATTAGTGGCATCTAG
Found at i:8375908 original size:35 final size:35
Alignment explanation
Indices: 8375869--8375951 Score: 139
Period size: 35 Copynumber: 2.4 Consensus size: 35
8375859 CTCGATGAAA
* *
8375869 GTTTGATTGGGGGGTTTTGTTTAACCCCTTATCGG
1 GTTTGATTTGGGGGTTTTGTTTAACCCCTAATCGG
*
8375904 GTTTGATTTGGGGGTTTTGTTTAACTCCTAATCGG
1 GTTTGATTTGGGGGTTTTGTTTAACCCCTAATCGG
8375939 GTTTGATTTGGGG
1 GTTTGATTTGGGG
8375952 TGGTAGCTAC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 45 1.00
ACGTcount: A:0.12, C:0.11, G:0.33, T:0.45
Consensus pattern (35 bp):
GTTTGATTTGGGGGTTTTGTTTAACCCCTAATCGG
Found at i:8378373 original size:27 final size:27
Alignment explanation
Indices: 8378327--8378380 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
8378317 CAATGTTTTA
*
8378327 CTGCTTTCGAATAGAAAAATAATAGAT
1 CTGCTTTCGAAAAGAAAAATAATAGAT
**
8378354 CTGCTTTCGAAAAGGGAAATAATAGAT
1 CTGCTTTCGAAAAGAAAAATAATAGAT
8378381 TTTGAAAACG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.28
Consensus pattern (27 bp):
CTGCTTTCGAAAAGAAAAATAATAGAT
Found at i:8379448 original size:42 final size:42
Alignment explanation
Indices: 8379348--8379647 Score: 233
Period size: 42 Copynumber: 7.3 Consensus size: 42
8379338 GGCATTTTTA
****
8379348 AGTGGCGTTTTACGCACAAACGCCGCTAACGGTA-GTA-TTGT
1 AGTGGCGTTTTACGCACAAACGCCGCTAATTACACGTACTT-T
* * *
8379389 AGTGGCATTTTAAGCACAAACGCCGTTAATTACACGTACTTT
1 AGTGGCGTTTTACGCACAAACGCCGCTAATTACACGTACTTT
* *
8379431 AGTGGTGTTTTACGCACAAACGCCGCTAATTACACGTACTCT
1 AGTGGCGTTTTACGCACAAACGCCGCTAATTACACGTACTTT
* * * * * * *
8379473 AGTGGTGTTTTTA--TATAAACACCGAC-AAATAC-TGAACTTT
1 AGTGGCG-TTTTACGCACAAACGCCG-CTAATTACACGTACTTT
* * **
8379513 AGTGGCGTTTTTA--TACAAACGCTGCTAA--AGGTCGTACTTT
1 AGTGGCG-TTTTACGCACAAACGCCGCTAATTA-CACGTACTTT
* ** * *
8379553 AGTGGCGTTTTAAGCACAAACGTTGCTAATGATACGTACTTT
1 AGTGGCGTTTTACGCACAAACGCCGCTAATTACACGTACTTT
* *
8379595 AGTGGCGTTTTACGCACAAACGCCGCTAATTATACTTACTTT
1 AGTGGCGTTTTACGCACAAACGCCGCTAATTACACGTACTTT
*
8379637 AGTGGCATTTT
1 AGTGGCGTTTT
8379648 TAACATATAC
Statistics
Matches: 212, Mismatches: 36, Indels: 21
0.79 0.13 0.08
Matches are distributed among these distances:
38 1 0.00
39 6 0.03
40 40 0.19
41 53 0.25
42 104 0.49
43 8 0.04
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (42 bp):
AGTGGCGTTTTACGCACAAACGCCGCTAATTACACGTACTTT
Found at i:8379552 original size:40 final size:42
Alignment explanation
Indices: 8379508--8379691 Score: 169
Period size: 42 Copynumber: 4.4 Consensus size: 42
8379498 CAAATACTGA
* * *
8379508 ACTTTAGTGGCGTTTTTA-TACAAACGCTGCTAAAGGT-CGT
1 ACTTTAGTGGCGTTTTAAGCACAAACGCTGCTAAAGATACGT
* *
8379548 ACTTTAGTGGCGTTTTAAGCACAAACGTTGCTAATGATACGT
1 ACTTTAGTGGCGTTTTAAGCACAAACGCTGCTAAAGATACGT
* * ** *
8379590 ACTTTAGTGGCGTTTTACGCACAAACGCCGCTAATTATACTT
1 ACTTTAGTGGCGTTTTAAGCACAAACGCTGCTAAAGATACGT
* * * * *
8379632 ACTTTAGTGGCATTTTTAA-CATATACGCTGTTAAATACTA-GT
1 ACTTTAGTGGC-GTTTTAAGCACAAACGCTGCTAAAGA-TACGT
* *
8379674 ACGTTAGTGGTGTTTTAA
1 ACTTTAGTGGCGTTTTAA
8379692 AAAAAATGCC
Statistics
Matches: 119, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
40 17 0.14
41 21 0.18
42 74 0.62
43 7 0.06
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (42 bp):
ACTTTAGTGGCGTTTTAAGCACAAACGCTGCTAAAGATACGT
Found at i:8386099 original size:21 final size:21
Alignment explanation
Indices: 8386059--8386099 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
8386049 CCGAAAATGA
* *
8386059 AGCAAGGGAAGCAGAGAGAGC
1 AGCAAGGGAAGCACACAGAGC
*
8386080 AGCAATGGAAGCACACAGAG
1 AGCAAGGGAAGCACACAGAG
8386100 AAGAAGCGAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.17, G:0.37, T:0.02
Consensus pattern (21 bp):
AGCAAGGGAAGCACACAGAGC
Found at i:8386564 original size:43 final size:43
Alignment explanation
Indices: 8386513--8386610 Score: 135
Period size: 43 Copynumber: 2.3 Consensus size: 43
8386503 AAAACAATAT
* *
8386513 CGACGTTTGTA-ACAAAAAACGCCGCTATATACCAGACCTTTTG
1 CGACGTTTGTATA-AAAAAACACCACTATATACCAGACCTTTTG
* *
8386556 CGACGTTTGTATAAAAAAATACCACTATATACTAGACCTTTTG
1 CGACGTTTGTATAAAAAAACACCACTATATACCAGACCTTTTG
*
8386599 CGGCGTTTGTAT
1 CGACGTTTGTAT
8386611 CCGAAAAACA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
43 48 0.98
44 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (43 bp):
CGACGTTTGTATAAAAAAACACCACTATATACCAGACCTTTTG
Found at i:8390444 original size:31 final size:32
Alignment explanation
Indices: 8390406--8390474 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
8390396 AGTTATTTTT
*
8390406 GGTTTGGCT-AAATTCAGGT-TGTTTTCGGTTC
1 GGTTTGGCTAAAATTCAGGTCGGTTTT-GGTTC
*
8390437 GGTTTGGCTAAAATTCGGGTCGGTTTTGGTTC
1 GGTTTGGCTAAAATTCAGGTCGGTTTTGGTTC
*
8390469 GATTTG
1 GGTTTG
8390475 TTTTTTTCAG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 9 0.27
32 19 0.58
33 5 0.15
ACGTcount: A:0.13, C:0.12, G:0.32, T:0.43
Consensus pattern (32 bp):
GGTTTGGCTAAAATTCAGGTCGGTTTTGGTTC
Found at i:8391313 original size:29 final size:29
Alignment explanation
Indices: 8391280--8391343 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 29
8391270 TGGGTTTTTA
*
8391280 GAAAATAATTTACGTAAAATGGATTACCT
1 GAAAATAATTTACGTAAAATGAATTACCT
* *
8391309 GAAAATTATTTTATGTAAAATGAATTACCT
1 GAAAA-TAATTTACGTAAAATGAATTACCT
8391339 -AAAAT
1 GAAAAT
8391344 TGTTTTACGC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 1 0.03
29 9 0.29
30 21 0.68
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.34
Consensus pattern (29 bp):
GAAAATAATTTACGTAAAATGAATTACCT
Found at i:8391344 original size:29 final size:30
Alignment explanation
Indices: 8391280--8391365 Score: 104
Period size: 29 Copynumber: 2.9 Consensus size: 30
8391270 TGGGTTTTTA
* *
8391280 GAAAA-TAATTTACGTAAAATGGATTACCT
1 GAAAATTATTTTACGTAAAATGAATTACCT
*
8391309 GAAAATTATTTTATGTAAAATGAATTACCT
1 GAAAATTATTTTACGTAAAATGAATTACCT
* * *
8391339 -AAAATTGTTTTACGCAAAATAAATTAC
1 GAAAATTATTTTACGTAAAATGAATTAC
8391366 ATTTTCTAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
29 28 0.57
30 21 0.43
ACGTcount: A:0.45, C:0.09, G:0.10, T:0.35
Consensus pattern (30 bp):
GAAAATTATTTTACGTAAAATGAATTACCT
Found at i:8391725 original size:17 final size:18
Alignment explanation
Indices: 8391699--8391758 Score: 68
Period size: 19 Copynumber: 3.3 Consensus size: 18
8391689 ACATATTAAT
8391699 ATAATATTAAA-AATATA
1 ATAATATTAAATAATATA
* *
8391716 ATATTATTAAATTTATATA
1 ATAATATTAAA-TAATATA
* *
8391735 ATAATATTAAATATTTTA
1 ATAATATTAAATAATATA
8391753 ATAATA
1 ATAATA
8391759 CTATTTTTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
17 10 0.29
18 10 0.29
19 15 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATATTAAATAATATA
Found at i:8392544 original size:29 final size:29
Alignment explanation
Indices: 8392512--8392643 Score: 131
Period size: 29 Copynumber: 4.5 Consensus size: 29
8392502 TCCCAAACAA
8392512 AAACAGGATGGGGATTAAATCCCATGTAG
1 AAACAGGATGGGGATTAAATCCCATGTAG
*
8392541 AAACAGGATGAGGATTAAATCCCATGTAG
1 AAACAGGATGGGGATTAAATCCCATGTAG
* * *
8392570 AAATAGGA-GGGGAAATAAATTCCCATATAG
1 AAACAGGATGGGG-ATTAAA-TCCCATGTAG
* * ** * *
8392600 AATCAGGAGGGGGAACGAAGTCCCATGCAG
1 AAACAGGATGGGG-ATTAAATCCCATGTAG
*
8392630 AATCAGGATGGGGA
1 AAACAGGATGGGGA
8392644 ACGAAGTCCC
Statistics
Matches: 87, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
28 3 0.03
29 41 0.47
30 35 0.40
31 8 0.09
ACGTcount: A:0.39, C:0.14, G:0.30, T:0.17
Consensus pattern (29 bp):
AAACAGGATGGGGATTAAATCCCATGTAG
Found at i:8392601 original size:30 final size:29
Alignment explanation
Indices: 8392527--8392644 Score: 87
Period size: 30 Copynumber: 4.0 Consensus size: 29
8392517 GGATGGGGAT
* * * *
8392527 TAAATCCCATGTAGAAACAGGATGAGG-AT
1 TAAATCCCATATAGAATCAGGA-GGGGAAA
*
8392556 TAAATCCCATGTAGAAAT-AGGAGGGGAAA
1 TAAATCCCATATAG-AATCAGGAGGGGAAA
*
8392585 TAAATTCCCATATAGAATCAGGAGGGGGAAC
1 TAAA-TCCCATATAGAATCAGGA-GGGGAAA
* * **
8392616 GAAGTCCCATGCAGAATCAGGATGGGGAA
1 TAAATCCCATATAGAATCAGGA-GGGGAA
8392645 CGAAGTCCCA
Statistics
Matches: 74, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
28 3 0.04
29 26 0.35
30 37 0.50
31 8 0.11
ACGTcount: A:0.40, C:0.14, G:0.28, T:0.18
Consensus pattern (29 bp):
TAAATCCCATATAGAATCAGGAGGGGAAA
Found at i:8392645 original size:30 final size:30
Alignment explanation
Indices: 8392598--8392661 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
8392588 ATTCCCATAT
8392598 AGAATCAGGAGGGGGAACGAAGTCCCATGC
1 AGAATCAGGAGGGGGAACGAAGTCCCATGC
*
8392628 AGAATCAGGATGGGGAACGAAGTCCCATGC
1 AGAATCAGGAGGGGGAACGAAGTCCCATGC
8392658 AGAA
1 AGAA
8392662 ATAGGAATGC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.36, C:0.19, G:0.34, T:0.11
Consensus pattern (30 bp):
AGAATCAGGAGGGGGAACGAAGTCCCATGC
Found at i:8397705 original size:2 final size:2
Alignment explanation
Indices: 8397700--8397733 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
8397690 TTTTTAAAAC
8397700 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
8397734 CCCCATACCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8397930 original size:24 final size:24
Alignment explanation
Indices: 8397893--8397962 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
8397883 ACGGAGATAT
* * *
8397893 CATAAATTAAAACAGAGTTCAGAA
1 CATAAATCAGAACAGAATTCAGAA
* * *
8397917 CATAAATCAGAACAAAATCCAGAT
1 CATAAATCAGAACAGAATTCAGAA
*
8397941 CAGAAATCAGAACAGAATTCAG
1 CATAAATCAGAACAGAATTCAG
8397963 GTCATGTATT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.53, C:0.17, G:0.13, T:0.17
Consensus pattern (24 bp):
CATAAATCAGAACAGAATTCAGAA
Found at i:8397956 original size:12 final size:12
Alignment explanation
Indices: 8397911--8397962 Score: 61
Period size: 12 Copynumber: 4.3 Consensus size: 12
8397901 AAAACAGAGT
*
8397911 TCAGAACATAAA
1 TCAGAACAGAAA
8397923 TCAGAACA-AAA
1 TCAGAACAGAAA
*
8397934 TCCAGATCAGAAA
1 T-CAGAACAGAAA
*
8397947 TCAGAACAGAAT
1 TCAGAACAGAAA
8397959 TCAG
1 TCAG
8397963 GTCATGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
11 4 0.11
12 27 0.77
13 4 0.11
ACGTcount: A:0.52, C:0.19, G:0.13, T:0.15
Consensus pattern (12 bp):
TCAGAACAGAAA
Found at i:8397962 original size:48 final size:48
Alignment explanation
Indices: 8397903--8397999 Score: 115
Period size: 48 Copynumber: 2.0 Consensus size: 48
8397893 CATAAATTAA
*
8397903 AACAGAGTTCAGAACATAAATCAGAACAAAATCC-AGATCAGAAATCAG
1 AACAGAATTCAGAACATAAATCAGAACAAAATCCAAG-TCAGAAATCAG
** ** * *
8397951 AACAGAATTCAGGTCATGTATTAGAACAAAATTCAAGTCAGAAATCAG
1 AACAGAATTCAGAACATAAATCAGAACAAAATCCAAGTCAGAAATCAG
8397999 A
1 A
8398000 TAAAATATTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
48 39 0.95
49 2 0.05
ACGTcount: A:0.49, C:0.16, G:0.15, T:0.19
Consensus pattern (48 bp):
AACAGAATTCAGAACATAAATCAGAACAAAATCCAAGTCAGAAATCAG
Found at i:8399149 original size:18 final size:18
Alignment explanation
Indices: 8399126--8399161 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8399116 CTTCCATACT
*
8399126 ATCTTATTATTTAATTCA
1 ATCTTATCATTTAATTCA
*
8399144 ATCTTATCATTTATTTCA
1 ATCTTATCATTTAATTCA
8399162 GTCCTTTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.56
Consensus pattern (18 bp):
ATCTTATCATTTAATTCA
Found at i:8402684 original size:12 final size:12
Alignment explanation
Indices: 8402667--8402749 Score: 71
Period size: 12 Copynumber: 6.9 Consensus size: 12
8402657 CATAAATCAA
8402667 AACAGAATTCAG
1 AACAGAATTCAG
8402679 AACAG-ATATCAG
1 AACAGAAT-TCAG
*
8402691 AACAGAATCCAG
1 AACAGAATTCAG
** *
8402703 ATTAGAAATCAG
1 AACAGAATTCAG
8402715 AACAGAATTCAG
1 AACAGAATTCAG
** *
8402727 GTCATGTATT-AG
1 AACA-GAATTCAG
8402739 AACAGAATTCA
1 AACAGAATTCA
8402750 AGTCAAAAAT
Statistics
Matches: 53, Mismatches: 14, Indels: 8
0.71 0.19 0.11
Matches are distributed among these distances:
11 6 0.11
12 41 0.77
13 6 0.11
ACGTcount: A:0.47, C:0.16, G:0.17, T:0.20
Consensus pattern (12 bp):
AACAGAATTCAG
Found at i:8402689 original size:24 final size:24
Alignment explanation
Indices: 8402660--8402726 Score: 89
Period size: 24 Copynumber: 2.8 Consensus size: 24
8402650 GAGATATCAT
*
8402660 AAATCAAAACAGAATTCAGAACAG
1 AAATCAGAACAGAATTCAGAACAG
* * **
8402684 ATATCAGAACAGAATCCAGATTAG
1 AAATCAGAACAGAATTCAGAACAG
8402708 AAATCAGAACAGAATTCAG
1 AAATCAGAACAGAATTCAG
8402727 GTCATGTATT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.52, C:0.16, G:0.15, T:0.16
Consensus pattern (24 bp):
AAATCAGAACAGAATTCAGAACAG
Found at i:8402761 original size:24 final size:24
Alignment explanation
Indices: 8402708--8402761 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
8402698 TCCAGATTAG
* * *
8402708 AAATCAGAACAGAATTCAGGTCAT
1 AAATTAGAACAGAATTCAAGTCAA
**
8402732 GTATTAGAACAGAATTCAAGTCAA
1 AAATTAGAACAGAATTCAAGTCAA
8402756 AAATTA
1 AAATTA
8402762 AATAAAATAT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.48, C:0.13, G:0.15, T:0.24
Consensus pattern (24 bp):
AAATTAGAACAGAATTCAAGTCAA
Found at i:8404018 original size:17 final size:17
Alignment explanation
Indices: 8403996--8404028 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8403986 CAAACATGAG
*
8403996 AAGTCGAACACGCATTC
1 AAGTCGAACACCCATTC
8404013 AAGTCGAACACCCATT
1 AAGTCGAACACCCATT
8404029 ACTCGAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.30, G:0.15, T:0.18
Consensus pattern (17 bp):
AAGTCGAACACCCATTC
Found at i:8408221 original size:55 final size:55
Alignment explanation
Indices: 8408079--8408401 Score: 549
Period size: 55 Copynumber: 5.9 Consensus size: 55
8408069 CCCACCAATT
* * *
8408079 CGGAAATTCATAAACTTATTATGAATTTCTAAGCTTTGCATACACAGTGCCCA-A
1 CGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATA
*
8408133 CGGAAATTCATAAACTTATTATGAATTTCTTAGTTCTGCACACACAGTGCCCATA
1 CGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATA
*
8408188 CGGAAATTCATAAACTTATTATGAATTTTTTAGTTTTGCACACACAGTGCCCATA
1 CGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATA
* *
8408243 CGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAATGCCTATA
1 CGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATA
* *
8408298 TGAAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATA
1 CGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATA
*
8408353 CGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACATAGTG
1 CGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTG
8408402 TCATTTGATA
Statistics
Matches: 252, Mismatches: 16, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
54 49 0.19
55 203 0.81
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (55 bp):
CGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATA
Done.