Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 212 of 325
Found at i:65935100 original size:141 final size:140
Alignment explanation
Indices: 65934547--65935078 Score: 570
Period size: 147 Copynumber: 3.7 Consensus size: 140
65934537 TTAGGATTTT
* ** * * *
65934547 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGAATATATGTGATAAGGCCGAATGGCCAATGCGA-GAACGTGAACA
* * * * * *
65934612 TGCGTATGTGTGAT-AAGACCGAATGGCCAATGTGATGGATGTGAACATGCGTATGTGTGATAAT
65 TGCGTATGTGTGATAAAG-CCAAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAG
65934676 GCCGAATGGCCA
129 GCCGAATGGCCA
** * * *
65934688 ATGTGATGAATGTGAACCCGTATTTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 ATGTGATGAATGTGAA--C--ATGAATATATGTGATAAGGCCGAATGGCCAATGCGA-GAACGTG
* * **
65934753 AACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTATATATATATG
61 AACATGCGTATGTGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAA-C---ATGCATATAT-
*
65934818 CGTGATAAGGCCGAATGGCCA
121 -GAGATAAGGCCGAATGGCCA
** * * *
65934839 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGAATATATGTGATAAGGCCGAATGGCCAATGCGA-GAACGTGAACA
* *
65934904 TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGG
65 TGCGTATGTGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGG
65934969 CCGAATGGCCA
130 CCGAATGGCCA
* *
65934980 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTAATGCGA-AACGTGTATGA
1 ATGTGATGAATGTGAACATGAATATATGTGATAAGGCCGAATGGCCAATGCGAGAACGTG-A--A
* *
65935044 GATG-GATATGTG-G-TAAAGCCAAATGGCTAATGTGA
63 CATGCG-TATGTGTGATAAAGCCAAATGGCCAATGTGA
65935079 GATATGTATG
Statistics
Matches: 348, Mismatches: 28, Indels: 31
0.86 0.07 0.08
Matches are distributed among these distances:
139 5 0.01
140 20 0.06
141 83 0.24
142 10 0.03
143 9 0.03
145 85 0.24
146 4 0.01
147 90 0.26
149 7 0.02
151 35 0.10
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.26
Consensus pattern (140 bp):
ATGTGATGAATGTGAACATGAATATATGTGATAAGGCCGAATGGCCAATGCGAGAACGTGAACAT
GCGTATGTGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGC
CGAATGGCCA
Found at i:65935106 original size:292 final size:291
Alignment explanation
Indices: 65934547--65935078 Score: 810
Period size: 292 Copynumber: 1.8 Consensus size: 291
65934537 TTAGGATTTT
*
65934547 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* * * * *
65934612 TGCGTATGTGTGATAAGACCGAATGGCCAATGTGATGGATGTGAACATGCGTATGTGTGATAATG
66 TGCGTATGTGTGATAAGACCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGG
* *
65934677 CCGAATGGCCAATGTGATGAATGTGAACCCGTATTTATATGTGTGATAAGGCCGAATGGCCAATG
131 CCGAATGGCCAATGTGATGAATGTGAACACGTATATATATGTGTGATAAGGCCGAATGGCCAATG
* * * *
65934742 TGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGT
196 CGA-GAACGTGAACATGCGTATGTGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAACCTGT
65934807 ATATATATATGCGTGATAAGGCCGAATGGCCA
260 ATATATATATGCGTGATAAGGCCGAATGGCCA
65934839 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
*
65934904 TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGG
66 TGCGTATGTGTGATAAGACCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGG
* *
65934969 CCGAATGGCCAATGTGATGAATGTGAACATG-A-ATATATGTG-G-TAAGGCCGAATGGCTAATG
131 CCGAATGGCCAATGTGATGAATGTGAACACGTATATATATGTGTGATAAGGCCGAATGGCCAATG
* *
65935030 CGA-AACGTGTATGAGATG-GATATGTG-G-TAAAGCCAAATGGCTAATGTGA
196 CGAGAACGTG-A--ACATGCG-TATGTGTGATAAAGCCAAATGGCCAATGTGA
65935079 GATATGTATG
Statistics
Matches: 219, Mismatches: 17, Indels: 13
0.88 0.07 0.05
Matches are distributed among these distances:
286 5 0.02
287 20 0.09
288 22 0.10
289 11 0.05
290 8 0.04
291 1 0.00
292 152 0.69
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.26
Consensus pattern (291 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCGTATGTGTGATAAGACCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGG
CCGAATGGCCAATGTGATGAATGTGAACACGTATATATATGTGTGATAAGGCCGAATGGCCAATG
CGAGAACGTGAACATGCGTATGTGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAACCTGTA
TATATATATGCGTGATAAGGCCGAATGGCCA
Found at i:65935289 original size:37 final size:37
Alignment explanation
Indices: 65935237--65935382 Score: 238
Period size: 37 Copynumber: 3.9 Consensus size: 37
65935227 GGAAATATAT
65935237 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
65935274 TTCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
65935311 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * * *
65935348 TCCGGGTAAGACCCGATAACTTCATGTGGGGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
65935383 CGTCTGAGCT
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:65936964 original size:130 final size:130
Alignment explanation
Indices: 65936641--65936964 Score: 398
Period size: 130 Copynumber: 2.5 Consensus size: 130
65936631 AAACAATCGG
* * * * * * *
65936641 GAAATTGCTACCCAACATGTTAGGGCACGATCCCGCGAATTGCCAAATATCACATATCGCCTTCG
1 GAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAACATCAAATATCGTCTTCA
* * * * * *
65936706 TTTTAGAGATTTTAAAAGACACGAGCAAAATTTTAAAATGATATTCGATTATTTTGAACAAATGC
66 TTTAAGAGATTTTAAAAGACACGAGAAAAATTTCAAAAGGAAATTCGATTATTTTGAACAAATAC
* * *
65936771 AAAATTGCAACCCAACACGTTAGGGCACAATTCCGCGAATTGCCAAACATCAAATATCATCTTCA
1 GAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAACATCAAATATCGTCTTCA
* * * * * *
65936836 TTTAAGGGATTTTAAAAGATATGA-AAGAAATTTCGAAGGGAAATTCGATTATTTTGAGCAAATA
66 TTTAAGAGATTTTAAAAGACACGAGAA-AAATTTCAAAAGGAAATTCGATTATTTTGAACAAATA
65936900 C
130 C
* * * *
65936901 GAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATCGTCGAACATCAAATTTCGTCTTC
1 GAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAACATCAAATATCGTCTTC
65936965 GTTTTGAAGA
Statistics
Matches: 164, Mismatches: 29, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
129 1 0.01
130 163 0.99
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (130 bp):
GAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAACATCAAATATCGTCTTCA
TTTAAGAGATTTTAAAAGACACGAGAAAAATTTCAAAAGGAAATTCGATTATTTTGAACAAATAC
Found at i:65939682 original size:44 final size:44
Alignment explanation
Indices: 65939617--65940017 Score: 507
Period size: 44 Copynumber: 9.1 Consensus size: 44
65939607 CGGGAACACC
* * * * *
65939617 AATCTGTTATTTTTTATCTGCTCTCTGTCAATACAGAGATGCCA
1 AATCTGCTATCTTTGATCTGCTCTCCGCCAATACAGAGATGCCA
* * ** * *
65939661 AATCT-ATCGTCTTCAATCTGCTCTCTGCCAATACAGAGATACCA
1 AATCTGCT-ATCTTTGATCTGCTCTCCGCCAATACAGAGATGCCA
* * *
65939705 GATCTGCTATCTTTGATCTGCTCTCCGTCAATACAAAGATGCCA
1 AATCTGCTATCTTTGATCTGCTCTCCGCCAATACAGAGATGCCA
* *
65939749 GATCTGCTATCTTTGATCTGCTCTCCGCCAATACAGAGACGCCA
1 AATCTGCTATCTTTGATCTGCTCTCCGCCAATACAGAGATGCCA
* * * *
65939793 AATCTGCTATCCTCGATCTGCTCTCCGTCAATACAGAGATGCTA
1 AATCTGCTATCTTTGATCTGCTCTCCGCCAATACAGAGATGCCA
* * *
65939837 GATCTGCTATCTTTGATCTGCTCTCTGCCAATACAGAGACGCCA
1 AATCTGCTATCTTTGATCTGCTCTCCGCCAATACAGAGATGCCA
* * *
65939881 AATCTGCTATCCTCGATCTACTCTCCGCCAATACAGAGATGCCA
1 AATCTGCTATCTTTGATCTGCTCTCCGCCAATACAGAGATGCCA
*
65939925 AATCTGCTATCTTTGATCTGCTCTCCGCCAATACAGAGACGCCA
1 AATCTGCTATCTTTGATCTGCTCTCCGCCAATACAGAGATGCCA
* ** *
65939969 AATCTGCTGTCTTTGATCTGCTCTTTGCCAATACAGAGACGCCA
1 AATCTGCTATCTTTGATCTGCTCTCCGCCAATACAGAGATGCCA
65940013 AATCT
1 AATCT
65940018 ACAGGATTCA
Statistics
Matches: 310, Mismatches: 45, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
43 1 0.00
44 308 0.99
45 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.30
Consensus pattern (44 bp):
AATCTGCTATCTTTGATCTGCTCTCCGCCAATACAGAGATGCCA
Found at i:65951805 original size:131 final size:132
Alignment explanation
Indices: 65951553--65951809 Score: 290
Period size: 131 Copynumber: 2.0 Consensus size: 132
65951543 TGAAATTTCG
* *
65951553 AGGAGATATTCGATTATTTTGGACAAATGAAAAAGCGCAACCCAGCACGATAGGGCACGATTCTC
1 AGGAGATATTCGATTATTTTGGACAAACGAAAAAGCACAACCCAGCACGATAGGGCACGATTCTC
** * **
65951618 AAATCGCCAAACATTGAACATCATCTTCGTTTTTAAGAATGTTTTCTAAAAGCGAGTGAAAACCT
66 AAATCGCCAAACACCGAACATCATCTTCGTTTTAAAGAATGTTTTAGAAAAGCGAGTGAAAACCT
65951683 CA
131 CA
* * * *
65951685 AGGA-ATATTCGATTGTTTT-GACTAAACGAGAAATCACAACCCAGCACGATAGGGCATGATTCT
1 AGGAGATATTCGATTATTTTGGAC-AAACGAAAAAGCACAACCCAGCACGATAGGGCACGATTCT
* * ** * *
65951748 CGAATCGTCAAACACCGAGTAT--TGCTTTCGTTTTAAAGGAT-TTTTAGAAGAGCCGAGTGAAA
65 CAAATCGCCAAACACCGAACATCAT-C-TTCGTTTTAAAGAATGTTTTAGAAAAG-CGAGTGAAA
65951810 TTTTGAAGGG
Statistics
Matches: 104, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
129 1 0.01
130 12 0.12
131 87 0.84
132 4 0.04
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (132 bp):
AGGAGATATTCGATTATTTTGGACAAACGAAAAAGCACAACCCAGCACGATAGGGCACGATTCTC
AAATCGCCAAACACCGAACATCATCTTCGTTTTAAAGAATGTTTTAGAAAAGCGAGTGAAAACCT
CA
Found at i:65951970 original size:130 final size:130
Alignment explanation
Indices: 65951827--65952144 Score: 372
Period size: 130 Copynumber: 2.4 Consensus size: 130
65951817 GGGGTATTTA
* * * *
65951827 ATTATTTTAAAC-AATCGGGAAATTGCTACCCAACACGTTAGGGCACGATCCCGCGAATTGCGAA
1 ATTATTTTGAACAAATC-GGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAA
* * ** * * * * *
65951891 ATATCACATATCACCTTTGTTTTAGAGATTTTAAAAGACACGAGCAAAATTTTAAAATGATATTC
65 ACATCAAATATCACCTTCATTTAAGAGATTTTAAAAGACACGAACAAAATTTCAAAAGGAAATTC
65951956 G
130 G
*
65951957 ATTATTTTGAACAAAT-GCGAAATTGCAACCCAACACGTTAGGGCACAATTCCGCGAATTGCCAA
1 ATTATTTTGAACAAATCG-GAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAA
* * * * * ** * *
65952021 ACATCAAATCTCATCTTCATTTAAGGGATTTTAAAAGATATGAATGAAATTTCGAAGGGAAATTC
65 ACATCAAATATCACCTTCATTTAAGAGATTTTAAAAGACACGAACAAAATTTCAAAAGGAAATTC
65952086 G
130 G
*
65952087 ATTATTTTGAGCAAATAC-GAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAAT
1 ATTATTTTGAACAAAT-CGGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAAT
65952145 CATCGAACAT
Statistics
Matches: 159, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
129 1 0.01
130 155 0.97
131 3 0.02
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (130 bp):
ATTATTTTGAACAAATCGGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAA
CATCAAATATCACCTTCATTTAAGAGATTTTAAAAGACACGAACAAAATTTCAAAAGGAAATTCG
Found at i:65962130 original size:43 final size:42
Alignment explanation
Indices: 65962059--65962172 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 42
65962049 GGAATTTAGA
*
65962059 AATCT-AAGCTCGTTGAGCGGTCCGAGTTCGTGATATATGTGAG
1 AATCTGAA-CTCGTTGAGCGGTCCAAGTTCGTGATATATGTG-G
* * *
65962102 AATCTGAACTCGTTGAGTGGTTCAAGTTCGTGATCTATGTGG
1 AATCTGAACTCGTTGAGCGGTCCAAGTTCGTGATATATGTGG
* * * *
65962144 CATCTGAACTCATTGAGAGGTCCGAGTTC
1 AATCTGAACTCGTTGAGCGGTCCAAGTTC
65962173 ATTATGGATG
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 25 0.41
43 34 0.56
44 2 0.03
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.32
Consensus pattern (42 bp):
AATCTGAACTCGTTGAGCGGTCCAAGTTCGTGATATATGTGG
Found at i:65962172 original size:42 final size:43
Alignment explanation
Indices: 65962071--65962172 Score: 134
Period size: 42 Copynumber: 2.4 Consensus size: 43
65962061 TCTAAGCTCG
* *
65962071 TTGAGCGGTCCGAGTTCGTGATATATGTGAGAATCTGAACTCG
1 TTGAGAGGTCCGAGTTCGTGATATATGTGAGAATCTGAACTCA
* * * * *
65962114 TTGAGTGGTTCAAGTTCGTGATCTATGTG-GCATCTGAACTCA
1 TTGAGAGGTCCGAGTTCGTGATATATGTGAGAATCTGAACTCA
65962156 TTGAGAGGTCCGAGTTC
1 TTGAGAGGTCCGAGTTC
65962173 ATTATGGATG
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 25 0.50
43 25 0.50
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (43 bp):
TTGAGAGGTCCGAGTTCGTGATATATGTGAGAATCTGAACTCA
Found at i:65962203 original size:43 final size:45
Alignment explanation
Indices: 65962156--65962276 Score: 120
Period size: 51 Copynumber: 2.6 Consensus size: 45
65962146 TCTGAACTCA
* *
65962156 TTGAGAGGTCCGAGTTCATTATGGATGC-G-AGCATCCGAGCTCG
1 TTGAGAGGTCCGAGTTCATTATGGATGCAGTAACATCCAAGCTCG
* * * *
65962199 TTGAGTGGTCTGAATTCATAATGGATGTGATTCATGTAACATCCAAGCTCG
1 TTGAGAGGTCCGAGTTCAT--T--ATG-GATGCA-GTAACATCCAAGCTCG
65962250 TTGAGAGGTCCGAGTTCATTATGGATG
1 TTGAGAGGTCCGAGTTCATTATGGATG
65962277 TATACATGTT
Statistics
Matches: 60, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
43 16 0.27
45 1 0.02
46 3 0.05
47 6 0.10
48 4 0.07
49 1 0.02
50 1 0.02
51 28 0.47
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.31
Consensus pattern (45 bp):
TTGAGAGGTCCGAGTTCATTATGGATGCAGTAACATCCAAGCTCG
Found at i:65962268 original size:51 final size:50
Alignment explanation
Indices: 65962187--65962285 Score: 135
Period size: 51 Copynumber: 2.0 Consensus size: 50
65962177 TGGATGCGAG
* * * *
65962187 CATCCGAGCTCGTTGAGTGGTCTGAATTCATAATGGATGTGATTCATGTAA
1 CATCCAAGCTCGTTGAGAGGTCCGAATTCATAATGGATGT-ATACATGTAA
* *
65962238 CATCCAAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGTATACATGT
1 CATCCAAGCTCGTTGAGAGGTCCGAATTCATAATGGATGTATACATGT
65962286 TATGAGGTAG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
50 7 0.17
51 35 0.83
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (50 bp):
CATCCAAGCTCGTTGAGAGGTCCGAATTCATAATGGATGTATACATGTAA
Found at i:65964843 original size:45 final size:45
Alignment explanation
Indices: 65964779--65964868 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
65964769 GTAAGTCATA
65964779 TGGAACTTACTATATTCTATAATTAAGTTTGAATTGTATGTTTAT
1 TGGAACTTACTATATTCTATAATTAAGTTTGAATTGTATGTTTAT
* *
65964824 TGGAACTTTCTATATTCTATTATTAAGTTTGAATTGTATGTTTAT
1 TGGAACTTACTATATTCTATAATTAAGTTTGAATTGTATGTTTAT
65964869 ACCTATTAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.29, C:0.07, G:0.13, T:0.51
Consensus pattern (45 bp):
TGGAACTTACTATATTCTATAATTAAGTTTGAATTGTATGTTTAT
Found at i:65965292 original size:25 final size:25
Alignment explanation
Indices: 65965258--65965305 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
65965248 TGAGTAGGCC
65965258 TATTTTTACAGCTCGTGTGAGCATT
1 TATTTTTACAGCTCGTGTGAGCATT
* *
65965283 TATTTTTACATCTTGTGTGAGCA
1 TATTTTTACAGCTCGTGTGAGCA
65965306 ACCTTGTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.21, C:0.15, G:0.19, T:0.46
Consensus pattern (25 bp):
TATTTTTACAGCTCGTGTGAGCATT
Found at i:65974015 original size:26 final size:26
Alignment explanation
Indices: 65973984--65974091 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
65973974 TGAAATGCCC
*
65973984 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
65974010 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
65974036 ATCATGGAATATTTACCTAATCGATT
1 ATCATGGAACATTTACCTAACCCATT
65974062 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
65974088 ATCA
1 ATCA
65974092 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:65978558 original size:48 final size:49
Alignment explanation
Indices: 65978486--65978697 Score: 222
Period size: 48 Copynumber: 4.4 Consensus size: 49
65978476 AGGGGATATA
* *
65978486 TTGATTTGGCTTCTGGCCATGATATCGGCACTTTGGGTGCGAG-TTACT
1 TTGATTTGGCTTCGGGCCATGATATCGGCACTTCGGGTGCGAGATTACT
*
65978534 TTGATTTGGCTTCGGGCC-TAGATATCGGCACTTCGGGTGCTAG-TTACT
1 TTGATTTGGCTTCGGGCCAT-GATATCGGCACTTCGGGTGCGAGATTACT
* * * * *
65978582 TTGATTTTGCTTCGGGCAATGATATCGACACTTCGGCTGCGAGCTTCAC-
1 TTGATTTGGCTTCGGGCCATGATATCGGCACTTCGGGTGCGAGATT-ACT
* ** * *
65978631 -TGATTTGGCTACGGGCCATGATATTAGCACTTTGGGTACGAGATT--T
1 TTGATTTGGCTTCGGGCCATGATATCGGCACTTCGGGTGCGAGATTACT
*
65978677 ATTGAGTTGGCTTCGGGCCAT
1 -TTGATTTGGCTTCGGGCCAT
65978698 TGTAACACCC
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
47 1 0.01
48 131 0.96
49 3 0.02
50 2 0.01
ACGTcount: A:0.17, C:0.20, G:0.28, T:0.35
Consensus pattern (49 bp):
TTGATTTGGCTTCGGGCCATGATATCGGCACTTCGGGTGCGAGATTACT
Found at i:65989198 original size:26 final size:26
Alignment explanation
Indices: 65989142--65989248 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
65989132 TGAAATGCCC
65989142 ATCATGGAACATTTACCTAA-CCATT
1 ATCATGGAACATTTACCTAACCCATT
65989167 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
65989193 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
65989219 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
65989245 ATCA
1 ATCA
65989249 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
25 20 0.26
26 57 0.74
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:65992619 original size:24 final size:26
Alignment explanation
Indices: 65992592--65992643 Score: 90
Period size: 24 Copynumber: 2.1 Consensus size: 26
65992582 CCATAACTCC
65992592 TCATCCTTTGTGGT-CTTAACA-CAT
1 TCATCCTTTGTGGTCCTTAACACCAT
65992616 TCATCCTTTGTGGTCCTTAACACCAT
1 TCATCCTTTGTGGTCCTTAACACCAT
65992642 TC
1 TC
65992644 GTTTAGCAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 14 0.54
25 7 0.27
26 5 0.19
ACGTcount: A:0.19, C:0.29, G:0.12, T:0.40
Consensus pattern (26 bp):
TCATCCTTTGTGGTCCTTAACACCAT
Found at i:65996278 original size:26 final size:26
Alignment explanation
Indices: 65996247--65996352 Score: 167
Period size: 26 Copynumber: 4.1 Consensus size: 26
65996237 TGAAATGCCC
*
65996247 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
65996273 ATCATGAAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
65996299 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
65996325 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
65996351 AT
1 AT
65996353 TAATTTGTAC
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:65999898 original size:13 final size:13
Alignment explanation
Indices: 65999877--65999913 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
65999867 CACACAGCTT
65999877 GGCACACGGGCTA
1 GGCACACGGGCTA
*
65999890 GGCAGACGGGCTA
1 GGCACACGGGCTA
*
65999903 GTCACACGGGC
1 GGCACACGGGC
65999914 GTGTGTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.22, C:0.30, G:0.41, T:0.08
Consensus pattern (13 bp):
GGCACACGGGCTA
Found at i:66006217 original size:10 final size:10
Alignment explanation
Indices: 66006202--66006233 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
66006192 CTGGTTTATT
66006202 CTATTTTGGA
1 CTATTTTGGA
66006212 CTATTTTGGA
1 CTATTTTGGA
*
66006222 CTATTTTTGA
1 CTATTTTGGA
66006232 CT
1 CT
66006234 GTTTAAAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.19, C:0.12, G:0.16, T:0.53
Consensus pattern (10 bp):
CTATTTTGGA
Found at i:66008627 original size:17 final size:18
Alignment explanation
Indices: 66008597--66008630 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
66008587 TTTAAATTAA
66008597 AATTAAATAATAAAATTC
1 AATTAAATAATAAAATTC
66008615 AATTAAA-AATAAAATT
1 AATTAAATAATAAAATT
66008631 TTAGTAACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (18 bp):
AATTAAATAATAAAATTC
Found at i:66011861 original size:32 final size:32
Alignment explanation
Indices: 66011820--66011888 Score: 138
Period size: 32 Copynumber: 2.2 Consensus size: 32
66011810 CCTCATAAAA
66011820 ATCCATGTTAAATAACATCAAAAGAATGCTAG
1 ATCCATGTTAAATAACATCAAAAGAATGCTAG
66011852 ATCCATGTTAAATAACATCAAAAGAATGCTAG
1 ATCCATGTTAAATAACATCAAAAGAATGCTAG
66011884 ATCCA
1 ATCCA
66011889 GCTTTTAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.46, C:0.17, G:0.12, T:0.25
Consensus pattern (32 bp):
ATCCATGTTAAATAACATCAAAAGAATGCTAG
Found at i:66012160 original size:10 final size:9
Alignment explanation
Indices: 66012148--66012203 Score: 57
Period size: 8 Copynumber: 6.4 Consensus size: 9
66012138 AAAATATTGA
66012148 AAAAATTAT
1 AAAAATTAT
66012157 -AAAATTAT
1 AAAAATTAT
66012165 AAAAATT-T
1 AAAAATTAT
66012173 AAAAATATAT
1 AAAAAT-TAT
*
66012183 AGAAAATT-C
1 A-AAAATTAT
66012192 AAAAATT-T
1 AAAAATTAT
66012200 AAAA
1 AAAA
66012204 GAAATTAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
8 25 0.61
9 8 0.20
10 3 0.07
11 5 0.12
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:66012168 original size:27 final size:26
Alignment explanation
Indices: 66012138--66012215 Score: 70
Period size: 27 Copynumber: 2.9 Consensus size: 26
66012128 ATAAAAGCTC
* *
66012138 AAAATATTGAAAAAATTATAAAATTATA
1 AAAATATTAAAAAAATTA-AAAATT-CA
*
66012166 AAAAT-TTAAAAATATATAGAAAATTCA
1 AAAATATTAAAAAAAT-TA-AAAATTCA
66012193 AAAAT-TTAAAAGAAATTAAAAAT
1 AAAATATTAAAA-AAATTAAAAAT
66012216 GGTATATGAT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 5 0.12
27 22 0.51
28 16 0.37
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.29
Consensus pattern (26 bp):
AAAATATTAAAAAAATTAAAAATTCA
Found at i:66012169 original size:19 final size:18
Alignment explanation
Indices: 66012147--66012215 Score: 63
Period size: 18 Copynumber: 3.8 Consensus size: 18
66012137 CAAAATATTG
66012147 AAAAAATTATAAAATTAT-
1 AAAAAATTA-AAAATTATA
*
66012165 AAAAATTTAAAAA-TATA
1 AAAAAATTAAAAATTATA
*
66012182 TAGAAAATTCAAAAATT-TA
1 -AAAAAATT-AAAAATTATA
66012201 AAAGAAATTAAAAAT
1 AAA-AAATTAAAAAT
66012216 GGTATATGAT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
16 3 0.07
17 4 0.10
18 22 0.52
19 12 0.29
20 1 0.02
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (18 bp):
AAAAAATTAAAAATTATA
Found at i:66018223 original size:22 final size:21
Alignment explanation
Indices: 66018198--66018246 Score: 71
Period size: 22 Copynumber: 2.3 Consensus size: 21
66018188 TAAATAATTT
*
66018198 ATTATTTTAATAAATTATATTA
1 ATTATTTTAATAAATTA-ATAA
*
66018220 ATTATATTAATAAATTAATAA
1 ATTATTTTAATAAATTAATAA
66018241 ATTATT
1 ATTATT
66018247 GAAAATAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATTATTTTAATAAATTAATAA
Found at i:66026140 original size:23 final size:23
Alignment explanation
Indices: 66026112--66026186 Score: 114
Period size: 23 Copynumber: 3.3 Consensus size: 23
66026102 TAGATTTTTC
*
66026112 CTAAATATTATCACCAAATAATT
1 CTAAATATTATCACTAAATAATT
* *
66026135 TTAAATATCATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
66026158 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
*
66026181 CAAAAT
1 CTAAAT
66026187 TTAAAAATTG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:66026213 original size:12 final size:12
Alignment explanation
Indices: 66026196--66026220 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
66026186 TTTAAAAATT
66026196 GAATTTAAACTA
1 GAATTTAAACTA
66026208 GAATTTAAACTA
1 GAATTTAAACTA
66026220 G
1 G
66026221 TTACAGAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (12 bp):
GAATTTAAACTA
Found at i:66038076 original size:20 final size:20
Alignment explanation
Indices: 66038032--66038082 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 20
66038022 TTTTATTAAA
66038032 AAAATCACATTTTTTACATTT
1 AAAAT-ACATTTTTTACATTT
66038053 --AATACATTTTTTA-ATTT
1 AAAATACATTTTTTACATTT
66038070 CAAAATACATTTT
1 -AAAATACATTTT
66038083 GGCAAGAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 4 0.15
18 10 0.37
19 3 0.11
20 10 0.37
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (20 bp):
AAAATACATTTTTTACATTT
Found at i:66040200 original size:103 final size:103
Alignment explanation
Indices: 66040010--66040315 Score: 382
Period size: 103 Copynumber: 3.0 Consensus size: 103
66040000 GTTTGTAAAT
* * *
66040010 AAGATCGGAGGTTGCGAGCTTAACTCTACTAACCTTTAATAATCAGTTAGGAGCATAGGTTCACT
1 AAGATCAGAGGTTGCAAGCTTAACTCTACTAACC-TTAATAATCAGTTAGGAGCATAGGTCCACT
* * *
66040075 AGCTGTCTGGGAGTTGCAAGCTTAACT-TTGCTAACTCAA
65 AGCTGTCTAGAAGTTACAAGCTTAACTCTT-CTAACTCAA
*
66040114 AAGA-CTAGAGGTTGCAAGCTTAACTCTACTAACCTTAATAATCAGTTAGGAGCGTAGGTCCACT
1 AAGATC-AGAGGTTGCAAGCTTAACTCTACTAACCTTAATAATCAGTTAGGAGCATAGGTCCACT
* * *
66040178 AGTTGTTTAGAAGTTACGAGCTTAACTCTTCTAACTCAA
65 AGCTGTCTAGAAGTTACAAGCTTAACTCTTCTAACTCAA
* ** * * *
66040217 AAGATCAGAGGTTGCAAGCTTAACTCTTCTAACCTTAATAATCAACTGGGACCATAGGTCCGCTA
1 AAGATCAGAGGTTGCAAGCTTAACTCTACTAACCTTAATAATCAGTTAGGAGCATAGGTCCACTA
* * * **
66040282 GCTGTCTGGGAGTTGCGCGCTTAACTCTTCTAAC
66 GCTGTCTAGAAGTTACAAGCTTAACTCTTCTAAC
66040316 CTTAATAATT
Statistics
Matches: 176, Mismatches: 23, Indels: 7
0.85 0.11 0.03
Matches are distributed among these distances:
103 143 0.81
104 33 0.19
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (103 bp):
AAGATCAGAGGTTGCAAGCTTAACTCTACTAACCTTAATAATCAGTTAGGAGCATAGGTCCACTA
GCTGTCTAGAAGTTACAAGCTTAACTCTTCTAACTCAA
Found at i:66042905 original size:16 final size:16
Alignment explanation
Indices: 66042884--66042914 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
66042874 CGGATTGAGA
*
66042884 AAATTATTTAATTTAG
1 AAATTAATTAATTTAG
66042900 AAATTAATTAATTTA
1 AAATTAATTAATTTA
66042915 TTTAAATACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
AAATTAATTAATTTAG
Found at i:66043837 original size:16 final size:16
Alignment explanation
Indices: 66043816--66043849 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
66043806 CAATTCACTG
*
66043816 TTATATCTTTTGTATT
1 TTATATCTTTTATATT
66043832 TTATATCTTTTATATT
1 TTATATCTTTTATATT
66043848 TT
1 TT
66043850 GCATGCATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.06, G:0.03, T:0.71
Consensus pattern (16 bp):
TTATATCTTTTATATT
Found at i:66045276 original size:15 final size:15
Alignment explanation
Indices: 66045256--66045294 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
66045246 ATTGACTTGG
*
66045256 ACCGAATCGATAGCA
1 ACCGAACCGATAGCA
66045271 ACCGAACCGATAGCA
1 ACCGAACCGATAGCA
66045286 ACCGAACCG
1 ACCGAACCG
66045295 GCTCAAGGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.38, C:0.33, G:0.21, T:0.08
Consensus pattern (15 bp):
ACCGAACCGATAGCA
Found at i:66045687 original size:16 final size:16
Alignment explanation
Indices: 66045618--66045689 Score: 65
Period size: 16 Copynumber: 4.4 Consensus size: 16
66045608 ATTTTAATAA
66045618 GATTTAATATTAAATTT
1 GATTTAATATTAAA-TT
* * *
66045635 AATCTAATATTTATATT
1 GATTTAATA-TTAAATT
*
66045652 GA-TTAATATTATATT
1 GATTTAATATTAAATT
* *
66045667 AATTTAATATTAAAGT
1 GATTTAATATTAAATT
66045683 GATTTAA
1 GATTTAA
66045690 GTTAATCATA
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
15 8 0.18
16 22 0.50
17 10 0.23
18 4 0.09
ACGTcount: A:0.43, C:0.01, G:0.06, T:0.50
Consensus pattern (16 bp):
GATTTAATATTAAATT
Found at i:66053181 original size:40 final size:40
Alignment explanation
Indices: 66053126--66053346 Score: 320
Period size: 40 Copynumber: 5.5 Consensus size: 40
66053116 TATTCGGATG
*
66053126 ATAACCGGGCTAAGACCCGAAGGCATTTGTGTGAGTTGCT
1 ATAACCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
* *
66053166 ATAACCGGGCTAAGACCCGAAGGAATTTGTGTGAGTTGCT
1 ATAACCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
66053206 ATAACCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATAACCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
* *
66053246 ATATCCGGGCTAAGACCCGAAGACATTTGTGCGAGTTGCT
1 ATAACCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
* * * * *
66053286 GTATCCGGGCTAGGACCCGAAGGCATTTGTGCAAGTTGTT
1 ATAACCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
*
66053326 ATATCC-GGCTAA-ATCCCGAAG
1 ATAACCGGGCTAAGA-CCCGAAG
66053347 ATACTTGGGT
Statistics
Matches: 168, Mismatches: 12, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
38 1 0.01
39 12 0.07
40 155 0.92
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
Found at i:66055142 original size:16 final size:16
Alignment explanation
Indices: 66055121--66055151 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
66055111 TTTACTGTTA
*
66055121 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
66055137 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
66055152 GTATGTATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:66055518 original size:36 final size:36
Alignment explanation
Indices: 66055471--66055545 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
66055461 GATTAATTAA
66055471 TTCTGAATCTAGTTGTGAATTAATTCACTTGTGACG
1 TTCTGAATCTAGTTGTGAATTAATTCACTTGTGACG
66055507 TTCTGAATCTAGTTGTGAATTAATTCACTTGTGACG
1 TTCTGAATCTAGTTGTGAATTAATTCACTTGTGACG
66055543 TTC
1 TTC
66055546 ATGCTGTGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.43
Consensus pattern (36 bp):
TTCTGAATCTAGTTGTGAATTAATTCACTTGTGACG
Found at i:66058778 original size:26 final size:26
Alignment explanation
Indices: 66058748--66058829 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
66058738 TGAAATTCCC
*
66058748 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
66058774 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
*
66058800 ACCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
66058826 ATCA
1 ATCA
66058830 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.38, C:0.28, G:0.05, T:0.29
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:66061018 original size:16 final size:16
Alignment explanation
Indices: 66060997--66061027 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
66060987 CATTGGTTAA
*
66060997 GAAAATTATTTAATTG
1 GAAAATTAATTAATTG
66061013 GAAAATTAATTAATT
1 GAAAATTAATTAATT
66061028 TAATAAATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (16 bp):
GAAAATTAATTAATTG
Found at i:66063033 original size:18 final size:18
Alignment explanation
Indices: 66063010--66063045 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
66063000 ATGGAAATAC
66063010 GAGATGATAATATATGAA
1 GAGATGATAATATATGAA
*
66063028 GAGATGGTAATATATGAA
1 GAGATGATAATATATGAA
66063046 CATGGAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.25, T:0.28
Consensus pattern (18 bp):
GAGATGATAATATATGAA
Found at i:66065884 original size:37 final size:37
Alignment explanation
Indices: 66065834--66065908 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 37
66065824 TTATTATGAA
* *
66065834 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
66065871 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
66065908 G
1 G
66065909 CCTTTAGAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 32 0.94
38 2 0.06
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:66066109 original size:47 final size:47
Alignment explanation
Indices: 66066031--66066539 Score: 640
Period size: 47 Copynumber: 10.4 Consensus size: 47
66066021 CCCTTCGGGA
* * * * * * *
66066031 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
66066078 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
66066125 CTTATCACATATATACACTTTAACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
66066172 CTTTTTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
66066219 CTTATCATACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
66066266 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66066313 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
66066360 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** **
66066407 CTTATCACATATATACAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAG
1 CTTATCACATATATACA---CTT-TCAC--AT-T-CA---TCACA-TCGGC-CAT---TA----G
66066472 GC
46 GC
*
66066474 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66066521 CTTATCACATATATACACT
1 CTTATCACATATATACACT
66066540 GTCTTGGCTG
Statistics
Matches: 405, Mismatches: 37, Indels: 40
0.84 0.08 0.08
Matches are distributed among these distances:
47 340 0.84
50 3 0.01
51 4 0.01
53 2 0.00
54 4 0.01
55 5 0.01
56 5 0.01
58 5 0.01
59 5 0.01
60 4 0.01
61 2 0.00
63 4 0.01
64 3 0.01
67 19 0.05
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:66066428 original size:20 final size:20
Alignment explanation
Indices: 66066403--66066443 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
66066393 ATCGGCCATT
66066403 AGGCCTTATCACATATATAC
1 AGGCCTTATCACATATATAC
66066423 AGGCCTTATCACATATATAC
1 AGGCCTTATCACATATATAC
66066443 A
1 A
66066444 CTTTCACATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (20 bp):
AGGCCTTATCACATATATAC
Found at i:66066435 original size:67 final size:67
Alignment explanation
Indices: 66066356--66066490 Score: 252
Period size: 67 Copynumber: 2.0 Consensus size: 67
66066346 ATCGGCCATT
*
66066356 AGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 AGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATAT
66066421 AC
66 AC
*
66066423 AGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATAT
1 AGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATAT
66066488 AC
66 AC
66066490 A
1 A
66066491 CTTTCACATT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.32, C:0.30, G:0.09, T:0.30
Consensus pattern (67 bp):
AGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATAT
AC
Found at i:66066449 original size:114 final size:114
Alignment explanation
Indices: 66066309--66066537 Score: 458
Period size: 114 Copynumber: 2.0 Consensus size: 114
66066299 ATCGGCTATT
66066309 AGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATAT
1 AGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATAT
66066374 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
66 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
66066423 AGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATAT
1 AGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATAT
66066488 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
66 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
66066537 A
1 A
66066538 CTGTCTTGGC
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
114 115 1.00
ACGTcount: A:0.31, C:0.30, G:0.09, T:0.31
Consensus pattern (114 bp):
AGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATAT
ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:66070344 original size:40 final size:40
Alignment explanation
Indices: 66070300--66070398 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 40
66070290 CATGATTGCT
* * *
66070300 CTTCGGGACTTAGCCCGGATTTAGTAAC-TCGCACCAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTTAGCA-CAAAGC
* * *
66070340 CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTAACTTAGCACAAAGC
66070380 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
66070399 CATCATTCAA
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
39 3 0.06
40 39 0.80
41 7 0.14
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTTAGCACAAAGC
Found at i:66070743 original size:29 final size:29
Alignment explanation
Indices: 66070704--66070782 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
66070694 CTTAATAATC
*
66070704 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
* *
66070734 AACTCGCACACTTGGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
66070763 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
66070783 ATCTCACAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 3 0.07
29 36 0.86
30 3 0.07
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:66070828 original size:43 final size:43
Alignment explanation
Indices: 66070764--66070909 Score: 265
Period size: 43 Copynumber: 3.4 Consensus size: 43
66070754 TGCATTTCAA
66070764 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
* *
66070807 GCCCACACACTTAGTGCCAATCTCGCAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
66070850 TCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
66070893 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
66070910 TAAAAACCAA
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 97 1.00
ACGTcount: A:0.27, C:0.36, G:0.14, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:66072825 original size:37 final size:37
Alignment explanation
Indices: 66072775--66072853 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
66072765 TATTAACGAA
* *
66072775 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
66072812 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
66072849 GTCTT
1 GTCTT
66072854 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:66073059 original size:47 final size:47
Alignment explanation
Indices: 66072972--66073554 Score: 986
Period size: 47 Copynumber: 12.4 Consensus size: 47
66072962 CCCTTCGGGA
* * * * * * * *
66072972 CTTATCACATTTATGCACTTTCACATCCATCCCGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
66073019 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66073066 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
66073113 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
66073160 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
66073207 CTTATCATACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
66073254 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66073301 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
66073348 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
66073395 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66073442 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
66073489 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66073536 CTTATCACATATATACACT
1 CTTATCACATATATACACT
66073555 GTCTTGGCTG
Statistics
Matches: 508, Mismatches: 28, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 508 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:66092255 original size:29 final size:28
Alignment explanation
Indices: 66092170--66092271 Score: 107
Period size: 29 Copynumber: 3.6 Consensus size: 28
66092160 TACCTGTATT
* * *
66092170 TGGCCCACTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCA-ATTTATA
*
66092198 TGGCCCATTAGGCCCAAATCAACTATATA
1 TGGCCCATTAGGCCCAAATCAA-TTTATA
66092227 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCA-ATTTATA
* **
66092256 TGACCTGTTAGGCCCA
1 TGGCCCATTAGGCCCA
66092272 GTTACATTCA
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
28 14 0.22
29 48 0.76
30 1 0.02
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.25
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAAATCAATTTATA
Found at i:66095634 original size:47 final size:47
Alignment explanation
Indices: 66095565--66095720 Score: 165
Period size: 47 Copynumber: 3.3 Consensus size: 47
66095555 GGCTTAAGAT
*
66095565 CGAATGGCCAACGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
* ** *
66095612 CGAATGGCCAATGTGATGAATGTGGAAGTGCATACATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
* ** * * *
66095659 CGGATGGTTAATGTGAT-ATATGTGTAA--GTGAATATGTGACAAGGC
1 CGAATGGCCAATGTGATGA-ATGTGAAAGTGTGTATATGTGATAAGGC
*
66095704 CGAATGACCAATTGTGA
1 CGAATGGCCAA-TGTGA
66095721 AAAGTGTGCA
Statistics
Matches: 89, Mismatches: 18, Indels: 5
0.79 0.16 0.04
Matches are distributed among these distances:
45 20 0.22
46 6 0.07
47 63 0.71
ACGTcount: A:0.32, C:0.11, G:0.31, T:0.26
Consensus pattern (47 bp):
CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
Found at i:66095874 original size:40 final size:39
Alignment explanation
Indices: 66095798--66095876 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 39
66095788 ATTGTGCGGA
* * * *
66095798 GATTGTATCTGGGTTAGAGACCCGCTCGCTTCATGCTGG
1 GATTGTATCCGGGTTAAAGACCCGCACGCTTAATGCTGG
* *
66095837 GATTGTATCCGGGTTTAAAGTCCCGCAGGCTTAATGCTGG
1 GATTGTATCCGGG-TTAAAGACCCGCACGCTTAATGCTGG
66095877 TGAATTAAGT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
39 12 0.36
40 21 0.64
ACGTcount: A:0.18, C:0.22, G:0.30, T:0.30
Consensus pattern (39 bp):
GATTGTATCCGGGTTAAAGACCCGCACGCTTAATGCTGG
Found at i:66100837 original size:29 final size:28
Alignment explanation
Indices: 66100752--66100850 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
66100742 TACCTGTATC
* * * * *
66100752 TGGCCCACTAAGCCTAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTTATA
* * *
66100780 TAGCCCATTAGGCCCAATCACCTATATA
1 TGGCCCATTAGGCCCAATCACATTTATA
66100808 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTTATA
*
66100837 TGCCCCATTAGGCC
1 TGGCCCATTAGGCC
66100851 TAGTTACATT
Statistics
Matches: 58, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
28 34 0.59
29 24 0.41
ACGTcount: A:0.29, C:0.31, G:0.13, T:0.26
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTTATA
Found at i:66100860 original size:28 final size:29
Alignment explanation
Indices: 66100783--66100850 Score: 102
Period size: 29 Copynumber: 2.4 Consensus size: 29
66100773 ATTCATATAG
* * *
66100783 CCCATTAGGCCC-AATCACCTATATATGG
1 CCCATTAGGCCCAAATCACATTTATATGC
66100811 CCCATTAGGCCCAAATCACATTTATATGC
1 CCCATTAGGCCCAAATCACATTTATATGC
66100840 CCCATTAGGCC
1 CCCATTAGGCC
66100851 TAGTTACATT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
28 12 0.33
29 24 0.67
ACGTcount: A:0.28, C:0.34, G:0.13, T:0.25
Consensus pattern (29 bp):
CCCATTAGGCCCAAATCACATTTATATGC
Found at i:66105373 original size:33 final size:33
Alignment explanation
Indices: 66105330--66105400 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
66105320 GAGCGAGGTC
*
66105330 GTGTGTGACACACAGGCTCGACCAATTTGGGCA
1 GTGTGCGACACACAGGCTCGACCAATTTGGGCA
** *
66105363 GTGTGCGACACATGGGCTCGACCAATTTGGGCC
1 GTGTGCGACACACAGGCTCGACCAATTTGGGCA
66105396 GTGTG
1 GTGTG
66105401 GGCCACACGG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.20, C:0.24, G:0.34, T:0.23
Consensus pattern (33 bp):
GTGTGCGACACACAGGCTCGACCAATTTGGGCA
Found at i:66109192 original size:48 final size:46
Alignment explanation
Indices: 66108968--66109232 Score: 182
Period size: 47 Copynumber: 5.7 Consensus size: 46
66108958 TTATATTACT
* * **
66108968 GATGCCATGT-CCAGACATGGTCTTACACTGGCTCTCATATACGCGTGTT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCT-C-TGTGCC
* * * *
66109017 GATGCATGTTCCAGACATGTCTTACACTAG--CACAACTCT-TAGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCTGT-GCC
* * * * * * *
66109061 GATGCGTGTCCCAGACACGTCTTACTCTGGCTATC-CCTATCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCT-G-TGCC
* * *
66109108 AATGCATGTCCCAAACATGTCTTACACTGGCACTCATCTCTGTGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCTGTGCC
* *
66109154 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAT-ACTGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTCTGT-GCC
* * * *
66109202 GAAGCATGTCCGAGACACGTCTTATACTGGC
1 GATGCATGTCCCAGACATGTCTTACACTGGC
66109233 GCACAAATCA
Statistics
Matches: 170, Mismatches: 35, Indels: 25
0.74 0.15 0.11
Matches are distributed among these distances:
43 1 0.01
44 26 0.15
45 4 0.02
46 23 0.14
47 61 0.36
48 43 0.25
49 12 0.07
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCTGTGCC
Found at i:66116208 original size:85 final size:88
Alignment explanation
Indices: 66116054--66116312 Score: 228
Period size: 94 Copynumber: 2.9 Consensus size: 88
66116044 TTATATTACC
* * * *
66116054 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATACGAGTGCTGATGCATGTCCTAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATATACGAGTGCCGATACATGTCCCAGA
66116119 CATGTCTTACACTAGCATAAGCT
66 CATGTCTTACACTAGCATAAGCT
* * *
66116142 GATG-CATGTCCCAGACAT-GTCTTACTCTGGCTATCCCTGT-CGAG-GCCGATACATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTAT-CATATACGAGTGCCGATACATGTCCCAG
* * *
66116203 ACATGTCTTACACTGGCACTCATCTCTGTGT
65 ACATGTCTTACACTAGCA-T-A----AG-CT
* * * *
66116234 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTC--ATAC-TGTGGCTGA-AGCATGTCCC
1 -GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATATACGAGT-GCCGATA-CATGTCCC
*
66116295 AGACACGTCTTACACTAG
63 AGACATGTCTTACACTAG
66116313 TGCACAAATC
Statistics
Matches: 138, Mismatches: 18, Indels: 24
0.77 0.10 0.13
Matches are distributed among these distances:
85 31 0.22
86 19 0.14
87 18 0.13
88 4 0.03
91 1 0.01
92 3 0.02
93 6 0.04
94 42 0.30
95 14 0.10
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (88 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATATACGAGTGCCGATACATGTCCCAGA
CATGTCTTACACTAGCATAAGCT
Found at i:66116244 original size:47 final size:46
Alignment explanation
Indices: 66116193--66116310 Score: 148
Period size: 47 Copynumber: 2.5 Consensus size: 46
66116183 GAGGCCGATA
* * *
66116193 CATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGTGTC-GATG
1 CATGTCCCAGACATGTCTTACACTGGCACTCAT-ACTGTGGCTGAAG
* *
66116239 CCATGTCCCAAACATGGTCTTACACTGGCTCTCATACTGTGGCTGAAG
1 -CATGTCCCAGACAT-GTCTTACACTGGCACTCATACTGTGGCTGAAG
*
66116287 CATGTCCCAGACACGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
66116311 AGTGCACAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
46 10 0.16
47 31 0.50
48 21 0.34
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCACTCATACTGTGGCTGAAG
Found at i:66119476 original size:23 final size:23
Alignment explanation
Indices: 66119445--66119490 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
66119435 ATGACTAAAC
66119445 AATTCAATAATATAAATAATATA
1 AATTCAATAATATAAATAATATA
* *
66119468 AATTTAATAATATAAATAGTATA
1 AATTCAATAATATAAATAATATA
66119491 TATAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (23 bp):
AATTCAATAATATAAATAATATA
Found at i:66120000 original size:9 final size:9
Alignment explanation
Indices: 66119986--66120022 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
66119976 TATAGTTTGA
66119986 TATTCGAAT
1 TATTCGAAT
66119995 TATTCGAAT
1 TATTCGAAT
66120004 TATTC-AAGT
1 TATTCGAA-T
66120013 TATTCGAAT
1 TATTCGAAT
66120022 T
1 T
66120023 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 2 0.08
9 22 0.85
10 2 0.08
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:66126059 original size:22 final size:21
Alignment explanation
Indices: 66126017--66126059 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
66126007 TTTTGTTTAG
* * *
66126017 AATAAGGTGAAATGTTTAAAA
1 AATAAGGTAAAATATTGAAAA
66126038 AATAAGGTTAAAATATTGAAAA
1 AATAAGG-TAAAATATTGAAAA
66126060 TGTTATAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.56, C:0.00, G:0.16, T:0.28
Consensus pattern (21 bp):
AATAAGGTAAAATATTGAAAA
Found at i:66126922 original size:5 final size:6
Alignment explanation
Indices: 66126909--66126949 Score: 64
Period size: 6 Copynumber: 6.5 Consensus size: 6
66126899 ATAATTTAAT
66126909 AAATAA AAATAA AAATCTAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
66126950 GCATATAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 27 0.82
8 6 0.18
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:66126943 original size:21 final size:22
Alignment explanation
Indices: 66126886--66126943 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 22
66126876 CAACTCAATC
*
66126886 ATAAAAATTACAAATAATTTAATAA
1 ATAAAAA-TA-AAA-AATCTAATAA
66126911 ATAAAAAT-AAAAATCTAA-AA
1 ATAAAAATAAAAAATCTAATAA
66126931 ATAAAAATAAAAA
1 ATAAAAATAAAAA
66126944 TAAAAAGCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
20 10 0.32
21 10 0.32
22 3 0.10
24 1 0.03
25 7 0.23
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.24
Consensus pattern (22 bp):
ATAAAAATAAAAAATCTAATAA
Found at i:66126983 original size:9 final size:9
Alignment explanation
Indices: 66126969--66127018 Score: 73
Period size: 9 Copynumber: 5.6 Consensus size: 9
66126959 TTTATACAAA
66126969 TAATTCGGT
1 TAATTCGGT
*
66126978 TAATTCGGG
1 TAATTCGGT
*
66126987 TAATTCGTT
1 TAATTCGGT
*
66126996 TAATTCGAT
1 TAATTCGGT
66127005 TAATTCGGT
1 TAATTCGGT
66127014 TAATT
1 TAATT
66127019 TTGTACTTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.26, C:0.10, G:0.18, T:0.46
Consensus pattern (9 bp):
TAATTCGGT
Found at i:66130828 original size:20 final size:20
Alignment explanation
Indices: 66130782--66130828 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
66130772 ACTTAATAAG
*
66130782 ATATTCATAACATAAAATAT
1 ATATTTATAACATAAAATAT
* * *
66130802 TTTTTTATAATATAAAATAT
1 ATATTTATAACATAAAATAT
66130822 ATATTTA
1 ATATTTA
66130829 CCAAACAAGT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (20 bp):
ATATTTATAACATAAAATAT
Found at i:66130924 original size:14 final size:15
Alignment explanation
Indices: 66130894--66130928 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
66130884 ATAATTTAAA
66130894 TTCAATACTTAAATT
1 TTCAATACTTAAATT
*
66130909 TTCAATACTTAATTT
1 TTCAATACTTAAATT
66130924 TTCAA
1 TTCAA
66130929 CATTTCTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (15 bp):
TTCAATACTTAAATT
Found at i:66130954 original size:15 final size:15
Alignment explanation
Indices: 66130917--66130958 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
66130907 TTTTCAATAC
*
66130917 TTAATTTTTCAACAT
1 TTAATTTTTCAGCAT
**
66130932 TTCTTTTTTCAGCAT
1 TTAATTTTTCAGCAT
66130947 TTAATTTTTCAG
1 TTAATTTTTCAG
66130959 TTTATCAAAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.24, C:0.14, G:0.05, T:0.57
Consensus pattern (15 bp):
TTAATTTTTCAGCAT
Found at i:66142158 original size:99 final size:99
Alignment explanation
Indices: 66141986--66142182 Score: 342
Period size: 99 Copynumber: 2.0 Consensus size: 99
66141976 GAAGTGACTA
* * *
66141986 TTAAGGTTGCACGGGTCGCCCAAGTCGACTGTGAACCTTTCGTAGGGTCAGTAAGCACTACTTAG
1 TTAAGGTTGCACGGGTCGCCCAAGTCAACTGTGAACCTTCCGTAGGGTCAGCAAGCACTACTTAG
*
66142051 ACCTTTATTTGTGTGAAAGTATCTATGTGAATTG
66 ACCCTTATTTGTGTGAAAGTATCTATGTGAATTG
66142085 TTAAGGTTGCACGGGTCGCCCAAGTCAACTGTGAACCTTCCGTAGGGTC-GACAAGCACTACTTA
1 TTAAGGTTGCACGGGTCGCCCAAGTCAACTGTGAACCTTCCGTAGGGTCAG-CAAGCACTACTTA
66142149 GACCCTTATTTGTGTGAAAGTATCTATGTGAATT
65 GACCCTTATTTGTGTGAAAGTATCTATGTGAATT
66142183 ATGTACTGAG
Statistics
Matches: 93, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
98 1 0.01
99 92 0.99
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (99 bp):
TTAAGGTTGCACGGGTCGCCCAAGTCAACTGTGAACCTTCCGTAGGGTCAGCAAGCACTACTTAG
ACCCTTATTTGTGTGAAAGTATCTATGTGAATTG
Found at i:66145918 original size:46 final size:46
Alignment explanation
Indices: 66145787--66145954 Score: 155
Period size: 46 Copynumber: 3.6 Consensus size: 46
66145777 GTGTGAGCTG
* * *
66145787 GTGTAAGACATGTCTGGGACATGCATC-AGCCAC-ATTATGAGAGCCA
1 GTGTAAGACATGTCTGGGACATGCATCGA-CCTCGA-GACGAGAGCCA
* * * * *
66145833 GTGTAAGACCATGTCTGGGGCATGGCATCTG-CATTGAGACGAGGGCTA
1 GTGTAAGA-CATGTCTGGGACAT-GCATC-GACCTCGAGACGAGAGCCA
66145881 GTGTAAGACATGTCTGGGACATGCATCGACCTCGAGACGTA-AGCCA
1 GTGTAAGACATGTCTGGGACATGCATCGACCTCGAGACG-AGAGCCA
* **
66145927 ATGTAAGACATGTCTAAGACATGCATCG
1 GTGTAAGACATGTCTGGGACATGCATCG
66145955 GCTACGATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
45 1 0.01
46 49 0.49
47 27 0.27
48 21 0.21
49 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.22
Consensus pattern (46 bp):
GTGTAAGACATGTCTGGGACATGCATCGACCTCGAGACGAGAGCCA
Found at i:66146019 original size:93 final size:94
Alignment explanation
Indices: 66145880--66146051 Score: 233
Period size: 93 Copynumber: 1.8 Consensus size: 94
66145870 GACGAGGGCT
* *
66145880 AGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGACGTAAGCCAATGTAAGA-CATGTCTAA
1 AGTGTAAGACATATCTGGGACATGCATCGACCTCGAGACATAAGCCAATGTAAGACCATGTCTAA
66145944 GACAT-GCATCGGCTACGATATGATAATC
66 GACATGGCATCGGCTACGATATGATAATC
* * * * *
66145972 AGTGTAAGACCATATTTGGGACATGGCATCGA-CTTGAGATATGAGCCAATGTAAGACCGTGTCT
1 AGTGTAAGA-CATATCTGGGACAT-GCATCGACCTCGAGACATAAGCCAATGTAAGACCATGTCT
*
66146036 AGGACATGGCATCGGC
64 AAGACATGGCATCGGC
66146052 ACCTTACCCT
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
92 9 0.13
93 32 0.47
94 19 0.28
95 8 0.12
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (94 bp):
AGTGTAAGACATATCTGGGACATGCATCGACCTCGAGACATAAGCCAATGTAAGACCATGTCTAA
GACATGGCATCGGCTACGATATGATAATC
Found at i:66146035 original size:140 final size:141
Alignment explanation
Indices: 66145788--66146049 Score: 309
Period size: 140 Copynumber: 1.9 Consensus size: 141
66145778 TGTGAGCTGG
** * * *
66145788 TGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGG
1 TGTAAGACATGTCTAAGACATGCATCAGCCACATTATGAGAACCAGTGTAAGACCATATCTGGGA
* * * *
66145853 CATGGCATCTGCATTGAGACGAGGGCTAGTGTAAGACATGTCTGGGACAT-GCATCGACCTCGAG
66 CATGGCATCTGCATTGAGACGAGAGCCAATGTAAGACATGTCTAGGACATGGCATCGACCTCGAG
66145917 ACGTAAGCCAA
131 ACGTAAGCCAA
* * * * *
66145928 TGTAAGACATGTCTAAGACATGCATCGGCTACGA-TATGATAATCAGTGTAAGACCATATTTGGG
1 TGTAAGACATGTCTAAGACATGCATCAGCCAC-ATTATGAGAACCAGTGTAAGACCATATCTGGG
* *
66145992 ACATGGCATC-G-ACTTGAGA-TATGAGCCAATGTAAGACCGTGTCTAGGACATGGCATCG
65 ACATGGCATCTGCA-TTGAGACGA-GAGCCAATGTAAGA-CATGTCTAGGACATGGCATCG
66146050 GCACCTTACC
Statistics
Matches: 101, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
138 2 0.02
139 18 0.18
140 74 0.73
141 7 0.07
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.23
Consensus pattern (141 bp):
TGTAAGACATGTCTAAGACATGCATCAGCCACATTATGAGAACCAGTGTAAGACCATATCTGGGA
CATGGCATCTGCATTGAGACGAGAGCCAATGTAAGACATGTCTAGGACATGGCATCGACCTCGAG
ACGTAAGCCAA
Found at i:66148457 original size:27 final size:27
Alignment explanation
Indices: 66148359--66148457 Score: 98
Period size: 27 Copynumber: 3.8 Consensus size: 27
66148349 AACCCAGATA
* *
66148359 AGCTTCCCGTTACATGGCTC---ACAG
1 AGCTTCCCGTTATATGGCTCGAGAGAG
* * *
66148383 AGCTTTCTGTTATATGGCTCAAGAGAG
1 AGCTTCCCGTTATATGGCTCGAGAGAG
* *
66148410 AGTTTCTCGTTATATGGCTCGAGAGAG
1 AGCTTCCCGTTATATGGCTCGAGAGAG
66148437 AGCTTCCCGTT-TATGTGCTCG
1 AGCTTCCCGTTATATG-GCTCG
66148458 TATGAGCATT
Statistics
Matches: 60, Mismatches: 11, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
24 17 0.28
26 4 0.07
27 39 0.65
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.32
Consensus pattern (27 bp):
AGCTTCCCGTTATATGGCTCGAGAGAG
Found at i:66150664 original size:16 final size:17
Alignment explanation
Indices: 66150643--66150676 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
66150633 AATTGGGAAC
66150643 TAAAT-AGTTAAGAGAA
1 TAAATAAGTTAAGAGAA
*
66150659 TAAATAATTTAAGAGAA
1 TAAATAAGTTAAGAGAA
66150676 T
1 T
66150677 TGAGAGAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.56, C:0.00, G:0.15, T:0.29
Consensus pattern (17 bp):
TAAATAAGTTAAGAGAA
Found at i:66151006 original size:16 final size:15
Alignment explanation
Indices: 66150987--66151037 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
66150977 TATATTTTTG
66150987 TATTATTATATTAAAT
1 TATTATTA-ATTAAAT
* *
66151003 TATT-TAAATATAATT
1 TATTATTAAT-TAAAT
66151018 TATTATTAAGTTAAAT
1 TATTATTAA-TTAAAT
66151034 TATT
1 TATT
66151038 TAAATGTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
14 2 0.07
15 10 0.36
16 15 0.54
17 1 0.04
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (15 bp):
TATTATTAATTAAAT
Found at i:66151024 original size:31 final size:31
Alignment explanation
Indices: 66150987--66151200 Score: 97
Period size: 31 Copynumber: 6.6 Consensus size: 31
66150977 TATATTTTTG
66150987 TATTATTATATTAAATTATTTAAATATAATT
1 TATTATTATATTAAATTATTTAAATATAATT
**
66151018 TATTATTA-AGTTAAATTATTTAAATGTTATTCACAAA
1 TATTATTATA-TTAAATTATTTAAA---TA-T-A-ATT
* * * *
66151055 TATCATTTTATTAAAAT-TTTCAATATAATT
1 TATTATTATATTAAATTATTTAAATATAATT
* * *
66151085 TATCATTATATTTAAAAT-TTTAAA-ATATTT
1 TATTATTATA-TTAAATTATTTAAATATAATT
66151115 TA-TA-TATCATT-AATT-TTTCAAATA-AATT
1 TATTATTAT-ATTAAATTATTT-AAATATAATT
*
66151143 ATATTAATTAT-TTAAATGATATTTAAAATTTATATTT
1 -TATT-ATTATATTAAAT--TATTT-AAA--TATAATT
*
66151180 TATATATTATATTAAAATATT
1 TAT-TATTATATTAAATTATT
66151201 ATATAAATTA
Statistics
Matches: 141, Mismatches: 17, Indels: 46
0.69 0.08 0.23
Matches are distributed among these distances:
27 6 0.04
28 11 0.08
29 5 0.04
30 21 0.15
31 39 0.28
32 4 0.03
33 3 0.02
34 8 0.06
35 5 0.04
36 16 0.11
37 22 0.16
38 1 0.01
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.52
Consensus pattern (31 bp):
TATTATTATATTAAATTATTTAAATATAATT
Found at i:66151046 original size:16 final size:16
Alignment explanation
Indices: 66150997--66151046 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
66150987 TATTATTATA
66150997 TTAAATTATTTAAAT-
1 TTAAATTATTTAAATG
* * *
66151012 ATAATTTATTATTAA-G
1 TTAAATTATT-TAAATG
66151028 TTAAATTATTTAAATG
1 TTAAATTATTTAAATG
66151044 TTA
1 TTA
66151047 TTCACAAATA
Statistics
Matches: 26, Mismatches: 6, Indels: 5
0.70 0.16 0.14
Matches are distributed among these distances:
15 11 0.42
16 15 0.58
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (16 bp):
TTAAATTATTTAAATG
Found at i:66151117 original size:30 final size:30
Alignment explanation
Indices: 66151055--66151152 Score: 84
Period size: 30 Copynumber: 3.4 Consensus size: 30
66151045 TATTCACAAA
* *
66151055 TATCATTTTATTAAAATTTTCAATATAATT
1 TATCATTATATTAAAATTTTCAAAATAATT
*
66151085 TATCATTATATTTAAAATTTT-AAAATATTT
1 TATCATTATA-TTAAAATTTTCAAAATAATT
* *
66151115 TAT-A-TATCATT-AATTTTTC-AAATAAAT
1 TATCATTAT-ATTAAAATTTTCAAAATAATT
66151142 TAT-ATTA-ATTA
1 TATCATTATATTA
66151153 TTTAAATGAT
Statistics
Matches: 57, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
26 3 0.05
27 16 0.28
28 7 0.12
29 2 0.04
30 19 0.33
31 10 0.18
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (30 bp):
TATCATTATATTAAAATTTTCAAAATAATT
Found at i:66151179 original size:13 final size:14
Alignment explanation
Indices: 66151161--66151204 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 14
66151151 TATTTAAATG
66151161 ATATTTAAAAT-TT
1 ATATTTAAAATATT
* *
66151174 ATATTTTATATATT
1 ATATTTAAAATATT
66151188 ATA-TTAAAATATT
1 ATATTTAAAATATT
66151201 ATAT
1 ATAT
66151205 AAATTAATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
13 20 0.80
14 5 0.20
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATATTTAAAATATT
Found at i:66151199 original size:22 final size:21
Alignment explanation
Indices: 66151174--66151216 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
66151164 TTTAAAATTT
* *
66151174 ATATTTTATATATTATATTAAA
1 ATATTATATAAATTA-ATTAAA
66151196 ATATTATATAAATTAATTAAA
1 ATATTATATAAATTAATTAAA
66151217 TTTTACTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATATTATATAAATTAATTAAA
Found at i:66154062 original size:73 final size:73
Alignment explanation
Indices: 66153934--66154078 Score: 211
Period size: 73 Copynumber: 2.0 Consensus size: 73
66153924 TTTTACCTGA
*
66153934 CTTAACCAGTATGTTAGGTTGCAAGATCCTTTGGACATCAACATTTCAAAATCTATGAAGTCT-T
1 CTTAACCAGTATGTTAGGTTGCAAGATCCTTTGGACATCAACATTTCAAAATCTATCAAGTCTCT
66153998 CTTTATTTT
66 -TTTATTTT
* * * ** *
66154007 CTTAACCATTATGTTAGGTTGCGAGATCCTTTGTACATCAACATTTTGAACTCTATCAAGTCTCT
1 CTTAACCAGTATGTTAGGTTGCAAGATCCTTTGGACATCAACATTTCAAAATCTATCAAGTCTCT
66154072 TTTATTT
66 TTTATTT
66154079 ATCTATTGTT
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
73 63 0.98
74 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (73 bp):
CTTAACCAGTATGTTAGGTTGCAAGATCCTTTGGACATCAACATTTCAAAATCTATCAAGTCTCT
TTTATTTT
Found at i:66159460 original size:40 final size:40
Alignment explanation
Indices: 66159406--66159498 Score: 159
Period size: 40 Copynumber: 2.3 Consensus size: 40
66159396 GTCAGAATCG
*
66159406 CACACTTAGTGCCTCAAGTAGCCGAAGCTAGTTTAAAGCA
1 CACACTTAGTGCCTCAAGTAGCCGAAGCTAATTTAAAGCA
* *
66159446 CACACTTAGTGCCTCAAGTAGCCGAAGCTAATTTAAATCG
1 CACACTTAGTGCCTCAAGTAGCCGAAGCTAATTTAAAGCA
66159486 CACACTTAGTGCC
1 CACACTTAGTGCC
66159499 AAAACTTCCG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (40 bp):
CACACTTAGTGCCTCAAGTAGCCGAAGCTAATTTAAAGCA
Found at i:66169966 original size:28 final size:27
Alignment explanation
Indices: 66169935--66169997 Score: 83
Period size: 26 Copynumber: 2.3 Consensus size: 27
66169925 AGTTAGTAGA
*
66169935 ATACCCCTAAGTATGGAAAATTACCATT
1 ATACCCCTAAG-ATGGAAAATGACCATT
* *
66169963 ATACCCCT-AGGTGTAAAATGACCATT
1 ATACCCCTAAGATGGAAAATGACCATT
66169989 ATACCCCTA
1 ATACCCCTA
66169998 GGGTTAATTG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 21 0.68
27 2 0.06
28 8 0.26
ACGTcount: A:0.37, C:0.25, G:0.11, T:0.27
Consensus pattern (27 bp):
ATACCCCTAAGATGGAAAATGACCATT
Found at i:66170156 original size:27 final size:27
Alignment explanation
Indices: 66170121--66170183 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
66170111 GCTATGCCAT
66170121 AATATCTGTTCTGGTGGCTCTACCACA
1 AATATCTGTTCTGGTGGCTCTACCACA
* *
66170148 AATATCTGTTTTGGTGGCTCTGCCACA
1 AATATCTGTTCTGGTGGCTCTACCACA
66170175 AATATCTGT
1 AATATCTGT
66170184 ATGTGGTGAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (27 bp):
AATATCTGTTCTGGTGGCTCTACCACA
Found at i:66170202 original size:28 final size:27
Alignment explanation
Indices: 66170106--66170211 Score: 90
Period size: 27 Copynumber: 4.0 Consensus size: 27
66170096 GGAAGCGTCC
* * *
66170106 TGGTGGCTATGCCA-TAATATCTGTTC
1 TGGTGACTATGCCACAAATATCTGTTG
* * * *
66170132 TGGTGGCTCTACCACAAATATCTGTTT
1 TGGTGACTATGCCACAAATATCTGTTG
* *
66170159 TGGTGGCTCTGCCACAAATATCTGTATG
1 TGGTGACTATGCCACAAATATCTGT-TG
* *
66170187 TGGTGACTATGTCAC-ATTATCTGTT
1 TGGTGACTATGCCACAAATATCTGTT
66170212 CTGGCAGCCA
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 13 0.19
27 42 0.62
28 13 0.19
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.38
Consensus pattern (27 bp):
TGGTGACTATGCCACAAATATCTGTTG
Found at i:66177960 original size:27 final size:27
Alignment explanation
Indices: 66177919--66177997 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
66177909 GGAAGCGTCC
* *
66177919 TGGTGGCTATGCCACAATTATCTGTTA
1 TGGTGGCTCTGCCACAAATATCTGTTA
* * *
66177946 TGGTGGCTCTACCACAAATATCTATTT
1 TGGTGGCTCTGCCACAAATATCTGTTA
*
66177973 TGGTGACTCTGCCACAAATATCTGT
1 TGGTGGCTCTGCCACAAATATCTGT
66177998 ATCTGGTGAC
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAAATATCTGTTA
Found at i:66188124 original size:64 final size:64
Alignment explanation
Indices: 66188043--66188226 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
66188033 AGACATTATG
* *
66188043 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * * *
66188107 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAAAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
66188172 AA
63 AA
* * * *
66188174 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
66188227 CGAACTATAT
Statistics
Matches: 96, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 21 0.22
65 8 0.08
66 16 0.17
67 30 0.31
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:66190653 original size:35 final size:35
Alignment explanation
Indices: 66190597--66190685 Score: 106
Period size: 35 Copynumber: 2.5 Consensus size: 35
66190587 CAAGAGTTAG
* ** * * *
66190597 TCCAACAAAAACACGTAAATGCTCAAAAGATCTAA
1 TCCAACCAAAACACGCCAATGCTAAAAAAAGCTAA
*
66190632 TCTAACCAAAACACGCCAATGCTAAAAAAAGCTAA
1 TCCAACCAAAACACGCCAATGCTAAAAAAAGCTAA
*
66190667 TCCAACCGAAACACGCCAA
1 TCCAACCAAAACACGCCAA
66190686 ACAGAGAGTA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 45 1.00
ACGTcount: A:0.49, C:0.28, G:0.09, T:0.13
Consensus pattern (35 bp):
TCCAACCAAAACACGCCAATGCTAAAAAAAGCTAA
Found at i:66191630 original size:21 final size:21
Alignment explanation
Indices: 66191606--66191645 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
66191596 AGTGAAAATG
66191606 TTTTAATTT-CACTTTAATTTA
1 TTTTAATTTCCA-TTTAATTTA
66191627 TTTTAATTTCCATTTAATT
1 TTTTAATTTCCATTTAATT
66191646 ATAAAATTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTAATTTCCATTTAATTTA
Found at i:66192162 original size:44 final size:44
Alignment explanation
Indices: 66192110--66192197 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
66192100 CCGAAACCAC
66192110 TGTTTCTGACACCACTGAAAAATGGGATGTTATAAACCGCCATA
1 TGTTTCTGACACCACTGAAAAATGGGATGTTATAAACCGCCATA
66192154 TGTTTCTGACACCACTGAAAAATGGGATGTTATAAACCGCCATA
1 TGTTTCTGACACCACTGAAAAATGGGATGTTATAAACCGCCATA
66192198 CACCAAGAAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.27
Consensus pattern (44 bp):
TGTTTCTGACACCACTGAAAAATGGGATGTTATAAACCGCCATA
Found at i:66194507 original size:28 final size:29
Alignment explanation
Indices: 66194463--66194518 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
66194453 GTCGTTGAAA
66194463 ACTCAATGTCTCGCACACTAAGT-TCGTT
1 ACTCAATGTCTCGCACACTAAGTGTCGTT
*
66194491 ACTCAATAG-CTCTCACACTAAGTGTCGT
1 ACTCAAT-GTCTCGCACACTAAGTGTCGT
66194519 ACATAGCCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 20 0.80
29 5 0.20
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (29 bp):
ACTCAATGTCTCGCACACTAAGTGTCGTT
Found at i:66194554 original size:40 final size:40
Alignment explanation
Indices: 66194504--66194637 Score: 151
Period size: 40 Copynumber: 3.4 Consensus size: 40
66194494 CAATAGCTCT
* *
66194504 CACACTAAGTGTCGTACATAGCCAAAACTATCTCAAATCG
1 CACACTAAGTGCCATACATAGCCAAAACTATCTCAAATCG
* * * * *
66194544 CACACGAAGTGCCATATATAGCCGAAACTATGTCGAATCG
1 CACACTAAGTGCCATACATAGCCAAAACTATCTCAAATCG
* * * * **
66194584 CACACTAAGTGCCATATATTGCCAAAGCTATATCGTATCG
1 CACACTAAGTGCCATACATAGCCAAAACTATCTCAAATCG
66194624 CACACTAAGTGCCA
1 CACACTAAGTGCCA
66194638 CAAATAATTG
Statistics
Matches: 81, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 81 1.00
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (40 bp):
CACACTAAGTGCCATACATAGCCAAAACTATCTCAAATCG
Found at i:66196481 original size:49 final size:49
Alignment explanation
Indices: 66196416--66196546 Score: 156
Period size: 51 Copynumber: 2.6 Consensus size: 49
66196406 ATCTGGTATG
* *
66196416 CATAGTAGCCTACACTTAGTACTACACATGCAACCAACAG-TCTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCAACC-ACAGTTCAGGTACA
* * ** * *
66196465 CGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCAGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACATGCAACCACAG--TTCAGGTACA
66196516 CATAGTAGCCTGCACTTAGTACTACACATGC
1 CATAGTAGCCTGCACTTAGTACTACACATGC
66196547 GACCTCACAA
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
48 4 0.06
49 29 0.43
51 35 0.51
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
CATAGTAGCCTGCACTTAGTACTACACATGCAACCACAGTTCAGGTACA
Found at i:66202157 original size:117 final size:117
Alignment explanation
Indices: 66201951--66202190 Score: 444
Period size: 117 Copynumber: 2.1 Consensus size: 117
66201941 AGAAATCCCG
66201951 ATTCATTAACAGACAATTCTTGTAGACTTTGTCAACCAAAACACATTTGCCTAAGGGGTTCGATA
1 ATTCATTAACAGACAATTCTTGTAGACTTTGTCAACCAAAACACATTTGCCTAAGGGGTTCGATA
* *
66202016 CTCTAATCACAAATTCAGTAGACTCCATAGGCAAAGTCTTACTAGATACTAA
66 CTCTAATCACAAATTCAGTAGACTCCACAGGCAAAGTCTTACAAGATACTAA
*
66202068 ATTCATTAATAGACAATTCTTGTAGACTTTGTCAACCAAAACACATTTGCCTAAGGGGTTCGATA
1 ATTCATTAACAGACAATTCTTGTAGACTTTGTCAACCAAAACACATTTGCCTAAGGGGTTCGATA
*
66202133 CTCTAATCACAAATTCAGTAGACTCCACAGGCAAAGTTTTACAAGATACTAA
66 CTCTAATCACAAATTCAGTAGACTCCACAGGCAAAGTCTTACAAGATACTAA
66202185 ATTCAT
1 ATTCAT
66202191 ACAGATATAA
Statistics
Matches: 119, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
117 119 1.00
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (117 bp):
ATTCATTAACAGACAATTCTTGTAGACTTTGTCAACCAAAACACATTTGCCTAAGGGGTTCGATA
CTCTAATCACAAATTCAGTAGACTCCACAGGCAAAGTCTTACAAGATACTAA
Found at i:66211951 original size:29 final size:29
Alignment explanation
Indices: 66211918--66211991 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
66211908 GTTGTGAGAT
* *
66211918 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
66211947 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
66211976 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
66211992 CGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:66220095 original size:29 final size:29
Alignment explanation
Indices: 66220062--66220135 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
66220052 GTTGTGAGAT
* *
66220062 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
66220091 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
66220120 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
66220136 CGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:66222399 original size:22 final size:23
Alignment explanation
Indices: 66222369--66222412 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
66222359 TACCAATCTA
*
66222369 TTCACAACATATAGCATGCATTT
1 TTCACAACATAAAGCATGCATTT
*
66222392 TTCA-AACATAAAGCATTCATT
1 TTCACAACATAAAGCATGCATT
66222413 CTCATAAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.34
Consensus pattern (23 bp):
TTCACAACATAAAGCATGCATTT
Found at i:66223841 original size:28 final size:28
Alignment explanation
Indices: 66223800--66223855 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
66223790 ATGCCGTCGA
* *
66223800 ATACTCAATGTCTCGCACACTAAGTGTC
1 ATACTCAATATCTCGCACACTAAATGTC
66223828 ATACTCAATATCTCGCACACTAAATGTC
1 ATACTCAATATCTCGCACACTAAATGTC
66223856 GTACATAGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.32, C:0.29, G:0.11, T:0.29
Consensus pattern (28 bp):
ATACTCAATATCTCGCACACTAAATGTC
Found at i:66223971 original size:40 final size:40
Alignment explanation
Indices: 66223840--66223976 Score: 139
Period size: 40 Copynumber: 3.4 Consensus size: 40
66223830 ACTCAATATC
* * * * * * * *
66223840 TCGCACACTAAATGTCGTACATAGCTGAAACTATCTCAAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATATCGAA
* * * * *
66223880 TCGCACACTAAATGACATATATAGTCGAAGCTATGTTGAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATATCGAA
* *
66223920 TCGCACACTAAGTGCCATATATAGCCGAAGCTTTATCGTA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATATCGAA
66223960 TCGCACACTAAGTGCCA
1 TCGCACACTAAGTGCCA
66223977 CAAATAACCG
Statistics
Matches: 81, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 81 1.00
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATATATAGCCGAAGCTATATCGAA
Found at i:66227045 original size:103 final size:104
Alignment explanation
Indices: 66226801--66227066 Score: 410
Period size: 103 Copynumber: 2.6 Consensus size: 104
66226791 GTTGTACATA
** *
66226801 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
66226866 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
66226905 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
66226969 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * * *
66227008 AAGGGGTTGCTAAGTGCTGGTTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
66227067 AATAACGGTT
Statistics
Matches: 148, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
103 82 0.55
104 66 0.45
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:66228998 original size:27 final size:27
Alignment explanation
Indices: 66228966--66229057 Score: 87
Period size: 27 Copynumber: 3.4 Consensus size: 27
66228956 ATTACCAAAG
*
66228966 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
* ** * *
66228993 TGCCCTTAATTTACAGAATTATTGTTT
1 TACCCTCGATTTACAGAATTACTATTT
* * *
66229020 TACCATCGATTTACAAAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-ATTT
66229047 TACCCTCGATT
1 TACCCTCGATT
66229058 GTGAAATTAC
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
26 1 0.02
27 51 0.98
ACGTcount: A:0.28, C:0.20, G:0.09, T:0.43
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTATTT
Found at i:66229192 original size:27 final size:27
Alignment explanation
Indices: 66229056--66229226 Score: 134
Period size: 27 Copynumber: 6.3 Consensus size: 27
66229046 TTACCCTCGA
* *
66229056 TTGTGAAATTACTAAAATACCCCT-AT
1 TTGTAAAATTACCAAAATACCCCTGAT
** * *
66229082 AGGGTAGAATTACCAAAATGCCCCT-AGT
1 -TTGTAAAATTACCAAAATACCCCTGA-T
* *
66229110 TTGTAAAATTACCAAAATACCACTGGT
1 TTGTAAAATTACCAAAATACCCCTGAT
* * *
66229137 TTGTGAAATTACCGAAATA-CCCTCAAT
1 TTGTAAAATTACCAAAATACCCCT-GAT
66229164 TTGTAAAATTACCAAAATACCCCTGAT
1 TTGTAAAATTACCAAAATACCCCTGAT
** *
66229191 TTACAAAATTA-CAGAAATACCCTTGACT
1 TTGTAAAATTACCA-AAATACCCCTGA-T
*
66229219 TTTTAAAA
1 TTGTAAAA
66229227 ATTATAGAAA
Statistics
Matches: 113, Mismatches: 25, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
26 5 0.04
27 96 0.85
28 12 0.11
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.30
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTGAT
Found at i:66229200 original size:54 final size:54
Alignment explanation
Indices: 66229109--66229269 Score: 180
Period size: 54 Copynumber: 2.9 Consensus size: 54
66229099 ATGCCCCTAG
*** *
66229109 TTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAA
1 TTTGTAAAATTACCAAAATACCACTGGTTTACAAAATTACAGAAATACCCTCAA
* * * *
66229163 TTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACAGAAATACCCTTGAC
1 TTTGTAAAATTACCAAAATACCACTGGTTTACAAAATTACAGAAATACCC-TCAA
* * * *
66229218 TTTTTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCCT
1 TTTGT-AAAATTACCA-AAATACCACTGGTTTACAAAATTACAGAAATACCCT
66229270 TGGTTTGTAG
Statistics
Matches: 90, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
54 44 0.49
55 8 0.09
56 38 0.42
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.32
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAATACCACTGGTTTACAAAATTACAGAAATACCCTCAA
Found at i:66229263 original size:27 final size:27
Alignment explanation
Indices: 66229168--66229275 Score: 103
Period size: 27 Copynumber: 3.9 Consensus size: 27
66229158 CTCAATTTGT
** * *
66229168 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACTGAAATACCCTTGGTTTAC
* *
66229195 AAAATTACAGAAATACCCTTGACTTTTTA-
1 AAAATTACTGAAATACCCTTG---GTTTAC
*
66229224 AAAATTA-TAGAAATACCATTGGTTTAC
1 AAAATTACT-GAAATACCCTTGGTTTAC
66229251 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTGAAATACCCTTGGTTT
66229276 GTAGATTTAC
Statistics
Matches: 67, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
26 4 0.06
27 40 0.60
28 1 0.01
29 18 0.27
30 4 0.06
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (27 bp):
AAAATTACTGAAATACCCTTGGTTTAC
Found at i:66229368 original size:27 final size:27
Alignment explanation
Indices: 66229316--66229393 Score: 70
Period size: 27 Copynumber: 2.9 Consensus size: 27
66229306 AAATGACTAA
* **
66229316 AATACCCCTAATA-GGTAAAAAAACCGT
1 AATACCCCT-GTAGGGTAAAATGACCGT
*
66229343 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAATGACCGT
* *
66229370 AATATCCCTGTATGGTAAAATGAC
1 AATACCCCTGTAGGGTAAAATGAC
66229394 GAATATGCCC
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
26 3 0.07
27 37 0.90
28 1 0.02
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAATGACCGT
Found at i:66229408 original size:25 final size:27
Alignment explanation
Indices: 66229348--66229408 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
66229338 ACCGTAAAGC
* *
66229348 CCCTGTAGGGTAAAGTGACCGTAATAT
1 CCCTGTATGGTAAAATGACCGTAATAT
66229375 CCCTGTATGGTAAAATGA-CG-AATAT
1 CCCTGTATGGTAAAATGACCGTAATAT
66229400 GCCCT-TATG
1 -CCCTGTATG
66229409 TTCCATATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 9 0.29
26 6 0.19
27 16 0.52
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (27 bp):
CCCTGTATGGTAAAATGACCGTAATAT
Found at i:66230241 original size:25 final size:25
Alignment explanation
Indices: 66230203--66230272 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
66230193 AGGAAGTGCT
* *
66230203 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
66230228 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
66230253 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
66230273 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:66230285 original size:24 final size:24
Alignment explanation
Indices: 66230202--66230297 Score: 95
Period size: 25 Copynumber: 3.9 Consensus size: 24
66230192 GAGGAAGTGC
*
66230202 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTATGCCCCAGTTTA-T
* *
66230227 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTATGCCCCAGTTTAT
* *
66230251 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTATGCCCCAGTTTAT
*
66230275 TAAAAGAGGCTAAGCCTCCAGTT
1 TAAAAG-GGCTATGCC-CCAGTT
66230298 ATATGATAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
23 5 0.08
24 11 0.18
25 43 0.72
26 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTATGCCCCAGTTTAT
Found at i:66230296 original size:50 final size:50
Alignment explanation
Indices: 66230203--66230297 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
66230193 AGGAAGTGCT
**
66230203 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAAGCCCCAGTTTATCA
* **
66230253 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAAGCCTCCAGTT
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAG-GGCTAAGCC-CCAGTT
66230298 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 23 0.61
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.24
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAAGCCCCAGTTTATCA
Found at i:66230543 original size:31 final size:30
Alignment explanation
Indices: 66230492--66230574 Score: 123
Period size: 31 Copynumber: 2.7 Consensus size: 30
66230482 CGCTTACAGT
* *
66230492 AAAGGCTTCAGCTAGTGATATGATTTATGA
1 AAAGGCTTCACCCAGTGATATGATTTATGA
66230522 AAAGGCTTCGACCCAGTGATATGATTTATGA
1 AAAGGCTTC-ACCCAGTGATATGATTTATGA
66230553 AAAGGCTTCAGCCCAGT-ATATG
1 AAAGGCTTCA-CCCAGTGATATG
66230575 TCGAGACTGA
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
30 15 0.31
31 34 0.69
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.29
Consensus pattern (30 bp):
AAAGGCTTCACCCAGTGATATGATTTATGA
Found at i:66230622 original size:29 final size:28
Alignment explanation
Indices: 66230588--66230642 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
66230578 AGACTGAATT
* *
66230588 AGGGCTTAGGCCCATATTGCTACTGTTTA
1 AGGGCTAAGGCCCAGATTG-TACTGTTTA
*
66230617 AGGGCTAAGGCCTAGATTGTACTGTT
1 AGGGCTAAGGCCCAGATTGTACTGTT
66230643 ACTGAATAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 7 0.30
29 16 0.70
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (28 bp):
AGGGCTAAGGCCCAGATTGTACTGTTTA
Found at i:66230667 original size:33 final size:33
Alignment explanation
Indices: 66230580--66230673 Score: 99
Period size: 33 Copynumber: 2.9 Consensus size: 33
66230570 ATATGTCGAG
*
66230580 ACTGAATTAGGGCTTAGGCCCATATTGCTACTGTT
1 ACTGAA-TAGGGCTTAGGCCCAGATTG-TACTGTT
* *
66230615 --T--A-AGGGCTAAGGCCTAGATTGTACTGTT
1 ACTGAATAGGGCTTAGGCCCAGATTGTACTGTT
*
66230643 ACTGAATAGGGCTTTGGCCCAGATTGTACTG
1 ACTGAATAGGGCTTAGGCCCAGATTGTACTG
66230674 ACACTGTGTT
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
28 7 0.15
29 16 0.33
30 1 0.02
31 1 0.02
32 1 0.02
33 22 0.46
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (33 bp):
ACTGAATAGGGCTTAGGCCCAGATTGTACTGTT
Found at i:66239273 original size:39 final size:40
Alignment explanation
Indices: 66239043--66239266 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
66239033 TTGAATGATG
* * * *
66239043 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
66239083 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
66239123 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
66239163 TCTGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
66239202 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
66239243 -CC-GGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
66239267 AACGAGTAGC
Statistics
Matches: 160, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
39 55 0.34
40 95 0.59
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:66239285 original size:79 final size:79
Alignment explanation
Indices: 66239043--66239266 Score: 294
Period size: 79 Copynumber: 2.8 Consensus size: 79
66239033 TTGAATGATG
* * * *
66239043 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGG-CTAAG-TCCCGAAGGCAT
66239106 TTGTGCGAGTTACTAAA
63 TTGTGCGAGTTACTAAA
* *
66239123 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA-ATTCTGGGCTAAG-CCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TC-CGGCTAAGTCCCGAAGGCATT
66239186 TGTGCGAGTTACTAAA
64 TGTGCGAGTTACTAAA
* * *
66239202 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGCTAAGTCCCGAAGGCATTTG
66239267 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 11, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
78 6 0.05
79 79 0.62
80 33 0.26
81 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACTAAA
Found at i:66240766 original size:16 final size:17
Alignment explanation
Indices: 66240745--66240779 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
66240735 AATTTAAAGT
*
66240745 AATTAATTAA-TTTCTC
1 AATTAAATAATTTTCTC
66240761 AATTAAATAATTTTCTC
1 AATTAAATAATTTTCTC
66240778 AA
1 AA
66240780 CTCAATTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTAAATAATTTTCTC
Found at i:66247467 original size:28 final size:28
Alignment explanation
Indices: 66247427--66247496 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
66247417 GCAATCAAAT
* *
66247427 ATGGTACTCAGTGTACGAAATATTAAGA
1 ATGGAACTTAGTGTACGAAATATTAAGA
* * * *
66247455 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGAACTTAGTGTACGAAATATTAAGA
*
66247483 ATGAAACTTAGTGT
1 ATGGAACTTAGTGT
66247497 GAAAAATATC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.10, G:0.26, T:0.30
Consensus pattern (28 bp):
ATGGAACTTAGTGTACGAAATATTAAGA
Found at i:66247497 original size:28 final size:28
Alignment explanation
Indices: 66247436--66247497 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
66247426 TATGGTACTC
* **
66247436 AGTGTACGAAATATTAAGAATGGCACTT
1 AGTGTGCGAAATATTAAGAATGAAACTT
* *
66247464 AGTGTGCGAGATATTGAGAATGAAACTT
1 AGTGTGCGAAATATTAAGAATGAAACTT
66247492 AGTGTG
1 AGTGTG
66247498 AAAAATATCG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.29
Consensus pattern (28 bp):
AGTGTGCGAAATATTAAGAATGAAACTT
Found at i:66247505 original size:28 final size:28
Alignment explanation
Indices: 66247444--66247505 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
66247434 TCAGTGTACG
** **
66247444 AAATATTAAGAATGGCACTTAGTGTGCG
1 AAATATTAAGAATGAAACTTAGTGTGAA
* *
66247472 AGATATTGAGAATGAAACTTAGTGTGAA
1 AAATATTAAGAATGAAACTTAGTGTGAA
66247500 AAATAT
1 AAATAT
66247506 CGAATGATTC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.42, C:0.06, G:0.23, T:0.29
Consensus pattern (28 bp):
AAATATTAAGAATGAAACTTAGTGTGAA
Found at i:66257778 original size:26 final size:26
Alignment explanation
Indices: 66257747--66257854 Score: 155
Period size: 26 Copynumber: 4.2 Consensus size: 26
66257737 TGAAATGCCC
66257747 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
66257773 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* * *
66257799 ATCATAGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
66257825 ATCATGGAACATTTGCCT-AACTCATT
1 ATCATGGAACATTTACCTAAAC-CATT
66257851 ATCA
1 ATCA
66257855 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
25 2 0.03
26 71 0.97
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:66257824 original size:52 final size:52
Alignment explanation
Indices: 66257747--66257854 Score: 171
Period size: 52 Copynumber: 2.1 Consensus size: 52
66257737 TGAAATGCCC
*
66257747 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATAGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
* * * *
66257799 ATCATAGAATATTTACCTAATCCATTATCATGGAACATTTGCCTAACTCATT
1 ATCATAGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
66257851 ATCA
1 ATCA
66257855 ATTTGTACCA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (52 bp):
ATCATAGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Done.