Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_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: 12876159
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 54
Found at i:877700 original size:6 final size:7
Alignment explanation
Indices: 877668--877726 Score: 61
Period size: 7 Copynumber: 8.6 Consensus size: 7
877658 AATAAAACAT
877668 AAAATGC
1 AAAATGC
877675 AAAGATGC
1 AAA-ATGC
* *
877683 -GAATAC
1 AAAATGC
877689 AAAATG-
1 AAAATGC
877695 AAAATGC
1 AAAATGC
877702 AAAGATGC
1 AAA-ATGC
877710 AAAATG-
1 AAAATGC
877716 AAAATGC
1 AAAATGC
877723 AAAA
1 AAAA
877727 AAATGTAGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
6 15 0.35
7 17 0.40
8 11 0.26
ACGTcount: A:0.59, C:0.10, G:0.17, T:0.14
Consensus pattern (7 bp):
AAAATGC
Found at i:877719 original size:27 final size:28
Alignment explanation
Indices: 877668--877726 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 28
877658 AATAAAACAT
*
877668 AAAATGCAAAGATGCGAATACAAAATG-
1 AAAATGCAAAGATGCAAATACAAAATGC
*
877695 AAAATGCAAAGATGCAAA-ATGAAAATGC
1 AAAATGCAAAGATGCAAATA-CAAAATGC
877723 AAAA
1 AAAA
877727 AAATGTAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 1 0.04
27 23 0.82
28 4 0.14
ACGTcount: A:0.59, C:0.10, G:0.17, T:0.14
Consensus pattern (28 bp):
AAAATGCAAAGATGCAAATACAAAATGC
Found at i:877746 original size:53 final size:53
Alignment explanation
Indices: 877682--877828 Score: 146
Period size: 53 Copynumber: 2.8 Consensus size: 53
877672 TGCAAAGATG
* *
877682 CGAATACAAAATGAAAATGCAAAGATGCAAAATGAAAATGCAAA-A-AAATGTA
1 CGAATGCAAAAT-AAAATGCAAAGATGCAAAATGAAAATGCAAACATAAAAGTA
*
877734 -GAAATGCAAAAATAAGATGCAAATTG-TGC--AATGCAAAAT-CAAACATAAAAGTA
1 CG-AATGC-AAAATAAAATGCAAA--GATGCAAAATG-AAAATGCAAACATAAAAGTA
*
877787 CGAATGCAAAATAAAAATGCAAAGATGCAAAATGTAAATGCA
1 CGAATGCAAAAT-AAAATGCAAAGATGCAAAATGAAAATGCA
877829 TGTATGAAAA
Statistics
Matches: 77, Mismatches: 5, Indels: 24
0.73 0.05 0.23
Matches are distributed among these distances:
51 10 0.13
52 27 0.35
53 32 0.42
54 8 0.10
ACGTcount: A:0.56, C:0.11, G:0.16, T:0.17
Consensus pattern (53 bp):
CGAATGCAAAATAAAATGCAAAGATGCAAAATGAAAATGCAAACATAAAAGTA
Found at i:880353 original size:48 final size:49
Alignment explanation
Indices: 880301--880394 Score: 154
Period size: 49 Copynumber: 1.9 Consensus size: 49
880291 AAGCTATAAT
*
880301 ATTAAATTGCAAAATATA-AAAATTCATGGTCAAAAATGAAAATTAGTG
1 ATTAAAATGCAAAATATATAAAATTCATGGTCAAAAATGAAAATTAGTG
* *
880349 ATTAAAATGTAAAATATATAAAATTCATTGTCAAAAATGAAAATTA
1 ATTAAAATGCAAAATATATAAAATTCATGGTCAAAAATGAAAATTA
880395 TAAACATATC
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
48 16 0.38
49 26 0.62
ACGTcount: A:0.54, C:0.05, G:0.10, T:0.31
Consensus pattern (49 bp):
ATTAAAATGCAAAATATATAAAATTCATGGTCAAAAATGAAAATTAGTG
Found at i:880416 original size:30 final size:30
Alignment explanation
Indices: 880339--880432 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
880329 GTCAAAAATG
880339 AAAATT-AGTGATTAAAATGTAAAATATAT
1 AAAATTCAGTGATTAAAATGTAAAATATAT
* *
880368 AAAATTCATTG-TCAAAAATG-AAAAT-TAT
1 AAAATTCAGTGAT-TAAAATGTAAAATATAT
* *
880396 AAACATATCAGTGATTAAAATATAACATAT-T
1 AAA-AT-TCAGTGATTAAAATGTAAAATATAT
880427 AAAATT
1 AAAATT
880433 AAAAGCTCTA
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
28 6 0.12
29 15 0.29
30 21 0.40
31 9 0.17
32 1 0.02
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.33
Consensus pattern (30 bp):
AAAATTCAGTGATTAAAATGTAAAATATAT
Found at i:881596 original size:3 final size:3
Alignment explanation
Indices: 881588--881658 Score: 54
Period size: 3 Copynumber: 24.0 Consensus size: 3
881578 TATGTGTAAT
* * * * *
881588 TAA TAA TAA TAA TGA TAA TAA -AA TGA TAA TAA TAT TTA TAA TAA TTA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
881635 TTA TTA TTA TAA TAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
881659 AAATCAGAAC
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
2 2 0.04
3 53 0.96
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:881614 original size:11 final size:12
Alignment explanation
Indices: 881590--881632 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
881580 TGTGTAATTA
881590 ATAATAATAATG
1 ATAATAATAATG
881602 ATAATAA-AATG
1 ATAATAATAATG
* *
881613 ATAATAATATTT
1 ATAATAATAATG
881625 ATAATAAT
1 ATAATAAT
881633 TATTATTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 11 0.39
12 17 0.61
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (12 bp):
ATAATAATAATG
Found at i:882145 original size:53 final size:53
Alignment explanation
Indices: 882080--882183 Score: 163
Period size: 53 Copynumber: 2.0 Consensus size: 53
882070 ACACCCCTCT
882080 TTTTTCTTCTTCCCTTGGTACTCCAAAACACTTTCTCCTCCATTTCAGCAGAA
1 TTTTTCTTCTTCCCTTGGTACTCCAAAACACTTTCTCCTCCATTTCAGCAGAA
* *** *
882133 TTTTTCTTCTTCCCTTTGTACTCTGTAACACTTTCTCTTCCATTTCAGCAG
1 TTTTTCTTCTTCCCTTGGTACTCCAAAACACTTTCTCCTCCATTTCAGCAG
882184 CCATGATTGA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.17, C:0.31, G:0.08, T:0.44
Consensus pattern (53 bp):
TTTTTCTTCTTCCCTTGGTACTCCAAAACACTTTCTCCTCCATTTCAGCAGAA
Found at i:886138 original size:84 final size:83
Alignment explanation
Indices: 885952--886407 Score: 407
Period size: 84 Copynumber: 5.4 Consensus size: 83
885942 TGATGTTGGT
* * * * * ** * *
885952 AGATAACCCTTCTAACCTTGAGTTATGCTGTAAAAGATGTGTCTTTAAGCTGAGTGTAA--GAAC
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGACGTGCCTTGGAGCTGAATATAATCGAAC
* * *
886015 TCAAAAGGTCTTTTGTTGAC
66 TC-GAAGGT-ATTTGATGAC
*
886035 AGATAACCCTTCTAGCCTTGAGTTTTGCTGCAAATGACGTGCCTTGGAGCTGAATGA-AATCGAA
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGACGTGCCTTGGAGCTGAAT-ATAATCGAA
886099 TCTCGAAGGTATTTGATGAC
65 -CTCGAAGGTATTTGATGAC
* * * * * *
886119 AGATAGCTCTTCTCGCCTTGAGTTATACTGCAAATGATGTGCCTTTGAGCTGAATATAATCGAAC
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGACGTGCCTTGGAGCTGAATATAATCGAAC
* * *
886184 TTGAAGGTCTTTTATTGAC
66 TCGAAGGTATTTGA-TGAC
*** * *
886203 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGACGTGCCTTGGAGCTGAGCGTAGTCAAAC
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGACGTGCCTTGGAGCTGAATATAATCGAAC
* * *
886268 TCGAAGGTCTTTGGTTGGC
66 TCGAAGGTATTT-GATGAC
* * * * * * * * * *
886287 AGATAGCCCTTCTTGACTTAAGCTATACTACAAATGATGTGCCTTTGAGCTGAGTATAATCGAAC
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGACGTGCCTTGGAGCTGAATATAATCGAAC
* *
886352 TCGAAGGTCTTTTG-TTAGC
66 TCGAAGGT-ATTTGATGA-C
* * *
886371 AGATAACCCTTCTTGCCTTGAGCTAAGCTGCAAATGA
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGA
886408 GCACGATATC
Statistics
Matches: 304, Mismatches: 60, Indels: 17
0.80 0.16 0.04
Matches are distributed among these distances:
83 62 0.20
84 228 0.75
85 11 0.04
86 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (83 bp):
AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGACGTGCCTTGGAGCTGAATATAATCGAAC
TCGAAGGTATTTGATGAC
Found at i:886208 original size:168 final size:168
Alignment explanation
Indices: 885952--886407 Score: 569
Period size: 168 Copynumber: 2.7 Consensus size: 168
885942 TGATGTTGGT
* ** * * * * * *
885952 AGATAACCCTTCTAACCTTGAGTTATGCTGTAAAAGATGTGTCTTTAAGCTGAGTGTAA--GAAC
1 AGATAGCCCTTCTCGCCTTGAGTTATACTGCAAATGATGTGCCTTTGAGCTGAGTATAATCGAAC
* *
886015 TCAAAAGGTCTTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTTTGCTGCAAATGACGTGCCTT
66 T-AGAAGGTCTTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGACGTGCCTT
* *
886080 GGAGCTGAATGAAATCGAATCTCGAAGGTATTT-GATGAC
130 GGAGCTGAACGAAATC-AAACTCGAAGGTATTTGGATGAC
* *
886119 AGATAGCTCTTCTCGCCTTGAGTTATACTGCAAATGATGTGCCTTTGAGCTGAATATAATCGAAC
1 AGATAGCCCTTCTCGCCTTGAGTTATACTGCAAATGATGTGCCTTTGAGCTGAGTATAATCGAAC
* *
886184 TTGAAGGTCTTTTATTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGACGTGCCTTG
66 TAGAAGGTCTTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGACGTGCCTTG
* * * * * *
886249 GAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGC
131 GAGCTGAACGAAATCAAACTCGAAGGTATTTGGATGAC
* * * * *
886287 AGATAGCCCTTCTTGACTTAAGCTATACTACAAATGATGTGCCTTTGAGCTGAGTATAATCGAAC
1 AGATAGCCCTTCTCGCCTTGAGTTATACTGCAAATGATGTGCCTTTGAGCTGAGTATAATCGAAC
* * * *
886352 TCGAAGGTCTTTTGTT-AGCAGATAACCCTTCTTGCCTTGAGCTAAGCTGCAAATGA
66 TAGAAGGTCTTTTGTTGA-CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGA
886408 GCACGATATC
Statistics
Matches: 250, Mismatches: 35, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
167 63 0.25
168 182 0.73
169 5 0.02
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (168 bp):
AGATAGCCCTTCTCGCCTTGAGTTATACTGCAAATGATGTGCCTTTGAGCTGAGTATAATCGAAC
TAGAAGGTCTTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGACGTGCCTTG
GAGCTGAACGAAATCAAACTCGAAGGTATTTGGATGAC
Found at i:886391 original size:252 final size:251
Alignment explanation
Indices: 885952--886407 Score: 555
Period size: 252 Copynumber: 1.8 Consensus size: 251
885942 TGATGTTGGT
* * * *
885952 AGATAACCCTTCTAACCTTGAGTTATGCTGTAAAAGATGTGTCTTTAAGCTGAGTGTAAGAACTC
1 AGATAACCCTTCTAACCTTGAGTTATGCTGCAAAAGACGTGCCTTGAAGCTGAGTGTAAGAACTC
* * * * * * *
886017 AAAAGGTCTTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTTTGCTGCAAATGACGTGCCTTGG
66 AAAAGGTCTTTGGTTGACAGATAACCCTTCTAGACTTAAGCTATACTACAAATGACGTGCCTTGG
* * *
886082 AGCTGAATGAAATCGAATCTCGAAGGTATTTGATGACAGATAGCTCTTCTCGCCTTGAGTTATA-
131 AGCTGAATGAAATCGAATCTCGAAGGTATTTGATGACAGATAACCCTTCTCGCCTTGAGCTA-AG
886146 CTGCAAATGATGTGCCTTTGAGCTGAATATAATCGAACTTGAAGGTCTTTTATTGAC
195 CTGCAAATGATGTGCCTTTGAGCTGAATATAATCGAACTTGAAGGTCTTTTATTGAC
* * * *
886203 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGACGTGCCTTGGAGCTGAGCGT-AGTCAAA
1 AGATAACCCTTCTAACCTTGAGTTATGCTGCAAAAGACGTGCCTTGAAGCTGAGTGTAAG---AA
* * * * *
886267 CTC-GAAGGTCTTTGGTTGGCAGATAGCCCTTCTTGACTTAAGCTATACTACAAATGATGTGCCT
63 CTCAAAAGGTCTTTGGTTGACAGATAACCCTTCTAGACTTAAGCTATACTACAAATGACGTGCCT
* * * * *
886331 TTGAGCTGAGT-ATAATCGAA-CTCGAAGGTCTTTTG-TTAGCAGATAACCCTTCTTGCCTTGAG
128 TGGAGCTGAATGA-AATCGAATCTCGAAGGT-ATTTGATGA-CAGATAACCCTTCTCGCCTTGAG
886393 CTAAGCTGCAAATGA
190 CTAAGCTGCAAATGA
886408 GCACGATATC
Statistics
Matches: 170, Mismatches: 28, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
250 2 0.01
251 62 0.36
252 101 0.59
253 5 0.03
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (251 bp):
AGATAACCCTTCTAACCTTGAGTTATGCTGCAAAAGACGTGCCTTGAAGCTGAGTGTAAGAACTC
AAAAGGTCTTTGGTTGACAGATAACCCTTCTAGACTTAAGCTATACTACAAATGACGTGCCTTGG
AGCTGAATGAAATCGAATCTCGAAGGTATTTGATGACAGATAACCCTTCTCGCCTTGAGCTAAGC
TGCAAATGATGTGCCTTTGAGCTGAATATAATCGAACTTGAAGGTCTTTTATTGAC
Found at i:886623 original size:121 final size:121
Alignment explanation
Indices: 886409--886629 Score: 352
Period size: 121 Copynumber: 1.8 Consensus size: 121
886399 TGCAAATGAG
* * *
886409 CACGATATCCTTCGTCGTGAAGTTAAAATTGTGAATGACCCATTCATTGTGAAGTTGAGCCTCGA
1 CACGATATCCTTCGTCGTGAAGTTAAAATCGTGAATGACCCATTCATCGTGAAGTTGAACCTCGA
* *
886474 ATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTGATGCTGGTGGA
66 ATTGGATATCCTTCATCGAGAAGTTGAAATCCAAGGGTTGCATTGATGCTGGTGGA
* * * * *
886530 CACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACCCCTTCGTCGTGAAGTTGAACCTTGA
1 CACGATATCCTTCGTCGTGAAGTTAAAATCGTGAATGACCCATTCATCGTGAAGTTGAACCTCGA
886595 ATTGGATATCCTTCATCGAGAAGTTGAAATCCAAG
66 ATTGGATATCCTTCATCGAGAAGTTGAAATCCAAG
886630 TTAAGTTGCA
Statistics
Matches: 90, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
121 90 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.30
Consensus pattern (121 bp):
CACGATATCCTTCGTCGTGAAGTTAAAATCGTGAATGACCCATTCATCGTGAAGTTGAACCTCGA
ATTGGATATCCTTCATCGAGAAGTTGAAATCCAAGGGTTGCATTGATGCTGGTGGA
Found at i:886897 original size:43 final size:43
Alignment explanation
Indices: 886803--886905 Score: 145
Period size: 43 Copynumber: 2.4 Consensus size: 43
886793 TTCGTCATGA
* * *
886803 AGTTGAAACCGTGGATGTGTGGGCATGATATCCTCCGTCGTGG
1 AGTTGAAATCATGGATGTGTGGGCACGATATCCTCCGTCGTGG
*
886846 AGTTGAAATCATGGAT-TCGTGGGTACGATATCCTCCGTCGTGG
1 AGTTGAAATCATGGATGT-GTGGGCACGATATCCTCCGTCGTGG
*
886889 AGTTGAAATTATGGATG
1 AGTTGAAATCATGGATG
886906 GCCCATTCGT
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
42 1 0.02
43 52 0.98
ACGTcount: A:0.22, C:0.16, G:0.32, T:0.30
Consensus pattern (43 bp):
AGTTGAAATCATGGATGTGTGGGCACGATATCCTCCGTCGTGG
Found at i:887144 original size:332 final size:335
Alignment explanation
Indices: 886531--887237 Score: 944
Period size: 332 Copynumber: 2.1 Consensus size: 335
886521 GCTGGTGGAC
* * * *
886531 ACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACCCCTTCGTCGTGAAGTTGAACCTTGAA
1 ACGATATCCTCCGTCGTGGAGTTGAAATCATGGATGACCCATTCGTCGTGAAGTTGAACC-T-AA
* *
886596 TTGGATATCCTTCATCGAGAAGTTGAAATCCAAGTTAAGTTGCATTGTTTCGAGGCCAATATCCT
64 TTGAATATCCTTCATCGAGAAGTTAAAATCCAAGTT-AGTTG-ATTGTTTCGAGGCCAATATCCT
* *
886661 TCGTCGTGAAGTTGAAGTTGACTATGAAACTGGAAAGTTTATTGACAAACACTCCCTCTCTGAGT
127 TCGTCGTGAAGTTGAAATTGACTATGAAACTGGAAAGTTTATTGACAAACACTCACTCTCTGAGT
* * * *
886726 TGGATATCATTCGTCCTGAAGTTGAAATCCAACTTAGAGATAGATGATGCTTGTGTGTACGATTC
192 TGGATATCATTCGTCCTGAAATTGAAATCCAACTAAGAGATAGATGATGCTCGTGTATACGATTC
* * *
886791 CCTTCGTCATGAAGTTGAAACCGTGGATGTGTGGGCATGATATCCTCCGTCGTGGAGTTGAAATC
257 CCTTCGTCATGAAGTTGAAACCGTGAATGTATGGGCACGATATCCTCCGTCGTGGAGTTGAAATC
886856 ATGGAT-TCGTGGGT
322 ATGGATCT-GTGGGT
* * *
886870 ACGATATCCTCCGTCGTGGAGTTGAAATTATGGATGGCCCATTCGTCGTGAAGTTG-AGC-AACT
1 ACGATATCCTCCGTCGTGGAGTTGAAATCATGGATGACCCATTCGTCGTGAAGTTGAACCTAA-T
* *
886933 TGAATATCCTTCATC-ATGAAGTTAAAATCCAAGCTT-G-TG-TTGTTTCGAGTCTAATATCCTT
65 TGAATATCCTTCATCGA-GAAGTTAAAATCCAAG-TTAGTTGATTGTTTCGAGGCCAATATCCTT
* * * * * *
886994 CTTCGTGAAGTTGAAATTGGCTCTGAAACTGGAAAGTTTATTGACAGACACTCATTCTTTGAGTT
128 CGTCGTGAAGTTGAAATTGACTATGAAACTGGAAAGTTTATTGACAAACACTCACTCTCTGAGTT
* * * *
887059 GGATATCCTTCGTCGTGAAATTGAAATCCAA-TCAAGAGATGGATGTTGCTCGTGTATACGATTC
193 GGATATCATTCGTCCTGAAATTGAAATCCAACT-AAGAGATAGATGATGCTCGTGTATACGATTC
** *
887123 CCTTCGTTGTGAAGTTGAAACCGTGAATGTATGGGCACGATATCCTCCGTTGTGGAGTTGAAATC
257 CCTTCGTCATGAAGTTGAAACCGTGAATGTATGGGCACGATATCCTCCGTCGTGGAGTTGAAATC
* *
887188 GTGGATCTGTTGGT
322 ATGGATCTGTGGGT
* *
887202 ACGATATCCTCCGTCGTGGAGTTAAAATCGTGGATG
1 ACGATATCCTCCGTCGTGGAGTTGAAATCATGGATG
887238 TGTGGGTACG
Statistics
Matches: 325, Mismatches: 38, Indels: 17
0.86 0.10 0.04
Matches are distributed among these distances:
331 1 0.00
332 233 0.72
333 1 0.00
334 2 0.01
335 4 0.01
336 30 0.09
337 2 0.01
338 2 0.01
339 50 0.15
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (335 bp):
ACGATATCCTCCGTCGTGGAGTTGAAATCATGGATGACCCATTCGTCGTGAAGTTGAACCTAATT
GAATATCCTTCATCGAGAAGTTAAAATCCAAGTTAGTTGATTGTTTCGAGGCCAATATCCTTCGT
CGTGAAGTTGAAATTGACTATGAAACTGGAAAGTTTATTGACAAACACTCACTCTCTGAGTTGGA
TATCATTCGTCCTGAAATTGAAATCCAACTAAGAGATAGATGATGCTCGTGTATACGATTCCCTT
CGTCATGAAGTTGAAACCGTGAATGTATGGGCACGATATCCTCCGTCGTGGAGTTGAAATCATGG
ATCTGTGGGT
Found at i:887174 original size:43 final size:43
Alignment explanation
Indices: 887135--887274 Score: 208
Period size: 43 Copynumber: 3.3 Consensus size: 43
887125 TTCGTTGTGA
* * * * *
887135 AGTTGAAACCGTGAATGTATGGGCACGATATCCTCCGTTGTGG
1 AGTTGAAATCGTGGATGTGTGGGTACGATATCCTCCGTCGTGG
* *
887178 AGTTGAAATCGTGGATCTGTTGGTACGATATCCTCCGTCGTGG
1 AGTTGAAATCGTGGATGTGTGGGTACGATATCCTCCGTCGTGG
*
887221 AGTTAAAATCGTGGATGTGTGGGTACGATATCCTCCGTCGTGG
1 AGTTGAAATCGTGGATGTGTGGGTACGATATCCTCCGTCGTGG
887264 AGTTGAAATCG
1 AGTTGAAATCG
887275 CAGATGGCCC
Statistics
Matches: 86, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 86 1.00
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (43 bp):
AGTTGAAATCGTGGATGTGTGGGTACGATATCCTCCGTCGTGG
Found at i:887601 original size:63 final size:63
Alignment explanation
Indices: 887451--887573 Score: 160
Period size: 64 Copynumber: 1.9 Consensus size: 63
887441 ATTGTGAGCT
* * *
887451 CAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAATTGCTTGTTGAGTA
1 CAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAAATGGAAAATTGCTTATTGAG-A
* *
887515 CAATATCCTTCGGC-GTGAAGTTGAAATTGACTCTGAAT-AAAATTGAAAAGTTGTTTATT
1 CAATATCCTTC-GCTGTGAAGTTGAAATTGACTCTGAATGAAAATGGAAAA-TTGCTTATT
887574 AACATGCGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
63 9 0.17
64 42 0.81
65 1 0.02
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (63 bp):
CAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAAATGGAAAATTGCTTATTGAGA
Found at i:887904 original size:32 final size:32
Alignment explanation
Indices: 887836--887920 Score: 80
Period size: 32 Copynumber: 2.7 Consensus size: 32
887826 ATCAGGATGT
* * * *
887836 TGAATCCCCAAATATGCCACAATATTCAATAT
1 TGAATCTCCAAATATGCCCCAACATTCAATAC
* * *
887868 TGAATCTCCAAATATGCCCCAACATTTACTGC
1 TGAATCTCCAAATATGCCCCAACATTCAATAC
** *
887900 TGAATCTTTAAAGATGCCCCA
1 TGAATCTCCAAATATGCCCCA
887921 TTGTTACTCA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.35, C:0.27, G:0.09, T:0.28
Consensus pattern (32 bp):
TGAATCTCCAAATATGCCCCAACATTCAATAC
Found at i:889137 original size:2 final size:2
Alignment explanation
Indices: 889130--889169 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
889120 ACAACAAAGG
*
889130 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
889170 GGATAAATGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:893701 original size:14 final size:15
Alignment explanation
Indices: 893681--893714 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
893671 CATTAAAAAT
893681 TAAAAATATTTTTCG
1 TAAAAATATTTTTCG
893696 -AAAAATATTTTTCG
1 TAAAAATATTTTTCG
893710 TAAAA
1 TAAAA
893715 CAAATAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (15 bp):
TAAAAATATTTTTCG
Found at i:896540 original size:2 final size:2
Alignment explanation
Indices: 896533--896616 Score: 168
Period size: 2 Copynumber: 42.0 Consensus size: 2
896523 CTCCATTTCC
896533 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
896575 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
896617 GTTTCTTTTT
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 82 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:897635 original size:29 final size:29
Alignment explanation
Indices: 897603--897669 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
897593 GATATGATAT
* * *
897603 CATGTAGAAACAGGATGGAGATATAATCC
1 CATGCAGAAACAAGACGGAGATATAATCC
* * *
897632 CATGCAGAATCAAGACGGGGATTTAATCC
1 CATGCAGAAACAAGACGGAGATATAATCC
*
897661 CATGGAGAA
1 CATGCAGAA
897670 TAAAAAATGC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.19
Consensus pattern (29 bp):
CATGCAGAAACAAGACGGAGATATAATCC
Found at i:897737 original size:2 final size:2
Alignment explanation
Indices: 897730--897759 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
897720 ATCAAACATG
*
897730 TC TC TC TC TC GC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
897760 ACACACACGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.03, T:0.47
Consensus pattern (2 bp):
TC
Found at i:897772 original size:6 final size:6
Alignment explanation
Indices: 897763--897797 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
897753 CTCTCTCACA
**
897763 CACACG CACACG CTGACG CACACG CACACG CACAC
1 CACACG CACACG CACACG CACACG CACACG CACAC
897798 CCGCACCTAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.31, C:0.49, G:0.17, T:0.03
Consensus pattern (6 bp):
CACACG
Found at i:897825 original size:16 final size:16
Alignment explanation
Indices: 897781--897841 Score: 59
Period size: 16 Copynumber: 3.7 Consensus size: 16
897771 CACGCTGACG
*
897781 CACACGCACACGCACACC
1 CACACCCACAC-C-CACC
* * *
897799 CGCACCTACACCCACT
1 CACACCCACACCCACC
897815 CACACCCACACCCACC
1 CACACCCACACCCACC
*
897831 CACACACACAC
1 CACACCCACAC
897842 ACATATAAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
16 26 0.74
17 1 0.03
18 8 0.23
ACGTcount: A:0.33, C:0.59, G:0.05, T:0.03
Consensus pattern (16 bp):
CACACCCACACCCACC
Found at i:897840 original size:22 final size:23
Alignment explanation
Indices: 897781--897841 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
897771 CACGCTGACG
* *
897781 CACACGCACACGCACACCCGCACC
1 CACAC-CACACACACACCCACACC
* *
897805 TACACC-CACTCACACCCACACC
1 CACACCACACACACACCCACACC
897827 CAC-CCACACACACAC
1 CACACCACACACACAC
897842 ACATATAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
21 2 0.06
22 24 0.77
23 1 0.03
24 4 0.13
ACGTcount: A:0.33, C:0.59, G:0.05, T:0.03
Consensus pattern (23 bp):
CACACCACACACACACCCACACC
Found at i:898179 original size:21 final size:21
Alignment explanation
Indices: 898150--898189 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
898140 TACTACAGGG
898150 GTATCGATACCCTGCTACAGT
1 GTATCGATACCCTGCTACAGT
* *
898171 GTATTGATACCTTGCTACA
1 GTATCGATACCCTGCTACA
898190 ATAATTTCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (21 bp):
GTATCGATACCCTGCTACAGT
Found at i:898905 original size:31 final size:31
Alignment explanation
Indices: 898867--899059 Score: 235
Period size: 31 Copynumber: 6.3 Consensus size: 31
898857 CCCGGAGGAC
* *
898867 CAGTCCATAGGTCCCGAAGAACCTAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
898898 CAGTCCATATGTCCCGAAGAACATAGTTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
* *
898929 CAATCCATATGTCCCGAAGAGCATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
* *
898960 CAGTCCATATGTCCCGAAGAGCATAGGTAAT
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
* *
898991 CAGT-CATATGTCTCGAAGAACATAGGTAAT
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
* * * * * * *
899021 TAGTTCATATGTTCCTAAGAACAAAAGTAAT
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
899052 CAGTCCAT
1 CAGTCCAT
899060 TTTGTAATTT
Statistics
Matches: 143, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
30 27 0.19
31 116 0.81
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:899899 original size:31 final size:31
Alignment explanation
Indices: 899864--899923 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
899854 TTGGTTCCTG
* *
899864 AACTTTTCAAAAGT-TTATAATTTGGTCACCA
1 AACTTTACAAAA-TCTTATAATTTGATCACCA
899895 AACTTTACAAAATCTTATAATTTGATCAC
1 AACTTTACAAAATCTTATAATTTGATCAC
899924 TAAATTAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 1 0.04
31 25 0.96
ACGTcount: A:0.38, C:0.17, G:0.07, T:0.38
Consensus pattern (31 bp):
AACTTTACAAAATCTTATAATTTGATCACCA
Found at i:908612 original size:40 final size:39
Alignment explanation
Indices: 908554--908640 Score: 120
Period size: 40 Copynumber: 2.2 Consensus size: 39
908544 GCATATCGAT
* * * *
908554 TAAGCACTTCGTTGCATATGGTGGGTACGACCTTATGTG
1 TAAGCACTTCGGTACATATGGTGGGCACGAACTTATGTG
*
908593 TAATGCACTTCGGTACATATGGTGGGCACGAATTTATGTG
1 TAA-GCACTTCGGTACATATGGTGGGCACGAACTTATGTG
908633 TAAGCACT
1 TAAGCACT
908641 ACAGTGCATA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
39 8 0.19
40 34 0.81
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.32
Consensus pattern (39 bp):
TAAGCACTTCGGTACATATGGTGGGCACGAACTTATGTG
Found at i:908651 original size:39 final size:40
Alignment explanation
Indices: 908566--908651 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 40
908556 AGCACTTCGT
* * * *
908566 TGCATATGGTGGGTACGACCTTATGTGTAATGCACTTCGG
1 TGCATATGGTGGGCACGAACTTATGTGTAATGCACTACAG
* *
908606 TACATATGGTGGGCACGAATTTATGTGTAA-GCACTACAG
1 TGCATATGGTGGGCACGAACTTATGTGTAATGCACTACAG
908645 TGCATAT
1 TGCATAT
908652 ATTTGACTCG
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 13 0.33
40 26 0.67
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (40 bp):
TGCATATGGTGGGCACGAACTTATGTGTAATGCACTACAG
Found at i:914819 original size:29 final size:28
Alignment explanation
Indices: 914787--914862 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 28
914777 ATGTAAAAAT
*
914787 AGGACGAAGATATAATCCAATGCAGAATA
1 AGGACGAGGATATAATCC-ATGCAGAATA
* * * *
914816 AGGACGGGGATGTAATCTCATTCAGAATT
1 AGGACGAGGATATAATC-CATGCAGAATA
*
914845 AGGACGAGGATTTAATCC
1 AGGACGAGGATATAATCC
914863 CATGAAAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
28 1 0.03
29 37 0.95
30 1 0.03
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.22
Consensus pattern (28 bp):
AGGACGAGGATATAATCCATGCAGAATA
Found at i:916581 original size:30 final size:30
Alignment explanation
Indices: 916492--916583 Score: 139
Period size: 30 Copynumber: 3.0 Consensus size: 30
916482 ACTTAAAGAA
916492 TTTTTTGGTCAAAATAAACACCTAAAGTTAT
1 TTTTTTGGTCAAAATAAACACCTAAAG-TAT
* *
916523 TTTTTTGGTCAAAATATACACGTAAAGTAT
1 TTTTTTGGTCAAAATAAACACCTAAAGTAT
* *
916553 TTTTTTGGTCAAAATAGATACCTAAAGTAT
1 TTTTTTGGTCAAAATAAACACCTAAAGTAT
916583 T
1 T
916584 CAATTTTTTC
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
30 31 0.55
31 25 0.45
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.40
Consensus pattern (30 bp):
TTTTTTGGTCAAAATAAACACCTAAAGTAT
Found at i:916722 original size:28 final size:28
Alignment explanation
Indices: 916665--916721 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
916655 AAATTTTTTG
*
916665 AATAATTTAGGTACCTATTTTGACATAA
1 AATAATTTAGGTACCTATTTTAACATAA
* **
916693 AATATTTTAGGTATTTATTTTAAC-TAA
1 AATAATTTAGGTACCTATTTTAACATAA
916720 AA
1 AA
916722 AGATAAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 5 0.20
28 20 0.80
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (28 bp):
AATAATTTAGGTACCTATTTTAACATAA
Found at i:917342 original size:23 final size:25
Alignment explanation
Indices: 917316--917362 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
917306 CCTTTTAACC
917316 ATAAA-AAA-ATAAAAAAAAATATT
1 ATAAATAAATATAAAAAAAAATATT
* *
917339 ATAAATAAATTTAAAATAAAATAT
1 ATAAATAAATATAAAAAAAAATAT
917363 CATTATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 3 0.15
25 12 0.60
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (25 bp):
ATAAATAAATATAAAAAAAAATATT
Found at i:917359 original size:29 final size:31
Alignment explanation
Indices: 917286--917359 Score: 77
Period size: 29 Copynumber: 2.5 Consensus size: 31
917276 CACTCATTTA
* *
917286 AAATTTAAAATAAAAAAAATCCTTTTAACCAT
1 AAATTTAAAATAAAAAAAATCATTATAA-CAT
917318 AAA---AAAATAAAAAAAAAT-ATTATAA-AT
1 AAATTTAAAAT-AAAAAAAATCATTATAACAT
917345 AAATTTAAAATAAAA
1 AAATTTAAAATAAAA
917360 TATCATTATA
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
27 5 0.14
29 14 0.39
30 14 0.39
32 3 0.08
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (31 bp):
AAATTTAAAATAAAAAAAATCATTATAACAT
Found at i:920352 original size:24 final size:24
Alignment explanation
Indices: 920320--920367 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
920310 TCTATTCATT
*
920320 TGTAACAAAGCCACCCAAAACCAA
1 TGTAACAAAACCACCCAAAACCAA
920344 TGTAACAAAACCACCCAAAACCAA
1 TGTAACAAAACCACCCAAAACCAA
920368 AGCTGTCTAC
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:0.52, C:0.33, G:0.06, T:0.08
Consensus pattern (24 bp):
TGTAACAAAACCACCCAAAACCAA
Found at i:921229 original size:12 final size:12
Alignment explanation
Indices: 921214--921304 Score: 59
Period size: 12 Copynumber: 7.8 Consensus size: 12
921204 AAATATATGC
921214 TATAATATTATA
1 TATAATATTATA
* *
921226 TAT-ATATGATT
1 TATAATATTATA
* * *
921237 TTTAAAATAATA
1 TATAATATTATA
921249 TAT-ATATT-T-
1 TATAATATTATA
921258 TATAATA-TATA
1 TATAATATTATA
921269 CTATAATA-TATA
1 -TATAATATTATA
921281 TATATATATATATA
1 TATA-ATAT-TATA
921295 TATATATATT
1 TATA-ATATT
921305 CAAAAACTAT
Statistics
Matches: 62, Mismatches: 9, Indels: 15
0.72 0.10 0.17
Matches are distributed among these distances:
9 4 0.06
10 5 0.08
11 15 0.24
12 24 0.39
13 1 0.02
14 13 0.21
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (12 bp):
TATAATATTATA
Found at i:921249 original size:19 final size:18
Alignment explanation
Indices: 921193--921293 Score: 62
Period size: 19 Copynumber: 5.3 Consensus size: 18
921183 AATAATAATA
921193 ATATATTATTAAAATATAT
1 ATATATT-TTAAAATATAT
* * *
921212 GCTATAATATT-ATATATAT
1 -ATAT-ATTTTAAAATATAT
921231 ATGAT-TTTTAAAATAATAT
1 AT-ATATTTTAAAAT-ATAT
*
921250 ATATATTTTATAATATAT
1 ATATATTTTAAAATATAT
* * *
921268 ACTATAATATATATATATAT
1 A-TATATTTTA-AAATATAT
921288 ATATAT
1 ATATAT
921294 ATATATATAT
Statistics
Matches: 62, Mismatches: 12, Indels: 15
0.70 0.13 0.17
Matches are distributed among these distances:
17 3 0.05
18 11 0.18
19 34 0.55
20 12 0.19
21 2 0.03
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (18 bp):
ATATATTTTAAAATATAT
Found at i:921251 original size:2 final size:2
Alignment explanation
Indices: 921246--921303 Score: 77
Period size: 2 Copynumber: 30.0 Consensus size: 2
921236 TTTTAAAATA
*
921246 AT AT AT AT AT -T TT AT A- AT AT AT ACT AT A- AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT
921286 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
921304 TCAAAAACTA
Statistics
Matches: 51, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
1 3 0.06
2 46 0.90
3 2 0.04
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:921266 original size:37 final size:37
Alignment explanation
Indices: 921187--921304 Score: 94
Period size: 36 Copynumber: 3.4 Consensus size: 37
921177 GAAAATAATA
*
921187 ATAATA-ATATATTATTAAAATATATGCTATAATATT
1 ATAATATATATATTATTAAAATATATGATATAATATT
*
921223 AT-ATATATATGATTTTTAAAATA-AT-ATAT-ATATT
1 ATAATATATAT-ATTATTAAAATATATGATATAATATT
* * *
921257 -TTATA-ATATA-TACTATAATATAT-ATAT-ATATAT
1 ATAATATATATATTATTAAAATATATGATATAATAT-T
921290 ATATATATATATATT
1 ATA-ATATATATATT
921305 CAAAAACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 17
0.74 0.07 0.19
Matches are distributed among these distances:
31 7 0.10
32 11 0.16
33 6 0.09
34 9 0.13
35 9 0.13
36 13 0.19
37 12 0.18
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (37 bp):
ATAATATATATATTATTAAAATATATGATATAATATT
Found at i:921274 original size:28 final size:29
Alignment explanation
Indices: 921187--921302 Score: 107
Period size: 28 Copynumber: 4.1 Consensus size: 29
921177 GAAAATAATA
* *
921187 ATAATA-ATATAT-TATTAAAATATATGCT
1 ATAATATATATATATA-TATAATATATACT
* * * **
921215 ATAATAT-TATATATATATGATTTTTAAA
1 ATAATATATATATATATATAATATATACT
*
921243 ATAATATATATAT-TTTATAATATATACT
1 ATAATATATATATATATATAATATATACT
921271 ATAATATATATATATATATATATATATA-T
1 ATAATATATATATATATATA-ATATATACT
921300 ATA
1 ATA
921303 TTCAAAAACT
Statistics
Matches: 69, Mismatches: 14, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
28 46 0.67
29 16 0.23
30 7 0.10
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (29 bp):
ATAATATATATATATATATAATATATACT
Found at i:921322 original size:65 final size:69
Alignment explanation
Indices: 921190--921339 Score: 168
Period size: 65 Copynumber: 2.2 Consensus size: 69
921180 AATAATAATA
* * * *
921190 ATAATATATTATTAAAATATATGCTATAATATTATATATATATGATTTTTAAAATAATATATATA
1 ATAATATA-TACTAAAATATATGATATAATATTATATATATATGATATTCAAAATAATATATATA
921255 TTTT-
65 TTTTC
* * *
921259 ATAATATATACTATAATATAT-ATAT-ATATATATATATATAT-ATATTCAAAA-ACTATATGTA
1 ATAATATATACTAAAATATATGATATAATAT-TATATATATATGATATTCAAAATAATATATATA
921320 TTTTC
65 TTTTC
*
921325 A-AATATATATTAAAA
1 ATAATATATACTAAAA
921340 CTTAAAATAA
Statistics
Matches: 70, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
65 24 0.34
66 13 0.19
67 14 0.20
68 11 0.16
69 8 0.11
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (69 bp):
ATAATATATACTAAAATATATGATATAATATTATATATATATGATATTCAAAATAATATATATAT
TTTC
Found at i:923536 original size:43 final size:43
Alignment explanation
Indices: 923442--923539 Score: 135
Period size: 43 Copynumber: 2.3 Consensus size: 43
923432 TTGTGAACAA
* * * *
923442 AAACGTCGCAAAAGGTCAAGATTTGTAGCAGCATTTTTGAAAC
1 AAACGTCGTAAAAAGTCAAGATTTATAGCAGCATTTTGGAAAC
*
923485 AAACGTCGTAAAAAGTCAAG-TTCTATAGCGGCATTTTGGAAAC
1 AAACGTCGTAAAAAGTCAAGATT-TATAGCAGCATTTTGGAAAC
923528 AAACGTCGTAAA
1 AAACGTCGTAAA
923540 CCTATATGTA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
42 2 0.04
43 47 0.96
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.24
Consensus pattern (43 bp):
AAACGTCGTAAAAAGTCAAGATTTATAGCAGCATTTTGGAAAC
Found at i:925187 original size:21 final size:21
Alignment explanation
Indices: 925153--925201 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
925143 CAGGTCTTAT
*
925153 AGGGAAGATCTTGGTGGAGTGC
1 AGGG-AGATCTTGGAGGAGTGC
* *
925175 AGGGAGATGTTGGAGGAGTGT
1 AGGGAGATCTTGGAGGAGTGC
925196 AGGGAG
1 AGGGAG
925202 TTGAGGTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.24, C:0.04, G:0.51, T:0.20
Consensus pattern (21 bp):
AGGGAGATCTTGGAGGAGTGC
Found at i:928596 original size:228 final size:230
Alignment explanation
Indices: 928241--928698 Score: 902
Period size: 228 Copynumber: 2.0 Consensus size: 230
928231 GAATTGTTAT
928241 TCTGCAACACTTGAATCTCTGGTAACATCATTTGCTCTAATTATGAAATTCTTTCCTCTGTTTTA
1 TCTGCAACACTTGAATCTCTGGTAACATCATTTGCTCTAATTATGAAATTCTTTCCTCTGTTTTA
928306 CAAAACTAAAAAATTGATTGCTTAAAATGTCAAAATTTTGATCTCATGCTTTACAAAATCTTAAG
66 CAAAACTAAAAAATTGATTGCTTAAAATGTCAAAATTTTGATCTCATGCTTTACAAAATCTTAAG
928371 AGCAAGTCTAATCA-TGATAAATACACGAATTTGAAGTACTAAATTTTGCTAGTTCCTTGAAAAA
131 AGCAAGTCTAATCATTGATAAATACACGAATTTGAAGTACTAAATTTTGCTAGTTCCTTGAAAAA
928435 -TGAACTATTGAAACAATAGTTTTATAGTAAGAAA
196 TTGAACTATTGAAACAATAGTTTTATAGTAAGAAA
928469 TCTGCAACACTTGAATCTCTGGTAACATCATTTGCTCTAATTATGAAATTCTTTCCTCTGTTTTA
1 TCTGCAACACTTGAATCTCTGGTAACATCATTTGCTCTAATTATGAAATTCTTTCCTCTGTTTTA
928534 CAAAACTAAAAAATTGATTGCTTAAAATGTCAAAATTTTGATCTCATGCTTTACAAAATCTTAAG
66 CAAAACTAAAAAATTGATTGCTTAAAATGTCAAAATTTTGATCTCATGCTTTACAAAATCTTAAG
928599 AGCAAGTCTAATCATTGATAAATACACGAATTTGAAGTACTAAATTTTGCTAGTTCCTTGAAAAA
131 AGCAAGTCTAATCATTGATAAATACACGAATTTGAAGTACTAAATTTTGCTAGTTCCTTGAAAAA
928664 TTGAACTATTGAAACAATAGTTTTATAGTAAGAAA
196 TTGAACTATTGAAACAATAGTTTTATAGTAAGAAA
928699 AAAATTTGAA
Statistics
Matches: 228, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
228 144 0.63
229 50 0.22
230 34 0.15
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.36
Consensus pattern (230 bp):
TCTGCAACACTTGAATCTCTGGTAACATCATTTGCTCTAATTATGAAATTCTTTCCTCTGTTTTA
CAAAACTAAAAAATTGATTGCTTAAAATGTCAAAATTTTGATCTCATGCTTTACAAAATCTTAAG
AGCAAGTCTAATCATTGATAAATACACGAATTTGAAGTACTAAATTTTGCTAGTTCCTTGAAAAA
TTGAACTATTGAAACAATAGTTTTATAGTAAGAAA
Found at i:931846 original size:21 final size:21
Alignment explanation
Indices: 931806--931846 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
931796 TACCTATGAC
* *
931806 CATTTAATTATTGTTTATTTT
1 CATTTAATTATTGATCATTTT
*
931827 CATTTGATTATTGATCATTT
1 CATTTAATTATTGATCATTT
931847 ATTTTTTCAG
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:0.24, C:0.07, G:0.07, T:0.61
Consensus pattern (21 bp):
CATTTAATTATTGATCATTTT
Found at i:933785 original size:108 final size:109
Alignment explanation
Indices: 933556--933785 Score: 256
Period size: 108 Copynumber: 2.1 Consensus size: 109
933546 TTTTGCAAAA
* * *
933556 TAGTCATGTATGGGGACTGTTTTCATAATTTACCCATTTCTATTTATACTATGTAATTTTTGGTT
1 TAGTCATGTGTAGGGACTGTTTTCATAATTTACCCATTTCTATGTATACTATGTAATTTTTGGTT
* * *
933621 TATTTGTTGTTTGATCCCCCTAGTTTAGTCGTGTTTTTGCATGT
66 TATTTGTCGTTTGATCCCCATAGTTTAGTCGTGTTTTTACATGT
** * * * *
933665 TAGTCACATGTAGGGACTGTTTT-GTAATTTACCCACTTT-TATGTATATTATTTATTTTTTGGT
1 TAGTCATGTGTAGGGACTGTTTTCATAATTTACCCA-TTTCTATGTATACTATGTAATTTTTGGT
*
933728 TTAATTT-TCGTTT-AGTCCCTATATGTTTAGT-GTGTTTTTACA-GTT
65 TT-ATTTGTCGTTTGA-TCCCCATA-GTTTAGTCGTGTTTTTACATG-T
933773 TAGTCATGTGTAG
1 TAGTCATGTGTAG
933786 TGTTTGTTTT
Statistics
Matches: 101, Mismatches: 15, Indels: 11
0.80 0.12 0.09
Matches are distributed among these distances:
107 2 0.02
108 66 0.65
109 33 0.33
ACGTcount: A:0.20, C:0.12, G:0.17, T:0.51
Consensus pattern (109 bp):
TAGTCATGTGTAGGGACTGTTTTCATAATTTACCCATTTCTATGTATACTATGTAATTTTTGGTT
TATTTGTCGTTTGATCCCCATAGTTTAGTCGTGTTTTTACATGT
Found at i:936775 original size:3 final size:3
Alignment explanation
Indices: 936769--936817 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
936759 TCATGTTTAA
*
936769 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
936817 T
1 T
936818 TTCATGTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:939154 original size:131 final size:131
Alignment explanation
Indices: 938855--939192 Score: 392
Period size: 131 Copynumber: 2.6 Consensus size: 131
938845 GTTTCAGTCA
* * * *
938855 GAGTAATAAATGGTTGTTTTAAGGCATGAGAGGTCATTTATTATTGATTGGAAATAATTCGATAT
1 GAGTAATAAATGGTTG-TTTAAGGTATGAGAGGTCATTTATTCTCGATTGGAAATAATTAGATAT
** * ** ** ** *
938920 TATT-GTTTTTTCTTGAATCAATATTGTTTTTTTAAGATGGAATTGTGATATCTCTTCATTTCGA
65 T-TTCGTTTTCCCTCGAATCAATATTGTAATTTTAAGACAGAATAATGATATCTCTTCATTTCAA
938984 TTG
129 TTG
* * * * * *
938987 GAGCAATAAATGATTGCTTTAAGGTATGAGAAGTCATTTATTCTCAATTGGTAATTATTAGATAT
1 GAGTAATAAATGGTTG-TTTAAGGTATGAGAGGTCATTTATTCTCGATTGGAAATAATTAGATAT
*
939052 TTTCGTTTTCCCTCGAATCAATATTG-AATTTTAAGACAGAATAATGATATCTCTTTATTTCAAT
65 TTTCGTTTTCCCTCGAATCAATATTGTAATTTTAAGACAGAATAATGATATCTCTTCATTTCAAT
939116 TG
130 TG
* * *
939118 GGGTAATAAATGGTTGTTTAAAGTTACGAGAGGTCATTTATTCTCGATTGGAAATAATTAGATAT
1 GAGTAATAAATGGTTGTTT-AAGGTATGAGAGGTCATTTATTCTCGATTGGAAATAATTAGATAT
**
939183 CATCGTTTTC
65 TTTCGTTTTC
939193 TCTCTTAAAT
Statistics
Matches: 171, Mismatches: 33, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
130 3 0.02
131 94 0.55
132 74 0.43
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.43
Consensus pattern (131 bp):
GAGTAATAAATGGTTGTTTAAGGTATGAGAGGTCATTTATTCTCGATTGGAAATAATTAGATATT
TTCGTTTTCCCTCGAATCAATATTGTAATTTTAAGACAGAATAATGATATCTCTTCATTTCAATT
G
Found at i:939884 original size:22 final size:22
Alignment explanation
Indices: 939848--939892 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
939838 ATAGACATAA
*
939848 TAAAATCACAATTTTTTTAGAAT
1 TAAAATCACAATTTTCTTA-AAT
*
939871 TAAAAT-ATAATTTTCTTAAAT
1 TAAAATCACAATTTTCTTAAAT
939892 T
1 T
939893 TTCTTATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.20
22 10 0.50
23 6 0.30
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (22 bp):
TAAAATCACAATTTTCTTAAAT
Found at i:942049 original size:29 final size:30
Alignment explanation
Indices: 942000--942068 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 30
941990 TATTCTAAAA
*
942000 AAATATTTA--TAATATTATGAAAATATTTT
1 AAATATTTATTTAATATTATGAAAA-ATCTT
942029 AAATATTTATTTAAT-TT-TGAAAAATCTT
1 AAATATTTATTTAATATTATGAAAAATCTT
*
942057 -ATTATTTATTTA
1 AAATATTTATTTA
942069 TTGGAAATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
27 11 0.31
28 4 0.11
29 15 0.42
30 2 0.06
31 4 0.11
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.52
Consensus pattern (30 bp):
AAATATTTATTTAATATTATGAAAAATCTT
Found at i:942063 original size:23 final size:25
Alignment explanation
Indices: 942035--942113 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 25
942025 TTTTAAATAT
*
942035 TTATTTAATTTTGAAA-AATCTT-A
1 TTATTTAATTTTGAAATAATATTAA
*
942058 TTATTTATTTATTGGAAATAATATTAA
1 TTATTTAATT-TT-GAAATAATATTAA
*
942085 TTATTT-A-TTTGAAATACTATT-A
1 TTATTTAATTTTGAAATAATATTAA
942107 TT-TTTAA
1 TTATTTAA
942114 ATTATCTATT
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
21 3 0.06
22 4 0.09
23 19 0.40
24 4 0.09
25 5 0.11
26 5 0.11
27 7 0.15
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (25 bp):
TTATTTAATTTTGAAATAATATTAA
Found at i:942067 original size:27 final size:27
Alignment explanation
Indices: 942027--942094 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 27
942017 TGAAAATATT
* * *
942027 TTAAATATTTATTTAATTTTGAAA-AATC
1 TTAATTATTTATTT-A-TTGGAAATAATA
942055 TT-ATTATTTATTTATTGGAAATAATA
1 TTAATTATTTATTTATTGGAAATAATA
942081 TTAATTATTTATTT
1 TTAATTATTTATTT
942095 GAAATACTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
25 6 0.17
26 6 0.17
27 21 0.60
28 2 0.06
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.56
Consensus pattern (27 bp):
TTAATTATTTATTTATTGGAAATAATA
Found at i:942291 original size:11 final size:11
Alignment explanation
Indices: 942275--942332 Score: 55
Period size: 11 Copynumber: 5.2 Consensus size: 11
942265 AAAATAAATA
942275 AATATTTTTAT
1 AATATTTTTAT
**
942286 AATATTATAAAT
1 AATATT-TTTAT
*
942298 ATTATTTTTAT
1 AATATTTTTAT
*
942309 AATATTTTCAT
1 AATATTTTTAT
942320 -ATAATTTTTAT
1 AAT-ATTTTTAT
942331 AA
1 AA
942333 AAATATATAA
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
10 2 0.06
11 25 0.69
12 9 0.25
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (11 bp):
AATATTTTTAT
Found at i:942307 original size:23 final size:23
Alignment explanation
Indices: 942268--942351 Score: 82
Period size: 23 Copynumber: 3.7 Consensus size: 23
942258 ATTTCAAAAA
*
942268 ATAAATAAATATTTTTATAATATT
1 ATAAAT-ATTATTTTTATAATATT
942292 ATAAATATTATTTTTATAATATT
1 ATAAATATTATTTTTATAATATT
** * * *
942315 -TTCATATAATTTTTATAAAAAT
1 ATAAATATTATTTTTATAATATT
942337 ATATAA-ATTATTTTT
1 ATA-AATATTATTTTT
942352 TTTATTTTTT
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
22 17 0.35
23 25 0.51
24 7 0.14
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (23 bp):
ATAAATATTATTTTTATAATATT
Found at i:943244 original size:84 final size:85
Alignment explanation
Indices: 943103--943272 Score: 288
Period size: 84 Copynumber: 2.0 Consensus size: 85
943093 GTTATTATTA
*
943103 AATGATGGTTTATGTGGATTTTTAATAAATTGAGAAGATTGATTTATCTACTATCATTATTCTAA
1 AATGATGGTTTATGTGGATTTTTAATAAATTGAGAAGATTAATTTATCTACTATCATTATTCTAA
943168 AATGAAACT-ATATATATAT
66 AATGAAACTAATATATATAT
* * *
943187 AATGATGGTTTATTTGGATTTTTAATACATTGAGAATATTAATTTATCTACTATCATTATTCTAA
1 AATGATGGTTTATGTGGATTTTTAATAAATTGAGAAGATTAATTTATCTACTATCATTATTCTAA
*
943252 AATGACACTAATATATATAT
66 AATGAAACTAATATATATAT
943272 A
1 A
943273 TATATGTGTG
Statistics
Matches: 80, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
84 69 0.86
85 11 0.14
ACGTcount: A:0.38, C:0.07, G:0.11, T:0.44
Consensus pattern (85 bp):
AATGATGGTTTATGTGGATTTTTAATAAATTGAGAAGATTAATTTATCTACTATCATTATTCTAA
AATGAAACTAATATATATAT
Found at i:944870 original size:20 final size:20
Alignment explanation
Indices: 944845--944886 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
944835 GTCAAATTAT
* *
944845 AAGTTTTTGAAATTTATAGG
1 AAGTTTTAGAAAATTATAGG
*
944865 AAGTTTTAGAAAATTGTAGG
1 AAGTTTTAGAAAATTATAGG
944885 AA
1 AA
944887 ATTCGGGGAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.21, T:0.38
Consensus pattern (20 bp):
AAGTTTTAGAAAATTATAGG
Found at i:945785 original size:18 final size:19
Alignment explanation
Indices: 945762--945805 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
945752 CCAGTAATCC
*
945762 TATTCC-CTGGTAATCTTT
1 TATTCCACTGGTAATCTTA
945780 TATTCCCACTGGTAATCTTA
1 TATT-CCACTGGTAATCTTA
945800 TATTCC
1 TATTCC
945806 GTGAACCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 4 0.17
19 4 0.17
20 15 0.65
ACGTcount: A:0.20, C:0.25, G:0.09, T:0.45
Consensus pattern (19 bp):
TATTCCACTGGTAATCTTA
Found at i:945793 original size:20 final size:20
Alignment explanation
Indices: 945768--945805 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
945758 ATCCTATTCC
*
945768 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTATATTCCCA
945788 CTGGTAATCTTATATTCC
1 CTGGTAATCTTATATTCC
945806 GTGAACCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.24, G:0.11, T:0.45
Consensus pattern (20 bp):
CTGGTAATCTTATATTCCCA
Found at i:946194 original size:19 final size:19
Alignment explanation
Indices: 946170--946209 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
946160 ACTTTGACCT
*
946170 ACCTGACTTGTTGACTTTG
1 ACCTGACTTGTTAACTTTG
946189 ACCTGACTTGTTAACTTTG
1 ACCTGACTTGTTAACTTTG
946208 AC
1 AC
946210 AAAAAAAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (19 bp):
ACCTGACTTGTTAACTTTG
Found at i:948297 original size:96 final size:96
Alignment explanation
Indices: 948179--948473 Score: 378
Period size: 96 Copynumber: 3.1 Consensus size: 96
948169 TTTCATGATT
* *** * * * * * *
948179 TACTGGCTTATGAACTATGGTTACATGGTCTATGTTCTCTAGTTACCTGTTTTCACTAGAAAATA
1 TACTGGTTTATGAACTATGGTTACATGAAATGTGTTATATGGTTTCCAGTTTTCACTAGAAAATA
* *
948244 TAATAGTTCCTAATTTATGGATAATGGAATC
66 TAATAGTTCCTGATTTATGGATCATGGAATC
* *
948275 TACTGGTTTATGAATTATGGTTACATGAAATGTGTTATATGGTTTCCAGTTTTCAAT-GAAAAAT
1 TACTGGTTTATGAACTATGGTTACATGAAATGTGTTATATGGTTTCCAGTTTTCACTAG-AAAAT
948339 ATAATAGTTCCTGATTTATGGATCATGGAATC
65 ATAATAGTTCCTGATTTATGGATCATGGAATC
* * * * *
948371 TAC-GATTTATGAACTATGTTTACCTGAAATGTGTTATTTGGTTTCCCGTTTTCACTAGAAAATA
1 TACTGGTTTATGAACTATGGTTACATGAAATGTGTTATATGGTTTCCAGTTTTCACTAGAAAATA
* *
948435 TGATTGTTCCTGATTTATGGATCATGGAATC
66 TAATAGTTCCTGATTTATGGATCATGGAATC
948466 TACTGGTT
1 TACTGGTT
948474 ACTATTTGAA
Statistics
Matches: 172, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
95 85 0.49
96 87 0.51
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.41
Consensus pattern (96 bp):
TACTGGTTTATGAACTATGGTTACATGAAATGTGTTATATGGTTTCCAGTTTTCACTAGAAAATA
TAATAGTTCCTGATTTATGGATCATGGAATC
Found at i:948422 original size:95 final size:96
Alignment explanation
Indices: 948186--948470 Score: 358
Period size: 95 Copynumber: 3.0 Consensus size: 96
948176 ATTTACTGGC
*** * * * * * * *
948186 TTATGAACTATGGTTACATGGTCTATGTTCTCTAGTTACCTGTTTTCACTAGAAAATATAATAGT
1 TTATGAACTATGGTTACATGAAATGTGTTATATGGTTTCCAGTTTTCAATAGAAAATATAATAGT
* * *
948251 TCCTAATTTATGGATAATGGAATCTACTGGT
66 TCCTGATTTATGGATCATGGAATCTACTGAT
*
948282 TTATGAATTATGGTTACATGAAATGTGTTATATGGTTTCCAGTTTTCAAT-GAAAAATATAATAG
1 TTATGAACTATGGTTACATGAAATGTGTTATATGGTTTCCAGTTTTCAATAG-AAAATATAATAG
948346 TTCCTGATTTATGGATCATGGAATCTAC-GAT
65 TTCCTGATTTATGGATCATGGAATCTACTGAT
* * * * * * *
948377 TTATGAACTATGTTTACCTGAAATGTGTTATTTGGTTTCCCGTTTTCACTAGAAAATATGATTGT
1 TTATGAACTATGGTTACATGAAATGTGTTATATGGTTTCCAGTTTTCAATAGAAAATATAATAGT
948442 TCCTGATTTATGGATCATGGAATCTACTG
66 TCCTGATTTATGGATCATGGAATCTACTG
948471 GTTACTATTT
Statistics
Matches: 164, Mismatches: 22, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
95 85 0.52
96 79 0.48
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (96 bp):
TTATGAACTATGGTTACATGAAATGTGTTATATGGTTTCCAGTTTTCAATAGAAAATATAATAGT
TCCTGATTTATGGATCATGGAATCTACTGAT
Found at i:953240 original size:97 final size:96
Alignment explanation
Indices: 953051--953346 Score: 335
Period size: 97 Copynumber: 3.1 Consensus size: 96
953041 TTTCCTGATT
* * * ** * * * *
953051 TACTGGCTTATGAACTATGGATACATGGTATATGTTCTATGGTTACCTATTTTCACTGGAAAATA
1 TACTGGTTTATGAACTATGGTTACCTGAAATGTGTTATATGGTTACCTGTTTTCACTGAAAAATA
** * *
953116 TAATAGTTTATGATTTATGGATTATGGAATC
66 TAATAGTTCCTAATTTATGGATCATGGAATC
* *
953147 TACTGGTTTATGAACTATGGTTACCTGAAATGTGTTATTTGGTTGCCTGTTTTTCACTGAAAAAT
1 TACTGGTTTATGAACTATGGTTACCTGAAATGTGTTATATGGTTACCTG-TTTTCACTGAAAAAT
* *
953212 ATAACAGTTCCTCATTTATGGATCATGGAATC
65 ATAATAGTTCCTAATTTATGGATCATGGAATC
* * * * *
953244 TATTGGTTTATGAACTATGGTT-CCAGAAATGTGTTATCTGGTTTCATGTTTTCACT-AGAAAAT
1 TACTGGTTTATGAACTATGGTTACCTGAAATGTGTTATATGGTTACCTGTTTTCACTGA-AAAAT
* * *
953307 ATGATTGTTCCTAATTTATAGATCATGGAATC
65 ATAATAGTTCCTAATTTATGGATCATGGAATC
953339 TACTGGTT
1 TACTGGTT
953347 ACTACTTGAA
Statistics
Matches: 171, Mismatches: 27, Indels: 5
0.84 0.13 0.02
Matches are distributed among these distances:
94 1 0.01
95 47 0.27
96 61 0.36
97 62 0.36
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (96 bp):
TACTGGTTTATGAACTATGGTTACCTGAAATGTGTTATATGGTTACCTGTTTTCACTGAAAAATA
TAATAGTTCCTAATTTATGGATCATGGAATC
Found at i:955670 original size:76 final size:77
Alignment explanation
Indices: 955584--955753 Score: 245
Period size: 76 Copynumber: 2.2 Consensus size: 77
955574 ACATAACAGG
* * *
955584 TTGCACCTAAAATGTTATAAACGGTAAGAAAATAAGTTATAAATG-GTAAATGTTATGAATAAT-
1 TTGCGCCTAAAATGTTATAAACGGTAAGAAAATAAGTTATAAACGAAT-AATGTTATGAATAATA
955647 TTAACATTTTAGA
65 TTAACATTTTAGA
* * *
955660 TTGCGCCTAAAATGATATAAATGGTAAGAAAATAAGTTATAAACGAATAATGTTATGAATATTAT
1 TTGCGCCTAAAATGTTATAAACGGTAAGAAAATAAGTTATAAACGAATAATGTTATGAATAATAT
*
955725 TAACATTTTAGG
66 TAACATTTTAGA
*
955737 TTGTGCCTAAAATGTTA
1 TTGCGCCTAAAATGTTA
955754 CTAGAGTTTA
Statistics
Matches: 83, Mismatches: 9, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
76 55 0.66
77 28 0.34
ACGTcount: A:0.43, C:0.07, G:0.15, T:0.35
Consensus pattern (77 bp):
TTGCGCCTAAAATGTTATAAACGGTAAGAAAATAAGTTATAAACGAATAATGTTATGAATAATAT
TAACATTTTAGA
Found at i:956254 original size:53 final size:54
Alignment explanation
Indices: 956138--956257 Score: 174
Period size: 53 Copynumber: 2.2 Consensus size: 54
956128 TATTTGCAGA
* *
956138 AAAGTATCGATATTTTGTCACCTTCTCATTTTCCATATATATTTTTTTAAATTC
1 AAAGTATCGATACTTTGTCACCTTCTCATTTTCCATATATATTTTTTAAAATTC
956192 AGAAGTATCGATACTTTG-CAGCCTTCTCATTTT-CA-ATATATTTTTTAAAATTC
1 A-AAGTATCGATACTTTGTCA-CCTTCTCATTTTCCATATATATTTTTTAAAATTC
956245 GAAAGTATCGATA
1 -AAAGTATCGATA
956258 ATTGTGGGAA
Statistics
Matches: 61, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
53 28 0.46
54 6 0.10
55 27 0.44
ACGTcount: A:0.31, C:0.16, G:0.09, T:0.44
Consensus pattern (54 bp):
AAAGTATCGATACTTTGTCACCTTCTCATTTTCCATATATATTTTTTAAAATTC
Found at i:958527 original size:25 final size:25
Alignment explanation
Indices: 958492--958545 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
958482 TAGTCATATC
* *
958492 TTATTTTTCAA-TATAATTAACATTA
1 TTATTTATCAATTATAATGAA-ATTA
*
958517 TTATTTATCAATTATTATGAAATTA
1 TTATTTATCAATTATAATGAAATTA
958542 TTAT
1 TTAT
958546 ATTCTTAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 18 0.72
26 7 0.28
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.54
Consensus pattern (25 bp):
TTATTTATCAATTATAATGAAATTA
Found at i:958677 original size:16 final size:17
Alignment explanation
Indices: 958648--958681 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
958638 GTTCATTAAA
958648 AAAAATAGACTGAAAGT
1 AAAAATAGACTGAAAGT
*
958665 AAAAATA-AGTGAAAGT
1 AAAAATAGACTGAAAGT
958681 A
1 A
958682 TAACAAAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.62, C:0.03, G:0.18, T:0.18
Consensus pattern (17 bp):
AAAAATAGACTGAAAGT
Found at i:962030 original size:132 final size:132
Alignment explanation
Indices: 961785--962038 Score: 312
Period size: 132 Copynumber: 1.9 Consensus size: 132
961775 TTTAAGGGAG
* *
961785 AAAACGATAATATCTAATGATTTCCAATCAAGAATAAATGACCTCTCATGCCTTAAAGCAATCAT
1 AAAACGATAATATCTAATGATTTCCAATCAAGAATAAATGACATCTAATGCCTTAAAGCAATCAT
*** ** * * * *
961850 TTATTACTTTGACCGAAATGATGAGATATCATTATTTTGTCTTAAAAATCAATATTGATTCGAGA
66 TTATTACTCCAACCGAAATGAAAAGATATCACTATATCGTCCTAAAAATCAATATTGATTCGAGA
961915 GA
131 GA
* * * *
961917 AAAACGGTAATATCTAATTATTTTCAATCGAGAATAAATGACATCTAATGCCTTAAAG-AAGTCA
1 AAAACGATAATATCTAATGATTTCCAATCAAGAATAAATGACATCTAATGCCTTAAAGCAA-TCA
* * * *
961981 TTTATTACTCCAATCGAAATGAAAAAGATATGACTATATCGTCCTAAAATTAAATATT
65 TTTATTACTCCAACCGAAATG-AAAAGATATCACTATATCGTCCTAAAAATCAATATT
962039 ATTTCGAATG
Statistics
Matches: 101, Mismatches: 19, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
131 2 0.02
132 72 0.71
133 27 0.27
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (132 bp):
AAAACGATAATATCTAATGATTTCCAATCAAGAATAAATGACATCTAATGCCTTAAAGCAATCAT
TTATTACTCCAACCGAAATGAAAAGATATCACTATATCGTCCTAAAAATCAATATTGATTCGAGA
GA
Found at i:964031 original size:16 final size:16
Alignment explanation
Indices: 964010--964041 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
964000 GGTTTGGGCC
964010 AATTGGGCCCTCTTAT
1 AATTGGGCCCTCTTAT
*
964026 AATTGGGCCCTGTTAT
1 AATTGGGCCCTCTTAT
964042 GGGCTTGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.38
Consensus pattern (16 bp):
AATTGGGCCCTCTTAT
Found at i:964297 original size:20 final size:20
Alignment explanation
Indices: 964272--964311 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
964262 TCAATCATCA
964272 TGCTCGAAAGACTTATTGAT
1 TGCTCGAAAGACTTATTGAT
964292 TGCTCGAAAGACTTATTGAT
1 TGCTCGAAAGACTTATTGAT
964312 GGCCCGAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (20 bp):
TGCTCGAAAGACTTATTGAT
Found at i:964319 original size:20 final size:20
Alignment explanation
Indices: 964276--964319 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
964266 TCATCATGCT
* *
964276 CGAAAGACTTATTGATTGCT
1 CGAAAGACTTATTGATGGCC
964296 CGAAAGACTTATTGATGGCC
1 CGAAAGACTTATTGATGGCC
964316 CGAA
1 CGAA
964320 GAAGTTACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (20 bp):
CGAAAGACTTATTGATGGCC
Found at i:964676 original size:20 final size:20
Alignment explanation
Indices: 964646--964702 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
964636 TCATCGTGCT
*
964646 CGAAAGACTTACTGATTGCC
1 CGAATGACTTACTGATTGCC
* *
964666 CTAATGACTTACTAATTGCC
1 CGAATGACTTACTGATTGCC
*
964686 CGAATGACTTACCGATT
1 CGAATGACTTACTGATT
964703 TTGGAAATAG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (20 bp):
CGAATGACTTACTGATTGCC
Found at i:964929 original size:42 final size:41
Alignment explanation
Indices: 964842--964953 Score: 161
Period size: 42 Copynumber: 2.7 Consensus size: 41
964832 ATCCTGCCCG
*
964842 AAGGTCTTATGGATGGCCTGAAGGACTTATCATCTTGCTCGA
1 AAGG-CTTATGGATGGCCTGAAGGACTTATCATCATGCTCGA
* *
964884 AAGGCTTATGGATGACCTGAAGGATTTAATCATCATGCTCGA
1 AAGGCTTATGGATGGCCTGAAGGACTT-ATCATCATGCTCGA
* *
964926 AAGGCTTATTGATGGCCCGAAGGACTTA
1 AAGGCTTATGGATGGCCTGAAGGACTTA
964954 CCAATTTTGG
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
41 22 0.35
42 40 0.65
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.29
Consensus pattern (41 bp):
AAGGCTTATGGATGGCCTGAAGGACTTATCATCATGCTCGA
Found at i:965159 original size:41 final size:43
Alignment explanation
Indices: 965097--965183 Score: 108
Period size: 41 Copynumber: 2.1 Consensus size: 43
965087 CATCCTGCTC
* * *
965097 AAAGGTCTTATGAATGGCCCGAAGGACTT-ATCATCTTGCTTG
1 AAAGGTCTTATGAATGACCCGAAGGACTTAATCATCATGCTAG
*
965139 AAAGG-CTTAT-AGATGACCCGAAGGATTTAATCATCATGCTAG
1 AAAGGTCTTATGA-ATGACCCGAAGGACTTAATCATCATGCTAG
965181 AAA
1 AAA
965184 TACTTACCGG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
40 1 0.03
41 19 0.49
42 19 0.49
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (43 bp):
AAAGGTCTTATGAATGACCCGAAGGACTTAATCATCATGCTAG
Found at i:965169 original size:256 final size:257
Alignment explanation
Indices: 964683--965183 Score: 833
Period size: 256 Copynumber: 2.0 Consensus size: 257
964673 CTTACTAATT
* * * *
964683 GCCCGAATGACTTACCGATTTTGGAAATAGTTTTCTAGGTAAGAGATTTTGGAAATCGTTTTCCT
1 GCCCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAGATTTTGGAAATCATTTTCCT
* **
964748 ACTTTTAAAAAATTTCAATTTTCATATTTAAATGATAAACTTTGGAAATTGTTTTCTCATTCTTT
66 ACTTTTAAAAAATTTCAATTTTCATATTTAAATGAGAAACTTTGGAAATCATTTTCTCATTCTTT
* * *
964813 TCGAAAAACATGTGAAAAAATCCTGCCCGAAGGTCTTATGGATGGCCTGAAGGACTTATCATCTT
131 TCGAAAAACATGTGAAAAAATCCTGCCCAAAGGTCTTATGAATGGCCCGAAGGACTTATCATCTT
* * *
964878 GCTCGAAAGGCTTATGGATGACCTGAAGGATTTAATCATCATGCTCGAAAGGCTTATTGATG
196 GCTCGAAAGGCTTATAGATGACCCGAAGGATTTAATCATCATGCTAGAAAGGCTTATTGATG
*
964940 GCCCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAGATTTTGGAAATCATTTTCTT
1 GCCCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAGATTTTGGAAATCATTTTCCT
*
965005 ACTTTTCAAAAATTTCAATTTTCATATTTAAATGAGAAACTTTGG-AATCATTTTCTCATTCTTT
66 ACTTTTAAAAAATTTCAATTTTCATATTTAAATGAGAAACTTTGGAAATCATTTTCTCATTCTTT
* *
965069 TCGAAAAACATGTGAAAACATCCTGCTCAAAGGTCTTATGAATGGCCCGAAGGACTTATCATCTT
131 TCGAAAAACATGTGAAAAAATCCTGCCCAAAGGTCTTATGAATGGCCCGAAGGACTTATCATCTT
*
965134 GCTTGAAAGGCTTATAGATGACCCGAAGGATTTAATCATCATGCTAGAAA
196 GCTCGAAAGGCTTATAGATGACCCGAAGGATTTAATCATCATGCTAGAAA
965184 TACTTACCGG
Statistics
Matches: 226, Mismatches: 18, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
256 123 0.54
257 103 0.46
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.35
Consensus pattern (257 bp):
GCCCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAGATTTTGGAAATCATTTTCCT
ACTTTTAAAAAATTTCAATTTTCATATTTAAATGAGAAACTTTGGAAATCATTTTCTCATTCTTT
TCGAAAAACATGTGAAAAAATCCTGCCCAAAGGTCTTATGAATGGCCCGAAGGACTTATCATCTT
GCTCGAAAGGCTTATAGATGACCCGAAGGATTTAATCATCATGCTAGAAAGGCTTATTGATG
Found at i:966772 original size:2 final size:2
Alignment explanation
Indices: 966767--966796 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
966757 ATTGTGTGTG
966767 TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
966797 GTATTATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:969926 original size:12 final size:12
Alignment explanation
Indices: 969891--969928 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
969881 GATTTAAGTG
969891 AAAATTG-GGTA
1 AAAATTGAGGTA
969902 AAAATT-AGGTA
1 AAAATTGAGGTA
*
969913 AAAATTGAGCTA
1 AAAATTGAGGTA
969925 AAAA
1 AAAA
969929 ATGGAAAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
11 16 0.67
12 8 0.33
ACGTcount: A:0.55, C:0.03, G:0.18, T:0.24
Consensus pattern (12 bp):
AAAATTGAGGTA
Found at i:970680 original size:45 final size:45
Alignment explanation
Indices: 970629--970977 Score: 500
Period size: 45 Copynumber: 7.7 Consensus size: 45
970619 ATGAATAAAA
* *
970629 GAAAATGCATAACGATGCATTATCGACATAAAAGGTGCCACTAAT
1 GAAAATGCATAACGGTGCATTATCGGCATAAAAGGTGCCACTAAT
* *
970674 GAAAATGCATAATGGTGCATTATCGGCATAAAATGTGCCACTAAT
1 GAAAATGCATAACGGTGCATTATCGGCATAAAAGGTGCCACTAAT
970719 GAAAATGCATAACGGTGCATTATCGGCATAAAAGGTGCCACTAAT
1 GAAAATGCATAACGGTGCATTATCGGCATAAAAGGTGCCACTAAT
* * *
970764 GAAAATGTATAACGATGCATTATTGGCATAAAAGGTGCCACTAAT
1 GAAAATGCATAACGGTGCATTATCGGCATAAAAGGTGCCACTAAT
* *
970809 GAAAATGCATAACGGTGCATTATTGGCATAAAAGGTTCCACTAAT
1 GAAAATGCATAACGGTGCATTATCGGCATAAAAGGTGCCACTAAT
* * * *
970854 GAAAATACATAACGGTGCATTATTGGAATAAAAGGTGCCACTGAT
1 GAAAATGCATAACGGTGCATTATCGGCATAAAAGGTGCCACTAAT
* * * *
970899 GAAATTGCATAACGGTGCAATATTGGCATAAAAGGTGCCATGTAAT
1 GAAAATGCATAACGGTGCATTATCGGCATAAAAGGTGCCA-CTAAT
* * * *
970945 GAAAACGTATAACGGTGCATCATCGACATAAAA
1 GAAAATGCATAACGGTGCATTATCGGCATAAAA
970978 TTTATCACTC
Statistics
Matches: 274, Mismatches: 29, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
45 245 0.89
46 29 0.11
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.24
Consensus pattern (45 bp):
GAAAATGCATAACGGTGCATTATCGGCATAAAAGGTGCCACTAAT
Found at i:975344 original size:131 final size:131
Alignment explanation
Indices: 975109--975344 Score: 330
Period size: 131 Copynumber: 1.8 Consensus size: 131
975099 AATTTCAAGG
* *
975109 GAGAAAACGATAATATCTAATGATTTTCAATCAAGAATAAATGACCTCTCAGGCCTTAAAAAAAT
1 GAGAAAACGATAATATCTAATGATTTCCAATCAAGAATAAATAACCTCTCAGGCCTTAAAAAAAT
* * * ** *
975174 CATTTATTACTTCGATCGAAATGACGAGATATCATTATTTTCTCTTAAAAATCAATATTAGTTTG
66 CATTTATTACTACAATCGAAACGAAAAGATATCACTATTTTCTCTTAAAAATCAATATTAGTTTG
975239 A
131 A
* * * **
975240 GAGAAAACGGTAATATCTAATTATTTCCAAT-AGAGAATAAATAACCTCTCATGCCTTAAAGTAA
1 GAGAAAACGATAATATCTAATGATTTCCAATCA-AGAATAAATAACCTCTCAGGCCTTAAAAAAA
*
975304 TCATTTATTACTACAATCGAAACGAAAAGATATTACTATTT
65 TCATTTATTACTACAATCGAAACGAAAAGATATCACTATTT
975345 CACCCTAAAA
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
130 1 0.01
131 89 0.99
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.33
Consensus pattern (131 bp):
GAGAAAACGATAATATCTAATGATTTCCAATCAAGAATAAATAACCTCTCAGGCCTTAAAAAAAT
CATTTATTACTACAATCGAAACGAAAAGATATCACTATTTTCTCTTAAAAATCAATATTAGTTTG
A
Found at i:976064 original size:2 final size:2
Alignment explanation
Indices: 976057--976091 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
976047 AAGTATATGC
*
976057 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
976092 CAAGAATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:978762 original size:20 final size:19
Alignment explanation
Indices: 978718--978762 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
978708 AATGATTTTC
* * *
978718 TTTTGAACACCAAAATGGA
1 TTTTGAAAAACAAAATGAA
978737 TTTTGAAAAACAAAATGAA
1 TTTTGAAAAACAAAATGAA
978756 GTTTTGA
1 -TTTTGA
978763 GCTTTCAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.31
Consensus pattern (19 bp):
TTTTGAAAAACAAAATGAA
Found at i:982930 original size:22 final size:21
Alignment explanation
Indices: 982888--982927 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
982878 GAGTTTATTT
*
982888 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTAAAATA
982909 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
982928 ATAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAATA
Found at i:986832 original size:16 final size:16
Alignment explanation
Indices: 986808--986838 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
986798 ATTAGAGGAT
*
986808 GATTTTTATACCATTG
1 GATTATTATACCATTG
986824 GATTATTATACCATT
1 GATTATTATACCATT
986839 CTAGTTTTGT
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:0.29, C:0.13, G:0.10, T:0.48
Consensus pattern (16 bp):
GATTATTATACCATTG
Found at i:987760 original size:59 final size:57
Alignment explanation
Indices: 987592--987763 Score: 231
Period size: 57 Copynumber: 3.0 Consensus size: 57
987582 CAGCAGGCTG
* *
987592 CATATTCGGGATTGCAATAAAGTAT-TAGTGCACATGGTGGGCACGACCTTATGTGT
1 CATATTCGGGATTGCACTAAAGTATATAGTGCATATGGTGGGCACGACCTTATGTGT
* *
987648 CATACTCGGGATTGCACTAAAAGTATA-AGTGCATATGGTGGGCACAACCTTATGTGT
1 CATATTCGGGATTGCACT-AAAGTATATAGTGCATATGGTGGGCACGACCTTATGTGT
* * * *
987705 CATATTCGAGACTGCACTAAAGTATAACTAGTGCATATGATGGGCATGACCTTATGTGT
1 CATATTCGGGATTGCACTAAAGTAT-A-TAGTGCATATGGTGGGCACGACCTTATGTGT
987764 AATACTTGGG
Statistics
Matches: 101, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
56 23 0.23
57 51 0.50
59 27 0.27
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (57 bp):
CATATTCGGGATTGCACTAAAGTATATAGTGCATATGGTGGGCACGACCTTATGTGT
Found at i:987781 original size:59 final size:56
Alignment explanation
Indices: 987603--987782 Score: 195
Period size: 57 Copynumber: 3.1 Consensus size: 56
987593 ATATTCGGGA
* * *
987603 TTGCAATAAAGTAT-TAGTGCACATGGTGGGCACGACCTTATGTGTCATACTCGGG
1 TTGCACTAAAGTATATAGTGCATATGGTGGGCACGACCTTATGTGTCATACTTGGG
* *
987658 ATTGCACTAAAAGTATA-AGTGCATATGGTGGGCACAACCTTATGTGTCATA-TTCGAGA
1 -TTGCACT-AAAGTATATAGTGCATATGGTGGGCACGACCTTATGTGTCATACTT-G-GG
* * * *
987716 CTGCACTAAAGTATAACTAGTGCATATGATGGGCATGACCTTATGTGTAATACTTGGG
1 TTGCACTAAAGTAT-A-TAGTGCATATGGTGGGCACGACCTTATGTGTCATACTTGGG
987774 TTAGCACTA
1 TT-GCACTA
987783 TGGTGCATAT
Statistics
Matches: 103, Mismatches: 12, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
56 14 0.14
57 47 0.46
58 3 0.03
59 37 0.36
60 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (56 bp):
TTGCACTAAAGTATATAGTGCATATGGTGGGCACGACCTTATGTGTCATACTTGGG
Found at i:991608 original size:19 final size:19
Alignment explanation
Indices: 991586--991623 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
991576 ATTTTGCGAT
*
991586 AAAAATGAATTTTTAACAAA
1 AAAAATG-ATTTTAAACAAA
991606 AAAAATGATTTTAAACAA
1 AAAAATGATTTTAAACAA
991624 CATTATCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (19 bp):
AAAAATGATTTTAAACAAA
Found at i:993186 original size:60 final size:59
Alignment explanation
Indices: 993095--993255 Score: 161
Period size: 60 Copynumber: 2.7 Consensus size: 59
993085 AAACATGAAC
* *
993095 TTAAAGGATTAAAATGGAAAATTTAGAAACTTAAAAGG-CTAAAACAGTGAAAAC-AAACAT
1 TTAAAGGATTAAAATAGAAAA-ATAGAAACTTAAAAGGACTAAAACA--GAAAACTAAACAT
* * * *
993155 TTAAAGGACTAAAATAGAACAAATAGGAACTT--AAGGAACTAAAATAGAAAACTAGACAT
1 TTAAAGGATTAAAATAGAA-AAATAGAAACTTAAAAGG-ACTAAAACAGAAAACTAAACAT
* * *
993214 TTAAAAGATTAAAATAGAAAAATAAAAACTT-AAATGACTAAA
1 TTAAAGGATTAAAATAGAAAAATAGAAACTTAAAAGGACTAAA
993256 TTAGTAAAAA
Statistics
Matches: 85, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
58 26 0.31
59 25 0.29
60 32 0.38
61 2 0.02
ACGTcount: A:0.58, C:0.08, G:0.13, T:0.21
Consensus pattern (59 bp):
TTAAAGGATTAAAATAGAAAAATAGAAACTTAAAAGGACTAAAACAGAAAACTAAACAT
Found at i:993217 original size:29 final size:29
Alignment explanation
Indices: 993143--993234 Score: 75
Period size: 29 Copynumber: 3.2 Consensus size: 29
993133 CTAAAACAGT
*
993143 GAAAAC-AAACATTTAAAGG-ACTAAAATA
1 GAAAACTAGACATTT-AAGGAACTAAAATA
* *
993171 GAACAAATAGGA-ACTTAAGGAACTAAAATA
1 GAA-AACTA-GACATTTAAGGAACTAAAATA
* *
993201 GAAAACTAGACATTTAA-AAGATTAAAATA
1 GAAAACTAGACATTTAAGGA-ACTAAAATA
993230 GAAAA
1 GAAAA
993235 ATAAAAACTT
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
28 6 0.12
29 28 0.55
30 16 0.31
31 1 0.02
ACGTcount: A:0.60, C:0.09, G:0.13, T:0.18
Consensus pattern (29 bp):
GAAAACTAGACATTTAAGGAACTAAAATA
Found at i:993229 original size:59 final size:58
Alignment explanation
Indices: 993121--993285 Score: 156
Period size: 59 Copynumber: 2.8 Consensus size: 58
993111 GAAAATTTAG
* * * *
993121 AAACTTAAAAGG-CTAAAACAGTGAAAAC-AAACATTTAAAGGACTAAAATAGAACAAATAG
1 AAACTT-AAAGGACTAAAATA--GAAAACTAGACATTTAAAAGACTAAAATAGAA-AAATAA
* *
993181 GAACTT-AAGGAACTAAAATAGAAAACTAGACATTTAAAAGATTAAAATAGAAAAATAA
1 AAACTTAAAGG-ACTAAAATAGAAAACTAGACATTTAAAAGACTAAAATAGAAAAATAA
* * * * *
993239 AAACTTAAATGACTAAATTAGTAAAAATAGACATTTAAGATACTAAA
1 AAACTTAAAGGACTAAAATAG-AAAACTAGACATTTAAAAGACTAAA
993286 TAGTAAATAC
Statistics
Matches: 87, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
58 29 0.33
59 46 0.53
60 12 0.14
ACGTcount: A:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (58 bp):
AAACTTAAAGGACTAAAATAGAAAACTAGACATTTAAAAGACTAAAATAGAAAAATAA
Found at i:993246 original size:29 final size:29
Alignment explanation
Indices: 993092--993269 Score: 128
Period size: 30 Copynumber: 6.0 Consensus size: 29
993082 GCAAAACATG
* * *
993092 AACTTAAAGGATTAAAATGGAAAATTTAGA
1 AACTTAAAGGACTAAAATAGAAAA-ATAGA
* * *
993122 AACTTAAAAGG-CTAAAACAGTGAAAACA-A
1 AACTT-AAAGGACTAAAATAG-AAAAATAGA
* *
993151 ACATTTAAAGGACTAAAATAGAACAAATAGG
1 A-ACTTAAAGGACTAAAATAGAA-AAATAGA
*
993182 AACTT-AAGGAACTAAAATAGAAAACTAGA
1 AACTTAAAGG-ACTAAAATAGAAAAATAGA
* * * * *
993211 CATTTAAAAGATTAAAATAGAAAAATAAA
1 AACTTAAAGGACTAAAATAGAAAAATAGA
* *
993240 AACTTAAATGACTAAATTAGTAAAAATAGA
1 AACTTAAAGGACTAAAATAG-AAAAATAGA
993270 CATTTAAGAT
Statistics
Matches: 113, Mismatches: 26, Indels: 18
0.72 0.17 0.11
Matches are distributed among these distances:
29 51 0.45
30 53 0.47
31 9 0.08
ACGTcount: A:0.58, C:0.08, G:0.13, T:0.21
Consensus pattern (29 bp):
AACTTAAAGGACTAAAATAGAAAAATAGA
Found at i:993267 original size:30 final size:29
Alignment explanation
Indices: 993225--993292 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 29
993215 TAAAAGATTA
993225 AAATAG-AAAAATAAAAACTTAAATGACT
1 AAATAGTAAAAATAAAAACTTAAATGACT
* * *
993253 AAATTAGTAAAAATAGACATTTAAGAT-ACT
1 AAA-TAGTAAAAATAAAAACTTAA-ATGACT
993283 AAATAGTAAA
1 AAATAGTAAA
993293 TACATATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 3 0.09
29 10 0.29
30 19 0.56
31 2 0.06
ACGTcount: A:0.60, C:0.06, G:0.09, T:0.25
Consensus pattern (29 bp):
AAATAGTAAAAATAAAAACTTAAATGACT
Found at i:993288 original size:58 final size:59
Alignment explanation
Indices: 993151--993285 Score: 157
Period size: 59 Copynumber: 2.3 Consensus size: 59
993141 GTGAAAACAA
* ** *
993151 ACATTTAAAGGACTAAAATAGAACAAATAGGAACTTAAGGAACTAAAATAGAAAACTAG
1 ACATTTAAAAGACTAAAATAGAACAAATAAAAACTTAAGGAACTAAAATAGAAAAATAG
* * *
993210 ACATTTAAAAGATTAAAATAGAA-AAATAAAAACTTAAATG-ACTAAATTAGTAAAAATAG
1 ACATTTAAAAGACTAAAATAGAACAAATAAAAACTT-AAGGAACTAAAATAG-AAAAATAG
* *
993269 ACATTTAAGATACTAAA
1 ACATTTAAAAGACTAAA
993286 TAGTAAATAC
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
58 19 0.30
59 45 0.70
ACGTcount: A:0.58, C:0.08, G:0.11, T:0.23
Consensus pattern (59 bp):
ACATTTAAAAGACTAAAATAGAACAAATAAAAACTTAAGGAACTAAAATAGAAAAATAG
Found at i:993292 original size:29 final size:27
Alignment explanation
Indices: 993196--993288 Score: 78
Period size: 29 Copynumber: 3.2 Consensus size: 27
993186 TAAGGAACTA
* * *
993196 AAATAGAAAACTAGACATTTAAAAGATT
1 AAATAGAAAAATAGACATTT-AAATACT
* * *
993224 AAAATAGAAAAATAAAAACTTAAATGACT
1 -AAATAGAAAAATAGACATTTAAAT-ACT
993253 AAATTAGTAAAAATAGACATTTAAGATACT
1 AAA-TAG-AAAAATAGACATTTAA-ATACT
993283 AAATAG
1 AAATAG
993289 TAAATACATA
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
28 6 0.12
29 24 0.47
30 19 0.37
31 2 0.04
ACGTcount: A:0.59, C:0.06, G:0.10, T:0.25
Consensus pattern (27 bp):
AAATAGAAAAATAGACATTTAAATACT
Found at i:995050 original size:40 final size:40
Alignment explanation
Indices: 994951--995056 Score: 149
Period size: 40 Copynumber: 2.6 Consensus size: 40
994941 AAAGGATGAT
* * *
994951 GACACAGTTCCTACATAATGAGGACAGCTGGTCGAGGGAT
1 GACACAGTTCCTACATGATGAGGACGGCTGGTCGAGGGAC
*
994991 GACACGGTTCCTACATGATGAGGACGGCTGGTCGAGGGAC
1 GACACAGTTCCTACATGATGAGGACGGCTGGTCGAGGGAC
* * *
995031 GACACAGCTCCTACGTGATGATGACG
1 GACACAGTTCCTACATGATGAGGACG
995057 ACAGGCCATC
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.26, C:0.23, G:0.32, T:0.19
Consensus pattern (40 bp):
GACACAGTTCCTACATGATGAGGACGGCTGGTCGAGGGAC
Found at i:995128 original size:43 final size:42
Alignment explanation
Indices: 995080--995229 Score: 146
Period size: 43 Copynumber: 3.6 Consensus size: 42
995070 AAGGATGATA
* *
995080 ACACGGTTCCTACGTGATGAGGATGGTTGGTTATCTATGGTTG
1 ACACGGCTCCTACGTGATGAGGA-GGTTGGTTATCTATGGATG
* * *
995123 ACACGGCTCATATGTGATGAGGAGATCTGG-TA--TATGGATG
1 ACACGGCTCCTACGTGATGAGGAGGT-TGGTTATCTATGGATG
* * *
995163 ACACGGTTCCTACGTGATGAGGACGGCTGGTTATCT-TAGGGTG
1 ACACGGCTCCTACGTGATGAGGA-GGTTGGTTATCTAT-GGATG
* *
995206 ACACAGCTCCTATGTGATGAGGAG
1 ACACGGCTCCTACGTGATGAGGAG
995230 ATCTGGTCGG
Statistics
Matches: 87, Mismatches: 14, Indels: 13
0.76 0.12 0.11
Matches are distributed among these distances:
40 30 0.34
41 3 0.03
42 6 0.07
43 48 0.55
ACGTcount: A:0.23, C:0.16, G:0.33, T:0.29
Consensus pattern (42 bp):
ACACGGCTCCTACGTGATGAGGAGGTTGGTTATCTATGGATG
Found at i:995180 original size:83 final size:82
Alignment explanation
Indices: 995080--995268 Score: 254
Period size: 83 Copynumber: 2.3 Consensus size: 82
995070 AAGGATGATA
* * * *
995080 ACACGGTTCCTACGTGATGAGGATGGTTGGTTATC-TATGGTTGACACGGCTCATATGTGATGAG
1 ACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTTA-GGGTGACACAGCTCATATGTGATGAG
* *
995144 GAGATCTGGTATATGGATG
65 GAGATCTGGT-CAGGGATG
*
995163 ACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTTAGGGTGACACAGCTCCTATGTGATGAGG
1 ACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTTAGGGTGACACAGCTCATATGTGATGAGG
*
995228 AGATCTGGTCGGGGATG
66 AGATCTGGTCAGGGATG
** *
995245 ACACGGTTTTTGCGTGATGAGGAC
1 ACACGGTTCCTACGTGATGAGGAC
995269 AGTAGGCAAT
Statistics
Matches: 94, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
82 26 0.28
83 66 0.70
84 2 0.02
ACGTcount: A:0.22, C:0.16, G:0.34, T:0.29
Consensus pattern (82 bp):
ACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTTAGGGTGACACAGCTCATATGTGATGAGG
AGATCTGGTCAGGGATG
Found at i:995236 original size:43 final size:43
Alignment explanation
Indices: 995087--995366 Score: 134
Period size: 43 Copynumber: 6.6 Consensus size: 43
995077 ATAACACGGT
* * * *
995087 TCCTACGTGATGAGGATGGT-TGGTTATC-TATGGTTGACACGGC
1 TCCTATGTGATGAGGA-GATCTGGTTATCTTA-GGGTGACACAGC
* * * * *
995130 TCATATGTGATGAGGAGATCTGG-TAT-AT-GGATGACACGGT
1 TCCTATGTGATGAGGAGATCTGGTTATCTTAGGGTGACACAGC
* *
995170 TCCTACGTGATGAGGACG-GCTGGTTATCTTAGGGTGACACAGC
1 TCCTATGTGATGAGGA-GATCTGGTTATCTTAGGGTGACACAGC
* * *
995213 TCCTATGTGATGAGGAGATCTGG---TC--GGGGATGACACGGT
1 TCCTATGTGATGAGGAGATCTGGTTATCTTAGGG-TGACACAGC
** ** * * ** * *
995252 TTTTGCGTGATGAGGACAGT-AGGCAATCTTTAGGAATGATAACACGAC
1 TCCTATGTGATGAGGAGA-TCTGGTTATC-TTAGG-GTGA-CACA-G-C
* * *
995300 TCCTATGTGATGAGGACAACTGGTTATCTAAGGGTGACACAGC
1 TCCTATGTGATGAGGAGATCTGGTTATCTTAGGGTGACACAGC
*
995343 TCCTATGTGATGAGGAGATTTGGT
1 TCCTATGTGATGAGGAGATCTGGT
995367 CGGGGGATGA
Statistics
Matches: 175, Mismatches: 42, Indels: 40
0.68 0.16 0.16
Matches are distributed among these distances:
38 3 0.02
39 22 0.13
40 31 0.18
41 4 0.02
42 10 0.06
43 67 0.38
44 1 0.01
45 8 0.05
46 5 0.03
47 5 0.03
48 19 0.11
ACGTcount: A:0.24, C:0.15, G:0.32, T:0.29
Consensus pattern (43 bp):
TCCTATGTGATGAGGAGATCTGGTTATCTTAGGGTGACACAGC
Found at i:995281 original size:82 final size:85
Alignment explanation
Indices: 995080--995315 Score: 214
Period size: 83 Copynumber: 2.8 Consensus size: 85
995070 AAGGATGATA
** * ** * * * *
995080 ACACGGTTCCTACGTGATGAGGATGGTTGGTTATCTAT-GG-TTGACACGGCTCATATGTGATGA
1 ACACGGTTCCTACGTGATGAGGACAGCTGGCAATCTTTAGGAATGACACAGCTCCTATGTGATGA
* *
995143 GGAGATCTGGTATATGGATG
66 GGAGATCTGGTACAGGGATG
* ** *
995163 ACACGGTTCCTACGTGATGAGGACGGCTGGTTATC-TTAGG-GTGACACAGCTCCTATGTGATGA
1 ACACGGTTCCTACGTGATGAGGACAGCTGGCAATCTTTAGGAATGACACAGCTCCTATGTGATGA
*
995226 GGAGATCTGGT-CGGGGATG
66 GGAGATCTGGTACAGGGATG
** * *
995245 ACACGGTTTTTGCGTGATGAGGACAG-TAGGCAATCTTTAGGAATGATAACACGACTCCTATGTG
1 ACACGGTTCCTACGTGATGAGGACAGCT-GGCAATCTTTAGGAATGA-CACA-G-CTCCTATGTG
995309 ATGAGGA
62 ATGAGGA
995316 CAACTGGTTA
Statistics
Matches: 129, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
81 1 0.01
82 33 0.26
83 71 0.55
84 3 0.02
85 3 0.02
86 1 0.01
87 17 0.13
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.28
Consensus pattern (85 bp):
ACACGGTTCCTACGTGATGAGGACAGCTGGCAATCTTTAGGAATGACACAGCTCCTATGTGATGA
GGAGATCTGGTACAGGGATG
Found at i:995458 original size:131 final size:130
Alignment explanation
Indices: 995169--995461 Score: 399
Period size: 131 Copynumber: 2.2 Consensus size: 130
995159 GATGACACGG
*
995169 TTCCTACGTGATGAGGACGGCTGGTTATCTTAGGGTGACACAGCTCCTATGTGATGAGGAGATCT
1 TTCCTACGTGATGAGGACGGCTGGTTATCTAAGGGTGACACAGCTCCTATGTGATGAGGAGATCT
* ** * * * *
995234 GGTCGGGGATGACACGGTTTTTGCGTGATGAGGACAGTAGGCAATCTTTAGGAATGATAACACGA
66 GGTCGGGGATGACACGATTCCTCCGTGATGAGGACAGCAGGCAATCTTTAGGAATAATAACACAA
* * ** *
995299 CTCCTATGTGATGAGGACAACTGGTTATCTAAGGGTGACACAGCTCCTATGTGATGAGGAGATTT
1 TTCCTACGTGATGAGGACGGCTGGTTATCTAAGGGTGACACAGCTCCTATGTGATGAGGAGATCT
**
995364 GGTCGGGGGATGACACGATTCCTCCGTGATGAGGAC-GACAGGTTATCTTTAGGAATAATAACAC
66 GGTC-GGGGATGACACGATTCCTCCGTGATGAGGACAG-CAGGCAATCTTTAGGAATAATAACAC
995428 AA
129 AA
* * *
995430 TTCCTACGTGATGAGGATGGTTGATTATCTAA
1 TTCCTACGTGATGAGGACGGCTGGTTATCTAA
995462 ACTTGACGTT
Statistics
Matches: 139, Mismatches: 22, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
130 64 0.46
131 75 0.54
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (130 bp):
TTCCTACGTGATGAGGACGGCTGGTTATCTAAGGGTGACACAGCTCCTATGTGATGAGGAGATCT
GGTCGGGGATGACACGATTCCTCCGTGATGAGGACAGCAGGCAATCTTTAGGAATAATAACACAA
Found at i:995476 original size:131 final size:130
Alignment explanation
Indices: 995170--995495 Score: 341
Period size: 131 Copynumber: 2.5 Consensus size: 130
995160 ATGACACGGT
** * * **
995170 TCCTACGTGATGAGGACGGCTGGTTATCTTAGGGTGACACAGCTCCTATGTGATGAGGAGATCTG
1 TCCTACGTGATGAGGACAACTGATTATCTAAACGTGACACAGCTCCTATGTGATGAGGAGATCTG
* ** * * * *
995235 GTCGGGGATGACACGGTTTTTGCGTGATGAGGACAGTAGGCAATCTTTAGGAATGATAACACGAC
66 GTCGGGGATGACACGATTCCTCCGTGATGAGGACAGCAGGCAATCTTTAGGAATAATAACACAAC
* * ** *
995300 TCCTATGTGATGAGGACAACTGGTTATCTAAGGGTGACACAGCTCCTATGTGATGAGGAGATTTG
1 TCCTACGTGATGAGGACAACTGATTATCTAAACGTGACACAGCTCCTATGTGATGAGGAGATCTG
**
995365 GTCGGGGGATGACACGATTCCTCCGTGATGAGGAC-GACAGGTTATCTTTAGGAATAATAACACA
66 GTC-GGGGATGACACGATTCCTCCGTGATGAGGACAG-CAGGCAATCTTTAGGAATAATAACACA
*
995429 AT
129 AC
**** * *** *
995431 TCCTACGTGATGAGGATGGTTGATTATCTAAACTTGACGTTGCTCCTGA-GTGATGAGGAGGTCT
1 TCCTACGTGATGAGGACAACTGATTATCTAAACGTGACACAGCTCCT-ATGTGATGAGGAGATCT
995495 G
65 G
995496 ATCAGTTGAT
Statistics
Matches: 164, Mismatches: 29, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
130 64 0.39
131 99 0.60
132 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (130 bp):
TCCTACGTGATGAGGACAACTGATTATCTAAACGTGACACAGCTCCTATGTGATGAGGAGATCTG
GTCGGGGATGACACGATTCCTCCGTGATGAGGACAGCAGGCAATCTTTAGGAATAATAACACAAC
Found at i:998573 original size:209 final size:209
Alignment explanation
Indices: 998213--998631 Score: 820
Period size: 209 Copynumber: 2.0 Consensus size: 209
998203 TTTACTGGCT
*
998213 CATAGTCTTCTAATGCTATGCTTGCCAGGAAGTCGACAATAACACTTCCTTTTACCACTTTTTGA
1 CATAGTCTTCTAATGCTATACTTGCCAGGAAGTCGACAATAACACTTCCTTTTACCACTTTTTGA
*
998278 TTCATATAGACTATATCAAATTCGGACAGTAATATTTTCCATCTTGTCATTCTTCCAGTTAGAGC
66 TTCATATAGACTATATCAAATTCGGACAGTAATATTTGCCATCTTGTCATTCTTCCAGTTAGAGC
998343 CGTTGACTCCATCAGGTATTTTAATGGATTCAGTCTTTATATCAACCAGGTGGTGTGATACAACA
131 CGTTGACTCCATCAGGTATTTTAATGGATTCAGTCTTTATATCAACCAGGTGGTGTGATACAACA
998408 AATATTATCTCAGG
196 AATATTATCTCAGG
998422 CATAGTCTTCTAATGCTATACTTGCCAGGAAGTCGACAATAACACTTCCTTTTACCACTTTTTGA
1 CATAGTCTTCTAATGCTATACTTGCCAGGAAGTCGACAATAACACTTCCTTTTACCACTTTTTGA
998487 TTCATATAGACTATATCAAATTCGGACAGTAATATTTGCCATCTTGTCATTCTTCCAGTTAGAGC
66 TTCATATAGACTATATCAAATTCGGACAGTAATATTTGCCATCTTGTCATTCTTCCAGTTAGAGC
998552 CGTTGACTCCATCAGGTATTTTAATGGATTCAGTCTTTATATCAACCAGGTGGTGTGATACAACA
131 CGTTGACTCCATCAGGTATTTTAATGGATTCAGTCTTTATATCAACCAGGTGGTGTGATACAACA
998617 AATATTATCTCAGG
196 AATATTATCTCAGG
998631 C
1 C
998632 TCTTAGTAGT
Statistics
Matches: 208, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
209 208 1.00
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (209 bp):
CATAGTCTTCTAATGCTATACTTGCCAGGAAGTCGACAATAACACTTCCTTTTACCACTTTTTGA
TTCATATAGACTATATCAAATTCGGACAGTAATATTTGCCATCTTGTCATTCTTCCAGTTAGAGC
CGTTGACTCCATCAGGTATTTTAATGGATTCAGTCTTTATATCAACCAGGTGGTGTGATACAACA
AATATTATCTCAGG
Found at i:1000913 original size:21 final size:21
Alignment explanation
Indices: 1000887--1000928 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1000877 CCAGAATGGG
*
1000887 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
1000908 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
1000929 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:1001082 original size:19 final size:19
Alignment explanation
Indices: 1001058--1001157 Score: 111
Period size: 19 Copynumber: 5.4 Consensus size: 19
1001048 ATCTGTACCC
1001058 GGGGAATCGATACCCCTGG
1 GGGGAATCGATACCCCTGG
1001077 GGGGAATCGATACCCCTGG
1 GGGGAATCGATACCCCTGG
* * *
1001096 TGGGAATCTAT-TCCC---
1 GGGGAATCGATACCCCTGG
1001111 GGGGAATCGATACCCCCTGG
1 GGGGAATCGATA-CCCCTGG
*
1001131 GGGGAATCTG-TTCCCCTGG
1 GGGGAATC-GATACCCCTGG
1001150 GGGGAATC
1 GGGGAATC
1001158 TGTACCTCCT
Statistics
Matches: 68, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
15 9 0.13
17 3 0.04
18 3 0.04
19 43 0.63
20 9 0.13
21 1 0.01
ACGTcount: A:0.19, C:0.26, G:0.35, T:0.20
Consensus pattern (19 bp):
GGGGAATCGATACCCCTGG
Found at i:1001104 original size:53 final size:54
Alignment explanation
Indices: 1001043--1001163 Score: 183
Period size: 54 Copynumber: 2.3 Consensus size: 54
1001033 ACCATGCAAA
1001043 GGGGAATCTGTACCCGGGGAATCGATA-CCCCTGGGGGGAATC-GATACCCCTGG
1 GGGGAATCTGTACCCGGGGAATCGATACCCCCTGGGGGGAATCTG-TACCCCTGG
* * * *
1001096 TGGGAATCTATTCCCGGGGAATCGATACCCCCTGGGGGGAATCTGTTCCCCTGG
1 GGGGAATCTGTACCCGGGGAATCGATACCCCCTGGGGGGAATCTGTACCCCTGG
1001150 GGGGAATCTGTACC
1 GGGGAATCTGTACC
1001164 TCCTGGACAA
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
53 24 0.41
54 34 0.58
55 1 0.02
ACGTcount: A:0.19, C:0.26, G:0.34, T:0.21
Consensus pattern (54 bp):
GGGGAATCTGTACCCGGGGAATCGATACCCCCTGGGGGGAATCTGTACCCCTGG
Found at i:1001115 original size:34 final size:35
Alignment explanation
Indices: 1001077--1001145 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
1001067 ATACCCCTGG
*
1001077 GGGGAATCGATA-CCCCTGGTGGGAATCTATTCCC
1 GGGGAATCGATACCCCCTGGGGGGAATCTATTCCC
*
1001111 GGGGAATCGATACCCCCTGGGGGGAATCTGTTCCC
1 GGGGAATCGATACCCCCTGGGGGGAATCTATTCCC
1001146 CTGGGGGGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 12 0.38
35 20 0.62
ACGTcount: A:0.19, C:0.28, G:0.32, T:0.22
Consensus pattern (35 bp):
GGGGAATCGATACCCCCTGGGGGGAATCTATTCCC
Found at i:1001168 original size:20 final size:19
Alignment explanation
Indices: 1001043--1001169 Score: 96
Period size: 19 Copynumber: 7.0 Consensus size: 19
1001033 ACCATGCAAA
1001043 GGGGAATCTGTA-CCC---
1 GGGGAATCTGTACCCCTGG
1001058 GGGGAATC-GATACCCCTGG
1 GGGGAATCTG-TACCCCTGG
1001077 GGGGAATC-GATACCCCTGG
1 GGGGAATCTG-TACCCCTGG
* * *
1001096 TGGGAATCTAT-TCCC---
1 GGGGAATCTGTACCCCTGG
1001111 GGGGAATC-GATACCCCCTGG
1 GGGGAATCTG-TA-CCCCTGG
*
1001131 GGGGAATCTGTTCCCCTGG
1 GGGGAATCTGTACCCCTGG
1001150 GGGGAATCTGTACCTCCTGG
1 GGGGAATCTGTACC-CCTGG
1001170 ACAATCTGAT
Statistics
Matches: 90, Mismatches: 8, Indels: 23
0.74 0.07 0.19
Matches are distributed among these distances:
14 1 0.01
15 18 0.20
16 3 0.03
17 3 0.03
18 3 0.03
19 47 0.52
20 14 0.16
21 1 0.01
ACGTcount: A:0.18, C:0.27, G:0.34, T:0.21
Consensus pattern (19 bp):
GGGGAATCTGTACCCCTGG
Found at i:1004869 original size:30 final size:30
Alignment explanation
Indices: 1004833--1004895 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
1004823 TTAAAATTTG
*
1004833 GATGCATATTATTGGTAATGCATTATAAAT
1 GATGCATATTATTAGTAATGCATTATAAAT
* *
1004863 GATGCATTTTATTAGTGATGCATTATAAAT
1 GATGCATATTATTAGTAATGCATTATAAAT
1004893 GAT
1 GAT
1004896 AAATTTGTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.41
Consensus pattern (30 bp):
GATGCATATTATTAGTAATGCATTATAAAT
Found at i:1004874 original size:16 final size:14
Alignment explanation
Indices: 1004850--1004895 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
1004840 ATTATTGGTA
1004850 ATGCATTATAAATG
1 ATGCATTATAAATG
* *
1004864 ATGCATTTTATTAGTG
1 ATGCA--TTATAAATG
1004880 ATGCATTATAAATG
1 ATGCATTATAAATG
1004894 AT
1 AT
1004896 AAATTTGTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 14 0.54
16 12 0.46
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (14 bp):
ATGCATTATAAATG
Found at i:1007585 original size:3 final size:3
Alignment explanation
Indices: 1007577--1007644 Score: 118
Period size: 3 Copynumber: 22.3 Consensus size: 3
1007567 TGTAATTTTG
1007577 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
1007625 TAT TAT TAT ATAT TAA TAT T
1 TAT TAT TAT -TAT TAT TAT T
1007645 TTTGTAGACC
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
3 59 0.95
4 3 0.05
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:1009471 original size:21 final size:21
Alignment explanation
Indices: 1009445--1009516 Score: 126
Period size: 21 Copynumber: 3.4 Consensus size: 21
1009435 TTACCCCGAT
1009445 GGCCGCAATAGCATCCGCGAC
1 GGCCGCAATAGCATCCGCGAC
1009466 GGCCGCAATAGCATCCGCGAC
1 GGCCGCAATAGCATCCGCGAC
**
1009487 GGCCGCAATAGCGCCCGCGAC
1 GGCCGCAATAGCATCCGCGAC
1009508 GGCCGCAAT
1 GGCCGCAAT
1009517 CACAGTAAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.22, C:0.39, G:0.31, T:0.08
Consensus pattern (21 bp):
GGCCGCAATAGCATCCGCGAC
Found at i:1011922 original size:18 final size:18
Alignment explanation
Indices: 1011885--1011923 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1011875 TTTTTAATAA
*
1011885 AAAATATAAAAAATATTT
1 AAAATATAAAAAATACTT
1011903 AAAATATATAAAAAT-CTT
1 AAAATATA-AAAAATACTT
1011921 AAA
1 AAA
1011924 TTTTTAAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAATATAAAAAATACTT
Found at i:1012296 original size:121 final size:124
Alignment explanation
Indices: 1012057--1012304 Score: 414
Period size: 121 Copynumber: 2.0 Consensus size: 124
1012047 TTTGGTTCTT
* * *
1012057 AAACTTTTAATTTTAATTAAAAATATATCTAAAGTTTAGTTTTTGTTTCATTTTAGTACCCCTAT
1 AAACTTTTAATTTTAATTAAAAATATACCTAAAGTTTAGTTTTTATTTCATTTTAGTACCACTAT
1012122 TCAAAATTTAATGTTGATTTTTTTAAAAAGAATGAAAGTTTAGGTACTAAAACGGATCA
66 TCAAAATTTAATGTTGATTTTTTTAAAAAGAATGAAAGTTTAGGTACTAAAACGGATCA
1012181 AAACTTTTAATTTT-A-TAAAAACTATACCTAAAGTTTAGTTTTTATTTCATTTTAGTACCACT-
1 AAACTTTTAATTTTAATTAAAAA-TATACCTAAAGTTTAGTTTTTATTTCATTTTAGTACCACTA
* *
1012243 TTCTAAATTTAATGTTGA-TTTTTTAAAAAGAATGAAAGTTTAGGTACTAAAACGGATTA
65 TTCAAAATTTAATGTTGATTTTTTTAAAAAGAATGAAAGTTTAGGTACTAAAACGGATCA
1012302 AAA
1 AAA
1012305 TTGATAGTTT
Statistics
Matches: 118, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
121 43 0.36
122 23 0.19
123 38 0.32
124 14 0.12
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.42
Consensus pattern (124 bp):
AAACTTTTAATTTTAATTAAAAATATACCTAAAGTTTAGTTTTTATTTCATTTTAGTACCACTAT
TCAAAATTTAATGTTGATTTTTTTAAAAAGAATGAAAGTTTAGGTACTAAAACGGATCA
Found at i:1014482 original size:13 final size:14
Alignment explanation
Indices: 1014456--1014486 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
1014446 CAAACTAAAT
1014456 AATAAAAACAATTA
1 AATAAAAACAATTA
1014470 AATAAAAAC-ATTA
1 AATAAAAACAATTA
1014483 AATA
1 AATA
1014487 CAAATGTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (14 bp):
AATAAAAACAATTA
Found at i:1015030 original size:21 final size:21
Alignment explanation
Indices: 1014991--1015068 Score: 75
Period size: 21 Copynumber: 3.7 Consensus size: 21
1014981 TAGTGGTGGT
* ** *
1014991 ATCTGAAATGGTTACGATGGA
1 ATCTAAAATGGTTGTGATGGC
* *
1015012 ATCGAAAATGGTTGTGATGTC
1 ATCTAAAATGGTTGTGATGGC
* *
1015033 ATTTAAAATGGTTGTGGTGGC
1 ATCTAAAATGGTTGTGATGGC
*
1015054 ATCTAAAATGATTGT
1 ATCTAAAATGGTTGT
1015069 AGAATATAAA
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.35
Consensus pattern (21 bp):
ATCTAAAATGGTTGTGATGGC
Found at i:1021429 original size:17 final size:18
Alignment explanation
Indices: 1021397--1021434 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
1021387 AGTTTGATTA
1021397 AAAATAAAAAAATTTATT
1 AAAATAAAAAAATTTATT
*
1021415 AAAAT-AAAAACTTTATT
1 AAAATAAAAAAATTTATT
1021432 AAA
1 AAA
1021435 GTAGCTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAATAAAAAAATTTATT
Found at i:1023321 original size:14 final size:14
Alignment explanation
Indices: 1023302--1023331 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1023292 ATATATCCAA
*
1023302 ATATTTCTCAAGTG
1 ATATTTCTCAAATG
1023316 ATATTTCTCAAATG
1 ATATTTCTCAAATG
1023330 AT
1 AT
1023332 TAGACGATGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.43
Consensus pattern (14 bp):
ATATTTCTCAAATG
Found at i:1024190 original size:21 final size:21
Alignment explanation
Indices: 1024135--1024190 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
1024125 TTAGGGTTAT
*
1024135 AGTATCGATACTCATCTCTAG
1 AGTATCGATACTCCTCTCTAG
1024156 AGTATCGATACTCCTCTCTAG
1 AGTATCGATACTCCTCTCTAG
*
1024177 AGTACCGATACTCC
1 AGTATCGATACTCC
1024191 CCTAATAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (21 bp):
AGTATCGATACTCCTCTCTAG
Found at i:1027637 original size:29 final size:29
Alignment explanation
Indices: 1027594--1027676 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
1027584 CTCACCTAAC
1027594 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
1027624 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
1027653 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
1027677 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:1032388 original size:29 final size:29
Alignment explanation
Indices: 1032345--1032427 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
1032335 CTCACCTAAC
1032345 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
1032375 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
1032404 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
1032428 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:1035924 original size:16 final size:16
Alignment explanation
Indices: 1035880--1035929 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 16
1035870 TTCCTCATAT
1035880 CAAAGATAAAAATGAAAA
1 CAAA-ATAAAAAT-AAAA
*
1035898 CAAAA-ATAAAATAAGA
1 CAAAATA-AAAATAAAA
1035914 CAAAATAAAAATAAAA
1 CAAAATAAAAATAAAA
1035930 TGAGGTGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
16 17 0.61
17 7 0.25
18 4 0.14
ACGTcount: A:0.76, C:0.06, G:0.06, T:0.12
Consensus pattern (16 bp):
CAAAATAAAAATAAAA
Done.