Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 161 of 444
Found at i:44200459 original size:23 final size:23
Alignment explanation
Indices: 44200426--44200469 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
44200416 GAGAAACAAG
*
44200426 AATATCGCCTTAGTAAAAGTGCT
1 AATATCACCTTAGTAAAAGTGCT
44200449 AATATCACCTTAGTAAAAGTG
1 AATATCACCTTAGTAAAAGTG
44200470 TTATGGCATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.30
Consensus pattern (23 bp):
AATATCACCTTAGTAAAAGTGCT
Found at i:44201869 original size:48 final size:48
Alignment explanation
Indices: 44201813--44202091 Score: 319
Period size: 48 Copynumber: 5.8 Consensus size: 48
44201803 ATGCCTGTGT
44201813 TATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGA
1 TATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGA
* * * *
44201861 TATATGTGCCTATGTAAGACTATGTCTGGGACATGGCATCGGCAATGA
1 TATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGA
* * ** *
44201909 TATATGTGCCTATGTGAGACCATGTCTATGACATGGCATC-GATGATGA
1 TATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAG-CGATGA
** * * * *
44201957 TATATGTGTTTGTGTAAGACCATGTCTGGGATATGGTATCGGCAATGA
1 TATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGA
* * * * * *
44202005 TATGTGTGCCAGTGTAAGATCGTTTCTGGGACATGGCTTCAGCGATGA
1 TATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGA
* *
44202053 TATGTGTGCCAGTGTAAGACCATGT-TGGGGACATGGCAT
1 TATATGTGCCTGTGTAAGACCATGTCT-GGGACATGGCAT
44202092 TGGTACTTTA
Statistics
Matches: 192, Mismatches: 36, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
47 2 0.01
48 189 0.98
49 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (48 bp):
TATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGA
Found at i:44202073 original size:144 final size:144
Alignment explanation
Indices: 44201813--44202077 Score: 358
Period size: 144 Copynumber: 1.8 Consensus size: 144
44201803 ATGCCTGTGT
*
44201813 TATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATATGTGCCTATGTAA
1 TATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCAATGATATATGTGCCTATGTAA
* *
44201878 GACTATGTCTGGGACATGGCATCGGCAATGATATATGTGCCTATGTGAGACCATGTCTATGACAT
66 GACTATGTCTGGGACATGGCATCAGCAATGATATATGTGCCTATGTAAGACCATGTCTATGACAT
44201943 GGCATCGATGATGA
131 GGCATCGATGATGA
** * * * *
44201957 TATATGTGTTTGTGTAAGACCATGTCTGGGATATGGTATCGGCAATGATATGTGTGCC-AGTGTA
1 TATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCAATGATATATGTGCCTA-TGTA
* * *
44202021 AGATCGT-T-TCTGGGACATGGCTTCAGCGATGATATGTGTGCC-AGTGTAAGACCATGT
65 AGA-C-TATGTCTGGGACATGGCATCAGCAATGATATATGTGCCTA-TGTAAGACCATGT
44202078 TGGGGACATG
Statistics
Matches: 105, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
143 2 0.02
144 100 0.95
145 2 0.02
146 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (144 bp):
TATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCAATGATATATGTGCCTATGTAA
GACTATGTCTGGGACATGGCATCAGCAATGATATATGTGCCTATGTAAGACCATGTCTATGACAT
GGCATCGATGATGA
Found at i:44209718 original size:42 final size:43
Alignment explanation
Indices: 44209617--44209756 Score: 111
Period size: 43 Copynumber: 3.3 Consensus size: 43
44209607 CGCATCCATT
* * * * * ** *
44209617 ACGAACTTGGACCACTCAACGAGCTCAGATGCTCGCATCCATA
1 ACGAACTCGGACCACTCAACAAGTTCGGATGCTCACATAAATC
* * * ** *
44209660 ATGAACTCAGATCACTCAATGAGTTTGGATGC-CACATAAATC
1 ACGAACTCGGACCACTCAACAAGTTCGGATGCTCACATAAATC
* * * *
44209702 ATGAACTTGGACCACTCAACAAGTTCGGATTCTCACATATATC
1 ACGAACTCGGACCACTCAACAAGTTCGGATGCTCACATAAATC
44209745 ACGAACTCGGAC
1 ACGAACTCGGAC
44209757 AGCTAAATGA
Statistics
Matches: 74, Mismatches: 22, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
42 31 0.42
43 43 0.58
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (43 bp):
ACGAACTCGGACCACTCAACAAGTTCGGATGCTCACATAAATC
Found at i:44211334 original size:43 final size:44
Alignment explanation
Indices: 44211192--44211335 Score: 147
Period size: 43 Copynumber: 3.4 Consensus size: 44
44211182 TGTGTTCTCG
* * *
44211192 TGTAAGACCACGTCTGGGAC-GTGGGCATCGATATGTGATTACT
1 TGTAAGACCACGTCTTGGACAGTCGGCATCGATATGTGATTACA
* * * * * **
44211235 TCTAAGACCATGTCTAGGACA-TCAGCATCG-TATTTGATT-TG
1 TGTAAGACCACGTCTTGGACAGTCGGCATCGATATGTGATTACA
44211276 TGTAAGACC-CTGTCTTGGACAGT-GGCATCGATATGTGATTACA
1 TGTAAGACCAC-GTCTTGGACAGTCGGCATCGATATGTGATTACA
44211319 TGTAAGACCACGTCTTG
1 TGTAAGACCACGTCTTG
44211336 TATGTTGACA
Statistics
Matches: 80, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
41 23 0.29
42 17 0.21
43 39 0.49
44 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (44 bp):
TGTAAGACCACGTCTTGGACAGTCGGCATCGATATGTGATTACA
Found at i:44211540 original size:19 final size:18
Alignment explanation
Indices: 44211516--44211559 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
44211506 GATACTAATT
44211516 ATATATGATGCAAATGAAA
1 ATATATG-TGCAAATGAAA
* *
44211535 ATATATGTGTATATGAAA
1 ATATATGTGCAAATGAAA
44211553 AGTATAT
1 A-TATAT
44211560 AGGTTATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.48, C:0.02, G:0.16, T:0.34
Consensus pattern (18 bp):
ATATATGTGCAAATGAAA
Found at i:44214414 original size:40 final size:40
Alignment explanation
Indices: 44214287--44214416 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
44214277 ATGCTGGAAA
* *
44214287 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
44214327 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
44214367 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
44214407 TTATATCCGG
1 TTATATCCGG
44214417 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:44225447 original size:40 final size:40
Alignment explanation
Indices: 44225320--44225449 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
44225310 ATGCTGGAAA
* *
44225320 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
44225360 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
44225400 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
44225440 TTATATCCGG
1 TTATATCCGG
44225450 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:44233333 original size:40 final size:40
Alignment explanation
Indices: 44233245--44233334 Score: 121
Period size: 40 Copynumber: 2.2 Consensus size: 40
44233235 ATGCTGGAAA
*
44233245 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGG
* *
44233285 CTACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTA-GTGG
44233325 TTATATCCGG
1 TTATATCCGG
44233335 TTGTATTCCG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
39 4 0.09
40 39 0.91
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGG
Found at i:44254231 original size:124 final size:124
Alignment explanation
Indices: 44254009--44254233 Score: 326
Period size: 124 Copynumber: 1.8 Consensus size: 124
44253999 GAATTATGTG
* * * * * * *
44254009 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
* **
44254074 GCTAAGTCCCGAAGGCGATTATGCTAGTGATTATATTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTAGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
*
44254133 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
*
44254198 GCTAAGTCCCGAAGACG-TTATTGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGATTA-TGCTAGAAATTATAT
44254234 CCGGGTTAAG
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
123 3 0.03
124 85 0.97
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTAGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
Found at i:44254276 original size:40 final size:41
Alignment explanation
Indices: 44254231--44254335 Score: 137
Period size: 40 Copynumber: 2.6 Consensus size: 41
44254221 CTGGAAATTA
* *
44254231 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAG-CGGCTAC
1 TATCCGGGCTAAGACCCGAAGGCAATTCGTGCGAGTC-G-TAC
*
44254272 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCGTTC
1 TATCCGGGCTAAGACCCGAAGGCAATTCGTGCGAGTCGTAC
44254311 TATCCGGGCTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCAA
44254336 CATCCGAGGT
Statistics
Matches: 57, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
39 5 0.09
40 50 0.88
41 2 0.04
ACGTcount: A:0.25, C:0.27, G:0.30, T:0.19
Consensus pattern (41 bp):
TATCCGGGCTAAGACCCGAAGGCAATTCGTGCGAGTCGTAC
Found at i:44254603 original size:124 final size:124
Alignment explanation
Indices: 44254381--44254605 Score: 317
Period size: 124 Copynumber: 1.8 Consensus size: 124
44254371 GAATTATGTG
* * * * * * *
44254381 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
* **
44254446 GCTAAGTCCCGAAGGCGATTACGCTAGTGATTATATTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTACGCTAGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
*
44254505 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
* *
44254570 GCTAAGTCCCGAAGAC-ATTATTGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGATTA-CGCTAGAAATTATAT
44254606 CCGGGTTAAG
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
123 4 0.05
124 83 0.95
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTACGCTAGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
Found at i:44254646 original size:372 final size:372
Alignment explanation
Indices: 44253961--44254673 Score: 1408
Period size: 372 Copynumber: 1.9 Consensus size: 372
44253951 AGCCGTTCGA
44253961 CAACATCCGAGGTAAGTCCTCAAGAAGTGACCCTACTTGAATTATGTGAAATGAAATATGGATGT
1 CAACATCCGAGGTAAGTCCTCAAGAAGTGACCCTACTTGAATTATGTGAAATGAAATATGGATGT
44254026 GTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGGGCTAAGTCCCGAAGGCG
66 GTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGGGCTAAGTCCCGAAGGCG
*
44254091 ATTATGCTAGTGATTATATTTGTGTTTGAGCCTTAGTAACGAAAATGAAATATGAATGTCTAATG
131 ATTACGCTAGTGATTATATTTGTGTTTGAGCCTTAGTAACGAAAATGAAATATGAATGTCTAATG
*
44254156 ATTATTGATGTATGTGTGCATGAGCAATTGAATGATATCCGGGCTAAGTCCCGAAGACGTTATTG
196 ATTATTGATGTATGTGTGCATGAGCAATTGAATGATATCCGGGCTAAGTCCCGAAGACATTATTG
44254221 CTGGAAATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGCTACATCCGGGCTAAGAC
261 CTGGAAATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGCTACATCCGGGCTAAGAC
44254286 CCGAAGGCATTCGTGCGAGTCGTTCTATCCGGGCTAAGACCCGAAGG
326 CCGAAGGCATTCGTGCGAGTCGTTCTATCCGGGCTAAGACCCGAAGG
44254333 CAACATCCGAGGTAAGTCCTCAAGAAGTGACCCTACTTGAATTATGTGAAATGAAATATGGATGT
1 CAACATCCGAGGTAAGTCCTCAAGAAGTGACCCTACTTGAATTATGTGAAATGAAATATGGATGT
44254398 GTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGGGCTAAGTCCCGAAGGCG
66 GTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGGGCTAAGTCCCGAAGGCG
44254463 ATTACGCTAGTGATTATATTTGTGTTTGAGCCTTAGTAACGAAAATGAAATATGAATGTCTAATG
131 ATTACGCTAGTGATTATATTTGTGTTTGAGCCTTAGTAACGAAAATGAAATATGAATGTCTAATG
44254528 ATTATTGATGTATGTGTGCATGAGCAATTGAATGATATCCGGGCTAAGTCCCGAAGACATTATTG
196 ATTATTGATGTATGTGTGCATGAGCAATTGAATGATATCCGGGCTAAGTCCCGAAGACATTATTG
44254593 CTGGAAATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGCTACATCCGGGCTAAGAC
261 CTGGAAATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGCTACATCCGGGCTAAGAC
44254658 CCGAAGGCATTCGTGC
326 CCGAAGGCATTCGTGC
44254674 ACGTGGTTAT
Statistics
Matches: 339, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
372 339 1.00
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (372 bp):
CAACATCCGAGGTAAGTCCTCAAGAAGTGACCCTACTTGAATTATGTGAAATGAAATATGGATGT
GTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGGGCTAAGTCCCGAAGGCG
ATTACGCTAGTGATTATATTTGTGTTTGAGCCTTAGTAACGAAAATGAAATATGAATGTCTAATG
ATTATTGATGTATGTGTGCATGAGCAATTGAATGATATCCGGGCTAAGTCCCGAAGACATTATTG
CTGGAAATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGCTACATCCGGGCTAAGAC
CCGAAGGCATTCGTGCGAGTCGTTCTATCCGGGCTAAGACCCGAAGG
Found at i:44254688 original size:40 final size:40
Alignment explanation
Indices: 44254600--44254689 Score: 112
Period size: 40 Copynumber: 2.2 Consensus size: 40
44254590 TTGCTGGAAA
*
44254600 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGCGG
* * *
44254640 CTACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTA-GCGG
44254680 TTATATCCGG
1 TTATATCCGG
44254690 TTGTATTCCG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
39 4 0.10
40 38 0.90
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.23
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGCGG
Found at i:44256503 original size:40 final size:40
Alignment explanation
Indices: 44256449--44256673 Score: 265
Period size: 40 Copynumber: 5.6 Consensus size: 40
44256439 CTTGCACAAG
* * * *
44256449 GCCTTCAGGTCTTAGCCCGGATATGGTCACTAGCACAGAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* *
44256489 GCCTTCGGGACTTAGCCCAGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
44256529 GCCTTCGGGTCTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
44256569 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
44256609 GCCTTC-GGATCTTAGTCCAGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAAT
44256650 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
44256674 CATTCGAATA
Statistics
Matches: 157, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
39 3 0.02
40 125 0.80
41 26 0.17
42 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:44256544 original size:80 final size:80
Alignment explanation
Indices: 44256413--44256673 Score: 294
Period size: 80 Copynumber: 3.3 Consensus size: 80
44256403 CTCAAGTAAT
* * * * * * * *
44256413 CTTCGGGATTTAG-CAGGATATAACTACTTGCAC-AAGGCCTTCAGGTCTTAGCCCGGATATGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
44256476 CACTAGCACAGATGC
66 CACTAGCACAAATGC
* * *
44256491 CTTCGGGACTTAGCCCAGATATAGTC-GCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
*
44256555 TCGCTAGCACAAATGC
65 TCACTAGCACAAATGC
* * * * * * *
44256571 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCAGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
44256636 CACCTAGCACAAAAGC
66 CA-CTAGCACAAATGC
44256652 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
44256674 CATTCGAATA
Statistics
Matches: 153, Mismatches: 25, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
78 12 0.08
79 14 0.09
80 94 0.61
81 33 0.22
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:44258462 original size:250 final size:251
Alignment explanation
Indices: 44258021--44258514 Score: 963
Period size: 250 Copynumber: 2.0 Consensus size: 251
44258011 TCACGGCAAT
44258021 GGGGGGGGGAACAATCACACACATTCTTTCTTTCTTTCTTTTTTTTCTCATCCTACTAACACTAA
1 GGGGGGGGGAACAATCACACACATTCTTTCTTTCTTTCTTTTTTTTCTCATCCTACTAACACTAA
*
44258086 TACTTTATTGCCCATGCTCTTTATTTTATTATTCCTTACATGAAGCATTAACCCAACATGTTTAT
66 TACTTTATTGCCCATGCTCTTTATTTTATTATTCCTTACATGAAGCATTAACCCAACATGTTCAT
44258151 GACATGTTTTAGCCATAACATTTTGTCCACCCTCATGCTCATGGCCGGCCACTACTAATTA-GGG
131 GACATGTTTTAGCCATAACATTTTGTCCACCCTCATGCTCATGGCCGGCCACTACTAATTAGGGG
44258215 GGGAAAATTGACATGCAAGTCCTGCCTTTCGATTACATGCACTATTAGAGCAATGG
196 GGGAAAATTGACATGCAAGTCCTGCCTTTCGATTACATGCACTATTAGAGCAATGG
44258271 GGGGGGGGGAACAATCACACACATTCTTTCTTTCTTTCTTTTTTTTCTCATCCTACTAACACTAA
1 GGGGGGGGGAACAATCACACACATTCTTTCTTTCTTTCTTTTTTTTCTCATCCTACTAACACTAA
44258336 TACTTTATTGCCCATGCTCTTTATTTTATTATTCCTTACATGAAGCATTAACCCAACATGTTCAT
66 TACTTTATTGCCCATGCTCTTTATTTTATTATTCCTTACATGAAGCATTAACCCAACATGTTCAT
44258401 GACATGTTTTAGCCATAACATTTTGTCCACCCTCATGCTCATGGCCGGCCACTACTAATTAGGGG
131 GACATGTTTTAGCCATAACATTTTGTCCACCCTCATGCTCATGGCCGGCCACTACTAATTAGGGG
*
44258466 GGGGAAATTGACATGCAAGTCCTGCCTTTCGATTACATGCACTATTAGA
196 GGGAAAATTGACATGCAAGTCCTGCCTTTCGATTACATGCACTATTAGA
44258515 TCCTTATAGA
Statistics
Matches: 241, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
250 190 0.79
251 51 0.21
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (251 bp):
GGGGGGGGGAACAATCACACACATTCTTTCTTTCTTTCTTTTTTTTCTCATCCTACTAACACTAA
TACTTTATTGCCCATGCTCTTTATTTTATTATTCCTTACATGAAGCATTAACCCAACATGTTCAT
GACATGTTTTAGCCATAACATTTTGTCCACCCTCATGCTCATGGCCGGCCACTACTAATTAGGGG
GGGAAAATTGACATGCAAGTCCTGCCTTTCGATTACATGCACTATTAGAGCAATGG
Found at i:44264959 original size:40 final size:40
Alignment explanation
Indices: 44264869--44265129 Score: 264
Period size: 40 Copynumber: 6.5 Consensus size: 40
44264859 CTCAAGTAAT
* * * *
44264869 CTTCGGGATTTAG-CCGGATATA-ACTACTTGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
44264907 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
44264947 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * * *
44264987 CTTTGGGTCTTAGCCCGGATATAATCGCTAGCACAAATAC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
44265027 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* *
44265067 CTTC-GGATCTTAGTCC-GATTATAGTCACCTAGCACAAAAGC
1 CTTCGGGA-CTTAGCCCGGA-TATAGTCA-CTAGCACAAATGC
*
44265108 CTTCGGGACTTATCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
44265130 CATTCGAATA
Statistics
Matches: 185, Mismatches: 28, Indels: 17
0.80 0.12 0.07
Matches are distributed among these distances:
38 11 0.06
39 20 0.11
40 125 0.68
41 24 0.13
42 5 0.03
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:44265000 original size:80 final size:80
Alignment explanation
Indices: 44264869--44265129 Score: 296
Period size: 80 Copynumber: 3.3 Consensus size: 80
44264859 CTCAAGTAAT
* * * * * *
44264869 CTTCGGGATTTAG-CCGGATATAACTACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
44264932 CACTAGCACAGATGC
66 CACTAGCACAAATGC
* * *
44264947 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTTGGGTCTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
* *
44265011 TCGCTAGCACAAATAC
65 TCACTAGCACAAATGC
* * * * *
44265027 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCC-GATTATAG
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGA-TATAG
*
44265091 TCACCTAGCACAAAAGC
65 TCA-CTAGCACAAATGC
*
44265108 CTTCGGGACTTATCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
44265130 CATTCGAATA
Statistics
Matches: 153, Mismatches: 24, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
78 12 0.08
79 18 0.12
80 92 0.60
81 31 0.20
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:44274015 original size:79 final size:82
Alignment explanation
Indices: 44273875--44274059 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
44273865 TCGAATGATG
* * *
44273875 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
44273939 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
44273955 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
44274017 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
44274035 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
44274060 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:44274067 original size:40 final size:40
Alignment explanation
Indices: 44273876--44274067 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
44273866 CGAATGATGT
* * * * *
44273876 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
44273916 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
44273956 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
44273995 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
44274035 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
44274068 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:44274090 original size:79 final size:79
Alignment explanation
Indices: 44273875--44274092 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
44273865 TCGAATGATG
* * * * ** *
44273875 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
44273938 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
44273955 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
44274020 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
44274035 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
44274093 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:44282028 original size:79 final size:82
Alignment explanation
Indices: 44281888--44282072 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
44281878 TCGAATGATG
* * *
44281888 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
44281952 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
44281968 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
44282030 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
44282048 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
44282073 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:44282080 original size:40 final size:40
Alignment explanation
Indices: 44281889--44282080 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
44281879 CGAATGATGT
* * * * *
44281889 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
44281929 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
44281969 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
44282008 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
44282048 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
44282081 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:44282103 original size:79 final size:79
Alignment explanation
Indices: 44281888--44282105 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
44281878 TCGAATGATG
* * * * ** *
44281888 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
44281951 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
44281968 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
44282033 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
44282048 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
44282106 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:44288286 original size:28 final size:29
Alignment explanation
Indices: 44288188--44288286 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
44288178 TCACAAATTG
* *
44288188 GCACTAAGTGTGCGGGTTCAAAT-TGTATA
1 GCACTAAGTGTGCGAGTTCGAATAT-TATA
* * *
44288217 GCACTAAGTGTGCAAGTTTGATTA-TATA
1 GCACTAAGTGTGCGAGTTCGAATATTATA
*
44288245 GCACTAAGTGTGCGAGTTCGACTATTA-A
1 GCACTAAGTGTGCGAGTTCGAATATTATA
44288273 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
44288287 GGCTTATTAC
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 40 0.67
29 20 0.33
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTCGAATATTATA
Found at i:44290988 original size:46 final size:46
Alignment explanation
Indices: 44290935--44291107 Score: 163
Period size: 46 Copynumber: 3.7 Consensus size: 46
44290925 TGGTTGAGCA
*
44290935 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * * *
44290981 TCTGAACTCGTTAAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
44291028 TCCGAACTCGTTGATTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
44291074 CCCGAGCTCATTGAGTTGAGTTCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
44291108 GGGGCGGGTT
Statistics
Matches: 99, Mismatches: 21, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 56 0.57
47 26 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:44291091 original size:93 final size:93
Alignment explanation
Indices: 44290932--44291102 Score: 252
Period size: 93 Copynumber: 1.8 Consensus size: 93
44290922 GGATGGTTGA
* * * *
44290932 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTAAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTAAGT
44290997 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * * *
44291025 GCATCCGAACTCGTTGATTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTAAGT
*
44291090 TGAGTTCGAGTTC
66 TGAGTCCGAGTTC
44291103 ACTTAGGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTAAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:44291369 original size:19 final size:20
Alignment explanation
Indices: 44291332--44291369 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
44291322 ATAAGGTGGT
44291332 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
44291352 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
44291370 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:44296629 original size:24 final size:23
Alignment explanation
Indices: 44296602--44296648 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
44296592 ACGCAACTCT
*
44296602 TTATGAGCGTCCTGATATAGGCTC
1 TTATGAGCGTCCTGAGAT-GGCTC
*
44296626 TTATGAGCTTCCTGAGATGGCTC
1 TTATGAGCGTCCTGAGATGGCTC
44296649 GCTTGAACTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.34
Consensus pattern (23 bp):
TTATGAGCGTCCTGAGATGGCTC
Found at i:44300542 original size:43 final size:43
Alignment explanation
Indices: 44300492--44300648 Score: 167
Period size: 43 Copynumber: 3.7 Consensus size: 43
44300482 TATCCCAGAT
* * *
44300492 ATGGTCTTACATGTTATCACATATCGATGCCACTGTCCTAGAC
1 ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCTAGAC
* * *
44300535 AGGGTCTTACACGTAATCGA-TTAACGATGCCAATGTCCTAGAC
1 ATGGTCTTACACGTAATC-ACATATCGATGCCAATGTCCTAGAC
* *
44300578 ATGGTCTTACACGTAATCACA-ATACAATGCCAATGTCAC-AGAA
1 ATGGTCTTACACGTAATCACATAT-CGATGCCAATGTC-CTAGAC
* * *
44300621 ATGGTCTTACATGTAATCTCATCTCGAT
1 ATGGTCTTACACGTAATCACATATCGAT
44300649 AACCTAATGT
Statistics
Matches: 94, Mismatches: 15, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
42 2 0.02
43 89 0.95
44 3 0.03
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCTAGAC
Found at i:44318557 original size:40 final size:40
Alignment explanation
Indices: 44318502--44318749 Score: 331
Period size: 40 Copynumber: 6.2 Consensus size: 40
44318492 TGAATGATAC
* * *
44318502 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
44318542 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
44318582 CCGGGCTAAGACCCGAAGCCATTTGTGCGAGTT-TCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGT-TATAT
*
44318622 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * *
44318662 CCGGGCTAAGACCCGAAGGCATTTGTACGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
44318702 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
44318742 CC-GGCTAA
1 CCGGGCTAA
44318750 ATTCCGAAGA
Statistics
Matches: 184, Mismatches: 21, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 6 0.03
40 175 0.95
41 3 0.02
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:44325130 original size:40 final size:40
Alignment explanation
Indices: 44325061--44325224 Score: 226
Period size: 40 Copynumber: 4.2 Consensus size: 40
44325051 AACCCAAGTA
* * *
44325061 CCTTTGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
44325100 CCTTCGGGACATAGCCCGGATACAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
44325140 CCTTCGGGATTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
44325180 CCTT-GAGACTTAG-CCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
44325218 CCTTCGG
1 CCTTCGG
44325225 ATCTTAGTCC
Statistics
Matches: 110, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
38 27 0.25
39 19 0.17
40 64 0.58
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:44333180 original size:40 final size:40
Alignment explanation
Indices: 44333111--44333276 Score: 244
Period size: 40 Copynumber: 4.2 Consensus size: 40
44333101 AATCCAAGTA
* * * *
44333111 CCTTCGAGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATG
*
44333150 CCTTCGGGACATAGCCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATG
44333190 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATG
* * * *
44333230 CCTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATG
44333270 CCTTCGG
1 CCTTCGG
44333277 ATCTTAGTCC
Statistics
Matches: 115, Mismatches: 11, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
39 11 0.10
40 104 0.90
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATG
Found at i:44336294 original size:49 final size:49
Alignment explanation
Indices: 44336241--44336467 Score: 306
Period size: 47 Copynumber: 4.8 Consensus size: 49
44336231 TTAGGATTTT
* * *
44336241 ATGTGATGAATGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCA
* *
44336290 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCA
*
44336337 ATGTGATGAATGTGAAGGTGTATATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCA
*
44336386 ATGTGATGAATGTGAAAGTG--TATATATGTGAT-AGGACCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG-CCGAATGGCCA
* * *
44336433 ACGTGATGGATGTGGAAGTGTATA-A-ATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
44336468 TCCCGAAGGG
Statistics
Matches: 163, Mismatches: 9, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
46 3 0.02
47 92 0.56
48 3 0.02
49 65 0.40
ACGTcount: A:0.32, C:0.07, G:0.31, T:0.29
Consensus pattern (49 bp):
ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCA
Found at i:44336342 original size:96 final size:96
Alignment explanation
Indices: 44336241--44336467 Score: 345
Period size: 96 Copynumber: 2.4 Consensus size: 96
44336231 TTAGGATTTT
* *
44336241 ATGTGATGAATGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAGGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
* *
44336306 AGTGTATATATGTGATAAGG-CCTAATGGCCG
66 AGTGTATATATGTGAT-AGGACCGAATGGCCA
44336337 ATGTGATGAATGTGAAGGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAGGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
*
44336402 AGTGTATATATGTGATAGGACCGAGTGGCCA
66 AGTGTATATATGTGATAGGACCGAATGGCCA
* *
44336433 ACGTGATGGATGTGGAA-GTGTATA-A-ATGTGATAAG
1 ATGTGATGAATGT-GAAGGTGTATATATATGTGATAAG
44336468 TCCCGAAGGG
Statistics
Matches: 122, Mismatches: 7, Indels: 6
0.90 0.05 0.04
Matches are distributed among these distances:
94 10 0.08
95 4 0.03
96 105 0.86
97 3 0.02
ACGTcount: A:0.32, C:0.07, G:0.31, T:0.29
Consensus pattern (96 bp):
ATGTGATGAATGTGAAGGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
AGTGTATATATGTGATAGGACCGAATGGCCA
Found at i:44337248 original size:40 final size:40
Alignment explanation
Indices: 44337193--44337280 Score: 176
Period size: 40 Copynumber: 2.2 Consensus size: 40
44337183 ATCTTATGGC
44337193 ATGTATAGAATAGACTAGTAGTGAGAGGATATTTTGGTTA
1 ATGTATAGAATAGACTAGTAGTGAGAGGATATTTTGGTTA
44337233 ATGTATAGAATAGACTAGTAGTGAGAGGATATTTTGGTTA
1 ATGTATAGAATAGACTAGTAGTGAGAGGATATTTTGGTTA
44337273 ATGTATAG
1 ATGTATAG
44337281 GACTACCCTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.35, C:0.02, G:0.27, T:0.35
Consensus pattern (40 bp):
ATGTATAGAATAGACTAGTAGTGAGAGGATATTTTGGTTA
Found at i:44345437 original size:46 final size:46
Alignment explanation
Indices: 44345370--44345544 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
44345360 TGTAACCCGC
44345370 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
44345416 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * ** *
44345466 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
44345509 CCATAAGTGAACTCGGACTCAACTCGACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
44345545 ATGCTCAACC
Statistics
Matches: 108, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 62 0.57
47 26 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:44345490 original size:93 final size:93
Alignment explanation
Indices: 44345378--44345548 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
44345368 GCCCATAAGT
** *
44345378 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
44345443 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* *
44345471 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCGA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
44345536 CGAGTTCGGATGC
66 CGAGCTCGGATGC
44345549 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:44349777 original size:6 final size:6
Alignment explanation
Indices: 44349750--44349790 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
44349740 TGAATCCTGT
* * *
44349750 TTTTTA TTTCTA TTTCTA TTTTTA TTTTTA TGTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
44349791 TGTTATAAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:44350749 original size:8 final size:8
Alignment explanation
Indices: 44350736--44350764 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
44350726 TAACCCTCGT
44350736 CATTAACC
1 CATTAACC
44350744 CATTAACC
1 CATTAACC
44350752 CATTAACC
1 CATTAACC
44350760 CATTA
1 CATTA
44350765 TTGTTGAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.34, G:0.00, T:0.28
Consensus pattern (8 bp):
CATTAACC
Found at i:44352884 original size:38 final size:40
Alignment explanation
Indices: 44352771--44352953 Score: 171
Period size: 40 Copynumber: 4.7 Consensus size: 40
44352761 ACGACTCGCT
** * *
44352771 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTTGCA
* * *
44352811 CGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCA
* *
44352851 CAAATGCCTTC-GG-CTTAGCCCGGATTTATTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCA
* * * * *
44352889 CGAATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTT-GCA
44352930 CAAA-G-CTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44352954 CATCATTCGA
Statistics
Matches: 117, Mismatches: 21, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
38 33 0.28
39 15 0.13
40 61 0.52
41 8 0.07
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCA
Found at i:44360872 original size:79 final size:81
Alignment explanation
Indices: 44360771--44360955 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
44360761 ACGACTCGCT
** * *
44360771 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
44360834 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
44360851 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
44360915 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
44360931 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44360956 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:44360955 original size:40 final size:39
Alignment explanation
Indices: 44360764--44360955 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
44360754 GGATATAACG
* ** * *
44360764 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
44360804 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
44360844 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
44360883 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
44360923 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
44360956 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:44363995 original size:39 final size:40
Alignment explanation
Indices: 44363951--44364074 Score: 171
Period size: 39 Copynumber: 3.1 Consensus size: 40
44363941 CGGAATACAA
* * *
44363951 CCGGATATAACCACATGCACGAATG-CTTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGC
* * *
44363990 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGC
*
44364030 CC-GATTTAACAACTTGCACGAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGC
44364069 CCGGAT
1 CCGGAT
44364075 GTGGTCACTA
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
39 56 0.76
40 18 0.24
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGC
Found at i:44372039 original size:40 final size:40
Alignment explanation
Indices: 44371980--44372187 Score: 188
Period size: 40 Copynumber: 5.2 Consensus size: 40
44371970 CGGAATACAA
* * * *
44371980 CCGGATATAACCACATGCACGAATGCCTTCAGGTCTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGC
* * *
44372020 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGC
*
44372060 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGC
* ** * * *
44372100 CCGGATGTGGTC-ACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATAT-AACAACTTGCACGAAT-GCCTTCGGGTATTAGC
** * ** *
44372140 CCGGATATAATTACTAGCATAAATGTCTTCGGG-ACTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTA-TTAGC
44372180 CCGGATAT
1 CCGGATAT
44372188 CATTCAATTG
Statistics
Matches: 139, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
39 3 0.02
40 132 0.95
41 4 0.03
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGC
Found at i:44372120 original size:80 final size:80
Alignment explanation
Indices: 44371980--44372186 Score: 213
Period size: 80 Copynumber: 2.6 Consensus size: 80
44371970 CGGAATACAA
* * * * *
44371980 CCGGATATAACCACATGCACGAATGCCTTCAGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGCCCGGATAGAACGACTAGCAC-AATG
*
44372044 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
44372060 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTATTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGCCCGGAT-AGAACGACTAGCACAATG
*
44372124 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** *
44372140 CCGGATATAATTACTAGCATAAATGTCTTCGGG-ACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTA-TTAGCCCGGATA
44372187 TCATTCAATT
Statistics
Matches: 105, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
79 4 0.04
80 99 0.94
81 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:44380776 original size:48 final size:48
Alignment explanation
Indices: 44380604--44380777 Score: 222
Period size: 48 Copynumber: 3.6 Consensus size: 48
44380594 TAAAGTACCA
** * *
44380604 ATGCCATGTCCCAGACATGGTCTTACATTGGCACACATGTCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATTGCCG
* * * *
44380652 ATGCCATGTCCCAGACATGGTCTTACACTGACACACATATCAATGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATTGCCG
* *
44380700 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCCTTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATTGCCG
* ** *
44380748 ATGCCATTTCTTAGAAATGGTCTTACACAG
1 ATGCCATGTCCCAGACATGGTCTTACACAG
44380778 AATCTCATTT
Statistics
Matches: 110, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 110 1.00
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATTGCCG
Found at i:44381964 original size:19 final size:19
Alignment explanation
Indices: 44381919--44381956 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
44381909 TCATAACATC
44381919 CATAAAATAATTATTTCTA
1 CATAAAATAATTATTTCTA
44381938 CATAAAATAATTATTTCTA
1 CATAAAATAATTATTTCTA
44381957 TCTCAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (19 bp):
CATAAAATAATTATTTCTA
Found at i:44385374 original size:20 final size:19
Alignment explanation
Indices: 44385328--44385379 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 19
44385318 AAAATACTAA
*
44385328 CTATGAAAGAAATATAAATG
1 CTATGAAA-AAAAATAAATG
44385348 CT-T-AAAAATAAATAAATG
1 CTATGAAAAA-AAATAAATG
*
44385366 CTATGAAAAGAAAT
1 CTATGAAAAAAAAT
44385380 TCCCCCCCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
17 2 0.07
18 13 0.48
19 6 0.22
20 6 0.22
ACGTcount: A:0.58, C:0.06, G:0.12, T:0.25
Consensus pattern (19 bp):
CTATGAAAAAAAATAAATG
Found at i:44387305 original size:20 final size:20
Alignment explanation
Indices: 44387239--44387305 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
44387229 ATTTTGATAA
*
44387239 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
44387259 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
44387279 ACATGATATGTATGACATGC
1 ACATGATATGTATGATATGC
44387299 ACATGAT
1 ACATGAT
44387306 GTATTTATGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:44387477 original size:23 final size:23
Alignment explanation
Indices: 44387355--44387470 Score: 202
Period size: 23 Copynumber: 5.1 Consensus size: 23
44387345 AGGAAGTGCA
44387355 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
44387378 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
44387401 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
44387424 AAAGGGCTT-TGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
44387446 AAAAGGGCTT-TGCCCCAGTT-TT
1 -AAAGGGCTTATGCCCCAGTTATT
44387468 AAA
1 AAA
44387471 AGAGGCTAGG
Statistics
Matches: 92, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
21 3 0.03
22 15 0.16
23 74 0.80
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:44387715 original size:30 final size:30
Alignment explanation
Indices: 44387681--44387743 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
44387671 TATTTACAGT
44387681 AAAGGCTTCGGCCCAGTAATATGAAATATG
1 AAAGGCTTCGGCCCAGTAATATGAAATATG
**
44387711 AAAGGCTTCGGCCCAGTGTTATGAAATATG
1 AAAGGCTTCGGCCCAGTAATATGAAATATG
44387741 AAA
1 AAA
44387744 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (30 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATG
Found at i:44395253 original size:25 final size:25
Alignment explanation
Indices: 44395209--44395256 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
44395199 CTATAATATG
* **
44395209 AAAATGACCATTTTGTCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
44395234 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
44395257 GTTTATACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:44395359 original size:20 final size:20
Alignment explanation
Indices: 44395293--44395359 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
44395283 ATTTTTATAA
*
44395293 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
44395313 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
44395333 ACATGATATGTATGACATGC
1 ACATGATATGTATGATATGC
44395353 ACATGAT
1 ACATGAT
44395360 GTATTTATGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:44395527 original size:23 final size:23
Alignment explanation
Indices: 44395409--44395525 Score: 202
Period size: 23 Copynumber: 5.1 Consensus size: 23
44395399 AGGAAGTGGA
44395409 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
44395432 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
44395455 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
44395478 AAAGGGCTT-TGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
44395500 AAAAGGGCTT-TGCCCCAGTTGTT
1 -AAAGGGCTTATGCCCCAGTTATT
44395523 AAA
1 AAA
44395526 AGAGGCTAGT
Statistics
Matches: 92, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
22 16 0.17
23 76 0.83
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:44395830 original size:31 final size:31
Alignment explanation
Indices: 44395739--44395817 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
44395729 CATTTACAGT
*
44395739 AAAGGCTTCGGCCCGGTAACATGAAATATGG
1 AAAGGCTTCGGCCCAGTAACATGAAATATGG
44395770 AAAGGCTTCGGCCCAGTAACATGAAATATGG
1 AAAGGCTTCGGCCCAGTAACATGAAATATGG
44395801 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
44395818 GTTATGAAAT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.32, C:0.22, G:0.28, T:0.19
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAACATGAAATATGG
Found at i:44406910 original size:40 final size:40
Alignment explanation
Indices: 44406855--44407037 Score: 251
Period size: 40 Copynumber: 4.6 Consensus size: 40
44406845 TGGATGATAA
* * *
44406855 CCGGGCTAAGTCCCGAAGGCATTTGCACTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTA-TAT
44406895 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
* * *
44406935 CCGGGCTAAGTCTCGAAAGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
* *
44406975 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
** *
44407015 CTTGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
44407038 CGAGCAAGTA
Statistics
Matches: 130, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
39 1 0.01
40 129 0.99
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
Found at i:44406988 original size:80 final size:80
Alignment explanation
Indices: 44406855--44407072 Score: 255
Period size: 80 Copynumber: 2.7 Consensus size: 80
44406845 TGGATGATAA
* *
44406855 CCGGGCTAAGTCCCGAAGGCATTTGCA-CTAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTG-AGCAAGTTACTA-TATCCGGGCTAAGTCCCGAAGGCATT
*
44406918 TGTACGAGTTACTATAT
64 GGTACGAGTTACTATAT
* * * *
44406935 CCGGGCTAAGTCTCGAAAGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGG
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGG
*
44407000 TGCGAGTTACTATAT
66 TACGAGTTACTATAT
** * * * *
44407015 CTTGGCTATGTCCCGAAGGCATTCGAGCAAG-TAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
44407073 TACTTGGCTT
Statistics
Matches: 118, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
79 17 0.14
80 101 0.86
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGG
TACGAGTTACTATAT
Found at i:44407053 original size:40 final size:40
Alignment explanation
Indices: 44406855--44407072 Score: 203
Period size: 40 Copynumber: 5.5 Consensus size: 40
44406845 TGGATGATAA
* * *
44406855 CCGGGCTAAGTCCCGAAGGCATTTGCA-CTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTCG-AGCAAGTTACTA-TAT
* *
44406895 CCGGGCTAAGTCCCGAAGGCATTTGTA-CGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCG-AGCAAGTTACTATAT
* * * * *
44406935 CCGGGCTAAGTCTCGAAAGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGAGCAAGTTACTATAT
* * *
44406975 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGAGCAAGTTACTATAT
** *
44407015 CTTGGCTATGTCCCGAAGGCATTCGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGAGCAAGTTA-CTATAT
* *
44407055 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
44407073 TACTTGGCTT
Statistics
Matches: 156, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 16 0.10
40 140 0.90
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAGCAAGTTACTATAT
Found at i:44423481 original size:29 final size:29
Alignment explanation
Indices: 44423419--44423521 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
44423409 GTGACGAGAT
* * *
44423419 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
44423448 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
44423477 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
44423506 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
44423522 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:44427036 original size:40 final size:40
Alignment explanation
Indices: 44426977--44427183 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 40
44426967 CAATTGAATG
* * * *
44426977 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
44427017 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
44427057 ACATCCGGGCTAAGA-CCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
44427096 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
44427136 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
44427176 ATATCCGG
1 ATATCCGG
44427184 TTGTATTCCG
Statistics
Matches: 138, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
38 2 0.01
39 28 0.20
40 106 0.77
41 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:44427114 original size:79 final size:80
Alignment explanation
Indices: 44426979--44427183 Score: 218
Period size: 79 Copynumber: 2.6 Consensus size: 80
44426969 ATTGAATGAT
* * ** * ** * *
44426979 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGGGCTAAGACCCGAAGG-CAT
*
44427043 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* *
44427059 ATCCGGGCTAAGA-CCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGGGCTAAGACCCGAAGGCATT
** *
44427123 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
44427138 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGG
44427184 TTGTATTCCG
Statistics
Matches: 105, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
78 2 0.02
79 60 0.57
80 43 0.41
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:44435076 original size:40 final size:40
Alignment explanation
Indices: 44435017--44435224 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
44435007 CAATTGAATG
* * * *
44435017 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
44435057 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
44435097 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
44435137 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
44435177 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
44435217 ATATCCGG
1 ATATCCGG
44435225 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:44435155 original size:80 final size:80
Alignment explanation
Indices: 44435019--44435224 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
44435009 ATTGAATGAT
* * ** * * *
44435019 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
44435083 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
44435099 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
44435164 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
44435179 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
44435225 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 103 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:44446406 original size:41 final size:41
Alignment explanation
Indices: 44446361--44446478 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
44446351 TGAAAGATAA
44446361 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
44446402 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
44446432 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
44446473 ATGTAG
1 ATGTAG
44446479 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:44446417 original size:71 final size:71
Alignment explanation
Indices: 44446329--44446492 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
44446319 GAGATGTATC
44446329 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
44446394 AGGACA
66 AGGACA
44446400 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
44446465 AGGACA
66 AGGACA
44446471 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
44446493 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:44450881 original size:17 final size:18
Alignment explanation
Indices: 44450839--44450887 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
44450829 AGTTGAAAAG
44450839 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
44450858 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
44450875 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
44450888 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:44451776 original size:40 final size:40
Alignment explanation
Indices: 44451710--44451860 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
44451700 AAATTGAATG
* * *
44451710 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
44451749 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
44451789 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
44451829 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
44451861 ACTTGATTAT
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:44451874 original size:40 final size:40
Alignment explanation
Indices: 44451746--44451876 Score: 149
Period size: 40 Copynumber: 3.3 Consensus size: 40
44451736 TATGCTGGAA
* * * *
44451746 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
** * *
44451786 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT-
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
*
44451826 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACTTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
44451866 ATTATATCCGG
1 ATTATATCCGG
44451877 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
39 3 0.04
40 70 0.95
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
Found at i:44457191 original size:41 final size:41
Alignment explanation
Indices: 44457146--44457263 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
44457136 TGAAAGATAA
44457146 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
44457187 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
44457217 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
44457258 ATGTAG
1 ATGTAG
44457264 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:44457202 original size:71 final size:71
Alignment explanation
Indices: 44457114--44457277 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
44457104 GAGATGTATC
44457114 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
44457179 AGGACA
66 AGGACA
44457185 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
44457250 AGGACA
66 AGGACA
44457256 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
44457278 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:44465782 original size:23 final size:23
Alignment explanation
Indices: 44465762--44465808 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
44465752 TGTTGAATGT
44465762 ATGAAGTCAATTTAAGTGAATAA
1 ATGAAGTCAATTTAAGTGAATAA
44465785 ATGAAGTCAATTTAAGTGAATAA
1 ATGAAGTCAATTTAAGTGAATAA
44465808 A
1 A
44465809 CATAGTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.49, C:0.04, G:0.17, T:0.30
Consensus pattern (23 bp):
ATGAAGTCAATTTAAGTGAATAA
Found at i:44472139 original size:43 final size:43
Alignment explanation
Indices: 44472091--44472257 Score: 135
Period size: 43 Copynumber: 3.9 Consensus size: 43
44472081 CCGAGATATG
*
44472091 ATTACATGTAAGACCATGTCTGGGACATTGGTATTGTATTGTC
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGTC
* * ** *
44472134 ATTACATGTAAGACCGTTTCTGATACATTGGCATCGCTA-T-TC
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATTG-TATTGTC
*** * * *
44472176 GATTTTGTGTAAGACCCTGTCTGGGACAGTGGCATTG-ATCTGTG
1 -ATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-TGTC
* * * *
44472220 ATAACATGTAAGACCATATCTAGGATA-TGGCATTGTAT
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
44472258 GAGCTTTATG
Statistics
Matches: 94, Mismatches: 24, Indels: 12
0.72 0.18 0.09
Matches are distributed among these distances:
41 1 0.01
42 10 0.11
43 80 0.85
44 3 0.03
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (43 bp):
ATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGTC
Found at i:44477096 original size:40 final size:40
Alignment explanation
Indices: 44476988--44477197 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
44476978 CGGGATTTAA
* * * * *
44476988 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
44477028 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
44477068 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
44477108 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
44477148 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
44477188 CCGGATATAT
1 CCGGATATAT
44477198 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:44485231 original size:40 final size:40
Alignment explanation
Indices: 44485123--44485332 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
44485113 CGGGATTTAA
* * * * *
44485123 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
44485163 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
44485203 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
44485243 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
44485283 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
44485323 CCGGATATAT
1 CCGGATATAT
44485333 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:44487557 original size:49 final size:48
Alignment explanation
Indices: 44487485--44487659 Score: 215
Period size: 49 Copynumber: 3.5 Consensus size: 48
44487475 TGAGGTCACG
44487485 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-GATAATTGGTCGCA
* * * * * *
44487534 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CTGATAA-T-TGGTCGCA
* ** *
44487585 TGTGTAGTACTAAGTGCAGGCTACTACGTGTGCCAAATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGT-ACTGATAATTGGTCGCA
44487634 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
44487660 TGCGTACCAG
Statistics
Matches: 106, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
49 65 0.61
50 4 0.04
51 37 0.35
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (48 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGATAATTGGTCGCA
Found at i:44487653 original size:100 final size:100
Alignment explanation
Indices: 44487480--44487667 Score: 331
Period size: 100 Copynumber: 1.9 Consensus size: 100
44487470 TATTGTGAGG
***
44487480 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATTGGTCGCATGTGTAGTACT
44487545 AAGTGCAGGCTACTATGCGTACCTGAAAACTGTGA
66 AAGTGCAGGCTACTATGCGTACCTGAAAACTGTGA
* *
44487580 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTGCCAAATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATTGGTCGCATGTGTAGTACT
44487645 AAGTGCAGGCTACTATGCGTACC
66 AAGTGCAGGCTACTATGCGTACC
44487668 AGATAGCTTC
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 83 1.00
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCTGAAAACTGTGA
Found at i:44490504 original size:53 final size:53
Alignment explanation
Indices: 44490323--44490529 Score: 182
Period size: 53 Copynumber: 3.8 Consensus size: 53
44490313 ATTAGGGTTT
* * * * *
44490323 AAGGATACCA-AGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGA
1 AAGGATACCATA-TAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * * ** * *
44490377 AAGGAAATCATATAAGACCATGTCAAGACATGGCATTAATAAACTACTATAAGGC
1 AAGGATACCATATAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * * *
44490432 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATATAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* * *
44490485 AAGGATACCACATAAGACCATGTCAAGACATGGAAATGGTAAGTT
1 AAGGATACCATATAAGACCATGCCAAGACATGGCAATGGTAAGTT
44490530 TAAAAAGAAA
Statistics
Matches: 118, Mismatches: 32, Indels: 7
0.75 0.20 0.04
Matches are distributed among these distances:
53 44 0.37
54 36 0.31
55 38 0.32
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.20
Consensus pattern (53 bp):
AAGGATACCATATAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:44492639 original size:40 final size:40
Alignment explanation
Indices: 44492397--44492625 Score: 404
Period size: 40 Copynumber: 5.7 Consensus size: 40
44492387 TATTCGGATG
44492397 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
44492437 ATAATCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
44492477 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
44492517 ATAGCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
44492557 ATAACCGGGCTAAGTCCCGAAGGCACTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
44492597 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
44492626 AGCAAGTAGC
Statistics
Matches: 178, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 178 1.00
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:44496013 original size:49 final size:49
Alignment explanation
Indices: 44495941--44496128 Score: 232
Period size: 49 Copynumber: 3.8 Consensus size: 49
44495931 TGAGGTCACG
**
44495941 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * * * *
44495990 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCGCA
* * *
44496041 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAAATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* *
44496090 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
44496129 GCTTTGGCTA
Statistics
Matches: 114, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
49 74 0.65
50 2 0.02
51 38 0.33
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:44496109 original size:100 final size:100
Alignment explanation
Indices: 44495936--44496123 Score: 331
Period size: 100 Copynumber: 1.9 Consensus size: 100
44495926 TATTGTGAGG
* ***
44495936 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAAATAATTGGTCGCATGTGTAGTACT
44496001 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
66 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
*
44496036 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAAATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAAATAATTGGTCGCATGTGTAGTACT
44496101 AAGTGCAGGCTACTATGCGTACC
66 AAGTGCAGGCTACTATGCGTACC
44496124 AGATAGCTTT
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 83 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAAATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
Found at i:44497544 original size:20 final size:20
Alignment explanation
Indices: 44497516--44497553 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
44497506 CAATGTTAAA
44497516 GTTGGGAAAGACTATGGTAT
1 GTTGGGAAAGACTATGGTAT
* *
44497536 GTTGTGAAAGATTATGGT
1 GTTGGGAAAGACTATGGT
44497554 GAGTTGCAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.03, G:0.34, T:0.34
Consensus pattern (20 bp):
GTTGGGAAAGACTATGGTAT
Found at i:44497559 original size:20 final size:19
Alignment explanation
Indices: 44497515--44497559 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
44497505 GCAATGTTAA
44497515 AGTTGGGAAAGACTATGGT
1 AGTTGGGAAAGACTATGGT
* *
44497534 ATGTTGTGAAAGATTATGGT
1 A-GTTGGGAAAGACTATGGT
44497554 GAGTTG
1 -AGTTG
44497560 CAAGTTGGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.05
20 20 0.91
21 1 0.05
ACGTcount: A:0.29, C:0.02, G:0.36, T:0.33
Consensus pattern (19 bp):
AGTTGGGAAAGACTATGGT
Found at i:44498052 original size:2 final size:2
Alignment explanation
Indices: 44498045--44498071 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
44498035 TTGGTTTAAC
44498045 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
44498072 GCATATGATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:44503666 original size:53 final size:53
Alignment explanation
Indices: 44503490--44503693 Score: 151
Period size: 53 Copynumber: 3.8 Consensus size: 53
44503480 AGGGTTTAAG
* * * * * * *
44503490 GATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGG-AAA
1 GATACCACGTAAGACCATGTCAAGACATGGAAATGGTAAG-TTCATAAGGCAAA
* * ** * * * * *
44503543 GGAAATCATATAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGCAAA
1 -GATACCACGTAAGACCATGTCAAGACATGGAAATGGT-AAGTTC-ATAAGGCAAA
* * * * * *
44503599 GATCCCATGTAAGACCATTGT-AAGGCATGGCAATGGTGAGTTCATAAGGCAAG
1 GATACCACGTAAGACCA-TGTCAAGACATGGAAATGGTAAGTTCATAAGGCAAA
44503652 GATACCACGTAAGACCATGTCAAGACATGGAAATGGTAAGTT
1 GATACCACGTAAGACCATGTCAAGACATGGAAATGGTAAGTT
44503694 TAAAAAGAAA
Statistics
Matches: 118, Mismatches: 27, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
52 3 0.03
53 42 0.36
54 34 0.29
55 33 0.28
56 6 0.05
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.22
Consensus pattern (53 bp):
GATACCACGTAAGACCATGTCAAGACATGGAAATGGTAAGTTCATAAGGCAAA
Found at i:44509355 original size:53 final size:53
Alignment explanation
Indices: 44509178--44509384 Score: 207
Period size: 53 Copynumber: 3.8 Consensus size: 53
44509168 ATTAGGGTTT
* * * * *
44509178 AAGGATACCAAGTAAGACCATGTCAAGGCATGGCATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * * * * * *
44509232 AAGGAAATCATATAAGACCATGTCAAGACATCGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * * *
44509287 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCATAAGGC
* *
44509340 AAGGATACCACGTAAGACCATGTCAAGACATGGAAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
44509385 TAAAAAGAAA
Statistics
Matches: 120, Mismatches: 31, Indels: 5
0.77 0.20 0.03
Matches are distributed among these distances:
53 45 0.38
54 37 0.31
55 38 0.32
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:44516286 original size:6 final size:6
Alignment explanation
Indices: 44516275--44516310 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
44516265 TATTAAATTA
44516275 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
44516311 AAAATATATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTATT
Found at i:44516355 original size:25 final size:26
Alignment explanation
Indices: 44516306--44516355 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
44516296 ATTTTTATTT
*
44516306 TTATTAAAATATATTTAACAATAATC
1 TTATTAAAATATATATAACAATAATC
*
44516332 TTATTAAAATTTA-ATAACAATAAT
1 TTATTAAAATATATATAACAATAAT
44516356 TATCTACCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (26 bp):
TTATTAAAATATATATAACAATAATC
Found at i:44516478 original size:44 final size:46
Alignment explanation
Indices: 44516429--44516521 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 46
44516419 TACAACATCT
* *
44516429 ATTCCATTCAACCAAACACGAGAATT-CT-ATTATAGCTCTATTCC
1 ATTCCATTCAACCAAACAAGAGAATTACTGATTACAGCTCTATTCC
**
44516473 ATTCCATTCAACCAAACAATTGAATTACTGATTACAGCTCTATTCC
1 ATTCCATTCAACCAAACAAGAGAATTACTGATTACAGCTCTATTCC
44516519 ATT
1 ATT
44516522 ACAACTCTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 23 0.53
45 2 0.05
46 18 0.42
ACGTcount: A:0.34, C:0.26, G:0.06, T:0.33
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAGAGAATTACTGATTACAGCTCTATTCC
Found at i:44516590 original size:16 final size:16
Alignment explanation
Indices: 44516503--44516589 Score: 140
Period size: 16 Copynumber: 5.4 Consensus size: 16
44516493 TGAATTACTG
44516503 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
44516519 ATTACAACTCTATTCC
1 ATTACAGCTCTATTCC
44516535 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
44516551 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
44516567 ATTACAG-TCCTATTCC
1 ATTACAGCT-CTATTCC
44516583 ATTACAG
1 ATTACAG
44516590 TGAACCAAAC
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
15 1 0.02
16 65 0.98
ACGTcount: A:0.29, C:0.29, G:0.06, T:0.37
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:44518916 original size:41 final size:40
Alignment explanation
Indices: 44518813--44519006 Score: 289
Period size: 40 Copynumber: 4.8 Consensus size: 40
44518803 ATAGCAAATC
* * *
44518813 GCACAAATTCCTTCGGGACTTAGCCCGGATATAGTAACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
*
44518853 GCACAAATGCCTTCAGGACTTAGCCCGGATATAGTCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
* *
44518893 GCACAAAATGCCTTCGGGTCTTAGCCCGGATATCGTCACTA
1 GCAC-AAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
* *
44518934 GCGCAAATGCCTTCGGGACTTAACCCGGATATAGTCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
*
44518974 GCACAAAGTGCCTTCGGGTCTTAGCCCGGATAT
1 GCACAAA-TGCCTTCGGGACTTAGCCCGGATAT
44519007 CATCCGAATA
Statistics
Matches: 138, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
40 79 0.57
41 59 0.43
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
Found at i:44519007 original size:81 final size:80
Alignment explanation
Indices: 44518783--44519007 Score: 310
Period size: 81 Copynumber: 2.8 Consensus size: 80
44518773 AACCTATGTA
* * * * * *
44518783 CCTTCAGGATTTAA-CCGGATATAG-CAAATCGCACAAATTCCTTCGGGACTTAGCCCGGATATA
1 CCTTCAGGACTTAACCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATC
*
44518846 GTAACTCGCACAAATG
65 GTAACTAGCACAAATG
*
44518862 CCTTCAGGACTTAGCCCGGATATAGTCACTAGCACAAAATGCCTTCGGGTCTTAGCCCGGATATC
1 CCTTCAGGACTTAACCCGGATATAGTCACTAGCAC-AAATGCCTTCGGGTCTTAGCCCGGATATC
* *
44518927 GTCACTAGCGCAAATG
65 GTAACTAGCACAAATG
*
44518943 CCTTCGGGACTTAACCCGGATATAGTCACTAGCACAAAGTGCCTTCGGGTCTTAGCCCGGATATC
1 CCTTCAGGACTTAACCCGGATATAGTCACTAGCACAAA-TGCCTTCGGGTCTTAGCCCGGATATC
44519008 ATCCGAATAA
Statistics
Matches: 130, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
79 12 0.09
80 19 0.15
81 99 0.76
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
CCTTCAGGACTTAACCCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATCG
TAACTAGCACAAATG
Found at i:44529196 original size:30 final size:31
Alignment explanation
Indices: 44529154--44529225 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 31
44529144 AAAAGAAAAC
*
44529154 AGTTTAGTGACTTAAATAAAAACTTTTGAAT
1 AGTTTAGTGACTTAAATAAAAACTTTCGAAT
*
44529185 AGTTTA-TGACTTAAATGAAAACTTTCGAAT
1 AGTTTAGTGACTTAAATAAAAACTTTCGAAT
*
44529215 AATTTAGTGAC
1 AGTTTAGTGAC
44529226 AATTTTGTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 27 0.73
31 10 0.27
ACGTcount: A:0.40, C:0.08, G:0.14, T:0.38
Consensus pattern (31 bp):
AGTTTAGTGACTTAAATAAAAACTTTCGAAT
Found at i:44536496 original size:27 final size:26
Alignment explanation
Indices: 44536440--44536496 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
44536430 CAACCTTAAC
** * *
44536440 CCTAGGGGTGTATCAATAATTTTGCT
1 CCTAGGGGTAAATCAATAATTTTCCA
*
44536466 CCTAGGGGTAAATCTATAAATTTTCCA
1 CCTAGGGGTAAATCAAT-AATTTTCCA
44536493 CCTA
1 CCTA
44536497 TAAAGGTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAATAATTTTCCA
Found at i:44540337 original size:43 final size:43
Alignment explanation
Indices: 44540240--44540339 Score: 148
Period size: 43 Copynumber: 2.3 Consensus size: 43
44540230 AACGATCTCG
* * * *
44540240 CACACTTAGTGCCAATTAATTAGTCGAAGTTATAATTGTATCG
1 CACACTTAGTGTCAAATAATTAGTCGAAGCTATAATTGTATCA
44540283 CACACTTAGTGTCAAATAATTAG-CTGAAGCTATAATTGTATCA
1 CACACTTAGTGTCAAATAATTAGTC-GAAGCTATAATTGTATCA
44540326 CACACTTAGTGTCA
1 CACACTTAGTGTCA
44540340 TTTACTCATC
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
42 1 0.02
43 51 0.98
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (43 bp):
CACACTTAGTGTCAAATAATTAGTCGAAGCTATAATTGTATCA
Found at i:44544897 original size:2 final size:2
Alignment explanation
Indices: 44544890--44544919 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
44544880 TATGATCTGA
44544890 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
44544920 GATTAGGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44546807 original size:29 final size:29
Alignment explanation
Indices: 44546757--44546825 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
44546747 TAGGAATAGA
*
44546757 AAATTCCATTAGGATATCTTAAATTAATT
1 AAATTTCATTAGGATATCTTAAATTAATT
* * * *
44546786 AAATTTCATTAGGTTCTTTTAAGTTAATT
1 AAATTTCATTAGGATATCTTAAATTAATT
*
44546815 -AATTTAATTAG
1 AAATTTCATTAG
44546826 TTTATTTAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 10 0.29
29 24 0.71
ACGTcount: A:0.38, C:0.07, G:0.09, T:0.46
Consensus pattern (29 bp):
AAATTTCATTAGGATATCTTAAATTAATT
Found at i:44549928 original size:42 final size:42
Alignment explanation
Indices: 44549817--44549938 Score: 156
Period size: 43 Copynumber: 2.9 Consensus size: 42
44549807 TACTGTACCA
* *
44549817 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
* * *
44549859 ATGCCAATAGCCCAGCTATGGTCTTACACG-AAGTCTTATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGTAA-TCTCATATCG
* *
44549902 ATGCCATATCCCAGATAAGGTCTTACACGTTATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCA
44549939 ATAATCTTAA
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
42 32 0.48
43 35 0.52
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
Found at i:44551763 original size:83 final size:83
Alignment explanation
Indices: 44551651--44551821 Score: 290
Period size: 83 Copynumber: 2.1 Consensus size: 83
44551641 GTGCCAAGCC
* *
44551651 GTGTGAAAAATCCTGAGCATTCTGTTTTGAAATTTTAAGATGCAGGAGACACATGGCCAAGACAG
1 GTGTGAAAAATCCTGAGCATTCTGATTTGAAATTTTAAGATGCAGGAGACACAAGGCCAAGA-AG
44551716 -ACGCCCATGTGCTAGGCT
65 CACGCCCATGTGCTAGGCT
* *
44551734 GTGTGAAAAATCCTGAGCATTCTGATTTGAAATTTTAAGATGCAGGGGACACAAGGCCAAGATGC
1 GTGTGAAAAATCCTGAGCATTCTGATTTGAAATTTTAAGATGCAGGAGACACAAGGCCAAGAAGC
44551799 ACGCCCATGTGCTAGGCT
66 ACGCCCATGTGCTAGGCT
44551817 GTGTG
1 GTGTG
44551822 TCACAGATGG
Statistics
Matches: 83, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
82 1 0.01
83 82 0.99
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (83 bp):
GTGTGAAAAATCCTGAGCATTCTGATTTGAAATTTTAAGATGCAGGAGACACAAGGCCAAGAAGC
ACGCCCATGTGCTAGGCT
Found at i:44552799 original size:25 final size:25
Alignment explanation
Indices: 44552769--44552865 Score: 81
Period size: 25 Copynumber: 3.9 Consensus size: 25
44552759 CCCTCTCTCA
44552769 AGCCATATAACAGGAAGCTCATATG
1 AGCCATATAACAGGAAGCTCATATG
* * *
44552794 AGCCATGTAACGGGAAGCTTAT-TCG
1 AGCCATATAACAGGAAGCTCATAT-G
* ** * *
44552819 GGCTGTATAACGGGAAGCTCATAAG
1 AGCCATATAACAGGAAGCTCATATG
* *
44552844 AGCCATA-ATCAGGAAGTTCATA
1 AGCCATATAACAGGAAGCTCATA
44552866 CAAGCCAATA
Statistics
Matches: 55, Mismatches: 15, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
24 13 0.24
25 42 0.76
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.22
Consensus pattern (25 bp):
AGCCATATAACAGGAAGCTCATATG
Found at i:44553441 original size:5 final size:5
Alignment explanation
Indices: 44553412--44553450 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
44553402 TAAATTTAGC
* *
44553412 TCAAT TTAAT ACAAT TCATAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCA
44553451 CATCTTAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
TCAAT
Found at i:44558057 original size:17 final size:17
Alignment explanation
Indices: 44558035--44558068 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
44558025 AAAAAAGTCC
*
44558035 TTTTTTTT-TAATTATT
1 TTTTTTTTGTAATCATT
44558051 TTTTTTTTGTAATCATT
1 TTTTTTTTGTAATCATT
44558068 T
1 T
44558069 AACTCGGGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTTTTTGTAATCATT
Found at i:44559075 original size:29 final size:29
Alignment explanation
Indices: 44559019--44559074 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
44559009 GGCCCCAAAT
*
44559019 TTTTATTTTATTACTAGTATATATTTTTA
1 TTTTATTGTATTACTAGTATATATTTTTA
* *
44559048 TTTTATTGTATTAC-ATTTTATATTTTT
1 TTTTATTGTATTACTAGTATATATTTTT
44559075 TTTAAAAGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.68
Consensus pattern (29 bp):
TTTTATTGTATTACTAGTATATATTTTTA
Found at i:44562045 original size:16 final size:16
Alignment explanation
Indices: 44562024--44562057 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
44562014 GTTGATCGTT
*
44562024 AATTAAATTGTAGGTC
1 AATTAAATTGCAGGTC
44562040 AATTAAATTGCAGGTC
1 AATTAAATTGCAGGTC
44562056 AA
1 AA
44562058 CATAGGAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (16 bp):
AATTAAATTGCAGGTC
Found at i:44565431 original size:24 final size:24
Alignment explanation
Indices: 44565403--44565450 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
44565393 AGATAAAGGA
44565403 AAGCTAAAGAGAGAGGCTTTAAAG
1 AAGCTAAAGAGAGAGGCTTTAAAG
*
44565427 AAGCTAAAGAGGGAGGCTTTAAAG
1 AAGCTAAAGAGAGAGGCTTTAAAG
44565451 CTTGAATCAA
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:0.44, C:0.08, G:0.31, T:0.17
Consensus pattern (24 bp):
AAGCTAAAGAGAGAGGCTTTAAAG
Found at i:44574284 original size:40 final size:40
Alignment explanation
Indices: 44574210--44574434 Score: 321
Period size: 40 Copynumber: 5.6 Consensus size: 40
44574200 AACCCAAGTA
* * *
44574210 CCTTCGGGATTTAG-CCGGATATAG-CTACTCGCACAAACG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
44574249 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
44574289 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
44574329 CCTTCGGGACTTAGCCCGGATATAG-CAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATG
* * *
44574372 CCTTCGGGACTTCGCCTGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
44574412 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
44574435 CATTCGAATA
Statistics
Matches: 169, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
39 13 0.08
40 119 0.70
41 1 0.01
43 35 0.21
44 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:44574401 original size:83 final size:79
Alignment explanation
Indices: 44574210--44574434 Score: 310
Period size: 83 Copynumber: 2.8 Consensus size: 79
44574200 AACCCAAGTA
* * * * *
44574210 CCTTCGGGATTTAGCCGGATAT-AGCTACTCGCACAAACGCCTTCGGGTCTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCGGATATAATC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
44574274 TCACTAGCACAAATG
65 TCACTAGCACAAATG
*
44574289 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAG-CCGGATATAATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
44574354 -CAACTACTCGCACAAATG
65 TC-ACTA---GCACAAATG
*
44574372 CCTTCGGGACTTCGCCTGGATATAATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCC-GGATATAATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
44574435 CATTCGAATA
Statistics
Matches: 131, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
79 14 0.11
80 47 0.36
81 1 0.01
82 2 0.02
83 67 0.51
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCGGATATAATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATG
Found at i:44580362 original size:22 final size:22
Alignment explanation
Indices: 44580300--44580353 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
44580290 TACGAAACTC
44580300 CTTTGCTCCTATATCAGCTTTT
1 CTTTGCTCCTATATCAGCTTTT
44580322 CTTTGCTCCTATATCAGCTTTT
1 CTTTGCTCCTATATCAGCTTTT
*
44580344 CTTTTCTCCT
1 CTTTGCTCCT
44580354 TACTGAGCTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.11, C:0.30, G:0.07, T:0.52
Consensus pattern (22 bp):
CTTTGCTCCTATATCAGCTTTT
Found at i:44582724 original size:40 final size:40
Alignment explanation
Indices: 44582648--44582872 Score: 276
Period size: 40 Copynumber: 5.6 Consensus size: 40
44582638 AACCCAAGTA
* * * * *
44582648 CCTTCGGGATTTAG-CCGGATATAG-CTACTCGTACAAACG
1 CCTTCGGGACTTAGCCCGGATATAGTC-AATAGCACAAATG
*
44582687 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
44582727 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
44582767 CCTTCAGGACTTAGCCCGGATATAG-CAACTACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TA---GCACAAATG
* * *
44582810 CCTTCGGGACTTCGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
44582850 CCTTCGGGACTTAGCCCGAATAT
1 CCTTCGGGACTTAGCCCGGATAT
44582873 CATTCGAATA
Statistics
Matches: 163, Mismatches: 16, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
39 14 0.09
40 113 0.69
41 1 0.01
43 33 0.20
44 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:44582831 original size:83 final size:80
Alignment explanation
Indices: 44582648--44582872 Score: 303
Period size: 83 Copynumber: 2.8 Consensus size: 80
44582638 AACCCAAGTA
* * * * *
44582648 CCTTCGGGATTTAG-CCGGATATAG-CTACTCGTACAAACGCCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
44582711 GTCAATAGCACAAATG
65 GTCAATAGCACAAATG
*
44582727 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCAGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
44582792 -CAACTACTTGCACAAATG
66 TCAA-TA---GCACAAATG
* * *
44582810 CCTTCGGGACTTCGCCCGGATATAATCACTAGCACAAATGCCTTCGGGACTTAGCCCGAATAT
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
44582873 CATTCGAATA
Statistics
Matches: 130, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
79 16 0.12
80 45 0.35
81 1 0.01
83 68 0.52
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCAATAGCACAAATG
Found at i:44591731 original size:18 final size:17
Alignment explanation
Indices: 44591705--44591738 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
44591695 TATGTTGCAT
44591705 GCCCATGTGGGCCCACAC
1 GCCCATGT-GGCCCACAC
*
44591723 GCCCGTGTGGCCCACA
1 GCCCATGTGGCCCACA
44591739 TGGCCCAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.44, G:0.29, T:0.12
Consensus pattern (17 bp):
GCCCATGTGGCCCACAC
Found at i:44594794 original size:29 final size:29
Alignment explanation
Indices: 44594762--44594826 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
44594752 TGCCCTCTGA
44594762 CACCAGCACCAGTCACCATCCCCTGGCGC
1 CACCAGCACCAGTCACCATCCCCTGGCGC
* *
44594791 CACCAGCACCGGTCACCATCCCCTGGTGC
1 CACCAGCACCAGTCACCATCCCCTGGCGC
44594820 CACCAGC
1 CACCAGC
44594827 TCTGCTCCAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.20, C:0.51, G:0.18, T:0.11
Consensus pattern (29 bp):
CACCAGCACCAGTCACCATCCCCTGGCGC
Found at i:44595800 original size:3 final size:3
Alignment explanation
Indices: 44595769--44595848 Score: 92
Period size: 3 Copynumber: 27.0 Consensus size: 3
44595759 ATTTCACTAG
* * *
44595769 ATT ATT A-T ATC ATT GTT ATTT AAT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT
* *
44595814 ATT ATT ATT ATT ATT ATT ATT -TT ACT CTT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
44595849 TAAAAATATT
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
2 4 0.06
3 57 0.89
4 3 0.05
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:44596452 original size:2 final size:2
Alignment explanation
Indices: 44596445--44596473 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
44596435 TGAACGCTAT
44596445 TA TA TA TA TA 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 T
44596474 CTTTTTCATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:44603700 original size:16 final size:16
Alignment explanation
Indices: 44603679--44603734 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
44603669 ATTGATTACT
*
44603679 ATTACAGTTTTGTTCC
1 ATTACAGTTTTATTCC
* **
44603695 ATTACAATTTTATTTT
1 ATTACAGTTTTATTCC
* *
44603711 ATAACAGTTCTATTCC
1 ATTACAGTTTTATTCC
44603727 ATTACAGT
1 ATTACAGT
44603735 GAACTAAACA
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.29, C:0.16, G:0.07, T:0.48
Consensus pattern (16 bp):
ATTACAGTTTTATTCC
Found at i:44605166 original size:30 final size:32
Alignment explanation
Indices: 44605111--44605174 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 32
44605101 TAATAAAAGT
*
44605111 AAAATTATAATTTGATCTCTTTAAAAATGATA
1 AAAATTATAATTTAATCTCTTTAAAAATGATA
* *
44605143 AAAATT-TAATTTAATGT-TTTAAAAATTATA
1 AAAATTATAATTTAATCTCTTTAAAAATGATA
44605173 AA
1 AA
44605175 GATATAGACT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 14 0.48
31 9 0.31
32 6 0.21
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (32 bp):
AAAATTATAATTTAATCTCTTTAAAAATGATA
Found at i:44607389 original size:17 final size:19
Alignment explanation
Indices: 44607347--44607390 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
44607337 ATGAAATTTT
*
44607347 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
44607366 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
44607384 AA-TATTA
1 AATTATTA
44607391 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:44607500 original size:15 final size:15
Alignment explanation
Indices: 44607482--44607510 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
44607472 ATATTTATAA
44607482 AATTATTATTATTAT
1 AATTATTATTATTAT
44607497 AATTATTATTATTA
1 AATTATTATTATTA
44607511 GATAGGAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:44610051 original size:60 final size:60
Alignment explanation
Indices: 44609951--44610085 Score: 168
Period size: 60 Copynumber: 2.2 Consensus size: 60
44609941 AACTGTGTTA
*
44609951 ATATGGGCAAGGCCCAATATATCTCGACTTGTAATAGGGCTACGACCCAGATTAATACTG
1 ATATGGGCTAGGCCCAATATATCTCGACTTGTAATAGGGCTACGACCCAGATTAATACTG
* * * *
44610011 ATATGGGCTAGGCCCAATATA-CTCTGA-TACTGTAA-GGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAATATATCTC-GACT--TGTAATAGGGCTACGACCCAGATTAATACTG
44610071 ATATGGGCTAAGGCC
1 ATATGGGCT-AGGCC
44610086 TAGATTAATA
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
59 4 0.06
60 52 0.79
61 10 0.15
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (60 bp):
ATATGGGCTAGGCCCAATATATCTCGACTTGTAATAGGGCTACGACCCAGATTAATACTG
Done.