Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 246 of 290
Found at i:84868519 original size:12 final size:12
Alignment explanation
Indices: 84868502--84868527 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
84868492 GTCATCCTCC
84868502 TCATCAGATTCA
1 TCATCAGATTCA
84868514 TCATCAGATTCA
1 TCATCAGATTCA
84868526 TC
1 TC
84868528 CCTCGATCGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (12 bp):
TCATCAGATTCA
Found at i:84870373 original size:9 final size:9
Alignment explanation
Indices: 84870359--84870486 Score: 121
Period size: 9 Copynumber: 13.6 Consensus size: 9
84870349 ATGTATTAGT
84870359 TAAGTTATG
1 TAAGTTATG
84870368 TAAGTTGTTATG
1 TAA---GTTATG
*
84870380 TACGTTATG
1 TAAGTTATG
*
84870389 TGAGTTATG
1 TAAGTTATG
*
84870398 TAAATTATG
1 TAAGTTATG
84870407 TAAGTTATG
1 TAAGTTATG
*
84870416 TGAGTTATG
1 TAAGTTATG
84870425 TAAGTTGTTATG
1 TAA---GTTATG
*
84870437 TAAATTATG
1 TAAGTTATG
*
84870446 TAAGTTATA
1 TAAGTTATG
*
84870455 TGAGTTATG
1 TAAGTTATG
84870464 TAAGTTATG
1 TAAGTTATG
* *
84870473 TAATTTATT
1 TAAGTTATG
84870482 TAAGT
1 TAAGT
84870487 AATGATCAAT
Statistics
Matches: 96, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
9 79 0.82
12 17 0.18
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:84870486 original size:57 final size:57
Alignment explanation
Indices: 84870359--84870486 Score: 175
Period size: 57 Copynumber: 2.2 Consensus size: 57
84870349 ATGTATTAGT
** * *
84870359 TAAGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* * *
84870416 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* *
84870473 TAATTTATTTAAGT
1 TAAGTTATGTAAGT
84870487 AATGATCAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 61 1.00
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (57 bp):
TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
Found at i:84871089 original size:241 final size:241
Alignment explanation
Indices: 84870666--84871137 Score: 890
Period size: 241 Copynumber: 2.0 Consensus size: 241
84870656 TTAAGGTTAT
* *
84870666 ATAAATATTCAATAGTAAATGAGATCGATAGAGCTTTTTCCAAGTCTTTTTGAATTTTTTAAGAT
1 ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTCCAACTCTTTTTGAATTTTTTAAGAT
*
84870731 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
66 TCATCATACATGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
84870796 ACCCGTCAGGTTTCCAGCCTATATACTTTAAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
131 ACCCGTCAGGTTTCCAGCCTATATACTTTAAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
84870861 GGTCAGCTATTATTGTAATTTTAATGGACAAGCAAGCTACATGGTA
196 GGTCAGCTATTATTGTAATTTTAATGGACAAGCAAGCTACATGGTA
* *
84870907 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAACTCTTTTTGAATTTTTTAAGAT
1 ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTCCAACTCTTTTTGAATTTTTTAAGAT
84870972 TCATCATACATGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
66 TCATCATACATGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
84871037 ACCCGTCAGGTTTCCAGCCTATATACTTTAAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
131 ACCCGTCAGGTTTCCAGCCTATATACTTTAAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
*
84871102 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAG
196 GGTCAGCTATTATTGTAATTTTAATGGACAAGCAAG
84871138 GATGAGTTAT
Statistics
Matches: 225, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
241 225 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.34
Consensus pattern (241 bp):
ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTCCAACTCTTTTTGAATTTTTTAAGAT
TCATCATACATGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
ACCCGTCAGGTTTCCAGCCTATATACTTTAAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
GGTCAGCTATTATTGTAATTTTAATGGACAAGCAAGCTACATGGTA
Found at i:84871764 original size:685 final size:685
Alignment explanation
Indices: 84870454--84871822 Score: 2720
Period size: 685 Copynumber: 2.0 Consensus size: 685
84870444 TGTAAGTTAT
84870454 ATGAGTTATGTAAGTTATGTAATTTATTTAAGTAATGATCAATATTAATACTACTTTGATAAAAA
1 ATGAGTTATGTAAGTTATGTAATTTATTTAAGTAATGATCAATATTAATACTACTTTGATAAAAA
84870519 TTAGTTATAACTTTTAAAGACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAAA
66 TTAGTTATAACTTTTAAAGACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAAA
84870584 AAATAGTAATTTGAATATAATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGG
131 AAATAGTAATTTGAATATAATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGG
84870649 AAATAAATTAAGGTTATATAAATATTCAATAGTAAATGAGATCGATAGAGCTTTTTCCAAGTCTT
196 AAATAAATTAAGGTTATATAAATATTCAATAGTAAATGAGATCGATAGAGCTTTTTCCAAGTCTT
84870714 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTA
261 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTA
84870779 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTAAATCTTTAAAATATTTAA
326 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTAAATCTTTAAAATATTTAA
84870844 AATAAGGTTGGAGAGAAGGTCAGCTATTATTGTAATTTTAATGGACAAGCAAGCTACATGGTAAT
391 AATAAGGTTGGAGAGAAGGTCAGCTATTATTGTAATTTTAATGGACAAGCAAGCTACATGGTAAT
84870909 AAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAACTCTTTTTGAATTTTTTAAGATTC
456 AAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAACTCTTTTTGAATTTTTTAAGATTC
84870974 ATCATACATGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCAAC
521 ATCATACATGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCAAC
84871039 CCGTCAGGTTTCCAGCCTATATACTTTAAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAGG
586 CCGTCAGGTTTCCAGCCTATATACTTTAAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAGG
*
84871104 TCAGCTATTGTTGTAATTTTAATGGACAAGCAAGG
651 TCAGCTATTATTGTAATTTTAATGGACAAGCAAGG
84871139 ATGAGTTATGTAAGTTATGTAATTTATTTAAGTAATGATCAATATTAATACTACTTTGATAAAAA
1 ATGAGTTATGTAAGTTATGTAATTTATTTAAGTAATGATCAATATTAATACTACTTTGATAAAAA
84871204 TTAGTTATAACTTTTAAAGACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAAA
66 TTAGTTATAACTTTTAAAGACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAAA
84871269 AAATAGTAATTTGAATATAATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGG
131 AAATAGTAATTTGAATATAATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGG
84871334 AAATAAATTAAGGTTATATAAATATTCAATAGTAAATGAGATCGATAGAGCTTTTTCCAAGTCTT
196 AAATAAATTAAGGTTATATAAATATTCAATAGTAAATGAGATCGATAGAGCTTTTTCCAAGTCTT
84871399 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTA
261 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTA
84871464 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTAAATCTTTAAAATATTTAA
326 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTAAATCTTTAAAATATTTAA
*
84871529 AATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAAT
391 AATAAGGTTGGAGAGAAGGTCAGCTATTATTGTAATTTTAATGGACAAGCAAGCTACATGGTAAT
84871594 AAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAACTCTTTTTGAATTTTTTAAGATTC
456 AAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAACTCTTTTTGAATTTTTTAAGATTC
84871659 ATCATACATGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCAAC
521 ATCATACATGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCAAC
84871724 CCGTCAGGTTTCCAGCCTATATACTTTAAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAGG
586 CCGTCAGGTTTCCAGCCTATATACTTTAAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAGG
84871789 TCAGCTATTATTGTAATTTTAATGGACAAGCAAG
651 TCAGCTATTATTGTAATTTTAATGGACAAGCAAG
84871823 CTACATGGTA
Statistics
Matches: 682, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
685 682 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.36
Consensus pattern (685 bp):
ATGAGTTATGTAAGTTATGTAATTTATTTAAGTAATGATCAATATTAATACTACTTTGATAAAAA
TTAGTTATAACTTTTAAAGACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAAA
AAATAGTAATTTGAATATAATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGG
AAATAAATTAAGGTTATATAAATATTCAATAGTAAATGAGATCGATAGAGCTTTTTCCAAGTCTT
TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTA
CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTAAATCTTTAAAATATTTAA
AATAAGGTTGGAGAGAAGGTCAGCTATTATTGTAATTTTAATGGACAAGCAAGCTACATGGTAAT
AAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAACTCTTTTTGAATTTTTTAAGATTC
ATCATACATGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCAAC
CCGTCAGGTTTCCAGCCTATATACTTTAAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAGG
TCAGCTATTATTGTAATTTTAATGGACAAGCAAGG
Found at i:84871774 original size:241 final size:241
Alignment explanation
Indices: 84871351--84872078 Score: 1348
Period size: 241 Copynumber: 3.0 Consensus size: 241
84871341 TTAAGGTTAT
* * * *
84871351 ATAAATATTCAATAGTAAATGAGATCGATAGAGCTTTTTCCAAGTCTTTTTGAATTTTTTAAGAT
1 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAACTCTTTTTGAATTTTTTAAGAT
84871416 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
66 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
84871481 ACCCGTCAGGTTTCCAGCCTATATACTTTAAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
131 ACCCGTCAGGTTTCCAGCCTATATACTTTAAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
84871546 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
196 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
84871592 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAACTCTTTTTGAATTTTTTAAGAT
1 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAACTCTTTTTGAATTTTTTAAGAT
*
84871657 TCATCATACATGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
66 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
84871722 ACCCGTCAGGTTTCCAGCCTATATACTTTAAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
131 ACCCGTCAGGTTTCCAGCCTATATACTTTAAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
*
84871787 GGTCAGCTATTATTGTAATTTTAATGGACAAGCAAGCTACATGGTA
196 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
84871833 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAACTCTTTTTGAATTTTTTAAGAT
1 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAACTCTTTTTGAATTTTTTAAGAT
* * * *
84871898 TCATCATTCGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTTGATATAGGGCT
66 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
*
84871963 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
131 ACCCGTCAGGTTTCCAGCCTATATACTTTAAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
*
84872028 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGGTACATGGTA
196 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
84872074 ATAAA
1 ATAAA
84872079 ATTAATTCAT
Statistics
Matches: 473, Mismatches: 14, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
241 473 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.35
Consensus pattern (241 bp):
ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAACTCTTTTTGAATTTTTTAAGAT
TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
ACCCGTCAGGTTTCCAGCCTATATACTTTAAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
Found at i:84882261 original size:28 final size:27
Alignment explanation
Indices: 84882230--84882313 Score: 72
Period size: 28 Copynumber: 3.2 Consensus size: 27
84882220 GACTTCAATC
84882230 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGG-TACT
* * *
84882258 ACGTGTATCAG-A-T-GGT-TAGGT-C-
1 ACGTGTGT-AGTACTAAGTGCAGGTACT
84882280 ACGTGTGTAGTACTAAGTGCAGGTTACT
1 ACGTGTGTAGTACTAAGTGCAGG-TACT
84882308 ACGTGT
1 ACGTGT
84882314 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (27 bp):
ACGTGTGTAGTACTAAGTGCAGGTACT
Found at i:84882298 original size:50 final size:50
Alignment explanation
Indices: 84882192--84882369 Score: 182
Period size: 50 Copynumber: 3.6 Consensus size: 50
84882182 ATATGATGAA
* *
84882192 TAAGTGCAGGCTACTATGTGTACTCA-ATGACTTCA-ATCACGTGTGTAGTAC
1 TAAGTGCAGGCTACTACGTGTA-TCAGATGA-TT-AGGTCACGTGTGTAGTAC
*
84882243 TAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TAAGTGCAGGCTACTACGTGTATCAGATGATTAGGTCACGTGTGTAGTAC
* * * * ***
84882293 TAAGTGCAGGTTACTACGTGTACCGGATAATT-GGTCGTATGTGTAGTAC
1 TAAGTGCAGGCTACTACGTGTATCAGATGATTAGGTCACGTGTGTAGTAC
* * * *
84882342 TAAGTGTAGTCTACTATGCGTATCAGAT
1 TAAGTGCAGGCTACTACGTGTATCAGAT
84882370 AGCTTGGCTA
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
49 36 0.34
50 47 0.44
51 24 0.22
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (50 bp):
TAAGTGCAGGCTACTACGTGTATCAGATGATTAGGTCACGTGTGTAGTAC
Found at i:84884550 original size:43 final size:40
Alignment explanation
Indices: 84884495--84884607 Score: 122
Period size: 41 Copynumber: 2.7 Consensus size: 40
84884485 ATATCGTACA
* * *
84884495 ATGCCAATGTCCCAGACGTGGTCTTACATGCTACCTCATAT-CG
1 ATGCC-ATGTCCCAGACGTGGTCTTACA--CGA-ATCAAATACG
84884538 ATGCCACTGTCCCAGACAG-GGTCTTACACGAATCAAATACG
1 ATGCCA-TGTCCCAGAC-GTGGTCTTACACGAATCAAATACG
84884579 ATGCCGATGTCCCAGACGTGGTCTTACAC
1 ATGCC-ATGTCCCAGACGTGGTCTTACAC
84884608 ATAACCACAT
Statistics
Matches: 62, Mismatches: 3, Indels: 12
0.81 0.04 0.16
Matches are distributed among these distances:
40 6 0.10
41 29 0.47
42 2 0.03
43 24 0.39
44 1 0.02
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (40 bp):
ATGCCATGTCCCAGACGTGGTCTTACACGAATCAAATACG
Found at i:84884811 original size:14 final size:15
Alignment explanation
Indices: 84884792--84884828 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
84884782 ATTTGGCTAA
84884792 CACATATATT-ATTT
1 CACATATATTCATTT
84884806 CACATAT-TTCATTT
1 CACATATATTCATTT
84884820 CAGCATATA
1 CA-CATATA
84884829 AAACTCATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 2 0.10
14 13 0.65
15 5 0.25
ACGTcount: A:0.35, C:0.19, G:0.03, T:0.43
Consensus pattern (15 bp):
CACATATATTCATTT
Found at i:84886019 original size:26 final size:26
Alignment explanation
Indices: 84885990--84886044 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
84885980 TCATTGCATC
84885990 CTCTGGCTCCCATGTTTCCTCTTCAA
1 CTCTGGCTCCCATGTTTCCTCTTCAA
84886016 CTCTGGCTCCCATGTTTCCTCTTCAA
1 CTCTGGCTCCCATGTTTCCTCTTCAA
84886042 CTC
1 CTC
84886045 CATGTTAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.11, C:0.40, G:0.11, T:0.38
Consensus pattern (26 bp):
CTCTGGCTCCCATGTTTCCTCTTCAA
Found at i:84897667 original size:24 final size:24
Alignment explanation
Indices: 84897640--84897800 Score: 110
Period size: 24 Copynumber: 6.6 Consensus size: 24
84897630 CAATCGATTT
*
84897640 CGCACACATAGTTCTATTCAAATC
1 CGCACACATAGTGCTATTCAAATC
* * * * *
84897664 CGCACACTTAGTGCCATGCTAACC
1 CGCACACATAGTGCTATTCAAATC
**
84897688 CGCACACATAGTGCCT-TAGAAATC
1 CGCACACATAGTG-CTATTCAAATC
* * * *
84897712 CACACACTCGTATTGAC-ATTCAAATT
1 CGCACA--CATAGTG-CTATTCAAATC
* *
84897738 AGCACACATAGTGCTATTCAATTC
1 CGCACACATAGTGCTATTCAAATC
* *
84897762 CACACACATAGTGCCATTCAAAATC
1 CGCACACATAGTGCTATTC-AAATC
*
84897787 CGCACACTTAGTGC
1 CGCACACATAGTGC
84897801 CAATATCATT
Statistics
Matches: 100, Mismatches: 31, Indels: 11
0.70 0.22 0.08
Matches are distributed among these distances:
23 1 0.01
24 67 0.67
25 17 0.17
26 15 0.15
ACGTcount: A:0.32, C:0.30, G:0.12, T:0.25
Consensus pattern (24 bp):
CGCACACATAGTGCTATTCAAATC
Found at i:84907230 original size:42 final size:43
Alignment explanation
Indices: 84907176--84907286 Score: 129
Period size: 43 Copynumber: 2.6 Consensus size: 43
84907166 GTTTTACGTA
*
84907176 TAAGACCATGTCTGGGAC-ATCGGCATCG-T-ATCTGATTTCATG
1 TAAGACCATGTCTGGGACGAT-GGCATCGATGAT-TGATTACATG
* *
84907218 TAAGACCCTGTCTGGGACGGTGGCATCGATGATTGATTACATG
1 TAAGACCATGTCTGGGACGATGGCATCGATGATTGATTACATG
* * *
84907261 TAAGACCACGTCCGGGACGTTGGCAT
1 TAAGACCATGTCTGGGACGATGGCAT
84907287 TGTATATGTT
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
42 24 0.41
43 33 0.56
44 2 0.03
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACGATGGCATCGATGATTGATTACATG
Found at i:84913469 original size:27 final size:26
Alignment explanation
Indices: 84913439--84913489 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
84913429 CTCGCTGCAA
*
84913439 TCTGGTGGCCTCGCCACATATATCTAT
1 TCTGGTGACCTCGCCACA-ATATCTAT
* *
84913466 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
84913490 GGCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTAT
Found at i:84915356 original size:17 final size:17
Alignment explanation
Indices: 84915334--84915368 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
84915324 GACAATCTCG
84915334 ATGGTTAGAATTGTTAA
1 ATGGTTAGAATTGTTAA
84915351 ATGGTTAGAATTGTTAA
1 ATGGTTAGAATTGTTAA
84915368 A
1 A
84915369 AGACTACGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.00, G:0.23, T:0.40
Consensus pattern (17 bp):
ATGGTTAGAATTGTTAA
Found at i:84919966 original size:40 final size:40
Alignment explanation
Indices: 84919903--84920113 Score: 329
Period size: 40 Copynumber: 5.3 Consensus size: 40
84919893 ATTCGGATTG
*
84919903 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
*
84919942 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
*
84919982 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
84920022 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* * *
84920062 ATAACTGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA-CT
*
84920102 ATATCC-GGCTAA
1 ATAACCGGGCTAA
84920114 ACCCTGAAGG
Statistics
Matches: 160, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 21 0.13
40 139 0.87
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
Found at i:84923674 original size:43 final size:43
Alignment explanation
Indices: 84923612--84923768 Score: 176
Period size: 43 Copynumber: 3.7 Consensus size: 43
84923602 AGCTCATACA
* * *
84923612 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCAATATCCCAGACATGGTCTTACACGTAATCACATATCG
* * * *
84923654 ATGCCGATATCCCAG-CTATGGTCTTACACGAAATCAAATAACG
1 ATGCCAATATCCCAGAC-ATGGTCTTACACGTAATCACATATCG
* * *
84923697 ATGCTAATGTCCCAGACATGGTCTTACACATAATCACATAAT-G
1 ATGCCAATATCCCAGACATGGTCTTACACGTAATCACAT-ATCG
*
84923740 ATGCCAATGTCCCAGACATGGTCTTACAC
1 ATGCCAATATCCCAGACATGGTCTTACAC
84923769 ATGAAAACAT
Statistics
Matches: 97, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
42 5 0.05
43 90 0.93
44 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.27
Consensus pattern (43 bp):
ATGCCAATATCCCAGACATGGTCTTACACGTAATCACATATCG
Found at i:84927033 original size:46 final size:46
Alignment explanation
Indices: 84926983--84927187 Score: 184
Period size: 46 Copynumber: 4.7 Consensus size: 46
84926973 TGCCATAGTG
* * *
84926983 TCTTTCAACTATGGTCTTACTCATTTTC-TCTCATGTTGCCATGCTA
1 TCTTTCAACCATGGTCTTACTCA-TTTCATATCACGTTGCCATGCTA
** * *
84927029 TCTTTCAACCATGGTCTTGTTCATTTCATATCACGTTGCCTTGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATGCTA
* *
84927075 TCTTTCAACCATGGTCTTACACGTTTCATATCA-G--G--ATG---
1 TCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATGCTA
* * * *
84927113 -C---CAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATGCTA
*
84927155 TCTTTCAACCATGGTCTTACACATTTCATATCA
1 TCTTTCAACCATGGTCTTACTCATTTCATATCA
84927188 GAGAGCACAC
Statistics
Matches: 133, Mismatches: 13, Indels: 26
0.77 0.08 0.15
Matches are distributed among these distances:
34 27 0.20
35 1 0.01
37 2 0.02
39 3 0.02
41 2 0.02
43 2 0.02
45 5 0.04
46 91 0.68
ACGTcount: A:0.22, C:0.26, G:0.13, T:0.39
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATGCTA
Found at i:84927118 original size:34 final size:34
Alignment explanation
Indices: 84927080--84927149 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
84927070 TGGTATCTTT
*
84927080 CAACCATGGTCTTACACGTTTCATATCAGGATGC
1 CAACCATGGTCTTACACATTTCATATCAGGATGC
*
84927114 CAACCATGGTCTTACACATTTCATATCAGGCTGC
1 CAACCATGGTCTTACACATTTCATATCAGGATGC
84927148 CA
1 CA
84927150 TGGTATCTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (34 bp):
CAACCATGGTCTTACACATTTCATATCAGGATGC
Found at i:84927167 original size:80 final size:80
Alignment explanation
Indices: 84927034--84927188 Score: 247
Period size: 80 Copynumber: 1.9 Consensus size: 80
84927024 TGCTATCTTT
*** * * *
84927034 CAACCATGGTCTTGTTCATTTCATATCACGTTGCCTTGGTATCTTTCAACCATGGTCTTACACGT
1 CAACCATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTACACAT
84927099 TTCATATCAGGATGC
66 TTCATATCAGGATGC
*
84927114 CAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACAT
1 CAACCATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTACACAT
84927179 TTCATATCAG
66 TTCATATCAG
84927189 AGAGCACACA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
80 68 1.00
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (80 bp):
CAACCATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTACACAT
TTCATATCAGGATGC
Found at i:84931499 original size:43 final size:44
Alignment explanation
Indices: 84931451--84931598 Score: 176
Period size: 43 Copynumber: 3.4 Consensus size: 44
84931441 TATCGAGATG
* *
84931451 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-TA
1 TGATTACATATAAGACCATGTCTGGGACATTGGCATCGTATATA
* *
84931494 TGATTACATGTAAGACCATGTCTGGGATATTGGCATCGT-TATA
1 TGATTACATATAAGACCATGTCTGGGACATTGGCATCGTATATA
* * * * * *
84931537 TGATTTCGTATAAGACCCTGTCTGAGACAGTGGCATCG-ATATG
1 TGATTACATATAAGACCATGTCTGGGACATTGGCATCGTATATA
*
84931580 TGATAACATATAAGACCAT
1 TGATTACATATAAGACCAT
84931599 ATTCGGGATA
Statistics
Matches: 89, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
42 1 0.01
43 88 0.99
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (44 bp):
TGATTACATATAAGACCATGTCTGGGACATTGGCATCGTATATA
Found at i:84933158 original size:44 final size:44
Alignment explanation
Indices: 84933108--84933196 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
84933098 AACTAATTGT
* *
84933108 TGAATTAATTTAATTTTATAGTTAAACATTGAACACATTATATG
1 TGAATTAATTTAATTTGATAGTTAAACATTAAACACATTATATG
84933152 TGAATTAATTTAATTTGATAGTTAAACATTAAACACATTATATG
1 TGAATTAATTTAATTTGATAGTTAAACATTAAACACATTATATG
84933196 T
1 T
84933197 ACAAACTTCT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.43
Consensus pattern (44 bp):
TGAATTAATTTAATTTGATAGTTAAACATTAAACACATTATATG
Found at i:84933424 original size:75 final size:75
Alignment explanation
Indices: 84933297--84933443 Score: 213
Period size: 75 Copynumber: 2.0 Consensus size: 75
84933287 ATGAAAATTA
* ** * *
84933297 ATATTTTTTTGGAAAGAATATAATTCCTTTTTCTAGCTTTCCATTTACCTTCTCTATTAATATGG
1 ATATTCTTTTGGAAAGAATATAATTAATTTTTCTAACTTTCCATTTACCTTCTCTATTAATAAGG
*
84933362 GAATAATCCT
66 AAATAATCCT
* **
84933372 ATATTCTTTTGGAATGAATATAATTAATTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGG
1 ATATTCTTTTGGAAAGAATATAATTAATTTTTCTAACTTTCCATTTACCTTCTCTATTAATAAGG
84933437 AAATAAT
66 AAATAAT
84933444 TCTGGTTTTT
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
75 63 1.00
ACGTcount: A:0.31, C:0.14, G:0.09, T:0.47
Consensus pattern (75 bp):
ATATTCTTTTGGAAAGAATATAATTAATTTTTCTAACTTTCCATTTACCTTCTCTATTAATAAGG
AAATAATCCT
Found at i:84934305 original size:30 final size:30
Alignment explanation
Indices: 84934269--84934328 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
84934259 TTCCCGAGCC
84934269 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
84934299 TAGGGGCAAAATGGTAATTTTGCTAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
84934329 CGTATTAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.37, C:0.07, G:0.27, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:84935055 original size:49 final size:49
Alignment explanation
Indices: 84934983--84935220 Score: 309
Period size: 49 Copynumber: 4.8 Consensus size: 49
84934973 TGAGGTCACG
84934983 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * *
84935032 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACT--TCGATCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCG--CA
* ** * *
84935081 TGTATGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TG--TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCGCA
*
84935133 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* *
84935182 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
84935221 GCTTCGGCTA
Statistics
Matches: 160, Mismatches: 22, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
47 3 0.02
49 83 0.52
50 36 0.22
51 33 0.21
52 3 0.02
54 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:84935115 original size:30 final size:30
Alignment explanation
Indices: 84935081--84935164 Score: 71
Period size: 22 Copynumber: 3.1 Consensus size: 30
84935071 ACTTCGATCA
84935081 TGTATGTAGTACTAAGTGCAGGCTACTACG
1 TGTATGTAGTACTAAGTGCAGGCTACTACG
* * *
84935111 TGTAT-CAG-A-T-GGT-TAGG-T-C-ACG
1 TGTATGTAGTACTAAGTGCAGGCTACTACG
84935133 TG--TGTAGTACTAAGTGCAGGCTACTACG
1 TGTATGTAGTACTAAGTGCAGGCTACTACG
84935161 TGTA
1 TGTA
84935165 CCGGATAATT
Statistics
Matches: 38, Mismatches: 6, Indels: 20
0.59 0.09 0.31
Matches are distributed among these distances:
20 1 0.03
21 2 0.05
22 6 0.16
23 2 0.05
24 3 0.08
25 6 0.16
26 3 0.08
27 2 0.05
28 6 0.16
29 2 0.05
30 5 0.13
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (30 bp):
TGTATGTAGTACTAAGTGCAGGCTACTACG
Found at i:84935172 original size:101 final size:97
Alignment explanation
Indices: 84934983--84935220 Score: 316
Period size: 101 Copynumber: 2.4 Consensus size: 97
84934973 TGAGGTCACG
*
84934983 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAGTG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACTAAGTG
* *
84935048 CAGGCTACTATGCGTACCTGATAACTTCGAT-CA
66 CAGGCTACTACGCGTACCGGATAA-TT-GATCCA
* ** *
84935081 TGTATGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAA
1 TG--TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACATGTGTAGTACTAA
* *
84935146 GTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
63 GTGCAGGCTACTACGCGTACCGGATAATTGATC-CA
* *
84935182 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
84935221 GCTTCGGCTA
Statistics
Matches: 122, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
98 2 0.02
99 35 0.29
100 39 0.32
101 46 0.38
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (97 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACTAAGTG
CAGGCTACTACGCGTACCGGATAATTGATCCA
Found at i:84938886 original size:27 final size:27
Alignment explanation
Indices: 84938856--84939033 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
84938846 ATATCGAGTC
* *
84938856 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
84938883 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
84938910 CGCACACTTAGTGCCACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
84938938 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
84938965 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
84938992 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
84939019 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
84939034 GTACAATTTA
Statistics
Matches: 131, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
27 105 0.80
28 26 0.20
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:84938995 original size:82 final size:81
Alignment explanation
Indices: 84938877--84939032 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
84938867 TGCTATATAA
*
84938877 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCCACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
84938942 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
84938959 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
84939023 CACTTAGTGC
65 CACTTAGTGC
84939033 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:84942386 original size:26 final size:25
Alignment explanation
Indices: 84942314--84942386 Score: 78
Period size: 24 Copynumber: 2.9 Consensus size: 25
84942304 TCATGTACAT
*
84942314 GTATGCTCAAATGAGCTGTG-AATCA
1 GTATGCTCACA-GAGCTGTGAAATCA
* *
84942339 GTATGCTCACAGAGATGT-AAATCG
1 GTATGCTCACAGAGCTGTGAAATCA
*
84942363 GTATGCTCTCACGAGCTGTGAAAT
1 GTATGCTCACA-GAGCTGTGAAAT
84942387 TAGGCCTGCT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
24 20 0.50
25 16 0.40
26 4 0.10
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (25 bp):
GTATGCTCACAGAGCTGTGAAATCA
Found at i:84944909 original size:10 final size:10
Alignment explanation
Indices: 84944894--84944919 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
84944884 CATTGCCTCT
84944894 ACATTTATTG
1 ACATTTATTG
84944904 ACATTTATTG
1 ACATTTATTG
84944914 ACATTT
1 ACATTT
84944920 GAACTTAGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.50
Consensus pattern (10 bp):
ACATTTATTG
Found at i:84949130 original size:7 final size:8
Alignment explanation
Indices: 84949113--84949141 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
84949103 ATCGTACACT
84949113 AAATAAAA
1 AAATAAAA
84949121 AAATAAAA
1 AAATAAAA
84949129 AAATAAAA
1 AAATAAAA
84949137 AAATA
1 AAATA
84949142 CTTTTGGTAT
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:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (8 bp):
AAATAAAA
Found at i:84950395 original size:13 final size:13
Alignment explanation
Indices: 84950377--84950401 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
84950367 TTTTACGATC
84950377 TCAAGTTCAATTT
1 TCAAGTTCAATTT
84950390 TCAAGTTCAATT
1 TCAAGTTCAATT
84950402 ACCCATTGGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (13 bp):
TCAAGTTCAATTT
Found at i:84952551 original size:13 final size:13
Alignment explanation
Indices: 84952535--84952567 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
84952525 TTTAATTAAA
*
84952535 TTAGTTAATTAGT
1 TTAGATAATTAGT
84952548 TTAGATAATTAGT
1 TTAGATAATTAGT
84952561 TTA-ATAA
1 TTAGATAA
84952568 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:84961869 original size:31 final size:31
Alignment explanation
Indices: 84961786--84961871 Score: 138
Period size: 31 Copynumber: 2.8 Consensus size: 31
84961776 TCAATCTCAG
*
84961786 CATAT-ACTGGGCCGAAGCCTTCACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
* *
84961816 CATATCACTGGGCCAAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
84961847 CATATCACTGGGCCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
84961872 TGTAACAATA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 5 0.10
31 45 0.90
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:84962104 original size:25 final size:26
Alignment explanation
Indices: 84962076--84962161 Score: 81
Period size: 26 Copynumber: 3.4 Consensus size: 26
84962066 CTAGAGGCCT
*
84962076 AGCCTCTTTT-AAT-AACTGGGGCAAA
1 AGCC-CTTTTGAATAAACTAGGGCAAA
*
84962101 AGCCCTTTTGGATAAACTAGGGCAAA
1 AGCCCTTTTGAATAAACTAGGGCAAA
* * *
84962127 AGCCCTTTTCG-GTAAACTGGGGC-AT
1 AGCCCTTTT-GAATAAACTAGGGCAAA
84962152 AGCCCTTTTG
1 AGCCCTTTTG
84962162 CACTTCCTCC
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
24 6 0.11
25 16 0.30
26 30 0.57
27 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTGAATAAACTAGGGCAAA
Found at i:84962123 original size:26 final size:25
Alignment explanation
Indices: 84962089--84962161 Score: 103
Period size: 26 Copynumber: 2.9 Consensus size: 25
84962079 CTCTTTTAAT
84962089 AACTGGGGCAAAAGCCCTTTTGGATA
1 AACTGGGGCAAAAGCCCTTTTGG-TA
*
84962115 AACTAGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTT-GGTA
*
84962141 AACTGGGGC-ATAGCCCTTTTG
1 AACTGGGGCAAAAGCCCTTTTG
84962162 CACTTCCTCC
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
24 1 0.02
25 10 0.23
26 30 0.70
27 2 0.05
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (25 bp):
AACTGGGGCAAAAGCCCTTTTGGTA
Found at i:84962238 original size:11 final size:11
Alignment explanation
Indices: 84962207--84962244 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
84962197 AAATAAATAC
84962207 ATCATGTGCAT
1 ATCATGTGCAT
*
84962218 ATCA--TACAT
1 ATCATGTGCAT
84962227 ATCATGTGCAT
1 ATCATGTGCAT
84962238 ATCATGT
1 ATCATGT
84962245 TAAATCATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.35
11 15 0.65
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:84962319 original size:25 final size:25
Alignment explanation
Indices: 84962291--84962338 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
84962281 ATAATTAAAC
* *
84962291 CCTAGGGGTAAAATGGTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
84962316 CCTAGGGGCAAAATAGTCATTTT
1 CCTAGGGGCAAAATAGTCATTTT
84962339 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:84982876 original size:31 final size:31
Alignment explanation
Indices: 84982838--84982916 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
84982828 TTTAACGGTT
84982838 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
84982869 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
84982900 ACTAGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
84982917 ATTGTAAACG
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:0.28, C:0.27, G:0.18, T:0.28
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:84983000 original size:42 final size:42
Alignment explanation
Indices: 84982940--84983031 Score: 159
Period size: 42 Copynumber: 2.2 Consensus size: 42
84982930 TGGCCCATAG
84982940 GCCCATTTCAATAACACATGAAATATC-AATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATA-CAAATGAATGTATGCAA
*
84982982 GCCCATTTCAATATCACATGAAATACAAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACAAATGAATGTATGCAA
84983024 GCCCATTT
1 GCCCATTT
84983032 GGGGAGACTA
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
41 1 0.02
42 47 0.98
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (42 bp):
GCCCATTTCAATAACACATGAAATACAAATGAATGTATGCAA
Found at i:84983247 original size:26 final size:26
Alignment explanation
Indices: 84983168--84983298 Score: 198
Period size: 26 Copynumber: 5.2 Consensus size: 26
84983158 GGCCTAACCT
*
84983168 CTTTT-AAT-AACTAGGGCA-AAGCC
1 CTTTTCAATAAACTGGGGCATAAGCC
*
84983191 CTTTTCGATAAACTGGGGCA-AAGCC
1 CTTTTCAATAAACTGGGGCATAAGCC
84983216 CTTTTCAATAAACTGGGGCATAAGCC
1 CTTTTCAATAAACTGGGGCATAAGCC
**
84983242 CTTTTCGGTAAACTGGGGCATAAGCC
1 CTTTTCAATAAACTGGGGCATAAGCC
84983268 CTTTTCAATAAACTGGGGCATAAGCC
1 CTTTTCAATAAACTGGGGCATAAGCC
84983294 CTTTT
1 CTTTT
84983299 GCACTTCCTC
Statistics
Matches: 98, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
23 5 0.05
24 2 0.02
25 33 0.34
26 58 0.59
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (26 bp):
CTTTTCAATAAACTGGGGCATAAGCC
Found at i:84983373 original size:20 final size:20
Alignment explanation
Indices: 84983348--84983414 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
84983338 TTATGAATAC
84983348 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
84983368 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
84983388 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
84983408 ATCATGT
1 ATCATGT
84983415 ATATCATATC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.40
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:84983478 original size:25 final size:25
Alignment explanation
Indices: 84983450--84983497 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
84983440 ATAATTAAAC
* * *
84983450 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
84983475 CCTAGGGGCAAAATAGTCATTTT
1 CCTAGGGGCAAAATAGTCATTTT
84983498 CATACTATAA
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:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:84984341 original size:27 final size:27
Alignment explanation
Indices: 84984215--84984655 Score: 237
Period size: 27 Copynumber: 16.3 Consensus size: 27
84984205 TTTCATCCTA
* * * * *
84984215 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
*** *
84984242 CAAGGGTATTTCAATAATTTTGTAAA-
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * *
84984268 CTAATGGTATTTCT-ATAATTTTTAGAAAGT
1 C-AAGGGTATTT-TGGTAA-TTTTATAAA-T
* *
84984298 CAAGGGTATTTTTGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
* *
84984325 TAAGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
** * * *
84984352 TGAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * *
84984378 CCAGTGGTATTTTGGTAACTTTACAAA-
1 CAAG-GGTATTTTGGTAATTTTATAAAT
* * *
84984405 CTAGGGGTATTTTGGTAATTTTACAAAC
1 C-AAGGGTATTTTGGTAATTTTATAAAT
* * * *
84984433 CAGGGGTATTTTAGCAATTTTATAGA-
1 CAAGGGTATTTTGGTAATTTTATAAAT
*
84984459 CCAGGGTATTTTGGTAATTTTACT-AAT
1 CAAGGGTATTTTGGTAATTTTA-TAAAT
* * *
84984486 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
* *
84984513 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
* *** * * *
84984540 CGAGGGTAAAATAGTAATTCTACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
*** *
84984567 CAAGGGTAAAATGGTAATTCTATAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
* **** *
84984594 CGAGGGTAAAACGGTAATTCTATAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
* *** *
84984621 CGAGGGTAAAATGGTAATTCTATAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
*
84984648 CGAGGGTA
1 CAAGGGTA
84984656 AAATAGTAAT
Statistics
Matches: 343, Mismatches: 59, Indels: 24
0.81 0.14 0.06
Matches are distributed among these distances:
26 23 0.07
27 290 0.85
28 17 0.05
29 12 0.03
30 1 0.00
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAT
Found at i:84984513 original size:80 final size:81
Alignment explanation
Indices: 84984328--84984533 Score: 245
Period size: 80 Copynumber: 2.6 Consensus size: 81
84984318 TGTAAATTAA
*** ** * * * *
84984328 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGCAATTTTATAGACCAGTGGTATTTTGG
*
84984393 TAACTTTACAAACTAG
66 TAACTTTACAAACGAG
*
84984409 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGCAATTTTATAGACCAG-GGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGCAATTTTATAGACCAGTGGTATTTTGG
* *
84984473 TAATTTTACTAATCGA-
66 TAACTTTAC-AAACGAG
** *
84984489 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTT
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGCAATTTT
84984534 GTAAATCGAG
Statistics
Matches: 107, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
80 59 0.55
81 48 0.45
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGCAATTTTATAGACCAGTGGTATTTTGG
TAACTTTACAAACGAG
Found at i:84984557 original size:54 final size:54
Alignment explanation
Indices: 84984499--84984723 Score: 261
Period size: 54 Copynumber: 4.2 Consensus size: 54
84984489 GGGTATTTTG
* * *** * * *
84984499 GTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTATAAACCAAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATA
* * **
84984553 GTAATTCTACAAATCAAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAACCAAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATA
* *
84984607 GTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTATAAACCAAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATA
* * * * * * *
84984661 GTAATTCTGTAAATCGAGGGTGAAACGGTAATTCTATAAATCGATGGTAAAATG
1 GTAATTCTATAAACCAAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATA
84984715 GTAATTCTA
1 GTAATTCTA
84984724 CAAATTGAGG
Statistics
Matches: 149, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 149 1.00
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (54 bp):
GTAATTCTATAAACCAAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATA
Found at i:84984574 original size:134 final size:134
Alignment explanation
Indices: 84984327--84984574 Score: 302
Period size: 134 Copynumber: 1.9 Consensus size: 134
84984317 TTGTAAATTA
* *
84984327 AGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTG
1 AGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTA
* *** * * *
84984392 GTAACTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGCAATTTTATA
66 GTAACTTTACAAACGAGGGGTAAAATAGTAATTCTACAAACCAAGGGTATTTTAGCAATTTTATA
84984457 GACC
131 GACC
* * ***
84984461 AGGGTATTTTGGTAATTTTACTAATCGAGGGTATTTTGGTAATTTTGTAAACCAAG-GGTATTTT
1 AGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTCACAAACC-AGTGGTATTTT
* ** *
84984525 AGTAATTTTGTAAATCGA-GGGTAAAATAGTAATTCTACAAATCAAGGGTA
65 AGTAACTTTACAAA-CGAGGGGTAAAATAGTAATTCTACAAACCAAGGGTA
84984575 AAATGGTAAT
Statistics
Matches: 94, Mismatches: 18, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
134 90 0.96
135 4 0.04
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.38
Consensus pattern (134 bp):
AGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTA
GTAACTTTACAAACGAGGGGTAAAATAGTAATTCTACAAACCAAGGGTATTTTAGCAATTTTATA
GACC
Found at i:84984656 original size:27 final size:27
Alignment explanation
Indices: 84984526--84984734 Score: 301
Period size: 27 Copynumber: 7.7 Consensus size: 27
84984516 GGGTATTTTA
* * *
84984526 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
84984553 GTAATTCTACAAATCAAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
84984580 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
84984607 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
84984634 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAATG
* * *
84984661 GTAATTCTGTAAATCGAGGGTGAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
84984688 GTAATTCTATAAATCGATGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
84984715 GTAATTCTACAAATTGAGGG
1 GTAATTCTATAAATCGAGGG
84984735 CATTTCAGTA
Statistics
Matches: 161, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 161 1.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAATG
Found at i:84987121 original size:18 final size:20
Alignment explanation
Indices: 84987085--84987131 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
84987075 AGTTGTAAGT
84987085 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
84987105 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
84987124 ATGATATA
1 AT-ATATA
84987132 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:84987604 original size:50 final size:50
Alignment explanation
Indices: 84987529--84987717 Score: 218
Period size: 50 Copynumber: 3.8 Consensus size: 50
84987519 TAAGACAGTT
84987529 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTG
* * * * * * *
84987579 TTAGGTCGCATGTGTAGTACGAAGTGCTGGCTACTATGCGTACC-CATTAAC
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATT--G
* * * * *
84987630 TTTGATCACGTGTGTGGTACTAAGTGCAGGCTACTATGTGTATCAGATGG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTG
* * *
84987680 ATAAGTCACGTGTGTAGTACTAAGTGCAGACTACTATG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATG
84987718 CCTACTAGAG
Statistics
Matches: 111, Mismatches: 25, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
49 3 0.03
50 71 0.64
51 35 0.32
52 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (50 bp):
TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTG
Found at i:84987657 original size:101 final size:101
Alignment explanation
Indices: 84987534--84987718 Score: 280
Period size: 101 Copynumber: 1.8 Consensus size: 101
84987524 CAGTTTTAGG
* * * *
84987534 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGATAAGTCACATGTGTAGTAC
* *
84987599 GAAGTGCTGGCTACTATGCGTACCCATTAACTTTGA
66 GAAGTGCAGACTACTATGCGTACCCATTAACTTTGA
* * *
84987635 TCACGTGTGTGGTACTAAGTGCAGGCTACTATGTGTATCAGATGGATAAGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGATAAGTCACATGTGTAGTAC
*
84987700 TAAGTGCAGACTACTATGC
66 GAAGTGCAGACTACTATGC
84987719 CTACTAGAGA
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
101 74 1.00
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGATAAGTCACATGTGTAGTAC
GAAGTGCAGACTACTATGCGTACCCATTAACTTTGA
Found at i:84993706 original size:14 final size:16
Alignment explanation
Indices: 84993683--84993715 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
84993673 TAAAGCACAA
84993683 AAATTCCACACAT-AT
1 AAATTCCACACATAAT
84993698 AAATT-CACACATAAT
1 AAATTCCACACATAAT
84993713 AAA
1 AAA
84993716 CACAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (16 bp):
AAATTCCACACATAAT
Found at i:84995615 original size:46 final size:44
Alignment explanation
Indices: 84995565--84995679 Score: 142
Period size: 46 Copynumber: 2.6 Consensus size: 44
84995555 AGAGCTAGTG
* *
84995565 TAAGACATGTTTGGGATATGCATCGACCT-CGAGATGTAAGCCAGTC
1 TAAGACATGTCTGGGACATGCATCG-CCTACGAGATGT--GCCAGTC
* * * *
84995611 TAAGATATGTCTGGGACATGCATCGGCTACGAGATGTGCTAGTG
1 TAAGACATGTCTGGGACATGCATCGCCTACGAGATGTGCCAGTC
84995655 TAAGACATGTCTGGGACATGCATCG
1 TAAGACATGTCTGGGACATGCATCG
84995680 GCACGGATAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
44 29 0.48
45 2 0.03
46 30 0.49
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (44 bp):
TAAGACATGTCTGGGACATGCATCGCCTACGAGATGTGCCAGTC
Found at i:84995720 original size:139 final size:140
Alignment explanation
Indices: 84995459--84995728 Score: 309
Period size: 139 Copynumber: 1.9 Consensus size: 140
84995449 CACTGCTGTT
* * **
84995459 ATGTGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGAAATGCTAGTGTAAGA
1 ATGTAAGCCAGTCTAAGACATGTCTGGGACATGCATCGGCCATACGATGAAATGCTAGTGTAAGA
* * * **
84995524 CATGTCTAGGACATGCACTGAAATTGAGACGAGAGCTAGTGTAAGACATGTTTGGGATAT-GCAT
66 CATGTCTAGGACATGCACGGAAATTGAGACGAGAGCCAGTGTAAGACATATCGGGGATATGGCAT
84995588 CGACCTCGAG
131 CGACCTCGAG
* **
84995598 ATGTAAGCCAGTCTAAGATATGTCTGGGACATGCATCGG-C-TACGA-GATGTGCTAGTGTAAGA
1 ATGTAAGCCAGTCTAAGACATGTCTGGGACATGCATCGGCCATACGATGAAATGCTAGTGTAAGA
* * * *
84995660 CATGTCTGGGACATGCATCGGCACGGA-T-ATATGAGAGCCAGTGTAAGACCATATCGGGGATAT
66 CATGTCTAGGACATGCA-CGG-A--AATTGAGACGAGAGCCAGTGTAAGA-CATATCGGGGATAT
84995723 GGCATC
126 GGCATC
84995729 AGCATCGATA
Statistics
Matches: 109, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
136 31 0.28
137 5 0.05
138 19 0.17
139 48 0.44
140 6 0.06
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.24
Consensus pattern (140 bp):
ATGTAAGCCAGTCTAAGACATGTCTGGGACATGCATCGGCCATACGATGAAATGCTAGTGTAAGA
CATGTCTAGGACATGCACGGAAATTGAGACGAGAGCCAGTGTAAGACATATCGGGGATATGGCAT
CGACCTCGAG
Found at i:85006238 original size:18 final size:18
Alignment explanation
Indices: 85006217--85006253 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
85006207 ATATATACTC
85006217 ATGTTGAAATAACAAACT
1 ATGTTGAAATAACAAACT
85006235 ATGTTGAAATAACAAACT
1 ATGTTGAAATAACAAACT
85006253 A
1 A
85006254 GTTATCCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.27
Consensus pattern (18 bp):
ATGTTGAAATAACAAACT
Found at i:85009036 original size:48 final size:48
Alignment explanation
Indices: 85008984--85009212 Score: 287
Period size: 48 Copynumber: 4.8 Consensus size: 48
85008974 AAGTCTCATG
* * * *
85008984 TCAATGCCGATGCCATGTCCGAGAGATGGTCTTACATTCGCACACATA
1 TCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTCGCACACATA
* *
85009032 TCAATGCCGATGTCATGTCCCAGACATGGTCTTACACTCGCACACATA
1 TCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTCGCACACATA
* * * * * * *
85009080 TCAGTGCCGTTGCTATGTCCTAAACATGGTCTTACATTGGCTCACATA
1 TCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTCGCACACATA
* * * *
85009128 TCAACGTCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATA
1 TCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTCGCACACATA
**
85009176 TCAACACCGATGCCATGTCCCAAACATGGTCTTACAC
1 TCAATGCCGATGCCATGTCCCAAACATGGTCTTACAC
85009213 GGGATCTCAT
Statistics
Matches: 159, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 159 1.00
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (48 bp):
TCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTCGCACACATA
Found at i:85011224 original size:17 final size:19
Alignment explanation
Indices: 85011204--85011238 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
85011194 TAACTACTCA
85011204 AAATC-TTT-CACTATCTC
1 AAATCATTTCCACTATCTC
85011221 AAATCATTTCCACTATCT
1 AAATCATTTCCACTATCT
85011239 GAAACTCAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 3 0.19
19 8 0.50
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (19 bp):
AAATCATTTCCACTATCTC
Found at i:85014230 original size:26 final size:26
Alignment explanation
Indices: 85014200--85014256 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
85014190 TATGATGAAC
* *
85014200 TGACTGTTATACCCCTATGAGGTAAA
1 TGACTGATATACCCCTATGAGATAAA
* *
85014226 TGACTGATATGCCCCTATGTGATAAA
1 TGACTGATATACCCCTATGAGATAAA
85014252 TGACT
1 TGACT
85014257 AGTTGAGCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (26 bp):
TGACTGATATACCCCTATGAGATAAA
Found at i:85031924 original size:29 final size:29
Alignment explanation
Indices: 85031890--85031963 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
85031880 TAATCAACCG
*
85031890 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
85031919 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
85031948 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
85031964 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:85035810 original size:24 final size:24
Alignment explanation
Indices: 85035778--85035838 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
85035768 AAAATCCAAT
* * *
85035778 GCACTATGTGTGCG-GTTTACTATG
1 GCACTATGTGTGCGAGTGTAAT-TA
85035802 GCACTATGTGTGCGAGTGTAATTA
1 GCACTATGTGTGCGAGTGTAATTA
85035826 GCACTATGTGTGC
1 GCACTATGTGTGC
85035839 AAATACAGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.20, C:0.16, G:0.30, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGAGTGTAATTA
Found at i:85039369 original size:27 final size:27
Alignment explanation
Indices: 85039331--85039446 Score: 126
Period size: 27 Copynumber: 4.3 Consensus size: 27
85039321 TAATTTGATC
*
85039331 AAATGACTGTTTTGCACTTATGTAGAA
1 AAATGACTGTTTTGCCCTTATGTAGAA
* * *
85039358 AAATGACTGTTTTGCCCCTATGTGGTA
1 AAATGACTGTTTTGCCCTTATGTAGAA
* *
85039385 AAATGACTATTTTGCCCTTTTG-AGGAA
1 AAATGACTGTTTTGCCCTTATGTA-GAA
* * * *
85039412 AAATGATTGTTTTGCCCTTATATGGTA
1 AAATGACTGTTTTGCCCTTATGTAGAA
85039439 AAATGACT
1 AAATGACT
85039447 TAAATGCCCC
Statistics
Matches: 71, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
27 71 1.00
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (27 bp):
AAATGACTGTTTTGCCCTTATGTAGAA
Found at i:85039413 original size:54 final size:54
Alignment explanation
Indices: 85039331--85039446 Score: 162
Period size: 54 Copynumber: 2.1 Consensus size: 54
85039321 TAATTTGATC
* *
85039331 AAATGACTGTTTTGCACTTATGTAGAAAAATGACTGTTTTGCCCCTATGTGGTA
1 AAATGACTATTTTGCACTTATGTAGAAAAATGACTGTTTTGCCCCTATATGGTA
* * * *
85039385 AAATGACTATTTTGCCCTTTTG-AGGAAAAATGATTGTTTTGCCCTTATATGGTA
1 AAATGACTATTTTGCACTTATGTA-GAAAAATGACTGTTTTGCCCCTATATGGTA
85039439 AAATGACT
1 AAATGACT
85039447 TAAATGCCCC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
53 1 0.02
54 54 0.98
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (54 bp):
AAATGACTATTTTGCACTTATGTAGAAAAATGACTGTTTTGCCCCTATATGGTA
Found at i:85039425 original size:81 final size:81
Alignment explanation
Indices: 85039331--85039483 Score: 191
Period size: 81 Copynumber: 1.9 Consensus size: 81
85039321 TAATTTGATC
* ** **
85039331 AAATGACTGTTTTGCACTTATGTAGAAAAATGACTGT-TTTGCCCCTATGTGGTAAAATGACTAT
1 AAATGACTGTTTTGCACTTATATAGAAAAATGACT-TAAATGCCCCTACATGGTAAAATGACTAT
85039395 TTTGCCCTTTTGAGGAA
65 TTTGCCCTTTTGAGGAA
* * * * *
85039412 AAATGATTGTTTTGCCCTTATATGGTAAAATGACTTAAATGCCCCTACATGGTAAATTGACTATT
1 AAATGACTGTTTTGCACTTATATAGAAAAATGACTTAAATGCCCCTACATGGTAAAATGACTATT
*
85039477 TTTCCCT
66 TTGCCCT
85039484 ATGTGAGGTA
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
80 1 0.02
81 59 0.98
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (81 bp):
AAATGACTGTTTTGCACTTATATAGAAAAATGACTTAAATGCCCCTACATGGTAAAATGACTATT
TTGCCCTTTTGAGGAA
Found at i:85039867 original size:19 final size:18
Alignment explanation
Indices: 85039833--85039896 Score: 83
Period size: 18 Copynumber: 3.5 Consensus size: 18
85039823 TACTGTTTAA
*
85039833 ACTGTTACTACACTGATT
1 ACTGTTACTGCACTGATT
85039851 ACTGTTAACTGCACTGATT
1 ACTGTT-ACTGCACTGATT
* * *
85039870 ACTGTTACAGCTCTGTTT
1 ACTGTTACTGCACTGATT
85039888 ACTGTTACT
1 ACTGTTACT
85039897 ACAATGGGCC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
18 23 0.57
19 17 0.43
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.41
Consensus pattern (18 bp):
ACTGTTACTGCACTGATT
Found at i:85044015 original size:27 final size:26
Alignment explanation
Indices: 85043977--85044064 Score: 122
Period size: 27 Copynumber: 3.3 Consensus size: 26
85043967 TGGAGGAAGC
*
85043977 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
85044004 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
85044030 GTATCTGGTGACTCTGTCACAATATTT
1 GT-TCTGGTGGCTCTGCCACAATATCT
85044057 GTTCTGGT
1 GTTCTGGT
85044065 AGCCATACTG
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
26 15 0.27
27 41 0.73
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.38
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:85047064 original size:63 final size:63
Alignment explanation
Indices: 85046988--85047109 Score: 235
Period size: 63 Copynumber: 1.9 Consensus size: 63
85046978 TAGCACCTAT
*
85046988 TAGCCATGTACTCAAGACACTTACCCGATCCGCTGTCCGCGATCGACTCAATAGTGTCGATAA
1 TAGCCATGTACTCAAAACACTTACCCGATCCGCTGTCCGCGATCGACTCAATAGTGTCGATAA
85047051 TAGCCATGTACTCAAAACACTTACCCGATCCGCTGTCCGCGATCGACTCAATAGTGTCG
1 TAGCCATGTACTCAAAACACTTACCCGATCCGCTGTCCGCGATCGACTCAATAGTGTCG
85047110 CACACATAGT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (63 bp):
TAGCCATGTACTCAAAACACTTACCCGATCCGCTGTCCGCGATCGACTCAATAGTGTCGATAA
Found at i:85047182 original size:27 final size:27
Alignment explanation
Indices: 85047152--85047329 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
85047142 ATATCGAGTC
* * * *
85047152 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
85047179 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
85047206 CGCACACTTAGTGCCACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
85047234 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
85047261 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
85047288 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
85047315 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
85047330 GTACAATTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 107 0.81
28 25 0.19
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:85047291 original size:82 final size:81
Alignment explanation
Indices: 85047173--85047328 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
85047163 TGCTATATAA
*
85047173 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCCACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
85047238 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
85047255 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
85047319 CACTTAGTGC
65 CACTTAGTGC
85047329 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:85058733 original size:40 final size:40
Alignment explanation
Indices: 85058647--85058806 Score: 241
Period size: 40 Copynumber: 4.0 Consensus size: 40
85058637 AGAATTGAGA
85058647 GTTATATCCGGGCTAAGTCCCGAAGAGCATT-GTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
85058686 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
** *
85058726 GTTATATCCGGGCTAAGTCCTAAAGAGCATTTGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
* ** * *
85058766 GTTACATCCGGGCTAAGTCTTGAAGGGCATTCGTGCCGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
85058806 G
1 G
85058807 ATGTGTAATC
Statistics
Matches: 111, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 31 0.28
40 80 0.72
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.29
Consensus pattern (40 bp):
GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
Found at i:85058865 original size:43 final size:43
Alignment explanation
Indices: 85058795--85058937 Score: 169
Period size: 43 Copynumber: 3.3 Consensus size: 43
85058785 TTGAAGGGCA
* * *
85058795 TTCGTGCCGGTGATGTGTAATCAGGCCTTCATACCTAGCAGGC
1 TTCGTGCCGGTGATGTGTATTCGGGCCTTCGTACCTAGCAGGC
* * *
85058838 TTTGTGCTGGTGATGTGTATTCGGGCCTTCGTTCCTAGCAGGC
1 TTCGTGCCGGTGATGTGTATTCGGGCCTTCGTACCTAGCAGGC
* * * * *
85058881 TTCATGCCGGTAATGTGTATTTGGGTCTTCGTGCCTAGCAGGC
1 TTCGTGCCGGTGATGTGTATTCGGGCCTTCGTACCTAGCAGGC
**
85058924 TTAATGCCGGTGAT
1 TTCGTGCCGGTGAT
85058938 TCGAGCAAAG
Statistics
Matches: 85, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 85 1.00
ACGTcount: A:0.15, C:0.22, G:0.30, T:0.34
Consensus pattern (43 bp):
TTCGTGCCGGTGATGTGTATTCGGGCCTTCGTACCTAGCAGGC
Found at i:85059095 original size:25 final size:25
Alignment explanation
Indices: 85059056--85059110 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
85059046 TGTGTAATAA
85059056 CGAATGAATATAGGCACTATGGGTG
1 CGAATGAATATAGGCACTATGGGTG
* *
85059081 CGAATGAAT-TGAGGCACTGTGTGTG
1 CGAATGAATAT-AGGCACTATGGGTG
85059106 CGAAT
1 CGAAT
85059111 TCTTTAACCG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 1 0.04
25 26 0.96
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (25 bp):
CGAATGAATATAGGCACTATGGGTG
Found at i:85059165 original size:45 final size:45
Alignment explanation
Indices: 85059101--85059193 Score: 168
Period size: 45 Copynumber: 2.1 Consensus size: 45
85059091 GAGGCACTGT
*
85059101 GTGTGCGAATTCTTTAACCGAGCACTATGTGTGCGAGATCGGCCA
1 GTGTGCGAATTCTTTAACCGAGCAATATGTGTGCGAGATCGGCCA
*
85059146 GTGTGCGAATTCTTTAACCGAGCAATATGTGTGCGAGATCGGTCA
1 GTGTGCGAATTCTTTAACCGAGCAATATGTGTGCGAGATCGGCCA
85059191 GTG
1 GTG
85059194 GGCATTGTGT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (45 bp):
GTGTGCGAATTCTTTAACCGAGCAATATGTGTGCGAGATCGGCCA
Found at i:85068537 original size:20 final size:19
Alignment explanation
Indices: 85068514--85068604 Score: 58
Period size: 20 Copynumber: 4.6 Consensus size: 19
85068504 AACTGTAATA
85068514 CATTCATATAACCAGTAGTT
1 CATTCATATAA-CAGTAGTT
** *
85068534 CATTTGTATAAATAGTAGTT
1 CATTCATAT-AACAGTAGTT
**
85068554 CA-TCAGTAATAACAGTAACT
1 CATTCA-T-ATAACAGTAGTT
* *
85068574 CATTCGTATCAACAGTATTT
1 CATTCATAT-AACAGTAGTT
*
85068594 CATCCATATAA
1 CATTCATATAA
85068605 ACACATATTC
Statistics
Matches: 53, Mismatches: 13, Indels: 11
0.69 0.17 0.14
Matches are distributed among these distances:
19 5 0.09
20 42 0.79
21 6 0.11
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (19 bp):
CATTCATATAACAGTAGTT
Found at i:85068570 original size:40 final size:41
Alignment explanation
Indices: 85068521--85068597 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 41
85068511 ATACATTCAT
** * *
85068521 ATAACCAGTAGTTCATTTGTATAAATAGTAGTTCATCAGTA
1 ATAACCAGTAACTCATTCGTATAAACAGTAGTTCATCAGTA
* *
85068562 ATAA-CAGTAACTCATTCGTATCAACAGTATTTCATC
1 ATAACCAGTAACTCATTCGTATAAACAGTAGTTCATC
85068598 CATATAAACA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
40 26 0.87
41 4 0.13
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (41 bp):
ATAACCAGTAACTCATTCGTATAAACAGTAGTTCATCAGTA
Found at i:85068804 original size:23 final size:23
Alignment explanation
Indices: 85068774--85068849 Score: 86
Period size: 23 Copynumber: 3.3 Consensus size: 23
85068764 CTAATGAACA
*
85068774 GTAAGCTCTATTGAGCTGAAATG
1 GTAAGCTCTATCGAGCTGAAATG
85068797 GTAAGCTCTATCGAGCTGAACA--
1 GTAAGCTCTATCGAGCTGAA-ATG
* *
85068819 GTAAACTC-ATACGAGCTAAAATG
1 GTAAGCTCTAT-CGAGCTGAAATG
85068842 GTAAGCTC
1 GTAAGCTC
85068850 CAATGAGTTG
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
21 3 0.07
22 15 0.33
23 26 0.58
24 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.25
Consensus pattern (23 bp):
GTAAGCTCTATCGAGCTGAAATG
Found at i:85072741 original size:59 final size:59
Alignment explanation
Indices: 85072670--85072788 Score: 238
Period size: 59 Copynumber: 2.0 Consensus size: 59
85072660 TTTCTGTCCA
85072670 AGCCCTAGTGACTGTATTTTGCTTTTCTCAAAGATCATACAATAACTATCTCATCATCT
1 AGCCCTAGTGACTGTATTTTGCTTTTCTCAAAGATCATACAATAACTATCTCATCATCT
85072729 AGCCCTAGTGACTGTATTTTGCTTTTCTCAAAGATCATACAATAACTATCTCATCATCT
1 AGCCCTAGTGACTGTATTTTGCTTTTCTCAAAGATCATACAATAACTATCTCATCATCT
85072788 A
1 A
85072789 TGTTATCAAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (59 bp):
AGCCCTAGTGACTGTATTTTGCTTTTCTCAAAGATCATACAATAACTATCTCATCATCT
Found at i:85078372 original size:46 final size:44
Alignment explanation
Indices: 85078279--85078372 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 44
85078269 ATTACAACAT
85078279 CATTCCATTCAACCAAACACAAGAATAACATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATAACATTACAGTTCTATTC
* *
85078323 CATTCCATTCAACCAAACA-ATTGAATTACTGATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACA-AGAATAAC--ATTACAGTTCTATTC
85078369 CATT
1 CATT
85078373 ACAGCTCTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
43 1 0.02
44 25 0.56
46 19 0.42
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.32
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATAACATTACAGTTCTATTC
Found at i:85078375 original size:16 final size:16
Alignment explanation
Indices: 85078354--85078425 Score: 99
Period size: 16 Copynumber: 4.5 Consensus size: 16
85078344 TGAATTACTG
*
85078354 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
*
85078370 ATTACAGCTCTATTCT
1 ATTACAGCTCTATTCC
* *
85078386 ATTACAACTCTATTCT
1 ATTACAGCTCTATTCC
*
85078402 ATTACAGCTTTATTCC
1 ATTACAGCTCTATTCC
85078418 ATTACAGC
1 ATTACAGC
85078426 GAACCAAACG
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:85083228 original size:26 final size:26
Alignment explanation
Indices: 85083167--85083232 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 26
85083157 CCGCAGCAAA
**
85083167 GCTGCCAGTAACAGGAACACAACAAG
1 GCTGCCAGTAACAATAACACAACAAG
* * *
85083193 GCTACTAGTAACAATAACACATCAAG
1 GCTGCCAGTAACAATAACACAACAAG
85083219 GCTGCCAGT-ACAAT
1 GCTGCCAGTAACAAT
85083233 TTATGACACA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
25 5 0.15
26 28 0.85
ACGTcount: A:0.41, C:0.26, G:0.18, T:0.15
Consensus pattern (26 bp):
GCTGCCAGTAACAATAACACAACAAG
Found at i:85083281 original size:20 final size:20
Alignment explanation
Indices: 85083252--85083388 Score: 159
Period size: 20 Copynumber: 6.8 Consensus size: 20
85083242 AAAGCCAAGG
* * *
85083252 GTAGCTGCACGAAGTCATCA
1 GTAGCGGCACAAAGCCATCA
* *
85083272 GTAGCAGCACGAAGCCATCA
1 GTAGCGGCACAAAGCCATCA
* ** *
85083292 ATAGTAGCACGAAGCCATCA
1 GTAGCGGCACAAAGCCATCA
*
85083312 GTAGTGGCACAAAGCCATCA
1 GTAGCGGCACAAAGCCATCA
*
85083332 GTAGTGGCACAAAGCCATCTA
1 GTAGCGGCACAAAGCCATC-A
85083353 -TAGCGGCACAAAGCCATCA
1 GTAGCGGCACAAAGCCATCA
85083372 GTAGCGGCACAAAGCCA
1 GTAGCGGCACAAAGCCA
85083389 CCTGTAACAT
Statistics
Matches: 107, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
19 1 0.01
20 105 0.98
21 1 0.01
ACGTcount: A:0.35, C:0.27, G:0.24, T:0.14
Consensus pattern (20 bp):
GTAGCGGCACAAAGCCATCA
Found at i:85083347 original size:60 final size:60
Alignment explanation
Indices: 85083252--85083388 Score: 175
Period size: 60 Copynumber: 2.3 Consensus size: 60
85083242 AAAGCCAAGG
* * * * * *
85083252 GTAGCTGCACGAAGTCATCAGTAGCAGCACGAAGCCATCAATAGTAGCACGAAGCCATCA
1 GTAGCGGCACAAAGCCATCAGTAGCAGCACAAAGCCATCAATAGCAGCACAAAGCCATCA
* ** * *
85083312 GTAGTGGCACAAAGCCATCAGTAGTGGCACAAAGCCATCTATAGCGGCACAAAGCCATCA
1 GTAGCGGCACAAAGCCATCAGTAGCAGCACAAAGCCATCAATAGCAGCACAAAGCCATCA
85083372 GTAGCGGCACAAAGCCA
1 GTAGCGGCACAAAGCCA
85083389 CCTGTAACAT
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 65 1.00
ACGTcount: A:0.35, C:0.27, G:0.24, T:0.14
Consensus pattern (60 bp):
GTAGCGGCACAAAGCCATCAGTAGCAGCACAAAGCCATCAATAGCAGCACAAAGCCATCA
Found at i:85108133 original size:12 final size:13
Alignment explanation
Indices: 85108097--85108134 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
85108087 AAATATTTGG
85108097 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
85108110 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
85108124 CTTG-TCTTAAT
1 CTTGTTCTTAAT
85108135 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:85111569 original size:77 final size:76
Alignment explanation
Indices: 85111442--85111594 Score: 270
Period size: 77 Copynumber: 2.0 Consensus size: 76
85111432 CCCATTCAAT
* *
85111442 ACAGTCGAGGTAAGTCATCCCAAGCTCGGCACTTTTAAGGTAAACAATACCTGCCTAAAACCTTA
1 ACAGTCGAGGTAAGTCATCCCAAGCTCGACACTTTTAAGGTAAACAATACCCGCCTAAAACCTTA
85111507 TTTTGATGAGA
66 TTTTGATGAGA
*
85111518 NACAGTCGAGGTAAGTCATCCCAAGTTCGACACTTTTAAGGTAAACAATACCCGCCTAAAACCTT
1 -ACAGTCGAGGTAAGTCATCCCAAGCTCGACACTTTTAAGGTAAACAATACCCGCCTAAAACCTT
85111583 ATTTTGATGAGA
65 ATTTTGATGAGA
85111595 TTCATAACAG
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 73 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.26
Consensus pattern (76 bp):
ACAGTCGAGGTAAGTCATCCCAAGCTCGACACTTTTAAGGTAAACAATACCCGCCTAAAACCTTA
TTTTGATGAGA
Found at i:85112280 original size:96 final size:96
Alignment explanation
Indices: 85112116--85112308 Score: 377
Period size: 96 Copynumber: 2.0 Consensus size: 96
85112106 ATCTTCTTCA
85112116 CCCAAAATCCCTAACCCTAGCCTCTGCAAGTCCATACGGCCTCCCTGCCACTCCCGTGTGCCACC
1 CCCAAAATCCCTAACCCTAGCCTCTGCAAGTCCATACGGCCTCCCTGCCACTCCCGTGTGCCACC
85112181 TCCAACTCCATTTTTTGACACCCATTCTCAT
66 TCCAACTCCATTTTTTGACACCCATTCTCAT
*
85112212 CCCAAAATCCCTACCCCTAGCCTCTGCAAGTCCATACGGCCTCCCTGCCACTCCCGTGTGCCACC
1 CCCAAAATCCCTAACCCTAGCCTCTGCAAGTCCATACGGCCTCCCTGCCACTCCCGTGTGCCACC
85112277 TCCAACTCCATTTTTTGACACCCATTCTCAT
66 TCCAACTCCATTTTTTGACACCCATTCTCAT
85112308 C
1 C
85112309 TTTTTAGCAT
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 96 1.00
ACGTcount: A:0.20, C:0.45, G:0.10, T:0.25
Consensus pattern (96 bp):
CCCAAAATCCCTAACCCTAGCCTCTGCAAGTCCATACGGCCTCCCTGCCACTCCCGTGTGCCACC
TCCAACTCCATTTTTTGACACCCATTCTCAT
Found at i:85116509 original size:12 final size:13
Alignment explanation
Indices: 85116473--85116510 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
85116463 AAATATTTGG
85116473 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
85116486 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
85116500 CTTG-TCTTAAT
1 CTTGTTCTTAAT
85116511 ATTCCAAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:85121739 original size:23 final size:25
Alignment explanation
Indices: 85121713--85121761 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
85121703 AACTTGAGGC
85121713 AAAGAATATGA-CTAGAG-TTGATT
1 AAAGAATATGAGCTAGAGATTGATT
* *
85121736 AAAGATTATGAGCTAGTGATTGATT
1 AAAGAATATGAGCTAGAGATTGATT
85121761 A
1 A
85121762 TCACCCAGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 10 0.45
24 5 0.23
25 7 0.32
ACGTcount: A:0.41, C:0.04, G:0.22, T:0.33
Consensus pattern (25 bp):
AAAGAATATGAGCTAGAGATTGATT
Found at i:85122911 original size:25 final size:25
Alignment explanation
Indices: 85122883--85122952 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
85122873 CTCTTTTAAT
85122883 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
*
85122908 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
85122933 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
85122953 AGTACTTCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 38 0.90
26 4 0.10
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:85123807 original size:27 final size:27
Alignment explanation
Indices: 85123742--85123807 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
85123732 GGGCATATTC
*
85123742 GTCATTTTACCATACAAGGGTATTACG
1 GTCATTTTACCTTACAAGGGTATTACG
* *
85123769 GTCACTTTACCTTACAGGGGCT-TTACG
1 GTCATTTTACCTTACAAGGG-TATTACG
*
85123796 GTCTTTTTACCT
1 GTCATTTTACCT
85123808 ATTAGGGGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (27 bp):
GTCATTTTACCTTACAAGGGTATTACG
Found at i:85123889 original size:27 final size:27
Alignment explanation
Indices: 85123859--85123944 Score: 77
Period size: 27 Copynumber: 3.1 Consensus size: 27
85123849 ATAAATCTAC
85123859 AAACCAAAGGTATTTCAGTAATTTTGT
1 AAACCAAAGGTATTTCAGTAATTTTGT
* *
85123886 AAACTAATGGTATTTCTA-TAATTTT-T
1 AAACCAAAGGTATTTC-AGTAATTTTGT
* * *
85123912 AGAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAAGGTATTTCAGTAATTTTGT
85123942 AAA
1 AAA
85123945 TCAGGGGTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
26 1 0.02
27 21 0.45
28 7 0.15
29 17 0.36
30 1 0.02
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (27 bp):
AAACCAAAGGTATTTCAGTAATTTTGT
Found at i:85123954 original size:56 final size:54
Alignment explanation
Indices: 85123856--85123992 Score: 141
Period size: 56 Copynumber: 2.5 Consensus size: 54
85123846 TCGATAAATC
* * *
85123856 TACAAACCAAAGGTATTTCAGTAATTTTGTAAACTAATGGTATTTCTATAATTTT
1 TACAAATCAAGGGTATTTCAGTAATTTTGTAAACTAAGGGTATTTCTATAA-TTT
* * * * *
85123911 TAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAA-TCAGGGGTATTTTTGTAATTT
1 TACAAA-TCAAGGGTATTTCAGTAATTTTGTAAACT-AAGGGTATTTCTATAATTT
** *
85123966 TACAAATTGAGGGTATTTCGGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
85123993 CACAAACCAG
Statistics
Matches: 68, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
54 18 0.26
55 14 0.21
56 36 0.53
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (54 bp):
TACAAATCAAGGGTATTTCAGTAATTTTGTAAACTAAGGGTATTTCTATAATTT
Found at i:85123961 original size:27 final size:27
Alignment explanation
Indices: 85123908--85124091 Score: 178
Period size: 27 Copynumber: 6.8 Consensus size: 27
85123898 TTTCTATAAT
* *
85123908 TTTTAGAAAGTCAAGGGTATTTCT-GTAA
1 TTTTACAAA-TCAGGGGTATTT-TGGTAA
** *
85123936 TTTTGTAAATCAGGGGTATTTTTGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
* *
85123963 TTTTACAAAT-TGAGGGTATTTCGGTAA
1 TTTTACAAATCAG-GGGTATTTTGGTAA
* * *
85123990 TTTCACAAACCAGTGGTATTTTGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
85124017 TTTTACAAA-CTAGGGGTATTTTGGTAA
1 TTTTACAAATC-AGGGGTATTTTGGTAA
*
85124044 TTTTACAAATTAGGGGTATTTTGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
* *
85124071 TTCTATCATA-CAGGGGTATTT
1 TTTTA-CAAATCAGGGGTATTT
85124092 CAATAATTTC
Statistics
Matches: 131, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
26 3 0.02
27 117 0.89
28 11 0.08
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (27 bp):
TTTTACAAATCAGGGGTATTTTGGTAA
Found at i:85124091 original size:81 final size:81
Alignment explanation
Indices: 85123922--85124072 Score: 209
Period size: 81 Copynumber: 1.9 Consensus size: 81
85123912 AGAAAGTCAA
** *
85123922 GGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTTGTAATTTTACAAATTGAGGGTATTTCGG
1 GGGTATTTCTGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGG
85123987 TAATTTCACAAACCAG
66 TAATTTCACAAACCAG
*
85124003 TGGTATTT-TGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAATT-AGGGGTATTT
1 GGGTATTTCT-GTAATTTTACAAATC-AGGGGTATTTTGGTAATTTTACAAATTGA-GGGTATTT
*
85124065 TGGTAATT
63 CGGTAATT
85124073 CTATCATACA
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
80 3 0.05
81 59 0.95
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.43
Consensus pattern (81 bp):
GGGTATTTCTGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGG
TAATTTCACAAACCAG
Found at i:85124099 original size:54 final size:53
Alignment explanation
Indices: 85123922--85124105 Score: 197
Period size: 54 Copynumber: 3.4 Consensus size: 53
85123912 AGAAAGTCAA
* *** * **
85123922 GGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTTGTAATTTTACAAATTG
1 GGGTATTTCGGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACAG
* *
85123975 AGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAACTAG
1 -GGGTATTTCGGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAAC-AG
* * * * *
85124030 GGGTATTTTGGTAATTTTACAAATTAGGGGTATTTTGGTAATTCTATCATACAG
1 GGGTATTTCGGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTA-CAAACAG
**
85124084 GGGTATTTCAATAATTTCACAA
1 GGGTATTTCGGTAATTTCACAA
85124106 TTGAGGGTAA
Statistics
Matches: 108, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
54 103 0.95
55 5 0.05
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.41
Consensus pattern (53 bp):
GGGTATTTCGGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACAG
Found at i:85124099 original size:81 final size:81
Alignment explanation
Indices: 85123947--85124105 Score: 198
Period size: 81 Copynumber: 2.0 Consensus size: 81
85123937 TTTGTAAATC
* * *
85123947 AGGGGTATTTTTGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTC
** *
85124012 GGTAATTTTACAAACT
66 AATAATTTCACAAACT
* *
85124028 AGGGGTATTTTGGTAATTTTACAAATT-AGGGGTATTTTGGTAA-TTCTATCATA-CAGGGGTAT
1 AGGGGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCGGTAATTTC-A-CAAACCAGGGGTAT
85124090 TTCAATAATTTCACAA
63 TTCAATAATTTCACAA
85124106 TTGAGGGTAA
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
80 4 0.06
81 60 0.90
82 3 0.04
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTC
AATAATTTCACAAACT
Found at i:85124137 original size:27 final size:27
Alignment explanation
Indices: 85124108--85124382 Score: 363
Period size: 27 Copynumber: 10.2 Consensus size: 27
85124098 TTTCACAATT
*
85124108 GAGGGTAAAACGGTAATTTTGTAAA-C
1 GAGGGTAAAACGGTAATTCTGTAAATC
* *
85124134 TGAGGGTAAAATGGTAATTTTGTAAATC
1 -GAGGGTAAAACGGTAATTCTGTAAATC
*
85124162 GAGGGTAAAACAGTAATTCTGTAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
* *
85124189 GAGGGTAAAATGGTAATTCTATAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
* *
85124216 GAGGGTAAAACGATAATTTTGTAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
*
85124243 GAGGGTAAAACAGTAATTCTGTAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
* *
85124270 GAGGGTAAAATGGTAATTCTATAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
* *
85124297 GAGGGTAAAACGATAATTTTGTAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
* *
85124324 GAGGGTGAAACGGTAATTCTATAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
* * **
85124351 GAGGGTAAAATGATAATTCTACAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
85124378 GAGGG
1 GAGGG
85124383 CATTTCAGTA
Statistics
Matches: 218, Mismatches: 29, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
27 217 1.00
28 1 0.00
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (27 bp):
GAGGGTAAAACGGTAATTCTGTAAATC
Found at i:85124402 original size:81 final size:81
Alignment explanation
Indices: 85124108--85124382 Score: 444
Period size: 81 Copynumber: 3.4 Consensus size: 81
85124098 TTTCACAATT
* * * * *
85124108 GAGGGTAAAACGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAA
1 GAGGGTAAAATGGTAATTCTATAAATC-GAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAA
85124172 CAGTAATTCTGTAAATC
65 CAGTAATTCTGTAAATC
85124189 GAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAAC
1 GAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAAC
85124254 AGTAATTCTGTAAATC
66 AGTAATTCTGTAAATC
*
85124270 GAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTGAAAC
1 GAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAAC
* *
85124335 GGTAATTCTATAAATC
66 AGTAATTCTGTAAATC
* *
85124351 GAGGGTAAAATGATAATTCTACAAATCGAGGG
1 GAGGGTAAAATGGTAATTCTATAAATCGAGGG
85124383 CATTTCAGTA
Statistics
Matches: 183, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
81 182 0.99
82 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (81 bp):
GAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAAC
AGTAATTCTGTAAATC
Found at i:85124923 original size:58 final size:58
Alignment explanation
Indices: 85124849--85124965 Score: 225
Period size: 58 Copynumber: 2.0 Consensus size: 58
85124839 ATCCCTCCAA
85124849 CATCAGAGTTTAAATTCAACAACAACTCTTGTCGCCCCCTGTTAGCAAAATAAATGCT
1 CATCAGAGTTTAAATTCAACAACAACTCTTGTCGCCCCCTGTTAGCAAAATAAATGCT
*
85124907 CATCAGAGTTTGAATTCAACAACAACTCTTGTCGCCCCCTGTTAGCAAAATAAATGCT
1 CATCAGAGTTTAAATTCAACAACAACTCTTGTCGCCCCCTGTTAGCAAAATAAATGCT
85124965 C
1 C
85124966 CTTGCTTGCC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.27
Consensus pattern (58 bp):
CATCAGAGTTTAAATTCAACAACAACTCTTGTCGCCCCCTGTTAGCAAAATAAATGCT
Found at i:85125373 original size:62 final size:62
Alignment explanation
Indices: 85125297--85125418 Score: 226
Period size: 62 Copynumber: 2.0 Consensus size: 62
85125287 CAAGTTTGAG
85125297 CCCAAGATTTCTCTAACACTTCTCAGGGCCATTAACCACAAAAGCAGACATTTAATTGTGAA
1 CCCAAGATTTCTCTAACACTTCTCAGGGCCATTAACCACAAAAGCAGACATTTAATTGTGAA
* *
85125359 CCCAAGATTTCTCTAACACTTTTCAGGGCCATTAACCACCAAAGCAGACATTTAATTGTG
1 CCCAAGATTTCTCTAACACTTCTCAGGGCCATTAACCACAAAAGCAGACATTTAATTGTG
85125419 TCATTCATTG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.27
Consensus pattern (62 bp):
CCCAAGATTTCTCTAACACTTCTCAGGGCCATTAACCACAAAAGCAGACATTTAATTGTGAA
Found at i:85125911 original size:22 final size:20
Alignment explanation
Indices: 85125886--85125934 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 20
85125876 GTTATGTAAG
85125886 TTTGATGATTTTGGCATATAGA
1 TTTGATG-TTTTGGC-TATAGA
*
85125908 TTTGGTATGTTTTGGCTATGGA
1 TTT-G-ATGTTTTGGCTATAGA
85125930 TTTGA
1 TTTGA
85125935 GTAGTTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
20 1 0.04
21 1 0.04
22 11 0.46
23 8 0.33
24 3 0.12
ACGTcount: A:0.20, C:0.04, G:0.27, T:0.49
Consensus pattern (20 bp):
TTTGATGTTTTGGCTATAGA
Found at i:85129803 original size:23 final size:24
Alignment explanation
Indices: 85129773--85129817 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
85129763 TGATTGTTAC
85129773 CTCTTACCGT-CTTATTTCTCCTT
1 CTCTTACCGTCCTTATTTCTCCTT
*
85129796 CTCTTACCTTCCTTATTTCTCC
1 CTCTTACCGTCCTTATTTCTCC
85129818 AACAATACGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.09, C:0.38, G:0.02, T:0.51
Consensus pattern (24 bp):
CTCTTACCGTCCTTATTTCTCCTT
Found at i:85131665 original size:60 final size:60
Alignment explanation
Indices: 85131572--85131692 Score: 233
Period size: 60 Copynumber: 2.0 Consensus size: 60
85131562 ATGTAGAGTT
85131572 AGTTGACAAAACAGTTTGAGTGCATCCATGGGTACTCCCGTAGCTCGACATAGATTTGTG
1 AGTTGACAAAACAGTTTGAGTGCATCCATGGGTACTCCCGTAGCTCGACATAGATTTGTG
*
85131632 AGTTGACAAAACAGTTTGAGTGGATCCATGGGTACTCCCGTAGCTCGACATAGATTTGTG
1 AGTTGACAAAACAGTTTGAGTGCATCCATGGGTACTCCCGTAGCTCGACATAGATTTGTG
85131692 A
1 A
85131693 TCTAATGTGA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (60 bp):
AGTTGACAAAACAGTTTGAGTGCATCCATGGGTACTCCCGTAGCTCGACATAGATTTGTG
Found at i:85139455 original size:30 final size:30
Alignment explanation
Indices: 85139414--85139475 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
85139404 TTTTCGGAGC
* *
85139414 TAGGGGTAAAATGGTCACTTTGCAAAAATA
1 TAGGGGAAAAATGGCCACTTTGCAAAAATA
* * *
85139444 TAGGGGAAAAATGGCCATTTTGCTAAATTA
1 TAGGGGAAAAATGGCCACTTTGCAAAAATA
85139474 TA
1 TA
85139476 AATTGTTGAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.29
Consensus pattern (30 bp):
TAGGGGAAAAATGGCCACTTTGCAAAAATA
Found at i:85139954 original size:46 final size:45
Alignment explanation
Indices: 85139801--85139971 Score: 177
Period size: 46 Copynumber: 3.7 Consensus size: 45
85139791 TCATTTGTGT
* *
85139801 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCA-CATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-CATC-TGAAGAGA
* *
85139847 GCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCAT-TGAGACAAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCTGA-A-GAGA
* * *
85139895 GTTAGTGTGAGACATGTCTGGGACATACATCGGCATCGTGAAGTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATC-TGAAG-AGA
*
85139941 GCCAGTGTAAGACATGTCTGGGACATGCATC
1 GCTAGTGTAAGACATGTCTGGGACATGCATC
85139972 AGCTGCGAGA
Statistics
Matches: 104, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
46 50 0.48
47 32 0.31
48 22 0.21
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCTGAAGAGA
Found at i:85145614 original size:29 final size:30
Alignment explanation
Indices: 85145557--85145614 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
85145547 CTTTTGGAAA
* * **
85145557 TATTTACAAAAAGAGGCATCTAGTTTTTAT
1 TATTTACAAAAAGAGGCAACCAAATTTTAT
85145587 TATTTACAAAAAGA-GCAACCAAATTTTA
1 TATTTACAAAAAGAGGCAACCAAATTTTA
85145615 AAAATACTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.34
Consensus pattern (30 bp):
TATTTACAAAAAGAGGCAACCAAATTTTAT
Found at i:85159893 original size:46 final size:46
Alignment explanation
Indices: 85159841--85160109 Score: 223
Period size: 46 Copynumber: 5.8 Consensus size: 46
85159831 TATTTGGGCA
*
85159841 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
** * *
85159887 TCCGAACTCGTTGAGTTGAGTCTAAGTTC-CTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
85159932 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
85159980 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
85160025 CATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-C
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
85160072 ACCTGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
85160110 GCGGGTTACA
Statistics
Matches: 180, Mismatches: 24, Indels: 38
0.74 0.10 0.16
Matches are distributed among these distances:
42 4 0.02
43 9 0.05
45 9 0.05
46 87 0.48
47 53 0.29
48 6 0.03
50 8 0.04
51 4 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:85160102 original size:93 final size:92
Alignment explanation
Indices: 85159837--85160102 Score: 415
Period size: 93 Copynumber: 2.9 Consensus size: 92
85159827 CGAATATTTG
* * *
85159837 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-CTCCGAACTCGTTGAG
** *
85159902 TTGAGTCTAAGTTCCTGAGATGTAACTA
65 TTGAGTCCGAGTTCGTGAGATGTAACTA
85159930 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC-TCCGAACTCGTTGAG
85159995 TTGAGTCCGAGTTCGTGAGATGTAACTA
65 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * *
85160023 GGCATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCTGAGCTCATTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACTCC-GAACTCGTTGAG
85160088 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
85160103 CTTATGGGCG
Statistics
Matches: 161, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
92 2 0.01
93 159 0.99
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (92 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:85171163 original size:152 final size:152
Alignment explanation
Indices: 85170887--85171185 Score: 517
Period size: 152 Copynumber: 2.0 Consensus size: 152
85170877 GCGAAGCATA
*
85170887 CCTTGCGTATGTACTTGATGACAAAGAGTTAGAAAAGAAACCCGAATCTGTGCCGGTGGTTTGTG
1 CCTTGCGTATGTACTTGATGACAAAGAATTAGAAAAGAAACCCGAATCTGTGCCGGTGGTTTGTG
* * * *
85170952 AATACCCGGATGTTTTTCCTAAAGAGTTACCGGGTTTGCGACCTGTTCGGGAGATAGAGTTTGGT
66 AATACCCGGATGTTTTTCCGAAAGAATTACCGGGTTTACCACCTGTTCGGGAGATAGAGTTTGGT
85171017 ATTGAGCTTGTACCTGGAACTG
131 ATTGAGCTTGTACCTGGAACTG
* *
85171039 CCTTGCGTATGTACTTGGTGACAAAGAATTAGAAAAGAAACCCGAATCTGTGTCGGTGGTTTGTG
1 CCTTGCGTATGTACTTGATGACAAAGAATTAGAAAAGAAACCCGAATCTGTGCCGGTGGTTTGTG
* *
85171104 AATACCCGGATGTTTTTCCGGAAGAATTACCGGGTTTACCACCTGTTCGGGAGGTAGAGTTTGGT
66 AATACCCGGATGTTTTTCCGAAAGAATTACCGGGTTTACCACCTGTTCGGGAGATAGAGTTTGGT
85171169 ATTGAGCTTGTACCTGG
131 ATTGAGCTTGTACCTGG
85171186 GACTACGCCG
Statistics
Matches: 138, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
152 138 1.00
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.30
Consensus pattern (152 bp):
CCTTGCGTATGTACTTGATGACAAAGAATTAGAAAAGAAACCCGAATCTGTGCCGGTGGTTTGTG
AATACCCGGATGTTTTTCCGAAAGAATTACCGGGTTTACCACCTGTTCGGGAGATAGAGTTTGGT
ATTGAGCTTGTACCTGGAACTG
Found at i:85171788 original size:68 final size:68
Alignment explanation
Indices: 85171669--85171803 Score: 191
Period size: 68 Copynumber: 2.0 Consensus size: 68
85171659 ACATCTTGGT
* * * *
85171669 CTATTCAAGAGATGAGACTGAACATGCTGAACACTTGAGATTAATGTTGCAAGTTTTGCGGGATA
1 CTATTCAAGAGATGAGACCGAACATGCTGAACACTTGAGACTAATGCTGCAAATTTTGCGGGATA
85171734 AGA
66 AGA
* * *
85171737 CTATTCAAGAGATGAGACCGAACATGCTGAGCA-TCTGAGGCTAGTGCTGCAAATTTTGCGGGAT
1 CTATTCAAGAGATGAGACCGAACATGCTGAACACT-TGAGACTAATGCTGCAAATTTTGCGGGAT
85171801 AAG
65 AAG
85171804 CAGTTATATG
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
67 1 0.02
68 58 0.98
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.26
Consensus pattern (68 bp):
CTATTCAAGAGATGAGACCGAACATGCTGAACACTTGAGACTAATGCTGCAAATTTTGCGGGATA
AGA
Found at i:85175078 original size:28 final size:28
Alignment explanation
Indices: 85175028--85175083 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
85175018 TGTCATCAAT
* *
85175028 GAACACAACTACGAACTGATCCAAATAC
1 GAACACAACTACAAACCGATCCAAATAC
*
85175056 GAACACAACTACAAACCGGTCCAAATAC
1 GAACACAACTACAAACCGATCCAAATAC
85175084 TGTCTGAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.46, C:0.30, G:0.11, T:0.12
Consensus pattern (28 bp):
GAACACAACTACAAACCGATCCAAATAC
Found at i:85175640 original size:51 final size:51
Alignment explanation
Indices: 85175564--85175667 Score: 199
Period size: 51 Copynumber: 2.0 Consensus size: 51
85175554 CCGAACAGGT
85175564 GGTAAACCCGGTAATTCTTACGGAAAAACATCCGGGTATTCACAAACCACC
1 GGTAAACCCGGTAATTCTTACGGAAAAACATCCGGGTATTCACAAACCACC
*
85175615 GGTAAACCCGGTAATTCTTCCGGAAAAACATCCGGGTATTCACAAACCACC
1 GGTAAACCCGGTAATTCTTACGGAAAAACATCCGGGTATTCACAAACCACC
85175666 GG
1 GG
85175668 CACAGATTCG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (51 bp):
GGTAAACCCGGTAATTCTTACGGAAAAACATCCGGGTATTCACAAACCACC
Found at i:85192124 original size:79 final size:82
Alignment explanation
Indices: 85192013--85192197 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
85192003 GCTACTCGTT
* *
85192013 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
85192076 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
85192093 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
85192156 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
85192173 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
85192198 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:85192197 original size:40 final size:40
Alignment explanation
Indices: 85191994--85192197 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
85191984 CGGAATTTAA
** *
85191994 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
85192034 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
85192074 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
85192113 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
85192153 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
85192193 CCGGA
1 CCGGA
85192198 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:85200095 original size:79 final size:81
Alignment explanation
Indices: 85199986--85200168 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
85199976 TACTCGTTCA
* *
85199986 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
85200049 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
85200066 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
85200129 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
85200145 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
85200169 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:85200168 original size:40 final size:40
Alignment explanation
Indices: 85199965--85200168 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
85199955 CGGAATTTAA
** *
85199965 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
85200005 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
85200045 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
85200084 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
85200124 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
85200164 CCGGA
1 CCGGA
85200169 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:85201998 original size:4 final size:4
Alignment explanation
Indices: 85201989--85202020 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
85201979 CCACAGTCAC
85201989 AATT AATT AATT AATT AATT AATT AATT AATT
1 AATT AATT AATT AATT AATT AATT AATT AATT
85202021 TTTATGTCTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
AATT
Found at i:85202139 original size:28 final size:29
Alignment explanation
Indices: 85202097--85202164 Score: 102
Period size: 29 Copynumber: 2.4 Consensus size: 29
85202087 ACATACATGT
* *
85202097 ATATGGCCCACTAGGCCC-AATCTCATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
85202125 ATATGGCCCATTAGGCCCAAATCACATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
*
85202154 ATATGACCCAT
1 ATATGGCCCAT
85202165 CTGGCTCGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
28 17 0.47
29 19 0.53
ACGTcount: A:0.29, C:0.32, G:0.13, T:0.25
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATTC
Found at i:85205551 original size:109 final size:109
Alignment explanation
Indices: 85205438--85205640 Score: 388
Period size: 109 Copynumber: 1.9 Consensus size: 109
85205428 TACACAGCAT
*
85205438 TAGACACGCCCGTGTGTCTAGGCTGTGGCAAAACAGATCATACATACTAACTTGTCCACACAGCC
1 TAGACACGCCCGTGTGTCTAGGCTGTGGCAAAACAGATCATAAATACTAACTTGTCCACACAGCC
85205503 ACAAGACACACCCATGTGCCAGCCCGTGTGCCACACACGACCGA
66 ACAAGACACACCCATGTGCCAGCCCGTGTGCCACACACGACCGA
85205547 TAGACACGCCCGTGTGTCTAGGCTGTGGCAAAACAGATCATAAATACTAACTTGTCCACACAGCC
1 TAGACACGCCCGTGTGTCTAGGCTGTGGCAAAACAGATCATAAATACTAACTTGTCCACACAGCC
*
85205612 ACAAGACACACCCATGTGCCAGGCCGTGT
66 ACAAGACACACCCATGTGCCAGCCCGTGT
85205641 AAAAATTAAG
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
109 92 1.00
ACGTcount: A:0.30, C:0.32, G:0.21, T:0.18
Consensus pattern (109 bp):
TAGACACGCCCGTGTGTCTAGGCTGTGGCAAAACAGATCATAAATACTAACTTGTCCACACAGCC
ACAAGACACACCCATGTGCCAGCCCGTGTGCCACACACGACCGA
Found at i:85211442 original size:101 final size:101
Alignment explanation
Indices: 85211216--85211443 Score: 339
Period size: 101 Copynumber: 2.3 Consensus size: 101
85211206 AAATTCGTAT
*
85211216 TGCCATAACCCAGTTATGGTCTTATCATCAAAATGCCATAGCCCAGCTATGGTCTTACATATAAA
1 TGCCATAACCCAGTTATGGTCTTATCATCAAAATGCCATAGCCCAGCTATGGTCTCACATATAAA
* * * *
85211281 CATTGTCATGGTCCAACCATGGTCTTACGTTCATAG
66 CACTGCCATGGTCCAACCATGGTATTACATTCATAG
* * * * *
85211317 TGCCATAACCCAGTCATGGCCTTATCATTAGAATGCCATAGCTCAGCTATGGTCTCACATATAAA
1 TGCCATAACCCAGTTATGGTCTTATCATCAAAATGCCATAGCCCAGCTATGGTCTCACATATAAA
*
85211382 CACTGCCATGGTTCAACCATGGTATTACATTCATAG
66 CACTGCCATGGTCCAACCATGGTATTACATTCATAG
* *
85211418 TGCCATAACCCAGTTGTCGTCTTATC
1 TGCCATAACCCAGTTATGGTCTTATC
85211444 TGTCAATTCA
Statistics
Matches: 112, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
101 112 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (101 bp):
TGCCATAACCCAGTTATGGTCTTATCATCAAAATGCCATAGCCCAGCTATGGTCTCACATATAAA
CACTGCCATGGTCCAACCATGGTATTACATTCATAG
Found at i:85216780 original size:28 final size:28
Alignment explanation
Indices: 85216740--85216804 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
85216730 ATGTACTAGA
*
85216740 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
85216768 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
85216796 ATACCCCTA
1 ATACCCCTA
85216805 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Done.