Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 108 of 328
Found at i:30325575 original size:24 final size:24
Alignment explanation
Indices: 30325542--30325593 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
30325532 TTTCTAGAAG
* **
30325542 ATTTAGTATTTATGAGTATAATAT
1 ATTTAATATTTATGAACATAATAT
*
30325566 ATTTAATATTTATTAACATAATAT
1 ATTTAATATTTATGAACATAATAT
30325590 ATTT
1 ATTT
30325594 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (24 bp):
ATTTAATATTTATGAACATAATAT
Found at i:30336835 original size:31 final size:31
Alignment explanation
Indices: 30336799--30336868 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
30336789 CATGTGGACA
* *
30336799 AAAGTTTAGAGA-TGAAGTTTGAAAAAAATAC
1 AAAGTTTAGAGACT-AAATATGAAAAAAATAC
***
30336830 AAAGTTTATTTACTAAATATGAAAAAAATAC
1 AAAGTTTAGAGACTAAATATGAAAAAAATAC
30336861 AAAGTTTA
1 AAAGTTTA
30336869 TTTATTAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
31 32 0.97
32 1 0.03
ACGTcount: A:0.53, C:0.04, G:0.13, T:0.30
Consensus pattern (31 bp):
AAAGTTTAGAGACTAAATATGAAAAAAATAC
Found at i:30336869 original size:31 final size:31
Alignment explanation
Indices: 30336818--30336882 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
30336808 AGATGAAGTT
30336818 TGAAAAAAATACAAAGTTTATTTACTAAATA
1 TGAAAAAAATACAAAGTTTATTTACTAAATA
*
30336849 TGAAAAAAATACAAAGTTTATTTATTAAATA
1 TGAAAAAAATACAAAGTTTATTTACTAAATA
30336880 TGA
1 TGA
30336883 TTGTTTTTCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.34
Consensus pattern (31 bp):
TGAAAAAAATACAAAGTTTATTTACTAAATA
Found at i:30340733 original size:26 final size:26
Alignment explanation
Indices: 30340695--30340758 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
30340685 ATTGTTTAGA
30340695 TATATTATTTTAAATTATTTCATACAT
1 TATA-TATTTTAAATTATTTCATACAT
* *
30340722 TATATATTTTAAATTGTTTTATACAT
1 TATATATTTTAAATTATTTCATACAT
30340748 TAT-T-TTTTAAA
1 TATATATTTTAAA
30340759 ACTCGTTTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
24 7 0.20
25 1 0.03
26 23 0.66
27 4 0.11
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.58
Consensus pattern (26 bp):
TATATATTTTAAATTATTTCATACAT
Found at i:30340966 original size:17 final size:16
Alignment explanation
Indices: 30340944--30341008 Score: 69
Period size: 17 Copynumber: 3.9 Consensus size: 16
30340934 AAACTCATTT
30340944 ATATATTATTATTTTAC
1 ATATATTATTATTTT-C
30340961 ATATATTACTTATTTTC
1 ATATATTA-TTATTTTC
* *
30340978 AT-TTTTATTTTTTTTC
1 ATATATTA-TTATTTTC
30340994 ATATATTATCTATTT
1 ATATATTAT-TATTT
30341009 CAAACTTACA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
16 14 0.35
17 19 0.47
18 7 0.17
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.65
Consensus pattern (16 bp):
ATATATTATTATTTTC
Found at i:30341251 original size:20 final size:21
Alignment explanation
Indices: 30341218--30341261 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
30341208 TTTAAATTCA
* *
30341218 TTGGTCTTTTAATA-TTAATG
1 TTGGTATTTAAATAGTTAATG
*
30341238 TTGGTATTTAAATAGTTTATG
1 TTGGTATTTAAATAGTTAATG
30341259 TTG
1 TTG
30341262 TAAGATTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.25, C:0.02, G:0.18, T:0.55
Consensus pattern (21 bp):
TTGGTATTTAAATAGTTAATG
Found at i:30342289 original size:20 final size:21
Alignment explanation
Indices: 30342269--30342384 Score: 77
Period size: 20 Copynumber: 5.7 Consensus size: 21
30342259 TCTATACATT
30342269 TTTTAGAATTTTTTAAAATT-
1 TTTTAGAATTTTTTAAAATTA
*
30342289 TTTATA-AA-TTTTAAAAATATAAA
1 TTT-TAGAATTTTTTAAAAT-T--A
*
30342312 TTTTGGAA-TTTTTATAAA-TA
1 TTTTAGAATTTTTTA-AAATTA
*
30342332 CTTT-GAATTTTTTAAAATTA
1 TTTTAGAATTTTTTAAAATTA
* * *
30342352 TTTT-CAACTTTTGAAAATTA
1 TTTTAGAATTTTTTAAAATTA
30342372 TTTTA-AATTTTTT
1 TTTTAGAATTTTTT
30342385 TTTTGTAATT
Statistics
Matches: 76, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
19 15 0.20
20 44 0.58
21 2 0.03
22 2 0.03
23 10 0.13
24 3 0.04
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.55
Consensus pattern (21 bp):
TTTTAGAATTTTTTAAAATTA
Found at i:30342292 original size:19 final size:19
Alignment explanation
Indices: 30342268--30342306 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
30342258 CTCTATACAT
* *
30342268 TTTTTAGAATTTTTTAAAA
1 TTTTTAGAAATTTTAAAAA
*
30342287 TTTTTATAAATTTTAAAAA
1 TTTTTAGAAATTTTAAAAA
30342306 T
1 T
30342307 ATAAATTTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (19 bp):
TTTTTAGAAATTTTAAAAA
Found at i:30345358 original size:13 final size:13
Alignment explanation
Indices: 30345337--30345376 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
30345327 GCTCGACAGG
30345337 GACACGCCCATGT
1 GACACGCCCATGT
* *
30345350 GACATGCCCGTGT
1 GACACGCCCATGT
30345363 GACACGCCCATGT
1 GACACGCCCATGT
30345376 G
1 G
30345377 CGATTACTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.20, C:0.35, G:0.28, T:0.17
Consensus pattern (13 bp):
GACACGCCCATGT
Found at i:30359038 original size:18 final size:18
Alignment explanation
Indices: 30359015--30359049 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
30359005 AATTCAAGAA
30359015 AAGCATCAAAATAGTTTC
1 AAGCATCAAAATAGTTTC
*
30359033 AAGCATGAAAATAGTTT
1 AAGCATCAAAATAGTTT
30359050 GGCACATCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.29
Consensus pattern (18 bp):
AAGCATCAAAATAGTTTC
Found at i:30366283 original size:68 final size:67
Alignment explanation
Indices: 30366211--30366360 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
30366201 CATCATGTGT
* * * *
30366211 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
30366273 ATGTAG
62 ATGTAG
** * *
30366279 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
30366344 AG
66 AG
30366346 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
30366361 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:30366316 original size:64 final size:64
Alignment explanation
Indices: 30366235--30366418 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
30366225 AGACATTATG
* *
30366235 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
30366299 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
30366364 AA
63 AA
* * * *
30366366 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
30366419 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:30367510 original size:2 final size:2
Alignment explanation
Indices: 30367503--30367531 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
30367493 TCATGACATG
30367503 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
30367532 GACTAGTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:30370732 original size:68 final size:67
Alignment explanation
Indices: 30370660--30370809 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
30370650 CATCATGTGT
* * * *
30370660 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
30370722 ATGTAG
62 ATGTAG
** * *
30370728 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
30370793 AG
66 AG
30370795 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
30370810 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:30370765 original size:64 final size:64
Alignment explanation
Indices: 30370684--30370867 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
30370674 AGACATTATG
* *
30370684 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
30370748 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
30370813 AA
63 AA
* * * *
30370815 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
30370868 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:30376860 original size:86 final size:86
Alignment explanation
Indices: 30376715--30376884 Score: 313
Period size: 86 Copynumber: 2.0 Consensus size: 86
30376705 AGTAAACTCG
30376715 TATGAAATAAAATCAATCTTAACATAAATATACAAATCACCAATTTGAACATATCAACATGTAGT
1 TATGAAATAAAATCAATCTTAACATAAATATACAAATCACCAATTTGAACATATCAACATGTAGT
30376780 TATTAAACTAACAAACCTTCA
66 TATTAAACTAACAAACCTTCA
* * *
30376801 TATGAAATAAACTTAATCTTAACATAAATATACAAATCATCAATTTGAACATATCAACATGTAGT
1 TATGAAATAAAATCAATCTTAACATAAATATACAAATCACCAATTTGAACATATCAACATGTAGT
30376866 TATTAAACTAACAAACCTT
66 TATTAAACTAACAAACCTT
30376885 TCACATTTTT
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
86 81 1.00
ACGTcount: A:0.48, C:0.16, G:0.05, T:0.31
Consensus pattern (86 bp):
TATGAAATAAAATCAATCTTAACATAAATATACAAATCACCAATTTGAACATATCAACATGTAGT
TATTAAACTAACAAACCTTCA
Found at i:30381316 original size:43 final size:43
Alignment explanation
Indices: 30381269--30381353 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
30381259 TAAAGCTTAG
30381269 TAAGCTCGTATAGTTAATAAGTAAAACTTACCATTCATTCACT
1 TAAGCTCGTATAGTTAATAAGTAAAACTTACCATTCATTCACT
30381312 TAAGCTCGTATAGTTAATAAGTAAAACTTACCATTCATTCAC
1 TAAGCTCGTATAGTTAATAAGTAAAACTTACCATTCATTCAC
30381354 CATTCAAGTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (43 bp):
TAAGCTCGTATAGTTAATAAGTAAAACTTACCATTCATTCACT
Found at i:30382762 original size:57 final size:57
Alignment explanation
Indices: 30382674--30382785 Score: 206
Period size: 57 Copynumber: 2.0 Consensus size: 57
30382664 TTTTATGTCT
* *
30382674 ATAAATGTCCACCCACTATAAAAATGGTCTAATTACCACATAAGGGCCTCCACTTCC
1 ATAAATGTCCACCCACTATAAAAAAGGTCTAATTACCACATAAGGACCTCCACTTCC
30382731 ATAAATGTCCACCCACTATAAAAAAGGTCTAATTACCACATAAGGACCTCCACTT
1 ATAAATGTCCACCCACTATAAAAAAGGTCTAATTACCACATAAGGACCTCCACTT
30382786 TAAAGTTCTA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.38, C:0.29, G:0.10, T:0.24
Consensus pattern (57 bp):
ATAAATGTCCACCCACTATAAAAAAGGTCTAATTACCACATAAGGACCTCCACTTCC
Found at i:30387183 original size:36 final size:36
Alignment explanation
Indices: 30387130--30387234 Score: 165
Period size: 36 Copynumber: 2.9 Consensus size: 36
30387120 CGACACCACC
*
30387130 GATATCAAAGTGTTCCACCACTGATATGCATTAACT
1 GATATCAAAGTGTTCCACCACTGATATGCAGTAACT
* * * *
30387166 GATATCAAAATGATCCACCACTGATATGTAGTAATT
1 GATATCAAAGTGTTCCACCACTGATATGCAGTAACT
30387202 GATATCAAAGTGTTCCACCACTGATATGCAGTA
1 GATATCAAAGTGTTCCACCACTGATATGCAGTA
30387235 TCTCTCAGAA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 61 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (36 bp):
GATATCAAAGTGTTCCACCACTGATATGCAGTAACT
Found at i:30395877 original size:13 final size:13
Alignment explanation
Indices: 30395859--30395884 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30395849 GCTCGACAGG
30395859 GACACGCCCGTGT
1 GACACGCCCGTGT
30395872 GACACGCCCGTGT
1 GACACGCCCGTGT
30395885 TCGATTGCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:30409616 original size:20 final size:19
Alignment explanation
Indices: 30409583--30409662 Score: 83
Period size: 20 Copynumber: 4.1 Consensus size: 19
30409573 ATACATGGAA
30409583 TATGATAT--ACATGATTGG
1 TATGATATGCACATGATT-G
*
30409601 TATGATATGCACATGACATG
1 TATGATATGCACATGA-TTG
* *
30409621 TATAAAATGCACATGATATG
1 TATGATATGCACATGAT-TG
30409641 TATGATATGCACATGATATG
1 TATGATATGCACATGAT-TG
30409661 TA
1 TA
30409663 CAAAATGCAC
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
18 8 0.15
20 43 0.83
21 1 0.02
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.34
Consensus pattern (19 bp):
TATGATATGCACATGATTG
Found at i:30409635 original size:40 final size:40
Alignment explanation
Indices: 30409591--30409677 Score: 131
Period size: 40 Copynumber: 2.2 Consensus size: 40
30409581 AATATGATAT
*
30409591 ACATGAT-TGGTATGATATGCACATGACATGTATAAAATGC
1 ACATGATAT-GTATGATATGCACATGACATGTACAAAATGC
*
30409631 ACATGATATGTATGATATGCACATGATATGTACAAAATGC
1 ACATGATATGTATGATATGCACATGACATGTACAAAATGC
*
30409671 ACGTGAT
1 ACATGAT
30409678 GTATTCATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
40 42 0.98
41 1 0.02
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.30
Consensus pattern (40 bp):
ACATGATATGTATGATATGCACATGACATGTACAAAATGC
Found at i:30409670 original size:20 final size:20
Alignment explanation
Indices: 30409607--30409677 Score: 97
Period size: 20 Copynumber: 3.5 Consensus size: 20
30409597 TTGGTATGAT
*
30409607 ATGCACATGACATGTATAAA
1 ATGCACATGATATGTATAAA
* *
30409627 ATGCACATGATATGTATGAT
1 ATGCACATGATATGTATAAA
*
30409647 ATGCACATGATATGTACAAA
1 ATGCACATGATATGTATAAA
*
30409667 ATGCACGTGAT
1 ATGCACATGAT
30409678 GTATTCATAA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.28
Consensus pattern (20 bp):
ATGCACATGATATGTATAAA
Found at i:30409787 original size:25 final size:25
Alignment explanation
Indices: 30409726--30409798 Score: 128
Period size: 26 Copynumber: 2.9 Consensus size: 25
30409716 GGAGCAAGTG
30409726 CAAAAGGGCTTATGCCCCAGTTTAC
1 CAAAAGGGCTTATGCCCCAGTTTAC
30409751 CGAAAAGGGCTTATGCCCCAGTTTAC
1 C-AAAAGGGCTTATGCCCCAGTTTAC
*
30409777 CAAAAGGGCTTTTGCCCCAGTT
1 CAAAAGGGCTTATGCCCCAGTT
30409799 ATTAAAAGAA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
25 21 0.46
26 25 0.54
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (25 bp):
CAAAAGGGCTTATGCCCCAGTTTAC
Found at i:30409924 original size:39 final size:39
Alignment explanation
Indices: 30409850--30409930 Score: 94
Period size: 39 Copynumber: 2.1 Consensus size: 39
30409840 ATGCTACCAG
* * * *
30409850 TGGAGAGTTTTGGTTGGGTGGGTTGAGTTATTCCCCATA
1 TGGAGAGCTTTGGATGGGTGGGTCGAGTTATTCCCCAAA
30409889 TGGAGAGCTTTGGAT-GGTGGGTCGAG-TAGTCTCCCCAAA
1 TGGAGAGCTTTGGATGGGTGGGTCGAGTTA-T-TCCCCAAA
30409928 TGG
1 TGG
30409931 GCTTGCATTC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
37 2 0.06
38 11 0.31
39 23 0.64
ACGTcount: A:0.17, C:0.14, G:0.37, T:0.32
Consensus pattern (39 bp):
TGGAGAGCTTTGGATGGGTGGGTCGAGTTATTCCCCAAA
Found at i:30413177 original size:14 final size:14
Alignment explanation
Indices: 30413155--30413188 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
30413145 CTCAAGTATA
*
30413155 ACCAATACAAAATG
1 ACCATTACAAAATG
30413169 ACCATTACAAAATG
1 ACCATTACAAAATG
30413183 ACCATT
1 ACCATT
30413189 TTCCCAACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.50, C:0.24, G:0.06, T:0.21
Consensus pattern (14 bp):
ACCATTACAAAATG
Found at i:30426403 original size:166 final size:167
Alignment explanation
Indices: 30426121--30426459 Score: 635
Period size: 166 Copynumber: 2.0 Consensus size: 167
30426111 TTAACAAATT
*
30426121 CTTTTAGTTCACATAATTCTCTCTAAAAAAAATATTTCTAAATTCACACTTGACTCATTATTATT
1 CTTTTAATTCACATAATTCTCTCTAAAAAAAATATTTCTAAATTCACACTTGACTCATTATTATT
30426186 AATTTACTAAATTTTCCTACTCACTCGTCGGATTTAGTGATCTCGAATCACTATTCCCAACAACA
66 AATTTACTAAATTTTCCTACTCACTCGTCGGATTTAGTGATCTCGAATCACTATTCCCAACAACA
*
30426251 CAGAAATTTAGGCTGTTACAAAACTCAACTTTTTCAC
131 CAGAAATTTAGGCTATTACAAAACTCAACTTTTTCAC
30426288 CTTTTAATTCACATAATTCTCTCT-AAAAAAATATTTCTAAATTCACACTTGACTCATTATTATT
1 CTTTTAATTCACATAATTCTCTCTAAAAAAAATATTTCTAAATTCACACTTGACTCATTATTATT
30426352 AATTTACTAAATTTTCCTACTCACTCGTCGGATTTAGTGATCTCGAATCACTATTCCCAACAACA
66 AATTTACTAAATTTTCCTACTCACTCGTCGGATTTAGTGATCTCGAATCACTATTCCCAACAACA
* *
30426417 CAGAAATTTAGGCTATTATAGAACTCAACTTTTTCAC
131 CAGAAATTTAGGCTATTACAAAACTCAACTTTTTCAC
30426454 CTTTTA
1 CTTTTA
30426460 TGATTTAGTC
Statistics
Matches: 168, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
166 145 0.86
167 23 0.14
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (167 bp):
CTTTTAATTCACATAATTCTCTCTAAAAAAAATATTTCTAAATTCACACTTGACTCATTATTATT
AATTTACTAAATTTTCCTACTCACTCGTCGGATTTAGTGATCTCGAATCACTATTCCCAACAACA
CAGAAATTTAGGCTATTACAAAACTCAACTTTTTCAC
Found at i:30427154 original size:23 final size:23
Alignment explanation
Indices: 30427124--30427190 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 23
30427114 TGAAGGTAGG
*
30427124 ATCTGAATCTGTATCTGTTATAC
1 ATCTGAATATGTATCTGTTATAC
* * *
30427147 ATCTGAATTTGTATCT-ATATGC
1 ATCTGAATATGTATCTGTTATAC
*
30427169 ATCTGAAATATGTATATGTTAT
1 ATCTG-AATATGTATCTGTTAT
30427191 GCATTTGTGT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
22 9 0.25
23 24 0.67
24 3 0.08
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.45
Consensus pattern (23 bp):
ATCTGAATATGTATCTGTTATAC
Found at i:30429892 original size:21 final size:22
Alignment explanation
Indices: 30429868--30429921 Score: 87
Period size: 21 Copynumber: 2.6 Consensus size: 22
30429858 TTAAGTTTAT
30429868 GGTTTTA-GGTTTGTTATTTTG
1 GGTTTTAGGGTTTGTTATTTTG
30429889 GG-TTTAGGGTTTGTTATTTTG
1 GGTTTTAGGGTTTGTTATTTTG
30429910 GG-TTTAGGGTTT
1 GGTTTTAGGGTTT
30429922 AGGGTATATG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 4 0.12
21 28 0.88
ACGTcount: A:0.09, C:0.00, G:0.33, T:0.57
Consensus pattern (22 bp):
GGTTTTAGGGTTTGTTATTTTG
Found at i:30429919 original size:28 final size:28
Alignment explanation
Indices: 30429888--30430020 Score: 97
Period size: 28 Copynumber: 4.5 Consensus size: 28
30429878 TTGTTATTTT
*
30429888 GGGTTTAGGGTTTGTTATTTTGGGTTTA
1 GGGTTTAGGGTTTGTTATTTTAGGTTTA
* *
30429916 GGGTTTAGGGTATATGATATTAGGCTTTAAAGTTTA
1 GGGTTTAGGGT-T-TG---TTA---TTTTAGGTTTA
**
30429952 GGGTTTAATGTTTAG-TATTTTAGGTTTA
1 GGGTTTAGGGTTT-GTTATTTTAGGTTTA
* * * *
30429980 GGGGTTAAGATTTGTTATTTTAGGTTTG
1 GGGTTTAGGGTTTGTTATTTTAGGTTTA
30430008 GGGTTTAGGGTTT
1 GGGTTTAGGGTTT
30430021 ATAGTTTATG
Statistics
Matches: 81, Mismatches: 14, Indels: 20
0.70 0.12 0.17
Matches are distributed among these distances:
27 1 0.01
28 52 0.64
29 1 0.01
30 2 0.02
31 2 0.02
33 3 0.04
34 1 0.01
35 2 0.02
36 17 0.21
ACGTcount: A:0.19, C:0.01, G:0.32, T:0.49
Consensus pattern (28 bp):
GGGTTTAGGGTTTGTTATTTTAGGTTTA
Found at i:30430046 original size:22 final size:21
Alignment explanation
Indices: 30430009--30430063 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
30429999 TTAGGTTTGG
* *
30430009 GGTTTAG-GGTTTATAGTTTAT
1 GGTTTAGTGTTTTATAG-TTAA
30430030 GGTTTAGTGTTTTATAGTTAA
1 GGTTTAGTGTTTTATAGTTAA
30430051 GGTCTTAGTGTTT
1 GGT-TTAGTGTTT
30430064 ATGGTTCTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 13 0.43
22 17 0.57
ACGTcount: A:0.18, C:0.02, G:0.27, T:0.53
Consensus pattern (21 bp):
GGTTTAGTGTTTTATAGTTAA
Found at i:30430621 original size:40 final size:40
Alignment explanation
Indices: 30430577--30430662 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 40
30430567 GCACTAGCAC
*
30430577 AAAAACGCCGCAATAGATCGAGAATTAGCAGCGCTTTTTG
1 AAAAACGCCGCAATAGATCGAGAATTAGCAGCACTTTTTG
* * * *
30430617 AAAAAAGCCGCTATAGGTCGAGAATTAGCGGCACTTTTTG
1 AAAAACGCCGCAATAGATCGAGAATTAGCAGCACTTTTTG
30430657 AAAAAC
1 AAAAAC
30430663 TCCATAAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (40 bp):
AAAAACGCCGCAATAGATCGAGAATTAGCAGCACTTTTTG
Found at i:30432703 original size:22 final size:23
Alignment explanation
Indices: 30432657--30432703 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
30432647 GGAAAGACAG
* *
30432657 TTTTCTATACTTATGTAAGTTCT
1 TTTTCTATACTTAGGTAAGTGCT
30432680 TTTTCTATACTTAGGTAAG-GCT
1 TTTTCTATACTTAGGTAAGTGCT
30432702 TT
1 TT
30432704 GATCCTCCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.21, C:0.13, G:0.13, T:0.53
Consensus pattern (23 bp):
TTTTCTATACTTAGGTAAGTGCT
Found at i:30433610 original size:18 final size:18
Alignment explanation
Indices: 30433587--30433629 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
30433577 AATATTTAAA
30433587 GAATAAAAGATAACTTTG
1 GAATAAAAGATAACTTTG
30433605 GAATAAAAGATAACTTTG
1 GAATAAAAGATAACTTTG
*
30433623 GTATAAA
1 GAATAAA
30433630 TGACTTCTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.51, C:0.05, G:0.16, T:0.28
Consensus pattern (18 bp):
GAATAAAAGATAACTTTG
Found at i:30433805 original size:21 final size:20
Alignment explanation
Indices: 30433781--30433865 Score: 65
Period size: 21 Copynumber: 4.4 Consensus size: 20
30433771 TCTTAACTTA
30433781 ATAACTTATATATATCATATC
1 ATAACTTATATATA-CATATC
*
30433802 ATAACTTACATA-AC-TCA-C
1 ATAACTTATATATACAT-ATC
* * *
30433820 ATAAC--ATACATA-ATTTA
1 ATAACTTATATATACATATC
30433837 ATAACTTATATATATCATATC
1 ATAACTTATATATA-CATATC
30433858 ATAACTTA
1 ATAACTTA
30433866 CATAACTCAC
Statistics
Matches: 48, Mismatches: 8, Indels: 16
0.67 0.11 0.22
Matches are distributed among these distances:
16 3 0.06
17 7 0.15
18 7 0.15
19 8 0.17
20 1 0.02
21 22 0.46
ACGTcount: A:0.46, C:0.16, G:0.00, T:0.38
Consensus pattern (20 bp):
ATAACTTATATATACATATC
Found at i:30433813 original size:9 final size:9
Alignment explanation
Indices: 30433774--30433932 Score: 112
Period size: 9 Copynumber: 17.4 Consensus size: 9
30433764 CTTTGGATCT
30433774 TAACTTA-A
1 TAACTTACA
*
30433782 TAACTTATA
1 TAACTTACA
*
30433791 TATATCATATCA
1 TA-A-CTTA-CA
30433803 TAACTTACA
1 TAACTTACA
*
30433812 TAACTCACA
1 TAACTTACA
*
30433821 TAACATACA
1 TAACTTACA
*
30433830 TAATTTA-A
1 TAACTTACA
*
30433838 TAACTTATA
1 TAACTTACA
*
30433847 TATATCATATCA
1 TA-A-CTTA-CA
30433859 TAACTTACA
1 TAACTTACA
*
30433868 TAACTCACA
1 TAACTTACA
30433877 TAACTTACA
1 TAACTTACA
30433886 TAACTTACA
1 TAACTTACA
30433895 TAA--TACA
1 TAACTTACA
* *
30433902 TAA-ATATA
1 TAACTTACA
* *
30433910 TACCATATCA
1 TAACTTA-CA
30433920 TAACTTACA
1 TAACTTACA
30433929 TAAC
1 TAAC
30433933 CTAATTATAC
Statistics
Matches: 121, Mismatches: 19, Indels: 21
0.75 0.12 0.13
Matches are distributed among these distances:
7 7 0.06
8 19 0.16
9 67 0.55
10 14 0.12
11 8 0.07
12 6 0.05
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.35
Consensus pattern (9 bp):
TAACTTACA
Found at i:30433864 original size:56 final size:56
Alignment explanation
Indices: 30433774--30433932 Score: 237
Period size: 56 Copynumber: 2.8 Consensus size: 56
30433764 CTTTGGATCT
30433774 TAACTTAATAACTTATATATATCATATCATAACTTACATAACTCACATAACATACA
1 TAACTTAATAACTTATATATATCATATCATAACTTACATAACTCACATAACATACA
* *
30433830 TAATTTAATAACTTATATATATCATATCATAACTTACATAACTCACATAACTTACA
1 TAACTTAATAACTTATATATATCATATCATAACTTACATAACTCACATAACATACA
* *
30433886 TAACTTACATAATACATAAATATATACCATATCATAACTTACATAAC
1 TAACTTA-AT-A-AC-T-TATATATATCATATCATAACTTACATAAC
30433933 CTAATTATAC
Statistics
Matches: 93, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
56 60 0.65
57 2 0.02
58 1 0.01
59 2 0.02
60 1 0.01
61 27 0.29
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.35
Consensus pattern (56 bp):
TAACTTAATAACTTATATATATCATATCATAACTTACATAACTCACATAACATACA
Found at i:30433878 original size:65 final size:61
Alignment explanation
Indices: 30433801--30433932 Score: 176
Period size: 65 Copynumber: 2.1 Consensus size: 61
30433791 TATATCATAT
* *
30433801 CATAACTTACATAACTCACATAACATACATAATTTA-ATAACTTATATATATCATATCATAACTT
1 CATAACTCACATAACTCACATAACATACATAA--TACATAA---ATATATACCATATCATAACTT
30433865 A
61 A
* *
30433866 CATAACTCACATAACTTACATAACTTACATAATACATAAATATATACCATATCATAACTTA
1 CATAACTCACATAACTCACATAACATACATAATACATAAATATATACCATATCATAACTTA
30433927 CATAAC
1 CATAAC
30433933 CTAATTATAC
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
61 27 0.44
63 2 0.03
64 4 0.06
65 29 0.47
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (61 bp):
CATAACTCACATAACTCACATAACATACATAATACATAAATATATACCATATCATAACTTA
Found at i:30438552 original size:29 final size:29
Alignment explanation
Indices: 30438513--30438600 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
30438503 CAAAGATAAC
*
30438513 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
30438542 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
30438571 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
30438601 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:30438571 original size:15 final size:15
Alignment explanation
Indices: 30438513--30438591 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
30438503 CAAAGATAAC
*
30438513 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
30438527 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
30438542 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
30438556 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
30438571 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
30438586 AAGAAA
1 AAGAAA
30438592 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:30438600 original size:15 final size:15
Alignment explanation
Indices: 30438524--30438600 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
30438514 AGAAAACCGA
30438524 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
30438539 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
30438553 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
30438567 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
30438583 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
30438598 ATA
1 ATA
30438601 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:30443575 original size:29 final size:29
Alignment explanation
Indices: 30443536--30443623 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
30443526 CAAAGATAAC
*
30443536 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
30443565 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
30443594 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
30443624 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:30443594 original size:15 final size:15
Alignment explanation
Indices: 30443536--30443614 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
30443526 CAAAGATAAC
*
30443536 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
30443550 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
30443565 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
30443579 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
30443594 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
30443609 AAGAAA
1 AAGAAA
30443615 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:30443623 original size:15 final size:15
Alignment explanation
Indices: 30443547--30443623 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
30443537 AGAAAACCGA
30443547 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
30443562 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
30443576 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
30443590 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
30443606 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
30443621 ATA
1 ATA
30443624 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:30453941 original size:26 final size:26
Alignment explanation
Indices: 30453912--30453961 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
30453902 GACCAGTTCC
*
30453912 TATAAACATTTCACACAACCATTTTG
1 TATAAACAATTCACACAACCATTTTG
* * *
30453938 TATAACCAATTCATATAACCATTT
1 TATAAACAATTCACACAACCATTT
30453962 GTCATCTGGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.40, C:0.22, G:0.02, T:0.36
Consensus pattern (26 bp):
TATAAACAATTCACACAACCATTTTG
Found at i:30453944 original size:13 final size:13
Alignment explanation
Indices: 30453892--30453961 Score: 50
Period size: 13 Copynumber: 5.3 Consensus size: 13
30453882 TTGTACGTAT
*
30453892 ATTTCCATATGACC
1 ATTT-CATATAACC
* * *
30453906 AGTTCCTATAAAC
1 ATTTCATATAACC
* *
30453919 ATTTCACACAACC
1 ATTTCATATAACC
**
30453932 ATTTTGTATAACC
1 ATTTCATATAACC
*
30453945 AATTCATATAACC
1 ATTTCATATAACC
30453958 ATTT
1 ATTT
30453962 GTCATCTGGT
Statistics
Matches: 39, Mismatches: 17, Indels: 1
0.68 0.30 0.02
Matches are distributed among these distances:
13 36 0.92
14 3 0.08
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.36
Consensus pattern (13 bp):
ATTTCATATAACC
Found at i:30454109 original size:46 final size:46
Alignment explanation
Indices: 30454049--30454271 Score: 295
Period size: 46 Copynumber: 4.8 Consensus size: 46
30454039 TTCAACATGA
* * * * * *
30454049 TGCCATAGTATCTTTCAACTATGGTCTTACTCGTTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACAC-ATTTCATATCAGGT
* * ** * * *
30454095 TGCAATGGTATCTTTTAACCATGGTCTTATTCATTTAATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
30454141 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
30454187 TACCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
30454233 TGCCATGGTATCTTTCAGCCATGGTCTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
30454272 TTTAGAGAGC
Statistics
Matches: 158, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 3 0.02
46 155 0.98
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:30454681 original size:24 final size:23
Alignment explanation
Indices: 30454649--30454697 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
30454639 ATCAGGTAGT
*
30454649 TCACAAAGAACCATATCGTGAAGC
1 TCACAAAGAACC-TATCGGGAAGC
* *
30454673 TCACGAAGAGCCTATCGGGAAGC
1 TCACAAAGAACCTATCGGGAAGC
30454696 TC
1 TC
30454698 TGGATAGCCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.35, C:0.27, G:0.22, T:0.16
Consensus pattern (23 bp):
TCACAAAGAACCTATCGGGAAGC
Found at i:30454694 original size:23 final size:23
Alignment explanation
Indices: 30454662--30454777 Score: 76
Period size: 23 Copynumber: 5.0 Consensus size: 23
30454652 CAAAGAACCA
*
30454662 TATCGTGAAGCTCACGAAGAGCC
1 TATCGGGAAGCTCACGAAGAGCC
* * *
30454685 TATCGGGAAGCTC-TGGATAGCC
1 TATCGGGAAGCTCACGAAGAGCC
* * *
30454707 ATATATCGGGAAGTTCAAG-CGAGCAC
1 ---TATCGGGAAGCTCACGAAGAGC-C
* * *
30454733 TATCGGGAGGCTCACAAAGAACC
1 TATCGGGAAGCTCACGAAGAGCC
30454756 TATC-GGAAGGCTCACGAAGAGC
1 TATCGGGAA-GCTCACGAAGAGC
30454778 TGTATTTCGG
Statistics
Matches: 69, Mismatches: 17, Indels: 14
0.69 0.17 0.14
Matches are distributed among these distances:
22 9 0.13
23 40 0.58
24 3 0.04
25 15 0.22
26 2 0.03
ACGTcount: A:0.31, C:0.23, G:0.28, T:0.17
Consensus pattern (23 bp):
TATCGGGAAGCTCACGAAGAGCC
Found at i:30456633 original size:17 final size:19
Alignment explanation
Indices: 30456601--30456639 Score: 64
Period size: 17 Copynumber: 2.2 Consensus size: 19
30456591 ACACCTTCAA
30456601 TTTTCTCTTTTCTTCTTTC
1 TTTTCTCTTTTCTTCTTTC
30456620 TTTTCTC-TTT-TTCTTTC
1 TTTTCTCTTTTCTTCTTTC
30456637 TTT
1 TTT
30456640 CCTTGCCCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 10 0.50
18 3 0.15
19 7 0.35
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTCTCTTTTCTTCTTTC
Found at i:30456905 original size:18 final size:18
Alignment explanation
Indices: 30456857--30456905 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 18
30456847 ATAATATAAT
30456857 TATTTAATTAATAAATATC
1 TATTTAA-TAATAAATATC
*
30456876 TTTTATAAAATAATAAATATC
1 TATT-T--AATAATAAATATC
30456897 TATTTAATA
1 TATTTAATA
30456906 TCTAATACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
18 4 0.16
19 3 0.12
20 2 0.08
21 14 0.56
22 2 0.08
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTTAATAATAAATATC
Found at i:30458424 original size:13 final size:14
Alignment explanation
Indices: 30458408--30458436 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
30458398 TTTTAAATAT
30458408 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
30458421 TTATAATGGTTTAA
1 TTATAATGGTTTAA
30458435 TT
1 TT
30458437 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:30458902 original size:21 final size:21
Alignment explanation
Indices: 30458873--30458922 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
30458863 TTACAACATA
* **
30458873 AAGCGGAGGCAACATTGAGGG
1 AAGCAGAGGCAACAGCGAGGG
*
30458894 AAGCAGAGGCAGCAGCGAGGG
1 AAGCAGAGGCAACAGCGAGGG
30458915 AAGCAGAG
1 AAGCAGAG
30458923 CAGAGCAGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.36, C:0.16, G:0.44, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCAACAGCGAGGG
Found at i:30459307 original size:43 final size:43
Alignment explanation
Indices: 30459260--30459503 Score: 187
Period size: 43 Copynumber: 5.8 Consensus size: 43
30459250 CAACGATACT
* *
30459260 TTTAGCAGCATTTGTGATAAAAGCACCGCTAAAGGT-ACTGTTC
1 TTTAGCGGCATTTGTGATAAAAGCGCCGCTAAAGGTCA-TGTTC
* * * * * *
30459303 TTTAGTGCCATTTGT-AAAAAAACGCCGCTAAAAGTCATGCTC
1 TTTAGCGGCATTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
* * *** *
30459345 TATAGTGATGTTTGTTTG-TAAAA-CGCTGCTAAAGGTCATGTTC
1 TTTAGCGGCATTTG--TGATAAAAGCGCCGCTAAAGGTCATGTTC
* * * * *
30459388 TTTAGCGACGTTTATGATAAAAGCGTCGCTAAAGGACATGTTC
1 TTTAGCGGCATTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
* * **
30459431 TATAGCGGTATTTGT-A-AAAA-AACCGCTAAAGGTCATGTTC
1 TTTAGCGGCATTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
* *
30459471 TTTAGCGGCGTTTATGATAAAAGCGCCGCTAAA
1 TTTAGCGGCATTTGTGATAAAAGCGCCGCTAAA
30459504 AGTCTATTTT
Statistics
Matches: 154, Mismatches: 38, Indels: 18
0.73 0.18 0.09
Matches are distributed among these distances:
40 27 0.18
41 7 0.05
42 40 0.26
43 75 0.49
44 5 0.03
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCATTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
Found at i:30459864 original size:56 final size:56
Alignment explanation
Indices: 30459803--30459919 Score: 225
Period size: 56 Copynumber: 2.1 Consensus size: 56
30459793 AACTTATCCA
30459803 TAACATGTCAATTATGAACCAAAACATAAACAAAAACTCAAAACCTGAACTTTAAC
1 TAACATGTCAATTATGAACCAAAACATAAACAAAAACTCAAAACCTGAACTTTAAC
*
30459859 TAACATGTCAATTGTGAACCAAAACATAAACAAAAACTCAAAACCTGAACTTTAAC
1 TAACATGTCAATTATGAACCAAAACATAAACAAAAACTCAAAACCTGAACTTTAAC
30459915 TAACA
1 TAACA
30459920 ATGTGAAGGG
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 60 1.00
ACGTcount: A:0.51, C:0.21, G:0.06, T:0.21
Consensus pattern (56 bp):
TAACATGTCAATTATGAACCAAAACATAAACAAAAACTCAAAACCTGAACTTTAAC
Found at i:30462093 original size:15 final size:17
Alignment explanation
Indices: 30462062--30462093 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
30462052 ATAATATTAT
30462062 ATAATATCATGTAATAG
1 ATAATATCATGTAATAG
30462079 ATAATAT-AT-TAATAG
1 ATAATATCATGTAATAG
30462094 TTTTGATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 2 0.13
17 7 0.47
ACGTcount: A:0.50, C:0.03, G:0.09, T:0.38
Consensus pattern (17 bp):
ATAATATCATGTAATAG
Found at i:30463524 original size:28 final size:27
Alignment explanation
Indices: 30463495--30463552 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
30463485 CTTTAGCCAT
* *
30463495 TTTTATTTTTATTGC-AATTTAATTTTAT
1 TTTTATTTTAATTACTAATTT--TTTTAT
30463523 TTTTATTTTAATTACTAATTTTTTTAT
1 TTTTATTTTAATTACTAATTTTTTTAT
30463550 TTT
1 TTT
30463553 CTTTTGGCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 9 0.33
28 13 0.48
29 5 0.19
ACGTcount: A:0.24, C:0.03, G:0.02, T:0.71
Consensus pattern (27 bp):
TTTTATTTTAATTACTAATTTTTTTAT
Found at i:30463535 original size:22 final size:23
Alignment explanation
Indices: 30463495--30463544 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
30463485 CTTTAGCCAT
30463495 TTTTATTTTTATTGCAATT-TAA
1 TTTTATTTTTATTGCAATTATAA
**
30463517 TTTTATTTTTATTTTAATTACTAA
1 TTTTATTTTTATTGCAATTA-TAA
30463541 TTTT
1 TTTT
30463545 TTTATTTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 17 0.71
24 7 0.29
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (23 bp):
TTTTATTTTTATTGCAATTATAA
Found at i:30467245 original size:14 final size:15
Alignment explanation
Indices: 30467214--30467247 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
30467204 TTTTACTTAT
*
30467214 TTATTTCTTTATTTG
1 TTATTTCTTTAATTG
30467229 TTATTTC-TTAATTG
1 TTATTTCTTTAATTG
30467243 TTATT
1 TTATT
30467248 CTATTTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.71
Consensus pattern (15 bp):
TTATTTCTTTAATTG
Found at i:30468054 original size:49 final size:49
Alignment explanation
Indices: 30468001--30468095 Score: 136
Period size: 49 Copynumber: 1.9 Consensus size: 49
30467991 CTAAATAATT
* **
30468001 ACAAAGTGTAGAATCAAACTATTACATTACAAATAGACTAAAAATTGGA
1 ACAAAGTGTAGAATCAAACAATTACAACACAAATAGACTAAAAATTGGA
* * *
30468050 ACAAAGTGTAGGATTAAACAATTACAACACAAATAGACTAAGAATT
1 ACAAAGTGTAGAATCAAACAATTACAACACAAATAGACTAAAAATT
30468096 AAAATAAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.52, C:0.13, G:0.13, T:0.23
Consensus pattern (49 bp):
ACAAAGTGTAGAATCAAACAATTACAACACAAATAGACTAAAAATTGGA
Found at i:30469659 original size:11 final size:11
Alignment explanation
Indices: 30469643--30469669 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
30469633 GTAGCCTCCA
30469643 AACTTGGTCTT
1 AACTTGGTCTT
30469654 AACTTGGTCTT
1 AACTTGGTCTT
30469665 AACTT
1 AACTT
30469670 CTAGACCGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.19, G:0.15, T:0.44
Consensus pattern (11 bp):
AACTTGGTCTT
Found at i:30472500 original size:15 final size:15
Alignment explanation
Indices: 30472480--30472529 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
30472470 AGGGCCAGAG
30472480 AAGAAGGAGGAGCCA
1 AAGAAGGAGGAGCCA
* * *
30472495 AAGAAGGAAGAACCC
1 AAGAAGGAGGAGCCA
*
30472510 AAGAAAGAGGAGCCA
1 AAGAAGGAGGAGCCA
30472525 AAGAA
1 AAGAA
30472530 AGAAGAACCC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.54, C:0.14, G:0.32, T:0.00
Consensus pattern (15 bp):
AAGAAGGAGGAGCCA
Found at i:30472514 original size:30 final size:30
Alignment explanation
Indices: 30472480--30472613 Score: 146
Period size: 30 Copynumber: 4.4 Consensus size: 30
30472470 AGGGCCAGAG
*
30472480 AAGAAGGAGGAGCCAAAGAAGGAAGAACCC
1 AAGAAGGAGGAGCCAAAGAAAGAAGAACCC
*
30472510 AAGAAAGAGGAGCCAAAGAAAGAAGAACCC
1 AAGAAGGAGGAGCCAAAGAAAGAAGAACCC
* *
30472540 AAGAAGGAAGAAGAG-CAGAAGAAAGAAGAGCCT
1 AAGAAGG-AG--GAGCCA-AAGAAAGAAGAACCC
* *
30472573 AAGAAGGAAGAACCAAA-AAAGGAAGAACCC
1 AAGAAGGAGGAGCCAAAGAAA-GAAGAACCC
*
30472603 AAGAAAGAGGA
1 AAGAAGGAGGA
30472614 AGAGAAGAAG
Statistics
Matches: 87, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
29 3 0.03
30 54 0.62
31 4 0.05
32 3 0.03
33 23 0.26
ACGTcount: A:0.56, C:0.13, G:0.30, T:0.01
Consensus pattern (30 bp):
AAGAAGGAGGAGCCAAAGAAAGAAGAACCC
Found at i:30472543 original size:15 final size:15
Alignment explanation
Indices: 30472495--30472610 Score: 90
Period size: 15 Copynumber: 7.5 Consensus size: 15
30472485 GGAGGAGCCA
*
30472495 AAGAAGGAAGAACCC
1 AAGAAAGAAGAACCC
* * *
30472510 AAGAAAGAGGAGCCA
1 AAGAAAGAAGAACCC
30472525 AAGAAAGAAGAACCC
1 AAGAAAGAAGAACCC
* **
30472540 AAGAAGGAAGAAGAGCAG
1 AAG-A--AAGAAGAACCC
* *
30472558 AAGAAAGAAGAGCCT
1 AAGAAAGAAGAACCC
*
30472573 AAGAAGGAAGAA-CC
1 AAGAAAGAAGAACCC
*
30472587 AAAAAAGGAAGAACCC
1 AAGAAA-GAAGAACCC
30472603 AAGAAAGA
1 AAGAAAGA
30472611 GGAAGAGAAG
Statistics
Matches: 78, Mismatches: 18, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
14 5 0.06
15 53 0.68
16 8 0.10
17 1 0.01
18 11 0.14
ACGTcount: A:0.58, C:0.14, G:0.28, T:0.01
Consensus pattern (15 bp):
AAGAAAGAAGAACCC
Found at i:30472577 original size:63 final size:63
Alignment explanation
Indices: 30472495--30472632 Score: 179
Period size: 63 Copynumber: 2.2 Consensus size: 63
30472485 GGAGGAGCCA
* * * * *
30472495 AAGAAGGAAGAACCCAAGAAAGAGGAGCCAAAGAAA-GAAGAACCCAAGAAGGAAGAAGAGCAG
1 AAGAAGGAAGAGCCCAAGAAAGAAGAACCAAA-AAAGGAAGAACCCAAGAAAGAAGAAGAGAAG
* * * *
30472558 AAGAAAGAAGAGCCTAAGAAGGAAGAACCAAAAAAGGAAGAACCCAAGAAAGAGGAAGAGAAG
1 AAGAAGGAAGAGCCCAAGAAAGAAGAACCAAAAAAGGAAGAACCCAAGAAAGAAGAAGAGAAG
30472621 AAGAAGGAAGAG
1 AAGAAGGAAGAG
30472633 GAGAAAAAGC
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
62 3 0.05
63 61 0.95
ACGTcount: A:0.57, C:0.12, G:0.30, T:0.01
Consensus pattern (63 bp):
AAGAAGGAAGAGCCCAAGAAAGAAGAACCAAAAAAGGAAGAACCCAAGAAAGAAGAAGAGAAG
Found at i:30474614 original size:23 final size:25
Alignment explanation
Indices: 30474588--30474643 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 25
30474578 AAAAATTTAA
30474588 AAATATTAATTTT-AT-TAAATAAT
1 AAATATTAATTTTAATATAAATAAT
* *
30474611 AAATAATATTTTTAAATGATAAATAAT
1 AAATATTAATTTT-AAT-ATAAATAAT
30474638 AAATAT
1 AAATAT
30474644 GTTAAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
25 2 0.08
27 13 0.50
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (25 bp):
AAATATTAATTTTAATATAAATAAT
Found at i:30476414 original size:27 final size:25
Alignment explanation
Indices: 30476377--30476428 Score: 59
Period size: 27 Copynumber: 2.0 Consensus size: 25
30476367 CTTTACTTAC
30476377 ATTTAAAATTTAATTCCTTATATTT
1 ATTTAAAATTTAATTCCTTATATTT
* * *
30476402 ATTTCAAAGATTTTATTCTTTTTATTT
1 ATTT-AAA-ATTTAATTCCTTATATTT
30476429 TTCAAATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 4 0.18
26 3 0.14
27 15 0.68
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.60
Consensus pattern (25 bp):
ATTTAAAATTTAATTCCTTATATTT
Found at i:30476950 original size:5 final size:5
Alignment explanation
Indices: 30476940--30476967 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
30476930 CGAATTGTGA
30476940 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
30476968 GAACACACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:30485031 original size:29 final size:30
Alignment explanation
Indices: 30484986--30485046 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 30
30484976 GAACACATAG
30484986 ATTTTTACGTGAAAACCCTTTTGGGAAAAA
1 ATTTTTACGTGAAAACCCTTTTGGGAAAAA
30485016 ATTTTTACGTG-AAACCCTTTTGGGAAAAA
1 ATTTTTACGTGAAAACCCTTTTGGGAAAAA
30485045 AT
1 AT
30485047 CACGGGTAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 20 0.65
30 11 0.35
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.34
Consensus pattern (30 bp):
ATTTTTACGTGAAAACCCTTTTGGGAAAAA
Found at i:30486463 original size:21 final size:21
Alignment explanation
Indices: 30486437--30486480 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
30486427 CAAAAATTCT
30486437 AAATAAATAAAAA-ATCTTAAA
1 AAATAAATAAAAATAT-TTAAA
30486458 AAATAAATAAAAATATTTAAA
1 AAATAAATAAAAATATTTAAA
30486479 AA
1 AA
30486481 TTATAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (21 bp):
AAATAAATAAAAATATTTAAA
Found at i:30486471 original size:20 final size:20
Alignment explanation
Indices: 30486437--30486491 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
30486427 CAAAAATTCT
*
30486437 AAATAAATAAAAAATCTTAAA
1 AAATAAAT-AAAAATATTAAA
*
30486458 AAATAAATAAAAATATTTAA
1 AAATAAATAAAAATATTAAA
*
30486478 AAAT-TATAAAAATA
1 AAATAAATAAAAATA
30486492 ATTATTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 9 0.29
20 14 0.45
21 8 0.26
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (20 bp):
AAATAAATAAAAATATTAAA
Found at i:30489857 original size:31 final size:31
Alignment explanation
Indices: 30489789--30489860 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
30489779 TTTTTGTCCT
* * * * * *
30489789 AATTTGGTACTTGAATTTGGCTTTAGTGTTT
1 AATTTGGTACATAAATTTGACTTAACTGTTC
*
30489820 ACTTTGGTACATAAATTTGACTTAACTGTTC
1 AATTTGGTACATAAATTTGACTTAACTGTTC
30489851 AATTTGGTAC
1 AATTTGGTAC
30489861 CTAAGTTTCT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.25, C:0.11, G:0.18, T:0.46
Consensus pattern (31 bp):
AATTTGGTACATAAATTTGACTTAACTGTTC
Found at i:30501099 original size:27 final size:27
Alignment explanation
Indices: 30501061--30501112 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
30501051 CTTTTCTTTT
30501061 TGTGTTCTGCCAATTTTCTACTCTCCA
1 TGTGTTCTGCCAATTTTCTACTCTCCA
30501088 TGTGTTCTGCCAATTTTCTACTCTC
1 TGTGTTCTGCCAATTTTCTACTCTC
30501113 TATCTTTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.13, C:0.29, G:0.12, T:0.46
Consensus pattern (27 bp):
TGTGTTCTGCCAATTTTCTACTCTCCA
Found at i:30501122 original size:27 final size:27
Alignment explanation
Indices: 30501063--30501122 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
30501053 TTTCTTTTTG
*
30501063 TGTTCTGCCAATTTTCTACTCTCCATG
1 TGTTCTGCCAATTTTCTACTCTCCATC
*
30501090 TGTTCTGCCAATTTTCTACTCTCTATC
1 TGTTCTGCCAATTTTCTACTCTCCATC
*
30501117 TTTTCT
1 TGTTCT
30501123 TTCTCCTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.13, C:0.28, G:0.08, T:0.50
Consensus pattern (27 bp):
TGTTCTGCCAATTTTCTACTCTCCATC
Found at i:30506617 original size:14 final size:15
Alignment explanation
Indices: 30506590--30506618 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
30506580 CGACGTGGAT
30506590 TAAGCAGATTAAAGG
1 TAAGCAGATTAAAGG
30506605 TAAGCAG-TTAAAGG
1 TAAGCAGATTAAAGG
30506619 ATGAGTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.45, C:0.07, G:0.28, T:0.21
Consensus pattern (15 bp):
TAAGCAGATTAAAGG
Found at i:30511229 original size:30 final size:30
Alignment explanation
Indices: 30511193--30511252 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
30511183 CTCTTGCATA
30511193 ACAATGTCAAACAAGCTTTTATTACCCTTT
1 ACAATGTCAAACAAGCTTTTATTACCCTTT
30511223 ACAATGTCAAACAAGCTTTTATTACCCTTT
1 ACAATGTCAAACAAGCTTTTATTACCCTTT
30511253 CGCATATCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (30 bp):
ACAATGTCAAACAAGCTTTTATTACCCTTT
Found at i:30512300 original size:22 final size:24
Alignment explanation
Indices: 30512267--30512321 Score: 71
Period size: 22 Copynumber: 2.4 Consensus size: 24
30512257 TTTAACCTAA
* *
30512267 AATTA-TTAATTTTATTAA-TTTT
1 AATTATTTTATTTAATTAATTTTT
30512289 AA-TATTTTATTTAATTAATTTTT
1 AATTATTTTATTTAATTAATTTTT
30512312 AATTATTTTA
1 AATTATTTTA
30512322 ATGATCTAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 2 0.07
22 13 0.46
23 6 0.21
24 7 0.25
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (24 bp):
AATTATTTTATTTAATTAATTTTT
Found at i:30519393 original size:28 final size:28
Alignment explanation
Indices: 30519345--30519399 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
30519335 AACCGATCCA
*
30519345 AAAACCTCAATTAACATACAAATTAAAG
1 AAAACCTCAATTAACATACAAAATAAAG
* *
30519373 AAAACTTCAATTCA-ATAACAAAATAAA
1 AAAACCTCAATTAACAT-ACAAAATAAA
30519400 AAACGAAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 2 0.09
28 21 0.91
ACGTcount: A:0.60, C:0.16, G:0.02, T:0.22
Consensus pattern (28 bp):
AAAACCTCAATTAACATACAAAATAAAG
Found at i:30520160 original size:45 final size:45
Alignment explanation
Indices: 30519979--30520238 Score: 245
Period size: 45 Copynumber: 5.8 Consensus size: 45
30519969 TACAAGAAAC
* *
30519979 GAGTAAGACCATAGCTGAAAGACGTTATGGCATCATGATTCTAAC
1 GAGTAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCTAAT
*
30520024 GAGTAAGACCATAGCT-AAAGAACGTTATGGCATCACGATTCTATT
1 GAGTAAGACCATAGCTGAAAG-ACGTTATGGCATCACGATTCTAAT
* * * *
30520069 GAGTAAGACCATAACTGAAAGACGTCATGGTATCATGATTCTAAT
1 GAGTAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCTAAT
* * * * * *
30520114 GAGTAAAACCATAGTTGAAAGACGTTATGTCATCACAAATCAAAT
1 GAGTAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCTAAT
** * * ** * ****
30520159 GAACAAGACCGTAGTTGAAAGACACTATGGCAACACGACAAAAAT
1 GAGTAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCTAAT
* * *
30520204 GAATAATACCATAGTTGAAAGAC-TCTATGGCATCA
1 GAGTAAGACCATAGCTGAAAGACGT-TATGGCATCA
30520239 AGTCGAGAAT
Statistics
Matches: 177, Mismatches: 35, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
44 4 0.02
45 169 0.95
46 4 0.02
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.23
Consensus pattern (45 bp):
GAGTAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCTAAT
Found at i:30520254 original size:45 final size:45
Alignment explanation
Indices: 30520163--30520282 Score: 132
Period size: 45 Copynumber: 2.7 Consensus size: 45
30520153 TCAAATGAAC
* * * *
30520163 AAGACCGTAGTTGAAAGACACTATGGCAACACGACAAAAATGAAT
1 AAGACCATAGTTGAAAGACACTATGGCATCAAGACAAAAATAAAT
* * * * *
30520208 AATACCATAGTTGAAAGACTCTATGGCATCAAGTCGAGAATAAAT
1 AAGACCATAGTTGAAAGACACTATGGCATCAAGACAAAAATAAAT
* * *
30520253 AAGACCATGGTTGAAAAACACGATGGCATC
1 AAGACCATAGTTGAAAGACACTATGGCATC
30520283 CTTTAACCAT
Statistics
Matches: 61, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 61 1.00
ACGTcount: A:0.43, C:0.17, G:0.20, T:0.19
Consensus pattern (45 bp):
AAGACCATAGTTGAAAGACACTATGGCATCAAGACAAAAATAAAT
Found at i:30520257 original size:90 final size:89
Alignment explanation
Indices: 30520111--30520280 Score: 200
Period size: 90 Copynumber: 1.9 Consensus size: 89
30520101 TCATGATTCT
* * * *
30520111 AATGAGTAAAACCATAGTTGAAAGACGTTATGTCATCACAAATCAAATGAACAAGACCGTAGTTG
1 AATGAATAAAACCATAGTTGAAAGACGTTATGGCAT-ACAAATCAAATAAACAAGACCATAGTTG
* *
30520176 AAAGACACTATGGCAACACGACAAA
65 AAAAACACGATGGCAACACGACAAA
* * * *
30520201 AATGAATAATACCATAGTTGAAAGAC-TCTATGGCAT-CAAGTCGAGAATAAATAAGACCATGGT
1 AATGAATAAAACCATAGTTGAAAGACGT-TATGGCATACAAATC-A-AATAAACAAGACCATAGT
30520264 TGAAAAACACGATGGCA
63 TGAAAAACACGATGGCA
30520281 TCCTTTAACC
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
88 5 0.07
89 2 0.03
90 60 0.90
ACGTcount: A:0.45, C:0.16, G:0.19, T:0.20
Consensus pattern (89 bp):
AATGAATAAAACCATAGTTGAAAGACGTTATGGCATACAAATCAAATAAACAAGACCATAGTTGA
AAAACACGATGGCAACACGACAAA
Found at i:30523453 original size:3 final size:3
Alignment explanation
Indices: 30523445--30523491 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
30523435 AAACCAATTC
30523445 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
30523492 ACATTAAAGC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:30526034 original size:2 final size:2
Alignment explanation
Indices: 30526027--30526074 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
30526017 ATATACAAAT
30526027 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30526069 TA TA TA
1 TA TA TA
30526075 ACACAATAGC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30527751 original size:141 final size:139
Alignment explanation
Indices: 30527585--30528017 Score: 462
Period size: 145 Copynumber: 3.1 Consensus size: 139
30527575 GGAACATCAT
* ** *
30527585 ACTCAAGAATGTAATCGCAATTATCTAACCATCTAACGAAAGGAGCTAGTATGTTAAAAATATTA
1 ACTCAAGGATGTAATTACAATTATCTAACCATCTAACGAAAGGA-CTAATATGTTAAAAA-ATTA
* * * * *
30527650 ATTAATAATAATT-ATAAGCTTGAAGCAACATAAAATAAAAAATACGAATGTGAGT-AGTAGAGG
64 ATTAA-AATATTTAAAAAGCTTGAAGCAACATAAAATAAAAAATACAAATATGAGTAAG-AGAGA
*
30527713 AATCAAAGTCGAG
127 AATCAAACTCGAG
*
30527726 ACTCAAGGATGTAATTACAATTATCTAGCCATCTAACGAAAGGACTAATATGTTAAAAGAACATT
1 ACTCAAGGATGTAATTACAATTATCTAACCATCTAACGAAAGGACTAATATGTT-AAA-AA-ATT
*
30527791 AATTAAAAT-TTTAAAAAACTTGAAGCAACATGAAATAATAAAAAAATACAAATATGAGTAAGAG
63 AATTAAAATATTTAAAAAGCTTGAAGCAACAT--AA-AAT-AAAAAATACAAATATGAGTAAGAG
*
30527855 AGAAATCGAACTCGAG
124 AGAAATCAAACTCGAG
* * * * ** *
30527871 ACTCAATGATGTAA-TAGGAACTATCTAATCATCTAATAAAAGAACTAATATGTTAAAAAATTAA
1 ACTCAAGGATGTAATTA-CAATTATCTAACCATCTAACGAAAGGACTAATATGTTAAAAAATTAA
** * *
30527935 TTAAAA-ATTTAAAAAGCTTGAAGTGACATTAAATAAAAAAAATATAAATATGAGTAAGAGAGAA
65 TTAAAATATTTAAAAAGCTTGAAGCAACA-TAAA-ATAAAAAATACAAATATGAGTAAGAGAGAA
* * *
30527999 ATTAAAGTCTAG
128 ATCAAACTCGAG
30528011 ACTCAAG
1 ACTCAAG
30528018 AATAAAAGCA
Statistics
Matches: 248, Mismatches: 32, Indels: 25
0.81 0.10 0.08
Matches are distributed among these distances:
140 53 0.21
141 65 0.26
142 40 0.16
143 5 0.02
144 8 0.03
145 75 0.30
146 2 0.01
ACGTcount: A:0.50, C:0.10, G:0.14, T:0.26
Consensus pattern (139 bp):
ACTCAAGGATGTAATTACAATTATCTAACCATCTAACGAAAGGACTAATATGTTAAAAAATTAAT
TAAAATATTTAAAAAGCTTGAAGCAACATAAAATAAAAAATACAAATATGAGTAAGAGAGAAATC
AAACTCGAG
Found at i:30532968 original size:3 final size:3
Alignment explanation
Indices: 30532960--30533009 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
30532950 TTTGTCAAGC
30532960 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
30533008 TT
1 TT
30533010 TTCAAATTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:30537783 original size:47 final size:48
Alignment explanation
Indices: 30537730--30538032 Score: 249
Period size: 47 Copynumber: 6.5 Consensus size: 48
30537720 TAGTGAACAA
*
30537730 CATGTCTGGGACAT-GCATCGGCCACATTATGAGAGCCAGTGTAAGAC
1 CATGTCTGGGACATGGCATCGGCCACATGATGAGAGCCAGTGTAAGAC
* * *
30537777 CATGTCTGGGACATGGCATCGG-CATTAGGATGAGAGCTAGTGTAAGA-
1 CATGTCTGGGACATGGCATCGGCCA-CATGATGAGAGCCAGTGTAAGAC
* *
30537824 CATGTCTGGGACAT-GCATCGGCCCCATGACGTA-AGCCAGTGTAAGA-
1 CATGTCTGGGACATGGCATCGGCCACATGATG-AGAGCCAGTGTAAGAC
* * * **
30537870 CATGCCTGGGACAT-GCATCGGCTAC--GA-GATTAGTTAGTGTAAGAC
1 CATGTCTGGGACATGGCATCGGCCACATGATGA-GAGCCAGTGTAAGAC
* * * * *
30537915 CCTGTCT-GAACATGGAATCGGCACAAAT-ATGTGAGAGCTAGTGTAAGAC
1 CATGTCTGGGACATGGCATCGGC-CACATGA--TGAGAGCCAGTGTAAGAC
** * *
30537964 CATGTCTGGGGTATGGCATC-G--ACTTGATGAATGAGCCAATGTAAGAC
1 CATGTCTGGGACATGGCATCGGCCACATGATG-A-GAGCCAGTGTAAGAC
30538011 CATGTCTGGGACATGGCATCGG
1 CATGTCTGGGACATGGCATCGG
30538033 TATTATACCC
Statistics
Matches: 204, Mismatches: 33, Indels: 37
0.74 0.12 0.14
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 18 0.09
45 14 0.07
46 49 0.24
47 65 0.32
48 26 0.13
49 20 0.10
50 10 0.05
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (48 bp):
CATGTCTGGGACATGGCATCGGCCACATGATGAGAGCCAGTGTAAGAC
Found at i:30546557 original size:40 final size:40
Alignment explanation
Indices: 30546513--30546592 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
30546503 AATTATTGAC
* *
30546513 ACAAGATTCCCGAACCGAATCCAAGAAACAAACGAAGGTT
1 ACAAGATTCCCAAAACGAATCCAAGAAACAAACGAAGGTT
* * *
30546553 ACAAGATTCCCAAAATGAATCCAAGGAACGAACGAAGGTT
1 ACAAGATTCCCAAAACGAATCCAAGAAACAAACGAAGGTT
30546593 TACGAAAAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.45, C:0.23, G:0.19, T:0.14
Consensus pattern (40 bp):
ACAAGATTCCCAAAACGAATCCAAGAAACAAACGAAGGTT
Found at i:30546712 original size:25 final size:26
Alignment explanation
Indices: 30546670--30546718 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
30546660 GAAGTGAGAG
30546670 AAAAGAAACTAAAATAAAATAAAAAT
1 AAAAGAAACTAAAATAAAATAAAAAT
* *
30546696 AAAAGGAA-TAAAGTAAAATAAAA
1 AAAAGAAACTAAAATAAAATAAAA
30546719 TATTTCAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.76, C:0.02, G:0.08, T:0.14
Consensus pattern (26 bp):
AAAAGAAACTAAAATAAAATAAAAAT
Found at i:30551479 original size:48 final size:49
Alignment explanation
Indices: 30551427--30551553 Score: 134
Period size: 48 Copynumber: 2.6 Consensus size: 49
30551417 TATGTGATCC
* * * **
30551427 CGTATAAGACCATATCAGGGATATGGCTTTGGCATCGTTAAGTGA-TTT
1 CGTATAAGACCATATCAGGGATATGGCATCGGCATCGATAAGAAACTTT
* * *
30551475 CGTATAAGACCATGTCTA-GAATATGGCATCGGCATCGATATGAAACTTT
1 CGTATAAGACCATATC-AGGGATATGGCATCGGCATCGATAAGAAACTTT
* *
30551524 -GTATAAGACTATATCTGGGATATGGCATCG
1 CGTATAAGACCATATCAGGGATATGGCATCG
30551554 ATATGCGGAC
Statistics
Matches: 64, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
48 60 0.94
49 4 0.06
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.31
Consensus pattern (49 bp):
CGTATAAGACCATATCAGGGATATGGCATCGGCATCGATAAGAAACTTT
Found at i:30560230 original size:5 final size:5
Alignment explanation
Indices: 30560220--30560282 Score: 83
Period size: 5 Copynumber: 12.2 Consensus size: 5
30560210 GAAGTGAGAG
30560220 AAAAT AAAAT AAAAT AAAAAT AAAAAT AAAAT AAAAAT AAAA- AAAAT
1 AAAAT AAAAT AAAAT -AAAAT -AAAAT AAAAT -AAAAT AAAAT AAAAT
*
30560267 AAAGT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT A
30560283 TTTCAACTTC
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
4 4 0.08
5 33 0.62
6 16 0.30
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:30560241 original size:6 final size:6
Alignment explanation
Indices: 30560220--30560280 Score: 67
Period size: 6 Copynumber: 10.5 Consensus size: 6
30560210 GAAGTGAGAG
*
30560220 AAAAT- AAAAT- AAAATA AAAATA AAAAT- AAAATA AAAATA AAAAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
30560265 ATAAAGT- AAAATA AAA
1 A-AAA-TA AAAATA AAA
30560281 TATTTCAACT
Statistics
Matches: 49, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
5 16 0.33
6 29 0.59
7 4 0.08
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:30569421 original size:59 final size:59
Alignment explanation
Indices: 30569349--30569466 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
30569339 AGTGTGCCAG
30569349 GCCGTGTGAAATCTAGAGGGCTTACTAACATGGCCACACGATTGACCACACGCCTATGT
1 GCCGTGTGAAATCTAGAGGGCTTACTAACATGGCCACACGATTGACCACACGCCTATGT
30569408 GCCGTGTGAAATCTAGAGGGCTTACTAACATGGCCACACGATTGACCACACGCCTATGT
1 GCCGTGTGAAATCTAGAGGGCTTACTAACATGGCCACACGATTGACCACACGCCTATGT
30569467 ACCAGCCCGT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (59 bp):
GCCGTGTGAAATCTAGAGGGCTTACTAACATGGCCACACGATTGACCACACGCCTATGT
Found at i:30570765 original size:43 final size:43
Alignment explanation
Indices: 30570620--30570765 Score: 163
Period size: 43 Copynumber: 3.4 Consensus size: 43
30570610 TATCCCAAAT
* * * *
30570620 ATGGTCTTACATGTTATCAC-ATATCGATGCCACTGTCCTAGAC
1 ATGGTCTTACACGTAATCACAATA-CGATGCCAATGTCCCAGAC
* * *
30570663 ATGGTCTTACACGAAATCA-AATAACGACGCCAATGT-CCAAAC
1 ATGGTCTTACACGTAATCACAAT-ACGATGCCAATGTCCCAGAC
* *
30570705 ATGGTCTTACACATAATCACAATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACAATACGATGCCAATGTCCCAGAC
*
30570748 ATGGTCTTACATGTAATC
1 ATGGTCTTACACGTAATC
30570766 GCATCTCAGT
Statistics
Matches: 85, Mismatches: 14, Indels: 8
0.79 0.13 0.07
Matches are distributed among these distances:
42 32 0.38
43 52 0.61
44 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCACAATACGATGCCAATGTCCCAGAC
Found at i:30591312 original size:43 final size:42
Alignment explanation
Indices: 30591251--30591404 Score: 173
Period size: 43 Copynumber: 3.6 Consensus size: 42
30591241 CAATGCTATA
* * *
30591251 TCCCAGATATGGTCTTACATGTTATCACATATCGATGCCACTG
1 TCCCAGACATGGTCTTACATGTAATCACA-ATCGATGCCAATG
* * * * * *
30591294 TCCCAGACAGGGTTTTACACGAAATCAAAAAACGATGCCAATG
1 TCCCAGACATGGTCTTACATGTAATC-ACAATCGATGCCAATG
* *
30591337 ACCCAGACATGGTCTTACATGTAATCACAATACAATGCCAATG
1 TCCCAGACATGGTCTTACATGTAATCACAAT-CGATGCCAATG
*
30591380 TCCCAGACATGGTTTTACATGTAAT
1 TCCCAGACATGGTCTTACATGTAAT
30591405 TACATCTCGG
Statistics
Matches: 90, Mismatches: 19, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
42 3 0.03
43 85 0.94
44 2 0.02
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACATGTAATCACAATCGATGCCAATG
Found at i:30594909 original size:2 final size:2
Alignment explanation
Indices: 30594902--30594945 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
30594892 AATAAAATGA
30594902 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30594944 AT
1 AT
30594946 GAAAAACCGG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30595783 original size:14 final size:14
Alignment explanation
Indices: 30595764--30595793 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
30595754 CAACTTGAAG
*
30595764 TGTTTTTTTTTTTT
1 TGTTTTTTTTTGTT
30595778 TGTTTTTTTTTGTT
1 TGTTTTTTTTTGTT
30595792 TG
1 TG
30595794 CAATTTATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (14 bp):
TGTTTTTTTTTGTT
Found at i:30596032 original size:33 final size:33
Alignment explanation
Indices: 30595984--30596049 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
30595974 AAAAAATTAA
* *
30595984 TTACGAAAATTGGTTGAG-ATAAAAATTATTTAC
1 TTACGAAAATAGGTTGAGCA-AAAAATGATTTAC
*
30596017 TTACGGAAATAGGTTGAGCAAAAAATGATTTAC
1 TTACGAAAATAGGTTGAGCAAAAAATGATTTAC
30596050 GAGAATGTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.42, C:0.08, G:0.18, T:0.32
Consensus pattern (33 bp):
TTACGAAAATAGGTTGAGCAAAAAATGATTTAC
Found at i:30596390 original size:124 final size:125
Alignment explanation
Indices: 30596237--30596484 Score: 345
Period size: 124 Copynumber: 2.0 Consensus size: 125
30596227 TAATCGATCA
* * *
30596237 TATTGCTTTCATAATTAATTTTCCAGTAAAAAAATTTATTGCTACTTGCTATTTATTTAAATAGG
1 TATTGCTTTCATAATTAATGTGCCAGTAAAAAAATTTATTGCTACTTGCTAGTTATTTAAATAGG
* * ** * *
30596302 AATGTTGTTTATTTAAA-CAAAAAAACATATTTTCTATTCATGGTTAACTTATAAAATCG
66 AATGTTATTTATTTAAAGCAAAAAAACATATCTGATATTAATGATTAACTTATAAAATCG
* * * *
30596361 TATTGCTTTGATGATTAATGTGCCGGTAAAAAAATTTGTTGCTACTTGCTAGTTATTTAAATAGG
1 TATTGCTTTCATAATTAATGTGCCAGTAAAAAAATTTATTGCTACTTGCTAGTTATTTAAATAGG
* *
30596426 ACTGTTATTTATTTAAATGGAAAAAAACATATCTGATATTAATGATTAACTTATAAAAT
66 AATGTTATTTATTTAAA-GCAAAAAAACATATCTGATATTAATGATTAACTTATAAAAT
30596485 TGCACGTCAT
Statistics
Matches: 107, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
124 73 0.68
126 34 0.32
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.42
Consensus pattern (125 bp):
TATTGCTTTCATAATTAATGTGCCAGTAAAAAAATTTATTGCTACTTGCTAGTTATTTAAATAGG
AATGTTATTTATTTAAAGCAAAAAAACATATCTGATATTAATGATTAACTTATAAAATCG
Found at i:30597157 original size:13 final size:13
Alignment explanation
Indices: 30597139--30597165 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
30597129 TCAGGCAACA
30597139 AAGCACGATACAT
1 AAGCACGATACAT
30597152 AAGCACGATACAT
1 AAGCACGATACAT
30597165 A
1 A
30597166 CTACTACTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.15, T:0.15
Consensus pattern (13 bp):
AAGCACGATACAT
Found at i:30597458 original size:19 final size:21
Alignment explanation
Indices: 30597416--30597457 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
30597406 GAGGTAAAAC
30597416 ATTTTGAAAATAATTTTATAT
1 ATTTTGAAAATAATTTTATAT
30597437 ATTTTGAAAATAATTTTATAT
1 ATTTTGAAAATAATTTTATAT
30597458 TCATTTCATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (21 bp):
ATTTTGAAAATAATTTTATAT
Found at i:30598846 original size:44 final size:44
Alignment explanation
Indices: 30598783--30598870 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
30598773 AAATACAACA
* *
30598783 GATAACTTTTAAAATGCATTCGAACTTAGGGTACATATGATGTT
1 GATAAATTTTAAAATGCATTCGAACCTAGGGTACATATGATGTT
30598827 GATAAATTTTAAAATGCATTCGAACCTAGGGTACATATGATGTT
1 GATAAATTTTAAAATGCATTCGAACCTAGGGTACATATGATGTT
30598871 TGCCTTGGCT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.35
Consensus pattern (44 bp):
GATAAATTTTAAAATGCATTCGAACCTAGGGTACATATGATGTT
Found at i:30601889 original size:33 final size:33
Alignment explanation
Indices: 30601852--30602012 Score: 112
Period size: 33 Copynumber: 4.9 Consensus size: 33
30601842 ACTTACCCTC
* * *
30601852 TGTTTACTATCCCAGCGGACTATCTTTATTTTG
1 TGTTTACTATCCCAGCAGACTATCTCTATTCTG
*
30601885 TGTTTACTATTCCAGCAGACTATCTCTATTCTG
1 TGTTTACTATCCCAGCAGACTATCTCTATTCTG
* ** * * * * *
30601918 TGTTTACT-GCCTTGGCAAATTATCTATGTTTTG
1 TGTTTACTATCC-CAGCAGACTATCTCTATTCTG
* *
30601951 TGTTTACTGTCCCAGC-GAACTAT-TATTATTCTG
1 TGTTTACTATCCCAGCAG-ACTATCT-CTATTCTG
* * * *
30601984 TGTTTATTGTCCTAGCAAACTATCTCTAT
1 TGTTTACTATCCCAGCAGACTATCTCTAT
30602013 GGATGCCATG
Statistics
Matches: 97, Mismatches: 25, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
32 2 0.02
33 92 0.95
34 3 0.03
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.45
Consensus pattern (33 bp):
TGTTTACTATCCCAGCAGACTATCTCTATTCTG
Found at i:30602002 original size:66 final size:66
Alignment explanation
Indices: 30601870--30602008 Score: 158
Period size: 66 Copynumber: 2.1 Consensus size: 66
30601860 ATCCCAGCGG
* * * *
30601870 ACTATCTTTATTTTGTGTTTACTATTCCAGCAGACTATCTCTATTCTGTGTTTACTGCCTTGGCA
1 ACTATCTATGTTTTGTGTTTACTATCCCAGCAGACTATCTCTATTCTGTGTTTACTGCCTTAGCA
30601935 A
66 A
* * * *
30601936 ATTATCTATGTTTTGTGTTTACTGTCCCAGC-GAACTAT-TATTATTCTGTGTTTATTGTCC-TA
1 ACTATCTATGTTTTGTGTTTACTATCCCAGCAG-ACTATCT-CTATTCTGTGTTTACTG-CCTTA
30601998 GCAA
63 GCAA
30602002 ACTATCT
1 ACTATCT
30602009 CTATGGATGC
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
65 2 0.03
66 57 0.93
67 2 0.03
ACGTcount: A:0.21, C:0.19, G:0.14, T:0.46
Consensus pattern (66 bp):
ACTATCTATGTTTTGTGTTTACTATCCCAGCAGACTATCTCTATTCTGTGTTTACTGCCTTAGCA
A
Found at i:30604604 original size:10 final size:10
Alignment explanation
Indices: 30604589--30604627 Score: 69
Period size: 10 Copynumber: 3.9 Consensus size: 10
30604579 AATTTTAGCT
30604589 TTTATCTTTA
1 TTTATCTTTA
*
30604599 TTTATCCTTA
1 TTTATCTTTA
30604609 TTTATCTTTA
1 TTTATCTTTA
30604619 TTTATCTTT
1 TTTATCTTT
30604628 TAGAATTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.18, C:0.13, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:30608267 original size:30 final size:28
Alignment explanation
Indices: 30608211--30608267 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 28
30608201 ATTGAGTTAA
30608211 TAAAATTATTTAATGGAAAAATTATATAT
1 TAAAATTATTTAAT-GAAAAATTATATAT
30608240 TAAAATTAATTTAAT-AAATAATGTATAT
1 TAAAATT-ATTTAATGAAA-AAT-TATAT
30608268 TTTGGGAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
28 3 0.12
29 10 0.40
30 12 0.48
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (28 bp):
TAAAATTATTTAATGAAAAATTATATAT
Found at i:30614617 original size:33 final size:32
Alignment explanation
Indices: 30614546--30614626 Score: 92
Period size: 33 Copynumber: 2.5 Consensus size: 32
30614536 ACTTGAGCTG
* *
30614546 GGAGGAGTAGAATACGACGGTGGATACAGGCC
1 GGAGGAGTAGAGTACGACGATGGATACAGGCC
*
30614578 GAGAGGAGTAGAGTGCGACGATGGATAC-GGCTC
1 G-GAGGAGTAGAGTACGACGATGGATACAGGC-C
*
30614611 TGGAGGAGTTGAGTAC
1 -GGAGGAGTAGAGTAC
30614627 ATGGGTGGAT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
32 4 0.10
33 36 0.88
34 1 0.02
ACGTcount: A:0.28, C:0.14, G:0.42, T:0.16
Consensus pattern (32 bp):
GGAGGAGTAGAGTACGACGATGGATACAGGCC
Found at i:30616703 original size:15 final size:15
Alignment explanation
Indices: 30616683--30616713 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
30616673 ATAAATAATA
30616683 ATATAAAATTACATT
1 ATATAAAATTACATT
30616698 ATATAAAATTACATT
1 ATATAAAATTACATT
30616713 A
1 A
30616714 AAAAATCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (15 bp):
ATATAAAATTACATT
Found at i:30616970 original size:115 final size:115
Alignment explanation
Indices: 30616754--30617188 Score: 584
Period size: 115 Copynumber: 3.8 Consensus size: 115
30616744 TAACGATTTA
* * * * * *
30616754 TAATCATAAATTACTAACACAAAATAACTAT-AAATTTTTTTTTAAAAAATACATTACT-AAATA
1 TAATCTTAAATTACT-A-ATAAAATAGCTATAAAATTATTTTTT-AAAAATATATTACTAAAAAA
* *
30616817 AA--A-AAT-CA-TAATACACTAAACCACTAAACACTACCAATTTATATAACA
63 AATCACAATACACTAATACACTAAACCACTAAACACTAACAATTTATATAACC
* *
30616865 TAATCTTAAATTACTAATAAAATAGCTATAAAAATATTTTTTAAAATTATATTACTAAAAAAAAT
1 TAATCTTAAATTACTAATAAAATAGCTATAAAATTATTTTTTAAAAATATATTACTAAAAAAAAT
30616930 CACAATACACTAATACACTAAACCACTAAACACTAACAATTTATATAACC
66 CACAATACACTAATACACTAAACCACTAAACACTAACAATTTATATAACC
30616980 TAATCTTAAATTACTAATAAAATAGCTAT-AAATTATTTTTTAAAAAATATATTACT-AAAAAAA
1 TAATCTTAAATTACTAATAAAATAGCTATAAAATTATTTTTT-AAAAATATATTACTAAAAAAAA
*
30617043 TCACAATACACTAATACACTAAACTACTAAACACTAACAATTTATATAACC
65 TCACAATACACTAATACACTAAACCACTAAACACTAACAATTTATATAACC
* * * * * *
30617094 TAATCTTAAATTACTAACAGAATAACTATAAAATTATTTTTTTAAAAGTATATTATTACTAAAAA
1 TAATCTTAAATTACTAATAAAATAGCTATAAAATTA-TTTTTTAAAAATATATTACTA-AAAAAA
*
30617159 ATCACAATACACTAATACATTAAA-CACTAA
64 ATCACAATACACTAATACACTAAACCACTAA
30617189 CAATTTGTAA
Statistics
Matches: 291, Mismatches: 21, Indels: 19
0.88 0.06 0.06
Matches are distributed among these distances:
109 23 0.08
110 17 0.06
111 14 0.05
112 1 0.00
113 3 0.01
114 96 0.33
115 98 0.34
116 11 0.04
117 28 0.10
ACGTcount: A:0.52, C:0.15, G:0.01, T:0.32
Consensus pattern (115 bp):
TAATCTTAAATTACTAATAAAATAGCTATAAAATTATTTTTTAAAAATATATTACTAAAAAAAAT
CACAATACACTAATACACTAAACCACTAAACACTAACAATTTATATAACC
Found at i:30617087 original size:229 final size:227
Alignment explanation
Indices: 30616754--30617188 Score: 635
Period size: 229 Copynumber: 1.9 Consensus size: 227
30616744 TAACGATTTA
* *
30616754 TAATCATAAATTACTAACACAAAATAACTATAAATTTTTTTTTAAAAAATACATTACTAAATAAA
1 TAATCATAAATTACTAACACAAAATAACTATAAATTATTTTTTAAAAAATACATTACTAAAAAAA
* *
30616819 AAATCATAATACACTAAACCACTAAACACTACCAATTTATATAACATAATCTTAAATTACTAATA
66 AAATCATAATACACTAAACCACTAAACACTAACAATTTATATAACATAATCTTAAATTACTAACA
* *
30616884 AAATAGCTATAAAAATA-TTTTTTAAAATTATATTACTA-AAAAAAATCACAATACACTAATACA
131 AAATAACTATAAAAATATTTTTTTAAAAGTATATTACTACAAAAAAATCACAATACACTAATACA
30616947 CTAAACCACTAAACACTAACAATTTATATAACC
196 CTAAA-CACTAAACACTAACAATTTATATAACC
* * * *
30616980 TAATCTTAAATTACT-A-ATAAAATAGCTATAAATTATTTTTTAAAAAATATATTACTAAAAAAA
1 TAATCATAAATTACTAACACAAAATAACTATAAATTATTTTTTAAAAAATACATTACTAAAAAAA
* *
30617043 TCACAATACACTAATACACTAAACTACTAAACACTAACAATTTATATAACCTAATCTTAAATTAC
66 --A-AAT-CA-TAATACACTAAACCACTAAACACTAACAATTTATATAACATAATCTTAAATTAC
* * * *
30617108 TAACAGAATAACTATAAAATTATTTTTTTAAAAGTATATTATTACTAAAAAATCACAATACACTA
126 TAACAAAATAACTATAAAAATATTTTTTTAAAAGTATATTACTACAAAAAAATCACAATACACTA
*
30617173 ATACATTAAACACTAA
191 ATACACTAAACACTAA
30617189 CAATTTGTAA
Statistics
Matches: 185, Mismatches: 17, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
224 42 0.23
225 1 0.01
226 15 0.08
227 3 0.02
228 2 0.01
229 69 0.37
230 25 0.14
231 28 0.15
ACGTcount: A:0.52, C:0.15, G:0.01, T:0.32
Consensus pattern (227 bp):
TAATCATAAATTACTAACACAAAATAACTATAAATTATTTTTTAAAAAATACATTACTAAAAAAA
AAATCATAATACACTAAACCACTAAACACTAACAATTTATATAACATAATCTTAAATTACTAACA
AAATAACTATAAAAATATTTTTTTAAAAGTATATTACTACAAAAAAATCACAATACACTAATACA
CTAAACACTAAACACTAACAATTTATATAACC
Found at i:30617090 original size:114 final size:115
Alignment explanation
Indices: 30616754--30617188 Score: 602
Period size: 114 Copynumber: 3.8 Consensus size: 115
30616744 TAACGATTTA
* * * *
30616754 TAATCATAAATTACTAACACAAAATAACTAT-AAATTTTTTTTTAAAAAATACATTACTAAATAA
1 TAATCTTAAATTACT-A-ACAAAATAACTATAAAATTATTTTTTAAAAAATATATTACTAAAAAA
* *
30616818 A--A-AAT-CA-TAATACACTAAACCACTAAACACTACCAATTTATATAACA
64 ATCACAATACACTAATACACTAAACCACTAAACACTAACAATTTATATAACC
* * * *
30616865 TAATCTTAAATTACTAATAAAATAGCTATAAAAATATTTTTT-AAAATTATATTACTAAAAAAAA
1 TAATCTTAAATTACTAACAAAATAACTATAAAATTATTTTTTAAAAAATATATTACT-AAAAAAA
30616929 TCACAATACACTAATACACTAAACCACTAAACACTAACAATTTATATAACC
65 TCACAATACACTAATACACTAAACCACTAAACACTAACAATTTATATAACC
* *
30616980 TAATCTTAAATTACTAATAAAATAGCTAT-AAATTATTTTTTAAAAAATATATTACTAAAAAAAT
1 TAATCTTAAATTACTAACAAAATAACTATAAAATTATTTTTTAAAAAATATATTACTAAAAAAAT
*
30617044 CACAATACACTAATACACTAAACTACTAAACACTAACAATTTATATAACC
66 CACAATACACTAATACACTAAACCACTAAACACTAACAATTTATATAACC
* *
30617094 TAATCTTAAATTACTAACAGAATAACTATAAAATTATTTTTTTAAAAGTATATTATTACT-AAAA
1 TAATCTTAAATTACTAACAAAATAACTATAAAATTA-TTTTTTAAAA-AATA-TATTACTAAAAA
*
30617158 AATCACAATACACTAATACATTAAA-CACTAA
63 AATCACAATACACTAATACACTAAACCACTAA
30617189 CAATTTGTAA
Statistics
Matches: 293, Mismatches: 19, Indels: 19
0.89 0.06 0.06
Matches are distributed among these distances:
109 23 0.08
110 17 0.06
111 14 0.05
112 1 0.00
113 3 0.01
114 96 0.33
115 86 0.29
116 15 0.05
117 31 0.11
118 7 0.02
ACGTcount: A:0.52, C:0.15, G:0.01, T:0.32
Consensus pattern (115 bp):
TAATCTTAAATTACTAACAAAATAACTATAAAATTATTTTTTAAAAAATATATTACTAAAAAAAT
CACAATACACTAATACACTAAACCACTAAACACTAACAATTTATATAACC
Found at i:30617392 original size:3 final size:3
Alignment explanation
Indices: 30617386--30617420 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
30617376 ACACTTTTTT
*
30617386 TTC TTC TTC TTC TTC TTCC TTC TTC TTC TCC TTC T
1 TTC TTC TTC TTC TTC TT-C TTC TTC TTC TTC TTC T
30617421 CCTTTCCCTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:30617409 original size:16 final size:16
Alignment explanation
Indices: 30617388--30617419 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
30617378 ACTTTTTTTT
*
30617388 CTTCTTCTTCTTCTTC
1 CTTCTTCTTCTCCTTC
30617404 CTTCTTCTTCTCCTTC
1 CTTCTTCTTCTCCTTC
30617420 TCCTTTCCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (16 bp):
CTTCTTCTTCTCCTTC
Found at i:30617410 original size:19 final size:18
Alignment explanation
Indices: 30617386--30617424 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
30617376 ACACTTTTTT
*
30617386 TTCTTCTTCTTCTTCTTCC
1 TTCTTCTTCTCCTTC-TCC
30617405 TTCTTCTTCTCCTTCTCC
1 TTCTTCTTCTCCTTCTCC
30617423 TT
1 TT
30617425 TCCCTCCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (18 bp):
TTCTTCTTCTCCTTCTCC
Found at i:30623967 original size:18 final size:17
Alignment explanation
Indices: 30623939--30623972 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
30623929 TTTATTTTTA
30623939 TAATTATTTAACTAAAT
1 TAATTATTTAACTAAAT
30623956 TAATTGATTTAACTAAA
1 TAATT-ATTTAACTAAA
30623973 AATTTAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (17 bp):
TAATTATTTAACTAAAT
Found at i:30624697 original size:10 final size:9
Alignment explanation
Indices: 30624682--30624715 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
30624672 CAATCATCAA
30624682 TTTTTATTCT
1 TTTTTATT-T
30624692 TTTTTATTT
1 TTTTTATTT
*
30624701 TTTTTTTTT
1 TTTTTATTT
30624710 TTTTTA
1 TTTTTA
30624716 ACAAATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.09, C:0.03, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTATTT
Found at i:30624877 original size:20 final size:20
Alignment explanation
Indices: 30624844--30624937 Score: 70
Period size: 20 Copynumber: 4.7 Consensus size: 20
30624834 TGAAAAATAA
*
30624844 TAAAATAAATAAATAATACAT
1 TAAATTAAA-AAATAATACAT
*
30624865 TAAATTAAAAAATAATTC-T
1 TAAATTAAAAAATAATACAT
30624884 TAAATTAAAGAAAATAA-ACA-
1 TAAATT-AA-AAAATAATACAT
*
30624904 TAATTATTTAAAAATAATA-AT
1 TAA--ATTAAAAAATAATACAT
* *
30624925 TTAATAAAAAAAT
1 TAAATTAAAAAAT
30624938 TTATCAGTAA
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
19 15 0.25
20 22 0.37
21 19 0.32
22 3 0.05
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (20 bp):
TAAATTAAAAAATAATACAT
Found at i:30624888 original size:19 final size:21
Alignment explanation
Indices: 30624844--30624892 Score: 66
Period size: 19 Copynumber: 2.4 Consensus size: 21
30624834 TGAAAAATAA
*
30624844 TAAAATAAATAAATAATACAT
1 TAAATTAAATAAATAATACAT
*
30624865 TAAATTAAA-AAATAATTC-T
1 TAAATTAAATAAATAATACAT
30624884 TAAATTAAA
1 TAAATTAAA
30624893 GAAAATAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 10 0.38
20 8 0.31
21 8 0.31
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (21 bp):
TAAATTAAATAAATAATACAT
Found at i:30625141 original size:27 final size:27
Alignment explanation
Indices: 30625110--30625161 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
30625100 AAATTTATCA
*
30625110 TTTAAGCCTAAGGTTTATACATTCCCT
1 TTTAAGCCCAAGGTTTATACATTCCCT
*
30625137 TTTAAGCCCAAGGTTTATGCATTCC
1 TTTAAGCCCAAGGTTTATACATTCC
30625162 TTCTTTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.38
Consensus pattern (27 bp):
TTTAAGCCCAAGGTTTATACATTCCCT
Found at i:30628521 original size:16 final size:16
Alignment explanation
Indices: 30628500--30628534 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
30628490 GAAATTATTA
30628500 AAATATTATAAAATTG
1 AAATATTATAAAATTG
30628516 AAATATTATAAAATTG
1 AAATATTATAAAATTG
30628532 AAA
1 AAA
30628535 GAATTACTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (16 bp):
AAATATTATAAAATTG
Found at i:30631934 original size:35 final size:35
Alignment explanation
Indices: 30631894--30631978 Score: 170
Period size: 35 Copynumber: 2.4 Consensus size: 35
30631884 CTATAAAGTG
30631894 CATCTATGATAACCTAGAGAAATATAAAAGGAAAT
1 CATCTATGATAACCTAGAGAAATATAAAAGGAAAT
30631929 CATCTATGATAACCTAGAGAAATATAAAAGGAAAT
1 CATCTATGATAACCTAGAGAAATATAAAAGGAAAT
30631964 CATCTATGATAACCT
1 CATCTATGATAACCT
30631979 GCATATTAGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 50 1.00
ACGTcount: A:0.48, C:0.14, G:0.13, T:0.25
Consensus pattern (35 bp):
CATCTATGATAACCTAGAGAAATATAAAAGGAAAT
Done.