Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 95 of 172
Found at i:27549821 original size:25 final size:25
Alignment explanation
Indices: 27549777--27549882 Score: 90
Period size: 25 Copynumber: 4.1 Consensus size: 25
27549767 TTGTAAGTTA
*
27549777 TTATGTATTATGTAGGTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
*
27549802 TTATGTAAGTTTTGT-A-TTATGTAAG
1 TTATGT-A-TTATGTAAGTTATGTAAG
* * *
27549827 TTGTGTAAGTTATGTATGCTATGTAAG
1 TTATGT-A-TTATGTAAGTTATGTAAG
* *
27549854 TAATGTATTATGTAAGTTTATATAAG
1 TTATGTATTATGTAAG-TTATGTAAG
27549880 TTA
1 TTA
27549883 ATATGTAAGT
Statistics
Matches: 64, Mismatches: 12, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
25 36 0.56
26 11 0.17
27 17 0.27
ACGTcount: A:0.30, C:0.01, G:0.21, T:0.48
Consensus pattern (25 bp):
TTATGTATTATGTAAGTTATGTAAG
Found at i:27549850 original size:43 final size:43
Alignment explanation
Indices: 27549731--27549882 Score: 155
Period size: 43 Copynumber: 3.5 Consensus size: 43
27549721 ATTATGTAAG
** * *
27549731 TTATGTAAGTTATCAAAGTAATGTATGTTATGTAAGTTGTAAGTTA
1 TTATGTAAGTTATGTAAGTTATGTATGTTATGTAAGTT-T-TG-TA
* *
27549777 TTATGT-A-TTATGTAGGTTATGTAAGTTATGTAAGTTTTGTA
1 TTATGTAAGTTATGTAAGTTATGTATGTTATGTAAGTTTTGTA
* * **
27549818 TTATGTAAGTTGTGTAAGTTATGTATGCTATGTAAGTAATGTA
1 TTATGTAAGTTATGTAAGTTATGTATGTTATGTAAGTTTTGTA
*
27549861 TTATGTAAGTTTATATAAGTTA
1 TTATGTAAG-TTATGTAAGTTA
27549883 ATATGTAAGT
Statistics
Matches: 89, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
41 8 0.09
42 2 0.02
43 38 0.43
44 34 0.38
45 1 0.01
46 6 0.07
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (43 bp):
TTATGTAAGTTATGTAAGTTATGTATGTTATGTAAGTTTTGTA
Found at i:27549868 original size:96 final size:99
Alignment explanation
Indices: 27549701--27549910 Score: 227
Period size: 96 Copynumber: 2.2 Consensus size: 99
27549691 TATGTATTAA
* * * * *
27549701 GTAAGCTATTTAAGTTGTGTATTATGTAAGTTATGTAAGTTATCAAAGTAATGTATGTTATGTAA
1 GTAAGTTATGTAAGTTTTGTATTATGTAAGTTATGTAAGTTATCAAAGTAATGTAAGTAATGTAA
* * * *
27549766 GTTGTAAG-TTAT-TATG-TATTATGTAGGTTAT
66 GTTGTAAGTTTATATAAGTTAATATGTAAGTAAT
* ** *
27549797 GTAAGTTATGTAAGTTTTGTATTATGTAAGTTGTGTAAGTTATGTATGCT-ATGTAAGTAATGT-
1 GTAAGTTATGTAAGTTTTGTATTATGTAAGTTATGTAAGTTATCAAAG-TAATGTAAGTAATGTA
*
27549860 ATTATGTAAGTTTATATAAGTTAATATGTAAGTAAT
65 AGT-TGTAAGTTTATATAAGTTAATATGTAAGTAAT
27549896 GT-A-TTATGTAAGTTT
1 GTAAGTTATGTAAGTTT
27549911 ATATAAAAAT
Statistics
Matches: 95, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
95 2 0.02
96 58 0.61
97 17 0.18
98 4 0.04
99 14 0.15
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.46
Consensus pattern (99 bp):
GTAAGTTATGTAAGTTTTGTATTATGTAAGTTATGTAAGTTATCAAAGTAATGTAAGTAATGTAA
GTTGTAAGTTTATATAAGTTAATATGTAAGTAAT
Found at i:27550284 original size:26 final size:26
Alignment explanation
Indices: 27550215--27550278 Score: 87
Period size: 25 Copynumber: 2.5 Consensus size: 26
27550205 AAATTTAAAC
*
27550215 AAATTTTAGTAAGTAATGTATTAAGT
1 AAATTTTAGTAAGTAATATATTAAGT
27550241 AAATTATT--TAAGTAATATATTCAAGT
1 AAATT-TTAGTAAGTAATATATT-AAGT
27550267 AAATTTTAGTAA
1 AAATTTTAGTAA
27550279 AAATATGTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
25 14 0.42
26 14 0.42
27 5 0.15
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.42
Consensus pattern (26 bp):
AAATTTTAGTAAGTAATATATTAAGT
Found at i:27550529 original size:323 final size:327
Alignment explanation
Indices: 27550117--27550786 Score: 1111
Period size: 338 Copynumber: 2.0 Consensus size: 327
27550107 ATTATTTTTA
27550117 AAATTATAATATATTTTAACAAGTTATGTAAGTAATGTAATATATACTTAAATTTTAGTAAGTAA
1 AAATTATAATATATTTTAACAAGTTATGTAAGTAATGTAATATATACTTAAATTTTAGTAAGTAA
27550182 TATATATTTAAGTAATGTATTTAAAATTTAAACAAATTTTAGTAAGTAATGTA-TTAAGTAAATT
66 TATATATTTAAGTAATGTATTTAAAATTTAAACAAATTTTAGTAAGTAATGTATTTAAGTAAATT
27550246 ATTTAAGTAATATATTC-AAGTAAATTTTAGT-AAAAATATGTTTTAGTAAGTAATGTAAGTCAT
131 ATTTAAGTAATATATTCAAAGTAAATTTTAGTAAAAAATATGTTTTAGTAAGTAATGTAAGTCAT
*
27550309 GTAAAATATACTTAAAATATATATATTTAAGTAATGTAATATATAAATTTTAAAAAAATATTACT
196 GTAAAATATACTTAAAA-ATATAT-TTTAAGTAATGTAAGATATAAATTTTAAAAAAATATTACT
27550374 TAAC-A-ATATATATTATTAATAAGTTAAATTAAA-TGTAAAAATATATTTAAAAATATAATAAA
259 TAACAATATATATATTATTAATAAGTTAAATTAAATTGT-AAAATATATTTAAAAATATAATAAA
27550436 TATTG
323 TATTG
27550441 AAATTATAATATATTTTAACAAGTTAT-TAAGTAATGTAATATATACTTAAATTTTAGTAAGTAA
1 AAATTATAATATATTTTAACAAGTTATGTAAGTAATGTAATATATACTTAAATTTTAGTAAGTAA
27550505 TATATATTTAAGTAATGTATTTAAAATTTAAACAAATTTTAGTAAGTAATGTATTTAAGTAAATT
66 TATATATTTAAGTAATGTATTTAAAATTTAAACAAATTTTAGTAAGTAATGTATTTAAGTAAATT
27550570 ATTTAAGTAATATATTCAAGTAATATATTAAAGTAAATTTTAGTAAAAAATATGTTTTAGTAAGT
131 ATTTAAGTAATATATTC------------AAAGTAAATTTTAGTAAAAAATATGTTTTAGTAAGT
* *
27550635 AATGTAAGTCATGTAGAATATACTTAAAAATATATTTTAAGTAATGTAAGATATCAATTTTAAAA
184 AATGTAAGTCATGTAAAATATACTTAAAAATATATTTTAAGTAATGTAAGATATAAATTTTAAAA
*
27550700 AATTATTACTTAACAATATATATATTATTAATAAGTTAAATTAAATTGTAAAATATATTTAAAAA
249 AAATATTACTTAACAATATATATATTATTAATAAGTTAAATTAAATTGTAAAATATATTTAAAAA
*
27550765 TATAATAAATATTT
314 TATAATAAATATTG
27550779 AAATTATA
1 AAATTATA
27550787 TATTAACTTT
Statistics
Matches: 323, Mismatches: 5, Indels: 22
0.92 0.01 0.06
Matches are distributed among these distances:
323 90 0.28
324 55 0.17
336 41 0.13
337 21 0.07
338 113 0.35
339 3 0.01
ACGTcount: A:0.48, C:0.03, G:0.08, T:0.41
Consensus pattern (327 bp):
AAATTATAATATATTTTAACAAGTTATGTAAGTAATGTAATATATACTTAAATTTTAGTAAGTAA
TATATATTTAAGTAATGTATTTAAAATTTAAACAAATTTTAGTAAGTAATGTATTTAAGTAAATT
ATTTAAGTAATATATTCAAAGTAAATTTTAGTAAAAAATATGTTTTAGTAAGTAATGTAAGTCAT
GTAAAATATACTTAAAAATATATTTTAAGTAATGTAAGATATAAATTTTAAAAAAATATTACTTA
ACAATATATATATTATTAATAAGTTAAATTAAATTGTAAAATATATTTAAAAATATAATAAATAT
TG
Found at i:27550565 original size:13 final size:13
Alignment explanation
Indices: 27550547--27550605 Score: 75
Period size: 13 Copynumber: 4.5 Consensus size: 13
27550537 CAAATTTTAG
*
27550547 TAAGTAATGTATT
1 TAAGTAATATATT
27550560 TAAGTAA-ATTATT
1 TAAGTAATA-TATT
27550573 TAAGTAATATATT
1 TAAGTAATATATT
*
27550586 CAAGTAATATATT
1 TAAGTAATATATT
*
27550599 AAAGTAA
1 TAAGTAA
27550606 ATTTTAGTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
13 40 0.98
14 1 0.02
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (13 bp):
TAAGTAATATATT
Found at i:27550585 original size:26 final size:27
Alignment explanation
Indices: 27550547--27550616 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 27
27550537 CAAATTTTAG
*
27550547 TAAGTAATGTATTTAAGTAAAT-TATT
1 TAAGTAATATATTTAAGTAAATATATT
*
27550573 TAAGTAATATATTCAAGT-AATATATT
1 TAAGTAATATATTTAAGTAAATATATT
*
27550599 AAAGTAA-AT-TTT-AGTAAA
1 TAAGTAATATATTTAAGTAAA
27550617 AAATATGTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
23 3 0.08
24 4 0.11
25 5 0.13
26 26 0.68
ACGTcount: A:0.47, C:0.01, G:0.10, T:0.41
Consensus pattern (27 bp):
TAAGTAATATATTTAAGTAAATATATT
Found at i:27550971 original size:16 final size:16
Alignment explanation
Indices: 27550950--27550985 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
27550940 ATTAATTGAA
*
27550950 ATAAAATTGTAAATCG
1 ATAAAATTGAAAATCG
27550966 ATAAAATTGAAAATCG
1 ATAAAATTGAAAATCG
27550982 ATAA
1 ATAA
27550986 TTATAAATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.56, C:0.06, G:0.11, T:0.28
Consensus pattern (16 bp):
ATAAAATTGAAAATCG
Found at i:27551041 original size:10 final size:10
Alignment explanation
Indices: 27551026--27551054 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
27551016 TTCGAATAAT
27551026 TATAAAATTA
1 TATAAAATTA
27551036 TATAAAATTA
1 TATAAAATTA
27551046 TATAAAATT
1 TATAAAATT
27551055 TACCCGTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
TATAAAATTA
Found at i:27552491 original size:44 final size:44
Alignment explanation
Indices: 27552433--27552520 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
27552423 TTAAAACATT
*
27552433 TTTGCGGCGTTTTAAGCAAAGCGCCACAAACTATAAGTCAAAAC
1 TTTGCGGCGTTTTAAACAAAGCGCCACAAACTATAAGTCAAAAC
* *
27552477 TTTGCGGCGTTTTAAACTAAGCGCCACTAACTATAAGTCAAAAC
1 TTTGCGGCGTTTTAAACAAAGCGCCACAAACTATAAGTCAAAAC
27552521 GCAGTCGCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (44 bp):
TTTGCGGCGTTTTAAACAAAGCGCCACAAACTATAAGTCAAAAC
Found at i:27552770 original size:147 final size:147
Alignment explanation
Indices: 27552495--27552800 Score: 321
Period size: 147 Copynumber: 2.1 Consensus size: 147
27552485 GTTTTAAACT
* *
27552495 AAGCGCCACTAACTATAAGTCAAAACGCAGTCGCTTCATCAACACTTACCTCAAACCCGTGGCGT
1 AAGCGCCACTAACTATAAGTCAAAACGAAGTCGCTTCACCAACACTTACCTCAAACCCGTGGCGT
* ** * * ** *
27552560 TTGCGAGAAAACGCCACTAATAACATTTACAAAACGGCAACGTTTCAACAAATGTTAGAACAATT
66 TTCCGAGAAAACGCCACTAATAACATAGACAAAACGACAACATTTCAACAAACATAAGAACAATT
* * *
27552625 TTGTGGCGTTTCAAGTA
131 TTGCGGAGTTTCAAGGA
* * * ****
27552642 AAGCGCCACTAACTATAAGTCAAAACGAAG-CTGTTTCCCCAACAGTTTACC-CAATGTTGTGGC
1 AAGCGCCACTAACTATAAGTCAAAACGAAGTC-GCTTCACCAACA-CTTACCTCAAACCCGTGGC
* * * **
27552705 GTTTCCGA-AAAACGCCACTAATACCATAGACAAAAATGACAACATTTCAATAAACATAATTACA
64 GTTTCCGAGAAAACGCCACTAATAACATAGAC-AAAACGACAACATTTCAACAAACATAAGAACA
*
27552769 ATTTTGCGGAGTTTCATGGA
128 ATTTTGCGGAGTTTCAAGGA
*
27552789 ACGCGCCACTAA
1 AAGCGCCACTAA
27552801 TAGCAACATA
Statistics
Matches: 129, Mismatches: 27, Indels: 6
0.80 0.17 0.04
Matches are distributed among these distances:
146 21 0.16
147 103 0.80
148 5 0.04
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (147 bp):
AAGCGCCACTAACTATAAGTCAAAACGAAGTCGCTTCACCAACACTTACCTCAAACCCGTGGCGT
TTCCGAGAAAACGCCACTAATAACATAGACAAAACGACAACATTTCAACAAACATAAGAACAATT
TTGCGGAGTTTCAAGGA
Found at i:27554763 original size:114 final size:113
Alignment explanation
Indices: 27554486--27554774 Score: 373
Period size: 113 Copynumber: 2.5 Consensus size: 113
27554476 ACCAAAAAGT
* * * *
27554486 GCCACTAACTCTAATATACGTCAAGGCCAAACTCTGCGTTTTGGTTAAGATACTTTGCGGCGCTT
1 GCCACTAATTCTAATATACATCAAGACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTT
* *
27554551 TCCACAAACGCCGCTACTACTATACTTTAGCGGCATTTTCCAATAAGC
66 ACCACAAACGCCGCTACTACTATACTTTAGCGGCATTTTCCAATAAAC
* *
27554599 GCCACTAATTCTAATATACCTCAAGACCAAACTCTGCGTTTTGGTTAAGATATTTTGAGGCGCTT
1 GCCACTAATTCTAATATACATCAAGACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTT
* * ** * * *
27554664 ACCACCAAACGCTGCTATTACTATGGTTTAGTGGCGTTTTCC-TTAAAC
66 ACCA-CAAACGCCGCTACTACTATACTTTAGCGGCATTTTCCAATAAAC
* * * * *
27554712 GCCACTAATTATAGTATACATCAAGACCAAAACGCTACGTTTTGGTTAAGATGTTTTGCGGCG
1 GCCACTAATTCTAATATACATCAAGACC-AAACTCTGCGTTTTGGTTAAGATATTTTGCGGCG
27554775 TTTTCTTTAT
Statistics
Matches: 153, Mismatches: 21, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
113 92 0.60
114 61 0.40
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (113 bp):
GCCACTAATTCTAATATACATCAAGACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTT
ACCACAAACGCCGCTACTACTATACTTTAGCGGCATTTTCCAATAAAC
Found at i:27554798 original size:77 final size:74
Alignment explanation
Indices: 27554696--27554850 Score: 211
Period size: 76 Copynumber: 2.1 Consensus size: 74
27554686 ATGGTTTAGT
*
27554696 GGCGTTTTCCTTAAACGCCACTAATTATAGTATACATCAAGACCAAAACGCTACGTTTTGGTTAA
1 GGCGTTTTCCTTAAACGCCACTAATTATAATATACATCAAGACC-AAACGCTACGTTTTGGTTAA
* *
27554761 GATGTTTTGC
65 CATCTTTTGC
* * ** *
27554771 GGCGTTTTCTTTATAAGCGCCACTAATTGTAATATACATCAAGACCAAACTTTGCGTTTTGGTTA
1 GGCGTTTTCCTTA-AA-CGCCACTAATTATAATATACATCAAGACCAAACGCTACGTTTTGGTTA
27554836 ACATCTTTTGC
64 ACATCTTTTGC
27554847 GGCG
1 GGCG
27554851 CTTCCGCTAA
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
75 12 0.17
76 31 0.44
77 27 0.39
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (74 bp):
GGCGTTTTCCTTAAACGCCACTAATTATAATATACATCAAGACCAAACGCTACGTTTTGGTTAAC
ATCTTTTGC
Found at i:27554922 original size:190 final size:190
Alignment explanation
Indices: 27554593--27554947 Score: 478
Period size: 190 Copynumber: 1.9 Consensus size: 190
27554583 GCATTTTCCA
* *
27554593 ATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACTCTGCGTTTTGGTTAAGATATTTTGAG
1 ATAAGCGCCACTAATTCTAATATACATCAAGACCAAACTCTGCGTTTTGGTTAACATATTTTGAG
* * ** ** *
27554658 GCGCTTACCACCAAACGCTGCTATTACTATGGTTTAGTGGCGTTTTCCTTAAACGCCACTAATTA
66 GCGCTTACCACCAAACGCCGCTAATACTATGCATTACCGGCGTTTTCCGTAAACGCCACTAATTA
* *
27554723 TAGTATACATCAAGACCAAAACGCTACGTTTTGGTTAAGATGTTTTGCGGCGTTTTCTTT
131 TAATATACATCAAGACCAAAACGCTACGTGTTGGTTAAGATGTTTTGCGGCGTTTTCTTT
* * * *
27554783 ATAAGCGCCACTAATTGTAATATACATCAAGACCAAACTTTGCGTTTTGGTTAACATCTTTTGCG
1 ATAAGCGCCACTAATTCTAATATACATCAAGACCAAACTCTGCGTTTTGGTTAACATATTTTGAG
* * ** * *
27554848 GCGCTT-CCGCTAAGTGCCGCTAATACTATGCATTACCGGCGTTTGTTCGTAAGCGCCACTAATT
66 GCGCTTACCACCAAACGCCGCTAATACTATGCATTACCGGCGTTT-TCCGTAAACGCCACTAATT
* * *
27554912 CTAATATACATCAAGACCAGAACGCTGCGTGTTGGT
130 ATAATATACATCAAGACCAAAACGCTACGTGTTGGT
27554948 CTTGAGATTT
Statistics
Matches: 140, Mismatches: 24, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
189 28 0.20
190 112 0.80
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.32
Consensus pattern (190 bp):
ATAAGCGCCACTAATTCTAATATACATCAAGACCAAACTCTGCGTTTTGGTTAACATATTTTGAG
GCGCTTACCACCAAACGCCGCTAATACTATGCATTACCGGCGTTTTCCGTAAACGCCACTAATTA
TAATATACATCAAGACCAAAACGCTACGTGTTGGTTAAGATGTTTTGCGGCGTTTTCTTT
Found at i:27556676 original size:17 final size:18
Alignment explanation
Indices: 27556650--27556683 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
27556640 TTTTATATTA
*
27556650 TTTTTGAAAAGTACAAAC
1 TTTTTGAAAAATACAAAC
27556668 TTTTT-AAAAATACAAA
1 TTTTTGAAAAATACAAA
27556684 AAATTTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.35
Consensus pattern (18 bp):
TTTTTGAAAAATACAAAC
Found at i:27563598 original size:21 final size:22
Alignment explanation
Indices: 27563574--27563620 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
27563564 TGAAATTTAT
* *
27563574 TTTTTTATTTTTATTTTA-AAA
1 TTTTTAATTTTTATATTACAAA
27563595 TTTTTAATTTTTATATTACAAA
1 TTTTTAATTTTTATATTACAAA
27563617 TTTT
1 TTTT
27563621 AAAATTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (22 bp):
TTTTTAATTTTTATATTACAAA
Found at i:27566256 original size:25 final size:25
Alignment explanation
Indices: 27566225--27566290 Score: 116
Period size: 25 Copynumber: 2.7 Consensus size: 25
27566215 AATTTATTTC
27566225 TATATTATAATAGTTAAAGTTAAAA
1 TATATTATAATAGTTAAAGTTAAAA
27566250 TATATTATAATAGTTAAAGTTAAAA
1 TATATTATAATAGTTAAAGTTAAAA
*
27566275 TATGTTATAAT-GTTAA
1 TATATTATAATAGTTAA
27566291 GAAATTTTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
24 5 0.12
25 35 0.88
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (25 bp):
TATATTATAATAGTTAAAGTTAAAA
Found at i:27569009 original size:69 final size:69
Alignment explanation
Indices: 27568898--27569690 Score: 545
Period size: 69 Copynumber: 11.5 Consensus size: 69
27568888 TATGTTTGAA
* * * * * *
27568898 GCTGCGGCTCTTAGCCAACAAGCCTTAGTATGATAGTTGGGAGCTTTGCTCTCGTTAACTGTGTT
1 GCTGCGGCTCTTCGCCTACAAGCCTTAATATGACAGCTGGGAGCTTTGCTCTCGCTAACTGTGTT
*
27568963 AGAG
66 GGAG
* * * * ** * *
27568967 GCTGCGGCTCTTCGCCTACGAGTCTTAATATAAAAATTGGGAGCTTTGCTCTTGCTAATTGTGTT
1 GCTGCGGCTCTTCGCCTACAAGCCTTAATATGACAGCTGGGAGCTTTGCTCTCGCTAACTGTGTT
*
27569032 GGAA
66 GGAG
** * * * * *
27569036 GCTGCAACTCTTCG-CTGGCAAGCCTCAGTATGACAGCTGGGAGTTTTGCTCTCGCTAATTGTGT
1 GCTGCGGCTCTTCGCCT-ACAAGCCTTAATATGACAGCTGGGAGCTTTGCTCTCGCTAACTGTGT
*
27569100 TAGAG
65 TGGAG
** ** ** * * * * *
27569105 ATTGTAGCTCTTCGCCTGTAAACCTTAATATGACAGCTAGGAGCTTTACTCTCGCTAATTGTATT
1 GCTGCGGCTCTTCGCCTACAAGCCTTAATATGACAGCTGGGAGCTTTGCTCTCGCTAACTGTGTT
27569170 GGAG
66 GGAG
* * * * * * * *
27569174 GTTGCGGCTTTTTGCCTACAAGCCTTAATATGACAACTGGGAGCCTTACTATTGCTAACTGTGTT
1 GCTGCGGCTCTTCGCCTACAAGCCTTAATATGACAGCTGGGAGCTTTGCTCTCGCTAACTGTGTT
* *
27569239 AGAA
66 GGAG
* * * *** * * * ** **
27569243 ACTGCAGCTCTTC-ACTGGTGAGCATTAGTATGACAGTTGGGAGCTTTGCTCTTACTAACTACGT
1 GCTGCGGCTCTTCGCCT-ACAAGCCTTAATATGACAGCTGGGAGCTTTGCTCTCGCTAACTGTGT
27569307 TGGAG
65 TGGAG
** * * * * * * *
27569312 GCTATGACTTTTTCTG--TACGAGCCATAATATAACAGCTAGAAGCTTTGCTCTCGCTAACTGTG
1 GCTGCGGC-TCTTC-GCCTACAAGCCTTAATATGACAGCTGGGAGCTTTGCTCTCGCTAACTGTG
27569375 TTGGAG
64 TTGGAG
* * * * * * *
27569381 GCTGTGGCTCTTCGCCTACGAGCCTTAATATGATAGCTGGAAGCTTTGGTCTCGTTAACTGTGGT
1 GCTGCGGCTCTTCGCCTACAAGCCTTAATATGACAGCTGGGAGCTTTGCTCTCGCTAACTGTGTT
27569446 GGAG
66 GGAG
* ** * * * * * * * * *
27569450 GATGTAGCTATTCACCTTCGAGCCTTAATATGATAACTGGGAGCTTTACTCTCGCTAATTGTATT
1 GCTGCGGCTCTTCGCCTACAAGCCTTAATATGACAGCTGGGAGCTTTGCTCTCGCTAACTGTGTT
27569515 GGAG
66 GGAG
* * * * * * ** *
27569519 GTTGTGGC-CTTCGCCTGCAAGTCTTAATATGATAGTTGGGAATTTTTCTCTCGCTAACTGTGTT
1 GCTGCGGCTCTTCGCCTACAAGCCTTAATATGACAGCTGGGAGCTTTGCTCTCGCTAACTGTGTT
27569583 GGAG
66 GGAG
* * * * * *
27569587 GCTACGACTCTTCGCTTGCGAGCCTTAATATGA-ATGCTGGGAGTTTTGCTCTCGCTAACTGTGT
1 GCTGCGGCTCTTCGCCTACAAGCCTTAATATGACA-GCTGGGAGCTTTGCTCTCGCTAACTGTGT
27569651 TGGAG
65 TGGAG
* * ** *
27569656 GCTACGACTCTTCGCCTACAAATCTTAATTTGACA
1 GCTGCGGCTCTTCGCCTACAAGCCTTAATATGACA
27569691 TAAGAATTGT
Statistics
Matches: 562, Mismatches: 151, Indels: 21
0.77 0.21 0.03
Matches are distributed among these distances:
67 1 0.00
68 61 0.11
69 492 0.88
70 8 0.01
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (69 bp):
GCTGCGGCTCTTCGCCTACAAGCCTTAATATGACAGCTGGGAGCTTTGCTCTCGCTAACTGTGTT
GGAG
Found at i:27581063 original size:17 final size:18
Alignment explanation
Indices: 27581043--27581076 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
27581033 AAAAATACAT
27581043 AAATAAATTTA-AATTTA
1 AAATAAATTTATAATTTA
*
27581060 AAATATATTTATAATTT
1 AAATAAATTTATAATTT
27581077 TTTTGGTACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AAATAAATTTATAATTTA
Found at i:27588265 original size:26 final size:27
Alignment explanation
Indices: 27588236--27588288 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
27588226 ATTTTACATC
* * *
27588236 AATAAAATTATCAC-AATTTTTTTTAA
1 AATAAAACTAACACAAATTTTGTTTAA
27588262 AATAAAACTAACACAAATTTTGTTTAA
1 AATAAAACTAACACAAATTTTGTTTAA
27588289 GTGAATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (27 bp):
AATAAAACTAACACAAATTTTGTTTAA
Found at i:27588480 original size:44 final size:44
Alignment explanation
Indices: 27588431--27588520 Score: 135
Period size: 44 Copynumber: 2.0 Consensus size: 44
27588421 TAATTATAAC
* * *
27588431 TTAAATTCTAATTATTTTTAAATGTATAATTATCACAACTTTTA
1 TTAAATTCTAATAATTCTTAAATGTATAATTATCACAACTTCTA
* *
27588475 TTAAATTGTAATAATTCTTAAATGTATAATTATCATAACTTCTA
1 TTAAATTCTAATAATTCTTAAATGTATAATTATCACAACTTCTA
27588519 TT
1 TT
27588521 TCATTTCAAC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.39, C:0.09, G:0.03, T:0.49
Consensus pattern (44 bp):
TTAAATTCTAATAATTCTTAAATGTATAATTATCACAACTTCTA
Found at i:27589632 original size:16 final size:16
Alignment explanation
Indices: 27589607--27589645 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
27589597 AAGTCAAATC
*
27589607 ATAT-TTGTTTGAAGA
1 ATATATTGTTTGAAAA
27589622 ATATATTGTTTGAAAA
1 ATATATTGTTTGAAAA
27589638 ATATATTG
1 ATATATTG
27589646 ACTAAAACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (16 bp):
ATATATTGTTTGAAAA
Found at i:27596958 original size:19 final size:19
Alignment explanation
Indices: 27596933--27596984 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
27596923 AACACATGAC
27596933 AAATTTTAATAAAAA-ATAT
1 AAATTTT-ATAAAAATATAT
* *
27596952 TAATTTTTTAAAAATATAT
1 AAATTTTATAAAAATATAT
27596971 AAA-TTTATAAAAAT
1 AAATTTTATAAAAAT
27596985 TATCTTACAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
18 16 0.57
19 12 0.43
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AAATTTTATAAAAATATAT
Found at i:27597958 original size:23 final size:24
Alignment explanation
Indices: 27597910--27597958 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
27597900 TTAATTAAAT
*
27597910 TAAAATTATTTTTTATTTATTTTA
1 TAAAATTATTTTTTATTTATTATA
27597934 TAAAA-TATTTTTTATTT-TGTATA
1 TAAAATTATTTTTTATTTAT-TATA
27597957 TA
1 TA
27597959 TCCTATGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 1 0.04
23 17 0.74
24 5 0.22
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (24 bp):
TAAAATTATTTTTTATTTATTATA
Found at i:27598399 original size:31 final size:31
Alignment explanation
Indices: 27598361--27598433 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
27598351 CAACAACTAC
*
27598361 CGCTGACATGGAGCACCACATCAATAGCTGT
1 CGCTGACATGGAGCACCACATCAATAACTGT
* * *
27598392 CGCTGACATGGAGCATCACGTCAATAATTGT
1 CGCTGACATGGAGCACCACATCAATAACTGT
*
27598423 CGTTGACATGG
1 CGCTGACATGG
27598434 TCAAAGTGCC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (31 bp):
CGCTGACATGGAGCACCACATCAATAACTGT
Found at i:27599840 original size:42 final size:42
Alignment explanation
Indices: 27599766--27599884 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
27599756 GCTATGTAAA
* *
27599766 CCACACGGGTAGAGGACATGGGTGTGTTTCCAGGCTGTGTGAG
1 CCACACGGGCA-AGGACATGGGTGTGTGTCCAGGCTGTGTGAG
** *
27599809 CCACACGGGCAAGGACATGGCCGTATGTCCAGGCTGTGTGAG
1 CCACACGGGCAAGGACATGGGTGTGTGTCCAGGCTGTGTGAG
27599851 CCACACGGGCAAGGACATGGGTGTGTGTCCAGGC
1 CCACACGGGCAAGGACATGGGTGTGTGTCCAGGC
27599885 CGTATGGCAT
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
42 58 0.85
43 10 0.15
ACGTcount: A:0.20, C:0.24, G:0.38, T:0.18
Consensus pattern (42 bp):
CCACACGGGCAAGGACATGGGTGTGTGTCCAGGCTGTGTGAG
Found at i:27600426 original size:24 final size:22
Alignment explanation
Indices: 27600383--27600426 Score: 52
Period size: 22 Copynumber: 1.9 Consensus size: 22
27600373 GAATAACTGC
* *
27600383 ATATGAATCTAATTTGTTCTGT
1 ATATGAAACTAAATTGTTCTGT
27600405 ATATGAAACTGAAATTGCTTCT
1 ATATGAAACT-AAATTG-TTCT
27600427 ACGTATGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 9 0.50
23 5 0.28
24 4 0.22
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAACTAAATTGTTCTGT
Found at i:27600511 original size:25 final size:25
Alignment explanation
Indices: 27600477--27600529 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
27600467 CTTCTGTTAT
27600477 CTAACCGAATCTTGGGATTCAAAAA
1 CTAACCGAATCTTGGGATTCAAAAA
*
27600502 CTAACTGAATCTTGGGATTCAAAAA
1 CTAACCGAATCTTGGGATTCAAAAA
27600527 CTA
1 CTA
27600530 TATTATATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (25 bp):
CTAACCGAATCTTGGGATTCAAAAA
Found at i:27601862 original size:19 final size:18
Alignment explanation
Indices: 27601837--27601882 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
27601827 TAAGGTTAAT
27601837 ATTTAATATCTAAGTTTGA-
1 ATTTAATATC-AA-TTTGAC
*
27601856 TTTTAATATCAATTTGAC
1 ATTTAATATCAATTTGAC
27601874 ATTTAATAT
1 ATTTAATAT
27601883 TTTTTTCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 5 0.21
18 10 0.42
19 9 0.38
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.50
Consensus pattern (18 bp):
ATTTAATATCAATTTGAC
Found at i:27602809 original size:22 final size:22
Alignment explanation
Indices: 27602777--27602829 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
27602767 TAAATGAATG
* *
27602777 AAAAT-ATTAAATATTTAAA-TC
1 AAAATAATTAAA-ATATAAATTA
27602798 AAAATAATTAAAATATAAATTA
1 AAAATAATTAAAATATAAATTA
27602820 AAAATAATTA
1 AAAATAATTA
27602830 CAAAATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 11 0.39
22 17 0.61
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (22 bp):
AAAATAATTAAAATATAAATTA
Found at i:27606509 original size:98 final size:98
Alignment explanation
Indices: 27606337--27606531 Score: 327
Period size: 98 Copynumber: 2.0 Consensus size: 98
27606327 ACAATAAAAT
* **
27606337 TTTAAAAGAACATCCACTTATCAAAGATTTAAGAAATCACATCCAATACGTTAGGGCATGATTCC
1 TTTAAAAGAACATCCACTTATCAAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
* *
27606402 TCTAGAATCCCAAACTCGGAATATTTCCTTTAC
66 TCTAAAATCCCAAACTCGAAATATTTCCTTTAC
*
27606435 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
1 TTTAAAAGAACATCCACTTATCAAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
*
27606500 TTTAAAATCCCAAACTCGAAATATTTCCTTTA
66 TCTAAAATCCCAAACTCGAAATATTTCCTTTA
27606532 TTGTTTTTAG
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 90 1.00
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.29
Consensus pattern (98 bp):
TTTAAAAGAACATCCACTTATCAAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
TCTAAAATCCCAAACTCGAAATATTTCCTTTAC
Found at i:27607995 original size:19 final size:19
Alignment explanation
Indices: 27607971--27608102 Score: 219
Period size: 19 Copynumber: 6.8 Consensus size: 19
27607961 AATCATATAT
27607971 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
27607990 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
27608009 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
27608028 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
27608049 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
27608068 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
27608087 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
27608103 CTCAAAAATT
Statistics
Matches: 105, Mismatches: 6, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
19 86 0.82
21 19 0.18
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:27608055 original size:59 final size:59
Alignment explanation
Indices: 27607964--27608101 Score: 221
Period size: 59 Copynumber: 2.4 Consensus size: 59
27607954 ATTACAAAAT
*
27607964 CATAT-AT-TCTAAGATTGC--ATATCATATCTAAGATTATATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATATCATATCTAAGATTACATATCATATCTAAGATTG
* *
27608019 CATATCATATCTAAGATTGCATATATCATATCTAAGATTGCATATCATATCTAGGATTG
1 CATATCATATCTAAGATTGCATATATCATATCTAAGATTACATATCATATCTAAGATTG
27608078 CATATCATATCTAAGATTGCATAT
1 CATATCATATCTAAGATTGCATAT
27608102 CCTCAAAAAT
Statistics
Matches: 76, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
55 5 0.07
56 2 0.03
57 11 0.14
59 58 0.76
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.38
Consensus pattern (59 bp):
CATATCATATCTAAGATTGCATATATCATATCTAAGATTACATATCATATCTAAGATTG
Found at i:27608485 original size:44 final size:44
Alignment explanation
Indices: 27608437--27608900 Score: 158
Period size: 44 Copynumber: 10.5 Consensus size: 44
27608427 AAAATCCACC
*
27608437 ATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAA
* ** * * *
27608481 ATCTTCAATCTATTCCACTGTTGCCTAGAGA-AGT-AGAAT-T-ACT
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGA-TAAG-ATCTGA-A
* * ** * * * *
27608524 AGCTTCAATGTACTCCACTGTAAC--CACAGGGAGGTAAAATCCGCA
1 ATCTTCAATCTACTCCAC--T-ACTGCTTAGGGAGATAAGATCTGAA
*
27608569 ATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAA
* * **
27608613 ATCTTCAATCTATTCCAC-AGTTGCCCAGGGA-AGT-AGAAT-T--A
1 ATCTTCAATCTACTCCACTA-CTGCTTAGGGAGA-TAAG-ATCTGAA
* * * ** * * * * **
27608654 TTGGCTTCAATGTACTCCACTA-TAACCACAGGGAGGTAAAACCCGCC
1 AT--CTTCAATCTACTCCACTACT--GCTTAGGGAGATAAGATCTGAA
*
27608701 ATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAA
* ** *
27608745 ATCTTCAATCTATTCCACTGTTGCCCT-GGGA-AGT-AGAATTACTG--
1 ATCTTCAATCTACTCCACTACTG-CTTAGGGAGA-TAAG-A-T-CTGAA
* * * ** * * * **
27608789 -GCTTCAATGTACTCCACTA-TAACCACAGGGAGGTAAAATCCGCC
1 ATCTTCAATCTACTCCACTACT--GCTTAGGGAGATAAGATCTGAA
* *
27608833 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAA
* *
27608877 ATCTTCAATCTATTCCACTGCTGC
1 ATCTTCAATCTACTCCACTACTGC
27608901 CCAGGGAAGT
Statistics
Matches: 293, Mismatches: 87, Indels: 80
0.64 0.19 0.17
Matches are distributed among these distances:
41 2 0.01
42 7 0.02
43 59 0.20
44 166 0.57
45 53 0.18
46 5 0.02
47 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (44 bp):
ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAA
Found at i:27608499 original size:132 final size:132
Alignment explanation
Indices: 27608331--27609109 Score: 1152
Period size: 132 Copynumber: 5.9 Consensus size: 132
27608321 CTGCAACTGC
* * * * *
27608331 AGGGAGATAAGA-CTTACAATCTTCAACCTATTCCACTGCTGACCAGGG-AGATAGGATTACTGA
1 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAATTACTGG
* * * *
27608394 CTTCATTGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACT
64 CTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACT
27608459 GCTT
129 GCTT
* * * *
27608463 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCTAGAGAAGTAGAATTACTAGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCT
* * *
27608528 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCAATCTTCAATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
27608593 TT
131 TT
* * *
27608595 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACAGTTGCCCAGGGAAGTAGAATTATTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCT
* *
27608660 TCAATGTACTCCACTATAACCACAGGGAGGTAAAACCCGCCATCTTCGATCTACTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
27608725 TT
131 TT
* *
27608727 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCTGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCT
27608792 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
27608857 TT
131 TT
27608859 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCT
* * ** *
27608924 TCAATGTACTCTACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATTTGCTTCGCTGTCAA
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGC-TC-CACT-AC
27608989 TGC--
128 TGCTT
* * ** * * *
27608992 AGGAAGGTAAGATCTGCTATCTTTAATATATTCCACTGCTGCCCAGAGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCT
**
27609057 TCAATGTACTCCACTATAACCACAAAGAGGTAAAATCCGCCATCTTCGATCTG
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTG
27609110 TTTCGCTGTC
Statistics
Matches: 595, Mismatches: 47, Indels: 9
0.91 0.07 0.01
Matches are distributed among these distances:
132 475 0.80
133 114 0.19
134 2 0.00
135 4 0.01
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.27
Consensus pattern (132 bp):
AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCT
TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
TT
Found at i:27614571 original size:98 final size:98
Alignment explanation
Indices: 27614399--27614593 Score: 345
Period size: 98 Copynumber: 2.0 Consensus size: 98
27614389 ACAATAAAAT
*
27614399 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACGATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACAATTCC
* *
27614464 TCTAGAATCCCAAACTCGGAATATTTTCTTTAC
66 TCTAAAATCCCAAACTCGGAATATTTCCTTTAC
*
27614497 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACAATTCC
*
27614562 TTTAAAATCCCAAACTCGGAATATTTCCTTTA
66 TCTAAAATCCCAAACTCGGAATATTTCCTTTA
27614594 TTGTTTTTAG
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.28
Consensus pattern (98 bp):
TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACAATTCC
TCTAAAATCCCAAACTCGGAATATTTCCTTTAC
Found at i:27615460 original size:3 final size:3
Alignment explanation
Indices: 27615452--27615494 Score: 52
Period size: 3 Copynumber: 14.0 Consensus size: 3
27615442 ATATAGCTAA
*
27615452 AAT AAT AAT AATT ACAT -AT GAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AA-T A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT
27615495 TACATTAACA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
2 2 0.06
3 30 0.83
4 3 0.08
5 1 0.03
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:27616047 original size:19 final size:19
Alignment explanation
Indices: 27616023--27616154 Score: 219
Period size: 19 Copynumber: 6.8 Consensus size: 19
27616013 AATCATATAT
27616023 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
27616042 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
27616061 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
27616080 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
27616101 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
27616120 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
27616139 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
27616155 CTCAAAAATT
Statistics
Matches: 105, Mismatches: 6, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
19 86 0.82
21 19 0.18
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:27616107 original size:59 final size:59
Alignment explanation
Indices: 27616016--27616153 Score: 221
Period size: 59 Copynumber: 2.4 Consensus size: 59
27616006 ATTACAAAAT
*
27616016 CATAT-AT-TCTAAGATTGC--ATATCATATCTAAGATTATATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATATCATATCTAAGATTACATATCATATCTAAGATTG
* *
27616071 CATATCATATCTAAGATTGCATATATCATATCTAAGATTGCATATCATATCTAGGATTG
1 CATATCATATCTAAGATTGCATATATCATATCTAAGATTACATATCATATCTAAGATTG
27616130 CATATCATATCTAAGATTGCATAT
1 CATATCATATCTAAGATTGCATAT
27616154 CCTCAAAAAT
Statistics
Matches: 76, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
55 5 0.07
56 2 0.03
57 11 0.14
59 58 0.76
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.38
Consensus pattern (59 bp):
CATATCATATCTAAGATTGCATATATCATATCTAAGATTACATATCATATCTAAGATTG
Found at i:27616619 original size:7 final size:7
Alignment explanation
Indices: 27616586--27616615 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
27616576 TGACGTTCTT
27616586 TCTTCCC
1 TCTTCCC
27616593 TCTTCCC
1 TCTTCCC
27616600 TCTTCCC
1 TCTTCCC
27616607 TCTTTCCC
1 TC-TTCCC
27616615 T
1 T
27616616 TTTCATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 16 0.73
8 6 0.27
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (7 bp):
TCTTCCC
Found at i:27617306 original size:63 final size:62
Alignment explanation
Indices: 27617202--27617399 Score: 191
Period size: 63 Copynumber: 3.1 Consensus size: 62
27617192 TGGCAGGCCA
* * * * *
27617202 TGTGACTCACTGTTTTCCATTAAAGACCACAGGGGCCAGAGACACAGGTGTGTGTCTAGGTCG
1 TGTGACTCACTGTTTGCCATTAAGGACCACACGGGCTAGAGACACAGGTGTGTGTCCAGG-CG
** * ** **
27617265 TGTGACTCACTGTTTGCCATTAAGGACCGTACCGGCTAGAGAC-TTGAGCATGTGTCCAGGCTG
1 TGTGACTCACTGTTTGCCATTAAGGACCACACGGGCTAGAGACACAG-GTGTGTGTCCAGGC-G
* * * * * *
27617328 TGCGACTCACTGTTTGCCATTAGGGACCACATGGGCTAGAGACACGGGTGCGTGTCCAGGCCA
1 TGTGACTCACTGTTTGCCATTAAGGACCACACGGGCTAGAGACACAGGTGTGTGTCCAGG-CG
27617391 TGTGACTCA
1 TGTGACTCA
27617400 TTATTTGGGA
Statistics
Matches: 106, Mismatches: 25, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
62 2 0.02
63 102 0.96
64 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (62 bp):
TGTGACTCACTGTTTGCCATTAAGGACCACACGGGCTAGAGACACAGGTGTGTGTCCAGGCG
Found at i:27620375 original size:16 final size:16
Alignment explanation
Indices: 27620332--27620378 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 16
27620322 TTAAACATAC
*
27620332 ATATATAATT-AT-TT
1 ATATATAATTAATATA
*
27620346 ATATTTAA-TAATATA
1 ATATATAATTAATATA
27620361 ATATATAATTAATATA
1 ATATATAATTAATATA
27620377 AT
1 AT
27620379 TTATTATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 1 0.04
14 9 0.33
15 8 0.30
16 9 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATATATAATTAATATA
Found at i:27623442 original size:18 final size:17
Alignment explanation
Indices: 27623401--27623434 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
27623391 GTCGTTTGTT
27623401 TTTA-AAATATTATTCA
1 TTTACAAATATTATTCA
27623417 TTTACAAATAGTTATTCA
1 TTTACAAATA-TTATTCA
27623435 ATTTCAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 5 0.31
18 7 0.44
ACGTcount: A:0.41, C:0.09, G:0.03, T:0.47
Consensus pattern (17 bp):
TTTACAAATATTATTCA
Found at i:27625899 original size:13 final size:13
Alignment explanation
Indices: 27625881--27625909 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
27625871 CCACAGACAC
27625881 CCAAAGCACTTAA
1 CCAAAGCACTTAA
27625894 CCAAAGCACTTAA
1 CCAAAGCACTTAA
27625907 CCA
1 CCA
27625910 TTGAAGCAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.45, C:0.34, G:0.07, T:0.14
Consensus pattern (13 bp):
CCAAAGCACTTAA
Found at i:27629751 original size:25 final size:25
Alignment explanation
Indices: 27629696--27629762 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
27629686 TTTTAAGTGT
*
27629696 TTTCAGTATAGT-CTATCTATAATAG
1 TTTCAGTATA-TACTATCTATAACAG
* *
27629721 TCTCAGTATATACTATCTATAGCAG
1 TTTCAGTATATACTATCTATAACAG
*
27629746 TTTCAGAATATACTATC
1 TTTCAGTATATACTATC
27629763 AAAGACAGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
24 1 0.03
25 35 0.97
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.40
Consensus pattern (25 bp):
TTTCAGTATATACTATCTATAACAG
Found at i:27629771 original size:25 final size:25
Alignment explanation
Indices: 27629723--27629773 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
27629713 TATAATAGTC
* *
27629723 TCAGTATATACTATCTATAGCAGTT
1 TCAGAATATACTATCTAAAGCAGTT
27629748 TCAGAATATACTATC-AAAGACAGTT
1 TCAGAATATACTATCTAAAG-CAGTT
27629773 T
1 T
27629774 TAGTTTCAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 3 0.13
25 20 0.87
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (25 bp):
TCAGAATATACTATCTAAAGCAGTT
Found at i:27630123 original size:18 final size:18
Alignment explanation
Indices: 27630092--27630139 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
27630082 TGTTGTTCGT
*
27630092 TTTCAAAACATTATTC-A
1 TTTCAAAACGTTATTCAA
*
27630109 TTTACAAATCGTTATTCAA
1 TTT-CAAAACGTTATTCAA
27630128 TTTCAAAACGTT
1 TTTCAAAACGTT
27630140 TTTTTTAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 3 0.12
18 19 0.73
19 4 0.15
ACGTcount: A:0.38, C:0.17, G:0.04, T:0.42
Consensus pattern (18 bp):
TTTCAAAACGTTATTCAA
Found at i:27642929 original size:15 final size:16
Alignment explanation
Indices: 27642906--27642947 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
27642896 ATAAACATCA
27642906 AATTAATTAAATATTT-
1 AATT-ATTAAATATTTG
*
27642922 AATTATTAAAAATTTG
1 AATTATTAAATATTTG
27642938 AATT-TTAAAT
1 AATTATTAAAT
27642948 TTTTTTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 15 0.65
16 8 0.35
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
AATTATTAAATATTTG
Found at i:27643566 original size:25 final size:23
Alignment explanation
Indices: 27643538--27643588 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 23
27643528 GTTTAAAAGT
27643538 AATTCTAATATTATGATTA-TTTTAA
1 AATTCTAATA--AT-ATTATTTTTAA
*
27643563 AATTTTAATAATATTATTTTTAA
1 AATTCTAATAATATTATTTTTAA
27643586 AAT
1 AAT
27643589 ATTAAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 4 0.17
23 11 0.46
25 9 0.38
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (23 bp):
AATTCTAATAATATTATTTTTAA
Found at i:27645199 original size:7 final size:7
Alignment explanation
Indices: 27645189--27645213 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
27645179 ATTCGATTGA
27645189 TATTTAG
1 TATTTAG
27645196 TATTTAG
1 TATTTAG
27645203 TATTTAG
1 TATTTAG
27645210 TATT
1 TATT
27645214 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:27646358 original size:43 final size:45
Alignment explanation
Indices: 27646305--27646390 Score: 140
Period size: 43 Copynumber: 2.0 Consensus size: 45
27646295 ATATTTTGAA
*
27646305 TATTTTGATATTATTTTATGTAA-AAAATAGAAATTT-TTTGAGT
1 TATTTTGATATTATTTGATGTAATAAAATAGAAATTTATTTGAGT
*
27646348 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGA
1 TATTTTGATATTATTTGATGTAATAAAATAGAAATTTATTTGA
27646391 TGTAATAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
43 22 0.56
44 12 0.31
45 5 0.13
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (45 bp):
TATTTTGATATTATTTGATGTAATAAAATAGAAATTTATTTGAGT
Found at i:27646460 original size:35 final size:35
Alignment explanation
Indices: 27646351--27646463 Score: 106
Period size: 35 Copynumber: 3.2 Consensus size: 35
27646341 TTTGAGTTAT
27646351 TTTGATATTATTTGATGTAATAAAATAGAAGTTTA
1 TTTGATATTATTTGATGTAATAAAATAGAAGTTTA
* * *** * * *
27646386 TTTGATGTAATAAAAT-AAAAAAAATTTCG-AG-TTA
1 TTTGATATTATTTGATGTAATAAAA--TAGAAGTTTA
27646420 TTTTGATATTATTTGATGTAATAAAATAGAAGTTTA
1 -TTTGATATTATTTGATGTAATAAAATAGAAGTTTA
27646456 TTTGATAT
1 TTTGATAT
27646464 AATAAAAACT
Statistics
Matches: 56, Mismatches: 16, Indels: 12
0.67 0.19 0.14
Matches are distributed among these distances:
34 11 0.20
35 34 0.61
36 11 0.20
ACGTcount: A:0.42, C:0.01, G:0.13, T:0.44
Consensus pattern (35 bp):
TTTGATATTATTTGATGTAATAAAATAGAAGTTTA
Found at i:27646534 original size:29 final size:29
Alignment explanation
Indices: 27646486--27646958 Score: 352
Period size: 29 Copynumber: 17.4 Consensus size: 29
27646476 AACCTAATTT
*
27646486 AACCCTAAACCCTAACCTAAATTAATTAAA
1 AACCCT-AACCCTAACCTAATTTAATTAAA
**
27646516 AACCCTAACTTTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
27646545 AACCCTAACCCTAACCTAATTTAATGAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* *
27646574 AACCCTAACCCCTAACCTAAATTAATTACA
1 AACCCTAA-CCCTAACCTAATTTAATTAAA
27646604 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
27646633 AACCCT-A----AA-CT--CTTAACTTAAA
1 AACCCTAACCCTAACCTAATTTAA-TTAAA
*
27646655 AACCCTAACCTTAACCTAATTTAATT-AA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
27646683 AA----AA-CCTAACTTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
27646707 AACCCTAAACCCTTAACTTAA---AATT-AA
1 AACCCT-AACCC-TAACCTAATTTAATTAAA
27646734 AACCCT-A-----ACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
27646757 AA-CC---C--TAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
27646780 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* *
27646809 AATCCTAAACCCT----T-A---ACTTAAA
1 AACCCT-AACCCTAACCTAATTTAATTAAA
*
27646831 AACCCTAAACCCTTAACTTAA---AATTAAA
1 AACCCT-AACCC-TAACCTAATTTAATTAAA
* **
27646859 AACTCTAA-CCTAATTTAA-TTAA--AAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
27646884 CCCTAACCCTAACCCTAACCTAATTTAATTAAA
1 ----AACCCTAACCCTAACCTAATTTAATTAAA
*
27646917 AACCCTAACCCTAACCTAATTTAATTTAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
27646946 AACCTTAAACCCT
1 AACCCT-AACCCT
27646959 TAACTTAAAA
Statistics
Matches: 367, Mismatches: 27, Indels: 98
0.75 0.05 0.20
Matches are distributed among these distances:
19 5 0.01
21 4 0.01
22 34 0.09
23 41 0.11
24 10 0.03
25 12 0.03
26 3 0.01
27 16 0.04
28 23 0.06
29 146 0.40
30 58 0.16
31 12 0.03
33 3 0.01
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (29 bp):
AACCCTAACCCTAACCTAATTTAATTAAA
Found at i:27646656 original size:22 final size:20
Alignment explanation
Indices: 27646624--27646669 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 20
27646614 CTAACCTAAT
27646624 TTAA-TTAAAAACCCTAAACTC
1 TTAACTTAAAAACCCT-AAC-C
27646645 TTAACTTAAAAACCCTAACC
1 TTAACTTAAAAACCCTAACC
27646665 TTAAC
1 TTAAC
27646670 CTAATTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 6 0.25
21 7 0.29
22 11 0.46
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (20 bp):
TTAACTTAAAAACCCTAACC
Found at i:27646670 original size:51 final size:51
Alignment explanation
Indices: 27646595--27646767 Score: 196
Period size: 51 Copynumber: 3.4 Consensus size: 51
27646585 CTAACCTAAA
* * *
27646595 TTAATTACAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACT-C
1 TTAATTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAAACTAT
*
27646645 TTAACTTAAAAACCCTAACCTTAACCTAATTTAATTAAAAAACCT-AACTTAAT
1 TTAA-TTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAAAC-T-AT
* *
27646698 TTAATTAAAAACCCTAAACCCTTAACTTAA---AATT-AAAACCCTAACCTAAT
1 TTAATTAAAAACCCT-AA-CCTTAACCTAATTTAATTAAAAACCCTAAACT-AT
27646748 TTAATTAAAAACCCTAACCT
1 TTAATTAAAAACCCTAACCT
27646768 AATTTAATTA
Statistics
Matches: 109, Mismatches: 7, Indels: 16
0.83 0.05 0.12
Matches are distributed among these distances:
48 3 0.03
49 2 0.02
50 33 0.30
51 44 0.40
52 11 0.10
53 6 0.06
54 10 0.09
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.29
Consensus pattern (51 bp):
TTAATTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAAACTAT
Found at i:27646704 original size:74 final size:74
Alignment explanation
Indices: 27646571--27646791 Score: 284
Period size: 73 Copynumber: 2.9 Consensus size: 74
27646561 TAATTTAATG
*
27646571 AAAAACCCTAACCCCTAACCTAAATTAATTACAAACCCTAACCCTAACCTAATTTAATTAAAAAC
1 AAAAACCCTAA-CCCTAACCTAATTTAATTA-AAA----AA-CCTAACCTAATTTAATTAAAAAC
*
27646636 CCTAAACTCTTAACTT
59 CCTAAACCCTTAACTT
* *
27646652 AAAAACCCTAACCTTAACCTAATTTAATTAAAAAACCTAACTTAATTTAATTAAAAACCCTAAAC
1 AAAAACCCTAACCCTAACCTAATTTAATTAAAAAACCTAACCTAATTTAATTAAAAACCCTAAAC
27646717 CCTTAACTT
66 CCTTAACTT
**** *
27646726 -AAAATTAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT-AAC
1 AAAAACCCTAACCCTAACCTAATTTAATTAAAAAACCTAACCTAATTTAATTAAAAACCCTAAAC
27646789 CCT
66 CCT
27646792 AACCTAATTT
Statistics
Matches: 129, Mismatches: 11, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
72 6 0.05
73 53 0.41
74 37 0.29
75 2 0.02
79 3 0.02
80 17 0.13
81 11 0.09
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.28
Consensus pattern (74 bp):
AAAAACCCTAACCCTAACCTAATTTAATTAAAAAACCTAACCTAATTTAATTAAAAACCCTAAAC
CCTTAACTT
Found at i:27646787 original size:18 final size:20
Alignment explanation
Indices: 27646668--27646783 Score: 61
Period size: 23 Copynumber: 5.0 Consensus size: 20
27646658 CCTAACCTTA
27646668 ACCTAATTTAATTAAAAAACC
1 ACCTAATTTAATT-AAAAACC
*
27646689 TAACTTAATTTAATTAAAAACCC
1 --ACCTAATTTAATTAAAAA-CC
* *
27646712 TAAACCCTTAACTTAAAATTAAAACCC
1 ---A-CC-TAA-TT-TAATTAAAAACC
27646739 TAACCTAATTTAATTAAAAACCC
1 --ACCTAATTTAATTAAAAA-CC
27646762 TAACCTAATTTAATTAAAAACC
1 --ACCTAATTTAATTAAAAACC
27646784 CTAACCCTAA
Statistics
Matches: 78, Mismatches: 8, Indels: 15
0.77 0.08 0.15
Matches are distributed among these distances:
22 15 0.19
23 38 0.49
24 5 0.06
25 3 0.04
26 5 0.06
27 4 0.05
28 8 0.10
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.30
Consensus pattern (20 bp):
ACCTAATTTAATTAAAAACC
Found at i:27646806 original size:125 final size:124
Alignment explanation
Indices: 27646610--27646891 Score: 428
Period size: 125 Copynumber: 2.3 Consensus size: 124
27646600 TACAAACCCT
* *
27646610 AACCCTAACCTAATTTAATTAAAAACCCTAAACTCTTAACTTAAAAACCCTAACCTTAACCTAAT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCTCTTAACTTAAAAACCCTAACCCTAACCTAAT
*
27646675 TTAATTAAAAAACCT-AACTTAATTTAA-TTAAAAACCCTAAACCCTTAACTTAAAATT-AA
66 TTAATTAAAAAACCTAAAC---ACTTAACTTAAAAACCCTAAACCCTTAACTTAAAATTAAA
*
27646734 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAA-TTAAAAACCCTAACCCTAACCTA
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCT--CTTAACTTAAAAACCCTAACCCTAACCTA
* *
27646798 ATTTAATTAAAAATCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAATTAAA
64 ATTTAATTAAAAAACCTAAACACTTAACTTAAAAACCCTAAACCCTTAACTTAAAATTAAA
*
27646859 AACTCTAACCTAATTTAATTAAAAACCCTAACC
1 AACCCTAACCTAATTTAATTAAAAACCCTAACC
27646892 CTAACCCTAA
Statistics
Matches: 146, Mismatches: 7, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
123 4 0.03
124 63 0.43
125 72 0.49
126 7 0.05
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (124 bp):
AACCCTAACCTAATTTAATTAAAAACCCTAACCTCTTAACTTAAAAACCCTAACCCTAACCTAAT
TTAATTAAAAAACCTAAACACTTAACTTAAAAACCCTAAACCCTTAACTTAAAATTAAA
Found at i:27646830 original size:22 final size:22
Alignment explanation
Indices: 27646800--27646853 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
27646790 CTAACCTAAT
*
27646800 TTAA-TTAAAAATCCTAAACCC
1 TTAACTTAAAAACCCTAAACCC
27646821 TTAACTTAAAAACCCTAAACCC
1 TTAACTTAAAAACCCTAAACCC
27646843 TTAACTTAAAA
1 TTAACTTAAAA
27646854 TTAAAAACTC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 4 0.13
22 27 0.87
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (22 bp):
TTAACTTAAAAACCCTAAACCC
Found at i:27646856 original size:102 final size:102
Alignment explanation
Indices: 27646551--27646928 Score: 357
Period size: 102 Copynumber: 3.6 Consensus size: 102
27646541 TAAAAACCCT
* * *
27646551 AACCCTAACCTAATTTAATGAAAAACCCTAACCCCTAACCTAAATTAATTACAAACCCT-AACCC
1 AACCCTAACCTAATTTAATTAAAAACCCTAA-CCCTAACCTAATTTAATTAAAAACCCTAAACCC
* * *****
27646615 TAACCTAATTTAATTAAAAACCCTAAACTCTTAACTTAAAAACCCT
65 T----T-A---ACTTAAAAACCCTAAACCCTTAACTTAAAATTAAA
* *
27646661 AACCTTAACCTAATTTAATT-AAAA----AA-CCTAACTTAATTTAATTAAAAACCCTAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCT
* *
27646720 TAACTT-AAAA--TTAAAACCC-TAACCTAATTTAATTAAA
66 TAACTTAAAAACCCT-AAACCCTTAACTTAA---AATTAAA
*
27646757 AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAATCCTAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCT
27646822 TAACTTAAAAACCCTAAACCCTTAACTTAAAATTAAA
66 TAACTTAAAAACCCTAAACCCTTAACTTAAAATTAAA
*
27646859 AACTCTAACCTAATTTAATTAAAAACCCTAACCCTAACCCTAACCTAATTTAATTAAAAACCCT-
1 AACCCTAACCTAATTTAATT--AAA----AACCCTAACCCTAACCTAATTTAATTAAAAACCCTA
27646923 AACCCT
60 AACCCT
27646929 AACCTAATTT
Statistics
Matches: 226, Mismatches: 21, Indels: 45
0.77 0.07 0.15
Matches are distributed among these distances:
93 8 0.04
94 5 0.02
95 4 0.02
96 24 0.11
97 4 0.02
99 1 0.00
100 1 0.00
101 2 0.01
102 63 0.28
103 27 0.12
104 15 0.07
105 10 0.04
107 6 0.03
108 34 0.15
109 4 0.02
110 18 0.08
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (102 bp):
AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCT
TAACTTAAAAACCCTAAACCCTTAACTTAAAATTAAA
Found at i:27646902 original size:35 final size:34
Alignment explanation
Indices: 27646863--27646945 Score: 139
Period size: 35 Copynumber: 2.4 Consensus size: 34
27646853 ATTAAAAACT
27646863 CTAACCTAATTTAATTAAAAACCCTAACCCTAACC
1 CTAACCTAATTTAATTAAAAACCCTAACCCTAA-C
27646898 CTAACCTAATTTAATTAAAAACCCTAACCCTAAC
1 CTAACCTAATTTAATTAAAAACCCTAACCCTAAC
**
27646932 CTAATTTAATTTAA
1 CTAACCTAATTTAA
27646946 AACCTTAAAC
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
34 13 0.28
35 33 0.72
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.30
Consensus pattern (34 bp):
CTAACCTAATTTAATTAAAAACCCTAACCCTAAC
Found at i:27647144 original size:61 final size:61
Alignment explanation
Indices: 27647079--27647267 Score: 157
Period size: 61 Copynumber: 3.2 Consensus size: 61
27647069 ATTTTTTGAC
27647079 TTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAA
1 TTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAA
* * * * * ** * ** *
27647140 TTAATAATTTTATA-T-A-AT-TTGATA-ATTT-TACTAACCAT-TAAT-ACAAT-TTTTTGAC-
1 TTAATAATTTTACATTCACATAATGTTAGATTTGGA--AA-AATGTTTTGAC--TGGTACTAACA
27647195 -
61 A
27647195 TTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAA
1 TTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAA
27647256 TTAATAATTTTA
1 TTAATAATTTTA
27647268 TATAATTTGA
Statistics
Matches: 90, Mismatches: 22, Indels: 32
0.62 0.15 0.22
Matches are distributed among these distances:
55 14 0.16
56 7 0.08
57 13 0.14
58 10 0.11
59 13 0.14
60 7 0.08
61 26 0.29
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.43
Consensus pattern (61 bp):
TTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAA
Found at i:27647194 original size:116 final size:116
Alignment explanation
Indices: 27646984--27647316 Score: 623
Period size: 116 Copynumber: 2.9 Consensus size: 116
27646974 AACCTTAACG
* * *
27646984 TAATGTTAGATTTGGAAAAATATTTTGACTGGTACTAACAAATAATAA-TTTACATAATTTGATA
1 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAATTTTATATAATTTGATA
*
27647048 CTTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
66 ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
27647099 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAATTTTATATAATTTGATA
1 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAATTTTATATAATTTGATA
27647164 ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
66 ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
27647215 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAATTTTATATAATTTGATA
1 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAATTTTATATAATTTGATA
27647280 ATTTTACTAACCATTAATACAATTTTTTGACTTAATA
66 ATTTTACTAACCATTAATACAATTTTTTGACTTAATA
27647317 CAATTTATCA
Statistics
Matches: 213, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
115 46 0.22
116 167 0.78
ACGTcount: A:0.38, C:0.10, G:0.09, T:0.43
Consensus pattern (116 bp):
TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAATTTTATATAATTTGATA
ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
Found at i:27647333 original size:17 final size:18
Alignment explanation
Indices: 27647292--27647333 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
27647282 TTTACTAACC
* *
27647292 ATTAATACAATTTTTTGA
1 ATTAATACAATTTTATCA
*
27647310 CTTAATACAA-TTTATCA
1 ATTAATACAATTTTATCA
27647327 ATTAATA
1 ATTAATA
27647334 ATTTCACAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAATACAATTTTATCA
Found at i:27650565 original size:124 final size:125
Alignment explanation
Indices: 27650345--27650708 Score: 453
Period size: 124 Copynumber: 2.8 Consensus size: 125
27650335 CCCAAACATG
* * *
27650345 CTACTGTAGCAAAAGCGTG-TCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGCT-GACGAGAGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTG
*
27650409 CTAGAAGCGATTTTATATTATTTGCTCAGAAACGTCAAAAAAAT-TTATTTCTTACATGAC
65 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATATTATTTCTTACATGAC
* *
27650469 CTACTGTAGCAAAAGCGCGCTGACGAGACCGTGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGCTGACGAGAGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * * *
27650534 TAGAAGCGATTTTATACTATTTGCTTAGAAACGTCAAAAAAATAATTATTTTTTCCGTGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAT-ATTATTTCTTACATGAC
* *
27650595 CTACTGTAGCAAAATTGCGCGCAAAAGCGCGTCCATGAGGGCGCGATTTCACAAATTCTTCTCAA
1 CTACTGTAGCAAAA--GCGCGC---TG-ACG---A-GA--GCGCGATTTCACAAATTCTTCTCAA
* **
27650660 ATAGCATCCTGCTAGAAGAGATTTTATACTATTTTATCAGAAACGTCAA
54 ATAGCATCCTGCTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAA
27650709 CTCGAAATTA
Statistics
Matches: 207, Mismatches: 18, Indels: 16
0.86 0.07 0.07
Matches are distributed among these distances:
124 99 0.48
125 1 0.00
126 27 0.13
128 6 0.03
131 1 0.00
132 2 0.01
135 1 0.00
136 2 0.01
138 68 0.33
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGCTGACGAGAGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATATTATTTCTTACATGAC
Found at i:27652293 original size:3 final size:3
Alignment explanation
Indices: 27652285--27652318 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
27652275 GTCCTTTGCG
27652285 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
27652319 AACACGTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:27656956 original size:90 final size:90
Alignment explanation
Indices: 27656759--27657034 Score: 322
Period size: 91 Copynumber: 3.0 Consensus size: 90
27656749 ATGGTTTTTG
* * *
27656759 CACGAAAGATGCACATAGTGCAAAGCCCGTAGGCTAAATATTCTCCACTGATAACATGTCAGTTT
1 CACGCAAGATGCACATAGTGCAAAGCCCGTAGGCTAAATATTCTCCAC-GATAACACGTCAATTT
* * *
27656824 GCTTATAAGAGCTCTCCAATCAATAA
65 GCTCATAAGAGCTTTCCAAACAATAA
* * * *
27656850 CACGCAAGATGCACATAATGCAAAGCCCGTATGATAAATATTCTCCTCGATAACACGTCAATTTG
1 CACGCAAGATGCACATAGTGCAAAGCCCGTAGGCTAAATATTCTCCACGATAACACGTCAATTTG
* *
27656915 CTCATAAAAGTTTTCCAAACAATAA
66 CTCATAAGAGCTTTCCAAACAATAA
* ** * * * **
27656940 CATGTTAGATGCACATAGTGTACAA-CCCGTAGGCTAAATATTCTCCCCCAATAATGCGTCAATT
1 CACGCAAGATGCACATAGTGCA-AAGCCCGTAGGCTAAATATTCT-CCACGATAACACGTCAATT
27657004 TGCTCATAAGAGCTTT-CAAACTAATAA
64 TGCTCATAAGAGCTTTCCAAAC-AATAA
27657031 CACG
1 CACG
27657035 TCAAATCTTC
Statistics
Matches: 156, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
90 74 0.47
91 82 0.53
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (90 bp):
CACGCAAGATGCACATAGTGCAAAGCCCGTAGGCTAAATATTCTCCACGATAACACGTCAATTTG
CTCATAAGAGCTTTCCAAACAATAA
Found at i:27663148 original size:22 final size:21
Alignment explanation
Indices: 27663116--27663167 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
27663106 AACTTAAAAT
*
27663116 AAAT-AATAATAGAACGATTTA
1 AAATAAATAATAGAAAG-TTTA
*
27663137 AAATAAATAATATAAAGTTTA
1 AAATAAATAATAGAAAGTTTA
27663158 AAATAAATAA
1 AAATAAATAA
27663168 ATAAATACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 18 0.64
22 10 0.36
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (21 bp):
AAATAAATAATAGAAAGTTTA
Found at i:27663165 original size:25 final size:24
Alignment explanation
Indices: 27663081--27663171 Score: 91
Period size: 25 Copynumber: 3.8 Consensus size: 24
27663071 TGATTAACAT
*
27663081 AGTTTAAAATAAATAATATATTAAA
1 AGTTTAAAATAAATAA-ATAATAAA
**
27663106 AACTTAAAATAAAT-AATAATAGAA
1 AGTTTAAAATAAATAAATAATA-AA
*
27663130 CGATTTAAAATAAAT-AAT-AT-AA
1 AG-TTTAAAATAAATAAATAATAAA
27663152 AGTTTAAAATAAATAAATAA
1 AGTTTAAAATAAATAAATAA
27663172 ATACATTGCA
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
21 12 0.22
22 6 0.11
23 6 0.11
24 5 0.09
25 26 0.47
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (24 bp):
AGTTTAAAATAAATAAATAATAAA
Found at i:27674668 original size:11 final size:11
Alignment explanation
Indices: 27674654--27674715 Score: 88
Period size: 11 Copynumber: 5.6 Consensus size: 11
27674644 TAATAGTGAA
*
27674654 AAAATAACAAG
1 AAAATAGCAAG
*
27674665 AAAATAGCAAC
1 AAAATAGCAAG
*
27674676 AAAATAACAAG
1 AAAATAGCAAG
*
27674687 AAAACAGCAAG
1 AAAATAGCAAG
27674698 AAAATAGCAAG
1 AAAATAGCAAG
27674709 AAAATAG
1 AAAATAG
27674716 AAAAAGAAAC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 44 1.00
ACGTcount: A:0.68, C:0.11, G:0.13, T:0.08
Consensus pattern (11 bp):
AAAATAGCAAG
Found at i:27674670 original size:22 final size:22
Alignment explanation
Indices: 27674654--27674715 Score: 97
Period size: 22 Copynumber: 2.8 Consensus size: 22
27674644 TAATAGTGAA
27674654 AAAATAACAAGAAAATAGCAAC
1 AAAATAACAAGAAAATAGCAAC
* *
27674676 AAAATAACAAGAAAACAGCAAG
1 AAAATAACAAGAAAATAGCAAC
*
27674698 AAAATAGCAAGAAAATAG
1 AAAATAACAAGAAAATAG
27674716 AAAAAGAAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.68, C:0.11, G:0.13, T:0.08
Consensus pattern (22 bp):
AAAATAACAAGAAAATAGCAAC
Found at i:27675139 original size:22 final size:26
Alignment explanation
Indices: 27675113--27675170 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 26
27675103 TATATTTTAT
27675113 TTTAAAATATAAATA-T-AAAA-TAA
1 TTTAAAATATAAATATTAAAAATTAA
*
27675136 -TTAAAATAAAAATATTAAAAATTAA
1 TTTAAAATATAAATATTAAAAATTAA
27675161 TTTAAAATAT
1 TTTAAAATAT
27675171 CAAGAATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 13 0.45
23 1 0.03
24 4 0.14
25 3 0.10
26 8 0.28
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (26 bp):
TTTAAAATATAAATATTAAAAATTAA
Found at i:27675147 original size:15 final size:15
Alignment explanation
Indices: 27675115--27675155 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
27675105 TATTTTATTT
27675115 TAAAATA-T-AAATA
1 TAAAATATTAAAATA
27675128 TAAAATAATTAAAATA
1 TAAAAT-ATTAAAATA
27675144 -AAAATATTAAAA
1 TAAAATATTAAAA
27675156 ATTAATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 6 0.24
14 8 0.32
15 6 0.24
16 5 0.20
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
TAAAATATTAAAATA
Found at i:27676984 original size:23 final size:23
Alignment explanation
Indices: 27676942--27677027 Score: 102
Period size: 23 Copynumber: 3.7 Consensus size: 23
27676932 AATGTTTACA
*
27676942 AACATGTTCATTTAAC-TTAATTG
1 AACATGTTCA-TGAACATTAATTG
* * *
27676965 AATATGTTCATGAACATTAAATA
1 AACATGTTCATGAACATTAATTG
27676988 AACATGTTCATGAACATATAATTG
1 AACATGTTCATGAACAT-TAATTG
*
27677012 AACATATTCATGAACA
1 AACATGTTCATGAACA
27677028 ATGTTAATGA
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
22 4 0.08
23 30 0.57
24 19 0.36
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.35
Consensus pattern (23 bp):
AACATGTTCATGAACATTAATTG
Found at i:27680106 original size:64 final size:64
Alignment explanation
Indices: 27679975--27680118 Score: 166
Period size: 64 Copynumber: 2.3 Consensus size: 64
27679965 ACACAGGCAA
* * * * * ** *
27679975 GTGTCCAGGCCATGTAACTCGCTGTTTACAAAATAATGATCACACGGGTGAACGGCACGGGCGT
1 GTGTCCAGGCCGTGTGACTCACTGTTTACAAAATAAGGATCACACAGGTGAACGGCACGACCAT
* *
27680039 GTGTCCAGGCCGTGTGACTCACTGTTTACAAAATAAGGATTACACAGGTGGA-GGACACGACCAT
1 GTGTCCAGGCCGTGTGACTCACTGTTTACAAAATAAGGATCACACAGGTGAACGG-CACGACCAT
*
27680103 GTGT-TAGGCCGTGTGA
1 GTGTCCAGGCCGTGTGA
27680119 GACACACGGG
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
63 13 0.19
64 55 0.81
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (64 bp):
GTGTCCAGGCCGTGTGACTCACTGTTTACAAAATAAGGATCACACAGGTGAACGGCACGACCAT
Found at i:27680196 original size:54 final size:54
Alignment explanation
Indices: 27680090--27680196 Score: 169
Period size: 54 Copynumber: 2.0 Consensus size: 54
27680080 ACACAGGTGG
* *
27680090 AGGACACGACCATGTGTTAGGCCGTGTGAGACACACGGGCAAGCACATGGGCAA
1 AGGACACGACCATGTGTTAGGCCGTGTGAGACACACGGACAAGCACACGGGCAA
* * *
27680144 AGGACACGACCGTGTGTTAGGCCGTGTGAGACACACGGATAAGGACACGGGCA
1 AGGACACGACCATGTGTTAGGCCGTGTGAGACACACGGACAAGCACACGGGCA
27680197 TGTTCCAGGC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.29, C:0.23, G:0.35, T:0.13
Consensus pattern (54 bp):
AGGACACGACCATGTGTTAGGCCGTGTGAGACACACGGACAAGCACACGGGCAA
Found at i:27681126 original size:14 final size:14
Alignment explanation
Indices: 27681107--27681135 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
27681097 TATTGTCTAT
27681107 GCCGAATATAAGGG
1 GCCGAATATAAGGG
27681121 GCCGAATATAAGGG
1 GCCGAATATAAGGG
27681135 G
1 G
27681136 TTAGATCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.38, T:0.14
Consensus pattern (14 bp):
GCCGAATATAAGGG
Found at i:27682011 original size:18 final size:19
Alignment explanation
Indices: 27681981--27682017 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
27681971 ATCAAAATTT
*
27681981 TATTTTAAATTTTTTTATA
1 TATTTTAAATTTTATTATA
27682000 TATTTT-AATTTTATTATA
1 TATTTTAAATTTTATTATA
27682018 CATACTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TATTTTAAATTTTATTATA
Found at i:27687067 original size:25 final size:24
Alignment explanation
Indices: 27687034--27687085 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
27687024 TGTGAAAGTA
* *
27687034 AAACACTAACTAATAAATAAAAA-T
1 AAACACTAA-AAAGAAATAAAAACT
27687058 AAACACCTAAAAAGAAATAAAAACT
1 AAACA-CTAAAAAGAAATAAAAACT
27687083 AAA
1 AAA
27687086 GAAAAGAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.69, C:0.13, G:0.02, T:0.15
Consensus pattern (24 bp):
AAACACTAAAAAGAAATAAAAACT
Found at i:27689083 original size:21 final size:22
Alignment explanation
Indices: 27689054--27689094 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
27689044 GATCCCCTTT
* *
27689054 ATTAGAATAAATAA-AAATAGC
1 ATTAAAATAAAAAATAAATAGC
27689075 ATTAAAATAAAAAATAAATA
1 ATTAAAATAAAAAATAAATA
27689095 TTAAAATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.24
Consensus pattern (22 bp):
ATTAAAATAAAAAATAAATAGC
Found at i:27689097 original size:19 final size:19
Alignment explanation
Indices: 27689075--27689111 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
27689065 TAAAAATAGC
27689075 ATTAAAATAAAAAATAAAT
1 ATTAAAATAAAAAATAAAT
* *
27689094 ATTAAAATTAAAATTAAA
1 ATTAAAATAAAAAATAAA
27689112 GACAAAAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
ATTAAAATAAAAAATAAAT
Found at i:27693284 original size:26 final size:26
Alignment explanation
Indices: 27693248--27693368 Score: 136
Period size: 26 Copynumber: 4.7 Consensus size: 26
27693238 AAAATTAATG
*
27693248 AAATACTCTCGATGGGTAAAATACCA
1 AAATACCCTCGATGGGTAAAATACCA
* **
27693274 AAATACCCTCGATGGGTAAATTATTA
1 AAATACCCTCGATGGGTAAAATACCA
27693300 AAATACCCTCGATGGG-AAAATTACCA
1 AAATACCCTCGATGGGTAAAA-TACCA
* * * * *
27693326 AAATAACCTCAATGGGTAAATTATCG
1 AAATACCCTCGATGGGTAAAATACCA
*
27693352 AAATACCCTCGAAGGGT
1 AAATACCCTCGATGGGT
27693369 CGAATGACCG
Statistics
Matches: 78, Mismatches: 15, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
25 3 0.04
26 72 0.92
27 3 0.04
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.24
Consensus pattern (26 bp):
AAATACCCTCGATGGGTAAAATACCA
Found at i:27693311 original size:52 final size:53
Alignment explanation
Indices: 27693239--27693368 Score: 183
Period size: 52 Copynumber: 2.5 Consensus size: 53
27693229 TAATGGGAAA
* * * *
27693239 AAATTAATGAAATACTCTCGATGGGTAAAA-TACCAAAATACCCTCGATGGGT
1 AAATTATTGAAATACCCTCGATGGGTAAAATTACCAAAATAACCTCAATGGGT
*
27693291 AAATTATTAAAATACCCTCGATGGG-AAAATTACCAAAATAACCTCAATGGGT
1 AAATTATTGAAATACCCTCGATGGGTAAAATTACCAAAATAACCTCAATGGGT
* *
27693343 AAATTATCGAAATACCCTCGAAGGGT
1 AAATTATTGAAATACCCTCGATGGGT
27693369 CGAATGACCG
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
51 4 0.06
52 64 0.94
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.25
Consensus pattern (53 bp):
AAATTATTGAAATACCCTCGATGGGTAAAATTACCAAAATAACCTCAATGGGT
Found at i:27693643 original size:26 final size:26
Alignment explanation
Indices: 27693600--27693649 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
27693590 ACATATACTG
* * *
27693600 TACTGGCAGCTCTGCTGCGATATTAT
1 TACTGGCAGCTATACTGCAATATTAT
27693626 TACTGGCAGCTATACTGCAATATT
1 TACTGGCAGCTATACTGCAATATT
27693650 GGTGTGTGGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (26 bp):
TACTGGCAGCTATACTGCAATATTAT
Found at i:27695531 original size:29 final size:29
Alignment explanation
Indices: 27695499--27695556 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
27695489 CTTGTAGAAA
27695499 AAGAAAAGATTGTAGAAGAAGTTAAGCAC
1 AAGAAAAGATTGTAGAAGAAGTTAAGCAC
27695528 AAGAAAAGATTGTAGAAGAAGTTAAGCAC
1 AAGAAAAGATTGTAGAAGAAGTTAAGCAC
27695557 TCGGAGCGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.52, C:0.07, G:0.24, T:0.17
Consensus pattern (29 bp):
AAGAAAAGATTGTAGAAGAAGTTAAGCAC
Found at i:27700452 original size:26 final size:26
Alignment explanation
Indices: 27700421--27700657 Score: 204
Period size: 26 Copynumber: 9.0 Consensus size: 26
27700411 TAATGGGCTA
*
27700421 AAATTACCAAAATACCCTTGATGGGT
1 AAATTACCAAAATACCCTCGATGGGT
*
27700447 CAATTACCAAAATACCCTCGATGGGT
1 AAATTACCAAAATACCCTCGATGGGT
*** * *
27700473 AAATTAATGAAACACCTTCGATGGGT
1 AAATTACCAAAATACCCTCGATGGGT
* * * *
27700499 AAATTATCGAAATTCCATCGATGGGT
1 AAATTACCAAAATACCCTCGATGGGT
* * ** * *
27700525 AAGTTATCAAAATACCCTTAATAGAT
1 AAATTACCAAAATACCCTCGATGGGT
*
27700551 AAATTACTAAAATACCCTCGATGGGT
1 AAATTACCAAAATACCCTCGATGGGT
* *
27700577 AAATTACTAAAATACGCTCGATGGGT
1 AAATTACCAAAATACCCTCGATGGGT
* * * * *
27700603 AAATTATCGAAATACCCTCAAAGGTT
1 AAATTACCAAAATACCCTCGATGGGT
* * *
27700629 AAAAATTATCGAAATACCCTCGAAGGGT
1 --AAATTACCAAAATACCCTCGATGGGT
27700657 A
1 A
27700658 GAATGACTAT
Statistics
Matches: 171, Mismatches: 38, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
26 147 0.86
28 24 0.14
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.27
Consensus pattern (26 bp):
AAATTACCAAAATACCCTCGATGGGT
Found at i:27700816 original size:26 final size:26
Alignment explanation
Indices: 27700768--27700817 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
27700758 AGATATACTG
* * *
27700768 TACTGGCAGCTCTATTGCGATATTAT
1 TACTGGCAGCTATACTGCAATATTAT
27700794 TACTGGCAGCTATACTGCAATATT
1 TACTGGCAGCTATACTGCAATATT
27700818 GGTGTGTGGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (26 bp):
TACTGGCAGCTATACTGCAATATTAT
Found at i:27710923 original size:19 final size:21
Alignment explanation
Indices: 27710901--27710948 Score: 73
Period size: 19 Copynumber: 2.3 Consensus size: 21
27710891 TTAAAAAATA
27710901 TTTTAAAATA-TTTTTTT-AT
1 TTTTAAAATACTTTTTTTAAT
27710920 TTTTAAAATACTTTTTTTAAT
1 TTTTAAAATACTTTTTTTAAT
27710941 TTTCTAAA
1 TTT-TAAA
27710949 TTTTTTTGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.38
20 7 0.27
21 5 0.19
22 4 0.15
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTAAAATACTTTTTTTAAT
Found at i:27710928 original size:29 final size:33
Alignment explanation
Indices: 27710872--27710934 Score: 89
Period size: 30 Copynumber: 2.0 Consensus size: 33
27710862 CCGAATATAA
27710872 TAAATATATATTTTTTATTTTAAAAAATA-TTT
1 TAAATATATATTTTTTATTTTAAAAAATACTTT
*
27710904 TAAA-ATAT-TTTTTTATTTT-TAAAATACTTT
1 TAAATATATATTTTTTATTTTAAAAAATACTTT
27710934 T
1 T
27710935 TTTAATTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 6 0.21
30 15 0.52
31 4 0.14
32 4 0.14
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (33 bp):
TAAATATATATTTTTTATTTTAAAAAATACTTT
Found at i:27712553 original size:20 final size:20
Alignment explanation
Indices: 27712525--27712563 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
27712515 ATATTTTGCT
* *
27712525 TTTTTTTTTATACATTTTAA
1 TTTTATTTTATACACTTTAA
*
27712545 TTTTATTTTGTACACTTTA
1 TTTTATTTTATACACTTTA
27712564 TTACCTCCAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.03, T:0.67
Consensus pattern (20 bp):
TTTTATTTTATACACTTTAA
Found at i:27712929 original size:12 final size:12
Alignment explanation
Indices: 27712912--27712936 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27712902 GTACGTTATT
27712912 TTAAAATAATTA
1 TTAAAATAATTA
27712924 TTAAAATAATTA
1 TTAAAATAATTA
27712936 T
1 T
27712937 AATGATTAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TTAAAATAATTA
Found at i:27714144 original size:25 final size:25
Alignment explanation
Indices: 27714091--27714154 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
27714081 GTAACCAAGC
* *
27714091 TTTAACTGGGAAAAAGATAGCAGAG
1 TTTAACTGGGAAAAAGATAGCAAAA
*
27714116 TTTAATTGGGAAAAAGATAGCAAAA
1 TTTAACTGGGAAAAAGATAGCAAAA
*
27714141 TTTAACTAGGAAAA
1 TTTAACTGGGAAAA
27714155 GAGACTCGGT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.48, C:0.06, G:0.22, T:0.23
Consensus pattern (25 bp):
TTTAACTGGGAAAAAGATAGCAAAA
Found at i:27718085 original size:4 final size:4
Alignment explanation
Indices: 27718076--27718110 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
27718066 CCACTCACAC
27718076 TGTT TGTT TGTT TGTT TGTT TGTT TGTT TGTT TGT
1 TGTT TGTT TGTT TGTT TGTT TGTT TGTT TGTT TGT
27718111 ATGCATTAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.26, T:0.74
Consensus pattern (4 bp):
TGTT
Found at i:27723951 original size:30 final size:30
Alignment explanation
Indices: 27723915--27723988 Score: 130
Period size: 30 Copynumber: 2.5 Consensus size: 30
27723905 TGGCTTACAC
27723915 GCCCGTGTGGCCCATACGACCTACTTGGCA
1 GCCCGTGTGGCCCATACGACCTACTTGGCA
27723945 GCCCGTGTGGCCCATACGACCTACTTGGCA
1 GCCCGTGTGGCCCATACGACCTACTTGGCA
* *
27723975 GCCCATGTTGCCCA
1 GCCCGTGTGGCCCA
27723989 CATGGCCTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.16, C:0.38, G:0.26, T:0.20
Consensus pattern (30 bp):
GCCCGTGTGGCCCATACGACCTACTTGGCA
Found at i:27724620 original size:18 final size:18
Alignment explanation
Indices: 27724597--27724645 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
27724587 AAGCAGATTG
* *
27724597 AAAATAGAGAAGGAAAAC
1 AAAATAGAAAAAGAAAAC
27724615 AAAATAGAAAAAGAAAAC
1 AAAATAGAAAAAGAAAAC
* *
27724633 -CAAGAGAAAAAGA
1 AAAATAGAAAAAGA
27724646 GAAAGAACAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
17 11 0.41
18 16 0.59
ACGTcount: A:0.71, C:0.06, G:0.18, T:0.04
Consensus pattern (18 bp):
AAAATAGAAAAAGAAAAC
Found at i:27726247 original size:3 final size:3
Alignment explanation
Indices: 27726239--27726275 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
27726229 TCTAAGCTAG
27726239 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
27726276 AAATTTTATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:27727939 original size:43 final size:43
Alignment explanation
Indices: 27727842--27728077 Score: 280
Period size: 43 Copynumber: 5.5 Consensus size: 43
27727832 ATGTTTTTGT
* * * *
27727842 GGCGTTTTTGCGAGAAGCGTCGCTAAAGGT-TTG-TACTATAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGAT-CTATAGC
* *
27727884 AGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGAGCTATAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
* * *
27727927 GGCGTTTTTGGGAAAAGCACCGCTAAATGTCTTGATCTATAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
** * **
27727970 GGCGTTTGT-ATAGAAGCGCCGCTAAAGGTCCCGATCTATAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
** * *
27728012 GGCGTTTGTGAAAAAAGCACCGCTAAAGGTCCTGATCTATAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
27728055 GGCGTTTGTGGGAAAAGCGCCGC
1 GGCGTTTGTGGGAAAAGCGCCGC
27728078 AAACGTTTGT
Statistics
Matches: 165, Mismatches: 26, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
42 60 0.36
43 105 0.64
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (43 bp):
GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
Found at i:27727987 original size:85 final size:85
Alignment explanation
Indices: 27727898--27728063 Score: 260
Period size: 85 Copynumber: 2.0 Consensus size: 85
27727888 TTTGTGGGAA
** * ** * *
27727898 AAGCGCCGCTAAAGGTCTTGAGCTATAGCGGCGTTTTTGGGAAAAGCACCGCTAAATGTCTTGAT
1 AAGCGCCGCTAAAGGTCCCGAGCTATAGCGGCGTTTGTGAAAAAAGCACCGCTAAAGGTCCTGAT
27727963 CTATAGCGGCGTTTGTATAG
66 CTATAGCGGCGTTTGTATAG
*
27727983 AAGCGCCGCTAAAGGTCCCGATCTATAGCGGCGTTTGTGAAAAAAGCACCGCTAAAGGTCCTGAT
1 AAGCGCCGCTAAAGGTCCCGAGCTATAGCGGCGTTTGTGAAAAAAGCACCGCTAAAGGTCCTGAT
27728048 CTATAGCGGCGTTTGT
66 CTATAGCGGCGTTTGT
27728064 GGGAAAAGCG
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
85 73 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (85 bp):
AAGCGCCGCTAAAGGTCCCGAGCTATAGCGGCGTTTGTGAAAAAAGCACCGCTAAAGGTCCTGAT
CTATAGCGGCGTTTGTATAG
Found at i:27732077 original size:31 final size:31
Alignment explanation
Indices: 27732010--27732075 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
27732000 TTAATAAAGT
* * *
27732010 TAAAATTGTACTTTAATTTTCTTATAAATAA
1 TAAAATTGTAATTTAATCTTCTTAAAAATAA
* *
27732041 TAAAATTTTAATTTAATCTT-TTAAAAATTA
1 TAAAATTGTAATTTAATCTTCTTAAAAATAA
27732071 TAAAA
1 TAAAA
27732076 ATATAAACTA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 13 0.43
31 17 0.57
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (31 bp):
TAAAATTGTAATTTAATCTTCTTAAAAATAA
Found at i:27733455 original size:20 final size:19
Alignment explanation
Indices: 27733419--27733461 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
27733409 AAAACTTAAG
*
27733419 TATAT-TTTTTAATTTGTT
1 TATATCTTTTAAATTTGTT
27733437 TATATCTTTTAAATATTGTT
1 TATATCTTTTAAAT-TTGTT
27733457 T-TATC
1 TATATC
27733462 AATAATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 5 0.23
19 11 0.50
20 6 0.27
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.65
Consensus pattern (19 bp):
TATATCTTTTAAATTTGTT
Found at i:27733622 original size:154 final size:154
Alignment explanation
Indices: 27733242--27733714 Score: 609
Period size: 154 Copynumber: 3.1 Consensus size: 154
27733232 ACATTACAAA
* * *
27733242 TATATTATATTTTAAAAACTTAAGTATAATTTTTAATTTGGTTATATGTTTTAAATATTATTTTA
1 TATATTATATTTCAAAAACTTAAGTAT-ATTTTTAATTTGATTATATCTTTTAAATATTATTTTA
* * * * * *
27733307 TTAATAATTTTATTTAATATATCGTTA-TTAAATAACAATTTTATAAAACATACGAGCAATCCGT
65 TCAATAATTTTATTTAATATATCATTATTTAAATAATAATTTTATAAAACACACAAGCAACCCGT
* * *
27733371 ACATCACATGGGAT-AAAAAACTAG
130 GCATCACACGAGATAAAAAAACTAG
* * * *
27733395 TATATTATATCTCGAAAACTTAAGTATATTTTTTAATTTGTTTATATCTTTTAAATATTGTTTTA
1 TATATTATATTTCAAAAACTTAAGTATA-TTTTTAATTTGATTATATCTTTTAAATATTATTTTA
* *
27733460 TCAATAATTTTATTTAATATATCTTTATTTAAATAATGATTTTATAAAACACACAAGCAACCCGT
65 TCAATAATTTTATTTAATATATCATTATTTAAATAATAATTTTATAAAACACACAAGCAACCCGT
*
27733525 GCATCACGCGAGATAAAAAAACTAG
130 GCATCACACGAGATAAAAAAACTAG
* *
27733550 TATATTATATTTCAAAAACTTAAGTATATTTTAAATTTTGATTATATCTTTTAAATATT-TTTAA
1 TATATTATATTTCAAAAACTTAAGTATATTTTTAA-TTTGATTATATCTTTTAAATATTATTTTA
* * * *
27733614 TCAATAATTTTATTTAACATATCATTATTTAAATAATAATTTTATAAAGCACACTTA-CAACCCA
65 TCAATAATTTTATTTAATATATCATTATTTAAATAATAATTTTATAAAACACAC-AAGCAACCCG
*
27733678 TGCATCACAC-AGGA-AAAAAAATTAG
129 TGCATCACACGA-GATAAAAAAACTAG
27733703 T-TATTTATATTT
1 TATA-TTATATTT
27733715 AAAGCTTTGA
Statistics
Matches: 283, Mismatches: 30, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
152 3 0.01
153 102 0.36
154 119 0.42
155 59 0.21
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.43
Consensus pattern (154 bp):
TATATTATATTTCAAAAACTTAAGTATATTTTTAATTTGATTATATCTTTTAAATATTATTTTAT
CAATAATTTTATTTAATATATCATTATTTAAATAATAATTTTATAAAACACACAAGCAACCCGTG
CATCACACGAGATAAAAAAACTAG
Found at i:27734976 original size:136 final size:135
Alignment explanation
Indices: 27734645--27735055 Score: 589
Period size: 136 Copynumber: 3.1 Consensus size: 135
27734635 GAGTTGCTCG
* * *
27734645 AACTTAGTCAAACTACTTTCAAGTTTATTTCCGTCTTTTAAGTGCCAAATCATTTTGGAACTATT
1 AACTTAATCGAACTACTTTCAAGTTTATTTCCGTCTTTCAAGTGCCAAATCATTTTGGAACTATT
27734710 TGAG-TCAAAGACTTTACTTCAATAAGGCAGTGAAATAAATTATGTATTTG--ACTATTGTGTTG
66 TGAGTTC-AAGACTTTACTTCAATAAGGCAGTGAAATAAATTATGTATTTGAAACTATTGTGTTG
27734772 CTTGTA
130 CTTGTA
* * * *
27734778 AACTTAATTGAACTAC-TT-AAGTTTATTTCCATTTTTCAAGTGCCAAATCATTTTGAAACTATT
1 AACTTAATCGAACTACTTTCAAGTTTATTTCCGTCTTTCAAGTGCCAAATCATTTTGGAACTATT
* * *
27734841 TGAGTTCAAGACTTTATTTCAATAAGACAGTGAAATAAATCATGTATTTGCAAACTATTGTGTTG
66 TGAGTTCAAGACTTTACTTCAATAAGGCAGTGAAATAAATTATGTATTTG-AAACTATTGTGTTG
27734906 CTTGTA
130 CTTGTA
* *
27734912 AACTTAATCGAATTGCTTTCAAGTTTATTTCCGTCTTTCAAGTGCCAAATCATTTTGGAACTATT
1 AACTTAATCGAACTACTTTCAAGTTTATTTCCGTCTTTCAAGTGCCAAATCATTTTGGAACTATT
* * * * *
27734977 TGAGTCCAAAACTTTACTTCAATAGGGCAGTGAAATGAATTATGTATTTGTAAACTACTGTGTTG
66 TGAGTTCAAGACTTTACTTCAATAAGGCAGTGAAATAAATTATGTATTTG-AAACTATTGTGTTG
* *
27735042 GTTGTG
130 CTTGTA
27735048 AACTTAAT
1 AACTTAAT
27735056 TATATTTTTA
Statistics
Matches: 245, Mismatches: 27, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
131 85 0.35
132 4 0.02
133 13 0.05
134 31 0.13
135 2 0.01
136 110 0.45
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (135 bp):
AACTTAATCGAACTACTTTCAAGTTTATTTCCGTCTTTCAAGTGCCAAATCATTTTGGAACTATT
TGAGTTCAAGACTTTACTTCAATAAGGCAGTGAAATAAATTATGTATTTGAAACTATTGTGTTGC
TTGTA
Found at i:27735713 original size:7 final size:7
Alignment explanation
Indices: 27735701--27735731 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
27735691 TTTTGGATCA
27735701 CTTTGAT
1 CTTTGAT
27735708 CTTTGAT
1 CTTTGAT
27735715 CTTTGAT
1 CTTTGAT
*
27735722 CTTTAAT
1 CTTTGAT
27735729 CTT
1 CTT
27735732 CAAAATTTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.16, C:0.16, G:0.10, T:0.58
Consensus pattern (7 bp):
CTTTGAT
Found at i:27736578 original size:13 final size:13
Alignment explanation
Indices: 27736552--27736606 Score: 53
Period size: 13 Copynumber: 4.2 Consensus size: 13
27736542 GAATAACATA
27736552 TAAATATCAATAAT
1 TAAATAT-AATAAT
27736566 TAAATATAATAAT
1 TAAATATAATAAT
27736579 T--A-ATAATACATT
1 TAAATATAATA-A-T
*
27736591 TAAATAGAATAAT
1 TAAATATAATAAT
27736604 TAA
1 TAA
27736607 TAATAAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 11
0.74 0.02 0.23
Matches are distributed among these distances:
10 6 0.17
11 2 0.06
12 2 0.06
13 11 0.31
14 9 0.26
15 5 0.14
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (13 bp):
TAAATATAATAAT
Found at i:27736593 original size:25 final size:25
Alignment explanation
Indices: 27736565--27736622 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
27736555 ATATCAATAA
*
27736565 TTAAATATAATAATTAATAATACAT
1 TTAAATATAATAATTAATAATAAAT
*
27736590 TTAAATAGAATAATTAATAATAAAT
1 TTAAATATAATAATTAATAATAAAT
27736615 TTAAATAT
1 TTAAATAT
27736623 GTCTAAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (25 bp):
TTAAATATAATAATTAATAATAAAT
Found at i:27740006 original size:54 final size:52
Alignment explanation
Indices: 27739894--27740006 Score: 129
Period size: 54 Copynumber: 2.1 Consensus size: 52
27739884 TCAATTTATT
* ***
27739894 TCATTCAATCTCATTTATTTCAATTTTATTTTTCTATATCTAACACCCTTTTCT
1 TCATTCAATCTCATTTATTTCAATTTTATTTTTCTACATCTAACACCC--TAAA
*
27739948 TCATTCAGTCTCATTTATTTCAATTTTATTTTTCTACATCTACACTACACC-AAA
1 TCATTCAATCTCATTTATTTCAATTTTATTTTTCTACATCTA-AC-AC-CCTAAA
27740002 TCATT
1 TCATT
27740007 TTGGAACTAT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
54 45 0.88
55 2 0.04
56 2 0.04
57 2 0.04
ACGTcount: A:0.27, C:0.23, G:0.01, T:0.50
Consensus pattern (52 bp):
TCATTCAATCTCATTTATTTCAATTTTATTTTTCTACATCTAACACCCTAAA
Found at i:27740753 original size:7 final size:7
Alignment explanation
Indices: 27740741--27740771 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
27740731 TTTTGGATCA
27740741 CTTTGAT
1 CTTTGAT
27740748 CTTTGAT
1 CTTTGAT
27740755 CTTTGAT
1 CTTTGAT
*
27740762 CTTTAAT
1 CTTTGAT
27740769 CTT
1 CTT
27740772 CAAAATTTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.16, C:0.16, G:0.10, T:0.58
Consensus pattern (7 bp):
CTTTGAT
Found at i:27741619 original size:13 final size:13
Alignment explanation
Indices: 27741594--27741648 Score: 62
Period size: 13 Copynumber: 4.2 Consensus size: 13
27741584 GAATAACATA
27741594 TAAATATTAATAAT
1 TAAATA-TAATAAT
27741608 TAAATATAATAAT
1 TAAATATAATAAT
27741621 T--A-ATAATACATT
1 TAAATATAATA-A-T
27741633 TAAATATAATAAT
1 TAAATATAATAAT
27741646 TAA
1 TAA
27741649 TAATAAATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
10 6 0.17
11 2 0.06
12 2 0.06
13 12 0.33
14 8 0.22
15 6 0.17
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (13 bp):
TAAATATAATAAT
Found at i:27741635 original size:25 final size:25
Alignment explanation
Indices: 27741607--27741664 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
27741597 ATATTAATAA
*
27741607 TTAAATATAATAATTAATAATACAT
1 TTAAATATAATAATTAATAATAAAT
27741632 TTAAATATAATAATTAATAATAAAT
1 TTAAATATAATAATTAATAATAAAT
27741657 TTAAATAT
1 TTAAATAT
27741665 GTCTAAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (25 bp):
TTAAATATAATAATTAATAATAAAT
Found at i:27741654 original size:13 final size:13
Alignment explanation
Indices: 27741596--27741654 Score: 54
Period size: 13 Copynumber: 4.6 Consensus size: 13
27741586 ATAACATATA
*
27741596 AATATTAATAATT
1 AATAATAATAATT
27741609 AA-ATATAATAATT
1 AATA-ATAATAATT
27741622 AATAATACAT--TT
1 AATAATA-ATAATT
27741634 AA-ATATAATAATT
1 AATA-ATAATAATT
27741647 AATAATAA
1 AATAATAA
27741655 ATTTAAATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
11 3 0.08
12 8 0.21
13 23 0.61
14 4 0.11
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (13 bp):
AATAATAATAATT
Found at i:27742292 original size:43 final size:42
Alignment explanation
Indices: 27742232--27742485 Score: 283
Period size: 42 Copynumber: 6.0 Consensus size: 42
27742222 CAGCGTTTAC
* * *
27742232 AGAAAAAAATGCCGCTAAAGGTCATGTTCTTTAGCGGCGGTT
1 AGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
* *
27742274 AAAAAAAAGACGCCGCTAAAGATCATGTTCTTTAGCAGCGCTT
1 AGAAAAAA-ACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
* * * *
27742317 AAAAAAAAGACACCGCTAAAGATCTTGTTCTTTAGCGGCGCAT
1 AGAAAAAA-ACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
* * * * * *
27742360 GGAGAAAAATGCCACTAAAGATCATCTTCTTTAGCGGTGCTT
1 AGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
* * * *
27742402 AGACAAAAACACCGCTAAAAATCATATTCTTTAGCGGCGCTT
1 AGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
* * * *
27742444 GGTAAAAAACGCCACTATAGATCATGTTCTTTAGCGGCGCTT
1 AGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
27742486 TCTTCACAAA
Statistics
Matches: 176, Mismatches: 35, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
42 102 0.58
43 74 0.42
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (42 bp):
AGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
Found at i:27742939 original size:21 final size:21
Alignment explanation
Indices: 27742915--27742986 Score: 83
Period size: 21 Copynumber: 3.4 Consensus size: 21
27742905 TTCTTTTGAA
* *
27742915 CCTCTACTTCTCTTGCTGCAG
1 CCTCTGCTTCTCTCGCTGCAG
*
27742936 CCTCTGCTTCTCTCGCTGTAG
1 CCTCTGCTTCTCTCGCTGCAG
* *
27742957 CCTCTGCTTCCCTCACTGTC-G
1 CCTCTGCTTCTCTCGCTG-CAG
27742978 CCTCTGCTT
1 CCTCTGCTT
27742987 TAAGTTGTAG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.06, C:0.42, G:0.15, T:0.38
Consensus pattern (21 bp):
CCTCTGCTTCTCTCGCTGCAG
Found at i:27748440 original size:9 final size:9
Alignment explanation
Indices: 27748426--27748684 Score: 289
Period size: 9 Copynumber: 29.4 Consensus size: 9
27748416 ACGCCAGTTA
27748426 TTATGTAAG
1 TTATGTAAG
27748435 TTATGTAAG
1 TTATGTAAG
*
27748444 TTATTTAAG
1 TTATGTAAG
27748453 TTATGTAAG
1 TTATGTAAG
27748462 TTATGTAAG
1 TTATGTAAG
* *
27748471 TTATTTAAT
1 TTATGTAAG
27748480 TTATGTAAG
1 TTATGTAAG
27748489 TTATGTAAG
1 TTATGTAAG
* *
27748498 TTATTTAAT
1 TTATGTAAG
*
27748507 TTATATAAG
1 TTATGTAAG
27748516 TTATGTAAG
1 TTATGTAAG
27748525 TTATGTAAG
1 TTATGTAAG
* *
27748534 TTATTTAAT
1 TTATGTAAG
27748543 TTATGTAAG
1 TTATGTAAG
*
27748552 TTATGTAGG
1 TTATGTAAG
**
27748561 CAATGT-A-
1 TTATGTAAG
*
27748568 TTATGTAAA
1 TTATGTAAG
*
27748577 TAATGTAAG
1 TTATGTAAG
*
27748586 TTA-GGAAGG
1 TTATGTAA-G
27748595 TTATGT-A-
1 TTATGTAAG
27748602 TTATGTAAG
1 TTATGTAAG
*
27748611 TTATTTAAG
1 TTATGTAAG
27748620 TTATGTAAG
1 TTATGTAAG
* *
27748629 TTATTTAAT
1 TTATGTAAG
27748638 TTATGTAAG
1 TTATGTAAG
27748647 TTATGTAAG
1 TTATGTAAG
*
27748656 TTATGTAGG
1 TTATGTAAG
27748665 TTATGT-A-
1 TTATGTAAG
*
27748672 TTATGTTAG
1 TTATGTAAG
27748681 TTAT
1 TTAT
27748685 TATGTTATTA
Statistics
Matches: 208, Mismatches: 34, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
7 16 0.08
8 6 0.03
9 185 0.89
10 1 0.00
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:27748702 original size:20 final size:19
Alignment explanation
Indices: 27748665--27748704 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
27748655 GTTATGTAGG
* *
27748665 TTATGTATTATGTTAGTTA
1 TTATGTATTATATAAGTTA
27748684 TTATGTTATTATATAAGTTA
1 TTATG-TATTATATAAGTTA
27748704 T
1 T
27748705 GCAAGTTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.57
Consensus pattern (19 bp):
TTATGTATTATATAAGTTA
Found at i:27748723 original size:25 final size:26
Alignment explanation
Indices: 27748693--27748746 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 26
27748683 ATTATGTTAT
*
27748693 TATATAAG-TTATGCAAGTTTCTATA
1 TATATAAGATTATGCAAGTTTATATA
* *
27748718 TATATATGTATTATGTAAGTTTATATA
1 TATATAAG-ATTATGCAAGTTTATATA
27748745 TA
1 TA
27748747 AGTTATGATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 7 0.29
27 17 0.71
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (26 bp):
TATATAAGATTATGCAAGTTTATATA
Found at i:27749470 original size:20 final size:20
Alignment explanation
Indices: 27749420--27749476 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
27749410 TCGAATCCAA
*
27749420 GTTTAGGGTTCAAGGTTCGGG
1 GTTTAGGGTTCAAGGTT-TGG
* *
27749441 GTTCA-AGTTCAAGGTTTGG
1 GTTTAGGGTTCAAGGTTTGG
27749460 GTTTAGGGTTC-AGGTTT
1 GTTTAGGGTTCAAGGTTT
27749477 AAGATTTAGG
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
19 12 0.40
20 14 0.47
21 4 0.13
ACGTcount: A:0.16, C:0.09, G:0.37, T:0.39
Consensus pattern (20 bp):
GTTTAGGGTTCAAGGTTTGG
Found at i:27750178 original size:11 final size:12
Alignment explanation
Indices: 27750162--27750195 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
27750152 TGTTATAAAA
27750162 AATTAC-GAGTT
1 AATTACAGAGTT
*
27750173 AATTACAGAGCT
1 AATTACAGAGTT
27750185 AATTACAGAGT
1 AATTACAGAGT
27750196 GCTGGAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (12 bp):
AATTACAGAGTT
Found at i:27751759 original size:336 final size:333
Alignment explanation
Indices: 27751082--27751974 Score: 907
Period size: 336 Copynumber: 2.7 Consensus size: 333
27751072 AAAATGCCAG
* * ** *
27751082 TAAAAATTAATTTGCTTAAGCTATATGGGGTCGTTTAGACAATATTTTAAGTCA-TTTTGCGGCG
1 TAAAAATTAATTTGCTTAAGCTAAACGAAGACGTTTAGACAATATTTTAAGTCACTTTTGCGGCG
* * * * * * *
27751146 TTTTGTGCAAAAACGCCATTATAAATTAAGAGAAACGGCGCCGTTGGATTAATTTAGAGAAAATG
66 -TTTGTTCAAAAACGCTA-CAAAAATTAACAGAAACGGCGCCGTTGAATTAATATAGAGAAAATG
* *
27751211 CTAAGTTAAAAACTAGTACAGAAACGACGTCGTTTAG-ACAAAATTTTAAGACAATTTTGCAGCG
129 CTAAGTTAAAAACT-GTACAGAAACGGCGTCGTTTAGCA-AAAATTTTAAGACACTTTTGCAGCG
** * * * * *
27751275 CATCCTGAACAAACGCCGCTATTGCTTGTACGTTTACGGCGTTTTCTAAAAAGCGCCACTAAAAT
192 TTTCTTGAACAAACGCCGCTATTGCTTGTACATTTACAGCGTTTTCTAAAAAGAGCCACTAAAAA
* * * *
27751340 TTAAAGTTCTAATCCAAAACGACGCCATTTTATTAAGCTGTAAAGCACATTTTTGGCGTTTTCTG
257 TGAAAGTTCTAATCCAAAACGACGCCATTTTATTAAGATGTAAAGCACATTTCTGGCGTTTTCCG
* *
27751405 ATTAAACGCCAG
322 ATTAAACACCAC
* * * *
27751417 TAAAAATTAATTTGCTTAAGCTAAACGAAGCCGTTTAGGCAATATTTTATGTCACTTTTGTGGCG
1 TAAAAATTAATTTGCTTAAGCTAAACGAAGACGTTTAGACAATATTTTAAGTCACTTTTGCGGCG
* * *
27751482 TTTGGTTTAAAAACGCTACAAAAATTAACAGAAACGGTGTCGTTGAATTAATATAGAGAAAATGC
66 TTT-GTTCAAAAACGCTACAAAAATTAACAGAAACGGCGCCGTTGAATTAATATAGAGAAAATGC
* * * * *
27751547 TAAGTATAAAAGCATGTACAGAGACGGCGCCGTTTAGCAAAAATTTTAAGACACTTTCGCTGCGT
130 TAAGT-TAAAAAC-TGTACAGAAACGGCGTCGTTTAGCAAAAATTTTAAGACACTTTTGCAGCGT
* * ** * **
27751612 TTATTGAACAAACGCCGCTATAGCTTGTGTATTTGCAGCG-TTTCTAGACCAGAGCCAC-AAAGA
193 TTCTTGAACAAACGCCGCTATTGCTTGTACATTTACAGCGTTTTCTA-AAAAGAGCCACTAAA-A
* * ** * * * * *
27751675 ATGAAGGTTCTAATCCGAAACGGTGCCGTTTTGTTAAGATTTAATGCACATTTCTGGTGTTTTCC
256 ATGAAAGTTCTAATCCAAAACGACGCCATTTTATTAAGATGTAAAGCACATTTCTGGCGTTTTCC
27751740 G-TTAAAGCACCAC
321 GATTAAA-CACCAC
* * ** * *
27751753 TAAAAATTAATTTGCTTAAGTTAGACGTCGACGTTTAGCCAATATTTCAAGTCACTTTTGCGGCG
1 TAAAAATTAATTTGCTTAAGCTAAACGAAGACGTTTAGACAATATTTTAAGTCACTTTTGCGGCG
** * * * * ***
27751818 TTTCCTGAACAAACG-TCACGAAAAATTATCATAAATGGCGCCGTTTTGTTAATATAGAGAAAAT
66 TTTGTTCAA-AAACGCT-AC-AAAAATTAACAGAAACGGCGCCGTTGAATTAATATAGAGAAAAT
* * * * * * *
27751882 GCTAAGTTAAAAATCGTGGACAGAAACAGCGTCGTTCAACCAAAATTTTAAGTCACTTTTGCGGC
128 GCTAAGTTAAAAA-C-TGTACAGAAACGGCGTCGTTTAGCAAAAATTTTAAGACACTTTTGCAGC
*
27751947 GTTTCTTGCACAAACGCCGCTATTGCTT
191 GTTTCTTGAACAAACGCCGCTATTGCTT
27751975 AAGCATTAGC
Statistics
Matches: 457, Mismatches: 89, Indels: 22
0.80 0.16 0.04
Matches are distributed among these distances:
335 113 0.25
336 234 0.51
337 110 0.24
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (333 bp):
TAAAAATTAATTTGCTTAAGCTAAACGAAGACGTTTAGACAATATTTTAAGTCACTTTTGCGGCG
TTTGTTCAAAAACGCTACAAAAATTAACAGAAACGGCGCCGTTGAATTAATATAGAGAAAATGCT
AAGTTAAAAACTGTACAGAAACGGCGTCGTTTAGCAAAAATTTTAAGACACTTTTGCAGCGTTTC
TTGAACAAACGCCGCTATTGCTTGTACATTTACAGCGTTTTCTAAAAAGAGCCACTAAAAATGAA
AGTTCTAATCCAAAACGACGCCATTTTATTAAGATGTAAAGCACATTTCTGGCGTTTTCCGATTA
AACACCAC
Found at i:27753675 original size:114 final size:114
Alignment explanation
Indices: 27753496--27753810 Score: 447
Period size: 114 Copynumber: 2.8 Consensus size: 114
27753486 ACTTACCCAT
27753496 AAACGCCACTAAATCCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTATTTTTGCGGCG
1 AAACGCCACTAAAT-CCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTATTTTTGCGGCG
* * *
27753561 CTTTCTCAAAAATGCCGCTAAAGCCCTGGGCATTAG-AGGTGCTTA-ATTAA
65 CTTTCTCAAAAACGCCACTAAAGCCCTGGGCATTAGCA-GCGCTTACA-TAA
* * *
27753611 AAACGCCACTAAATCCCCGAAAGCTCCGAAAATGGTGTCGTTGGGCTTAGGTATTTTTGCGGCGC
1 AAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTATTTTTGCGGCGC
* *
27753676 TTTCTCAAAAACGCCACTAAAGCCCTTGGCATTTGCAGCGCTTACATAA
66 TTTCTCAAAAACGCCACTAAAGCCCTGGGCATTAGCAGCGCTTACATAA
* * * * *
27753725 AAACGCCACTAAATCGCCAAAAGCTCAAAAAACGGCGTCGTTAGGCTGAGGTATTTTTGCGGCGC
1 AAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTATTTTTGCGGCGC
*
27753790 TTAACT-AAAAACGCCACTAAA
66 TT-TCTCAAAAACGCCACTAAA
27753811 TCCGCGAAAA
Statistics
Matches: 180, Mismatches: 17, Indels: 7
0.88 0.08 0.03
Matches are distributed among these distances:
114 162 0.90
115 18 0.10
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (114 bp):
AAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTATTTTTGCGGCGC
TTTCTCAAAAACGCCACTAAAGCCCTGGGCATTAGCAGCGCTTACATAA
Found at i:27753799 original size:73 final size:74
Alignment explanation
Indices: 27753707--27753865 Score: 207
Period size: 74 Copynumber: 2.2 Consensus size: 74
27753697 GCCCTTGGCA
* *
27753707 TTTGCAGCGCTTACATAAAAACGCCACTAAAT-CGCCAAAAGCTCAAAAAACGGCGTCGTTAGGC
1 TTTGCGGCGCTTACATAAAAACGCCACTAAATCCGCCAAAAGCTCAAAAAACAGCGTCGTTAGGC
27753771 TGAGGTATT-
66 TGAGGT-TTC
* * * *
27753780 TTTGCGGCGCTTA-ACTAAAAACGCCACTAAATCCGCGAAAAGCTCAGAAAACAGTGTCGTTGGG
1 TTTGCGGCGCTTACA-TAAAAACGCCACTAAATCCGCCAAAAGCTCAAAAAACAGCGTCGTTAGG
* *
27753844 CTTATGTTTC
65 CTGAGGTTTC
27753854 TTTGCGGCGCTT
1 TTTGCGGCGCTT
27753866 TACCGTAAAT
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
72 1 0.01
73 31 0.41
74 43 0.57
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (74 bp):
TTTGCGGCGCTTACATAAAAACGCCACTAAATCCGCCAAAAGCTCAAAAAACAGCGTCGTTAGGC
TGAGGTTTC
Done.