Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 19 of 170
Found at i:5145513 original size:323 final size:321
Alignment explanation
Indices: 5144656--5145425 Score: 969
Period size: 322 Copynumber: 2.4 Consensus size: 321
5144646 CTGCAAGTTG
** * *
5144656 AAAAAAAGTTAGTAAAACACTCTTTACTTCGGCCATTTGTTCGAATTTTTTCTCGGTATTTTATT
1 AAAAAAAGTTAGTAAAACACTCTTTACTTCGAACATTTGTTCGTATTTTTTCTCGGCATTTTATT
* * * * * **
5144721 ACTTT--AAAAATATCATAATTTTTAATTTTGTAATTTTACATTATTTCAGTGCATTATGTTATT
66 ACTTTAAAAAAATATCAAAATTTCTAAATTTATAATTTTACATTATTTCAGTACATTATGGCATT
* ** *** * * * *
5144784 TCTTTATTAATTTAGTGTGTTTTTTAAATTAATTTAG-TGTAAAAAAATA--CAACTCTTATTCT
131 TCTGTATTAATTTACCGTAAATTTT-AATTAATTTAGAT-TAAAAAAA-ACCCAACCCGTAATCC
** * *
5144846 TGCCCTTTGCTCGTATTATTTTCCAGAATTTTATTACTTCCAAAAAAATATATTATTTTCGTATT
193 CACCATTT-CTCATATTATTTTCCAGAATTTTATTACTTCCAAAAAAATATATTATTTTCGTATT
* *
5144911 TTATTATTTTATATTATTTCATTACATTTTGTTTAAAATTTTTGTATTAATTTTTTCCGAATTTT
257 TTATTATTTTATATTATTTCAGTACATTTTGTTTAAAATTTTTGTATTAATTTTTTCCAAATTTT
5144976 AAAAAAAGTTAGTAAAACACTCTTTACTTCGAACATTTGTTCGTATTTTTTCTCGGCATTTTATT
1 AAAAAAAGTTAGTAAAACACTCTTTACTTCGAACATTTGTTCGTATTTTTTCTCGGCATTTTATT
* * **
5145041 ACTTTAAAAAAATATCAAAATTTCTAAATTTATAATTTTACATTATTTTAGTGCATTATGTTATT
66 ACTTTAAAAAAATATCAAAATTTCTAAATTTATAATTTTACATTATTTCAGTACATTATGGCATT
* * *** *
5145106 TCTTTATTAATTTAGCGTGTTTTTTAAATTAATTTAGTATTAAAAAAAACCCAACCCTTAATCCC
131 TCTGTATTAATTTACCGTAAATTTT-AATTAATTTAG-ATTAAAAAAAACCCAACCCGTAATCCC
* * * *
5145171 GCCCTTTGCTCGTATTATTTTCCCGAATTTTATTACTTCC-AAAAAATATATTATTTTCGTATTT
194 ACCATTT-CTCATATTATTTTCCAGAATTTTATTACTTCCAAAAAAATATATTATTTTCGTATTT
* *
5145235 TATTATTTTATATTATTTCAGTACATTTTTTTTGAAATTTTTGTATTAATTTTTTTTCCAAATTT
258 TATTATTTTATATTATTTCAGTACATTTTGTTTAAAATTTTTGTATTAA--TTTTTTCCAAA-TT
5145300 TT
320 TT
**
5145302 AAAAAAAGTTAGTAAAACACTCTTTACTTCGGCCATTTGTTCGTATTTTTTTCTCGGCATTTTAT
1 AAAAAAAGTTAGTAAAACACTCTTTACTTCGAACATTTGTTCGTA-TTTTTTCTCGGCATTTTAT
*
5145367 TACTTTAAAAAAATAT-AATAATTTCTAATTTTATAATTTTACATTATTTCAGTACATTA
65 TACTTTAAAAAAATATCAA-AATTTCTAAATTTATAATTTTACATTATTTCAGTACATTA
5145426 CTTCGGCCTT
Statistics
Matches: 415, Mismatches: 24, Indels: 15
0.91 0.05 0.03
Matches are distributed among these distances:
320 66 0.16
322 90 0.22
323 78 0.19
324 50 0.12
325 10 0.02
326 49 0.12
327 72 0.17
ACGTcount: A:0.31, C:0.12, G:0.07, T:0.49
Consensus pattern (321 bp):
AAAAAAAGTTAGTAAAACACTCTTTACTTCGAACATTTGTTCGTATTTTTTCTCGGCATTTTATT
ACTTTAAAAAAATATCAAAATTTCTAAATTTATAATTTTACATTATTTCAGTACATTATGGCATT
TCTGTATTAATTTACCGTAAATTTTAATTAATTTAGATTAAAAAAAACCCAACCCGTAATCCCAC
CATTTCTCATATTATTTTCCAGAATTTTATTACTTCCAAAAAAATATATTATTTTCGTATTTTAT
TATTTTATATTATTTCAGTACATTTTGTTTAAAATTTTTGTATTAATTTTTTCCAAATTTT
Found at i:5145690 original size:21 final size:20
Alignment explanation
Indices: 5145656--5145694 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
5145646 TTGCCCAATA
5145656 CACCTAAACAAACCCAAACC
1 CACCTAAACAAACCCAAACC
*
5145676 CACCTAAAACTAACCCAAA
1 CACCT-AAACAAACCCAAA
5145695 TACAGCCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.51, C:0.41, G:0.00, T:0.08
Consensus pattern (20 bp):
CACCTAAACAAACCCAAACC
Found at i:5146725 original size:20 final size:20
Alignment explanation
Indices: 5146689--5146727 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
5146679 GTAGCATTTT
*
5146689 TATTATTTTGTTCATTATTC
1 TATTATTTTATTCATTATTC
5146709 TATTATTATTATT-ATTATT
1 TATTATT-TTATTCATTATT
5146728 ATTATCATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.67
Consensus pattern (20 bp):
TATTATTTTATTCATTATTC
Found at i:5146732 original size:12 final size:11
Alignment explanation
Indices: 5146688--5146730 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
5146678 TGTAGCATTT
*
5146688 TTATTATTTTG
1 TTATTATTTTA
*
5146699 TTCATTATTCTA
1 TT-ATTATTTTA
5146711 TTATTATTATTA
1 TTATTATT-TTA
5146723 TTATTATT
1 TTATTATT
5146731 ATCATCGTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
11 8 0.30
12 19 0.70
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:5147803 original size:109 final size:111
Alignment explanation
Indices: 5147612--5147917 Score: 492
Period size: 109 Copynumber: 2.8 Consensus size: 111
5147602 GGAAAATATT
* * *
5147612 TTAAAATAAGGTAATGTTTTGCGTTTAGAAATTCGAGAAAACATGGCCTAAGGTGCTGGGTGTCG
1 TTAAAATAAGGCAATGTTTTGCGTTTAGAAATTCGAGAAAACATGCCCTAAGGTGCTTGGTGTCG
5147677 ATTTTTCTCATTCAACCAAAGGGCTTAATAT-CATTTT-AAAAATA
66 ATTTTTCTCATTCAACCAAAGGGCTTAATATCCATTTTAAAAAATA
* *
5147721 TTAAAATAAGGCAATGTTTTGCATTTAGAAATTCGAGAAAATATGCCCTAAGGTGCTTGGTGTCG
1 TTAAAATAAGGCAATGTTTTGCGTTTAGAAATTCGAGAAAACATGCCCTAAGGTGCTTGGTGTCG
* *
5147786 ATTTTTCTCATTCAACCAAATGGCTTAATATCCTTTTTAAAAAATA
66 ATTTTTCTCATTCAACCAAAGGGCTTAATATCCATTTTAAAAAATA
*
5147832 TTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTG-TTGGGTGT
1 TT-AAAATAAGGCAATGTTTTGCGTTTAGAAATTCGAGAAAACATGCCCTAAGGTGCTT-GGTGT
*
5147896 CGATTTTTCTCATTTAACCAAA
64 CGATTTTTCTCATTCAACCAAA
5147918 TTGCCAAAAT
Statistics
Matches: 182, Mismatches: 11, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
109 90 0.49
110 5 0.03
111 11 0.06
112 76 0.42
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (111 bp):
TTAAAATAAGGCAATGTTTTGCGTTTAGAAATTCGAGAAAACATGCCCTAAGGTGCTTGGTGTCG
ATTTTTCTCATTCAACCAAAGGGCTTAATATCCATTTTAAAAAATA
Found at i:5148776 original size:14 final size:14
Alignment explanation
Indices: 5148757--5148843 Score: 76
Period size: 14 Copynumber: 6.5 Consensus size: 14
5148747 CCTTTCCTTG
5148757 TCTTTCCTTCTTTT
1 TCTTTCCTTCTTTT
5148771 TCTTTCCTTCTTTT
1 TCTTTCCTTCTTTT
* * *
5148785 TCTTTCTTTCCTCT
1 TCTTTCCTTCTTTT
*
5148799 CCTTTCCTT-TTCTT
1 TCTTTCCTTCTT-TT
5148813 TCTTT--TTC--TT
1 TCTTTCCTTCTTTT
* *
5148823 TCTTTCTTTCTTCT
1 TCTTTCCTTCTTTT
5148837 TCTTTCC
1 TCTTTCC
5148844 ATCTCCTTCT
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
10 7 0.12
12 5 0.09
13 1 0.02
14 44 0.77
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (14 bp):
TCTTTCCTTCTTTT
Found at i:5148807 original size:52 final size:52
Alignment explanation
Indices: 5148744--5148842 Score: 146
Period size: 52 Copynumber: 1.9 Consensus size: 52
5148734 TTTGTTCTCT
*
5148744 TCTCCTTTCCTTGTCTTTCCTTCTT-TTTCTTTCCTTCTTTTTCTTTCTTTCC
1 TCTCCTTTCCTTGTCTTT-CTTCTTCTTTCTTTCCTTCTTCTTCTTTCTTTCC
* * *
5148796 TCTCCTTTCCTTTTCTTTCTTTTTCTTTCTTTCTTTCTTCTTCTTTC
1 TCTCCTTTCCTTGTCTTTCTTCTTCTTTCTTTCCTTCTTCTTCTTTC
5148843 CATCTCCTTC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 5 0.12
52 37 0.88
ACGTcount: A:0.00, C:0.31, G:0.01, T:0.68
Consensus pattern (52 bp):
TCTCCTTTCCTTGTCTTTCTTCTTCTTTCTTTCCTTCTTCTTCTTTCTTTCC
Found at i:5148810 original size:38 final size:38
Alignment explanation
Indices: 5148768--5148843 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 38
5148758 CTTTCCTTCT
5148768 TTTTCTTTCCTTCTT-TTTCTTTCTTTCCTCTCCTTTCC
1 TTTTCTTT-CTTCTTCTTTCTTTCTTTCCTCTCCTTTCC
* * *
5148806 TTTTCTTTCTTTTTCTTTCTTTCTTTCTTCTTCTTTCC
1 TTTTCTTTCTTCTTCTTTCTTTCTTTCCTCTCCTTTCC
5148844 ATCTCCTTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 5 0.15
38 29 0.85
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (38 bp):
TTTTCTTTCTTCTTCTTTCTTTCTTTCCTCTCCTTTCC
Found at i:5148821 original size:34 final size:32
Alignment explanation
Indices: 5148757--5148828 Score: 99
Period size: 34 Copynumber: 2.2 Consensus size: 32
5148747 CCTTTCCTTG
* *
5148757 TCTTTCCTTCTTTTTCTTTCCTTCTTTTTCTT
1 TCTTTCCTTCCTTTCCTTTCCTTCTTTTTCTT
*
5148789 TCTTTCCTCTCCTTTCCTTTTCTTTCTTTTTCTT
1 TCTTTCCT-TCCTTTCC-TTTCCTTCTTTTTCTT
5148823 TCTTTC
1 TCTTTC
5148829 TTTCTTCTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
32 8 0.23
33 6 0.17
34 21 0.60
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (32 bp):
TCTTTCCTTCCTTTCCTTTCCTTCTTTTTCTT
Found at i:5151316 original size:109 final size:110
Alignment explanation
Indices: 5151119--5151432 Score: 495
Period size: 109 Copynumber: 2.8 Consensus size: 110
5151109 TCAAAAAAGG
*
5151119 AAAATATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
1 AAAAT-TTTTAAAATAAGACAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
5151184 GGGTGTCGATTTTTCTCATTCAACCAAAGGGCTTAATATCCTTTT-
65 GGGTGTCGATTTTTCTCATTCAACCAAAGGGCTTAATATCCTTTTA
* * * *
5151229 AAAATTTTTAAAATAAGTCAATGTTTTGCATTTGGAAATTCGAGAAAACATACTCTAAGGTGCTG
1 AAAATTTTTAAAATAAGACAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
* *
5151294 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAA
66 GGTGTCGATTTTTCTCATTCAACCAAAGGGCTTAATATCCTTTT--A
* * *
5151341 AAAATGTTCAAAATAAGACAATGTTTTGTGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
1 AAAATTTTTAAAATAAGACAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
*
5151406 GGTGTCGATTTTTCTCATTTAACCAAA
66 GGTGTCGATTTTTCTCATTCAACCAAA
5151433 TTGCCAAAAT
Statistics
Matches: 186, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
109 98 0.53
110 5 0.03
112 83 0.45
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (110 bp):
AAAATTTTTAAAATAAGACAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
GGTGTCGATTTTTCTCATTCAACCAAAGGGCTTAATATCCTTTTA
Found at i:5155482 original size:18 final size:18
Alignment explanation
Indices: 5155458--5155493 Score: 63
Period size: 18 Copynumber: 1.9 Consensus size: 18
5155448 AAATATTTCA
5155458 AAAAAAAAGACAAAAAAAC
1 AAAAAAAA-ACAAAAAAAC
5155477 AAAAAAAAACAAAAAAA
1 AAAAAAAAACAAAAAAA
5155494 AAGAGAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.89, C:0.08, G:0.03, T:0.00
Consensus pattern (18 bp):
AAAAAAAAACAAAAAAAC
Found at i:5155495 original size:11 final size:10
Alignment explanation
Indices: 5155456--5155495 Score: 62
Period size: 10 Copynumber: 4.0 Consensus size: 10
5155446 AAAAATATTT
5155456 CAAAAAAAAA
1 CAAAAAAAAA
* *
5155466 GACAAAAAAA
1 CAAAAAAAAA
5155476 CAAAAAAAAA
1 CAAAAAAAAA
5155486 CAAAAAAAAA
1 CAAAAAAAAA
5155496 GAGAAGAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.88, C:0.10, G:0.03, T:0.00
Consensus pattern (10 bp):
CAAAAAAAAA
Found at i:5155531 original size:12 final size:12
Alignment explanation
Indices: 5155491--5155533 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
5155481 AAAAACAAAA
5155491 AAAAAG-AGAAG
1 AAAAAGAAGAAG
*
5155502 AATAAGAAGAAG
1 AAAAAGAAGAAG
*
5155514 AGAAAGAAGAAG
1 AAAAAGAAGAAG
5155526 AAAAAGAA
1 AAAAAGAA
5155534 AAAAAGGGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
11 5 0.19
12 22 0.81
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (12 bp):
AAAAAGAAGAAG
Found at i:5156926 original size:45 final size:44
Alignment explanation
Indices: 5156796--5158679 Score: 514
Period size: 44 Copynumber: 43.0 Consensus size: 44
5156786 ATGAAGTTGC
* * * *
5156796 AGATCTTGCCTTCCTACATTGACAGCGAAGCAGGTCAAAGACTCA
1 AGATCTTGCCTTCCTGCATTGACGGCGAAGCAGGTCGAAGAC-AA
* * * * * * *
5156841 A-ACCTTGCC-TCTCT-CAGTTG-TGGTGGAGCTGGTTGAAGACAGC
1 AGATCTTGCCTTC-CTGCA-TTGACGGCGAAGCAGGTCGAAGACA-A
*
5156884 AGATCTTGCCTTCCTGCATTGACGGCGAAGCAGATCGAAGACATA
1 AGATCTTGCCTTCCTGCATTGACGGCGAAGCAGGTCGAAGACA-A
* ** * * *
5156929 A-ACCTTGCC-TCTCTCGGTTGTGA-TG-G-AGCTGGTTGAAGACAAA
1 AGATCTTGCCTTC-CT-GCAT-TGACGGCGAAGCAGGTCGAAGAC-AA
5156972 AGATCTTGCCTTCCTGCATTGACGGCGAAGCAGGTCGAAGAC-A
1 AGATCTTGCCTTCCTGCATTGACGGCGAAGCAGGTCGAAGACAA
* ** ** * * *
5157015 A-ACCTT-CCCACTCTCGGTTGTGA-TG-G-AGCTGGTTGAAGACAAA
1 AGATCTTGCCTTC-CT-GCAT-TGACGGCGAAGCAGGTCGAAGAC-AA
* * *
5157058 AGATCTTGCCTTCTTGCATTGACAGCGAAGTAGGTCGAAGACACA
1 AGATCTTGCCTTCCTGCATTGACGGCGAAGCAGGTCGAAGACA-A
* ** * * * *
5157103 A-ACCTTGCC-TCTCTCGGTTGTGA-TG-G-AGCTGGTTGAAGATAAA
1 AGATCTTGCCTTC-CT-GCAT-TGACGGCGAAGCAGGTCGAAGA-CAA
*
5157146 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACA
1 AGATCTTGCCTTCCTGCATTGACGGCGAAGCAGGTCGAAGACA-A
* * ** * * *
5157191 A-ACCTTGCC-TCTCT-CGATTG-TGATGGAGCTGGTTGAAGACAAA
1 AGATCTTGCCTTC-CTGC-ATTGACGGCGAAGCAGGTCGAAGAC-AA
*
5157234 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACA
1 AGATCTTGCCTTCCTGCATTGACGGCGAAGCAGGTCGAAGACA-A
* * ** * * * *
5157279 A-ACCTTG-CGTCTCTCGGTTGTGA-TG-G-AGCTGGTTGAAAACAAA
1 AGATCTTGCCTTC-CT-GCAT-TGACGGCGAAGCAGGTCGAAGAC-AA
*
5157322 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACA
1 AGATCTTGCCTTCCTGCATTGACGGCGAAGCAGGTCGAAGACA-A
* * ** * * *
5157367 A-ACCTTG-CGTCTCTCGGTTGTGATGGC---GCTGGTTGAAGACAAA
1 AGATCTTGCCTTC-CT-GCAT-TGACGGCGAAGCAGGTCGAAGAC-AA
* * *
5157410 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCAAAAACACA
1 AGATCTTGCCTTCCTGCATTGACGGCGAAGCAGGTCGAAGACA-A
* * ** * * *
5157455 A-ACCTTGCC-TCTCT-CAGTTG-TGATGGAGCTGGTTGAAGACAA
1 AGATCTTGCCTTC-CTGCA-TTGACGGCGAAGCAGGTCGAAGACAA
* *
5157497 AGGTCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACA
1 AGATCTTGCCTTCCTGCATTGACGGCGAAGCAGGTCGAAGACA-A
* * ** * * *
5157542 A-ACCTTG-CGTCTCTCGGTTGTGA-TG-G-AGCTGGTTGAAGACAAA
1 AGATCTTGCCTTC-CT-GCAT-TGACGGCGAAGCAGGTCGAAGAC-AA
* *
5157585 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTTGAAGACACA
1 AGATCTTGCCTTCCTGCATTGACGGCGAAGCAGGTCGAAGACA-A
* * ** * * *
5157630 A-ACCTTGCC-TCTCT-CAGTTG-TGATGGAGCTGGTTGAAGACAAA
1 AGATCTTGCCTTC-CTGCA-TTGACGGCGAAGCAGGTCGAAGAC-AA
* *
5157673 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTTGAAGACACA
1 AGATCTTGCCTTCCTGCATTGACGGCGAAGCAGGTCGAAGACA-A
* ** * * *
5157718 A-ACCTTGCC-TCTCTCGGTTGTGA-TG-G-AGCTGGTTGAAGACAAA
1 AGATCTTGCCTTC-CT-GCAT-TGACGGCGAAGCAGGTCGAAGAC-AA
*
5157761 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACA
1 AGATCTTGCCTTCCTGCATTGACGGCGAAGCAGGTCGAAGACA-A
* * * * * * *
5157806 A-ACCTTGCC-TCACT-CGGTT-ATGGTGCAGCTGGTTGAAGACAA
1 AGATCTTGCCTTC-CTGC-ATTGACGGCGAAGCAGGTCGAAGACAA
*
5157848 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGAC-A
1 -AGATCTTGCCTTCCTGCATTGACGGCGAAGCAGGTCGAAGACAA
* ** ** * * *
5157892 A-ACCTT-CCCACTCTCGGTTGTGA-TG-G-AGCTGGTTGAAGACAAA
1 AGATCTTGCCTTC-CT-GCAT-TGACGGCGAAGCAGGTCGAAGAC-AA
* *
5157935 AGATCTTGCCTTCCTGCATTGACAGCGAAGCTGGTCGAAGACACA
1 AGATCTTGCCTTCCTGCATTGACGGCGAAGCAGGTCGAAGACA-A
* ** * * *
5157980 A-ACCTTGCC-TCTCTCGGTTGTGA-TG-G-AGCTGGTTGAAGACAAA
1 AGATCTTGCCTTC-CT-GCAT-TGACGGCGAAGCAGGTCGAAGAC-AA
* * * *
5158023 AGATCTTACCTTCCTACATTGACAGCGAAGCAGGTCGAAGACAC
1 AGATCTTGCCTTCCTGCATTGACGGCGAAGCAGGTCGAAGACAA
* * ** * * *
5158067 A-ATCCTT-TCGTCTCTCGGTTGTGA-TG-G-AGCTGGTTGAAGACAAA
1 AGAT-CTTGCCTTC-CT-GCAT-TGACGGCGAAGCAGGTCGAAGAC-AA
*
5158111 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACA
1 AGATCTTGCCTTCCTGCATTGACGGCGAAGCAGGTCGAAGACA-A
* * * * ** * *
5158156 A-ACCTTG-CGTCTCT-CGGTTG--TGATAGAGCTGGTTGAAGACAAA
1 AGATCTTGCCTTC-CTGC-ATTGACGGCGA-AGCAGGTCGAAGAC-AA
*
5158199 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACA
1 AGATCTTGCCTTCCTGCATTGACGGCGAAGCAGGTCGAAGACA-A
* ** * * *
5158244 A-ACCTTGCC-TCTCTCGGTTGTGA-TG-G-AGCTGGTTGAAGACAA
1 AGATCTTGCCTTC-CT-GCAT-TGACGGCGAAGCAGGTCGAAGACAA
* * *
5158286 AGGTCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCCAAGACACA
1 AGATCTTGCCTTCCTGCATTGACGGCGAAGCAGGTCGAAGACA-A
* ** * * *
5158331 A-ACCTTGCC-TCTCTCGGTTGTGA-TG-G-AGCTGGTTGAAGACAA
1 AGATCTTGCCTTC-CT-GCAT-TGACGGCGAAGCAGGTCGAAGACAA
* *
5158373 AGGTCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACA
1 AGATCTTGCCTTCCTGCATTGACGGCGAAGCAGGTCGAAGACA-A
* * ** * * * *
5158418 A-ACCTTG-CATCTCTCGGTTGTGA-TG-G-AGCTGGTTGAAGATAAA
1 AGATCTTGCCTTC-CT-GCAT-TGACGGCGAAGCAGGTCGAAGA-CAA
* *
5158461 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAGGACACA
1 AGATCTTGCCTTCCTGCATTGACGGCGAAGCAGGTCGAAGACA-A
* ** * * *
5158506 A-ACCTTGCC-TCTCTCGGTTGTGA-TG-G-AGCTGGTTGAAGACAAA
1 AGATCTTGCCTTC-CT-GCAT-TGACGGCGAAGCAGGTCGAAGAC-AA
* * * *
5158549 AGATCTTGCATTCCTGCATTGACAGCGAAGTAGGTCAAAGACACA
1 AGATCTTGCCTTCCTGCATTGACGGCGAAGCAGGTCGAAGACA-A
* * * * * *
5158594 A-ACCTTGCC-TCACT-CGATT-ATGGTGCAGCTGGTTGAAGACAA
1 AGATCTTGCCTTC-CTGC-ATTGACGGCGAAGCAGGTCGAAGACAA
** *
5158636 CAGATCTTGCCTTCCTGCATTGACAACGAAGCAGATCGAAGACA
1 -AGATCTTGCCTTCCTGCATTGACGGCGAAGCAGGTCGAAGACA
5158680 CAAACCTTGC
Statistics
Matches: 1313, Mismatches: 333, Indels: 386
0.65 0.16 0.19
Matches are distributed among these distances:
41 36 0.03
42 68 0.05
43 393 0.30
44 435 0.33
45 341 0.26
46 40 0.03
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (44 bp):
AGATCTTGCCTTCCTGCATTGACGGCGAAGCAGGTCGAAGACAA
Found at i:5156943 original size:88 final size:88
Alignment explanation
Indices: 5156796--5158779 Score: 3232
Period size: 88 Copynumber: 22.6 Consensus size: 88
5156786 ATGAAGTTGC
* * * *
5156796 AGATCTTGCCTTCCTACATTGACAGCGAAGCAGGTCAAAGACTCAAACCTTGCCTCTCTCAGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
* **
5156861 TGGTGGAGCTGGTTGAAGACAGC
66 TGATGGAGCTGGTTGAAGACAAA
* * *
5156884 AGATCTTGCCTTCCTGCATTGACGGCGAAGCAGATCGAAGACATAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
5156949 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* * *
5156972 AGATCTTGCCTTCCTGCATTGACGGCGAAGCAGGTCGAAG--ACAAACCTTCCCACTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
5157035 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* *
5157058 AGATCTTGCCTTCTTGCATTGACAGCGAAGTAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
*
5157123 TGATGGAGCTGGTTGAAGATAAA
66 TGATGGAGCTGGTTGAAGACAAA
*
5157146 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
5157211 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
*
5157234 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCGTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
*
5157299 TGATGGAGCTGGTTGAAAACAAA
66 TGATGGAGCTGGTTGAAGACAAA
*
5157322 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCGTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
*
5157387 TGATGGCGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* * *
5157410 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCAAAAACACAAACCTTGCCTCTCTCAGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
5157475 TGATGGAGCTGGTTGAAGAC-AA
66 TGATGGAGCTGGTTGAAGACAAA
* *
5157497 AGGTCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCGTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
5157562 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* *
5157585 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTTGAAGACACAAACCTTGCCTCTCTCAGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
5157650 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
*
5157673 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTTGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
5157738 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* *
5157761 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCACTCGGTTA
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
* * *
5157826 TGGTGCAGCTGGTTGAAGACAAC
66 TGATGGAGCTGGTTGAAGACAAA
* *
5157849 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAG--ACAAACCTTCCCACTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
5157912 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
*
5157935 AGATCTTGCCTTCCTGCATTGACAGCGAAGCTGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
5158000 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* * * * *
5158023 AGATCTTACCTTCCTACATTGACAGCGAAGCAGGTCGAAGACACAATCCTTTCGTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
5158088 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
*
5158111 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCGTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
*
5158176 TGATAGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
5158199 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
5158264 TGATGGAGCTGGTTGAAGAC-AA
66 TGATGGAGCTGGTTGAAGACAAA
* *
5158286 AGGTCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCCAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
5158351 TGATGGAGCTGGTTGAAGAC-AA
66 TGATGGAGCTGGTTGAAGACAAA
* *
5158373 AGGTCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCATCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
*
5158438 TGATGGAGCTGGTTGAAGATAAA
66 TGATGGAGCTGGTTGAAGACAAA
*
5158461 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAGGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
5158526 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* * * * * *
5158549 AGATCTTGCATTCCTGCATTGACAGCGAAGTAGGTCAAAGACACAAACCTTGCCTCACTCGATTA
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
* * *
5158614 TGGTGCAGCTGGTTGAAGACAAC
66 TGATGGAGCTGGTTGAAGACAAA
* * **
5158637 AGATCTTGCCTTCCTGCATTGACAACGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCAATTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
* * * * *
5158702 -CAGTGGAGCTGGATAAAGATAAC
66 TGA-TGGAGCTGGTTGAAGACAAA
* * * *
5158725 AGATCTTGCATTCCTGCGTTAACAGCGAAGCAGATCGAA-A-ACAAAGCCTTGCCTC
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAA-CCTTGCCTC
5158780 CCTAAGCGGT
Statistics
Matches: 1778, Mismatches: 110, Indels: 17
0.93 0.06 0.01
Matches are distributed among these distances:
86 163 0.09
87 261 0.15
88 1354 0.76
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (88 bp):
AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
TGATGGAGCTGGTTGAAGACAAA
Found at i:5158777 original size:438 final size:438
Alignment explanation
Indices: 5156796--5158779 Score: 3229
Period size: 438 Copynumber: 4.5 Consensus size: 438
5156786 ATGAAGTTGC
* * * *
5156796 AGATCTTGCCTTCCTACATTGACAGCGAAGCAGGTCAAAGACTCAAACCTTGCCTCTCTCAGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
* ** * *
5156861 TGGTGGAGCTGGTTGAAGACAGCAGATCTTGCCTTCCTGCATTGACGGCGAAGCAGATCGAAGAC
66 TGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGAC
*
5156926 ATAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCAT
131 ACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCAT
* * * *
5156991 TGACGGCGAAGCAGGTCGAAGACAAACCTTCCCACTCTCGGTTGTGATGGAGCTGGTTGAAGACA
196 TGACAGCGAAGCAGGTCGAAAACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACA
* *
5157056 AAAGATCTTGCCTTCTTGCATTGACAGCGAAGTAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
261 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
*
5157121 TGTGATGGAGCTGGTTGAAGATAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAG
326 TGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAG
*
5157186 ACACAAACCTTGCCTCTCTCGATTGTGATGGAGCTGGTTGAAGACAAA
391 ACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAA
*
5157234 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCGTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
*
5157299 TGATGGAGCTGGTTGAAAACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGAC
66 TGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGAC
* *
5157364 ACAAACCTTGCGTCTCTCGGTTGTGATGGCGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCAT
131 ACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCAT
* *
5157429 TGACAGCGAAGCAGGTCAAAAACACAAACCTTGCCTCTCTCAGTTGTGATGGAGCTGGTTGAAGA
196 TGACAGCGAAGCAGGTC-GAAA-ACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGA
* *
5157494 C-AAAGGTCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCGTCTCTCG
259 CAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCG
*
5157558 GTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTTGA
324 GTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGA
*
5157623 AGACACAAACCTTGCCTCTCTCAGTTGTGATGGAGCTGGTTGAAGACAAA
389 AGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAA
*
5157673 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTTGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
5157738 TGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGAC
66 TGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGAC
* * * * *
5157803 ACAAACCTTGCCTCACTCGGTTATGGTGCAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCAT
131 ACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCAT
* * *
5157868 TGACAGCGAAGCAGGTCGAAGACAAACCTTCCCACTCTCGGTTGTGATGGAGCTGGTTGAAGACA
196 TGACAGCGAAGCAGGTCGAAAACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACA
*
5157933 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCTGGTCGAAGACACAAACCTTGCCTCTCTCGGT
261 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
* *
5157998 TGTGATGGAGCTGGTTGAAGACAAAAGATCTTACCTTCCTACATTGACAGCGAAGCAGGTCGAAG
326 TGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAG
* * *
5158063 ACACAATCCTTTCGTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAA
391 ACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAA
*
5158111 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCGTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
*
5158176 TGATAGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGAC
66 TGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGAC
*
5158241 ACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGAC-AAAGGTCTTGCCTTCCTGCAT
131 ACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCAT
*
5158305 TGACAGCGAAGCAGGTCCAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGA
196 TGACAGCGAAGCAGGTCGAA-A-ACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGA
* *
5158370 C-AAAGGTCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCATCTCTCG
259 CAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCG
*
5158434 GTTGTGATGGAGCTGGTTGAAGATAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGA
324 GTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGA
*
5158499 GGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAA
389 AGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAA
* * * * * *
5158549 AGATCTTGCATTCCTGCATTGACAGCGAAGTAGGTCAAAGACACAAACCTTGCCTCACTCGATTA
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
* * * * *
5158614 TGGTGCAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCATTGACAACGAAGCAGATCGAAGAC
66 TGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGAC
** * * * * * * *
5158679 ACAAACCTTGCCTCTCTCAATTG-CAGTGGAGCTGGATAAAGATAACAGATCTTGCATTCCTGCG
131 ACAAACCTTGCCTCTCTCGGTTGTGA-TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCA
* *
5158743 TTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTC
195 TTGACAGCGAAGCAGGTCGAAAACAAA-CCTTGCCTC
5158780 CCTAAGCGGT
Statistics
Matches: 1436, Mismatches: 102, Indels: 16
0.92 0.07 0.01
Matches are distributed among these distances:
437 84 0.06
438 863 0.60
439 449 0.31
440 40 0.03
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (438 bp):
AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
TGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGAC
ACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCAT
TGACAGCGAAGCAGGTCGAAAACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACA
AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
TGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAG
ACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAA
Found at i:5160309 original size:3 final size:3
Alignment explanation
Indices: 5160280--5160327 Score: 55
Period size: 3 Copynumber: 16.3 Consensus size: 3
5160270 TGTAGCATTT
* *
5160280 TTA TTA TT- TTG TTCA TTA TT- CTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
5160324 TTA T
1 TTA T
5160328 CATCGTATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
2 3 0.08
3 34 0.87
4 2 0.05
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:5161465 original size:112 final size:109
Alignment explanation
Indices: 5161210--5161513 Score: 457
Period size: 112 Copynumber: 2.8 Consensus size: 109
5161200 AAAATATTTT
* * * * *
5161210 AAAATAAGGCAATGTTTTGCGTTTGAAAATTCAAGAAAACATGCCCTAAAGTACTGGGTATC-AT
1 AAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGAT
* * *
5161274 TTTTCTCGTTCAACCAAAGGGCTTAATATCCTTTTAAAATTTTT
66 TTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAATGTTC
* * *
5161318 AAAATAAGGCAATGTTTTACGTTTGGAAATTCGAGAAAATATGCCCTAAGGTGTTGGGTGTCGAT
1 AAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGAT
5161383 TTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAAAATGTTC
66 TTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT---AAAATGTTC
5161430 AAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGAT
1 AAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGAT
* *
5161495 TTTTCTCATTTAACCAAAT
66 TTTTCTCGTTCAACCAAAT
5161514 TGCCAAAATA
Statistics
Matches: 176, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
108 54 0.31
109 36 0.20
112 86 0.49
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (109 bp):
AAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGAT
TTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAATGTTC
Found at i:5162388 original size:38 final size:38
Alignment explanation
Indices: 5162342--5162427 Score: 111
Period size: 38 Copynumber: 2.3 Consensus size: 38
5162332 TTTGTTCTCT
5162342 TCTCCTTTCCTTGTCTTTCCTTCTT-TTTCATTCTTTCC
1 TCTCCTTTCCTTGTCTTT-CTTCTTCTTTCATTCTTTCC
* * * *
5162380 TCTCCTTTCCTTTTCTTTCTTTTTCTTTCTTTCTTTCT
1 TCTCCTTTCCTTGTCTTTCTTCTTCTTTCATTCTTTCC
*
5162418 TCTTCTTTCC
1 TCTCCTTTCC
5162428 ATCTCCTTCT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
37 5 0.12
38 37 0.88
ACGTcount: A:0.01, C:0.33, G:0.01, T:0.65
Consensus pattern (38 bp):
TCTCCTTTCCTTGTCTTTCTTCTTCTTTCATTCTTTCC
Found at i:5162408 original size:14 final size:15
Alignment explanation
Indices: 5162391--5162426 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
5162381 CTCCTTTCCT
5162391 TTTCTTTCTTT-TTC
1 TTTCTTTCTTTCTTC
5162405 TTTCTTTCTTTCTTC
1 TTTCTTTCTTTCTTC
5162420 -TTCTTTC
1 TTTCTTTC
5162427 CATCTCCTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 18 0.86
15 3 0.14
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTCTTTCTTTCTTC
Found at i:5162423 original size:18 final size:18
Alignment explanation
Indices: 5162320--5162426 Score: 81
Period size: 18 Copynumber: 5.6 Consensus size: 18
5162310 CCCTGTTCTC
* *
5162320 CTTCTTTCTTTTTTTGTTCT
1 CTTC-TTCTTTCTTTCTT-T
*
5162340 CTTCTCCTTTCCTTGTCTTT
1 CTTCTTCTTT-CTT-TCTTT
*
5162360 CCTTCTT-TTTCATTCTTT
1 -CTTCTTCTTTCTTTCTTT
* *
5162378 CCTCTCCTTTCCTTTTCTTT
1 CTTCTTCTTT-C-TTTCTTT
*
5162398 CTTTTTCTTTCTTTCTTT
1 CTTCTTCTTTCTTTCTTT
5162416 CTTCTTCTTTC
1 CTTCTTCTTTC
5162427 CATCTCCTTC
Statistics
Matches: 69, Mismatches: 12, Indels: 14
0.73 0.13 0.15
Matches are distributed among these distances:
17 4 0.06
18 25 0.36
19 9 0.13
20 23 0.33
21 8 0.12
ACGTcount: A:0.01, C:0.30, G:0.02, T:0.67
Consensus pattern (18 bp):
CTTCTTCTTTCTTTCTTT
Found at i:5163545 original size:40 final size:36
Alignment explanation
Indices: 5163485--5163570 Score: 93
Period size: 40 Copynumber: 2.3 Consensus size: 36
5163475 AAATTAGTAT
* * *
5163485 TATTATTATGGTTAGTTATTATTTTTAGTA-AAACCC
1 TATTATTATTGTTAGTTATTATTTTGAGTATAAA-AC
5163521 TAATTATTATTGTTAGTTACTATTATTTTGAGTATAAAAC
1 T-ATTATTATTGTTAG-T--TATTATTTTGAGTATAAAAC
5163561 TATTATTATT
1 TATTATTATT
5163571 TTTATTGTGT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
36 1 0.02
37 13 0.31
38 1 0.02
39 9 0.21
40 15 0.36
41 3 0.07
ACGTcount: A:0.33, C:0.06, G:0.09, T:0.52
Consensus pattern (36 bp):
TATTATTATTGTTAGTTATTATTTTGAGTATAAAAC
Found at i:5165879 original size:3 final size:3
Alignment explanation
Indices: 5165871--5165906 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
5165861 GCTATGATTT
*
5165871 TTA TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
5165907 CTACCACTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:5167998 original size:19 final size:20
Alignment explanation
Indices: 5167958--5168001 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
5167948 GTCTCTTTTC
* *
5167958 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
5167977 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
5167996 GCATTA
1 GCATTA
5168002 AACACCTCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:5170866 original size:6 final size:7
Alignment explanation
Indices: 5170843--5170877 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
5170833 AAAAGTGATG
5170843 TGAAAAA
1 TGAAAAA
5170850 TGAAAAGA
1 TGAAAA-A
5170858 TG-AAAA
1 TGAAAAA
5170864 TGAAAAA
1 TGAAAAA
5170871 TGAAAAA
1 TGAAAAA
5170878 GTAAAAATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 3 0.12
7 20 0.77
8 3 0.12
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (7 bp):
TGAAAAA
Found at i:5170884 original size:21 final size:21
Alignment explanation
Indices: 5170843--5170885 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
5170833 AAAAGTGATG
*
5170843 TGAAAAATGAAAAGATGAAAA
1 TGAAAAATGAAAAGATAAAAA
5170864 TGAAAAATGAAAA-AGTAAAAA
1 TGAAAAATGAAAAGA-TAAAAA
5170885 T
1 T
5170886 CGAGAGGCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.67, C:0.00, G:0.16, T:0.16
Consensus pattern (21 bp):
TGAAAAATGAAAAGATAAAAA
Found at i:5172163 original size:89 final size:89
Alignment explanation
Indices: 5172042--5172503 Score: 762
Period size: 89 Copynumber: 5.2 Consensus size: 89
5172032 GAGTAGGTTG
* *
5172042 AAAGATAACAGATCTTGCCTTCCCATACTGGTGGTGAGGTAGATCGAAGAAAGCAGATCTTGTCT
1 AAAGATAACAGATCTTGCCTTCCCATACTGGTGGTGAAGCAGATCGAAGAAAGCAGATCTTGTCT
*
5172107 TCATGTACTGGCGTGAACTAGATC
66 TCATGTACTGGCGTGAAGTAGATC
* * * *
5172131 AGAGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTCT
1 AAAGATAACAGATCTTGCCTTCCCATACTGGTGGTGAAGCAGATCGAAGAAAGCAGATCTTGTCT
5172196 TCATGTACTGGCGTGAAGTAGATC
66 TCATGTACTGGCGTGAAGTAGATC
* *
5172220 AAAGATAACAGATCTTCCCTTTCCATACTGGTGGTGAAGCAGATCGAAGAAAGCAGATCTTGTCT
1 AAAGATAACAGATCTTGCCTTCCCATACTGGTGGTGAAGCAGATCGAAGAAAGCAGATCTTGTCT
5172285 TCATGTACTGGCGTGAAGTAGATC
66 TCATGTACTGGCGTGAAGTAGATC
* * * * *
5172309 AAAGATACCAGATCTTGTCTCCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTCT
1 AAAGATAACAGATCTTGCCTTCCCATACTGGTGGTGAAGCAGATCGAAGAAAGCAGATCTTGTCT
5172374 TCATGTACTGGCGTGAAGTAGATC
66 TCATGTACTGGCGTGAAGTAGATC
*
5172398 AACGATAACAGATCTTGCCTTCCCATACTGGTGGTGAAGCAGATCGAAGAAAGCAGATCTTGTCT
1 AAAGATAACAGATCTTGCCTTCCCATACTGGTGGTGAAGCAGATCGAAGAAAGCAGATCTTGTCT
5172463 TCATGTACTGGCGTGAAGTAGATC
66 TCATGTACTGGCGTGAAGTAGATC
* **
5172487 GAAGATTTCAGATCTTG
1 AAAGATAACAGATCTTG
5172504 TCTCCCTAAG
Statistics
Matches: 343, Mismatches: 30, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
89 343 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (89 bp):
AAAGATAACAGATCTTGCCTTCCCATACTGGTGGTGAAGCAGATCGAAGAAAGCAGATCTTGTCT
TCATGTACTGGCGTGAAGTAGATC
Found at i:5172849 original size:132 final size:132
Alignment explanation
Indices: 5172488--5172849 Score: 616
Period size: 132 Copynumber: 2.7 Consensus size: 132
5172478 AAGTAGATCG
*
5172488 AAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGGGCAGATCAAAGATGGAGAATTTTACCTCC
1 AAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGGGCAGATCAAAGATGGTGAATTTTACCTCC
* * * *
5172553 CTGTGGTTACAGTGGAGTATATTGAAGCCAATAATTTTACTTCCTTGGGCAGCAGTGGAATAGAT
66 CTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGAT
*
5172618 TG
131 TA
5172620 AAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGGGCAGATCAAAGATGGTGAATTTTACCTCC
1 AAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGGGCAGATCAAAGATGGTGAATTTTACCTCC
*
5172685 CTGTGGTTACAGTGGAGTACATTGAAGTCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGAT
66 CTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGAT
5172750 TA
131 TA
* * * *
5172752 AAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGGATTTTACCTCC
1 AAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGGGCAGATCAAAGATGGTGAATTTTACCTCC
*
5172817 CTGAGGTTACAGTGGAGTACATTGAAGCCAGTA
66 CTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
5172850 TTCCTATCTC
Statistics
Matches: 217, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 217 1.00
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (132 bp):
AAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGGGCAGATCAAAGATGGTGAATTTTACCTCC
CTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGAT
TA
Found at i:5174344 original size:3 final size:3
Alignment explanation
Indices: 5174336--5174374 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
5174326 GCTATGATTT
*
5174336 TTA TTA TTA TTA TTA GTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
5174375 CTACCACTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:5177719 original size:24 final size:25
Alignment explanation
Indices: 5177687--5177733 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
5177677 ATATTATTTC
5177687 ATTACATTTTGTTT-GAAATTTTTGT
1 ATTACATTTTGTTTCG-AATTTTTGT
*
5177712 ATTA-ATTTTTTTTCGAATTTTT
1 ATTACATTTTGTTTCGAATTTTT
5177734 AAAAAAGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.23, C:0.04, G:0.09, T:0.64
Consensus pattern (25 bp):
ATTACATTTTGTTTCGAATTTTTGT
Found at i:5177890 original size:22 final size:25
Alignment explanation
Indices: 5177856--5177904 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
5177846 CAGTGCATTA
5177856 TGTTATTTCTTT-ATTAATTTAGTG
1 TGTTATTTCTTTAATTAATTTAGTG
5177880 TGTT-TTT-TTTAAATTAATTTAGTG
1 TGTTATTTCTTT-AATTAATTTAGTG
5177904 T
1 T
5177905 AAAAGAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 3 0.13
23 3 0.13
24 17 0.74
ACGTcount: A:0.22, C:0.02, G:0.12, T:0.63
Consensus pattern (25 bp):
TGTTATTTCTTTAATTAATTTAGTG
Found at i:5178025 original size:327 final size:320
Alignment explanation
Indices: 5177407--5178490 Score: 1748
Period size: 326 Copynumber: 3.4 Consensus size: 320
5177397 CAAGTTGAAA
5177407 AAAAAAGTTAGTAAAACACTCTTTACTTCAGCCATTTGTTCGTATTTTTTTCTCGGCATTTTATT
1 AAAAAAGTTAGTAAAACACTCTTTACTTCAGCCATTTGTTCGTATTTTTTTCTCGGCATTTTATT
* *
5177472 ACTTTAAAAAATTCTCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTATT
66 ACTTTAAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTATT
5177537 TCTTTATTAATTTAGTGTG-TTTTTTAAATTAATTTAGTGTAAAAAAATATTTTAACCCTTATTC
131 TCTTTATTAATTTAGTGTGTTTTTTTAAATTAATTTAGTGTAAAAAAATA----AACCCTTATT-
*
5177601 TTGCCCTTTGCTCGTATTATTTTCCCAAATTTTATTACTTCCAAAAAAATATATTATTTTCGTAT
191 TTGCCCTTTGCTCG-ATTATTTTCCCGAATTTTATTACTT-CAAAAAAATATATTATTTTCGTAT
5177666 TTTATTATTTTATATTATTTCATTACATTTTGTTTGAAATTTTTGTATTAATTTTTTTTCGAATT
254 TTTATTATTTTATATTATTTCATTACATTTTGTTTGAAATTTTTGTATTAA-TTTTTTTCGAATT
5177731 TTT
318 TTT
*
5177734 AAAAAAGTTAGTAAAACACTCTTTACTTCGGCCATTTGTTCGTATTTTTTT-TCGGCATTTTATT
1 AAAAAAGTTAGTAAAACACTCTTTACTTCAGCCATTTGTTCGTATTTTTTTCTCGGCATTTTATT
*
5177798 ACTTTAAAAAAATATCATAATTTCTAATTTTGTAATTTTACATTATTTCAGTGCATTATGTTATT
66 ACTTTAAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTATT
5177863 TCTTTATTAATTTAGTGTGTTTTTTTTAAATTAATTTAGTGTAAAAGAAATACAACCCTTATTTT
131 TCTTTATTAATTTAGTGTG-TTTTTTTAAATTAATTTAGTGTAAAA-AAATA-AACCCTTA-TTT
*
5177928 TGCCCTTTGCTCGGATTATTTTTCCGAATTTTATTACTTCTAAAAAATATATATTATTTTCGTAT
192 TGCCCTTTGCTC-GATTATTTTCCCGAATTTTATTACTTC-AAAAAA-ATATATTATTTTCGTAT
*
5177993 TTTATTATTTTATATTATTTCATTACATTTTGTTTAAAATTTTTGTATTAA-TTTTTTCGGAATT
254 TTTATTATTTTATATTATTTCATTACATTTTGTTTGAAATTTTTGTATTAATTTTTTTC-GAATT
5178057 TTT
318 TTT
*
5178060 AAAAAAGTTAGTAAAACACTCTTTACTTCGGCCATTTGTTCGTATTTTTTTCTCGGCATTTTATT
1 AAAAAAGTTAGTAAAACACTCTTTACTTCAGCCATTTGTTCGTATTTTTTTCTCGGCATTTTATT
5178125 ACTTTAAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTATT
66 ACTTTAAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTATT
*
5178190 TCTTTATTAATTTAGTGTGTTTTTTTAAATTAATTTAGTGT-AAAAAA-AAACCC--A----ACC
131 TCTTTATTAATTTAGTGTGTTTTTTTAAATTAATTTAGTGTAAAAAAATAAACCCTTATTTTGCC
* * *
5178247 C-TT-AT--ATTATTTTCCCGAATTTTATTACTTCCAAAAAATATATTATTTTCATATTTTATTA
196 CTTTGCTCGATTATTTTCCCGAATTTTATTACTTCAAAAAAATATATTATTTTCGTATTTTATTA
* * * * *
5178308 TTTTAAATTATTTCAGTACATTTTTTTTGAAATTTTTGTATTAATTTTTTCCAAATTTTT
261 TTTTATATTATTTCATTACATTTTGTTTGAAATTTTTGTATTAATTTTTTTCGAATTTTT
*
5178368 AAAAAAGTTAGTAAAACACTTTTTACTTCAGCCATTTGTTCGTATTTTTTTCTCGGCATTTTATT
1 AAAAAAGTTAGTAAAACACTCTTTACTTCAGCCATTTGTTCGTATTTTTTTCTCGGCATTTTATT
*
5178433 ACTTTAAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTACATTA
66 ACTTTAAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTA
5178491 CTTCGGCCTT
Statistics
Matches: 724, Mismatches: 23, Indels: 39
0.92 0.03 0.05
Matches are distributed among these distances:
308 190 0.26
309 11 0.02
310 25 0.03
313 1 0.00
314 2 0.00
315 3 0.00
320 1 0.00
322 5 0.01
323 1 0.00
324 3 0.00
325 11 0.02
326 225 0.31
327 216 0.30
328 25 0.03
329 5 0.01
ACGTcount: A:0.30, C:0.11, G:0.07, T:0.51
Consensus pattern (320 bp):
AAAAAAGTTAGTAAAACACTCTTTACTTCAGCCATTTGTTCGTATTTTTTTCTCGGCATTTTATT
ACTTTAAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTATT
TCTTTATTAATTTAGTGTGTTTTTTTAAATTAATTTAGTGTAAAAAAATAAACCCTTATTTTGCC
CTTTGCTCGATTATTTTCCCGAATTTTATTACTTCAAAAAAATATATTATTTTCGTATTTTATTA
TTTTATATTATTTCATTACATTTTGTTTGAAATTTTTGTATTAATTTTTTTCGAATTTTT
Found at i:5178568 original size:258 final size:254
Alignment explanation
Indices: 5178251--5178746 Score: 758
Period size: 258 Copynumber: 1.9 Consensus size: 254
5178241 CCAACCCTTA
* *
5178251 TATTATTTTCCCGAATTTTATTACTTCCAAAAAATATATTATTTTCATATTTTATTATTTTAAAT
1 TATTATTTTCCCAAATTTTATTACTTCAAAAAAATATATTATTTTCATATTTTATTATTTTAAAT
* ** * * *
5178316 TATTTCAGTACATTTTTTTTGAAATTTTTGTATTAATTTTTTCCAAATTTTTAAAAAAGTTAGTA
66 TATTTCAGTACATTTTGTGAGAAATATTTGTATTAAATATTTCCAAATTTTTAAAAAAGTTAGTA
* *
5178381 AAACACTTTTTACTTCAGCCATTTGTTCGTATTTTTTTCTCGGCATTTTATTACTTTAAAAAAAT
131 AAACAC-TCTTACTTCAGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTACTTT-AAAAAAT
*
5178446 ATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTACATTACTTCGGCCTTTGCTCG
194 ATCATAAATTCTAATTTTATAATTTTACATTATTTCAGTACATTACTTCGGCCTTTGCTCG
* *
5178507 TATTATTTTCCCAAATTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTAT
1 TATTATTTTCCCAAATTTTATTAC-TTCAA-AAAAATATATTATTTTCATATTTTATTATTTTAA
* **
5178572 ATTATTTTAGTACATTTTGTGAGAAATATTTGTATTAAATATTTCTGAATTTTTAAAAAAGTTAG
64 ATTATTTCAGTACATTTTGTGAGAAATATTTGTATTAAATATTTCCAAATTTTTAAAAAAGTTAG
* **
5178637 TAAAACACTCTTACTTCGGCCATTTGTTCGTATTTTTTTCTCCTTATTTTATTACTTTAAAAAAT
129 TAAAACACTCTTACTTCAGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAAAAT
* * *
5178702 ATCCTAAATTCTAATTTTATAATTTTACGTTATTTCAGTGCATTA
194 ATCATAAATTCTAATTTTATAATTTTACATTATTTCAGTACATTA
5178747 TGTTTGAAAT
Statistics
Matches: 216, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
256 71 0.33
257 49 0.23
258 96 0.44
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.51
Consensus pattern (254 bp):
TATTATTTTCCCAAATTTTATTACTTCAAAAAAATATATTATTTTCATATTTTATTATTTTAAAT
TATTTCAGTACATTTTGTGAGAAATATTTGTATTAAATATTTCCAAATTTTTAAAAAAGTTAGTA
AAACACTCTTACTTCAGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAAAATAT
CATAAATTCTAATTTTATAATTTTACATTATTTCAGTACATTACTTCGGCCTTTGCTCG
Found at i:5182809 original size:19 final size:19
Alignment explanation
Indices: 5182769--5182810 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
5182759 GTCTCTTTTC
* *
5182769 GCATTCATTTCATGCATTT
1 GCATTCATTACATGCATAT
5182788 GCATTACATTACAT-CATAT
1 GCATT-CATTACATGCATAT
5182807 GCAT
1 GCAT
5182811 CAAACACCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (19 bp):
GCATTCATTACATGCATAT
Found at i:5184722 original size:20 final size:20
Alignment explanation
Indices: 5184697--5184737 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
5184687 GCAAATGTTC
5184697 TTTCATTCTTT-ACGATTTTT
1 TTTCATTCTTTCA-GATTTTT
5184717 TTTCATTCTTTCAGATTTTT
1 TTTCATTCTTTCAGATTTTT
5184737 T
1 T
5184738 CTGCCAAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.15, C:0.15, G:0.05, T:0.66
Consensus pattern (20 bp):
TTTCATTCTTTCAGATTTTT
Found at i:5185691 original size:7 final size:7
Alignment explanation
Indices: 5185666--5185707 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
5185656 AGTGATGTGA
5185666 AAAAATG
1 AAAAATG
5185673 AAAAGATG
1 AAAA-ATG
5185681 -AAAATG
1 AAAAATG
5185687 AAAAATG
1 AAAAATG
5185694 AAAAA-G
1 AAAAATG
5185700 TAAAAATG
1 -AAAAATG
5185708 GAGAGGCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
6 4 0.13
7 23 0.74
8 4 0.13
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:5185705 original size:21 final size:21
Alignment explanation
Indices: 5185666--5185707 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
5185656 AGTGATGTGA
*
5185666 AAAAATGAAAAGATGAAAATG
1 AAAAATGAAAAGATAAAAATG
5185687 AAAAATGAAAA-AGTAAAAATG
1 AAAAATGAAAAGA-TAAAAATG
5185708 GAGAGGCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (21 bp):
AAAAATGAAAAGATAAAAATG
Found at i:5187071 original size:44 final size:44
Alignment explanation
Indices: 5187008--5187808 Score: 659
Period size: 44 Copynumber: 18.1 Consensus size: 44
5186998 GCAGATTTTA
*
5187008 TCTTCATGTATTGACATGAAGTAGATCAAAAATAATGGATCTTG
1 TCTTCATGTATTGACATGAAGTAGATCAAAGATAATGGATCTTG
* * * *
5187052 TCTTCATGTATTGACATGAAGTAGATCAGAGATAGTAGATCTTA
1 TCTTCATGTATTGACATGAAGTAGATCAAAGATAATGGATCTTG
*
5187096 TCTTCATGTATTGACATGAAGTAGATCGAAGATAATGGATCTTG
1 TCTTCATGTATTGACATGAAGTAGATCAAAGATAATGGATCTTG
* * **** *
5187140 TCTTCATGTATTGACATGAAATAGATCAAGGATAGCAAATCTTA
1 TCTTCATGTATTGACATGAAGTAGATCAAAGATAATGGATCTTG
*** * *** *
5187184 TCTTCCCATACTGGTGGTGAAGTAGATCGAAGATAATGGATCTTG
1 TCTTCATGTA-TTGACATGAAGTAGATCAAAGATAATGGATCTTG
* ** **
5187229 TCTTCATGTATTGACATGAAATAGATCAGGGATAACAGATCTTG
1 TCTTCATGTATTGACATGAAGTAGATCAAAGATAATGGATCTTG
*** * *** *
5187273 TCTTCCCATACTGGTGGTGAAGTAGATCGAAGATAATGGATCTTG
1 TCTTCATGTA-TTGACATGAAGTAGATCAAAGATAATGGATCTTG
* ****
5187318 TCTTCATGTATTGACATGAAGTAGATCAGAGATGGCAGATCTTG
1 TCTTCATGTATTGACATGAAGTAGATCAAAGATAATGGATCTTG
*** * *** * *
5187362 TCTTCCCATACTGGTGGTGAAGTAGATCGAAGATAATGGATCTTA
1 TCTTCATGTA-TTGACATGAAGTAGATCAAAGATAATGGATCTTG
* *** *
5187407 TCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATCTTA
1 TCTTCATGTATTGACATGAAGTAGATCAAAGATAATGGATCTTG
* * *
5187451 TCTTCATGTATTTACATGAAGTTGATCGAAGATAATGGATCTTG
1 TCTTCATGTATTGACATGAAGTAGATCAAAGATAATGGATCTTG
* * *
5187495 TCTTCATGTATTGACATAAAGTAGATTAAA-A-AAAGCAGATCTTG
1 TCTTCATGTATTGACATGAAGTAGATCAAAGATAATG--GATCTTG
* * *
5187539 TCTTCATGTATTGGCGTGAAGTAGATCGAAGA-AA-GCAGATCTTG
1 TCTTCATGTATTGACATGAAGTAGATCAAAGATAATG--GATCTTG
* * * * *
5187583 TCTTCATGTATTGGCGTGAAGTAGATCGAAGA-AAGTAGATCCTG
1 TCTTCATGTATTGACATGAAGTAGATCAAAGATAA-TGGATCTTG
* * * *
5187627 TCTTCATGTATTGGCGTGAAGTAGATCGAAGA-AA-GCAGATCCTG
1 TCTTCATGTATTGACATGAAGTAGATCAAAGATAATG--GATCTTG
* **
5187671 TCTTCATGTATTGACGTGAAGTAGATTGAAGA-AA-GCAGATCTTG
1 TCTTCATGTATTGACATGAAGTAGATCAAAGATAATG--GATCTTG
* * **
5187715 TCTTTC-TGTACTGGCAGTGAAGTAGATCAAAGATAACAGATCTTG
1 TC-TTCATGTATTGACA-TGAAGTAGATCAAAGATAATGGATCTTG
* * ***
5187760 TCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTG
1 TCTTCATGTATTGACATGAAGTAGATCAAAGATAATGGATCTTG
5187804 TCTTC
1 TCTTC
5187809 CCATACTGGT
Statistics
Matches: 610, Mismatches: 132, Indels: 30
0.79 0.17 0.04
Matches are distributed among these distances:
42 3 0.00
43 1 0.00
44 477 0.78
45 127 0.21
46 2 0.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (44 bp):
TCTTCATGTATTGACATGAAGTAGATCAAAGATAATGGATCTTG
Found at i:5187154 original size:88 final size:88
Alignment explanation
Indices: 5186997--5187808 Score: 902
Period size: 88 Copynumber: 9.2 Consensus size: 88
5186987 GTTGAAAAGC
* * * * *
5186997 AGCAGATTTTATCTTCATGTATTGACATGAAGTAGATCAAAAATAATGGATCTTGTCTTCATGTA
1 AGCAGATCTTGTCTTCATGTATTGACGTGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTA
5187062 TTGACATGAAGTAGATCAGAGAT
66 TTGACATGAAGTAGATCAGAGAT
* * *
5187085 AGTAGATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTA
1 AGCAGATCTTGTCTTCATGTATTGACGTGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTA
*
5187150 TTGACATGAAATAGATCA-AGGAT
66 TTGACATGAAGTAGATCAGA-GAT
* * *** * **
5187173 AGCAAATCTTATCTTCCCATACTGGTGGTGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGT
1 AGCAGATCTTGTCTTCATGTA-TTGACGTGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGT
* *
5187238 ATTGACATGAAATAGATCAGGGAT
65 ATTGACATGAAGTAGATCAGAGAT
* *** * **
5187262 AACAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGT
1 AGCAGATCTTGTCTTCATGTA-TTGACGTGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGT
5187327 ATTGACATGAAGTAGATCAGAGAT
65 ATTGACATGAAGTAGATCAGAGAT
* *** * ** *
5187351 GGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGATAATGGATCTTATCTTCATGT
1 AGCAGATCTTGTCTTCATGTA-TTGACGTGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGT
5187416 ATTGACATGAAGTAGATCAGAGAT
65 ATTGACATGAAGTAGATCAGAGAT
* * * *
5187440 AGCAGATCTTATCTTCATGTATTTACATGAAGTTGATCGAAGATAATGGATCTTGTCTTCATGTA
1 AGCAGATCTTGTCTTCATGTATTGACGTGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTA
* * * * *
5187505 TTGACATAAAGTAGATTAAAAAA
66 TTGACATGAAGTAGATCAGAGAT
*
5187528 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGA-AA-GCAGATCTTGTCTTCATG
1 AGCAGATCTTGTCTTCATGTATTGACGTGAAGTAGATCGAAGATAATG--GATCTTGTCTTCATG
* * *
5187591 TATTGGCGTGAAGTAGATC-GAAGAA
64 TATTGACATGAAGTAGATCAG-AGAT
* * * *
5187616 AGTAGATCCTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGA-AA-GCAGATCCTGTCTTCATG
1 AGCAGATCTTGTCTTCATGTATTGACGTGAAGTAGATCGAAGATAATG--GATCTTGTCTTCATG
* * *
5187679 TATTGACGTGAAGTAGAT-TGAAGAA
64 TATTGACATGAAGTAGATCAG-AGAT
* * * **
5187704 AGCAGATCTTGTCTTTC-TGTACTGGCAGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCATG
1 AGCAGATCTTGTC-TTCATGTATTGAC-GTGAAGTAGATCGAAGATAATGGATCTTGTCTTCATG
* * *
5187768 TATTGGCGTGAAGTAGATCAAAGAT
64 TATTGACATGAAGTAGATCAGAGAT
5187793 AGCAGATCTTGTCTTC
1 AGCAGATCTTGTCTTC
5187809 CCATACTGGT
Statistics
Matches: 647, Mismatches: 65, Indels: 24
0.88 0.09 0.03
Matches are distributed among these distances:
86 1 0.00
87 3 0.00
88 328 0.51
89 313 0.48
90 2 0.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (88 bp):
AGCAGATCTTGTCTTCATGTATTGACGTGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTA
TTGACATGAAGTAGATCAGAGAT
Found at i:5187841 original size:89 final size:89
Alignment explanation
Indices: 5187024--5187839 Score: 912
Period size: 89 Copynumber: 9.2 Consensus size: 89
5187014 TGTATTGACA
* * * *
5187024 TGAAGTAGATCAAAAATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGTA
1 TGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGATAGCA
* *** * ***
5187089 GATCTTATCTTCATGTA-TTGACA
66 GATCTTGTCTTCCCATACTGGTGG
* *
5187112 TGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAATAGATCAAGGATAGCA
1 TGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGATAGCA
* *
5187177 AATCTTATCTTCCCATACTGGTGG
66 GATCTTGTCTTCCCATACTGGTGG
* ** *
5187201 TGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAATAGATCAGGGATAACA
1 TGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGATAGCA
5187266 GATCTTGTCTTCCCATACTGGTGG
66 GATCTTGTCTTCCCATACTGGTGG
* *
5187290 TGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATGGCA
1 TGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGATAGCA
5187355 GATCTTGTCTTCCCATACTGGTGG
66 GATCTTGTCTTCCCATACTGGTGG
* *
5187379 TGAAGTAGATCGAAGATAATGGATCTTATCTTCATGTATTGACATGAAGTAGATCAGAGATAGCA
1 TGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGATAGCA
* *** * **
5187444 GATCTTATCTTCATGTA-T-TTACA
66 GATCTTGTCTTCCCATACTGGT-GG
* * * * *
5187467 TGAAGTTGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATAAAGTAGATTAAAAAAAGCA
1 TGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGATAGCA
*** * *
5187532 GATCTTGTCTTCATGTATTGG-CG
66 GATCTTGTCTTCCCATACTGGTGG
* * * *
5187555 TGAAGTAGATCGAAGA-AA-GCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAG
1 TGAAGTAGATCGAAGATAATG--GATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGATAG
* * *** * *
5187618 TAGATCCTGTCTTCATGTATTGG-CG
64 CAGATCTTGTCTTCCCATACTGGTGG
* * ** *
5187643 TGAAGTAGATCGAAGA-AA-GCAGATCCTGTCTTCATGTATTGACGTGAAGTAGATTGAAGAAAG
1 TGAAGTAGATCGAAGATAATG--GATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGATAG
* ** **
5187706 CAGATCTTGTCTTTCTGTACTGGCAG
64 CAGATCTTGTCTTCCCATACTGGTGG
* ** * *
5187732 TGAAGTAGATCAAAGATAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCA
1 TGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGATAGCA
5187797 GATCTTGTCTTCCCATACTGGTGG
66 GATCTTGTCTTCCCATACTGGTGG
*
5187821 CGAAGTAGATCGAAGATAA
1 TGAAGTAGATCGAAGATAA
5187840 CAAGTCTTAA
Statistics
Matches: 646, Mismatches: 73, Indels: 17
0.88 0.10 0.02
Matches are distributed among these distances:
86 1 0.00
87 3 0.00
88 300 0.46
89 340 0.53
90 2 0.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (89 bp):
TGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGATAGCA
GATCTTGTCTTCCCATACTGGTGG
Found at i:5187873 original size:37 final size:37
Alignment explanation
Indices: 5187827--5187902 Score: 91
Period size: 37 Copynumber: 2.1 Consensus size: 37
5187817 GTGGCGAAGT
5187827 AGATCGAAGATA-ACAAGTCTTAACCCCCTGAAGTTGC
1 AGATCGAAGATAGACAA-TCTTAACCCCCTGAAGTTGC
* ** * *
5187864 AGATTGAAGATAGTGAATCTTATCTCCCTGAAGTTGC
1 AGATCGAAGATAGACAATCTTAACCCCCTGAAGTTGC
5187901 AG
1 AG
5187903 TGGAGCGGAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
37 31 0.94
38 2 0.06
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (37 bp):
AGATCGAAGATAGACAATCTTAACCCCCTGAAGTTGC
Found at i:5189897 original size:30 final size:31
Alignment explanation
Indices: 5189863--5189927 Score: 80
Period size: 30 Copynumber: 2.1 Consensus size: 31
5189853 AAATAAGTAT
5189863 ATATGTATGTACACTTATATTT-TACA-ATAC
1 ATATGTATGTAC-CTTATATTTGTACATATAC
* * *
5189893 ATATGTATTTTCCTTATTTTTGTACATATAC
1 ATATGTATGTACCTTATATTTGTACATATAC
5189924 ATAT
1 ATAT
5189928 TTTCTTTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 8 0.27
30 14 0.47
31 8 0.27
ACGTcount: A:0.32, C:0.12, G:0.06, T:0.49
Consensus pattern (31 bp):
ATATGTATGTACCTTATATTTGTACATATAC
Found at i:5191340 original size:16 final size:15
Alignment explanation
Indices: 5191319--5191348 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
5191309 CCAAAAAATA
5191319 TATTATTTTCATATTT
1 TATTATTTT-ATATTT
5191335 TATTATTTTATATT
1 TATTATTTTATATT
5191349 ATTTAATTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTATTTTATATTT
Found at i:5191661 original size:165 final size:160
Alignment explanation
Indices: 5191111--5192004 Score: 653
Period size: 159 Copynumber: 5.5 Consensus size: 160
5191101 ACTTCGGCCA
* * * *
5191111 TTTGTTCGTATTTTTTTCTCGGCATTTTATTACTTTAAAAAAATATCATAATTTCTAATTTTATA
1 TTTGCTCGTATTATTTTC-CCGAATTTTATTAC-TTAAAAAAATATCATAATTTCTAATTTTATA
* *
5191176 ATTTTACATTATTTCAGTGCATTATGTTATTTCTTTATTAATTTAGTGTGTTTTTTAAATTAATT
64 ATTTTATATTATTTCAGTGAATTATGTTATTTCTTTATTAATTTAGTGTG-TTTTTAAATTAATT
** *
5191241 TAGTGTAAAAAAAATCCAACCCTTATTCTTGCCC
128 TAGTGTAAAAAAAAAACAACCCTTATTC-CGCCC
* * *
5191275 TTTGCTTGTATTATTTTCCCGAATTTTATTACTTCCAAAAAATAT-ATTATTT-TCATATTTTAT
1 TTTGCTCGTATTATTTTCCCGAATTTTATTACTT-AAAAAAATATCATAATTTCT-A-ATTTTAT
* * * * ** * *
5191338 TATTTTATATTATTT-AATTACATTTTGTTTGAAATTT-TTGTATTAATTTTTTTCTAATTTTTA
63 AATTTTATATTATTTCAGTGA-ATTATG-TT---ATTTCTT-TATTAA-TTTAGTGT-GTTTTTA
** * * * *
5191401 AA--AA---AGT-T---AGTAAAAC-ACTCTTTACTTCGGTCA
120 AATTAATTTAGTGTAAAAAAAAAACAAC-CCTTA-TTCCGCCC
* * * * * *
5191434 TTTGTTCGTATTTTTTTCTCGTCATTTTATTACTTTAAAAAATATCATAATTTCTAATTTTGTAA
1 TTTGCTCGTATTATTTTCCCG-AATTTTATTACTTAAAAAAATATCATAATTTCTAATTTTATAA
5191499 TTTTATATTATTTCAGTGAATTATGTTATTTCTTTATTAATTTAGTGTGTGTTTTAAATTAATTT
65 TTTTATATTATTTCAGTGAATTATGTTATTTCTTTATTAATTTAGTGTGT-TTTTAAATTAATTT
*
5191564 AGTGTAAAAAAAAATACAACCCTTATTCTTGCCC
129 AGTGTAAAAAAAAA-ACAACCCTTATTC-CGCCC
* *
5191598 TTTGCTCGTATTATTTTCCCGAATTTTATTACTTCCAAAAAAATAT-ATTATTTTCGT-ATTTTG
1 TTTGCTCGTATTATTTTCCCGAATTTTATTACTT--AAAAAAATATCA-TAATTTC-TAATTTTA
* * * * *
5191661 TTATTTTATATTATTTCA-TTACATTTTGTTTAAAATTT-TTGTATTAATTT-TTTTCGAATTTT
62 TAATTTTATATTATTTCAGTGA-ATTATG-TT---ATTTCTT-TATTAATTTAGTGT-G--TTTT
** * * *
5191723 TAAA--AA---AGT-T---AGTAAAAC-ACTCTTTACTTCGGCCA
118 TAAATTAATTTAGTGTAAAAAAAAAACAAC-CCTTA-TTCCGCCC
* * *** * *
5191758 TTTGTTCGTATGTTTTTTTTTGCATTTTATTACTTTAAAAAATATCATAATTTCTAATTTTATAA
1 TTTGCTCGTAT-TATTTTCCCGAATTTTATTACTTAAAAAAATATCATAATTTCTAATTTTATAA
* *
5191823 TTTTACATTATTTCAGTGCATTATGTTATTTCTTTATTAATTTAGTGTGTTTTTTAAATTAATTT
65 TTTTATATTATTTCAGTGAATTATGTTATTTCTTTATTAATTTAGTGTG-TTTTTAAATTAATTT
* *
5191888 ACTGTAAAAAAAAACCCAACCCTTATTCCCGCCC
129 AGTGTAAAAAAAAA-ACAACCCTTATT-CCGCCC
*
5191922 TTTGCTCGTATTATTTTCCCGAATTTTATTACTTCCAAAAAAATAT-ATTATTTTCGT-ATTTTA
1 TTTGCTCGTATTATTTTCCCGAATTTTATTACTT--AAAAAAATATCA-TAATTTC-TAATTTTA
*
5191985 TTATTTTATATTATTTCAGT
62 TAATTTTATATTATTTCAGT
5192005 ACATTTTGTT
Statistics
Matches: 565, Mismatches: 97, Indels: 135
0.71 0.12 0.17
Matches are distributed among these distances:
153 1 0.00
154 20 0.04
155 24 0.04
156 10 0.02
158 7 0.01
159 109 0.19
160 48 0.08
161 27 0.05
162 12 0.02
163 92 0.16
164 67 0.12
165 89 0.16
166 8 0.01
167 10 0.02
168 19 0.03
169 14 0.02
170 7 0.01
171 1 0.00
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.52
Consensus pattern (160 bp):
TTTGCTCGTATTATTTTCCCGAATTTTATTACTTAAAAAAATATCATAATTTCTAATTTTATAAT
TTTATATTATTTCAGTGAATTATGTTATTTCTTTATTAATTTAGTGTGTTTTTAAATTAATTTAG
TGTAAAAAAAAAACAACCCTTATTCCGCCC
Found at i:5191753 original size:324 final size:324
Alignment explanation
Indices: 5191077--5192113 Score: 1803
Period size: 324 Copynumber: 3.2 Consensus size: 324
5191067 GCAAGTTGAA
5191077 AAAAAAGTTAGTAAAACACTCTTTACTTCGGCCATTTGTTCGTATTTTTTTCTCGGCATTTTATT
1 AAAAAAGTTAGTAAAACACTCTTTACTTCGGCCATTTGTTCGTATTTTTTTCTCGGCATTTTATT
5191142 ACTTTAAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTATT
66 ACTTT-AAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTATT
5191207 TCTTTATTAATTTAGTGTGTTTTTTAAATTAATTTAGTGT-AAAAAAAATCCAACCCTTATTCTT
130 TCTTTATTAATTTAGTGTGTTTTTTAAATTAATTTAGTGTAAAAAAAAATCCAACCCTTATTCTT
* *
5191271 GCCCTTTGCTTGTATTATTTTCCCGAATTTTATTACTTCC-AAAAAATATATTATTTTCATATTT
195 GCCCTTTGCTCGTATTATTTTCCCGAATTTTATTACTTCCAAAAAAATATATTATTTTCGTATTT
* *
5191335 TATTATTTTATATTATTTAATTACATTTTGTTTGAAATTTTTGTATTAATTTTTTTCTAATTTTT
260 TATTATTTTATATTATTTCATTACATTTTGTTTGAAATTTTTGTATTAATTTTTTTCAAATTTTT
* *
5191400 AAAAAAGTTAGTAAAACACTCTTTACTTCGGTCATTTGTTCGTATTTTTTTCTCGTCATTTTATT
1 AAAAAAGTTAGTAAAACACTCTTTACTTCGGCCATTTGTTCGTATTTTTTTCTCGGCATTTTATT
* * *
5191465 ACTTTAAAAAATATCATAATTTCTAATTTTGTAATTTTATATTATTTCAGTGAATTATGTTATTT
66 ACTTTAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTATTT
* *
5191530 CTTTATTAATTTAGTGTGTGTTTTAAATTAATTTAGTGTAAAAAAAAATACAACCCTTATTCTTG
131 CTTTATTAATTTAGTGTGTTTTTTAAATTAATTTAGTGTAAAAAAAAATCCAACCCTTATTCTTG
5191595 CCCTTTGCTCGTATTATTTTCCCGAATTTTATTACTTCCAAAAAAATATATTATTTTCGTATTTT
196 CCCTTTGCTCGTATTATTTTCCCGAATTTTATTACTTCCAAAAAAATATATTATTTTCGTATTTT
* * *
5191660 GTTATTTTATATTATTTCATTACATTTTGTTTAAAATTTTTGTATTAATTTTTTTCGAATTTTT
261 ATTATTTTATATTATTTCATTACATTTTGTTTGAAATTTTTGTATTAATTTTTTTCAAATTTTT
**
5191724 AAAAAAGTTAGTAAAACACTCTTTACTTCGGCCATTTGTTCGTATGTTTTTT-TTTGCATTTTAT
1 AAAAAAGTTAGTAAAACACTCTTTACTTCGGCCATTTGTTCGTAT-TTTTTTCTCGGCATTTTAT
5191788 TACTTTAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTATT
65 TACTTTAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTATT
* * **
5191853 TCTTTATTAATTTAGTGTGTTTTTTAAATTAATTTACTGTAAAAAAAAACCCAACCCTTATTCCC
130 TCTTTATTAATTTAGTGTGTTTTTTAAATTAATTTAGTGTAAAAAAAAATCCAACCCTTATTCTT
5191918 GCCCTTTGCTCGTATTATTTTCCCGAATTTTATTACTTCCAAAAAAATATATTATTTTCGTATTT
195 GCCCTTTGCTCGTATTATTTTCCCGAATTTTATTACTTCCAAAAAAATATATTATTTTCGTATTT
* * *
5191983 TATTATTTTATATTATTTCAGTACATTTTGTTTGAAATTTTTGTATTAATTGTTTCCAAATTTTT
260 TATTATTTTATATTATTTCATTACATTTTGTTTGAAATTTTTGTATTAATTTTTTTCAAATTTTT
* *
5192048 AAAAAATTTAGTAAAATACTCTTTACTTCGGCCATTTGTTCGTA-TTTTTTCTCGGCATTTTATT
1 AAAAAAGTTAGTAAAACACTCTTTACTTCGGCCATTTGTTCGTATTTTTTTCTCGGCATTTTATT
5192112 AC
66 AC
5192114 ATTATTTCAA
Statistics
Matches: 674, Mismatches: 36, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
322 101 0.15
323 143 0.21
324 424 0.63
325 6 0.01
ACGTcount: A:0.30, C:0.12, G:0.08, T:0.51
Consensus pattern (324 bp):
AAAAAAGTTAGTAAAACACTCTTTACTTCGGCCATTTGTTCGTATTTTTTTCTCGGCATTTTATT
ACTTTAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTATTT
CTTTATTAATTTAGTGTGTTTTTTAAATTAATTTAGTGTAAAAAAAAATCCAACCCTTATTCTTG
CCCTTTGCTCGTATTATTTTCCCGAATTTTATTACTTCCAAAAAAATATATTATTTTCGTATTTT
ATTATTTTATATTATTTCATTACATTTTGTTTGAAATTTTTGTATTAATTTTTTTCAAATTTTT
Found at i:5192306 original size:208 final size:210
Alignment explanation
Indices: 5191920--5192321 Score: 605
Period size: 208 Copynumber: 1.9 Consensus size: 210
5191910 TTATTCCCGC
*
5191920 CCTTTGCTCGTATTATTTTCCCGAATTTTATTACTTCCAAAAAAATATATTATTTTCGTATTTTA
1 CCTTTGCTCGTATTATTTTCCCAAATTTTATTACTTCCAAAAAAATATATTATTTTC------T-
* * *
5191985 TTATTTTATATTATTTCAGTACATTTTGTTTGAAATTTTTGTATTAATTGTTTCCAAATTTTTAA
59 TTATTTTATATTATTTCAGTACATTTTGTTAGAAATATTTGTATTAATTATTTCCAAATTTTTAA
* * *
5192050 AAAATTTAGTAAAATACTCTTTACTTCGGCCATTTGTTCGTATTTTTTCTCGGCATTTTATTACA
124 AAAAGTTAGTAAAACACTCTTTACTTCGGCCATTTGTTCGTATTTTTTCTCCGCATTTTATTACA
5192115 TTATTTCAATACATTACTTCGG
189 TTATTTCAATACATTACTTCGG
*
5192137 CCTTTGCTCGTATTATTTTCCCAAATTTTATTACTTTCAATAAAAATATATTATTTTC-TTATTT
1 CCTTTGCTCGTATTATTTTCCCAAATTTTATTACTTCCAA-AAAAATATATTATTTTCTTTATTT
**
5192201 TATATTATTT-AGTACATTTT-TTAGAAATATTTGTATTAATTATTTCTGAATTTTTAAAAAAGT
65 TATATTATTTCAGTACATTTTGTTAGAAATATTTGTATTAATTATTTCCAAATTTTTAAAAAAGT
5192264 TAGTAAAACACTC-TTACTTCGGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTAC
130 TAGTAAAACACTCTTTACTTCGGCCATTTGTTCGTA-TTTTTTCTCCGCATTTTATTAC
5192322 TTTAAAAATA
Statistics
Matches: 173, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
207 22 0.13
208 70 0.40
209 10 0.06
210 16 0.09
217 38 0.22
218 17 0.10
ACGTcount: A:0.28, C:0.14, G:0.08, T:0.51
Consensus pattern (210 bp):
CCTTTGCTCGTATTATTTTCCCAAATTTTATTACTTCCAAAAAAATATATTATTTTCTTTATTTT
ATATTATTTCAGTACATTTTGTTAGAAATATTTGTATTAATTATTTCCAAATTTTTAAAAAAGTT
AGTAAAACACTCTTTACTTCGGCCATTTGTTCGTATTTTTTCTCCGCATTTTATTACATTATTTC
AATACATTACTTCGG
Found at i:5192734 original size:4 final size:4
Alignment explanation
Indices: 5192727--5192886 Score: 83
Period size: 4 Copynumber: 40.2 Consensus size: 4
5192717 CCCTCTTCTC
* * *
5192727 CTTT CTTT -TTT TTTT CTCTT C-TC CTTT CCTTTT CTTT CCTT C-TT -TTT
1 CTTT CTTT CTTT CTTT CT-TT CTTT CTTT -C-TTT CTTT CTTT CTTT CTTT
5192774 CTTT CTTT -TTT C-TT C-TT C-TT CTTT CCTTTT CTTT CCTTTT CTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT -C-TTT CTTT -C-TTT CTTT
* * *
5192818 CTTT CTTT CTTT CTTT CTTT CCTCTC CTCTC CTTTT CTTT -ATT -TTT
1 CTTT CTTT CTTT CTTT CTTT -CT-TT CT-TT C-TTT CTTT CTTT CTTT
5192864 CTTT CTTT CTTT C-TT C-TT CTTT C
1 CTTT CTTT CTTT CTTT CTTT CTTT C
5192887 CCTCTCCTTC
Statistics
Matches: 130, Mismatches: 8, Indels: 36
0.75 0.05 0.21
Matches are distributed among these distances:
3 31 0.24
4 69 0.53
5 19 0.15
6 11 0.08
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.71
Consensus pattern (4 bp):
CTTT
Found at i:5192735 original size:23 final size:23
Alignment explanation
Indices: 5192704--5192830 Score: 102
Period size: 23 Copynumber: 5.6 Consensus size: 23
5192694 TAAAAAAATA
* *
5192704 CTTTTTTTTCTTTCCCTCTTCTC
1 CTTTCTTTTCTTTCCCTCTTCTT
* ** *
5192727 CTTTCTTTTTTTTTTCTCTTCTC
1 CTTTCTTTTCTTTCCCTCTTCTT
* *
5192750 CTTTCCTTTTCTTTCCTTCTTTTT
1 CTTT-CTTTTCTTTCCCTCTTCTT
*
5192774 CTTTC-TTT-TTT-CTTCTTCTT
1 CTTTCTTTTCTTTCCCTCTTCTT
*
5192794 CTTTCCTTTTCTTT-CCTTTTCTTT
1 CTTT-CTTTTCTTTCCCTCTTC-TT
5192818 CTTTC-TTTCTTTC
1 CTTTCTTTTCTTTC
5192831 TTTCTTTCCT
Statistics
Matches: 85, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
20 12 0.14
21 4 0.05
22 13 0.15
23 33 0.39
24 23 0.27
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (23 bp):
CTTTCTTTTCTTTCCCTCTTCTT
Found at i:5192760 original size:29 final size:29
Alignment explanation
Indices: 5192705--5192868 Score: 95
Period size: 30 Copynumber: 5.4 Consensus size: 29
5192695 AAAAAAATAC
5192705 TTTTTTTTCTTTCCCTCTTCTCCTTTCTT
1 TTTTTTTTCTTTCCCTCTTCTCCTTTCTT
*
5192734 TTTTTTTTCTCTTCTCCT-TTC-CTTTTCTT
1 TTTTTTTTCT-TTC-CCTCTTCTCCTTTCTT
** * *
5192763 TCCTTCTTTTTCTTTCTTTTTTCTTC-TTCTT
1 T--TT-TTTTTCTTTCCCTCTTCTCCTTTCTT
* * *
5192794 CTTTCCTTTTCTTT-CCTTTTCTTTCTTTCTT
1 -TTT-TTTTTCTTTCCCTCTTC-TCCTTTCTT
* *
5192825 TCTTTCTTTCTTTCCTCTCCTCTCCTTT-TCT
1 T-TTTTTTTCTTTCC-CTCTTCTCCTTTCT-T
*
5192856 TTATTTTTCTTTC
1 TTTTTTTTCTTTC
5192869 TTTCTTTCTT
Statistics
Matches: 106, Mismatches: 15, Indels: 27
0.72 0.10 0.18
Matches are distributed among these distances:
29 23 0.22
30 40 0.38
31 31 0.29
32 12 0.11
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.70
Consensus pattern (29 bp):
TTTTTTTTCTTTCCCTCTTCTCCTTTCTT
Found at i:5192765 original size:10 final size:10
Alignment explanation
Indices: 5192750--5192887 Score: 90
Period size: 10 Copynumber: 13.6 Consensus size: 10
5192740 TTCTCTTCTC
5192750 CTTTCCTTTT
1 CTTTCCTTTT
5192760 CTTTCCTTCTT
1 CTTTCCTT-TT
*
5192771 -TTTCTTTCTT
1 CTTTCCTT-TT
*
5192781 TTTTCTTCTTCTT
1 CTTTC--CTT-TT
5192794 CTTTCCTTTT
1 CTTTCCTTTT
5192804 CTTTCCTTTT
1 CTTTCCTTTT
5192814 CTTT-C-TTT
1 CTTTCCTTTT
*
5192822 CTTTCTTTCTTT
1 CTTTC-CT-TTT
* *
5192834 CTTTCCTCTC
1 CTTTCCTTTT
*
5192844 CTCTCCTTTT
1 CTTTCCTTTT
**
5192854 CTTTATTTTT
1 CTTTCCTTTT
5192864 CTTT-C-TTT
1 CTTTCCTTTT
5192872 CTTT-CTTCTT
1 CTTTCCTT-TT
5192882 CTTTCC
1 CTTTCC
5192888 CTCTCCTTCT
Statistics
Matches: 103, Mismatches: 14, Indels: 21
0.75 0.10 0.15
Matches are distributed among these distances:
8 15 0.15
9 2 0.02
10 58 0.56
11 11 0.11
12 8 0.08
13 9 0.09
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
CTTTCCTTTT
Found at i:5192895 original size:94 final size:95
Alignment explanation
Indices: 5192727--5192900 Score: 221
Period size: 94 Copynumber: 1.8 Consensus size: 95
5192717 CCCTCTTCTC
* * * *
5192727 CTTTCTTTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTTTTCTTCTTC
1 CTTTCTTTTTTCTTTCTCTTCTCCTCTCCTTTTCTTTCATTCTTTTTCTTTCTTTCTTCTTCTTC
* * *
5192792 TTCTTTCCTTTTCTTTCCTTTTCTTTCTTT
66 TCCTCTCCTTCTCTTTCCTTTTCTTTCTTT
*
5192822 CTTTCTTTCTTTCTTTC-C-TCTCCTCTCCTTTTCTTT-ATTTTTCTTTCTTTCTTTCTTCTTCT
1 CTTTCTTT-TTTCTTTCTCTTCTCCTCTCCTTTTCTTTCATTCTT-TTTCTTTCTTTCTTCTTCT
5192884 T-TCCCTCTCCTTCTCTT
64 TCT-CCTCTCCTTCTCTT
5192901 CCCCCCTCCC
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
93 5 0.07
94 47 0.69
95 9 0.13
96 7 0.10
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.69
Consensus pattern (95 bp):
CTTTCTTTTTTCTTTCTCTTCTCCTCTCCTTTTCTTTCATTCTTTTTCTTTCTTTCTTCTTCTTC
TCCTCTCCTTCTCTTTCCTTTTCTTTCTTT
Found at i:5195127 original size:16 final size:16
Alignment explanation
Indices: 5195106--5195138 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
5195096 CATAATTTAA
5195106 TTTAATT-TTTGATTTC
1 TTTAATTGTTT-ATTTC
5195122 TTTAATTGTTTATTTC
1 TTTAATTGTTTATTTC
5195138 T
1 T
5195139 GCTATCTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.70
Consensus pattern (16 bp):
TTTAATTGTTTATTTC
Found at i:5197775 original size:25 final size:24
Alignment explanation
Indices: 5197693--5197776 Score: 98
Period size: 24 Copynumber: 3.5 Consensus size: 24
5197683 CATGTGATCC
* *
5197693 GCATGTAATAACA-ATAAGGGGTTT
1 GCATGTAATAATAGATAA-GGGCTT
* *
5197717 GCATGAAATAATAGATAAGGGCTC
1 GCATGTAATAATAGATAAGGGCTT
*
5197741 GCATGTAATAATAGATAAGTGACTT
1 GCATGTAATAATAGATAAG-GGCTT
5197766 GCATGTAATAA
1 GCATGTAATAA
5197777 CATATATTTG
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
24 33 0.65
25 18 0.35
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (24 bp):
GCATGTAATAATAGATAAGGGCTT
Found at i:5197788 original size:25 final size:24
Alignment explanation
Indices: 5197738--5197815 Score: 84
Period size: 25 Copynumber: 3.1 Consensus size: 24
5197728 TAGATAAGGG
* * *
5197738 CTCGCATGTAATAATAGATAAGTGA
1 CTCGCATGTAATAACATAT-ATTGA
*
5197763 CTTGCATGTAATAACATATATTTGA
1 CTCGCATGTAATAACATATA-TTGA
*
5197788 CTCGCATGTAGTAACATATCATTGA
1 CTCGCATGTAATAACATAT-ATTGA
5197813 CTC
1 CTC
5197816 ACATAAACAG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
24 1 0.02
25 43 0.96
26 1 0.02
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (24 bp):
CTCGCATGTAATAACATATATTGA
Found at i:5197881 original size:60 final size:60
Alignment explanation
Indices: 5197785--5198138 Score: 418
Period size: 60 Copynumber: 6.0 Consensus size: 60
5197775 AACATATATT
* * * *
5197785 TGACTCGCATGTAGTAACATATCATTGACTCA-CATAAACAGTGGTTCGCATGTAATAATC
1 TGACTCGCATGTAATAACATATCATTGACT-AGCATAAACAATGGTTCACATGTAATAATG
* * *
5197845 TGACTCGCATGTAATAGCATATCATTTACTAGCATAAACAATGGTTCGCATGTAATAATG
1 TGACTCGCATGTAATAACATATCATTGACTAGCATAAACAATGGTTCACATGTAATAATG
* * * * *
5197905 TGATTCGTATGTAATAACATATCATT-ACCTCA-CATAAATAGTGGTTTCGCATGTAATAATG
1 TGACTCGCATGTAATAACATATCATTGA-CT-AGCATAAACAATGG-TTCACATGTAATAATG
* * * *
5197966 TGACTCGCATGTAATAACATATTATTGACTCGCATAAGCAATGATTCACATGTAATAATG
1 TGACTCGCATGTAATAACATATCATTGACTAGCATAAACAATGGTTCACATGTAATAATG
* * *
5198026 TGACTTGCATGTAATAACATATCATTGACTCGCATAAACAGTGGTTCACATGTAATAATG
1 TGACTCGCATGTAATAACATATCATTGACTAGCATAAACAATGGTTCACATGTAATAATG
* * *
5198086 TGACTCACATG---T--CATATCATTGACTTGCATGAACAATGGTTCACATGTAATAA
1 TGACTCGCATGTAATAACATATCATTGACTAGCATAAACAATGGTTCACATGTAATAA
5198139 CATATACTTG
Statistics
Matches: 259, Mismatches: 29, Indels: 17
0.85 0.10 0.06
Matches are distributed among these distances:
55 38 0.15
57 1 0.00
59 2 0.01
60 167 0.64
61 50 0.19
62 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (60 bp):
TGACTCGCATGTAATAACATATCATTGACTAGCATAAACAATGGTTCACATGTAATAATG
Found at i:5198008 original size:121 final size:118
Alignment explanation
Indices: 5197785--5198138 Score: 468
Period size: 121 Copynumber: 3.0 Consensus size: 118
5197775 AACATATATT
* * *
5197785 TGACTCGCATGTAGTAACATATCATTGACTCACATAAACAGTGGTTCGCATGTAATAATCTGACT
1 TGACTTGCATGTAATAACATATCATTGACTCACATAAACAGTGGTTCGCATGTAATAATGTGACT
* *
5197850 CGCATGTAATAGCATATCATTTACTAGCATAAACAATGGTTCGCATGTAATAATG
66 CGCATGTAATA-CATATCATTGACTAGCAT-AACAATGGTTCACATGTAATAATG
* *
5197905 TGA-TTCGTATGTAATAACATATCATT-ACCTCACATAAATAGTGGTTTCGCATGTAATAATGTG
1 TGACTT-GCATGTAATAACATATCATTGA-CTCACATAAACAGTGG-TTCGCATGTAATAATGTG
* * *
5197968 ACTCGCATGTAATAACATATTATTGACTCGCATAAGCAATGATTCACATGTAATAATG
63 ACTCGCATGTAAT-ACATATCATTGACTAGCATAA-CAATGGTTCACATGTAATAATG
* *
5198026 TGACTTGCATGTAATAACATATCATTGACTCGCATAAACAGTGGTTCACATGTAATAATGTGACT
1 TGACTTGCATGTAATAACATATCATTGACTCACATAAACAGTGGTTCGCATGTAATAATGTGACT
* *
5198091 CACATG---T-CATATCATTGACTTGCATGAACAATGGTTCACATGTAATAA
66 CGCATGTAATACATATCATTGACTAGCAT-AACAATGGTTCACATGTAATAA
5198139 CATATACTTG
Statistics
Matches: 208, Mismatches: 18, Indels: 21
0.84 0.07 0.09
Matches are distributed among these distances:
115 35 0.17
116 2 0.01
117 1 0.00
119 2 0.01
120 63 0.30
121 101 0.49
122 4 0.02
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (118 bp):
TGACTTGCATGTAATAACATATCATTGACTCACATAAACAGTGGTTCGCATGTAATAATGTGACT
CGCATGTAATACATATCATTGACTAGCATAACAATGGTTCACATGTAATAATG
Found at i:5198153 original size:181 final size:183
Alignment explanation
Indices: 5197767--5198156 Score: 447
Period size: 181 Copynumber: 2.1 Consensus size: 183
5197757 AAGTGACTTG
* * *
5197767 CATGTAATAACATATATTTGACTCGCATGTAGTAACATATCATTGACTCACATAAACAGTGGTTC
1 CATGTAATAACATATA-TTGACTCGCATGTAATAACATATCATTGACTCACATAAACAATGATTC
* * * *
5197832 GCATGTAATAATCTGACTCGCATGTAATAGCATATCATTTACTAGCATAAACAATGGTTCGCATG
65 ACATGTAATAATCTGACTCGCATGTAATAACATATCATTGACTAGCATAAACAATGGTTCACATG
* ** * * *
5197897 TAATAATGTGATTCGTATGTAATAACATATCATTACCTCACATAAATAGTGGTTTCG
130 TAATAATGTGACTCACATG--AT-ACATATCATTACCTCACATAAACAATGGTTTCA
* * * *
5197954 CATGTAAT---A-AT-GTGACTCGCATGTAATAACATATTATTGACTCGCATAAGCAATGATTCA
1 CATGTAATAACATATATTGACTCGCATGTAATAACATATCATTGACTCACATAAACAATGATTCA
* * * *
5198014 CATGTAATAATGTGACTTGCATGTAATAACATATCATTGACTCGCATAAACAGTGGTTCACATGT
66 CATGTAATAATCTGACTCGCATGTAATAACATATCATTGACTAGCATAAACAATGGTTCACATGT
** *
5198079 AATAATGTGACTCACATG-T-CATATCATTGA-CTTGCATGAACAATGG-TTCA
131 AATAATGTGACTCACATGATACATATCATT-ACCTCACATAAACAATGGTTTCA
5198129 CATGTAATAACATATACTTGACTCGCAT
1 CATGTAATAACATATA-TTGACTCGCAT
5198157 AAACAGTGGT
Statistics
Matches: 171, Mismatches: 25, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
175 11 0.06
176 20 0.12
177 1 0.01
178 2 0.01
179 2 0.01
181 124 0.73
183 2 0.01
184 1 0.01
187 8 0.05
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (183 bp):
CATGTAATAACATATATTGACTCGCATGTAATAACATATCATTGACTCACATAAACAATGATTCA
CATGTAATAATCTGACTCGCATGTAATAACATATCATTGACTAGCATAAACAATGGTTCACATGT
AATAATGTGACTCACATGATACATATCATTACCTCACATAAACAATGGTTTCA
Found at i:5200560 original size:111 final size:109
Alignment explanation
Indices: 5200445--5200855 Score: 372
Period size: 117 Copynumber: 3.7 Consensus size: 109
5200435 CAATGGCCTG
* * * * * *
5200445 CACCACC-TTTTTGAAAATTTTTTGAACTTTTTTCGAACACTAGTGCCGACCATTGGCATGAAAA
1 CACCACCATTTTTTAATATTTTTT-AACTTTTTTCGTATACTGGTGCCG-CCATTGACA-GAAAA
*
5200509 AAGTAAAAAAAAAATTTCCAAAAAGGTGGTGCCGGCCATTAGCAGGC
63 AAGTAAAAAAAAAATTTCCAAAAAGGTGGTGCCGGCCATTGGCAGGC
* * *
5200556 CACCACCAAATTTTTTTTTACTTTTTTTTTAACTTTTTTCGTATACTGGTGCTTGCCATTGACAC
1 CACCACC--A---TTTTTTA-ATATTTTTTAACTTTTTTCGTATACTGGTGC-CGCCATTGACA-
* *
5200621 GAAAAAAGTAAAAAAAAAATTCCCATAAAA-GTGGTGCCGACCATTGGCAGGC
58 GAAAAAAGTAAAAAAAAAATTTCCA-AAAAGGTGGTGCCGGCCATTGGCAGGC
** ** * * *
5200673 CACTGCCAATTTTTTTTTCTTTTTTAACTTTTTTCGTATAATGGTGCCTGCCATTGACACAAAAA
1 CACCACC-ATTTTTTAATATTTTTTAACTTTTTTCGTATACTGGTGCC-GCCATTGACAGAAAAA
* *
5200738 AGTAAAAAAAAAA-TTCTCATAAAGGTGGTGCTGGCCATTGGCAGGC
64 AGTAAAAAAAAAATTTC-CAAAAAGGTGGTGCCGGCCATTGGCAGGC
* * * *
5200784 CACCA-CA-----AAATTTTTTTTAACTTTTTTCGTATATTGGTGCCGACCATTAACACGAAAAA
1 CACCACCATTTTTTAATATTTTTTAACTTTTTTCGTATACTGGTGCCG-CCATTGACA-G-AAAA
5200843 AAGTAAAAAAAAA
63 AAGTAAAAAAAAA
5200856 TTCTGGTGCC
Statistics
Matches: 252, Mismatches: 33, Indels: 35
0.79 0.10 0.11
Matches are distributed among these distances:
103 1 0.00
104 37 0.15
106 17 0.07
109 1 0.00
110 6 0.02
111 50 0.20
112 39 0.15
113 6 0.02
116 2 0.01
117 82 0.33
118 11 0.04
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (109 bp):
CACCACCATTTTTTAATATTTTTTAACTTTTTTCGTATACTGGTGCCGCCATTGACAGAAAAAAG
TAAAAAAAAAATTTCCAAAAAGGTGGTGCCGGCCATTGGCAGGC
Found at i:5200583 original size:12 final size:12
Alignment explanation
Indices: 5200566--5200594 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
5200556 CACCACCAAA
5200566 TTTTTTTTT-AC
1 TTTTTTTTTAAC
5200577 TTTTTTTTTAAC
1 TTTTTTTTTAAC
5200589 TTTTTT
1 TTTTTT
5200595 CGTATACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTTTTTTAAC
Found at i:5200615 original size:117 final size:115
Alignment explanation
Indices: 5200462--5200810 Score: 433
Period size: 117 Copynumber: 3.0 Consensus size: 115
5200452 TTTTTGAAAA
* * * * * *
5200462 TTTTTTGAACTTTTTTCGAACACTAGTGCCGACCATTGGCATGAAAAAAGTAAAAAAAAAATTTC
1 TTTTTTTAACTTTTTTCGTATACTGGTGCTG-CCATTGACA-GAAAAAAGTAAAAAAAAAATTTC
*
5200527 CAAAAAGGTGGTGCCGGCCATTAGCAGGCCACCACCAAATTTTTTTTTACTT
64 CAAAAAGGTGGTGCCGGCCATTGGCAGGCCACCACCAAATTTTTTTTTACTT
*
5200579 TTTTTTTAACTTTTTTCGTATACTGGTGCTTGCCATTGACACGAAAAAAGTAAAAAAAAAATTCC
1 TTTTTTTAACTTTTTTCGTATACTGGTGC-TGCCATTGACA-GAAAAAAGTAAAAAAAAAATTTC
* **
5200644 CATAAAA-GTGGTGCCGACCATTGGCAGGCCACTGCC-AATTTTTTTTT-C--
64 CA-AAAAGGTGGTGCCGGCCATTGGCAGGCCACCACCAAATTTTTTTTTACTT
* *
5200692 -TTTTTTAACTTTTTTCGTATAATGGTGCCTGCCATTGACACAAAAAAGTAAAAAAAAAA-TTCT
1 TTTTTTTAACTTTTTTCGTATACTGGTG-CTGCCATTGACAGAAAAAAGTAAAAAAAAAATTTC-
* * * *
5200755 CATAAAGGTGGTGCTGGCCATTGGCAGGCCACCACAAAATTTTTTTTAACTT
64 CAAAAAGGTGGTGCCGGCCATTGGCAGGCCACCACCAAATTTTTTTTTACTT
5200807 TTTT
1 TTTT
5200811 CGTATATTGG
Statistics
Matches: 200, Mismatches: 22, Indels: 21
0.82 0.09 0.09
Matches are distributed among these distances:
110 5 0.03
111 44 0.22
112 47 0.23
113 2 0.01
115 1 0.00
116 14 0.07
117 82 0.41
118 5 0.03
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.34
Consensus pattern (115 bp):
TTTTTTTAACTTTTTTCGTATACTGGTGCTGCCATTGACAGAAAAAAGTAAAAAAAAAATTTCCA
AAAAGGTGGTGCCGGCCATTGGCAGGCCACCACCAAATTTTTTTTTACTT
Found at i:5204325 original size:35 final size:35
Alignment explanation
Indices: 5204274--5204344 Score: 126
Period size: 35 Copynumber: 2.0 Consensus size: 35
5204264 TAGGGAGAAA
5204274 TCCGACGGAAAGCGTTGTGGATTATGTAGGTTAAG
1 TCCGACGGAAAGCGTTGTGGATTATGTAGGTTAAG
5204309 TCCGACGGTAAA-CGTTGTGGATTATGTAGGTTAAG
1 TCCGACGG-AAAGCGTTGTGGATTATGTAGGTTAAG
5204344 T
1 T
5204345 GGTCATAGTC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
35 32 0.91
36 3 0.09
ACGTcount: A:0.25, C:0.11, G:0.32, T:0.31
Consensus pattern (35 bp):
TCCGACGGAAAGCGTTGTGGATTATGTAGGTTAAG
Found at i:5209799 original size:17 final size:17
Alignment explanation
Indices: 5209779--5209823 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
5209769 TATTTATACT
5209779 TGTATTATATTTGTGAA
1 TGTATTATATTTGTGAA
5209796 TGTATTATATTTGTGAA
1 TGTATTATATTTGTGAA
*
5209813 TGTAATATATT
1 TGTATTATATT
5209824 AAGATTTTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (17 bp):
TGTATTATATTTGTGAA
Found at i:5213254 original size:18 final size:18
Alignment explanation
Indices: 5213233--5213270 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
5213223 TATCTTGATG
5213233 GAGAATTGTTTGAAAATT
1 GAGAATTGTTTGAAAATT
5213251 GAGAATTGTTTGAAAATT
1 GAGAATTGTTTGAAAATT
5213269 GA
1 GA
5213271 CTTCAATGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.37
Consensus pattern (18 bp):
GAGAATTGTTTGAAAATT
Found at i:5215214 original size:21 final size:23
Alignment explanation
Indices: 5215181--5215225 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
5215171 TTATTATACT
5215181 TATATACATGC-ATTTTTATATAG
1 TATATACA-GCAATTTTTATATAG
5215204 TATATAC-GCATATTTTTATATA
1 TATATACAGCA-ATTTTTATATA
5215226 ACACACATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 2 0.10
23 18 0.90
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.49
Consensus pattern (23 bp):
TATATACAGCAATTTTTATATAG
Found at i:5219761 original size:42 final size:43
Alignment explanation
Indices: 5219713--5219943 Score: 180
Period size: 43 Copynumber: 5.4 Consensus size: 43
5219703 CCGCTATAGG
* *
5219713 ACATGACCTTTAGCGGTGCTTTTTCCACAAACGCCACTAAAGA
1 ACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGA
* * * * *
5219756 A-ATGACCTTTAACGGCACTTTTCCCACAAACGGCGCTATAGA
1 ACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGA
* * * *
5219798 ACATGACCTTTAGTGGCGCTTTTCCCACAAATGGCGCTATAA-A
1 ACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCACTA-AAGA
* * * * **
5219841 ACATGATC-TTAGCGGTGCTTTCCCCACAAATGCTGCTAAAGA
1 ACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGA
* * ** * * * *
5219883 ACAAGACTTTTAGTTGCGCTTTTACTAAAAACGCCACTAAAGG
1 ACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGA
* **
5219926 TCATGTTCTTTAGCGGCG
1 ACATGACCTTTAGCGGCG
5219944 TCTGTAGAAA
Statistics
Matches: 145, Mismatches: 39, Indels: 8
0.76 0.20 0.04
Matches are distributed among these distances:
41 2 0.01
42 66 0.46
43 76 0.52
44 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (43 bp):
ACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGA
Found at i:5219820 original size:43 final size:43
Alignment explanation
Indices: 5219704--5219905 Score: 194
Period size: 42 Copynumber: 4.7 Consensus size: 43
5219694 TTTATGACGC
* * * *
5219704 CGCTATAGGACATGACCTTTAGCGGTGCTTTTTCCACAAACGC
1 CGCTATAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGG
* * * *
5219747 CACTAAAGAA-ATGACCTTTAACGGCACTTTTCCCACAAACGG
1 CGCTATAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGG
* *
5219789 CGCTATAGAACATGACCTTTAGTGGCGCTTTTCCCACAAATGG
1 CGCTATAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGG
* * * * *
5219832 CGCTATAAAACATGATC-TTAGCGGTGCTTTCCCCACAAA-TG
1 CGCTATAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGG
* * * **
5219873 CTGCTAAAGAACAAGACTTTTAGTTGCGCTTTT
1 C-GCTATAGAACATGACCTTTAGCGGCGCTTTT
5219906 ACTAAAAACG
Statistics
Matches: 127, Mismatches: 29, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
41 2 0.02
42 65 0.51
43 60 0.47
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (43 bp):
CGCTATAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGG
Found at i:5219867 original size:85 final size:84
Alignment explanation
Indices: 5219704--5219924 Score: 212
Period size: 85 Copynumber: 2.6 Consensus size: 84
5219694 TTTATGACGC
* * * *
5219704 CGCTATAGGACATGACCTTTAGCGGTGCTTTTTCCACAAACGCCACTAAAGAAATGACCTTTAAC
1 CGCTATAGAACATGACCTTTAGTGGCGCTTTTCCCACAAACGCCACTAAAGAAATGACCTTTAAC
*
5219769 GGCACTTTTCCCACAAACGG
66 GGCACTTTCCCCACAAA-GG
* * * *
5219789 CGCTATAGAACATGACCTTTAGTGGCGCTTTTCCCACAAATGGCGCTATAA-AACATGATC-TTA
1 CGCTATAGAACATGACCTTTAGTGGCGCTTTTCCCACAAACGCCACTA-AAGAA-ATGACCTTTA
* ** *
5219852 GCGGTGCTTTCCCCACAAATG
64 ACGGCACTTTCCCCACAAAGG
* * * * * * *
5219873 CTGCTAAAGAACAAGACTTTTAGTTGCGCTTTTACTAAAAACGCCACTAAAG
1 C-GCTATAGAACATGACCTTTAGTGGCGCTTTTCCCACAAACGCCACTAAAG
5219925 GTCATGTTCT
Statistics
Matches: 109, Mismatches: 23, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
84 4 0.04
85 98 0.90
86 7 0.06
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (84 bp):
CGCTATAGAACATGACCTTTAGTGGCGCTTTTCCCACAAACGCCACTAAAGAAATGACCTTTAAC
GGCACTTTCCCCACAAAGG
Found at i:5220294 original size:21 final size:21
Alignment explanation
Indices: 5220269--5220318 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
5220259 TTTTGCTTTG
*
5220269 CTCTGCTTCCCTTGCTGCTGC
1 CTCTGCTTCCCTCGCTGCTGC
*
5220290 CTCTGTTTCCCTCGCTGCTGC
1 CTCTGCTTCCCTCGCTGCTGC
*
5220311 CTCCGCTT
1 CTCTGCTT
5220319 TAAGTTGTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.00, C:0.44, G:0.18, T:0.38
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCTGC
Found at i:5225011 original size:40 final size:40
Alignment explanation
Indices: 5224956--5225035 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
5224946 ATATATTCTG
*
5224956 TATTCATATTCATCCAACGAGATTTATCGCAAACATGACA
1 TATTCATATTCATCCAACGAGATTTACCGCAAACATGACA
*
5224996 TATTCATATTCATCCAATGAGATTTACCGCAAACATGACA
1 TATTCATATTCATCCAACGAGATTTACCGCAAACATGACA
5225036 AGGCTGTTGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.30
Consensus pattern (40 bp):
TATTCATATTCATCCAACGAGATTTACCGCAAACATGACA
Found at i:5225247 original size:15 final size:15
Alignment explanation
Indices: 5225223--5225252 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5225213 TCTGGTCCAC
*
5225223 CCTCCTAAACATTTT
1 CCTCCCAAACATTTT
5225238 CCTCCCAAACATTTT
1 CCTCCCAAACATTTT
5225253 AAGTGAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.37, G:0.00, T:0.37
Consensus pattern (15 bp):
CCTCCCAAACATTTT
Found at i:5225778 original size:20 final size:20
Alignment explanation
Indices: 5225753--5225793 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
5225743 GAAAAGTTTG
5225753 TACTCCATTTCGATAGTCAT
1 TACTCCATTTCGATAGTCAT
5225773 TACTCCATTTCGATAGTCAT
1 TACTCCATTTCGATAGTCAT
5225793 T
1 T
5225794 GCTTACCTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.10, T:0.41
Consensus pattern (20 bp):
TACTCCATTTCGATAGTCAT
Found at i:5226015 original size:9 final size:9
Alignment explanation
Indices: 5226001--5226113 Score: 104
Period size: 9 Copynumber: 12.6 Consensus size: 9
5225991 TATTTATGTA
5226001 TTATGTAAG
1 TTATGTAAG
5226010 TTATGTAAG
1 TTATGTAAG
*
5226019 TTATGATATG
1 TTATG-TAAG
* * *
5226029 ATATAT-AT
1 TTATGTAAG
5226037 TTATGTAAG
1 TTATGTAAG
*
5226046 TTATGTAAA
1 TTATGTAAG
*
5226055 TTATGAAAG
1 TTATGTAAG
5226064 TTATGTAAG
1 TTATGTAAG
*
5226073 TTATGATATG
1 TTATG-TAAG
* * *
5226083 ATATAT-AT
1 TTATGTAAG
5226091 TTATGTAAG
1 TTATGTAAG
5226100 TTATGTAAG
1 TTATGTAAG
5226109 TTATG
1 TTATG
5226114 ATTATCATCT
Statistics
Matches: 80, Mismatches: 20, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
8 8 0.10
9 60 0.75
10 12 0.15
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:5226041 original size:27 final size:27
Alignment explanation
Indices: 5226010--5226104 Score: 131
Period size: 27 Copynumber: 3.5 Consensus size: 27
5226000 ATTATGTAAG
5226010 TTATGTAAGTTATGATATGATATATAT
1 TTATGTAAGTTATGATATGATATATAT
* * *
5226037 TTATGTAAGTTATG-TA-AATTATGAAAG
1 TTATGTAAGTTATGATATGA-TAT-ATAT
5226064 TTATGTAAGTTATGATATGATATATAT
1 TTATGTAAGTTATGATATGATATATAT
5226091 TTATGTAAGTTATG
1 TTATGTAAGTTATG
5226105 TAAGTTATGA
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
25 1 0.02
26 5 0.09
27 46 0.79
28 5 0.09
29 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (27 bp):
TTATGTAAGTTATGATATGATATATAT
Found at i:5226065 original size:54 final size:54
Alignment explanation
Indices: 5226000--5226114 Score: 212
Period size: 54 Copynumber: 2.1 Consensus size: 54
5225990 ATATTTATGT
*
5226000 ATTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTAAGTTATGTAA
1 ATTATGAAAGTTATGTAAGTTATGATATGATATATATTTATGTAAGTTATGTAA
5226054 ATTATGAAAGTTATGTAAGTTATGATATGATATATATTTATGTAAGTTATGTAA
1 ATTATGAAAGTTATGTAAGTTATGATATGATATATATTTATGTAAGTTATGTAA
*
5226108 GTTATGA
1 ATTATGA
5226115 TTATCATCTT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 59 1.00
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.45
Consensus pattern (54 bp):
ATTATGAAAGTTATGTAAGTTATGATATGATATATATTTATGTAAGTTATGTAA
Found at i:5226936 original size:43 final size:43
Alignment explanation
Indices: 5226889--5227116 Score: 286
Period size: 43 Copynumber: 5.3 Consensus size: 43
5226879 AAAAAAAAAT
* *
5226889 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTATCACAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGACGCTTTTATCACAAAC
* *
5226932 GCCGCTAAAGATCATGACCTTTAGCGACGCTTTTATCACAAAT
1 GCCGCTAAAGAACATGACCTTTAGCGACGCTTTTATCACAAAC
* * * *
5226975 GCCGCTAAAGACCATAACCTTTAGC-AGCGCTTCTATGACAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGA-CGCTTTTATCACAAAC
*
5227018 GCCGCTAAAGAACATGACTTTTAGCGACGCTTTTATCACAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGACGCTTTTATCACAAAC
* * *
5227061 GCCGCTATAA-AACA-AACCTTTAGCGACGCTTCTCA-CAAAAAC
1 GCCGCTA-AAGAACATGACCTTTAGCGACGCTT-TTATCACAAAC
5227103 GCCGCTAAA-AACAT
1 GCCGCTAAAGAACAT
5227117 AACATTTAAA
Statistics
Matches: 163, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
41 6 0.04
42 29 0.18
43 125 0.77
44 3 0.02
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.23
Consensus pattern (43 bp):
GCCGCTAAAGAACATGACCTTTAGCGACGCTTTTATCACAAAC
Found at i:5227016 original size:86 final size:85
Alignment explanation
Indices: 5226885--5227116 Score: 319
Period size: 86 Copynumber: 2.7 Consensus size: 85
5226875 GCCCAAAAAA
* * *
5226885 AAATGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGATCATGAC
1 AAATGCCGCTAAAGACCATAACCTTTAGC-GCGCTTCTATCACAAACGCCGCTAAAGAACATGAC
5226950 CTTTAGCGACGCTTTTATCAC
65 CTTTAGCGACGCTTTTATCAC
*
5226971 AAATGCCGCTAAAGACCATAACCTTTAGCAGCGCTTCTATGACAAACGCCGCTAAAGAACATGAC
1 AAATGCCGCTAAAGACCATAACCTTTAGC-GCGCTTCTATCACAAACGCCGCTAAAGAACATGAC
*
5227036 TTTTAGCGACGCTTTTATCAC
65 CTTTAGCGACGCTTTTATCAC
* * *
5227057 AAACGCCGCTATAA-AACA-AACCTTTAGCGACGCTTCTCA-CAAAAACGCCGCTAAA-AACAT
1 AAATGCCGCTA-AAGACCATAACCTTTAGCG-CGCTTCT-ATCACAAACGCCGCTAAAGAACAT
5227117 AACATTTAAA
Statistics
Matches: 133, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
84 6 0.05
85 31 0.23
86 94 0.71
87 2 0.02
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.23
Consensus pattern (85 bp):
AAATGCCGCTAAAGACCATAACCTTTAGCGCGCTTCTATCACAAACGCCGCTAAAGAACATGACC
TTTAGCGACGCTTTTATCAC
Found at i:5228943 original size:15 final size:15
Alignment explanation
Indices: 5228910--5228947 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
5228900 TCCCAACCCT
5228910 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
5228924 T-AATCCATAATCCC
1 TAAATCCATAATCCC
5228938 TAAATCCATA
1 TAAATCCATA
5228948 CTCCTTAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.09
14 12 0.55
15 8 0.36
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:5228956 original size:15 final size:15
Alignment explanation
Indices: 5228907--5228956 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
5228897 AAATCCCAAC
5228907 CCTTAAA-CCATAAT
1 CCTTAAATCCATAAT
*
5228921 CCCT-AATCCATAAT
1 CCTTAAATCCATAAT
* *
5228935 CCCTAAATCCATACT
1 CCTTAAATCCATAAT
5228950 CCTTAAA
1 CCTTAAA
5228957 CCTTAAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
13 2 0.06
14 14 0.45
15 15 0.48
ACGTcount: A:0.38, C:0.34, G:0.00, T:0.28
Consensus pattern (15 bp):
CCTTAAATCCATAAT
Found at i:5229232 original size:57 final size:59
Alignment explanation
Indices: 5229136--5229262 Score: 147
Period size: 57 Copynumber: 2.2 Consensus size: 59
5229126 CCTGAATCCT
* * * *
5229136 TAAACCCTAAATCCTTAACTCTTAACCTCATAACGTCTAACTCTTAAA-CCACTAAC-CCC
1 TAAACCTTAAATCCTCAACCCTTAAACTCATAACGTCTAACTCTTAAACCCA-T-ACTCCC
*
5229195 TAAACCTTAAATCC-CAACCCTTAAAC-CATAATC-TCTAATTCTTAAACCCATACTCCC
1 TAAACCTTAAATCCTCAACCCTTAAACTCATAA-CGTCTAACTCTTAAACCCATACTCCC
5229252 TAAACCTTAAA
1 TAAACCTTAAA
5229263 ATAGTAATTC
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
56 2 0.03
57 32 0.53
58 13 0.22
59 13 0.22
ACGTcount: A:0.38, C:0.34, G:0.01, T:0.28
Consensus pattern (59 bp):
TAAACCTTAAATCCTCAACCCTTAAACTCATAACGTCTAACTCTTAAACCCATACTCCC
Found at i:5229260 original size:22 final size:21
Alignment explanation
Indices: 5229195--5229262 Score: 57
Period size: 22 Copynumber: 3.2 Consensus size: 21
5229185 CACTAACCCC
* *
5229195 TAAACCTTAAATCCC-AACCCT
1 TAAACCAT-AATCCCTAAACCT
* **
5229216 TAAACCATAATCTCTAATTCT
1 TAAACCATAATCCCTAAACCT
*
5229237 TAAACCCATACTCCCTAAACCT
1 TAAA-CCATAATCCCTAAACCT
5229259 TAAA
1 TAAA
5229263 ATAGTAATTC
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
20 5 0.14
21 15 0.41
22 17 0.46
ACGTcount: A:0.40, C:0.32, G:0.00, T:0.28
Consensus pattern (21 bp):
TAAACCATAATCCCTAAACCT
Found at i:5231291 original size:121 final size:123
Alignment explanation
Indices: 5231064--5231831 Score: 963
Period size: 121 Copynumber: 6.2 Consensus size: 123
5231054 AAAATGATCG
* * *
5231064 TTTGCAGTGTTTTTTTACCTAGCGCCACTAATGCTCGATCTATTGCGGCG-TTTTCACCTAGTAC
1 TTTGCAGCG-TTTTTTACCTAGCGCCGCTAATGCTCGATCTATTGCGGCGTTTTTCACCTAGCAC
*
5231128 CGCTAATGCCACTAAAGACGCCACTTAAAATGGCGCTATTTTGTTTAAAGT-AAA-TTT
65 CGCTAATGCCACTAAAGACGCCACTTAAAATGGCGCCATTTTGTTTAAAGTAAAATTTT
* * ** *
5231185 TTTACAGCGTTTTTTACCTAGCGCCGCTAATGCTCTATCTATTGTAGCGTTTTTCACCTAGCGCC
1 TTTGCAGCGTTTTTTACCTAGCGCCGCTAATGCTCGATCTATTGCGGCGTTTTTCACCTAGCACC
* *
5231250 GCTAATGCCACTAAAGACGCTACTTAAAATGGCGCCGTTTTGTTTAAAGTAAAATGTTTTT
66 GCTAATGCCACTAAAGACGCCACTTAAAATGGCGCCATTTTGTTTAAAGTAAAA---TTTT
* * * * **
5231311 TTTGCGGCGTTTTTTACCTAGTGCCGCTAACGCTTGATCTATTGCGGCGTTTTTCACCTAGTGCC
1 TTTGCAGCGTTTTTTACCTAGCGCCGCTAATGCTCGATCTATTGCGGCGTTTTTCACCTAGCACC
* ** *
5231376 GCTAATGCCATTAAAGACGCCACTTAAAACAGCGTCATTTTGTTTAAAGTAAAATGTTT
66 GCTAATGCCACTAAAGACGCCACTTAAAATGGCGCCATTTTGTTTAAAGTAAAAT-TTT
** * * * ** **
5231435 TTTGTGGTGTTTTTTACCTAGCGCCGCTAACGCTCGATCTATTGTGGTTTTTTTCACCTAATACC
1 TTTGCAGCGTTTTTTACCTAGCGCCGCTAATGCTCGATCTATTGCGGCGTTTTTCACCTAGCACC
* **
5231500 GCTAATGCCACTAAAGACGCCACTTAAAATGGCACTGTTTTGTTTAAAGT-AAA-TTT
66 GCTAATGCCACTAAAGACGCCACTTAAAATGGCGCCATTTTGTTTAAAGTAAAATTTT
* * * *
5231556 TTTACAGCGTTTTTTACCTAGCGTCGCTAATGCTCGATCTATTGCGGAGTTTTTCACCTAGCGCC
1 TTTGCAGCGTTTTTTACCTAGCGCCGCTAATGCTCGATCTATTGCGGCGTTTTTCACCTAGCACC
* *** *
5231621 GCTAATGCCACTAAAGACACCACTTAAAACAACGCCTTTTTGTTTAAAGTAAACTATTTT
66 GCTAATGCCACTAAAGACGCCACTTAAAATGGCGCCATTTTGTTTAAAGTAAA--ATTTT
* * * * *
5231681 TTTGCAACGTTTTTTACCTAGCGCCGCTAATGCTTGATCTATTGCAGCGTCTTTCACCTAGCATC
1 TTTGCAGCGTTTTTTACCTAGCGCCGCTAATGCTCGATCTATTGCGGCGTTTTTCACCTAGCACC
**
5231746 GCTAATGCCACTAAAGACGCCACTTAAAATGATGCCATTTTGTTTAAAGTAAAATGTTTT
66 GCTAATGCCACTAAAGACGCCACTTAAAATGGCGCCATTTTGTTTAAAGTAAAA--TTTT
5231806 TTTGC-GACGTTTTTTACCTAGCGCCG
1 TTTGCAG-CGTTTTTTACCTAGCGCCG
5231832 GTAACGCTAG
Statistics
Matches: 557, Mismatches: 76, Indels: 24
0.85 0.12 0.04
Matches are distributed among these distances:
120 36 0.06
121 166 0.30
122 5 0.01
123 5 0.01
124 103 0.18
125 135 0.24
126 107 0.19
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.36
Consensus pattern (123 bp):
TTTGCAGCGTTTTTTACCTAGCGCCGCTAATGCTCGATCTATTGCGGCGTTTTTCACCTAGCACC
GCTAATGCCACTAAAGACGCCACTTAAAATGGCGCCATTTTGTTTAAAGTAAAATTTT
Found at i:5231791 original size:370 final size:370
Alignment explanation
Indices: 5231074--5231839 Score: 1153
Period size: 371 Copynumber: 2.1 Consensus size: 370
5231064 TTTGCAGTGT
* * *
5231074 TTTTTTACCTAGCGCCACTAATGCTCGATCTATTGCGGCGTTTTCACCTAGTACCGCTAATGCCA
1 TTTTTTACCTAGCGCCGCTAACGCTCGATCTATTGCGGCGTTTTCACCTAATACCGCTAATGCCA
*
5231139 CTAAAGACGCCACTTAAAATGGCGCTATTTTGTTTAAAGTAAATTTTTTACAGCGTTTTTTACCT
66 CTAAAGACGCCACTTAAAATGGCACTATTTTGTTTAAAGTAAATTTTTTACAGCGTTTTTTACCT
* * * *
5231204 AGCGCCGCTAATGCTCTATCTATTGTAGCGTTTTTCACCTAGCGCCGCTAATGCCACTAAAGACG
131 AGCGCCGCTAATGCTCGATCTATTGCAGAGTTTTTCACCTAGCGCCGCTAATGCCACTAAAGACA
* *** * ** *
5231269 CTACTTAAAATGGCGCCGTTTTGTTTAAAGTAAAATGTTTTTTTTGCGGCGTTTTTTACCTAGTG
196 CCACTTAAAACAACGCCGTTTTGTTTAAAGTAAAATGATTTTTTTGCAACGTTTTTTACCTAGCG
* * ** *
5231334 CCGCTAACGCTTGATCTATTGCGGCGTTTTTCACCTAGTGCCGCTAATGCCATTAAAGACGCCAC
261 CCGCTAACGCTTGATCTATTGCAGCGTCTTTCACCTAGCACCGCTAATGCCACTAAAGACGCCAC
*
5231399 TTAAAACAGCGTCATTTTGTTTAAAGTAAAATGTTTTTTGTG-G-TG
326 TTAAAACAGCG-CATTTTGTTTAAAGTAAAATGTTTTTT-TGCGACG
* **
5231444 TTTTTTACCTAGCGCCGCTAACGCTCGATCTATTGTGGTTTTTTTCACCTAATACCGCTAATGCC
1 TTTTTTACCTAGCGCCGCTAACGCTCGATCTATTGCGG-CGTTTTCACCTAATACCGCTAATGCC
*
5231509 ACTAAAGACGCCACTTAAAATGGCACTGTTTTGTTTAAAGTAAATTTTTTACAGCGTTTTTTACC
65 ACTAAAGACGCCACTTAAAATGGCACTATTTTGTTTAAAGTAAATTTTTTACAGCGTTTTTTACC
* *
5231574 TAGCGTCGCTAATGCTCGATCTATTGCGGAGTTTTTCACCTAGCGCCGCTAATGCCACTAAAGAC
130 TAGCGCCGCTAATGCTCGATCTATTGCAGAGTTTTTCACCTAGCGCCGCTAATGCCACTAAAGAC
* *
5231639 ACCACTTAAAACAACGCCTTTTTGTTTAAAGTAAACT-ATTTTTTTGCAACGTTTTTTACCTAGC
195 ACCACTTAAAACAACGCCGTTTTGTTTAAAGTAAAATGATTTTTTTGCAACGTTTTTTACCTAGC
* *
5231703 GCCGCTAATGCTTGATCTATTGCAGCGTCTTTCACCTAGCATCGCTAATGCCACTAAAGACGCCA
260 GCCGCTAACGCTTGATCTATTGCAGCGTCTTTCACCTAGCACCGCTAATGCCACTAAAGACGCCA
*
5231768 CTTAAAATGATGC-CATTTTGTTTAAAGTAAAATGTTTTTTTGCGACG
325 CTTAAAA-CA-GCGCATTTTGTTTAAAGTAAAATGTTTTTTTGCGACG
*
5231815 TTTTTTACCTAGCGCCGGTAACGCT
1 TTTTTTACCTAGCGCCGCTAACGCT
5231840 AGGTTTTTTT
Statistics
Matches: 357, Mismatches: 34, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
369 2 0.01
370 151 0.42
371 202 0.57
372 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.36
Consensus pattern (370 bp):
TTTTTTACCTAGCGCCGCTAACGCTCGATCTATTGCGGCGTTTTCACCTAATACCGCTAATGCCA
CTAAAGACGCCACTTAAAATGGCACTATTTTGTTTAAAGTAAATTTTTTACAGCGTTTTTTACCT
AGCGCCGCTAATGCTCGATCTATTGCAGAGTTTTTCACCTAGCGCCGCTAATGCCACTAAAGACA
CCACTTAAAACAACGCCGTTTTGTTTAAAGTAAAATGATTTTTTTGCAACGTTTTTTACCTAGCG
CCGCTAACGCTTGATCTATTGCAGCGTCTTTCACCTAGCACCGCTAATGCCACTAAAGACGCCAC
TTAAAACAGCGCATTTTGTTTAAAGTAAAATGTTTTTTTGCGACG
Found at i:5232730 original size:15 final size:14
Alignment explanation
Indices: 5232694--5232746 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
5232684 CAAAATCCCT
*
5232694 AACCCTAAAACATA
1 AACCCTAAATCATA
* *
5232708 AACACTAAATCCTAA
1 AACCCTAAATCAT-A
*
5232723 AACCCTAAATCTTTA
1 AACCCTAAATC-ATA
5232738 AACCCTAAA
1 AACCCTAAA
5232747 CTATAAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
14 10 0.31
15 21 0.66
16 1 0.03
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.21
Consensus pattern (14 bp):
AACCCTAAATCATA
Found at i:5232795 original size:7 final size:7
Alignment explanation
Indices: 5232690--5232845 Score: 73
Period size: 7 Copynumber: 22.0 Consensus size: 7
5232680 TTATCAAAAT
5232690 CCCT-AA
1 CCCTAAA
5232696 CCCTAAA
1 CCCTAAA
* *
5232703 ACATAAA
1 CCCTAAA
*
5232710 CACTAAA
1 CCCTAAA
*
5232717 TCCTAAAA
1 CCCT-AAA
5232725 CCCTAAA
1 CCCTAAA
**
5232732 TCTTTAAA
1 -CCCTAAA
5232740 CCCTAAA
1 CCCTAAA
**
5232747 CTATAAAA
1 CCCT-AAA
**
5232755 AACTAAA
1 CCCTAAA
5232762 CCC-AAA
1 CCCTAAA
*
5232768 CCCCAAA
1 CCCTAAA
*
5232775 CCCCAAA
1 CCCTAAA
* *
5232782 ACATAAA
1 CCCTAAA
5232789 CCCTAAAA
1 CCCT-AAA
*
5232797 CCATAAA
1 CCCTAAA
*
5232804 CCATAAA
1 CCCTAAA
5232811 CCCTAAA
1 CCCTAAA
*
5232818 CCTTAAA
1 CCCTAAA
* *
5232825 TCTTAAA
1 CCCTAAA
* *
5232832 TCATAAA
1 CCCTAAA
5232839 CCCTAAA
1 CCCTAAA
5232846 ATAAAATGAT
Statistics
Matches: 113, Mismatches: 31, Indels: 11
0.73 0.20 0.07
Matches are distributed among these distances:
6 10 0.09
7 82 0.73
8 21 0.19
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.18
Consensus pattern (7 bp):
CCCTAAA
Found at i:5232930 original size:41 final size:41
Alignment explanation
Indices: 5232871--5232995 Score: 144
Period size: 41 Copynumber: 3.0 Consensus size: 41
5232861 GCGGCGTTTT
* * *
5232871 CGCTACTACTAGATCTTTTGCAGCGTTTATGAT-AAAAACGC
1 CGCTACTACTTGACCTTTTGCAGCATTT-TGATCAAAAACGC
* *
5232912 CGCTACTACTTGACCTTTTGCAGCATTTTTATCATAAACGC
1 CGCTACTACTTGACCTTTTGCAGCATTTTGATCAAAAACGC
* * * *
5232953 CGCTACTGCTTGACCTTTTGCGGCATTTTTTATCATAAACGC
1 CGCTACTACTTGACCTTTTGCAGCA-TTTTGATCAAAAACGC
5232995 C
1 C
5232996 ACTATCGCTC
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
40 3 0.04
41 55 0.73
42 17 0.23
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (41 bp):
CGCTACTACTTGACCTTTTGCAGCATTTTGATCAAAAACGC
Found at i:5234732 original size:11 final size:11
Alignment explanation
Indices: 5234703--5234732 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
5234693 TATTTTTAAT
5234703 TAATATTAAAA
1 TAATATTAAAA
5234714 TAAATATTAAAA
1 T-AATATTAAAA
5234726 TAATATT
1 TAATATT
5234733 CTTTAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
TAATATTAAAA
Found at i:5234780 original size:17 final size:17
Alignment explanation
Indices: 5234758--5234794 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
5234748 AACTCGCTTA
5234758 ATTTTAAATGTTTAACT
1 ATTTTAAATGTTTAACT
*
5234775 ATTTTAAATGTTTAATT
1 ATTTTAAATGTTTAACT
5234792 ATT
1 ATT
5234795 CAATTCACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (17 bp):
ATTTTAAATGTTTAACT
Found at i:5237423 original size:34 final size:34
Alignment explanation
Indices: 5237380--5237445 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
5237370 TAAACTCTGT
* *
5237380 TTATTTATTTCAGTTAAACACTGATTAGTTTAGA
1 TTATTTATTTCAATCAAACACTGATTAGTTTAGA
5237414 TTATTTATTTCAATCAAACACTGATTAGTTTA
1 TTATTTATTTCAATCAAACACTGATTAGTTTA
5237446 CAACCTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.33, C:0.11, G:0.09, T:0.47
Consensus pattern (34 bp):
TTATTTATTTCAATCAAACACTGATTAGTTTAGA
Found at i:5241481 original size:41 final size:41
Alignment explanation
Indices: 5241424--5241505 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
5241414 TTTGTAATAG
5241424 AATGAGCCTTTCAATTTAGTGGTTAAACTTTAATGTACTCT
1 AATGAGCCTTTCAATTTAGTGGTTAAACTTTAATGTACTCT
5241465 AATGAGCCTTTCAATTTAGTGGTTAAACTTTAATGTACTCT
1 AATGAGCCTTTCAATTTAGTGGTTAAACTTTAATGTACTCT
5241506 TTAATCTTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (41 bp):
AATGAGCCTTTCAATTTAGTGGTTAAACTTTAATGTACTCT
Found at i:5244999 original size:14 final size:14
Alignment explanation
Indices: 5244980--5245008 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
5244970 TAATGTCTAG
5244980 GCTGAGTTTAGAGT
1 GCTGAGTTTAGAGT
5244994 GCTGAGTTTAGAGT
1 GCTGAGTTTAGAGT
5245008 G
1 G
5245009 TTTCACCTCT
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:0.21, C:0.07, G:0.38, T:0.34
Consensus pattern (14 bp):
GCTGAGTTTAGAGT
Found at i:5248906 original size:28 final size:28
Alignment explanation
Indices: 5248870--5248925 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
5248860 ATAATCCTTT
*
5248870 TTTTATTTACTAAAATATTA-TAAAAAAA
1 TTTTATTTACCAAAATA-TACTAAAAAAA
5248898 TTTTATTTACCAAAATATACTAAAAAAA
1 TTTTATTTACCAAAATATACTAAAAAAA
5248926 ACACAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 2 0.08
28 24 0.92
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (28 bp):
TTTTATTTACCAAAATATACTAAAAAAA
Found at i:5248994 original size:27 final size:26
Alignment explanation
Indices: 5248956--5249013 Score: 89
Period size: 27 Copynumber: 2.2 Consensus size: 26
5248946 GCCTGATCAC
* *
5248956 GCCAATGTCATTGGTGGCACCAATGGT
1 GCCAATGCCATTGGCGGCACCAAT-GT
5248983 GCCAATGCCATTGGCGGCACCAATGT
1 GCCAATGCCATTGGCGGCACCAATGT
5249009 GCCAA
1 GCCAA
5249014 AGGACTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 7 0.24
27 22 0.76
ACGTcount: A:0.24, C:0.28, G:0.28, T:0.21
Consensus pattern (26 bp):
GCCAATGCCATTGGCGGCACCAATGT
Found at i:5249537 original size:19 final size:19
Alignment explanation
Indices: 5249513--5249573 Score: 70
Period size: 19 Copynumber: 3.3 Consensus size: 19
5249503 TCTAATTAAG
5249513 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
* * *
5249532 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTAATT
* *
5249550 TAATAACTATATTTTAAAT
1 TAATAACTCTATTTTAATT
5249569 TAATA
1 TAATA
5249574 GAAATATCAG
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
18 15 0.45
19 18 0.55
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.48
Consensus pattern (19 bp):
TAATAACTCTATTTTAATT
Found at i:5249542 original size:18 final size:18
Alignment explanation
Indices: 5249521--5249573 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
5249511 AGTAATAACT
5249521 CTATTTTAATTTAATAAA
1 CTATTTTAATTTAATAAA
* *
5249539 CTATTCTCATTTAAT-AA
1 CTATTTTAATTTAATAAA
*
5249556 CTATATTTTAAATTAATA
1 C--TATTTTAATTTAATA
5249574 GAAATATCAG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
17 3 0.11
18 13 0.48
19 11 0.41
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (18 bp):
CTATTTTAATTTAATAAA
Found at i:5249963 original size:73 final size:73
Alignment explanation
Indices: 5249844--5249991 Score: 296
Period size: 73 Copynumber: 2.0 Consensus size: 73
5249834 TAATGCGCAC
5249844 GTAATTCACTTTCAAAATTTAAAATGATAAATTTGCATATCAGGTCCTTGAAACTACAAGTGGTC
1 GTAATTCACTTTCAAAATTTAAAATGATAAATTTGCATATCAGGTCCTTGAAACTACAAGTGGTC
5249909 ACATTTTA
66 ACATTTTA
5249917 GTAATTCACTTTCAAAATTTAAAATGATAAATTTGCATATCAGGTCCTTGAAACTACAAGTGGTC
1 GTAATTCACTTTCAAAATTTAAAATGATAAATTTGCATATCAGGTCCTTGAAACTACAAGTGGTC
5249982 ACATTTTA
66 ACATTTTA
5249990 GT
1 GT
5249992 CCTTTGGCAC
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 75 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (73 bp):
GTAATTCACTTTCAAAATTTAAAATGATAAATTTGCATATCAGGTCCTTGAAACTACAAGTGGTC
ACATTTTA
Found at i:5250031 original size:27 final size:26
Alignment explanation
Indices: 5249995--5250051 Score: 96
Period size: 27 Copynumber: 2.2 Consensus size: 26
5249985 TTTTAGTCCT
*
5249995 TTGGCACATTGGTGCCGCCAATGGCA
1 TTGGCACATTGGTGCCACCAATGGCA
5250021 TTGGCACCATTGGTGCCACCAATGGCA
1 TTGGCA-CATTGGTGCCACCAATGGCA
5250048 TTGG
1 TTGG
5250052 GGTGCCGCCA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 6 0.21
27 23 0.79
ACGTcount: A:0.19, C:0.26, G:0.30, T:0.25
Consensus pattern (26 bp):
TTGGCACATTGGTGCCACCAATGGCA
Found at i:5250057 original size:20 final size:20
Alignment explanation
Indices: 5250032--5250071 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
5250022 TGGCACCATT
5250032 GGTGCCACCAATGGCATTGG
1 GGTGCCACCAATGGCATTGG
*
5250052 GGTGCCGCCAATGGCATTGG
1 GGTGCCACCAATGGCATTGG
5250072 CGTGATCAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.17, C:0.25, G:0.38, T:0.20
Consensus pattern (20 bp):
GGTGCCACCAATGGCATTGG
Found at i:5250144 original size:27 final size:27
Alignment explanation
Indices: 5250112--5250166 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 27
5250102 TGTTTTTTTT
5250112 ATTTTTTTAGT-ATATTTT-GATAAATAA
1 ATTTTTTTA-TAATATTTTAG-TAAATAA
5250139 ATTTTTTTATAATATTTTAGTAAATAA
1 ATTTTTTTATAATATTTTAGTAAATAA
5250166 A
1 A
5250167 AAAAAGATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
26 1 0.04
27 24 0.92
28 1 0.04
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (27 bp):
ATTTTTTTATAATATTTTAGTAAATAA
Found at i:5250200 original size:18 final size:19
Alignment explanation
Indices: 5250174--5250212 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
5250164 AAAAAAAAGA
5250174 TTATATTTTAATAA-ATTT
1 TTATATTTTAATAATATTT
* *
5250192 TTATTTTTTTATAATATTT
1 TTATATTTTAATAATATTT
5250211 TT
1 TT
5250213 GTAAAAAACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTATATTTTAATAATATTT
Found at i:5250513 original size:22 final size:23
Alignment explanation
Indices: 5250487--5250536 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
5250477 TTTCCAGCTT
5250487 AATTTTCAA-AAATAAAT-ATATA
1 AATTTT-AATAAATAAATAATATA
*
5250509 AATTTTAATATATAAATAAATATA
1 AATTTTAATAAATAAAT-AATATA
5250533 AATT
1 AATT
5250537 ATATATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 2 0.08
22 13 0.54
24 9 0.38
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
AATTTTAATAAATAAATAATATA
Found at i:5257561 original size:19 final size:19
Alignment explanation
Indices: 5257537--5257583 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
5257527 ATGATAATTA
*
5257537 CCTTTGATTCGTTTTAAAT
1 CCTTTGATTCATTTTAAAT
5257556 CCTTTGATTCATTTTAAAT
1 CCTTTGATTCATTTTAAAT
5257575 CCTTTGATT
1 CCTTTGATT
5257584 GAAATTCTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.21, C:0.17, G:0.09, T:0.53
Consensus pattern (19 bp):
CCTTTGATTCATTTTAAAT
Found at i:5258101 original size:18 final size:18
Alignment explanation
Indices: 5258078--5258113 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
5258068 TTTAAAATTA
5258078 ATTTTTCAAAAATATTTT
1 ATTTTTCAAAAATATTTT
* *
5258096 ATTTTTCTAAATTATTTT
1 ATTTTTCAAAAATATTTT
5258114 TTAATTGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTTTCAAAAATATTTT
Found at i:5263448 original size:18 final size:20
Alignment explanation
Indices: 5263417--5263453 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
5263407 TAATATTTTA
*
5263417 TTTTATATTAAATTTAAATT
1 TTTTATATTAAATTAAAATT
5263437 TTTTATA-T-AATTAAAAT
1 TTTTATATTAAATTAAAAT
5263454 GTCGTATAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.50
19 1 0.06
20 7 0.44
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTTATATTAAATTAAAATT
Found at i:5264996 original size:56 final size:56
Alignment explanation
Indices: 5264902--5265015 Score: 167
Period size: 56 Copynumber: 2.0 Consensus size: 56
5264892 TATTGAGACA
* *
5264902 AATTTGATCAGATTTTATTTCTTTCTTTCTTTAGGATTGAGTCAAT-TCTTGATTAT
1 AATTTGATCAGATCTTATTTCTTTCTTTCTTTAAGATTGAGTCAATCT-TTGATTAT
* * *
5264958 AATTTGATGAGATCTTGTTTCTTTCTTTTTTTAAGATTGAGTCAATCTTTGATTAT
1 AATTTGATCAGATCTTATTTCTTTCTTTCTTTAAGATTGAGTCAATCTTTGATTAT
5265014 AA
1 AA
5265016 AGATTCTTTA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
56 51 0.98
57 1 0.02
ACGTcount: A:0.25, C:0.10, G:0.13, T:0.53
Consensus pattern (56 bp):
AATTTGATCAGATCTTATTTCTTTCTTTCTTTAAGATTGAGTCAATCTTTGATTAT
Found at i:5265827 original size:11 final size:11
Alignment explanation
Indices: 5265798--5265827 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
5265788 TATTTTTAAT
5265798 TAATATTAAAA
1 TAATATTAAAA
5265809 TCAATATTAAAA
1 T-AATATTAAAA
5265821 TAATATT
1 TAATATT
5265828 CTTTAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (11 bp):
TAATATTAAAA
Found at i:5265875 original size:17 final size:17
Alignment explanation
Indices: 5265853--5265889 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
5265843 AACTCGCTTA
5265853 ATTTTAAATGTTTAACT
1 ATTTTAAATGTTTAACT
*
5265870 ATTTTAAATGTTTAATT
1 ATTTTAAATGTTTAACT
5265887 ATT
1 ATT
5265890 CAATTCTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (17 bp):
ATTTTAAATGTTTAACT
Found at i:5267413 original size:23 final size:23
Alignment explanation
Indices: 5267369--5267417 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
5267359 TGAAGGTAGG
* * *
5267369 ATCTGAATCTGTATTTATTATGC
1 ATCTAAATCTGTATCTACTATGC
*
5267392 ATCTAAATCTGTATCTGCTATGC
1 ATCTAAATCTGTATCTACTATGC
5267415 ATC
1 ATC
5267418 GATGTCTGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.43
Consensus pattern (23 bp):
ATCTAAATCTGTATCTACTATGC
Found at i:5267593 original size:13 final size:13
Alignment explanation
Indices: 5267571--5267606 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
5267561 AGGAGCTCGA
*
5267571 TTTTACATTTTTG
1 TTTTATATTTTTG
5267584 TTTTATATTTTTG
1 TTTTATATTTTTG
5267597 TTTTATATTT
1 TTTTATATTT
5267607 CCTAAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.17, C:0.03, G:0.06, T:0.75
Consensus pattern (13 bp):
TTTTATATTTTTG
Found at i:5268212 original size:9 final size:9
Alignment explanation
Indices: 5268198--5268228 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
5268188 GTTAAACGAA
5268198 TCGAGTTAT
1 TCGAGTTAT
*
5268207 TCGAGTTAA
1 TCGAGTTAT
5268216 TCGAGTTAT
1 TCGAGTTAT
5268225 TCGA
1 TCGA
5268229 ATCAACTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:5268470 original size:30 final size:30
Alignment explanation
Indices: 5268436--5268493 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
5268426 TCTACCCAAA
5268436 ATCCA-TTTCCCACCAAAATTTTACTCCCCC
1 ATCCACTTTCCC-CCAAAATTTTACTCCCCC
** *
5268466 ATCCACTTTTTCTCAAAATTTTACTCCC
1 ATCCACTTTCCCCCAAAATTTTACTCCC
5268494 AAAAACCCTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.26, C:0.38, G:0.00, T:0.36
Consensus pattern (30 bp):
ATCCACTTTCCCCCAAAATTTTACTCCCCC
Found at i:5269334 original size:5 final size:5
Alignment explanation
Indices: 5269324--5269349 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
5269314 CTCGAAAATT
5269324 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
5269350 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:5274259 original size:21 final size:22
Alignment explanation
Indices: 5274233--5274279 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
5274223 CTCTGCTCAA
*
5274233 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
5274254 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
5274276 ACTC
1 ACTC
5274280 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:5280928 original size:26 final size:26
Alignment explanation
Indices: 5280897--5280948 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
5280887 AAAATTTGTG
5280897 GTTATTTTGTTTTTTATGTTGCCGTC
1 GTTATTTTGTTTTTTATGTTGCCGTC
5280923 GTTATTTTGTTTTTTATGTTGCCGTC
1 GTTATTTTGTTTTTTATGTTGCCGTC
5280949 TTAGTCATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.08, C:0.12, G:0.19, T:0.62
Consensus pattern (26 bp):
GTTATTTTGTTTTTTATGTTGCCGTC
Found at i:5285571 original size:33 final size:33
Alignment explanation
Indices: 5285529--5285639 Score: 125
Period size: 33 Copynumber: 3.3 Consensus size: 33
5285519 GTGTTTATAT
5285529 GTAAGACCATAGATGGGCTATGGCATTATGAAC
1 GTAAGACCATAGATGGGCTATGGCATTATGAAC
* * * * * * *
5285562 GTAAGACCATGGTTGGACCATGCCAGTGT-TTATAT
1 GTAAGACCATAGATGGGCTATGGCA-T-TATGA-AC
5285597 GTAAGACCATAGATGGGCTATGGCATTATGAAC
1 GTAAGACCATAGATGGGCTATGGCATTATGAAC
5285630 GTAAGACCAT
1 GTAAGACCAT
5285640 GGTTGGTTCA
Statistics
Matches: 60, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
33 32 0.53
34 6 0.10
35 22 0.37
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (33 bp):
GTAAGACCATAGATGGGCTATGGCATTATGAAC
Found at i:5285571 original size:68 final size:68
Alignment explanation
Indices: 5285462--5285707 Score: 361
Period size: 68 Copynumber: 3.6 Consensus size: 68
5285452 AATTGACGGA
* * *
5285462 TAAGACCATA-ACTGGGTTATGGCACTATGAACGTAAGACCATGGTTAGACCATGCCAGTGTTTA
1 TAAGACCATAGA-TGGGCTATGGCATTATGAACGTAAGACCATGGTTGGACCATGCCAGTGTTTA
5285526 TATG
65 TATG
5285530 TAAGACCATAGATGGGCTATGGCATTATGAACGTAAGACCATGGTTGGACCATGCCAGTGTTTAT
1 TAAGACCATAGATGGGCTATGGCATTATGAACGTAAGACCATGGTTGGACCATGCCAGTGTTTAT
5285595 ATG
66 ATG
** ** *
5285598 TAAGACCATAGATGGGCTATGGCATTATGAACGTAAGACCATGGTTGGTTCATGGAAATGTTTAT
1 TAAGACCATAGATGGGCTATGGCATTATGAACGTAAGACCATGGTTGGACCATGCCAGTGTTTAT
5285663 ATG
66 ATG
* * *
5285666 TAAGACCATAGCTAGGCTATGGCATTCTG-ACGATAAGACCAT
1 TAAGACCATAGATGGGCTATGGCATTATGAACG-TAAGACCAT
5285708 ACTGGGTTAT
Statistics
Matches: 165, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
67 3 0.02
68 161 0.98
69 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (68 bp):
TAAGACCATAGATGGGCTATGGCATTATGAACGTAAGACCATGGTTGGACCATGCCAGTGTTTAT
ATG
Found at i:5285759 original size:24 final size:24
Alignment explanation
Indices: 5285727--5285777 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
5285717 TGGCACTACG
5285727 AATGTAAATGATGAATTGACGGAA
1 AATGTAAATGATGAATTGACGGAA
*
5285751 AATGTAAATGATGAATTGACGGCA
1 AATGTAAATGATGAATTGACGGAA
5285775 AAT
1 AAT
5285778 TACCCAAGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.45, C:0.06, G:0.24, T:0.25
Consensus pattern (24 bp):
AATGTAAATGATGAATTGACGGAA
Found at i:5289964 original size:28 final size:29
Alignment explanation
Indices: 5289912--5289967 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
5289902 ATTAGGGTAA
*
5289912 TTTACACTTTAGCCCCTAAAATTCACAATT
1 TTTACAATTTAGCCCCT-AAATTCACAATT
*
5289942 TTTACAATTTAGCCCCT-ATTTCACAA
1 TTTACAATTTAGCCCCTAAATTCACAA
5289968 AACACAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 8 0.33
30 16 0.67
ACGTcount: A:0.32, C:0.27, G:0.04, T:0.38
Consensus pattern (29 bp):
TTTACAATTTAGCCCCTAAATTCACAATT
Found at i:5293243 original size:33 final size:32
Alignment explanation
Indices: 5293198--5293358 Score: 115
Period size: 33 Copynumber: 4.8 Consensus size: 32
5293188 TAGTGTTTAT
5293198 ATGTAAGACCATAGCTGGGCTATGGCATTCTG
1 ATGTAAGACCATAGCTGGGCTATGGCATTCTG
* * * *
5293230 ATGATAAGACCATAACTGGGTTATGGCACTATG
1 ATG-TAAGACCATAGCTGGGCTATGGCATTCTG
* * * * * * * *
5293263 AACGTAAGATCATGGTTGGACCATGGCAATGTTTAT
1 -ATGTAAGACCATAGCTGGGCTATGGC-AT-TCT-G
* *
5293299 ATGTAAGACCATAGTTGGGCTATGACATTCTG
1 ATGTAAGACCATAGCTGGGCTATGGCATTCTG
* * *
5293331 ATGATAAGACCATAACCGGGTTATGGCA
1 ATG-TAAGACCATAGCTGGGCTATGGCA
5293359 CTATGAATGT
Statistics
Matches: 95, Mismatches: 28, Indels: 11
0.71 0.21 0.08
Matches are distributed among these distances:
32 6 0.06
33 62 0.65
34 5 0.05
35 22 0.23
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.28
Consensus pattern (32 bp):
ATGTAAGACCATAGCTGGGCTATGGCATTCTG
Found at i:5293311 original size:101 final size:101
Alignment explanation
Indices: 5293131--5293370 Score: 372
Period size: 101 Copynumber: 2.4 Consensus size: 101
5293121 TGAATTAACA
* * * * *
5293131 GATATGACCATAACTGGTTTATGGCACTATGAATGTAAGACCATGGTTGGGCCACAGTAGTGTTT
1 GATAAGACCATAACTGGGTTATGGCACTATGAATGTAAGACCATGGTTGGACCACAGCAATGTTT
*
5293196 ATATGTAAGACCATAGCTGGGCTATGGCATTCTGAT
66 ATATGTAAGACCATAGCTGGGCTATGACATTCTGAT
* * **
5293232 GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGATCATGGTTGGACCATGGCAATGTTT
1 GATAAGACCATAACTGGGTTATGGCACTATGAATGTAAGACCATGGTTGGACCACAGCAATGTTT
*
5293297 ATATGTAAGACCATAGTTGGGCTATGACATTCTGAT
66 ATATGTAAGACCATAGCTGGGCTATGACATTCTGAT
*
5293333 GATAAGACCATAACCGGGTTATGGCACTATGAATGTAA
1 GATAAGACCATAACTGGGTTATGGCACTATGAATGTAA
5293371 AGGATGAATT
Statistics
Matches: 126, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 126 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (101 bp):
GATAAGACCATAACTGGGTTATGGCACTATGAATGTAAGACCATGGTTGGACCACAGCAATGTTT
ATATGTAAGACCATAGCTGGGCTATGACATTCTGAT
Found at i:5293396 original size:24 final size:24
Alignment explanation
Indices: 5293364--5293414 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
5293354 TGGCACTATG
5293364 AATGTAAAGGATGAATTGACGGAA
1 AATGTAAAGGATGAATTGACGGAA
*
5293388 AATGTAAAGGATGAATTGACGGCA
1 AATGTAAAGGATGAATTGACGGAA
5293412 AAT
1 AAT
5293415 TACCCAAGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.45, C:0.06, G:0.27, T:0.22
Consensus pattern (24 bp):
AATGTAAAGGATGAATTGACGGAA
Done.