Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr4
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: 30015117
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1306243 characters in sequence are not A, C, G, or T
File 17 of 85
Found at i:5603898 original size:39 final size:39
Alignment explanation
Indices: 5603854--5603930 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
5603844 ATTGATAGCT
5603854 TGCCCCAAAGTATCAATACCATAGCTTGGTGTCTATACA
1 TGCCCCAAAGTATCAATACCATAGCTTGGTGTCTATACA
*
5603893 TGCCCCAAAGTATCAATACCATATCTTGGTGTCTATAC
1 TGCCCCAAAGTATCAATACCATAGCTTGGTGTCTATAC
5603931 CATATTGTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (39 bp):
TGCCCCAAAGTATCAATACCATAGCTTGGTGTCTATACA
Found at i:5607354 original size:18 final size:18
Alignment explanation
Indices: 5607327--5607361 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
5607317 CTAATTTTTT
5607327 TTTACATTATAT-TATTA
1 TTTACATTATATATATTA
5607344 TTTATCATTATATATATT
1 TTTA-CATTATATATATT
5607362 TGTTGTGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 8 0.50
19 4 0.25
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTACATTATATATATTA
Found at i:5613300 original size:149 final size:150
Alignment explanation
Indices: 5613041--5613339 Score: 591
Period size: 149 Copynumber: 2.0 Consensus size: 150
5613031 TATGTAAAGA
5613041 AAAGCTTACATGAAGGATTAATTAATTTTTTAAAATTATTTTATAAGGTAATTGCTCATTTATTT
1 AAAGCTTACATGAAGGATTAATTAATTTTTTAAAATTATTTTATAAGGTAATTGCTCATTTATTT
5613106 ATTTTAAGAGGACTTAAATGATTTCTAGAGATTATATAAAATTTTTTAAAAATATAAAAATAATA
66 ATTTTAAGAGGACTTAAATGATTTCTAGAGATTATATAAAATTTTTTAAAAATATAAAAATAATA
5613171 AAATTTTAT-AAAGGAGTAG
131 AAATTTTATAAAAGGAGTAG
5613190 AAAGCTTACATGAAGGATTAATTAATTTTTTAAAATTATTTTATAAGGTAATTGCTCATTTATTT
1 AAAGCTTACATGAAGGATTAATTAATTTTTTAAAATTATTTTATAAGGTAATTGCTCATTTATTT
5613255 ATTTTAAGAGGACTTAAATGATTTCTAGAGATTATATAAAATTTTTTAAAAATATAAAAATAATA
66 ATTTTAAGAGGACTTAAATGATTTCTAGAGATTATATAAAATTTTTTAAAAATATAAAAATAATA
5613320 AAATTTTATAAAAGGAGTAG
131 AAATTTTATAAAAGGAGTAG
5613340 TAATTTTATT
Statistics
Matches: 149, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
149 139 0.93
150 10 0.07
ACGTcount: A:0.44, C:0.04, G:0.11, T:0.41
Consensus pattern (150 bp):
AAAGCTTACATGAAGGATTAATTAATTTTTTAAAATTATTTTATAAGGTAATTGCTCATTTATTT
ATTTTAAGAGGACTTAAATGATTTCTAGAGATTATATAAAATTTTTTAAAAATATAAAAATAATA
AAATTTTATAAAAGGAGTAG
Found at i:5614077 original size:21 final size:21
Alignment explanation
Indices: 5614033--5614077 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
5614023 TTTAATAAAA
*
5614033 TTTTATAACTTTTTTATTAGT
1 TTTTATAACTTTTTTATCAGT
*
5614054 TTTTATAGATTTTTTTATCA-T
1 TTTTATA-ACTTTTTTATCAGT
5614075 TTT
1 TTT
5614078 AATTATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.69
Consensus pattern (21 bp):
TTTTATAACTTTTTTATCAGT
Found at i:5622342 original size:41 final size:41
Alignment explanation
Indices: 5622255--5622359 Score: 122
Period size: 41 Copynumber: 2.6 Consensus size: 41
5622245 TTAATATGAA
* * * **
5622255 ACACCGGCAATAAGTCTGCTAGGCGTAAAGGCTGTAATGGT
1 ACACCGGCATTAAGCCTGCTAGGCGTAAAGCCTGTAATAAT
*
5622296 ACACCGGCATTAAGCCTGCTAGGCGTATAGCCTG-ATATAAT
1 ACACCGGCATTAAGCCTGCTAGGCGTAAAGCCTGTA-ATAAT
* *
5622337 TCACCGGCATAAAGCCTGCTAGG
1 ACACCGGCATTAAGCCTGCTAGG
5622360 AAGAAAGCCC
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 1 0.02
41 54 0.98
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.22
Consensus pattern (41 bp):
ACACCGGCATTAAGCCTGCTAGGCGTAAAGCCTGTAATAAT
Found at i:5627625 original size:14 final size:15
Alignment explanation
Indices: 5627606--5627643 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
5627596 AATAAATTAT
5627606 TTAATATTTCAAT-A
1 TTAATATTTCAATAA
*
5627620 TTAATATTTTAATAA
1 TTAATATTTCAATAA
*
5627635 TAAATATTT
1 TTAATATTT
5627644 ATTACAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (15 bp):
TTAATATTTCAATAA
Found at i:5628070 original size:27 final size:26
Alignment explanation
Indices: 5628034--5628084 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
5628024 TACAATAACT
5628034 TATGACATATTTAAATCTAGTATAAAAA
1 TATGACATATTTAAAT-TA-TATAAAAA
*
5628062 TATGA-ATATTTTAATTATATAAA
1 TATGACATATTTAAATTATATAAA
5628085 GATGAGTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 6 0.27
26 2 0.09
27 9 0.41
28 5 0.23
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.41
Consensus pattern (26 bp):
TATGACATATTTAAATTATATAAAAA
Found at i:5633784 original size:28 final size:28
Alignment explanation
Indices: 5633752--5633823 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
5633742 ATGAGATTAA
* * *
5633752 CACTAATTGTGCGAGTTTAATTG-AAATG
1 CACTAACTGTGCGAGTATAATGGTAAA-G
*
5633780 CACTAAGTGTGCGAGTATAATGGTAAAG
1 CACTAACTGTGCGAGTATAATGGTAAAG
5633808 CACTAACTGTGCGAGT
1 CACTAACTGTGCGAGT
5633824 GTGATTATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 36 0.92
29 3 0.08
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (28 bp):
CACTAACTGTGCGAGTATAATGGTAAAG
Found at i:5642104 original size:41 final size:41
Alignment explanation
Indices: 5642059--5642326 Score: 446
Period size: 41 Copynumber: 6.5 Consensus size: 41
5642049 GACTTTAAGT
* * *
5642059 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAAC
1 CTAGCAGGCTATGTGCTGGTGATATGAACCAGGTTATAAAC
5642100 CTAGCAGGCTATGTGCTGGTGATATGAACCAGGTTATAAAC
1 CTAGCAGGCTATGTGCTGGTGATATGAACCAGGTTATAAAC
5642141 CTAGCAGGCTATGTGCTGGTGATATGAACCAGGTTATAAAC
1 CTAGCAGGCTATGTGCTGGTGATATGAACCAGGTTATAAAC
5642182 CTAGCAGGCTATGTGCTGGTGATATGAACCAGGTTATAAAC
1 CTAGCAGGCTATGTGCTGGTGATATGAACCAGGTTATAAAC
5642223 CTAGCAGGCTATGTGCTGGTGATATGAACCAGGTTATAAAC
1 CTAGCAGGCTATGTGCTGGTGATATGAACCAGGTTATAAAC
* * * * *
5642264 CTAGCAGGCTATGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTATGTGCTGGTGATATGAACCAGGTTATAAAC
* *
5642305 CTAGCAGGCTAAGTGCGGGTGA
1 CTAGCAGGCTATGTGCTGGTGA
5642327 ATACGTTAAT
Statistics
Matches: 217, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 217 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (41 bp):
CTAGCAGGCTATGTGCTGGTGATATGAACCAGGTTATAAAC
Found at i:5646373 original size:15 final size:15
Alignment explanation
Indices: 5646353--5646381 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
5646343 CAATTGTGAA
5646353 TTCCAGTTAATTCCT
1 TTCCAGTTAATTCCT
5646368 TTCCAGTTAATTCC
1 TTCCAGTTAATTCC
5646382 AGTTAATACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.28, G:0.07, T:0.45
Consensus pattern (15 bp):
TTCCAGTTAATTCCT
Found at i:5648514 original size:27 final size:27
Alignment explanation
Indices: 5648476--5648532 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
5648466 ACACAAAAAG
*
5648476 ATTACGTAGAAGATCAAGAATCTAAGT
1 ATTACATAGAAGATCAAGAATCTAAGT
5648503 ATTACATAGAAGATCAAGAATCTAAGT
1 ATTACATAGAAGATCAAGAATCTAAGT
5648530 ATT
1 ATT
5648533 CTTAGGTTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.28
Consensus pattern (27 bp):
ATTACATAGAAGATCAAGAATCTAAGT
Found at i:5650196 original size:13 final size:13
Alignment explanation
Indices: 5650178--5650202 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5650168 CACTCTCCTC
5650178 ACCTTTCTGTCTT
1 ACCTTTCTGTCTT
5650191 ACCTTTCTGTCT
1 ACCTTTCTGTCT
5650203 CCACCGATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.32, G:0.08, T:0.52
Consensus pattern (13 bp):
ACCTTTCTGTCTT
Found at i:5653428 original size:15 final size:15
Alignment explanation
Indices: 5653393--5653434 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
5653383 TTAAGAATTT
*
5653393 TATTAAATTAT-ATA
1 TATTTAATTATAATA
5653407 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
5653421 TATTTAATAATAAT
1 TATTTAATTATAAT
5653435 TATGTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:5659261 original size:18 final size:18
Alignment explanation
Indices: 5659234--5659269 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
5659224 CAGGTGCGTT
*
5659234 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATATGTA
5659252 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
5659270 CCATTTTCCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.28, G:0.08, T:0.39
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:5659729 original size:25 final size:25
Alignment explanation
Indices: 5659701--5659748 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
5659691 TATTTTGATA
5659701 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
5659726 TTATTTGATGTAATAAAATAGAA
1 TTATTTGATGTAATAAAATAGAA
5659749 ATTTTTCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.40
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:5659826 original size:45 final size:45
Alignment explanation
Indices: 5659775--5660719 Score: 770
Period size: 45 Copynumber: 20.9 Consensus size: 45
5659765 GAGAATTCTA
5659775 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCC
1 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCC
* **** *
5659820 TAAACTTAAAAACACTAACCCCCGTAACTTAAAAACCCT-AA-CC
1 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCC
* *
5659863 TAATTAAATTAAAAACCCTAACAC-AATTTAATTAAAAACCCTAAACCC
1 T-A--AACTTAAAAACCCTAAC-CTAATTAAATTAAAAACCCTAAACCC
5659911 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCT-AA-CC
1 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCC
* * * *
5659954 TAATTAAATT-AAAACCATAAACCCT-A--AACTTAAAAACCCTAACCCCC
1 T-A--AACTTAAAAACCCT-AA-CCTAATTAAATTAAAAACCCTAA-ACCC
* * ***
5660001 TTAACTTAAAAACCCTAACCTAATTTAATTAAAAATTTTAAACCC
1 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCC
5660046 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCC
1 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCC
* **** *
5660091 TAAACTTAAAAACACTAACCCCCGTAACTTAAAAACCCT-AA-CC
1 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCC
* * *
5660134 TAATTAAATTAAAAACCCTAACAC-AATTTAATTAAAAACCCTAAAACC
1 T-A--AACTTAAAAACCCTAAC-CTAATTAAATTAAAAACCCTAAACCC
*
5660182 TAAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCT-AA-CC
1 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCC
* *
5660225 TAATTAAATTAAAAATCCTAACCTAATTAAATTAAAAACCCTAAACCC
1 T-A--AACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCC
5660273 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCT-AA-CC
1 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCC
* * *
5660316 TAATTTAATTAAAAACACTAAACCCT-A--AACTT-AAAACCCT-AA-CC
1 TAA---ACTTAAAAACCCT-AA-CCTAATTAAATTAAAAACCCTAAACCC
* * *
5660360 TAATTAACCTAAAAACCCTAACCTAATTTAATTAAAAACACTAAACCC
1 T-A--AACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCC
* * **
5660408 TAAACTTAAAAACCCTAACCTAATTTAGTTAAAGCCCCTAAACCC
1 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCC
* * * *
5660453 TAAACTTTAAAACCATAACCTAATTAAATTAAAAACTCT-AA-CA
1 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCC
* *
5660496 TAATTTAATTAAAAACCCTAAACCCT-A--AACTTAAAAACCCT-AA-CC
1 TAA---ACTTAAAAACCCT-AA-CCTAATTAAATTAAAAACCCTAAACCC
* ** * * *
5660541 TAATTTAGTTAAAGCCCCTAAACCCT-A--AACTTTAAAACCAT-AA-CC
1 TAA---ACTTAAAAACCCT-AA-CCTAATTAAATTAAAAACCCTAAACCC
* * * *
5660586 TAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACACTAAACCT
1 T-A--AACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCC
* * *
5660634 TAAACTTAAAAACCCTAAGCTAATTTAATTAAAACCCCTAAACCC
1 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCC
* *
5660679 TAAACTTTAAAACCCTAACCTAATTAAATTAAAAACTCTAA
1 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA
5660720 CTTAATTTAA
Statistics
Matches: 736, Mismatches: 106, Indels: 116
0.77 0.11 0.12
Matches are distributed among these distances:
42 3 0.00
43 30 0.04
44 64 0.09
45 442 0.60
46 146 0.20
47 30 0.04
48 21 0.03
ACGTcount: A:0.49, C:0.25, G:0.01, T:0.25
Consensus pattern (45 bp):
TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCC
Found at i:5659976 original size:29 final size:23
Alignment explanation
Indices: 5659775--5660782 Score: 746
Period size: 23 Copynumber: 44.5 Consensus size: 23
5659765 GAGAATTCTA
5659775 TAAACTTAAAAACCCTAACCTAAT
1 TAAA-TTAAAAACCCTAACCTAAT
5659799 TAAATTAAAAACCCTAAACCCT-A-
1 TAAATTAAAAACCCT-AA-CCTAAT
* * ****
5659822 -AACTTAAAAACACTAACCCCCG
1 TAAATTAAAAACCCTAACCTAAT
*
5659844 TAACTTAAAAACCCTAACCTAAT
1 TAAATTAAAAACCCTAACCTAAT
5659867 TAAATTAAAAACCCTAACAC-AAT
1 TAAATTAAAAACCCTAAC-CTAAT
*
5659890 TTAATTAAAAACCCTAAACCCT-A-
1 TAAATTAAAAACCCT-AA-CCTAAT
*
5659913 -AACTTAAAAACCCTAACCTAAT
1 TAAATTAAAAACCCTAACCTAAT
5659935 TAAATTAAAAACCCTAACCTAAT
1 TAAATTAAAAACCCTAACCTAAT
*
5659958 TAAATT-AAAACCATAAACCCT-A-
1 TAAATTAAAAACCCT-AA-CCTAAT
* ***
5659980 -AACTTAAAAACCCTAACCCCCT
1 TAAATTAAAAACCCTAACCTAAT
*
5660002 TAACTTAAAAACCCTAACCTAAT
1 TAAATTAAAAACCCTAACCTAAT
* ***
5660025 TTAATTAAAAATTTTAAACCCT-A-
1 TAAATTAAAAACCCT-AA-CCTAAT
*
5660048 -AACTTAAAAACCCTAACCTAAT
1 TAAATTAAAAACCCTAACCTAAT
5660070 TAAATTAAAAACCCTAAACCCT-A-
1 TAAATTAAAAACCCT-AA-CCTAAT
* * ****
5660093 -AACTTAAAAACACTAACCCCCG
1 TAAATTAAAAACCCTAACCTAAT
*
5660115 TAACTTAAAAACCCTAACCTAAT
1 TAAATTAAAAACCCTAACCTAAT
5660138 TAAATTAAAAACCCTAACAC-AAT
1 TAAATTAAAAACCCTAAC-CTAAT
*
5660161 TTAATTAAAAACCCTAAAACCT-A-
1 TAAATTAAAAACCCT--AACCTAAT
*
5660184 -AACTTAAAAACCCTAACCTAAT
1 TAAATTAAAAACCCTAACCTAAT
*
5660206 TAACTTAAAAACCCTAACCTAAT
1 TAAATTAAAAACCCTAACCTAAT
*
5660229 TAAATTAAAAATCCTAACCTAAT
1 TAAATTAAAAACCCTAACCTAAT
5660252 TAAATTAAAAACCCTAAACCCT-A-
1 TAAATTAAAAACCCT-AA-CCTAAT
*
5660275 -AACTTAAAAACCCTAACCTAAT
1 TAAATTAAAAACCCTAACCTAAT
5660297 TAAATTAAAAACCCTAACCTAAT
1 TAAATTAAAAACCCTAACCTAAT
* *
5660320 TTAATTAAAAACACTAAACCCT-A-
1 TAAATTAAAAACCCT-AA-CCTAAT
*
5660343 -AACTT-AAAACCCTAACCTAAT
1 TAAATTAAAAACCCTAACCTAAT
**
5660364 TAACCTAAAAACCCTAACCTAAT
1 TAAATTAAAAACCCTAACCTAAT
* *
5660387 TTAATTAAAAACACTAAACCCT-A-
1 TAAATTAAAAACCCT-AA-CCTAAT
*
5660410 -AACTTAAAAACCCTAACCTAAT
1 TAAATTAAAAACCCTAACCTAAT
* * **
5660432 TTAGTTAAAGCCCCTAAACCCT-A-
1 TAAATTAAAAACCCT-AA-CCTAAT
* * *
5660455 -AACTTTAAAACCATAACCTAAT
1 TAAATTAAAAACCCTAACCTAAT
* *
5660477 TAAATTAAAAACTCTAACATAAT
1 TAAATTAAAAACCCTAACCTAAT
*
5660500 TTAATTAAAAACCCTAAACCCT-A-
1 TAAATTAAAAACCCT-AA-CCTAAT
*
5660523 -AACTTAAAAACCCTAACCTAAT
1 TAAATTAAAAACCCTAACCTAAT
* * **
5660545 TTAGTTAAAGCCCCTAAACCCT-A-
1 TAAATTAAAAACCCT-AA-CCTAAT
* * *
5660568 -AACTTTAAAACCATAACCTAAT
1 TAAATTAAAAACCCTAACCTAAT
5660590 TAAATTAAAAACCCTAACCTAAT
1 TAAATTAAAAACCCTAACCTAAT
* *
5660613 TTAATTAAAAACACTAAACC---T
1 TAAATTAAAAACCCT-AACCTAAT
*
5660634 TAAACTTAAAAACCCTAAGCTAAT
1 TAAA-TTAAAAACCCTAACCTAAT
* *
5660658 TTAATTAAAACCCCTAAACCCT-A-
1 TAAATTAAAAACCCT-AA-CCTAAT
* *
5660681 -AACTTTAAAACCCTAACCTAAT
1 TAAATTAAAAACCCTAACCTAAT
* *
5660703 TAAATTAAAAACTCTAACTTAAT
1 TAAATTAAAAACCCTAACCTAAT
*
5660726 TTAATTAAAAACCCTAAACCCT-A-
1 TAAATTAAAAACCCT-AA-CCTAAT
*
5660749 -AACTTAAAAACCCTAACCTAAT
1 TAAATTAAAAACCCTAACCTAAT
*
5660771 TTAATTAAAAAC
1 TAAATTAAAAAC
5660783 NNNNNNNNNN
Statistics
Matches: 783, Mismatches: 120, Indels: 163
0.73 0.11 0.15
Matches are distributed among these distances:
19 3 0.00
20 41 0.05
21 52 0.07
22 162 0.21
23 435 0.56
24 56 0.07
25 34 0.04
ACGTcount: A:0.49, C:0.25, G:0.01, T:0.25
Consensus pattern (23 bp):
TAAATTAAAAACCCTAACCTAAT
Found at i:5660500 original size:113 final size:113
Alignment explanation
Indices: 5659775--5660780 Score: 989
Period size: 113 Copynumber: 8.9 Consensus size: 113
5659765 GAGAATTCTA
* * *
5659775 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCCTAA---ACTTAAAAACACTA
1 TAAACTTTAAAACCCTAACCTAATTAAATTAAAAACCCT-AA-CCTAATTTAATTAAAAACCCTA
* * * **
5659837 ACCCCCGT-AACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACACAAT
64 A-ACCC-TAAACTTAAAAACCCTAACCTAATTTAATTAAAACCCCTAA-AC-CC
* * * *
5659890 TTAA-TTAAAAACCCTAAACCCT-A--AACTTAAAAACCCTAACCTAATTAAATTAAAAACCCT-
1 TAAACTTTAAAACCCT-AA-CCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTA
* * * * *
5659950 AA-CCTAATTAAATT-AAAACCATAAACCCTAA---ACTTAAAAACCCTAACCCCC
64 AACCCT-A--AACTTAAAAACCCT-AA-CCTAATTTAATTAAAACCCCTAA-ACCC
* * * *** *
5660001 TTAACTTAAAAACCCTAACCTAATTTAATTAAAAATTTTAAACCCTAA---ACTTAAAAACCCT-
1 TAAACTTTAAAACCCTAACCTAATTAAATTAAAAACCCT-AA-CCTAATTTAATTAAAAACCCTA
* * * * *
5660062 AA-CCTAATTAAATTAAAAACCCTAAACCCTAA---ACTTAAAAACACTAACCCCC
64 AACCCT-A--AACTTAAAAACCCT-AA-CCTAATTTAATTAAAACCCCTAA-ACCC
*
5660114 GT-AACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACAC-AATTTAATTAAAAACCCTA
1 -TAAACTTTAAAACCCTAACCTAATTAAATTAAAAACCCTAAC-CTAATTTAATTAAAAACCCTA
* *
5660177 AAACCTAAACTTAAAAACCCTAACCTAA-TTAACTTAAAAACCCT-AA-CC
64 AACCCTAAACTTAAAAACCCTAACCTAATTTAA-TTAAAACCCCTAAACCC
* * * *
5660225 TAATTAAATTAAAAATCCTAACCTAATTAAATTAAAAACCCTAAACCCTAA---ACTTAAAAACC
1 T-A--AACTTTAAAACCCTAACCTAATTAAATTAAAAACCCT-AA-CCTAATTTAATTAAAAACC
* * *
5660287 CT-AA-CCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACACTAAACCC
61 CTAAACCCT-A--AACTTAAAAACCCTAACCTAATTTAATTAAAACCCCTAAACCC
** *
5660341 TAAAC-TTAAAACCCTAACCTAATTAACCTAAAAACCCTAACCTAATTTAATTAAAAACACTAAA
1 TAAACTTTAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAA
* *
5660405 CCCTAAACTTAAAAACCCTAACCTAATTTAGTTAAAGCCCCTAAACCC
66 CCCTAAACTTAAAAACCCTAACCTAATTTAATTAAAACCCCTAAACCC
* * *
5660453 TAAACTTTAAAACCATAACCTAATTAAATTAAAAACTCTAACATAATTTAATTAAAAACCCTAAA
1 TAAACTTTAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAA
* *
5660518 CCCTAAACTTAAAAACCCTAACCTAATTTAGTTAAAGCCCCTAAACCC
66 CCCTAAACTTAAAAACCCTAACCTAATTTAATTAAAACCCCTAAACCC
* *
5660566 TAAACTTTAAAACCATAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACACTAAA
1 TAAACTTTAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAA
* *
5660631 CCTTAAACTTAAAAACCCTAAGCTAATTTAATTAAAACCCCTAAACCC
66 CCCTAAACTTAAAAACCCTAACCTAATTTAATTAAAACCCCTAAACCC
* *
5660679 TAAACTTTAAAACCCTAACCTAATTAAATTAAAAACTCTAACTTAATTTAATTAAAAACCCTAAA
1 TAAACTTTAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAA
5660744 CCCTAAACTTAAAAACCCTAACCTAATTTAATTAAAA
66 CCCTAAACTTAAAAACCCTAACCTAATTTAATTAAAA
5660781 ACNNNNNNNN
Statistics
Matches: 780, Mismatches: 64, Indels: 96
0.83 0.07 0.10
Matches are distributed among these distances:
110 10 0.01
111 29 0.04
112 135 0.17
113 441 0.57
114 121 0.16
115 32 0.04
116 12 0.02
ACGTcount: A:0.49, C:0.25, G:0.01, T:0.25
Consensus pattern (113 bp):
TAAACTTTAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAA
CCCTAAACTTAAAAACCCTAACCTAATTTAATTAAAACCCCTAAACCC
Found at i:5660646 original size:271 final size:268
Alignment explanation
Indices: 5659775--5660782 Score: 990
Period size: 271 Copynumber: 3.7 Consensus size: 268
5659765 GAGAATTCTA
5659775 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCCTAAACTTAAAAACACTAACC
1 TAAA-TTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCCTAAACTTAAAAACACTAACC
**
5659840 CCCGTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACACAATTTAATTAAAAACCCT
65 AACGTAACTTAAAAACCCTAACCTAA-TAAATTAAAAACCCTAACACAATTTAATTAAAAACCCT
5659905 AAACCCTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATT-AAAAC
129 AAACCCTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAAC
* ***
5659969 CATAAACCCTAAACTTAAAAACCCTAACCCCCTTAACTTAAAAACCCTAACCTAATTTAATTAAA
194 CCTAAACCCTAAACTTAAAAACCCTAACCTAATT-ACTTAAAAACCCTAACCTAA---AATTAAA
***
5660034 AATTTTAAACCCT-A-
255 AACCAT-AA-CCTAAT
* *
5660048 -AACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCCTAAACTTAAAAACACTAACCC
1 TAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCCTAAACTTAAAAACACTAACCA
*
5660112 CCGTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACACAATTTAATTAAAAACCCTA
66 ACGTAACTTAAAAACCCTAACCTAA-TAAATTAAAAACCCTAACACAATTTAATTAAAAACCCTA
* * *
5660177 AAACCTAAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAATC
130 AACCCTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACC
*
5660242 CT-AA-CCTAATTAAATTAAAAACCCTAAACCCTAA--ACTTAAAAACCCTAACCTAATTAAATT
195 CTAAACCCT-A--AACTTAAAAACCCT-AA-CCTAATTACTTAAAAACCCTAACCT-A--AAATT
*
5660303 AAAAACCCTAACCTAAT
252 AAAAACCATAACCTAAT
* * * * *
5660320 TTAATTAAAAACACTAAACCCT-A--AACTT-AAAACCCT-AA-CCTAATTAACCTAAAAACCCT
1 TAAATTAAAAACCCT-AA-CCTAATTAAATTAAAAACCCTAAACCCT-A--AACTTAAAAACACT
** * * *
5660379 AACCTAATTTAA-TTAAAAACACTAAACCCT-A-AACTTAAAAACCCTAAC-CTAATTTAGTTAA
61 AACC-AACGTAACTTAAAAACCCT-AA-CCTAATAAATTAAAAACCCTAACAC-AATTTAATTAA
** * * * * *
5660440 AGCCCCTAAACCCTAAACTTTAAAACCATAACCTAATTAAATTAAAAACTCTAACATAATTTAAT
122 AAACCCTAAACCCTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAAT
* **
5660505 TAAAAACCCTAAACCCTAAACTTAAAAACCCTAACCTAATTTAGTTAAAGCCCCTAAACCCTAAA
187 TAAAAACCCTAAACCCTAAACTTAAAAACCCTAACCTAA-TTACTTAAAAACCCT-AA-CCTAAA
* *
5660570 CTTTAAAACCATAACCTAAT
249 ATTAAAAACCATAACCTAAT
* * * * *
5660590 TAAATTAAAAACCCTAACCTAATTTAATTAAAAACACTAAACCTTAAACTTAAAAACCCTAAGCT
1 TAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCCTAAACTTAAAAACACTAA-CC
** * * * * *
5660655 AATTTAA-TTAAAACCCCTAAACCCT-A-AACTTTAAAACCCTAAC-CTAATTAAATTAAAAACT
65 AACGTAACTTAAAAACCCT-AA-CCTAATAAATTAAAAACCCTAACAC-AATTTAATTAAAAACC
* * * *
5660716 CT-AA-CTTAATTTAATTAAAAACCCTAAACCCT-A--AACTTAAAAACCCTAACCTAATTTAAT
127 CTAAACCCTAA---ACTTAAAAACCCT-AA-CCTAATTAAATTAAAAACCCTAACCTAATTAAAT
5660776 TAAAAAC
187 TAAAAAC
5660783 NNNNNNNNNN
Statistics
Matches: 630, Mismatches: 65, Indels: 82
0.81 0.08 0.11
Matches are distributed among these distances:
268 8 0.01
269 12 0.02
270 57 0.09
271 401 0.64
272 90 0.14
273 43 0.07
274 13 0.02
275 6 0.01
ACGTcount: A:0.49, C:0.25, G:0.01, T:0.25
Consensus pattern (268 bp):
TAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCCTAAACTTAAAAACACTAACCA
ACGTAACTTAAAAACCCTAACCTAATAAATTAAAAACCCTAACACAATTTAATTAAAAACCCTAA
ACCCTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCC
TAAACCCTAAACTTAAAAACCCTAACCTAATTACTTAAAAACCCTAACCTAAAATTAAAAACCAT
AACCTAAT
Found at i:5660658 original size:68 final size:67
Alignment explanation
Indices: 5659775--5660651 Score: 626
Period size: 68 Copynumber: 12.9 Consensus size: 67
5659765 GAGAATTCTA
* *
5659775 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCCTAAACTTAAAAACACTAACC
1 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCTTAAA-TTAAAAACCCTAACC
*
5659840 CCC
65 ACC
* *
5659843 GT-AACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACACAATTTAATTAAAAACCCTAA
1 -TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA-AC-CTTAAATTAAAAACCCTAA
*
5659907 AC-CC
63 CCACC
*
5659911 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCT-AACCTAATTAAATT-AAAACCATAA
1 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACC---TTAAATTAAAAACCCTAA
*
5659974 AC-CC
63 CCACC
*** * * ***
5659978 TAAACTTAAAAACCCTAACCCCCTTAACTTAAAAACCCT-AACCTAATTTAATTAAAAATTTTAA
1 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACC---TTAAATTAAAAACCCTAA
*
5660042 AC-CC
63 CCACC
* *
5660046 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCCTAAACTTAAAAACACTAACC
1 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCTTAAA-TTAAAAACCCTAACC
*
5660111 CCC
65 ACC
* *
5660114 GT-AACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACACAATTTAATTAAAAACCCTAA
1 -TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA-AC-CTTAAATTAAAAACCCTAA
*
5660178 -AACC
63 CCACC
* *
5660182 TAAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCT-AACCTAATTAAATTAAAAATCCTAA
1 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACC---TTAAATTAAAAACCCTAA
**
5660246 CCTAAT
63 CC-ACC
*
5660252 TAAA-TTAAAAACCCTAAACCCT-A--AACTTAAAAACCCT-AACCTAATTAAATTAAAAACCCT
1 TAAACTTAAAAACCCT-AA-CCTAATTAAATTAAAAACCCTAAACC---TTAAATTAAAAACCCT
**
5660312 AACCTAAT
61 AACC-ACC
* * * **
5660320 TTAA-TTAAAAACACTAAACCCT-A--AACTT-AAAACCCT-AACCTAATTAACCTAAAAACCCT
1 TAAACTTAAAAACCCT-AA-CCTAATTAAATTAAAAACCCTAAACC---TTAAATTAAAAACCCT
**
5660379 AACCTAAT
61 AACC-ACC
* * * **
5660387 TTAA-TTAAAAACACTAAACCCT-A--AACTTAAAAACCCT-AACC-TAATTTAGTTAAAGCCCC
1 TAAACTTAAAAACCCT-AA-CCTAATTAAATTAAAAACCCTAAACCTTAA---A-TTAAAAACCC
*
5660446 TAAAC-CC
60 TAACCACC
* * * ** * *
5660453 TAAACTTTAAAACCATAACCTAATTAAATTAAAAACTCTAACATAATTTAATTAAAAACCCTAAA
1 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA-A-CCTTAAATTAAAAACCCTAAC
5660518 C-CC
64 CACC
* * ** * * *
5660521 TAAACTTAAAAACCCTAACCTAATTTAGTTAAAGCCCCTAAACCCTAAACTTTAAAACCATAACC
1 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCTTAAA-TTAAAAACCCTAACC
**
5660586 TAAT
65 -ACC
* *
5660590 TAAA-TTAAAAACCCTAACCTAATTTAATTAAAAACACTAAACCTTAAACTTAAAAACCCTAA
1 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCTTAAA-TTAAAAACCCTAA
5660652 GCTAATTTAA
Statistics
Matches: 686, Mismatches: 85, Indels: 75
0.81 0.10 0.09
Matches are distributed among these distances:
64 3 0.00
65 3 0.00
66 16 0.02
67 162 0.24
68 430 0.63
69 52 0.08
70 15 0.02
71 3 0.00
72 2 0.00
ACGTcount: A:0.50, C:0.25, G:0.01, T:0.25
Consensus pattern (67 bp):
TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCTTAAATTAAAAACCCTAACCA
CC
Found at i:5660768 original size:68 final size:68
Alignment explanation
Indices: 5659867--5660782 Score: 621
Period size: 68 Copynumber: 13.5 Consensus size: 68
5659857 CTAACCTAAT
* *
5659867 TAAA-TTAAAAACCCTAACAC-AATTTAATTAAAAACCCTAAACCCTAA---ACTTAAAAACCCT
1 TAAACTTAAAAACCCTAAC-CTAATTAAATTAAAAACCCT-AA-CCTAATTTAATTAAAAACCCT
5659927 -AA-CC
63 AAACCC
* * *
5659931 TAATTAAATTAAAAACCCTAACCTAATTAAATT-AAAACCATAAACCCTAA---ACTTAAAAACC
1 T-A--AACTTAAAAACCCTAACCTAATTAAATTAAAAACCCT-AA-CCTAATTTAATTAAAAACC
*
5659992 CTAACCCCC
61 CTAA-ACCC
* * *** *
5660001 TTAACTTAAAAACCCTAACCTAATTTAATTAAAAATTTTAAACCCTAA---ACTTAAAAACCCT-
1 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCT-AA-CCTAATTTAATTAAAAACCCTA
5660062 AA-CC
64 AACCC
* * * ****
5660066 TAATTAAATTAAAAACCCTAAACCCT-A--AACTTAAAAACACTAACC-CCCGTAACTTAAAAAC
1 T-A--AACTTAAAAACCCT-AA-CCTAATTAAATTAAAAACCCTAACCTAATTTAA-TTAAAAAC
5660127 CCT-AA-CC
60 CCTAAACCC
* * *
5660134 TAATTAAATTAAAAACCCTAACAC-AATTTAATTAAAAACCCTAAAACCTAA---ACTTAAAAAC
1 T-A--AACTTAAAAACCCTAAC-CTAATTAAATTAAAAACCCT--AACCTAATTTAATTAAAAAC
5660195 CCT-AA-CC
60 CCTAAACCC
* *
5660202 TAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAATCCTAACCTAATTAAATTAAAAACCCT
1 T-A--AACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT
5660267 AAACCC
63 AAACCC
*
5660273 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACACTAAA
1 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAA
5660338 CCC
66 CCC
** *
5660341 TAAACTT-AAAACCCTAACCTAATTAACCTAAAAACCCTAACCTAATTTAATTAAAAACACTAAA
1 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAA
5660405 CCC
66 CCC
* * ** * * *
5660408 TAAACTTAAAAACCCTAACCTAATTTAGTTAAAGCCCCTAAACCCTAA---ACTTTAAAACCAT-
1 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCT-AA-CCTAATTTAATTAAAAACCCTA
5660469 AA-CC
64 AACCC
* * * * *
5660473 TAATTAAATTAAAAACTCTAACATAATTTAATTAAAAACCCTAAACCCTAA---ACTTAAAAACC
1 T-A--AACTTAAAAACCCTAACCTAATTAAATTAAAAACCCT-AA-CCTAATTTAATTAAAAACC
5660535 CT-AA-CC
61 CTAAACCC
* ** * * * *
5660541 TAATTTAGTTAAAGCCCCTAAACCCT-A--AACTTTAAAACCATAACCTAATTAAATTAAAAACC
1 TAA---ACTTAAAAACCCT-AA-CCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACC
5660603 CT-AA-CC
61 CTAAACCC
* * * *
5660609 TAATTTAATTAAAAACACTAAACC---TTAAACTTAAAAACCCTAAGCTAATTTAATTAAAACCC
1 TAA---ACTTAAAAACCCT-AACCTAATTAAA-TTAAAAACCCTAACCTAATTTAATTAAAAACC
5660671 CTAAACCC
61 CTAAACCC
* * *
5660679 TAAACTTTAAAACCCTAACCTAATTAAATTAAAAACTCTAACTTAATTTAATTAAAAACCCTAAA
1 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAA
5660744 CCC
66 CCC
*
5660747 TAAACTTAAAAACCCTAACCTAATTTAATTAAAAAC
1 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAAC
5660783 NNNNNNNNNN
Statistics
Matches: 718, Mismatches: 81, Indels: 102
0.80 0.09 0.11
Matches are distributed among these distances:
64 1 0.00
65 15 0.02
66 19 0.03
67 173 0.24
68 443 0.62
69 39 0.05
70 21 0.03
71 7 0.01
ACGTcount: A:0.49, C:0.25, G:0.01, T:0.25
Consensus pattern (68 bp):
TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAA
CCC
Found at i:5664288 original size:20 final size:20
Alignment explanation
Indices: 5664258--5664311 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
5664248 AAGCGCGTTA
5664258 TATTTTCAGTAATTTT-TAAT
1 TATTTTCAGTAATTTTGT-AT
* *
5664278 TTTTTTTAGTAATTTTGTAT
1 TATTTTCAGTAATTTTGTAT
5664298 TATTTTCAGTAATT
1 TATTTTCAGTAATT
5664312 ATTGAATTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.26, C:0.04, G:0.07, T:0.63
Consensus pattern (20 bp):
TATTTTCAGTAATTTTGTAT
Found at i:5671350 original size:3 final size:3
Alignment explanation
Indices: 5671342--5671366 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
5671332 ATTAGGAACC
5671342 CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT C
5671367 CACTGGAGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:5676702 original size:19 final size:19
Alignment explanation
Indices: 5676680--5676717 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
5676670 CGTAAACAAC
5676680 AATTCTATACTTTAT-TAGT
1 AATTCTA-ACTTTATGTAGT
*
5676699 AATTTTAACTTTATGTAGT
1 AATTCTAACTTTATGTAGT
5676718 GGAGTGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.53
Consensus pattern (19 bp):
AATTCTAACTTTATGTAGT
Found at i:5678746 original size:39 final size:38
Alignment explanation
Indices: 5678698--5678776 Score: 95
Period size: 38 Copynumber: 2.1 Consensus size: 38
5678688 ACATATACAT
* *
5678698 GGTTGCAAACAAATTCACAAAACATAAGAGGTTCGCAGA
1 GGTTACAAACAAA-TCACAAAACACAAGAGGTTCGCAGA
* * * *
5678737 GGTTACAAACATATCACATAAGACAAGAGGTTTGCAGA
1 GGTTACAAACAAATCACAAAACACAAGAGGTTCGCAGA
5678775 GG
1 GG
5678777 CGTTCGTAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
38 23 0.68
39 11 0.32
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (38 bp):
GGTTACAAACAAATCACAAAACACAAGAGGTTCGCAGA
Found at i:5684503 original size:28 final size:28
Alignment explanation
Indices: 5684479--5684533 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
5684469 AATAAATATA
5684479 TATTTTATTTAAATATTTTTAAAATAAT
1 TATTTTATTTAAATATTTTTAAAATAAT
* ***
5684507 TTTTTTATTTTTTTATTTTTAAAATAA
1 TATTTTATTTAAATATTTTTAAAATAA
5684534 ATTTTTGGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (28 bp):
TATTTTATTTAAATATTTTTAAAATAAT
Found at i:5684751 original size:41 final size:41
Alignment explanation
Indices: 5684706--5684824 Score: 177
Period size: 41 Copynumber: 2.9 Consensus size: 41
5684696 CCCGATTCAG
5684706 TTCACCGGCATAAAGCCTGCTAGACATAAAGTCTGAAATAA
1 TTCACCGGCATAAAGCCTGCTAGACATAAAGTCTGAAATAA
5684747 TTCACCGGCATTAAA-CCTGCTAGACATAAAGTCTGAAATAA
1 TTCACCGGCA-TAAAGCCTGCTAGACATAAAGTCTGAAATAA
* * * * *
5684788 TTCACCGACATTAAGCCTGCTAGGCATTAAGCCTGAA
1 TTCACCGGCATAAAGCCTGCTAGACATAAAGTCTGAA
5684825 TATCACAGAT
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
40 3 0.04
41 64 0.90
42 4 0.06
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.24
Consensus pattern (41 bp):
TTCACCGGCATAAAGCCTGCTAGACATAAAGTCTGAAATAA
Found at i:5685193 original size:2 final size:2
Alignment explanation
Indices: 5685181--5685215 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
5685171 TAAAGAATAG
*
5685181 AT AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5685216 NNNNNNNNNN
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5686623 original size:23 final size:22
Alignment explanation
Indices: 5686596--5686680 Score: 95
Period size: 21 Copynumber: 4.0 Consensus size: 22
5686586 GGCTTTGCCG
* *
5686596 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACCTCATGTGTCGT-T
*
5686619 ATCAGGCACCTCGTGTGTCG-T
1 ATCAGGCACCTCATGTGTCGTT
*
5686640 ATCAGGCACCTCGTGTGTCGTT
1 ATCAGGCACCTCATGTGTCGTT
*
5686662 -TCAGGCA-CTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
5686681 ATACTGATCA
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
20 10 0.18
21 28 0.50
22 1 0.02
23 17 0.30
ACGTcount: A:0.16, C:0.24, G:0.26, T:0.34
Consensus pattern (22 bp):
ATCAGGCACCTCATGTGTCGTT
Found at i:5686642 original size:21 final size:21
Alignment explanation
Indices: 5686609--5686682 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
5686599 AGGCACTTTA
5686609 TGTGTCGTATATCAGGCACCTCG
1 TGTGTCG--TATCAGGCACCTCG
5686632 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* **
5686653 TGTGTCGTTTCAGGCA-CTTA
1 TGTGTCGTATCAGGCACCTCG
5686673 TGTGTCGTAT
1 TGTGTCGTAT
5686683 ACTGATCAGG
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
20 11 0.23
21 29 0.62
23 7 0.15
ACGTcount: A:0.15, C:0.23, G:0.27, T:0.35
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:5690337 original size:75 final size:75
Alignment explanation
Indices: 5690086--5691388 Score: 1613
Period size: 75 Copynumber: 17.1 Consensus size: 75
5690076 TTTCTTTTTA
* * * *
5690086 TGTTTTTCAAAAATTAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTAT
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTAT
5690151 TTTTCAATTTC
66 TTTT-AATTTC
* * * * *
5690162 TGTTTTTTAAAAATCAACTCATAAGCCGAGAGGTGGGTTGAGCCTCGGGTCACACGCCGAGGTAT
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTAT
*
5690227 TTTCCAATTTC
66 TTT-TAATTTC
* * * * *
5690238 TATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAACCTCAGGTTGCACACTGAGGTAT
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTAT
5690303 TTTTAATTTC
66 TTTTAATTTC
* * * *
5690313 TGTTTTGCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGAGTCACACGCCGAGGTAT
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTA-
5690378 TTTTTAATTTC
65 TTTTTAATTTC
* * * * * *
5690389 TATATTTCAAAAATCAACTCATAATCCGATATGTGAGTTGAGCCTCGGCTCACACGCTGAGGTAT
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTAT
*
5690454 TTTCAATTTC
66 TTTTAATTTC
* *
5690464 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCTTCGGGTCGCACTCTGAGGTAT
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTAT
*
5690529 TTTTCAATTTT
66 TTTT-AATTTC
**
5690540 TGTTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTTACACGCTGAGGTA
1 TG-TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTA
*
5690605 TTTTTCAATTCCTA
65 TTTTT-AATT--TC
* * * * * * **
5690619 TTTTTTTCAAAGATCAACTCATAATTCGAGAAGTGAGTTGAGCCTCGGGTTGCACGTTGACATAT
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTAT
*
5690684 TTTCAATTTC
66 TTTTAATTTC
* * * * * *
5690694 TATTTTTTAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTTAGATAT
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTAT
*
5690759 TTTCAATTTC
66 TTTTAATTTC
* * * * *
5690769 TATTTTTCAAAAATCAACTTATAATTCGATAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTAT
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTAT
*
5690834 TTTCAATTTC
66 TTTTAATTTC
* * * *
5690844 TATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCTTTGGGTCGCACGAC-AAGGTA
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACG-CTGAGGTA
5690908 TTTTTCAATTTC
65 TTTTT-AATTTC
* * * *
5690920 TGTTTTTTCAAAAATCAACTCATAATCTGAAAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTA
1 TG-TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTA
5690985 TTTTTCAATTTC
65 TTTTT-AATTTC
* * *
5690997 TGTTTTTCAAAAATCAACTCATAATCTGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTAT
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTAT
*
5691062 TTTCAATTTC
66 TTTTAATTTC
* * *
5691072 TGTTTTTCAAAAATCAACTAATAATCCGAGAGGTGAGTTGAGCTTCGGGTCGCACGCCGAGGTAT
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTA-
5691137 TTTTTAATTTC
65 TTTTTAATTTC
* * * * *
5691148 TGTTTTTTCAAAGATCAACTCATAGTCTGAGAGGTGAGTTGAGCCTCGAGTCGCACGCCGAGGTA
1 TG-TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTA
5691213 TTTTTCAATTTC
65 TTTTT-AATTTC
* * * * *
5691225 TGTTTTTTTTCAAAGATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCAGGTTGCACGCTGACG
1 TG---TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGG
* *
5691290 TATTATCAATTTC
63 TATTTTTAATTTC
* * * * * *
5691303 TATTTTTCAAAGATCAACTCATAAGCCGAGAGGTGAGTTGAGCTTCAGGTCGCACG-TCGAGCTA
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCT-GAGGTA
*
5691367 -TTTTAGATTTT
65 TTTTTA-ATTTC
5691378 TGTTTTTCAAA
1 TGTTTTTCAAA
5691389 TAAAAAAATA
Statistics
Matches: 1080, Mismatches: 130, Indels: 35
0.87 0.10 0.03
Matches are distributed among these distances:
74 4 0.00
75 457 0.42
76 290 0.27
77 203 0.19
78 66 0.06
79 60 0.06
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.34
Consensus pattern (75 bp):
TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTAT
TTTTAATTTC
Found at i:5690787 original size:228 final size:226
Alignment explanation
Indices: 5690086--5691384 Score: 1722
Period size: 228 Copynumber: 5.7 Consensus size: 226
5690076 TTTCTTTTTA
* * *
5690086 TGTTTTTCAAAAATTAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTAT
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTA-
* * * * *
5690151 TTTTCAATTTCTGTTTTTTAAAAATCAACTCATAAGCCGAGAGGTGGGTTGAGCCTCGGGTCACA
65 TTTTCAATTTCTATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCA
* * *
5690216 CGCCGAGGTATTTTCCAATTTCTATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAAC
130 CGCCGAGGTATTTT-CAATTTCTGTTTTTTAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGC
* * *
5690281 CTCAGGTTGCACACTGAGGTATTTTT-AATTTC
194 CTCGGGTCGCACGCTGAGGTATTTTTCAATTTC
* * *
5690313 TGTTTTGCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGAGTCACACGCCGAGGTAT
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTA-
* * * * * *
5690378 TTTTTAATTTCTATATTTCAAAAATCAACTCATAATCCGATATGTGAGTTGAGCCTCGGCTCACA
65 TTTTCAATTTCTATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCA
* * *
5690443 CGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCT
130 CGCCGAGGTATTTTCAATTTCTGTTTTTTAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCC
* *
5690508 TCGGGTCGCACTCTGAGGTATTTTTCAATTTT
195 TCGGGTCGCACGCTGAGGTATTTTTCAATTTC
*
5690540 TGTTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTTACACGCTGAGGTA
1 TG-TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTA
* * * * *
5690605 TTTTTCAATTCCTATTTTTTTCAAAGATCAACTCATAATTCGAGAAGTGAGTTGAGCCTCGGGTT
65 -TTTTCAATTTCTA--TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTC
** ** * *
5690670 GCACGTTGACATATTTTCAATTTCTATTTTTTAAAGATCAACTCATAATCCGAGAGGTGAGTTGA
127 GCACGCCGAGGTATTTTCAATTTCTGTTTTTTAAAAATCAACTCATAATCCGAGAGGTGAGTTGA
* * *
5690735 GCCTCGGGTCACACGCTTAGATA-TTTTCAATTTC
192 GCCTCGGGTCGCACGCTGAGGTATTTTTCAATTTC
* * * *
5690769 TATTTTTCAAAAATCAACTTATAATTCGATAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTAT
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTAT
* *
5690834 TTTCAATTTCTATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCTTTGGGTCGCAC
66 TTTCAATTTCTATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCAC
* * * *
5690899 GACAAGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAATCTGAAAGGTGAGTTGAGC
131 GCCGAGGTA-TTTTCAATTTCTGTTTTTT-AAAAATCAACTCATAATCCGAGAGGTGAGTTGAGC
* *
5690964 CTCAGGTCACACGCTGAGGTATTTTTCAATTTC
194 CTCGGGTCGCACGCTGAGGTATTTTTCAATTTC
* *
5690997 TGTTTTTCAAAAATCAACTCATAATCTGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTAT
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTAT
* * *
5691062 TTTCAATTTCTGTTTTTCAAAAATCAACTAATAATCCGAGAGGTGAGTTGAGCTTCGGGTCGCAC
66 TTTCAATTTCTATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCAC
* * * *
5691127 GCCGAGGTATTTTTTAATTTCTGTTTTTTCAAAGATCAACTCATAGTCTGAGAGGTGAGTTGAGC
131 GCCGAGGTA-TTTTCAATTTCTGTTTTTT-AAAAATCAACTCATAATCCGAGAGGTGAGTTGAGC
* *
5691192 CTCGAGTCGCACGCCGAGGTATTTTTCAATTTC
194 CTCGGGTCGCACGCTGAGGTATTTTTCAATTTC
* * * ** *
5691225 TGTTTTTTTTCAAAGATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCAGGTTGCACGCTGACG
1 TG---TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGG
* * * * *
5691290 TATTATCAATTTCTATTTTTCAAAGATCAACTCATAAGCCGAGAGGTGAGTTGAGCTTCAGGTCG
63 TATTTTCAATTTCTATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCG
* * *
5691355 CACGTCGAGCTATTTT-AGATTTTTGTTTTT
128 CACGCCGAGGTATTTTCA-ATTTCTGTTTTT
5691385 CAAATAAAAA
Statistics
Matches: 954, Mismatches: 107, Indels: 19
0.88 0.10 0.02
Matches are distributed among these distances:
225 51 0.05
226 88 0.09
227 199 0.21
228 350 0.37
229 12 0.01
230 133 0.14
231 121 0.13
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (226 bp):
TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTAT
TTTCAATTTCTATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCAC
GCCGAGGTATTTTCAATTTCTGTTTTTTAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCT
CGGGTCGCACGCTGAGGTATTTTTCAATTTC
Found at i:5691030 original size:303 final size:305
Alignment explanation
Indices: 5690088--5691388 Score: 1755
Period size: 303 Copynumber: 4.3 Consensus size: 305
5690078 TCTTTTTATG
* * *
5690088 TTTTTCAAAAATTAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTT
1 TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTA-TT
* * *
5690153 TTCAATTTCTGTTTTTTAAAAATCAACTCATAAGCCGAGAGGTGGGTTGAGCCTCGGGTCACACG
65 TTCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACG
* *
5690218 CCGAGGTATTTTCCAATTTCT-ATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAACC
130 CCGAGGTATTTTTCAATTTCTGATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCC
* * *
5690282 TCAGGTTGCAC-ACTGAGGTATTTTT-AATTTCTG-TTTTGCAAAAATCAACTCATAATCCGAGA
195 TCGGGTCGCACGACTGAGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAATCCGAGA
* * * *
5690344 GGTGAGTTGAGCCTC-GAGTCACACGCCGAGGTATTTTTTAATTTCTA
260 AGTGAGTTGAGCCTCAG-GTCACACGCTGACGTA-TTTTCAATTTCTA
* * * *
5690391 TATTTCAAAAATCAACTCATAATCCGATATGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTT
1 TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTT
* * *
5690456 TCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCTTCGGGTCGCACTC
66 TCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGC
* * *
5690521 TGAGGTATTTTTCAATTTTTGTTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCT
131 CGAGGTATTTTTCAATTTCTGATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCT
** * * * *
5690586 CGGGTTACACG-CTGAGGTATTTTTCAATTCCTATTTTTTTCAAAGATCAACTCATAATTCGAGA
196 CGGGTCGCACGACTGAGGTATTTTTCAATTTCT-GTTTTTTCAAAAATCAACTCATAATCCGAGA
* ** * *
5690650 AGTGAGTTGAGCCTCGGGTTGCACGTTGACATATTTTCAATTTCTA
260 AGTGAGTTGAGCCTCAGGTCACACGCTGACGTATTTTCAATTTCTA
* * * *
5690696 TTTTTTAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTTAGATATTT
1 TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTT
* * * *
5690761 TCAATTTCTATTTTTCAAAAATCAACTTATAATTCGATAGGTGAGTTGAGCCTCGGGTCACACGC
66 TCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGC
* *
5690826 TGAGGTA-TTTTCAATTTCT-ATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCTT
131 CGAGGTATTTTTCAATTTCTGATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCT
* * *
5690889 TGGGTCGCACGAC-AAGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAATCTGA-AA
196 CGGGTCGCACGACTGAGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAATCCGAGAA
* *
5690952 GGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTTCAATTTCTG
261 -GTGAGTTGAGCCTCAGGTCACACGCTGACGTA-TTTTCAATTTCTA
* *
5690999 TTTTTCAAAAATCAACTCATAATCTGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTT
1 TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTT
* * *
5691064 TCAATTTCTGTTTTTCAAAAATCAACTAATAATCCGAGAGGTGAGTTGAGCTTCGGGTCGCACGC
66 TCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGC
* * * * *
5691129 CGAGGTATTTTTTAATTTCTGTTTTTTCAAAGATCAACTCATAGTCTGAGAGGTGAGTTGAGCCT
131 CGAGGTATTTTTCAATTTCTGATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCT
* * *
5691194 CGAGTCGCACG-CCGAGGTATTTTTCAATTTCTGTTTTTTTTCAAAGATCAACTCATAATCCGAG
196 CGGGTCGCACGACTGAGGTATTTTTCAATTTCTG--TTTTTTCAAAAATCAACTCATAATCCGAG
** *
5691258 AAGTGAGTTGAGCCTCAGGTTGCACGCTGACGTATTATCAATTTCTA
259 AAGTGAGTTGAGCCTCAGGTCACACGCTGACGTATTTTCAATTTCTA
* * * * * *
5691305 TTTTTCAAAGATCAACTCATAAGCCGAGAGGTGAGTTGAGCTTCAGGTCGCACG-TCGAGCTATT
1 TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCT-GAGGTATT
*
5691369 TT-AGATTTTTGTTTTTCAAA
65 TTCA-ATTTCTGTTTTTCAAA
5691389 TAAAAAAATA
Statistics
Matches: 876, Mismatches: 105, Indels: 31
0.87 0.10 0.03
Matches are distributed among these distances:
301 2 0.00
302 130 0.15
303 321 0.37
304 30 0.03
305 203 0.23
306 132 0.15
307 56 0.06
308 2 0.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.34
Consensus pattern (305 bp):
TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTT
TCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGC
CGAGGTATTTTTCAATTTCTGATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCT
CGGGTCGCACGACTGAGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAATCCGAGAA
GTGAGTTGAGCCTCAGGTCACACGCTGACGTATTTTCAATTTCTA
Found at i:5692300 original size:16 final size:15
Alignment explanation
Indices: 5692279--5692334 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 15
5692269 GCTAGGGCCG
5692279 AGAGAAGGAAAACAGA
1 AGAGAAGGAAAA-AGA
5692295 AGAGAAGAGAAAAAGA
1 AGAGAAG-GAAAAAGA
* * *
5692311 AAAGAAGAAAAAAAA
1 AGAGAAGGAAAAAGA
5692326 AGAAGAAGG
1 AG-AGAAGG
5692335 CCCATTCTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
15 7 0.21
16 21 0.64
17 5 0.15
ACGTcount: A:0.70, C:0.02, G:0.29, T:0.00
Consensus pattern (15 bp):
AGAGAAGGAAAAAGA
Found at i:5692329 original size:13 final size:14
Alignment explanation
Indices: 5692302--5692332 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
5692292 AGAAGAGAAG
5692302 AGAAAAAGAAAAGA
1 AGAAAAAGAAAAGA
5692316 AGAAAAA-AAAAGA
1 AGAAAAAGAAAAGA
5692329 AGAA
1 AGAA
5692333 GGCCCATTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (14 bp):
AGAAAAAGAAAAGA
Found at i:5698807 original size:3 final size:3
Alignment explanation
Indices: 5698799--5698842 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
5698789 TATAAAAGTT
5698799 ATA ATA ATA ATA ATA ATA ATA A-A ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
5698843 GAACTCATAG
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:5698824 original size:20 final size:20
Alignment explanation
Indices: 5698801--5698840 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
5698791 TAAAAGTTAT
5698801 AATAATAATAATAATAATAA
1 AATAATAATAATAATAATAA
5698821 AATAATAATAATAATAATAA
1 AATAATAATAATAATAATAA
5698841 TAGAACTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
AATAATAATAATAATAATAA
Found at i:5698840 original size:23 final size:23
Alignment explanation
Indices: 5698799--5698842 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
5698789 TATAAAAGTT
5698799 ATAATAATAATAATAATAATAAA
1 ATAATAATAATAATAATAATAAA
5698822 ATAATAATAATAATAATAATA
1 ATAATAATAATAATAATAATA
5698843 GAACTCATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (23 bp):
ATAATAATAATAATAATAATAAA
Found at i:5700088 original size:58 final size:58
Alignment explanation
Indices: 5700023--5700192 Score: 233
Period size: 54 Copynumber: 3.0 Consensus size: 58
5700013 TGTCACATAG
5700023 AATTTAAGACATCATTTAACGGCTAAATTAATGGTTTTAGTAACGAAAGGATTTTATT
1 AATTTAAGACATCATTTAACGGCTAAATTAATGGTTTTAGTAACGAAAGGATTTTATT
* * * *** *
5700081 AATTTAAGACATCATTTAACGGCTAAATT-ATTGTTTTAGT-AC--TATG-TCACATAG
1 AATTTAAGACATCATTTAACGGCTAAATTAATGGTTTTAGTAACGAAAGGATTTTAT-T
5700135 AATTTAAGACATCATTTAACGGCTAAATTAATGGTTTTAGTAACGAAAGGATTTTATT
1 AATTTAAGACATCATTTAACGGCTAAATTAATGGTTTTAGTAACGAAAGGATTTTATT
5700193 GATATAATAT
Statistics
Matches: 92, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
53 3 0.03
54 31 0.34
55 10 0.11
56 4 0.04
57 10 0.11
58 31 0.34
59 3 0.03
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (58 bp):
AATTTAAGACATCATTTAACGGCTAAATTAATGGTTTTAGTAACGAAAGGATTTTATT
Found at i:5706197 original size:126 final size:125
Alignment explanation
Indices: 5705782--5706352 Score: 716
Period size: 126 Copynumber: 4.5 Consensus size: 125
5705772 GATAAAATCA
* * * * * * * * *
5705782 AAGCAGAATGATTTATCAGAAGGATTTTTGAAGTCACGCCCACGTGTACGTGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* *
5705847 AGGTCCTAGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAACAAACGCTTC
66 AGGTCCTAGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* *
5705907 AAGCAGGATACTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * * * * *
5705972 TGGTCCTGGAAGAAATAATTTCGAGTTGACATTTTTGAGTAAATAGTTTTAAAAAACGCTTC
66 AGGTCCTAGAA-AAATAATTTCGACTTGACGTTTCTGAGCAAATAG-TATAAAAAACGCTTC
* * *
5706034 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACATGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * *
5706099 AGGTCCT-GAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAACAATGCTGC
66 AGGTCCTAG-AAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAA-AACGCTTC
* * * *
5706160 AAGAAGCATGCTATT-TGAGAAGAATTTATGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
1 AAGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
* * *
5706224 TAGGTCCTAGAAAAGTAATTTCGACTTGACGTTTCTGACCAAAAAATAGTAT-AAAATCGCTTC
65 TAGGTCCTAGAAAAATAATTTCGACTTGACGTTTCTGAGC---AAATAGTATAAAAAACGCTTC
* * *
5706287 TAGCAGGATGTTTTATGAGAAGAATTTGTGAAATCGCGCCAACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
5706352 A
66 A
5706353 ACATGTTTGG
Statistics
Matches: 384, Mismatches: 52, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
125 69 0.18
126 157 0.41
127 146 0.38
128 3 0.01
129 9 0.02
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.29
Consensus pattern (125 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTAGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
Found at i:5706326 original size:253 final size:252
Alignment explanation
Indices: 5705782--5706352 Score: 752
Period size: 253 Copynumber: 2.3 Consensus size: 252
5705772 GATAAAATCA
* * * * * * *
5705782 AAGCAGAATGATTTATCAGAAGGATTTTTGAAGTCACGCCCACGTGTACGTGCTTTTGCTACAGT
1 AAGCAGGATGATTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * *
5705847 AGGTCCTAGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAACAAACGCTTCAAGCA
66 AGGTCCTAGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTGCAAGAA
* * *
5705912 GGATACTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTTGGTC
131 GCATACTTTATGAGAAGAATTTATGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTC
* * * ** * * **
5705977 CTGGAAGAAATAATTTCGAGTTGACATTTTTGAGTAAATAGTTTTAAAAAACGCTTC
196 CTAGAAGAAATAATTTCGACTTGACATTTCTGACCAAAAAATAGTAAAAAACGCTTC
* *
5706034 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACATGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGATTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * *
5706099 AGGTCCT-GAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAACAATGCTGCAAG
66 AGGTCCTAG-AAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAA-AACGCTGCAAG
*
5706163 AAGCATGCTATT-TGAGAAGAATTTATGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
129 AAGCATACT-TTATGAGAAGAATTTATGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
* * *
5706227 GTCCTAGAA-AAGTAATTTCGACTTGACGTTTCTGACCAAAAAATAGTATAAAATCGCTTC
193 GTCCTAGAAGAAATAATTTCGACTTGACATTTCTGACCAAAAAATAGTA-AAAAACGCTTC
* * * * *
5706287 TAGCAGGATGTTTTATGAGAAGAATTTGTGAAATCGCGCCAACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGATTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
5706352 A
66 A
5706353 ACATGTTTGG
Statistics
Matches: 277, Mismatches: 38, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
251 1 0.00
252 131 0.47
253 143 0.52
254 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.29
Consensus pattern (252 bp):
AAGCAGGATGATTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTAGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTGCAAGAA
GCATACTTTATGAGAAGAATTTATGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTC
CTAGAAGAAATAATTTCGACTTGACATTTCTGACCAAAAAATAGTAAAAAACGCTTC
Found at i:5709516 original size:22 final size:22
Alignment explanation
Indices: 5709472--5709884 Score: 468
Period size: 22 Copynumber: 19.1 Consensus size: 22
5709462 TCAAATTATA
5709472 TTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
5709493 TTTAATTTAAGGGTTTAGGATT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
5709515 TTAAAGTCAATGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
**
5709536 TTTAAGTTAAGGG-TTAGAATT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
5709557 TTTAGGTTAAGGGTTTAGGGGT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
5709579 TTTAATTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
5709601 TTAAAATTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
5709622 TTAAAGTTAAGGGTTTAGTGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
5709644 TTAAAGTTAAGGGGTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
5709666 TTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
5709688 TTTAAGTTAAGGGGTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
5709710 TTAAAGTTAAAGGG-TTAGGGTT
1 TTTAAGTT-AAGGGTTTAGGGTT
*
5709732 TTAAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
5709753 TTTAGGTTAAGGGTTTATGGG-T
1 TTTAAGTTAAGGGTTTA-GGGTT
5709775 TTTAAGTTAAGGGTTTATGGG-T
1 TTTAAGTTAAGGGTTTA-GGGTT
* *
5709797 TTTAATTTAAGTG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
**
5709818 TTTGGGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
5709839 TTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
5709861 TTTAGGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
5709883 TT
1 TT
5709885 GTCAATTAAA
Statistics
Matches: 338, Mismatches: 46, Indels: 15
0.85 0.12 0.04
Matches are distributed among these distances:
20 3 0.01
21 122 0.36
22 205 0.61
23 8 0.02
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (22 bp):
TTTAAGTTAAGGGTTTAGGGTT
Found at i:5709532 original size:43 final size:42
Alignment explanation
Indices: 5709475--5709884 Score: 443
Period size: 43 Copynumber: 9.5 Consensus size: 42
5709465 AATTATATTT
*
5709475 AAGTTAAGGGTTAGGGTTTTTAATTTAAGGGTTTAGGATTTTA
1 AAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGG-TTTTA
* * * *
5709518 AAGTCAATGGTTAGGGTTTTTAAGTTAAGGG-TTAGAATTTTT
1 AAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAG-GTTTTA
* * *
5709560 AGGTTAAGGGTTTAGGGGTTTTAATTTAAGGGTTTATGGTTTTA
1 AAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTA-GGTTTTA
* *
5709604 AAATTAAGGGTTAGGGTTTTAAAGTTAAGGGTTTAGTGTTTTA
1 AAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAG-GTTTTA
*
5709647 AAGTTAAGGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTT
1 AAGTTAA-GGGTTAGGGTTTTTAAGTTAAGGGTTT-AGGTTTTA
*
5709691 AAGTTAAGGGGTTAGGGTTTTAAAGTTAAAGGG-TTAGGGTTTTA
1 AAGTTAA-GGGTTAGGGTTTTTAAGTT-AAGGGTTTA-GGTTTTA
*
5709735 AAGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTTATGGGTTTT-
1 AAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTA--GGTTTTA
* * *
5709778 AAGTTAAGGGTTTATGGG-TTTTAATTTAAGTG-TTAGGGTTTTT
1 AAGTTAAGGG-TTA-GGGTTTTTAAGTTAAGGGTTTA-GGTTTTA
** *
5709821 GGGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTT
1 AAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTT-AGGTTTTA
* *
5709864 AGGTTAAGGGTTTAAGGTTTT
1 AAGTTAAGGG-TTAGGGTTTT
5709885 GTCAATTAAA
Statistics
Matches: 316, Mismatches: 33, Indels: 35
0.82 0.09 0.09
Matches are distributed among these distances:
41 3 0.01
42 43 0.14
43 141 0.45
44 118 0.37
45 11 0.03
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.43
Consensus pattern (42 bp):
AAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGTTTTA
Found at i:5710463 original size:18 final size:18
Alignment explanation
Indices: 5710436--5710470 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
5710426 TAAAAAGAAA
* *
5710436 ACATATAAGGGTTAGGAT
1 ACATAAAAGGGCTAGGAT
5710454 ACATAAAAGGGCTAGGA
1 ACATAAAAGGGCTAGGA
5710471 AACGCACCTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.09, G:0.29, T:0.20
Consensus pattern (18 bp):
ACATAAAAGGGCTAGGAT
Found at i:5711101 original size:7 final size:7
Alignment explanation
Indices: 5711091--5711130 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
5711081 TTATATACAT
5711091 AATACTA
1 AATACTA
*
5711098 AATATTA
1 AATACTA
5711105 AATACTA
1 AATACTA
5711112 AATACTA
1 AATACTA
*
5711119 AGTACTA
1 AATACTA
5711126 AATAC
1 AATAC
5711131 CAATCGACTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.55, C:0.12, G:0.03, T:0.30
Consensus pattern (7 bp):
AATACTA
Found at i:5717798 original size:41 final size:41
Alignment explanation
Indices: 5717742--5717890 Score: 127
Period size: 41 Copynumber: 3.4 Consensus size: 41
5717732 AGATTTAATT
* *
5717742 TTTATATTTTTATATTTTGAACTTTAAATTTTTAATTTTGA
1 TTTAAATTTTAATATTTTGAACTTTAAATTTTTAATTTTGA
* * **** *
5717783 TTTAAATTTTAATATTTTTAAAATTTGATACAAAAATATATATTTAA
1 TTTAAATTTTAATA-TTTTGAACTTT-A-A-ATTTTTA-AT-TTTGA
* *
5717830 TTTTTATATTTTTATATTTTGAACTTTAAATTTTTAATTTTGA
1 --TTTAAATTTTAATATTTTGAACTTTAAATTTTTAATTTTGA
5717873 TTTAAATTTTAATATTTT
1 TTTAAATTTTAATATTTT
5717891 TAAAATTTGA
Statistics
Matches: 80, Mismatches: 20, Indels: 16
0.69 0.17 0.14
Matches are distributed among these distances:
41 28 0.35
42 9 0.11
43 5 0.06
44 3 0.04
45 6 0.08
46 3 0.04
47 5 0.06
48 9 0.11
49 12 0.15
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (41 bp):
TTTAAATTTTAATATTTTGAACTTTAAATTTTTAATTTTGA
Found at i:5717799 original size:49 final size:48
Alignment explanation
Indices: 5717733--5717892 Score: 176
Period size: 49 Copynumber: 3.4 Consensus size: 48
5717723 ACCATCCATA
*
5717733 GATTTAATTTTTATATTTTTATATTTTGAACTTTAAATTTTTAATTTT
1 GATTTAATTTTAATATTTTTATATTTTGAACTTTAAATTTTTAATTTT
* * *
5717781 GATTTAAATTTTAATATTTTTAAAATTTGATAC---AAA-----AATATAT
1 GATTT-AATTTTAATATTTTTATATTTTGA-ACTTTAAATTTTTAAT-TTT
*
5717824 -ATTTAATTTTTATATTTTTATATTTTGAACTTTAAATTTTTAATTTT
1 GATTTAATTTTAATATTTTTATATTTTGAACTTTAAATTTTTAATTTT
5717871 GATTTAAATTTTAATATTTTTA
1 GATTT-AATTTTAATATTTTTA
5717893 AAATTTGATA
Statistics
Matches: 90, Mismatches: 9, Indels: 25
0.73 0.07 0.20
Matches are distributed among these distances:
40 2 0.02
41 21 0.23
42 7 0.08
43 5 0.06
47 5 0.06
48 12 0.13
49 36 0.40
50 2 0.02
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (48 bp):
GATTTAATTTTAATATTTTTATATTTTGAACTTTAAATTTTTAATTTT
Found at i:5717841 original size:90 final size:91
Alignment explanation
Indices: 5717734--5717914 Score: 355
Period size: 90 Copynumber: 2.0 Consensus size: 91
5717724 CCATCCATAG
5717734 ATTTAATTTTTATATTTTTATATTTTGAACTTTAAATTTTTAATTTTGATTTAAATTTTAATATT
1 ATTTAATTTTTATATTTTTATATTTTGAACTTTAAATTTTTAATTTTGATTTAAATTTTAATATT
5717799 TTTAAAATTTGATAC-AAAAATATAT
66 TTTAAAATTTGATACGAAAAATATAT
5717824 ATTTAATTTTTATATTTTTATATTTTGAACTTTAAATTTTTAATTTTGATTTAAATTTTAATATT
1 ATTTAATTTTTATATTTTTATATTTTGAACTTTAAATTTTTAATTTTGATTTAAATTTTAATATT
5717889 TTTAAAATTTGATACGAAAAATATAT
66 TTTAAAATTTGATACGAAAAATATAT
5717915 TATTATATGT
Statistics
Matches: 90, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
90 80 0.89
91 10 0.11
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (91 bp):
ATTTAATTTTTATATTTTTATATTTTGAACTTTAAATTTTTAATTTTGATTTAAATTTTAATATT
TTTAAAATTTGATACGAAAAATATAT
Found at i:5727161 original size:34 final size:34
Alignment explanation
Indices: 5727118--5727185 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
5727108 TTGGAAGAAA
5727118 AACTTATAATTTTTTTATTAATTTTGTTTATAAT
1 AACTTATAATTTTTTTATTAATTTTGTTTATAAT
5727152 AACTTATAATTTTTTTATTAATTTTGTTTATAAT
1 AACTTATAATTTTTTTATTAATTTTGTTTATAAT
5727186 TTTTAAAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (34 bp):
AACTTATAATTTTTTTATTAATTTTGTTTATAAT
Found at i:5727189 original size:13 final size:11
Alignment explanation
Indices: 5727121--5727189 Score: 68
Period size: 12 Copynumber: 6.0 Consensus size: 11
5727111 GAAGAAAAAC
5727121 TTATAATTTTT
1 TTATAATTTTT
5727132 TTATTAATTTTGT
1 TTA-TAATTTT-T
***
5727145 TTATAA-TAAC
1 TTATAATTTTT
5727155 TTATAATTTTT
1 TTATAATTTTT
5727166 TTATTAATTTTGT
1 TTA-TAATTTT-T
5727179 TTATAATTTTT
1 TTATAATTTTT
5727190 AAAATTTAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
10 6 0.13
11 9 0.19
12 24 0.51
13 8 0.17
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (11 bp):
TTATAATTTTT
Found at i:5730083 original size:20 final size:20
Alignment explanation
Indices: 5730058--5730097 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
5730048 AATATTTTCC
* *
5730058 AGTAAATCATTTTACAGAAA
1 AGTAAAACACTTTACAGAAA
*
5730078 AGTAAAACACTTTCCAGAAA
1 AGTAAAACACTTTACAGAAA
5730098 TCATTTTACG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.15, G:0.10, T:0.25
Consensus pattern (20 bp):
AGTAAAACACTTTACAGAAA
Found at i:5741760 original size:13 final size:13
Alignment explanation
Indices: 5741742--5741780 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
5741732 GAATACACAT
5741742 AAATTTATATATA
1 AAATTTATATATA
*
5741755 AAATTTAGATTATA
1 AAATTTATA-TATA
5741769 AAAGTTTATATA
1 AAA-TTTATATA
5741781 AACAAAATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 8 0.36
14 9 0.41
15 5 0.23
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (13 bp):
AAATTTATATATA
Found at i:5743577 original size:44 final size:44
Alignment explanation
Indices: 5743514--5744194 Score: 327
Period size: 44 Copynumber: 15.7 Consensus size: 44
5743504 CTTGGGTCTA
5743514 CTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAATCTG
** ** *** * *
5743558 CTCCACTGCAACTTCAGGGAGATAAGATCTGCCATCCCCAGTCTA
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TATCGGCTTTAATCTG
* *** *
5743603 C-CTCACTGCAACTTCA-GGAGGATAAGACTTGTTTAC-TTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGA-TTATCGGCTTTAATCTG
* * ***
5743647 CTCCACTGCAACTTCAGGGAGATAAGACTA---GATGCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAATCTG
* * * * * * **
5743688 -TTCTCTGCAACTTCAGAGAGATAAGATCCA-AGGTTTTAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TATCGGCTTTAATCTG
*
5743731 CTCCACTGCAACTTCAGAGAGAT-AGAATTATCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAG-ATTATCGGCTTTAATCTG
* * ** * *
5743775 CTCTACTGCAACTTCAGGGAGATAAGATTTGTCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTATCGGCTTTAATCTG
* * *** *
5743820 C-CTCACTACAACTTCAGGG-GATAAGACTTGTTTAC-TTAGTCTG
1 CTC-CACTGCAACTTCAGGGAGATAAGA-TTATCGGCTTTAATCTG
* * * * * *
5743863 CTCCACTGCAACTTCAGGAAGATAAGA--CT-GGATGTGATTTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAATCTG
** * * * * *
5743904 CT-TTCTGCAACTTCAGAGAGATAAGATCCA-AGGTTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TATCGGCTTTAATCTG
* * * *
5743947 CTCCACTGCAACTTCAGGGAAATAGGGTTATCAGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAATCTG
* * * *
5743991 CTTCATTGCAACTTCAGGGAGATAAGATT-T-GCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATCGGC-T-TT-AATCTG
* *** *
5744036 C-CTCACTGCAACTTCA-GGAGGATAAGACTTGTTTAC-TTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGA-TTATCGGCTTTAATCTG
* ***
5744080 CTCCACTGCAACTTCAGGGAGATAAGATTA---GATGCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAATCTG
* * * * * *
5744121 CT-CTCTGCAACTTCAGAGAGATAAGATCCA-AGGTTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TATCGGCTTTAATCTG
*
5744164 CTCCACTGCAACTTCAGGGAGATAGGATTAT
1 CTCCACTGCAACTTCAGGGAGATAAGATTAT
5744195 TGGCCACCGA
Statistics
Matches: 478, Mismatches: 118, Indels: 82
0.71 0.17 0.12
Matches are distributed among these distances:
40 66 0.14
41 19 0.04
42 1 0.00
43 54 0.11
44 238 0.50
45 95 0.20
46 3 0.01
47 1 0.00
48 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAATCTG
Found at i:5743914 original size:172 final size:173
Alignment explanation
Indices: 5743736--5744064 Score: 400
Period size: 172 Copynumber: 1.9 Consensus size: 173
5743726 ATCCACTCCA
* * * * *
5743736 CTGCAACTTCAGAGAGAT-AGAAT-TATCGGCTTTAATCTGCTCTACTGCAACTTCAGGGAGATA
1 CTGCAACTTCAGAGAGATAAG-ATCCA-AGGCTTTAATCCGCTCCACTGCAACTTCAGGGAAAT-
* * * * **
5743799 AGATTTGTCATCTTCAGTCTGCCTCACTACAACTTCAGGG-GATAAGACTTG-TTTACTT-AGTC
63 AGAGTTATCAGCTTCAATCTGCCTCACTACAACTTCAGGGAGATAAGACTTGCCAT-CTTCAGTC
5743861 TG-CTCCACTGCAACTTCAGGAAGATAAGACTGGATGTGATTTGCTTT
127 TGCCT-CACTGCAACTTCAGGAAGATAAGACTGGATGTGATTTGCTTT
* *
5743908 CTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAAATAGG
1 CTGCAACTTCAGAGAGATAAGATCCAAGGCTTTAATCCGCTCCACTGCAACTTCAGGGAAATAGA
* * * * *
5743973 GTTATCAGCTTTAATCTGCTTCATTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCC
66 GTTATCAGCTTCAATCTGCCTCACTACAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCC
*
5744038 TCACTGCAACTTCAGGAGGATAAGACT
131 TCACTGCAACTTCAGGAAGATAAGACT
5744065 TGTTTACTTA
Statistics
Matches: 132, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
171 31 0.23
172 64 0.48
173 35 0.27
174 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (173 bp):
CTGCAACTTCAGAGAGATAAGATCCAAGGCTTTAATCCGCTCCACTGCAACTTCAGGGAAATAGA
GTTATCAGCTTCAATCTGCCTCACTACAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCC
TCACTGCAACTTCAGGAAGATAAGACTGGATGTGATTTGCTTT
Found at i:5744161 original size:217 final size:217
Alignment explanation
Indices: 5743514--5744194 Score: 1141
Period size: 217 Copynumber: 3.1 Consensus size: 217
5743504 CTTGGGTCTA
* *
5743514 CTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
1 CTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTTCACTGCAACTTCAGGGAG
* ** *
5743579 ATAAGATCTGCCATCCCCAGTCTACCTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTAGT
66 ATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTAGT
*
5743644 CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGTTCTCTGCAACTTCAGAGAGA
131 CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGA
*
5743709 TAAGATCCAAGGTTTTAATCCA
196 TAAGATCCAAGGTTTTAATCCG
* *
5743731 CTCCACTGCAACTTCAGAGAGATAGAATTATCGGCTTTAATCTGC-TCTACTGCAACTTCAGGGA
1 CTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTTC-ACTGCAACTTCAGGGA
* *
5743795 GATAAGATTTGTCATCTTCAGTCTGCCTCACTACAACTTCAGG-GGATAAGACTTGTTTACTTAG
65 GATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTAG
* * * * *
5743859 TCTGCTCCACTGCAACTTCAGGAAGATAAGACTGGATGTGATTTGCTTTCTGCAACTTCAGAGAG
130 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
5743924 ATAAGATCCAAGGTTTTAATCCG
195 ATAAGATCCAAGGTTTTAATCCG
* * * *
5743947 CTCCACTGCAACTTCAGGGAAATAGGGTTATCAGCTTTAATCTGCTTCATTGCAACTTCAGGGAG
1 CTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTTCACTGCAACTTCAGGGAG
5744012 ATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTAGT
66 ATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTAGT
*
5744077 CTGCTCCACTGCAACTTCAGGGAGATAAGATTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGA
131 CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGA
5744142 TAAGATCCAAGGTTTTAATCCG
196 TAAGATCCAAGGTTTTAATCCG
5744164 CTCCACTGCAACTTCAGGGAGATAGGATTAT
1 CTCCACTGCAACTTCAGGGAGATAGGATTAT
5744195 TGGCCACCGA
Statistics
Matches: 428, Mismatches: 33, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
216 199 0.46
217 229 0.54
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (217 bp):
CTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTTCACTGCAACTTCAGGGAG
ATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTAGT
CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGA
TAAGATCCAAGGTTTTAATCCG
Found at i:5756143 original size:18 final size:18
Alignment explanation
Indices: 5756111--5756158 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 18
5756101 AATGGCATAG
5756111 AAATAATATAAAAAAACAAAC
1 AAATAA-AT-AAAAAA-AAAC
*
5756132 AAATAAATAAAAAAAAAT
1 AAATAAATAAAAAAAAAC
*
5756150 AAATCAATA
1 AAATAAATA
5756159 GCATGCAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 11 0.44
19 6 0.24
20 2 0.08
21 6 0.24
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (18 bp):
AAATAAATAAAAAAAAAC
Found at i:5756497 original size:367 final size:369
Alignment explanation
Indices: 5755815--5756550 Score: 1210
Period size: 367 Copynumber: 2.0 Consensus size: 369
5755805 AAAATCTTTA
*
5755815 TCTCGAGAAAATCAACGTGTCACATCCAATACGTTAGGACACAACATATTGAATTCCCGATGACA
1 TCTCGAGAAAATCAACGTGTCACATCCAATACGTTAGGACACAACATATTGAATTCCCAATGACA
*
5755880 AGTTTATTTTGTTTGATTAAAGAGAAATCTTCAATTGTTAGATTTTACAAAAAAAATCGGAACCC
66 AGTTTATTTTGTTTGATTAAAGAGAAATCCTCAATTGTTAGATTTTACAAAAAAAATCGGAACCC
* **
5755945 AATACGTTAGGGCTCAATTTTCTTGAAAATCCTAAATACGAGTATTATCCCTATTTTGAAAAGTT
131 AATACATTAGGGCTCAATTTTCTTG--AA--C-AAATACGAGTATTATCCCTATTTTGAAAAACT
*
5756010 CTATTTTTAAAATCGAGTAAAACGATGACGTAATGTTATGTTGAATGTATGAATAGATGCCTCTT
191 CTATTTTTAAAATCGAGTAAAAAGATGACGTAATGTTATGTTGAATGTATGAATAGATGCCTCTT
*
5756075 AAACAAATATCAATAATAAATACAACAATGGCATAGAAATAATATAAAAAAACAAACAAATAAAT
256 AAACAAATATCAATAATAAATACAACAATGGCATAGAAATAATATAAAAAAACAAACAAACAAAT
*
5756140 AAAAAAAAATAAATCAATAGCATGCAAAGCATCAAAAAAACATTTTCTG
321 AAAAAAAAATAAATAAATAGCATGCAAAGCATCAAAAAAACATTTTCTG
5756189 TCTCGAG-AAATCAACGTGTCACATCCAATACGTTAGGACACAACATATTGAATTCCCAATGACA
1 TCTCGAGAAAATCAACGTGTCACATCCAATACGTTAGGACACAACATATTGAATTCCCAATGACA
* * * *
5756253 AGTTT-TATTTGTTTTGATTAAAGAGTAATCCTCGATTGTTAGATTTTACGAAGAAAATCGGAAC
66 AGTTTAT-TTTG-TTTGATTAAAGAGAAATCCTCAATTGTTAGATTTTACAAAAAAAATCGGAAC
* *
5756317 CCAATACATTAGGGCTCAATTTTCTTG-A-AGATACGAGTATTATCTCTATTTTGAAAAACTCTA
129 CCAATACATTAGGGCTCAATTTTCTTGAACAAATACGAGTATTATCCCTATTTTGAAAAACTCTA
*
5756380 TTTTTAAATTCGAGTAAAAAGATGACGTAATGTTATGTTGAATGTATGAATAGATGCCTCTTAAA
194 TTTTTAAAATCGAGTAAAAAGATGACGTAATGTTATGTTGAATGTATGAATAGATGCCTCTTAAA
* *
5756445 CAAATATCTATAATAAATACAACAATGGCATAGAAATAATATAAACAAACAAACAAACAAATAAA
259 CAAATATCAATAATAAATACAACAATGGCATAGAAATAATATAAAAAAACAAACAAACAAATAAA
* *
5756510 TAAAAATAAATAAATAGCATGCAAAGCATTAAAAAAACATT
324 AAAAAATAAATAAATAGCATGCAAAGCATCAAAAAAACATT
5756551 CTTTTAAAAT
Statistics
Matches: 341, Mismatches: 19, Indels: 11
0.92 0.05 0.03
Matches are distributed among these distances:
367 194 0.57
371 1 0.00
372 1 0.00
373 65 0.19
374 80 0.23
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.29
Consensus pattern (369 bp):
TCTCGAGAAAATCAACGTGTCACATCCAATACGTTAGGACACAACATATTGAATTCCCAATGACA
AGTTTATTTTGTTTGATTAAAGAGAAATCCTCAATTGTTAGATTTTACAAAAAAAATCGGAACCC
AATACATTAGGGCTCAATTTTCTTGAACAAATACGAGTATTATCCCTATTTTGAAAAACTCTATT
TTTAAAATCGAGTAAAAAGATGACGTAATGTTATGTTGAATGTATGAATAGATGCCTCTTAAACA
AATATCAATAATAAATACAACAATGGCATAGAAATAATATAAAAAAACAAACAAACAAATAAAAA
AAAATAAATAAATAGCATGCAAAGCATCAAAAAAACATTTTCTG
Found at i:5761170 original size:41 final size:41
Alignment explanation
Indices: 5761083--5761162 Score: 160
Period size: 41 Copynumber: 2.0 Consensus size: 41
5761073 AGGTTAGCCC
5761083 AAATTAAAAGTGATTTAATTTGGTTAAGGTTTATTGGGCCA
1 AAATTAAAAGTGATTTAATTTGGTTAAGGTTTATTGGGCCA
5761124 AAATTAAAAGTGATTTAATTTGGTTAAGGTTTATTGGGC
1 AAATTAAAAGTGATTTAATTTGGTTAAGGTTTATTGGGC
5761163 ATTAATTATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.34, C:0.04, G:0.23, T:0.40
Consensus pattern (41 bp):
AAATTAAAAGTGATTTAATTTGGTTAAGGTTTATTGGGCCA
Found at i:5763592 original size:39 final size:39
Alignment explanation
Indices: 5763538--5763616 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
5763528 TAAGCATTAC
*
5763538 AAATGCTTAGTAAGTTCACAGTTATCAAAATAACAACTT
1 AAATGCTTAGTAAGTTCACAGGTATCAAAATAACAACTT
*
5763577 AAATGCTTAGTAAGTTCATAGGTATCAAAATAACAACTT
1 AAATGCTTAGTAAGTTCACAGGTATCAAAATAACAACTT
5763616 A
1 A
5763617 CCTCATTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.30
Consensus pattern (39 bp):
AAATGCTTAGTAAGTTCACAGGTATCAAAATAACAACTT
Found at i:5783349 original size:38 final size:38
Alignment explanation
Indices: 5783171--5783358 Score: 196
Period size: 38 Copynumber: 4.9 Consensus size: 38
5783161 CGTAACGTTA
* *
5783171 ATTCAGGCTTTGTGCCTAACAGGCTTTGTGCCGGTGAT
1 ATTCGGGCTTTGTGCCTAGCAGGCTTTGTGCCGGTGAT
* * * ***
5783209 ATTCGGTCTCTATGCCTAGCAGGCTACATGCCGGTGAT
1 ATTCGGGCTTTGTGCCTAGCAGGCTTTGTGCCGGTGAT
* * * * *
5783247 ATTTGGGTTTTGTGCCTAGCAGGTTTTGTACCGGCGAT
1 ATTCGGGCTTTGTGCCTAGCAGGCTTTGTGCCGGTGAT
* * * *
5783285 GTTCGGGCTTTGTGCCGAGCAAGCTTTGTGCTGGTGAT
1 ATTCGGGCTTTGTGCCTAGCAGGCTTTGTGCCGGTGAT
* * *
5783323 ATTCGGGCTCTGTGCCTAGTAGGCTTTGTGCTGGTG
1 ATTCGGGCTTTGTGCCTAGCAGGCTTTGTGCCGGTG
5783359 TAATTGTATC
Statistics
Matches: 117, Mismatches: 33, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
38 117 1.00
ACGTcount: A:0.13, C:0.20, G:0.32, T:0.35
Consensus pattern (38 bp):
ATTCGGGCTTTGTGCCTAGCAGGCTTTGTGCCGGTGAT
Found at i:5789266 original size:2 final size:2
Alignment explanation
Indices: 5789259--5789288 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
5789249 ATCCAAATAC
5789259 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5789289 GTAGCTTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5789788 original size:46 final size:46
Alignment explanation
Indices: 5789719--5789849 Score: 181
Period size: 46 Copynumber: 2.8 Consensus size: 46
5789709 ATATTAATGA
* * *
5789719 ATTCTCGAGTTTGCAACATATGCAGGAGCTCGGAACCTAAACTTGT
1 ATTCTCGAGTCTGCAACACATGCAGGAGCTCGGAACCTAAACTTAT
* ***
5789765 ATTCTCGAGTCTGCAACACATGCAGGAGCTCAGAACCTATTTTTAT
1 ATTCTCGAGTCTGCAACACATGCAGGAGCTCGGAACCTAAACTTAT
**
5789811 ATTCTCGAGTCCACAACACATGCAGGAGCTCGGAACCTA
1 ATTCTCGAGTCTGCAACACATGCAGGAGCTCGGAACCTA
5789850 CTCAAAAATA
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (46 bp):
ATTCTCGAGTCTGCAACACATGCAGGAGCTCGGAACCTAAACTTAT
Found at i:5797932 original size:26 final size:26
Alignment explanation
Indices: 5797903--5797954 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
5797893 AGCCAACCCC
*
5797903 AAATTATTTTTCGGGGTATTATTGAT
1 AAATTATTTTTCGAGGTATTATTGAT
5797929 AAATTATTTTTCGAGGTATTATTGAT
1 AAATTATTTTTCGAGGTATTATTGAT
5797955 TCGAGCTTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.04, G:0.17, T:0.50
Consensus pattern (26 bp):
AAATTATTTTTCGAGGTATTATTGAT
Found at i:5800233 original size:104 final size:105
Alignment explanation
Indices: 5800049--5800257 Score: 393
Period size: 104 Copynumber: 2.0 Consensus size: 105
5800039 AAACAACTAA
5800049 AATAACATAAATAAAAGGAGTCTTCAGAAAGCTAGATTATAAACTGAATCAAACGTAAGCATGGA
1 AATAACATAAATAAAAGGAGTCTTCAGAAAGCTAGATTATAAACTGAATCAAACGTAAGCATGGA
5800114 TGATTAGCTCACTTCGGTAATCCTCATC-ACTGTCGCTTC
66 TGATTAGCTCACTTCGGTAATCCTCATCAACTGTCGCTTC
5800153 AATAACATAAATAAAAGGAGTCTTCAGAAAGCTAGATTATAAACTGAATCAAACGTAAGCATGGA
1 AATAACATAAATAAAAGGAGTCTTCAGAAAGCTAGATTATAAACTGAATCAAACGTAAGCATGGA
* *
5800218 TGATTAGCTCGCTTCGGTAATCCTCATCAATTGTCGCTTC
66 TGATTAGCTCACTTCGGTAATCCTCATCAACTGTCGCTTC
5800258 GGTAATCCTC
Statistics
Matches: 102, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
104 92 0.90
105 10 0.10
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (105 bp):
AATAACATAAATAAAAGGAGTCTTCAGAAAGCTAGATTATAAACTGAATCAAACGTAAGCATGGA
TGATTAGCTCACTTCGGTAATCCTCATCAACTGTCGCTTC
Found at i:5800383 original size:25 final size:25
Alignment explanation
Indices: 5800226--5800380 Score: 249
Period size: 25 Copynumber: 6.2 Consensus size: 25
5800216 GATGATTAGC
*
5800226 TCGCTTCGGTAATCCTCATCAATTG
1 TCGCTTCGGTAATCCTCATCAACTG
*
5800251 TCGCTTCGGTAATCCTCATCAATTG
1 TCGCTTCGGTAATCCTCATCAACTG
*
5800276 TCGCTTCGGTAATCCTCATCAATTG
1 TCGCTTCGGTAATCCTCATCAACTG
*
5800301 TCGCTTCGGTAATCCTCAGCAACTG
1 TCGCTTCGGTAATCCTCATCAACTG
5800326 TCGCTT-GGTAATCCTCATCAACTG
1 TCGCTTCGGTAATCCTCATCAACTG
* *
5800350 TCACTTTGGTAATCCTCATCAACTG
1 TCGCTTCGGTAATCCTCATCAACTG
5800375 TCGCTT
1 TCGCTT
5800381 TGGGTTCTTT
Statistics
Matches: 124, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
24 22 0.18
25 102 0.82
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.35
Consensus pattern (25 bp):
TCGCTTCGGTAATCCTCATCAACTG
Found at i:5804541 original size:27 final size:28
Alignment explanation
Indices: 5804502--5804555 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
5804492 GCTCGATGTG
5804502 GTAAAACCACCGAATAAC-AATAATGCA
1 GTAAAACCACCGAATAACGAATAATGCA
**
5804529 GTAAAACTGCCGAATAACGAATAATGC
1 GTAAAACCACCGAATAACGAATAATGC
5804556 GATATAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.48, C:0.20, G:0.15, T:0.17
Consensus pattern (28 bp):
GTAAAACCACCGAATAACGAATAATGCA
Found at i:5804677 original size:5 final size:5
Alignment explanation
Indices: 5804667--5804692 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
5804657 ACCACAAAAT
5804667 ATCCC ATCCC ATCCC ATCCC ATCCC A
1 ATCCC ATCCC ATCCC ATCCC ATCCC A
5804693 ATGCACATGT
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:0.23, C:0.58, G:0.00, T:0.19
Consensus pattern (5 bp):
ATCCC
Found at i:5807529 original size:25 final size:25
Alignment explanation
Indices: 5807501--5807627 Score: 211
Period size: 25 Copynumber: 5.1 Consensus size: 25
5807491 GATTAGCTCA
5807501 CTTCGGTAATCCTCATCAACTGTCG
1 CTTCGGTAATCCTCATCAACTGTCG
5807526 CTTCGGTAATCCTCATCAACTGTCG
1 CTTCGGTAATCCTCATCAACTGTCG
*
5807551 CTTCGGTAATCCTCATCAATTGTCG
1 CTTCGGTAATCCTCATCAACTGTCG
* * *
5807576 CTTTGGTAATCCTCAGCAGCTGTCG
1 CTTCGGTAATCCTCATCAACTGTCG
5807601 CTT-GGTAATCCTCATCAACTGTCG
1 CTTCGGTAATCCTCATCAACTGTCG
5807625 CTT
1 CTT
5807628 TGGGTTCTTT
Statistics
Matches: 95, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
24 22 0.23
25 73 0.77
ACGTcount: A:0.19, C:0.30, G:0.17, T:0.34
Consensus pattern (25 bp):
CTTCGGTAATCCTCATCAACTGTCG
Found at i:5812226 original size:27 final size:28
Alignment explanation
Indices: 5812187--5812240 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
5812177 GCTCGATGTG
5812187 GTAAAACCACCGAATAAC-AATAATGCA
1 GTAAAACCACCGAATAACGAATAATGCA
**
5812214 GTAAAACTGCCGAATAACGAATAATGC
1 GTAAAACCACCGAATAACGAATAATGC
5812241 GATATAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.48, C:0.20, G:0.15, T:0.17
Consensus pattern (28 bp):
GTAAAACCACCGAATAACGAATAATGCA
Found at i:5817760 original size:20 final size:20
Alignment explanation
Indices: 5817708--5817802 Score: 79
Period size: 20 Copynumber: 4.8 Consensus size: 20
5817698 GAGGTACTGA
*
5817708 AGTGCAAATAGAAGCACGAT
1 AGTGCAAATAGAGGCACGAT
* *
5817728 TGTGC-AATCAGAGGCACCAT
1 AGTGCAAAT-AGAGGCACGAT
*
5817748 AGTGCAAATAGAGACACTGA-
1 AGTGCAAATAGAGGCAC-GAT
*
5817768 AGTGTAAATAGAGGCACTGA-
1 AGTGCAAATAGAGGCAC-GAT
* *
5817788 AGTGCGAACAGAGGC
1 AGTGCAAATAGAGGC
5817803 TCTGAAGTGC
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
19 3 0.05
20 54 0.89
21 4 0.07
ACGTcount: A:0.39, C:0.17, G:0.28, T:0.16
Consensus pattern (20 bp):
AGTGCAAATAGAGGCACGAT
Found at i:5817792 original size:40 final size:42
Alignment explanation
Indices: 5817696--5817811 Score: 100
Period size: 40 Copynumber: 2.9 Consensus size: 42
5817686 AAATGTGTAA
* * *
5817696 CAGAGGTACTGAAGTGCAAATAGA-AGCAC-G-ATTGTGCAAT
1 CAGAGGCACTGAAGTGCAAATAGAGA-CACTGAAGTGTGAAAT
*
5817736 CAGAGGCAC-CATAGTGCAAATAGAGACACTGAAGTGT-AAAT
1 CAGAGGCACTGA-AGTGCAAATAGAGACACTGAAGTGTGAAAT
* * * *
5817777 -AGAGGCACTGAAGTGCGAACAGAGGCTCTGAAGTG
1 CAGAGGCACTGAAGTGCAAATAGAGACACTGAAGTG
5817812 CAATCCCGTA
Statistics
Matches: 62, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
39 1 0.02
40 51 0.82
41 6 0.10
42 4 0.06
ACGTcount: A:0.37, C:0.16, G:0.29, T:0.17
Consensus pattern (42 bp):
CAGAGGCACTGAAGTGCAAATAGAGACACTGAAGTGTGAAAT
Found at i:5828332 original size:41 final size:40
Alignment explanation
Indices: 5828274--5828406 Score: 131
Period size: 41 Copynumber: 3.2 Consensus size: 40
5828264 ACCGACATGT
* * * * *
5828274 AGCCTGCTAGGCTTAAAGCCTGATTCAGAACACCGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGAAT-AGAACACCAGCATTA
***
5828315 AGCCTGCTAGACGTAAAGTCTGAAATATTTCACCAGCATTA
1 AGCCTGCTAGACGTAAAGTCTG-AATAGAACACCAGCATTA
*** *
5828356 AGCCTGCTAGACGTAAAGTCTGAATTATTTCACTAGCATTA
1 AGCCTGCTAGACGTAAAGTCTGAA-TAGAACACCAGCATTA
5828397 AGCCTGCTAG
1 AGCCTGCTAG
5828407 GCACAGAGCC
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
40 2 0.02
41 77 0.95
42 2 0.02
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (40 bp):
AGCCTGCTAGACGTAAAGTCTGAATAGAACACCAGCATTA
Found at i:5828421 original size:41 final size:41
Alignment explanation
Indices: 5828304--5828406 Score: 179
Period size: 41 Copynumber: 2.5 Consensus size: 41
5828294 TGATTCAGAA
* *
5828304 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATATTT
1 CACCAGCATTAAGCCTGCTAGACGTAAAGTCTGAATTATTT
5828345 CACCAGCATTAAGCCTGCTAGACGTAAAGTCTGAATTATTT
1 CACCAGCATTAAGCCTGCTAGACGTAAAGTCTGAATTATTT
*
5828386 CACTAGCATTAAGCCTGCTAG
1 CACCAGCATTAAGCCTGCTAG
5828407 GCACAGAGCC
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.27
Consensus pattern (41 bp):
CACCAGCATTAAGCCTGCTAGACGTAAAGTCTGAATTATTT
Found at i:5840283 original size:25 final size:25
Alignment explanation
Indices: 5840255--5840302 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
5840245 CACTTAACGG
* *
5840255 GAAGCTCTTTTGAGCCATATAACTT
1 GAAGCTCATGTGAGCCATATAACTT
*
5840280 GAAGCTCATGTGAGCCATGTAAC
1 GAAGCTCATGTGAGCCATATAAC
5840303 AGAAAGCTCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (25 bp):
GAAGCTCATGTGAGCCATATAACTT
Found at i:5847354 original size:45 final size:41
Alignment explanation
Indices: 5847255--5847418 Score: 175
Period size: 41 Copynumber: 3.8 Consensus size: 41
5847245 TTTCATGCTG
*
5847255 ATACATGAAGACAAGATCTTCTTTCTTCGATCTACTTCGCCA
1 ATACAT-AAGACAAGATCTACTTTCTTCGATCTACTTCGCCA
5847297 ATACATAAGACAAGATCTACTTTCTTCGATCTACTTCGCCA
1 ATACATAAGACAAGATCTACTTTCTTCGATCTACTTCGCCA
* * * * *
5847338 CTAGTATGGAAAGACAAGATCTGCTATCTTCGATCTACTTCACACCA
1 ATA-CAT---AAGACAAGATCTACTTTCTTCGATCTACTT--CGCCA
* * *
5847385 ATACATGAAGACAAGATCTGCTATCTTTGATCTA
1 ATACAT-AAGACAAGATCTACTTTCTTCGATCTA
5847419 ATTCACGCTA
Statistics
Matches: 106, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
41 36 0.34
42 8 0.08
44 26 0.25
45 28 0.26
46 2 0.02
47 6 0.06
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (41 bp):
ATACATAAGACAAGATCTACTTTCTTCGATCTACTTCGCCA
Found at i:5847424 original size:44 final size:44
Alignment explanation
Indices: 5847217--5847431 Score: 224
Period size: 44 Copynumber: 4.9 Consensus size: 44
5847207 ACCAGTATGG
* * * * **
5847217 GAAGACAAGATCTGCTACCTTTGATCTATTTCATGCTGATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* *
5847261 GAAGACAAGATCTTCTTTCTTCGATCTACTT--CGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * * *
5847303 -AAGACAAGATCTACTTTCTTCGATCTACTT--CGCCACTAGTAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATA-CAT
*
5847345 GGAAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATACAT
1 -G-AAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * *
5847391 GAAGACAAGATCTGCTATCTTTGATCTAATTCACGCTAATA
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATA
5847432 TCTTTGATCT
Statistics
Matches: 145, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
41 36 0.25
42 10 0.07
44 62 0.43
45 29 0.20
46 2 0.01
47 6 0.04
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (44 bp):
GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
Found at i:5847433 original size:24 final size:24
Alignment explanation
Indices: 5847406--5847455 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
5847396 CAAGATCTGC
*
5847406 TATCTTTGATCTAATTCACGCTAA
1 TATCTTTGATCTAATTCACGCCAA
*
5847430 TATCTTTGATCTACTTCACGCCAA
1 TATCTTTGATCTAATTCACGCCAA
5847454 TA
1 TA
5847456 CATGAAGACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (24 bp):
TATCTTTGATCTAATTCACGCCAA
Found at i:5847472 original size:68 final size:68
Alignment explanation
Indices: 5847362--5847499 Score: 231
Period size: 68 Copynumber: 2.0 Consensus size: 68
5847352 CAAGATCTGC
5847362 TATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTATCTTTGATCTAATTCACGC
1 TATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTATCTTTGATCTAATTCACGC
*
5847427 TAA
66 CAA
* * * *
5847430 TATCTTTGATCTACTTCACGCCAATACATGAAGACAATATCTGCTATCTTTGATCTACTTCACGC
1 TATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTATCTTTGATCTAATTCACGC
5847495 CAA
66 CAA
5847498 TA
1 TA
5847500 CATGAAGACA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 65 1.00
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.33
Consensus pattern (68 bp):
TATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTATCTTTGATCTAATTCACGC
CAA
Found at i:5847493 original size:44 final size:44
Alignment explanation
Indices: 5847430--5847670 Score: 338
Period size: 44 Copynumber: 5.5 Consensus size: 44
5847420 TTCACGCTAA
* *
5847430 TATCTTTGATCTACTTCACGCCAATACATGAAGACAATATCTGC
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
*
5847474 TATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
* * * ***
5847518 TTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGC
*
5847563 TATCTTCGATTTACTTCACGCCAATACATGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
* * *
5847607 TATTTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTAC
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
* *
5847651 TTTCTTCGATCTATTTCACG
1 TATCTTCGATCTACTTCACG
5847671 ACAACCCAGG
Statistics
Matches: 173, Mismatches: 23, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
44 136 0.79
45 37 0.21
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (44 bp):
TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
Found at i:5847580 original size:201 final size:198
Alignment explanation
Indices: 5847235--5847632 Score: 616
Period size: 201 Copynumber: 2.0 Consensus size: 198
5847225 GATCTGCTAC
* * ** * *
5847235 CTTTGATCTATTTCATGCTGATACATGAAGACAAGATCTTCTTTCTTCGATCTACTTCGCCAATA
1 CTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCGCCAATA
* *
5847300 CATAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACTAGTATGGAAAGACAAGATCTGCTAT
66 CATAAGACAAGATCTACTTTCTTCGATCTACTTCACCACCAGTATGGAAAGACAAGATCTGCTAT
*
5847365 CTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTATCTTTGATCTAATTCACGCTAA
131 CTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTATCTTTGATCTAATTCACGCCAA
5847430 TAT
196 TAT
* *
5847433 CTTTGATCTACTTCACGCCAATACATGAAGACAATATCTGCTATCTTTGATCTACTTCACGCCAA
1 CTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTT--CGCCAA
* *
5847498 TACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGC
64 TACAT-AAGACAAGATCTACTTTCTTCGATCTACTTCACCACCAGTATGGAAAGACAAGATCTGC
* * * *
5847563 TATCTTCGATTTACTTCACGCCAATACATGAAGACAAGATCTGCTATTTTTGATCTACTTCACGC
128 TATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTATCTTTGATCTAATTCACGC
5847628 CAATA
193 CAATA
5847633 CATGAAGACA
Statistics
Matches: 180, Mismatches: 17, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
198 49 0.27
200 11 0.06
201 120 0.67
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (198 bp):
CTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCGCCAATA
CATAAGACAAGATCTACTTTCTTCGATCTACTTCACCACCAGTATGGAAAGACAAGATCTGCTAT
CTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTATCTTTGATCTAATTCACGCCAA
TAT
Found at i:5847587 original size:89 final size:88
Alignment explanation
Indices: 5847437--5847670 Score: 317
Period size: 89 Copynumber: 2.6 Consensus size: 88
5847427 TAATATCTTT
* * * *
5847437 GATCTACTTCACGCCAATACATGAAGACAATATCTGCTATCTTTGATCTACTTCACGCCAATACA
1 GATCTACTTCACACCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACA
5847502 TGAAGACAAGATCTGCT-TTCTTC
66 TGAAGACAAGATCTGCTATT-TTC
* ** *
5847525 GATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATCTTCGATTTACTTCACGCCAATAC
1 GATCTACTTCA-CACCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATAC
*
5847590 ATGAAGACAAGATCTGCTATTTTT
65 ATGAAGACAAGATCTGCTATTTTC
* * * * *
5847614 GATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTTCGATCTATTTCACG
1 GATCTACTTCACACCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACG
5847671 ACAACCCAGG
Statistics
Matches: 126, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
88 48 0.38
89 76 0.60
90 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (88 bp):
GATCTACTTCACACCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACA
TGAAGACAAGATCTGCTATTTTC
Found at i:5847669 original size:133 final size:133
Alignment explanation
Indices: 5847430--5847669 Score: 426
Period size: 133 Copynumber: 1.8 Consensus size: 133
5847420 TTCACGCTAA
* *
5847430 TATCTTTGATCTACTTCACGCCAATACATGAAGACAATATCTGCTATCTTTGATCTACTTCACGC
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTTGATCTACTTCACGC
*
5847495 CAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATC
66 CAATACATGAAGACAAGATCTACTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATC
5847560 TGC
131 TGC
* *
5847563 TATCTTCGATTTACTTCACGCCAATACATGAAGACAAGATCTGCTATTTTTGATCTACTTCACGC
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTTGATCTACTTCACGC
*
5847628 CAATACATGAAGACAAGATCTACTTTCTTCGATCTATTTCAC
66 CAATACATGAAGACAAGATCTACTTTCTTCGATCTACTTCAC
5847670 GACAACCCAG
Statistics
Matches: 101, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
133 101 1.00
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (133 bp):
TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTTGATCTACTTCACGC
CAATACATGAAGACAAGATCTACTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATC
TGC
Found at i:5847733 original size:88 final size:89
Alignment explanation
Indices: 5847631--5847922 Score: 349
Period size: 88 Copynumber: 3.3 Consensus size: 89
5847621 TTCACGCCAA
* * * * ** * * **
5847631 TACATGAAGACAAGATCTACTT-TCTTCGATCTATTTCACGACAACCCAGGGAGATAAGGCTGGT
1 TACAGGAAGGCAAGATCTACTTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGT
5847695 ATCTTCGATCTGCTTCACTGTCGG
66 ATCTTCGATCTGCTTCACTGTCGG
* * *
5847719 TACAGGAAGGCAAGATCT-GTTATCTTCAACCTGCTCCACTACGACCCAAGGAGGCAAGGCTGGT
1 TACAGGAAGGCAAGATCTACTTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGT
* * *
5847783 ATCTTCAATCTGCTTCACTATTGG
66 ATCTTCGATCTGCTTCACTGTCGG
* * *
5847807 TACAGGAAGGCAAGATTTGC-TATCTTCAACCTGCTCCACTACAACCTAGGGAGGCAAGGCTGGT
1 TACAGGAAGGCAAGATCTACTTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGT
* *
5847871 ATCTTCGATCTGCTTCGCTGTCGA
66 ATCTTCGATCTGCTTCACTGTCGG
* *
5847895 TGCAGGAATGCAAGATCTA-TTATCTTCA
1 TACAGGAAGGCAAGATCTACTTATCTTCA
5847923 CTGATCTGCT
Statistics
Matches: 171, Mismatches: 30, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
87 2 0.01
88 169 0.99
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.28
Consensus pattern (89 bp):
TACAGGAAGGCAAGATCTACTTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGT
ATCTTCGATCTGCTTCACTGTCGG
Found at i:5847790 original size:43 final size:43
Alignment explanation
Indices: 5847739--5847876 Score: 134
Period size: 43 Copynumber: 3.2 Consensus size: 43
5847729 CAAGATCTGT
5847739 TATCTTCAACCTGCTCCACTACGACCCAAGGAGGCAAGGCTGG
1 TATCTTCAACCTGCTCCACTACGACCCAAGGAGGCAAGGCTGG
* * * *** ** *
5847782 TATCTTCAATCTGCTTCACTATTGGTAC-AGGAAGGCAAGATTTGC
1 TATCTTCAACCTGCTCCACTA-CGACCCAAGG-AGGCAAG-GCTGG
* * *
5847827 TATCTTCAACCTGCTCCACTACAACCTAGGGAGGCAAGGCTGG
1 TATCTTCAACCTGCTCCACTACGACCCAAGGAGGCAAGGCTGG
5847870 TATCTTC
1 TATCTTC
5847877 GATCTGCTTC
Statistics
Matches: 70, Mismatches: 21, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
43 31 0.44
44 16 0.23
45 23 0.33
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (43 bp):
TATCTTCAACCTGCTCCACTACGACCCAAGGAGGCAAGGCTGG
Found at i:5847847 original size:45 final size:45
Alignment explanation
Indices: 5847694--5847847 Score: 152
Period size: 45 Copynumber: 3.5 Consensus size: 45
5847684 ATAAGGCTGG
* * * * *
5847694 TATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGT
1 TATCTTCAACCTGCTCCACTATCGGTACAGGAAGGCAAGATCTGC
*** * *
5847739 TATCTTCAACCTGCTCCACTA-CGACCCAAGG-AGGCAAG-GCTGG
1 TATCTTCAACCTGCTCCACTATCGGTAC-AGGAAGGCAAGATCTGC
* * * *
5847782 TATCTTCAATCTGCTTCACTATTGGTACAGGAAGGCAAGATTTGC
1 TATCTTCAACCTGCTCCACTATCGGTACAGGAAGGCAAGATCTGC
5847827 TATCTTCAACCTGCTCCACTA
1 TATCTTCAACCTGCTCCACTA
5847848 CAACCTAGGG
Statistics
Matches: 85, Mismatches: 20, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
43 25 0.29
44 19 0.22
45 41 0.48
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.29
Consensus pattern (45 bp):
TATCTTCAACCTGCTCCACTATCGGTACAGGAAGGCAAGATCTGC
Found at i:5847884 original size:43 final size:42
Alignment explanation
Indices: 5847665--5847886 Score: 133
Period size: 43 Copynumber: 5.1 Consensus size: 42
5847655 TTCGATCTAT
* ** *
5847665 TTCACGACAACCCAGGGAGATAAGGCTGGTATCTTCGATCTGC
1 TTCACTACAA-CCAGGGAGGCAAGGCTGGTATCTTCAATCTGC
* * * * * *
5847708 TTCACTGTCGGTA-CAGGAAGGCAAGATCTGTTATCTTCAACCTGC
1 TTCACT-AC--AACCAGGGAGGCAAG-GCTGGTATCTTCAATCTGC
* * *
5847753 TCCACTACGACCCAAGGAGGCAAGGCTGGTATCTTCAATCTGC
1 TTCACTAC-AACCAGGGAGGCAAGGCTGGTATCTTCAATCTGC
** * ** * *
5847796 TTCACTATTGGTA-CAGGAAGGCAAGATTTGCTATCTTCAACCTGC
1 TTCACTA---CAACCAGGGAGGCAAG-GCTGGTATCTTCAATCTGC
* *
5847841 TCCACTACAACCTAGGGAGGCAAGGCTGGTATCTTCGATCTGC
1 TTCACTACAACC-AGGGAGGCAAGGCTGGTATCTTCAATCTGC
5847884 TTC
1 TTC
5847887 GCTGTCGATG
Statistics
Matches: 129, Mismatches: 39, Indels: 22
0.68 0.21 0.12
Matches are distributed among these distances:
42 1 0.01
43 45 0.35
44 41 0.32
45 41 0.32
46 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (42 bp):
TTCACTACAACCAGGGAGGCAAGGCTGGTATCTTCAATCTGC
Found at i:5855965 original size:21 final size:20
Alignment explanation
Indices: 5855913--5855991 Score: 90
Period size: 19 Copynumber: 3.9 Consensus size: 20
5855903 AAATTAAATC
* *
5855913 TCTAAGATTACAAAATCATA
1 TCTAAGATTGCAATATCATA
5855933 TCTTCCAAGATTGCATATATCATA
1 TC-T--AAGATTGCA-ATATCATA
5855957 TCTAAGATTGC-ATATCATA
1 TCTAAGATTGCAATATCATA
5855976 TCTAAGATTGC-ATATC
1 TCTAAGATTGCAATATC
5855992 CTTGAAGATT
Statistics
Matches: 53, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
19 24 0.45
20 2 0.04
21 9 0.17
23 9 0.17
24 9 0.17
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.35
Consensus pattern (20 bp):
TCTAAGATTGCAATATCATA
Found at i:5858164 original size:30 final size:30
Alignment explanation
Indices: 5858123--5858390 Score: 226
Period size: 30 Copynumber: 9.0 Consensus size: 30
5858113 AAAATCACGG
* * *
5858123 TGGTTATCACCATCTCTTTTCATAATTCAA
1 TGGTCATCACCATCCCTTTTCATAATTCGA
*
5858153 TGGTCATCACCATCCCATTTCATAATT-GA
1 TGGTCATCACCATCCCTTTTCATAATTCGA
** * *
5858182 TGGTTGTCACCATCCTTTTTCATAAATCGA
1 TGGTCATCACCATCCCTTTTCATAATTCGA
* * *
5858212 TAG-C-TGAAGCTATCCCTTTTCATAATTCGA
1 TGGTCAT-CA-CCATCCCTTTTCATAATTCGA
* *
5858242 TGGTCGTCACCATCCCTTTTCATAGTT-GA
1 TGGTCATCACCATCCCTTTTCATAATTCGA
*
5858271 TGGTCATCACCATCCCTTTTCATAATTTGA
1 TGGTCATCACCATCCCTTTTCATAATTCGA
*** * * *
5858301 CAATCGA--AGCTATCCTTTTTCATAATTCAA
1 TGGTC-ATCA-CCATCCCTTTTCATAATTCGA
* *
5858331 TGGTCGTCACCATCCCTTTTCATAGTT-GA
1 TGGTCATCACCATCCCTTTTCATAATTCGA
* * *
5858360 TGGTCGTCGCCATCCTTTTTCATAATTCGA
1 TGGTCATCACCATCCCTTTTCATAATTCGA
5858390 T
1 T
5858391 AGTTGAAGCT
Statistics
Matches: 188, Mismatches: 39, Indels: 22
0.76 0.16 0.09
Matches are distributed among these distances:
28 1 0.01
29 77 0.41
30 105 0.56
31 4 0.02
32 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (30 bp):
TGGTCATCACCATCCCTTTTCATAATTCGA
Found at i:5858290 original size:59 final size:59
Alignment explanation
Indices: 5858129--5858387 Score: 267
Period size: 59 Copynumber: 4.4 Consensus size: 59
5858119 ACGGTGGTTA
* *
5858129 TCACCAT-CTCTTTTCATAATTCAATGGTCATCACCATCCCATTTCATAATTGATGGTTG
1 TCACCATCCT-TTTTCATAATTCAATGGTCATCACCATCCCTTTTCATAATTGATGGTCG
* * * * *
5858188 TCACCATCCTTTTTCATAAATCGATAG-C-TGAAGCTATCCCTTTTCATAATTCGATGGTCG
1 TCACCATCCTTTTTCATAATTCAATGGTCAT-CA-CCATCCCTTTTCATAATT-GATGGTCG
* * * ***
5858248 TCACCATCCCTTTTCATAGTT-GATGGTCATCACCATCCCTTTTCATAATTTGACAATCG
1 TCACCATCCTTTTTCATAATTCAATGGTCATCACCATCCCTTTTCATAA-TTGATGGTCG
* * * *
5858307 -AAGCTATCCTTTTTCATAATTCAATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCG
1 TCA-CCATCCTTTTTCATAATTCAATGGTCATCACCATCCCTTTTCATAATTGATGGTCG
*
5858366 TCGCCATCCTTTTTCATAATTC
1 TCACCATCCTTTTTCATAATTC
5858388 GATAGTTGAA
Statistics
Matches: 161, Mismatches: 29, Indels: 20
0.77 0.14 0.10
Matches are distributed among these distances:
57 1 0.01
58 3 0.02
59 101 0.63
60 55 0.34
61 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.39
Consensus pattern (59 bp):
TCACCATCCTTTTTCATAATTCAATGGTCATCACCATCCCTTTTCATAATTGATGGTCG
Found at i:5858291 original size:89 final size:89
Alignment explanation
Indices: 5858138--5858414 Score: 412
Period size: 89 Copynumber: 3.1 Consensus size: 89
5858128 ATCACCATCT
* * * *
5858138 CTTTTCATAATTCAATGGTCATCACCATCCCATTTCATAATTGATGGTTGTCACCATCCTTTTTC
1 CTTTTCATAATTCAATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCTTTTTC
* *
5858203 ATAAATCGATAGCTGAAGCTATCC
66 ATAATTCGATAGATGAAGCTATCC
* * *
5858227 CTTTTCATAATTCGATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCATCACCATCCCTTTTC
1 CTTTTCATAATTCAATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCTTTTTC
* *
5858292 ATAATTTGACA-ATCGAAGCTATCC
66 ATAATTCGATAGAT-GAAGCTATCC
* *
5858316 TTTTTCATAATTCAATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCGTCGCCATCCTTTTTC
1 CTTTTCATAATTCAATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCTTTTTC
*
5858381 ATAATTCGATAGTTGAAGCTATCC
66 ATAATTCGATAGATGAAGCTATCC
5858405 CTTTTCATAA
1 CTTTTCATAA
5858415 AATGCTATTT
Statistics
Matches: 166, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
88 1 0.01
89 164 0.99
90 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (89 bp):
CTTTTCATAATTCAATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCTTTTTC
ATAATTCGATAGATGAAGCTATCC
Found at i:5858405 original size:59 final size:58
Alignment explanation
Indices: 5858161--5858414 Score: 226
Period size: 59 Copynumber: 4.3 Consensus size: 58
5858151 AATGGTCATC
* * * *
5858161 ACCATCCCATTTCATAATTGATGGTTGTCACCATCCTTTTTCATAAATCGATAGCTGA
1 ACCATCCCTTTTCATAATTGATGGTCGTCACCATCCTTTTTCATAATTCGATAGTTGA
* * * * *
5858219 AGCTATCCCTTTTCATAATTCGATGGTCGTCACCATCCCTTTTCATAGTT-GATGGTCAT-C
1 A-CCATCCCTTTTCATAATT-GATGGTCGTCACCATCCTTTTTCATAATTCGATAGT--TGA
*** * * * * * *
5858279 ACCATCCCTTTTCATAATTTGACAATCG-AAGCTATCCTTTTTCATAATTCAATGGTCGTC
1 ACCATCCCTTTTCATAA-TTGATGGTCGTCA-CCATCCTTTTTCATAATTCGATAGTTG-A
* *
5858339 ACCATCCCTTTTCATAGTTGATGGTCGTCGCCATCCTTTTTCATAATTCGATAGTTGA
1 ACCATCCCTTTTCATAATTGATGGTCGTCACCATCCTTTTTCATAATTCGATAGTTGA
*
5858397 AGCTATCCCTTTTCATAA
1 A-CCATCCCTTTTCATAA
5858415 AATGCTATTT
Statistics
Matches: 153, Mismatches: 32, Indels: 21
0.74 0.16 0.10
Matches are distributed among these distances:
58 3 0.02
59 99 0.65
60 50 0.33
61 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.38
Consensus pattern (58 bp):
ACCATCCCTTTTCATAATTGATGGTCGTCACCATCCTTTTTCATAATTCGATAGTTGA
Found at i:5865143 original size:49 final size:49
Alignment explanation
Indices: 5865083--5865222 Score: 217
Period size: 49 Copynumber: 2.9 Consensus size: 49
5865073 ACTTATTTTC
* * *
5865083 TCGATGCCATAGTCCAACTATGGTCTTACATGTAATCACATAACATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATAACATATA
* *
5865132 TCGATGTCATAGCCCAGCTATGGCCTTACACGTAATCACATAACATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATAACATATA
* *
5865181 CCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATA
5865223 TCACTTATTG
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 82 1.00
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (49 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATAACATATA
Found at i:5866440 original size:23 final size:23
Alignment explanation
Indices: 5866405--5866478 Score: 112
Period size: 23 Copynumber: 3.2 Consensus size: 23
5866395 ATAAGTGCCA
*
5866405 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGTAGCTAC
* * *
5866428 CACTCATACGTAGCCTTAGCTAC
1 CACTGATATGTAGCCGTAGCTAC
5866451 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGTAGCTAC
5866474 CACTG
1 CACTG
5866479 GTCAATAACA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCCGTAGCTAC
Found at i:5868071 original size:121 final size:121
Alignment explanation
Indices: 5867936--5868174 Score: 460
Period size: 121 Copynumber: 2.0 Consensus size: 121
5867926 CAACACCTAG
5867936 AACCCCTCAACAAAATAGAGTTGTTGAGAGGAAAAATAGAACTTTAGAAGAAATTTCTACAACCA
1 AACCCCTCAACAAAATAGAGTTGTTGAGAGGAAAAATAGAACTTTAGAAGAAATTTCTACAACCA
*
5868001 TGCTTTGTTAAAACAATTTGCCAAAATATTTTTGGGTAGAAGCCATAAACACTACA
66 TGCTTTGTTAAAACAATTTGCCAAAATATTTTTGGGTAAAAGCCATAAACACTACA
*
5868057 AACCCCTCAACAAAATGGAGTTGTTGAGAGGAAAAATAGAACTTTAGAAGAAATTTCTACAACCA
1 AACCCCTCAACAAAATAGAGTTGTTGAGAGGAAAAATAGAACTTTAGAAGAAATTTCTACAACCA
5868122 TGCTTTGTTAAAACAATTTGCCAAAATATTTTTGGGTAAAAGCCATAAACACT
66 TGCTTTGTTAAAACAATTTGCCAAAATATTTTTGGGTAAAAGCCATAAACACT
5868175 GCATGCTATA
Statistics
Matches: 116, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
121 116 1.00
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (121 bp):
AACCCCTCAACAAAATAGAGTTGTTGAGAGGAAAAATAGAACTTTAGAAGAAATTTCTACAACCA
TGCTTTGTTAAAACAATTTGCCAAAATATTTTTGGGTAAAAGCCATAAACACTACA
Found at i:5874939 original size:54 final size:54
Alignment explanation
Indices: 5874857--5875013 Score: 244
Period size: 54 Copynumber: 2.9 Consensus size: 54
5874847 TCTGGGTCCG
**
5874857 TAAACTTATAGAGTATTGTTGGGATTACCAGTCCAGGCTAAATCCCCTGTAACA
1 TAAACTTATAGAGTACAGTTGGGATTACCAGTCCAGGCTAAATCCCCTGTAACA
**
5874911 TAAACTTATAGCCTTACAG-TGGGATTACCAGTCCAGGCTAAATCCCCTGTAACA
1 TAAACTTATAG-AGTACAGTTGGGATTACCAGTCCAGGCTAAATCCCCTGTAACA
**
5874965 TAAACTTATAGAGTATTGTTGGGATTACCAGTCCAGGCTAAATCCCCTG
1 TAAACTTATAGAGTACAGTTGGGATTACCAGTCCAGGCTAAATCCCCTG
5875014 CAATGACAAT
Statistics
Matches: 93, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
53 3 0.03
54 87 0.94
55 3 0.03
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (54 bp):
TAAACTTATAGAGTACAGTTGGGATTACCAGTCCAGGCTAAATCCCCTGTAACA
Found at i:5888278 original size:1 final size:1
Alignment explanation
Indices: 5888272--5888296 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
5888262 NNNNNNNNNN
5888272 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
5888297 GGGGGGGGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:5897014 original size:41 final size:41
Alignment explanation
Indices: 5896969--5897386 Score: 527
Period size: 41 Copynumber: 10.2 Consensus size: 41
5896959 GGAAAAGTAT
* * * *
5896969 CGCTAATGCTGGGGGCTTTAGCAGCG-TTTTTGAAAAA-GC
1 CGCTAATGCTCGGGTCTTTAGCGGCGCTTTTTCAAAAACGC
*
5897008 AGCGCTAATGCTCGGGTCTTTAGCGGCACTTTTTCAAAAACGC
1 --CGCTAATGCTCGGGTCTTTAGCGGCGCTTTTTCAAAAACGC
* **
5897051 CGCTAATGCTCGGGTCTTTAGCGGCGCTTTTTTAAAAACAT
1 CGCTAATGCTCGGGTCTTTAGCGGCGCTTTTTCAAAAACGC
* * *
5897092 TGCTAATGCTCGGGTCTTTGGCGGCGCTTTTTCTAAAACGC
1 CGCTAATGCTCGGGTCTTTAGCGGCGCTTTTTCAAAAACGC
* * * *
5897133 CGCTAATGCTCGGGTCTTTAGCGGTGCTTTTTCATAAATGT
1 CGCTAATGCTCGGGTCTTTAGCGGCGCTTTTTCAAAAACGC
5897174 CGCTAATGCTCGGGTCTTTAGCGGCGCTTTTTCAAAAACGC
1 CGCTAATGCTCGGGTCTTTAGCGGCGCTTTTTCAAAAACGC
*
5897215 CGCTAATGCTCGGGTCTTTAGCGGCGCTTTTTTAAAAACGC
1 CGCTAATGCTCGGGTCTTTAGCGGCGCTTTTTCAAAAACGC
* * *
5897256 CACTAATGCTCGAGTCTTTAGCGGCGCTTTTTTAAAAACGC
1 CGCTAATGCTCGGGTCTTTAGCGGCGCTTTTTCAAAAACGC
* * * * * *
5897297 CACTAATGCTTGGGTTTTTAGCGACGCTTTTTTAAAAAAAGC
1 CGCTAATGCTCGGGTCTTTAGCGGCGC-TTTTTCAAAAACGC
* *
5897339 CGCTAATGCTCGGGTCTTTAGCGGC-TTTTTTGAAAAAGCGC
1 CGCTAATGCTCGGGTCTTTAGCGGCGCTTTTTCAAAAA-CGC
*
5897380 TGCTAAT
1 CGCTAAT
5897387 CCCAAATTGA
Statistics
Matches: 330, Mismatches: 43, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
40 10 0.03
41 275 0.83
42 43 0.13
43 2 0.01
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.33
Consensus pattern (41 bp):
CGCTAATGCTCGGGTCTTTAGCGGCGCTTTTTCAAAAACGC
Found at i:5898464 original size:21 final size:23
Alignment explanation
Indices: 5898440--5898484 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
5898430 TTTAATTAAT
5898440 TAACAT-ACTT-TTTTTATTGAC
1 TAACATCACTTGTTTTTATTGAC
*
5898461 TAACATCTCTTGTTTTTATTGAC
1 TAACATCACTTGTTTTTATTGAC
5898484 T
1 T
5898485 CCTTTTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.29
22 3 0.14
23 12 0.57
ACGTcount: A:0.24, C:0.16, G:0.07, T:0.53
Consensus pattern (23 bp):
TAACATCACTTGTTTTTATTGAC
Found at i:5902052 original size:420 final size:420
Alignment explanation
Indices: 5901271--5902112 Score: 1605
Period size: 420 Copynumber: 2.0 Consensus size: 420
5901261 CTCACCTACA
5901271 TATAATTCTTGAGTAAGAAACCTTACATTGTGACTGTAGTGTTCTCTGAGCTGTTTGAAACTTGT
1 TATAATTCTTGAGTAAGAAACCTTACATTGTGACTGTAGTGTTCTCTGAGCTGTTTGAAACTTGT
5901336 ACTTATTTCTTTACATGTTTGAAGGTATGTGGAGAATGGTTCACTTGCAAACATTATCAAGCCAA
66 ACTTATTTCTTTACATGTTTGAAGGTATGTGGAGAATGGTTCACTTGCAAACATTATCAAGCCAA
5901401 ATAAATTTGGGCCTTTTCCTGAATCATTGGTGGTTGTTTATATTGCCCAGGTTTGTTTCTACTGC
131 ATAAATTTGGGCCTTTTCCTGAATCATTGGTGGTTGTTTATATTGCCCAGGTTTGTTTCTACTGC
5901466 AATTTATTGCTTCATTTCCCTATTAAAGTATCATTTCGATATGCTAATTACTTGTTGAACAGGTT
196 AATTTATTGCTTCATTTCCCTATTAAAGTATCATTTCGATATGCTAATTACTTGTTGAACAGGTT
* *
5901531 TGGGAAGGATTGGTTTCTCTACATGAACAGGGTGTTATCCATCGGGATATCAATGGTGCAAATAT
261 TGGGAAGGATTGGTTTATCTACATGAACAGGGTGTTATCCATCGGGATATCAAGGGTGCAAATAT
*
5901596 TTTGACAACTAGAGAGGTAACCTACCAACTAGTTCTCTTTTTTCTTATTTCTTGTCCATCAGGAG
326 TTTGACAACTAAAGAGGTAACCTACCAACTAGTTCTCTTTTTTCTTATTTCTTGTCCATCAGGAG
5901661 TTCTATTACTATTTCTGGATCAGCTTTTTT
391 TTCTATTACTATTTCTGGATCAGCTTTTTT
5901691 TATAATTCTTGAGTAAGAAACCTTACATTGTGACTGTAGTGTTCTCTGAGCTGTTTGAAACTTGT
1 TATAATTCTTGAGTAAGAAACCTTACATTGTGACTGTAGTGTTCTCTGAGCTGTTTGAAACTTGT
5901756 ACTTATTTCTTTACATGTTTGAAGGTATGTGGAGAATGGTTCACTTGCAAACATTATCAAGCCAA
66 ACTTATTTCTTTACATGTTTGAAGGTATGTGGAGAATGGTTCACTTGCAAACATTATCAAGCCAA
5901821 ATAAATTTGGGCCTTTTCCTGAATCATTGGTGGTTGTTTATATTGCCCAGGTTTGTTTCTACTGC
131 ATAAATTTGGGCCTTTTCCTGAATCATTGGTGGTTGTTTATATTGCCCAGGTTTGTTTCTACTGC
5901886 AATTTATTGCTTCATTTCCCTATTAAAGTATCATTTCGATATGCTAATTACTTGTTGAACAGGTT
196 AATTTATTGCTTCATTTCCCTATTAAAGTATCATTTCGATATGCTAATTACTTGTTGAACAGGTT
* * *
5901951 TTGGAAGGTTTGGTTTATCTACATGAATAGGGTGTTATCCATCGGGATATCAAGGGTGCAAATAT
261 TGGGAAGGATTGGTTTATCTACATGAACAGGGTGTTATCCATCGGGATATCAAGGGTGCAAATAT
*
5902016 TTTGACAACTAAAGAGGTAACCTACTAA-TCAGTTCTCTTTTTTCTTATTTCTTGTCCATCAGGA
326 TTTGACAACTAAAGAGGTAACCTACCAACT-AGTTCTCTTTTTTCTTATTTCTTGTCCATCAGGA
5902080 GTTCTATTACTATTTCTGGATCAGCTTTTTT
390 GTTCTATTACTATTTCTGGATCAGCTTTTTT
5902111 TA
1 TA
5902113 GTGATTTTCT
Statistics
Matches: 414, Mismatches: 7, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
419 1 0.00
420 413 1.00
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.41
Consensus pattern (420 bp):
TATAATTCTTGAGTAAGAAACCTTACATTGTGACTGTAGTGTTCTCTGAGCTGTTTGAAACTTGT
ACTTATTTCTTTACATGTTTGAAGGTATGTGGAGAATGGTTCACTTGCAAACATTATCAAGCCAA
ATAAATTTGGGCCTTTTCCTGAATCATTGGTGGTTGTTTATATTGCCCAGGTTTGTTTCTACTGC
AATTTATTGCTTCATTTCCCTATTAAAGTATCATTTCGATATGCTAATTACTTGTTGAACAGGTT
TGGGAAGGATTGGTTTATCTACATGAACAGGGTGTTATCCATCGGGATATCAAGGGTGCAAATAT
TTTGACAACTAAAGAGGTAACCTACCAACTAGTTCTCTTTTTTCTTATTTCTTGTCCATCAGGAG
TTCTATTACTATTTCTGGATCAGCTTTTTT
Found at i:5903348 original size:96 final size:97
Alignment explanation
Indices: 5903184--5903377 Score: 302
Period size: 96 Copynumber: 2.0 Consensus size: 97
5903174 CCTTGTGTAC
* *
5903184 TAGCTTCTTTAATCATGATTGTTAATTATTACATGTTTTGTAGCTTCTTTCATATTTGGCTAGGT
1 TAGCTTCTTTAACCATGATTGTTAATTATTACATGTTTTGTAGCTTCTTTCATATTTGGCGAGGT
5903249 TAATATAGATCAGAGGAGC-TGTGAGGTAGAT
66 TAATATAGATCAGAGGAGCTTGTGAGGTAGAT
* **
5903280 TAGCTTCTTTAACCATGATTGTTAATTATTACGTGTTTTGTAGCTTCTTTTTTATTTGGCCGA-G
1 TAGCTTCTTTAACCATGATTGTTAATTATTACATGTTTTGTAGCTTCTTTCATATTTGG-CGAGG
* *
5903344 TTAATATATATCAGATGAGCTTGTGAGGTAGAT
65 TTAATATAGATCAGAGGAGCTTGTGAGGTAGAT
5903377 T
1 T
5903378 GTTCATTTAT
Statistics
Matches: 89, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
96 74 0.83
97 15 0.17
ACGTcount: A:0.25, C:0.11, G:0.20, T:0.44
Consensus pattern (97 bp):
TAGCTTCTTTAACCATGATTGTTAATTATTACATGTTTTGTAGCTTCTTTCATATTTGGCGAGGT
TAATATAGATCAGAGGAGCTTGTGAGGTAGAT
Found at i:5903700 original size:85 final size:85
Alignment explanation
Indices: 5903594--5903943 Score: 219
Period size: 86 Copynumber: 4.1 Consensus size: 85
5903584 AAGTTATGCT
* ** * * *
5903594 TTTAGTGGCGTTTGT-CAAAAAGCGTCGCTAAAAGTCAATG-TTATAGCGGCATTTTTAATAGAA
1 TTTAGCGGCGTTTGTGGGAAAAGCGTCACTAAAAGTC-ATGTTTATAGCGGCATTTTTAAGAAAA
*
5903657 GCGCCGCTAAAGGTCATGAG-C
65 GCGCCGCCAAAGGTCATG-GTC
* * * * *
5903678 TTTAGCGGCGTTTGTGGGAAAAGCGTCACTAAAGGTCTTGTTTTTAGCGGCGTTTTTGAGAAAAG
1 TTTAGCGGCGTTTGTGGGAAAAGCGTCACTAAAAGTCATGTTTATAGCGGCATTTTTAAGAAAAG
*
5903743 CGCCGCCAAAGGTCTTGGTC
66 CGCCGCCAAAGGTCATGGTC
* ** * * * * ** **
5903763 TTTAGCGGCGTTTCTGGGAAAAATGCCGCTAAAGGTCTTGGTCTT-TAATGGC-TTTTGTGGGAA
1 TTTAGCGGCGTTTGTGGGAAAAGCGTCACTAAAAGTCAT-GT-TTATAGCGGCATTTT-TAAGAA
* * *
5903826 AAGCGTCGCTAAAGGTCCTGGTC
63 AAGCGCCGCCAAAGGTCATGGTC
* * * * * ** * **
5903849 TTTAGCGGTGTTTGT-GGAAAAGGGACCGCTAAAAGTCCTGGTCTT-TAGCGGTGTTTGTGGGAA
1 TTTAGCGGCGTTTGTGGGAAAAGCG-TCACTAAAAGTCAT-GT-TTATAGCGGCATTTTTAAGAA
* * *
5903912 AAGTGCCGCTAAAGGTCTTGGTC
63 AAGCGCCGCCAAAGGTCATGGTC
5903935 TTTAGCGGC
1 TTTAGCGGC
5903944 TTTTTTTCTA
Statistics
Matches: 220, Mismatches: 38, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
84 17 0.08
85 97 0.44
86 101 0.46
87 5 0.02
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (85 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGTCACTAAAAGTCATGTTTATAGCGGCATTTTTAAGAAAAG
CGCCGCCAAAGGTCATGGTC
Found at i:5903702 original size:43 final size:43
Alignment explanation
Indices: 5903655--5903943 Score: 350
Period size: 43 Copynumber: 6.7 Consensus size: 43
5903645 TTTTTAATAG
*
5903655 AAGCGCCGCTAAAGGTCATGAG-CTTTAGCGGCGTTTGTGGGAA
1 AAGCGCCGCTAAAGGTCTTG-GTCTTTAGCGGCGTTTGTGGGAA
* * * * *
5903698 AAGCGTCACTAAAGGTCTT-GTTTTTAGCGGCGTTTTTGAGAA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAA
* *
5903740 AAGCGCCGCCAAAGGTCTTGGTCTTTAGCGGCGTTTCTGGGAA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAA
** ** *
5903783 AAATGCCGCTAAAGGTCTTGGTCTTTAATGGCTTTTGTGGGAA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAA
* * *
5903826 AAGCGTCGCTAAAGGTCCTGGTCTTTAGCGGTGTTTGT-GGAA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAA
* * * *
5903868 AAGGGACCGCTAAAAGTCCTGGTCTTTAGCGGTGTTTGTGGGAA
1 AAGCG-CCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAA
*
5903912 AAGTGCCGCTAAAGGTCTTGGTCTTTAGCGGC
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGC
5903944 TTTTTTTCTA
Statistics
Matches: 208, Mismatches: 34, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
41 1 0.00
42 42 0.20
43 157 0.75
44 8 0.04
ACGTcount: A:0.21, C:0.18, G:0.31, T:0.29
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAA
Found at i:5903927 original size:129 final size:128
Alignment explanation
Indices: 5903659--5903947 Score: 393
Period size: 129 Copynumber: 2.2 Consensus size: 128
5903649 TAATAGAAGC
* * * *
5903659 GCCGCTAAAGGTCATGAG-CTTTAGCGGCGTTTGTGGGAAAAGCGTCACTAAAGGTCTTGTTTTT
1 GCCGCTAAAGGTCTTG-GTCTTTAGCGGCTTTTGTGGGAAAAGCGTCACTAAAGGTCTGGTCTTT
* * *
5903723 AGCGGCGTTTTTGAGAAAAGCGCCGCCAAAGGTCTTGGTCTTTAGCGGCGTTTCTGGGAAAAAT
65 AGCGGCGTTTGTGAGAAAAGCGCCGCCAAAAGTCCTGGTCTTTAGCGGCGTTTCTGGGAAAAAT
** *
5903787 GCCGCTAAAGGTCTTGGTCTTTAATGGCTTTTGTGGGAAAAGCGTCGCTAAAGGTCCTGGTCTTT
1 GCCGCTAAAGGTCTTGGTCTTTAGCGGCTTTTGTGGGAAAAGCGTCACTAAAGGT-CTGGTCTTT
* * * * * *
5903852 AGCGGTGTTTGTG-GAAAAGGGACCGCTAAAAGTCCTGGTCTTTAGCGGTGTTTGTGGGAAAAGT
65 AGCGGCGTTTGTGAGAAAAGCG-CCGCCAAAAGTCCTGGTCTTTAGCGGCGTTTCTGGGAAAAAT
5903916 GCCGCTAAAGGTCTTGGTCTTTAGCGGCTTTT
1 GCCGCTAAAGGTCTTGGTCTTTAGCGGCTTTT
5903948 TTTCTAAAAA
Statistics
Matches: 140, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
127 1 0.01
128 55 0.39
129 84 0.60
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (128 bp):
GCCGCTAAAGGTCTTGGTCTTTAGCGGCTTTTGTGGGAAAAGCGTCACTAAAGGTCTGGTCTTTA
GCGGCGTTTGTGAGAAAAGCGCCGCCAAAAGTCCTGGTCTTTAGCGGCGTTTCTGGGAAAAAT
Found at i:5909609 original size:24 final size:25
Alignment explanation
Indices: 5909582--5909636 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
5909572 ATCATTAAGG
* * *
5909582 TTACCGATTCT-AGCTCTTATGAGC
1 TTACCGATACTCAACTCGTATGAGC
5909606 TTACCGATACTCAACTCGTATGAGC
1 TTACCGATACTCAACTCGTATGAGC
5909631 TTACCG
1 TTACCG
5909637 TTATTTCAGC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 10 0.37
25 17 0.63
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.33
Consensus pattern (25 bp):
TTACCGATACTCAACTCGTATGAGC
Found at i:5926377 original size:68 final size:68
Alignment explanation
Indices: 5926254--5926530 Score: 317
Period size: 68 Copynumber: 4.1 Consensus size: 68
5926244 TCAAAATTGA
* * * * * * * *
5926254 AAGTCTGTCTAGAAAATAAACATGGGATCATATTGTGTAAGACCACAGTTTGGCTATGGCAACAT
1 AAGTCTGCCAAGACAATAAACATGGGATCATATTGTGTAAAACAATAGCTCGGCTATGGCAACAT
5926319 ATG
66 ATG
* * * *
5926322 AAGTCTGCCAAGACAATAAACATGAGATCATATTGTATAAAATC-ATTGCTCGGCTATAGCAACA
1 AAGTCTGCCAAGACAATAAACATGGGATCATATTGTGTAAAA-CAATAGCTCGGCTATGGCAACA
5926386 TATG
65 TATG
* * * *
5926390 AAGTCTGCCAAGACAATAAACAAGGGAACATATTGTGTAAAACTATAGCTCGACTATGGCAACAT
1 AAGTCTGCCAAGACAATAAACATGGGATCATATTGTGTAAAACAATAGCTCGGCTATGGCAACAT
5926455 ATGG
66 AT-G
* * * * *
5926459 AA-TCCT-CCAGGACAATAAACATGGAATCATATTGTGTAAGACAATAGGTAGGCTATGGCAACA
1 AAGT-CTGCCAAGACAATAAACATGGGATCATATTGTGTAAAACAATAGCTCGGCTATGGCAACA
5926522 TATG
65 TATG
5926526 AAGTC
1 AAGTC
5926531 CACCAAGATG
Statistics
Matches: 177, Mismatches: 27, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
67 5 0.03
68 166 0.94
69 6 0.03
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.25
Consensus pattern (68 bp):
AAGTCTGCCAAGACAATAAACATGGGATCATATTGTGTAAAACAATAGCTCGGCTATGGCAACAT
ATG
Found at i:5931026 original size:12 final size:12
Alignment explanation
Indices: 5931009--5931033 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5930999 GGTGTTCATT
5931009 CGGTTAACCGAC
1 CGGTTAACCGAC
5931021 CGGTTAACCGAC
1 CGGTTAACCGAC
5931033 C
1 C
5931034 CGAAATAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:5931206 original size:9 final size:9
Alignment explanation
Indices: 5931192--5931261 Score: 88
Period size: 9 Copynumber: 7.8 Consensus size: 9
5931182 TTTGGTTAAA
5931192 AATTAACCG
1 AATTAACCG
*
5931201 AATTAATCG
1 AATTAACCG
5931210 AATTAACCG
1 AATTAACCG
5931219 AATTAACCG
1 AATTAACCG
5931228 AATT-ACTCG
1 AATTAAC-CG
* *
5931237 AATTACCCA
1 AATTAACCG
*
5931246 AATTAACTG
1 AATTAACCG
5931255 AATTAAC
1 AATTAAC
5931262 AAATTGAATT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
8 2 0.04
9 49 0.94
10 1 0.02
ACGTcount: A:0.44, C:0.20, G:0.09, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:5931222 original size:27 final size:27
Alignment explanation
Indices: 5931191--5931260 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
5931181 TTTTGGTTAA
5931191 AAATTAACCGAATTAATCGAATTAACC
1 AAATTAACCGAATTAATCGAATTAACC
* * *
5931218 GAATTAACCGAATTACTCGAATTACCC
1 AAATTAACCGAATTAATCGAATTAACC
*
5931245 AAATTAACTGAATTAA
1 AAATTAACCGAATTAA
5931261 CAAATTGAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.46, C:0.19, G:0.09, T:0.27
Consensus pattern (27 bp):
AAATTAACCGAATTAATCGAATTAACC
Found at i:5935059 original size:22 final size:23
Alignment explanation
Indices: 5935015--5935067 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
5935005 AGAATCCCAA
5935015 AAAATTTTCAAATAAAATATCAT
1 AAAATTTTCAAATAAAATATCAT
*
5935038 AAAATTATTTAAA-AAAAT-TCAT
1 AAAATT-TTCAAATAAAATATCAT
5935060 AAAATTTT
1 AAAATTTT
5935068 AATATTTTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 2 0.07
22 10 0.36
23 11 0.39
24 5 0.18
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.38
Consensus pattern (23 bp):
AAAATTTTCAAATAAAATATCAT
Found at i:5938771 original size:40 final size:39
Alignment explanation
Indices: 5938716--5938850 Score: 130
Period size: 40 Copynumber: 3.4 Consensus size: 39
5938706 ACCAGTTTGG
* *
5938716 CACCCAATGCCTCATCGGATAATTCGAAGTAAAAATTTGA
1 CACCCAGTGCCTCATCGGATAATCCGAAGTAAAAA-TTGA
* * * * * *
5938756 CACCCAGTGTCTCATCGGCTAAACCAAAG--CAAATTGG
1 CACCCAGTGCCTCATCGGATAATCCGAAGTAAAAATTGA
* *
5938793 TACCCAGTGCCTCATCGAATATATCCGAAGTAATAAATTGA
1 CACCCAGTGCCTCATCGGATA-ATCCGAAGTAA-AAATTGA
*
5938834 CACACAGTGCCTCATCG
1 CACCCAGTGCCTCATCG
5938851 ACTCGAAGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 7
0.74 0.18 0.07
Matches are distributed among these distances:
37 20 0.27
38 9 0.12
40 23 0.32
41 21 0.29
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAATCCGAAGTAAAAATTGA
Found at i:5939782 original size:4 final size:4
Alignment explanation
Indices: 5939773--5939837 Score: 51
Period size: 4 Copynumber: 15.0 Consensus size: 4
5939763 TTTTCTTTTC
*
5939773 TTTA TTTA TTTCA TTTA CTTA TTTA TTTTA TTATA TTTA CTTT- TTTA
1 TTTA TTTA TTT-A TTTA TTTA TTTA -TTTA TT-TA TTTA -TTTA TTTA
*
5939820 TTTTA TTATA TATA TTTA
1 -TTTA TT-TA TTTA TTTA
5939838 CTTAAATGTT
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
3 3 0.06
4 25 0.50
5 22 0.44
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (4 bp):
TTTA
Found at i:5939802 original size:22 final size:22
Alignment explanation
Indices: 5939773--5939830 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
5939763 TTTTCTTTTC
5939773 TTTA-TTTATT-TCATTTACTTA
1 TTTATTTTATTAT-ATTTACTTA
*
5939794 TTTATTTTATTATATTTACTTT
1 TTTATTTTATTATATTTACTTA
5939816 TTTATTTTATTATAT
1 TTTATTTTATTATAT
5939831 ATATTTACTT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 4 0.12
22 29 0.85
23 1 0.03
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTATTTTATTATATTTACTTA
Found at i:5939802 original size:26 final size:24
Alignment explanation
Indices: 5939773--5939841 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 24
5939763 TTTTCTTTTC
5939773 TTTATTTATTTCATTTACTTATTTAT
1 TTTATTTA-TT-ATTTACTTATTTAT
*
5939799 TTTA-TTA-TATTTACTTTTTTAT
1 TTTATTTATTATTTACTTATTTAT
5939821 TTTATTATATATATTTACTTA
1 TTTATT-TAT-TATTTACTTA
5939842 AATGTTAAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
22 17 0.46
23 2 0.05
24 2 0.05
25 3 0.08
26 13 0.35
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (24 bp):
TTTATTTATTATTTACTTATTTAT
Found at i:5944007 original size:202 final size:202
Alignment explanation
Indices: 5943655--5944059 Score: 704
Period size: 202 Copynumber: 2.0 Consensus size: 202
5943645 GTTCCATTTG
*
5943655 AACTTACTTCCTTTTGAATGCTTACTCTTATTGTTTTCCCTATATGTAGATTTTAACCTTATGAA
1 AACTTACTTCCTTTTGAATGCTTACTCTGATTGTTTTCCCTATATGTAGATTTTAACCTTATGAA
5943720 ACTATCGAGCTGGATCAACGGAAGAGCACACACTATCACAAGATGGTAGTTATAAGTTCATTTTG
66 ACTATCGAGCTGGATCAACGGAAGAGCACACACTATCACAAGATGGTAGTTATAAGTTCATTTTG
*
5943785 AGTTTAGACTATGTGGCATGTACTTAGGTGTTTTGGGATTTGGTAGTCTCATGTTAATAATGATA
131 AGTTTAGACTATGTGGCATGTACTTAGGTGTTTTGCGATTTGGTAGTCTCATGTTAATAATGATA
5943850 ATGGTTT
196 ATGGTTT
* * * * *
5943857 AACTTGCTTCCTTTTGAATGCTTACTCTGGTTGTTTTCCTTATATGTAGATTTTAACCTTGTGGA
1 AACTTACTTCCTTTTGAATGCTTACTCTGATTGTTTTCCCTATATGTAGATTTTAACCTTATGAA
* * *
5943922 ACT-GCTGAGCTGGATCAGCGGAGGAGCACACACTATCACAAGATGGTAGTTATAAGTTCATTTT
66 ACTATC-GAGCTGGATCAACGGAAGAGCACACACTATCACAAGATGGTAGTTATAAGTTCATTTT
5943986 GAGTTTAGACTATGTGGCATGTACTTAGGTGTTTTGCGATTTGGTAGTCTCATGTTAATAATGAT
130 GAGTTTAGACTATGTGGCATGTACTTAGGTGTTTTGCGATTTGGTAGTCTCATGTTAATAATGAT
5944051 AATGGTTT
195 AATGGTTT
5944059 A
1 A
5944060 TTTGATTATA
Statistics
Matches: 192, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
201 1 0.01
202 191 0.99
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.39
Consensus pattern (202 bp):
AACTTACTTCCTTTTGAATGCTTACTCTGATTGTTTTCCCTATATGTAGATTTTAACCTTATGAA
ACTATCGAGCTGGATCAACGGAAGAGCACACACTATCACAAGATGGTAGTTATAAGTTCATTTTG
AGTTTAGACTATGTGGCATGTACTTAGGTGTTTTGCGATTTGGTAGTCTCATGTTAATAATGATA
ATGGTTT
Found at i:5945529 original size:22 final size:23
Alignment explanation
Indices: 5945485--5945537 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
5945475 AGAATCCCAA
5945485 AAAATTTTCAAATAAAATATCAT
1 AAAATTTTCAAATAAAATATCAT
*
5945508 AAAATTATTTAAA-AAAAT-TCAT
1 AAAATT-TTCAAATAAAATATCAT
5945530 AAAATTTT
1 AAAATTTT
5945538 AATATTTTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 2 0.07
22 10 0.36
23 11 0.39
24 5 0.18
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.38
Consensus pattern (23 bp):
AAAATTTTCAAATAAAATATCAT
Found at i:5949240 original size:40 final size:40
Alignment explanation
Indices: 5949180--5949317 Score: 135
Period size: 40 Copynumber: 3.5 Consensus size: 40
5949170 AACGCACTAG
*
5949180 TTTGGCACCCAGTGCCTCATCGGATAATTCGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATAATTCGAAGTAATAA
* * *
5949220 TTTGACACCCAGTGTCTCATCGGCTAAAT-GAAGT-A-AA
1 TTTGACACCCAGTGCCTCATCGGATAATTCGAAGTAATAA
* * * *
5949257 -TTGGCACTCAATGCCTCATCGAAT-ATATCTGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATAAT-TC-GAAGTAATAA
*
5949297 TTTGACA-CCAGTGTCTCATCG
1 TTTGACACCCAGTGCCTCATCG
5949318 ACTCAAAGTC
Statistics
Matches: 77, Mismatches: 15, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
35 1 0.01
36 19 0.25
37 2 0.03
38 6 0.08
39 6 0.08
40 38 0.49
41 5 0.06
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.29
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATCGGATAATTCGAAGTAATAA
Found at i:5950218 original size:11 final size:11
Alignment explanation
Indices: 5950202--5950234 Score: 52
Period size: 10 Copynumber: 3.2 Consensus size: 11
5950192 CCCTTTCTCC
5950202 TTTTCTTTCCT
1 TTTTCTTTCCT
5950213 TTTTCTTT-CT
1 TTTTCTTTCCT
5950223 TTTT-TTTCCT
1 TTTTCTTTCCT
5950233 TT
1 TT
5950235 CTGTTTCGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 3 0.14
10 10 0.48
11 8 0.38
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTCTTTCCT
Found at i:5950241 original size:20 final size:20
Alignment explanation
Indices: 5950201--5950247 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
5950191 GCCCTTTCTC
*
5950201 CTTTTCTTTCCTTTTTCTTT
1 CTTTTCTTTCCTTTCTCTTT
* *
5950221 CTTTTTTTTCCTTTCTGTTT
1 CTTTTCTTTCCTTTCTCTTT
*
5950241 CGTTTCT
1 CTTTTCT
5950248 ATCTTGTTTC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.00, C:0.23, G:0.04, T:0.72
Consensus pattern (20 bp):
CTTTTCTTTCCTTTCTCTTT
Found at i:5964595 original size:18 final size:18
Alignment explanation
Indices: 5964569--5964611 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
5964559 GACTAGAAAA
* * *
5964569 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
5964587 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
5964605 AGGATAC
1 AGGATAC
5964612 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:5966484 original size:22 final size:22
Alignment explanation
Indices: 5966442--5966484 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
5966432 TCTTTTAAAT
* *
5966442 AGAAATTTGAGAGGAATTTGAA
1 AGAAATTAGAGAGGAAATTGAA
5966464 AGAATATTAGAGA-GAAATTGA
1 AGAA-ATTAGAGAGGAAATTGA
5966485 GATAAAGGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.49, C:0.00, G:0.26, T:0.26
Consensus pattern (22 bp):
AGAAATTAGAGAGGAAATTGAA
Done.