Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 23 of 206
Found at i:6817528 original size:25 final size:24
Alignment explanation
Indices: 6817499--6817561 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 24
6817489 ATTTAACTGT
*
6817499 ATAAAGATTAATTTTTAATGATAAA
1 ATAAA-ATTAATTTTTAATGAAAAA
* *
6817524 AT-AAATAAAATTTTTAATTAAAAA
1 ATAAAAT-TAATTTTTAATGAAAAA
6817548 ATAAAATATAATTT
1 ATAAAAT-TAATTT
6817562 AACTTTTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 2 0.06
24 18 0.56
25 12 0.38
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (24 bp):
ATAAAATTAATTTTTAATGAAAAA
Found at i:6817536 original size:24 final size:25
Alignment explanation
Indices: 6817508--6817561 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
6817498 TATAAAGATT
*
6817508 AATTTTTAATGATAAAAT-AAATAA
1 AATTTTTAATGAAAAAATAAAATAA
* *
6817532 AATTTTTAATTAAAAAATAAAATAT
1 AATTTTTAATGAAAAAATAAAATAA
6817557 AATTT
1 AATTT
6817562 AACTTTTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 16 0.62
25 10 0.38
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (25 bp):
AATTTTTAATGAAAAAATAAAATAA
Found at i:6821449 original size:19 final size:21
Alignment explanation
Indices: 6821411--6821450 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
6821401 ACACTTAACC
*
6821411 ACATTTACAAGCCAATCCAAA
1 ACATTTACAAGCCAAGCCAAA
6821432 ACATTTA-AA-CCAAGCCAAA
1 ACATTTACAAGCCAAGCCAAA
6821451 TCCAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 2 0.11
21 7 0.39
ACGTcount: A:0.50, C:0.28, G:0.05, T:0.17
Consensus pattern (21 bp):
ACATTTACAAGCCAAGCCAAA
Found at i:6822273 original size:25 final size:24
Alignment explanation
Indices: 6822245--6822375 Score: 77
Period size: 25 Copynumber: 5.3 Consensus size: 24
6822235 TCATATAACA
6822245 GGAAGCTCATGTGAGCCATGTAATG
1 GGAAGCTCATGTGAGCCAT-TAATG
* * * * *
6822270 GGAAGCTTATCTGGGCTATATAACG
1 GGAAGCTCATGTGAGCCAT-TAATG
**
6822295 GGAAGCTCATAAGAGCCA-TAATCG
1 GGAAGCTCATGTGAGCCATTAAT-G
** * *
6822319 GGAAGCTCATGCAAGCCAATAACG
1 GGAAGCTCATGTGAGCCATTAATG
* * *
6822343 AGTAGCTC-TGAAGAGCCATTAATCG
1 GGAAGCTCATG-TGAGCCATTAAT-G
6822368 GGAAGCTC
1 GGAAGCTC
6822376 CGGATAGCCA
Statistics
Matches: 78, Mismatches: 24, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
23 5 0.06
24 31 0.40
25 42 0.54
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.21
Consensus pattern (24 bp):
GGAAGCTCATGTGAGCCATTAATG
Found at i:6822324 original size:24 final size:24
Alignment explanation
Indices: 6822289--6822375 Score: 90
Period size: 24 Copynumber: 3.6 Consensus size: 24
6822279 TCTGGGCTAT
6822289 ATAACGGGAAGCTCAT-AAGAGCC
1 ATAACGGGAAGCTCATGAAGAGCC
*
6822312 ATAATCGGGAAGCTCATGCA-AGCC
1 ATAA-CGGGAAGCTCATGAAGAGCC
* *
6822336 AATAACGAGTAGCTC-TGAAGAGCC
1 -ATAACGGGAAGCTCATGAAGAGCC
6822360 ATTAATCGGGAAGCTC
1 A-TAA-CGGGAAGCTC
6822376 CGGATAGCCA
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
23 8 0.15
24 31 0.60
25 13 0.25
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (24 bp):
ATAACGGGAAGCTCATGAAGAGCC
Found at i:6822586 original size:24 final size:25
Alignment explanation
Indices: 6822559--6822605 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
6822549 AGATGTTCCG
*
6822559 AAGAGCTAT-TAACGGGAAGCTCGC
1 AAGAACTATATAACGGGAAGCTCGC
*
6822583 AAGAACTATATAATGGGAAGCTC
1 AAGAACTATATAACGGGAAGCTC
6822606 AAAAGGGCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.38, C:0.17, G:0.26, T:0.19
Consensus pattern (25 bp):
AAGAACTATATAACGGGAAGCTCGC
Found at i:6823785 original size:12 final size:12
Alignment explanation
Indices: 6823770--6823794 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6823760 CGGTAGACCA
6823770 TAAAATAAATTT
1 TAAAATAAATTT
6823782 TAAAATAAATTT
1 TAAAATAAATTT
6823794 T
1 T
6823795 CTTACAGACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TAAAATAAATTT
Found at i:6825995 original size:18 final size:17
Alignment explanation
Indices: 6825958--6826001 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
6825948 TAAAAATTAT
**
6825958 TAAAAACATTAAAATTTG
1 TAAAAA-ATTAAAAAATG
6825976 TACAAAAATTAAAAAATG
1 TA-AAAAATTAAAAAATG
6825994 TAAAAAAT
1 TAAAAAAT
6826002 GATTAACAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 6 0.26
18 13 0.57
19 4 0.17
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.27
Consensus pattern (17 bp):
TAAAAAATTAAAAAATG
Found at i:6829538 original size:17 final size:18
Alignment explanation
Indices: 6829505--6829539 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6829495 TTGAATAATA
6829505 ATATGTAGCTGTGCTGAC
1 ATATGTAGCTGTGCTGAC
*
6829523 ATATGTATCT-TGCTGAC
1 ATATGTAGCTGTGCTGAC
6829540 GTACCGTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (18 bp):
ATATGTAGCTGTGCTGAC
Found at i:6831413 original size:42 final size:42
Alignment explanation
Indices: 6831322--6831422 Score: 150
Period size: 42 Copynumber: 2.4 Consensus size: 42
6831312 TTATATGAAC
6831322 GGCACTAAGTGTGCGAAACTAAAATGATGGAGGTTGAATAAAG
1 GGCACTAAGTGTGCGAAACTAAAATGA-GGAGGTTGAATAAAG
* * *
6831365 GGCACTAAGTGTGCGAAATTAAAATG-GAGATGTTGAATAACG
1 GGCACTAAGTGTGCGAAACTAAAATGAG-GAGGTTGAATAAAG
6831407 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
6831423 TACCGAAAGC
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
41 1 0.02
42 28 0.52
43 25 0.46
ACGTcount: A:0.37, C:0.11, G:0.31, T:0.22
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAAACTAAAATGAGGAGGTTGAATAAAG
Found at i:6835424 original size:29 final size:28
Alignment explanation
Indices: 6835390--6835451 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 28
6835380 TATTTAAAAT
* *
6835390 AAATATAAAAATTATAATTTTAA-ATATAA
1 AAATATAAAAATCAT-A-TATAATATATAA
6835419 AAATATAAAAATCATATATAATATATAA
1 AAATATAAAAATCATATATAATATATAA
6835447 AAATA
1 AAATA
6835452 ATTAAAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
27 4 0.13
28 12 0.40
29 14 0.47
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.34
Consensus pattern (28 bp):
AAATATAAAAATCATATATAATATATAA
Found at i:6835778 original size:31 final size:32
Alignment explanation
Indices: 6835703--6835783 Score: 110
Period size: 31 Copynumber: 2.6 Consensus size: 32
6835693 AGCCTAAAAA
*
6835703 AAGTTTAGGTACCAAATTAGGGAAAAAATGCC
1 AAGTTCAGGTACCAAATTAGGGAAAAAATGCC
* * * *
6835735 AAGCTCAAGTACCAAATTA-GGAGAAAGTGCC
1 AAGTTCAGGTACCAAATTAGGGAAAAAATGCC
6835766 AAGTTCAGGTACCAAATT
1 AAGTTCAGGTACCAAATT
6835784 GAGCCAAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 26 0.62
32 16 0.38
ACGTcount: A:0.42, C:0.16, G:0.21, T:0.21
Consensus pattern (32 bp):
AAGTTCAGGTACCAAATTAGGGAAAAAATGCC
Found at i:6835820 original size:28 final size:28
Alignment explanation
Indices: 6835766--6835837 Score: 85
Period size: 27 Copynumber: 2.6 Consensus size: 28
6835756 AGAAAGTGCC
**
6835766 AAGTTCAGGTACCAAATTGAGCCAAAAA
1 AAGTTCAGGTACCAAATTGAGAAAAAAA
*
6835794 AAGTTTAGGTACCAAATT-AGAAAAAAA
1 AAGTTCAGGTACCAAATTGAGAAAAAAA
*
6835821 TAA-TTCAGGTACTAAAT
1 -AAGTTCAGGTACCAAAT
6835838 GATATATTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
27 19 0.50
28 19 0.50
ACGTcount: A:0.49, C:0.12, G:0.15, T:0.24
Consensus pattern (28 bp):
AAGTTCAGGTACCAAATTGAGAAAAAAA
Found at i:6835889 original size:19 final size:19
Alignment explanation
Indices: 6835867--6835919 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 19
6835857 TTTTTAAAAA
*
6835867 AATTTCTTAATTTTT-TTAT
1 AATTT-TTAATTTTTGTAAT
6835886 AATTTTTACATTTTTGTAAT
1 AATTTTTA-ATTTTTGTAAT
6835906 AATATTATTAATTT
1 AAT-TT-TTAATTT
6835920 CACCTAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 3 0.10
19 11 0.38
20 6 0.21
21 6 0.21
22 3 0.10
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (19 bp):
AATTTTTAATTTTTGTAAT
Found at i:6836884 original size:83 final size:85
Alignment explanation
Indices: 6836726--6836915 Score: 253
Period size: 83 Copynumber: 2.2 Consensus size: 85
6836716 AACTCTTTTT
* * *
6836726 AAAAAAGCAATTGAGCCCCCT-TTTTTTTGCACTCAATTGAGCACTTGAGCTTTCAAAATGTATC
1 AAAAAAGCAATTAAG-CCCCTATTTTTTTGCACTCAA-TGAGCACTTGAACTTTCAAAATGCATC
* *
6836790 AAAAATACCCTCAAACTTATTC
64 AAAAAGACCCTCAAAATTATTC
* *
6836812 AAAAAAAGCAATTAAGCCCCTATTTTTTT-CATTCAA-G-GTACTTGAACTTTCAAAATGCATCA
1 -AAAAAAGCAATTAAGCCCCTATTTTTTTGCACTCAATGAGCACTTGAACTTTCAAAATGCATCA
*
6836874 AAAAGACCCTCAAAATTTTTC
65 AAAAGACCCTCAAAATTATTC
6836895 AAAAAAGCAATTAAGCCCCTA
1 AAAAAAGCAATTAAGCCCCTA
6836916 CTCTTATTAA
Statistics
Matches: 94, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
82 21 0.22
83 40 0.43
84 1 0.01
86 11 0.12
87 21 0.22
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.29
Consensus pattern (85 bp):
AAAAAAGCAATTAAGCCCCTATTTTTTTGCACTCAATGAGCACTTGAACTTTCAAAATGCATCAA
AAAGACCCTCAAAATTATTC
Found at i:6836956 original size:18 final size:18
Alignment explanation
Indices: 6836934--6836976 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
6836924 AAAAATTAGA
6836934 AAAAATAAAAAAATTTATT
1 AAAAAT-AAAAAATTTATT
**
6836953 AAAAATTTAAAATTTATT
1 AAAAATAAAAAATTTATT
6836971 AAAAAT
1 AAAAAT
6836977 TATAATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAAATAAAAAATTTATT
Found at i:6836984 original size:17 final size:18
Alignment explanation
Indices: 6836943--6836977 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
6836933 AAAAAATAAA
6836943 AAAATTTATTAAAAATTT
1 AAAATTTATTAAAAATTT
6836961 AAAATTTATTAAAAATT
1 AAAATTTATTAAAAATT
6836978 ATAATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAATTTATTAAAAATTT
Found at i:6837250 original size:18 final size:19
Alignment explanation
Indices: 6837213--6837250 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
6837203 TTAAATTTTG
*
6837213 TATAAATTTCTTACAACTT
1 TATAAAATTCTTACAACTT
*
6837232 TATAAAATT-TTAGAACTT
1 TATAAAATTCTTACAACTT
6837250 T
1 T
6837251 TTTATATTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.39, C:0.11, G:0.03, T:0.47
Consensus pattern (19 bp):
TATAAAATTCTTACAACTT
Found at i:6837357 original size:58 final size:58
Alignment explanation
Indices: 6837230--6837354 Score: 146
Period size: 58 Copynumber: 2.1 Consensus size: 58
6837220 TTCTTACAAC
* * * * * *
6837230 TTTATAAAATTTTAGAACTTTTTTATATTTCTATATATTTTATAATTTTTTTACAATT
1 TTTATAAAATTTGAGAAATTTTTTATATATCTATATATTTTATAATATATTTAAAATT
*
6837288 TTTATAAAATTTGAGAAATTTTTTATATATCT-TTTACTATTTAT-ATATATTTAAAATT
1 TTTATAAAATTTGAGAAATTTTTTATATATCTATATA-T-TTTATAATATATTTAAAATT
6837346 TTTAATAAA
1 TTT-ATAAA
6837355 TTTTAATATT
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
57 3 0.05
58 44 0.77
59 10 0.18
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (58 bp):
TTTATAAAATTTGAGAAATTTTTTATATATCTATATATTTTATAATATATTTAAAATT
Found at i:6837363 original size:26 final size:26
Alignment explanation
Indices: 6837334--6837388 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
6837324 CTATTTATAT
*
6837334 ATATTTAAAATTT-TTAATAAATTTTA
1 ATATTT-AAATTTCTTAATAAAATTTA
* *
6837360 ATATTTGAATTTCTTATTAAAATTTA
1 ATATTTAAATTTCTTAATAAAATTTA
6837386 ATA
1 ATA
6837389 ATATTTATAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 5 0.20
26 20 0.80
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATTTAAATTTCTTAATAAAATTTA
Found at i:6837566 original size:85 final size:87
Alignment explanation
Indices: 6837433--6837655 Score: 299
Period size: 85 Copynumber: 2.5 Consensus size: 87
6837423 AATTTTTAGT
* * *
6837433 AAAAGCAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGTCTTTTTGATGCATTTTGAAAGT
1 AAAAGTAGGGGCTTAATTACTTTTTTTGAAAAAGTTTGAGGCT-TTTTTGATGCATTTTGAAAGT
* *
6837498 CCAAGT-ACCTAAT-TGAGTAAA
65 CCAAGTGACCAAATGTGAATAAA
* *
6837519 AAAAGTAGGGGCTTAATT-TTTTTTTTGAAAAGGTTTGAGAGCTTTTTTGATGCATTTTGAAAGT
1 AAAAGTAGGGGCTTAATTACTTTTTTTGAAAAAGTTTGAG-GCTTTTTTGATGCATTTTGAAAGT
* *
6837583 TCAAGTGCCCAAATGAGTGAATAAA
65 CCAAGTGACCAAAT--GTGAATAAA
6837608 AAAAGTAGGGGCTTAATTACTTTTTTTGAAAAAGTTTGAGGGCTTTTT
1 AAAAGTAGGGGCTTAATTACTTTTTTTGAAAAAGTTTGA-GGCTTTTT
6837656 GCACCCTTAA
Statistics
Matches: 120, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
85 45 0.38
86 24 0.20
89 25 0.21
90 25 0.21
91 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (87 bp):
AAAAGTAGGGGCTTAATTACTTTTTTTGAAAAAGTTTGAGGCTTTTTTGATGCATTTTGAAAGTC
CAAGTGACCAAATGTGAATAAA
Found at i:6842866 original size:6 final size:6
Alignment explanation
Indices: 6842855--6842889 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
6842845 AGTTTTCTCT
6842855 AAAATG AAAATG AAAATG AAAATGG ATAAATG AAA
1 AAAATG AAAATG AAAATG AAAAT-G A-AAATG AAA
6842890 TCATAAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 19 0.70
7 4 0.15
8 4 0.15
ACGTcount: A:0.66, C:0.00, G:0.17, T:0.17
Consensus pattern (6 bp):
AAAATG
Found at i:6847423 original size:44 final size:42
Alignment explanation
Indices: 6847277--6847440 Score: 136
Period size: 43 Copynumber: 3.8 Consensus size: 42
6847267 CGAAAAGCTT
* * * *
6847277 ATACAATGCCAACATCCCAGACGTGGTCTTACATGTAA-CTAA
1 ATACGATGCCAACGTCCCAGACATGGTCTTACACGTAATC-AA
* *** * * *
6847319 ATAACAATGCC-ACTGTCTTGGATAAGGTCTTACACGTAATCAT
1 AT-ACGATGCCAAC-GTCCCAGACATGGTCTTACACGTAATCAA
*
6847362 ATACGATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTCAA
1 ATACGATGCCAACGTCCCAGACATGGTCTTACACGT-AA--TCAA
*
6847407 AT-CGATGCCAACGTCCCAGACGTGGTCTTACACG
1 ATACGATGCCAACGTCCCAGACATGGTCTTACACG
6847441 ATATCATATA
Statistics
Matches: 96, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
42 29 0.30
43 31 0.32
44 31 0.32
45 5 0.05
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (42 bp):
ATACGATGCCAACGTCCCAGACATGGTCTTACACGTAATCAA
Found at i:6851448 original size:23 final size:22
Alignment explanation
Indices: 6851422--6851479 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
6851412 ACCATTTTGT
*
6851422 TTTTTATTTTTAAATATATATTA
1 TTTTTATTTTTAAATATA-ATGA
* * *
6851445 TTTTTAATTTTATATTTAATGA
1 TTTTTATTTTTAAATATAATGA
6851467 TTTTATATTTTTA
1 TTTT-TATTTTTA
6851480 TTATTTATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
22 7 0.24
23 22 0.76
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTTTATTTTTAAATATAATGA
Found at i:6851458 original size:17 final size:17
Alignment explanation
Indices: 6851425--6851500 Score: 55
Period size: 17 Copynumber: 4.1 Consensus size: 17
6851415 ATTTTGTTTT
* *
6851425 TTATTTTTAAATATATA
1 TTATTTTTAATTTTATA
6851442 TTATTTTTAATTTTATA
1 TTATTTTTAATTTTATA
6851459 TTTAATGATTTTATATTTT-TA
1 -TT-AT--TTTTA-ATTTTATA
6851480 TTATTTATTAAAATTTTATA
1 TTATTT-TT--AATTTTATA
6851500 T
1 T
6851501 ATAGTCATCT
Statistics
Matches: 48, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
17 17 0.35
18 4 0.08
19 9 0.19
20 6 0.12
21 7 0.15
22 5 0.10
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (17 bp):
TTATTTTTAATTTTATA
Found at i:6855359 original size:23 final size:23
Alignment explanation
Indices: 6855333--6855379 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
6855323 GCTAGATTTT
*
6855333 TCCTAAGTACTATCACTAAATAA
1 TCCTAAATACTATCACTAAATAA
* *
6855356 TCCTAAATATTATCCCTAAATAA
1 TCCTAAATACTATCACTAAATAA
6855379 T
1 T
6855380 TCAAAATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.43, C:0.21, G:0.02, T:0.34
Consensus pattern (23 bp):
TCCTAAATACTATCACTAAATAA
Found at i:6855386 original size:23 final size:23
Alignment explanation
Indices: 6855343--6855386 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
6855333 TCCTAAGTAC
*
6855343 TATCACTAAATAATCCTAAATAT
1 TATCACTAAATAATCCAAAATAT
* *
6855366 TATCCCTAAATAATTCAAAAT
1 TATCACTAAATAATCCAAAAT
6855387 TTAAAAATCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.34
Consensus pattern (23 bp):
TATCACTAAATAATCCAAAATAT
Found at i:6862514 original size:22 final size:22
Alignment explanation
Indices: 6862488--6862546 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
6862478 AAGGAAATAC
6862488 AAAAAATAAAATAAAAAAGATT
1 AAAAAATAAAATAAAAAAGATT
* * **
6862510 CAAAAATGAAAA-AATAAATTTT
1 AAAAAAT-AAAATAAAAAAGATT
6862532 AAAAAATAAAATAAA
1 AAAAAATAAAATAAA
6862547 TGGATAAATA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
21 4 0.14
22 21 0.72
23 4 0.14
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (22 bp):
AAAAAATAAAATAAAAAAGATT
Found at i:6863432 original size:23 final size:23
Alignment explanation
Indices: 6863402--6863445 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
6863392 AGATTTTTCT
*
6863402 TAAATATTATCACTAAATAATCG
1 TAAATATTATAACTAAATAATCG
6863425 TAAATATTATAACTAAATAAT
1 TAAATATTATAACTAAATAAT
6863446 TCAAAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.52, C:0.09, G:0.02, T:0.36
Consensus pattern (23 bp):
TAAATATTATAACTAAATAATCG
Found at i:6871070 original size:125 final size:125
Alignment explanation
Indices: 6870907--6871222 Score: 483
Period size: 125 Copynumber: 2.5 Consensus size: 125
6870897 CCCAAACATG
*
6870907 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCAATTTCACAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTGATAAAGCATCCTGC
* * * *
6870972 TTGAAGCG-TTTTTATACTATTTTCTCAGAAACGTCAACTCGAAATTATTTTTTCCAGGAC
66 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACATCAACTCGAAATTA-TTTTTACAAGAC
* * * * *
6871032 CTACTGTAGCAAAAGCACGTCCACGAGGGTGCGATTTCACAAATTCTTCTCATAAAGCATGCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTGATAAAGCATCCTGC
6871097 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACATCAACTCGAAATTATTTTTACAAGAC
66 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACATCAACTCGAAATTATTTTTACAAGAC
* * * *
6871157 CTACTGTAGC-AAAGCGCGTACACGTGGGCGCGACTTCAAAAATTCTTCTGGTAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTGATAAAGCATCCTGC
6871221 TT
66 TT
6871223 TGATTTTATC
Statistics
Matches: 171, Mismatches: 19, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
124 47 0.27
125 87 0.51
126 37 0.22
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTGATAAAGCATCCTGC
TTGAAGCGTTTTTTATACTATTTGCTCAGAAACATCAACTCGAAATTATTTTTACAAGAC
Found at i:6871370 original size:24 final size:21
Alignment explanation
Indices: 6871340--6871387 Score: 69
Period size: 24 Copynumber: 2.1 Consensus size: 21
6871330 TTTTCTCTAA
6871340 AACCCTAAAAATCCTAAAAACCCT
1 AACCCTAAAAA-CC-AAAAA-CCT
6871364 AACCCTAAAAACCAAAAACCT
1 AACCCTAAAAACCAAAAACCT
6871385 AAC
1 AAC
6871388 GTGGGAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 6 0.25
22 5 0.21
23 2 0.08
24 11 0.46
ACGTcount: A:0.54, C:0.33, G:0.00, T:0.12
Consensus pattern (21 bp):
AACCCTAAAAACCAAAAACCT
Found at i:6892156 original size:23 final size:24
Alignment explanation
Indices: 6892130--6892178 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
6892120 TTAAAACAGT
6892130 TTCTAAAAG-AAACTC-AAGAGCAA
1 TTCTAAAAGAAAACTCAAAGAG-AA
**
6892153 TTCTTGAAGAAAACTCAAAGAGAA
1 TTCTAAAAGAAAACTCAAAGAGAA
6892177 TT
1 TT
6892179 ATTATTAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 7 0.32
24 10 0.45
25 5 0.23
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.22
Consensus pattern (24 bp):
TTCTAAAAGAAAACTCAAAGAGAA
Found at i:6896270 original size:31 final size:35
Alignment explanation
Indices: 6896232--6896308 Score: 90
Period size: 35 Copynumber: 2.3 Consensus size: 35
6896222 AATATTAAGC
*
6896232 TTAATTTAATACTTA-TTT-TA-AT-AGTATATTA
1 TTAATTTAATACTTATTTTGTATATAAATATATTA
** *
6896263 TTAATTTAATGTTTATTTTGTATATAAATATTTTA
1 TTAATTTAATACTTATTTTGTATATAAATATATTA
6896298 TTAATTTAATA
1 TTAATTTAATA
6896309 AAATTTAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
31 13 0.35
32 3 0.08
33 2 0.05
34 2 0.05
35 17 0.46
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.57
Consensus pattern (35 bp):
TTAATTTAATACTTATTTTGTATATAAATATATTA
Found at i:6901757 original size:36 final size:36
Alignment explanation
Indices: 6901709--6901785 Score: 104
Period size: 36 Copynumber: 2.1 Consensus size: 36
6901699 ACGGCATTAT
*
6901709 GTTATAATATATATAGT-TTTTATATTAT-TTATAAA
1 GTTATAATATATATA-TATATTATATTATATTATAAA
*
6901744 GCTTATAATATATATATATATTATATTGTATTATAAA
1 G-TTATAATATATATATATATTATATTATATTATAAA
6901781 GTTAT
1 GTTAT
6901786 TATGATAATG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
35 2 0.05
36 27 0.73
37 8 0.22
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.52
Consensus pattern (36 bp):
GTTATAATATATATATATATTATATTATATTATAAA
Found at i:6901785 original size:18 final size:18
Alignment explanation
Indices: 6901728--6901785 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
6901718 TATATAGTTT
6901728 TTATATTAT-TTATAAAG
1 TTATATTATATTATAAAG
* *
6901745 CTTATAATATATATATATA-
1 -TTATATTATAT-TATAAAG
*
6901764 TTATATTGTATTATAAAG
1 TTATATTATATTATAAAG
6901782 TTAT
1 TTAT
6901786 TATGATAATG
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
17 5 0.16
18 21 0.66
19 1 0.03
20 5 0.16
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (18 bp):
TTATATTATATTATAAAG
Found at i:6902030 original size:25 final size:25
Alignment explanation
Indices: 6902002--6902055 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
6901992 AATTTTGTGA
6902002 ATTGTGGATGATTTTGAAATGTGCC
1 ATTGTGGATGATTTTGAAATGTGCC
6902027 ATTGTGGATGATTTTGAAATGTGCC
1 ATTGTGGATGATTTTGAAATGTGCC
6902052 ATTG
1 ATTG
6902056 ATGAATGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.24, C:0.07, G:0.28, T:0.41
Consensus pattern (25 bp):
ATTGTGGATGATTTTGAAATGTGCC
Found at i:6903357 original size:40 final size:38
Alignment explanation
Indices: 6903313--6903425 Score: 111
Period size: 39 Copynumber: 2.9 Consensus size: 38
6903303 AAAAACCAAC
* ** *
6903313 CATTAGCGGCGTTTTTATAAAAACGCCGCTAAAGGTCGAG
1 CATTAGCGGCGTTTTT-GAAAAACGCCGCTAAAAAT-AAG
* *
6903353 CATTAGCGACGCTTTTTGGAAAACGCCGCTAAAAATAAG
1 CATTAGCGGCG-TTTTTGAAAAACGCCGCTAAAAATAAG
* *
6903392 CATTAGCGGCGTTTTTTGAAGAGCGCCGC-AAAAA
1 CATTAGCGGCG-TTTTTGAAAAACGCCGCTAAAAA
6903426 GCCTAATCCC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
38 5 0.08
39 26 0.43
40 25 0.41
41 5 0.08
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (38 bp):
CATTAGCGGCGTTTTTGAAAAACGCCGCTAAAAATAAG
Found at i:6903408 original size:39 final size:39
Alignment explanation
Indices: 6903292--6903425 Score: 128
Period size: 40 Copynumber: 3.4 Consensus size: 39
6903282 GTTTGGACAA
* * * * *
6903292 AAAACGCCACAAAAAACCAACCATTAGCGGCGTTTTTATA
1 AAAACGCCGCTAAAAATCAAGCATTAGCGGCGTTTTT-TG
** * * *
6903332 AAAACGCCGCTAAAGGTCGAGCATTAGCGACGCTTTTTGG
1 AAAACGCCGCTAAAAATCAAGCATTAGCGGCG-TTTTTTG
6903372 AAAACGCCGCTAAAAAT-AAGCATTAGCGGCGTTTTTTG
1 AAAACGCCGCTAAAAATCAAGCATTAGCGGCGTTTTTTG
*
6903410 AAGAGCGCCGC-AAAAA
1 AA-AACGCCGCTAAAAA
6903426 GCCTAATCCC
Statistics
Matches: 76, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
38 13 0.17
39 19 0.25
40 39 0.51
41 5 0.07
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (39 bp):
AAAACGCCGCTAAAAATCAAGCATTAGCGGCGTTTTTTG
Found at i:6903511 original size:41 final size:41
Alignment explanation
Indices: 6903465--6903629 Score: 258
Period size: 41 Copynumber: 4.0 Consensus size: 41
6903455 TTTTTGGGGC
* *
6903465 CTAATGCTCTAGCCTTTAGCGGCGTTTTTGAAGAAGCGTCG
1 CTAATGCTCTGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCG
* * *
6903506 CTAATGCTCGGGCCTTTAGTGGCGTTTTTGAATAAGCGCCG
1 CTAATGCTCTGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCG
6903547 CTAATGCTCTGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCG
1 CTAATGCTCTGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCG
* * *
6903588 CTAATGCTCTGGCCTTTAGCAGCATTTTTGAAAAAGCGCCG
1 CTAATGCTCTGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCG
6903629 C
1 C
6903630 AAAAATATTT
Statistics
Matches: 113, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 113 1.00
ACGTcount: A:0.19, C:0.24, G:0.27, T:0.30
Consensus pattern (41 bp):
CTAATGCTCTGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCG
Found at i:6904073 original size:7 final size:7
Alignment explanation
Indices: 6904063--6904151 Score: 56
Period size: 7 Copynumber: 12.9 Consensus size: 7
6904053 GATTTAAGGT
6904063 TTAGGGG
1 TTAGGGG
6904070 TTAGGGG
1 TTAGGGG
6904077 TTA-GGG
1 TTAGGGG
*
6904083 TT-GGGAT
1 TTAGGG-G
** *
6904090 TTAATGT
1 TTAGGGG
*
6904097 TTAAGGG
1 TTAGGGG
6904104 TTAGGGG
1 TTAGGGG
*
6904111 TTAGAGG
1 TTAGGGG
*
6904118 TTAGAGG
1 TTAGGGG
*
6904125 TTAGAGG
1 TTAGGGG
*
6904132 TTATGGG
1 TTAGGGG
* *
6904139 TTAAGAG
1 TTAGGGG
6904146 TTAGGG
1 TTAGGG
6904152 ATTTAAGGTT
Statistics
Matches: 66, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
6 7 0.11
7 58 0.88
8 1 0.02
ACGTcount: A:0.22, C:0.00, G:0.44, T:0.34
Consensus pattern (7 bp):
TTAGGGG
Found at i:6904084 original size:21 final size:21
Alignment explanation
Indices: 6904028--6904084 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
6904018 GAGTATGAAT
*
6904028 TTAGGGATTATGGTTTAAGGG
1 TTAGGGATTAAGGTTTAAGGG
*
6904049 TT-GGGATTTAAGGTTTAGGGG
1 TTAGGGA-TTAAGGTTTAAGGG
* *
6904070 TTAGGGGTTAGGGTT
1 TTAGGGATTAAGGTT
6904085 GGGATTTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 4 0.13
21 23 0.77
22 3 0.10
ACGTcount: A:0.19, C:0.00, G:0.42, T:0.39
Consensus pattern (21 bp):
TTAGGGATTAAGGTTTAAGGG
Found at i:6904085 original size:34 final size:34
Alignment explanation
Indices: 6904027--6904119 Score: 123
Period size: 34 Copynumber: 2.7 Consensus size: 34
6904017 GGAGTATGAA
* * *
6904027 TTTAGGGATTATGGTTTAAGGGTTGGGATTTAAGG
1 TTTAGGGGTTAGGGGTT-AGGGTTGGGATTTAAGG
*
6904062 TTTAGGGGTTAGGGGTTAGGGTTGGGATTTAATG
1 TTTAGGGGTTAGGGGTTAGGGTTGGGATTTAAGG
*
6904096 TTTAAGGGTTAGGGGTTAGAGGTT
1 TTTAGGGGTTAGGGGTTAG-GGTT
6904120 AGAGGTTAGA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
34 34 0.65
35 18 0.35
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (34 bp):
TTTAGGGGTTAGGGGTTAGGGTTGGGATTTAAGG
Found at i:6904128 original size:21 final size:20
Alignment explanation
Indices: 6904056--6904151 Score: 63
Period size: 21 Copynumber: 4.6 Consensus size: 20
6904046 GGGTTGGGAT
*
6904056 TTAAGGTTTAGGGGTTAGGGG
1 TTAAGG-TTAGGGGTTATGGG
* * *
6904077 TTAGGGTT-GGGATTTAAT-GT
1 TTAAGGTTAGGG-GTT-ATGGG
6904097 TTAAGGGTTAGGGGTTA-GAGG
1 TTAA-GGTTAGGGGTTATG-GG
*
6904118 TTAGAGGTTAGAGGTTATGGG
1 TTA-AGGTTAGGGGTTATGGG
6904139 TTAAGAGTTAGGG
1 TTAAG-GTTAGGG
6904152 ATTTAAGGTT
Statistics
Matches: 57, Mismatches: 9, Indels: 18
0.68 0.11 0.21
Matches are distributed among these distances:
19 3 0.05
20 11 0.19
21 38 0.67
22 5 0.09
ACGTcount: A:0.23, C:0.00, G:0.43, T:0.34
Consensus pattern (20 bp):
TTAAGGTTAGGGGTTATGGG
Found at i:6906085 original size:11 final size:11
Alignment explanation
Indices: 6906069--6906094 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
6906059 ATTTAAGGAA
6906069 TTTTATCCTAT
1 TTTTATCCTAT
6906080 TTTTATCCTAT
1 TTTTATCCTAT
6906091 TTTT
1 TTTT
6906095 GACTGATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTATCCTAT
Found at i:6907333 original size:17 final size:17
Alignment explanation
Indices: 6907311--6907353 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
6907301 AATATATAAT
6907311 ATTATAATGCAAAATTA
1 ATTATAATGCAAAATTA
6907328 ATTATAATGCAAAATTA
1 ATTATAATGCAAAATTA
6907345 ATATATAAT
1 AT-TATAAT
6907354 ATTATAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 19 0.76
18 6 0.24
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (17 bp):
ATTATAATGCAAAATTA
Found at i:6908916 original size:43 final size:43
Alignment explanation
Indices: 6908835--6909067 Score: 380
Period size: 43 Copynumber: 5.4 Consensus size: 43
6908825 AGTGCAATTT
*
6908835 GTCTTTAGCGGCGTTTGTGGGGAAAAGCGCCGCTAAAGGT-ATTT
1 GTCTTTAGCGGCGTTTGT-GGGAAAAGCGCCGCTAAAGGTCA-TG
*
6908879 GTCTTTAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGGTCATG
1 GTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATG
6908922 GTCTTTAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTCATG
1 GTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATG
* *
6908964 GTCTTTAGCGGTGTTTGTGGGAAAAGCGCCACTAAAGGTCATG
1 GTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATG
*
6909007 GTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTG
1 GTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATG
*
6909050 TTCTTTAGCGGCGTTTGT
1 GTCTTTAGCGGCGTTTGT
6909068 TTCTGAAAAC
Statistics
Matches: 179, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
42 41 0.23
43 119 0.66
44 19 0.11
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (43 bp):
GTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATG
Found at i:6908980 original size:85 final size:86
Alignment explanation
Indices: 6908835--6909067 Score: 380
Period size: 85 Copynumber: 2.7 Consensus size: 86
6908825 AGTGCAATTT
*
6908835 GTCTTTAGCGGCGTTTGTGGGGAAAAGCGCCGCTAAAGGT-ATTTGTCTTTAGCGGCGTTTGTAG
1 GTCTTTAGCGGCGTTTGT-GGGAAAAGCGCCGCTAAAGGTCA-TGGTCTTTAGCGGCGTTTGTAG
*
6908899 GAAAAGCGCCGCTAAAGGTCATG
64 GAAAAGCGCCACTAAAGGTCATG
* *
6908922 GTCTTTAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGTGTTTGTGGGA
1 GTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTAGGA
6908986 AAAGCGCCACTAAAGGTCATG
66 AAAGCGCCACTAAAGGTCATG
* *
6909007 GTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGTTCTTTAGCGGCGTTTGT
1 GTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGT
6909068 TTCTGAAAAC
Statistics
Matches: 137, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
85 79 0.58
86 40 0.29
87 18 0.13
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (86 bp):
GTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTAGGA
AAAGCGCCACTAAAGGTCATG
Found at i:6909064 original size:128 final size:129
Alignment explanation
Indices: 6908835--6909067 Score: 389
Period size: 128 Copynumber: 1.8 Consensus size: 129
6908825 AGTGCAATTT
* *
6908835 GTCTTTAGCGGCGTTTGTGGGGAAAAGCGCCGCTAAAGGTATTTGTCTTTAGCGGCGTTTGTAGG
1 GTCTTTAGCGGCGTTTGTGGGGAAAAGCGCCACTAAAGGTATTGGTCTTTAGCGGCGTTTGTAGG
6908900 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCATG
66 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCATG
* *
6908964 GTCTTTAGCGGTGTTTGT-GGGAAAAGCGCCACTAAAGGTCA-TGGTCTTTAGCGGCGTTTGTGG
1 GTCTTTAGCGGCGTTTGTGGGGAAAAGCGCCACTAAAGGT-ATTGGTCTTTAGCGGCGTTTGTAG
* *
6909027 GAAAAGCGCCGCTAAAGGTCTTGTTCTTTAGCGGCGTTTGT
65 GAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGT
6909068 TTCTGAAAAC
Statistics
Matches: 97, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
128 79 0.81
129 18 0.19
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (129 bp):
GTCTTTAGCGGCGTTTGTGGGGAAAAGCGCCACTAAAGGTATTGGTCTTTAGCGGCGTTTGTAGG
AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCATG
Found at i:6913265 original size:50 final size:50
Alignment explanation
Indices: 6913152--6913398 Score: 268
Period size: 50 Copynumber: 4.8 Consensus size: 50
6913142 TTTCTTGTAC
* * * **
6913152 TGCCAATGCCATATCCCAGATATGG-CTTACATGGGAGT-TCTCATATAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-TCTCTCATCTCTG
* **
6913201 TGACC-ATGCCATGTCCCAGACATGGTCCTACGGGGGATCTCTCATCTCTG
1 TG-CCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCTCTG
* * *
6913251 TGCCAATGCTATGTCCCAGACATGGTCTTACATGAGA-CTTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC-TCTCATCTCTG
* *
6913301 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA--TCTC-TCATCTC--TG
6913356 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
6913399 TTACCCAAAT
Statistics
Matches: 166, Mismatches: 20, Indels: 20
0.81 0.10 0.10
Matches are distributed among these distances:
49 24 0.14
50 91 0.55
52 2 0.01
53 8 0.05
54 4 0.02
55 1 0.01
56 36 0.22
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCTCTG
Found at i:6913312 original size:100 final size:104
Alignment explanation
Indices: 6913152--6913390 Score: 301
Period size: 100 Copynumber: 2.3 Consensus size: 104
6913142 TTTCTTGTAC
* * * * *
6913152 TGCCAATGCCATATCCCAGATATGG-CTTACATGGGAGTTCTCATATAGGTGACCATGCCATGTC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACTTCTCATATAGGTGACCACGCCATGTC
* *
6913216 CCAGACATGGTCCTACGGGGGA-TCTC-TCATCTC-TG-
66 CCAGACATGGTCCTACAGGGGACTCTCATAATCTCATGA
* * *
6913251 TGCCAATGCTATGTCCCAGACATGGTCTTACATGAGACTTCTCATCTCGGTG-CCAACGCCATGT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACTTCTCATATAGGTGACC-ACGCCATGT
* *
6913315 CCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
65 CCCAGACATGGTCCTACAGGGGA-CTCTCATAATCTC-ATGA
6913357 TGCCAATGCCATGTCCCAGACATGGTCTTACATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG
6913391 GGATCTCTTT
Statistics
Matches: 119, Mismatches: 13, Indels: 9
0.84 0.09 0.06
Matches are distributed among these distances:
99 24 0.20
100 50 0.42
102 4 0.03
103 6 0.05
105 2 0.02
106 33 0.28
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.27
Consensus pattern (104 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACTTCTCATATAGGTGACCACGCCATGTC
CCAGACATGGTCCTACAGGGGACTCTCATAATCTCATGA
Found at i:6926400 original size:26 final size:22
Alignment explanation
Indices: 6926349--6926392 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
6926339 ATGATATATG
6926349 TATGCATACTAGAAAACATGAT
1 TATGCATACTAGAAAACATGAT
*
6926371 TATGCATACTAGAGAACATGAT
1 TATGCATACTAGAAAACATGAT
6926393 GTGTTATGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (22 bp):
TATGCATACTAGAAAACATGAT
Found at i:6927179 original size:12 final size:13
Alignment explanation
Indices: 6927161--6927209 Score: 55
Period size: 14 Copynumber: 3.8 Consensus size: 13
6927151 AAAAGGTTAT
6927161 TATTTTTTAAATA
1 TATTTTTTAAATA
*
6927174 -ATTTTTAAAATA
1 TATTTTTTAAATA
*
6927186 TATATTTTAAAATA
1 TAT-TTTTTAAATA
*
6927200 TAATTTTTAA
1 TATTTTTTAA
6927210 TTTTTATGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
12 11 0.35
13 8 0.26
14 12 0.39
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TATTTTTTAAATA
Found at i:6927195 original size:14 final size:14
Alignment explanation
Indices: 6927164--6927206 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
6927154 AGGTTATTAT
*
6927164 TTTTTAAATA-AT-
1 TTTTAAAATATATA
6927176 TTTTAAAATATATA
1 TTTTAAAATATATA
6927190 TTTTAAAATATA-A
1 TTTTAAAATATATA
6927203 TTTT
1 TTTT
6927207 TAATTTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 9 0.32
13 7 0.25
14 12 0.43
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTTTAAAATATATA
Found at i:6927207 original size:14 final size:14
Alignment explanation
Indices: 6927171--6927209 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
6927161 TATTTTTTAA
6927171 ATAATTTTTAAAAT
1 ATAATTTTTAAAAT
6927185 AT-ATATTTTAAAAT
1 ATAAT-TTTTAAAAT
6927199 ATAATTTTTAA
1 ATAATTTTTAA
6927210 TTTTTATGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 2 0.09
14 19 0.83
15 2 0.09
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
ATAATTTTTAAAAT
Found at i:6927255 original size:14 final size:14
Alignment explanation
Indices: 6927236--6927280 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
6927226 TAAAATATGA
6927236 AAAAAATTACTTTT
1 AAAAAATTACTTTT
*
6927250 AAAAAATTAATTTT
1 AAAAAATTACTTTT
* *
6927264 ATAATA-TACTTTT
1 AAAAAATTACTTTT
6927277 AAAA
1 AAAA
6927281 GGTAAGAACC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
13 9 0.35
14 17 0.65
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (14 bp):
AAAAAATTACTTTT
Found at i:6927428 original size:25 final size:25
Alignment explanation
Indices: 6927396--6927444 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
6927386 ATTTTTTAAT
6927396 AAAAAATTACATGGACTCAATGCTA
1 AAAAAATTACATGGACTCAATGCTA
6927421 AAAAAATTACATGGACTCAATGCT
1 AAAAAATTACATGGACTCAATGCT
6927445 CAAGATCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.47, C:0.16, G:0.12, T:0.24
Consensus pattern (25 bp):
AAAAAATTACATGGACTCAATGCTA
Found at i:6930175 original size:28 final size:26
Alignment explanation
Indices: 6930115--6930175 Score: 68
Period size: 28 Copynumber: 2.3 Consensus size: 26
6930105 ATTTAGAGTA
*
6930115 TATTTATATTAAACTACATTAAAATC
1 TATTTATATTAAAATACATTAAAATC
* * *
6930141 AAATTATATTAAAATAACAATTAAAATT
1 TATTTATATTAAAAT-AC-ATTAAAATC
6930169 TATTTAT
1 TATTTAT
6930176 GATAATAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
26 12 0.44
27 2 0.07
28 13 0.48
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.43
Consensus pattern (26 bp):
TATTTATATTAAAATACATTAAAATC
Found at i:6937027 original size:26 final size:26
Alignment explanation
Indices: 6936988--6937048 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
6936978 GATGTTACAC
6936988 AAACTCAAGAGTCCTCTAAACCACTT
1 AAACTCAAGAGTCCTCTAAACCACTT
* * * *
6937014 AAACTCAAGGGTCCTTTGACCCACTT
1 AAACTCAAGAGTCCTCTAAACCACTT
6937040 AAACTCAAG
1 AAACTCAAG
6937049 CTCACTAGGC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.36, C:0.30, G:0.11, T:0.23
Consensus pattern (26 bp):
AAACTCAAGAGTCCTCTAAACCACTT
Found at i:6941156 original size:17 final size:18
Alignment explanation
Indices: 6941122--6941160 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
6941112 ATTTTATATT
* *
6941122 TTATTTTTATGAACTTAA
1 TTATTTTAATGAAATTAA
6941140 TTATTTTAAT-AAATTAA
1 TTATTTTAATGAAATTAA
6941157 TTAT
1 TTAT
6941161 AGGAATCACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (18 bp):
TTATTTTAATGAAATTAA
Found at i:6941294 original size:50 final size:52
Alignment explanation
Indices: 6941219--6941323 Score: 169
Period size: 50 Copynumber: 2.1 Consensus size: 52
6941209 CACATGTTTA
*
6941219 TTTCATACTAACACTTATTCTTTTATCAATGAATTATA-TT-TGTATATAAT
1 TTTCATACTAACACTTATTCTTTTATCAATAAATTATACTTGTGTATATAAT
* *
6941269 TTTCATACTAACGCTTATTCTTTTATCAATAAATTATACTTGTGTATTTAAT
1 TTTCATACTAACACTTATTCTTTTATCAATAAATTATACTTGTGTATATAAT
6941321 TTT
1 TTT
6941324 TTGTATTTGT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
50 36 0.72
51 2 0.04
52 12 0.24
ACGTcount: A:0.31, C:0.12, G:0.05, T:0.51
Consensus pattern (52 bp):
TTTCATACTAACACTTATTCTTTTATCAATAAATTATACTTGTGTATATAAT
Found at i:6947851 original size:19 final size:19
Alignment explanation
Indices: 6947809--6947851 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
6947799 ACAATAATAA
* *
6947809 TGTAAAACAACATAGTAGC
1 TGTAAAACAACATAATACC
* *
6947828 AGTAACACAACATAATACC
1 TGTAAAACAACATAATACC
6947847 TGTAA
1 TGTAA
6947852 TCGGACAAAG
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.49, C:0.19, G:0.12, T:0.21
Consensus pattern (19 bp):
TGTAAAACAACATAATACC
Found at i:6948402 original size:31 final size:31
Alignment explanation
Indices: 6948362--6948431 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 31
6948352 CAATCTAGTA
6948362 ACTTAAATAAAAACTTTCGAATAATTCAATG
1 ACTTAAATAAAAACTTTCGAATAATTCAATG
* * * **
6948393 ACTTCAATAAAAACTTTTGAATAGTTCAACA
1 ACTTAAATAAAAACTTTCGAATAATTCAATG
6948424 ACTTAAAT
1 ACTTAAAT
6948432 GAAATTTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.33
Consensus pattern (31 bp):
ACTTAAATAAAAACTTTCGAATAATTCAATG
Found at i:6948700 original size:14 final size:14
Alignment explanation
Indices: 6948681--6948718 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
6948671 AATAGCTTTG
6948681 TTTTCTTTTTCCTT
1 TTTTCTTTTTCCTT
*
6948695 TTTTCTTTTT-TTT
1 TTTTCTTTTTCCTT
*
6948708 TTTTCATTTTC
1 TTTTCTTTTTC
6948719 ATTTCAATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTCTTTTTCCTT
Found at i:6949216 original size:4 final size:4
Alignment explanation
Indices: 6949207--6949232 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
6949197 TCATTAATCA
6949207 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
6949233 TTTTGACGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:6957194 original size:18 final size:18
Alignment explanation
Indices: 6957171--6957209 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
6957161 AATTTAATTT
* *
6957171 TAATTAATTTTTTTAAAA
1 TAATTAAATTTTTAAAAA
6957189 TAATTAAATTTTTAAAAA
1 TAATTAAATTTTTAAAAA
6957207 TAA
1 TAA
6957210 ACGAACATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TAATTAAATTTTTAAAAA
Found at i:6963206 original size:26 final size:26
Alignment explanation
Indices: 6963176--6963230 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
6963166 GTAGCTCTTA
* *
6963176 TGAGCGTCTCG-TTATATGGTTCTTTG
1 TGAGCGTCTCGATTA-AAGGCTCTTTG
*
6963202 TGAGCTTCTCGATTAAAGGCTCTTTG
1 TGAGCGTCTCGATTAAAGGCTCTTTG
6963228 TGA
1 TGA
6963231 ACTTCCTGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.16, C:0.16, G:0.25, T:0.42
Consensus pattern (26 bp):
TGAGCGTCTCGATTAAAGGCTCTTTG
Found at i:6963235 original size:26 final size:26
Alignment explanation
Indices: 6963196--6963250 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
6963186 GTTATATGGT
*
6963196 TCTTTGTGAGCTT-CTCGATTAAAGGC
1 TCTTTGTGAACTTCCT-GATTAAAGGC
*
6963222 TCTTTGTGAACTTCCTGATTAATGGC
1 TCTTTGTGAACTTCCTGATTAAAGGC
6963248 TCT
1 TCT
6963251 CCAGAGCTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 24 0.92
27 2 0.08
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.42
Consensus pattern (26 bp):
TCTTTGTGAACTTCCTGATTAAAGGC
Found at i:6963266 original size:25 final size:25
Alignment explanation
Indices: 6963232--6963331 Score: 64
Period size: 25 Copynumber: 4.1 Consensus size: 25
6963222 TCTTTGTGAA
*
6963232 CTTCCTGATTAATGGCTCTCCAGAG
1 CTTCCCGATTAATGGCTCTCCAGAG
* * *
6963257 CTTCCCGATT--TGGCTCGCTTA-AA
1 CTTCCCGATTAATGGCTCTC-CAGAG
* * **
6963280 CTTCCCCA-TATATGGCTATCTGGAG
1 CTTCCCGATTA-ATGGCTCTCCAGAG
* *
6963305 CTTCTCGATTAATGGCTCTTCAGAG
1 CTTCCCGATTAATGGCTCTCCAGAG
6963330 CT
1 CT
6963332 ACTCGTTATT
Statistics
Matches: 54, Mismatches: 15, Indels: 12
0.67 0.19 0.15
Matches are distributed among these distances:
22 1 0.02
23 15 0.28
24 2 0.04
25 34 0.63
26 2 0.04
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.34
Consensus pattern (25 bp):
CTTCCCGATTAATGGCTCTCCAGAG
Found at i:6967704 original size:24 final size:22
Alignment explanation
Indices: 6967677--6967753 Score: 75
Period size: 23 Copynumber: 3.4 Consensus size: 22
6967667 TTTTTATATT
*
6967677 ATAAAACATTAATTAAATTATAAA
1 ATAAAACATTAACTAAATTAT--A
*
6967701 ATAAAA-GTTAAACTAAATTATA
1 ATAAAACATT-AACTAAATTATA
* *
6967723 ATAAAACATTAACCAAAACTATA
1 ATAAAACATTAA-CTAAATTATA
6967746 ATAAAACA
1 ATAAAACA
6967754 AAAAGAAAGT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
22 9 0.20
23 20 0.44
24 16 0.36
ACGTcount: A:0.62, C:0.09, G:0.01, T:0.27
Consensus pattern (22 bp):
ATAAAACATTAACTAAATTATA
Found at i:6971957 original size:20 final size:20
Alignment explanation
Indices: 6971914--6971957 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
6971904 AAATAGTGAG
*
6971914 AATTTATTTTCTAAGTATAA
1 AATTTATTTTCTAAGAATAA
*
6971934 AATTTATTTT-TCAGAATAA
1 AATTTATTTTCTAAGAATAA
6971953 CAATT
1 -AATT
6971958 CTATCAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.48
Consensus pattern (20 bp):
AATTTATTTTCTAAGAATAA
Found at i:6973969 original size:58 final size:58
Alignment explanation
Indices: 6973899--6974011 Score: 172
Period size: 58 Copynumber: 1.9 Consensus size: 58
6973889 GCCATGGCAA
*
6973899 CATGGTACAAGGTAAAAGGTATATAGAGTAAAACCATGGATGAAAGACGCTATGGTGC
1 CATGGTACAAGGTAAAAGGTATACAGAGTAAAACCATGGATGAAAGACGCTATGGTGC
* * * * *
6973957 CATGGTATAAGGTATAAGGTATACGGTGTAAGACCATGGATGAAAGACGCTATGG
1 CATGGTACAAGGTAAAAGGTATACAGAGTAAAACCATGGATGAAAGACGCTATGG
6974012 CGGTCAGATA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
58 49 1.00
ACGTcount: A:0.37, C:0.12, G:0.29, T:0.22
Consensus pattern (58 bp):
CATGGTACAAGGTAAAAGGTATACAGAGTAAAACCATGGATGAAAGACGCTATGGTGC
Found at i:6974024 original size:58 final size:58
Alignment explanation
Indices: 6973907--6974024 Score: 148
Period size: 58 Copynumber: 2.0 Consensus size: 58
6973897 AACATGGTAC
* * *
6973907 AAGGTAAAAGGTATATAGAGTAAAACCATGGATGAAAGACGCTATGGTGCCATGGTAT
1 AAGGTAAAAGGTATACAGAGTAAAACCATGGATGAAAGACGCTATGGGGCCATGATAT
* * * * *
6973965 AAGGTATAAGGTATACGGTGTAAGACCATGGATGAAAGACGCTATGGCGGTCA-GATAT
1 AAGGTAAAAGGTATACAGAGTAAAACCATGGATGAAAGACGCTATGG-GGCCATGATAT
6974023 AA
1 AA
6974025 TGAGTAAGAC
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
58 48 0.94
59 3 0.06
ACGTcount: A:0.38, C:0.11, G:0.29, T:0.22
Consensus pattern (58 bp):
AAGGTAAAAGGTATACAGAGTAAAACCATGGATGAAAGACGCTATGGGGCCATGATAT
Found at i:6974121 original size:33 final size:33
Alignment explanation
Indices: 6974065--6974169 Score: 111
Period size: 33 Copynumber: 3.2 Consensus size: 33
6974055 GCATCCTCAG
* * * * *
6974065 AGATAGTCTGCTGAGACAGTAAACACATAACAA
1 AGATAGTCCGCTGGGATAATAAACACAAAACAA
*
6974098 AGATAGTCCGTTGGGATAATAAACACAAAACAA
1 AGATAGTCCGCTGGGATAATAAACACAAAACAA
* * * * *
6974131 AGATAGTCTGCTGGGATAGTAAGCACAAAATAG
1 AGATAGTCCGCTGGGATAATAAACACAAAACAA
6974164 AGATAG
1 AGATAG
6974170 CCTGTCTAGA
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.45, C:0.14, G:0.22, T:0.19
Consensus pattern (33 bp):
AGATAGTCCGCTGGGATAATAAACACAAAACAA
Found at i:6974214 original size:28 final size:28
Alignment explanation
Indices: 6974178--6974253 Score: 98
Period size: 28 Copynumber: 2.7 Consensus size: 28
6974168 AGCCTGTCTA
* **
6974178 GACAGTAAACATGTGGTAAGTCTGCTAG
1 GACAGTAAACATGAGGTAAGTCCACTAG
6974206 GACAGTAAACATGAGGTAAGTCCACTAG
1 GACAGTAAACATGAGGTAAGTCCACTAG
* * *
6974234 GACAATAAATATGGGGTAAG
1 GACAGTAAACATGAGGTAAG
6974254 CCCATCGGGA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.38, C:0.13, G:0.28, T:0.21
Consensus pattern (28 bp):
GACAGTAAACATGAGGTAAGTCCACTAG
Found at i:6992905 original size:6 final size:6
Alignment explanation
Indices: 6992881--6992924 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
6992871 TGCCTTCTTC
* * *
6992881 TCCCCTT TCCCCT TTCCCT TCCCCT TCCCTT TTCCCT TCCCCT T
1 TCCCC-T TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT T
6992925 GGATTGCAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
6 26 0.84
7 5 0.16
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (6 bp):
TCCCCT
Found at i:6992908 original size:18 final size:18
Alignment explanation
Indices: 6992881--6992924 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
6992871 TGCCTTCTTC
6992881 TCCCCTTTCCCCTTTCCCT
1 TCCCC-TTCCCCTTTCCCT
*
6992900 TCCCCTTCCCTTTTCCCT
1 TCCCCTTCCCCTTTCCCT
6992918 TCCCCTT
1 TCCCCTT
6992925 GGATTGCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 19 0.79
19 5 0.21
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (18 bp):
TCCCCTTCCCCTTTCCCT
Found at i:6993018 original size:25 final size:25
Alignment explanation
Indices: 6992984--6993033 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
6992974 CAGGTAAGGC
6992984 TCCTTCTTCTTCTTCCGTTCTTCAT
1 TCCTTCTTCTTCTTCCGTTCTTCAT
* *
6993009 TCCTTTTTCTTCTTCTGTTCTTCAT
1 TCCTTCTTCTTCTTCCGTTCTTCAT
6993034 CTTCTCTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.04, C:0.32, G:0.04, T:0.60
Consensus pattern (25 bp):
TCCTTCTTCTTCTTCCGTTCTTCAT
Found at i:6993237 original size:11 final size:11
Alignment explanation
Indices: 6993221--6993246 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
6993211 TTGCTGGATG
6993221 ATATTTTGGTT
1 ATATTTTGGTT
6993232 ATATTTTGGTT
1 ATATTTTGGTT
6993243 ATAT
1 ATAT
6993247 ACAGATGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (11 bp):
ATATTTTGGTT
Found at i:6996458 original size:22 final size:20
Alignment explanation
Indices: 6996415--6996453 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
6996405 TAATTTAAAA
6996415 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
*
6996435 TATATAAATTTATTAATAT
1 TATAAAAATTTATTAATAT
6996454 ATGTAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:6996558 original size:14 final size:15
Alignment explanation
Indices: 6996536--6996612 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
6996526 CAATCAAACA
6996536 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
6996550 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
6996565 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
6996585 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
6996599 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
6996613 ACTGCCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:6996577 original size:20 final size:20
Alignment explanation
Indices: 6996552--6996591 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6996542 AATATTTTCC
*
6996552 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
6996572 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
6996592 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:6996597 original size:34 final size:35
Alignment explanation
Indices: 6996540--6996606 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
6996530 CAAACACCAG
*
6996540 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
6996575 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
6996607 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:6996613 original size:14 final size:14
Alignment explanation
Indices: 6996575--6996614 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
6996565 ACAGAAAAGT
*
6996575 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
6996589 AAATCATTTTACGG
1 AAAACATTTTACAG
6996603 AAAACATTTTAC
1 AAAACATTTTAC
6996615 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:6998107 original size:28 final size:28
Alignment explanation
Indices: 6998076--6998141 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
6998066 TTTTTTATCC
*
6998076 AAATAATATAAAAAATA-ATTAATTATAA
1 AAATAATAT-AAAAATAGAATAATTATAA
** *
6998104 AAATGGTATGAAAATAGAATAATTATAA
1 AAATAATATAAAAATAGAATAATTATAA
6998132 AAATAGATAT
1 AAATA-ATAT
6998142 TTGTTATAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
27 6 0.20
28 21 0.70
29 3 0.10
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.30
Consensus pattern (28 bp):
AAATAATATAAAAATAGAATAATTATAA
Found at i:7001158 original size:22 final size:22
Alignment explanation
Indices: 7001128--7001180 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
7001118 TGAAATATAA
7001128 AATTAAAATT-TTT-TAAATAATT
1 AATT-AAATTATTTGTAAA-AATT
*
7001150 AATATAAATTATTTGTAAAATTT
1 AAT-TAAATTATTTGTAAAAATT
7001173 AATTAAAT
1 AATTAAAT
7001181 ATATAAATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 13 0.48
23 10 0.37
24 4 0.15
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (22 bp):
AATTAAATTATTTGTAAAAATT
Found at i:7001730 original size:21 final size:19
Alignment explanation
Indices: 7001705--7001744 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
7001695 TTCACTCTTT
*
7001705 TTTCTTGATTGTTATTTTTTC
1 TTTCTTAATT-TT-TTTTTTC
7001726 TTTCTTAATTTTTTTTTTC
1 TTTCTTAATTTTTTTTTTC
7001745 AATTTATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 2 0.11
21 9 0.50
ACGTcount: A:0.10, C:0.10, G:0.05, T:0.75
Consensus pattern (19 bp):
TTTCTTAATTTTTTTTTTC
Found at i:7006813 original size:35 final size:35
Alignment explanation
Indices: 7006763--7006833 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
7006753 TTTTAGGGGG
*
7006763 GTCGAGGCCCTTGCCTATTCCTTGGCTCCGCCACT
1 GTCGAGGCCCCTGCCTATTCCTTGGCTCCGCCACT
7006798 GTCGAGGCCCCTGCCTATTCCTTGGCTCCGCCACT
1 GTCGAGGCCCCTGCCTATTCCTTGGCTCCGCCACT
7006833 G
1 G
7006834 ATCTTAATCT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.08, C:0.41, G:0.24, T:0.27
Consensus pattern (35 bp):
GTCGAGGCCCCTGCCTATTCCTTGGCTCCGCCACT
Found at i:7022591 original size:25 final size:28
Alignment explanation
Indices: 7022563--7022627 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 28
7022553 TATATTCCCT
*
7022563 CAAAACATA-TT-ATA-TATAAATATAC
1 CAAAACATATTTAATAGCATAAATATAC
7022588 CAAAACATTATTTGAATAGCATAAATATAC
1 CAAAACA-TATTT-AATAGCATAAATATAC
7022618 CAAAAGCATA
1 CAAAA-CATA
7022628 ATTCAAAAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
25 7 0.21
26 2 0.06
27 2 0.06
29 3 0.09
30 17 0.52
31 2 0.06
ACGTcount: A:0.54, C:0.14, G:0.05, T:0.28
Consensus pattern (28 bp):
CAAAACATATTTAATAGCATAAATATAC
Found at i:7023644 original size:25 final size:26
Alignment explanation
Indices: 7023592--7023644 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
7023582 TTGAGTTAAT
7023592 AAATTCCTTTTATGTTTTCTTTTCAG
1 AAATTCCTTTTATGTTTTCTTTTCAG
*
7023618 AAATTCCTTTTGA-G-TTTCTTTTTAG
1 AAATTCCTTTT-ATGTTTTCTTTTCAG
7023643 AA
1 AA
7023645 GAGTTTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 12 0.48
26 12 0.48
27 1 0.04
ACGTcount: A:0.23, C:0.13, G:0.09, T:0.55
Consensus pattern (26 bp):
AAATTCCTTTTATGTTTTCTTTTCAG
Found at i:7026842 original size:34 final size:35
Alignment explanation
Indices: 7026778--7026843 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 35
7026768 TTAACAGTTG
** *
7026778 AATTTGCATCTTTGATGAGCTCTTATCTTTGATTA
1 AATTTGCATCTTTGATGAGCTCGCACCTTTGATTA
*
7026813 AATTTGCGTC-TTGATGAGCTCGCACCTTTGA
1 AATTTGCATCTTTGATGAGCTCGCACCTTTGA
7026844 ATTAGCTCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
34 18 0.67
35 9 0.33
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.42
Consensus pattern (35 bp):
AATTTGCATCTTTGATGAGCTCGCACCTTTGATTA
Found at i:7038947 original size:8 final size:8
Alignment explanation
Indices: 7038936--7038964 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
7038926 CCAAAAAAAT
7038936 AAAAAGAG
1 AAAAAGAG
7038944 AAAAAGAG
1 AAAAAGAG
7038952 AAAAAGAG
1 AAAAAGAG
7038960 AAAAA
1 AAAAA
7038965 TGGAGAGGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (8 bp):
AAAAAGAG
Found at i:7041329 original size:259 final size:259
Alignment explanation
Indices: 7040318--7041420 Score: 1139
Period size: 259 Copynumber: 4.2 Consensus size: 259
7040308 TAGACAGCGA
**
7040318 AGCAGATCAAAGAT-GACAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAA
1 AGCAGATCAAAGATGGTGA-ATTTTACCTCCCTGTGGTTAC-----AGTACATTGAAGCCAGTAA
* *
7040382 TTCTA-CTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGCCT-TCT-TGCATCG
60 TTCTATC-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCA--G
* * * * *
7040444 ACAATGAAGCAGATCGAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGC
122 -TAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGC
* * * **
7040509 CAGTAATTCTA-TCTCCCTGGGCAACAGTGAAATAGATTGAAGATTACAGATCTTGCCTCCCTAA
186 CAGTAATTCTACT-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAA
7040573 GCAGTAGTGG
250 GCAGTAGTGG
* *
7040583 AGCAGATCAAAGATGG-CAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAA
1 AGCAGATCAAAGATGGTGA-ATTTTACCTCCCTGTGGTTAC-----AGTACATTGAAGCCAGTAA
* * *
7040647 TTCTATCTCCTTGGGC-GACAATGGAATAGATTGGAGATTTCAGATCTTGCCTCCCTAAGCAGTA
60 TTCTATCTCCCTGGGCAG-CAGTGGAATAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTA
* * * ** *
7040711 GTGGAGCAGATCGAAGATGGCAGATTTTACCTCTCTGAAGTTGTAGTGGAGTATATT------AG
124 GTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAG
* ** ** *
7040770 TAATTCTACTTCCCCTGTTG--GC-GT-GAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATA
189 TAATTCTACTT-CCCTG-GGCAGCAGTGGAA-TAGATTGAAGATTTCAGATCTTATC-TCCC-TA
*
7040831 CTGGTGGCGAAGTAGATCGAAG
249 -----AGC--AGTAG-T-G--G
* * * *
7040853 AAAGTAGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTGCAGTGGAGTACATTGAAGCCAGTA
1 --AGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTT--A---CAGTACATTGAAGCCAGTA
* * *
7040918 ATTCTATCTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCCAAGCAGTA
59 ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTA
* * **
7040983 GTGGAGCAGATCAAAGATGACAGATTTTACCTCCCTGTGGTTACAACGGAGTACATTGAAGCCAG
124 GTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAG
*
7041048 TAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAATATTTCAGATCTTATCTCCCTAAGCAG
189 TAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAG
7041113 TAGTGG
254 TAGTGG
7041119 AGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTACATTGAAGCCAGTAATTCTA-
1 AGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTACATTGAAGCCAGTAATTCTAT
* * *
7041183 CTTCCCTGGGCAGCAGTGAAATAGATTAAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAG
66 C-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTGGAG
* ** * * *
7041248 CAGATCAAAGATGG-TGAATTTTACCTCATTGTGGTTATAGTGGAGTATATTGAAGCCAGTAATT
130 CAGATCAAAGATGGCAG-ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATT
* *
7041312 CTA-TCTCCCTAGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCTCTAAGCAGTAGT
194 CTACT-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
7041376 GG
258 GG
* ** *
7041378 AGTAGATCAAAGATAATGGATTTTACCTCCCTGTGGTTACAGT
1 AGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGT
7041421 GGAGTACATT
Statistics
Matches: 719, Mismatches: 75, Indels: 94
0.81 0.08 0.11
Matches are distributed among these distances:
256 2 0.00
257 22 0.03
258 19 0.03
259 245 0.34
260 1 0.00
262 1 0.00
264 88 0.12
265 107 0.15
266 10 0.01
267 4 0.01
268 2 0.00
269 1 0.00
270 6 0.01
272 159 0.22
274 1 0.00
276 1 0.00
277 7 0.01
278 19 0.03
279 21 0.03
280 3 0.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (259 bp):
AGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTACATTGAAGCCAGTAATTCTAT
CTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTGGAGC
AGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
ACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
Found at i:7041452 original size:132 final size:132
Alignment explanation
Indices: 7040318--7041439 Score: 1289
Period size: 132 Copynumber: 8.5 Consensus size: 132
7040308 TAGACAGCGA
* *
7040318 AGCAGATCAAAGATGACAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCAAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * *
7040383 TCTA-CTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGCCT-TCT-TGCATCGA
66 TCTATC-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCA--G-
* * *
7040445 CAATGA
127 TAGTGG
* *
7040451 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCAAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * * *
7040516 TCTATCTCCCTGGGCAACAGTGAAATAGATTGAAGATTACAGATCTTGCCTCCCTAAGCAGTAGT
66 TCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT
7040581 GG
131 GG
* *
7040583 AGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCAAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * * *
7040648 TCTATCTCCTTGGGC-GACAATGGAATAGATTGGAGATTTCAGATCTTGCCTCCCTAAGCAGTAG
66 TCTATCTCCCTGGGCAG-CAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAG
7040712 TGG
130 TGG
* * * ** ** *
7040715 AGCAGATCGAAGATGGCAGATTTTACCTCTCTGAAGTTGTAGTGGAGTATATT------AGTAAT
1 AGCAGATCAAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* ** **
7040774 TCTA-CTTCCCCTGTTG--GC-GT-GAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTG
66 TCTATC-T-CCCTG-GGCAGCAGTGGAA-TAGATTGAAGATTTCAGATCTTGTC-TCCC-TA---
*
7040834 GTGGCGAAGTAGATCGAAG
122 --AGC--AGTAG-T-G--G
* * * *
7040853 AAAGTAGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTGCAGTGGAGTACATTGAAGCCAGTA
1 --AGCAGATCAAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
* *
7040918 ATTCTATCTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCCAAGCAGTA
64 ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTA
7040983 GTGG
129 GTGG
* * **
7040987 AGCAGATCAAAGATGACAGATTTTACCTCCCTGTGGTTACAACGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCAAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* *
7041052 TCTA-CTTCCCTGGGCAGCAGTGGAATAGATTGAATATTTCAGATCTTATCTCCCTAAGCAGTAG
66 TCTATC-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAG
7041116 TGG
130 TGG
* *
7041119 AGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTAC-----AGTACATTGAAGCCAGTAAT
1 AGCAGATCAAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* *
7041179 TCTA-CTTCCCTGGGCAGCAGTGAAATAGATTAAAGATTTCAGATCTTGTCTCCCTAAGCAGTAG
66 TCTATC-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAG
7041243 TGG
130 TGG
* * ** * *
7041246 AGCAGATCAAAGATGGTGAATTTTACCTCATTGTGGTTATAGTGGAGTATATTGAAGCCAGTAAT
1 AGCAGATCAAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * *
7041311 TCTATCTCCCTAGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCTCTAAGCAGTAGT
66 TCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT
7041376 GG
131 GG
* ***
7041378 AGTAGATCAAAGATAATGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGT
1 AGCAGATCAAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGT
7041440 TACCCTATCT
Statistics
Matches: 859, Mismatches: 89, Indels: 83
0.83 0.09 0.08
Matches are distributed among these distances:
124 3 0.00
125 21 0.02
126 16 0.02
127 127 0.15
128 1 0.00
131 1 0.00
132 462 0.54
133 109 0.13
134 9 0.01
135 4 0.00
136 2 0.00
137 1 0.00
138 6 0.01
140 47 0.05
144 1 0.00
145 6 0.01
146 16 0.02
147 24 0.03
148 3 0.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (132 bp):
AGCAGATCAAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
TCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT
GG
Found at i:7048384 original size:17 final size:18
Alignment explanation
Indices: 7048351--7048384 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7048341 AGCAAAATCA
*
7048351 TTTTATCTTTTTCATTTC
1 TTTTATCTTTTTAATTTC
7048369 TTTTAT-TTTTTAATTT
1 TTTTATCTTTTTAATTT
7048385 TAGAATTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTATCTTTTTAATTTC
Found at i:7048621 original size:21 final size:22
Alignment explanation
Indices: 7048572--7048621 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
7048562 GGGGTTTTGT
*
7048572 AGGAAATTACTTTGAATTTTTAT
1 AGGAAATTA-TTTGAATTTTTAG
*
7048595 AAGAAATT-TTTGAATTTTTAG
1 AGGAAATTATTTGAATTTTTAG
7048616 AGGAAA
1 AGGAAA
7048622 AATTATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 17 0.71
23 7 0.29
ACGTcount: A:0.40, C:0.02, G:0.16, T:0.42
Consensus pattern (22 bp):
AGGAAATTATTTGAATTTTTAG
Found at i:7053574 original size:41 final size:41
Alignment explanation
Indices: 7053515--7053668 Score: 184
Period size: 41 Copynumber: 3.8 Consensus size: 41
7053505 TAAAATATTT
* * *
7053515 TTAGCGGTGCTTTTTCAAAAACGCCGCTAAAGACCCCAACA
1 TTAGCGGCGCTTTTACAAAAACGCCGCTAAAGACCCCAGCA
* * *
7053556 TTAGCGGCGCTTTCT-CAAAAACGCCGTTAAAGACACCAGTA
1 TTAGCGGCGCTTT-TACAAAAACGCCGCTAAAGACCCCAGCA
* * * *
7053597 TTAGCGGCGCTTTTCCAAAGACACCGCTAAAAACCCCAGCA
1 TTAGCGGCGCTTTTACAAAAACGCCGCTAAAGACCCCAGCA
* *
7053638 TTAGCGGCGCTTTTACGAAAACGCCACTAAA
1 TTAGCGGCGCTTTTACAAAAACGCCGCTAAA
7053669 TCCCCCAAAG
Statistics
Matches: 95, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
40 1 0.01
41 93 0.98
42 1 0.01
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (41 bp):
TTAGCGGCGCTTTTACAAAAACGCCGCTAAAGACCCCAGCA
Found at i:7053757 original size:40 final size:41
Alignment explanation
Indices: 7053707--7053820 Score: 142
Period size: 39 Copynumber: 2.8 Consensus size: 41
7053697 TAGGCTTTGG
* *
7053707 TTTTTTGCGGCGTTTTTTTTAAAAACGCCGCTAATGCT-TA
1 TTTTTAGCGGCGTTTTTTTTAAAAACGCCGCTAATGCTCGA
*
7053747 TTTTTAGCGGCG-TTTTTTGAAAAACGCCGCTAATGCTCGA
1 TTTTTAGCGGCGTTTTTTTTAAAAACGCCGCTAATGCTCGA
* * * **
7053787 TTTTTACCGGCATTTTTTATCCAAACGCCGCTAA
1 TTTTTAGCGGCGTTTTTTTTAAAAACGCCGCTAA
7053821 AAGTGCCGCT
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
39 24 0.38
40 22 0.35
41 17 0.27
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.39
Consensus pattern (41 bp):
TTTTTAGCGGCGTTTTTTTTAAAAACGCCGCTAATGCTCGA
Found at i:7053763 original size:39 final size:40
Alignment explanation
Indices: 7053707--7053820 Score: 140
Period size: 40 Copynumber: 2.8 Consensus size: 40
7053697 TAGGCTTTGG
* *
7053707 TTTTTTGCGGCGTTTTTTTTAAAAACGCCGCTAATGCT-TA
1 TTTTTAGCGGCG-TTTTTTTAAAAACGCCGCTAATGCTCGA
*
7053747 TTTTTAGCGGCGTTTTTTGAAAAACGCCGCTAATGCTCGA
1 TTTTTAGCGGCGTTTTTTTAAAAACGCCGCTAATGCTCGA
* * **
7053787 TTTTTACCGGCATTTTTTATCCAAACGCCGCTAA
1 TTTTTAGCGGCGTTTTTT-TAAAAACGCCGCTAA
7053821 AAGTGCCGCT
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
39 24 0.38
40 28 0.44
41 12 0.19
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.39
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTTTTAAAAACGCCGCTAATGCTCGA
Found at i:7055683 original size:16 final size:16
Alignment explanation
Indices: 7055662--7055695 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7055652 AGGATCGCGA
*
7055662 TATTATCTAAGTTATG
1 TATTATCTAACTTATG
*
7055678 TATTATGTAACTTATG
1 TATTATCTAACTTATG
7055694 TA
1 TA
7055696 AGTTGTGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.12, T:0.50
Consensus pattern (16 bp):
TATTATCTAACTTATG
Found at i:7055692 original size:9 final size:9
Alignment explanation
Indices: 7055664--7055879 Score: 164
Period size: 9 Copynumber: 24.8 Consensus size: 9
7055654 GATCGCGATA
*
7055664 TTATCTAAG
1 TTATGTAAG
7055673 TTATGT-A-
1 TTATGTAAG
*
7055680 TTATGTAAC
1 TTATGTAAG
7055689 TTATGTAAG
1 TTATGTAAG
*
7055698 TTGTGT-A-
1 TTATGTAAG
*
7055705 TTATGTAAC
1 TTATGTAAG
7055714 TTATGTAAG
1 TTATGTAAG
**
7055723 TTATCAAAG
1 TTATGTAAG
* *
7055732 TAATGTATG
1 TTATGTAAG
7055741 TTATGTAAG
1 TTATGTAAG
7055750 -T-TGTAAG
1 TTATGTAAG
*
7055757 TTAT-TATG
1 TTATGTAAG
* *
7055765 TATTATATAAC
1 --TTATGTAAG
*
7055776 TTCTGTAAG
1 TTATGTAAG
7055785 TTATGTAAG
1 TTATGTAAG
7055794 TTATGTAAG
1 TTATGTAAG
7055803 TTATGTAAG
1 TTATGTAAG
*
7055812 TTACGTAAG
1 TTATGTAAG
*
7055821 TTGTGTAAG
1 TTATGTAAG
* * *
7055830 CTATTTCAG
1 TTATGTAAG
*
7055839 TTGTGTAAG
1 TTATGTAAG
7055848 CTT-TGT-A-
1 -TTATGTAAG
7055855 TTATGTAAG
1 TTATGTAAG
*
7055864 TTATGTAGG
1 TTATGTAAG
7055873 TTATGTA
1 TTATGTA
7055880 TGATGTAAGT
Statistics
Matches: 162, Mismatches: 32, Indels: 26
0.74 0.15 0.12
Matches are distributed among these distances:
6 2 0.01
7 20 0.12
8 11 0.07
9 121 0.75
10 6 0.04
11 2 0.01
ACGTcount: A:0.30, C:0.05, G:0.19, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:7055698 original size:25 final size:25
Alignment explanation
Indices: 7055664--7055726 Score: 108
Period size: 25 Copynumber: 2.5 Consensus size: 25
7055654 GATCGCGATA
*
7055664 TTATCTAAGTTATGTATTATGTAAC
1 TTATGTAAGTTATGTATTATGTAAC
*
7055689 TTATGTAAGTTGTGTATTATGTAAC
1 TTATGTAAGTTATGTATTATGTAAC
7055714 TTATGTAAGTTAT
1 TTATGTAAGTTAT
7055727 CAAAGTAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.30, C:0.05, G:0.16, T:0.49
Consensus pattern (25 bp):
TTATGTAAGTTATGTATTATGTAAC
Found at i:7055783 original size:62 final size:63
Alignment explanation
Indices: 7055701--7055822 Score: 174
Period size: 62 Copynumber: 1.9 Consensus size: 63
7055691 ATGTAAGTTG
* *
7055701 TGTATTATGTAACTTATGTAAGTTATCAAAGTAATGTATGTTATGTAAGTT-GTAAGTTATTA
1 TGTATTATATAACTTATGTAAGTTATCAAAGTAATGTAAGTTATGTAAGTTAGTAAGTTATTA
* ** *
7055763 TGTATTATATAACTTCTGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTACGTAAGTT
1 TGTATTATATAACTTATGTAAGTTATCAAAGTAATGTAAGTTATGTAAGTTA-GTAAGTT
7055823 GTGTAAGCTA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
62 45 0.87
64 7 0.13
ACGTcount: A:0.33, C:0.04, G:0.18, T:0.45
Consensus pattern (63 bp):
TGTATTATATAACTTATGTAAGTTATCAAAGTAATGTAAGTTATGTAAGTTAGTAAGTTATTA
Found at i:7056010 original size:13 final size:13
Alignment explanation
Indices: 7055988--7056142 Score: 84
Period size: 13 Copynumber: 11.8 Consensus size: 13
7055978 TTTATAGCGG
*
7055988 GTAATGTATTTAA
1 GTAATATATTTAA
*
7056001 GTAACATATTTAA
1 GTAATATATTTAA
* *
7056014 GTAAAAAATTTAA
1 GTAATATATTTAA
** *
7056027 CCAA-ATTTTAGTAA
1 GTAATATATT--TAA
* *
7056041 GTAATGT-TTCTGA
1 GTAATATATT-TAA
*
7056054 GTAACATATTTAA
1 GTAATATATTTAA
* *
7056067 GTAAAAAATTTAA
1 GTAATATATTTAA
*
7056080 CG-AA-ATTTTAGTAA
1 -GTAATATATT--TAA
*
7056094 GTAATGTATTTAA
1 GTAATATATTTAA
*
7056107 GTAATTTATTTAA
1 GTAATATATTTAA
*
7056120 GTAATATATTCAA
1 GTAATATATTTAA
7056133 GTAATATATT
1 GTAATATATT
7056143 AAGAGTAAAA
Statistics
Matches: 108, Mismatches: 25, Indels: 18
0.72 0.17 0.12
Matches are distributed among these distances:
12 6 0.06
13 83 0.77
14 15 0.14
15 4 0.04
ACGTcount: A:0.44, C:0.05, G:0.11, T:0.41
Consensus pattern (13 bp):
GTAATATATTTAA
Found at i:7056057 original size:53 final size:53
Alignment explanation
Indices: 7055988--7056123 Score: 220
Period size: 53 Copynumber: 2.6 Consensus size: 53
7055978 TTTATAGCGG
7055988 GTAATGTATTTAAGTAACATATTTAAGTAAAAAATTTAACCAAATTTTAGTAA
1 GTAATGTATTTAAGTAACATATTTAAGTAAAAAATTTAACCAAATTTTAGTAA
* *
7056041 GTAATGT-TTCTGAGTAACATATTTAAGTAAAAAATTTAACGAAATTTTAGTAA
1 GTAATGTATT-TAAGTAACATATTTAAGTAAAAAATTTAACCAAATTTTAGTAA
**
7056094 GTAATGTATTTAAGTAATTTATTTAAGTAA
1 GTAATGTATTTAAGTAACATATTTAAGTAA
7056124 TATATTCAAG
Statistics
Matches: 76, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
52 2 0.03
53 72 0.95
54 2 0.03
ACGTcount: A:0.44, C:0.04, G:0.12, T:0.40
Consensus pattern (53 bp):
GTAATGTATTTAAGTAACATATTTAAGTAAAAAATTTAACCAAATTTTAGTAA
Found at i:7056346 original size:46 final size:44
Alignment explanation
Indices: 7056296--7056381 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 44
7056286 TTAAATTGTA
7056296 AAAATATTAACATATATATAAATTTTTAATATTAATAAGTTATGAT
1 AAAATA-TAACA-ATATATAAATTTTTAATATTAATAAGTTATGAT
** **
7056342 AAAATATATGAATATATACTTTTTTAATATTAATAAGTTA
1 AAAATATAACAATATATAAATTTTTAATATTAATAAGTTA
7056382 AATAAAAACT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 27 0.75
45 3 0.08
46 6 0.17
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (44 bp):
AAAATATAACAATATATAAATTTTTAATATTAATAAGTTATGAT
Found at i:7056741 original size:7 final size:7
Alignment explanation
Indices: 7056716--7056767 Score: 61
Period size: 7 Copynumber: 7.3 Consensus size: 7
7056706 CACTTCATTC
7056716 AACAGAA
1 AACAGAA
*
7056723 AATAGCAA
1 AACAG-AA
7056731 AACAGAA
1 AACAGAA
7056738 AACA-AA
1 AACAGAA
*
7056744 ACATAGAA
1 A-ACAGAA
7056752 AACAGAA
1 AACAGAA
7056759 AACAGAA
1 AACAGAA
7056766 AA
1 AA
7056768 TAAAGAAACA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
6 3 0.08
7 26 0.68
8 9 0.24
ACGTcount: A:0.71, C:0.13, G:0.12, T:0.04
Consensus pattern (7 bp):
AACAGAA
Found at i:7056749 original size:22 final size:21
Alignment explanation
Indices: 7056716--7056769 Score: 83
Period size: 21 Copynumber: 2.5 Consensus size: 21
7056706 CACTTCATTC
7056716 AACAGAAAATAGCAAAACAGAA
1 AACAGAAAATAG-AAAACAGAA
7056738 AACA-AAACATAGAAAACAGAA
1 AACAGAAA-ATAGAAAACAGAA
7056759 AACAGAAAATA
1 AACAGAAAATA
7056770 AAGAAACATA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
21 19 0.63
22 11 0.37
ACGTcount: A:0.70, C:0.13, G:0.11, T:0.06
Consensus pattern (21 bp):
AACAGAAAATAGAAAACAGAA
Found at i:7057606 original size:303 final size:294
Alignment explanation
Indices: 7057051--7057649 Score: 937
Period size: 303 Copynumber: 2.0 Consensus size: 294
7057041 TAAACTAGAT
* *
7057051 ATTAAGACTATATATATTATATATTAAAAATGTATATAAATTTTAAGTATATTATAAAAGAAAAA
1 ATTAAAACTATATATATTATATATTAAAAATGTATATAAATTTTAAATATATTATAAAAGAAAAA
* *
7057116 AAAGATTGAATCTCGGATTTCAACCAAAAATATAACTTTGCTCTTTAGAAGTTTGAACTTACAAG
66 AAAGATTGAATCTCAGATTTCAACCAAAAATATAACTTTGCTCTTTAGAAATTTGAACTTACAAG
*
7057181 TTTTGAACAGTGCTGTAGTGTTCAGTTCCTTGAGACTATTGGATTTTTTCTAACAGTAGTATAGT
131 TTTTGAACAGTGCTGTAGTGTTCAGTTCCTTGACACTATTGGATTTTTTCTAACAGTAGTATAGT
*
7057246 AGCCCTGCCATAGCAAATATTAATAGATATCATTCAATAGGTTTAGAACAGTTTTGCAATTTTCG
196 AGCCCTGCCATAGCAAATATTAATAGATATCATTCAATAGGTTTAGAACAATTTTGCAATTTTCG
* **
7057311 ACAGAACAGCAGTAAATGATTCAACATGGTAGCA
261 ACAGAACAACAGTAAATGATGAAACATGGTAGCA
7057345 ATTAAAACTATATATATTATATATTAAAAATGTATATAAATTTTAAATATATTATAAAAGAAAAA
1 ATTAAAACTATATATATTATATATTAAAAATGTATATAAATTTTAAATATATTATAAAAG-----
*** * *
7057410 AATAAAAAAAAAGATTGAATCTCAGATTTCGTGCTAAAATATTACTTTGCTCTTTAGAAATTTGA
61 ----AAAAAAAAGATTGAATCTCAGATTTCAACCAAAAATATAACTTTGCTCTTTAGAAATTTGA
* * * * *
7057475 ACTTACAAGTTTTGAACAGTGGTGTAGTGTTCAGTTCCTTGCCAGTATTGGATTTTTTCTGATAG
122 ACTTACAAGTTTTGAACAGTGCTGTAGTGTTCAGTTCCTTGACACTATTGGATTTTTTCTAACAG
*
7057540 TAGTATAGTAGCCCTGCCATAGCAAATATTAATAGATATCATTCAATAGGTTTTGAACAATTTTG
187 TAGTATAGTAGCCCTGCCATAGCAAATATTAATAGATATCATTCAATAGGTTTAGAACAATTTTG
7057605 CAATTTTCGACAGAACAACAGTAAATGATGAAACATGGTAGCA
252 CAATTTTCGACAGAACAACAGTAAATGATGAAACATGGTAGCA
7057648 AT
1 AT
7057650 GGAAACTAAT
Statistics
Matches: 276, Mismatches: 20, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
294 58 0.21
303 218 0.79
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.35
Consensus pattern (294 bp):
ATTAAAACTATATATATTATATATTAAAAATGTATATAAATTTTAAATATATTATAAAAGAAAAA
AAAGATTGAATCTCAGATTTCAACCAAAAATATAACTTTGCTCTTTAGAAATTTGAACTTACAAG
TTTTGAACAGTGCTGTAGTGTTCAGTTCCTTGACACTATTGGATTTTTTCTAACAGTAGTATAGT
AGCCCTGCCATAGCAAATATTAATAGATATCATTCAATAGGTTTAGAACAATTTTGCAATTTTCG
ACAGAACAACAGTAAATGATGAAACATGGTAGCA
Found at i:7058385 original size:198 final size:198
Alignment explanation
Indices: 7058047--7058473 Score: 712
Period size: 198 Copynumber: 2.2 Consensus size: 198
7058037 ATAATTAACC
*
7058047 AATTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATCAG
1 AATTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGGTTCCCGATCAG
* * *
7058112 TTAACTCAAACTCATGGCATTTTAGAGAAAACGGCATCGTCTCCATAAAAATTAAAACATTTTTG
66 ATAACTCAAACTCATGGCATTTTAGAGAAAACGACATCATCTCCATAAAAATTAAAACATTTTTG
7058177 CGGCGTTTACTAAAAGCGCCACTAAAAG-TAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTT
131 CGGCGTTTACTAAAAGCGCCACT-AAAGTTAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTT
*
7058241 CTGT
195 CTAT
7058245 AATTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGGTTCCCGATCAG
1 AATTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGGTTCCCGATCAG
*
7058310 ATAACTCAAACTCATGGCGTTTTAGAGAAAACGACATCATCTCCATAAAAATTAAAACATTTTTG
66 ATAACTCAAACTCATGGCATTTTAGAGAAAACGACATCATCTCCATAAAAATTAAAACATTTTTG
* * *
7058375 TGGCGTTTACTAAAAGCGCCACTAAAGTTAAATAAGAAAACGGAGTCGTTTTCCTAAACAATTTC
131 CGGCGTTTACTAAAAGCGCCACTAAAGTTAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTTC
7058440 TAT
196 TAT
* * * **
7058443 AAATTGCAGCGTTTATACATAAGCGCCACTA
1 AATTTGCGGCGTTTATATACCAGCGCCACTA
7058474 AATATTAGGC
Statistics
Matches: 214, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
197 4 0.02
198 210 0.98
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (198 bp):
AATTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGGTTCCCGATCAG
ATAACTCAAACTCATGGCATTTTAGAGAAAACGACATCATCTCCATAAAAATTAAAACATTTTTG
CGGCGTTTACTAAAAGCGCCACTAAAGTTAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTTC
TAT
Found at i:7058935 original size:47 final size:47
Alignment explanation
Indices: 7058847--7058938 Score: 121
Period size: 47 Copynumber: 2.0 Consensus size: 47
7058837 GTTAATTTCG
* **
7058847 GTAATATTTAAAAAAATTAGATAAAATTATCAATCTCAGTTTTTTAA
1 GTAATATTTAAAAAAATTAGATAAAAATAAAAATCTCAGTTTTTTAA
* * * *
7058894 GTAATATTTATAAAAATTAGGTAAAAATAAAAATTTTAGTTTTTT
1 GTAATATTTAAAAAAATTAGATAAAAATAAAAATCTCAGTTTTTT
7058939 TATTTCTTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 38 1.00
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (47 bp):
GTAATATTTAAAAAAATTAGATAAAAATAAAAATCTCAGTTTTTTAA
Found at i:7058964 original size:20 final size:21
Alignment explanation
Indices: 7058927--7058971 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
7058917 AAAATAAAAA
7058927 TTTTAGTTTTTTTATTTC-TT
1 TTTTAGTTTTTTTATTTCATT
7058947 TTTTA-TTTTTTTATTTTCATT
1 TTTTAGTTTTTTTA-TTTCATT
7058968 TTTT
1 TTTT
7058972 TTGTAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.35
20 9 0.39
21 6 0.26
ACGTcount: A:0.11, C:0.04, G:0.02, T:0.82
Consensus pattern (21 bp):
TTTTAGTTTTTTTATTTCATT
Found at i:7059283 original size:7 final size:7
Alignment explanation
Indices: 7059271--7059335 Score: 69
Period size: 7 Copynumber: 9.3 Consensus size: 7
7059261 CCCTGACTCC
7059271 TAACCCT
1 TAACCCT
7059278 TAACCCT
1 TAACCCT
7059285 TAACCCT
1 TAACCCT
*
7059292 AAACCCT
1 TAACCCT
*
7059299 TAACCCA
1 TAACCCT
7059306 TAA-CCT
1 TAACCCT
*
7059312 CTAACCCC
1 -TAACCCT
*
7059320 TAACCCC
1 TAACCCT
*
7059327 TAAACCT
1 TAACCCT
7059334 TA
1 TA
7059336 TTTAATATAT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
6 2 0.04
7 45 0.92
8 2 0.04
ACGTcount: A:0.34, C:0.43, G:0.00, T:0.23
Consensus pattern (7 bp):
TAACCCT
Found at i:7059298 original size:21 final size:21
Alignment explanation
Indices: 7059270--7059325 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
7059260 TCCCTGACTC
*
7059270 CTAACCCTTAACCCTTAACC-
1 CTAACCCTTAACCCATAACCT
7059290 CTAAACCCTTAACCCATAACCT
1 CT-AACCCTTAACCCATAACCT
*
7059312 CTAACCCCTAACCC
1 CTAACCCTTAACCC
7059326 CTAAACCTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
20 2 0.06
21 28 0.88
22 2 0.06
ACGTcount: A:0.32, C:0.46, G:0.00, T:0.21
Consensus pattern (21 bp):
CTAACCCTTAACCCATAACCT
Found at i:7059440 original size:14 final size:14
Alignment explanation
Indices: 7059430--7059460 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
7059420 TCTTAACATC
7059430 TAACCCCTAACCCA
1 TAACCCCTAACCCA
7059444 TAACCCCTAACCCA
1 TAACCCCTAACCCA
7059458 TAA
1 TAA
7059461 ACCTTAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.39, C:0.45, G:0.00, T:0.16
Consensus pattern (14 bp):
TAACCCCTAACCCA
Found at i:7059447 original size:21 final size:21
Alignment explanation
Indices: 7059413--7059456 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
7059403 AACCCTAAAT
* * *
7059413 CCCTAACTCTTAACATCTAAC
1 CCCTAACCCATAACACCTAAC
*
7059434 CCCTAACCCATAACCCCTAAC
1 CCCTAACCCATAACACCTAAC
7059455 CC
1 CC
7059457 ATAAACCTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.48, G:0.00, T:0.20
Consensus pattern (21 bp):
CCCTAACCCATAACACCTAAC
Found at i:7059906 original size:114 final size:114
Alignment explanation
Indices: 7059757--7060323 Score: 662
Period size: 114 Copynumber: 5.0 Consensus size: 114
7059747 ATTTTAAATC
* * * *
7059757 CCTGAGTATTAGTGGCGC-TTCATAAAAACGCCACTAAATCCCCGAAAGCTAAAAAAACGGCGTC
1 CCTGAGTATTAGCGGCGCATACATAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTC
7059821 GTTGGGCTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
66 GTTGGGCTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
* * **
7059870 CCTGAGCATTAGCGGCGCATACATAAAAACGCCACTAAATCCTTC-TCAGCTCAGAAAACGGCGT
1 CCTGAGTATTAGCGGCGCATACATAAAAACGCCACTAAATCC-CCGAAAGCTCAGAAAACGGCGT
* * * * * *
7059934 CGTTGGGCAGAAGTATTATTGTGACGCTTTCACAAAAACGCCGCTAAA-T
65 CGTTGGGCTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
** * *
7059983 CACTGAGTATTAATGGCGCTTTA-ATAAAAACACCACTAAATCCCCGAAAGCTCAGAAAACGGCG
1 C-CTGAGTATTAGCGGCGC-ATACATAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCG
* * * **
7060047 TCGTTGGGCTGAAGTATTGTTGTGGCGCTTTCACAAAAACGCCGCTAAATC
64 TCGTTGGGCTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
* * * *
7060098 CCTGAGTATTAGCGGCGCTTTA-ATAAAAATGCCACTAAATCCCCAAAAGCTCAGAAAACGGTGT
1 CCTGAGTATTAGCGGCGC-ATACATAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGT
** *
7060162 CGTTGGGCTGAAGTACGTTTGCGGTGCTTTCCCAAAAACGCCGCTAAAGA
65 CGTTGGGCTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
* * * * *
7060212 CCTCAGCATTAGCGGCG-ATTTCATGAAAACGCCACTAAATCCCCCGAAAGCTCA-AAAACGGTG
1 CCTGAGTATTAGCGGCGCA-TACATAAAAACGCCACTAAAT-CCCCGAAAGCTCAGAAAACGGCG
** * * * *
7060275 TCGTTGGGCTGAAGTACGTTTGCGACGCATCCCCAAAAACGCCACTAAA
64 TCGTTGGGCTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAA
7060324 TCCCCAAAAG
Statistics
Matches: 393, Mismatches: 52, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
113 19 0.05
114 358 0.91
115 16 0.04
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.22
Consensus pattern (114 bp):
CCTGAGTATTAGCGGCGCATACATAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTC
GTTGGGCTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
Found at i:7060326 original size:73 final size:73
Alignment explanation
Indices: 7060237--7060375 Score: 201
Period size: 73 Copynumber: 1.9 Consensus size: 73
7060227 CGATTTCATG
* ** *
7060237 AAAACGCCACTAAATCCCCCGAAAGCTCA-AAAACGGTGTCGTTGGGCTGAAGTAC-GTTTGCGA
1 AAAACGCCACTAAAT-CCCCAAAAGCTCAGAAAACGGCATCGTGGGGCTGAAGT-CTGTTTGCGA
7060300 CGCATCCCCA
64 CGCATCCCCA
*
7060310 AAAACGCCACTAAATCCCCAAAAGCTCAGAAAACGGCATCGTGGGGCTGAAGTCTTTTTGCGACG
1 AAAACGCCACTAAATCCCCAAAAGCTCAGAAAACGGCATCGTGGGGCTGAAGTCTGTTTGCGACG
7060375 C
66 C
7060376 TTACCGAGAA
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
72 13 0.22
73 46 0.78
ACGTcount: A:0.31, C:0.29, G:0.22, T:0.18
Consensus pattern (73 bp):
AAAACGCCACTAAATCCCCAAAAGCTCAGAAAACGGCATCGTGGGGCTGAAGTCTGTTTGCGACG
CATCCCCA
Found at i:7060388 original size:73 final size:73
Alignment explanation
Indices: 7060237--7060396 Score: 198
Period size: 73 Copynumber: 2.2 Consensus size: 73
7060227 CGATTTCATG
* ** *
7060237 AAAACGCCACTAAATCCCCCGAAAGCTCAAAAACGGTGTCGTTGGGCTGAAGTACGTTTGCGACG
1 AAAACGCCACTAAATCCCCCAAAAGCTCAAAAACGGCATCGTGGGGCTGAAGTACGTTTGCGACG
*
7060302 CATCCCCA
66 CATACCCA
*
7060310 AAAACGCCACTAAAT-CCCCAAAAGCTCAGAAAACGGCATCGTGGGGCTGAAGT-CTTTTTGCGA
1 AAAACGCCACTAAATCCCCCAAAAGCTCA-AAAACGGCATCGTGGGGCTGAAGTAC-GTTTGCGA
* *
7060373 CGCTTACCGA
64 CGCATACCCA
* *
7060383 GAAACGCCGCTAAA
1 AAAACGCCACTAAA
7060397 GACTGATAAT
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
72 13 0.17
73 62 0.83
ACGTcount: A:0.32, C:0.29, G:0.22, T:0.17
Consensus pattern (73 bp):
AAAACGCCACTAAATCCCCCAAAAGCTCAAAAACGGCATCGTGGGGCTGAAGTACGTTTGCGACG
CATACCCA
Found at i:7062442 original size:3 final size:3
Alignment explanation
Indices: 7062434--7062506 Score: 96
Period size: 3 Copynumber: 25.0 Consensus size: 3
7062424 TTTTACACTC
* *
7062434 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TA- AAT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
7062480 TAT TGT AAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
7062507 AACAATGTAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
2 3 0.05
3 57 0.95
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:7068790 original size:25 final size:25
Alignment explanation
Indices: 7068756--7068803 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
7068746 AAAAAGAAAT
7068756 ATCTAGGGTTTTGTAGGAAATTAAG
1 ATCTAGGGTTTTGTAGGAAATTAAG
7068781 ATCTAGGGTTTTGTAGGAAATTA
1 ATCTAGGGTTTTGTAGGAAATTA
7068804 CTTCAATTTT
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:0.31, C:0.04, G:0.27, T:0.38
Consensus pattern (25 bp):
ATCTAGGGTTTTGTAGGAAATTAAG
Done.