Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold121
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: 1076282
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.33
Warning! 28062 characters in sequence are not A, C, G, or T
File 5 of 8
Found at i:519590 original size:620 final size:621
Alignment explanation
Indices: 517972--519842 Score: 3302
Period size: 628 Copynumber: 3.0 Consensus size: 621
517962 AAATAAAAAA
*
517972 TTCTCCGCACCTAACCCAATATTGATTATGGTTCAGTTTGGATAGGCAGT-GAGATTAGTATTAG
1 TTCTCCCCACCTAACCCAATATTGATTATGGTTCAGTTTGGATA---AGTAGAGATTAGTATTAG
* *
518036 TAGGATTAAAAA-AATAGTAGACATTAAATTAATTATTGTAGTAATAAGATTACAATCGATAGTG
63 TAGGATTAAAAACAATGGTAGACATTAAATTAATTATTGTAGTAATGAGATTACAATCGATAGTG
518100 AAATATATATTTGAATGTAAAAAAATAATAACGGTAGAGTAAAAATAAAAATTGACTATTAAATA
128 AAATATATATTTGAATGTAAAAAAATAATAACGGTAGAGTAAAAATAAAAATTGACTATTAAATA
*
518165 TATTAATTTAAAAGAGTATTGATACGTTATTTGATAAATTATTAGATAAATTATGTAATTAATCT
193 TATTAATTTAAAAGAGTATTGATACATTATTTGATAAATTATTAGATAAATTATGTAATTAATCT
518230 TTATACTAAAAGGAAACATAAAATTTAATCTCTTTAATATAATTCATATAAATTAAGTCCTCTTA
258 TTATACTAAAAGGAAACATAAAATTTAATCTCTTTAATATAATTCATATAAATTAAGTCCTCTTA
*
518295 CTATATTGATTTGACCATCTCGATCCAATTCATAACTCTTATTAAATTGCTTTTGGTAGCTTTTA
323 CTATATTGATTTGACCATCTCGATCCAATTCATAACTCTTGTTAAATTGCTTTTGGTAGCTTTTA
518360 TATTTTGTGTGGTATCTTTGTTGGGTCAAACAAGAAAAAAGAAATATTGAGATGAAAAATTTTAA
388 TATTTTGTGTGGTATCTTTGTTGGGTCAAACAAGAAAAAAGAAATATTGAGATGAAAAATTTTAA
*
518425 ACTATATGGCTATTATTGTTGCATAAAATGCCAACATATCATTTTTTTGTCTATTTTATTGATTA
453 GCTATATGGCTATTATTGTTGCATAAAATGCCAACATATCATTTTTTTGTCTATTTTATTGATTA
* * *
518490 ACAAAAATCCAATTATTAAAGGTAATAACTAAAATAAAAAAAAAATCGTCCATTGGAATCAAAAT
518 ACAAAAATCGAATTATTAAAGGCAATAACT--AA-AAAAAAAAAATCATCCATTGGAATCAAAAT
518555 CCCTAAAATTTCTAACCCTAATCGATATCTTAGCTAACAAAC
580 CCCTAAAATTTCTAACCCTAATCGATATCTTAGCTAACAAAC
* *
518597 CTCTCCCCACCTAACCCAATATTGATTATGGTTCAGTTTGGATAGGTAGTGAGATTAGTATTAGT
1 TTCTCCCCACCTAACCCAATATTGATTATGGTTCAGTTTGGATAAGTA--GAGATTAGTATTAGT
*
518662 AGGATTAAAAACAATGGTAGATATTAAATTAATTATTGTAGTAATGAGATTACAATCGATAGTGA
64 AGGATTAAAAACAATGGTAGACATTAAATTAATTATTGTAGTAATGAGATTACAATCGATAGTG-
518727 AATATATATATTTGAATGTAAAAAAATAATAACGGTAGAGTAAAAATAAAAATTGACTATTAAAT
128 AA-ATATATATTTGAATGTAAAAAAATAATAACGGTAGAGTAAAAATAAAAATTGACTATTAAAT
* * *
518792 ATATAAATTTAAAAGAGTATTGATACCTTATTTGATAAATTATTAGATAAATTCTGTAATTAATC
192 ATATTAATTTAAAAGAGTATTGATACATTATTTGATAAATTATTAGATAAATTATGTAATTAATC
518857 TTTATACTAAAAGGAAACATAAAATTTAATCTCTTTAATATAATTCATATAAATTAAGTCCTCTT
257 TTTATACTAAAAGGAAACATAAAATTTAATCTCTTTAATATAATTCATATAAATTAAGTCCTCTT
518922 ACTATATTGATTTGACCATCTCGATCCAATTCATAACTCTTGTTAAATTGCTTTTGGTAGCTTTT
322 ACTATATTGATTTGACCATCTCGATCCAATTCATAACTCTTGTTAAATTGCTTTTGGTAGCTTTT
*
518987 ATATTTTGTGTGGTATCTTTATTGGGTCAAACAAGAAAAAAGAAATATTGAGATGAAAAATTTTA
387 ATATTTTGTGTGGTATCTTTGTTGGGTCAAACAAGAAAAAAGAAATATTGAGATGAAAAATTTTA
* *
519052 AGTTATATGGCTATTATTGTTGCATAATATGCCAACATATCATTTTTTTGTCTATTTTATTGATT
452 AGCTATATGGCTATTATTGTTGCATAAAATGCCAACATATCATTTTTTTGTCTATTTTATTGATT
519117 AACAAAAATCGAATTATTAAAGGCAATAACT-AAAAAAAAAAATCATCCATTGGAATCAAAATCC
517 AACAAAAATCGAATTATTAAAGGCAATAACTAAAAAAAAAAAATCATCCATTGGAATCAAAATCC
* *
519181 CCAAAATTTCTAACCCTAATCGATATCTTAGCTAACGAAC
582 CTAAAATTTCTAACCCTAATCGATATCTTAGCTAACAAAC
519221 TTCTCCCCACCTAACCCAATATTGATTATGGTTCAGTTTGGATAAGTAGAGATTAGTATTAGTAG
1 TTCTCCCCACCTAACCCAATATTGATTATGGTTCAGTTTGGATAAGTAGAGATTAGTATTAGTAG
519286 GATTAAAAACAATGGTAGACATTAAATTAATTATTGTAGTAATGAGATTACAATCGATAGTGAAA
66 GATTAAAAACAATGGTAGACATTAAATTAATTATTGTAGTAATGAGATTACAATCGATAGTGAAA
* * *
519351 TATATATTTGAATGTAAAAAAGA-AATAATGATAGAGTAAATATAAAAATTGACTATTAAATATA
131 TATATATTTGAATGTAAAAAA-ATAATAACGGTAGAGTAAAAATAAAAATTGACTATTAAATATA
* * *
519415 TTAATTTAAAAGAGTATTGATAAATTATTTAATAAATTATTAGATAAATAATGTAATTAATCTTT
195 TTAATTTAAAAGAGTATTGATACATTATTTGATAAATTATTAGATAAATTATGTAATTAATCTTT
*
519480 ACACTAAAAGGAAACATAAAATTTAATCTCTTTAATATAATTCATATAAATTAAGTCCTCTTACT
260 ATACTAAAAGGAAACATAAAATTTAATCTCTTTAATATAATTCATATAAATTAAGTCCTCTTACT
*
519545 ATATTGATTTGACCATCTCGATCCAATTCATAACTCTTGTTAAATTGCTTTCGGTAGCTTTTATA
325 ATATTGATTTGACCATCTCGATCCAATTCATAACTCTTGTTAAATTGCTTTTGGTAGCTTTTATA
*
519610 TTTTGTGTGGTATCTTTGTTAGGTCAAACAAGAAAAAAGAAATATTGAGATG-AAAATTTTAAGC
390 TTTTGTGTGGTATCTTTGTTGGGTCAAACAAGAAAAAAGAAATATTGAGATGAAAAATTTTAAGC
* *
519674 TATATGGCTATTGTTGTTGCATAAAATGCCAACATATCATTTTTTTGTTTATTTTATTGATTAAC
455 TATATGGCTATTATTGTTGCATAAAATGCCAACATATCATTTTTTTGTCTATTTTATTGATTAAC
*
519739 AAAAATCGAATTATTAAAGGCAATAACTAAAATAAAAAAAATTCATCCATTGGAATTAAAATCCC
520 AAAAATCGAATTATTAAAGGCAATAACTAAAA-AAAAAAAA-TCATCCATTGGAATCAAAATCCC
519804 TAAAATTTCTAACCCTAATCGATATCTTAGCTAACAAAC
583 TAAAATTTCTAACCCTAATCGATATCTTAGCTAACAAAC
519843 CTCAAATTTT
Statistics
Matches: 1194, Mismatches: 42, Indels: 23
0.95 0.03 0.02
Matches are distributed among these distances:
619 101 0.08
620 300 0.25
621 11 0.01
622 139 0.12
624 115 0.10
625 69 0.06
626 49 0.04
627 2 0.00
628 408 0.34
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (621 bp):
TTCTCCCCACCTAACCCAATATTGATTATGGTTCAGTTTGGATAAGTAGAGATTAGTATTAGTAG
GATTAAAAACAATGGTAGACATTAAATTAATTATTGTAGTAATGAGATTACAATCGATAGTGAAA
TATATATTTGAATGTAAAAAAATAATAACGGTAGAGTAAAAATAAAAATTGACTATTAAATATAT
TAATTTAAAAGAGTATTGATACATTATTTGATAAATTATTAGATAAATTATGTAATTAATCTTTA
TACTAAAAGGAAACATAAAATTTAATCTCTTTAATATAATTCATATAAATTAAGTCCTCTTACTA
TATTGATTTGACCATCTCGATCCAATTCATAACTCTTGTTAAATTGCTTTTGGTAGCTTTTATAT
TTTGTGTGGTATCTTTGTTGGGTCAAACAAGAAAAAAGAAATATTGAGATGAAAAATTTTAAGCT
ATATGGCTATTATTGTTGCATAAAATGCCAACATATCATTTTTTTGTCTATTTTATTGATTAACA
AAAATCGAATTATTAAAGGCAATAACTAAAAAAAAAAAATCATCCATTGGAATCAAAATCCCTAA
AATTTCTAACCCTAATCGATATCTTAGCTAACAAAC
Found at i:524873 original size:52 final size:52
Alignment explanation
Indices: 524788--524912 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
524778 ATATGAAAAG
* * *
524788 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCACAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
524840 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
524892 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
524913 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:524925 original size:52 final size:51
Alignment explanation
Indices: 524788--524932 Score: 202
Period size: 52 Copynumber: 2.8 Consensus size: 51
524778 ATATGAAAAG
* *
524788 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCACAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
524840 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
524892 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
524933 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
51 2 0.02
52 82 0.98
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:524939 original size:13 final size:13
Alignment explanation
Indices: 524921--524945 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
524911 CAAAGATCAG
524921 TGTATCGATACAA
1 TGTATCGATACAA
524934 TGTATCGATACA
1 TGTATCGATACA
524946 TTTTTTTTGG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:526082 original size:49 final size:49
Alignment explanation
Indices: 525916--527421 Score: 1893
Period size: 49 Copynumber: 32.0 Consensus size: 49
525906 AAAAGGATGT
* *
525916 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * * *
525968 CGATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
526016 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
526065 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
526113 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
526161 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTAC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
526210 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
526259 CAATATGCTGATTCAAGGCCAG-TGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCT-ACATTGGACTTAAAGATGAAGGTGC
*
526302 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
526351 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTAC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
526394 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
526443 CAATATGCTGATTCAAAGCCAGCAATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
526486 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
526535 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
526578 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
526627 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
526670 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
526719 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
526768 CAATATGCTGATTCAAGGCCAG-TGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCT-ACATTGGACTTAAAGATGAAGGTGC
*
526811 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
526860 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
526903 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
526952 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
526995 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
527044 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
527087 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* ** *
527136 CAATATGCTGATTCAAGGCCAGAGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
527179 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
527228 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
527277 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
527326 CAATGTGCTAAATCAAGG-CAGCTACATTGGTCTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
527374 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTG
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTG
527422 AGAAAAGTGA
Statistics
Matches: 1262, Mismatches: 125, Indels: 137
0.83 0.08 0.09
Matches are distributed among these distances:
43 373 0.30
44 2 0.00
45 10 0.01
47 10 0.01
48 180 0.14
49 650 0.52
51 1 0.00
52 36 0.03
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:526333 original size:92 final size:93
Alignment explanation
Indices: 525906--527411 Score: 1722
Period size: 92 Copynumber: 16.0 Consensus size: 93
525896 AAGATGATGA
* * * *
525906 AAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGTCGA
1 AAAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAA
*
525971 TATGCTGATTCAAGGCCAGCTATATTGGACTT
62 TATGCTGATTCAAGGCCAGCTACATTGGACTT
526003 AAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAA
1 AAA----AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAA
* *
526068 TGTGCTGAGTCAAGGCCAGCTACATTGGACTT
62 TATGCTGATTCAAGGCCAGCTACATTGGACTT
526100 AAAGATGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGCCAA
1 -AA-A--AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAA
*
526164 TGTGCTGATTCAAGGCCAGCTACATTGGACTT
62 TATGCTGATTCAAGGCCAGCTACATTGGACTT
* * * *
526196 AAAGATGAAGGTACCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCA
1 --A-A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCA
*
526261 ATATGCTGATTCAAGGCCAG-TGATATTGGACTT
61 ATATGCTGATTCAAGGCCAGCT-ACATTGGACTT
*
526294 -AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATG
1 AAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATG
* *
526358 CTGATTCAAGGCCAGCGATATTGGACTT
66 CTGATTCAAGGCCAGCTACATTGGACTT
* *
526386 -AAAGGTACCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATG
1 AAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATG
* * *
526450 CTGATTCAAAGCCAGCAATATTGGACTT
66 CTGATTCAAGGCCAGCTACATTGGACTT
*
526478 -AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATG
1 AAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATG
* *
526542 CTGATTCAAGGCCAGCGATATTGGACTT
66 CTGATTCAAGGCCAGCTACATTGGACTT
*
526570 -AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATG
1 AAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATG
* *
526634 CTGATTCAAGGCCAGCGATATTGGACTT
66 CTGATTCAAGGCCAGCTACATTGGACTT
*
526662 -AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTG
1 AAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATG
*
526726 CTGAGTCAAGGCCAGCTACATTGGACTT
66 CTGATTCAAGGCCAGCTACATTGGACTT
* *
526754 AAAGATGATGATGCCAATATGCTGATTCAAGGCCAG-TGATATTGGACTT----A--AAGGTGCC
1 AAA-A-G--G-TGCCAATGTGCTGATTCAAGGCCAGCT-ACATTGGACTTAAAGATGAAGGTGCC
*
526812 AATGTGCTGATTCAAGGCCAGCTACATTGGACTT
60 AATATGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
526846 AAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCA
1 AAA-A-G--G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCA
*
526905 ATGTGCTGATTCAAGGCCAGCTACATTGGACTT
61 ATATGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
526938 AAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCA
1 AAA-A-G--G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCA
*
526997 ATGTGCTGATTCAAGGCCAGCTACATTGGACTT
61 ATATGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
527030 AAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCA
1 AAA-A-G--G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCA
*
527089 ATGTGCTGATTCAAGGCCAGCTACATTGGACTT
61 ATATGCTGATTCAAGGCCAGCTACATTGGACTT
* ** *
527122 AAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGAGATATTGGACTT----A--AAGGTGCCA
1 AAA-A-G--G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCA
*
527181 ATGTGCTGATTCAAGGCCAGCTACATTGGACTT
61 ATATGCTGATTCAAGGCCAGCTACATTGGACTT
* * * *
527214 AAAGATAAAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCA
1 ----A-AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCA
*
527279 ATATGCTGATTCAAGGCCAGCTATATTGGACTT
61 ATATGCTGATTCAAGGCCAGCTACATTGGACTT
* * * *
527312 AATGGTGAAGGTGCCAATGTGCTAAATCAAGG-CAGCTACATTGGTCTTAAAGATAAAGGTGCCA
1 AA-----AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCA
*
527376 ATATGCTGATTCAAGGCCAGCTATATTGGACTT
61 ATATGCTGATTCAAGGCCAGCTACATTGGACTT
527409 AAA
1 AAA
527412 GATGAAGGTG
Statistics
Matches: 1327, Mismatches: 46, Indels: 77
0.92 0.03 0.05
Matches are distributed among these distances:
92 885 0.67
93 3 0.00
94 4 0.00
95 2 0.00
96 43 0.03
97 208 0.16
98 133 0.10
99 4 0.00
100 42 0.03
101 3 0.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (93 bp):
AAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATG
CTGATTCAAGGCCAGCTACATTGGACTT
Found at i:526436 original size:184 final size:185
Alignment explanation
Indices: 525907--527788 Score: 1776
Period size: 184 Copynumber: 10.0 Consensus size: 185
525897 AGATGATGAA
* * * *
525907 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGTCGAT
1 AAAGGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAAT
* *
525972 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCA
63 ATGCTGATTCAAGGCCAGCTACATTGGACTTAAA----AGGTACCAATGTGCTGATTCAAGGCCA
* *
526037 GCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT
124 GCTACATTGGACTTAAAGATGAA-GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
526100 AAAGATGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGCCAA
1 AAAG--GA--TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAA
* *
526164 TGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTACCAATGTGCTGAGTCAAGGC
62 TATGCTGATTCAAGGCCAGCTACATTGGACTT--A-A--AAGGTACCAATGTGCTGATTCAAGGC
* *
526229 CAGCTACATTGGACTTAAAGATGATGATGCCAATATGCTGATTCAAGGCCAG-TGATATTGGACT
122 CAGCTACATTGGACTTAAAGATGAAG-TGCCAATATGCTGATTCAAGGCCAGCT-ACATTGGACT
526293 T
185 T
*
526294 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATG
1 AAAGGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATG
* *
526358 CTGATTCAAGGCCAGCGATATTGGACTT-AAAGGTACCAATGTGCTGATTCAAGGCCAGCTACAT
66 CTGATTCAAGGCCAGCTACATTGGACTTAAAAGGTACCAATGTGCTGATTCAAGGCCAGCTACAT
* * *
526422 TGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAAGCCAGCAATATTGGACTT
131 TGGACTTAAAGATGAAG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
*
526478 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATG
1 AAAGGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATG
* * *
526542 CTGATTCAAGGCCAGCGATATTGGACTT-AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACAT
66 CTGATTCAAGGCCAGCTACATTGGACTTAAAAGGTACCAATGTGCTGATTCAAGGCCAGCTACAT
* *
526606 TGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
131 TGGACTTAAAGATGAAG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
*
526662 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTG
1 AAAGGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATG
* * *
526726 CTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATATGCTGATTCAAGGCCAG-
66 CTGATTCAAGGCCAGCTACATTGGACTTAAA-A-G--G-TACCAATGTGCTGATTCAAGGCCAGC
* *
526790 TGATATTGGACTT-AA-A-G--GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
126 T-ACATTGGACTTAAAGATGAAGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
526846 AAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCA
1 -AA-A-G--GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCA
* * *
526905 ATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGG
61 ATATGCTGATTCAAGGCCAGCTACATTGGACTTAAA-A-G--G-TACCAATGTGCTGATTCAAGG
* * *
526970 CCAGCGATATTGGACTT-AA-A-G--GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
121 CCAGCTACATTGGACTTAAAGATGAAGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
527030 AAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCA
1 -AA-A-G--GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCA
* * *
527089 ATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGG
61 ATATGCTGATTCAAGGCCAGCTACATTGGACTTAAA-A-G--G-TACCAATGTGCTGATTCAAGG
** * *
527154 CCAGAGATATTGGACTT-AA-A-G--GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
121 CCAGCTACATTGGACTTAAAGATGAAGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
527214 AAAGATAAAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCA
1 AAAG-----GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCA
* * * *
527279 ATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTAAATCAAGG
61 ATATGCTGATTCAAGGCCAGCTACATTGGACTTAA-----AAGGTACCAATGTGCTGATTCAAGG
* * *
527344 -CAGCTACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT
121 CCAGCTACATTGGACTTAAAGATGAA-GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACT
527408 T
185 T
*** * * * * *** ** *
527409 AAA-GATG--AA-G-G-TGAGAAAAGTG--A--TAAAGATGCCAATATGTTGATTCACG-GCC-A
1 AAAGGATGCCAATGTGCTGATTCAAG-GCCAGCTACA-TTG-GACT-TAAAGATGAAGGTGCCAA
* * * * **
527462 -ACGAT-ATT---GG---GCTTAAAGATGAGA---AAAAGGATGTCAATGTGCTGATTCAAGGCC
62 TATGCTGATTCAAGGCCAGC-TACA-TTG-GACTTAAAAGG-TACCAATGTGCTGATTCAAGGCC
* *
527516 AGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC
123 AGCTACATTGGACTTAAAGAT-G--AA-GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC
527581 TT
184 TT
*
527583 AAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTG
1 AAA-G-G-A--TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTG
* * * *
527648 CCAATATGCTGATTCAAGGCCAGTTATATTGGACTTAAAGGTGGAAAAGGTGCCAATATGCTGAT
58 CCAATATGCTGATTCAAGGCCAGCTACATTGGAC-T-----T--AAAAGGTACCAATGTGCTGAT
* * *
527713 TCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATAT
115 TCAAGGCCAGCTACATTGGACTTAAAGATGAA-GTGCCAATATGCTGATTCAAGGCCAGCTACAT
527778 TGGACTT
179 TGGACTT
527785 AAAG
1 AAAG
527789 ATGATGATGA
Statistics
Matches: 1492, Mismatches: 99, Indels: 188
0.84 0.06 0.11
Matches are distributed among these distances:
169 4 0.00
170 18 0.01
171 20 0.01
174 49 0.03
175 3 0.00
176 2 0.00
177 5 0.00
178 1 0.00
180 5 0.00
181 7 0.00
182 6 0.00
183 9 0.01
184 757 0.51
185 18 0.01
186 7 0.00
187 7 0.00
188 7 0.00
189 69 0.05
190 169 0.11
191 5 0.00
192 4 0.00
193 44 0.03
194 85 0.06
195 48 0.03
196 4 0.00
197 45 0.03
198 2 0.00
201 1 0.00
202 45 0.03
205 40 0.03
206 6 0.00
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (185 bp):
AAAGGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATG
CTGATTCAAGGCCAGCTACATTGGACTTAAAAGGTACCAATGTGCTGATTCAAGGCCAGCTACAT
TGGACTTAAAGATGAAGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
Found at i:527567 original size:52 final size:52
Alignment explanation
Indices: 527433--527791 Score: 505
Period size: 52 Copynumber: 7.0 Consensus size: 52
527423 GAAAAGTGAT
* * * * * *
527433 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG-G-A
* * * *
527487 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
*
527540 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* * *
527590 -AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* *
527641 AAAGGTGCCAATATGCTGATTCAAGGCCAGTTATATTGGACTTAAAGGTGGA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
527693 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
527742 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
527792 ATGATGAGGA
Statistics
Matches: 274, Mismatches: 26, Indels: 14
0.87 0.08 0.04
Matches are distributed among these distances:
49 93 0.34
50 1 0.00
51 1 0.00
52 132 0.48
53 6 0.02
54 5 0.02
55 36 0.13
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
Found at i:527634 original size:101 final size:102
Alignment explanation
Indices: 527433--527788 Score: 504
Period size: 101 Copynumber: 3.5 Consensus size: 102
527423 GAAAAGTGAT
* * * * * * * *
527433 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG--GTG--AAAGG-TGCCA
*
527498 ATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
61 ATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
527540 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTG-AAGGTGCCAATGTG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAAGGTGCCAATGTG
*
527604 CTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGA
66 CTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
* *
527641 AAAGGTGCCAATATGCTGATTCAAGGCCAGTTATATTGGACTTAAAGGTGGAAAAGGTGCCAATA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGT-G-AAAGGTGCCAATG
*
527706 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT---
64 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
527742 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
527789 ATGATGATGA
Statistics
Matches: 231, Mismatches: 15, Indels: 12
0.90 0.06 0.05
Matches are distributed among these distances:
101 138 0.60
102 5 0.02
104 45 0.19
105 2 0.01
107 41 0.18
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (102 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAAGGTGCCAATGTG
CTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
Found at i:528163 original size:49 final size:49
Alignment explanation
Indices: 528046--528329 Score: 370
Period size: 49 Copynumber: 5.7 Consensus size: 49
528036 AAAAAATTGT
* *
528046 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * *
528098 CGATATGCTGATTCAAGGCTAGCTATATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
528147 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * * *
528196 CAATATGCTTATTCAAGGCCCGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
528245 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
528294 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTA
528330 CAAGGGTTGC
Statistics
Matches: 199, Mismatches: 33, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
49 162 0.81
51 1 0.01
52 36 0.18
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:528240 original size:98 final size:98
Alignment explanation
Indices: 528046--528329 Score: 451
Period size: 98 Copynumber: 2.9 Consensus size: 98
528036 AAAAAATTGT
* * *
528046 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGATATGCTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT--AAAA-GTGCCAATATGCTGATT
*
528111 CAAGGCTAGCTATATTGGACTTAAAGATGAAGGTGC
63 CAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
*
528147 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTTATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGATTCAA
* * *
528212 GGCCCGCTATATTGGACTTAATGGTGAAGGTGC
66 GGCCAGCTATATTGGACTTAAAGATGAAGGTGC
*
528245 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGATTCAA
*
528310 GGCCAGCTATATTGGGCTTA
66 GGCCAGCTATATTGGACTTA
528330 CAAGGGTTGC
Statistics
Matches: 171, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
98 128 0.75
99 4 0.02
101 39 0.23
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (98 bp):
CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGATTCAA
GGCCAGCTATATTGGACTTAAAGATGAAGGTGC
Found at i:528373 original size:33 final size:34
Alignment explanation
Indices: 528334--528398 Score: 123
Period size: 33 Copynumber: 1.9 Consensus size: 34
528324 GGCTTACAAG
528334 GGTTGCCACCGACTTGTGTGGGCTTT-GGAAGAA
1 GGTTGCCACCGACTTGTGTGGGCTTTAGGAAGAA
528367 GGTTGCCACCGACTTGTGTGGGCTTTAGGAAG
1 GGTTGCCACCGACTTGTGTGGGCTTTAGGAAG
528399 GGAGAAAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 26 0.84
34 5 0.16
ACGTcount: A:0.17, C:0.18, G:0.37, T:0.28
Consensus pattern (34 bp):
GGTTGCCACCGACTTGTGTGGGCTTTAGGAAGAA
Found at i:528696 original size:202 final size:197
Alignment explanation
Indices: 528383--529479 Score: 1391
Period size: 202 Copynumber: 5.6 Consensus size: 197
528373 CACCGACTTG
* * * *
528383 TGTGGGCTTT-AGGAAGGGAGAAAGA-TGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTG
1 TGTGGGCTTTGA-AAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAA--GAAAAAG-GTG
528445 CCACGGAGTTGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGAGTGCCAC
62 CCACGGAGTTGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGAGTGCCAC
*
528510 GGAGTCGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGG
127 GGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA-AG----AGG
528575 TGCCACGGAGT
187 TGCCACGGAGT
528586 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCAC
1 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCAC
528651 GGAGTTGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGAGTGCCACGGAG
66 GGAGTTGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGAGTGCCACGGAG
528716 TCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCC
131 TCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA-AG----AGGTGCC
528781 ACGGAGT
191 ACGGAGT
528788 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCAC
1 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCAC
*
528853 GGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGAGTGCCACGGAG
66 GGAGTTGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGAGTGCCACGGAG
*
528918 TCGTGGGCTTTG-AAA-AGAAGAAG-GTGCCACGGAGTTGTGGGCTTT-AAAGA-GTGCCACGGA
131 TCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAGGTGCCACGGA
528978 GT
196 GT
* * *
528980 CGTGGGCTTTGAAAAGGGAAAAAGAGTACCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCA
1 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAA-AGAAAAAGGTGCCA
* * *
529045 CGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGG
65 CGGAGTTGTGGGCTTT-AAAA-AGAAGAAG-GTGCCACGGAGTTGTGGGCTTT-AAAG----A-G
* *
529110 TGCCACGGAGTTGTGGGCTTT-AAAA-AGAAGAAG-GTGCCACGGAGTTGTGGGCTTT-AAAGA-
121 TGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAG
529170 GTGCCACGGAGT
186 GTGCCACGGAGT
* *
529182 CGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGC-TTAAACG-----GGTGCCAC
1 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCAC
* * * * * *
529241 GGAGTTGTGGAC-TTAAAGATGAAAAAGGTGCCACAGAATTGTGGGCTTTAAAAGGGTGCCACGG
66 GGAGTTGTGGGCTTTAAA-AAGAAGAAGGTGCCACGGAGTTGTGGGCTTT-AAAGAGTGCCACGG
* * *
529305 AGTTGTGGAC-TT--AAAGATGAAAAA-AGTGCCACGGAATTGTGGGCTTTAAAAG-GGTGCCAC
129 AGTCGTGGGCTTTGAAAAGA-GAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAGGTGCCAC
*
529365 AGAGT
193 GGAGT
* * * *
529370 TGTGGAC-TT--AAAGATGAAAAA-AGTGCCACGGAATTGTGGGCTTTAAAAG-----GGTGCCA
1 TGTGGGCTTTGAAAAG-GGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCA
* * *
529426 CGGAGTTGTGGAC-TTAAAAGGAACAAGGTGCCACGGAGTTGTGGGCTTTAAAGA
65 CGGAGTTGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGA
529480 AAAAATGCCA
Statistics
Matches: 835, Mismatches: 37, Indels: 63
0.89 0.04 0.07
Matches are distributed among these distances:
184 4 0.00
185 52 0.06
186 40 0.05
187 46 0.06
188 20 0.02
192 85 0.10
193 41 0.05
194 6 0.01
195 25 0.03
196 21 0.03
197 6 0.01
198 2 0.00
199 22 0.03
200 8 0.01
201 9 0.01
202 397 0.48
203 28 0.03
204 17 0.02
205 6 0.01
ACGTcount: A:0.31, C:0.13, G:0.35, T:0.21
Consensus pattern (197 bp):
TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCAC
GGAGTTGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGAGTGCCACGGAG
TCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAGGTGCCACGGA
GT
Found at i:528914 original size:27 final size:27
Alignment explanation
Indices: 528880--528989 Score: 139
Period size: 27 Copynumber: 3.8 Consensus size: 27
528870 AAAGAAGAAG
*
528880 GTGCCACGGAGTTGTGGGCTTTAAAGA
1 GTGCCACGGAGTCGTGGGCTTTAAAGA
528907 GTGCCACGGAGTCGTGGGCTTTGAAAAGAAGAA
1 GTGCCACGGAGTCGTGGGCTTT----A-AAG-A
*
528940 GGTGCCACGGAGTTGTGGGCTTTAAAGA
1 -GTGCCACGGAGTCGTGGGCTTTAAAGA
528968 GTGCCACGGAGTCGTGGGCTTT
1 GTGCCACGGAGTCGTGGGCTTT
528990 GAAAAGGGAA
Statistics
Matches: 73, Mismatches: 3, Indels: 14
0.81 0.03 0.16
Matches are distributed among these distances:
27 42 0.58
28 1 0.01
29 3 0.04
30 1 0.01
31 1 0.01
32 3 0.04
33 1 0.01
34 21 0.29
ACGTcount: A:0.22, C:0.16, G:0.38, T:0.24
Consensus pattern (27 bp):
GTGCCACGGAGTCGTGGGCTTTAAAGA
Found at i:528942 original size:263 final size:259
Alignment explanation
Indices: 528437--529479 Score: 1364
Period size: 263 Copynumber: 4.0 Consensus size: 259
528427 TAAAAGGGAA
* *
528437 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAA-AGAAGAAGGTGCCACGGAGTTGTGGGCTTT-AA
1 AAAGAGTGCCACGGAGTCGTGGGCTTTAAAAGAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAA
* *
528500 AGA-GTGCCACGGAGTCGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
66 AGAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAA
*
528564 ACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGG
131 A-AGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA-GGAAAAAG-GTGCCACGGAGTTGTGGG
* *
528629 CTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAAGAAGAAGGTGCCACGGAGTTGT
193 CTTTAAAAG----A-GTGCCACGGAGTCGTGGGCTTTGAAAAGGAAGAAGGTGCCACGGAGTTGT
528693 GGGCTTT
253 GGGCTTT
528700 AAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTA
1 AAAGAGTGCCACGGAGTCGTGGGCTTT-AAAAGAGAAAAAG-GTGCCACGGAGTTGTGGGCTTTA
528765 AACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGG
64 AA-AG----AGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGG
*
528830 GCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA-GAAGAAGGTGCCACGGAGTTG
124 GCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAGGTGCCACGGAGTTG
528894 TGGGCTTT-AAAGAGTGCCACGGAGTCGTGGGCTTTGAAAA-GAAGAAGGTGCCACGGAGTTGTG
189 TGGGCTTTAAAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGGAAGAAGGTGCCACGGAGTTGTG
528957 GGCTTT
254 GGCTTT
* *
528963 AAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGGGAAAAAGAGTACCACGGAGTTGTGGGCTTTA
1 AAAGAGTGCCACGGAGTCGTGGGCTTT-AAAAGAGAAAAAG-GTGCCACGGAGTTGTGGGCTTTA
529028 AACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGG
64 AA-AG----AGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGG
* *
529093 GCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAAGAAGAAGGTGCCACGGAGTTG
124 GCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAGGTGCCACGGAGTTG
* *
529157 TGGGCTTT-AAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTG
189 TGGGCTTTAAAAGAGTGCCACGGAGTCGTGGGCTTTGAAAA-GGAAGAAG-GTGCCACGGAGTTG
529221 TGGGC-TT
252 TGGGCTTT
* * * * *
529228 AAACGGGTGCCACGGAGTTGTGGAC-TT-AAAGATGAAAAAGGTGCCACAGAATTGTGGGCTTTA
1 AAA-GAGTGCCACGGAGTCGTGGGCTTTAAAAGA-GAAAAAGGTGCCACGGAGTTGTGGGCTTTA
* * * *
529291 AAAG-GGTGCCACGGAGTTGTGGAC-TT--AAAGATGAAAAA-AGTGCCACGGAATTGTGGGCTT
64 AAAGAGGTGCCACGGAGTTGTGGGCTTTGAAAAG-GGAAAAAGAGTGCCACAGAGTTGTGGGCTT
* * * * *
529351 TAAAAG-----GGTGCCACAGAGTTGTGGAC-TT-AAAGATGAAAAAAGTGCCACGGAATTGTGG
128 TAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAA-AGGAAAAAGGTGCCACGGAGTTGTGG
* * * *
529409 GCTTTAAAAGGGTGCCACGGAGTTGTGGAC-TT-AAAAGGAACAAGGTGCCACGGAGTTGTGGGC
192 GCTTTAAAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGGAAGAAGGTGCCACGGAGTTGTGGGC
529472 TTT
257 TTT
529475 AAAGA
1 AAAGA
529480 AAAAATGCCA
Statistics
Matches: 725, Mismatches: 34, Indels: 59
0.89 0.04 0.07
Matches are distributed among these distances:
246 19 0.03
247 12 0.02
248 9 0.01
249 47 0.06
250 21 0.03
254 30 0.04
255 6 0.01
256 2 0.00
257 19 0.03
262 6 0.01
263 329 0.45
264 16 0.02
265 20 0.03
266 58 0.08
267 2 0.00
268 6 0.01
269 21 0.03
270 6 0.01
272 36 0.05
273 60 0.08
ACGTcount: A:0.31, C:0.13, G:0.35, T:0.21
Consensus pattern (259 bp):
AAAGAGTGCCACGGAGTCGTGGGCTTTAAAAGAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAA
AGAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAA
AAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTT
TAAAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGGAAGAAGGTGCCACGGAGTTGTGGGCTTT
Found at i:529301 original size:62 final size:61
Alignment explanation
Indices: 529033--529477 Score: 525
Period size: 62 Copynumber: 7.0 Consensus size: 61
529023 CTTTAAACAG
* * *
529033 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT-AAAA-GGAAAAAG-GTGCCACGGAGTTGTGGGCTTT
* * *
529098 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGTGGGCT
1 AAAAG-----GGTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCT
529163 TT
60 TT
* * * *
529165 -AAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGC-TT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT-AAAA-GGAAAAAG-GTGCCACGGAGTTGTGGGCTTT
* * * *
529228 AAACGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAGGTGCCACAGAATTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAA-AGGAAAAAGGTGCCACGGAGTTGTGGGCTTT
* * *
529290 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAA-AGGAAAAAGGTGCCACGGAGTTGTGGGCTTT
* * * *
529352 AAAAGGGTGCCACAGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAA-AGGAAAAAGGTGCCACGGAGTTGTGGGCTTT
*
529414 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTT
529475 AAA
1 AAA
529478 GAAAAAATGC
Statistics
Matches: 345, Mismatches: 24, Indels: 26
0.87 0.06 0.07
Matches are distributed among these distances:
61 69 0.20
62 165 0.48
63 11 0.03
64 38 0.11
65 4 0.01
66 4 0.01
67 21 0.06
68 6 0.02
69 4 0.01
70 23 0.07
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (61 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTT
Found at i:529302 original size:28 final size:28
Alignment explanation
Indices: 529262--529446 Score: 138
Period size: 28 Copynumber: 6.2 Consensus size: 28
529252 CTTAAAGATG
* * *
529262 AAAAAGGTGCCACAGAATTGTGGGCTTT
1 AAAAGGGTGCCACGGAATTGTGGACTTT
*
529290 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGAT
1 AAAAGGGTGCCACGGAATTGTGGACTT-----T
** *
529323 GAAAAAAGTGCCACGGAATTGTGGGCTTT
1 -AAAAGGGTGCCACGGAATTGTGGACTTT
* *
529352 AAAAGGGTGCCACAGAGTTGTGGACTTAAAGAT
1 AAAAGGGTGCCACGGAATTGTGGACTT-----T
** *
529385 GAAAAAAGTGCCACGGAATTGTGGGCTTT
1 -AAAAGGGTGCCACGGAATTGTGGACTTT
*
529414 AAAAGGGTGCCACGGAGTTGTGGAC-TT
1 AAAAGGGTGCCACGGAATTGTGGACTTT
529441 AAAAGG
1 AAAAGG
529447 AACAAGGTGC
Statistics
Matches: 123, Mismatches: 22, Indels: 25
0.72 0.13 0.15
Matches are distributed among these distances:
27 8 0.07
28 66 0.54
29 2 0.02
33 2 0.02
34 45 0.37
ACGTcount: A:0.33, C:0.13, G:0.32, T:0.22
Consensus pattern (28 bp):
AAAAGGGTGCCACGGAATTGTGGACTTT
Found at i:529561 original size:62 final size:63
Alignment explanation
Indices: 529466--529629 Score: 205
Period size: 62 Copynumber: 2.7 Consensus size: 63
529456 CCACGGAGTT
* **
529466 GTGGGCTTTAAAGA-AAAAATGCCACTGAGTCGTGGACTTTGAGACA-A-AATGCCACTAAGTC
1 GTGGACTTTAAAGAGAAGGATGCCACTGAGTCGTGGACTTTGAG-CAGAGAATGCCACTAAGTC
* * *
529527 GTGGACTTTAAAGAGAAGGATGCCACTGCGTCGTGGACTTTGAGCAGAGATTGCCACTGAGTC
1 GTGGACTTTAAAGAGAAGGATGCCACTGAGTCGTGGACTTTGAGCAGAGAATGCCACTAAGTC
529590 GTGGACTTT---GAGAAGAGATTGCCACTGAGTCGTGGACTTT
1 GTGGACTTTAAAGAGAAG-GA-TGCCACTGAGTCGTGGACTTT
529630 TTTTTTTTTT
Statistics
Matches: 91, Mismatches: 7, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
60 6 0.07
61 17 0.19
62 47 0.52
63 21 0.23
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (63 bp):
GTGGACTTTAAAGAGAAGGATGCCACTGAGTCGTGGACTTTGAGCAGAGAATGCCACTAAGTC
Found at i:529585 original size:31 final size:31
Alignment explanation
Indices: 529485--529629 Score: 181
Period size: 31 Copynumber: 4.7 Consensus size: 31
529475 AAAGAAAAAA
*
529485 TGCCACTGAGTCGTGGACTTTGAGACA-A-AA
1 TGCCACTGAGTCGTGGACTTTGAG-CAGAGAT
* *
529515 TGCCACTAAGTCGTGGACTTTAAAG-AGAAGGA-
1 TGCCACTGAGTCGTGGACTTT-GAGCAG-A-GAT
*
529547 TGCCACTGCGTCGTGGACTTTGAGCAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGCAGAGAT
*
529578 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGCAGAGAT
529609 TGCCACTGAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTT
529630 TTTTTTTTTT
Statistics
Matches: 101, Mismatches: 7, Indels: 13
0.83 0.06 0.11
Matches are distributed among these distances:
29 1 0.01
30 22 0.22
31 56 0.55
32 21 0.21
33 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.26
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAGCAGAGAT
Found at i:532011 original size:15 final size:14
Alignment explanation
Indices: 531991--532034 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
531981 TTTTTCAACT
531991 GGAAAAGAGAAAGAA
1 GGAAAAGA-AAAGAA
*
532006 GGAAAAGAAAAAAAA
1 GGAAAAG-AAAAGAA
*
532021 GAAAAAGAAAAGAA
1 GGAAAAGAAAAGAA
532035 ATGAGAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 6 0.24
15 18 0.72
16 1 0.04
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (14 bp):
GGAAAAGAAAAGAA
Found at i:533095 original size:27 final size:28
Alignment explanation
Indices: 533036--533095 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
533026 TTAATTTCAA
* *
533036 ATTTAATTTAATTTAAATTTATGTGATT
1 ATTTAATTTAATTTAAATTTATGTAAAT
533064 A-TTAATTTAA-TTAAATATT-TGTAAAT
1 ATTTAATTTAATTTAAAT-TTATGTAAAT
533090 ATTTAA
1 ATTTAA
533096 AATCTCTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
26 12 0.43
27 15 0.54
28 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (28 bp):
ATTTAATTTAATTTAAATTTATGTAAAT
Found at i:535350 original size:23 final size:24
Alignment explanation
Indices: 535310--535369 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
535300 AAAAATTGAC
* *
535310 TATTAAATATATTAATTTAA-AAGAG
1 TATTAGATAAATT-ATTTAATAA-AG
*
535335 TATT-GATAAATTATTTAATAAAT
1 TATTAGATAAATTATTTAATAAAG
535358 TATTAGATAAAT
1 TATTAGATAAAT
535370 AATGTAATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 11 0.37
24 15 0.50
25 4 0.13
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (24 bp):
TATTAGATAAATTATTTAATAAAG
Found at i:535543 original size:620 final size:620
Alignment explanation
Indices: 533877--535748 Score: 3311
Period size: 629 Copynumber: 3.0 Consensus size: 620
533867 AAATAAAAAA
*
533877 TTCTCCGCACCTAACCCAATATTGATTATGGTTCAGTTTGGATAGGCAGT-GAGATTAGTATTAG
1 TTCTCCCCACCTAACCCAATATTGATTATGGTTCAGTTTGGATA---AGTAGAGATTAGTATTAG
* * *
533941 TAGGATTAAAAA-AATAGTAGACATTAAATTAATTATTATAGTAATAAGATTACAATCGATAGTG
63 TAGGATTAAAAACAATGGTAGACATTAAATTAATTATTGTAGTAATGAGATTACAATCGATAGTG
534005 AAATATATATTTGAATGTAAAAAAATAATAACGGTAGAGTAAAAATAAAAATTGACTATTAAATA
128 AAATATATATTTGAATGTAAAAAAATAATAACGGTAGAGTAAAAATAAAAATTGACTATTAAATA
*
534070 TATTAATTTAAAAGAGTATTGATACGTTATTTGATAAATTATTAGATAAATTATGTAATTAATCT
193 TATTAATTTAAAAGAGTATTGATACATTATTTGATAAATTATTAGATAAATTATGTAATTAATCT
534135 TTATACTAAAAGGAAACATAAAATTTAATCTCTTTAATATAATTCATATAAATTAAGTCCTCTTA
258 TTATACTAAAAGGAAACATAAAATTTAATCTCTTTAATATAATTCATATAAATTAAGTCCTCTTA
534200 CTATATTGATTTGACCATCTCGATCCAATTCATAACTCTTGTTAAATTGCTTTTGGTAGCTTTTA
323 CTATATTGATTTGACCATCTCGATCCAATTCATAACTCTTGTTAAATTGCTTTTGGTAGCTTTTA
534265 TATTTTGTGTGGTATCTTTGTTGGGTCAAACAAGAAAAAAGAAATATTGAGATGAAAAATTTTAA
388 TATTTTGTGTGGTATCTTTGTTGGGTCAAACAAGAAAAAAGAAATATTGAGATGAAAAATTTTAA
*
534330 ACTATATGGCTATTATTGTTGCATAAAATGCCAACATATCATTTTTTTGTCTATTTTATTGATTA
453 GCTATATGGCTATTATTGTTGCATAAAATGCCAACATATCATTTTTTTGTCTATTTTATTGATTA
* *
534395 ACAAAAATCGAATTATTAAAGGTAATAACTAAAATAAAAAAAAAAATCGTCCATTGGAATCAAAA
518 ACAAAAATCGAATTATTAAAGGCAATAAC-----TAAAAAAAAAAATCATCCATTGGAATCAAAA
534460 TCCCTAAAATTTCTAACCCTAATCGATATCTTAGCTAACAAAC
578 TCCCTAAAATTTCTAACCCTAATCGATATCTTAGCTAACAAAC
* *
534503 CTCTCCCCACCTAACCCAATATTGATTATGGTTCAGTTTGGATAGGTAGTGAGATTAGTATTAGT
1 TTCTCCCCACCTAACCCAATATTGATTATGGTTCAGTTTGGATAAGTA--GAGATTAGTATTAGT
*
534568 AGGATTAAAAACAATGGTAGATATTAAATTAATTATTGTAGTAATGAGATTACAATCGATAGTGA
64 AGGATTAAAAACAATGGTAGACATTAAATTAATTATTGTAGTAATGAGATTACAATCGATAGTG-
534633 AATATATATATTTGAATGTAAAAAAATAATAACGGTAGAGTAAAAATAAAAATTGACTATTAAAT
128 AA-ATATATATTTGAATGTAAAAAAATAATAACGGTAGAGTAAAAATAAAAATTGACTATTAAAT
* * *
534698 ATATAAATTTAAAAGAGTATTGATACCTTATTTGATAAATTATTAGATAAATTCTGTAATTAATC
192 ATATTAATTTAAAAGAGTATTGATACATTATTTGATAAATTATTAGATAAATTATGTAATTAATC
534763 TTTATACTAAAAGGAAACATAAAATTTAATCTCTTTAATATAATTCATATAAATTAAGTCCTCTT
257 TTTATACTAAAAGGAAACATAAAATTTAATCTCTTTAATATAATTCATATAAATTAAGTCCTCTT
534828 ACTATATTGATTTGACCATCTCGATCCAATTCATAACTCTTGTTAAATTGCTTTTGGTAGCTTTT
322 ACTATATTGATTTGACCATCTCGATCCAATTCATAACTCTTGTTAAATTGCTTTTGGTAGCTTTT
*
534893 ATATTTTGTGTGGTATCTTTATTGGGTCAAACAAGAAAAAAGAAATATTGAGATGAAAAATTTTA
387 ATATTTTGTGTGGTATCTTTGTTGGGTCAAACAAGAAAAAAGAAATATTGAGATGAAAAATTTTA
*
534958 AGCTATATGGCTATTATTGTTGCATAATATGCCAACATATCATTTTTTTGTCTATTTTATTGATT
452 AGCTATATGGCTATTATTGTTGCATAAAATGCCAACATATCATTTTTTTGTCTATTTTATTGATT
535023 AACAAAAATCGAATTATTAAAGGCAATAACTAAAAAAAAAAATCATCCATTGGAATCAAAATCCC
517 AACAAAAATCGAATTATTAAAGGCAATAACTAAAAAAAAAAATCATCCATTGGAATCAAAATCCC
* *
535088 CAAAATTTCTAACCCTAATCGATATCTTAGCTAACGAAC
582 TAAAATTTCTAACCCTAATCGATATCTTAGCTAACAAAC
535127 TTCTCCCCACCTAACCCAATATTGATTATGGTTCAGTTTGGATAAGTAGAGATTAGTATTAGTAG
1 TTCTCCCCACCTAACCCAATATTGATTATGGTTCAGTTTGGATAAGTAGAGATTAGTATTAGTAG
535192 GATTAAAAACAATGGTAGACATTAAATTAATTATTGTAGTAATGAGATTACAATCGATAGTGAAA
66 GATTAAAAACAATGGTAGACATTAAATTAATTATTGTAGTAATGAGATTACAATCGATAGTGAAA
* * *
535257 TATATATTTGAATGTAAAAAAGA-AATAATGATAGAGTAAATATAAAAATTGACTATTAAATATA
131 TATATATTTGAATGTAAAAAA-ATAATAACGGTAGAGTAAAAATAAAAATTGACTATTAAATATA
* * *
535321 TTAATTTAAAAGAGTATTGATAAATTATTTAATAAATTATTAGATAAATAATGTAATTAATCTTT
195 TTAATTTAAAAGAGTATTGATACATTATTTGATAAATTATTAGATAAATTATGTAATTAATCTTT
*
535386 ACACTAAAAGGAAACATAAAATTTAATCTCTTTAATATAATTCATATAAATTAAGTCCTCTTACT
260 ATACTAAAAGGAAACATAAAATTTAATCTCTTTAATATAATTCATATAAATTAAGTCCTCTTACT
*
535451 ATATTGATTTGACCATCTCGATCCAATTCATAACTCTTGTTAAATTGCTTTCGGTAGCTTTTATA
325 ATATTGATTTGACCATCTCGATCCAATTCATAACTCTTGTTAAATTGCTTTTGGTAGCTTTTATA
*
535516 TTTTGTGTGGTATCTTTGTTAGGTCAAACAAGAAAAAAGAAATATTGAGATG-AAAATTTTAAGC
390 TTTTGTGTGGTATCTTTGTTGGGTCAAACAAGAAAAAAGAAATATTGAGATGAAAAATTTTAAGC
*
535580 TATATGGCTATTATTGTTGCATAAAATGCCAACATATCATTTTTTTGTTTATTTTATTGATTAAC
455 TATATGGCTATTATTGTTGCATAAAATGCCAACATATCATTTTTTTGTCTATTTTATTGATTAAC
*
535645 AAAAATCGAATTATTAAAGGCAATAACTAAAATAAAAAAAATTCATCCATTGGAATTAAAATCCC
520 AAAAATCGAATTATTAAAGGCAATAACT-AAA-AAAAAAAA-TCATCCATTGGAATCAAAATCCC
535710 TAAAATTTCTAACCCTAATCGATATCTTAGCTAACAAAC
582 TAAAATTTCTAACCCTAATCGATATCTTAGCTAACAAAC
535749 CTCAAATTTT
Statistics
Matches: 1198, Mismatches: 38, Indels: 24
0.95 0.03 0.02
Matches are distributed among these distances:
619 103 0.09
620 300 0.25
621 11 0.01
622 137 0.11
623 2 0.00
624 117 0.10
626 68 0.06
627 48 0.04
628 2 0.00
629 410 0.34
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (620 bp):
TTCTCCCCACCTAACCCAATATTGATTATGGTTCAGTTTGGATAAGTAGAGATTAGTATTAGTAG
GATTAAAAACAATGGTAGACATTAAATTAATTATTGTAGTAATGAGATTACAATCGATAGTGAAA
TATATATTTGAATGTAAAAAAATAATAACGGTAGAGTAAAAATAAAAATTGACTATTAAATATAT
TAATTTAAAAGAGTATTGATACATTATTTGATAAATTATTAGATAAATTATGTAATTAATCTTTA
TACTAAAAGGAAACATAAAATTTAATCTCTTTAATATAATTCATATAAATTAAGTCCTCTTACTA
TATTGATTTGACCATCTCGATCCAATTCATAACTCTTGTTAAATTGCTTTTGGTAGCTTTTATAT
TTTGTGTGGTATCTTTGTTGGGTCAAACAAGAAAAAAGAAATATTGAGATGAAAAATTTTAAGCT
ATATGGCTATTATTGTTGCATAAAATGCCAACATATCATTTTTTTGTCTATTTTATTGATTAACA
AAAATCGAATTATTAAAGGCAATAACTAAAAAAAAAAATCATCCATTGGAATCAAAATCCCTAAA
ATTTCTAACCCTAATCGATATCTTAGCTAACAAAC
Found at i:536632 original size:6 final size:6
Alignment explanation
Indices: 536621--536649 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
536611 CCAACCTTAA
536621 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
536650 GCACCTGTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:537344 original size:22 final size:25
Alignment explanation
Indices: 537305--537351 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
537295 AGATAAGAAC
*
537305 CTCACAATCTCTTCAAGA-ATTGTA
1 CTCAAAATCTCTTCAAGAGATTGTA
537329 CTCAAAAT-TCTT-AAGAGATTGTA
1 CTCAAAATCTCTTCAAGAGATTGTA
537352 ACGCAAGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 10 0.48
24 7 0.33
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (25 bp):
CTCAAAATCTCTTCAAGAGATTGTA
Found at i:537806 original size:33 final size:33
Alignment explanation
Indices: 537764--537828 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
537754 TTGGGCATAA
537764 TGTATCGATACAAT-T-CTTCATGTATCGATACAT
1 TGTATCGATACAATGTAC--CATGTATCGATACAT
*
537797 TGTATCGATATAATGTACCATGTATCGATACA
1 TGTATCGATACAATGTACCATGTATCGATACA
537829 AATAGTAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (33 bp):
TGTATCGATACAATGTACCATGTATCGATACAT
Found at i:537883 original size:20 final size:20
Alignment explanation
Indices: 537858--537912 Score: 94
Period size: 19 Copynumber: 2.8 Consensus size: 20
537848 CTGCTAGTTT
537858 TATGTATCGATACAATTGAG
1 TATGTATCGATACAATTGAG
537878 TATGTATCGATACAA-TGAG
1 TATGTATCGATACAATTGAG
*
537897 CATGTATCGATACAAT
1 TATGTATCGATACAAT
537913 GTATCGATAC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (20 bp):
TATGTATCGATACAATTGAG
Found at i:537916 original size:13 final size:13
Alignment explanation
Indices: 537898--537924 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
537888 TACAATGAGC
537898 ATGTATCGATACA
1 ATGTATCGATACA
537911 ATGTATCGATACA
1 ATGTATCGATACA
537924 A
1 A
537925 AGCATAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:538755 original size:8 final size:7
Alignment explanation
Indices: 538717--538756 Score: 53
Period size: 8 Copynumber: 5.3 Consensus size: 7
538707 ATTAATTAAA
538717 AAATAAT
1 AAATAAT
538724 AAATAAT
1 AAATAAT
538731 AAATAAAT
1 AAAT-AAT
538739 AAATGAAT
1 AAAT-AAT
538747 AATATAAT
1 AA-ATAAT
538755 AA
1 AA
538757 CAAAATAGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
7 11 0.37
8 17 0.57
9 2 0.07
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (7 bp):
AAATAAT
Found at i:539416 original size:23 final size:23
Alignment explanation
Indices: 539382--539429 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
539372 GCAAAGAATA
*
539382 AAAAAGAGAATGGACAGCAGCTC
1 AAAAAGACAATGGACAGCAGCTC
*
539405 AAAAAGACAATGGACAGTAGCTC
1 AAAAAGACAATGGACAGCAGCTC
539428 AA
1 AA
539430 GAGACCAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.50, C:0.17, G:0.23, T:0.10
Consensus pattern (23 bp):
AAAAAGACAATGGACAGCAGCTC
Found at i:539958 original size:19 final size:19
Alignment explanation
Indices: 539917--539971 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
539907 ACCAGCACAA
* * * *
539917 TCCAGTAGCAAAGTAAAAT
1 TCCAGCAGCAAAGCAACAC
539936 TCCAGCAGCAAAGCAACAC
1 TCCAGCAGCAAAGCAACAC
*
539955 TCCAACAGCAAA-CAACA
1 TCCAGCAGCAAAGCAACA
539972 ACAGCAAAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
18 5 0.16
19 26 0.84
ACGTcount: A:0.47, C:0.29, G:0.13, T:0.11
Consensus pattern (19 bp):
TCCAGCAGCAAAGCAACAC
Found at i:542448 original size:17 final size:17
Alignment explanation
Indices: 542423--542457 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
542413 TTTTCTTTTT
*
542423 TTGCAAATTTAGTTATA
1 TTGCAAATTTACTTATA
*
542440 TTGCTAATTTACTTATA
1 TTGCAAATTTACTTATA
542457 T
1 T
542458 GTTTCTTAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.51
Consensus pattern (17 bp):
TTGCAAATTTACTTATA
Found at i:545333 original size:13 final size:13
Alignment explanation
Indices: 545315--545340 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
545305 TACACAAAGT
545315 ATGTATCGATACA
1 ATGTATCGATACA
545328 ATGTATCGATACA
1 ATGTATCGATACA
545341 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:545359 original size:34 final size:32
Alignment explanation
Indices: 545297--545361 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
545287 TAGCCAAACT
**
545297 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAATGTATCGATACAA
545329 TGTATCGATACACAAAAAAATTGTATCGATACA
1 TGTATCGATACAC-AAAAAA-TGTATCGATACA
545362 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 13 0.45
33 4 0.14
34 12 0.41
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACAAAAAATGTATCGATACAA
Found at i:547595 original size:21 final size:21
Alignment explanation
Indices: 547562--547611 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
547552 TTGCAAGTTG
*
547562 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
547584 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
547605 AAATAAA
1 AAATAAA
547612 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:549691 original size:13 final size:13
Alignment explanation
Indices: 549661--549697 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
549651 ACTATTTATG
549661 ATGTATC-A-ACA
1 ATGTATCGATACA
*
549672 CTGTATCGATACA
1 ATGTATCGATACA
549685 ATGTATCGATACA
1 ATGTATCGATACA
549698 TGAATAATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 6 0.27
12 1 0.05
13 15 0.68
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:549862 original size:53 final size:53
Alignment explanation
Indices: 549798--549934 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
549788 CTACTACCAA
549798 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
549851 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
549904 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
549935 TATGCAATCT
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 67 0.84
54 13 0.16
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:549970 original size:21 final size:20
Alignment explanation
Indices: 549922--549976 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
549912 TACATATTTG
**
549922 TGTGTATCGATACTATGCAA
1 TGTGTATCGATACTATAAAA
* *
549942 TCTGTATCGATACATTTAAAA
1 TGTGTATCGATAC-TATAAAA
549963 TGTGTATCGATACT
1 TGTGTATCGATACT
549977 TTTCAGGGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (20 bp):
TGTGTATCGATACTATAAAA
Found at i:550041 original size:21 final size:21
Alignment explanation
Indices: 550015--550055 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
550005 GTCAACCTTG
550015 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
550036 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
550056 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:552917 original size:13 final size:13
Alignment explanation
Indices: 552899--552932 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
552889 TTTCTTTGTG
552899 TCGATACAATGTA
1 TCGATACAATGTA
*
552912 TCGATACATTGTA
1 TCGATACAATGTA
*
552925 ACGATACA
1 TCGATACA
552933 GGGAGATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (13 bp):
TCGATACAATGTA
Found at i:554593 original size:23 final size:21
Alignment explanation
Indices: 554551--554593 Score: 50
Period size: 23 Copynumber: 2.0 Consensus size: 21
554541 GTTTAATGTT
**
554551 TTTGCTTGACTTTGTGTTTTA
1 TTTGCTTGACTTTGAATTTTA
554572 TTTGCATTGTACTTTGAATTTT
1 TTTGC-TTG-ACTTTGAATTTT
554594 TAATCTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.28
22 3 0.17
23 10 0.56
ACGTcount: A:0.14, C:0.09, G:0.16, T:0.60
Consensus pattern (21 bp):
TTTGCTTGACTTTGAATTTTA
Found at i:555516 original size:13 final size:13
Alignment explanation
Indices: 555498--555523 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
555488 TACACAAAGT
555498 ATGTATCGATACA
1 ATGTATCGATACA
555511 ATGTATCGATACA
1 ATGTATCGATACA
555524 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:555542 original size:34 final size:32
Alignment explanation
Indices: 555480--555544 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
555470 TAGCCAAACT
**
555480 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAATGTATCGATACAA
555512 TGTATCGATACACAAAAAAATTGTATCGATACA
1 TGTATCGATACAC-AAAAAA-TGTATCGATACA
555545 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 13 0.45
33 4 0.14
34 12 0.41
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACAAAAAATGTATCGATACAA
Found at i:562955 original size:8 final size:8
Alignment explanation
Indices: 562942--562977 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
562932 ATTATGCATT
562942 AAAAAAGA
1 AAAAAAGA
*
562950 AAAAAATTA
1 AAAAAA-GA
562959 AAAAAAGA
1 AAAAAAGA
562967 AAAAAAGA
1 AAAAAAGA
562975 AAA
1 AAA
562978 GAAAAAATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
8 18 0.72
9 7 0.28
ACGTcount: A:0.86, C:0.00, G:0.08, T:0.06
Consensus pattern (8 bp):
AAAAAAGA
Found at i:564518 original size:44 final size:43
Alignment explanation
Indices: 564415--564571 Score: 172
Period size: 44 Copynumber: 3.6 Consensus size: 43
564405 CATTTCAACC
*
564415 TGACGTATGGTTACCACCCTAATCAGATTTTTCTCATTCTGATT
1 TGACGTATGGTTACCACCCTAGTCAGATTTTTCTCATTCT-ATT
* * * *
564459 TGATGTGTGGCTACCACCCTAGTTAGATTTTTCTCATTCTAATT
1 TGACGTATGGTTACCACCCTAGTCAGATTTTTCTCATTCT-ATT
* * * * * *
564503 TGACATCTGGTTACCACCTTGGTCAAATCCTTTT-TCTTTCTATT
1 TGACGTATGGTTACCACCCTAGTCAGAT--TTTTCTCATTCTATT
564547 TGACGTATGGTTACCACCCTAGTCA
1 TGACGTATGGTTACCACCCTAGTCA
564572 AACCATTCTA
Statistics
Matches: 92, Mismatches: 19, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
44 82 0.89
45 6 0.07
46 4 0.04
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.41
Consensus pattern (43 bp):
TGACGTATGGTTACCACCCTAGTCAGATTTTTCTCATTCTATT
Found at i:564747 original size:42 final size:42
Alignment explanation
Indices: 564698--565592 Score: 388
Period size: 42 Copynumber: 21.4 Consensus size: 42
564688 TCTACCTATT
* *
564698 GGCTTTGACCTTGGAGACTGCATCACTTCAAGTCTACCTGTC
1 GGCTTTGACCTTGGAGACTGCCTCACTTCAAGTCTGCCTGTC
* * * * ** *
564740 AGCTTTGACCCTAGAGATTTTCTTACCTTC-AGTCTG-CT-T-
1 GGCTTTGACCTTGGAGACTGCCTCA-CTTCAAGTCTGCCTGTC
* *
564779 GGCTTTGACCTTGGAGACTGCCTCA-TCTCAAGTCTGCCTATT
1 GGCTTTGACCTTGGAGACTGCCTCACT-TCAAGTCTGCCTGTC
* * * ** * ***
564821 GGTTTTGACCCTAGAGACTTTCTTACCTTC-AGTCTATTTGTC
1 GGCTTTGACCTTGGAGACTGCCTCA-CTTCAAGTCTGCCTGTC
* * * *
564863 GGCTTTGACCCTGGAGACTGCATTA-TCTCAAGTCTGCCTATC
1 GGCTTTGACCTTGGAGACTGCCTCACT-TCAAGTCTGCCTGTC
* * * * *
564905 GACTTTGACCCTAGAGACTTCCT-ACCTTC-AGTCTACCTGTC
1 GGCTTTGACCTTGGAGACTGCCTCA-CTTCAAGTCTGCCTGTC
* * * *
564946 GGCTTTAACCTTGGAGACTGCCTTAACCTCAAGTCTGCCTGTT
1 GGCTTTGACCTTGGAGACTGCC-TCACTTCAAGTCTGCCTGTC
* ** * *
564989 GACTTTGACC-TGGAGACTTTCTTACCTTC-AGTCTGCTTGTC
1 GGCTTTGACCTTGGAGACTGCCTCA-CTTCAAGTCTGCCTGTC
* ** * *
565030 GGCTTTGACTTTTAAGACTGCCTCAACCTCAAGTCCGCCTGTC
1 GGCTTTGACCTTGGAGACTGCCTC-ACTTCAAGTCTGCCTGTC
* * *** * *
565073 GGTTTTGACCTTAGAGACTTTTTTATCTTC-AGTCTGCTTGTC
1 GGCTTTGACCTTGGAGACTGCCTCA-CTTCAAGTCTGCCTGTC
* * * * *
565115 GACTTTGA-CTCTAGAGACTGCCTCACCTCAAGTCTGCTTATC
1 GGCTTTGACCT-TGGAGACTGCCTCACTTCAAGTCTGCCTGTC
* * * *
565157 AGCTTTGACCATGGAGACTCCCTCA-TCTCAAGTCTGCCTGTT
1 GGCTTTGACCTTGGAGACTGCCTCACT-TCAAGTCTGCCTGTC
* * ** * * *
565199 GGCTTTGACCCTGAAGACT-TTTCTACTTTC-AGTTTACTTGTC
1 GGCTTTGACCTTGGAGACTGCCTC-AC-TTCAAGTCTGCCTGTC
* * * * * * * *
565241 AGTTTTGACCCTGAAAACTGTCTCA-TCTCAAGTCT-ACT-TG
1 GGCTTTGACCTTGGAGACTGCCTCACT-TCAAGTCTGCCTGTC
* *
565281 GGCTTTGACCCTAGG-GACTTTCCT-ACCTTC-AGTCTGCCTGTC
1 GGCTTTGA-CCTTGGAGAC-TGCCTCA-CTTCAAGTCTGCCTGTC
** * *
565323 AACTTTGACCCTAGAGACTGCCTCA-TCTCAAGTCTGCCTGTC
1 GGCTTTGACCTTGGAGACTGCCTCACT-TCAAGTCTGCCTGTC
* * ** * * *
565365 GACTTTGATCTTGGAGACTTTCTTACCTTC-AGTCTGTCTATC
1 GGCTTTGACCTTGGAGACTGCCTCA-CTTCAAGTCTGCCTGTC
* * * * * *
565407 GGCTTTGACCTTGGAAACTATCTTAAC-TAAAGTTTGCCTGTC
1 GGCTTTGACCTTGGAGACT-GCCTCACTTCAAGTCTGCCTGTC
* * *
565449 GGCTTTGACCTTAGAGACTTTCCT-ACCTTCAA-TCTGCCTGTT
1 GGCTTTGACCTTGGAGAC-TGCCTCA-CTTCAAGTCTGCCTGTC
** * * *
565491 TCCTTTGACCTTGGAGACTACTTCA-TCTCAAGTCTGTCTGTC
1 GGCTTTGACCTTGGAGACTGCCTCACT-TCAAGTCTGCCTGTC
* * ** * * * * *
565533 AGCTTTGACCCTATAGACTTCCTTACCCTCAAGTCTGCTTGCC
1 GGCTTTGACCTTGGAGACTGCCTCA-CTTCAAGTCTGCCTGTC
565576 GGCTTTGACCTTGGAGA
1 GGCTTTGACCTTGGAGA
565593 TTTTTTCACC
Statistics
Matches: 624, Mismatches: 177, Indels: 103
0.69 0.20 0.11
Matches are distributed among these distances:
37 1 0.00
38 2 0.00
39 24 0.04
40 22 0.04
41 91 0.15
42 385 0.62
43 96 0.15
44 3 0.00
ACGTcount: A:0.18, C:0.28, G:0.18, T:0.36
Consensus pattern (42 bp):
GGCTTTGACCTTGGAGACTGCCTCACTTCAAGTCTGCCTGTC
Found at i:564897 original size:84 final size:84
Alignment explanation
Indices: 564698--565175 Score: 518
Period size: 84 Copynumber: 5.7 Consensus size: 84
564688 TCTACCTATT
* * * * *
564698 GGCTTTGACCTTGGAGACTGCATCACTTCAAGTCTACCTGTCAGCTTTGACCCTAGAGATTTTCT
1 GGCTTTGACCTTGGAGACTGCCTCACCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCT
*
564763 TACCTTCAGTCTGC-T-T-
66 TACCTTCAGTCTACTTGTC
* * * *
564779 GGCTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCCTATTGGTTTTGACCCTAGAGACTTTCT
1 GGCTTTGACCTTGGAGACTGCCTCACCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCT
*
564844 TACCTTCAGTCTATTTGTC
66 TACCTTCAGTCTACTTGTC
* * * * * * *
564863 GGCTTTGACCCTGGAGACTGCATTATCTCAAGTCTGCCTATCGACTTTGACCCTAGAGAC-TTCC
1 GGCTTTGACCTTGGAGACTGCCTCACCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCT
*
564927 TACCTTCAGTCTACCTGTC
66 TACCTTCAGTCTACTTGTC
* * * * *
564946 GGCTTTAACCTTGGAGACTGCCTTAACCTCAAGTCTGCCTGTTGACTTTGA-CCTGGAGACTTTC
1 GGCTTTGACCTTGGAGACTGCC-TCACCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTC
*
565010 TTACCTTCAGTCTGCTTGTC
65 TTACCTTCAGTCTACTTGTC
* ** * * * *
565030 GGCTTTGACTTTTAAGACTGCCTCAACCTCAAGTCCGCCTGTCGGTTTTGACCTTAGAGACTTTT
1 GGCTTTGACCTTGGAGACTGCCTC-ACCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTC
* *
565095 TTATCTTCAGTCTGCTTGTC
65 TTACCTTCAGTCTACTTGTC
* * * * * * *
565115 GACTTTGA-CTCTAGAGACTGCCTCACCTCAAGTCTGCTTATCAGCTTTGACCATGGAGACT
1 GGCTTTGACCT-TGGAGACTGCCTCACCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACT
565176 CCCTCATCTC
Statistics
Matches: 334, Mismatches: 55, Indels: 13
0.83 0.14 0.03
Matches are distributed among these distances:
81 68 0.20
82 1 0.00
83 49 0.15
84 169 0.51
85 47 0.14
ACGTcount: A:0.18, C:0.28, G:0.19, T:0.35
Consensus pattern (84 bp):
GGCTTTGACCTTGGAGACTGCCTCACCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCT
TACCTTCAGTCTACTTGTC
Found at i:565031 original size:167 final size:165
Alignment explanation
Indices: 564698--565038 Score: 456
Period size: 167 Copynumber: 2.1 Consensus size: 165
564688 TCTACCTATT
* * * *
564698 GGCTTTGACCTTGGAGACTGCATCACTTCAAGTCTACCTGTCAGCTTTGACCCTAGAGATTTTCT
1 GGCTTTGACCCTGGAGACTGCATCACTTCAAGTCTACCTATCAGCTTTGACCCTAGAGATCTTCC
* * * * **
564763 TACCTTCAGTCTGCTTGGCTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCCTATTGGTTTTG
66 TACCTTCAGTCTCCTTGGCTTTAACCTTGGAGACTGCCTAACCTCAAGTCTGCCTATTGACTTTG
*
564828 ACCCTAGAGACTTTCTTACCTTCAGTCTATTTGTC
131 ACCCTAGAGACTTTCTTACCTTCAGTCTACTTGTC
* *
564863 GGCTTTGACCCTGGAGACTGCATTA-TCTCAAGTCTGCCTATC-GACTTTGACCCTAGAGA-CTT
1 GGCTTTGACCCTGGAGACTGCATCACT-TCAAGTCTACCTATCAG-CTTTGACCCTAGAGATCTT
*
564925 CCTACCTTCAGTCTACCTGTCGGCTTTAACCTTGGAGACTGCCTTAACCTCAAGTCTGCCTGTTG
64 CCTACCTTCAGTCT-CCT-T-GGCTTTAACCTTGGAGACTGCC-TAACCTCAAGTCTGCCTATTG
* *
564990 ACTTTGA-CCTGGAGACTTTCTTACCTTCAGTCTGCTTGTC
125 ACTTTGACCCTAGAGACTTTCTTACCTTCAGTCTACTTGTC
565030 GGCTTTGAC
1 GGCTTTGAC
565039 TTTTAAGACT
Statistics
Matches: 154, Mismatches: 16, Indels: 10
0.86 0.09 0.06
Matches are distributed among these distances:
164 17 0.11
165 53 0.34
166 1 0.01
167 60 0.39
168 23 0.15
ACGTcount: A:0.18, C:0.28, G:0.19, T:0.35
Consensus pattern (165 bp):
GGCTTTGACCCTGGAGACTGCATCACTTCAAGTCTACCTATCAGCTTTGACCCTAGAGATCTTCC
TACCTTCAGTCTCCTTGGCTTTAACCTTGGAGACTGCCTAACCTCAAGTCTGCCTATTGACTTTG
ACCCTAGAGACTTTCTTACCTTCAGTCTACTTGTC
Found at i:565134 original size:252 final size:248
Alignment explanation
Indices: 564675--565175 Score: 621
Period size: 252 Copynumber: 2.0 Consensus size: 248
564665 CATTTGAATT
* * * *
564675 TTCCTACCATCAATCTACCTATTGGCTTTGACCTTGGAGACTGCATCACTTCAAGTCTACCTGTC
1 TTCCTACCATCAATCTACCTATCGGCTTTAACCTTGGAGACTGCATAACCTCAAGTCTACCTGTC
* * *
564740 AGCTTTGACCCTAGAGATTTTCTTACCTTCAGTCTGCTTGGCTTTGACCTTGGAGACTGCCTCAT
66 AGCTTTGACCCTAGAGACTTTCTTACCTTCAGTCTGCTTGGCTTTGACCTTGAAGACTGCCTCAC
* * * *
564805 CTCAAGTCTGCCTATTGGTTTTGACCCTAGAGACTTTCTTACCTTCAGTCTATTTGTCGGCTTTG
131 CTCAAGTCCGCCTATCGGTTTTGACCCTAGAGACTTTCTTACCTTCAGTCTACTTGTCGACTTTG
* * * *
564870 ACCCTGGAGACTGCATTATCTCAAGTCTGCCTATC-GACTTTGACCCTAGAGAC
196 ACCCTAGAGACTGCATCACCTCAAGTCTGCCTATCAG-CTTTGACCATAGAGAC
* * * * *
564923 TTCCTACCTTCAGTCTACCTGTCGGCTTTAACCTTGGAGACTGCCTTAACCTCAAGTCTGCCTGT
1 TTCCTACCATCAATCTACCTATCGGCTTTAACCTTGGAGACTG-CATAACCTCAAGTCTACCTGT
* * * *
564988 -TGACTTTGA-CCTGGAGACTTTCTTACCTTCAGTCTGCTTGTCGGCTTTGACTTTTAAGACTGC
65 CAG-CTTTGACCCTAGAGACTTTCTTACCTTCAGTCTGC-T-T-GGCTTTGACCTTGAAGACTGC
* * * * *
565051 CTCAACCTCAAGTCCGCCTGTCGGTTTTGACCTTAGAGACTTTTTTATCTTCAGTCTGCTTGTCG
126 CTC-ACCTCAAGTCCGCCTATCGGTTTTGACCCTAGAGACTTTCTTACCTTCAGTCTACTTGTCG
* * * *
565116 ACTTTGACTCTAGAGACTGCCTCACCTCAAGTCTGCTTATCAGCTTTGACCATGGAGAC
190 ACTTTGACCCTAGAGACTGCATCACCTCAAGTCTGCCTATCAGCTTTGACCATAGAGAC
565175 T
1 T
565176 CCCTCATCTC
Statistics
Matches: 213, Mismatches: 33, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
248 65 0.31
249 24 0.11
250 1 0.00
251 21 0.10
252 101 0.47
253 1 0.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (248 bp):
TTCCTACCATCAATCTACCTATCGGCTTTAACCTTGGAGACTGCATAACCTCAAGTCTACCTGTC
AGCTTTGACCCTAGAGACTTTCTTACCTTCAGTCTGCTTGGCTTTGACCTTGAAGACTGCCTCAC
CTCAAGTCCGCCTATCGGTTTTGACCCTAGAGACTTTCTTACCTTCAGTCTACTTGTCGACTTTG
ACCCTAGAGACTGCATCACCTCAAGTCTGCCTATCAGCTTTGACCATAGAGAC
Found at i:567298 original size:19 final size:19
Alignment explanation
Indices: 567271--567320 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
567261 ACCAGCACAA
* *
567271 TCCAACAGCAAAGCAGCAT
1 TCCAACAGCAAAGCAACAC
*
567290 TCCAGCAGCAAAGCAACAC
1 TCCAACAGCAAAGCAACAC
567309 TCCAACAGCAAA
1 TCCAACAGCAAA
567321 CGACAATAGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.44, C:0.34, G:0.14, T:0.08
Consensus pattern (19 bp):
TCCAACAGCAAAGCAACAC
Found at i:572429 original size:22 final size:23
Alignment explanation
Indices: 572404--572458 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 23
572394 AATTATATAT
*
572404 TAATTAATTA-AAGATTAAA-TTA
1 TAATT-ATTATAAGATAAAATTTA
572426 TAATT-TTATAAGATAAAATTTA
1 TAATTATTATAAGATAAAATTTA
572448 TAATTTATTAT
1 TAA-TTATTAT
572459 TAGCATAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
20 3 0.11
21 8 0.29
22 11 0.39
23 2 0.07
24 4 0.14
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (23 bp):
TAATTATTATAAGATAAAATTTA
Found at i:572589 original size:33 final size:31
Alignment explanation
Indices: 572540--572636 Score: 104
Period size: 33 Copynumber: 3.0 Consensus size: 31
572530 AATAATAATA
*
572540 TTTTATTATAATATAATATAATAATATATTATT
1 TTTTATTAT-A-ATAATAAAATAATATATTATT
* * *
572573 TTTTATTATTTAATAATAAAATATTATAATAAT
1 TTTTATTA--TAATAATAAAATAATATATTATT
* *
572606 TTTTATTATAATAAAAAAATAATTTATTATT
1 TTTTATTATAATAATAAAATAATATATTATT
572637 ATAATAATTT
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
31 18 0.34
33 33 0.62
34 1 0.02
35 1 0.02
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (31 bp):
TTTTATTATAATAATAAAATAATATATTATT
Found at i:572632 original size:18 final size:18
Alignment explanation
Indices: 572611--572671 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 18
572601 ATAATTTTTA
572611 TTATAATAAAAAAATAAT
1 TTATAATAAAAAAATAAT
* * * **
572629 TTATTATTATAATAATTTTT
1 TTA-TAATA-AAAAAATAAT
572649 ATTATAATAAAAAAATAAT
1 -TTATAATAAAAAAATAAT
572668 TTAT
1 TTAT
572672 TATTATAATA
Statistics
Matches: 30, Mismatches: 10, Indels: 6
0.65 0.22 0.13
Matches are distributed among these distances:
18 7 0.23
19 10 0.33
20 10 0.33
21 3 0.10
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TTATAATAAAAAAATAAT
Found at i:572637 original size:39 final size:39
Alignment explanation
Indices: 572594--572686 Score: 186
Period size: 39 Copynumber: 2.4 Consensus size: 39
572584 AATAATAAAA
572594 TATTATAATAATTTTTATTATAATAAAAAAATAATTTAT
1 TATTATAATAATTTTTATTATAATAAAAAAATAATTTAT
572633 TATTATAATAATTTTTATTATAATAAAAAAATAATTTAT
1 TATTATAATAATTTTTATTATAATAAAAAAATAATTTAT
572672 TATTATAATAATTTT
1 TATTATAATAATTTT
572687 ACATTATATT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (39 bp):
TATTATAATAATTTTTATTATAATAAAAAAATAATTTAT
Found at i:572652 original size:15 final size:16
Alignment explanation
Indices: 572574--572658 Score: 66
Period size: 15 Copynumber: 6.0 Consensus size: 16
572564 TATATTATTT
572574 TTTATTATT-TAATAA
1 TTTATTATTATAATAA
** *
572589 TAAAATATTATAATAA
1 TTTATTATTATAATAA
572605 TTT-TTATTATAATAA
1 TTTATTATTATAATAA
572620 ---A--A--A-AATAA
1 TTTATTATTATAATAA
572628 TTTATTATTATAATAA
1 TTTATTATTATAATAA
572644 TTT-TTATTATAATAA
1 TTTATTATTATAATAA
572659 AAAAATAATT
Statistics
Matches: 54, Mismatches: 6, Indels: 20
0.68 0.08 0.25
Matches are distributed among these distances:
8 5 0.09
9 1 0.02
11 2 0.04
13 1 0.02
15 30 0.56
16 15 0.28
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTATTATTATAATAA
Found at i:573204 original size:34 final size:30
Alignment explanation
Indices: 573160--573314 Score: 97
Period size: 29 Copynumber: 5.2 Consensus size: 30
573150 AGACGTCTCA
*
573160 TTTATTATAAATATTTTTGATACATATAAATATT
1 TTTAATATAAATATTTTT--TA-ATATAAATA-T
*
573194 TTTAATATAAATA-CTTTTAATATAAATAT
1 TTTAATATAAATATTTTTTAATATAAATAT
* * * *
573223 TTTAATATAGATA--TTTTGATTTAAGTATT
1 TTTAATATAAATATTTTTTAATATAAATA-T
* * *
573252 TTTAATATAGATA--CTTTGATATAAATAT
1 TTTAATATAAATATTTTTTAATATAAATAT
* * * *
573280 TTTGACATAAATACTTTTTGATA-ATAATAT
1 TTTAATATAAATATTTTTTAATATA-AATAT
573310 TTTAA
1 TTTAA
573315 CTGACATAGT
Statistics
Matches: 103, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
28 22 0.21
29 39 0.38
30 25 0.24
31 2 0.02
33 3 0.03
34 12 0.12
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.50
Consensus pattern (30 bp):
TTTAATATAAATATTTTTTAATATAAATAT
Found at i:573227 original size:14 final size:15
Alignment explanation
Indices: 573183--573297 Score: 112
Period size: 14 Copynumber: 7.9 Consensus size: 15
573173 TTTTTGATAC
*
573183 ATATAAATATTTTTA
1 ATATAAATACTTTTA
573198 ATATAAATACTTTTA
1 ATATAAATACTTTTA
573213 ATATAAATA-TTTTA
1 ATATAAATACTTTTA
* *
573227 ATATAGATA-TTTTG
1 ATATAAATACTTTTA
* * *
573241 ATTTAAGTATTTTTA
1 ATATAAATACTTTTA
* *
573256 ATATAGATAC-TTTG
1 ATATAAATACTTTTA
*
573270 ATATAAATA-TTTTG
1 ATATAAATACTTTTA
*
573284 ACATAAATACTTTT
1 ATATAAATACTTTT
573298 TGATAATAAT
Statistics
Matches: 83, Mismatches: 14, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
14 46 0.55
15 37 0.45
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (15 bp):
ATATAAATACTTTTA
Found at i:573254 original size:29 final size:29
Alignment explanation
Indices: 573183--573282 Score: 139
Period size: 29 Copynumber: 3.4 Consensus size: 29
573173 TTTTTGATAC
* *
573183 ATATAAATATTTTTAATATAAATACTTTTA
1 ATATAAATATTTTTAATATAGATA-TTTTG
573213 ATATAAATA-TTTTAATATAGATATTTTG
1 ATATAAATATTTTTAATATAGATATTTTG
* * *
573241 ATTTAAGTATTTTTAATATAGATACTTTG
1 ATATAAATATTTTTAATATAGATATTTTG
573270 ATATAAATATTTT
1 ATATAAATATTTT
573283 GACATAAATA
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
28 11 0.18
29 42 0.68
30 9 0.15
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (29 bp):
ATATAAATATTTTTAATATAGATATTTTG
Found at i:573312 original size:14 final size:13
Alignment explanation
Indices: 573183--573312 Score: 71
Period size: 14 Copynumber: 8.9 Consensus size: 13
573173 TTTTTGATAC
*
573183 ATATAAATATTTTTA
1 ATAT-AATA-TTTTG
*
573198 ATATAAATACTTTTA
1 ATAT-AATA-TTTTG
*
573213 ATATAAATATTTTA
1 ATAT-AATATTTTG
573227 ATATAGATATTTTG
1 ATATA-ATATTTTG
* *
573241 ATTTAAGTATTTTTA
1 ATATAA-TA-TTTTG
*
573256 ATATAGATACTTTG
1 ATATA-ATATTTTG
573270 ATATAAATATTTTG
1 ATAT-AATATTTTG
*
573284 ACATAAATACTTTTTG
1 ATAT-AATA--TTTTG
573300 ATAATAATATTTT
1 AT-ATAATATTTT
573313 AACTGACATA
Statistics
Matches: 97, Mismatches: 10, Indels: 17
0.78 0.08 0.14
Matches are distributed among these distances:
13 2 0.02
14 48 0.49
15 34 0.35
16 11 0.11
17 2 0.02
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (13 bp):
ATATAATATTTTG
Found at i:574038 original size:18 final size:18
Alignment explanation
Indices: 573994--574046 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
573984 TTTTTGTTTC
573994 TTTTATATTATTT-T-TTAA
1 TTTTATA-TATTTATATT-A
574012 TTTTATATATTTAATATTA
1 TTTTATATATTT-ATATTA
574031 TTTT-TATATTTATATT
1 TTTTATATATTTATATT
574047 CAAAATATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 10 0.31
18 14 0.44
19 6 0.19
20 2 0.06
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTATATATTTATATTA
Found at i:577178 original size:2 final size:2
Alignment explanation
Indices: 577171--577213 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
577161 ATGGTTTGAT
577171 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
577213 T
1 T
577214 TATCACTACC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:578577 original size:16 final size:16
Alignment explanation
Indices: 578556--578588 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
578546 ATTTTGTGTT
578556 AAGGATTGAAA-TATAA
1 AAGGATT-AAAGTATAA
578572 AAGGATTAAAGTATAA
1 AAGGATTAAAGTATAA
578588 A
1 A
578589 TTTCTGGGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.58, C:0.00, G:0.18, T:0.24
Consensus pattern (16 bp):
AAGGATTAAAGTATAA
Found at i:579137 original size:17 final size:18
Alignment explanation
Indices: 579117--579153 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
579107 TAGATATGCG
*
579117 AATTTGTTAAAT-ATTAA
1 AATTTATTAAATCATTAA
579134 AATTTATTAAATCATTAA
1 AATTTATTAAATCATTAA
579152 AA
1 AA
579154 AATGAATATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (18 bp):
AATTTATTAAATCATTAA
Found at i:582999 original size:20 final size:20
Alignment explanation
Indices: 582959--582999 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
582949 TGTTAGAAAA
*
582959 TTTAGACCATAAGTGGATGG
1 TTTAGACCATAAGAGGATGG
*
582979 TTTAGACCATAAGAGGTTGG
1 TTTAGACCATAAGAGGATGG
582999 T
1 T
583000 ACTTTAGCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.29, C:0.10, G:0.29, T:0.32
Consensus pattern (20 bp):
TTTAGACCATAAGAGGATGG
Found at i:586417 original size:24 final size:25
Alignment explanation
Indices: 586385--586432 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
586375 AGAGTACATG
586385 AAAAAATT-CAATTT-TTTTTTTTA
1 AAAAAATTCCAATTTCTTTTTTTTA
*
586408 AAAACAATTCCAGTTTCTTTTTTTT
1 AAAA-AATTCCAATTTCTTTTTTTT
586433 CCTCAAAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 4 0.19
25 5 0.24
26 8 0.38
ACGTcount: A:0.33, C:0.10, G:0.02, T:0.54
Consensus pattern (25 bp):
AAAAAATTCCAATTTCTTTTTTTTA
Found at i:588381 original size:13 final size:13
Alignment explanation
Indices: 588363--588388 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
588353 TACACACAAG
588363 ATGTATCGATACA
1 ATGTATCGATACA
588376 ATGTATCGATACA
1 ATGTATCGATACA
588389 TCCCAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:588405 original size:33 final size:32
Alignment explanation
Indices: 588345--588408 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
588335 CTTAACTGTT
*
588345 TGTATCGATACACACAAGATGTATCGATACAA
1 TGTATCGATACACACAAAATGTATCGATACAA
*
588377 TGTATCGATACATCCCAAAATGTATCGATACA
1 TGTATCGATACA-CACAAAATGTATCGATACA
588409 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (32 bp):
TGTATCGATACACACAAAATGTATCGATACAA
Found at i:594560 original size:13 final size:13
Alignment explanation
Indices: 594542--594566 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
594532 CAGCATTCTC
594542 TGTATCGATACAT
1 TGTATCGATACAT
594555 TGTATCGATACA
1 TGTATCGATACA
594567 AAGGGTTTAT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:597061 original size:19 final size:21
Alignment explanation
Indices: 597037--597090 Score: 76
Period size: 19 Copynumber: 2.7 Consensus size: 21
597027 GTATCGATAC
*
597037 AATGTATCGATACATG-ACA-
1 AATGTATCGATACATGTAAAG
*
597056 AATGTATCGATACTTGTAAAG
1 AATGTATCGATACATGTAAAG
597077 AATGTATCGATACA
1 AATGTATCGATACA
597091 GGTCATTGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 15 0.50
20 2 0.07
21 13 0.43
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.30
Consensus pattern (21 bp):
AATGTATCGATACATGTAAAG
Found at i:597168 original size:13 final size:13
Alignment explanation
Indices: 597150--597175 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
597140 TACACACAAG
597150 ATGTATCGATACA
1 ATGTATCGATACA
597163 ATGTATCGATACA
1 ATGTATCGATACA
597176 TCTCAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:597192 original size:33 final size:32
Alignment explanation
Indices: 597132--597195 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
597122 CTTAACTGTT
*
597132 TGTATCGATACACACAAGATGTATCGATACAA
1 TGTATCGATACACACAAAATGTATCGATACAA
*
597164 TGTATCGATACATCTCAAAATGTATCGATACA
1 TGTATCGATACA-CACAAAATGTATCGATACA
597196 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACACAAAATGTATCGATACAA
Found at i:601033 original size:2 final size:2
Alignment explanation
Indices: 601026--601061 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
601016 CACACTTGTG
*
601026 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
601062 CAAGAAAACT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:601911 original size:22 final size:22
Alignment explanation
Indices: 601883--601933 Score: 81
Period size: 20 Copynumber: 2.5 Consensus size: 22
601873 GTATCCTTGT
601883 TTTCCTTTTTAAAAACTTATAC
1 TTTCCTTTTTAAAAACTTATAC
601905 TTTCC--TTTAAAAACTTATAC
1 TTTCCTTTTTAAAAACTTATAC
601925 TTT-CTTTTT
1 TTTCCTTTTT
601934 CTTTTCTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 1 0.04
20 18 0.67
21 3 0.11
22 5 0.19
ACGTcount: A:0.27, C:0.18, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTCCTTTTTAAAAACTTATAC
Found at i:608181 original size:24 final size:25
Alignment explanation
Indices: 608139--608196 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
608129 TCGTTACCTA
*
608139 AATAAT-AATATTTTATTATAATAT
1 AATAATAAATAATTTATTATAATAT
* *
608163 AATAATAAATAATTT-TTATTATTT
1 AATAATAAATAATTTATTATAATAT
608187 AATAATAAAT
1 AATAATAAAT
608197 TATTATACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 23 0.77
25 7 0.23
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
AATAATAAATAATTTATTATAATAT
Found at i:608210 original size:24 final size:23
Alignment explanation
Indices: 608139--608210 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 23
608129 TCGTTACCTA
*
608139 AATAATAATATT-TTATTATAATAT
1 AATAATAA-ATTATTA-TATAATTT
* * *
608163 AATAATAAATAATTTTTATTATTT
1 AATAATAAATTA-TTATATAATTT
608187 AATAATAAATTATTATACTAATTT
1 AATAATAAATTATTATA-TAATTT
608211 TTATTATAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
23 6 0.16
24 30 0.79
25 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (23 bp):
AATAATAAATTATTATATAATTT
Found at i:608292 original size:17 final size:16
Alignment explanation
Indices: 608254--608294 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
608244 ATTATTTTAC
*
608254 GTTATATTTAAAATTA
1 GTTAAATTTAAAATTA
608270 -TTAAATTTAAAAATTA
1 GTTAAATTT-AAAATTA
608286 GTTAAATTT
1 GTTAAATTT
608295 TTTTCGTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 7 0.32
16 7 0.32
17 8 0.36
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (16 bp):
GTTAAATTTAAAATTA
Found at i:608858 original size:15 final size:14
Alignment explanation
Indices: 608790--608863 Score: 60
Period size: 15 Copynumber: 5.1 Consensus size: 14
608780 CCTTTAATAT
*
608790 AAATATTTTGACAC
1 AAATATTTTGATAC
* *
608804 AAGCATCTTTT-ATAT
1 AA--ATATTTTGATAC
*
608819 AAATATTTTTAATAC
1 AAATA-TTTTGATAC
*
608834 AAGTATTTTGATAC
1 AAATATTTTGATAC
608848 AAATATCTTTGATAC
1 AAATAT-TTTGATAC
608863 A
1 A
608864 TGTAGACATA
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
13 2 0.04
14 19 0.40
15 20 0.43
16 6 0.13
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.42
Consensus pattern (14 bp):
AAATATTTTGATAC
Found at i:610568 original size:2 final size:2
Alignment explanation
Indices: 610561--610586 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
610551 ACTAAGATGT
610561 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
610587 GTAAAAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:623897 original size:14 final size:14
Alignment explanation
Indices: 623878--623917 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
623868 ATAATTTTAT
623878 TAATAAAAAATAAA
1 TAATAAAAAATAAA
623892 TAATAAAAAGAT-AA
1 TAATAAAAA-ATAAA
623906 T--TAAAAAATAAA
1 TAATAAAAAATAAA
623918 AAATTTTATC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
11 2 0.08
12 8 0.33
14 12 0.50
15 2 0.08
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (14 bp):
TAATAAAAAATAAA
Found at i:627670 original size:52 final size:51
Alignment explanation
Indices: 627588--627695 Score: 128
Period size: 52 Copynumber: 2.1 Consensus size: 51
627578 AATACCCATT
** *
627588 ATAATACAATAATTTTTACATTAATAATAATATTTTATTATAATATAATATA
1 ATAATACAATAATTTTTACATTAATAATAATAAATTATTATAATAAAATA-A
** * *
627640 ATAATA-AATAATTTTTTTATTATTTTATAATAAATTATTATAATAAAATAA
1 ATAATACAATAATTTTTACATTA-ATAATAATAAATTATTATAATAAAATAA
627691 ATAAT
1 ATAAT
627696 TTATTATCAT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
51 20 0.42
52 28 0.58
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (51 bp):
ATAATACAATAATTTTTACATTAATAATAATAAATTATTATAATAAAATAA
Found at i:628233 original size:14 final size:14
Alignment explanation
Indices: 628216--628323 Score: 54
Period size: 14 Copynumber: 7.5 Consensus size: 14
628206 ATATATATAT
628216 ATATTTTAATACAA
1 ATATTTTAATACAA
** * *
628230 ATATTTTTGTATAG
1 ATATTTTAATACAA
* *
628244 ATATTTTTAACATAA
1 ATA-TTTTAATACAA
** *
628259 ACGTTTTGATACAA
1 ATATTTTAATACAA
* * *
628273 GTATTTTTTATATAA
1 ATA-TTTTAATACAA
*
628288 GTATTTTTAATACAA
1 ATA-TTTTAATACAA
* *
628303 ATATTTTGACACAA
1 ATATTTTAATACAA
628317 ATATTTT
1 ATATTTT
628324 TAGTGTAAGT
Statistics
Matches: 69, Mismatches: 23, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
14 37 0.54
15 32 0.46
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (14 bp):
ATATTTTAATACAA
Found at i:628280 original size:15 final size:15
Alignment explanation
Indices: 628214--628324 Score: 70
Period size: 15 Copynumber: 7.5 Consensus size: 15
628204 ATATATATAT
*
628214 ATATATTTTAATACAA
1 ATAT-TTTTGATACAA
* *
628230 ATATTTTTG-TATAG
1 ATATTTTTGATACAA
628244 ATATTTTT-A-ACATA
1 ATATTTTTGATACA-A
*
628258 A-ACGTTTTGATACAA
1 ATA-TTTTTGATACAA
* * *
628273 GTATTTTTTATATAA
1 ATATTTTTGATACAA
* *
628288 GTATTTTTAATACAA
1 ATATTTTTGATACAA
*
628303 ATA-TTTTGACACAA
1 ATATTTTTGATACAA
628317 ATATTTTT
1 ATATTTTT
628325 AGTGTAAGTA
Statistics
Matches: 73, Mismatches: 15, Indels: 15
0.71 0.15 0.15
Matches are distributed among these distances:
13 3 0.04
14 28 0.38
15 34 0.47
16 8 0.11
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.49
Consensus pattern (15 bp):
ATATTTTTGATACAA
Found at i:628333 original size:44 final size:44
Alignment explanation
Indices: 628216--628334 Score: 127
Period size: 44 Copynumber: 2.7 Consensus size: 44
628206 ATATATATAT
* *
628216 ATATTTTAATACAAATATTTTT-GTAT-AGATATTTTTAACATAA
1 ATATTTTGATACAAATATTTTTAGTATAAG-TATTTTTAACACAA
** * *
628259 ACGTTTTGATACAAGTATTTTTTA-TATAAGTATTTTTAATACAA
1 ATATTTTGATACAAATA-TTTTTAGTATAAGTATTTTTAACACAA
* *
628303 ATATTTTGACACAAATATTTTTAGTGTAAGTA
1 ATATTTTGATACAAATATTTTTAGTATAAGTA
628335 CTTCGACATA
Statistics
Matches: 61, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
43 19 0.31
44 40 0.66
45 2 0.03
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.47
Consensus pattern (44 bp):
ATATTTTGATACAAATATTTTTAGTATAAGTATTTTTAACACAA
Found at i:628382 original size:14 final size:14
Alignment explanation
Indices: 628365--628395 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
628355 TATAAATATT
628365 TTTAACACAAATAC
1 TTTAACACAAATAC
*
628379 TTTAACATAAATAC
1 TTTAACACAAATAC
628393 TTT
1 TTT
628396 TGAGCAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (14 bp):
TTTAACACAAATAC
Found at i:630091 original size:2 final size:2
Alignment explanation
Indices: 630084--630121 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
630074 TAAAATGTTT
630084 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
630122 CTAAAAAAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:630503 original size:13 final size:13
Alignment explanation
Indices: 630485--630509 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
630475 TAATGATATT
630485 GAAAATAATTAAG
1 GAAAATAATTAAG
630498 GAAAATAATTAA
1 GAAAATAATTAA
630510 AATTTTTGAG
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:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (13 bp):
GAAAATAATTAAG
Found at i:632571 original size:21 final size:19
Alignment explanation
Indices: 632529--632578 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 19
632519 TATATATTTG
632529 TAATTTTATTTTATTCTTA
1 TAATTTTATTTTATTCTTA
* *
632548 TAATATTATTTTAATTTTTTA
1 TAATTTTATTTT-A-TTCTTA
632569 TAATTTTATT
1 TAATTTTATT
632579 AATTGAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 11 0.42
20 1 0.04
21 14 0.54
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (19 bp):
TAATTTTATTTTATTCTTA
Found at i:633034 original size:16 final size:16
Alignment explanation
Indices: 633013--633043 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
633003 TAAATTTACC
633013 TTACTTTTGATAAATT
1 TTACTTTTGATAAATT
*
633029 TTACTTTTGTTAAAT
1 TTACTTTTGATAAAT
633044 AAATTTATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.58
Consensus pattern (16 bp):
TTACTTTTGATAAATT
Found at i:633239 original size:27 final size:28
Alignment explanation
Indices: 633200--633259 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
633190 GCAAATACAA
* *
633200 ATTTAGTTAAT-AAATATTAATTAATTAT
1 ATTTAGTTAATAAAATATAAAATAA-TAT
*
633228 ATTTA-TTTATAAAATATAAAATAATAT
1 ATTTAGTTAATAAAATATAAAATAATAT
633255 ATTTA
1 ATTTA
633260 AAAATTCATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 12 0.43
28 16 0.57
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (28 bp):
ATTTAGTTAATAAAATATAAAATAATAT
Found at i:633275 original size:24 final size:23
Alignment explanation
Indices: 633231--633275 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
633221 TAATTATATT
633231 TATTTATAAAATATAAAATAATA
1 TATTTATAAAATATAAAATAATA
633254 TATTTA-AAAATTCATAAAATAA
1 TATTTATAAAA-T-ATAAAATAA
633276 CAAAAAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 4 0.20
23 7 0.35
24 9 0.45
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
TATTTATAAAATATAAAATAATA
Found at i:634254 original size:25 final size:24
Alignment explanation
Indices: 634218--634265 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
634208 TTAAGTCTTT
*
634218 AAAAACTGAATATGTAAAATTAATC
1 AAAAACTAAATATGT-AAATTAATC
634243 AAAAACTAAATATGTAAATTAAT
1 AAAAACTAAATATGTAAATTAAT
634266 ATTAGGTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.29
Consensus pattern (24 bp):
AAAAACTAAATATGTAAATTAATC
Found at i:635450 original size:20 final size:20
Alignment explanation
Indices: 635425--635468 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
635415 GGGCTCAATA
* *
635425 TATCGATACATTTTACCATG
1 TATCGATACAATTCACCATG
*
635445 TATCGATACAATTCATCATG
1 TATCGATACAATTCACCATG
635465 TATC
1 TATC
635469 AAGATAAGGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.39
Consensus pattern (20 bp):
TATCGATACAATTCACCATG
Found at i:635572 original size:13 final size:13
Alignment explanation
Indices: 635554--635578 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
635544 TACCATGAAC
635554 ATGTATCGATACA
1 ATGTATCGATACA
635567 ATGTATCGATAC
1 ATGTATCGATAC
635579 TAAGTAATAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:638333 original size:49 final size:48
Alignment explanation
Indices: 638261--639165 Score: 998
Period size: 49 Copynumber: 19.5 Consensus size: 48
638251 TTCGACATAT
638261 GCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
1 GCTGGCCTTGAATCAGCATATTGGCA-CTTTATCTTTAAGTCCAATGTA
* * *
638310 GCTGGCCTTGAATCAACACATTGGCAC-----CTTTAAGTCCAATATA
1 GCTGGCCTTGAATCAGCATATTGGCACTTTATCTTTAAGTCCAATGTA
*
638353 GCTGGCCTTGAATCAGCATATTGGAACCTTTATCTTTAAGTCCAATGTA
1 GCTGGCCTTGAATCAGCATATTGGCA-CTTTATCTTTAAGTCCAATGTA
* *
638402 GCTGGCCTTGAATCAGCACATTGGCAC-----CTTTAAGTCCAATATA
1 GCTGGCCTTGAATCAGCATATTGGCACTTTATCTTTAAGTCCAATGTA
638445 GCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
1 GCTGGCCTTGAATCAGCATATTGGCA-CTTTATCTTTAAGTCCAATGTA
* *
638494 GTTGGCCTTGAATCAGCATATTGGCAC-----CTTTAAGTCCAATATA
1 GCTGGCCTTGAATCAGCATATTGGCACTTTATCTTTAAGTCCAATGTA
638537 GCTGG-CTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
1 GCTGGCCTTGAATCAGCATATTGGCA-CTTTATCTTTAAGTCCAATGTA
* *
638585 GCTGGCCTTGAATCAGCACATTGGCAC-----CTTTAAGTCCAATATA
1 GCTGGCCTTGAATCAGCATATTGGCACTTTATCTTTAAGTCCAATGTA
* *
638628 GCTGGCCTTGAATCAGCATATTGACACCTCTATCTTTAAGTCCAATGTA
1 GCTGGCCTTGAATCAGCATATTGGCA-CTTTATCTTTAAGTCCAATGTA
* *
638677 GCTGGCCTTGAATCAGCACATTGGCAC-----CTTTAAGTCCAATATA
1 GCTGGCCTTGAATCAGCATATTGGCACTTTATCTTTAAGTCCAATGTA
*
638720 GCTGTCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
1 GCTGGCCTTGAATCAGCATATTGGCA-CTTTATCTTTAAGTCCAATGTA
* *
638769 GCTGGCCTTGAATCAGCACATTGGCAC-----CTTTAAGTCCAATATA
1 GCTGGCCTTGAATCAGCATATTGGCACTTTATCTTTAAGTCCAATGTA
638812 GCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
1 GCTGGCCTTGAATCAGCATATTGGCA-CTTTATCTTTAAGTCCAATGTA
* * *
638861 GCTGGCCTTGAATAAGCACATTGGCAC-----CTTTAAGTCCAATATA
1 GCTGGCCTTGAATCAGCATATTGGCACTTTATCTTTAAGTCCAATGTA
*
638904 GCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTC
1 GCTGGCCTTGAATCAGCATATTGGCA-CTTTATCTTTAAGTCCAATGTA
* * * *
638953 GCTGGCCTTGAATTAGCACATTGGCAC-----CTTTAAGTCCAATATC
1 GCTGGCCTTGAATCAGCATATTGGCACTTTATCTTTAAGTCCAATGTA
* * * ** *
638996 GTTGGCCTTGAATCAGCATATT-GCATCTTCATCTCTAAACCCAATGTT
1 GCTGGCCTTGAATCAGCATATTGGCA-CTTTATCTTTAAGTCCAATGTA
* * * * *
639044 GTTGGCCTTGAATCAACACATCGGCA-TTCT-TCTTTAAGTCCAATGTC
1 GCTGGCCTTGAATCAGCATATTGGCACTT-TATCTTTAAGTCCAATGTA
* * * * * * *
639091 GCTGACCTTGAATCAGCACATTGACACCTTCATCCTTAAGTCCAATATC
1 GCTGGCCTTGAATCAGCATATTGGCA-CTTTATCTTTAAGTCCAATGTA
* *
639140 GTTGACCTTGAATCAGCATATTGGCA
1 GCTGGCCTTGAATCAGCATATTGGCA
639166 TTTTTAACAT
Statistics
Matches: 733, Mismatches: 69, Indels: 108
0.81 0.08 0.12
Matches are distributed among these distances:
42 23 0.03
43 290 0.40
44 6 0.01
47 36 0.05
48 58 0.08
49 320 0.44
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (48 bp):
GCTGGCCTTGAATCAGCATATTGGCACTTTATCTTTAAGTCCAATGTA
Found at i:638355 original size:43 final size:43
Alignment explanation
Indices: 638294--639120 Score: 848
Period size: 43 Copynumber: 18.1 Consensus size: 43
638284 GCACCTTTAT
*
638294 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
638337 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGAACCTTTAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG---C---AC
638386 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* *
638429 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C
* *
638473 TTTATCTTTAAGTCCAATGTAGTTGGCCTTGAATCAGCATATTGGCAC
1 -----CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* *
638521 CTTTAAGTCCAATATAGCTGG-CTTGAATCAGCATATTGGCACC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C
638564 TTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 -----CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
638612 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACACCTC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---C
638658 TATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 ---CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
638704 CTTTAAGTCCAATATAGCTGTCCTTGAATCAGCATATTGGCACC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C
638748 TTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 -----CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* *
638796 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C
*
638840 TTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATAAGCACATTGGCAC
1 -----CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* *
638888 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C
* *
638932 TTTATCTTTAAGTCCAATGTCGCTGGCCTTGAATTAGCACATTGGCAC
1 -----CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* * * *
638980 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATT-GCATC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C
** * * * *
639023 TTCATCTCTAAACCCAATGTTGTTGGCCTTGAATCAACACATCGGCATTC
1 --C-T-T-TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA--C
* * *
639073 TTCTTTAAGTCCAATGTCGCTGACCTTGAATCAGCACATTGACAC
1 --CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
639118 CTT
1 CTT
639121 CATCCTTAAG
Statistics
Matches: 675, Mismatches: 58, Indels: 102
0.81 0.07 0.12
Matches are distributed among these distances:
42 23 0.03
43 293 0.43
44 4 0.01
45 2 0.00
46 5 0.01
47 32 0.05
48 54 0.08
49 257 0.38
50 5 0.01
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (43 bp):
CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:638361 original size:22 final size:22
Alignment explanation
Indices: 638294--638361 Score: 52
Period size: 22 Copynumber: 3.1 Consensus size: 22
638284 GCACCTTTAT
*
638294 CTTTAAGTCCAATGTAGCTGGC
1 CTTTAAGTCCAATATAGCTGGC
* * * *
638316 CTTGAA-T-CAACACA-TTGGCAC
1 CTTTAAGTCCAATATAGCTGG--C
638337 CTTTAAGTCCAATATAGCTGGC
1 CTTTAAGTCCAATATAGCTGGC
638359 CTT
1 CTT
638362 GAATCAGCAT
Statistics
Matches: 32, Mismatches: 9, Indels: 10
0.63 0.18 0.20
Matches are distributed among these distances:
19 3 0.09
20 4 0.12
21 7 0.22
22 10 0.31
23 5 0.16
24 3 0.09
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (22 bp):
CTTTAAGTCCAATATAGCTGGC
Found at i:638383 original size:92 final size:92
Alignment explanation
Indices: 638257--639165 Score: 1464
Period size: 92 Copynumber: 9.9 Consensus size: 92
638247 AGGATTCGAC
638257 ATAT-GCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGA
1 ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGA
*
638321 ATCAACACATTGGCACCTTTAAGTCCA
66 ATCAGCACATTGGCACCTTTAAGTCCA
*
638348 ATATAGCTGGCCTTGAATCAGCATATTGGAACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGA
1 ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGA
638413 ATCAGCACATTGGCACCTTTAAGTCCA
66 ATCAGCACATTGGCACCTTTAAGTCCA
*
638440 ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGTTGGCCTTGA
1 ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGA
*
638505 ATCAGCATATTGGCACCTTTAAGTCCA
66 ATCAGCACATTGGCACCTTTAAGTCCA
638532 ATATAGCTGG-CTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGA
1 ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGA
638596 ATCAGCACATTGGCACCTTTAAGTCCA
66 ATCAGCACATTGGCACCTTTAAGTCCA
* *
638623 ATATAGCTGGCCTTGAATCAGCATATTGACACCTCTATCTTTAAGTCCAATGTAGCTGGCCTTGA
1 ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGA
638688 ATCAGCACATTGGCACCTTTAAGTCCA
66 ATCAGCACATTGGCACCTTTAAGTCCA
*
638715 ATATAGCTGTCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGA
1 ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGA
638780 ATCAGCACATTGGCACCTTTAAGTCCA
66 ATCAGCACATTGGCACCTTTAAGTCCA
638807 ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGA
1 ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGA
*
638872 ATAAGCACATTGGCACCTTTAAGTCCA
66 ATCAGCACATTGGCACCTTTAAGTCCA
*
638899 ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCGCTGGCCTTGA
1 ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGA
*
638964 ATTAGCACATTGGCACCTTTAAGTCCA
66 ATCAGCACATTGGCACCTTTAAGTCCA
* * * * * ** * *
638991 ATATCGTTGGCCTTGAATCAGCATATT-GCATCTTCATCTCTAAACCCAATGTTGTTGGCCTTGA
1 ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGA
* *
639055 ATCAACACATCGGCATTCTTCTTTAAGTCCA
66 ATCAGCACATTGGCA--C--CTTTAAGTCCA
* * * * * * * * * * *
639086 ATGTCGCTGACCTTGAATCAGCACATTGACACCTTCATCCTTAAGTCCAATATCGTTGACCTTGA
1 ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGA
*
639151 ATCAGCATATTGGCA
66 ATCAGCACATTGGCA
639166 TTTTTAACAT
Statistics
Matches: 767, Mismatches: 44, Indels: 9
0.94 0.05 0.01
Matches are distributed among these distances:
91 135 0.18
92 557 0.73
93 1 0.00
95 34 0.04
96 40 0.05
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (92 bp):
ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGA
ATCAGCACATTGGCACCTTTAAGTCCA
Found at i:639251 original size:148 final size:138
Alignment explanation
Indices: 638393--639261 Score: 470
Period size: 135 Copynumber: 6.2 Consensus size: 138
638383 TATCTTTAAG
* * * * *
638393 TCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAAT
1 TCCAATGTCGCTGGCCTTGAATCAGCACATTGACACCTTTAAGTCCAATATCGTTGACCTTGAAT
* * * ** * * * *
638458 CAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGTTGGCCTTGAATCAGCATATTGGCA--C
66 CAGCATATT-GCATCTTCATCTCTAAACCCAATGTCGTTGGCCTTGAATCAACACATCGGCATTC
* *
638521 --CTTTAAG
130 TTCTTCAAA
* * * * * * * *
638528 TCCAATATAGCTGG-CTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCC
1 TCCAATGTCGCTGGCCTTGAATCAGCACATT-G-A-C---ACCTTTAAGTCCAATATCGTTGACC
* ** * * * * * *
638592 TTGAATCAGCACATTGGCA-C--C-T-T-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTG
60 TTGAATCAGCATATT-GCATCTTCATCTCTAAACCCAATGTCGTTGGCCTTGAATCAACACATCG
* * * *
638651 ACACCTCTATCTTTAAG
124 GCA-TTCT-TCTTCAAA
* * * * *
638668 TCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGTCCTTGAAT
1 TCCAATGTCGCTGGCCTTGAATCAGCACATTGACACCTTTAAGTCCAATATCGTTGACCTTGAAT
* * * ** * * * *
638733 CAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA--C
66 CAGCATATT-GCATCTTCATCTCTAAACCCAATGTCGTTGGCCTTGAATCAACACATCGGCATTC
* *
638796 --CTTTAAG
130 TTCTTCAAA
* * * * * * * *
638803 TCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCC
1 TCCAATGTCGCTGGCCTTGAATCAGCACATT-G-A-C---ACCTTTAAGTCCAATATCGTTGACC
* * ** * * * * * *
638868 TTGAATAAGCACATTGGCA-C--C-T-T-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTG
60 TTGAATCAGCATATT-GCATCTTCATCTCTAAACCCAATGTCGTTGGCCTTGAATCAACACATCG
* *
638927 GCACCTT-TATCTTTAAG
124 GCA--TTCT-TCTTCAAA
* * *
638944 TCCAATGTCGCTGGCCTTGAATTAGCACATTGGCACCTTTAAGTCCAATATCGTTGGCCTTGAAT
1 TCCAATGTCGCTGGCCTTGAATCAGCACATTGACACCTTTAAGTCCAATATCGTTGACCTTGAAT
*
639009 CAGCATATTGCATCTTCATCTCTAAACCCAATGTTGTTGGCCTTGAATCAACACATCGGCATTCT
66 CAGCATATTGCATCTTCATCTCTAAACCCAATGTCGTTGGCCTTGAATCAACACATCGGCATTCT
* *
639074 TCTTTAAG
131 TCTTCAAA
*
639082 TCCAATGTCGCTGACCTTGAATCAGCACATTGACACCTTCATCCTTAAGTCCAATATCGTTGACC
1 TCCAATGTCGCTGGCCTTGAATCAGCACATTGACA-C--C-T--TTAAGTCCAATATCGTTGACC
* * *** *
639147 TTGAATCAGCATATTGGCATTTTTAACAT-TACTAAGCCCAATGTCGTTGGCCTTTTCTCAGCAC
60 TTGAATCAGCATATT-GCA-TCTT--CATCT-CTAAACCCAATGTCGTTGGCCTTGAATCAACAC
*
639211 ATTGGCATTCTTCTTCAAA
120 ATCGGCATTCTTCTTCAAA
** * *
639230 TTTAATGTCGCTGGCCATGAATCAACACATTG
1 TCCAATGTCGCTGGCCTTGAATCAGCACATTG
639262 TCATTCTTCG
Statistics
Matches: 614, Mismatches: 70, Indels: 87
0.80 0.09 0.11
Matches are distributed among these distances:
134 54 0.09
135 163 0.27
136 4 0.01
137 4 0.01
138 47 0.08
139 5 0.01
140 96 0.16
141 125 0.20
142 1 0.00
144 35 0.06
145 3 0.00
146 3 0.00
147 1 0.00
148 73 0.12
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.32
Consensus pattern (138 bp):
TCCAATGTCGCTGGCCTTGAATCAGCACATTGACACCTTTAAGTCCAATATCGTTGACCTTGAAT
CAGCATATTGCATCTTCATCTCTAAACCCAATGTCGTTGGCCTTGAATCAACACATCGGCATTCT
TCTTCAAA
Found at i:639999 original size:32 final size:32
Alignment explanation
Indices: 639963--640030 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
639953 TTCAACGATT
*
639963 TGTATTGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
639995 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
640027 TGTA
1 TGTA
640031 CAGTTACAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:640000 original size:13 final size:13
Alignment explanation
Indices: 639982--640006 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
639972 ACATAAGTGT
639982 TGTATCGATACAA
1 TGTATCGATACAA
639995 TGTATCGATACA
1 TGTATCGATACA
640007 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:640019 original size:19 final size:19
Alignment explanation
Indices: 639961--640025 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 19
639951 ATTTCAACGA
*
639961 TTTGTATTGATACATAAGT
1 TTTGTATCGATACATAAGT
*
639980 GTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
639995 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
640012 TTTGTATCGATACA
1 TTTGTATCGATACA
640026 ATGTACAGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:647568 original size:13 final size:14
Alignment explanation
Indices: 647550--647579 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
647540 CTCATGAATT
647550 AAAGGAAA-CAATC
1 AAAGGAAATCAATC
647563 AAAGGAAATCAATC
1 AAAGGAAATCAATC
647577 AAA
1 AAA
647580 ATGAACACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.63, C:0.13, G:0.13, T:0.10
Consensus pattern (14 bp):
AAAGGAAATCAATC
Found at i:649213 original size:42 final size:42
Alignment explanation
Indices: 649165--649265 Score: 107
Period size: 42 Copynumber: 2.4 Consensus size: 42
649155 AAAAGGTGGA
* *
649165 AAAGTCTCTAGGGTCAAAGCCGATAGAAAGACTTGAGGGGAGG
1 AAAGTCTCTAGGGTCAAAGCCAACAGAAAGAC-TGAGGGGAGG
* * ** *
649208 -CAGTCT-TCAGGGTCAAAGTCAACAGGCAGACTGAGGGTAGG
1 AAAGTCTCT-AGGGTCAAAGCCAACAGAAAGACTGAGGGGAGG
649249 AAAGTCTCTAGGGTCAA
1 AAAGTCTCTAGGGTCAA
649266 GCTGACAGGC
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
41 10 0.21
42 36 0.77
43 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.33, T:0.18
Consensus pattern (42 bp):
AAAGTCTCTAGGGTCAAAGCCAACAGAAAGACTGAGGGGAGG
Found at i:649340 original size:42 final size:42
Alignment explanation
Indices: 649209--649840 Score: 256
Period size: 42 Copynumber: 15.1 Consensus size: 42
649199 GAGGGGAGGC
* * * * * *
649209 AGTCTTCAGGGTCAAAGTCAACAGGCAGACTGAGGGTAGGAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAAACTAAGGGTAGGAA
* * * * * * *
649251 AGTCTCTAGGGTC-AAGCTGACAGGCAGACTTTA-GATAAGACA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAAAC-TAAGGGTAGGA-A
* * *
649293 A-TCTCCAAAGTCAAAGCCGATAGGCAAACTGAGGGTAGGAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAAACTAAGGGTAGGAA
* * * * *
649334 AGTCTCCAGGGTCAAAGCTGACAGGCAAACTTTA-GATAAGG-C
1 AGTCTCCAAGGTCAAAGCCGACAGGCAAAC-TAAGGGT-AGGAA
* * * *
649376 AGTCTCTAGGGTCAAAGCCGACAGGCACACTAAGAGTAGGAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAAACTAAGGGTAGGAA
* * * * * *
649418 AGTCTCCAAGGTCAAAGCTGACAGGTAGACTTTA-GATGAGG-C
1 AGTCTCCAAGGTCAAAGCCGACAGGCAAAC-TAAGGGT-AGGAA
* * * *
649460 AGTCTCCAAGGTCAAAGCCGACAGACAGACTAAGAGTATGAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAAACTAAGGGTAGGAA
* * * * * *
649502 AGTCTCCAAGGTCAAAGCTGATAGGCAGACTTTA-GATGAGG-C
1 AGTCTCCAAGGTCAAAGCCGACAGGCAAAC-TAAGGGT-AGGAA
* * * * *
649544 AGTCT-CTAGTATCAAAGTCGACAGGCAGACTGAGGGTAGGAA
1 AGTCTCCAAG-GTCAAAGCCGACAGGCAAACTAAGGGTAGGAA
* * * * * * * *
649586 AGTCTTCAGGGTCAAAGTCGACAGACAGACTTTA-GATGAGG-C
1 AGTCTCCAAGGTCAAAGCCGACAGGCAAAC-TAAGGGT-AGGAA
* ** * *
649628 AGTCTCCAGGGTCAAAGCCGACAGGCGGATTGAGGGTAGGAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAAACTAAGGGTAGGAA
* ** * * *
649670 AGTCTCCAGGGTCAAAGTTGACAGGTAGAATTTAA--ATA--AA
1 AGTCTCCAAGGTCAAAGCCGACAGGCA-AA-CTAAGGGTAGGAA
* * * * *
649710 GCAGTCTCCAGGGTCAAAGCAGACAGGCAGACTGAGGGTATGAA
1 --AGTCTCCAAGGTCAAAGCCGACAGGCAAACTAAGGGTAGGAA
* * * * * * *
649754 AGTCTCTAAGGTCAAAGCTGACAGGTAGACTTTA-GATGAGG-C
1 AGTCTCCAAGGTCAAAGCCGACAGGCAAAC-TAAGGGT-AGGAA
* * * *
649796 AGTCTCCAAGGTCAAAGCCAACAGGCAGACTGAGGGTAAGAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAAACTAAGGGTAGGAA
649838 AGT
1 AGT
649841 TTATTAAGGC
Statistics
Matches: 446, Mismatches: 109, Indels: 70
0.71 0.17 0.11
Matches are distributed among these distances:
40 4 0.01
41 57 0.13
42 354 0.79
43 26 0.06
44 5 0.01
ACGTcount: A:0.34, C:0.19, G:0.29, T:0.18
Consensus pattern (42 bp):
AGTCTCCAAGGTCAAAGCCGACAGGCAAACTAAGGGTAGGAA
Found at i:649393 original size:84 final size:84
Alignment explanation
Indices: 649165--649840 Score: 825
Period size: 84 Copynumber: 8.1 Consensus size: 84
649155 AAAAGGTGGA
* * * ** * ** * * *
649165 AAAGTCTCTAGGGTCAAAGCCGATAGAAAGACTTGAGGGGAGGCAGTCTTCAGGGTCAAAGTCAA
1 AAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTTTAGATGAGGCAGTCTCCAGGGTCAAAGCCGA
649230 CAGGCAGACTGAGGGTAGG
66 CAGGCAGACTGAGGGTAGG
* * * * **
649249 AAAGTCTCTAGGGTC-AAGCTGACAGGCAGACTTTAGATAAGACAATCTCCAAAGTCAAAGCCGA
1 AAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTTTAGATGAGGCAGTCTCCAGGGTCAAAGCCGA
* *
649313 TAGGCAAACTGAGGGTAGG
66 CAGGCAGACTGAGGGTAGG
* * *
649332 AAAGTCTCCAGGGTCAAAGCTGACAGGCAAACTTTAGATAAGGCAGTCTCTAGGGTCAAAGCCGA
1 AAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTTTAGATGAGGCAGTCTCCAGGGTCAAAGCCGA
* * *
649397 CAGGCACACTAAGAGTAGG
66 CAGGCAGACTGAGGGTAGG
* * *
649416 AAAGTCTCCAAGGTCAAAGCTGACAGGTAGACTTTAGATGAGGCAGTCTCCAAGGTCAAAGCCGA
1 AAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTTTAGATGAGGCAGTCTCCAGGGTCAAAGCCGA
* * * *
649481 CAGACAGACTAAGAGTATG
66 CAGGCAGACTGAGGGTAGG
* * * ** *
649500 AAAGTCTCCAAGGTCAAAGCTGATAGGCAGACTTTAGATGAGGCAGTCTCTAGTATCAAAGTCGA
1 AAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTTTAGATGAGGCAGTCTCCAGGGTCAAAGCCGA
649565 CAGGCAGACTGAGGGTAGG
66 CAGGCAGACTGAGGGTAGG
* *
649584 AAAGTCTTCAGGGTCAAAG-TCGACAGACAGACTTTAGATGAGGCAGTCTCCAGGGTCAAAGCCG
1 AAAGTCTCCAGGGTCAAAGCT-GACAGGCAGACTTTAGATGAGGCAGTCTCCAGGGTCAAAGCCG
* *
649648 ACAGGCGGATTGAGGGTAGG
65 ACAGGCAGACTGAGGGTAGG
* * * * * * *
649668 AAAGTCTCCAGGGTCAAAGTTGACAGGTAGAATTTAAATAAAGCAGTCTCCAGGGTCAAAGCAGA
1 AAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTTTAGATGAGGCAGTCTCCAGGGTCAAAGCCGA
*
649733 CAGGCAGACTGAGGGTATG
66 CAGGCAGACTGAGGGTAGG
* * * * *
649752 AAAGTCTCTAAGGTCAAAGCTGACAGGTAGACTTTAGATGAGGCAGTCTCCAAGGTCAAAGCCAA
1 AAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTTTAGATGAGGCAGTCTCCAGGGTCAAAGCCGA
*
649817 CAGGCAGACTGAGGGTAAG
66 CAGGCAGACTGAGGGTAGG
649836 AAAGT
1 AAAGT
649841 TTATTAAGGC
Statistics
Matches: 509, Mismatches: 80, Indels: 6
0.86 0.13 0.01
Matches are distributed among these distances:
83 66 0.13
84 442 0.87
85 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.29, T:0.18
Consensus pattern (84 bp):
AAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTTTAGATGAGGCAGTCTCCAGGGTCAAAGCCGA
CAGGCAGACTGAGGGTAGG
Found at i:655613 original size:13 final size:13
Alignment explanation
Indices: 655595--655619 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
655585 AGATTGCACA
655595 GTATCGATACATT
1 GTATCGATACATT
655608 GTATCGATACAT
1 GTATCGATACAT
655620 GACCAAATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:655632 original size:20 final size:21
Alignment explanation
Indices: 655607--655659 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
655597 ATCGATACAT
**
655607 TGTATCGATACATGACCA-AA
1 TGTATCGATACATGAAAAGAA
*
655627 TGTATCGATACTTGAAAAGAA
1 TGTATCGATACATGAAAAGAA
655648 TGTATCGATACA
1 TGTATCGATACA
655660 GGTCATTGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGAAAAGAA
Found at i:655716 original size:19 final size:18
Alignment explanation
Indices: 655692--655755 Score: 66
Period size: 20 Copynumber: 3.7 Consensus size: 18
655682 TAGCCAAATT
655692 TGTATCGATACACACAATA
1 TGTATCGATACACACAA-A
655711 TGTATCGAT--ACAC---
1 TGTATCGATACACACAAA
655724 TGTATCGATACACACAAAAA
1 TGTATCGATACACAC--AAA
655744 TGTATCGATACA
1 TGTATCGATACA
655756 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 9 0.24
15 4 0.11
17 4 0.11
19 9 0.24
20 12 0.32
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (18 bp):
TGTATCGATACACACAAA
Found at i:655729 original size:13 final size:13
Alignment explanation
Indices: 655711--655736 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
655701 ACACACAATA
655711 TGTATCGATACAC
1 TGTATCGATACAC
655724 TGTATCGATACAC
1 TGTATCGATACAC
655737 ACAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:655733 original size:32 final size:33
Alignment explanation
Indices: 655692--655755 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
655682 TAGCCAAATT
*
655692 TGTATCGATACACAC-AATATGTATCGATACAC
1 TGTATCGATACACACAAAAATGTATCGATACAC
655724 TGTATCGATACACACAAAAATGTATCGATACA
1 TGTATCGATACACACAAAAATGTATCGATACA
655756 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (33 bp):
TGTATCGATACACACAAAAATGTATCGATACAC
Found at i:662086 original size:39 final size:39
Alignment explanation
Indices: 662032--662106 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
662022 TCGGGGTTTT
662032 GTACCACATGGAATCTCCGTGAAACACGTCAATTTTCAC
1 GTACCACATGGAATCTCCGTGAAACACGTCAATTTTCAC
* *
662071 GTACCTCATGGAATCTCCGTGAAACACGTGAATTTT
1 GTACCACATGGAATCTCCGTGAAACACGTCAATTTT
662107 ATTACTCACT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.28
Consensus pattern (39 bp):
GTACCACATGGAATCTCCGTGAAACACGTCAATTTTCAC
Found at i:663823 original size:5 final size:5
Alignment explanation
Indices: 663815--663888 Score: 50
Period size: 5 Copynumber: 15.4 Consensus size: 5
663805 GCATGAAATC
* * * *
663815 CAATG CAATG CAATG -AAAG C-ATG GAATC CAATG CAATG CAATG --ATA
1 CAATG CAATG CAATG CAATG CAATG CAATG CAATG CAATG CAATG CAATG
*
663861 CATATG GAAT- CTAATG CAATG CAATG CA
1 CA-ATG CAATG C-AATG CAATG CAATG CA
663889 TTTGCTTTTA
Statistics
Matches: 52, Mismatches: 10, Indels: 14
0.68 0.13 0.18
Matches are distributed among these distances:
3 2 0.04
4 5 0.10
5 41 0.79
6 4 0.08
ACGTcount: A:0.42, C:0.18, G:0.19, T:0.22
Consensus pattern (5 bp):
CAATG
Found at i:663877 original size:29 final size:28
Alignment explanation
Indices: 663798--663886 Score: 126
Period size: 28 Copynumber: 3.1 Consensus size: 28
663788 GGAATTATGA
*
663798 AATGAAAGCATGAAATCCAATGCAATGC
1 AATGAAAGCATGGAATCCAATGCAATGC
663826 AATGAAAGCATGGAATCCAATGCAATGC
1 AATGAAAGCATGGAATCCAATGCAATGC
* *
663854 AATGATACA-TATGGAATCTAATGCAATGC
1 AATGA-A-AGCATGGAATCCAATGCAATGC
663883 AATG
1 AATG
663887 CATTTGCTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
28 32 0.57
29 23 0.41
30 1 0.02
ACGTcount: A:0.44, C:0.16, G:0.19, T:0.21
Consensus pattern (28 bp):
AATGAAAGCATGGAATCCAATGCAATGC
Found at i:664002 original size:19 final size:18
Alignment explanation
Indices: 663934--664015 Score: 56
Period size: 19 Copynumber: 4.2 Consensus size: 18
663924 TACTAATTCG
* *
663934 ATTTTTTAATTTTCATTTT
1 ATTTTTTAATTTTTA-ATT
*
663953 ATTTTATTATTATTTTTTAATAC
1 ATTTT-TTA--A-TTTTTAAT-T
663976 ATTTTTTAATTTTTAATT
1 ATTTTTTAATTTTTAATT
* *
663994 ATTTATTTATTTTTTTATT
1 ATTT-TTTAATTTTTAATT
664013 ATT
1 ATT
664016 CATGTTAAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
18 4 0.08
19 28 0.55
20 4 0.08
22 5 0.10
23 10 0.20
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (18 bp):
ATTTTTTAATTTTTAATT
Found at i:668161 original size:7 final size:7
Alignment explanation
Indices: 668132--668182 Score: 70
Period size: 7 Copynumber: 7.4 Consensus size: 7
668122 TAACATGAAT
668132 AATAAAA
1 AATAAAA
668139 AATTAAAA
1 AA-TAAAA
*
668147 AAT--TA
1 AATAAAA
668152 AATAAAA
1 AATAAAA
668159 AATAAAA
1 AATAAAA
668166 AATAAAA
1 AATAAAA
668173 AATAAAA
1 AATAAAA
668180 AAT
1 AAT
668183 GTATTAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
5 4 0.10
7 28 0.72
8 7 0.18
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (7 bp):
AATAAAA
Found at i:668164 original size:11 final size:11
Alignment explanation
Indices: 668129--668223 Score: 56
Period size: 11 Copynumber: 8.6 Consensus size: 11
668119 ATTTAACATG
668129 AATAATAAAA-A
1 AATAA-AAAATA
*
668140 ATTAAAAAATTA
1 AATAAAAAA-TA
668152 AATAAAAAATA
1 AATAAAAAATA
668163 AA-AAATAAA-A
1 AATAAA-AAATA
*
668173 AATAAAAAATG
1 AATAAAAAATA
* *
668184 TATTAAAAAT-
1 AATAAAAAATA
668194 AATAATAAAATTA
1 AATAA-AAAA-TA
* *
668207 AATTAAAATTA
1 AATAAAAAATA
668218 AA-AAAA
1 AATAAAA
668224 TCGAATTAGT
Statistics
Matches: 66, Mismatches: 10, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
10 19 0.29
11 30 0.45
12 13 0.20
13 4 0.06
ACGTcount: A:0.75, C:0.00, G:0.01, T:0.24
Consensus pattern (11 bp):
AATAAAAAATA
Found at i:668314 original size:29 final size:29
Alignment explanation
Indices: 668272--668380 Score: 125
Period size: 29 Copynumber: 3.9 Consensus size: 29
668262 AAAGCAAATG
668272 CATTGCATTGCATTGGATTCCATACGTGT
1 CATTGCATTGCATTGGATTCCATACGTGT
* * *
668301 CATTGCATTGCATTGGATTCCGTGC-TTT
1 CATTGCATTGCATTGGATTCCATACGTGT
* * *
668329 CATTTCATTTCA-T-AATTCCATACGTGT
1 CATTGCATTGCATTGGATTCCATACGTGT
* *
668356 TATTGCATTGCATTGGATTTCATAC
1 CATTGCATTGCATTGGATTCCATAC
668381 TTTCATTTCA
Statistics
Matches: 63, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
26 7 0.11
27 12 0.19
28 13 0.21
29 31 0.49
ACGTcount: A:0.21, C:0.20, G:0.17, T:0.42
Consensus pattern (29 bp):
CATTGCATTGCATTGGATTCCATACGTGT
Found at i:668372 original size:55 final size:55
Alignment explanation
Indices: 668288--668391 Score: 172
Period size: 55 Copynumber: 1.9 Consensus size: 55
668278 ATTGCATTGG
* *
668288 ATTCCATACGTGTCATTGCATTGCATTGGATTCCGTGCTTTCATTTCATTTCATA
1 ATTCCATACGTGTCATTGCATTGCATTGGATTCCATACTTTCATTTCATTTCATA
* *
668343 ATTCCATACGTGTTATTGCATTGCATTGGATTTCATACTTTCATTTCAT
1 ATTCCATACGTGTCATTGCATTGCATTGGATTCCATACTTTCATTTCAT
668392 AATTCCATAC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.21, C:0.20, G:0.13, T:0.45
Consensus pattern (55 bp):
ATTCCATACGTGTCATTGCATTGCATTGGATTCCATACTTTCATTTCATTTCATA
Found at i:671268 original size:13 final size:13
Alignment explanation
Indices: 671250--671274 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
671240 TGCTATGAAC
671250 ATGTATCGATACA
1 ATGTATCGATACA
671263 ATGTATCGATAC
1 ATGTATCGATAC
671275 TAAGCAATAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:678843 original size:21 final size:21
Alignment explanation
Indices: 678819--678859 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
678809 AATATATCAA
* *
678819 TATATTGCCTAAATTTATTGG
1 TATATTACCTAAATATATTGG
*
678840 TATATTACTTAAATATATTG
1 TATATTACCTAAATATATTG
678860 ATACATTAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.07, G:0.10, T:0.49
Consensus pattern (21 bp):
TATATTACCTAAATATATTGG
Done.