Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 205 of 344
Found at i:68155501 original size:14 final size:14
Alignment explanation
Indices: 68155479--68155512 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
68155469 TTAGTATATA
68155479 ATATAATTTTACTTC
1 ATAT-ATTTTACTTC
68155494 ATATATTTTACTTC
1 ATATATTTTACTTC
68155508 ATATA
1 ATATA
68155513 ATTATTATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (14 bp):
ATATATTTTACTTC
Found at i:68155660 original size:18 final size:18
Alignment explanation
Indices: 68155637--68155673 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
68155627 AAATATTATG
68155637 ATATATTAATTTGGTAAC
1 ATATATTAATTTGGTAAC
68155655 ATATATTAATTTGGTAAC
1 ATATATTAATTTGGTAAC
68155673 A
1 A
68155674 GGTAATCGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.43
Consensus pattern (18 bp):
ATATATTAATTTGGTAAC
Found at i:68158508 original size:15 final size:15
Alignment explanation
Indices: 68158485--68158516 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
68158475 AAATAATAAT
68158485 TTATATATATTTATC
1 TTATATATATTTATC
*
68158500 TTATTTATATTTATC
1 TTATATATATTTATC
68158515 TT
1 TT
68158517 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (15 bp):
TTATATATATTTATC
Found at i:68159616 original size:105 final size:105
Alignment explanation
Indices: 68159431--68159620 Score: 265
Period size: 105 Copynumber: 1.8 Consensus size: 105
68159421 CTCTATAGCC
* * * * * * *
68159431 ACTTTTGCGGTGTTTTTATAAAGGCACCGCTAATTCTTATATATTTCGGCGTTTTTATTAAAACG
1 ACTTTTGCGGCGTTTTTATAAAAGCACCGCTAATTCTGATATATTGCGGCGTTTTAAGTAAAACA
68159496 CCACTAATGCCTCTATAGCTACATCATCGTTTCTCTCAAG
66 CCACTAATGCCTCTATAGCTACATCATCGTTTCTCTCAAG
* * *
68159536 ACTTTTGCGGCGTTTTTA-AAGAAGCGCCGCTAATTCTGATATATTGCGGTGTTTTAAGTGAAAC
1 ACTTTTGCGGCGTTTTTATAA-AAGCACCGCTAATTCTGATATATTGCGGCGTTTTAAGTAAAAC
*
68159600 ACCACTAATGCTTCTATAGCT
65 ACCACTAATGCCTCTATAGCT
68159621 CATTAACATA
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
104 2 0.03
105 71 0.97
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (105 bp):
ACTTTTGCGGCGTTTTTATAAAAGCACCGCTAATTCTGATATATTGCGGCGTTTTAAGTAAAACA
CCACTAATGCCTCTATAGCTACATCATCGTTTCTCTCAAG
Found at i:68159895 original size:44 final size:45
Alignment explanation
Indices: 68159832--68160445 Score: 235
Period size: 44 Copynumber: 13.4 Consensus size: 45
68159822 TGTCTCCCTG
*
68159832 AAGTTGCAGTGGAGA-AGATTGAAGAT-GCAAATCTTATTTCCTTA
1 AAGTTGCAGTGGA-ACAGATTGAAGATAGCAAATCTTATCTCCTTA
* * *
68159876 AAGTTACAGTGGAACAGATTAAAGCTACAAGTAGCAAATCTTATCTCTCTGA
1 AAGTTGCAGTGGAACAGATTGAAG-----A-TAGCAAATCTTATCTC-CTTA
* * ** * *
68159928 AAGTTGCAGTAGAGCAGATTGAATCTA-CAAAACTTATCTCCCTA
1 AAGTTGCAGTGGAACAGATTGAAGATAGCAAATCTTATCTCCTTA
* * * *
68159972 AAGTTGCAGTGGAGCAGATTGTAGATAGCAAATATTATCT-CTCTG
1 AAGTTGCAGTGGAACAGATTGAAGATAGCAAATCTTATCTCCT-TA
* * * * * ** * * *
68160017 AAGTTGTAATAGAGCAGATTAAATCTA-CAAAACTTAACTCCCTA
1 AAGTTGCAGTGGAACAGATTGAAGATAGCAAATCTTATCTCCTTA
* * * ** * *
68160061 AAGTTGCAGTGGAGCATATTAAAGCCA-CAAATCTTATCTCCCTG
1 AAGTTGCAGTGGAACAGATTGAAGATAGCAAATCTTATCTCCTTA
* * * * * * * *
68160105 AAGTTGCAGTGGAGCATATTAAAGGTAGCGAATCTTATTTCCCTG
1 AAGTTGCAGTGGAACAGATTGAAGATAGCAAATCTTATCTCCTTA
** * * * *
68160150 AAGTTATAGTGGAATAGATTAAAGCTATAAGTTACAAATCTTATCTCCCTG
1 AAGTTGCAGTGGAACAGATTGAAG--AT-AG---CAAATCTTATCTCCTTA
* * * * * * *
68160201 AAGATGCAGTAGAGCAGATTGAAGATAGCGAATCTTATTTCCCTG
1 AAGTTGCAGTGGAACAGATTGAAGATAGCAAATCTTATCTCCTTA
* * * * * * *
68160246 AAGTTGCAATGGAACATATTAAAGCTACAAGTTACATATCCTATCTCCTTG
1 AAGTTGCAGTGGAACAGATTGAAG--A-TAG---CAAATCTTATCTCCTTA
** * * * * *
68160297 AACATGCAATGGAGCAGATT-AA-AGAG--AA-CTTATCTCCCTG
1 AAGTTGCAGTGGAACAGATTGAAGATAGCAAATCTTATCTCCTTA
*** * * * *
68160337 AAGTTGCAGTGGAGTGGGTTGAAGCTA-CAAATCTCATCTCCCTA
1 AAGTTGCAGTGGAACAGATTGAAGATAGCAAATCTTATCTCCTTA
* * * * * *
68160381 AAGTTGTAGTGGAGCAGATTAAAGATAGCAAATCTTATTTCCCTG
1 AAGTTGCAGTGGAACAGATTGAAGATAGCAAATCTTATCTCCTTA
*
68160426 AAGTTACAGTGGAACAGATT
1 AAGTTGCAGTGGAACAGATT
68160446 AAAGCTACAA
Statistics
Matches: 434, Mismatches: 105, Indels: 61
0.72 0.17 0.10
Matches are distributed among these distances:
40 24 0.06
41 3 0.01
42 1 0.00
43 3 0.01
44 147 0.34
45 142 0.33
46 4 0.01
47 3 0.01
48 6 0.01
49 3 0.01
50 3 0.01
51 73 0.17
52 22 0.05
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.29
Consensus pattern (45 bp):
AAGTTGCAGTGGAACAGATTGAAGATAGCAAATCTTATCTCCTTA
Found at i:68160059 original size:89 final size:90
Alignment explanation
Indices: 68159907--68160076 Score: 288
Period size: 89 Copynumber: 1.9 Consensus size: 90
68159897 AAGCTACAAG
* * * *
68159907 TAGCAAATCTTATCTCTCTGAAAGTTGCAGTAGAGCAGATTGAATCTACAAAACTTATCTCCCTA
1 TAGCAAATATTATCTCTCTGAAAGTTGCAATAGAGCAGATTAAATCTACAAAACTTAACTCCCTA
68159972 AAGTTGCAGTGGAGCAGATTGTAGA
66 AAGTTGCAGTGGAGCAGATTGTAGA
*
68159997 TAGCAAATATTATCTCTCTG-AAGTTGTAATAGAGCAGATTAAATCTACAAAACTTAACTCCCTA
1 TAGCAAATATTATCTCTCTGAAAGTTGCAATAGAGCAGATTAAATCTACAAAACTTAACTCCCTA
68160061 AAGTTGCAGTGGAGCA
66 AAGTTGCAGTGGAGCA
68160077 TATTAAAGCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
89 56 0.75
90 19 0.25
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (90 bp):
TAGCAAATATTATCTCTCTGAAAGTTGCAATAGAGCAGATTAAATCTACAAAACTTAACTCCCTA
AAGTTGCAGTGGAGCAGATTGTAGA
Found at i:68160216 original size:96 final size:96
Alignment explanation
Indices: 68159824--68160492 Score: 543
Period size: 96 Copynumber: 7.2 Consensus size: 96
68159814 TCTTATAGTG
* * * * *
68159824 TCTCCCTGAAGTTGCAGTGGAGAAGATTGAAGAT-GCAAATCTTATTTCCTTAAAGTTACAGTGG
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCGAATCTTATTTCCCTGAAGTTACAGTGG
68159888 AACAGATTAAAGCTACAAG-TAGCAAATCTTA
66 AACAGATTAAAGCTACAAGTTA-CAAATCTTA
* * * ** * * * * *
68159919 TCTCTCTGAAAGTTGCAGTAGAGCAGATTGAATCTA-CAAAACTTATCTCCCTAAAGTTGCAGTG
1 TCTCCCTG-AAGTTGCAGTGGAGCAGATTAAAGATAGCGAATCTTATTTCCCTGAAGTTACAGTG
* * *
68159983 GAGCAGATT---G-T---AGATAGCAAATATTA
65 GAACAGATTAAAGCTACAAGTTA-CAAATCTTA
* * * * ** * * ** * *
68160009 TCTCTCTGAAGTTGTAATAGAGCAGATTAAATCTA-CAAAACTTAACTCCCTAAAGTTGCAGTGG
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCGAATCTTATTTCCCTGAAGTTACAGTGG
* *
68160073 AGCATATTAAAGC--C-----ACAAATCTTA
66 AACAGATTAAAGCTACAAGTTACAAATCTTA
* * *
68160097 TCTCCCTGAAGTTGCAGTGGAGCATATTAAAGGTAGCGAATCTTATTTCCCTGAAGTTATAGTGG
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCGAATCTTATTTCCCTGAAGTTACAGTGG
* *
68160162 AATAGATTAAAGCTATAAGTTACAAATCTTA
66 AACAGATTAAAGCTACAAGTTACAAATCTTA
* * * * *
68160193 TCTCCCTGAAGATGCAGTAGAGCAGATTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAATGG
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCGAATCTTATTTCCCTGAAGTTACAGTGG
* * *
68160258 AACATATTAAAGCTACAAGTTACATATCCTA
66 AACAGATTAAAGCTACAAGTTACAAATCTTA
* ** * * *
68160289 TCTCCTTGAACATGCAATGGAGCAGATTAAAG--A--GAA-CTTATCTCCCTGAAGTTGCAGTGG
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCGAATCTTATTTCCCTGAAGTTACAGTGG
* * ** * *
68160349 ---AG--T--GGGTTGAAGCTACAAATCTCA
66 AACAGATTAAAGCTACAAGTTACAAATCTTA
* * *
68160373 TCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGATAGCAAATCTTATTTCCCTGAAGTTACAGTGG
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCGAATCTTATTTCCCTGAAGTTACAGTGG
68160438 AACAGATTAAAGCTACAAGTTACAAATCTTA
66 AACAGATTAAAGCTACAAGTTACAAATCTTA
* *
68160469 TCCCCCTAAAGTTGCAGTGGAGCA
1 TCTCCCTGAAGTTGCAGTGGAGCA
68160493 AATTGAGGCG
Statistics
Matches: 465, Mismatches: 81, Indels: 55
0.77 0.13 0.09
Matches are distributed among these distances:
84 39 0.08
86 2 0.00
88 39 0.08
89 116 0.25
90 19 0.04
91 22 0.05
92 7 0.02
93 1 0.00
94 2 0.00
95 7 0.02
96 211 0.45
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (96 bp):
TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCGAATCTTATTTCCCTGAAGTTACAGTGG
AACAGATTAAAGCTACAAGTTACAAATCTTA
Found at i:68160220 original size:51 final size:46
Alignment explanation
Indices: 68159824--68160492 Score: 406
Period size: 45 Copynumber: 14.5 Consensus size: 46
68159814 TCTTATAGTG
* *
68159824 TCTCCCTGAAGTTGCAGTGGAGAAGATTGAAGAT-G-CAAATCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGACAAATCTTA
* * * * * *
68159868 TTTCCTTAAAGTTACAGTGGAACAGATTAAAGCTACAAGTAGCAAATCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG--A-TAG-A-CAAATCTTA
* * * ** *
68159919 TCTCTCTGAAAGTTGCAGTAGAGCAGATT-GA-ATCTACAAAACTTA
1 TCTCCCTG-AAGTTGCAGTGGAGCAGATTAAAGATAGACAAATCTTA
* ** *
68159964 TCTCCCTAAAGTTGCAGTGGAGCAGATTGTAGATAG-CAAATATTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGACAAATCTTA
* * * * ** *
68160009 TCTCTCTGAAGTTGTAATAGAGCAGATT-AA-ATCTACAAAACTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGACAAATCTTA
* * * **
68160053 ACTCCCTAAAGTTGCAGTGGAGCATATTAAAG--CCACAAATCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGACAAATCTTA
* * *
68160097 TCTCCCTGAAGTTGCAGTGGAGCATATTAAAGGTAG-CGAATCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGACAAATCTTA
* ** **
68160142 TTTCCCTGAAGTTATAGTGGAATAGATTAAAGCTATAAGTTACAAATCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG--AT-AG--ACAAATCTTA
* * * *
68160193 TCTCCCTGAAGATGCAGTAGAGCAGATTGAAGATAG-CGAATCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGACAAATCTTA
* * * * * * *
68160238 TTTCCCTGAAGTTGCAATGGAACATATTAAAGCTACAAGTTACATATCCTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG--A-TAG--ACAAATCTTA
* ** *
68160289 TCTCCTTGAACATGCAATGGAGCAGATTAAAG--AG---AA-CTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGACAAATCTTA
** * * * *
68160329 TCTCCCTGAAGTTGCAGTGGAGTGGGTTGAAGCT--ACAAATCTCA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGACAAATCTTA
* *
68160373 TCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGATAG-CAAATCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGACAAATCTTA
* * * *
68160418 TTTCCCTGAAGTTACAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG--A-TAG--ACAAATCTTA
* *
68160469 TCCCCCTAAAGTTGCAGTGGAGCA
1 TCTCCCTGAAGTTGCAGTGGAGCA
68160493 AATTGAGGCG
Statistics
Matches: 468, Mismatches: 116, Indels: 75
0.71 0.18 0.11
Matches are distributed among these distances:
40 27 0.06
41 1 0.00
43 4 0.01
44 143 0.31
45 149 0.32
46 6 0.01
47 3 0.01
48 10 0.02
49 2 0.00
51 106 0.23
52 17 0.04
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (46 bp):
TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGACAAATCTTA
Found at i:68160417 original size:276 final size:271
Alignment explanation
Indices: 68159824--68160498 Score: 786
Period size: 276 Copynumber: 2.5 Consensus size: 271
68159814 TCTTATAGTG
* * * *
68159824 TCTCCCTGAAGTTGCAGTGGAGAAGATTGAAGAT-GCAAATCTTATTTCCTTAAAGTTACAGTGG
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCAAATCTTATTTCCCTGAAGTTACAGTGG
* *
68159888 AACAGATTAAAGCTACAAG-TAGCAAATCTTATCTCTCTGAAAGTTGCAGTAGAGCAGATTGAAT
66 AACAGATTAAAGCTACAAGTTA-CAAATCTTATCTCCCTG-AAGTTGCAGTAGAGCAGATTGAAG
* * * *
68159952 CTACAAAACTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGTAGATAGCAAATATTATCTCTCTG
129 ATACAAAACTTATCTCCCTAAAGTTGCAATGGAACAGATTGTACATAGCAAATATTATCTCTCTG
** * *
68160017 AAGTTGTAATAGAGCAGATTAAATCTACAAAACTTAACTCCCTAAAGTTGCAGTGGAGCATATTA
194 AACATGCAATAGAGCAGATTAAA--TACAAAACTTAACTCCCTAAAGTTGCAGTGGAGCAGATTA
*
68160082 AAGCCACAAATCTTA
257 AAGCCACAAATCTCA
* * * *
68160097 TCTCCCTGAAGTTGCAGTGGAGCATATTAAAGGTAGCGAATCTTATTTCCCTGAAGTTATAGTGG
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCAAATCTTATTTCCCTGAAGTTACAGTGG
* * *
68160162 AATAGATTAAAGCTATAAGTTACAAATCTTATCTCCCTGAAGATGCAGTAGAGCAGATTGAAGAT
66 AACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGAT
* * * * * * *
68160227 AGCGAATCTTATTTCCCTGAAGTTGCAATGGAACATATTAAAGCTACA-AGTTACATATCCTATC
131 A-CAAAACTTATCTCCCTAAAGTTGCAATGGAACAGATT---G-TACATAG-CAAATAT--TATC
* * * * * **
68160291 TC-CTTGAACATGCAATGGAGCAGATT-AA-AGAGAACTTATCTCCCTGAAGTTGCAGTGGAGTG
188 TCTC-TGAACATGCAATAGAGCAGATTAAATACAAAACTTAACTCCCTAAAGTTGCAGTGGAGCA
* * *
68160353 GGTTGAAGCTACAAATCTCA
252 GATTAAAGCCACAAATCTCA
* *
68160373 TCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGATAGCAAATCTTATTTCCCTGAAGTTACAGTGG
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCAAATCTTATTTCCCTGAAGTTACAGTGG
* * * *
68160438 AACAGATTAAAGCTACAAGTTACAAATCTTATCCCCCTAAAGTTGCAGTGGAGCAAATTGA
66 AACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGA
68160499 GGCGACAAGT
Statistics
Matches: 339, Mismatches: 52, Indels: 19
0.83 0.13 0.05
Matches are distributed among these distances:
273 54 0.16
274 89 0.26
275 2 0.01
276 156 0.46
277 3 0.01
278 8 0.02
279 3 0.01
280 24 0.07
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (271 bp):
TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCAAATCTTATTTCCCTGAAGTTACAGTGG
AACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGAT
ACAAAACTTATCTCCCTAAAGTTGCAATGGAACAGATTGTACATAGCAAATATTATCTCTCTGAA
CATGCAATAGAGCAGATTAAATACAAAACTTAACTCCCTAAAGTTGCAGTGGAGCAGATTAAAGC
CACAAATCTCA
Found at i:68160507 original size:51 final size:51
Alignment explanation
Indices: 68160409--68160508 Score: 119
Period size: 51 Copynumber: 2.0 Consensus size: 51
68160399 TTAAAGATAG
** * * *
68160409 CAAATCTTATTTCCCTGAAGTTACAGTGGAACAGATTAAAGCTACAAGTTA
1 CAAATCTTATCCCCCTAAAGTTACAGTGGAACAAATTAAAGCGACAAGTTA
* * * *
68160460 CAAATCTTATCCCCCTAAAGTTGCAGTGGAGCAAATTGAGGCGACAAGT
1 CAAATCTTATCCCCCTAAAGTTACAGTGGAACAAATTAAAGCGACAAGT
68160509 CCTATACCTC
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (51 bp):
CAAATCTTATCCCCCTAAAGTTACAGTGGAACAAATTAAAGCGACAAGTTA
Found at i:68170894 original size:112 final size:111
Alignment explanation
Indices: 68170681--68171012 Score: 413
Period size: 112 Copynumber: 3.0 Consensus size: 111
68170671 GTACCACTTT
*
68170681 TGTCCCCAGCACCATAATACATGCCAATGCCAATAACAACA--ATAT-ATCCACCACCTT-TGAC
1 TGTCCCCAGCACCATAATACATGCCAATGCCAACAACAACACCA-ATGATCCACCA-CTTCTGAC
*
68170742 AATTCTCACATTTTATCCGCAATCGGGCTATGCAAAACCATATGCTTC
64 AATTCTCACATTTTATCCGCAATCAGGCTATGCAAAACCATATGCTTC
* * *
68170790 TGTCCCCATCACCATAATACTTGCCAATGCCAACAACAACACCAATGCATCCAACACTTCTGACA
1 TGTCCCCAGCACCATAATACATGCCAATGCCAACAACAACACCAATG-ATCCACCACTTCTGACA
** *
68170855 ATTCTCACATTTTATTTGCAAAT-AGGTTATGCAAAACCATATGCTTC
65 ATTCTCACATTTTATCCGC-AATCAGGCTATGCAAAACCATATGCTTC
* * * * * *
68170902 TGTCCCCAGCACCATAATACATGTCAATCCCAAGAACAACACCAATGTATCCGCCACCTCTAACA
1 TGTCCCCAGCACCATAATACATGCCAATGCCAACAACAACACCAATG-ATCCACCACTTCTGACA
* * * * *
68170967 ATTCTCACATTTTATCCACAACCGGGTTATGCAACACCATATGCTT
65 ATTCTCACATTTTATCCGCAATCAGGCTATGCAAAACCATATGCTT
68171013 ATCCATTGAT
Statistics
Matches: 192, Mismatches: 24, Indels: 11
0.85 0.11 0.05
Matches are distributed among these distances:
109 38 0.20
110 2 0.01
111 6 0.03
112 143 0.74
113 3 0.02
ACGTcount: A:0.33, C:0.31, G:0.10, T:0.26
Consensus pattern (111 bp):
TGTCCCCAGCACCATAATACATGCCAATGCCAACAACAACACCAATGATCCACCACTTCTGACAA
TTCTCACATTTTATCCGCAATCAGGCTATGCAAAACCATATGCTTC
Found at i:68172300 original size:236 final size:236
Alignment explanation
Indices: 68171887--68172360 Score: 903
Period size: 236 Copynumber: 2.0 Consensus size: 236
68171877 TAGCGTGAGC
*
68171887 TCGACAGTGTGATAATATCTCCGGCGAACTCCAACCCGAGCAGGTAACCGAAGTCAACAATCTAT
1 TCGACAGTATGATAATATCTCCGGCGAACTCCAACCCGAGCAGGTAACCGAAGTCAACAATCTAT
68171952 AAAACAGAGGAATGTAACAACAGAGTAAGCTTTCATAAGCTTAGTAAGTCTTAAGCAATGCAAAC
66 AAAACAGAGGAATGTAACAACAGAGTAAGCTTTCATAAGCTTAGTAAGTCTTAAGCAATGCAAAC
*
68172017 AAATAAACGCAATTATACTTCGATTATTCAATTTCTTAGGTGGCCATATTCTAGGTATATTGCCA
131 AAATAAACGCAATTATACTTCGATTATTCAATTTCTTAAGTGGCCATATTCTAGGTATATTGCCA
*
68172082 TCTGGCCGAATACACACAAACACATAATGCAAGTTCAGCAT
196 TCTAGCCGAATACACACAAACACATAATGCAAGTTCAGCAT
68172123 TCGACAGTATGATAATATCTCCGGCGAACTCCAACCCGAGCAGGTAACCGAAGTCAACAATCTAT
1 TCGACAGTATGATAATATCTCCGGCGAACTCCAACCCGAGCAGGTAACCGAAGTCAACAATCTAT
*
68172188 AAAACAGAGGAATGTAACAACGGAGTAAGCTTTCATAAGCTTAGTAAGTCTTAAGCAATGCAAAC
66 AAAACAGAGGAATGTAACAACAGAGTAAGCTTTCATAAGCTTAGTAAGTCTTAAGCAATGCAAAC
68172253 AAATAAACGCAATTATACTTCGATTATTCAATTTCTTAAGTGGCCATATTCTAGGTATATTGCCA
131 AAATAAACGCAATTATACTTCGATTATTCAATTTCTTAAGTGGCCATATTCTAGGTATATTGCCA
*
68172318 TCTAGCCGAATACACACAAACACATAATGCACGTTCAGCAT
196 TCTAGCCGAATACACACAAACACATAATGCAAGTTCAGCAT
68172359 TC
1 TC
68172361 TTATCACACT
Statistics
Matches: 233, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
236 233 1.00
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (236 bp):
TCGACAGTATGATAATATCTCCGGCGAACTCCAACCCGAGCAGGTAACCGAAGTCAACAATCTAT
AAAACAGAGGAATGTAACAACAGAGTAAGCTTTCATAAGCTTAGTAAGTCTTAAGCAATGCAAAC
AAATAAACGCAATTATACTTCGATTATTCAATTTCTTAAGTGGCCATATTCTAGGTATATTGCCA
TCTAGCCGAATACACACAAACACATAATGCAAGTTCAGCAT
Found at i:68173125 original size:43 final size:42
Alignment explanation
Indices: 68173073--68173227 Score: 222
Period size: 43 Copynumber: 3.6 Consensus size: 42
68173063 CCGGCATTAC
68173073 GCCTGCTAGGCACGAAGGCCCGAATACACATCATCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCA-CGGCACGAA
* * *
68173116 GCCTGCTAGGCACGAA-GCCTCGAATACACATCACCAGTACGCA
1 GCCTGCTAGGCACGAAGGCC-CGAATACACATCA-CGGCACGAA
*
68173159 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCAC-GGCACGAA
*
68173202 GCCTACTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
68173228 TAATACCAGC
Statistics
Matches: 100, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
42 4 0.04
43 93 0.93
44 3 0.03
ACGTcount: A:0.30, C:0.33, G:0.24, T:0.13
Consensus pattern (42 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACGGCACGAA
Found at i:68173263 original size:38 final size:38
Alignment explanation
Indices: 68173220--68173303 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 38
68173210 GGCACGAAGG
* * *
68173220 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
68173258 CCCGAATATAATACCAGCACGAAGCTTGCGGGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
68173296 CCTGAATA
1 CCCGAATA
68173304 CACATCAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:68174372 original size:12 final size:13
Alignment explanation
Indices: 68174350--68174378 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
68174340 CACTTTCAAA
68174350 ATATAATATATAC
1 ATATAATATATAC
68174363 ATAT-ATATATAC
1 ATATAATATATAC
68174375 ATAT
1 ATAT
68174379 TCGACTTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (13 bp):
ATATAATATATAC
Found at i:68198403 original size:16 final size:16
Alignment explanation
Indices: 68198382--68198414 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
68198372 TAATGTATGA
68198382 TTACTTGTGGATTATT
1 TTACTTGTGGATTATT
68198398 TTACTTGTGGATTATT
1 TTACTTGTGGATTATT
68198414 T
1 T
68198415 CGAACATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.06, G:0.18, T:0.58
Consensus pattern (16 bp):
TTACTTGTGGATTATT
Found at i:68210857 original size:15 final size:15
Alignment explanation
Indices: 68210818--68210867 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
68210808 GTATCTTTGG
*
68210818 TTTCTTTATCCTAGA
1 TTTCTTTATTCTAGA
* *
68210833 TCTCTTTATTCTGGA
1 TTTCTTTATTCTAGA
*
68210848 TTTCTTTATTC-AGT
1 TTTCTTTATTCTAGA
68210862 TTTCTT
1 TTTCTT
68210868 GTTATCTTTG
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
14 7 0.24
15 22 0.76
ACGTcount: A:0.14, C:0.18, G:0.08, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTAGA
Found at i:68213305 original size:46 final size:45
Alignment explanation
Indices: 68213255--68213430 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 45
68213245 TGGTTGAGCA
68213255 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
68213301 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
68213348 TCCGAGCTCGTTGAGTTGAGTCCGTGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
68213394 -CCCAAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
68213431 GCAGGTTACA
Statistics
Matches: 106, Mismatches: 16, Indels: 16
0.77 0.12 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 4 0.04
46 62 0.58
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:68213411 original size:93 final size:93
Alignment explanation
Indices: 68213252--68213422 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
68213242 GGATGGTTGA
* * *
68213252 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCATTGAGT
68213317 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
68213345 GCATCCGAGCTCGTTGAGTTGAGTCCGTGTTCACTTATGGATGCGAACG-CCCAAGCTCATTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAA-CTCATTGAG
68213409 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
68213423 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 4 0.06
93 68 0.94
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCATTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:68216267 original size:254 final size:254
Alignment explanation
Indices: 68215818--68216323 Score: 708
Period size: 254 Copynumber: 2.0 Consensus size: 254
68215808 CACAATGATG
* * *
68215818 CCACTCTTTTTAGGTATGCATTGCACTAGACTTACTCAATTGCTGTAAAAAATAAGGTAAATAAT
1 CCACTCTTTTTAGGTACGCATTGCACTAGACTTACCCAATTGCTATAAAAAATAAGGTAAATAAT
* * * * *
68215883 TCCATCATCAAGCCATTTTGTAATTTCCTTCTTAACAACTTTATTCATCTTCTCGTTTAATCTTC
66 TCCAGCATCAAGCCAGTTTATAATTTCCTTCTTAACAACTTCATTCATCTTCTCATTTAATCTTC
* * * *
68215948 TTTGCTGCTCAATCGATTGCTTGCTTTAATCTTCCAACTTCATTTTGTACATGAAAAAAGATGGA
131 TTTACTGCTCAATCGATTGCTTACCTTAATCTTCCAACTTAATTTTGTACATGAAAAAAGATGGA
* * *
68216013 CTAATGCCTCAAATATCAGCAATACTCCAAGTAATATCTTATTTATGTTGCTTAAGATT
196 CTAATGCCTCAAATATCAGCAATACTCCAAGCAATAGCTTATTTATGTTACTTAAGATT
** * * * *
68216072 CCACTCTTTTTAGGTACGCATTTTACTGGACTTACCCAATTGCTATCAGAAATAGGGTAAATAAT
1 CCACTCTTTTTAGGTACGCATTGCACTAGACTTACCCAATTGCTATAAAAAATAAGGTAAATAAT
* * * *
68216137 TCCAGCATCAAGCCAGTTTAT-ATTATCTTTCTTAACGACTTCCTTCATCTTCTCATTTAATTTT
66 TCCAGCATCAAGCCAGTTTATAATT-TCCTTCTTAACAACTTCATTCATCTTCTCATTTAATCTT
* * * *
68216201 CTTTACTGCTCAATCGATTGCTTACCTTCATCTTCCAACTTAATTTTTTACATGCAAAGAGATGG
130 CTTTACTGCTCAATCGATTGCTTACCTTAATCTTCCAACTTAATTTTGTACATGAAAAAAGATGG
* * *
68216266 ACTAATGCCTCGAATATCAGCAATACTCCAAGCAGTAGCTTGTTTATGTTACTTAAGA
195 ACTAATGCCTCAAATATCAGCAATACTCCAAGCAATAGCTTATTTATGTTACTTAAGA
68216324 ATATGGACCA
Statistics
Matches: 219, Mismatches: 32, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
253 3 0.01
254 216 0.99
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (254 bp):
CCACTCTTTTTAGGTACGCATTGCACTAGACTTACCCAATTGCTATAAAAAATAAGGTAAATAAT
TCCAGCATCAAGCCAGTTTATAATTTCCTTCTTAACAACTTCATTCATCTTCTCATTTAATCTTC
TTTACTGCTCAATCGATTGCTTACCTTAATCTTCCAACTTAATTTTGTACATGAAAAAAGATGGA
CTAATGCCTCAAATATCAGCAATACTCCAAGCAATAGCTTATTTATGTTACTTAAGATT
Found at i:68230412 original size:5 final size:5
Alignment explanation
Indices: 68230404--68230490 Score: 65
Period size: 5 Copynumber: 17.6 Consensus size: 5
68230394 CATTAATAAG
* * * *
68230404 AAAAT AAAA- ATAAT AAACT -AAAT ATAAT -AAAT AAAAAT AAAAAT AAAGT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT -AAAAT AAAAT
* *
68230453 AAAAT AAAA- ATAAC AAAAT AAAAT AAAAT AAAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAA
68230491 GAAAGAACAA
Statistics
Matches: 65, Mismatches: 11, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
4 12 0.18
5 38 0.58
6 15 0.23
ACGTcount: A:0.77, C:0.02, G:0.01, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:68230415 original size:6 final size:6
Alignment explanation
Indices: 68230404--68230490 Score: 83
Period size: 6 Copynumber: 14.3 Consensus size: 6
68230394 CATTAATAAG
* *
68230404 AAAATA AAAATA ATAAACTA AATATA ATAAATA AAAATA AAAAT- AAAGT-
1 AAAATA AAAATA A-AAA-TA AAAATA A-AAATA AAAATA AAAATA AAAATA
68230453 AAAATA AAAATA ACAAA-A TAAAAT- AAAATA AAAATA AA
1 AAAATA AAAATA A-AAATA -AAAATA AAAATA AAAATA AA
68230491 GAAAGAACAA
Statistics
Matches: 69, Mismatches: 4, Indels: 16
0.78 0.04 0.18
Matches are distributed among these distances:
5 13 0.19
6 39 0.57
7 14 0.20
8 3 0.04
ACGTcount: A:0.77, C:0.02, G:0.01, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:68230425 original size:14 final size:13
Alignment explanation
Indices: 68230405--68230489 Score: 76
Period size: 13 Copynumber: 6.9 Consensus size: 13
68230395 ATTAATAAGA
68230405 AAATAAAAATAAT
1 AAATAAAAATAAT
*
68230418 AAACTAAATATAAT
1 AAA-TAAAAATAAT
68230432 AAATAAAAATAA-
1 AAATAAAAATAAT
*
68230444 AAAT-AAAGT-A-
1 AAATAAAAATAAT
*
68230454 AAATAAAAATAAC
1 AAATAAAAATAAT
68230467 AAA-ATAAAAT-A-
1 AAATA-AAAATAAT
68230478 AAATAAAAATAA
1 AAATAAAAATAA
68230490 AGAAAGAACA
Statistics
Matches: 61, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
10 5 0.08
11 16 0.26
12 9 0.15
13 19 0.31
14 12 0.20
ACGTcount: A:0.76, C:0.02, G:0.01, T:0.20
Consensus pattern (13 bp):
AAATAAAAATAAT
Found at i:68230450 original size:16 final size:16
Alignment explanation
Indices: 68230429--68230490 Score: 69
Period size: 16 Copynumber: 4.0 Consensus size: 16
68230419 AACTAAATAT
68230429 AATAAATAAAAATAAA
1 AATAAATAAAAATAAA
68230445 AATAAAGT-AAAATAAA
1 AATAAA-TAAAAATAAA
*
68230461 AAT-AA-CAAAAT-AA
1 AATAAATAAAAATAAA
68230474 AATAAAATAAAAATAAA
1 AAT-AAATAAAAATAAA
68230491 GAAAGAACAA
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
13 5 0.13
14 5 0.13
15 4 0.10
16 22 0.56
17 3 0.08
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.18
Consensus pattern (16 bp):
AATAAATAAAAATAAA
Found at i:68230479 original size:24 final size:23
Alignment explanation
Indices: 68230404--68230490 Score: 104
Period size: 24 Copynumber: 3.6 Consensus size: 23
68230394 CATTAATAAG
*
68230404 AAAATAAAAATAATAAACTAAATAT
1 AAAATAAAAATAA-AAAATAAA-AT
*
68230429 AATAAATAAAAAT-AAAAATAAAGT
1 -A-AAATAAAAATAAAAAATAAAAT
68230453 AAAATAAAAATAACAAAATAAAAT
1 AAAATAAAAATAA-AAAATAAAAT
68230477 AAAATAAAAATAAA
1 AAAATAAAAATAAA
68230491 GAAAGAACAA
Statistics
Matches: 55, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
22 10 0.18
23 3 0.05
24 23 0.42
25 7 0.13
26 2 0.04
27 10 0.18
ACGTcount: A:0.77, C:0.02, G:0.01, T:0.20
Consensus pattern (23 bp):
AAAATAAAAATAAAAAATAAAAT
Found at i:68233455 original size:17 final size:17
Alignment explanation
Indices: 68233433--68233484 Score: 68
Period size: 17 Copynumber: 2.9 Consensus size: 17
68233423 CATTTATCAT
68233433 TTATCATTTATCGGGCA
1 TTATCATTTATCGGGCA
*
68233450 TTATCATTTATTTCAGGCA
1 TTATCATTTA--TCGGGCA
*
68233469 TTATCACTTATCGGGC
1 TTATCATTTATCGGGC
68233485 TTTGTCGGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 15 0.50
19 15 0.50
ACGTcount: A:0.23, C:0.19, G:0.15, T:0.42
Consensus pattern (17 bp):
TTATCATTTATCGGGCA
Found at i:68233460 original size:7 final size:7
Alignment explanation
Indices: 68233418--68233444 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
68233408 AAATAACATT
68233418 TTTATCA
1 TTTATCA
68233425 TTTATCA
1 TTTATCA
68233432 TTTATCA
1 TTTATCA
68233439 TTTATC
1 TTTATC
68233445 GGGCATTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.59
Consensus pattern (7 bp):
TTTATCA
Found at i:68233470 original size:19 final size:18
Alignment explanation
Indices: 68233433--68233479 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
68233423 CATTTATCAT
*
68233433 TTATCATTTA-TCGGGCA
1 TTATCATTTATTCAGGCA
68233450 TTATCATTTATTTCAGGCA
1 TTATCATTTA-TTCAGGCA
*
68233469 TTATCACTTAT
1 TTATCATTTAT
68233480 CGGGCTTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 10 0.38
18 1 0.04
19 15 0.58
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.47
Consensus pattern (18 bp):
TTATCATTTATTCAGGCA
Found at i:68244739 original size:22 final size:26
Alignment explanation
Indices: 68244706--68244754 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 26
68244696 TACATGTGTA
68244706 TATTATTTATATA-GT-AT-TATTAT
1 TATTATTTATATATGTCATATATTAT
68244729 TATT-TTTATATATGTCATATATTAT
1 TATTATTTATATATGTCATATATTAT
68244754 T
1 T
68244755 GTACTTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 8 0.35
23 6 0.26
24 2 0.09
25 7 0.30
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (26 bp):
TATTATTTATATATGTCATATATTAT
Found at i:68247231 original size:66 final size:64
Alignment explanation
Indices: 68247161--68247285 Score: 178
Period size: 66 Copynumber: 1.9 Consensus size: 64
68247151 TAAATTGACA
* * * *
68247161 ACTTGATCTTTCAAAATGCATCAAAAAGAACCTCAAACTTCTTTTAAAAAAAGCAATTAAGACTC
1 ACTTGAACTTTCAAAATGCATAAAAAAGAACCTCAAA-AT-TTCTAAAAAAAGCAATTAAGACTC
68247226 T
64 T
* *
68247227 ACTTGAACTTTCAAAATGCATAAAAAAGACCCTCAAAATTTCTCAAAAAAGCAATTAAG
1 ACTTGAACTTTCAAAATGCATAAAAAAGAACCTCAAAATTTCTAAAAAAAGCAATTAAG
68247286 CCCATGCCCT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
64 18 0.34
65 1 0.02
66 34 0.64
ACGTcount: A:0.46, C:0.19, G:0.08, T:0.26
Consensus pattern (64 bp):
ACTTGAACTTTCAAAATGCATAAAAAAGAACCTCAAAATTTCTAAAAAAAGCAATTAAGACTCT
Found at i:68247348 original size:18 final size:19
Alignment explanation
Indices: 68247327--68247373 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
68247317 TATAAATAAT
68247327 AAATAATAAATTTT-AGAA
1 AAATAATAAATTTTAAGAA
* *
68247345 AAATTATTAAATTTTAATAA
1 AAA-TAATAAATTTTAAGAA
68247365 AAAT-ATAAA
1 AAATAATAAA
68247374 AACTTTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 7 0.29
19 11 0.46
20 6 0.25
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (19 bp):
AAATAATAAATTTTAAGAA
Found at i:68247441 original size:19 final size:20
Alignment explanation
Indices: 68247404--68247442 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
68247394 ATTAGAATTT
**
68247404 TTTTATAAAAAATTGTAAAA
1 TTTTATAAAAAATCATAAAA
68247424 TTTTAT-AAAAATCATAAAA
1 TTTTATAAAAAATCATAAAA
68247443 AATATAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (20 bp):
TTTTATAAAAAATCATAAAA
Found at i:68247720 original size:10 final size:10
Alignment explanation
Indices: 68247707--68247796 Score: 64
Period size: 10 Copynumber: 9.4 Consensus size: 10
68247697 CTTTATAAAA
68247707 TTTTATAATT
1 TTTTATAATT
68247717 TTTT-T-ATAT
1 TTTTATAAT-T
* *
68247726 TTCTAT-ATA
1 TTTTATAATT
68247735 TTTTATAATT
1 TTTTATAATT
**
68247745 TTTTACGA-T
1 TTTTATAATT
**
68247754 TTTTATAAAA
1 TTTTATAATT
*
68247764 TTTTACAATT
1 TTTTATAATT
68247774 TTTTAT-ATT
1 TTTTATAATT
*
68247783 TTTTATGATT
1 TTTTATAATT
68247793 TTTT
1 TTTT
68247797 TCCAAAATTT
Statistics
Matches: 62, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
8 2 0.03
9 26 0.42
10 34 0.55
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTTATAATT
Found at i:68247746 original size:28 final size:28
Alignment explanation
Indices: 68247660--68247783 Score: 108
Period size: 29 Copynumber: 4.3 Consensus size: 28
68247650 TTTTACGAAA
* * *
68247660 TTTATATTTCTTTACATTTTGTATAATTT
1 TTTATATTTCTATAAAATTT-TATAATTT
* *
68247689 TCTTACGACTT-TATAAAATTTTATAATTTT
1 T-TTA-TATTTCTATAAAATTTTATAA-TTT
*
68247719 TTTATATTTCTAT-ATATTTTATAATTT
1 TTTATATTTCTATAAAATTTTATAATTT
* * *
68247746 TTTACGATTTTTATAAAATTTTACAATTT
1 TTTA-TATTTCTATAAAATTTTATAATTT
68247775 TTTATATTT
1 TTTATATTT
68247784 TTTATGATTT
Statistics
Matches: 76, Mismatches: 13, Indels: 13
0.75 0.13 0.13
Matches are distributed among these distances:
27 7 0.09
28 24 0.32
29 28 0.37
30 14 0.18
31 3 0.04
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.61
Consensus pattern (28 bp):
TTTATATTTCTATAAAATTTTATAATTT
Found at i:68247749 original size:38 final size:36
Alignment explanation
Indices: 68247698--68247797 Score: 92
Period size: 38 Copynumber: 2.7 Consensus size: 36
68247688 TTCTTACGAC
** * * *
68247698 TTTATAAAATTTTATAATTTTTTTATATTTCTATATAT
1 TTTATAATTTTTTATGATTTTTTTAAATTT-TACA-AT
* *
68247736 TTTATAATTTTTTACGATTTTTATAAAATTTTACAAT
1 TTTATAATTTTTTATGATTTTT-TTAAATTTTACAAT
*
68247773 TTTTTATATTTTTTATGATTTTTTT
1 TTTATA-ATTTTTTATGATTTTTTT
68247798 CCAAAATTTA
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
37 8 0.16
38 36 0.72
39 6 0.12
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (36 bp):
TTTATAATTTTTTATGATTTTTTTAAATTTTACAAT
Found at i:68247759 original size:57 final size:58
Alignment explanation
Indices: 68247660--68247783 Score: 173
Period size: 57 Copynumber: 2.2 Consensus size: 58
68247650 TTTTACGAAA
* *
68247660 TTTATATTTCTTTACATTTTGTATAATTTTCTTACGACTTTATAAAATTTTATAATTTT
1 TTTATATTTCTATACATTTTGTATAATTTTCTTACGACTTTATAAAATTTTACAA-TTT
* *
68247719 TTTATATTTCTATATA-TTT-TATAATTTT-TTACGATTTTTATAAAATTTTACAATTT
1 TTTATATTTCTATACATTTTGTATAATTTTCTTACGA-CTTTATAAAATTTTACAATTT
68247775 TTTATATTT
1 TTTATATTT
68247784 TTTATGATTT
Statistics
Matches: 60, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
56 18 0.30
57 25 0.42
58 3 0.05
59 14 0.23
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.61
Consensus pattern (58 bp):
TTTATATTTCTATACATTTTGTATAATTTTCTTACGACTTTATAAAATTTTACAATTT
Found at i:68247776 original size:29 final size:29
Alignment explanation
Indices: 68247681--68247778 Score: 112
Period size: 29 Copynumber: 3.4 Consensus size: 29
68247671 TTACATTTTG
*
68247681 TATAATTTTCTTACGA-CTTTATAAAATTT
1 TATAATTTT-TTACGATTTTTATAAAATTT
* * *
68247710 TATAATTTTTTTA-TATTTCTAT-ATATTT
1 TATAA-TTTTTTACGATTTTTATAAAATTT
68247738 TATAATTTTTTACGATTTTTATAAAATTT
1 TATAATTTTTTACGATTTTTATAAAATTT
*
68247767 TACAATTTTTTA
1 TATAATTTTTTA
68247779 TATTTTTTAT
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
27 7 0.12
28 18 0.32
29 28 0.49
30 4 0.07
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (29 bp):
TATAATTTTTTACGATTTTTATAAAATTT
Found at i:68247784 original size:28 final size:28
Alignment explanation
Indices: 68247698--68247785 Score: 115
Period size: 28 Copynumber: 3.1 Consensus size: 28
68247688 TTCTTACGAC
68247698 TTTATAAAATTTTATAATTTTTTTATATT
1 TTTATAAAATTTTATAA-TTTTTTATATT
* * *
68247727 TCTAT-ATATTTTATAATTTTTTACGATT
1 TTTATAAAATTTTATAATTTTTTA-TATT
*
68247755 TTTATAAAATTTTACAATTTTTTATATT
1 TTTATAAAATTTTATAATTTTTTATATT
68247783 TTT
1 TTT
68247786 TATGATTTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 7 0.14
28 23 0.46
29 20 0.40
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (28 bp):
TTTATAAAATTTTATAATTTTTTATATT
Found at i:68247795 original size:28 final size:27
Alignment explanation
Indices: 68247660--68247795 Score: 85
Period size: 28 Copynumber: 4.7 Consensus size: 27
68247650 TTTTACGAAA
*
68247660 TTTATATTTCTTTACATTTTGTATAATTT
1 TTTATATTT-TTTATATTTT-TATAATTT
* * * * *
68247689 TCTTACGACTTTATAAAATTTTATAATTT
1 T-TTA-TATTTTTTATATTTTTATAATTT
*
68247718 TTT-TATATTTCTATATATTTTATAATTT
1 TTTATAT-TTTTTATAT-TTTTATAATTT
* * * *
68247746 TTTACGATTTTTATAAAATTTTACAATTT
1 TTTA-TATTTTT-TATATTTTTATAATTT
68247775 TTTATATTTTTTATGATTTTT
1 TTTATATTTTTTAT-ATTTTT
68247796 TTCCAAAATT
Statistics
Matches: 81, Mismatches: 18, Indels: 17
0.70 0.16 0.15
Matches are distributed among these distances:
26 1 0.01
27 8 0.10
28 27 0.33
29 27 0.33
30 15 0.19
31 3 0.04
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (27 bp):
TTTATATTTTTTATATTTTTATAATTT
Found at i:68247796 original size:19 final size:20
Alignment explanation
Indices: 68247707--68247796 Score: 64
Period size: 19 Copynumber: 4.7 Consensus size: 20
68247697 CTTTATAAAA
68247707 TTTTATAATTTTTT-T-ATAT
1 TTTTATAATTTTTTATAAT-T
* *
68247726 TTCTAT-ATATTTTATAATT
1 TTTTATAATTTTTTATAATT
** **
68247745 TTTTACGA-TTTTTATAAAA
1 TTTTATAATTTTTTATAATT
*
68247764 TTTTACAATTTTTTAT-ATT
1 TTTTATAATTTTTTATAATT
*
68247783 TTTTATGATTTTTT
1 TTTTATAATTTTTT
68247797 TCCAAAATTT
Statistics
Matches: 55, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
18 6 0.11
19 39 0.71
20 10 0.18
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTTATAATTTTTTATAATT
Found at i:68249296 original size:28 final size:27
Alignment explanation
Indices: 68249264--68249319 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
68249254 TTATTTAAGT
*
68249264 TATATTATTTTA-ATATTTAATAATTTTA
1 TATATT-TTTTATATA-TTAAAAATTTTA
*
68249292 TATATTTTTTATTTATTAAAAATTTTA
1 TATATTTTTTATATATTAAAAATTTTA
68249319 T
1 T
68249320 TTAGTCTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 17 0.68
28 8 0.32
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (27 bp):
TATATTTTTTATATATTAAAAATTTTA
Found at i:68249559 original size:89 final size:90
Alignment explanation
Indices: 68249383--68249704 Score: 524
Period size: 91 Copynumber: 3.6 Consensus size: 90
68249373 TTAAGGGTGT
* * *
68249383 AAAAAGCCCTCAAATTTTTTCAAAACAAA-CAATTAAGCCCTCCTTTTTTTTTTTTGCACTCAAT
1 AAAAGGCCCTCAAATTTATTCAAAA-AAAGCAATTAAGGCCTCC-TTTTTTTTTTTGCACTCAAT
*
68249447 TGACCACTTGACCTTTAAAAATGCATC
64 TGACCACTTGATCTTTAAAAATGCATC
68249474 AAAAGGCCCTCAAATTTATTCAAAAAAAGCAATTAAGGCCTCC-TTTTTTTTTTGCACTCAATTG
1 AAAAGGCCCTCAAATTTATTCAAAAAAAGCAATTAAGGCCTCCTTTTTTTTTTTGCACTCAATTG
68249538 ACCACTTGATCTTTAAAAATGCATC
66 ACCACTTGATCTTTAAAAATGCATC
* *
68249563 AAAAGGCCCTCAAATTTATTAAAAAAAAAACAATTAAGGCCTCCTTTTTTTTTTTGCACTCAATT
1 AAAAGGCCCTCAAATTTATT-CAAAAAAAGCAATTAAGGCCTCCTTTTTTTTTTTGCACTCAATT
68249628 GACCACTTGATCTTTAAAAATGCATC
65 GACCACTTGATCTTTAAAAATGCATC
*
68249654 AAAAAGGCCCTCAAACTTATTCAAAAAAAGCAATTAA-GCCTCCTTTTTTTT
1 -AAAAGGCCCTCAAATTTATTCAAAAAAAGCAATTAAGGCCTCCTTTTTTTT
68249705 CCACTAAATT
Statistics
Matches: 218, Mismatches: 9, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
89 65 0.30
90 38 0.17
91 96 0.44
92 19 0.09
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.34
Consensus pattern (90 bp):
AAAAGGCCCTCAAATTTATTCAAAAAAAGCAATTAAGGCCTCCTTTTTTTTTTTGCACTCAATTG
ACCACTTGATCTTTAAAAATGCATC
Found at i:68249832 original size:19 final size:19
Alignment explanation
Indices: 68249806--68249856 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
68249796 TTTAAAAAAT
*
68249806 ATAAAAATATTAAATTTTA
1 ATAAAAATATTAAATCTTA
68249825 GA-AAAAATATTAAATCTTA
1 -ATAAAAATATTAAATCTTA
68249844 ATAAAAAT-TTAAA
1 ATAAAAATATTAAA
68249857 AAATTTAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 6 0.21
19 22 0.76
20 1 0.03
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (19 bp):
ATAAAAATATTAAATCTTA
Found at i:68250192 original size:21 final size:21
Alignment explanation
Indices: 68250166--68250210 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
68250156 TAAATTTATA
* *
68250166 TTTCTTTAC-ATTTTGTATAAT
1 TTTC-TTACGATTTTATAAAAT
68250187 TTTCTTACGATTTTATAAAAT
1 TTTCTTACGATTTTATAAAAT
68250208 TTT
1 TTT
68250211 ATAATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.27, C:0.09, G:0.04, T:0.60
Consensus pattern (21 bp):
TTTCTTACGATTTTATAAAAT
Found at i:68250233 original size:10 final size:9
Alignment explanation
Indices: 68250196--68250246 Score: 52
Period size: 10 Copynumber: 5.7 Consensus size: 9
68250186 TTTTCTTACG
*
68250196 ATTTTATAAA
1 ATTTTAT-AT
68250206 ATTTTATA-
1 ATTTTATAT
*
68250214 ATTTTTTAT
1 ATTTTATAT
68250223 ATTTCTATAT
1 ATTT-TATAT
68250233 ATTTTATAT
1 ATTTTATAT
68250242 -TTTTA
1 ATTTTA
68250247 CGATTTTATA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
8 12 0.32
9 10 0.27
10 15 0.41
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (9 bp):
ATTTTATAT
Found at i:68250259 original size:53 final size:54
Alignment explanation
Indices: 68250160--68250335 Score: 164
Period size: 53 Copynumber: 3.2 Consensus size: 54
68250150 AATTACTAAA
*
68250160 TTTATATTTCTTTAC-ATTTTGTATAATTTTCTTACGATTTTATAAAATTTTATAATTT
1 TTTATATTT-TATACAATTTT-TAT-A-TTT-TTACGATTTTATAAAATTTTATAATTT
* * *
68250218 TTTATATTTCTATA-TA-TTTTATATTTTTACGATTTTATAAAAGTTTA-CATTT
1 TTTATATTT-TATACAATTTTTATATTTTTACGATTTTATAAAATTTTATAATTT
* * * *
68250270 TTTATATTTTTTACAATTTTTATATTTTTCCAATTTT-TAATAATTTTTTAATTT
1 TTTATATTTTATACAATTTTTATATTTTTACGATTTTATAA-AATTTTATAATTT
* *
68250324 TTAAAATTTTAT
1 TTTATATTTTAT
68250336 TAAAATTTAA
Statistics
Matches: 100, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
51 3 0.03
52 17 0.17
53 43 0.43
54 16 0.16
55 1 0.01
56 3 0.03
57 3 0.03
58 14 0.14
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (54 bp):
TTTATATTTTATACAATTTTTATATTTTTACGATTTTATAAAATTTTATAATTT
Found at i:68250271 original size:27 final size:27
Alignment explanation
Indices: 68250184--68250273 Score: 87
Period size: 27 Copynumber: 3.3 Consensus size: 27
68250174 CATTTTGTAT
68250184 AATTTTCTTACGATTTTATAAAATTTTA
1 AATTTT-TTACGATTTTATAAAATTTTA
* *
68250212 TAATTTTTTA-TATTTCTAT-ATATTTTA
1 -AATTTTTTACGATTT-TATAAAATTTTA
* *
68250239 TA-TTTTTACGATTTTATAAAAGTTTA
1 AATTTTTTACGATTTTATAAAATTTTA
*
68250265 CATTTTTTA
1 AATTTTTTA
68250274 TATTTTTTAC
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
25 9 0.18
26 12 0.24
27 17 0.34
28 6 0.12
29 6 0.12
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (27 bp):
AATTTTTTACGATTTTATAAAATTTTA
Found at i:68250305 original size:27 final size:27
Alignment explanation
Indices: 68250261--68250343 Score: 71
Period size: 27 Copynumber: 3.0 Consensus size: 27
68250251 TTTATAAAAG
* * *
68250261 TTTACATTTTTTATATTTTTTACAATTT
1 TTTA-ATTTTTAAAATTTTTTAAAATTT
**
68250289 TT-ATATTTTTCCAA-TTTTTAATAATTT
1 TTTA-ATTTTTAAAATTTTTTAA-AATTT
68250316 TTTAATTTTTAAAATTTTATTAAAATTT
1 TTTAATTTTTAAAATTTT-TTAAAATTT
68250344 AATAATATTT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
26 6 0.14
27 23 0.52
28 11 0.25
29 4 0.09
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (27 bp):
TTTAATTTTTAAAATTTTTTAAAATTT
Found at i:68250307 original size:35 final size:35
Alignment explanation
Indices: 68250207--68250326 Score: 88
Period size: 35 Copynumber: 3.4 Consensus size: 35
68250197 TTTTATAAAA
* *
68250207 TTTTATAATTTTT-TATATTTCTATATATTTTATA-T
1 TTTTACAATTTTTATATATTTCCA-AT-TTTTATATT
* * * *
68250242 TTTTACGA-TTTTATAAAAGTTTACATTTTTTATATT
1 TTTTACAATTTTTAT-ATA-TTTCCAATTTTTATATT
*
68250278 TTTTACAATTTTTATATTTTTCCAATTTTTAATAATT
1 TTTTACAATTTTTATATATTTCCAATTTTT-AT-ATT
68250315 TTTT--AATTTTTA
1 TTTTACAATTTTTA
68250327 AAATTTTATT
Statistics
Matches: 67, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
34 4 0.06
35 32 0.48
36 14 0.21
37 17 0.25
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (35 bp):
TTTTACAATTTTTATATATTTCCAATTTTTATATT
Found at i:68250326 original size:18 final size:18
Alignment explanation
Indices: 68250261--68250349 Score: 69
Period size: 18 Copynumber: 4.9 Consensus size: 18
68250251 TTTATAAAAG
*
68250261 TTTACATTTTTTAT-ATTT
1 TTTA-ATTTTTAATAATTT
68250279 TTTACAATTTTT-AT-ATTT
1 TTT--AATTTTTAATAATTT
*
68250297 TTCCAATTTTTAATAATTT
1 TT-TAATTTTTAATAATTT
68250316 TTTAATTTTTAA-AATTT
1 TTTAATTTTTAATAATTT
**
68250333 TATTAAAATTTAATAAT
1 T-TTAATTTTTAATAAT
68250350 ATTTATAGCT
Statistics
Matches: 60, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
17 13 0.22
18 31 0.52
19 15 0.25
20 1 0.02
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTAATTTTTAATAATTT
Found at i:68250349 original size:28 final size:27
Alignment explanation
Indices: 68250318--68250384 Score: 64
Period size: 28 Copynumber: 2.4 Consensus size: 27
68250308 AATAATTTTT
68250318 TAATTTTTAAAATTTTATTAAAATTTAA
1 TAATTTTTAAAATTTTATT-AAATTTAA
* ** * *
68250346 TAATATTTATAGCTTTTATTGATTTTAA
1 TAATTTTTA-AAATTTTATTAAATTTAA
68250374 T-ATTTTTAAAA
1 TAATTTTTAAAA
68250385 AAATTTCCTA
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
26 1 0.03
27 6 0.20
28 15 0.50
29 8 0.27
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.55
Consensus pattern (27 bp):
TAATTTTTAAAATTTTATTAAATTTAA
Found at i:68250503 original size:88 final size:89
Alignment explanation
Indices: 68250401--68250608 Score: 230
Period size: 88 Copynumber: 2.4 Consensus size: 89
68250391 CCTAATTTTT
* *
68250401 AAAAA-CAGGGGCTTAATTGATTTTTTTGAAATA-ATTTGAGGGTCTTTTTGATGTATTTTGAAA
1 AAAAAGCAGGGGCTTAATTGATTTTTTTGAAA-AGATTTGAAGGCCTTTTT-ATGTATTTTGAAA
* *
68250464 GTTCAAATACCCAATTGAGTGCAAA-
64 GTTCAAATACCCAAATGAGTGAAAAG
* * * * * *
68250489 AATAA-TATGGGCTTAATT-ACTTTTTCTGAAAAGGTTTTAAGGCCTTTTTATGTATTTTGAAAG
1 AAAAAGCAGGGGCTTAATTGA-TTTTTTTGAAAAGATTTGAAGGCCTTTTTATGTATTTTGAAAG
* *
68250552 TTCAAGTATCCAAATGAGTGAAAAG
65 TTCAAATACCCAAATGAGTGAAAAG
*
68250577 AAAAAGCAGGGGTTTAATTGA-TTTTTTGAAAA
1 AAAAAGCAGGGGCTTAATTGATTTTTTTGAAAA
68250609 AGTTTAAGAG
Statistics
Matches: 98, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
87 36 0.37
88 51 0.52
89 10 0.10
90 1 0.01
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (89 bp):
AAAAAGCAGGGGCTTAATTGATTTTTTTGAAAAGATTTGAAGGCCTTTTTATGTATTTTGAAAGT
TCAAATACCCAAATGAGTGAAAAG
Found at i:68250615 original size:87 final size:87
Alignment explanation
Indices: 68250401--68250616 Score: 242
Period size: 87 Copynumber: 2.5 Consensus size: 87
68250391 CCTAATTTTT
* * *
68250401 AAAAACAGGGGCTTAATTGATTTTTTTGAAATAA-TTTGAGGGTCTTTTTGATGTATTTTGAAAG
1 AAAAACAGGGGCTTAATTGACTTTTTTGAAA-AAGTTT-AAGGCCTTTTTGATGTATTTTGAAAG
* *
68250465 TTCAAATACCCAATTGAGTGCAAA
64 TTCAAATACCCAAATGAGTGAAAA
* * * *
68250489 AATAATATGGGCTTAATT-ACTTTTTCTGAAAAGGTTTTAAGGCCTTTTT-ATGTATTTTGAAAG
1 AAAAACAGGGGCTTAATTGACTTTTT-TGAAAAAG-TTTAAGGCCTTTTTGATGTATTTTGAAAG
* *
68250552 TTCAAGTATCCAAATGAGTGAAAA
64 TTCAAATACCCAAATGAGTGAAAA
*
68250576 GAAAAAGCAGGGGTTTAATTGA-TTTTTTGAAAAAGTTTAAG
1 -AAAAA-CAGGGGCTTAATTGACTTTTTTGAAAAAGTTTAAG
68250617 AGCTCTTTAC
Statistics
Matches: 106, Mismatches: 16, Indels: 13
0.79 0.12 0.10
Matches are distributed among these distances:
87 47 0.44
88 40 0.38
89 18 0.17
90 1 0.01
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (87 bp):
AAAAACAGGGGCTTAATTGACTTTTTTGAAAAAGTTTAAGGCCTTTTTGATGTATTTTGAAAGTT
CAAATACCCAAATGAGTGAAAA
Found at i:68251430 original size:26 final size:26
Alignment explanation
Indices: 68251355--68251418 Score: 114
Period size: 25 Copynumber: 2.5 Consensus size: 26
68251345 GTCCTCCCCA
68251355 AAAAAACCTAA-CCAAAAAAAAAAAG
1 AAAAAACCTAACCCAAAAAAAAAAAG
68251380 AAAAAACCTAACCCAAAAAAAAAAAG
1 AAAAAACCTAACCCAAAAAAAAAAAG
68251406 -AAAAACCTAACCC
1 AAAAAACCTAACCC
68251419 CCCCCAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 24 0.63
26 14 0.37
ACGTcount: A:0.70, C:0.22, G:0.03, T:0.05
Consensus pattern (26 bp):
AAAAAACCTAACCCAAAAAAAAAAAG
Found at i:68253998 original size:12 final size:12
Alignment explanation
Indices: 68253981--68254012 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
68253971 AACATTTTGA
*
68253981 CATTCATGCATT
1 CATTCATACATT
68253993 CATTCATACATT
1 CATTCATACATT
68254005 CATTCATA
1 CATTCATA
68254013 TATTGCATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.31, C:0.25, G:0.03, T:0.41
Consensus pattern (12 bp):
CATTCATACATT
Found at i:68262464 original size:71 final size:70
Alignment explanation
Indices: 68262365--68262540 Score: 230
Period size: 71 Copynumber: 2.5 Consensus size: 70
68262355 CTTTTCAAGG
*
68262365 AAAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTT
1 AAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTA
68262429 TGTTTT
65 TGTTTT
** * *
68262435 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGTTGAGGTATTTTTAGTTTA
1 -AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTA
68262500 TGTTTT
65 TGTTTT
** * * *
68262506 -AAATTGACTCATATTGTGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
68262541 TTTAATTTTT
Statistics
Matches: 94, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
69 30 0.32
71 62 0.66
72 2 0.02
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.35
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTAT
GTTTT
Found at i:68263103 original size:139 final size:140
Alignment explanation
Indices: 68262512--68263192 Score: 1138
Period size: 140 Copynumber: 4.9 Consensus size: 140
68262502 TTTTAAATTG
* * ** *
68262512 ACTCATATTGTGAGAGGTGAGTT-AAGCCTTTTAATTT-TTGTTTTTC-AAATCAACTCATATTG
1 ACTCATATTGCGAGAGGTGGGTTGAA-CCTTTTAATTTCTACTTTTTCAAAATCAGCTCATATTG
*
68262574 CGAGAGGTGAGTTGAGCCTCAGGTCATGCTGAGGTATTTTCAATTTCTGTTTTCAATTTACGTTG
65 CGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAATTTACGTTG
68262639 TTCAAGAATCA
130 TTCAAGAATCA
68262650 ACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCTCATATTGC
1 ACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCTCATATTGC
68262715 GAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAATTTACGTTGT
66 GAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAATTTACGTTGT
68262780 TCAAGAATCA
131 TCAAGAATCA
*
68262790 ACTCATATTGCGAGAGGTGGGTTGAACATTTTAATTTCTACTTTTTCAAAATCAGCTCATATTGC
1 ACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCTCATATTGC
* *
68262855 GAGAGATGAGTTGAGCCTCAGGTCACGCTAAGGTATTTTCAATTTCTGTTTTCAATTTACGTTGT
66 GAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAATTTACGTTGT
68262920 TCAAGAATCA
131 TCAAGAATCA
*
68262930 ACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCTCATATTGC
1 ACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCTCATATTGC
* * *
68262995 GAAAGGTGAATTGAGCCTCAGGTCACGCTGAGGTATTTT-AATTTCTGTTTTCAATTTATGTTGT
66 GAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAATTTACGTTGT
68263059 TCAAGAATCA
131 TCAAGAATCA
*
68263069 ACTCATATTGCGAGAGGTGGGTTAAACCTTTTAATTTCTACTTTTTCAAAAATCAGCTCATATTG
1 ACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTC-AAAATCAGCTCATATTG
*
68263134 CGAAAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATTTCTGTCTTTCAA
65 CGAGAGGTGAGTTGAGCCTCAGG-TCAC--GCTGAGGTATTTTCAATTTCTGT-TTTCAA
68263193 AAAAAAATTC
Statistics
Matches: 515, Mismatches: 19, Indels: 12
0.94 0.03 0.02
Matches are distributed among these distances:
138 32 0.06
139 90 0.17
140 365 0.71
142 13 0.03
143 9 0.02
144 6 0.01
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (140 bp):
ACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCTCATATTGC
GAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAATTTACGTTGT
TCAAGAATCA
Found at i:68263275 original size:49 final size:49
Alignment explanation
Indices: 68263218--68263313 Score: 174
Period size: 49 Copynumber: 2.0 Consensus size: 49
68263208 ATATTGCGAG
* *
68263218 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
1 AAATGAGTTGAGCATCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
68263267 AAATGAGTTGAGCATCAAGACACGCTGAGGTAATTTCAATTTCTGTT
1 AAATGAGTTGAGCATCAAGACACGCTGAGGTAATTTCAATTTCTGTT
68263314 TTCAAAATTC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (49 bp):
AAATGAGTTGAGCATCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:68263427 original size:78 final size:75
Alignment explanation
Indices: 68263267--68263619 Score: 430
Period size: 74 Copynumber: 4.7 Consensus size: 75
68263257 TTTCTGTTCA
* * *
68263267 AAATGAGTTGAGCATCAAGACACGCTGAGGTAATTTCAATTTCTG-TTTTC--AAAATTCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
68263329 ATATTGTGAG
66 ATATTGTGAG
*
68263339 AAA-GTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAAAATCA
1 AAATG-AGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTC---AAAAAAATCA
68263403 ACTCATATTGTGAG
62 ACTCATATTGTGAG
** *
68263417 AAATGAGTTGAGCCTCAAGACGTGTTGAGGTATTTTCAATTTCTGTTTTTC-AAAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
*
68263481 ATATTGCGAG
66 ATATTGTGAG
** * * *
68263491 AGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-TTGTCAAAAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
*
68263555 GTATTGTGAG
66 ATATTGTGAG
*** * * *
68263565 AGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTTTTTCAA
1 AAATGAGTTGAGCCTCAAG--ACACGCTGAGGTATTTTCAATTTCTGTTTTTCAA
68263620 TTTCTGCCTT
Statistics
Matches: 247, Mismatches: 22, Indels: 19
0.86 0.08 0.07
Matches are distributed among these distances:
71 1 0.00
72 40 0.16
73 9 0.04
74 99 0.40
76 23 0.09
77 6 0.02
78 68 0.28
79 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (75 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
ATATTGTGAG
Found at i:68263545 original size:150 final size:150
Alignment explanation
Indices: 68263267--68263619 Score: 455
Period size: 150 Copynumber: 2.4 Consensus size: 150
68263257 TTTCTGTTCA
* * *
68263267 AAATGAGTTGAGCATCAAGACACGCTGAGGTAATTTCAATTTCTG-TTTTC-AAAATTCAACTCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCA
* * * *
68263330 TATTGTGAGAAAGTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAA
66 TATTGCGAGAAAGTAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTGTC--AAA
68263395 AAAAATCAACTCATATTGTGAG
129 AAAAATCAACTCATATTGTGAG
** *
68263417 AAATGAGTTGAGCCTCAAGACGTGTTGAGGTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCA
* *
68263482 TATTGCGAG-AGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-TTGTC-AAA
66 TATTGCGAGAAAGT-AGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAA
*
68263544 AAAATCAACTCGTATTGTGAG
130 AAAATCAACTCATATTGTGAG
*** * * *
68263565 AGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTTTTTCAA
1 AAATGAGTTGAGCCTCAAG--ACACGCTGAGGTATTTTCAATTTCTGTTTTTCAA
68263620 TTTCTGCCTT
Statistics
Matches: 176, Mismatches: 22, Indels: 10
0.85 0.11 0.05
Matches are distributed among these distances:
148 38 0.22
150 69 0.39
151 12 0.07
152 57 0.32
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (150 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCA
TATTGCGAGAAAGTAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAA
AAATCAACTCATATTGTGAG
Found at i:68263693 original size:92 final size:90
Alignment explanation
Indices: 68263524--68263711 Score: 227
Period size: 92 Copynumber: 2.1 Consensus size: 90
68263514 GCTGAGGTAA
* *
68263524 TTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCACA
1 TTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACA
* * * *
68263589 CGCCGAGGTATTTTCAATTTCCGTT
66 CACCAAGCTATTTTCAATTTCCGTC
* *
68263614 TTTCAATTTCTGCCTT-TCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCT
1 TTTCAATTTCTG--TTGTC-AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-T
* * *
68263677 CACTCACTAAGCTATTTTCAATTTCTGTC
62 CACACACCAAGCTATTTTCAATTTCCGTC
68263706 TTTCAA
1 TTTCAA
68263712 AAAAATCAAC
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
90 12 0.14
91 4 0.05
92 67 0.81
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.35
Consensus pattern (90 bp):
TTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACA
CACCAAGCTATTTTCAATTTCCGTC
Found at i:68263741 original size:77 final size:76
Alignment explanation
Indices: 68263613--68263995 Score: 302
Period size: 79 Copynumber: 4.7 Consensus size: 76
68263603 CAATTTCCGT
* *
68263613 TTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTC
1 TTTTCAATTTCTGTCTTTC-AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTC
*
68263678 ACTCACTAAGCTA
65 ACT-ACTGAGCTA
* *
68263691 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAG-CTTCAGATC
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTT-GGCTC
* *
68263755 ACACACTGAGGTA
65 AC-TACTGAGCTA
* * * * * * * *
68263768 TTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCTAGACGTGAGTTGAGCCTCGGGT
1 --TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCT
* *
68263833 CA-TATGTCGAGGTA
64 CACTA-CT-GAGCTA
* ***
68263847 TTTTCAAAATCTTTTTTTCAGATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
1 TTTTC--AA------TTTCTG--TCT-TTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
*
68263912 GCCTTGGCTCACGTGCTGAGCTA
55 GCCTTGGCTCAC-TACTGAGCTA
* * *
68263935 TTTTCAATTTCTGTTTTTTTTTCAAAAAAATTCAACTCATATTGCTAGAGGTGAGTTGAGC
1 TTTTCAATTTCTG----TCTTTCAAAAAAA-TCAACTCATATTGCGAGAAGTGAGTTGAGC
68263996 TTTTTAATTT
Statistics
Matches: 241, Mismatches: 41, Indels: 42
0.74 0.13 0.13
Matches are distributed among these distances:
76 3 0.01
77 53 0.22
78 19 0.08
79 61 0.25
80 7 0.03
81 7 0.03
82 31 0.13
85 3 0.01
86 2 0.01
87 2 0.01
88 51 0.21
89 1 0.00
90 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (76 bp):
TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCA
CTACTGAGCTA
Found at i:68263952 original size:88 final size:88
Alignment explanation
Indices: 68263791--68263952 Score: 209
Period size: 88 Copynumber: 1.8 Consensus size: 88
68263781 TATTTTTCAA
* * * * *
68263791 AAAAATCAACTCACATTGCTAGACGTGAGTTGAGCCTCGGGTCATATGTCGAGGTATTTTCAAAA
1 AAAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGTCGAGCTATTTTCAAAA
*
68263856 TCTTTTTTTCAGATTCTGTTTTC
66 TCTGTTTTTCAGATTCTGTTTTC
* * * *
68263879 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTG-CTGAGCTATTTTCAAT
1 AAAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGTC-GAGCTATTTTCAAA
*
68263943 TTCTGTTTTT
65 ATCTGTTTTT
68263953 TTTTCAAAAA
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
87 1 0.02
88 61 0.98
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (88 bp):
AAAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGTCGAGCTATTTTCAAAA
TCTGTTTTTCAGATTCTGTTTTC
Found at i:68264022 original size:30 final size:30
Alignment explanation
Indices: 68263981--68264038 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
68263971 TCATATTGCT
68263981 AGAGGTGAGTTGAG-CTTTTTAATTTCTGCG
1 AGAGGTGAGTTGAGTC-TTTTAATTTCTGCG
*
68264011 AGAGTTGAGTTGAGTCTTTTAATTTCTG
1 AGAGGTGAGTTGAGTCTTTTAATTTCTG
68264039 TTTTTCAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.21, C:0.09, G:0.28, T:0.43
Consensus pattern (30 bp):
AGAGGTGAGTTGAGTCTTTTAATTTCTGCG
Found at i:68264145 original size:254 final size:248
Alignment explanation
Indices: 68263394--68264206 Score: 724
Period size: 254 Copynumber: 3.3 Consensus size: 248
68263384 TTTTTCAAAA
* ** ** * *
68263394 AAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCC-T--CAAGACGTGTTGAGGTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC-TCACGTGCTGAGCTATTTTCAA
* * *
68263456 TTTCTG---TT-TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACAC
65 TTTCTGTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCTTCAGATCACAC
* * * * * ** * * *
68263514 GCTGAGGTA--ATTTCAATTTCT-GTTGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGA
130 ACTGAGGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCACATTGCGAGACGTGAGTTGA
* *** * ** * * ** *
68263576 GCCTC-AGGTCACACGCCGAGGTATTTTCAATTTCCGTTTTTCA-ATTTCTGCCTTTC
194 ACCTCGA-GTCACATATCAAGGTATTTTCAAAATCTGCTTTTCAGA-TTAAG-TTTTC
* *
68263632 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCAC-TCACTAAGCTATTTTC
1 --AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGT-GCTGAGCTATTTTC
68263696 AATTTCTG----TCTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCTTCAGATCAC
63 AATTTCTGTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCTTCAGATCAC
* *
68263757 ACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCTAGACGTGAGTT
128 ACACTGAGGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCACATTGCGAGACGTGAGTT
* * * * * ** **
68263822 GAGCCTCGGGTCATATGTCGAGGTATTTTCAAAATCTTTTTTTCAGATTCTGTTTTC
192 GAACCTCGAGTCACATATCAAGGTATTTTCAAAATCTGCTTTTCAGATTAAGTTTTC
*
68263879 -AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
* * * *
68263943 TTCTGTTTTTTTTTCAAAAAAATTCAACTCATATTGCTAGAGGTGAGTTGAGCTTTTTA-ATTTC
66 TTCTGTTTTTCTTTCAAAAAAA-TCAACTCATATTGCGAGAAGTGAGTTGAGC--TTCAGA--TC
* * * * * * * *
68264007 TGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGG
126 -AC-ACA-CTGAGGT-A-TCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGCGAGACG
**
68264070 TGAGTTGAACCTTTAGTCACATATCAAGGTATTTTCAAAATCTGCTTTTCA-AGTTAAG-TTTC
186 TGAGTTGAACCTCGAGTCACATATCAAGGTATTTTCAAAATCTGCTTTTCAGA-TTAAGTTTTC
68264132 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
68264197 TTCTGTTTTT
66 TTCTGTTTTT
68264207 AATGTCTGTT
Statistics
Matches: 482, Mismatches: 61, Indels: 46
0.82 0.10 0.08
Matches are distributed among these distances:
240 34 0.07
241 3 0.01
242 24 0.05
243 40 0.08
244 64 0.13
245 13 0.03
247 14 0.03
248 84 0.17
249 29 0.06
250 1 0.00
251 3 0.01
252 2 0.00
253 6 0.01
254 142 0.29
255 5 0.01
256 13 0.03
257 5 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (248 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
TTCTGTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCTTCAGATCACACA
CTGAGGTATCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGCGAGACGTGAGTTGAAC
CTCGAGTCACATATCAAGGTATTTTCAAAATCTGCTTTTCAGATTAAGTTTTC
Found at i:68264893 original size:25 final size:25
Alignment explanation
Indices: 68264863--68264920 Score: 91
Period size: 24 Copynumber: 2.4 Consensus size: 25
68264853 AAGCCCTCCA
*
68264863 AAAAAAAAACTTAACCAAAAAAAA-
1 AAAAAAAAACCTAACCAAAAAAAAT
*
68264887 AAGAAAAAACCTAACCAAAAAAAAT
1 AAAAAAAAACCTAACCAAAAAAAAT
68264912 AAAAAAAAA
1 AAAAAAAAA
68264921 GAAAAACCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 22 0.73
25 8 0.27
ACGTcount: A:0.79, C:0.12, G:0.02, T:0.07
Consensus pattern (25 bp):
AAAAAAAAACCTAACCAAAAAAAAT
Found at i:68264944 original size:29 final size:28
Alignment explanation
Indices: 68264912--68264976 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
68264902 CAAAAAAAAT
*
68264912 AAAAAAAAAGAAAAACCTAGCCCCCCCAA
1 AAAAAAAAAG-AAAACCTAACCCCCCCAA
** *
68264941 AAAAACCAAGAAAACCTAACCCCCCCCA
1 AAAAAAAAAGAAAACCTAACCCCCCCAA
68264969 AAAAAAAA
1 AAAAAAAA
68264977 CCAAGAAACC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 22 0.73
29 8 0.27
ACGTcount: A:0.60, C:0.32, G:0.05, T:0.03
Consensus pattern (28 bp):
AAAAAAAAAGAAAACCTAACCCCCCCAA
Found at i:68264974 original size:31 final size:29
Alignment explanation
Indices: 68264923--68264989 Score: 91
Period size: 31 Copynumber: 2.3 Consensus size: 29
68264913 AAAAAAAAGA
*
68264923 AAAACCT-AGCCCCCCCAAAAAAACCAAG
1 AAAACCTAACCCCCCCCAAAAAAACCAAG
68264951 AAAACCTAACCCCCCCCAAAAAAAAACCAAG
1 AAAACCTAACCCCCCCC--AAAAAAACCAAG
*
68264982 AAACCCTA
1 AAAACCTA
68264990 GCCACCTAGC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
28 7 0.21
29 8 0.24
31 19 0.56
ACGTcount: A:0.52, C:0.39, G:0.04, T:0.04
Consensus pattern (29 bp):
AAAACCTAACCCCCCCCAAAAAAACCAAG
Found at i:68266823 original size:20 final size:21
Alignment explanation
Indices: 68266778--68266823 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
68266768 TTACCCCAAA
* *
68266778 CTCCCAAACCTTTTTACTTTC
1 CTCCCAAAACTTTTTACTCTC
68266799 C-CCCAAAAC-TTTTACTCTC
1 CTCCCAAAACTTTTTACTCTC
68266818 CTCCCA
1 CTCCCA
68266824 TCCCACCCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 10 0.45
20 11 0.50
21 1 0.05
ACGTcount: A:0.22, C:0.43, G:0.00, T:0.35
Consensus pattern (21 bp):
CTCCCAAAACTTTTTACTCTC
Found at i:68267072 original size:19 final size:20
Alignment explanation
Indices: 68267034--68267073 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
68267024 ACTCCCTCAA
*
68267034 CCCCTAAACTTTTTATTTCT
1 CCCCTAAACTTTTTACTTCT
68267054 CCCCTAAAC-TTTTACTTCT
1 CCCCTAAACTTTTTACTTCT
68267073 C
1 C
68267074 ACTTTTACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.20, C:0.35, G:0.00, T:0.45
Consensus pattern (20 bp):
CCCCTAAACTTTTTACTTCT
Found at i:68272273 original size:16 final size:16
Alignment explanation
Indices: 68272252--68272283 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
68272242 AATTGGGTTG
*
68272252 AGAAAATTATTTAATT
1 AGAAAATTAATTAATT
68272268 AGAAAATTAATTAATT
1 AGAAAATTAATTAATT
68272284 TAATAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (16 bp):
AGAAAATTAATTAATT
Found at i:68274493 original size:15 final size:15
Alignment explanation
Indices: 68274475--68274576 Score: 51
Period size: 15 Copynumber: 7.1 Consensus size: 15
68274465 ATTACTATTA
68274475 TTATTATATTTCTAT
1 TTATTATATTTCTAT
* *
68274490 TTATATTTATTT-T-C
1 TTAT-TATATTTCTAT
* * *
68274504 TTATTCTAATGCTA-
1 TTATTATATTTCTAT
68274518 TTATTAT-TTATCTAAT
1 TTATTATATT-TCT-AT
*
68274534 TT-TGAT-TTATCTAT
1 TTATTATATT-TCTAT
68274548 TTA-T--ATTTCTAT
1 TTATTATATTTCTAT
68274560 TTATTATATTTCTAT
1 TTATTATATTTCTAT
68274575 TT
1 TT
68274577 CTATTTATAT
Statistics
Matches: 66, Mismatches: 10, Indels: 22
0.67 0.10 0.22
Matches are distributed among these distances:
12 8 0.12
13 8 0.12
14 17 0.26
15 25 0.38
16 8 0.12
ACGTcount: A:0.25, C:0.08, G:0.02, T:0.65
Consensus pattern (15 bp):
TTATTATATTTCTAT
Found at i:68274726 original size:3 final size:3
Alignment explanation
Indices: 68274718--68274763 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
68274708 TTTTTTACTA
* * * *
68274718 TAT TAT TAT TAA TAT TAT GAT CAT TAT TAT TAT TAC TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
68274764 CAATTAAGTA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:68286067 original size:44 final size:44
Alignment explanation
Indices: 68285898--68286881 Score: 459
Period size: 44 Copynumber: 21.8 Consensus size: 44
68285888 TCATTATGGA
* * *
68285898 AAATCTCATCTCCCT-AAGGTCGCA-TGGAGCAGATTGAAGCCAC
1 AAATCTTATCTCCCTGAA-GTTGCAGTGGAGCAGATTGAAGCTAC
* * * * * *
68285941 GAATCTTATCTCGCTGAAGTTGCAGTGGAGTAGA-TCAATCATAGA
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC-TA-C
* * * * *
68285986 AAACCTTATCTCTCT-AAGTTGCAGAGGAGCAGGTTGAAGTTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAC
* *
68286029 AAATCTTATCTCCCTGAAGTAGCAGTGGAGCATATTGAAGACAGACTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT---GA-AG-CTAC
* * *
68286078 AAATCTCATCTCCCT-AAGGTTGCA-TGGAGCAAATTGAAGCCAC
1 AAATCTTATCTCCCTGAA-GTTGCAGTGGAGCAGATTGAAGCTAC
* * * * *
68286121 AAATCTTATCTCCCTGAATTTGCAGTTGAGTAGATTGAAGTTAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAC
* * * * * * *
68286165 AGATCTTATCTCCCAGAAGTTGCAATGGAGTAGATCG-ATCATAGA
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC-TA-C
* * * * * * *
68286210 AAACCTTATCTTCCTGAAGTCGCAGTGGAGTAGGTTAAAGATACC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-C
** * *
68286255 AAATCTTATCTCTTTGGAGTTGTAGTGGAGCAGATTGAGGATAGTCTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT---GA-AG-CTAC
* * *
68286304 AAATCTCATCTCCCTGAGGTTGCA-TGGAGCAGATTGAAGCCAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAC
* * * * *
68286347 AACTCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCG-ATCATAGA
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC-TA-C
* * * ** * * *
68286392 AAACCTTATCTCTCTAAAGTCACAGTGGAGCAGGTTGAAGTTAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAC
* * * * * * ** *
68286436 AAGTCTTATCCCCCTCAAGTTGCAATGAAGTAGGCTGAAGATAGC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-C
* *** * * * ***
68286481 AAATCATATCTTTTTGAAGTTGTAGTGGAGTAGATTAAAGCCGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAC
* * * * * *
68286525 AGATCTTATCTCCTTGAAGTGGCATTGGAGCAGACTGAAGATAGC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-C
* * * * * *
68286570 GAATCTTATTTCCCTGAAGTTGCAGTGGAACATATTAAAACTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAC
* * * *
68286614 AAATTACAAATCTAATCTCTCTAAAGTTGCAGTGGAGCAGATTAAAGCTGC
1 AAA-T-C---T-T-ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAC
* ** * * * * *
68286665 AGATCTTATCTCCCCAAAGTTGCAGTGGAGTAGATCGAGGATAGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-C
* * * * *
68286710 AAATCTTATCTCTCTGAAGTTACAGTAGAGCAAATTAAAGCT-C
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAC
* * * * * *
68286753 TAAACCTTATCTCTCT-TA--T--AGTGGAGCAGGTAGAAGATAGC
1 -AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-C
* * * * *
68286794 AAATCTTATTTCCCTGAGGTTACAGTGGAACAGATTAAAGCCATCAAAGCAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-C-T------AC
68286846 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
68286882 AAAGTGACAA
Statistics
Matches: 682, Mismatches: 207, Indels: 95
0.69 0.21 0.10
Matches are distributed among these distances:
39 13 0.02
40 12 0.02
41 2 0.00
43 85 0.12
44 213 0.31
45 209 0.31
46 4 0.01
47 3 0.00
48 26 0.04
49 45 0.07
50 4 0.01
51 32 0.05
52 33 0.05
53 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (44 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAC
Found at i:68286158 original size:92 final size:90
Alignment explanation
Indices: 68285896--68286160 Score: 302
Period size: 92 Copynumber: 2.9 Consensus size: 90
68285886 AGTCATTATG
* * *
68285896 GAAAATCTCATCTCCCTAAGGTCGCATGGAGCAGATTGAAGCCACGAATCTTATCTCGCTGAAGT
1 GAAAATCTCATCTCCCTAAGGTTGCATGGAGCAGATTGAAGCCACAAATCTTATCTCCCTGAAGT
* * *
68285961 TGCAGTGGAGTAGA-TCAA-TCATA
66 TGCAGTGGAGTAGATTGAAGACAGA
* * * * * **
68285984 GAAAACCTTATCTCTCTAA-GTTGCAGAGGAGCAGGTTGAAGTTACAAATCTTATCTCCCTGAAG
1 GAAAATCTCATCTCCCTAAGGTTGCA-TGGAGCAGATTGAAGCCACAAATCTTATCTCCCTGAAG
* * *
68286048 TAGCAGTGGAGCATATTGAAGACAGA
65 TTGCAGTGGAGTAGATTGAAGACAGA
* *
68286074 CTACAAATCTCATCTCCCTAAGGTTGCATGGAGCAAATTGAAGCCACAAATCTTATCTCCCTGAA
1 -GA-AAATCTCATCTCCCTAAGGTTGCATGGAGCAGATTGAAGCCACAAATCTTATCTCCCTGAA
* *
68286139 TTTGCAGTTGAGTAGATTGAAG
64 GTTGCAGTGGAGTAGATTGAAG
68286161 TTATAGATCT
Statistics
Matches: 141, Mismatches: 30, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
87 5 0.04
88 60 0.43
89 3 0.02
90 3 0.02
91 1 0.01
92 63 0.45
93 6 0.04
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (90 bp):
GAAAATCTCATCTCCCTAAGGTTGCATGGAGCAGATTGAAGCCACAAATCTTATCTCCCTGAAGT
TGCAGTGGAGTAGATTGAAGACAGA
Found at i:68286235 original size:89 final size:89
Alignment explanation
Indices: 68286125--68286468 Score: 287
Period size: 89 Copynumber: 3.8 Consensus size: 89
68286115 AGCCACAAAT
* * * * * *
68286125 CTTATCTCCCTGAATTTGCAGTTGAGTAGATTGAAGTTATAGA-TCTTATCTCCCAGAAGTTGCA
1 CTTATCTCCCTGAAGTCGCAGTGGAGCAGATTGAAGTTACA-ACTCTTATCTCCCTGAAGTTGCA
68286189 ATGGAGTAGATCGATCATAGAAAAC
65 ATGGAGTAGATCGATCATAGAAAAC
* * * * * * ** * *
68286214 CTTATCTTCCTGAAGTCGCAGTGGAGTAGGTTAAAGATACCAAATCTTATCTCTTTGGAGTTGTA
1 CTTATCTCCCTGAAGTCGCAGTGGAGCAGATTGAAGTTA-CAACTCTTATCTCCCTGAAGTTGCA
* * * ** *
68286279 GTGGAGCAGATTGAGGATAGTCTACAAAT
65 ATGGAGTAGATCGATCATAG---A-AAAC
* * * ** *
68286308 CTCATCTCCCTGAGGTTGCA-TGGAGCAGATTGAAGCCACAACTCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTCGCAGTGGAGCAGATTGAAGTTACAACTCTTATCTCCCTGAAGTTGCAA
68286372 TGGAGTAGATCGATCATAGAAAAC
66 TGGAGTAGATCGATCATAGAAAAC
* * * * * * * *
68286396 CTTATCTCTCTAAAGTCACAGTGGAGCAGGTTGAAGTTATAAGTCTTATCCCCCTCAAGTTGCAA
1 CTTATCTCCCTGAAGTCGCAGTGGAGCAGATTGAAGTTACAACTCTTATCTCCCTGAAGTTGCAA
*
68286461 TGAAGTAG
66 TGGAGTAG
68286469 GCTGAAGATA
Statistics
Matches: 195, Mismatches: 53, Indels: 14
0.74 0.20 0.05
Matches are distributed among these distances:
88 17 0.09
89 77 0.39
90 32 0.16
92 36 0.18
93 14 0.07
94 19 0.10
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (89 bp):
CTTATCTCCCTGAAGTCGCAGTGGAGCAGATTGAAGTTACAACTCTTATCTCCCTGAAGTTGCAA
TGGAGTAGATCGATCATAGAAAAC
Found at i:68286342 original size:226 final size:224
Alignment explanation
Indices: 68285943--68286381 Score: 637
Period size: 226 Copynumber: 2.0 Consensus size: 224
68285933 GAAGCCACGA
* * * *
68285943 ATCTTATCTCGCTGAAGTTGCAGTGGAGTAGATCAATCATAGAAAACCTTATCTCTCTAAGTTGC
1 ATCTTATCTCCCAGAAGTTGCAATGGAGTAGATCAATCATAGAAAACCTTATCTCTCTAAGTCGC
* * *
68286008 AGAGGAGCAGGTTGAAGTTACAAATCTTATCTCCCTGAAGTAGCAGTGGAGCATATTGAAGACAG
66 AGAGGAGCAGGTTAAAGATACAAATCTTATCTCCCTGAAGTAGCAGTGGAGCAGATTGAAGACAG
68286073 ACTACAAATCTCATCTCCCTAAGGTTGCATGGAGCAAATTGAAGCCACAAATCTTATCTCCCTGA
131 ACTACAAATCTCATCTCCCTAAGGTTGCATGGAGCAAATTGAAGCCACAAATCTTATCTCCCTGA
* *
68286138 ATTTGCAGTTGAGTAGATTGAAGTTATAG
196 AGTTGCAGTGGAGTAGATTGAAGTTATAG
*
68286167 ATCTTATCTCCCAGAAGTTGCAATGGAGTAGATCGATCATAGAAAACCTTATCT-TCCTGAAGTC
1 ATCTTATCTCCCAGAAGTTGCAATGGAGTAGATCAATCATAGAAAACCTTATCTCT-CT-AAGTC
* * ** * * * *
68286231 GCAGTGGAGTAGGTTAAAGATACCAAATCTTATCTCTTTGGAGTTGTAGTGGAGCAGATTGAGGA
64 GCAGAGGAGCAGGTTAAAGATA-CAAATCTTATCTCCCTGAAGTAGCAGTGGAGCAGATTGAAGA
* * * * *
68286296 TAGTCTACAAATCTCATCTCCCTGAGGTTGCATGGAGCAGATTGAAGCCACAACTCTTATCTCCC
128 CAGACTACAAATCTCATCTCCCTAAGGTTGCATGGAGCAAATTGAAGCCACAAATCTTATCTCCC
68286361 TGAAGTTGCAGTGGAGTAGAT
193 TGAAGTTGCAGTGGAGTAGAT
68286382 CGATCATAGA
Statistics
Matches: 189, Mismatches: 23, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
223 1 0.01
224 52 0.28
225 22 0.12
226 114 0.60
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (224 bp):
ATCTTATCTCCCAGAAGTTGCAATGGAGTAGATCAATCATAGAAAACCTTATCTCTCTAAGTCGC
AGAGGAGCAGGTTAAAGATACAAATCTTATCTCCCTGAAGTAGCAGTGGAGCAGATTGAAGACAG
ACTACAAATCTCATCTCCCTAAGGTTGCATGGAGCAAATTGAAGCCACAAATCTTATCTCCCTGA
AGTTGCAGTGGAGTAGATTGAAGTTATAG
Found at i:68286504 original size:226 final size:226
Alignment explanation
Indices: 68286028--68286516 Score: 527
Period size: 226 Copynumber: 2.2 Consensus size: 226
68286018 GTTGAAGTTA
* ** * * *
68286028 CAAATCTTATCTCCCTGAAGTAGCAGTGGAGCATATTGAAGACAGACTACAAATCTCATCTCCCT
1 CAAATCATATCTCTTTGAAGTTGTAGTGGAGCAGATTGAAGACAGACTACAAATCTCATCTCCCT
* * *
68286093 AAGGTTGCATGGAGCAAATTGAAGCCACAAATCTTATCTCCCTGAATTTGCAGTTGAGTAGATTG
66 AAGGTTGCATGGAGCAAATTGAAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCG
* * ** * * **
68286158 AAGTTATAGATCTTATCTCCCAGAAGTTGCAATGGAGTAGATCGATCATAGAAAACCTTATCTTC
131 AAGTCATAGACCTTATCTCCCAGAAGTCACAATGGAGCAGATCGAACATAGAAAACCTTATCCCC
* * * *
68286223 CTGAAGTCGCAGTGGAGTAGGTTAAAGATAC
196 CTCAAGTCGCAATGAAGTAGGCTAAAGATAC
* * * * *
68286254 CAAATCTTATCTCTTTGGAGTTGTAGTGGAGCAGATTGAGGATAGTCTACAAATCTCATCTCCCT
1 CAAATCATATCTCTTTGAAGTTGTAGTGGAGCAGATTGAAGACAGACTACAAATCTCATCTCCCT
* * *
68286319 GAGGTTGCATGGAGCAGATTGAAGCCACAACTCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCG
66 AAGGTTGCATGGAGCAAATTGAAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCG
* * * * ** * **
68286384 -A-TCATAGAAAACCTTATCTCTCTA-AAGTCACAGTGGAGCAGGTTGAAGTTA-TAAGTCTTAT
131 AAGTCATAG---ACCTTATCTC-CCAGAAGTCACAATGGAGCAGATCGAACATAGAAAACCTTAT
* * *
68286445 CCCCCTCAAGTTGCAATGAAGTAGGCTGAAGATAG
192 CCCCCTCAAGTCGCAATGAAGTAGGCTAAAGATAC
* *
68286480 CAAATCATATCTTTTTGAAGTTGTAGTGGAGTAGATT
1 CAAATCATATCTCTTTGAAGTTGTAGTGGAGCAGATT
68286517 AAAGCCGTAG
Statistics
Matches: 216, Mismatches: 43, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
224 5 0.02
225 1 0.00
226 181 0.84
227 27 0.12
228 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (226 bp):
CAAATCATATCTCTTTGAAGTTGTAGTGGAGCAGATTGAAGACAGACTACAAATCTCATCTCCCT
AAGGTTGCATGGAGCAAATTGAAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCG
AAGTCATAGACCTTATCTCCCAGAAGTCACAATGGAGCAGATCGAACATAGAAAACCTTATCCCC
CTCAAGTCGCAATGAAGTAGGCTAAAGATAC
Found at i:68286674 original size:229 final size:225
Alignment explanation
Indices: 68286399--68286885 Score: 502
Period size: 229 Copynumber: 2.1 Consensus size: 225
68286389 AGAAAACCTT
** * * * * *
68286399 ATCTCTCTAAAGTCACAGTGGAGCAGGTTGAAGTTATAAGTCTTATC-CCCCTCAAGTTGCAATG
1 ATCTCTCTAAAGTTGCAGTGGAGCAGATTAAAGCTACAAGTCTTATCTCCCC-AAAGTTGCAATG
* * * ** * * *
68286463 AAGTAG-GCTGAAGATAGCAAATCATATCTTTTTGAAGTTGTAGTGGAGTAGATTAAAGC-CGTA
65 AAGTAGATC-GAAGATAGCAAATCATATCTCTCTGAAGTTACAGTAGAGCAAATTAAAGCTC-TA
* * * *
68286526 GATCTTATCTC-CTTGAAGTGGCATTGGAGCAGACT-GAAGATAGCGAATCTTATTTCCCTGAAG
128 AACCTTATCTCTCTT--A-T---AGTGGAGCAG-CTAGAAGATAGCAAATCTTATTTCCCTGAAG
* * * **
68286589 TTGCAGTGGAACATATTAAAACTA-CAAATTACAAATCTA
186 TTACAGTGGAACAGATTAAAACCATCAAAGCACAAATCTA
* *
68286628 ATCTCTCTAAAGTTGCAGTGGAGCAGATTAAAGCTGC-AGATCTTATCTCCCCAAAGTTGCAGTG
1 ATCTCTCTAAAGTTGCAGTGGAGCAGATTAAAGCTACAAG-TCTTATCTCCCCAAAGTTGCAATG
* * * *
68286692 GAGTAGATCGAGGATAGTAAATCTTATCTCTCTGAAGTTACAGTAGAGCAAATTAAAGCTCTAAA
65 AAGTAGATCGAAGATAGCAAATCATATCTCTCTGAAGTTACAGTAGAGCAAATTAAAGCTCTAAA
* *
68286757 CCTTATCTCTCTTATAGTGGAGCAGGTAGAAGATAGCAAATCTTATTTCCCTGAGGTTACAGTGG
130 CCTTATCTCTCTTATAGTGGAGCAGCTAGAAGATAGCAAATCTTATTTCCCTGAAGTTACAGTGG
* *
68286822 AACAGATTAAAGCCATCAAAGCACAAATCTT
195 AACAGATTAAAACCATCAAAGCACAAATCTA
* *
68286853 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG
1 ATCTCTCTAAAGTTGCAGTGGAGCAGATTAAAG
68286886 TGACAATACC
Statistics
Matches: 215, Mismatches: 36, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
223 1 0.00
224 55 0.26
225 43 0.20
227 1 0.00
228 3 0.01
229 103 0.48
230 9 0.04
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.29
Consensus pattern (225 bp):
ATCTCTCTAAAGTTGCAGTGGAGCAGATTAAAGCTACAAGTCTTATCTCCCCAAAGTTGCAATGA
AGTAGATCGAAGATAGCAAATCATATCTCTCTGAAGTTACAGTAGAGCAAATTAAAGCTCTAAAC
CTTATCTCTCTTATAGTGGAGCAGCTAGAAGATAGCAAATCTTATTTCCCTGAAGTTACAGTGGA
ACAGATTAAAACCATCAAAGCACAAATCTA
Found at i:68286747 original size:140 final size:140
Alignment explanation
Indices: 68286497--68286748 Score: 317
Period size: 140 Copynumber: 1.8 Consensus size: 140
68286487 TATCTTTTTG
* * * *** *
68286497 AAGTTGTAGTGGAGTAGATTAAAGCCGTAGATCTTATCTCCTTGAAGTGGCATTGGAGCAGACTG
1 AAGTTGCAGTGGAGCAGATTAAAGCCGCAGATCTTATCTCCCCAAAGTGGCAGTGGAGCAGACTG
* * * * *
68286562 AAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACATATTAAAACTACAAATTACAAATCT
66 AAGATAGCAAATCTTATCTCCCTGAAGTTACAGTAGAACAAATTAAAACTACAAATTACAAATCT
68286627 AATCTCTCTA
131 AATCTCTCTA
* * *
68286637 AAGTTGCAGTGGAGCAGATTAAAGCTGCAGATCTTATCTCCCCAAAGTTGCAGTGGAGTAGA-TC
1 AAGTTGCAGTGGAGCAGATTAAAGCCGCAGATCTTATCTCCCCAAAGTGGCAGTGGAGCAGACT-
* * * *
68286701 GAGGATAGTAAATCTTATCTCTCTGAAGTTACAGTAGAGCAAATTAAA
65 GAAGATAGCAAATCTTATCTCCCTGAAGTTACAGTAGAACAAATTAAA
68286749 GCTCTAAACC
Statistics
Matches: 92, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
139 1 0.01
140 91 0.99
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (140 bp):
AAGTTGCAGTGGAGCAGATTAAAGCCGCAGATCTTATCTCCCCAAAGTGGCAGTGGAGCAGACTG
AAGATAGCAAATCTTATCTCCCTGAAGTTACAGTAGAACAAATTAAAACTACAAATTACAAATCT
AATCTCTCTA
Found at i:68289444 original size:30 final size:30
Alignment explanation
Indices: 68289410--68289467 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
68289400 CTGGGCACTT
* * * *
68289410 CCACACGGGCTGGGCACACTCCCGTGTGAG
1 CCACACGAGCTGGCCACACGCCCATGTGAG
68289440 CCACACGAGCTGGCCACACGCCCATGTG
1 CCACACGAGCTGGCCACACGCCCATGTG
68289468 CCAACCTGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.19, C:0.40, G:0.29, T:0.12
Consensus pattern (30 bp):
CCACACGAGCTGGCCACACGCCCATGTGAG
Found at i:68293842 original size:25 final size:25
Alignment explanation
Indices: 68293786--68293845 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
68293776 AGGGCTACTG
*
68293786 ATTCTAGCTCTTATGAGCTTACCGAT
1 ATTC-AGCTCGTATGAGCTTACCGAT
*
68293812 ACTCAGCTCGTATGAGCTTACC-ATT
1 ATTCAGCTCGTATGAGCTTACCGA-T
68293837 ATTCAGCTC
1 ATTCAGCTC
68293846 AGAGGAGCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 1 0.03
25 26 0.87
26 3 0.10
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.35
Consensus pattern (25 bp):
ATTCAGCTCGTATGAGCTTACCGAT
Found at i:68293853 original size:25 final size:25
Alignment explanation
Indices: 68293791--68293859 Score: 61
Period size: 25 Copynumber: 2.8 Consensus size: 25
68293781 TACTGATTCT
* *
68293791 AGCTCTTATGAGCTTACCGATACTC
1 AGCTCGTAGGAGCTTACCGATACTC
* *
68293816 AGCTCGTATGAGCTTACC-ATTATTC
1 AGCTCGTAGGAGCTTACCGA-TACTC
*
68293841 AGCTCAG-AGGAGCATACCG
1 AGCTC-GTAGGAGCTTACCG
68293860 TTTATTGTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
24 1 0.03
25 35 0.95
26 1 0.03
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (25 bp):
AGCTCGTAGGAGCTTACCGATACTC
Found at i:68296261 original size:29 final size:29
Alignment explanation
Indices: 68296224--68296289 Score: 114
Period size: 29 Copynumber: 2.3 Consensus size: 29
68296214 TTCTTTTTGG
*
68296224 AAAAGAAAGCCAAAATTTTAAAAGTGGGA
1 AAAATAAAGCCAAAATTTTAAAAGTGGGA
*
68296253 AAAATAAAGCCAAAATTTTGAAAGTGGGA
1 AAAATAAAGCCAAAATTTTAAAAGTGGGA
68296282 AAAATAAA
1 AAAATAAA
68296290 AATAAAATAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.58, C:0.06, G:0.18, T:0.18
Consensus pattern (29 bp):
AAAATAAAGCCAAAATTTTAAAAGTGGGA
Found at i:68296296 original size:29 final size:29
Alignment explanation
Indices: 68296234--68296297 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
68296224 AAAAGAAAGC
**
68296234 CAAAATTTTAAAAGTGGGAAAAATAAAGC
1 CAAAATTTTAAAAGTGGGAAAAATAAAAA
*
68296263 CAAAATTTTGAAAGTGGGAAAAATAAAAA
1 CAAAATTTTAAAAGTGGGAAAAATAAAAA
*
68296292 TAAAAT
1 CAAAAT
68296298 ACCGATAACC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.58, C:0.05, G:0.16, T:0.22
Consensus pattern (29 bp):
CAAAATTTTAAAAGTGGGAAAAATAAAAA
Found at i:68303137 original size:3 final size:3
Alignment explanation
Indices: 68303131--68303237 Score: 83
Period size: 3 Copynumber: 35.7 Consensus size: 3
68303121 AAGGGAAAAT
* ** * * * *
68303131 ATA ATA ATA GTA ACG ATA ATA AGA ATA ATA ACA ATA ATA ATA GTA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
68303179 AAA ATA AAA ATA ATTA A-A A-A AGTA ATA ATA ATA ATA ATA ACA ATA
1 ATA ATA ATA ATA A-TA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA
*
68303224 GTA ATA ATA ATA AT
1 ATA ATA ATA ATA AT
68303238 GTTAAATAAT
Statistics
Matches: 80, Mismatches: 21, Indels: 6
0.75 0.20 0.06
Matches are distributed among these distances:
2 4 0.05
3 71 0.89
4 5 0.06
ACGTcount: A:0.64, C:0.04, G:0.06, T:0.26
Consensus pattern (3 bp):
ATA
Found at i:68303236 original size:18 final size:18
Alignment explanation
Indices: 68303131--68303236 Score: 95
Period size: 18 Copynumber: 5.7 Consensus size: 18
68303121 AAGGGAAAAT
* *
68303131 ATAATAATAGTAACGATA
1 ATAATAATAATAACAATA
*
68303149 ATAAGAATAATAACAATA
1 ATAATAATAATAACAATA
* * *
68303167 ATAATAGTAACAAAAATA
1 ATAATAATAATAACAATA
* * *
68303185 AAAATAATTAAAAAAGTAATA
1 ATAATAA-T-AATAA-CAATA
68303206 ATAATAATAATAACAATA
1 ATAATAATAATAACAATA
*
68303224 GTAATAATAATAA
1 ATAATAATAATAA
68303237 TGTTAAATAA
Statistics
Matches: 70, Mismatches: 15, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
18 50 0.71
19 5 0.07
20 5 0.07
21 10 0.14
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.25
Consensus pattern (18 bp):
ATAATAATAATAACAATA
Found at i:68316552 original size:12 final size:11
Alignment explanation
Indices: 68316530--68316574 Score: 56
Period size: 12 Copynumber: 4.0 Consensus size: 11
68316520 ATTTAGCCAT
68316530 TTTTA-TTTTA
1 TTTTATTTTTA
68316540 TTTTACTTTTTA
1 TTTTA-TTTTTA
68316552 TTTTATTTTTA
1 TTTTATTTTTA
*
68316563 GTTTAATTTTTA
1 -TTTTATTTTTA
68316575 CATTCTAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 5 0.16
11 6 0.19
12 20 0.65
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:68317698 original size:17 final size:19
Alignment explanation
Indices: 68317664--68317701 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
68317654 TAAATAAATA
68317664 AAAATAAATAAAACATGAC
1 AAAATAAATAAAACATGAC
68317683 AAAATAAA-AAAA-ATGAC
1 AAAATAAATAAAACATGAC
68317700 AA
1 AA
68317702 TGATAACGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 4 0.21
19 8 0.42
ACGTcount: A:0.74, C:0.08, G:0.05, T:0.13
Consensus pattern (19 bp):
AAAATAAATAAAACATGAC
Found at i:68317724 original size:3 final size:3
Alignment explanation
Indices: 68317716--68317829 Score: 56
Period size: 3 Copynumber: 39.0 Consensus size: 3
68317706 AACGAAAACG
* * * * *
68317716 ATA ATA ATA ATA GTA AT- ATAA ATA ATG ATA ATA GTG GTA A-A AT-
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
68317759 ATG ATA ATA CTA ATG ATA ATA ATA ATA GTC AT- ATA AGA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
68317806 TTA GTA ATA ATA ATA ATG ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA
68317830 CAAATAATGC
Statistics
Matches: 81, Mismatches: 25, Indels: 10
0.70 0.22 0.09
Matches are distributed among these distances:
2 8 0.10
3 71 0.88
4 2 0.02
ACGTcount: A:0.54, C:0.02, G:0.10, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:68318187 original size:21 final size:21
Alignment explanation
Indices: 68318163--68318242 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
68318153 GTGTGTACAT
*
68318163 AATATGTACATGATATATAAA
1 AATATGTACATAATATATAAA
*
68318184 AATA--TACATAATATATTAA
1 AATATGTACATAATATATAAA
*
68318203 AATATAG-ACATAATATACAAA
1 AATAT-GTACATAATATATAAA
* *
68318224 AATATATATAT-ATATATAA
1 AATATGTACATAATATATAA
68318243 CATTCGAAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
19 17 0.35
20 7 0.15
21 24 0.50
ACGTcount: A:0.57, C:0.05, G:0.04, T:0.34
Consensus pattern (21 bp):
AATATGTACATAATATATAAA
Found at i:68318197 original size:19 final size:19
Alignment explanation
Indices: 68318169--68318242 Score: 85
Period size: 19 Copynumber: 3.7 Consensus size: 19
68318159 ACATAATATG
*
68318169 TACATGATATATAAAAATA
1 TACATAATATATAAAAATA
68318188 TACATAATATATTAAAATATA
1 TACATAATATA-TAAAA-ATA
* *
68318209 GACATAATATACAAAAATA
1 TACATAATATATAAAAATA
*
68318228 TATATATATATATAA
1 TACATA-ATATATAA
68318243 CATTCGAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
19 17 0.37
20 16 0.35
21 13 0.28
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (19 bp):
TACATAATATATAAAAATA
Found at i:68321402 original size:39 final size:40
Alignment explanation
Indices: 68321305--68321525 Score: 261
Period size: 40 Copynumber: 5.5 Consensus size: 40
68321295 ATGATGTCCA
* * * *
68321305 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCG
* * *
68321345 GACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
*
68321385 GGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
* *
68321424 GGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
* * *
68321464 GGTTAAGTCCCGAAGGCATTTGTGCTAGGTACTATAA-CCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCG
*
68321504 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
68321526 AACGAGTAGC
Statistics
Matches: 159, Mismatches: 17, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
39 34 0.21
40 115 0.72
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
Found at i:68329582 original size:40 final size:40
Alignment explanation
Indices: 68329351--68329575 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
68329341 TCGAATGATG
* * * *
68329351 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
68329391 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
68329431 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
68329470 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
68329510 TCCGGGTTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
68329551 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
68329576 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 33 0.20
40 119 0.74
41 9 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:68337627 original size:13 final size:13
Alignment explanation
Indices: 68337609--68337634 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
68337599 ATTTTCCCTA
68337609 TTATTATTTTATT
1 TTATTATTTTATT
68337622 TTATTATTTTATT
1 TTATTATTTTATT
68337635 ATTTTTCTTT
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTATTATTTTATT
Found at i:68337628 original size:8 final size:8
Alignment explanation
Indices: 68337607--68337639 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
68337597 CTATTTTCCC
68337607 TATTATTAT
1 TATTATT-T
68337616 T-TTATTT
1 TATTATTT
68337623 TATTATTT
1 TATTATTT
68337631 TATTATTT
1 TATTATTT
68337639 T
1 T
68337640 TCTTTTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 2 0.09
8 20 0.87
9 1 0.04
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTATTT
Found at i:68337971 original size:16 final size:15
Alignment explanation
Indices: 68337940--68337975 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
68337930 TTCCACTTTG
*
68337940 TTTCTTATTTTTATT
1 TTTCTTATTATTATT
68337955 TTTCTTCATTATTATT
1 TTTCTT-ATTATTATT
68337971 TTTCT
1 TTTCT
68337976 CACTTCTGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTCTTATTATTATT
Found at i:68339453 original size:13 final size:12
Alignment explanation
Indices: 68339435--68339488 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 12
68339425 AGTTTATTTG
68339435 TTTTATTTTTAGT
1 TTTTATTTTTA-T
*
68339448 TTTTATGTTTAT
1 TTTTATTTTTAT
* *
68339460 GTTTATTTTTGT
1 TTTTATTTTTAT
68339472 TGTTTCATTTTTAT
1 T-TTT-ATTTTTAT
68339486 TTT
1 TTT
68339489 CTTAGACTTC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
12 10 0.30
13 15 0.45
14 8 0.24
ACGTcount: A:0.13, C:0.02, G:0.09, T:0.76
Consensus pattern (12 bp):
TTTTATTTTTAT
Found at i:68339458 original size:19 final size:19
Alignment explanation
Indices: 68339436--68339488 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
68339426 GTTTATTTGT
68339436 TTTATTTTTAGTTTTT-ATG
1 TTTATTTTTA-TTTTTGATG
* *
68339455 TTTATGTTTATTTTTGTTG
1 TTTATTTTTATTTTTGATG
68339474 TTTCATTTTTATTTT
1 TTT-ATTTTTATTTT
68339489 CTTAGACTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 5 0.17
19 14 0.48
20 10 0.34
ACGTcount: A:0.13, C:0.02, G:0.09, T:0.75
Consensus pattern (19 bp):
TTTATTTTTATTTTTGATG
Found at i:68344369 original size:9 final size:10
Alignment explanation
Indices: 68344347--68344371 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
68344337 AATAAGGCCG
68344347 TTTTAATTAT
1 TTTTAATTAT
68344357 TTTTAATTAT
1 TTTTAATTAT
68344367 TTTTA
1 TTTTA
68344372 GTATGTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
TTTTAATTAT
Found at i:68346813 original size:26 final size:26
Alignment explanation
Indices: 68346777--68346832 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
68346767 CCGGTTATAG
68346777 TAACTCGCACAAATGCCTTCGGGACT
1 TAACTCGCACAAATGCCTTCGGGACT
68346803 TAACTCGCACAAATGCCTTCGGGACT
1 TAACTCGCACAAATGCCTTCGGGACT
68346829 TAAC
1 TAAC
68346833 CCGGATTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (26 bp):
TAACTCGCACAAATGCCTTCGGGACT
Found at i:68346858 original size:40 final size:40
Alignment explanation
Indices: 68346803--68346917 Score: 144
Period size: 40 Copynumber: 2.9 Consensus size: 40
68346793 CTTCGGGACT
* *
68346803 TAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAG
1 TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
* *
68346843 TAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGG
1 TAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATAG
* *
68346883 TCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
68346918 CATCATTCAA
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
39 3 0.05
40 51 0.78
41 11 0.17
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
Found at i:68349502 original size:14 final size:14
Alignment explanation
Indices: 68349480--68349524 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
68349470 TAGTGGGAAT
*
68349480 CCCCTTTGTGCAAG
1 CCCCCTTGTGCAAG
68349494 CCCCCTTGTGCAAG
1 CCCCCTTGTGCAAG
* *
68349508 CCCTC-TGTGCAAA
1 CCCCCTTGTGCAAG
68349521 CCCC
1 CCCC
68349525 TTAGTGTGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
13 10 0.37
14 17 0.63
ACGTcount: A:0.16, C:0.44, G:0.18, T:0.22
Consensus pattern (14 bp):
CCCCCTTGTGCAAG
Found at i:68349768 original size:36 final size:36
Alignment explanation
Indices: 68349717--68349792 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
68349707 CGAACCTAAA
68349717 CTATATATTTCATGCAAACCCTAAGAATATGCGAGC
1 CTATATATTTCATGCAAACCCTAAGAATATGCGAGC
* *
68349753 CTATATATGTT-ATGCAAACCCTAGGAATATGTGAGC
1 CTATATAT-TTCATGCAAACCCTAAGAATATGCGAGC
68349789 CTAT
1 CTAT
68349793 GCGTTATGTG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
36 35 0.95
37 2 0.05
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (36 bp):
CTATATATTTCATGCAAACCCTAAGAATATGCGAGC
Found at i:68351677 original size:13 final size:12
Alignment explanation
Indices: 68351658--68351691 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
68351648 AAAATTTAAG
68351658 ATTTAATTTATA
1 ATTTAATTTATA
*
68351670 ACTTTAATTTATT
1 A-TTTAATTTATA
68351683 ATTTAATTT
1 ATTTAATTT
68351692 GATTCAACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (12 bp):
ATTTAATTTATA
Found at i:68353737 original size:7 final size:7
Alignment explanation
Indices: 68353669--68353766 Score: 60
Period size: 7 Copynumber: 13.9 Consensus size: 7
68353659 ATCCTATATA
68353669 TATATATT
1 TATAT-TT
68353677 TATATTGT
1 TATATT-T
68353685 TAT-TTGT
1 TATATT-T
*
68353692 TTTATCTT
1 TATAT-TT
68353700 TA-ATTT
1 TATATTT
68353706 TA-ATTTT
1 TATA-TTT
*
68353713 TATGTTT
1 TATATTT
68353720 TATATTT
1 TATATTT
68353727 TATATTT
1 TATATTT
* *
68353734 TATAATA
1 TATATTT
*
68353741 T-TATTA
1 TATATTT
*
68353747 TATATTA
1 TATATTT
*
68353754 TATATTA
1 TATATTT
68353761 TATATT
1 TATATT
68353767 ATTTTTCATG
Statistics
Matches: 77, Mismatches: 7, Indels: 13
0.79 0.07 0.13
Matches are distributed among these distances:
6 10 0.13
7 54 0.70
8 12 0.16
9 1 0.01
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (7 bp):
TATATTT
Found at i:68353747 original size:3 final size:3
Alignment explanation
Indices: 68353739--68353802 Score: 58
Period size: 3 Copynumber: 20.0 Consensus size: 3
68353729 TATTTTATAA
* *
68353739 TAT TAT TAT ATAT TAT ATAT TAT ATAT TAT TTT TCAT GAAT TAT TAT
1 TAT TAT TAT -TAT TAT -TAT TAT -TAT TAT TAT T-AT -TAT TAT TAT
68353786 T-T TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT
68353803 ATTTTCGCTT
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
2 2 0.04
3 37 0.73
4 12 0.24
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:68353767 original size:7 final size:7
Alignment explanation
Indices: 68353720--68353768 Score: 64
Period size: 7 Copynumber: 7.1 Consensus size: 7
68353710 TTTTATGTTT
*
68353720 TATATTT
1 TATATTA
*
68353727 TATATTT
1 TATATTA
*
68353734 TATAATA
1 TATATTA
68353741 T-TATTA
1 TATATTA
68353747 TATATTA
1 TATATTA
68353754 TATATTA
1 TATATTA
68353761 TATATTA
1 TATATTA
68353768 T
1 T
68353769 TTTTCATGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
6 5 0.13
7 33 0.87
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (7 bp):
TATATTA
Found at i:68353798 original size:17 final size:17
Alignment explanation
Indices: 68353717--68353802 Score: 65
Period size: 17 Copynumber: 5.1 Consensus size: 17
68353707 AATTTTTATG
68353717 TTTTA-TATT-TTA-TA
1 TTTTATTATTATTATTA
68353731 TTTTATAATATTATTA-TA
1 TTTTAT--TATTATTATTA
*
68353749 TATTATATATTATATATTA
1 TTTTAT-TATTAT-TATTA
* *
68353768 TTTT-TCATGAATTATTA
1 TTTTATTAT-TATTATTA
68353785 TTTTATTATTATTATTA
1 TTTTATTATTATTATTA
68353802 T
1 T
68353803 ATTTTCGCTT
Statistics
Matches: 58, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
14 5 0.09
17 30 0.52
18 18 0.31
19 5 0.09
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (17 bp):
TTTTATTATTATTATTA
Found at i:68354173 original size:26 final size:27
Alignment explanation
Indices: 68354117--68354174 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 27
68354107 TTTAAAAATG
*
68354117 ATATTTTTATATTCTTTTATATACTCT
1 ATATTTTTATATTCTTTTATATACTAT
68354144 -TATTTTTATATTCTTTTA-A-ACTAAT
1 ATATTTTTATATTCTTTTATATACT-AT
68354169 ATATTT
1 ATATTT
68354175 CCTATGCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 3 0.11
25 2 0.07
26 23 0.82
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (27 bp):
ATATTTTTATATTCTTTTATATACTAT
Found at i:68354458 original size:17 final size:16
Alignment explanation
Indices: 68354419--68354461 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
68354409 GTATGTCATA
* *
68354419 CATTATTTAATTTTTG
1 CATTATTTAATATCTG
68354435 C-TTATTTATATATCTG
1 CATTATTTA-ATATCTG
68354451 CATTATTTAAT
1 CATTATTTAAT
68354462 TATTACTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 7 0.30
16 9 0.39
17 7 0.30
ACGTcount: A:0.28, C:0.09, G:0.05, T:0.58
Consensus pattern (16 bp):
CATTATTTAATATCTG
Found at i:68371239 original size:15 final size:15
Alignment explanation
Indices: 68371219--68371249 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
68371209 TCTCACATGA
68371219 TGTTTCACATGTTAT
1 TGTTTCACATGTTAT
68371234 TGTTTCACATGTTAT
1 TGTTTCACATGTTAT
68371249 T
1 T
68371250 CAAGTTTCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.13, G:0.13, T:0.55
Consensus pattern (15 bp):
TGTTTCACATGTTAT
Found at i:68372463 original size:17 final size:17
Alignment explanation
Indices: 68372420--68372454 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
68372410 TATCTCAAAA
* *
68372420 TAAAATTATATTTATAT
1 TAAAATTTTAATTATAT
68372437 TAAAATTTTAATTATAT
1 TAAAATTTTAATTATAT
68372454 T
1 T
68372455 TATATTTTAT
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TAAAATTTTAATTATAT
Found at i:68375720 original size:14 final size:16
Alignment explanation
Indices: 68375701--68375732 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
68375691 CATAAAGTAC
68375701 AATAAA-CC-ACAATT
1 AATAAATCCAACAATT
68375715 AATAAATCCAACAATT
1 AATAAATCCAACAATT
68375731 AA
1 AA
68375733 ATACAACTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 2 0.12
16 8 0.50
ACGTcount: A:0.59, C:0.19, G:0.00, T:0.22
Consensus pattern (16 bp):
AATAAATCCAACAATT
Found at i:68382096 original size:146 final size:148
Alignment explanation
Indices: 68381834--68382149 Score: 408
Period size: 146 Copynumber: 2.1 Consensus size: 148
68381824 AATGTGTGAT
* **
68381834 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTTGAAAGACAGAAATTGAAAATAC
1 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTAA---TTTTTGAAAGACAGAAATTGAAAATAC
*
68381899 CTCAGCATGTGAACCGAGACTCAATTCACCTCTCGCAATATAAGTTGATTTTTTTGAA-AACAGA
63 CTCAGCA-GTGAACCGAGACTCAACTCACCTCTCGCAATATAAGTTGATTTTTTT-AACAACAGA
*
68381963 AATTGAAAATACCTCAACGTTTC
126 AATTGAAAATACCTCAACGTGTC
* *
68381986 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-TTTTGAAA-ACAGAAATTGAAATTACCT
1 CTGAGGCTCAACTCATTTCTCGCAATATGAGTT-AATTTTTGAAAGACAGAAATTGAAAATACCT
* * ** *
68382049 CAGC-GTG-TCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAAT
65 CAGCAGTGAACC-GAGACTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTAACAACAGAAAT
* *
68382112 TGAAATTACCTCAGCGTGTC
129 TGAAAATACCTCAACGTGTC
68382132 CTGAGGCTCAACTCATTT
1 CTGAGGCTCAACTCATTT
68382150 TGAACAGAAA
Statistics
Matches: 146, Mismatches: 15, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
145 4 0.03
146 81 0.55
148 22 0.15
149 8 0.05
152 29 0.20
153 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.32
Consensus pattern (148 bp):
CTGAGGCTCAACTCATTTCTCGCAATATGAGTTAATTTTTGAAAGACAGAAATTGAAAATACCTC
AGCAGTGAACCGAGACTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTAACAACAGAAATTG
AAAATACCTCAACGTGTC
Found at i:68382136 original size:74 final size:74
Alignment explanation
Indices: 68381834--68382149 Score: 406
Period size: 74 Copynumber: 4.2 Consensus size: 74
68381824 AATGTGTGAT
* ** *
68381834 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTTGAAAGACAGAAATTGAAAATAC
1 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTTTTGAAA-ACAGAAATTGAAAATAC
*
68381899 CTCAGCATGTGAAC
64 CTCAGC--GTG-TC
* * ** *
68381913 C-GAGACTCAATTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCT
1 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCT
* *
68381977 CAACGTTTC
66 CAGCGTGTC
* * *
68381986 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCT
1 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCT
68382049 CAGCGTGTC
66 CAGCGTGTC
*
68382058 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTT-AACAACAGAAATTGAAATTACC
1 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGAA-AACAGAAATTGAAAATACC
68382122 TCAGCGTGTC
65 TCAGCGTGTC
68382132 CTGAGGCTCAACTCATTT
1 CTGAGGCTCAACTCATTT
68382150 TGAACAGAAA
Statistics
Matches: 213, Mismatches: 20, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
72 67 0.31
73 3 0.01
74 81 0.38
76 22 0.10
77 11 0.05
78 28 0.13
79 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.32
Consensus pattern (74 bp):
CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCT
CAGCGTGTC
Found at i:68382169 original size:49 final size:49
Alignment explanation
Indices: 68382103--68382198 Score: 174
Period size: 49 Copynumber: 2.0 Consensus size: 49
68382093 TTTTTTTAAC
*
68382103 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTTG
1 AACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCATTTTG
*
68382152 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
1 AACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCATTT
68382199 CTCGCAATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (49 bp):
AACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCATTTTG
Found at i:68382261 original size:72 final size:72
Alignment explanation
Indices: 68382152--68382292 Score: 264
Period size: 72 Copynumber: 2.0 Consensus size: 72
68382142 ACTCATTTTG
* *
68382152 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAACTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTCAA
68382217 TTTTGAA
66 TTTTGAA
68382224 AACAGAAACTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTCAA
1 AACAGAAACTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTCAA
68382289 TTTT
66 TTTT
68382293 TTTTGAAAGA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 67 1.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.32
Consensus pattern (72 bp):
AACAGAAACTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTCAA
TTTTGAA
Found at i:68382439 original size:54 final size:55
Alignment explanation
Indices: 68382339--68382444 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 55
68382329 GAACCGAGGC
* *
68382339 TCAACTCACCCCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCCCTCGCAATATGAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
* * * *
68382393 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAA-CATAAATTGAAAA
1 TCAACCCACCCCTCGCAATATGAGCTGATT-TTGAAAAAGCAGAAATTGAAAA
68382445 CAGAAATTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
54 33 0.75
55 11 0.25
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.26
Consensus pattern (55 bp):
TCAACCCACCCCTCGCAATATGAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
Found at i:68382451 original size:13 final size:13
Alignment explanation
Indices: 68382424--68382457 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
68382414 GAGTTGATTC
*
68382424 TTGAACAACATAAA
1 TTGAA-AACAGAAA
68382438 TTGAAAACAGAAA
1 TTGAAAACAGAAA
68382451 TTGAAAA
1 TTGAAAA
68382458 TACCACAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (13 bp):
TTGAAAACAGAAA
Done.