Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold274
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: 1642345
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 31972 characters in sequence are not A, C, G, or T
File 4 of 10
Found at i:429017 original size:42 final size:42
Alignment explanation
Indices: 428825--430636 Score: 333
Period size: 42 Copynumber: 43.2 Consensus size: 42
428815 AAAGCCAACG
* * * * *
428825 GGCAAACTTAAGATGAGACAGTCTCTAGGGTCAAAGCCGACG
1 GGCAAACTTAAGATAAGAAAGTCTCTAAGGTCAAAGACGACA
* * * * *
428867 GGCAGACTTAAGGA-AAAAGAAGTCTCCAAGGTCAAAGCCGGCA
1 GGCAAACTTAA-GATAAGA-AAGTCTCTAAGGTCAAAGACGACA
* * * * * * * *
428910 GACATACTGAAGGTAAGAAAGTTTCTAAGATCAAAGCCGATA
1 GGCAAACTTAAGATAAGAAAGTCTCTAAGGTCAAAGACGACA
* **
428952 GG-AAGATTTAAGA-AGAGGTAGTCTCTAAGGTCAAAGACGACA
1 GGCAA-ACTTAAGATA-AGAAAGTCTCTAAGGTCAAAGACGACA
* * * *
428994 GGCAAACTAAAGCTAAGAAAGTCTCCAGGGTCAAA-ACTGACA
1 GGCAAACTTAAGATAAGAAAGTCTCTAAGGTCAAAGAC-GACA
* * * ** *
429036 GGCAGACTTGAGATGAGGCAGTCTCCAAGGTCAAA-ACCGACA
1 GGCAAACTTAAGATAAGAAAGTCTCTAAGGTCAAAGA-CGACA
* * * *
429078 GGCAAACTGAAGAGAAAAAAGTCTCT-AGGCTCAAAG-CTAACA
1 GGCAAACTTAAGATAAGAAAGTCTCTAAGG-TCAAAGAC-GACA
* * * * ** *
429120 GACAGA-TTGAAGGGA-AAGGAAGTCTCCAAGGTCAAAGTGGATA
1 GGCAAACTT-AA--GATAAGAAAGTCTCTAAGGTCAAAGACGACA
* * * ** * * *
429163 GGTAGACTTGAGATAAGGCAGTCTCCAAAGTCAAAG-CAGATA
1 GGCAAACTTAAGATAAGAAAGTCTCTAAGGTCAAAGAC-GACA
* * * *
429205 GGCAGACTGAAGGTAA-AGAAGTCTCTAGGGTCAAA-ACCGACA
1 GGCAAACTTAAGATAAGA-AAGTCTCTAAGGTCAAAGA-CGACA
* * * * * ** *
429247 AGTAGACTTGAGATGAGGCAGTCTCTAAGGTTAAAG-CTGACA
1 GGCAAACTTAAGATAAGAAAGTCTCTAAGGTCAAAGAC-GACA
* * * * * *
429289 AGCAGACTGAAGGTAAGAAAGTGTCCAAGGTCAAAG-CGGACA
1 GGCAAACTTAAGATAAGAAAGTCTCTAAGGTCAAAGAC-GACA
* * * * ** * ** ** *
429331 AGCACACTTGAGATGAGGCAGTATCCGAGGTCAAAGTTGATA
1 GGCAAACTTAAGATAAGAAAGTCTCTAAGGTCAAAGACGACA
* * * * * * *
429373 GGTAGACTAAAGGGA-AAGGAAGT-TTTCAGGGTCAAAG-CTGATA
1 GGCAAACTTAA--GATAAGAAAGTCTCT-AAGGTCAAAGAC-GACA
* * * *
429416 GG-AAGACTTGAGATGAAG-CAGTCTCCAAGGTCAAAG-CTGATA
1 GGCAA-ACTTAAGAT-AAGAAAGTCTCTAAGGTCAAAGAC-GACA
* * * * * *
429458 GGCAGACTAAAGGTAAAAAAGTCT-TCAGGGTCAAAGCCGACA
1 GGCAAACTTAAGATAAGAAAGTCTCT-AAGGTCAAAGACGACA
* * * * * *
429500 AGCAAACTGAAGGTAAGAAAGTCT-TCAGGGTCAAAGTCGATA
1 GGCAAACTTAAGATAAGAAAGTCTCT-AAGGTCAAAGACGACA
* * * *** *
429542 -GCTAGACTTAAAATGAGGCTGTCTC-AAGGGTCAAAGCCGACA
1 GGC-AAACTTAAGATAAGAAAGTCTCTAA-GGTCAAAGACGACA
* ** * * * * *
429584 TGCTGACTGAAGGTAAGAAAGTCCCCAAGGTTAAAG--G-CA
1 GGCAAACTTAAGATAAGAAAGTCTCTAAGGTCAAAGACGACA
* * ** ** *
429623 -G---ACATAAGATGAGGCAGTCTCTGGGGTCAAAGATGACA
1 GGCAAACTTAAGATAAGAAAGTCTCTAAGGTCAAAGACGACA
* * * * * * *
429661 AG-AAGACTGAAGGTAAGAAAGTCTCTAGGGTTAATGCCGACA
1 GGCAA-ACTTAAGATAAGAAAGTCTCTAAGGTCAAAGACGACA
* * * ** * *
429703 GGCAAACTTGAGATGAGGCAA-TCTCCGAGGTAAAAGCCGACA
1 GGCAAACTTAAGAT-AAGAAAGTCTCTAAGGTCAAAGACGACA
* * * * *
429745 GGCAGACTGAAGGTAAGAAAGTCT-TAAAGGTCAAAGTCGAGA
1 GGCAAACTTAAGATAAGAAAGTCTCT-AAGGTCAAAGACGACA
* * * * * * **
429787 AGCAGACTTGAGATTAGGCAA-TCTCTAAGGTCAATGTTGACA
1 GGCAAACTTAAGA-TAAGAAAGTCTCTAAGGTCAAAGACGACA
* * * * *
429829 GGTAGACTGAAGGTAAGAAAGTCTCTAAGGTCAAAGCCGACA
1 GGCAAACTTAAGATAAGAAAGTCTCTAAGGTCAAAGACGACA
* * * * * *
429871 GGCAGACTTGAGATGAAG-TAGTCT-TCAAGTTTAAAGCCGACA
1 GGCAAACTTAAGAT-AAGAAAGTCTCT-AAGGTCAAAGACGACA
* * * * * * * *
429913 AG-AAGACTTGAGATGAGGTAA-TTTTTAAGGTTAAAGCCGACA
1 GGCAA-ACTTAAGAT-AAGAAAGTCTCTAAGGTCAAAGACGACA
* * * * * * *
429955 GTCAGACTGAAGAGAAAAAAGTCTCTAGGGTCAAA-ACTGAAA
1 GGCAAACTTAAGATAAGAAAGTCTCTAAGGTCAAAGAC-GACA
* * * * ** * * *
429997 AGCAGACTTGAGATGAGGCAGTCTCCAAAGTCAAA-ATCGATA
1 GGCAAACTTAAGATAAGAAAGTCTCTAAGGTCAAAGA-CGACA
* * * * * * * **
430039 GGCAGACTTGAGATGAGGCAA-TTTTTAAGGTCAAGGTTGACA
1 GGCAAACTTAAGAT-AAGAAAGTCTCTAAGGTCAAAGACGACA
* * * * *
430081 AGCAAACTGAAGGTAAAAAAGTCTCTAAGGTCAAAGTCGACA
1 GGCAAACTTAAGATAAGAAAGTCTCTAAGGTCAAAGACGACA
* * * * ** * * * *
430123 AGTAGACTTGAGATGTGACAGTCTCCAGGGTCAAAGTCGACA
1 GGCAAACTTAAGATAAGAAAGTCTCTAAGGTCAAAGACGACA
* * * *
430165 AGCAAACTAAAGGTAAGAAAGTCTCTAAGGTCAAAG-CTGATA
1 GGCAAACTTAAGATAAGAAAGTCTCTAAGGTCAAAGAC-GACA
* * ** * * ** *
430207 GGCAGACTTGAGATTGGATAGTCTCCAAGGTCAAAGTTGAAA
1 GGCAAACTTAAGATAAGAAAGTCTCTAAGGTCAAAGACGACA
* * * **
430249 GGCAGACTGAATG-TAAGAAAGTCTCCAAGGTCAAAGTTGACA
1 GGCAAACTTAA-GATAAGAAAGTCTCTAAGGTCAAAGACGACA
* * ** * *
430291 GGCAAACTTGAGATGAGGTAGTCTCTAGGGTCAAAGCCGACA
1 GGCAAACTTAAGATAAGAAAGTCTCTAAGGTCAAAGACGACA
* * * * * *
430333 AGCAGACTGAAGGGA-AAGGAAGTCTCTAGGGTCAAAGTCGACA
1 GGCAAACTTAA--GATAAGAAAGTCTCTAAGGTCAAAGACGACA
* * * ** * * *
430376 GGTAGAC-TAGAGATGAGGTAGTTTCCAAGGTCAAAG-CTAACA
1 GGCAAACTTA-AGATAAGAAAGTCTCTAAGGTCAAAGAC-GACA
* * * *
430418 GGTAGACTGAA-AGTAAGAAAGTCTCTAAGGTCAAAG-CAGATA
1 GGCAAACTTAAGA-TAAGAAAGTCTCTAAGGTCAAAGAC-GACA
* * * ** * *
430460 GGCAGACTTGAGATGAGGCAGTCTCTAGGGTCAAAGCCGACA
1 GGCAAACTTAAGATAAGAAAGTCTCTAAGGTCAAAGACGACA
* * * * * *
430502 AGCAGACTAAAGGA-AAGAAAGTCTCTAGGGTCAAAGCCGATA
1 GGCAAACTTAA-GATAAGAAAGTCTCTAAGGTCAAAGACGACA
* * ** * *
430544 GGCAAACTTGAGATGAGGTAGTCTTTAGGGTCAAA-ACAGACA
1 GGCAAACTTAAGATAAGAAAGTCTCTAAGGTCAAAGAC-GACA
* * * *
430586 AGCAAACTGAAGGTAAGAAAGTCTCTAAGGTCAAAGCCGACA
1 GGCAAACTTAAGATAAGAAAGTCTCTAAGGTCAAAGACGACA
* *
430628 TGCAGACTT
1 GGCAAACTT
430637 GAAATGAGGC
Statistics
Matches: 1276, Mismatches: 407, Indels: 174
0.69 0.22 0.09
Matches are distributed among these distances:
35 20 0.02
37 1 0.00
38 3 0.00
39 3 0.00
40 1 0.00
41 46 0.04
42 1039 0.81
43 152 0.12
44 11 0.01
ACGTcount: A:0.38, C:0.17, G:0.27, T:0.18
Consensus pattern (42 bp):
GGCAAACTTAAGATAAGAAAGTCTCTAAGGTCAAAGACGACA
Found at i:429101 original size:126 final size:125
Alignment explanation
Indices: 428844--430635 Score: 709
Period size: 126 Copynumber: 14.2 Consensus size: 125
428834 AAGATGAGAC
* * * * * * *
428844 AGTCTCTAGGGTCAAAGCCGACGGGCAGACTTAAGGA-AAAAGAAGTCTCCAAGGTCAAAGCCGG
1 AGTCTCTAAGGTCAAAGCCGACAGGCAGAC-TAAAGATAAGA-AAGTCTCCAAGGTCAAAACTGA
* * * * ** * * * * * * *
428908 CAGACATAC-TGAAGGTAAGAAAGTTTCTAAGATCAAAGCCGATAGGAAGATTTAA-GAAGAGGT
64 CAGGCAGACTTG-AGATGAGGCAGTCTCTAAGGTCAAAGCCGACAGGCAGACTGAAGGAAGA--A
* * * *
428971 AGTCTCTAAGGTCAAAGACGACAGGCAAACTAAAGCTAAGAAAGTCTCCAGGGTCAAAACTGACA
1 AGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAAGATAAGAAAGTCTCCAAGGTCAAAACTGACA
* * * *
429036 GGCAGACTTGAGATGAGGCAGTCTCCAAGGTCAAAACCGACAGGCAAACTGAAGAGAAAAA
66 GGCAGACTTGAGATGAGGCAGTCTCTAAGGTCAAAGCCGACAGGCAGACTGAAG-GAAGAA
** * * * * *
429097 AGTCTCT-AGGCTCAAAGCTAACAGACAGATTGAAGGGA-AAGGAAGTCTCCAAGGTC-AAAGTG
1 AGTCTCTAAGG-TCAAAGCCGACAGGCAGACT-AA-AGATAAGAAAGTCTCCAAGGTCAAAACT-
* * * * * * *
429159 GATAGGTAGACTTGAGATAAGGCAGTCTCCAAAGTCAAAGCAGATAGGCAGACTGAAGGTAA-AG
62 GACAGGCAGACTTGAGATGAGGCAGTCTCTAAGGTCAAAGCCGACAGGCAGACTGAAGG-AAGA-
429223 A
125 A
* * * * ** * ** * * *
429224 AGTCTCTAGGGTCAAAACCGACAAGTAGACTTGAGATGAGGCAGTCTCTAAGGTTAAAGCTGACA
1 AGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAAGATAAGAAAGTCTCCAAGGTCAAAACTGACA
* * * ** * * * * * * **
429289 AGCAGAC-TGAAGGTAAGAAAGTGTCCAAGGTCAAAGCGGACAAGCACACTTGAGATG-AGGC
66 GGCAGACTTG-AGATGAGGCAGTCTCTAAGGTCAAAGCCGACAGGCAGAC-TGA-AGGAAGAA
* ** ** * * * * * * *
429350 AGTATCCGAGGTCAAAGTTGATAGGTAGACTAAAGGGA-AAGGAAGTTTTCAGGGTCAAAGCTGA
1 AGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAA--GATAAGAAAGTCTCCAAGGTCAAAACTGA
* * * * * * * *
429414 TAGGAAGACTTGAGATGAAGCAGTCTCCAAGGTCAAAGCTGATAGGCAGACTAAAGGTAAAAA
64 CAGGCAGACTTGAGATGAGGCAGTCTCTAAGGTCAAAGCCGACAGGCAGACTGAAGG-AAGAA
* * * * * * * *
429477 AGTCT-TCAGGGTCAAAGCCGACAAGCAAACTGAAGGTAAGAAAGTCTTCAGGGTC-AAAGTCGA
1 AGTCTCT-AAGGTCAAAGCCGACAGGCAGACTAAAGATAAGAAAGTCTCCAAGGTCAAAACT-GA
* * * * * *
429540 TA-GCTAGACTTAAAATGAGGCTGTCTC-AAGGGTCAAAGCCGACATGCTGACTGAAGGTAAGAA
64 CAGGC-AGACTTGAGATGAGGCAGTCTCTAA-GGTCAAAGCCGACAGGCAGACTGAAGG-AAGAA
* * * * * ** ***
429603 AGTCCCCAAGGTTAAAG--G-CA-G-ACA-T-AAGATGAGGCAGTCTCTGGGGTCAAAGA-TGAC
1 AGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAAGATAAGAAAGTCTCCAAGGTCAAA-ACTGAC
* * * * ** * * * * * * *
429660 AAGAAGAC-TGAAGGTAAGAAAGTCTCTAGGGTTAATGCCGACAGGCAAACTTGAGATGAGGCA
65 AGGCAGACTTG-AGATGAGGCAGTCTCTAAGGTCAAAGCCGACAGGCAGAC-TGA-AGGAAGAA
** * * * ** * *
429723 A-TCTCCGAGGTAAAAGCCGACAGGCAGACTGAAGGTAAGAAAGTCTTAAAGGTC-AAAGTCGAG
1 AGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAAGATAAGAAAGTCTCCAAGGTCAAAACT-GAC
* * * * ** *
429786 AAGCAGACTTGAGATTAGGCAATCTCTAAGGTCAATGTTGACAGGTAGACTGAAGGTAAGAA
65 AGGCAGACTTGAGATGAGGCAGTCTCTAAGGTCAAAGCCGACAGGCAGACTGAAGG-AAGAA
** * * * * * *
429848 AGTCTCTAAGGTCAAAGCCGACAGGCAGACTTGAGATGAAG-TAGTCTTCAAGTTTAAAGCCGAC
1 AGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAAGAT-AAGAAAGTCTCCAAGGTCAAAACTGAC
* * * * * * * * *
429912 AAGAAGACTTGAGATGAGGTAATTTTTAAGGTTAAAGCCGACAGTCAGACTGAAGAGAAAAA
65 AGGCAGACTTGAGATGAGGCAGTCTCTAAGGTCAAAGCCGACAGGCAGACTGAAG-GAAGAA
* * * * * ** * ** * *
429974 AGTCTCTAGGGTCAAAACTGAAAAGCAGACTTGAGATGAGGCAGTCTCCAAAGTCAAAA-TCGAT
1 AGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAAGATAAGAAAGTCTCCAAGGTCAAAACT-GAC
* * * * ** * * *
430038 AGGCAGACTTGAGATGAGGCAATTTTTAAGGTCAAGGTTGACAAGCAAACTGAAGGTAAAAA
65 AGGCAGACTTGAGATGAGGCAGTCTCTAAGGTCAAAGCCGACAGGCAGACTGAAGG-AAGAA
* * * ** ** * * *
430100 AGTCTCTAAGGTCAAAGTCGACAAGTAGACTTGAGATGTGACAGTCTCCAGGGTC-AAAGTCGAC
1 AGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAAGATAAGAAAGTCTCCAAGGTCAAAACT-GAC
* * ** * * ** * * * *
430164 AAGCAAACTAAAGGTAAGAAAGTCTCTAAGGTCAAAGCTGATAGGCAGACTTG-A-GATTGGAT
65 AGGCAGACTTGAGATGAGGCAGTCTCTAAGGTCAAAGCCGACAGGCAGAC-TGAAGGA--AGAA
* ** * * **
430226 AGTCTCCAAGGTCAAAGTTGAAAGGCAGACTGAATG-TAAGAAAGTCTCCAAGGTCAAAGTTGAC
1 AGTCTCTAAGGTCAAAGCCGACAGGCAGACT-AAAGATAAGAAAGTCTCCAAGGTCAAAACTGAC
* * * * *
430290 AGGCAAACTTGAGATGAGGTAGTCTCTAGGGTCAAAGCCGACAAGCAGACTGAAGGGAAAGGA
65 AGGCAGACTTGAGATGAGGCAGTCTCTAAGGTCAAAGCCGACAGGCAGACTGAA-GG-AAGAA
* * * * * ** * * *
430353 AGTCTCTAGGGTCAAAGTCGACAGGTAGACTAGAGATGAGGTAGTTTCCAAGGTCAAAGCTAACA
1 AGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAAGATAAGAAAGTCTCCAAGGTCAAAACTGACA
* * * ** * * * **
430418 GGTAGAC-TGAAAGTAAGAAAGTCTCTAAGGTCAAAGCAGATAGGCAGACTTGAGATG-AGGC
66 GGCAGACTTGAGA-TGAGGCAGTCTCTAAGGTCAAAGCCGACAGGCAGAC-TGA-AGGAAGAA
* * * * * * *
430479 AGTCTCTAGGGTCAAAGCCGACAAGCAGACTAAAGGA-AAGAAAGTCTCTAGGGTCAAAGCCGAT
1 AGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAA-GATAAGAAAGTCTCCAAGGTCAAAACTGAC
* * * * * * * *
430543 AGGCAAACTTGAGATGAGGTAGTCTTTAGGGTCAAAACAGACAAGCAAACTGAAGGTAAGAA
65 AGGCAGACTTGAGATGAGGCAGTCTCTAAGGTCAAAGCCGACAGGCAGACTGAAGG-AAGAA
*
430605 AGTCTCTAAGGTCAAAGCCGACATGCAGACT
1 AGTCTCTAAGGTCAAAGCCGACAGGCAGACT
430636 TGAAATGAGG
Statistics
Matches: 1231, Mismatches: 363, Indels: 143
0.71 0.21 0.08
Matches are distributed among these distances:
118 1 0.00
119 60 0.05
120 13 0.01
121 6 0.00
122 3 0.00
123 3 0.00
124 9 0.01
125 39 0.03
126 768 0.62
127 309 0.25
128 18 0.01
129 2 0.00
ACGTcount: A:0.38, C:0.17, G:0.27, T:0.18
Consensus pattern (125 bp):
AGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAAGATAAGAAAGTCTCCAAGGTCAAAACTGACA
GGCAGACTTGAGATGAGGCAGTCTCTAAGGTCAAAGCCGACAGGCAGACTGAAGGAAGAA
Found at i:430622 original size:84 final size:84
Alignment explanation
Indices: 429618--430653 Score: 888
Period size: 84 Copynumber: 12.3 Consensus size: 84
429608 CCAAGGTTAA
* * * * *
429618 AGGCAGACATAAGATGAGGCAGTCTCTGGGGTCAAAGATGACAAGAAGACTGAAGGTAAGAAAGT
1 AGGCAGACTTGAGATGAGGCAGTCTCTAGGGTCAAAGCTGACAAGCAGACTGAAGGTAAGAAAGT
* * *
429683 CTCTAGGGTTAATGCCGAC
66 CTCTAAGGTCAAAGCCGAC
* * * * * *
429702 AGGCAAACTTGAGATGAGGCAATCTC-CGAGGTAAAAGCCGACAGGCAGACTGAAGGTAAGAAAG
1 AGGCAGACTTGAGATGAGGCAGTCTCTAG-GGTCAAAGCTGACAAGCAGACTGAAGGTAAGAAAG
* *
429766 TCT-TAAAGGTCAAAGTCGAG
65 TCTCT-AAGGTCAAAGCCGAC
* * * * * * * *
429786 AAGCAGACTTGAGATTAGGCAATCTCTAAGGTCAATGTTGACAGGTAGACTGAAGGTAAGAAAGT
1 AGGCAGACTTGAGATGAGGCAGTCTCTAGGGTCAAAGCTGACAAGCAGACTGAAGGTAAGAAAGT
429851 CTCTAAGGTCAAAGCCGAC
66 CTCTAAGGTCAAAGCCGAC
* * * * * * * * * *
429870 AGGCAGACTTGAGATGAAGTAGTCT-TCAAGTTTAAAGCCGACAAGAAGACTTG-AGATGAGGTA
1 AGGCAGACTTGAGATGAGGCAGTCTCT-AGGGTCAAAGCTGACAAGCAGAC-TGAAGGT-AAGAA
* * *
429933 A-TTTTTAAGGTTAAAGCCGAC
63 AGTCTCTAAGGTCAAAGCCGAC
* *** * * * * **
429954 AGTCAGAC-TGAAGA-GAAAAAAGTCTCTAGGGTCAAAACTGAAAAGCAGACTTG-AGATGAGGC
1 AGGCAGACTTG-AGATG-AGGCAGTCTCTAGGGTCAAAGCTGACAAGCAGAC-TGAAGGTAAGAA
* * ** *
430016 AGTCTCCAAAGTCAAAATCGAT
63 AGTCTCTAAGGTCAAAGCCGAC
* * * * * * * *
430038 AGGCAGACTTGAGATGAGGCAATTTTTAAGGTCAAGGTTGACAAGCAAACTGAAGGTAAAAAAGT
1 AGGCAGACTTGAGATGAGGCAGTCTCTAGGGTCAAAGCTGACAAGCAGACTGAAGGTAAGAAAGT
*
430103 CTCTAAGGTCAAAGTCGAC
66 CTCTAAGGTCAAAGCCGAC
* * * * * * *
430122 AAGTAGACTTGAGATGTGACAGTCTCCAGGGTCAAAG-TCGACAAGCAAACTAAAGGTAAGAAAG
1 AGGCAGACTTGAGATGAGGCAGTCTCTAGGGTCAAAGCT-GACAAGCAGACTGAAGGTAAGAAAG
* *
430186 TCTCTAAGGTCAAAGCTGAT
65 TCTCTAAGGTCAAAGCCGAC
** * * * *
430206 AGGCAGACTTGAGATTG-GATAGTCTCCAAGGTCAAAGTTGA-AAGGCAGACTGAATGTAAGAAA
1 AGGCAGACTTGAGA-TGAGGCAGTCTCTAGGGTCAAAGCTGACAA-GCAGACTGAAGGTAAGAAA
* **
430269 GTCTCCAAGGTCAAAGTTGAC
64 GTCTCTAAGGTCAAAGCCGAC
* * * * *
430290 AGGCAAACTTGAGATGAGGTAGTCTCTAGGGTCAAAGCCGACAAGCAGACTGAAGGGAAAGGAAG
1 AGGCAGACTTGAGATGAGGCAGTCTCTAGGGTCAAAGCTGACAAGCAGACTGAA-GGTAAGAAAG
* *
430355 TCTCTAGGGTCAAAGTCGAC
65 TCTCTAAGGTCAAAGCCGAC
* * * * * * * * * *
430375 AGGTAGACTAGAGATGAGGTAGTTTCCAAGGTCAAAGCTAACAGGTAGACTGAAAGTAAGAAAGT
1 AGGCAGACTTGAGATGAGGCAGTCTCTAGGGTCAAAGCTGACAAGCAGACTGAAGGTAAGAAAGT
* *
430440 CTCTAAGGTCAAAGCAGAT
66 CTCTAAGGTCAAAGCCGAC
* * *
430459 AGGCAGACTTGAGATGAGGCAGTCTCTAGGGTCAAAGCCGACAAGCAGACTAAAGGAAAGAAAGT
1 AGGCAGACTTGAGATGAGGCAGTCTCTAGGGTCAAAGCTGACAAGCAGACTGAAGGTAAGAAAGT
* *
430524 CTCTAGGGTCAAAGCCGAT
66 CTCTAAGGTCAAAGCCGAC
* * * * * *
430543 AGGCAAACTTGAGATGAGGTAGTCTTTAGGGTCAAAACAGACAAGCAAACTGAAGGTAAGAAAGT
1 AGGCAGACTTGAGATGAGGCAGTCTCTAGGGTCAAAGCTGACAAGCAGACTGAAGGTAAGAAAGT
430608 CTCTAAGGTCAAAGCCGAC
66 CTCTAAGGTCAAAGCCGAC
* *
430627 ATGCAGACTTGAAATGAGGCAGTCTCT
1 AGGCAGACTTGAGATGAGGCAGTCTCT
430654 TGGTAGTTTG
Statistics
Matches: 758, Mismatches: 173, Indels: 42
0.78 0.18 0.04
Matches are distributed among these distances:
83 15 0.02
84 659 0.87
85 84 0.11
ACGTcount: A:0.37, C:0.16, G:0.28, T:0.19
Consensus pattern (84 bp):
AGGCAGACTTGAGATGAGGCAGTCTCTAGGGTCAAAGCTGACAAGCAGACTGAAGGTAAGAAAGT
CTCTAAGGTCAAAGCCGAC
Found at i:430651 original size:42 final size:42
Alignment explanation
Indices: 429679--430653 Score: 428
Period size: 42 Copynumber: 23.2 Consensus size: 42
429669 GAAGGTAAGA
* * * * *
429679 AAGTCTCTAGGGTTAATGCCGACAGGCAAACTTGAGATGAGG
1 AAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTGAAATGAGG
** * * * *
429721 CAA-TCTCCGAGGTAAAAGCCGACAGGCAGAC-TGAAGGTAAGA
1 -AAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTGAA-ATGAGG
* * * * *
429763 AAGTCT-TAAAGGTCAAAGTCGAGAAGCAGACTTGAGATTAGG
1 AAGTCTCT-AAGGTCAAAGCCGACAGGCAGACTTGAAATGAGG
* ** * * * *
429805 CAA-TCTCTAAGGTCAATGTTGACAGGTAGAC-TGAAGGTAAGA
1 -AAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTGAA-ATGAGG
* *
429847 AAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTGAGATGAAG
1 AAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTGAAATGAGG
* * * * * *
429889 TAGTCT-TCAAGTTTAAAGCCGACAAGAAGACTTGAGATGAGG
1 AAGTCTCT-AAGGTCAAAGCCGACAGGCAGACTTGAAATGAGG
* * * * **
429931 TAA-TTTTTAAGGTTAAAGCCGACAGTCAGAC-TGAAGA-GAAAA
1 -AAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTGAA-ATG-AGG
* * * * * *
429973 AAGTCTCTAGGGTCAAAACTGAAAAGCAGACTTGAGATGAGG
1 AAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTGAAATGAGG
* * * ** * *
430015 CAGTCTCCAAAGTCAAAATCGATAGGCAGACTTGAGATGAGG
1 AAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTGAAATGAGG
* * * ** * * * * **
430057 CAA-TTTTTAAGGTCAAGGTTGACAAGCAAAC-TGAAGGTAAAA
1 -AAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTGAA-ATGAGG
* * * * *
430099 AAGTCTCTAAGGTCAAAGTCGACAAGTAGACTTGAGATG-TG
1 AAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTGAAATGAGG
* * * * * * *
430140 ACAGTCTCCAGGGTCAAAGTCGACAAGCAAAC-T-AAAGGTAAGA
1 A-AGTCTCTAAGGTCAAAGCCGACAGGCAGACTTGAAA--TGAGG
* * * *
430183 AAGTCTCTAAGGTCAAAGCTGATAGGCAGACTTGAGAT-TGG
1 AAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTGAAATGAGG
* ** * *
430224 ATAGTCTCCAAGGTCAAAGTTGAAAGGCAGAC-TG-AATGTAAGA
1 A-AGTCTCTAAGGTCAAAGCCGACAGGCAGACTTGAAATG--AGG
* ** * *
430267 AAGTCTCCAAGGTCAAAGTTGACAGGCAAACTTGAGATGAGG
1 AAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTGAAATGAGG
* * * **
430309 TAGTCTCTAGGGTCAAAGCCGACAAGCAGAC-TGAAGGGAAAGG
1 AAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTGAAATG--AGG
* * * * *
430352 AAGTCTCTAGGGTCAAAGTCGACAGGTAGACTAGAGATGAGG
1 AAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTGAAATGAGG
* * * ** * * *
430394 TAGTTTCCAAGGTCAAAGCTAACAGGTAGAC-TGAAAGTAAGA
1 AAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTGAAA-TGAGG
* * *
430436 AAGTCTCTAAGGTCAAAGCAGATAGGCAGACTTGAGATGAGG
1 AAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTGAAATGAGG
* * * * *
430478 CAGTCTCTAGGGTCAAAGCCGACAAGCAGAC-T-AAAGGAAAGA
1 AAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTGAAATG--AGG
* * * *
430520 AAGTCTCTAGGGTCAAAGCCGATAGGCAAACTTGAGATGAGG
1 AAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTGAAATGAGG
* * * * * * * * * *
430562 TAGTCTTTAGGGTCAAAACAGACAAGCAAAC-TGAAGGTAAGA
1 AAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTGAA-ATGAGG
*
430604 AAGTCTCTAAGGTCAAAGCCGACATGCAGACTTGAAATGAGG
1 AAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTGAAATGAGG
*
430646 CAGTCTCT
1 AAGTCTCT
430654 TGGTAGTTTG
Statistics
Matches: 685, Mismatches: 203, Indels: 89
0.70 0.21 0.09
Matches are distributed among these distances:
40 7 0.01
41 39 0.06
42 562 0.82
43 66 0.10
44 11 0.02
ACGTcount: A:0.37, C:0.16, G:0.27, T:0.20
Consensus pattern (42 bp):
AAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTGAAATGAGG
Found at i:430956 original size:48 final size:48
Alignment explanation
Indices: 430881--431035 Score: 193
Period size: 48 Copynumber: 3.2 Consensus size: 48
430871 AATGATGGAA
* * *
430881 AGTTTGACCAGGCCCTAACACCTATATAGTCAAACAAGGGATGAAAAG
1 AGTTTGACCAGGCCTTAACACCAATATAGTCAAACAAGGGAAGAAAAG
* ** * ***
430929 AGTTTGACCAAGCCTTAACACCAATATAGTCAAATGAGAGAAGATTTG
1 AGTTTGACCAGGCCTTAACACCAATATAGTCAAACAAGGGAAGAAAAG
* * *
430977 AGTTTGACCAGGCCTTATCACCAATATAGTCAAACAAGGGAGGAAAAA
1 AGTTTGACCAGGCCTTAACACCAATATAGTCAAACAAGGGAAGAAAAG
431025 AGTTTGACCAG
1 AGTTTGACCAG
431036 ATACAATCAA
Statistics
Matches: 87, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 87 1.00
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (48 bp):
AGTTTGACCAGGCCTTAACACCAATATAGTCAAACAAGGGAAGAAAAG
Found at i:431797 original size:87 final size:88
Alignment explanation
Indices: 431690--431936 Score: 239
Period size: 88 Copynumber: 2.8 Consensus size: 88
431680 ACTATGCATG
* * * * *
431690 AAACAATGCAAATTCTAGCATCAGTAAAGTGGCAAATGCATATTAAATGATGCAAATGCCAATGT
1 AAACAATACAAATGCAAGCATCAATAAAGTGGCAAATGCATATGAAATGATGCAAATGCCAATGT
* * *
431755 TATCTAAGA-GCAAATGCATGTA
66 CATCTAAAATGCAAATGCAGGTA
** * * * * * *
431777 AAATGATACAAATGCAAGCATCAATAAAGGGGAAAATGCATATGCAATGATGCAAATACCACTAT
1 AAACAATACAAATGCAAGCATCAATAAAGTGGCAAATGCATATGAAATGATGCAAATGCCAATGT
* *
431842 CATCTAAAATGCAAATGTAGGTG
66 CATCTAAAATGCAAATGCAGGTA
* * * * * *
431865 AGACAATGCAAATGCAATCATCAATAGAA-TGACAAATGCATATGAAAAGATGCAAATGCTAATG
1 AAACAATACAAATGCAAGCATCAATA-AAGTGGCAAATGCATATGAAATGATGCAAATGCCAATG
431929 -CAGTCTAA
65 TCA-TCTAA
431937 TCCTAATTTA
Statistics
Matches: 125, Mismatches: 32, Indels: 5
0.77 0.20 0.03
Matches are distributed among these distances:
87 61 0.49
88 62 0.50
89 2 0.02
ACGTcount: A:0.45, C:0.15, G:0.17, T:0.23
Consensus pattern (88 bp):
AAACAATACAAATGCAAGCATCAATAAAGTGGCAAATGCATATGAAATGATGCAAATGCCAATGT
CATCTAAAATGCAAATGCAGGTA
Found at i:436455 original size:20 final size:21
Alignment explanation
Indices: 436421--436480 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 21
436411 GAAAAGTACC
*
436421 TAGATGTATCAATACATTTTT
1 TAGATGTATCGATACATTTTT
* *
436442 TAGA-GTATCGATACATGTAT
1 TAGATGTATCGATACATTTTT
*
436462 GA-ATGTATCGATACATTTT
1 TAGATGTATCGATACATTTT
436481 GTCTTTTTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
19 1 0.03
20 27 0.84
21 4 0.12
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (21 bp):
TAGATGTATCGATACATTTTT
Found at i:450450 original size:10 final size:10
Alignment explanation
Indices: 450435--450472 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
450425 TCTTTCATCC
450435 CAAAAAAAAA
1 CAAAAAAAAA
*
450445 CAAAAAAAAC
1 CAAAAAAAAA
450455 CAAAAAAAAA
1 CAAAAAAAAA
*
450465 TAAAAAAA
1 CAAAAAAA
450473 TAATAAACCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.87, C:0.11, G:0.00, T:0.03
Consensus pattern (10 bp):
CAAAAAAAAA
Found at i:450452 original size:11 final size:11
Alignment explanation
Indices: 450436--450501 Score: 53
Period size: 12 Copynumber: 5.5 Consensus size: 11
450426 CTTTCATCCC
450436 AAAAAAAAAC-
1 AAAAAAAAACA
*
450446 AAAAAAAACCA
1 AAAAAAAAACA
*
450457 AAAAAAAATAAA
1 AAAAAAAA-ACA
450469 AAAATAATAAACCA
1 AAAA-AA-AAA-CA
450483 AGAAAAAATAACA
1 A-AAAAAA-AACA
450496 AAAAAA
1 AAAAAA
450502 CAGAAAGGGG
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
10 9 0.20
11 8 0.18
12 10 0.22
13 7 0.16
14 8 0.18
15 3 0.07
ACGTcount: A:0.83, C:0.09, G:0.02, T:0.06
Consensus pattern (11 bp):
AAAAAAAAACA
Found at i:450459 original size:20 final size:20
Alignment explanation
Indices: 450434--450472 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
450424 GTCTTTCATC
450434 CCAAAAAAAAACAAAAAAAA
1 CCAAAAAAAAACAAAAAAAA
*
450454 CCAAAAAAAAATAAAAAAA
1 CCAAAAAAAAACAAAAAAA
450473 TAATAAACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.85, C:0.13, G:0.00, T:0.03
Consensus pattern (20 bp):
CCAAAAAAAAACAAAAAAAA
Found at i:450483 original size:26 final size:24
Alignment explanation
Indices: 450436--450501 Score: 80
Period size: 26 Copynumber: 2.7 Consensus size: 24
450426 CTTTCATCCC
*
450436 AAAAAA-AAACAAAAAAAACCAAA
1 AAAAAATAAAAAAAAAAAACCAAA
*
450459 AAAAAATAAAAAAATAATAAACCAAG
1 AAAAAATAAAAAAA-AA-AAACCAAA
*
450485 AAAAAATAACAAAAAAA
1 AAAAAATAAAAAAAAAA
450502 CAGAAAGGGG
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
23 6 0.16
24 7 0.19
25 4 0.11
26 20 0.54
ACGTcount: A:0.83, C:0.09, G:0.02, T:0.06
Consensus pattern (24 bp):
AAAAAATAAAAAAAAAAAACCAAA
Found at i:451754 original size:28 final size:28
Alignment explanation
Indices: 451714--452314 Score: 668
Period size: 28 Copynumber: 21.0 Consensus size: 28
451704 GTTCATCTCT
* *
451714 TTTCAGAGCCCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * * * *
451742 TTTTAAAACCCACGAGTCGGTGGCAACTCT
1 TTTCAAAGCCCACAAGTCAGTGGC-AC-CC
*
451772 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
451800 TTTCAAAGCCCACAAGTTAGTGGTACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
451828 TTTCAAAGCCCACAAAGTCAGTGGCACCC
1 TTTCAAAGCCCAC-AAGTCAGTGGCACCC
* *
451857 -TTCAAAGCCCACAAGTTAGTGGTACCCC
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCC
451885 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
451913 TTCCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
451941 TTTCAAAGCCCACAAGTTAGTGGTACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
451969 TTTCAAAGCCCACACAAATCAGTGGCACCC
1 TTTCAAAG-CC-CACAAGTCAGTGGCACCC
* * *
451999 TTCCAAAGCCCACAAGTTAGTGGTACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
452027 TTTCAAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
452055 TTTTAAAACTCACAAGTCAGTGGCATACCC
1 TTTCAAAGCCCACAAGTCAGTGGC--ACCC
* * *
452085 TTTCAAAGCCCATACAAATCAGCGGGA-CC
1 TTTCAAAGCCC--ACAAGTCAGTGGCACCC
*
452114 TTTCCAAAGCCCACAAGTCAGTGGCACCT
1 TTT-CAAAGCCCACAAGTCAGTGGCACCC
*
452143 TTTCAAAGCCCACAAAAATCAGTGGCACCC
1 TTTCAAAGCCCAC--AAGTCAGTGGCACCC
* * *
452173 TTCCAAAGCCCACAAGTCAGTCGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
452201 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * * *
452229 TTTCACAGCCCACAAGTTAATGGTACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
452257 CTTCAAAGCCCACAAGTCAATGGCATCCCC
1 TTTCAAAGCCCACAAGTCAGTGGCA--CCC
* *
452287 TTT-AAAGCCGACATAAGTTAGTGGCACC
1 TTTCAAAGCC--CACAAGTCAGTGGCACC
452315 TTTTTTTTAA
Statistics
Matches: 480, Mismatches: 74, Indels: 37
0.81 0.13 0.06
Matches are distributed among these distances:
27 10 0.02
28 298 0.62
29 58 0.12
30 92 0.19
31 12 0.03
32 10 0.02
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCC
Found at i:451800 original size:58 final size:55
Alignment explanation
Indices: 451714--452317 Score: 627
Period size: 58 Copynumber: 10.5 Consensus size: 55
451704 GTTCATCTCT
* * * * * *
451714 TTTCAGAGCCCACAAGTCAGTGGCATCCTTTTAAAACCCACGAGTCGGTGGCAACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCTTTCAAAGCCCACAAGTCAGTGGC-AC-CC
* *
451772 TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGTACCC
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCTTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
451828 TTTCAAAGCCCACAAAGTCAGTGGCACCCTTCAAAGCCCACAAGTTAGTGGTACCCC
1 TTTCAAAGCCCAC-AAGTCAGTGGCACCTTTCAAAGCCCACAAGTCAGTGGCA-CCC
*
451885 TTTCAAAGCCCACAAGTCAGTGGCACCCTTCCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCTTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
451941 TTTCAAAGCCCACAAGTTAGTGGTACCCTTTCAAAGCCCACACAAATCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCTTTCAAAG-CC-CACAAGTCAGTGGCACCC
* * * * *
451999 TTCCAAAGCCCACAAGTTAGTGGTACCCTTTCAAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCTTTCAAAGCCCACAAGTCAGTGGCACCC
* * * * * *
452055 TTTTAAAACTCACAAGTCAGTGGCATACCCTTTCAAAGCCCATACAAATCAGCGGGA-CC
1 TTTCAAAGCCCACAAGTCAGTGGC--A-CCTTTCAAAGCCC--ACAAGTCAGTGGCACCC
*
452114 TTTCCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAAAATCAGTGGCACCC
1 TTT-CAAAGCCCACAAGTCAGTGGCACC-TTTCAAAGCCCAC--AAGTCAGTGGCACCC
* *
452173 TTCCAAAGCCCACAAGTCAGTCGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACC-TTTCAAAGCCCACAAGTCAGTGGCACCC
* * * * * *
452229 TTTCACAGCCCACAAGTTAATGGTACCCCTTCAAAGCCCACAAGTCAATGGCATCCCC
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCTTTCAAAGCCCACAAGTCAGTGGCA--CCC
* *
452287 TTT-AAAGCCGACATAAGTTAGTGGCACCTTT
1 TTTCAAAGCC--CACAAGTCAGTGGCACCTTT
452318 TTTTTAAAAG
Statistics
Matches: 475, Mismatches: 52, Indels: 38
0.84 0.09 0.07
Matches are distributed among these distances:
56 179 0.38
57 66 0.14
58 181 0.38
59 20 0.04
60 29 0.06
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (55 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCTTTCAAAGCCCACAAGTCAGTGGCACCC
Found at i:452531 original size:49 final size:49
Alignment explanation
Indices: 452423--452556 Score: 182
Period size: 49 Copynumber: 2.8 Consensus size: 49
452413 GGCACCTTTA
* * *
452423 TTAGCACAATGTCGTTGGCCTTGAATCAGCATATT-GTGCACTTTTCCT
1 TTAGCCCAATGTCGTTGGCCTTGAATCAGCACATTGGTGCACTTTTCCC
* *
452471 TTAGCCCAATGTCGCTGGTCTTGAATCAGCACATTGGT-CTACTTTTCCC
1 TTAGCCCAATGTCGTTGGCCTTGAATCAGCACATTGGTGC-ACTTTTCCC
**
452520 TTAGCCCAATGTCGTTGGCCTTGAATTGGCACATTGG
1 TTAGCCCAATGTCGTTGGCCTTGAATCAGCACATTGG
452557 CACTCCTTTC
Statistics
Matches: 75, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
48 32 0.43
49 43 0.57
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (49 bp):
TTAGCCCAATGTCGTTGGCCTTGAATCAGCACATTGGTGCACTTTTCCC
Found at i:462792 original size:42 final size:42
Alignment explanation
Indices: 462727--462905 Score: 249
Period size: 42 Copynumber: 4.4 Consensus size: 42
462717 GATACTTTTC
* * *
462727 ATAATGTATCGATATATGTATTTGAAATTTATAGCCGTTATG
1 ATAATGTATCGATACATGCATTTGAAATTTATAGCCGTTAGG
*
462769 ATAATGTATCGATACATGCATTTGAAATTTATAGCCGTTACG
1 ATAATGTATCGATACATGCATTTGAAATTTATAGCCGTTAGG
*
462811 ATAAT-T-T--ATACATGCATTTGAACTTTATAGCCGTTAGG
1 ATAATGTATCGATACATGCATTTGAAATTTATAGCCGTTAGG
* *
462849 ACAATGTATCGATACATGCATTTGAAATTTATAGCTGTTAGG
1 ATAATGTATCGATACATGCATTTGAAATTTATAGCCGTTAGG
* *
462891 ACAATATATCGATAC
1 ATAATGTATCGATAC
462906 TTTTCACTAT
Statistics
Matches: 124, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
38 33 0.27
39 1 0.01
40 2 0.02
41 1 0.01
42 87 0.70
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.37
Consensus pattern (42 bp):
ATAATGTATCGATACATGCATTTGAAATTTATAGCCGTTAGG
Found at i:467425 original size:7 final size:7
Alignment explanation
Indices: 467413--467437 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
467403 AATCTTGCAT
467413 AACCCTA
1 AACCCTA
467420 AACCCTA
1 AACCCTA
467427 AACCCTA
1 AACCCTA
467434 AACC
1 AACC
467438 ATGTTTATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.44, G:0.00, T:0.12
Consensus pattern (7 bp):
AACCCTA
Found at i:468050 original size:61 final size:61
Alignment explanation
Indices: 467954--468596 Score: 571
Period size: 61 Copynumber: 10.5 Consensus size: 61
467944 ATCTTTCCAA
* * * * **
467954 TCCTCAAAGAGCAGGACGCCTTCTCTTTTTGAAGCCTACACAAGTTGGTGGTTCCTTTCAG
1 TCCTCAAAGAGTAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAG
* *
468015 TCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAA
1 TCCTCAAAGAGTAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAG
* * * * * * * *
468076 TCCTTAAAGAATAGGACACCTT-TTCTTTCAAAGCCCACAGAAGTTGGTGCCACCTTTTAG
1 TCCTCAAAGAGTAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAG
* * * * * * *
468136 TCCTCAAAGAGTAGGGCGCCTTCTCATTTCAAAGCCTACACAAGTTAGTAGCACCTTCCAG
1 TCCTCAAAGAGTAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAG
* * * * *
468197 TCCTCAAAGAGTAGGATGCCTTCTCATTTCAAAGCCCACACAAGTTAGTGGCACCTTCCAG
1 TCCTCAAAGAGTAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAG
* * * * * *
468258 TCCTCAAAGAGTAAGACGTCTTCTCATTTCAAAGCCCACACAAGTTTGTGGTACCTTTCAG
1 TCCTCAAAGAGTAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAG
* * * * *
468319 TCCTCAAAGAGTAGGATGCTTTCTCCTTTTAAAGCCCATACAAGTTTGTGGCACC-CTCTAG
1 TCCTCAAAGAGTAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC-AG
* * ** * * *
468380 TCCTTAAAGAGAATAAC-ACTT-TCCTTTTAAAGCCCACATAAGTTGGTGGCACCTTTTAG
1 TCCTCAAAGAGTAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAG
* * * * * * *
468439 TCCTCAAAGAGCAGGATGCCGTT-T-CTTTTCAAAGCCCACATAAATTGATGGTACCTTTTAG
1 TCCTCAAAGAGTAGGACGCC-TTCTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAG
** * * * * * **
468500 TCCTCAAAGAGCGGGACACTTCCTTTTTTCTTTTAAAGCCCACACAAGCTAGTGTTACC-TTCTA
1 TCCTCAAAGAGTAGG--AC-GCC-TTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC-A
468564 G
61 G
* * *
468565 TCCTTAAAGAGTAAGACGCCTCTCTGCTTTTA
1 TCCTCAAAGAGTAGGACGCCT-TCTCCTTTTA
468597 TATCTTAAAA
Statistics
Matches: 482, Mismatches: 87, Indels: 25
0.81 0.15 0.04
Matches are distributed among these distances:
59 43 0.09
60 61 0.13
61 321 0.67
62 10 0.02
63 3 0.01
64 6 0.01
65 33 0.07
66 5 0.01
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (61 bp):
TCCTCAAAGAGTAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAG
Found at i:471483 original size:79 final size:78
Alignment explanation
Indices: 471385--471793 Score: 403
Period size: 79 Copynumber: 5.2 Consensus size: 78
471375 TTCACTATTT
* * * *
471385 GGGATGCTTCAACCCAGTTATTTTCGAGGAGATACTCTAACCCCGATTTTATTTCTAAAACACTG
1 GGGATACTCCAACCCAGTTATTTTCGAGGGGATACTCTAACCCCGATTTTATTTCTAAAACACTA
471450 ATTTTCCACCATC
66 ATTTTCCACCATC
* * * * ***
471463 AAGGATACTCCAAACCAGTTATTTTTGTGGGGATACTCTAACTTTGATTTTATTTCTAAAACACT
1 -GGGATACTCCAACCCAGTTATTTTCGAGGGGATACTCTAACCCCGATTTTATTTCTAAAACACT
*
471528 GATTTTCCACCATC
65 AATTTTCCACCATC
* * * * * * * * * *
471542 GGAGATGCTCTAACCCCGTTATTTTCGAGGGGATGCTCCAACCCAGGTTTTATTTTTAAAGCATT
1 GG-GATACTCCAACCCAGTTATTTTCGAGGGGATACTCTAACCCCGATTTTATTTCTAAAACACT
471607 AATTTTCCACCATC
65 AATTTTCCACCATC
* * * * * *
471621 GGGGATACTCCAACCCCGTTA-TTTCCAGGGGATGCTCTAACTCTGGTTTTATTTCTAAAAACAC
1 -GGGATACTCCAACCCAGTTATTTTCGAGGGGATACTCTAACCCCGATTTTATTTCT-AAAACAC
* *
471685 CAATTTTTCACCATC
64 TAATTTTCCACCATC
* *
471700 GGAGATACTCCAATCCTA-TTA-TTTCTGAGGGGATACTCTAATCCCGATTTTATTTCTAAAACA
1 GG-GATACTCCAA-CCCAGTTATTTTC-GAGGGGATACTCTAACCCCGATTTTATTTCTAAAACA
*
471763 -TCAATTTTCCACCAGC
63 CT-AATTTTCCACCATC
*
471779 AGGGATACTCTAACC
1 -GGGATACTCCAACC
471794 TCGGTTTTAT
Statistics
Matches: 272, Mismatches: 50, Indels: 17
0.80 0.15 0.05
Matches are distributed among these distances:
78 35 0.13
79 206 0.76
80 31 0.11
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (78 bp):
GGGATACTCCAACCCAGTTATTTTCGAGGGGATACTCTAACCCCGATTTTATTTCTAAAACACTA
ATTTTCCACCATC
Found at i:471642 original size:158 final size:156
Alignment explanation
Indices: 471352--471793 Score: 480
Period size: 158 Copynumber: 2.8 Consensus size: 156
471342 TCATTAATGT
* * *
471352 TTTTATTTCTAAAATA-TCGATTTTTCACTATTTGG-GATGCT-TCAACCCAGTTATTTTCGAGG
1 TTTTATTTCTAAAACACT-GATTTTTCACCA-TCGGAGATGCTCT-AACCCAGTTATTTTCGAGG
* * * * *
471414 AGATACTCTAACCCCGATTTTATTTCTAAAACACTGATTTTCCACCATCAAGGATACTCCAAACC
63 GGATACTCTAA-CCCGATTTTATTTCTAAAACATTAATTTTCCACCATCAGGGATACTCCAACCC
*** *
471479 AGTTATTTTTGTGGGGATACTCTAACTTTGA
127 AGTTA-TTTCCAGGGGATACTCTAACTCTGA
* *
471510 TTTTATTTCTAAAACACTGATTTTCCACCATCGGAGATGCTCTAACCCCGTTATTTTCGAGGGGA
1 TTTTATTTCTAAAACACTGATTTTTCACCATCGGAGATGCTCTAACCCAGTTATTTTCGAGGGGA
* * * * * * *
471575 TGCTCCAACCCAGGTTTTATTTTTAAAGCATTAATTTTCCACCATCGGGGATACTCCAACCCCGT
66 TACTCTAACCC-GATTTTATTTCTAAAACATTAATTTTCCACCATCAGGGATACTCCAACCCAGT
* *
471640 TATTTCCAGGGGATGCTCTAACTCTGG
130 TATTTCCAGGGGATACTCTAACTCTGA
** * * *
471667 TTTTATTTCTAAAAACACCAATTTTTCACCATCGGAGATACTCCAATCCTA-TTA-TTTCTGAGG
1 TTTTATTTCT-AAAACACTGATTTTTCACCATCGGAGATGCTCTAA-CCCAGTTATTTTC-GAGG
* * *
471730 GGATACTCTAATCCCGATTTTATTTCTAAAACATCAATTTTCCACCAGCAGGGATACTCTAACC
63 GGATACTCTAA-CCCGATTTTATTTCTAAAACATTAATTTTCCACCATCAGGGATACTCCAACC
471794 TCGGTTTTAT
Statistics
Matches: 237, Mismatches: 39, Indels: 16
0.81 0.13 0.05
Matches are distributed among these distances:
157 39 0.16
158 191 0.81
159 7 0.03
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (156 bp):
TTTTATTTCTAAAACACTGATTTTTCACCATCGGAGATGCTCTAACCCAGTTATTTTCGAGGGGA
TACTCTAACCCGATTTTATTTCTAAAACATTAATTTTCCACCATCAGGGATACTCCAACCCAGTT
ATTTCCAGGGGATACTCTAACTCTGA
Found at i:471805 original size:51 final size:51
Alignment explanation
Indices: 471729--471827 Score: 146
Period size: 51 Copynumber: 1.9 Consensus size: 51
471719 TATTTCTGAG
*
471729 GGGATACTCTAATCCCGATTTTATTTCTAAAACATCAATTTTCCACCAGCA
1 GGGATACTCTAATCCCGATTTTATTTCTAAAACACCAATTTTCCACCAGCA
* * *
471780 GGGATACTCTAA-CCTCGGTTTTATTTTTAAAACACCGATTTTCCACCA
1 GGGATACTCTAATCC-CGATTTTATTTCTAAAACACCAATTTTCCACCA
471828 TTAGAGATAC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 2 0.05
51 41 0.95
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.34
Consensus pattern (51 bp):
GGGATACTCTAATCCCGATTTTATTTCTAAAACACCAATTTTCCACCAGCA
Found at i:471837 original size:51 final size:51
Alignment explanation
Indices: 471731--471839 Score: 139
Period size: 51 Copynumber: 2.1 Consensus size: 51
471721 TTTCTGAGGG
* *
471731 GATACTCTAATCCCGATTTTATTTCTAAAACATCAATTTTCCACCAGCAGG
1 GATACTCTAATCCCGATTTTATTTCTAAAACACCAATTTTCCACCAGCAGA
* * * **
471782 GATACTCTAA-CCTCGGTTTTATTTTTAAAACACCGATTTTCCACCATTAGA
1 GATACTCTAATCC-CGATTTTATTTCTAAAACACCAATTTTCCACCAGCAGA
471833 GATACTC
1 GATACTC
471840 CTACCCTATT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 2 0.04
51 48 0.96
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (51 bp):
GATACTCTAATCCCGATTTTATTTCTAAAACACCAATTTTCCACCAGCAGA
Found at i:471944 original size:51 final size:52
Alignment explanation
Indices: 471886--472005 Score: 183
Period size: 51 Copynumber: 2.3 Consensus size: 52
471876 TTGTTTTCGA
* *
471886 GGGGATACTCTAACCCCGA-TTTTATTTTCAAAATATCGACTTT-TCACCATC
1 GGGGATACTCCAACCCCGATTTTTATTTCCAAAATATCGA-TTTCTCACCATC
471937 GGGGATACTCCAACCCC-ATTTTTATTTCCAAAATATCGATTTCTCACCATC
1 GGGGATACTCCAACCCCGATTTTTATTTCCAAAATATCGATTTCTCACCATC
*
471988 GGAGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
472006 TTGTTTTCGA
Statistics
Matches: 63, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
50 4 0.06
51 59 0.94
ACGTcount: A:0.28, C:0.29, G:0.12, T:0.31
Consensus pattern (52 bp):
GGGGATACTCCAACCCCGATTTTTATTTCCAAAATATCGATTTCTCACCATC
Found at i:479936 original size:165 final size:163
Alignment explanation
Indices: 479681--480055 Score: 466
Period size: 166 Copynumber: 2.3 Consensus size: 163
479671 TAATTACCAT
* *
479681 TAAATCAGTTTTGCAAAATTCCTTTTATTTCATGAGTTTTCATTTTTTACTTAAAAACCCCTTAT
1 TAAATCAGTTTTG-AAAATTTCATTTATTTCATGAGTTTTCATTTTTTACTTAAAAACCCCTTAT
* * * *
479746 CTTCGAAATACAAAGTTTGCTACTCCGTAAATGTTTTTTGGGA-GGG-TTTATCGATTCAAATTT
65 CTTCGAAATACAAACTTTGCTACTCCATAAATG-TTTTTGGGAGGGGTTTTATCGATTAAAAATT
* *
479809 TTTAATATACATAAAATATCATCATTTAATTCATAG
129 TTTAAT-TACATAAAAGATCATCATTTAATTCATAA
* * * *
479845 TAAATCAGTTTTGAAAATTTCATTTATTTCATGAGTTTTCAATTTTTTCCTTGAAATCTCCCTTG
1 TAAATCAGTTTTGAAAATTTCATTTATTTCATGAGTTTTC-ATTTTTTACTTAAAAAC-CCCTTA
* * * * *
479910 TTTTCGAAATACGAACTTTGCTACTCCATAAATGTTTTTGGGAGGGGTTTTTGTTGGTTAAAAAT
64 TCTTCGAAATACAAACTTTGCTACTCCATAAATGTTTTTGGGAGGGG-TTTTATCGATTAAAAAT
* *
479975 TTTTAATTTCATCAAAGATCATCATTTAATTCATAA
128 TTTTAATTACATAAAAGATCATCATTTAATTCATAA
* * *
480011 TAAATCATTTTTGAAAAATTAATTTATTTTCATGAGTTTTTCATT
1 TAAATCAGTTTTGAAAATTTCATTTA-TTTCATGAG-TTTTCATT
480056 GATTTCCTTA
Statistics
Matches: 182, Mismatches: 22, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
163 25 0.14
164 36 0.20
165 38 0.21
166 48 0.26
167 30 0.16
168 5 0.03
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.45
Consensus pattern (163 bp):
TAAATCAGTTTTGAAAATTTCATTTATTTCATGAGTTTTCATTTTTTACTTAAAAACCCCTTATC
TTCGAAATACAAACTTTGCTACTCCATAAATGTTTTTGGGAGGGGTTTTATCGATTAAAAATTTT
TAATTACATAAAAGATCATCATTTAATTCATAA
Found at i:480025 original size:166 final size:166
Alignment explanation
Indices: 479681--480226 Score: 506
Period size: 167 Copynumber: 3.3 Consensus size: 166
479671 TAATTACCAT
* * * *
479681 TAAATCAGTTTTGCAAAATTCCTTTTATTTCATGAGTTTTCATTTTTTACTTAAAAAC-CCCTTA
1 TAAATCAGTTTTGCAAAATTTCATTTATTTCATGAGTTTTCATTTTTTCCTTAAAATCTCCCTTA
* * * * * * *
479745 TCTTCGAAATACAAAGTTTGCTACTCCGTAAATGTTTTTTGGGA-GGG--TTTATCGATTCAAAT
66 TTTTCGAAATACGAAGTTTGCTACTCCATAAATG-TTTTTGGGAGGGGTTTTTATTGGTTAAAAA
* * *
479807 TTTTTAATATACATAAAATATCATCATTTAATTCATAG
130 TTTTTAAT-TTCATCAAATATCATCATTTAATTCATAA
*
479845 TAAATCAGTTTTG-AAAATTTCATTTATTTCATGAGTTTTCAATTTTTTCCTTGAAATCTCCCTT
1 TAAATCAGTTTTGCAAAATTTCATTTATTTCATGAGTTTTC-ATTTTTTCCTTAAAATCTCCCTT
* * *
479909 GTTTTCGAAATACGAACTTTGCTACTCCATAAATGTTTTTGGGAGGGGTTTTTGTTGGTTAAAAA
65 ATTTTCGAAATACGAAGTTTGCTACTCCATAAATGTTTTTGGGAGGGGTTTTTATTGGTTAAAAA
*
479974 TTTTTAATTTCATCAAAGATCATCATTTAATTCATAA
130 TTTTTAATTTCATCAAATATCATCATTTAATTCATAA
* * * * * **
480011 TAAATCATTTTTG-AAAAATTAATTTATTTTCATGAGTTTTTCATTGATTTCCTTAAAATTTTTC
1 TAAATCAGTTTTGCAAAATTTCATTTA-TTTCATGAG-TTTTCATT-TTTTCCTTAAAATCTCCC
* * * * * * *
480075 -TA-TTTCTAAAAAATCG-AGTTTTCTATTCCATAAATATTTTT--AAGGGGATTTTTCTTGGTT
63 TTATTTTC-GAAATA-CGAAGTTTGCTACTCCATAAATGTTTTTGGGAGGGG-TTTTTATTGGTT
* * * ** *
480135 TAAAATTTTTAAAATTCATCTAATATTGTCATTAAATTCA-AA
125 AAAAATTTTT-AATTTCATCAAATATCATCATTTAATTCATAA
* * *
480177 TTAAATCAATTTTGCAAAA-TTCAATTTATTTCATGAATTTTGAATTTTTT
1 -TAAATCAGTTTTGCAAAATTTC-ATTTATTTCATGAGTTTT-CATTTTTT
480227 TGTATATGTT
Statistics
Matches: 318, Mismatches: 48, Indels: 30
0.80 0.12 0.08
Matches are distributed among these distances:
163 25 0.08
164 36 0.11
165 43 0.14
166 81 0.25
167 104 0.33
168 29 0.09
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (166 bp):
TAAATCAGTTTTGCAAAATTTCATTTATTTCATGAGTTTTCATTTTTTCCTTAAAATCTCCCTTA
TTTTCGAAATACGAAGTTTGCTACTCCATAAATGTTTTTGGGAGGGGTTTTTATTGGTTAAAAAT
TTTTAATTTCATCAAATATCATCATTTAATTCATAA
Found at i:480706 original size:18 final size:17
Alignment explanation
Indices: 480683--480742 Score: 63
Period size: 18 Copynumber: 3.6 Consensus size: 17
480673 TGTTAAGGGA
480683 AAAGAAAAAAGAGAAGAG
1 AAAGAAAAAAGAGAA-AG
*
480701 AAAG-AAACA-A-AAAG
1 AAAGAAAAAAGAGAAAG
*
480715 AAAGAAAAAAGAGAAAA
1 AAAGAAAAAAGAGAAAG
480732 AGAAGAAAAAA
1 A-AAGAAAAAA
480743 TTAAGCTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
14 6 0.17
15 6 0.17
16 2 0.06
17 8 0.23
18 13 0.37
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (17 bp):
AAAGAAAAAAGAGAAAG
Found at i:480740 original size:9 final size:9
Alignment explanation
Indices: 480682--480741 Score: 52
Period size: 9 Copynumber: 6.4 Consensus size: 9
480672 TTGTTAAGGG
480682 AAAAGAA-A
1 AAAAGAAGA
480690 AAAGAGAAGA
1 AAA-AGAAGA
* *
480700 GAAAGAAACA
1 AAAAG-AAGA
480710 AAAAGAAAGA
1 AAAAG-AAGA
480720 AAAA-AGAGA
1 AAAAGA-AGA
480729 AAAAGAAGA
1 AAAAGAAGA
480738 AAAA
1 AAAA
480742 ATTAAGCTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
8 4 0.09
9 20 0.47
10 19 0.44
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (9 bp):
AAAAGAAGA
Found at i:480856 original size:20 final size:23
Alignment explanation
Indices: 480833--480880 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 23
480823 TTTCTTCATG
*
480833 ATGTTAT-GAATAT-ATGAGT-T
1 ATGTTATGGAACATGATGAGTCT
480853 ATGTTATGGAACATGATGAGTCT
1 ATGTTATGGAACATGATGAGTCT
480876 ATGTT
1 ATGTT
480881 TATATATATG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 7 0.29
21 5 0.21
22 6 0.25
23 6 0.25
ACGTcount: A:0.31, C:0.04, G:0.23, T:0.42
Consensus pattern (23 bp):
ATGTTATGGAACATGATGAGTCT
Found at i:485947 original size:12 final size:13
Alignment explanation
Indices: 485929--485989 Score: 56
Period size: 13 Copynumber: 4.5 Consensus size: 13
485919 AATAAAAAAC
485929 AAAAAAATGAAAG
1 AAAAAAATGAAAG
485942 AAAAAAATGAAA-
1 AAAAAAATGAAAG
485954 AAGCAAAAA--AAAG
1 AA--AAAAATGAAAG
485967 AAAAAAACATGAAATG
1 -AAAAAA-ATGAAA-G
485983 AAAAAAA
1 AAAAAAA
485990 AAAGTGCAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 15
0.73 0.00 0.27
Matches are distributed among these distances:
12 9 0.22
13 13 0.32
14 8 0.20
15 9 0.22
16 1 0.03
ACGTcount: A:0.79, C:0.03, G:0.11, T:0.07
Consensus pattern (13 bp):
AAAAAAATGAAAG
Found at i:485960 original size:29 final size:27
Alignment explanation
Indices: 485918--485973 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 27
485908 AATTTCCTCT
*
485918 AAATAAAAAACAAAAAAATGAAAGAAAA
1 AAATAAAAAACAAAAAAAAGAAA-AAAA
*
485946 AAATGAAAAAGCAAAAAAAAGAAAAAAA
1 AAAT-AAAAAACAAAAAAAAGAAAAAAA
485974 CATGAAATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 8 0.32
29 17 0.68
ACGTcount: A:0.82, C:0.04, G:0.09, T:0.05
Consensus pattern (27 bp):
AAATAAAAAACAAAAAAAAGAAAAAAA
Found at i:486834 original size:112 final size:111
Alignment explanation
Indices: 486583--486916 Score: 370
Period size: 112 Copynumber: 3.0 Consensus size: 111
486573 GACTTGAAAA
* * *
486583 AACATCGAATTTGTTTGATTTTCAAAGAAATTCATGTTTTATACAACCTT-ATCCATTCATGCCT
1 AACATCAAATTTATTTGATTTTCAAAGAAATTCATGTTTTATACAA-TTTGATCCATTCATGCCT
* * * *
486647 AGGAAAATGGGCATGTA-TCTTATCAATTTTGAAATTTTTGAGACAAC
65 AGGAAAAAGGTCATGTATTC-TATCAGTTTTGAAATTTTTGAGCCAAC
** * *
486694 GGCATCAAATTTATCTGATTGTT-AAAGAAATTCATGTTTTATACGATTTGATCCATTCATGCCT
1 AACATCAAATTTATTTGATT-TTCAAAGAAATTCATGTTTTATACAATTTGATCCATTCATGCCT
* * *
486758 AGGAAAAAGTTTCATGTATTCTACCAGTTTTGAAATTCTTGAGCCAAC
65 AGGAAAAAG-GTCATGTATTCTATCAGTTTTGAAATTTTTGAGCCAAC
* * * * ** *
486806 AACATCAAATTTATTTGATTTTCCAAGAAATTTATGTTTTATACAATCTGAACCATTTGTACCTA
1 AACATCAAATTTATTTGATTTTCAAAGAAATTCATGTTTTATACAATTTGATCCATTCATGCCTA
* * *
486871 GGAAAATGGGGT-ATGTATCCTATTAGTTTTGAAATTTTTGAGCCAA
66 GGAAAA--AGGTCATGTATTCTATCAGTTTTGAAATTTTTGAGCCAA
486917 TCAAAGTATT
Statistics
Matches: 185, Mismatches: 31, Indels: 13
0.81 0.14 0.06
Matches are distributed among these distances:
110 2 0.01
111 61 0.33
112 118 0.64
113 3 0.02
114 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (111 bp):
AACATCAAATTTATTTGATTTTCAAAGAAATTCATGTTTTATACAATTTGATCCATTCATGCCTA
GGAAAAAGGTCATGTATTCTATCAGTTTTGAAATTTTTGAGCCAAC
Found at i:487306 original size:88 final size:88
Alignment explanation
Indices: 487145--487543 Score: 451
Period size: 88 Copynumber: 4.5 Consensus size: 88
487135 CAAATTAGAA
* * * * *
487145 TTAGATGACATTGGCATTTGCATCATTTAATATACATTCGCCACTTTATTAATGCTTGCACTTGC
1 TTAGATGACATTGGCATTTGCATCATTTCATATGCATTTGCCACTTTATTGATGCTTGCAATTGC
487210 ATCATTTCATGTACATTTGCATT
66 ATCATTTCATGTACATTTGCATT
* * * * *
487233 TTAGATAACATTGGCATTTGCATCATTTCACATGCATTTGCCCCTTTATTTATGCTTGCAATTGT
1 TTAGATGACATTGGCATTTGCATCATTTCATATGCATTTGCCACTTTATTGATGCTTGCAATTGC
* * *
487298 ATCGTTTCATG-ATCATCTGCACT
66 ATCATTTCATGTA-CATTTGCATT
* * * * *
487321 TTAGATAACATTGGCATTTGCATCATTTCACATGCATTTGCCACTTTATTGATACTTACATTTGC
1 TTAGATGACATTGGCATTTGCATCATTTCATATGCATTTGCCACTTTATTGATGCTTGCAATTGC
* * *
487386 ATCATTTCACGTGCATGTGCATT
66 ATCATTTCATGTACATTTGCATT
* * * * ** *
487409 TTGGATGACATTGGTATGTGCATTATTTCATATGCATTTGCCTTTTTATTGATGCTTGTAATTGC
1 TTAGATGACATTGGCATTTGCATCATTTCATATGCATTTGCCACTTTATTGATGCTTGCAATTGC
* * *
487474 ATCGTTTCATGAACACTTGCATT
66 ATCATTTCATGTACATTTGCATT
* * * * *
487497 CTGGATGACATTAGTATTTGCATCATTTCATATGCA-TTACCACTTTA
1 TTAGATGACATTGGCATTTGCATCATTTCATATGCATTTGCCACTTTA
487544 CTAATGTTTA
Statistics
Matches: 261, Mismatches: 48, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
87 9 0.03
88 252 0.97
ACGTcount: A:0.24, C:0.19, G:0.14, T:0.42
Consensus pattern (88 bp):
TTAGATGACATTGGCATTTGCATCATTTCATATGCATTTGCCACTTTATTGATGCTTGCAATTGC
ATCATTTCATGTACATTTGCATT
Found at i:487395 original size:44 final size:44
Alignment explanation
Indices: 487158--487482 Score: 193
Period size: 44 Copynumber: 7.4 Consensus size: 44
487148 GATGACATTG
* * * * * *
487158 GCATTTGCATCATTTAATATACATTCGCCACTTTATTAATGCTT
1 GCATTTGCATCATTTCACATGCATTTGCCACTTTATTGATACTT
* ** * *
487202 GCACTTGCATCATTTCATGTACATTTG-CA-TTT-TAGATAACATT
1 GCATTTGCATCATTTCACATGCATTTGCCACTTTATTGAT-AC-TT
* * *
487245 GGCATTTGCATCATTTCACATGCATTTGCCCCTTTATTTATGCTT
1 -GCATTTGCATCATTTCACATGCATTTGCCACTTTATTGATACTT
* * * * *
487290 GCAATTGTATCGTTTCATGAT-CATCTG-CACTTTA--GATAACATT
1 GCATTTGCATCATTTCA-CATGCATTTGCCACTTTATTGAT-AC-TT
487333 GGCATTTGCATCATTTCACATGCATTTGCCACTTTATTGATACTT
1 -GCATTTGCATCATTTCACATGCATTTGCCACTTTATTGATACTT
* * * *
487378 ACATTTGCATCATTTCACGTGCATGTG-CA-TTT-TGGATGACATT
1 GCATTTGCATCATTTCACATGCATTTGCCACTTTATTGAT-AC-TT
* * * * ** *
487421 GGTATGTGCATTATTTCATATGCATTTGCCTTTTTATTGATGCTT
1 -GCATTTGCATCATTTCACATGCATTTGCCACTTTATTGATACTT
* * *
487466 GTAATTGCATCGTTTCA
1 GCATTTGCATCATTTCA
487483 TGAACACTTG
Statistics
Matches: 215, Mismatches: 46, Indels: 40
0.71 0.15 0.13
Matches are distributed among these distances:
41 9 0.04
42 10 0.05
43 18 0.08
44 141 0.66
45 17 0.08
46 10 0.05
47 10 0.05
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.43
Consensus pattern (44 bp):
GCATTTGCATCATTTCACATGCATTTGCCACTTTATTGATACTT
Found at i:487594 original size:176 final size:175
Alignment explanation
Indices: 487145--487601 Score: 540
Period size: 176 Copynumber: 2.6 Consensus size: 175
487135 CAAATTAGAA
* * * *
487145 TTAGATGACATTGGCATTTGCATCATTTAATATACATTCGCCACTTTATTAATGCTTGCACTTGC
1 TTAGATGACATTGGCATTTGCATCATTTCATATGCATT-GCCACTTTATTAATGCTTACATTTGC
* * * *
487210 ATCATTTCATGTACATTTGCATTTTAGATAACATTGGCATTTGCATCATTTCACATGCATTTGCC
65 ATCATTTCATGTGCATATGCATTTTAGATGACATTGGCATGTGCATCATTTCACATGCATTTGCC
* * *
487275 CCTTTATTTATGCTTGCAATTGTATCGTTTCATGATCATCTGCACT
130 CCTTTATTGATGCTTGCAATTGCATCGTTTCATGAACATCTGCACT
* * * *
487321 TTAGATAACATTGGCATTTGCATCATTTCACATGCATTTGCCACTTTATTGATACTTACATTTGC
1 TTAGATGACATTGGCATTTGCATCATTTCATATGCA-TTGCCACTTTATTAATGCTTACATTTGC
* * * * * *
487386 ATCATTTCACGTGCATGTGCATTTTGGATGACATTGGTATGTGCATTATTTCATATGCATTTGCC
65 ATCATTTCATGTGCATATGCATTTTAGATGACATTGGCATGTGCATCATTTCACATGCATTTGCC
** *
487451 TTTTTATTGATGCTTGTAATTGCATCGTTTCATGAACA-CTTGCA-T
130 CCTTTATTGATGCTTGCAATTGCATCGTTTCATGAACATC-TGCACT
* * * * * * *
487496 TCTGGATGACATTAGTATTTGCATCATTTCATATGCATTACCACTTTACTAATGTTTACATTTAC
1 T-TAGATGACATTGGCATTTGCATCATTTCATATGCATTGCCACTTTATTAATGCTTACATTTGC
** **
487561 ATCACCTCATGTGCATATGCACCATTAGATGACATTGGCAT
65 ATCATTTCATGTGCATATGCA-TTTTAGATGACATTGGCAT
487602 ATACCTTGTT
Statistics
Matches: 235, Mismatches: 42, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
175 42 0.18
176 191 0.81
177 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.41
Consensus pattern (175 bp):
TTAGATGACATTGGCATTTGCATCATTTCATATGCATTGCCACTTTATTAATGCTTACATTTGCA
TCATTTCATGTGCATATGCATTTTAGATGACATTGGCATGTGCATCATTTCACATGCATTTGCCC
CTTTATTGATGCTTGCAATTGCATCGTTTCATGAACATCTGCACT
Found at i:489063 original size:45 final size:45
Alignment explanation
Indices: 488997--489205 Score: 131
Period size: 46 Copynumber: 4.8 Consensus size: 45
488987 TTGACTGTAC
* *
488997 TTAGTCAAACTCTTTTTATTACTATTTGACGTGAT-GTTCTTGCA
1 TTAGTCAAACTCTTTTCATTACTATTTGACATGATGGTTCTTGCA
* ** *
489041 TTAGTCAGACATCTTTTCATTACTATTTGACATGATGGTTCTCACC
1 TTAGTCAAAC-TCTTTTCATTACTATTTGACATGATGGTTCTTGCA
* * * * * *
489087 GTGGTTAAACATCTCTTT-ATTCCCATTTGAC-T-A---TACTTG--
1 TTAGTCAAAC-TCT-TTTCATTACTATTTGACATGATGGTTCTTGCA
* * *
489126 ---GTCAAACTCTTTTCA-T-CTGGTTTGACATGATGGTTCTTACC
1 TTAGTCAAACTCTTTTCATTACT-ATTTGACATGATGGTTCTTGCA
*
489167 TTAGTCAAACATCTTTTCATTCCTATTTGACATGATGGT
1 TTAGTCAAAC-TCTTTTCATTACTATTTGACATGATGGT
489206 ATTTGCCCTG
Statistics
Matches: 126, Mismatches: 21, Indels: 34
0.70 0.12 0.19
Matches are distributed among these distances:
33 1 0.01
34 10 0.08
35 5 0.04
36 7 0.06
39 4 0.03
41 3 0.02
44 17 0.13
45 32 0.25
46 42 0.33
47 5 0.04
ACGTcount: A:0.23, C:0.20, G:0.14, T:0.44
Consensus pattern (45 bp):
TTAGTCAAACTCTTTTCATTACTATTTGACATGATGGTTCTTGCA
Found at i:489094 original size:126 final size:123
Alignment explanation
Indices: 488917--489264 Score: 369
Period size: 126 Copynumber: 2.8 Consensus size: 123
488907 TGACTGTATC
* * * * * * * *
488917 TAGTCAAAC-TTTTTTCATTATTGTTTGACGTAATGGATCTCGCCCTAGTTAAATATCTTTTCAT
1 TAGTCAAACATCTTTTCATTACTATTTGACATGATGG-T-TCTCCCTGGTTAAACATCTTTT-AT
* * * * *
488981 TTTCATTTGACTGTACTTAGTCAAACTCTTTTTATTACT-ATTTGACGTGAT-GTTCTTGCAT
63 TCTCATTTGACTATACTTAGTCAAACTCTTTTCA-T-CTGATTTGACATGATGGTTCTTACAT
*
489042 TAGTCAGACATCTTTTCATTACTATTTGACATGATGGTTCTCACCGTGGTTAAACATCTCTTTAT
1 TAGTCAAACATCTTTTCATTACTATTTGACATGATGGTTCTC-CC-TGGTTAAACATCT-TTTAT
* * * *
489107 TCCCATTTGACTATACTTGGTCAAACTCTTTTCATCTGGTTTGACATGATGGTTCTTACCT
63 TCTCATTTGACTATACTTAGTCAAACTCTTTTCATCTGATTTGACATGATGGTTCTTACAT
* * *
489168 TAGTCAAACATCTTTTCATTCCTATTTGACATGATGGTATTTGCCCTGGTCAAACATCTTTTTGA
1 TAGTCAAACATCTTTTCATTACTATTTGACATGATGGT-TCT-CCCTGGTTAAACATC-TTTT-A
*
489233 TTCTCATTTGACTATACCTAGTCAAACTCTTT
62 TTCTCATTTGACTATACTTAGTCAAACTCTTT
489265 ACATTATCGT
Statistics
Matches: 188, Mismatches: 25, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
124 5 0.03
125 22 0.12
126 122 0.65
127 38 0.20
128 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.13, T:0.44
Consensus pattern (123 bp):
TAGTCAAACATCTTTTCATTACTATTTGACATGATGGTTCTCCCTGGTTAAACATCTTTTATTCT
CATTTGACTATACTTAGTCAAACTCTTTTCATCTGATTTGACATGATGGTTCTTACAT
Found at i:489198 original size:46 final size:45
Alignment explanation
Indices: 489126--489229 Score: 124
Period size: 46 Copynumber: 2.3 Consensus size: 45
489116 ACTATACTTG
* *
489126 GTCAAAC-TCTTTTCATCTGGTTTGACATGATGGT-TCTTACCTTA
1 GTCAAACATCTTTTCATCTGATTTGACATGATGGTAT-TTACCCTA
* *
489170 GTCAAACATCTTTTCATTCCT-ATTTGACATGATGGTATTTGCCCTG
1 GTCAAACATCTTTTCA-T-CTGATTTGACATGATGGTATTTACCCTA
489216 GTCAAACATCTTTT
1 GTCAAACATCTTTT
489230 TGATTCTCAT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
44 7 0.13
45 8 0.15
46 34 0.65
47 3 0.06
ACGTcount: A:0.22, C:0.21, G:0.14, T:0.42
Consensus pattern (45 bp):
GTCAAACATCTTTTCATCTGATTTGACATGATGGTATTTACCCTA
Found at i:489304 original size:45 final size:45
Alignment explanation
Indices: 489249--489650 Score: 172
Period size: 44 Copynumber: 9.4 Consensus size: 45
489239 TTTGACTATA
*
489249 CCTAGTCAAACTCTTTACATTATCGTTTGACGTAATGGTTCTCGC
1 CCTAGTCAAACTCTTTTCATTATCGTTTGACGTAATGGTTCTCGC
* * *
489294 CCTGGTCAAACATCTTTTCATTCTCGTTTGAC-T-A------T--A
1 CCTAGTCAAAC-TCTTTTCATTATCGTTTGACGTAATGGTTCTCGC
* * * * *
489330 CCTAGCCAAACTCTTTTCATT-CCGATTTGACGAAATGGTTATCAC
1 CCTAGTCAAACTCTTTTCATTATCG-TTTGACGTAATGGTTCTCGC
* * * * *
489375 CCTGGTCAAACTC-ATTCATTACCGTTTGACGTGATGGTTCTCGT
1 CCTAGTCAAACTCTTTTCATTATCGTTTGACGTAATGGTTCTCGC
* *
489419 CCTAGTCAAACTCTTTTCATTCTCGTTTGAC-T-AT-ATT-T-G-
1 CCTAGTCAAACTCTTTTCATTATCGTTTGACGTAATGGTTCTCGC
* * * * * * *
489458 ----GTCATATTCTTTTCATTCT-GATTGGCGTGATGGTTCTCAC
1 CCTAGTCAAACTCTTTTCATTATCGTTTGACGTAATGGTTCTCGC
* * * * * *
489498 CCTAGTCAAACTCCTTTCATTCTGGTTTGATGTGATGGTTCTTGC
1 CCTAGTCAAACTCTTTTCATTATCGTTTGACGTAATGGTTCTCGC
* * * * * ** **
489543 CCTAGTTAAATTTTTTTCA-T-CCAGTTAGATATAATGGTTCTCAA
1 CCTAGTCAAACTCTTTTCATTATC-GTTTGACGTAATGGTTCTCGC
* * * * * *
489587 CCTTGTCAAACTCTTTTCATTTTTGTTTAACGTGATGGTT-TAGC
1 CCTAGTCAAACTCTTTTCATTATCGTTTGACGTAATGGTTCTCGC
** *
489631 ATTGGTCAAACTCTTTTCAT
1 CCTAGTCAAACTCTTTTCAT
489651 CCTTATTTGA
Statistics
Matches: 264, Mismatches: 65, Indels: 57
0.68 0.17 0.15
Matches are distributed among these distances:
34 7 0.03
35 34 0.13
36 11 0.04
37 3 0.01
38 2 0.01
40 1 0.00
41 1 0.00
42 2 0.01
43 3 0.01
44 100 0.38
45 82 0.31
46 18 0.07
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.42
Consensus pattern (45 bp):
CCTAGTCAAACTCTTTTCATTATCGTTTGACGTAATGGTTCTCGC
Found at i:489326 original size:334 final size:333
Alignment explanation
Indices: 488715--489519 Score: 835
Period size: 334 Copynumber: 2.4 Consensus size: 333
488705 CCTGCACCAA
** **
488715 ACATCTTTTCATTACCATTTGATGTAATGGTTCTTGCCCTGGTCAAACATCTTTTCATTCATGTC
1 ACATCTTTTCATTACCATTTGACATAATGGTTCTCACCCTGGTCAAACATCTTTTCATTCATGTC
* * *
488780 TGACTATATCTGGTTAAACTCTTTTCATTACTGTTTGATATGATGGTTCTCGCCCTAGTCAAACA
66 TGACTATATCTGGTCAAACTCTTTTCATTACTGTTTGACATGATGGTTCTCACCCTAGTCAAACA
* * * * ** *
488845 TCTTTTCATTTCTATTTGGCATGATTGTTCTCAGCTTGGACAAATGTCTTTTCATTCCCGTTTGA
131 TCTTTTCATTCCTATTTGACATGATGGTTCTCA-CCTGGACAAACATCTTTTCATTCCCATTTGA
* * * * * * *
488910 CTGTATCTAGTCAAACTTTTTTCATTATTGTTTGACGTAATGGATCTCGCCCTAGTTAAATATCT
195 CTATACCTAGTCAAACTCTTTACATTATCGTTTGACGTAATGGATCTCGCCCTAGTCAAACATCT
* * * * * *
488975 TTTCATTTTCATTTGACTGTACTTAGTCAAACTCTTTTTATTACTATTTGACGTGATGTTCTTGC
260 TTTCATTCTCATTTGACTATACCTAGCCAAACTCTTTTCATTACGATTTGACGTGATGTTCTTGC
489040 ATTAGTCAG
325 ATTAGTCAG
* * * *
489049 ACATCTTTTCATTACTATTTGACATGATGGTTCTCACCGTGGTTAAACATCTCTTT-ATTCCCAT
1 ACATCTTTTCATTACCATTTGACATAATGGTTCTCACCCTGGTCAAACATCT-TTTCATT--CAT
* *
489113 -T-TGACTATA-CTTGGTCAAACTCTTTTCA-T-CTGGTTTGACATGATGGTTCTTACCTTAGTC
63 GTCTGACTATATC-TGGTCAAACTCTTTTCATTACT-GTTTGACATGATGGTTCTCACCCTAGTC
* * * *
489173 AAACATCTTTTCATTCCTATTTGACATGATGGTATTTGC-CCTGGTCAAACATCTTTTTGATTCT
126 AAACATCTTTTCATTCCTATTTGACATGATGGT-TCT-CACCTGGACAAACATC-TTTTCATTCC
* *
489237 CATTTGACTATACCTAGTCAAACTCTTTACATTATCGTTTGACGTAATGGTTCTCGCCCTGGTCA
188 CATTTGACTATACCTAGTCAAACTCTTTACATTATCGTTTGACGTAATGGATCTCGCCCTAGTCA
* * **
489302 AACATCTTTTCATTCTCGTTTGACTATACCTAGCCAAACTCTTTTCATTCCGATTTGACGAAATG
253 AACATCTTTTCATTCTCATTTGACTATACCTAGCCAAACTCTTTTCATTACGATTTGACGTGAT-
* ** ** * *
489367 GTTATCACCCTGGTCAA
317 GTTCTTGCATTAGTCAG
* * * * ** *
489384 AC-TC-ATTCATTACCGTTTGACGTGATGGTTCTCGTCCTAGTCAAAC-TCTTTTCATTC-TCGT
1 ACATCTTTTCATTACCATTTGACATAATGGTTCTCACCCTGGTCAAACATCTTTTCATTCAT-GT
* * * * * * *
489445 TTGACTATATTTGGTCATATTCTTTTCATT-CTGATTGGCGTGATGGTTCTCACCCTAGTCAAAC
65 CTGACTATATCTGGTCAAACTCTTTTCATTACTGTTTGACATGATGGTTCTCACCCTAGTCAAAC
*
489509 -TCCTTTCATTC
130 ATCTTTTCATTC
489520 TGGTTTGATG
Statistics
Matches: 388, Mismatches: 68, Indels: 33
0.79 0.14 0.07
Matches are distributed among these distances:
329 1 0.00
330 1 0.00
331 14 0.04
332 58 0.15
333 102 0.26
334 192 0.49
335 17 0.04
336 3 0.01
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.42
Consensus pattern (333 bp):
ACATCTTTTCATTACCATTTGACATAATGGTTCTCACCCTGGTCAAACATCTTTTCATTCATGTC
TGACTATATCTGGTCAAACTCTTTTCATTACTGTTTGACATGATGGTTCTCACCCTAGTCAAACA
TCTTTTCATTCCTATTTGACATGATGGTTCTCACCTGGACAAACATCTTTTCATTCCCATTTGAC
TATACCTAGTCAAACTCTTTACATTATCGTTTGACGTAATGGATCTCGCCCTAGTCAAACATCTT
TTCATTCTCATTTGACTATACCTAGCCAAACTCTTTTCATTACGATTTGACGTGATGTTCTTGCA
TTAGTCAG
Found at i:489359 original size:81 final size:81
Alignment explanation
Indices: 489163--489385 Score: 279
Period size: 81 Copynumber: 2.7 Consensus size: 81
489153 TGATGGTTCT
* * * *
489163 TACCTTAGTCAAACATCTTTTCATTCCTATTTGACATGATGGTATTTGCCCTGGTCAAACATCTT
1 TACC-TAGTCAAAC-TCTTTTCATTCCGATTTGACGTAATGGT-TTCGCCCTGGTCAAACATCTT
*
489228 TTTGATTCTCATTTGACTA
63 TTTCATTCTCATTTGACTA
* *
489247 TACCTAGTCAAACTCTTTACATTATCG-TTTGACGTAATGGTTCTCGCCCTGGTCAAACATC-TT
1 TACCTAGTCAAACTCTTTTCATT-CCGATTTGACGTAATGGTT-TCGCCCTGGTCAAACATCTTT
*
489310 TTCATTCTCGTTTGACTA
64 TTCATTCTCATTTGACTA
* * *
489328 TACCTAGCCAAACTCTTTTCATTCCGATTTGACGAAATGGTTATCACCCTGGTCAAAC
1 TACCTAGTCAAACTCTTTTCATTCCGATTTGACGTAATGGTT-TCGCCCTGGTCAAAC
489386 TCATTCATTA
Statistics
Matches: 122, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
80 2 0.02
81 68 0.56
82 38 0.31
83 10 0.08
84 4 0.03
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (81 bp):
TACCTAGTCAAACTCTTTTCATTCCGATTTGACGTAATGGTTTCGCCCTGGTCAAACATCTTTTT
CATTCTCATTTGACTA
Found at i:489460 original size:79 final size:79
Alignment explanation
Indices: 489377--489527 Score: 196
Period size: 79 Copynumber: 1.9 Consensus size: 79
489367 GTTATCACCC
* ** *
489377 TGGTCAAACTC-ATTCATTACCGTTTGACGTGATGGTTCTCGTCCTAGTCAAACTCTTTTCATTC
1 TGGTCAAACTCTATTCATT-CCGATTGACGTGATGGTTCTCACCCTAGTCAAACTCCTTTCATTC
489441 TCGTTTGACTATATT
65 TCGTTTGACTATATT
* * * * *
489456 TGGTCATATTCTTTTCATTCTGATTGGCGTGATGGTTCTCACCCTAGTCAAACTCCTTTCATTCT
1 TGGTCAAACTCTATTCATTCCGATTGACGTGATGGTTCTCACCCTAGTCAAACTCCTTTCATTCT
*
489521 GGTTTGA
66 CGTTTGA
489528 TGTGATGGTT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
79 55 0.90
80 6 0.10
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.42
Consensus pattern (79 bp):
TGGTCAAACTCTATTCATTCCGATTGACGTGATGGTTCTCACCCTAGTCAAACTCCTTTCATTCT
CGTTTGACTATATT
Found at i:489517 original size:124 final size:124
Alignment explanation
Indices: 489249--489562 Score: 371
Period size: 124 Copynumber: 2.5 Consensus size: 124
489239 TTTGACTATA
* * *
489249 CCTAGTCAAACTCTTTACATTATCGTTTGACGTAATGGTTCTCGCCCTGGTCAAACATCTTTTCA
1 CCTAGTCAAACTCTTT-CATTACCGTTTGACGTGATGGTTCTCGCCCTAGTCAAAC-TCTTTTCA
489314 TTCTCGTTTGACTATACCTAGCCAAACTCTTTTCATTCCGATTTGACGAAATGGTTATCAC
64 TTCTCGTTTGACTATACCTAGCCAAACTCTTTTCATTCCGATTTGACGAAATGGTTATCAC
* * *
489375 CCTGGTCAAACTCATTCATTACCGTTTGACGTGATGGTTCTCGTCCTAGTCAAACTCTTTTCATT
1 CCTAGTCAAACTCTTTCATTACCGTTTGACGTGATGGTTCTCGCCCTAGTCAAACTCTTTTCATT
** * * * * * * ** *
489440 CTCGTTTGACTATATTTGGTCATATTCTTTTCATTCTGA-TTGGCGTGATGGTTCTCAC
66 CTCGTTTGACTATACCTAGCCAAACTCTTTTCATTCCGATTTGACGAAATGGTTATCAC
* * * * * *
489498 CCTAGTCAAACTCCTTTCATT-CTGGTTTGATGTGATGGTTCTTGCCCTAGTTAAATTTTTTTCA
1 CCTAGTCAAACT-CTTTCATTAC-CGTTTGACGTGATGGTTCTCGCCCTAGTCAAACTCTTTTCA
489562 T
64 T
489563 CCAGTTAGAT
Statistics
Matches: 160, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
123 27 0.17
124 84 0.52
125 35 0.22
126 14 0.09
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.41
Consensus pattern (124 bp):
CCTAGTCAAACTCTTTCATTACCGTTTGACGTGATGGTTCTCGCCCTAGTCAAACTCTTTTCATT
CTCGTTTGACTATACCTAGCCAAACTCTTTTCATTCCGATTTGACGAAATGGTTATCAC
Found at i:489888 original size:85 final size:85
Alignment explanation
Indices: 489716--489897 Score: 192
Period size: 86 Copynumber: 2.1 Consensus size: 85
489706 AGCTATCGCT
* * * * *
489716 TTTTATCCTTTTTCGACTTGTCAATTCATTCTTGATTAACCTTTTTATCCTTTATTTGCCTATCA
1 TTTTATCCTTTTTCAACTTGTCAATTCAATCTTGATCAACCTTTTCATCCTTTATTTACCTATCA
* * *
489781 GCTACGTCCTGAGTAAATCC
66 ACTAAGTCCTGAGTAAACCC
* * *
489801 TTTTATCCTTTATT-AACTTGTCAAGTTTAATCTTGATCAA-CTTTTGCATCCTTTGTTTACCTG
1 TTTTATCCTTT-TTCAACTTGTCAA-TTCAATCTTGATCAACCTTTT-CATCCTTTATTTACCTA
489864 TCAACTAAGTCCT-AGGT-AACCC
63 TCAACTAAGTCCTGA-GTAAACCC
489886 TTTTCATCCTTT
1 TTTT-ATCCTTT
489898 GGTGACTAGA
Statistics
Matches: 81, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
85 34 0.42
86 47 0.58
ACGTcount: A:0.21, C:0.23, G:0.09, T:0.47
Consensus pattern (85 bp):
TTTTATCCTTTTTCAACTTGTCAATTCAATCTTGATCAACCTTTTCATCCTTTATTTACCTATCA
ACTAAGTCCTGAGTAAACCC
Found at i:491094 original size:167 final size:164
Alignment explanation
Indices: 490866--491374 Score: 587
Period size: 166 Copynumber: 3.1 Consensus size: 164
490856 TAAATTATTT
* * * * ** *
490866 TTTTCAAAATTTCT-TTTATTTCATGA-GTTTTTATTTTTTTCTTGAAATCTCTTTATTTCCAAA
1 TTTTGAAAATTT-TATTTATTTCATGATTTTTTTATTTTTTCCTTAAAATCTCCATGTTTCCAAA
* * *
490929 ATATAGAGTTTGCTACTCCATAAATGTTTTTGGGAGGGTTTTTTATCGGTTCAAAATTTTTAATA
65 AAATAGAGTTTGCTACTCCATAAATGTTTTCGGG-GGGTTTTTTATCAGTTCAAAATTTTTAATA
490994 TTCATCAAATATTATCATTTAATTCATAGTAAATCAG
129 TTCATCAAATATTATCATTTAATTCATA-TAAATCAG
*
491031 TTTTGAAAATTTTATTTATTTCATGATTTTTTTCATTTTTTCCTTAAAATCTCCACGTTTCCAAA
1 TTTTGAAAATTTTATTTATTTCATGATTTTTTT-ATTTTTTCCTTAAAATCTCCATGTTTCCAAA
* * *
491096 AAACTA-AGTTTGCTACTCCGTAAATGTTTTCGAGGGGTGTTTTATCAGTTCAAAATTTTTAATA
65 AAA-TAGAGTTTGCTACTCCATAAATGTTTTCGGGGGGTTTTTTATCAGTTCAAAATTTTTAATA
* * *
491160 TTTATCAAATATCATCATTTAATTGATTATAAATCAG
129 TTCATCAAATATTATCATTTAATTCA-TATAAATCAG
* * **
491197 TTTTG-AAATTTTCATTTATTTCATAAGTTCTTTTATTTTTTCCTTAAAAT-TCTCATGTTTTGA
1 TTTTGAAAATTTT-ATTTATTTCATGA-TTTTTTTATTTTTTCCTTAAAATCTC-CATGTTTCCA
* * * * * * * * * *
491260 AAAAATTGAATTTTCTATTCCATAAATGTGTTCAGGGGGATTTTTCTCAGTTTAAAATTTTTAAA
63 AAAAATAGAGTTTGCTACTCCATAAATGTTTTCGGGGGGTTTTTTATCAGTTCAAAATTTTTAAT
* *
491325 ATTCATCTAATATTATCATTAAATTCATATTAAATCAG
128 ATTCATCAAATATTATCATTTAATTCATA-TAAATCAG
491363 TTTTGCAAAATT
1 TTTTG-AAAATT
491375 CAAATTATTT
Statistics
Matches: 292, Mismatches: 40, Indels: 21
0.83 0.11 0.06
Matches are distributed among these distances:
164 1 0.00
165 35 0.12
166 189 0.65
167 60 0.21
168 7 0.02
ACGTcount: A:0.31, C:0.12, G:0.09, T:0.48
Consensus pattern (164 bp):
TTTTGAAAATTTTATTTATTTCATGATTTTTTTATTTTTTCCTTAAAATCTCCATGTTTCCAAAA
AATAGAGTTTGCTACTCCATAAATGTTTTCGGGGGGTTTTTTATCAGTTCAAAATTTTTAATATT
CATCAAATATTATCATTTAATTCATATAAATCAG
Found at i:502811 original size:79 final size:79
Alignment explanation
Indices: 502624--502812 Score: 243
Period size: 79 Copynumber: 2.4 Consensus size: 79
502614 TGGAGATAAC
* *** * *
502624 AACGGGGCTGGAGTATCCCCGATTATGGGAAATCGGTGTTCTAAAAATAAAATCGGGGTTGGAGT
1 AACGGGGTTGGAGTATCCCCGATTATAAAAAATCGGTATTCTAAAAATAAAATCAGGGTTGGAGT
*
502689 ATTCCCTCGAAAAT
66 ATCCCCTCGAAAAT
* * ** * * *
502703 AACAGGGTTAGAGTATCCTTGATTATAAAAAATCGGTATTTTGAAAATAGAATCAGGGTTGGAGT
1 AACGGGGTTGGAGTATCCCCGATTATAAAAAATCGGTATTCTAAAAATAAAATCAGGGTTGGAGT
502768 ATCCCCTCGAAAAT
66 ATCCCCTCGAAAAT
*
502782 AACGGGGTTGGAGTATCCCCGATTGTAAAAA
1 AACGGGGTTGGAGTATCCCCGATTATAAAAA
502813 CTGATGATTT
Statistics
Matches: 91, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
79 91 1.00
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.26
Consensus pattern (79 bp):
AACGGGGTTGGAGTATCCCCGATTATAAAAAATCGGTATTCTAAAAATAAAATCAGGGTTGGAGT
ATCCCCTCGAAAAT
Found at i:502850 original size:50 final size:51
Alignment explanation
Indices: 502786--502982 Score: 220
Period size: 51 Copynumber: 3.9 Consensus size: 51
502776 GAAAATAACG
* *
502786 GGGTTGGAGTATCCCCGATTGT-AAAAACTGATGATTTAGAAATAAGGCAA
1 GGGTTGAAGTATCCCCGATTGTGAAAAATTGATGATTTAGAAATAAGGCAA
* * *
502836 GGGTTGAAGTATCCCCGATTGTGAGAAATCGATGATTTAGAAATAAGGTCGA
1 GGGTTGAAGTATCCCCGATTGTGAAAAATTGATGATTTAGAAATAAGG-CAA
* * * * * **
502888 -GGTTGAAGTATCCCTGATTGTGAGAAATTAAT-ATTTTGGAAATAAAGCCG
1 GGGTTGAAGTATCCCCGATTGTGAAAAATTGATGA-TTTAGAAATAAGGCAA
* * *
502938 GGGTTGGAGTATCCCCGATTGTGGAAAATTGATGCTTTAGAAATA
1 GGGTTGAAGTATCCCCGATTGTGAAAAATTGATGATTTAGAAATA
502983 CAGCCGGGGT
Statistics
Matches: 123, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
50 23 0.19
51 98 0.80
52 2 0.02
ACGTcount: A:0.33, C:0.11, G:0.27, T:0.29
Consensus pattern (51 bp):
GGGTTGAAGTATCCCCGATTGTGAAAAATTGATGATTTAGAAATAAGGCAA
Found at i:502994 original size:102 final size:101
Alignment explanation
Indices: 502784--503003 Score: 257
Period size: 102 Copynumber: 2.2 Consensus size: 101
502774 TCGAAAATAA
* *
502784 CGGGGTTGGAGTATCCCCGATTGTAAAAACTGATGATTTAGAAATAAGGCAAGGGTTGAAGTATC
1 CGGGGTTGGAGTATCCCCGATTGTAAAAACTAATGATTTAGAAATAAAGCAAGGGTTGAAGTATC
*
502849 CCCGATTGTGAGAAATCGATGATTTAGAAATAAGGT
66 CCCGATTGTGAGAAATCGATGATTTAGAAATAAGGC
* * * * * * ** *
502885 CGAGGTTGAAGTATCCCTGATTGTGAGAAATTAAT-ATTTTGGAAATAAAGCCGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTGT-AAAAACTAATGA-TTTAGAAATAAAGCAAGGGTTGAAGTA
* *
502949 TCCCCGATTGTG-GAAAATTGATGCTTTAGAAATACA-GC
64 TCCCCGATTGTGAG-AAATCGATGATTTAGAAATA-AGGC
502987 CGGGGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCC
503004 GAGGAAATAA
Statistics
Matches: 99, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
101 23 0.23
102 75 0.76
103 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (101 bp):
CGGGGTTGGAGTATCCCCGATTGTAAAAACTAATGATTTAGAAATAAAGCAAGGGTTGAAGTATC
CCCGATTGTGAGAAATCGATGATTTAGAAATAAGGC
Found at i:503035 original size:180 final size:180
Alignment explanation
Indices: 502843--503183 Score: 463
Period size: 180 Copynumber: 1.9 Consensus size: 180
502833 CAAGGGTTGA
* * *
502843 AGTATCCCCGATTGTGAGAAATCGATGA-TTTAGAAATAAGGTC-GAGGTTGAAGTATCCCTGAT
1 AGTATCCCCGATTGTGAGAAATCAAT-ATTTTAGAAATAAAG-CAGAGGTTGAAGTATCCCCGAT
* * * *
502906 TGTGAGAAATTAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCCCGATTGTGGAAAATT-GA
64 TGTGAAAAATTAATATTTTGGAAATAAAACCGGAGTTGGAGTATCCCCGATTATGGAAAATTAG-
* * *
502970 TGCTTTAGAAATACAGCCGGGGTTGGAGTATCCCGAGGAAATAACGAGATTAG
128 TGCTTTAGAAATAAAACCGGAGTTGGAGTATCCCGAGGAAATAACGAGATTAG
* * *
503023 AGTATCCCCGATTGTGAGAAATCAATATTTTAGGAATAAAGCAGGGGTTTAAGTATCCCCGATTG
1 AGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCAGAGGTTGAAGTATCCCCGATTG
* * * *
503088 TGAAAAATTAGTGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATGGAAAATTAGTGT
66 TGAAAAATTAATATTTTGGAAATAAAACCGGAGTTGGAGTATCCCCGATTATGGAAAATTAGTGC
* *
503153 TTTGGAAATAAAATCGGAGTTGGAGTATCCC
131 TTTAGAAATAAAACCGGAGTTGGAGTATCCC
503184 TGATTATGGA
Statistics
Matches: 139, Mismatches: 19, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
179 2 0.01
180 136 0.98
181 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (180 bp):
AGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCAGAGGTTGAAGTATCCCCGATTG
TGAAAAATTAATATTTTGGAAATAAAACCGGAGTTGGAGTATCCCCGATTATGGAAAATTAGTGC
TTTAGAAATAAAACCGGAGTTGGAGTATCCCGAGGAAATAACGAGATTAG
Found at i:503112 original size:51 final size:52
Alignment explanation
Indices: 503023--503288 Score: 246
Period size: 51 Copynumber: 5.2 Consensus size: 52
503013 ACGAGATTAG
* * * * *
503023 AGTATCCCCGATTGT-GAGAAATCAATATTTTAGG-AAT-AAAGCAGGGGTTTA
1 AGTATCCCCGATTGTGGA-AAATTAGTGTTTT-GGAAATAAAATCAGGAGTTTA
* **
503074 AGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATC-GGAGTTGG
1 AGTATCCCCGATTGTGGAAAATTAGTGTTTTGGAAATAAAATCAGGAGTTTA
* **
503125 AGTATCCCCGATTATGGAAAATTAGTGTTTTGGAAATAAAATC-GGAGTTGG
1 AGTATCCCCGATTGTGGAAAATTAGTGTTTTGGAAATAAAATCAGGAGTTTA
* * * * *
503176 AGTATCCCTGATTATGGAAAATTGGTGTTTTAGAAATAAAATTA-GAG-TTA
1 AGTATCCCCGATTGTGGAAAATTAGTGTTTTGGAAATAAAATCAGGAGTTTA
* * *
503226 GAGTATCTCCGATTGTGGAAAATT-GATGTTGTGGAAATAAAACCAGG-G-TTA
1 -AGTATCCCCGATTGTGGAAAATTAG-TGTTTTGGAAATAAAATCAGGAGTTTA
503277 GAGTATCCCCGA
1 -AGTATCCCCGA
503289 GATGAAAAAT
Statistics
Matches: 184, Mismatches: 24, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
50 4 0.02
51 174 0.95
52 6 0.03
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (52 bp):
AGTATCCCCGATTGTGGAAAATTAGTGTTTTGGAAATAAAATCAGGAGTTTA
Found at i:503124 original size:129 final size:129
Alignment explanation
Indices: 502894--503132 Score: 338
Period size: 129 Copynumber: 1.9 Consensus size: 129
502884 TCGAGGTTGA
* * * *
502894 AGTATCCCTGATTGTGAGAAATTAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCCCGATTG
1 AGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCAGGGGTTGAAGTATCCCCGATTG
* * * *
502959 TGGAAAATTGATGCTTTAGAAATACAGCCGGGGTTGGAGTATCCCGAGGAAATAACGAGATTAG
66 TGAAAAATTGATGCTTTAGAAATAAAACCGGAGTTGGAGTATCCCGAGGAAATAACGAGATTAG
*
503023 AGTATCCCCGATTGTGAGAAATCAATATTTTAGG-AATAAAGCAGGGGTTTAAGTATCCCCGATT
1 AGTATCCCCGATTGTGAGAAATCAATATTTT-GGAAATAAAGCAGGGGTTGAAGTATCCCCGATT
* * *
503087 GTGAAAAATT-AGTGTTTTGGAAATAAAATCGGAGTTGGAGTATCCC
65 GTGAAAAATTGA-TGCTTTAGAAATAAAACCGGAGTTGGAGTATCCC
503133 CGATTATGGA
Statistics
Matches: 96, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
128 1 0.01
129 93 0.97
130 2 0.02
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (129 bp):
AGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCAGGGGTTGAAGTATCCCCGATTG
TGAAAAATTGATGCTTTAGAAATAAAACCGGAGTTGGAGTATCCCGAGGAAATAACGAGATTAG
Found at i:503131 original size:231 final size:231
Alignment explanation
Indices: 502758--503213 Score: 546
Period size: 231 Copynumber: 2.0 Consensus size: 231
502748 AATAGAATCA
** * * * *
502758 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTAAAAACTGATGATTT
1 GGGTTGGAGTATCCCCGAGAAAATAACGAGATTAGAGTATCCCCGATTGTAAAAACTAATGATTT
* * * **
502823 AGAAATAAGGCAAGGGTTGAAGTATCCCCGATTGTGAGAAATCGATGATTTAGAAATAAGGTCGA
66 AGAAATAAAGCAAGGGTTGAAGTATCCCCGATTGTGAAAAATAGATGATTTAGAAATAAAATCGA
* * * *
502888 GGTTGAAGTATCCCTGATTGT-GAGAAATTAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCC
131 GGTTGAAGTATCCCCGATTATGGA-AAATTAATATTTTGGAAATAAAACCGGAGTTGGAGTATCC
*
502952 CCGATTGTGGAAAATTGATGCTTTAGAAATACAGCCG
195 CCGATTATGGAAAATTGATGCTTTAGAAATACAGCCG
* *
502989 GGGTTGGAGTAT-CCCGAGGAAATAACGAGATTAGAGTATCCCCGATTGTGAGAAA-TCAAT-AT
1 GGGTTGGAGTATCCCCGAGAAAATAACGAGATTAGAGTATCCCCGATTGT-AAAAACT-AATGA-
* * * * *
503051 TTTAGGAATAAAGCAGGGGTTTAAGTATCCCCGATTGTGAAAAATTAG-TGTTTTGGAAATAAAA
63 TTTAGAAATAAAGCAAGGGTTGAAGTATCCCCGATTGTGAAAAA-TAGATGATTTAGAAATAAAA
* * * *
503115 TCG-GAGTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTTGGAAATAAAATCGGAGTTGGAGT
127 TCGAG-GTTGAAGTATCCCCGATTATGGAAAATTAATATTTTGGAAATAAAACCGGAGTTGGAGT
* * *
503179 ATCCCTGATTATGGAAAATTGGTGTTTTAGAAATA
191 ATCCCCGATTATGGAAAATTGATGCTTTAGAAATA
503214 AAATTAGAGT
Statistics
Matches: 189, Mismatches: 30, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
230 34 0.18
231 151 0.80
232 4 0.02
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.29
Consensus pattern (231 bp):
GGGTTGGAGTATCCCCGAGAAAATAACGAGATTAGAGTATCCCCGATTGTAAAAACTAATGATTT
AGAAATAAAGCAAGGGTTGAAGTATCCCCGATTGTGAAAAATAGATGATTTAGAAATAAAATCGA
GGTTGAAGTATCCCCGATTATGGAAAATTAATATTTTGGAAATAAAACCGGAGTTGGAGTATCCC
CGATTATGGAAAATTGATGCTTTAGAAATACAGCCG
Found at i:503198 original size:102 final size:102
Alignment explanation
Indices: 503074--503298 Score: 285
Period size: 102 Copynumber: 2.2 Consensus size: 102
503064 CAGGGGTTTA
* * * *
503074 AGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTA
1 AGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAATCAGAGTTAGAGTATCCCCGATTA
* * *
503139 TGGAAAATT-AGTGTTTTGGAAATAAAATC-GGAGTTGG
66 TGGAAAATTGA-TGTTGTGGAAATAAAACCAGG-GTTAG
* * * * * *
503176 AGTATCCCTGATTATGGAAAATTGGTGTTTTAGAAATAAAATTAGAGTTAGAGTATCTCCGATTG
1 AGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAATCAGAGTTAGAGTATCCCCGATTA
503241 TGGAAAATTGATGTTGTGGAAATAAAACCAGGGTTAG
66 TGGAAAATTGATGTTGTGGAAATAAAACCAGGGTTAG
*
503278 AGTATCCCCGA-GATGAAAAAT
1 AGTATCCCCGATTATGAAAAAT
503299 CTAGAATTTA
Statistics
Matches: 105, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
101 8 0.08
102 94 0.90
103 3 0.03
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.31
Consensus pattern (102 bp):
AGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAATCAGAGTTAGAGTATCCCCGATTA
TGGAAAATTGATGTTGTGGAAATAAAACCAGGGTTAG
Found at i:506517 original size:52 final size:52
Alignment explanation
Indices: 506436--506560 Score: 196
Period size: 52 Copynumber: 2.4 Consensus size: 52
506426 ATATGAAAAT
*
506436 TTGCCTATATGTATCGATACATTTCATAGTGTATCAATACATCTAGGCAAAG
1 TTGCCTGTATGTATCGATACATTTCATAGTGTATCAATACATCTAGGCAAAG
* * * *
506488 TTGCCTGTATGTATCGATACATTTTATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGTATGTATCGATACATTTCATAGTGTATCAATACATCTAGGCAAAG
*
506540 TTGCCTGCATGTATCGATACA
1 TTGCCTGTATGTATCGATACA
506561 AAGATCAATG
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGTATGTATCGATACATTTCATAGTGTATCAATACATCTAGGCAAAG
Found at i:506573 original size:52 final size:52
Alignment explanation
Indices: 506444--506580 Score: 150
Period size: 52 Copynumber: 2.6 Consensus size: 52
506434 ATTTGCCTAT
*** * * *
506444 ATGTATCGATACATTTCATAGTGTATCAATACATCTAGGCAAAGTTGCCTGT
1 ATGTATCGATACATAAGATAATGTATCGATACATCTAGGCAAAGTTGCCTGC
*** * * *
506496 ATGTATCGATACATTTTATAGTGTATCGATACATCTGGGCAAATTTGCCTGC
1 ATGTATCGATACATAAGATAATGTATCGATACATCTAGGCAAAGTTGCCTGC
506548 ATGTATCGATACA-AAGATCAATGTATCGATACA
1 ATGTATCGATACATAAGAT-AATGTATCGATACA
506581 ATGTATCGAT
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
51 2 0.03
52 73 0.97
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.34
Consensus pattern (52 bp):
ATGTATCGATACATAAGATAATGTATCGATACATCTAGGCAAAGTTGCCTGC
Found at i:506584 original size:13 final size:13
Alignment explanation
Indices: 506566--506593 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
506556 ATACAAAGAT
506566 CAATGTATCGATA
1 CAATGTATCGATA
506579 CAATGTATCGATA
1 CAATGTATCGATA
506592 CA
1 CA
506594 TTTGGGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:506681 original size:13 final size:13
Alignment explanation
Indices: 506639--506687 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 13
506629 CTTCGTAACA
506639 ATACATTGTATCG
1 ATACATTGTATCG
506652 ATACAAACTTATGTATCG
1 ATAC--A--T-TGTATCG
506670 ATACATTGTATCG
1 ATACATTGTATCG
506683 ATACA
1 ATACA
506688 ACACTTATGT
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
13 16 0.52
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 11 0.35
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (13 bp):
ATACATTGTATCG
Found at i:506699 original size:32 final size:32
Alignment explanation
Indices: 506639--506738 Score: 157
Period size: 32 Copynumber: 3.2 Consensus size: 32
506629 CTTCGTAACA
506639 ATACATTGTATCGATACAA-ACTTATGTATCG
1 ATACATTGTATCGATACAACACTTATGTATCG
506670 ATACATTGTATCGATACAACACTTATGTATCG
1 ATACATTGTATCGATACAACACTTATGTATCG
* * * *
506702 ATACATTTTATTGATACAACATTTTTGTATCG
1 ATACATTGTATCGATACAACACTTATGTATCG
506734 ATACA
1 ATACA
506739 AATCATTGAA
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
31 19 0.30
32 45 0.70
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (32 bp):
ATACATTGTATCGATACAACACTTATGTATCG
Found at i:506738 original size:19 final size:18
Alignment explanation
Indices: 506644--506739 Score: 61
Period size: 19 Copynumber: 5.8 Consensus size: 18
506634 TAACAATACA
506644 TTGTATCGATACAA-ACTT
1 TTGTATCGATACAACA-TT
*
506662 ATGTATCGAT---ACA--
1 TTGTATCGATACAACATT
506675 TTGTATCGATACAACACTT
1 TTGTATCGATACAACA-TT
*
506694 ATGTATCGAT---ACA-T
1 TTGTATCGATACAACATT
*
506708 TT-TATTGATACAACATTT
1 TTGTATCGATACAACA-TT
506726 TTGTATCGATACAA
1 TTGTATCGATACAA
506740 ATCATTGAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 25
0.66 0.07 0.28
Matches are distributed among these distances:
13 15 0.25
14 2 0.03
15 1 0.02
16 10 0.17
18 12 0.20
19 19 0.32
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (18 bp):
TTGTATCGATACAACATT
Found at i:507203 original size:13 final size:13
Alignment explanation
Indices: 507185--507210 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
507175 TACAGCAAGT
507185 ATGTATCGATACA
1 ATGTATCGATACA
507198 ATGTATCGATACA
1 ATGTATCGATACA
507211 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:509461 original size:21 final size:21
Alignment explanation
Indices: 509428--509472 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
509418 TTGCAAGTTG
*
509428 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
509450 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
509470 AAA
1 AAA
509473 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:511296 original size:15 final size:16
Alignment explanation
Indices: 511274--511311 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
511264 GATAAAAATG
*
511274 TCCAAAATGAGGAAGC
1 TCCAAAATGAAGAAGC
511290 T-CAAAATGAAGAAGC
1 TCCAAAATGAAGAAGC
511305 TCCAAAA
1 TCCAAAA
511312 GAAATTGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.50, C:0.18, G:0.18, T:0.13
Consensus pattern (16 bp):
TCCAAAATGAAGAAGC
Found at i:513399 original size:20 final size:20
Alignment explanation
Indices: 513320--513399 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
513310 AATGTCCAAA
*
513320 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
513340 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
513365 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
513385 TTGTATCGATACATT
1 ATGTATCGATACATT
513400 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:513403 original size:13 final size:13
Alignment explanation
Indices: 513385--513423 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
513375 ACATTTTTCT
513385 TTGTATCGATACA
1 TTGTATCGATACA
513398 TTGTATCGATACA
1 TTGTATCGATACA
*
513411 CTGTATCGATACA
1 TTGTATCGATACA
513424 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:513568 original size:21 final size:21
Alignment explanation
Indices: 513544--513590 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
513534 AAATCTTTTG
513544 CAAAAT-ACTT-GTTTTTCACTT
1 CAAAATAACTTCGTTTTTCA--T
513565 C-AAATAACTTCGTTTTTCAT
1 CAAAATAACTTCGTTTTTCAT
513585 CAAAAT
1 CAAAAT
513591 CAGCATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (21 bp):
CAAAATAACTTCGTTTTTCAT
Found at i:513587 original size:20 final size:19
Alignment explanation
Indices: 513546--513588 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
513536 ATCTTTTGCA
513546 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
513566 AAATAACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
513586 AAA
1 AAA
513589 ATCAGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:515871 original size:13 final size:13
Alignment explanation
Indices: 515853--515878 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
515843 TACAGCAAGT
515853 ATGTATCGATACA
1 ATGTATCGATACA
515866 ATGTATCGATACA
1 ATGTATCGATACA
515879 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:515963 original size:20 final size:21
Alignment explanation
Indices: 515933--515971 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
515923 CTATATTTTC
515933 AAATATGTATCGATACATTAT
1 AAATATGTATCGATACATTAT
515954 AAAT-TGTATCGATACATT
1 AAATATGTATCGATACATT
515972 TACACGGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.38
Consensus pattern (21 bp):
AAATATGTATCGATACATTAT
Found at i:518875 original size:21 final size:21
Alignment explanation
Indices: 518842--518882 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
518832 CTAAGTAAAA
518842 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
518863 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
518883 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:518947 original size:20 final size:20
Alignment explanation
Indices: 518922--518992 Score: 76
Period size: 20 Copynumber: 3.5 Consensus size: 20
518912 ACCCTAAAAA
518922 GTATCGATACACAATTAAAT
1 GTATCGATACACAATTAAAT
**
518942 GTATCGATACA-AATTGCAT
1 GTATCGATACACAATTAAAT
518961 AGTATCGATACACACA--AATAT
1 -GTATCGATACACA-ATTAA-AT
518982 GTATCGATACA
1 GTATCGATACA
518993 GGTCATTGGC
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
19 6 0.14
20 33 0.77
21 3 0.07
22 1 0.02
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.28
Consensus pattern (20 bp):
GTATCGATACACAATTAAAT
Found at i:519088 original size:10 final size:10
Alignment explanation
Indices: 519069--519099 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
519059 AATCTCATTT
519069 TCACTGTTCA
1 TCACTGTTCA
*
519079 TCACTATTCA
1 TCACTGTTCA
519089 TCACTGTTCA
1 TCACTGTTCA
519099 T
1 T
519100 GTATCGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:519121 original size:21 final size:22
Alignment explanation
Indices: 519087--519142 Score: 105
Period size: 21 Copynumber: 2.6 Consensus size: 22
519077 CATCACTATT
519087 CATCACTGTTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
519109 CATCACT-TTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
519130 CATCACTGTTCAT
1 CATCACTGTTCAT
519143 AGGTCACTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.38
Consensus pattern (22 bp):
CATCACTGTTCATGTATCGATA
Found at i:519243 original size:13 final size:13
Alignment explanation
Indices: 519225--519250 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
519215 ACATATTTGT
519225 GTGTATCGATACA
1 GTGTATCGATACA
519238 GTGTATCGATACA
1 GTGTATCGATACA
519251 TCATAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:519792 original size:34 final size:35
Alignment explanation
Indices: 519729--519795 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
519719 CTAAGTGATT
519729 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
519765 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
519796 TCTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:520545 original size:13 final size:13
Alignment explanation
Indices: 520527--520551 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
520517 ATCTAGAATG
520527 TATCGATACAATA
1 TATCGATACAATA
520540 TATCGATACAAT
1 TATCGATACAAT
520552 GAGCAATGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (13 bp):
TATCGATACAATA
Found at i:520563 original size:20 final size:20
Alignment explanation
Indices: 520535--520643 Score: 124
Period size: 20 Copynumber: 5.8 Consensus size: 20
520525 TGTATCGATA
*
520535 CAATATATCGATACAATGAG
1 CAATGTATCGATACAATGAG
**
520555 CAATGTATCGATACAACAAG
1 CAATGTATCGATACAATGAG
520575 CAATGTATCGATACAAT--G
1 CAATGTATCGATACAATGAG
*
520593 C-----ATCGATACAATGAA
1 CAATGTATCGATACAATGAG
*
520608 CAATGTATCGATACAATGAA
1 CAATGTATCGATACAATGAG
520628 CAATGTATCGATACAA
1 CAATGTATCGATACAA
520644 ATTGTGAAAA
Statistics
Matches: 77, Mismatches: 5, Indels: 14
0.80 0.05 0.15
Matches are distributed among these distances:
13 11 0.14
15 1 0.01
18 2 0.03
20 63 0.82
ACGTcount: A:0.44, C:0.17, G:0.15, T:0.24
Consensus pattern (20 bp):
CAATGTATCGATACAATGAG
Found at i:520592 original size:33 final size:33
Alignment explanation
Indices: 520555--520625 Score: 108
Period size: 33 Copynumber: 2.2 Consensus size: 33
520545 ATACAATGAG
*
520555 CAATGTATCGATACAA-CAAGCAATGTATCGATA
1 CAATGCATCGATACAATCAA-CAATGTATCGATA
*
520588 CAATGCATCGATACAATGAACAATGTATCGATA
1 CAATGCATCGATACAATCAACAATGTATCGATA
520621 CAATG
1 CAATG
520626 AACAATGTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
33 33 0.94
34 2 0.06
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.24
Consensus pattern (33 bp):
CAATGCATCGATACAATCAACAATGTATCGATA
Found at i:520603 original size:53 final size:53
Alignment explanation
Indices: 520523--520643 Score: 190
Period size: 53 Copynumber: 2.3 Consensus size: 53
520513 GTAAATCTAG
* *
520523 AATGTATCGATACAATATATCGATACAATGAGCAATGTATCGATACAA-CAAGC
1 AATGTATCGATACAATACATCGATACAATGAACAATGTATCGATACAATCAA-C
* *
520576 AATGTATCGATACAATGCATCGATACAATGAACAATGTATCGATACAATGAAC
1 AATGTATCGATACAATACATCGATACAATGAACAATGTATCGATACAATCAAC
520629 AATGTATCGATACAA
1 AATGTATCGATACAA
520644 ATTGTGAAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
53 61 0.97
54 2 0.03
ACGTcount: A:0.44, C:0.17, G:0.15, T:0.25
Consensus pattern (53 bp):
AATGTATCGATACAATACATCGATACAATGAACAATGTATCGATACAATCAAC
Found at i:520625 original size:13 final size:13
Alignment explanation
Indices: 520575--520605 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
520565 ATACAACAAG
*
520575 CAATGTATCGATA
1 CAATGCATCGATA
520588 CAATGCATCGATA
1 CAATGCATCGATA
520601 CAATG
1 CAATG
520606 AACAATGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (13 bp):
CAATGCATCGATA
Found at i:522019 original size:58 final size:58
Alignment explanation
Indices: 521947--522145 Score: 179
Period size: 58 Copynumber: 3.4 Consensus size: 58
521937 CTTCCATACA
* * *
521947 AATTTCATGTATTTTAATGTCATTTAGATCAATTT-TAATGA-CTTAGGGACTCTAATGT
1 AATTTCATGCATTTTGATGTCATTTAGATC-ATTTGTAATGATC-TAGGGACTCTAATAT
* * * * * *
522005 AATTTCATACATTTTGATGTCATTTAGGTCATTTGTTATGATCTAGGGATTTTTATAT
1 AATTTCATGCATTTTGATGTCATTTAGATCATTTGTAATGATCTAGGGACTCTAATAT
* * * * * ** **
522063 AATTTCATGCATTTTGATGTTATTTAGATTATTT-TCCATGATCTAGGAACTTTGGTGC
1 AATTTCATGCATTTTGATGTCATTTAGATCATTTGT-AATGATCTAGGGACTCTAATAT
*
522121 AATTTCATGTATTTTGATGTCATTT
1 AATTTCATGCATTTTGATGTCATTT
522146 TCCATGATCT
Statistics
Matches: 116, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
57 5 0.04
58 110 0.95
59 1 0.01
ACGTcount: A:0.27, C:0.10, G:0.15, T:0.48
Consensus pattern (58 bp):
AATTTCATGCATTTTGATGTCATTTAGATCATTTGTAATGATCTAGGGACTCTAATAT
Found at i:522171 original size:49 final size:48
Alignment explanation
Indices: 522065--522174 Score: 125
Period size: 49 Copynumber: 2.3 Consensus size: 48
522055 TTTTATATAA
* *
522065 TTTCATGCATTTTGATGTTATTTAGATTATTTTCCATGATCTAGGAAC
1 TTTCATGCAATTTCATGTTATTTAGATTATTTTCCATGATCTAGGAAC
** * *
522113 TTTGGTGCAATTTCATG-TATTTTGATGTCATTTTCCATGATCTAAGG-GC
1 TTTCATGCAATTTCATGTTATTTAGAT-T-ATTTTCCATGATCT-AGGAAC
522162 TTTCATGCAATTT
1 TTTCATGCAATTT
522175 TTCATAACTC
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
47 8 0.16
48 14 0.27
49 26 0.51
50 3 0.06
ACGTcount: A:0.23, C:0.14, G:0.16, T:0.47
Consensus pattern (48 bp):
TTTCATGCAATTTCATGTTATTTAGATTATTTTCCATGATCTAGGAAC
Found at i:522250 original size:58 final size:57
Alignment explanation
Indices: 522188--522534 Score: 283
Period size: 58 Copynumber: 6.0 Consensus size: 57
522178 ATAACTCGCG
* * *
522188 GACTTTGATGCAATTTCATGCATTTTGATGTCATTTAAGTCATTTTCTATGATCTAGA
1 GACTTT-ATGTAATTTCATGTATTTTGATGTCATTTAGGTCATTTTCTATGATCTAGA
* *
522246 GACTTTTATGTAA-TTCTATGCATTTTGATGTCATTTAGGTCATTTT-TCATGAGCTAG-
1 GAC-TTTATGTAATTTC-ATGTATTTTGATGTCATTTAGGTCATTTTCT-ATGATCTAGA
* * * * * *
522303 GAACTTTAATGCAACTTCATGTGTTTTGATGTCATTT-GTGTCATGTTCTATGATTGTTGA
1 G-ACTTT-ATGTAATTTCATGTATTTTGATGTCATTTAG-GTCATTTTCTATGA-TCTAGA
* * * * * * * * * *
522363 -ACTCTTTTGTAATTCCGTATATGTTAATGTCATTTAGGACATTTTCCATAATTTAGA
1 GACT-TTATGTAATTTCATGTATTTTGATGTCATTTAGGTCATTTTCTATGATCTAGA
* * *
522420 GACTTTAGTGTAATTTCATGTATTCTGATGTCATTTAGGTTATTTTCTATAATCTAGA
1 GACTTTA-TGTAATTTCATGTATTTTGATGTCATTTAGGTCATTTTCTATGATCTAGA
* * * * *
522478 GACTTTTACGTAA-TTCAATATATTTTGATATCATTTAGGTCATTTTCCAAGATCTAG
1 GAC-TTTATGTAATTTC-ATGTATTTTGATGTCATTTAGGTCATTTTCTATGATCTAG
522535 GTATTTTCAT
Statistics
Matches: 229, Mismatches: 44, Indels: 32
0.75 0.14 0.10
Matches are distributed among these distances:
57 18 0.08
58 195 0.85
59 16 0.07
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.46
Consensus pattern (57 bp):
GACTTTATGTAATTTCATGTATTTTGATGTCATTTAGGTCATTTTCTATGATCTAGA
Found at i:522524 original size:116 final size:116
Alignment explanation
Indices: 522189--522562 Score: 362
Period size: 116 Copynumber: 3.2 Consensus size: 116
522179 TAACTCGCGG
* * * *
522189 ACTTTGATGCAATTTCATGCATTTTGATGTCATTTAAGTCATTTTCTATGATCTAGAGACTTTTA
1 ACTTTAATGCAATTTCATGTATTTTGATGTCATTTAGGTCATTTTCTATAATCTAGAGACTTTTA
* ** * *
522254 TGTAATTCTATGCATTTTGATGTCATTTAGGTCATTTTTCATGAGCTAGGA
66 TGTAATTCAATATATTTTGATGTCATTTAGGTCATTTTCCATAAGCTAGGA
* * * * * *
522305 ACTTTAATGCAACTTCATGTGTTTTGATGTCATTT-GTGTCATGTTCTATGATTGTTGA-ACTCT
1 ACTTTAATGCAATTTCATGTATTTTGATGTCATTTAG-GTCATTTTCTAT-AATCTAGAGACT-T
** * * * **
522368 TT-TGTAATTCCGTATATGTTAATGTCATTTAGGACATTTTCCATAATTTA-GA
63 TTATGTAATTCAATATATTTTGATGTCATTTAGGTCATTTTCCATAAGCTAGGA
* * * *
522420 GACTTTAGTGTAATTTCATGTATTCTGATGTCATTTAGGTTATTTTCTATAATCTAGAGACTTTT
1 -ACTTTAATGCAATTTCATGTATTTTGATGTCATTTAGGTCATTTTCTATAATCTAGAGACTTTT
* * * *
522485 ACGTAATTCAATATATTTTGATATCATTTAGGTCATTTTCCA-AGATCTAGGT
65 ATGTAATTCAATATATTTTGATGTCATTTAGGTCATTTTCCATA-AGCTAGGA
* * *
522537 ATTTTCATGCAATTTTCATGAATTTT
1 ACTTTAATGCAA-TTTCATGTATTTT
522563 AGAGATATTT
Statistics
Matches: 202, Mismatches: 46, Indels: 19
0.76 0.17 0.07
Matches are distributed among these distances:
115 11 0.05
116 171 0.85
117 20 0.10
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.47
Consensus pattern (116 bp):
ACTTTAATGCAATTTCATGTATTTTGATGTCATTTAGGTCATTTTCTATAATCTAGAGACTTTTA
TGTAATTCAATATATTTTGATGTCATTTAGGTCATTTTCCATAAGCTAGGA
Found at i:527021 original size:16 final size:16
Alignment explanation
Indices: 527002--527043 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
526992 TAAACATAAA
*
527002 CTATTCTAAATACGAG
1 CTATTCTAAATACAAG
*
527018 CTATTCTAAATGCAAG
1 CTATTCTAAATACAAG
*
527034 CTATTTTAAA
1 CTATTCTAAA
527044 CATATGTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.36
Consensus pattern (16 bp):
CTATTCTAAATACAAG
Found at i:527105 original size:48 final size:48
Alignment explanation
Indices: 526992--527142 Score: 153
Period size: 48 Copynumber: 3.1 Consensus size: 48
526982 GGAGTTGTTC
* *
526992 TAAACATAAACTATTCTAAATACG-AGCTATTCTAAATGCAAGCTATTT
1 TAAACAAAAACTATTCTAAATA-GAAGCTATTCTGAATGCAAGCTATTT
* *** * * *
527040 TAAACATATGTTGTTCTAAATAGAAGCTATTTTGAATGAAAGCTATTT
1 TAAACAAAAACTATTCTAAATAGAAGCTATTCTGAATGCAAGCTATTT
* * * *
527088 TGAACAAAAACTATTCTAAACTA-AAGTTGTTCTGAATGCAAGCTGTTT
1 TAAACAAAAACTATTCTAAA-TAGAAGCTATTCTGAATGCAAGCTATTT
527136 TAAACAA
1 TAAACAA
527143 GAGTTGTTCA
Statistics
Matches: 82, Mismatches: 19, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
47 1 0.01
48 79 0.96
49 2 0.02
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (48 bp):
TAAACAAAAACTATTCTAAATAGAAGCTATTCTGAATGCAAGCTATTT
Found at i:527673 original size:34 final size:35
Alignment explanation
Indices: 527595--527682 Score: 142
Period size: 35 Copynumber: 2.5 Consensus size: 35
527585 AACTTATGTA
*
527595 AAAAGAATAAATAAATAAATTTAATGGTGTTGTTCC
1 AAAA-AATAAATAAATAAATTTAATGGCGTTGTTCC
*
527631 AAAAAATAAATAAATAAATTTGATGGCGTTGTT-C
1 AAAAAATAAATAAATAAATTTAATGGCGTTGTTCC
527665 AAAAAATAAATAAATAAA
1 AAAAAATAAATAAATAAA
527683 AGACGTGAAG
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
34 19 0.38
35 27 0.54
36 4 0.08
ACGTcount: A:0.55, C:0.05, G:0.11, T:0.30
Consensus pattern (35 bp):
AAAAAATAAATAAATAAATTTAATGGCGTTGTTCC
Found at i:528592 original size:21 final size:21
Alignment explanation
Indices: 528559--528599 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
528549 CTAAGTAAAA
528559 ATATGTATTGTATCAATACAT
1 ATATGTATTGTATCAATACAT
528580 ATAT-TATTGGTATCAATACA
1 ATATGTATT-GTATCAATACA
528600 CAAGGTTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (21 bp):
ATATGTATTGTATCAATACAT
Found at i:528664 original size:20 final size:20
Alignment explanation
Indices: 528639--528708 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
528629 ACCCTGAAAA
528639 GTATCGATACACATTTAAAT
1 GTATCGATACACATTTAAAT
* **
528659 GTATCGATACAGATTGTGTA-
1 GTATCGATACACATT-TAAAT
*
528679 GTATCGATACACA--CAATAT
1 GTATCGATACACATTTAA-AT
528698 GTATCGATACA
1 GTATCGATACA
528709 GGACATTGGC
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
18 1 0.03
19 11 0.28
20 26 0.65
21 2 0.05
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (20 bp):
GTATCGATACACATTTAAAT
Found at i:528760 original size:53 final size:53
Alignment explanation
Indices: 528680--528810 Score: 235
Period size: 53 Copynumber: 2.5 Consensus size: 53
528670 GATTGTGTAG
528680 TATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTTA
1 TATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTTA
* *
528733 TATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTTG
1 TATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTTA
*
528786 TATCGATACACATAATATGTATCGA
1 TATCGATACACACAATATGTATCGA
528811 CACATTGGTA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 75 1.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (53 bp):
TATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTTA
Found at i:528857 original size:10 final size:10
Alignment explanation
Indices: 528838--528868 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
528828 AATCTCATTT
528838 TCACTGTTCA
1 TCACTGTTCA
*
528848 TCACTATTCA
1 TCACTGTTCA
528858 TCACTGTTCA
1 TCACTGTTCA
528868 T
1 T
528869 GTATCGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:528890 original size:21 final size:22
Alignment explanation
Indices: 528856--528911 Score: 105
Period size: 21 Copynumber: 2.6 Consensus size: 22
528846 CATCACTATT
528856 CATCACTGTTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
528878 CATCACT-TTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
528899 CATCACTGTTCAT
1 CATCACTGTTCAT
528912 ACTGTTCACG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.38
Consensus pattern (22 bp):
CATCACTGTTCATGTATCGATA
Found at i:528986 original size:13 final size:13
Alignment explanation
Indices: 528968--529006 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
528958 TCACTATTCA
528968 TGTATCGATACAT
1 TGTATCGATACAT
*
528981 TGTATCGATACAG
1 TGTATCGATACAT
*
528994 TATATCGATACAT
1 TGTATCGATACAT
529007 CATAAATAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:529539 original size:34 final size:35
Alignment explanation
Indices: 529476--529542 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
529466 CTAAGTGATT
529476 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
529512 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
529543 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:532635 original size:14 final size:15
Alignment explanation
Indices: 532616--532645 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
532606 AAATATATTG
532616 ATATATATACA-TAT
1 ATATATATACACTAT
532630 ATATATATACACTAT
1 ATATATATACACTAT
532645 A
1 A
532646 CTGCCATAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (15 bp):
ATATATATACACTAT
Found at i:537889 original size:344 final size:344
Alignment explanation
Indices: 537254--537923 Score: 1241
Period size: 344 Copynumber: 1.9 Consensus size: 344
537244 CCCAACATTC
* *
537254 ATAGAGTATCACTATAAACTCTGCATTTAAAGTAAGTCTTGCAGAAAGTACTAATATTTCTATTG
1 ATAGACTATCACTATAAACTCTGCATTTAAAGTAAGTCTTACAGAAAGTACTAATATTTCTATTG
*
537319 GTAACATAGCTTCTATTCTATATGTTAATGAGAAAAGAATTGCCTTTGTAGGTCCTTGCTTTAAA
66 GTAACATAGCTTCTATTCTATATGTTAATGAGAAAAGAATTGCCTTTGTAGGTCCTTACTTTAAA
*
537384 GTTTTGTATGCCCATAATGCTACTAAAAAAGCTCCACACTATAGTTTTGGCTCTTCATGAACCAT
131 GTTTTGTATGCCCATAATGCTACTAAAAAAGCTCCACACTATAGTTTTAGCTCTTCATGAACCAT
*
537449 GCTATTAAAAATATTCAATAGAGTTTTGTTGGTATCATCAACTTGGCCATTTTCTTTTGGATACT
196 GCTATTAAAAATATTCAATAGAGTTTTGTTGGTAGCATCAACTTGGCCATTTTCTTTTGGATACT
*
537514 AAAAAGATGAGTTCACATAATTAGTATCATAAAGAGCTAGTAATTCTCTTACATTAGAATTAATG
261 AAAAAGATGAGTTCACATAATTAGCATCATAAAGAGCTAGTAATTCTCTTACATTAGAATTAATG
537579 ATTTTTTTTGGTAACTAAA
326 ATTTTTTTTGGTAACTAAA
* * *
537598 ATAGACTATCACTATAAACTCTTCATTTAAAGTAAGTCTTACAGAAGGTACTAGTATTTCTATTG
1 ATAGACTATCACTATAAACTCTGCATTTAAAGTAAGTCTTACAGAAAGTACTAATATTTCTATTG
*
537663 GTAACATAGCTTCTATTCTATATGTTAATGAGAAAGGAATTGCCTTTGTAGGTCCTTACTTTAAA
66 GTAACATAGCTTCTATTCTATATGTTAATGAGAAAAGAATTGCCTTTGTAGGTCCTTACTTTAAA
*
537728 GTTTTGTATGCCCATAATGCTACTAAAAAAGCTCCACACTATAGTTTTAGTTCTTCATGAACCAT
131 GTTTTGTATGCCCATAATGCTACTAAAAAAGCTCCACACTATAGTTTTAGCTCTTCATGAACCAT
537793 GCTATTAAAAATATTCAATAGAGTTTTGTTGGTAGCATCAACTTGGCCATTTTCTTTTGGATACT
196 GCTATTAAAAATATTCAATAGAGTTTTGTTGGTAGCATCAACTTGGCCATTTTCTTTTGGATACT
537858 AAAAAGATGAGTTCACATAATTAGCATCATAAAGAGCTAGTAATTCTCTTACATTAGAATTAATG
261 AAAAAGATGAGTTCACATAATTAGCATCATAAAGAGCTAGTAATTCTCTTACATTAGAATTAATG
537923 A
326 A
537924 AAGGAGCTCT
Statistics
Matches: 315, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
344 315 1.00
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (344 bp):
ATAGACTATCACTATAAACTCTGCATTTAAAGTAAGTCTTACAGAAAGTACTAATATTTCTATTG
GTAACATAGCTTCTATTCTATATGTTAATGAGAAAAGAATTGCCTTTGTAGGTCCTTACTTTAAA
GTTTTGTATGCCCATAATGCTACTAAAAAAGCTCCACACTATAGTTTTAGCTCTTCATGAACCAT
GCTATTAAAAATATTCAATAGAGTTTTGTTGGTAGCATCAACTTGGCCATTTTCTTTTGGATACT
AAAAAGATGAGTTCACATAATTAGCATCATAAAGAGCTAGTAATTCTCTTACATTAGAATTAATG
ATTTTTTTTGGTAACTAAA
Found at i:539536 original size:117 final size:115
Alignment explanation
Indices: 539408--539701 Score: 331
Period size: 117 Copynumber: 2.5 Consensus size: 115
539398 AAAGCGAGCA
* * * * * * *
539408 TAAATTATAAAAAATAACTTCAATGGCCCTAAAATGCATGAAAATTGCAAATGATCCCTAAATTA
1 TAAATCATATAAAATAACCTAAATGACCTTAAAAT-CATGAAAATTGAAAATGATCCCTAAATTA
* * * * *
539473 TGAAAATAAGCCAAATAACCTTAAAATTCATG-CGTATACTAAAGTGACAT
65 TAAAAATAAGCCAAATAACCCTAAAATGCATGAAGAATACTAAAGTGACAT
* * *
539523 TAGATTATATAAAATAACCTAAATGACCTTAAAAT-ATGCAAAAATTGTAAAATGATCCCTAGAT
1 TAAATCATATAAAATAACCTAAATGACCTTAAAATCATG--AAAATTG-AAAATGATCCCTAAAT
* * *
539587 TATAAAAATAATCCAAATAACCCTAAAATGCATGAAGAATGCTAAAGTGACCT
63 TATAAAAATAAGCCAAATAACCCTAAAATGCATGAAGAATACTAAAGTGACAT
* * *
539640 TAAATCATATAAAGTAACCTAAATAACCTTAAAATACATGAAAATTGTATAATGATCCCTAA
1 TAAATCATATAAAATAACCTAAATGACCTTAAAAT-CATGAAAATTG-AAAATGATCCCTAA
539702 TATGCATGAA
Statistics
Matches: 151, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
113 3 0.02
115 36 0.24
116 44 0.29
117 65 0.43
119 3 0.02
ACGTcount: A:0.48, C:0.15, G:0.10, T:0.27
Consensus pattern (115 bp):
TAAATCATATAAAATAACCTAAATGACCTTAAAATCATGAAAATTGAAAATGATCCCTAAATTAT
AAAAATAAGCCAAATAACCCTAAAATGCATGAAGAATACTAAAGTGACAT
Found at i:539552 original size:58 final size:58
Alignment explanation
Indices: 539475--539679 Score: 168
Period size: 58 Copynumber: 3.5 Consensus size: 58
539465 CTAAATTATG
* *
539475 AAAATAAGCCAAATAACCTTAAAATTCATGCGTATACTAAAGTGACATTAGATTATAT
1 AAAATAAGCCAAATAACCTTAAAATTCATGCGAATACTAAAGTGACCTTAGATTATAT
* * ** * *
539533 AAAATAA-CCTAAATGACCTTAAAA-T-ATGCAAAAATTGTAAAATGATCCCTAGATTATA-
1 AAAATAAGCC-AAATAACCTTAAAATTCATGC--GAATACTAAAGTGA-CCTTAGATTATAT
* * * * * * *
539591 AAAATAATCCAAATAACCCTAAAATGCATGAAGAATGCTAAAGTGACCTTAAATCATAT
1 AAAATAAGCCAAATAACCTTAAAATTCATG-CGAATACTAAAGTGACCTTAGATTATAT
* *
539650 AAAGTAA-CCTAAATAACCTTAAAATACATG
1 AAAATAAGCC-AAATAACCTTAAAATTCATG
539680 AAAATTGTAT
Statistics
Matches: 115, Mismatches: 22, Indels: 19
0.74 0.14 0.12
Matches are distributed among these distances:
56 4 0.03
57 3 0.03
58 59 0.51
59 46 0.40
60 3 0.03
ACGTcount: A:0.49, C:0.15, G:0.09, T:0.26
Consensus pattern (58 bp):
AAAATAAGCCAAATAACCTTAAAATTCATGCGAATACTAAAGTGACCTTAGATTATAT
Found at i:540370 original size:11 final size:11
Alignment explanation
Indices: 540334--540391 Score: 64
Period size: 12 Copynumber: 5.1 Consensus size: 11
540324 CAAAACTCTC
540334 TTCTTTCTTTT
1 TTCTTTCTTTT
*
540345 CTTCTTTATTTTT
1 -TTCTTT-CTTTT
*
540358 TTCTCTCTTTT
1 TTCTTTCTTTT
540369 TTCTTTCCTTTT
1 TTCTTT-CTTTT
540381 TT-TTTCTTTT
1 TTCTTTCTTTT
540391 T
1 T
540392 GGTTGCTCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
10 6 0.15
11 12 0.30
12 18 0.45
13 4 0.10
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (11 bp):
TTCTTTCTTTT
Found at i:540375 original size:15 final size:16
Alignment explanation
Indices: 540332--540389 Score: 59
Period size: 15 Copynumber: 3.8 Consensus size: 16
540322 TCCAAAACTC
*
540332 TCTTCTTTCTTT-TCT
1 TCTTTTTTCTTTCTCT
*
540347 TCTTTATTTTTTTCTC-
1 TCTTT-TTTCTTTCTCT
540363 TCTTTTTTCTTTC-CT
1 TCTTTTTTCTTTCTCT
*
540378 TTTTTTTTCTTT
1 TCTTTTTTCTTT
540390 TTGGTTGCTC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
14 1 0.03
15 22 0.61
16 11 0.31
17 2 0.06
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.78
Consensus pattern (16 bp):
TCTTTTTTCTTTCTCT
Found at i:541144 original size:21 final size:21
Alignment explanation
Indices: 541120--541169 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
541110 CCCAATGATG
*
541120 TATCGATACA-AATACGTAATA
1 TATCGATACATAATAC-AAATA
* *
541141 TATCAATACATAATGCAAATA
1 TATCGATACATAATACAAATA
541162 TATCGATA
1 TATCGATA
541170 TATTTGCTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.48, C:0.14, G:0.08, T:0.30
Consensus pattern (21 bp):
TATCGATACATAATACAAATA
Found at i:545337 original size:20 final size:21
Alignment explanation
Indices: 545291--545337 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
545281 TTCGATGATT
545291 TGTATCGATACAACAAGTCAA
1 TGTATCGATACAACAAGTCAA
* * *
545312 TCTATCGATAC-ATAAGTGAA
1 TGTATCGATACAACAAGTCAA
545332 TGTATC
1 TGTATC
545338 AATATATGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (21 bp):
TGTATCGATACAACAAGTCAA
Found at i:548983 original size:16 final size:16
Alignment explanation
Indices: 548964--548999 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
548954 AATGTGAATG
**
548964 ATTTTAAATGTAAGCT
1 ATTTTAAATAAAAGCT
548980 ATTTTAAATAAAAGCT
1 ATTTTAAATAAAAGCT
548996 ATTT
1 ATTT
549000 CTGAAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (16 bp):
ATTTTAAATAAAAGCT
Found at i:554293 original size:29 final size:29
Alignment explanation
Indices: 554251--554309 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
554241 TCATCAATTT
554251 CATAGTTCTCTATGCCTTGAGTGGAGAAG
1 CATAGTTCTCTATGCCTTGAGTGGAGAAG
554280 CATAGTTCTCTATGCCTTGAGTGGAGAAG
1 CATAGTTCTCTATGCCTTGAGTGGAGAAG
554309 C
1 C
554310 CTGGAATCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.31
Consensus pattern (29 bp):
CATAGTTCTCTATGCCTTGAGTGGAGAAG
Found at i:555459 original size:20 final size:20
Alignment explanation
Indices: 555394--555483 Score: 69
Period size: 20 Copynumber: 4.5 Consensus size: 20
555384 TAACTTTTAC
555394 AATTTTGATAACCTTATATAT
1 AATTTTGAT-ACCTTATATAT
* * *
555415 AATTTTAATATCTTCTA-AT
1 AATTTTGATACCTTATATAT
555434 ATATTTTGATACCTT-TATCAT
1 A-ATTTTGATACCTTATAT-AT
* * *
555455 AA-TTTAATAACTTTTAATAT
1 AATTTTGATACCTTAT-ATAT
555475 AATTTTGAT
1 AATTTTGAT
555484 GATCTTTACG
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
19 14 0.25
20 23 0.42
21 18 0.33
ACGTcount: A:0.37, C:0.09, G:0.03, T:0.51
Consensus pattern (20 bp):
AATTTTGATACCTTATATAT
Found at i:555473 original size:39 final size:41
Alignment explanation
Indices: 555378--555483 Score: 123
Period size: 39 Copynumber: 2.7 Consensus size: 41
555368 ATTTATTACT
* *
555378 TTTTTATAACTTTT-ACA-ATTTTGATAACCTTATATATAA
1 TTTTAATAACTTTTAATATATTTTGATAACCTTATATATAA
* *
555417 TTTTAATATCTTCTAATATATTTTGAT-ACCTT-TATCATAA
1 TTTTAATAACTTTTAATATATTTTGATAACCTTATAT-ATAA
555457 -TTTAATAACTTTTAATATAATTTTGAT
1 TTTTAATAACTTTTAATAT-ATTTTGAT
555484 GATCTTTACG
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
39 30 0.53
40 19 0.33
41 8 0.14
ACGTcount: A:0.35, C:0.09, G:0.03, T:0.53
Consensus pattern (41 bp):
TTTTAATAACTTTTAATATATTTTGATAACCTTATATATAA
Found at i:555648 original size:16 final size:15
Alignment explanation
Indices: 555602--555650 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
555592 TTCGAACAAG
*
555602 TTCGAATTACGTTAT
1 TTCGAATTAAGTTAT
* *
555617 TTCGGATTTAGATTAT
1 TTCGAATTAAG-TTAT
555633 TTCGAATTCAAGTTAT
1 TTCGAATT-AAGTTAT
555649 TT
1 TT
555651 TGGATTTGAG
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
15 8 0.30
16 17 0.63
17 2 0.07
ACGTcount: A:0.27, C:0.10, G:0.14, T:0.49
Consensus pattern (15 bp):
TTCGAATTAAGTTAT
Found at i:555848 original size:16 final size:16
Alignment explanation
Indices: 555813--555850 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
555803 TTATAATACG
555813 ATATTT-TTAAAATAT
1 ATATTTATTAAAATAT
* *
555828 TTATTTATTAAAATCT
1 ATATTTATTAAAATAT
555844 ATATTTA
1 ATATTTA
555851 GGTATAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
ATATTTATTAAAATAT
Found at i:557053 original size:20 final size:17
Alignment explanation
Indices: 557003--557045 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
556993 TATAAAAAAT
*
557003 TAATAATTTT-TCGTTTA
1 TAATAATTTTGT-TTTTA
557020 TAATAATTTTGTTTTTA
1 TAATAATTTTGTTTTTA
557037 TAATAATTT
1 TAATAATTT
557046 GTAAGTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 23 0.96
18 1 0.04
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (17 bp):
TAATAATTTTGTTTTTA
Found at i:557485 original size:20 final size:21
Alignment explanation
Indices: 557454--557492 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
557444 AGGTCAAAAC
557454 CCTAGAATGTATCGATACACA
1 CCTAGAATGTATCGATACACA
557475 CCTAG-ATGTATCGATACA
1 CCTAGAATGTATCGATACA
557493 TATTGCTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (21 bp):
CCTAGAATGTATCGATACACA
Found at i:557520 original size:13 final size:13
Alignment explanation
Indices: 557502--557526 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
557492 ATATTGCTTA
557502 GTATCGATACATT
1 GTATCGATACATT
557515 GTATCGATACAT
1 GTATCGATACAT
557527 GTTCTTGTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:557523 original size:33 final size:32
Alignment explanation
Indices: 557481--557545 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
557471 CACACCTAGA
557481 TGTATCGATACATATTGCTTAG-TATCGATACAT
1 TGTATCGATACATATT-CTT-GTTATCGATACAT
*
557514 TGTATCGATACATGTTCTTGTTATCGATACAT
1 TGTATCGATACATATTCTTGTTATCGATACAT
557546 GTTCTTGGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 1 0.03
32 14 0.47
33 15 0.50
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (32 bp):
TGTATCGATACATATTCTTGTTATCGATACAT
Found at i:557540 original size:19 final size:19
Alignment explanation
Indices: 557515--557583 Score: 120
Period size: 19 Copynumber: 3.6 Consensus size: 19
557505 TCGATACATT
557515 GTATCGATACATGTTCTTG
1 GTATCGATACATGTTCTTG
*
557534 TTATCGATACATGTTCTTG
1 GTATCGATACATGTTCTTG
557553 GTATCGATACATGTTCTTG
1 GTATCGATACATGTTCTTG
*
557572 GCATCGATACAT
1 GTATCGATACAT
557584 ATTGAATTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 47 1.00
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (19 bp):
GTATCGATACATGTTCTTG
Found at i:557669 original size:13 final size:14
Alignment explanation
Indices: 557632--557669 Score: 62
Period size: 13 Copynumber: 2.9 Consensus size: 14
557622 ACTCACTTTG
557632 TATCGATACAT-TA
1 TATCGATACATATA
557645 TATCGATACATAT-
1 TATCGATACATATA
557658 TATCGATACATA
1 TATCGATACATA
557670 GTGCATTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 23 0.96
14 1 0.04
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (14 bp):
TATCGATACATATA
Found at i:562345 original size:17 final size:16
Alignment explanation
Indices: 562310--562344 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
562300 AAAGGCTTTC
* *
562310 AAAGTTTTTAATTGAA
1 AAAGGTTTTAATAGAA
562326 AAAGGTTTTAATAGAA
1 AAAGGTTTTAATAGAA
562342 AAA
1 AAA
562345 ATGTTAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.14, T:0.34
Consensus pattern (16 bp):
AAAGGTTTTAATAGAA
Found at i:564685 original size:26 final size:26
Alignment explanation
Indices: 564649--564708 Score: 102
Period size: 26 Copynumber: 2.3 Consensus size: 26
564639 AGTTGTTGCT
*
564649 ATTGACTCATACATTATGGGTCATGA
1 ATTGACCCATACATTATGGGTCATGA
*
564675 ATTGACCCATACCTTATGGGTCATGA
1 ATTGACCCATACATTATGGGTCATGA
564701 ATTGACCC
1 ATTGACCC
564709 TTACTCCCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (26 bp):
ATTGACCCATACATTATGGGTCATGA
Found at i:565568 original size:35 final size:36
Alignment explanation
Indices: 565529--565600 Score: 119
Period size: 35 Copynumber: 2.0 Consensus size: 36
565519 TCACGATTTA
*
565529 AATGAATGTTTGCCTTGCTA-TTTTTTCATGAATGC
1 AATGAATGTTTGCCTTGATATTTTTTTCATGAATGC
*
565564 AATGAATGTTTGCCTTGATATTTTTTTTATGAATGC
1 AATGAATGTTTGCCTTGATATTTTTTTCATGAATGC
565600 A
1 A
565601 TAGGGGAGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
35 19 0.56
36 15 0.44
ACGTcount: A:0.25, C:0.11, G:0.17, T:0.47
Consensus pattern (36 bp):
AATGAATGTTTGCCTTGATATTTTTTTCATGAATGC
Found at i:565731 original size:31 final size:30
Alignment explanation
Indices: 565673--565733 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
565663 GTAAATTTGT
*
565673 TTTATAAAGGGGAAAAATTTGTGTTTTATA
1 TTTATAAAGGGGAAAAAGTTGTGTTTTATA
*
565703 TTTATTAAGGGGAAAAAAAGTTGT-TTTTATA
1 TTTATAAAGGGG--AAAAAGTTGTGTTTTATA
565734 AAAGGGGGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 11 0.41
31 7 0.26
32 9 0.33
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.43
Consensus pattern (30 bp):
TTTATAAAGGGGAAAAAGTTGTGTTTTATA
Found at i:566508 original size:33 final size:32
Alignment explanation
Indices: 566466--566528 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
566456 CATTCAGATG
*
566466 TATCAATACATATTGCTTAGTATCGATACATTA
1 TATCAATACATATT-CTTAGTATAGATACATTA
* *
566499 TATCAATACATGTTCTTGGTATAGATACAT
1 TATCAATACATATTCTTAGTATAGATACAT
566529 GTTCTTGGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 14 0.52
33 13 0.48
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (32 bp):
TATCAATACATATTCTTAGTATAGATACATTA
Found at i:566528 original size:19 final size:19
Alignment explanation
Indices: 566504--566547 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
566494 CATTATATCA
566504 ATACATGTTCTTGGTATAG
1 ATACATGTTCTTGGTATAG
*
566523 ATACATGTTCTTGGTATCG
1 ATACATGTTCTTGGTATAG
566542 ATACAT
1 ATACAT
566548 ATATTATATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (19 bp):
ATACATGTTCTTGGTATAG
Found at i:566671 original size:20 final size:21
Alignment explanation
Indices: 566625--566672 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
566615 AATTTCAAAT
566625 GCATGTATCGATACATTATGA
1 GCATGTATCGATACATTATGA
566646 --ATTGTATCGATACA-TATGA
1 GCA-TGTATCGATACATTATGA
566665 GCATGTAT
1 GCATGTAT
566673 GTGCAGAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 6 0.25
20 17 0.71
21 1 0.04
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.35
Consensus pattern (21 bp):
GCATGTATCGATACATTATGA
Found at i:567838 original size:26 final size:26
Alignment explanation
Indices: 567809--567862 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
567799 GTATATAAAG
567809 TATAAATTAAGTTTTTAATATTTAGT
1 TATAAATTAAGTTTTTAATATTTAGT
567835 TATAAATTAAGTTTTTAATATTTAGT
1 TATAAATTAAGTTTTTAATATTTAGT
567861 TA
1 TA
567863 ATTTATTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (26 bp):
TATAAATTAAGTTTTTAATATTTAGT
Found at i:568225 original size:21 final size:21
Alignment explanation
Indices: 568201--568243 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
568191 CCACCGTTAA
568201 TTGTAATCTTCGATACAATTT
1 TTGTAATCTTCGATACAATTT
* * *
568222 TTGTAATGTTTGATATAATTT
1 TTGTAATCTTCGATACAATTT
568243 T
1 T
568244 GATAACATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.07, G:0.12, T:0.53
Consensus pattern (21 bp):
TTGTAATCTTCGATACAATTT
Done.