Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 188 of 253
Found at i:61405030 original size:46 final size:44
Alignment explanation
Indices: 61404980--61405104 Score: 133
Period size: 46 Copynumber: 2.7 Consensus size: 44
61404970 CTCGTAGCCA
*
61404980 ATGCATGTCCTAGACATGTCTTACACTAGCTTACGTCTCAAGGCCG
1 ATGCATGTCC-AGACATGTCTTACACTAGCTT-CATCTCAAGGCCG
* * * *
61405026 ATGCATGTCCCAAACATGTCTTACATTAGCACTCATCTCAATGCCG
1 ATGCATGT-CCAGACATGTCTTACACTAGC-TTCATCTCAAGGCCG
*
61405072 ATGCCATTTTCCAGACATGGTCTTACACTAGCT
1 ATG-CA-TGTCCAGACAT-GTCTTACACTAGCT
61405105 CTCACAAAAG
Statistics
Matches: 65, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
46 39 0.60
47 12 0.18
48 14 0.22
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.30
Consensus pattern (44 bp):
ATGCATGTCCAGACATGTCTTACACTAGCTTCATCTCAAGGCCG
Found at i:61420350 original size:41 final size:41
Alignment explanation
Indices: 61420287--61420364 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
61420277 TGAGTTTTTG
* *
61420287 GACACGGGCGATGACATGGGCGTGT-CTAGGCCGTGTGAGA
1 GACACGGGCCATGACATAGGCGTGTGCTAGGCCGTGTGAGA
*
61420327 GACACGGGCCAGTGACATAGGCGTGTGCTTGGCCGTGT
1 GACACGGGCCA-TGACATAGGCGTGTGCTAGGCCGTGT
61420365 AGAAACCCCT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 10 0.30
41 13 0.39
42 10 0.30
ACGTcount: A:0.18, C:0.22, G:0.41, T:0.19
Consensus pattern (41 bp):
GACACGGGCCATGACATAGGCGTGTGCTAGGCCGTGTGAGA
Found at i:61429097 original size:20 final size:21
Alignment explanation
Indices: 61429060--61429098 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
61429050 TTAATTCTAG
*
61429060 AAATTTTAAAATATATTTTAA
1 AAATCTTAAAATATATTTTAA
61429081 AAATCTTAAAA-ATATTTT
1 AAATCTTAAAATATATTTT
61429099 TATGTTAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (21 bp):
AAATCTTAAAATATATTTTAA
Found at i:61442273 original size:45 final size:44
Alignment explanation
Indices: 61442221--61442339 Score: 141
Period size: 44 Copynumber: 2.7 Consensus size: 44
61442211 TTATGGCAGG
* *
61442221 CCTTATCTCCCTGAAGTTGCAATGGAGTAGGTCAAAAG-CTATAAA
1 CCTTATCTCCCTGAAGTTGCAATGGAGCAGGT-AAAAGTC-ACAAA
* ** *
61442266 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTCACAAG
1 CCTTATCTCCCTGAAGTTGCAATGGAGCAGGTAAAAGTCACAAA
* *
61442310 TCTCATCTCCCTGAAGTTGCAATGGAGCAG
1 CCTTATCTCCCTGAAGTTGCAATGGAGCAG
61442340 ACTGAAGATA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
44 33 0.52
45 31 0.48
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.26
Consensus pattern (44 bp):
CCTTATCTCCCTGAAGTTGCAATGGAGCAGGTAAAAGTCACAAA
Found at i:61442328 original size:89 final size:89
Alignment explanation
Indices: 61442225--61442387 Score: 229
Period size: 89 Copynumber: 1.8 Consensus size: 89
61442215 GGCAGGCCTT
* * * *
61442225 ATCTCCCTGAAGTTGCAATGGAGTAGGTCAAAAGCTA-TAAACCTTATCTCCCTGAAGTTGCAGT
1 ATCTCCCTGAAGTTGCAATGGAGCA-GACAAAAGATAGTAAACCTAATCTCCCTGAAGTTGCAGT
61442289 GGAGCAGGTTGAAGTCACAAGTCTC
65 GGAGCAGGTTGAAGTCACAAGTCTC
** * * *
61442314 ATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGATAGTGAATCTAATTTCCCTGAAGTTGCAGTG
1 ATCTCCCTGAAGTTGCAATGGAGCAGACAAAAGATAGTAAACCTAATCTCCCTGAAGTTGCAGTG
61442379 GAGCAGGTT
66 GAGCAGGTT
61442388 AAAGATAGCG
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
88 7 0.11
89 57 0.89
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (89 bp):
ATCTCCCTGAAGTTGCAATGGAGCAGACAAAAGATAGTAAACCTAATCTCCCTGAAGTTGCAGTG
GAGCAGGTTGAAGTCACAAGTCTC
Found at i:61442336 original size:44 final size:43
Alignment explanation
Indices: 61442225--61442387 Score: 132
Period size: 45 Copynumber: 3.7 Consensus size: 43
61442215 GGCAGGCCTT
* ** * * *
61442225 ATCTCCCTGAAGTTGCAATGGAGTAGGTCAAAAG-CTATAAACCTT
1 ATCTCCCTGAAGTTGCAATGGAGCAGGT-TGAAGTC-A-CAATCTA
* *
61442270 ATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTCACAAGTCTC
1 ATCTCCCTGAAGTTGCAATGGAGCAGGTTGAAGTCACAA-TCTA
** *
61442314 ATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGAT-AGTGAATCTA
1 ATCTCCCTGAAGTTGCAATGGAGCAGGTTGAAG-TCA--CAATCTA
* *
61442359 ATTTCCCTGAAGTTGCAGTGGAGCAGGTT
1 ATCTCCCTGAAGTTGCAATGGAGCAGGTT
61442388 AAAGATAGCG
Statistics
Matches: 97, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
43 2 0.02
44 37 0.38
45 56 0.58
46 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (43 bp):
ATCTCCCTGAAGTTGCAATGGAGCAGGTTGAAGTCACAATCTA
Found at i:61442374 original size:45 final size:45
Alignment explanation
Indices: 61442273--61442425 Score: 150
Period size: 45 Copynumber: 3.4 Consensus size: 45
61442263 AAACCTTATC
** * * *
61442273 TCCCTGAAGTTGCAGTGGAGCAGGTTGAAG-TCA-C-AAGTCTCATC
1 TCCCTGAAGTTGCAGTGGAGCAGACTAAAGAT-AGCGAA-TCTAATT
* * *
61442317 TCCCTGAAGTTGCAATGGAGCAGACTGAAGATAGTGAATCTAATT
1 TCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCGAATCTAATT
** * *
61442362 TCCCTGAAGTTGCAGTGGAGCAGGTTAAAGATAGCGGATCTTATT
1 TCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCGAATCTAATT
*
61442407 CCCCTGAAGTTGCAGTGGA
1 TCCCTGAAGTTGCAGTGGA
61442426 ACAAATTTAA
Statistics
Matches: 92, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
44 28 0.30
45 62 0.67
46 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.26
Consensus pattern (45 bp):
TCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCGAATCTAATT
Found at i:61444066 original size:21 final size:22
Alignment explanation
Indices: 61444027--61444080 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
61444017 TACTTATATA
61444027 TATTATTTATTATTACTATCAT
1 TATTATTTATTATTACTATCAT
61444049 TATTA-TTATT-TTATCTATCAT
1 TATTATTTATTATTA-CTATCAT
61444070 TATTTATTTAT
1 TA-TTATTTAT
61444081 ATATGTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
20 3 0.10
21 14 0.48
22 8 0.28
23 4 0.14
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (22 bp):
TATTATTTATTATTACTATCAT
Found at i:61444079 original size:18 final size:18
Alignment explanation
Indices: 61443999--61444080 Score: 57
Period size: 21 Copynumber: 4.6 Consensus size: 18
61443989 ATTAAAATTC
*
61443999 ATTTATTTATCT-TC-CT
1 ATTTATTTATCTATCATT
* *
61444015 -TTTACTTATATAT-ATT
1 ATTTATTTATCTATCATT
61444031 ATTTA-TTATTACTATCATT
1 ATTTATTTA-T-CTATCATT
61444050 ATTATTATTTTATCTATCATT
1 A-T-TTA-TTTATCTATCATT
61444071 ATTTATTTAT
1 ATTTATTTAT
61444081 ATATGTTTTA
Statistics
Matches: 52, Mismatches: 4, Indels: 18
0.70 0.05 0.24
Matches are distributed among these distances:
15 9 0.17
16 5 0.10
17 5 0.10
18 8 0.15
19 7 0.13
20 2 0.04
21 12 0.23
22 1 0.02
23 3 0.06
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTATTTATCTATCATT
Found at i:61453096 original size:45 final size:44
Alignment explanation
Indices: 61453027--61453146 Score: 134
Period size: 44 Copynumber: 2.7 Consensus size: 44
61453017 ATTATGGCAG
* * *
61453027 GCCTTATCTCCCTAAAGTTACAGTGGAGCAGGTCAAAAG-CTATAA
1 GCCTTATCTCCCTGAAGTTGCAGTGGAGCAGGT-AAAAGTC-ACAA
* * **
61453072 GCCTTATTTCCCTGAAGTTGCAGTGGTGCAGGTTGAAGTCACAA
1 GCCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTAAAAGTCACAA
* *
61453116 GTCTCATCTCCCTGAAGTTGCAGTGGAGCAG
1 GCCTTATCTCCCTGAAGTTGCAGTGGAGCAG
61453147 ACTGAAGATA
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
44 33 0.52
45 30 0.48
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.27
Consensus pattern (44 bp):
GCCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTAAAAGTCACAA
Found at i:61453185 original size:45 final size:44
Alignment explanation
Indices: 61453074--61453187 Score: 133
Period size: 44 Copynumber: 2.6 Consensus size: 44
61453064 AGCTATAAGC
* **
61453074 CTTATTTCCCTGAAGTTGCAGTGGTGCAGGTTGAAGTCACAAGT
1 CTTATTTCCCTGAAGTTGCAGTGGAGCAGACTGAAGTCACAAGT
* *
61453118 CTCATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT-AGCGAA-T
1 CTTATTTCCCTGAAGTTGCAGTGGAGCAGACTGAAG-TCA-C-AAGT
*
61453163 CTTATTTCCCTGAAGTTACAGTGGA
1 CTTATTTCCCTGAAGTTGCAGTGGA
61453188 ATAGATTAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
44 32 0.54
45 25 0.42
46 2 0.03
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (44 bp):
CTTATTTCCCTGAAGTTGCAGTGGAGCAGACTGAAGTCACAAGT
Found at i:61455007 original size:21 final size:22
Alignment explanation
Indices: 61454968--61455021 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
61454958 TACTTATATA
61454968 TATTATTTATTATTACTATCAT
1 TATTATTTATTATTACTATCAT
61454990 TATTA-TTATT-TTATCTATCAT
1 TATTATTTATTATTA-CTATCAT
61455011 TATTTATTTAT
1 TA-TTATTTAT
61455022 ATATGTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
20 3 0.10
21 14 0.48
22 8 0.28
23 4 0.14
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (22 bp):
TATTATTTATTATTACTATCAT
Found at i:61455020 original size:18 final size:18
Alignment explanation
Indices: 61454940--61455021 Score: 57
Period size: 21 Copynumber: 4.6 Consensus size: 18
61454930 ATTAAAATTC
*
61454940 ATTTATTTATCT-TC-CT
1 ATTTATTTATCTATCATT
* *
61454956 -TTTACTTATATAT-ATT
1 ATTTATTTATCTATCATT
61454972 ATTTA-TTATTACTATCATT
1 ATTTATTTA-T-CTATCATT
61454991 ATTATTATTTTATCTATCATT
1 A-T-TTA-TTTATCTATCATT
61455012 ATTTATTTAT
1 ATTTATTTAT
61455022 ATATGTTTTA
Statistics
Matches: 52, Mismatches: 4, Indels: 18
0.70 0.05 0.24
Matches are distributed among these distances:
15 9 0.17
16 5 0.10
17 5 0.10
18 8 0.15
19 7 0.13
20 2 0.04
21 12 0.23
22 1 0.02
23 3 0.06
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTATTTATCTATCATT
Found at i:61456665 original size:32 final size:32
Alignment explanation
Indices: 61456623--61456686 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
61456613 TACTTAGTCC
61456623 AACCACTCTTAGGTCAAATTAGTGAATTAGGT
1 AACCACTCTTAGGTCAAATTAGTGAATTAGGT
*
61456655 AACCATTCTTAGGTCAAATTAGTGAATTAGGT
1 AACCACTCTTAGGTCAAATTAGTGAATTAGGT
61456687 GAGTTTTTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (32 bp):
AACCACTCTTAGGTCAAATTAGTGAATTAGGT
Found at i:61460502 original size:8 final size:8
Alignment explanation
Indices: 61460489--61460513 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
61460479 ATAGATGAAT
61460489 AAATAATA
1 AAATAATA
61460497 AAATAATA
1 AAATAATA
61460505 AAATAATA
1 AAATAATA
61460513 A
1 A
61460514 TAATGATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAATAATA
Found at i:61464842 original size:9 final size:9
Alignment explanation
Indices: 61464810--61464840 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
61464800 TTTTAATGCT
61464810 TTTACAATA
1 TTTACAATA
61464819 TTTACAATA
1 TTTACAATA
*
61464828 TTTATAATA
1 TTTACAATA
61464837 TTTA
1 TTTA
61464841 TATTTTAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (9 bp):
TTTACAATA
Found at i:61466461 original size:11 final size:11
Alignment explanation
Indices: 61466447--61466471 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
61466437 TTTGTATTCT
61466447 TTTATTTTAAA
1 TTTATTTTAAA
61466458 TTTATTTTAAA
1 TTTATTTTAAA
61466469 TTT
1 TTT
61466472 TTTAAGAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTATTTTAAA
Found at i:61471379 original size:50 final size:50
Alignment explanation
Indices: 61471254--61471534 Score: 265
Period size: 50 Copynumber: 5.6 Consensus size: 50
61471244 AACCAAGCTT
* * *
61471254 TTGTGGTGATTTATTTGGGAAGCCTTTGTGGCGAGTCACCTATAAAGCCC
1 TTGTGGCGATTTATTTGGGAAGCCTTTGTGGTGAGTCACCTGTAAAGCCC
* * * *** *** * * * **
61471304 TTATGGCGATTTATATAGTTTGCCTTTACAGTAAGTCACTTGTGAAGCTT
1 TTGTGGCGATTTATTTGGGAAGCCTTTGTGGTGAGTCACCTGTAAAGCCC
* *
61471354 TTGTGGCGATTTATTTGGGAAGCCTTTGTGGTGAGTCACCTATAAAGCTC
1 TTGTGGCGATTTATTTGGGAAGCCTTTGTGGTGAGTCACCTGTAAAGCCC
* ** * * * *
61471404 TTATGGAAATTTATTTGGGAAACCTTTATGGTAAGTCATCTGTAAAGCCC
1 TTGTGGCGATTTATTTGGGAAGCCTTTGTGGTGAGTCACCTGTAAAGCCC
* * * * *
61471454 TTGTGGCAATTTATTTGGAAAACCTTTGTGGCGAGTCACCTGTAAAGCCT
1 TTGTGGCGATTTATTTGGGAAGCCTTTGTGGTGAGTCACCTGTAAAGCCC
* *
61471504 TTGTGGCGATTTATTTGGGGAGCCCTTGTGG
1 TTGTGGCGATTTATTTGGGAAGCCTTTGTGG
61471535 CAGGTTACCT
Statistics
Matches: 178, Mismatches: 53, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
50 178 1.00
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.37
Consensus pattern (50 bp):
TTGTGGCGATTTATTTGGGAAGCCTTTGTGGTGAGTCACCTGTAAAGCCC
Found at i:61471430 original size:100 final size:100
Alignment explanation
Indices: 61471248--61471502 Score: 314
Period size: 100 Copynumber: 2.5 Consensus size: 100
61471238 AAACCAAACC
* **
61471248 AAGCTTTTGTGGTGATTTATTTGGGAAGCCTTTGTGGCGAGTCACCTATAAAGCCCTTATGGCGA
1 AAGCTTTTGTGGCGATTTATTTGGGAAGCCTTTGTGGCGAGTCACCTATAAAGCCCTTATGGAAA
**** *
61471313 TTTATATAGTTTGCCTTTACAGTAAGTCA-CTTGTG
66 TTTATATAGGAAACCTTTACAGTAAGTCATC-TGTA
* *
61471348 AAGCTTTTGTGGCGATTTATTTGGGAAGCCTTTGTGGTGAGTCACCTATAAAGCTCTTATGGAAA
1 AAGCTTTTGTGGCGATTTATTTGGGAAGCCTTTGTGGCGAGTCACCTATAAAGCCCTTATGGAAA
* * **
61471413 TTTATTTGGGAAACCTTTATGGTAAGTCATCTGTA
66 TTTATATAGGAAACCTTTACAGTAAGTCATCTGTA
** * * * *
61471448 AAGCCCTTGTGGCAATTTATTTGGAAAACCTTTGTGGCGAGTCACCTGTAAAGCC
1 AAGCTTTTGTGGCGATTTATTTGGGAAGCCTTTGTGGCGAGTCACCTATAAAGCC
61471503 TTTGTGGCGA
Statistics
Matches: 132, Mismatches: 22, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
100 131 0.99
101 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (100 bp):
AAGCTTTTGTGGCGATTTATTTGGGAAGCCTTTGTGGCGAGTCACCTATAAAGCCCTTATGGAAA
TTTATATAGGAAACCTTTACAGTAAGTCATCTGTA
Found at i:61471485 original size:25 final size:25
Alignment explanation
Indices: 61471411--61471521 Score: 69
Period size: 25 Copynumber: 4.4 Consensus size: 25
61471401 CTCTTATGGA
* * *
61471411 AATTTATTTGGGAAACCTTTATGGT
1 AATTTATTTGGAAAACCTTTGTGGC
* * * * * *
61471436 AAGTCATCTGTAAAGCCCTTGTGGC
1 AATTTATTTGGAAAACCTTTGTGGC
61471461 AATTTATTTGGAAAACCTTTGTGGC
1 AATTTATTTGGAAAACCTTTGTGGC
* * * ** * *
61471486 GAGTCACCTGTAAAGCCTTTGTGGC
1 AATTTATTTGGAAAACCTTTGTGGC
*
61471511 GATTTATTTGG
1 AATTTATTTGG
61471522 GGAGCCCTTG
Statistics
Matches: 59, Mismatches: 27, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
25 59 1.00
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.37
Consensus pattern (25 bp):
AATTTATTTGGAAAACCTTTGTGGC
Found at i:61489797 original size:18 final size:18
Alignment explanation
Indices: 61489774--61489808 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
61489764 TTAAAATAAC
61489774 ATCTATATATGCACTTAG
1 ATCTATATATGCACTTAG
*
61489792 ATCTATATATGGACTTA
1 ATCTATATATGCACTTA
61489809 AGTAAGCATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.40
Consensus pattern (18 bp):
ATCTATATATGCACTTAG
Found at i:61489967 original size:92 final size:92
Alignment explanation
Indices: 61489810--61489985 Score: 334
Period size: 92 Copynumber: 1.9 Consensus size: 92
61489800 ATGGACTTAA
*
61489810 GTAAGCATCCTTCTCATAGAATCAAATATTTGATCAAGTGATCAAGACTATTGAATTTGAGCAAA
1 GTAAGCATCCTTCTCATAGAATCAAATATTTGATCAAGTGATCAAGACTATAGAATTTGAGCAAA
61489875 ATGTAGATGAACCTTGTGTTTATAAAC
66 ATGTAGATGAACCTTGTGTTTATAAAC
61489902 GTAAGCATCCTTCTCATAGAATCAAATATTTGATCAAGTGATCAAGACTATAGAATTTGAGCAAA
1 GTAAGCATCCTTCTCATAGAATCAAATATTTGATCAAGTGATCAAGACTATAGAATTTGAGCAAA
*
61489967 ATGTAGATGAACTTTGTGT
66 ATGTAGATGAACCTTGTGT
61489986 CAATAAATGA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 82 1.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (92 bp):
GTAAGCATCCTTCTCATAGAATCAAATATTTGATCAAGTGATCAAGACTATAGAATTTGAGCAAA
ATGTAGATGAACCTTGTGTTTATAAAC
Found at i:61493390 original size:622 final size:621
Alignment explanation
Indices: 61492137--61494002 Score: 3283
Period size: 622 Copynumber: 3.0 Consensus size: 621
61492127 ATTTAGTCTC
61492137 TAGCTCACAAAAATGAAATTTCATGAAATTCAATTTCAACCCATTATAGCCGAATATTATTTAGA
1 TAGCTCACAAAAATGAAATTTCATGAAATTCAATTTCAACCCATTATAGCCGAATATTATTTAGA
* *
61492202 CCCATAGAAGCCCTTATTTTTCATTATTTCATACATTTACCACACAATTTATTATTTTTCTCAAT
66 CCCATAGCAGCCCTTATTTTTCATTATTTCATACATTTACCACACAATTTATTATATTTCTCAAT
* * *
61492267 TTAATCCCTAATTGACAATTTTATAAAAAAATCACTTAACAAATGTTGTTTCATCTAACAACAAC
131 TTAATCCCTAACTGACAATTTTAT-CAAAAATCACTTAACAAATGTTGTTTTATCTAACAACAAC
* * * *
61492332 CATTCAGTTTCTATCATCAATCATCAATATGAACACATATTCATCAATAGTAAAACCTTAAACCT
195 CATTCATTTTCTATCATCAATCATCAAAATGAACACATATTCATCAATGGTAAAACCCTAAACCT
* * *
61492397 TTAAAAAAATTTT-AGATTAGTCCCTAGGCTATCTAGATTAAGCTACAACGACTCCGAAAACATA
260 TT-AAATATTTTTCAAATTAGTCCCTAGGCTATCTAGATTAAGCTACAACGACTCCGAAAACATA
* *
61492461 GAAATCATTAAAAACCGAG-CCAAAATCACTTACATGCACTAGATGAACTTGGCCGAATGTTAAG
324 GAAATCATTAAAAACTGAGTCAAAAATCACTTACATGCACTAGATGAACTTGGCCGAATGTTAAG
*
61492525 CTTCTCCAATGACTATTTTTTCCCTAAATTTCAGTTGAAGAAGATGAATGGGAAAGAAAATTGAT
389 CTTCTCCAATGGCTATTTTTTCCCTAAATTTCAGTTGAAGAAGATGAATGGGAAAGAAAATTGAT
*
61492590 TTTTGTTTTACTTAATTTAGGTTTTATGTACTAAATTACTTATATACCCTTTATTATTAACCTTT
454 TTTTGTTTTACTTAATTTAGGTTTTATTTACTAAATTACTTATATACCCTTTATTATTAACCTTT
* * *
61492655 AATTTACTTAGTAAAATGTCTTTATTTGTCCAATCATTTTAATAATGGTCTAATTACCATATAAG
519 AATTTACTTAGTAAAATTTCTATATTTGTCCAATCATTTTAATAATAGTCTAATTACCATATAAG
*
61492720 GACCTTTATTTTAAGGTTCCATACCTATTAGACACCTT
584 GACCTTTACTTTAAGGTTCCATACCTATTAGACACCTT
61492758 TAGCTCACAAAAATGAAATTTCATGAAATTCAATTTCAACCCATTATAGCCGAATATTATTTAGA
1 TAGCTCACAAAAATGAAATTTCATGAAATTCAATTTCAACCCATTATAGCCGAATATTATTTAGA
61492823 CCCATAGCAGCCCTTATTTTTCATTATTTCATACATTTACCACACAATTTATTATATTTCTCAAT
66 CCCATAGCAGCCCTTATTTTTCATTATTTCATACATTTACCACACAATTTATTATATTTCTCAAT
*
61492888 TTAATCCCTAACTGACAATTTTATCAAAAATCACTTAATAAATGTTGTTTTATCTAACAACAACC
131 TTAATCCCTAACTGACAATTTTATCAAAAATCACTTAACAAATGTTGTTTTATCTAACAACAACC
61492953 ATTCATTTTCTATCATCAATCATCAAAATGAACACATATTCATCAATGGTAAAACCCTAAACCTT
196 ATTCATTTTCTATCATCAATCATCAAAATGAACACATATTCATCAATGGTAAAACCCTAAACCTT
* *
61493018 TAATTTTTTTTCAAATTAGTCCCTAGGCTATCTAGATTAAGCTACAACGACTCCGAAAACATAGA
261 TAAATATTTTTCAAATTAGTCCCTAGGCTATCTAGATTAAGCTACAACGACTCCGAAAACATAGA
*
61493083 AATCATTAAAAACTGAGTCAAAAATCGCTTACATGCACTAGATGAACTTGGCCGAATGTTAAGCT
326 AATCATTAAAAACTGAGTCAAAAATCACTTACATGCACTAGATGAACTTGGCCGAATGTTAAGCT
61493148 TCTCCAATGGCTATTTTTTTCCCTAAATTTCAGTTGAAGAAGATGAATGGGAAAGAAAATTGATT
391 TCTCCAATGGCTA-TTTTTTCCCTAAATTTCAGTTGAAGAAGATGAATGGGAAAGAAAATTGATT
* * *
61493213 TTTGTTTTACTTAATTTAGGTTTTATTTACTAAATCACTTATATACCCTATATTGTTAACCTTTA
455 TTTGTTTTACTTAATTTAGGTTTTATTTACTAAATTACTTATATACCCTTTATTATTAACCTTTA
* *
61493278 ATTTACTTAGTAAAATTTCTATATTTGTCCAATCATTTTAATAACAGTCTAATTACTATATAAGG
520 ATTTACTTAGTAAAATTTCTATATTTGTCCAATCATTTTAATAATAGTCTAATTACCATATAAGG
*
61493343 ACATTTACTTTAAGGTTCCATACCTATTAGACACCTT
585 ACCTTTACTTTAAGGTTCCATACCTATTAGACACCTT
61493380 TAGCTCACAAAAATGAAATTTCATGAAATTCAATTTCAACCCATTATAGCCGAATATTATTTAGA
1 TAGCTCACAAAAATGAAATTTCATGAAATTCAATTTCAACCCATTATAGCCGAATATTATTTAGA
* * *
61493445 CCTATAGCAGCCCTTATTTTTCATTATTTCATACATTTACCAAAAAATTTATTATATTTCTCAAT
66 CCCATAGCAGCCCTTATTTTTCATTATTTCATACATTTACCACACAATTTATTATATTTCTCAAT
61493510 TTAATCCCTAACTGACAATTTTATCAAAAATCACTTAACAAATGTTGTTTTATCTAACAACAACC
131 TTAATCCCTAACTGACAATTTTATCAAAAATCACTTAACAAATGTTGTTTTATCTAACAACAACC
*
61493575 ATGCATTTTCTATCATCAATCATCAAAATGAACACATATTCATCAATGGTAAAACCCTAAACCTT
196 ATTCATTTTCTATCATCAATCATCAAAATGAACACATATTCATCAATGGTAAAACCCTAAACCTT
* *
61493640 TAAATATTTTTCAAATTAGTCCCTAGGCTATCTATATTAAGCTACAACGACTCCGAAAATATAGA
261 TAAATATTTTTCAAATTAGTCCCTAGGCTATCTAGATTAAGCTACAACGACTCCGAAAACATAGA
* *
61493705 AATCATTAAAAACTGAGTCAAAAACCACTTACATGCACTAGATGAACTTGGCCAAATGTTAAGCT
326 AATCATTAAAAACTGAGTCAAAAATCACTTACATGCACTAGATGAACTTGGCCGAATGTTAAGCT
61493770 TCTCCAATGGCTATTTTTTCCCTAAATTTCAGTTGAAGAAGATGAATGGGAAAGAAAATTGA-TT
391 TCTCCAATGGCTATTTTTTCCCTAAATTTCAGTTGAAGAAGATGAATGGGAAAGAAAATTGATTT
* *
61493834 TT-TTTTACTTAATTTAGGTTTTATTTAC-AAATTACTTATATACCCTTTACTATCAACCTTTAA
456 TTGTTTTACTTAATTTAGGTTTTATTTACTAAATTACTTATATACCCTTTATTATTAACCTTTAA
**
61493897 TTTACTTAGTAAAATTTCTATATTTGTCCAATCATTTTAATAATAGTCTAATTACCATATAAATA
521 TTTACTTAGTAAAATTTCTATATTTGTCCAATCATTTTAATAATAGTCTAATTACCATATAAGGA
*
61493962 CCTTTACTTTAAGGTTCCATATCTATTAGACACCTT
586 CCTTTACTTTAAGGTTCCATACCTATTAGACACCTT
61493998 TAGCT
1 TAGCT
61494003 ATTAGAACAC
Statistics
Matches: 1189, Mismatches: 53, Indels: 9
0.95 0.04 0.01
Matches are distributed among these distances:
618 130 0.11
619 32 0.03
620 172 0.14
621 257 0.22
622 598 0.50
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.37
Consensus pattern (621 bp):
TAGCTCACAAAAATGAAATTTCATGAAATTCAATTTCAACCCATTATAGCCGAATATTATTTAGA
CCCATAGCAGCCCTTATTTTTCATTATTTCATACATTTACCACACAATTTATTATATTTCTCAAT
TTAATCCCTAACTGACAATTTTATCAAAAATCACTTAACAAATGTTGTTTTATCTAACAACAACC
ATTCATTTTCTATCATCAATCATCAAAATGAACACATATTCATCAATGGTAAAACCCTAAACCTT
TAAATATTTTTCAAATTAGTCCCTAGGCTATCTAGATTAAGCTACAACGACTCCGAAAACATAGA
AATCATTAAAAACTGAGTCAAAAATCACTTACATGCACTAGATGAACTTGGCCGAATGTTAAGCT
TCTCCAATGGCTATTTTTTCCCTAAATTTCAGTTGAAGAAGATGAATGGGAAAGAAAATTGATTT
TTGTTTTACTTAATTTAGGTTTTATTTACTAAATTACTTATATACCCTTTATTATTAACCTTTAA
TTTACTTAGTAAAATTTCTATATTTGTCCAATCATTTTAATAATAGTCTAATTACCATATAAGGA
CCTTTACTTTAAGGTTCCATACCTATTAGACACCTT
Found at i:61501151 original size:58 final size:57
Alignment explanation
Indices: 61501089--61501209 Score: 147
Period size: 57 Copynumber: 2.1 Consensus size: 57
61501079 AGAGAAATGG
*
61501089 TGAAAAAGGAGAAAAGGGAAA-CATTT-GAAAATGATTATGGTTTTCTCCAAAATGAAAA
1 TGAAAAAGGAG-AAA-GGAAATCATTTAG-AAATGAATATGGTTTTCTCCAAAATGAAAA
* * * * *
61501147 TGAAAATGGAGAAATGAAATCATTTAGAAATGAATGTGGTTTTCTTCAAAATTAAAA
1 TGAAAAAGGAGAAAGGAAATCATTTAGAAATGAATATGGTTTTCTCCAAAATGAAAA
61501204 TGAAAA
1 TGAAAA
61501210 TGACTTGGAA
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
56 4 0.07
57 40 0.73
58 11 0.20
ACGTcount: A:0.48, C:0.06, G:0.19, T:0.27
Consensus pattern (57 bp):
TGAAAAAGGAGAAAGGAAATCATTTAGAAATGAATATGGTTTTCTCCAAAATGAAAA
Found at i:61501715 original size:17 final size:20
Alignment explanation
Indices: 61501681--61501721 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
61501671 TCTACTCAAC
61501681 TTTTCTATTTCTTCTCCT-T
1 TTTTCTATTTCTTCTCCTCT
61501700 TTTTCT-TTTCTT-TCCTCT
1 TTTTCTATTTCTTCTCCTCT
61501718 TTTT
1 TTTT
61501722 TGCACCTTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.19
18 11 0.52
19 6 0.29
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTCTATTTCTTCTCCTCT
Found at i:61508083 original size:16 final size:16
Alignment explanation
Indices: 61508039--61508083 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
61508029 TCTCCAATGA
*
61508039 TTTATTACTATTATTT
1 TTTATTATTATTATTT
*
61508055 TTTATTATGATTATTGT
1 TTTATTATTATTATT-T
61508072 TTTATT-TTATTA
1 TTTATTATTATTA
61508084 GAAACCGCGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 18 0.72
17 7 0.28
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.69
Consensus pattern (16 bp):
TTTATTATTATTATTT
Found at i:61508986 original size:17 final size:16
Alignment explanation
Indices: 61508955--61508988 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
61508945 TAAAAAGAGT
*
61508955 AGTTATAAATTTTATG
1 AGTTATAAATCTTATG
61508971 AGTTATAAAATCTTATG
1 AGTTAT-AAATCTTATG
61508988 A
1 A
61508989 ATGATGCTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (16 bp):
AGTTATAAATCTTATG
Found at i:61519574 original size:24 final size:25
Alignment explanation
Indices: 61519538--61519606 Score: 72
Period size: 24 Copynumber: 2.8 Consensus size: 25
61519528 TTTATAGTTT
61519538 TTTTATATTTTTTAAAATTTTAAA-A-
1 TTTT-TATTTTTT-AAATTTTAAAGAG
61519563 TTTTTATTTTTT-AATTTTAAAGAG
1 TTTTTATTTTTTAAATTTTAAAGAG
* *
61519587 ATTTTAATTTTTAGAATTTT
1 TTTTTATTTTTTA-AATTTT
61519607 TTATATTTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
22 9 0.24
23 1 0.03
24 18 0.47
25 4 0.11
26 6 0.16
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (25 bp):
TTTTTATTTTTTAAATTTTAAAGAG
Found at i:61532521 original size:33 final size:34
Alignment explanation
Indices: 61532454--61532531 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 34
61532444 TCTTCTTATG
* *
61532454 CATATA-AAGCAACCAAAATATACCATTTCAATA
1 CATATATAAGCAACCAAAACATACCAATTCAATA
* *
61532487 CATATATAAGCAGCCAAAACATGCCAATTC-ATA
1 CATATATAAGCAACCAAAACATACCAATTCAATA
*
61532520 CACATATTAAGC
1 CATATA-TAAGC
61532532 CATCTATCTT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
33 14 0.37
34 24 0.63
ACGTcount: A:0.47, C:0.23, G:0.06, T:0.23
Consensus pattern (34 bp):
CATATATAAGCAACCAAAACATACCAATTCAATA
Found at i:61533697 original size:26 final size:27
Alignment explanation
Indices: 61533674--61533726 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
61533664 GAATCATTCG
*
61533674 ATATGTCGTACACTAAGTGCCATTATCA
1 ATATGTCGCACACTAAGTGCCA-TATCA
*
61533702 ATATTTCGCACACTAAGTGCCATAT
1 ATATGTCGCACACTAAGTGCCATAT
61533727 TTGATGTCCC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 3 0.13
28 20 0.87
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (27 bp):
ATATGTCGCACACTAAGTGCCATATCA
Found at i:61535956 original size:40 final size:39
Alignment explanation
Indices: 61535912--61536096 Score: 219
Period size: 40 Copynumber: 4.7 Consensus size: 39
61535902 GCCACTAGCT
*
61535912 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* *
61535952 CAAATGCCTTCGGGACTTAGCCTGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
* *
61535991 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
* * * ** * *
61536031 CAAATGCCTTCGAGACTTAGGCCGGAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
61536071 CAAATG-CTCTCGGGACTTAGCCCGGT
1 CAAATGCCT-TCGGGACTTAGCCCGGT
61536097 TATCATCCGA
Statistics
Matches: 126, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
39 39 0.31
40 87 0.69
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:61536010 original size:79 final size:80
Alignment explanation
Indices: 61535905--61536099 Score: 236
Period size: 79 Copynumber: 2.5 Consensus size: 80
61535895 GGATATAGCC
* * *
61535905 ACTAGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTT
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGAGACTT
* *
61535970 A-GCCTGGTA-TAATA
66 AGGCC-GGAATTAACA
* * *
61535984 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-AATTAGTAGCTCGCACAAATGCCTTCGAGACT
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCACAAATGCCTTCGAGACT
* *
61536048 TAGGCCGGAATTAGCC
65 TAGGCCGGAATTAACA
*
61536064 ACTAGCTCAAATG-CTCTCGGGACTTAGCCCGGTTAT
1 ACTAGCACAAATGCCT-TCGGGACTTAGCCCGGTTAT
61536100 CATCCGAACA
Statistics
Matches: 98, Mismatches: 13, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
78 1 0.01
79 63 0.64
80 33 0.34
81 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGAGACTT
AGGCCGGAATTAACA
Found at i:61542381 original size:28 final size:28
Alignment explanation
Indices: 61542345--61542398 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
61542335 AAATATATAA
61542345 TATATAAAT-TAATAAAA-AACTTAAAACT
1 TATATAAATAT-ATAAAAGAA-TTAAAACT
61542373 TATATAAATATATAAAAGAATTAAAA
1 TATATAAATATATAAAAGAATTAAAA
61542399 AGCTCGTCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 21 0.88
29 3 0.12
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (28 bp):
TATATAAATATATAAAAGAATTAAAACT
Found at i:61542513 original size:21 final size:21
Alignment explanation
Indices: 61542489--61542533 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
61542479 TTATTAATTT
*
61542489 ATATATTTTATTTTTTAAAA-A
1 ATATATTTTA-ATTTTAAAATA
*
61542510 ATATTTTTTAATTTTAAAATA
1 ATATATTTTAATTTTAAAATA
61542531 ATA
1 ATA
61542534 ATATAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
ATATATTTTAATTTTAAAATA
Found at i:61549624 original size:29 final size:28
Alignment explanation
Indices: 61549582--61549668 Score: 93
Period size: 29 Copynumber: 3.0 Consensus size: 28
61549572 TTTCACTCAA
61549582 TGTGCAATATTATACATAAAGTTTGATTT
1 TGTGCAATATTATA-ATAAAGTTTGATTT
* * **
61549611 TGTGTAATGTTATATATAAAGTTCAATTT
1 TGTGCAATATTATA-ATAAAGTTTGATTT
* *
61549640 TGTGCAATTTTATAATGAAATTTTGATTT
1 TGTGCAATATTATAAT-AAAGTTTGATTT
61549669 AATTCAATTT
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
28 2 0.04
29 45 0.96
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.48
Consensus pattern (28 bp):
TGTGCAATATTATAATAAAGTTTGATTT
Found at i:61554344 original size:34 final size:33
Alignment explanation
Indices: 61554203--61554344 Score: 124
Period size: 34 Copynumber: 4.2 Consensus size: 33
61554193 TTGCCACTGA
* * **
61554203 ATTGAT-TGATTATAAGCATATTATTTGTTACCAT
1 ATTGATCTG-TTATAAGCATATTAATTGCTA-TGT
*
61554237 ATCGATCTGTTATAAGCATATTAATTGCTAATGT
1 ATTGATCTGTTATAAGCATATTAATTGCT-ATGT
* * * *
61554271 ACTGATTTGCTATAAGCATATTAATTGATATCGT
1 ATTGATCTGTTATAAGCATATTAATTGCTAT-GT
* *
61554305 ATTGATCTGTTATACGCATATAAATTGCTACTGT
1 ATTGATCTGTTATAAGCATATTAATTGCTA-TGT
*
61554339 GTTGAT
1 ATTGAT
61554345 TTGTAAAAAG
Statistics
Matches: 87, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
33 2 0.02
34 81 0.93
35 4 0.05
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.43
Consensus pattern (33 bp):
ATTGATCTGTTATAAGCATATTAATTGCTATGT
Found at i:61554356 original size:68 final size:68
Alignment explanation
Indices: 61554216--61554357 Score: 169
Period size: 68 Copynumber: 2.1 Consensus size: 68
61554206 GATTGATTAT
* * *
61554216 AAGCATATTATTTGTTACCATATCGATCTGTTATAAGCATATTAATTGCTAATGTACTGATTTGC
1 AAGCATATTAATTGATACCATATCGATCTGTTATAAGCATATAAATTGCTAATGTACTGATTTGC
*
61554281 TAT
66 TAA
* * * * * **
61554284 AAGCATATTAATTGATATCGTATTGATCTGTTATACGCATATAAATTGCTACTGTGTTGATTTG-
1 AAGCATATTAATTGATACCATATCGATCTGTTATAAGCATATAAATTGCTAATGTACTGATTTGC
61554348 TAAA
66 T-AA
61554352 AAGCAT
1 AAGCAT
61554358 GTTATCTTGC
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
67 1 0.02
68 61 0.98
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (68 bp):
AAGCATATTAATTGATACCATATCGATCTGTTATAAGCATATAAATTGCTAATGTACTGATTTGC
TAA
Found at i:61554582 original size:44 final size:44
Alignment explanation
Indices: 61554492--61554662 Score: 155
Period size: 44 Copynumber: 3.8 Consensus size: 44
61554482 CCAAAGGTAG
* * * *
61554492 ATTCTATCTGCGGGATTTTTGTTGTGCATCCATAG-CTAGTGGCAA
1 ATTCTATCTGCGAGA-TTTTGTTGTGTATCCATAGTC-AGAGACAA
* *
61554537 ATTCTATCTGTGAGATTTTGTTGTGTATTCATAGTCAGAGACAA
1 ATTCTATCTGCGAGATTTTGTTGTGTATCCATAGTCAGAGACAA
* * * * * ** * *
61554581 ATTTTATTTGCGAGATTTTTTCTATGTACCCGCAATCAGAGACAG
1 ATTCTATCTGCGAGATTTTGT-TGTGTATCCATAGTCAGAGACAA
* *
61554626 ATTCTATCTACGGGATTTTGTTGTGTATCCATAGTCA
1 ATTCTATCTGCGAGATTTTGTTGTGTATCCATAGTCA
61554663 TTGGCAGTTT
Statistics
Matches: 97, Mismatches: 27, Indels: 5
0.75 0.21 0.04
Matches are distributed among these distances:
44 51 0.53
45 46 0.47
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (44 bp):
ATTCTATCTGCGAGATTTTGTTGTGTATCCATAGTCAGAGACAA
Found at i:61558200 original size:18 final size:18
Alignment explanation
Indices: 61558174--61558208 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
61558164 CCAGGTTACC
*
61558174 ATCTTATGTGATTTAACA
1 ATCTCATGTGATTTAACA
61558192 ATCTCATGTGATTTAAC
1 ATCTCATGTGATTTAAC
61558209 CATACTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.43
Consensus pattern (18 bp):
ATCTCATGTGATTTAACA
Found at i:61571479 original size:3 final size:3
Alignment explanation
Indices: 61571471--61571517 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
61571461 CAAAACCCAA
61571471 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
61571518 CCTTAGCAAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:61572544 original size:28 final size:27
Alignment explanation
Indices: 61572513--61572572 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
61572503 AAAATCTCTC
* *
61572513 ATTTTCTTT-TTATTTCTTATAAATTTAT
1 ATTTTATTTATTATTTCCT-TAAA-TTAT
*
61572541 ATTTTATTTATTTTTTCCTTAAATTAT
1 ATTTTATTTATTATTTCCTTAAATTAT
61572568 ATTTT
1 ATTTT
61572573 GTTGAGATCG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 9 0.32
28 12 0.43
29 7 0.25
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (27 bp):
ATTTTATTTATTATTTCCTTAAATTAT
Found at i:61580907 original size:49 final size:49
Alignment explanation
Indices: 61580835--61581022 Score: 205
Period size: 49 Copynumber: 3.8 Consensus size: 49
61580825 TGAGGTCACG
* *
61580835 TGTGTAGTACAAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* ** * * * * *
61580884 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGAAAAGTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCGCA
* * * *
61580935 TGTGTAGTACTAAGTGCAAGCTGCTACGTGTACCAAATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * *
61580984 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
61581023 GCTTCGGCTA
Statistics
Matches: 109, Mismatches: 28, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
49 71 0.65
50 2 0.02
51 36 0.33
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:61581005 original size:100 final size:100
Alignment explanation
Indices: 61580830--61581017 Score: 304
Period size: 100 Copynumber: 1.9 Consensus size: 100
61580820 TATTGTGAGG
* **
61580830 TCACGTGTGTAGTACAAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACAAAGTGCAAGCTACTACGTGTACCAAATAATTGGTCGCATGTGTAGTACT
61580895 AAGTGCAGGCTACTATGCATACCCGAAAAGTGTGA
66 AAGTGCAGGCTACTATGCATACCCGAAAAGTGTGA
* * *
61580930 TCACGTGTGTAGTACTAAGTGCAAGCTGCTACGTGTACCAAATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACAAAGTGCAAGCTACTACGTGTACCAAATAATTGGTCGCATGTGTAGTACT
* *
61580995 AAGTGTAGGCTACTATGCGTACC
66 AAGTGCAGGCTACTATGCATACC
61581018 AGATAGCTTC
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
100 80 1.00
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (100 bp):
TCACGTGTGTAGTACAAAGTGCAAGCTACTACGTGTACCAAATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCATACCCGAAAAGTGTGA
Found at i:61583033 original size:43 final size:44
Alignment explanation
Indices: 61582984--61583154 Score: 197
Period size: 43 Copynumber: 4.0 Consensus size: 44
61582974 GGTTATCGAG
*
61582984 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGTAT
* * *
61583028 -TGTGATTACATGTAAGACCATGTTTGGGACATTGGCATCGT-T
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGTAT
* * * * * **
61583070 ATATGATTTCGTGTAAGACCCTATCTGGGACAGTGGCA-TCAAT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGTAT
* *
61583113 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCATTGTA
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGTA
61583155 CGAGTTATAT
Statistics
Matches: 104, Mismatches: 20, Indels: 7
0.79 0.15 0.05
Matches are distributed among these distances:
42 6 0.06
43 98 0.94
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.33
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGTAT
Found at i:61584664 original size:22 final size:22
Alignment explanation
Indices: 61584634--61584678 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
61584624 TCCGGTGTCG
* *
61584634 GATATGGGTTAGGGGTGTTACA
1 GATACGGGTTAGAGGTGTTACA
61584656 GATACGGGTTAGAGGTGTTACA
1 GATACGGGTTAGAGGTGTTACA
61584678 G
1 G
61584679 GTATACTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.24, C:0.07, G:0.40, T:0.29
Consensus pattern (22 bp):
GATACGGGTTAGAGGTGTTACA
Found at i:61589373 original size:21 final size:22
Alignment explanation
Indices: 61589331--61589374 Score: 54
Period size: 25 Copynumber: 1.9 Consensus size: 22
61589321 TCGACTAATA
61589331 TCACTTTTTGTATGTAATTGTAGGT
1 TCACTTTTTGTATG--A-TGTAGGT
61589356 TCACTTTTTGTATG-TGTAG
1 TCACTTTTTGTATGATGTAG
61589375 TTTGGTGTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 5 0.26
25 14 0.74
ACGTcount: A:0.18, C:0.09, G:0.20, T:0.52
Consensus pattern (22 bp):
TCACTTTTTGTATGATGTAGGT
Found at i:61589407 original size:68 final size:68
Alignment explanation
Indices: 61589256--61589420 Score: 210
Period size: 68 Copynumber: 2.4 Consensus size: 68
61589246 GTGTTACAGA
* *
61589256 ACTAATATAACTTTTTGCATGTAATTGTAGGTTGTCATTTTTTGTATGTGTAAAGGATGTAATGG
1 ACTAATATAACTTTTTGTATGTAATTGTAGGTTGTCACTTTTTGTATGTGTAAAGGATGTAATGG
*
61589321 TCG
66 TAG
* ** *
61589324 ACTAATATCACTTTTTGTATGTAATTGTAGG-T-TCACTTTTTGTATGTGTAGTTTGG-TGTAGT
1 ACTAATATAACTTTTTGTATGTAATTGTAGGTTGTCACTTTTTGTATGTGTA--AAGGATGTAAT
61589386 GGTAG
64 GGTAG
*
61589391 AGTAATATAACTTTTTTGTATGTAATTGTA
1 ACTAATATAAC-TTTTTGTATGTAATTGTA
61589421 AGATGATATA
Statistics
Matches: 85, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
66 17 0.20
67 19 0.22
68 49 0.58
ACGTcount: A:0.25, C:0.07, G:0.21, T:0.47
Consensus pattern (68 bp):
ACTAATATAACTTTTTGTATGTAATTGTAGGTTGTCACTTTTTGTATGTGTAAAGGATGTAATGG
TAG
Found at i:61590514 original size:34 final size:34
Alignment explanation
Indices: 61590471--61590548 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 34
61590461 CTAAGCATGT
* * *
61590471 GAGCTTATATGTTATAC-TAACCTTAGGAATGTGC
1 GAGCCTATATGTTATACAAAACC-TAGGAATATGC
* *
61590505 GAGCCTATATGTTATGCAAAACCTAGGAATATGT
1 GAGCCTATATGTTATACAAAACCTAGGAATATGC
61590539 GAGCCTATAT
1 GAGCCTATAT
61590549 ATATGTGAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
34 34 0.89
35 4 0.11
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (34 bp):
GAGCCTATATGTTATACAAAACCTAGGAATATGC
Found at i:61591264 original size:25 final size:25
Alignment explanation
Indices: 61591218--61591265 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
61591208 AATCAGACGT
* * *
61591218 CAAATATTTCAGTCAAATAGTCAAA
1 CAAATACTGCAGTCAAAGAGTCAAA
*
61591243 CAAATACTGCAGTCATAGAGTCA
1 CAAATACTGCAGTCAAAGAGTCA
61591266 CTAAGATGCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (25 bp):
CAAATACTGCAGTCAAAGAGTCAAA
Found at i:61592484 original size:40 final size:40
Alignment explanation
Indices: 61592434--61592510 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
61592424 ACACACCATG
*
61592434 TGGGAATAAAATCGACCCACCCAGCCCTATACACCAATTA
1 TGGGAATAAAATCGACCCACCCAGCCCTACACACCAATTA
* * * *
61592474 TGGGGATAAAATTGACCCATCCGGCCCTACACACCAA
1 TGGGAATAAAATCGACCCACCCAGCCCTACACACCAA
61592511 GTGGTACTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.35, C:0.32, G:0.16, T:0.17
Consensus pattern (40 bp):
TGGGAATAAAATCGACCCACCCAGCCCTACACACCAATTA
Found at i:61593993 original size:14 final size:14
Alignment explanation
Indices: 61593974--61594012 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
61593964 GTTACACTTC
*
61593974 GTATGCAGATGTGT
1 GTATGCAGATGTAT
61593988 GTATGCAGATGTAT
1 GTATGCAGATGTAT
*
61594002 GTATGCGGATG
1 GTATGCAGATG
61594013 CTCCAACTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.23, C:0.08, G:0.36, T:0.33
Consensus pattern (14 bp):
GTATGCAGATGTAT
Found at i:61594361 original size:21 final size:21
Alignment explanation
Indices: 61594328--61594403 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 21
61594318 GTGGGGGTCT
* * *
61594328 ACACGCTCATGTGGAGGCCTC
1 ACACGCCCGTGTGGAGGCCCC
* *
61594349 ACATGCCCGTGTGAAGGCCCC
1 ACACGCCCGTGTGGAGGCCCC
* ***
61594370 ACACGCCGGTGTGGAGGGGGC
1 ACACGCCCGTGTGGAGGCCCC
61594391 ACACGCCCGTGTG
1 ACACGCCCGTGTG
61594404 AACAGCCCGT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.17, C:0.33, G:0.36, T:0.14
Consensus pattern (21 bp):
ACACGCCCGTGTGGAGGCCCC
Found at i:61599260 original size:23 final size:22
Alignment explanation
Indices: 61599234--61599291 Score: 50
Period size: 25 Copynumber: 2.6 Consensus size: 22
61599224 TAAGCACCTA
61599234 TTATTTATTTTTA--TTT-TAT
1 TTATTTATTTTTATTTTTATAT
*
61599253 TTATTTATTTATTTTATTTTTATCT
1 TTATTTA--T-TTTTATTTTTATAT
61599278 TTATTTATATTTTA
1 TTATTTAT-TTTTA
61599292 AAATTACTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
19 7 0.22
21 1 0.03
22 5 0.16
23 7 0.22
24 3 0.09
25 9 0.28
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (22 bp):
TTATTTATTTTTATTTTTATAT
Found at i:61599265 original size:17 final size:16
Alignment explanation
Indices: 61599234--61599289 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 16
61599224 TAAGCACCTA
61599234 TTATTTA-TTTTTATT
1 TTATTTATTTTTTATT
61599249 TTATTTATTTATTTATT
1 TTATTTATTT-TTTATT
61599266 TTATTT-TTATCTTTATT
1 TTATTTATT-T-TTTATT
61599283 TATATTT
1 T-TATTT
61599290 TAAAATTACT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
15 7 0.19
16 4 0.11
17 20 0.56
18 5 0.14
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (16 bp):
TTATTTATTTTTTATT
Found at i:61614647 original size:13 final size:13
Alignment explanation
Indices: 61614629--61614681 Score: 106
Period size: 13 Copynumber: 4.1 Consensus size: 13
61614619 GAAGCAATCG
61614629 CACACGGGCGTGT
1 CACACGGGCGTGT
61614642 CACACGGGCGTGT
1 CACACGGGCGTGT
61614655 CACACGGGCGTGT
1 CACACGGGCGTGT
61614668 CACACGGGCGTGT
1 CACACGGGCGTGT
61614681 C
1 C
61614682 CCTGTCGAGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.15, C:0.32, G:0.38, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:61617770 original size:21 final size:21
Alignment explanation
Indices: 61617746--61617792 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
61617736 AATACTAGTG
*
61617746 ATGTTATTAAAATGAAATATA
1 ATGTTACTAAAATGAAATATA
* *
61617767 ATGTTACTATAATGGAATATA
1 ATGTTACTAAAATGAAATATA
61617788 ATGTT
1 ATGTT
61617793 GGATATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.13, T:0.40
Consensus pattern (21 bp):
ATGTTACTAAAATGAAATATA
Found at i:61622469 original size:69 final size:69
Alignment explanation
Indices: 61622310--61622471 Score: 243
Period size: 69 Copynumber: 2.3 Consensus size: 69
61622300 ATATACACTG
* * ** * * *
61622310 CCATGGTCCAACCATGGTCTTACGTCTGAAAAACTACCGTAGTCTCGCTATGGTCTTACTTAAAC
1 CCATGGTCCAACCATGGTCTTGCATCTGAAAAACTACAATAGCCTCGCTATAGTCTTACATAAAC
*
61622375 ATTT
66 ATTA
61622379 CCATGGTCCAACCATGGTCTTGCATCTGAAAAACTACAATAGCCTCGCTATAGTCTTACATAAAC
1 CCATGGTCCAACCATGGTCTTGCATCTGAAAAACTACAATAGCCTCGCTATAGTCTTACATAAAC
61622444 ATTA
66 ATTA
*
61622448 CCATAGTCCAACCATGGTCTTGCA
1 CCATGGTCCAACCATGGTCTTGCA
61622472 CATTTTTATG
Statistics
Matches: 84, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 84 1.00
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (69 bp):
CCATGGTCCAACCATGGTCTTGCATCTGAAAAACTACAATAGCCTCGCTATAGTCTTACATAAAC
ATTA
Found at i:61632519 original size:11 final size:11
Alignment explanation
Indices: 61632503--61632541 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
61632493 GGCCAGACCA
61632503 GGCCGGGTTCG
1 GGCCGGGTTCG
**
61632514 GGCC-GGACCG
1 GGCCGGGTTCG
61632524 GGCCGGGTTCG
1 GGCCGGGTTCG
61632535 GGCCGGG
1 GGCCGGG
61632542 CCAAGATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.03, C:0.31, G:0.56, T:0.10
Consensus pattern (11 bp):
GGCCGGGTTCG
Found at i:61632522 original size:21 final size:21
Alignment explanation
Indices: 61632492--61632540 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
61632482 AGGTGATCAT
*
61632492 GGGCCAGACCAGGCCGGGTTC
1 GGGCCGGACCAGGCCGGGTTC
*
61632513 GGGCCGGACCGGGCCGGGTTC
1 GGGCCGGACCAGGCCGGGTTC
61632534 GGGCCGG
1 GGGCCGG
61632541 GCCAAGATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.08, C:0.33, G:0.51, T:0.08
Consensus pattern (21 bp):
GGGCCGGACCAGGCCGGGTTC
Found at i:61632734 original size:26 final size:24
Alignment explanation
Indices: 61632694--61632753 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
61632684 TTATTTTATT
* * *
61632694 AAATAAAAAAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
61632718 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
61632744 AAATAAATAT
1 AAATAAATAT
61632754 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:61632765 original size:22 final size:22
Alignment explanation
Indices: 61632724--61632782 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
61632714 ATAATAAATC
* *
61632724 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
61632744 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
61632766 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
61632783 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:61632904 original size:15 final size:16
Alignment explanation
Indices: 61632884--61632913 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
61632874 TATATAATTC
61632884 GGGCCGGG-CCGGGCT
1 GGGCCGGGCCCGGGCT
61632899 GGGCCGGGCCCGGGC
1 GGGCCGGGCCCGGGC
61632914 CAAAAAACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.00, C:0.37, G:0.60, T:0.03
Consensus pattern (16 bp):
GGGCCGGGCCCGGGCT
Found at i:61635699 original size:12 final size:12
Alignment explanation
Indices: 61635678--61635709 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
61635668 CCTCAAAGGT
61635678 CTAGCACACAGC
1 CTAGCACACAGC
*
61635690 CTATCACACAGC
1 CTAGCACACAGC
61635702 CTAGCACA
1 CTAGCACA
61635710 TGGTCGTGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.34, C:0.41, G:0.12, T:0.12
Consensus pattern (12 bp):
CTAGCACACAGC
Found at i:61640892 original size:40 final size:40
Alignment explanation
Indices: 61640800--61640893 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 40
61640790 ACCATCTCCG
*
61640800 TCCAACCC-A-ACACCCTATGTGGGGATAAAATCGACCCA
1 TCCAACCCTACACACCCTATATGGGGATAAAATCGACCCA
* * * * * *
61640838 CCCATCCTTGCACACCGTATATGGGGATATAATCGACCCA
1 TCCAACCCTACACACCCTATATGGGGATAAAATCGACCCA
61640878 TCCAACCCTACACACC
1 TCCAACCCTACACACC
61640894 ATAAAGTACT
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
38 5 0.12
40 38 0.88
ACGTcount: A:0.31, C:0.37, G:0.14, T:0.18
Consensus pattern (40 bp):
TCCAACCCTACACACCCTATATGGGGATAAAATCGACCCA
Found at i:61642215 original size:28 final size:28
Alignment explanation
Indices: 61642175--61642234 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
61642165 TGACCACTAG
61642175 ACCAGCAGGCCCATTTTGTTAGGTTTTT
1 ACCAGCAGGCCCATTTTGTTAGGTTTTT
61642203 ACCAGCAGGCCCATTTTGTTAGGTTTTT
1 ACCAGCAGGCCCATTTTGTTAGGTTTTT
61642231 ACCA
1 ACCA
61642235 TCAATTCCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (28 bp):
ACCAGCAGGCCCATTTTGTTAGGTTTTT
Found at i:61642627 original size:26 final size:26
Alignment explanation
Indices: 61642598--61642705 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
61642588 TGGTACAAAT
* *
61642598 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
61642624 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
61642650 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
61642676 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
61642702 TGAT
1 TGAT
61642706 GGGCATTTCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:61644367 original size:27 final size:27
Alignment explanation
Indices: 61644327--61644413 Score: 115
Period size: 27 Copynumber: 3.2 Consensus size: 27
61644317 AGGAAGCGTC
61644327 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCACAATTATCTGAT
* *
61644354 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTATGCCACAAT-TATCTGAT
*
61644381 CTGGTGGCTATGCCACAA-CATCTGTAT
1 CTGGTGGCTATGCCACAATTATCTG-AT
61644408 CTGGTG
1 CTGGTG
61644414 ACTTCGTCAC
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
26 7 0.13
27 44 0.85
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.33
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAATTATCTGAT
Found at i:61651092 original size:40 final size:40
Alignment explanation
Indices: 61651029--61651124 Score: 115
Period size: 40 Copynumber: 2.5 Consensus size: 40
61651019 ATCTCCGTCT
* * *
61651029 AACCCAACACACCAT--GTGGGGATAAAATCGACCCACCC
1 AACCCTACACACCATAAATGGGGATAAAATAGACCCACCC
* * * *
61651067 ATCCCTGCACACCATAAATGGGGATATAATAGACCCATCC
1 AACCCTACACACCATAAATGGGGATAAAATAGACCCACCC
61651107 AACCCTACACACCATAAA
1 AACCCTACACACCATAAA
61651125 GTACTGCGTC
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
38 12 0.26
40 35 0.74
ACGTcount: A:0.39, C:0.34, G:0.12, T:0.15
Consensus pattern (40 bp):
AACCCTACACACCATAAATGGGGATAAAATAGACCCACCC
Found at i:61658835 original size:108 final size:110
Alignment explanation
Indices: 61658705--61658925 Score: 360
Period size: 108 Copynumber: 2.0 Consensus size: 110
61658695 ATGTTTAGCC
61658705 CAAACCCATTTTAAGTCTACCCATTTTATTTTTTCATTTTTTTG-AAAAATATTTATATTTTTTT
1 CAAACCCATTTTAAGTCTACCCATTTTATTTTTTCA-TTTTTTGAAAAAATATTTATATTTTTTT
*
61658769 AATTTAATGTTTA-AAATTTATATA-TTTTCCCTTTTATCAAAATTG
65 AATGTAATGTTTACAAATTTATATATTTTTCCC-TTTATCAAAATTG
*
61658814 CAAACCCA-TTTAAGTCTACCCATTTTATTTTTTTATTTTTTGAAAAAATATTTATATTTTTTTA
1 CAAACCCATTTTAAGTCTACCCATTTTATTTTTTCATTTTTTGAAAAAATATTTATATTTTTTTA
61658878 ATGTAATGTTTACTAAATTTATATATTTTTTCCCTTTATCAAAATTG
66 ATGTAATGTTTAC-AAATTTATATA-TTTTTCCCTTTATCAAAATTG
61658925 C
1 C
61658926 CATATTACGA
Statistics
Matches: 105, Mismatches: 2, Indels: 8
0.91 0.02 0.07
Matches are distributed among these distances:
107 7 0.07
108 58 0.55
109 8 0.08
110 11 0.10
111 14 0.13
112 7 0.07
ACGTcount: A:0.31, C:0.12, G:0.04, T:0.52
Consensus pattern (110 bp):
CAAACCCATTTTAAGTCTACCCATTTTATTTTTTCATTTTTTGAAAAAATATTTATATTTTTTTA
ATGTAATGTTTACAAATTTATATATTTTTCCCTTTATCAAAATTG
Found at i:61661831 original size:17 final size:17
Alignment explanation
Indices: 61661809--61661841 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
61661799 TTTAAATAAA
61661809 TTAGTTGAAGTAAAAAT
1 TTAGTTGAAGTAAAAAT
61661826 TTAGTTGAAGTAAAAA
1 TTAGTTGAAGTAAAAA
61661842 GACACCAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.18, T:0.33
Consensus pattern (17 bp):
TTAGTTGAAGTAAAAAT
Found at i:61666677 original size:12 final size:12
Alignment explanation
Indices: 61666660--61666685 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
61666650 TTTTTCCTTC
61666660 TATCAATTATAT
1 TATCAATTATAT
61666672 TATCAATTATAT
1 TATCAATTATAT
61666684 TA
1 TA
61666686 GGGATAGCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (12 bp):
TATCAATTATAT
Found at i:61670352 original size:20 final size:20
Alignment explanation
Indices: 61670309--61670354 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
61670299 ACGGGATTTG
* * *
61670309 CACTTTGATGCCCTTGTTTG
1 CACTTTGATGCCCCTGTATA
*
61670329 CACTTTGGTGCCCCTGTATA
1 CACTTTGATGCCCCTGTATA
61670349 CACTTT
1 CACTTT
61670355 ATTGTCTTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.13, C:0.28, G:0.17, T:0.41
Consensus pattern (20 bp):
CACTTTGATGCCCCTGTATA
Found at i:61679574 original size:3 final size:3
Alignment explanation
Indices: 61679561--61679613 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
61679551 TGCTTTCTAC
*
61679561 AAG AGG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
61679609 AAG AA
1 AAG AA
61679614 AATGATTCGT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:61680197 original size:25 final size:25
Alignment explanation
Indices: 61680168--61680216 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
61680158 TTTATTTTGC
*
61680168 TTTTA-TTATCTCAGTTAAACTCTAT
1 TTTTAGTT-TCTCACTTAAACTCTAT
61680193 TTTTAGTTTCTCACTTAAACTCTA
1 TTTTAGTTTCTCACTTAAACTCTA
61680217 AATAGGGCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.27, C:0.18, G:0.04, T:0.51
Consensus pattern (25 bp):
TTTTAGTTTCTCACTTAAACTCTAT
Found at i:61685813 original size:20 final size:22
Alignment explanation
Indices: 61685772--61685814 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
61685762 TATCCCAACC
*
61685772 TCTTCCTCGAATGACATCTTTT
1 TCTTCCTCAAATGACATCTTTT
61685794 TCTTCCTCAAAT-AC-TCTTTT
1 TCTTCCTCAAATGACATCTTTT
61685814 T
1 T
61685815 GAGGCATTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 2 0.10
22 11 0.55
ACGTcount: A:0.19, C:0.28, G:0.05, T:0.49
Consensus pattern (22 bp):
TCTTCCTCAAATGACATCTTTT
Found at i:61691764 original size:12 final size:13
Alignment explanation
Indices: 61691743--61691784 Score: 52
Period size: 12 Copynumber: 3.3 Consensus size: 13
61691733 ACTTTTAAGT
61691743 AAAAGTAAAA-GTA
1 AAAAG-AAAATGTA
*
61691756 AAAAGAAAATTTA
1 AAAAGAAAATGTA
61691769 AAAA-AAAATGTA
1 AAAAGAAAATGTA
61691781 AAAA
1 AAAA
61691785 TGAGTATACT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 15 0.58
13 11 0.42
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.17
Consensus pattern (13 bp):
AAAAGAAAATGTA
Found at i:61698118 original size:12 final size:12
Alignment explanation
Indices: 61698073--61698220 Score: 72
Period size: 12 Copynumber: 12.5 Consensus size: 12
61698063 ATCTATACTT
* *
61698073 GAACCCACATGT
1 GAACCCCCATGC
*
61698085 GAACCCCTATGC
1 GAACCCCCATGC
* * *
61698097 AAAACCCCTTGC
1 GAACCCCCATGC
* *
61698109 GAACCCCCTTGT
1 GAACCCCCATGC
*
61698121 GAACCCCCCTGC
1 GAACCCCCATGC
* *
61698133 GAGCCTCCCATAC
1 GAACC-CCCATGC
*
61698146 GAACCCCCATGT
1 GAACCCCCATGC
*
61698158 GAACCCCTTAT--
1 GAACCCC-CATGC
* *
61698169 GAACCCCTATTC
1 GAACCCCCATGC
61698181 GAA-CCCCATGC
1 GAACCCCCATGC
* *
61698192 AAACACCCC-TAC
1 GAAC-CCCCATGC
61698204 GAA-CCCCATGC
1 GAACCCCCATGC
*
61698215 AAACCC
1 GAACCC
61698221 ATGTGAGCCG
Statistics
Matches: 102, Mismatches: 26, Indels: 16
0.71 0.18 0.11
Matches are distributed among these distances:
10 7 0.07
11 19 0.19
12 61 0.60
13 15 0.15
ACGTcount: A:0.28, C:0.44, G:0.13, T:0.16
Consensus pattern (12 bp):
GAACCCCCATGC
Found at i:61698206 original size:23 final size:24
Alignment explanation
Indices: 61698171--61698218 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
61698161 CCCCTTATGA
61698171 ACCCCTATTCGAACCCCATGCAAAC
1 ACCCCTA-TCGAACCCCATGCAAAC
61698196 ACCCCTA-CGAACCCCATGCAAAC
1 ACCCCTATCGAACCCCATGCAAAC
61698219 CCATGTGAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 16 0.70
25 7 0.30
ACGTcount: A:0.33, C:0.46, G:0.08, T:0.12
Consensus pattern (24 bp):
ACCCCTATCGAACCCCATGCAAAC
Found at i:61702828 original size:45 final size:45
Alignment explanation
Indices: 61702777--61702883 Score: 144
Period size: 45 Copynumber: 2.4 Consensus size: 45
61702767 GTAGCAGTAG
* * * *
61702777 CAGTAACAGTAACAGTATTCAACACACAAAGTG-CTGAATCTGTAA
1 CAGTAACGGTAACAGTATTCAACACACAAAATGTC-AAATCGGTAA
* *
61702822 TAGTAACGGTAACAGTATTCGACACACAAAATGTCAAATCGGTAA
1 CAGTAACGGTAACAGTATTCAACACACAAAATGTCAAATCGGTAA
61702867 CAGTAACGGTAACAGTA
1 CAGTAACGGTAACAGTA
61702884 ACAGGAATCG
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
45 53 0.98
46 1 0.02
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21
Consensus pattern (45 bp):
CAGTAACGGTAACAGTATTCAACACACAAAATGTCAAATCGGTAA
Found at i:61702878 original size:12 final size:12
Alignment explanation
Indices: 61702861--61702885 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
61702851 AATGTCAAAT
61702861 CGGTAACAGTAA
1 CGGTAACAGTAA
61702873 CGGTAACAGTAA
1 CGGTAACAGTAA
61702885 C
1 C
61702886 AGGAATCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:61703146 original size:40 final size:40
Alignment explanation
Indices: 61703088--61703176 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 40
61703078 GTAATTCACT
* * **
61703088 TTATT-AGAAATTTTACAGTTCAATGCAGTATACGTAACA
1 TTATTCAGTAATTTCACAGTTCAATGCAGTATACAAAACA
* *
61703127 TTATTCAGTAATTTCACAGTTCAATTCAGTATTCAAAACA
1 TTATTCAGTAATTTCACAGTTCAATGCAGTATACAAAACA
*
61703167 ATATTCAGTA
1 TTATTCAGTA
61703177 TCCCATAATT
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 5 0.12
40 37 0.88
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (40 bp):
TTATTCAGTAATTTCACAGTTCAATGCAGTATACAAAACA
Found at i:61703971 original size:5 final size:5
Alignment explanation
Indices: 61703953--61703991 Score: 69
Period size: 5 Copynumber: 7.6 Consensus size: 5
61703943 TTTCTTTTAT
61703953 ATATA ATAATA ATATA ATATA ATATA ATATA ATATA ATA
1 ATATA AT-ATA ATATA ATATA ATATA ATATA ATATA ATA
61703992 ATATACTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 28 0.85
6 5 0.15
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:61707978 original size:46 final size:46
Alignment explanation
Indices: 61707911--61708085 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
61707901 TGTAACCCGC
*
61707911 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGGCGTTCGCAT
* * *
61707957 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC--A-GGC--GTTCGCAT
* *
61708007 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGG-CGTTCGCAT
* *
61708050 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCAG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAG
61708086 ATGCTCAATC
Statistics
Matches: 106, Mismatches: 12, Indels: 21
0.76 0.09 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 57 0.54
47 27 0.25
48 3 0.03
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGGCGTTCGCAT
Found at i:61708030 original size:93 final size:93
Alignment explanation
Indices: 61707918--61708089 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
61707908 CGCCCATAAG
* *
61707918 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCAGACTCAACTC
*
61707982 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCAGATGCCTAGTTACATCTCA
*
61708011 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
61708076 ACGAGTTCAGATGC
66 ACGAGTTCAGATGC
61708090 TCAATCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCAGATGCCTAGTTACATCTCA
Found at i:61712338 original size:45 final size:45
Alignment explanation
Indices: 61712288--61712394 Score: 171
Period size: 45 Copynumber: 2.4 Consensus size: 45
61712278 GTTGCAGTAG
* *
61712288 CAGTAACAGTAACAGTATTCAACACACAAAGTGTTGAATCTG-TAA
1 CAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATC-GATAA
*
61712333 CAGTAACGGTAACAGTATTCGACACACAAAGTGTCGAATCGATAA
1 CAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATCGATAA
61712378 CAGTAACGGTAACAGTA
1 CAGTAACGGTAACAGTA
61712395 ACAATAGTCG
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
44 1 0.02
45 57 0.98
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (45 bp):
CAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATCGATAA
Found at i:61712683 original size:40 final size:40
Alignment explanation
Indices: 61712607--61712684 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
61712597 CTTCATTAGA
* ** *
61712607 AATTTTACAGTTCAATGCAGTATACGTAACATTATTCAAT
1 AATTTCACAGTTCAATGCAGTATACAAAACAATATTCAAT
* *
61712647 AATTTCACAGTTCAATTCAGTATTCAAAACAATATTCA
1 AATTTCACAGTTCAATGCAGTATACAAAACAATATTCA
61712685 GTATCCCATA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.36
Consensus pattern (40 bp):
AATTTCACAGTTCAATGCAGTATACAAAACAATATTCAAT
Found at i:61731415 original size:46 final size:46
Alignment explanation
Indices: 61731314--61731441 Score: 177
Period size: 46 Copynumber: 2.8 Consensus size: 46
61731304 ATGAGGCATT
* * *
61731314 CGAACTCGTTGAGTTGTGTTTCGAGTTCACCTATGGATGGAAGCATC
1 CGAACTCGTTGAGTTGTGTTCCGAGTTCA-TTATGGATGGAAGCACC
61731361 CGAACTCGTTGAGTTGTGTTCCGAGTTCATTATGGATGCGAA-CACC
1 CGAACTCGTTGAGTTGTGTTCCGAGTTCATTATGGATG-GAAGCACC
* * *
61731407 CGAGCTCGTTGAGTTGCGTTCCGAGTTTATTATGG
1 CGAACTCGTTGAGTTGTGTTCCGAGTTCATTATGG
61731442 GTGAGATTAT
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
46 43 0.58
47 31 0.42
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.33
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGTGTTCCGAGTTCATTATGGATGGAAGCACC
Found at i:61738165 original size:33 final size:33
Alignment explanation
Indices: 61738096--61738193 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
61738086 CTATACCCAT
* * *
61738096 CTATGCCGAATGCATAGATACATACACTTATTTTCAC
1 CTATGCCGAATGCAT--ACACATA-A-ATATATTCAC
61738133 CTATGCCGAATGCATACACATAAATATATTCAC
1 CTATGCCGAATGCATACACATAAATATATTCAC
* *
61738166 CTATGCCGAATGCA-ACATATATATATAT
1 CTATGCCGAATGCATACACATAAATATAT
61738194 ATATACATAT
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 22 0.39
34 1 0.02
35 6 0.11
37 15 0.27
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (33 bp):
CTATGCCGAATGCATACACATAAATATATTCAC
Found at i:61738457 original size:41 final size:41
Alignment explanation
Indices: 61738412--61738567 Score: 217
Period size: 41 Copynumber: 3.8 Consensus size: 41
61738402 ACCGGCTCTT
*
61738412 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
61738453 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
* *
61738494 AGCCTGCTAGACTTATAGTCTTAATAAT-T-TCACCGGCTTTA
1 AGCCTGCTAGACTTATAGTC-TGA-AATGTGTCACCGGCATTA
* * * *
61738535 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
61738568 TAACGATAAA
Statistics
Matches: 104, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
39 2 0.02
40 3 0.03
41 93 0.89
42 3 0.03
43 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:61742783 original size:42 final size:43
Alignment explanation
Indices: 61742678--61742784 Score: 153
Period size: 43 Copynumber: 2.5 Consensus size: 43
61742668 TAGCCCAGCT
* *
61742678 ATGGTCTTACACAAAATCAAATAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACACATAATCACATAACGATGCCAATGTCCCAGAC
* *
61742721 ATGGTCTTACACGTAATCACATAATGATGCCAATGTCCC-GAC
1 ATGGTCTTACACATAATCACATAACGATGCCAATGTCCCAGAC
* *
61742763 ATGTTCTTACACATAGTCACAT
1 ATGGTCTTACACATAATCACAT
61742785 CTCGTTAATC
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
42 22 0.39
43 35 0.61
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (43 bp):
ATGGTCTTACACATAATCACATAACGATGCCAATGTCCCAGAC
Found at i:61749788 original size:137 final size:137
Alignment explanation
Indices: 61749616--61749892 Score: 464
Period size: 137 Copynumber: 2.0 Consensus size: 137
61749606 AAAAAATGTT
* * *
61749616 AAACTAGCAATAATGTTTATACCGGCTAAGTTAAGATTGAGTCAACAATGAAATCAATATTTAAA
1 AAACTAGCAATAATGTTTATACCAGCTAAGCTAAGATTCAGTCAACAATGAAATCAATATTTAAA
* * *
61749681 ACATGAGAAATTTTTTGAAAAATTTAGTAATTTATAATGCATAAATTTACTCAAAACATTGAAAT
66 ACATGAGAAATGTTTTGAAAAATTTAGTAATTTATAATACATAAAATTACTCAAAACATTGAAAT
61749746 TTTTAAA
131 TTTTAAA
** *
61749753 AAACTAGCAATAATGTTTATATTAGCTGAGCTAAGATTCAGTCAACAATGAAATCAATATTTAAA
1 AAACTAGCAATAATGTTTATACCAGCTAAGCTAAGATTCAGTCAACAATGAAATCAATATTTAAA
61749818 ACATGAGAAATGTTTTGAAAAATTTAGTAATTTATAATACATAAAATTACTCAAAACATTGAAAT
66 ACATGAGAAATGTTTTGAAAAATTTAGTAATTTATAATACATAAAATTACTCAAAACATTGAAAT
*
61749883 TTTTTAA
131 TTTTAAA
61749890 AAA
1 AAA
61749893 TTTGAGTAAT
Statistics
Matches: 130, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
137 130 1.00
ACGTcount: A:0.46, C:0.09, G:0.10, T:0.34
Consensus pattern (137 bp):
AAACTAGCAATAATGTTTATACCAGCTAAGCTAAGATTCAGTCAACAATGAAATCAATATTTAAA
ACATGAGAAATGTTTTGAAAAATTTAGTAATTTATAATACATAAAATTACTCAAAACATTGAAAT
TTTTAAA
Found at i:61749929 original size:55 final size:54
Alignment explanation
Indices: 61749810--61749940 Score: 131
Period size: 55 Copynumber: 2.4 Consensus size: 54
61749800 ATGAAATCAA
* * *
61749810 TATTTAAAACATGAGAAATGTTTTGAAAAATTTAGTAATTTATAATACATAAAAT
1 TATTAAAAACAT-TGAAATGTTTTGAAAAATTTAGTAATTCATAATACATAAAAT
* * * * * *
61749865 TACTCAAAACATTGAAAT-TTTTTAAAAATTTGAGTAATTCGTAATATATGATAAT
1 TATTAAAAACATTGAAATGTTTTGAAAAATTT-AGTAATTCATAATACAT-AAAAT
61749920 TATTAAAAACATT-AAAGTGTT
1 TATTAAAAACATTGAAA-TGTT
61749941 AATTACAAAA
Statistics
Matches: 62, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
53 12 0.19
54 22 0.35
55 26 0.42
56 2 0.03
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.39
Consensus pattern (54 bp):
TATTAAAAACATTGAAATGTTTTGAAAAATTTAGTAATTCATAATACATAAAAT
Found at i:61750247 original size:14 final size:14
Alignment explanation
Indices: 61750228--61750254 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
61750218 TCTAATCTAA
61750228 TCGAGTAAAATTAT
1 TCGAGTAAAATTAT
61750242 TCGAGTAAAATTA
1 TCGAGTAAAATTA
61750255 AAAAAAAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.15, T:0.33
Consensus pattern (14 bp):
TCGAGTAAAATTAT
Found at i:61750448 original size:34 final size:35
Alignment explanation
Indices: 61750404--61750470 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
61750394 CAGTAAAATG
*
61750404 TTTTCCGTAAAATGATT-TCTAGAAAATATTTTAC
1 TTTTCCGTAAAATGATTGACTAGAAAATATTTTAC
* *
61750438 TTTTCTGTAAAATGATTGACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTGACTAGAAAATATTTT
61750471 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTGACTAGAAAATATTTTAC
Found at i:61750648 original size:22 final size:24
Alignment explanation
Indices: 61750623--61750674 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 24
61750613 ATAATTTATT
61750623 TATAAATAA-A-TCAA-ATT-AAA
1 TATAAATAATACTCAATATTAAAA
61750643 TATATAATAATACTCAATTATTAAAA
1 TATA-AATAATACTCAA-TATTAAAA
61750669 TATAAA
1 TATAAA
61750675 AGCATTGCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
20 4 0.15
21 5 0.19
22 1 0.04
23 4 0.15
25 5 0.19
26 7 0.27
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.35
Consensus pattern (24 bp):
TATAAATAATACTCAATATTAAAA
Found at i:61753670 original size:25 final size:25
Alignment explanation
Indices: 61753611--61753672 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 25
61753601 TTATAAAATT
*
61753611 ATTATAATTTTTTTAACAATATAAA
1 ATTATAATTTTTATAACAATATAAA
* * *
61753636 ATTTAGAATTTTTATAA-ATATTTTAA
1 A-TTATAATTTTTATAACA-ATATAAA
61753662 ATTATAATTTT
1 ATTATAATTTT
61753673 ATTTTGAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
25 11 0.37
26 19 0.63
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (25 bp):
ATTATAATTTTTATAACAATATAAA
Found at i:61757638 original size:22 final size:22
Alignment explanation
Indices: 61757610--61757653 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
61757600 TAGGATTTTA
61757610 AATATTTTTAGATTTAGGGTTT
1 AATATTTTTAGATTTAGGGTTT
*
61757632 AATATTTTTAGGTTTAGGGTTT
1 AATATTTTTAGATTTAGGGTTT
61757654 TTAAAAAGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.00, G:0.20, T:0.55
Consensus pattern (22 bp):
AATATTTTTAGATTTAGGGTTT
Found at i:61760427 original size:27 final size:27
Alignment explanation
Indices: 61760389--61760441 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
61760379 GTACTAGAAG
61760389 TTAGAATGAAATACCCAAACAAAGATA
1 TTAGAATGAAATACCCAAACAAAGATA
61760416 TTAGAATGAAATACCCAAACAAAGAT
1 TTAGAATGAAATACCCAAACAAAGAT
61760442 CTTTTCTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.55, C:0.15, G:0.11, T:0.19
Consensus pattern (27 bp):
TTAGAATGAAATACCCAAACAAAGATA
Found at i:61769049 original size:25 final size:25
Alignment explanation
Indices: 61769021--61769083 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
61769011 ATGATATAAT
61769021 ACTTATTATAATCTTCTAAATTATA
1 ACTTATTATAATCTTCTAAATTATA
* *
61769046 ACTTATTATATTCTTTTAAATTATA
1 ACTTATTATAATCTTCTAAATTATA
*
61769071 ATTTTATTATAAT
1 A-CTTATTATAAT
61769084 TTAATATTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
25 24 0.73
26 9 0.27
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (25 bp):
ACTTATTATAATCTTCTAAATTATA
Found at i:61770956 original size:2 final size:2
Alignment explanation
Indices: 61770951--61770975 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
61770941 GTGTGGATGA
61770951 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
61770976 ATTGATGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:61772463 original size:6 final size:6
Alignment explanation
Indices: 61772452--61772491 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
61772442 CAGGTTATTC
61772452 CTGTCA CTGTCA CTGTCA CTGTCA CTGTCA CTGTCA CTGT
1 CTGTCA CTGTCA CTGTCA CTGTCA CTGTCA CTGTCA CTGT
61772492 TTTTTTTTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.15, C:0.33, G:0.17, T:0.35
Consensus pattern (6 bp):
CTGTCA
Found at i:61773727 original size:17 final size:18
Alignment explanation
Indices: 61773705--61773738 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
61773695 GAACCTAAAC
61773705 TAACC-GACAACATATAG
1 TAACCGGACAACATATAG
*
61773722 TAACCGGACAACCTATA
1 TAACCGGACAACATATA
61773739 ATTTCATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.44, C:0.26, G:0.12, T:0.18
Consensus pattern (18 bp):
TAACCGGACAACATATAG
Found at i:61784211 original size:40 final size:40
Alignment explanation
Indices: 61784114--61784211 Score: 94
Period size: 40 Copynumber: 2.4 Consensus size: 40
61784104 TTTAATTAAT
*
61784114 TTTTTAAAATTTAAAAAATATTTTTATAAGTTTTTCCTTAA
1 TTTTT-AAATTTAAAAAATATTTTTATAAGTTTTTCCTAAA
** * *
61784155 -CCTTAAACTTATAAAAATACTTTTTATAA-TTTTTTC-AAA
1 TTTTTAAATTTA-AAAAATA-TTTTTATAAGTTTTTCCTAAA
61784194 TTTTTAAATTTTAAAAAA
1 TTTTTAAA-TTTAAAAAA
61784212 ATTAAGTAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
39 8 0.18
40 25 0.56
41 12 0.27
ACGTcount: A:0.42, C:0.07, G:0.01, T:0.50
Consensus pattern (40 bp):
TTTTTAAATTTAAAAAATATTTTTATAAGTTTTTCCTAAA
Found at i:61784543 original size:41 final size:41
Alignment explanation
Indices: 61784486--61784564 Score: 158
Period size: 41 Copynumber: 1.9 Consensus size: 41
61784476 CTAAAAAGGG
61784486 AAACAACTGACCTTAAGATGTACTCCATTCTCAAGGACAAA
1 AAACAACTGACCTTAAGATGTACTCCATTCTCAAGGACAAA
61784527 AAACAACTGACCTTAAGATGTACTCCATTCTCAAGGAC
1 AAACAACTGACCTTAAGATGTACTCCATTCTCAAGGAC
61784565 CAAACCTCCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.39, C:0.25, G:0.13, T:0.23
Consensus pattern (41 bp):
AAACAACTGACCTTAAGATGTACTCCATTCTCAAGGACAAA
Found at i:61784794 original size:22 final size:21
Alignment explanation
Indices: 61784769--61784809 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
61784759 ATGTTAGCGG
61784769 ACAAATATATATATATAAATTA
1 ACAAATATATATATA-AAATTA
* *
61784791 ACAACTATTTATATAAAAT
1 ACAAATATATATATAAAAT
61784810 AAAATAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (21 bp):
ACAAATATATATATAAAATTA
Found at i:61787340 original size:21 final size:21
Alignment explanation
Indices: 61787315--61787356 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
61787305 CCTAAACTTA
*
61787315 TAAAAATATTTTTTA-AATTT
1 TAAAAATAGTTTTTATAATTT
61787335 TAAAAATAGTTTTTATAATTT
1 TAAAAATAGTTTTTATAATTT
61787356 T
1 T
61787357 TTTGAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
TAAAAATAGTTTTTATAATTT
Found at i:61788461 original size:3 final size:3
Alignment explanation
Indices: 61788453--61788485 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
61788443 TATATAGAAT
61788453 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
61788486 ATGTCCGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:61788644 original size:13 final size:13
Alignment explanation
Indices: 61788613--61788649 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
61788603 ATTTTTTATT
61788613 AAAAATTATATTTA
1 AAAAATTAT-TTTA
*
61788627 TAAAATTATTTTA
1 AAAAATTATTTTA
61788640 AAAAATTATT
1 AAAAATTATT
61788650 ATTGGCAGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAAAATTATTTTA
Found at i:61789751 original size:31 final size:31
Alignment explanation
Indices: 61789713--61789775 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
61789703 TCTTTAAAGG
61789713 GTAAAGATAACCTATATTATCAATGTCATGT
1 GTAAAGATAACCTATATTATCAATGTCATGT
*
61789744 GTAAAGATAACCTATGTTATCAATGTCATGT
1 GTAAAGATAACCTATATTATCAATGTCATGT
61789775 G
1 G
61789776 AAACATTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.35
Consensus pattern (31 bp):
GTAAAGATAACCTATATTATCAATGTCATGT
Found at i:61792371 original size:40 final size:40
Alignment explanation
Indices: 61792279--61792491 Score: 265
Period size: 40 Copynumber: 5.3 Consensus size: 40
61792269 AGCCAAGTAA
* * *
61792279 CTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATGC
1 CTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGC
* * *
61792317 CTTCGAGACATAGCCCGGATATAGTAACTCGCACCAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
61792357 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
* * *
61792397 CTTCGGGACTTAGCCCAGATGTAATAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
*
61792437 CTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATGC
1 CTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATGC
61792478 CTTCGGGACTTAGC
1 CTTCGGGACTTAGC
61792492 TCGGTTATCA
Statistics
Matches: 154, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
38 10 0.06
39 17 0.11
40 103 0.67
41 20 0.13
42 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
Found at i:61795874 original size:48 final size:46
Alignment explanation
Indices: 61795762--61795882 Score: 143
Period size: 46 Copynumber: 2.6 Consensus size: 46
61795752 AGATATGTGT
* * * * * * *
61795762 GCTAGTATAAGACATGTCTAGGACATACATTGGCGTTGAGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGAAGAAA
*
61795808 GCTAATGTAAGACATGTCTGGGACATGCATTGGCCTCGAGATAGACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGA-AGA-AA
*
61795856 GCTAGTGTAAGACTTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
61795883 GCGTCAACTT
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
46 35 0.56
47 2 0.03
48 26 0.41
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGAAGAAA
Found at i:61795975 original size:49 final size:47
Alignment explanation
Indices: 61795804--61796023 Score: 162
Period size: 49 Copynumber: 4.6 Consensus size: 47
61795794 GCGTTGAGAC
* * * *
61795804 GAGAGCTAATGTAAGACATGTCTGGGACAT-GCATTGGCCTCG-AGAT
1 GAGAGCTAGTGTAAGACCTGTCTGGGACATGGCATCGACCT-GTAGAT
* * * * * *
61795850 AGACAAGCTAGTGTAAGACTTGTCTGGGACATGGCGTCAACTTGTTG-T
1 -GA-GAGCTAGTGTAAGACCTGTCTGGGACATGGCATCGACCTGTAGAT
* * *
61795898 GTG-TC-AGTGTAAGACTTGTCTGGGACATGGCATCGACACTGATAGAT
1 GAGAGCTAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTG-TAGAT
* * *
61795945 GAGAGCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCACTATAT
1 GAGAGCTAGTGTAAGACCTGTCTGGGACATGGCATCGACCT--GTAGAT
* * *
61795994 GAAAGCCAGTGTAAGACCATGTTTGGGACA
1 GAGAGCTAGTGTAAGACC-TGTCTGGGACA
61796024 GCATCTTAAC
Statistics
Matches: 137, Mismatches: 25, Indels: 19
0.76 0.14 0.10
Matches are distributed among these distances:
44 30 0.22
45 3 0.02
46 2 0.01
47 6 0.04
48 30 0.22
49 56 0.41
50 10 0.07
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (47 bp):
GAGAGCTAGTGTAAGACCTGTCTGGGACATGGCATCGACCTGTAGAT
Found at i:61796843 original size:13 final size:13
Alignment explanation
Indices: 61796825--61796851 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
61796815 TTACGAGCTA
61796825 TTATTCGGCCGTG
1 TTATTCGGCCGTG
61796838 TTATTCGGCCGTG
1 TTATTCGGCCGTG
61796851 T
1 T
61796852 GTCCTCTGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.22, G:0.30, T:0.41
Consensus pattern (13 bp):
TTATTCGGCCGTG
Found at i:61798455 original size:13 final size:13
Alignment explanation
Indices: 61798437--61798464 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
61798427 GAAATTATTC
61798437 CTCTAATTAATGT
1 CTCTAATTAATGT
61798450 CTCTAATTAATGT
1 CTCTAATTAATGT
61798463 CT
1 CT
61798465 AAACCATTAC
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:0.29, C:0.18, G:0.07, T:0.46
Consensus pattern (13 bp):
CTCTAATTAATGT
Found at i:61811456 original size:26 final size:24
Alignment explanation
Indices: 61811427--61811483 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
61811417 ATTCAAACCA
61811427 TTTTTATAAAATTAAAATTCTATATC
1 TTTTTAT--AATTAAAATTCTATATC
**
61811453 TTTTTATCTTTAAAATTCTATATC
1 TTTTTATAATTAAAATTCTATATC
61811477 TTTTTAT
1 TTTTTAT
61811484 CTTCTTATCC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 22 0.76
26 7 0.24
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (24 bp):
TTTTTATAATTAAAATTCTATATC
Found at i:61811470 original size:24 final size:24
Alignment explanation
Indices: 61811438--61811486 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
61811428 TTTTATAAAA
61811438 TTAAAATTCTATATCTTTTTATCT
1 TTAAAATTCTATATCTTTTTATCT
61811462 TTAAAATTCTATATCTTTTTATCT
1 TTAAAATTCTATATCTTTTTATCT
61811486 T
1 T
61811487 CTTATCCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (24 bp):
TTAAAATTCTATATCTTTTTATCT
Found at i:61812046 original size:29 final size:30
Alignment explanation
Indices: 61812014--61812128 Score: 94
Period size: 29 Copynumber: 3.9 Consensus size: 30
61812004 TTTTCTAGGC
* *
61812014 TTTACAGTTCTGCCATTA-TTTTCCAGAAA
1 TTTACAGTTTTGCCACTAGTTTTCCAGAAA
* * *
61812043 TTTATAGTTTTGCCCCTA-TATTTCTAG-AA
1 TTTACAGTTTTGCCACTAGT-TTTCCAGAAA
* * * * * *
61812072 TTTTCAATTATGCCACTATTTTTCTA-AAT
1 TTTACAGTTTTGCCACTAGTTTTCCAGAAA
61812101 TTTACAGTTTTGCCACTAGTTTTCCAGA
1 TTTACAGTTTTGCCACTAGTTTTCCAGA
61812129 GTTTTCAATT
Statistics
Matches: 66, Mismatches: 16, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
29 58 0.88
30 8 0.12
ACGTcount: A:0.25, C:0.19, G:0.10, T:0.46
Consensus pattern (30 bp):
TTTACAGTTTTGCCACTAGTTTTCCAGAAA
Found at i:61812146 original size:58 final size:58
Alignment explanation
Indices: 61812043--61812152 Score: 134
Period size: 58 Copynumber: 1.9 Consensus size: 58
61812033 TTTCCAGAAA
* * * *
61812043 TTTATAGTTTTGCCCCTATATTTCTAGAATTTTCAATTATGCCACTATTTTTCTAAAT
1 TTTACAGTTTTGCCACTATATTTCCAGAATTTTCAATTATACCACTATTTTTCTAAAT
* *
61812101 TTTACAGTTTTGCCACTAGT-TTTCCAGAGTTTTCAATTCA-ACCACTTTTTTT
1 TTTACAGTTTTGCCACTA-TATTTCCAGAATTTTCAATT-ATACCACTATTTTT
61812153 TTTATATTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
58 42 0.95
59 2 0.05
ACGTcount: A:0.24, C:0.19, G:0.08, T:0.49
Consensus pattern (58 bp):
TTTACAGTTTTGCCACTATATTTCCAGAATTTTCAATTATACCACTATTTTTCTAAAT
Found at i:61813207 original size:17 final size:17
Alignment explanation
Indices: 61813187--61813260 Score: 53
Period size: 17 Copynumber: 4.2 Consensus size: 17
61813177 GACTATTTGT
*
61813187 TATGTTAAATTGATTGA
1 TATGTGAAATTGATTGA
*
61813204 TATGTGAAATTGTTTG-
1 TATGTGAAATTGATTGA
61813220 TCAT-TGTATTGAATTGATTGA
1 T-ATGTG-A---AATTGATTGA
* *
61813241 TATATGAAATTGTTTGA
1 TATGTGAAATTGATTGA
61813258 TAT
1 TAT
61813261 TACTTACAGA
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
16 3 0.07
17 29 0.63
20 11 0.24
21 3 0.07
ACGTcount: A:0.31, C:0.01, G:0.19, T:0.49
Consensus pattern (17 bp):
TATGTGAAATTGATTGA
Found at i:61818964 original size:33 final size:33
Alignment explanation
Indices: 61818922--61818987 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
61818912 CCCGAGTCAG
61818922 TGTACTATATGGGGAACCAACATCAAATTAGGA
1 TGTACTATATGGGGAACCAACATCAAATTAGGA
61818955 TGTACTATATGGGGAACCAACATCAAATTAGGA
1 TGTACTATATGGGGAACCAACATCAAATTAGGA
61818988 GTGGACAAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.24
Consensus pattern (33 bp):
TGTACTATATGGGGAACCAACATCAAATTAGGA
Done.