Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 188 of 770
Found at i:56251330 original size:27 final size:26
Alignment explanation
Indices: 56251284--56251338 Score: 92
Period size: 27 Copynumber: 2.1 Consensus size: 26
56251274 GTCACTAGAT
*
56251284 ACAGATATTGTGGCAGAGCCACCAGA
1 ACAGATATTGTGGCAAAGCCACCAGA
56251310 ACAGATATATGTGGCAAAGCCACCAGA
1 ACAGATAT-TGTGGCAAAGCCACCAGA
56251337 AC
1 AC
56251339 GCTTCCTCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 8 0.30
27 19 0.70
ACGTcount: A:0.38, C:0.24, G:0.24, T:0.15
Consensus pattern (26 bp):
ACAGATATTGTGGCAAAGCCACCAGA
Found at i:56252755 original size:15 final size:15
Alignment explanation
Indices: 56252735--56252765 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
56252725 GATAGAAGCA
56252735 AACTACCATGAACTT
1 AACTACCATGAACTT
56252750 AACTACCATGAACTT
1 AACTACCATGAACTT
56252765 A
1 A
56252766 CCTTCAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.26, G:0.06, T:0.26
Consensus pattern (15 bp):
AACTACCATGAACTT
Found at i:56252979 original size:26 final size:26
Alignment explanation
Indices: 56252949--56253056 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
56252939 TGAAATTCCC
56252949 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
56252975 ATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCCATT
*
56253001 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
56253027 ATCATGGAACATTAACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
56253053 ATCA
1 ATCA
56253057 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:56255347 original size:25 final size:26
Alignment explanation
Indices: 56255314--56255367 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
56255304 AGACTAGGAG
*
56255314 TTCATTTTTTAAGTTTAAATAAACTT
1 TTCATTTTTTAAGTTGAAATAAACTT
56255340 TTCATTTTTTAAGTTGAAATAAACTT
1 TTCATTTTTTAAGTTGAAATAAACTT
56255366 TT
1 TT
56255368 ACAATTCAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.33, C:0.07, G:0.06, T:0.54
Consensus pattern (26 bp):
TTCATTTTTTAAGTTGAAATAAACTT
Found at i:56258662 original size:46 final size:45
Alignment explanation
Indices: 56258612--56258787 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
56258602 TGGTTGAGCA
56258612 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * * *
56258658 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTACGCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-TGCGAAG
*
56258705 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*
56258751 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56258788 GCAGGTTACA
Statistics
Matches: 111, Mismatches: 13, Indels: 12
0.82 0.10 0.09
Matches are distributed among these distances:
44 4 0.04
45 2 0.02
46 68 0.61
47 32 0.29
48 1 0.01
49 4 0.04
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:56258768 original size:93 final size:93
Alignment explanation
Indices: 56258609--56258779 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
56258599 GGATGGTTGA
*
56258609 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
56258674 TGAGTCCGAGTTCGAGAGATGTAACTAC
66 TGAGTCCGAGTTCGAGAGATGTAACTAC
* *
56258702 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CTCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTC-CGAACTCGTTGAG
56258766 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
56258780 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 1 0.01
93 73 0.99
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAC
Found at i:56263395 original size:23 final size:23
Alignment explanation
Indices: 56263350--56264560 Score: 863
Period size: 23 Copynumber: 53.2 Consensus size: 23
56263340 ACATAAACTA
*
56263350 AATTT-CAGCAAC-TAAACAATTC
1 AATTTACAGC-ACTTAAACACTTC
* * *
56263372 AATTTGCAGTACTTAAAAACTTC
1 AATTTACAGCACTTAAACACTTC
* *
56263395 AATTTACAACATTTAAACACTTC
1 AATTTACAGCACTTAAACACTTC
* *
56263418 AATTTGCAGCACTTTAACACTTC
1 AATTTACAGCACTTAAACACTTC
* *
56263441 AATTTGCAGCACTTTAACACTTC
1 AATTTACAGCACTTAAACACTTC
* *
56263464 AATTTACAACATTTAAACACTTC
1 AATTTACAGCACTTAAACACTTC
* *
56263487 AATTTGCAGCACTTTAACA-TCTC
1 AATTTACAGCACTTAAACACT-TC
* * * * * *
56263510 AATTAACAACATTTATACTCCTC
1 AATTTACAGCACTTAAACACTTC
**
56263533 AA-TTACAG-TGTTAAA-ACATCTC
1 AATTTACAGCACTTAAACAC-T-TC
*
56263555 AATTTCCAGCAAC-TAAACACTTC
1 AATTTACAGC-ACTTAAACACTTC
* *
56263578 AATTTGCAGTACTTAAACACTTC
1 AATTTACAGCACTTAAACACTTC
* *
56263601 AATTTAC-GACATTTGAACACTTC
1 AATTTACAG-CACTTAAACACTTC
*
56263624 AATTTACAACA-TTCAAACACTTC
1 AATTTACAGCACTT-AAACACTTC
* *
56263647 AATTTGCAGCACTTTAACACTTC
1 AATTTACAGCACTTAAACACTTC
*
56263670 AATTTACAGCATTTAAACACTTC
1 AATTTACAGCACTTAAACACTTC
* **
56263693 AATTTGCAGCACTTTTACA-TCTC
1 AATTTACAGCACTTAAACACT-TC
* * * * *
56263716 AATTAACAACATTTATACACCTC
1 AATTTACAGCACTTAAACACTTC
* *
56263739 AA-TCACAG-A-TAAAACA-TCTC
1 AATTTACAGCACTTAAACACT-TC
*
56263759 AATTTCCAGCAAC-T--ACACTTC
1 AATTTACAGC-ACTTAAACACTTC
** *
56263780 AATTTGTAGTACTTAAACACTTC
1 AATTTACAGCACTTAAACACTTC
* *
56263803 AATTTACAACATTTAAACACTTC
1 AATTTACAGCACTTAAACACTTC
*
56263826 AATTTACAGCATTTAAACACTTC
1 AATTTACAGCACTTAAACACTTC
* *
56263849 AATTTGCAGCACTTTAACACTTC
1 AATTTACAGCACTTAAACACTTC
* * *
56263872 AATTTGCAACACTTTAACACTTC
1 AATTTACAGCACTTAAACACTTC
*
56263895 AATTTACAGCATTTAAACACTTC
1 AATTTACAGCACTTAAACACTTC
* *
56263918 AATTTGCAGCACTTTAACA-TCTC
1 AATTTACAGCACTTAAACACT-TC
* * * * * *
56263941 AATTAACAACATTTATACTCCTC
1 AATTTACAGCACTTAAACACTTC
* **
56263964 AA-TTATAG-TGTTAAA-ACATCTC
1 AATTTACAGCACTTAAACAC-T-TC
* *
56263986 AATTTCCAGCAAC-TATACACTTC
1 AATTTACAGC-ACTTAAACACTTC
* *
56264009 AATTTGCAGTACTTAAACACTTC
1 AATTTACAGCACTTAAACACTTC
* *
56264032 AATTTACAACATTTAAACACTTC
1 AATTTACAGCACTTAAACACTTC
*
56264055 AATTTACAACA-TTCAAACACTTC
1 AATTTACAGCACTT-AAACACTTC
** *
56264078 AATTTGTAGCACTTTAACACTTC
1 AATTTACAGCACTTAAACACTTC
* *
56264101 AATTTGCAGCACTTTAACACTTC
1 AATTTACAGCACTTAAACACTTC
** *
56264124 AATTTGTAGCACTTTAACA-TCTC
1 AATTTACAGCACTTAAACACT-TC
* * * * * *
56264147 AATTAACAACATTTATACCCCTC
1 AATTTACAGCACTTAAACACTTC
*
56264170 AA-TTACAGCGA-TCAAACA-TCTC
1 AATTTACAGC-ACTTAAACACT-TC
* *
56264192 AATTTCCATCAAC-TAAACACTTC
1 AATTTACAGC-ACTTAAACACTTC
* *
56264215 AATTTGCAGTACTTAAACACTTC
1 AATTTACAGCACTTAAACACTTC
* *
56264238 AATTTACAACATTTAAACACTTC
1 AATTTACAGCACTTAAACACTTC
* *
56264261 AATTTATAGCATTTAAACACTTC
1 AATTTACAGCACTTAAACACTTC
* *
56264284 AATTTGCAGCACTTTAACA-TCTC
1 AATTTACAGCACTTAAACACT-TC
* * * * *
56264307 AATTAACAACATTTATACACCTC
1 AATTTACAGCACTTAAACACTTC
*
56264330 AA-TTACAGCGA-TAAAACA-TCTC
1 AATTTACAGC-ACTTAAACACT-TC
* * *
56264352 AATTTACAACATTTAAGCACTTC
1 AATTTACAGCACTTAAACACTTC
*
56264375 AATTTACAGCATTTAAACACTTC
1 AATTTACAGCACTTAAACACTTC
* *
56264398 AATTTACAACA-TTTAACACTTC
1 AATTTACAGCACTTAAACACTTC
* *
56264420 AATTTGCAGCACTTTAACACTTC
1 AATTTACAGCACTTAAACACTTC
*
56264443 AATTTACAGCA-TTTAACACTTC
1 AATTTACAGCACTTAAACACTTC
* *
56264465 AATTTGCAGCACTTTAACACTTC
1 AATTTACAGCACTTAAACACTTC
*
56264488 AATTTACAGCATTTAAACACTTC
1 AATTTACAGCACTTAAACACTTC
* * *
56264511 AATTTGCTGCACTTTAACA-TCTC
1 AATTTACAGCACTTAAACACT-TC
* * * * *
56264534 AATTAACAACATTTATACACCTC
1 AATTTACAGCACTTAAACACTTC
56264557 AATT
1 AATT
56264561 AACATCTCAG
Statistics
Matches: 939, Mismatches: 194, Indels: 111
0.75 0.16 0.09
Matches are distributed among these distances:
20 13 0.01
21 26 0.03
22 112 0.12
23 769 0.82
24 15 0.02
25 4 0.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (23 bp):
AATTTACAGCACTTAAACACTTC
Found at i:56263412 original size:46 final size:46
Alignment explanation
Indices: 56263362--56264560 Score: 965
Period size: 46 Copynumber: 26.3 Consensus size: 46
56263352 TTTCAGCAAC
* * * *
56263362 TAAACAATTCAATTTGCAGTACTTAAAAACTTCAATTTACAACATT
1 TAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCATT
* *
56263408 TAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCA-TT
* * * *
56263455 T-AACACTTCAATTTACAACATTTAAACACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCA-TT
** * * * * * **
56263501 T-AACA-TCTCAATTAACAACATTTATACTCCTCAA-TTACAGTGTT
1 TAAACACT-TCAATTTGCAGCACTTAAACACTTCAATTTACAGCATT
* * * * *
56263545 AAAACA-TCTCAATTTCCAGCAAC-TAAACACTTCAATTTGCAGTACT
1 TAAACACT-TCAATTTGCAGC-ACTTAAACACTTCAATTTACAGCATT
* * * *
56263591 TAAACACTTCAATTTAC-GACATTTGAACACTTCAATTTACAACATT
1 TAAACACTTCAATTTGCAG-CACTTAAACACTTCAATTTACAGCATT
* *
56263637 CAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATT
1 TAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCATT
** * *
56263683 TAAACACTTCAATTTGCAGCACTTTTACA-TCTCAATTAACAACATT
1 TAAACACTTCAATTTGCAGCACTTAAACACT-TCAATTTACAGCATT
* * ** * * **
56263729 TATACACCTCAA-TCACAG-A-TAAAACA-TCTCAATTTCCAGCAAC
1 TAAACACTTCAATTTGCAGCACTTAAACACT-TCAATTTACAGCATT
* * *
56263772 T--ACACTTCAATTTGTAGTACTTAAACACTTCAATTTACAACATT
1 TAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCATT
* * *
56263816 TAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCA-TT
* *
56263863 T-AACACTTCAATTTGCAACACTTTAACACTTCAATTTACAGCATT
1 TAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCATT
* * *
56263908 TAAACACTTCAATTTGCAGCACTTTAACA-TCTCAATTAACAACATT
1 TAAACACTTCAATTTGCAGCACTTAAACACT-TCAATTTACAGCATT
* * * ** * **
56263954 TATACTCCTCAATTAT--AG-TGTTAAA-ACATCTCAATTTCCAGCAAC
1 TAAACACTTCAATT-TGCAGCACTTAAACAC-T-TCAATTTACAGCATT
* * *
56263999 TATACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACATT
1 TAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCATT
* * **
56264045 TAAACACTTCAATTTACAACA-TTCAAACACTTCAATTTGTAGCACTT
1 TAAACACTTCAATTTGCAGCACTT-AAACACTTCAATTTACAGCA-TT
* **
56264092 T-AACACTTCAATTTGCAGCACTTTAACACTTCAATTTGTAGCACTT
1 TAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCA-TT
** * * * * *
56264138 T-AACA-TCTCAATTAACAACATTTATACCCCTCAA-TTACAGCGA-T
1 TAAACACT-TCAATTTGCAGCACTTAAACACTTCAATTTACAGC-ATT
* * * * * *
56264182 CAAACA-TCTCAATTTCCATCAAC-TAAACACTTCAATTTGCAGTACT
1 TAAACACT-TCAATTTGCAGC-ACTTAAACACTTCAATTTACAGCATT
* * * *
56264228 TAAACACTTCAATTTACAACATTTAAACACTTCAATTTATAGCATT
1 TAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCATT
* * *
56264274 TAAACACTTCAATTTGCAGCACTTTAACA-TCTCAATTAACAACATT
1 TAAACACTTCAATTTGCAGCACTTAAACACT-TCAATTTACAGCATT
* * * * *
56264320 TATACACCTCAA-TTACAGCGA-TAAAACA-TCTCAATTTACAACATT
1 TAAACACTTCAATTTGCAGC-ACTTAAACACT-TCAATTTACAGCATT
* * * *
56264365 TAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTACAACATT
1 TAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCATT
*
56264411 T-AACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATT
1 TAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCATT
*
56264456 T-AACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATT
1 TAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCATT
* * * *
56264501 TAAACACTTCAATTTGCTGCACTTTAACA-TCTCAATTAACAACATT
1 TAAACACTTCAATTTGCAGCACTTAAACACT-TCAATTTACAGCATT
* *
56264547 TATACACCTCAATT
1 TAAACACTTCAATT
56264561 AACATCTCAG
Statistics
Matches: 945, Mismatches: 164, Indels: 88
0.79 0.14 0.07
Matches are distributed among these distances:
41 8 0.01
42 3 0.00
43 19 0.02
44 27 0.03
45 226 0.24
46 638 0.68
47 22 0.02
48 2 0.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (46 bp):
TAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCATT
Found at i:56263715 original size:206 final size:205
Alignment explanation
Indices: 56263350--56264561 Score: 1188
Period size: 206 Copynumber: 5.9 Consensus size: 205
56263340 ACATAAACTA
* * *
56263350 AATTTCAGCAACTAAACAATTCAATTTGCAGTACTTAAAAACTTCAATTTACAACATTTAAACAC
1 AATTTCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACGACATTTAAACAC
* * *
56263415 TTCAATTTGCAGCACTTT-AACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAACA-TTT
66 TTCAATTTACAACA-TTTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCACTTT
**
56263478 AAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATAC-TCCTCAATTACAGT
130 -AACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACAT-CTCAATTACAAC
* *
56263542 GTTAAAACATCTC
193 ATTTAAACATCTC
*
56263555 AATTTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACGACATTTGAACA
1 AATTT-CAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACGACATTTAAACA
*
56263620 CTTCAATTTACAACATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCA-TTT
65 CTTCAATTTACAACATTTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCACTTT
* * * *
56263684 AAACACTTCAATTTGCAGCACTTTTACATCTCAATTAACAACATTTATACACCTCAATCAC-AGA
130 -AACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACATCTCAATTACAACA
*
56263748 -TAAAACATCTC
194 TTTAAACATCTC
* *
56263759 AATTTCCAGCAACT--ACACTTCAATTTGTAGTACTTAAACACTTCAATTTACAACATTTAAACA
1 AATTT-CAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACGACATTTAAACA
* * *
56263822 CTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTGCAACACTTT
65 CTTCAATTTACAACATTTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCACTTT
* ** *
56263887 AACACTTCAATTTACAGCA-TTTAAACA-CTTCAATTTGCAGCACTTTA-ACATCTCAATTAACA
130 AACACTTCAATTTGCAGCACTTT-AACATC-TCAATTAACAACA-TTTATACATCTCAATT-ACA
*
56263949 ACATTTATAC-TCCTC
191 ACATTTAAACAT-CTC
*** * * * *
56263964 AATTAT-AG-TGTTAAA-ACATCTCAATTTCCAGCAAC-TATACACTTCAATTTGCAGTAC--TT
1 AATT-TCAGCAACTAAACAC-T-TCAATTTGCAG-TACTTAAACACTTCAATTTAC-G-ACATTT
* * * **
56264023 AAACACTTCAATTTACAACATTTAAACACTTCAATTTACAACA-TTCAAACACTTCAATTTGTAG
60 AAACACTTCAATTTACAACATTTAAACACTTCAATTTGCAGCACTT-TAACACTTCAATTTACAG
*** *
56264087 CACTTTAACACTTCAATTTGCAGCACTTTAACA-CTTCAATTTGTAGCACTTTA-ACATCTCAAT
124 CACTTTAACACTTCAATTTGCAGCACTTTAACATC-TCAATTAACAACA-TTTATACATCTCAAT
* **
56264150 TAACAACATTTATACCCCTC
187 T-ACAACATTTAAACATCTC
* * * *
56264170 AATTACAGCGA-TCAAACA-TCTCAATTTCCA-TCAAC-TAAACACTTCAATTTGCAGTAC--TT
1 AATTTCAGCAACT-AAACACT-TCAATTTGCAGT--ACTTAAACACTTCAATTTAC-G-ACATTT
** *
56264229 AAACACTTCAATTTACAACATTTAAACACTTCAATTTATAGCA-TTTAAACACTTCAATTTGCAG
60 AAACACTTCAATTTACAACATTTAAACACTTCAATTTGCAGCACTTT-AACACTTCAATTTACAG
** * * * * *
56264293 CACTTTAACA-TCTCAATTAACAACA-TTTATACACCTCAATT-ACAGCGA-TAAAACATCTCAA
124 CACTTTAACACT-TCAATTTGCAGCACTTTA-ACATCTCAATTAACAAC-ATTTATACATCTCAA
*
56264354 TTTACAACATTTAAGCA-CTTC
186 -TTACAACATTTAAACATC-TC
** * * *
56264375 AATTTACAGCATTTAAACACTTCAATTTACA--ACATTTAACACTTCAATTTGC-AGCACTTT-A
1 AATTT-CAGCAACTAAACACTTCAATTTGCAGTAC-TTAAACACTTCAATTTACGA-CA-TTTAA
*
56264436 ACACTTCAATTTACAGCATTT-AACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCA-
62 ACACTTCAATTTACAACATTTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCAC
* *
56264499 TTTAAACACTTCAATTTGCTGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTA
127 TTT-AACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACATCTCAATTA
56264562 ACATCTCAGT
Statistics
Matches: 871, Mismatches: 85, Indels: 103
0.82 0.08 0.10
Matches are distributed among these distances:
201 4 0.00
202 144 0.17
203 16 0.02
204 97 0.11
205 115 0.13
206 481 0.55
207 11 0.01
208 3 0.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (205 bp):
AATTTCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACGACATTTAAACAC
TTCAATTTACAACATTTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCACTTTA
ACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACATCTCAATTACAACATT
TAAACATCTC
Found at i:56268602 original size:41 final size:41
Alignment explanation
Indices: 56268533--56268652 Score: 125
Period size: 41 Copynumber: 2.9 Consensus size: 41
56268523 GGTAAAATAA
* *** *
56268533 TGGCGTTTTCAACAAAAACAAAATTATAGCTTAATTTTTTG
1 TGGCGTTTTCATCAAAAACGTCACTATAGCTTAATTTTTTG
* * *
56268574 TGGTGTTTTTATCAAAAACG-CTACTATAGCTTAACTTTTTG
1 TGGCGTTTTCATCAAAAACGTC-ACTATAGCTTAATTTTTTG
* **
56268615 TGGCGTTTTCCTCAAAAACGTCACTATTTCTTAATTTT
1 TGGCGTTTTCATCAAAAACGTCACTATAGCTTAATTTT
56268653 ATTTTTTTTT
Statistics
Matches: 64, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
41 63 0.98
42 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.42
Consensus pattern (41 bp):
TGGCGTTTTCATCAAAAACGTCACTATAGCTTAATTTTTTG
Found at i:56268768 original size:15 final size:15
Alignment explanation
Indices: 56268745--56268799 Score: 51
Period size: 15 Copynumber: 3.8 Consensus size: 15
56268735 ATATGGACTA
56268745 AAATA-TTAAATATT
1 AAATATTTAAATATT
*
56268759 AAATATTTAAGTATT
1 AAATATTTAAATATT
** * *
56268774 TTATTTTTAAATTTT
1 AAATATTTAAATATT
56268789 AAAT-TTTAAAT
1 AAATATTTAAAT
56268800 TTTACATTTT
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
14 12 0.38
15 20 0.62
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (15 bp):
AAATATTTAAATATT
Found at i:56268790 original size:7 final size:7
Alignment explanation
Indices: 56268745--56268809 Score: 60
Period size: 7 Copynumber: 9.0 Consensus size: 7
56268735 ATATGGACTA
*
56268745 AAATATT
1 AAATTTT
*
56268752 AAATATT
1 AAATTTT
56268759 AAATATTT
1 AAAT-TTT
56268767 AAGTATTTT
1 AA--ATTTT
*
56268776 -ATTTTT
1 AAATTTT
56268782 AAATTTT
1 AAATTTT
56268789 AAATTTT
1 AAATTTT
56268796 AAATTTT
1 AAATTTT
*
56268803 ACATTTT
1 AAATTTT
56268810 TTTGAAGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
6 4 0.08
7 36 0.72
8 5 0.10
9 3 0.06
10 2 0.04
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (7 bp):
AAATTTT
Found at i:56269696 original size:21 final size:21
Alignment explanation
Indices: 56269655--56269696 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
56269645 AACAATAAAT
* *
56269655 CATAAACCCCAAACTCTAAAC
1 CATAAACCCCAAAATCAAAAC
*
56269676 CATAAACCCTAAAATCAAAAC
1 CATAAACCCCAAAATCAAAAC
56269697 TCTAATCACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.14
Consensus pattern (21 bp):
CATAAACCCCAAAATCAAAAC
Found at i:56269894 original size:15 final size:15
Alignment explanation
Indices: 56269867--56269904 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
56269857 TACTCTTAAA
56269867 CCATAAA-CCATAAT
1 CCATAAACCCATAAT
*
56269881 CCCTAAACCCATAAT
1 CCATAAACCCATAAT
56269896 CCATAAACC
1 CCATAAACC
56269905 TTAAAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.45, C:0.37, G:0.00, T:0.18
Consensus pattern (15 bp):
CCATAAACCCATAAT
Found at i:56269909 original size:22 final size:21
Alignment explanation
Indices: 56269861--56269909 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
56269851 AACCCCTACT
*
56269861 CTTAAACCATAAACCATAATC
1 CTTAAACCATAAACCATAAAC
* *
56269882 CCTAAACCCATAATCCATAAAC
1 CTTAAA-CCATAAACCATAAAC
56269904 CTTAAA
1 CTTAAA
56269910 ATATTTAACA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (21 bp):
CTTAAACCATAAACCATAAAC
Found at i:56270379 original size:116 final size:113
Alignment explanation
Indices: 56270138--56270382 Score: 264
Period size: 116 Copynumber: 2.1 Consensus size: 113
56270128 TAGACAGATG
* * *
56270138 AAATGTTTTTGCAGCGTTTTTCAAAAAGCGCCGCTAATACTCGACCTATAGCGGCGTTTTTACAA
1 AAAT-TTTTTGCAGAGTTTTTCAAAAAGCGCCGCTAATACTCGACCTATAGCAGCGTTTTTAAAA
* * * *
56270203 AAGCGCCGCTAAAGCCACTAAAAGCTTAATACAAAACGACGGCTTTTTCA
65 AAACGCCACTAAAGCCACTAAAAGCTCAATACAAAACGACAGCTTTTT-A
* *
56270253 AAATTCTTTTGCAGAGTTTGTT-AAAAAGCGCCGCTAA-AGGT-GTACCTGTAGCAGCGTTTCTT
1 AAATT-TTTTGCAGAGTTT-TTCAAAAAGCGCCGCTAATA-CTCG-ACCTATAGCAGCGTTT-TT
** *
56270315 AAAAAAACGTTACTAAAGCCACTAAAGGCTCAATACAAAACGACAGCGTTGTGTT-
61 AAAAAAACGCCACTAAAGCCACTAAAAGCTCAATACAAAACGACAGC-TT-T-TTA
56270370 AAATTTTTTGCAG
1 AAATTTTTTGCAG
56270383 CATTTTTTGA
Statistics
Matches: 110, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
114 3 0.03
115 46 0.42
116 51 0.46
117 7 0.06
118 1 0.01
119 2 0.02
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.28
Consensus pattern (113 bp):
AAATTTTTTGCAGAGTTTTTCAAAAAGCGCCGCTAATACTCGACCTATAGCAGCGTTTTTAAAAA
AACGCCACTAAAGCCACTAAAAGCTCAATACAAAACGACAGCTTTTTA
Found at i:56283089 original size:16 final size:17
Alignment explanation
Indices: 56283058--56283090 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
56283048 GGTTACTGTT
56283058 TTATGGCTGATTTGATG
1 TTATGGCTGATTTGATG
*
56283075 TTATTGCTG-TTTGATG
1 TTATGGCTGATTTGATG
56283091 AGTTTGATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.15, C:0.06, G:0.27, T:0.52
Consensus pattern (17 bp):
TTATGGCTGATTTGATG
Found at i:56292342 original size:2 final size:2
Alignment explanation
Indices: 56292337--56292362 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
56292327 TCATGCATTC
56292337 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
56292363 TACTATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56304493 original size:37 final size:37
Alignment explanation
Indices: 56304443--56304533 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
56304433 TTATTACGAA
56304443 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
56304480 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
56304517 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
56304534 TTTCCAAGTT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 47 0.90
38 5 0.10
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:56304631 original size:48 final size:48
Alignment explanation
Indices: 56304573--56304724 Score: 286
Period size: 48 Copynumber: 3.2 Consensus size: 48
56304563 TGTTACAACA
*
56304573 TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
56304621 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
56304669 TTCACATTAGCCCTTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
56304717 TTCACATT
1 TTCACATT
56304725 CATCACATCG
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 102 1.00
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:56304773 original size:49 final size:49
Alignment explanation
Indices: 56304716--56305660 Score: 1293
Period size: 49 Copynumber: 18.9 Consensus size: 49
56304706 CACACATATA
* *
56304716 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
* *
56304765 CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
* *
56304814 TTTCACATTCATCACATCGGCCATTAGGCCCATTAGGCCTTATTACA--TATATACTC
1 TTTCACATTCAT--CA-----CATT-GG-CCATTAGGCCTTATCACATGTATATACAC
56304870 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
*
56304919 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
56304968 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
56305017 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
56305066 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
56305115 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
*
56305164 TTTCACATTCATCACATTGGCCATTAGGCCTTATCATATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
56305213 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
*
56305262 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACA--TATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
*
56305309 TTTCACATTCATCACATTAGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
* * **
56305358 TTTCACATTCATCACATT-TCACATTCA-TCACATTGGC-CAT-TAGGCCT-TATCAC
1 TTTCACATTCATCACATTGGC-CATT-AGGC-C-TTATCACATGTA----TATA-CAC
* ** * ** *
56305411 ATGTATATACACTT--TCACATTCATCACATT-GGCCATTAGGCCTTATCACATATATACTC
1 -T-T-T-CACA-TTCATCACATT-GGC-CATTAGGCC-TTA----TCA-CATGTATATACAC
56305470 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
*
56305519 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
*
56305568 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
* * *
56305617 TTTCACATTCATCACATTGGTCATTAGGCCGTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATA
56305661 CATCTCATAC
Statistics
Matches: 819, Mismatches: 36, Indels: 82
0.87 0.04 0.09
Matches are distributed among these distances:
47 62 0.08
48 3 0.00
49 629 0.77
50 7 0.01
51 5 0.01
52 2 0.00
53 4 0.00
54 12 0.01
55 9 0.01
56 43 0.05
57 7 0.01
58 27 0.03
59 3 0.00
60 2 0.00
62 2 0.00
63 2 0.00
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.35
Consensus pattern (49 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
Found at i:56304834 original size:147 final size:148
Alignment explanation
Indices: 56304711--56305660 Score: 1427
Period size: 147 Copynumber: 6.3 Consensus size: 148
56304701 CATATCACAC
* * *
56304711 ATATA-TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTC
1 ATATACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTC
* *
56304775 ATCACATCGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTA
66 ATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACATTGGCCATTA
* *
56304840 GGCCCATTAGGC-CTTATTACAT
131 GG-CC-TTA-TCACATA-TA-AT
56304862 ATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACAT
1 ATATA--CTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACAT
*
56304927 TCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCAT
64 TCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACATTGGCCAT
*
56304992 TAGGCCTTATCACATGT-AT
129 TAGGCCTTATCACATATAAT
*
56305011 ATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTC
1 ATATACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTC
56305076 ATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACATTGGCCATTA
66 ATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACATTGGCCATTA
*
56305141 GGCCTTATCACATGT-AT
131 GGCCTTATCACATATAAT
* *
56305158 ATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCATATGTATATACACTTTCACATTC
1 ATATACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTC
56305223 ATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACATTGGCCATTA
66 ATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACATTGGCCATTA
56305288 GGCCTTATCACATAT-AT
131 GGCCTTATCACATATAAT
* *
56305305 A-CT-CTTTCACATTCATCACATTAGCCATTAGGCCTTATCACATGTATATACACTTTCACATTC
1 ATATACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATG----T--A---T---A-T-
56305368 ATCACATTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTC
52 A-CAC-TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTC
56305433 ATCACATTGGCCATTAGGCCTTATCACATAT-AT
115 ATCACATTGGCCATTAGGCCTTATCACATATAAT
*
56305466 A-CT-CTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTC
1 ATATACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTC
*
56305529 ATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTA
66 ATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACATTGGCCATTA
56305594 GGCCTTATCACATAT-AT
131 GGCCTTATCACATATAAT
* * * *
56305611 ATACACTTTCACATTCATCACATTGGTCATTAGGCCGTATCACATATATA
1 ATATACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATA
56305661 CATCTCATAC
Statistics
Matches: 753, Mismatches: 24, Indels: 48
0.91 0.03 0.06
Matches are distributed among these distances:
145 131 0.17
146 3 0.00
147 330 0.44
148 1 0.00
149 8 0.01
151 8 0.01
152 6 0.01
153 2 0.00
154 121 0.16
155 1 0.00
157 2 0.00
158 1 0.00
159 1 0.00
160 3 0.00
161 135 0.18
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.35
Consensus pattern (148 bp):
ATATACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTC
ATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACATTGGCCATTA
GGCCTTATCACATATAAT
Found at i:56305374 original size:9 final size:9
Alignment explanation
Indices: 56305360--56305391 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
56305350 ATATACACTT
56305360 TCACATTCA
1 TCACATTCA
56305369 TCACATT--
1 TCACATTCA
56305376 TCACATTCA
1 TCACATTCA
56305385 TCACATT
1 TCACATT
56305392 GGCCATTAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
7 7 0.33
9 14 0.67
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (9 bp):
TCACATTCA
Found at i:56305378 original size:65 final size:65
Alignment explanation
Indices: 56305309--56305440 Score: 255
Period size: 65 Copynumber: 2.0 Consensus size: 65
56305299 ATATATACTC
56305309 TTTCACATTCATCACATTAGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTAGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
*
56305374 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTAGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
56305439 TT
1 TT
56305441 GGCCATTAGG
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (65 bp):
TTTCACATTCATCACATTAGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
Found at i:56305379 original size:16 final size:16
Alignment explanation
Indices: 56305358--56305391 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
56305348 GTATATACAC
56305358 TTTCACATTCATCACA
1 TTTCACATTCATCACA
56305374 TTTCACATTCATCACA
1 TTTCACATTCATCACA
56305390 TT
1 TT
56305392 GGCCATTAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.41
Consensus pattern (16 bp):
TTTCACATTCATCACA
Found at i:56305661 original size:145 final size:144
Alignment explanation
Indices: 56305374--56305662 Score: 508
Period size: 145 Copynumber: 2.0 Consensus size: 144
56305364 ATTCATCACA
*
56305374 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
* *
56305439 TTGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTAT
66 TTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCGTAT
56305504 CACATGTATATACAC
131 CACA-GTATATACAC
56305519 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
*
56305584 TTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGTCATTAGGCCGT
66 TTGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGCCGT
56305649 ATCACA-TATATACA
129 ATCACAGTATATACA
56305663 TCTCATACAT
Statistics
Matches: 138, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
145 93 0.67
147 45 0.33
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.35
Consensus pattern (144 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCGTAT
CACAGTATATACAC
Found at i:56305662 original size:96 final size:96
Alignment explanation
Indices: 56305374--56305662 Score: 524
Period size: 96 Copynumber: 3.0 Consensus size: 96
56305364 ATTCATCACA
56305374 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
*
56305439 TTGGCCATTAGGCCTTATCACATATATACTC
66 TTGGCCATTAGGCCTTATCACATATATACAC
56305470 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
56305535 TTGGCCATTAGGCCTTATCACATATATATACAC
66 TTGGCCATTAGGCCTTATCAC--ATATATACAC
*
56305568 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
* *
56305633 TTGGTCATTAGGCCGTATCACATATATACA
66 TTGGCCATTAGGCCTTATCACATATATACA
56305663 TCTCATACAT
Statistics
Matches: 187, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
96 95 0.51
98 92 0.49
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.35
Consensus pattern (96 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
TTGGCCATTAGGCCTTATCACATATATACAC
Found at i:56309466 original size:40 final size:40
Alignment explanation
Indices: 56309231--56309448 Score: 339
Period size: 40 Copynumber: 5.5 Consensus size: 40
56309221 CCAGCATGAT
* **
56309231 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAATTTAGCCCGGATACATCACTAGCACGAA
*
56309271 TGCTCTTCGGAA-TTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAATTTAGCCCGGATACATCACTAGCACGAA
* * *
56309310 TGCTCTTTGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAATTTAGCCCGGATACATCACTAGCACGAA
56309350 TGCTCTTCGGAATTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAATTTAGCCCGGATACATCACTAGCACGAA
* *
56309390 TGCTCTTCGGAATTTAGCCCGGATATATCATTAGCACGAA
1 TGCTCTTCGGAATTTAGCCCGGATACATCACTAGCACGAA
*
56309430 TGCTCTTCAGAATTTAGCC
1 TGCTCTTCGGAATTTAGCC
56309449 AGATATAACC
Statistics
Matches: 167, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
39 36 0.22
40 131 0.78
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (40 bp):
TGCTCTTCGGAATTTAGCCCGGATACATCACTAGCACGAA
Found at i:56309490 original size:119 final size:120
Alignment explanation
Indices: 56309229--56309490 Score: 336
Period size: 119 Copynumber: 2.2 Consensus size: 120
56309219 CACCAGCATG
* * *
56309229 ATTGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAATTAGTCCGGAT
1 ATTGCTCTTCGGGTCTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAATTAGCCCGGAT
** * * * *
56309294 ACATCACTAGCACGAATGCTCTTTGGAACTTAGTCCGGATACATCACTAGCACGA
66 ACATCACTAGCACGAATGCTCTTCAGAACTTAGTCCAGATAAACCACAAGCACGA
*
56309349 A-TGCTCTTCGGAAT-TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAATTTAGCCCGG
1 ATTGCTCTTCGG-GTCTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAA-TTAGCCCGG
* * *
56309412 ATATATCATTAGCACGAATGCTCTTCAGAATTTAG-CCAGATATAACCACAAGCAC-A
64 ATACATCACTAGCACGAATGCTCTTCAGAACTTAGTCCAGATA-AACCACAAGCACGA
*
56309468 ATTGC-CTTCGGGTCTTAACCCGG
1 ATTGCTCTTCGGGTCTTAGCCCGG
56309491 GTATAACAAC
Statistics
Matches: 122, Mismatches: 15, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
118 1 0.01
119 70 0.57
120 51 0.42
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (120 bp):
ATTGCTCTTCGGGTCTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAATTAGCCCGGAT
ACATCACTAGCACGAATGCTCTTCAGAACTTAGTCCAGATAAACCACAAGCACGA
Found at i:56309496 original size:40 final size:40
Alignment explanation
Indices: 56309452--56309574 Score: 131
Period size: 40 Copynumber: 3.1 Consensus size: 40
56309442 TTTAGCCAGA
* *
56309452 TATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGG
1 TATAACCACAAGCACAAATGCCTTCGGGTCTTAGCCCGGG
* * *
56309492 TATAACAACTCA-CACAAATGCCTTCGGGTCTTAGCCCGGA
1 TATAACCAC-AAGCACAAATGCCTTCGGGTCTTAGCCCGGG
** * * **
56309532 TATATTCACTAGCATAAATGCCTTCGGGAGTTAGCCCGGG
1 TATAACCACAAGCACAAATGCCTTCGGGTCTTAGCCCGGG
56309572 TAT
1 TAT
56309575 CATTCAAATG
Statistics
Matches: 68, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
39 1 0.01
40 66 0.97
41 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
TATAACCACAAGCACAAATGCCTTCGGGTCTTAGCCCGGG
Found at i:56311519 original size:37 final size:37
Alignment explanation
Indices: 56311469--56311559 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
56311459 TTATTACGAA
56311469 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
56311506 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
56311543 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
56311560 TTTCCAAGTT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 47 0.90
38 5 0.10
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:56311667 original size:48 final size:48
Alignment explanation
Indices: 56311599--56311750 Score: 268
Period size: 48 Copynumber: 3.2 Consensus size: 48
56311589 TGTTACAACA
* * *
56311599 TTCACATTAGTCATTTGGCTTTACCACACATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
56311647 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
56311695 TTCACATTAGCCCTTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
56311743 TTCACATT
1 TTCACATT
56311751 CATCACATCG
Statistics
Matches: 100, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 100 1.00
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:56311799 original size:49 final size:49
Alignment explanation
Indices: 56311742--56312222 Score: 790
Period size: 49 Copynumber: 9.9 Consensus size: 49
56311732 CACACATATA
*
56311742 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* * * *
56311791 CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGTATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
56311840 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* *
56311887 TTTCACATTCATCACATTGGCCATTAGGCCTTACCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
** *
56311936 TTTCACATTCATCACATTGGCCATTAGGCCTTGCCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* *
56311985 TTTCACATTCATCACATTCGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
56312034 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
56312081 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
56312130 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
56312179 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
56312223 CATCTCATAC
Statistics
Matches: 408, Mismatches: 20, Indels: 8
0.94 0.05 0.02
Matches are distributed among these distances:
47 90 0.22
49 318 0.78
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.34
Consensus pattern (49 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
Found at i:56311943 original size:194 final size:194
Alignment explanation
Indices: 56311742--56312222 Score: 856
Period size: 194 Copynumber: 2.5 Consensus size: 194
56311732 CACACATATA
* *
56311742 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
*
56311807 TCGGCCATTAGGCCTTATCACATGTATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTT
66 TCGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACATTGGCCATTAGGCCTT
56311872 ATCACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTACCACATGTATATACAC
131 ATCACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTACCACATGTATATACAC
** *
56311936 TTTCACATTCATCACATTGGCCATTAGGCCTTGCCACATGTATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
56312001 TTC-GCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACATTGGCCATTAGGCCT
66 -TCGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACATTGGCCATTAGGCCT
*
56312065 TATCACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
130 TATCACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTACCACATGTATATACAC
56312130 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
* * *
56312195 TTGGCCATTAGGCCGTATCACATATATA
66 TCGGCCATTAGGCCTTATCACATGTATA
56312223 CATCTCATAC
Statistics
Matches: 272, Mismatches: 13, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
193 1 0.00
194 269 0.99
195 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.34
Consensus pattern (194 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACATTGGCCATTAGGCCTT
ATCACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTACCACATGTATATACAC
Found at i:56312223 original size:145 final size:145
Alignment explanation
Indices: 56311742--56312224 Score: 808
Period size: 145 Copynumber: 3.3 Consensus size: 145
56311732 CACACATATA
* *
56311742 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
* *
56311807 TCGGCCATTAGGCCTTATCACATGTATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTT
64 TTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACATTGGCCATTAGGCCTT
*
56311872 ATCAC--ATATATACTC
129 ATCACATATATATACAC
*
56311887 TTTCACATTCATCACATTGGCCATTAGGCCTTACCACATGTATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACA--TATATACACTTTCACATTCATCACA
** *
56311952 TTGGCCATTAGGCCTTGCCACATGTATATACACTTTCACATTCATCACATTCGCCATTAGGCCTT
64 TTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACATTGGCCATTAGGCCTT
*
56312017 ATCACATGTATATACAC
129 ATCACATATATATACAC
*
56312034 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATT
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATT
56312099 GGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTAT
66 GGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTAT
56312164 CACATATATATACAC
131 CACATATATATACAC
*
56312179 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACA
56312225 TCTCATACAT
Statistics
Matches: 316, Mismatches: 18, Indels: 8
0.92 0.05 0.02
Matches are distributed among these distances:
143 1 0.00
145 270 0.85
147 45 0.14
ACGTcount: A:0.29, C:0.28, G:0.10, T:0.34
Consensus pattern (145 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATT
GGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTAT
CACATATATATACAC
Found at i:56316396 original size:12 final size:12
Alignment explanation
Indices: 56316379--56316403 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56316369 TATCTCCAAA
56316379 ATGAAAATGGAG
1 ATGAAAATGGAG
56316391 ATGAAAATGGAG
1 ATGAAAATGGAG
56316403 A
1 A
56316404 AATGGAGTCA
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:0.52, C:0.00, G:0.32, T:0.16
Consensus pattern (12 bp):
ATGAAAATGGAG
Found at i:56316417 original size:63 final size:62
Alignment explanation
Indices: 56316330--56316450 Score: 174
Period size: 63 Copynumber: 1.9 Consensus size: 62
56316320 ATAGAAATGG
*
56316330 TGAAAATGGAAAATAGGGATATTTGGAAATGATTATGGTTATCTCCAAAATGAAAATGGAGA
1 TGAAAATGGAAAATAGGGATATTTGGAAATGAATATGGTTATCTCCAAAATGAAAATGGAGA
* *
56316392 TGAAAATGGAGAAAT--GGAGTCATTTGGAAATGAATGTGGTTTTCTCCAAAATGAAAATG
1 TGAAAATGGA-AAATAGGGA-T-ATTTGGAAATGAATATGGTTATCTCCAAAATGAAAATG
56316451 ACCTGAAAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
61 3 0.06
62 11 0.21
63 39 0.74
ACGTcount: A:0.41, C:0.06, G:0.25, T:0.28
Consensus pattern (62 bp):
TGAAAATGGAAAATAGGGATATTTGGAAATGAATATGGTTATCTCCAAAATGAAAATGGAGA
Found at i:56321736 original size:23 final size:23
Alignment explanation
Indices: 56321701--56321785 Score: 95
Period size: 23 Copynumber: 3.7 Consensus size: 23
56321691 TACTTTTTTT
* *
56321701 AGCTCATTGGAGCTTACCATTTC
1 AGCTCAATAGAGCTTACCATTTC
*
56321724 AGCTC-GTATGAGCTTA-C-TGTTC
1 AGCTCAATA-GAGCTTACCAT-TTC
*
56321746 AGCTCAATAGAGTTTACCATTTC
1 AGCTCAATAGAGCTTACCATTTC
56321769 AGCTCAATAGAGCTTAC
1 AGCTCAATAGAGCTTAC
56321786 TCTCCATCAG
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
21 1 0.02
22 16 0.31
23 34 0.65
24 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.33
Consensus pattern (23 bp):
AGCTCAATAGAGCTTACCATTTC
Found at i:56321765 original size:45 final size:45
Alignment explanation
Indices: 56321677--56321786 Score: 123
Period size: 45 Copynumber: 2.4 Consensus size: 45
56321667 GATATATATT
* * * * *
56321677 AGCTCGTAAGAGCTTACTTTTTTTAGCTCATTGGAGCTTACCATTTC
1 AGCTCGTATGAGCTTAC--TGTTCAGCTCAATAGAGCTTACCATTTC
*
56321724 AGCTCGTATGAGCTTACTGTTCAGCTCAATAGAGTTTACCATTTC
1 AGCTCGTATGAGCTTACTGTTCAGCTCAATAGAGCTTACCATTTC
*
56321769 AGCTC-AATAGAGCTTACT
1 AGCTCGTAT-GAGCTTACT
56321787 CTCCATCAGC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
44 2 0.04
45 37 0.67
47 16 0.29
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (45 bp):
AGCTCGTATGAGCTTACTGTTCAGCTCAATAGAGCTTACCATTTC
Found at i:56323039 original size:26 final size:26
Alignment explanation
Indices: 56323010--56323089 Score: 160
Period size: 26 Copynumber: 3.1 Consensus size: 26
56323000 GTTACATTTG
56323010 TTGGTATCAGAGCTACGTTTAGTCGA
1 TTGGTATCAGAGCTACGTTTAGTCGA
56323036 TTGGTATCAGAGCTACGTTTAGTCGA
1 TTGGTATCAGAGCTACGTTTAGTCGA
56323062 TTGGTATCAGAGCTACGTTTAGTCGA
1 TTGGTATCAGAGCTACGTTTAGTCGA
56323088 TT
1 TT
56323090 CTAGGACTAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (26 bp):
TTGGTATCAGAGCTACGTTTAGTCGA
Found at i:56325176 original size:32 final size:32
Alignment explanation
Indices: 56325140--56325204 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
56325130 ACATAAAGGT
56325140 TATTTGCCATCTAGTATTTATGGGTTCTTATG
1 TATTTGCCATCTAGTATTTATGGGTTCTTATG
*
56325172 TATTTTCCATCTAGTATTTATGGGTTCTTATG
1 TATTTGCCATCTAGTATTTATGGGTTCTTATG
56325204 T
1 T
56325205 TATTGTAGCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.18, C:0.12, G:0.17, T:0.52
Consensus pattern (32 bp):
TATTTGCCATCTAGTATTTATGGGTTCTTATG
Found at i:56343507 original size:55 final size:55
Alignment explanation
Indices: 56343437--56343560 Score: 153
Period size: 55 Copynumber: 2.3 Consensus size: 55
56343427 CAAGCCCTAT
** *
56343437 GCCCGTGTTAATTTAACAGGTTCGA-CCACAGGTGTTCCACAC-AGGCGTGTCGAAC
1 GCCCGTGTTGTTTTAACAGGTTC-ACCCACAGGTCTTCCACACGA-GCGTGTCGAAC
* * * *
56343492 GCCCGTGTTGTTTTAACAGGTTCACCCACTGTTCTTCCACACGAGCGTGTGGCAC
1 GCCCGTGTTGTTTTAACAGGTTCACCCACAGGTCTTCCACACGAGCGTGTCGAAC
56343547 GCCCGTGTTGTTTT
1 GCCCGTGTTGTTTT
56343561 GGCAGGCTCG
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
54 1 0.02
55 58 0.97
56 1 0.02
ACGTcount: A:0.18, C:0.28, G:0.25, T:0.29
Consensus pattern (55 bp):
GCCCGTGTTGTTTTAACAGGTTCACCCACAGGTCTTCCACACGAGCGTGTCGAAC
Found at i:56348139 original size:22 final size:23
Alignment explanation
Indices: 56348076--56348163 Score: 83
Period size: 23 Copynumber: 3.9 Consensus size: 23
56348066 GGCTTACTAT
*
56348076 TTTCAGCTC-ATTGGAGCTTACCG
1 TTTCAGCTCGA-TAGAGCTTACCG
* *
56348099 TTTCAGCTCG-TATGTGCTTACTG
1 TTTCAGCTCGATA-GAGCTTACCG
*
56348122 -TTCAGCTCGATAGAGCTTGCCG
1 TTTCAGCTCGATAGAGCTTACCG
* *
56348144 TTTCAGCTCTATAAAGCTTA
1 TTTCAGCTCGATAGAGCTTA
56348164 TTTTCCATCA
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
22 17 0.33
23 35 0.67
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.36
Consensus pattern (23 bp):
TTTCAGCTCGATAGAGCTTACCG
Found at i:56352734 original size:30 final size:31
Alignment explanation
Indices: 56352698--56352773 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 31
56352688 TAATAATTAT
*
56352698 AAATTATAAATTTACTAATAATTTAGT-AAA
1 AAATTATAAATTTACTAATAATTCAGTGAAA
* * * *
56352728 AAATTATAAAGTTATTAATAATTCATTGAAT
1 AAATTATAAATTTACTAATAATTCAGTGAAA
*
56352759 AAATTGTAAATTTAC
1 AAATTATAAATTTAC
56352774 CCTTTTCCAT
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
30 23 0.62
31 14 0.38
ACGTcount: A:0.50, C:0.04, G:0.05, T:0.41
Consensus pattern (31 bp):
AAATTATAAATTTACTAATAATTCAGTGAAA
Found at i:56353949 original size:17 final size:17
Alignment explanation
Indices: 56353929--56354002 Score: 76
Period size: 17 Copynumber: 4.4 Consensus size: 17
56353919 AAATGACAAC
*
56353929 TCATGCAAAATAATAGT
1 TCATACAAAATAATAGT
** *
56353946 TCATATGAAATATTAGT
1 TCATACAAAATAATAGT
** *
56353963 TCATACTGAATAATAAT
1 TCATACAAAATAATAGT
*
56353980 TCATGCAAAATAATAGT
1 TCATACAAAATAATAGT
56353997 TCATAC
1 TCATAC
56354003 TCCATCATAA
Statistics
Matches: 43, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 43 1.00
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (17 bp):
TCATACAAAATAATAGT
Found at i:56353975 original size:34 final size:34
Alignment explanation
Indices: 56353937--56354003 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
56353927 ACTCATGCAA
* ** *
56353937 AATAATAGTTCATATGAAATATTAGTTCATACTG
1 AATAATAATTCATACAAAATAATAGTTCATACTG
*
56353971 AATAATAATTCATGCAAAATAATAGTTCATACT
1 AATAATAATTCATACAAAATAATAGTTCATACT
56354004 CCATCATAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.45, C:0.10, G:0.09, T:0.36
Consensus pattern (34 bp):
AATAATAATTCATACAAAATAATAGTTCATACTG
Found at i:56362952 original size:22 final size:24
Alignment explanation
Indices: 56362907--56362954 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
56362897 TAATCTTTAA
56362907 TATATAATTATATCTATTATAATT
1 TATATAATTATATCTATTATAATT
56362931 TATAT-ATTA-ATCT-TTATCAATT
1 TATATAATTATATCTATTAT-AATT
56362953 TA
1 TA
56362955 GCATAGAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.17
22 10 0.43
23 4 0.17
24 5 0.22
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (24 bp):
TATATAATTATATCTATTATAATT
Found at i:56369542 original size:29 final size:29
Alignment explanation
Indices: 56369509--56369610 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
56369499 TGACGAGATC
56369509 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
56369538 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
** * *
56369567 GGCACTAAGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
**
56369596 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
56369611 AGCTCGGAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAATATAT
Found at i:56371652 original size:26 final size:26
Alignment explanation
Indices: 56371616--56371679 Score: 119
Period size: 26 Copynumber: 2.5 Consensus size: 26
56371606 ACGACCTACG
*
56371616 ACACGGGCATGTCTCTTGACTAGGCC
1 ACACGGCCATGTCTCTTGACTAGGCC
56371642 ACACGGCCATGTCTCTTGACTAGGCC
1 ACACGGCCATGTCTCTTGACTAGGCC
56371668 ACACGGCCATGT
1 ACACGGCCATGT
56371680 GACCCCTAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.20, C:0.33, G:0.25, T:0.22
Consensus pattern (26 bp):
ACACGGCCATGTCTCTTGACTAGGCC
Found at i:56377409 original size:40 final size:40
Alignment explanation
Indices: 56377364--56377530 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
56377354 CGGAATATAA
56377364 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
56377404 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
56377444 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
56377484 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
56377523 CCGGATAT
1 CCGGATAT
56377531 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:56377514 original size:80 final size:79
Alignment explanation
Indices: 56377380--56377530 Score: 207
Period size: 80 Copynumber: 1.9 Consensus size: 79
56377370 ATAATCACGT
*
56377380 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-CTTAGCC
56377445 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * * * *
56377460 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGCTTAGC
56377523 CCGGATAT
64 CCGGATAT
56377531 CATTCAATTT
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 17 0.27
80 46 0.73
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:56386154 original size:26 final size:27
Alignment explanation
Indices: 56386095--56386157 Score: 103
Period size: 26 Copynumber: 2.4 Consensus size: 27
56386085 ATTTAAAACC
*
56386095 TAGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGTAATTTCGGTAATTTTGCTCTT
56386121 TAGGGTAATTTCGGTAA-TTTGCTCTT
1 TAGGGTAATTTCGGTAATTTTGCTCTT
56386147 TAGGGTAATTT
1 TAGGGTAATTT
56386158 GTGATCTACG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
26 26 0.74
27 9 0.26
ACGTcount: A:0.21, C:0.10, G:0.24, T:0.46
Consensus pattern (27 bp):
TAGGGTAATTTCGGTAATTTTGCTCTT
Found at i:56394066 original size:28 final size:28
Alignment explanation
Indices: 56394020--56394088 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
56394010 TTTAAAACCC
*
56394020 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
56394047 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
56394075 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
56394089 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:56395738 original size:20 final size:20
Alignment explanation
Indices: 56395715--56395752 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
56395705 CACATCCAAA
*
56395715 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
56395735 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
56395753 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:56396105 original size:42 final size:41
Alignment explanation
Indices: 56396004--56396105 Score: 118
Period size: 41 Copynumber: 2.5 Consensus size: 41
56395994 AGGTTTTGGA
* *
56396004 AGCCCTTGCAAAAGTCCAACAAAATCGACCGAGTGACGCCG
1 AGCCCTTGGAAAAGTCCAACAAAATCGACCAAGTGACGCCG
* * *
56396045 AGCCCTTGTG-AAACTCCAACAGAATCGAGCAAGTGACGCTAC-
1 AGCCCTTG-GAAAAGTCCAACAAAATCGACCAAGTGACGC--CG
56396087 AGCCCTTGGAAAAGTCCAA
1 AGCCCTTGGAAAAGTCCAA
56396106 GCTGGGACCG
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
41 34 0.67
42 16 0.31
43 1 0.02
ACGTcount: A:0.34, C:0.29, G:0.22, T:0.15
Consensus pattern (41 bp):
AGCCCTTGGAAAAGTCCAACAAAATCGACCAAGTGACGCCG
Found at i:56397418 original size:14 final size:15
Alignment explanation
Indices: 56397399--56397427 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
56397389 AATTTTTAAA
56397399 TAAA-TTAAAAAATT
1 TAAATTTAAAAAATT
56397413 TAAATTTAAAAAATT
1 TAAATTTAAAAAATT
56397428 AAAAAGCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TAAATTTAAAAAATT
Found at i:56397439 original size:23 final size:24
Alignment explanation
Indices: 56397393--56397439 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
56397383 ATACATAATT
**
56397393 TTTAAATAAATTAAAAAATTTAAA
1 TTTAAATAAATTAAAAAACATAAA
*
56397417 TTTAAA-AAATTAAAAAGCATAAA
1 TTTAAATAAATTAAAAAACATAAA
56397440 AATTACAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (24 bp):
TTTAAATAAATTAAAAAACATAAA
Found at i:56401750 original size:31 final size:31
Alignment explanation
Indices: 56401714--56401887 Score: 276
Period size: 31 Copynumber: 5.6 Consensus size: 31
56401704 TGTGTACAAT
56401714 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
56401745 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
*
56401776 GTGAAAAATGGTAGCTTCGGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* *
56401807 GTGAAAAGTAGTAGCTTCGGCTACCTGATTA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* **
56401838 GTGAAAAGTGGTAGCTCCACCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* *
56401869 GTGAATAGTGATAGCTTCG
1 GTGAAAAGTGGTAGCTTCG
56401888 ACTATCGAAT
Statistics
Matches: 130, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 130 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (31 bp):
GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
Found at i:56408412 original size:41 final size:42
Alignment explanation
Indices: 56408350--56408447 Score: 137
Period size: 41 Copynumber: 2.4 Consensus size: 42
56408340 CGCTCGACAT
* *
56408350 TCGAGCCCTTGCAAAAGTCCAACAAAATCGACCGAGTGACG-
1 TCGAGCCCTTGCGAAACTCCAACAAAATCGACCGAGTGACGC
**
56408391 TCGAGCCCTTGCGAAACTCCAACAAAATCGAGTGAGTGACGC
1 TCGAGCCCTTGCGAAACTCCAACAAAATCGACCGAGTGACGC
*
56408433 TCCAGCCCTTG-GAAA
1 TCGAGCCCTTGCGAAA
56408448 AGTCCAAGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
41 41 0.80
42 10 0.20
ACGTcount: A:0.32, C:0.30, G:0.22, T:0.16
Consensus pattern (42 bp):
TCGAGCCCTTGCGAAACTCCAACAAAATCGACCGAGTGACGC
Found at i:56411239 original size:26 final size:25
Alignment explanation
Indices: 56411210--56411261 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
56411200 TCAAACATGC
56411210 ATTTAAGTCAATTTAACCCTAGGGGT
1 ATTTAAGT-AATTTAACCCTAGGGGT
** * *
56411236 ATTTCGGTAATTTATCTCTAGGGGT
1 ATTTAAGTAATTTAACCCTAGGGGT
56411261 A
1 A
56411262 AAACTGTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.38
Consensus pattern (25 bp):
ATTTAAGTAATTTAACCCTAGGGGT
Found at i:56412774 original size:26 final size:26
Alignment explanation
Indices: 56412738--56412821 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
56412728 CATGAAATTC
56412738 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
56412764 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
56412790 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
56412816 TTATCA
1 TTATCA
56412822 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:56418864 original size:20 final size:19
Alignment explanation
Indices: 56418831--56418909 Score: 85
Period size: 20 Copynumber: 4.2 Consensus size: 19
56418821 ATACGTGGGA
56418831 TATGATAT--ACATGATTG
1 TATGATATGCACATGATTG
*
56418848 ATATGATATGCACATGACATG
1 -TATGATATGCACATGA-TTG
56418869 TATGATATGCACATGATATG
1 TATGATATGCACATGAT-TG
56418889 TATGA-AGTGCACATGA-TG
1 TATGATA-TGCACATGATTG
56418907 TAT
1 TAT
56418910 TCATAAATGC
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
18 13 0.24
19 1 0.02
20 38 0.70
21 2 0.04
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.34
Consensus pattern (19 bp):
TATGATATGCACATGATTG
Found at i:56419020 original size:25 final size:26
Alignment explanation
Indices: 56418955--56419051 Score: 135
Period size: 25 Copynumber: 3.8 Consensus size: 26
56418945 GAGGAAGTGC
* * *
56418955 AAAAGGGCTTATTCCCCAATTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
56418981 AAAAGGGCTTATGCCCCAGTTTATCA
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
56419007 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
56419032 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
56419052 ATTAAAAGAG
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
25 33 0.51
26 32 0.49
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATCG
Found at i:56419035 original size:51 final size:51
Alignment explanation
Indices: 56418955--56419051 Score: 142
Period size: 51 Copynumber: 1.9 Consensus size: 51
56418945 GAGGAAGTGC
* **
56418955 AAAAGGGCTTATTCCCCAATTTATTGAAAAGGGCTTATGCCCCAGTTTATCA
1 AAAAGGGCTTATGCCCCAATTTACCGAAAAGGGCTT-TGCCCCAGTTTATCA
*
56419007 AAAAGGGCTT-TGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTATGCCCCAATTTACCGAAAAGGGCTTTGCCCCAGTT
56419052 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
50 10 0.24
51 21 0.51
52 10 0.24
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAATTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
Found at i:56423391 original size:22 final size:21
Alignment explanation
Indices: 56423366--56423414 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 21
56423356 TATTCTTATA
* *
56423366 AAATTTTAAAACCCTAAACCTT
1 AAATTCTAAAACCCTAAA-ATT
* *
56423388 AAATACTAAAATCCTAAAATT
1 AAATTCTAAAACCCTAAAATT
56423409 AAATTC
1 AAATTC
56423415 CAAATAAAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (21 bp):
AAATTCTAAAACCCTAAAATT
Found at i:56425115 original size:5 final size:5
Alignment explanation
Indices: 56425105--56425129 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
56425095 TTATTTCTTC
56425105 AATAA AATAA AATAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AATAA
56425130 GATTTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:56431553 original size:26 final size:26
Alignment explanation
Indices: 56431517--56431626 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
56431507 TGATACAAAT
56431517 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
56431543 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* **
56431569 TGATAATGGGTTAGGTAAATGTTTTA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
56431595 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
56431621 TGATAA
1 TGATAA
56431627 GAATTTCATG
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:56433691 original size:137 final size:137
Alignment explanation
Indices: 56433405--56433691 Score: 520
Period size: 137 Copynumber: 2.1 Consensus size: 137
56433395 GAGTAGTCTC
56433405 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
56433470 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTATC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
56433535 ACTGTTA
131 ACTGTTA
*
56433542 CCCAAATAGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* *
56433607 TGTTATCTGAATAAGGGGCTAAGGCCTAGTTTATTGTAATCTGAAAAGGGCTCTGGCCGAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
56433672 ACTGTTA
131 ACTGTTA
**
56433679 CCTGAATGGGCTT
1 CCCAAATGGGCTT
56433692 AGGGCCAATA
Statistics
Matches: 143, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
137 143 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:56435175 original size:42 final size:41
Alignment explanation
Indices: 56435035--56435168 Score: 171
Period size: 41 Copynumber: 3.3 Consensus size: 41
56435025 GACATTCAAT
* *
56435035 CCCTTGCAAAAGTCCAACAAAATCGACTGAGTGACGCTGAG
1 CCCTTGCGAAACTCCAACAAAATCGACTGAGTGACGCTGAG
* * * *
56435076 CCCATGCGAAACTCCAACAAAATCGACCGAGTGATGTTGAG
1 CCCTTGCGAAACTCCAACAAAATCGACTGAGTGACGCTGAG
* * *
56435117 CCCTTGCGAATCTCCAACAAAATCGAGTGAGTGACGCTCCAG
1 CCCTTGCGAAACTCCAACAAAATCGACTGAGTGACGCT-GAG
56435159 CCCTTG-GAAA
1 CCCTTGCGAAA
56435169 AGTCCAAGCT
Statistics
Matches: 78, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
41 70 0.90
42 8 0.10
ACGTcount: A:0.32, C:0.28, G:0.22, T:0.18
Consensus pattern (41 bp):
CCCTTGCGAAACTCCAACAAAATCGACTGAGTGACGCTGAG
Found at i:56435592 original size:30 final size:30
Alignment explanation
Indices: 56435556--56435820 Score: 372
Period size: 30 Copynumber: 8.8 Consensus size: 30
56435546 ACTTTTCTCA
*
56435556 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
56435586 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
56435616 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
** *
56435646 ACTAGCCATTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
56435676 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* * *
56435706 ACTAGCTACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
56435736 ACTAGCCACACCTTTTCCACCACCAAATCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* ** *
56435766 ACTAGCCACA-CTTGCTCCATTACCTACTCC
1 ACTAGCCACACCTT-TTCCACCACCAACTCC
* *
56435796 ACTAACCACA-CTTGCTCCACCACCA
1 ACTAGCCACACCTT-TTCCACCACCA
56435821 CTTGTACTTA
Statistics
Matches: 211, Mismatches: 23, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
29 3 0.01
30 208 0.99
ACGTcount: A:0.26, C:0.47, G:0.04, T:0.23
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:56435604 original size:18 final size:18
Alignment explanation
Indices: 56435583--56435635 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
56435573 CACCACCAAC
56435583 TCCACTAGCCACACCTTT
1 TCCACTAGCCACACCTTT
*
56435601 TCCACCA-CCA-A-C---
1 TCCACTAGCCACACCTTT
56435613 TCCACTAGCCACACCTTT
1 TCCACTAGCCACACCTTT
56435631 TCCAC
1 TCCAC
56435636 CACCAACTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 12
0.66 0.05 0.29
Matches are distributed among these distances:
12 6 0.22
13 3 0.11
14 1 0.04
15 2 0.07
16 1 0.04
17 3 0.11
18 11 0.41
ACGTcount: A:0.25, C:0.49, G:0.04, T:0.23
Consensus pattern (18 bp):
TCCACTAGCCACACCTTT
Found at i:56436415 original size:25 final size:25
Alignment explanation
Indices: 56436324--56436445 Score: 74
Period size: 25 Copynumber: 5.0 Consensus size: 25
56436314 ATTATATTTC
* * *
56436324 TTAATATTATATTATATATAT-TCT
1 TTAATACTATATTATGTATATATAT
* *
56436348 TT--TAATATATTAGGTATAT-T-T
1 TTAATACTATATTATGTATATATAT
* * *
56436369 TAAATTCTATATTACGTATATATATAT
1 TTAATACTATATTA--TGTATATATAT
* * *
56436396 TTTATACTATTTTATGTATATATCT
1 TTAATACTATATTATGTATATATAT
* *
56436421 TTAATATTATATTATTTATATATAT
1 TTAATACTATATTATGTATATATAT
56436446 ATATATATTT
Statistics
Matches: 73, Mismatches: 19, Indels: 11
0.71 0.18 0.11
Matches are distributed among these distances:
21 2 0.03
22 15 0.21
23 8 0.11
24 2 0.03
25 34 0.47
26 1 0.01
27 11 0.15
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.57
Consensus pattern (25 bp):
TTAATACTATATTATGTATATATAT
Found at i:56436479 original size:36 final size:35
Alignment explanation
Indices: 56436412--56436479 Score: 91
Period size: 36 Copynumber: 1.9 Consensus size: 35
56436402 CTATTTTATG
*
56436412 TATATATCTTTAATATTATATTATTTATATATATA
1 TATATATCTTTAATATTATATTATGTATATATATA
* * *
56436447 TATATATTTTTACATGTTATCTTATGTATATAT
1 TATATATCTTTA-ATATTATATTATGTATATAT
56436480 CTTAACTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 11 0.39
36 17 0.61
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.57
Consensus pattern (35 bp):
TATATATCTTTAATATTATATTATGTATATATATA
Found at i:56436494 original size:22 final size:24
Alignment explanation
Indices: 56436468--56436526 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
56436458 ACATGTTATC
56436468 TTATGTATATATCTT-A-ACTATA
1 TTATGTATATATCTTAACACTATA
* *
56436490 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATA-TCTTAACACTATA
*
56436515 TTATGTACATAT
1 TTATGTATATAT
56436527 TTTTAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.33
23 3 0.10
24 2 0.07
25 15 0.50
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (24 bp):
TTATGTATATATCTTAACACTATA
Found at i:56436516 original size:25 final size:25
Alignment explanation
Indices: 56436484--56436532 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
56436474 ATATATCTTA
**
56436484 ACTATATTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
56436509 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
56436533 TATTATCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:56436723 original size:16 final size:16
Alignment explanation
Indices: 56436704--56436744 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
56436694 TAATATTTTG
56436704 ATATTTTGATAATTTA-
1 ATATTTT-ATAATTTAT
*
56436720 ATATTTTATATTTTAT
1 ATATTTTATAATTTAT
56436736 ATATTTTAT
1 ATATTTTAT
56436745 TATTCACATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (16 bp):
ATATTTTATAATTTAT
Found at i:56436743 original size:24 final size:25
Alignment explanation
Indices: 56436685--56436748 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 25
56436675 ATATTAATTA
*
56436685 TTAT-TATTCTAATATTTTGATATT
1 TTATATATTTTAATATTTTGATATT
56436709 TTGATA-A-TTTAATATTTT-ATATT
1 TT-ATATATTTTAATATTTTGATATT
*
56436732 TTATATATTTTATTATT
1 TTATATATTTTAATATT
56436749 CACATCATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
22 3 0.09
23 8 0.24
24 20 0.59
25 3 0.09
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (25 bp):
TTATATATTTTAATATTTTGATATT
Found at i:56439577 original size:35 final size:35
Alignment explanation
Indices: 56439550--56439715 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
56439540 CATGGCAAAG
*
56439550 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
56439585 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
56439620 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
56439660 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
56439695 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
56439716 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:56439669 original size:75 final size:75
Alignment explanation
Indices: 56439550--56439720 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
56439540 CATGGCAAAG
** *
56439550 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
56439609 CCATACTGAGC
65 CCATACCGAGC
56439620 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
56439685 CATACCGAGT
66 CATACCGAGC
**
56439695 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
56439721 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:56447074 original size:35 final size:35
Alignment explanation
Indices: 56447047--56447212 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
56447037 CATGGCAAAG
*
56447047 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
56447082 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
56447117 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
56447157 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
56447192 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
56447213 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:56447166 original size:75 final size:75
Alignment explanation
Indices: 56447047--56447217 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
56447037 CATGGCAAAG
** *
56447047 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
56447106 CCATACTGAGC
65 CCATACCGAGC
56447117 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
56447182 CATACCGAGT
66 CATACCGAGC
**
56447192 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
56447218 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:56448468 original size:12 final size:12
Alignment explanation
Indices: 56448451--56448486 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
56448441 ATTGATTTGA
56448451 CATTCATGCATT
1 CATTCATGCATT
56448463 CATTCATGCATT
1 CATTCATGCATT
*
56448475 CATTCATACATT
1 CATTCATGCATT
56448487 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:56456867 original size:71 final size:69
Alignment explanation
Indices: 56456769--56456943 Score: 208
Period size: 71 Copynumber: 2.5 Consensus size: 69
56456759 TTTTCAAGGG
** *
56456769 AAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAAGACACACTGAGGTATTTTTAATTTAT
56456833 GTTTT
65 GTTTT
** * *
56456838 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACACTGAGGTATTTTTAGTTTA
1 --AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACACTGAGGTATTTTTAATTTA
56456903 TGTTTT
64 TGTTTT
** * * *
56456909 AAATTGACTCATATTGCGATAGGTGAGTTAAGCCT
1 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
56456944 TTTAATTTTT
Statistics
Matches: 91, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
69 30 0.33
71 59 0.65
72 2 0.02
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (69 bp):
AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACACTGAGGTATTTTTAATTTATG
TTTT
Found at i:56457064 original size:72 final size:71
Alignment explanation
Indices: 56456943--56457108 Score: 226
Period size: 72 Copynumber: 2.3 Consensus size: 71
56456933 GAGTTAAGCC
** * *
56456943 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
56457007 AGAGATA
65 AGAGATA
*
56457014 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
* *
56457079 TGAGGTA
65 AGAGATA
* *
56457086 TTTTCAATTTCTGTTTTCAATTT
1 TTTTCAATTTTTGTTTTTAATTT
56457109 ACGTTGTTCA
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
71 12 0.14
72 68 0.81
73 4 0.05
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.41
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCA
GAGATA
Found at i:56457207 original size:140 final size:140
Alignment explanation
Indices: 56457037--56457382 Score: 595
Period size: 140 Copynumber: 2.5 Consensus size: 140
56457027 TGTTTTAATT
56457037 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTT
56457102 TCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTAC
66 TCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTAC
56457167 TTTTTCAAAA
131 TTTTTCAAAA
56457177 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTT
* * *
56457242 TCAATTTATGTTGTTCAAGAATCAACTCATATTGCTAGAGGTGGGTTGAACCTTTTAATTTCTAC
66 TCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTAC
56457307 TTTTTCAAAA
131 TTTTTCAAAA
* * * *
56457317 TCAGCTCATATTGCGAGAGGTGAGTTGATCCT-TGGTTCACATGCTGAGGTATTTTTAATTTCTG
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCAC--GCTGAGGTATTTTCAATTTCTG
56457381 TT
63 TT
56457383 CGTAAAAAAA
Statistics
Matches: 196, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
139 2 0.01
140 171 0.87
142 23 0.12
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.38
Consensus pattern (140 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTT
TCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTAC
TTTTTCAAAA
Found at i:56457244 original size:13 final size:13
Alignment explanation
Indices: 56457226--56457259 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
56457216 CGCTGAGGTA
*
56457226 TTTTCAATTTCTG
1 TTTTCAATTTATG
56457239 TTTTCAATTTATG
1 TTTTCAATTTATG
56457252 TTGTTCAA
1 TT-TTCAA
56457260 GAATCAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:56457496 original size:73 final size:73
Alignment explanation
Indices: 56457313--56458009 Score: 401
Period size: 73 Copynumber: 9.0 Consensus size: 73
56457303 CTACTTTTTC
* * * * *
56457313 AAAATCAGCTCATATTGCGAGAGGTGAGTTGATCCT-TGGTTCACATGCTGAGGTATTTTTAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTTAATT
**
56457377 TCTGTTCGTAAAA
63 TCTGTTC--ATCA
* ** ** *
56457390 AAAATCAACTTATATTGTTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTGGTTTTAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTCT
56457455 GTTCATCA
66 GTTCATCA
* * * *
56457463 AAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCT-TGGCTCACACGCTGAGGT-ATTTTCAAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTT-AAT
* **
56457526 TTCTGGTTTTTAATTTTTGTTTTT
62 TTCT-G---TTCA--------TCA
* *
56457550 AAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTCT
**
56457615 GTTTGTCA
66 GTTCATCA
* *
56457623 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTCT
*
56457688 GCTT-GTCA
66 G-TTCATCA
* *
56457696 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGT-CTTTTCAAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTT-AAT
*
56457759 TTCTGTTTTTCAATTTCTGTTCGT
62 TTCTG---TTC-A-------TC-A
** * * * * * * *
56457783 AAAAAAAAATCA-ACT-C-ATATTGCGAGAGGTGAGTTGAGCCTCAGTACACGCTGAGGTATTTT
1 AAAATCAACTCATATTGCGAGA--G-GTGAGTTGAG-----CCTCAGGACACGCTGAGGTAATTT
* *
56457845 TAAATTTCTGTT-TTTA
58 T-AATTTCTGTTCATCA
* * *
56457861 AAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTCT
**
56457926 GTTTGTCA
66 GTTCATCA
* * *
56457934 AAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGT-CTTTTCAAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTT-AAT
*
56457997 TTCTGTTCTTCA
62 TTCTGTTCATCA
56458009 A
1 A
56458010 TTTCTGTTCG
Statistics
Matches: 489, Mismatches: 77, Indels: 110
0.72 0.11 0.16
Matches are distributed among these distances:
72 15 0.03
73 197 0.40
74 12 0.02
75 87 0.18
76 1 0.00
77 33 0.07
78 18 0.04
79 7 0.01
80 1 0.00
81 4 0.01
84 3 0.01
85 20 0.04
86 9 0.02
87 50 0.10
88 4 0.01
90 11 0.02
91 12 0.02
92 4 0.01
93 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (73 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTCT
GTTCATCA
Found at i:56457770 original size:14 final size:14
Alignment explanation
Indices: 56457751--56457779 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
56457741 TGCTGAGGTC
56457751 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
56457765 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
56457779 T
1 T
56457780 CGTAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:56458010 original size:14 final size:14
Alignment explanation
Indices: 56457991--56458018 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
56457981 CTGAGGTCTT
56457991 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
56458005 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
56458019 GTAAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:56458069 original size:164 final size:164
Alignment explanation
Indices: 56457862--56458168 Score: 456
Period size: 164 Copynumber: 1.9 Consensus size: 164
56457852 CTGTTTTTAA
* * * *
56457862 AAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA-ATTTCAATTTCT
1 AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGTATATTTAAATTTCT
* * * * **
56457926 GTTTGTC-AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCT
66 GTTTGTCAAAAAATCAACTCATATTGCGAAAGGTCAGTTGAGCCTCGG--CACACGCTGAGGTAA
56457990 TTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAT
129 TTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAT
*
56458026 AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCT
1 AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGTATATTTAAATTTCT
* *
56458091 GTTTTTCAAAAAAATCAACTCATATTGCGAAAGGTCAGTTGAGCCTCGGGACACGCTGAGGTAAT
66 GTTTGTC-AAAAAATCAACTCATATTGCGAAAGGTCAGTTGAGCCTCGGCACACGCTGAGGTAAT
56458156 TTCAATTTCTGTT
130 TTCAATTTCTGTT
56458169 TGTCAAAAAT
Statistics
Matches: 127, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
164 49 0.39
165 41 0.32
167 37 0.29
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (164 bp):
AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGTATATTTAAATTTCT
GTTTGTCAAAAAATCAACTCATATTGCGAAAGGTCAGTTGAGCCTCGGCACACGCTGAGGTAATT
TCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAT
Found at i:56458134 original size:76 final size:74
Alignment explanation
Indices: 56458008--56458238 Score: 279
Period size: 76 Copynumber: 3.1 Consensus size: 74
56457998 TCTGTTCTTC
* * *
56458008 AATTTCTGTTCGT-AAAATAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCT
1 AATTTCTGTTTGTCAAAA-AAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTC-GGACACGCT
56458072 GAGGTATTTTT
64 GAGGTATTTTT
* * *
56458083 AAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAAAGGTCAGTTGAGCCTCGGGACACGCT
1 -AATTTCTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTC-GGACACGCT
* *
56458148 GAGGTAATTTC
64 GAGGTATTTTT
* *
56458159 AATTTCTGTTTGTC--AAAAATTAACTCATATTGCGAGAGGTAAGTTGAGTCTCGGCACACATGC
1 AATTTCTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCGG-ACAC--GC
*
56458222 TGAGGTCTTTTT
63 TGAGGTATTTTT
56458234 AATTT
1 AATTT
56458239 TTGCTTTTCA
Statistics
Matches: 135, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
72 2 0.01
73 38 0.28
75 29 0.21
76 62 0.46
77 4 0.03
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.33
Consensus pattern (74 bp):
AATTTCTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCGGACACGCTGA
GGTATTTTT
Found at i:56458190 original size:240 final size:236
Alignment explanation
Indices: 56457313--56458257 Score: 1319
Period size: 238 Copynumber: 4.0 Consensus size: 236
56457303 CTACTTTTTC
* * * *
56457313 AAAATCAGCTCATATTGCGAGAGGTGAGTTGATCCT-TGGTTCACATGCTGAGGTATTTTT-AAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTTAAAT
* * * **
56457376 TTCTGTTCGTAAAAAAAATCAACTTATATTGTTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
63 TTCTGTTTGT--CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
** * * ** * * *
56457441 TGGTTTTAATTTATGTTCATCAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCA
126 TAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCA
* * * * **
56457506 CACGCTGAGGTATTTTCAATTTCTGGTTTTTAATTTTTGTT--T-TT
191 CATGCTGAGGTCTTTTCAATTTCT-GTTTTCAATTTCTGTTCGTAAA
* * *
56457550 AAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-ATTTCAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
*
56457614 TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATT
66 TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
* *
56457679 TCAATTTCTGCTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGC
131 TCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGC
56457744 TGAGGTCTTTTCAATTTCTGTTTTTCAATTTCTGTTCGTAAAAA
196 TGAGGTCTTTTCAATTTCTG-TTTTCAATTTCTGTTCGT--AAA
*
56457788 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGTACACGCTGAGGTATTTTTAAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
* * *
56457853 TGTTT-TTAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATT
66 TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
56457917 TCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGC
131 TCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGC
56457982 TGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAA
196 TGAGGTCTTTTCAATTTCTGTT-TTCAATTTCTGTTCGTAAA
*
56458024 ATAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 A-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
* * * *
56458089 CTGTTTTTCAAAAAAATCAACTCATATTGCGAAAGGTCAGTTGAGCCTCGGGACACGCTGAGGTA
65 CTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
* * *
56458154 ATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTAAGTTGAGTCTCGGCACACA
128 ATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACA
* *
56458219 TGCTGAGGTCTTTTTAATTTTTGCTTTTCAATTTCTGTT
193 TGCTGAGGTCTTTTCAATTTCTG-TTTTCAATTTCTGTT
56458258 TTTTCAATTT
Statistics
Matches: 643, Mismatches: 50, Indels: 27
0.89 0.07 0.04
Matches are distributed among these distances:
232 1 0.00
233 137 0.21
234 3 0.00
235 25 0.04
236 4 0.01
237 102 0.16
238 208 0.32
239 14 0.02
240 147 0.23
241 2 0.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (236 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
TCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGC
TGAGGTCTTTTCAATTTCTGTTTTCAATTTCTGTTCGTAAA
Found at i:56458251 original size:14 final size:15
Alignment explanation
Indices: 56458226--56458267 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
56458216 ACATGCTGAG
* *
56458226 GTCTTTTTAATTTTT
1 GTCTTTTCAATTTCT
56458241 G-CTTTTCAATTTCT
1 GTCTTTTCAATTTCT
*
56458255 GTTTTTTCAATTT
1 GTCTTTTCAATTT
56458268 ATATTTTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.14, C:0.12, G:0.07, T:0.67
Consensus pattern (15 bp):
GTCTTTTCAATTTCT
Found at i:56459096 original size:13 final size:13
Alignment explanation
Indices: 56459078--56459106 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
56459068 TTTTCCACCA
56459078 CCAACTCCACTAG
1 CCAACTCCACTAG
56459091 CCAACTCCACTAG
1 CCAACTCCACTAG
56459104 CCA
1 CCA
56459107 CACTTTTTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.48, G:0.07, T:0.14
Consensus pattern (13 bp):
CCAACTCCACTAG
Found at i:56459101 original size:43 final size:43
Alignment explanation
Indices: 56459048--56459134 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
56459038 TTTTCCACCA
*
56459048 CCAACTCCACTAGTCACACCTTTTCCACCACCAACTCCACTAG
1 CCAACTCCACTAGCCACACCTTTTCCACCACCAACTCCACTAG
*
56459091 CCAACTCCACTAGCCACACTTTTTCCACCACCAACTCCACTAG
1 CCAACTCCACTAGCCACACCTTTTCCACCACCAACTCCACTAG
56459134 C
1 C
56459135 TACTCTTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.28, C:0.47, G:0.05, T:0.21
Consensus pattern (43 bp):
CCAACTCCACTAGCCACACCTTTTCCACCACCAACTCCACTAG
Found at i:56459125 original size:30 final size:30
Alignment explanation
Indices: 56459091--56459243 Score: 198
Period size: 30 Copynumber: 5.1 Consensus size: 30
56459081 ACTCCACTAG
56459091 CCAACTCCACTAGCCACACTTTTTCCACCA
1 CCAACTCCACTAGCCACACTTTTTCCACCA
* *
56459121 CCAACTCCACTAGCTACTCTTTTTCCACCA
1 CCAACTCCACTAGCCACACTTTTTCCACCA
*
56459151 CCAACTCCACTAGCCACACCTTTTCCACCA
1 CCAACTCCACTAGCCACACTTTTTCCACCA
* ** **
56459181 CCAAATCCACTAGCCACACTTGCTCCATTA
1 CCAACTCCACTAGCCACACTTTTTCCACCA
* * **
56459211 CCTACTCCACTAACCACACTTGCTCCACCA
1 CCAACTCCACTAGCCACACTTTTTCCACCA
56459241 CCA
1 CCA
56459244 CTTGTACCTA
Statistics
Matches: 106, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 106 1.00
ACGTcount: A:0.27, C:0.46, G:0.04, T:0.23
Consensus pattern (30 bp):
CCAACTCCACTAGCCACACTTTTTCCACCA
Found at i:56459145 original size:73 final size:73
Alignment explanation
Indices: 56459026--56459166 Score: 239
Period size: 73 Copynumber: 1.9 Consensus size: 73
56459016 ACTTTTCTCA
*
56459026 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGTCACACCTTTTCCACCACCAACTCCACTAG
1 ACTAGCCACACTTTTTCCACCACCAACTCCACTAGTCACACCTTTTCCACCACCAACTCCACTAG
56459091 CCAACTCC
66 CCAACTCC
* *
56459099 ACTAGCCACACTTTTTCCACCACCAACTCCACTAG-CTACTCTTTTTCCACCACCAACTCCACTA
1 ACTAGCCACACTTTTTCCACCACCAACTCCACTAGTC-ACACCTTTTCCACCACCAACTCCACTA
56459163 GCCA
65 GCCA
56459167 CACCTTTTCC
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
72 1 0.02
73 63 0.98
ACGTcount: A:0.26, C:0.45, G:0.04, T:0.24
Consensus pattern (73 bp):
ACTAGCCACACTTTTTCCACCACCAACTCCACTAGTCACACCTTTTCCACCACCAACTCCACTAG
CCAACTCC
Found at i:56459862 original size:25 final size:25
Alignment explanation
Indices: 56459741--56459956 Score: 101
Period size: 25 Copynumber: 8.5 Consensus size: 25
56459731 TTGTTATTAT
*
56459741 TATATTTCTTAATATTATATTA--TA
1 TATATTT-TTAATACTATATTATGTA
* *
56459765 TATATTCTTT--TAATATATTA-G-G
1 TATATT-TTTAATACTATATTATGTA
* * *
56459787 TATATTTTAAATTCTATATTACGTATA
1 TATATTTTTAATACTATATTA--TGTA
* *
56459814 TATATATATTTTATACTATTTTATGTA
1 TATAT-T-TTTAATACTATATTATGTA
* * *
56459841 TATATCTTTAATATTATATTATTTATATATA
1 TATAT-TTT--TA--ATACTATAT-TATGTA
*
56459872 TATATTTTTACAT-CTATCTTATGTA
1 TATATTTTTA-ATACTATATTATGTA
*
56459897 TATA-TCTT-A-ACTATATTATGTA
1 TATATTTTTAATACTATATTATGTA
* *
56459919 TGTATTTTTAACACTATATTATGTA
1 TATATTTTTAATACTATATTATGTA
*
56459944 CATATTTTTAATA
1 TATATTTTTAATA
56459957 TTATCACGTA
Statistics
Matches: 146, Mismatches: 27, Indels: 37
0.70 0.13 0.18
Matches are distributed among these distances:
21 2 0.01
22 30 0.21
23 11 0.08
24 12 0.08
25 33 0.23
26 6 0.04
27 16 0.11
28 4 0.03
29 11 0.08
30 11 0.08
31 10 0.07
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (25 bp):
TATATTTTTAATACTATATTATGTA
Found at i:56459896 original size:56 final size:54
Alignment explanation
Indices: 56459801--56459960 Score: 154
Period size: 54 Copynumber: 3.1 Consensus size: 54
56459791 TTTTAAATTC
* *
56459801 TATATTACGTATATATATATATTTTATACTATTTTATGTATATATCTTTAATAT
1 TATATTACGTATATATATATATTTTACACTATCTTATGTATATATCTTTAATAT
** *
56459855 TATATTATTTATATATATATATTTTTACATCTATCTTATGTATATATC-TT-A-AC
1 TATATTACGTATATATATATA-TTTTACA-CTATCTTATGTATATATCTTTAATAT
* * * * * *
56459908 TATATTA--TGTATGTAT-T-TTTAACACTATATTATGTACATATTTTTAATAT
1 TATATTACGTATATATATATATTTTACACTATCTTATGTATATATCTTTAATAT
56459958 TAT
1 TAT
56459961 CACGTATTTA
Statistics
Matches: 89, Mismatches: 12, Indels: 14
0.77 0.10 0.12
Matches are distributed among these distances:
47 15 0.17
48 8 0.09
49 1 0.01
50 5 0.06
51 7 0.08
53 8 0.09
54 20 0.22
55 8 0.09
56 17 0.19
ACGTcount: A:0.34, C:0.07, G:0.04, T:0.55
Consensus pattern (54 bp):
TATATTACGTATATATATATATTTTACACTATCTTATGTATATATCTTTAATAT
Found at i:56459898 original size:29 final size:28
Alignment explanation
Indices: 56459799--56459901 Score: 81
Period size: 29 Copynumber: 3.6 Consensus size: 28
56459789 TATTTTAAAT
*
56459799 TCTATATTACGTATATATATATATTTTATA
1 TCTAT-TTATGTATATATATAT-TTTTATA
*
56459829 -CTATTTTATGTATATATCT-TTAATATTATA
1 TCTA-TTTATGTATATATATATT--T-TTATA
*
56459859 T-TATTTA--TATATATATATTTTTACA
1 TCTATTTATGTATATATATATTTTTATA
56459884 TCTATCTTATGTATATAT
1 TCTAT-TTATGTATATAT
56459902 CTTAACTATA
Statistics
Matches: 59, Mismatches: 4, Indels: 21
0.70 0.05 0.25
Matches are distributed among these distances:
25 5 0.08
26 4 0.07
27 12 0.20
28 3 0.05
29 27 0.46
30 8 0.14
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.56
Consensus pattern (28 bp):
TCTATTTATGTATATATATATTTTTATA
Found at i:56459975 original size:48 final size:47
Alignment explanation
Indices: 56459874--56459975 Score: 109
Period size: 47 Copynumber: 2.1 Consensus size: 47
56459864 TATATATATA
* * * *
56459874 TATTTTTACATCTATCTTATGTATATATCTTAACTATATTATGTATG
1 TATTTTTACATCTATATTATGTACATATCTTAACTATATCACGTATG
* *
56459921 TATTTTTAACA-CTATATTATGTACATATTTTTAA-TATTATCACGTATT
1 TATTTTT-ACATCTATATTATGTACATA-TCTTAACTA-TATCACGTATG
56459969 TATTTTT
1 TATTTTT
56459976 TTATATATGT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
47 23 0.50
48 23 0.50
ACGTcount: A:0.30, C:0.10, G:0.05, T:0.55
Consensus pattern (47 bp):
TATTTTTACATCTATATTATGTACATATCTTAACTATATCACGTATG
Found at i:56460138 original size:16 final size:15
Alignment explanation
Indices: 56460114--56460161 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
56460104 TAATTATTAT
*
56460114 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
56460130 TATTTTAATATTTTA
1 TATTTTAATATTTTA
56460145 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
56460161 T
1 T
56460162 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:56460149 original size:7 final size:8
Alignment explanation
Indices: 56460114--56460165 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
56460104 TAATTATTAT
*
56460114 TATTCTAA
1 TATTTTAA
*
56460122 TATTTTGA
1 TATTTTAA
56460130 TATTTTAA
1 TATTTTAA
56460138 TATTTT-A
1 TATTTTAA
56460145 TATTTTATA
1 TATTTTA-A
*
56460154 TATTTTAT
1 TATTTTAA
56460162 TATT
1 TATT
56460166 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:56461531 original size:2 final size:2
Alignment explanation
Indices: 56461526--56461565 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
56461516 AACAAAAGAA
56461526 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
56461566 GAATAAGGTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:56461898 original size:31 final size:31
Alignment explanation
Indices: 56461863--56461924 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
56461853 ACCGAATCTG
56461863 GCGTGTCACATTGAAGTGTTTTTCGAAAACC
1 GCGTGTCACATTGAAGTGTTTTTCGAAAACC
56461894 GCGTGTCACATTGAAGTGTTTTTCGAAAACC
1 GCGTGTCACATTGAAGTGTTTTTCGAAAACC
56461925 ATGTTTTCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (31 bp):
GCGTGTCACATTGAAGTGTTTTTCGAAAACC
Found at i:56462778 original size:28 final size:27
Alignment explanation
Indices: 56462726--56462778 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
56462716 CTATTCAGAA
* *
56462726 ATCAGTGTTAACTAGGCCTTAGCCCAT
1 ATCAGTATTAACTAGGCCATAGCCCAT
*
56462753 ATCAGTATTAATCTGGGCCATAGCCC
1 ATCAGTATTAA-CTAGGCCATAGCCC
56462779 CTTACAGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (27 bp):
ATCAGTATTAACTAGGCCATAGCCCAT
Found at i:56462863 original size:60 final size:59
Alignment explanation
Indices: 56462740--56462874 Score: 157
Period size: 60 Copynumber: 2.2 Consensus size: 59
56462730 GTGTTAACTA
* *
56462740 GGCCTTAGCCCATATCAGTATTAATCTGGGCCATAGCCCCTTACAGTAACAGAGTATACTG
1 GGCC-TAGCCCATATCAGTATCAATCTGGGCCATAGCCCATTACAGT-ACAGAGTATACTG
* * *
56462801 GGCCTAGCCCATATCAGTATCAATCTGGGTCGTAGCCCTATTACAAGT-C-GAGATATATTG
1 GGCCTAGCCCATATCAGTATCAATCTGGGCCATAGCCC-ATTAC-AGTACAGAG-TATACTG
*
56462861 GGCCTTGCCCATAT
1 GGCCTAGCCCATAT
56462875 TAACACAGTT
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
59 3 0.05
60 51 0.78
61 8 0.12
62 3 0.05
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (59 bp):
GGCCTAGCCCATATCAGTATCAATCTGGGCCATAGCCCATTACAGTACAGAGTATACTG
Found at i:56462892 original size:20 final size:20
Alignment explanation
Indices: 56462867--56462912 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
56462857 ATTGGGCCTT
56462867 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
56462887 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
56462906 GCCCATA
1 GCCCATA
56462913 ACAGAACAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:56465101 original size:23 final size:25
Alignment explanation
Indices: 56465046--56465102 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 25
56465036 TGAAAATTTC
56465046 AAATACAATAATATATATATGTTCCT
1 AAAT-CAATAATATATATATGTTCCT
56465072 -AAT-AATAAT-TATA-AT-TTCCAT
1 AAATCAATAATATATATATGTTCC-T
56465093 AAATCAATAA
1 AAATCAATAA
56465103 AAATAGATGC
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
20 4 0.14
21 3 0.11
22 7 0.25
23 11 0.39
25 3 0.11
ACGTcount: A:0.51, C:0.11, G:0.02, T:0.37
Consensus pattern (25 bp):
AAATCAATAATATATATATGTTCCT
Found at i:56467711 original size:2 final size:2
Alignment explanation
Indices: 56467704--56467741 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
56467694 GTTGTTCTAA
56467704 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
56467742 CGTATGAACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56469292 original size:41 final size:41
Alignment explanation
Indices: 56469247--56469325 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 41
56469237 GGCTACATAT
*
56469247 GGCACTTAGTGTACAAGGTTCA-AATAGCTTCAGATATGAAA
1 GGCACTTAGTGTACAAGATT-ATAATAGCTTCAGATATGAAA
* * *
56469288 GGCACTTAGTGTGCGAGATTATAATAGCTTCAGCTATG
1 GGCACTTAGTGTACAAGATTATAATAGCTTCAGATATG
56469326 CTTTAGCACT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 1 0.03
41 32 0.97
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (41 bp):
GGCACTTAGTGTACAAGATTATAATAGCTTCAGATATGAAA
Found at i:56470075 original size:13 final size:13
Alignment explanation
Indices: 56470057--56470082 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
56470047 TATGTGAGTT
56470057 TGATGATTTGGTA
1 TGATGATTTGGTA
56470070 TGATGATTTGGTA
1 TGATGATTTGGTA
56470083 AGTTTTTAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (13 bp):
TGATGATTTGGTA
Found at i:56475059 original size:33 final size:34
Alignment explanation
Indices: 56475016--56475093 Score: 115
Period size: 33 Copynumber: 2.3 Consensus size: 34
56475006 AGCTTTACTG
*
56475016 GGCCTAAGCCCTATTCAGAAAT-AGTA-TTAACTA
1 GGCCTTAGCCCTATTCAGAAATCAG-AGTTAACTA
*
56475049 GGCCTTAGCCCTATTCAGAAATCAGAGTTAACTC
1 GGCCTTAGCCCTATTCAGAAATCAGAGTTAACTA
56475083 GGCCTTAGCCC
1 GGCCTTAGCCC
56475094 ATATCAATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
33 22 0.54
34 19 0.46
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (34 bp):
GGCCTTAGCCCTATTCAGAAATCAGAGTTAACTA
Found at i:56475218 original size:60 final size:60
Alignment explanation
Indices: 56475070--56475220 Score: 150
Period size: 60 Copynumber: 2.5 Consensus size: 60
56475060 TATTCAGAAA
* * * *
56475070 TCAGAGT-TAACTCGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTT
1 TCAGAGTAT-ACTGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAACCCATTACAG-T
* * *
56475131 TCAGAGTATACTGGGCC-TAGCCTATATCAGTATCAATCTGGGCCATAACCTTATTACAAG-
1 TCAGAGTATACTGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAACC-CATTAC-AGT
*
56475191 TC-GAGATATATTGGGCCTTA-CCCATATCAA
1 TCAGAG-TATACTGGGCCTTAGCCCATATCAA
56475221 CACAGTTGGC
Statistics
Matches: 75, Mismatches: 10, Indels: 11
0.78 0.10 0.11
Matches are distributed among these distances:
59 3 0.04
60 49 0.65
61 20 0.27
62 3 0.04
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (60 bp):
TCAGAGTATACTGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAACCCATTACAGT
Found at i:56476709 original size:19 final size:19
Alignment explanation
Indices: 56476681--56476727 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
56476671 AGAGAAGAAA
*
56476681 AGAAGGAGAAAAAGAAAAT
1 AGAAGAAGAAAAAGAAAAT
56476700 AGAAGAAGAAAAAGAAAAT
1 AGAAGAAGAAAAAGAAAAT
56476719 AGAAGAAGA
1 AGAAGAAGA
56476728 GAGGAGAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.70, C:0.00, G:0.26, T:0.04
Consensus pattern (19 bp):
AGAAGAAGAAAAAGAAAAT
Found at i:56479795 original size:41 final size:42
Alignment explanation
Indices: 56479733--56479830 Score: 137
Period size: 41 Copynumber: 2.4 Consensus size: 42
56479723 CGCTCAACAT
* *
56479733 TCGAGCCCTTGCAAAAGTCCAACAAAATCGACCAAGTGATGC
1 TCGAGCCCTTGCGAAACTCCAACAAAATCGACCAAGTGATGC
* *
56479775 -CGAGCCCTTGCGAAACTCCAACAAAATCGAGCGAGTGATGC
1 TCGAGCCCTTGCGAAACTCCAACAAAATCGACCAAGTGATGC
*
56479816 TCCAGCCCTTG-GAAA
1 TCGAGCCCTTGCGAAA
56479831 AGTCCAAGTT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
41 41 0.82
42 9 0.18
ACGTcount: A:0.33, C:0.30, G:0.21, T:0.16
Consensus pattern (42 bp):
TCGAGCCCTTGCGAAACTCCAACAAAATCGACCAAGTGATGC
Found at i:56480269 original size:12 final size:12
Alignment explanation
Indices: 56480252--56480278 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
56480242 AATGTTAAAA
56480252 AAATAAATAATT
1 AAATAAATAATT
56480264 AAATAAATAATT
1 AAATAAATAATT
56480276 AAA
1 AAA
56480279 ATAACTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AAATAAATAATT
Found at i:56483806 original size:39 final size:39
Alignment explanation
Indices: 56483763--56483839 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
56483753 CCGGGCATAT
* *
56483763 TTCCAGCACGTAGCCTGCGGACCTTAAGTCCAGATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCAGATATAA
*
56483802 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCAGATATA
56483840 CATCACTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCCTAAGTCCAGATATAA
Found at i:56492163 original size:39 final size:39
Alignment explanation
Indices: 56492097--56492221 Score: 189
Period size: 39 Copynumber: 3.2 Consensus size: 39
56492087 GGACTTTAGC
* * * *
56492097 CCGGACATATTTCCAGCA-GTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
56492135 TCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
56492174 CCTGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
56492213 CCGGATATA
1 CCGGATATA
56492222 CATCACTGAA
Statistics
Matches: 78, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
38 15 0.19
39 63 0.81
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:56496179 original size:31 final size:31
Alignment explanation
Indices: 56496143--56496320 Score: 250
Period size: 31 Copynumber: 5.7 Consensus size: 31
56496133 TGTGTACAAT
56496143 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
*
56496174 GTGAAAAGTGGTAGCTTCGGCTACCTGATTA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
*
56496205 GTGAAAAATGGTAGCTTCGGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* * * *
56496236 GTGAAAAGTAGTAGTTTCGGCTACCTAATTA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* *
56496267 GTGAAAAGTGGTAGC-TCTAGCTACTTGATCA
1 GTGAAAAGTGGTAGCTTC-GGCTACCTGATCA
* *
56496298 GTGAATAGTGATAGCTTCGGCTA
1 GTGAAAAGTGGTAGCTTCGGCTA
56496321 TCGAATGTGA
Statistics
Matches: 128, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
30 2 0.02
31 124 0.97
32 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (31 bp):
GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
Done.