Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 111 of 322
Found at i:36032393 original size:100 final size:100
Alignment explanation
Indices: 36032270--36032457 Score: 306
Period size: 100 Copynumber: 1.9 Consensus size: 100
36032260 GAAGCTATCT
* **
36032270 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAAT-CTGGTACACGTAGTAGC
1 GGTACGCATACTAGCCTGCACTTAGTACTACACATAAGACCAATAATCCT-GTACACGTAGTAGC
36032334 CCGCACTTAGTACTACACACGTGATCACAATTTTCG
65 CCGCACTTAGTACTACACACGTGATCACAATTTTCG
* *
36032370 GGTACGCATACTAGCTTGCACTTAGTACTACACATAAGACCAATTATCCTGTACACGTAGTAGCC
1 GGTACGCATACTAGCCTGCACTTAGTACTACACATAAGACCAATAATCCTGTACACGTAGTAGCC
*
36032435 TGCACTTAGTACTACACACGTGA
66 CGCACTTAGTACTACACACGTGA
36032458 CCTCACCATA
Statistics
Matches: 81, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
100 79 0.98
101 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (100 bp):
GGTACGCATACTAGCCTGCACTTAGTACTACACATAAGACCAATAATCCTGTACACGTAGTAGCC
CGCACTTAGTACTACACACGTGATCACAATTTTCG
Found at i:36050200 original size:40 final size:40
Alignment explanation
Indices: 36049075--36050198 Score: 1809
Period size: 40 Copynumber: 28.1 Consensus size: 40
36049065 ATATGTGTGC
* * *
36049075 AAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCCG
1 AAGGTATTTGTGCGAATTGATATATCCGGGATAAGACTCG
* * * *
36049115 AAGGCATTTGTGCGAACTGATATATCCGGGTTTAGACTCG
1 AAGGTATTTGTGCGAATTGATATATCCGGGATAAGACTCG
* *
36049155 AAGGCATTTGTGCGAATTGATATATCCGGGATAAGACCCG
1 AAGGTATTTGTGCGAATTGATATATCCGGGATAAGACTCG
* * * * *
36049195 AAGGCATTTGTGCGAATTGATATATCGGGGTTTAGACCCG
1 AAGGTATTTGTGCGAATTGATATATCCGGGATAAGACTCG
* * * *
36049235 AAGGCATTTGTGCGAATTGATATATCTGGGCTAAGACCCG
1 AAGGTATTTGTGCGAATTGATATATCCGGGATAAGACTCG
* * * *
36049275 AAGGCATTTGTGCGAACTGATATATCCGGGTTTAGACTCG
1 AAGGTATTTGTGCGAATTGATATATCCGGGATAAGACTCG
*
36049315 AAGGCATTTGTGCGAATTGATATATCCGGGATAAGACTCG
1 AAGGTATTTGTGCGAATTGATATATCCGGGATAAGACTCG
36049355 AAGGTATTTGTGCGAATTGATATATCCGGGATAAGACTCG
1 AAGGTATTTGTGCGAATTGATATATCCGGGATAAGACTCG
*
36049395 AAGGTATTTGTGCGAATTGATATATCCGGGATAAGACCCG
1 AAGGTATTTGTGCGAATTGATATATCCGGGATAAGACTCG
36049435 AAGGTATTTGTGCGAATTGATATATCCGGGATAAGACTCG
1 AAGGTATTTGTGCGAATTGATATATCCGGGATAAGACTCG
36049475 AAGGTATTTGTGCGAATTGATATATCCGGGATAAGACTCG
1 AAGGTATTTGTGCGAATTGATATATCCGGGATAAGACTCG
36049515 AAGGTATTTGTGCGAATTGATATATCCGGGATAAGACTCG
1 AAGGTATTTGTGCGAATTGATATATCCGGGATAAGACTCG
36049555 AAGGTATTTGTGCGAATTGATATATCCGGGATAAGACTCG
1 AAGGTATTTGTGCGAATTGATATATCCGGGATAAGACTCG
36049595 AAGGTATTTGTGCGAATTGATATATCCGGGATAAGACTCG
1 AAGGTATTTGTGCGAATTGATATATCCGGGATAAGACTCG
36049635 AAGGTATTTGTGCGAATTGATATATCCGGGATAAGACTCG
1 AAGGTATTTGTGCGAATTGATATATCCGGGATAAGACTCG
36049675 AAGGTATTTGTGCGAATTGATATATCCGGGATAAGACTCG
1 AAGGTATTTGTGCGAATTGATATATCCGGGATAAGACTCG
36049715 AAGGTATTTGTGCGAATTGATATATCCGGGATAAGACTCG
1 AAGGTATTTGTGCGAATTGATATATCCGGGATAAGACTCG
36049755 AAGGTATTTGTGCGAATTGATATATCCGGGATAAGACTCG
1 AAGGTATTTGTGCGAATTGATATATCCGGGATAAGACTCG
36049795 AAGGTATTTGTGCGAATTGATATATCCGGGATAAGACTCG
1 AAGGTATTTGTGCGAATTGATATATCCGGGATAAGACTCG
36049835 AAGGTATTTGTGCGAATTGATATATCCGGGATAAGACTCG
1 AAGGTATTTGTGCGAATTGATATATCCGGGATAAGACTCG
*
36049875 AAGGTATTTGTGCGAATTGATATATCCGGGATAAGACCCG
1 AAGGTATTTGTGCGAATTGATATATCCGGGATAAGACTCG
* * *
36049915 AAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCCG
1 AAGGTATTTGTGCGAATTGATATATCCGGGATAAGACTCG
* *
36049955 AAGGCATTTGTGCGAATTGATATATCCGGGATTAGACTCG
1 AAGGTATTTGTGCGAATTGATATATCCGGGATAAGACTCG
*
36049995 AAGGCATTTGTGCGAATTGATATATCCGGGATAAGACTCG
1 AAGGTATTTGTGCGAATTGATATATCCGGGATAAGACTCG
* * *
36050035 AAGGTATTTGTGCGAATTGATATATCCGGGCTAAGACCCA
1 AAGGTATTTGTGCGAATTGATATATCCGGGATAAGACTCG
* *
36050075 AAGGCATTTGTGCGAATTGATATATCCGGGATAAGACCCG
1 AAGGTATTTGTGCGAATTGATATATCCGGGATAAGACTCG
* * * *
36050115 AAGGCAATTGTGC-AAGTTGATATATCCGGGCTAAGACCCG
1 AAGGTATTTGTGCGAA-TTGATATATCCGGGATAAGACTCG
* * * * * * *
36050155 AAGGCATTCGTGCGAGTTGCTATACCCGGGTTAAGACCCG
1 AAGGTATTTGTGCGAATTGATATATCCGGGATAAGACTCG
36050195 AAGG
1 AAGG
36050199 CAATTGAGCT
Statistics
Matches: 1035, Mismatches: 47, Indels: 4
0.95 0.04 0.00
Matches are distributed among these distances:
39 2 0.00
40 1032 1.00
41 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (40 bp):
AAGGTATTTGTGCGAATTGATATATCCGGGATAAGACTCG
Found at i:36057438 original size:40 final size:40
Alignment explanation
Indices: 36057379--36057742 Score: 602
Period size: 40 Copynumber: 9.1 Consensus size: 40
36057369 GAGCATTGGA
*
36057379 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
36057419 ATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
36057459 ATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
36057499 ATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
36057539 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
36057579 ATATATCCGGGCTAAGACCCGAAAGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
36057619 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
36057659 ATATATCCGGGCTAAAACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
36057699 ATATATCCGGGCTAAAACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
36057739 ATAT
1 ATAT
36057743 NNNNNNNNNN
Statistics
Matches: 310, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 310 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:36062018 original size:73 final size:73
Alignment explanation
Indices: 36061911--36062165 Score: 501
Period size: 73 Copynumber: 3.5 Consensus size: 73
36061901 CACAATTTCA
36061911 AGCTTCATATTCTACCATTAAAGATCAAAATAAATACATATCATTCATGGGTAAATTTTTAAACA
1 AGCTTCATATTCTACCATTAAAGATCAAAATAAATACATATCATTCATGGGTAAATTTTTAAACA
36061976 CAAACCCT
66 CAAACCCT
36061984 AGCTTCATATTCTACCATTAAAGATCAAAATAAATACATATCATTCATGGGTAAATTTTTAAACA
1 AGCTTCATATTCTACCATTAAAGATCAAAATAAATACATATCATTCATGGGTAAATTTTTAAACA
36062049 CAAACCCT
66 CAAACCCT
36062057 AGCTTCATATTCTACCATTAAAGATCAAAATAAATACATATCATTCATGGGTAAATTTTTAAACA
1 AGCTTCATATTCTACCATTAAAGATCAAAATAAATACATATCATTCATGGGTAAATTTTTAAACA
36062122 CAAACCCT
66 CAAACCCT
*
36062130 AGCTTCATATTCTACCATTAAAGATCAAAAGAAATA
1 AGCTTCATATTCTACCATTAAAGATCAAAATAAATA
36062166 GCTAGAACAT
Statistics
Matches: 181, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 181 1.00
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (73 bp):
AGCTTCATATTCTACCATTAAAGATCAAAATAAATACATATCATTCATGGGTAAATTTTTAAACA
CAAACCCT
Found at i:36066131 original size:40 final size:40
Alignment explanation
Indices: 36066087--36066168 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
36066077 TCTCGTATCA
*
36066087 TTAACGGGTAATTCTTGCAGACTTTATCAACCAAGACACT
1 TTAACGGGCAATTCTTGCAGACTTTATCAACCAAGACACT
36066127 TTAACGGGCAATTCTTGCAGACTTTATCAACCAAGACACT
1 TTAACGGGCAATTCTTGCAGACTTTATCAACCAAGACACT
36066167 TT
1 TT
36066169 TCCCCAAGGG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (40 bp):
TTAACGGGCAATTCTTGCAGACTTTATCAACCAAGACACT
Found at i:36073304 original size:13 final size:13
Alignment explanation
Indices: 36073283--36073314 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
36073273 ATATATATAT
*
36073283 GTACCGAAACAGA
1 GTACTGAAACAGA
36073296 GTACTGAAACAGA
1 GTACTGAAACAGA
36073309 GTACTG
1 GTACTG
36073315 CTCAGAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.41, C:0.19, G:0.25, T:0.16
Consensus pattern (13 bp):
GTACTGAAACAGA
Found at i:36076465 original size:49 final size:48
Alignment explanation
Indices: 36076403--36076530 Score: 152
Period size: 49 Copynumber: 2.6 Consensus size: 48
36076393 ACATCAAAGT
* * *
36076403 CGATCCCATGTCCCAAACAGGTCTTACGA-TGACTTTCATATATTGAGGC-
1 CGATGCCATGTCCCAGACAGGTCTTAC-ACTGACTCTCATATA-T-AGGCG
* * *
36076452 CGATGCCATGTCCCAGACAAGTCTTACACTGGCTCTCATCTATAGGCG
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATAGGCG
36076500 TCGATGCCATGTCCCAGACAGGTCTTACACT
1 -CGATGCCATGTCCCAGACAGGTCTTACACT
36076531 AGCTTTTATA
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
47 4 0.06
48 2 0.03
49 63 0.91
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATAGGCG
Found at i:36076620 original size:46 final size:46
Alignment explanation
Indices: 36076450--36076721 Score: 171
Period size: 46 Copynumber: 5.7 Consensus size: 46
36076440 ATATATTGAG
* * *
36076450 GCCGATGCCATGTCCCAGACAAGTCTTACACTGGCTCTC--ATCTATAG
1 GCCGATG-CATGTCCCAGACATGTCTTACACTAGCTCTCGTATC-A-AT
* * ** * *
36076497 GCGTCGATGCCATGTCCCAGACAGGTCTTACACTAGCTTTTATATCTCGAG
1 GC--CGATG-CATGTCCCAGACATGTCTTACACTAGCTCTCGTA--TCAAT
** * *
36076548 GATGATGCATGTCCTAGATATGTCTTACACTAGCTCTCGTATCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTATCAAT
* * * *
36076594 GCCGATGGATGTCCCAGACATGTCTTACACTGGCT-T-GTATATCTTGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCG--TATC--AAT
* * *
36076642 GCCGATGCATGTCCTAGACATGTCTTACACTGGCTCCCG--T-AAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTATCAAT
*
36076685 GTCGCTGATGCATGTCCCAGACGTGTCTTACACTAGC
1 G-C-C-GATGCATGTCCCAGACATGTCTTACACTAGC
36076722 ACACATATCA
Statistics
Matches: 179, Mismatches: 31, Indels: 31
0.74 0.13 0.13
Matches are distributed among these distances:
43 2 0.01
44 2 0.01
45 2 0.01
46 65 0.36
47 2 0.01
48 62 0.35
49 37 0.21
50 1 0.01
51 4 0.02
53 2 0.01
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTATCAAT
Found at i:36076673 original size:48 final size:48
Alignment explanation
Indices: 36076409--36076676 Score: 212
Period size: 48 Copynumber: 5.6 Consensus size: 48
36076399 AAGTCGATCC
* * * *
36076409 CATGTCCCAAACAGGTCTTACGA-TGACTT-TCATATATTGAGGCCGATG
1 CATGTCCCAGACATGTCTTAC-ACTGGCTTGT-ATATCTTGAGGCCGATG
* * *
36076457 CCATGTCCCAGACAAGTCTTACACTGGC-TCT-CATCTAT-AGGCGTCGATG
1 -CATGTCCCAGACATGTCTTACACTGGCTTGTATATCT-TGAGGC--CGATG
* * * * **
36076506 CCATGTCCCAGACAGGTCTTACACTAGCTTTTATATCTCGAGGATGATG
1 -CATGTCCCAGACATGTCTTACACTGGCTTGTATATCTTGAGGCCGATG
* * * * *
36076555 CATGTCCTAGATATGTCTTACACTAGCTCTCG--TATC--AATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCT-T-GTATATCTTGAGGCCGATG
*
36076601 GATGTCCCAGACATGTCTTACACTGGCTTGTATATCTTGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTTGTATATCTTGAGGCCGATG
*
36076649 CATGTCCTAGACATGTCTTACACTGGCT
1 CATGTCCCAGACATGTCTTACACTGGCT
36076677 CCCGTAATGT
Statistics
Matches: 177, Mismatches: 28, Indels: 29
0.76 0.12 0.12
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 34 0.19
47 7 0.04
48 66 0.37
49 59 0.33
50 2 0.01
51 7 0.04
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.30
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTGGCTTGTATATCTTGAGGCCGATG
Found at i:36076730 original size:94 final size:94
Alignment explanation
Indices: 36076439--36076730 Score: 288
Period size: 94 Copynumber: 3.1 Consensus size: 94
36076429 CGATGACTTT
* * * * *
36076439 CATATATTGAGGCCGATGCCATGTCCCAGACAAGTCTTACACTGGCTCTCATCTATAG-GCGTCG
1 CATATCTTGAGGCCGATG-CATGTCCTAGACATGTCTTACACTGGCTCTCGTCAAT-GCGC-T-G
*
36076503 ATGCCATGTCCCAGACAG-GTCTTACACTAGCTTT
62 ATG-CATGTCCCAGAC-GTGTCTTACACTAGCTTA
* * ** * *
36076537 TATATCTCGAGGATGATGCATGTCCTAGATATGTCTTACACTAGCTCTCGTATCAATGC-C-GAT
1 CATATCTTGAGGCCGATGCATGTCCTAGACATGTCTTACACTGGCTCTCG--TCAATGCGCTGAT
* * * *
36076600 GGATGTCCCAGACATGTCTTACACTGGCTTG
64 GCATGTCCCAGACGTGTCTTACACTAGCTTA
* *
36076631 TATATCTTGAGGCCGATGCATGTCCTAGACATGTCTTACACTGGCTCCCGT-AATGTCGCTGATG
1 CATATCTTGAGGCCGATGCATGTCCTAGACATGTCTTACACTGGCTCTCGTCAATG-CGCTGATG
**
36076695 CATGTCCCAGACGTGTCTTACACTAGCACA
65 CATGTCCCAGACGTGTCTTACACTAGCTTA
36076725 CATATC
1 CATATC
36076731 ACCCAATGTC
Statistics
Matches: 159, Mismatches: 28, Indels: 18
0.78 0.14 0.09
Matches are distributed among these distances:
91 4 0.03
92 2 0.01
93 1 0.01
94 102 0.64
95 4 0.03
97 27 0.17
98 15 0.09
99 4 0.03
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (94 bp):
CATATCTTGAGGCCGATGCATGTCCTAGACATGTCTTACACTGGCTCTCGTCAATGCGCTGATGC
ATGTCCCAGACGTGTCTTACACTAGCTTA
Found at i:36085682 original size:42 final size:39
Alignment explanation
Indices: 36085636--36085782 Score: 188
Period size: 40 Copynumber: 3.6 Consensus size: 39
36085626 GATAACTCGT
*
36085636 ACACTAAGTGCCAATACATAGTCGAAGCTATTAT-AATCTCGC
1 ACACTAAGTGCC-ATACATAGCCGAAGCTATT-TGAA--TCGC
*
36085678 ACACTAAGTGCCATATATAGCCGAAGCTATTTCGAATCGC
1 ACACTAAGTGCCATACATAGCCGAAGCTATTT-GAATCGC
* *
36085718 ACACTGAGTGCCATATATAGCCGAAGCTATCTTGAATCGC
1 ACACTAAGTGCCATACATAGCCGAAGCTAT-TTGAATCGC
*
36085758 TCACTAAGTGCCATACATAGCCGAA
1 ACACTAAGTGCCATACATAGCCGAA
36085783 TTGTCAACAA
Statistics
Matches: 96, Mismatches: 6, Indels: 8
0.87 0.05 0.07
Matches are distributed among these distances:
40 63 0.66
41 19 0.20
42 14 0.15
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.24
Consensus pattern (39 bp):
ACACTAAGTGCCATACATAGCCGAAGCTATTTGAATCGC
Found at i:36087241 original size:45 final size:45
Alignment explanation
Indices: 36087189--36087275 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
36087179 TATGTAATCT
*
36087189 GAACTCATTGAGTTATGGTCTGAGTTCATGATATATGTGACATCC
1 GAACTCATTGAGTTATGGTCTAAGTTCATGATATATGTGACATCC
* *
36087234 GAACTCATTGAGTTGTGGTCTAAGTTCGTGATATATGTGACA
1 GAACTCATTGAGTTATGGTCTAAGTTCATGATATATGTGACA
36087276 CATGTTTTGG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (45 bp):
GAACTCATTGAGTTATGGTCTAAGTTCATGATATATGTGACATCC
Found at i:36094126 original size:48 final size:48
Alignment explanation
Indices: 36094055--36094420 Score: 265
Period size: 48 Copynumber: 7.6 Consensus size: 48
36094045 ATCCAAATGT
* * * * * * * *
36094055 CGATGCCATATCCCGGATATGGTCTTATACAAAATCTCATGTCAGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACAGAATCACATATCAGCGC
* *
36094103 CGATGCCATGTCCCAGACATGGTCTTACACTAGCA-CACACATCAGCGC
1 CGATGCCATGTCCCAGACATGGTCTTACAC-AGAATCACATATCAGCGC
* * * * *
36094151 CGATGCCATGTCCCAGACATGTTATTACACTGACTCACATATCCA-TGC
1 CGATGCCATGTCCCAGACATGGTCTTACACAGAATCACATAT-CAGCGC
* ** *
36094199 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATTTC-GACGC
1 CGATGCCATGTCCCAGACATGGTCTTACACAGAATCACATATCAG-CGC
* ** * * * *
36094247 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATTTTAACAC
1 CGATGCCATGTCCCAGACATGGTCTTACACAGAATCACATATCAGCGC
* * * * ** * * *
36094295 CGATACCATATCCCAGATATGGTCTTACACTGGCTTACACATCAATC-C
1 CGATGCCATGTCCCAGACATGGTCTTACACAGAATCACATATC-AGCGC
* * * * ** * *
36094343 CGATGCCATGTCCTAGATATGGTCTTATACGGGGTCTCATATC-GATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACAGAATCACATATCAG-CGC
36094391 CGATGCCATGTCCCAGACATGGTCTTACAC
1 CGATGCCATGTCCCAGACATGGTCTTACAC
36094421 GGGACCTTAT
Statistics
Matches: 262, Mismatches: 47, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
47 2 0.01
48 254 0.97
49 6 0.02
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACAGAATCACATATCAGCGC
Found at i:36094423 original size:48 final size:48
Alignment explanation
Indices: 36094100--36094420 Score: 381
Period size: 48 Copynumber: 6.7 Consensus size: 48
36094090 CTCATGTCAG
* * * *
36094100 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACACATCAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAA
* * * * *
36094148 CGCCGATGCCATGTCCCAGACATGTTATTACACTGACTCACATATCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAA
* *
36094196 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATTTCGA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAA
* * *
36094244 CGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATTTTAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAA
** * * * * *
36094292 CACCGATACCATATCCCAGATATGGTCTTACACTGGCTTACACATCAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAA
* * * * * * * *
36094340 TCCCGATGCCATGTCCTAGATATGGTCTTATACGGGGTCTCATATCGA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAA
36094388 TGCCGATGCCATGTCCCAGACATGGTCTTACAC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACAC
36094421 GGGACCTTAT
Statistics
Matches: 231, Mismatches: 42, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 231 1.00
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAA
Found at i:36101485 original size:33 final size:33
Alignment explanation
Indices: 36101447--36101514 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
36101437 CAAGTTGACA
36101447 GATCCATTTATTTATAAACTATTAGTATGCTTT
1 GATCCATTTATTTATAAACTATTAGTATGCTTT
36101480 GATCCATTTATTTATAAACTATTAGTATGCTTT
1 GATCCATTTATTTATAAACTATTAGTATGCTTT
36101513 GA
1 GA
36101515 ATATTGAGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.47
Consensus pattern (33 bp):
GATCCATTTATTTATAAACTATTAGTATGCTTT
Found at i:36105246 original size:57 final size:58
Alignment explanation
Indices: 36105185--36105296 Score: 163
Period size: 58 Copynumber: 1.9 Consensus size: 58
36105175 AAATTCACAT
* *
36105185 ACCTGTATTTGGCCCATTAAGCCC-AATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCAAATC
* * * *
36105242 ACCTGTATATGGCCCATTAGGCCCAAATCACATTTATATGGCTCGTTAGGCCCAA
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCAA
36105297 CCACATTCAA
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 22 0.46
58 26 0.54
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (58 bp):
ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCAAATC
Found at i:36105251 original size:29 final size:29
Alignment explanation
Indices: 36105188--36105296 Score: 132
Period size: 29 Copynumber: 3.8 Consensus size: 29
36105178 TTCACATACC
* * *
36105188 TGTATTTGGCCCATTAAGCCC-AATCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
*
36105216 T-TCATATGGCCCATTAGGCCCAAATCACC
1 TGT-ATATGGCCCATTAGGCCCAAATCACA
36105245 TGTATATGGCCCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* * *
36105274 TTTATATGGCTCGTTAGGCCCAA
1 TGTATATGGCCCATTAGGCCCAA
36105297 CCACATTCAA
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
27 1 0.01
28 17 0.24
29 51 0.73
30 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:36106841 original size:16 final size:16
Alignment explanation
Indices: 36106820--36106851 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
36106810 ATGTTTGGGA
36106820 TTTCAGGATTTTTGAG
1 TTTCAGGATTTTTGAG
36106836 TTTCAGGATTTTTGAG
1 TTTCAGGATTTTTGAG
36106852 GCGTTACAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (16 bp):
TTTCAGGATTTTTGAG
Found at i:36109575 original size:29 final size:28
Alignment explanation
Indices: 36109487--36109590 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 28
36109477 GGTCGACTAA
* *
36109487 GCCCAATCATATTCATATGGCCCATTAG
1 GCCCAATCACATTTATATGGCCCATTAG
* * * *
36109515 GCACAAATCACCTGTATATGGCCCATTGG
1 GC-CCAATCACATTTATATGGCCCATTAG
*
36109544 GCCCAAATCACATTTATGTGGCCCATTAG
1 GCCC-AATCACATTTATATGGCCCATTAG
* *
36109573 GCCCAGTCACATTCATAT
1 GCCCAATCACATTTATAT
36109591 TCATGCTCAC
Statistics
Matches: 60, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
28 14 0.23
29 46 0.77
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (28 bp):
GCCCAATCACATTTATATGGCCCATTAG
Found at i:36111079 original size:16 final size:16
Alignment explanation
Indices: 36111058--36111090 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
36111048 GAAAGTTCGA
36111058 GATTTCAAGATTTTTG
1 GATTTCAAGATTTTTG
*
36111074 GATTTCGAGATTTTTG
1 GATTTCAAGATTTTTG
36111090 G
1 G
36111091 GGTGTTACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.06, G:0.24, T:0.48
Consensus pattern (16 bp):
GATTTCAAGATTTTTG
Found at i:36113406 original size:40 final size:40
Alignment explanation
Indices: 36113319--36113536 Score: 264
Period size: 40 Copynumber: 5.5 Consensus size: 40
36113309 TAGATGATAA
* * *
36113319 CCGGGCTGAGTCCCGAAGGCATTTTGTGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCA-TTTGTGCGAGTTACTA-TAT
* * * *
36113360 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
36113400 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
36113440 CCGGACTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
36113480 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
36113519 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
36113537 TACTTGGCTT
Statistics
Matches: 155, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
38 15 0.10
39 15 0.10
40 106 0.68
41 19 0.12
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:36117645 original size:9 final size:9
Alignment explanation
Indices: 36117625--36117658 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
36117615 AACTATGTTG
36117625 TTGTGATATT
1 TTGTG-TATT
36117635 TTGTGTATT
1 TTGTGTATT
*
36117644 TTGTGCATT
1 TTGTGTATT
36117653 TTGTGT
1 TTGTGT
36117659 TTTATGCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 17 0.77
10 5 0.23
ACGTcount: A:0.12, C:0.03, G:0.24, T:0.62
Consensus pattern (9 bp):
TTGTGTATT
Found at i:36124177 original size:40 final size:40
Alignment explanation
Indices: 36124088--36124271 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
36124078 AATAATGATG
* *
36124088 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
36124126 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
36124167 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
36124206 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
36124245 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
36124272 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
39 54 0.44
40 61 0.49
41 9 0.07
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:36124209 original size:79 final size:81
Alignment explanation
Indices: 36124088--36124271 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 81
36124078 AATAATGATG
*
36124088 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAG-TCCCGAAGGCAA
36124150 TTGTGCGAGATACTA-A
65 TTGTGCGAGATACTATA
* * **
36124166 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAGTCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGTCCCGAAGGCA
*
36124228 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
36124246 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
36124272 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
78 10 0.11
79 58 0.64
80 23 0.25
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGTCCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:36124293 original size:79 final size:79
Alignment explanation
Indices: 36124140--36124304 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
36124130 GGACTAAGAT
* * ** *
36124140 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
36124205 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
36124219 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-C
* *
36124282 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
36124298 CCGAAGG
1 CCGAAGG
36124305 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.63
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:36131013 original size:50 final size:50
Alignment explanation
Indices: 36130938--36131037 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 50
36130928 AACCATACTT
*
36130938 GTAGGAAGTATTAAGCATATAATCGGCCCCGACATAGACATGCATATTCG
1 GTAGGAAGTATTAAGCATATAATCGGCCCCAACATAGACATGCATATTCG
*
36130988 GTAGGAAGTATTAAGCATATAATCGGTCCCAACATAGACATGCATATTCG
1 GTAGGAAGTATTAAGCATATAATCGGCCCCAACATAGACATGCATATTCG
36131038 ACCATAGGAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (50 bp):
GTAGGAAGTATTAAGCATATAATCGGCCCCAACATAGACATGCATATTCG
Found at i:36131650 original size:39 final size:40
Alignment explanation
Indices: 36131553--36131736 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
36131543 TTGAATGATG
* *
36131553 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
36131591 ATCCGGACTAAGAT-CAGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
36131632 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
36131671 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
36131710 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
36131737 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
39 52 0.43
40 61 0.50
41 9 0.07
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:36131758 original size:79 final size:79
Alignment explanation
Indices: 36131607--36131769 Score: 188
Period size: 79 Copynumber: 2.1 Consensus size: 79
36131597 ACTAAGATCA
* * ** *
36131607 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 GAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAAT
*
36131672 CCGGGTTAAGTCCC
66 CCGGGTTAAATCCC
* *
36131686 GAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTA
1 GAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTA
* *
36131749 TATCC-GGTTAAATTCC
63 AATCCGGGTTAAATCCC
36131765 GAAGG
1 GAAGG
36131770 TACGTGATTT
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 44 0.62
80 25 0.35
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (79 bp):
GAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAAT
CCGGGTTAAATCCC
Found at i:36137472 original size:331 final size:331
Alignment explanation
Indices: 36136344--36138008 Score: 3213
Period size: 331 Copynumber: 5.0 Consensus size: 331
36136334 AATAAAATAT
*
36136344 TTTTAAGTTAGGGGTATTTTGGTAAACTAATAATTAAAAGAATTAAAAAGGGAAATAAGCCAAAT
1 TTTTAAGTTAGGGGTATTTTGGTAAACTAATAATTAAAAGAATTAAAAAAGGAAATAAGCCAAAT
36136409 TAGCTATCATCTTCATTCAACCGTTTCTACCAGCAGCAACCATGGTTAAGGTTTGTTCAAACTCC
66 TAGCTATCATCTTCATTCAACCGTTTCTACCAGCAGCAACCATGGTTAAGGTTTGTTCAAACTCC
36136474 CAAGCTCGATTAGCAAGGAAAAATCGAAATTCAGGCTAAAATCGAAAAATATCAAGTTGTAGACA
131 CAAGCTCGATTAGCAAGGAAAAATCGAAATTCAGGCTAAAATCGAAAAATATCAAGTTGTAGACA
36136539 AATGGTAAAAATGGACATTTTTGCATACGAGGTAAGTTCATATGTTTTTTTAATAATGCAATGTG
196 AATGGTAAAAATGGACATTTTTGCATACGAGGTAAGTTCATATGTTTTTTTAATAATGCAATGTG
36136604 TAATTTAATGTTATTGCCTTGATATGAAATGAGATGTAAGTTCATGTGGAAATGTGGTAACATAA
261 TAATTTAATGTTATTGCCTTGATATGAAATGAGATGTAAGTTCATGTGGAAATGTGGTAACATAA
36136669 TTGTTA
326 TTGTTA
36136675 TTTTAAGTTAGGGGTATTTTGGTAAACTAATAATTAAAAGAATTAAAAAAGGAAATAAGCCAAAT
1 TTTTAAGTTAGGGGTATTTTGGTAAACTAATAATTAAAAGAATTAAAAAAGGAAATAAGCCAAAT
36136740 TAGCTATCATCTTCATTCAACCGTTTCTACCAGCAGCAACCATGGTTAAGGTTTGTTCAAACTCC
66 TAGCTATCATCTTCATTCAACCGTTTCTACCAGCAGCAACCATGGTTAAGGTTTGTTCAAACTCC
*
36136805 CAAGCTCGATTAGCAAGGAAAAATCGAAATTCAGGCTAAAATCGAAAAATATCAAGTTGTGGACA
131 CAAGCTCGATTAGCAAGGAAAAATCGAAATTCAGGCTAAAATCGAAAAATATCAAGTTGTAGAC-
*
36136870 AAATGGTAAAAATGGACATTTTTGCATACAAGGTAAGTTCATATGTTTTTTTAATAATGCAATGT
195 AAATGGTAAAAATGGACATTTTTGCATACGAGGTAAGTTCATATGTTTTTTTAATAATGCAATGT
36136935 GTAATTTAATGTTATTGCCTTGATATGAAATGAGATGTAAGTTCATGTGGAAATGTGGTAACATA
260 GTAATTTAATGTTATTGCCTTGATATGAAATGAGATGTAAGTTCATGTGGAAATGTGGTAACATA
36137000 ATTGTTA
325 ATTGTTA
36137007 TTTTAAGTTAGGGGTATTTTGGTAAACTAATAATTAAAAGAATTAAAAAAGGAAATAAGCCAAAT
1 TTTTAAGTTAGGGGTATTTTGGTAAACTAATAATTAAAAGAATTAAAAAAGGAAATAAGCCAAAT
36137072 TAGCTATCATCTTCATTCAACCGTTTCTACCAGCAGCAACCATGGTTAAGGTTTGTTCAAACTCC
66 TAGCTATCATCTTCATTCAACCGTTTCTACCAGCAGCAACCATGGTTAAGGTTTGTTCAAACTCC
36137137 CAAGCTCGATTAGCAAGGAAAAATCGAAATTCAGGCTAAAATCGAAAAATATCAAGTTGTAGACA
131 CAAGCTCGATTAGCAAGGAAAAATCGAAATTCAGGCTAAAATCGAAAAATATCAAGTTGTAGACA
36137202 AATGGTAAAAATGGACATTTTTGCATACGAGGTAAGTTCATATGTTTTTTTAATAATGCAATGTG
196 AATGGTAAAAATGGACATTTTTGCATACGAGGTAAGTTCATATGTTTTTTTAATAATGCAATGTG
36137267 TAATTTAATGTTATTGCCTTGATATGAAATGAGATGTAAGTTCATGTGGAAATGTGGTAACATAA
261 TAATTTAATGTTATTGCCTTGATATGAAATGAGATGTAAGTTCATGTGGAAATGTGGTAACATAA
36137332 TTGTTA
326 TTGTTA
36137338 TTTTAAGTTAGGGGTATTTTGGTAAACTAATAATTAAAAGAATTAAAAAAGGAAATAAGCCAAAT
1 TTTTAAGTTAGGGGTATTTTGGTAAACTAATAATTAAAAGAATTAAAAAAGGAAATAAGCCAAAT
36137403 TAGCTATCATCTTCATTCAACCGTTTCTACCAGCAGCAACCATGGTTAAGGTTTGTTCAAACTCC
66 TAGCTATCATCTTCATTCAACCGTTTCTACCAGCAGCAACCATGGTTAAGGTTTGTTCAAACTCC
36137468 CAAGCTCGATTAGCAAGGAAAAATCGAAATTCAGGCTAAAATCGAAAAATATCAAGTTGTAGACA
131 CAAGCTCGATTAGCAAGGAAAAATCGAAATTCAGGCTAAAATCGAAAAATATCAAGTTGTAGACA
36137533 AATGGTAAAAATGGACATTTTTGCATACGAGGTAAGTTCATATGTTTTTTTAATAATGCAATGTG
196 AATGGTAAAAATGGACATTTTTGCATACGAGGTAAGTTCATATGTTTTTTTAATAATGCAATGTG
* * *
36137598 TAATTTAATGTTATTGCCTTGATATTAAATGAGATGTAAGTTTATGTGGAAATATGGTAACATAA
261 TAATTTAATGTTATTGCCTTGATATGAAATGAGATGTAAGTTCATGTGGAAATGTGGTAACATAA
36137663 TTGTTA
326 TTGTTA
*
36137669 TTTTAAGTTAGGGGTATTTTGGTAAACTAATAATTAAAAGAATTAAAAAGGGAAATAAGCCAAAT
1 TTTTAAGTTAGGGGTATTTTGGTAAACTAATAATTAAAAGAATTAAAAAAGGAAATAAGCCAAAT
36137734 TAGCTATCATCTTCATTCAACCGTTTCTACCAGCAGCAACCATGGTTAAGGTTTGTTCAAACTCC
66 TAGCTATCATCTTCATTCAACCGTTTCTACCAGCAGCAACCATGGTTAAGGTTTGTTCAAACTCC
*
36137799 CAAGCTCGATTAGCAAGGAAAAATCGAAATTCAGGCTAAAATCGAAAAATATCAAGTTGTGGACA
131 CAAGCTCGATTAGCAAGGAAAAATCGAAATTCAGGCTAAAATCGAAAAATATCAAGTTGTAGAC-
* *
36137864 AAATGGTAAAAATGGACATTTTTGCATACGAGGCAAGTTCATATGATTTTTTAATAATGCAATGT
195 AAATGGTAAAAATGGACATTTTTGCATACGAGGTAAGTTCATATGTTTTTTTAATAATGCAATGT
*
36137929 GTAATTTAATGTTATTGCCTTGATATTAAATGAGATGTAAGTTCATGTGGAAATGTGGTAACATA
260 GTAATTTAATGTTATTGCCTTGATATGAAATGAGATGTAAGTTCATGTGGAAATGTGGTAACATA
36137994 ATTGTTA
325 ATTGTTA
36138001 TTTTAAGT
1 TTTTAAGT
36138009 AATTTAATGT
Statistics
Matches: 1318, Mismatches: 14, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
331 848 0.64
332 470 0.36
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.32
Consensus pattern (331 bp):
TTTTAAGTTAGGGGTATTTTGGTAAACTAATAATTAAAAGAATTAAAAAAGGAAATAAGCCAAAT
TAGCTATCATCTTCATTCAACCGTTTCTACCAGCAGCAACCATGGTTAAGGTTTGTTCAAACTCC
CAAGCTCGATTAGCAAGGAAAAATCGAAATTCAGGCTAAAATCGAAAAATATCAAGTTGTAGACA
AATGGTAAAAATGGACATTTTTGCATACGAGGTAAGTTCATATGTTTTTTTAATAATGCAATGTG
TAATTTAATGTTATTGCCTTGATATGAAATGAGATGTAAGTTCATGTGGAAATGTGGTAACATAA
TTGTTA
Found at i:36137870 original size:663 final size:663
Alignment explanation
Indices: 36136344--36138008 Score: 3224
Period size: 663 Copynumber: 2.5 Consensus size: 663
36136334 AATAAAATAT
36136344 TTTTAAGTTAGGGGTATTTTGGTAAACTAATAATTAAAAGAATTAAAAAGGGAAATAAGCCAAAT
1 TTTTAAGTTAGGGGTATTTTGGTAAACTAATAATTAAAAGAATTAAAAAGGGAAATAAGCCAAAT
36136409 TAGCTATCATCTTCATTCAACCGTTTCTACCAGCAGCAACCATGGTTAAGGTTTGTTCAAACTCC
66 TAGCTATCATCTTCATTCAACCGTTTCTACCAGCAGCAACCATGGTTAAGGTTTGTTCAAACTCC
36136474 CAAGCTCGATTAGCAAGGAAAAATCGAAATTCAGGCTAAAATCGAAAAATATCAAGTTGTAGACA
131 CAAGCTCGATTAGCAAGGAAAAATCGAAATTCAGGCTAAAATCGAAAAATATCAAGTTGTAGACA
36136539 AATGGTAAAAATGGACATTTTTGCATACGAGGTAAGTTCATATGTTTTTTTAATAATGCAATGTG
196 AATGGTAAAAATGGACATTTTTGCATACGAGGTAAGTTCATATGTTTTTTTAATAATGCAATGTG
36136604 TAATTTAATGTTATTGCCTTGATATGAAATGAGATGTAAGTTCATGTGGAAATGTGGTAACATAA
261 TAATTTAATGTTATTGCCTTGATATGAAATGAGATGTAAGTTCATGTGGAAATGTGGTAACATAA
36136669 TTGTTATTTTAAGTTAGGGGTATTTTGGTAAACTAATAATTAAAAGAATTAAAAAAGGAAATAAG
326 TTGTTATTTTAAGTTAGGGGTATTTTGGTAAACTAATAATTAAAAGAATTAAAAAAGGAAATAAG
36136734 CCAAATTAGCTATCATCTTCATTCAACCGTTTCTACCAGCAGCAACCATGGTTAAGGTTTGTTCA
391 CCAAATTAGCTATCATCTTCATTCAACCGTTTCTACCAGCAGCAACCATGGTTAAGGTTTGTTCA
36136799 AACTCCCAAGCTCGATTAGCAAGGAAAAATCGAAATTCAGGCTAAAATCGAAAAATATCAAGTTG
456 AACTCCCAAGCTCGATTAGCAAGGAAAAATCGAAATTCAGGCTAAAATCGAAAAATATCAAGTTG
*
36136864 TGGACAAAATGGTAAAAATGGACATTTTTGCATACAAGGTAAGTTCATATGTTTTTTTAATAATG
521 TAGACAAAATGGTAAAAATGGACATTTTTGCATACAAGGTAAGTTCATATGTTTTTTTAATAATG
*
36136929 CAATGTGTAATTTAATGTTATTGCCTTGATATGAAATGAGATGTAAGTTCATGTGGAAATGTGGT
586 CAATGTGTAATTTAATGTTATTGCCTTGATATGAAATGAGATGTAAGTTCATGTGGAAATATGGT
36136994 AACATAATTGTTA
651 AACATAATTGTTA
*
36137007 TTTTAAGTTAGGGGTATTTTGGTAAACTAATAATTAAAAGAATTAAAAAAGGAAATAAGCCAAAT
1 TTTTAAGTTAGGGGTATTTTGGTAAACTAATAATTAAAAGAATTAAAAAGGGAAATAAGCCAAAT
36137072 TAGCTATCATCTTCATTCAACCGTTTCTACCAGCAGCAACCATGGTTAAGGTTTGTTCAAACTCC
66 TAGCTATCATCTTCATTCAACCGTTTCTACCAGCAGCAACCATGGTTAAGGTTTGTTCAAACTCC
36137137 CAAGCTCGATTAGCAAGGAAAAATCGAAATTCAGGCTAAAATCGAAAAATATCAAGTTGTAGACA
131 CAAGCTCGATTAGCAAGGAAAAATCGAAATTCAGGCTAAAATCGAAAAATATCAAGTTGTAGACA
36137202 AATGGTAAAAATGGACATTTTTGCATACGAGGTAAGTTCATATGTTTTTTTAATAATGCAATGTG
196 AATGGTAAAAATGGACATTTTTGCATACGAGGTAAGTTCATATGTTTTTTTAATAATGCAATGTG
36137267 TAATTTAATGTTATTGCCTTGATATGAAATGAGATGTAAGTTCATGTGGAAATGTGGTAACATAA
261 TAATTTAATGTTATTGCCTTGATATGAAATGAGATGTAAGTTCATGTGGAAATGTGGTAACATAA
36137332 TTGTTATTTTAAGTTAGGGGTATTTTGGTAAACTAATAATTAAAAGAATTAAAAAAGGAAATAAG
326 TTGTTATTTTAAGTTAGGGGTATTTTGGTAAACTAATAATTAAAAGAATTAAAAAAGGAAATAAG
36137397 CCAAATTAGCTATCATCTTCATTCAACCGTTTCTACCAGCAGCAACCATGGTTAAGGTTTGTTCA
391 CCAAATTAGCTATCATCTTCATTCAACCGTTTCTACCAGCAGCAACCATGGTTAAGGTTTGTTCA
36137462 AACTCCCAAGCTCGATTAGCAAGGAAAAATCGAAATTCAGGCTAAAATCGAAAAATATCAAGTTG
456 AACTCCCAAGCTCGATTAGCAAGGAAAAATCGAAATTCAGGCTAAAATCGAAAAATATCAAGTTG
*
36137527 TAGAC-AAATGGTAAAAATGGACATTTTTGCATACGAGGTAAGTTCATATGTTTTTTTAATAATG
521 TAGACAAAATGGTAAAAATGGACATTTTTGCATACAAGGTAAGTTCATATGTTTTTTTAATAATG
* *
36137591 CAATGTGTAATTTAATGTTATTGCCTTGATATTAAATGAGATGTAAGTTTATGTGGAAATATGGT
586 CAATGTGTAATTTAATGTTATTGCCTTGATATGAAATGAGATGTAAGTTCATGTGGAAATATGGT
36137656 AACATAATTGTTA
651 AACATAATTGTTA
36137669 TTTTAAGTTAGGGGTATTTTGGTAAACTAATAATTAAAAGAATTAAAAAGGGAAATAAGCCAAAT
1 TTTTAAGTTAGGGGTATTTTGGTAAACTAATAATTAAAAGAATTAAAAAGGGAAATAAGCCAAAT
36137734 TAGCTATCATCTTCATTCAACCGTTTCTACCAGCAGCAACCATGGTTAAGGTTTGTTCAAACTCC
66 TAGCTATCATCTTCATTCAACCGTTTCTACCAGCAGCAACCATGGTTAAGGTTTGTTCAAACTCC
*
36137799 CAAGCTCGATTAGCAAGGAAAAATCGAAATTCAGGCTAAAATCGAAAAATATCAAGTTGTGGACA
131 CAAGCTCGATTAGCAAGGAAAAATCGAAATTCAGGCTAAAATCGAAAAATATCAAGTTGTAGAC-
* *
36137864 AAATGGTAAAAATGGACATTTTTGCATACGAGGCAAGTTCATATGATTTTTTAATAATGCAATGT
195 AAATGGTAAAAATGGACATTTTTGCATACGAGGTAAGTTCATATGTTTTTTTAATAATGCAATGT
*
36137929 GTAATTTAATGTTATTGCCTTGATATTAAATGAGATGTAAGTTCATGTGGAAATGTGGTAACATA
260 GTAATTTAATGTTATTGCCTTGATATGAAATGAGATGTAAGTTCATGTGGAAATGTGGTAACATA
36137994 ATTGTTATTTTAAGT
325 ATTGTTATTTTAAGT
36138009 AATTTAATGT
Statistics
Matches: 990, Mismatches: 11, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
662 325 0.33
663 665 0.67
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.32
Consensus pattern (663 bp):
TTTTAAGTTAGGGGTATTTTGGTAAACTAATAATTAAAAGAATTAAAAAGGGAAATAAGCCAAAT
TAGCTATCATCTTCATTCAACCGTTTCTACCAGCAGCAACCATGGTTAAGGTTTGTTCAAACTCC
CAAGCTCGATTAGCAAGGAAAAATCGAAATTCAGGCTAAAATCGAAAAATATCAAGTTGTAGACA
AATGGTAAAAATGGACATTTTTGCATACGAGGTAAGTTCATATGTTTTTTTAATAATGCAATGTG
TAATTTAATGTTATTGCCTTGATATGAAATGAGATGTAAGTTCATGTGGAAATGTGGTAACATAA
TTGTTATTTTAAGTTAGGGGTATTTTGGTAAACTAATAATTAAAAGAATTAAAAAAGGAAATAAG
CCAAATTAGCTATCATCTTCATTCAACCGTTTCTACCAGCAGCAACCATGGTTAAGGTTTGTTCA
AACTCCCAAGCTCGATTAGCAAGGAAAAATCGAAATTCAGGCTAAAATCGAAAAATATCAAGTTG
TAGACAAAATGGTAAAAATGGACATTTTTGCATACAAGGTAAGTTCATATGTTTTTTTAATAATG
CAATGTGTAATTTAATGTTATTGCCTTGATATGAAATGAGATGTAAGTTCATGTGGAAATATGGT
AACATAATTGTTA
Found at i:36138581 original size:58 final size:58
Alignment explanation
Indices: 36138491--36138607 Score: 207
Period size: 58 Copynumber: 2.0 Consensus size: 58
36138481 AGTGTTCAAC
36138491 GGGTAATTTGGCAAAGTATTCGTTGATGATCCCAATGAGATAAGCCACTGGTGAGTAT
1 GGGTAATTTGGCAAAGTATTCGTTGATGATCCCAATGAGATAAGCCACTGGTGAGTAT
** *
36138549 GGGTAATTTGGTGAAGTATTCGTTGATGATCCCAATGAGATAAGCCATTGGTGAGTAT
1 GGGTAATTTGGCAAAGTATTCGTTGATGATCCCAATGAGATAAGCCACTGGTGAGTAT
36138607 G
1 G
36138608 TCTTTGAGTT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.28, C:0.12, G:0.29, T:0.31
Consensus pattern (58 bp):
GGGTAATTTGGCAAAGTATTCGTTGATGATCCCAATGAGATAAGCCACTGGTGAGTAT
Found at i:36157992 original size:136 final size:136
Alignment explanation
Indices: 36157743--36158022 Score: 524
Period size: 136 Copynumber: 2.1 Consensus size: 136
36157733 ATTTACTTAT
*
36157743 TCATATTAATCAATTATCAAATCCATGTAATCAAACATATCATTATTTTATAACATAAGCATATC
1 TCAT-TTAATCAATTATCAAATCCATGTAATCAAACATATCATTATTTTATAACATAAGCACATC
36157808 CCAATGTACCACAAATAAATGACATTCATTTTACTAATTAATGCATTACATATTATAACTCAAAC
65 CCAATGTACCACAAATAAATGACATTCATTTTACTAATTAATGCATTACATATTATAACTCAAAC
36157873 ACAAACC
130 ACAAACC
36157880 TCATTTAATCAATTATCAAATCCATGTAATCAAACATATCATTATTTTATAACATAAGCACATCC
1 TCATTTAATCAATTATCAAATCCATGTAATCAAACATATCATTATTTTATAACATAAGCACATCC
*
36157945 CAATGTACCACAAATAAATGGCATTCATTTTACTAATTAATGCATTACATATTATAACTCAAACA
66 CAATGTACCACAAATAAATGACATTCATTTTACTAATTAATGCATTACATATTATAACTCAAACA
36158010 CAAACC
131 CAAACC
*
36158016 TTATTTA
1 TCATTTA
36158023 CTCCATAATC
Statistics
Matches: 140, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
136 136 0.97
137 4 0.03
ACGTcount: A:0.43, C:0.20, G:0.04, T:0.34
Consensus pattern (136 bp):
TCATTTAATCAATTATCAAATCCATGTAATCAAACATATCATTATTTTATAACATAAGCACATCC
CAATGTACCACAAATAAATGACATTCATTTTACTAATTAATGCATTACATATTATAACTCAAACA
CAAACC
Found at i:36160644 original size:27 final size:27
Alignment explanation
Indices: 36160606--36160689 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
36160596 ATACATATTT
36160606 TGTAATGGGCTTAGGCCCACCTGATTC
1 TGTAATGGGCTTAGGCCCACCTGATTC
*
36160633 TGTAATGGGCTTAGGCCCACCAGATTC
1 TGTAATGGGCTTAGGCCCACCTGATTC
* *
36160660 TGTTAATGGGCTAAGG-CCACCTGATAC
1 TG-TAATGGGCTTAGGCCCACCTGATTC
36160687 TGT
1 TGT
36160690 GTCTATGATG
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 1 0.02
27 39 0.75
28 12 0.23
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.29
Consensus pattern (27 bp):
TGTAATGGGCTTAGGCCCACCTGATTC
Found at i:36168423 original size:27 final size:27
Alignment explanation
Indices: 36168391--36168482 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
36168381 GCATCTGATA
36168391 CTGATTCTGTAATGGGCTTAGGCCCAC
1 CTGATTCTGTAATGGGCTTAGGCCCAC
*
36168418 CTGATTCTGTAATAGGCTTAGGCCCAC
1 CTGATTCTGTAATGGGCTTAGGCCCAC
* *
36168445 CAGATTCTGTTAATGGGCTAAGG-CCAC
1 CTGATTCTG-TAATGGGCTTAGGCCCAC
* *
36168472 CTAATACTGTA
1 CTGATTCTGTA
36168483 TCTATGATGG
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
26 2 0.04
27 44 0.77
28 11 0.19
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (27 bp):
CTGATTCTGTAATGGGCTTAGGCCCAC
Found at i:36179341 original size:34 final size:34
Alignment explanation
Indices: 36179303--36179391 Score: 106
Period size: 34 Copynumber: 2.6 Consensus size: 34
36179293 TACTGCACTA
* *
36179303 ATACTGTTACTAAAATGGGCTCAAACCCTAATTG
1 ATACTGTTACTAAAATGGGCTCAAACCCAAACTG
* **
36179337 ATACTGTTACTAATATGGGCTCAGGCCCAAACTG
1 ATACTGTTACTAAAATGGGCTCAAACCCAAACTG
* * *
36179371 CTGCTGTTACTGAAATGGGCT
1 ATACTGTTACTAAAATGGGCT
36179392 AAGGCCCGAA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.29
Consensus pattern (34 bp):
ATACTGTTACTAAAATGGGCTCAAACCCAAACTG
Found at i:36179397 original size:34 final size:34
Alignment explanation
Indices: 36179340--36179404 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
36179330 CTAATTGATA
*
36179340 CTGTTACTAATATGGGCTCAGGCCCAAACTGCTG
1 CTGTTACTAATATGGGCTAAGGCCCAAACTGCTG
*
36179374 CTGTTACTGAA-ATGGGCTAAGGCCCGAACTG
1 CTGTTACT-AATATGGGCTAAGGCCCAAACTG
36179405 AGACTGCAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 26 0.93
35 2 0.07
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.25
Consensus pattern (34 bp):
CTGTTACTAATATGGGCTAAGGCCCAAACTGCTG
Found at i:36184851 original size:2 final size:2
Alignment explanation
Indices: 36184844--36184870 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
36184834 GTACCATGTA
36184844 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
36184871 AACCAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:36187204 original size:21 final size:21
Alignment explanation
Indices: 36187179--36187243 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
36187169 TAGCTTTCGG
36187179 GCTTCCGTTTAGCACTTGTGT
1 GCTTCCGTTTAGCACTTGTGT
*
36187200 GCTTCAG-TTAGC-CTTCG-G-
1 GCTTCCGTTTAGCACTT-GTGT
*
36187218 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTGTGT
36187239 GCTTC
1 GCTTC
36187244 AGCTAGACTT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
18 6 0.17
19 9 0.25
20 10 0.28
21 11 0.31
ACGTcount: A:0.11, C:0.26, G:0.23, T:0.40
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTGTGT
Found at i:36187207 original size:39 final size:38
Alignment explanation
Indices: 36187161--36187261 Score: 157
Period size: 39 Copynumber: 2.6 Consensus size: 38
36187151 GCTCTGATGA
*
36187161 GCTTCAGTTAGCTTTCGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGC-TTCGGGCTTCCGTTTAGCACTTATGT
36187200 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAG-CTTCGGGCTTCCGTTTAGCACTTATGT
*
36187239 GCTTCAGCTAGACTTCGGGCTTC
1 GCTTCAGTTAG-CTTCGGGCTTC
36187262 AAATCACGAT
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
39 57 0.98
40 1 0.02
ACGTcount: A:0.12, C:0.26, G:0.25, T:0.38
Consensus pattern (38 bp):
GCTTCAGTTAGCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:36190041 original size:12 final size:12
Alignment explanation
Indices: 36190024--36190050 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
36190014 TATAGTTTTG
36190024 AAAAATAAAATA
1 AAAAATAAAATA
36190036 AAAAATAAAATA
1 AAAAATAAAATA
36190048 AAA
1 AAA
36190051 TAAAGAACAC
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAAATAAAATA
Found at i:36199288 original size:16 final size:16
Alignment explanation
Indices: 36199258--36199304 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
36199248 GAAATCTCTT
36199258 TTATTTATA--AAATA
1 TTATTTATATTAAATA
*
36199272 TTATTTATCTTAAATA
1 TTATTTATATTAAATA
36199288 TTATTTATATTAAATA
1 TTATTTATATTAAATA
36199304 T
1 T
36199305 GGTATATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 8 0.28
16 21 0.72
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (16 bp):
TTATTTATATTAAATA
Found at i:36207442 original size:23 final size:23
Alignment explanation
Indices: 36207389--36207443 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
36207379 TTTTTCGAAA
36207389 AAATTAATTAAATCTTTATAATC
1 AAATTAATTAAATCTTTATAATC
** * *
36207412 -TTTATAATTAAATCTTTGTACTC
1 AAAT-TAATTAAATCTTTATAATC
36207435 AAATTAATT
1 AAATTAATT
36207444 TGATCCCATT
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
22 1 0.04
23 22 0.92
24 1 0.04
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.47
Consensus pattern (23 bp):
AAATTAATTAAATCTTTATAATC
Found at i:36212252 original size:20 final size:22
Alignment explanation
Indices: 36212205--36212254 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 22
36212195 GTAATATATA
*
36212205 TGTTTGAATGATGAATTTATTT
1 TGTTTGAATGATGAATTTACTT
* *
36212227 TATTTGAATG-T-ACTTTACTT
1 TGTTTGAATGATGAATTTACTT
36212247 TGTTTGAA
1 TGTTTGAA
36212255 AATTGGTACA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 14 0.58
21 1 0.04
22 9 0.38
ACGTcount: A:0.26, C:0.04, G:0.16, T:0.54
Consensus pattern (22 bp):
TGTTTGAATGATGAATTTACTT
Found at i:36214330 original size:46 final size:46
Alignment explanation
Indices: 36214240--36214331 Score: 114
Period size: 46 Copynumber: 2.0 Consensus size: 46
36214230 TGTCTACAAT
* **
36214240 TATAGTGGCTTGACCACACATATCTGTTCTGGCAGCTTGGCTGCAA
1 TATAGTGGCTTGACCACACATATCTGATCTGGCAGCTTAACTGCAA
* * *
36214286 TATAGTGG-TGTGACCACATATATTTGATCTGGCAGTTTAACTGCAA
1 TATAGTGGCT-TGACCACACATATCTGATCTGGCAGCTTAACTGCAA
36214332 CTTTGGTGAC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
45 1 0.03
46 38 0.97
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (46 bp):
TATAGTGGCTTGACCACACATATCTGATCTGGCAGCTTAACTGCAA
Found at i:36217368 original size:20 final size:20
Alignment explanation
Indices: 36217320--36217370 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
36217310 AATTTGGCCT
*
36217320 TTTGA-TTTAAGATTTAAGG
1 TTTGAGTTTAAAATTTAAGG
*
36217339 TTTGGAGTTTAAAATTTAGGG
1 TTT-GAGTTTAAAATTTAAGG
36217360 TTTGAGTTTAA
1 TTTGAGTTTAA
36217371 GTTCAGGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 3 0.11
20 10 0.36
21 15 0.54
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (20 bp):
TTTGAGTTTAAAATTTAAGG
Found at i:36222321 original size:15 final size:16
Alignment explanation
Indices: 36222303--36222332 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
36222293 ATATTAATGT
36222303 TATTTAAT-TTAAAAA
1 TATTTAATATTAAAAA
36222318 TATTTAATATTAAAA
1 TATTTAATATTAAAA
36222333 TAATGCATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TATTTAATATTAAAAA
Found at i:36222475 original size:23 final size:25
Alignment explanation
Indices: 36222430--36222476 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
36222420 TTTAATTTTT
36222430 AAATTTTAATATTTGATTTTTGTTG
1 AAATTTTAATATTTGATTTTTGTTG
*
36222455 AAATTTT-TTATTT-ATTTTTGTT
1 AAATTTTAATATTTGATTTTTGTT
36222477 CACTTTAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.43
24 5 0.24
25 7 0.33
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.66
Consensus pattern (25 bp):
AAATTTTAATATTTGATTTTTGTTG
Found at i:36223032 original size:30 final size:31
Alignment explanation
Indices: 36222996--36223062 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
36222986 AACATAATAC
36222996 TAAATTT-AGCACTTAACCTTTTAAAAA-AAT
1 TAAATTTGAGCA-TTAACCTTTTAAAAAGAAT
* * *
36223026 TAAATTTGATCATTAACTTTTTAAAAAGAGT
1 TAAATTTGAGCATTAACCTTTTAAAAAGAAT
36223057 TAAATT
1 TAAATT
36223063 GTTGTTCTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 21 0.66
31 11 0.34
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.40
Consensus pattern (31 bp):
TAAATTTGAGCATTAACCTTTTAAAAAGAAT
Found at i:36223211 original size:14 final size:15
Alignment explanation
Indices: 36223182--36223214 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
36223172 TTTTATATTT
36223182 TTTTAATTTTAAATA
1 TTTTAATTTTAAATA
*
36223197 TTTTAA-TTTATATA
1 TTTTAATTTTAAATA
36223211 TTTT
1 TTTT
36223215 TTAAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTAATTTTAAATA
Found at i:36223216 original size:16 final size:16
Alignment explanation
Indices: 36223173--36223218 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 16
36223163 TTATGAACTT
36223173 TTTATAT-TTTTTTAA
1 TTTATATATTTTTTAA
* *
36223188 TTT-TAAATATTTTAA
1 TTTATATATTTTTTAA
36223203 TTTATATATTTTTTAA
1 TTTATATATTTTTTAA
36223219 AATTATTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
14 2 0.08
15 13 0.52
16 10 0.40
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTATATATTTTTTAA
Found at i:36244280 original size:24 final size:23
Alignment explanation
Indices: 36244253--36244327 Score: 66
Period size: 24 Copynumber: 3.3 Consensus size: 23
36244243 TATTAAAAAA
*
36244253 ATAAAAAATGAAAATA-ATATATAT
1 ATAAAAAA-CAAAATATATATA-AT
36244277 ATAAGAAAACAAAATATATATAAT
1 ATAA-AAAACAAAATATATATAAT
* * *
36244301 CTAAAAAA-AGAATATATA-AAA
1 ATAAAAAACAAAATATATATAAT
36244322 ATAAAA
1 ATAAAA
36244328 TTTATAATAA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
21 7 0.16
22 9 0.20
23 4 0.09
24 15 0.34
25 9 0.20
ACGTcount: A:0.69, C:0.03, G:0.04, T:0.24
Consensus pattern (23 bp):
ATAAAAAACAAAATATATATAAT
Found at i:36244829 original size:26 final size:24
Alignment explanation
Indices: 36244792--36244848 Score: 80
Period size: 26 Copynumber: 2.3 Consensus size: 24
36244782 TTTAATATCA
36244792 AAATTTTCTATTTTAAATTTAAATTT
1 AAATTTTCTATTTTAAA--TAAATTT
*
36244818 AAATTTTTTATTTTAAATAAATTT
1 AAATTTTCTATTTTAAATAAATTT
36244842 -AATTTTC
1 AAATTTTC
36244849 ACCTGACAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 6 0.21
24 7 0.24
26 16 0.55
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.58
Consensus pattern (24 bp):
AAATTTTCTATTTTAAATAAATTT
Found at i:36247937 original size:22 final size:21
Alignment explanation
Indices: 36247912--36247953 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
36247902 ATAATTGATT
*
36247912 TAAATTTTTTATGATATAAAAA
1 TAAATATTTTAT-ATATAAAAA
*
36247934 TAAATATTTTATATTTAAAA
1 TAAATATTTTATATATAAAA
36247954 TAATTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
TAAATATTTTATATATAAAAA
Found at i:36251936 original size:58 final size:58
Alignment explanation
Indices: 36251768--36251928 Score: 313
Period size: 58 Copynumber: 2.8 Consensus size: 58
36251758 TAAAATGTTG
36251768 TTGTAAAAGAATCAATAGATACCAATATATGAATTGAATGGAAAATCTTTTTATATTT
1 TTGTAAAAGAATCAATAGATACCAATATATGAATTGAATGGAAAATCTTTTTATATTT
36251826 TTGTAAAAGAATCAATAGATACCAATATATGAATTGAATGGAAAATCTTTTTATATTT
1 TTGTAAAAGAATCAATAGATACCAATATATGAATTGAATGGAAAATCTTTTTATATTT
*
36251884 TTGTAAAAGAATCAATAGATACCAATATATGAATTAAATGGAAAA
1 TTGTAAAAGAATCAATAGATACCAATATATGAATTGAATGGAAAA
36251929 AAATTTTACG
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
58 102 1.00
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.35
Consensus pattern (58 bp):
TTGTAAAAGAATCAATAGATACCAATATATGAATTGAATGGAAAATCTTTTTATATTT
Found at i:36252062 original size:26 final size:26
Alignment explanation
Indices: 36252033--36252086 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
36252023 AGGTTGACAT
* *
36252033 CAACAAAGTAGAACCATCAAATTATC
1 CAACAAAATAGAACAATCAAATTATC
*
36252059 CAACAAAATAGAACAATCAAATTTTC
1 CAACAAAATAGAACAATCAAATTATC
36252085 CA
1 CA
36252087 TTGTATGTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.52, C:0.22, G:0.06, T:0.20
Consensus pattern (26 bp):
CAACAAAATAGAACAATCAAATTATC
Found at i:36252138 original size:17 final size:17
Alignment explanation
Indices: 36252118--36252151 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
36252108 TCAACCGGGA
*
36252118 GGTATGATCAATAACAT
1 GGTATCATCAATAACAT
36252135 GGTATCATCAATAACAT
1 GGTATCATCAATAACAT
36252152 CAAGTGTGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (17 bp):
GGTATCATCAATAACAT
Found at i:36252537 original size:21 final size:21
Alignment explanation
Indices: 36252512--36252599 Score: 76
Period size: 21 Copynumber: 4.3 Consensus size: 21
36252502 TAAAGTCAAG
36252512 TACATAATATAAATAGTAATA
1 TACATAATATAAATAGTAATA
* *
36252533 TACATAACATAAATAAT-ATA
1 TACATAATATAAATAGTAATA
* * * *
36252553 AACA-ACA-ATATACA-TAACA
1 TACATA-ATATAAATAGTAATA
*
36252572 TACATTATATAAATAGTAATA
1 TACATAATATAAATAGTAATA
36252593 TACATAA
1 TACATAA
36252600 CATACATAAA
Statistics
Matches: 50, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
18 1 0.02
19 12 0.24
20 12 0.24
21 25 0.50
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.30
Consensus pattern (21 bp):
TACATAATATAAATAGTAATA
Found at i:36252549 original size:30 final size:30
Alignment explanation
Indices: 36252512--36252663 Score: 158
Period size: 30 Copynumber: 5.3 Consensus size: 30
36252502 TAAAGTCAAG
36252512 TACATAATATAAATAGTAATATACATAACA
1 TACATAATATAAATAGTAATATACATAACA
* * **
36252542 TAAATAATATAAACAACAATATACATAACA
1 TACATAATATAAATAGTAATATACATAACA
*
36252572 TACATTATATAAATAGTAATATACATAACA
1 TACATAATATAAATAGTAATATACATAACA
* *
36252602 TACATAA-A-CAATAATAA-ACTACATAACA
1 TACATAATATAAATAGTAATA-TACATAACA
* *
36252630 TAC-----ATAAATAGTATTATAAATAACA
1 TACATAATATAAATAGTAATATACATAACA
36252655 TACATAATA
1 TACATAATA
36252664 GACATACTAA
Statistics
Matches: 98, Mismatches: 16, Indels: 16
0.75 0.12 0.12
Matches are distributed among these distances:
24 1 0.01
25 17 0.17
26 1 0.01
27 1 0.01
28 19 0.19
29 1 0.01
30 58 0.59
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (30 bp):
TACATAATATAAATAGTAATATACATAACA
Found at i:36252571 original size:15 final size:15
Alignment explanation
Indices: 36252529--36252603 Score: 59
Period size: 15 Copynumber: 5.0 Consensus size: 15
36252519 TATAAATAGT
36252529 AATATACATAACATA
1 AATATACATAACATA
*
36252544 AATA-ATATAAACA-A
1 AATATACAT-AACATA
36252558 CAATATACATAACATA
1 -AATATACATAACATA
* *
36252574 CAT-TATATAA-ATA
1 AATATACATAACATA
36252587 GTAATATACATAACATA
1 --AATATACATAACATA
36252604 CATAAACAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
13 3 0.07
14 10 0.22
15 20 0.43
16 10 0.22
17 3 0.07
ACGTcount: A:0.59, C:0.12, G:0.01, T:0.28
Consensus pattern (15 bp):
AATATACATAACATA
Found at i:36252616 original size:25 final size:25
Alignment explanation
Indices: 36252550--36252661 Score: 98
Period size: 28 Copynumber: 4.2 Consensus size: 25
36252540 CATAAATAAT
*
36252550 ATAAACAACAATATACATAACATAC
1 ATAAACAATAATATACATAACATAC
*
36252575 ATTATATAAATAGTAATATACATAACATAC
1 A-TA-A-ACA-A-TAATATACATAACATAC
36252605 ATAAACAATAATAAACTACATAACATAC
1 ATAAACAATAAT--A-TACATAACATAC
* * * *
36252633 ATAAATAGTATTATAAATAACATAC
1 ATAAACAATAATATACATAACATAC
36252658 ATAA
1 ATAA
36252662 TAGACATACT
Statistics
Matches: 72, Mismatches: 7, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
25 20 0.28
26 4 0.06
27 4 0.06
28 24 0.33
29 3 0.04
30 17 0.24
ACGTcount: A:0.58, C:0.13, G:0.02, T:0.27
Consensus pattern (25 bp):
ATAAACAATAATATACATAACATAC
Found at i:36256389 original size:18 final size:18
Alignment explanation
Indices: 36256366--36256400 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
36256356 GAGTTAAACG
*
36256366 AATCGAGTTATTTGAGTT
1 AATCGAGTTATTCGAGTT
36256384 AATCGAGTTATTCGAGT
1 AATCGAGTTATTCGAGT
36256401 CAACTTGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.40
Consensus pattern (18 bp):
AATCGAGTTATTCGAGTT
Found at i:36256598 original size:32 final size:30
Alignment explanation
Indices: 36256537--36256598 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
36256527 CTTTTTCCTT
* **
36256537 AAAACTTTTACTCCTTCCCACTTTCCCCCC
1 AAAACTTTTACTCCTTCCCACCTAACCCCC
*
36256567 AAAACTTTTACTCCTCTTCCATCCTAACCCCC
1 AAAACTTTTACTCCT-TCCCA-CCTAACCCCC
36256599 CAATCTACCC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
30 15 0.58
31 4 0.15
32 7 0.27
ACGTcount: A:0.23, C:0.45, G:0.00, T:0.32
Consensus pattern (30 bp):
AAAACTTTTACTCCTTCCCACCTAACCCCC
Found at i:36256852 original size:15 final size:16
Alignment explanation
Indices: 36256832--36256861 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36256822 CCATTTATTT
36256832 TCCCTC-AAACTTTTA
1 TCCCTCAAAACTTTTA
36256847 TCCCTCAAAACTTTT
1 TCCCTCAAAACTTTT
36256862 TATTTCCCCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.40
Consensus pattern (16 bp):
TCCCTCAAAACTTTTA
Found at i:36261148 original size:28 final size:27
Alignment explanation
Indices: 36261117--36261178 Score: 79
Period size: 28 Copynumber: 2.3 Consensus size: 27
36261107 TTTATAATTT
*
36261117 TTTTCTAATTTTTATTTAAATTTAAATA
1 TTTTCTAATTTTTATTAAAATTT-AATA
* *
36261145 TTTTTTATTTTTTATTAAAATTTAATA
1 TTTTCTAATTTTTATTAAAATTTAATA
*
36261172 ATTTCTA
1 TTTTCTA
36261179 CAACTTTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 9 0.31
28 20 0.69
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (27 bp):
TTTTCTAATTTTTATTAAAATTTAATA
Found at i:36265997 original size:27 final size:27
Alignment explanation
Indices: 36265967--36266020 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
36265957 TCCTACAACC
* *
36265967 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
36265994 CATGTAACAATAATTTTCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
36266021 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.41
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:36279818 original size:27 final size:26
Alignment explanation
Indices: 36279787--36279942 Score: 159
Period size: 27 Copynumber: 5.8 Consensus size: 26
36279777 ACACCTGGTC
* *
36279787 TGTAAAATTGCTAAAATACCCCTGTTT
1 TGTAAAATTACCAAAATACCCCTG-TT
36279814 TGTAAAATTACCAAAATACCCCTAGTT
1 TGTAAAATTACCAAAATACCCCT-GTT
* *
36279841 TGTAAAGTTACCAAAATACCACTGGTT
1 TGTAAAATTACCAAAATACCCCT-GTT
* * **
36279868 TGTAAAATTACCGAAATAACCTCAATT
1 TGTAAAATTACCAAAAT-ACCCCTGTT
*
36279895 TCTAAAATTACCAAAATACCCCTGATT
1 TGTAAAATTACCAAAATACCCCTG-TT
** *
36279922 TACAAAATTACAAAAATACCC
1 TGTAAAATTACCAAAATACCC
36279943 TTGACTTTCT
Statistics
Matches: 108, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
26 4 0.04
27 99 0.92
28 5 0.05
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (26 bp):
TGTAAAATTACCAAAATACCCCTGTT
Found at i:36279870 original size:54 final size:55
Alignment explanation
Indices: 36279789--36280020 Score: 175
Period size: 54 Copynumber: 4.3 Consensus size: 55
36279779 ACCTGGTCTG
* * * * ** *
36279789 TAAAATTGCTAAAATACCCCTGTTTTGTAAAATTACCAAAATACCCCT-AGTTTG
1 TAAAATTACCAAAATACCACTGGTTTACAAAATTACCAAAATACCCCTCAGTTTC
* ** * * *
36279843 TAAAGTTACCAAAATACCACTGGTTTGTAAAATTACCGAAATA-ACCTCAATTTC
1 TAAAATTACCAAAATACCACTGGTTTACAAAATTACCAAAATACCCCTCAGTTTC
* * * * * *
36279897 TAAAATTACCAAAATACCCCTGATTTACAAAATTACAAAAATACCCTTGACTTTC
1 TAAAATTACCAAAATACCACTGGTTTACAAAATTACCAAAATACCCCTCAGTTTC
* * ** * *
36279952 TAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATA-CCCTTAGTTTG
1 T-AAAATTACCA-AAATACCACTGGTTTACAAAATTACCAAAATACCCCTCAGTTTC
* *
36280007 TAGATTTACCAAAA
1 TAAAATTACCAAAA
36280021 CACCCTTGTA
Statistics
Matches: 140, Mismatches: 33, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
53 3 0.02
54 85 0.61
55 18 0.13
56 34 0.24
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.31
Consensus pattern (55 bp):
TAAAATTACCAAAATACCACTGGTTTACAAAATTACCAAAATACCCCTCAGTTTC
Found at i:36280005 original size:27 final size:27
Alignment explanation
Indices: 36279816--36280005 Score: 118
Period size: 27 Copynumber: 7.0 Consensus size: 27
36279806 CCCTGTTTTG
* * *
36279816 TAAAATTACCAAAATACCCCTAGTTTG
1 TAAAATTACCGAAATACCCTTAGTTTC
* * * *
36279843 TAAAGTTACCAAAATACCAC-TGGTTTG
1 TAAAATTACCGAAATACC-CTTAGTTTC
* * *
36279870 TAAAATTACCGAAATAACCTCAATTTC
1 TAAAATTACCGAAATACCCTTAGTTTC
* *
36279897 TAAAATTACCAAAATACCCCT-GATTTAC
1 TAAAATTACCGAAATACCCTTAG-TTT-C
** *
36279925 -AAAATTACAAAAATACCCTTGACTTTC
1 TAAAATTACCGAAATACCCTT-AGTTTC
** * *
36279952 TAAAAATTATAGAAATACCATTGGTTTAC
1 T-AAAATTACCGAAATACCCTTAGTTT-C
*
36279981 -AAAATTACTGAAATACCCTTAGTTT
1 TAAAATTACCGAAATACCCTTAGTTT
36280006 GTAGATTTAC
Statistics
Matches: 128, Mismatches: 26, Indels: 18
0.74 0.15 0.10
Matches are distributed among these distances:
26 1 0.01
27 101 0.79
28 8 0.06
29 18 0.14
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.31
Consensus pattern (27 bp):
TAAAATTACCGAAATACCCTTAGTTTC
Found at i:36280089 original size:27 final size:27
Alignment explanation
Indices: 36280059--36280150 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
36280049 ACCCCTATTA
*
36280059 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
*
36280086 GGTAAAGTGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
36280113 GGTAAAGTGACCGTAATA-CCACTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
36280140 GGTAAAATGAC
1 GGTAAAATGAC
36280151 GAATATGCCC
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 58 0.98
28 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:36281033 original size:52 final size:51
Alignment explanation
Indices: 36280951--36281079 Score: 190
Period size: 52 Copynumber: 2.5 Consensus size: 51
36280941 GAGGAAGTGC
* * *
36280951 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCTAGTCTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTAAAAAGAGCTT-TGCCCCAGTCTACCG
*
36281003 AAAAGGGCTTATGCCCCAGTTTATTAAAAAGAGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTAAAAAGAGCTTTGCCCCAGTCTACCG
*
36281054 AAAAGGACTT-TGCCCCAG-TTATTAAA
1 AAAAGGGCTTATGCCCCAGTTTATTAAA
36281080 GAGGCTAGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
49 8 0.11
50 8 0.11
51 22 0.31
52 34 0.47
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.27
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTAAAAAGAGCTTTGCCCCAGTCTACCG
Found at i:36281042 original size:25 final size:26
Alignment explanation
Indices: 36280951--36281073 Score: 151
Period size: 26 Copynumber: 4.8 Consensus size: 26
36280941 GAGGAAGTGC
36280951 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* * **
36280977 AAAAGGGCTTATGCCCTAGTCTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
36281003 AAAAGGGCTTATGCCCCAGTTTATTA
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
36281029 AAAAGAGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
36281054 AAAAGGACTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
36281074 ATTAAAGAGG
Statistics
Matches: 82, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
25 30 0.37
26 52 0.63
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:36282561 original size:17 final size:18
Alignment explanation
Indices: 36282539--36282587 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 18
36282529 TAAAATATGG
36282539 AAATAAAAAATAAAAT-A
1 AAATAAAAAATAAAATAA
* *
36282556 AAAT-AAAAATATATTCAA
1 AAATAAAAAATAAAAT-AA
36282574 AAATAAAAAATAAA
1 AAATAAAAAATAAA
36282588 TTTAGGAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 9 0.35
17 4 0.15
18 5 0.19
19 8 0.31
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (18 bp):
AAATAAAAAATAAAATAA
Found at i:36283479 original size:13 final size:13
Alignment explanation
Indices: 36283461--36283490 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
36283451 TAGATTTTTC
36283461 CTAAATATTATCA
1 CTAAATATTATCA
*
36283474 CTAAATATTATTA
1 CTAAATATTATCA
36283487 CTAA
1 CTAA
36283491 GTAATTCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:36285855 original size:16 final size:16
Alignment explanation
Indices: 36285834--36285872 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
36285824 TTTTTGGCTA
*
36285834 GTATAGAGTGGATGGT
1 GTATAGAGTGAATGGT
*
36285850 GTATAGGGTGAATGGT
1 GTATAGAGTGAATGGT
*
36285866 ATATAGA
1 GTATAGA
36285873 CTAATCATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.38, T:0.31
Consensus pattern (16 bp):
GTATAGAGTGAATGGT
Found at i:36288361 original size:14 final size:15
Alignment explanation
Indices: 36288342--36288370 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
36288332 TACTCCAGTC
36288342 ACAGATACA-AAATA
1 ACAGATACAGAAATA
36288356 ACAGATACAGAAATA
1 ACAGATACAGAAATA
36288371 TCATGCATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.14, G:0.10, T:0.14
Consensus pattern (15 bp):
ACAGATACAGAAATA
Found at i:36288566 original size:18 final size:18
Alignment explanation
Indices: 36288543--36288577 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
36288533 AATTTTAAAA
36288543 TTATGGGCCCACATGCCC
1 TTATGGGCCCACATGCCC
36288561 TTATGGGCCCACATGCC
1 TTATGGGCCCACATGCC
36288578 TCACTCATGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.37, G:0.23, T:0.23
Consensus pattern (18 bp):
TTATGGGCCCACATGCCC
Found at i:36296690 original size:60 final size:60
Alignment explanation
Indices: 36296593--36296729 Score: 202
Period size: 60 Copynumber: 2.3 Consensus size: 60
36296583 TGACACTAAG
* * * *
36296593 TGGTGTTTAGGGTTAGATGGGTGTTTCAAACCCCATATAGTGTGTTGGGATGGTCAGAGA
1 TGGTGTGTAGGGTTGGATGGGTATTTCAAACCCCATATAGGGTGTTGGGATGGTCAGAGA
* *
36296653 TGGTGTGTAGGGTTGGATGGGTATTTCAAACCTCATATGGGGTGTTGGGATGGTCAGAGA
1 TGGTGTGTAGGGTTGGATGGGTATTTCAAACCCCATATAGGGTGTTGGGATGGTCAGAGA
*
36296713 TGGTCTGTAGCGGTTGG
1 TGGTGTGTAG-GGTTGG
36296730 GGGTGGAAAT
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
60 63 0.91
61 6 0.09
ACGTcount: A:0.19, C:0.09, G:0.39, T:0.33
Consensus pattern (60 bp):
TGGTGTGTAGGGTTGGATGGGTATTTCAAACCCCATATAGGGTGTTGGGATGGTCAGAGA
Found at i:36302859 original size:55 final size:55
Alignment explanation
Indices: 36302728--36302860 Score: 178
Period size: 55 Copynumber: 2.4 Consensus size: 55
36302718 GGTTGGTAGG
*
36302728 CACAGGCATGTCGCACGCCCGTGCTAAATTCTCAATTTCAACCACGGTGTAAAGA
1 CACAGGCATGTCGCACGCCCGTGCTAAATTCTCAATTTCAACCACAGTGTAAAGA
* * * *
36302783 CACAAGCGTGTCGCACACCCGTGCTAAATTCTCAATTTCAACCGCAGTGTAAAGA
1 CACAGGCATGTCGCACGCCCGTGCTAAATTCTCAATTTCAACCACAGTGTAAAGA
* **
36302838 TATGGGCATGTC-CAACGCCCGTG
1 CACAGGCATGTCGC-ACGCCCGTG
36302861 TTGGTTTGAC
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
54 1 0.02
55 65 0.98
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (55 bp):
CACAGGCATGTCGCACGCCCGTGCTAAATTCTCAATTTCAACCACAGTGTAAAGA
Found at i:36303561 original size:26 final size:22
Alignment explanation
Indices: 36303503--36303550 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
36303493 CGATTTGTAG
*
36303503 CCTTCATTCTTCATAGATAGGT
1 CCTTCGTTCTTCATAGATAGGT
36303525 CCTTCGTTCTTCATAGATAGGT
1 CCTTCGTTCTTCATAGATAGGT
36303547 CCTT
1 CCTT
36303551 TGTTGTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.19, C:0.25, G:0.15, T:0.42
Consensus pattern (22 bp):
CCTTCGTTCTTCATAGATAGGT
Found at i:36309621 original size:19 final size:19
Alignment explanation
Indices: 36309584--36309620 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
36309574 ACCCCTATTT
36309584 CCAAAATTTTTCATGTTTTC
1 CCAAAATTTTT-ATGTTTTC
36309604 CCAAAATTTTT-TGTTTT
1 CCAAAATTTTTATGTTTT
36309621 TTTTCATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.24, C:0.16, G:0.05, T:0.54
Consensus pattern (19 bp):
CCAAAATTTTTATGTTTTC
Found at i:36316697 original size:22 final size:22
Alignment explanation
Indices: 36316662--36316715 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
36316652 ATATTTATTA
*
36316662 AATAATGT-ATAACATTCCAGT
1 AATAATATGATAACATTCCAGT
36316683 AATAATATGATAACATTCCAGT
1 AATAATATGATAACATTCCAGT
36316705 AATAATATGAT
1 AATAATATGAT
36316716 CGATAAAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 7 0.23
22 24 0.77
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.33
Consensus pattern (22 bp):
AATAATATGATAACATTCCAGT
Found at i:36317176 original size:22 final size:21
Alignment explanation
Indices: 36317136--36317179 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
36317126 TATTTTTGAA
*
36317136 AAAATAAATTTTTAAAAAATT
1 AAAATAAATTTATAAAAAATT
*
36317157 AAAATAAATTTAATATAAAATT
1 AAAATAAATTT-ATAAAAAATT
36317179 A
1 A
36317180 TCAATATACG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
AAAATAAATTTATAAAAAATT
Found at i:36317531 original size:17 final size:16
Alignment explanation
Indices: 36317477--36317532 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
36317467 TGGACAGACT
*
36317477 TTTGTTTATGCTC-A-
1 TTTGTTTATGTTCAAC
* * *
36317491 TTTATTTATTTTCAAG
1 TTTGTTTATGTTCAAC
36317507 TTTGTTTATGTTCAAC
1 TTTGTTTATGTTCAAC
36317523 TTGTGTTTAT
1 TT-TGTTTAT
36317533 TAAGAACTTC
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
14 10 0.30
15 1 0.03
16 15 0.45
17 7 0.21
ACGTcount: A:0.18, C:0.09, G:0.12, T:0.61
Consensus pattern (16 bp):
TTTGTTTATGTTCAAC
Found at i:36327085 original size:16 final size:17
Alignment explanation
Indices: 36327066--36327102 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
36327056 GATATCATTA
36327066 TTTTAATA-T-ATTATAT
1 TTTTAATAGTAATTA-AT
36327082 TTTTAATAGTAATTAAT
1 TTTTAATAGTAATTAAT
36327099 TTTT
1 TTTT
36327103 TTAATTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 7 0.37
18 4 0.21
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
TTTTAATAGTAATTAAT
Found at i:36330666 original size:39 final size:37
Alignment explanation
Indices: 36330615--36330695 Score: 108
Period size: 39 Copynumber: 2.1 Consensus size: 37
36330605 TGGAGAAATT
*
36330615 AGAATTAGTAGGGAAAAGTTTACAAAGATGGGCAATG
1 AGAATTAGTAGGGAAAAGATTACAAAGATGGGCAATG
* * *
36330652 GGAATTCAGNTAGGGAAAGGATTATAAAGATGGGCAATG
1 AGAATT-AG-TAGGGAAAAGATTACAAAGATGGGCAATG
36330691 AGAAT
1 AGAAT
36330696 AAAAAAATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 5 0.14
38 2 0.05
39 30 0.81
ACGTcount: A:0.42, C:0.05, G:0.31, T:0.21
Consensus pattern (37 bp):
AGAATTAGTAGGGAAAAGATTACAAAGATGGGCAATG
Found at i:36339382 original size:30 final size:30
Alignment explanation
Indices: 36339348--36339414 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
36339338 CTATCTATTT
*
36339348 TTAATTTATGCTATTGTACTATTATATTAA
1 TTAATTTATGCTATTATACTATTATATTAA
*
36339378 TTAATTTATGCTCTTATACTATTATATTAA
1 TTAATTTATGCTATTATACTATTATATTAA
36339408 TTAATTT
1 TTAATTT
36339415 TTAATTTAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.55
Consensus pattern (30 bp):
TTAATTTATGCTATTATACTATTATATTAA
Found at i:36342300 original size:19 final size:19
Alignment explanation
Indices: 36342276--36342317 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
36342266 TATTTTTTTT
*
36342276 TTGTTTTTTTGGACTAATG
1 TTGTTTATTTGGACTAATG
* *
36342295 TTGTTTATTTGGATTGATG
1 TTGTTTATTTGGACTAATG
36342314 TTGT
1 TTGT
36342318 GTCGCTTGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.14, C:0.02, G:0.24, T:0.60
Consensus pattern (19 bp):
TTGTTTATTTGGACTAATG
Found at i:36342589 original size:5 final size:5
Alignment explanation
Indices: 36342573--36342603 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
36342563 CTCAAAAATT
*
36342573 TTCGA TTTGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA T
36342604 CGAATGCTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.19, C:0.16, G:0.19, T:0.45
Consensus pattern (5 bp):
TTCGA
Found at i:36342694 original size:42 final size:42
Alignment explanation
Indices: 36342640--36342793 Score: 123
Period size: 44 Copynumber: 3.6 Consensus size: 42
36342630 ATCAAATATT
* *
36342640 GATGCCATTGTCCCAAACAGGGTCTTACACGAAATTAAATAC
1 GATGCCAATGTCCCAGACAGGGTCTTACACGAAATTAAATAC
* * * *
36342682 GATGCCAATGTCCTAGATATGGTATTACACGTAAATTTCAAAT-C
1 GATGCCAATGTCCCAGACAGGGTCTTACACG-AAA-TT-AAATAC
* * * * *
36342726 GATGCCAACGTCCCAGA-TGTGGTCATACACGAAATCATATATC
1 GATGCCAATGTCCCAGACAG-GGTCTTACACGAAATTAAATA-C
* * *
36342769 AATGCCACTATCCCAGACAGGGTCT
1 GATGCCAATGTCCCAGACAGGGTCT
36342794 GACATGATAT
Statistics
Matches: 85, Mismatches: 20, Indels: 13
0.72 0.17 0.11
Matches are distributed among these distances:
41 3 0.04
42 26 0.31
43 24 0.28
44 28 0.33
45 4 0.05
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (42 bp):
GATGCCAATGTCCCAGACAGGGTCTTACACGAAATTAAATAC
Found at i:36346266 original size:21 final size:21
Alignment explanation
Indices: 36346241--36346304 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
36346231 AAAGAAACCT
36346241 ATAAGGGTTGAACAGAAGCTC
1 ATAAGGGTTGAACAGAAGCTC
* * * * * *
36346262 GTAAGAGCTGAACGGAAACCC
1 ATAAGGGTTGAACAGAAGCTC
* *
36346283 ATAAGGGTTAAACTGAAGCTC
1 ATAAGGGTTGAACAGAAGCTC
36346304 A
1 A
36346305 AAAAAGCTAA
Statistics
Matches: 30, Mismatches: 13, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.39, C:0.17, G:0.27, T:0.17
Consensus pattern (21 bp):
ATAAGGGTTGAACAGAAGCTC
Found at i:36356945 original size:10 final size:10
Alignment explanation
Indices: 36356930--36356961 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
36356920 TAATTTATGG
36356930 TACAAATTGA
1 TACAAATTGA
36356940 TACAAATTGA
1 TACAAATTGA
36356950 TACAAATTGA
1 TACAAATTGA
36356960 TA
1 TA
36356962 ATGGGTTAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.31
Consensus pattern (10 bp):
TACAAATTGA
Found at i:36356993 original size:26 final size:26
Alignment explanation
Indices: 36356957--36357064 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
36356947 TGATACAAAT
36356957 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
36356983 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
36357009 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
36357035 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
36357061 TGAT
1 TGAT
36357065 TGGAATTCAT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:36363133 original size:39 final size:40
Alignment explanation
Indices: 36362929--36363151 Score: 245
Period size: 40 Copynumber: 5.6 Consensus size: 40
36362919 TTGAATGCTG
* * * * * *
36362929 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * * *
36362969 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
36363009 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
36363049 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
36363089 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
36363128 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
36363152 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:36363171 original size:79 final size:80
Alignment explanation
Indices: 36363004--36363186 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
36362994 GTGCGAGATA
* * *
36363004 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
36363069 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
36363084 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
36363148 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
36363163 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
36363187 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:36367466 original size:13 final size:13
Alignment explanation
Indices: 36367448--36367474 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
36367438 TATGGGCCTT
36367448 GGGATAATCTAAC
1 GGGATAATCTAAC
36367461 GGGATAATCTAAC
1 GGGATAATCTAAC
36367474 G
1 G
36367475 ACTTTATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (13 bp):
GGGATAATCTAAC
Found at i:36371658 original size:38 final size:38
Alignment explanation
Indices: 36371603--36371682 Score: 133
Period size: 38 Copynumber: 2.1 Consensus size: 38
36371593 TGAGTTTGAT
* *
36371603 ACCAGGAATGAGGAGTGTAAACTCCTCGCACCACTATG
1 ACCAGGAATGAGAAGTGTAAACTCCTCGCACCACCATG
*
36371641 ACCAGGAATGAGAAGTGTAAACTCCTCGCACTACCATG
1 ACCAGGAATGAGAAGTGTAAACTCCTCGCACCACCATG
36371679 ACCA
1 ACCA
36371683 CACAATAGAG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.34, C:0.28, G:0.21, T:0.17
Consensus pattern (38 bp):
ACCAGGAATGAGAAGTGTAAACTCCTCGCACCACCATG
Found at i:36379488 original size:43 final size:43
Alignment explanation
Indices: 36379415--36379538 Score: 135
Period size: 43 Copynumber: 2.9 Consensus size: 43
36379405 ATATAGCTCG
* * *
36379415 TACAATGCC-ATATCCCAGATATGGTCTTACATGTTATCAC-A
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA
** * * **
36379456 TATTGATGCGACTGTCCCAGACATGGTCTTACACATAATCACAA
1 TA-CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA
*
36379500 TACAATGCCAATGTCCCAGACATGGTTTTACATGTAATC
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATC
36379539 TCATCTCGGT
Statistics
Matches: 64, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
41 2 0.03
42 4 0.06
43 55 0.86
44 3 0.05
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (43 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA
Found at i:36387241 original size:18 final size:18
Alignment explanation
Indices: 36387218--36387263 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
36387208 CAAACAAAAC
36387218 AGTCCAAAAAGTCCGGAG
1 AGTCCAAAAAGTCCGGAG
36387236 AGTCCAAAAAGTCCGGAG
1 AGTCCAAAAAGTCCGGAG
36387254 AGTCCAAAAA
1 AGTCCAAAAA
36387264 TTACAAAACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.43, C:0.22, G:0.24, T:0.11
Consensus pattern (18 bp):
AGTCCAAAAAGTCCGGAG
Found at i:36388775 original size:12 final size:12
Alignment explanation
Indices: 36388760--36388786 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
36388750 ATATTATCTC
36388760 AACATCCCCACT
1 AACATCCCCACT
36388772 AACATCCCCACT
1 AACATCCCCACT
36388784 AAC
1 AAC
36388787 CACTAACAAC
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:0.37, C:0.48, G:0.00, T:0.15
Consensus pattern (12 bp):
AACATCCCCACT
Found at i:36399773 original size:22 final size:19
Alignment explanation
Indices: 36399748--36399801 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 19
36399738 TACAAATCAA
*
36399748 ATCTCTAAGATTACAAAATTAT
1 ATCTCTAAGATTAC--AAGT-T
36399770 ATCTTCTAAGATTACAAGTT
1 ATC-TCTAAGATTACAAGTT
36399790 ATCTCTAAGATT
1 ATCTCTAAGATT
36399802 TCATATCTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 9 0.30
20 4 0.13
21 3 0.10
22 3 0.10
23 11 0.37
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (19 bp):
ATCTCTAAGATTACAAGTT
Found at i:36402173 original size:16 final size:15
Alignment explanation
Indices: 36402144--36402174 Score: 53
Period size: 15 Copynumber: 2.0 Consensus size: 15
36402134 CTAAATGTTA
36402144 TTTATTTTATATTAT
1 TTTATTTTATATTAT
36402159 TTTATTTTCATATTAT
1 TTTATTTT-ATATTAT
36402175 AAACACTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTATTTTATATTAT
Found at i:36405738 original size:16 final size:16
Alignment explanation
Indices: 36405713--36405747 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
36405703 GATTAAAAAC
*
36405713 TTTGGAACTTTTAATT
1 TTTGGAACTTGTAATT
*
36405729 TTTGGGACTTGTAATT
1 TTTGGAACTTGTAATT
36405745 TTT
1 TTT
36405748 TATTTTTTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.20, C:0.06, G:0.17, T:0.57
Consensus pattern (16 bp):
TTTGGAACTTGTAATT
Found at i:36406718 original size:16 final size:16
Alignment explanation
Indices: 36406676--36406724 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
36406666 CGTTCTCAAG
36406676 AAAATAGAAAAGAAAA
1 AAAATAGAAAAGAAAA
** * *
36406692 TGAGTAAAAAAGAAAA
1 AAAATAGAAAAGAAAA
*
36406708 AAAATAGAAAATAAAA
1 AAAATAGAAAAGAAAA
36406724 A
1 A
36406725 TTTACTCTTT
Statistics
Matches: 24, Mismatches: 9, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (16 bp):
AAAATAGAAAAGAAAA
Found at i:36408535 original size:38 final size:40
Alignment explanation
Indices: 36408491--36408626 Score: 138
Period size: 39 Copynumber: 3.5 Consensus size: 40
36408481 TGAAACCAAT
* *
36408491 TACCAGCAC-AAGCCTGCGGGAATTTAAACCCGG-TATAA
1 TACCAGCACGAAGCCTGCGGGACTTTAAGCCCGGATATAA
* * *
36408529 TACCAGCTCGAAGCCTGCGGGACTTT-AGCCCGGACATAT
1 TACCAGCACGAAGCCTGCGGGACTTTAAGCCCGGATATAA
* * * *
36408568 TTCCAGCACGTAGCCTGC-GGACCTTAAGTCCGGATATAA
1 TACCAGCACGAAGCCTGCGGGACTTTAAGCCCGGATATAA
*
36408607 TTCCAGCAC-ATAGCCTGCGG
1 TACCAGCACGA-AGCCTGCGG
36408627 ACCCTAAGTT
Statistics
Matches: 80, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
38 20 0.25
39 59 0.74
40 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.21
Consensus pattern (40 bp):
TACCAGCACGAAGCCTGCGGGACTTTAAGCCCGGATATAA
Found at i:36408627 original size:39 final size:39
Alignment explanation
Indices: 36408488--36408644 Score: 133
Period size: 39 Copynumber: 4.0 Consensus size: 39
36408478 ACTTGAAACC
** *
36408488 AATTACCAGCACAAGCCTGCGGGAATTTAAACCCGG-TAT
1 AATT-CCAGCACAAGCCTGCGGGACCTTAAGCCCGGATAT
* * * *
36408527 AATACCAGCTCGAAGCCTGCGGGA-CTTTAGCCCGGACAT
1 AATTCCAGCAC-AAGCCTGCGGGACCTTAAGCCCGGATAT
* * *
36408566 ATTTCCAGCACGTAGCCTGC-GGACCTTAAGTCCGGATAT
1 AATTCCAGCAC-AAGCCTGCGGGACCTTAAGCCCGGATAT
* **
36408605 AATTCCAGCACATAGCCTGC-GGACCCTAAGTTCGGATAT
1 AATTCCAGCACA-AGCCTGCGGGACCTTAAGCCCGGATAT
36408644 A
1 A
36408645 CATCACTAAA
Statistics
Matches: 97, Mismatches: 17, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
38 17 0.18
39 80 0.82
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (39 bp):
AATTCCAGCACAAGCCTGCGGGACCTTAAGCCCGGATAT
Found at i:36414440 original size:148 final size:150
Alignment explanation
Indices: 36414254--36414550 Score: 404
Period size: 148 Copynumber: 2.0 Consensus size: 150
36414244 ATTACAATTC
*
36414254 TGAGAGATTTAAAAAAAAAAGAGTGTGTTCTTAGAAGTGTTTTCAAAATAAAAACAAAATCACTT
1 TGAGAGATTTAAAAAAAAAAGAGTGTGTTCTTAAAAGTGTTTTCAAAATAAAAACAAAATCACTT
* * ** * *
36414319 GATCGAGATGTCTAAAAATAATATCCCATGAATCCTAGGATATCTGAAAAATGATGATCGA-GAT
66 GACCGAGATGTCTAAAAATAACA-CCCAAAAATCCCAGGATATCTGAAAAATGAAGAT-GAGGAT
* *
36414383 TCTTGGGTTCTGAAAACTTTTT
129 TCCTAGGTTCTGAAAACTTTTT
*
36414405 TGAGAGATTT-TAAAAAAAA-A-TGTGTTCTTAAAAGTGTTTTCAAAATAAAAACAAAATCACTT
1 TGAGAGATTTAAAAAAAAAAGAGTGTGTTCTTAAAAGTGTTTTCAAAATAAAAACAAAATCACTT
* * * * *
36414467 GACCGAGATGTTTGAAAATAACACCCAAAAATCCCGGGATATCTGGAAAATGAAGATTAGGATTC
66 GACCGAGATGTCTAAAAATAACACCCAAAAATCCCAGGATATCTGAAAAATGAAGATGAGGATTC
*
36414532 CTAGGTTCTGGAAACTTTT
131 CTAGGTTCTGAAAACTTTT
36414551 CATGGGGATT
Statistics
Matches: 129, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
146 1 0.01
147 49 0.38
148 60 0.47
149 1 0.01
150 8 0.06
151 10 0.08
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (150 bp):
TGAGAGATTTAAAAAAAAAAGAGTGTGTTCTTAAAAGTGTTTTCAAAATAAAAACAAAATCACTT
GACCGAGATGTCTAAAAATAACACCCAAAAATCCCAGGATATCTGAAAAATGAAGATGAGGATTC
CTAGGTTCTGAAAACTTTTT
Found at i:36421558 original size:18 final size:18
Alignment explanation
Indices: 36421535--36421570 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
36421525 AAACTGAAAA
36421535 AATTCGGTTAACCGGTCG
1 AATTCGGTTAACCGGTCG
*
36421553 AATTCGGTTAATCGGTCG
1 AATTCGGTTAACCGGTCG
36421571 GTTAATCGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (18 bp):
AATTCGGTTAACCGGTCG
Found at i:36421881 original size:20 final size:20
Alignment explanation
Indices: 36421843--36421882 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
36421833 ATTCAATAAA
* **
36421843 TAAAAATATAAATCTAAAAC
1 TAAAAATAAAAATAAAAAAC
36421863 TAAAAATAAAAATAAAAAAC
1 TAAAAATAAAAATAAAAAAC
36421883 ATATAATTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.20
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:36421914 original size:9 final size:9
Alignment explanation
Indices: 36421900--36421958 Score: 64
Period size: 9 Copynumber: 6.6 Consensus size: 9
36421890 TTTATACAAA
36421900 TAATTCGGT
1 TAATTCGGT
*
36421909 TAATTCGAT
1 TAATTCGGT
*
36421918 TAATTCGGG
1 TAATTCGGT
*
36421927 TAATTCGGG
1 TAATTCGGT
*
36421936 TAATTCAGT
1 TAATTCGGT
* *
36421945 TAACTCGAT
1 TAATTCGGT
36421954 TAATT
1 TAATT
36421959 TTATACTTAT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.41
Consensus pattern (9 bp):
TAATTCGGT
Found at i:36421923 original size:18 final size:18
Alignment explanation
Indices: 36421900--36421958 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 18
36421890 TTTATACAAA
36421900 TAATTCGGTTAATTCGAT
1 TAATTCGGTTAATTCGAT
* **
36421918 TAATTCGGGTAATTCGGG
1 TAATTCGGTTAATTCGAT
* *
36421936 TAATTCAGTTAACTCGAT
1 TAATTCGGTTAATTCGAT
36421954 TAATT
1 TAATT
36421959 TTATACTTAT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.41
Consensus pattern (18 bp):
TAATTCGGTTAATTCGAT
Found at i:36424084 original size:25 final size:25
Alignment explanation
Indices: 36424056--36424106 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
36424046 ATTCAATCAG
36424056 ATAGAATACAGTCAAATAATCCTAC
1 ATAGAATACAGTCAAATAATCCTAC
*
36424081 ATAGAATATAGTCAAATAATCCTAC
1 ATAGAATACAGTCAAATAATCCTAC
36424106 A
1 A
36424107 CCCAGAACAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.49, C:0.18, G:0.08, T:0.25
Consensus pattern (25 bp):
ATAGAATACAGTCAAATAATCCTAC
Found at i:36426725 original size:25 final size:25
Alignment explanation
Indices: 36426697--36426749 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
36426687 TGACTTTTTG
*
36426697 GATGGGATCTAGGCATTTTTGGGTT
1 GATGGGATCTAGGCATTTTTGGATT
*
36426722 GATGTGATCTAGGCATTTTTGGATT
1 GATGGGATCTAGGCATTTTTGGATT
36426747 GAT
1 GAT
36426750 ATGTCTTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.19, C:0.08, G:0.32, T:0.42
Consensus pattern (25 bp):
GATGGGATCTAGGCATTTTTGGATT
Found at i:36430539 original size:24 final size:24
Alignment explanation
Indices: 36430489--36430539 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
36430479 CATTGTGTTT
* * * **
36430489 TTTATTTTTTATTTTTATCTCTTA
1 TTTATTTATGATTTTTATATCAAA
36430513 TTTATTTATGATTTTTATATCAAA
1 TTTATTTATGATTTTTATATCAAA
36430537 TTT
1 TTT
36430540 CTTCTTTTAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.69
Consensus pattern (24 bp):
TTTATTTATGATTTTTATATCAAA
Found at i:36430577 original size:22 final size:22
Alignment explanation
Indices: 36430535--36430576 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
36430525 TTTTATATCA
*
36430535 AATTTCTTCTTTTACTATTTTC
1 AATTTCTTCTATTACTATTTTC
36430557 AATTTCTTC-ATTACTATTTT
1 AATTTCTTCTATTACTATTTT
36430577 TTTCTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.21, C:0.17, G:0.00, T:0.62
Consensus pattern (22 bp):
AATTTCTTCTATTACTATTTTC
Found at i:36432477 original size:37 final size:36
Alignment explanation
Indices: 36432397--36432485 Score: 108
Period size: 37 Copynumber: 2.4 Consensus size: 36
36432387 ACGAAAGAAC
*
36432397 AAGATGAAGATGAAGACAGTGTTAGAGATAAAGATA
1 AAGATGAAGATGAAGACAGGGTTAGAGATAAAGATA
* * * *
36432433 AATATGAAGATCAAGATAGAGGTTAGAGATAGAAG-TG
1 AAGATGAAGATGAAGACAG-GGTTAGAGATA-AAGATA
36432470 AAGATGAAGATGAAGA
1 AAGATGAAGATGAAGA
36432486 GCCAGAACTT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
36 16 0.36
37 25 0.57
38 3 0.07
ACGTcount: A:0.49, C:0.02, G:0.29, T:0.19
Consensus pattern (36 bp):
AAGATGAAGATGAAGACAGGGTTAGAGATAAAGATA
Found at i:36433367 original size:37 final size:36
Alignment explanation
Indices: 36433287--36433375 Score: 117
Period size: 37 Copynumber: 2.4 Consensus size: 36
36433277 ACGAAAGAAC
*
36433287 AAGATGAAGATGAAGATAGTGTTAGAGATAAAGATA
1 AAGATGAAGATGAAGATAGGGTTAGAGATAAAGATA
* * *
36433323 AATATGAAGATCAAGATAGAGGTTAGAGATAGAAG-TG
1 AAGATGAAGATGAAGATAG-GGTTAGAGATA-AAGATA
36433360 AAGATGAAGATGAAGA
1 AAGATGAAGATGAAGA
36433376 GCCAGAACTT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
36 17 0.38
37 25 0.56
38 3 0.07
ACGTcount: A:0.49, C:0.01, G:0.29, T:0.20
Consensus pattern (36 bp):
AAGATGAAGATGAAGATAGGGTTAGAGATAAAGATA
Found at i:36442691 original size:40 final size:41
Alignment explanation
Indices: 36442554--36442762 Score: 233
Period size: 41 Copynumber: 5.1 Consensus size: 41
36442544 TACTGTTGAG
* * * * *
36442554 TTGCACATACGTGCCCCTATTTGTACTTTGGTACCCCTGAT
1 TTGCACAAACATGCCCCTGTTTGTACTTCGGTACCCCTGAA
* * * ** *
36442595 TTGCACATACGTGGCTTTGTTTGTACTTCGGTACCCCTGAT
1 TTGCACAAACATGCCCCTGTTTGTACTTCGGTACCCCTGAA
* * *
36442636 TTGCACAAACATGCCCCTGTTTGTACTTTGGTA-CCTTAAA
1 TTGCACAAACATGCCCCTGTTTGTACTTCGGTACCCCTGAA
* * *
36442676 TTGCACAACCATGCCCCTGTTTGTATTTCGGTACCCCTGAC
1 TTGCACAAACATGCCCCTGTTTGTACTTCGGTACCCCTGAA
* *
36442717 TTACACAAACATGCCCCTGTTTGTACTTCGGTACCGCTGAA
1 TTGCACAAACATGCCCCTGTTTGTACTTCGGTACCCCTGAA
36442758 -TGCAC
1 TTGCAC
36442763 TTTTAAGCCC
Statistics
Matches: 141, Mismatches: 26, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
40 38 0.27
41 103 0.73
ACGTcount: A:0.20, C:0.29, G:0.18, T:0.34
Consensus pattern (41 bp):
TTGCACAAACATGCCCCTGTTTGTACTTCGGTACCCCTGAA
Found at i:36445514 original size:46 final size:45
Alignment explanation
Indices: 36445420--36445585 Score: 160
Period size: 46 Copynumber: 3.6 Consensus size: 45
36445410 ATGCTAATGC
*
36445420 CATGTCCCAGACATGGTCTTACACTAGC--ACATCTCGTAGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTTACGTCTCG-AGCCGATG
* *
36445465 CATGTCCGAGACATGTCTTACACTAGCTTACGTCTCGAGGCCGAAG
1 CATGTCCCAGACATGTCTTACACTAGCTTACGTCTCGA-GCCGATG
* * * ** *
36445511 CATGTCCTACACATATCTTACACTAG-TGCT-CGTCTTAATGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCT--TACGTCTCGA-GCCGATG
36445557 CCATGTCCCAGACATGTCTTACACTAGCT
1 -CATGTCCCAGACATGTCTTACACTAGCT
36445586 CACACAAGTG
Statistics
Matches: 100, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
44 13 0.13
45 15 0.15
46 47 0.47
47 24 0.24
48 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTAGCTTACGTCTCGAGCCGATG
Found at i:36451468 original size:38 final size:38
Alignment explanation
Indices: 36451394--36451469 Score: 89
Period size: 38 Copynumber: 2.0 Consensus size: 38
36451384 CCCTTCGGTG
* **
36451394 GGAGCCGACTCGTTACTCTCCACATCATCTGCCGTGGC
1 GGAGCCGACGCGTTACTCTCCACATCATCCACCGTGGC
* * * *
36451432 GGAGCCGGCGCGTTACTCTTCACGTCATCCATCGTGGC
1 GGAGCCGACGCGTTACTCTCCACATCATCCACCGTGGC
36451470 TCTGTCAGAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.14, C:0.36, G:0.26, T:0.24
Consensus pattern (38 bp):
GGAGCCGACGCGTTACTCTCCACATCATCCACCGTGGC
Found at i:36461759 original size:79 final size:82
Alignment explanation
Indices: 36461648--36461832 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
36461638 GCTACTCGTT
* *
36461648 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
36461711 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
36461728 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
36461791 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
36461808 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
36461833 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Done.