Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 61 of 202
Found at i:18016241 original size:50 final size:49
Alignment explanation
Indices: 18016176--18016332 Score: 181
Period size: 50 Copynumber: 3.1 Consensus size: 49
18016166 TTTGGAAAGT
**
18016176 AAGATTCGCCATTGTGGCTTTAATCTTTGTAACTGCAATGTCGGGGAAGC
1 AAGATTCGCTGTTGTGGCTTTAATCTTT-TAACTGCAATGTCGGGGAAGC
* ** * * *
18016226 ATGATTCGCTGTTGTGGCTTTAATCTGTTCCACTGC-ATCGCCTGGGAAGT
1 AAGATTCGCTGTTGTGGCTTTAATCT-TTTAACTGCAAT-GTCGGGGAAGC
*
18016276 AAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
1 AAGATTCGCTGTTGTGGCTTTAATC-TTTTAACTGCAATGTCGGGGAAGC
*
18016326 ACGATTC
1 AAGATTC
18016333 ACCGATGTGG
Statistics
Matches: 87, Mismatches: 16, Indels: 8
0.78 0.14 0.07
Matches are distributed among these distances:
49 2 0.02
50 80 0.92
51 5 0.06
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (49 bp):
AAGATTCGCTGTTGTGGCTTTAATCTTTTAACTGCAATGTCGGGGAAGC
Found at i:18018475 original size:15 final size:15
Alignment explanation
Indices: 18018455--18018489 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
18018445 ACTAAAGCAG
18018455 ACAAATATTTGTATC
1 ACAAATATTTGTATC
18018470 ACAAATATTTGTATC
1 ACAAATATTTGTATC
18018485 ACAAA
1 ACAAA
18018490 CATACAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.34
Consensus pattern (15 bp):
ACAAATATTTGTATC
Found at i:18020928 original size:20 final size:20
Alignment explanation
Indices: 18020903--18020945 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
18020893 ATACAATAAA
18020903 ATTTCAATTTCATATTGAAT
1 ATTTCAATTTCATATTGAAT
18020923 ATTTCAATTTCATATTGAAT
1 ATTTCAATTTCATATTGAAT
18020943 ATT
1 ATT
18020946 GAATATTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.09, G:0.05, T:0.51
Consensus pattern (20 bp):
ATTTCAATTTCATATTGAAT
Found at i:18021411 original size:13 final size:14
Alignment explanation
Indices: 18021377--18021417 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
18021367 CCGTGCATGA
18021377 CTTTTTCTTCTTCTTT
1 CTTTTTC-T-TTCTTT
18021393 CTTTTTCTTTCTTT
1 CTTTTTCTTTCTTT
18021407 C-TTTTCTTTCT
1 CTTTTTCTTTCT
18021418 AATTTGTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 10 0.40
14 7 0.28
15 1 0.04
16 7 0.28
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (14 bp):
CTTTTTCTTTCTTT
Found at i:18027420 original size:18 final size:18
Alignment explanation
Indices: 18027397--18027439 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
18027387 TGCCAAGTGC
* *
18027397 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
18027415 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
18027433 GTTTCCT
1 GTATCCT
18027440 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:18034600 original size:83 final size:83
Alignment explanation
Indices: 18034461--18034630 Score: 286
Period size: 83 Copynumber: 2.0 Consensus size: 83
18034451 AGAAGTTTTT
** *
18034461 TAAAACAGTTACGTATTTGAGTAAACTTTATTAAAATGTTTGGTTCTTTTTAAAAACTTGATTAT
1 TAAAACAGTTACGTATTTGAGTAAACTTTATTAAAACATTTGGTTCTTTTTAAAAACTCGATTAT
* *
18034526 CTCTACTACTAGTAATTA
66 CCCTACTACTAGCAATTA
*
18034544 TAAAACAGTTACGTATTTGAGTAAATTTTATTAAAACATTTGGTTCTTTTTAAAAACTCGATTAT
1 TAAAACAGTTACGTATTTGAGTAAACTTTATTAAAACATTTGGTTCTTTTTAAAAACTCGATTAT
18034609 CCCTACTACTAGCAATTA
66 CCCTACTACTAGCAATTA
18034627 TAAA
1 TAAA
18034631 TCAAAACAAT
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
83 81 1.00
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.41
Consensus pattern (83 bp):
TAAAACAGTTACGTATTTGAGTAAACTTTATTAAAACATTTGGTTCTTTTTAAAAACTCGATTAT
CCCTACTACTAGCAATTA
Found at i:18037250 original size:50 final size:49
Alignment explanation
Indices: 18037185--18037341 Score: 181
Period size: 50 Copynumber: 3.1 Consensus size: 49
18037175 TTTGGAAAGT
**
18037185 AAGATTCGCCATTGTGGCTTTAATCTTTGTAACTGCAATGTCGGGGAAGC
1 AAGATTCGCTGTTGTGGCTTTAATCTTT-TAACTGCAATGTCGGGGAAGC
* ** * * *
18037235 ATGATTCGCTGTTGTGGCTTTAATCTGTTCCACTGC-ATCGCCTGGGAAGT
1 AAGATTCGCTGTTGTGGCTTTAATCT-TTTAACTGCAAT-GTCGGGGAAGC
*
18037285 AAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
1 AAGATTCGCTGTTGTGGCTTTAATC-TTTTAACTGCAATGTCGGGGAAGC
*
18037335 ACGATTC
1 AAGATTC
18037342 ACCGATGTGG
Statistics
Matches: 87, Mismatches: 16, Indels: 8
0.78 0.14 0.07
Matches are distributed among these distances:
49 2 0.02
50 80 0.92
51 5 0.06
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (49 bp):
AAGATTCGCTGTTGTGGCTTTAATCTTTTAACTGCAATGTCGGGGAAGC
Found at i:18041939 original size:20 final size:20
Alignment explanation
Indices: 18041914--18041956 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
18041904 ATACAATAAA
18041914 ATTTCAATTTCATATTGAAT
1 ATTTCAATTTCATATTGAAT
18041934 ATTTCAATTTCATATTGAAT
1 ATTTCAATTTCATATTGAAT
18041954 ATT
1 ATT
18041957 GAATATTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.09, G:0.05, T:0.51
Consensus pattern (20 bp):
ATTTCAATTTCATATTGAAT
Found at i:18042422 original size:13 final size:14
Alignment explanation
Indices: 18042388--18042428 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
18042378 CCGTGCATGA
18042388 CTTTTTCTTCTTCTTT
1 CTTTTTC-T-TTCTTT
18042404 CTTTTTCTTTCTTT
1 CTTTTTCTTTCTTT
18042418 C-TTTTCTTTCT
1 CTTTTTCTTTCT
18042429 AATTTGTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 10 0.40
14 7 0.28
15 1 0.04
16 7 0.28
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (14 bp):
CTTTTTCTTTCTTT
Found at i:18046482 original size:11 final size:11
Alignment explanation
Indices: 18046463--18046494 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
18046453 TAATATTCTT
*
18046463 TCAATTTCCTC
1 TCAAATTCCTC
18046474 TCAAATTCCTC
1 TCAAATTCCTC
18046485 TCAAATTCCT
1 TCAAATTCCT
18046495 ATTTAAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.25, C:0.34, G:0.00, T:0.41
Consensus pattern (11 bp):
TCAAATTCCTC
Found at i:18046488 original size:22 final size:23
Alignment explanation
Indices: 18046436--18046494 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
18046426 ACTAAATCAT
*
18046436 TTCTGTCAATTT-CTCTCTAATA
1 TTCTCTCAATTTCCTCTCTAATA
*
18046458 TTCTTTCAATTTCCTCTC-AA-A
1 TTCTCTCAATTTCCTCTCTAATA
*
18046479 TTCCTCTCAAATTCCT
1 TT-CTCTCAATTTCCT
18046495 ATTTAAAAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 3 0.09
22 24 0.75
23 5 0.16
ACGTcount: A:0.22, C:0.29, G:0.02, T:0.47
Consensus pattern (23 bp):
TTCTCTCAATTTCCTCTCTAATA
Found at i:18048442 original size:18 final size:18
Alignment explanation
Indices: 18048406--18048448 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
18048396 TGCCAAGTGC
* * *
18048406 GTATCCTAGCCTTTTTAT
1 GTATCCTAACCCTTATAT
18048424 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
18048442 GTTTCCT
1 GTATCCT
18048449 TTTTCTAGTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.19, C:0.26, G:0.09, T:0.47
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:18048734 original size:21 final size:21
Alignment explanation
Indices: 18048710--18048749 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
18048700 CTACTAAAGG
* *
18048710 AACCAGAATCCCCACCGGAGC
1 AACCACAACCCCCACCGGAGC
*
18048731 AACCACAACCCCCGCCGGA
1 AACCACAACCCCCACCGGA
18048750 AGCTGGACAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.47, G:0.17, T:0.03
Consensus pattern (21 bp):
AACCACAACCCCCACCGGAGC
Found at i:18057914 original size:62 final size:62
Alignment explanation
Indices: 18057798--18057962 Score: 172
Period size: 62 Copynumber: 2.7 Consensus size: 62
18057788 TGTGTCCGAA
* * ** * *
18057798 CCGTGTAACTCACTATTTGTGGTATAATACCACACGGGCAGGGACACAGGCGTGT-GCCTTGG
1 CCGTGTAACTCACTATTTATGGTATAAAACCACACGGGCAAAGACACAGGCGTGTAACC-AGG
* * * *
18057860 CTGTGTTACTCACTATTTATGGTATAAAACCACACGGTCAAAGACA-TGGACGTGTAACCAGG
1 CCGTGTAACTCACTATTTATGGTATAAAACCACACGGGCAAAGACACAGG-CGTGTAACCAGG
* * * *
18057922 CCGTGTAACTCACTGTTTATGCTTTGAAACCACACGGGCAA
1 CCGTGTAACTCACTATTTATGGTATAAAACCACACGGGCAA
18057963 GGCACATGGG
Statistics
Matches: 84, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
61 2 0.02
62 80 0.95
63 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (62 bp):
CCGTGTAACTCACTATTTATGGTATAAAACCACACGGGCAAAGACACAGGCGTGTAACCAGG
Found at i:18061762 original size:16 final size:17
Alignment explanation
Indices: 18061735--18061769 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
18061725 AGAGAGTTGA
18061735 GAGAGAGGATGAGAGAT
1 GAGAGAGGATGAGAGAT
*
18061752 GAGAG-GGATGAGGGAT
1 GAGAGAGGATGAGAGAT
18061768 GA
1 GA
18061770 AGGATGATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.37, C:0.00, G:0.51, T:0.11
Consensus pattern (17 bp):
GAGAGAGGATGAGAGAT
Found at i:18066718 original size:62 final size:62
Alignment explanation
Indices: 18066633--18066834 Score: 205
Period size: 62 Copynumber: 3.2 Consensus size: 62
18066623 CACAGGAAAC
* * *
18066633 GGACACGGGCATGTG-TCTGGGCCGTGTAACTCACTGTTTATGGTATAAGA-CCACATGGCCAG
1 GGACACGGGCGTGTGCT-TAGGCCGTGTAACTCACTGTTTATGGTATAA-ACCCACACGGCCAG
* * *
18066695 GGACACGGGCGTGTGCTTTGGCCGTGTAACTCACTGTTTGTGGTATAAACCCACACGGTCAG
1 GGACACGGGCGTGTGCTTAGGCCGTGTAACTCACTGTTTATGGTATAAACCCACACGGCCAG
* * * * * *
18066757 GGACACGGGCGTGTAAC-CAGGCTGTGTAACTCACTGTTTAT-GTTTCAAAACCACACGGGCAAG
1 GGACACGGGCGTGT-GCTTAGGCCGTGTAACTCACTGTTTATGGTAT-AAACCCACAC-GGCCAG
* *
18066820 GCACATGGGCGTGTG
1 GGACACGGGCGTGTG
18066835 ACCAGGCCGT
Statistics
Matches: 118, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
61 4 0.03
62 96 0.81
63 18 0.15
ACGTcount: A:0.22, C:0.23, G:0.31, T:0.24
Consensus pattern (62 bp):
GGACACGGGCGTGTGCTTAGGCCGTGTAACTCACTGTTTATGGTATAAACCCACACGGCCAG
Found at i:18069007 original size:9 final size:10
Alignment explanation
Indices: 18068987--18069031 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 10
18068977 TTTTACTTGG
18068987 ATTTTTAA--
1 ATTTTTAATT
18068995 ATTTTT-ATT
1 ATTTTTAATT
18069004 ATTTTTAATT
1 ATTTTTAATT
18069014 ATTTATTTAATT
1 A-TT-TTTAATT
18069026 ATTTTT
1 ATTTTT
18069032 GGCTCGACGG
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
7 1 0.03
8 6 0.19
9 6 0.19
10 7 0.22
11 4 0.12
12 8 0.25
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
ATTTTTAATT
Found at i:18069009 original size:17 final size:17
Alignment explanation
Indices: 18068987--18069020 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
18068977 TTTTACTTGG
18068987 ATTTTTAAATT-TTTATT
1 ATTTTT-AATTATTTATT
18069004 ATTTTTAATTATTTATT
1 ATTTTTAATTATTTATT
18069021 TAATTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTTTAATTATTTATT
Found at i:18072285 original size:19 final size:19
Alignment explanation
Indices: 18072257--18072296 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
18072247 AGTGATTAAG
* *
18072257 AAAAATAGAAAATTGGGAA
1 AAAAAAAGAAAATTGAGAA
*
18072276 AAAAAAAGAAAGTTGAGAA
1 AAAAAAAGAAAATTGAGAA
18072295 AA
1 AA
18072297 TTTTTATTGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.20, T:0.12
Consensus pattern (19 bp):
AAAAAAAGAAAATTGAGAA
Found at i:18076904 original size:36 final size:37
Alignment explanation
Indices: 18076839--18076912 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
18076829 CATAAAAGAA
18076839 AAAAAAATTAAAAAGTTCTAAAGGAAAAAATATAGGG
1 AAAAAAATTAAAAAGTTCTAAAGGAAAAAATATAGGG
**
18076876 AAAAAAATTAAATTGTTCTAAAGGAAAAAATATAGGG
1 AAAAAAATTAAAAAGTTCTAAAGGAAAAAATATAGGG
18076913 GCCAATTGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.59, C:0.03, G:0.16, T:0.22
Consensus pattern (37 bp):
AAAAAAATTAAAAAGTTCTAAAGGAAAAAATATAGGG
Found at i:18076939 original size:31 final size:31
Alignment explanation
Indices: 18076903--18076967 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
18076893 CTAAAGGAAA
* *
18076903 AAATATAGGGGCCAATTGTAGAATTTAATCT
1 AAATATAGGGACCAATTGTAGAATTTAAGCT
18076934 AAATATAGGGACCAATTGTAGAATTTAAGCT
1 AAATATAGGGACCAATTGTAGAATTTAAGCT
18076965 AAA
1 AAA
18076968 ATTTTCATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.43, C:0.09, G:0.18, T:0.29
Consensus pattern (31 bp):
AAATATAGGGACCAATTGTAGAATTTAAGCT
Found at i:18079309 original size:128 final size:128
Alignment explanation
Indices: 18079035--18079824 Score: 1343
Period size: 128 Copynumber: 6.2 Consensus size: 128
18079025 GCTCCGTTGG
**
18079035 AACCTCAGGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTTCTA
1 AACCTCAGGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTTCCG
* * * *
18079100 TCTTCGATCTGT-CTACTGCAATTTTAGGGGATAAGACTTGCTTACTTAGCCCGCTCCACTGC
66 TCTTCGATCTGTCCCACTGCAACTTCAGGGGATAAGACCTGCTTACTTAGCCCGCTCCACTGC
* **
18079162 AACCTCAGGGAGAAAGGACTTATGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCG
1 AACCTCAGGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTTCCG
18079227 TCTTC-AGTCTGTCCCACTGCAACTTCAGGGGATAAGACCTGCTTACTTAGCCCGCTCCACTGC
66 TCTTCGA-TCTGTCCCACTGCAACTTCAGGGGATAAGACCTGCTTACTTAGCCCGCTCCACTGC
18079290 AACCTCAGGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTTCCG
1 AACCTCAGGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTTCCG
*
18079355 TCTTCGATCTGTCCCACTGCAACTTCAGGGGATAAAACCTGCTTACTTAGCCCGCTCCACTGC
66 TCTTCGATCTGTCCCACTGCAACTTCAGGGGATAAGACCTGCTTACTTAGCCCGCTCCACTGC
* * *
18079418 AACATCAGGGAGAAAGGACTTGTGGCTTAAATCTTCTTCCTTACACTTGAAGATAAGATTTACCG
1 AACCTCAGGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTTCCG
*
18079483 TCTTCGATCTGT-CCACTGCAACTTCAGGGGATAAGACCTGCTTACTTAGTCCGCTCCACTGC
66 TCTTCGATCTGTCCCACTGCAACTTCAGGGGATAAGACCTGCTTACTTAGCCCGCTCCACTGC
18079545 AACCTCAGGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTTCCG
1 AACCTCAGGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTTCCG
* *
18079610 TATTCAATCTGTCCCACTGCAACTTCAGGGGATAAGACCTGCTTACTTAGCCCGCTCCACTGC
66 TCTTCGATCTGTCCCACTGCAACTTCAGGGGATAAGACCTGCTTACTTAGCCCGCTCCACTGC
* **
18079673 AACCTCAAGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCG
1 AACCTCAGGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTTCCG
* * * *
18079738 TTTTCAATCTATCCCACTGCAACTTCAAGGGATAAGACCTGCTTACTTAGCCCGCTCCACTGC
66 TCTTCGATCTGTCCCACTGCAACTTCAGGGGATAAGACCTGCTTACTTAGCCCGCTCCACTGC
18079801 AACCTCAGGGAGAAAGGACTTGTG
1 AACCTCAGGGAGAAAGGACTTGTG
18079825 ATTTCACTGA
Statistics
Matches: 628, Mismatches: 31, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
126 1 0.00
127 190 0.30
128 436 0.69
129 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (128 bp):
AACCTCAGGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTTCCG
TCTTCGATCTGTCCCACTGCAACTTCAGGGGATAAGACCTGCTTACTTAGCCCGCTCCACTGC
Found at i:18079348 original size:255 final size:256
Alignment explanation
Indices: 18079035--18079824 Score: 1370
Period size: 255 Copynumber: 3.1 Consensus size: 256
18079025 GCTCCGTTGG
**
18079035 AACCTCAGGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTTCTA
1 AACCTCAGGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTTCCG
* * * *
18079100 TCTTCGATCTGT-CTACTGCAATTTTAGGGGATAAGACTTGCTTACTTAGCCCGCTCCACTGCAA
66 TCTTCGATCTGTCCCACTGCAACTTCAGGGGATAAGACCTGCTTACTTAGCCCGCTCCACTGCAA
*
18079164 CCTCAGGGAGAAAGGACTTATGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTC
131 CCTCAGGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTC
18079229 TTCAGTCTGTCCCACTGCAACTTCAGGGGATAAGACCTGCTTACTTAGCCCGCTCCACTGC
196 TTCAGTCTGTCCCACTGCAACTTCAGGGGATAAGACCTGCTTACTTAGCCCGCTCCACTGC
18079290 AACCTCAGGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTTCCG
1 AACCTCAGGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTTCCG
*
18079355 TCTTCGATCTGTCCCACTGCAACTTCAGGGGATAAAACCTGCTTACTTAGCCCGCTCCACTGCAA
66 TCTTCGATCTGTCCCACTGCAACTTCAGGGGATAAGACCTGCTTACTTAGCCCGCTCCACTGCAA
* * *
18079420 CATCAGGGAGAAAGGACTTGTGGCTTAAATCTTCTTCCTTACACTTGAAGATAAGATTTACCGTC
131 CCTCAGGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTC
*
18079485 TTC-GATCTGT-CCACTGCAACTTCAGGGGATAAGACCTGCTTACTTAGTCCGCTCCACTGC
196 TTCAG-TCTGTCCCACTGCAACTTCAGGGGATAAGACCTGCTTACTTAGCCCGCTCCACTGC
18079545 AACCTCAGGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTTCCG
1 AACCTCAGGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTTCCG
* *
18079610 TATTCAATCTGTCCCACTGCAACTTCAGGGGATAAGACCTGCTTACTTAGCCCGCTCCACTGCAA
66 TCTTCGATCTGTCCCACTGCAACTTCAGGGGATAAGACCTGCTTACTTAGCCCGCTCCACTGCAA
* * *
18079675 CCTCAAGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTT
131 CCTCAGGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTC
* * *
18079740 TTCAATCTATCCCACTGCAACTTCAAGGGATAAGACCTGCTTACTTAGCCCGCTCCACTGC
196 TTCAGTCTGTCCCACTGCAACTTCAGGGGATAAGACCTGCTTACTTAGCCCGCTCCACTGC
18079801 AACCTCAGGGAGAAAGGACTTGTG
1 AACCTCAGGGAGAAAGGACTTGTG
18079825 ATTTCACTGA
Statistics
Matches: 506, Mismatches: 25, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
255 318 0.63
256 188 0.37
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (256 bp):
AACCTCAGGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTTCCG
TCTTCGATCTGTCCCACTGCAACTTCAGGGGATAAGACCTGCTTACTTAGCCCGCTCCACTGCAA
CCTCAGGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTC
TTCAGTCTGTCCCACTGCAACTTCAGGGGATAAGACCTGCTTACTTAGCCCGCTCCACTGC
Found at i:18079755 original size:383 final size:383
Alignment explanation
Indices: 18079039--18079824 Score: 1365
Period size: 383 Copynumber: 2.1 Consensus size: 383
18079029 CGTTGGAACC
* *
18079039 TCAGGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTTCTATCTT
1 TCAGGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTACCATCTT
* * * *
18079104 CGATCTGTCTACTGCAATTTTAGGGGATAAGACTTGCTTACTTAGCCCGCTCCACTGCAACCTCA
66 CGATCTGTCCACTGCAACTTCAGGGGATAAGACCTGCTTACTTAGCCCGCTCCACTGCAACCTCA
* *
18079169 GGGAGAAAGGACTTATGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCAG
131 GGGAGAAAGGACTTATGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTATTCAA
*
18079234 TCTGTCCCACTGCAACTTCAGGGGATAAGACCTGCTTACTTAGCCCGCTCCACTGCAACCTCAGG
196 TCTGTCCCACTGCAACTTCAGGGGATAAGACCTGCTTACTTAGCCCGCTCCACTGCAACCTCAAG
** *
18079299 GAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTTCCGTCTTCGATC
261 GAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCAATC
* *
18079364 TGTCCCACTGCAACTTCAGGGGATAAAACCTGCTTACTTAGCCCGCTCCACTGCAACA
326 TATCCCACTGCAACTTCAAGGGATAAAACCTGCTTACTTAGCCCGCTCCACTGCAACA
* *
18079422 TCAGGGAGAAAGGACTTGTGGCTTAAATCTTCTTCCTTACACTTGAAGATAAGATTTACCGTCTT
1 TCAGGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTACCATCTT
*
18079487 CGATCTGTCCACTGCAACTTCAGGGGATAAGACCTGCTTACTTAGTCCGCTCCACTGCAACCTCA
66 CGATCTGTCCACTGCAACTTCAGGGGATAAGACCTGCTTACTTAGCCCGCTCCACTGCAACCTCA
* **
18079552 GGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTTCCGTATTCAA
131 GGGAGAAAGGACTTATGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTATTCAA
18079617 TCTGTCCCACTGCAACTTCAGGGGATAAGACCTGCTTACTTAGCCCGCTCCACTGCAACCTCAAG
196 TCTGTCCCACTGCAACTTCAGGGGATAAGACCTGCTTACTTAGCCCGCTCCACTGCAACCTCAAG
*
18079682 GAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTTTTCAATC
261 GAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCAATC
* *
18079747 TATCCCACTGCAACTTCAAGGGATAAGACCTGCTTACTTAGCCCGCTCCACTGCAACC
326 TATCCCACTGCAACTTCAAGGGATAAAACCTGCTTACTTAGCCCGCTCCACTGCAACA
18079805 TCAGGGAGAAAGGACTTGTG
1 TCAGGGAGAAAGGACTTGTG
18079825 ATTTCACTGA
Statistics
Matches: 380, Mismatches: 23, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
383 380 1.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (383 bp):
TCAGGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTACCATCTT
CGATCTGTCCACTGCAACTTCAGGGGATAAGACCTGCTTACTTAGCCCGCTCCACTGCAACCTCA
GGGAGAAAGGACTTATGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTATTCAA
TCTGTCCCACTGCAACTTCAGGGGATAAGACCTGCTTACTTAGCCCGCTCCACTGCAACCTCAAG
GAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCAATC
TATCCCACTGCAACTTCAAGGGATAAAACCTGCTTACTTAGCCCGCTCCACTGCAACA
Found at i:18092505 original size:14 final size:14
Alignment explanation
Indices: 18092486--18092512 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18092476 ACAAACATGA
18092486 AAAATAATAGTAGT
1 AAAATAATAGTAGT
18092500 AAAATAATAGTAG
1 AAAATAATAGTAG
18092513 ATTTCTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (14 bp):
AAAATAATAGTAGT
Found at i:18102843 original size:62 final size:62
Alignment explanation
Indices: 18102775--18102897 Score: 158
Period size: 62 Copynumber: 2.0 Consensus size: 62
18102765 GGTTCATTGT
* * *
18102775 GTGATGGTTCTTAAGA-GCCTATTGCATTTGAACTGAGTTACGAAGATTTGAGATTAATGGTA
1 GTGATGGTACTTAAGATG-CTACTGCATTTGAACTAAGTTACGAAGATTTGAGATTAATGGTA
* * ** *
18102837 GTGATGGTACTTAGGATGCTACTGTATTTGAACTAAGTTTTGAAGATTTGTGATTAATGGT
1 GTGATGGTACTTAAGATGCTACTGCATTTGAACTAAGTTACGAAGATTTGAGATTAATGGT
18102898 TCATTGCGTG
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
62 51 0.98
63 1 0.02
ACGTcount: A:0.28, C:0.08, G:0.26, T:0.38
Consensus pattern (62 bp):
GTGATGGTACTTAAGATGCTACTGCATTTGAACTAAGTTACGAAGATTTGAGATTAATGGTA
Found at i:18104405 original size:24 final size:24
Alignment explanation
Indices: 18104356--18104410 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
18104346 TAAAGTAGGT
* *
18104356 TATA-TATTATTTTTATAATATTA
1 TATATTATGATTTTTATAATATCA
18104379 TATATTATGATTTTTATTAAT-TCA
1 TATATTATGATTTTTA-TAATATCA
*
18104403 TATTTTAT
1 TATATTAT
18104411 TAATGATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 4 0.15
24 19 0.70
25 4 0.15
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (24 bp):
TATATTATGATTTTTATAATATCA
Found at i:18104484 original size:26 final size:26
Alignment explanation
Indices: 18104452--18104541 Score: 76
Period size: 26 Copynumber: 3.5 Consensus size: 26
18104442 TATATTATTT
18104452 TATTAAATTTTATTTAATAATAATTA
1 TATTAAATTTTATTTAATAATAATTA
* * * * * *
18104478 TATTAAAATATGATTAAATTAT-TTTT
1 TATT-AAATTTTATTTAATAATAATTA
*
18104504 TATTAAATTATATTTAATAATAA-TA
1 TATTAAATTTTATTTAATAATAATTA
*
18104529 TTATTAAAATTTA
1 -TATTAAATTTTA
18104542 ATAACAATAA
Statistics
Matches: 46, Mismatches: 15, Indels: 6
0.69 0.22 0.09
Matches are distributed among these distances:
25 13 0.28
26 20 0.43
27 13 0.28
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (26 bp):
TATTAAATTTTATTTAATAATAATTA
Found at i:18105498 original size:29 final size:30
Alignment explanation
Indices: 18105438--18105509 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 30
18105428 CGCCTAAGGA
*
18105438 AGAGGCGGCACCCAGTGGTCACGACATCGGC
1 AGAGGCAGCACCCAG-GGTCACGACATCGGC
* *
18105469 ATAGGCAGCACCCA-GGTCACG-CCTCTGGC
1 AGAGGCAGCACCCAGGGTCACGACATC-GGC
*
18105498 AGAGGTAGCACC
1 AGAGGCAGCACC
18105510 ACCGGAAGAG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 3 0.09
29 20 0.57
31 12 0.34
ACGTcount: A:0.24, C:0.33, G:0.32, T:0.11
Consensus pattern (30 bp):
AGAGGCAGCACCCAGGGTCACGACATCGGC
Found at i:18105564 original size:15 final size:14
Alignment explanation
Indices: 18105529--18105575 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
18105519 GAGAATTTTT
18105529 GAAGA-AAGAA-AA
1 GAAGAGAAGAAGAA
18105541 GAAGAGAAGAAGAA
1 GAAGAGAAGAAGAA
*
18105555 GAAGGAGAAGGAGAA
1 GAA-GAGAAGAAGAA
*
18105570 GGAGAG
1 GAAGAG
18105576 GGCAGGAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 5 0.17
13 5 0.17
14 8 0.27
15 12 0.40
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (14 bp):
GAAGAGAAGAAGAA
Found at i:18105571 original size:6 final size:6
Alignment explanation
Indices: 18105548--18105654 Score: 55
Period size: 6 Copynumber: 18.2 Consensus size: 6
18105538 AAAGAAGAGA
* *
18105548 AGAAGA AGAAGG AGAAGG AGAAGG AGAGGG CAGGAAGG -GAAGG -GAAGG
1 AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG -A-GAAGG AGAAGG AGAAGG
** * ** *
18105596 -GAAAA AGAAAG A-AAAA AGAA-G AGAAGG AGAATAG AGAGAGG -GAAGG
1 AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAA-GG AGA-AGG AGAAGG
*
18105642 AGAAAG AGAAGG A
1 AGAAGG AGAAGG A
18105655 AAAAAATAAA
Statistics
Matches: 81, Mismatches: 12, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
5 24 0.30
6 46 0.57
7 6 0.07
8 5 0.06
ACGTcount: A:0.54, C:0.01, G:0.44, T:0.01
Consensus pattern (6 bp):
AGAAGG
Found at i:18107623 original size:14 final size:14
Alignment explanation
Indices: 18107604--18107638 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
18107594 GACATTTTTT
* *
18107604 TTCTAATGATATTA
1 TTCTAACGATACTA
18107618 TTCTAACGATACTA
1 TTCTAACGATACTA
18107632 TTCTAAC
1 TTCTAAC
18107639 ATGTAATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.34, C:0.17, G:0.06, T:0.43
Consensus pattern (14 bp):
TTCTAACGATACTA
Found at i:18108516 original size:33 final size:33
Alignment explanation
Indices: 18108432--18108519 Score: 86
Period size: 33 Copynumber: 2.7 Consensus size: 33
18108422 TAATCTAGTA
* *
18108432 CCACCGCAGTACAACACTCCTCTCGACTCGTAT
1 CCACCGCAATACAACACTCCTCTAGACTCGTAT
* * ** * **
18108465 CCACTGCATTACTCCACTCTTCTAGGGTCGTAT
1 CCACCGCAATACAACACTCCTCTAGACTCGTAT
*
18108498 CCACCGCAATACAGCACTCCTC
1 CCACCGCAATACAACACTCCTC
18108520 CTAGCTTAAG
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.23, C:0.41, G:0.12, T:0.24
Consensus pattern (33 bp):
CCACCGCAATACAACACTCCTCTAGACTCGTAT
Found at i:18108917 original size:48 final size:48
Alignment explanation
Indices: 18108853--18108944 Score: 148
Period size: 48 Copynumber: 1.9 Consensus size: 48
18108843 TAACATTTCA
* *
18108853 ACATTAAAACACTAAAACTTGGAACAAATTTTGTAATATAAATTAAAT
1 ACATTAAAACACTAAAAATTGGAACAAACTTTGTAATATAAATTAAAT
* *
18108901 ACATTACAACATTAAAAATTGGAACAAACTTTGTAATATAAATT
1 ACATTAAAACACTAAAAATTGGAACAAACTTTGTAATATAAATT
18108945 TTGTTATATA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.32
Consensus pattern (48 bp):
ACATTAAAACACTAAAAATTGGAACAAACTTTGTAATATAAATTAAAT
Found at i:18108954 original size:62 final size:62
Alignment explanation
Indices: 18108878--18109068 Score: 346
Period size: 62 Copynumber: 3.1 Consensus size: 62
18108868 AACTTGGAAC
*
18108878 AAATTTTGTAATATAAATTAAATACATTACAACATTAAAAATTGGAACAAACTTTGTAATAT
1 AAATTTTGTTATATAAATTAAATACATTACAACATTAAAAATTGGAACAAACTTTGTAATAT
* * *
18108940 AAATTTTGTTATATAAATTAAATACATTGCAACATTAAAATTTGGAACAAACTTTATAATAT
1 AAATTTTGTTATATAAATTAAATACATTACAACATTAAAAATTGGAACAAACTTTGTAATAT
18109002 AAATTTTGTTATATAAATTAAATACATTACAACATTAAAAATTGGAACAAACTTTGTAATAT
1 AAATTTTGTTATATAAATTAAATACATTACAACATTAAAAATTGGAACAAACTTTGTAATAT
18109064 AAATT
1 AAATT
18109069 AGGTACATTG
Statistics
Matches: 122, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 122 1.00
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.37
Consensus pattern (62 bp):
AAATTTTGTTATATAAATTAAATACATTACAACATTAAAAATTGGAACAAACTTTGTAATAT
Found at i:18110313 original size:16 final size:16
Alignment explanation
Indices: 18110288--18110356 Score: 111
Period size: 16 Copynumber: 4.3 Consensus size: 16
18110278 TTGGTTCGCT
18110288 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
* *
18110304 GTAATAGAATAGAGAC
1 GTAATGGAATAGAGGC
*
18110320 GTAATGGAATAGATGC
1 GTAATGGAATAGAGGC
18110336 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
18110352 GTAAT
1 GTAAT
18110357 AGGTAATTCT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.41, C:0.06, G:0.32, T:0.22
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:18110425 original size:44 final size:46
Alignment explanation
Indices: 18110338--18110430 Score: 163
Period size: 44 Copynumber: 2.1 Consensus size: 46
18110328 ATAGATGCGT
*
18110338 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAATGG
18110384 AATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAATGG
18110428 AAT
1 AAT
18110431 AGAGGTGTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 24 0.52
45 3 0.07
46 19 0.41
ACGTcount: A:0.28, C:0.04, G:0.31, T:0.37
Consensus pattern (46 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAATGG
Found at i:18110426 original size:39 final size:44
Alignment explanation
Indices: 18110338--18110443 Score: 141
Period size: 39 Copynumber: 2.5 Consensus size: 44
18110328 ATAGATGCGT
*
18110338 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTT--ATGG
18110384 AATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGG-T-T-G
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTATGG
*
18110423 AATGGAATAGAGGTGTAATAG
1 AATGGAATAGAGGCGTAATAG
18110444 CATAAGGAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
39 19 0.33
40 2 0.04
43 1 0.02
44 13 0.23
45 3 0.05
46 19 0.33
ACGTcount: A:0.29, C:0.04, G:0.32, T:0.35
Consensus pattern (44 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTATGG
Found at i:18111825 original size:15 final size:15
Alignment explanation
Indices: 18111774--18111831 Score: 80
Period size: 15 Copynumber: 3.7 Consensus size: 15
18111764 ATTTTCCAAA
18111774 AAGCATATAACAAGC
1 AAGCATATAACAAGC
* *
18111789 AAGCAACATAACATAAC
1 AAGC-ATATAACA-AGC
18111806 AAGCATATAACAAGC
1 AAGCATATAACAAGC
18111821 AAGCATATAAC
1 AAGCATATAAC
18111832 CGTGATTAGC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
15 17 0.46
16 14 0.38
17 6 0.16
ACGTcount: A:0.55, C:0.21, G:0.10, T:0.14
Consensus pattern (15 bp):
AAGCATATAACAAGC
Found at i:18115493 original size:23 final size:23
Alignment explanation
Indices: 18115449--18115497 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
18115439 AAAAAAATTT
* * *
18115449 AAAACATAACATTCACAATAAAC
1 AAAACATAAAAATAACAATAAAC
*
18115472 AAAACATAAAAATAACACTAAAC
1 AAAACATAAAAATAACAATAAAC
18115495 AAA
1 AAA
18115498 CTATATAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.67, C:0.18, G:0.00, T:0.14
Consensus pattern (23 bp):
AAAACATAAAAATAACAATAAAC
Found at i:18122352 original size:4 final size:4
Alignment explanation
Indices: 18122343--18122367 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
18122333 TTCCCTAATC
18122343 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
18122368 GAGAGATGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:18130030 original size:3 final size:3
Alignment explanation
Indices: 18130022--18130057 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
18130012 ACTTAATAAG
18130022 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
18130058 TTTTCCTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:18135374 original size:45 final size:45
Alignment explanation
Indices: 18135287--18135394 Score: 117
Period size: 45 Copynumber: 2.4 Consensus size: 45
18135277 TGTGGTGTAC
* * * *
18135287 TCATAGAAGAAGATTCATAGATTTGGCGGACTCATACTTGCGGAT
1 TCATAGAAGAAAATTCATAAATATGGCGGACTCATACATGCGGAT
* ** *
18135332 TCATAGAAGAAAATTCATAAATATGGTGGGTTCATGCATGCGGAT
1 TCATAGAAGAAAATTCATAAATATGGCGGACTCATACATGCGGAT
* * *
18135377 CCATTGAAGAAACTTCAT
1 TCATAGAAGAAAATTCAT
18135395 GATTATAGCA
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (45 bp):
TCATAGAAGAAAATTCATAAATATGGCGGACTCATACATGCGGAT
Found at i:18138804 original size:8 final size:8
Alignment explanation
Indices: 18138778--18138821 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
18138768 ATCTTTATTG
18138778 AATCCTTAA
1 AATCCTT-A
*
18138787 AATCTTTA
1 AATCCTTA
*
18138795 AATCCCTA
1 AATCCTTA
*
18138803 AATCTTTA
1 AATCCTTA
18138811 AATCCTTA
1 AATCCTTA
18138819 AAT
1 AAT
18138822 TGTTAGCATT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
8 23 0.79
9 6 0.21
ACGTcount: A:0.41, C:0.20, G:0.00, T:0.39
Consensus pattern (8 bp):
AATCCTTA
Found at i:18138807 original size:16 final size:16
Alignment explanation
Indices: 18138786--18138821 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
18138776 TGAATCCTTA
18138786 AAATCTTTAAATCCCT
1 AAATCTTTAAATCCCT
*
18138802 AAATCTTTAAATCCTT
1 AAATCTTTAAATCCCT
18138818 AAAT
1 AAAT
18138822 TGTTAGCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.39
Consensus pattern (16 bp):
AAATCTTTAAATCCCT
Found at i:18142500 original size:26 final size:26
Alignment explanation
Indices: 18142471--18142524 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
18142461 AACACACCAA
* * * *
18142471 TATCGCAGCAAAGTTGCCAGTAATAG
1 TATCACAGCAAAGCTGCCAATAACAG
*
18142497 TATCACAGCGAAGCTGCCAATAACAG
1 TATCACAGCAAAGCTGCCAATAACAG
18142523 TA
1 TA
18142525 AATGTGGCAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.20
Consensus pattern (26 bp):
TATCACAGCAAAGCTGCCAATAACAG
Found at i:18142734 original size:27 final size:27
Alignment explanation
Indices: 18142704--18142784 Score: 92
Period size: 27 Copynumber: 3.0 Consensus size: 27
18142694 TCATCTCCTA
*
18142704 GGGGTATACCAGTCATTTTACCTTATG
1 GGGGTATACCAGTCATTTTACCCTATG
**
18142731 GGGGTATTTCAGTCATTTTACCCTATG
1 GGGGTATACCAGTCATTTTACCCTATG
* **
18142758 AGGGTATTTC-GATCATTTTACCCTATG
1 GGGGTATACCAG-TCATTTTACCCTATG
18142785 AGAGTATTTC
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 1 0.02
27 48 0.98
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGGTATACCAGTCATTTTACCCTATG
Found at i:18142785 original size:27 final size:28
Alignment explanation
Indices: 18142714--18142795 Score: 123
Period size: 27 Copynumber: 3.0 Consensus size: 28
18142704 GGGGTATACC
* *
18142714 AGTCATTTTACCTTATGGGGGTATTTC-
1 AGTCATTTTACCCTATGAGGGTATTTCG
18142741 AGTCATTTTACCCTATGAGGGTATTTCG
1 AGTCATTTTACCCTATGAGGGTATTTCG
*
18142769 A-TCATTTTACCCTATGAGAGTATTTCG
1 AGTCATTTTACCCTATGAGGGTATTTCG
18142796 GGGGTATTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
27 50 0.98
28 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (28 bp):
AGTCATTTTACCCTATGAGGGTATTTCG
Found at i:18142868 original size:26 final size:26
Alignment explanation
Indices: 18142795--18142868 Score: 94
Period size: 27 Copynumber: 2.8 Consensus size: 26
18142785 AGAGTATTTC
*
18142795 GGGGGTATTTTGGTCTATTTACCTTAT
1 GGGGGTATTTTGGTC-ATTTACCCTAT
*
18142822 AGGGGTATTTTGGTCATTTTACCCTAT
1 GGGGGTATTTTGGTCA-TTTACCCTAT
* *
18142849 GGGGGTATTTCGATCATTTA
1 GGGGGTATTTTGGTCATTTA
18142869 TCGGCCTCTT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.88
ACGTcount: A:0.18, C:0.12, G:0.26, T:0.45
Consensus pattern (26 bp):
GGGGGTATTTTGGTCATTTACCCTAT
Found at i:18144349 original size:50 final size:50
Alignment explanation
Indices: 18144295--18144481 Score: 182
Period size: 50 Copynumber: 3.8 Consensus size: 50
18144285 ATTATGAAAT
* * * * *
18144295 GTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAG
1 GTCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCGAAATGAGAA
** * *
18144345 GTCCCCCAAAAGACCATGTCTGGGACATGGCATGGGCACCGAAATGAGAA
1 GTCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCGAAATGAGAA
* * * * * *
18144395 CTCCCATGTAAGACCATATCTGGGATACGGCATTGGCA--GTAAAAGA-AA
1 GTCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCG-AAATGAGAA
* *
18144443 CATCCCATATAAGACCATGTCTGGGACATGGCTTTGGCA
1 -GTCCCATATAAGACCATGTCTGGGACATGGCATTGGCA
18144482 TGTTATTATT
Statistics
Matches: 110, Mismatches: 25, Indels: 5
0.79 0.18 0.04
Matches are distributed among these distances:
48 3 0.03
49 37 0.34
50 70 0.64
ACGTcount: A:0.30, C:0.24, G:0.27, T:0.20
Consensus pattern (50 bp):
GTCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCGAAATGAGAA
Found at i:18144466 original size:49 final size:49
Alignment explanation
Indices: 18144354--18144470 Score: 139
Period size: 49 Copynumber: 2.4 Consensus size: 49
18144344 GGTCCCCCAA
* * *
18144354 AAGACCATGTCTGGGACATGGCATGGGCACCGAAATGAGAACTCCCATGT
1 AAGACCATGTCTGGGACACGGCATGGGCA-CGAAAAGAGAACTCCCATAT
* * *
18144404 AAGACCATATCTGGGATACGGCATTGGCA-GTAAAAGA-AACATCCCATAT
1 AAGACCATGTCTGGGACACGGCATGGGCACG-AAAAGAGAAC-TCCCATAT
18144453 AAGACCATGTCTGGGACA
1 AAGACCATGTCTGGGACA
18144471 TGGCTTTGGC
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
48 4 0.07
49 28 0.49
50 25 0.44
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (49 bp):
AAGACCATGTCTGGGACACGGCATGGGCACGAAAAGAGAACTCCCATAT
Found at i:18145942 original size:5 final size:5
Alignment explanation
Indices: 18145932--18145969 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
18145922 TGGAAGATTA
* *
18145932 AAAAT AAAAT AAAAC AATA- AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
18145970 ATGGATAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
4 3 0.10
5 26 0.90
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:18146190 original size:2 final size:2
Alignment explanation
Indices: 18146185--18146220 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
18146175 AAAAACCATA
18146185 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18146221 GAAAGAACAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18154689 original size:56 final size:50
Alignment explanation
Indices: 18154598--18154839 Score: 209
Period size: 50 Copynumber: 4.7 Consensus size: 50
18154588 GGTAAAGAGA
* *
18154598 TCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAGATTATGAAAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAAAGG
* *
18154654 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAAAGG
** * * *
18154704 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAA-C
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGA-AAGG
* * * * **** * * **
18154754 TCCTATGTAAGACCATATCTGGGATATGACATTGG-TTTTACAGGAAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAAAGG
*
18154803 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
18154840 TGTTATTATC
Statistics
Matches: 152, Mismatches: 31, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
48 2 0.01
49 34 0.22
50 76 0.50
51 1 0.01
53 3 0.02
55 1 0.01
56 35 0.23
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAAAGG
Found at i:18156517 original size:129 final size:129
Alignment explanation
Indices: 18156287--18156547 Score: 522
Period size: 129 Copynumber: 2.0 Consensus size: 129
18156277 AAAATCTCTC
18156287 CCCTTATCCCTCCACCAATTTCTGCTCAACTCCCCCCAAAAACTCCATTCAAACTCCCCTTAGTT
1 CCCTTATCCCTCCACCAATTTCTGCTCAACTCCCCCCAAAAACTCCATTCAAACTCCCCTTAGTT
18156352 TTGTTTCAGTCCAAATCTACTACCCACACAGCTCAAGCAACAAAATAAATACTCCATTACACAT
66 TTGTTTCAGTCCAAATCTACTACCCACACAGCTCAAGCAACAAAATAAATACTCCATTACACAT
18156416 CCCTTATCCCTCCACCAATTTCTGCTCAACTCCCCCCAAAAACTCCATTCAAACTCCCCTTAGTT
1 CCCTTATCCCTCCACCAATTTCTGCTCAACTCCCCCCAAAAACTCCATTCAAACTCCCCTTAGTT
18156481 TTGTTTCAGTCCAAATCTACTACCCACACAGCTCAAGCAACAAAATAAATACTCCATTACACAT
66 TTGTTTCAGTCCAAATCTACTACCCACACAGCTCAAGCAACAAAATAAATACTCCATTACACAT
18156545 CCC
1 CCC
18156548 AGGACTTGAA
Statistics
Matches: 132, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
129 132 1.00
ACGTcount: A:0.31, C:0.38, G:0.05, T:0.26
Consensus pattern (129 bp):
CCCTTATCCCTCCACCAATTTCTGCTCAACTCCCCCCAAAAACTCCATTCAAACTCCCCTTAGTT
TTGTTTCAGTCCAAATCTACTACCCACACAGCTCAAGCAACAAAATAAATACTCCATTACACAT
Found at i:18160002 original size:51 final size:51
Alignment explanation
Indices: 18159942--18160051 Score: 193
Period size: 51 Copynumber: 2.2 Consensus size: 51
18159932 CTACGTGCAA
* *
18159942 CAGCAACATTATCCAGTCCATCTGATGTTGCAAAATCACCAGCATATTCAT
1 CAGCAACATTATCCACTCCATCTGATCTTGCAAAATCACCAGCATATTCAT
*
18159993 CAGCAACATTATCCACTCCATTTGATCTTGCAAAATCACCAGCATATTCAT
1 CAGCAACATTATCCACTCCATCTGATCTTGCAAAATCACCAGCATATTCAT
18160044 CAGCAACA
1 CAGCAACA
18160052 ACTTCACTAT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.35, C:0.29, G:0.10, T:0.26
Consensus pattern (51 bp):
CAGCAACATTATCCACTCCATCTGATCTTGCAAAATCACCAGCATATTCAT
Found at i:18161109 original size:117 final size:117
Alignment explanation
Indices: 18160900--18161110 Score: 323
Period size: 117 Copynumber: 1.8 Consensus size: 117
18160890 GGTAACAGAA
* * * * * *
18160900 ATCAACATCATCGGGACCACTGTCGCATCAGAAATCAACAAAACAAACCCTACATTGTGGCAATG
1 ATCAACAACATCGAGACCACTATCACATCAAAAAGCAACAAAACAAACCCTACATTGTGGCAATG
* * *
18160965 AAATTGCAATAATAAATTACAATTAACCATCTACAATTTTGATAACAGATTT
66 AAATTGCAATAATAAATCAAAAATAACCATCTACAATTTTGATAACAGATTT
* *
18161017 ATCAACAACATCGAGACCACTATCACATCAAAAAGCGACAAAACAAACCCTACATTGTGGCACTG
1 ATCAACAACATCGAGACCACTATCACATCAAAAAGCAACAAAACAAACCCTACATTGTGGCAATG
18161082 AAATTGCAATAATAAATCAAAAATAACCA
66 AAATTGCAATAATAAATCAAAAATAACCA
18161111 ACAAATCAAA
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
117 83 1.00
ACGTcount: A:0.45, C:0.23, G:0.10, T:0.22
Consensus pattern (117 bp):
ATCAACAACATCGAGACCACTATCACATCAAAAAGCAACAAAACAAACCCTACATTGTGGCAATG
AAATTGCAATAATAAATCAAAAATAACCATCTACAATTTTGATAACAGATTT
Found at i:18161318 original size:16 final size:16
Alignment explanation
Indices: 18161297--18161341 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
18161287 GGATGCTAAC
*
18161297 GATTTAAGGATTTTAA
1 GATTTAAGGATTTGAA
*
18161313 GATTTAGGGATTTGAA
1 GATTTAAGGATTTGAA
18161329 GATTTTAAGGATT
1 GA-TTTAAGGATT
18161342 CAATGAAGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 16 0.64
17 9 0.36
ACGTcount: A:0.33, C:0.00, G:0.24, T:0.42
Consensus pattern (16 bp):
GATTTAAGGATTTGAA
Found at i:18175112 original size:22 final size:22
Alignment explanation
Indices: 18175068--18175109 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
18175058 CTCGTAAGTC
*
18175068 AAGGAAAATAATATGCATAAAT
1 AAGGAAAATAATATACATAAAT
*
18175090 AAGGAAAA-GATATACATAAA
1 AAGGAAAATAATATACATAAA
18175110 ATATTCTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.62, C:0.05, G:0.14, T:0.19
Consensus pattern (22 bp):
AAGGAAAATAATATACATAAAT
Found at i:18175687 original size:6 final size:6
Alignment explanation
Indices: 18175676--18175704 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
18175666 TTAAAAGAAT
18175676 ATTTTA ATTTTA ATTTTA ATTTTA ATTTT
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTT
18175705 TTTTCAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
ATTTTA
Found at i:18185283 original size:25 final size:25
Alignment explanation
Indices: 18185255--18185303 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
18185245 ATAGTGTATG
*
18185255 TGTATATATATATATATTATAAAAA
1 TGTATATATATATAAATTATAAAAA
*
18185280 TGTATATATATTTAAATTATAAAA
1 TGTATATATATATAAATTATAAAA
18185304 TATGCATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (25 bp):
TGTATATATATATAAATTATAAAAA
Found at i:18185512 original size:21 final size:20
Alignment explanation
Indices: 18185488--18185539 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
18185478 TACATGTAAG
* *
18185488 TATAATAACAATAACATATCA
1 TATAATAACAATAA-AAATAA
*
18185509 TATAATAATAATAAAAATAA
1 TATAATAACAATAAAAATAA
18185529 TAATAATAACA
1 T-ATAATAACA
18185540 GTATTTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 5 0.19
21 21 0.81
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (20 bp):
TATAATAACAATAAAAATAA
Found at i:18185560 original size:36 final size:36
Alignment explanation
Indices: 18185489--18185561 Score: 87
Period size: 36 Copynumber: 2.0 Consensus size: 36
18185479 ACATGTAAGT
*
18185489 ATAATAACAATAACATATCATATAATAATAATAAAA
1 ATAATAACAATAACATATCATATAATAAAAATAAAA
* *
18185525 ATAATAATAATAACAGTAT-TTA-AATAAAAACTAAAA
1 ATAATAACAATAACA-TATCATATAATAAAAA-TAAAA
18185561 A
1 A
18185562 AAAAACCTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
35 7 0.22
36 22 0.69
37 3 0.09
ACGTcount: A:0.64, C:0.07, G:0.01, T:0.27
Consensus pattern (36 bp):
ATAATAACAATAACATATCATATAATAAAAATAAAA
Found at i:18204080 original size:21 final size:21
Alignment explanation
Indices: 18204056--18204096 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
18204046 TTTATAACAC
18204056 ATAAAAATTAAATCTATAGTA
1 ATAAAAATTAAATCTATAGTA
* **
18204077 ATAAATATTACTTCTATAGT
1 ATAAAAATTAAATCTATAGT
18204097 GTATACATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.39
Consensus pattern (21 bp):
ATAAAAATTAAATCTATAGTA
Found at i:18205633 original size:2 final size:2
Alignment explanation
Indices: 18205626--18205650 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18205616 ACAGTACTAG
18205626 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
18205651 GTAGGGGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18215954 original size:3 final size:3
Alignment explanation
Indices: 18215948--18215989 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
18215938 ATAATAATAA
* *
18215948 TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
18215990 AATTGCCCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:18216027 original size:22 final size:22
Alignment explanation
Indices: 18215999--18216078 Score: 72
Period size: 22 Copynumber: 3.5 Consensus size: 22
18215989 TAATTGCCCT
* *
18215999 TATATATATATACGTTTTTTTA
1 TATATATACATACATTTTTTTA
*
18216021 TATATATACATATATTTTTTTA
1 TATATATACATACATTTTTTTA
*
18216043 TATACT-TACACACATACTTTTTGTAA
1 TATA-TATACATACAT--TTTTT-T-A
18216069 TATATATACA
1 TATATATACA
18216079 CTTACATATT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
22 30 0.64
23 1 0.02
24 5 0.11
25 2 0.04
26 9 0.19
ACGTcount: A:0.36, C:0.10, G:0.03, T:0.51
Consensus pattern (22 bp):
TATATATACATACATTTTTTTA
Found at i:18216033 original size:24 final size:23
Alignment explanation
Indices: 18215999--18216078 Score: 81
Period size: 24 Copynumber: 3.3 Consensus size: 23
18215989 TAATTGCCCT
*
18215999 TATATATATATACGTTTTTTTATA
1 TATATACATATAC-TTTTTTTATA
18216023 TATATACATATA-TTTTTTTATA
1 TATATACATATACTTTTTTTATA
* * *
18216045 TACTTACACACATACTTTTTGTAATA
1 TA--TATACATATACTTTTT-TTATA
18216071 TATATACA
1 TATATACA
18216079 CTTACATATT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
22 12 0.26
24 24 0.51
25 5 0.11
26 6 0.13
ACGTcount: A:0.36, C:0.10, G:0.03, T:0.51
Consensus pattern (23 bp):
TATATACATATACTTTTTTTATA
Found at i:18216078 original size:26 final size:24
Alignment explanation
Indices: 18216019--18216088 Score: 61
Period size: 24 Copynumber: 2.8 Consensus size: 24
18216009 TACGTTTTTT
* * *
18216019 TATATATATACATATATTTTTTTA
1 TATATATACACACATATTTTTTAA
18216043 TATACT-TACACACATACTTTTTGTAA
1 TATA-TATACACACATA-TTTTT-TAA
18216069 TATATATACACTTACATATT
1 TATATATACAC--ACATATT
18216089 CTTCATTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
24 12 0.32
25 7 0.19
26 11 0.30
27 2 0.05
28 5 0.14
ACGTcount: A:0.37, C:0.13, G:0.01, T:0.49
Consensus pattern (24 bp):
TATATATACACACATATTTTTTAA
Found at i:18216186 original size:39 final size:39
Alignment explanation
Indices: 18216124--18216201 Score: 93
Period size: 39 Copynumber: 2.0 Consensus size: 39
18216114 TATATGTGTT
* * *
18216124 CTTTATATTTTATGATTCATACATATATCTATATATATA
1 CTTTATATTTTATGATACATACATACATATATATATATA
* ** *
18216163 CTTTTTATTTTATGATAGTTACATACATATATATTTATA
1 CTTTATATTTTATGATACATACATACATATATATATATA
18216202 TGCTTACTTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.04, T:0.53
Consensus pattern (39 bp):
CTTTATATTTTATGATACATACATACATATATATATATA
Found at i:18216929 original size:109 final size:108
Alignment explanation
Indices: 18216542--18217040 Score: 737
Period size: 109 Copynumber: 4.5 Consensus size: 108
18216532 TTCTAATTGG
* * *
18216542 GGCAATATTTAGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGATGCTGGGTGTCGATTTTTCT
1 GGCAATGTTTTGCGTTT-GGAAATTCGAG-AAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
* * * *
18216607 CGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTTAGAATAA
64 CATTCAACCAAATGGCTAAATATCCTTTTAAAAA-TTTCAAAATAA
18216653 GGCAATGTTTTGCGTTTGGAAATTCGAGAAATCATGCCCTAAGGTGCTGGGTGTCGATTTTTTCT
1 GGCAATGTTTTGCGTTTGGAAATTCGAGAAA-CATGCCCTAAGGTGCTGGGTGTCGA-TTTTTCT
* *
18216718 CGTTCAACCAAATGGCTAAATATCCTTTTAAAAAATTTTAAAATAA
64 CATTCAACCAAATGGCTAAATATCCTTTT-AAAAATTTCAAAATAA
* *
18216764 GGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGCGCTGGGTGTCGATTTTTCTC
1 GGCAATGTTTTGCGTTTGGAAATTCGAG-AAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTC
18216829 ATTCAACCAAATGGCTAAATATCCTTTTAAAAATTTCAAAATAA
65 ATTCAACCAAATGGCTAAATATCCTTTTAAAAATTTCAAAATAA
* * *
18216873 GGCAATTTTTTGCGTTTGGGAAATTCGAGGAACATGCCCTAAGGTGCTAGGTGTCGATTTTTCTC
1 GGCAATGTTTTGCGTTT-GGAAATTCGAGAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTC
*
18216938 ATTCAACCAAATGACTAAATATCCTTTTAAAAATTTCAAAATAA
65 ATTCAACCAAATGGCTAAATATCCTTTTAAAAATTTCAAAATAA
* * * * * *
18216982 GGCAATGTTTTGCGTTTGAAAATTCGAGGAACAAGCCTTAATGTGCTGGGTTTCGATTT
1 GGCAATGTTTTGCGTTTGGAAATTCGAGAAACATGCCCTAAGGTGCTGGGTGTCGATTT
18217041 CTCGATTGAT
Statistics
Matches: 361, Mismatches: 22, Indels: 13
0.91 0.06 0.03
Matches are distributed among these distances:
108 36 0.10
109 125 0.35
110 81 0.22
111 111 0.31
112 8 0.02
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (108 bp):
GGCAATGTTTTGCGTTTGGAAATTCGAGAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCA
TTCAACCAAATGGCTAAATATCCTTTTAAAAATTTCAAAATAA
Found at i:18222904 original size:21 final size:22
Alignment explanation
Indices: 18222878--18222922 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
18222868 TAAATGTGAA
*
18222878 TATGAT-GGTATATTTCTCAAT
1 TATGATAGCTATATTTCTCAAT
*
18222899 TATGATAATCTATATTTCTCAAT
1 TATGAT-AGCTATATTTCTCAAT
18222922 T
1 T
18222923 CCTTTCCTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
23 14 0.70
ACGTcount: A:0.31, C:0.11, G:0.09, T:0.49
Consensus pattern (22 bp):
TATGATAGCTATATTTCTCAAT
Found at i:18223888 original size:16 final size:18
Alignment explanation
Indices: 18223867--18223901 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
18223857 TATTCAAAAA
18223867 TAAAAATT-AAT-ATATT
1 TAAAAATTCAATAATATT
18223883 TAAAAATTCAATAATATT
1 TAAAAATTCAATAATATT
18223901 T
1 T
18223902 TTTTAGTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 3 0.18
18 6 0.35
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (18 bp):
TAAAAATTCAATAATATT
Found at i:18224000 original size:30 final size:28
Alignment explanation
Indices: 18223950--18224058 Score: 98
Period size: 28 Copynumber: 3.8 Consensus size: 28
18223940 TATTTAAGGT
*
18223950 TTAAAAATTATGTGTTACATTTTTATTATAA
1 TTAAAAA-TATGTATTACATTTTTA-TA-AA
* *
18223981 TTAAAAATACGTATTACATTTTTATAAT
1 TTAAAAATATGTATTACATTTTTATAAA
* *
18224009 TTAAAAATATGTATTACCAATTTTAGAAA
1 TTAAAAATATGTATTA-CATTTTTATAAA
*
18224038 --AAAAA-ATGTATATATATTTTT
1 TTAAAAATATGTAT-TACATTTTT
18224059 GAATGTTCCT
Statistics
Matches: 67, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
26 11 0.16
27 7 0.10
28 16 0.24
29 11 0.16
30 15 0.22
31 7 0.10
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.46
Consensus pattern (28 bp):
TTAAAAATATGTATTACATTTTTATAAA
Found at i:18224022 original size:28 final size:30
Alignment explanation
Indices: 18223949--18224025 Score: 104
Period size: 28 Copynumber: 2.6 Consensus size: 30
18223939 TTATTTAAGG
*
18223949 TTTAAAAATTATGTGTTACATTTTTATTATA
1 TTTAAAAA-TATGTATTACATTTTTATTATA
* *
18223980 ATTAAAAATACGTATTACATTTTTA-TA-A
1 TTTAAAAATATGTATTACATTTTTATTATA
18224008 TTTAAAAATATGTATTAC
1 TTTAAAAATATGTATTAC
18224026 CAATTTTAGA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 17 0.41
29 2 0.05
30 15 0.37
31 7 0.17
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.48
Consensus pattern (30 bp):
TTTAAAAATATGTATTACATTTTTATTATA
Found at i:18237390 original size:43 final size:42
Alignment explanation
Indices: 18237324--18237441 Score: 148
Period size: 42 Copynumber: 2.8 Consensus size: 42
18237314 AGCTCGTACA
* * *
18237324 ATGCCAACGTCCTAGAC-GAGGTCTTACATGTAATCAAATACCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACACGTAATCAAATA-CG
* * *
18237367 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATCATATACG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGTAATCAAATACG
*
18237409 ATGCCAATGTCCCAGACATGGTCTTACACGTAA
1 ATGCCAATGTCCCAGACAGGGTCTTACACGTAA
18237442 ATCTCAAATC
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 32 0.49
43 32 0.49
44 1 0.02
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACGTAATCAAATACG
Found at i:18237421 original size:42 final size:43
Alignment explanation
Indices: 18237324--18237444 Score: 147
Period size: 43 Copynumber: 2.8 Consensus size: 43
18237314 AGCTCGTACA
* * * *
18237324 ATGCCAACGTCCTAGAC-GAGGTCTTACATGTAATCAAATACCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACACGAAATCAAATACCG
* *
18237367 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATCATATA-CG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGAAATCAAATACCG
*
18237409 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATC
1 ATGCCAATGTCCCAGACAGGGTCTTACACG-AAATC
18237445 TCAAATCGAT
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
42 30 0.44
43 37 0.54
44 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.23
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACGAAATCAAATACCG
Found at i:18238783 original size:43 final size:42
Alignment explanation
Indices: 18238702--18238832 Score: 113
Period size: 43 Copynumber: 3.1 Consensus size: 42
18238692 CCGGGCTGTT
* * * *
18238702 ACGTATATCACATACA-ATGCCAAATCCCAGATATGGTCTTAC
1 ACGT-TATCACATATAGATGCCATATCCCAGAAAGGGTCTTAC
*
18238744 ATGTTATCACATATAGATGCCACTATCCCAGAAAGGGTCTTAC
1 ACGTTATCACATATAGATGCCA-TATCCCAGAAAGGGTCTTAC
* * * * * *
18238787 ACGTAAT-ATCATATCGATGCCAATGTCCCAGACATGATCTTAC
1 ACGTTATCA-CATATAGATGCC-ATATCCCAGAAAGGGTCTTAC
18238830 ACG
1 ACG
18238833 AAATCAAACC
Statistics
Matches: 73, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
41 10 0.14
42 10 0.14
43 52 0.71
44 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.27
Consensus pattern (42 bp):
ACGTTATCACATATAGATGCCATATCCCAGAAAGGGTCTTAC
Found at i:18239288 original size:11 final size:10
Alignment explanation
Indices: 18239264--18239301 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
18239254 AACACAATGT
18239264 AAAAATAG-A
1 AAAAATAGAA
18239273 AAAAATAGCAA
1 AAAAATAG-AA
18239284 AAAAATAGAA
1 AAAAATAGAA
18239294 GAAAAATA
1 -AAAAATA
18239302 TATATAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 8 0.31
10 2 0.08
11 16 0.62
ACGTcount: A:0.76, C:0.03, G:0.11, T:0.11
Consensus pattern (10 bp):
AAAAATAGAA
Found at i:18239464 original size:23 final size:23
Alignment explanation
Indices: 18239438--18239491 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
18239428 TCTGAGTTTT
18239438 TTTTCTTTTTGC-TTTTTTGATTA
1 TTTTCTTTTT-CATTTTTTGATTA
* *
18239461 TTTTCTTTTTCATTTTTTTATTC
1 TTTTCTTTTTCATTTTTTGATTA
18239484 TTTTCTTT
1 TTTTCTTT
18239492 GTTTGTTTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 1 0.04
23 27 0.96
ACGTcount: A:0.07, C:0.11, G:0.04, T:0.78
Consensus pattern (23 bp):
TTTTCTTTTTCATTTTTTGATTA
Found at i:18240250 original size:45 final size:45
Alignment explanation
Indices: 18240190--18240294 Score: 110
Period size: 46 Copynumber: 2.4 Consensus size: 45
18240180 ATCACGTTTT
* *
18240190 ATTATTTGT-AATTTATCA-ATAT-TATTATTTTAAATTCATCGTAA
1 ATTATTT-TAAATTTATCATATATAT-TTATTTAAAATTCATCATAA
* * *
18240234 CATTATTTTAAATTTATCATGTATATTTATTTAAAATTTATCATTA
1 -ATTATTTTAAATTTATCATATATATTTATTTAAAATTCATCATAA
18240280 A-TATTTTAAATTTAT
1 ATTATTTTAAATTTAT
18240295 TATGTACTAT
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
44 15 0.29
45 17 0.33
46 19 0.37
47 1 0.02
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (45 bp):
ATTATTTTAAATTTATCATATATATTTATTTAAAATTCATCATAA
Found at i:18240264 original size:69 final size:66
Alignment explanation
Indices: 18240121--18240360 Score: 159
Period size: 69 Copynumber: 3.5 Consensus size: 66
18240111 TGTTTAAACT
* * * * *
18240121 TATTA-TT-AAATTTATCATTAATATTATCTAAGTTTATTGTATATTATTATTTTAGATTTATCA
1 TATTATTTAAAATTTATCATTAATATT-T-TAAATTCATCGTA-A-CATTATTTTAAATTTATCA
*
18240184 CGTTT
62 CGTTA
** * *
18240189 TATTATTTGTAATTTATCAATATTATTATTTTAAATTCATCGTAACATTATTTTAAATTTATCAT
1 TATTATTTAAAATTTATC---ATTAATATTTTAAATTCATCGTAACATTATTTTAAATTTATCAC
18240254 G-TA
63 GTTA
* * **
18240257 TATTTATTTAAAATTTATCATTAATATTTTAAATTTATTATGT-ACTATTATTTTGGATTTATCA
1 TA-TTATTTAAAATTTATCATTAATATTTTAAATTCA-T-CGTAAC-ATTATTTTAAATTTATCA
18240321 CG-TA
62 CGTTA
* * *
18240325 TGATTATTCTAGAA-TTATCATCAAAATTTTTAAATT
1 T-ATTATT-TAAAATTTATCATTAATA-TTTTAAATT
18240361 TTATATGTAT
Statistics
Matches: 140, Mismatches: 20, Indels: 23
0.77 0.11 0.13
Matches are distributed among these distances:
66 16 0.11
67 3 0.02
68 45 0.32
69 48 0.34
70 9 0.06
71 10 0.07
72 1 0.01
73 8 0.06
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (66 bp):
TATTATTTAAAATTTATCATTAATATTTTAAATTCATCGTAACATTATTTTAAATTTATCACGTT
A
Found at i:18240290 original size:20 final size:23
Alignment explanation
Indices: 18240120--18240399 Score: 140
Period size: 24 Copynumber: 12.3 Consensus size: 23
18240110 ATGTTTAAAC
18240120 TTATTATTAAATTTATCAT-TAATA
1 TTATT-TTAAATTTATCATGT-ATA
* * ** *
18240144 TTA-TCTAAGTTTATTGTATATTA
1 TTATTTTAAATTTATCATGTA-TA
* * *
18240167 TTATTTTAGATTTATCACGTTTTA
1 TTATTTTAAATTTATCATG-TATA
*
18240191 TTATTTGT-AATTTATCA-ATATTA
1 TTATTT-TAAATTTATCATGTA-TA
* *
18240214 TTATTTTAAATTCATC--GTAACA
1 TTATTTTAAATTTATCATGT-ATA
18240236 TTATTTTAAATTTATCATGTATA
1 TTATTTTAAATTTATCATGTATA
*
18240259 TTTATTTAAAATTTATCAT-TA-A
1 -TTATTTTAAATTTATCATGTATA
*
18240281 -TATTTTAAATTTATTATGTACTA
1 TTATTTTAAATTTATCATGTA-TA
** *
18240304 TTATTTTGGATTTATCACGTATGA
1 TTATTTTAAATTTATCATGTAT-A
* * *
18240328 TTATTCTAGAA-TTATCAT-CAAA
1 TTATTTTA-AATTTATCATGTATA
*
18240350 AT-TTTTAAATTTTAT-ATGTATTA
1 TTATTTTAAA-TTTATCATGTA-TA
* *
18240373 TTATTTCAAATTTAT--TATATA
1 TTATTTTAAATTTATCATGTATA
18240394 TTATTT
1 TTATTT
18240400 ATTGTAAATT
Statistics
Matches: 194, Mismatches: 40, Indels: 47
0.69 0.14 0.17
Matches are distributed among these distances:
20 17 0.09
21 16 0.08
22 40 0.21
23 37 0.19
24 81 0.42
25 3 0.02
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.55
Consensus pattern (23 bp):
TTATTTTAAATTTATCATGTATA
Found at i:18240376 original size:137 final size:140
Alignment explanation
Indices: 18240128--18240407 Score: 308
Period size: 137 Copynumber: 2.0 Consensus size: 140
18240118 ACTTATTATT
* * * * *
18240128 AAATTTATCATTAATATTATCTAAGTTTATTGTATATTATTATTTTAGATTTATCACGTTTTATT
1 AAATTTATCATTAATATTATCTAAATTTATTATATACTATTATTTTAGATTTATCACGTATGATT
* *
18240193 ATTTGTAATTTATCAATATTATTATTTTAAATTCATCGTAACATTATTTTAAATTTATCATGTA-
66 ATTTGTAATTTATCAATA-TATTATTTTAAATTCATCGTAACATTATTTCAAATTTATCATATAT
18240257 TATTTATT-TA
130 TATTTATTGTA
* *
18240267 AAATTTATCATTAATATT-T-TAAATTTATTATGTACTATTATTTTGGATTTATCACGTATGATT
1 AAATTTATCATTAATATTATCTAAATTTATTATATACTATTATTTTAGATTTATCACGTATGATT
* * ** *
18240330 ATTCTAG-AATTATCATCAA-A-A-T-TTTTAAATTTTATATGTATTATTATTTCAAATTTATTA
66 ATT-T-GTAATT-T-ATCAATATATTATTTTAAA-TTCAT-CGTAACATTATTTCAAATTTATCA
18240390 TATATTATTTATTGTA
125 TATATTATTTATTGTA
18240406 AA
1 AA
18240408 TTATCCAATT
Statistics
Matches: 119, Mismatches: 14, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
135 7 0.06
136 5 0.04
137 63 0.53
138 14 0.12
139 25 0.21
140 5 0.04
ACGTcount: A:0.35, C:0.06, G:0.05, T:0.54
Consensus pattern (140 bp):
AAATTTATCATTAATATTATCTAAATTTATTATATACTATTATTTTAGATTTATCACGTATGATT
ATTTGTAATTTATCAATATATTATTTTAAATTCATCGTAACATTATTTCAAATTTATCATATATT
ATTTATTGTA
Found at i:18240386 original size:69 final size:68
Alignment explanation
Indices: 18240235--18240387 Score: 177
Period size: 68 Copynumber: 2.2 Consensus size: 68
18240225 TCATCGTAAC
* * *
18240235 ATTATTTTAAATTTATCATGTATATTTATTTAAAATTTATCATTAATATTTTAAATTTATTATGT
1 ATTATTTTAAATTTATCACGTATATTTATTTAAAATTTATCATCAAAATTTTAAATTTATTATGT
18240300 ACT
66 ACT
** *
18240303 ATTATTTTGGATTTATCACGTATGA-TTATTCTAGAA-TTATCATCAAAATTTTTAAATTT-TAT
1 ATTATTTTAAATTTATCACGTAT-ATTTATT-TAAAATTTATCATCAAAA-TTTTAAATTTAT-T
*
18240365 ATGTATT
62 ATGTACT
*
18240372 ATTATTTCAAATTTAT
1 ATTATTTTAAATTTAT
18240388 TATATATTAT
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
68 36 0.51
69 35 0.49
ACGTcount: A:0.35, C:0.06, G:0.05, T:0.54
Consensus pattern (68 bp):
ATTATTTTAAATTTATCACGTATATTTATTTAAAATTTATCATCAAAATTTTAAATTTATTATGT
ACT
Found at i:18240410 original size:69 final size:67
Alignment explanation
Indices: 18240235--18240412 Score: 182
Period size: 69 Copynumber: 2.6 Consensus size: 67
18240225 TCATCGTAAC
* *
18240235 ATTATTTTAAATTTATCATGTA-TATTTATTTAAAATTTATCATTAATATTTTAAATTTATTATG
1 ATTATTTTAAATTTATCATGTATTATTTATTT-AAA-TTATCATCAAAATTTTAAATTTATTATG
18240299 TACT
64 TACT
** * *
18240303 ATTATTTTGGATTTATCACGTATGA-TTATTCTAGAATTATCATCAAAATTTTTAAATTT-TATA
1 ATTATTTTAAATTTATCATGTATTATTTATT-TA-AATTATCATCAAAA-TTTTAAATTTAT-TA
*
18240366 TGTATT
62 TGTACT
* * *
18240372 ATTATTTCAAATTTATTATATATTATTTATTGTAAATTATC
1 ATTATTTTAAATTTATCATGTATTATTTATT-TAAATTATC
18240413 CAATTCATTT
Statistics
Matches: 89, Mismatches: 15, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
68 36 0.40
69 46 0.52
70 7 0.08
ACGTcount: A:0.35, C:0.06, G:0.05, T:0.54
Consensus pattern (67 bp):
ATTATTTTAAATTTATCATGTATTATTTATTTAAATTATCATCAAAATTTTAAATTTATTATGTA
CT
Found at i:18240411 original size:24 final size:23
Alignment explanation
Indices: 18240353--18240411 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 23
18240343 CATCAAAATT
18240353 TTTAAATT-TTATATGTATTATTA
1 TTTAAATTATTATA-GTATTATTA
18240376 TTTCAAATTTATTATA-TATTATTTA
1 TTT-AAA-TTATTATAGTATTA-TTA
18240401 TTGTAAATTAT
1 TT-TAAATTAT
18240412 CCAATTCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
23 3 0.10
24 12 0.39
25 10 0.32
26 6 0.19
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (23 bp):
TTTAAATTATTATAGTATTATTA
Found at i:18245506 original size:190 final size:190
Alignment explanation
Indices: 18245177--18245556 Score: 573
Period size: 190 Copynumber: 2.0 Consensus size: 190
18245167 TGTATACCAG
* **
18245177 ATAATCAGATTTCAGCACTATACAACACAAACGAATTCGAATAAACAATTTCTTATGCTTCTCAA
1 ATAATCAAATTTCAGCACTATACAACACAAACGAATTAAAATAAACAATTTCTTATGCTTCTCAA
* *
18245242 CTGCAAGTACACCCATATTCAACACTAACAGATTAACATAAAGGATACCCTTCTTAGCATTCAGA
66 CTACAAGTACACCCATATTCAACACCAACAGATTAACATAAAGGATACCCTTCTTAGCATTCAGA
* *
18245307 CACACACTTCTCTTAAAAAACTTCCTTAAAAACTTATCCAATTACTTTATAGATCTAATT
131 CACACACTTCTCTTAAAAAACTTCCTTAAAAACTTATCCAATTACTTTACAAATCTAATT
* * * *
18245367 ATAATCAAATTTTAGCATTATACAACACAGAA-GAATTAAAATAAACAATTTTTTATGTTTCTCA
1 ATAATCAAATTTCAGCACTATACAACACA-AACGAATTAAAATAAACAATTTCTTATGCTTCTCA
* * * *
18245431 ACTACGAGTACGCCCATATTCAACACCAACAGATTAACATGAAGGATACCCTTCTTAGCATTTAG
65 ACTACAAGTACACCCATATTCAACACCAACAGATTAACATAAAGGATACCCTTCTTAGCATTCAG
* * * *
18245496 ATATACACTTCTCTTTAAGAACTTCCTTAAAAACTTATCCAATTACTTTACAAATCTAATT
130 ACACACACTTCTCTTAAAAAACTTCCTTAAAAACTTATCCAATTACTTTACAAATCTAATT
18245557 CCATCAAAAT
Statistics
Matches: 170, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
190 168 0.99
191 2 0.01
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.32
Consensus pattern (190 bp):
ATAATCAAATTTCAGCACTATACAACACAAACGAATTAAAATAAACAATTTCTTATGCTTCTCAA
CTACAAGTACACCCATATTCAACACCAACAGATTAACATAAAGGATACCCTTCTTAGCATTCAGA
CACACACTTCTCTTAAAAAACTTCCTTAAAAACTTATCCAATTACTTTACAAATCTAATT
Found at i:18257079 original size:24 final size:25
Alignment explanation
Indices: 18257036--18257132 Score: 88
Period size: 25 Copynumber: 3.7 Consensus size: 25
18257026 TTACCACTTA
*
18257036 ATATATAACAAATAATTTAAAATAATT
1 ATATA-AATAAATAA-TTAAAATAATT
*
18257063 AT-TTAATAAATAATTAAAATAATT
1 ATATAAATAAATAATTAAAATAATT
* *
18257087 ATATAAATATATAATATAATATAATAT
1 ATATAAATAAATAAT-TAAAATAAT-T
*
18257114 AATATAAATTTAATAATTA
1 -ATATAAA-TAAATAATTA
18257133 TAAAAAGTAA
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
24 13 0.22
25 18 0.31
26 9 0.16
27 3 0.05
28 9 0.16
29 6 0.10
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (25 bp):
ATATAAATAAATAATTAAAATAATT
Found at i:18257094 original size:21 final size:21
Alignment explanation
Indices: 18257045--18257134 Score: 67
Period size: 24 Copynumber: 4.0 Consensus size: 21
18257035 AATATATAAC
18257045 AAATAATTTAAAATAATTATTTAAT
1 AAATAA-TTAAAATAATTA--T-AT
18257070 AAATAATTAAAATAATTATAT
1 AAATAATTAAAATAATTATAT
*
18257091 AAAT-ATATAATATAATATAATAT
1 AAATAAT-TAAAATAAT-T-ATAT
*
18257114 AATATAAATT-TAATAATTATA
1 AA-AT-AATTAAAATAATTATA
18257135 AAAAGTAAAC
Statistics
Matches: 56, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
20 2 0.04
21 14 0.25
22 5 0.09
23 7 0.12
24 19 0.34
25 7 0.12
26 2 0.04
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AAATAATTAAAATAATTATAT
Found at i:18257105 original size:5 final size:5
Alignment explanation
Indices: 18257068--18257120 Score: 55
Period size: 5 Copynumber: 11.8 Consensus size: 5
18257058 TAATTATTTA
*
18257068 ATAA- ATAAT -TAAA ATAAT -T-AT ATAA- AT-AT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
18257112 ATAAT ATAA
1 ATAAT ATAA
18257121 ATTTAATAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
3 3 0.07
4 13 0.32
5 25 0.61
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATAAT
Found at i:18257265 original size:31 final size:31
Alignment explanation
Indices: 18257237--18257294 Score: 84
Period size: 29 Copynumber: 1.9 Consensus size: 31
18257227 TTTATTTAAT
*
18257237 ATAAAATATTTTTA-AAT-AATTTAAATTTA
1 ATAAAATATTATTATAATCAATTTAAATTTA
*
18257266 ATAAAATATTATTATAATCATTTTAAATT
1 ATAAAATATTATTATAATCAATTTAAATT
18257295 ATTATTTAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 13 0.52
30 3 0.12
31 9 0.36
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (31 bp):
ATAAAATATTATTATAATCAATTTAAATTTA
Found at i:18262601 original size:13 final size:13
Alignment explanation
Indices: 18262583--18262608 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18262573 CTGGAAGTAT
18262583 TATGATATTATGC
1 TATGATATTATGC
18262596 TATGATATTATGC
1 TATGATATTATGC
18262609 ATAAGCATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
TATGATATTATGC
Found at i:18269032 original size:15 final size:16
Alignment explanation
Indices: 18269006--18269035 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
18268996 AAAATCATAA
18269006 GCCCGAGCCCGACCCG
1 GCCCGAGCCCGACCCG
18269022 GCCCG-GCCCGACCC
1 GCCCGAGCCCGACCC
18269036 ATTTTTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.10, C:0.60, G:0.30, T:0.00
Consensus pattern (16 bp):
GCCCGAGCCCGACCCG
Found at i:18269086 original size:12 final size:11
Alignment explanation
Indices: 18269071--18269138 Score: 55
Period size: 11 Copynumber: 5.6 Consensus size: 11
18269061 AAAAAAAATA
18269071 AAAAAGTATTTT
1 AAAAA-TATTTT
18269083 AAAAATATTTT
1 AAAAATATTTT
** *
18269094 AAAAATAACAAAATA
1 AAAAAT----ATTTT
18269109 AAAAAGTATTTT
1 AAAAA-TATTTT
18269121 AAAAATATTTT
1 AAAAATATTTT
18269132 AAAAATA
1 AAAAATA
18269139 AAAAAATAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
11 25 0.56
12 12 0.27
15 7 0.16
16 1 0.02
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:18269116 original size:38 final size:38
Alignment explanation
Indices: 18269062--18269151 Score: 171
Period size: 38 Copynumber: 2.4 Consensus size: 38
18269052 CCAAAAATAA
18269062 AAAAAAATAAAAAAGTATTTTAAAAATATTTTAAAAAT
1 AAAAAAATAAAAAAGTATTTTAAAAATATTTTAAAAAT
*
18269100 AACAAAATAAAAAAGTATTTTAAAAATATTTTAAAAAT
1 AAAAAAATAAAAAAGTATTTTAAAAATATTTTAAAAAT
18269138 AAAAAAATAAAAAA
1 AAAAAAATAAAAAA
18269152 ATTATTATAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.69, C:0.01, G:0.02, T:0.28
Consensus pattern (38 bp):
AAAAAAATAAAAAAGTATTTTAAAAATATTTTAAAAAT
Found at i:18272116 original size:15 final size:15
Alignment explanation
Indices: 18272096--18272132 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
18272086 ACGATTTCAA
18272096 AAGATGATTTTAATC
1 AAGATGATTTTAATC
18272111 AAGATGATTTTAATC
1 AAGATGATTTTAATC
18272126 AAGATGA
1 AAGATGA
18272133 CATAATTGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.43, C:0.05, G:0.16, T:0.35
Consensus pattern (15 bp):
AAGATGATTTTAATC
Found at i:18273670 original size:10 final size:11
Alignment explanation
Indices: 18273630--18273668 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
18273620 AATCTGTCAA
*
18273630 AAAATTTAATC
1 AAAATTTAATT
18273641 AAAATTTAATAT
1 AAAATTTAAT-T
18273653 AAAA-TTAATT
1 AAAATTTAATT
18273663 AAAATT
1 AAAATT
18273669 AAACATGTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
10 5 0.20
11 16 0.64
12 4 0.16
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAATTTAATT
Found at i:18273914 original size:69 final size:69
Alignment explanation
Indices: 18273802--18273950 Score: 212
Period size: 69 Copynumber: 2.2 Consensus size: 69
18273792 CGTGTTTCCA
* *
18273802 ACAGTAAACACGAGGAATATAAGGTGTAAGACCATAGTAGGACTATGGCAATCC-AGGTAGTCTG
1 ACAGTAAACACAAGGAATATAAGGTGTAAGACCATAGTAGGACTATGGCAA-CCTAGGTAGTCCG
*
18273866 TCGGG
65 TAGGG
* * *
18273871 ACAGTAAACACAAGGGATATAAGGTGTAAGATCATAGTTGGACTATGGCAACCTAGGTAGTCCGT
1 ACAGTAAACACAAGGAATATAAGGTGTAAGACCATAGTAGGACTATGGCAACCTAGGTAGTCCGT
18273936 AGGG
66 AGGG
18273940 AC-GATAAACAC
1 ACAG-TAAACAC
18273951 GGGTGATACT
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
68 3 0.04
69 69 0.96
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.20
Consensus pattern (69 bp):
ACAGTAAACACAAGGAATATAAGGTGTAAGACCATAGTAGGACTATGGCAACCTAGGTAGTCCGT
AGGG
Found at i:18275818 original size:51 final size:51
Alignment explanation
Indices: 18275722--18275829 Score: 128
Period size: 51 Copynumber: 2.1 Consensus size: 51
18275712 CCAAACATAT
* * *
18275722 GTTCATATGAAATAACAATTCTTACCAAAGGACAACTTATGCAAAATAATA
1 GTTCATATGAAATAACAATTCATACCAAAGAACAACTTATGCAAAATAAAA
* * * * *
18275773 GTTCATATGAAATATCAGTTCATATCAAATAACAA-TTCATTCAAAATAAAA
1 GTTCATATGAAATAACAATTCATACCAAAGAACAACTT-ATGCAAAATAAAA
18275824 GTTCAT
1 GTTCAT
18275830 GCTCCATCAT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
50 2 0.04
51 46 0.96
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (51 bp):
GTTCATATGAAATAACAATTCATACCAAAGAACAACTTATGCAAAATAAAA
Found at i:18275828 original size:17 final size:18
Alignment explanation
Indices: 18275772--18275829 Score: 61
Period size: 17 Copynumber: 3.4 Consensus size: 18
18275762 GCAAAATAAT
* *
18275772 AGTTCATATGAAATATC-
1 AGTTCATATCAAATAACA
18275789 AGTTCATATCAAATAACA
1 AGTTCATATCAAATAACA
18275807 A-TTCAT-TCAAAATAA-A
1 AGTTCATATC-AAATAACA
18275823 AGTTCAT
1 AGTTCAT
18275830 GCTCCATCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
16 4 0.11
17 31 0.86
18 1 0.03
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.33
Consensus pattern (18 bp):
AGTTCATATCAAATAACA
Found at i:18275926 original size:23 final size:22
Alignment explanation
Indices: 18275892--18275935 Score: 79
Period size: 23 Copynumber: 2.0 Consensus size: 22
18275882 TTATGAAACA
18275892 TATAAGGGACTCTATCACCACC
1 TATAAGGGACTCTATCACCACC
18275914 TATAAGTGGACTCTATCACCAC
1 TATAAG-GGACTCTATCACCAC
18275936 ACATTGGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.25
Consensus pattern (22 bp):
TATAAGGGACTCTATCACCACC
Found at i:18276485 original size:18 final size:18
Alignment explanation
Indices: 18276462--18276522 Score: 77
Period size: 18 Copynumber: 3.4 Consensus size: 18
18276452 AATTTGGAAA
18276462 ATTAATACAGTTCGCCAT
1 ATTAATACAGTTCGCCAT
* * *
18276480 ATTAATACAGATCACCAA
1 ATTAATACAGTTCGCCAT
*
18276498 ATTAACACAGTTCGCCAT
1 ATTAATACAGTTCGCCAT
*
18276516 AATAATA
1 ATTAATA
18276523 TAATTCACCA
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28
Consensus pattern (18 bp):
ATTAATACAGTTCGCCAT
Found at i:18276531 original size:36 final size:36
Alignment explanation
Indices: 18276460--18276540 Score: 110
Period size: 36 Copynumber: 2.2 Consensus size: 36
18276450 ACAATTTGGA
* *
18276460 AAATTAATACAGTTCGCCATATTAATACAGATCACC
1 AAATTAACACAGTTCGCCATAATAATACAGATCACC
*
18276496 AAATTAACACAGTTCGCCATAATAATATA-ATTCACC
1 AAATTAACACAGTTCGCCATAATAATACAGA-TCACC
*
18276532 AAGTTAACA
1 AAATTAACA
18276541 TGGTTCATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 1 0.03
36 39 0.98
ACGTcount: A:0.44, C:0.21, G:0.07, T:0.27
Consensus pattern (36 bp):
AAATTAACACAGTTCGCCATAATAATACAGATCACC
Found at i:18282430 original size:41 final size:41
Alignment explanation
Indices: 18282357--18282436 Score: 97
Period size: 41 Copynumber: 2.0 Consensus size: 41
18282347 ACGCCTAAAG
* * **** *
18282357 ATGAGTAAGACCATAGCTGAAAGATGTTATGGCGTCATGAT
1 ATGAATAAGACCATAACTGAAAGACACCATGGCATCATGAT
18282398 ATGAATAAGACCATAACTGAAAGACACCATGGCATCATG
1 ATGAATAAGACCATAACTGAAAGACACCATGGCATCATG
18282437 GAAACAGGAC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.23
Consensus pattern (41 bp):
ATGAATAAGACCATAACTGAAAGACACCATGGCATCATGAT
Found at i:18289113 original size:11 final size:12
Alignment explanation
Indices: 18289093--18289157 Score: 51
Period size: 12 Copynumber: 5.3 Consensus size: 12
18289083 TAAAAATTAA
18289093 AAAAAGTATTTT
1 AAAAAGTATTTT
18289105 AAAAA-TATTTT
1 AAAAAGTATTTT
** ** *
18289116 AAAATAAAAAATA
1 AAAA-AGTATTTT
18289129 AAAAATGTATTTT
1 AAAAA-GTATTTT
*
18289142 AAAAAATATTTT
1 AAAAAGTATTTT
18289154 AAAA
1 AAAA
18289158 TTAAAAAAAT
Statistics
Matches: 40, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
11 10 0.25
12 17 0.43
13 13 0.32
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (12 bp):
AAAAAGTATTTT
Found at i:18289125 original size:37 final size:39
Alignment explanation
Indices: 18289082--18289165 Score: 136
Period size: 37 Copynumber: 2.2 Consensus size: 39
18289072 AAAATTTATT
*
18289082 TTAAAAATTAAAAAAAGTATTTT-AAAAATATTTTAAAA
1 TTAAAAAATAAAAAAAGTATTTTAAAAAATATTTTAAAA
*
18289120 -TAAAAAATAAAAAATGTATTTTAAAAAATATTTTAAAA
1 TTAAAAAATAAAAAAAGTATTTTAAAAAATATTTTAAAA
18289158 TTAAAAAA
1 TTAAAAAA
18289166 ATTTAAAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
37 20 0.48
38 15 0.36
39 7 0.17
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (39 bp):
TTAAAAAATAAAAAAAGTATTTTAAAAAATATTTTAAAA
Found at i:18289127 original size:38 final size:41
Alignment explanation
Indices: 18289084--18289176 Score: 140
Period size: 38 Copynumber: 2.3 Consensus size: 41
18289074 AATTTATTTT
18289084 AAAAATTAAAAAAAGTATTTT-AAAAATATTTTAAAA-T-A
1 AAAAATTAAAAAAAGTATTTTAAAAAATATTTTAAAATTAA
*
18289122 AAAAA-TAAAAAATGTATTTTAAAAAATATTTTAAAATTAA
1 AAAAATTAAAAAAAGTATTTTAAAAAATATTTTAAAATTAA
18289162 AAAAATTTAAAAAAA
1 AAAAA-TTAAAAAAA
18289177 TAAATATATT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
37 14 0.29
38 20 0.42
39 1 0.02
40 6 0.12
42 7 0.15
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (41 bp):
AAAAATTAAAAAAAGTATTTTAAAAAATATTTTAAAATTAA
Found at i:18289163 original size:18 final size:16
Alignment explanation
Indices: 18289140--18289173 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
18289130 AAAATGTATT
18289140 TTAAAAAATATTTTAAAA
1 TTAAAAAA-A-TTTAAAA
18289158 TTAAAAAAATTTAAAA
1 TTAAAAAAATTTAAAA
18289174 AAATAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 1 0.06
18 8 0.50
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TTAAAAAAATTTAAAA
Found at i:18289175 original size:18 final size:18
Alignment explanation
Indices: 18289140--18289174 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
18289130 AAAATGTATT
*
18289140 TTAAAAAATATTTTAAAA
1 TTAAAAAATATTTAAAAA
18289158 TTAAAAAA-ATTTAAAAA
1 TTAAAAAATATTTAAAAA
18289175 AATAAATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
TTAAAAAATATTTAAAAA
Found at i:18291486 original size:3 final size:3
Alignment explanation
Indices: 18291478--18291512 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
18291468 TTATACTGTT
18291478 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
18291513 TTATAGCGCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:18291849 original size:2 final size:2
Alignment explanation
Indices: 18291842--18291869 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18291832 TTCGTAAGTG
18291842 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18291870 GCTTTTCACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18303987 original size:29 final size:28
Alignment explanation
Indices: 18303925--18303989 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
18303915 TTAAACTGCA
* *
18303925 AAAAT-ATAATAAAAAACCTAATAAAAT
1 AAAATAATAATAAAAAACCTAAGAAAAC
18303952 AACAATAATAATAATAAAACC-ATAGAAAAC
1 AA-AATAATAATAA-AAAACCTA-AGAAAAC
18303982 AAAATAAT
1 AAAATAAT
18303990 TGTCAAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
27 2 0.06
28 3 0.09
29 14 0.44
30 13 0.41
ACGTcount: A:0.69, C:0.09, G:0.02, T:0.20
Consensus pattern (28 bp):
AAAATAATAATAAAAAACCTAAGAAAAC
Found at i:18304775 original size:29 final size:30
Alignment explanation
Indices: 18304738--18304801 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 30
18304728 ATATTTTTTC
*
18304738 TATTCTCGTAAATATT-ATTCATGTTATTT
1 TATTCTCGTAAATATTGATTCATGTTATAT
* * * *
18304767 TATTTTCGTATATATTGATTTATTTTATAT
1 TATTCTCGTAAATATTGATTCATGTTATAT
18304797 TATTC
1 TATTC
18304802 ATGTAAAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
29 14 0.50
30 14 0.50
ACGTcount: A:0.27, C:0.08, G:0.06, T:0.59
Consensus pattern (30 bp):
TATTCTCGTAAATATTGATTCATGTTATAT
Found at i:18306804 original size:14 final size:14
Alignment explanation
Indices: 18306785--18306812 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
18306775 GAAACAATAC
18306785 TAGTTATGTATTTT
1 TAGTTATGTATTTT
18306799 TAGTTATGTATTTT
1 TAGTTATGTATTTT
18306813 AATAAAGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.14, T:0.64
Consensus pattern (14 bp):
TAGTTATGTATTTT
Found at i:18315779 original size:27 final size:27
Alignment explanation
Indices: 18315743--18315834 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
18315733 AGACCCTAAA
*
18315743 ATAGGGTAAAATAACTGAAATACCCCT
1 ATAGGGTAAAATAACCGAAATACCCCT
* *
18315770 ATAGGTTAAAATAACCGAAATACCCCC
1 ATAGGGTAAAATAACCGAAATACCCCT
* * *
18315797 ATAGGATAAAATGACCAAAATACCCC-
1 ATAGGGTAAAATAACCGAAATACCCCT
18315823 ATAGGGTAAAAT
1 ATAGGGTAAAAT
18315835 GACTGTTATA
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
26 11 0.19
27 47 0.81
ACGTcount: A:0.47, C:0.20, G:0.14, T:0.20
Consensus pattern (27 bp):
ATAGGGTAAAATAACCGAAATACCCCT
Found at i:18315845 original size:26 final size:26
Alignment explanation
Indices: 18315743--18315866 Score: 115
Period size: 27 Copynumber: 4.7 Consensus size: 26
18315733 AGACCCTAAA
*
18315743 ATAGGGTAAAATAACTGAAATACCCC
1 ATAGGGTAAAATGACTGAAATACCCC
* * *
18315769 TATAGGTTAAAATAACCGAAATACCCCC
1 -ATAGGGTAAAATGACTGAAATA-CCCC
* **
18315797 ATAGGATAAAATGACCAAAATACCCC
1 ATAGGGTAAAATGACTGAAATACCCC
**
18315823 ATAGGGTAAAATGACTGTTATACCCC
1 ATAGGGTAAAATGACTGAAATACCCC
*
18315849 -TAGGAGATGAAATGACTG
1 ATAGG-G-TAAAATGACTG
18315867 TTATGGCTTT
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
25 4 0.05
26 26 0.31
27 49 0.59
28 4 0.05
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (26 bp):
ATAGGGTAAAATGACTGAAATACCCC
Found at i:18316450 original size:37 final size:37
Alignment explanation
Indices: 18316409--18316489 Score: 92
Period size: 37 Copynumber: 2.2 Consensus size: 37
18316399 CCAATCATTT
* *
18316409 ACTGTTACGGGAA-GGGCTTAGGCCCACACTGAACTGG
1 ACTGTTACGGGAATGGGCTAAGGCCCA-ACTGAACTGA
****
18316446 ACTGTTATTTTAATGGGCTAAGGCCCAACTGAACTGA
1 ACTGTTACGGGAATGGGCTAAGGCCCAACTGAACTGA
18316483 ACTGTTA
1 ACTGTTA
18316490 TTAAATTGGG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
37 25 0.68
38 12 0.32
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (37 bp):
ACTGTTACGGGAATGGGCTAAGGCCCAACTGAACTGA
Found at i:18316500 original size:37 final size:37
Alignment explanation
Indices: 18316422--18316510 Score: 110
Period size: 37 Copynumber: 2.4 Consensus size: 37
18316412 GTTACGGGAA
* * *
18316422 GGGCTTAGGCCCACACTGAACTGGACTGTTATTTTAAT
1 GGGCTAAGGCCCA-ACTGAACTGAACTGTTATTTAAAT
18316460 GGGCTAAGGCCCAACTGAACTGAACTGTTA-TTAAATT
1 GGGCTAAGGCCCAACTGAACTGAACTGTTATTTAAA-T
18316497 GGGCTTAA-GCCCAA
1 GGGC-TAAGGCCCAA
18316511 ACTGTAAATG
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
36 4 0.09
37 27 0.59
38 15 0.33
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (37 bp):
GGGCTAAGGCCCAACTGAACTGAACTGTTATTTAAAT
Found at i:18316819 original size:17 final size:17
Alignment explanation
Indices: 18316795--18316876 Score: 83
Period size: 17 Copynumber: 4.6 Consensus size: 17
18316785 GAATTGAATC
18316795 ACTACATAATTAAAAAT
1 ACTACATAATTAAAAAT
* ***
18316812 ATTACATAAGTCTTTGAAT
1 ACTACATAA-T-TAAAAAT
*
18316831 CACTACATAATTAAAAAC
1 -ACTACATAATTAAAAAT
18316849 ACTACATAATTAAAAAT
1 ACTACATAATTAAAAAT
*
18316866 ATTACATAATT
1 ACTACATAATT
18316877 CTTGAAATTA
Statistics
Matches: 51, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
17 34 0.67
18 4 0.08
19 5 0.10
20 8 0.16
ACGTcount: A:0.51, C:0.13, G:0.02, T:0.33
Consensus pattern (17 bp):
ACTACATAATTAAAAAT
Done.