Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 155 of 211
Found at i:48722627 original size:18 final size:18
Alignment explanation
Indices: 48722604--48722639 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
48722594 CAGGTGCGTT
48722604 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
48722622 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
48722640 CCATTTTCCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.06, T:0.39
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:48723100 original size:25 final size:25
Alignment explanation
Indices: 48723072--48723119 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
48723062 TATTTTGATA
48723072 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
48723097 TTATTTGATGTAATAAAATAGAA
1 TTATTTGATGTAATAAAATAGAA
48723120 ATTTTTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.40
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:48723195 original size:23 final size:23
Alignment explanation
Indices: 48723165--48723757 Score: 561
Period size: 23 Copynumber: 26.1 Consensus size: 23
48723155 AATACCCTTA
48723165 AATTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
*
48723188 AATTAAAAACCTTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* **
48723210 ACTTAAAAACCCTAACC--CCTT
1 AATTAAAAACCCTAACCTAATTT
*
48723231 AACTTAAAAACCCTAACCTAATTA
1 AA-TTAAAAACCCTAACCTAATTT
*
48723255 AATTAAAAACCTTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
*
48723278 AATTAAAAACTCTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* *
48723300 ACTTAAAAACCCTAATCTAATTT
1 AATTAAAAACCCTAACCTAATTT
48723323 AATTAAAAACCCTAAACCTTAA---
1 AATTAAAAACCCT-AACC-TAATTT
* * *
48723345 ACTTTAAAACCCTAACCTAATTA
1 AATTAAAAACCCTAACCTAATTT
*
48723368 AATTAAAAATCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
*
48723391 AATTAAAAACTCTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* * *
48723413 ACTTAAAATCTCTAACCTAA-TT
1 AATTAAAAACCCTAACCTAATTT
*
48723435 AACTTAAAAACCCTAACCTAATTA
1 AA-TTAAAAACCCTAACCTAATTT
*
48723459 AATTAAAAACCTTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
48723482 AATTAAAAACCCTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
*
48723504 ACTTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
*
48723527 AATTAAAAACCCTAACCTAATTA
1 AATTAAAAACCCTAACCTAATTT
48723550 AATTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
48723573 AATTAAAAACCCTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* *
48723595 ACTTAAAAACCCTAACCTAATTA
1 AATTAAAAACCCTAACCTAATTT
* *
48723618 AATTAAAAACCCTAACATAATTA
1 AATTAAAAACCCTAACCTAATTT
48723641 AATTAAAAACCCTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* ***
48723663 ACTTAAAAACCCTAA-CTCCCTT
1 AATTAAAAACCCTAACCTAATTT
* *
48723685 AACTTAAAACCCCTAACCTAATTA
1 AA-TTAAAAACCCTAACCTAATTT
48723709 AATTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
* *
48723732 AATTAAAAACCCTAAACTAAATT
1 AATTAAAAACCCTAACCTAATTT
48723755 AAT
1 AAT
48723758 AATTTTACTT
Statistics
Matches: 474, Mismatches: 55, Indels: 82
0.78 0.09 0.13
Matches are distributed among these distances:
19 2 0.00
20 24 0.05
21 17 0.04
22 97 0.20
23 276 0.58
24 26 0.05
25 32 0.07
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (23 bp):
AATTAAAAACCCTAACCTAATTT
Found at i:48723215 original size:22 final size:22
Alignment explanation
Indices: 48723190--48723310 Score: 90
Period size: 22 Copynumber: 5.4 Consensus size: 22
48723180 CCTAATTTAA
48723190 TTAAAAACCTTAAACCCTAAAC
1 TTAAAAACCTTAAACCCTAAAC
* * *
48723212 TTAAAAACCCTAACCCCTTAAC
1 TTAAAAACCTTAAACCCTAAAC
* *
48723234 TTAAAAACCCT-AA-CCTAATTAAA
1 TTAAAAACCTTAAACCCT-A--AAC
*
48723257 TTAAAAACCTT-AA-CCTAATTTAA
1 TTAAAAACCTTAAACCCTAA---AC
48723280 TTAAAAA-CTCTAAACCCTAAAC
1 TTAAAAACCT-TAAACCCTAAAC
48723302 TTAAAAACC
1 TTAAAAACC
48723311 CTAATCTAAT
Statistics
Matches: 81, Mismatches: 8, Indels: 19
0.75 0.07 0.18
Matches are distributed among these distances:
20 4 0.05
21 1 0.01
22 41 0.51
23 28 0.35
24 2 0.02
25 5 0.06
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (22 bp):
TTAAAAACCTTAAACCCTAAAC
Found at i:48723320 original size:68 final size:67
Alignment explanation
Indices: 48723158--48723757 Score: 472
Period size: 68 Copynumber: 8.8 Consensus size: 67
48723148 AACCATTAAT
*
48723158 ACCCTTAAA-TTAAAAACCCTAACCTAATTTAATTAAAAACCTTAAACCCTAA--ACTTAAAAAC
1 ACCC-TAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCTT-AA-CCTAATTAATTAAAAAC
48723220 CCTAA
63 CCTAA
* * * *
48723225 CCCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCTTAACCTAATTTAATTAAAAACTC
1 ACCCTAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCTTAACCTAA-TTAATTAAAAACCC
48723290 TAA
65 TAA
* * * *
48723293 ACCCTAAACTTAAAAACCCTAATCTAATTTAATTAAAAACCCTAAACCTTAA--ACTTTAAAACC
1 ACCCTAAACTTAAAAACCCTAACCTAATTTAATTAAAAA-CCTTAACC-TAATTAATTAAAAACC
48723356 CT-A
64 CTAA
* * * *
48723359 A-CCTAATTAAATTAAAAATCCTAACCTAATTTAATTAAAAACTCTAAACCCTAA--ACTTAAAA
1 ACCCT-A--AACTTAAAAACCCTAACCTAATTTAATTAAAAAC-CTTAA-CCTAATTAATTAAAA
* *
48723421 TCTCT-A
61 ACCCTAA
*
48723427 A-CCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCTTAACCTAATTTAATTAAAAA
1 ACCCT-A--AACTTAAAAACCCTAACCTAATTTAATTAAAAACCTTAACCTAA-TTAATTAAAAA
48723491 CCCTAA
62 CCCTAA
*
48723497 ACCCTAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTAAATTAAAAACCC
1 ACCCTAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCTTAACCTAATT-AATTAAAAACCC
48723562 T-A
65 TAA
* * *
48723564 A-CCTAATTTAATTAAAAACCCTAAACCCTAA---ACTTAAAAACCCTAACCTAATTAAATTAAA
1 ACCCTAA---ACTTAAAAACCCT-AA-CCTAATTTAATTAAAAACCTTAACCTAATT-AATTAAA
48723625 AACCCTAA
60 AACCCTAA
*** * * **
48723633 CATAATTAAA-TTAAAAACCCTAAACCCTAA---ACTTAAAAACCCTAA-CTCCCTTAACTTAAA
1 -A-CCCTAAACTTAAAAACCCT-AA-CCTAATTTAATTAAAAACCTTAACCT-AATTAA-TTAAA
*
48723693 ACCCCT-A
60 AACCCTAA
* * *
48723700 A-CCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACTAAATTAAT
1 ACCCT-A--AACTTAAAAACCCTAACCTAATTTAATTAAAAACCTTAACCT-AATTAAT
48723758 AATTTTACTT
Statistics
Matches: 456, Mismatches: 41, Indels: 70
0.80 0.07 0.12
Matches are distributed among these distances:
64 1 0.00
65 9 0.02
66 24 0.05
67 64 0.14
68 284 0.62
69 48 0.11
70 15 0.03
71 8 0.02
72 3 0.01
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (67 bp):
ACCCTAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCTTAACCTAATTAATTAAAAACCCT
AA
Found at i:48723456 original size:91 final size:89
Alignment explanation
Indices: 48723162--48723757 Score: 710
Period size: 91 Copynumber: 6.6 Consensus size: 89
48723152 ATTAATACCC
* *
48723162 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCTTAAACCCTAA--ACTTAAAAACCCTAA
1 TTAAATTAAAAACCCTAACCTAATTAAATTAAAAACC-T-AA-CCTAATTAATTAAAAACCCTAA
* *
48723225 CCCCTTAACTTAAAAACCCTAACCTAA
63 ACCCTAAACTTAAAAACCCTAACCTAA
* * *
48723252 TTAAATTAAAAACCTTAACCTAATTTAATTAAAAACTCTAAACCCTAA--ACTTAAAAACCCT-A
1 TTAAATTAAAAACCCTAACCTAATTAAATTAAAAAC-CT-AA-CCTAATTAATTAAAAACCCTAA
* *
48723314 A-TCTAATTTAATTAAAAACCCTAAACC---
63 ACCCTAA---ACTTAAAAACCCT-AACCTAA
* *
48723341 TTAAACTTTAAAACCCTAACCTAATTAAATTAAAAATCCTAACCTAATTTAATTAAAAACTCTAA
1 TTAAA-TTAAAAACCCTAACCTAATTAAATTAAAAA-CCTAACCTAA-TTAATTAAAAACCCTAA
* *
48723406 ACCCTAAACTTAAAATCTCTAACCTAA
63 ACCCTAAACTTAAAAACCCTAACCTAA
*
48723433 TTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCTTAACCTAATTTAATTAAAAACCCTAAA
1 TTAAATTAAAAACCCTAACCTAATTAAATTAAAAACC-TAACCTAA-TTAATTAAAAACCCTAAA
48723498 CCCTAAACTTAAAAACCCTAACCTAA
64 CCCTAAACTTAAAAACCCTAACCTAA
*
48723524 TTTAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAA
1 TTAAATTAAAAACCCTAACCTAATTAAATTAAAAA-CCTAACCTAA-TTAATTAAAAACCCTAAA
48723589 CCCTAAACTTAAAAACCCTAACCTAA
64 CCCTAAACTTAAAAACCCTAACCTAA
* *
48723615 TTAAATTAAAAACCCTAACATAATTAAATTAAAAACCCTAAACCCTAA--ACTTAAAAACCCTAA
1 TTAAATTAAAAACCCTAACCTAATTAAATTAAAAA-CCT-AA-CCTAATTAATTAAAAACCCTAA
* * *
48723678 CTCCCTTAACTTAAAACCCCTAACCTAA
63 -ACCCTAAACTTAAAAACCCTAACCTAA
* *
48723706 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACTAAATTAAT
1 TTAAATTAAAAACCCTAACCTAATTAAATTAAAAA-CCTAACCT-AATTAAT
48723758 AATTTTACTT
Statistics
Matches: 452, Mismatches: 31, Indels: 44
0.86 0.06 0.08
Matches are distributed among these distances:
88 8 0.02
89 14 0.03
90 117 0.26
91 288 0.64
92 16 0.04
93 9 0.02
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (89 bp):
TTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCTAACCTAATTAATTAAAAACCCTAAACC
CTAAACTTAAAAACCCTAACCTAA
Found at i:48723496 original size:159 final size:158
Alignment explanation
Indices: 48723207--48723748 Score: 624
Period size: 159 Copynumber: 3.4 Consensus size: 158
48723197 CCTTAAACCC
** * *
48723207 TAAACTTAAAAACCCTAACC-CCTTAACTTAAAAACCCT-AACCTAATTAAATTAAAAA-CCTTA
1 TAAA-TTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCTAA-T-AATTAAAAACCCTAA
* * * *
48723269 A-CCTAATTTAATTAAAAACTCTAAACCCT-A--AACTTAAAAACCCTAATCTAATTTAATTAAA
63 ACCCTAA---ACTTAAAAACCCT-AA-CCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAA
* *
48723330 AACCCTAAACCTTAAACTTTAAAACCCTAACCTAAT
123 AACCCTAAACCCTAAACTTAAAAACCCTAACCTAAT
* * * * * *
48723366 TAAATTAAAAATCCTAACCTAATTTAATTAAAAACTCTAAACCCTAA-ACTTAAAATCTCT-AA-
1 TAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAA-CCTAATAATTAAAAACCCTAAAC
*
48723428 CCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCTTAACCTAATTTAATTAAAAACC
65 CCT-A--AACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACC
48723493 CTAAACCCTAAACTTAAAAACCCTAACCTAAT
127 CTAAACCCTAAACTTAAAAACCCTAACCTAAT
*
48723525 TTAATTAAAAACCCTAACCTAATTAAATTAAAAACCCT-AACCTAATTTAATTAAAAACCCTAAA
1 TAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCTAA--TAATTAAAAACCCTAAA
* *
48723589 CCCTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACATAATTAAATTAAAAACCCT
64 CCCTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT
**
48723654 AAACCCTAAACTTAAAAACCCTAA-CTCCCT
129 AAACCCTAAACTTAAAAACCCTAACCT-AAT
* *
48723684 TAACTTAAAACCCCTAACCTAATTAAATTAAAAACCCT-AACCTAATTTAATTAAAAACCCTAAA
1 TAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCTAA--TAATTAAAAACCCTAAA
48723748 C
64 C
48723749 TAAATTAATA
Statistics
Matches: 336, Mismatches: 31, Indels: 32
0.84 0.08 0.08
Matches are distributed among these distances:
156 3 0.01
157 8 0.02
158 41 0.12
159 260 0.77
160 12 0.04
161 9 0.03
162 3 0.01
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (158 bp):
TAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCTAATAATTAAAAACCCTAAACC
CTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
ACCCTAAACTTAAAAACCCTAACCTAAT
Found at i:48727255 original size:124 final size:124
Alignment explanation
Indices: 48726995--48727370 Score: 558
Period size: 124 Copynumber: 3.0 Consensus size: 124
48726985 CCCAAACATG
*
48726995 CTACTGTAGCAAAAGCGC--CCACGAGGGCGTGATTTTCACAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTT-ACAAATTCTTCTCAAATAGCATCCTG
*
48727058 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTCTATGAC
65 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTC-AAAAAAAATTATTTCTTCCATGAC
* * *
48727119 CGACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTTACAAATTCTTCTCAAATAACATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCCTGC
* * * *
48727184 TAAAAGTGAATTTATACTATTTGCTAAGAAACGTCAAAAAAAATTATTTCTTCCATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCATGAC
* *
48727243 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGT
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCCTGC
** ** * *
48727308 TAGAAGCGATTTTATACTATTTAATCAGAAACGTCAACTCAAAATTATTTCTTTCAAGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAA-AAAAAATTATTTCTTCCATGAC
48727368 CTA
1 CTA
48727371 AAAACCCTAA
Statistics
Matches: 225, Mismatches: 24, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
124 131 0.58
125 78 0.35
126 16 0.07
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCATGAC
Found at i:48729021 original size:25 final size:27
Alignment explanation
Indices: 48728964--48729038 Score: 82
Period size: 25 Copynumber: 2.8 Consensus size: 27
48728954 ATAAAAAATT
* *
48728964 AAAAATATAATTTTTTTATAAATTCTTTC
1 AAAAATAT-A-TTTTTTATAAATTCTATA
*
48728993 AAAATTATATTTTTT-TAAATTC-ATA
1 AAAAATATATTTTTTATAAATTCTATA
*
48729018 AAAAATATATTTTTTAAAAAT
1 AAAAATATATTTTTTATAAAT
48729039 AAACTAAGTA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
25 15 0.38
26 11 0.28
27 6 0.15
28 1 0.03
29 7 0.17
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (27 bp):
AAAAATATATTTTTTATAAATTCTATA
Found at i:48731365 original size:17 final size:17
Alignment explanation
Indices: 48731343--48731377 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
48731333 CATGCATCTG
48731343 TTTC-TTCTTTCTCTTTC
1 TTTCTTTCTTT-TCTTTC
48731360 TTTCTTTCTTTTCTTTC
1 TTTCTTTCTTTTCTTTC
48731377 T
1 T
48731378 AATGTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTCTTTCTTTTCTTTC
Found at i:48731375 original size:13 final size:14
Alignment explanation
Indices: 48731343--48731377 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
48731333 CATGCATCTG
48731343 TTTC-TTCTTTCTC
1 TTTCTTTCTTTCTC
48731356 TTTCTTTCTTTCT-
1 TTTCTTTCTTTCTC
48731369 TTTCTTTCT
1 TTTCTTTCT
48731378 AATGTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTCTTTCTTTCTC
Found at i:48733935 original size:13 final size:14
Alignment explanation
Indices: 48733917--48733945 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
48733907 CAATGACTAC
48733917 ATTAAAAT-CAAAA
1 ATTAAAATACAAAA
48733930 ATTAAAATACAAAA
1 ATTAAAATACAAAA
48733944 AT
1 AT
48733946 ATAACAACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (14 bp):
ATTAAAATACAAAA
Found at i:48742325 original size:38 final size:39
Alignment explanation
Indices: 48742268--48742346 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 39
48742258 ACATATACAT
*
48742268 GGTTGCAAACAAATTCACATAACAT-AAGAGGTTCGCAGA
1 GGTTACAAACAAATTCACATAA-ATCAAGAGGTTCGCAGA
* * *
48742307 GGTTACAAACATA-TCACATAAGTCAAGAGGTTTGCAGA
1 GGTTACAAACAAATTCACATAAATCAAGAGGTTCGCAGA
48742345 GG
1 GG
48742347 CGTTCGTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
37 1 0.03
38 23 0.66
39 11 0.31
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.22
Consensus pattern (39 bp):
GGTTACAAACAAATTCACATAAATCAAGAGGTTCGCAGA
Found at i:48748341 original size:41 final size:41
Alignment explanation
Indices: 48748296--48748403 Score: 171
Period size: 42 Copynumber: 2.6 Consensus size: 41
48748286 AGCCCGATTC
*
48748296 AATTCACCGGCATAAAGCTTGCTAGACATAAAGTCTGAAAT
1 AATTCACCGGCATTAAGCTTGCTAGACATAAAGTCTGAAAT
*
48748337 AATTCACCGGCATTAAGCTTTGCCAGACATAAAGTCTGAAAT
1 AATTCACCGGCATTAAGC-TTGCTAGACATAAAGTCTGAAAT
* *
48748379 AATTCACCGACATTAAGCCTGCTAG
1 AATTCACCGGCATTAAGCTTGCTAG
48748404 GCATTGAGCC
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
41 22 0.36
42 39 0.64
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (41 bp):
AATTCACCGGCATTAAGCTTGCTAGACATAAAGTCTGAAAT
Found at i:48750593 original size:38 final size:39
Alignment explanation
Indices: 48750521--48750601 Score: 103
Period size: 39 Copynumber: 2.1 Consensus size: 39
48750511 ATACTATGCC
* *
48750521 TAAAAAATCGAGATGAAAACCCCAAAAAAGGCGTCTTGA
1 TAAAAAATCAAGATGAAAACCCCAAAAAAGGCGTCTCGA
* *
48750560 TAAAAAATCAAGATGAAAA-CTC-GAAAAGTGCGTCTCGA
1 TAAAAAATCAAGATGAAAACCCCAAAAAAG-GCGTCTCGA
48750598 TAAA
1 TAAA
48750602 CAAAAAAGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
37 5 0.14
38 14 0.38
39 18 0.49
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.17
Consensus pattern (39 bp):
TAAAAAATCAAGATGAAAACCCCAAAAAAGGCGTCTCGA
Found at i:48751523 original size:76 final size:76
Alignment explanation
Indices: 48751435--48752736 Score: 1615
Period size: 75 Copynumber: 17.1 Consensus size: 76
48751425 TTTCTTTTTA
* * * * * *
48751435 TGTTTTTCAAAAATTAACTCATAATTCAAGAGGTGAGTTGAGCCTCAGGTCACATGCCGAGGTAT
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTAT
48751500 TTTTCAATTTC
66 TTTTCAATTTC
* * *
48751511 TGTTTTTTAAAAATCAACTCATAAGCCGAGAGGTG-GATTGAGCCTCGGGTCACACGCCGAGGTA
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAG-TTGAGCCTCGGGTCACACGCTGAGGTA
*
48751575 TTTTCCAATTTC
65 TTTTTCAATTTC
* * * * ** *
48751587 TATTTTTCAAAAATCTACTCATAATCCGAGAGGTGAGTTGAACCTCAGGTTGCACACTGAGGTAT
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTAT
48751652 TTTT-AATTTC
66 TTTTCAATTTC
* * *
48751662 TGTTTTGCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGAGTCACACGCCGAGGTAT
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTAT
48751727 TTTT-AATTTC
66 TTTTCAATTTC
* * *
48751737 TGTTTTTCAAAAATCAACTCATAATCCGATATGTGAGTTGAGCCTCAGGTCACACGCTGAGGTA-
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTAT
*
48751801 TTTTCAATTTT
66 TTTTCAATTTC
*
48751812 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCTTCGGGTCACACGCT-AGGTAT
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTAT
48751876 TTTTCAATTTC
66 TTTTCAATTTC
* *
48751887 TGTTTTTTCAAAAATCAACTCATAATCCGAGAGATGAGTTGAGCCTCGGGTTACACGCTGAGGTA
1 TG-TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTA
48751952 TTTTTCAATTTC
65 TTTTTCAATTTC
* * ** * * * ** * *
48751964 TATTTTTTTCAAAGATCAACTCATAATTTGAAAAGTGAGTTGAGTCTCGGGTTGCACGTTGACGT
1 --TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGT
48752029 A-TTTTCAATTTC
64 ATTTTTCAATTTC
* * * * *
48752041 TATTTTTTAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCATCGGGGTCACACGCTTAGGTA
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTC-GGGTCACACGCTGAGGTA
48752106 -TTTTCAATTTC
65 TTTTTCAATTTC
* * ** *
48752117 TATTTATCAAAAATCAACTCATAATTTGATAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTA-
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTAT
48752181 TTTTCAATTTC
66 TTTTCAATTTC
* * * * * * *
48752192 TATTTTTCAAAAATTAACTCATAATTCGAGAGGTGAGTTGAGCTTTGGGTCGCACGCCGAGGTAT
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTAT
48752257 TTTTCAATTTC
66 TTTTCAATTTC
** * * *
48752268 TGTTTTTTCAAAAATCAACTCATAATCTAAAAGGTGAGTTAAGCCTCGGGTCACACGCTGAGATA
1 TG-TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTA
48752333 TTTTTCAATTTC
65 TTTTTCAATTTC
* * *
48752345 TGTTTTTCAAAAATCAACTCATAATCTGAGAGGTGAGTTGAGCCTTGGGTCACATGCTGAGGTA-
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTAT
48752409 TTTTCAATTTC
66 TTTTCAATTTC
* * * *
48752420 TATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCTTCGGGTCGCACGCCGAGGTAT
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTAT
48752485 TTTTCAATTTC
66 TTTTCAATTTC
* ** * *
48752496 TGTTTTTTTCAAAAATCAACTCATAGTCTAAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGT
1 TG--TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGT
48752561 ATTTTTCAATTTC
64 ATTTTTCAATTTC
* * * * ** *
48752574 TGTTTTTTTTAAAGATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCAGGTTGCACGCTGACGT
1 TG--TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGT
*
48752639 A-TTATCAATTTC
64 ATTTTTCAATTTC
* * * * *
48752651 TAGTTTTT-AAAGATCAACTCATAAGCCGAGAGGTGAGTTGAGCTTCGGGTCGCACG-TCGAGCT
1 T-GTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCT-GAGGT
*
48752714 A-TTTT-AGATTTT
64 ATTTTTCA-ATTTC
48752726 TGTTTTTCAAA
1 TGTTTTTCAAA
48752737 TAAAAAATAA
Statistics
Matches: 1074, Mismatches: 134, Indels: 37
0.86 0.11 0.03
Matches are distributed among these distances:
74 17 0.02
75 449 0.42
76 323 0.30
77 105 0.10
78 179 0.17
79 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (76 bp):
TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTAT
TTTTCAATTTC
Found at i:48751714 original size:151 final size:150
Alignment explanation
Indices: 48751437--48752700 Score: 1468
Period size: 151 Copynumber: 8.3 Consensus size: 150
48751427 TCTTTTTATG
* * * * *
48751437 TTTTTCAAAAATTAACTCATAATTCAAGAGGTGAGTTGAGCCTCAGG-TCACATGCCGAGGTATT
1 TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTTCACA--CTGAGGTATT
* *
48751501 TTTCAATTTCTGTTTTTTAAAAATCAACTCATAAGCCGAGAGGTG-GATTGAGCCTCGGGTCACA
64 TTTCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAG-TTGAGCCTCGGGTCACA
48751565 CGCCGAGGTATTTTCCAATTTCTA
128 CGCCGAGGTATTTT-CAATTTCTA
* * *
48751589 TTTTTCAAAAATCTACTCATAATCCGAGAGGTGAGTTGAACCTCAGGTTGCACACTGAGGTATTT
1 TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTT-CACACTGAGGTATTT
* *
48751654 TT-AATTTCTGTTTTGCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGAGTCACACG
65 TTCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACG
* *
48751718 CCGAGGTATTTTTAATTTCTG
130 CCGAGGTATTTTCAATTTCTA
* * *
48751739 TTTTTCAAAAATCAACTCATAATCCGATATGTGAGTTGAGCCTCAGG-TCACACGCTGAGGTA-T
1 TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTTCACA--CTGAGGTATT
* *
48751802 TTTCAATTTTTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCTTCGGGTCACAC
64 TTTCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACAC
* *
48751867 G-CTAGGTATTTTTCAATTTCTGT
129 GCCGAGGTA-TTTTCAATTTCT-A
* *
48751890 TTTTTCAAAAATCAACTCATAATCCGAGAGATGAGTTGAGCCTCGGGTTACACGCTGAGGTATTT
1 TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTT-CACACTGAGGTATTT
* * ** * * * **
48751955 TTCAATTTCTATTTTTTTCAAAGATCAACTCATAATTTGAAAAGTGAGTTGAGTCTCGGGTTGCA
65 TTCAATTTC--TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACA
** *
48752020 CGTTGACGTATTTTCAATTTCTA
128 CGCCGAGGTATTTTCAATTTCTA
* * * * *
48752043 TTTTTTAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCATCGGGGTCACACGCTTAGGTA-T
1 TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTTCACA--CTGAGGTATT
* * ** *
48752107 TTTCAATTTCTATTTATCAAAAATCAACTCATAATTTGATAGGTGAGTTGAGCCTCGGGTCACAC
64 TTTCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACAC
*
48752172 GCTGAGGTATTTTCAATTTCTA
129 GCCGAGGTATTTTCAATTTCTA
* * * * * * *
48752194 TTTTTCAAAAATTAACTCATAATTCGAGAGGTGAGTTGAGCTTTGGGTCGCACGCCGAGGTATTT
1 TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGT-TCACACTGAGGTATTT
** * *
48752259 TTCAATTTCTGTTTTTTCAAAAATCAACTCATAATCTAAAAGGTGAGTTAAGCCTCGGGTCACAC
65 TTCAATTTCTG-TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACAC
* * *
48752324 GCTGAGATATTTTTCAATTTCTG
129 GCCGAGGTA-TTTTCAATTTCTA
* *
48752347 TTTTTCAAAAATCAACTCATAATCTGAGAGGTGAGTTGAGCCTTGGG-TCACATGCTGAGGTA-T
1 TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTTCACA--CTGAGGTATT
* * *
48752410 TTTCAATTTCTATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCTTCGGGTCGCAC
64 TTTCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACAC
*
48752475 GCCGAGGTATTTTTCAATTTCTGTT
129 GCCGAGGTA-TTTTCAATTTC--TA
* ** * * *
48752500 TTTTTCAAAAATCAACTCATAGTCTAAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGTATTT
1 TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGT-TCACACTGAGGTATTT
* * * * **
48752565 TTCAATTTCTGTTTTTTTTAAAGATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCAGGTTGCA
65 TTCAATTTCTG--TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACA
* * *
48752630 CGCTGACGTATTATCAATTTCTA
128 CGCCGAGGTATTTTCAATTTCTA
* * *
48752653 GTTTTT-AAAGATCAACTCATAAGCCGAGAGGTGAGTTGAGCTTCGGGT
1 -TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGT
48752701 CGCACGTCGA
Statistics
Matches: 963, Mismatches: 119, Indels: 59
0.84 0.10 0.05
Matches are distributed among these distances:
148 4 0.00
149 11 0.01
150 133 0.14
151 308 0.32
152 140 0.15
153 210 0.22
154 86 0.09
155 17 0.02
156 54 0.06
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.35
Consensus pattern (150 bp):
TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTTCACACTGAGGTATTTT
TCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGC
CGAGGTATTTTCAATTTCTA
Found at i:48753105 original size:30 final size:30
Alignment explanation
Indices: 48753069--48753147 Score: 115
Period size: 30 Copynumber: 2.6 Consensus size: 30
48753059 CCCAACTATT
*
48753069 TAAAATTACATTTTAA-CCTTTAAACTTTCC
1 TAAAATTACATTTTAACCCTCT-AACTTTCC
*
48753099 TAAAATTACATTCTAACCCTCTAACTTTCC
1 TAAAATTACATTTTAACCCTCTAACTTTCC
*
48753129 TAAAATTACATTTTGACCC
1 TAAAATTACATTTTAACCC
48753148 CAGAAGTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
30 40 0.91
31 4 0.09
ACGTcount: A:0.35, C:0.24, G:0.01, T:0.39
Consensus pattern (30 bp):
TAAAATTACATTTTAACCCTCTAACTTTCC
Found at i:48753696 original size:16 final size:17
Alignment explanation
Indices: 48753677--48753710 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
48753667 AAAACAGAAG
*
48753677 AGAAGAGAA-AAAAAAA
1 AGAAAAGAAGAAAAAAA
48753693 AGAAAAGAAGAAAAAAA
1 AGAAAAGAAGAAAAAAA
48753710 A
1 A
48753711 AGGAAGAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (17 bp):
AGAAAAGAAGAAAAAAA
Found at i:48760227 original size:3 final size:3
Alignment explanation
Indices: 48760219--48760269 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
48760209 TATAAAAGTT
48760219 ATA ATA ATA ATA 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 ATA ATA ATA ATA
48760267 ATA
1 ATA
48760270 GAACTCATAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:48767736 original size:126 final size:125
Alignment explanation
Indices: 48767338--48767905 Score: 759
Period size: 126 Copynumber: 4.5 Consensus size: 125
48767328 GATAAAATCA
* * * * ** *
48767338 AAGCAGGATGATTTATCAGAAGGATTTTTGAAGCCGCGCCCACGTGTACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* *
48767403 AGGTCCTAGAAAAATAATTTCGACTTGACGCTTCTGAGCAAATAGT-TTAAAAACGCTTC
66 AGGTCCTAGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* * *
48767462 AAGCAGGATGCTTTATGAAAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAAT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * * * *
48767527 TGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTTTTAGCAAATAGTTTTAAAAAACGCTTC
66 AGGTCCTAGAA-AAATAATTTCGACTTGACGTTTCTGAGCAAATAG-TATAAAAAACGCTTC
* * * *
48767589 AAGCAGAATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACATGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* *
48767654 AGGTCCT-GAAAAAATAATATT-GAGTTGACGTTTCTGAGCAAATAGTATAAAACAACGCTGC
66 AGGTCCTAG-AAAAATAAT-TTCGACTTGACGTTTCTGAGCAAATAGTATAAAA-AACGCTTC
* * *
48767715 AAGCAGCATGCTATT-TGAGAAGAATTTGTGAAATCGCGTCCTCGTGGACGCGCTTTTGCTACAG
1 AAGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
* *
48767779 TAGGTCCTAGAAAAATAATTTCGACTTGATGTTTCTGAGCAAATAGTAT-AAAATCGCTTC
65 TAGGTCCTAGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* * *
48767839 TAGCAGGATGCTTTATGAGAAGAATTTGTAAAATCGCGCCCACGTAGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
48767904 AG
66 AG
48767906 CATGTTTAGG
Statistics
Matches: 389, Mismatches: 45, Indels: 20
0.86 0.10 0.04
Matches are distributed among these distances:
123 2 0.01
124 128 0.33
125 41 0.11
126 135 0.35
127 83 0.21
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (125 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTAGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
Found at i:48771130 original size:22 final size:22
Alignment explanation
Indices: 48771078--48771554 Score: 471
Period size: 22 Copynumber: 22.1 Consensus size: 22
48771068 TCAAATTATA
*
48771078 TTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAAGGTT
* *
48771099 TTTAATTTAAGGGTTTAAGATT
1 TTTAAGTTAAGGGTTTAAGGTT
*
48771121 TTAAAGTTAAGGG-TT-AGTGTT
1 TTTAAGTTAAGGGTTTAAG-GTT
*
48771142 TTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAAGGTT
48771163 TTTAAGTTAAGGG-TT-AGAGTT
1 TTTAAGTTAAGGGTTTAAG-GTT
* *
48771184 TTTAGGTTAAGGGTTTAAGGGT
1 TTTAAGTTAAGGGTTTAAGGTT
*
48771206 TTTAA-TATAAGGGTTTAGGGTT
1 TTTAAGT-TAAGGGTTTAAGGTT
* ** *
48771228 TTTAATTTAAAAGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAAGGTT
* *
48771250 TTAAAGTTAAGGGTTTAAGATT
1 TTTAAGTTAAGGGTTTAAGGTT
* *
48771272 TTAAAGTTAAAGG-TTAAGGTT
1 TTTAAGTTAAGGGTTTAAGGTT
* *
48771293 TTTAAGTTAAGGCTTTAGGGTT
1 TTTAAGTTAAGGGTTTAAGGTT
* * *
48771315 TTAAAGTTAAGGGGTTAGGGTT
1 TTTAAGTTAAGGGTTTAAGGTT
* * *
48771337 TTAAAGTTAAGGGGTTAGGGTT
1 TTTAAGTTAAGGGTTTAAGGTT
48771359 TTTAAGTTAAAGGG-TTAAGGTT
1 TTTAAGTT-AAGGGTTTAAGGTT
* *
48771381 TTAAAGTTAAGAGTTT-AGTGTT
1 TTTAAGTTAAGGGTTTAAG-GTT
* *
48771403 TTAAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAAGGTT
*
48771424 TTTAGGTTAAGGGTTTATAGG-T
1 TTTAAGTTAAGGGTTTA-AGGTT
*
48771446 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAAGGTT
* *
48771468 TTTAATTTAAGGG-TTATGG-T
1 TTTAAGTTAAGGGTTTAAGGTT
* * *
48771488 TTTAGGTTAATGG-TTATGGTT
1 TTTAAGTTAAGGGTTTAAGGTT
48771509 TTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAAGGTT
*
48771531 TTTAGGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAAGGTT
48771553 TT
1 TT
48771555 GTCAATTAAA
Statistics
Matches: 387, Mismatches: 51, Indels: 35
0.82 0.11 0.07
Matches are distributed among these distances:
20 20 0.05
21 122 0.32
22 235 0.61
23 10 0.03
ACGTcount: A:0.27, C:0.00, G:0.29, T:0.44
Consensus pattern (22 bp):
TTTAAGTTAAGGGTTTAAGGTT
Found at i:48771143 original size:43 final size:42
Alignment explanation
Indices: 48771078--48771554 Score: 465
Period size: 43 Copynumber: 11.0 Consensus size: 42
48771068 TCAAATTATA
* *
48771078 TTTAAGTTAAGGGTTAGGGTTTTTAATTTAAGGGTTTAAGATT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG-TTAAGGTT
* * *
48771121 TTAAAGTTAAGGGTTAGTGTTTTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAAGGTT
* * *
48771163 TTTAAGTTAAGGGTTAGAGTTTTTAGGTTAAGGGTTTAAGGGT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG-TTAAGGTT
* * * *
48771206 TTTAA-TATAAGGGTTTAGGGTTTTTAATTTAAAAGTTTAGGGTT
1 TTTAAGT-TAAGGG-TTAGGGTTTTTAAGTT-AAGGGTTAAGGTT
* * * * *
48771250 TTAAAGTTAAGGGTTTAAGATTTTAAAGTTAAAGGTTAAGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTAAGGTT
* * *
48771293 TTTAAGTTAAGGCTTTAGGGTTTTAAAGTTAAGGGGTTAGGGTT
1 TTTAAGTTAAGG-GTTAGGGTTTTTAAGTTAA-GGGTTAAGGTT
*
48771337 TTAAAGTTAAGGGGTTAGGGTTTTTAAGTTAAAGGGTTAAGGTT
1 TTTAAGTTAA-GGGTTAGGGTTTTTAAGTT-AAGGGTTAAGGTT
* * * * *
48771381 TTAAAGTTAAGAGTTTAGTGTTTTAAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAG-GGTTAGGGTTTTTAAGTTAAGGGTTAAGGTT
* * *
48771424 TTTAGGTTAAGGGTTTATAGG-TTTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTA-GGGTTTTTAAGTTAAGGG-TTAAGGTT
* * * * *
48771468 TTTAATTTAAGGGTTATGG-TTTTAGGTTAATGGTTATGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAAGGTT
* *
48771509 TTTAAGTTAAGGGTTTAAGGTTTTTAGGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGG-TTAAGGTT
48771553 TT
1 TT
48771555 GTCAATTAAA
Statistics
Matches: 364, Mismatches: 54, Indels: 31
0.81 0.12 0.07
Matches are distributed among these distances:
41 19 0.05
42 58 0.16
43 140 0.38
44 139 0.38
45 8 0.02
ACGTcount: A:0.27, C:0.00, G:0.29, T:0.44
Consensus pattern (42 bp):
TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAAGGTT
Found at i:48772125 original size:18 final size:18
Alignment explanation
Indices: 48772099--48772141 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
48772089 GACTTGAAAA
* *
48772099 AGGAAACATATAAGGGTT
1 AGGAAACATAAAAGGGCT
*
48772117 AGGATACATAAAAGGGCT
1 AGGAAACATAAAAGGGCT
48772135 AGGAAAC
1 AGGAAAC
48772142 GCACCTAGCA
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:0.47, C:0.09, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGAAACATAAAAGGGCT
Found at i:48772989 original size:20 final size:20
Alignment explanation
Indices: 48772952--48772989 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
48772942 GTTATTTTTA
*
48772952 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
48772972 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
48772990 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:48773985 original size:51 final size:51
Alignment explanation
Indices: 48773930--48774027 Score: 137
Period size: 51 Copynumber: 1.9 Consensus size: 51
48773920 AATTATTTAA
48773930 AAATAGGGATTTAAGAGAAA-TTT-AAGAGGAACTTGAGAGCAAATTGAAAAT
1 AAATAGGGATTTAAGAGAAATTTTGAA-A-GAACTTGAGAGCAAATTGAAAAT
* * *
48773981 AAATATGGATTTGAGAGAAATTTTGAAAGAATTTGAGAGCAAATTGA
1 AAATAGGGATTTAAGAGAAATTTTGAAAGAACTTGAGAGCAAATTGA
48774028 GAGGAAATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
51 36 0.86
52 4 0.10
53 2 0.05
ACGTcount: A:0.47, C:0.03, G:0.23, T:0.27
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTTGAAAGAACTTGAGAGCAAATTGAAAAT
Found at i:48774058 original size:14 final size:16
Alignment explanation
Indices: 48774026--48774062 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
48774016 AGAGCAAATT
48774026 GAGAGGAAATTTAGAA
1 GAGAGGAAATTTAGAA
48774042 GAGAGGAAATTT-G-A
1 GAGAGGAAATTTAGAA
48774056 GAGAGGA
1 GAGAGGA
48774063 TTAGTTTGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 8 0.38
15 1 0.05
16 12 0.57
ACGTcount: A:0.46, C:0.00, G:0.38, T:0.16
Consensus pattern (16 bp):
GAGAGGAAATTTAGAA
Found at i:48788595 original size:12 final size:12
Alignment explanation
Indices: 48788563--48788632 Score: 56
Period size: 12 Copynumber: 5.8 Consensus size: 12
48788553 GAAGAAAAAC
*
48788563 TTATAATTTTTTT
1 TTATAA-TTTTGT
48788576 TTATTAATTTTGT
1 TTA-TAATTTTGT
***
48788589 TTATAA--TAAC
1 TTATAATTTTGT
48788599 TTATAATTTT-T
1 TTATAATTTTGT
48788610 TTATTAATTTTGT
1 TTA-TAATTTTGT
48788623 TTATAATTTT
1 TTATAATTTT
48788633 TAAAATTTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
10 7 0.15
11 3 0.07
12 18 0.39
13 15 0.33
14 3 0.07
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (12 bp):
TTATAATTTTGT
Found at i:48788614 original size:34 final size:35
Alignment explanation
Indices: 48788560--48788629 Score: 124
Period size: 34 Copynumber: 2.0 Consensus size: 35
48788550 TTGGAAGAAA
48788560 AACTTATAATTTTTTTTTATTAATTTTGTTTATAAT
1 AACTTATAA-TTTTTTTTATTAATTTTGTTTATAAT
48788596 AACTTATAA-TTTTTTTATTAATTTTGTTTATAAT
1 AACTTATAATTTTTTTTATTAATTTTGTTTATAAT
48788630 TTTTAAAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
34 25 0.74
36 9 0.26
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (35 bp):
AACTTATAATTTTTTTTATTAATTTTGTTTATAAT
Found at i:48789983 original size:20 final size:20
Alignment explanation
Indices: 48789958--48789997 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
48789948 CGTAAAATAA
*
48789958 TTTCTGAAAAATGTTTTACT
1 TTTCTGAAAAATGATTTACT
*
48789978 TTTCTGTAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
48789998 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
TTTCTGAAAAATGATTTACT
Found at i:48789987 original size:34 final size:34
Alignment explanation
Indices: 48789944--48790009 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 34
48789934 AGTAAAATAT
*
48789944 TTTTCGTAAAATAATTT-CTGAAAAATGTTTTAC
1 TTTTCGTAAAATAATTTACTGAAAAATATTTTAC
* *
48789977 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTC-GTAAAATAATTTACTGAAAAATATTTT
48790010 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 5 0.18
34 11 0.39
35 12 0.43
ACGTcount: A:0.35, C:0.08, G:0.11, T:0.47
Consensus pattern (34 bp):
TTTTCGTAAAATAATTTACTGAAAAATATTTTAC
Found at i:48804549 original size:217 final size:217
Alignment explanation
Indices: 48804168--48804853 Score: 1108
Period size: 217 Copynumber: 3.2 Consensus size: 217
48804158 CTTGGGTCTA
48804168 CTCCACTGCAACTTTAGGGAGATA-AGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGA
1 CTCCACTGCAACTTTAGGGAGATAGA-ATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGA
*
48804232 GATAAGATTTGCCAT-TCCCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTA
65 GATAAGATTTGCCATCT-TCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTA
*
48804296 GTCTGCTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATCTGTTCTCTGCAACTTCAGAGA
129 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGTTCTCTGCAACTTCAGAGA
48804361 GATAAGATCCAAGGTTTTAATCCG
194 GATAAGATCCAAGGTTTTAATCCG
* * * * * *
48804385 CTCCATTGCAACTTCAGAGAGATAGAATTATCGGTTTTAATCTGCTCCATTGCAACTTCAGGGAG
1 CTCCACTGCAACTTTAGGGAGATAGAATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
* *
48804450 ATAAGATTTGTCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAGACTTGTTTACTTAGT
66 ATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTAGT
* *
48804515 CTGCTCAACTGCAACTTTAGGGAGATAAGACTAGATGCGATCTGCTT-TCTGCAACTTCAGAGAG
131 CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTG-TTCTCTGCAACTTCAGAGAG
48804579 ATAAGATCCAAGGTTTTAATCCG
195 ATAAGATCCAAGGTTTTAATCCG
* * ** * * *
48804602 CTCCACTGCAACTTAAGGGAAATAGGGTTATTAGCTTTAATCTGATCCACTACAACTTCAGGGAG
1 CTCCACTGCAACTTTAGGGAGATAGAATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
48804667 ATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTAGT
66 ATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTAGT
* *
48804732 CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGA
131 CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGTTCTCTGCAACTTCAGAGAGA
48804797 TAAGATCCAAGGTTTTAATCCG
196 TAAGATCCAAGGTTTTAATCCG
* * *
48804819 TTCCATTGCAACTTTAGGGAGATAGGATTATTGGC
1 CTCCACTGCAACTTTAGGGAGATAGAATTATTGGC
48804854 CACCGATCTG
Statistics
Matches: 429, Mismatches: 36, Indels: 8
0.91 0.08 0.02
Matches are distributed among these distances:
216 1 0.00
217 424 0.99
218 4 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (217 bp):
CTCCACTGCAACTTTAGGGAGATAGAATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
ATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTAGT
CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGTTCTCTGCAACTTCAGAGAGA
TAAGATCCAAGGTTTTAATCCG
Found at i:48804762 original size:44 final size:43
Alignment explanation
Indices: 48804163--48804763 Score: 310
Period size: 44 Copynumber: 13.8 Consensus size: 43
48804153 TATTTCTTGG
* * * *
48804163 GTCTACTCCACTGCAACTTTAGGGAGATAAGA-TTATTGGCTTTA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTT-AC-TTA
* * **
48804207 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATT-CCCA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG---TTACTTA
48804252 GTCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTGTTTACTTA
1 GTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTG-TTACTTA
* * * * *
48804296 GTCTGCTCCACTACAACTTCAGGGAGATAAGACTAGATGC-GA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTACTTA
* * * **
48804338 -TCTG-TTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTT--TTA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGA--C-TTGTTACTTA
* * * * *
48804380 ATCCGCTCCATTGCAACTTCAGAGAGAT-AGAATTATCGGTT--TTA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAG-ACT-T--GTTACTTA
* * * *
48804424 ATCTGCTCCATTGCAACTTCAGGGAGATAAGATTTGTCATCTTCA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTA-CTT-A
*
48804469 GTCTGC-CTCACTACAACTTCA-GGAGGATAAGACTTGTTTACTTA
1 GTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTG-TTACTTA
* * * * * *
48804513 GTCTGCTCAACTGCAACTTTAGGGAGATAAGACTAGATGC-GA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTACTTA
** * **
48804555 -TCTGCT-TTCTGCAACTTCAGAGAGATAAGATCCAAGGTT--TTA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGA--C-TTGTTACTTA
* * * * ** *
48804597 ATCCGCTCCACTGCAACTTAAGGGAAAT-AGGGTTATTAGCTTTA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTA-C-TTA
* * * * **
48804641 ATCTGATCCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTA-CTT-A
48804686 GTCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTGTTTACTTA
1 GTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTG-TTACTTA
48804730 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
48804764 AGATGCGATC
Statistics
Matches: 429, Mismatches: 82, Indels: 92
0.71 0.14 0.15
Matches are distributed among these distances:
40 44 0.10
41 12 0.03
42 6 0.01
43 23 0.05
44 227 0.53
45 111 0.26
46 4 0.01
48 2 0.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (43 bp):
GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTACTTA
Found at i:48817469 original size:14 final size:14
Alignment explanation
Indices: 48817450--48817479 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
48817440 GGGCCACTAT
*
48817450 CCTTGTATTTTGGG
1 CCTTGTATTCTGGG
48817464 CCTTGTATTCTGGG
1 CCTTGTATTCTGGG
48817478 CC
1 CC
48817480 GACTGCAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.23, G:0.27, T:0.43
Consensus pattern (14 bp):
CCTTGTATTCTGGG
Found at i:48820546 original size:41 final size:41
Alignment explanation
Indices: 48820459--48820538 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
48820449 AGGTTAGCCC
*
48820459 AAATTAAAAGTGATTTAATTTGGTTAAGGTTTATTGGGCCA
1 AAATTAAAAGTGATTTAAGTTGGTTAAGGTTTATTGGGCCA
48820500 AAATTAAAAGTGATTTAAGTTGGTTAAGGTTTATTGGGC
1 AAATTAAAAGTGATTTAAGTTGGTTAAGGTTTATTGGGC
48820539 ATTAATTATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.34, C:0.04, G:0.24, T:0.39
Consensus pattern (41 bp):
AAATTAAAAGTGATTTAAGTTGGTTAAGGTTTATTGGGCCA
Found at i:48822965 original size:39 final size:39
Alignment explanation
Indices: 48822911--48822989 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
48822901 TAAGCATTAC
48822911 AAATGCTTAGTAAGTTCACAGTTATCAAAATAACAACTT
1 AAATGCTTAGTAAGTTCACAGTTATCAAAATAACAACTT
*
48822950 AAATGCTTAGTAAGTTCATAGTTATCAAAATAACAACTT
1 AAATGCTTAGTAAGTTCACAGTTATCAAAATAACAACTT
48822989 A
1 A
48822990 CCTCATTTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.32
Consensus pattern (39 bp):
AAATGCTTAGTAAGTTCACAGTTATCAAAATAACAACTT
Found at i:48844577 original size:20 final size:20
Alignment explanation
Indices: 48844552--48844589 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
48844542 CAGTAAATGA
*
48844552 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
48844572 TTTCTGTAAAATGATTTA
1 TTTCTGGAAAATGATTTA
48844590 TTGGAAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.08, G:0.13, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:48847098 original size:12 final size:12
Alignment explanation
Indices: 48847081--48847113 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
48847071 AAATAAAATC
48847081 AAGGGAGAACGA
1 AAGGGAGAACGA
48847093 AAGGGAGAACGA
1 AAGGGAGAACGA
48847105 AAGGGAGAA
1 AAGGGAGAA
48847114 GGGAGAACGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.52, C:0.06, G:0.42, T:0.00
Consensus pattern (12 bp):
AAGGGAGAACGA
Found at i:48849792 original size:46 final size:45
Alignment explanation
Indices: 48849716--48849837 Score: 163
Period size: 46 Copynumber: 2.6 Consensus size: 45
48849706 TTAATATTAA
*
48849716 TGTATTCTCGAGTTTGCAACATATGCAGGAGCTCAGAACCTAAACT
1 TGTATTCTCGAG-TTGCAACACATGCAGGAGCTCAGAACCTAAACT
* ***
48849762 TGTATTCTCGAGTCTGCAACACATGTAGGAGCTCAGAACCTATTTT
1 TGTATTCTCGAGT-TGCAACACATGCAGGAGCTCAGAACCTAAACT
*
48849808 TATATTCTCGAGTTCGCAACACATGCAGGA
1 TGTATTCTCGAGTT-GCAACACATGCAGGA
48849838 TGTAACACCC
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
45 2 0.03
46 65 0.97
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.30
Consensus pattern (45 bp):
TGTATTCTCGAGTTGCAACACATGCAGGAGCTCAGAACCTAAACT
Found at i:48850262 original size:14 final size:15
Alignment explanation
Indices: 48850238--48850272 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
48850228 TATATATATT
48850238 ACCATATAAATACTA
1 ACCATATAAATACTA
48850253 ACCATA-AAATACTA
1 ACCATATAAATACTA
48850267 ATCCAT
1 A-CCAT
48850273 GATTAAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (15 bp):
ACCATATAAATACTA
Found at i:48850969 original size:41 final size:41
Alignment explanation
Indices: 48850938--48851303 Score: 448
Period size: 41 Copynumber: 8.9 Consensus size: 41
48850928 CTATATAAAA
* * ** * *
48850938 CACCGGCATAAAGCCTGCTAGGCACAAAGCC-CGATTCATTT
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTAAAAT-AATT
* * ** *
48850979 CACCGGCA-CAAAGCCTGCTAGACATAAAGTCGGAATTAATT
1 CACCGGCATC-AAGCCTGCTAGGCATAAAGCCTAAAATAATT
* *
48851020 CACCGGCATCAAGCCTGCTAGACATAAAGTCTAAAATAATT
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTAAAATAATT
* * *
48851061 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTAAAATAATT
* *
48851102 CACCGGCATCAAGCCTGCTAGACATAAAGTCTAAAATAATT
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTAAAATAATT
* * *
48851143 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTAAAATAATT
* *
48851184 CACCGGCATCAAGCCTGCTAGACATAAAGTCTAAAATAATT
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTAAAATAATT
* * *
48851225 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTAAAATAATT
*
48851266 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAAAT
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCT-AAAAT
48851304 CTCATATACA
Statistics
Matches: 285, Mismatches: 36, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
41 277 0.97
42 8 0.03
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.20
Consensus pattern (41 bp):
CACCGGCATCAAGCCTGCTAGGCATAAAGCCTAAAATAATT
Found at i:48851063 original size:82 final size:82
Alignment explanation
Indices: 48850977--48851286 Score: 550
Period size: 82 Copynumber: 3.8 Consensus size: 82
48850967 CCCGATTCAT
* * * * * *
48850977 TTCACCGGCA-CAAAGCCTGCTAGACATAAAGTCGGAATTAATTCACCGGCATCAAGCCTGCTAG
1 TTCACCGGCATC-AAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAG
48851041 ACATAAAGTCTAAAATAA
65 ACATAAAGTCTAAAATAA
48851059 TTCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGA
1 TTCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGA
48851124 CATAAAGTCTAAAATAA
66 CATAAAGTCTAAAATAA
48851141 TTCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGA
1 TTCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGA
48851206 CATAAAGTCTAAAATAA
66 CATAAAGTCTAAAATAA
48851223 TTCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAG
1 TTCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAG
48851287 GCATTAAGCC
Statistics
Matches: 221, Mismatches: 6, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
82 220 1.00
83 1 0.00
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.21
Consensus pattern (82 bp):
TTCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGA
CATAAAGTCTAAAATAA
Found at i:48851534 original size:64 final size:63
Alignment explanation
Indices: 48851416--48851596 Score: 262
Period size: 64 Copynumber: 2.9 Consensus size: 63
48851406 GCAAACAAAC
*
48851416 ATTCGAACCACATATGT-AT-AATTTACA-ACATTAAAATTCAGCTCAAAGAA-TTTGTAACCTA
1 ATTCGAACCACATATGTAATAAAATT-CATACATT-AAATTCAGCTC-AAGAACTTTGTAACCTA
48851477 T
63 T
48851478 ATTCGAACCACATATGTAAGTAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
1 ATTCGAACCACATATGTAA-TAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
* *
48851542 ATTTGAACCACATATGTATATAAAATTCATACATTAAATACAGCTCAAGAACTTT
1 ATTCGAACCACATATGTA-ATAAAATTCATACATTAAATTCAGCTCAAGAACTTT
48851597 AAATATATAT
Statistics
Matches: 110, Mismatches: 3, Indels: 10
0.89 0.02 0.08
Matches are distributed among these distances:
62 17 0.15
63 6 0.05
64 77 0.70
65 10 0.09
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (63 bp):
ATTCGAACCACATATGTAATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
Found at i:48861086 original size:26 final size:26
Alignment explanation
Indices: 48861057--48861108 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
48861047 AGCCAACCCC
*
48861057 AAATTATTTTTCGGGGTATTATTGAT
1 AAATTATTTTTCGAGGTATTATTGAT
48861083 AAATTATTTTTCGAGGTATTATTGAT
1 AAATTATTTTTCGAGGTATTATTGAT
48861109 TCGAGCTTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.04, G:0.17, T:0.50
Consensus pattern (26 bp):
AAATTATTTTTCGAGGTATTATTGAT
Found at i:48863316 original size:25 final size:25
Alignment explanation
Indices: 48863282--48863408 Score: 211
Period size: 25 Copynumber: 5.1 Consensus size: 25
48863272 GATTAGCTCA
*
48863282 CTTCGGTAATCCTCATCAACTGTTG
1 CTTCGGTAATCCTCATCAACTGTCG
48863307 CTTCGGTAATCCTCATCAACTGTCG
1 CTTCGGTAATCCTCATCAACTGTCG
*
48863332 CTTCGGTAATCCTCATCAATTGTCG
1 CTTCGGTAATCCTCATCAACTGTCG
*
48863357 CTTCGGTAATCCTCAGCAACTGTCG
1 CTTCGGTAATCCTCATCAACTGTCG
*
48863382 C-TCGGTAATCCTCATCAACTGTTG
1 CTTCGGTAATCCTCATCAACTGTCG
48863406 CTT
1 CTT
48863409 TGGGTTCTTT
Statistics
Matches: 95, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
24 22 0.23
25 73 0.77
ACGTcount: A:0.20, C:0.30, G:0.17, T:0.34
Consensus pattern (25 bp):
CTTCGGTAATCCTCATCAACTGTCG
Found at i:48863712 original size:127 final size:127
Alignment explanation
Indices: 48863486--48863747 Score: 508
Period size: 127 Copynumber: 2.1 Consensus size: 127
48863476 ATGACTACTT
48863486 ATCTTCAAACCTCACAGTCCAAATCGGCTTGGGGTGAAGGTGTTCACAGATAGGCCATACCAATT
1 ATCTTCAAACCTCACAGTCCAAATCGGCTTGGGGTGAAGGTGTTCACAGATAGGCCATACCAATT
48863551 TTGGGTTAATTTCCACATTGATGACAACCTAGGGTTGTCAGGCCTAGGGTTTAGGTTCTTTC
66 TTGGGTTAATTTCCACATTGATGACAACCTAGGGTTGTCAGGCCTAGGGTTTAGGTTCTTTC
48863613 ATCTTCAAACCTCACAGTCCAAATCGGCTTGGGGTGAAGGTGTTCACAGATAGGCCATACCAATT
1 ATCTTCAAACCTCACAGTCCAAATCGGCTTGGGGTGAAGGTGTTCACAGATAGGCCATACCAATT
48863678 TTGGGTTAATTTCCACATTGATGACAACCTAGGGTTGTCAGGCCTAGGGTTTAGGTTCTTTC
66 TTGGGTTAATTTCCACATTGATGACAACCTAGGGTTGTCAGGCCTAGGGTTTAGGTTCTTTC
48863740 -TCTCTCAA
1 ATCT-TCAA
48863748 CCAGCTGATC
Statistics
Matches: 134, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
126 3 0.02
127 131 0.98
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (127 bp):
ATCTTCAAACCTCACAGTCCAAATCGGCTTGGGGTGAAGGTGTTCACAGATAGGCCATACCAATT
TTGGGTTAATTTCCACATTGATGACAACCTAGGGTTGTCAGGCCTAGGGTTTAGGTTCTTTC
Found at i:48863957 original size:43 final size:43
Alignment explanation
Indices: 48863858--48864292 Score: 381
Period size: 43 Copynumber: 10.1 Consensus size: 43
48863848 TTGAATGCGT
** *** *
48863858 CGCTATAGACCATGACCTTTAGCGGCTTTTTTAGAAATAAACGC
1 CGCTATAGACCATGACCTTTAGCGGCGCTTTT-CCCACAAACGC
48863902 CGCTATAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGC
1 CGCTATAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGC
*
48863945 TGCTATAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGC
1 CGCTATAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGC
** ** **
48863988 CATTATAGACCACCACCTTTAGCGGCGCTTTTATCACAAACGC
1 CGCTATAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGC
* * * * * * **
48864031 TGCTAAAGAGCATTATCTTTAGCGGCTCTTTTATCACAAACGC
1 CGCTATAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGC
* * * * **
48864074 CGCTAAAGACCTTTACCTTTAGTGGCGCTTTTATCACAAACGC
1 CGCTATAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGC
* * * * *
48864117 CGCTAAAAACCATTACCTTTAGTGGCGCTTCTCCCACAAACGC
1 CGCTATAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGC
** * * * *
48864160 CGCTATAGGTCATGACTTTTAACGGCTCTTTTCCCACAATCGC
1 CGCTATAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGC
* * * * * **
48864203 CACTATAAAACA-GATCTTTAGCGACGCTGTTTCATACAAACGC
1 CGCTATAGACCATGACCTTTAGCGGCGCT-TTTCCCACAAACGC
* * * *
48864246 CGCTATATA--ATTGGCCTTTAGCGGCGCTTTTCACACAAACAC
1 CGCTATAGACCA-TGACCTTTAGCGGCGCTTTTCCCACAAACGC
48864288 CGCTA
1 CGCTA
48864293 AAAAACATAT
Statistics
Matches: 324, Mismatches: 64, Indels: 8
0.82 0.16 0.02
Matches are distributed among these distances:
41 1 0.00
42 28 0.09
43 265 0.82
44 30 0.09
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (43 bp):
CGCTATAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGC
Found at i:48869424 original size:14 final size:14
Alignment explanation
Indices: 48869405--48869432 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
48869395 GCATCATTAT
48869405 TAATATTATTTAAA
1 TAATATTATTTAAA
48869419 TAATATTATTTAAA
1 TAATATTATTTAAA
48869433 ATTTTGATAA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TAATATTATTTAAA
Found at i:48869919 original size:21 final size:21
Alignment explanation
Indices: 48869895--48869935 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
48869885 AACCCTAAAT
*
48869895 CCCTAACTATTAACCCCTAAC
1 CCCTAACTACTAACCCCTAAC
*
48869916 CCCTAACTCCTAACCCCTAA
1 CCCTAACTACTAACCCCTAA
48869936 ACCTTAAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.46, G:0.00, T:0.22
Consensus pattern (21 bp):
CCCTAACTACTAACCCCTAAC
Found at i:48869922 original size:14 final size:14
Alignment explanation
Indices: 48869905--48869935 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
48869895 CCCTAACTAT
48869905 TAACCCCTAACCCC
1 TAACCCCTAACCCC
*
48869919 TAACTCCTAACCCC
1 TAACCCCTAACCCC
48869933 TAA
1 TAA
48869936 ACCTTAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.48, G:0.00, T:0.19
Consensus pattern (14 bp):
TAACCCCTAACCCC
Found at i:48869951 original size:21 final size:21
Alignment explanation
Indices: 48869906--48869967 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
48869896 CCTAACTATT
* * * *
48869906 AACCCCTAACCCCTAACTCCT
1 AACCCCTAAACCATAAATCCC
*
48869927 AACCCCTAAACCTTAAATCCC
1 AACCCCTAAACCATAAATCCC
*
48869948 AACCCTTAAACCAT-AATCCC
1 AACCCCTAAACCATAAATCCC
48869968 TAATCCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
20 6 0.17
21 29 0.83
ACGTcount: A:0.35, C:0.45, G:0.00, T:0.19
Consensus pattern (21 bp):
AACCCCTAAACCATAAATCCC
Found at i:48869987 original size:15 final size:15
Alignment explanation
Indices: 48869954--48869991 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
48869944 TCCCAACCCT
48869954 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
48869968 T-AATCCATAATCCC
1 TAAATCCATAATCCC
48869982 TAAATCCATA
1 TAAATCCATA
48869992 TGTAATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.09
14 12 0.55
15 8 0.36
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:48870258 original size:14 final size:14
Alignment explanation
Indices: 48870239--48870342 Score: 68
Period size: 14 Copynumber: 7.3 Consensus size: 14
48870229 CTAGTTAATC
48870239 TAAACCCTAAACCA
1 TAAACCCTAAACCA
*
48870253 TAAACCCTTAACACA
1 TAAACCCTAAAC-CA
*
48870268 T-AACCTCTAAACCT
1 TAAACC-CTAAACCA
* * *
48870282 TAAACCC-CAGCCTT
1 TAAACCCTAAACC-A
*
48870296 TAAACCATAAACCA
1 TAAACCCTAAACCA
*
48870310 TAACCCCTAAACCCA
1 TAAACCCTAAA-CCA
* * *
48870325 TAATCCATAAACCT
1 TAAACCCTAAACCA
48870339 TAAA
1 TAAA
48870343 ATGGTAACAA
Statistics
Matches: 69, Mismatches: 15, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
13 3 0.04
14 39 0.57
15 27 0.39
ACGTcount: A:0.44, C:0.35, G:0.01, T:0.20
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:48870327 original size:15 final size:15
Alignment explanation
Indices: 48870300--48870337 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
48870290 AGCCTTTAAA
48870300 CCATAAA-CCATAAC
1 CCATAAACCCATAAC
* *
48870314 CCCTAAACCCATAAT
1 CCATAAACCCATAAC
48870329 CCATAAACC
1 CCATAAACC
48870338 TTAAAATGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.45, C:0.39, G:0.00, T:0.16
Consensus pattern (15 bp):
CCATAAACCCATAAC
Found at i:48870342 original size:22 final size:21
Alignment explanation
Indices: 48870295--48870342 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
48870285 ACCCCAGCCT
*
48870295 TTAAACCATAAACCATAACCC
1 TTAAACCATAAACCATAAACC
* *
48870316 CTAAACCCATAATCCATAAACC
1 TTAAA-CCATAAACCATAAACC
48870338 TTAAA
1 TTAAA
48870343 ATGGTAACAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (21 bp):
TTAAACCATAAACCATAAACC
Found at i:48870638 original size:41 final size:41
Alignment explanation
Indices: 48870581--48870784 Score: 309
Period size: 41 Copynumber: 5.0 Consensus size: 41
48870571 ATTTTAAATC
*
48870581 CCTGAGCATTAGCGGCGCTTACTCAAAAACGCCGCTAAAGG
1 CCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGG
** *
48870622 CCTGAGCATTAGCGGCGCTTTATCAAAAATGCCGCTAAAGG
1 CCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGG
* *
48870663 CATGAGCATTAGTGGCGCTTCCTCAAAAACGCCGCTAAAGG
1 CCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGG
** *
48870704 CCTGAGCATTAGCAACGCTTCCTCATAAACGCCGCTAAAGG
1 CCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGG
* *
48870745 CCTGAGCATTAGCGGCGCTTCCTCAAAAACACCGTTAAAG
1 CCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAG
48870785 CCCCCGAAAA
Statistics
Matches: 145, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 145 1.00
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (41 bp):
CCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGG
Found at i:48870891 original size:39 final size:38
Alignment explanation
Indices: 48870848--48870975 Score: 125
Period size: 40 Copynumber: 3.2 Consensus size: 38
48870838 TGTGGAAAAT
48870848 GCCGCTAATGCTTATTTCTAGCGGCGTTTTTAATAAAGC
1 GCCGCTAATGCTTATTT-TAGCGGCGTTTTTAATAAAGC
* * **
48870887 GCCGCTAATGCTAGACCTTTAGCGGCGTTTTCCATAAAGC
1 GCCGCTAATGCT-TA-TTTTAGCGGCGTTTTTAATAAAGC
*
48870927 GCCGCTAATG-TTCGATCTTTAGCGGCGTTTTTTATCCAAA-C
1 GCCGCTAATGCTT--AT-TTTAGCGGCGTTTTTAAT--AAAGC
48870968 GCCGCTAA
1 GCCGCTAA
48870976 AAACGCAGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 12
0.79 0.09 0.13
Matches are distributed among these distances:
39 13 0.18
40 47 0.64
41 11 0.15
42 3 0.04
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.32
Consensus pattern (38 bp):
GCCGCTAATGCTTATTTTAGCGGCGTTTTTAATAAAGC
Found at i:48870917 original size:40 final size:40
Alignment explanation
Indices: 48870866--48870975 Score: 141
Period size: 40 Copynumber: 2.7 Consensus size: 40
48870856 TGCTTATTTC
48870866 TAGCGGCGTTTTTAATAAAGCGCCGCTAATGCTAGACCTT
1 TAGCGGCGTTTTTAATAAAGCGCCGCTAATGCTAGACCTT
** * * *
48870906 TAGCGGCGTTTTCCATAAAGCGCCGCTAATGTTCGATCTT
1 TAGCGGCGTTTTTAATAAAGCGCCGCTAATGCTAGACCTT
*
48870946 TAGCGGCGTTTTTTATCCAAA-CGCCGCTAA
1 TAGCGGCGTTTTTAAT--AAAGCGCCGCTAA
48870976 AAACGCAGCT
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
40 49 0.80
41 9 0.15
42 3 0.05
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.31
Consensus pattern (40 bp):
TAGCGGCGTTTTTAATAAAGCGCCGCTAATGCTAGACCTT
Found at i:48874534 original size:333 final size:334
Alignment explanation
Indices: 48873927--48874597 Score: 1290
Period size: 333 Copynumber: 2.0 Consensus size: 334
48873917 ATGGTATCAT
48873927 TCAACATTACACAATTTCAAATACTTTTACGAATTTCCAATGTGCATGTATAGCAACCTTTTCAA
1 TCAACATTACACAATTTCAAATACTTTTACGAATTTCCAATGTGCATGTATAGCAACCTTTTCAA
48873992 TATAACATAACATATTTTCCATGCAATTATATCATGCATAAGCTCATATTTCAAAAAATCATGCT
66 TATAACATAACATATTTTCCATGCAATTATATCATGCATAAGCTCATATTTCAAAAAATCATGCT
*
48874057 ATATATACAACCAATCTCATACCAAATAACACAATCATGAACCACAACGTCAATCACATAACCAC
131 ATATATACAACCAATATCATACCAAATAACACAATCATGAACCACAACGTCAATCACATAACCAC
*
48874122 ACTGTCAAACTAGCAACTTTGCTAACACATTAATCTTTTAGGACTCGAAACGTACCTGGCTCGGC
196 ACTATCAAACTAGCAACTTTGCTAACACATTAATCTTTTAGGACTCGAAACGTACCTGGCTCGGC
48874187 CACTTACAAAATTAATTATTTGGCTATTAATTCAATCCAATCAGCAAGCTAAATCATCAAATATA
261 CACTTACAAAATTAATTATTTGGCTATTAATTCAATCCAATCAGCAAGCTAAATCATCAAATATA
48874252 TCACAAAAA
326 TCACAAAAA
48874261 TCAACATTACACAATTTCAAATACTTTTACGAATTTCCAATGTGCATGTATAGCAACCTTTTCAA
1 TCAACATTACACAATTTCAAATACTTTTACGAATTTCCAATGTGCATGTATAGCAACCTTTTCAA
48874326 TATAACATAACATATTTTCCATGCAATTATATCATGCATAAGCTCATATTTC-AAAAATCATGCT
66 TATAACATAACATATTTTCCATGCAATTATATCATGCATAAGCTCATATTTCAAAAAATCATGCT
* *
48874390 ATATATACAACCAATATCATACCAAATAACACAATCATGAATCACAACGTCAATCACATAACCAT
131 ATATATACAACCAATATCATACCAAATAACACAATCATGAACCACAACGTCAATCACATAACCAC
*
48874455 ACTATCAAACTAGCAACTTTGCTAACACATTAATCTTTTCGGACTCGAAACGTACCTGGCTCGGC
196 ACTATCAAACTAGCAACTTTGCTAACACATTAATCTTTTAGGACTCGAAACGTACCTGGCTCGGC
48874520 CACTTACAAAATTAATTATTTGGCTATTAATTCAATCCAATCAGCAAGCTAAATCATCAAATATA
261 CACTTACAAAATTAATTATTTGGCTATTAATTCAATCCAATCAGCAAGCTAAATCATCAAATATA
48874585 TCACAAAAA
326 TCACAAAAA
48874594 TCAA
1 TCAA
48874598 TATTTTTAAT
Statistics
Matches: 332, Mismatches: 5, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
333 215 0.65
334 117 0.35
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.30
Consensus pattern (334 bp):
TCAACATTACACAATTTCAAATACTTTTACGAATTTCCAATGTGCATGTATAGCAACCTTTTCAA
TATAACATAACATATTTTCCATGCAATTATATCATGCATAAGCTCATATTTCAAAAAATCATGCT
ATATATACAACCAATATCATACCAAATAACACAATCATGAACCACAACGTCAATCACATAACCAC
ACTATCAAACTAGCAACTTTGCTAACACATTAATCTTTTAGGACTCGAAACGTACCTGGCTCGGC
CACTTACAAAATTAATTATTTGGCTATTAATTCAATCCAATCAGCAAGCTAAATCATCAAATATA
TCACAAAAA
Found at i:48879504 original size:20 final size:20
Alignment explanation
Indices: 48879441--48879504 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
48879431 AATGTGTAAC
48879441 AGAGGTACCGA-AGTGCAAAT
1 AGAGGTACC-ATAGTGCAAAT
* * * *
48879461 AGAAGCACGATTGTGC-AAT
1 AGAGGTACCATAGTGCAAAT
48879480 CAGAGGTACCATAGTGCAAAT
1 -AGAGGTACCATAGTGCAAAT
48879501 AGAG
1 AGAG
48879505 ACACTGAAGT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
19 4 0.12
20 26 0.79
21 3 0.09
ACGTcount: A:0.39, C:0.16, G:0.28, T:0.17
Consensus pattern (20 bp):
AGAGGTACCATAGTGCAAAT
Found at i:48879515 original size:20 final size:20
Alignment explanation
Indices: 48879492--48879536 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
48879482 GAGGTACCAT
48879492 AGTGCAAATAGAGACACTGA
1 AGTGCAAATAGAGACACTGA
* *
48879512 AGTGTAAATAGAGGCACTGA
1 AGTGCAAATAGAGACACTGA
48879532 AGTGC
1 AGTGC
48879537 GAACAGAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.13, G:0.29, T:0.18
Consensus pattern (20 bp):
AGTGCAAATAGAGACACTGA
Found at i:48879544 original size:20 final size:20
Alignment explanation
Indices: 48879492--48879558 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
48879482 GAGGTACCAT
*
48879492 AGTGCAAATAGAGACACTGA
1 AGTGCAAACAGAGACACTGA
* * *
48879512 AGTGTAAATAGAGGCACTGA
1 AGTGCAAACAGAGACACTGA
* * * *
48879532 AGTGCGAACAGAGTCTCCGA
1 AGTGCAAACAGAGACACTGA
48879552 AGTGCAA
1 AGTGCAA
48879559 TCCCGTACAA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.39, C:0.16, G:0.28, T:0.16
Consensus pattern (20 bp):
AGTGCAAACAGAGACACTGA
Found at i:48890173 original size:41 final size:41
Alignment explanation
Indices: 48890049--48890194 Score: 170
Period size: 41 Copynumber: 3.6 Consensus size: 41
48890039 TTTAAAATGA
* * * *
48890049 TTCACCGGCATGT-AGCCTGCTAGGCTTAAAGCCTG-ATTCAG
1 TTCACCGGCAT-TAAGCCTGCTAGACGTAAAGTCTGAATT-AT
** * * *
48890090 AACACCAGCATTAAGCCTGCTAGACGTAAAGTCTAAAATAT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTAT
48890131 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTAT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTAT
*
48890172 TTCACTGGCATTAAGCCTGCTAG
1 TTCACCGGCATTAAGCCTGCTAG
48890195 GCACAGAGCC
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 1 0.01
41 85 0.97
42 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (41 bp):
TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTAT
Found at i:48893150 original size:23 final size:23
Alignment explanation
Indices: 48893124--48893199 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
48893114 ATAAGTGCCA
48893124 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
48893147 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
48893170 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
48893193 CACTGAT
1 CACTGAT
48893200 CAATAACACT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:48893299 original size:8 final size:8
Alignment explanation
Indices: 48893286--48893314 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
48893276 ACCCGGGACT
48893286 CACTGTAA
1 CACTGTAA
48893294 CACTGTAA
1 CACTGTAA
48893302 CACTGTAA
1 CACTGTAA
48893310 CACTG
1 CACTG
48893315 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:48893459 original size:18 final size:17
Alignment explanation
Indices: 48893433--48893471 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
48893423 ATTTTCCTTC
48893433 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
48893450 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
48893468 CACA
1 CACA
48893472 ATTTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:48900496 original size:23 final size:23
Alignment explanation
Indices: 48900470--48900545 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
48900460 ATAAGTGCCA
48900470 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
48900493 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
48900516 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
48900539 CACTGAT
1 CACTGAT
48900546 CAATAACACT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:48900644 original size:8 final size:8
Alignment explanation
Indices: 48900631--48900659 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
48900621 ACCCGGGACT
48900631 CACTGTAA
1 CACTGTAA
48900639 CACTGTAA
1 CACTGTAA
48900647 CACTGTAA
1 CACTGTAA
48900655 CACTG
1 CACTG
48900660 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:48900804 original size:18 final size:17
Alignment explanation
Indices: 48900778--48900816 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
48900768 ATTTTCCTTC
48900778 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
48900795 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
48900813 CACA
1 CACA
48900817 ATTTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:48907870 original size:5 final size:5
Alignment explanation
Indices: 48907860--48907885 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
48907850 GAAGCAAGTA
48907860 AAAAG AAAAG AAAAG AAAAG AAAAG A
1 AAAAG AAAAG AAAAG AAAAG AAAAG A
48907886 GGGGAAGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:48911937 original size:25 final size:23
Alignment explanation
Indices: 48911908--48911994 Score: 66
Period size: 25 Copynumber: 3.6 Consensus size: 23
48911898 ATACGAGCAC
*
48911908 TTAACGGGAAGCTCTTTCGAGCCA
1 TTAACGGGAAGCTCTGT-GAGCCA
**
48911932 TATAACTTGAAGCTCATGTGAGCCA
1 T-TAACGGGAAGCTC-TGTGAGCCA
* * * *
48911957 TGTAACAGAAAGCTCCGAAGAGCCA
1 T-TAACGGGAAGCTCTG-TGAGCCA
48911982 TTAACGGGAAGCT
1 TTAACGGGAAGCT
48911995 TATACGAGCC
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
24 12 0.24
25 35 0.71
26 2 0.04
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (23 bp):
TTAACGGGAAGCTCTGTGAGCCA
Found at i:48912014 original size:24 final size:25
Alignment explanation
Indices: 48911976--48912043 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 25
48911966 AAGCTCCGAA
* *
48911976 GAGCCATTAACGGGAAGCTT-ATA-C
1 GAGCCAATATCGGGAAGCTTCA-AGC
* * *
48912000 GAGCCAATTTTGGGAAGGTTCAAGC
1 GAGCCAATATCGGGAAGCTTCAAGC
48912025 GAGCCAATATCGGGAAGCT
1 GAGCCAATATCGGGAAGCT
48912044 CCGAAGAGCT
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
24 16 0.47
25 18 0.53
ACGTcount: A:0.31, C:0.19, G:0.29, T:0.21
Consensus pattern (25 bp):
GAGCCAATATCGGGAAGCTTCAAGC
Found at i:48918380 original size:21 final size:21
Alignment explanation
Indices: 48918346--48918397 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
48918336 CATATCTTCT
48918346 AAGATTGC--ATATCATATCC
1 AAGATTGCATATATCATATCC
*
48918365 AAGATTGCATATATCATATCT
1 AAGATTGCATATATCATATCC
48918386 AAGATTGCATAT
1 AAGATTGCATAT
48918398 CCTTAAAGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 8 0.27
21 22 0.73
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (21 bp):
AAGATTGCATATATCATATCC
Found at i:48918820 original size:44 final size:44
Alignment explanation
Indices: 48918741--48919231 Score: 538
Period size: 44 Copynumber: 11.2 Consensus size: 44
48918731 ATAAGACTTG
* ***
48918741 TATCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGC
* * * * * *
48918786 TACCTTTGATCTATTTCATGCTAATACATGAAGACAAGATCTGT
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
* *
48918830 TTTCTTCGATCTACTT--CGCCAATACATGAAGACAAGATCTAC
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
* * * * ***
48918872 TTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGC
*
48918917 TATCTTCGATCTACTTCACGCCAATACATGAAGACAATATCTGC
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
* * * *
48918961 TATATTTGATCTATTTCACGCCAATACATGAAGACAATATCTGC
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
*
48919005 TATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
*
48919049 TTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
* * *
48919093 TATCTTTGATCTACTTCACGCCAATACATAAAGATAAGATCTGC
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
* * ** * * ** * *
48919137 TTTCTTCGATCTACTTCACGACAACCCAGGGAGGTAAG-GCTGG
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
* * ** *
48919180 TATCTTCGATCTGCTTCACTGTCGGTACAGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGC
48919225 TATCTTC
1 TATCTTC
48919232 AACCTGCTCC
Statistics
Matches: 374, Mismatches: 67, Indels: 10
0.83 0.15 0.02
Matches are distributed among these distances:
42 38 0.10
43 20 0.05
44 255 0.68
45 61 0.16
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.31
Consensus pattern (44 bp):
TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
Found at i:48919220 original size:88 final size:88
Alignment explanation
Indices: 48919128--48919848 Score: 1190
Period size: 88 Copynumber: 8.2 Consensus size: 88
48919118 ACATAAAGAT
* * * * * * *
48919128 AAGATCTGCTTTCTTCGATCTACTTCACGACAACCCAGGGAGGTAAGGCTGGTATCTTCGATCTG
1 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTG
*
48919193 CTTCACTGTCGGTACAGGAAGAC
66 CTTCACTGTCGGTACAGGAAGGC
* *
48919216 AAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTATCTTCGATGTG
1 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTG
48919281 CTTCACTGTCGGTACAGGAAGGC
66 CTTCACTGTCGGTACAGGAAGGC
*
48919304 AAGATCTACTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTG
1 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTG
48919369 CTTCACTGTCGGTACAGGAAGGC
66 CTTCACTGTCGGTACAGGAAGGC
*
48919392 AAGATCTGCTATCTTCAACATGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTG
1 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTG
48919457 CTTCACTGTCGGTACAGGAAGGC
66 CTTCACTGTCGGTACAGGAAGGC
48919480 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTG
1 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTG
48919545 CTTCACTGTCGGTACAGGAAGGC
66 CTTCACTGTCGGTACAGGAAGGC
* * *
48919568 AAGATCTGCTATCTTCAACCTGTTCCACTACGACCTAGGGAGGCAAGGCTGGTATCTTCGATCTG
1 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTG
*
48919633 CTTCACTGCCGGTACAGGAAGGC
66 CTTCACTGTCGGTACAGGAAGGC
* * *
48919656 AAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGACCGGTATCTTCGATCTG
1 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTG
*
48919721 CTTCATTGTCGGTACAGGAAGGC
66 CTTCACTGTCGGTACAGGAAGGC
* *
48919744 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCATGGAGGTAAGGCTGGTATCTTCGATCTG
1 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTG
* * * *
48919809 TTTCGCTGTCGATGCAGGAAGGC
66 CTTCACTGTCGGTACAGGAAGGC
**
48919832 AAGATCTATTATCTTCA
1 AAGATCTGCTATCTTCA
48919849 CTGACTGCTC
Statistics
Matches: 595, Mismatches: 38, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 595 1.00
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (88 bp):
AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTG
CTTCACTGTCGGTACAGGAAGGC
Found at i:48925506 original size:12 final size:12
Alignment explanation
Indices: 48925489--48925516 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
48925479 ATACATATCC
48925489 ATCGGCCAAGCT
1 ATCGGCCAAGCT
48925501 ATCGGCCAAGCT
1 ATCGGCCAAGCT
48925513 ATCG
1 ATCG
48925517 CCTTTCTCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.32, G:0.25, T:0.18
Consensus pattern (12 bp):
ATCGGCCAAGCT
Found at i:48927971 original size:22 final size:20
Alignment explanation
Indices: 48927963--48928025 Score: 94
Period size: 19 Copynumber: 3.1 Consensus size: 20
48927953 AGATTACAAA
48927963 ATCATATCTTCCAAGATTGCAT
1 ATCATATC-T-CAAGATTGCAT
48927985 ATCATATC-CAAGATTGCAT
1 ATCATATCTCAAGATTGCAT
48928004 ATCATATCT-AAGATTGCAT
1 ATCATATCTCAAGATTGCAT
48928023 ATC
1 ATC
48928026 CTTGAAGATT
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
19 32 0.80
22 8 0.20
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.35
Consensus pattern (20 bp):
ATCATATCTCAAGATTGCAT
Found at i:48927996 original size:19 final size:19
Alignment explanation
Indices: 48927972--48928025 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
48927962 AATCATATCT
48927972 TCCAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
48927991 TCCAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
*
48928010 TCTAAGATTGCATATC
1 TCCAAGATTGCATATC
48928026 CTTGAAGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.33
Consensus pattern (19 bp):
TCCAAGATTGCATATCATA
Found at i:48930630 original size:30 final size:30
Alignment explanation
Indices: 48930589--48930856 Score: 253
Period size: 30 Copynumber: 9.0 Consensus size: 30
48930579 AAAATCACGG
* *
48930589 TGGTTATCACCATCCCTTTTCATAATTCAA
1 TGGTCATCACCATCCCTTTTCATAATTCGA
48930619 TGGTCATCACCATCCCTTTTCATAATT-GA
1 TGGTCATCACCATCCCTTTTCATAATTCGA
** *
48930648 TGGTTGTCACCATCCTTTTTCATAATTCGA
1 TGGTCATCACCATCCCTTTTCATAATTCGA
* * * *
48930678 TAG-C-TGAAGCTATCCCTTTTCATAATTCAA
1 TGGTCAT-CA-CCATCCCTTTTCATAATTCGA
*
48930708 TGGTCATCACCATCCCTTTTCATAGTT-GA
1 TGGTCATCACCATCCCTTTTCATAATTCGA
* *
48930737 TGGTCATCACCATCCTTTTTCATAATTTGA
1 TGGTCATCACCATCCCTTTTCATAATTCGA
*** * * *
48930767 CAATCGA--AGCTATCCTTTTTCATAATTCAA
1 TGGTC-ATCA-CCATCCCTTTTCATAATTCGA
* *
48930797 TGGTCGTCACCATCCCTTTTCATAGTT-GA
1 TGGTCATCACCATCCCTTTTCATAATTCGA
* *
48930826 TGGTCGTCACCATCCTTTTTCATAATTCGA
1 TGGTCATCACCATCCCTTTTCATAATTCGA
48930856 T
1 T
48930857 AGTTGAAGCT
Statistics
Matches: 193, Mismatches: 34, Indels: 22
0.78 0.14 0.09
Matches are distributed among these distances:
28 1 0.01
29 79 0.41
30 108 0.56
31 4 0.02
32 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.11, T:0.40
Consensus pattern (30 bp):
TGGTCATCACCATCCCTTTTCATAATTCGA
Found at i:48930662 original size:59 final size:59
Alignment explanation
Indices: 48930595--48930853 Score: 274
Period size: 59 Copynumber: 4.4 Consensus size: 59
48930585 ACGGTGGTTA
* *
48930595 TCACCATCCCTTTTCATAATTCAATGGTCATCACCATCCCTTTTCATAATTGATGGTTG
1 TCACCATCCTTTTTCATAATTCAATGGTCATCACCATCCCTTTTCATAATTGATGGTCG
* * * * * *
48930654 TCACCATCCTTTTTCATAATTCGATAG-C-TGAAGCTATCCCTTTTCATAATTCAATGGTCA
1 TCACCATCCTTTTTCATAATTCAATGGTCAT-CA-CCATCCCTTTTCATAATT-GATGGTCG
* * * * ***
48930714 TCACCATCCCTTTTCATAGTT-GATGGTCATCACCATCCTTTTTCATAATTTGACAATCG
1 TCACCATCCTTTTTCATAATTCAATGGTCATCACCATCCCTTTTCATAA-TTGATGGTCG
* * * *
48930773 -AAGCTATCCTTTTTCATAATTCAATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCG
1 TCA-CCATCCTTTTTCATAATTCAATGGTCATCACCATCCCTTTTCATAATTGATGGTCG
48930832 TCACCATCCTTTTTCATAATTC
1 TCACCATCCTTTTTCATAATTC
48930854 GATAGTTGAA
Statistics
Matches: 159, Mismatches: 32, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
57 1 0.01
58 3 0.02
59 102 0.64
60 52 0.33
61 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.10, T:0.39
Consensus pattern (59 bp):
TCACCATCCTTTTTCATAATTCAATGGTCATCACCATCCCTTTTCATAATTGATGGTCG
Found at i:48930751 original size:89 final size:89
Alignment explanation
Indices: 48930600--48930880 Score: 447
Period size: 89 Copynumber: 3.2 Consensus size: 89
48930590 GGTTATCACC
* *
48930600 ATCCCTTTTCATAATTCAATGGTCATCACCATCCCTTTTCATAATTGATGGTTGTCACCATCCTT
1 ATCCCTTTTCATAATTCAATGGTCATCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCTT
*
48930665 TTTCATAATTCGATAGCTGAAGCT
66 TTTCATAATTCGATAGATGAAGCT
*
48930689 ATCCCTTTTCATAATTCAATGGTCATCACCATCCCTTTTCATAGTTGATGGTCATCACCATCCTT
1 ATCCCTTTTCATAATTCAATGGTCATCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCTT
* *
48930754 TTTCATAATTTGACA-ATCGAAGCT
66 TTTCATAATTCGATAGAT-GAAGCT
* *
48930778 ATCCTTTTTCATAATTCAATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCTT
1 ATCCCTTTTCATAATTCAATGGTCATCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCTT
*
48930843 TTTCATAATTCGATAGTTGAAGCT
66 TTTCATAATTCGATAGATGAAGCT
* *
48930867 ATCCTTTTTTATAA
1 ATCCCTTTTCATAA
48930881 AATGCTATTT
Statistics
Matches: 177, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
88 1 0.01
89 175 0.99
90 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.11, T:0.40
Consensus pattern (89 bp):
ATCCCTTTTCATAATTCAATGGTCATCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCTT
TTTCATAATTCGATAGATGAAGCT
Found at i:48933223 original size:20 final size:20
Alignment explanation
Indices: 48933198--48933235 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
48933188 TACGGGATTA
48933198 CACTTCGATGCCTCTGTTTG
1 CACTTCGATGCCTCTGTTTG
*
48933218 CACTTCGATGTCTCTGTT
1 CACTTCGATGCCTCTGTT
48933236 AGCATTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.11, C:0.29, G:0.18, T:0.42
Consensus pattern (20 bp):
CACTTCGATGCCTCTGTTTG
Found at i:48936714 original size:49 final size:49
Alignment explanation
Indices: 48936646--48936783 Score: 213
Period size: 49 Copynumber: 2.8 Consensus size: 49
48936636 TTATTTTCTT
* * * * *
48936646 GATGCCATAGTCCAACTATGGTCTTACATGTAATCACATAACATATATC
1 GATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAACATATACC
*
48936695 GATGCAATAGCCCAGCTATGGTCTTACACGGAATCACATAACATATACC
1 GATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAACATATACC
*
48936744 GATGCCATAGCCCAGCTATGGTTTTACACGGAATCACATA
1 GATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATA
48936784 TCACTTATTG
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 81 1.00
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (49 bp):
GATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAACATATACC
Found at i:48937987 original size:23 final size:23
Alignment explanation
Indices: 48937961--48938034 Score: 112
Period size: 23 Copynumber: 3.2 Consensus size: 23
48937951 ATAAGTGCCA
*
48937961 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGTAGCTAC
**
48937984 CACTGATACATAGCCGTAGCTAC
1 CACTGATATGTAGCCGTAGCTAC
*
48938007 CACTAATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGTAGCTAC
48938030 CACTG
1 CACTG
48938035 GTCAATAACA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGTAGCTAC
Found at i:48949519 original size:45 final size:45
Alignment explanation
Indices: 48949468--48949559 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
48949458 TTAAGATACA
*
48949468 TTTTATTAAAAAATCACATTTTTTATATTTCATATATTTTTAAAT
1 TTTTATTAAAAAATCACATTTTTTATATTTAATATATTTTTAAAT
*
48949513 TTTTATTAAAAAATCACATTTTTTATATTTAATATATTTTTTAAT
1 TTTTATTAAAAAATCACATTTTTTATATTTAATATATTTTTAAAT
48949558 TT
1 TT
48949560 CAAAATACAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (45 bp):
TTTTATTAAAAAATCACATTTTTTATATTTAATATATTTTTAAAT
Found at i:48965779 original size:12 final size:12
Alignment explanation
Indices: 48965762--48965787 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
48965752 CAAAACAGAC
48965762 TTTTAGCGGCGT
1 TTTTAGCGGCGT
48965774 TTTTAGCGGCGT
1 TTTTAGCGGCGT
48965786 TT
1 TT
48965788 GGATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:48965830 original size:45 final size:44
Alignment explanation
Indices: 48965779--48965867 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
48965769 GGCGTTTTTA
* * *
48965779 GCGGCGTTTGGATAAAAAATGCCGCTAAAAATTAAGCATTAGCGG
1 GCGGCGTTT-GACAAAAAACGCCGCTAAAAATCAAGCATTAGCGG
* * *
48965824 GCGGCGTTTTACATAAAACGCTGCTAAAAATCAAGCATTAGCGG
1 GCGGCGTTTGACAAAAAACGCCGCTAAAAATCAAGCATTAGCGG
48965868 CGCTTCCAGG
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
44 29 0.76
45 9 0.24
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (44 bp):
GCGGCGTTTGACAAAAAACGCCGCTAAAAATCAAGCATTAGCGG
Found at i:48966027 original size:41 final size:41
Alignment explanation
Indices: 48965967--48966047 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
48965957 TTGACATTTC
* * * *
48965967 GGGGCTTTAACGGCGTTTTTGGAAAAGCATCGCTAATGCTG
1 GGGGCTTTAACAGCATTTTTGAAAAAGCACCGCTAATGCTG
* *
48966008 GGGGCTTTAGCAGCATTTTTGAAAAAGCGCCGCTAATGCT
1 GGGGCTTTAACAGCATTTTTGAAAAAGCACCGCTAATGCT
48966048 CGAGCCTTTG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (41 bp):
GGGGCTTTAACAGCATTTTTGAAAAAGCACCGCTAATGCTG
Found at i:48966081 original size:41 final size:41
Alignment explanation
Indices: 48965997--48966290 Score: 295
Period size: 41 Copynumber: 7.2 Consensus size: 41
48965987 GGAAAAGCAT
* * * * *
48965997 CGCTAATGCTGGGGGCTTTAGCAGC-ATTTTTGAAAAAGCGC
1 CGCTAATGCTCGGGTCTTTAGCGGCGCTTTTTCAAAAA-CGC
* * * *
48966038 CGCTAATGCTCGAGCCTTTGGCGGCGCTTTTTCAAAAATGC
1 CGCTAATGCTCGGGTCTTTAGCGGCGCTTTTTCAAAAACGC
* *
48966079 CGCTAATGGTCGGGTCTTTAGCGGCGCTTTTTCAAAAACGG
1 CGCTAATGCTCGGGTCTTTAGCGGCGCTTTTTCAAAAACGC
** * * *
48966120 CATTAATGCTTGGGTTTTTAGCGGCGCTTTTTCAAAAATGC
1 CGCTAATGCTCGGGTCTTTAGCGGCGCTTTTTCAAAAACGC
* * *
48966161 CGCTATTGCTCGGGTATTTAGCGGCGCTTTTTTAAAAACGC
1 CGCTAATGCTCGGGTCTTTAGCGGCGCTTTTTCAAAAACGC
* * * * * **
48966202 CGCTAATGCTTGGGTTTTTAACGACGCTTTTTTAAAAAAAC
1 CGCTAATGCTCGGGTCTTTAGCGGCGCTTTTTCAAAAACGC
* * *
48966243 CGCTAATGCCCGGGTCTTTAGCGGC-TTTTTTGAAAAAGCGC
1 CGCTAATGCTCGGGTCTTTAGCGGCGCTTTTTCAAAAA-CGC
48966284 CGCTAAT
1 CGCTAAT
48966291 CCCAAATTGA
Statistics
Matches: 207, Mismatches: 44, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
40 10 0.05
41 187 0.90
42 10 0.05
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.32
Consensus pattern (41 bp):
CGCTAATGCTCGGGTCTTTAGCGGCGCTTTTTCAAAAACGC
Found at i:48966285 original size:82 final size:81
Alignment explanation
Indices: 48965997--48966290 Score: 329
Period size: 82 Copynumber: 3.6 Consensus size: 81
48965987 GGAAAAGCAT
* * * * * * ** *
48965997 CGCTAATGCTGGGGGCTTTAGCAGCATTTTTGAAAAAGCGCCGCTAATGCTCGAGCCTTTGGCGG
1 CGCTAATGCTCGGGTCTTTAGCGGCTTTTTTGAAAAA-CGCCGCTAATGCTTGGGTTTTTAGCGG
48966062 CGCTTTTTCAAAAATGC
65 CGCTTTTTCAAAAATGC
* * * * **
48966079 CGCTAATGGTCGGGTCTTTAGCGGCGCTTTTTCAAAAACGGCATTAATGCTTGGGTTTTTAGCGG
1 CGCTAATGCTCGGGTCTTTAGCGGC-TTTTTTGAAAAACGCCGCTAATGCTTGGGTTTTTAGCGG
48966144 CGCTTTTTCAAAAATGC
65 CGCTTTTTCAAAAATGC
* * *
48966161 CGCTATTGCTCGGGTATTTAGCGGCGCTTTTTT-AAAAACGCCGCTAATGCTTGGGTTTTTAACG
1 CGCTAATGCTCGGGTCTTTAGC-G-GCTTTTTTGAAAAACGCCGCTAATGCTTGGGTTTTTAGCG
* * **
48966225 ACGCTTTTTTAAAAAAAC
64 GCGCTTTTTCAAAAATGC
*
48966243 CGCTAATGCCCGGGTCTTTAGCGGCTTTTTTGAAAAAGCGCCGCTAAT
1 CGCTAATGCTCGGGTCTTTAGCGGCTTTTTTGAAAAA-CGCCGCTAAT
48966291 CCCAAATTGA
Statistics
Matches: 178, Mismatches: 29, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
80 8 0.04
81 6 0.03
82 146 0.82
83 16 0.09
84 2 0.01
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.32
Consensus pattern (81 bp):
CGCTAATGCTCGGGTCTTTAGCGGCTTTTTTGAAAAACGCCGCTAATGCTTGGGTTTTTAGCGGC
GCTTTTTCAAAAATGC
Found at i:48969709 original size:22 final size:22
Alignment explanation
Indices: 48969684--48969728 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
48969674 TTTAATAAAG
48969684 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
48969706 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
48969728 A
1 A
48969729 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:48973669 original size:50 final size:50
Alignment explanation
Indices: 48973545--48973793 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
48973535 GATAATAACA
* * ** * *
48973545 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
48973596 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
48973646 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
48973696 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
48973751 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
48973794 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:48973723 original size:100 final size:104
Alignment explanation
Indices: 48973544--48973793 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
48973534 TGATAATAAC
**
48973544 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
48973609 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
48973646 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
48973709 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
48973751 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
48973794 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:48973909 original size:13 final size:13
Alignment explanation
Indices: 48973888--48973919 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
48973878 GCTTGGATCA
*
48973888 TCATCAAATAAAT
1 TCATAAAATAAAT
48973901 TCATAAAATAAAT
1 TCATAAAATAAAT
48973914 TCATAA
1 TCATAA
48973920 TTGCTGGAAA
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:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:48976238 original size:22 final size:22
Alignment explanation
Indices: 48976213--48976257 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
48976203 TTTAATAAAG
48976213 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
48976235 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
48976257 A
1 A
48976258 CATGAATGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:48978812 original size:43 final size:43
Alignment explanation
Indices: 48978765--48979055 Score: 379
Period size: 43 Copynumber: 6.8 Consensus size: 43
48978755 TTTTTAATAG
*
48978765 AAGCGCCGCTAAAGGTCATGAG-CTTTAGCGGCGTTTGTGGGAA
1 AAGCGCCGCTAAAGGTCTTG-GTCTTTAGCGGCGTTTGTGGGAA
* * * * **
48978808 AAGCGTCGCTAAAGGTCTTGTTTTTTAGCGGCGTTTTTTAGAA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAA
* * *
48978851 AAGCACCGCCAAAGGTCTTGGTCTTTAGCGGCGTTTCTGGGAA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAA
* * * *
48978894 AAACGCCGCTAAAGGTCTTAGTCTTTAACGGCTTTTGTGGGAA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAA
* *
48978937 AAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGTGTTTGT-GGAA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAA
* * *
48978979 AAGGCACCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTGTAGGAA
1 AA-GCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAA
48979023 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCG
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCG
48979056 CTTATCAAAG
Statistics
Matches: 212, Mismatches: 33, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
42 6 0.03
43 200 0.94
44 6 0.03
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAA
Found at i:48978867 original size:86 final size:84
Alignment explanation
Indices: 48978704--48979055 Score: 361
Period size: 86 Copynumber: 4.1 Consensus size: 84
48978694 AAGTTATGCT
* * * * * * * * * *
48978704 TTTAGTGGCGTTTGTGAAAAAGCGTCGCTAAAAGTCAATGT-TATAGCAGCGTTTTTAATAGAAG
1 TTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTC-TTGTCTTTAGCGGCGTTTTTTAGAAAAG
*
48978768 CGCCGCTAAAGGTCATGAG-C
65 CGCCGCTAAAGGTCTTG-GTC
* *
48978788 TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCTTGTTTTTTAGCGGCGTTTTTTAGAAAA
1 TTTAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTCTTG-TCTTTAGCGGCGTTTTTTAGAAAA
* *
48978853 GCACCGCCAAAGGTCTTGGTC
64 GCGCCGCTAAAGGTCTTGGTC
* * * **
48978874 TTTAGCGGCGTTTCTGGGAAAAACGCCGCTAAAGGTCTTAGTCTTTAACGGC-TTTTGTGGGAAA
1 TTTAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTCTT-GTCTTTAGCGGCGTTTT-TTAGAAA
*
48978938 AGCGCCGCTAAAGGTCGTGGTC
63 AGCGCCGCTAAAGGTCTTGGTC
* * * *
48978960 TTTAGCGGTGTTTGTGGAAAAGGCACCGCTAAAGGTCCTGGTCTTTAGCGGCG-TTTGTAGGAAA
1 TTTAGCGGCGTTTGTGGAAAA-GCGCCGCTAAAGGT-CTTGTCTTTAGCGGCGTTTTTTA-GAAA
48979024 AGCGCCGCTAAAGGTCTTGGTC
63 AGCGCCGCTAAAGGTCTTGGTC
48979046 TTTAGCGGCG
1 TTTAGCGGCG
48979056 CTTATCAAAG
Statistics
Matches: 225, Mismatches: 33, Indels: 18
0.82 0.12 0.07
Matches are distributed among these distances:
84 16 0.07
85 31 0.14
86 175 0.78
87 3 0.01
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (84 bp):
TTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCTTGTCTTTAGCGGCGTTTTTTAGAAAAGC
GCCGCTAAAGGTCTTGGTC
Found at i:48984660 original size:24 final size:25
Alignment explanation
Indices: 48984633--48984687 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
48984623 ATCATTAAGG
* * * *
48984633 TTACCGATTCT-AGCTCTTATGGGC
1 TTACCGATACTCAACTCGTATGAGC
48984657 TTACCGATACTCAACTCGTATGAGC
1 TTACCGATACTCAACTCGTATGAGC
48984682 TTACCG
1 TTACCG
48984688 TTATTTCAGC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 10 0.38
25 16 0.62
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.33
Consensus pattern (25 bp):
TTACCGATACTCAACTCGTATGAGC
Found at i:48984731 original size:24 final size:26
Alignment explanation
Indices: 48984675--48984731 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 26
48984665 ACTCAACTCG
* *
48984675 TATGAGCTTACCGTTATTTCAGCTCA
1 TATGAGCTTACCATTATATCAGCTCA
* *
48984701 AAGGAGCTTACCATT-TAT-AGCTCA
1 TATGAGCTTACCATTATATCAGCTCA
48984725 TATGAGC
1 TATGAGC
48984732 ATACATGTAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
24 11 0.44
25 2 0.08
26 12 0.48
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (26 bp):
TATGAGCTTACCATTATATCAGCTCA
Found at i:48991057 original size:14 final size:15
Alignment explanation
Indices: 48991021--48991060 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
48991011 ATTGAGTTGA
*
48991021 GAAAATTATTTAATT
1 GAAAATTAATTAATT
48991036 GAAAATTAATTAATT
1 GAAAATTAATTAATT
*
48991051 -TAAATTAATT
1 GAAAATTAATT
48991061 TAATAAGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (15 bp):
GAAAATTAATTAATT
Found at i:48996761 original size:26 final size:26
Alignment explanation
Indices: 48996711--48996761 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
48996701 AAACTCTTCA
*
48996711 AAAAGAAAACTCAAGATAAATTTTTG
1 AAAAGAAAAATCAAGATAAATTTTTG
48996737 AAAAGAAAAGATCAA-ATAGAATTTT
1 AAAAGAAAA-ATCAAGATA-AATTTT
48996762 ATTAAATCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.57, C:0.06, G:0.12, T:0.25
Consensus pattern (26 bp):
AAAAGAAAAATCAAGATAAATTTTTG
Found at i:48999986 original size:34 final size:34
Alignment explanation
Indices: 48999944--49000011 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
48999934 GCATTTTTGA
* *
48999944 CACTATACTGAGATGGGCTAAGGCCCAA-ACTGT
1 CACTATACTGAAAAGGGCTAAGGCCCAAGACTGT
*
48999977 CACTAATACTGAAAAGGGCTTAGGCCCAAGACTGT
1 CACT-ATACTGAAAAGGGCTAAGGCCCAAGACTGT
49000012 TCAACTGTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 4 0.13
34 21 0.70
35 5 0.17
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.21
Consensus pattern (34 bp):
CACTATACTGAAAAGGGCTAAGGCCCAAGACTGT
Found at i:49001303 original size:68 final size:68
Alignment explanation
Indices: 49001194--49001470 Score: 333
Period size: 68 Copynumber: 4.1 Consensus size: 68
49001184 TCAAAATTGA
* * * * *
49001194 AAGTCTGCCTA-GAAAATAAACATGGGATCATATTGTGTAAGACCACAGTTTGGCTATGGCAACA
1 AAGTCTGCC-AGGACAATAAACATGGGATCATATTGTGTAAGACCATAGCTCGACTATGGCAACA
49001258 TATG
65 TATG
* * * **
49001262 AAGTCTGCCAGGACAATAAACATGAGATCATATTGTATAAGATCATAGCTCGACTACAGCAACAT
1 AAGTCTGCCAGGACAATAAACATGGGATCATATTGTGTAAGACCATAGCTCGACTATGGCAACAT
49001327 ATG
66 ATG
* * * * *
49001330 AAGTCTGCCAAGACAATAAACAAGGGAACATATTGTGTAAAACTATAGCTCGACTATGGCAACAT
1 AAGTCTGCCAGGACAATAAACATGGGATCATATTGTGTAAGACCATAGCTCGACTATGGCAACAT
49001395 ATGG
66 AT-G
* * * * * *
49001399 AA-TCTTCCAGGACAATAAACATGGAATCATATTGTGTAAGACCATAGGTAGGCTATGGTAACAT
1 AAGTCTGCCAGGACAATAAACATGGGATCATATTGTGTAAGACCATAGCTCGACTATGGCAACAT
49001463 ATG
66 ATG
49001466 AAGTC
1 AAGTC
49001471 CACCAAGATG
Statistics
Matches: 175, Mismatches: 31, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
67 4 0.02
68 168 0.96
69 3 0.02
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (68 bp):
AAGTCTGCCAGGACAATAAACATGGGATCATATTGTGTAAGACCATAGCTCGACTATGGCAACAT
ATG
Found at i:49006155 original size:9 final size:9
Alignment explanation
Indices: 49006141--49006243 Score: 111
Period size: 9 Copynumber: 11.4 Consensus size: 9
49006131 TTTGGTTAAA
49006141 AATTAACCG
1 AATTAACCG
49006150 AATTAACCG
1 AATTAACCG
*
49006159 AATTAATCG
1 AATTAACCG
*
49006168 AATTACCCG
1 AATTAACCG
49006177 AATTAACCG
1 AATTAACCG
49006186 AATT-ACTCG
1 AATTAAC-CG
*
49006195 AATTACCCG
1 AATTAACCG
*
49006204 AATTACCCG
1 AATTAACCG
*
49006213 AATT-ACTCA
1 AATTAAC-CG
*
49006222 AATTAACTG
1 AATTAACCG
*
49006231 AATTAACCA
1 AATTAACCG
49006240 AATT
1 AATT
49006244 GAATCACTAC
Statistics
Matches: 79, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
8 3 0.04
9 73 0.92
10 3 0.04
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:49006177 original size:27 final size:27
Alignment explanation
Indices: 49006141--49006248 Score: 135
Period size: 27 Copynumber: 4.0 Consensus size: 27
49006131 TTTGGTTAAA
49006141 AATTAACCGAATTAACCGAATTAATCG
1 AATTAACCGAATTAACCGAATTAATCG
* *
49006168 AATTACCCGAATTAACCGAATTACTCG
1 AATTAACCGAATTAACCGAATTAATCG
* * * *
49006195 AATTACCCGAATTACCCGAATTACTCA
1 AATTAACCGAATTAACCGAATTAATCG
* *
49006222 AATTAACTGAATTAACCAAATTGAATC
1 AATTAACCGAATTAACCGAATT-AATC
49006249 ACTACATAAT
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
27 68 0.96
28 3 0.04
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.27
Consensus pattern (27 bp):
AATTAACCGAATTAACCGAATTAATCG
Found at i:49006386 original size:18 final size:18
Alignment explanation
Indices: 49006346--49006389 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
49006336 AATTTTTATG
**
49006346 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
49006364 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
49006382 CTTGGGTT
1 ATTGGGTT
49006390 TAGATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:49008676 original size:202 final size:202
Alignment explanation
Indices: 49008330--49008734 Score: 702
Period size: 202 Copynumber: 2.0 Consensus size: 202
49008320 GTTCCATTTG
*
49008330 AACTTACTTCCTTTTGAAAGCTTACTCTTATTGTTTTCCCTATATGTAGATTTTAACCCTATGAA
1 AACTTACTTCCTTTTGAAAGCTTACTCTGATTGTTTTCCCTATATGTAGATTTTAACCCTATGAA
* *
49008395 ACTGCCGAGCTGGATCAACGGAGGAGCACACACTATCATAAGATGGTAGTTATAAGTTCATTTTG
66 ACTGCCGAGCCGGATCAACGGAGGAGCACACACTATCACAAGATGGTAGTTATAAGTTCATTTTG
49008460 AGTTTAGACTATGTGGCATGTACTTAGGTGTTTTGGGATTTGGTAGTCTCATGTTAATAATGATA
131 AGTTTAGACTATGTGGCATGTACTTAGGTGTTTTGGGATTTGGTAGTCTCATGTTAATAATGATA
49008525 ATGGTTT
196 ATGGTTT
* * * * * * *
49008532 AACTTACTTCCTTTTGAATGTTTACTCTGGTTGTTTTCCTTATATGTAGATTTTAACCTTGTGGA
1 AACTTACTTCCTTTTGAAAGCTTACTCTGATTGTTTTCCCTATATGTAGATTTTAACCCTATGAA
* *
49008597 ACTGCTGAGCCGGATCAGCGGAGGAGCACACACTATCACAAGATGGTAGTTATAAGTTCATTTTG
66 ACTGCCGAGCCGGATCAACGGAGGAGCACACACTATCACAAGATGGTAGTTATAAGTTCATTTTG
49008662 AGTTTAGACTATGTGGCATGTACTTAGGTGTTTTGGGATTTGGTAGTCTCATGTTAATAATGATA
131 AGTTTAGACTATGTGGCATGTACTTAGGTGTTTTGGGATTTGGTAGTCTCATGTTAATAATGATA
49008727 ATGGTTT
196 ATGGTTT
49008734 A
1 A
49008735 TTTGATTATA
Statistics
Matches: 191, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
202 191 1.00
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.39
Consensus pattern (202 bp):
AACTTACTTCCTTTTGAAAGCTTACTCTGATTGTTTTCCCTATATGTAGATTTTAACCCTATGAA
ACTGCCGAGCCGGATCAACGGAGGAGCACACACTATCACAAGATGGTAGTTATAAGTTCATTTTG
AGTTTAGACTATGTGGCATGTACTTAGGTGTTTTGGGATTTGGTAGTCTCATGTTAATAATGATA
ATGGTTT
Found at i:49010368 original size:19 final size:19
Alignment explanation
Indices: 49010308--49010369 Score: 65
Period size: 19 Copynumber: 3.1 Consensus size: 19
49010298 CATACATATA
49010308 TTTTTAAAAA-TAATATTT
1 TTTTTAAAAATTAATATTT
49010326 ATAATTTTCAAAAATTAGAT-TTT
1 -T--TTTT-AAAAATTA-ATATTT
49010349 TTTTTAAAAATTAATATTT
1 TTTTTAAAAATTAATATTT
49010368 TT
1 TT
49010370 ATAAGTTTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
18 2 0.05
19 14 0.38
20 4 0.11
21 4 0.11
22 6 0.16
23 5 0.14
24 2 0.05
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (19 bp):
TTTTTAAAAATTAATATTT
Found at i:49013875 original size:40 final size:41
Alignment explanation
Indices: 49013815--49013953 Score: 130
Period size: 40 Copynumber: 3.5 Consensus size: 41
49013805 AACGCACTAG
*
49013815 TTTGGCACCCAGTGCCTCATCGGATAATTC-GAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATAATTCTGAAGTAATAA
* * *
49013855 TTTGACACCCAGTGTCTCATCGGCTAA-ACTGAAGT-A-AA
1 TTTGACACCCAGTGCCTCATCGGATAATTCTGAAGTAATAA
* * * *
49013893 -TTGGCACTCAATGCCTCATCGAAT-ATATCTGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATAAT-TCTGAAGTAATAA
* *
49013933 TTTGACA-CTAGTGTCTCATCG
1 TTTGACACCCAGTGCCTCATCG
49013954 ACTCAAAGTC
Statistics
Matches: 77, Mismatches: 16, Indels: 12
0.73 0.15 0.11
Matches are distributed among these distances:
36 1 0.01
37 18 0.23
38 9 0.12
39 3 0.04
40 41 0.53
41 5 0.06
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.29
Consensus pattern (41 bp):
TTTGACACCCAGTGCCTCATCGGATAATTCTGAAGTAATAA
Found at i:49014828 original size:19 final size:19
Alignment explanation
Indices: 49014806--49014844 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
49014796 AGCTTTGCCC
49014806 TTTC-TCCTTTTCTTTCCTT
1 TTTCTTCCTTTT-TTTCCTT
*
49014825 TTTCTTTCTTTTTTTCCTT
1 TTTCTTCCTTTTTTTCCTT
49014844 T
1 T
49014845 CTGTTTCGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTCTTCCTTTTTTTCCTT
Found at i:49014851 original size:19 final size:20
Alignment explanation
Indices: 49014812--49014857 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
49014802 GCCCTTTCTC
*
49014812 CTTTTCTTTCCTTTTTCTTT
1 CTTTTCTTTCCTTTCTCTTT
*
49014832 CTTTT-TTTCCTTTCTGTTT
1 CTTTTCTTTCCTTTCTCTTT
*
49014851 CGTTTCT
1 CTTTTCT
49014858 ATCTTGTTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.00, C:0.24, G:0.04, T:0.72
Consensus pattern (20 bp):
CTTTTCTTTCCTTTCTCTTT
Found at i:49022378 original size:2 final size:2
Alignment explanation
Indices: 49022373--49022398 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
49022363 GGTCTCTCCC
49022373 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
49022399 TGTAAAAGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:49024894 original size:6 final size:6
Alignment explanation
Indices: 49024883--49024920 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
49024873 GGTTATTGGT
*
49024883 TTAGGG TTAGGG TTAGGG TTAAGG TTAGGG TTAGGG TT
1 TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG TT
49024921 TTGGTATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.18, C:0.00, G:0.45, T:0.37
Consensus pattern (6 bp):
TTAGGG
Found at i:49025122 original size:96 final size:94
Alignment explanation
Indices: 49024994--49025268 Score: 334
Period size: 96 Copynumber: 2.9 Consensus size: 94
49024984 ATTTGTCAAT
* * * * *
49024994 TAAATTAATTATAAAATTTTCAAAATTGGATTAGGTTTCGTGTTTATTGTTTTTTAAGAAAAAAT
1 TAAATTAATTAAAAAATTTTAAAAATTAGATTAGGTTTAGTGTTTA-GGTTTTTTAAGAAAAAAT
* * *
49025059 TAATTAAATTAGGGTTTAGGGTTACTTTAG
65 CAAATAAATTAGGGTTTAGGGTTACTTGAG
* * * * * *
49025089 TAATTTGATTAAAAAAATTTTAAAAATCAGATTAGCGTTTAGAGTTAAGGGTTTTTAAGAAAAAA
1 TAAATTAATT-AAAAAATTTTAAAAATTAGATTAG-GTTTAGTGTTTAGGTTTTTTAAGAAAAAA
*
49025154 TCAAATAAATTAGGGTTCAGGGTTACTTGAG
64 TCAAATAAATTAGGGTTTAGGGTTACTTGAG
* *
49025185 TAAATTAATTATAAATTTTTATAAAATTAGATTAGGGTTTAGTGTTTAGGTTTTTTAAGTAAAAA
1 TAAATTAATTAAAAAATTTTA-AAAATTAGATTA-GGTTTAGTGTTTAGGTTTTTTAAG-AAAAA
*
49025250 CTCAAATAAATTAGGGTTT
63 ATCAAATAAATTAGGGTTT
49025269 GAGGTTTAGG
Statistics
Matches: 150, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
95 17 0.11
96 101 0.67
97 32 0.21
ACGTcount: A:0.39, C:0.04, G:0.16, T:0.41
Consensus pattern (94 bp):
TAAATTAATTAAAAAATTTTAAAAATTAGATTAGGTTTAGTGTTTAGGTTTTTTAAGAAAAAATC
AAATAAATTAGGGTTTAGGGTTACTTGAG
Found at i:49025548 original size:126 final size:126
Alignment explanation
Indices: 49025307--49025719 Score: 648
Period size: 126 Copynumber: 3.3 Consensus size: 126
49025297 TTGTTAATTT
* *
49025307 AAAGAAGCTCCTACGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAATAATTTTGAGTAGAC
1 AAAGAAGCTCCTACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
* *
49025372 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGTAGGATGTTTTCTCAGCAGAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGTAGGATGCTTTGTCAGCAGAAGTACTG
* * * *
49025433 AAAGAAGCTCCTATGTGGACGCGCTTTTGCTACCGTAGCTCCTAAAAAAATAATTTCGAGTAGAT
1 AAAGAAGCTCCTACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
* * *
49025498 GTTTCTGAGCAAATAGTCTCAAAAACGCTTTAAGCAAGATGCTTTGTCAGCAGAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGTAGGATGCTTTGTCAGCAGAAGTACTG
* *
49025559 AAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCTACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
* * * *
49025624 GTTTCTGAGCAATTAGTGTCAAAAATGCTTTAAGTAGGATGCTTTGTCAGTAGAAATACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGTAGGATGCTTTGTCAGCAGAAGTACTG
*
49025685 AAAGAAGCTACC-ACATGGACGCGCTTTTGCTACAG
1 AAAGAAGCT-CCTACGTGGACGCGCTTTTGCTACAG
49025720 CAATGCATGT
Statistics
Matches: 260, Mismatches: 26, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
126 258 0.99
127 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (126 bp):
AAAGAAGCTCCTACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGTAGGATGCTTTGTCAGCAGAAGTACTG
Found at i:49029025 original size:21 final size:21
Alignment explanation
Indices: 49029001--49029046 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
49028991 TTGTCCAGCT
* * *
49029001 TCCGGCGGGGATTGTGGTTGC
1 TCCGGCAGGGATTCTGGTTCC
49029022 TCCGGCAGGGATTCTGGTTCC
1 TCCGGCAGGGATTCTGGTTCC
49029043 TCCG
1 TCCG
49029047 ATAGGGGATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.07, C:0.26, G:0.39, T:0.28
Consensus pattern (21 bp):
TCCGGCAGGGATTCTGGTTCC
Found at i:49029052 original size:21 final size:22
Alignment explanation
Indices: 49029007--49029061 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
49028997 AGCTTCCGGC
* * *
49029007 GGGGATTGTGGTTGCTCCGGCA
1 GGGGATTCTGGTTCCTCCGACA
*
49029029 -GGGATTCTGGTTCCTCCGATA
1 GGGGATTCTGGTTCCTCCGACA
49029050 GGGGA-TCTGGTT
1 GGGGATTCTGGTT
49029062 GTCGATGTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 24 0.86
22 4 0.14
ACGTcount: A:0.11, C:0.18, G:0.40, T:0.31
Consensus pattern (22 bp):
GGGGATTCTGGTTCCTCCGACA
Found at i:49029329 original size:18 final size:18
Alignment explanation
Indices: 49029303--49029345 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
49029293 GACTAGAAAA
* * *
49029303 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
49029321 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
49029339 AGGATAC
1 AGGATAC
49029346 GCACCTGGCA
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:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:49033677 original size:41 final size:41
Alignment explanation
Indices: 49033393--49033658 Score: 428
Period size: 41 Copynumber: 6.5 Consensus size: 41
49033383 TGAGCTTTCG
* * *
49033393 GGGCTTTAGCGGCGTTTTTAAGAAAGCGCCACTAATGCTTA
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
*
49033434 GGGATTTAGCGGCGTTTTTGAGAAAGCG-CGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
49033474 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
49033515 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
* *
49033556 GGGCTTTAGCGGCGTTTTTGAGAAAGCACCACTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
*
49033597 GGGTTTTAGCGGCGTTTTTG-GTAAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAG-AAAGCGCCGCTAATGCTCA
* *
49033638 GGGCTTTAACGGCGATTTTGA
1 GGGCTTTAGCGGCGTTTTTGA
49033659 AGTAGCACCG
Statistics
Matches: 209, Mismatches: 13, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
40 38 0.18
41 171 0.82
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
Found at i:49033727 original size:81 final size:81
Alignment explanation
Indices: 49033393--49033727 Score: 345
Period size: 82 Copynumber: 4.1 Consensus size: 81
49033383 TGAGCTTTCG
* * * * * * * *
49033393 GGGCTTTAGCGGCGTTTTTAAGAAAGCGCCACTAATGCTTAGGGATTTAGCGGCGTTTTTGAGAA
1 GGGCTTTAACGGCGATTTTGAGAAAGCACCACGAATGCTCA-GGTTTTAGCGGCGTTTTTGAAAA
49033458 AGCG-CGCTAATGCTCA
65 AGCGCCGCTAATGCTCA
* * * * * * *
49033474 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAA
1 GGGCTTTAACGGCGATTTTGAGAAAGCACCACGAATGCTCA-GGTTTTAGCGGCGTTTTTGAAAA
49033539 AGCGCCGCTAATGCTCA
65 AGCGCCGCTAATGCTCA
* * * **
49033556 GGGCTTTAGCGGCGTTTTTGAGAAAGCACCACTAATGCTCAGGGTTTTAGCGGCGTTTTTGGTAA
1 GGGCTTTAACGGCGATTTTGAGAAAGCACCACGAATGCTCA-GGTTTTAGCGGCGTTTTTGAAAA
49033621 AGCGCCGCTAATGCTCA
65 AGCGCCGCTAATGCTCA
* * * *
49033638 GGGCTTTAACGGCGATTTTGA-AGTAGCACCGCGAATGCTCTA-TTTTTAGTGGCGTTTTCT-AA
1 GGGCTTTAACGGCGATTTTGAGA-AAGCACCACGAATGCTC-AGGTTTTAGCGGCGTTTT-TGAA
* *
49033700 AAAGCGCCGCTAATTCTTA
63 AAAGCGCCGCTAATGCTCA
*
49033719 GGGATTTAA
1 GGGCTTTAA
49033728 AATAATTTAA
Statistics
Matches: 229, Mismatches: 21, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
81 105 0.46
82 123 0.54
83 1 0.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (81 bp):
GGGCTTTAACGGCGATTTTGAGAAAGCACCACGAATGCTCAGGTTTTAGCGGCGTTTTTGAAAAA
GCGCCGCTAATGCTCA
Done.