Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 133 of 295
Found at i:45512484 original size:68 final size:68
Alignment explanation
Indices: 45512375--45512514 Score: 262
Period size: 68 Copynumber: 2.1 Consensus size: 68
45512365 ACATTTGTCA
45512375 TAATTAAGCAGAGTTGGTTGCACGCCTAGAGATAGGGTGACAAGATTTTACTAGATTAGGGTGAA
1 TAATTAAGCAGAGTTGGTTGCACGCCTAGAGATAGGGTGACAAGATTTTACTAGATTAGGGTGAA
45512440 ACC
66 ACC
* *
45512443 TAATTAAGTAGAGTTGGTTGCATGCCTAGAGATAGGGTGACAAGATTTTACTAGATTAGGGTGAA
1 TAATTAAGCAGAGTTGGTTGCACGCCTAGAGATAGGGTGACAAGATTTTACTAGATTAGGGTGAA
45512508 ACC
66 ACC
45512511 TAAT
1 TAAT
45512515 AAGGGGATCC
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 70 1.00
ACGTcount: A:0.33, C:0.11, G:0.27, T:0.29
Consensus pattern (68 bp):
TAATTAAGCAGAGTTGGTTGCACGCCTAGAGATAGGGTGACAAGATTTTACTAGATTAGGGTGAA
ACC
Found at i:45536046 original size:47 final size:47
Alignment explanation
Indices: 45535977--45536072 Score: 174
Period size: 47 Copynumber: 2.0 Consensus size: 47
45535967 GTGCAACTAC
*
45535977 AATTGGAGCATTAATTAATTTATCCTTAAGAGTATTAAATGCTTCTA
1 AATTGGAGCATTAATTAATTTATCCTTAAGAGTATCAAATGCTTCTA
*
45536024 AATTGGATCATTAATTAATTTATCCTTAAGAGTATCAAATGCTTCTA
1 AATTGGAGCATTAATTAATTTATCCTTAAGAGTATCAAATGCTTCTA
45536071 AA
1 AA
45536073 CATTCCTGAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (47 bp):
AATTGGAGCATTAATTAATTTATCCTTAAGAGTATCAAATGCTTCTA
Found at i:45541514 original size:55 final size:56
Alignment explanation
Indices: 45541409--45541520 Score: 183
Period size: 56 Copynumber: 2.0 Consensus size: 56
45541399 AAGAGTAAAT
* *
45541409 AAATGAAAACAGTTTTATTGTAACGCTATCATGTGACATCACCAACTTCAGCCATA
1 AAATGAAAACAGTTTTATCGTAACGCTATCATGTGACATCACCAAATTCAGCCATA
45541465 AAATGAAAAC-GATTTTATCGTAACGCTATCATGTGAC-TCACCAAATTCAGCCATA
1 AAATGAAAACAG-TTTTATCGTAACGCTATCATGTGACATCACCAAATTCAGCCATA
45541520 A
1 A
45541521 CATCAAGGCC
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
55 19 0.36
56 34 0.64
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.28
Consensus pattern (56 bp):
AAATGAAAACAGTTTTATCGTAACGCTATCATGTGACATCACCAAATTCAGCCATA
Found at i:45544850 original size:17 final size:17
Alignment explanation
Indices: 45544828--45544862 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
45544818 TATGTGTTAG
45544828 ATTCGAAAGTGGATGAT
1 ATTCGAAAGTGGATGAT
45544845 ATTCGAAAGTGGATGAT
1 ATTCGAAAGTGGATGAT
45544862 A
1 A
45544863 GGAAAGTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.06, G:0.29, T:0.29
Consensus pattern (17 bp):
ATTCGAAAGTGGATGAT
Found at i:45557311 original size:46 final size:46
Alignment explanation
Indices: 45557256--45557431 Score: 155
Period size: 46 Copynumber: 3.8 Consensus size: 46
45557246 TATTTAGGCA
45557256 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
45557302 TTCGAACTCGTTGAGTTGAGCCCGAGTT--C-GA-GAGAT-CTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
* * * * *
45557347 CATCCGAGCTCATTGAGTTGAGTTCGAGTTCACTTGTGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
45557395 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
45557432 GCGGGTTACA
Statistics
Matches: 101, Mismatches: 18, Indels: 22
0.72 0.13 0.16
Matches are distributed among these distances:
42 4 0.04
43 5 0.05
44 1 0.01
45 1 0.01
46 58 0.57
47 23 0.23
48 1 0.01
49 1 0.01
50 3 0.03
51 4 0.04
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:45557409 original size:93 final size:93
Alignment explanation
Indices: 45557250--45557424 Score: 269
Period size: 93 Copynumber: 1.9 Consensus size: 93
45557240 CTAGGATATT
* * **
45557250 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTG
1 TAGGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTG
45557315 AGTTGAGCCCGAGTTCGAGAGATCTAAC
66 AGTTGAGCCCGAGTTCGAGAGATCTAAC
* * * *
45557343 TAGGCATCCGAGCTCATTGAGTTGAGTTCGAGTTCACTTGTGGATGCGAACGCCCGAGCTCGTTG
1 TAGGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTG
*
45557408 AGTTGAGTCCGAGTTCG
66 AGTTGAGCCCGAGTTCG
45557425 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
TAGGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTG
AGTTGAGCCCGAGTTCGAGAGATCTAAC
Found at i:45558830 original size:22 final size:22
Alignment explanation
Indices: 45558788--45558831 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
45558778 TGAATAAACC
* *
45558788 AAATAAACTTTATTTCTGCAAA
1 AAATAAACTTTATGTCCGCAAA
45558810 AAATAAAC-TTACTGTCCGCAAA
1 AAATAAACTTTA-TGTCCGCAAA
45558832 TTGAAAATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.45, C:0.18, G:0.07, T:0.30
Consensus pattern (22 bp):
AAATAAACTTTATGTCCGCAAA
Found at i:45572409 original size:46 final size:45
Alignment explanation
Indices: 45572263--45572429 Score: 149
Period size: 46 Copynumber: 3.6 Consensus size: 45
45572253 ATTGTGAGCT
* * * * ** *
45572263 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATCATAAAAG-CC
1 AGTGTAAGACATGTCTAGGACATGCATCGG-CA-TTGAGACGAGTGC
*
45572309 AGTGTAAGACCATGTCTAGGACATGGCATTGGCATTGAGACGAGTGC
1 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGCATTGAGACGAGTGC
* *
45572356 TAGTGTAAGACATGTCTAGGACATGTATCGGCCTTGAGACGTAAGT-C
1 -AGTGTAAGACATGTCTAGGACATGCATCGGCATTGAGACG--AGTGC
* *
45572403 AGTGTAAGACATGTTTGGGACATGCAT
1 AGTGTAAGACATGTCTAGGACATGCAT
45572430 GGGCTACGAG
Statistics
Matches: 101, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
46 52 0.51
47 31 0.31
48 18 0.18
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCATTGAGACGAGTGC
Found at i:45573526 original size:437 final size:437
Alignment explanation
Indices: 45572709--45573578 Score: 1632
Period size: 437 Copynumber: 2.0 Consensus size: 437
45572699 TGTTGATGAA
* *
45572709 TGGTAAAGTTATGTTGTATATTTATTTATGTGCAACTTACTAAGCTTTATGCTTACTCCCTCTCA
1 TGGTAAAGTTATGTTGTATATTTATTTATATACAACTTACTAAGCTTTATGCTTACTCCCTCTCA
*
45572774 TTTTTCATTTCCTTAGAGTGCCGCCTATCTAACTCAATGACCAAAGAAAGTCAGAGATATCGATC
66 TTTTTCATTTCCTTAGAGTGCCGCCTATCTAACTCAATGACCAAAGAAAGTCAGAGATATCAATC
*
45572839 ACACTATCAATCGAAGTATTCGATATAGTTTGATTTATATTTTTTAATATGACATGTATAGGGAT
131 ACACTATCAATCGAAGTATTCGATATAGTTTGATTTATATTTTTGAATATGACATGTATAGGGAT
45572904 TTAGACTTGTGTTTTGTGTTATTATTAATTTGGTCAATGTGTTGGCTTGGGATAAATCCCTCATT
196 TTAGACTTGTGTTTTGTGTTATTATTAATTTGGTCAATGTGTTGGCTTGGGATAAATCCCTCATT
*
45572969 TTGTATTAAGCCTCACATGATGGCTAATATTCATTTTGATTTATATGCAAAGATGTTATTTTCAT
261 TTGTATTAAACCTCACATGATGGCTAATATTCATTTTGATTTATATGCAAAGATGTTATTTTCAT
*
45573034 AGATGAAGAAAATGCACAAATGAAATGTTGTTAGTTGTGGCTGATTTGATTGCATGAGATAGTCT
326 AGATGAAGAAAATGCACAAATGAAATGTTGTCAGTTGTGGCTGATTTGATTGCATGAGATAGTCT
45573099 TATCATGATTGTGGTTGCTATTATGTAGGTTATGTTAAGTAAGGGTG
391 TATCATGATTGTGGTTGCTATTATGTAGGTTATGTTAAGTAAGGGTG
45573146 TGGTAAAGTTATGTTGTATATTTATTTATATACAACTTACTAAGCTTTATGCTTACTCCCTCTCA
1 TGGTAAAGTTATGTTGTATATTTATTTATATACAACTTACTAAGCTTTATGCTTACTCCCTCTCA
45573211 TTTTTCATTTCCTTAGAGTGCCGCCTATCTAACTCAATGACCAAAGAAAGTCAGAGATATCAATC
66 TTTTTCATTTCCTTAGAGTGCCGCCTATCTAACTCAATGACCAAAGAAAGTCAGAGATATCAATC
*
45573276 ACACTATCAATCGAAGTATTCGATATAGTTTGATTTATATTTTTGAATATGACATTTATAGGGAT
131 ACACTATCAATCGAAGTATTCGATATAGTTTGATTTATATTTTTGAATATGACATGTATAGGGAT
45573341 TTAGACTTGTGTTTTGTGTTATTATTAATTTGGTCAATGTGTTGGCTTGGGATAAATCCCTCATT
196 TTAGACTTGTGTTTTGTGTTATTATTAATTTGGTCAATGTGTTGGCTTGGGATAAATCCCTCATT
*
45573406 TTGTATTAAACCTCACATGATGGCTAATATTCATTTTGATTTATATGCAAATATGTTATTTTCAT
261 TTGTATTAAACCTCACATGATGGCTAATATTCATTTTGATTTATATGCAAAGATGTTATTTTCAT
* * *
45573471 AGATGAATAAAATGCACAAATGGAATGTTGTCAGTTGTGGCTGATTTGGTTGCATGAGATAGTCT
326 AGATGAAGAAAATGCACAAATGAAATGTTGTCAGTTGTGGCTGATTTGATTGCATGAGATAGTCT
*
45573536 TATCATGATTGTGGTTGCTATTATGTAGGTTGTGTTAAGTAAG
391 TATCATGATTGTGGTTGCTATTATGTAGGTTATGTTAAGTAAG
45573579 TGTGGCAAAT
Statistics
Matches: 421, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
437 421 1.00
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.41
Consensus pattern (437 bp):
TGGTAAAGTTATGTTGTATATTTATTTATATACAACTTACTAAGCTTTATGCTTACTCCCTCTCA
TTTTTCATTTCCTTAGAGTGCCGCCTATCTAACTCAATGACCAAAGAAAGTCAGAGATATCAATC
ACACTATCAATCGAAGTATTCGATATAGTTTGATTTATATTTTTGAATATGACATGTATAGGGAT
TTAGACTTGTGTTTTGTGTTATTATTAATTTGGTCAATGTGTTGGCTTGGGATAAATCCCTCATT
TTGTATTAAACCTCACATGATGGCTAATATTCATTTTGATTTATATGCAAAGATGTTATTTTCAT
AGATGAAGAAAATGCACAAATGAAATGTTGTCAGTTGTGGCTGATTTGATTGCATGAGATAGTCT
TATCATGATTGTGGTTGCTATTATGTAGGTTATGTTAAGTAAGGGTG
Found at i:45578783 original size:46 final size:47
Alignment explanation
Indices: 45578711--45578834 Score: 144
Period size: 47 Copynumber: 2.7 Consensus size: 47
45578701 CACATCTTCA
* * * * *
45578711 CATAATGATGCCAAAGCCCAGCTATGGTCTTACAC-GAATCACATAT
1 CATACTGATGCCATATCCCAGATATGGTCTTACACAGAAGCACATAT
* * *
45578757 C-TCACTGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATAT
1 CAT-ACTGATGCCATATCCCAGATATGGTCTTACACAGAAGCACATAT
*
45578804 CATACCGATGCCATATCCCAGATATGGTCTT
1 CATACTGATGCCATATCCCAGATATGGTCTT
45578835 GTACGGAAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
45 1 0.02
46 28 0.42
47 36 0.55
48 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (47 bp):
CATACTGATGCCATATCCCAGATATGGTCTTACACAGAAGCACATAT
Found at i:45578902 original size:31 final size:31
Alignment explanation
Indices: 45578857--45578974 Score: 184
Period size: 31 Copynumber: 3.8 Consensus size: 31
45578847 CTTGTCACTT
* *
45578857 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
*
45578888 GTAGCCGGTA-CTACCACTTTTCAGTGATCAG
1 GTAGCCGG-AGCTACCACTTTTCACTGATCAG
45578919 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
*
45578950 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGGAGCTACCACTTTTCACT
45578975 TGTCATTTGT
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
30 1 0.01
31 78 0.98
32 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (31 bp):
GTAGCCGGAGCTACCACTTTTCACTGATCAG
Found at i:45579062 original size:50 final size:51
Alignment explanation
Indices: 45578950--45579078 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
45578940 CACTGATCAG
* * *
45578950 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATTAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
* *
45579001 GTAGCCAAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
45579051 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
45579079 TGCCATGGTC
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
50 43 0.61
51 27 0.39
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:45583705 original size:46 final size:45
Alignment explanation
Indices: 45583557--45583727 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 45
45583547 TACTGTGAGC
* *
45583557 TAGTGTAAGACATGTCTGGGACATGCATCGGCCAT-A-TCATGAGAGC
1 TAGTGTAAGACATGTCTGGGACATGCATCGGCC-TGAGACAT-A-AGT
*
45583603 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAC--AAGT
1 TAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTGAGACATAAGT
* *
45583649 GCTAGTGTAAGACATGTCTGGGACATGCATTGTCCTCGAGACATAAGT
1 --TAGTGTAAGACATGTCTGGGACATGCATCGGCCT-GAGACATAAGT
45583697 TAGTGTAAGACATGTCTGGGACATGCATCGG
1 TAGTGTAAGACATGTCTGGGACATGCATCGG
45583728 TTACGAGATG
Statistics
Matches: 107, Mismatches: 8, Indels: 20
0.79 0.06 0.15
Matches are distributed among these distances:
45 1 0.01
46 52 0.49
47 29 0.27
48 23 0.21
49 1 0.01
50 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.25
Consensus pattern (45 bp):
TAGTGTAAGACATGTCTGGGACATGCATCGGCCTGAGACATAAGT
Found at i:45592111 original size:68 final size:68
Alignment explanation
Indices: 45592034--45592181 Score: 160
Period size: 64 Copynumber: 2.2 Consensus size: 68
45592024 CATTATGTGT
* * * *
45592034 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTACAAGACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
45592097 TGTAG
64 TGTAG
* ** * *
45592102 ACAAGAGAGC--CACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCAT
1 ACAAGAGAGCTACAAGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCAT
45592165 GTAG
65 GTAG
45592169 ACAAGAGAGCTAC
1 ACAAGAGAGCTAC
45592182 GAGATAAATT
Statistics
Matches: 66, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
64 24 0.36
65 3 0.05
66 6 0.09
67 22 0.33
68 10 0.15
69 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (68 bp):
ACAAGAGAGCTACAAGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATG
TAG
Found at i:45592139 original size:64 final size:64
Alignment explanation
Indices: 45592058--45592243 Score: 189
Period size: 67 Copynumber: 2.9 Consensus size: 64
45592048 AGACATTATG
* * *
45592058 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCCACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCCACGAGATAA
* * * * * *
45592122 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCCACGAGAT
45592187 AA
63 AA
* * * *
45592189 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAAAGAGCCA
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCCA
45592244 AACTATATGA
Statistics
Matches: 98, Mismatches: 19, Indels: 11
0.77 0.15 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.26
66 21 0.21
67 32 0.33
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCCACGAGATAA
Found at i:45596517 original size:68 final size:66
Alignment explanation
Indices: 45596445--45596616 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
45596435 CATCATGTGT
* * * *
45596445 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
45596508 TGTAG
62 TGTAG
** * *
45596513 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
45596578 AG
65 AG
* * * *
45596580 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
45596617 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:45596550 original size:64 final size:64
Alignment explanation
Indices: 45596469--45596652 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
45596459 AGACATTATG
* * *
45596469 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
45596533 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
45596598 AA
63 AA
* * *
45596600 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
45596653 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:45598482 original size:14 final size:14
Alignment explanation
Indices: 45598463--45598492 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
45598453 TGCACAGGGT
45598463 TCTTGTGAGTTGGG
1 TCTTGTGAGTTGGG
45598477 TCTTGTGAGTTGGG
1 TCTTGTGAGTTGGG
45598491 TC
1 TC
45598493 CATAGCCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.07, C:0.10, G:0.40, T:0.43
Consensus pattern (14 bp):
TCTTGTGAGTTGGG
Found at i:45600939 original size:16 final size:16
Alignment explanation
Indices: 45600918--45600948 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
45600908 AATAGAATCT
45600918 GAGAAAGTCTAAACTC
1 GAGAAAGTCTAAACTC
45600934 GAGAAAGTCTAAACT
1 GAGAAAGTCTAAACT
45600949 TGAAAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.16, G:0.19, T:0.19
Consensus pattern (16 bp):
GAGAAAGTCTAAACTC
Found at i:45601785 original size:5 final size:5
Alignment explanation
Indices: 45601775--45601814 Score: 64
Period size: 5 Copynumber: 8.0 Consensus size: 5
45601765 AATTTGTGCG
45601775 TTATT TTATT TT-TCT TTATT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTAT-T TTATT TTATT TTATT TTATT TTATT
45601815 CACAAATTGG
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 1 0.03
5 31 0.94
6 1 0.03
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:45606229 original size:5 final size:5
Alignment explanation
Indices: 45606219--45606255 Score: 58
Period size: 5 Copynumber: 7.4 Consensus size: 5
45606209 AATTTGTGTG
45606219 TTATT TTATT TT-TCT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTAT-T TTATT TTATT TTATT TTATT TT
45606256 TTTCACACAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 1 0.03
5 28 0.93
6 1 0.03
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:45622641 original size:54 final size:54
Alignment explanation
Indices: 45622580--45622730 Score: 191
Period size: 54 Copynumber: 2.8 Consensus size: 54
45622570 TAAATTGTAC
**
45622580 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGCGGCACTAAGTGTGCGAAATGAATATGT
* * * *
45622633 ATGCACTAA-TGTTGCGAATTGACCATGCGGCACTAAGTGTGCG-ATTGACTATGT
1 A-GCACTAAGTG-TGCGATTTGACTATGCGGCACTAAGTGTGCGAAATGAATATGT
*
45622687 AGCACTAAGTGTGCGAGTTTGATTATGCGGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGA-TTTGACTATGCGGCACTAAGTGTGCGA
45622731 GTTGTTATAT
Statistics
Matches: 83, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
53 23 0.28
54 60 0.72
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTTGACTATGCGGCACTAAGTGTGCGAAATGAATATGT
Found at i:45622691 original size:26 final size:27
Alignment explanation
Indices: 45622580--45622755 Score: 162
Period size: 27 Copynumber: 6.6 Consensus size: 27
45622570 TAAATTGTAC
*
45622580 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
* ** *
45622607 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAGTTGACTATGT
* * *
45622633 ATGCACTAA-TGTTGCGAATTGACCATGC
1 A-GCACTAAGTG-TGCGAGTTGACTATGT
*
45622661 GGCACTAAGTGTGCGA-TTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
* *
45622687 AGCACTAAGTGTGCGAGTTTGATTATGC
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* * *
45622715 GGCACTAAGTGTGCGAGTTG-TTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
45622741 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
45622756 GACTTATATA
Statistics
Matches: 124, Mismatches: 19, Indels: 13
0.79 0.12 0.08
Matches are distributed among these distances:
26 42 0.34
27 56 0.45
28 26 0.21
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:45622744 original size:54 final size:51
Alignment explanation
Indices: 45622580--45622755 Score: 183
Period size: 54 Copynumber: 3.3 Consensus size: 51
45622570 TAAATTGTAC
** * *
45622580 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATAT
1 AGCACTAAGTGTGCGATTTGACTATGCGGCACTAAGTGTGCG-ATTGTATAT
* * *
45622632 GATGCACTAA-TGTTGCGAATTGACCATGCGGCACTAAGTGTGCGATTGACTATGT
1 -A-GCACTAAGTG-TGCGATTTGACTATGCGGCACTAAGTGTGCGATTG--TATAT
*
45622687 AGCACTAAGTGTGCGAGTTTGATTATGCGGCACTAAGTGTGCGAGTTGTTATAT
1 AGCACTAAGTGTGCGA-TTTGACTATGCGGCACTAAGTGTGCGA-TTG-TATAT
*
45622741 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
45622756 GACTTATATA
Statistics
Matches: 103, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
53 18 0.17
54 79 0.77
55 6 0.06
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (51 bp):
AGCACTAAGTGTGCGATTTGACTATGCGGCACTAAGTGTGCGATTGTATAT
Found at i:45626434 original size:55 final size:55
Alignment explanation
Indices: 45626347--45626486 Score: 158
Period size: 55 Copynumber: 2.5 Consensus size: 55
45626337 TATTAAGGGT
* * *
45626347 CACGCCTGTGTTAATTTGACAGGTCTGCCCACGGTTGC-TTGGCACGGGCATGTCG
1 CACGCCCGTGTTAATTTGACAGGTCTGCCCACGGTTGCAAT-GCACGAGCATGTCG
* * * *
45626402 CACGCCCGTGTTAATTTGATAGGT-TCGGCCACGGTTTCAATGCATGAGCATGTCG
1 CACGCCCGTGTTAATTTGACAGGTCT-GCCCACGGTTGCAATGCACGAGCATGTCG
* * *
45626457 CACGCCCGTGTTATTTTGGCAGGTTTGCCC
1 CACGCCCGTGTTAATTTGACAGGTCTGCCC
45626487 CCGGCCATGT
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
54 1 0.01
55 68 0.96
56 2 0.03
ACGTcount: A:0.16, C:0.26, G:0.29, T:0.29
Consensus pattern (55 bp):
CACGCCCGTGTTAATTTGACAGGTCTGCCCACGGTTGCAATGCACGAGCATGTCG
Found at i:45631241 original size:132 final size:130
Alignment explanation
Indices: 45630999--45631346 Score: 489
Period size: 132 Copynumber: 2.7 Consensus size: 130
45630989 ACAAATTTCG
* * * *
45630999 ACTATCCTTATCCCCCTAAGCAGTAGTGGAACAGGCTGAAAATTGCATATCTTATCTTCCTAAGT
1 ACTAACCTTATCTCCCTAAGCAGTAGTGGAACAGGCT-AAAATTGCAGATCTTATCTCCCTAAGT
* *
45631064 AGTAGTGGAGCAGATTGAAGACGGTGAATCTTATCTCCATGTAGCGGCAATGGAGCAGATTTAAG
65 AGTAGTGGAGCAGATCGAAGACAGTGAATCTTATCTCCATGTAGCGGCAATGGAGCAGATTT-AG
45631129 CC
129 CC
* * * *
45631131 ACTACCCTTATCTCCCTAAGCAGTAGTGGAACGGGCTAAAAATTACAGATTTTATCTCCCTAAGT
1 ACTAACCTTATCTCCCTAAGCAGTAGTGGAACAGGCT-AAAATTGCAGATCTTATCTCCCTAAGT
* * *
45631196 AGTAGTGGAGAAGATCGAAGACAGTGAATCTTATCTCCATGTAGCGGTAATGGAGTAGATTTAGC
65 AGTAGTGGAGCAGATCGAAGACAGTGAATCTTATCTCCATGTAGCGGCAATGGAGCAGATTTAGC
45631261 C
130 C
* * * * * * *
45631262 ACTAACCTTATCTCCTTAAGTAGTAGTGGAATAGACTGAAGTTGCAGAACTTATCTCCCTAAGTA
1 ACTAACCTTATCTCCCTAAGCAGTAGTGGAACAGGCTAAAATTGCAGATCTTATCTCCCTAAGTA
45631327 GTAGTGGAGCAGATCGAAGA
66 GTAGTGGAGCAGATCGAAGA
45631347 TGGTGAGGCT
Statistics
Matches: 191, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
130 42 0.22
131 35 0.18
132 114 0.60
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.27
Consensus pattern (130 bp):
ACTAACCTTATCTCCCTAAGCAGTAGTGGAACAGGCTAAAATTGCAGATCTTATCTCCCTAAGTA
GTAGTGGAGCAGATCGAAGACAGTGAATCTTATCTCCATGTAGCGGCAATGGAGCAGATTTAGCC
Found at i:45631420 original size:44 final size:44
Alignment explanation
Indices: 45631314--45631423 Score: 107
Period size: 44 Copynumber: 2.5 Consensus size: 44
45631304 TGCAGAACTT
* * * *
45631314 ATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATGGTGAGGCTT
1 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGATGAGGATC
* * * * *
45631358 ATCTTCCTGAGCAATAGTGGAGCAGGTCGAAGATTAT-A-GATC
1 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGATGAGGATC
45631400 ACGTCTCCCTAAGCAGTAGTGGAG
1 A--TCTCCCTAAGCAGTAGTGGAG
45631424 TAGACTGAAA
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
42 3 0.06
43 1 0.02
44 48 0.92
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (44 bp):
ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGATGAGGATC
Found at i:45632024 original size:15 final size:15
Alignment explanation
Indices: 45631995--45632023 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
45631985 TTTTTTTCAC
45631995 GAATACAATAGAAAA
1 GAATACAATAGAAAA
45632010 GAATACAA-AGAAAA
1 GAATACAATAGAAAA
45632024 AAGTCAATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.69, C:0.07, G:0.14, T:0.10
Consensus pattern (15 bp):
GAATACAATAGAAAA
Found at i:45644954 original size:38 final size:38
Alignment explanation
Indices: 45644911--45645221 Score: 406
Period size: 38 Copynumber: 8.1 Consensus size: 38
45644901 AAAGGCCTGA
* * * *
45644911 ATATAATACCAGTACTAGGCCTGCGGGATTTAACCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
* * *
45644949 ATATAATACTAGCACGAAGCCTACGGGATTTAACCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
* *
45644987 ATATATTACTAGCACGAAGCCTGCGAGATTTAACCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
45645025 ATATATTAACAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
* *
45645063 ATATATTACCAGCACGAAGCCTGCGGGATTTAACTCAG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
* * *
45645101 ATATAATACCAGCACAAAGCCTGCGGGTCTTTAAGCCCGG
1 ATATATTACCAGCACGAAGCCTGCGGG-ATTTAA-CCCGG
* *
45645141 ATATATTACCAGCACGAAGCTTGTGGGATTTAACCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
* **
45645179 ATATATTACCAGCAAGAAGCCTGCAGGTCTTTAAGCCCGG
1 ATATATTACCAGCACGAAGCCTGC-GGGATTTAA-CCCGG
45645219 ATA
1 ATA
45645222 CACATCAAAT
Statistics
Matches: 240, Mismatches: 29, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
38 189 0.79
39 17 0.07
40 34 0.14
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (38 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:45645478 original size:135 final size:135
Alignment explanation
Indices: 45645236--45645515 Score: 551
Period size: 135 Copynumber: 2.1 Consensus size: 135
45645226 TCAAATATCA
45645236 TGCATATTTAATCATATATTAACACATCTCAAATACTTTTCTTTCATCTCATTTTCACACTTAGC
1 TGCATATTTAATCATATATTAACACATCTCAAATACTTTTCTTTCATCTCATTTTCACACTTAGC
45645301 ATTTGATAGCTTATGCATAACATTTCACCCACATTCATTTCAAACTTATCAATCGATTATAAAAG
66 ATTTGATAGCTTATGCATAACATTTCACCCACATTCATTTCAAACTTATCAATCGATTATAAAAG
45645366 CACAT
131 CACAT
45645371 TGCATATTTAATCATATATTAACACATCTCAAATACTTTTCTTTCATCTCATTTTCACACTTAGC
1 TGCATATTTAATCATATATTAACACATCTCAAATACTTTTCTTTCATCTCATTTTCACACTTAGC
*
45645436 ATTTGATAGCTTATGCATAACATTTCACTCACATTCATTTCAAACTTATCAATCGATTATAAAAG
66 ATTTGATAGCTTATGCATAACATTTCACCCACATTCATTTCAAACTTATCAATCGATTATAAAAG
45645501 CACAT
131 CACAT
45645506 TGCATATTTA
1 TGCATATTTA
45645516 CCAACATGTT
Statistics
Matches: 144, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
135 144 1.00
ACGTcount: A:0.34, C:0.21, G:0.05, T:0.39
Consensus pattern (135 bp):
TGCATATTTAATCATATATTAACACATCTCAAATACTTTTCTTTCATCTCATTTTCACACTTAGC
ATTTGATAGCTTATGCATAACATTTCACCCACATTCATTTCAAACTTATCAATCGATTATAAAAG
CACAT
Found at i:45645703 original size:43 final size:44
Alignment explanation
Indices: 45645637--45645720 Score: 125
Period size: 43 Copynumber: 1.9 Consensus size: 44
45645627 TCATTTCATT
* *
45645637 TCACCGGCATTATAGCTTGCTAGGCTCAAAGCCCG-ATATCGTC
1 TCACCGGCATTATAGCCTGCTAGGCCCAAAGCCCGAATATCGTC
* *
45645680 TCACTGGCATTATAGCCTGCTAGGCCCGAAGCCCGAATATC
1 TCACCGGCATTATAGCCTGCTAGGCCCAAAGCCCGAATATC
45645721 ATATTTCGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
43 31 0.86
44 5 0.14
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGCTAGGCCCAAAGCCCGAATATCGTC
Found at i:45648470 original size:13 final size:14
Alignment explanation
Indices: 45648449--45648477 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
45648439 TAAAGGCACG
45648449 AAATATTCACATAC
1 AAATATTCACATAC
45648463 AAAT-TTCACATAC
1 AAATATTCACATAC
45648476 AA
1 AA
45648478 TAAGTACAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (14 bp):
AAATATTCACATAC
Found at i:45649415 original size:46 final size:45
Alignment explanation
Indices: 45649287--45649547 Score: 190
Period size: 46 Copynumber: 5.6 Consensus size: 45
45649277 TTGCCAATGC
* **
45649287 CATGTCCCAGACATAGTCTTACACTGGCTATCATCATCAAGACCGATG
1 CATGTCCCAGACATAGTCTTACACTAGCTA-CATC-TTGAG-CCGATG
* * *
45649335 CCATGTCCCAGACATGGTCTTACATTGGC-ACATCTTGTAGCCGATG
1 -CATGTCCCAGACATAGTCTTACACTAGCTACATCTTG-AGCCGATG
* *
45649381 CATGTCCCAAACAT-GTCTTACACTAGCTTACATCTCGAGGCCGATG
1 CATGTCCCAGACATAGTCTTACACTAGC-TACATCTTGA-GCCGATG
* * * *
45649427 CATGTCCCATACAT-GTCTTACACTAGC-ACTCATCCTAATGTCGATG
1 CATGTCCCAGACATAGTCTTACACTAGCTA--CATCTTGA-GCCGATG
* * * * ** * *
45649473 CCATGTCCCGGACATGGTCTTACACTGGCTCTCATAATGCGACTGATG
1 -CATGTCCCAGACATAGTCTTACACTAGCT-ACATCTTGAG-CCGATG
45649521 CATGTCCCAGACAT-GTCTTACACTAGC
1 CATGTCCCAGACATAGTCTTACACTAGC
45649548 CCACAATAAC
Statistics
Matches: 175, Mismatches: 26, Indels: 25
0.77 0.12 0.11
Matches are distributed among these distances:
44 12 0.07
45 14 0.08
46 70 0.40
47 32 0.18
48 21 0.12
49 26 0.15
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (45 bp):
CATGTCCCAGACATAGTCTTACACTAGCTACATCTTGAGCCGATG
Found at i:45649521 original size:94 final size:88
Alignment explanation
Indices: 45649283--45649547 Score: 264
Period size: 94 Copynumber: 2.8 Consensus size: 88
45649273 TAAATTGCCA
45649283 ATGCCATGTCCCAGACATAGTCTTACACTGGCTATCATCATCAAGACCGATGCCATGTCCCAGAC
1 ATGCCATGTCCCAGACAT-GTCTTACACTGGCT-TCAT-ATC--GACCGATG-CATGTCCCAGAC
* * **
45649348 ATGGTCTTACATTGGCACATCTTGTAGCCG
60 AT-GTCTTACACTAGCACATCTAATAGCCG
* * * *
45649378 ATG-CATGTCCCAAACATGTCTTACACTAGCTTACATCTCGAGGCCGATGCATGTCCCATACATG
1 ATGCCATGTCCCAGACATGTCTTACACTGGCTT-CATATCGA--CCGATGCATGTCCCAGACATG
*
45649442 TCTTACACTAGCACTCATCCTAAT-GTCG
63 TCTTACACTAGCA--CAT-CTAATAGCCG
* *
45649470 ATGCCATGTCCCGGACATGGTCTTACACTGGCTCTCATAATGCGACTGATGCATGTCCCAGACAT
1 ATGCCATGTCCCAGACAT-GTCTTACACTGGCT-TCAT-AT-CGACCGATGCATGTCCCAGACAT
45649535 GTCTTACACTAGC
62 GTCTTACACTAGC
45649548 CCACAATAAC
Statistics
Matches: 144, Mismatches: 15, Indels: 23
0.79 0.08 0.13
Matches are distributed among these distances:
90 14 0.10
91 13 0.09
92 18 0.12
93 31 0.22
94 60 0.42
95 5 0.03
96 3 0.02
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (88 bp):
ATGCCATGTCCCAGACATGTCTTACACTGGCTTCATATCGACCGATGCATGTCCCAGACATGTCT
TACACTAGCACATCTAATAGCCG
Found at i:45649539 original size:140 final size:140
Alignment explanation
Indices: 45649287--45649547 Score: 336
Period size: 140 Copynumber: 1.9 Consensus size: 140
45649277 TTGCCAATGC
*
45649287 CATGTCCCAGACATAGTCTTACACTGGCTATCATCATCAAGACCGATGCCATGTCCCAGACATGG
1 CATGTCCCAGACATAGTCTTACACTAGCTATCATCATCAAGACCGATGCCATGTCCCAGACATGG
* *
45649352 TCTTACATTGGCACATCTTGTAGCCGATGCATGTCCCAAACATGTCTTACACTAGCTTACATCTC
66 TCTTACACTGGCACATCTTGGAGCCGATGCATGTCCCAAACATGTCTTACACTAGCTTACATCTC
45649417 GAGGCCGATG
131 GAGGCCGATG
* * * *
45649427 CATGTCCCATACAT-GTCTTACACTAGC-ACTCATCCT-AATG-TCGATGCCATGTCCCGGACAT
1 CATGTCCCAGACATAGTCTTACACTAGCTA-TCATCATCAA-GACCGATGCCATGTCCCAGACAT
* * *
45649488 GGTCTTACACTGGCTC-TCATAATGCGA-CTGATGCATGTCCCAGACATGTCTTACACTAGC
64 GGTCTTACACTGGCACATC-T--TG-GAGCCGATGCATGTCCCAAACATGTCTTACACTAGC
45649548 CCACAATAAC
Statistics
Matches: 105, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
137 2 0.02
138 37 0.35
139 19 0.18
140 46 0.44
141 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (140 bp):
CATGTCCCAGACATAGTCTTACACTAGCTATCATCATCAAGACCGATGCCATGTCCCAGACATGG
TCTTACACTGGCACATCTTGGAGCCGATGCATGTCCCAAACATGTCTTACACTAGCTTACATCTC
GAGGCCGATG
Found at i:45656983 original size:46 final size:46
Alignment explanation
Indices: 45656846--45657106 Score: 207
Period size: 46 Copynumber: 5.6 Consensus size: 46
45656836 TTGCCAATGC
* * *
45656846 CATGTCCCAGACATAGTCTTACACTGGCTATCATCATCAAGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCTA-CATC-TCGAGGCCGATG
* *
45656894 CCATGTCCCAGACATGGTCTTACA-TTGAC-ACATCTTGTA-GCCGATG
1 -CATGTCCCAGACATGGTCTTACACTAG-CTACATCTCG-AGGCCGATG
* *
45656940 CATGTCCCAAACAT-GTCTTACACTAGCTTACGTCTCGAGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTAGC-TACATCTCGAGGCCGATG
* * * * *
45656986 CATGTTCCATACAT-GTCTTACACTAGC-AC-TCGTCCTAATGTCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCTACATC-T-C-GAGGCCGATG
* * * *
45657032 CCATGTCCCGGACATGGTCTTACACTAGCTCTCATAAT-GTGGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTAGCT-ACAT-CTCGAGGCCGATG
45657080 CATGTCCCAGACAT-GTCTTACACTAGC
1 CATGTCCCAGACATGGTCTTACACTAGC
45657107 CCACAATAAC
Statistics
Matches: 174, Mismatches: 23, Indels: 33
0.76 0.10 0.14
Matches are distributed among these distances:
43 2 0.01
44 12 0.07
45 17 0.10
46 66 0.38
47 29 0.17
48 22 0.13
49 23 0.13
50 1 0.01
51 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGGTCTTACACTAGCTACATCTCGAGGCCGATG
Found at i:45663867 original size:21 final size:22
Alignment explanation
Indices: 45663843--45663904 Score: 56
Period size: 21 Copynumber: 2.9 Consensus size: 22
45663833 TCCCTGGTTT
45663843 ACACGGGCGTGTGCCTCAGTCAC
1 ACACGGGCGTGTGCCTCAGT-AC
* **
45663866 ACAC--CCGTGTGCCTCTCTAC
1 ACACGGGCGTGTGCCTCAGTAC
* *
45663886 ACACGGGCATATGCCTCAG
1 ACACGGGCGTGTGCCTCAG
45663905 CCATACGATC
Statistics
Matches: 29, Mismatches: 8, Indels: 5
0.69 0.19 0.12
Matches are distributed among these distances:
20 6 0.21
21 11 0.38
22 8 0.28
23 4 0.14
ACGTcount: A:0.19, C:0.37, G:0.24, T:0.19
Consensus pattern (22 bp):
ACACGGGCGTGTGCCTCAGTAC
Found at i:45670737 original size:42 final size:42
Alignment explanation
Indices: 45670631--45670737 Score: 126
Period size: 43 Copynumber: 2.5 Consensus size: 42
45670621 TCATATCTCA
* ** *
45670631 AATATGGTCTTACATGGGATCTCATATTGATGCCAATAGCCC
1 AATATGGTCTTACACGAAATCTCATATCGATGCCAATAGCCC
* *
45670673 AACTATGGTCTTACACGAAATCTCATATCGATGCC-ATATCCT
1 AA-TATGGTCTTACACGAAATCTCATATCGATGCCAATAGCCC
*
45670715 AGATATGGTCTTACACGTAATCT
1 A-ATATGGTCTTACACGAAATCT
45670738 GAACTGACGC
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
42 27 0.48
43 29 0.52
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (42 bp):
AATATGGTCTTACACGAAATCTCATATCGATGCCAATAGCCC
Found at i:45672679 original size:104 final size:104
Alignment explanation
Indices: 45672499--45672722 Score: 387
Period size: 104 Copynumber: 2.2 Consensus size: 104
45672489 TGTATATAAA
** * *
45672499 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
45672564 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
45672603 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
45672667 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
45672707 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
45672723 GATATCTATT
Statistics
Matches: 114, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
104 113 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.31, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:45672773 original size:71 final size:72
Alignment explanation
Indices: 45672641--45672792 Score: 234
Period size: 71 Copynumber: 2.1 Consensus size: 72
45672631 TCATTGGTGG
* *
45672641 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
45672706 GAGGGGT
66 GAGGGGT
* *** *
45672713 TGCTAAGTGCGATATCTATTGTATATTTGAAATG-AAAAGGGGGTTTCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
45672777 GAGGGGT
66 GAGGGGT
45672784 TGCTAAGTG
1 TGCTAAGTG
45672793 ATGATTCCCC
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
71 44 0.60
72 29 0.40
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:45680116 original size:25 final size:25
Alignment explanation
Indices: 45680083--45680131 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
45680073 GAATGTGAAG
*
45680083 GGGTTGCTATGTGCTGATTCCCCGA
1 GGGTTGCTAAGTGCTGATTCCCCGA
45680108 GGGTTGCTAAGTGCTGATTCCCCG
1 GGGTTGCTAAGTGCTGATTCCCCG
45680132 GTTCATTGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.12, C:0.24, G:0.33, T:0.31
Consensus pattern (25 bp):
GGGTTGCTAAGTGCTGATTCCCCGA
Found at i:45692772 original size:31 final size:29
Alignment explanation
Indices: 45692737--45692797 Score: 70
Period size: 31 Copynumber: 2.0 Consensus size: 29
45692727 ATTTCCGAGC
45692737 TTGGG-GACAAAAGTGGTAATTATGCAAAAGT
1 TTGGGAGACAAAA-TGGTAATT-T-CAAAAGT
* *
45692768 TTGGGAGGCAAAATTGTAATTTCAAAAGT
1 TTGGGAGACAAAATGGTAATTTCAAAAGT
45692797 T
1 T
45692798 GGGTGGTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 8 0.30
30 1 0.04
31 12 0.44
32 6 0.22
ACGTcount: A:0.38, C:0.07, G:0.26, T:0.30
Consensus pattern (29 bp):
TTGGGAGACAAAATGGTAATTTCAAAAGT
Found at i:45693320 original size:97 final size:99
Alignment explanation
Indices: 45693163--45693343 Score: 298
Period size: 97 Copynumber: 1.8 Consensus size: 99
45693153 ATTTTGGGTG
*
45693163 GGTGCTATGTGCGTGATCCACCATATCTTGAAATGTGAAAGGGGTTGCTATGTGCTGATTCCCCG
1 GGTGCTAAGTGCGTGATCCACCATATCTTGAAATGTGAAAGGGGTTGCTATGTGCTGATTCCCCG
45693228 A-GGG-T-CTAAGTGCGATCCCCGGTTCATTGGT
66 AGGGGTTGCTAAGTGCGATCCCCGGTTCATTGGT
*
45693259 GGTGCTAAGTGCGAT-ATCCACCATATCTTTGAAATGTGAAGGGGGTTGCTATGTGCTGATTCCC
1 GGTGCTAAGTGCG-TGATCCACCATATC-TTGAAATGTGAAAGGGGTTGCTATGTGCTGATTCCC
45693323 CGAGGGGTTGCTAAGTGCGAT
64 CGAGGGGTTGCTAAGTGCGAT
45693344 ATCCATTGTA
Statistics
Matches: 78, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
96 24 0.31
97 39 0.50
98 3 0.04
99 1 0.01
100 11 0.14
ACGTcount: A:0.20, C:0.19, G:0.31, T:0.30
Consensus pattern (99 bp):
GGTGCTAAGTGCGTGATCCACCATATCTTGAAATGTGAAAGGGGTTGCTATGTGCTGATTCCCCG
AGGGGTTGCTAAGTGCGATCCCCGGTTCATTGGT
Found at i:45693405 original size:70 final size:69
Alignment explanation
Indices: 45693259--45693409 Score: 221
Period size: 70 Copynumber: 2.2 Consensus size: 69
45693249 GTTCATTGGT
* **
45693259 GGTGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAGGGGGTTGCTATGTGCTGATTCCCC
1 GGTGCTAAGTGCGATATCCACCATATATTTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCC
45693324 GAGG
66 GAGG
*** *
45693328 GGTTGCTAAGTGCGATATCCATTGTATATTTGAAATGAAAAAGGGGGTTTCTATGTGCTGATTCC
1 GG-TGCTAAGTGCGATATCCACCATATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCC
45693393 CCGAGG
64 CCGAGG
45693399 GGTGCTAAGTG
1 GGTGCTAAGTG
45693410 ATGATTCCCC
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
69 2 0.03
70 39 0.53
71 32 0.44
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.30
Consensus pattern (69 bp):
GGTGCTAAGTGCGATATCCACCATATATTTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCC
GAGG
Found at i:45698039 original size:40 final size:40
Alignment explanation
Indices: 45697955--45698138 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
45697945 TTGAATGCTG
* * * *
45697955 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
45697994 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
45698035 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
45698075 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
45698115 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
45698139 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:45698092 original size:80 final size:81
Alignment explanation
Indices: 45697955--45698135 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
45697945 TTGAATGCTG
* * *
45697955 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
45698019 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
45698035 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
45698096 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
45698115 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
45698136 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:45698159 original size:39 final size:38
Alignment explanation
Indices: 45697956--45698177 Score: 160
Period size: 40 Copynumber: 5.6 Consensus size: 38
45697946 TGAATGCTGT
* * * * *
45697956 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTA-AA
** * * *
45697996 CCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAATT
1 CCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * *
45698036 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAA-A
*
45698076 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACT-AAA
***
45698115 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTA-AA
* *
45698155 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGTTAAGTCCCGAAGGCATT
45698178 TGAACGAGGA
Statistics
Matches: 150, Mismatches: 22, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
39 34 0.23
40 109 0.73
41 7 0.05
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:45698193 original size:40 final size:39
Alignment explanation
Indices: 45698076--45698198 Score: 97
Period size: 40 Copynumber: 3.1 Consensus size: 39
45698066 GATACTAATT
* ** ** *
45698076 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGT-TTTAAAA
1 CCGGGCTAAGTCCCGAAGGCATT-GAACGAGTGACTATAA
* * *
45698115 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTGAACGAGTGACTATAA
* *
45698155 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCA-TTGAACGAGTGA-CTATAA
45698195 CCGG
1 CCGG
45698199 TTAAATTCCG
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
39 25 0.36
40 44 0.64
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTGAACGAGTGACTATAA
Found at i:45705302 original size:39 final size:39
Alignment explanation
Indices: 45705154--45705336 Score: 167
Period size: 40 Copynumber: 4.6 Consensus size: 39
45705144 TTGAATGCTG
* * *
45705154 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGT-ATTAAT
** * *
45705193 ATCCGGACTAAGAT-CCGAAGGTATTTGCGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAG-TATTAAT
* *
45705234 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG-TATTAAT
* * *
45705274 TCCGGGTTAAGT-CCGAAGGCATTCGTGCGAGTTTTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTATT-AAT
45705313 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
45705337 GAATGAGTTA
Statistics
Matches: 119, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
38 2 0.02
39 32 0.27
40 75 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTATTAAT
Found at i:45705319 original size:79 final size:81
Alignment explanation
Indices: 45705154--45705333 Score: 219
Period size: 79 Copynumber: 2.3 Consensus size: 81
45705144 TTGAATGCTG
* * *
45705154 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
45705218 TGCGCGAGTTATTAAT
66 CGCGCGAGTTATTAAA
**
45705234 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGATCCGAAGGCA
*
45705295 TTCGTGCGAGTT-TTAAAA
64 TTCGCGCGAGTTATT-AAA
45705313 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
45705334 ATTGAATGAG
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
78 2 0.02
79 43 0.49
80 34 0.39
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGCGCGAGTTATTAAA
Found at i:45705345 original size:39 final size:39
Alignment explanation
Indices: 45705222--45705382 Score: 139
Period size: 39 Copynumber: 4.1 Consensus size: 39
45705212 GGTATTTGCG
* * * **
45705222 CGAGTTATTAATTCCGGGTTAAGTCCCGAAGGCCTTTGTG
1 CGAGTTATAAAATCCGGGTTAAGTCCCGAAGG-CATTGAA
* * **
45705262 CGAGATACT-AATTCCGGGTTAAGT-CCGAAGGCATTCGTG
1 CGAGTTA-TAAAATCCGGGTTAAGTCCCGAAGGCATT-GAA
*
45705301 CGAGTTTTAAAATCCGGGTTAAGTCCCGAAGGCATTGAA
1 CGAGTTATAAAATCCGGGTTAAGTCCCGAAGGCATTGAA
* * * *
45705340 TGAGTTATATAA-CCGGGCTATGTCCCGAAGGCACTTGAA
1 CGAGTTATAAAATCCGGGTTAAGTCCCGAAGGCA-TTGAA
45705379 CGAG
1 CGAG
45705383 GAGCTAAATC
Statistics
Matches: 103, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
38 23 0.22
39 47 0.46
40 32 0.31
41 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (39 bp):
CGAGTTATAAAATCCGGGTTAAGTCCCGAAGGCATTGAA
Found at i:45708262 original size:57 final size:57
Alignment explanation
Indices: 45708174--45708287 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
45708164 GGGTTTTCTA
45708174 GAAATTACCAGTAAACTGGTACTTAACAGTGGAGTCTTGACTAGCTATTGGAAACCT
1 GAAATTACCAGTAAACTGGTACTTAACAGTGGAGTCTTGACTAGCTATTGGAAACCT
*
45708231 GAAATTACCAGTAAGCTGGTACTTAACAGTGGAGTCTTGACTAGCTATTGGAAACCT
1 GAAATTACCAGTAAACTGGTACTTAACAGTGGAGTCTTGACTAGCTATTGGAAACCT
45708288 TTCTCGCCTT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (57 bp):
GAAATTACCAGTAAACTGGTACTTAACAGTGGAGTCTTGACTAGCTATTGGAAACCT
Found at i:45710542 original size:32 final size:32
Alignment explanation
Indices: 45710456--45710545 Score: 117
Period size: 32 Copynumber: 2.8 Consensus size: 32
45710446 CATATGGTAT
* * *
45710456 ACACAAAGTATACCTAACCTTTCCAAGTGAAC
1 ACACAAAGTGTACATAACCTTTTCAAGTGAAC
* *
45710488 ACGCAAAGTGTACATAACCTTTTCAAGTGTAC
1 ACACAAAGTGTACATAACCTTTTCAAGTGAAC
**
45710520 ACATGAAGTGTACATAACCTTTTCAA
1 ACACAAAGTGTACATAACCTTTTCAA
45710546 ATTATACCAT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.27
Consensus pattern (32 bp):
ACACAAAGTGTACATAACCTTTTCAAGTGAAC
Found at i:45713410 original size:14 final size:14
Alignment explanation
Indices: 45713372--45713415 Score: 63
Period size: 13 Copynumber: 3.1 Consensus size: 14
45713362 TTCTTTTATT
45713372 ATTATTATCTTTTAA
1 ATTATTAT-TTTTAA
45713387 ATTA-TATTTTTAA
1 ATTATTATTTTTAA
45713400 ATTATTATTTTATAA
1 ATTATTATTTT-TAA
45713415 A
1 A
45713416 ATAAATTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 10 0.37
14 9 0.33
15 8 0.30
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTATTATTTTTAA
Found at i:45718464 original size:16 final size:17
Alignment explanation
Indices: 45718438--45718470 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
45718428 AGACTTTTGG
45718438 GAAATTTTTGAAAAAGA
1 GAAATTTTTGAAAAAGA
45718455 GAAA-TTTTGAAAAAGA
1 GAAATTTTTGAAAAAGA
45718471 ATAAAATCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.55, C:0.00, G:0.18, T:0.27
Consensus pattern (17 bp):
GAAATTTTTGAAAAAGA
Found at i:45726510 original size:52 final size:52
Alignment explanation
Indices: 45726400--45726577 Score: 240
Period size: 52 Copynumber: 3.5 Consensus size: 52
45726390 ATTAGTGACT
* * *
45726400 CAAGTGTGGTACTATGTGAAGGCCAATTTGAGAA-AAA-ATGGC-TTGGTCA
1 CAAGGGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATGGCTTTGGTCA
*
45726449 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATGGCTTTGGTCA
1 CAAGGGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATGGCTTTGGTCA
* * *
45726501 CAAGGGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGGTAGCTTT-GACTA
1 CAAGGGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATGGCTTTGGTC-A
*
45726552 CAAGGGTGGTACTATGTGCAGGCCAC
1 CAAGGGTGGTACTATGTGAAGGCCAC
45726578 CGGGTATCCG
Statistics
Matches: 118, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
49 32 0.27
50 5 0.04
51 40 0.34
52 41 0.35
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (52 bp):
CAAGGGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATGGCTTTGGTCA
Found at i:45726567 original size:51 final size:51
Alignment explanation
Indices: 45726395--45726577 Score: 221
Period size: 51 Copynumber: 3.6 Consensus size: 51
45726385 ATGTCATTAG
* * * *
45726395 TGACT-CAAGTGTGGTACTATGTGAAGGCCAATTTGAGAA-AAAATGGCTT
1 TGACTACAAGGGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATGGCTT
* * *
45726444 GGTC-ACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATGGCTT
1 TGACTACAAGGGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATGGCTT
* * *
45726495 TG-GTCACAAGGGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGGTAGCTT
1 TGACT-ACAAGGGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATGGCTT
*
45726546 TGACTACAAGGGTGGTACTATGTGCAGGCCAC
1 TGACTACAAGGGTGGTACTATGTGAAGGCCAC
45726578 CGGGTATCCG
Statistics
Matches: 116, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
49 34 0.29
51 46 0.40
52 36 0.31
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.27
Consensus pattern (51 bp):
TGACTACAAGGGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATGGCTT
Found at i:45728874 original size:47 final size:49
Alignment explanation
Indices: 45728797--45728930 Score: 154
Period size: 46 Copynumber: 2.8 Consensus size: 49
45728787 TGTAACCCGC
* *
45728797 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTACAT
* * *
45728847 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACAT
* *
45728890 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC
45728931 CAAATATCCC
Statistics
Matches: 70, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
43 6 0.09
44 2 0.03
45 2 0.03
46 28 0.40
47 28 0.40
48 2 0.03
49 2 0.03
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACAT
Found at i:45728918 original size:46 final size:48
Alignment explanation
Indices: 45728797--45728923 Score: 156
Period size: 47 Copynumber: 2.7 Consensus size: 48
45728787 TGTAACCCGC
*
45728797 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--CCTAGTTACAT
* * * *
45728847 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-C-ATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTTACAT
45728890 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
45728924 AGATGCCCAA
Statistics
Matches: 67, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
43 6 0.09
44 2 0.03
45 2 0.03
46 26 0.39
47 28 0.42
48 2 0.03
49 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (48 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTTACAT
Found at i:45738936 original size:22 final size:22
Alignment explanation
Indices: 45738893--45738963 Score: 92
Period size: 22 Copynumber: 3.2 Consensus size: 22
45738883 ATAAAGAAAT
* *
45738893 AGAAAAAGAAATAGAGATAGAA
1 AGAAAAAGAAATGGAGAAAGAA
45738915 ACGAAAACAGAAA-GG-GAAAGAA
1 A-GAAAA-AGAAATGGAGAAAGAA
45738937 AGAAAAAGAAATGGAGAAAGAA
1 AGAAAAAGAAATGGAGAAAGAA
45738959 AGAAA
1 AGAAA
45738964 TGAGAAATTA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
20 5 0.12
21 7 0.16
22 20 0.47
23 6 0.14
24 5 0.12
ACGTcount: A:0.68, C:0.03, G:0.25, T:0.04
Consensus pattern (22 bp):
AGAAAAAGAAATGGAGAAAGAA
Found at i:45738960 original size:16 final size:15
Alignment explanation
Indices: 45738941--45738970 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
45738931 AAAGAAAGAA
45738941 AAAGAAATGGAGAAAG
1 AAAGAAAT-GAGAAAG
45738957 AAAGAAATGAGAAA
1 AAAGAAATGAGAAA
45738971 TTAGGGTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.07
Consensus pattern (15 bp):
AAAGAAATGAGAAAG
Found at i:45747338 original size:18 final size:18
Alignment explanation
Indices: 45747315--45747358 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
45747305 CAATATAATG
45747315 GGCCCACATG-CCCGTGTA
1 GGCCCACATGCCCCG-GTA
*
45747333 GGCCCATATGCCCCGGTA
1 GGCCCACATGCCCCGGTA
*
45747351 GACCCACA
1 GGCCCACA
45747359 CACATGTGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.20, C:0.41, G:0.25, T:0.14
Consensus pattern (18 bp):
GGCCCACATGCCCCGGTA
Found at i:45762575 original size:6 final size:6
Alignment explanation
Indices: 45762564--45762631 Score: 59
Period size: 6 Copynumber: 10.8 Consensus size: 6
45762554 TTAACTAACA
**
45762564 TATTTT TATTTT T-TTATT TAATTTT ACTGATTTT TA-TTT GGTTTT TATTTT
1 TATTTT TATTTT TATT-TT T-ATTTT --T-ATTTT TATTTT TATTTT TATTTT
45762615 TATTTT TATTTT TATTT
1 TATTTT TATTTT TATTT
45762632 CTTTCATGGG
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
5 5 0.10
6 35 0.69
7 3 0.06
8 2 0.04
9 6 0.12
ACGTcount: A:0.18, C:0.01, G:0.04, T:0.76
Consensus pattern (6 bp):
TATTTT
Found at i:45766536 original size:19 final size:19
Alignment explanation
Indices: 45766512--45766554 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
45766502 TTGAACCCTT
45766512 ATTAACA-TAAATAAATAAA
1 ATTAACATTAAA-AAATAAA
*
45766531 ATTAACATTAAAAATTAAA
1 ATTAACATTAAAAAATAAA
45766550 ATTAA
1 ATTAA
45766555 AATGAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (19 bp):
ATTAACATTAAAAAATAAA
Found at i:45766550 original size:6 final size:6
Alignment explanation
Indices: 45766527--45766570 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
45766517 CATAAATAAA
* * *
45766527 TAAAAT TAACAT TAAAAAT TAAAAT TAAAAT GAAAAT AAAAAT T
1 TAAAAT TAAAAT T-AAAAT TAAAAT TAAAAT TAAAAT TAAAAT T
45766571 TCGAAGTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
6 27 0.84
7 5 0.16
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (6 bp):
TAAAAT
Found at i:45767172 original size:13 final size:13
Alignment explanation
Indices: 45767154--45767179 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
45767144 TAGTGAGCTT
45767154 TATTTTCCAATTC
1 TATTTTCCAATTC
45767167 TATTTTCCAATTC
1 TATTTTCCAATTC
45767180 AAGTGGCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.54
Consensus pattern (13 bp):
TATTTTCCAATTC
Found at i:45777888 original size:29 final size:29
Alignment explanation
Indices: 45777851--45777916 Score: 123
Period size: 29 Copynumber: 2.3 Consensus size: 29
45777841 CATGGCAAGG
45777851 ACACGGCCATGTCCTTGCCCATGTGACTC
1 ACACGGCCATGTCCTTGCCCATGTGACTC
*
45777880 ACACTGCCATGTCCTTGCCCATGTGACTC
1 ACACGGCCATGTCCTTGCCCATGTGACTC
45777909 ACACGGCC
1 ACACGGCC
45777917 TGGCCATATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.18, C:0.39, G:0.20, T:0.23
Consensus pattern (29 bp):
ACACGGCCATGTCCTTGCCCATGTGACTC
Found at i:45778641 original size:20 final size:20
Alignment explanation
Indices: 45778618--45778666 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
45778608 AAAAAGGAGG
* *
45778618 AAAAAGAAAGAAA-ATGGGAA
1 AAAAAGAAAAAAAGAAGGG-A
*
45778638 AAAAACAAAAAAAGAAGGGA
1 AAAAAGAAAAAAAGAAGGGA
45778658 AAAAAGAAA
1 AAAAAGAAA
45778667 TTGACGTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (20 bp):
AAAAAGAAAAAAAGAAGGGA
Found at i:45780096 original size:14 final size:16
Alignment explanation
Indices: 45780066--45780100 Score: 56
Period size: 14 Copynumber: 2.3 Consensus size: 16
45780056 TATATAATAA
45780066 AAATAAATTTGATTTT
1 AAATAAATTTGATTTT
45780082 AAATAAA-TT-ATTTT
1 AAATAAATTTGATTTT
45780096 AAATA
1 AAATA
45780101 TTTTACTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.53
15 2 0.11
16 7 0.37
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (16 bp):
AAATAAATTTGATTTT
Found at i:45784185 original size:44 final size:43
Alignment explanation
Indices: 45784115--45784507 Score: 214
Period size: 44 Copynumber: 8.8 Consensus size: 43
45784105 TTGTGGCAAG
* * * *
45784115 TCTTATCTCCCTAAAGTTGTAATGGAGCATATTAAAGCCACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACA-A
* * *** *
45784159 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCGAAAATAGAAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT--TAAAGCCACAA
* * * * * *
45784204 TCTTATCTCTCTGAAGTTGTAGTAGAGCAAATTAAAGCTATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAA
* * **
45784247 GCCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTTACAA
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAA
* * ** * * *
45784291 GTCTTATCTCCCTGAAGTTTCAATGGAATAGATTGAAGCTATAATTATAGA
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC------CACA-A
** * * * * *
45784342 TCTTATCTTTCTGAAGTTGCAGTAGAGCGGA-TCATGGCA-AA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAA
* * * *
45784383 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGCCACTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAC-AA
* * * * *
45784427 TCTTATCTTCCTGAAGTTGCAGTGGAACAAACTAAAGACAGCTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-C-AA
* * **
45784472 TCCTATCTCCCTGAAGTTGTAGTGGAGTGGATTAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
45784508 ACGAAAAACC
Statistics
Matches: 259, Mismatches: 76, Indels: 27
0.72 0.21 0.07
Matches are distributed among these distances:
41 26 0.10
42 6 0.02
43 7 0.03
44 126 0.49
45 59 0.23
46 5 0.02
49 3 0.01
50 26 0.10
51 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (43 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAA
Found at i:45784411 original size:135 final size:138
Alignment explanation
Indices: 45784116--45784453 Score: 381
Period size: 135 Copynumber: 2.5 Consensus size: 138
45784106 TGTGGCAAGT
* * * **
45784116 CTTATCTCCCTAAAGTTGTAATGGAGCATATTAAAGCCAC-AGATCTTATCTCCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGCCACAAG-TCTTATCTCCCTGAAGTTGCA
* * * * * *
45784180 GTGGAGTAGATCGAA--AATAGA--A-A-ATCTTATCTCTCTGAAGTTGTAGTAGAGCAAATTAA
65 ATGGAATAGATTGAAGCTATA-ATTATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATCAA
45784239 AGCTATAAGC
129 AGCTATAAGC
** *
45784249 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTTACAAGTCTTATCTCCCTGAAGTTTCAA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGCCACAAGTCTTATCTCCCTGAAGTTGCAA
* ** **
45784314 TGGAATAGATTGAAGCTATAATTATAGATCTTATCTTTCTGAAGTTGCAGTAGAGCGGATCATGG
66 TGGAATAGATTGAAGCTATAATTATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATCAAAG
45784379 C-A-AA-C
131 CTATAAGC
* * * *
45784384 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGCCACTAGTCTTATCTTCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGCCACAAGTCTTATCTCCCTGAAGTTGCAA
45784449 TGGAA
66 TGGAA
45784454 CAAACTAAAG
Statistics
Matches: 172, Mismatches: 26, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
133 65 0.38
134 3 0.02
135 67 0.39
136 3 0.02
137 2 0.01
138 32 0.19
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (138 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGCCACAAGTCTTATCTCCCTGAAGTTGCAA
TGGAATAGATTGAAGCTATAATTATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATCAAAG
CTATAAGC
Found at i:45785973 original size:3 final size:3
Alignment explanation
Indices: 45785965--45786048 Score: 59
Period size: 3 Copynumber: 28.0 Consensus size: 3
45785955 TTTGGCTACT
* *
45785965 TTA TTA TTA -AA TTTA TTA TTA TTAA TGTA TTA TTA TTTA TT- CTA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TT-A T-TA TTA TTA -TTA TTA TTA TTA
* **
45786012 TTA TT- CTA TTA TTA TTA TTA CCA TTA TTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
45786049 AACTAATTAA
Statistics
Matches: 63, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
2 5 0.08
3 48 0.76
4 9 0.14
5 1 0.02
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:45785997 original size:29 final size:30
Alignment explanation
Indices: 45785965--45786031 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 30
45785955 TTTGGCTACT
45785965 TTATTATTAAATT-TATTATTATT-AATGTA
1 TTATTATTAAATTCTATTATTATTCAAT-TA
* *
45785994 TTATTATT-TATTCTATTATTATTCTATTA
1 TTATTATTAAATTCTATTATTATTCAATTA
45786023 TTATTATTA
1 TTATTATTA
45786032 CCATTATTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
28 3 0.09
29 28 0.85
30 2 0.06
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (30 bp):
TTATTATTAAATTCTATTATTATTCAATTA
Found at i:45786015 original size:11 final size:11
Alignment explanation
Indices: 45785995--45786027 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
45785985 ATTAATGTAT
45785995 TATTATTTATTC
1 TATTA-TTATTC
45786007 TATTATTATTC
1 TATTATTATTC
45786018 TATTATTATT
1 TATTATTATT
45786028 ATTACCATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 16 0.76
12 5 0.24
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (11 bp):
TATTATTATTC
Found at i:45786047 original size:26 final size:27
Alignment explanation
Indices: 45785966--45786048 Score: 79
Period size: 26 Copynumber: 3.2 Consensus size: 27
45785956 TTGGCTACTT
*
45785966 TATTATTAAATTTATT--ATTATTA-ATG
1 TATTATT--ATTTATTCCATTATTATATC
*
45785992 TATTATTATTTATTCTATTATTAT-TC
1 TATTATTATTTATTCCATTATTATATC
45786018 TATTATTA-TTATTACCATTATTATAT-
1 TATTATTATTTATT-CCATTATTATATC
45786044 TATTA
1 TATTA
45786049 AACTAATTAA
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
24 7 0.14
25 5 0.10
26 37 0.74
27 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.60
Consensus pattern (27 bp):
TATTATTATTTATTCCATTATTATATC
Found at i:45788477 original size:98 final size:97
Alignment explanation
Indices: 45788361--45788542 Score: 231
Period size: 98 Copynumber: 1.9 Consensus size: 97
45788351 TAATAATTTT
* * *
45788361 TATTTGAATCCTATAAATTAAATAAACTATAAGATTGATATTCGCAAAACGCGTGTGATATTAAG
1 TATTTGAATCCTAAAAATTAAATAAACTATAAGATTGATATTCACAAAA-GCGTGTAATATTAAG
* *
45788426 AATTGCAAAAGAATAAATGAAGATGATGGTTTG
65 AACTACAAAAGAATAAATGAAGATGATGGTTTG
* * * * *
45788459 TATTTGAA-CTCTAAAAATTAAATCAATTATACGATTGATCTTCACAAAATCGTGTAATATTAAG
1 TATTTGAATC-CTAAAAATTAAATAAACTATAAGATTGATATTCACAAAAGCGTGTAATATTAAG
* *
45788523 AACTACATATGAATAAATGA
65 AACTACAAAAGAATAAATGA
45788543 CGACAATAAT
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
97 30 0.42
98 41 0.58
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.32
Consensus pattern (97 bp):
TATTTGAATCCTAAAAATTAAATAAACTATAAGATTGATATTCACAAAAGCGTGTAATATTAAGA
ACTACAAAAGAATAAATGAAGATGATGGTTTG
Found at i:45788560 original size:97 final size:98
Alignment explanation
Indices: 45788352--45788560 Score: 224
Period size: 98 Copynumber: 2.1 Consensus size: 98
45788342 TCATGTTTTT
* * *
45788352 AATAATTTTTATTTGAATCCTATAAATTAAATAAACTATAAGATTGATATTCGCAAAACGCGTGT
1 AATAATTTATATTTGAATCCTAAAAATTAAATAAACTATAAGATTGATATTCACAAAACGCGTGT
* * * *
45788417 GATATTAAGAATTGCAAAAGAATAAATGAAGAT
66 AATATTAAGAACTACAAAAGAATAAATGAAGAC
* ** * * * * * *
45788450 GATGGTTTGTATTTGAA-CTCTAAAAATTAAATCAATTATACGATTGATCTTCACAAAA-TCGTG
1 AATAATTTATATTTGAATC-CTAAAAATTAAATAAACTATAAGATTGATATTCACAAAACGCGTG
* * *
45788513 TAATATTAAGAACTACATATGAATAAATGACGAC
65 TAATATTAAGAACTACAAAAGAATAAATGAAGAC
45788547 AATAATTTATATTT
1 AATAATTTATATTT
45788561 AAAATTTGTA
Statistics
Matches: 88, Mismatches: 22, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
97 42 0.48
98 46 0.52
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (98 bp):
AATAATTTATATTTGAATCCTAAAAATTAAATAAACTATAAGATTGATATTCACAAAACGCGTGT
AATATTAAGAACTACAAAAGAATAAATGAAGAC
Found at i:45790072 original size:5 final size:5
Alignment explanation
Indices: 45790062--45790093 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
45790052 TTGTGTGTTC
45790062 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
45790094 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:45790076 original size:9 final size:9
Alignment explanation
Indices: 45790062--45790092 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
45790052 TTGTGTGTTC
45790062 TTTATTTTA
1 TTTATTTTA
45790071 TTTATTTTA
1 TTTATTTTA
45790080 TTTTATTTTA
1 -TTTATTTTA
45790090 TTT
1 TTT
45790093 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:45804553 original size:20 final size:20
Alignment explanation
Indices: 45804530--45804579 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
45804520 ATTCATTTCT
*
45804530 ATTCGTATAAATTGTAATTC
1 ATTCGTATAAATAGTAATTC
* * *
45804550 ATTCATATAACTAGTAGTTC
1 ATTCGTATAAATAGTAATTC
*
45804570 ATCCGTATAA
1 ATTCGTATAA
45804580 CCAATAATTC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (20 bp):
ATTCGTATAAATAGTAATTC
Found at i:45804627 original size:20 final size:20
Alignment explanation
Indices: 45804543--45804662 Score: 91
Period size: 20 Copynumber: 6.0 Consensus size: 20
45804533 CGTATAAATT
*
45804543 GTAATTCATTCATAT-AACTA
1 GTAATTCATCCATATCAAC-A
* *
45804563 GTAGTTCATCCGTAT-AACCA
1 GTAATTCATCCATATCAA-CA
* ** *
45804583 ATAATTCATTAATAACAACA
1 GTAATTCATCCATATCAACA
* * *
45804603 ATAATTTATCCATATCTACA
1 GTAATTCATCCATATCAACA
* *
45804623 GTAATTCATTCATTTCAACA
1 GTAATTCATCCATATCAACA
*
45804643 GTAATTCATCCATTTCAACA
1 GTAATTCATCCATATCAACA
45804663 TAGCTTATTC
Statistics
Matches: 78, Mismatches: 20, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
20 75 0.96
21 3 0.04
ACGTcount: A:0.39, C:0.20, G:0.05, T:0.36
Consensus pattern (20 bp):
GTAATTCATCCATATCAACA
Found at i:45804834 original size:23 final size:22
Alignment explanation
Indices: 45804799--45804858 Score: 66
Period size: 23 Copynumber: 2.7 Consensus size: 22
45804789 CTTTCGAGCC
* *
45804799 ATGATCGGTAAGCTCCATTGAG
1 ATGAACGGTAAGCTCCATCGAG
* *
45804821 CTGAAACGGTAAGCTCTATCGAG
1 ATG-AACGGTAAGCTCCATCGAG
*
45804844 ATGAACAGTAAGCTC
1 ATGAACGGTAAGCTC
45804859 TTATGAGCTG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
22 13 0.42
23 18 0.58
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (22 bp):
ATGAACGGTAAGCTCCATCGAG
Found at i:45817606 original size:30 final size:30
Alignment explanation
Indices: 45817563--45817619 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
45817553 ACGACCACGA
*
45817563 CACACGGGCGTGTGGCCTACCCGTGTGCCT
1 CACACAGGCGTGTGGCCTACCCGTGTGCCT
* **
45817593 CACACAGGTGTGTGGTTTACCCGTGTG
1 CACACAGGCGTGTGGCCTACCCGTGTG
45817620 GAAGTGCCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.12, C:0.30, G:0.33, T:0.25
Consensus pattern (30 bp):
CACACAGGCGTGTGGCCTACCCGTGTGCCT
Found at i:45821746 original size:3 final size:3
Alignment explanation
Indices: 45821734--45821775 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
45821724 GATAGAATGC
* *
45821734 ATA A-A ATA ATA ATA ATT TTA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
45821776 CAAAACAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:45824928 original size:16 final size:16
Alignment explanation
Indices: 45824907--45824945 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
45824897 ATTTATTAAT
45824907 GAAAAGGGAAATAACC
1 GAAAAGGGAAATAACC
45824923 GAAAAGGGAAATAACC
1 GAAAAGGGAAATAACC
45824939 GAAAAGG
1 GAAAAGG
45824946 AATGGCATCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.56, C:0.10, G:0.28, T:0.05
Consensus pattern (16 bp):
GAAAAGGGAAATAACC
Found at i:45827024 original size:26 final size:26
Alignment explanation
Indices: 45826986--45827035 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
45826976 TTTTGGACAT
45826986 ATTCATAACCATATATGTGATTTTAG
1 ATTCATAACCATATATGTGATTTTAG
* *
45827012 ATTCATAATCATATGTGTGATTTT
1 ATTCATAACCATATATGTGATTTT
45827036 GGACAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (26 bp):
ATTCATAACCATATATGTGATTTTAG
Found at i:45827815 original size:26 final size:26
Alignment explanation
Indices: 45827786--45827835 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
45827776 TTTTGGACAT
* *
45827786 ATTCATAATCAAATATTTGATTTTGG
1 ATTCATAACCAAATATGTGATTTTGG
*
45827812 ATTCATAACCATATATGTGATTTT
1 ATTCATAACCAAATATGTGATTTT
45827836 TGACAACTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.46
Consensus pattern (26 bp):
ATTCATAACCAAATATGTGATTTTGG
Found at i:45827926 original size:24 final size:23
Alignment explanation
Indices: 45827894--45827939 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
45827884 AAATTAAAAG
*
45827894 AAAATGTTAAAAAATAACTATTAA
1 AAAAAGTTAAAAAATAAC-ATTAA
**
45827918 AAAAAGTTACCAAATAACATTA
1 AAAAAGTTAAAAAATAACATTA
45827940 CAAATAATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.61, C:0.09, G:0.04, T:0.26
Consensus pattern (23 bp):
AAAAAGTTAAAAAATAACATTAA
Found at i:45829175 original size:98 final size:96
Alignment explanation
Indices: 45828925--45829175 Score: 240
Period size: 97 Copynumber: 2.6 Consensus size: 96
45828915 ATGATAGATG
* * ** *
45828925 AACACGTGTAATATTGAGAACTACATAATAATAAATGAAGACGCTGTTTTGTATTTGAACTCTAA
1 AACACGAGTAATATTGAGAACTACATAAGAAT-AATGAAGACTATGATTTGTATTTGAACTCTAA
* *
45828990 AAACTAAATCAATTATATGATCGATCTTCACA
65 AAACTAAATAAATTATATGATCCATCTTCACA
* * * * *
45829022 AACACGAGTAATATTGATAACTACATATGAATACATGACGA-TAATAATTTATATTTGAA-TCTC
1 AACACGAGTAATATTGAGAACTACATAAGAATA-ATGAAGACT-ATGATTTGTATTTGAACTCT-
* *
45829085 ATAAATTAAATAAATTATAAT-ATCCATCTTCACCA
63 AAAAACTAAATAAATTAT-ATGATCCATCTTCA-CA
* * * *
45829120 AACATGTA-TAATATTAAGAATTACATAAGAATAATTGAAGACTATGGTTTGTATTT
1 AACACG-AGTAATATTGAGAACTACATAAGAATAA-TGAAGACTATGATTTGTATTT
45829176 TAACACAAAT
Statistics
Matches: 123, Mismatches: 23, Indels: 15
0.76 0.14 0.09
Matches are distributed among these distances:
96 4 0.03
97 72 0.59
98 45 0.37
99 2 0.02
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (96 bp):
AACACGAGTAATATTGAGAACTACATAAGAATAATGAAGACTATGATTTGTATTTGAACTCTAAA
AACTAAATAAATTATATGATCCATCTTCACA
Found at i:45837648 original size:6 final size:6
Alignment explanation
Indices: 45837637--45837664 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
45837627 TTGACCTATT
45837637 AATTAA AATTAA AATTAA AATTAA AATT
1 AATTAA AATTAA AATTAA AATTAA AATT
45837665 TTTAAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
AATTAA
Found at i:45837807 original size:26 final size:26
Alignment explanation
Indices: 45837766--45837815 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
45837756 TTAGGGACAT
* *
45837766 ATTCATAACTAAATATTTGATTTTGG
1 ATTCATAACCAAATATGTGATTTTGG
*
45837792 ATTCATAACCATATATGTGATTTT
1 ATTCATAACCAAATATGTGATTTT
45837816 TGACAACTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.46
Consensus pattern (26 bp):
ATTCATAACCAAATATGTGATTTTGG
Found at i:45839374 original size:14 final size:14
Alignment explanation
Indices: 45839355--45839385 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
45839345 TCTGATGGAT
45839355 GTTATTTAATTTAG
1 GTTATTTAATTTAG
45839369 GTTATTTAATTTAG
1 GTTATTTAATTTAG
45839383 GTT
1 GTT
45839386 TCACGATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.16, T:0.58
Consensus pattern (14 bp):
GTTATTTAATTTAG
Found at i:45841090 original size:40 final size:40
Alignment explanation
Indices: 45841007--45841187 Score: 206
Period size: 40 Copynumber: 4.5 Consensus size: 40
45840997 ACCCAAGTAT
* * ** * *
45841007 CTTCAGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
45841045 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
45841085 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
45841125 CTTC-GGATCTTAGTCCGGATATAGTCACTTAGTACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAATGC
45841166 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
45841188 CATTCGAATA
Statistics
Matches: 120, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
38 10 0.08
39 18 0.15
40 62 0.52
41 27 0.22
42 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:45846549 original size:40 final size:40
Alignment explanation
Indices: 45846479--45846646 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
45846469 CAGGATTTAT
** * * *
45846479 CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGC
* *
45846518 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGC
* *
45846558 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGA-CTTAGC
** *
45846598 TTGGATATAGTCACTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAGTCAC-TAGCACAAATGCCTTCGGGACTTAGC
*
45846639 CCAGATAT
1 CCGGATAT
45846647 CATTCGAATA
Statistics
Matches: 106, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
39 18 0.17
40 60 0.57
41 25 0.24
42 3 0.03
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGC
Found at i:45848609 original size:98 final size:96
Alignment explanation
Indices: 45848464--45848786 Score: 240
Period size: 98 Copynumber: 3.3 Consensus size: 96
45848454 CAATAATTTC
* * * * * *
45848464 TATTTGAATCCTATAAATTAAATAAACTATATGATAGATATTGACAAAACATGTGTAATATTGAG
1 TATTTGAAT-CTAAAAATTAAATAAATTATAAGATAGATCTTGACAAAACACGTGTAATATTAAG
*
45848529 AACTGCATAATTATAAACAAAGACGATGGTTTG
65 AACTGCATAATAATAAA-AAAGACGATGGTTTG
* * * * * *
45848562 TATTTGAACTCTAAAAATTAAATCAATTATACGATGGATCTTCAC-AAACACGAGTAATATTAAT
1 TATTTGAA-TCTAAAAATTAAATAAATTATAAGATAGATCTTGACAAAACACGTGTAATATTAAG
* * * * *
45848626 AACTACAT-ATGAAT--AGATGACGATAGTAATTTA
65 AACTGCATAAT-AATAAAAAAGACGAT-G--GTTTG
* ** ** * *
45848659 TATTTGAATCTCATAAATTAAATAAATTATAATTTCCATCTTGGCAAAACACGTGCAATATTAAG
1 TATTTGAATCT-AAAAATTAAATAAATTATAAGATAGATCTTGACAAAACACGTGTAATATTAAG
* * *
45848724 AACTGCATAAAAATAAATAAAGCCTATGGTTTG
65 AACTGCATAATAATAAA-AAAGACGATGGTTTG
* * * *
45848757 TATTTTAACACTAAAAATCAAATCAATTAT
1 TATTTGAA-TCTAAAAATTAAATAAATTAT
45848787 CCAATCAATC
Statistics
Matches: 171, Mismatches: 42, Indels: 24
0.72 0.18 0.10
Matches are distributed among these distances:
94 7 0.04
95 2 0.01
96 5 0.03
97 59 0.35
98 87 0.51
99 4 0.02
100 2 0.01
101 5 0.03
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.33
Consensus pattern (96 bp):
TATTTGAATCTAAAAATTAAATAAATTATAAGATAGATCTTGACAAAACACGTGTAATATTAAGA
ACTGCATAATAATAAAAAAGACGATGGTTTG
Found at i:45848773 original size:195 final size:195
Alignment explanation
Indices: 45848420--45848886 Score: 528
Period size: 195 Copynumber: 2.4 Consensus size: 195
45848410 TGAACACATC
* * *
45848420 GTAATTTAAAGAACTACGTATGAATGAATGATGACAATAATTTCTATTTGAATCCTATAAATTAA
1 GTAATATAAAGAACTACGTATGAATGAATGACGACAATAATTTATATTTGAATCC-ATAAATTAA
* * * * * **
45848485 ATAAACTAT-ATGATAGATATTGACAAAACATGTGTAATATTGAGAACTGCATAATTATAAACAA
65 ATAAATTATAATGATACATATTGACAAAACACGTGCAATATTAAGAACTGCATAAAAATAAACAA
* * * **
45848549 AGACGATGGTTTGTATTTGAACTCTAAAAATTAAATCAATTATACGATGGATCTTCACAAACACG
130 AGACGATGGTTTGTATTTGAACACTAAAAATCAAATCAATTATACAATCAATCTTCACAAACACG
45848614 A
195 A
* * * * *
45848615 GTAATATTAATAACTACATATGAAT-AGATGACGATAGTAATTTATATTTGAATCTCATAAATTA
1 GTAATATAAAGAACTACGTATGAATGA-ATGACGACAATAATTTATATTTGAATC-CATAAATTA
* * * * *
45848679 AATAAATTATAAT-TTCCATCTTGGCAAAACACGTGCAATATTAAGAACTGCATAAAAATAAATA
64 AATAAATTATAATGATACATATTGACAAAACACGTGCAATATTAAGAACTGCATAAAAATAAACA
* * * * ** *
45848743 AAGCCTATGGTTTGTATTTTAACACTAAAAATCAAATCAATTATCCAATCAATCTTCACAAGTAT
129 AAGACGATGGTTTGTATTTGAACACTAAAAATCAAATCAATTATACAATCAATCTTCACAAACAC
*
45848808 GT
194 GA
* * **
45848810 GTAATGTAAAGAATTGTGTATGAATGAATGAAC-ACAATAATTTATATTTGAATCCCATAAATTA
1 GTAATATAAAGAACTACGTATGAATGAATG-ACGACAATAATTTATATTTGAAT-CCATAAATTA
45848874 AATAAATTATAAT
64 AATAAATTATAAT
45848887 ATTGTTCTTT
Statistics
Matches: 224, Mismatches: 42, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
194 1 0.00
195 216 0.96
196 7 0.03
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (195 bp):
GTAATATAAAGAACTACGTATGAATGAATGACGACAATAATTTATATTTGAATCCATAAATTAAA
TAAATTATAATGATACATATTGACAAAACACGTGCAATATTAAGAACTGCATAAAAATAAACAAA
GACGATGGTTTGTATTTGAACACTAAAAATCAAATCAATTATACAATCAATCTTCACAAACACGA
Found at i:45850298 original size:46 final size:46
Alignment explanation
Indices: 45850245--45850335 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
45850235 TATATATACA
** * *
45850245 CATCTCATACATGTCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
* * *
45850291 CATCTCATACACATTTCGCATTAACCATTCGGCTTTCCCACATAT
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATAT
45850336 ATACACATCC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.26, C:0.32, G:0.08, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
Found at i:45850378 original size:22 final size:22
Alignment explanation
Indices: 45850352--45850427 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
45850342 ATCCACGTTC
45850352 ATCACATTGGCCATTCTGCCTT
1 ATCACATTGGCCATTCTGCCTT
*
45850374 ATCACATGTATG-CATGT-T-CACATTT
1 ATCACAT-T-GGCCAT-TCTGC-C--TT
*
45850399 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCTGCCTT
45850421 ATCACAT
1 ATCACAT
45850428 ATATGCATGT
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
22 17 0.40
23 8 0.19
24 7 0.17
25 10 0.24
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.36
Consensus pattern (22 bp):
ATCACATTGGCCATTCTGCCTT
Found at i:45850380 original size:47 final size:47
Alignment explanation
Indices: 45850315--45850781 Score: 691
Period size: 47 Copynumber: 9.9 Consensus size: 47
45850305 TTCGCATTAA
* ** ** * *
45850315 CCATTCGGCTTTCCCACATATATACACATCCACGTTCATCACATTGG
1 CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGG
* * * *
45850362 CCATTCTGCCTTATCACATGTATGCATGTTCACATTTATCACATTGG
1 CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGG
* * *
45850409 CCATTCGGCCTTATCACATATATGCATGTTCATATTCTTCACATTGG
1 CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGG
* *
45850456 CCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGG
1 CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGG
45850503 CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGG
1 CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGG
45850550 CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGG
1 CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGG
45850597 CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGG
1 CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGG
*
45850644 CCATTCGACCTTATCACATATATACATGTTCACATTCATCACATTGG
1 CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGG
* * * *
45850691 CCATTCGGCCTTATCACACAAATGCATGTTCACATTCATCACATTTG
1 CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGG
* * * ** *
45850738 CCATTCGGCCTTAGCTCATGTATACACATTCACATCCATCACAT
1 CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACAT
45850782 AAAATCCTAA
Statistics
Matches: 384, Mismatches: 36, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 384 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGG
Found at i:45854874 original size:22 final size:21
Alignment explanation
Indices: 45854844--45854909 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
45854834 TACAAATTAA
45854844 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
45854866 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
45854887 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
45854906 ATCT
1 ATCT
45854910 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:45854896 original size:19 final size:19
Alignment explanation
Indices: 45854861--45854958 Score: 164
Period size: 19 Copynumber: 5.2 Consensus size: 19
45854851 AGATTACAAG
45854861 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
45854882 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
45854901 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
45854918 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
45854937 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
45854956 ATC
1 ATC
45854959 CTTAAAGATT
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.23
19 49 0.65
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:45854925 original size:36 final size:37
Alignment explanation
Indices: 45854861--45854958 Score: 153
Period size: 36 Copynumber: 2.6 Consensus size: 37
45854851 AGATTACAAG
45854861 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGATTGCAT
45854901 ATCATATCTAAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
45854937 ATCATATCTAAGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
45854959 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
36 36 0.64
38 11 0.20
39 1 0.02
40 8 0.14
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
Found at i:45855724 original size:206 final size:206
Alignment explanation
Indices: 45855347--45856088 Score: 1110
Period size: 206 Copynumber: 3.6 Consensus size: 206
45855337 AATCTGTTAT
* * *
45855347 CTTCGATCTGTTTTCTGACAATACAGAGATGTCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* * * * * * * *
45855412 GCGAAAACCAAATCAACTATGTCTTCAATTTGCTCCTTGCAAGCATAATGATACCAAA-CTATCT
66 GTGAAAGCCAAATCAGCTATGTCTTCAATTTGTTCCTTGTAAGCACAAGGATGCCAAATC-ATCT
* * * * * * *
45855476 TGGATATACTTCAGTCTAATCATCTAAAGGTTAGATCTGCTATGTGTCTGCCCTCCATCGAATAT
130 TGGATCTGCTTCAGTATAAACATCTGAAGGTCAGATCTGCTATGTGTCTGCTCTCCATCGAATAT
45855541 GGAGACGCCAAA
195 GGAGACGCCAAA
45855553 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* * *
45855618 GTGAAAGCCAAATCAGCTATGTTTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCAATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
* *
45855683 GGATCTGCTTCAGTATAAACATCTGAAGGTCAAACCTGCTATGTGTCTGCTCTCCATCGAATATG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTCAGATCTGCTATGTGTCTGCTCTCCATCGAATATG
45855748 GAGACGCCAAA
196 GAGACGCCAAA
* *
45855759 CTTTGATTTATTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* ** *
45855824 GTGAAAGCCAAATCAGCTATGTTTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCAATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
* * * *
45855889 GGATCTGCTTCAGTATAAATATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTCAGATCTGCTATGTGTCTGCTCTCCATCGAATATG
*
45855954 GAGATGCCAAA
196 GAGACGCCAAA
* * * * *
45855965 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATTATTTTAGATTTCCTTCAGCGTAAAC-C
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
45856029 GTGAAAGCCAAATCAGCTATGTCTTCAATTTGTTCCTTGTAAGCACAAGGATGCCAAATC
66 GTGAAAGCCAAATCAGCTATGTCTTCAATTTGTTCCTTGTAAGCACAAGGATGCCAAATC
45856089 TACTATCTTC
Statistics
Matches: 490, Mismatches: 45, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
205 58 0.12
206 431 0.88
207 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCAATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
GGATCTGCTTCAGTATAAACATCTGAAGGTCAGATCTGCTATGTGTCTGCTCTCCATCGAATATG
GAGACGCCAAA
Found at i:45856106 original size:44 final size:43
Alignment explanation
Indices: 45856050--45856524 Score: 347
Period size: 44 Copynumber: 10.8 Consensus size: 43
45856040 ATCAGCTATG
* * * * *
45856050 TCTTCAATTTGTTCCTTGTAAGCACAAGGATGCCAAATCT-ACTA
1 TCTTCAACTTGTTCCCTATAAACACAGGGATGCC-AATCTGA-TA
*
45856094 TCTTCAACTTGTTCCCTATAAACACAGGGATGCC-ATGCTGAAA
1 TCTTCAACTTGTTCCCTATAAACACAGGGATGCCAAT-CTGATA
* * * * * *
45856137 TCTTCGA-TCTGCTTCGCTATAAGCACAGGAATGTCAGATCTGCTA
1 TCTTCAACT-TG-TTCCCTATAAACACAGGGATGCCA-ATCTGATA
* * *
45856182 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTA
1 TCTTCAACTTGTTCCCTATAAACACAGGGATGCC-AATCTGATA
* *
45856226 TCTTCAACTTGTTCCCTATAAACACAAGGATGCC-ATGCTGAAA
1 TCTTCAACTTGTTCCCTATAAACACAGGGATGCCAAT-CTGATA
* * * * * * * * *
45856269 TCTTCGA-TCTGCTTCACTGTAAGCACAAGAATGTCAGATTTGCTA
1 TCTTCAACT-TG-TTCCCTATAAACACAGGGATGCCA-ATCTGATA
* *
45856314 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGATA
1 TCTTCAACTTGTTCCCTATAAACACAGGGATGCC-AATCTGATA
* *
45856358 TCTTCAACTTGTTCCCTATAAGCACAGGGATGCC-ATGCTGAAA
1 TCTTCAACTTGTTCCCTATAAACACAGGGATGCCAAT-CTGATA
*
45856401 TCTTCAACTTGTTCCCTATAAACACAGGGATGCC-ATGCTGAAA
1 TCTTCAACTTGTTCCCTATAAACACAGGGATGCCAAT-CTGATA
* ** * * * *
45856444 TCTTCGA-TCTGCTTTGCTGTAAGCACA-GGAGTGTCAGATCTGCTA
1 TCTTCAACT-TG-TTCCCTATAAACACAGGGA-TGCCA-ATCTGATA
* * * *
45856489 TCTTCGATTTGTTCCCTGTAAACACAGGGATACCAA
1 TCTTCAACTTGTTCCCTATAAACACAGGGATGCCAA
45856525 ATCTTGTTTC
Statistics
Matches: 351, Mismatches: 57, Indels: 47
0.77 0.13 0.10
Matches are distributed among these distances:
42 9 0.03
43 82 0.23
44 208 0.59
45 43 0.12
46 9 0.03
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (43 bp):
TCTTCAACTTGTTCCCTATAAACACAGGGATGCCAATCTGATA
Found at i:45856227 original size:132 final size:132
Alignment explanation
Indices: 45856050--45856519 Score: 599
Period size: 132 Copynumber: 3.6 Consensus size: 132
45856040 ATCAGCTATG
* * * * * *
45856050 TCTTCAATTTGTTCCTTGTAAGCACAAGGATGCCAAATCTACTATCTTCAACTTGTTCCCTATAA
1 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
*
45856115 ACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTATAAGCACAGGAATGTCAGATCTGC
66 ACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTATAAGCACAGGAATGTCAGATCTGC
45856180 TA
131 TA
45856182 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
1 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
* * * *
45856247 ACACAAGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAAGAATGTCAGATTTGC
66 ACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTATAAGCACAGGAATGTCAGATCTGC
45856312 TA
131 TA
*
45856314 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGATATCTTCAACTTGTTCCCTATAA
1 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
* * * * * *
45856379 GCACAGGGATGCCATGCTGAAATCTTC-AACTTG-TTCCCTATAAACACAGGGATG-C-CATGCT
66 ACACAGGGATGCCATGCTGAAATCTTCGATC-TGCTTCACTATAAGCACAGGAATGTCAGAT-CT
**
45856440 GAAA
129 GCTA
* ** * * * * * * *
45856444 TCTTCGATCTGCTTTGCTGTAAGCACA-GGAGTGTCAGATCTGCTATCTTCGATTTGTTCCCTGT
1 TCTTCGATTTG-TTCCCTATAAACACAGGGA-TGCCAAATCTGCTATCTTCAACTTGTTCCCTAT
45856508 AAACACAGGGAT
64 AAACACAGGGAT
45856520 ACCAAATCTT
Statistics
Matches: 298, Mismatches: 36, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
129 2 0.01
130 17 0.06
131 67 0.22
132 212 0.71
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.31
Consensus pattern (132 bp):
TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
ACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTATAAGCACAGGAATGTCAGATCTGC
TA
Found at i:45856481 original size:175 final size:175
Alignment explanation
Indices: 45856136--45856528 Score: 572
Period size: 175 Copynumber: 2.2 Consensus size: 175
45856126 CCATGCTGAA
* * * * * * * * *
45856136 ATCTTCGATCTGCTTCGCTATAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
1 ATCTTCGATTTG-TTCCCTATAAACACAGGGATGCCAAATCTGATATCTTCAACTTGTTCCCTAT
**
45856201 AAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAAGGATGCCATGCTG
65 AAACACAGGGATGCC-AATCTGAAATCTTCAACTTGTTCCCTATAAACACAAGGATGCCATGCTG
*
45856266 AAATCTTCGATCTGCTTCACTGTAAGCACAAGAATGTCAGATTTGCT
129 AAATCTTCGATCTGCTTCACTGTAAGCACAAGAATGTCAGATCTGCT
45856313 ATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGATATCTTCAACTTGTTCCCTATA
1 ATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGATATCTTCAACTTGTTCCCTATA
* *
45856378 AGCACAGGGATGCC-ATGCTGAAATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGA
66 AACACAGGGATGCCAAT-CTGAAATCTTCAACTTGTTCCCTATAAACACAAGGATGCCATGCTGA
** * *
45856442 AATCTTCGATCTGCTTTGCTGTAAGCACAGGAGTGTCAGATCTGCT
130 AATCTTCGATCTGCTTCACTGTAAGCACAAGAATGTCAGATCTGCT
* *
45856488 ATCTTCGATTTGTTCCCTGTAAACACAGGGATACCAAATCT
1 ATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCT
45856529 TGTTTCTGTG
Statistics
Matches: 195, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
174 2 0.01
175 124 0.64
176 58 0.30
177 11 0.06
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (175 bp):
ATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGATATCTTCAACTTGTTCCCTATA
AACACAGGGATGCCAATCTGAAATCTTCAACTTGTTCCCTATAAACACAAGGATGCCATGCTGAA
ATCTTCGATCTGCTTCACTGTAAGCACAAGAATGTCAGATCTGCT
Found at i:45857429 original size:10 final size:10
Alignment explanation
Indices: 45857403--45857440 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
45857393 TTTCTTTTTA
45857403 TTTTTTTCTCT
1 TTTTTTTCT-T
*
45857414 TGTTTTTCTT
1 TTTTTTTCTT
45857424 TTTTTTTCTT
1 TTTTTTTCTT
45857434 TTTTTTT
1 TTTTTTT
45857441 TGAAATAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 17 0.68
11 8 0.32
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.87
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:45857439 original size:19 final size:19
Alignment explanation
Indices: 45857397--45857438 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
45857387 CTCATTTTTC
45857397 TTTTTATTTTTTTCTCTTG
1 TTTTTATTTTTTTCTCTTG
* *
45857416 TTTTTCTTTTTTTTTCTT-
1 TTTTTATTTTTTTCTCTTG
45857434 TTTTT
1 TTTTT
45857439 TTTGAAATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.02, C:0.10, G:0.02, T:0.86
Consensus pattern (19 bp):
TTTTTATTTTTTTCTCTTG
Found at i:45857440 original size:11 final size:11
Alignment explanation
Indices: 45857403--45857441 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
45857393 TTTCTTTTTA
*
45857403 TTTTTTTCTCT
1 TTTTTTTCTTT
*
45857414 TGTTTTTC-TT
1 TTTTTTTCTTT
45857424 TTTTTTTCTTT
1 TTTTTTTCTTT
45857435 TTTTTTT
1 TTTTTTT
45857442 GAAATAGAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.87
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:45865214 original size:46 final size:46
Alignment explanation
Indices: 45865161--45865336 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
45865151 TATTTGGGCA
45865161 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *** * *
45865207 TCCGAACTCGTTGAGTTGAGTCCAAGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
*
45865254 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
45865300 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
45865337 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 31 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:45865295 original size:93 final size:93
Alignment explanation
Indices: 45865157--45865328 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
45865147 AGGATATTTG
*
45865157 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
45865222 TTGAGTCCAAGTTCGAGAGATGTAACTA
66 TTGAGTCCAAGTTCGAGAGATGTAACTA
* *
45865250 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
*
45865315 TTGAGTCCGAGTTC
66 TTGAGTCCAAGTTC
45865329 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
TTGAGTCCAAGTTCGAGAGATGTAACTA
Found at i:45868279 original size:14 final size:15
Alignment explanation
Indices: 45868252--45868327 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
45868242 GTATCTTGGG
45868252 TTTCTTTA-TCTGGA
1 TTTCTTTATTCTGGA
45868266 -TTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
45868280 TTTCTTTATTCTGG-
1 TTTCTTTATTCTGGA
*
45868294 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
45868309 TTTCTTTATTC-GG-
1 TTTCTTTATTCTGGA
45868322 TTTCTT
1 TTTCTT
45868328 GTTATCTTTG
Statistics
Matches: 55, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
13 15 0.27
14 18 0.33
15 20 0.36
16 2 0.04
ACGTcount: A:0.11, C:0.16, G:0.13, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:45868298 original size:29 final size:29
Alignment explanation
Indices: 45868243--45868327 Score: 113
Period size: 29 Copynumber: 3.0 Consensus size: 29
45868233 CATAGTATCG
* *
45868243 TATCTTGGGTTTCTTTA-TCTGGATTCTT
1 TATCTTGGATTTCTTTATTCTGGTTTCTT
*
45868271 TAT-TCTGGATTTCTTTATTCTGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGTTTCTT
45868300 TATCTTGGATTTCTTTATTC-GGTTTCTT
1 TATCTTGGATTTCTTTATTCTGGTTTCTT
45868328 GTTATCTTTG
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
27 1 0.02
28 21 0.42
29 27 0.54
30 1 0.02
ACGTcount: A:0.11, C:0.15, G:0.15, T:0.59
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCTGGTTTCTT
Found at i:45870838 original size:45 final size:44
Alignment explanation
Indices: 45870681--45870854 Score: 206
Period size: 45 Copynumber: 3.8 Consensus size: 44
45870671 ATTTGGGCAT
45870681 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * * *
45870726 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCAT
1 -CCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
45870774 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*
45870819 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
45870855 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 13, Indels: 13
0.81 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 37 0.34
46 32 0.29
47 31 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (44 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:45872494 original size:22 final size:21
Alignment explanation
Indices: 45872454--45872510 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 21
45872444 GAAGGATATC
* *
45872454 TACAAATTAAATCTCCAAGAT
1 TACAAATCATATCTCCAAGAT
*
45872475 TACAAGATCATATCTTCAAGAT
1 TACAA-ATCATATCTCCAAGAT
*
45872497 TGCAAATCATATCT
1 TACAAATCATATCT
45872511 AAGATTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 14 0.45
22 17 0.55
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (21 bp):
TACAAATCATATCTCCAAGAT
Found at i:45872516 original size:19 final size:19
Alignment explanation
Indices: 45872481--45872576 Score: 128
Period size: 17 Copynumber: 5.2 Consensus size: 19
45872471 AGATTACAAG
*
45872481 ATCATATCTTCAAGATTGCAA
1 ATCATATC-T-AAGATTGCAT
45872502 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
*
45872519 ATCATATCTATGATTG--T
1 ATCATATCTAAGATTGCAT
45872536 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
45872555 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
45872574 ATC
1 ATC
45872577 CTTAAAGTTA
Statistics
Matches: 70, Mismatches: 3, Indels: 6
0.89 0.04 0.08
Matches are distributed among these distances:
17 31 0.44
19 30 0.43
20 1 0.01
21 8 0.11
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:45874764 original size:3 final size:3
Alignment explanation
Indices: 45874756--45874796 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
45874746 TTCAAGCATA
45874756 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
45874797 CCATTTAACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:45875326 original size:97 final size:96
Alignment explanation
Indices: 45875225--45875505 Score: 226
Period size: 97 Copynumber: 2.9 Consensus size: 96
45875215 AATAATTTTT
*
45875225 ATTTGAATCCCATAAAATAAATAAACTATAATATTCATATCTCAAAACACGTGTAATATTAAGAA
1 ATTTGAATCCCATAAAATAAATAAATTATAATATTCATAT-TCAAAACACGTGTAATATTAAGAA
* * ** *
45875290 CTGCATAAAAATAAATGAAGACGGTGGCTTGC
65 CTGCATAAGAATAAATGAAGACGATAACTTAC
* * ** ** * * * *
45875322 ATTTGAA-CTC-TAAAAATAAAATGAATTATACGATTGGTCTTCACAAACACCTATAATATTGAG
1 ATTTGAATCCCAT-AAAAT-AAATAAATTATAATATTCATATTCA-AAACACGTGTAATATTAAG
** * * * * * *
45875385 AACAACATATGATTAAATGACGGCGATAATTTAT
63 AACTGCATAAGAATAAATGAAGACGATAACTTAC
* * *
45875419 ATTTAAATCCCATAAATTAAACAAATTATAATA-TCAATATTTACAAAACACGTGTAATATTAAG
1 ATTTGAATCCCATAAAATAAATAAATTATAATATTC-ATA-TT-CAAAACACGTGTAATATTAAG
*
45875483 AGCTGCATAAGAATAAATGAAGA
63 AACTGCATAAGAATAAATGAAGA
45875506 ATATGGTTTG
Statistics
Matches: 132, Mismatches: 44, Indels: 15
0.69 0.23 0.08
Matches are distributed among these distances:
95 1 0.01
96 11 0.08
97 77 0.58
98 40 0.30
99 3 0.02
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.29
Consensus pattern (96 bp):
ATTTGAATCCCATAAAATAAATAAATTATAATATTCATATTCAAAACACGTGTAATATTAAGAAC
TGCATAAGAATAAATGAAGACGATAACTTAC
Found at i:45875562 original size:195 final size:194
Alignment explanation
Indices: 45875206--45875563 Score: 470
Period size: 195 Copynumber: 1.8 Consensus size: 194
45875196 TGTATGAATG
* * *
45875206 AATGACGGAAATAATTTTTATTTGAATCCCATAAAATAAATAAACTATAATATTCATATCTCAAA
1 AATGACGGAAATAATTTATATTTAAATCCCATAAAATAAACAAACTATAATATTCATATCTCAAA
* *
45875271 ACACGTGTAATATTAAGAACTGCATAAAAATAAATGAAGACGGTGGCTTGCATTTGAACTCTAAA
66 ACACGTGTAATATTAAGAACTGCATAAAAATAAATGAAGAAGATGGCTTGCATTTGAACTCTAAA
** * *
45875336 AATAAAATGAATTATACGATTGGTCTTCACAAACACCTATAATATTGAGAACAACATATGATTA
131 AATAAAACCAATTATACAATGGGTCTTCACAAACACCTATAATATTGAGAACAACATATGATTA
** * * *
45875400 AATGACGGCGATAATTTATATTTAAATCCCATAAATTAAACAAATTATAATA-TCAATATTTACA
1 AATGACGGAAATAATTTATATTTAAATCCCATAAAATAAACAAACTATAATATTC-ATATCT-CA
* * * * *
45875464 AAACACGTGTAATATTAAGAGCTGCATAAGAATAAATGAAGAATATGGTTTGTATTTGAAC-CGT
64 AAACACGTGTAATATTAAGAACTGCATAAAAATAAATGAAGAAGATGGCTTGCATTTGAACTC-T
* *
45875528 AGAAATCAAACCAATTATACAATCGGGT-TTCACAAA
128 AAAAATAAAACCAATTATACAAT-GGGTCTTCACAAA
45875564 TACGTGTAAC
Statistics
Matches: 139, Mismatches: 21, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
193 2 0.01
194 51 0.37
195 83 0.60
196 3 0.02
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.30
Consensus pattern (194 bp):
AATGACGGAAATAATTTATATTTAAATCCCATAAAATAAACAAACTATAATATTCATATCTCAAA
ACACGTGTAATATTAAGAACTGCATAAAAATAAATGAAGAAGATGGCTTGCATTTGAACTCTAAA
AATAAAACCAATTATACAATGGGTCTTCACAAACACCTATAATATTGAGAACAACATATGATTA
Found at i:45877477 original size:27 final size:26
Alignment explanation
Indices: 45877429--45877670 Score: 274
Period size: 27 Copynumber: 8.9 Consensus size: 26
45877419 GCGAGGCTGC
* *
45877429 CAGATATTGTGAC-GAAGTCACCAGAT
1 CAGATATTGTGGCAG-AGCCACCAGAT
*
45877455 ACAGATATTGTGGCAGAGCCACCAGAA
1 -CAGATATTGTGGCAGAGCCACCAGAT
45877482 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAT
*
45877509 CAGATAATTGTGGCATAGCCACCAGGA-
1 CAGAT-ATTGTGGCAGAGCCACCA-GAT
*
45877536 CAGATATATGTGGCAGAGCCACCAGGT
1 CAGATAT-TGTGGCAGAGCCACCAGAT
*
45877563 TAGATAATTGTGTGGCAGAGCCACCAGAT
1 CAGAT-A-T-TGTGGCAGAGCCACCAGAT
*
45877592 CAGATAATTGTGGCATAGCCACCAGGA-
1 CAGAT-ATTGTGGCAGAGCCACCA-GAT
45877619 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAT
*
45877646 CAGATATTTGTGGCATAGCCACCAG
1 CAGATA-TTGTGGCAGAGCCACCAG
45877671 GACGCTTCCT
Statistics
Matches: 189, Mismatches: 14, Indels: 24
0.83 0.06 0.11
Matches are distributed among these distances:
26 14 0.07
27 140 0.74
28 10 0.05
29 25 0.13
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAT
Done.