Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 125 of 362
Found at i:41319924 original size:51 final size:51
Alignment explanation
Indices: 41319876--41320004 Score: 168
Period size: 51 Copynumber: 2.5 Consensus size: 51
41319866 ATGATCTTGA
* * *
41319876 AAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGTAATCTTAT
1 AAGATATGATTTTATAATCTTAGAGATCTTAGATAAGATAGGTAATCTTAG
* ** * *
41319927 AAGATATTATTTTATAAGATTACATATCTTAGATAAGATAGGTAATCTTAG
1 AAGATATGATTTTATAATCTTAGAGATCTTAGATAAGATAGGTAATCTTAG
* *
41319978 AATATATGATTTTATATTCTTAGAGAT
1 AAGATATGATTTTATAATCTTAGAGAT
41320005 TTGATTGTAG
Statistics
Matches: 63, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 63 1.00
ACGTcount: A:0.39, C:0.05, G:0.13, T:0.43
Consensus pattern (51 bp):
AAGATATGATTTTATAATCTTAGAGATCTTAGATAAGATAGGTAATCTTAG
Found at i:41325132 original size:51 final size:51
Alignment explanation
Indices: 41325077--41325205 Score: 168
Period size: 51 Copynumber: 2.5 Consensus size: 51
41325067 ATGATCTTGA
* * * *
41325077 AAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGTAATCTTAT
1 AAGATATGATTTTATAATCTTAGAGATATTAGATAAGATAGGTAATCTTAG
* ** * *
41325128 AAGATATTATTTTATAAGATTACATATATTAGATAAGATAGGTAATCTTAG
1 AAGATATGATTTTATAATCTTAGAGATATTAGATAAGATAGGTAATCTTAG
*
41325179 AAGATATGATTTTATATTCTTAGAGAT
1 AAGATATGATTTTATAATCTTAGAGAT
41325206 TTGATTGTAG
Statistics
Matches: 63, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 63 1.00
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.42
Consensus pattern (51 bp):
AAGATATGATTTTATAATCTTAGAGATATTAGATAAGATAGGTAATCTTAG
Found at i:41326556 original size:6 final size:6
Alignment explanation
Indices: 41326547--41326590 Score: 88
Period size: 6 Copynumber: 7.3 Consensus size: 6
41326537 AACAGCATCG
41326547 TCAACC TCAACC TCAACC TCAACC TCAACC TCAACC TCAACC TC
1 TCAACC TCAACC TCAACC TCAACC TCAACC TCAACC TCAACC TC
41326591 GCTTACTCAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.32, C:0.50, G:0.00, T:0.18
Consensus pattern (6 bp):
TCAACC
Found at i:41334755 original size:15 final size:15
Alignment explanation
Indices: 41334735--41334765 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
41334725 GCTGCAGCAG
*
41334735 CTTTGCCTATATTGA
1 CTTTGCCGATATTGA
41334750 CTTTGCCGATATTGA
1 CTTTGCCGATATTGA
41334765 C
1 C
41334766 AAAAGAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (15 bp):
CTTTGCCGATATTGA
Found at i:41340979 original size:39 final size:39
Alignment explanation
Indices: 41340934--41341010 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
41340924 ACTTAATTGG
*
41340934 TGAATGAATGGTAGGTTATAATTATTAATCATATGAGCA
1 TGAATGAATGGTAGGTTATAATTATTAATCATACGAGCA
*
41340973 TGAATGAATGGTAGGTTATATTTATTAATCATACGAGC
1 TGAATGAATGGTAGGTTATAATTATTAATCATACGAGC
41341011 TTACTAAGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.36
Consensus pattern (39 bp):
TGAATGAATGGTAGGTTATAATTATTAATCATACGAGCA
Found at i:41347392 original size:24 final size:24
Alignment explanation
Indices: 41347365--41347411 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
41347355 ATATGTTGAC
*
41347365 ATTCAAATTAGCACACATAGTGCT
1 ATTCAAATCAGCACACATAGTGCT
* *
41347389 ATTCAACTCCGCACACATAGTGC
1 ATTCAAATCAGCACACATAGTGC
41347412 CATACTACAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.26
Consensus pattern (24 bp):
ATTCAAATCAGCACACATAGTGCT
Found at i:41347445 original size:24 final size:24
Alignment explanation
Indices: 41347375--41347437 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
41347365 ATTCAAATTA
* * * *
41347375 GCACACATAGTGCTATTCAACTCC
1 GCACACATAGTGCCATACTACACC
41347399 GCACACATAGTGCCATACTACACC
1 GCACACATAGTGCCATACTACACC
41347423 GCACACATAGTGCCA
1 GCACACATAGTGCCA
41347438 ATGTACACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.32, C:0.35, G:0.14, T:0.19
Consensus pattern (24 bp):
GCACACATAGTGCCATACTACACC
Found at i:41361083 original size:94 final size:94
Alignment explanation
Indices: 41360922--41361100 Score: 349
Period size: 94 Copynumber: 1.9 Consensus size: 94
41360912 CAAGGATGTA
*
41360922 TTGGTACATATAGATAAATTTATTTTCCCTACTGATTTTGTTATTTTAGACTTTGAATCAGACAA
1 TTGGTACATATAGATAAATTTATTTTCCCTACTGATTTTGTTATTCTAGACTTTGAATCAGACAA
41360987 AGAAGTGCCAATTATCTTAGGAAGACCGT
66 AGAAGTGCCAATTATCTTAGGAAGACCGT
41361016 TTGGTACATATAGATAAATTTATTTTCCCTACTGATTTTGTTATTCTAGACTTTGAATCAGACAA
1 TTGGTACATATAGATAAATTTATTTTCCCTACTGATTTTGTTATTCTAGACTTTGAATCAGACAA
41361081 AGAAGTGCCAATTATCTTAG
66 AGAAGTGCCAATTATCTTAG
41361101 CAACCAGAAG
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 84 1.00
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (94 bp):
TTGGTACATATAGATAAATTTATTTTCCCTACTGATTTTGTTATTCTAGACTTTGAATCAGACAA
AGAAGTGCCAATTATCTTAGGAAGACCGT
Found at i:41369576 original size:19 final size:19
Alignment explanation
Indices: 41369552--41369597 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
41369542 AACCCGTAAT
41369552 TACATGTGGTTTGAGATCC
1 TACATGTGGTTTGAGATCC
41369571 TACATGTGGTTTGAGATCC
1 TACATGTGGTTTGAGATCC
41369590 TACATGTG
1 TACATGTG
41369598 TTACAGTAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.22, C:0.15, G:0.26, T:0.37
Consensus pattern (19 bp):
TACATGTGGTTTGAGATCC
Found at i:41371788 original size:3 final size:3
Alignment explanation
Indices: 41371780--41371807 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
41371770 CTATGACTTG
41371780 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
41371808 TCCATTTGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:41373746 original size:45 final size:45
Alignment explanation
Indices: 41373673--41373768 Score: 147
Period size: 45 Copynumber: 2.1 Consensus size: 45
41373663 AACTCGTAAC
* *
41373673 CACATATATCAATGCCAACATCCTAGATGTGGTCTTACATGAAAA
1 CACATATATCAATGCCAACATCCCAGATGTGGTCTTACACGAAAA
** *
41373718 CACATATATTGATGCCAACCTCCCAGATGTGGTCTTACACGAAAA
1 CACATATATCAATGCCAACATCCCAGATGTGGTCTTACACGAAAA
41373763 CACATA
1 CACATA
41373769 GCATAGTCCT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (45 bp):
CACATATATCAATGCCAACATCCCAGATGTGGTCTTACACGAAAA
Found at i:41374341 original size:15 final size:15
Alignment explanation
Indices: 41374318--41374348 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
41374308 TCAAAAATTC
41374318 CAATACAAAACATAT
1 CAATACAAAACATAT
*
41374333 CAATCCAAAACATAT
1 CAATACAAAACATAT
41374348 C
1 C
41374349 TTTCGTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:41383066 original size:37 final size:37
Alignment explanation
Indices: 41383016--41383094 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
41383006 TTATTACGAA
* *
41383016 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
41383053 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
41383090 GTCTT
1 GTCTT
41383095 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:41383291 original size:47 final size:47
Alignment explanation
Indices: 41383213--41383519 Score: 488
Period size: 47 Copynumber: 6.5 Consensus size: 47
41383203 CCCTTCGGGA
* * * * * *
41383213 CTTATCACATATATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41383260 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41383307 CTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41383354 CTTACCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41383401 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41383450 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41383497 CTTATCACATATATACACTTTCA
1 CTTATCACATATATACACTTTCA
41383520 TTAGGCCTTA
Statistics
Matches: 243, Mismatches: 15, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
47 197 0.81
49 46 0.19
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:41383474 original size:143 final size:141
Alignment explanation
Indices: 41383213--41383519 Score: 488
Period size: 143 Copynumber: 2.2 Consensus size: 141
41383203 CCCTTCGGGA
* * * * *
41383213 CTTATCACATATATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
41383278 TTTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATACACTTTCACATTCATCACATC
*
41383343 GGCCATTAGGC
131 AGCCATTAGGC
* * * * *
41383354 CTTACCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCAC--ATATATAC
*
41383419 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATACACTTTCACATTCATCACA
41383484 TCAGCCATTAGGC
129 TCAGCCATTAGGC
41383497 CTTATCACATATATACACTTTCA
1 CTTATCACATATATACACTTTCA
41383520 TTAGGCCTTA
Statistics
Matches: 151, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
141 45 0.30
143 106 0.70
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATACACTTTCACATTCATCACATC
AGCCATTAGGC
Found at i:41383523 original size:29 final size:29
Alignment explanation
Indices: 41383489--41383548 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
41383479 TCACATCAGC
41383489 CATTAGGCCTTATCACATATATACACTTT
1 CATTAGGCCTTATCACATATATACACTTT
41383518 CATTAGGCCTTATCACATATATACACTTT
1 CATTAGGCCTTATCACATATATACACTTT
41383547 CA
1 CA
41383549 CATTCATCAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.37
Consensus pattern (29 bp):
CATTAGGCCTTATCACATATATACACTTT
Found at i:41383525 original size:76 final size:76
Alignment explanation
Indices: 41383442--41383595 Score: 281
Period size: 76 Copynumber: 2.0 Consensus size: 76
41383432 TCACATCGGC
*
41383442 CATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACAT
1 CATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACAC
41383507 ATATACACTTT
66 ATATACACTTT
* *
41383518 CATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACAC
1 CATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACAC
41383583 ATATACACTTT
66 ATATACACTTT
41383594 CA
1 CA
41383596 CATTCATCAC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (76 bp):
CATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACAC
ATATACACTTT
Found at i:41383555 original size:123 final size:124
Alignment explanation
Indices: 41383394--41383642 Score: 455
Period size: 123 Copynumber: 2.0 Consensus size: 124
41383384 CACATCGGCT
41383394 ATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
1 ATTAGGCCTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
*
41383459 TATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATACACTTTC
65 CATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATACACTTTC
*
41383519 ATTAGGCCTTATCAC-ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACAC
1 ATTAGGCCTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
*
41383583 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
66 ATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATACACTTTC
41383642 A
1 A
41383643 CATTCATCAC
Statistics
Matches: 121, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
123 106 0.88
125 15 0.12
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (124 bp):
ATTAGGCCTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
ATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATACACTTTC
Found at i:41383572 original size:47 final size:47
Alignment explanation
Indices: 41383519--41383685 Score: 316
Period size: 47 Copynumber: 3.6 Consensus size: 47
41383509 ATACACTTTC
41383519 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCT
1 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCT
* *
41383566 ATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCC
1 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCT
41383613 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCT
1 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCT
41383660 ATTAGGCCTTATCACATATATACACT
1 ATTAGGCCTTATCACATATATACACT
41383686 GTCTTGGCTG
Statistics
Matches: 116, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 116 1.00
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (47 bp):
ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCT
Found at i:41383645 original size:170 final size:171
Alignment explanation
Indices: 41383346--41383685 Score: 628
Period size: 170 Copynumber: 2.0 Consensus size: 171
41383336 TCACATCGGC
41383346 CATTAGGCCTTACCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACAT
1 CATTAGGCCTTACCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACA-
*
41383411 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
65 ACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
41383476 TCATCACATCAGCCATTAGGCCTTATCACATATATACACTTT
130 TCATCACATCAGCCATTAGGCCTTATCACATATATACACTTT
*
41383518 CATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC-A
1 CATTAGGCCTTACCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACAA
41383582 CATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
66 CATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
* *
41383647 CATCACATCGGCTATTAGGCCTTATCACATATATACACT
131 CATCACATCAGCCATTAGGCCTTATCACATATATACACT
41383686 GTCTTGGCTG
Statistics
Matches: 164, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
170 102 0.62
172 62 0.38
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.33
Consensus pattern (171 bp):
CATTAGGCCTTACCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACAA
CATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
CATCACATCAGCCATTAGGCCTTATCACATATATACACTTT
Found at i:41386643 original size:13 final size:13
Alignment explanation
Indices: 41386625--41386653 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
41386615 GGTTGTTTAT
41386625 TAAACTAATTAAC
1 TAAACTAATTAAC
41386638 TAAACTAATTAAC
1 TAAACTAATTAAC
41386651 TAA
1 TAA
41386654 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:41399106 original size:805 final size:806
Alignment explanation
Indices: 41397543--41399157 Score: 2723
Period size: 805 Copynumber: 2.0 Consensus size: 806
41397533 CGCCCCTAGT
*
41397543 GTGGCCGAGTACTGGTTGGAGGCCATAGAGAGGATTATGAATGACTTAGACTATACTCCCGAACA
1 GTGGCCGAGTACTGGTTGGAGGCCACAGAGAGGATTATGAATGACTTAGACTATACTCCCGAACA
*
41397608 GAAGTTTAAGGGTACAGTCTCTTTGCTTCGCGACGAGGCATACCAGTTGTGGTTAACGGTTGAGG
66 GAAGTTTAAGGGTACAGTCTCTTTGCTTCGCGACGAGGCATACCAGTTGTGGTTAACGGTTAAGG
* * *
41397673 AGGGTACTCAGCTGATCGTTTGACTTGGGATTTCTTCAAGACCACTTCCTAGAGCAAGTATGTGG
131 AGGGTACTCAGCAGATCGTTTGACTTGGGATTTCTTCAAGACCACTTCCCAGAGCAAGTATGTGA
* *
41397738 GAGCGATCTATGTGGATACTCGTAGGCGTGAGTTCATGAATCTCACACAAAGGGATAGGTCTGTG
196 GAACGATCTATGTGGATACTCATAGGCGTGAGTTCATGAATCTCACACAAAGGGATAGGTCTGTG
* * *
41397803 GCCAAGTATGAGGCTGAATTTCTGAGGCTGAGTTGCTACGCTCGAGGCATTGTGGCATCTGAGTA
261 GCCAAGTATGAGGCTGAATTTCTGAGGCTGAGCTGCTACACTCGAGGCATGGTGGCATCTGAGTA
*
41397868 CAAGAGGTGTGTCCGTTTTGAGGATGGTCTGAGGGACAGTTTGATTGTAGTAATTGCTCCACAGA
326 CAAGAGGTGTGTCCGTTTTGAGGATGGTCTGAGGGACAGTTTGATTGTACTAATTGCTCCACAGA
*
41397933 GGGAGCGTGAGTTCGCAGTATTGGTAGAAAAGGCAATGATTGCTAAAGATGTTAAGCATGTAGAG
391 GGGAGCATGAGTTCGCAGTATTGGTAGAAAAGGCAATGATTGCTAAAGATGTTAAGCATGTAGAG
* *
41397998 TGCCAGAATGGGGACCGAGAGAGGGGTAAGAATAAGAGGGATTCGAAGCCCTCTAGTTCTGTCCC
456 TGCCAGAATAGGGACCGAGAGAGGGGTAAGAATAAGAGGGATTCGAAGCCCTCTAGTTCTATCCC
* * *
41398063 GAGGCCTAAGAAAAAGGCCAGATCTGATGAGCTGACTAGAGTGCGGGTTCCTGTTGCCCCAACAG
521 GAGGCCTAAGAAAAAGGCCAGATCTGATGAGCCGAATAGAGTGCGGGTTCCTATTGCCCCAACAG
41398128 GGATTCAGCCGTGTAGTAACAGTGGTAGCTACCATCGAGGTGAGTGTTAGAGGAGGATTGGGGCC
586 GGATTCAGCCGTGTAGTAACAGTGGTAGCTACCATCGAGGTGAGTGTTAGAGGAGGATTGGGGCC
* * *
41398193 TATTTGAGGTGTGGATATTTGGAACATCCTATTAGAGAGTGTCCACAGAGGACAGATCAGATGCT
651 TATTTGAGGTGTGGATAATTAGAACATCCTATTAGAGAGTGTCCACAGAGGACAGATCAGATGCA
* *
41398258 AGCGTCAGCACTAGGTTCTGTACCGCTTCAAAGGGCATTCAACAACCACCTACTGGCCGTGGATC
716 AGCATCAGCACCAGGTTCTGTACCGCTTCAAAGGGCATTCAACAACCACCTACTGGCCGTGGATC
* *
41398323 GGCTAGAGGTGGTAAT-ATTTGGGTC
781 AGCTAGAAGTGGTAATGATTTGGGTC
* * * * *
41398348 GTGGTCGAGTATTGGTTGGAGGCTACAGAGAGTATTATGAATGACTTAGACTATACTCCCGAGCA
1 GTGGCCGAGTACTGGTTGGAGGCCACAGAGAGGATTATGAATGACTTAGACTATACTCCCGAACA
*
41398413 GAAGTTTAAGGGTGCAGTCTCTTTGCTTCGCGACGAGGCATACCAGTTGTGGTTAACGGTTAAGG
66 GAAGTTTAAGGGTACAGTCTCTTTGCTTCGCGACGAGGCATACCAGTTGTGGTTAACGGTTAAGG
*
41398478 AGGGTACTCAGCCAGATCGTTTGACTTGGGATTTCTTC-AGATCACTTCCCAGAGCAAGTATGTG
131 AGGGTACTCAG-CAGATCGTTTGACTTGGGATTTCTTCAAGACCACTTCCCAGAGCAAGTATGTG
* * *
41398542 AGAACGATCTATGTGGATGCTCATAGGCGTGAGTTCATGAATCTCACGCAAGGGGATAGGTCTGT
195 AGAACGATCTATGTGGATACTCATAGGCGTGAGTTCATGAATCTCACACAAAGGGATAGGTCTGT
* *
41398607 GGCCAAGTATGAGGCTGAATTTCTGAGGTTGAGCTGCTACACTCGAGGCATGGTGGCATTTGAGT
260 GGCCAAGTATGAGGCTGAATTTCTGAGGCTGAGCTGCTACACTCGAGGCATGGTGGCATCTGAGT
41398672 ACAAGAGGTGTGTCCGTTTTGAGGATGGTCTGAGGGACAGTTTGATTGTACTAATTGCTCCACAG
325 ACAAGAGGTGTGTCCGTTTTGAGGATGGTCTGAGGGACAGTTTGATTGTACTAATTGCTCCACAG
* * *
41398737 AGGGAGCATGAGTTTGCAGTATTGGTCGAAAAGGCAATGATTGCTAAGGATGTTAAGCATGTAGA
390 AGGGAGCATGAGTTCGCAGTATTGGTAGAAAAGGCAATGATTGCTAAAGATGTTAAGCATGTAGA
*
41398802 GTGCCAGAATAGGGACCGAGAGAGGGGTAAGAATAAGAGGGATTCGAAGCCCTCTAGTTCTATCT
455 GTGCCAGAATAGGGACCGAGAGAGGGGTAAGAATAAGAGGGATTCGAAGCCCTCTAGTTCTATCC
* * *
41398867 TGAGGCTTAAGAAAAAGGCTAGATCTGATGAGCCGAATAGAGTG-GCGGTTCCTATTGCCCCAAC
520 CGAGGCCTAAGAAAAAGGCCAGATCTGATGAGCCGAATAGAGTGCG-GGTTCCTATTGCCCCAAC
* *
41398931 AGGGATTCAGCCGTGTAGTGACAGTGGTAGCTACCATCGGGGTGAGTGTTAGAGGAGGATTGGGG
584 AGGGATTCAGCCGTGTAGTAACAGTGGTAGCTACCATCGAGGTGAGTGTTAGAGGAGGATTGGGG
* * * *
41398996 CCTGTTTGAGGTGTGGATAATTAGAGCATCGTATTAGAGAGTGTCCACAGGGGACAGATCAGATG
649 CCTATTTGAGGTGTGGATAATTAGAACATCCTATTAGAGAGTGTCCACAGAGGACAGATCAGATG
* *
41399061 CAAGCATCAGCACCAGGTTTTGTACCGCTTCAGAGGGCATTCAACAACCACCTACTGGCCGTGGA
714 CAAGCATCAGCACCAGGTTCTGTACCGCTTCAAAGGGCATTCAACAACCACCTACTGGCCGTGGA
*
41399126 TCAGCTAGAAGTGGTAATGGTTTGGGTC
779 TCAGCTAGAAGTGGTAATGATTTGGGTC
41399154 GTGG
1 GTGG
41399158 GCAGTGAGCA
Statistics
Matches: 755, Mismatches: 52, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
804 1 0.00
805 717 0.95
806 37 0.05
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (806 bp):
GTGGCCGAGTACTGGTTGGAGGCCACAGAGAGGATTATGAATGACTTAGACTATACTCCCGAACA
GAAGTTTAAGGGTACAGTCTCTTTGCTTCGCGACGAGGCATACCAGTTGTGGTTAACGGTTAAGG
AGGGTACTCAGCAGATCGTTTGACTTGGGATTTCTTCAAGACCACTTCCCAGAGCAAGTATGTGA
GAACGATCTATGTGGATACTCATAGGCGTGAGTTCATGAATCTCACACAAAGGGATAGGTCTGTG
GCCAAGTATGAGGCTGAATTTCTGAGGCTGAGCTGCTACACTCGAGGCATGGTGGCATCTGAGTA
CAAGAGGTGTGTCCGTTTTGAGGATGGTCTGAGGGACAGTTTGATTGTACTAATTGCTCCACAGA
GGGAGCATGAGTTCGCAGTATTGGTAGAAAAGGCAATGATTGCTAAAGATGTTAAGCATGTAGAG
TGCCAGAATAGGGACCGAGAGAGGGGTAAGAATAAGAGGGATTCGAAGCCCTCTAGTTCTATCCC
GAGGCCTAAGAAAAAGGCCAGATCTGATGAGCCGAATAGAGTGCGGGTTCCTATTGCCCCAACAG
GGATTCAGCCGTGTAGTAACAGTGGTAGCTACCATCGAGGTGAGTGTTAGAGGAGGATTGGGGCC
TATTTGAGGTGTGGATAATTAGAACATCCTATTAGAGAGTGTCCACAGAGGACAGATCAGATGCA
AGCATCAGCACCAGGTTCTGTACCGCTTCAAAGGGCATTCAACAACCACCTACTGGCCGTGGATC
AGCTAGAAGTGGTAATGATTTGGGTC
Found at i:41402299 original size:12 final size:14
Alignment explanation
Indices: 41402284--41402315 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
41402274 GTGAGAACAC
41402284 ATGTGTA-G-TACT
1 ATGTGTAGGCTACT
41402296 ATGTGTAGGCTACT
1 ATGTGTAGGCTACT
41402310 ATGTGT
1 ATGTGT
41402316 TTAAAATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 1 0.06
14 10 0.56
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.41
Consensus pattern (14 bp):
ATGTGTAGGCTACT
Found at i:41402401 original size:50 final size:49
Alignment explanation
Indices: 41402337--41402562 Score: 244
Period size: 50 Copynumber: 4.5 Consensus size: 49
41402327 TTAGATCACG
* *
41402337 TGTGTAGTAGTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTTTGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGG-TCGA
* ** * * * *
41402387 TGCT-TAGTACTAAGTGCAGGCTACTATGCATACCCGATAGCTTTGATC-A
1 TG-TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-TTAGGTCGA
*
41402436 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCCA-ATGGTTAGGTC-A
1 --TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATTGTTAGGTCGA
*
41402486 CGTTTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGAA
1 --TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCG-A
41402538 TGTGTAGTACTAAGTGCAGGCTACT
1 TGTGTAGTACTAAGTGCAGGCTACT
41402563 GTGCATACCA
Statistics
Matches: 148, Mismatches: 19, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
49 4 0.03
50 107 0.72
51 34 0.23
52 3 0.02
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGA
Found at i:41402455 original size:101 final size:100
Alignment explanation
Indices: 41402327--41402562 Score: 282
Period size: 101 Copynumber: 2.4 Consensus size: 100
41402317 TAAAATGGTT
* * **
41402327 TTAGATCACGTGTGTAGTAGTAAGTGCAGGCTACTACGTGTA-CCAGATTGTTAGGT-TTGATGC
1 TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCCA-ATGGTTAGGTCACG-T-C
* *
41402390 T-TAGTACTAAGTGCAGGCTACTATGCATACCCGATAG
63 TGTAGTACTAAGTGCAGGCTACTACGCATACCAGATAG
* *
41402427 CTTTGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCCAATGGTTAGGTCACGTTTG
1 -TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCCAATGGTTAGGTCACGTCTG
** *
41402492 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
65 TAGTACTAAGTGCAGGCTACTACGCATACCAGATAG
* *
41402528 TTAGGTCGA-ATGTGTAGTACTAAGTGCAGGCTACT
1 TTAGATC-ACGTGTGTAGTACTAAGTGCAGGCTACT
41402563 GTGCATACCA
Statistics
Matches: 117, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
100 31 0.26
101 82 0.70
102 4 0.03
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (100 bp):
TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCCAATGGTTAGGTCACGTCTGT
AGTACTAAGTGCAGGCTACTACGCATACCAGATAG
Found at i:41402561 original size:151 final size:152
Alignment explanation
Indices: 41402285--41402580 Score: 427
Period size: 151 Copynumber: 1.9 Consensus size: 152
41402275 TGAGAACACA
* * * * *
41402285 TGTGTAGTACTATGTGTAGGCTACTATGTGTTTAAAATGGTTTTAGATCACGTGTGTAGTAGTAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAAATGG-TTTAGATCACGTGTGTAGTACTAA
*
41402350 GTGCAGGCTACTACGTGTACCAGATTGTTAGGTTTGATGCTTAGTACTAAGTGCAGGCTACTATG
65 GTGCAGGCTACTACGTGTACCAGATTGTTAGGTTCGATGCTTAGTACTAAGTGCAGGCTACTATG
* *
41402415 CATACCCGATAGCTTTGATCACG
130 CATACCAGAGAGCTTTGATCACG
** * *
41402438 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCCAATGG-TTAGGTCACGTTTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAAATGGTTTAGATCACGTGTGTAGTACTAAG
*
41402502 TGCAGGCTACTACGTGTACCAGATTGTTAGG-TCGAATG-TGTAGTACTAAGTGCAGGCTACTGT
66 TGCAGGCTACTACGTGTACCAGATTGTTAGGTTCG-ATGCT-TAGTACTAAGTGCAGGCTACTAT
41402565 GCATACCAGAGAGCTT
129 GCATACCAGAGAGCTT
41402581 CGGTTACAAC
Statistics
Matches: 128, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
150 3 0.02
151 91 0.71
153 34 0.27
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.32
Consensus pattern (152 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAAATGGTTTAGATCACGTGTGTAGTACTAAG
TGCAGGCTACTACGTGTACCAGATTGTTAGGTTCGATGCTTAGTACTAAGTGCAGGCTACTATGC
ATACCAGAGAGCTTTGATCACG
Found at i:41402572 original size:50 final size:50
Alignment explanation
Indices: 41402281--41402574 Score: 237
Period size: 50 Copynumber: 5.8 Consensus size: 50
41402271 ATTGTGAGAA
* * * ** * *
41402281 CACATGTGTAGTACTATGTGTAGGCTACTATGTGTTTAAAATGGTT-TTAGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTA-GTG-ATACCA-GATTGTTAGGT
* *
41402333 CACGTGTGTAGTAGTAAGTGCAGGCTACTACGTG-TACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTA-GTGATACCAGATTGTTAGGT
*** * * * *
41402383 TTGATGCT-TAGTACTAAGTGCAGGCTACTA-TGCATACCCGATAGCTTTGAT
1 CACATG-TGTAGTACTAAGTGCAGGCTACTAGTG-ATACCAGATTG-TTAGGT
* *
41402434 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTG-TATCCA-ATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTA-GTGATA-CCAGATTGTTAGGT
* *
41402484 CACGTTTGTAGTACTAAGTGCAGGCTACTACGTG-TACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTA-GTGATACCAGATTGTTAGGT
41402534 CGA-ATGTGTAGTACTAAGTGCAGGCTACT-GTGCATACCAGA
1 C-ACATGTGTAGTACTAAGTGCAGGCTACTAGTG-ATACCAGA
41402575 GAGCTTCGGT
Statistics
Matches: 199, Mismatches: 30, Indels: 28
0.77 0.12 0.11
Matches are distributed among these distances:
48 5 0.03
49 6 0.03
50 120 0.60
51 35 0.18
52 31 0.16
53 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTAGTGATACCAGATTGTTAGGT
Found at i:41406068 original size:15 final size:15
Alignment explanation
Indices: 41406025--41406060 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
41406015 TATGATATTG
*
41406025 TATCTTGGATTTCTT
1 TATCTTGGATTTCTC
41406040 TATCTTGGATTTCTC
1 TATCTTGGATTTCTC
41406055 TATCTT
1 TATCTT
41406061 AGACTTCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.14, C:0.17, G:0.11, T:0.58
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:41409120 original size:50 final size:50
Alignment explanation
Indices: 41409007--41409344 Score: 347
Period size: 50 Copynumber: 6.7 Consensus size: 50
41408997 AGAACATATT
* ** * *
41409007 TGTAGTACTATGTGCAGGCTACTATGTGTTTAAAATGGTT-TTAGGTCGCGTG
1 TGTAGTACTAAGTGCAGGCTACTATGTG--TACCA-GATTGTTAGGTCACGTG
* * * *
41409059 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGTTAGGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTCACGTG
* * * * *
41409109 CGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAGCTTCGATCACGTG
1 TGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTG-TTAGGTCACGTG
* * *
41409160 TTTAGTACTAAGTGCAGGCTACTATGTGTATCC-GATGGTTAGGTCACGTT
1 TGTAGTACTAAGTGCAGGCTACTATGTGTA-CCAGATTGTTAGGTCACGTG
* * * *
41409210 TGTAGTACTAAGTGCAGGCTACTATGTGTATCTGATGGTTAGGTCACGTT
1 TGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTCACGTG
* * * * * * *
41409260 TGTAGTACTAAATGTAGGCTACTACGTGTACCATATTTTTAGGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTCACGTG
**
41409310 TGTAGTACTAAGTGCAGGCTACTATACGTACCAGA
1 TGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
41409345 GAGCTTCGGT
Statistics
Matches: 241, Mismatches: 41, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
49 3 0.01
50 170 0.71
51 40 0.17
52 28 0.12
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (50 bp):
TGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTCACGTG
Found at i:41409189 original size:101 final size:101
Alignment explanation
Indices: 41409055--41409352 Score: 368
Period size: 101 Copynumber: 3.0 Consensus size: 101
41409045 TTTTAGGTCG
* *
41409055 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGTTAGGTCGCATGCGTAGTACTAA
1 CGTGTTTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGTTAGGTCGCATGTGTAGTACTAA
*
41409120 GTGCAGGCTACTATGTGTACCCGATAGCTTCGATCA
66 GTGCAGGCTACTATGTGTACCAGATAGCTTCGATCA
* * * * * *
41409156 CGTGTTTAGTACTAAGTGCAGGCTACTATGTGTATCC-GATGGTTAGGTCACGTTTGTAGTACTA
1 CGTGTTTAGTACTAAGTGCAGGCTACTACGTGTA-CCAAATTGTTAGGTCGCATGTGTAGTACTA
* * * * *
41409220 AGTGCAGGCTACTATGTGTATCTGAT-GGTTAGGTCA
65 AGTGCAGGCTACTATGTGTACCAGATAGCTTCGATCA
* * * *
41409256 CGT-TTGTAGTACTAAATGTAGGCTACTACGTGTACCATATTTTTAGGTCGCATGTGTAGTACTA
1 CGTGTT-TAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGTTAGGTCGCATGTGTAGTACTA
** *
41409320 AGTGCAGGCTACTATACGTACCAGAGAGCTTCG
65 AGTGCAGGCTACTATGTGTACCAGATAGCTTCG
41409353 GTTACAAGGG
Statistics
Matches: 164, Mismatches: 29, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
99 4 0.02
100 77 0.47
101 81 0.49
102 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (101 bp):
CGTGTTTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGTTAGGTCGCATGTGTAGTACTAA
GTGCAGGCTACTATGTGTACCAGATAGCTTCGATCA
Found at i:41409289 original size:151 final size:151
Alignment explanation
Indices: 41409007--41409334 Score: 381
Period size: 151 Copynumber: 2.2 Consensus size: 151
41408997 AGAACATATT
* * *
41409007 TGTAGTACTATGTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGTCGCGTGTGTAGTACTAAGT
1 TGTAGTACTAAGTGCAGGCTACTATGTGTATAAAATGG-TTTAGGTCACGTGTGTAGTACTAAGT
* * * *
41409072 GCAGGCTACTACGTGTACCAAATTGTTAGGTCGCATGCGTAGTACTAAGTGCAGGCTACTATGTG
65 GCAGGCTACTACGTGTACCAAATGGTTAGGTCACATGCGTAGTACTAAATGCAGGCTACTACGTG
* *
41409137 TACCCGATA-GCTTCGATCACGTG
130 TA-CC-ATATGCTTAGATCACATG
* *** *
41409160 TTTAGTACTAAGTGCAGGCTACTATGTGTATCCGATGG-TTAGGTCACGTTTGTAGTACTAAGTG
1 TGTAGTACTAAGTGCAGGCTACTATGTGTATAAAATGGTTTAGGTCACGTGTGTAGTACTAAGTG
* * ** * ** *
41409224 CAGGCTACTATGTGTATCTGATGGTTAGGTCACGTTTGTAGTACTAAATGTAGGCTACTACGTGT
66 CAGGCTACTACGTGTACCAAATGGTTAGGTCACATGCGTAGTACTAAATGCAGGCTACTACGTGT
** * *
41409289 ACCATATTTTTAGGTCGCATG
131 ACCATATGCTTAGATCACATG
41409310 TGTAGTACTAAGTGCAGGCTACTAT
1 TGTAGTACTAAGTGCAGGCTACTAT
41409335 ACGTACCAGA
Statistics
Matches: 147, Mismatches: 27, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
149 3 0.02
150 34 0.23
151 78 0.53
153 32 0.22
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (151 bp):
TGTAGTACTAAGTGCAGGCTACTATGTGTATAAAATGGTTTAGGTCACGTGTGTAGTACTAAGTG
CAGGCTACTACGTGTACCAAATGGTTAGGTCACATGCGTAGTACTAAATGCAGGCTACTACGTGT
ACCATATGCTTAGATCACATG
Found at i:41412822 original size:20 final size:20
Alignment explanation
Indices: 41412797--41412834 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
41412787 ATTTTAGGAT
*
41412797 TTATTTTTATTTATCTTTAA
1 TTATTTGTATTTATCTTTAA
41412817 TTATTTGTATTTATCTTT
1 TTATTTGTATTTATCTTT
41412835 TGGAATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.71
Consensus pattern (20 bp):
TTATTTGTATTTATCTTTAA
Found at i:41425078 original size:4 final size:4
Alignment explanation
Indices: 41425069--41425128 Score: 54
Period size: 4 Copynumber: 14.8 Consensus size: 4
41425059 AATTTTTATT
*
41425069 TTTA TTTA TTTA TTTA TTTA TAT- TTTA TTTTA CTTTA TTT- TATTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA -TTTA TTTA T-TTA TTTA
41425118 -TTA TTTTA TTT
1 TTTA -TTTA TTT
41425129 TTGGATGTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
3 6 0.13
4 29 0.62
5 12 0.26
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:41425095 original size:29 final size:31
Alignment explanation
Indices: 41425062--41425130 Score: 101
Period size: 29 Copynumber: 2.3 Consensus size: 31
41425052 GCAACCCAAT
41425062 TTTTATTTTTA-TTTA-TTTATTTATTTA-TA
1 TTTTATTTTTACTTTATTTTA-TTATTTATTA
41425091 TTTTA-TTTTACTTTATTTTATTATTTATTA
1 TTTTATTTTTACTTTATTTTATTATTTATTA
41425121 TTTTATTTTT
1 TTTTATTTTT
41425131 GGATGTTGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
28 5 0.14
29 16 0.44
30 11 0.31
31 4 0.11
ACGTcount: A:0.22, C:0.01, G:0.00, T:0.77
Consensus pattern (31 bp):
TTTTATTTTTACTTTATTTTATTATTTATTA
Found at i:41425097 original size:15 final size:15
Alignment explanation
Indices: 41425077--41425128 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
41425067 TTTTTATTTA
41425077 TTTATTTATTTATAT
1 TTTATTTATTTATAT
*
41425092 TTTATTTTACTT-TAT
1 TTTA-TTTATTTATAT
41425107 TTTA-TTATTTATTAT
1 TTTATTTATTTA-TAT
41425122 TTTATTT
1 TTTATTT
41425129 TTGGATGTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
13 5 0.16
15 18 0.58
16 8 0.26
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTATTTATTTATAT
Found at i:41428540 original size:20 final size:20
Alignment explanation
Indices: 41428515--41428552 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
41428505 ATTTTAGTAT
*
41428515 TTATTTTTATTTATCTTTAA
1 TTATTTGTATTTATCTTTAA
41428535 TTATTTGTATTTATCTTT
1 TTATTTGTATTTATCTTT
41428553 TGGAATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.71
Consensus pattern (20 bp):
TTATTTGTATTTATCTTTAA
Found at i:41431650 original size:19 final size:19
Alignment explanation
Indices: 41431607--41431650 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
41431597 TAGTTAGTAT
*
41431607 TTTAT-TATTTATTTAATA
1 TTTATATATTTATTTAAAA
41431625 TTTATATATTTA-TTAAAA
1 TTTATATATTTATTTAAAA
41431643 TTTCATAT
1 TTT-ATAT
41431651 TAAATTTTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTATATATTTATTTAAAA
Found at i:41434464 original size:25 final size:26
Alignment explanation
Indices: 41434406--41434465 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
41434396 TGCTTAAATG
41434406 TTAATGAATAATTATGTTAGTTATATC
1 TTAATG-ATAATTATGTTAGTTATATC
*
41434433 TTAAATGATTATTATG-T-GTTATATGC
1 TT-AATGATAATTATGTTAGTTATAT-C
41434459 TTAATGA
1 TTAATGA
41434466 GATTAAATGG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
25 12 0.40
26 4 0.13
27 10 0.33
28 4 0.13
ACGTcount: A:0.35, C:0.03, G:0.13, T:0.48
Consensus pattern (26 bp):
TTAATGATAATTATGTTAGTTATATC
Found at i:41434469 original size:27 final size:28
Alignment explanation
Indices: 41434406--41434470 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 28
41434396 TGCTTAAATG
*
41434406 TTAATGA-ATAATTATGTTAGTTATATC
1 TTAATGAGATTATTATGTTAGTTATATC
41434433 TTAA--ATGATTATTATG-T-GTTATATGC
1 TTAATGA-GATTATTATGTTAGTTATAT-C
41434459 TTAATGAGATTA
1 TTAATGAGATTA
41434471 AATGGTTATG
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
25 8 0.25
26 6 0.19
27 17 0.53
28 1 0.03
ACGTcount: A:0.35, C:0.03, G:0.14, T:0.48
Consensus pattern (28 bp):
TTAATGAGATTATTATGTTAGTTATATC
Found at i:41436112 original size:19 final size:18
Alignment explanation
Indices: 41436075--41436123 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
41436065 GTGACCCTTA
*
41436075 TTTCCAAAATTCTTCATTT
1 TTTCCAAAA-TATTCATTT
41436094 TTTCCAAAATATTCTATTT
1 TTTCCAAAATATTC-ATTT
*
41436113 TGTTTCAAAAT
1 T-TTCCAAAAT
41436124 GACCCTCGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 4 0.15
19 14 0.54
20 8 0.31
ACGTcount: A:0.31, C:0.16, G:0.02, T:0.51
Consensus pattern (18 bp):
TTTCCAAAATATTCATTT
Found at i:41446877 original size:37 final size:36
Alignment explanation
Indices: 41446801--41446895 Score: 106
Period size: 37 Copynumber: 2.6 Consensus size: 36
41446791 TGATGTGGCG
* *
41446801 TGTTATCAGTTGGATTAGCTATTTAGAGCATTTGTCA
1 TGTTATCGGTTGGATTAGCT-TGTAGAGCATTTGTCA
* *
41446838 TGTTATCGGTTGGATTAGCTTGTATGATCGTTTAG-CA
1 TGTTATCGGTTGGATTAGCTTGTA-GAGCATTT-GTCA
41446875 TGTT-TCGGTTGGATTA-CTTGT
1 TGTTATCGGTTGGATTAGCTTGT
41446896 GTACTCGTAT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
35 5 0.10
36 15 0.29
37 31 0.60
38 1 0.02
ACGTcount: A:0.19, C:0.11, G:0.25, T:0.45
Consensus pattern (36 bp):
TGTTATCGGTTGGATTAGCTTGTAGAGCATTTGTCA
Found at i:41448446 original size:42 final size:41
Alignment explanation
Indices: 41448328--41448482 Score: 168
Period size: 42 Copynumber: 3.7 Consensus size: 41
41448318 ATACCATACC
* * *
41448328 AATGCCATATCCCAGATATGGTCTTACATGTAATATCATATT
1 AATGCCATATCCCAGATATGGTCTTACACGAAATCTCATA-T
* * * * *
41448370 GATGCCAATAGCCTAGCTATGGTCTTACATGAAATCTCATAT
1 AATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATAT
**
41448412 CAACACCATATCCCAGATATGGTCTTACACGAAATCTCATA-
1 -AATGCCATATCCCAGATATGGTCTTACACGAAATCTCATAT
*
41448453 AGATGCCATATCCCACATATGGTCTTACAC
1 A-ATGCCATATCCCAGATATGGTCTTACAC
41448483 ATAGACTTAG
Statistics
Matches: 94, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
40 1 0.01
41 25 0.27
42 36 0.38
43 32 0.34
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.30
Consensus pattern (41 bp):
AATGCCATATCCCAGATATGGTCTTACACGAAATCTCATAT
Found at i:41457622 original size:26 final size:28
Alignment explanation
Indices: 41457565--41457627 Score: 94
Period size: 29 Copynumber: 2.3 Consensus size: 28
41457555 ATGTTACATG
*
41457565 TATTTGAAAAAAATTATATATTTTGGATT
1 TATTTGAAAAAAATTACATATTTTGGA-T
41457594 TATTTGAAAAAAATTACATATTTT-G-T
1 TATTTGAAAAAAATTACATATTTTGGAT
41457620 TATTTGAA
1 TATTTGAA
41457628 GATAATAATG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 9 0.27
28 1 0.03
29 23 0.70
ACGTcount: A:0.41, C:0.02, G:0.10, T:0.48
Consensus pattern (28 bp):
TATTTGAAAAAAATTACATATTTTGGAT
Found at i:41458817 original size:22 final size:23
Alignment explanation
Indices: 41458792--41458837 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
41458782 TAACCTATAC
41458792 TCATTACATT-AAAAAATTAAAT
1 TCATTACATTAAAAAAATTAAAT
41458814 TCATTACATTAAAAAAATTAAAT
1 TCATTACATTAAAAAAATTAAAT
41458837 T
1 T
41458838 TATCATTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (23 bp):
TCATTACATTAAAAAAATTAAAT
Found at i:41458882 original size:18 final size:18
Alignment explanation
Indices: 41458859--41458896 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
41458849 CAAAGACCTT
41458859 ATTTTAA-TTTATTTATAC
1 ATTTTAATTTTA-TTATAC
41458877 ATTTTAATTTTATTATAC
1 ATTTTAATTTTATTATAC
41458895 AT
1 AT
41458897 ATTTTATTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTTAATTTTATTATAC
Found at i:41459432 original size:2 final size:2
Alignment explanation
Indices: 41459425--41459469 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
41459415 ATTGTTGATT
* *
41459425 TA TA TA TA TA TA TA GA TA TA TA TA TA TA TA TC TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
41459467 TA T
1 TA T
41459470 TTAACTAGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:41460337 original size:22 final size:22
Alignment explanation
Indices: 41460307--41460383 Score: 75
Period size: 22 Copynumber: 3.4 Consensus size: 22
41460297 TTTATATAAA
41460307 ATAAAAATAAAAATATACCCTC
1 ATAAAAATAAAAATATACCCTC
* * * **
41460329 ATAATAATATAACT-TACTTTTTC
1 ATAAAAATAAAAATATAC--CCTC
41460352 TATAAAAATAAAAATATACCCTC
1 -ATAAAAATAAAAATATACCCTC
41460375 ATAAAAATA
1 ATAAAAATA
41460384 TAACTTACTT
Statistics
Matches: 41, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
21 3 0.07
22 20 0.49
23 4 0.10
24 11 0.27
25 3 0.07
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
ATAAAAATAAAAATATACCCTC
Found at i:41460374 original size:46 final size:46
Alignment explanation
Indices: 41460307--41460394 Score: 167
Period size: 46 Copynumber: 1.9 Consensus size: 46
41460297 TTTATATAAA
*
41460307 ATAAAAATAAAAATATACCCTCATAATAATATAACTTACTTTTTCT
1 ATAAAAATAAAAATATACCCTCATAAAAATATAACTTACTTTTTCT
41460353 ATAAAAATAAAAATATACCCTCATAAAAATATAACTTACTTT
1 ATAAAAATAAAAATATACCCTCATAAAAATATAACTTACTTT
41460395 GTATATAGGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (46 bp):
ATAAAAATAAAAATATACCCTCATAAAAATATAACTTACTTTTTCT
Found at i:41463757 original size:17 final size:16
Alignment explanation
Indices: 41463719--41463783 Score: 51
Period size: 17 Copynumber: 3.9 Consensus size: 16
41463709 ATTTTAAATC
*
41463719 ATATATTTTATTATTTA
1 ATATATATTATT-TTTA
*
41463736 TTATATATTATTTTTGA
1 ATATATATTATTTTT-A
*
41463753 ATATACATTTATATTTTA
1 ATATATA-TTAT-TTTTA
*
41463771 A-ATATATGATTTT
1 ATATATATTATTTT
41463784 CGCGTGTATA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
15 3 0.08
16 6 0.15
17 20 0.51
18 6 0.15
19 4 0.10
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (16 bp):
ATATATATTATTTTTA
Found at i:41464616 original size:50 final size:50
Alignment explanation
Indices: 41464562--41464661 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
41464552 TTAAGATGCA
*
41464562 TTATTAGGTTTTTAATATTCTGATTTTTCTTTTTTCTTTTTGTTGAATGT
1 TTATTAGGTTTTTAATATTCTGATTTTTCTTTTTTCTTTTTATTGAATGT
41464612 TTATTAGGTTTTTAATATTCTGATTTTTCTTTTTTCTTTTTATTGAATGT
1 TTATTAGGTTTTTAATATTCTGATTTTTCTTTTTTCTTTTTATTGAATGT
41464662 GAGAACTAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.17, C:0.06, G:0.11, T:0.66
Consensus pattern (50 bp):
TTATTAGGTTTTTAATATTCTGATTTTTCTTTTTTCTTTTTATTGAATGT
Found at i:41465222 original size:36 final size:36
Alignment explanation
Indices: 41465175--41465274 Score: 164
Period size: 36 Copynumber: 2.8 Consensus size: 36
41465165 AAAATGATCC
*
41465175 AACAAAATAAAACCGTCAAATTATCCATAGCATGTT
1 AACAAAATAAAACCATCAAATTATCCATAGCATGTT
*
41465211 AACAAAATAAAACCATCAAATTATCCATAGTATGTT
1 AACAAAATAAAACCATCAAATTATCCATAGCATGTT
* *
41465247 AACAAAATCAAACCATCAAATTTTCCAT
1 AACAAAATAAAACCATCAAATTATCCAT
41465275 CAATTAACCT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 60 1.00
ACGTcount: A:0.49, C:0.20, G:0.05, T:0.26
Consensus pattern (36 bp):
AACAAAATAAAACCATCAAATTATCCATAGCATGTT
Found at i:41465763 original size:24 final size:24
Alignment explanation
Indices: 41465736--41465785 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
41465726 GAGCTAATGT
*
41465736 AGCAAGAGCTGCT-GAAGCTGGTGG
1 AGCAAGAGCTACTCG-AGCTGGTGG
*
41465760 AGCAGGAGCTACTCGAGCTGGTGG
1 AGCAAGAGCTACTCGAGCTGGTGG
41465784 AG
1 AG
41465786 GCATACTATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 22 0.96
25 1 0.04
ACGTcount: A:0.24, C:0.18, G:0.42, T:0.16
Consensus pattern (24 bp):
AGCAAGAGCTACTCGAGCTGGTGG
Found at i:41468857 original size:20 final size:18
Alignment explanation
Indices: 41468810--41468858 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 18
41468800 CAAAATAAAC
41468810 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
**
41468827 ATTAAGCTAATCACTTTAAT
1 ATTAAATTAAT-A-TTTAAT
41468847 ATTAAATTAATA
1 ATTAAATTAATA
41468859 AAATACTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 8 0.32
19 2 0.08
20 15 0.60
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:41480114 original size:40 final size:40
Alignment explanation
Indices: 41480054--41480276 Score: 374
Period size: 40 Copynumber: 5.6 Consensus size: 40
41480044 CAAGCTCAAT
* * * * *
41480054 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
*
41480094 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
41480134 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
* *
41480174 TGCCTTCGGGTCTTAGCCCGTATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
41480214 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
41480254 TGCCTTCGGGTCTTAGCCCGGAT
1 TGCCTTCGGGTCTTAGCCCGGAT
41480277 GTATTCAAAT
Statistics
Matches: 172, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 172 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
Found at i:41481431 original size:13 final size:11
Alignment explanation
Indices: 41481402--41481426 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
41481392 CCTTAATTTA
41481402 ACATATAATTC
1 ACATATAATTC
41481413 ACATATAATTC
1 ACATATAATTC
41481424 ACA
1 ACA
41481427 CATATCACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (11 bp):
ACATATAATTC
Found at i:41490200 original size:40 final size:40
Alignment explanation
Indices: 41490140--41490362 Score: 365
Period size: 40 Copynumber: 5.6 Consensus size: 40
41490130 CAAGCTCAAT
* * * * *
41490140 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
*
41490180 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
*
41490220 TGCCTTCAGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
* *
41490260 TGCCTTCGGGTCTTAGCCCGTATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
41490300 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
41490340 TGCCTTCGGGTCTTAGCCCGGAT
1 TGCCTTCGGGTCTTAGCCCGGAT
41490363 GTATTCAAAT
Statistics
Matches: 170, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 170 1.00
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
Found at i:41491504 original size:21 final size:21
Alignment explanation
Indices: 41491478--41491520 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
41491468 CTTAGCAAAC
41491478 CTTAATTTAACATATAATTCA
1 CTTAATTTAACATATAATTCA
41491499 CTTAATTTAACATATAATTCA
1 CTTAATTTAACATATAATTCA
41491520 C
1 C
41491521 ACATATCACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (21 bp):
CTTAATTTAACATATAATTCA
Found at i:41495892 original size:33 final size:33
Alignment explanation
Indices: 41495850--41495920 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
41495840 GCCCAAAATG
* *
41495850 CTCATTTCATAGCTCAATTATGGCACCTTCTAA
1 CTCATTTCATAGCTCAATTATGGCACATTATAA
41495883 CTCATTTCATAGCTCAATTATGGCACATTATAA
1 CTCATTTCATAGCTCAATTATGGCACATTATAA
41495916 CTCAT
1 CTCAT
41495921 GCTGAAACTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (33 bp):
CTCATTTCATAGCTCAATTATGGCACATTATAA
Found at i:41496687 original size:42 final size:42
Alignment explanation
Indices: 41496593--41496700 Score: 112
Period size: 42 Copynumber: 2.5 Consensus size: 42
41496583 CAATGCCAAC
* * **
41496593 GTCCCAGAC-GTGGTCTTACATGTAATTCAGTATCGATGCCTCT
1 GTCCCAGACAG-GGTCTTACACG-AAATCAGTATCGATGCCGAT
* *
41496636 ATCCTAGACAGGGTCTTACACGAAATCAG-ATACGATGCCGAT
1 GTCCCAGACAGGGTCTTACACGAAATCAGTAT-CGATGCCGAT
*
41496678 GTCCCAGACATGGTCTTACACGA
1 GTCCCAGACAGGGTCTTACACGA
41496701 CATCTCAAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
41 2 0.04
42 34 0.63
43 17 0.31
44 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (42 bp):
GTCCCAGACAGGGTCTTACACGAAATCAGTATCGATGCCGAT
Found at i:41503391 original size:27 final size:27
Alignment explanation
Indices: 41503361--41503538 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
41503351 ATATTAAGTC
* * *
41503361 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
41503388 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
41503416 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
** * *
41503443 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
41503470 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
41503497 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
41503524 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
41503539 GTACAATTTA
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 105 0.80
28 26 0.20
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:41503445 original size:55 final size:54
Alignment explanation
Indices: 41503361--41503538 Score: 232
Period size: 54 Copynumber: 3.3 Consensus size: 54
41503351 ATATTAAGTC
* * *
41503361 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAA-T
* * * *
41503416 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
* ** *
41503470 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
41503524 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
41503539 GTACAATTTA
Statistics
Matches: 107, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.01
54 60 0.56
55 46 0.43
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:41503527 original size:81 final size:82
Alignment explanation
Indices: 41503382--41503537 Score: 235
Period size: 81 Copynumber: 1.9 Consensus size: 82
41503372 TGCTATATAA
* *
41503382 TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCTACATAGTCAACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
41503447 CACTTAGTGCCGCATGG
66 CACTTAGTGCCGCATGG
* * **
41503464 TCAATTCGCACACTTAGTG-CATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAATCGC
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGC
41503527 ACACTTAGTGC
65 ACACTTAGTGC
41503538 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 43 0.64
82 24 0.36
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (82 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
CACTTAGTGCCGCATGG
Found at i:41511503 original size:27 final size:27
Alignment explanation
Indices: 41511473--41511649 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
41511463 ATATTAAGTC
* * *
41511473 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
41511500 CGCACACTTAGTGC-ACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
41511527 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
** * *
41511554 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
41511581 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
41511608 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
41511635 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
41511650 GTACAATTTA
Statistics
Matches: 131, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
26 7 0.05
27 116 0.89
28 8 0.06
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:41511611 original size:81 final size:81
Alignment explanation
Indices: 41511494--41511648 Score: 240
Period size: 81 Copynumber: 1.9 Consensus size: 81
41511484 TGCTATATAA
* *
41511494 TCAACTCGCACACTTAGTGCACATAATCAAACTCGCACACTTAGTGCTACATAGTCAACTCGCAC
1 TCAACTCGCACACTTAGTGCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCAC
41511559 ACTTAGTGCCGCATGG
66 ACTTAGTGCCGCATGG
* * **
41511575 TCAATTCGCACACTTAGTGCATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCA-CATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
41511639 CACTTAGTGC
65 CACTTAGTGC
41511649 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
81 61 0.91
82 6 0.09
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:41513639 original size:27 final size:27
Alignment explanation
Indices: 41513471--41513911 Score: 155
Period size: 27 Copynumber: 16.3 Consensus size: 27
41513461 CCAATTATTG
* * *
41513471 AAATACCCTCGACTTGTAAAATTACCA
1 AAATACCCTCGATTTATAAAATTACTA
* * * * *
41513498 AAGTACCCCCGATTTACATAATTACCA
1 AAATACCCTCGATTTATAAAATTACTA
*** * * **
41513525 TTTTACCCTCAATTTATAGAATTACCG
1 AAATACCCTCGATTTATAAAATTACTA
*** * * *
41513552 TTTTACCCTTGATTTATAGAATTATTA
1 AAATACCCTCGATTTATAAAATTACTA
*** * * *
41513579 TTTTACCCTTGATTTACAGAATTACTA
1 AAATACCCTCGATTTATAAAATTACTA
*** *
41513606 TTTTACCCTCGATTTAAAAAATTACTA
1 AAATACCCTCGATTTATAAAATTACTA
* * * *
41513633 AAATACCCTTGGTTTACAAAATTACCA
1 AAATACCCTCGATTTATAAAATTACTA
* *
41513660 AAATACCCTCGA-TGAGTAAAATTACCA
1 AAATACCCTCGATTTA-TAAAATTACTA
* * * * *
41513687 AAATA-CCTTGGTCTGTAAAATTGCTA
1 AAATACCCTCGATTTATAAAATTACTA
* * *
41513713 AAATACCC-CTAGTTTGTAAAATTACCA
1 AAATACCCTCGA-TTTATAAAATTACTA
* * *
41513740 AAATACCC-CTAGTTTGTAAAATTACCA
1 AAATACCCTCGA-TTTATAAAATTACTA
* * * *
41513767 AAATACCACT-GGTTTGTGAAATTA-TCG
1 AAATACC-CTCGATTTATAAAATTACT-A
* * *
41513794 AAATACCCTCAATTTGTAAAATTACCA
1 AAATACCCTCGATTTATAAAATTACTA
* *
41513821 AAATCCCCT-GATTTACAAAATTAC-A
1 AAATACCCTCGATTTATAAAATTACTA
* *
41513846 GAAATACCCTTGACTTTCTAAAAATTA-TA
1 -AAATACCCTCGA-TTTAT-AAAATTACTA
* * * *
41513875 GTAATACCAT-TAGTTTACAAAATTACTA
1 -AAATACCCTCGA-TTTATAAAATTACTA
41513903 AAATACCCT
1 AAATACCCT
41513912 TGGTTTGTAG
Statistics
Matches: 326, Mismatches: 73, Indels: 30
0.76 0.17 0.07
Matches are distributed among these distances:
25 1 0.00
26 42 0.13
27 257 0.79
28 10 0.03
29 16 0.05
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.33
Consensus pattern (27 bp):
AAATACCCTCGATTTATAAAATTACTA
Found at i:41513656 original size:81 final size:81
Alignment explanation
Indices: 41513508--41513656 Score: 181
Period size: 81 Copynumber: 1.8 Consensus size: 81
41513498 AAGTACCCCC
* * * **** * *
41513508 GATTTACATAATTACCATTTTACCCTCAATTTATAGAATTACCGTTTTACCCTTGATTTATAGAA
1 GATTTACAGAATTACCATTTTACCCTCAATTTAAAAAATTACCAAAATACCCTTGATTTACAAAA
41513573 TTATTATTTTACCCTT
66 TTATTATTTTACCCTT
* * * *
41513589 GATTTACAGAATTACTATTTTACCCTCGATTTAAAAAATTACTAAAATACCCTTGGTTTACAAAA
1 GATTTACAGAATTACCATTTTACCCTCAATTTAAAAAATTACCAAAATACCCTTGATTTACAAAA
41513654 TTA
66 TTA
41513657 CCAAAATACC
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
81 55 1.00
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.42
Consensus pattern (81 bp):
GATTTACAGAATTACCATTTTACCCTCAATTTAAAAAATTACCAAAATACCCTTGATTTACAAAA
TTATTATTTTACCCTT
Found at i:41513667 original size:54 final size:53
Alignment explanation
Indices: 41513609--41513938 Score: 197
Period size: 54 Copynumber: 6.1 Consensus size: 53
41513599 ATTACTATTT
* *
41513609 TACCCTCGATTTAAAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCT-GATTTATAAAATTACTAAAATACCCTTGGTTTGCAAAATTACCAAAA
* * * * * *
41513663 TACCCTCGA-TGAGTAAAATTACCAAAATA-CCTTGGTCTGTAAAATTGCTAAAA
1 TACCCT-GATTTA-TAAAATTACTAAAATACCCTTGGTTTGCAAAATTACCAAAA
* * * * *
41513716 TACCCCT-AGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAA
1 TA-CCCTGA-TTTATAAAATTACTAAAATACCCTTGGTTTGCAAAATTACCAAAA
* * * * *** *
41513770 TACCACTGGTTTGTGAAATTA-TCGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACC-CTGATTTATAAAATTACT-AAAATACCCTTGGTTTGCAAAATTACCAAAA
* * * * *
41513824 TCCCCTGATTTACAAAATTAC-AGAAATACCCTTGACTTT-CTAAAAATTA-TAGTAA
1 TACCCTGATTTATAAAATTACTA-AAATACCCTTG-GTTTGC--AAAATTACCA-AAA
* * * * * *
41513879 TACCATTAGTTTACAAAATTACTAAAATACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTGA-TTTATAAAATTACTAAAATACCCTTGGTTTGCAAAATTACCAAAA
*
41513933 CACCCT
1 TACCCT
41513939 TGTAGAGTGA
Statistics
Matches: 213, Mismatches: 45, Indels: 36
0.72 0.15 0.12
Matches are distributed among these distances:
52 1 0.00
53 62 0.29
54 107 0.50
55 18 0.08
56 24 0.11
57 1 0.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (53 bp):
TACCCTGATTTATAAAATTACTAAAATACCCTTGGTTTGCAAAATTACCAAAA
Found at i:41513715 original size:26 final size:27
Alignment explanation
Indices: 41513623--41513854 Score: 197
Period size: 27 Copynumber: 8.7 Consensus size: 27
41513613 CTCGATTTAA
* * * **
41513623 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTAGTTTGT
* **
41513650 AAAATTACCAAAATA-CCCTCGATGAGT
1 AAAATTACCAAAATACCCCTAG-TTTGT
* * *
41513677 AAAATTACCAAAATA-CCTTGGTCTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* *
41513703 AAAATTGCTAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
41513730 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* *
41513757 AAAATTACCAAAATACCACTGGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* * * *
41513784 GAAATTATCGAAATA-CCCTCAATTTGT
1 AAAATTACCAAAATACCCCT-AGTTTGT
**
41513811 AAAATTACCAAAAT-CCCCT-GATTTAC
1 AAAATTACCAAAATACCCCTAG-TTTGT
41513837 AAAATTA-CAGAAATACCC
1 AAAATTACCA-AAATACCC
41513855 TTGACTTTCT
Statistics
Matches: 166, Mismatches: 32, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
25 2 0.01
26 37 0.22
27 127 0.77
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAGTTTGT
Found at i:41513734 original size:80 final size:81
Alignment explanation
Indices: 41513623--41513829 Score: 224
Period size: 80 Copynumber: 2.6 Consensus size: 81
41513613 CTCGATTTAA
* * **
41513623 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGA-TGAGTAAAATTACCA
1 AAAATT-CTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTCGAGTGAGTAAAATTACCA
*
41513687 AAATACC-TTGGTCTGT
65 AAATACCACTGGTCTGT
* **
41513703 AAAATTGCTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCC-CTAGTTTGTAAAATTACCA
1 AAAATT-CTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTCGAGTGAGTAAAATTACCA
*
41513767 AAATACCACTGGTTTGT
65 AAATACCACTGGTCTGT
* * * * *
41513784 GAAATTATCGAAATA-CCCTCAATTTGTAAAATTACCAAAATCCCCT
1 AAAATTCT-AAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCT
41513830 GATTTACAAA
Statistics
Matches: 107, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
79 2 0.02
80 65 0.61
81 40 0.37
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (81 bp):
AAAATTCTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTCGAGTGAGTAAAATTACCAA
AATACCACTGGTCTGT
Found at i:41513841 original size:80 final size:79
Alignment explanation
Indices: 41513623--41513855 Score: 215
Period size: 80 Copynumber: 2.9 Consensus size: 79
41513613 CTCGATTTAA
* * ** ** * *
41513623 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGA-TGAGTAAAATTACCA
1 AAAATTGCTAAAATACCCCTAATTTGTAAAATTACCAAAATCCCCT-GATTTA-TAAAATTACCA
*
41513687 AAATACCTTGGTCTGT
64 AAATACCCTGGTCTGT
* *
41513703 AAAATTGCTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCA
1 AAAATTGCTAAAATACCCCTAATTTGTAAAATTACCAAAAT-CCCCTGA-TTTATAAAATTACCA
*
41513767 AAATACCACTGGTTTGT
64 AAATACC-CTGGTCTGT
* * * *
41513784 GAAATT-ATCGAAATA-CCCTCAATTTGTAAAATTACCAAAATCCCCTGATTTACAAAATTA-CA
1 AAAATTGCT-AAAATACCCCT-AATTTGTAAAATTACCAAAATCCCCTGATTTATAAAATTACCA
41513846 GAAATACCCT
64 -AAATACCCT
41513856 TGACTTTCTA
Statistics
Matches: 129, Mismatches: 16, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
79 5 0.04
80 81 0.63
81 43 0.33
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (79 bp):
AAAATTGCTAAAATACCCCTAATTTGTAAAATTACCAAAATCCCCTGATTTATAAAATTACCAAA
ATACCCTGGTCTGT
Found at i:41513917 original size:27 final size:27
Alignment explanation
Indices: 41513555--41513940 Score: 174
Period size: 27 Copynumber: 14.3 Consensus size: 27
41513545 ATTACCGTTT
* * * ***
41513555 TACCCTTGATTTATAGAATTATTATTT
1 TACCCTTGGTTTATAAAATTACTAAAA
* * * ***
41513582 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTTGGTTTATAAAATTACTAAAA
* * *
41513609 TACCCTCGATTTAAAAAATTACTAAAA
1 TACCCTTGGTTTATAAAATTACTAAAA
* *
41513636 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACTAAAA
* * * *
41513663 TACCC-TCGATGAGTAAAATTACCAAAA
1 TACCCTTGGTTTA-TAAAATTACTAAAA
* * *
41513690 TA-CCTTGGTCTGTAAAATTGCTAAAA
1 TACCCTTGGTTTATAAAATTACTAAAA
* * * *
41513716 TACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACTAAAA
* * * *
41513743 TACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACTAAAA
* * *
41513770 TACCAC-TGGTTTGTGAAATTA-TCGAAA
1 TACC-CTTGGTTTATAAAATTACT-AAAA
*** * *
41513797 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACTAAAA
* * *
41513824 T-CCCCTGATTTACAAAATTAC-AGAAA
1 TACCCTTGGTTTATAAAATTACTA-AAA
* * *
41513850 TACCCTTGACTTTCTAAAAATTA-TAGTAA
1 TACCCTTG-GTTTAT-AAAATTACTA-AAA
* * *
41513879 TACCATTAGTTTACAAAATTACTAAAA
1 TACCCTTGGTTTATAAAATTACTAAAA
* * * *
41513906 TACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTTGGTTTATAAAATTACTAAAA
*
41513933 CACCCTTG
1 TACCCTTG
41513941 TAGAGTGAAA
Statistics
Matches: 284, Mismatches: 62, Indels: 26
0.76 0.17 0.07
Matches are distributed among these distances:
25 1 0.00
26 40 0.14
27 217 0.76
28 9 0.03
29 17 0.06
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.33
Consensus pattern (27 bp):
TACCCTTGGTTTATAAAATTACTAAAA
Found at i:41514009 original size:27 final size:27
Alignment explanation
Indices: 41513979--41514062 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
41513969 TAGGTAAAAA
*
41513979 GACCGTAAAGCCCTTGTAGGGTAAAGT
1 GACCGTAAAGCCCCTGTAGGGTAAAGT
41514006 GACCGTAAAGCCCCTGTAGGGTAAAGT
1 GACCGTAAAGCCCCTGTAGGGTAAAGT
* *
41514033 GACCGTAATA-CCCCTGTATGGTAAAAT
1 GACCGTAA-AGCCCCTGTAGGGTAAAGT
41514060 GAC
1 GAC
41514063 GAATATGCCC
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
27 52 0.98
28 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.21
Consensus pattern (27 bp):
GACCGTAAAGCCCCTGTAGGGTAAAGT
Found at i:41514953 original size:24 final size:25
Alignment explanation
Indices: 41514871--41514960 Score: 155
Period size: 25 Copynumber: 3.6 Consensus size: 25
41514861 AGGAAGTGCT
*
41514871 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
41514896 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
41514921 AAAAGGGCTTTGCCCCAGTTTATC-
1 AAAAGGGCTTTGCCCCAGTTTACCG
41514945 AAAAGGGCTTTGCCCC
1 AAAAGGGCTTTGCCCC
41514961 GGTTATTAAT
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
24 16 0.25
25 47 0.75
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:41515216 original size:31 final size:31
Alignment explanation
Indices: 41515182--41515352 Score: 243
Period size: 31 Copynumber: 5.5 Consensus size: 31
41515172 GTTTATAGTA
* *
41515182 AAGGCTTCGGCCCAGTGATATGATTTATTAA
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
*
41515213 AAGGCTTCGGCCCAGAGATATGATTTATGAT
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
* * *
41515244 AAGGCCTCGACCTAGTGATATGATTTATGAT
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
* *
41515275 AAGGCTTTGGCCTAGTGATATGATTTATGAT
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
* **
41515306 AAGGCTTCGACCCAGTGATATGAGATATGAT
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
41515337 AAGGCTTCGGCCCAGT
1 AAGGCTTCGGCCCAGT
41515353 AACCGTTAAA
Statistics
Matches: 124, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 124 1.00
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.30
Consensus pattern (31 bp):
AAGGCTTCGGCCCAGTGATATGATTTATGAT
Found at i:41519168 original size:42 final size:42
Alignment explanation
Indices: 41519066--41519181 Score: 128
Period size: 42 Copynumber: 2.7 Consensus size: 42
41519056 AACGGGTACA
* * *
41519066 ATGCCGACGTCCCAGAC-GTGGTCTTACATGTAATTCAGTACCG
1 ATGCCGATGTCCCAGACAG-GGTCTTACACG-AAATCAGTACCG
**
41519109 ATGCCTCTGTCCCAGACAGGGTCTTACACGAAATCAGATA-CG
1 ATGCCGATGTCCCAGACAGGGTCTTACACGAAATCAG-TACCG
* *
41519151 ATGCCGATGTCCTAGACATGGTCTTACACGA
1 ATGCCGATGTCCCAGACAGGGTCTTACACGA
41519182 CATCTCAGAT
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
42 35 0.56
43 26 0.42
44 1 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (42 bp):
ATGCCGATGTCCCAGACAGGGTCTTACACGAAATCAGTACCG
Found at i:41524385 original size:20 final size:20
Alignment explanation
Indices: 41524360--41524399 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
41524350 AATATTTTCC
*
41524360 AGTAAACCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
41524380 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
41524400 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.15, G:0.10, T:0.25
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:41524406 original size:14 final size:14
Alignment explanation
Indices: 41524383--41524422 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
41524373 ACAGAAAAGT
*
41524383 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
41524397 AAATCATTTTACGG
1 AAAACATTTTACAG
41524411 AAAACATTTTAC
1 AAAACATTTTAC
41524423 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:41524414 original size:34 final size:35
Alignment explanation
Indices: 41524348--41524414 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
41524338 CAAACACCAG
*
41524348 AAAATATTTTCCAGTAAACCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAACCATTTTACAGAAAAGT
* *
41524383 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAACCATTTTACAGAAAA
41524415 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.46, C:0.15, G:0.09, T:0.30
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAACCATTTTACAGAAAAGT
Found at i:41524643 original size:15 final size:15
Alignment explanation
Indices: 41524623--41524652 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
41524613 CTATACATGC
*
41524623 AAAATATAAAAGACA
1 AAAATACAAAAGACA
41524638 AAAATACAAAAGACA
1 AAAATACAAAAGACA
41524653 TAACAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.73, C:0.10, G:0.07, T:0.10
Consensus pattern (15 bp):
AAAATACAAAAGACA
Found at i:41525050 original size:9 final size:9
Alignment explanation
Indices: 41525028--41525228 Score: 63
Period size: 9 Copynumber: 22.7 Consensus size: 9
41525018 AACAGTAATA
41525028 AACATAACAT
1 AACAT-ACAT
41525038 -ACATACAT
1 AACATACAT
41525046 AACATAC-T
1 AACATACAT
41525054 AACGGACATACAT
1 -A---ACATACAT
*
41525067 AA-ATA-GT
1 AACATACAT
* *
41525074 AATAAACAT
1 AACATACAT
*
41525083 AACATAAAT
1 AACATACAT
* *
41525092 AATATTCA-
1 AACATACAT
41525100 AACATAACAT
1 AACAT-ACAT
41525110 -AC-TA-AT
1 AACATACAT
41525116 AGACATACAT
1 A-ACATACAT
*
41525126 -ACATAAAT
1 AACATACAT
41525134 -ACATAAACAGT
1 AACAT--ACA-T
* *
41525145 AATATTCAT
1 AACATACAT
41525154 AACATACAT
1 AACATACAT
*
41525163 AACAAACAT
1 AACATACAT
*
41525172 ATCATAACAT
1 AACAT-ACAT
41525182 -ACATAACA-
1 AACAT-ACAT
*
41525190 AGCATACAT
1 AACATACAT
*
41525199 AA-ACA-AT
1 AACATACAT
*
41525206 AATATACAT
1 AACATACAT
41525215 AACATACAT
1 AACATACAT
41525224 -ACATA
1 AACATA
41525229 ACAGATTGAC
Statistics
Matches: 142, Mismatches: 26, Indels: 48
0.66 0.12 0.22
Matches are distributed among these distances:
6 2 0.01
7 8 0.06
8 40 0.28
9 70 0.49
10 10 0.07
11 1 0.01
12 10 0.07
13 1 0.01
ACGTcount: A:0.56, C:0.18, G:0.03, T:0.23
Consensus pattern (9 bp):
AACATACAT
Found at i:41525087 original size:21 final size:22
Alignment explanation
Indices: 41525059--41525229 Score: 83
Period size: 21 Copynumber: 7.8 Consensus size: 22
41525049 ATACTAACGG
*
41525059 ACAT-ACATAAATAGTAAT-AA
1 ACATAACATAAATAATAATCAA
*
41525079 ACATAACATAAATAATATTCAA
1 ACATAACATAAATAATAATCAA
* *
41525101 ACATAACAT-ACTAATAGA-CAT
1 ACATAACATAAATAATA-ATCAA
* *
41525122 ACAT-ACATAAATACATAAACAGT
1 ACATAACATAAATA-ATAATCA-A
*
41525145 A-ATATTCATAACATACATAA-CAA
1 ACATA-ACATAA-ATA-ATAATCAA
*
41525168 ACATATCATAACATACATAA-CAA
1 ACATAACATAA-ATA-ATAATCAA
* * *
41525191 GCAT-ACATAAACAATAAT-AT
1 ACATAACATAAATAATAATCAA
*
41525211 ACATAACATACATACATAA
1 ACATAACATAAATA-ATAA
41525230 CAGATTGACC
Statistics
Matches: 122, Mismatches: 15, Indels: 26
0.75 0.09 0.16
Matches are distributed among these distances:
20 16 0.13
21 37 0.30
22 27 0.22
23 24 0.20
24 10 0.08
25 8 0.07
ACGTcount: A:0.57, C:0.17, G:0.02, T:0.24
Consensus pattern (22 bp):
ACATAACATAAATAATAATCAA
Found at i:41525179 original size:14 final size:13
Alignment explanation
Indices: 41525154--41525231 Score: 65
Period size: 13 Copynumber: 6.0 Consensus size: 13
41525144 TAATATTCAT
41525154 AACATACATAACA
1 AACATACATAACA
41525167 AACAT--AT--CA
1 AACATACATAACA
41525176 TAACATACATAACA
1 -AACATACATAACA
*
41525190 AGCATACATAAACAA
1 AACATACAT-AAC-A
*
41525205 TAATATACATAACA
1 -AACATACATAACA
*
41525219 TACATACATAACA
1 AACATACATAACA
41525232 GATTGACCTT
Statistics
Matches: 52, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
9 2 0.04
10 5 0.10
11 2 0.04
12 2 0.04
13 24 0.46
14 6 0.12
15 4 0.08
16 7 0.13
ACGTcount: A:0.58, C:0.21, G:0.01, T:0.21
Consensus pattern (13 bp):
AACATACATAACA
Found at i:41525216 original size:77 final size:71
Alignment explanation
Indices: 41525061--41525199 Score: 163
Period size: 71 Copynumber: 1.9 Consensus size: 71
41525051 ACTAACGGAC
* * ** *
41525061 ATACATAAATAGTAATAAACATAACATAAATAATATTCAAACATAACATACTAATAGACATACAT
1 ATACATAAACAGTAATAAACATAACATAAATAACAAACAAACATAACATACTAAAAGACATACAT
41525126 ACATAA
66 ACATAA
** * *
41525132 ATACATAAACAGTAATATTCATAACATACATAACAAACATATCATAACATACATAACAAG-CATA
1 ATACATAAACAGTAATAAACATAACATAAATAACAAACA-AACATAACATAC-TAA-AAGACATA
41525196 CATA
63 CATA
41525200 AACAATAATA
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
71 32 0.57
72 11 0.20
73 11 0.20
74 2 0.04
ACGTcount: A:0.56, C:0.17, G:0.03, T:0.24
Consensus pattern (71 bp):
ATACATAAACAGTAATAAACATAACATAAATAACAAACAAACATAACATACTAAAAGACATACAT
ACATAA
Found at i:41528619 original size:22 final size:24
Alignment explanation
Indices: 41528576--41528619 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
41528566 CGATAATATG
41528576 TTTTGATATAACAAATTAAAGTGT
1 TTTTGATATAACAAATTAAAGTGT
*
41528600 TTTTGA-ATAA-AAGTTAAAGT
1 TTTTGATATAACAAATTAAAGT
41528620 TGAACAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.43, C:0.02, G:0.14, T:0.41
Consensus pattern (24 bp):
TTTTGATATAACAAATTAAAGTGT
Found at i:41528840 original size:21 final size:21
Alignment explanation
Indices: 41528814--41528855 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
41528804 CAAACAATGA
* * *
41528814 CAAAAAGTATTGATATCTTTT
1 CAAAAAATATCGATACCTTTT
41528835 CAAAAAATATCGATACCTTTT
1 CAAAAAATATCGATACCTTTT
41528856 ACCAGGTATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.38
Consensus pattern (21 bp):
CAAAAAATATCGATACCTTTT
Found at i:41530277 original size:20 final size:21
Alignment explanation
Indices: 41530248--41530291 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
41530238 TTCGTTCGAG
* *
41530248 CAACGCCAGC-CACTGGCCCA
1 CAACGCCAGCGCAATGGACCA
*
41530268 CAACGGCAGCGCAATGGACCA
1 CAACGCCAGCGCAATGGACCA
41530289 CAA
1 CAA
41530292 TGCCGGACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.32, C:0.41, G:0.23, T:0.05
Consensus pattern (21 bp):
CAACGCCAGCGCAATGGACCA
Found at i:41531345 original size:22 final size:20
Alignment explanation
Indices: 41531319--41531361 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
41531309 ACTTTATGTG
*
41531319 TTATTCATTTTAAATCATTTTA
1 TTATTCACTTTAAA--ATTTTA
*
41531341 TTATTTACTTTAAAATTTTA
1 TTATTCACTTTAAAATTTTA
41531361 T
1 T
41531362 ATCTATTATC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
22 12 0.63
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (20 bp):
TTATTCACTTTAAAATTTTA
Found at i:41541248 original size:93 final size:93
Alignment explanation
Indices: 41541133--41541304 Score: 245
Period size: 93 Copynumber: 1.8 Consensus size: 93
41541123 GCCCATAAGT
* *** * * * *
41541133 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGTATCCTTAAGTTAACTCAGACTCAACTGAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
41541198 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
41541226 GAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
41541291 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
41541305 CAAATATCCT
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:41541288 original size:46 final size:45
Alignment explanation
Indices: 41541125--41541300 Score: 149
Period size: 46 Copynumber: 3.8 Consensus size: 45
41541115 TGTAACCCGC
** *
41541125 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGAATTCGCAT
* * * * *
41541171 CCTTAAGTTAACTCAGACTCAACTGAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAATTCGC-A--T
* *** * *
41541217 ACATCTCTCGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGA-ATTCGCAT
*
41541264 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
41541301 TGCCCAAATA
Statistics
Matches: 100, Mismatches: 23, Indels: 14
0.73 0.17 0.10
Matches are distributed among these distances:
44 3 0.03
45 2 0.02
46 62 0.62
47 28 0.28
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAATTCGCAT
Found at i:41544449 original size:79 final size:81
Alignment explanation
Indices: 41544313--41544497 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
41544303 TTGAATGATG
* * *
41544313 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGCGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
41544377 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
41544392 TTCCGGGCTAAG-CCCGAAGGCATTTGCGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGCGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
41544454 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
41544472 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
41544498 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 32 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGCGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:41544504 original size:40 final size:39
Alignment explanation
Indices: 41544314--41544497 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
41544304 TGAATGATGT
* * * *
41544314 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* * *
41544354 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
41544394 CCGGGCTAAG-CCCGAAGGCATTTGCGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
41544432 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
41544473 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
41544498 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
39 34 0.28
40 78 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:41544519 original size:79 final size:79
Alignment explanation
Indices: 41544366--41544530 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
41544356 GGACTAAGAT
* * **
41544366 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGCGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
41544431 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
41544445 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
41544508 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
41544524 CCGAAGG
1 CCGAAGG
41544531 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:41552323 original size:40 final size:38
Alignment explanation
Indices: 41552239--41552418 Score: 177
Period size: 40 Copynumber: 4.6 Consensus size: 38
41552229 TTGAATGATG
* * * * *
41552239 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTGTGC-GAGTTACTAAA
* * *
41552279 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCA-TTGTGCGAGTTACTAAA
41552319 TCCGGGCTAAG-CCGAAGGCATT-TGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTGTGCGAGTTACTAAA
*
41552355 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGC-ATTGTGCGAGTTACTA-AA
*
41552396 -CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGT-CCGAAGGCATT
41552419 TGAACGAGTA
Statistics
Matches: 119, Mismatches: 14, Indels: 15
0.80 0.09 0.10
Matches are distributed among these distances:
36 22 0.18
37 2 0.02
38 17 0.14
39 6 0.05
40 63 0.53
41 9 0.08
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (38 bp):
TCCGGGCTAAGTCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:41557239 original size:88 final size:87
Alignment explanation
Indices: 41557083--41557321 Score: 293
Period size: 88 Copynumber: 2.7 Consensus size: 87
41557073 TCACCAAGCC
* * * * *
41557083 TTAACCCCCTAAACAGTAGGGTAACAGGTTGAATTTACAGATCGTAACCCCCTAAGCAGTAGGGA
1 TTAACCCCCTAAGCAGTAGGGTAACAAGCTGAATTCACAGATCGTAACACCCTAAGCAGTAGGGA
* *
41557148 AACAGATCGAACG-CGACGAGCT
66 AACAGATC-AAAGACAACGAGCT
* * *
41557170 TTAACCCCCTAAGCAGTAGGGTAACAAGCTGAAGTTCATAGATCTTATCACCCTAAGCAGTAGGG
1 TTAACCCCCTAAGCAGTAGGGTAACAAGCTGAA-TTCACAGATCGTAACACCCTAAGCAGTAGGG
* *
41557235 AAACAGATCAAAGATAATGAGCT
65 AAACAGATCAAAGACAACGAGCT
** * *
41557258 TTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAGACCGTAA-ACCCCTAAGCAGTAGGG
1 TTAACCCCCTAAGCAGTAGGGTAACAAGCTGAATTCACAGATCGTAACA-CCCTAAGCAGTAGGG
41557322 TAATAGTCTG
Statistics
Matches: 130, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
86 1 0.01
87 57 0.44
88 72 0.55
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.19
Consensus pattern (87 bp):
TTAACCCCCTAAGCAGTAGGGTAACAAGCTGAATTCACAGATCGTAACACCCTAAGCAGTAGGGA
AACAGATCAAAGACAACGAGCT
Found at i:41557308 original size:44 final size:44
Alignment explanation
Indices: 41557083--41557324 Score: 154
Period size: 44 Copynumber: 5.5 Consensus size: 44
41557073 TCACCAAGCC
* * *** *
41557083 TTAACCCCCTAAACAGTAGGGTAACAGGTTGAATTTACAGATCG
1 TTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAGAGCG
* * * **** *
41557127 -TAACCCCCTAAGCAGTAGGGAAACAGATCGAACGCGAC-GAGCT
1 TTAACCCCCTAAGCAGTAGGGTAACA-AGCCAAATTTACAGAGCG
* * * * *
41557170 TTAACCCCCTAAGCAGTAGGGTAACAAGCTGAAGTTCATAGATC-
1 TTAACCCCCTAAGCAGTAGGGTAACAAGC-CAAATTTACAGAGCG
* * * * ** *
41557214 TTATCACCCTAAGCAGTAGGGAAAC-AGATCAAAGATA-ATGAGCT
1 TTAACCCCCTAAGCAGTAGGGTAACAAG-CCAAATTTACA-GAGCG
*
41557258 TTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAGACCG
1 TTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAGAGCG
*
41557302 -TAAACCCCTAAGCAGTAGGGTAA
1 TTAACCCCCTAAGCAGTAGGGTAA
41557325 TAGTCTGAAA
Statistics
Matches: 149, Mismatches: 40, Indels: 19
0.72 0.19 0.09
Matches are distributed among these distances:
42 1 0.01
43 58 0.39
44 84 0.56
45 6 0.04
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.19
Consensus pattern (44 bp):
TTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAGAGCG
Found at i:41559650 original size:22 final size:20
Alignment explanation
Indices: 41559624--41559666 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
41559614 ACTTTTTGTG
*
41559624 TTATTCATTTTAAATCATTTTA
1 TTATTCACTTTAAA--ATTTTA
*
41559646 TTATTTACTTTAAAATTTTA
1 TTATTCACTTTAAAATTTTA
41559666 T
1 T
41559667 ATCTATTATC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
22 12 0.63
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (20 bp):
TTATTCACTTTAAAATTTTA
Found at i:41561934 original size:16 final size:16
Alignment explanation
Indices: 41561915--41561946 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
41561905 AATTGTTTTA
41561915 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
41561931 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
41561947 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:41562202 original size:50 final size:50
Alignment explanation
Indices: 41562143--41562315 Score: 206
Period size: 50 Copynumber: 3.4 Consensus size: 50
41562133 TATGTATTTT
* *
41562143 CACTTAGTACTACACATGTGACCTATCAATCTGGTACACGTAGTAGCCTA
1 CACTTAGTACTACACACGTGACCTATCAATCTGGTACACGTAGTAGCCTG
** * * *
41562193 CACTTAGTACTACACACGTGATCGAAGTTAA-C-GAGTACGCATAGTAGCCTG
1 CACTTAGTACTACACACGTGA-CCTA-TCAATCTG-GTACACGTAGTAGCCTG
* * * *
41562244 CACTTAGTACTACACATGCGACCTATCAATTTGGTACATGTAGTAGCCTG
1 CACTTAGTACTACACACGTGACCTATCAATCTGGTACACGTAGTAGCCTG
41562294 CACTTAGTACTACACACGTGAC
1 CACTTAGTACTACACACGTGAC
41562316 GCACAACGAA
Statistics
Matches: 100, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
49 3 0.03
50 57 0.57
51 37 0.37
52 3 0.03
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (50 bp):
CACTTAGTACTACACACGTGACCTATCAATCTGGTACACGTAGTAGCCTG
Found at i:41562692 original size:19 final size:20
Alignment explanation
Indices: 41562664--41562710 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
41562654 AAGAACAGGT
41562664 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
41562685 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
41562704 TATATAT
1 TATATAT
41562711 ACTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:41573981 original size:40 final size:40
Alignment explanation
Indices: 41573935--41574138 Score: 268
Period size: 40 Copynumber: 5.1 Consensus size: 40
41573925 CGGTATTTAA
* * *
41573935 CCGGATATAGCT-ACTCGCTCGAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
41573975 CCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTGGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * **
41574015 CCTGATATAGTAACTCGTACAAATATCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
41574055 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
41574095 CCGGA-ACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
41574135 CCGG
1 CCGG
41574139 TTATCATCCA
Statistics
Matches: 145, Mismatches: 17, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 143 0.99
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:41575399 original size:11 final size:10
Alignment explanation
Indices: 41575369--41575409 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
41575359 ACATGAGAGC
41575369 CTTTCTTTTT
1 CTTTCTTTTT
*
41575379 TTTTCTTTTT
1 CTTTCTTTTT
41575389 CTTTCTCTTTT
1 CTTTCT-TTTT
41575400 CTTT-TTTTT
1 CTTTCTTTTT
41575409 C
1 C
41575410 ATCATCATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 5 0.18
10 15 0.54
11 8 0.29
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (10 bp):
CTTTCTTTTT
Found at i:41604173 original size:7 final size:8
Alignment explanation
Indices: 41604159--41604186 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
41604149 ATTCCCACTT
41604159 TAAAAAAA
1 TAAAAAAA
41604167 TAAAAAAA
1 TAAAAAAA
41604175 TAAAAAAA
1 TAAAAAAA
41604183 TAAA
1 TAAA
41604187 GCAAAAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (8 bp):
TAAAAAAA
Found at i:41605361 original size:23 final size:22
Alignment explanation
Indices: 41605320--41605365 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
41605310 GTTGTTTCAC
**
41605320 TAAAGTACATTAAAGTTGAATAA
1 TAAAGTACAAGAAAGTTG-ATAA
*
41605343 TAAAGTACAAGAAATTTGATAA
1 TAAAGTACAAGAAAGTTGATAA
41605365 T
1 T
41605366 TAGTGAAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.52, C:0.04, G:0.13, T:0.30
Consensus pattern (22 bp):
TAAAGTACAAGAAAGTTGATAA
Found at i:41616069 original size:20 final size:20
Alignment explanation
Indices: 41616026--41616071 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
41616016 ACTGTTTTGT
*
41616026 TATGGG-CCAACTGTATTGA
1 TATGGGCCCAACTGTATTAA
* *
41616045 GATGGGCCCAACTGTGTTAA
1 TATGGGCCCAACTGTATTAA
41616065 TATGGGC
1 TATGGGC
41616072 AAGGCCCAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.28
Consensus pattern (20 bp):
TATGGGCCCAACTGTATTAA
Found at i:41618562 original size:2 final size:2
Alignment explanation
Indices: 41618555--41618587 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
41618545 AGTTTCTATA
41618555 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
41618588 TTTACTTTCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:41618733 original size:34 final size:34
Alignment explanation
Indices: 41618694--41618761 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
41618684 ATAGCGGAGA
41618694 ACACCATTCATTGAAAGCCAAGAACATCTAGGAT
1 ACACCATTCATTGAAAGCCAAGAACATCTAGGAT
41618728 ACACCATTCATTGAAAGCCAAGAACATCTAGGAT
1 ACACCATTCATTGAAAGCCAAGAACATCTAGGAT
41618762 CCATCTAGCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.24, G:0.15, T:0.21
Consensus pattern (34 bp):
ACACCATTCATTGAAAGCCAAGAACATCTAGGAT
Found at i:41625082 original size:26 final size:26
Alignment explanation
Indices: 41625046--41625157 Score: 140
Period size: 26 Copynumber: 4.3 Consensus size: 26
41625036 CATTAGGGCA
41625046 TAGTAGGCTTT-ATGCCGGTGTATATT
1 TAGTAGGCTTTGA-GCCGGTGTATATT
*
41625072 TAGTAGGCTTTGAGCCAGTGTATATT
1 TAGTAGGCTTTGAGCCGGTGTATATT
* *
41625098 CAGTAAGCTTTGAGCCGGTGTATATT
1 TAGTAGGCTTTGAGCCGGTGTATATT
*
41625124 TAGTAGGCTTT-ATGCCGGTGT-TGTAT
1 TAGTAGGCTTTGA-GCCGGTGTATAT-T
41625150 TAGTAGGC
1 TAGTAGGC
41625158 ACTCTTTGTT
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
25 3 0.04
26 72 0.95
27 1 0.01
ACGTcount: A:0.21, C:0.12, G:0.29, T:0.38
Consensus pattern (26 bp):
TAGTAGGCTTTGAGCCGGTGTATATT
Found at i:41625379 original size:154 final size:154
Alignment explanation
Indices: 41625099--41625408 Score: 620
Period size: 154 Copynumber: 2.0 Consensus size: 154
41625089 GTGTATATTC
41625099 AGTAAGCTTTGAGCCGGTGTATATTTAGTAGGCTTTATGCCGGTGTTGTATTAGTAGGCACTCTT
1 AGTAAGCTTTGAGCCGGTGTATATTTAGTAGGCTTTATGCCGGTGTTGTATTAGTAGGCACTCTT
41625164 TGTTGGTGTTTTATCTAGCAGGTACTATGTACCGATGATGGATACTGTACCAAAGGCTTGAGGTC
66 TGTTGGTGTTTTATCTAGCAGGTACTATGTACCGATGATGGATACTGTACCAAAGGCTTGAGGTC
41625229 CTGCATTTTTTGTGTATTCTCTGA
131 CTGCATTTTTTGTGTATTCTCTGA
41625253 AGTAAGCTTTGAGCCGGTGTATATTTAGTAGGCTTTATGCCGGTGTTGTATTAGTAGGCACTCTT
1 AGTAAGCTTTGAGCCGGTGTATATTTAGTAGGCTTTATGCCGGTGTTGTATTAGTAGGCACTCTT
41625318 TGTTGGTGTTTTATCTAGCAGGTACTATGTACCGATGATGGATACTGTACCAAAGGCTTGAGGTC
66 TGTTGGTGTTTTATCTAGCAGGTACTATGTACCGATGATGGATACTGTACCAAAGGCTTGAGGTC
41625383 CTGCATTTTTTGTGTATTCTCTGA
131 CTGCATTTTTTGTGTATTCTCTGA
41625407 AG
1 AG
41625409 CTTGTGTGAG
Statistics
Matches: 156, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
154 156 1.00
ACGTcount: A:0.20, C:0.15, G:0.26, T:0.39
Consensus pattern (154 bp):
AGTAAGCTTTGAGCCGGTGTATATTTAGTAGGCTTTATGCCGGTGTTGTATTAGTAGGCACTCTT
TGTTGGTGTTTTATCTAGCAGGTACTATGTACCGATGATGGATACTGTACCAAAGGCTTGAGGTC
CTGCATTTTTTGTGTATTCTCTGA
Found at i:41630859 original size:48 final size:48
Alignment explanation
Indices: 41630803--41631139 Score: 442
Period size: 48 Copynumber: 7.0 Consensus size: 48
41630793 GGGATGTTAC
* *
41630803 AAATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATTGGTGATGAT
1 AAATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGAT
* * *
41630851 AAATGTGCCTGTGTAAGACCATGGT-TGGGACATGGCATTGACAATGAT
1 AAATGTGCCTGTGTAAGACCAT-GTCTGGGACATGGCATCGGCGATGAT
* * * *
41630899 AAATGTGCCTATGTAAGACCATGTCTGGGATATGGAATCAGCGATGAT
1 AAATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGAT
* * *
41630947 AAATGTGCCTGTTTAAGACGATGTCTGGGACATGGCATCGGTGATGAT
1 AAATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGAT
* * * *
41630995 AAATGTACCTATGTATGACCATGTCTAGGACATGGCATCGGCGATGAT
1 AAATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGAT
* * *
41631043 ATATGTGCCTGTGTAAGACCATGTTTGGGACATGGCATCGACGATGAT
1 AAATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGAT
** * * *
41631091 ATGTGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGTGATGAT
1 AAATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGAT
41631139 A
1 A
41631140 TGTGGATTCA
Statistics
Matches: 250, Mismatches: 37, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
47 2 0.01
48 246 0.98
49 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (48 bp):
AAATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGAT
Found at i:41631154 original size:48 final size:48
Alignment explanation
Indices: 41630814--41631176 Score: 248
Period size: 48 Copynumber: 7.6 Consensus size: 48
41630804 AATGTGCCTG
* * * * *
41630814 TGTAAGACCATGTCTGGGACATGGCATTGGTGATGATAAAT-G-TGCCTG
1 TGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATATGGAT-CC-A
* * * * *
41630862 TGTAAGACCATGGT-TGGGACATGGCATTGACAATGATAAAT-G-TGCCTA
1 TGTAAGACCAT-GTCTAGGACATGGCATCGGCGATGATATATGGAT-CC-A
* * * * *
41630910 TGTAAGACCATGTCTGGGATATGGAATCAGCGATGATAAAT-G-TGCC-
1 TGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATATGGAT-CCA
* * * * *
41630956 TGTTTAAGACGATGTCTGGGACATGGCATCGGTGATGATAAATGTA-CCTA
1 TG--TAAGACCATGTCTAGGACATGGCATCGGCGATGATATATGGATCC-A
* *
41631006 TGTATGACCATGTCTAGGACATGGCATCGGCGATGATATAT-G-TGCCTG
1 TGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATATGGAT-CC-A
* * * *
41631054 TGTAAGACCATGTTTGGGACATGGCATCGACGATGATATGT-G-TGCCA
1 TGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATATGGAT-CCA
* * *
41631101 GTGTAAGACCATGTCTAGGACATGGCATCGGTGATGATATGTGGATTCA
1 -TGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATATGGATCCA
*
41631150 TGTAAGACCATGTCAAGGACATGGCAT
1 TGTAAGACCATGTCTAGGACATGGCAT
41631177 TGGTACTTTA
Statistics
Matches: 267, Mismatches: 35, Indels: 26
0.81 0.11 0.08
Matches are distributed among these distances:
46 2 0.01
47 2 0.01
48 255 0.96
49 5 0.02
50 3 0.01
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.28
Consensus pattern (48 bp):
TGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATATGGATCCA
Found at i:41638667 original size:48 final size:48
Alignment explanation
Indices: 41638596--41638930 Score: 467
Period size: 48 Copynumber: 7.0 Consensus size: 48
41638586 GACACTGTGC
* *
41638596 TAAATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGA
1 TAAATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGA
* * * *
41638644 TAAATGTACCTGTGTAAGGCCATGTCTGCGACATGGCATCGGTGATG-
1 TAAATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGA
* *
41638691 -AAATGTGCCTGTGTAAGACGATGTTTGGGACATGGCATCGGCGATGA
1 TAAATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGA
*
41638738 TAAATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGA
1 TAAATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGA
* * *
41638786 TATATGTGCCTGTGTAAGACCATGTCTGGGAAATAGCATCGGCGATGA
1 TAAATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGA
* *
41638834 TATATGTGCCTGTGTAAGACCATGTCTGGGACATGACATCGGCGATGA
1 TAAATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGA
** * * * * *
41638882 TATGTGTGTCAGTGTAAGACCATGTCTGGGGCATGGCATCAGTGATGA
1 TAAATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGA
41638930 T
1 T
41638931 TTGTGGATTT
Statistics
Matches: 258, Mismatches: 27, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
46 40 0.16
48 218 0.84
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (48 bp):
TAAATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGA
Found at i:41638946 original size:48 final size:48
Alignment explanation
Indices: 41638600--41638968 Score: 287
Period size: 48 Copynumber: 7.7 Consensus size: 48
41638590 CTGTGCTAAA
* * * * **
41638600 TGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAAA
1 TGTGTCAGTGTAAGACCATGTCTGGGGCATGGCATCAGCGATGATATG
** * * * * * * *
41638648 TGTACCTGTGTAAGGCCATGTCTGCGACATGGCATCGGTGATGA-A-A
1 TGTGTCAGTGTAAGACCATGTCTGGGGCATGGCATCAGCGATGATATG
* * * * * * **
41638694 TGTGCCTGTGTAAGACGATGTTTGGGACATGGCATCGGCGATGATAAA
1 TGTGTCAGTGTAAGACCATGTCTGGGGCATGGCATCAGCGATGATATG
* * * * * *
41638742 TGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGATATA
1 TGTGTCAGTGTAAGACCATGTCTGGGGCATGGCATCAGCGATGATATG
* * ** * * *
41638790 TGTGCCTGTGTAAGACCATGTCTGGGAAATAGCATCGGCGATGATATA
1 TGTGTCAGTGTAAGACCATGTCTGGGGCATGGCATCAGCGATGATATG
* * * * *
41638838 TGTGCCTGTGTAAGACCATGTCTGGGACATGACATCGGCGATGATATG
1 TGTGTCAGTGTAAGACCATGTCTGGGGCATGGCATCAGCGATGATATG
* *
41638886 TGTGTCAGTGTAAGACCATGTCTGGGGCATGGCATCAGTGATGATTTG
1 TGTGTCAGTGTAAGACCATGTCTGGGGCATGGCATCAGCGATGATATG
* *
41638934 TG-GATTTA-TGTAAGACCATGTCAGGGGCATGGCAT
1 TGTG--TCAGTGTAAGACCATGTCTGGGGCATGGCAT
41638969 TGGTACTTTA
Statistics
Matches: 287, Mismatches: 30, Indels: 8
0.88 0.09 0.02
Matches are distributed among these distances:
46 39 0.14
47 3 0.01
48 243 0.85
49 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (48 bp):
TGTGTCAGTGTAAGACCATGTCTGGGGCATGGCATCAGCGATGATATG
Found at i:41641153 original size:20 final size:20
Alignment explanation
Indices: 41641130--41641190 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
41641120 TACTTCGGTA
41641130 CCCCTGAATGCACATGCATG
1 CCCCTGAATGCACATGCATG
* * * *
41641150 CCCCTGATTGTAC-TTCGATA
1 CCCCTGAATGCACATGC-ATG
*
41641170 CCCCTGAATGCACATGTATG
1 CCCCTGAATGCACATGCATG
41641190 C
1 C
41641191 TACTATTTGT
Statistics
Matches: 30, Mismatches: 9, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
19 2 0.07
20 27 0.90
21 1 0.03
ACGTcount: A:0.23, C:0.33, G:0.18, T:0.26
Consensus pattern (20 bp):
CCCCTGAATGCACATGCATG
Found at i:41641153 original size:40 final size:40
Alignment explanation
Indices: 41641112--41641312 Score: 226
Period size: 40 Copynumber: 5.0 Consensus size: 40
41641102 CACGTGTGCC
*
41641112 CCTATTTGTACTTCGGTACCCCTGAATGCACATGCATGCC
1 CCTATTTGTACTTCGGTACCCCTGAATGCACATGCATGCT
* *
41641152 CCTGA-TTGTACTTCGATACCCCTGAATGCACATGTATGCT
1 CCT-ATTTGTACTTCGGTACCCCTGAATGCACATGCATGCT
* * * **
41641192 ACTATTTGTACTTCAGTACCCCTAAATGCACATGTGTGCT
1 CCTATTTGTACTTCGGTACCCCTGAATGCACATGCATGCT
* * * * * *
41641232 CCTGTTTATACTTTGGTACCCCTGAACGTAGATGCATGCTT
1 CCTATTTGTACTTCGGTACCCCTGAATGCACATGCATGC-T
* *
41641273 CCT-TTTGTACTTTGGTACCCCTGAATGCACATGCGTGCT
1 CCTATTTGTACTTCGGTACCCCTGAATGCACATGCATGCT
41641312 C
1 C
41641313 TGAATGCACT
Statistics
Matches: 134, Mismatches: 24, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
39 3 0.02
40 126 0.94
41 5 0.04
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (40 bp):
CCTATTTGTACTTCGGTACCCCTGAATGCACATGCATGCT
Found at i:41641252 original size:80 final size:81
Alignment explanation
Indices: 41641113--41641312 Score: 251
Period size: 80 Copynumber: 2.5 Consensus size: 81
41641103 ACGTGTGCCC
* * *
41641113 CTATTTGTACTTCGGTACCCCTGAATGCACATGCATGCCCCTGATTGTACTTCGATACCCCTGAA
1 CTATTTGTACTTCGGTACCCCTGAATGCACATGCGTGCTCCTGATTATACTTCGATACCCCTGAA
* *
41641178 TGCACATGTATGC-TA
66 CGCACATGCATGCTTA
* * * * * *
41641193 CTATTTGTACTTCAGTACCCCTAAATGCACATGTGTGCTCCTGTTTATACTTTGGTACCCCTGAA
1 CTATTTGTACTTCGGTACCCCTGAATGCACATGCGTGCTCCTGATTATACTTCGATACCCCTGAA
* * *
41641258 CGTAGATGCATGCTTC
66 CGCACATGCATGCTTA
*
41641274 CT-TTTGTACTTTGGTACCCCTGAATGCACATGCGTGCTC
1 CTATTTGTACTTCGGTACCCCTGAATGCACATGCGTGCTC
41641313 TGAATGCACT
Statistics
Matches: 101, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
80 98 0.97
81 3 0.03
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (81 bp):
CTATTTGTACTTCGGTACCCCTGAATGCACATGCGTGCTCCTGATTATACTTCGATACCCCTGAA
CGCACATGCATGCTTA
Found at i:41653917 original size:33 final size:32
Alignment explanation
Indices: 41653870--41653932 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
41653860 AAAGACAAAA
* *
41653870 ATTAAAATAATAATAATAATAATAAATGAAAC
1 ATTAAAAAAATAATAATAATAAGAAATGAAAC
*
41653902 ATTAAAACAAATAATAATGATAAGAAATGAA
1 ATTAAAA-AAATAATAATAATAAGAAATGAA
41653933 TGATAATACC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 7 0.26
33 20 0.74
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.25
Consensus pattern (32 bp):
ATTAAAAAAATAATAATAATAAGAAATGAAAC
Found at i:41665436 original size:28 final size:26
Alignment explanation
Indices: 41665405--41665468 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
41665395 AATTACTTGA
*
41665405 ATACCCCTATGTATGGAAAATTACAATT
1 ATACCCCTA-G-ATGCAAAATTACAATT
* *
41665433 ATACCCCTAGGTGCAAAATTACCATT
1 ATACCCCTAGATGCAAAATTACAATT
*
41665459 ATACTCCTAG
1 ATACCCCTAG
41665469 GGTTACTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 22 0.69
27 1 0.03
28 9 0.28
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.30
Consensus pattern (26 bp):
ATACCCCTAGATGCAAAATTACAATT
Found at i:41665614 original size:27 final size:26
Alignment explanation
Indices: 41665574--41665678 Score: 115
Period size: 27 Copynumber: 3.9 Consensus size: 26
41665564 GGAAGCATCC
41665574 TGGTGGCTAC-GCCACAATTATCTGATT
1 TGGTGGCT-CTGCCAC-ATTATCTGATT
41665601 TGGTGGCTCTGCCACATATATCTG-TT
1 TGGTGGCTCTGCCACAT-TATCTGATT
*
41665627 CTGGTGGCTCTGCCACGATTATCTGTATC
1 -TGGTGGCTCTGCCAC-ATTATCTG-ATT
* *
41665656 TGGTGACTCTGTCACATTATCTG
1 TGGTGGCTCTGCCACATTATCTG
41665679 TTCTGGCAGC
Statistics
Matches: 69, Mismatches: 3, Indels: 12
0.82 0.04 0.14
Matches are distributed among these distances:
26 5 0.07
27 48 0.70
28 15 0.22
29 1 0.01
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (26 bp):
TGGTGGCTCTGCCACATTATCTGATT
Found at i:41665677 original size:54 final size:54
Alignment explanation
Indices: 41665573--41665684 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 54
41665563 AGGAAGCATC
* *
41665573 CTGGTGGCTACGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTACGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* *
41665627 CTGGTGGCT-CTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTAC-GCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
41665681 CTGG
1 CTGG
41665685 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
53 1 0.02
54 34 0.65
55 17 0.33
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTACGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:41669552 original size:16 final size:17
Alignment explanation
Indices: 41669533--41669565 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
41669523 GGTTCTTCGG
41669533 TTTTCTTTT-TCTTTTT
1 TTTTCTTTTCTCTTTTT
41669549 TTTTCTTTTCTCTTTTT
1 TTTTCTTTTCTCTTTTT
41669566 GATTTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTCTTTTCTCTTTTT
Done.