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 79 of 362
Found at i:24717283 original size:54 final size:55
Alignment explanation
Indices: 24717190--24717322 Score: 198
Period size: 54 Copynumber: 2.5 Consensus size: 55
24717180 CTTACGGCGA
*
24717190 GATTACCAGTCCAGGCTAAATCCC-CTGTATCGTAAACTCATAAGGTGATGCCAG
1 GATTACCAGTCCAGGCTAAATCCCTCTGTATAGTAAACTCATAAGGTGATGCCAG
* * * * *
24717244 GATTACTAGTTCAGGCTAAATCCCTC-GTATAGTAGACTCATAAGGTGATGTCGG
1 GATTACCAGTCCAGGCTAAATCCCTCTGTATAGTAAACTCATAAGGTGATGCCAG
24717298 GATTACCAGTCCAGGCTAAATCCCT
1 GATTACCAGTCCAGGCTAAATCCCT
24717323 TATAATGACA
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
54 69 0.99
55 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (55 bp):
GATTACCAGTCCAGGCTAAATCCCTCTGTATAGTAAACTCATAAGGTGATGCCAG
Found at i:24718546 original size:45 final size:44
Alignment explanation
Indices: 24718482--24718571 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 44
24718472 AAAAACTTAG
**
24718482 AATTTGGGCAAATTGCTCTCCAAGGCCTTCTAATTCATAACCCAA
1 AATTTGGAAAAATTGCTCTCCAAGGCCTTCTAATT-ATAACCCAA
24718527 AATTTGGAAAAATTGCTCTCCAAGGCCTTCTAATTATAACCCAA
1 AATTTGGAAAAATTGCTCTCCAAGGCCTTCTAATTATAACCCAA
24718571 A
1 A
24718572 GCAATTTCTT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
44 10 0.23
45 33 0.77
ACGTcount: A:0.34, C:0.24, G:0.12, T:0.29
Consensus pattern (44 bp):
AATTTGGAAAAATTGCTCTCCAAGGCCTTCTAATTATAACCCAA
Found at i:24722136 original size:28 final size:29
Alignment explanation
Indices: 24722086--24722167 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 29
24722076 TAAAGTGATT
* *
24722086 TTTGACAAAAA-GTCAATTAGGGA-TT-AA
1 TTTGA-AAAAATGTAAATTGGGGAGTTAAA
24722113 TTTGAGAAAAATGTAAATTGGGGAGTTAAA
1 TTTGA-AAAAATGTAAATTGGGGAGTTAAA
24722143 TTGTGAAACAAATGATAAATATGGG
1 TT-TGAAA-AAATG-TAAAT-TGGG
24722168 CTGATATGTG
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
27 10 0.22
28 10 0.22
29 2 0.04
30 6 0.13
31 8 0.18
32 5 0.11
33 4 0.09
ACGTcount: A:0.44, C:0.04, G:0.23, T:0.29
Consensus pattern (29 bp):
TTTGAAAAAATGTAAATTGGGGAGTTAAA
Found at i:24724679 original size:29 final size:28
Alignment explanation
Indices: 24724637--24724737 Score: 96
Period size: 29 Copynumber: 3.5 Consensus size: 28
24724627 ATCCATACTT
* * *
24724637 ATTCATTTGGCCCATTTAGGCCTAATCTC
1 ATTCATATGGCCCA-TTAGGCCAAATCAC
*
24724666 ATTCATATGGCCCATTAGACCCAAATCAC
1 ATTCATATGGCCCATTAG-GCCAAATCAC
* * * *
24724695 TTTCATATGACCCA-TCGGCCCCAATCAC
1 ATTCATATGGCCCATTAGG-CCAAATCAC
24724723 ATTCATATGGCCCAT
1 ATTCATATGGCCCAT
24724738 CGACCCCAAT
Statistics
Matches: 58, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
28 26 0.45
29 32 0.55
ACGTcount: A:0.27, C:0.32, G:0.12, T:0.30
Consensus pattern (28 bp):
ATTCATATGGCCCATTAGGCCAAATCAC
Found at i:24724729 original size:28 final size:28
Alignment explanation
Indices: 24724660--24724757 Score: 133
Period size: 28 Copynumber: 3.5 Consensus size: 28
24724650 ATTTAGGCCT
* * *
24724660 AATCTCATTCATATGGCCCATTAGACCCA
1 AATCACATTCATATGGCCCA-TCGACCCC
* * *
24724689 AATCACTTTCATATGACCCATCGGCCCC
1 AATCACATTCATATGGCCCATCGACCCC
24724717 AATCACATTCATATGGCCCATCGACCCC
1 AATCACATTCATATGGCCCATCGACCCC
24724745 AATCACATTCATA
1 AATCACATTCATA
24724758 GTTATGCAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
28 43 0.72
29 17 0.28
ACGTcount: A:0.31, C:0.35, G:0.09, T:0.26
Consensus pattern (28 bp):
AATCACATTCATATGGCCCATCGACCCC
Found at i:24730617 original size:46 final size:46
Alignment explanation
Indices: 24730565--24730960 Score: 508
Period size: 46 Copynumber: 8.6 Consensus size: 46
24730555 GTTTTCTGAA
* *
24730565 ATGAAATGTGTAAGACCATTGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
24730611 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGGAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
24730657 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
24730703 ATAAAATGTGCAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * *
24730749 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATAGAAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
24730795 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* ** ** * *
24730841 A-GGAATGAATAAGACCATGGTTGAAAGATACCATGGCAATGTAAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*** * *
24730886 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACCTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
24730932 A-GAAAATGAGTAAGACCATAGTTGAAAGA
1 ATG-AAATGTGTAAGACCATGGTTGAAAGA
24730961 CACTATGACA
Statistics
Matches: 319, Mismatches: 29, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
45 39 0.12
46 280 0.88
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.20
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:24731277 original size:16 final size:17
Alignment explanation
Indices: 24731256--24731288 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
24731246 ATGATGGAGC
24731256 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
24731272 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
24731289 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:24734119 original size:29 final size:29
Alignment explanation
Indices: 24734082--24734185 Score: 120
Period size: 29 Copynumber: 3.6 Consensus size: 29
24734072 GCATGTATAT
* **
24734082 GAATTTGATTTGGGCCTAATGGGATGTAC
1 GAATGTGATTTGGGCCTAATGGGACATAC
* *
24734111 GAATGTGATTTGGGCCCAATGGGCCATAC
1 GAATGTGATTTGGGCCTAATGGGACATAC
* * *
24734140 GAATGTGATTTGGGCCTAGTGGGCCATAT
1 GAATGTGATTTGGGCCTAATGGGACATAC
*
24734169 GAATGAGA-TTGGGCCTA
1 GAATGTGATTTGGGCCTA
24734186 GTAGGCCATA
Statistics
Matches: 66, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
28 9 0.14
29 57 0.86
ACGTcount: A:0.24, C:0.14, G:0.33, T:0.29
Consensus pattern (29 bp):
GAATGTGATTTGGGCCTAATGGGACATAC
Found at i:24734192 original size:28 final size:29
Alignment explanation
Indices: 24734111--24734197 Score: 104
Period size: 29 Copynumber: 3.0 Consensus size: 29
24734101 TGGGATGTAC
* * * * *
24734111 GAATGTGATTTGGGCCCAATGGGCCATAC
1 GAATGAGATTTGGGCCTAGTAGGCCATAT
* *
24734140 GAATGTGATTTGGGCCTAGTGGGCCATAT
1 GAATGAGATTTGGGCCTAGTAGGCCATAT
24734169 GAATGAGA-TTGGGCCTAGTAGGCCATAT
1 GAATGAGATTTGGGCCTAGTAGGCCATAT
24734197 G
1 G
24734198 TATGTATGTA
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
28 20 0.38
29 33 0.62
ACGTcount: A:0.24, C:0.16, G:0.33, T:0.26
Consensus pattern (29 bp):
GAATGAGATTTGGGCCTAGTAGGCCATAT
Found at i:24739187 original size:77 final size:77
Alignment explanation
Indices: 24739060--24739216 Score: 305
Period size: 77 Copynumber: 2.0 Consensus size: 77
24739050 TTTAATTGAG
*
24739060 GATCCATAGGTGTAGATGCTGGTATATAGTTGAAAAGATCAAACTTTTTAAGCACCTTTTCAATG
1 GATCCATAGGTGTAGATGCTGGTATACAGTTGAAAAGATCAAACTTTTTAAGCACCTTTTCAATG
24739125 TAATGTGATTGT
66 TAATGTGATTGT
24739137 GATCCATAGGTGTAGATGCTGGTATACAGTTGAAAAGATCAAACTTTTTAAGCACCTTTTCAATG
1 GATCCATAGGTGTAGATGCTGGTATACAGTTGAAAAGATCAAACTTTTTAAGCACCTTTTCAATG
24739202 TAATGTGATTGT
66 TAATGTGATTGT
24739214 GAT
1 GAT
24739217 AAAGCTATAG
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 79 1.00
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.36
Consensus pattern (77 bp):
GATCCATAGGTGTAGATGCTGGTATACAGTTGAAAAGATCAAACTTTTTAAGCACCTTTTCAATG
TAATGTGATTGT
Found at i:24744263 original size:22 final size:22
Alignment explanation
Indices: 24744233--24744282 Score: 91
Period size: 22 Copynumber: 2.2 Consensus size: 22
24744223 TAGGTAAATG
24744233 AGTTATATTTTATGAGATATTTA
1 AGTT-TATTTTATGAGATATTTA
24744256 AGTTTATTTTATGAGATATTTA
1 AGTTTATTTTATGAGATATTTA
24744278 AGTTT
1 AGTTT
24744283 TGGTGGAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 23 0.85
23 4 0.15
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (22 bp):
AGTTTATTTTATGAGATATTTA
Found at i:24748847 original size:17 final size:17
Alignment explanation
Indices: 24748815--24748847 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
24748805 GATAAACATA
24748815 TACTAAATATATAATAC
1 TACTAAATATATAATAC
24748832 TACTATAATATA-AATA
1 TACTA-AATATATAATA
24748848 TTAAAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (17 bp):
TACTAAATATATAATAC
Found at i:24751123 original size:61 final size:62
Alignment explanation
Indices: 24751053--24751170 Score: 148
Period size: 62 Copynumber: 1.9 Consensus size: 62
24751043 CTAAAAAATT
* * * * * *
24751053 AATAAATTTAACCCTTAATATTTACAAA-ATTTATTATTTTAGTTCTAATTCTAATAAACTC
1 AATAAATTTAACCCTCAAAAATTACAAATAATTATTAATTTAGTTATAATTCTAATAAACTC
* * *
24751114 AATAAATTTATCTCTCAAAAATTACAAATAATTATTAATTTAGTTATAATTTTAATA
1 AATAAATTTAACCCTCAAAAATTACAAATAATTATTAATTTAGTTATAATTCTAATA
24751171 TTTAAAAATA
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
61 23 0.49
62 24 0.51
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (62 bp):
AATAAATTTAACCCTCAAAAATTACAAATAATTATTAATTTAGTTATAATTCTAATAAACTC
Found at i:24762344 original size:26 final size:26
Alignment explanation
Indices: 24762315--24762422 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
24762305 TGAAATGCCC
*
24762315 ATCATGGAACATTTACCTAAATCATT
1 ATCATGGAACATTTACCTAAACCATT
*
24762341 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
24762367 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
24762393 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
24762419 ATCA
1 ATCA
24762423 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:24762393 original size:52 final size:52
Alignment explanation
Indices: 24762315--24762422 Score: 191
Period size: 52 Copynumber: 2.1 Consensus size: 52
24762305 TGAAATGCCC
24762315 ATCATGGAACATTTACCTAAATCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAATCATTATCATGGAACATTTACCTAACCCATT
*
24762367 ATCATGGAATATTTACCT-AATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAAT-CATTATCATGGAACATTTACCTAACCCATT
24762419 ATCA
1 ATCA
24762423 ATTTGTACCA
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
51 3 0.06
52 51 0.94
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAATCATTATCATGGAACATTTACCTAACCCATT
Found at i:24769430 original size:26 final size:26
Alignment explanation
Indices: 24769394--24769496 Score: 161
Period size: 26 Copynumber: 4.0 Consensus size: 26
24769384 AATGCCTATC
*
24769394 ATGGAACATTTACCTAAACCATTATA
1 ATGGAACATTTACCTAACCCATTATA
*
24769420 ATGGAACATTTACCTAACCCATTATC
1 ATGGAACATTTACCTAACCCATTATA
* * *
24769446 ATGGAATATTTACCTAATCCATTATT
1 ATGGAACATTTACCTAACCCATTATA
24769472 ATGGAACATTTACCTAACCCATTAT
1 ATGGAACATTTACCTAACCCATTAT
24769497 CAATTTGTAC
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 70 1.00
ACGTcount: A:0.37, C:0.21, G:0.08, T:0.34
Consensus pattern (26 bp):
ATGGAACATTTACCTAACCCATTATA
Found at i:24769468 original size:52 final size:52
Alignment explanation
Indices: 24769390--24769498 Score: 191
Period size: 52 Copynumber: 2.1 Consensus size: 52
24769380 ATGAAATGCC
24769390 TATCATGGAACATTTACCTAAACCATTATAATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAAACCATTATAATGGAACATTTACCTAACCCAT
* * *
24769442 TATCATGGAATATTTACCTAATCCATTATTATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAAACCATTATAATGGAACATTTACCTAACCCAT
24769494 TATCA
1 TATCA
24769499 ATTTGTACCA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.34
Consensus pattern (52 bp):
TATCATGGAACATTTACCTAAACCATTATAATGGAACATTTACCTAACCCAT
Found at i:24776616 original size:26 final size:27
Alignment explanation
Indices: 24776587--24776646 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
24776577 CCACATATAT
*
24776587 ATATCTGT-TCTAGTGGCCTAGCCACA
1 ATATCTGTATCTAGTGACCTAGCCACA
* * *
24776613 ATATCTGTATCTAGTGACTTCGTCACA
1 ATATCTGTATCTAGTGACCTAGCCACA
24776640 ATATCTG
1 ATATCTG
24776647 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTAGTGACCTAGCCACA
Found at i:24777757 original size:6 final size:6
Alignment explanation
Indices: 24777733--24777858 Score: 87
Period size: 6 Copynumber: 20.5 Consensus size: 6
24777723 TAACCCATTA
* * * *
24777733 CAGAAT CAGAAG AAAAAT CAGAAT CAG-GT GACAGAAT CAGAAT CAGAAT
1 CAGAAT CAGAAT CAGAAT CAGAAT CAGAAT --CAGAAT CAGAAT CAGAAT
* * * *
24777782 CAGAAT CAGTAT CGAGTAA- CAGAAT CAAAAT CAGAAT CAGTAT TAGGTAA-
1 CAGAAT CAGAAT C-AG-AAT CAGAAT CAGAAT CAGAAT CAGAAT CA-G-AAT
* *
24777832 CAGAAT CAAAAT CAGAAT CAGTAT CAG
1 CAGAAT CAGAAT CAGAAT CAGAAT CAG
24777859 GTAACAGAAT
Statistics
Matches: 92, Mismatches: 19, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
5 5 0.05
6 76 0.83
7 8 0.09
8 3 0.03
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.18
Consensus pattern (6 bp):
CAGAAT
Found at i:24777770 original size:31 final size:31
Alignment explanation
Indices: 24777732--24777790 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
24777722 TTAACCCATT
24777732 ACAGAATCAGAAGAAAAATCAGAATCAGGTG
1 ACAGAATCAGAAGAAAAATCAGAATCAGGTG
** *
24777763 ACAGAATCAGAATCAGAATCAGAATCAG
1 ACAGAATCAGAAGAAAAATCAGAATCAG
24777791 TATCGAGTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.51, C:0.15, G:0.20, T:0.14
Consensus pattern (31 bp):
ACAGAATCAGAAGAAAAATCAGAATCAGGTG
Found at i:24777789 original size:37 final size:37
Alignment explanation
Indices: 24777733--24777821 Score: 108
Period size: 37 Copynumber: 2.4 Consensus size: 37
24777723 TAACCCATTA
** * *
24777733 CAGAATCAGAAGAAAAATCAGAATC-AGGTGACAGAAT
1 CAGAATCAGAATCAGAATCAGAATCGA-GTAACAGAAT
*
24777770 CAGAATCAGAATCAGAATCAGTATCGAGTAACAGAAT
1 CAGAATCAGAATCAGAATCAGAATCGAGTAACAGAAT
*
24777807 CAAAATCAGAATCAG
1 CAGAATCAGAATCAG
24777822 TATTAGGTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
37 44 0.98
38 1 0.02
ACGTcount: A:0.49, C:0.16, G:0.19, T:0.16
Consensus pattern (37 bp):
CAGAATCAGAATCAGAATCAGAATCGAGTAACAGAAT
Found at i:24777804 original size:25 final size:24
Alignment explanation
Indices: 24777764--24777823 Score: 77
Period size: 25 Copynumber: 2.5 Consensus size: 24
24777754 AATCAGGTGA
*
24777764 CAGAATCAG-AATCAGAATCAGAAT
1 CAGAATCAGTAA-CAGAATCAAAAT
*
24777788 CAGTATCGAGTAACAGAATCAAAAT
1 CAGAATC-AGTAACAGAATCAAAAT
24777813 CAGAATCAGTA
1 CAGAATCAGTA
24777824 TTAGGTAACA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
24 10 0.32
25 19 0.61
26 2 0.06
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.18
Consensus pattern (24 bp):
CAGAATCAGTAACAGAATCAAAAT
Found at i:24777805 original size:31 final size:31
Alignment explanation
Indices: 24777770--24777873 Score: 174
Period size: 31 Copynumber: 3.4 Consensus size: 31
24777760 GTGACAGAAT
*
24777770 CAGAATCAGAATCAGAATCAGTATC-GAGTAA
1 CAGAATCAAAATCAGAATCAGTATCAG-GTAA
*
24777801 CAGAATCAAAATCAGAATCAGTATTAGGTAA
1 CAGAATCAAAATCAGAATCAGTATCAGGTAA
24777832 CAGAATCAAAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGTATCAGGTAA
24777863 CAGAATCAAAA
1 CAGAATCAAAA
24777874 ATTAGAATAT
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
31 68 0.99
32 1 0.01
ACGTcount: A:0.49, C:0.15, G:0.16, T:0.19
Consensus pattern (31 bp):
CAGAATCAAAATCAGAATCAGTATCAGGTAA
Found at i:24777812 original size:62 final size:62
Alignment explanation
Indices: 24777746--24777873 Score: 174
Period size: 62 Copynumber: 2.1 Consensus size: 62
24777736 AATCAGAAGA
*
24777746 AAAATCAGAATCAGGTGA-CA-G-AATCAGAATCAGAATCAGAATCAGTATC-GAGTAACAGAAT
1 AAAATCAGAATCA-GT-ATCAGGTAA-CAGAATCAAAATCAGAATCAGTATCAG-GTAACAGAAT
24777807 C
62 C
*
24777808 AAAATCAGAATCAGTATTAGGTAACAGAATCAAAATCAGAATCAGTATCAGGTAACAGAATC
1 AAAATCAGAATCAGTATCAGGTAACAGAATCAAAATCAGAATCAGTATCAGGTAACAGAATC
24777870 AAAA
1 AAAA
24777874 ATTAGAATAT
Statistics
Matches: 60, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
60 1 0.02
61 3 0.05
62 53 0.88
63 3 0.05
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (62 bp):
AAAATCAGAATCAGTATCAGGTAACAGAATCAAAATCAGAATCAGTATCAGGTAACAGAATC
Found at i:24777845 original size:37 final size:36
Alignment explanation
Indices: 24777748--24777872 Score: 110
Period size: 31 Copynumber: 3.7 Consensus size: 36
24777738 TCAGAAGAAA
* * *
24777748 AATCAGAATCAGGTGACAGAATCAGAATCAGAATCAG
1 AATCAGTATTAGGTAACAGAATCA-AATCAGAATCAG
*
24777785 AATCAGTA-TCGAGTAACAGAATC--A--A-AATCAG
1 AATCAGTATTAG-GTAACAGAATCAAATCAGAATCAG
24777816 AATCAGTATTAGGTAACAGAATC--A--A-AATCAG
1 AATCAGTATTAGGTAACAGAATCAAATCAGAATCAG
*
24777847 AATCAGTATCAGGTAACAGAATCAAA
1 AATCAGTATTAGGTAACAGAATCAAA
24777873 AATTAGAATA
Statistics
Matches: 78, Mismatches: 6, Indels: 12
0.81 0.06 0.12
Matches are distributed among these distances:
31 55 0.71
32 3 0.04
33 1 0.01
34 1 0.01
36 1 0.01
37 17 0.22
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (36 bp):
AATCAGTATTAGGTAACAGAATCAAATCAGAATCAG
Found at i:24778081 original size:26 final size:27
Alignment explanation
Indices: 24778018--24778091 Score: 105
Period size: 27 Copynumber: 2.8 Consensus size: 27
24778008 GCTCAGTTAT
* *
24778018 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
24778045 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
* *
24778071 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
24778092 TTAACAGAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
26 20 0.47
27 23 0.53
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:24778278 original size:22 final size:22
Alignment explanation
Indices: 24778250--24778314 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
24778240 GCAAATACGT
* *
24778250 TTGGCACACATCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
24778272 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
24778294 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
24778315 AAGGCTTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:24778799 original size:27 final size:27
Alignment explanation
Indices: 24778767--24778962 Score: 257
Period size: 27 Copynumber: 7.3 Consensus size: 27
24778757 AAGATATCTC
* *
24778767 GGTAATTCCACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTT
* *
24778794 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTT
* **
24778821 GATAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTT
* *
24778848 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTT
* * * *
24778875 AGTAATTCTACCCTACAAGAGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTT
24778902 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTT
* *
24778929 GGTAATTCTACCCTATAGGGATATTTT
1 GGTAATTCTACCCTACAGGGGTATTTT
24778956 GGTAATT
1 GGTAATT
24778963 TTGTAAATCG
Statistics
Matches: 151, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 151 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTT
Found at i:24778961 original size:81 final size:81
Alignment explanation
Indices: 24778766--24778962 Score: 295
Period size: 81 Copynumber: 2.4 Consensus size: 81
24778756 CAAGATATCT
* * *
24778766 CGGTAATTCCACCCTATAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGATAATTCTA
1 CGGTAATTCTACCCTATAGGGGTATTTTAGTAATTCTACCCTACAAGAGTATTTCGATAATTCTA
24778831 CCCTACAGGGGTATTG
66 CCCTACAGGGGTATTG
* * * *
24778847 CGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGAGTATTTCGGTAATTCTA
1 CGGTAATTCTACCCTATAGGGGTATTTTAGTAATTCTACCCTACAAGAGTATTTCGATAATTCTA
*
24778912 CCCTACAGGGGTATTT
66 CCCTACAGGGGTATTG
* * *
24778928 TGGTAATTCTACCCTATAGGGATATTTTGGTAATT
1 CGGTAATTCTACCCTATAGGGGTATTTTAGTAATT
24778963 TTGTAAATCG
Statistics
Matches: 102, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 102 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (81 bp):
CGGTAATTCTACCCTATAGGGGTATTTTAGTAATTCTACCCTACAAGAGTATTTCGATAATTCTA
CCCTACAGGGGTATTG
Found at i:24779014 original size:27 final size:27
Alignment explanation
Indices: 24778984--24779287 Score: 315
Period size: 27 Copynumber: 11.3 Consensus size: 27
24778974 GGGTAAAACC
* * *
24778984 GTAATTCTATAAATCAAGGGTACTTTG
1 GTAATTTTACAAATCAAGGGTATTTTG
* **
24779011 GTAATTTTACAAGTCAAGGGTATTTCC
1 GTAATTTTACAAATCAAGGGTATTTTG
* ** * **
24779038 ATAATTTTACAGGTCGAGGGTATTTCA
1 GTAATTTTACAAATCAAGGGTATTTTG
* **
24779065 GTAATTTCACAAATCAAGTTTATTTTG
1 GTAATTTTACAAATCAAGGGTATTTTG
24779092 GTAATTTTACAAA-CTAAGGGTATTTTG
1 GTAATTTTACAAATC-AAGGGTATTTTG
*
24779119 ATAATTTTACAAATCAAGGGTATTTTG
1 GTAATTTTACAAATCAAGGGTATTTTG
*
24779146 GTAATTTTACAAA-CCAGTGGTATTTTG
1 GTAATTTTACAAATCAAG-GGTATTTTG
** *
24779173 GTAATTTTGTAAACCAAGGGTATTTTG
1 GTAATTTTACAAATCAAGGGTATTTTG
* *
24779200 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAATCAAGGGTATTTTG
* * * *
24779227 GTGATTTTATAAACCAAGGGTATTTTA
1 GTAATTTTACAAATCAAGGGTATTTTG
* * *
24779254 ATAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAATCAAGGGTATTTTG
24779281 GTAATTT
1 GTAATTT
24779288 GTAAACTAAA
Statistics
Matches: 232, Mismatches: 41, Indels: 8
0.83 0.15 0.03
Matches are distributed among these distances:
26 4 0.02
27 224 0.97
28 4 0.02
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCAAGGGTATTTTG
Found at i:24784629 original size:266 final size:265
Alignment explanation
Indices: 24784039--24784838 Score: 1206
Period size: 266 Copynumber: 3.0 Consensus size: 265
24784029 TCGAGTCTTA
*
24784039 TAGACTTGCGGATATTTTAGCCCGATATGTAATCTTAATTTTCCTTAGCAGAGCTTATCATTTTG
1 TAGACTTGCGGATATTTTAGCCCAATATGTAATCTTAATTTTCCTTAGCAGAGCTTATCATTTTG
* * *
24784104 GAATTAAAAGGAGTTAATGCCTTTAATTCAAAAATTAATTTAGTTTTAAATGACTCTAATCTTAC
66 GAATTAAAAGGAGTTAATGCCTTTAATTCAAAAATTAATTTAGGTTTAAATGGCTCTAATCTGAC
* * * *
24784169 AGGGAAAAGATAGAGAGATTTTTTTTCCCTGCATATTTTTCAAACTATTTTTCGATGCTAGGCAA
131 AGGGAAAAGATAGAGAGA-TTTTTTTCCCTGCATATTTTTCAAACTGTTTCT-GATGATAGACAA
* * * *
24784234 AGGCAAGGCTACTGTTCGTTGATCAATACAACTATGCTACTACTGTGCTCATCTTGTTGTTGTAT
194 AGGCAAGGCTACTGTTCGTTGATCACTGCAACTGTGCTACTACTGTGCTCATCCTGTTGTTGTAT
24784299 CATGAGC
259 CATGAGC
* * * *
24784306 TAGACTTGCTGATATTTTAGCTCAATACGTAATCTTAATTTTCCTTAGCAGAGCTTATAATTTTG
1 TAGACTTGCGGATATTTTAGCCCAATATGTAATCTTAATTTTCCTTAGCAGAGCTTATCATTTTG
* * *
24784371 GAGTTAAAAGGAGTTAATACCTTTAATTCAAAATTTAATTTAGGTTTAAATGGCTCTAATCTGAC
66 GAATTAAAAGGAGTTAATGCCTTTAATTCAAAAATTAATTTAGGTTTAAATGGCTCTAATCTGAC
* *
24784436 AGGGAAAAGATAGAGAGATTTTTTTCCCTGCATATTTTTCAGACTGTGTTCTGGTGATAGACAAA
131 AGGGAAAAGATAGAGAGATTTTTTTCCCTGCATATTTTTCAAACTGT-TTCTGATGATAGACAAA
* * * *
24784501 GGTAAGGCTACTGTTCGTTGATCACTGTAACCGTGCTACTGCTGTGCTCATCCTGTTGTTGTATC
195 GGCAAGGCTACTGTTCGTTGATCACTGCAACTGTGCTACTACTGTGCTCATCCTGTTGTTGTATC
*
24784566 TTGAGC
260 ATGAGC
* * *
24784572 TAGACTTGCGGATATTTTAGCCCAATATATAATCTGAATTTTCCTCAGCAGAGCTTATCATTTTG
1 TAGACTTGCGGATATTTTAGCCCAATATGTAATCTTAATTTTCCTTAGCAGAGCTTATCATTTTG
* *
24784637 GAATTAAAAGGAGTTAATGCCTTTAATTCAAAAATTAATTTTGGTTTAAATGGCTCCAATCTGAC
66 GAATTAAAAGGAGTTAATGCCTTTAATTCAAAAATTAATTTAGGTTTAAATGGCTCTAATCTGAC
* *
24784702 AGCGAAAAGATAGAGAGATATTTTTTTCCCTGCATATTTTTCAAACTGTTTTCCGATGATAGACA
131 AGGGAAAAGATAGAGAG--ATTTTTTTCCCTGCATATTTTTCAAACTG-TTTCTGATGATAGACA
* *
24784767 AAGGCAAGGCTACTGTTCGTTGATCACTGCAATTGTGCTACTATTGTGCTCA-CCTTGTTGTTGT
193 AAGGCAAGGCTACTGTTCGTTGATCACTGCAACTGTGCTACTACTGTGCTCATCC-TGTTGTTGT
*
24784831 ATCCTGAG
257 ATCATGAG
24784839 AGATAGCTGA
Statistics
Matches: 479, Mismatches: 49, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
266 233 0.49
267 142 0.30
268 103 0.22
269 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (265 bp):
TAGACTTGCGGATATTTTAGCCCAATATGTAATCTTAATTTTCCTTAGCAGAGCTTATCATTTTG
GAATTAAAAGGAGTTAATGCCTTTAATTCAAAAATTAATTTAGGTTTAAATGGCTCTAATCTGAC
AGGGAAAAGATAGAGAGATTTTTTTCCCTGCATATTTTTCAAACTGTTTCTGATGATAGACAAAG
GCAAGGCTACTGTTCGTTGATCACTGCAACTGTGCTACTACTGTGCTCATCCTGTTGTTGTATCA
TGAGC
Found at i:24799445 original size:11 final size:11
Alignment explanation
Indices: 24799409--24799464 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
24799399 CATGGTATGT
24799409 ATGATATGCAC
1 ATGATATGCAC
* *
24799420 ATGACATG--T
1 ATGATATGCAC
24799429 ATGATATGCAC
1 ATGATATGCAC
*
24799440 ATGATATG--T
1 ATGATATGCAC
24799449 ATGATATGCAC
1 ATGATATGCAC
24799460 ATGAT
1 ATGAT
24799465 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:24799464 original size:20 final size:20
Alignment explanation
Indices: 24799399--24799464 Score: 114
Period size: 20 Copynumber: 3.3 Consensus size: 20
24799389 TTTTGATAAG
*
24799399 CATGGTATGTATGATATGCA
1 CATGATATGTATGATATGCA
*
24799419 CATGACATGTATGATATGCA
1 CATGATATGTATGATATGCA
24799439 CATGATATGTATGATATGCA
1 CATGATATGTATGATATGCA
24799459 CATGAT
1 CATGAT
24799465 GTATTCATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
CATGATATGTATGATATGCA
Found at i:24799628 original size:25 final size:24
Alignment explanation
Indices: 24799514--24799632 Score: 179
Period size: 24 Copynumber: 5.0 Consensus size: 24
24799504 GAGGAAGTGA
24799514 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
24799538 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
24799561 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
24799585 ACAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
24799609 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
24799633 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 23 0.26
24 53 0.61
25 11 0.13
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:24799861 original size:31 final size:31
Alignment explanation
Indices: 24799826--24799889 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
24799816 CGTTTACAGT
* *
24799826 AAAGGCTTTGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGCCCCAGTAATATGAAATATGA
**
24799857 AAAGGCTTCGCCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGCCCCAGTAATATGAAATATGA
24799888 AA
1 AA
24799890 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGCCCCAGTAATATGAAATATGA
Found at i:24807393 original size:25 final size:25
Alignment explanation
Indices: 24807365--24807412 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
24807355 CCTTATAATG
* *
24807365 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
24807390 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
24807413 GTTTATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:24807581 original size:24 final size:24
Alignment explanation
Indices: 24807525--24807587 Score: 119
Period size: 23 Copynumber: 2.7 Consensus size: 24
24807515 GAGGAAGTGA
24807525 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
24807549 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
24807572 AAAAGGGCTTATGCCC
1 AAAAGGGCTTATGCCC
24807588 TAGGCTTTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
23 23 0.61
24 15 0.39
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:24807608 original size:37 final size:37
Alignment explanation
Indices: 24807553--24807624 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
24807543 GTTATTAAAG
*
24807553 GGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCTA
1 GGCTTATGCCCCAATTATTAAAAGGGCTTATGCCCTA
* * *
24807590 GGCTTTTGCCCCAATTATTAAAAGGGTTTTTGCCC
1 GGCTTATGCCCCAATTATTAAAAGGGCTTATGCCC
24807625 CAGTTATTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (37 bp):
GGCTTATGCCCCAATTATTAAAAGGGCTTATGCCCTA
Found at i:24807885 original size:31 final size:31
Alignment explanation
Indices: 24807850--24807913 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
24807840 CGTTTATAGT
24807850 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* **
24807881 AAAGGCTTCGGTCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
24807912 AA
1 AA
24807914 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:24809337 original size:28 final size:27
Alignment explanation
Indices: 24809287--24809345 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
24809277 ATTTTCATTT
*
24809287 ATTTCAAAATTTAACCACAAATTTACA
1 ATTTCAAAATTTAACCACAAATTAACA
* *
24809314 CATTTCACAATTTAATCC-CTAATTAACA
1 -ATTTCAAAATTTAA-CCACAAATTAACA
24809342 ATTT
1 ATTT
24809346 TACTAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 4 0.15
28 21 0.78
29 2 0.07
ACGTcount: A:0.42, C:0.20, G:0.00, T:0.37
Consensus pattern (27 bp):
ATTTCAAAATTTAACCACAAATTAACA
Found at i:24810169 original size:39 final size:39
Alignment explanation
Indices: 24810126--24810259 Score: 198
Period size: 39 Copynumber: 3.4 Consensus size: 39
24810116 AGTTTTTGAG
*
24810126 TATTGTGATATATGCTTGGATGTTATGTGATTATATGAT
1 TATTGTGATATATGCTTGAATGTTATGTGATTATATGAT
*
24810165 TATTGTGATATATGCTTGAATGTTATGTGATTATATGAG
1 TATTGTGATATATGCTTGAATGTTATGTGATTATATGAT
* *
24810204 TATTATGATATATGCTTGAACGTTATGTGATTATATG-T
1 TATTGTGATATATGCTTGAATGTTATGTGATTATATGAT
* *
24810242 GTAATGTGATACATGCTT
1 -TATTGTGATATATGCTT
24810260 AAAAGTGAAT
Statistics
Matches: 86, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
39 86 1.00
ACGTcount: A:0.28, C:0.04, G:0.22, T:0.46
Consensus pattern (39 bp):
TATTGTGATATATGCTTGAATGTTATGTGATTATATGAT
Found at i:24820135 original size:46 final size:45
Alignment explanation
Indices: 24820066--24820236 Score: 195
Period size: 46 Copynumber: 3.7 Consensus size: 45
24820056 GTAACCCGCC
* *
24820066 CCTAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
24820111 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* ** *
24820161 -CTCA-TGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
24820204 CCGTAAGTGAACTCGGACTCAACTCAACGAGTT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTT
24820237 TGGATGCTCA
Statistics
Matches: 107, Mismatches: 9, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 4 0.04
46 57 0.53
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:24820180 original size:93 final size:93
Alignment explanation
Indices: 24820072--24820243 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
24820062 CGCCCCTAAG
* ** *
24820072 TGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
24820137 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
24820165 TGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
24820230 ACGAGTTTGGATGC
66 ACGAGTTCGGATGC
24820244 TCAACCATCC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (93 bp):
TGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:24820259 original size:46 final size:46
Alignment explanation
Indices: 24820066--24820259 Score: 166
Period size: 46 Copynumber: 4.2 Consensus size: 46
24820056 GTAACCCGCC
* * ** * *
24820066 CCTAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTC-GCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACAT
24820111 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTACAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACAT
* * *** *
24820161 -CTCA-TGAACTCGGACTCAACTCAACGAGTTCGAACATTC-GCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACAT
*
24820204 CCGTAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCTCAACCAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAA-CAT
24820252 CCT-AGTGA
1 CCTAAGTGA
24820260 CATGTCACTT
Statistics
Matches: 118, Mismatches: 19, Indels: 23
0.74 0.12 0.14
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 5 0.04
46 67 0.57
47 30 0.25
48 8 0.07
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (46 bp):
CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACAT
Found at i:24838820 original size:35 final size:35
Alignment explanation
Indices: 24838770--24838925 Score: 161
Period size: 35 Copynumber: 4.5 Consensus size: 35
24838760 TAAGGTTCAT
*
24838770 TATATAATCACATATGGCCAAATATACAAG-TACAA
1 TATATCATCACATATGGCCAAATATACAAGAT-CAA
* * * *
24838805 TATATCATCATATATGACCGAATATACAAGATCAG
1 TATATCATCACATATGGCCAAATATACAAGATCAA
* * * * * * * *
24838840 TAAAACATCACATGTAGTCAAATATTCAAGTTTAA
1 TATATCATCACATATGGCCAAATATACAAGATCAA
* *
24838875 TATAACATCACATGTGGCCAAATATACAAGATCAA
1 TATATCATCACATATGGCCAAATATACAAGATCAA
24838910 TATATCATCACATATG
1 TATATCATCACATATG
24838926 TACATACCTA
Statistics
Matches: 95, Mismatches: 25, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
35 94 0.99
36 1 0.01
ACGTcount: A:0.45, C:0.17, G:0.10, T:0.28
Consensus pattern (35 bp):
TATATCATCACATATGGCCAAATATACAAGATCAA
Found at i:24840068 original size:25 final size:25
Alignment explanation
Indices: 24840039--24840124 Score: 145
Period size: 25 Copynumber: 3.4 Consensus size: 25
24840029 TAATTGGGGT
24840039 AAAGCCCTTTTCGGTAAACTAGGGC
1 AAAGCCCTTTTCGGTAAACTAGGGC
24840064 AAAGCCCTTTTCGGTAAACTAGGGC
1 AAAGCCCTTTTCGGTAAACTAGGGC
* * *
24840089 AAAGCCCATTTCGGTAAATTGGGGC
1 AAAGCCCTTTTCGGTAAACTAGGGC
24840114 AAAGCCCTTTT
1 AAAGCCCTTTT
24840125 AGTACTTCCT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 57 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAGCCCTTTTCGGTAAACTAGGGC
Found at i:24840184 original size:10 final size:10
Alignment explanation
Indices: 24840171--24840209 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
24840161 ATATGTGAAT
24840171 ATATCATGGC
1 ATATCATGGC
24840181 ATATCATGTGC
1 ATATCATG-GC
24840192 ATATCATGGC
1 ATATCATGGC
24840202 ATATCATG
1 ATATCATG
24840210 TACAAAAGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (10 bp):
ATATCATGGC
Found at i:24840197 original size:21 final size:21
Alignment explanation
Indices: 24840171--24840210 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
24840161 ATATGTGAAT
24840171 ATATCATGGCATATCATGTGC
1 ATATCATGGCATATCATGTGC
24840192 ATATCATGGCATATCATGT
1 ATATCATGGCATATCATGT
24840211 ACAAAAGCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (21 bp):
ATATCATGGCATATCATGTGC
Found at i:24840278 original size:25 final size:25
Alignment explanation
Indices: 24840250--24840300 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
24840240 ATAACATAAC
* * *
24840250 CCTAGGGGTATAATGGTCATTTTCA
1 CCTAGGGGCAAAAAGGTCATTTTCA
24840275 CCTAGGGGCAAAAAGGTCATTTTCA
1 CCTAGGGGCAAAAAGGTCATTTTCA
24840300 C
1 C
24840301 ATTATAAGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (25 bp):
CCTAGGGGCAAAAAGGTCATTTTCA
Found at i:24952332 original size:40 final size:40
Alignment explanation
Indices: 24952242--24952466 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
24952232 TTGAATGATG
* * * * *
24952242 TCCGGGCTAAGTCCCGAAGAC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
24952282 TCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
24952322 TCCAGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
24952361 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
24952401 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
24952442 -CCGGTCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
24952467 AACGAGGAGC
Statistics
Matches: 159, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 32 0.20
40 118 0.74
41 9 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:24952480 original size:40 final size:40
Alignment explanation
Indices: 24952371--24952486 Score: 112
Period size: 40 Copynumber: 2.9 Consensus size: 40
24952361 TCCGGGTTAA
** * *
24952371 GTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGT-TAA
1 GTCCCGAAGGCATTTGAACGAGTGACTATAA-CC-GGTCTAT
** *
24952411 GTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGTCTAT
1 GTCCCGAAGGCATTTGAACGAGTGACTATAACCGGTCTAT
*
24952451 GTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGT
1 GTCCCGAAGGCATTTGAACGAGTGA-CTATAACCGGT
24952487 TAAATTCCGA
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
39 4 0.06
40 62 0.91
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
GTCCCGAAGGCATTTGAACGAGTGACTATAACCGGTCTAT
Found at i:24952484 original size:80 final size:79
Alignment explanation
Indices: 24952329--24952499 Score: 206
Period size: 80 Copynumber: 2.2 Consensus size: 79
24952319 AATTCCAGGC
**
24952329 TAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGAACGAG
*
24952393 TTACTAAATCCGGGT
66 TGACTAAATCC-GGT
* *
24952408 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC-GGTCTATGTCCCGAAGGCATTTGAACG
1 TAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGT-TAAGTCCCGAAGGCATTTGAACG
*
24952471 AG-GAGCTATATCCGGT
64 AGTGA-CTAAATCCGGT
* *
24952487 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
24952500 TACGTGATTT
Statistics
Matches: 80, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
79 22 0.28
80 56 0.70
81 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (79 bp):
TAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGAACGAG
TGACTAAATCCGGT
Found at i:24961495 original size:56 final size:56
Alignment explanation
Indices: 24961364--24961498 Score: 207
Period size: 56 Copynumber: 2.4 Consensus size: 56
24961354 TCCTAGGTAG
* * * *
24961364 GGTCTTACTCGCACACATAAATTAGAATCACATATCAATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCAGAATCACATATCAATGCAAACATATTAAACGT
* *
24961420 GGTCTTACTCGCACACATATATCAGAATCACATATCGATGCAAATATATTAAACGT
1 GGTCTTACTCGCACACATATATCAGAATCACATATCAATGCAAACATATTAAACGT
*
24961476 GGTCTTACTCACACACATATATC
1 GGTCTTACTCGCACACATATATC
24961499 GATGCCATGG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 72 1.00
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCAGAATCACATATCAATGCAAACATATTAAACGT
Found at i:24972437 original size:45 final size:45
Alignment explanation
Indices: 24972386--24972559 Score: 203
Period size: 45 Copynumber: 3.8 Consensus size: 45
24972376 TGGTTGAGCA
24972386 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATG
* * *
24972431 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA-T--G
* *
24972476 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AATG
* *
24972524 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
24972560 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 6 0.05
43 1 0.01
44 2 0.02
45 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATG
Found at i:24972540 original size:92 final size:92
Alignment explanation
Indices: 24972383--24972552 Score: 297
Period size: 92 Copynumber: 1.8 Consensus size: 92
24972373 GAATGGTTGA
* *
24972383 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAACGTCCGAACTCGTTGAGTT
24972448 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
*
24972475 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG-CCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGC-AACGTCCGAACTCGTTGAGT
24972539 TGAGTCCGAGTTCG
65 TGAGTCCGAGTTCG
24972553 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 71 0.96
93 3 0.04
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAACGTCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:24975527 original size:14 final size:15
Alignment explanation
Indices: 24975478--24975527 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
24975468 GTATCTTGGG
*
24975478 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
24975493 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
24975508 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
24975522 TTTCTT
1 TTTCTT
24975528 GTTATCTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.10, C:0.18, G:0.12, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:24977946 original size:46 final size:46
Alignment explanation
Indices: 24977896--24978071 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
24977886 TGGTTGAGCA
* *
24977896 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
24977942 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
24977989 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
24978035 TCCGAGCTCGTTGATTTGAGTTCGAGTTCTCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
24978072 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.57
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:24978054 original size:93 final size:93
Alignment explanation
Indices: 24977893--24978063 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
24977883 GGATGGTTGA
* * *
24977893 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCGAACTCGTTGAGT
24977958 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
24977986 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTCATGGATGCGAACGTCCGAGCTCGTTGATT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCGAACTCGTTGAGT
*
24978051 TGAGTTCGAGTTC
66 TGAGTCCGAGTTC
24978064 TCTTATGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:24981897 original size:55 final size:55
Alignment explanation
Indices: 24981795--24981901 Score: 133
Period size: 55 Copynumber: 1.9 Consensus size: 55
24981785 GTAGGCCCAT
* *** *
24981795 GCCCGTGTTAATTTAACAGGTTCGACCACGGGTACTTGGCACTGGCGTGTTGTAC
1 GCCCGTGTTAATTTAACAGGTTCGACCACGAGTACCAAGCACGGGCGTGTTGTAC
* * * *
24981850 GCCCGTGTTAATTTGATAGGTTCGACCACGATTTCCAAGCACGGGCGTGTTG
1 GCCCGTGTTAATTTAACAGGTTCGACCACGAGTACCAAGCACGGGCGTGTTG
24981902 CACACCCATG
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
55 43 1.00
ACGTcount: A:0.19, C:0.23, G:0.29, T:0.29
Consensus pattern (55 bp):
GCCCGTGTTAATTTAACAGGTTCGACCACGAGTACCAAGCACGGGCGTGTTGTAC
Found at i:24989098 original size:22 final size:22
Alignment explanation
Indices: 24989063--24989105 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
24989053 CTGCAACATT
* *
24989063 TATGGCTTTTAGCCATTTTGTC
1 TATGGCGTTGAGCCATTTTGTC
*
24989085 TATGGCGTTGAGCCGTTTTGT
1 TATGGCGTTGAGCCATTTTGT
24989106 TAACTTAGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.16, G:0.26, T:0.47
Consensus pattern (22 bp):
TATGGCGTTGAGCCATTTTGTC
Found at i:24991599 original size:27 final size:27
Alignment explanation
Indices: 24991569--24991746 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
24991559 ATATTGAGTC
* * * *
24991569 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
24991596 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
24991623 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
24991651 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
24991678 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
24991705 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
24991732 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
24991747 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:24991708 original size:82 final size:81
Alignment explanation
Indices: 24991590--24991745 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
24991580 TGCTATATAA
* *
24991590 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
24991655 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
24991672 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
24991736 CACTTAGTGC
65 CACTTAGTGC
24991746 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:24999756 original size:27 final size:27
Alignment explanation
Indices: 24999726--24999903 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
24999716 ATATTGAGTC
* * * *
24999726 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
24999753 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
24999780 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
24999808 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
24999835 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
24999862 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
24999889 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
24999904 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:24999865 original size:82 final size:81
Alignment explanation
Indices: 24999747--24999902 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
24999737 TGCTATATAA
* *
24999747 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
24999812 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
24999829 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
24999893 CACTTAGTGC
65 CACTTAGTGC
24999903 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:25013878 original size:42 final size:42
Alignment explanation
Indices: 25013761--25013878 Score: 119
Period size: 43 Copynumber: 2.8 Consensus size: 42
25013751 CAAAGAACAT
* * * * *
25013761 ATACAATGCCAATGTCTCAAACGTGGTCTTACATGTAATCAA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACACGAAATCAA
* * * * *
25013803 ACATCAATGCCACTGTCCCAGATAGGGTGTTACACGAAATCAA
1 ATA-CAATGCCAATGTCCCAGACATGGTCTTACACGAAATCAA
* *
25013846 ATACGATGCCAATGTCCCAGGCATGGTCTTACA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACA
25013879 TGTAAAATAG
Statistics
Matches: 58, Mismatches: 17, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
42 26 0.45
43 32 0.55
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (42 bp):
ATACAATGCCAATGTCCCAGACATGGTCTTACACGAAATCAA
Found at i:25017369 original size:12 final size:12
Alignment explanation
Indices: 25017352--25017378 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
25017342 CACACGCTCA
25017352 TGTGCTAGGCTG
1 TGTGCTAGGCTG
25017364 TGTGCTAGGCTG
1 TGTGCTAGGCTG
25017376 TGT
1 TGT
25017379 AACTCTCTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.15, G:0.41, T:0.37
Consensus pattern (12 bp):
TGTGCTAGGCTG
Found at i:25021844 original size:16 final size:17
Alignment explanation
Indices: 25021813--25021845 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
25021803 CCACAATGCA
25021813 GGCCCATGTAGGCCCAC
1 GGCCCATGTAGGCCCAC
*
25021830 GGCCCGTGT-GGCCCAC
1 GGCCCATGTAGGCCCAC
25021846 TAAGCGTAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.12, C:0.42, G:0.33, T:0.12
Consensus pattern (17 bp):
GGCCCATGTAGGCCCAC
Found at i:25035188 original size:3 final size:3
Alignment explanation
Indices: 25035180--25035240 Score: 115
Period size: 3 Copynumber: 20.7 Consensus size: 3
25035170 TACATAGTTT
25035180 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
25035228 TTC TTC TT- TTC TT
1 TTC TTC TTC TTC TT
25035241 TTTTTTAAGA
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.04
3 55 0.96
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:25040533 original size:19 final size:19
Alignment explanation
Indices: 25040511--25040547 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
25040501 CTGCCAAGAG
25040511 AAATAAAAAGTAAATTAAT
1 AAATAAAAAGTAAATTAAT
* *
25040530 AAATAATAATTAAATTAA
1 AAATAAAAAGTAAATTAA
25040548 ATTAAATTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (19 bp):
AAATAAAAAGTAAATTAAT
Found at i:25043117 original size:35 final size:35
Alignment explanation
Indices: 25043078--25043148 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
25043068 TTAAACATGA
*
25043078 ACTGATTAAATATCATGTCAATTAATTACAATTTC
1 ACTGATTAAATATCATGACAATTAATTACAATTTC
25043113 ACTGATTAAATATCATGACAATTAATTACAATTTC
1 ACTGATTAAATATCATGACAATTAATTACAATTTC
25043148 A
1 A
25043149 ATATATTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.42, C:0.14, G:0.06, T:0.38
Consensus pattern (35 bp):
ACTGATTAAATATCATGACAATTAATTACAATTTC
Found at i:25045641 original size:14 final size:14
Alignment explanation
Indices: 25045622--25045652 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
25045612 GAGTAGACCC
25045622 GCCCATGTGTTTAG
1 GCCCATGTGTTTAG
25045636 GCCCATGTGTTTAG
1 GCCCATGTGTTTAG
25045650 GCC
1 GCC
25045653 GTGTAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.13, C:0.26, G:0.29, T:0.32
Consensus pattern (14 bp):
GCCCATGTGTTTAG
Found at i:25047176 original size:22 final size:22
Alignment explanation
Indices: 25047145--25047317 Score: 104
Period size: 23 Copynumber: 7.6 Consensus size: 22
25047135 TGAGCCGATG
*
25047145 AATAGCAAGCTCTATTAAGCT-A
1 AATAGTAAGCTCTA-TAAGCTGA
25047167 AATAGTAAGCTC-ATACGAGCTGA
1 AATAGTAAGCTCTATA--AGCTGA
* *
25047190 AATGGTAAGCTCTAATGAGCTGA
1 AATAGTAAGCTCT-ATAAGCTGA
*
25047213 TAACAGTAAGCTCT-TACGAGCTG-
1 -AATAGTAAGCTCTATA--AGCTGA
* * *
25047236 AACAGTTAGCTCATATAAGTTGA
1 AATAGTAAGCTC-TATAAGCTGA
** *
25047259 AACGGTAAGCTCTAATGAA-CCGA
1 AATAGTAAGCTCT-AT-AAGCTGA
* *
25047282 AACAGTAAGCTCTAATGAGCTGA
1 AATAGTAAGCTCT-ATAAGCTGA
25047305 AATAGTAAGCTCT
1 AATAGTAAGCTCT
25047318 TACGAGTTGA
Statistics
Matches: 121, Mismatches: 16, Indels: 27
0.74 0.10 0.16
Matches are distributed among these distances:
20 2 0.02
21 1 0.01
22 33 0.27
23 63 0.52
24 20 0.17
25 2 0.02
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (22 bp):
AATAGTAAGCTCTATAAGCTGA
Found at i:25047226 original size:69 final size:68
Alignment explanation
Indices: 25047151--25047342 Score: 199
Period size: 69 Copynumber: 2.8 Consensus size: 68
25047141 GATGAATAGC
* * *
25047151 AAGCTCTATTAAGCTAAATAGTAAGCTCATACGAGCTGAAATGGTAAGCTCTAATGAGCTGATAA
1 AAGCTCTATTAAGCTAAATAGTAAGCTCATACGAGTTGAAATGGTAAGCTCTAATGAACCGA-AA
25047216 CAGT
65 CAGT
* * * ** *
25047220 AAGCTC--TTACGAGCTGAACAGTTAGCTCATATAAGTTGAAACGGTAAGCTCTAATGAACCGAA
1 AAGCTCTATTA--AGCTAAATAGTAAGCTCATACGAGTTGAAATGGTAAGCTCTAATGAACCGAA
25047283 ACAGT
64 ACAGT
* * *
25047288 AAGCTCTAATGAGCTGAAATAGTAAGCTCTTACGAGTTGATATATCGGTAAGCTC
1 AAGCTCTATTAAGCT-AAATAGTAAGCTCATACGAGTTGA-A-AT-GGTAAGCTC
25047343 ATACGAGATG
Statistics
Matches: 97, Mismatches: 18, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
67 3 0.03
68 16 0.16
69 66 0.68
70 2 0.02
71 1 0.01
72 9 0.09
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (68 bp):
AAGCTCTATTAAGCTAAATAGTAAGCTCATACGAGTTGAAATGGTAAGCTCTAATGAACCGAAAC
AGT
Found at i:25047306 original size:46 final size:45
Alignment explanation
Indices: 25047194--25047322 Score: 134
Period size: 46 Copynumber: 2.8 Consensus size: 45
25047184 AGCTGAAATG
* * *
25047194 GTAAGCTCTAATGAGCTGATAACAGTAAGCTCTTACGAGCTGAACA
1 GTAAGCTCTAATGAGCTGA-AACAGTAAGCTCTAACGAACCGAACA
* * * * *
25047240 GTTAGCTC-ATATAAGTTGAAACGGTAAGCTCTAATGAACCGAAACA
1 GTAAGCTCTA-ATGAGCTGAAACAGTAAGCTCTAACGAACCG-AACA
* *
25047286 GTAAGCTCTAATGAGCTGAAATAGTAAGCTCTTACGA
1 GTAAGCTCTAATGAGCTGAAACAGTAAGCTCTAACGA
25047323 GTTGATATAT
Statistics
Matches: 65, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
45 18 0.28
46 46 0.71
47 1 0.02
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (45 bp):
GTAAGCTCTAATGAGCTGAAACAGTAAGCTCTAACGAACCGAACA
Found at i:25053163 original size:18 final size:18
Alignment explanation
Indices: 25053124--25053164 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
25053114 AATAATGCGG
*
25053124 GCCCATGTGGCCCCACAC
1 GCCCATGTGGCCCCACAA
25053142 GCCCATGTGG-CCCACATA
1 GCCCATGTGGCCCCACA-A
25053160 GCCCA
1 GCCCA
25053165 GAAAAGGCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.20, C:0.46, G:0.22, T:0.12
Consensus pattern (18 bp):
GCCCATGTGGCCCCACAA
Found at i:25055239 original size:37 final size:37
Alignment explanation
Indices: 25055175--25055283 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
25055165 AGCTCAGATG
* * *
25055175 AAATCTCCACACGAAGTTATCGAGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
25055212 AAATCTCCACACGTAGTCATCGGGTCTTACCCAGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
25055249 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
25055284 ATATATTTCC
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:25055505 original size:48 final size:48
Alignment explanation
Indices: 25055430--25055827 Score: 602
Period size: 48 Copynumber: 8.1 Consensus size: 48
25055420 ACACATCGCC
*
25055430 TACATATTTCACA-CAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
25055477 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
25055527 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
25055575 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----A
* * *
25055627 TATATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
25055677 TATATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
25055725 TACATATTTCACATTAGCCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
25055773 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
25055821 TATATAT
1 TACATAT
25055828 ATATATATAT
Statistics
Matches: 325, Mismatches: 17, Indels: 17
0.91 0.05 0.05
Matches are distributed among these distances:
47 13 0.04
48 175 0.54
49 2 0.01
50 90 0.28
52 45 0.14
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:25055669 original size:150 final size:146
Alignment explanation
Indices: 25055430--25056085 Score: 906
Period size: 150 Copynumber: 4.4 Consensus size: 146
25055420 ACACATCGCC
* *
25055430 TACATATTTCACA-CAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
25055494 CCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT-GACCATTCGGCTTTAC
66 CCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAG-CCATTCGGCTTTAC
*
25055558 CACATATGCATATCTCA
130 CACATATACATATCTCA
*
25055575 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATATTTCACA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----ATACATATTTCACA
* * *
25055640 TTAACCATTCAGCTTTACCACATATACATATCTCATATATATATTTCGCATTAGCCATTCGGCTT
62 TTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGCTT
25055705 TACCACATATACATATCTCA
127 TACCACATATACATATCTCA
*
25055725 TACATATTTCACATTAGCCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
**
25055790 CCATTCGGCTTTACCACATATACATATCTCATATATATATATATATATATATTTCACATTAAACA
66 CCATTCGGCTTTACCACATATACATATCTC------------ATATATATATTTCACATTAGCCA
*
25055855 TTCAGCTTTACCACATATACATATCTCATATA
119 TTCGGCTTTACCACATATACATATCTC----A
* * * *
25055887 TATATATATTTAGCATTATCCATTCGGCTTTACCACATATACATATCTCATACGTATTTCACATT
1 TACATAT-TTCA-CATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATT
** *
25055952 AGCCATTCGGCTTTACCACATATACATATCTC--ATACGTATTTCACATTAGCCATTTGGCTTTA
64 AGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTA
25056015 CCACATATACATATCTCA
129 CCACATATACATATCTCA
*
25056033 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTTATACAT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACAT
25056086 CAATTTCAGC
Statistics
Matches: 456, Mismatches: 31, Indels: 49
0.85 0.06 0.09
Matches are distributed among these distances:
144 39 0.09
145 16 0.04
146 84 0.18
150 179 0.39
151 1 0.00
158 46 0.10
162 7 0.02
163 3 0.01
164 81 0.18
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (146 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
CCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTACC
ACATATACATATCTCA
Found at i:25055873 original size:62 final size:62
Alignment explanation
Indices: 25055776--25055895 Score: 213
Period size: 62 Copynumber: 1.9 Consensus size: 62
25055766 TATCTCATAC
** *
25055776 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATATATATAT
1 ATATTTCACATTAAACATTCAGCTTTACCACATATACATATCTCATATATATATATATATAT
25055838 ATATTTCACATTAAACATTCAGCTTTACCACATATACATATCTCATATATATATATAT
1 ATATTTCACATTAAACATTCAGCTTTACCACATATACATATCTCATATATATATATAT
25055896 TTAGCATTAT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.38, C:0.19, G:0.03, T:0.40
Consensus pattern (62 bp):
ATATTTCACATTAAACATTCAGCTTTACCACATATACATATCTCATATATATATATATATAT
Found at i:25055925 original size:48 final size:48
Alignment explanation
Indices: 25055892--25056085 Score: 327
Period size: 48 Copynumber: 4.0 Consensus size: 48
25055882 ATATATATAT
*
25055892 ATATTT-AGCATTATCCATTCGGCTTTACCACATATACATATCTCATAC
1 ATATTTCA-CATTAGCCATTCGGCTTTACCACATATACATATCTCATAC
*
25055940 GTATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAC
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAC
* *
25055988 GTATTTCACATTAGCCATTTGGCTTTACCACATATACATATCTCATAC
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAC
*
25056036 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTTATAC
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAC
25056084 AT
1 AT
25056086 CAATTTCAGC
Statistics
Matches: 139, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
48 138 0.99
49 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.37
Consensus pattern (48 bp):
ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAC
Found at i:25055966 original size:164 final size:159
Alignment explanation
Indices: 25055660--25056085 Score: 533
Period size: 164 Copynumber: 2.7 Consensus size: 159
25055650 AGCTTTACCA
* * ** *
25055660 CATATACATATCTCATATATATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 CATATACATATATCATATATATATTTCACATTAAACATTCAGCTTTACCACATATACATATCTCA
*
25055725 TACATATTTCACATTAGCCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTAG
66 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
25055790 CCATTCGGCTTTACCACATATACATATCT
131 CCATTCGGCTTTACCACATATACATATCT
*
25055819 CATATATATATAT-ATATATATATTTCACATTAAACATTCAGCTTTACCACATATACATATCTCA
1 CATATACATATATCATATATATATTTCACATTAAACATTCAGCTTTACCACATATACATATCTC-
* * * *
25055883 TATATATATATATTTAGCATTATCCATTCGGCTTTACCACATATACATATCTCATACGTATTTCA
65 ---ATACATAT-TTCA-CATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
25055948 CATTAGCCATTCGGCTTTACCACATATACATA--T
125 CATTAGCCATTCGGCTTTACCACATATACATATCT
* ** **
25055981 C---T-C--ATA-C------GTATTTCACATTAGCCATTTGGCTTTACCACATATACATATCTCA
1 CATATACATATATCATATATATATTTCACATTAAACATTCAGCTTTACCACATATACATATCTCA
*
25056033 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTTATACAT
66 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACAT
25056086 CAATTTCAGC
Statistics
Matches: 238, Mismatches: 22, Indels: 29
0.82 0.08 0.10
Matches are distributed among these distances:
144 39 0.16
145 3 0.01
146 7 0.03
150 39 0.16
156 3 0.01
158 46 0.19
159 12 0.05
162 9 0.04
163 3 0.01
164 77 0.32
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (159 bp):
CATATACATATATCATATATATATTTCACATTAAACATTCAGCTTTACCACATATACATATCTCA
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
CCATTCGGCTTTACCACATATACATATCT
Found at i:25055985 original size:212 final size:208
Alignment explanation
Indices: 25055611--25056039 Score: 732
Period size: 212 Copynumber: 2.0 Consensus size: 208
25055601 TTTACCACAT
* *
25055611 ATACATATCTCATATATATATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCAT
1 ATACATATAT-ATATATATATATTTCACATTAAACATTCAGCTTTACCACATATACATATCTCAT
*
25055676 ATATATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTA
65 ATATATATTTAGCATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTA
*
25055741 GCCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCA
130 GCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCA
25055806 CATATACATATCTC
195 CATATACATATCTC
*
25055820 ATATATATATATATATATATATTTCACATTAAACATTCAGCTTTACCACATATACATATCTCATA
1 ATACATATATATATATATATATTTCACATTAAACATTCAGCTTTACCACATATACATATCTC---
* *
25055885 TATATATATATTTAGCATTATCCATTCGGCTTTACCACATATACATATCTCATACGTATTTCACA
63 -ATATATATATTTAGCATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACA
* *
25055950 TTAGCCATTCGGCTTTACCACATATACATATCTCATACGTATTTCACATTAGCCATTTGGCTTTA
127 TTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
25056015 CCACATATACATATCTC
192 CCACATATACATATCTC
25056032 ATACATAT
1 ATACATAT
25056040 TTCACATTAG
Statistics
Matches: 206, Mismatches: 10, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
208 51 0.25
209 8 0.04
212 147 0.71
ACGTcount: A:0.33, C:0.24, G:0.06, T:0.38
Consensus pattern (208 bp):
ATACATATATATATATATATATTTCACATTAAACATTCAGCTTTACCACATATACATATCTCATA
TATATATTTAGCATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
ATATACATATCTC
Found at i:25056039 original size:260 final size:259
Alignment explanation
Indices: 25055578--25056078 Score: 860
Period size: 260 Copynumber: 1.9 Consensus size: 259
25055568 TATCTCATAC
** *
25055578 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATATTTCACATTA
1 ATATTTCACATTAAACATTCAGCTTTACCACATATACATATCTCATATATATATATTTCACATTA
* *
25055643 ACCATTCAGCTTTACCACATATACATATCTCATATATATATTTCGCATTAGCCATTCGGCTTTAC
66 ACCATTCAGCTTTACCACATATACATATCTCA-ATACATATTTCACATTAGCCATTCGGCTTTAC
*
25055708 CACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATGCATATCTCA
130 CACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
25055773 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATATATATAT
195 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATATATATAT
*
25055838 ATATTTCACATTAAACATTCAGCTTTACCACATATACATATCTCATATATATATATATTTAGCAT
1 ATATTTCACATTAAACATTCAGCTTTACCACATATACATATCTCATATATATATAT-TTCA-CAT
* * *
25055903 TATCCATTCGGCTTTACCACATATACATATCTC-ATACGTATTTCACATTAGCCATTCGGCTTTA
64 TAACCATTCAGCTTTACCACATATACATATCTCAATACATATTTCACATTAGCCATTCGGCTTTA
* *
25055967 CCACATATACATATCTCATACGTATTTCACATTAGCCATTTGGCTTTACCACATATACATATCTC
129 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC
25056032 ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
194 ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
25056079 TATACATCAA
Statistics
Matches: 227, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
260 190 0.84
261 3 0.01
262 34 0.15
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (259 bp):
ATATTTCACATTAAACATTCAGCTTTACCACATATACATATCTCATATATATATATTTCACATTA
ACCATTCAGCTTTACCACATATACATATCTCAATACATATTTCACATTAGCCATTCGGCTTTACC
ACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAT
ACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATATATATAT
Found at i:25059763 original size:160 final size:160
Alignment explanation
Indices: 25059499--25059941 Score: 706
Period size: 160 Copynumber: 2.8 Consensus size: 160
25059489 GCCCAAATAC
* * * * *
25059499 ACATCACCAGCATGATTGCTCTTTGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCG
1 ACATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAATGCTCTTCG
*
25059564 GGACTTAACCCTGATATAACTCTAGCACAAATGCTCTTTGAGACTTAGCCCGGATATAACACCAG
66 GGACTTAGCCCTGATATAACTCTAGCACAAATGCTCTTTGAGACTTAGCCCGGATATAACACCAG
25059629 CACAAATGCTCTTCGGGACTTAGCCCGGAT
131 CACAAATGCTCTTCGGGACTTAGCCCGGAT
* *
25059659 ACATCACTAGCACGAATGCTCTTCAGGACTTAGCCCGGATATAACACTAGCACGAATGCTCTTCG
1 ACATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAATGCTCTTCG
25059724 GGACTTAGCCCTGATATAACTCTAGCACAAATGCTCTTTGAGACTTAGCCCGGATATAACACCAG
66 GGACTTAGCCCTGATATAACTCTAGCACAAATGCTCTTTGAGACTTAGCCCGGATATAACACCAG
25059789 CACAAATGCTCTTCGGGACTTAGCCCGGAT
131 CACAAATGCTCTTCGGGACTTAGCCCGGAT
* * * * *
25059819 ATAACACCAGCACAAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCG
1 ACATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAATGCTCTTCG
** * * * * *
25059884 GGACTTAGCCCAAATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
66 GGACTTAGCCCTGATATAACTCTAGCACAAATGCTCTTTGAGACTTAGCCCGGATATA
25059942 TATAACTCTC
Statistics
Matches: 261, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
160 261 1.00
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (160 bp):
ACATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAATGCTCTTCG
GGACTTAGCCCTGATATAACTCTAGCACAAATGCTCTTTGAGACTTAGCCCGGATATAACACCAG
CACAAATGCTCTTCGGGACTTAGCCCGGAT
Found at i:25059942 original size:40 final size:40
Alignment explanation
Indices: 25059515--25059941 Score: 602
Period size: 40 Copynumber: 10.7 Consensus size: 40
25059505 CCAGCATGAT
* * *
25059515 TGCTCTTTGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
* * * *
25059555 TGCTCTTCGGGACTTAACCCTGATATAACTCTAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
* * * *
25059595 TGCTCTTTGAGACTTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
* *
25059635 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
*
25059675 TGCTCTTCAGGACTTAGCCCGGATATAACACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
* * *
25059715 TGCTCTTCGGGACTTAGCCCTGATATAACTCTAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
* * * *
25059755 TGCTCTTTGAGACTTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
* *
25059795 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
* *
25059835 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
** *
25059875 TGCTCTTCGGGACTTAGCCCAAATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
25059915 TGCTCTTCGGGACTTAGCCCGGATATA
1 TGCTCTTCGGGACTTAGCCCGGATATA
25059942 TATAACTCTC
Statistics
Matches: 345, Mismatches: 42, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 345 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
Found at i:25061412 original size:93 final size:93
Alignment explanation
Indices: 25061300--25061470 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
25061290 GCCCATAAGT
* *
25061300 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25061365 CGAGCTCGGATGCCTTGTTACATCTCTC
66 CGAGCTCGGATGCCTTGTTACATCTCTC
*
25061393 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
25061458 CGAGTTCGGATGC
66 CGAGCTCGGATGC
25061471 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTTGTTACATCTCTC
Found at i:25061467 original size:46 final size:46
Alignment explanation
Indices: 25061292--25061467 Score: 221
Period size: 46 Copynumber: 3.8 Consensus size: 46
25061282 TGTAACCCGC
* *
25061292 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
25061338 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTT-G-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA--CATTCGCAT
* *** *
25061384 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
25061431 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
25061468 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
45 3 0.03
46 71 0.64
47 34 0.31
48 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:25065345 original size:46 final size:45
Alignment explanation
Indices: 25065203--25065345 Score: 111
Period size: 46 Copynumber: 3.1 Consensus size: 45
25065193 CCCGCCCATA
* *
25065203 AGTGAACTCGGACTCAACTTAACGAGCTCGGATGCCTAGTTA-CATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATC-CT
* *
25065252 --CGAACTC-GACTCAACTCAACGAGTTCGGA---CATTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCA-AC-CATCC-T
25065294 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCATCCT
25065341 AGTGA
1 AGTGA
25065346 CATGTCACTT
Statistics
Matches: 77, Mismatches: 6, Indels: 25
0.71 0.06 0.23
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 6 0.08
43 1 0.01
45 6 0.08
46 47 0.61
47 7 0.09
48 5 0.06
49 1 0.01
50 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCCT
Found at i:25068274 original size:28 final size:28
Alignment explanation
Indices: 25068212--25068308 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
25068202 ATATTAAGTC
*
25068212 CGCACAC-TCGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
25068238 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
25068266 CGCACACTTAGTGCTGA-ACAATTTAAACC
1 CGCACACTTAGTGCT-ATATAA-TCAAACT
25068295 CGCACACTTAGTGC
1 CGCACACTTAGTGC
25068309 CAATCTCATG
Statistics
Matches: 63, Mismatches: 4, Indels: 5
0.88 0.06 0.07
Matches are distributed among these distances:
26 7 0.11
27 14 0.22
28 22 0.35
29 20 0.32
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:25085933 original size:40 final size:40
Alignment explanation
Indices: 25085845--25086016 Score: 233
Period size: 40 Copynumber: 4.3 Consensus size: 40
25085835 GGACTAAGAT
* * * * *
25085845 CCGAAGGCATTTGTGTGAGATACTAATTCCAGGCTAAG-C
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
*
25085884 CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
*
25085924 CCGAAGGCATTTGTGCGAGTTACTAAATCCGAGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
*
25085964 CCGAAGGCATTTGTGCGAGTTACTATAA-CC-GGTCTATGTC
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGT-TAAGTC
25086004 CCGAAGGCATTTG
1 CCGAAGGCATTTG
25086017 AACGAGGAGC
Statistics
Matches: 120, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
39 34 0.28
40 84 0.70
41 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:25086030 original size:40 final size:40
Alignment explanation
Indices: 25085921--25086036 Score: 112
Period size: 40 Copynumber: 2.9 Consensus size: 40
25085911 TCCGGGTTAA
** * *
25085921 GTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGAGT-TAA
1 GTCCCGAAGGCATTTGAACGAGTGACTATAA-CCG-GTCTAT
** *
25085961 GTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGTCTAT
1 GTCCCGAAGGCATTTGAACGAGTGACTATAACCGGTCTAT
*
25086001 GTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGT
1 GTCCCGAAGGCATTTGAACGAGTGA-CTATAACCGGT
25086037 TAAATTCCGA
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
39 3 0.04
40 63 0.93
41 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
GTCCCGAAGGCATTTGAACGAGTGACTATAACCGGTCTAT
Found at i:25086034 original size:80 final size:79
Alignment explanation
Indices: 25085879--25086049 Score: 206
Period size: 80 Copynumber: 2.2 Consensus size: 79
25085869 AATTCCAGGC
**
25085879 TAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGAACGAG
*
25085943 TTACTAAATCCGAGT
66 TGACTAAATCCG-GT
* *
25085958 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC-GGTCTATGTCCCGAAGGCATTTGAACG
1 TAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGT-TAAGTCCCGAAGGCATTTGAACG
*
25086021 AG-GAGCTATATCCGGT
64 AGTGA-CTAAATCCGGT
* *
25086037 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
25086050 TACGTGATTT
Statistics
Matches: 80, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
79 21 0.26
80 57 0.71
81 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (79 bp):
TAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGAACGAG
TGACTAAATCCGGT
Found at i:25090176 original size:119 final size:120
Alignment explanation
Indices: 25089994--25090214 Score: 297
Period size: 119 Copynumber: 1.9 Consensus size: 120
25089984 TCCTCGTTCA
*
25089994 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
25090059 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGAATTTAGTAACTCGCACC
* * **
25090114 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
25090176 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCG
25090215 GACATCATTC
Statistics
Matches: 88, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
118 4 0.05
119 64 0.73
120 20 0.23
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCACC
Found at i:25090200 original size:79 final size:79
Alignment explanation
Indices: 25089992--25090216 Score: 256
Period size: 79 Copynumber: 2.8 Consensus size: 79
25089982 GCTCCTCGTT
* * ** * *
25089992 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGAATATAGTAACTAGCACAAA-GCCTTCGGGACTTAGCCCGG
*
25090057 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
* * *
25090072 CAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAACCCGAATATAGTAACTAGCA-CAAAGCCTTCGGGACTTAGCCCGG
*
25090136 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
** * * *
25090151 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAACCCGAATATAGTAAC-TAGCACAAAGCCTTCGGGACTTAGCCCG
25090215 GA
64 GA
25090217 CATCATTCAA
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
78 3 0.02
79 59 0.48
80 59 0.48
81 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGAATATAGTAACTAGCACAAAGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:25090216 original size:40 final size:40
Alignment explanation
Indices: 25089992--25090216 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
25089982 GCTCCTCGTT
* *
25089992 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
25090032 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
25090072 CAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
25090112 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
25090151 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
25090192 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
25090217 CATCATTCAA
Statistics
Matches: 162, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
38 2 0.01
39 30 0.19
40 118 0.73
41 12 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:25092925 original size:44 final size:44
Alignment explanation
Indices: 25092858--25092987 Score: 140
Period size: 43 Copynumber: 3.0 Consensus size: 44
25092848 CATAGGATTC
* *
25092858 CGATATGTGATTT-TGTGTAAGACCAAGTCTGGGACGTTGGCGT
1 CGATATGTGATTTACGTGTAAGACCAAGTCTGGGACGTTGGCAT
* * * **
25092901 CGATTTGTGATTTACGTGTAAGACCCTA-TTTGGGACAATGGCAT
1 CGATATGTGATTTACGTGTAAGA-CCAAGTCTGGGACGTTGGCAT
* * *
25092945 CGATATGTGA-TTACATGTAAGACCACGTCTGGGACGTTTGCAT
1 CGATATGTGATTTACGTGTAAGACCAAGTCTGGGACGTTGGCAT
25092988 TGTATGAGCT
Statistics
Matches: 69, Mismatches: 15, Indels: 6
0.77 0.17 0.07
Matches are distributed among these distances:
42 2 0.03
43 35 0.51
44 29 0.42
45 3 0.04
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (44 bp):
CGATATGTGATTTACGTGTAAGACCAAGTCTGGGACGTTGGCAT
Found at i:25092978 original size:43 final size:43
Alignment explanation
Indices: 25092858--25092979 Score: 129
Period size: 44 Copynumber: 2.8 Consensus size: 43
25092848 CATAGGATTC
** * ** *
25092858 CGATATGTGATTTTGTGTAAGACCAAGTCTGGGACGTTGGCGT
1 CGATATGTGATTACGTGTAAGACCACGTCTGGGACAATGGCAT
* * *
25092901 CGATTTGTGATTTACGTGTAAGACC-CTATTTGGGACAATGGCAT
1 CGATATGTGA-TTACGTGTAAGACCAC-GTCTGGGACAATGGCAT
*
25092945 CGATATGTGATTACATGTAAGACCACGTCTGGGAC
1 CGATATGTGATTACGTGTAAGACCACGTCTGGGAC
25092980 GTTTGCATTG
Statistics
Matches: 63, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
43 29 0.46
44 34 0.54
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (43 bp):
CGATATGTGATTACGTGTAAGACCACGTCTGGGACAATGGCAT
Found at i:25098360 original size:32 final size:32
Alignment explanation
Indices: 25098270--25098360 Score: 84
Period size: 27 Copynumber: 3.0 Consensus size: 32
25098260 AGTCATTAGG
25098270 ACCTTCTTCAAGTAAGGCGAAAGGTAAGGAAA
1 ACCTTCTTCAAGTAAGGCGAAAGGTAAGGAAA
* ** ****
25098302 AGCTAGTT----TAA-GCTTTCGGTAAGGAAA
1 ACCTTCTTCAAGTAAGGCGAAAGGTAAGGAAA
25098329 ACCTTCTTCAAGTAAGGCGAAAGGTAAGGAAA
1 ACCTTCTTCAAGTAAGGCGAAAGGTAAGGAAA
25098361 TGCTAAGACA
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
27 17 0.43
28 3 0.08
31 3 0.08
32 17 0.43
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.22
Consensus pattern (32 bp):
ACCTTCTTCAAGTAAGGCGAAAGGTAAGGAAA
Found at i:25099837 original size:20 final size:20
Alignment explanation
Indices: 25099814--25099857 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
25099804 TTCAGTATCG
25099814 ATACTTTAAC-AAAAGTATTC
1 ATACTTT-ACTAAAAGTATTC
*
25099834 ATACTTTACTAAAAGTATTG
1 ATACTTTACTAAAAGTATTC
25099854 ATAC
1 ATAC
25099858 CATTGGGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (20 bp):
ATACTTTACTAAAAGTATTC
Found at i:25101139 original size:20 final size:20
Alignment explanation
Indices: 25101114--25101175 Score: 79
Period size: 20 Copynumber: 3.1 Consensus size: 20
25101104 TTAATTTGTG
*
25101114 GACAAGCCACCAGTACTGCA
1 GACAAGCCACCAGTAATGCA
* *
25101134 GACAAGCTACCAGTAATGTA
1 GACAAGCCACCAGTAATGCA
* *
25101154 GTCAAGCCACTAGTAATGCA
1 GACAAGCCACCAGTAATGCA
25101174 GA
1 GA
25101176 TAAACTGCCA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.37, C:0.26, G:0.21, T:0.16
Consensus pattern (20 bp):
GACAAGCCACCAGTAATGCA
Found at i:25101188 original size:20 final size:20
Alignment explanation
Indices: 25101165--25101251 Score: 102
Period size: 20 Copynumber: 4.3 Consensus size: 20
25101155 TCAAGCCACT
25101165 AGTAATGCAGATAAACTGCC
1 AGTAATGCAGATAAACTGCC
* * *
25101185 AGTAGTGCAGGTAAACTGCA
1 AGTAATGCAGATAAACTGCC
* *
25101205 AATAATGCAGATAAATTGCC
1 AGTAATGCAGATAAACTGCC
* * *
25101225 AATAAAGCAGACAAACTGCC
1 AGTAATGCAGATAAACTGCC
25101245 AGTAATG
1 AGTAATG
25101252 TGGACAAGCC
Statistics
Matches: 54, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 54 1.00
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.20
Consensus pattern (20 bp):
AGTAATGCAGATAAACTGCC
Found at i:25105928 original size:21 final size:21
Alignment explanation
Indices: 25105891--25105933 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
25105881 CAGATTATAT
* *
25105891 TGTTATTTTATTGT-AAATTA
1 TGTTATTATATTATAAAATTA
25105911 TGTTAATTATATTATAAAATTA
1 TGTT-ATTATATTATAAAATTA
25105933 T
1 T
25105934 TTTGACAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 8 0.42
22 7 0.37
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (21 bp):
TGTTATTATATTATAAAATTA
Found at i:25111204 original size:27 final size:27
Alignment explanation
Indices: 25111147--25111206 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
25111137 TGTGTAATTA
*
25111147 ATAAATAAATGTTACTTATTATTTAAGT
1 ATAAATAAATGTTAC-TATTATATAAGT
25111175 ATAAAT-AATGTTA-TATTATATATAGAT
1 ATAAATAAATGTTACTATTATATA-AG-T
25111202 ATAAA
1 ATAAA
25111207 ACAAAACAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 8 0.28
26 2 0.07
27 13 0.45
28 6 0.21
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (27 bp):
ATAAATAAATGTTACTATTATATAAGT
Found at i:25111283 original size:16 final size:15
Alignment explanation
Indices: 25111262--25111295 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
25111252 CAGGGGAAGG
*
25111262 AAAGAAAGAAAGGAGA
1 AAAGAAAAAAAGG-GA
25111278 AAAGAAAAAAAGGGA
1 AAAGAAAAAAAGGGA
25111293 AAA
1 AAA
25111296 TTGAAGGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAAAGGGA
Found at i:25112450 original size:37 final size:41
Alignment explanation
Indices: 25112355--25112453 Score: 107
Period size: 41 Copynumber: 2.5 Consensus size: 41
25112345 CTTCGACCTC
* *
25112355 GAGTCGATGAGACACTGGGTGTCATACTGTTACTTCGGATA
1 GAGTCGATGAGACACTGGGTGACACACTGTTACTTCGGATA
* * ** *
25112396 GATTTGATGAGGTACTGGGT-AC-CACT-TTACTTCGGCTA
1 GAGTCGATGAGACACTGGGTGACACACTGTTACTTCGGATA
25112434 G-GTCGATGAGACACTGGGTG
1 GAGTCGATGAGACACTGGGTG
25112454 TCACTATATT
Statistics
Matches: 46, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
37 14 0.30
38 12 0.26
39 3 0.07
40 1 0.02
41 16 0.35
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.29
Consensus pattern (41 bp):
GAGTCGATGAGACACTGGGTGACACACTGTTACTTCGGATA
Found at i:25126554 original size:85 final size:85
Alignment explanation
Indices: 25126411--25126589 Score: 331
Period size: 85 Copynumber: 2.1 Consensus size: 85
25126401 GGCCGGCCAT
*
25126411 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTAGGGGTAGTGCATTAT
25126476 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
25126496 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTAGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTAGGGGTAGTGCATTAT
*
25126561 TTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
25126581 GGGCATGGG
1 GAGCATGGG
25126590 CAATAAAATA
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 91 1.00
ACGTcount: A:0.38, C:0.08, G:0.27, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTAGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:25128831 original size:47 final size:47
Alignment explanation
Indices: 25128780--25129173 Score: 509
Period size: 47 Copynumber: 8.1 Consensus size: 47
25128770 TTAGGATTTT
* *
25128780 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
**
25128827 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCA
*
25128878 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
**
25128925 ATGTGATGAATGTGAACTCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCA
*
25128976 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
** *
25129023 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCATATGTGTGATAAGGCCGAATGGCCA
*
25129076 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * *
25129123 ATGTGATGAATGTGAACATGCATATATGAGGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTG-TGATAAGGCCGAATGGCCA
25129171 ATG
1 ATG
25129174 CGAAACGTGT
Statistics
Matches: 306, Mismatches: 26, Indels: 29
0.85 0.07 0.08
Matches are distributed among these distances:
47 153 0.50
48 20 0.07
49 4 0.01
51 86 0.28
52 1 0.00
53 42 0.14
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:25128882 original size:24 final size:24
Alignment explanation
Indices: 25128854--25128929 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
25128844 CCGTATATAT
25128854 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* * **
25128878 ATGTGATGA-ATGTG--AACAT-GCGT
1 ATGTG-TGATAAG-GCCGA-ATGGCCA
25128901 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
25128925 ATGTG
1 ATGTG
25128930 ATGAATGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 12 0.32
24 17 0.46
25 4 0.11
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (24 bp):
ATGTGTGATAAGGCCGAATGGCCA
Found at i:25128891 original size:98 final size:98
Alignment explanation
Indices: 25128780--25129139 Score: 666
Period size: 98 Copynumber: 3.7 Consensus size: 98
25128770 TTAGGATTTT
*
25128780 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
25128845 CGTATATATATGTGTGATAAGGCCGAATGGCCA
66 CGTATATATATGTGTGATAAGGCCGAATGGCCA
*
25128878 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACT
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
25128943 CGTATATATATGTGTGATAAGGCCGAATGGCCA
66 CGTATATATATGTGTGATAAGGCCGAATGGCCA
25128976 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
* *
25129041 TGTATATATATATGCGTGATAAGGCCGAATGGCCA
66 CG--TATATATATGTGTGATAAGGCCGAATGGCCA
25129076 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
25129140 ATGCATATAT
Statistics
Matches: 255, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
98 161 0.63
100 94 0.37
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (98 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
CGTATATATATGTGTGATAAGGCCGAATGGCCA
Found at i:25128980 original size:24 final size:24
Alignment explanation
Indices: 25128952--25129027 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
25128942 TCGTATATAT
25128952 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* * **
25128976 ATGTGATGA-ATGTG--AACAT-GCGT
1 ATGTG-TGATAAG-GCCGA-ATGGCCA
25128999 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
25129023 ATGTG
1 ATGTG
25129028 ATGAATGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 12 0.32
24 17 0.46
25 4 0.11
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (24 bp):
ATGTGTGATAAGGCCGAATGGCCA
Found at i:25129487 original size:37 final size:37
Alignment explanation
Indices: 25129382--25129490 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
25129372 GGAAATATAT
*
25129382 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
25129419 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * * *
25129456 TCCGGGTAAGACCCGATAACTTCATGAGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
25129491 CGTCTGAGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:25131275 original size:25 final size:25
Alignment explanation
Indices: 25131229--25131277 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
25131219 CCCTTATAAT
* * *
25131229 GTGAAAATAACCTTTTTGCCCCTAG
1 GTGAAAATAACCATTATACCCCTAG
*
25131254 GTGAAAATGACCATTATACCCCTA
1 GTGAAAATAACCATTATACCCCTA
25131278 AGGTTATTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (25 bp):
GTGAAAATAACCATTATACCCCTAG
Found at i:25131334 original size:10 final size:10
Alignment explanation
Indices: 25131319--25131357 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
25131309 TGCTTTTGTA
25131319 CATGATATGC
1 CATGATATGC
25131329 CATGATATGC
1 CATGATATGC
25131339 ACATGATATGC
1 -CATGATATGC
25131350 CATGATAT
1 CATGATAT
25131358 ATTCACATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (10 bp):
CATGATATGC
Found at i:25131343 original size:21 final size:21
Alignment explanation
Indices: 25131318--25131357 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
25131308 CTGCTTTTGT
25131318 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
25131339 ACATGATATGCCATGATAT
1 ACATGATATGCCATGATAT
25131358 ATTCACATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:25150061 original size:93 final size:93
Alignment explanation
Indices: 25149949--25150119 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
25149939 GCCCATAAGT
* *
25149949 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25150014 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
25150042 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
25150107 CGAGTTCGGATGC
66 CGAGCTCGGATGC
25150120 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:25150116 original size:46 final size:46
Alignment explanation
Indices: 25149941--25150116 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
25149931 TGTAACCCGC
* *
25149941 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
25149987 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
25150033 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
25150080 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
25150117 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:25153989 original size:46 final size:45
Alignment explanation
Indices: 25153847--25153989 Score: 120
Period size: 46 Copynumber: 3.1 Consensus size: 45
25153837 CCCGCCCATA
*
25153847 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTA-CATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATC-CT
* *
25153896 --CGAACTC-GACTCAACTCAACGAGTTCGGA---CATTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCA-AC-CATCC-T
25153938 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCATCCT
25153985 AGTGA
1 AGTGA
25153990 CATGTCACTT
Statistics
Matches: 78, Mismatches: 5, Indels: 25
0.72 0.05 0.23
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 6 0.08
43 1 0.01
45 6 0.08
46 48 0.62
47 7 0.09
48 5 0.06
49 1 0.01
50 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCCT
Found at i:25156917 original size:28 final size:28
Alignment explanation
Indices: 25156854--25156951 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
25156844 ATATTAAGTC
*
25156854 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
25156881 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
25156909 CGCACACTTAGTGCTGA-ACAATTTAAACC
1 CGCACACTTAGTGCT-ATATAA-TCAAACT
25156938 CGCACACTTAGTGC
1 CGCACACTTAGTGC
25156952 CAATCTCATG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 22 0.34
28 22 0.34
29 20 0.31
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:25164879 original size:28 final size:28
Alignment explanation
Indices: 25164816--25164913 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
25164806 ATATTAAGTC
*
25164816 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
25164843 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
25164871 CGCACACTTAGTGCTGA-ACAATTTAAACC
1 CGCACACTTAGTGCT-ATATAA-TCAAACT
25164900 CGCACACTTAGTGC
1 CGCACACTTAGTGC
25164914 CAATCTCATG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 22 0.34
28 22 0.34
29 20 0.31
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:25168515 original size:43 final size:44
Alignment explanation
Indices: 25168454--25168626 Score: 199
Period size: 43 Copynumber: 3.9 Consensus size: 44
25168444 TGTAACCCGC
*
25168454 CCATAAGTGAACTC-GACTCAACTCAACGAGCTCGGGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATTCGCAT
*
25168497 CCATAAGTGAACTC-GACTCAACTCAACGAGCTCGGATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATTCGC-A--T
* *** *
25168542 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG--ATTCGCAT
*
25168589 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAT
25168627 GCTCAACCAT
Statistics
Matches: 110, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
42 1 0.01
43 38 0.35
44 2 0.02
45 5 0.05
46 34 0.31
47 25 0.23
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (44 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATTCGCAT
Done.